Research workbench
High-resolution crystal structure of the electron transfer complex of cytochrome P450CAM with putidaredoxin
Analyse High-resolution crystal structure of the electron transfer complex of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5GXG
- Type
- protein
- Length
- 507 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Camphor 5-monooxygenase; Putidaredoxin
- EC
- 1.14.15.1
- UniProt
- P00183, P00259
- Ligands
- HEM, FES, SO4
- Pockets
- 5 · best druggability 0.85
Structure
x-ray diffraction · 2 distinct chains · 44% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Camphor 5-monooxygenase (EC 1.14.15.1) | protein | 401 | 50% helix, 11% strand | P00183 |
| B | Putidaredoxin | protein | 106 | 19% helix, 22% strand | P00259 |
Ligands and binding sites
- HEM · Protoporphyrin IX containing Fe · ligand · chains A
- FES · Fe2/s2 (inorganic) cluster · ligand · chains B
- SO4 · Sulfate ion · ion · 5 copies · chains A, B
- DTT · 2,3-dihydroxy-1,4-dithiobutane · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 694 | 0.85 | 0.88 | 78 | HEM, DTT |
| 2 | 404 | 0.57 | 0.75 | 43 | empty |
| 3 | 73 | 0.41 | 0.80 | 20 | empty |
| 4 | 79 | 0.37 | 0.77 | 15 | empty |
| 5 | 58 | 0.35 | 0.78 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 626 Ų buried · 8 hydrogen bonds · protein-protein
Compared structures
- 5GXG · High-resolution crystal structure of the electron transfer complex of cytochrome p450cam… · the same entry in another collection · chain A against A, TM-score 1.00
- P00259 · AlphaFold monomer V2.0 prediction for putidaredoxin (P00259) · a predicted model of the same protein · chain B against A, TM-score 0.99
- P00183 · AlphaFold monomer V2.0 prediction for camphor 5-monooxygenase (P00183) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 P00183
- Every structure of UniProt P00259
- Elsewhere: RCSB PDB 5GXG · PDBe 5GXG · UniProt P00183 · UniProt P00259
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