3VA6 | pdb_00003va6

Crystal Structure of the extracellular domain of the putative hybrid two component system BT4673 from B. thetaiotaomicron

PDB DOI: https://doi.org/10.2210/pdb3VA6/pdb

Classification: TRANSCRIPTION
Organism(s): Bacteroides thetaiotaomicron
Expression System: Escherichia coli BL21(DE3)
Mutation(s): No

Deposited: 2011-12-28 Released: 2012-06-13
Deposition Author(s): Zhang, Z., Liu, Q., Hendrickson, W.A.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 2.80 Å
R-Value Free:
0.274 (Depositor), 0.275 (DCC)
R-Value Work:
0.216 (Depositor), 0.218 (DCC)
R-Value Observed:
0.219 (Depositor)

Starting Model: experimental
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wwPDB Validation 3D Report Full Report

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

Literature

The Extraellular Domain Structures of Two Potential Saccharide-sensing Two-component Systems from a Human Gut Symbiont

Zhang, Z., Liu, Q., Hendrickson, W.A.

To be published.

Macromolecule Content

Total Structure Weight: 174.6 kDa
Atom Count: 12,203
Modeled Residue Count: 1,490
Deposited Residue Count: 1,516
Unique protein chains: 1

Macromolecules

Find similar proteins by:

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Two-component system sensor histidine kinase	A, B	758	Bacteroides thetaiotaomicron	Mutation(s): 0 Gene Names: BT_4673 EC: 2.7.13.3
UniProt
Find proteins for Q89YQ8 (Bacteroides thetaiotaomicron (strain ATCC 29148 / DSM 2079 / JCM 5827 / CCUG 10774 / NCTC 10582 / VPI-5482 / E50)) Explore Q89YQ8 Go to UniProtKB: Q89YQ8
Entity Groups
Sequence Clusters	30% Identity 50% Identity 70% Identity 90% Identity 95% Identity 100% Identity
UniProt Group	Q89YQ8
Sequence Annotations Expand
Reference Sequence

Experimental Data & Validation

Experimental Data

Method: X-RAY DIFFRACTION
Resolution: 2.80 Å
R-Value Free: 0.274 (Depositor), 0.275 (DCC)
R-Value Work: 0.216 (Depositor), 0.218 (DCC)
R-Value Observed: 0.219 (Depositor)

Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 87.883	α = 90
b = 87.883	β = 90
c = 430.06	γ = 90

Software Package:

Software Name	Purpose
SCALEPACK	data scaling
PHASER	phasing
REFMAC	refinement
PDB_EXTRACT	data extraction
DENZO	data reduction

Structure Validation

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Entry History

Deposition Data

Released Date: 2012-06-13

Deposition Author(s):

Hendrickson, W.A.

Revision History (Full details and data files)

Version 1.0: 2012-06-13
Type: Initial release
Version 1.1: 2017-11-08
Changes: Refinement description
Version 1.2: 2023-09-13
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.