3LRL Hydrolase date Feb 11, 2010
title Structure Of Alfa-Galactosidase (Mel1) From Saccharomyces Ce With Melibiose
authors R.Fernandez-Leiro, A.Pereira-Rodriguez, M.E.Cerdan, M.Becerra, J Aparicio
compound source
Molecule: Alpha-Galactosidase 1
Chain: A
Synonym: Alpha-D-Galactoside Galactohydrolase 1, Melibiase
Ec: 3.2.1.22
Engineered: Yes
Mutation: Yes
Organism_scientific: Saccharomyces Cerevisiae
Organism_common: Brewer'S Yeast,Lager Beer Yeast,Yeast
Organism_taxid: 4932
Gene: Mel1
Expression_system: Saccharomyces Cerevisiae
Expression_system_taxid: 4932
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Yepflag1
symmetry Space Group: P 4 21 2
R_factor 0.198 R_Free 0.253
crystal
cell
length a length b length c angle alpha angle beta angle gamma
100.729 100.729 111.280 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand GLA, GLC, NA, NAG enzyme Hydrolase E.C.3.2.1.22 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural analysis of Saccharomyces cerevisiae alpha-galactosidase and its complexes with natural substrates reveals new insights into substrate specificity of GH27 glycosidases., Fernandez-Leiro R, Pereira-Rodriguez A, Cerdan ME, Becerra M, Sanz-Aparicio J, J Biol Chem. 2010 Sep 3;285(36):28020-33. Epub 2010 Jun 30. PMID:20592022
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (86 Kb) [Save to disk]
  • Biological Unit Coordinates (3lrl.pdb1.gz) 315 Kb
  • LPC: Ligand-Protein Contacts for 3LRL
  • CSU: Contacts of Structural Units for 3LRL
  • Structure Factors (347 Kb)
  • Retrieve 3LRL in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3LRL from S2C, [Save to disk]
  • Re-refined 3lrl structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3LRL 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 3LRL
  • 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
  • 3D motif for 3LRL, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3lrl] [3lrl_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 3LRL
  • Community annotation for 3LRL at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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