5DUX Sugar Binding Protein date Sep 21, 2015
title Crystal Structure Of The Human Galectin-4 N-Terminal Carbohy Recognition Domain In Complex With 2'-Fucosyllactose
authors K.Bum-Erdene, H.Blanchard
compound source
Molecule: Galectin-4
Chain: B, D, A, C
Fragment: N-Terminal Carbohydrate Recognition Domain (Unp R 155);
Synonym: Gal-4,Antigen Ny-Co-27,L-36 Lactose-Binding Protei Lactose-Binding Lectin 4;
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Lgals4
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 21 1
R_factor 0.166 R_Free 0.205
crystal
cell
length a length b length c angle alpha angle beta angle gamma
63.152 64.469 64.653 90.00 90.79 90.00
method X-Ray Diffractionresolution 1.85 Å
ligand BGC, FMT, FUC, GAL, GOL enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceStructural characterisation of human galectin-4 N-terminal carbohydrate recognition domain in complex with glycerol, lactose, 3'-sulfo-lactose, and 2'-fucosyllactose., Bum-Erdene K, Leffler H, Nilsson UJ, Blanchard H, Sci Rep. 2016 Feb 1;6:20289. doi: 10.1038/srep20289. PMID:26828567
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (104 Kb) [Save to disk]
  • Biological Unit Coordinates (5dux.pdb1.gz) 27 Kb
  • Biological Unit Coordinates (5dux.pdb2.gz) 26 Kb
  • Biological Unit Coordinates (5dux.pdb3.gz) 26 Kb
  • Biological Unit Coordinates (5dux.pdb4.gz) 26 Kb
  • LPC: Ligand-Protein Contacts for 5DUX
  • CSU: Contacts of Structural Units for 5DUX
  • Structure Factors (2507 Kb)
  • Retrieve 5DUX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5DUX from S2C, [Save to disk]
  • Re-refined 5dux structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5DUX 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 5DUX
  • 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: [5dux_C] [5dux_D] [5dux_B] [5dux_A] [5dux]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5DUX: [GLECT] [Gal-bind_lectin ] by SMART
    • Other resources with information on 5DUX
  • Community annotation for 5DUX at PDBWiki (http://pdbwiki.org)

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