5U78 Lipid Transport date Dec 12, 2016
title Crystal Structure Of Orp8 Ph Domain In P1211 Space Group
authors R.Ghai, H.Yang
compound source
Molecule: Oxysterol-Binding Protein-Related Protein 8
Chain: A, B, C, D
Fragment: Unp Residues 149-265
Synonym: Osbp-Related Protein 8
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Osbpl8, Kiaa1451, Orp8, Osbp10
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21-Gold(De3)Plyss
symmetry Space Group: P 1 21 1
R_factor 0.223 R_Free 0.258
crystal
cell
length a length b length c angle alpha angle beta angle gamma
52.170 66.350 79.549 90.00 94.67 90.00
method X-Ray Diffractionresolution 1.98 Å
subcellular loc. Membrane localization by OPM: Eukaryotic plasma membrane
extracellular side
cytoplasmic side
Primary referenceORP5 and ORP8 bind phosphatidylinositol-4, 5-biphosphate (PtdIns(4,5)P 2) and regulate its level at the plasma membrane., Ghai R, Du X, Wang H, Dong J, Ferguson C, Brown AJ, Parton RG, Wu JW, Yang H, Nat Commun. 2017 Oct 2;8(1):757. doi: 10.1038/s41467-017-00861-5. PMID:28970484
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (250 Kb) [Save to disk]
  • Biological Unit Coordinates (5u78.pdb1.gz) 61 Kb
  • Biological Unit Coordinates (5u78.pdb2.gz) 63 Kb
  • Biological Unit Coordinates (5u78.pdb3.gz) 59 Kb
  • Biological Unit Coordinates (5u78.pdb4.gz) 62 Kb
  • CSU: Contacts of Structural Units for 5U78
  • Structure Factors (1034 Kb)
  • Retrieve 5U78 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5U78 from S2C, [Save to disk]
  • View 5U78 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 5U78
  • 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
  • Fold representative 5u78 from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5u78_A] [5u78_D] [5u78_C] [5u78_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5U78
  • Community annotation for 5U78 at PDBWiki (http://pdbwiki.org)

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