5KDI Lipid Transport date Jun 08, 2016
title How Fapp2 Selects Simple Glycosphingolipids Using The Gltp-F
authors B.Ochoa-Lizarralde, A.N.Popov, V.R.Samygina, D.J.Patel, R.E.Brow L.Malinina
compound source
Molecule: Pleckstrin Homology Domain-Containing Family A Me
Chain: A, B
Synonym: Ph Domain-Containing Family A Member 8,Phosphatidy Four-Phosphate Adapter Protein 2,Hfapp2,Serologically Defin Cancer Antigen Ny-Br-86, Fapp2-Gltph Domain;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Plekha8, Fapp2
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.131 R_Free 0.177
crystal
cell
length a length b length c angle alpha angle beta angle gamma
66.241 74.607 93.592 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.45 Å
ligand 6S8 enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (169 Kb) [Save to disk]
  • Biological Unit Coordinates (5kdi.pdb1.gz) 84 Kb
  • Biological Unit Coordinates (5kdi.pdb2.gz) 82 Kb
  • LPC: Ligand-Protein Contacts for 5KDI
  • CSU: Contacts of Structural Units for 5KDI
  • Structure Factors (1736 Kb)
  • Retrieve 5KDI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5KDI from S2C, [Save to disk]
  • View 5KDI 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 5KDI
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5kdi_A] [5kdi_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5KDI
  • Community annotation for 5KDI at PDBWiki (http://pdbwiki.org)

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