SMTL ID : 3pj9.3 (2 other biounits)

Crystal structure of a Nucleoside Diphosphate Kinase from Campylobacter jejuni

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.10 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 4 residues within 4Å: Chain A: K.12, Y.52, R.105, H.118 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.105 Water bridges: A:N.115, A:H.118 Salt bridges: A:K.12, A:H.118 SO4.2: 5 residues within 4Å: Chain A: K.39, V.41, Q.47, F.133 Chain C: K.135 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain C Hydrogen bonds: A:Q.47 Salt bridges: A:K.39, C:K.135 SO4.3: 3 residues within 4Å: Chain A: M.91, T.94, R.105 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.105, A:G.119 Salt bridges: A:R.105 SO4.4: 5 residues within 4Å: Chain A: K.39, F.133, F.134, K.135, N.137 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:K.135, A:N.137 Water bridges: A:K.39, A:K.39 Salt bridges: A:K.39 SO4.5: 4 residues within 4Å: Chain B: K.12, Y.52, R.105, H.118 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Y.52, B:R.105 Salt bridges: B:K.12, B:H.118 SO4.6: 3 residues within 4Å: Chain B: S.122, L.123, E.124 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:L.123, B:E.124 SO4.7: 4 residues within 4Å: Chain A: R.34, A.36 Chain B: K.40, P.72 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:A.36 Water bridges: A:R.34, B:K.40 Salt bridges: A:R.34, B:K.40 SO4.8: 6 residues within 4Å: Chain C: R.88, G.92, A.93, E.98, A.99, K.100 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:A.93, C:E.98, C:K.100 Water bridges: C:R.88, C:K.100, C:K.100, C:K.100 Salt bridges: C:R.88 SO4.9: 3 residues within 4Å: Chain C: R.88, A.93, T.94 5 PLIP interactions: 5 interactions with chain C Hydrogen bonds: C:T.94, C:T.94, C:T.94 Water bridges: C:T.94 Salt bridges: C:R.88 SO4.10: 5 residues within 4Å: Chain C: K.12, T.94, R.105, N.115, H.118 8 PLIP interactions: 8 interactions with chain C Hydrogen bonds: C:R.105, C:N.115 Water bridges: C:K.12, C:K.12, C:H.118, C:G.119 Salt bridges: C:K.12, C:H.118 SO4.11: 5 residues within 4Å: Chain D: K.12, Y.52, H.55, L.64, H.118 8 PLIP interactions: 8 interactions with chain D Hydrogen bonds: D:Y.52 Water bridges: D:K.12, D:K.12, D:K.12, D:K.12 Salt bridges: D:K.12, D:H.55, D:H.118 SO4.12: 4 residues within 4Å: Chain D: R.88, M.91, T.94, R.105 5 PLIP interactions: 5 interactions with chain D Water bridges: D:R.88, D:N.115, D:N.115 Salt bridges: D:R.88, D:R.105

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Filippova, E.V. et al., Crystal structure of a Nucleoside Diphosphate Kinase from Campylobacter jejuni. To be Published

Release Date

2010-11-24

Peptides

Nucleoside diphosphate kinase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
D

C
B

D
C

Nucleoside diphosphate kinase

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