4URT The crystal structure of a fragment of netrin-1 in complex with FN5- FN6 of DCC date
authors Finci, L.I., Krueger, N., Sun, X., Zhang, J., Chegkazi, M., Wu, Y., Schenk, G., Mertens, H.D.T., Svergun, D.I., Zhang, Y., Wang, J.h., Meijers, R.
compound source
symmetry
R_factor
R_Free 0.2649
crystal
cell
length a length b length c angle alpha angle beta angle gamma
method X-Ray Diffractionresolution 3.10
ligand CA, CL, GOL, NAG, SO4 enzyme
Gene
Ontology
ChainFunctionProcessComponent
B


Primary referenceThe Crystal Structure of Netrin-1 in Complex with DCC Reveals the Bifunctionality of Netrin-1 As a Guidance Cue., Finci LI, Kruger N, Sun X, Zhang J, Chegkazi M, Wu Y, Schenk G, Mertens HD, Svergun DI, Zhang Y, Wang JH, Meijers R, Neuron. 2014 Aug 20;83(4):839-49. doi: 10.1016/j.neuron.2014.07.010. Epub 2014, Aug 7. PMID:25123307
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (108 Kb) [Save to disk]
  • Biological Unit Coordinates (4urt.pdb1.gz) 133 Kb
  • LPC: Ligand-Protein Contacts for 4URT
  • CSU: Contacts of Structural Units for 4URT
  • Structure Factors (164 Kb)
  • Retrieve 4URT in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4URT from S2C, [Save to disk]
  • Re-refined 4urt structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 4URT 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 4URT
  • 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 4URT, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4urt_B] [4urt_A] [4urt]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4URT: [EGF_Lam] [FN3] [LamNT ] by SMART
    • Other resources with information on 4URT
  • Community annotation for 4URT at PDBWiki (http://pdbwiki.org)

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