MolNFT v1 · #78083 · protein
Lactococcal oppa complexed with slsqlssqs
3RYA · Oligopeptide-binding protein oppa: “Lactococcal oppa complexed with slsqlssqs”. X-ray diffraction, 6 pockets (best druggability 0.88). MolNFT v1 #78083 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 3RYA
- Type
- protein
- Length
- 568 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Oligopeptide-binding protein oppa; Oligopeptide
- UniProt
- A2RJ53
- Pockets
- 6 · best druggability 0.88
Structure
x-ray diffraction · 2 distinct chains · 30% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Oligopeptide-binding protein oppa | protein | 559 | 31% helix, 22% strand | A2RJ53 |
| B | Oligopeptide | protein | 9 | 0% helix, 33% strand | — |
Pockets
6 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 996 | 0.88 | 0.89 | 87 | empty |
| 2 | 232 | 0.82 | 0.95 | 46 | empty |
| 3 | 150 | 0.44 | 0.75 | 24 | empty |
| 4 | 127 | 0.43 | 0.76 | 31 | empty |
| 5 | 98 | 0.41 | 0.77 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 934 Ų buried · 19 hydrogen bonds · protein-protein
Compared structures
- 3RYA · Lactococcal OppA complexed with SLSQLSSQS · 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 A2RJ53
- Elsewhere: RCSB PDB 3RYA · PDBe 3RYA · UniProt A2RJ53
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