2H52 | pdb_00002h52

Crystal structure of human bisphosphoglycerate mutase complex with 3-phosphoglycerate (18 days)

• PDB DOI: https://doi.org/10.2210/pdb2H52/pdb

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


• Deposited: 2006-05-25 Released: 2006-10-24 
• Deposition Author(s): Wang, Y., Gong, W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free: 
  0.209 (Depositor), 0.200 (DCC) 
• R-Value Work: 
  0.181 (Depositor), 0.170 (DCC) 
• R-Value Observed: 
  0.181 (Depositor) 

Starting Model: experimental

Literature

Seeing the process of histidine phosphorylation in human bisphosphoglycerate mutase

Wang, Y., Gong, W.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 62.71 kDa 
• Atom Count: 4,684 
• Modeled Residue Count: 508 
• Deposited Residue Count: 534 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bisphosphoglycerate mutase	A, B	267	Homo sapiens	Mutation(s): 0  EC: 5.4.2.4 (PDB Primary Data), 5.4.2.1 (PDB Primary Data), 3.1.3.13 (PDB Primary Data), 5.4.2.11 (UniProt)
UniProt & NIH Common Fund Data Resources
Find proteins for P07738 (Homo sapiens) Explore P07738  Go to UniProtKB:  P07738
PHAROS:  P07738 GTEx:  ENSG00000172331

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
3PG	C [auth A], E [auth B]	3-PHOSPHOGLYCERIC ACID C3 H7 O7 P OSJPPGNTCRNQQC-UWTATZPHSA-N
HAI	D [auth A]	CYCLOHEXYLAMMONIUM ION C6 H14 N PAFZNILMFXTMIY-UHFFFAOYSA-O

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.00 Å
• R-Value Free:  0.209 (Depositor), 0.200 (DCC) 
• R-Value Work:  0.181 (Depositor), 0.170 (DCC) 
• R-Value Observed: 0.181 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 48.81	α = 90
b = 71.25	β = 90
c = 160.08	γ = 90

Software Package:

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

Structure Validation

Entry History 

Deposition Data

• Released Date: 2006-10-24 
Deposition Author(s): Wang, Y., Gong, W.

Revision History  

• Version 1.0: 2006-10-24
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Version format compliance
• Version 1.3: 2023-10-25
  Changes: Data collection, Database references, Derived calculations, Refinement description