7O4L: PDB entry 7O4L
Yeast TFIIH in the expanded state within the pre-initiation complex. Determined by electron microscopy at 3.4 Å resolution. Released 16 Jun 2021.
- Method
- Electron microscopy
- Resolution
- 3.4 Å
- Organisms
- Saccharomyces cerevisiae (strain ATCC 204508 / S288c), synthetic construct
- Chains
- 17
- Atoms
- 35,159
- Mol. weight
- 1008.87 kDa
- Ligands
- SF4, ZN, BEF, MG
- Released
- 16 Jun 2021
Explore 7O4L in 3D
Show helices and sheets
RCSB PDB
PDBe
Secondary structure: helices and β-sheets
7O4L contains 229 α-helices and 189 β-strands across 15 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.
Chain 0: 41 helices, 28 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 2-5 | 4 | 1 |
| β-strand | 8-11 | 4 | 1 |
| β-strand | 17 | 1 | 2 |
| α-helix | 19-34 | 16 | |
| β-strand | 37-41 | 5 | 3 |
| α-helix | 49-62 | 14 | |
| β-strand | 69-73 | 5 | 3 |
| α-helix | 76-97 | 22 | |
| α-helix | 100-101 | 2 | |
| β-strand | 104-107 | 4 | 3 |
| α-helix | 126-137 | 12 | |
| α-helix | 140-147 | 8 | |
| α-helix | 157-164 | 8 | |
| α-helix | 167-169 | 3 | |
| β-strand | 174-175 | 2 | 3 |
| α-helix | 178-188 | 11 | |
| α-helix | 192-198 | 7 | |
| β-strand | 205-209 | 5 | 3 |
| α-helix | 210-212 | 3 | |
| α-helix | 216-218 | 3 | |
| α-helix | 220-223 | 4 | |
| β-strand | 231-235 | 5 | 3 |
| α-helix | 237-239 | 3 | |
| α-helix | 240-247 | 8 | |
| β-strand | 250-253 | 4 | 4 |
| α-helix | 254-277 | 24 | |
| α-helix | 280-291 | 12 | |
| α-helix | 295-298 | 4 | |
| α-helix | 313-315 | 3 | |
| α-helix | 328-345 | 18 | |
| β-strand | 352-354 | 3 | 4 |
| α-helix | 356-366 | 11 | |
| α-helix | 371-375 | 5 | |
| α-helix | 377-388 | 12 | |
| α-helix | 397-411 | 15 | |
| β-strand | 416-421 | 6 | 4 |
| β-strand | 423 | 1 | 5 |
| β-strand | 432 | 1 | 5 |
| β-strand | 434-439 | 6 | 4 |
| α-helix | 447-452 | 6 | |
| β-strand | 456-459 | 4 | 3 |
| α-helix | 468-472 | 5 | |
| β-strand | 477-482 | 6 | 3 |
| α-helix | 483-485 | 3 | |
| β-strand | 492 | 1 | 6 |
| β-strand | 495-499 | 5 | 7 |
| β-strand | 505 | 1 | 7 |
| α-helix | 510-512 | 3 | |
| α-helix | 516-532 | 17 | |
| β-strand | 536-541 | 6 | 7 |
| α-helix | 544-557 | 14 | |
| α-helix | 559-566 | 8 | |
| β-strand | 568-571 | 4 | 7 |
| α-helix | 576-592 | 17 | |
| β-strand | 596-601 | 6 | 7 |
| β-strand | 619-623 | 5 | 7 |
| α-helix | 633-646 | 14 | |
| α-helix | 650-667 | 18 | |
| β-strand | 677 | 1 | 6 |
| β-strand | 678-682 | 5 | 7 |
| α-helix | 685-692 | 8 | |
| α-helix | 695-700 | 6 | |
| α-helix | 704-706 | 3 | |
| β-strand | 708-709 | 2 | 7 |
| α-helix | 710-724 | 15 | |
| α-helix | 727-729 | 3 | |
| α-helix | 730-733 | 4 | |
| β-strand | 739 | 1 | 2 |
| α-helix | 741-751 | 11 | |
Chain 1: 30 helices, 12 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 4-9 | 6 | 8 |
| β-strand | 12-19 | 8 | 8 |
| α-helix | 25 | 1 | |
| β-strand | 26-31 | 6 | 8 |
| β-strand | 37-41 | 5 | 8 |
| β-strand | 45-50 | 6 | 8 |
| β-strand | 59-64 | 6 | 8 |
| β-strand | 86-91 | 6 | 8 |
| α-helix | 94-120 | 27 | |
| α-helix | 171-176 | 6 | |
| α-helix | 178-187 | 10 | |
| α-helix | 190-196 | 7 | |
| α-helix | 197-201 | 5 | |
| α-helix | 206-211 | 6 | |
| α-helix | 214-222 | 9 | |
| α-helix | 228-230 | 3 | |
| α-helix | 233-236 | 4 | |
| β-strand | 246-252 | 7 | 9 |
| α-helix | 253-262 | 10 | |
| α-helix | 264-273 | 10 | |
| α-helix | 280-288 | 9 | |
| α-helix | 291-296 | 6 | |
| α-helix | 309-312 | 4 | |
| α-helix | 315-329 | 15 | |
| α-helix | 340-344 | 5 | |
| α-helix | 352-355 | 4 | |
| α-helix | 356-358 | 3 | |
| β-strand | 362 | 1 | 10 |
| β-strand | 368 | 1 | 10 |
| α-helix | 371-389 | 19 | |
| α-helix | 414-419 | 6 | |
| α-helix | 426-428 | 3 | |
| β-strand | 432 | 1 | 11 |
| β-strand | 434 | 1 | 12 |
| α-helix | 442-444 | 3 | |
| α-helix | 466-482 | 17 | |
| α-helix | 487-489 | 3 | |
| α-helix | 493-514 | 22 | |
| α-helix | 537-539 | 3 | |
| α-helix | 544-568 | 25 | |
| α-helix | 575-603 | 29 | |
| α-helix | 609-638 | 30 | |
Chain 2: 24 helices, 18 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 6-16 | 11 | |
| α-helix | 19-25 | 7 | |
| α-helix | 29-38 | 10 | |
| α-helix | 41-51 | 11 | |
| β-strand | 57-58 | 2 | 13 |
| α-helix | 59-65 | 7 | |
| β-strand | 66 | 1 | 14 |
| α-helix | 71-83 | 13 | |
| β-strand | 87-92 | 6 | 13 |
| β-strand | 95-100 | 6 | 13 |
| α-helix | 102-112 | 11 | |
| β-strand | 124 | 1 | 15 |
| α-helix | 131-135 | 5 | |
| α-helix | 136-151 | 16 | |
| α-helix | 161-169 | 9 | |
| β-strand | 175-176 | 2 | 16 |
| β-strand | 181-182 | 2 | 16 |
| α-helix | 186-193 | 8 | |
| α-helix | 196-210 | 15 | |
| α-helix | 218-230 | 13 | |
| α-helix | 232 | 1 | |
| β-strand | 237-238 | 2 | 15 |
| α-helix | 244-256 | 13 | |
| β-strand | 259-261 | 3 | 15 |
| β-strand | 268-271 | 4 | 15 |
| α-helix | 272 | 1 | |
| α-helix | 273-279 | 7 | |
| β-strand | 339-341 | 3 | 17 |
| β-strand | 346-349 | 4 | 17 |
| α-helix | 354-361 | 8 | |
| β-strand | 365-370 | 6 | 17 |
| β-strand | 374-377 | 4 | 17 |
| α-helix | 380-389 | 10 | |
| α-helix | 393-402 | 10 | |
| β-strand | 404 | 1 | 17 |
| α-helix | 406-422 | 17 | |
| α-helix | 435-448 | 14 | |
| β-strand | 452-459 | 8 | 18 |
| α-helix | 465-477 | 13 | |
| β-strand | 481-485 | 5 | 18 |
| β-strand | 490-494 | 5 | 18 |
| α-helix | 498-506 | 9 | |
Chain 3: 5 helices, 7 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 12 | 1 | 19 |
| β-strand | 19 | 1 | 19 |
| β-strand | 28-30 | 3 | 20 |
| β-strand | 37-39 | 3 | 20 |
| α-helix | 40-47 | 8 | |
| β-strand | 52-53 | 2 | 21 |
| β-strand | 62-63 | 2 | 21 |
| β-strand | 69 | 1 | 20 |
| α-helix | 76-91 | 16 | |
| α-helix | 97-99 | 3 | |
| α-helix | 103-122 | 20 | |
| α-helix | 126-138 | 13 | |
Chain 4: 16 helices, 13 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 24-31 | 8 | 22 |
| α-helix | 34-43 | 10 | |
| α-helix | 50-67 | 18 | |
| β-strand | 73-79 | 7 | 22 |
| β-strand | 82-87 | 6 | 22 |
| α-helix | 89-90 | 2 | |
| α-helix | 116-138 | 23 | |
| α-helix | 149-166 | 18 | |
| β-strand | 173-180 | 8 | 22 |
| α-helix | 190-192 | 3 | |
| α-helix | 193-205 | 13 | |
| β-strand | 210-214 | 5 | 22 |
| α-helix | 223-230 | 8 | |
| β-strand | 235-237 | 3 | 22 |
| α-helix | 244-247 | 4 | |
| α-helix | 248-252 | 5 | |
| α-helix | 256-258 | 3 | |
| β-strand | 262 | 1 | 14 |
| α-helix | 263-264 | 2 | |
| β-strand | 275 | 1 | 23 |
| β-strand | 282 | 1 | 23 |
| β-strand | 285-289 | 5 | 24 |
| β-strand | 295-296 | 2 | 24 |
| α-helix | 299-300 | 2 | |
| α-helix | 301-303 | 3 | |
| β-strand | 304 | 1 | 25 |
| β-strand | 311 | 1 | 25 |
| α-helix | 314-321 | 8 | |
| α-helix | 322-325 | 4 | |
Chain 5: 4 helices, 3 β-strands
| Element | Residues | Length | Sheet |
|---|
| β-strand | 4-11 | 8 | 18 |
| α-helix | 14-26 | 13 | |
| β-strand | 31-36 | 6 | 18 |
| β-strand | 39-42 | 4 | 18 |
| α-helix | 44-46 | 3 | |
| α-helix | 47-57 | 11 | |
| α-helix | 58-61 | 4 | |
Chain 6: 19 helices, 23 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 75-78 | 4 | |
| α-helix | 83-86 | 4 | |
| α-helix | 97-113 | 17 | |
| β-strand | 118 | 1 | 12 |
| β-strand | 120 | 1 | 26 |
| β-strand | 124-131 | 8 | 27 |
| α-helix | 134-137 | 4 | |
| α-helix | 145-163 | 19 | |
| β-strand | 168-175 | 8 | 27 |
| β-strand | 178-186 | 9 | 27 |
| α-helix | 189-199 | 11 | |
| α-helix | 202-204 | 3 | |
| α-helix | 210-220 | 11 | |
| β-strand | 229-235 | 7 | 27 |
| α-helix | 247-257 | 11 | |
| β-strand | 259-265 | 7 | 27 |
| α-helix | 271-280 | 10 | |
| β-strand | 288-290 | 3 | 27 |
| α-helix | 294-303 | 10 | |
| α-helix | 307-308 | 2 | |
| β-strand | 309 | 1 | 26 |
| β-strand | 311 | 1 | 11 |
| β-strand | 319-323 | 5 | 24 |
| β-strand | 326-328 | 3 | 28 |
| β-strand | 334-335 | 2 | 29 |
| β-strand | 342-343 | 2 | 29 |
| β-strand | 346-348 | 3 | 28 |
| β-strand | 355-356 | 2 | 28 |
| β-strand | 362 | 1 | 24 |
| β-strand | 369-370 | 2 | 24 |
| α-helix | 373-378 | 6 | |
| α-helix | 380-383 | 4 | |
| α-helix | 385-389 | 5 | |
| β-strand | 390-391 | 2 | 30 |
| α-helix | 392-393 | 2 | |
| β-strand | 402 | 1 | 31 |
| β-strand | 409 | 1 | 31 |
| α-helix | 410-411 | 2 | |
| β-strand | 427-428 | 2 | 30 |
| β-strand | 435-436 | 2 | 30 |
| α-helix | 438-446 | 9 | |
| α-helix | 452-456 | 5 | |
Chain 7: 35 helices, 28 β-strands
| Element | Residues | Length | Sheet |
|---|
| α-helix | 105-107 | 3 | |
| α-helix | 108-112 | 5 | |
| β-strand | 117-118 | 2 | 17 |
| α-helix | 122-124 | 3 | |
| β-strand | 132-134 | 3 | 32 |
| β-strand | 140-144 | 5 | 32 |
| α-helix | 150-160 | 11 | |
| β-strand | 162-165 | 4 | 32 |
| β-strand | 170-174 | 5 | 32 |
| α-helix | 177-185 | 9 | |
| α-helix | 190-200 | 11 | |
| β-strand | 201 | 1 | 32 |
| α-helix | 204-206 | 3 | |
| α-helix | 207-215 | 9 | |
| β-strand | 224 | 1 | 33 |
| β-strand | 226-227 | 2 | 34 |
| β-strand | 232-233 | 2 | 34 |
| β-strand | 236 | 1 | 35 |
| α-helix | 240-247 | 8 | |
| β-strand | 314 | 1 | 35 |
| β-strand | 317-318 | 2 | 34 |
| α-helix | 323-332 | 10 | |
| α-helix | 336-337 | 2 | |
| β-strand | 338 | 1 | 33 |
| β-strand | 340-341 | 2 | 36 |
| α-helix | 350-352 | 3 | |
| α-helix | 364-373 | 10 | |
| β-strand | 379-380 | 2 | 36 |
| β-strand | 382-385 | 4 | 37 |
| α-helix | 392-403 | 12 | |
| β-strand | 407-411 | 5 | 37 |
| α-helix | 414-426 | 13 | |
| α-helix | 432-434 | 3 | |
| β-strand | 435-438 | 4 | 37 |
| β-strand | 452-456 | 5 | 37 |
| α-helix | 457-461 | 5 | |
| α-helix | 468-479 | 12 | |
| β-strand | 482-488 | 7 | 37 |
| α-helix | 490-492 | 3 | |
| α-helix | 500-504 | 5 | |
| β-strand | 507-514 | 8 | 37 |
| α-helix | 524-526 | 3 | |
| α-helix | 527-530 | 4 | |
| β-strand | 534-537 | 4 | 37 |
| α-helix | 540-546 | 7 | |
| β-strand | 552-559 | 8 | 38 |
| α-helix | 560-562 | 3 | |
| α-helix | 563-571 | 9 | |
| α-helix | 574-582 | 9 | |
| α-helix | 585-600 | 16 | |
| β-strand | 604-608 | 5 | 38 |
| α-helix | 612-622 | 11 | |
| α-helix | 633-645 | 13 | |
| β-strand | 651-653 | 3 | 38 |
| α-helix | 656-659 | 4 | |
| β-strand | 667-672 | 6 | 38 |
| α-helix | 680-688 | 9 | |
| α-helix | 694-696 | 3 | |
| β-strand | 703-710 | 8 | 38 |
| α-helix | 714-722 | 9 | |
| α-helix | 724-729 | 6 | |
| β-strand | 734-736 | 3 | 38 |
| α-helix | 753-764 | 12 | |
7 more chain groups are not listed. Open the entry in the viewer and use the sequence panel to see them.
Molecules and chains
| Molecule | Chains | Type | Length | Organism | UniProt |
|---|
| General transcription and DNA repair factor IIH helicase subunit XPD | 0 | protein | 778 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | P06839 (AlphaFold model) |
| General transcription and DNA repair factor IIH subunit TFB1 | 1 | protein | 645 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | P32776 (AlphaFold model) |
| General transcription and DNA repair factor IIH subunit TFB2 | 2 | protein | 517 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | Q02939 (AlphaFold model) |
| RNA polymerase II transcription factor B subunit 3 | 3 | protein | 324 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | Q03290 (AlphaFold model) |
| General transcription and DNA repair factor IIH subunit TFB4 | 4 | protein | 341 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | Q12004 |
| General transcription and DNA repair factor IIH subunit TFB5 | 5 | protein | 76 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | Q3E7C1 |
| General transcription and DNA repair factor IIH subunit SSL1 | 6 | protein | 464 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | Q04673 |
| General transcription and DNA repair factor IIH helicase subunit XPB | 7 | protein | 843 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | Q00578 |
| DNA-directed RNA polymerase II subunit RPB1 | A | protein | 1733 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | P04050 |
| DNA-directed RNA polymerase II subunit RPB2 | B | protein | 1224 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | P08518 |
| DNA-directed RNA polymerase II subunit RPB4 | D | protein | 221 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | P20433 |
| DNA-directed RNA polymerases I, II, and III subunit RPABC2 | F | protein | 155 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) | P20435 |
5 more molecules are not listed.
Sequence of entity 1 (0), FASTA
>7O4L_1 General transcription and DNA repair factor IIH helicase subunit XPD (chains 0)
MKFYIDDLPVLFPYPKIYPEQYNYMCDIKKTLDVGGNSILEMPSGTGKTVSLLSLTIAYQ
MHYPEHRKIIYCSRTMSEIEKALVELENLMDYRTKELGYQEDFRGLGLTSRKNLCLHPEV
SKERKGTVVDEKCRRMTNGQAKRKLEEDPEANVELCEYHENLYNIEVEDYLPKGVFSFEK
LLKYCEEKTLCPYFIVRRMISLCNIIIYSYHYLLDPKIAERVSNEVSKDSIVIFDEAHNI
DNVCIESLSLDLTTDALRRATRGANALDERISEVRKVDSQKLQDEYEKLVQGLHSADILT
DQEEPFVETPVLPQDLLTEAIPGNIRRAEHFVSFLKRLIEYLKTRMKVLHVISETPKSFL
QHLKQLTFIERKPLRFCSERLSLLVRTLEVTEVEDFTALKDIATFATLISTYEEGFLLII
EPYEIENAAVPNPIMRFTCLDASIAIKPVFERFSSVIITSGTISPLDMYPRMLNFKTVLQ
KSYAMTLAKKSFLPMIITKGSDQVAISSRFEIRNDPSIVRNYGSMLVEFAKITPDGMVVF
FPSYLYMESIVSMWQTMGILDEVWKHKLILVETPDAQETSLALETYRKACSNGRGAILLS
VARGKVSEGIDFDHQYGRTVLMIGIPFQYTESRILKARLEFMRENYRIRENDFLSFDAMR
HAAQCLGRVLRGKDDYGVMVLADRRFSRKRSQLPKWIAQGLSDADLNLSTDMAISNTKQF
LRTMAQPTDPKDQEGVSVWSYEDLIKHQNSRKDQGGFIENENKEGEQDEDEDEDIEMQ
Sequence of entity 2 (1), FASTA
>7O4L_2 General transcription and DNA repair factor IIH subunit TFB1 (chains 1)
GGSMSHSGAAIFEKVSGIIAINEDVSPAELTWRSTDGDKVHTVVLSTIDKLQATPASSEK
MMLRLIGKVDESKKRKDNEGNEVVPKPQRHMFSFNNRTVMDNIKMTLQQIISRYKDADIY
EEKRRREESAQHTETPMSSSSVTAGTPTPHLDTPQLNNGAPLINTAKLDDSLSKEKLLTN
LKLQQSLLKGNKVLMKVFQETVINAGLPPSEFWSTRIPLLRAFALSTSQKVGPYNVLSTI
KPVASSENKVNVNLSREKILNIFENYPIVKKAYTDNVPKNFKEPEFWARFFSSKLFRKLR
GEKIMQNDRGDVIIDRYLTLDQEFDRKDDDMLLHPVKKIIDLDGNIQDDPVVRGNRPDFT
MQPGVDINGNSDGTVDILKGMNRLSEKMIMALKNEYSRTNLQNKSNITNDEEDEDNDERN
ELKIDDLNESYKTNYAIIHLKRNAHEKTTDNDAKSSADSIKNADLKVSNQQMLQQLSLVM
DNLINKLDLNQVVPNNEVSNKINKRVITAIKINAKQAKHNNVNSALGSFVDNTSQANELE
VKSTLPIDLLESCRMLHTTCCEFLKHFYIHFQSGEQKQASTVKKLYNHLKDCIEKLNELF
QDVLNGDGESMSNTCTAYLKPVLNSITLATHKYDEYFNEYNNNSN
Sequence of entity 3 (2), FASTA
>7O4L_3 General transcription and DNA repair factor IIH subunit TFB2 (chains 2)
GPGSMSDYSLKHSVTQYLEEIPQQVQNRLYTSPATCLAIYRILPPLAKFFIMAMVFNENE
VPLLDLDKWVNSNGKLQFQNAIKSMKSLHLLIPNKSSGTLMINLNPTFKISLRNALTGGE
VQNSFGVVVEENVVSLDLLDEYSANKWETILHFMVGTPLAKIPSEKVLNLLKHSKLMEEV
NSTGEFKITNEGFQFLLQEINSQLWTLLLQYLKMIETSKMDLVDVLHFIFMLGALEVGKA
YKIDALSETQRIMLQDMRDYGLVFQKHSNDSIFYPTKLALMLTSDTKTIRSASNAMDSVL
RQNREEPSVNEDGANGKSTTDITTSDDLNKAGLKNQDIPDGSLIVETNFKIYSYSNSPLQ
IAVLSLFVHLKARFVNMVLGQITRESIRRALTNGITADQIIAYLETHAHPQMRRLAEEKL
EKKLELDPNCKEPLQVLPPTVVDQIRLWQLELDRVITYEGSLYSDFETSQEYNLLSKYAQ
DIGVLLWKDDKKKKFFISKEGNSQVLDFAKRKLKKKQ
Sequence of entity 4 (3), FASTA
>7O4L_4 RNA polymerase II transcription factor B subunit 3 (chains 3)
GPHMLMDEYEENKDMCPICKTDRYLSPDVKFLVNPECYHRICESCVDRIFSLGPAQCPYK
GCDKILRKNKFKTQIFDDVEVEKEVDIRKRVFNVFNKTIDDFNGDLVEYNKYLEEVEDII
YKLDHGIDVAKTEEKLRTYEELNKQLIMNNLERSRTEIESFEQRQKFEKEMKLKKRLLER
QIEEEERMNKEWTKKEIVNRLSTTTQDINETIEGVKNTVKLKKSSARRKLEELNRVLKNN
PYFNSNVNVQNSRLKDAVPFTPFNGDREAHPRFTLKGSVYNDPFIKDLEHRKEFIASGFN
TNYAYERVLTEAFMGLGCVISEEL
Sequence of entity 5 (4), FASTA
>7O4L_5 General transcription and DNA repair factor IIH subunit TFB4 (chains 4)
SNAMDAISDPTFKHARSRKQVTEESPSLLTVIIEIAPKLWTTFDEEGNEKGSIIKVLEAL
IVFLNAHLAFNSANKVAVIAAYSQGIKYLYPESTSALKASESENKTRSDLKIINSDMYRR
FRNVDETLVEEIYKLFELEKKQIEQNSQRSTLAGAMSAGLTYVNRISKESVTTSLKSRLL
VLTCGSGSSKDEIFQYIPIMNCIFSATKMKCPIDVVKIGGSKESTFLQQTTDATNGVYLH
VESTEGLIQYLATAMFIDPSLRPIIVKPNHGSVDFRTSCYLTGRVVAVGFICSVCLCVLS
IIPPGNKCPACDSQFDEHVIAKLKRKPVVPRLKAKKKVTKP
Sequence of entity 6 (5), FASTA
>7O4L_6 General transcription and DNA repair factor IIH subunit TFB5 (chains 5)
GPGSMARARKGALVQCDPSIKALILQIDAKMSDIVLEELDDTHLLVNPSKVEFVKHELNR
LLSKNIYNPMDEEENQ
Sequence of entity 7 (6), FASTA
>7O4L_7 General transcription and DNA repair factor IIH subunit SSL1 (chains 6)
GGSMAPVVISESEEDEDRVAITRRTKRQVHFDGEGDDRVDQQQQQHSSSHRDRDKHVQRK
KKKRLSNRNLQGSNGGYAWEDEIKRSWDLVKVDDEGDMASLVASIVEARKKRTAKKNITP
YQRGIIRSLILTLDCSEAMLEKDLRPNRHAMIIQYAIDFVHEFFDQNPISQMGIIIMRNG
LAQLVSQVSGNPQDHIDALKSIRKQEPKGNPSLQNALEMARGLLLPVPAHCTREVLIVFG
SLSTTDPGDIHQTIDSLVSEKIRVKVLGLSAQVAICKELCKATNYGDESFYKILLDETHL
KELFNEAVTPLPVNKINKGFTLVKMGFPTRIFEDTPTFCSCHSKLVYGGYFCPNCHSKVC
SLPTVCPCCDLMLILSTHLARSYHHLMPLKTFAEVPTTEKFRSEDCFSCQSRFPILKNHK
NGKLLTSSRYRCEDCKQEFCVDCDVFIHEILHNCPGCESKPVIT
Sequence of entity 8 (7), FASTA
>7O4L_8 General transcription and DNA repair factor IIH helicase subunit XPB (chains 7)
MTDVEGYQPKSKGKIFPDMGESFFSSDEDSPATDAEIDENYDDNRETSEGRGERDTGAMV
TGLKKPRKKTKSSRHTAADSSMNQMDAKDKALLQDTNSDIPADFVPDSVSGMFRSHDFSY
LRLRPDHASRPLWISPSDGRIILESFSPLAEQAQDFLVTIAEPISRPSHIHEYKITAYSL
YAAVSVGLETDDIISVLDRLSKVPVAESIINFIKGATISYGKVKLVIKHNRYFVETTQAD
ILQMLLNDSVIGPLRIDSDHQVQPPEDVLQQQLQQTAGKPATNVNPNDVEAVFSAVIGGD
NEREEEDDDIDAVHSFEIANESVEVVKKRCQEIDYPVLEEYDFRNDHRNPDLDIDLKPST
QIRPYQEKSLSKMFGNGRARSGIIVLPCGAGKTLVGITAACTIKKSVIVLCTSSVSVMQW
RQQFLQWCTLQPENCAVFTSDNKEMFQTESGLVVSTYSMVANTRNRSHDSQKVMDFLTGR
EWGFIILDEVHVVPAAMFRRVVSTIAAHAKLGLTATLVREDDKIGDLNFLIGPKLYEANW
MELSQKGHIANVQCAEVWCPMTAEFYQEYLRETARKRMLLYIMNPTKFQACQFLIQYHER
RGDKIIVFSDNVYALQEYALKMGKPFIYGSTPQQERMNILQNFQYNDQINTIFLSKVGDT
SIDLPEATCLIQISSHYGSRRQEAQRLGRILRAKRRNDEGFNAFFYSLVSKDTQEMYYST
KRQAFLVDQGYAFKVITHLHGMENIPNLAYASPRERRELLQEVLLKNEEAAGIEVGDDAD
NSVGRGSNGHKRFKSKAVRGEGSLSGLAGGEDMAYMEYSTNKNKELKEHHPLIRKMYYKN
LKK
Sequence of entity 9 (A), FASTA
>7O4L_9 DNA-directed RNA polymerase II subunit RPB1 (chains A)
MVGQQYSSAPLRTVKEVQFGLFSPEEVRAISVAKIRFPETMDETQTRAKIGGLNDPRLGS
IDRNLKCQTCQEGMNECPGHFGHIDLAKPVFHVGFIAKIKKVCECVCMHCGKLLLDEHNE
LMRQALAIKDSKKRFAAIWTLCKTKMVCETDVPSEDDPTQLVSRGGCGNTQPTIRKDGLK
LVGSWKKDRATGDADEPELRVLSTEEILNIFKHISVKDFTSLGFNEVFSRPEWMILTCLP
VPPPPVRPSISFNESQRGEDDLTFKLADILKANISLETLEHNGAPHHAIEEAESLLQFHV
ATYMDNDIAGQPQALQKSGRPVKSIRARLKGKEGRIRGNLMGKRVDFSARTVISGDPNLE
LDQVGVPKSIAKTLTYPEVVTPYNIDRLTQLVRNGPNEHPGAKYVIRDSGDRIDLRYSKR
AGDIQLQYGWKVERHIMDNDPVLFNRQPSLHKMSMMAHRVKVIPYSTFRLNLSVTSPYNA
DFDGDEMNLHVPQSEETRAELSQLCAVPLQIVSPQSNKPCMGIVQDTLCGIRKLTLRDTF
IELDQVLNMLYWVPDWDGVIPTPAIIKPKPLWSGKQILSVAIPNGIHLQRFDEGTTLLSP
KDNGMLIIDGQIIFGVVEKKTVGSSNGGLIHVVTREKGPQVCAKLFGNIQKVVNFWLLHN
GFSTGIGDTIADGPTMREITETIAEAKKKVLDVTKEAQANLLTAKHGMTLRESFEDNVVR
FLNEARDKAGRLAEVNLKDLNNVKQMVMAGSKGSFINIAQMSACVGQQSVEGKRIAFGFV
DRTLPHFSKDDYSPESKGFVENSYLRGLTPQEFFFHAMGGREGLIDTAVKTAETGYIQRR
LVKALEDIMVHYDNTTRNSLGNVIQFIYGEDGMDAAHIEKQSLDTIGGSDAAFEKRYRVD
LLNTDHTLDPSLLESGSEILGDLKLQVLLDEEYKQLVKDRKFLREVFVDGEANWPLPVNI
RRIIQNAQQTFHIDHTKPSDLTIKDIVLGVKDLQENLLVLRGKNEIIQNAQRDAVTLFCC
LLRSRLATRRVLQEYRLTKQAFDWVLSNIEAQFLRSVVHPGEMVGVLAAQSIGEPATQMT
LNTFHFAGVASKKVTSGVPRLKEILNVAKNMKTPSLTVYLEPGHAADQEQAKLIRSAIEH
TTLKSVTIASEIYYDPDPRSTVIPEDEEIIQLHFSLLDEEAEQSFDQQSPWLLRLELDRA
AMNDKDLTMGQVGERIKQTFKNDLFVIWSEDNDEKLIIRCRVVRPKSLDAETEAEEDHML
KKIENTMLENITLRGVENIERVVMMKYDRKVPSPTGEYVKEPEWVLETDGVNLSEVMTVP
GIDPTRIYTNSFIDIMEVLGIEAGRAALYKEVYNVIASDGSYVNYRHMALLVDVMTTQGG
LTSVTRHGFNRSNTGALMRCSFEETVEILFEAGASAELDDCRGVSENVILGQMAPIGTGA
FDVMIDEESLVKYMPEQKITEIEDGQDGGVTPYSNESGLVNADLDVKDELMFSPLVDSGS
NDAMAGGFTAYGGADYGEATSPFGAYGEAPTSPGFGVSSPGFSPTSPTYSPTSPAYSPTS
PSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYS
PTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPSYSPTSPAYSPTSPSYSPTSPSYSPTSP
SYSPTSPSYSPTSPNYSPTSPSYSPTSPGYSPGSPAYSPKQDEQKHNENENSR
Sequence of entity 10 (B), FASTA
>7O4L_10 DNA-directed RNA polymerase II subunit RPB2 (chains B)
MSDLANSEKYYDEDPYGFEDESAPITAEDSWAVISAFFREKGLVSQQLDSFNQFVDYTLQ
DIICEDSTLILEQLAQHTTESDNISRKYEISFGKIYVTKPMVNESDGVTHALYPQEARLR
NLTYSSGLFVDVKKRTYEAIDVPGRELKYELIAEESEDDSESGKVFIGRLPIMLRSKNCY
LSEATESDLYKLKECPFDMGGYFIINGSEKVLIAQERSAGNIVQVFKKAAPSPISHVAEI
RSALEKGSRFISTLQVKLYGREGSSARTIKATLPYIKQDIPIVIIFRALGIIPDGEILEH
ICYDVNDWQMLEMLKPCVEDGFVIQDRETALDFIGRRGTALGIKKEKRIQYAKDILQKEF
LPHITQLEGFESRKAFFLGYMINRLLLCALDRKDQDDRDHFGKKRLDLAGPLLAQLFKTL
FKKLTKDIFRYMQRTVEEAHDFNMKLAINAKTITSGLKYALATGNWGEQKKAMSSRAGVS
QVLNRYTYSSTLSHLRRTNTPIGRDGKLAKPRQLHNTHWGLVCPAETPEGQACGLVKNLS
LMSCISVGTDPMPIITFLSEWGMEPLEDYVPHQSPDATRVFVNGVWHGVHRNPARLMETL
RTLRRKGDINPEVSMIRDIREKELKIFTDAGRVYRPLFIVEDDESLGHKELKVRKGHIAK
LMATEYQDIEGGFEDVEEYTWSSLLNEGLVEYIDAEEEESILIAMQPEDLEPAEANEEND
LDVDPAKRIRVSHHATTFTHCEIHPSMILGVAASIIPFPDHNQSPRNTYQSAMGKQAMGV
FLTNYNVRMDTMANILYYPQKPLGTTRAMEYLKFRELPAGQNAIVAIACYSGYNQEDSMI
MNQSSIDRGLFRSLFFRSYMDQEKKYGMSITETFEKPQRTNTLRMKHGTYDKLDDDGLIA
PGVRVSGEDVIIGKTTPISPDEEELGQRTAYHSKRDASTPLRSTENGIVDQVLVTTNQDG
LKFVKVRVRTTKIPQIGDKFASRHGQKGTIGITYRREDMPFTAEGIVPDLIINPHAIPSR
MTVAHLIECLLSKVAALSGNEGDASPFTDITVEGISKLLREHGYQSRGFEVMYNGHTGKK
LMAQIFFGPTYYQRLRHMVDDKIHARARGPMQVLTRQPVEGRSRDGGLRFGEMERDCMIA
HGAASFLKERLMEASDAFRVHICGICGLMTVIAKLNHNQFECKGCDNKIDIYQIHIPYAA
KLLFQELMAMNITPRLYTDRSRDF
Sequence of entity 11 (D), FASTA
>7O4L_11 DNA-directed RNA polymerase II subunit RPB4 (chains D)
MNVSTSTFQTRRRRLKKVEEEENAATLQLGQEFQLKQINHQGEEEELIALNLSEARLVIK
EALVERRRAFKRSQKKHKKKHLKHENANDETTAVEDEDDDLDEDDVNADDDDFMHSETRE
KELESIDVLLEQTTGGNNKDLKNTMQYLTNFSRFRDQETVGAVIQLLKSTGLHPFEVAQL
GSLACDTADEAKTLIPSLNNKISDDELERILKELSNLETLY
Sequence of entity 12 (F), FASTA
>7O4L_12 DNA-directed RNA polymerases I, II, and III subunit RPABC2 (chains F)
MSDYEEAFNDGNENFEDFDVEHFSDEETYEEKPQFKDGETTDANGKTIVTGGNGPEDFQQ
HEQIRRKTLKEKAIPKDQRATTPYMTKYERARILGTRALQISMNAPVFVDLEGETDPLRI
AMKELAEKKIPLVIRRYLPDGSFEDWSVEELIVDL
Ligands and cofactors
| ID | Name | Formula | Copies |
|---|
| SF4 | Iron/sulfur cluster | Fe4 S4 | 1 |
| ZN | Zinc ion | Zn | 11 |
| BEF | Beryllium trifluoride ion | Be F3 | 1 |
| MG | Magnesium ion | Mg | 1 |
| ADP | Adenosine-5'-diphosphate | C10 H15 N5 O10 P2 | 1 |
Primary citation
Structure of RNA polymerase II pre-initiation complex at 2.9 angstrom defines initial DNA opening. Schilbach, S., Aibara, S., Dienemann, C. et al. Cell (2021) 184:4064-4072.e28. DOI 10.1016/j.cell.2021.05.012 · PubMed
Other PDB entries of the same protein (UniProt P06839 (AlphaFold model), which also has an AlphaFold model), best resolution first:
- 7O4J 2.9 Å, Yeast RNA polymerase II transcription pre-initiation complex (consensus)
- 7ML0 3.0 Å, RNA polymerase II pre-initiation complex (PIC1)
- 8CEN 3.0 Å, Yeast RNA polymerase II transcription pre-initiation complex with core Mediator
- 7ML4 3.1 Å, RNA polymerase II initially transcribing complex (ITC)
- 7ZS9 3.1 Å, Yeast RNA polymerase II transcription pre-initiation complex with the +1 nucleosome…
- 7O4I 3.2 Å, Yeast RNA polymerase II transcription pre-initiation complex with initial transcription…
- 7O75 3.2 Å, Yeast RNA polymerase II transcription pre-initiation complex with open promoter DNA
- 7ML2 3.4 Å, RNA polymerase II pre-initiation complex (PIC3)
- 7O72 3.4 Å, Yeast RNA polymerase II transcription pre-initiation complex with closed promoter DNA
- 7O73 3.4 Å, Yeast RNA polymerase II transcription pre-initiation complex with closed distorted…
- 7O4K 3.6 Å, Yeast TFIIH in the contracted state within the pre-initiation complex
- 8CEO 3.6 Å, Yeast RNA polymerase II transcription pre-initiation complex with core Mediator and the…
Browse structure collections
About this viewer
MolViewer shows 7O4L directly in your browser with nothing to install. Switch between cartoon, ball-and-stick, spacefill and surface views, color by chain, secondary structure or B-factor, measure distances, angles and dihedrals, and share or embed the view.