SMTL ID : 4g1p.1

Structural and Mechanistic Basis of Substrate Recognition by Novel Di-peptidase Dug1p From Saccharomyces cerevisiae

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.55 Å

Oligo State

homo-dimer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 6 residues within 4Å: Chain A: D.137, E.172, H.450 Ligands: ZN.2, GLY.3, CYS.4 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:D.137, A:E.172, A:E.172, A:H.450 ZN.2: 6 residues within 4Å: Chain A: H.102, D.137, D.200, Y.202 Ligands: ZN.1, GLY.3 2 PLIP interactions: 2 interactions with chain A Metal complexes: A:D.137, A:D.200 ZN.5: 6 residues within 4Å: Chain B: D.137, E.172, H.450 Ligands: ZN.6, GLY.7, CYS.8 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:D.137, B:E.172, B:E.172, B:H.450 ZN.6: 6 residues within 4Å: Chain B: H.102, D.137, D.200, Y.202 Ligands: ZN.5, GLY.7 2 PLIP interactions: 2 interactions with chain B Metal complexes: B:D.137, B:D.200

2 x GLY: GLYCINE(Non-covalent)

GLY.3: 9 residues within 4Å: Chain A: D.137, E.171, E.172, S.422, H.450 Chain B: H.233 Ligands: ZN.1, ZN.2, CYS.4 3 PLIP interactions: 2 Ligand-Ligand interactions, 1 interactions with chain A Hydrogen bonds: C.4 Water bridges: G.3, A:S.422 GLY.7: 9 residues within 4Å: Chain A: H.233 Chain B: D.137, E.171, E.172, S.422, H.450 Ligands: ZN.5, ZN.6, CYS.8 3 PLIP interactions: 2 Ligand-Ligand interactions, 1 interactions with chain B Hydrogen bonds: C.8 Water bridges: G.7, B:S.422

2 x CYS: CYSTEINE(Non-covalent)

CYS.4: 10 residues within 4Å: Chain A: E.172, C.218, R.348, H.385, S.422, H.450 Chain B: H.233, T.335 Ligands: ZN.1, GLY.3 6 PLIP interactions: 1 interactions with chain B, 4 interactions with chain A, 1 Ligand-Ligand interactions Hydrogen bonds: B:T.335, A:E.172, A:R.348, A:R.348, A:S.422, G.3 CYS.8: 10 residues within 4Å: Chain A: H.233, T.335 Chain B: E.172, C.218, R.348, H.385, S.422, H.450 Ligands: ZN.5, GLY.7 5 PLIP interactions: 1 Ligand-Ligand interactions, 4 interactions with chain B Hydrogen bonds: G.7, B:E.172, B:R.348, B:R.348, B:S.422

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Singh, A.K. et al., Structural and Mechanistic Basis of Substrate Recognition by Novel Di-peptidase Dug1p From Saccromyces cerevesiae. To be published

Release Date

2013-07-17

Peptides

Cys-Gly metallodipeptidase DUG1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Cys-Gly metallodipeptidase DUG1