Research workbench
Crystal structure of ripa from yersinia pestis
Analyse Crystal structure of ripa from yersinia pestis in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3S8D
- Type
- protein
- Length
- 862 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Coenzyme a transferase
- UniProt
- Q9ZC36
- Pockets
- 4 · best druggability 0.84
Structure
x-ray diffraction · 1 distinct chain · 34% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Coenzyme a transferase | protein | 431 | 34% helix, 21% strand | Q9ZC36 |
Pockets
4 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 771 | 0.84 | 0.87 | 100 | empty |
| 2 | 468 | 0.67 | 0.79 | 46 | empty |
| 3 | 77 | 0.54 | 0.86 | 17 | empty |
| 4 | 80 | 0.54 | 0.86 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 1616 Ų buried · 19 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 26 modified (engineered).
Compared structures
- 3S8D · Crystal Structure of RipA from Yersinia pestis · 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 Q9ZC36
- Elsewhere: RCSB PDB 3S8D · PDBe 3S8D · UniProt Q9ZC36
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