MolNFT v1 · #172795 · protein
Co bound as bridging ligand at the active site of vanadium nitrogenase vfe protein
7ADR: “Co bound as bridging ligand at the active site of vanadium nitrogenase vfe protein”. X-ray diffraction, 6 ligands (D6N, HCA, BCT). MolNFT v1 #172795 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7ADR
- Type
- protein
- Length
- 2,101 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- UniProt
- P16855, P16856, P16857
- Ligands
- D6N, HCA, BCT, CLF, MG, CMO
Structure
x-ray diffraction · 5 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, D | — | protein | 473 | — | P16855 |
| B | — | protein | 465 | — | P16856 |
| C | — | protein | 113 | — | P16857 |
| E | — | protein | 466 | — | P16856 |
| F | — | protein | 111 | — | P16857 |
Ligands and binding sites
- D6N · FeV · ligand · 2 copies · chains A, D
- HCA · 3-hydroxy-3-carboxy-adipic acid · ligand · 2 copies · chains A, B, D, E
- BCT · Bicarbonate ion · ligand · 2 copies · chains A, D
- CLF · FE(8)-S(7) cluster · ligand · 2 copies · chains A, B, D, E
- MG · Magnesium ion · metal · 4 copies · chains B, E, C, F
- CMO · Carbon monoxide · ion · 2 copies · chains A, D
- EDO · 1,2-ethanediol · additive · 9 copies · chains B, A, C, E, D, F
- TRS · 2-amino-2-hydroxymethyl-propane-1,3-diol · additive · 3 copies · chains A, B, D, E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Compared structures
- 7ADR · CO bound as bridging ligand at the active site of vanadium nitrogenase VFe protein · the same entry in another collection · chain F against F, TM-score 1.00
- P16856 · AlphaFold monomer V2.0 prediction for nitrogenase vanadium-iron protein beta chain… · a predicted model of the same protein · chain E against A, TM-score 0.99
- P16855 · AlphaFold monomer V2.0 prediction for nitrogenase vanadium-iron protein alpha chain… · a predicted model of the same protein · chain A against A, TM-score 0.99
- P16857 · AlphaFold monomer V2.0 prediction for nitrogenase vanadium-iron protein delta chain… · a predicted model of the same protein · chain C against A, TM-score 0.98
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 P16855
- Every structure of UniProt P16856
- Every structure of UniProt P16857
- Elsewhere: RCSB PDB 7ADR · PDBe 7ADR · UniProt P16855 · UniProt P16856 · UniProt P16857
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