4V1O
Architecture of the RNA polymerase II-Mediator core transcription initiation complex
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 (PF05001) Pfam (PF00623) Pfam (PF04983) Pfam (PF05000) Pfam (PF04998) Pfam (PF04992) Pfam (PF04990) | 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 |
| 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 (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 (BAKER'S YEAST) | RNA POLYMERASE II SUBUNIT 3, 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 (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 RPABC 1 | polymer | 215 | 25117.1 | 1 | UniProt (P20434) Pfam (PF03871) Pfam (PF01191) | 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, DNA-DIRECTED RNA POLYMERASES I\,II\,AND III SUBUNIT RPABC 1 |
| 6 | F (F) | DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 2 | polymer | 155 | 17931.8 | 1 | UniProt (P20435) Pfam (PF01192) | 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, DNA-DIRECTED RNA POLYMERASES I\,II\,AND III SUBUNIT RPABC 2 |
| 7 | G (G) | DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB7 | polymer | 171 | 19081.1 | 1 | UniProt (P34087) Pfam (PF03876) Pfam (PF00575) | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | RNA POLYMERASE II SUBUNIT B7, B16 |
| 8 | H (H) | DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 3 | polymer | 146 | 16525.4 | 1 | UniProt (P20436) Pfam (PF03870) | 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, DNA-DIRECTED RNA POLYMERASES I\,II\,AND III SUBUNIT RPABC 3 |
| 9 | I (I) | DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 | polymer | 122 | 14308.2 | 1 | UniProt (P27999) Pfam (PF02150) Pfam (PF01096) | 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 |
| 10 | J (J) | DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC 5 | polymer | 70 | 8290.7 | 1 | UniProt (P22139) Pfam (PF01194) | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | RNA POLYMERASES I\,II\,AND III SUBUNIT ABC5, ABC10-BETA, ABC8, DNA-DIRECTED RNA POLYMERASES I\,II\,AND III 8.3 KDA POLYPEPTIDE, DNA-DIRECTED RNA POLYMERASES I\,II\,AND III SUBUNIT RPABC 5 |
| 11 | K (K) | DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 | polymer | 120 | 13633.5 | 1 | UniProt (P38902) Pfam (PF13656) | SACCHAROMYCES CEREVISIAE (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 RPABC 4 | polymer | 70 | 7730.0 | 1 | UniProt (P40422) Pfam (PF03604) | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | RNA POLYMERASES I\,II\,AND III SUBUNIT ABC4, ABC10-ALPHA, DNA-DIRECTED RNA POLYMERASES I\,II\,AND III SUBUNIT RPABC 4 |
| 13 | M (M) | TRANSCRIPTION INITIATION FACTOR IIB | polymer | 345 | 38257.3 | 1 | UniProt (P29055) Pfam (PF08271) Pfam (PF00382) | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | GENERAL TRANSCRIPTION FACTOR TFIIB, TRANSCRIPTION FACTOR E |
| 14 | N (N) | NONTEMPLATE DNA | polymer | 50 | 15449.9 | 1 | SYNTHETIC CONSTRUCT | ||
| 15 | O (O) | TATA-BOX-BINDING PROTEIN | polymer | 181 | 20251.9 | 1 | UniProt (P13393) Pfam (PF00352) | SACCHAROMYCES CEREVISIAE (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 (P) | RNA | polymer | 6 | 1860.2 | 1 | SYNTHETIC CONSTRUCT | ||
| 17 | Q (Q) | TRANSCRIPTION INITIATION FACTOR IIF SUBUNIT ALPHA | polymer | 734 | 82366.1 | 1 | Pfam (PF05793) UniProt (by SIFTS) (A0A0H2UKZ8) | SACCHAROMYCES MIKATAE | |
| 18 | R (R) | TRANSCRIPTION INITIATION FACTOR IIF SUBUNIT BETA | polymer | 331 | 37918.4 | 1 | UniProt (P41896) Pfam (PF17683) Pfam (PF02270) | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | ATP-DEPENDENT HELICASE TFG2, TFIIF MEDIUM SUBUNIT, TFIIF-BETA, TRANSCRIPTION FACTOR G 54 KDA SUBUNIT |
| 19 | S (S) | MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 6 | polymer | 295 | 32844.7 | 1 | UniProt (P38782) Pfam (PF04934) | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | |
| 20 | T (T) | TEMPLATE DNA | polymer | 58 | 17812.4 | 1 | SYNTHETIC CONSTRUCT | ||
| 21 | U (U) | MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 8 | polymer | 222 | 25166.0 | 1 | UniProt (P38304) Pfam (PF10232) | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | |
| 22 | V (V) | MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 20 | polymer | 115 | 13324.2 | 1 | UniProt (Q99278) Pfam (PF10280) | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | HYPER-RECOMBINATION SUPPRESSOR PROTEIN 2, MEDIATOR COMPLEX SUBUNIT 20, SUPPRESSOR OF RNA POLYMERASE B 2 |
| 23 | W (W) | MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 11 | polymer | 687 | 78508.7 | 1 | UniProt (P32569) Pfam (PF10156) | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | MEDIATOR COMPLEX SUBUNIT 11 |
| 24 | X (X) | MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 18 | polymer | 307 | 34316.5 | 1 | UniProt (P32585) Pfam (PF09637) | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | MEDIATOR COMPLEX SUBUNIT 18, SUPPRESSOR OF RNA POLYMERASE B 5 |
| 25 | Y (Y) | MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 20 | polymer | 209 | 22786.9 | 1 | UniProt (P34162) Pfam (PF08612) | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | |
| 26 | Z (Z) | MEDIATOR OF RNA POLYMERASE II TRANSCRIPTION SUBUNIT 22 | polymer | 120 | 13744.5 | 1 | UniProt (P32570) Pfam (PF06179) | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | MEDIATOR COMPLEX SUBUNIT 22, SUPPRESSOR OF RNA POLYMERASE B 6 |
| 27 | AA, BA, DA, EA, FA... (A, B, C, I, J...) | ZINC ION | non-polymer | 65.4 | 9 | Chemie (ZN) | |||
| 28 | CA (A) | MAGNESIUM ION | non-polymer | 24.3 | 1 | Chemie (MG) |
Sequence modifications
O: 61 - 240 (UniProt: P13393)
| PDB | External Database | Details |
|---|---|---|
| Met 60 | - | expression tag |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 26 |
| Total formula weight | 948766.3 | |
| Non-Polymers* | Number of molecules | 10 |
| Total formula weight | 613.0 | |
| All* | Total formula weight | 949379.2 |
