MolNFT v1 · #183831 · protein + DNA
Yeast RNA polymerase II transcription pre-initiation complex with initial transcription bubble
7O4I: “Yeast RNA polymerase II transcription pre-initiation complex with initial transcription bubble”. Electron microscopy, 5 ligands (SF4, BEF, ADP). MolNFT v1 #183831 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7O4I
- Type
- protein + DNA
- Length
- 9,026 residues
- Chains
- 30
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- P06839, P32776, Q02939, Q03290, Q12004, Q3E7C1, Q04673, Q00578, P04050, P08518, P16370, P20433, P20434, P20435, P34087, P20436, P27999, P22139, P38902, P40422, P29055, P13393, P41895, P41896, P32773, P32774, P36100, P36145
- Ligands
- SF4, BEF, ADP, ZN, MG
Structure
electron microscopy · 30 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| 0 | — | protein | 752 | — | P06839 |
| 1 | — | protein | 522 | — | P32776 |
| 2 | — | protein | 445 | — | Q02939 |
| 3 | — | protein | 131 | — | Q03290 |
| 4 | — | protein | 293 | — | Q12004 |
| 5 | — | protein | 65 | — | Q3E7C1 |
| 6 | — | protein | 356 | — | Q04673 |
| 7 | — | protein | 615 | — | Q00578 |
| A | — | protein | 1430 | — | P04050 |
| B | — | protein | 1180 | — | P08518 |
| C | — | protein | 266 | — | P16370 |
| D | — | protein | 167 | — | P20433 |
| E | — | protein | 214 | — | P20434 |
| F | — | protein | 86 | — | P20435 |
| G | — | protein | 171 | — | P34087 |
| H | — | protein | 140 | — | P20436 |
| I | — | protein | 116 | — | P27999 |
| J | — | protein | 69 | — | P22139 |
| K | — | protein | 115 | — | P38902 |
| L | — | protein | 45 | — | P40422 |
| M | — | protein | 308 | — | P29055 |
| N | — | dna | 67 | — | — |
| O | — | protein | 181 | — | P13393 |
| Q | — | protein | 221 | — | P41895 |
| R | — | protein | 268 | — | P41896 |
| T | — | dna | 67 | — | — |
| U | — | protein | 107 | — | P32773 |
| V | — | protein | 104 | — | P32774 |
| W | — | protein | 312 | — | P36100 |
| X | — | protein | 213 | — | P36145 |
Ligands and binding sites
- SF4 · Iron/sulfur cluster · ligand · chains 0
- BEF · Beryllium trifluoride ion · ligand · chains 7
- ADP · Adenosine-5'-diphosphate · ligand · chains 7
- ZN · Zinc ion · metal · 17 copies · chains 3, 4, 6, A, B, C, I, J, L, M, W
- MG · Magnesium ion · metal · 2 copies · chains 7, A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 7O4I · Yeast RNA polymerase II transcription pre-initiation complex with initial transcription… · the same entry in another collection · chain 2 against 2, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt P06839
- Every structure of UniProt P32776
- Every structure of UniProt Q02939
- Every structure of UniProt Q03290
- Every structure of UniProt Q12004
- Every structure of UniProt Q3E7C1
- Every structure of UniProt Q04673
- Every structure of UniProt Q00578
- Every structure of UniProt P04050
- Every structure of UniProt P08518
- Every structure of UniProt P16370
- Every structure of UniProt P20433
- Every structure of UniProt P20434
- Every structure of UniProt P20435
- Every structure of UniProt P34087
- Every structure of UniProt P20436
- Every structure of UniProt P27999
- Every structure of UniProt P22139
- Every structure of UniProt P38902
- Every structure of UniProt P40422
- Every structure of UniProt P29055
- Every structure of UniProt P13393
- Every structure of UniProt P41895
- Every structure of UniProt P41896
- Every structure of UniProt P32773
- Every structure of UniProt P32774
- Every structure of UniProt P36100
- Every structure of UniProt P36145
- Elsewhere: RCSB PDB 7O4I · PDBe 7O4I · UniProt P06839 · UniProt P32776 · UniProt Q02939 · UniProt Q03290 · UniProt Q12004 · UniProt Q3E7C1 · UniProt Q04673 · UniProt Q00578 · UniProt P04050 · UniProt P08518 · UniProt P16370 · UniProt P20433 · UniProt P20434 · UniProt P20435 · UniProt P34087 · UniProt P20436 · UniProt P27999 · UniProt P22139 · UniProt P38902 · UniProt P40422 · UniProt P29055 · UniProt P13393 · UniProt P41895 · UniProt P41896 · UniProt P32773 · UniProt P32774 · UniProt P36100 · UniProt P36145
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