5T4N Cell Adhesion date Aug 29, 2016
title Crystal Structure Of Human Protocadherin-15 Ec3-5 D414a Vari
authors R.E.Powers, R.Gaudet, M.Sotomayor
compound source
Molecule: Protocadherin-15
Chain: A, B
Fragment: Cadherin Domains 3-5, Residues 263-616
Engineered: Yes
Mutation: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Pcdh15, Ush1f
Expression_system: Escherichia Coli
Expression_system_taxid: 469008
Expression_system_strain: Bl21(De3)
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Pet21
symmetry Space Group: P 65
R_factor 0.202 R_Free 0.239
crystal
cell
length a length b length c angle alpha angle beta angle gamma
105.655 105.655 193.767 90.00 90.00 120.00
method X-Ray Diffractionresolution 2.70 Å
ligand CA, CL enzyme
Gene
Ontology
ChainFunctionProcessComponent
A, B


Primary referenceA Partial Calcium-Free Linker Confers Flexibility to Inner-Ear Protocadherin-15., Powers RE, Gaudet R, Sotomayor M, Structure. 2017 Mar 7;25(3):482-495. doi: 10.1016/j.str.2017.01.014. Epub 2017, Feb 23. PMID:28238533
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (238 Kb) [Save to disk]
  • Biological Unit Coordinates (5t4n.pdb1.gz) 115 Kb
  • Biological Unit Coordinates (5t4n.pdb2.gz) 119 Kb
  • LPC: Ligand-Protein Contacts for 5T4N
  • CSU: Contacts of Structural Units for 5T4N
  • Structure Factors (421 Kb)
  • Retrieve 5T4N in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5T4N from S2C, [Save to disk]
  • Re-refined 5t4n structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 5T4N 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 5T4N
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5t4n_A] [5t4n_B] [5t4n]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Other resources with information on 5T4N
  • Community annotation for 5T4N at PDBWiki (http://pdbwiki.org)

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