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- PDB-1w2r: Solution structure of CR2 SCR 1-2 by X-ray scattering -

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Basic information

Entry
Database: PDB / ID: 1w2r
TitleSolution structure of CR2 SCR 1-2 by X-ray scattering
ComponentsCOMPLEMENT RECEPTOR TYPE 2 PRECURSOR,
KeywordsIMMUNE SYSTEM / ANALYTICAL ULTRACENTRIFUGATION / THROMBOSPONDIN TYPE I REPEATS / CONSTRAINED MODELLING / GLYCOPROTEIN
Function / homology
Function and homology information


complement receptor activity / complement binding / negative regulation of complement activation, classical pathway / T cell mediated immunity / complement activation, alternative pathway / B cell proliferation / immunoglobulin receptor binding / B cell differentiation / complement activation, classical pathway / Regulation of Complement cascade ...complement receptor activity / complement binding / negative regulation of complement activation, classical pathway / T cell mediated immunity / complement activation, alternative pathway / B cell proliferation / immunoglobulin receptor binding / B cell differentiation / complement activation, classical pathway / Regulation of Complement cascade / transmembrane signaling receptor activity / virus receptor activity / receptor complex / immune response / protein homodimerization activity / DNA binding / extracellular space / extracellular exosome / membrane / plasma membrane
Similarity search - Function
Sushi repeat (SCR repeat) / Domain abundant in complement control proteins; SUSHI repeat; short complement-like repeat (SCR) / Sushi/SCR/CCP domain / Sushi/CCP/SCR domain profile. / Sushi/SCR/CCP superfamily
Similarity search - Domain/homology
Complement receptor type 2
Similarity search - Component
Biological speciesHOMO SAPIENS (human)
MethodSOLUTION SCATTERING
Model type detailsCA ATOMS ONLY, CHAIN A
AuthorsGilbert, H.E. / Hannan, J.P. / Holers, V.M. / Perkins, S.J.
CitationJournal: J.Mol.Biol. / Year: 2005
Title: Solution Structure of the Complex between Cr2 Scr 1-2 and C3D of Human Complement: An X-Ray Scattering and Sedimentation Modelling Study.
Authors: Gilbert, H.E. / Eaton, J.T. / Hannan, J.P. / Holers, V.M. / Perkins, S.J.
History
DepositionJul 8, 2004Deposition site: PDBE / Processing site: PDBE
Revision 1.0Sep 29, 2005Provider: repository / Type: Initial release
Revision 1.1May 8, 2024Group: Data collection / Database references / Category: chem_comp_atom / chem_comp_bond / database_2
Item: _database_2.pdbx_DOI / _database_2.pdbx_database_accession

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Structure visualization

Structure viewerMolecule:
MolmilJmol/JSmol

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Assembly

Deposited unit
A: COMPLEMENT RECEPTOR TYPE 2 PRECURSOR,


Theoretical massNumber of molelcules
Total (without water)15,6121
Polymers15,6121
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author&software
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1
MethodPISA
Number of models3

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Components

#1: Protein COMPLEMENT RECEPTOR TYPE 2 PRECURSOR, / CR2 SCR 1-2 / COMPLEMENT C3D RECEPTOR / EPSTEIN-BARR VIRUS RECEPTOR / EBV RECEPTOR / CD21 ANTIGEN / Coordinate model: Cα atoms only


Mass: 15611.923 Da / Num. of mol.: 1
Source method: isolated from a genetically manipulated source
Source: (gene. exp.) HOMO SAPIENS (human) / Production host: PICHIA PASTORIS (fungus) / References: UniProt: P20023

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Experimental details

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Experiment

ExperimentMethod: SOLUTION SCATTERING

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Data collection

Soln scatter
TypeIDBuffer nameConc. range (mg/ml)Data reduction software listDetector typeMean guiner radius (nm)Mean guiner radius esd (nm)Min mean cross sectional radii gyration (nm)Min mean cross sectional radii gyration esd (nm)Num. of time framesProtein lengthSource classSource typeTemperature (K)
x-ray110 MM HEPES, 50 MM NACL0.6-10.2MULTICCDFRELON CCD CAMERA2.120.0510.1110YESRF BEAMLINE ID02288
modelling2

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Processing

SoftwareName: INSIGHT / Version: II 98 / Classification: refinement
Refinement stepCycle: LAST
ProteinNucleic acidLigandSolventTotal
Num. atoms142 0 0 0 142
Soln scatter modelNum. of conformers submitted: 6 / Representative conformer: 1 / Software author list: MSI / Software list: INSIGHT II, SCTPL7, GNOM

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