5E1W

Crystal structure of the organohalide sensing RdhR-CbdbA1625 transcriptional regulator in the ligand free form

PDB DOI: https://doi.org/10.2210/pdb5E1W/pdb

Classification: TRANSCRIPTION
Organism(s): Dehalococcoides mccartyi CBDB1
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2015-09-30 Released: 2016-10-05
Deposition Author(s): Quezada, C.P., Dunstan, M.S., Fisher, K., Leys, D.
Funding Organization(s): European Research Council

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 1.39 Å
R-Value Free: 0.169
R-Value Work: 0.136
R-Value Observed: 0.137

wwPDB Validation 3D Report Full Report

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

Literature

Crystal structures of RdhRCbdbA1625 provide insight into sensing of chloroaromatic compounds by MarR-type regulators

Quezada, C.P., Dunstan, M.S., Fisher, K., Leys, D.

To be published.

Macromolecule Content

Total Structure Weight: 21.02 kDa
Atom Count: 1,723
Modelled Residue Count: 168
Deposited Residue Count: 180
Unique protein chains: 1

Macromolecules

Find similar proteins by:

(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Transcriptional regulator, MarR family	A	180	Dehalococcoides mccartyi CBDB1	Mutation(s): 0
UniProt
Find proteins for A0A1I9GEQ5 (Dehalococcoides mccartyi (strain CBDB1)) Explore A0A1I9GEQ5 Go to UniProtKB: A0A1I9GEQ5
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	A0A1I9GEQ5
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 1.39 Å
R-Value Free: 0.169
R-Value Work: 0.136
R-Value Observed: 0.137
Space Group: P 3₁ 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 71.95	α = 90
b = 71.95	β = 90
c = 87.63	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
XDS	data reduction
XDS	data scaling
MLPHARE	phasing

Structure Validation

View Full Validation Report

Entry History & Funding Information

Deposition Data

Released Date: 2016-10-05

Deposition Author(s):

Funding Organization	Location	Grant Number
European Research Council	United Kingdom	DEHALORES206080

Revision History (Full details and data files)

Version 1.0: 2016-10-05
Type: Initial release
Version 1.1: 2024-05-08
Changes: Author supporting evidence, Data collection, Database references

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.