5Y03 Sugar Binding Protein date Jul 14, 2017
title Galectin-13placental Protein 13 Variant R53h Crystal Struct
authors Y.Wang, J.Su
compound source
Molecule: Galactoside-Binding Soluble Lectin 13
Chain: A
Synonym: Galectin-13,Gal-13,Placental Tissue Protein 13,Pla Protein 13;
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Lgals13, Plac8
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: C 2 2 2
R_factor 0.175 R_Free 0.222
crystal
cell
length a length b length c angle alpha angle beta angle gamma
57.877 92.314 50.625 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.12 Å
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceGalectin-13, a different prototype galectin, does not bind beta-galacto-sides and forms dimers via intermolecular disulfide bridges between Cys-136 and Cys-138., Su J, Wang Y, Si Y, Gao J, Song C, Cui L, Wu R, Tai G, Zhou Y, Sci Rep. 2018 Jan 17;8(1):980. doi: 10.1038/s41598-018-19465-0. PMID:29343868
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (29 Kb) [Save to disk]
  • Biological Unit Coordinates (5y03.pdb1.gz) 49 Kb
  • CSU: Contacts of Structural Units for 5Y03
  • Structure Factors (207 Kb)
  • Retrieve 5Y03 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5Y03 from S2C, [Save to disk]
  • View 5Y03 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 5Y03
  • 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: [5y03_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5Y03
  • Community annotation for 5Y03 at PDBWiki (http://pdbwiki.org)

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