2Z6W Isomerase Immunosuppressant date Aug 09, 2007
title Crystal Structure Of Human Cyclophilin D In Complex With Cyc
authors K.Kajitani, M.Fujihashi, Y.Kobayashi, S.Shimizu, Y.Tsujimoto, K.M
compound source
Molecule: Peptidyl-Prolyl Cis-Trans Isomerase
Chain: A, B
Fragment: Residues 2-165
Synonym: Ppiase, Rotamase, Cyclophilin D
Ec: 5.2.1.8
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ppif, Cyp3
Expression_system: Escherichia Coli Bl21(De3)
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet-21a

Molecule: Cyclosporin A
Chain: M, N
Synonym: Ciclosporin, Ciclosporine
Engineered: Yes

Synthetic: Yes
Organism_scientific: Tolypocladium Inflatum
Organism_taxid: 29910
symmetry Space Group: P 21 21 21
R_factor 0.129 R_Free 0.153
crystal
cell
length a length b length c angle alpha angle beta angle gamma
38.882 69.313 112.077 90.00 90.00 90.00
method X-Ray Diffractionresolution 0.96 Å
ligand ABA, BMT, CIT, DAL, MLE, MVA, SAR enzyme Isomerase E.C.5.2.1.8 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceCrystal structure of human cyclophilin D in complex with its inhibitor, cyclosporin A at 0.96-A resolution., Kajitani K, Fujihashi M, Kobayashi Y, Shimizu S, Tsujimoto Y, Miki K, Proteins. 2008 Mar;70(4):1635-9. PMID:18076075
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (142 Kb) [Save to disk]
  • Biological Unit Coordinates (2z6w.pdb1.gz) 68 Kb
  • Biological Unit Coordinates (2z6w.pdb2.gz) 70 Kb
  • LPC: Ligand-Protein Contacts for 2Z6W
  • CSU: Contacts of Structural Units for 2Z6W
  • Likely Quarternary Molecular Structure file(s) for 2Z6W
  • Structure Factors (1275 Kb)
  • Retrieve 2Z6W in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2Z6W from S2C, [Save to disk]
  • Re-refined 2z6w structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2Z6W 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 2Z6W
  • 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 2Z6W, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2z6w_B] [2z6w_N] [2z6w] [2z6w_M] [2z6w_A]
  • SWISS-PROT database: [P30405]
  • Domain organization of [PPIF_HUMAN] by SWISSPFAM
  • Other resources with information on 2Z6W
  • Community annotation for 2Z6W 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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