5Y79 Transport Protein date Aug 16, 2017
title Crystal Structure Of The Triose-Phosphatephosphate Transloc Complex With 3-Phosphoglycerate
authors Y.Lee, T.Nishizawa, M.Takemoto, K.Kumazaki, K.Yamashita, K.Hirata A.Minoda, S.Nagatoishi, K.Tsumoto, R.Ishitani, O.Nureki
compound source
Molecule: Putative Hexose Phosphate Translocator
Chain: A, B
Fragment: Unp Residues 91-410
Synonym: Sugar-Phosphate:Phosphate Translocator,Dmt Family
Engineered: Yes
 Organism_scientific: Galdieria Sulphuraria
Organism_common: Red Alga
Organism_taxid: 130081
Gene: Gasu_48050, Gs48050.1
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
symmetry Space Group: P 21 21 2
R_factor 0.191 R_Free 0.229
crystal
cell
length a length b length c angle alpha angle beta angle gamma
107.050 165.330 41.140 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.20 Å
ligand 3PG, FLC, OLC enzyme
Primary referenceStructure of the triose-phosphate/phosphate translocator reveals the basis of substrate specificity., Lee Y, Nishizawa T, Takemoto M, Kumazaki K, Yamashita K, Hirata K, Minoda A, Nagatoishi S, Tsumoto K, Ishitani R, Nureki O, Nat Plants. 2017 Oct 2. doi: 10.1038/s41477-017-0022-8. PMID:28970497
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (116 Kb) [Save to disk]
  • Biological Unit Coordinates (5y79.pdb1.gz) 108 Kb
  • LPC: Ligand-Protein Contacts for 5Y79
  • CSU: Contacts of Structural Units for 5Y79
  • Structure Factors (346 Kb)
  • Retrieve 5Y79 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5Y79 from S2C, [Save to disk]
    • View 5Y79 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 5Y79
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5y79_A] [5y79_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5Y79
  • Community annotation for 5Y79 at PDBWiki (http://pdbwiki.org)

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