2FCW	Lipid Transport Endocytosis Chaperone	date	Dec 12, 2005
title	Structure Of A Complex Between The Pair Of The Ldl Receptor Ligand-Binding Modules 3-4 And The Receptor Associated Protein (Rap).
authors	N.Beglova, C.Fisher, S.C.Blacklow
compound		source
Molecule: Alpha-2-Macroglobulin Receptor-Associated Protein; Chain: A Fragment: Domain Three Synonym: Alpha-2- Mrap, Low Density Lipoprotein Receptor- Related Protein-Associated Protein 1, Rap; Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Expression_system: Escherichia Coli Bl21 Expression_system_taxid: 511693 Expression_system_strain: Bl21 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pdest15
Molecule: Low-Density Lipoprotein Receptor Chain: B Fragment: A Pair Of Ligand-Binding Modules 3 And 4 Synonym: Ldl Receptor Engineered: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Ldlr Expression_system: Escherichia Coli Bl21 Expression_system_taxid: 511693 Expression_system_strain: Bl21 Expression_system_vector_type: Plasmid Expression_system_plasmid: Pmm
symmetry	Space Group: C 1 2 1	R_factor R_Free
crystal cell	length a length b length c angle alpha angle beta angle gamma 118.523 30.019 58.143 90.00 96.57 90.00
method	X-Ray Diffraction	resolution	1.26 Å
ligand	CA, MPD, NA	enzyme
note	2FCW is a representative structure
Gene Ontology	Chain Function Process Component A asialoglycoprotein receptor ... heparin binding lipase binding receptor antagonist activity... low-density lipoprotein part... unfolded protein binding very-low-density lipoprotein... protein folding negative regulation of very-... vesicle-mediated transport negative regulation of prote... extracellular negative regul... negative regulation of beta-... extracellular region cytoplasm endoplasmic reticulum plasma membrane cell surface integral to membrane vesicle rough endoplasmic reticulum ...
Primary reference	Structure of an LDLR-RAP complex reveals a general mode for ligand recognition by lipoprotein receptors., Fisher C, Beglova N, Blacklow SC, Mol Cell. 2006 Apr 21;22(2):277-83. PMID:16630895

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (76 Kb) [Save to disk] Biological Unit Coordinates (2fcw.pdb1.gz) 71 Kb Biological Unit Coordinates (2fcw.pdb2.gz) 140 Kb LPC: Ligand-Protein Contacts for 2FCW CSU: Contacts of Structural Units for 2FCW Likely Quarternary Molecular Structure file(s) for 2FCW Structure Factors (376 Kb) Retrieve 2FCW in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 2FCW from S2C, [Save to disk] Re-refined 2fcw structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 2FCW 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. On AstexViewer, from MSD-EBI (viewer documentation). On RasMol (Install RasMol freeware) Here's help on how to use RasMol.

Visual 3D analysis of 2FCW

Cartoon representation from PDB Cartoon 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 Crystal Contacts, from CryCo at Weizmann Institute 3D motif for 2FCW, from MSDmotif at EBI Fold representative 2fcw from FSSP and Dali (Families of Structurally Similar Proteins)

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [2fcw_A] [2fcw_B] SWISS-PROT database: [P30533] [P01130] Domain organization of [AMRP_HUMAN] [LDLR_HUMAN] by SWISSPFAM Domain found in 2FCW: [LDLa ] by SMART Alignments of the sequence of 2FCW with the sequences similar proteins can be viewed for 2FCW's classification [AMRP_HUMAN] [LDLR_HUMAN] at ProtoMap. Click on "Neighbors List", then on the "See Alignments" button below the list. A sequence distance tree ("phylogenetic tree") can be viewed for 1ACL's classification [AMRP_HUMAN] [LDLR_HUMAN] at ProtoMap. Click on the Cluster number.

Other resources with information on 2FCW

Community annotation for 2FCW at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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