5OQJ
STRUCTURE OF YEAST TRANSCRIPTION PRE-INITIATION COMPLEX WITH TFIIH
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A (A) | DNA-directed RNA polymerase II subunit RPB1 | polymer | 1733 | 191821.6 | 1 | UniProt (P04050) Pfam (PF04997) Pfam (PF00623) Pfam (PF04983) Pfam (PF05000) Pfam (PF04998) Pfam (PF04992) Pfam (PF04990) Pfam (PF05001) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RNA polymerase II subunit B1,DNA-directed RNA polymerase III largest subunit,RNA polymerase II subunit B220 |
| 2 | B (B) | DNA-directed RNA polymerase II subunit RPB2 | polymer | 1224 | 138937.3 | 1 | UniProt (P08518) Pfam (PF04563) Pfam (PF04561) Pfam (PF04565) Pfam (PF04566) Pfam (PF04567) Pfam (PF00562) Pfam (PF04560) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RNA polymerase II subunit 2,B150,DNA-directed RNA polymerase II 140 kDa polypeptide |
| 3 | C (C) | DNA-directed RNA polymerase II subunit RPB3 | polymer | 318 | 35330.5 | 1 | UniProt (P16370) Pfam (PF01193) Pfam (PF01000) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RNA polymerase II subunit B3,B44.5,DNA-directed RNA polymerase II 45 kDa polypeptide |
| 4 | D (D) | DNA-directed RNA polymerase II subunit RPB4 | polymer | 221 | 25451.2 | 1 | UniProt (P20433) Pfam (PF03874) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RNA polymerase II subunit B4,B32,DNA-directed RNA polymerase II 32 kDa polypeptide |
| 5 | E (E) | DNA-directed RNA polymerases I, II, and III subunit RPABC1 | polymer | 215 | 25117.1 | 1 | UniProt (P20434) Pfam (PF03871) Pfam (PF01191) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RNA polymerases I,II,and III subunit ABC1,ABC27,DNA-directed RNA polymerases I,and III 27 kDa polypeptide |
| 6 | F (F) | DNA-directed RNA polymerases I, II, and III subunit RPABC2 | polymer | 155 | 17931.8 | 1 | UniProt (P20435) Pfam (PF01192) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RNA polymerases I,II,and III subunit ABC2,ABC23,DNA-directed RNA polymerases I,and III 23 kDa polypeptide |
| 7 | G (G) | DNA-directed RNA polymerase II subunit RPB7 | polymer | 171 | 19081.1 | 1 | UniProt (P34087) Pfam (PF03876) Pfam (PF00575) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RNA polymerase II subunit B7,B16 |
| 8 | H (H) | DNA-directed RNA polymerases I, II, and III subunit RPABC3 | polymer | 146 | 16525.4 | 1 | UniProt (P20436) Pfam (PF03870) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RNA polymerases I,II,and III subunit ABC3,ABC14.4,ABC14.5,DNA-directed RNA polymerases I,and III 14.5 kDa polypeptide |
| 9 | I (I) | DNA-directed RNA polymerase II subunit RPB9 | polymer | 122 | 14308.2 | 1 | UniProt (P27999) Pfam (PF02150) Pfam (PF01096) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RNA polymerase II subunit B9,B12.6,DNA-directed RNA polymerase II 14.2 kDa polypeptide,DNA-directed RNA polymerase II subunit 9 |
| 10 | J (J) | DNA-directed RNA polymerases I, II, and III subunit RPABC5 | polymer | 70 | 8290.7 | 1 | UniProt (P22139) Pfam (PF01194) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RNA polymerases I,II,and III subunit ABC5,ABC10-beta,ABC8,DNA-directed RNA polymerases I,and III 8.3 kDa polypeptide |
| 11 | K (K) | DNA-directed RNA polymerase II subunit RPB11 | polymer | 120 | 13633.5 | 1 | UniProt (P38902) Pfam (PF13656) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RNA polymerase II subunit B11,B13.6,DNA-directed RNA polymerase II 13.6 kDa polypeptide |
| 12 | L (L) | DNA-directed RNA polymerases I, II, and III subunit RPABC4 | polymer | 70 | 7730.0 | 1 | UniProt (P40422) Pfam (PF03604) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RNA polymerases I,II,and III subunit ABC4,ABC10-alpha |
| 13 | M (M) | Transcription initiation factor IIB | polymer | 345 | 38257.3 | 1 | UniProt (P29055) Pfam (PF08271) Pfam (PF00382) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | General transcription factor TFIIB,Transcription factor E |
| 14 | N (N) | NONTEMPLATE DNA | polymer | 106 | 32717.0 | 1 | synthetic construct | ||
| 15 | O (O) | TATA-box-binding protein | polymer | 240 | 27042.3 | 1 | UniProt (P13393) Pfam (PF00352) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | TATA sequence-binding protein,TBP,TATA-binding factor,TATA-box factor,Transcription factor D,Transcription initiation factor TFIID TBP subunit |
| 16 | P (Q) | Transcription initiation factor IIF subunit alpha | polymer | 735 | 82320.6 | 1 | UniProt (P41895) Pfam (PF05793) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | TFIIF-alpha,TFIIF large subunit,Transcription factor G 105 kDa subunit,P105 |
| 17 | Q (R) | Transcription initiation factor IIF subunit beta | polymer | 400 | 46684.5 | 1 | UniProt (P41896) Pfam (PF17683) Pfam (PF02270) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | ATP-dependent helicase TFG2,TFIIF medium subunit,TFIIF-beta,Transcription factor G 54 kDa subunit |
| 18 | R (T) | TEMPLATE DNA | polymer | 106 | 32680.9 | 1 | synthetic construct | ||
| 19 | S (U) | Transcription initiation factor IIA large subunit | polymer | 286 | 32230.8 | 1 | UniProt (P32773) Pfam (PF03153) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | TFIIA large subunit,TFIIA 32 kDa subunit |
| 20 | T (V) | Transcription initiation factor IIA subunit 2 | polymer | 122 | 13473.1 | 1 | UniProt (P32774) Pfam (PF02268) Pfam (PF02751) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | General transcription factor IIA subunit 2,TFIIA 13.5 kDa subunit,Transcription initiation factor IIA small chain,Transcription initiation factor IIA small subunit |
| 21 | U (W) | Transcription initiation factor IIE subunit alpha | polymer | 586 | 57538.5 | 1 | UniProt (P36100) Pfam (PF02002) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | TFIIE-alpha,Factor A 66 kDa subunit,Transcription factor A large subunit,TFIIE-alpha,Factor A 66 kDa subunit,Transcription factor A large subunit,TFIIE-alpha,Factor A 66 kDa subunit,Transcription factor A large subunit |
| 22 | V (X) | Transcription initiation factor IIE subunit beta | polymer | 328 | 37050.4 | 1 | UniProt (P36145) Pfam (PF02186) Pfam (PF18121) Pfam (PF22254) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | TFIIE-beta,Factor A 43 kDa subunit,Transcription factor A small subunit |
| 23 | W (0) | DNA repair helicase RAD3 | polymer | 778 | 89064.6 | 1 | UniProt (P06839) Pfam (PF06733) Pfam (PF06777) Pfam (PF13307) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | General transcription and DNA repair factor IIH subunit RAD3,TFIIH subunit RAD3,General transcription and DNA repair factor IIH subunit RAD3,TFIIH subunit RAD3,General transcription and DNA repair factor IIH subunit RAD3,TFIIH subunit RAD3 |
| 24 | X (1) | RNA polymerase II transcription factor B subunit 1 | polymer | 641 | 65440.9 | 1 | UniProt (P32776) Pfam (PF08567) Pfam (PF03909) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | General transcription and DNA repair factor IIH subunit TFB1,TFIIH subunit TFB1,RNA polymerase II transcription factor B 73 kDa subunit,RNA polymerase II transcription factor B p73 subunit,General transcription and DNA repair factor IIH subunit TFB1,TFIIH subunit TFB1,RNA polymerase II transcription factor B 73 kDa subunit,RNA polymerase II transcription factor B p73 subunit,General transcription and DNA repair factor IIH subunit TFB1,TFIIH subunit TFB1,RNA polymerase II transcription factor B 73 kDa subunit,RNA polymerase II transcription factor B p73 subunit,General transcription and DNA repair factor IIH subunit TFB1,TFIIH subunit TFB1,RNA polymerase II transcription factor B 73 kDa subunit,RNA polymerase II transcription factor B p73 subunit,General transcription and DNA repair factor IIH subunit TFB1,TFIIH subunit TFB1,RNA polymerase II transcription factor B 73 kDa subunit,RNA polymerase II transcription factor B p73 subunit |
| 25 | Y (2) | RNA polymerase II transcription factor B subunit 2 | polymer | 462 | 48406.3 | 1 | UniProt (Q02939) Pfam (PF03849) Pfam (PF18307) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | General transcription and DNA repair factor IIH subunit TFB2,TFIIH subunit TFB2,RNA polymerase II transcription factor B 52 kDa subunit,RNA polymerase II transcription factor B p52 subunit,General transcription and DNA repair factor IIH subunit TFB2,TFIIH subunit TFB2,RNA polymerase II transcription factor B 52 kDa subunit,RNA polymerase II transcription factor B p52 subunit,General transcription and DNA repair factor IIH subunit TFB2,TFIIH subunit TFB2,RNA polymerase II transcription factor B 52 kDa subunit,RNA polymerase II transcription factor B p52 subunit,General transcription and DNA repair factor IIH subunit TFB2,TFIIH subunit TFB2,RNA polymerase II transcription factor B 52 kDa subunit,RNA polymerase II transcription factor B p52 subunit,General transcription and DNA repair factor IIH subunit TFB2,TFIIH subunit TFB2,RNA polymerase II transcription factor B 52 kDa subunit,RNA polymerase II transcription factor B p52 subunit,General transcription and DNA repair factor IIH subunit TFB2,TFIIH subunit TFB2,RNA polymerase II transcription factor B 52 kDa subunit,RNA polymerase II transcription factor B p52 subunit,General transcription and DNA repair factor IIH subunit TFB2,TFIIH subunit TFB2,RNA polymerase II transcription factor B 52 kDa subunit,RNA polymerase II transcription factor B p52 subunit |
| 26 | Z (3) | RNA polymerase II transcription factor B subunit 3 | polymer | 321 | 38188.4 | 1 | UniProt (Q03290) Pfam (PF06391) Pfam (PF17121) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | RNA polymerase II transcription factor B 38 kDa subunit,RNA polymerase II transcription factor B p38 subunit |
| 27 | AA (4) | RNA polymerase II transcription factor B subunit 4 | polymer | 338 | 36403.6 | 1 | UniProt (Q12004) Pfam (PF03850) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | General transcription and DNA repair factor IIH subunit TFB4,TFIIH subunit TFB4,RNA polymerase II transcription factor B 34 kDa subunit,RNA polymerase II transcription factor B p34 subunit,General transcription and DNA repair factor IIH subunit TFB4,TFIIH subunit TFB4,RNA polymerase II transcription factor B 34 kDa subunit,RNA polymerase II transcription factor B p34 subunit,General transcription and DNA repair factor IIH subunit TFB4,TFIIH subunit TFB4,RNA polymerase II transcription factor B 34 kDa subunit,RNA polymerase II transcription factor B p34 subunit,General transcription and DNA repair factor IIH subunit TFB4,TFIIH subunit TFB4,RNA polymerase II transcription factor B 34 kDa subunit,RNA polymerase II transcription factor B p34 subunit,General transcription and DNA repair factor IIH subunit TFB4,TFIIH subunit TFB4,RNA polymerase II transcription factor B 34 kDa subunit,RNA polymerase II transcription factor B p34 subunit |
| 28 | BA (5) | RNA polymerase II transcription factor B subunit 5 | polymer | 72 | 8243.5 | 1 | UniProt (Q3E7C1) Pfam (PF06331) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | General transcription and DNA repair factor IIH subunit TFB5,TFIIH subunit TFB5 |
| 29 | CA (6) | Suppressor of stem-loop protein 1 | polymer | 461 | 51122.7 | 1 | UniProt (Q04673) Pfam (PF04056) Pfam (PF07975) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | General transcription and DNA repair factor IIH subunit SSL1,TFIIH subunit SSL1,General transcription and DNA repair factor IIH subunit SSL1,TFIIH subunit SSL1,General transcription and DNA repair factor IIH subunit SSL1,TFIIH subunit SSL1,General transcription and DNA repair factor IIH subunit SSL1,TFIIH subunit SSL1,General transcription and DNA repair factor IIH subunit SSL1,TFIIH subunit SSL1,General transcription and DNA repair factor IIH subunit SSL1,TFIIH subunit SSL1,General transcription and DNA repair factor IIH subunit SSL1,TFIIH subunit SSL1 |
| 30 | DA (7) | DNA repair helicase RAD25 | polymer | 843 | 94049.7 | 1 | UniProt (Q00578) Pfam (PF13625) Pfam (PF04851) Pfam (PF16203) | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | General transcription and DNA repair factor IIH subunit RAD25,TFIIH subunit RAD25,Suppressor of stem-loop mutation 2,General transcription and DNA repair factor IIH subunit RAD25,TFIIH subunit RAD25,Suppressor of stem-loop mutation 2,General transcription and DNA repair factor IIH subunit RAD25,TFIIH subunit RAD25,Suppressor of stem-loop mutation 2,General transcription and DNA repair factor IIH subunit RAD25,TFIIH subunit RAD25,Suppressor of stem-loop mutation 2,General transcription and DNA repair factor IIH subunit RAD25,TFIIH subunit RAD25,Suppressor of stem-loop mutation 2 |
| 31 | EA (Z) | Unknown protein | polymer | 43 | 3677.5 | 1 | Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) | ||
| 32 | FA, GA, IA, JA, KA... (A, B, C, I, J...) | ZINC ION | non-polymer | 65.4 | 16 | Chemie (ZN) | |||
| 33 | HA (A) | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) | |||
| 34 | QA (0) | IRON/SULFUR CLUSTER | non-polymer | 351.6 | 1 | Chemie (SF4) |
Sequence modifications
W: 1 - 194 (UniProt: P36100)
W: 194 - 410 (PDB: 5OQJ)
W: 410 - 482 (UniProt: P36100)
0: 1 - 293 (UniProt: P06839)
0: 294 - 326 (PDB: 5OQJ)
0: 327 - 778 (UniProt: P06839)
1: 1 - 218 (UniProt: P32776)
1: 219 - 249 (PDB: 5OQJ)
1: 250 - 295 (UniProt: P32776)
1: 296 - 519 (PDB: 5OQJ)
1: 537 - 641 (UniProt: P32776)
2: 1 - 112 (UniProt: Q02939)
2: 113 - 159 (PDB: 5OQJ)
2: 160 - 194 (UniProt: Q02939)
2: 195 - 214 (PDB: 5OQJ)
2: 215 - 281 (UniProt: Q02939)
2: 320 - 419 (PDB: 5OQJ)
2: 433 - 513 (UniProt: Q02939)
4: 1 - 88 (UniProt: Q12004)
4: 89 - 114 (PDB: 5OQJ)
4: 115 - 256 (UniProt: Q12004)
4: 257 - 273 (PDB: 5OQJ)
4: 274 - 338 (UniProt: Q12004)
6: 1 - 307 (UniProt: Q04673)
6: 308 - 324 (PDB: 5OQJ)
6: 325 - 372 (UniProt: Q04673)
6: 373 - 386 (PDB: 5OQJ)
6: 387 - 411 (UniProt: Q04673)
6: 412 - 424 (PDB: 5OQJ)
6: 425 - 461 (UniProt: Q04673)
7: 1 - 425 (UniProt: Q00578)
7: 426 - 451 (PDB: 5OQJ)
7: 452 - 462 (UniProt: Q00578)
7: 463 - 481 (PDB: 5OQJ)
7: 482 - 843 (UniProt: Q00578)
W: 194 - 410 (PDB: 5OQJ)
W: 410 - 482 (UniProt: P36100)
0: 1 - 293 (UniProt: P06839)
0: 294 - 326 (PDB: 5OQJ)
0: 327 - 778 (UniProt: P06839)
1: 1 - 218 (UniProt: P32776)
1: 219 - 249 (PDB: 5OQJ)
1: 250 - 295 (UniProt: P32776)
1: 296 - 519 (PDB: 5OQJ)
1: 537 - 641 (UniProt: P32776)
2: 1 - 112 (UniProt: Q02939)
2: 113 - 159 (PDB: 5OQJ)
2: 160 - 194 (UniProt: Q02939)
2: 195 - 214 (PDB: 5OQJ)
2: 215 - 281 (UniProt: Q02939)
2: 320 - 419 (PDB: 5OQJ)
2: 433 - 513 (UniProt: Q02939)
4: 1 - 88 (UniProt: Q12004)
4: 89 - 114 (PDB: 5OQJ)
4: 115 - 256 (UniProt: Q12004)
4: 257 - 273 (PDB: 5OQJ)
4: 274 - 338 (UniProt: Q12004)
6: 1 - 307 (UniProt: Q04673)
6: 308 - 324 (PDB: 5OQJ)
6: 325 - 372 (UniProt: Q04673)
6: 373 - 386 (PDB: 5OQJ)
6: 387 - 411 (UniProt: Q04673)
6: 412 - 424 (PDB: 5OQJ)
6: 425 - 461 (UniProt: Q04673)
7: 1 - 425 (UniProt: Q00578)
7: 426 - 451 (PDB: 5OQJ)
7: 452 - 462 (UniProt: Q00578)
7: 463 - 481 (PDB: 5OQJ)
7: 482 - 843 (UniProt: Q00578)
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 31 |
| Total formula weight | 1348750.8 | |
| Non-Polymers* | Number of molecules | 18 |
| Total formula weight | 1422.5 | |
| All* | Total formula weight | 1350173.2 |
