SMTL ID : 7yh4.1

Crystal structure of human cytosolic beta-alanyl lysine dipeptidase (PM20D2)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.03 Å

Oligo State

homo-tetramer

Ligands

8 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: C.142, H.144, E.183, H.395 Ligands: ZN.2 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.142, A:E.183, A:H.395, H2O.1 ZN.2: 6 residues within 4Å: Chain A: C.142, H.144, E.182, E.183, H.207 Ligands: ZN.1 5 PLIP interactions: 3 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:C.142, A:H.144, A:H.207, H2O.1, H2O.1 ZN.3: 5 residues within 4Å: Chain B: C.142, H.144, E.183, H.395 Ligands: ZN.4 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:C.142, B:E.183, B:H.395, H2O.5 ZN.4: 6 residues within 4Å: Chain B: C.142, H.144, E.182, E.183, H.207 Ligands: ZN.3 5 PLIP interactions: 3 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:C.142, B:H.144, B:H.207, H2O.4, H2O.5 ZN.5: 5 residues within 4Å: Chain C: C.142, H.144, E.183, H.395 Ligands: ZN.6 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:C.142, C:E.183, C:H.395, H2O.9 ZN.6: 6 residues within 4Å: Chain C: C.142, H.144, E.182, E.183, H.207 Ligands: ZN.5 5 PLIP interactions: 3 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:C.142, C:H.144, C:H.207, H2O.8, H2O.9 ZN.7: 5 residues within 4Å: Chain D: C.142, H.144, E.183, H.395 Ligands: ZN.8 4 PLIP interactions: 3 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:C.142, D:E.183, D:H.395, H2O.12 ZN.8: 6 residues within 4Å: Chain D: C.142, H.144, E.182, E.183, H.207 Ligands: ZN.7 5 PLIP interactions: 3 interactions with chain D, 2 Ligand-Water interactions Metal complexes: D:C.142, D:H.144, D:H.207, H2O.12, H2O.12

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chandravanshi, K. et al., Crystal structure of human cytosolic beta-alanyl lysine dipeptidase (PM20D2). To Be Published

Release Date

2023-08-02

Peptides

Xaa-Arg dipeptidase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Xaa-Arg dipeptidase