1W8D Oxidoreductase date Sep 20, 2004
title Binary Structure Of Human Decr.
authors M.S.Alphey, E.Byres, W.N.Hunter
compound source
Molecule: 2,4-Dienoyl-Coa Reductase, Mitochondrial Precursor;
Chain: A, B, C, D
Synonym: 2,4-Dienoyl-Coa Reductase [Nadph], 4-Enoyl-Coa Reductase [Nadph];
Ec: 1.3.1.34
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Organelle: Mitochondria
Expression_system: Escherichia Coli
Expression_system_taxid: 511693
Expression_system_strain: Bl21
Expression_system_plasmid: Plm1
symmetry Space Group: P 1 21 1
R_factor 0.219 R_Free 0.265
crystal
cell
length a length b length c angle alpha angle beta angle gamma
62.873 131.702 70.592 90.00 92.56 90.00
method X-Ray Diffractionresolution 2.2 Å
ligand GOL, MSE, NAP enzyme Oxidoreductase E.C.1.3.1.34 BRENDA
related structures by homologous chain: 1VCN, 1VCO
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Primary referenceStructure and reactivity of human mitochondrial 2,4-dienoyl-CoA reductase: enzyme-ligand interactions in a distinctive short-chain reductase active site., Alphey MS, Yu W, Byres E, Li D, Hunter WN, J Biol Chem. 2005 Jan 28;280(4):3068-77. Epub 2004 Nov 6. PMID:15531764
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (190 Kb) [Save to disk]
  • Biological Unit Coordinates (1w8d.pdb1.gz) 181 Kb
  • LPC: Ligand-Protein Contacts for 1W8D
  • CSU: Contacts of Structural Units for 1W8D
  • Likely Quarternary Molecular Structure file(s) for 1W8D
  • Structure Factors (430 Kb)
  • Retrieve 1W8D in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1W8D from S2C, [Save to disk]
  • Re-refined 1w8d structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1W8D 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 1W8D
  • 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 1W8D, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1w8da_, region A [Jmol] [rasmolscript] [script source]
        - Domain d1w8db_, region B [Jmol] [rasmolscript] [script source]
        - Domain d1w8dc_, region C [Jmol] [rasmolscript] [script source]
        - Domain d1w8dd_, region D [Jmol] [rasmolscript] [script source]
  • Fold representative 1w8d from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1w8d_B] [1w8d_C] [1w8d_D] [1w8d] [1w8d_A]
  • SWISS-PROT database: [Q16698]
  • Domain organization of [DECR_HUMAN] by SWISSPFAM
  • Other resources with information on 1W8D
  • Community annotation for 1W8D 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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