6N8B

Crystal structure of transcription regulator AcaB from uropathogenic E. coli


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.94 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.228 
  • R-Value Observed: 0.230 

wwPDB Validation   3D Report Full Report


This is version 1.1 of the entry. See complete history


Literature

Comprehensive analysis of IncC plasmid conjugation identifies a crucial role for the transcriptional regulator AcaB.

Hancock, S.J.Phan, M.D.Luo, Z.Lo, A.W.Peters, K.M.Nhu, N.T.K.Forde, B.M.Whitfield, J.Yang, J.Strugnell, R.A.Paterson, D.L.Walsh, T.R.Kobe, B.Beatson, S.A.Schembri, M.A.

(2020) Nat Microbiol 5: 1340-1348

  • DOI: 10.1038/s41564-020-0775-0
  • Primary Citation of Related Structures:  
    6N8A, 6N8B

  • PubMed Abstract: 
  • The IncC family of broad-host-range plasmids enables the spread of antibiotic resistance genes among human enteric pathogens 1-3 . Although aspects of IncC plasmid conjugation have been well studied 4-9 , many roles of conjugation genes have been assigned based solely on sequence similarity ...

    The IncC family of broad-host-range plasmids enables the spread of antibiotic resistance genes among human enteric pathogens 1-3 . Although aspects of IncC plasmid conjugation have been well studied 4-9 , many roles of conjugation genes have been assigned based solely on sequence similarity. We applied hypersaturated transposon mutagenesis and transposon-directed insertion-site sequencing to determine the set of genes required for IncC conjugation. We identified 27 conjugation genes, comprising 19 that were previously identified (including two regulatory genes, acaDC) and eight not previously associated with conjugation. We show that one previously unknown gene, acaB, encodes a transcriptional regulator that has a crucial role in the regulation of IncC conjugation. AcaB binds upstream of the acaDC promoter to increase acaDC transcription; in turn, AcaDC activates the transcription of IncC conjugation genes. We solved the crystal structure of AcaB at 2.9-Å resolution and used this to guide functional analyses that reveal how AcaB binds to DNA. This improved understanding of IncC conjugation provides a basis for the development of new approaches to reduce the spread of these multi-drug-resistance plasmids.


    Organizational Affiliation

    Australian Infectious Diseases Research Centre, The University of Queensland, Brisbane, Queensland, Australia. m.schembri@uq.edu.au.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
transcription regulator AcaBA, B213Escherichia coliMutation(s): 0 
Gene Names: 
UniProt
Find proteins for C4NVV6 (Escherichia coli)
Explore C4NVV6 
Go to UniProtKB:  C4NVV6
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupC4NVV6
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
CA
Query on CA

Download Ideal Coordinates CCD File 
C [auth A]CALCIUM ION
Ca
BHPQYMZQTOCNFJ-UHFFFAOYSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.94 Å
  • R-Value Free: 0.258 
  • R-Value Work: 0.228 
  • R-Value Observed: 0.230 
  • Space Group: I 21 3
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 167.188α = 90
b = 167.188β = 90
c = 167.188γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
Aimlessdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Health and Medical Research Council (NHMRC, Australia)AustraliaGNT1106590
National Health and Medical Research Council (NHMRC, Australia)AustraliaGNT1033799
National Health and Medical Research Council (NHMRC, Australia)AustraliaGNT1067455
National Health and Medical Research Council (NHMRC, Australia)AustraliaGNT1071659

Revision History  (Full details and data files)

  • Version 1.0: 2020-07-15
    Type: Initial release
  • Version 1.1: 2021-01-27
    Changes: Database references