6RK2

Complex structure of virulence factor SghA mutant with its substrate SAG


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.09 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.174 
  • R-Value Observed: 0.176 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Agrobacteria reprogram virulence gene expression by controlled release of host-conjugated signals.

Wang, C.Ye, F.Chang, C.Liu, X.Wang, J.Wang, J.Yan, X.F.Fu, Q.Zhou, J.Chen, S.Gao, Y.G.Zhang, L.H.

(2019) Proc Natl Acad Sci U S A 116: 22331-22340

  • DOI: 10.1073/pnas.1903695116
  • Primary Citation of Related Structures:  
    6RJK, 6RJM, 6RJO, 6RK2

  • PubMed Abstract: 
  • It is highly intriguing how bacterial pathogens can quickly shut down energy-costly infection machinery once successful infection is established. This study depicts that mutation of repressor SghR increases the expression of hydrolase SghA in Agrobacterium tumefaciens , which releases plant defense signal salicylic acid (SA) from its storage form SA β-glucoside (SAG) ...

    It is highly intriguing how bacterial pathogens can quickly shut down energy-costly infection machinery once successful infection is established. This study depicts that mutation of repressor SghR increases the expression of hydrolase SghA in Agrobacterium tumefaciens , which releases plant defense signal salicylic acid (SA) from its storage form SA β-glucoside (SAG). Addition of SA substantially reduces gene expression of bacterial virulence. Bacterial vir genes and sghA are differentially transcribed at early and later infection stages, respectively. Plant metabolite sucrose is a signal ligand that inactivates SghR and consequently induces sghA expression. Disruption of sghA leads to increased vir expression in planta and enhances tumor formation whereas mutation of sghR decreases vir expression and tumor formation. These results depict a remarkable mechanism by which A. tumefaciens taps on the reserved pool of plant signal SA to reprogram its virulence upon establishment of infection.


    Organizational Affiliation

    Institute of Molecular and Cell Biology, 138673, Singapore.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Beta-glucosidase AB490Agrobacterium tumefaciens A6Mutation(s): 1 
Gene Names: sghA
EC: 3.2.1.21
Find proteins for A0A2I4PGZ0 (Agrobacterium tumefaciens A6)
Explore A0A2I4PGZ0 
Go to UniProtKB:  A0A2I4PGZ0
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 1 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
6GR
Query on 6GR

Download Ideal Coordinates CCD File 
A, B
2-(alpha-L-altropyranosyloxy)benzoic acid
C13 H16 O8
TZPBMNKOLMSJPF-HKLXJQGRSA-N
 Ligand Interaction
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.09 Å
  • R-Value Free: 0.214 
  • R-Value Work: 0.174 
  • R-Value Observed: 0.176 
  • Space Group: P 21 21 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 63.615α = 90
b = 80.371β = 90
c = 183.592γ = 90
Software Package:
Software NamePurpose
PHENIXrefinement
XDSdata reduction
XSCALEdata scaling
PHASERphasing

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Research Foundation (Singapore)SingaporeNRF-RF2009-RF001-267
National Basic Research Program of China (973 Program)China2015CB150600

Revision History  (Full details and data files)

  • Version 1.0: 2019-10-09
    Type: Initial release
  • Version 1.1: 2019-10-23
    Changes: Data collection, Database references
  • Version 1.2: 2019-11-06
    Changes: Data collection, Database references
  • Version 1.3: 2020-07-29
    Type: Remediation
    Reason: Carbohydrate remediation
    Changes: Author supporting evidence, Data collection, Derived calculations