5WKT Signaling Protein date Jul 25, 2017
title 3.2-Angstrom In Situ Mylar Structure Of Bovine Opsin At 100
authors J.Broecker, T.Morizumi, W.L.Ou, O.P.Ernst
compound source
Molecule: Rhodopsin
Chain: A
 Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913

Molecule: Transducin Galpha Peptide
Chain: B
Engineered: Yes
Synthetic: Yes
Organism_scientific: Bos Taurus
Organism_taxid: 9913
symmetry Space Group: H 3 2
R_factor 0.274 R_Free 0.295
crystal
cell
length a length b length c angle alpha angle beta angle gamma
242.043 242.043 110.637 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.20 Å
ligand BMA, BOG, GLC, MAN, NAG, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceHigh-throughput in situ X-ray screening of and data collection from protein crystals at room temperature and under cryogenic conditions., Broecker J, Morizumi T, Ou WL, Klingel V, Kuo A, Kissick DJ, Ishchenko A, Lee MY, Xu S, Makarov O, Cherezov V, Ogata CM, Ernst OP, Nat Protoc. 2018 Feb;13(2):260-292. doi: 10.1038/nprot.2017.135. Epub 2018 Jan 4. PMID:29300389
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (64 Kb) [Save to disk]
  • Biological Unit Coordinates (5wkt.pdb1.gz) 59 Kb
  • LPC: Ligand-Protein Contacts for 5WKT
  • CSU: Contacts of Structural Units for 5WKT
  • Structure Factors (567 Kb)
  • Retrieve 5WKT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5WKT from S2C, [Save to disk]
    • View 5WKT 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 5WKT
  • 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: [5wkt_B] [5wkt_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5WKT
  • Community annotation for 5WKT at PDBWiki (http://pdbwiki.org)

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