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9rbo

A cryo-EM structure of native C3 protein in a compact conformation.

Method: ELECTRON MICROSCOPY Dmax: 144.2 Å Quality: GOOD
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1. Protein Identity and Related Structures Protein Identity & Related Structures

Complement C3 beta chain

OrganismNot specified

UniProt P01024

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein homooligomer Homooligomer Protein × 4 PDB declaration: tetrameric（4） Consistent with protein copy count Chain A； UniProt 32–227 Chain B； UniProt 350–665 Chain C； UniProt 686–734 Chain D； UniProt 762–1663 Not recorded No other associated polymer ELECTRON MICROSCOPY mmCIF provides none of the parsed experimental conditions Resolution 3.00 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

Other PDB Difference from Current Entry 9RBO Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Method and Experimental Conditions Structure Quality
1C3D X-RAY CRYSTAL STRUCTURE OF C3D: A C3 FRAGMENT AND LIGAND FOR COMPLEMENT RECEPTOR 2 Deposited 1998-05-19 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 996–1287（292 aa）
Mutation：C17A GOL GLYCEROL × 5 X-RAY DIFFRACTION
X-ray crystallization conditions pH 6.5；PROTEIN WAS CRYSTALLIZED FROM 12% PEG 20K, 100 MM MES BUFFER, PH 6.5, 10 MM DTT
Resolution 1.80 Å R-free 0.230
1GHQ CR2-C3D COMPLEX STRUCTURE Deposited 2001-01-11 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 996–1300（305 aa） Fragment：FRAGMENT OF ALPHA CHAIN
Mutation：C17A ZN ZINC ION × 2 NDG 2-acetamido-2-deoxy-alpha-D-glucopyranose × 2 X-RAY DIFFRACTION
X-ray crystallization conditions pH 6；pH 6.0
Resolution 2.04 Å R-free 0.239
1W2S Solution structure of CR2 SCR 1-2 in its complex with C3d by X-ray scattering Deposited 2004-07-08 Different construct Different mutation/modification Different oligomeric state Different experimental method Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 996–1287（292 aa）
Chain A 1288–1299（12 aa）
Not recorded No recorded non-water small molecule SOLUTION SCATTERING mmCIF provides none of the parsed conditions Resolution not provided
2A73 Human Complement Component C3 Deposited 2005-07-04 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 23–665（643 aa） Fragment：residue 1-645
Chain B 673–1663（991 aa） Fragment：residue 650-1663
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.2；293 K；PEG 550 MME, sodium acetate, pH 6.2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 3.30 Å R-free 0.289
2A74 Human Complement Component C3c Deposited 2005-07-04 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Homooligomer；Protein × 3 PDB declaration: trimeric
Chain A 23–665（643 aa） Fragment：residues 23-665
Chain B 749–936（188 aa） Fragment：residues 749-936
Chain C 1321–1663（343 aa） Fragment：esidues 1321-1663
Not recorded GOL GLYCEROL × 7 NO3 NITRATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；293 K；PEG3000, lithium nitrate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.40 Å R-free 0.275
2A74 Human Complement Component C3c Deposited 2005-07-04 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Homooligomer；Protein × 3 PDB declaration: trimeric
Chain D 23–665（643 aa） Fragment：residues 23-665
Chain E 749–936（188 aa） Fragment：residues 749-936
Chain F 1321–1663（343 aa） Fragment：esidues 1321-1663
Not recorded GOL GLYCEROL × 6 NO3 NITRATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；293 K；PEG3000, lithium nitrate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.40 Å R-free 0.275
2GOX Crystal structure of Efb-C / C3d Complex Deposited 2006-04-14 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 996–1287（292 aa） Fragment：Fragment of alpha chain: Residues 996-1287
Mutation：C1010A No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.4；293 K；60% Tacsimate pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K
Resolution 2.20 Å R-free 0.231
2GOX Crystal structure of Efb-C / C3d Complex Deposited 2006-04-14 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain C 996–1287（292 aa） Fragment：Fragment of alpha chain: Residues 996-1287
Mutation：C1010A No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.4；293 K；60% Tacsimate pH 7.4, VAPOR DIFFUSION, HANGING DROP, temperature 293.0K
Resolution 2.20 Å R-free 0.231
2I07 Human Complement Component C3b Deposited 2006-08-10 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 23–667（645 aa）
Chain B 749–1663（915 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.8；303 K；PEG-MME 2000, sodium acetate, Bis-Tris propane, taurine, pH 7.8, VAPOR DIFFUSION, SITTING DROP, temperature 303K
Resolution 4.00 Å R-free 0.323
2ICE CRIg bound to C3c Deposited 2006-09-12 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 23–664（642 aa）
Chain B 749–954（206 aa）
Chain C 1321–1663（343 aa）
Not recorded CA CALCIUM ION × 1 X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 3.10 Å R-free 0.295
2ICE CRIg bound to C3c Deposited 2006-09-12 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain D 23–664（642 aa）
Chain E 749–954（206 aa）
Chain F 1321–1663（343 aa）
Not recorded CA CALCIUM ION × 1 X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 3.10 Å R-free 0.295
2ICF CRIg bound to C3b Deposited 2006-09-12 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 23–664（642 aa）
Chain B 749–1663（915 aa）
Not recorded CA CALCIUM ION × 1 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions EVAPORATION；pH 6.5；293 K；pH 6.5, EVAPORATION, temperature 293K
Resolution 4.10 Å R-free 0.330
2NOJ Crystal structure of Ehp / C3d complex Deposited 2006-10-25 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 996–1287（292 aa） Fragment：Residues 996-1287
Mutation：C1010A No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions pH 8.2；293 K；0.2M LiSO4, 25% PEG 3350, 0.1M Tris-HCl pH 8.2, additive: CaCl2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.70 Å R-free 0.284
2NOJ Crystal structure of Ehp / C3d complex Deposited 2006-10-25 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain C 996–1287（292 aa） Fragment：Residues 996-1287
Mutation：C1010A No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions pH 8.2；293 K；0.2M LiSO4, 25% PEG 3350, 0.1M Tris-HCl pH 8.2, additive: CaCl2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.70 Å R-free 0.284
2NOJ Crystal structure of Ehp / C3d complex Deposited 2006-10-25 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain E 996–1287（292 aa） Fragment：Residues 996-1287
Mutation：C1010A No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions pH 8.2；293 K；0.2M LiSO4, 25% PEG 3350, 0.1M Tris-HCl pH 8.2, additive: CaCl2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.70 Å R-free 0.284
2NOJ Crystal structure of Ehp / C3d complex Deposited 2006-10-25 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 4 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain G 996–1287（292 aa） Fragment：Residues 996-1287
Mutation：C1010A No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions pH 8.2；293 K；0.2M LiSO4, 25% PEG 3350, 0.1M Tris-HCl pH 8.2, additive: CaCl2, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.70 Å R-free 0.284
2QKI Human C3c in complex with the inhibitor compstatin Deposited 2007-07-11 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 23–665（643 aa） Fragment：residues 23-665
Chain B 749–936（188 aa） Fragment：residues 749-936
Chain C 1321–1663（343 aa） Fragment：residues 1321-1663
Not recorded K POTASSIUM ION × 2 BR BROMIDE ION × 12 GOL GLYCEROL × 7 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；293 K；PEG-MME 2000, KBr, Tris, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.40 Å R-free 0.281
2QKI Human C3c in complex with the inhibitor compstatin Deposited 2007-07-11 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain D 23–665（643 aa） Fragment：residues 23-665
Chain E 749–936（188 aa） Fragment：residues 749-936
Chain F 1321–1663（343 aa） Fragment：residues 1321-1663
Not recorded K POTASSIUM ION × 3 BR BROMIDE ION × 20 GOL GLYCEROL × 11 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；293 K；PEG-MME 2000, KBr, Tris, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.40 Å R-free 0.281
2WII Complement C3b in complex with factor H domains 1-4 Deposited 2009-05-12 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 23–667（645 aa） Fragment：RESIDUES 23-667
Chain B 749–1663（915 aa） Fragment：RESIDUES 749-1663
Not recorded CA CALCIUM ION × 1 GOL GLYCEROL × 17 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.1；7.0% (W/V) PEG 3,350, 70 MM AMMONIUM ACETATE, PH 7.1
Resolution 2.70 Å R-free 0.252
2WII Complement C3b in complex with factor H domains 1-4 Deposited 2009-05-12 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Monomer；Protein × 1 PDB declaration: monomeric
Chain A 23–667（645 aa） Fragment：RESIDUES 23-667
Not recorded CA CALCIUM ION × 1 GOL GLYCEROL × 3 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.1；7.0% (W/V) PEG 3,350, 70 MM AMMONIUM ACETATE, PH 7.1
Resolution 2.70 Å R-free 0.252
2WII Complement C3b in complex with factor H domains 1-4 Deposited 2009-05-12 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain B 749–1663（915 aa） Fragment：RESIDUES 749-1663
Not recorded GOL GLYCEROL × 13 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.1；7.0% (W/V) PEG 3,350, 70 MM AMMONIUM ACETATE, PH 7.1
Resolution 2.70 Å R-free 0.252
2WIN C3 convertase (C3bBb) stabilized by SCIN Deposited 2009-05-13 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 23–667（645 aa） Fragment：COMPLEMENT C3B BETA CHAIN, RESIDUES 23-667
Chain B 749–1663（915 aa） Fragment：;COMPLEMENT C3B ALPHA' CHAIN, RESIDUES 749-1663 ;
Chain G 23–667（645 aa） Fragment：COMPLEMENT C3B BETA CHAIN, RESIDUES 23-667
Chain H 749–1663（915 aa） Fragment：;COMPLEMENT C3B ALPHA' CHAIN, RESIDUES 749-1663 ;
Not recorded MAN alpha-D-mannopyranose × 1 BMA beta-D-mannopyranose × 1 MG MAGNESIUM ION × 2 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 6.5；75 MM SODIUM/POTASSIUM TARTRATE, 8.0% PEG 3350, 50 MM BIS-TRIS PROPANE, PH 6.5
Resolution 3.90 Å R-free 0.268
2WIN C3 convertase (C3bBb) stabilized by SCIN Deposited 2009-05-13 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain C 23–667（645 aa） Fragment：COMPLEMENT C3B BETA CHAIN, RESIDUES 23-667
Chain D 749–1663（915 aa） Fragment：;COMPLEMENT C3B ALPHA' CHAIN, RESIDUES 749-1663 ;
Chain E 23–667（645 aa） Fragment：COMPLEMENT C3B BETA CHAIN, RESIDUES 23-667
Chain F 749–1663（915 aa） Fragment：;COMPLEMENT C3B ALPHA' CHAIN, RESIDUES 749-1663 ;
Not recorded BMA beta-D-mannopyranose × 1 MG MAGNESIUM ION × 2 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 6.5；75 MM SODIUM/POTASSIUM TARTRATE, 8.0% PEG 3350, 50 MM BIS-TRIS PROPANE, PH 6.5
Resolution 3.90 Å R-free 0.268
2WY7 Staphylococcus aureus complement subversion protein Sbi-IV in complex with complement fragment C3d revealing an alternative binding mode Deposited 2009-11-13 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 996–1303（308 aa） Fragment：C3D, RESIDUES 996-1303
Mutation：YES GOL GLYCEROL × 3 X-RAY DIFFRACTION
X-ray crystallization conditions pH 8；100MM TRIS PH8.0, 200MM NACL, 20%(W/V) PEG 4000
Resolution 1.70 Å R-free 0.205
2WY8 Staphylococcus aureus complement subversion protein Sbi-IV in complex with complement fragment C3d Deposited 2009-11-13 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 996–1303（308 aa） Fragment：C3D, RESIDUES 996-1303
Mutation：YES GOL GLYCEROL × 2 X-RAY DIFFRACTION
X-ray crystallization conditions pH 8；100MM TRIS PH8.0, 200MM NACL, 20%(W/V) PEG 4000
Resolution 1.70 Å R-free 0.205
2XQW Structure of Factor H domains 19-20 in complex with complement C3d Deposited 2010-09-07 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 996–1287（292 aa） Fragment：THIOESTER DOMAIN, RESIDUES 996-1287
Chain B 996–1287（292 aa） Fragment：THIOESTER DOMAIN, RESIDUES 996-1287
Mutation：YES Mutation：YES No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.5；295 K；12-18% PEG 4000, 0.1 M HEPES, PH 7.5, AT 22 DEGREES C
Resolution 2.31 Å R-free 0.242
2XQW Structure of Factor H domains 19-20 in complex with complement C3d Deposited 2010-09-07 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 996–1287（292 aa） Fragment：THIOESTER DOMAIN, RESIDUES 996-1287
Mutation：YES No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.5；295 K；12-18% PEG 4000, 0.1 M HEPES, PH 7.5, AT 22 DEGREES C
Resolution 2.31 Å R-free 0.242
2XQW Structure of Factor H domains 19-20 in complex with complement C3d Deposited 2010-09-07 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain B 996–1287（292 aa） Fragment：THIOESTER DOMAIN, RESIDUES 996-1287
Mutation：YES No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.5；295 K；12-18% PEG 4000, 0.1 M HEPES, PH 7.5, AT 22 DEGREES C
Resolution 2.31 Å R-free 0.242
2XWB Crystal Structure of Complement C3b in complex with Factors B and D Deposited 2010-11-01 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 23–664（642 aa） Fragment：RESIDUES 23-664
Chain B 752–1663（912 aa） Fragment：RESIDUES 752-1663
Not recorded MG MAGNESIUM ION × 2 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.7；PH 7.7
Resolution 3.49 Å R-free 0.244
2XWB Crystal Structure of Complement C3b in complex with Factors B and D Deposited 2010-11-01 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain C 23–664（642 aa） Fragment：RESIDUES 23-664
Chain D 752–1663（912 aa） Fragment：RESIDUES 752-1663
Not recorded MG MAGNESIUM ION × 2 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.7；PH 7.7
Resolution 3.49 Å R-free 0.244
2XWB Crystal Structure of Complement C3b in complex with Factors B and D Deposited 2010-11-01 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain C 23–664（642 aa） Fragment：RESIDUES 23-664
Chain D 752–1663（912 aa） Fragment：RESIDUES 752-1663
Not recorded MG MAGNESIUM ION × 2 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.7；PH 7.7
Resolution 3.49 Å R-free 0.244
2XWB Crystal Structure of Complement C3b in complex with Factors B and D Deposited 2010-11-01 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 4 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 23–664（642 aa） Fragment：RESIDUES 23-664
Chain B 752–1663（912 aa） Fragment：RESIDUES 752-1663
Not recorded MG MAGNESIUM ION × 2 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.7；PH 7.7
Resolution 3.49 Å R-free 0.244
2XWJ Crystal Structure of Complement C3b in Complex with Factor B Deposited 2010-11-04 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 23–667（645 aa） Fragment：RESIDUES 23-667
Chain B 749–1663（915 aa） Fragment：RESIDUES 749-1663
Mutation：YES NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 NI NICKEL (II) ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 4；pH 4.0
Resolution 4.00 Å R-free 0.281
2XWJ Crystal Structure of Complement C3b in Complex with Factor B Deposited 2010-11-04 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain C 23–667（645 aa） Fragment：RESIDUES 23-667
Chain D 749–1663（915 aa） Fragment：RESIDUES 749-1663
Mutation：YES NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 NI NICKEL (II) ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 4；pH 4.0
Resolution 4.00 Å R-free 0.281
2XWJ Crystal Structure of Complement C3b in Complex with Factor B Deposited 2010-11-04 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain G 23–667（645 aa） Fragment：RESIDUES 23-667
Chain H 749–1663（915 aa） Fragment：RESIDUES 749-1663
Mutation：YES NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 NI NICKEL (II) ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 4；pH 4.0
Resolution 4.00 Å R-free 0.281
2XWJ Crystal Structure of Complement C3b in Complex with Factor B Deposited 2010-11-04 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 4 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain E 23–667（645 aa） Fragment：RESIDUES 23-667
Chain F 749–1663（915 aa） Fragment：RESIDUES 749-1663
Mutation：YES NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 NI NICKEL (II) ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 4；pH 4.0
Resolution 4.00 Å R-free 0.281
30JE Herpes simplex virus 2 delta28-73 glycoprotein C ectodomain in complex with C3b Deposited 2026-04-29 Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain B 23–667（645 aa）
Chain C 749–1663（915 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
3D5R Crystal Structure of Efb-C (N138A) / C3d Complex Deposited 2008-05-16 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 996–1287（292 aa） Fragment：Complement C3d fragment, UNP residues 996-1287
Mutation：C1010A No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；293 K；60% (v/v) tacsimate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.10 Å R-free 0.241
3D5R Crystal Structure of Efb-C (N138A) / C3d Complex Deposited 2008-05-16 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 996–1287（292 aa） Fragment：Complement C3d fragment, UNP residues 996-1287
Mutation：C1010A No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；293 K；60% (v/v) tacsimate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.10 Å R-free 0.241
3D5S Crystal Structure of Efb-C (R131A) / C3d Complex Deposited 2008-05-16 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 996–1287（292 aa） Fragment：Complement C3d fragment, UNP residues 996-1287
Mutation：C1010A No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；293 K；60% (v/v) tacsimate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.30 Å R-free 0.218
3D5S Crystal Structure of Efb-C (R131A) / C3d Complex Deposited 2008-05-16 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 996–1287（292 aa） Fragment：Complement C3d fragment, UNP residues 996-1287
Mutation：C1010A No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；293 K；60% (v/v) tacsimate, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.30 Å R-free 0.218
3G6J C3b in complex with a C3b specific Fab Deposited 2009-02-06 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 23–666（644 aa）
Chain B 749–1663（915 aa）
Not recorded CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.8；Crystals of the C3b:S77 complex were obtained within a week at 19\xB0 C from 4 ml hanging drops, consisting of a 1:1 ratio of protein solution (10 mg/ml protein in 50 mM NaCl, 25 mM TRIS pH 7.8) to mother liquor (10% PEG 4000, 0.2 M MgCl2, 100 mM Na-HEPES, pH 7.0), suspended over mother liquor, VAPOR DIFFUSION, HANGING DROP
Resolution 3.10 Å R-free 0.282
3G6J C3b in complex with a C3b specific Fab Deposited 2009-02-06 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain C 23–666（644 aa）
Chain D 749–1663（915 aa）
Not recorded CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.8；Crystals of the C3b:S77 complex were obtained within a week at 19\xB0 C from 4 ml hanging drops, consisting of a 1:1 ratio of protein solution (10 mg/ml protein in 50 mM NaCl, 25 mM TRIS pH 7.8) to mother liquor (10% PEG 4000, 0.2 M MgCl2, 100 mM Na-HEPES, pH 7.0), suspended over mother liquor, VAPOR DIFFUSION, HANGING DROP
Resolution 3.10 Å R-free 0.282
3G6J C3b in complex with a C3b specific Fab Deposited 2009-02-06 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 5 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 23–666（644 aa）
Chain B 749–1663（915 aa）
Not recorded CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.8；Crystals of the C3b:S77 complex were obtained within a week at 19\xB0 C from 4 ml hanging drops, consisting of a 1:1 ratio of protein solution (10 mg/ml protein in 50 mM NaCl, 25 mM TRIS pH 7.8) to mother liquor (10% PEG 4000, 0.2 M MgCl2, 100 mM Na-HEPES, pH 7.0), suspended over mother liquor, VAPOR DIFFUSION, HANGING DROP
Resolution 3.10 Å R-free 0.282
3G6J C3b in complex with a C3b specific Fab Deposited 2009-02-06 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 6 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain C 23–666（644 aa）
Chain D 749–1663（915 aa）
Not recorded CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.8；Crystals of the C3b:S77 complex were obtained within a week at 19\xB0 C from 4 ml hanging drops, consisting of a 1:1 ratio of protein solution (10 mg/ml protein in 50 mM NaCl, 25 mM TRIS pH 7.8) to mother liquor (10% PEG 4000, 0.2 M MgCl2, 100 mM Na-HEPES, pH 7.0), suspended over mother liquor, VAPOR DIFFUSION, HANGING DROP
Resolution 3.10 Å R-free 0.282
3L3O Staphylococcal Complement Inhibitor (SCIN) in complex with Human Complement Component C3c Deposited 2009-12-17 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 23–667（645 aa） Fragment：residues 23-667
Chain B 749–954（206 aa） Fragment：residues 749-954
Chain C 1321–1663（343 aa） Fragment：residues 1321-1663
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；277 K；Protein solution: 5mg/ml, 0.1M HEPES, 10% PEG 6000, 5% 2-Methyl-2,4-pentanediol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 3.40 Å R-free 0.271
3L3O Staphylococcal Complement Inhibitor (SCIN) in complex with Human Complement Component C3c Deposited 2009-12-17 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain D 23–667（645 aa） Fragment：residues 23-667
Chain E 749–954（206 aa） Fragment：residues 749-954
Chain F 1321–1663（343 aa） Fragment：residues 1321-1663
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；277 K；Protein solution: 5mg/ml, 0.1M HEPES, 10% PEG 6000, 5% 2-Methyl-2,4-pentanediol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 3.40 Å R-free 0.271
3L5N Staphylococcal Complement Inhibitor (SCIN) in complex with Human Complement Component C3b Deposited 2009-12-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 23–667（645 aa） Fragment：residues 23-667
Chain B 749–1663（915 aa） Fragment：residues 749-1663
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 MAN alpha-D-mannopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；293 K；Protein solution 5mg/ml, 0.1M HEPES-NaOH, 30%(v/v) Jeffamine ED-2001-HCl, pH 7.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 7.54 Å R-free 0.268
3NMS Staphylococcal Complement Inhibitor (SCIN) in complex with Human Complement C3c Deposited 2010-06-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 23–667（645 aa）
Chain B 749–954（206 aa）
Chain C 1321–1663（343 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；277 K；Protein solution: 5mg/ml, 0.1M HEPES, 10% PEG 6000, 5% 2-Methyl-2,4-pentanediol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 4.10 Å R-free 0.289
3OED The structure of the complex between complement receptor CR2 and its ligand complement fragment C3d Deposited 2010-08-12 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 996–1303（308 aa） Fragment：C3 (unp residues 996-1303)
Mutation：C1010A No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；100 mM HEPES, 20% Poly Ethylene Glycol 6000, 200 mM CaCl2, pH 7.0, VAPOR DIFFUSION, HANGING DROP
Resolution 3.16 Å R-free 0.259
3OED The structure of the complex between complement receptor CR2 and its ligand complement fragment C3d Deposited 2010-08-12 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 996–1303（308 aa） Fragment：C3 (unp residues 996-1303)
Mutation：C1010A No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；100 mM HEPES, 20% Poly Ethylene Glycol 6000, 200 mM CaCl2, pH 7.0, VAPOR DIFFUSION, HANGING DROP
Resolution 3.16 Å R-free 0.259
3OHX Molecular Basis for Complement Recognition and Inhibition Determined by Crystallographic Studies of the Staphylococcal Complement Inhibitor (SCIN) Bound to C3c and C3b Deposited 2010-08-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 23–667（645 aa） Fragment：Complement C3 beta chain
Chain B 749–954（206 aa） Fragment：;Complement C3 alpha' chain fragment 1 ;
Chain C 1321–1663（343 aa） Fragment：;Complement C3 alpha' chain fragment 2 ;
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；277 K；2.5mg/ml protein, 0.1M HEPES, 10% PEG6000, 5% 2-Methyl-2,4-pentanediol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 3.50 Å R-free 0.294
3OHX Molecular Basis for Complement Recognition and Inhibition Determined by Crystallographic Studies of the Staphylococcal Complement Inhibitor (SCIN) Bound to C3c and C3b Deposited 2010-08-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain D 23–667（645 aa） Fragment：Complement C3 beta chain
Chain E 749–954（206 aa） Fragment：;Complement C3 alpha' chain fragment 1 ;
Chain F 1321–1663（343 aa） Fragment：;Complement C3 alpha' chain fragment 2 ;
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；277 K；2.5mg/ml protein, 0.1M HEPES, 10% PEG6000, 5% 2-Methyl-2,4-pentanediol, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 277K
Resolution 3.50 Å R-free 0.294
3OXU Complement components factor H CCP19-20 and C3d in complex Deposited 2010-09-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 996–1303（308 aa） Fragment：UNP residues 996-1303
Mutation：C1010A GOL GLYCEROL × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.8；290 K；4% w/v PEG 8000, 0.1 M Tris HCl, pH 8.8, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Resolution 2.10 Å R-free 0.206
3OXU Complement components factor H CCP19-20 and C3d in complex Deposited 2010-09-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 996–1303（308 aa） Fragment：UNP residues 996-1303
Mutation：C1010A GOL GLYCEROL × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.8；290 K；4% w/v PEG 8000, 0.1 M Tris HCl, pH 8.8, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Resolution 2.10 Å R-free 0.206
3OXU Complement components factor H CCP19-20 and C3d in complex Deposited 2010-09-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain C 996–1303（308 aa） Fragment：UNP residues 996-1303
Mutation：C1010A GOL GLYCEROL × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.8；290 K；4% w/v PEG 8000, 0.1 M Tris HCl, pH 8.8, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Resolution 2.10 Å R-free 0.206
3RJ3 Complement components factor H CCP19-20 (S1191L mutant) and C3D in complex Deposited 2011-04-15 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 996–1303（308 aa） Fragment：UNP residues 996-1303
Not recorded GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；290 K；4% w/v PEG 8000, 0.1 M Tris HCl, pH 8.8, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Resolution 2.35 Å R-free 0.232
3RJ3 Complement components factor H CCP19-20 (S1191L mutant) and C3D in complex Deposited 2011-04-15 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 996–1303（308 aa） Fragment：UNP residues 996-1303
Not recorded GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；290 K；4% w/v PEG 8000, 0.1 M Tris HCl, pH 8.8, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Resolution 2.35 Å R-free 0.232
3RJ3 Complement components factor H CCP19-20 (S1191L mutant) and C3D in complex Deposited 2011-04-15 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain C 996–1303（308 aa） Fragment：UNP residues 996-1303
Not recorded GOL GLYCEROL × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；290 K；4% w/v PEG 8000, 0.1 M Tris HCl, pH 8.8, VAPOR DIFFUSION, HANGING DROP, temperature 290K
Resolution 2.35 Å R-free 0.232
3T4A Structure of a truncated form of Staphylococcal Complement Inhibitor B bound to human C3c at 3.4 Angstrom resolution Deposited 2011-07-25 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 23–667（645 aa） Fragment：C3c beta chain, UNP residues 23-667
Chain B 749–954（206 aa） Fragment：;C3c alpha' chain fragment 1, UNP residues 749-954 ;
Chain C 1321–1663（343 aa） Fragment：;C3c alpha' chain fragment 2, UNP residues 1321-1663 ;
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions pH 6.5；293 K；5mg/ml protein, 0.1M bis-Tris, 15% w/v PEG 3350, pH 6.5, vapor diffusion, hanging drop, temperature 293K
Resolution 3.40 Å R-free 0.270
3T4A Structure of a truncated form of Staphylococcal Complement Inhibitor B bound to human C3c at 3.4 Angstrom resolution Deposited 2011-07-25 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain D 23–667（645 aa） Fragment：C3c beta chain, UNP residues 23-667
Chain E 749–954（206 aa） Fragment：;C3c alpha' chain fragment 1, UNP residues 749-954 ;
Chain F 1321–1663（343 aa） Fragment：;C3c alpha' chain fragment 2, UNP residues 1321-1663 ;
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions pH 6.5；293 K；5mg/ml protein, 0.1M bis-Tris, 15% w/v PEG 3350, pH 6.5, vapor diffusion, hanging drop, temperature 293K
Resolution 3.40 Å R-free 0.270
4HW5 Crystal Structure of the Human C3a anaphylatoxin Deposited 2012-11-07 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 672–748（77 aa）
Not recorded SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；292 K；2-2.2 M ammonium sulfate with the pH ranging from 6 to 9 , VAPOR DIFFUSION, SITTING DROP, temperature 292K
Resolution 2.25 Å R-free 0.243
4HW5 Crystal Structure of the Human C3a anaphylatoxin Deposited 2012-11-07 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain B 672–748（77 aa）
Not recorded SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；292 K；2-2.2 M ammonium sulfate with the pH ranging from 6 to 9 , VAPOR DIFFUSION, SITTING DROP, temperature 292K
Resolution 2.25 Å R-free 0.243
4HW5 Crystal Structure of the Human C3a anaphylatoxin Deposited 2012-11-07 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 672–748（77 aa）
Chain B 672–748（77 aa）
Not recorded SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；292 K；2-2.2 M ammonium sulfate with the pH ranging from 6 to 9 , VAPOR DIFFUSION, SITTING DROP, temperature 292K
Resolution 2.25 Å R-free 0.243
4HWJ Crystal Structure of the Human C3a desArg anaphylatoxin Deposited 2012-11-08 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 672–747（76 aa）
Not recorded SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.5；292 K；0.1 M Tris pH 7.5-8.5, 25 % w/v PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 292K
Resolution 2.60 Å R-free 0.270
4I6O Crystal structure of chemically synthesized human anaphylatoxin C3a Deposited 2012-11-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric
Chain A 672–748（77 aa） Fragment：C3a anaphylatoxin (UNP residues 672-748)
Not recorded MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.5；277 K；VAPOR DIFFUSION, HANGING DROP, 1 uL 5 mg/mL lyophilized C3a in 2 mM hydrochloric acid + 1 uL reservoir (0.1 M Tris-HCl, 0.2 M ammonium phosphate monobasic, 49-51% v/v MPD, pH 8.5) against 500 uL reservoir, prepared at 277K, incubated at 281K for 96 hours, stored at 277K, rhomboid-shaped crystals appeared after 6 days and grew to a final size of 0.5 x 0.2 x 0.2 mm
Resolution 2.14 Å R-free 0.268
4M76 Integrin I domain of complement receptor 3 in complex with C3d Deposited 2013-08-12 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 994–1288（295 aa） Fragment：unp residues 994-1288
Mutation：C1010A, C144A, I332G NI NICKEL (II) ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7；298 K；PEG 3350, pH 7, vapor diffusion, hanging drop, temperature 298K
Resolution 2.80 Å R-free 0.242
4ONT Ternary host recognition complex of complement factor H, C3d, and sialic acid Deposited 2014-01-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 996–1303（308 aa） Fragment：UNP residues 996-1303
Mutation：C17A GOL GLYCEROL × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 9；293 K；0.1 M Tris-HCl, pH 9.0, 8% w/v PEG8000, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.15 Å R-free 0.223
4ONT Ternary host recognition complex of complement factor H, C3d, and sialic acid Deposited 2014-01-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 996–1303（308 aa） Fragment：UNP residues 996-1303
Mutation：C17A GOL GLYCEROL × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 9；293 K；0.1 M Tris-HCl, pH 9.0, 8% w/v PEG8000, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.15 Å R-free 0.223
4ONT Ternary host recognition complex of complement factor H, C3d, and sialic acid Deposited 2014-01-29 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Other combination Heteromer；Protein × 2 PDB declaration: dimeric
Chain C 996–1303（308 aa） Fragment：UNP residues 996-1303
Mutation：C17A GOL GLYCEROL × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 9；293 K；0.1 M Tris-HCl, pH 9.0, 8% w/v PEG8000, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 2.15 Å R-free 0.223
4ZH1 Complement factor H in complex with the GM1 glycan Deposited 2015-04-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 996–1303（308 aa）
Not recorded GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；293 K；0.1 M TRIS-HCL, PH 9.0, 8% W/V PRG 8000
Resolution 2.24 Å R-free 0.228
4ZH1 Complement factor H in complex with the GM1 glycan Deposited 2015-04-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Other combination Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 996–1303（308 aa）
Not recorded GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；293 K；0.1 M TRIS-HCL, PH 9.0, 8% W/V PRG 8000
Resolution 2.24 Å R-free 0.228
4ZH1 Complement factor H in complex with the GM1 glycan Deposited 2015-04-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Other combination Heteromer；Protein × 2 PDB declaration: dimeric
Chain C 996–1303（308 aa）
Not recorded GOL GLYCEROL × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION；293 K；0.1 M TRIS-HCL, PH 9.0, 8% W/V PRG 8000
Resolution 2.24 Å R-free 0.228
5FO7 Crystal Structure of Human Complement C3b at 2.8 Angstrom resolution Deposited 2015-11-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 23–667（645 aa） Fragment：RESIDUES 23-667
Chain B 749–1663（915 aa） Fragment：RESIDUES 749-1663
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 X-RAY DIFFRACTION
X-ray crystallization conditions 8% PEG 3350 35MM BIS-TRIS PH 5.5
Resolution 2.80 Å R-free 0.268
5FO8 Crystal Structure of Human Complement C3b in Complex with MCP (CCP1-4) Deposited 2015-11-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 23–667（645 aa） Fragment：UNP RESIDUES 23-667
Chain B 749–1663（915 aa） Fragment：UNP RESIDUES 749-1663
Not recorded EDO 1,2-ETHANEDIOL × 32 X-RAY DIFFRACTION
X-ray crystallization conditions 100MM AMMONIUM CITRATE 7% PEG 3350 5MM GLUTATHIONE 50MM BIS-TRIS PROPANE, PH 6.5
Resolution 2.40 Å R-free 0.219
5FO9 Crystal Structure of Human Complement C3b in Complex with CR1 (CCP15- 17) Deposited 2015-11-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain D 23–667（645 aa） Fragment：RESIDUES 23-667
Chain E 749–1663（915 aa） Fragment：CCP DOMAINS, RESIDUES 749-1663
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions 8% PEG 3350 35MM BIS-TRIS PH 5.5
Resolution 3.30 Å R-free 0.291
5FO9 Crystal Structure of Human Complement C3b in Complex with CR1 (CCP15- 17) Deposited 2015-11-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 23–667（645 aa） Fragment：RESIDUES 23-667
Chain B 749–1663（915 aa） Fragment：CCP DOMAINS, RESIDUES 749-1663
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions 8% PEG 3350 35MM BIS-TRIS PH 5.5
Resolution 3.30 Å R-free 0.291
5FOA Crystal Structure of Human Complement C3b in complex with DAF (CCP2-4) Deposited 2015-11-18 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 23–667（645 aa） Fragment：UNP RESIDUES 23-667
Chain B 749–1663（915 aa） Fragment：UNP RESIDUES 749-1663
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions 60MM MGCL2 30MM BIS-TRIS PH 5.5 6.5% PEG 3350 3% MESO-ERHYTROL
Resolution 4.19 Å R-free 0.307
5FOA Crystal Structure of Human Complement C3b in complex with DAF (CCP2-4) Deposited 2015-11-18 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain C 23–667（645 aa） Fragment：UNP RESIDUES 23-667
Chain D 749–1663（915 aa） Fragment：UNP RESIDUES 749-1663
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions 60MM MGCL2 30MM BIS-TRIS PH 5.5 6.5% PEG 3350 3% MESO-ERHYTROL
Resolution 4.19 Å R-free 0.307
5FOB Crystal Structure of Human Complement C3b in complex with Smallpox Inhibitor of Complement (SPICE) Deposited 2015-11-18 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 23–667（645 aa） Fragment：RESIDUES 23-667
Chain B 749–1663（915 aa） Fragment：CCP DOMAINS, RESIDUES 749-1663
Not recorded CL CHLORIDE ION × 5 GOL GLYCEROL × 24 NA SODIUM ION × 2 IOD IODIDE ION × 7 X-RAY DIFFRACTION
X-ray crystallization conditions 75MM AMMONIUM IODIDE, 3.5% PEG 3350
Resolution 2.60 Å R-free 0.230
5NBQ The structure of the tripartite complex between OspE, the C-terminal domains of factor H and C3dg Deposited 2017-03-02 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 994–1287（294 aa）
Mutation：A1153E, C1010A No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；20% PEG3350, 0.1 M HEPES pH 7.5, 0.2 M MgCl2 or 24% PEG3350, 0.1 M HEPES pH 7.5, 0.2 M MgCl2 or 16% PEG3350, Tris pH 8.5, 0.2 M ammonium acetate
Resolution 3.18 Å R-free 0.261
5NBQ The structure of the tripartite complex between OspE, the C-terminal domains of factor H and C3dg Deposited 2017-03-02 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain B 994–1287（294 aa）
Mutation：A1153E, C1010A No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；20% PEG3350, 0.1 M HEPES pH 7.5, 0.2 M MgCl2 or 24% PEG3350, 0.1 M HEPES pH 7.5, 0.2 M MgCl2 or 16% PEG3350, Tris pH 8.5, 0.2 M ammonium acetate
Resolution 3.18 Å R-free 0.261
5NBQ The structure of the tripartite complex between OspE, the C-terminal domains of factor H and C3dg Deposited 2017-03-02 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 3 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain C 994–1287（294 aa）
Mutation：A1153E, C1010A No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 7.5；293 K；20% PEG3350, 0.1 M HEPES pH 7.5, 0.2 M MgCl2 or 24% PEG3350, 0.1 M HEPES pH 7.5, 0.2 M MgCl2 or 16% PEG3350, Tris pH 8.5, 0.2 M ammonium acetate
Resolution 3.18 Å R-free 0.261
5O32 The structure of complement complex Deposited 2017-05-23 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 10 PDB declaration: decameric
Chain A 23–667（645 aa） Fragment：beta chain, UNP residues 23-667
Chain B 749–1663（915 aa） Fragment：alpha chain, UNP residues 749-1663
Chain E 23–667（645 aa） Fragment：beta chain, UNP residues 23-667
Chain F 749–1663（915 aa） Fragment：alpha chain, UNP residues 749-1663
Not recorded CA CALCIUM ION × 6 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 12 MLI MALONATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；291.15 K；60mM sodium malonate PH5.0 6% w/v PEG3350
Resolution 4.21 Å R-free 0.254
5O35 Structure of complement proteins complex Deposited 2017-05-23 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 23–667（645 aa）
Chain B 749–1663（915 aa）
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；291.15 K；60mM Ammonium sulfate, 6% w/v PEG3350
Resolution 4.20 Å R-free 0.246
6EHG complement component C3b in complex with a nanobody Deposited 2017-09-13 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 23–665（643 aa）
Chain B 749–1663（915 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293.15 K；12 mM Sodium Citrate pH 8, 28 mM Sodium Citrate pH 6.0, 12.25 % (w/v) PEG 2000 MME, 70 mM Imidazole pH 7, 60 mM Ammonium acetate, 70 mM Tris pH 8.5, 13.5 % (v/v) and (+/-)-2-Methyl-2,4-pentanediol
Resolution 2.65 Å
6RMT Crystal structure of disulphide-linked human C3d dimer Deposited 2019-05-07 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric
Chain A 996–1303（308 aa）
Chain B 996–1303（308 aa）
Not recorded CL CHLORIDE ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8；291 K；100 mM Tris pH 8, 200 mM NaCl, 24% PEG 4000
Resolution 2.00 Å R-free 0.200
6RMU Crystal structure of disulphide-linked human C3d dimer in complex with Staphylococcus aureus complement subversion protein Sbi-IV Deposited 2019-05-07 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 996–1303（308 aa）
Chain B 996–1303（308 aa）
Not recorded PEG DI(HYDROXYETHYL)ETHER × 1 EDO 1,2-ETHANEDIOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 8.07；291 K；0.2 M sodium citrate tribasic dihydrate, 20% PEG 3350.
Resolution 2.40 Å R-free 0.211
6RU5 human complement C3 in complex with the hC3Nb1 nanobody Deposited 2019-05-27 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 23–667（645 aa）
Chain B 672–1663（992 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；277 K；100 mM HEPES pH 7.2, 1.75 % (w/v) PEG8000
Resolution 3.90 Å
6RUR Structure of the SCIN stabilized C3bBb convertase bound to properdin Deposited 2019-05-29 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 12 PDB declaration: dodecameric
Chain A 23–667（645 aa）
Chain B 749–1663（915 aa）
Chain G 23–667（645 aa）
Chain H 749–1663（915 aa）
Not recorded MAN alpha-D-mannopyranose × 18 MG MAGNESIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.5；277 K；50 mM MgAcetate 50 mM Mes 6.5 5 % w/v PEG 10K
Resolution 6.00 Å R-free 0.272
6RUV Structure of the SCIN stabilized C3bBb convertase bound to Properdin and a the non-inhibitory nanobody hFPNb1 Deposited 2019-05-29 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 14 PDB declaration: tetradecameric
Chain A 23–667（645 aa）
Chain B 749–1663（915 aa）
Chain G 23–667（645 aa）
Chain H 749–1663（915 aa）
Not recorded MAN alpha-D-mannopyranose × 21 MG MAGNESIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 5.8；277 K；100 mM NaCl, 5 % (w/v) PEG4000, 10 mM MgCl2, 100 mM Sodium Cacodylate trihydrate pH 5.8.
Resolution 6.15 Å R-free 0.271
6S0B Crystal Structure of Properdin in complex with the CTC domain of C3/C3b Deposited 2019-06-14 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: trimeric
Chain C 1517–1663（147 aa）
Not recorded MAN alpha-D-mannopyranose × 8 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 5；291 K；Tacsimate, PEG 3350
Resolution 2.31 Å R-free 0.277
7AKK Structure of a complement factor-receptor complex Deposited 2020-10-01 Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 6 PDB declaration: hexameric
Chain A 749–1663（915 aa）
Chain B 23–667（645 aa）
Chain C 23–667（645 aa）
Chain E 749–1663（915 aa）
Not recorded GOL GLYCEROL × 3 K POTASSIUM ION × 2 MG MAGNESIUM ION × 2 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 8；295 K；100 mM Tris-HCl (pH 8.0), 8% (w/v) polyethylene glycol (PEG) 8000
Resolution 3.40 Å R-free 0.229
7BAG C3b in complex with CP40 Deposited 2020-12-15 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 23–667（645 aa）
Chain B 749–1663（915 aa）
Not recorded CA CALCIUM ION × 1 PEG DI(HYDROXYETHYL)ETHER × 5 ACM ACETAMIDE × 1 NH2 AMINO GROUP × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4；291 K；6.66% w/v polyethylene glycol 8000, 66.6 mM sodium chloride and 33.3 mM disodium phosphate/citric acid pH 4.0
Resolution 2.00 Å R-free 0.225
7NOZ Structure of the nanobody stablized properdin bound alternative pathway proconvertase C3b:FB:FP Deposited 2021-02-26 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 6 PDB declaration: hexameric
Chain A 23–667（645 aa）
Chain B 752–1663（912 aa）
Not recorded MAN alpha-D-mannopyranose × 6 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 MG MAGNESIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；293 K；0.05 M Na-acetate pH 5.3, 0.1 M Mg-formate,7% PEG5000 MME
Resolution 3.90 Å R-free 0.265
7PI6 Trypanosoma brucei ISG65 bound to human complement C3d Deposited 2021-08-19 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain B 996–1287（292 aa）
Not recorded GOL GLYCEROL × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；291 K；0.1 M MES pH 6, 0.2 M MgCl2, 20% PEG 6000 with sliver bullet HR2-996-55
Resolution 2.60 Å R-free 0.310
7PI6 Trypanosoma brucei ISG65 bound to human complement C3d Deposited 2021-08-19 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain D 996–1287（292 aa）
Not recorded GOL GLYCEROL × 2 PG0 2-(2-METHOXYETHOXY)ETHANOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；291 K；0.1 M MES pH 6, 0.2 M MgCl2, 20% PEG 6000 with sliver bullet HR2-996-55
Resolution 2.60 Å R-free 0.310
7QIV Structure of human C3b in complex with the EWE nanobody Deposited 2021-12-16 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 23–667（645 aa）
Chain B 749–1663（915 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7；292 K；112 mM Sodium Citrate pH 8, 28 mM Sodium Citrate pH 6.0, 12.25 % (w/v) PEG 2000 MME, 70 mM Imidazole pH 7, 60 mM Ammonium acetate, 70 mM TRIS pH 8.5, and 13.5 % (v/v) 2-Methyl-2,4-pentanediol
Resolution 2.80 Å R-free 0.275
7TV9 HUMAN COMPLEMENT COMPONENT C3B IN COMPLEX WITH APL-1030 Deposited 2022-02-04 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 23–667（645 aa）
Chain B 749–1663（915 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.8；293 K；100 mM HEPES, pH 7.8, 25% Poly(acrylic acid sodium salt) 5100
Resolution 3.40 Å R-free 0.328
7UE9 Structure of anti-C3d Fab(3d8b) in complex with C3d Deposited 2022-03-21 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain C 994–1303（310 aa）
Not recorded GOL GLYCEROL × 10 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 7.6；293 K；15% PEG 10,000, 0.1 M bicine pH 7.6
Resolution 1.75 Å R-free 0.201
7ZGJ Trypanosoma brucei gambiense ISG65 in complex with human complement component C3 Deposited 2022-04-03 Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 23–667（645 aa）
Chain B 672–1663（992 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.58 Å
7ZGK Trypanosoma brucei gambiense ISG65 in complex with human complement component C3b Deposited 2022-04-03 Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 23–667（645 aa）
Chain B 749–1663（915 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.59 Å
8ENU Structure of the C3bB proconvertase in complex with lufaxin Deposited 2022-09-30 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain G 23–667（645 aa）
Chain H 749–1663（915 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 4 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.22 Å
8EOK Structure of the C3bB proconvertase in complex with lufaxin and factor Xa Deposited 2022-10-03 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 6 PDB declaration: hexameric
Chain G 23–667（645 aa）
Chain H 749–1663（915 aa）
Not recorded MG MAGNESIUM ION × 1 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.53 Å
8HK2 C3aR-Gi-C3a protein complex Deposited 2022-11-24 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain D 672–748（77 aa）
Not recorded CLR CHOLESTEROL × 5 PLM PALMITIC ACID × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.2
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.90 Å
8I9L Structure of C3a-C3aR-Go complex (Composite map) Deposited 2023-02-07 Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain D 672–748（77 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.18 Å
8OQ3 Structure of methylamine treated human complement C3 Deposited 2023-04-11 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain A 23–1663（1641 aa）
Chain D 23–1663（1641 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 ELECTRON MICROSCOPY
cryo-EM buffer pH 7
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.90 Å
8OVB Human Complement C3b in complex with Trypanosoma brucei ISG65. Deposited 2023-04-25 Different construct Different mutation/modification Different oligomeric state Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 23–664（642 aa）
Chain B 749–1663（915 aa）
Not recorded No recorded non-water small molecule ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.40 Å
8UH2 Complex of C3b with the inhibitor albicin Deposited 2023-10-06 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric
Chain A 23–664（642 aa）
Chain B 749–1663（915 aa）
Chain G 23–664（642 aa）
Chain H 749–1663（915 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 4 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.59 Å
8UIN Structure of the C3bBb-albicin complex Deposited 2023-10-10 Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 8 PDB declaration: octameric
Chain A 23–664（642 aa）
Chain B 749–1663（915 aa）
Chain G 23–664（642 aa）
Chain H 749–1663（915 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4；10 mM Hepes pH 7.4, 150 mM NaCl, 5 mM MgCl2
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.86 Å
9N1Z Structure of C3d Bound to a Fragment of FHR-2 Deposited 2025-01-27 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain A 996–1287（292 aa）
Mutation：C1010A SO4 SULFATE ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；293 K；0.075 M HEPES [PH 7.5] 1.2 M Ammonium Sulfate
Resolution 2.31 Å R-free 0.227
9N1Z Structure of C3d Bound to a Fragment of FHR-2 Deposited 2025-01-27 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric
Chain C 996–1287（292 aa）
Mutation：C1010A SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；293 K；0.075 M HEPES [PH 7.5] 1.2 M Ammonium Sulfate
Resolution 2.31 Å R-free 0.227
9N20 Structure of C3d Bound to a Fragment of FHR-2 and S. aureus Efb-C Deposited 2025-01-27 Different construct Different mutation/modification Different oligomeric state Different experimental method Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric
Chain A 996–1287（292 aa） Fragment：residues 996-1287
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；293 K；0.1 M imidazole [pH 6.7] 12% (w/v) peg-20k
Resolution 3.30 Å R-free 0.214
9QK2 Structure of the Complement classical and lectin pathway C3 convertase in complex with substrate C3 Deposited 2025-03-19 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Protein heterocomplex Heteromer；Protein × 7 PDB declaration: heptameric
Chain F 1–1663（1663 aa）
Chain G 1–1663（1663 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 8 MG MAGNESIUM ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.4
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.50 Å
9T3Y Cryo-EM structure of alphaM/beta2:C3d-anti-CR3-Nb headpiece complex (HPO2 3D class reconstruction) Deposited 2025-10-30 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: trimeric
Chain C 995–1289（295 aa）
Not recorded CA CALCIUM ION × 5 MN MANGANESE (II) ION × 2 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE；0.02 % w/v CHAPS added to sample just before vitrification
Resolution 3.44 Å
9U61 CP/MBL pathways C3 convertase C4b2a and C3 complex Deposited 2025-03-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric
Chain C 1–1663（1663 aa）
Chain D 1–1663（1663 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 4 NI NICKEL (II) ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.10 Å
9U62 AP pathways C3 convertase C3bBbP and C3 complex Deposited 2025-03-22 Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics Assembly 1 Other combination Heteromer；Protein × 5 PDB declaration: pentameric
Chain C 1–1663（1663 aa）
Chain D 1–1663（1663 aa）
Chain E 1–1663（1663 aa）
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 5 NI NICKEL (II) ION × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 8
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 2.70 Å

74 other PDB entries and 117 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name CO3_HUMAN
Isoform —
PDB entities 1, 2, 3, 4
Chains and sequence ranges Author chain A； PDBConstruct 1–196； UniProt 32–227 Author chain B； PDBConstruct 1–316； UniProt 350–665 Author chain C； PDBConstruct 1–49； UniProt 686–734 Author chain D； PDBConstruct 1–902； UniProt 762–1663

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

SAXS profile for 9rbo

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 9rbo
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2. Structure Basics 2. Structure Basics

Entry ID entry_id9rbo
Deposition date deposition_date2025-05-27
Structure title titleA cryo-EM structure of native C3 protein in a compact conformation.
Keywords keywordsInhibition Complement Structural Nanoparticle, IMMUNE SYSTEM; IMMUNE SYSTEM
Experimental Method methodELECTRON MICROSCOPY
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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier42.54 Å
Radius of gyration Rg (electron density) rg_electron42.00 Å
Forward intensity I(0) i0403137000.00
Molecular weight molecular_weight165070.0 kDa
Excluded volume excluded_volume207080 ų
Envelope volume envelope_volume284790 ų
Hydration-shell volume shell_volume57699 ų
Envelope diameter envelope_diameter147.0 Å
Shell Rg shell_rg46.17 Å
Envelope Rg envelope_rg41.25 Å
Shape Rg shape_rg42.00 Å
Total Rg total_rg42.23 Å
Total atoms total_atoms11606
Residues n_residues1463
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 Å−1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3
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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax144.2 Å
Rg (real space) rg_real42.59 Å
Rg uncertainty (real space) rg_real_error1.50 Å
I(0) (real space) i0_real4.0310e+08
I(0) uncertainty (real space) i0_real_error7.2780e+06
Rg (reciprocal space) rg_reciprocal42.54 Å
I(0) (reciprocal space) i0_reciprocal403100000.0000
Solution quality estimate total_estimate0.8788
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary46.8 Å
Skewness Skewness skewness0.332
Kurtosis Kurtosis kurtosis-0.429
Angular range angular_range— – 0.1850 Å−1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha24890000.0000
Real-space data points n_real_points38
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.866; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.993; Smooth: 0.828
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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (4)

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8. Citations (1)

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9. Files and Curves (10)