3BPS	Hydrolase Lipid Transport	date	Dec 19, 2007
title	Pcsk9:Egf-A Complex
authors	H.J.Kwon
compound		source
Molecule: Proprotein Convertase Subtilisinkexin Type 9 Chain: P Fragment: Prodomain, Unp Residues 53-152 Synonym: Proprotein Convertase Pc9, Subtilisinkexin-Like P Pc9, Neural Apoptosis-Regulated Convertase 1, Narc-1; Ec: 3.4.21.- Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Pcsk9, Narc1 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Hek293s
Molecule: Proprotein Convertase Subtilisinkexin Type 9 Chain: A Fragment: Catalytic Domain, Unp Residues 153-692 Synonym: Proprotein Convertase Pc9, Subtilisinkexin-Like P Pc9, Neural Apoptosis-Regulated Convertase 1, Narc-1; Ec: 3.4.21.- Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Pcsk9, Narc1 Expression_system: Escherichia Coli Expression_system_taxid: 562 Expression_system_strain: Hek293s
Molecule: Low-Density Lipoprotein Receptor Chain: E Fragment: Egf-Like 1, Egf-Like 2 Domains, Unp Residues 314- Synonym: Ldl Receptor Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ldlr Expression_system: Escherichia Coli Expression_system_taxid: 562
symmetry	Space Group: P 41 21 2	R_factor 0.203 R_Free 0.240
crystal cell	length a length b length c angle alpha angle beta angle gamma 116.952 116.952 134.878 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.41 Å
ligand	CA	enzyme	Hydrolase E.C.3.4.21 BRENDA
Gene Ontology	Chain Function Process Component A E
Primary reference	Molecular basis for LDL receptor recognition by PCSK9., Kwon HJ, Lagace TA, McNutt MC, Horton JD, Deisenhofer J, Proc Natl Acad Sci U S A. 2008 Feb 4;. PMID:18250299

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (95 Kb) [Save to disk] Biological Unit Coordinates (3bps.pdb1.gz) 88 Kb LPC: Ligand-Protein Contacts for 3BPS CSU: Contacts of Structural Units for 3BPS Likely Quarternary Molecular Structure file(s) for 3BPS Structure Factors (274 Kb) Retrieve 3BPS in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3BPS from S2C, [Save to disk] Re-refined 3bps structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3BPS in 3D

Proteopedia, because life has more than 2D. On Jmol, a nice Rasmol like molecule viewer. This is good for easiest viewing of basic structure. On FirstGlance, an excellent tool for a guided tour on the structure components, by E. Martz.

Visual 3D analysis of 3BPS

Ramachandran plot from PDBSum

Structure-derived information

Electron Density related parameters from EDS Electron Density Server, at Upsala Dipole moment, from Dipole Server at Weizmann Institute 3D motif for 3BPS, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3bps] [3bps_P] [3bps_A] [3bps_E] SWISS-PROT database: [P01130] [Q8NBP7] Domain organization of [LDLR_HUMAN] [PCSK9_HUMAN] by SWISSPFAM Domains found in 3BPS: [EGF_CA] [EGF_like ] by SMART

Other resources with information on 3BPS

Community annotation for 3BPS at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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