SMTL ID : 8y7w.1

Thymidine Kinase from Staphylococcus aureus(COL strain)

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.145, C.148, C.183, H.186 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.145, A:C.148, A:C.183, A:H.186 ZN.5: 4 residues within 4Å: Chain B: C.145, C.148, C.183, H.186 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.145, B:C.148, B:C.183, B:H.186 ZN.9: 4 residues within 4Å: Chain C: C.145, C.148, C.183, H.186 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.145, C:C.148, C:C.183, C:H.186 ZN.13: 4 residues within 4Å: Chain D: C.145, C.148, C.183, H.186 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.145, D:C.148, D:C.183, D:H.186

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

SO4.2: 7 residues within 4Å: Chain A: S.16, M.17, F.18, S.19, G.20, K.21, S.22 12 PLIP interactions: 11 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:F.18, A:S.19, A:G.20, A:K.21, A:S.22 Water bridges: A:G.20, A:K.21, A:K.21, A:E.23, A:E.23, B:R.31 Salt bridges: A:K.21 SO4.6: 7 residues within 4Å: Chain B: S.16, M.17, F.18, S.19, G.20, K.21, S.22 12 PLIP interactions: 11 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:F.18, B:S.19, B:G.20, B:K.21, B:S.22 Water bridges: B:G.20, B:K.21, B:K.21, B:E.23, B:E.23, A:R.31 Salt bridges: B:K.21 SO4.10: 7 residues within 4Å: Chain C: S.16, M.17, F.18, S.19, G.20, K.21, S.22 11 PLIP interactions: 10 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:F.18, C:S.19, C:G.20, C:K.21, C:S.22 Water bridges: C:G.20, C:K.21, C:K.21, C:E.23, D:R.31 Salt bridges: C:K.21 SO4.14: 7 residues within 4Å: Chain D: S.16, M.17, F.18, S.19, G.20, K.21, S.22 11 PLIP interactions: 1 interactions with chain C, 10 interactions with chain D Water bridges: C:R.31, D:G.20, D:K.21, D:K.21, D:E.23 Hydrogen bonds: D:F.18, D:S.19, D:G.20, D:K.21, D:S.22 Salt bridges: D:K.21

8 x CL: CHLORIDE ION(Non-functional Binders)

CL.3: 4 residues within 4Å: Chain A: E.24, R.28, T.139 Ligands: CL.7 Ligand excluded by PLIP CL.4: 2 residues within 4Å: Chain A: D.119, F.120 Ligand excluded by PLIP CL.7: 4 residues within 4Å: Chain B: E.24, R.28, T.139 Ligands: CL.3 Ligand excluded by PLIP CL.8: 2 residues within 4Å: Chain B: D.119, F.120 Ligand excluded by PLIP CL.11: 4 residues within 4Å: Chain C: E.24, R.28, T.139 Ligands: CL.15 Ligand excluded by PLIP CL.12: 2 residues within 4Å: Chain C: D.119, F.120 Ligand excluded by PLIP CL.15: 4 residues within 4Å: Chain D: E.24, R.28, T.139 Ligands: CL.11 Ligand excluded by PLIP CL.16: 2 residues within 4Å: Chain D: D.119, F.120 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ashraf, A. et al., Thymidine Kinase from Staphylococcus aureus(COL strain). To Be Published

Release Date

2025-02-12

Peptides

Thymidine kinase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

Thymidine kinase