Research workbench
Coos-V with partially oxidized hybrid cluster by hydroxylamine
Analyse Coos-V with partially oxidized hybrid cluster by hydroxylamine in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7B95
- Type
- protein
- Length
- 1,258 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Carbon monoxide dehydrogenase
- EC
- 1.2.7.4
- UniProt
- Q3AG28
- Ligands
- SF4, SF3, TAM, FES
- Pockets
- 9 · best druggability 0.77
Structure
x-ray diffraction · 1 distinct chain · 54% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Carbon monoxide dehydrogenase (EC 1.2.7.4) | protein | 629 | 54% helix, 12% strand | Q3AG28 |
Ligands and binding sites
- SF4 · Iron/sulfur cluster · ligand · 2 copies · chains A, B
- SF3 · FE4-S3 cluster · ligand · 2 copies · chains A, B
- TAM · Tris(hydroxyethyl)aminomethane · ligand · 2 copies · chains A, B
- FES · Fe2/s2 (inorganic) cluster · ligand · chains A, B
- BU3 · (R,R)-2,3-butanediol · additive · 9 copies · chains A, B
- PEG · Di(hydroxyethyl)ether · additive · 7 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 155 | 0.77 | 0.93 | 55 | empty |
| 2 | 106 | 0.75 | 0.95 | 33 | PEG |
| 3 | 103 | 0.74 | 0.94 | 37 | empty |
| 4 | 84 | 0.66 | 0.91 | 27 | BU3 |
| 5 | 184 | 0.49 | 0.77 | 32 | empty |
Interfaces
1 interface between chains.
- A–B · 4075 Ų buried · 82 hydrogen bonds · protein-protein
Compared structures
- 7B95 · CooS-V with partially oxidized hybrid cluster by hydroxylamine · 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 Q3AG28
- Elsewhere: RCSB PDB 7B95 · PDBe 7B95 · UniProt Q3AG28
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