1OK3

Decay accelerating factor (cd55): the structure of an intact human complement regulator.


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å

wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Complement Regulation at the Molecular Level: The Structure of Decay-Accelerating Factor

Lukacik, P.Roversi, P.White, J.Esser, D.Smith, G.P.Billington, J.Williams, P.A.Rudd, P.M.Wormald, M.R.Harvey, D.J.Crispin, M.D.M.Radcliffe, C.M.Dwek, R.A.Evans, D.J.Morgan, B.P.Smith, R.A.G.Lea, S.M.

(2004) Proc Natl Acad Sci U S A 101: 1279

  • DOI: 10.1073/pnas.0307200101
  • Primary Citation of Related Structures:  
    1OJV, 1OJW, 1OJY, 1OK1, 1OK2, 1OK3, 1OK9

  • PubMed Abstract: 
  • The human complement regulator CD55 is a key molecule protecting self-cells from complement-mediated lysis. X-ray diffraction and analytical ultracentrifugation data reveal a rod-like arrangement of four short consensus repeat (SCR) domains in both the crystal and solution ...

    The human complement regulator CD55 is a key molecule protecting self-cells from complement-mediated lysis. X-ray diffraction and analytical ultracentrifugation data reveal a rod-like arrangement of four short consensus repeat (SCR) domains in both the crystal and solution. The stalk linking the four SCR domains to the glycosylphosphatidylinositol anchor is extended by the addition of 11 highly charged O-glycans and positions the domains an estimated 177 A above the membrane. Mutation mapping and hydrophobic potential analysis suggest that the interaction with the convertase, and thus complement regulation, depends on the burial of a hydrophobic patch centered on the linker between SCR domains 2 and 3.


    Related Citations: 
    • Biological Activity, Membrane-Targeting Modification, and Crystallization of Soluble Human Decay Accelerating Factor Expressed in E. Coli
      White, J., Lukacik, P., Esser, D., Steward, M., Giddings, N., Bright, J.R., Fritchley, S., Morgan, B.P., Lea, S.M., Smith, G.P., Smith, R.A.G.
      (2004) Protein Sci 13: 2406

    Organizational Affiliation

    Laboratory of Molecular Biophysics and Glycobiology Institute, Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, England.



Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChainsSequence LengthOrganismDetailsImage
COMPLEMENT DECAY-ACCELERATING FACTORA, B254Homo sapiensMutation(s): 0 
Gene Names: CD55CRDAF
UniProt & NIH Common Fund Data Resources
Find proteins for P08174 (Homo sapiens)
Explore P08174 
Go to UniProtKB:  P08174
PHAROS:  P08174
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP08174
Protein Feature View
Expand
  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChainsName / Formula / InChI Key2D Diagram3D Interactions
SO4
Query on SO4

Download Ideal Coordinates CCD File 
E [auth A],
L [auth B]
SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
 Ligand Interaction
GOL
Query on GOL

Download Ideal Coordinates CCD File 
F [auth A],
G [auth A],
H [auth A],
I [auth A],
M [auth B],
F [auth A],
G [auth A],
H [auth A],
I [auth A],
M [auth B],
N [auth B],
O [auth B],
P [auth B],
Q [auth B]
GLYCEROL
C3 H8 O3
PEDCQBHIVMGVHV-UHFFFAOYSA-N
 Ligand Interaction
ACT
Query on ACT

Download Ideal Coordinates CCD File 
C [auth A],
D [auth A],
J [auth B],
K [auth B]
ACETATE ION
C2 H3 O2
QTBSBXVTEAMEQO-UHFFFAOYSA-M
 Ligand Interaction
Modified Residues  1 Unique
IDChainsTypeFormula2D DiagramParent
MSE
Query on MSE
A, B L-PEPTIDE LINKINGC5 H11 N O2 SeMET
Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.20 Å
  • Space Group: P 1
Unit Cell:
Length ( Å )Angle ( ˚ )
a = 46.67α = 86.47
b = 55.08β = 84.37
c = 61.65γ = 64.91
Software Package:
Software NamePurpose
SHARPmodel building
TNTrefinement
SCALAdata scaling
MOLREPphasing
BUSTERphasing
TNTphasing
SHARPphasing
DMphasing
SOLOMONphasing
SIGMAAphasing

Structure Validation

View Full Validation Report



Entry History 

Revision History  (Full details and data files)

  • Version 1.0: 2004-01-07
    Type: Initial release
  • Version 1.1: 2011-05-08
    Changes: Version format compliance
  • Version 1.2: 2011-07-13
    Changes: Version format compliance