3H9X

Crystal Structure of the PSPTO_3016 protein from Pseudomonas syringae, Northeast Structural Genomics Consortium Target PsR293


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.51 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.210 
  • R-Value Observed: 0.212 

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This is version 1.3 of the entry. See complete history


Literature

Solution NMR and X-ray crystal structures of Pseudomonas syringae Pspto_3016 from protein domain family PF04237 (DUF419) adopt a "double wing" DNA binding motif.

Feldmann, E.A.Seetharaman, J.Ramelot, T.A.Lew, S.Zhao, L.Hamilton, K.Ciccosanti, C.Xiao, R.Acton, T.B.Everett, J.K.Tong, L.Montelione, G.T.Kennedy, M.A.

(2012) J Struct Funct Genomics 13: 155-162

  • DOI: https://doi.org/10.1007/s10969-012-9140-8
  • Primary Citation of Related Structures:  
    2KFP, 3H9X

  • PubMed Abstract: 

    The protein Pspto_3016 is a 117-residue member of the protein domain family PF04237 (DUF419), which is to date a functionally uncharacterized family of proteins. In this report, we describe the structure of Pspto_3016 from Pseudomonas syringae solved by both solution NMR and X-ray crystallography at 2.5 Å resolution. In both cases, the structure of Pspto_3016 adopts a "double wing" α/β sandwich fold similar to that of protein YjbR from Escherichia coli and to the C-terminal DNA binding domain of the MotA transcription factor (MotCF) from T4 bacteriophage, along with other uncharacterized proteins. Pspto_3016 was selected by the Protein Structure Initiative of the National Institutes of Health and the Northeast Structural Genomics Consortium (NESG ID PsR293).


  • Organizational Affiliation

    Department of Chemistry and Biochemistry, Miami University, Oxford, OH 45056, USA.


Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
uncharacterized protein PSPTO_3016
A, B, C, D
125Pseudomonas syringae pv. tomatoMutation(s): 0 
Gene Names: PSPTO3016PSPTO_3016
UniProt
Find proteins for Q880Y4 (Pseudomonas syringae pv. tomato (strain ATCC BAA-871 / DC3000))
Explore Q880Y4 
Go to UniProtKB:  Q880Y4
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ880Y4
Sequence Annotations
Expand
  • Reference Sequence
Small Molecules
Modified Residues  1 Unique
IDChains TypeFormula2D DiagramParent
MSE
Query on MSE
A, B, C, D
L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.51 Å
  • R-Value Free: 0.245 
  • R-Value Work: 0.210 
  • R-Value Observed: 0.212 
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 44.302α = 87.07
b = 48.546β = 92.4
c = 68.047γ = 93.57
Software Package:
Software NamePurpose
CNSrefinement
PDB_EXTRACTdata extraction
ADSCdata collection
HKL-2000data reduction
SCALEPACKdata scaling
SOLVEphasing
REFMACrefinement

Structure Validation

View Full Validation Report



Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2009-05-19
    Type: Initial release
  • Version 1.1: 2011-07-13
    Changes: Version format compliance
  • Version 1.2: 2012-10-17
    Changes: Database references
  • Version 1.3: 2019-07-24
    Changes: Data collection, Derived calculations, Refinement description