1OJY Regulator Of Complement Pathway date Jul 16, 2003
title Decay Accelerating Factor (Cd55): The Structure Of An Intact Complement Regulator.
authors P.Lukacik, P.Roversi, J.White, D.Esser, G.P.Smith, J.Billington, P.A.Williams, P.M.Rudd, M.R.Wormald, M.D.M.Crispin, C.M.Radclif R.A.Dwek, D.J.Evans, B.P.Morgan, R.A.G.Smith, S.M.Lea
compound source
Molecule: Complement Decay-Accelerating Factor
Chain: A, B, C, D
Fragment: Four Extracellular Scr Domains, Residues 35-285
Synonym: Daf, Cr, Cd55
Engineered: Yes
Other_details: Modelled Glycerols, Acetates And Sulphates F Crystallisation Buffer
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Escherichia Coli
Expression_system_taxid: 562
Other_details: Human Sequence Expressed In E.Coli.
symmetry Space Group: P 1
R_factor
R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
51.829 78.694 80.903 72.70 79.38 81.70
method X-Ray Diffractionresolution 2.60 Å
ligand ACT, GOL, SO4 enzyme
related structures by homologous chain: 1OK1, 1OK2
Primary referenceComplement regulation at the molecular level: the structure of decay-accelerating factor., Lukacik P, Roversi P, White J, Esser D, Smith GP, Billington J, Williams PA, Rudd PM, Wormald MR, Harvey DJ, Crispin MD, Radcliffe CM, Dwek RA, Evans DJ, Morgan BP, Smith RA, Lea SM, Proc Natl Acad Sci U S A 2004 Feb 3;101(5):1279-84. Epub 2004 Jan 20. PMID:14734808
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (168 Kb) [Save to disk]
  • Biological Unit Coordinates (1ojy.pdb1.gz) 83 Kb
  • Biological Unit Coordinates (1ojy.pdb2.gz) 83 Kb
  • LPC: Ligand-Protein Contacts for 1OJY
  • CSU: Contacts of Structural Units for 1OJY
  • Likely Quarternary Molecular Structure file(s) for 1OJY
  • Structure Factors (246 Kb)
  • Retrieve 1OJY in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1OJY from S2C, [Save to disk]
  • Re-refined 1ojy structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1OJY 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 1OJY
  • 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 1OJY, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1ojya3, region A:129-190 [Jmol] [rasmolscript] [script source]
        - Domain d1ojya4, region A:191-253 [Jmol] [rasmolscript] [script source]
        - Domain d1ojya1, region A:2-64 [Jmol] [rasmolscript] [script source]
        - Domain d1ojya2, region A:65-128 [Jmol] [rasmolscript] [script source]
        - Domain d1ojyb3, region B:129-190 [Jmol] [rasmolscript] [script source]
        - Domain d1ojyb4, region B:191-254 [Jmol] [rasmolscript] [script source]
        - Domain d1ojyb1, region B:2-64 [Jmol] [rasmolscript] [script source]
        - Domain d1ojyb2, region B:65-128 [Jmol] [rasmolscript] [script source]
        - Domain d1ojyc1, region C:1-64 [Jmol] [rasmolscript] [script source]
        - Domain d1ojyc3, region C:129-190 [Jmol] [rasmolscript] [script source]
        - Domain d1ojyc4, region C:191-253 [Jmol] [rasmolscript] [script source]
        - Domain d1ojyc2, region C:65-128 [Jmol] [rasmolscript] [script source]
        - Domain d1ojyd3, region D:129-190 [Jmol] [rasmolscript] [script source]
        - Domain d1ojyd4, region D:191-254 [Jmol] [rasmolscript] [script source]
        - Domain d1ojyd1, region D:2-64 [Jmol] [rasmolscript] [script source]
        - Domain d1ojyd2, region D:65-128 [Jmol] [rasmolscript] [script source]
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1ojy_A] [1ojy_D] [1ojy_C] [1ojy_B] [1ojy]
  • SWISS-PROT database: [P08174]
  • Domain organization of [DAF_HUMAN] by SWISSPFAM
  • Domain found in 1OJY: [CCP ] by SMART
  • Other resources with information on 1OJY
  • Community annotation for 1OJY 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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