SMTL ID : 1ltq.1

CRYSTAL STRUCTURE OF T4 POLYNUCLEOTIDE KINASE

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.33 Å

Oligo State

homo-tetramer

Ligands

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

ADP.1: 10 residues within 4Å: Chain A: C.10, P.11, G.12, S.13, G.14, K.15, S.16, T.17, R.122, R.126 14 PLIP interactions: 14 interactions with chain A Hydrogen bonds: A:G.12, A:S.13, A:G.14, A:K.15, A:S.16, A:S.16, A:T.17, A:R.122, A:R.126 Salt bridges: A:K.15, A:R.126, A:R.126 pi-Cation interactions: A:R.122, A:R.122 ADP.3: 10 residues within 4Å: Chain B: C.10, P.11, G.12, S.13, G.14, K.15, S.16, T.17, R.122, R.126 14 PLIP interactions: 14 interactions with chain B Hydrogen bonds: B:G.12, B:S.13, B:G.14, B:K.15, B:S.16, B:S.16, B:T.17, B:R.122, B:R.126 Salt bridges: B:K.15, B:R.126, B:R.126 pi-Cation interactions: B:R.122, B:R.122 ADP.5: 10 residues within 4Å: Chain C: C.10, P.11, G.12, S.13, G.14, K.15, S.16, T.17, R.122, R.126 15 PLIP interactions: 15 interactions with chain C Hydrogen bonds: C:G.12, C:S.13, C:G.14, C:K.15, C:S.16, C:S.16, C:T.17, C:T.17, C:R.122, C:R.126 Salt bridges: C:K.15, C:R.126, C:R.126 pi-Cation interactions: C:R.122, C:R.122 ADP.7: 10 residues within 4Å: Chain D: C.10, P.11, G.12, S.13, G.14, K.15, S.16, T.17, R.122, R.126 15 PLIP interactions: 15 interactions with chain D Hydrogen bonds: D:G.12, D:S.13, D:G.14, D:K.15, D:S.16, D:S.16, D:T.17, D:T.17, D:R.122, D:R.126 Salt bridges: D:K.15, D:R.126, D:R.126 pi-Cation interactions: D:R.122, D:R.122

4 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 2 residues within 4Å: Chain A: E.108, H.109 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:E.108 DMS.4: 2 residues within 4Å: Chain B: E.108, H.109 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:E.108 DMS.6: 2 residues within 4Å: Chain C: E.108, H.109 1 PLIP interactions: 1 interactions with chain C Salt bridges: C:E.108 DMS.8: 2 residues within 4Å: Chain D: E.108, H.109 1 PLIP interactions: 1 interactions with chain D Salt bridges: D:E.108

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Galburt, E.A. et al., Structure of a tRNA repair enzyme and molecular biology workhorse: T4 polynucleotide kinase. Structure (2002)

Release Date

2002-10-09

Peptides

POLYNUCLEOTIDE KINASE: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

C
A

D
A

POLYNUCLEOTIDE KINASE

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