6YMZ

Structure of the CheB methylsterase from P. atrosepticum SCRI1043

Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.226 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.194 

wwPDB Validation   3D Report Full Report



Literature

Evidence for Pentapeptide-Dependent and Independent CheB Methylesterases.

Velando, F., Gavira, J.A., Rico-Jimenez, M., Matilla, M.A., Krell, T.

(2020) Int J Mol Sci 21

  • DOI: 10.3390/ijms21228459
  • Primary Citation of Related Structures:  
    6YMZ

  • PubMed Abstract: 

    • Many bacteria possess multiple chemosensory pathways that are composed of homologous signaling proteins. These pathways appear to be functionally insulated from each other, but little information is available on the corresponding molecular basis. We repo ...

    Many bacteria possess multiple chemosensory pathways that are composed of homologous signaling proteins. These pathways appear to be functionally insulated from each other, but little information is available on the corresponding molecular basis. We report here a novel mechanism that contributes to pathway insulation. We show that, of the four CheB paralogs of Pseudomonas aeruginosa PAO1, only CheB 2 recognizes a pentapeptide at the C-terminal extension of the McpB (Aer2) chemoreceptor ( K D = 93 µM). McpB is the sole chemoreceptor that stimulates the Che2 pathway, and CheB 2 is the methylesterase of this pathway. Pectobacterium atrosepticum SCRI1043 has a single CheB, CheB_Pec, and 19 of its 36 chemoreceptors contain a C-terminal pentapeptide. The deletion of cheB_Pec abolished chemotaxis, but, surprisingly, none of the pentapeptides bound to CheB_Pec. To determine the corresponding structural basis, we solved the 3D structure of CheB_Pec. Its structure aligned well with that of the pentapeptide-dependent enzyme from Salmonella enterica . However, no electron density was observed in the CheB_Pec region corresponding to the pentapeptide-binding site in the Escherichia coli CheB. We hypothesize that this structural disorder is associated with the failure to bind pentapeptides. Combined data show that CheB methylesterases can be divided into pentapeptide-dependent and independent enzymes.

    Organizational Affiliation: 

    Department of Environmental Protection, Estación Experimental del Zaidín, Consejo Superior de Investigaciones Científicas, Prof. Albareda 1, 18008 Granada, Spain.



Macromolecules
Find similar proteins by: 
(by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Protein-glutamate methylesterase/protein-glutamine glutaminase A, B, C, D, E356Pectobacterium atrosepticum SCRI1043Mutation(s): 0 
Gene Names: cheB, ECA1693
EC: 3.1.1.61 (PDB Primary Data), 3.5.1.44 (PDB Primary Data)
Find proteins for Q6D6I7 (Pectobacterium atrosepticum (strain SCRI 1043 / ATCC BAA-672))
Explore Q6D6I7 
Go to UniProtKB:  Q6D6I7
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.226 
  • R-Value Work: 0.192 
  • R-Value Observed: 0.194 
  • Space Group: I 4
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 148.741α = 90
b = 148.741β = 90
c = 206.34γ = 90
Software Package:
Software NamePurpose
PHASERphasing
PHENIXrefinement
MOSFLMdata reduction
Aimlessdata scaling
Cootmodel building

Structure Validation

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View more in-depth experimental data

Entry History & Funding Information

Deposition Data

Funding OrganizationLocationGrant Number
Spanish Ministry of Science, Innovation, and UniversitiesSpainBIO2013-4297-P
Spanish Ministry of Science, Innovation, and UniversitiesSpainBIO2016-74875-P

Revision History 

  • Version 1.0: 2021-02-17
    Type: Initial release