4OMK Transport Protein date Jan 27, 2014
title Crystal Structure Of Spf Bound To Squalene
authors M.Christen, M.J.Marcaida, C.Lamprakis, M.Cascella, A.Stocker
compound source
Molecule: Sec14-Like Protein 2
Chain: A, B
Fragment: Unp Residues 1-275
Synonym: Alpha-Tocopherol-Associated Protein, Tap, Htap, Sq Transfer Protein, Supernatant Protein Factor, Spf;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: C22orf6, Kiaa1186, Kiaa1658, Sec14l2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Lemo21 (De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet28a
symmetry Space Group: P 1 21 1
R_factor 0.148 R_Free 0.174
crystal
cell
length a length b length c angle alpha angle beta angle gamma
71.270 73.540 94.230 90.00 96.88 90.00
method X-Ray Diffractionresolution 1.75 Å
ligand CL, IPA, SO4, SQL enzyme
Primary referenceStructural insights on cholesterol endosynthesis: Binding of squalene and 2,3-oxidosqualene to supernatant protein factor., Christen M, Marcaida MJ, Lamprakis C, Aeschimann W, Vaithilingam J, Schneider P, Hilbert M, Schneider G, Cascella M, Stocker A, J Struct Biol. 2015 Jun;190(3):261-70. doi: 10.1016/j.jsb.2015.05.001. Epub 2015 , May 16. PMID:25987292
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (206 Kb) [Save to disk]
  • Biological Unit Coordinates (4omk.pdb1.gz) 101 Kb
  • Biological Unit Coordinates (4omk.pdb2.gz) 101 Kb
  • LPC: Ligand-Protein Contacts for 4OMK
  • CSU: Contacts of Structural Units for 4OMK
  • Structure Factors (5002 Kb)
  • Retrieve 4OMK in mmCIF format [Save to disk]
  • Re-refined 4omk structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4OMK 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 4OMK
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4OMK, from MSDmotif at EBI
  • Fold representative 4omk from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4omk_A] [4omk_B] [4omk]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4OMK: [CRAL_TRIO_N] [SEC14 ] by SMART
  • Other resources with information on 4OMK
  • Community annotation for 4OMK at PDBWiki (http://pdbwiki.org)

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