2XTJ image
Deposition Date 2010-10-10
Release Date 2010-11-03
Last Version Date 2024-11-06
Entry Detail
PDB ID:
2XTJ
Title:
The crystal structure of PCSK9 in complex with 1D05 Fab
Biological Source:
Source Organism:
HOMO SAPIENS (Taxon ID: 9606)
Host Organism:
Method Details:
Experimental Method:
Resolution:
2.70 Å
R-Value Free:
0.25
R-Value Work:
0.19
R-Value Observed:
0.20
Space Group:
P 21 21 21
Macromolecular Entities
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:PROPROTEIN CONVERTASE SUBTILISIN/KEXIN TYPE 9
Gene (Uniprot):PCSK9
Chain IDs:A
Chain Length:312
Number of Molecules:1
Biological Source:HOMO SAPIENS
Polymer Type:polypeptide(L)
Molecule:FAB FROM A HUMAN MONOCLONAL ANTIBODY, 1D05
Chain IDs:B
Chain Length:107
Number of Molecules:1
Biological Source:HOMO SAPIENS
Polymer Type:polypeptide(L)
Molecule:FAB FROM A HUMAN MONOCLONAL ANTIBODY, 1D05
Chain IDs:C
Chain Length:106
Number of Molecules:1
Biological Source:HOMO SAPIENS
Polymer Type:polypeptide(L)
Molecule:FAB FROM A HUMAN MONOCLONAL ANTIBODY, 1D05
Chain IDs:D
Chain Length:131
Number of Molecules:1
Biological Source:HOMO SAPIENS
Polymer Type:polypeptide(L)
Molecule:FAB FROM A HUMAN MONOCLONAL ANTIBODY, 1D05
Chain IDs:E
Chain Length:124
Number of Molecules:1
Biological Source:HOMO SAPIENS
Structures with similar UniProt ID
Protein Blast
Polymer Type:polypeptide(L)
Molecule:PROPROTEIN CONVERTASE SUBTILISIN-KEXIN TYPE 9
Gene (Uniprot):PCSK9
Chain IDs:F (auth: P)
Chain Length:114
Number of Molecules:1
Biological Source:HOMO SAPIENS
Ligand Molecules
Primary Citation
A Pcsk9-Binding Antibody that Structurally Mimics the Egf(A) Domain of Ldl-Receptor Reduces Ldl Cholesterol in Vivo.
J.Lipid Res. 52 78 ? (2011)
PMID: 20959675 DOI: 10.1194/JLR.M011445

Abstact

Proprotein convertase subtilisin-like/kexin type 9 (PCSK9) regulates LDL cholesterol levels by inhibiting LDL receptor (LDLr)-mediated cellular LDL uptake. We have identified a fragment antigen-binding (Fab) 1D05 which binds PCSK9 with nanomolar affinity. The fully human antibody 1D05-IgG2 completely blocks the inhibitory effects of wild-type PCSK9 and two gain-of-function human PCSK9 mutants, S127R and D374Y. The crystal structure of 1D05-Fab bound to PCSK9 reveals that 1D05-Fab binds to an epitope on the PCSK9 catalytic domain which includes the entire LDLr EGF(A) binding site. Notably, the 1D05-Fab CDR-H3 and CDR-H2 loops structurally mimic the EGF(A) domain of LDLr. In a transgenic mouse model (CETP/LDLr-hemi), in which plasma lipid and PCSK9 profiles are comparable to those of humans, 1D05-IgG2 reduces plasma LDL cholesterol to 40% and raises hepatic LDLr protein levels approximately fivefold. Similarly, in healthy rhesus monkeys, 1D05-IgG2 effectively reduced LDL cholesterol 20%-50% for over 2 weeks, despite its relatively short terminal half-life (t(1/2) = 3.2 days). Importantly, the decrease in circulating LDL cholesterol corresponds closely to the reduction in free PCSK9 levels. Together these results clearly demonstrate that the LDL-lowering effect of the neutralizing anti-PCSK9 1D05-IgG2 antibody is mediated by reducing the amount of PCSK9 that can bind to the LDLr.

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Chemical

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Primary Citation of related structures
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