3BOQ | pdb_00003boq

Crystal structure of MarR family transcriptional regulator from Silicibacter pomeroyi

PDB DOI: https://doi.org/10.2210/pdb3BOQ/pdb

Classification: TRANSCRIPTION REGULATOR
Organism(s): Ruegeria pomeroyi DSS-3
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2007-12-17 Released: 2008-01-01
Deposition Author(s): Chang, C., Volkart, L., Freeman, L., Joachimiak, A., Midwest Center for Structural Genomics (MCSG)

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.39 Å
R-Value Free:
0.233 (Depositor), 0.231 (DCC)
R-Value Work:
0.203 (Depositor), 0.201 (DCC)
R-Value Observed:
0.204 (Depositor)

wwPDB Validation 3D Report Full Report

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This is version 1.2 of the entry. See complete history.

Literature

Crystal structure of MarR family transcriptional regulator.

Chang, C., Volkart, L., Freeman, L., Joachimiak, A.

To be published.

Macromolecule Content

Total Structure Weight: 35.07 kDa
Atom Count: 2,144
Modeled Residue Count: 274
Deposited Residue Count: 320
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transcriptional regulator, MarR family	A, B	160	Ruegeria pomeroyi DSS-3	Mutation(s): 0 Gene Names: SPOA0452
UniProt
Find proteins for Q5LLB8 (Ruegeria pomeroyi (strain ATCC 700808 / DSM 15171 / DSS-3)) Explore Q5LLB8 Go to UniProtKB: Q5LLB8
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q5LLB8
Sequence Annotations Expand
Reference Sequence

Small Molecules

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

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.39 Å
R-Value Free: 0.233 (Depositor), 0.231 (DCC)
R-Value Work: 0.203 (Depositor), 0.201 (DCC)
R-Value Observed: 0.204 (Depositor)

Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 110.567	α = 90
b = 110.567	β = 90
c = 68.951	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
SBC-Collect	data collection
HKL-3000	data reduction
HKL-3000	data scaling
HKL-3000	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2008-01-01

Deposition Author(s):

Midwest Center for Structural Genomics (MCSG)

Revision History (Full details and data files)

Version 1.0: 2008-01-01
Type: Initial release
Version 1.1: 2011-07-13
Changes: Advisory, Version format compliance
Version 1.2: 2024-10-30
Changes: Data collection, Database references, Derived calculations, Structure summary

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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.