SMTL ID : 1ybd.1 (4 other biounits)

Crystal structure analysis of uridylate kinase from Neisseria meningitidis

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.60 Å

Oligo State

homo-hexamer

Ligands

3 x FMT: FORMIC ACID(Non-functional Binders)

FMT.1: 10 residues within 4Å: Chain A: A.105, T.136, G.137, N.138 Chain B: Q.109 Chain C: Q.109, Q.110 Chain D: A.105, T.136, N.138 3 PLIP interactions: 1 interactions with chain A, 1 interactions with chain B, 1 interactions with chain C Hydrogen bonds: A:A.105, C:Q.110 Water bridges: B:Q.110 FMT.4: 10 residues within 4Å: Chain C: A.105, T.136, G.137, N.138 Chain D: Q.109 Chain E: Q.109, Q.110 Chain F: A.105, T.136, N.138 3 PLIP interactions: 1 interactions with chain E, 1 interactions with chain C, 1 interactions with chain D Hydrogen bonds: E:Q.110, C:A.105 Water bridges: D:Q.110 FMT.7: 10 residues within 4Å: Chain A: Q.109, Q.110 Chain B: A.105, T.136, N.138 Chain E: A.105, T.136, G.137, N.138 Chain F: Q.109 3 PLIP interactions: 1 interactions with chain F, 1 interactions with chain A, 1 interactions with chain E Water bridges: F:Q.110 Hydrogen bonds: A:Q.110, E:A.105

6 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 4 residues within 4Å: Chain A: K.13, S.15, E.17, T.143 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.13, A:E.17 Water bridges: A:G.16 GOL.3: 4 residues within 4Å: Chain B: K.13, S.15, T.163, N.164 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:K.13, B:K.13, B:S.15 GOL.5: 4 residues within 4Å: Chain C: K.13, S.15, E.17, T.143 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:K.13, C:E.17 Water bridges: C:G.16 GOL.6: 4 residues within 4Å: Chain D: K.13, S.15, T.163, N.164 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:K.13, D:K.13, D:S.15 GOL.8: 4 residues within 4Å: Chain E: K.13, S.15, E.17, T.143 3 PLIP interactions: 3 interactions with chain E Hydrogen bonds: E:K.13, E:E.17 Water bridges: E:G.16 GOL.9: 4 residues within 4Å: Chain F: K.13, S.15, T.163, N.164 3 PLIP interactions: 3 interactions with chain F Hydrogen bonds: F:K.13, F:K.13, F:S.15

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumaran, D. et al., Crystal structure analysis of uridylate kinase from Neisseria meningitidis. To be Published

Release Date

2005-02-15

Peptides

Uridylate kinase: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

C
A

D
C

E
A

F
C

Uridylate kinase

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