5KTI Sugar Binding Protein date Jul 11, 2016
title Structure Of Cow Mincle Complexed With Kmj1
authors H.Feinberg, N.D.S.Rambaruth, S.A.F.Jegouzo, K.M.Jacobsen, R.Djur T.B.Poulsen, M.E.Taylor, K.Drickamer, W.I.Weis
compound source
Molecule: Mincle Protein
Chain: A
Engineered: Yes
 Organism_scientific: Bos Taurus
Organism_common: Bovine
Organism_taxid: 9913
Gene: Clec4e
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 31 2 1
R_factor 0.178 R_Free 0.204
crystal
cell
length a length b length c angle alpha angle beta angle gamma
98.348 98.348 45.666 90.00 90.00 120.00
method X-Ray Diffractionresolution 1.80 Å
ligand 6X6, CA, GLC, PGE enzyme
Primary referenceBinding sites for acylated trehalose analogs of glycolipid ligands on an extended carbohydrate-recognition domain of the macrophage receptor mincle., Feinberg H, Rambaruth ND, Jegouzo SA, Jacobsen KM, Djurhuus R, Poulsen TB, Weis WI, Taylor ME, Drickamer K, J Biol Chem. 2016 Aug 19. pii: jbc.M116.749515. PMID:27542410
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (33 Kb) [Save to disk]
  • Biological Unit Coordinates (5kti.pdb1.gz) 28 Kb
  • LPC: Ligand-Protein Contacts for 5KTI
  • CSU: Contacts of Structural Units for 5KTI
  • Structure Factors (284 Kb)
  • Retrieve 5KTI in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5KTI from S2C, [Save to disk]
  • Re-refined 5kti structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5KTI 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 5KTI
  • 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: [5kti_A] [5kti]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domain found in 5KTI: [CLECT ] by SMART
    • Other resources with information on 5KTI
  • Community annotation for 5KTI at PDBWiki (http://pdbwiki.org)

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