6SWB | pdb_00006swb

The REC domain of AraT, a response regulator from Geobacillus stearothermophilus

PDB DOI: https://doi.org/10.2210/pdb6SWB/pdb

Classification: TRANSCRIPTION
Organism(s): Geobacillus stearothermophilus
Expression System: Escherichia coli
Mutation(s): No

Deposited: 2019-09-20 Released: 2020-10-14
Deposition Author(s): Lansky, S., Lavid, N., Shoham, Y., Shoham, G.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.26 Å
R-Value Free:
0.255 (Depositor), 0.246 (DCC)
R-Value Work:
0.168 (Depositor), 0.173 (DCC)
R-Value Observed:
0.176 (Depositor)

Starting Model: experimental
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This is version 1.1 of the entry. See complete history.

Literature

The REC domain of AraT, a response regulator from Geobacillus stearothermophilus

Lansky, S., Lavid, N., Shoham, Y., Shoham, G.

To be published.

Macromolecule Content

Total Structure Weight: 32.17 kDa
Atom Count: 2,240
Modeled Residue Count: 259
Deposited Residue Count: 270
Unique protein chains: 1

Macromolecules

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Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Two-component response regulator	A, B	135	Geobacillus stearothermophilus	Mutation(s): 0 Gene Names: araT
UniProt
Find proteins for B3EYL7 (Geobacillus stearothermophilus) Explore B3EYL7 Go to UniProtKB: B3EYL7
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	B3EYL7
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PEG Query on PEG Download:Ideal Coordinates CCD File SDF format, chain E [auth B] SDF format, chain D [auth A] SDF format, chain C [auth A] MOL2 format, chain E [auth B] MOL2 format, chain D [auth A] MOL2 format, chain C [auth A] mmCIF format, chain E [auth B] mmCIF format, chain D [auth A] mmCIF format, chain C [auth A]	C [auth A], D [auth A], E [auth B]	DI(HYDROXYETHYL)ETHER C₄ H₁₀ O₃ MTHSVFCYNBDYFN-UHFFFAOYSA-N		Interactions Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth B] Interactions & Density Focus chain C [auth A] Focus chain D [auth A] Focus chain E [auth B]

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.26 Å
R-Value Free: 0.255 (Depositor), 0.246 (DCC)
R-Value Work: 0.168 (Depositor), 0.173 (DCC)
R-Value Observed: 0.176 (Depositor)

Space Group: P 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 32.499	α = 83.46
b = 41.918	β = 89.98
c = 43.981	γ = 71.11

Software Package:

Software Name	Purpose
XSCALE	data scaling
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
PHASER	phasing

Structure Validation

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Entry History

Deposition Data

Released Date: 2020-10-14

Deposition Author(s):

Revision History (Full details and data files)

Version 1.0: 2020-10-14
Type: Initial release
Version 1.1: 2024-01-24
Changes: Data collection, Database references, 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.