1YFK

Crystal structure of human B type phosphoglycerate mutase

Summary for 1YFK

• Entry DOI: 10.2210/pdb1yfk/pdb
• Descriptor: Phosphoglycerate mutase 1, CHLORIDE ION, CITRIC ACID, ... (4 entities in total)
• Functional Keywords: alpha/beta, isomerase, hydrolase
• Biological source: Homo sapiens (human)
• Total number of polymer chains: 2
• Total formula weight: 60253.91

Authors

Wang, Y.,Wei, Z.,Liu, L.,Gong, W. (deposition date: 2005-01-02, release date: 2005-05-17, Last modification date: 2023-10-25)

Primary citation

Wang, Y.,Wei, Z.,Liu, L.,Cheng, Z.,Lin, Y.,Ji, F.,Gong, W.
Crystal structure of human B-type phosphoglycerate mutase bound with citrate.
Biochem.Biophys.Res.Commun., 331:1207-1215, 2005

PubMed Abstract: The B-type cofactor-dependent phosphoglycerate mutase (dPGM-B) catalyzes the interconversion of 2-phosphoglycerate and 3-phosphoglycerate in glycolysis and gluconeogenesis pathways using 2,3-bisphosphoglycerate as the cofactor. The crystal structures of human dPGM-B bound with citrate were determined in two crystal forms. These structures reveal a dimerization mode conserved in both of dPGM and BPGM (bisphosphoglycerate mutase), based on which a dPGM/BPGM heterodimer structure is proposed. Structural comparison supports that the conformational changes of residues 13-21 and 98-117 determine PGM/BPGM activity differences. The citrate-binding mode suggests a substrate-binding model, consistent with the structure of Escherichia coli dPGM/vanadate complex. A chloride ion was found in the center of the dimer, providing explanation for the contribution of chloride ion to dPGM activities. Based on the structural information, the possible reasons for the deficient human dPGM mutations found in some patients are also discussed.

PubMed: 15883004
DOI: 10.1016/j.bbrc.2005.03.243

Experimental method

X-RAY DIFFRACTION (2.7 Å)