1M0V

NMR STRUCTURE OF THE TYPE III SECRETORY DOMAIN OF YERSINIA YOPH COMPLEXED WITH THE SKAP-HOM PHOSPHO-PEPTIDE N-acetyl-DEpYDDPF-NH2


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Calculated: 360 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the least restraint violations 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Solution structure and phosphopeptide binding to the N-terminal domain of Yersinia YopH: comparison with a crystal structure

Khandelwal, P.Keliikuli, K.Smith, C.L.Saper, M.A.Zuiderweg, E.R.P.

(2002) Biochemistry 41: 11425-11437


  • PubMed Abstract: 
  • Virulence of pathogenic bacteria of the genus Yersinia requires the injection of six effector proteins into the cytoplasm of host cells. The amino-terminal domain of one of these effectors, the tyrosine phosphatase YopH, is essential for translocatio ...

    Virulence of pathogenic bacteria of the genus Yersinia requires the injection of six effector proteins into the cytoplasm of host cells. The amino-terminal domain of one of these effectors, the tyrosine phosphatase YopH, is essential for translocation of YopH, as well as for targeting it to phosphotyrosine-containing substrates of the type pYxxP. We report the high-resolution solution structure of the N-terminal domain (residues 1-129) from the Yersinia pseudotuberculosis YopH (YopH-NT) in complex with N-acetyl-DEpYDDPF-NH(2), a peptide derived from an in vivo protein substrate. In contrast to the domain-swapped dimer observed in a crystal structure of the same protein (Smith, C. L., Khandelwal, P., Keliikuli, K., Zuiderweg, E. R. P., and Saper, M. A. (2001) Mol. Microbiol. 42, 967-979), YopH-NT is monomeric in solution. The peptide binding site is located on a beta-hairpin that becomes the crossover point in the dimer structure. The binding site has several characteristics that are reminiscent of SH2 domains, which also bind to pYxxP sequences.


    Related Citations: 
    • STRUCTURE OF THE TYPE III SECRETION AND SUBSTRATE-BINDING DOMAIN OF YERSINIA YOPH PHOSPHATASE
      SMITH, C.L.,KHANDELWAL, P.,KELIIKULI, K.,ZUIDERWEG, E.R.P.,SAPER, M.A.
      (2001) MOL.MICROBIOL. 42: 967
    • 1H, 15N AND 13C ASSIGNMENTS OF THE N-TERMINAL DOMAIN OF YERSINIA OUTER PROTEIN H IN ITS APO FORM AND IN COMPLEX WITH A PHOSPHOTYROSINE PEPTIDE
      KHANDELWAL, P.,KELIIKULI, K.,SMITH, C.L.,SAPER, M.A.,ZUIDERWEG, E.R.P.
      (2001) J.BIOMOL.NMR 21: 69


    Organizational Affiliation

    Biophysics Research Division, University of Michigan, 930 North University Avenue, Ann Arbor, Michigan 48109-1055, USA.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
PROTEIN-TYROSINE PHOSPHATASE YOPH
A
136Yersinia pseudotuberculosis serotype I (strain IP32953)Gene Names: yopH (yop2b)
EC: 3.1.3.48
Find proteins for P08538 (Yersinia pseudotuberculosis serotype I (strain IP32953))
Go to UniProtKB:  P08538
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
SKAP55 homologue
B
9Mus musculusGene Names: Skap2 (Prap, Ra70, Saps, Scap2, Skap55r)
Find proteins for Q3UND0 (Mus musculus)
Go to UniProtKB:  Q3UND0
Small Molecules
Modified Residues  3 Unique
IDChainsTypeFormula2D DiagramParent
NH2
Query on NH2
B
NON-POLYMERH2 N

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PTR
Query on PTR
B
L-PEPTIDE LINKINGC9 H12 N O6 PTYR
ACE
Query on ACE
B
NON-POLYMERC2 H4 O

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Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Calculated: 360 
  • Conformers Submitted: 20 
  • Selection Criteria: structures with the least restraint violations 
  • Olderado: 1M0V Olderado

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2002-07-24
    Type: Initial release
  • Version 1.1: 2008-04-28
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance