4V2A Apoptosis date Oct 08, 2014
title Human Unc5a Ectodomain
authors E.Seiradake, D.Del Toro, D.Nagel, F.Cop, R.Haertl, T.Ruff, G.Seyit K.Harlos, E.C.Border, A.Acker-Palmer, E.Y.Jones, R.Klein
compound source
Molecule: Netrin Receptor Unc5a
Chain: A
Fragment: Ectodomain, Unp Residues 1-303
Synonym: Protein Unc-5 Homolog 1, Protein Unc-5 Homolog A,
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_plasmid: Phlsec
symmetry Space Group: P 21 21 21
R_factor 0.327 R_Free 0.344
length a length b length c angle alpha angle beta angle gamma
25.830 87.770 133.820 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.40 Å
ligand NAG enzyme

Primary referenceFLRT structure: balancing repulsion and cell adhesion in cortical and vascular development., Seiradake E, del Toro D, Nagel D, Cop F, Hartl R, Ruff T, Seyit-Bremer G, Harlos K, Border EC, Acker-Palmer A, Jones EY, Klein R, Neuron. 2014 Oct 22;84(2):370-85. doi: 10.1016/j.neuron.2014.10.008. Epub 2014, Oct 22. PMID:25374360
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (89 Kb) [Save to disk]
  • Biological Unit Coordinates (4v2a.pdb1.gz) 84 Kb
  • LPC: Ligand-Protein Contacts for 4V2A
  • CSU: Contacts of Structural Units for 4V2A
  • Structure Factors (198 Kb)
  • Retrieve 4V2A in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4V2A from S2C, [Save to disk]
  • Re-refined 4v2a structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4V2A 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 4V2A
  • 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 4V2A, from MSDmotif at EBI
  • Fold representative 4v2a from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4v2a_A] [4v2a]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4V2A: [IG] [TSP1 ] by SMART
  • Other resources with information on 4V2A
  • Community annotation for 4V2A at PDBWiki (http://pdbwiki.org)

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