4WD0 | pdb_00004wd0

Crystal structure of HisAp form Arthrobacter aurescens

• PDB DOI: https://doi.org/10.2210/pdb4WD0/pdb

• Classification: ISOMERASE
• Organism(s): Paenarthrobacter aurescens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2014-09-05 Released: 2014-09-24 
• Deposition Author(s): MICHALSKA, K., VERDUZCO-CASTRO, E.A., ENDRES, M., BARONA-GOMEZ, F., JOACHIMIAK, A., Midwest Center for Structural Genomics (MCSG)
• Funding Organization(s): National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free: 
  0.173 (Depositor), 0.176 (DCC) 
• R-Value Work: 
  0.135 (Depositor) 
• R-Value Observed: 
  0.137 (Depositor) 

Starting Model: experimental

Literature

Crystal structure of HisAp form Arthrobacter aurescens

MICHALSKA, K., VERDUZCO-CASTRO, E.A., ENDRES, M., BARONA-GOMEZ, F., JOACHIMIAK, A., Midwest Center for Structural Genomics (MCSG)

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C6  (Explore in 3D)
Global Stoichiometry: Homo 6-mer - A6 

Biological assembly 1 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 26.76 kDa 
• Atom Count: 2,010 
• Modeled Residue Count: 230 
• Deposited Residue Count: 250 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino] imidazole-4-carboxamide isomerase	A	250	Paenarthrobacter aurescens	Mutation(s): 0  Gene Names: hisA, AAur_1608 EC: 5.3.1.16
UniProt
Find proteins for A1R562 (Paenarthrobacter aurescens (strain TC1)) Explore A1R562  Go to UniProtKB:  A1R562

Small Molecules

Ligands 3 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
TRS	E [auth A]	2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL C4 H12 N O3 LENZDBCJOHFCAS-UHFFFAOYSA-O
GOL	D [auth A]	GLYCEROL C3 H8 O3 PEDCQBHIVMGVHV-UHFFFAOYSA-N
CL	B [auth A], C [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.50 Å
• R-Value Free:  0.173 (Depositor), 0.176 (DCC) 
• R-Value Work:  0.135 (Depositor) 
• R-Value Observed: 0.137 (Depositor) 

Diffraction Data: https://doi.org/10.18430/M34WD0

Space Group: P 6

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 93.974	α = 90
b = 93.974	β = 90
c = 45.433	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
SBC-Collect	data collection
HKL-3000	phasing
HKL-3000	data scaling
PHENIX	phasing
PHENIX	model building

Structure Validation

Entry History 

& Funding Information

Deposition Data

• Released Date: 2014-09-24 
Deposition Author(s): MICHALSKA, K., VERDUZCO-CASTRO, E.A., ENDRES, M., BARONA-GOMEZ, F., JOACHIMIAK, A., Midwest Center for Structural Genomics (MCSG)

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute of General Medical Sciences (NIH/NIGMS)	United States	GM094585

Revision History  

• Version 1.0: 2014-09-24
  Type: Initial release
  
• Version 1.1: 2017-09-27
  Changes: Author supporting evidence, Derived calculations, Other, Refinement description, Source and taxonomy
• Version 1.2: 2019-12-25
  Changes: Author supporting evidence
• Version 1.3: 2023-09-27
  Changes: Data collection, Database references, Refinement description