5FMF
the P-lobe of RNA polymerase II pre-initiation complex
Entity
| Entity ID | Chain ID | Description | Type | Chain length | Formula weight | Number of molecules | DB Name (Accession) | Biological source | Descriptive keywords |
| 1 | 1 | DNA REPAIR HELICASE RAD25, SSL2 | polymer | 492 | 56309.7 | 1 | UniProt (Q00578) Pfam (PF04851) Pfam (PF16203) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | GENERAL TRANSCRIPTION AND DNA REPAIR FACTOR IIH SUBUNIT RAD25, TFIIH SUBUNIT RAD25, SUPPRESSOR OF STEM-LOOP MUTATION 2 |
| 2 | 2 | TRANSCRIPTION ELONGATION FACTOR S-II, DST1 | polymer | 174 | 19687.3 | 1 | UniProt (P07273) Pfam (PF07500) Pfam (PF01096) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | DNA STRAND TRANSFER PROTEIN ALPHA, STP-ALPHA, DNA STRAND TRANSFERASE 1, PYRIMIDINE PATHWAY REGULATORY PROTEIN 2 |
| 3 | A | DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB1 | polymer | 1733 | 191821.6 | 1 | UniProt (P04050) Pfam (PF04992) Pfam (PF04990) Pfam (PF05001) Pfam (PF04997) Pfam (PF00623) Pfam (PF04983) Pfam (PF05000) Pfam (PF04998) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | RNA POLYMERASE II SUBUNIT B1, DNA-DIRECTED RNA POLYMERASE III LARGEST SUBUNIT, RNA POLYMERASE II SUBUNIT B220 |
| 4 | 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 |
| 5 | C | DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB3 | polymer | 266 | 29921.8 | 1 | UniProt (P16370) Pfam (PF01193) Pfam (PF01000) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | RNA POLYMERASE II SUBUNIT B3, B44.5, DNA-DIRECTED RNA POLYMERASE II 45 KDA POLYPEPTIDE |
| 6 | D | RNA POLYMERASE II PRE-INITIATION COMPLEX, RPB4 | polymer | 178 | 20433.1 | 1 | Pfam (PF03874) UniProt (by SIFTS) (P20433) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | |
| 7 | E | DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC1, RPB5 | polymer | 214 | 24985.9 | 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, AND III 27 KDA POLYPEPTIDE |
| 8 | F | DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC2, RPB6 | polymer | 84 | 9675.2 | 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, AND III 23 KDA POLYPEPTIDE |
| 9 | 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 |
| 10 | H | DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC3, RPB8 | 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, AND III 14.5 KDA POLYPEPTIDE |
| 11 | I | DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB9 | polymer | 119 | 13942.7 | 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 |
| 12 | J | DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC5, RPB10 | polymer | 65 | 7647.0 | 1 | UniProt (P22139) Pfam (PF01194) In PDB | SACCHAROMYCES CEREVISIAE (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 |
| 13 | K | DNA-DIRECTED RNA POLYMERASE II SUBUNIT RPB11 | polymer | 115 | 13114.0 | 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 |
| 14 | L | DNA-DIRECTED RNA POLYMERASES I, II, AND III SUBUNIT RPABC4, RPB12 | polymer | 46 | 5252.3 | 1 | UniProt (P40422) Pfam (PF03604) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | RNA POLYMERASES I, II, AND III SUBUNIT ABC4, ABC10-ALPHA |
| 15 | M | RNA POLYMERASE II PRE-INITIATION COMPLEX, TOA1 | polymer | 116 | 13588.0 | 1 | Pfam (PF03153) UniProt (by SIFTS) (P32773) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | |
| 16 | N | NON-TEMPLATE STRAND DNA | polymer | 72 | 22483.5 | 1 | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | ||
| 17 | O | TRANSCRIPTION INITIATION FACTOR IIA SUBUNIT 2, TOA2 | 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 |
| 18 | P | TRANSCRIPTION INITIATION FACTOR IIB, SUA7 | 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 |
| 19 | Q | TATA-BOX-BINDING PROTEIN, TBP | polymer | 180 | 20120.8 | 1 | UniProt (P13393) Pfam (PF00352) In PDB | 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 |
| 20 | R | TRANSCRIPTION INITIATION FACTOR IIE SUBUNIT ALPHA, TFA1 | polymer | 160 | 18612.5 | 1 | UniProt (P36100) Pfam (PF02002) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | TFIIE-ALPHA, FACTOR A 66 KDA SUBUNIT, TRANSCRIPTION FACTOR A LARGE SUBUNIT |
| 21 | S | TRANSCRIPTION INITIATION FACTOR IIE SUBUNIT BETA, TFA2 | polymer | 123 | 14524.9 | 1 | UniProt (P36145) Pfam (PF02186) Pfam (PF18121) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | TFIIE-BETA, FACTOR A 43 KDA SUBUNIT, TRANSCRIPTION FACTOR A SMALL SUBUNIT |
| 22 | T | TEMPLATE STRAND DNA | polymer | 72 | 21908.0 | 1 | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | ||
| 23 | U | RNA POLYMERASE II PRE-INITIATION COMPLEX, TFG1 | polymer | 150 | 17708.1 | 1 | Pfam (PF05793) UniProt (by SIFTS) (P41895) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | |
| 24 | V | TRANSCRIPTION INITIATION FACTOR IIF SUBUNIT BETA, TFG2 | polymer | 174 | 20710.9 | 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 |
| 25 | W | RNA POLYMERASE II TRANSCRIPTION FACTOR B SUBUNIT 2, TFB2 | polymer | 62 | 7338.3 | 1 | UniProt (Q02939) Pfam (PF18307) In PDB | SACCHAROMYCES CEREVISIAE (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 |
| 26 | X | RNA POLYMERASE II TRANSCRIPTION FACTOR B SUBUNIT 5, TFB5 | polymer | 63 | 7139.3 | 1 | UniProt (Q3E7C1) Pfam (PF06331) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | GENERAL TRANSCRIPTION AND DNA REPAIR FACTOR IIH SUBUNIT TFB5, TFIIH SUBUNIT TFB5 |
| 27 | Y | DNA REPAIR HELICASE RAD3 | polymer | 778 | 89899.0 | 1 | UniProt (P06839) Pfam (PF06733) Pfam (PF06777) Pfam (PF13307) In PDB | SACCHAROMYCES CEREVISIAE (BAKER'S YEAST) | GENERAL TRANSCRIPTION AND DNA REPAIR FACTOR IIH SUBUNIT RAD3, TFIIH SUBUNIT RAD3 |
| 28 | 2, A | MAGNESIUM ION | non-polymer | 24.3 | 2 | Chemie (MG) | |||
| 29 | 2, A, B, C, I... | ZINC ION | non-polymer | 65.4 | 9 | Chemie (ZN) |
Sequence viewer
Contents of the asymmetric unit
| Polymers | Number of chains | 27 |
| Total formula weight | 873098.0 | |
| Non-Polymers* | Number of molecules | 11 |
| Total formula weight | 637.3 | |
| All* | Total formula weight | 873735.2 |
