2Y60 Oxidoreductase date Jan 19, 2011
title Isopenicillin N Synthase With Ac-D-Methionine
authors P.J.Rutledge, I.J.Clifton, W.Ge
compound source
Molecule: Isopenicillin N Synthase
Chain: A
Synonym: Ipns
Ec: 1.21.3.1
Engineered: Yes
Organism_scientific: Emericella Nidulans (Strain Fgsc A4 38163 Cbs 112.46 Nrrl 194 M139);
Organism_common: Aspergillus Nidulans
Organism_taxid: 227321
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Nm554
Expression_system_plasmid: Pjb703
symmetry Space Group: P 21 21 21
R_factor 0.145 R_Free 0.199
crystal
cell
length a length b length c angle alpha angle beta angle gamma
46.523 70.882 100.923 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.40 Å
ligand FE, GOL, M8F, SO4 enzyme Oxidoreductase E.C.1.21.3.1 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceThe crystal structure of isopenicillin N synthase with delta-((L)-alpha-aminoadipoyl)-(L)-cysteinyl-(D)-methionine reveals thioether coordination to iron., Clifton IJ, Ge W, Adlington RM, Baldwin JE, Rutledge PJ, Arch Biochem Biophys. 2011 Dec 15;516(2):103-7. doi: 10.1016/j.abb.2011.09.014., Epub 2011 Oct 6. PMID:22001738
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (121 Kb) [Save to disk]
  • Biological Unit Coordinates (2y60.pdb1.gz) 114 Kb
  • LPC: Ligand-Protein Contacts for 2Y60
  • CSU: Contacts of Structural Units for 2Y60
  • Structure Factors (1315 Kb)
  • Retrieve 2Y60 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2Y60 from S2C, [Save to disk]
  • Re-refined 2y60 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2Y60 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 2Y60
  • 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 2Y60, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2y60] [2y60_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 2Y60
  • Community annotation for 2Y60 at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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