2XUT

Crystal structure of a proton dependent oligopeptide (POT) family transporter.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.62 Å
  • R-Value Free: 0.296 
  • R-Value Work: 0.277 
  • R-Value Observed: 0.278 

wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Crystal Structure of a Prokaryotic Homologue of the Mammalian Oligopeptide-Proton Symporters, Pept1 and Pept2.

Newstead, S.Drew, D.Cameron, A.D.Postis, V.L.Xia, X.Fowler, P.W.Ingram, J.C.Carpenter, E.P.Sansom, M.S.P.McPherson, M.J.Baldwin, S.A.Iwata, S.

(2011) EMBO J 30: 417

  • DOI: 10.1038/emboj.2010.309
  • Primary Citation of Related Structures:  
    2XUT

  • PubMed Abstract: 
  • PepT1 and PepT2 are major facilitator superfamily (MFS) transporters that utilize a proton gradient to drive the uptake of di- and tri-peptides in the small intestine and kidney, respectively. They are the major routes by which we absorb dietary nitrogen and many orally administered drugs ...

    PepT1 and PepT2 are major facilitator superfamily (MFS) transporters that utilize a proton gradient to drive the uptake of di- and tri-peptides in the small intestine and kidney, respectively. They are the major routes by which we absorb dietary nitrogen and many orally administered drugs. Here, we present the crystal structure of PepT(So), a functionally similar prokaryotic homologue of the mammalian peptide transporters from Shewanella oneidensis. This structure, refined using data up to 3.6 Å resolution, reveals a ligand-bound occluded state for the MFS and provides new insights into a general transport mechanism. We have located the peptide-binding site in a central hydrophilic cavity, which occludes a bound ligand from both sides of the membrane. Residues thought to be involved in proton coupling have also been identified near the extracellular gate of the cavity. Based on these findings and associated kinetic data, we propose that PepT(So) represents a sound model system for understanding mammalian peptide transport as catalysed by PepT1 and PepT2.


    Organizational Affiliation

    Division of Molecular Biosciences, Membrane Protein Crystallography Group, Imperial College London, London, UK. simon.newstead@bioch.ox.ac.uk



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
PROTON/PEPTIDE SYMPORTER FAMILY PROTEINA, B, C524Shewanella oneidensis MR-1Mutation(s): 2 
Gene Names: SO_0002
Membrane Entity: Yes 
UniProt
Find proteins for Q8EKT7 (Shewanella oneidensis (strain MR-1))
Explore Q8EKT7 
Go to UniProtKB:  Q8EKT7
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupQ8EKT7
Protein Feature View
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  • Reference Sequence
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.62 Å
  • R-Value Free: 0.296 
  • R-Value Work: 0.277 
  • R-Value Observed: 0.278 
  • Space Group: P 32
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 159.4α = 90
b = 159.4β = 90
c = 152.94γ = 120
Software Package:
Software NamePurpose
BUSTERrefinement
DENZOdata reduction
SCALEPACKdata scaling
SHARPphasing

Structure Validation

View Full Validation Report



Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2010-12-15
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance
  • Version 1.3: 2018-01-24
    Changes: Source and taxonomy