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- PDB-2aty: Complement receptor chimaeric conjugate CR2-Ig -

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Basic information

Entry
Database: PDB / ID: 2aty
TitleComplement receptor chimaeric conjugate CR2-Ig
ComponentsComplement receptor chimeric conjugate CR2-Ig
KeywordsIMMUNE SYSTEM / Immunoglobulin fold / antibody / complement
Function / homology
Function and homology information


complement receptor activity / complement binding / negative regulation of complement activation, classical pathway / T cell mediated immunity / humoral immune response mediated by circulating immunoglobulin / phagocytosis, recognition / positive regulation of type IIa hypersensitivity / positive regulation of type I hypersensitivity / complement activation, alternative pathway / antibody-dependent cellular cytotoxicity ...complement receptor activity / complement binding / negative regulation of complement activation, classical pathway / T cell mediated immunity / humoral immune response mediated by circulating immunoglobulin / phagocytosis, recognition / positive regulation of type IIa hypersensitivity / positive regulation of type I hypersensitivity / complement activation, alternative pathway / antibody-dependent cellular cytotoxicity / phagocytosis, engulfment / B cell proliferation / immunoglobulin mediated immune response / positive regulation of phagocytosis / immunoglobulin complex, circulating / immunoglobulin receptor binding / B cell differentiation / complement activation, classical pathway / Regulation of Complement cascade / antigen binding / transmembrane signaling receptor activity / positive regulation of immune response / virus receptor activity / antibacterial humoral response / receptor complex / blood microparticle / defense response to bacterium / immune response / external side of plasma membrane / protein homodimerization activity / DNA binding / extracellular space / extracellular exosome / membrane / plasma membrane / cytoplasm
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 / Immunoglobulin C-Type / Immunoglobulin C1-set / Immunoglobulin C1-set domain / Ig-like domain profile. / Immunoglobulin-like domain ...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 / Immunoglobulin C-Type / Immunoglobulin C1-set / Immunoglobulin C1-set domain / Ig-like domain profile. / Immunoglobulin-like domain / Immunoglobulin-like domain superfamily / Immunoglobulin-like fold
Similarity search - Domain/homology
Ig gamma-1 chain C region secreted form / Complement receptor type 2
Similarity search - Component
Biological speciesHomo sapiens (human)
Mus musculus (house mouse)
MethodSOLUTION SCATTERING / SYNCHROTRON / NUCLEAR REACTOR
AuthorsGilbert, H.E. / Aslam, M. / Guthridge, J.M. / Holers, V.M. / Perkins, S.J.
CitationJournal: J.Mol.Biol. / Year: 2006
Title: Extended Flexible Linker Structures in the Complement Chimaeric Conjugate CR2-Ig by Scattering, Analytical Ultracentrifugation and Constrained Modelling: Implications for Function and Therapy.
Authors: Gilbert, H.E. / Aslam, M. / Guthridge, J.M. / Holers, V.M. / Perkins, S.J.
History
DepositionAug 26, 2005Deposition site: RCSB / Processing site: RCSB
Revision 1.0Jan 31, 2006Provider: repository / Type: Initial release
Revision 1.1May 1, 2008Group: Version format compliance
Revision 1.2Jul 13, 2011Group: Version format compliance
Revision 1.3Jun 21, 2017Group: Database references / Source and taxonomy
Category: entity_src_gen / struct_ref ...entity_src_gen / struct_ref / struct_ref_seq / struct_ref_seq_dif
Item: _struct_ref.db_code / _struct_ref.db_name ..._struct_ref.db_code / _struct_ref.db_name / _struct_ref.pdbx_align_begin / _struct_ref.pdbx_db_accession / _struct_ref_seq.db_align_beg / _struct_ref_seq.db_align_end / _struct_ref_seq.pdbx_db_accession
Revision 1.4Oct 11, 2017Group: Refinement description / Category: software
Revision 1.5Jun 13, 2018Group: Data collection / Category: diffrn_radiation
Item: _diffrn_radiation.pdbx_diffrn_protocol / _diffrn_radiation.pdbx_monochromatic_or_laue_m_l / _diffrn_radiation.pdbx_scattering_type
Revision 1.6Feb 14, 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

Downloads & links

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Assembly

Deposited unit
A: Complement receptor chimeric conjugate CR2-Ig
B: Complement receptor chimeric conjugate CR2-Ig


Theoretical massNumber of molelcules
Total (without water)83,9972
Polymers83,9972
Non-polymers00
Water00
1


  • Idetical with deposited unit
  • defined by author
TypeNameSymmetry operationNumber
identity operation1_555x,y,z1

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Components

#1: Protein Complement receptor chimeric conjugate CR2-Ig / Coordinate model: Cα atoms only


Mass: 41998.602 Da / Num. of mol.: 2
Source method: isolated from a genetically manipulated source
Details: Chimeric protein consisting of portions of a complement component CR2 from human, a linker region, and a portion of Immunoglobulin gamma chain from mouse.
Source: (gene. exp.) Homo sapiens (human), (gene. exp.) Mus musculus (house mouse)
Gene: CR2, C3DR, Ighg1, Igh-4 / Cell line (production host): NS/0 / Production host: Mus musculus (house mouse) / References: UniProt: P20023, UniProt: P01868

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Experimental details

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Experiment

ExperimentMethod: SOLUTION SCATTERING

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Data collection

Diffraction
IDMean temperature (K)Crystal-ID
12781
22781
32781
Diffraction source
SourceSiteBeamlineTypeIDWavelength (Å)
SYNCHROTRONSRS 2.111.54
NUCLEAR REACTORILL BEAMLINE D11210
SPALLATION SOURCEISIS INSTRUMENT LOQ32.0-10.0
Detector
TypeIDDetectorDate
500-CHANNEL1QUADRANT DETECTORApr 1, 1999
3_He CERCA2AREA DETECTORJun 1, 1999
3-He ORDELA3AREA DETECTORFeb 1, 2000
Radiation
IDMonochromatorProtocolMonochromatic (M) / Laue (L)Scattering typeWavelength-ID
1MIRRORSINGLE WAVELENGTHMx-ray1
2ROTATING DRUMSINGLE WAVELENGTHMx-ray1
3TIME OF FLIGHTLAUELneutron1
Radiation wavelength
IDWavelength (Å)Relative weight
11.541
2101
321
Soln scatter

Conc. range: 0.2-0.4 / Data analysis software list: SCTPL7, GNOM / Num. of time frames: 1 / Protein length: 1 / Sample pH: 7.4 / Source class: Y / Temperature: 288 K

TypeIDBuffer nameData 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)Source beamlineSource type
x-ray110 MM NA PHOSPHATE 137 MM NACLOTOKOQUADRANT DETECTOR5.390.142.180.072.1SRS DARESBURY
neutron210 MM NA PHOSPHATE 137 MM NACL 99.9% D2OCOLETTEHE-3 ORDELA DETECTOR5.290.011.930.12LOQISIS RUTHERFORD

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Processing

Software
NameVersionClassification
OTOKOdata reduction
SPOLLYdata reduction
COLETTEdata reduction
SCTPL7model building
GNOMmodel building
Insight IIII 98model building
OTOKOdata scaling
SPOLLYdata scaling
COLETTEdata scaling
SCTPLV. 7phasing
GNOMphasing
Refinement stepCycle: LAST
ProteinNucleic acidLigandSolventTotal
Num. atoms752 0 0 0 752
Soln scatter modelNum. of conformers submitted: 1 / Software list: INSIGHT II, SCTPL7, GNOM

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