3prx

Structure of Complement C5 in Complex with CVF and SSL7

Method: X-RAY DIFFRACTION D_max: 213.0 Å Quality: GOOD

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1. Protein Identity and Related Structures Protein Identity & Related Structures

Complement C5

OrganismNot specified

State in the Current Structure

Assembly	Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Associated Components	Method and Experimental Conditions	Structure Quality
1	Other combination Heteromer Protein × 3 其他Polymer 2 PDB declaration: trimeric（3） Consistent with protein copy count	Chain A； UniProt 1–1676	Not recorded	Cobra venom factor × 1 （Q91132） Superantigen-like protein 7 × 1 （D3JIB2） 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 2 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1	X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION；pH 7.4；292 K；3 M sodium malonate, pH 7.4, VAPOR DIFFUSION, temperature 292K	Resolution 4.30 Å R-free 0.261
2	Other combination Heteromer Protein × 3 其他Polymer 2 PDB declaration: trimeric（3） Consistent with protein copy count	Chain C； UniProt 1–1676	Not recorded	Cobra venom factor × 1 （Q91132） Superantigen-like protein 7 × 1 （D3JIB2） 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 2 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1	X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION；pH 7.4；292 K；3 M sodium malonate, pH 7.4, VAPOR DIFFUSION, temperature 292K	Resolution 4.30 Å R-free 0.261

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 3PRX	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
1CFA SOLUTION STRUCTURE OF A SEMI-SYNTHETIC C5A RECEPTOR ANTAGONIST AT PH 5.2, 303K, NMR, 20 STRUCTURES Deposited 1996-09-21	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 × 2 PDB declaration: dimeric	Chain A 679–747（69 aa） Fragment：RESIDUES 1 - 71	Mutation：Q71C	No recorded non-water small molecule	SOLUTION NMR NMR measurement conditions pH 5.2；303 K	Resolution not provided
1KJS NMR SOLUTION STRUCTURE OF C5A AT PH 5.2, 303K, 20 STRUCTURES Deposited 1997-01-09	Different construct 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 679–751（73 aa）	Not recorded	No recorded non-water small molecule	SOLUTION NMR NMR measurement conditions pH 5.2；303 K	Resolution not provided
1XWE NMR Structure of C345C (NTR) domain of C5 of complement Deposited 2004-10-30	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 1530–1676（147 aa） Fragment：C345C domain	Mutation：F1613A	No recorded non-water small molecule	SOLUTION NMR NMR measurement conditions pH 6；303 K；Ionic strength (raw mmCIF value) 20mM Na phospahte; 100mM NaCl；Pressure ambient NMR sample composition 0.5-1.0mM C5-C345C; U-15N,13C; 20mM Na phosphate buffer; 100mM NaCl; 5uM EDTA; pH 6 \| 95% H2O/5% D2O	Resolution not provided
3CU7 Human Complement Component 5 Deposited 2008-04-16	Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Monomer；Protein × 1 PDB declaration: monomeric	Chain A 1–1676（1676 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 CD CADMIUM ION × 5	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.8；277 K；100mM NaCl, 1.5-3mM MES pH 5.5, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 277K	Resolution 3.10 Å R-free 0.281
3CU7 Human Complement Component 5 Deposited 2008-04-16	Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Other combination Monomer；Protein × 1 PDB declaration: monomeric	Chain B 1–1676（1676 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 CD CADMIUM ION × 4	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.8；277 K；100mM NaCl, 1.5-3mM MES pH 5.5, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 277K	Resolution 3.10 Å R-free 0.281
3CU7 Human Complement Component 5 Deposited 2008-04-16	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 3 Other combination Homooligomer；Protein × 2 PDB declaration: dimeric	Chain A 1–1676（1676 aa） Chain B 1–1676（1676 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 2 CD CADMIUM ION × 9	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.8；277 K；100mM NaCl, 1.5-3mM MES pH 5.5, pH 6.8, VAPOR DIFFUSION, HANGING DROP, temperature 277K	Resolution 3.10 Å R-free 0.281
3HQA Crystal structure of human desarg-C5A Deposited 2009-06-05	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 679–750（72 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.8；298 K；2.4 M sodium chloride, pH 4.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K	Resolution 2.59 Å R-free 0.253
3HQA Crystal structure of human desarg-C5A Deposited 2009-06-05	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain B 679–750（72 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.8；298 K；2.4 M sodium chloride, pH 4.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K	Resolution 2.59 Å R-free 0.253
3HQA Crystal structure of human desarg-C5A Deposited 2009-06-05	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 3 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric	Chain A 679–750（72 aa） Chain B 679–750（72 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.8；298 K；2.4 M sodium chloride, pH 4.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K	Resolution 2.59 Å R-free 0.253
3HQB Crystal structure of human desarg-C5A Deposited 2009-06-05	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 679–750（72 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.8；298 K；2.4 M sodium chloride, pH 4.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K	Resolution 3.30 Å R-free 0.307
3HQB Crystal structure of human desarg-C5A Deposited 2009-06-05	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain B 679–750（72 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.8；298 K；2.4 M sodium chloride, pH 4.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K	Resolution 3.30 Å R-free 0.307
3HQB Crystal structure of human desarg-C5A Deposited 2009-06-05	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 3 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric	Chain A 679–750（72 aa） Chain B 679–750（72 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 4.8；298 K；2.4 M sodium chloride, pH 4.8, VAPOR DIFFUSION, HANGING DROP, temperature 298K	Resolution 3.30 Å R-free 0.307
3KLS Structure of complement C5 in complex with SSL7 Deposited 2009-11-09	Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 1–1676（1676 aa）	Not recorded	CD CADMIUM ION × 5 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；pH 6.2；277 K；Reservoir contains 50mM MgAc2, 50 mM MES pH 6.2, mixed 1:1 with protein, VAPOR DIFFUSION, temperature 277K	Resolution 3.60 Å R-free 0.263
3KLS Structure of complement C5 in complex with SSL7 Deposited 2009-11-09	Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Other combination Heteromer；Protein × 2 PDB declaration: dimeric	Chain B 1–1676（1676 aa）	Not recorded	CD CADMIUM ION × 4 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；pH 6.2；277 K；Reservoir contains 50mM MgAc2, 50 mM MES pH 6.2, mixed 1:1 with protein, VAPOR DIFFUSION, temperature 277K	Resolution 3.60 Å R-free 0.263
3KM9 Structure of complement C5 in complex with the C-terminal beta-grasp domain of SSL7 Deposited 2009-11-10	Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 1–1676（1676 aa）	Not recorded	CD CADMIUM ION × 3 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；pH 6.2；277 K；Reservoir contains 50mM MgAc2, 50mM MES pH 6.2. Mixed 1:1 with concentrated protein, VAPOR DIFFUSION, temperature 277K	Resolution 4.20 Å R-free 0.297
3KM9 Structure of complement C5 in complex with the C-terminal beta-grasp domain of SSL7 Deposited 2009-11-10	Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Other combination Heteromer；Protein × 2 PDB declaration: dimeric	Chain B 1–1676（1676 aa）	Not recorded	CD CADMIUM ION × 2 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；pH 6.2；277 K；Reservoir contains 50mM MgAc2, 50mM MES pH 6.2. Mixed 1:1 with concentrated protein, VAPOR DIFFUSION, temperature 277K	Resolution 4.20 Å R-free 0.297
3PVM Structure of Complement C5 in Complex with CVF Deposited 2010-12-07	Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 1–1676（1676 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3	X-RAY DIFFRACTION mmCIF provides none of the parsed conditions	Resolution 4.30 Å R-free 0.262
3PVM Structure of Complement C5 in Complex with CVF Deposited 2010-12-07	Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain C 1–1676（1676 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3	X-RAY DIFFRACTION mmCIF provides none of the parsed conditions	Resolution 4.30 Å R-free 0.262
4A5W Crystal structure of C5b6 Deposited 2011-10-28	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 19–673（655 aa） Chain A 752–1676（925 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 4 CA CALCIUM ION × 1 FUC alpha-L-fucopyranose × 1 MAN alpha-D-mannopyranose × 3	X-RAY DIFFRACTION X-ray crystallization conditions pH 7.8；167 MM HEPES-NAOH PH7.8	Resolution 3.50 Å R-free 0.270
4E0S Crystal Structure of C5b-6 Deposited 2012-03-05	Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 1–1676（1676 aa）	Not recorded	NA SODIUM ION × 1 CA CALCIUM ION × 1 MAN alpha-D-mannopyranose × 4	X-RAY DIFFRACTION X-ray crystallization conditions pH 7.6；298 K；0.08M lithium chloride, 0.01M imidazole-HCl, pH 7.6, SMALL TUBES, temperature 298K	Resolution 4.21 Å R-free 0.278
4P39 Crystal structure of the human C5aR antagonist C5a-A8 Deposited 2014-03-06	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain A 678–747（70 aa） Fragment：UNP residues 678-743	Mutation：C704R	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；277 K；20% 2-propanol, 20% PEG 4000, 0.1 M Na citrate pH 5.6	Resolution 2.40 Å R-free 0.238
4P39 Crystal structure of the human C5aR antagonist C5a-A8 Deposited 2014-03-06	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain B 678–747（70 aa） Fragment：UNP residues 678-743	Mutation：C704R	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；277 K；20% 2-propanol, 20% PEG 4000, 0.1 M Na citrate pH 5.6	Resolution 2.40 Å R-free 0.238
4P39 Crystal structure of the human C5aR antagonist C5a-A8 Deposited 2014-03-06	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 3 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain C 678–747（70 aa） Fragment：UNP residues 678-743	Mutation：C704R	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；277 K；20% 2-propanol, 20% PEG 4000, 0.1 M Na citrate pH 5.6	Resolution 2.40 Å R-free 0.238
4P39 Crystal structure of the human C5aR antagonist C5a-A8 Deposited 2014-03-06	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 4 Protein monomer Monomer；Protein × 1 PDB declaration: monomeric	Chain D 678–747（70 aa） Fragment：UNP residues 678-743	Mutation：C704R	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；277 K；20% 2-propanol, 20% PEG 4000, 0.1 M Na citrate pH 5.6	Resolution 2.40 Å R-free 0.238
4P39 Crystal structure of the human C5aR antagonist C5a-A8 Deposited 2014-03-06	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 5 Protein homooligomer Homooligomer；Protein × 4 PDB declaration: tetrameric	Chain A 678–747（70 aa） Fragment：UNP residues 678-743 Chain B 678–747（70 aa） Fragment：UNP residues 678-743 Chain C 678–747（70 aa） Fragment：UNP residues 678-743 Chain D 678–747（70 aa） Fragment：UNP residues 678-743	Mutation：C704R Mutation：C704R Mutation：C704R Mutation：C704R	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；277 K；20% 2-propanol, 20% PEG 4000, 0.1 M Na citrate pH 5.6	Resolution 2.40 Å R-free 0.238
4P39 Crystal structure of the human C5aR antagonist C5a-A8 Deposited 2014-03-06	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 6 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric	Chain A 678–747（70 aa） Fragment：UNP residues 678-743 Chain D 678–747（70 aa） Fragment：UNP residues 678-743	Mutation：C704R Mutation：C704R	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；277 K；20% 2-propanol, 20% PEG 4000, 0.1 M Na citrate pH 5.6	Resolution 2.40 Å R-free 0.238
4P39 Crystal structure of the human C5aR antagonist C5a-A8 Deposited 2014-03-06	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 7 Protein homooligomer Homooligomer；Protein × 2 PDB declaration: dimeric	Chain B 678–747（70 aa） Fragment：UNP residues 678-743 Chain C 678–747（70 aa） Fragment：UNP residues 678-743	Mutation：C704R Mutation：C704R	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 5.6；277 K；20% 2-propanol, 20% PEG 4000, 0.1 M Na citrate pH 5.6	Resolution 2.40 Å R-free 0.238
4UU9 Crystal structure of the human c5a in complex with MEDI7814 a neutralising antibody Deposited 2014-07-25	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric	Chain C 678–751（74 aa） Fragment：C5A	Not recorded	SO4 SULFATE ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions 20% PEG10K, 8% ETHYLENE GLYCOL, 100MM HEPES PH 7.5	Resolution 2.12 Å R-free 0.202
4UU9 Crystal structure of the human c5a in complex with MEDI7814 a neutralising antibody Deposited 2014-07-25	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric	Chain D 678–751（74 aa） Fragment：C5A	Not recorded	SO4 SULFATE ION × 3	X-RAY DIFFRACTION X-ray crystallization conditions 20% PEG10K, 8% ETHYLENE GLYCOL, 100MM HEPES PH 7.5	Resolution 2.12 Å R-free 0.202
5B4P Complex structure of human C5a and its binding repebody Deposited 2016-04-12	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain B 678–751（74 aa）	Not recorded	1PE PENTAETHYLENE GLYCOL × 2 SO4 SULFATE ION × 4	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；293 K；Sodium acetate, PEG 400, ammonium sulfate	Resolution 2.40 Å R-free 0.310
5B4P Complex structure of human C5a and its binding repebody Deposited 2016-04-12	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain D 678–751（74 aa）	Not recorded	SO4 SULFATE ION × 4	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；293 K；Sodium acetate, PEG 400, ammonium sulfate	Resolution 2.40 Å R-free 0.310
5B71 Crystal structure of complement C5 in complex with SKY59 Deposited 2016-06-03	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric	Chain E 20–124（105 aa） Fragment：UNP RESIDUES 20-124	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；277 K；0.2M magnesium formate dehydrate, 15.0% w/v polyethylene glycol 3350, 20% v/v glycerol as cryoprotectant	Resolution 2.11 Å R-free 0.285
5B71 Crystal structure of complement C5 in complex with SKY59 Deposited 2016-06-03	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 3 PDB declaration: trimeric	Chain F 20–124（105 aa） Fragment：UNP RESIDUES 20-124	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；277 K；0.2M magnesium formate dehydrate, 15.0% w/v polyethylene glycol 3350, 20% v/v glycerol as cryoprotectant	Resolution 2.11 Å R-free 0.285
5HCC Ternary complex of human Complement C5 with Ornithodoros moubata OmCI and Dermacentor andersoni RaCI3. Deposited 2016-01-04	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 679–1676（998 aa） Fragment：UNP Residues 679-1676 Chain B 19–674（656 aa） Fragment：UNP Residues 19-674	Not recorded	EDO 1,2-ETHANEDIOL × 7 CYS CYSTEINE × 1 DIO 1,4-DIETHYLENE DIOXIDE × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 9；294 K；10% PEG 20K, 2% v/v 1,4 Dioxane, 0.1 M Bicine pH 9.0	Resolution 2.59 Å R-free 0.267
5HCD Ternary complex of human Complement C5 with Ornithodoros moubata OmCI and Rhipicephalus microplus RaCI2 Deposited 2016-01-04	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 679–1676（998 aa） Fragment：UNP Residues 679-1676 Chain B 19–674（656 aa） Fragment：UNP Residues 19-674	Not recorded	CYS CYSTEINE × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 9；294 K；10% (w/v) PEG 20K, 2%(v/v)1,4 Dioxane, 0.1M Bicine pH 9.0	Resolution 2.98 Å R-free 0.282
5HCE Ternary complex of human Complement C5 with Ornithodoros moubata OmCI and Rhipicephalus appendiculatus RaCI1 Deposited 2016-01-04	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 679–1676（998 aa） Fragment：UNP Residues 679-1676 Chain B 19–674（656 aa） Fragment：UNP Residues 19-674	Not recorded	CYS CYSTEINE × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 9；294 K；10% PEG 6K, 0.1 M Bicine pH 9.0	Resolution 3.12 Å R-free 0.281
5I5K Structure of complement C5 in complex with eculizumab Deposited 2016-02-15	Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 3 PDB declaration: trimeric	Chain B 1–1676（1676 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；277.15 K；0.1 M Imidazole pH 6.2 4% v/v Tacsimate pH 7 8% PEG 3350	Resolution 4.20 Å R-free 0.244
5I5K Structure of complement C5 in complex with eculizumab Deposited 2016-02-15	Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Other combination Heteromer；Protein × 3 PDB declaration: trimeric	Chain A 1–1676（1676 aa）	Not recorded	No recorded non-water small molecule	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；277.15 K；0.1 M Imidazole pH 6.2 4% v/v Tacsimate pH 7 8% PEG 3350	Resolution 4.20 Å R-free 0.244
6H03 OPEN CONFORMATION OF THE MEMBRANE ATTACK COMPLEX Deposited 2018-07-06	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 × 24 PDB declaration: 24-meric	Chain A 19–673（655 aa） Chain A 752–1676（925 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 37	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 5.60 Å
6H04 Closed conformation of the Membrane Attack Complex Deposited 2018-07-06	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 × 24 PDB declaration: 24-meric	Chain A 19–673（655 aa） Chain A 752–1676（925 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 38	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 5.60 Å
6RPT Structure of tick complement inhibitor CirpT1 complexed with macroglobubulin domain 4 of human complement C5 Deposited 2019-05-14	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain E 348–460（113 aa）	Not recorded	GOL GLYCEROL × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；284.15 K；0.02 M Na2PO4/K2PO4, 20 % w/v PEG3350	Resolution 2.70 Å R-free 0.272
6RPT Structure of tick complement inhibitor CirpT1 complexed with macroglobubulin domain 4 of human complement C5 Deposited 2019-05-14	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 348–460（113 aa）	Not recorded	GOL GLYCEROL × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；284.15 K；0.02 M Na2PO4/K2PO4, 20 % w/v PEG3350	Resolution 2.70 Å R-free 0.272
6RPT Structure of tick complement inhibitor CirpT1 complexed with macroglobubulin domain 4 of human complement C5 Deposited 2019-05-14	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 3 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain C 348–460（113 aa）	Not recorded	GOL GLYCEROL × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；284.15 K；0.02 M Na2PO4/K2PO4, 20 % w/v PEG3350	Resolution 2.70 Å R-free 0.272
6RQJ Structure of human complement C5 complexed with tick inhibitors OmCI, RaCI1 and CirpT1 Deposited 2019-05-15	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 × 5 PDB declaration: pentameric	Chain A 678–1676（999 aa） Chain B 19–673（655 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
7AD6 Crystal structure of human complement C5 in complex with the K92 bovine knob domain peptide. Deposited 2020-09-14	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 A 1–1676（1676 aa） Chain B 1–1676（1676 aa）	Not recorded	EDO 1,2-ETHANEDIOL × 3 CYS CYSTEINE × 1 TRS 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；296 K；0.1 M bicine/Trizma (pH 8.5), 10 % (w/v) PEG 8000, 20 % (v/v) ethylene glycol, 30 mM sodium fluoride, 30 mM sodium bromide and 30 mM sodium iodide.	Resolution 2.75 Å R-free 0.254
7AD7 Crystal structure of human complement C5 in complex with the K8 bovine knob domain peptide. Deposited 2020-09-14	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 A 1–1676（1676 aa） Chain B 1–1676（1676 aa）	Not recorded	EOH ETHANOL × 4 MHA (CARBAMOYLMETHYL-CARBOXYMETHYL-AMINO)-ACETIC ACID × 1 MPD (4S)-2-METHYL-2,4-PENTANEDIOL × 2 CYS CYSTEINE × 1 TAM TRIS(HYDROXYETHYL)AMINOMETHANE × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；296 K；0.1M ADA, 14% ethanol.	Resolution 2.30 Å R-free 0.234
7NYC cryoEM structure of 3C9-sMAC Deposited 2021-03-22	Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 9 PDB declaration: nonameric	Chain A 19–1676（1658 aa）	Not recorded	MAN alpha-D-mannopyranose × 7 CA CALCIUM ION × 3 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 4 FUC alpha-L-fucopyranose × 1	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.54 Å
7NYD cryoEM structure of 2C9-sMAC Deposited 2021-03-22	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 19–1676（1658 aa）	Not recorded	MAN alpha-D-mannopyranose × 6 CA CALCIUM ION × 4 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 FUC alpha-L-fucopyranose × 1	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.27 Å
7OP0 Crystal structure of complement C5 in complex with chemically synthesized K92 knob domain. Deposited 2021-05-28	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 A 678–1676（999 aa） Chain B 19–675（657 aa） Fragment：beta chain, UNP residues 1-675	Not recorded	EDO 1,2-ETHANEDIOL × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；291 K；0.1 M bicine/Trizma (pH 8.5), 10 % (w/v) PEG 8000, 20 % (v/v) ethylene glycol, 30 mM sodium fluoride, 30 mM sodium bromide, 30 mM sodium iodide.	Resolution 2.57 Å R-free 0.264
7Y64 Cryo-EM structure of C5a-bound C5aR1 in complex with Gi protein Deposited 2022-06-18	Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain E 678–751（74 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 2.90 Å
8AYH Structure of Complement C5 in Complex with small molecule inhibitor and CVF Deposited 2022-09-02	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 678–1676（999 aa） Chain C 19–675（657 aa） Fragment：beta chain, UNP residues 1-675	Not recorded	H1H 5-methoxy-2-[[(1~{S})-1-(2-methoxyphenyl)ethyl]carbamoylamino]-4-(4-methylpentoxy)benzoic acid × 1 MG MAGNESIUM ION × 1	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；50mM HEPES pH 7.5 100mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.35 Å
8B0F CryoEM structure of C5b8-CD59 Deposited 2022-09-07	Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Other combination Heteromer；Protein × 7 PDB declaration: heptameric	Chain A 1–1676（1676 aa）	Not recorded	CA CALCIUM ION × 2 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.00 Å
8B0G 2C9, C5b9-CD59 structure Deposited 2022-09-07	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 1–1676（1676 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4；20 mM HEPES pH 7.4, 120 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.30 Å
8B0H 2C9, C5b9-CD59 cryoEM structure Deposited 2022-09-07	Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 9 PDB declaration: nonameric	Chain A 1–1676（1676 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4；20 mM HEPES pH 7.4, 120 mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.30 Å
8CML Cryo-EM structure of complement C5 in complex with nanobodies UNbC5-1 and UNbC5-2 Deposited 2023-02-20	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 B 678–1676（999 aa） Chain E 19–673（655 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4；1x PBS cryo-EM vitrification conditions Cryogen ETHANE；Blot 4 seconds at blot force 1	Resolution 3.60 Å
8COE complement C5 in complex with the LCP0195 nanobody Deposited 2023-02-28	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 678–1676（999 aa） Chain C 19–673（655 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；292 K；0.025 M succinic acid pH 7.0 and 3.75% w/v polyethylene glycol 3350.	Resolution 4.20 Å R-free 0.269
8HK5 C5aR1-Gi-C5a protein complex Deposited 2022-11-24	Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 5 PDB declaration: pentameric	Chain B 678–751（74 aa）	Not recorded	PLM PALMITIC ACID × 2	ELECTRON MICROSCOPY cryo-EM buffer pH 7.2 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.00 Å
8HQC Structure of a GPCR-G protein in complex with a natural peptide agonist Deposited 2022-12-13	Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain D 678–751（74 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.89 Å
8IA2 Structure of C5a bound human C5aR1 in complex with Go (Composite map) Deposited 2023-02-07	Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain D 678–751（74 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.21 Å
8JZZ Structure of human C5a-desArg bound human C5aR1 in complex with Go Deposited 2023-07-06	Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 6 PDB declaration: hexameric	Chain D 678–751（74 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.31 Å
9KX6 Structure of human C5a-desArg bound mouse C5aR1 in complex with Go Deposited 2024-12-06	Different construct Different oligomeric state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics	Assembly 1 Insufficient information Heteromer；Protein × 6 PDB declaration: hexameric	Chain D 678–750（73 aa）	Not recorded	No recorded non-water small molecule	ELECTRON MICROSCOPY cryo-EM buffer pH 7.4 cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.11 Å
9Y6C X-ray structure analysis of human Complement Component 5 TE domain in complex with the peptide Ra30303 Deposited 2025-09-08	Different construct Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain A 982–1305（324 aa）	Not recorded	GOL GLYCEROL × 1 8VH 1,3-dimethylbenzene × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION；277 K；Proteros	Resolution 2.00 Å R-free 0.253

41 other PDB entries and 62 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	CO5_HUMAN
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 1–1676； UniProt 1–1676 Author chain C； PDBConstruct 1–1676； UniProt 1–1676

Cobra venom factor

OrganismNot specified

UniProt Q91132

State in the Current Structure

Assembly	Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Associated Components	Method and Experimental Conditions	Structure Quality
1	Other combination Heteromer Protein × 3 其他Polymer 2 PDB declaration: trimeric（3） Consistent with protein copy count	Chain B； UniProt 1–1642	Not recorded	Complement C5 × 1 （P01031） Superantigen-like protein 7 × 1 （D3JIB2） 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 2 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1	X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION；pH 7.4；292 K；3 M sodium malonate, pH 7.4, VAPOR DIFFUSION, temperature 292K	Resolution 4.30 Å R-free 0.261
2	Other combination Heteromer Protein × 3 其他Polymer 2 PDB declaration: trimeric（3） Consistent with protein copy count	Chain D； UniProt 1–1642	Not recorded	Complement C5 × 1 （P01031） Superantigen-like protein 7 × 1 （D3JIB2） 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 2 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1	X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION；pH 7.4；292 K；3 M sodium malonate, pH 7.4, VAPOR DIFFUSION, temperature 292K	Resolution 4.30 Å R-free 0.261

Other States of the Same Protein in the Database

Other PDB	Difference from Current Entry 3PRX	Assembly / Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Non-polymers	Method and Experimental Conditions	Structure Quality
3FRP Crystal Structure of Cobra Venom Factor, a Co-factor for C3- and C5 convertase CVFBb Deposited 2009-01-08	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein homooligomer Homooligomer；Protein × 3 PDB declaration: trimeric	Chain A 23–649（627 aa） Chain B 1264–1642（379 aa） Chain G 733–984（252 aa）	Not recorded	CA CALCIUM ION × 1	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP；pH 6.8；293 K；13% PEG 3350, 10 mM MES pH 6.8, 5 mM CaCl2, 200 mM NH4Cl, VAPOR DIFFUSION, HANGING DROP, temperature 293K	Resolution 2.61 Å R-free 0.297
3HRZ Cobra Venom Factor (CVF) in complex with human factor B Deposited 2009-06-10	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 23–649（627 aa） Fragment：residues 23-649 Chain B 733–984（252 aa） Fragment：residues 733-984 Chain C 1264–1642（379 aa） Fragment：residues 1264-1642	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 MG MAGNESIUM ION × 2 K POTASSIUM ION × 1 P6G HEXAETHYLENE GLYCOL × 2 PO4 PHOSPHATE ION × 5	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 6.5；291 K；PEG 3350, PEG 400, Na/K Phosphate, Bis-Tris propane, pH 6.5, VAPOR DIFFUSION, SITTING DROP, temperature 291K	Resolution 2.20 Å R-free 0.226
3HS0 Cobra Venom Factor (CVF) in complex with human factor B Deposited 2009-06-10	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 F 23–649（627 aa） Fragment：residues 23-649 Chain G 733–984（252 aa） Fragment：residues 733-984 Chain H 1264–1642（379 aa） Fragment：residues 1264-1642	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3 MG MAGNESIUM ION × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 9；291 K；PEG 1500, 2,3 butanediol, malic acid 2-(N-morpholino)ethanesulfonic acid tris (hydroxymethyl)aminomethane buffer (MMT), pH 9.0, VAPOR DIFFUSION, SITTING DROP, temperature 291K	Resolution 3.00 Å R-free 0.243
3HS0 Cobra Venom Factor (CVF) in complex with human factor B Deposited 2009-06-10	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Other combination Heteromer；Protein × 4 PDB declaration: tetrameric	Chain A 23–649（627 aa） Fragment：residues 23-649 Chain B 733–984（252 aa） Fragment：residues 733-984 Chain C 1264–1642（379 aa） Fragment：residues 1264-1642	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 4 MG MAGNESIUM ION × 2	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 9；291 K；PEG 1500, 2,3 butanediol, malic acid 2-(N-morpholino)ethanesulfonic acid tris (hydroxymethyl)aminomethane buffer (MMT), pH 9.0, VAPOR DIFFUSION, SITTING DROP, temperature 291K	Resolution 3.00 Å R-free 0.243
3HS0 Cobra Venom Factor (CVF) in complex with human factor B Deposited 2009-06-10	Different construct Different mutation/modification Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 3 Other combination Heteromer；Protein × 8 PDB declaration: octameric	Chain A 23–649（627 aa） Fragment：residues 23-649 Chain B 733–984（252 aa） Fragment：residues 733-984 Chain C 1264–1642（379 aa） Fragment：residues 1264-1642 Chain F 23–649（627 aa） Fragment：residues 23-649 Chain G 733–984（252 aa） Fragment：residues 733-984 Chain H 1264–1642（379 aa） Fragment：residues 1264-1642	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 7 MG MAGNESIUM ION × 4	X-RAY DIFFRACTION X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP；pH 9；291 K；PEG 1500, 2,3 butanediol, malic acid 2-(N-morpholino)ethanesulfonic acid tris (hydroxymethyl)aminomethane buffer (MMT), pH 9.0, VAPOR DIFFUSION, SITTING DROP, temperature 291K	Resolution 3.00 Å R-free 0.243
3PVM Structure of Complement C5 in Complex with CVF Deposited 2010-12-07	Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 1 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain B 1–1642（1642 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3	X-RAY DIFFRACTION mmCIF provides none of the parsed conditions	Resolution 4.30 Å R-free 0.262
3PVM Structure of Complement C5 in Complex with CVF Deposited 2010-12-07	Different oligomeric state Different ligand/ion Different experimental conditions Different structure-quality metrics	Assembly 2 Protein heterocomplex Heteromer；Protein × 2 PDB declaration: dimeric	Chain D 1–1642（1642 aa）	Not recorded	NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 3	X-RAY DIFFRACTION mmCIF provides none of the parsed conditions	Resolution 4.30 Å R-free 0.262
8AYH Structure of Complement C5 in Complex with small molecule inhibitor and CVF Deposited 2022-09-02	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 B 1–1642（1642 aa）	Not recorded	H1H 5-methoxy-2-[[(1~{S})-1-(2-methoxyphenyl)ethyl]carbamoylamino]-4-(4-methylpentoxy)benzoic acid × 1 MG MAGNESIUM ION × 1	ELECTRON MICROSCOPY cryo-EM buffer pH 7.5；50mM HEPES pH 7.5 100mM NaCl cryo-EM vitrification conditions Cryogen ETHANE	Resolution 3.35 Å

5 other PDB entries and 8 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence

UniProt name	CO3_NAJKA
Isoform	—
PDB entities	2
Chains and sequence ranges	Author chain B； PDBConstruct 1–1642； UniProt 1–1642 Author chain D； PDBConstruct 1–1642； UniProt 1–1642

Superantigen-like protein 7

Staphylococcus aureus

UniProt D3JIB2

State in the Current Structure

Assembly	Oligomeric State	Construct	Mutations and Modifications	Ligands, Ions and Associated Components	Method and Experimental Conditions	Structure Quality
1	Other combination Heteromer Protein × 3 其他Polymer 2 PDB declaration: trimeric（3） Consistent with protein copy count	Chain X； UniProt 1–231	Not recorded	Complement C5 × 1 （P01031） Cobra venom factor × 1 （Q91132） 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 2 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1	X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION；pH 7.4；292 K；3 M sodium malonate, pH 7.4, VAPOR DIFFUSION, temperature 292K	Resolution 4.30 Å R-free 0.261
2	Other combination Heteromer Protein × 3 其他Polymer 2 PDB declaration: trimeric（3） Consistent with protein copy count	Chain Y； UniProt 1–231	Not recorded	Complement C5 × 1 （P01031） Cobra venom factor × 1 （Q91132） 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose × 2 NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1	X-RAY DIFFRACTION X-ray crystallization conditions：VAPOR DIFFUSION；pH 7.4；292 K；3 M sodium malonate, pH 7.4, VAPOR DIFFUSION, temperature 292K	Resolution 4.30 Å R-free 0.261

Other States of the Same Protein in the Database

No other PDB entry for the same UniProt protein was found.

View Construct and Data Evidence

UniProt name	D3JIB2_STAAU
Isoform	—
PDB entities	3
Chains and sequence ranges	Author chain X； PDBConstruct 1–231； UniProt 1–231 Author chain Y； PDBConstruct 1–231； UniProt 1–231

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

P(r) Distance Distribution P(r) Distribution

Download Download SAXS (.dat) P(r) (.pr.out) CIF

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	3prx
Deposition date deposition_date	2010-11-30
Structure title title	Structure of Complement C5 in Complex with CVF and SSL7
Keywords keywords	immune system, Complement, Staphylococcus aureus, IMMUNE SYSTEM-TOXIN complex; IMMUNE SYSTEM/TOXIN
Experimental Method method	X-RAY DIFFRACTION

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3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier	71.88 Å
Radius of gyration Rg (electron density) rg_electron	71.71 Å
Forward intensity I(0) i0	6218780000.00
Molecular weight molecular_weight	684590.0 kDa
Excluded volume excluded_volume	863200 Å³
Envelope volume envelope_volume	1371200 Å³
Hydration-shell volume shell_volume	159810 Å³
Envelope diameter envelope_diameter	273.9 Å
Shell Rg shell_rg	72.19 Å
Envelope Rg envelope_rg	70.70 Å
Shape Rg shape_rg	71.68 Å
Total Rg total_rg	71.86 Å
Total atoms total_atoms	48236
Residues n_residues	6064
Spherical-harmonic order n_harmonics	20
q range q_range	— – 0.5000 Å⁻¹
Data points n_points	101
Shell type shell_type	directional
Solvent electron density solvent_density	0.3340 e/Å³
Shell contrast contrast_shell	0.0300 e/Å³
CRYSOL version crysol_version	4.1.3

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4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax	213.0 Å
Rg (real space) rg_real	70.92 Å
Rg uncertainty (real space) rg_real_error	1.17 Å
I(0) (real space) i0_real	6.1670e+09
I(0) uncertainty (real space) i0_real_error	1.3500e+08
Rg (reciprocal space) rg_reciprocal	71.24 Å
I(0) (reciprocal space) i0_reciprocal	6209000000.0000
Solution quality estimate total_estimate	0.8447
Solution quality rating solution_quality	GOOD a GOOD solution
P(r) peaks n_peaks	2
Primary peak position r_peak_primary	77.5 Å
Skewness Skewness skewness	0.400
Kurtosis Kurtosis kurtosis	-0.295
Angular range angular_range	— – 0.1100 Å⁻¹
Current regularization parameter α current_alpha	0.0637
Highest regularization parameter α highest_alpha	381600000.0000
Real-space data points n_real_points	23
GNOM version gnom_version	4.1.3
Quality Criteria quality_criteria	AN1: 0.000; Oscil: 0.960; Stabil: 0.998; Sysdev: 1.000; Positv: 1.000; Valcen: 0.991; Smooth: 0.079

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5. Crystallography and Experiment 5. Crystallography & Experiment

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6. Entities and Polymers Entities & Polymers (5)

Entity 1 Entity 1 polymer

Description description	Complement C5
Molecular weight formula_weight	188512.1 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,C
Atom count atom_count	48236

MGLLGILCFLIFLGKTWGQEQTYVISAPKIFRVGASENIVIQVYGYTEAFDATISIKSYPDKKFSYSSGHVHLSSENKFQNSAILTIQPKQLPGGQNPVSYVYLEVVSKHFSKSKRMPITYDNGFLFIHTDKPVYTPDQSVKVRVYSLNDDLKPAKRETVLTFIDPEGSEVDMVEEIDHIGIISFPDFKIPSNPRYGMWTIKAKYKEDFSTTGTAYFEVKEYVLPHFSVSIEPEYNFIGYKNFKNFEITIKARYFYNKVVTEADVYITFGIREDLKDDQKEMMQTAMQNTMLINGIAQVTFDSETAVKELSYYSLEDLNNKYLYIAVTVIESTGGFSEEAEIPGIKYVLSPYKLNLVATPLFLKPGIPYPIKVQVKDSLDQLVGGVPVTLNAQTIDVNQETSDLDPSKSVTRVDDGVASFVLNLPSGVTVLEFNVKTDAPDLPEENQAREGYRAIAYSSLSQSYLYIDWTDNHKALLVGEHLNIIVTPKSPYIDKITHYNYLILSKGKIIHFGTREKFSDASYQSINIPVTQNMVPSSRLLVYYIVTGEQTAELVSDSVWLNIEEKCGNQLQVHLSPDADAYSPGQTVSLNMATGMDSWVALAAVDSAVYGVQRGAKKPLERVFQFLEKSDLGCGAGGGLNNANVFHLAGLTFLTNANADDSQENDEPCKEILRPRRTLQKKIEEIAAKYKHSVVKKCCYDGACVNNDETCEQRAARISLGPRCIKAFTECCVVASQLRANISHKDMQLGRLHMKTLLPVSKPEIRSYFPESWLWEVHLVPRRKQLQFALPDSLTTWEIQGVGISNTGICVADTVKAKVFKDVFLEMNIPYSVVRGEQIQLKGTVYNYRTSGMQFCVKMSAVEGICTSESPVIDHQGTKSSKCVRQKVEGSSSHLVTFTVLPLEIGLHNINFSLETWFGKEILVKTLRVVPEGVKRESYSGVTLDPRGIYGTISRRKEFPYRIPLDLVPKTEIKRILSVKGLLVGEILSAVLSQEGINILTHLPKGSAEAELMSVVPVFYVFHYLETGNHWNIFHSDPLIEKQKLKKKLKEGMLSIMSYRNADYSYSVWKGGSASTWLTAFALRVLGQVNKYVEQNQNSICNSLLWLVENYQLDNGSFKENSQYQPIKLQGTLPVEARENSLYLTAFTVIGIRKAFDICPLVKIDTALIKADNFLLENTLPAQSTFTLAISAYALSLGDKTHPQFRSIVSALKREALVKGNPPIYRFWKDNLQHKDSSVPNTGTARMVETTAYALLTSLNLKDINYVNPVIKWLSEEQRYGGGFYSTQDTINAIEGLTEYSLLVKQLRLSMDIDVSYKHKGALHNYKMTDKNFLGRPVEVLLNDDLIVSTGFGSGLATVHVTTVVHKTSTSEEVCSFYLKIDTQDIEASHYRGYGNSDYKRIVACASYKPSREESSSGSSHAVMDISLPTGISANEEDLKALVEGVDQLFTDYQIKDGHVILQLNSIPSSDFLCVRFRIFELFEVGFLSPATFTVYEYHRPDKQCTMFYSTSNIKIQKVCEGAACKCVEADCGQMQEELDLTISAETRKQTACKPEIAYAYKVSITSITVENVFVKYKATLLDIYKTGEAVAEKDSEITFIKKVTCTNAELVKGRQYLIMGKEALQIKYNFSFRYIYPLDSLTWIEYWPRDTTCSSCQAFLANLDEFAEDIFLNGC

Entity 2 Entity 2 polymer

Description description	Cobra venom factor
Molecular weight formula_weight	184726.7 kDa
Source method src_method	nat
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	B,D

MERMALYLVAALLIGFPGSSHGALYTLITPAVLRTDTEEQILVEAHGDSTPKQLDIFVHDFPRKQKTLFQTRVDMNPAGGMLVTPTIEIPAKEVSTDSRQNQYVVVQVTGPQVRLEKVVLLSYQSSFLFIQTDKGIYTPGSPVLYRVFSMDHNTSKMNKTVIVEFQTPEGILVSSNSVDLNFFWPYNLPDLVSLGTWRIVAKYEHSPENYTAYFDVRKYVLPSFEVRLQPSEKFFYIDGNENFHVSITARYLYGEEVEGVAFVLFGVKIDDAKKSIPDSLTRIPIIDGDGKATLKRDTFRSRFPNLNELVGHTLYASVTVMTESGSDMVVTEQSGIHIVASPYQIHFTKTPKYFKPGMPYELTVYVTNPDGSPAAHVPVVSEAFHSMGTTLSDGTAKLILNIPLNAQSLPITVRTNHGDLPRERQATKSMTAIAYQTQGGSGNYLHVAITSTEIKPGDNLPVNFNVKGNANSLKQIKYFTYLILNKGKIFKVGRQPRRDGQNLVTMNLHITPDLIPSFRFVAYYQVGNNEIVADSVWVDVKDTCMGTLVVKGDNLIQMPGAAMKIKLEGDPGARVGLVAVDKAVYVLNDKYKISQAKIWDTIEKSDFGCTAGSGQNNLGVFEDAGLALTTSTNLNTKQRSAAKCPQPANRRRRSSVLLLDSNASKAAEFQDQDLRKCCEDVMHENPMGYTCEKRAKYIQEGDACKAAFLECCRYIKGVRDENQRESELFLARDDNEDGFIADSDIISRSDFPKSWLWLTKDLTEEPNSQGISSKTMSFYLRDSITTWVVLAVSFTPTKGICVAEPYEIRVMKVFFIDLQMPYSVVKNEQVEIRAILHNYVNEDIYVRVELLYNPAFCSASTKGQRYRQQFPIKALSSRAVPFVIVPLEQGLHDVEIKASVQEALWSDGVRKKLKVVPEGVQKSIVTIVKLDPRAKGVGGTQLEVIKARKLDDRVPDTEIETKIIIQGDPVAQIIENSIDGSKLNHLIITPSGCGEQNMIRMAAPVIATYYLDTTEQWETLGINRRTEAVNQIVTGYAQQMVYKKADHSYAAFTNRASSSWLTAYVVKVFAMAAKMVAGISHEIICGGVRWLILNRQQPDGAFKENAPVLSGTMQGGIQGAEEEVYLTAFILVALLESKTICNDYVNSLDSSIKKATNYLLKKYEKLQRPYTTALTAYALAAADQLNDDRVLMAASTGRDHWEEYNAHTHNIEGTSYALLALLKMKKFDQTGPIVRWLTDQNFYGETYGQTQATVMAFQALAEYEIQMPTHKDLNLDITIELPDREVPIRYRINYENALLARTVETKLNQDITVTASGDGKATMTILTFYNAQLQEKANVCNKFHLNVSVENIHLNAMGAKGALMLKICTRYLGEVDSTMTIIDISMLTGFLPDAEDLTRLSKGVDRYISRYEVDNNMAQKVAVIIYLNKVSHSEDECLHFKILKHFEVGFIQPGSVKVYSYYNLDEKCTKFYHPDKGTGLLNKICIGNVCRCAGETCSSLNHQERIDVPLQIEKACETNVDYVYKTKLLRIEEQDGNDIYVMDVLEVIKQGTDENPRAKTHQYISQRKCQEALNLKVNDDYLIWGSRSDLLPTKDKISYIITKNTWIERWPHEDECQEEEFQKLCDDFAQFSYTLTEFGCPT

Entity 3 Entity 3 polymer

Description description	Superantigen-like protein 7
Molecular weight formula_weight	26014.4 kDa
Source method src_method	man
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	X,Y

MKLKTLAKATLALGLLTTGVITSEGQAVQAAEKQGRVQHLHDIRDLHRYYSSESFEYSNVSGKVENYNGSNVVRFNPKDQNHQLFLLGKDKEQYKEGLQGQNVFVVQELIDPNGRLSTVGGVTKKNNKTSETNTPLFVNKVNGEDLDASIDSFLIQKEEISLKELDFKIRQQLVNNYGLYKGTSKYGKIIINLKDENKVEIDLGDKLQFERMGDVLNSKDIRGISVTINQI

来源 Source

来源生物 organism	Staphylococcus aureus
NCBI Class编号 ncbi_taxonomy_id	1280
宿主生物 host_organism	Escherichia coli

Entity 4 Entity 4 branched

Description description	2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose
Molecular weight formula_weight	424.4 kDa
Source method src_method	man
Copy count entity_count	4

Entity 5 Entity 5 non-polymer

Description description	2-acetamido-2-deoxy-beta-D-glucopyranose
Molecular weight formula_weight	221.2 kDa
Source method src_method	man
Copy count entity_count	2

▶

8. Citations (1)

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Unit-cell length a length_a	163.650 Å
Unit-cell length b length_b	181.960 Å
Unit-cell length c length_c	392.780 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	90.00 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	8

Space group space_group	P 2 2 21
Space-group number int_tables_number	17
Crystal system crystal_system	—

Resolution resolution	4.300 Å
Low-resolution limit resolution_low	49.214 Å
R factor r_factor	0.2091
R_work r_work	0.2078
R_free r_free	0.2614

fit	/app/data/saxs_computation/pr/3prx/3prx.fit
pddf	/app/data/pr_computation/pr/3prx/3prx.pr.out
profile	/app/data/saxs_computation/pr/3prx/3prx.dat

Structure of Complement C5 in Complex with CVF and SSL7

1. Protein Identity and Related Structures Protein Identity & Related Structures

Complement C5

State in the Current Structure

Other States of the Same Protein in the Database

Cobra venom factor

State in the Current Structure

Other States of the Same Protein in the Database

Superantigen-like protein 7

State in the Current Structure

Other States of the Same Protein in the Database

SAXS scattering curve SAXS Profile

P(r) Distance Distribution P(r) Distribution

2. Structure Basics 2. Structure Basics

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

5. Crystallography and Experiment 5. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

6. Entities and Polymers Entities & Polymers (5)

Entity 1 Entity 1 polymer

Polymer Polymer

Entity 2 Entity 2 polymer

Polymer Polymer

Entity 3 Entity 3 polymer

Polymer Polymer

来源 Source

Entity 4 Entity 4 branched

Entity 5 Entity 5 non-polymer

8. Citations (1)

9. Files and Curves (10)

Files (7)

Curves (3)