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- Validation 2fo-fc coefficients (CIF - gz)
- Validation fo-fc coefficients (CIF - gz)
- Biological Assembly 1 (CIF - gz)
- Biological Assembly 2 (CIF - gz)
- Biological Assembly 1 (PDB - gz)
- Biological Assembly 2 (PDB - gz)
1OJY|pdb_00001ojy
Decay accelerating factor (cd55): the structure of an intact human complement regulator.
- PDB DOI: https://doi.org/10.2210/pdb1OJY/pdb
- Classification: REGULATOR OF COMPLEMENT PATHWAY
- Organism(s): Homo sapiens
- Expression System: Escherichia coli
- Mutation(s): No
- Deposited: 2003-07-16 Released: 2004-01-07
- Deposition Author(s): Lukacik, P.,Roversi, P.,White, J.,Esser, D.,Smith, G.P.,Billington, J.,Williams, P.A.,Rudd, P.M.,Wormald, M.R.,Crispin, M.D.M.,Radcliffe, C.M.,Dwek, R.A.,Evans, D.J.,Morgan, B.P.,Smith, R.A.G.,Lea, S.M.
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.60 Å
- R-Value Free: 0.300 (DCC)
- R-Value Work: 0.250 (DCC)
Starting Model:experimental
View more details
wwPDB Validation 3D Report Full Report
Download MendeleyComplement 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
- PubMed: 14734808 Search on PubMedSearch on PubMed Central
- DOI: https://doi.org/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 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.
- Laboratory of Molecular Biophysics and Glycobiology Institute, Department of Biochemistry, University of Oxford, South Parks Road, Oxford OX1 3QU, England.
Organizational Affiliation:
Explore in 3D: Structure |Sequence Annotations |Electron Density |Validation Report |Ligand Interaction (SO4)
Global Symmetry: Cyclic - C2 (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2
Find Similar Assemblies
Biological assembly 1 assigned by authors and generated by PQS (software)
Explore in 3D: Structure |Sequence Annotations |Electron Density |Validation Report |Ligand Interaction (SO4)
Global Symmetry: Cyclic - C2 (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2
Find Similar Assemblies
Biological assembly 2 assigned by authors and generated by PQS (software)
Macromolecule Content
- Total Structure Weight: 113.78 kDa
- Atom Count: 8,050
- Modeled Residue Count: 1,011
- Deposited Residue Count: 1,016
- Unique protein chains: 1
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Sequence Length | Organism | Details | Image |
| COMPLEMENT DECAY-ACCELERATING FACTOR | 254 | Homo sapiens | Mutation(s): 0 |  | |
UniProt & NIH Common Fund Data Resources | |||||
Find proteins for P08174 (Homo sapiens) Explore P08174 Go to UniProtKB: P08174 | |||||
PHAROS: P08174 GTEx: ENSG00000196352 | |||||
Entity Groups | |||||
| Sequence Clusters | 30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity | ||||
| UniProt Group | P08174 | ||||
Sequence AnnotationsExpand | |||||
| |||||
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.60 Å
- R-Value Free: 0.300 (DCC)
- R-Value Work: 0.250 (DCC)
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 51.829 | α = 72.7 |
| b = 78.694 | β = 79.38 |
| c = 80.903 | γ = 81.7 |
| Software Name | Purpose |
|---|---|
| TNT | refinement |
| DENZO | data reduction |
| SCALEPACK | data scaling |
| MOLREP | phasing |
Deposition Data
- Released Date: 2004-01-07 Deposition Author(s): Lukacik, P.,Roversi, P.,White, J.,Esser, D.,Smith, G.P.,Billington, J.,Williams, P.A.,Rudd, P.M.,Wormald, M.R.,Crispin, M.D.M.,Radcliffe, C.M.,Dwek, R.A.,Evans, D.J.,Morgan, B.P.,Smith, R.A.G.,Lea, S.M.
Revision History (Full details and data files)
- Version 1.0: 2004-01-07
Type: Initial release - Version 1.1: 2016-09-21
Changes: Database references, Derived calculations, Non-polymer description, Other, Refinement description, Structure summary, Version format compliance - Version 1.2: 2023-12-13
Changes: Data collection, Database references, Derived calculations, Other, Refinement description - Version 1.3: 2024-10-09
Changes: Structure summary
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