MolNFT v1 · #179108 · protein
Crystal structure of a beta-helix domain retrieved from capybara gut metagenome
7JVI: “Crystal structure of a beta-helix domain retrieved from capybara gut metagenome”. X-ray diffraction, 1 ligand (CA), 4 pockets (best druggability 0.64). MolNFT v1 #179108 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7JVI
- Type
- protein
- Length
- 842 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Beta-helix domain
- Ligands
- CA
- Pockets
- 4 · best druggability 0.64
Structure
x-ray diffraction · 1 distinct chain · 6% helix, 43% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Beta-helix domain | protein | 421 | 6% helix, 43% strand | — |
Ligands and binding sites
- CA · Calcium ion · metal · 2 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 390 | 0.64 | 0.78 | 41 | empty |
| 2 | 70 | 0.34 | 0.76 | 17 | empty |
| 3 | 57 | 0.28 | 0.74 | 15 | empty |
| 4 | 56 | 0.27 | 0.73 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 510 Ų buried · 10 hydrogen bonds · protein-protein
Compared structures
- 7JVI · Crystal structure of a beta-helix domain retrieved from capybara gut metagenome · 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
- Elsewhere: RCSB PDB 7JVI · PDBe 7JVI
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