1K1Y Transferase date Sep 26, 2001
title Crystal Structure Of Thermococcus Litoralis 4-Alpha-Glucanot Complexed With Acarbose
authors H.Imamura, S.Fushinobu, T.Kumasaka, M.Yamamoto, B.S.Jeon, T.Wakag H.Matsuzawa
compound source
Molecule: 4-Alpha-Glucanotransferase
Chain: A, B
Ec: 2.4.1.25
Engineered: Yes
 Organism_scientific: Thermococcus Litoralis
Organism_taxid: 2265
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Put7
symmetry Space Group: P 21 21 2
R_factor 0.198 R_Free 0.256
crystal
cell
length a length b length c angle alpha angle beta angle gamma
137.610 160.968 70.202 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand AC1, CA, GLC, TRS enzyme Transferase E.C.2.4.1.25 BRENDA
related structures by homologous chain: 1K1W, 1K1X
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • 4-alpha-glucanotransferase a...


    • Primary referenceCrystal structures of 4-alpha-glucanotransferase from Thermococcus litoralis and its complex with an inhibitor., Imamura H, Fushinobu S, Yamamoto M, Kumasaka T, Jeon BS, Wakagi T, Matsuzawa H, J Biol Chem 2003 May 23;278(21):19378-86. PMID:12618437
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (215 Kb) [Save to disk]
  • Biological Unit Coordinates (1k1y.pdb1.gz) 108 Kb
  • Biological Unit Coordinates (1k1y.pdb2.gz) 106 Kb
  • Biological Unit Coordinates (1k1y.pdb3.gz) 209 Kb
  • LPC: Ligand-Protein Contacts for 1K1Y
  • CSU: Contacts of Structural Units for 1K1Y
  • Likely Quarternary Molecular Structure file(s) for 1K1Y
  • Structure Factors (476 Kb)
  • Retrieve 1K1Y in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1K1Y from S2C, [Save to disk]
  • Re-refined 1k1y structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1K1Y 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 1K1Y
  • 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 1K1Y, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1k1ya3, region A:1-310 [Jmol] [rasmolscript] [script source]
        - Domain d1k1ya1, region A:311-384 [Jmol] [rasmolscript] [script source]
        - Domain d1k1ya2, region A:385-659 [Jmol] [rasmolscript] [script source]
        - Domain d1k1yb3, region B:2-310 [Jmol] [rasmolscript] [script source]
        - Domain d1k1yb1, region B:311-384 [Jmol] [rasmolscript] [script source]
        - Domain d1k1yb2, region B:385-659 [Jmol] [rasmolscript] [script source]
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1k1y_B] [1k1y_A] [1k1y]
  • SWISS-PROT database: [O32462]
  • Domain organization of [MALQ_THELI] by SWISSPFAM
    • Other resources with information on 1K1Y
  • Community annotation for 1K1Y 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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