SMTL ID : 4lc5.1

Structural basis of substrate specificity of CDA superfamily guanine deaminase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.97 Å

Oligo State

homo-dimer

Ligands

2 x ZN: ZINC ION(Non-covalent)

ZN.1: 3 residues within 4Å: Chain A: H.79, C.114, C.117 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.79, A:C.114, A:C.117, H2O.1 ZN.4: 4 residues within 4Å: Chain B: H.79, E.81, C.114, C.117 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.79, B:C.114, B:C.117, H2O.5

1 x 9MG: 9-METHYLGUANINE(Non-covalent)

9MG.2: 13 residues within 4Å: Chain A: F.50, N.68, H.79, A.80, E.81, A.111, E.112, P.113, V.138, F.143, D.144, E.145 Ligands: EDO.3 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:N.68, A:A.80, A:E.112, A:E.112 Water bridges: A:A.111, A:C.114, A:C.114 Salt bridges: A:E.81, A:E.145 pi-Stacking: A:F.50, A:F.50, A:H.79

3 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 4 residues within 4Å: Chain A: N.68, V.70, F.143 Ligands: 9MG.2 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.68 EDO.5: 5 residues within 4Å: Chain B: G.10, P.12, R.69, P.72, G.73 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.69 EDO.6: 7 residues within 4Å: Chain B: F.50, H.79, E.81, A.111, E.112, P.113, E.145 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.112 Water bridges: B:A.111, B:C.114

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bitra, A. et al., Structural basis of the substrate specificity of cytidine deaminase superfamily Guanine deaminase. Biochemistry (2013)

Release Date

2014-01-22

Peptides

Cytidine and deoxycytidylate deaminase zinc-binding region: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cytidine and deoxycytidylate deaminase zinc-binding region

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