2Q01 | pdb_00002q01

Crystal structure of glucuronate isomerase from Caulobacter crescentus

• PDB DOI: https://doi.org/10.2210/pdb2Q01/pdb

• Classification: ISOMERASE
• Organism(s): Caulobacter vibrioides CB15
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2007-05-18 Released: 2007-05-29 
• Deposition Author(s): Patskovsky, Y., Bonanno, J., Sridhar, V., Sauder, J.M., Freeman, J., Powell, A., Koss, J., Groshong, C., Gheyi, T., Wasserman, S.R., Raushel, F., Burley, S.K., Almo, S.C., New York SGX Research Center for Structural Genomics (NYSGXRC)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.34 Å
• R-Value Free: 
  0.251 (Depositor), 0.246 (DCC) 
• R-Value Work: 
  0.198 (Depositor), 0.197 (DCC) 
• R-Value Observed: 
  0.200 (Depositor) 

Starting Model: experimental

Literature

Crystal Structure of Glucuronate Isomerase from Caulobacter crescentus.

Patskovsky, Y., Bonanno, J., Sridhar, V., Sauder, J.M., Freeman, J., Powell, A., Koss, J., Groshong, C., Gheyi, T., Wasserman, S.R., Raushel, F., Burley, S.K., Almo, S.C.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C3  (Explore in 3D)
Global Stoichiometry: Homo 3-mer - A3 

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

Macromolecule Content 

• Total Structure Weight: 169.14 kDa 
• Atom Count: 12,130 
• Modeled Residue Count: 1,439 
• Deposited Residue Count: 1,491 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uronate isomerase	A, B, C	497	Caulobacter vibrioides CB15	Mutation(s): 0  Gene Names: uxaC, CC_1490 EC: 5.3.1.12
UniProt
Find proteins for Q9A874 (Caulobacter vibrioides (strain ATCC 19089 / CIP 103742 / CB 15)) Explore Q9A874  Go to UniProtKB:  Q9A874

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
K	D [auth A], E [auth B], F [auth C]	POTASSIUM ION K NPYPAHLBTDXSSS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.34 Å
• R-Value Free:  0.251 (Depositor), 0.246 (DCC) 
• R-Value Work:  0.198 (Depositor), 0.197 (DCC) 
• R-Value Observed: 0.200 (Depositor) 

Space Group: F 2 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 177.332	α = 90
b = 190.176	β = 90
c = 319.29	γ = 90

Software Package:

Software Name	Purpose
PHASER	phasing
REFMAC	refinement
MAR345dtb	data collection
HKL-2000	data reduction
HKL-2000	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-05-29 
Deposition Author(s): Patskovsky, Y., Bonanno, J., Sridhar, V., Sauder, J.M., Freeman, J., Powell, A., Koss, J., Groshong, C., Gheyi, T., Wasserman, S.R., Raushel, F., Burley, S.K., Almo, S.C., New York SGX Research Center for Structural Genomics (NYSGXRC)

Revision History  

• Version 1.0: 2007-05-29
  Type: Initial release
  
• Version 1.1: 2008-05-01
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Source and taxonomy, Version format compliance
• Version 1.3: 2018-11-14
  Changes: Data collection, Structure summary
• Version 1.4: 2021-02-03
  Changes: Database references, Derived calculations, Structure summary
• Version 1.5: 2023-08-30
  Changes: Data collection, Database references, Refinement description