3MDM Oxidoreductase date Mar 30, 2010
title Thioperamide Complex Of Cytochrome P450 46a1
authors N.Mast, C.Charvet, I.Pikuleva, C.D.Stout
compound source
Molecule: Cholesterol 24-Hydroxylase
Chain: A
Fragment: Unp Residues 51-500
Synonym: Ch24h, Cytochrome P450 46a1
Ec: 1.14.13.98
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Cyp46, Cyp46a1
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Expression_system_strain: Dh5alpha
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Puc18
symmetry Space Group: P 21 21 21
R_factor 0.182 R_Free 0.226
crystal
cell
length a length b length c angle alpha angle beta angle gamma
58.830 85.820 104.200 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.60 Å
ligand FJZ, HEM enzyme Oxidoreductase E.C.1.14.13.98 BRENDA
subcellular loc. Membrane localization by OPM: Endoplasmic reticulum membrane
luminal side
cytoplasmic side
Gene
Ontology
ChainFunctionProcessComponent
A


Primary referenceStructural basis of drug binding to CYP46A1, an enzyme that controls cholesterol turnover in the brain., Mast N, Charvet C, Pikuleva IA, Stout CD, J Biol Chem. 2010 Oct 8;285(41):31783-95. Epub 2010 Jul 28. PMID:20667828
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (94 Kb) [Save to disk]
  • Biological Unit Coordinates (3mdm.pdb1.gz) 88 Kb
  • LPC: Ligand-Protein Contacts for 3MDM
  • CSU: Contacts of Structural Units for 3MDM
  • Structure Factors (819 Kb)
  • Retrieve 3MDM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3MDM from S2C, [Save to disk]
  • Re-refined 3mdm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3MDM 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 3MDM
  • 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 3MDM, from MSDmotif at EBI
  • Fold representative 3mdm from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3mdm] [3mdm_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Alignments of the sequence of 3MDM with the sequences similar proteins can be viewed for 3MDM's classification at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list.
  • A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification at ProtoMap. Click on the Cluster number.
  • Other resources with information on 3MDM
  • Community annotation for 3MDM 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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