8X2S | pdb_00008x2s

The Crystal Structure of BPGM from Biortus

• PDB DOI: https://doi.org/10.2210/pdb8X2S/pdb

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


• Deposited: 2023-11-10 Released: 2023-11-22 
• Deposition Author(s): Wang, F., Cheng, W., Yuan, Z., Qi, J., Li, J.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free: 
  0.229 (Depositor), 0.238 (DCC) 
• R-Value Work: 
  0.187 (Depositor), 0.199 (DCC) 

Starting Model: experimental

Literature

The Crystal Structure of BPGM from Biortus

Wang, F., Cheng, W., Yuan, Z., Qi, J., Li, J.

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 and generated by PISA (software)

Biological Assembly Evidence: gel filtration

Macromolecule Content 

• Total Structure Weight: 60.64 kDa 
• Atom Count: 4,702 
• Modeled Residue Count: 502 
• Deposited Residue Count: 520 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Bisphosphoglycerate mutase	A, B	260	Homo sapiens	Mutation(s): 0  Gene Names: BPGM EC: 5.4.2.11 (UniProt), 5.4.2.4 (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 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
EDO (Subject of Investigation/LOI)	C [auth A], D [auth A], E [auth A], F [auth A], G [auth B], H [auth B], I [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.90 Å
• R-Value Free:  0.229 (Depositor), 0.238 (DCC) 
• R-Value Work:  0.187 (Depositor), 0.199 (DCC) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 38.661	α = 90
b = 61.524	β = 95.32
c = 122.802	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2023-11-22 
Deposition Author(s): Wang, F., Cheng, W., Yuan, Z., Qi, J., Li, J.

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Funding Organization	Location	Grant Number
Not funded		--

Revision History  

• Version 1.0: 2023-11-22
  Type: Initial release