5IRZ Transport Protein date Mar 15, 2016
title Structure Of Trpv1 Determined In Lipid Nanodisc
authors Y.Gao, E.Cao, D.Julius, Y.Cheng
compound source
Molecule: Transient Receptor Potential Cation Channel Subfa Member 1;
Chain: D, E, B, C
Fragment: Unp Residues 110-603, 627-764
Synonym: Trpv1, Capsaicin Receptor, Osm-9-Like Trp Channel Vanilloid Receptor 1, Vanilloid Receptor Type 1-Like;
Engineered: Yes
 Organism_scientific: Rattus Norvegicus
Organism_common: Rat
Organism_taxid: 10116
Gene: Trpv1, Vr1, Vr1l
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek 293s
symmetry Space Group: P 1
R_factor
R_Free
crystal
cell
length a length b length c angle alpha angle beta angle gamma
1.000 1.000 1.000 90.00 90.00 90.00
method Electron Microscopyresolution 3.28 Å
ligand 6ES, 6O8, 6OE enzyme
Gene
Ontology
ChainFunctionProcessComponent
D, C, E, B


Primary referenceTRPV1 structures in nanodiscs reveal mechanisms of ligand and lipid action., Gao Y, Cao E, Julius D, Cheng Y, Nature. 2016 May 18;534(7607):347-51. doi: 10.1038/nature17964. PMID:27281200
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (246 Kb) [Save to disk]
  • Biological Unit Coordinates (5irz.pdb1.gz) 227 Kb
  • LPC: Ligand-Protein Contacts for 5IRZ
  • CSU: Contacts of Structural Units for 5IRZ
  • Retrieve 5IRZ in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5IRZ from S2C, [Save to disk]
    • View 5IRZ 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 5IRZ
  • Ramachandran plot from PDBSum
    • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5irz_C] [5irz_E] [5irz_D] [5irz] [5irz_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5IRZ: [ANK ] by SMART
    • Other resources with information on 5IRZ
  • Community annotation for 5IRZ at PDBWiki (http://pdbwiki.org)

    • You may enter another PDB ID code
    Go [Back], to the [PDB Lite page], to the [OCA Search page] or to the [PDB Home page]
    OCA© by Jaime Prilusky, 1996-2014,2022
    Bioinformatics Unit
    Weizmann Institute of Science