3VA9 | pdb_00003va9

Crystal structure of the Rhodopseudomonas palustris histidine kinase HK9 sensor domain

• PDB DOI: https://doi.org/10.2210/pdb3VA9/pdb

• Classification: TRANSFERASE
• Organism(s): Rhodopseudomonas palustris CGA009
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2011-12-29 Released: 2012-06-06 
• Deposition Author(s): Zhang, Z., Liu, Q., Hendrickson, W.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 
  0.227 (Depositor), 0.230 (DCC) 
• R-Value Work: 
  0.187 (Depositor), 0.190 (DCC) 
• R-Value Observed: 
  0.189 (Depositor) 

Literature

Crystal structure of the Rhodopseudomonas palustris histidine kinase HK9 sensor domain

Zhang, Z., Liu, Q., Hendrickson, W.A.

To be published.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 18.79 kDa 
• Atom Count: 1,023 
• Modeled Residue Count: 127 
• Deposited Residue Count: 164 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Sensor histidine kinase	A	164	Rhodopseudomonas palustris CGA009	Mutation(s): 0  Gene Names: RPA2292 EC: 2.7.13.3
UniProt
Find proteins for Q6N7G5 (Rhodopseudomonas palustris (strain ATCC BAA-98 / CGA009)) Explore Q6N7G5  Go to UniProtKB:  Q6N7G5

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
CL	B [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free:  0.227 (Depositor), 0.230 (DCC) 
• R-Value Work:  0.187 (Depositor), 0.190 (DCC) 
• R-Value Observed: 0.189 (Depositor) 

Space Group: I 4₁ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 76.147	α = 90
b = 76.147	β = 90
c = 109.155	γ = 90

Software Package:

Software Name	Purpose
ADSC	data collection
SHELXD	phasing
PHENIX	refinement
XDS	data reduction
SCALA	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2012-06-06 
Deposition Author(s): Zhang, Z., Liu, Q., Hendrickson, W.A.

Revision History  

• Version 1.0: 2012-06-06
  Type: Initial release
  
• Version 1.1: 2024-02-28
  Changes: Data collection, Database references, Derived calculations