| 0 |
8JH2 |
EM |
5.70 |
2023-11-29 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
127 |
RNA polymerase II elongation complex bound with Elf1, Spt4/5 and foreign DNA, stalled at SHL(-1) of the nucleosome |
Akatsu, M., Ehara, H., Kujirai, T., Fujita, R., Ito, T., Osumi, K., Ogasawara, M., Takizawa, Y., Sekine, S.I., Kurumizaka, H. |
10.1016/j.jbc.2023.105477 |
37981206 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2023 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, RNA polymerase subunit ABC27, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Transcription elongation factor SPT5 |
RNA polymerases, Transcription-associated, SPT4-SPT5 complex, Euchromatin-associated, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4QZ45, C4R0E6, C4R370 |
P04908, P06899, P62805, P84243 |
0.145 |
| 1 |
7ZSB |
EM |
6.60 |
2022-11-16 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601 |
219 |
Yeast RNA polymerase II transcription pre-initiation complex with the +1 nucleosome and NTP, complex C |
Wang, H., Schilbach, S., Ninov, M., Urlaub, H., Cramer, P. |
10.1038/s41594-022-00865-w |
36411341 |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
2022 |
General transcription and DNA repair factor IIH helicase subunit XPD, General transcription and DNA repair factor IIH subunit TFB1, General transcription and DNA repair factor IIH subunit TFB2, RNA polymerase II transcription factor B subunit 3, General transcription and DNA repair factor IIH subunit TFB4, General transcription and DNA repair factor IIH subunit TFB5, General transcription and DNA repair factor IIH subunit SSL1, General transcription and DNA repair factor IIH helicase subunit XPB, DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB2, DNA-directed RNA polymerase II subunit RPB3, DNA-directed RNA polymerase II subunit RPB4, DNA-directed RNA polymerases I, II, and III subunit RPABC1, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11, DNA-directed RNA polymerases I, II, and III subunit RPABC4, Transcription initiation factor IIB, TATA-box-binding protein, Transcription initiation factor IIF subunit alpha, Transcription initiation factor IIF subunit beta, Transcription initiation factor IIA large subunit, Transcription initiation factor IIA subunit 2, Transcription initiation factor IIE subunit alpha, Transcription initiation factor IIE subunit beta |
RNA polymerases, Transcription-associated, DNA repair, Euchromatin-associated, Transcription factors |
P06839, P32776, Q02939, Q03290, Q12004, Q3E7C1, Q04673, Q00578, P04050, P08518, P16370, P20433, P20434, P20435, P34087, P20436, P27999, P22139, P38902, P40422, P29055, P13393, P41895, P41896, P32773, P32774, P36100, P36145 |
P06897, P84233, P02281, P62799 |
0.277 |
| 2 |
7UND |
EM |
3.00 |
2022-10-19 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
131 |
Pol II-DSIF-SPT6-PAF1c-TFIIS-nucleosome complex (stalled at +38) |
Filipovski, M., Soffers, J.H.M., Vos, S.M., Farnung, L. |
10.1126/science.abo3851 |
35709268 |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
2022 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase II subunit RPB3, RPOL4c domain-containing protein, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, RPB8, RPB9, RPB10, RPB11, RNA polymerase II subunit K, Transcription elongation factor SPT6, Transcription elongation factor A protein 1, RNA polymerase-associated protein CTR9 homolog, RNA polymerase-associated protein RTF1 homolog, RNA polymerase-associated protein LEO1, RNA polymerase II-associated factor 1 homolog, WDR61, Parafibromin, Transcription elongation factor SPT4, Transcription elongation factor SPT5 |
RNA polymerases, Transcription-associated, Histone_ubiquitination_H2BK120_writer, Histone chaperones, Euchromatin-associated, Histone PTM writers, Histone_methylation_H3K4_writer, PAF1C, Transcription factors, Cell cycle |
A0A7M4DUC2, A0A4X1TVZ5, A0A481DF93, A0A8D1GCS3, A0A4X1VTX4, A0A4X1VEK9, A0A4X1VKG7, A0A4X1TRS6, Q7KZ85, P23193, Q6PD62, Q92541, Q8WVC0, Q8N7H5, Q9GZS3, Q6P1J9, P63272, O00267 |
Q6AZJ8, P84233, P02281, P62799 |
0.216 |
| 3 |
7NKX |
EM |
2.90 |
2021-08-25 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
139 |
RNA polymerase II-Spt4/5-nucleosome-Chd1 structure |
Farnung, L., Ochmann, M., Engeholm, M., Cramer, P. |
10.1038/s41594-021-00578-6 |
33846633 |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
2021 |
DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB2, DNA-directed RNA polymerase II subunit RPB3, DNA-directed RNA polymerase II subunit RPB4, DNA-directed RNA polymerases I, II, and III subunit RPABC1, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11, DNA-directed RNA polymerases I, II, and III subunit RPABC4, Chromo domain-containing protein 1, Chromatin elongation factor SPT4, Transcription elongation factor SPT5 |
RNA polymerases, Transcription-associated, SPT4-SPT5 complex, Centromere-associated, Euchromatin-associated, Chromatin remodelers, Heterochromatin-associated, Transcription factors, CHD |
P04050, P08518, P16370, P20433, P20434, P20435, P34087, P20436, P27999, P22139, P38902, P40422, P32657, P32914, P27692 |
P06897, P84233, P02281, P62799 |
0.444 |
| 4 |
6J4X |
EM |
4.30 |
2019-02-20 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
127 |
RNA polymerase II elongation complex bound with Elf1 and Spt4/5, stalled at SHL(-1) of the nucleosome (+1A) |
Ehara, H., Kujirai, T., Fujino, Y., Shirouzu, M., Kurumizaka, H., Sekine, S.I. |
10.1126/science.aav8912 |
30733384 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2019 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Protein that forms a complex with Spt4p |
RNA polymerases, Transcription-associated, SPT4-SPT5 complex, Euchromatin-associated, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4QZ45, C4R0E6, C4R370 |
P04908, P06899, P62805, P84243 |
0.233 |
| 5 |
9WMV |
EM |
4.66 |
2025-12-24 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
|
168 |
Co-transcriptional histone H3K36 methylation complex containing RNA polymerase II elongation complex, Set2, and the upstream nucleosome. (temp130, type B) |
Kujirai, T., Ehara, H., Ito, T., Henmi, M., Oya, E., Kobayashi, T., Sekine, S.I., Kurumizaka, H. |
10.1126/sciadv.aed1952 |
41604494 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2025 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, DNA-directed RNA polymerases I, II, and III subunit RPABC1, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Transcription elongation factor SPT5, Transcription elongation factor Spt6, Protein that interacts with Spt6p and copurifies with Spt5p and RNA polymerase II, Component of the Paf1p complex, RNAPII-associated chromatin remodeling Paf1 complex subunit, Histone-lysine N-methyltransferase, H3 lysine-36 specific, Leo1, RNAP II-associated protein, Constituent of Paf1 complex with RNA polymerase II, Paf1p, Hpr1p, Ctr9, Leo1, Rtf1 and Ccr4p |
RNA polymerases, Transcription-associated, SPT4-SPT5 complex, Euchromatin-associated, Histone PTM writers, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4QZ45, C4R0E6, C4R370, C4R7H2, C4R7L8, C4R6B2, F2QQ42, C4QY01, C4R3K1, C4R997, C4R1E6 |
P04908, P06899, P62805, P84243 |
0.168 |
| 6 |
9EGX |
EM |
2.90 |
2024-12-18 |
hexamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
159 |
RNA polymerase II-DSIF-SPT6-PAF1c-TFIIS-IWS1-hexasome, bp +27 |
Markert, J.W., Soffers, J.H., Farnung, L. |
10.1126/science.adn6319 |
39666822 |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
2024 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase II subunit RPB3, RNA polymerase Rpb4/RPC9 core domain-containing protein, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, RNA polymerase II subunit J, RNA polymerase II subunit K, Transcription elongation factor SPT6, Protein IWS1 homolog, RNA polymerase-associated protein CTR9 homolog, RNA polymerase-associated protein RTF1 homolog, Transcription elongation factor A protein 1, RNA polymerase-associated protein LEO1, RNA polymerase II-associated factor 1 homolog, WDR61, Parafibromin, Transcription elongation factor SPT4, Transcription elongation factor SPT5 |
RNA polymerases, Transcription-associated, Histone_ubiquitination_H2BK120_writer, Histone chaperones, Euchromatin-associated, Histone PTM writers, Histone_methylation_H3K4_writer, PAF1C, Transcription factors, Cell cycle |
A0A7M4DUC2, A0A0B8RVL1, I3LCH3, A0A8D0KES4, I3LSI7, A0A4X1VEK9, A0A4X1VKG7, A0A8D1AQR7, P60899, A0A8W4F9W9, A0A8D0TE17, A0A4X1TRS6, Q7KZ85, Q96ST2, Q6PD62, Q92541, P23193, Q8WVC0, Q8N7H5, Q9GZS3, Q6P1J9, P63272, O00267 |
P06897, P02281, A0A310TTQ1, P62799 |
0.25 |
| 7 |
8RBX |
EM |
4.10 |
2024-02-07 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601 |
161 |
Structure of Integrator-PP2A bound to a paused RNA polymerase II-DSIF-NELF-nucleosome complex |
Fianu, I., Ochmann, M., Walshe, J.L., Dybkov, O., Cruz, J.N., Urlaub, H., Cramer, P. |
10.1038/s41586-024-07269-4 |
38570683 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2024 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase II subunit RPB3, RNA polymerase II subunit D, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11-a, RNA polymerase II subunit K, Transcription elongation factor SPT5, Integrator complex subunit 1, Integrator complex subunit 2, Integrator complex subunit 4, Integrator complex subunit 5, Integrator complex subunit 6, Integrator complex subunit 7, Integrator complex subunit 8, Integrator complex subunit 9, Integrator complex subunit 10, Integrator complex subunit 11, Integrator complex subunit 13, Integrator complex subunit 14, Integrator complex subunit 15, Serine/threonine-protein phosphatase 2A 65 kDa regulatory subunit A alpha isoform, Serine/threonine-protein phosphatase 2A catalytic subunit alpha isoform, DSS1, Negative elongation factor A, NELF-B,Negative elongation factor B,Negative elongation factor B,Negative elongation factor B,Negative elongation factor B,Negative elongation factor B, Negative elongation factor C/D |
RNA polymerases, Transcription-associated, Euchromatin-associated, Transcription factors, Cell cycle |
A0A8D1DPV6, Q9H0H0, I3LCH3, A0A287ADR4, I3LSI7, A0A4X1VEK9, A0A4X1VKG7, I3LCB2, P60899, A0A4X1VYD0, F1RKE4, A0A8D0JYF1, O00267, Q8N201, Q96HW7, Q6P9B9, Q9UL03, Q9NVH2, Q75QN2, Q9NV88, Q9NVR2, Q5TA45, Q9NVM9, Q96SY0, Q96N11, P30153, P67775, Q9H3P2, Q8WX92, Q8IXH7 |
P0C0S8, P06899, P62805, Q6NXT2 |
0.037 |
| 8 |
7XSE |
EM |
3.60 |
2022-09-07 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
134 |
RNA polymerase II elongation complex transcribing a nucleosome (EC42) |
Ehara, H., Kujirai, T., Shirouzu, M., Kurumizaka, H., Sekine, S.I. |
10.1126/science.abp9466 |
35981082 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2022 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, DNA-directed RNA polymerases I, II, and III subunit RPABC1, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Transcription elongation factor SPT5, Transcription elongation factor Spt6, Protein that interacts with Spt6p and copurifies with Spt5p and RNA polymerase II, Component of the Paf1p complex, RNAPII-associated chromatin remodeling Paf1 complex subunit, Leo1, RNAP II-associated protein, Constituent of Paf1 complex with RNA polymerase II, Paf1p, Hpr1p, Ctr9, Leo1, Rtf1 and Ccr4p |
RNA polymerases, Transcription-associated, SPT4-SPT5 complex, Euchromatin-associated, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4QZ45, C4R0E6, C4R370, C4R7H2, C4R7L8, C4R6B2, F2QQ42, C4R3K1, C4R997, C4R1E6 |
P04908, P06899, P62805, P84243 |
0.238 |
| 9 |
6J50 |
EM |
4.70 |
2019-02-20 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
128 |
RNA polymerase II elongation complex bound with Spt4/5 and foreign DNA, stalled at SHL(-1) of the nucleosome (tilted conformation) |
Ehara, H., Kujirai, T., Fujino, Y., Shirouzu, M., Kurumizaka, H., Sekine, S.I. |
10.1126/science.aav8912 |
30733384 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2019 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor SPT4, Protein that forms a complex with Spt4p |
RNA polymerases, Transcription-associated, SPT4-SPT5 complex, Euchromatin-associated, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4R0E6, C4R370 |
P04908, P06899, P62805, P84243 |
0.195 |
| 10 |
6J4W |
EM |
7.90 |
2019-02-20 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
171 |
RNA polymerase II elongation complex bound with Elf1 and Spt4/5, stalled at SHL(-5) of the nucleosome |
Ehara, H., Kujirai, T., Fujino, Y., Shirouzu, M., Kurumizaka, H., Sekine, S.I. |
10.1126/science.aav8912 |
30733384 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2019 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Spt5 |
RNA polymerases, Transcription-associated, SPT4-SPT5 complex, Euchromatin-associated, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, F2QTN1, C4R3Z5, F2QMI1, C4QZ45, C4R0E6, C4R370 |
P04908, P06899, P62805, P84243 |
0.123 |
| 11 |
6INQ |
EM |
6.90 |
2019-04-03 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
125 |
RNA polymerase II elongation complex stalled at SHL(-1) of the nucleosome, with foreign DNA (+1 position) |
Kujirai, T., Ehara, H., Fujino, Y., Shirouzu, M., Sekine, S., Kurumizaka, H. |
10.1126/science.aau9904 |
30287617 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2019 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha |
RNA polymerases, Euchromatin-associated, Transcription-associated |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1 |
P04908, P06899, P62805, P84243 |
0.149 |
| 12 |
6A5P |
EM |
7.00 |
2018-10-03 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
168 |
RNA polymerase II elongation complex stalled at SHL(-5) of the nucleosome |
Kujirai, T., Ehara, H., Fujino, Y., Shirouzu, M., Sekine, S.I., Kurumizaka, H. |
10.1126/science.aau9904 |
30287617 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2018 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha |
RNA polymerases, Euchromatin-associated, Transcription-associated |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1 |
P04908, P06899, P62805, P84243 |
0.138 |
| 13 |
9EH1 |
EM |
3.10 |
2024-12-18 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601 |
170 |
RNA polymerase II-DSIF-SPT6-PAF1c-TFIIS-IWS1-SETD2-nucleosome, 20 bp upstream |
Markert, J.W., Soffers, J.H., Farnung, L. |
10.1126/science.adn6319 |
39666822 |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
2024 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase II subunit RPB3, RNA polymerase Rpb4/RPC9 core domain-containing protein, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerase I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11-a, RNA polymerase II subunit K, Transcription elongation factor SPT6, Protein IWS1 homolog, RNA polymerase-associated protein CTR9 homolog, RNA polymerase-associated protein RTF1 homolog, Transcription elongation factor A protein 1, RNA polymerase-associated protein LEO1, RNA polymerase II-associated factor 1 homolog, Superkiller complex protein 8, N-terminally processed, Parafibromin, Transcription elongation factor SPT4, Transcription elongation factor SPT5, Histone-lysine N-methyltransferase SETD2 |
RNA polymerases, Transcription-associated, Histone_ubiquitination_H2BK120_writer, Euchromatin-associated, Histone PTM writers, Histone_methylation_H3K4_writer, Histone_methylation_H3K36_writer, PAF1C, Transcription factors |
A0A8D1DPV6, A0A0B8RVL1, I3LCH3, A0A8D0KES4, I3LSI7, A0A4X1VEK9, A0A4X1VKG7, I3LCB2, P60899, A0A8W4F9W9, F1RKE4, A0A4X1TRS6, Q96ST2, Q6PD62, Q92541, B7Z4W0, Q9GZS3, A0A2R8YHB3, P63272, Q9BYW2 |
P06897, P02281, A0A310TTQ1, P62799 |
0.237 |
| 14 |
8JH4 |
EM |
3.20 |
2023-11-29 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
178 |
RNA polymerase II elongation complex containing 60 bp upstream DNA loop, stalled at SHL(-1) of the nucleosome |
Akatsu, M., Ehara, H., Kujirai, T., Fujita, R., Ito, T., Osumi, K., Ogasawara, M., Takizawa, Y., Sekine, S.I., Kurumizaka, H. |
10.1016/j.jbc.2023.105477 |
37981206 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2023 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, DNA-directed RNA polymerases I, II, and III subunit RPABC1, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha |
RNA polymerases, Euchromatin-associated, Transcription-associated |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1 |
P04908, P06899, P62805, P84243 |
0.313 |
| 15 |
6A5O |
EM |
9.90 |
2018-10-03 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
178 |
RNA polymerase II elongation complex stalled at SHL(-6) of the nucleosome |
Kujirai, T., Ehara, H., Fujino, Y., Shirouzu, M., Sekine, S.I., Kurumizaka, H. |
10.1126/science.aau9904 |
30287617 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2018 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha |
RNA polymerases, Euchromatin-associated, Transcription-associated |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1 |
P04908, P06899, P62805, P84243 |
0.083 |
| 16 |
8H0V |
EM |
3.80 |
2022-12-07 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
H1.2 |
601 |
201 |
RNA polymerase II transcribing a chromatosome (type I) |
Hirano, R., Ehara, H., Kujirai, T., Uejima, T., Takizawa, Y., Sekine, S.I., Kurumizaka, H. |
10.1038/s41467-022-35003-z |
36435862 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
2022 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, DNA-directed RNA polymerases I, II, and III subunit RPABC1, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha |
RNA polymerases, Euchromatin-associated, Transcription-associated |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1 |
P16403, P06899, P04908, P68431, P62805 |
0.228 |
| 17 |
8JH3 |
EM |
3.70 |
2023-11-29 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
159 |
RNA polymerase II elongation complex containing 40 bp upstream DNA loop, stalled at SHL(-1) of the nucleosome |
Akatsu, M., Ehara, H., Kujirai, T., Fujita, R., Ito, T., Osumi, K., Ogasawara, M., Takizawa, Y., Sekine, S.I., Kurumizaka, H. |
10.1016/j.jbc.2023.105477 |
37981206 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2023 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, DNA-directed RNA polymerases I, II, and III subunit RPABC1, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha |
RNA polymerases, Euchromatin-associated, Transcription-associated |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1 |
P04908, P06899, P62805, P84243 |
0.255 |
| 18 |
9S0U |
EM |
6.72 |
2025-09-24 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601 |
175 |
State 3 MAP 3 RNA Pol II activated elongation complex with SETD2 bound to distal upstream H3 |
Walshe, J.L., Ochmann, M., Neef, U., Dybkov, O., Dienemann, C., Oberthur, C., Zheenbekova, A., Urlaub, H., Cramer, P. |
10.1038/s41467-025-65439-y |
41162378 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2025 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase II subunit RPB3, RNA polymerase II subunit D, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11-a, RNA polymerase II subunit K, Transcription elongation factor SPT6, Histone-lysine N-methyltransferase SETD2, RNA polymerase-associated protein CTR9 homolog, RNA polymerase-associated protein RTF1 homolog, Transcription elongation factor A protein 1, RNA polymerase-associated protein LEO1, RNA polymerase II-associated factor 1 homolog, WD repeat-containing protein 61, Parafibromin, Transcription elongation factor SPT4, Transcription elongation factor SPT5, FACT complex subunit SPT16 |
RNA polymerases, DNA replication, Transcription-associated, FACT, Histone_ubiquitination_H2BK120_writer, Histone chaperones, DNA repair, Euchromatin-associated, Histone PTM writers, Histone_methylation_H3K4_writer, Histone_methylation_H3K36_writer, PAF1C, Transcription factors, Cell cycle |
A0A8D1DPV6, I3LGP4, I3LCH3, A0A287ADR4, I3LSI7, A0A8D1KNW4, A0A4X1VKG7, I3LCB2, P60899, A0A4X1VYD0, F1RKE4, A0A8D0JYF1, Q7KZ85, Q9BYW2, Q6PD62, Q92541, P23193, Q8WVC0, Q8N7H5, Q9GZS3, Q6P1J9, Q4R941, O00267, Q9Y5B9 |
O60814, Q71DI3, P04908, P62805 |
0.108 |
| 19 |
8HE5 |
EM |
6.95 |
2023-07-05 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
154 |
RNA polymerase II elongation complex bound with Rad26 and Elf1, stalled at SHL(-3.5) of the nucleosome |
Osumi, K., Kujirai, T., Ehara, H., Ogasawara, M., Kinoshita, C., Saotome, M., Kagawa, W., Sekine, S.I., Takizawa, Y., Kurumizaka, H. |
10.1016/j.jmb.2023.168130 |
37120012 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2023 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, DNA-directed RNA polymerases I, II, and III subunit RPABC1, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, DNA repair protein |
RNA polymerases, Transcription-associated, DNA repair, Euchromatin-associated, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, C4QY79, C4R009, C4R3Z5, F2QMI1, C4QZ45, C4R198 |
P68431, P06899, P62805, P04908 |
0.105 |
| 20 |
8BZ1 |
EM |
3.80 |
2023-05-03 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601 |
198 |
RNA polymerase II core pre-initiation complex with the proximal +1 nucleosome (cPIC-Nuc10W) |
Abril-Garrido, J., Dienemann, C., Grabbe, F., Velychko, T., Lidschreiber, M., Wang, H., Cramer, P. |
10.1016/j.molcel.2023.04.011 |
37148879 |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
2023 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase II subunit RPB3, RNA polymerase II subunit D, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11-a, RNA polymerase II subunit K, Transcription initiation factor IIB, TATA-box-binding protein, General transcription factor IIF subunit 1, General transcription factor IIF subunit 2, Transcription initiation factor IIA subunit 1, Transcription initiation factor IIA subunit 2 |
RNA polymerases, Transcription factors, Euchromatin-associated, Transcription-associated |
A0A8D1DPV6, I3LGP4, I3LCH3, A0A287ADR4, I3LSI7, A0A4X1VEK9, I3LJZ9, I3LCB2, P60899, A0A4X1VYD0, F1RKE4, A0A4X1TRS6, Q00403, P20226, P35269, P13984, P52655, P52657 |
P06897, P84233, P02281, P62799 |
0.244 |
| 21 |
6A5T |
EM |
6.70 |
2018-10-03 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
126 |
RNA polymerase II elongation complex stalled at SHL(-1) of the nucleosome |
Kujirai, T., Ehara, H., Fujino, Y., Shirouzu, M., Sekine, S.I., Kurumizaka, H. |
10.1126/science.aau9904 |
30287617 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2018 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha |
RNA polymerases, Euchromatin-associated, Transcription-associated |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1 |
P04908, P06899, P62805, P84243 |
0.151 |
| 22 |
9II7 |
EM |
3.50 |
2025-06-11 |
hexamer |
1 |
H3.3 |
canonical_H4 |
H2A.B |
canonical_H2B |
|
601_modified |
114 |
RNA polymerase II elongation complex stalled at SHL(-1) of the nucleosome containing histone variant H2A.B |
Akatsu, M., Hirano, R., Kujirai, T., Ogasawara, M., Ehara, H., Sekine, S.I., Takizawa, Y., Kurumizaka, H. |
10.1038/s44318-025-00473-6 |
40447801 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2025 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, DNA-directed RNA polymerases I, II, and III subunit RPABC1, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Transcription elongation factor SPT5 |
RNA polymerases, Transcription-associated, SPT4-SPT5 complex, Euchromatin-associated, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, C4QY79, C4R009, C4R3Z5, C4QWA8, C4QZ45, C4R0E6, C4R370 |
P06899, P0C5Z0, P62805, P84243 |
0.285 |
| 23 |
9EGZ |
EM |
2.90 |
2024-12-18 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
159 |
RNA polymerase II-DSIF-SPT6-PAF1c-TFIIS-IWS1-SETD2-nucleosome, bp +27 |
Markert, J.W., Soffers, J.H., Farnung, L. |
10.1126/science.adn6319 |
39666822 |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
2024 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase II subunit RPB3, RNA polymerase Rpb4/RPC9 core domain-containing protein, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, RNA polymerase II subunit J, RNA polymerase II subunit K, Transcription elongation factor SPT6, Protein IWS1 homolog, RNA polymerase-associated protein CTR9 homolog, RNA polymerase-associated protein RTF1 homolog, Transcription elongation factor A protein 1, RNA polymerase-associated protein LEO1, RNA polymerase II-associated factor 1 homolog, WDR61, Parafibromin, Transcription elongation factor SPT4, Transcription elongation factor SPT5, Histone-lysine N-methyltransferase SETD2 |
RNA polymerases, Transcription-associated, Histone_ubiquitination_H2BK120_writer, Histone chaperones, Euchromatin-associated, Histone PTM writers, Histone_methylation_H3K4_writer, Histone_methylation_H3K36_writer, PAF1C, Transcription factors, Cell cycle |
A0A7M4DUC2, A0A0B8RVL1, I3LCH3, A0A8D0KES4, I3LSI7, A0A4X1VEK9, A0A4X1VKG7, A0A8D1AQR7, P60899, A0A8W4F9W9, A0A8D0TE17, A0A4X1TRS6, Q7KZ85, Q96ST2, Q6PD62, Q92541, P23193, Q8WVC0, Q8N7H5, Q9GZS3, Q6P1J9, P63272, O00267, Q9BYW2 |
P06897, P02281, A0A310TTQ1, P62799 |
0.261 |
| 24 |
8BVW |
EM |
4.00 |
2023-05-03 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601 |
206 |
RNA polymerase II pre-initiation complex with the distal +1 nucleosome (PIC-Nuc18W) |
Abril-Garrido, J., Dienemann, C., Grabbe, F., Velychko, T., Lidschreiber, M., Wang, H., Cramer, P. |
10.1016/j.molcel.2023.04.011 |
37148879 |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
2023 |
General transcription and DNA repair factor IIH helicase subunit XPB, TFIIH basal transcription factor complex helicase XPD subunit, General transcription factor IIH subunit 1, General transcription factor IIH subunit 4, General transcription factor IIH subunit 2, General transcription factor IIH subunit 3, General transcription factor IIH subunit 5, CDK-activating kinase assembly factor MAT1, Cyclin-dependent kinase 7, Cyclin-H, DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase II subunit RPB3, RNA polymerase II subunit D, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11-a, RNA polymerase II subunit K, Transcription initiation factor IIB, TATA-box-binding protein, General transcription factor IIF subunit 1, General transcription factor IIF subunit 2, Transcription initiation factor IIA subunit 1, Transcription initiation factor IIA subunit 2, General transcription factor IIE subunit 1, Transcription initiation factor IIE subunit beta |
RNA polymerases, Transcription-associated, DNA repair, Euchromatin-associated, Transcription factors, Cell cycle |
P19447, P18074, P32780, Q92759, Q13888, Q13889, Q6ZYL4, P51948, P50613, P51946, A0A7M4DUC2, I3LGP4, I3LCH3, A0A287ADR4, I3LSI7, A0A4X1VEK9, A0A4X1VKG7, I3LCB2, P60899, A0A4X1VYD0, F1RKE4, A0A4X1TRS6, Q00403, P20226, P35269, P13984, P52655, P52657, P29083, P29084 |
P06897, P84233, P02281, P62799 |
0.234 |
| 25 |
7ZS9 |
EM |
3.10 |
2022-11-16 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601 |
209 |
Yeast RNA polymerase II transcription pre-initiation complex with the +1 nucleosome (complex A) |
Wang, H., Schilbach, S., Ninov, M., Urlaub, H., Cramer, P. |
10.1038/s41594-022-00865-w |
36411341 |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
2022 |
General transcription and DNA repair factor IIH helicase subunit XPD, General transcription and DNA repair factor IIH subunit TFB1, General transcription and DNA repair factor IIH subunit TFB2, RNA polymerase II transcription factor B subunit 3, General transcription and DNA repair factor IIH subunit TFB4, General transcription and DNA repair factor IIH subunit TFB5, General transcription and DNA repair factor IIH subunit SSL1, General transcription and DNA repair factor IIH helicase subunit XPB, DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB2, DNA-directed RNA polymerase II subunit RPB3, DNA-directed RNA polymerase II subunit RPB4, DNA-directed RNA polymerases I, II, and III subunit RPABC1, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11, DNA-directed RNA polymerases I, II, and III subunit RPABC4, Transcription initiation factor IIB, TATA-box-binding protein, Transcription initiation factor IIF subunit alpha, Transcription initiation factor IIF subunit beta, Transcription initiation factor IIA large subunit, Transcription initiation factor IIA subunit 2, Transcription initiation factor IIE subunit alpha, Transcription initiation factor IIE subunit beta |
RNA polymerases, Transcription-associated, DNA repair, Euchromatin-associated, Transcription factors |
P06839, P32776, Q02939, Q03290, Q12004, Q3E7C1, Q04673, Q00578, P04050, P08518, P16370, P20433, P20434, P20435, P34087, P20436, P27999, P22139, P38902, P40422, P29055, P13393, P41895, P41896, P32773, P32774, P36100, P36145 |
P06897, P84233, P02281, P62799 |
0.34 |
| 26 |
7XSZ |
EM |
3.40 |
2022-09-07 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
|
155 |
RNA polymerase II elongation complex transcribing a nucleosome (EC115) |
Ehara, H., Kujirai, T., Shirouzu, M., Kurumizaka, H., Sekine, S.I. |
10.1126/science.abp9466 |
35981082 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2022 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, DNA-directed RNA polymerases I, II, and III subunit RPABC1, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Transcription elongation factor SPT5, Transcription elongation factor Spt6, Protein that interacts with Spt6p and copurifies with Spt5p and RNA polymerase II, Component of the Paf1p complex, RNAPII-associated chromatin remodeling Paf1 complex subunit, Leo1, RNAP II-associated protein, Constituent of Paf1 complex with RNA polymerase II, Paf1p, Hpr1p, Ctr9, Leo1, Rtf1 and Ccr4p |
RNA polymerases, Transcription-associated, SPT4-SPT5 complex, Euchromatin-associated, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4QZ45, C4R0E6, C4R370, C4R7H2, C4R7L8, C4R6B2, F2QQ42, C4R3K1, C4R997, C4R1E6 |
P04908, P06899, P62805, P84243 |
0.248 |
| 27 |
7UNC |
EM |
3.00 |
2022-10-19 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
155 |
Pol II-DSIF-SPT6-PAF1c-TFIIS complex with rewrapped nucleosome |
Filipovski, M., Soffers, J.H.M., Vos, S.M., Farnung, L. |
10.1126/science.abo3851 |
35709268 |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
2022 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase II subunit RPB3, RPOL4c domain-containing protein, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, RPB8, RPB9, RPB10, RPB11, RNA polymerase II subunit K, Transcription elongation factor SPT6, Transcription elongation factor A protein 1, RNA polymerase-associated protein CTR9 homolog, RNA polymerase-associated protein RTF1 homolog, RNA polymerase-associated protein LEO1, RNA polymerase II-associated factor 1 homolog, WDR61, Parafibromin, Transcription elongation factor SPT5 |
RNA polymerases, Transcription-associated, Histone_ubiquitination_H2BK120_writer, Histone chaperones, Euchromatin-associated, Histone PTM writers, Histone_methylation_H3K4_writer, PAF1C, Transcription factors, Cell cycle |
A0A7M4DUC2, A0A4X1TVZ5, A0A481DF93, A0A8D1GCS3, A0A4X1VTX4, A0A4X1VEK9, A0A4X1VKG7, A0A4X1TRS6, Q7KZ85, P23193, Q6PD62, Q92541, Q8WVC0, Q8N7H5, Q9GZS3, Q6P1J9, O00267 |
Q6AZJ8, P84233, P02281, P62799 |
0.344 |
| 28 |
7ZSA |
EM |
4.00 |
2022-11-16 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601 |
209 |
Yeast RNA polymerase II transcription pre-initiation complex with the +1 nucleosome and NTP (complex B) |
Wang, H., Schilbach, S., Ninov, M., Urlaub, H., Cramer, P. |
10.1038/s41594-022-00865-w |
36411341 |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
2022 |
General transcription and DNA repair factor IIH helicase subunit XPD, General transcription and DNA repair factor IIH subunit TFB1, General transcription and DNA repair factor IIH subunit TFB2, RNA polymerase II transcription factor B subunit 3, General transcription and DNA repair factor IIH subunit TFB4, General transcription and DNA repair factor IIH subunit TFB5, General transcription and DNA repair factor IIH subunit SSL1, General transcription and DNA repair factor IIH helicase subunit XPB, DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB2, DNA-directed RNA polymerase II subunit RPB3, DNA-directed RNA polymerase II subunit RPB4, DNA-directed RNA polymerases I, II, and III subunit RPABC1, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11, DNA-directed RNA polymerases I, II, and III subunit RPABC4, Transcription initiation factor IIB, TATA-box-binding protein, Transcription initiation factor IIF subunit alpha, Transcription initiation factor IIF subunit beta, Transcription initiation factor IIA large subunit, Transcription initiation factor IIA subunit 2, Transcription initiation factor IIE subunit alpha, Transcription initiation factor IIE subunit beta |
RNA polymerases, Transcription-associated, DNA repair, Euchromatin-associated, Transcription factors |
P06839, P32776, Q02939, Q03290, Q12004, Q3E7C1, Q04673, Q00578, P04050, P08518, P16370, P20433, P20434, P20435, P34087, P20436, P27999, P22139, P38902, P40422, P29055, P13393, P41895, P41896, P32773, P32774, P36100, P36145 |
P06897, P84233, P02281, P62799 |
0.342 |
| 29 |
7XTD |
EM |
3.90 |
2022-09-07 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
123 |
RNA polymerase II elongation complex transcribing a nucleosome (EC58oct) |
Ehara, H., Kujirai, T., Shirouzu, M., Kurumizaka, H., Sekine, S.I. |
10.1126/science.abp9466 |
35981082 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2022 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, DNA-directed RNA polymerases I, II, and III subunit RPABC1, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Transcription elongation factor SPT5, FACT complex subunit, FACT complex subunit POB3, Transcription elongation factor Spt6, Protein that interacts with Spt6p and copurifies with Spt5p and RNA polymerase II, Component of the Paf1p complex, RNAPII-associated chromatin remodeling Paf1 complex subunit, Leo1, RNAP II-associated protein, Constituent of Paf1 complex with RNA polymerase II, Paf1p, Hpr1p, Ctr9, Leo1, Rtf1 and Ccr4p |
RNA polymerases, DNA replication, Transcription-associated, SPT4-SPT5 complex, Histone chaperones, Euchromatin-associated, DNA repair, FACT, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4QZ45, C4R0E6, C4R370, C4QYQ8, F2QNN8, C4R7H2, C4R7L8, C4R6B2, F2QQ42, C4R3K1, C4R997, C4R1E6 |
P04908, P06899, P62805, P84243 |
0.221 |
| 30 |
8XRJ |
EM |
3.60 |
2025-05-07 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
|
147 |
RNA polymerase II elongation complex with upstream nucleosome extracted from human nuclei |
Kujirai, T., Kato, J., Yamamoto, K., Hirai, S., Fujii, T., Maehara, K., Harada, A., Negishi, L., Ogasawara, M., Yamaguchi, Y., Ohkawa, Y., Takizawa, Y., Kurumizaka, H. |
10.1038/s41467-025-59580-x |
40436841 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2025 |
DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB2, DNA-directed RNA polymerase II subunit RPB3, DNA-directed RNA polymerase II subunit RPB4, DNA-directed RNA polymerases I, II, and III subunit RPABC1, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11-a, DNA-directed RNA polymerases I, II, and III subunit RPABC4 |
RNA polymerases, Transcription-associated |
P24928, P30876, P19387, O15514, P19388, P61218, P62487, P52434, P36954, P62875, P52435, P53803 |
P68431, P06899, P62805, P04908 |
0.31 |
| 31 |
9WMU |
EM |
4.28 |
2025-12-24 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
|
171 |
Co-transcriptional histone H3K36 methylation complex containing RNA polymerase II elongation complex, Set2, and the upstream nucleosome. (temp130, type A) |
Kujirai, T., Ehara, H., Ito, T., Henmi, M., Oya, E., Kobayashi, T., Sekine, S.I., Kurumizaka, H. |
10.1126/sciadv.aed1952 |
41604494 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2025 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, DNA-directed RNA polymerases I, II, and III subunit RPABC1, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Transcription elongation factor SPT5, Transcription elongation factor Spt6, Protein that interacts with Spt6p and copurifies with Spt5p and RNA polymerase II, Component of the Paf1p complex, RNAPII-associated chromatin remodeling Paf1 complex subunit, Histone-lysine N-methyltransferase, H3 lysine-36 specific, Leo1, RNAP II-associated protein, Constituent of Paf1 complex with RNA polymerase II, Paf1p, Hpr1p, Ctr9, Leo1, Rtf1 and Ccr4p |
RNA polymerases, Transcription-associated, SPT4-SPT5 complex, Euchromatin-associated, Histone PTM writers, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4QZ45, C4R0E6, C4R370, C4R7H2, C4R7L8, C4R6B2, F2QQ42, C4QY01, C4R3K1, C4R997, C4R1E6 |
P04908, P06899, P62805, P84243 |
0.189 |
| 32 |
9WMS |
EM |
3.40 |
2025-12-24 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
|
118 |
Co-transcriptional histone H3K36 methylation complex containing RNA polymerase II elongation complex, Set2, and the upstream nucleosome. (temp115, type B) |
Kujirai, T., Ehara, H., Ito, T., Henmi, M., Oya, E., Kobayashi, T., Sekine, S.I., Kurumizaka, H. |
10.1126/sciadv.aed1952 |
41604494 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2025 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, DNA-directed RNA polymerases I, II, and III subunit RPABC1, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Transcription elongation factor SPT5, Transcription elongation factor Spt6, Protein that interacts with Spt6p and copurifies with Spt5p and RNA polymerase II, Component of the Paf1p complex, RNAPII-associated chromatin remodeling Paf1 complex subunit, Histone-lysine N-methyltransferase, H3 lysine-36 specific, Leo1, RNAP II-associated protein, Constituent of Paf1 complex with RNA polymerase II, Paf1p, Hpr1p, Ctr9, Leo1, Rtf1 and Ccr4p |
RNA polymerases, Transcription-associated, SPT4-SPT5 complex, Euchromatin-associated, Histone PTM writers, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4QZ45, C4R0E6, C4R370, C4R7H2, C4R7L8, C4R6B2, F2QQ42, C4QY01, C4R3K1, C4R997, C4R1E6 |
P04908, P06899, P62805, P84243 |
0.227 |
| 33 |
8H0W |
EM |
4.60 |
2022-12-07 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
H1.2 |
601 |
196 |
RNA polymerase II transcribing a chromatosome (type II) |
Hirano, R., Ehara, H., Kujirai, T., Uejima, T., Takizawa, Y., Sekine, S.I., Kurumizaka, H. |
10.1038/s41467-022-35003-z |
36435862 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
2022 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, DNA-directed RNA polymerases I, II, and III subunit RPABC1, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha |
RNA polymerases, Euchromatin-associated, Transcription-associated |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1 |
P16403, P06899, P04908, P68431, P62805 |
0.16 |
| 34 |
8BYQ |
EM |
4.10 |
2023-05-03 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601 |
198 |
RNA polymerase II pre-initiation complex with the proximal +1 nucleosome (PIC-Nuc10W) |
Abril-Garrido, J., Dienemann, C., Grabbe, F., Velychko, T., Lidschreiber, M., Wang, H., Cramer, P. |
10.1016/j.molcel.2023.04.011 |
37148879 |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
2023 |
General transcription and DNA repair factor IIH helicase subunit XPB, TFIIH basal transcription factor complex helicase XPD subunit, General transcription factor IIH subunit 1, General transcription factor IIH subunit 4, General transcription factor IIH subunit 2, General transcription factor IIH subunit 3, General transcription factor IIH subunit 5, CDK-activating kinase assembly factor MAT1, Cyclin-dependent kinase 7, Cyclin-H, DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase II subunit RPB3, RNA polymerase II subunit D, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11-a, RNA polymerase II subunit K, Transcription initiation factor IIB, TATA-box-binding protein, General transcription factor IIF subunit 1, General transcription factor IIF subunit 2, Transcription initiation factor IIA subunit 1, Transcription initiation factor IIA subunit 2, General transcription factor IIE subunit 1, Transcription initiation factor IIE subunit beta |
RNA polymerases, Transcription-associated, DNA repair, Euchromatin-associated, Transcription factors, Cell cycle |
P19447, P18074, P32780, Q92759, Q13888, Q13889, Q6ZYL4, P51948, P50613, P51946, A0A7M4DUC2, I3LGP4, I3LCH3, A0A287ADR4, I3LSI7, A0A4X1VEK9, A0A4X1VKG7, I3LCB2, P60899, A0A4X1VYD0, F1RKE4, A0A4X1TRS6, Q00403, P20226, P35269, P13984, P52655, P52657, P29083, P29084 |
P06897, P84233, P02281, P62799 |
0.187 |
| 35 |
9RZE |
EM |
8.53 |
2026-03-18 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601 |
181 |
State 2 MAP 3 RNA Pol II activated elongation complex with SETD2 bound to proximal upstream H3 |
Walshe, J.L., Ochmann, M., Neef, U., Dybkov, O., Dienemann, C., Oberthur, C., Zheenbekova, A., Urlaub, H., Cramer, P. |
10.1038/s41467-025-65439-y |
41162378 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2026 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase II subunit RPB3, RNA polymerase II subunit D, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11-a, RNA polymerase II subunit K, Transcription elongation factor SPT6, Histone-lysine N-methyltransferase SETD2, RNA polymerase-associated protein CTR9 homolog, RNA polymerase-associated protein RTF1 homolog, RNA polymerase-associated protein LEO1, RNA polymerase II-associated factor 1 homolog, WD repeat-containing protein 61, Parafibromin, Transcription elongation factor SPT4, Transcription elongation factor SPT5, FACT complex subunit SPT16 |
RNA polymerases, DNA replication, Transcription-associated, FACT, Histone_ubiquitination_H2BK120_writer, Histone chaperones, DNA repair, Euchromatin-associated, Histone PTM writers, Histone_methylation_H3K4_writer, Histone_methylation_H3K36_writer, PAF1C, Transcription factors, Cell cycle |
A0A8D1DPV6, I3LGP4, I3LCH3, A0A287ADR4, I3LSI7, A0A8D1KNW4, A0A4X1VKG7, I3LCB2, P60899, A0A4X1VYD0, F1RKE4, A0A8D0JYF1, Q7KZ85, Q9BYW2, Q6PD62, Q92541, Q8WVC0, Q8N7H5, Q9GZS3, Q6P1J9, Q4R941, O00267, Q9Y5B9 |
O60814, Q71DI3, P04908, P62805 |
0.068 |
| 36 |
9J0P |
EM |
3.30 |
2025-02-05 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
191 |
Arrested elongation complex of mammalian RNA polymerase II with nucleosome (AEC2-nuc) |
Naganuma, M., Kujirai, T., Ehara, H., Uejima, T., Ito, T., Goto, M., Aoki, M., Henmi, M., Miyamoto-Kohno, S., Shirouzu, M., Kurumizaka, H., Sekine, S.I. |
10.1126/sciadv.adu0577 |
40043114 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2025 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase II subunit RPB3, DNA-directed RNA polymerase II subunit RPB4, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11-a, RPB12, Negative elongation factor A, Negative elongation factor B, Negative elongation factor C/D, Negative elongation factor E, Transcription elongation factor SPT4, Transcription elongation factor SPT5 |
RNA polymerases, Transcription factors, Euchromatin-associated, Transcription-associated |
A0A8D1DPV6, A0A0B8RVL1, I3LCH3, A0A481BYI6, I3LSI7, A0A4X1VEK9, A0A4X1VKG7, I3LCB2, P60899, A0A8W4F9W9, F1RKE4, A0A4X1TRS6, Q9H3P2, Q8WX92, Q8IXH7, P18615, P63272, O00267 |
P04908, P06899, P62805, P84243 |
0.311 |
| 37 |
8XVS |
EM |
4.10 |
2025-05-07 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
163 |
RNA polymerase II elongation complex with downstream nucleosome extracted from human nuclei |
Kujirai, T., Kato, J., Yamamoto, K., Hirai, S., Fujii, T., Maehara, K., Harada, A., Negishi, L., Ogasawara, M., Yamaguchi, Y., Ohkawa, Y., Takizawa, Y., Kurumizaka, H. |
10.1038/s41467-025-59580-x |
40436841 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2025 |
DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB2, DNA-directed RNA polymerase II subunit RPB3, DNA-directed RNA polymerase II subunit RPB4, DNA-directed RNA polymerases I, II, and III subunit RPABC1, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11-a, DNA-directed RNA polymerases I, II, and III subunit RPABC4 |
RNA polymerases, Transcription-associated |
P24928, P30876, P19387, O15514, P19388, P61218, P62487, P52434, P36954, P62875, P52435, P53803 |
P68431, P06899, P62805, P04908 |
0.24 |
| 38 |
6A5U |
EM |
7.60 |
2018-10-03 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
126 |
RNA polymerase II elongation complex stalled at SHL(-1) of the nucleosome, with foreign DNA, tilt conformation |
Kujirai, T., Ehara, H., Fujino, Y., Shirouzu, M., Sekine, S.I., Kurumizaka, H. |
10.1126/science.aau9904 |
30287617 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2018 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha |
RNA polymerases, Euchromatin-associated, Transcription-associated |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1 |
P04908, P06899, P62805, P84243 |
0.14 |
| 39 |
6A5R |
EM |
8.70 |
2018-10-03 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
136 |
RNA polymerase II elongation complex stalled at SHL(-2) of the nucleosome |
Kujirai, T., Ehara, H., Fujino, Y., Shirouzu, M., Sekine, S.I., Kurumizaka, H. |
10.1126/science.aau9904 |
30287617 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2018 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha |
RNA polymerases, Euchromatin-associated, Transcription-associated |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1 |
P04908, P06899, P62805, P84243 |
0.11 |
| 40 |
9WMW |
EM |
3.62 |
2025-12-24 |
hexamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
|
75 |
Co-transcriptional histone H3K36 methylation complex containing RNA polymerase II elongation complex, Set2, and the upstream nucleosome. (temp115, FACT-hexamer) |
Kujirai, T., Ehara, H., Ito, T., Henmi, M., Oya, E., Kobayashi, T., Sekine, S.I., Kurumizaka, H. |
10.1126/sciadv.aed1952 |
41604494 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2025 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, DNA-directed RNA polymerases I, II, and III subunit RPABC1, DNA-directed RNA polymerases I, II, and III subunit RPABC2, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Transcription elongation factor SPT5, FACT complex subunit, FACT complex subunit POB3, Transcription elongation factor Spt6, Protein that interacts with Spt6p and copurifies with Spt5p and RNA polymerase II, Component of the Paf1p complex, RNAPII-associated chromatin remodeling Paf1 complex subunit, Histone-lysine N-methyltransferase, H3 lysine-36 specific, Leo1, RNAP II-associated protein, Constituent of Paf1 complex with RNA polymerase II, Paf1p, Hpr1p, Ctr9, Leo1, Rtf1 and Ccr4p |
RNA polymerases, DNA replication, Transcription-associated, SPT4-SPT5 complex, Histone chaperones, Euchromatin-associated, DNA repair, Histone PTM writers, FACT, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4QZ45, C4R0E6, C4R370, C4QYQ8, F2QNN8, C4R7H2, C4R7L8, C4R6B2, F2QQ42, C4QY01, C4R3K1, C4R997, C4R1E6 |
P04908, P06899, P62805, P84243 |
0.229 |
| 41 |
7XSX |
EM |
3.80 |
2022-09-07 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
108 |
RNA polymerase II elongation complex transcribing a nucleosome (EC49) |
Ehara, H., Kujirai, T., Shirouzu, M., Kurumizaka, H., Sekine, S.I. |
10.1126/science.abp9466 |
35981082 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2022 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, DNA-directed RNA polymerases I, II, and III subunit RPABC1, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Transcription elongation factor SPT5, FACT complex subunit, FACT complex subunit POB3, Transcription elongation factor Spt6, Protein that interacts with Spt6p and copurifies with Spt5p and RNA polymerase II, Component of the Paf1p complex, RNAPII-associated chromatin remodeling Paf1 complex subunit, Leo1, RNAP II-associated protein, Constituent of Paf1 complex with RNA polymerase II, Paf1p, Hpr1p, Ctr9, Leo1, Rtf1 and Ccr4p |
RNA polymerases, DNA replication, Transcription-associated, SPT4-SPT5 complex, Histone chaperones, Euchromatin-associated, DNA repair, FACT, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4QZ45, C4R0E6, C4R370, C4QYQ8, F2QNN8, C4R7H2, C4R7L8, C4R6B2, F2QQ42, C4R3K1, C4R997, C4R1E6 |
P04908, P06899, P62805, P84243 |
0.227 |
| 42 |
6I84 |
EM |
4.40 |
2019-01-02 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601 |
169 |
Structure of transcribing RNA polymerase II-nucleosome complex |
Farnung, L., Vos, S.M., Cramer, P. |
10.1038/s41467-018-07870-y |
30575770 |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
2019 |
DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB2, DNA-directed RNA polymerase II subunit RPB3, DNA-directed RNA polymerase II subunit RPB4, DNA-directed RNA polymerases I, II, and III subunit RPABC1, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11, DNA-directed RNA polymerases I, II, and III subunit RPABC4 |
RNA polymerases, Euchromatin-associated, Transcription-associated |
P04050, P08518, P16370, P20433, P20434, P20435, P34087, P20436, P27999, P22139, P38902, P40422 |
P06897, P84233, P02281, P62799 |
0.241 |
| 43 |
7NKY |
EM |
3.20 |
2021-07-07 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
148 |
RNA Polymerase II-Spt4/5-nucleosome-FACT structure |
Farnung, L., Ochmann, M., Engeholm, M., Cramer, P. |
10.1038/s41594-021-00578-6 |
33846633 |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
2021 |
DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB2, DNA-directed RNA polymerase II subunit RPB3, DNA-directed RNA polymerase II subunit RPB4, DNA-directed RNA polymerases I, II, and III subunit RPABC1, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11, DNA-directed RNA polymerases I, II, and III subunit RPABC4, FACT complex subunit POB3, FACT complex subunit SPT16, Chromatin elongation factor SPT4, Transcription elongation factor SPT5 |
RNA polymerases, DNA replication, Transcription-associated, Histone chaperones, DNA repair, Euchromatin-associated, Centromere-associated, SPT4-SPT5 complex, Heterochromatin-associated, FACT, Transcription factors |
P04050, P08518, P16370, P20433, P20434, P20435, P34087, P20436, P27999, P22139, P38902, P40422, Q04636, P32558, P32914, P27692 |
P06897, P84233, P02281, P62799 |
0.358 |
| 44 |
9MU9 |
EM |
7.80 |
2025-02-19 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601 |
174 |
Structure of a native Drosophila melanogaster Nucleosome Elongation Complex (Pol II EC-nucleosome). Composite map |
Venette-Smith, N.L., Vishwakarma, R.K., Dollinger, R., Schultz, J., Venkatakrishnan, V., Babitzke, P., Anand, G., Gilmour, D.S., Armache, J.-P., Murakami, K. |
|
0 |
Drosophila melanogaster |
Drosophila melanogaster |
Drosophila melanogaster |
Drosophila melanogaster |
Xenopus laevis |
2025 |
DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB2, DNA-directed RNA polymerase II subunit RPB3, DNA-directed RNA polymerase II subunit RPB5, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11, DNA-directed RNA polymerase II subunit RPB12 |
RNA polymerases, Transcription-associated |
P04052, P08266, O97183, Q7JZF5, Q24320, Q9VNZ3, P36958, Q9VC49, Q9VJE4, Q6IGE3 |
P02299, P84040, P02283, P84051 |
0.202 |
| 45 |
9J0O |
EM |
3.30 |
2025-02-05 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
191 |
Arrested elongation complex of mammalian RNA polymerase II with nucleosome (AEC1-nuc) |
Naganuma, M., Kujirai, T., Ehara, H., Uejima, T., Ito, T., Goto, M., Aoki, M., Henmi, M., Miyamoto-Kohno, S., Shirouzu, M., Kurumizaka, H., Sekine, S.I. |
10.1126/sciadv.adu0577 |
40043114 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2025 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase II subunit RPB3, DNA-directed RNA polymerase II subunit RPB4, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11-a, RPB12, Negative elongation factor A, Negative elongation factor B, Negative elongation factor C/D, Negative elongation factor E, Transcription elongation factor SPT4, Transcription elongation factor SPT5 |
RNA polymerases, Transcription factors, Euchromatin-associated, Transcription-associated |
A0A8D1DPV6, A0A0B8RVL1, I3LCH3, A0A481BYI6, I3LSI7, A0A4X1VEK9, A0A4X1VKG7, I3LCB2, P60899, A0A8W4F9W9, F1RKE4, A0A4X1TRS6, Q9H3P2, Q8WX92, Q8IXH7, P18615, P63272, O00267 |
P04908, P06899, P62805, P84243 |
0.313 |
| 46 |
6IR9 |
EM |
3.80 |
2019-02-20 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
128 |
RNA polymerase II elongation complex bound with Elf1 and Spt4/5, stalled at SHL(-1) of the nucleosome |
Ehara, H., Kujirai, T., Fujino, Y., Shirouzu, M., Kurumizaka, H., Sekine, S.I. |
10.1126/science.aav8912 |
30733384 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2019 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Spt5 |
RNA polymerases, Transcription-associated, SPT4-SPT5 complex, Euchromatin-associated, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4QZ45, C4R0E6, C4R370 |
P04908, P06899, P62805, P84243 |
0.264 |
| 47 |
6A5L |
EM |
5.60 |
2018-10-03 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
126 |
RNA polymerase II elongation complex stalled at SHL(-1) of the nucleosome, with foreign DNA |
Kujirai, T., Ehara, H., Fujino, Y., Shirouzu, M., Sekine, S.I., Kurumizaka, H. |
10.1126/science.aau9904 |
30287617 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2018 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha |
RNA polymerases, Euchromatin-associated, Transcription-associated |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1 |
P04908, P06899, P62805, P84243 |
0.182 |
| 48 |
7WBX |
EM |
4.00 |
2023-07-05 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
150 |
RNA polymerase II elongation complex bound with Elf1 and Spt4/5, stalled at SHL(-3) of the nucleosome |
Osumi, K., Kujirai, T., Ehara, H., Ogasawara, M., Kinoshita, C., Saotome, M., Kagawa, W., Sekine, S.I., Takizawa, Y., Kurumizaka, H. |
10.1016/j.jmb.2023.168130 |
37120012 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2023 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, DNA-directed RNA polymerases I, II, and III subunit RPABC1, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Transcription elongation factor SPT5 |
RNA polymerases, Transcription-associated, SPT4-SPT5 complex, Euchromatin-associated, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4QZ45, C4R0E6, C4R370 |
P04908, P06899, P62805, P84243 |
0.298 |
| 49 |
9EGY |
EM |
2.90 |
2024-12-18 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
160 |
RNA polymerase II-DSIF-SPT6-PAF1c-TFIIS-IWS1-nucleosome, bp +27 |
Markert, J.W., Soffers, J.H., Farnung, L. |
10.1126/science.adn6319 |
39666822 |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
2024 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase II subunit RPB3, RNA polymerase Rpb4/RPC9 core domain-containing protein, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, RNA polymerase II subunit J, RNA polymerase II subunit K, Transcription elongation factor SPT6, Protein IWS1 homolog, RNA polymerase-associated protein CTR9 homolog, RNA polymerase-associated protein RTF1 homolog, Transcription elongation factor A protein 1, RNA polymerase-associated protein LEO1, RNA polymerase II-associated factor 1 homolog, WDR61, Parafibromin, Transcription elongation factor SPT4, Transcription elongation factor SPT5 |
RNA polymerases, Transcription-associated, Histone_ubiquitination_H2BK120_writer, Histone chaperones, Euchromatin-associated, Histone PTM writers, Histone_methylation_H3K4_writer, PAF1C, Transcription factors, Cell cycle |
A0A7M4DUC2, A0A0B8RVL1, I3LCH3, A0A8D0KES4, I3LSI7, A0A4X1VEK9, A0A4X1VKG7, A0A8D1AQR7, P60899, A0A8W4F9W9, A0A8D0TE17, A0A4X1TRS6, Q7KZ85, Q96ST2, Q6PD62, Q92541, P23193, Q8WVC0, Q8N7H5, Q9GZS3, Q6P1J9, P63272, O00267 |
P06897, P02281, A0A310TTQ1, P62799 |
0.256 |
| 50 |
9EH0 |
EM |
3.60 |
2024-12-18 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601 |
181 |
RNA polymerase II-DSIF-SPT6-PAF1c-TFIIS-IWS1-SETD2-nucleosome, 30 bp upstream |
Markert, J.W., Soffers, J.H., Farnung, L. |
10.1126/science.adn6319 |
39666822 |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
2024 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase II subunit RPB3, RNA polymerase Rpb4/RPC9 core domain-containing protein, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, RNA polymerase II subunit J, RNA polymerase II subunit K, Transcription elongation factor SPT6, Protein IWS1 homolog, RNA polymerase-associated protein CTR9 homolog, RNA polymerase-associated protein RTF1 homolog, Transcription elongation factor A protein 1, RNA polymerase-associated protein LEO1, RNA polymerase II-associated factor 1 homolog, WDR61, Parafibromin, Transcription elongation factor SPT4, Transcription elongation factor SPT5, Histone-lysine N-methyltransferase SETD2 |
RNA polymerases, Transcription-associated, Histone_ubiquitination_H2BK120_writer, Histone chaperones, Euchromatin-associated, Histone PTM writers, Histone_methylation_H3K4_writer, Histone_methylation_H3K36_writer, PAF1C, Transcription factors, Cell cycle |
A0A7M4DUC2, A0A0B8RVL1, I3LCH3, A0A8D0KES4, I3LSI7, A0A4X1VEK9, A0A4X1VKG7, A0A8D1AQR7, P60899, A0A8W4F9W9, A0A8D0TE17, A0A4X1TRS6, Q7KZ85, Q96ST2, Q6PD62, Q92541, P23193, Q8WVC0, Q8N7H5, Q9GZS3, Q6P1J9, P63272, O00267, Q9BYW2 |
P06897, P02281, A0A310TTQ1, P62799 |
0.24 |
| 51 |
7XTI |
EM |
3.90 |
2022-10-12 |
hexamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
85 |
RNA polymerase II elongation complex transcribing a nucleosome (EC58hex) |
Ehara, H., Kujirai, T., Shirouzu, M., Kurumizaka, H., Sekine, S.I. |
10.1126/science.abp9466 |
35981082 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2022 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, DNA-directed RNA polymerases I, II, and III subunit RPABC1, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Transcription elongation factor SPT5, FACT complex subunit, FACT complex subunit POB3, Transcription elongation factor Spt6, Protein that interacts with Spt6p and copurifies with Spt5p and RNA polymerase II, Component of the Paf1p complex, RNAPII-associated chromatin remodeling Paf1 complex subunit, Leo1, RNAP II-associated protein, Constituent of Paf1 complex with RNA polymerase II, Paf1p, Hpr1p, Ctr9, Leo1, Rtf1 and Ccr4p |
RNA polymerases, DNA replication, Transcription-associated, SPT4-SPT5 complex, Histone chaperones, Euchromatin-associated, DNA repair, FACT, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4QZ45, C4R0E6, C4R370, C4QYQ8, F2QNN8, C4R7H2, C4R7L8, C4R6B2, F2QQ42, C4R3K1, C4R997, C4R1E6 |
P04908, P06899, P62805, P84243 |
0.223 |
| 52 |
6J4Z |
EM |
4.10 |
2019-02-20 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
128 |
RNA polymerase II elongation complex bound with Spt4/5 and foreign DNA, stalled at SHL(-1) of the nucleosome |
Ehara, H., Kujirai, T., Fujino, Y., Shirouzu, M., Kurumizaka, H., Sekine, S.I. |
10.1126/science.aav8912 |
30733384 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2019 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor SPT4, Spt5 |
RNA polymerases, Transcription-associated, SPT4-SPT5 complex, Euchromatin-associated, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4R0E6, C4R370 |
P04908, P06899, P62805, P84243 |
0.244 |
| 53 |
6J4Y |
EM |
4.30 |
2019-02-20 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
127 |
RNA polymerase II elongation complex bound with Elf1 and Spt4/5, stalled at SHL(-1) of the nucleosome (+1B) |
Ehara, H., Kujirai, T., Fujino, Y., Shirouzu, M., Kurumizaka, H., Sekine, S.I. |
10.1126/science.aav8912 |
30733384 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2019 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Protein that forms a complex with Spt4p |
RNA polymerases, Transcription-associated, SPT4-SPT5 complex, Euchromatin-associated, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4QZ45, C4R0E6, C4R370 |
P04908, P06899, P62805, P84243 |
0.235 |
| 54 |
9J0N |
EM |
3.40 |
2025-02-05 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
167 |
Paused elongation complex of mammalian RNA polymerase II with nucleosome (PEC2-nuc) |
Naganuma, M., Kujirai, T., Ehara, H., Uejima, T., Ito, T., Goto, M., Aoki, M., Henmi, M., Miyamoto-Kohno, S., Shirouzu, M., Kurumizaka, H., Sekine, S.I. |
10.1126/sciadv.adu0577 |
40043114 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2025 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase II subunit RPB3, DNA-directed RNA polymerase II subunit RPB4, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerase II subunit F, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11-a, RPB12, Transcription elongation factor A protein 1, Negative elongation factor A, Negative elongation factor B, Negative elongation factor C/D, Negative elongation factor E, Transcription elongation factor SPT4, Transcription elongation factor SPT5 |
RNA polymerases, Transcription factors, Euchromatin-associated, Transcription-associated |
A0A8D1DPV6, A0A0B8RVL1, I3LCH3, A0A481BYI6, I3LSI7, A0A4X1VEK9, A0A4X1VKG7, I3LCB2, P60899, A0A8W4F9W9, F1RKE4, A0A4X1TRS6, P23193, Q9H3P2, Q8WX92, Q8IXH7, P18615, P63272, O00267 |
P04908, P06899, P62805, P84243 |
0.316 |
| 55 |
9S3G |
EM |
6.40 |
2025-11-12 |
hexamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
|
67 |
State 1 MAP3 RNA Pol II activated elongation complex with SETD2 and upstream hexasome |
Walshe, J.L., Ochmann, M., Neef, U., Dybkov, O., Dienemann, C., Oberthur, C., Zheenbekova, A., Urlaub, H., Cramer, P. |
10.1038/s41467-025-65439-y |
41162378 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2025 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase II subunit RPB3, RNA polymerase II subunit D, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11-a, RNA polymerase II subunit K, Transcription elongation factor SPT6, Histone-lysine N-methyltransferase SETD2, RNA polymerase-associated protein CTR9 homolog, RNA polymerase-associated protein RTF1 homolog, Transcription elongation factor A protein 1, RNA polymerase-associated protein LEO1, RNA polymerase II-associated factor 1 homolog, WD repeat-containing protein 61, Parafibromin, Transcription elongation factor SPT4, Transcription elongation factor SPT5, FACT complex subunit SPT16, FACT complex subunit SSRP1 |
RNA polymerases, DNA replication, Transcription-associated, FACT, Histone_ubiquitination_H2BK120_writer, Histone chaperones, DNA repair, Euchromatin-associated, Histone PTM writers, Histone_methylation_H3K4_writer, Histone_methylation_H3K36_writer, PAF1C, Transcription factors, Cell cycle |
A0A8D1DPV6, I3LGP4, I3LCH3, A0A287ADR4, I3LSI7, A0A8D1KNW4, A0A4X1VKG7, I3LCB2, P60899, A0A4X1VYD0, F1RKE4, A0A8D0JYF1, Q7KZ85, Q9BYW2, Q6PD62, Q92541, P23193, Q8WVC0, Q8N7H5, Q9GZS3, Q6P1J9, Q4R941, O00267, Q9Y5B9, Q08945 |
O60814, Q71DI3, P04908, P62805 |
0.187 |
| 56 |
8A3Y |
EM |
3.30 |
2024-07-31 |
hexamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
138 |
Structure of mammalian Pol II-DSIF-SPT6-PAF1-TFIIS-hexasome elongation complex |
Farnung, L., Ochmann, M., Garg, G., Vos, S.M., Cramer, P. |
10.1016/j.molcel.2022.06.027 |
35858621 |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
2024 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase II subunit RPB3, RNA polymerase II subunit D, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11-a, RNA polymerase II subunit K, SPT6, RNA polymerase-associated protein CTR9 homolog,RNA polymerase-associated protein LEO1, RNA polymerase-associated protein RTF1 homolog, RNA polymerase II-associated factor 1 homolog, WD repeat-containing protein 61, Parafibromin, Transcription elongation factor SPT4, Transcription elongation factor SPT5 |
RNA polymerases, Transcription-associated, Histone_ubiquitination_H2BK120_writer, Histone chaperones, Euchromatin-associated, Histone PTM writers, Histone_methylation_H3K4_writer, PAF1C, Transcription factors, Cell cycle |
A0A7M4DUC2, I3LGP4, I3LCH3, A0A287ADR4, I3LSI7, A0A4X1VEK9, A0A4X1VKG7, I3LCB2, P60899, A0A4X1VYD0, F1RKE4, A0A8D0JYF1, Q7KZ85, Q6PD62, Q92541, Q8N7H5, Q9GZS3, Q6P1J9, Q4R941, O00267 |
Q6AZJ8, A0A8J1LZU9, P84233, P62799 |
0.231 |
| 57 |
7XT7 |
EM |
4.20 |
2022-10-12 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
126 |
RNA polymerase II elongation complex transcribing a nucleosome (EC49B) |
Ehara, H., Kujirai, T., Shirouzu, M., Kurumizaka, H., Sekine, S.I. |
10.1126/science.abp9466 |
35981082 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2022 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, DNA-directed RNA polymerases I, II, and III subunit RPABC1, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Transcription elongation factor SPT5, FACT complex subunit, FACT complex subunit POB3, Transcription elongation factor Spt6, Protein that interacts with Spt6p and copurifies with Spt5p and RNA polymerase II, Component of the Paf1p complex, RNAPII-associated chromatin remodeling Paf1 complex subunit, Leo1, RNAP II-associated protein, Constituent of Paf1 complex with RNA polymerase II, Paf1p, Hpr1p, Ctr9, Leo1, Rtf1 and Ccr4p |
RNA polymerases, DNA replication, Transcription-associated, SPT4-SPT5 complex, Histone chaperones, Euchromatin-associated, DNA repair, FACT, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4QZ45, C4R0E6, C4R370, F2QPX0, F2QNN8, C4R7H2, C4R7L8, C4R6B2, F2QQ42, C4R3K1, C4R997, C4R1E6 |
P04908, P06899, P62805, P84243 |
0.207 |
| 58 |
7WBW |
EM |
7.10 |
2023-07-05 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
154 |
RNA polymerase II elongation complex bound with Elf1 and Spt4/5, stalled at SHL(-3.5) of the nucleosome |
Osumi, K., Kujirai, T., Ehara, H., Ogasawara, M., Kinoshita, C., Saotome, M., Kagawa, W., Sekine, S.I., Takizawa, Y., Kurumizaka, H. |
10.1016/j.jmb.2023.168130 |
37120012 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2023 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, DNA-directed RNA polymerases I, II, and III subunit RPABC1, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Transcription elongation factor SPT5 |
RNA polymerases, Transcription-associated, SPT4-SPT5 complex, Euchromatin-associated, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4QZ45, C4R0E6, C4R370 |
P04908, P06899, P62805, P84243 |
0.137 |
| 59 |
7WBV |
EM |
4.10 |
2023-07-05 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
159 |
RNA polymerase II elongation complex bound with Elf1 and Spt4/5, stalled at SHL(-4) of the nucleosome |
Osumi, K., Kujirai, T., Ehara, H., Ogasawara, M., Kinoshita, C., Saotome, M., Kagawa, W., Sekine, S.I., Takizawa, Y., Kurumizaka, H. |
10.1016/j.jmb.2023.168130 |
37120012 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2023 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, DNA-directed RNA polymerases I, II, and III subunit RPABC1, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Transcription elongation factor SPT5 |
RNA polymerases, Transcription-associated, SPT4-SPT5 complex, Euchromatin-associated, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4QZ45, C4R0E6, C4R370 |
P04908, P06899, P62805, P84243 |
0.267 |
| 60 |
9WMT |
EM |
3.59 |
2025-12-24 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
|
121 |
Co-transcriptional histone H3K36 methylation complex containing RNA polymerase II elongation complex, Set2, and the upstream nucleosome. (temp115, type A) |
Kujirai, T., Ehara, H., Ito, T., Henmi, M., Oya, E., Kobayashi, T., Sekine, S.I., Kurumizaka, H. |
10.1126/sciadv.aed1952 |
41604494 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2025 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, DNA-directed RNA polymerases I, II, and III subunit RPABC1, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Transcription elongation factor SPT5, Transcription elongation factor Spt6, Protein that interacts with Spt6p and copurifies with Spt5p and RNA polymerase II, Component of the Paf1p complex, RNAPII-associated chromatin remodeling Paf1 complex subunit, Histone-lysine N-methyltransferase, H3 lysine-36 specific, Leo1, RNAP II-associated protein, Constituent of Paf1 complex with RNA polymerase II, Paf1p, Hpr1p, Ctr9, Leo1, Rtf1 and Ccr4p |
RNA polymerases, Transcription-associated, SPT4-SPT5 complex, Euchromatin-associated, Histone PTM writers, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4QZ45, C4R0E6, C4R370, C4R7H2, C4R7L8, C4R6B2, F2QQ42, C4QY01, C4R3K1, C4R997, C4R1E6 |
P04908, P06899, P62805, P84243 |
0.225 |
| 61 |
9EH2 |
EM |
3.10 |
2024-12-18 |
hexamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
|
65 |
RNA polymerase II-DSIF-SPT6-PAF1c-TFIIS-IWS1-SETD2-FACT nucleosome upstream |
Markert, J.W., Soffers, J.H., Farnung, L. |
10.1126/science.adn6319 |
39666822 |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
2024 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, DNA-directed RNA polymerase II subunit RPB3, RNA polymerase Rpb4/RPC9 core domain-containing protein, DNA-directed RNA polymerase II subunit E, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, RNA polymerase II subunit J, RNA polymerase II subunit K, Transcription elongation factor SPT6, Protein IWS1 homolog, RNA polymerase-associated protein CTR9 homolog, RNA polymerase-associated protein RTF1 homolog, Transcription elongation factor A protein 1, RNA polymerase-associated protein LEO1, RNA polymerase II-associated factor 1 homolog, WDR61, Parafibromin, Transcription elongation factor SPT4, Transcription elongation factor SPT5, Histone-lysine N-methyltransferase SETD2, FACT complex subunit SPT16, FACT complex subunit SSRP1 |
RNA polymerases, DNA replication, Transcription-associated, FACT, Histone_ubiquitination_H2BK120_writer, Histone chaperones, DNA repair, Euchromatin-associated, Histone PTM writers, Histone_methylation_H3K4_writer, Histone_methylation_H3K36_writer, PAF1C, Transcription factors, Cell cycle |
A0A7M4DUC2, A0A0B8RVL1, I3LCH3, A0A8D0KES4, I3LSI7, A0A4X1VEK9, A0A4X1VKG7, A0A8D1AQR7, P60899, A0A8W4F9W9, A0A8D0TE17, A0A4X1TRS6, Q7KZ85, Q96ST2, Q6PD62, Q92541, P23193, Q8WVC0, Q8N7H5, Q9GZS3, Q6P1J9, P63272, O00267, Q9BYW2, Q9Y5B9, Q08945 |
P06897, P02281, A0A310TTQ1, P62799 |
0.252 |
| 62 |
8CEO |
EM |
3.60 |
2023-03-08 |
octamer |
1 |
canonical_H3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601 |
209 |
Yeast RNA polymerase II transcription pre-initiation complex with core Mediator and the +1 nucleosome |
Schilbach, S., Wang, H., Dienemann, C., Cramer, P. |
10.1073/pnas.2220542120 |
37014863 |
Xenopus laevis |
Xenopus laevis |
Xenopus laevis |
Saccharomyces cerevisiae |
Xenopus laevis |
2023 |
General transcription and DNA repair factor IIH helicase subunit XPD, TFB1 isoform 1, RNA polymerase II transcription factor B subunit 2, RNA polymerase II transcription factor B subunit 3, General transcription and DNA repair factor IIH subunit TFB4, General transcription and DNA repair factor IIH subunit TFB5, General transcription and DNA repair factor IIH, General transcription and DNA repair factor IIH helicase subunit XPB, DNA-directed RNA polymerase II subunit RPB1, DNA-directed RNA polymerase II subunit RPB2, DNA-directed RNA polymerase II subunit RPB3, DNA-directed RNA polymerase II subunit RPB4, DNA-directed RNA polymerases I, II, and III subunit RPABC1, DNA-directed RNA polymerases I, II, and III subunit RPABC2, DNA-directed RNA polymerase II subunit RPB7, DNA-directed RNA polymerases I, II, and III subunit RPABC3, DNA-directed RNA polymerase II subunit RPB9, DNA-directed RNA polymerases I, II, and III subunit RPABC5, DNA-directed RNA polymerase II subunit RPB11, DNA-directed RNA polymerases I, II, and III subunit RPABC4, Transcription initiation factor IIB, TATA-binding protein, Transcription initiation factor IIF subunit alpha, Transcription initiation factor IIF subunit beta, TOA1 isoform 1, Transcription initiation factor IIA subunit 2, Transcription initiation factor IIE subunit alpha, Transcription initiation factor IIE subunit beta, Mediator of RNA polymerase II transcription subunit 6, Mediator of RNA polymerase II transcription subunit 8, Mediator of RNA polymerase II transcription subunit 11, Mediator of RNA polymerase II transcription subunit 17, Mediator of RNA polymerase II transcription subunit 18, Mediator of RNA polymerase II transcription subunit 20, Mediator of RNA polymerase II transcription subunit 22, Mediator of RNA polymerase II transcription subunit 4, Mediator of RNA polymerase II transcription subunit 7, Mediator of RNA polymerase II transcription subunit 9, Mediator of RNA polymerase II transcription subunit 10, Mediator of RNA polymerase II transcription subunit 14, Mediator of RNA polymerase II transcription subunit 19, Mediator of RNA polymerase II transcription subunit 21, Mediator of RNA polymerase II transcription subunit 31, Mediator of RNA polymerase II transcription subunit 1 |
RNA polymerases, Transcription-associated, Mediator, DNA repair, Euchromatin-associated, Transcription factors |
P06839, P32776, Q02939, Q03290, Q12004, Q3E7C1, Q04673, Q00578, P04050, P08518, P16370, P20433, P20434, P20435, P34087, P20436, P27999, P22139, P38902, P40422, P29055, P13393, P41895, P41896, P32773, P32774, P36100, P36145, P38782, P38304, Q99278, P32569, P32585, P34162, P32570, Q12343, Q08278, P33308, Q06213, P19263, P25046, P47822, P38633, Q12321 |
P06897, P84233, P02281, P62799 |
0.222 |
| 63 |
6J51 |
EM |
4.20 |
2019-02-20 |
octamer |
1 |
H3.3 |
canonical_H4 |
canonical_H2A |
canonical_H2B |
|
601_modified |
127 |
RNA polymerase II elongation complex bound with Spt4/5 and foreign DNA, stalled at SHL(-1) of the nucleosome, weak Elf1 (+1 position) |
Ehara, H., Kujirai, T., Fujino, Y., Shirouzu, M., Kurumizaka, H., Sekine, S.I. |
10.1126/science.aav8912 |
30733384 |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Homo sapiens |
Xenopus laevis |
2019 |
DNA-directed RNA polymerase subunit, DNA-directed RNA polymerase subunit beta, RNA polymerase II third largest subunit B44, part of central core, RNA polymerase II subunit B32, RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III, RNA polymerase subunit ABC23, common to RNA polymerases I, II, and III, RNA polymerase II subunit, DNA-directed RNA polymerases I, II, and III subunit RPABC3, RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III, RNA polymerase II subunit B12.5, RNA polymerase subunit ABC10-alpha, Transcription elongation factor 1 homolog, Transcription elongation factor SPT4, Protein that forms a complex with Spt4p |
RNA polymerases, Transcription-associated, SPT4-SPT5 complex, Euchromatin-associated, Transcription factors |
C4R4Y0, C4QZQ7, C4R7L2, C4R2U9, C4R3P8, C4R1V1, C4R9A1, C4R273, F2QPE6, C4R009, C4R3Z5, F2QMI1, C4QZ45, C4R0E6, C4R370 |
P04908, P06899, P62805, P84243 |
0.23 |