3RYA

Lactococcal OppA complexed with SLSQLSSQS


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.257 
  • R-Value Work: 0.224 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Importance of a Hydrophobic Pocket for Peptide Binding in Lactococcal OppA.

Berntsson, R.P.Thunnissen, A.M.Poolman, B.Slotboom, D.J.

(2011) J.Bacteriol. 193: 4254-4256

  • DOI: 10.1128/JB.00447-11
  • Primary Citation of Related Structures:  

  • PubMed Abstract: 
  • Lactococcal oligopeptide-binding protein A (OppA) binds peptides with widely varied lengths and sequences. We previously hypothesized that a hydrophobic pocket in OppA preferentially binds a hydrophobic peptide side chain and thus determines its bind ...

    Lactococcal oligopeptide-binding protein A (OppA) binds peptides with widely varied lengths and sequences. We previously hypothesized that a hydrophobic pocket in OppA preferentially binds a hydrophobic peptide side chain and thus determines its binding register. Two crystal structures of OppA with different nonapeptides now indeed show binding in different registers.


    Organizational Affiliation

    Biochemistry Department, Groningen Biomolecular Sciences and Biotechnology Center, NPC & Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747 AG Groningen, The Netherlands.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
Oligopeptide-binding protein oppA
A
590Lactococcus lactis subsp. cremoris (strain MG1363)Mutation(s): 0 
Gene Names: oppA
Find proteins for A2RJ53 (Lactococcus lactis subsp. cremoris (strain MG1363))
Go to UniProtKB:  A2RJ53
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
Oligopeptide
B
9N/AMutation(s): 0 
Protein Feature View is not available: No corresponding UniProt sequence found.
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.9 Å
  • R-Value Free: 0.257 
  • R-Value Work: 0.224 
  • Space Group: P 21 21 21
Unit Cell:
Length (Å)Angle (°)
a = 41.628α = 90.00
b = 99.555β = 90.00
c = 123.910γ = 90.00
Software Package:
Software NamePurpose
XSCALEdata scaling
MAR345dtbdata collection
XDSdata reduction
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
XDSdata scaling

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 2011-06-29
    Type: Initial release
  • Version 1.1: 2011-07-13
    Type: Version format compliance
  • Version 1.2: 2011-08-10
    Type: Database references