1JD9 Hydrolase date Jun 13, 2001
title Crystal Structure Analysis Of The Mutant K300q Of Pseudoalte Haloplanctis Alpha-Amylase
authors N.Aghajari, R.Haser
compound source
Molecule: Alpha-Amylase
Chain: A
Ec: 3.2.1.1
Engineered: Yes
Mutation: Yes
Organism_scientific: Pseudoalteromonas Haloplanktis
Organism_taxid: 228
Strain: A23
Gene: Amy
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector_type: Plasmid
Expression_system_vector: Puc12
Expression_system_plasmid: Pah12wt
Expression_system_gene: Hb101
symmetry Space Group: C 2 2 21
R_factor 0.180 R_Free 0.245
crystal
cell
length a length b length c angle alpha angle beta angle gamma
71.500 138.400 115.400 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.50 Å
ligand CA enzyme Hydrolase E.C.3.2.1.1 BRENDA
related structures by homologous chain: 1B0I
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural basis of alpha-amylase activation by chloride., Aghajari N, Feller G, Gerday C, Haser R, Protein Sci 2002 Jun;11(6):1435-41. PMID:12021442
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (77 Kb) [Save to disk]
  • Biological Unit Coordinates (1jd9.pdb1.gz) 72 Kb
  • LPC: Ligand-Protein Contacts for 1JD9
  • CSU: Contacts of Structural Units for 1JD9
  • Likely Quarternary Molecular Structure file(s) for 1JD9
  • Structure Factors (136 Kb)
  • Retrieve 1JD9 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1JD9 from S2C, [Save to disk]
  • Re-refined 1jd9 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1JD9 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 1JD9
  • 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 1JD9, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1jd9a2, region A:1-354 [Jmol] [rasmolscript] [script source]
        - Domain d1jd9a1, region A:355-448 [Jmol] [rasmolscript] [script source]
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1jd9_A] [1jd9]
  • SWISS-PROT database: [P29957]
  • Domain organization of [AMY_PSEHA] by SWISSPFAM
  • Domains found in 1JD9: [Aamy] [Aamy_C ] by SMART
  • Other resources with information on 1JD9
  • Community annotation for 1JD9 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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