PDBsum entry 3a9c

Isomerase

PDB id: 3a9c

Contents

Protein chains

(+ 0 more) 321 a.a. *

Ligands

RUB ×6

PEG ×6

Metals

_MG ×2

Waters ×268

* Residue conservation analysis

PDB id:

3a9c

Name:

Isomerase

Title:

Crystal structure of ribose-1,5-bisphosphate isomerase from thermococcus kodakaraensis kod1 in complex with ribulose-1,5- bisphosphate

Structure:

Translation initiation factor eif-2b, delta subunit. Chain: a, b, c, d, e, f. Synonym: ribose-1,5-bisphosphate isomerase. Engineered: yes

Source:

Thermococcus kodakarensis. Thermococcus kodakaraensis. Organism_taxid: 311400. Strain: kod1. Gene: e2b2. Expressed in: escherichia coli. Expression_system_taxid: 562.

Resolution:

2.60Å R-factor: 0.201 R-free: 0.255

Authors:

A.Nakamura,M.Fujihashi,Y.Nishiba,S.Yoshida,A.Yano,H.Atomi,T.Imanaka, K.Miki

Key ref:

A.Nakamura et al. (2012). Dynamic, ligand-dependent conformational change triggers reaction of ribose-1,5-bisphosphate isomerase from Thermococcus kodakarensis KOD1. J Biol Chem, 287, 20784-20796. PubMed id: 22511789

Date:

22-Oct-09 Release date: 03-Nov-10

Protein chains

Q5JFM9  (R15PI_THEKO) -  Ribose 1,5-bisphosphate isomerase from Thermococcus kodakarensis (strain ATCC BAA-918 / JCM 12380 / KOD1)

Seq: 322 a.a.

Struc: 321 a.a.*

* PDB and UniProt seqs differ at 1 residue position (black cross)

Enzyme reactions

• Enzyme class: E.C.5.3.1.29 - ribose-1,5-bisphosphate isomerase.
• Reaction: alpha-D-ribose 1,5-bisphosphate = D-ribulose 1,5-bisphosphate

alpha-D-ribose 1,5-bisphosphate = D-ribulose 1,5-bisphosphate (Bound ligand (Het Group name = RUB) corresponds exactly)

Molecule diagrams generated from .mol files obtained from the KEGG ftp site

Key reference

J Biol Chem 287:20784-20796 (2012)

PubMed id: 22511789

Dynamic, ligand-dependent conformational change triggers reaction of ribose-1,5-bisphosphate isomerase from Thermococcus kodakarensis KOD1.

A.Nakamura, M.Fujihashi, R.Aono, T.Sato, Y.Nishiba, S.Yoshida, A.Yano, H.Atomi, T.Imanaka, K.Miki.

ABSTRACT

No abstract given.