SMTL ID : 4a7w.1

Crystal structure of uridylate kinase from Helicobacter pylori

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-dimer

Ligands

2 x GTP: GUANOSINE-5'-TRIPHOSPHATE(Non-covalent)

GTP.1: 11 residues within 4Å: Chain A: R.102, K.110, E.111, I.112, C.113, E.114, K.120, R.123, H.124, K.127, R.129 20 PLIP interactions: 20 interactions with chain A Hydrogen bonds: A:R.102, A:K.110, A:K.110 Water bridges: A:S.115, A:K.120, A:K.120, A:R.123, A:H.124, A:K.127 Salt bridges: A:R.102, A:R.102, A:K.120, A:K.120, A:K.120, A:R.123, A:H.124, A:H.124, A:K.127, A:R.129, A:R.129 GTP.3: 11 residues within 4Å: Chain B: R.102, K.110, E.111, I.112, C.113, E.114, K.120, R.123, H.124, K.127, R.129 19 PLIP interactions: 19 interactions with chain B Hydrogen bonds: B:R.102, B:K.110, B:K.110, B:E.114 Water bridges: B:S.115, B:S.115, B:K.120, B:H.124, B:K.127, B:R.129 Salt bridges: B:R.102, B:K.120, B:K.120, B:K.120, B:H.124, B:H.124, B:K.127, B:R.129, B:R.129

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 8 residues within 4Å: Chain A: K.13, S.15, G.16, E.17, G.54, G.55, G.56, T.144 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:K.13, A:K.13, A:G.16, A:E.17, A:E.17, A:G.55, A:G.56, A:T.144 Water bridges: A:T.144, A:T.144 GOL.4: 8 residues within 4Å: Chain B: K.13, S.15, G.16, E.17, G.54, G.55, G.56, T.144 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:K.13, B:K.13, B:G.16, B:E.17, B:E.17, B:G.55, B:G.56 Water bridges: B:T.144, B:T.144

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chu, C.H. et al., Structures of Helicobacter Pylori Uridylate Kinase: Insight Into Release of the Product Udp. Acta Crystallogr.,Sect.D (2012)

Release Date

2012-06-27

Peptides

URIDYLATE KINASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

URIDYLATE KINASE

Related Entries With Identical Sequence