6IJU | pdb_00006iju

The DNA binding domain of a response regulator ArlR from Staphylococcus aureus

PDB DOI: https://doi.org/10.2210/pdb6IJU/pdb

Classification: DNA BINDING PROTEIN
Organism(s): Staphylococcus aureus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2018-10-12 Released: 2019-10-16
Deposition Author(s): Hui, Y., Qing, W.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free:
0.241 (Depositor), 0.240 (DCC)
R-Value Work:
0.211 (Depositor), 0.210 (DCC)
R-Value Observed:
0.213 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

This is version 1.1 of the entry. See complete history.

Literature

The DNA-binding properties and the structure of the DNA-binding domain of the response regulator ArlR from Staphylococcus aureus

Hui, Y., Qing, W.

To be published.

Macromolecule Content

Total Structure Weight: 11.4 kDa
Atom Count: 834
Modeled Residue Count: 97
Deposited Residue Count: 97
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
DNA-binding response regulator	A	97	Staphylococcus aureus	Mutation(s): 0
UniProt
Find proteins for Q9KJN4 (Staphylococcus aureus (strain NCTC 8325 / PS 47)) Explore Q9KJN4 Go to UniProtKB: Q9KJN4
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q9KJN4
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.40 Å
R-Value Free: 0.241 (Depositor), 0.240 (DCC)
R-Value Work: 0.211 (Depositor), 0.210 (DCC)
R-Value Observed: 0.213 (Depositor)

Space Group: P 6₄ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 67.233	α = 90
b = 67.233	β = 90
c = 153.23	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
PHENIX	refinement
HKL-3000	data reduction
HKL-3000	data scaling
HKL-3000	data collection
PHENIX	phasing

Structure Validation

View Full Validation Report

Entry History

Deposition Data

Released Date: 2019-10-16

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2019-10-16
Type: Initial release
Version 1.1: 2023-11-22
Changes: Data collection, Database references, Refinement description

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM157729.