SMTL ID : 4p9e.1

Crystal structure of dCMP deaminase from the cyanophage S-TIM5 in apo form

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-hexamer

Ligands

6 x ZN: ZINC ION(Non-covalent)

ZN.1: 3 residues within 4Å: Chain A: H.70, C.98, C.101 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.70, A:C.98, A:C.101, H2O.1 ZN.3: 3 residues within 4Å: Chain B: H.70, C.98, C.101 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.70, B:C.98, B:C.101, H2O.1 ZN.5: 3 residues within 4Å: Chain C: H.70, C.98, C.101 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:H.70, C:C.98, C:C.101, H2O.2 ZN.7: 3 residues within 4Å: Chain D: H.70, C.98, C.101 4 PLIP interactions: 3 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:H.70, D:C.98, D:C.101, H2O.3 ZN.9: 3 residues within 4Å: Chain E: H.70, C.98, C.101 4 PLIP interactions: 3 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:H.70, E:C.98, E:C.101, H2O.3 ZN.11: 3 residues within 4Å: Chain F: H.70, C.98, C.101 4 PLIP interactions: 3 interactions with chain F, 1 Ligand-Water interactions Metal complexes: F:H.70, F:C.98, F:C.101, H2O.4

6 x CL: CHLORIDE ION(Non-functional Binders)

CL.2: 7 residues within 4Å: Chain A: M.79, S.82, E.84 Chain D: M.79, A.80, S.82 Ligands: CL.8 Ligand excluded by PLIP CL.4: 7 residues within 4Å: Chain B: M.79, S.82, E.84 Chain F: M.79, A.80, S.82 Ligands: CL.12 Ligand excluded by PLIP CL.6: 7 residues within 4Å: Chain C: M.79, S.82, E.84 Chain E: M.79, A.80, S.82 Ligands: CL.10 Ligand excluded by PLIP CL.8: 7 residues within 4Å: Chain A: M.79, A.80, S.82 Chain D: M.79, S.82, E.84 Ligands: CL.2 Ligand excluded by PLIP CL.10: 7 residues within 4Å: Chain C: M.79, A.80, S.82 Chain E: M.79, S.82, E.84 Ligands: CL.6 Ligand excluded by PLIP CL.12: 7 residues within 4Å: Chain B: M.79, A.80, S.82 Chain F: M.79, S.82, E.84 Ligands: CL.4 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Marx, A. et al., The First Crystal Structure of a dTTP-bound Deoxycytidylate Deaminase Validates and Details the Allosteric-Inhibitor Binding Site. J.Biol.Chem. (2015)

Release Date

2014-11-26

Peptides

Deoxycytidylate deaminase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

E
A

F
A

Deoxycytidylate deaminase

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