MolNFT v1 · #46248 · protein
Structure of vibrio proteolyticus aminopeptidase with a bound TRP fragment of dlwcf
2NYQ: “Structure of vibrio proteolyticus aminopeptidase with a bound TRP fragment of dlwcf”. X-ray diffraction, 1 ligand (ZN). MolNFT v1 #46248 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 2NYQ
- Type
- protein
- Length
- 292 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Aminopeptidase; Tetrapeptide
- EC
- 3.4.11.10
- UniProt
- Q01693
- Ligands
- ZN
Structure
x-ray diffraction · 2 distinct chains · 38% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Aminopeptidase (EC 3.4.11.10) | protein | 291 | 38% helix, 17% strand | Q01693 |
| B | Tetrapeptide | protein | 1 | 0% helix, 0% strand | — |
Ligands and binding sites
- ZN · Zinc ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
1 interface between chains.
- A–B · 222 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 2NYQ · Structure of Vibrio proteolyticus aminopeptidase with a bound Trp fragment of dLWCF · the same entry in another collection · chain A against A, TM-score 1.00
- Q01693 · AlphaFold monomer V2.0 prediction for bacterial leucyl aminopeptidase (Q01693) · a predicted model of the same protein · 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 Q01693
- Elsewhere: RCSB PDB 2NYQ · PDBe 2NYQ · UniProt Q01693
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