3Q3U Oxidoreductase date Dec 22, 2010
title Trametes Cervina Lignin Peroxidase
authors F.R.Calvino, A.Romero, Y.Miki, A.T.Martinez
compound source
Molecule: Lignin Peroxidase
Chain: A
Fragment: Residues 24-360
Engineered: Yes
 Organism_scientific: Trametes Cervina
Organism_taxid: 295351
Gene: Tclip
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Bl12 (De3) Plyss
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet23
symmetry Space Group: P 21 21 21
R_factor 0.149 R_Free 0.196
crystal
cell
length a length b length c angle alpha angle beta angle gamma
43.904 72.931 95.232 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.85 Å
ligand CA, CL, HEM, MPD, NA enzyme
Gene
Ontology
ChainFunctionProcessComponent
A
  • peroxidase activity


    • Primary referenceCrystallographic, kinetic, and spectroscopic study of the first ligninolytic peroxidase presenting a catalytic tyrosine., Miki Y, Calvino FR, Pogni R, Giansanti S, Ruiz-Duenas FJ, Martinez MJ, Basosi R, Romero A, Martinez AT, J Biol Chem. 2011 Apr 29;286(17):15525-34. Epub 2011 Mar 2. PMID:21367853
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (110 Kb) [Save to disk]
  • Biological Unit Coordinates (3q3u.pdb1.gz) 104 Kb
  • LPC: Ligand-Protein Contacts for 3Q3U
  • CSU: Contacts of Structural Units for 3Q3U
  • Structure Factors (1354 Kb)
  • Retrieve 3Q3U in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3Q3U from S2C, [Save to disk]
  • Re-refined 3q3u structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3Q3U 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 3Q3U
  • 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 3Q3U, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3q3u] [3q3u_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 3Q3U
  • Community annotation for 3Q3U 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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