1OK3 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
Fragment: Four Extracellular Scr Domains, Residues 35-285
Synonym: Cd55, Cr, Daf
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
Expression_system_strain: Ba34
Other_details: Human Sequence Expressed In E.Coli.. Semet Substitution
symmetry Space Group: P 1
R_factor
R_Free NULL
crystal
cell
length a length b length c angle alpha angle beta angle gamma
46.670 55.080 61.650 86.47 84.37 64.91
method X-Ray Diffractionresolution 2.20 Å
ligand ACT, GOL, MSE, SO4 enzyme
related structures by homologous chain: 1H04, 1OJV
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] (92 Kb) [Save to disk]
  • Biological Unit Coordinates (1ok3.pdb1.gz) 86 Kb
  • LPC: Ligand-Protein Contacts for 1OK3
  • CSU: Contacts of Structural Units for 1OK3
  • Likely Quarternary Molecular Structure file(s) for 1OK3
  • Structure Factors (341 Kb)
  • Retrieve 1OK3 in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1OK3 from S2C, [Save to disk]
  • Re-refined 1ok3 structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 1OK3 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 1OK3
  • 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 1OK3, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1ok3a1, region A:1-64 [Jmol] [rasmolscript] [script source]
        - Domain d1ok3a3, region A:129-190 [Jmol] [rasmolscript] [script source]
        - Domain d1ok3a4, region A:191-254 [Jmol] [rasmolscript] [script source]
        - Domain d1ok3a2, region A:65-128 [Jmol] [rasmolscript] [script source]
        - Domain d1ok3b3, region B:129-190 [Jmol] [rasmolscript] [script source]
        - Domain d1ok3b4, region B:191-254 [Jmol] [rasmolscript] [script source]
        - Domain d1ok3b1, region B:2-64 [Jmol] [rasmolscript] [script source]
        - Domain d1ok3b2, region B:65-128 [Jmol] [rasmolscript] [script source]
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1ok3_B] [1ok3_A] [1ok3]
  • SWISS-PROT database: [P08174]
  • Domain organization of [DAF_HUMAN] by SWISSPFAM
  • Domain found in 1OK3: [CCP ] by SMART
  • Other resources with information on 1OK3
  • Community annotation for 1OK3 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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