3URM

Crystal structure of the periplasmic sugar binding protein ChvE

• PDB DOI: https://doi.org/10.2210/pdb3URM/pdb

• Classification: SUGAR BINDING PROTEIN
• Organism(s): Agrobacterium fabrum str. C58
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2011-11-22 Released: 2012-11-28 
• Deposition Author(s): Hu, X., Zhao, J., Binns, A., Degrado, W.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.195 
• R-Value Work: 0.149 
• R-Value Observed: 0.151 

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 72.1 kDa 
• Atom Count: 5,729 
• Modelled Residue Count: 658 
• Deposited Residue Count: 660 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Multiple sugar-binding periplasmic receptor ChvE	A, B	330	Agrobacterium fabrum str. C58	Mutation(s): 0  Gene Names: AGR_C_4267, Atu2348, chvE
UniProt
Find proteins for P25548 (Agrobacterium fabrum (strain C58 / ATCC 33970)) Explore P25548  Go to UniProtKB:  P25548

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
GAL	C [auth A], D [auth B]	beta-D-galactopyranose C6 H12 O6 WQZGKKKJIJFFOK-FPRJBGLDSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.80 Å
• R-Value Free: 0.195 
• R-Value Work: 0.149 
• R-Value Observed: 0.151 
• Space Group: P 6₅

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 130.076	α = 90
b = 130.076	β = 90
c = 64.676	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHASER	phasing
PHENIX	refinement
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-11-28 
Deposition Author(s): Hu, X., Zhao, J., Binns, A., Degrado, W.

Revision History  

• Version 1.0: 2012-11-28
  Type: Initial release
  
• Version 1.1: 2013-01-23
  Changes: Database references
• Version 1.2: 2020-07-29
  Type: Remediation
  Reason: Carbohydrate remediation
  Changes: Data collection, Derived calculations, Structure summary
• Version 1.3: 2023-09-13
  Changes: Data collection, Database references, Refinement description, Structure summary