1UKO Hydrolase date Aug 30, 2003
title Crystal Structure Of Soybean Beta-Amylase Mutant Substituted Surface Region
authors Y.N.Kang, M.Adachi, B.Mikami, S.Utsumi
compound source
Molecule: Beta-Amylase
Chain: A, B, C, D
Synonym: 1,4-Alpha-D-Glucan Maltohydrolase
Ec: 3.2.1.2
Engineered: Yes
Mutation: Yes
Organism_scientific: Glycine Max
Organism_common: Soybean
Organism_taxid: 3847
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Jm105
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pkk233-2
symmetry Space Group: P 1
R_factor 0.183 R_Free 0.241
crystal
cell
length a length b length c angle alpha angle beta angle gamma
75.100 78.140 87.944 89.93 89.88 90.08
method X-Ray Diffractionresolution 2.10 Å
ligand SO4 enzyme Hydrolase E.C.3.2.1.2 BRENDA
related structures by homologous chain: 1Q6F, 1UKP
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceChange in the crystal packing of soybean beta-amylase mutants substituted at a few surface amino acid residues., Kang YN, Adachi M, Mikami B, Utsumi S, Protein Eng 2003 Nov;16(11):809-17. PMID:14631070
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (340 Kb) [Save to disk]
  • Biological Unit Coordinates (1uko.pdb1.gz) 87 Kb
  • Biological Unit Coordinates (1uko.pdb2.gz) 88 Kb
  • Biological Unit Coordinates (1uko.pdb3.gz) 87 Kb
  • Biological Unit Coordinates (1uko.pdb4.gz) 85 Kb
  • LPC: Ligand-Protein Contacts for 1UKO
  • CSU: Contacts of Structural Units for 1UKO
  • Likely Quarternary Molecular Structure file(s) for 1UKO
  • Structure Factors (822 Kb)
  • Retrieve 1UKO in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1UKO from S2C, [Save to disk]
  • Re-refined 1uko structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1UKO 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 1UKO
  • 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 1UKO, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1ukoa_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1ukob_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1ukoc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1ukod_, region D [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: [1uko_A] [1uko_C] [1uko_D] [1uko_B] [1uko]
  • SWISS-PROT database: [P10538]
  • Domain organization of [AMYB_SOYBN] by SWISSPFAM
  • Other resources with information on 1UKO
  • Community annotation for 1UKO 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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