Current Protein Identity:Q8NBP7 New Search
Main Difference Dimensions in This Set
Different construct Different mutation/modification Different assembly state Different ligand/ion Different experimental method Different experimental conditions Different structure-quality metrics

Difference tags compare only the current result set; every original PDB and assembly record remains separate.

Related-Structure Differences

Each row represents one biological assembly in one PDB entry; multiple monomers of the same protein are listed separately.

PDB Entry Assembly / Oligomeric State Construct Mutations and Modifications Ligands, Ions and Non-polymers Experimental Method Experimental Conditions Structure Quality
10SB PCSK9 in complex with cyclic peptide 21 Deposited 2026-02-04 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 31–152(122 aa)
Chain B 153–452(300 aa)
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION mmCIF provides none of the parsed conditions Resolution 1.83 Å R-free 0.238
2P4E Crystal Structure of PCSK9 Deposited 2007-03-12 Assembly 1 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain P 1–692(692 aa)
Not recorded HG MERCURY (II) ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;pH 8.5;300 K;25% PEG 1500, 50 mM Tris-HCl buffer, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 300K
Resolution 1.98 Å R-free 0.250
2P4E Crystal Structure of PCSK9 Deposited 2007-03-12 Assembly 2 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain A 1–692(692 aa)
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;pH 8.5;300 K;25% PEG 1500, 50 mM Tris-HCl buffer, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 300K
Resolution 1.98 Å R-free 0.250
2P4E Crystal Structure of PCSK9 Deposited 2007-03-12 Assembly 3 Protein homooligomer Homooligomer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 1–692(692 aa)
Chain P 1–692(692 aa)
Not recorded HG MERCURY (II) ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;pH 8.5;300 K;25% PEG 1500, 50 mM Tris-HCl buffer, pH 8.5, VAPOR DIFFUSION, HANGING DROP, temperature 300K
Resolution 1.98 Å R-free 0.250
2QTW The Crystal Structure of PCSK9 at 1.9 Angstroms Resolution Reveals structural homology to Resistin within the C-terminal domain Deposited 2007-08-02 Assembly 1 Protein homooligomer Homooligomer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 29–152(124 aa) Fragment:UNP residues 29-152
Chain B 153–692(540 aa) Fragment:UNP residues 153-692
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 10.5;298 K;20% PEG6000, 0.2M sodium chloride, pH 10.5, VAPOR DIFFUSION, SITTING DROP, temperature 298K, pH 10.50
Resolution 1.90 Å R-free 0.239
2W2M WT PCSK9-DELTAC BOUND TO WT EGF-A OF LDLR Deposited 2008-11-03 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 153–451(299 aa) Fragment:CATALYTIC DOMAIN, RESIDUES 153-451
Chain P 53–152(100 aa) Fragment:PROPEPTIDE, RESIDUES 53-152
Not recorded CA CALCIUM ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.5;0.1M HEPES PH 7.5, 10% (V/V) 2-PROPANOL, 20% (W/V) PEG 4000
Resolution 2.40 Å R-free 0.254
2W2N WT PCSK9-deltaC bound to EGF-A H306Y mutant of LDLR Deposited 2008-11-03 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 153–451(299 aa) Fragment:CATALYTIC DOMAIN, RESIDUES 153-451
Chain P 53–152(100 aa) Fragment:PRODOMAIN, RESIDUES 53-152
Not recorded CA CALCIUM ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.5;0.1M HEPES PH 7.5, 10% (W/V) PEG 8000, 8% (V/V) ETHYLENE GLYCOL.
Resolution 2.30 Å R-free 0.254
2W2O PCSK9-deltaC D374Y mutant bound to WT EGF-A of LDLR Deposited 2008-11-03 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 153–451(299 aa) Fragment:CATALYTIC DOMAIN, RESIDUES 153-451
Chain P 53–152(100 aa) Fragment:PROPEPTIDE, RESIDUES 53-152
Mutation:YES CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.5;0.1M HEPES PH 7.5, 10% (W/V) PEG 8000 AND 8% (V/V) ETHYLENE GLYCOL
Resolution 2.62 Å R-free 0.263
2W2P PCSK9-deltaC D374A mutant bound to WT EGF-A of LDLR Deposited 2008-11-03 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 153–451(299 aa) Fragment:CATALYTIC DOMAIN, RESIDUES 153-451
Chain P 53–152(100 aa) Fragment:PRODOMAIN, RESIDUES 53-152
Mutation:YES CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.5;0.1M HEPES PH 7.5, 10% (W/V) PEG 8000 AND 8% (V/V) ETHYLENE GLYCOL
Resolution 2.62 Å R-free 0.270
2W2Q PCSK9-deltaC D374H mutant bound to WT EGF-A of LDLR Deposited 2008-11-03 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 153–451(299 aa) Fragment:CATALYTIC DOMAIN, RESIDUES 153-451
Chain P 53–152(100 aa) Fragment:PROPEPTIDE, RESIDUES 53-152
Mutation:YES CA CALCIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions pH 7.5;0.1M HEPES PH 7.5, 10% (W/V) PEG 8000 AND 8% (V/V) ETHYLENE GLYCOL
Resolution 2.33 Å R-free 0.253
2XTJ The crystal structure of PCSK9 in complex with 1D05 Fab Deposited 2010-10-10 Assembly 1 Protein heterocomplex Heteromer;Protein × 6 PDB declaration: hexameric(6) Consistent with protein count
Chain A 153–451(299 aa) Fragment:CATALYTIC DOMAIN, RESIDUES 153-451
Chain P 53–152(100 aa) Fragment:PRODOMAIN, RESIDUES 53-152
Not recorded CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION;CRYSTALLIZATION EXPERIMENTS WERE PERFORMED AT ROOM TEMPERATURE BY THE HANGING-DROP AND SITTING-DROP METHODS. THIN PLATE-LIKE CRYSTALS WERE OBTAINED IN 100 MM NA CITRATE PH 6.5, 13% PEG 6000. FOR DATA COLLECTION CRYSTALS WERE TRANSFERRED TO A STABILIZING SOLUTION (20 MM TRIS PH 8.0, 50 MM NACITRATE PH 6.5, 100 MM NACL, 5% GLYCEROL, 1 MM TCEP, 1 MICROM CACL2, 25% PEG6000), THEN TRANSFERRED FOR 2 MIN TO A CRYOPROTECTANT SOLUTION (20 MM TRIS PH 8.0, 50 MM NACITRATE PH 6.5, 100 MM NACL, 20% GLYCEROL, 1 MM TCEP, 1 MICROM CACL2, 35% PEG6000) AND FINALLY PLACED DIRECTLY INTO LIQUID NITROGEN.
Resolution 2.70 Å R-free 0.259
3BPS PCSK9:EGF-A complex Deposited 2007-12-19 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 153–692(540 aa) Fragment:Catalytic domain, UNP residues 153-692
Chain P 53–152(100 aa) Fragment:Prodomain, UNP residues 53-152
Not recorded CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions pH 4.8;294 K;0.3M (NH4)H2PO4, pH 4.8, VAPOR DIFFUSION, SITTING DROP, temperature 294K, pH 4.80
Resolution 2.41 Å R-free 0.240
3GCW PCSK9:EGFA(H306Y) Deposited 2009-02-22 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 153–692(540 aa)
Chain P 53–152(100 aa)
Not recorded CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 7.4;294 K;0.3M (NH4)H2PO4, pH 7.4, VAPOR DIFFUSION, SITTING DROP, temperature 294K
Resolution 2.70 Å R-free 0.278
3GCX PCSK9:EGFA (pH 7.4) Deposited 2009-02-22 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 153–692(540 aa)
Chain P 53–152(100 aa)
Not recorded CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 7.4;294 K;0.3M (NH4)H2PO4, pH 7.4, VAPOR DIFFUSION, SITTING DROP, temperature 294K
Resolution 2.70 Å R-free 0.261
3H42 Crystal structure of PCSK9 in complex with Fab from LDLR competitive antibody Deposited 2009-04-17 Assembly 1 Protein heterocomplex Heteromer;Protein × 4 PDB declaration: tetrameric(4) Consistent with protein count
Chain A 31–152(122 aa) Fragment:UNP residues 31-152
Chain B 153–692(540 aa) Fragment:UNP residues 153-692
Mutation:N533A NA SODIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 8.3;293 K;0.1 M Tris-HCl, 0.2 M Sodium acetate, 10-15% PEG 4000, 3-6% Dextran sodium salt (Mr 5000), pH 8.3, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.30 Å R-free 0.209
3M0C The X-ray Crystal Structure of PCSK9 in Complex with the LDL receptor Deposited 2010-03-02 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 29–152(124 aa) Fragment:PCSK9
Chain B 153–692(540 aa) Fragment:PCSK9
Mutation:D374Y CA CALCIUM ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 8;297 K;1.4 M Ammonium phosphate, 0.2M sodium chloride in 0.1M Imidazole buffer, pH 8.0, VAPOR DIFFUSION, SITTING DROP, temperature 297K
Resolution 7.01 Å R-free 0.362
3P5B The structure of the LDLR/PCSK9 complex reveals the receptor in an extended conformation Deposited 2010-10-08 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 153–692(540 aa)
Chain P 61–152(92 aa)
Not recorded CA CALCIUM ION × 3 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION;pH 7;291 K;0.1 M sodium cacodylate pH 7.0, 1.7 M sodium acetate, 300 mM NaCl, 5% ethanol, VAPOR DIFFUSION, temperature 291K
Resolution 3.30 Å R-free 0.298
3P5C The structure of the LDLR/PCSK9 complex reveals the receptor in an extended conformation Deposited 2010-10-08 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 153–692(540 aa)
Chain P 61–152(92 aa)
Not recorded CA CALCIUM ION × 4 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION;pH 7;291 K;0.1M imidazole, 0.7M sodium acetate pH 7.0, VAPOR DIFFUSION, temperature 291K
Resolution 4.20 Å R-free 0.348
3SQO PCSK9 J16 Fab complex Deposited 2011-07-05 Assembly 1 Protein heterocomplex Heteromer;Protein × 4 PDB declaration: tetrameric(4) Consistent with protein count
Chain A 153–692(540 aa)
Chain P 31–152(122 aa)
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;pH 7.2;298 K;7% PEG 10000, 100 mM Hepes pH 7.2, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Resolution 2.70 Å R-free 0.283
4K8R An Antibody Against the C-terminal Domain of PCSK9 lowers LDL Cholesterol Levels in vivo Deposited 2013-04-18 Assembly 1 Protein homooligomer Homooligomer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 61–152(92 aa) Fragment:unp residues 61-152
Chain B 153–692(540 aa) Fragment:unp residues 153-692
Mutation:V474I, G670E No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;pH 6;293 K;0.5 M lithium sulfate, 0.1 M disodium malonate, 11.5 % PEG 8K , pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Resolution 3.22 Å R-free 0.226
4NE9 PCSK9 in complex with LDLR peptide Deposited 2013-10-28 Assembly 1 Other combination Homooligomer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 153–692(540 aa) Fragment:UNP residues 153-692
Chain P 1–152(152 aa) Fragment:UNP residues 1-152
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;pH 7.5;299 K;pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 299K
Resolution 2.60 Å R-free 0.211
4NE9 PCSK9 in complex with LDLR peptide Deposited 2013-10-28 Assembly 2 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain B 153–692(540 aa) Fragment:UNP residues 153-692
Chain C 1–152(152 aa) Fragment:UNP residues 1-152
Not recorded NAG 2-acetamido-2-deoxy-beta-D-glucopyranose × 1 CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;pH 7.5;299 K;pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 299K
Resolution 2.60 Å R-free 0.211
4NMX PCSK9(deltaCRD) in complex with phage-derived inhibitory peptide 2-8 Deposited 2013-11-15 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 31–152(122 aa) Fragment:propeptide (UNP residues 31-152)
Chain B 153–452(300 aa) Fragment:catalytic domain (UNP residues 153-452)
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 8;292 K;0.1 M lithium chloride, 10% w/v PEG6000, 0.05 M Tris, pH 8, VAPOR DIFFUSION, SITTING DROP, temperature 292K
Resolution 1.85 Å R-free 0.222
4OV6 Crystal structure of PCSK9(53-451) with Adnectin Deposited 2014-02-20 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 60–152(93 aa) Fragment:prodomain (UNP residues 60-152)
Chain B 153–446(294 aa) Fragment:catalytic domain (UNP residues 153-446)
Not recorded EDO 1,2-ETHANEDIOL × 3 PG4 TETRAETHYLENE GLYCOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;pH 7.5;296 K;22% v/v PEG200, 1% v/v ethylene glycol, 0.1 M MES pH 6.5, crystals harvested next day, cryo-protectant: 30% v/v PEG200, VAPOR DIFFUSION, HANGING DROP, temperature 296K
Resolution 2.69 Å R-free 0.231
4OV6 Crystal structure of PCSK9(53-451) with Adnectin Deposited 2014-02-20 Assembly 2 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain D 60–152(93 aa) Fragment:prodomain (UNP residues 60-152)
Chain E 153–446(294 aa) Fragment:catalytic domain (UNP residues 153-446)
Not recorded EDO 1,2-ETHANEDIOL × 2 PG4 TETRAETHYLENE GLYCOL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;pH 7.5;296 K;22% v/v PEG200, 1% v/v ethylene glycol, 0.1 M MES pH 6.5, crystals harvested next day, cryo-protectant: 30% v/v PEG200, VAPOR DIFFUSION, HANGING DROP, temperature 296K
Resolution 2.69 Å R-free 0.231
5OCA PCSK9:Fab Complex with Dextran Sulfate Deposited 2017-06-30 Assembly 1 Other combination Heteromer;Protein × 4 PDB declaration: tetrameric(4) Consistent with protein count
Chain A 31–152(122 aa)
Chain B 153–692(540 aa)
Not recorded NA SODIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 8.3;293 K;0.1 M Tris-HCl, 0.2 M Sodium acetate, 10-15% PEG 4000, 3-6% Dextran sodium salt (Mr 5000), pH 8.3, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Resolution 2.30 Å R-free 0.195
5VL7 PCSK9 complex with Fab33 Deposited 2017-04-25 Assembly 1 Protein heterocomplex Heteromer;Protein × 4 PDB declaration: tetrameric(4) Consistent with protein count
Chain A 1–152(152 aa) Fragment:prodomain residues 1-152
Chain B 153–692(540 aa) Fragment:catalytic and cysteine-rich domains, residues 153-692
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;pH 7;292 K;potassium sodium phosphate
Resolution 3.50 Å R-free 0.245
5VLA Short PCSK9 delta-P' complex with Fusion2 peptide Deposited 2017-04-25 Assembly 1 Protein heterocomplex Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 1–452(452 aa) Fragment:residues 1-452
Mutation:R165S CA CALCIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 8;292 K;calcium acetate, PEG 6000
Resolution 2.40 Å R-free 0.267
5VLH Short PCSK9 delta-P' complex with peptide Pep1 Deposited 2017-04-25 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 1–452(452 aa) Fragment:residues 1-452
Mutation:R165S CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 8;292 K;calcium acetate, PEG 6000
Resolution 2.86 Å R-free 0.253
5VLK Short PCSK9 delta-P' complex with shrunken peptide bearing homo-Arginine Deposited 2017-04-25 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 1–452(452 aa) Fragment:residues 1-452
Mutation:R165S CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 8;292 K;calcium acetate, PEG 6000
Resolution 2.20 Å R-free 0.237
5VLL Short PCSK9 delta-P' complex with peptide Pep3 Deposited 2017-04-25 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 1–452(452 aa) Fragment:residues 1-452
Mutation:R165S CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 8;292 K;calcium acetate, PEG 6000
Resolution 2.37 Å R-free 0.244
5VLP PCSK9 complex with LDLR antagonist peptide and Fab7G7 Deposited 2017-04-25 Assembly 1 Protein heterocomplex Heteromer;Protein × 4 PDB declaration: tetrameric(4) Consistent with protein count
Chain A 1–692(692 aa)
Not recorded NA SODIUM ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 8.5;292 K;ammonium acetate, 1,8diaminooctane
Resolution 2.90 Å R-free 0.209
6E4Y Anti-PCSK9 fab 6E2 bound to the N-terminal peptide from PCSK9, unmodified Deposited 2018-07-18 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain P 32–53(22 aa) Fragment:UNP residues 32-53
Not recorded ZN ZINC ION × 4 CL CHLORIDE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;pH 6.5;291 K;15% w/v PEG8000, 0.2 M zinc acetate, 0.1 M sodium cacodylate, pH 6.5
Resolution 2.24 Å R-free 0.255
6E4Z Anti-PCSK9 fab 6E2 bound to the modified N-terminal peptide from PCSK9 Deposited 2018-07-18 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain P 32–53(22 aa) Fragment:UNP residues 32-53
Non-standard monomer:Yes (specific site not provided by mmCIF) ZN ZINC ION × 5 SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;298 K;15% w/v PEG8000, 0.2 M zinc acetate, 0.1 M sodium cacodylate, pH 6.5
Resolution 2.20 Å R-free 0.236
6MV5 Anti-PCSK9 fab 6E2 bound to the N-terminal peptide from PCSK9 (E32K) Deposited 2018-10-24 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain P 32–53(22 aa) Fragment:N-terminal peptide (UNP residues 32-53)
Mutation:E32K Non-standard monomer:Yes (specific site not provided by mmCIF) ZN ZINC ION × 4 CL CHLORIDE ION × 1 SO4 SULFATE ION × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 6.5;291 K;15% PEG8000, 0.2 M zinc acetate, 0.1 M sodium cacodylate, pH 6.5
Resolution 2.10 Å R-free 0.238
6OLZ Human ribosome nascent chain complex (PCSK9-RNC) stalled by a drug-like molecule with PP tRNA Deposited 2019-04-17 Assembly 1 Protein–RNA Heteromer;Protein × 76 PDB declaration: 82-meric(82) Consistent with all polymers
Chain A 9–34(26 aa)
Not recorded MG MAGNESIUM ION × 326 ZN ZINC ION × 5 MVM N-(3-chloropyridin-2-yl)-N-[(3R)-piperidin-3-yl]-4-(3H-[1,2,3]triazolo[4,5-b]pyridin-3-yl)benzamide × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.90 Å
6OM0 Human ribosome nascent chain complex (PCSK9-RNC) stalled by a drug-like molecule with AP and PE tRNAs Deposited 2019-04-17 Assembly 1 Protein–RNA Heteromer;Protein × 76 PDB declaration: 83-meric(83) Consistent with all polymers
Chain y 9–34(26 aa)
Not recorded MG MAGNESIUM ION × 31 ZN ZINC ION × 6 MVM N-(3-chloropyridin-2-yl)-N-[(3R)-piperidin-3-yl]-4-(3H-[1,2,3]triazolo[4,5-b]pyridin-3-yl)benzamide × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.10 Å
6OM7 Human ribosome nascent chain complex (PCSK9-RNC) stalled by a drug-like small molecule with AA and PE tRNAs Deposited 2019-04-18 Assembly 1 Protein–RNA Heteromer;Protein × 76 PDB declaration: 83-meric(83) Consistent with all polymers
Chain y 9–34(26 aa)
Not recorded ZN ZINC ION × 6 MG MAGNESIUM ION × 31 MVM N-(3-chloropyridin-2-yl)-N-[(3R)-piperidin-3-yl]-4-(3H-[1,2,3]triazolo[4,5-b]pyridin-3-yl)benzamide × 1 ELECTRON MICROSCOPY
cryo-EM buffer pH 7.5
cryo-EM vitrification conditions Cryogen ETHANE
Resolution 3.70 Å
6U26 PCSK9 in complex with compound 16 Deposited 2019-08-19 Assembly 1 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain A 31–692(662 aa)
Mutation:V474I, G670E No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;295 K;100 mM Tris (pH 7.8) 200 mM NaCl, 15% PEG 3350,
Resolution 1.53 Å R-free 0.213
6U26 PCSK9 in complex with compound 16 Deposited 2019-08-19 Assembly 2 Protein monomer Monomer;Protein × 1 PDB declaration: monomeric(1) Consistent with protein count
Chain B 31–692(662 aa)
Mutation:V474I, G670E 063 4'-{[(1R)-6-{2-[2-({N~5~-[N,N'-bis(tert-butoxycarbonyl)carbamimidoyl]-N~2~-(tert-butoxycarbonyl)-L-ornithyl}amino)ethoxy]ethoxy}-1-methyl-1-{2-oxo-2-[(1,3-thiazol-2-yl)amino]ethyl}-1,2,3,4-tetrahydroisoquinolin-7-yl]oxy}-2'-fluoro[1,1'-biphenyl]-4-carboxylic acid × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;295 K;100 mM Tris (pH 7.8) 200 mM NaCl, 15% PEG 3350,
Resolution 1.53 Å R-free 0.213
6U2F PCSK9-Fab 7G7 complex bound to cis-1-amino-4-phenylcyclohexaneacyl-WNLK(hR)IGLLR - NH2 Deposited 2019-08-19 Assembly 1 Protein heterocomplex Heteromer;Protein × 4 PDB declaration: tetrameric(4) Consistent with protein count
Chain A 1–692(692 aa)
Not recorded CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION;pH 8.5;291 K;4 M ammonium acetate, 0.1 M Tris, pH 8.5, 3% v/v 1,8 diaminooctane
Resolution 2.94 Å R-free 0.209
6U2N PCSK9 in complex with compound 4 Deposited 2019-08-20 Assembly 1 Protein homooligomer Homooligomer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 31–692(662 aa)
Chain B 31–692(662 aa)
Not recorded PV7 4-{[(1R)-6-methoxy-1-methyl-1-{2-oxo-2-[(1,3-thiazol-2-yl)amino]ethyl}-1,2,3,4-tetrahydroisoquinolin-7-yl]oxy}benzoic acid × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION;303 K;(10-22)% PEG 10000, 0.1M Tris, pH 8.5, 10% Ethylene Glycol, 1% BAM
Resolution 2.15 Å R-free 0.234
6U2P PCSK9 in complex with compound 5 Deposited 2019-08-20 Assembly 1 Protein homooligomer Homooligomer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 31–692(662 aa)
Chain B 31–692(662 aa)
Mutation:V474I, G670E Mutation:V474I, G670E EDO 1,2-ETHANEDIOL × 5 PUV 2-fluoro-4-{[(1R)-6-methoxy-1-methyl-1-{2-oxo-2-[(1,3-thiazol-2-yl)amino]ethyl}-1,2,3,4-tetrahydroisoquinolin-7-yl]oxy}benzoic acid × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION;303 K;(10-22)% PEG 10000, 0.1M Tris, pH 8.5, 10% Ethylene Glycol, 1% BAM
Resolution 2.04 Å R-free 0.216
6U36 PCSK9 in complex with a Fab and compound 14 Deposited 2019-08-21 Assembly 1 Protein heterocomplex Heteromer;Protein × 4 PDB declaration: tetrameric(4) Consistent with protein count
Chain A 31–692(662 aa)
Chain B 31–692(662 aa)
Mutation:V474I, G670E Mutation:V474I, G670E PVM 2-fluoro-4-{[(1R)-6-(2-{4-[1-(4-methoxyphenyl)-5-methyl-6-oxo-1,6-dihydropyridazin-3-yl]-1H-1,2,3-triazol-1-yl}ethoxy)-1-methyl-1-{2-oxo-2-[(1,3-thiazol-2-yl)amino]ethyl}-1,2,3,4-tetrahydroisoquinolin-7-yl]oxy}benzoic acid × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION;277 K;0.1M Bicine pH9.0, 2% dioxane, 10% PEG 20000
Resolution 2.70 Å R-free 0.251
6U38 PCSK9 in complex with a Fab and compound 8 Deposited 2019-08-21 Assembly 1 Protein heterocomplex Heteromer;Protein × 4 PDB declaration: tetrameric(4) Consistent with protein count
Chain A 31–692(662 aa)
Chain B 31–692(662 aa)
Mutation:V474I, G670E Mutation:V474I, G670E PVJ 2-fluoro-4-{[(1R)-1-methyl-6-{[(2S)-oxan-2-yl]methoxy}-1-{2-oxo-2-[(1,3-thiazol-2-yl)amino]ethyl}-1,2,3,4-tetrahydroisoquinolin-7-yl]oxy}benzoic acid × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION;277 K;0.1M Bicine pH9.0, 2% dioxane, 10% PEG 20000
Resolution 2.73 Å R-free 0.243
6U3I Design of organo-peptides as bipartite PCSK9 antagonists Deposited 2019-08-21 Assembly 1 Protein heterocomplex Heteromer;Protein × 4 PDB declaration: tetrameric(4) Consistent with protein count
Chain A 1–692(692 aa)
Not recorded CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION;pH 8.5;291 K;4 M ammonium acetate, 0.1 M Tris, pH 8.5, 3% v/v 1,8 diaminooctane
Resolution 2.90 Å R-free 0.217
6U3X PCSK9 in complex with compound 2 Deposited 2019-08-22 Assembly 1 Protein homooligomer Homooligomer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 31–692(662 aa)
Chain B 31–692(662 aa)
Mutation:V474I, G670E Mutation:V474I, G670E PVV 2-[(1R)-6,7-dimethoxy-1-methyl-1,2,3,4-tetrahydroisoquinolin-1-yl]-N-(1,3-thiazol-2-yl)acetamide × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;303 K;10-22% PEG 10K, 0.1M Tris, pH 8.5, 10% ethylene glycol, 1% BAM
Resolution 2.64 Å R-free 0.284
6XIB PCSK9(deltaCRD) in complex with cyclic peptide 30 Deposited 2020-06-19 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 31–152(122 aa)
Chain B 153–452(300 aa)
Not recorded GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 6;291 K;20% PEG3350, 200mM CaCl2, 100mM MES pH 6
Resolution 1.55 Å R-free 0.205
6XIC PCSK9(deltaCRD) in complex with cyclic peptide 40 Deposited 2020-06-19 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 32–152(121 aa)
Chain B 153–452(300 aa)
Not recorded GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 6;291 K;20% PEG3350, 200mM CaCl2, 100mM MES pH 6
Resolution 1.38 Å R-free 0.221
6XID PCSK9(deltaCRD) in complex with cyclic peptide 51 Deposited 2020-06-19 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 31–152(122 aa)
Chain B 153–452(300 aa)
Not recorded GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 6;291 K;20% PEG3350, 200mM CaCl2, 100mM MES pH 6
Resolution 1.48 Å R-free 0.205
6XIE PCSK9(deltaCRD) in complex with cyclic peptide 77 Deposited 2020-06-19 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 31–152(122 aa)
Chain B 153–452(300 aa)
Not recorded GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 6;291 K;20% PEG3350, 200mM CaCl2, 100mM MES pH 6
Resolution 1.43 Å R-free 0.221
6XIF PCSK9(deltaCRD) in complex with cyclic peptide 83 Deposited 2020-06-19 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 31–152(122 aa)
Chain B 153–452(300 aa)
Not recorded GOL GLYCEROL × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 6;291 K;20% PEG3350, 200mM CaCl2, 100mM MES pH 6
Resolution 1.77 Å R-free 0.204
7ANQ Complete PCSK9 C-ter domain in complex with VHH P1.40 Deposited 2020-10-12 Assembly 1 Other combination Heteromer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 452–682(231 aa)
Not recorded SO4 SULFATE ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;293 K;Protein: Purified PCSK9/P1.40 complex at 5.3 mg/ml Precipitant: 10% PEG 4.000, 0.2M imidazole malate, pH 7.0 Cryoprotectant: 40% SM3 (25 % diethylene glycol + 25 % ethylene glycol + 25 % glycerol + 25 % 1,4-dioxane) 25% PEG 4.000, 0.2M imidazole malate, pH 7.0
Resolution 2.20 Å R-free 0.256
7KEV PCSK9 in complex with a cyclic peptide LDLR disruptor Deposited 2020-10-12 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 29–152(124 aa)
Chain B 153–692(540 aa)
Not recorded CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 8;293 K;20.0% PEG-6000, 0.1M TRIS
Resolution 2.80 Å R-free 0.280
7KFA PCSK9 in complex with PCSK9i a 13mer cyclic peptide LDLR disruptor Deposited 2020-10-13 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 29–152(124 aa)
Chain B 153–692(540 aa)
Not recorded CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 8;293 K;20.0% PEG-6000, 0.1M TRIS
Resolution 2.45 Å R-free 0.242
7S5G PCSK9 in complex with compound 19 Deposited 2021-09-10 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 31–152(122 aa)
Chain B 153–452(300 aa)
Not recorded GOL GLYCEROL × 1 89N (2E)-but-2-ene-1,4-diol × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 6;291 K;20% PEG3350, 200mM CaCl2, 100mM MES pH 6
Resolution 2.04 Å R-free 0.286
7S5H PCSK9(deltaCRD) in complex with cyclic peptide 35 Deposited 2021-09-10 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 31–152(122 aa)
Chain B 153–452(300 aa)
Not recorded 89N (2E)-but-2-ene-1,4-diol × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;pH 6;291 K;20% PEG3350, 200mM CaCl2, 100mM MES pH 6
Resolution 1.27 Å R-free 0.209
8FPO PCSK9 in complex with an inhibitor Deposited 2023-01-05 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 1–152(152 aa) Fragment:prodomain residues 1-152
Chain B 153–692(540 aa)
Not recorded CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;293 K;0.1 M Tris-HCl (pH 8.0), 14-19% PEG 6000
Resolution 3.00 Å R-free 0.250
8FPQ PCSK9 in complex with an inhibitor Deposited 2023-01-05 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 61–152(92 aa)
Chain B 153–682(530 aa)
Not recorded CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;293 K;20.0% Peg-6000, 0.1M Tris pH8.0
Resolution 2.50 Å R-free 0.234
8FVL PCSK9 in complex with an inhibitor Deposited 2023-01-19 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 1–152(152 aa) Fragment:prodomain residues 1-152
Chain B 153–692(540 aa)
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;293 K;20.0% Peg-6000, 0.1M Tris pH8.0
Resolution 1.96 Å R-free 0.218
8FVM PCSK9 in complex with an inhibitor Deposited 2023-01-19 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 1–152(152 aa)
Chain B 153–692(540 aa)
Not recorded CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;293 K;20.0% Peg-6000, 0.1M Tris pH8.0
Resolution 2.85 Å R-free 0.238
8FVN PCSK9 in complex with an inhibitor Deposited 2023-01-19 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 1–152(152 aa) Fragment:prodomain residues 1-152
Chain B 153–692(540 aa)
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;293 K;20.0% Peg-6000, 0.1M Tris pH8.0
Resolution 2.71 Å R-free 0.257
8FVO PCSK9 in complex with an inhibitor Deposited 2023-01-19 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 1–152(152 aa) Fragment:prodomain residues 1-152
Chain B 153–692(540 aa)
Not recorded CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;293 K;20.0% Peg-6000, 0.1M Tris pH8.0
Resolution 2.65 Å R-free 0.239
8FVP PCSK9 in complex with an inhibitor Deposited 2023-01-19 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 1–152(152 aa) Fragment:prodomain residues 1-152
Chain B 153–692(540 aa)
Not recorded CA CALCIUM ION × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;293 K;20.0% Peg-6000, 0.1M Tris pH8.0
Resolution 2.60 Å R-free 0.215
8FVQ PCSK9 in complex with an inhibitor Deposited 2023-01-19 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 1–152(152 aa) Fragment:prodomain residues 1-152
Chain B 153–692(540 aa)
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, HANGING DROP;293 K;20.0% Peg-6000, 0.1M Tris pH8.0
Resolution 2.57 Å R-free 0.260
8VDV pcsk9 in complex with inhibitor Deposited 2023-12-18 Assembly 1 Protein heterocomplex Heteromer;Protein × 3 PDB declaration: trimeric(3) Consistent with protein count
Chain A 61–152(92 aa) Fragment:PRODOMAIN, UNP RESIDUES 1-152
Chain B 153–681(529 aa) Fragment:UNP RESIDUES 153-692
Not recorded No recorded non-water small molecule X-RAY DIFFRACTION
X-ray crystallization conditions EVAPORATION;298 K;20.0% Peg-6000, 0.1M Tris pH8.0
Resolution 1.97 Å R-free 0.217
8WFR The Crystal Structure of PCSK9 from Biortus. Deposited 2023-09-20 Assembly 1 Protein homooligomer Homooligomer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 31–152(122 aa)
Chain B 153–692(540 aa)
Not recorded EPE 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID × 1 EDO 1,2-ETHANEDIOL × 2 GOL GLYCEROL × 2 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;293 K;0.1M HEPES pH7.5, 20% PEG 10000
Resolution 1.95 Å R-free 0.203
9HZ3 PCSK9 AZD0780 complex Deposited 2025-01-13 Assembly 1 Protein homooligomer Homooligomer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 1–152(152 aa)
Chain B 153–692(540 aa)
Not recorded A1IYR 1-[6-[[(1~{S},3~{S})-3-[[5-[bis(fluoranyl)methoxy]pyrimidin-2-yl]amino]cyclopentyl]amino]pyridin-3-yl]pyridin-2-one × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION;293 K;25 mM HEPES pH 7.5 300 mM NaCl 5% glycerol
Resolution 1.43 Å R-free 0.213
9SZY PCSK9 CTD fragment structure Deposited 2025-10-16 Assembly 1 Protein homooligomer Homooligomer;Protein × 2 PDB declaration: dimeric(2) Consistent with protein count
Chain A 1–152(152 aa)
Chain B 1–692(692 aa)
Not recorded A1JSM ~{N}-(2-methylpropyl)pyrimidin-2-amine × 1 X-RAY DIFFRACTION
X-ray crystallization conditions VAPOR DIFFUSION, SITTING DROP;293 K;25 mM HEPES pH 7.5 300 mM NaCl 5% glycerol
Resolution 1.76 Å R-free 0.236