Biological Assembly 1  

 3D View: Structure | Electron Density

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 Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 51.90 kDa 
• Atom Count: 3323 
• Residue Count: 394 
• Unique protein chains: 1

6D7R

Crystal structure of an inactivate variant of the quorum-sensing master regulator HapR from protease-deficient non-O1, non-O139 Vibrio cholerae strain V2

• DOI: 10.2210/pdb6D7R/pdb
• Entry: 6D7R supersedes: 5L0X

• Classification: TRANSCRIPTION
• Organism(s): Vibrio cholerae
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2018-04-25 Released: 2018-05-30 
• Deposition Author(s): Cruite, J.T., Succo, P., Raychaudhuri, S., Kull, F.J.
• Funding Organization(s): National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.268 
• R-Value Work: 0.203 
• R-Value Observed: 0.208 

Literature

Crystal structure of an inactive variant of the quorum-sensing master regulator HapR from the protease-deficient non-O1, non-O139 Vibrio cholerae strain V2.

Cruite, J., Succo, P., Raychaudhuri, S., Kull, F.J.

(2018) Acta Crystallogr F Struct Biol Commun 74: 331-336

• PubMed: 29870016 
• DOI: 10.1107/S2053230X18006519
• Structures With Same Primary Citation


• PubMed Abstract: 
  

HapR is a TetR-family transcriptional regulator that controls quorum sensing in Vibrio cholerae, the causative agent of cholera. HapR regulates the expression of hemagglutinin protease, virulence and biofilm genes. The crystal structure of wild-type HapR from V. cholerae strain O1 El Tor C6706 has previously been solved. In this study, the structure of a DNA-binding-deficient variant of HapR (HapR _V2 ) derived from the protease-deficient V. cholerae serotype O37 strain V2 is reported. The structure reveals no structural differences compared with wild-type HapR. However, structural alignment of HapR _V2 with the TetR-family member QacR in complex with its operator DNA suggests that the aspartate residue located between the regulatory and DNA-binding domains may clash with and electrostatically repel the phosphate backbone of DNA to prevent binding.

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Organizational Affiliation: 

Department of Biochemistry, Geisel School of Medicine, Dartmouth College, Hanover, New Hampshire, USA.

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details
Hemagglutinin/protease regulatory protein	A, B	223	Vibrio cholerae	Mutation(s): 0  Gene Names:  hapR, BTY66_11620, EN12_02415, ERS013138_01392, ERS013140_02369, ERS013173_01523, ERS013186_00946, ERS013193_02550, ERS013198_01284, ERS013202_02486, C9J66_10080
Find proteins for B2CKP3 (Vibrio cholerae) Go to UniProtKB:  B2CKP3

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.10 Å
• R-Value Free: 0.268 
• R-Value Work: 0.203 
• R-Value Observed: 0.208 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 43.47	α = 90
b = 85.71	β = 90
c = 112.25	γ = 90

Software Package:

Software Name	Purpose
XDS	data scaling
XDS	data reduction
PHASER	phasing
PHENIX	refinement

Structure Validation

Entry History & Funding Information

Deposition Data

• Deposited Date: 2018-04-25 
• Released Date: 2018-05-30 
Deposition Author(s): Cruite, J.T., Succo, P., Raychaudhuri, S., Kull, F.J.
• This entry supersedes: 5L0X

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Funding Organization	Location	Grant Number
National Institutes of Health/National Institute Of Allergy and Infectious Diseases (NIH/NIAID)	United States	AI072661-10

Revision History 

• Version 1.0: 2018-05-30
  Type: Initial release
  
• Version 1.1: 2018-06-20
  Changes: Data collection, Database references
• Version 1.2: 2019-12-18
  Changes: Author supporting evidence