Research workbench
Crystal structure of uncharacterized protein WS1659 from wolinella succinogenes
Analyse Crystal structure of uncharacterized protein WS1659 from wolinella succinogenes in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3JYG
- Type
- protein
- Length
- 1,080 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uncharacterized protein
- UniProt
- Q7MR56
- Ligands
- ZN
- Pockets
- 10 · best druggability 0.80
Structure
x-ray diffraction · 1 distinct chain · 33% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F | Uncharacterized protein | protein | 180 | 33% helix, 35% strand | Q7MR56 |
Ligands and binding sites
- ZN · Zinc ion · metal · 6 copies · chains A, B, C, D, E, F
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1103 | 0.80 | 0.82 | 86 | empty |
| 2 | 735 | 0.72 | 0.78 | 66 | empty |
| 3 | 803 | 0.72 | 0.78 | 63 | empty |
| 4 | 132 | 0.48 | 0.79 | 25 | empty |
| 5 | 121 | 0.48 | 0.79 | 26 | empty |
Interfaces
8 interfaces between chains.
- A–E · 1270 Ų buried · 18 hydrogen bonds · protein-protein
- C–F · 1261 Ų buried · 21 hydrogen bonds · protein-protein
- D–F · 1256 Ų buried · 15 hydrogen bonds · protein-protein
- B–E · 1236 Ų buried · 17 hydrogen bonds · protein-protein
- A–B · 1230 Ų buried · 22 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 modified (engineered).
Compared structures
- 3JYG · Crystal structure of uncharacterized protein WS1659 from Wolinella succinogenes · 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 Q7MR56
- Elsewhere: RCSB PDB 3JYG · PDBe 3JYG · UniProt Q7MR56
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