2QRR

Crystal structure of the soluble domain of the ABC transporter, ATP-binding protein from Vibrio parahaemolyticus

• PDB DOI: https://doi.org/10.2210/pdb2QRR/pdb

• Classification: HYDROLASE
• Organism(s): Vibrio parahaemolyticus RIMD 2210633
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2007-07-28 Released: 2007-08-14 
• Deposition Author(s): Kim, Y., Zhou, M., Freeman, L., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.71 Å
• R-Value Free: 0.240 
• R-Value Work: 0.199 
• R-Value Observed: 0.203 

Literature

The Soluble Domain of the ABC Transporter, ATP-binding Protein from Vibrio parahaemolyticus.

Kim, Y., Zhou, M., Freeman, L., 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 and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 22.82 kDa 
• Atom Count: 1,729 
• Modelled Residue Count: 195 
• Deposited Residue Count: 202 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Methionine import ATP-binding protein metN	A, B	101	Vibrio parahaemolyticus RIMD 2210633	Mutation(s): 0  Gene Names: metN, VP0706 EC: 3.6.3 (PDB Primary Data), 7.4.2.11 (UniProt)
UniProt
Find proteins for Q87RS1 (Vibrio parahaemolyticus serotype O3:K6 (strain RIMD 2210633)) Explore Q87RS1  Go to UniProtKB:  Q87RS1

Small Molecules

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

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.71 Å
• R-Value Free: 0.240 
• R-Value Work: 0.199 
• R-Value Observed: 0.203 
• Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 103.134	α = 90
b = 47.78	β = 118.48
c = 53.347	γ = 90

Software Package:

Software Name	Purpose
REFMAC	refinement
SBC-Collect	data collection
HKL-3000	data collection
HKL-3000	data reduction
HKL-3000	data scaling
HKL-3000	phasing
SHELXCD	phasing
SHELXE	model building
MLPHARE	phasing
RESOLVE	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2007-08-14 
Deposition Author(s): Kim, Y., Zhou, M., Freeman, L., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Revision History  

• Version 1.0: 2007-08-14
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Advisory, Source and taxonomy, Version format compliance
• Version 1.2: 2017-10-25
  Changes: Refinement description
• Version 1.3: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Structure summary