4D2D Structure of a tri peptide bound POT family peptide transporter date
authors Lyons, J.A., Parker, J.L., Solcan, N., Brinth, A., Li, D., Shah, S.T.A., Caffrey, M., Newstead, S.
compound source
symmetry
R_factor
R_Free 0.2422
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 2.52
ligand 78M, 78N, PO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural basis for polyspecificity in the POT family of proton-coupled oligopeptide transporters., Lyons JA, Parker JL, Solcan N, Brinth A, Li D, Shah ST, Caffrey M, Newstead S, EMBO Rep. 2014 Jun 10. pii: e201338403. PMID:24916388
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (81 Kb) [Save to disk]
  • Biological Unit Coordinates (4d2d.pdb1.gz) 75 Kb
  • LPC: Ligand-Protein Contacts for 4D2D
  • CSU: Contacts of Structural Units for 4D2D
  • Structure Factors (399 Kb)
  • Retrieve 4D2D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4D2D from S2C, [Save to disk]
  • Re-refined 4d2d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4D2D in 3D
  • Proteopedia, because life has more than 2D.
  • On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure.
  • On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.
    • Visual 3D analysis of 4D2D
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Electron Density related parameters from EDS Electron Density Server, at Upsala
  • Dipole moment, from Dipole Server at Weizmann Institute
  • 3D motif for 4D2D, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4d2d_B] [4d2d] [4d2d_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 4D2D
  • Community annotation for 4D2D at PDBWiki (http://pdbwiki.org)

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