MolNFT v1 · #39311 · protein
Crystal structure of coelenterazine-binding protein from renilla muelleri in the ca loaded apo form
2HQ8 · Coelenterazine-binding protein ca-bound apo form: “Crystal structure of coelenterazine-binding protein from renilla muelleri in the ca loaded apo form”. X-ray diffraction, 1 ligand (CA), 4 pockets (best druggability 0.72). MolNFT v1…
- PDB
- 2HQ8
- Type
- protein
- Length
- 363 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Coelenterazine-binding protein ca-bound apo form
- UniProt
- P05938
- Ligands
- CA
- Pockets
- 4 · best druggability 0.72
Structure
x-ray diffraction · 2 distinct chains · 64% helix, 4% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Coelenterazine-binding protein ca-bound apo form | protein | 181 | 67% helix, 3% strand | P05938 |
| B | Coelenterazine-binding protein ca-bound apo form | protein | 182 | 62% helix, 4% strand | P05938 |
Ligands and binding sites
- CA · Calcium ion · metal · 6 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 379 | 0.72 | 0.82 | 41 | empty |
| 2 | 474 | 0.71 | 0.81 | 45 | empty |
| 3 | 378 | 0.71 | 0.82 | 33 | empty |
| 4 | 80 | 0.33 | 0.74 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 819 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
- 2HQ8 · Crystal structure of coelenterazine-binding protein from renilla muelleri in the ca… · the same entry in another collection · chain A against A, TM-score 1.00
- P05938 · AlphaFold monomer V2.0 prediction for luciferin-binding protein (P05938) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 P05938
- Elsewhere: RCSB PDB 2HQ8 · PDBe 2HQ8 · UniProt P05938
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