5FWW Signaling Protein date Feb 21, 2016
title Wnt Modulator Kremen In Complex With Dkk1 (Crd2) And Lrp6 (P
authors M.Zebisch, V.A.Jackson, E.Y.Jones
compound source
Molecule: Low-Density Lipoprotein Receptor-Related Protein
Chain: A
Fragment: Pe3pe4, Residues 630-1246
Synonym: Lrp-6
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Lrp6
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293
Expression_system_vector: Phlsec
Expression_system_plasmid: Phlsec

Molecule: Kremen Protein 1
Chain: B
Fragment: Ecd, Residues 30-322
Synonym: Dickkopf Receptor, Kringle Domain-Containing Trans Protein 1, Kringle-Containing Protein Marking The Eye And Nose;
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Kremen1, Kremen, Krm1
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293
Expression_system_vector: Phlsec
Expression_system_plasmid: Phlsec

Molecule: Dickkopf-Related Protein 1
Chain: C
Fragment: Crd2, Residues 182-266
Synonym: Hdkk-1, Sk
Engineered: Yes

Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dkk1, Unq492pro1008
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293
Expression_system_plasmid: Phlsec
symmetry Space Group: C 2 2 21
R_factor 0.32128 R_Free 0.35528
crystal
cell
length a length b length c angle alpha angle beta angle gamma
86.933 100.080 270.728 90.00 90.00 90.00
method X-Ray Diffractionresolution 3.50 Å
ligand CA enzyme
Primary referenceStructure of the Dual-Mode Wnt Regulator Kremen1 and Insight into Ternary Complex Formation with LRP6 and Dickkopf., Zebisch M, Jackson VA, Zhao Y, Jones EY, Structure. 2016 Sep 6;24(9):1599-1605. doi: 10.1016/j.str.2016.06.020. Epub 2016 , Aug 11. PMID:27524201
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (162 Kb) [Save to disk]
  • Biological Unit Coordinates (5fww.pdb1.gz) 157 Kb
  • LPC: Ligand-Protein Contacts for 5FWW
  • CSU: Contacts of Structural Units for 5FWW
  • Structure Factors (158 Kb)
  • Retrieve 5FWW in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5FWW from S2C, [Save to disk]
  • Re-refined 5fww structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5FWW 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 5FWW
  • 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
  • Fold representative 5fww from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5fww_A] [5fww_B] [5fww] [5fww_C]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 5FWW: [CUB] [EGF] [KR] [LY] [WSC ] by SMART
  • Other resources with information on 5FWW
  • Community annotation for 5FWW at PDBWiki (http://pdbwiki.org)

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