MolNFT v2 · #169300 · protein + DNA
Crystal structure of a Mycobacterium smegmatis RNA polymerase transcription initiation complex with antibiotic Sorangicin
6VVS: “Crystal structure of a Mycobacterium smegmatis RNA polymerase transcription initiation complex with…”. X-ray diffraction at 3.112, 3 ligands (SRN, ZN, SO4). MolNFT v2 #169300 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 6VVS
- Type
- protein + DNA
- Length
- 3,387 residues
- Chains
- 11
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.112
- Source
- Mycolicibacterium smegmatis (strain ATCC 700084 / mc(2)155); SYNTHETIC CONSTRUCT
- UniProt
- A0QSL8, P60281, A0QS66, A0QWT1, A0QW02, A0QZ11
- Ligands
- SRN, ZN, SO4
Structure
x-ray diffraction · resolution 3.112 · 11 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 218 | — | A0QSL8 |
| B | — | protein | 233 | — | A0QSL8 |
| C | — | protein | 1099 | — | P60281 |
| D | — | protein | 1246 | — | A0QS66 |
| E | — | protein | 76 | — | A0QWT1 |
| F | — | protein | 305 | — | A0QW02 |
| G | — | protein | 17 | — | — |
| J | — | protein | 83 | — | A0QZ11 |
| O | — | dna | 31 | — | — |
| P | — | dna | 26 | — | — |
| T | — | protein | 53 | — | A0QSL8 |
Ligands and binding sites
- SRN · Sorangicin A · ligand · chains C, F
- ZN · Zinc ion · metal · 2 copies · chains D
- SO4 · Sulfate ion · ion · 14 copies · chains C, D, E, F
- EDO · 1,2-ethanediol · additive · 7 copies · chains C, F, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 6VVS · Crystal structure of a mycobacterium smegmatis RNA polymerase transcription initiation… · the same entry in another collection · chain T against T, TM-score 1.00
- A0QSL8 · AlphaFold monomer V2.0 prediction for DNA-directed RNA polymerase subunit alpha (A0QSL8) · a predicted model of the same protein · chain A against A, TM-score 0.95
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 A0QSL8
- Every structure of UniProt P60281
- Every structure of UniProt A0QS66
- Every structure of UniProt A0QWT1
- Every structure of UniProt A0QW02
- Every structure of UniProt A0QZ11
- Elsewhere: RCSB PDB 6VVS · PDBe 6VVS · UniProt A0QSL8 · UniProt P60281 · UniProt A0QS66 · UniProt A0QWT1 · UniProt A0QW02 · UniProt A0QZ11
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