MolNFT v1 · #162446 · protein
Structural basis of transcription inhibition by the DNA mimic ocr protein of bacteriophage T7
6R9G · DNA-directed RNA polymerase subunit alpha: “Structural basis of transcription inhibition by the DNA mimic ocr protein of bacteriophage T7”. Electron microscopy, 20 pockets (best druggability 0.87). MolNFT v1 #162446 on GenesisL1: 3D…
- PDB
- 6R9G
- Type
- protein
- Length
- 3,421 residues
- Chains
- 7
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA-directed RNA polymerase subunit alpha; DNA-directed RNA polymerase subunit beta…
- EC
- 2.7.7.6
- UniProt
- P0A7Z4, P0A8V2, P0A8T7, P0A800, P03775
- Pockets
- 20 · best druggability 0.87
Structure
electron microscopy · 7 distinct chains · 31% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA-directed RNA polymerase subunit alpha (EC 2.7.7.6) | protein | 230 | 16% helix, 27% strand | P0A7Z4 |
| B | DNA-directed RNA polymerase subunit alpha (EC 2.7.7.6) | protein | 231 | 19% helix, 26% strand | P0A7Z4 |
| C | DNA-directed RNA polymerase subunit beta (EC 2.7.7.6) | protein | 1341 | 28% helix, 15% strand | P0A8V2 |
| D | DNA-directed RNA polymerase subunit beta' (EC 2.7.7.6) | protein | 1334 | 33% helix, 7% strand | P0A8T7 |
| E | DNA-directed RNA polymerase subunit omega (EC 2.7.7.6) | protein | 75 | 57% helix, 0% strand | P0A800 |
| G | Overcome classical restriction GP0.3 | protein | 104 | 66% helix, 0% strand | P03775 |
| F | Overcome classical restriction GP0.3 | protein | 106 | 59% helix, 0% strand | P03775 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1089 | 0.87 | 0.88 | 129 | empty |
| 2 | 1139 | 0.86 | 0.87 | 128 | empty |
| 3 | 867 | 0.86 | 0.88 | 95 | empty |
| 4 | 990 | 0.84 | 0.85 | 110 | empty |
| 5 | 336 | 0.82 | 0.92 | 58 | empty |
Interfaces
13 interfaces between chains.
- C–D · 7387 Ų buried · 54 hydrogen bonds · protein-protein
- A–C · 1947 Ų buried · 24 hydrogen bonds · protein-protein
- A–B · 1876 Ų buried · 7 hydrogen bonds · protein-protein
- D–E · 1570 Ų buried · 14 hydrogen bonds · protein-protein
- C–F · 1344 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 6R9G · Structural basis of transcription inhibition by the DNA mimic Ocr protein of… · the same entry in another collection · chain F against F, TM-score 1.00
- P0A8V2 · AlphaFold monomer V2.0 prediction for DNA-directed RNA polymerase subunit beta (P0A8V2) · a predicted model of the same protein · chain C against A, TM-score 0.94
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 P0A7Z4
- Every structure of UniProt P0A8V2
- Every structure of UniProt P0A8T7
- Every structure of UniProt P0A800
- Every structure of UniProt P03775
- Elsewhere: RCSB PDB 6R9G · PDBe 6R9G · UniProt P0A7Z4 · UniProt P0A8V2 · UniProt P0A8T7 · UniProt P0A800 · UniProt P03775
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