SMTL ID : 6i6z.1

Crystal structure of the human CARBOXYPEPTIDASE A1 in complex with the PHOSPHINIC INHIBITOR Acetyl-Tyr-Ala-Y(PO2CH2)-homoPhe-OH

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.72 Å

Oligo State

homo-dimer

Ligands

2 x TJE: (2S)-2-{[(S)-{(1R)-1-[(N-acetyl-L-tyrosyl)amino]ethyl}(hydroxy)phosphoryl]methyl}-4-phenylbutanoic acid(Non-covalent)

TJE.1: 21 residues within 4Å: Chain A: H.69, R.71, E.72, R.127, N.144, R.145, E.163, T.164, H.196, S.197, Y.198, M.203, I.243, Y.248, S.253, T.268, E.270, F.279 Chain B: E.163 Ligands: ZN.2, TJE.3 18 PLIP interactions: 17 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:E.163, A:T.164, A:I.243, A:Y.248, A:T.268, B:E.163 Hydrogen bonds: A:R.71, A:R.127, A:R.127, A:N.144, A:E.163, A:E.163, A:Y.248, A:Y.248, A:Y.248 Salt bridges: A:H.69, A:R.127, A:R.145 TJE.3: 21 residues within 4Å: Chain A: E.163 Chain B: H.69, R.71, E.72, R.127, N.144, R.145, E.163, T.164, H.196, S.197, Y.198, M.203, I.243, Y.248, S.253, T.268, E.270, F.279 Ligands: TJE.1, ZN.4 16 PLIP interactions: 16 interactions with chain B Hydrophobic interactions: B:T.164, B:I.243, B:Y.248, B:T.268 Hydrogen bonds: B:R.71, B:R.127, B:R.127, B:N.144, B:E.163, B:Y.248, B:Y.248, B:Y.248 Salt bridges: B:H.69, B:R.127, B:R.145 pi-Stacking: B:H.196

2 x ZN: ZINC ION(Non-covalent)

ZN.2: 4 residues within 4Å: Chain A: H.69, E.72, H.196 Ligands: TJE.1 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:H.69, A:E.72, A:E.72, A:H.196 ZN.4: 4 residues within 4Å: Chain B: H.69, E.72, H.196 Ligands: TJE.3 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:H.69, B:E.72, B:E.72, B:H.196

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Covaleda, G. et al., Synthesis and Structural/Functional Characterization of Selective M14 Metallocarboxypeptidase Inhibitors Based on Phosphinic Pseudopeptide Scaffold: Implications on the Design of Specific Optical Probes. J. Med. Chem. (2019)

Release Date

2018-12-12

Peptides

Carboxypeptidase A1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Carboxypeptidase A1