SMTL ID : 1lk5.1

Structure of the D-Ribose-5-Phosphate Isomerase from Pyrococcus horikoshii

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.75 Å

Oligo State

homo-tetramer

Ligands

10 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 5 residues within 4Å: Chain A: G.99, G.101, A.102, A.103, E.107 Ligand excluded by PLIP CL.2: 8 residues within 4Å: Chain A: S.57, Y.58, Q.59, D.174 Chain C: K.167, D.168, G.169, P.170 Ligand excluded by PLIP CL.3: 6 residues within 4Å: Chain A: G.164, V.165, N.166 Chain C: G.164, V.165, N.166 Ligand excluded by PLIP CL.5: 6 residues within 4Å: Chain B: G.99, R.100, G.101, A.102, A.103, E.107 Ligand excluded by PLIP CL.6: 8 residues within 4Å: Chain B: S.57, Y.58, Q.59, D.174 Chain D: K.167, D.168, G.169, P.170 Ligand excluded by PLIP CL.7: 5 residues within 4Å: Chain B: G.164, V.165, N.166 Chain D: V.165, N.166 Ligand excluded by PLIP CL.8: 5 residues within 4Å: Chain C: G.99, G.101, A.102, A.103, E.107 Ligand excluded by PLIP CL.9: 8 residues within 4Å: Chain A: K.167, D.168, G.169, P.170 Chain C: S.57, Y.58, Q.59, D.174 Ligand excluded by PLIP CL.11: 5 residues within 4Å: Chain D: G.99, G.101, A.102, A.103, E.107 Ligand excluded by PLIP CL.12: 8 residues within 4Å: Chain B: K.167, D.168, G.169, P.170 Chain D: S.57, Y.58, Q.59, D.174 Ligand excluded by PLIP

2 x NA: SODIUM ION(Non-functional Binders)

NA.4: 2 residues within 4Å: Chain A: N.175 Chain B: N.175 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Water bridges: A:N.177, B:N.177, B:N.177 Hydrogen bonds: B:N.175 NA.10: 2 residues within 4Å: Chain C: N.175 Chain D: N.175 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:N.175 Water bridges: C:N.177, D:N.177

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ishikawa, K. et al., A hyperthermostable D-ribose-5-phosphate isomerase from Pyrococcus horikoshii characterization and three-dimensional structure. Structure (2002)

Release Date

2002-07-03

Peptides

D-Ribose-5-Phosphate Isomerase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

D-Ribose-5-Phosphate Isomerase

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