SMTL ID : 3r0d.2 (1 other biounit)

Crystal structure of Cytosine Deaminase from Escherichia Coli complexed with two zinc atoms in the active site

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

2 x PXN: (2S)-1-[3-{[(2R)-2-hydroxypropyl]oxy}-2,2-bis({[(2R)-2-hydroxypropyl]oxy}methyl)propoxy]propan-2-ol(Non-covalent)

PXN.1: 8 residues within 4Å: Chain A: D.99, Q.103, W.106, Q.107, K.110, W.147 Chain B: E.418, E.421 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.110 PXN.7: 8 residues within 4Å: Chain A: E.418, E.421 Chain B: D.99, Q.103, W.106, Q.107, K.110, W.147 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.110

6 x ZN: ZINC ION(Non-covalent)

ZN.2: 6 residues within 4Å: Chain A: H.62, H.64, H.215, H.247, D.314 Ligands: ZN.3 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:H.62, A:H.64, A:H.215, A:D.314, H2O.1 ZN.3: 4 residues within 4Å: Chain A: H.247, D.314, D.315 Ligands: ZN.2 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:D.314, A:D.315, H2O.1, H2O.1, H2O.1 ZN.4: 2 residues within 4Å: Chain A: H.98, E.139 3 PLIP interactions: 3 interactions with chain A Metal complexes: A:H.98, A:E.139, A:E.139 ZN.8: 6 residues within 4Å: Chain B: H.62, H.64, H.215, H.247, D.314 Ligands: ZN.9 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:H.62, B:H.64, B:H.215, B:D.314, H2O.10 ZN.9: 4 residues within 4Å: Chain B: H.247, D.314, D.315 Ligands: ZN.8 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:D.314, B:D.315, H2O.10, H2O.10, H2O.10 ZN.10: 2 residues within 4Å: Chain B: H.98, E.139 3 PLIP interactions: 3 interactions with chain B Metal complexes: B:H.98, B:E.139, B:E.139

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 9 residues within 4Å: Chain A: E.50, Q.51, G.52, P.381, A.382, E.383, D.387, R.391, K.426 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.50, A:A.382, A:K.426, A:K.426 GOL.6: 3 residues within 4Å: Chain A: S.260, F.263, E.301 No protein-ligand interaction detected (PLIP) GOL.11: 9 residues within 4Å: Chain B: E.50, Q.51, G.52, P.381, A.382, E.383, D.387, R.391, K.426 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:E.50, B:A.382, B:E.383, B:K.426, B:K.426 Water bridges: B:E.50 GOL.12: 3 residues within 4Å: Chain B: S.260, F.263, E.301 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fedorov, A.A. et al., Crystal structure of Cytosine Deaminase from Escherichia Coli complexed with two zinc atoms in the active site. To be Published

Release Date

2012-03-07

Peptides

Cytosine deaminase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Cytosine deaminase

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