3P5C The structure of the LDLR/PCSK9 complex reveals the receptor in an extended conformation date
authors Surdo, P.Lo., Bottomley, M.J., Calzetta, A., Settembre, E.C., Cirillo, A., Pandit, S., Ni, Y., Hubbard, B., Sitlani, A., Carfi, A.
compound source
symmetry
R_factor
R_Free 0.3483
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 4.20
ligand CA enzyme
Gene
Ontology
ChainFunctionProcessComponent
A


L


Primary referenceMechanistic implications for LDL receptor degradation from the PCSK9/LDLR structure at neutral pH., Lo Surdo P, Bottomley MJ, Calzetta A, Settembre EC, Cirillo A, Pandit S, Ni YG, Hubbard B, Sitlani A, Carfi A, EMBO Rep. 2011 Dec 1;12(12):1300-5. doi: 10.1038/embor.2011.205. PMID:22081141
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (155 Kb) [Save to disk]
  • Biological Unit Coordinates (3p5c.pdb1.gz) 148 Kb
  • LPC: Ligand-Protein Contacts for 3P5C
  • CSU: Contacts of Structural Units for 3P5C
  • Structure Factors (303 Kb)
  • Retrieve 3P5C in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3P5C from S2C, [Save to disk]
  • Re-refined 3p5c structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3P5C 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 3P5C
  • 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 3P5C, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3p5c_A] [3p5c_L] [3p5c_P] [3p5c]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 3P5C: [EGF_CA] [EGF_like] [LDLa] [LY ] by SMART
  • Other resources with information on 3P5C
  • Community annotation for 3P5C at PDBWiki (http://pdbwiki.org)
  • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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