5K2D Membrane Protein date May 18, 2016
title 1.9a Angstrom A2a Adenosine Receptor Structure With Mr Phasi Xfel Data
authors A.Batyuk, L.Galli, A.Ishchenko, G.W.Han, C.Gati, P.Popov, M.Y.Lee B.Stauch, T.A.White, A.Barty, A.Aquila, M.S.Hunter, M.Liang, S.Bo M.Pu, Z.J.Liu, G.Nelson, D.James, C.Li, Y.Zhao, J.C.H.Spence, W.L P.Fromme, V.Katritch, U.Weierstall, R.C.Stevens, V.Cherezov, Gpc (Gpcr)
compound source
Molecule: Adenosine Receptor A2asoluble Cytochrome B562 Ch
Chain: A
Synonym: Cytochrome B-562
Engineered: Yes
 Organism_scientific: Homo Sapiens, Escherichia Coli
Organism_common: Human
Organism_taxid: 9606, 562
Gene: Adora2a, Adora2,Cybc
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
symmetry Space Group: C 2 2 21
R_factor 0.174 R_Free 0.207
crystal
cell
length a length b length c angle alpha angle beta angle gamma
40.360 180.740 142.800 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.90 Å
ligand CLR, NA, OLA, OLB, OLC, PEG, ZMA enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceNative phasing of x-ray free-electron laser data for a G protein-coupled receptor., Batyuk A, Galli L, Ishchenko A, Han GW, Gati C, Popov PA, Lee MY, Stauch B, White TA, Barty A, Aquila A, Hunter MS, Liang M, Boutet S, Pu M, Liu ZJ, Nelson G, James D, Li C, Zhao Y, Spence JC, Liu W, Fromme P, Katritch V, Weierstall U, Stevens RC, Cherezov V, Sci Adv. 2016 Sep 23;2(9):e1600292. eCollection 2016 Sep. PMID:27679816
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (149 Kb) [Save to disk]
  • Biological Unit Coordinates (5k2d.pdb1.gz) 140 Kb
  • LPC: Ligand-Protein Contacts for 5K2D
  • CSU: Contacts of Structural Units for 5K2D
  • Structure Factors (695 Kb)
  • Retrieve 5K2D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5K2D from S2C, [Save to disk]
  • Re-refined 5k2d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5K2D 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 5K2D
  • 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: [5k2d] [5k2d_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5K2D
  • Community annotation for 5K2D at PDBWiki (http://pdbwiki.org)

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