SMTL ID : 5yqb.1

Crystal structure of E.coli aminopeptidase N in complex with Puromycin

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.56 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: H.318, H.322, E.341, Y.402 Ligands: 0A1.2 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Ligand interactions Metal complexes: A:H.318, A:H.322, A:E.341, A:E.341, 0A1.2

1 x 0A1: O-methyl-L-tyrosine(Non-covalent)

0A1.2: 16 residues within 4Å: Chain A: Q.140, E.142, M.281, A.283, M.284, E.285, H.318, E.319, H.322, K.340, E.341, Y.397, Y.402, Q.842 Ligands: ZN.1, GMC.3 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:M.281, A:Y.397 Hydrogen bonds: A:A.283, A:K.340, A:E.341 Water bridges: A:N.280, A:A.283, A:Q.842 Salt bridges: A:H.318, A:H.322

1 x GMC: (2R,3R,4S,5S)-4-AMINO-2-[6-(DIMETHYLAMINO)-9H-PURIN-9-YL]-5-(HYDROXYMETHYL)TETRAHYDRO-3-FURANOL(Non-covalent)

GMC.3: 11 residues within 4Å: Chain A: M.281, V.315, H.318, E.319, D.348, Y.397, L.399, Y.402, E.403, R.846 Ligands: 0A1.2 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:E.403, A:E.403, A:R.846 Water bridges: A:L.399 pi-Stacking: A:Y.402

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 1 residues within 4Å: Chain A: R.74 1 PLIP interactions: 1 interactions with chain A Water bridges: A:R.74

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Reddi, R. et al., Puromycin, a selective inhibitor of PSA acts as a substrate for other M1 family aminopeptidases: Biochemical and structural basis. Int.J.Biol.Macromol. (2020)

Release Date

2018-11-14

Peptides

Aminopeptidase N: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Aminopeptidase N

Related Entries With Identical Sequence