Biological Assembly 1  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Cyclic - C2  (3D View)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Biological Assembly 2  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Biological Assembly 3  

 3D View: Structure | 1D-3D View | Electron Density | Validation Report | Ligand Interaction

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 3 assigned by authors.

Macromolecule Content

• Total Structure Weight: 178.72 kDa 
• Atom Count: 12329 
• Modelled Residue Count: 1476 
• Deposited Residue Count: 1516 
• Unique protein chains: 1

3OTT

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

• PDB DOI: 10.2210/pdb3OTT/pdb

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


• Deposited: 2010-09-13 Released: 2011-08-10 
• Deposition Author(s): Zhang, Z., Liu, Q., Hendrickson, W.A.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.253 
• R-Value Work: 0.195 
• R-Value Observed: 0.197 

Literature

Crystal structures of apparent saccharide sensors from histidine kinase receptors prevalent in a human gut symbiont.

Zhang, Z., Liu, Q., Hendrickson, W.A.

(2014) FEBS J 281: 4263-4279

• PubMed: 24995510 
• DOI: 10.1111/febs.12904
• Primary Citation of Related Structures:  
  3OTT, 3V9F


• PubMed Abstract: 
  

The adult human gut is a complicated ecosystem in which host-bacterium symbiosis plays an important role. Bacteroides thetaiotaomicron is a predominant member of the gut microflora, providing the human digestive tract with a large number of glycolytic enzymes. Expression of many of these enzymes appears to be controlled by histidine kinase receptors that are fused into unusual hybrid two-component systems that share homologous periplasmic sensor domains. These sensor domains belong to the third most populated (HK3) family based on a previous unpublished bioinformatics analysis of predicted histidine kinase sensors. Here, we present the crystal structures of two sensor domains representative of the HK3 family. Each sensor is folded into three domains: two-seven-bladed β-propeller domains and one β-sandwich domain. Both sensors form dimers in crystals, and one sensor appears to be physiologically relevant. The folding characteristics in the individual domains, the domain organization, and the oligomeric architecture are all unique to HK3 sensors. Sequence analysis of the HK3 sensors indicates that these sensor domains are shared among other signaling molecules, implying combinatorial molecular evolution.

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Related Citations: 

• Multi-crystal Anomalous Diffraction for Low Resolution Macromolecular Phasing
  () To be published --: --

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Organizational Affiliation: 

Department of Biochemistry and Molecular Biophysics, Columbia University, New York, NY, USA.

Macromolecules

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
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

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
TBR	C [auth A], D [auth B]	HEXATANTALUM DODECABROMIDE Br12 Ta6 YWYIQTPPCOBSGN-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.30 Å
• R-Value Free: 0.253 
• R-Value Work: 0.195 
• R-Value Observed: 0.197 
• Space Group: P 4₁ 2₁ 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 88.173	α = 90
b = 88.173	β = 90
c = 432.956	γ = 90

Software Package:

Software Name	Purpose
XSCALE	data scaling
REFMAC	refinement
PDB_EXTRACT	data extraction
SHELXS	phasing

Structure Validation

Entry History 

Deposition Data

• Deposited Date: 2010-09-13 
• Released Date: 2011-08-10 
Deposition Author(s): Zhang, Z., Liu, Q., Hendrickson, W.A.

Revision History  

• Version 1.0: 2011-08-10
  Type: Initial release
  
• Version 1.1: 2014-07-23
  Changes: Database references
• Version 1.2: 2014-10-01
  Changes: Database references