4Z34 Transport Protein Inhibitor date Mar 30, 2015
title Crystal Structure Of Human Lysophosphatidic Acid Receptor 1 With Ono9780307
authors J.E.Chrencik, C.B.Roth, M.Terakado, H.Kurata, R.Omi, Y.Kihara, D.Warshaviak, S.Nakade, G.Asmar-Rovira, M.Mileni, H.Mizuno, M.T. C.Rodgers, G.W.Han, J.Velasquez, J.Chun, R.C.Stevens, M.A.Hanson Network (Gpcr)
compound source
Molecule: Lysophosphatidic Acid Receptor 1, Soluble Cytochr
Chain: A
Fragment: Unp Residues 2-232; Unp Residues 23-64; Unp Resid 127; Unp Residues 248-326;
Synonym: Lpa-1,Lysophosphatidic Acid Receptor Edg-2,Cytochr Cytochrome B-562,Lpa-1,Lysophosphatidic Acid Receptor Edg-2
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens, Escherichia Coli
Organism_common: Human
Organism_taxid: 9606, 562
Gene: Lpar1, Edg2, Lpa1, Cybc
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_cell_line: Sf9
Expression_system_atcc_number: Crl-1711
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pfastbac
symmetry Space Group: P 21 21 21
R_factor 0.254 R_Free 0.281
crystal
cell
length a length b length c angle alpha angle beta angle gamma
34.280 112.150 154.630 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.00 Å
ligand 1WV, ON7 enzyme
subcellular loc. Membrane localization by OPM: Eukaryotic plasma membrane
extracellular side
cytoplasmic side
Primary referenceCrystal Structure of Antagonist Bound Human Lysophosphatidic Acid Receptor 1., Chrencik JE, Roth CB, Terakado M, Kurata H, Omi R, Kihara Y, Warshaviak D, Nakade S, Asmar-Rovira G, Mileni M, Mizuno H, Griffith MT, Rodgers C, Han GW, Velasquez J, Chun J, Stevens RC, Hanson MA, Cell. 2015 Jun 18;161(7):1633-43. doi: 10.1016/j.cell.2015.06.002. PMID:26091040
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (135 Kb) [Save to disk]
  • Biological Unit Coordinates (4z34.pdb1.gz) 130 Kb
  • LPC: Ligand-Protein Contacts for 4Z34
  • CSU: Contacts of Structural Units for 4Z34
  • Structure Factors (260 Kb)
  • Retrieve 4Z34 in mmCIF format [Save to disk]
  • Re-refined 4z34 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4Z34 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 4Z34
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4Z34, from MSDmotif at EBI
  • Fold representative 4z34 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4z34] [4z34_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 4Z34
  • Community annotation for 4Z34 at PDBWiki (http://pdbwiki.org)

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