1V37 | pdb_00001v37

Crystal structure of phosphoglycerate mutase from Thermus thermophilus HB8

• PDB DOI: https://doi.org/10.2210/pdb1V37/pdb

• Classification: ISOMERASE
• Organism(s): Thermus thermophilus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2003-10-29 Released: 2004-12-14 
• Deposition Author(s): Sugahara, M., Yokoyama, S., Kuramitsu, S., Miyano, M., Iizuka, T., Kunishima, N., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free: 
  0.218 (Depositor), 0.219 (DCC) 
• R-Value Work: 
  0.206 (Depositor), 0.206 (DCC) 
• R-Value Observed: 
  0.207 (Depositor) 

Literature

Crystal structure of phosphoglycerate mutase from Thermus thermophilus HB8

Sugahara, M., Yokoyama, S., Kuramitsu, S., Miyano, M., Iizuka, T., Kunishima, N.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 4-mer - A4 

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 39.44 kDa 
• Atom Count: 3,083 
• Modeled Residue Count: 341 
• Deposited Residue Count: 354 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
phosphoglycerate mutase	A, B	177	Thermus thermophilus	Mutation(s): 0  EC: 5.4.2.1
UniProt
Find proteins for Q53WB3 (Thermus thermophilus (strain ATCC 27634 / DSM 579 / HB8)) Explore Q53WB3  Go to UniProtKB:  Q53WB3

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GOL	C [auth A], D [auth B]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.40 Å
• R-Value Free:  0.218 (Depositor), 0.219 (DCC) 
• R-Value Work:  0.206 (Depositor), 0.206 (DCC) 
• R-Value Observed: 0.207 (Depositor) 

Space Group: I 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 84.591	α = 90
b = 91.846	β = 90
c = 110.611	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
SCALEPACK	data scaling
SOLVE	phasing
CNS	refinement
HKL-2000	data reduction

Structure Validation

Entry History 

Deposition Data

• Released Date: 2004-12-14 
Deposition Author(s): Sugahara, M., Yokoyama, S., Kuramitsu, S., Miyano, M., Iizuka, T., Kunishima, N., RIKEN Structural Genomics/Proteomics Initiative (RSGI)

Revision History  

• Version 1.0: 2004-12-14
  Type: Initial release
  
• Version 1.1: 2008-04-27
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Non-polymer description, Version format compliance
• Version 1.3: 2023-12-27
  Changes: Data collection, Database references, Derived calculations