2X7K Isomerase Immunosuppressant date Mar 01, 2010
title The Crystal Structure Of Ppil1 In Complex With Cyclosporine A Binding Mode For Skip
authors C.M.Stegmann, R.Luehrmann, M.C.Wahl
compound source
Molecule: Peptidyl-Prolyl Cis-Trans Isomerase-Like 1
Chain: A
Synonym: Ppiase, Rotamase, Ppil1
Ec: 5.2.1.8
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Rosetta2
Expression_system_variant: De3
Expression_system_vector: Pgex-6-P1
Expression_system_plasmid: Pgex-6-P1-Ppil1

Molecule: Cyclosporin A
Chain: B
Synonym: Ciclosporin, Ciclosporine
Engineered: Yes

Synthetic: Yes
Organism_scientific: Tolypocladium Inflatum
Organism_taxid: 29910
symmetry Space Group: P 21 21 2
R_factor 0.128 R_Free 0.149
crystal
cell
length a length b length c angle alpha angle beta angle gamma
103.218 35.701 45.851 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.15 Å
ligand ABA, BMT, CD, DAL, MLE, MVA, NA, SAR enzyme Isomerase E.C.5.2.1.8 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A

  • catalytic step 2 spliceosome...
  • Primary referenceThe crystal structure of PPIL1 bound to cyclosporine A suggests a binding mode for a linear epitope of the SKIP protein., Stegmann CM, Luhrmann R, Wahl MC, PLoS One. 2010 Apr 2;5(4):e10013. PMID:20368803
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (105 Kb) [Save to disk]
  • Biological Unit Coordinates (2x7k.pdb1.gz) 97 Kb
  • LPC: Ligand-Protein Contacts for 2X7K
  • CSU: Contacts of Structural Units for 2X7K
  • Structure Factors (433 Kb)
  • Retrieve 2X7K in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2X7K from S2C, [Save to disk]
  • Re-refined 2x7k structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2X7K 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 2X7K
  • Cartoon representation from PDB Cartoon
  • 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
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 2X7K, from MSDmotif at EBI
  • Fold representative 2x7k from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2x7k_A] [2x7k] [2x7k_B]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 2X7K
  • Community annotation for 2X7K 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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