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

human Thymidine Kinase 1 in complex with TP4A

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-tetramer

Ligands

4 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.153, C.156, C.185, C.188 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.153, A:C.156, A:C.185, A:C.188 ZN.3: 4 residues within 4Å: Chain B: C.153, C.156, C.185, C.188 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.153, B:C.156, B:C.185, B:C.188 ZN.5: 4 residues within 4Å: Chain C: C.153, C.156, C.185, C.188 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.153, C:C.156, C:C.185, C:C.188 ZN.7: 4 residues within 4Å: Chain D: C.153, C.156, C.185, C.188 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.153, D:C.156, D:C.185, D:C.188

4 x 4TA: P1-(5'-ADENOSYL)P4-(5'-(2'-DEOXY-THYMIDYL))TETRAPHOSPHATE(Non-covalent)

4TA.2: 23 residues within 4Å: Chain A: M.28, F.29, S.30, G.31, K.32, S.33, D.58, R.60, D.97, E.98, Q.100, F.101, L.124, T.127, F.128, F.133, R.165, V.172, E.173, V.174, I.175, G.176, Y.181 29 PLIP interactions: 29 interactions with chain A Hydrophobic interactions: A:F.133, A:Y.181, A:Y.181 Hydrogen bonds: A:F.29, A:S.30, A:G.31, A:K.32, A:S.33, A:S.33, A:D.97, A:E.98, A:Q.100, A:Q.100, A:F.128, A:R.165, A:V.172, A:V.174, A:G.176, A:G.176, A:Y.181 Water bridges: A:G.31, A:K.32, A:K.32, A:E.98, A:E.98 Salt bridges: A:K.32, A:K.32, A:K.32, A:R.60 4TA.4: 24 residues within 4Å: Chain B: P.27, M.28, F.29, S.30, G.31, K.32, S.33, D.58, D.97, E.98, Q.100, F.101, L.124, T.127, F.128, F.133, T.163, R.165, V.172, E.173, V.174, I.175, G.176, Y.181 27 PLIP interactions: 27 interactions with chain B Hydrophobic interactions: B:F.133, B:T.163, B:Y.181, B:Y.181 Hydrogen bonds: B:F.29, B:S.30, B:G.31, B:K.32, B:S.33, B:S.33, B:D.58, B:D.97, B:Q.100, B:Q.100, B:L.124, B:F.128, B:R.165, B:V.172, B:V.174, B:G.176, B:G.176, B:Y.181 Water bridges: B:S.33, B:T.34 Salt bridges: B:K.32, B:K.32, B:K.32 4TA.6: 23 residues within 4Å: Chain C: M.28, F.29, S.30, G.31, K.32, S.33, D.58, R.60, D.97, E.98, Q.100, F.101, L.124, T.127, F.128, F.133, R.165, V.172, E.173, V.174, I.175, G.176, Y.181 28 PLIP interactions: 28 interactions with chain C Hydrophobic interactions: C:F.133, C:Y.181, C:Y.181 Hydrogen bonds: C:F.29, C:S.30, C:G.31, C:K.32, C:S.33, C:S.33, C:D.97, C:Q.100, C:Q.100, C:F.128, C:R.165, C:V.172, C:V.174, C:G.176, C:G.176, C:Y.181 Water bridges: C:G.31, C:K.32, C:K.32, C:E.98, C:E.98 Salt bridges: C:K.32, C:K.32, C:K.32, C:R.60 4TA.8: 24 residues within 4Å: Chain D: P.27, M.28, F.29, S.30, G.31, K.32, S.33, D.58, D.97, E.98, Q.100, F.101, L.124, T.127, F.128, F.133, T.163, R.165, V.172, E.173, V.174, I.175, G.176, Y.181 27 PLIP interactions: 27 interactions with chain D Hydrophobic interactions: D:F.133, D:T.163, D:Y.181, D:Y.181 Hydrogen bonds: D:F.29, D:S.30, D:G.31, D:K.32, D:S.33, D:S.33, D:D.97, D:E.98, D:Q.100, D:Q.100, D:L.124, D:F.128, D:R.165, D:V.172, D:V.174, D:G.176, D:G.176, D:Y.181 Water bridges: D:S.33, D:T.34 Salt bridges: D:K.32, D:K.32, D:K.32

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Segura-Pena, D. et al., Binding of ATP to TK1-like Enzymes Is Associated with a Conformational Change in the Quaternary Structure. J.Mol.Biol. (2007)

Release Date

2007-03-27

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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