3IJ9 Hydrolase date Aug 04, 2009
title Directed 'In Situ' Elongation As A Strategy To Characterize Covalent Glycosyl-Enzyme Catalytic Intermediate Of Human Pa A-Amylase
authors C.Li, R.Zhang, S.G.Withers, G.D.Brayer
compound source
Molecule: Pancreatic Alpha-Amylase
Chain: A
Fragment: Human Pancreatic Alpha-Amylase
Synonym: Pa, 1,4-Alpha-D-Glucan Glucanohydrolase
Ec: 3.2.1.1
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Amy2a
Expression_system: Pichia Pastoris
Expression_system_taxid: 4922
symmetry Space Group: P 21 21 21
R_factor 0.184 R_Free 0.207
crystal
cell
length a length b length c angle alpha angle beta angle gamma
52.380 68.000 129.950 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.85 Å
ligand B0D, B9D, BGC, CA, CL, PCA enzyme Hydrolase E.C.3.2.1.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceDirected "in Situ" Inhibitor Elongation as a Strategy To Structurally Characterize the Covalent Glycosyl-Enzyme Intermediate of Human Pancreatic alpha-Amylase (,)., Zhang R, Li C, Williams LK, Rempel BP, Brayer GD, Withers SG, Biochemistry. 2009 Oct 15. PMID:19803533
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (89 Kb) [Save to disk]
  • Biological Unit Coordinates (3ij9.pdb1.gz) 85 Kb
  • LPC: Ligand-Protein Contacts for 3IJ9
  • CSU: Contacts of Structural Units for 3IJ9
  • Structure Factors (316 Kb)
  • Retrieve 3IJ9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3IJ9 from S2C, [Save to disk]
  • Re-refined 3ij9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3IJ9 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 3IJ9
  • 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 3IJ9, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3ij9_A] [3ij9]
  • SWISS-PROT database: [P04746]
  • Domain organization of [AMYP_HUMAN] by SWISSPFAM
  • Domains found in 3IJ9: [Aamy] [Aamy_C ] by SMART
  • Other resources with information on 3IJ9
  • Community annotation for 3IJ9 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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