6EYU Membrane Protein date Nov 13, 2017
title Crystal Structure Of The Inward H(+) Pump Xenorhodopsin
authors K.Kovalev, V.Shevchenko, V.Polovinkin, T.Mager, I.Gushchin, I.Mel V.Borshchevskiy, A.Popov, A.Alekseev, V.Gordeliy
compound source
Molecule: Bacteriorhodopsin
Chain: A, B, C
Synonym: Inward H(+) Pump Xenorhodopsin (Nsxer)
Engineered: Yes
 Organism_scientific: Nanosalina Sp. (Strain J07ab43)
Organism_taxid: 889948
Strain: J07ab43
Gene: J07ab43_12860
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.210 R_Free 0.254
crystal
cell
length a length b length c angle alpha angle beta angle gamma
64.010 93.870 196.210 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand LFA, MUN, RET enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, C, B
  • ion channel activity


    • Primary referenceInward H(+) pump xenorhodopsin: Mechanism and alternative optogenetic approach., Shevchenko V, Mager T, Kovalev K, Polovinkin V, Alekseev A, Juettner J, Chizhov I, Bamann C, Vavourakis C, Ghai R, Gushchin I, Borshchevskiy V, Rogachev A, Melnikov I, Popov A, Balandin T, Rodriguez-Valera F, Manstein DJ, Bueldt G, Bamberg E, Gordeliy V, Sci Adv. 2017 Sep 22;3(9):e1603187. doi: 10.1126/sciadv.1603187. eCollection 2017, Sep. PMID:28948217
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (242 Kb) [Save to disk]
  • Biological Unit Coordinates (6eyu.pdb1.gz) 232 Kb
  • LPC: Ligand-Protein Contacts for 6EYU
  • CSU: Contacts of Structural Units for 6EYU
  • Structure Factors (784 Kb)
  • Retrieve 6EYU in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 6EYU from S2C, [Save to disk]
    • View 6EYU 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 6EYU
  • 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: [6eyu_C] [6eyu_B] [6eyu_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 6EYU
  • Community annotation for 6EYU at PDBWiki (http://pdbwiki.org)

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