MolNFT v1 · #33732 · protein
Cytochrome C3 from desulfovibrio vulgaris hildenborough
2CTH: “Cytochrome C3 from desulfovibrio vulgaris hildenborough”. X-ray diffraction, 1 ligand (HEM), 2 pockets (best druggability 0.79). MolNFT v1 #33732 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2CTH
- Type
- protein
- Length
- 214 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Cytochrome C3
- UniProt
- P00131
- Ligands
- HEM
- Pockets
- 2 · best druggability 0.79
Structure
x-ray diffraction · 1 distinct chain · 27% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Cytochrome C3 | protein | 107 | 27% helix, 11% strand | P00131 |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · 8 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 678 | 0.79 | 0.83 | 67 | HEM |
| 2 | 529 | 0.76 | 0.83 | 59 | HEM |
Interfaces
1 interface between chains.
- A–B · 270 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 16 cofactor (heme attachment).
Compared structures
- 2CTH · Cytochrome C3 from desulfovibrio vulgaris hildenborough · the same entry in another collection · chain A against A, TM-score 1.00
- P00131 · AlphaFold monomer V2.0 prediction for cytochrome C3 (P00131) · a predicted model of the same protein · chain A against A, TM-score 0.98
- 1GX7 · Best model of the electron transfer complex between cytochrome C3 and [fe]-hydrogenase · a predicted model of the same protein · chain A against E, TM-score 0.81
- 1GX7 · Best model of the electron transfer complex between cytochrome c3 and [Fe]-hydrogenase · a predicted model of the same protein · chain A against E, TM-score 0.81
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 P00131
- Elsewhere: RCSB PDB 2CTH · PDBe 2CTH · UniProt P00131
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