3C6G Oxidoreductase date Feb 04, 2008
title Crystal Structure Of Cyp2r1 In Complex With Vitamin D3
authors N.V.Strushkevich, J.Min, P.Loppnau, W.Tempel, C.H.Arrowsmith, A.M M.Sundstrom, J.Weigelt, A.Bochkarev, A.N.Plotnikov, H.Park, Stru Genomics Consortium (Sgc)
compound source
Molecule: Cytochrome P450 2r1
Chain: A, B
Fragment: Residues 32-501
Synonym: Vitamin D 25-Hydroxylase
Ec: 1.14.14.-
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cyp2r1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Jm109
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pcw
symmetry Space Group: C 2 2 21
R_factor 0.193 R_Free 0.231
crystal
cell
length a length b length c angle alpha angle beta angle gamma
137.680 163.051 152.755 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.80 Å
ligand GLC, HEM, UNX, VD3 enzyme Oxidoreductase E.C.1.14.14 BRENDA
note 3C6G (Molecule of the Month:pdb155)supersedes 2OJD
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceStructural analysis of CYP2R1 in complex with vitamin D3., Strushkevich N, Usanov SA, Plotnikov AN, Jones G, Park HW, J Mol Biol. 2008 Jun 27;380(1):95-106. Epub 2008 Apr 8. PMID:18511070
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (165 Kb) [Save to disk]
  • Biological Unit Coordinates (3c6g.pdb1.gz) 78 Kb
  • Biological Unit Coordinates (3c6g.pdb2.gz) 82 Kb
  • LPC: Ligand-Protein Contacts for 3C6G
  • CSU: Contacts of Structural Units for 3C6G
  • Likely Quarternary Molecular Structure file(s) for 3C6G
  • Structure Factors (672 Kb)
  • Retrieve 3C6G in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3C6G from S2C, [Save to disk]
  • Re-refined 3c6g structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3C6G 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 3C6G
  • 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 3C6G, from MSDmotif at EBI
  • Fold representative 3c6g from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3c6g_B] [3c6g] [3c6g_A]
  • SWISS-PROT database: [Q6VVX0]
  • Domain organization of [CP2R1_HUMAN] by SWISSPFAM
  • Other resources with information on 3C6G
  • Community annotation for 3C6G 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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