SMTL ID : 1xx6.2 (1 other biounit)

X-ray structure of Clostridium acetobutylicum thymidine kinase with ADP. Northeast Structural Genomics Target CAR26.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.00 Å

Oligo State

homo-tetramer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.145, C.148, C.183, C.186 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.145, A:C.148, A:C.183, A:C.186 ZN.3: 4 residues within 4Å: Chain B: C.145, C.148, C.183, C.186 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.145, B:C.148, B:C.183, B:C.186 ZN.5: 4 residues within 4Å: Chain C: C.145, C.148, C.183, C.186 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.145, C:C.148, C:C.183, C:C.186 ZN.7: 4 residues within 4Å: Chain D: C.145, C.148, C.183, C.186 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.145, D:C.148, D:C.183, D:C.186

4 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.2: 17 residues within 4Å: Chain A: P.16, M.17, Y.18, S.19, G.20, K.21, S.22, E.23, S.57, H.58, M.59, A.143, I.144, V.146, A.181 Chain D: R.30, I.34 19 PLIP interactions: 18 interactions with chain A, 1 interactions with chain D Hydrogen bonds: A:Y.18, A:S.19, A:G.20, A:K.21, A:S.22, A:E.23, A:E.23, A:H.58, A:I.144, A:I.144 Water bridges: A:K.21, A:S.22, A:S.22, A:S.22, A:E.23, A:A.181, D:R.31 Salt bridges: A:K.21, A:H.58 ADP.4: 12 residues within 4Å: Chain B: P.16, M.17, Y.18, S.19, G.20, K.21, S.22, E.23, A.143, I.144, V.146 Chain C: I.34 13 PLIP interactions: 13 interactions with chain B Hydrogen bonds: B:P.16, B:Y.18, B:S.19, B:G.20, B:K.21, B:S.22, B:E.23, B:E.23, B:I.144, B:I.144 Water bridges: B:K.21, B:A.181 Salt bridges: B:K.21 ADP.6: 17 residues within 4Å: Chain B: R.30, I.34 Chain C: P.16, M.17, Y.18, S.19, G.20, K.21, S.22, E.23, S.57, H.58, M.59, A.143, I.144, V.146, A.181 19 PLIP interactions: 18 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:Y.18, C:S.19, C:G.20, C:K.21, C:S.22, C:E.23, C:E.23, C:H.58, C:I.144, C:I.144 Water bridges: C:K.21, C:S.22, C:S.22, C:S.22, C:E.23, C:A.181, B:R.31 Salt bridges: C:K.21, C:H.58 ADP.8: 12 residues within 4Å: Chain A: I.34 Chain D: P.16, M.17, Y.18, S.19, G.20, K.21, S.22, E.23, A.143, I.144, V.146 13 PLIP interactions: 13 interactions with chain D Hydrogen bonds: D:P.16, D:Y.18, D:S.19, D:G.20, D:K.21, D:S.22, D:E.23, D:E.23, D:I.144, D:I.144 Water bridges: D:K.21, D:A.181 Salt bridges: D:K.21

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kuzin, A.P. et al., X-ray structure of Clostridium acetobutylicum thymidine kinase with ADP. Northeast Structural Genomics Target CAR26. To be Published

Release Date

2004-12-21

Peptides

Thymidine kinase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Thymidine kinase

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