5FYW
Transcription initiation complex structures elucidate DNA opening (OC)
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | A | DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 | polymer | 1733 | 191821.6 | 1 | UniProt (P04050) Pfam (PF04997) Pfam (PF05001) Pfam (PF00623) Pfam (PF04983) Pfam (PF05000) Pfam (PF04998) Pfam (PF04992) Pfam (PF04990) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | RNA POLYMERASE II SUBUNIT 1, RNA POLYMERASE II SUBUNIT B1, DNA-DIRECTED RNA POLYMERASE III LARGEST SUBUNIT, RNA POLYMERASE II SUBUNIT B220, RPB1 |
| 2 | 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) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | RNA POLYMERASE II SUBUNIT 2, B150, DNA-DIRECTED RNA POLYMERASE II 140 KDA POLYPEPTIDE, RPB2 |
| 3 | C | DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 | polymer | 318 | 35330.5 | 1 | UniProt (P16370) Pfam (PF01193) Pfam (PF01000) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | RNA POLYMERASE II SUBUNIT 3, RNA POLYMERASE II SUBUNIT B3, B44.5, DNA-DIRECTED RNA POLYMERASE II 45 KDA POLYPEPTIDE, RPB3 |
| 4 | D | DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB4 | polymer | 221 | 25451.2 | 1 | UniProt (P20433) Pfam (PF03874) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | RNA POLYMERASE II SUBUNIT B4, B32, DNA-DIRECTED RNA POLYMERASE II 32 KDA POLYPEPTIDE, RPB4 |
| 5 | E | DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 1 | polymer | 215 | 25117.1 | 1 | UniProt (P20434) Pfam (PF03871) Pfam (PF01191) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | RNA POLYMERASES I, II, AND III SUBUNIT ABC1, ABC27, DNA-DIRECTED RNA POLYMERASES I, II, AND III 27 KDA POLYPEPTIDE, RPB5 |
| 6 | F | DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 2 | polymer | 155 | 17931.8 | 1 | UniProt (P20435) Pfam (PF01192) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | RNA POLYMERASES I, II, AND III SUBUNIT ABC2, ABC23, DNA-DIRECTED RNA POLYMERASES I, II, AND III 23 KDA POLYPEPTIDE, RPB6 |
| 7 | G | DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 | polymer | 171 | 19081.1 | 1 | UniProt (P34087) Pfam (PF03876) Pfam (PF00575) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | RNA POLYMERASE II SUBUNIT B7, B16, RPB7 |
| 8 | H | DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 | polymer | 146 | 16525.4 | 1 | UniProt (P20436) Pfam (PF03870) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | RNA POLYMERASES I, II, AND III SUBUNIT ABC3, ABC14.4, ABC14 .5, DNA-DIRECTED RNA POLYMERASES I, II, AND III 14.5 KDA POLYPEPTIDE, RPB8 |
| 9 | I | DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 | polymer | 122 | 14308.2 | 1 | UniProt (P27999) Pfam (PF02150) Pfam (PF01096) In PDB | SACCHAROMYCES CEREVISIAE (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, RPB9 |
| 10 | J | DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 5 | polymer | 70 | 8290.7 | 1 | UniProt (P22139) Pfam (PF01194) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | RNA POLYMERASES I, II, AND III SUBUNIT ABC5, ABC10-BETA, AB C8, DNA-DIRECTED RNA POLYMERASES I, II, AND III 8.3 KDA POLYPEPTIDE, RPB10 |
| 11 | K | DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 | polymer | 120 | 13633.5 | 1 | UniProt (P38902) Pfam (PF13656) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | RNA POLYMERASE II SUBUNIT B11, B13.6, DNA-DIRECTED RNA POLYMERASE II 13.6 KDA POLYPEPTIDE, RPB11 |
| 12 | L | DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 4 | polymer | 70 | 7730.0 | 1 | UniProt (P40422) Pfam (PF03604) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | RNA POLYMERASES I, II, AND III SUBUNIT ABC4, ABC10-ALPHA, R PB12 |
| 13 | M | TRANSCRIPTION INITIATION FACTOR IIB | polymer | 345 | 38257.3 | 1 | UniProt (P29055) Pfam (PF08271) Pfam (PF00382) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | GENERAL TRANSCRIPTION FACTOR TFIIB, TRANSCRIPTION FACTOR E, TFIIB |
| 14 | N | NONTEMPLATE DNA | polymer | 72 | 22424.3 | 1 | SYNTHETIC CONSTRUCT | ||
| 15 | O | TATA-BOX-BINDING PROTEIN | polymer | 240 | 27042.3 | 1 | UniProt (P13393) Pfam (PF00352) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | TATA SEQUENCE-BINDING PROTEIN, TBP, TATA-BINDING FACTOR, TA TA-BOX FACTOR, TRANSCRIPTION FACTOR D, TRANSCRIPTION INITIATION FACTOR TFIID TBP SUBUNIT |
| 16 | Q | TRANSCRIPTION INITIATION FACTOR IIF SUBUNIT ALPHA | polymer | 735 | 82320.6 | 1 | UniProt (P41895) Pfam (PF05793) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | TFIIF-ALPHA, TFIIF LARGE SUBUNIT, TRANSCRIPTION FACTOR G 10 5 KDA SUBUNIT, P105, TFG1 |
| 17 | R | TRANSCRIPTION INITIATION FACTOR IIF SUBUNIT BETA | polymer | 400 | 46684.5 | 1 | UniProt (P41896) Pfam (PF17683) Pfam (PF02270) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | ATP-DEPENDENT HELICASE TFG2, TFIIF MEDIUM SUBUNIT, TFIIF-BETA, TRANSCRIPTION FACTOR G 54 KDA SUBUNIT, TFG2 |
| 18 | T | NONTEMPLATE DNA | polymer | 72 | 22143.2 | 1 | SYNTHETIC CONSTRUCT | ||
| 19 | U | TRANSCRIPTION INITIATION FACTOR IIA LARGE SUBUNIT | polymer | 286 | 32230.8 | 1 | UniProt (P32773) Pfam (PF03153) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | TFIIA LARGE SUBUNIT, TFIIA 32 KDA SUBUNIT, TOA1 |
| 20 | V | TRANSCRIPTION INITIATION FACTOR IIA SUBUNIT 2 | polymer | 122 | 13473.1 | 1 | UniProt (P32774) Pfam (PF02268) Pfam (PF02751) In PDB | SACCHAROMYCES CEREVISIAE (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, TOA2 |
| 21 | W | TRANSCRIPTION INITIATION FACTOR IIE SUBUNIT ALPHA | polymer | 482 | 54804.8 | 1 | UniProt (P36100) Pfam (PF02002) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | TFIIE-ALPHA, FACTOR A 66 KDA SUBUNIT, TRANSCRIPTION FACTOR A LARGE SUBUNIT, TFA1 |
| 22 | X | TRANSCRIPTION INITIATION FACTOR IIE SUBUNIT BETA | polymer | 328 | 37050.4 | 1 | UniProt (P36145) Pfam (PF02186) Pfam (PF18121) Pfam (PF22254) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | TFIIE-BETA, FACTOR A 43 KDA SUBUNIT, TRANSCRIPTION FACTOR A SMALL SUBUNIT, TFA2 |
| 23 | C, I, J, L, M... | ZINC ION | non-polymer | 65.4 | 10 | Chemie (ZN) | |||
| 24 | A | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 22 |
| Total formula weight | 890589.6 | |
| Non-Polymers* | Number of molecules | 11 |
| Total formula weight | 678.4 | |
| All* | Total formula weight | 891267.9 |
