SMTL ID : 1zab.1 (1 other biounit)

Crystal Structure of Mouse Cytidine Deaminase Complexed with 3-Deazauridine

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.36 Å

Oligo State

homo-tetramer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 5 residues within 4Å: Chain A: C.65, E.67, C.99, C.102 Chain C: C.59 4 PLIP interactions: 3 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:C.65, A:C.99, A:C.102, H2O.1 ZN.4: 4 residues within 4Å: Chain B: C.65, C.99, C.102 Chain D: C.59 4 PLIP interactions: 3 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:C.65, B:C.99, B:C.102, H2O.4 ZN.6: 5 residues within 4Å: Chain A: C.59 Chain C: C.65, E.67, C.99, C.102 4 PLIP interactions: 3 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:C.65, C:C.99, C:C.102, H2O.7 ZN.8: 5 residues within 4Å: Chain B: C.59 Chain D: C.65, E.67, C.99, C.102 4 PLIP interactions: 3 interactions with chain D, 1 Ligand-Water interactions Metal complexes: D:C.65, D:C.99, D:C.102, H2O.9

1 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 3 residues within 4Å: Chain A: Q.130, A.135, S.136 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.130, A:A.135, A:S.136

4 x URD: 1-((2R,3R,4S,5R)-TETRAHYDRO-3,4-DIHYDROXY-5-(HYDROXYMETHYL)FURAN-2-YL)PYRIDINE-2,4(1H,3H)-DIONE(Non-covalent)

URD.3: 17 residues within 4Å: Chain A: S.34, F.36, V.38, N.54, E.56, V.64, C.65, A.66, E.67, I.96, S.97, P.98 Chain B: F.137 Chain C: A.58, C.59, Y.60, P.61 8 PLIP interactions: 5 interactions with chain A, 2 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: A:V.38 Hydrogen bonds: A:N.54, A:E.56, A:A.66, C:A.58, C:Y.60 Water bridges: A:C.99 pi-Stacking: B:F.137 URD.5: 17 residues within 4Å: Chain A: F.137 Chain B: S.34, F.36, V.38, N.54, E.56, V.64, C.65, A.66, E.67, I.96, S.97, P.98 Chain D: A.58, C.59, Y.60, P.61 9 PLIP interactions: 2 interactions with chain D, 6 interactions with chain B, 1 interactions with chain A Hydrogen bonds: D:A.58, D:Y.60, B:N.54, B:E.56, B:A.66 Hydrophobic interactions: B:V.38, B:I.96 Water bridges: B:C.99 pi-Stacking: A:F.137 URD.7: 17 residues within 4Å: Chain A: A.58, C.59, Y.60, P.61 Chain C: S.34, F.36, V.38, N.54, E.56, V.64, C.65, A.66, E.67, I.96, S.97, P.98 Chain D: F.137 9 PLIP interactions: 2 interactions with chain A, 6 interactions with chain C, 1 interactions with chain D Hydrogen bonds: A:A.58, A:Y.60, C:N.54, C:E.56, C:E.56, C:A.66 Hydrophobic interactions: C:V.38 Water bridges: C:C.99 pi-Stacking: D:F.137 URD.9: 17 residues within 4Å: Chain B: A.58, C.59, Y.60, P.61 Chain C: F.137 Chain D: S.34, F.36, V.38, N.54, E.56, V.64, C.65, A.66, E.67, I.96, S.97, P.98 9 PLIP interactions: 2 interactions with chain B, 6 interactions with chain D, 1 interactions with chain C Hydrogen bonds: B:A.58, B:Y.60, D:N.54, D:E.56, D:E.56, D:A.66 Hydrophobic interactions: D:V.38 Water bridges: D:C.99 pi-Stacking: C:F.137

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Teh, A.H. et al., The 1.48 A Resolution Crystal Structure of the Homotetrameric Cytidine Deaminase from Mouse. Biochemistry (2006)

Release Date

2006-04-11

Peptides

Cytidine deaminase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Cytidine deaminase

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