PDBsum entry 2f8m

Isomerase

PDB id: 2f8m

Contents

Protein chains

237 a.a. *

Ligands

PO4 ×2

Waters ×226

* Residue conservation analysis

PDB id:

2f8m

Name:

Isomerase

Title:

Ribose 5-phosphate isomerase from plasmodium falciparum

Structure:

Ribose 5-phosphate isomerase. Chain: a, b. Engineered: yes

Source:

Plasmodium falciparum. Organism_taxid: 36329. Strain: 3d7. Gene: pfe0730c. Expressed in: escherichia coli. Expression_system_taxid: 562.

Biol. unit:

Tetramer (from PQS)

Resolution:

2.09Å R-factor: 0.209 R-free: 0.272

Authors:

M.A.Holmes,E.A.Merritt,Structural Genomics Of Pathogenic Protozoa Consortium (Sgpp)

Key ref:

M.A.Holmes et al. (2006). Structure of ribose 5-phosphate isomerase from Plasmodium falciparum. Acta Crystallograph Sect F Struct Biol Cryst Commun, 62, 427-431. PubMed id: 16682767 DOI: 10.1107/S1744309106010876

Date:

02-Dec-05 Release date: 27-Dec-05

Protein chains

Q8I3W2  (RPIA_PLAF7) -  Ribose-5-phosphate isomerase from Plasmodium falciparum (isolate 3D7)

Seq: 236 a.a.

Struc: 237 a.a.*

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

Enzyme reactions

• Enzyme class: E.C.5.3.1.6 - ribose-5-phosphate isomerase.
• Reaction: aldehydo-D-ribose 5-phosphate = D-ribulose 5-phosphate

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

Key reference

DOI no: 10.1107/S1744309106010876

Acta Crystallograph Sect F Struct Biol Cryst Commun 62:427-431 (2006)

PubMed id: 16682767

Structure of ribose 5-phosphate isomerase from Plasmodium falciparum.

M.A.Holmes, F.S.Buckner, W.C.Van Voorhis, C.L.Verlinde, C.Mehlin, E.Boni, G.DeTitta, J.Luft, A.Lauricella, L.Anderson, O.Kalyuzhniy, F.Zucker, L.W.Schoenfeld, T.N.Earnest, W.G.Hol, E.A.Merritt.

ABSTRACT

The structure of ribose 5-phosphate isomerase from Plasmodium falciparum, PFE0730c, has been determined by molecular replacement at 2.09 angstroms resolution. The enzyme, which catalyzes the isomerization reaction that interconverts ribose 5-phosphate and ribulose 5-phosphate, is a member of the pentose phosphate pathway. The P. falciparum enzyme belongs to the ribose 5-phosphate isomerase A family, Pfam family PF06562 (DUF1124), and is structurally similar to other members of the family.

Selected figure(s)

Figure 1.
Figure 1 Main figure: ribbon representation of the Pfal008434AAA dimer. The A chain is colored smoothly from blue at the N-terminus to red at the C-terminus. The B chain is colored by domain, with the larger domain in pink and the smaller domain in purple. The tetramerization loop of chain A is indicated by an arrow. Inset: enlarged view of the active site of the Pfal008434AAA A chain. The bound phosphate ion is shown in stick form and the three water molecules mentioned in the text are indicated as spheres. The substrate ribose 5-phosphate (light blue) from the T. thermophilus structure 1uj5 is shown superposed onto the Pfal008434AAA active site based on superposition of 27 C^ atoms in two stretches of chain that contain ten of the 11 residues directly in contact with the ribose 5-phosphate. The figure was generated using PyMOL (DeLano, 2002[DeLano, W. (2002). The PyMOL Molecular Graphics System. http://www.pymol.org .]).

The above figure is reprinted from an Open Access publication published by the IUCr: Acta Crystallograph Sect F Struct Biol Cryst Commun (2006, 62, 427-431) copyright 2006.

Figure was selected by an automated process.