4EM0 | pdb_00004em0

staphylococcus aureus MarR in complex with salicylate and kanamycin

PDB DOI: https://doi.org/10.2210/pdb4EM0/pdb

Classification: TRANSCRIPTION/ANTIBIOTIC
Organism(s): Staphylococcus aureus subsp. aureus MRSA252
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2012-04-11 Released: 2013-04-17
Deposition Author(s): Chang, Y.M., Chen, C.K.-M., Wang, A.H.-J.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.90 Å
R-Value Free:
0.308 (Depositor), 0.311 (DCC)
R-Value Work:
0.246 (Depositor), 0.244 (DCC)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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Ligand Structure Quality Assessment

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

Literature

Staphylococcus aureus MarR complexes

Chang, Y.M., Chen, C.K.-M., Wang, A.H.-J.

To be published.

Macromolecule Content

Total Structure Weight: 21.29 kDa
Atom Count: 1,332
Modeled Residue Count: 150
Deposited Residue Count: 178
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Uncharacterized HTH-type transcriptional regulator SAR2349	A [auth B]	178	Staphylococcus aureus subsp. aureus MRSA252	Mutation(s): 0 Gene Names: SAR2349
UniProt
Find proteins for Q6GEG9 (Staphylococcus aureus (strain MRSA252)) Explore Q6GEG9 Go to UniProtKB: Q6GEG9
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q6GEG9
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
KAN Query on KAN Download:Ideal Coordinates CCD File SDF format, chain C [auth B] MOL2 format, chain C [auth B] mmCIF format, chain C [auth B]	C [auth B]	KANAMYCIN A C₁₈ H₃₆ N₄ O₁₁ SBUJHOSQTJFQJX-NOAMYHISSA-N		Interactions Focus chain C [auth B] Interactions & Density Focus chain C [auth B]
SAL Query on SAL Download:Ideal Coordinates CCD File SDF format, chain B MOL2 format, chain B mmCIF format, chain B	B	2-HYDROXYBENZOIC ACID C₇ H₆ O₃ YGSDEFSMJLZEOE-UHFFFAOYSA-N		Interactions Focus chain B Interactions & Density Focus chain B

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.90 Å
R-Value Free: 0.308 (Depositor), 0.311 (DCC)
R-Value Work: 0.246 (Depositor), 0.244 (DCC)

Space Group: P 3₂ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 83.446	α = 90
b = 83.446	β = 90
c = 61.131	γ = 120

Software Package:

Software Name	Purpose
HKL-2000	data collection
CNS	refinement
HKL-2000	data reduction
HKL-2000	data scaling
CNS	phasing

Structure Validation

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Ligand Structure Quality Assessment

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Entry History

Deposition Data

Released Date: 2013-04-17

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2013-04-17
Type: Initial release
Version 1.1: 2023-11-08
Changes: Data collection, Database references, Derived calculations, Refinement description

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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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.