MolNFT v2 · #165040 · protein
W-formate dehydrogenase from Desulfovibrio vulgaris - Formate reduced form
6SDV: “W-formate dehydrogenase from Desulfovibrio vulgaris - Formate reduced form”. X-ray diffraction at 1.9, 5 ligands (SF4, MGD, W). MolNFT v2 #165040 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6SDV
- Type
- protein
- Length
- 1,181 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.9
- Source
- Desulfovibrio vulgaris (strain Hildenborough / ATCC 29579 / DSM 644 / NCIMB…
- UniProt
- Q72EJ1, Q72EJ0
- Ligands
- SF4, MGD, W, NO3, H2S
Structure
x-ray diffraction · resolution 1.9 · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | — | protein | 967 | — | Q72EJ1 |
| B | — | protein | 214 | — | Q72EJ0 |
Ligands and binding sites
- SF4 · Iron/sulfur cluster · ligand · 4 copies · chains A, B
- MGD · 2-amino-5,6-dimercapto-7-methyl-3,7,8A,9-tetrahydro-8-oxa-1,3,9,10-tetraaza-anthracen-4-one guanosine dinucleotide · ligand · 2 copies · chains A
- W · Tungsten ion · metal · chains A
- NO3 · Nitrate ion · ion · 2 copies · chains A
- H2S · Hydrosulfuric acid · ion · chains A
- GOL · Glycerol · additive · 10 copies · chains A, B
- PEG · Di(hydroxyethyl)ether · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 6SDV · W-formate dehydrogenase from desulfovibrio vulgaris - formate reduced form · the same entry in another collection · chain A against A, 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 Q72EJ1
- Every structure of UniProt Q72EJ0
- Elsewhere: RCSB PDB 6SDV · PDBe 6SDV · UniProt Q72EJ1 · UniProt Q72EJ0
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