5H5Y

Structure of Transferase mutant-C23S,C199S


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.30 Å
  • R-Value Free: 0.260 
  • R-Value Work: 0.219 
  • R-Value Observed: 0.221 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Structural basis for arginine glycosylation of host substrates by bacterial effector proteins.

Park, J.B.Kim, Y.H.Yoo, Y.Kim, J.Jun, S.H.Cho, J.W.El Qaidi, S.Walpole, S.Monaco, S.Garcia-Garcia, A.A.Wu, M.Hays, M.P.Hurtado-Guerrero, R.Angulo, J.Hardwidge, P.R.Shin, J.S.Cho, H.S.

(2018) Nat Commun 9: 4283-4283

  • DOI: 10.1038/s41467-018-06680-6
  • Primary Citation of Related Structures:  
    6IXK, 5H63, 5H5Y, 5H60, 5H62, 5H61

  • PubMed Abstract: 
  • The bacterial effector proteins SseK and NleB glycosylate host proteins on arginine residues, leading to reduced NF-κB-dependent responses to infection. Salmonella SseK1 and SseK2 are E. coli NleB1 orthologs that behave as NleB1-like GTs, although th ...

    The bacterial effector proteins SseK and NleB glycosylate host proteins on arginine residues, leading to reduced NF-κB-dependent responses to infection. Salmonella SseK1 and SseK2 are E. coli NleB1 orthologs that behave as NleB1-like GTs, although they differ in protein substrate specificity. Here we report that these enzymes are retaining glycosyltransferases composed of a helix-loop-helix (HLH) domain, a lid domain, and a catalytic domain. A conserved HEN motif (His-Glu-Asn) in the active site is important for enzyme catalysis and bacterial virulence. We observe differences between SseK1 and SseK2 in interactions with substrates and identify substrate residues that are critical for enzyme recognition. Long Molecular Dynamics simulations suggest that the HLH domain determines substrate specificity and the lid-domain regulates the opening of the active site. Overall, our data suggest a front-face S N i mechanism, explain differences in activities among these effectors, and have implications for future drug development against enteric pathogens.


    Organizational Affiliation

    Department of Systems Biology, College of Life Science and Biotechnology, Yonsei University, 50 Yonsei-ro, Seodaemun-gu, Seoul, 03722, Republic of Korea. hscho8@yonsei.ac.kr.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
Non-LEE encoded effector protein NleBAB326Escherichia coliMutation(s): 2 
Gene Names: 
Find proteins for A0A0D7C3R7 (Escherichia coli)
Explore A0A0D7C3R7 
Go to UniProtKB:  A0A0D7C3R7
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: 0.260 
  • R-Value Work: 0.219 
  • R-Value Observed: 0.221 
  • Space Group: P 21 2 21
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 67.83α = 90
b = 95.55β = 90
c = 120.18γ = 90
Software Package:
Software NamePurpose
REFMACrefinement
iMOSFLMdata reduction
Aimlessdata scaling
REFMACphasing

Structure Validation

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Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2017-12-27
    Type: Initial release
  • Version 1.1: 2018-09-19
    Changes: Data collection, Database references
  • Version 1.2: 2018-10-24
    Changes: Data collection, Database references
  • Version 1.3: 2018-10-31
    Changes: Data collection, Database references