SMTL ID : 4o0n.1 (1 other biounit)

2.4 Angstrom Resolution Crystal Structure of Putative Nucleoside Diphosphate Kinase from Toxoplasma gondii.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-hexamer

Ligands

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

SO4.1: 5 residues within 4Å: Chain A: K.14, T.96, N.117, V.119, H.120 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:R.107, A:N.117, A:V.119 Water bridges: A:Y.54, A:Y.54, A:R.90, A:G.121 Salt bridges: A:K.14, A:H.120 SO4.2: 6 residues within 4Å: Chain B: K.14, Y.54, R.107, N.117, V.119, H.120 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:Y.54, B:R.107, B:N.117 Water bridges: B:G.121 Salt bridges: B:K.14, B:H.120 SO4.3: 4 residues within 4Å: Chain B: E.154, Q.155, G.156 Chain C: R.116 5 PLIP interactions: 3 interactions with chain C, 2 interactions with chain B Water bridges: C:G.65, C:Y.69 Salt bridges: C:R.116 Hydrogen bonds: B:Q.155, B:G.156 SO4.4: 5 residues within 4Å: Chain C: K.14, T.96, R.107, N.117, H.120 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:R.90, C:R.107, C:N.117 Water bridges: C:K.14, C:K.14, C:Y.54, C:Y.54 Salt bridges: C:K.14, C:H.120 SO4.5: 6 residues within 4Å: Chain D: K.14, Y.54, T.96, R.107, N.117, H.120 4 PLIP interactions: 4 interactions with chain D Hydrogen bonds: D:N.117, D:G.121 Salt bridges: D:K.14, D:H.120 SO4.6: 4 residues within 4Å: Chain E: K.14, R.107, N.117, H.120 6 PLIP interactions: 6 interactions with chain E Hydrogen bonds: E:R.107, E:N.117 Water bridges: E:K.14, E:R.90 Salt bridges: E:K.14, E:H.120 SO4.7: 2 residues within 4Å: Chain E: R.97, V.114 1 PLIP interactions: 1 interactions with chain E Salt bridges: E:R.97 SO4.8: 4 residues within 4Å: Chain F: K.14, R.90, N.117, H.120 5 PLIP interactions: 5 interactions with chain F Hydrogen bonds: F:R.90, F:N.117 Water bridges: F:R.107 Salt bridges: F:K.14, F:H.120

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lykins, J.D. et al., CSGID Solves Structures and Identifies Phenotypes for Five Enzymes in Toxoplasma gondii . Front Cell Infect Microbiol (2018)

Release Date

2013-12-25

Peptides

Nucleoside diphosphate kinase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

Nucleoside diphosphate kinase

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