5YUA Membrane Protein date Nov 21, 2017
title Crystal Structure Of Voltage-Gated Sodium Channel Navab In H Condition
authors K.Irie, T.Shimomura, Y.Fujiyoshi
compound source
Molecule: Ion Transport Protein
Chain: A
Synonym: Prokaryotic Voltage Gated Sodium Channel
Engineered: Yes
 Organism_scientific: Arcobacter Butzleri
Organism_taxid: 28197
Gene: Samea4475700_01771
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: I 4 2 2
R_factor 0.230 R_Free 0.262
crystal
cell
length a length b length c angle alpha angle beta angle gamma
126.450 126.450 201.658 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand 1N7, CA, LMT, PX4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A
  • ion channel activity
  • cation channel activity


    • Primary referenceOptimized expression and purification of NavAb provide the structural insight into the voltage dependence., Irie K, Haga Y, Shimomura T, Fujiyoshi Y, FEBS Lett. 2017 Dec 22. doi: 10.1002/1873-3468.12955. PMID:29274127
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (95 Kb) [Save to disk]
  • Biological Unit Coordinates (5yua.pdb1.gz) 341 Kb
  • LPC: Ligand-Protein Contacts for 5YUA
  • CSU: Contacts of Structural Units for 5YUA
  • Structure Factors (669 Kb)
  • Retrieve 5YUA in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5YUA from S2C, [Save to disk]
    • View 5YUA 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 5YUA
  • 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: [5yua_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5YUA
  • Community annotation for 5YUA at PDBWiki (http://pdbwiki.org)

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