1KYW Transferase date Feb 06, 2002
title Crystal Structure Analysis Of Caffeic Acid5-Hydroxyferulic O-Methyltransferase In Complex With 5-Hydroxyconiferaldehyd
authors C.Zubieta, P.Kota, J.L.Ferrer, R.A.Dixon, J.P.Noel
compound source
Molecule: Caffeic Acid 3-O-Methyltransferase
Chain: A, C, F
Synonym: Comt
Ec: 2.1.1.68
Engineered: Yes
 Organism_scientific: Medicago Sativa
Organism_taxid: 3879
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 1 2 1
R_factor 0.207 R_Free 0.261
crystal
cell
length a length b length c angle alpha angle beta angle gamma
104.473 61.996 112.213 90.00 111.27 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand HFL, SAH enzyme Transferase E.C.2.1.1.68 BRENDA
related structures by homologous chain: 1KYZ
Gene
Ontology
ChainFunctionProcessComponent
F, A, C


Primary referenceStructural basis for the modulation of lignin monomer methylation by caffeic acid/5-hydroxyferulic acid 3/5-O-methyltransferase., Zubieta C, Kota P, Ferrer JL, Dixon RA, Noel JP, Plant Cell 2002 Jun;14(6):1265-77. PMID:12084826
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (175 Kb) [Save to disk]
  • Biological Unit Coordinates (1kyw.pdb1.gz) 113 Kb
  • Biological Unit Coordinates (1kyw.pdb2.gz) 116 Kb
  • LPC: Ligand-Protein Contacts for 1KYW
  • CSU: Contacts of Structural Units for 1KYW
  • Likely Quarternary Molecular Structure file(s) for 1KYW
  • Structure Factors (549 Kb)
  • Retrieve 1KYW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1KYW from S2C, [Save to disk]
  • Re-refined 1kyw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 1KYW 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 1KYW
  • 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 1KYW, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1kywa2, region A:120-362 [Jmol] [rasmolscript] [script source]
        - Domain d1kywa1, region A:13-119 [Jmol] [rasmolscript] [script source]
        - Domain d1kywc2, region C:120-365 [Jmol] [rasmolscript] [script source]
        - Domain d1kywc1, region C:5-119 [Jmol] [rasmolscript] [script source]
        - Domain d1kywf2, region F:120-365 [Jmol] [rasmolscript] [script source]
        - Domain d1kywf1, region F:5-119 [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: [1kyw_A] [1kyw_F] [1kyw_C] [1kyw]
  • SWISS-PROT database: [P28002]
  • Domain organization of [COMT1_MEDSA] by SWISSPFAM
    • Other resources with information on 1KYW
  • Community annotation for 1KYW 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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