MolNFT v1 · #57007 · protein
Aminopeptidase N complexed with the aminophosphinic inhibitor of PL250, a transition state analogue
2ZXG: “Aminopeptidase N complexed with the aminophosphinic inhibitor of PL250, a transition state analogue”. X-ray diffraction, 3 ligands (S23, ZN, SO4), 10 pockets (best druggability 0.82). MolNFT v1 #57007 on GenesisL1: 3D structure…
- PDB
- 2ZXG
- Type
- protein
- Length
- 866 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Aminopeptidase N
- EC
- 3.4.11.2
- UniProt
- P04825
- Ligands
- S23, ZN, SO4
- Pockets
- 10 · best druggability 0.82
Structure
x-ray diffraction · 1 distinct chain · 44% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Aminopeptidase N (EC 3.4.11.2) | protein | 866 | 44% helix, 22% strand | P04825 |
Ligands and binding sites
- S23 · N-{(2S)-3-[(1R)-1-aminoethyl](hydroxy)phosphoryl-2-benzylpropanoyl}-L-phenylalanine · ligand · chains A
- ZN · Zinc ion · metal · chains A
- SO4 · Sulfate ion · ion · chains A
- GOL · Glycerol · additive · 7 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 570 | 0.82 | 0.88 | 81 | S23, GOL |
| 2 | 501 | 0.74 | 0.82 | 62 | empty |
| 3 | 245 | 0.71 | 0.86 | 35 | empty |
| 4 | 591 | 0.69 | 0.78 | 60 | GOL |
| 5 | 174 | 0.67 | 0.86 | 30 | empty |
Compared structures
- 2ZXG · Aminopeptidase N complexed with the aminophosphinic inhibitor of PL250, a transition… · the same entry in another collection · chain A against A, TM-score 1.00
- P04825 · AlphaFold monomer V2.0 prediction for aminopeptidase N (P04825) · 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 P04825
- Elsewhere: RCSB PDB 2ZXG · PDBe 2ZXG · UniProt P04825
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