2BIT Isomerase date Jan 26, 2005
title Crystal Structure Of Human Cyclophilin D At 1.7 A Resolution
authors M.Hennig, R.Thoma, M.Stihle, D.Schlatter
compound source
Molecule: Peptidyl-Prolyl Cis-Trans Isomerase
Chain: X
Fragment: Residues 43-207
Synonym: Cyclophilin F, Ppiase, Rotamase, Cyclophilin D
Ec: 5.2.1.8
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_vector: Bl21(De3)
symmetry Space Group: P 41 21 2
R_factor 0.139 R_Free 0.175
crystal
cell
length a length b length c angle alpha angle beta angle gamma
57.165 57.165 87.227 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.71 Å
ligand
enzyme Isomerase E.C.5.2.1.8 BRENDA
related structures by homologous chain: 1W8V, 2BIU
Gene
Ontology
ChainFunctionProcessComponent
X


Primary referenceCrystal engineering yields crystals of cyclophilin D diffracting to 1.7 A resolution., Schlatter D, Thoma R, Kung E, Stihle M, Muller F, Borroni E, Cesura A, Hennig M, Acta Crystallogr D Biol Crystallogr. 2005 May;61(Pt 5):513-9. Epub 2005, Apr 20. PMID:15858260
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (37 Kb) [Save to disk]
  • Biological Unit Coordinates (2bit.pdb1.gz) 32 Kb
  • CSU: Contacts of Structural Units for 2BIT
  • Likely Quarternary Molecular Structure file(s) for 2BIT
  • Structure Factors (113 Kb)
  • Retrieve 2BIT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 2BIT from S2C, [Save to disk]
  • Re-refined 2bit structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 2BIT 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 2BIT
  • 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 2BIT, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [2bit] [2bit_X]
  • SWISS-PROT database: [P30405]
  • Domain organization of [PPIF_HUMAN] by SWISSPFAM
  • Other resources with information on 2BIT
  • Community annotation for 2BIT 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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