2OB5 | pdb_00002ob5

Crystal structure of protein Atu2016, putative sugar binding protein

• PDB DOI: https://doi.org/10.2210/pdb2OB5/pdb

• Classification: SUGAR BINDING PROTEIN
• Organism(s): Agrobacterium fabrum str. C58
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2006-12-18 Released: 2007-01-16 
• Deposition Author(s): Chang, C., Xu, X., Gu, J., Savchenko, A., Edwards, A.M., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free: 
  0.206 (Depositor), 0.205 (DCC) 
• R-Value Work: 
  0.177 (Depositor), 0.176 (DCC) 
• R-Value Observed: 
  0.179 (Depositor) 

Literature

Crystal structure of protein Atu2016, putative sugar binding protein

Chang, C., Xu, X., Gu, J., Savchenko, A., Edwards, A.M., Joachimiak, A.

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: 16.95 kDa 
• Atom Count: 1,325 
• Modeled Residue Count: 151 
• Deposited Residue Count: 153 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Hypothetical protein Atu2016	A	153	Agrobacterium fabrum str. C58	Mutation(s): 6  Gene Names: AGR_C_3656, Atu2016
UniProt
Find proteins for A9CIE0 (Agrobacterium fabrum (strain C58 / ATCC 33970)) Explore A9CIE0  Go to UniProtKB:  A9CIE0

Small Molecules

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.60 Å
• R-Value Free:  0.206 (Depositor), 0.205 (DCC) 
• R-Value Work:  0.177 (Depositor), 0.176 (DCC) 
• R-Value Observed: 0.179 (Depositor) 

Space Group: P 4₂ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 63.322	α = 90
b = 63.322	β = 90
c = 71.382	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
SBC-Collect	data collection
HKL-3000	data reduction
HKL-3000	data scaling
HKL-3000	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-01-16 
Deposition Author(s): Chang, C., Xu, X., Gu, J., Savchenko, A., Edwards, A.M., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2007-01-16
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Advisory, Refinement description, Source and taxonomy, Version format compliance
• Version 1.3: 2023-12-27
  Changes: Data collection, Database references, Derived calculations
• Version 1.4: 2024-11-06
  Changes: Structure summary