2Y08 Oxidoreductase date Nov 30, 2010
title Structure Of The Substrate-Free Fad-Dependent Tirandamycin O Taml
authors J.C.Carlson, S.Li, S.S.Gunatilleke, Y.Anzai, D.A.Burr, L.M.Podust D.H.Sherman
compound source
Molecule: Taml
Chain: A, B
Synonym: Tirandamycin Oxidase
Engineered: Yes
Other_details: Covalent Link Between 8alpha Methyl Group Of Of H62 Covalent Link Between C-6 Atom Of Fad And C122
Organism_scientific: Streptomyces Sp. 307-9
Organism_taxid: 529089
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_variant: Codon Plus Rp
Expression_system_vector_type: Plasmid
Expression_system_vector: Psj2
symmetry Space Group: P 21 21 21
R_factor 0.141 R_Free 0.205
crystal
cell
length a length b length c angle alpha angle beta angle gamma
64.378 129.558 134.585 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.70 Å
ligand CL, FAD, GOL, MG enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceTirandamycin biosynthesis is mediated by co-dependent oxidative enzymes., Carlson JC, Li S, Gunatilleke SS, Anzai Y, Burr DA, Podust LM, Sherman DH, Nat Chem. 2011 Jul 17;3(8):628-33. doi: 10.1038/nchem.1087. PMID:21778983
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (375 Kb) [Save to disk]
  • Biological Unit Coordinates (2y08.pdb1.gz) 367 Kb
  • LPC: Ligand-Protein Contacts for 2Y08
  • CSU: Contacts of Structural Units for 2Y08
  • Structure Factors (5797 Kb)
  • Retrieve 2Y08 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2Y08 from S2C, [Save to disk]
  • Re-refined 2y08 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2Y08 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 2Y08
  • 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 2Y08, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2y08_B] [2y08_A] [2y08]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 2Y08
  • Community annotation for 2Y08 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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