5NOT Isomerase date Apr 13, 2017
title Structure Of Cyclophilin A In Complex With 4-Chloropyrimidin
authors C.Georgiou, I.W.Mcnae, H.Ioannidis, M.Julien, M.D.Walkinshaw
compound source
Molecule: Peptidyl-Prolyl Cis-Trans Isomerase A
Chain: A
Synonym: Ppiase A,Cyclophilin A,Cyclosporin A-Binding Prote Rotamase A;
Ec: 5.2.1.8
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ppia, Cypa
Expression_system: Escherichia Coli
Expression_system_taxid: 562
symmetry Space Group: P 21 21 21
R_factor 0.160 R_Free 0.183
crystal
cell
length a length b length c angle alpha angle beta angle gamma
42.480 54.400 86.130 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.45 Å
ligand 938 enzyme Isomerase E.C.5.2.1.8 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referencePushing the Limits of Detection of Weak Binding Using Fragment-Based Drug Discovery: Identification of New Cyclophilin Binders., Georgiou C, McNae I, Wear M, Ioannidis H, Michel J, Walkinshaw M, J Mol Biol. 2017 Aug 4;429(16):2556-2570. doi: 10.1016/j.jmb.2017.06.016. Epub, 2017 Jun 30. PMID:28673552
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (34 Kb) [Save to disk]
  • Biological Unit Coordinates (5not.pdb1.gz) 29 Kb
  • LPC: Ligand-Protein Contacts for 5NOT
  • CSU: Contacts of Structural Units for 5NOT
  • Structure Factors (937 Kb)
  • Retrieve 5NOT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5NOT from S2C, [Save to disk]
  • Re-refined 5not structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5NOT 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 5NOT
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5not_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5NOT
  • Community annotation for 5NOT at PDBWiki (http://pdbwiki.org)

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