Biological Assembly 1  

 3D View: Structure | Electron Density

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 62.24 kDa 
• Atom Count: 4219 
• Residue Count: 498 
• Unique protein chains: 1

1T8P

Crystal structure of Human erythrocyte 2,3-bisphosphoglycerate mutase

• DOI: 10.2210/pdb1T8P/pdb

• Classification: ISOMERASE
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2004-05-13 Released: 2004-08-10 
• Deposition Author(s): Wang, Y., Wei, Z., Bian, Q., Cheng, Z., Wan, M., Liu, L., Gong, W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.266 
• R-Value Work: 0.200 
• R-Value Observed: 0.200 

Literature

Crystal structure of human bisphosphoglycerate mutase

Wang, Y., Wei, Z., Bian, Q., Cheng, Z., Wan, M., Liu, L., Gong, W.

(2004) J Biol Chem 279: 39132-39138

• PubMed: 15258155 
• DOI: 10.1074/jbc.M405982200
• Primary Citation of Related Structures:  
  1T8P


• PubMed Abstract: 
  

Bisphosphoglycerate mutase is a trifunctional enzyme of which the main function is to synthesize 2,3-bisphosphoglycerate, the allosteric effector of hemoglobin. The gene coding for bisphosphoglycerate mutase from the human cDNA library was cloned and expressed in Escherichia coli. The protein crystals were obtained and diffract to 2.5 A and produced the first crystal structure of bisphosphoglycerate mutase. The model was refined to a crystallographic R-factor of 0.200 and R(free) of 0.266 with excellent stereochemistry. The enzyme remains a dimer in the crystal. The overall structure of the enzyme resembles that of the cofactor-dependent phosphoglycerate mutase except the regions of 13-21, 98-117, 127-151, and the C-terminal tail. The conformational changes in the backbone and the side chains of some residues reveal the structural basis for the different activities between phosphoglycerate mutase and bisphosphoglycerate mutase. The bisphosphoglycerate mutase-specific residue Gly-14 may cause the most important conformational changes, which makes the side chain of Glu-13 orient toward the active site. The positions of Glu-13 and Phe-22 prevent 2,3-bisphosphoglycerate from binding in the way proposed previously. In addition, the side chain of Glu-13 would affect the Glu-89 protonation ability responsible for the low mutase activity. Other structural variations, which could be connected with functional differences, are also discussed.

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Organizational Affiliation: 

National Laboratory of Biomacromolecules, Institute of Biophysics, Chinese Academy of Sciences, Beijing 100101, China.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bisphosphoglycerate mutase	A, B	267	Homo sapiens	Mutation(s): 0  Gene Names: BPGM EC: 5.4.2.4 (PDB Primary Data), 5.4.2.11 (UniProt)
Find proteins for P07738 (Homo sapiens) Explore P07738  Go to UniProtKB:  P07738
NIH Common Fund Data Resources
PHAROS:  P07738 GTEx:  ENSG00000172331

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 0.266 
• R-Value Work: 0.200 
• R-Value Observed: 0.200 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 38.638	α = 90
b = 61.768	β = 94.99
c = 123.333	γ = 90

Software Package:

Software Name	Purpose
CNS	refinement
DENZO	data reduction
SCALEPACK	data scaling
AMoRE	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2004-05-13 
• Released Date: 2004-08-10 
Deposition Author(s): Wang, Y., Wei, Z., Bian, Q., Cheng, Z., Wan, M., Liu, L., Gong, W.

Revision History 

• Version 1.0: 2004-08-10
  Type: Initial release
  
• Version 1.1: 2008-04-30
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance