4PBX Hydrolase date Apr 14, 2014
title Crystal Structure Of The Six N-Terminal Domains Of Human Rec Protein Tyrosine Phosphatase Sigma
authors C.H.Coles, N.Mitakidis, P.Zhang, J.Elegheert, W.Lu, A.W.Stoker, T. A.M.Craig, E.Y.Jones, A.R.Aricescu
compound source
Molecule: Receptor-Type Tyrosine-Protein Phosphatase S
Chain: A
Fragment: Residues 30-588
Synonym: R-Ptp-S,Receptor-Type Tyrosine-Protein Phosphatase Ptp-Sigma;
Ec: 3.1.3.48
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Ptprs
Expression_system: Homo Sapiens
Expression_system_common: Human
Expression_system_taxid: 9606
Expression_system_cell_line: Hek293t
Expression_system_vector_type: Plasmid
Expression_system_plasmid: Phlsec
symmetry Space Group: P 61 2 2
R_factor 0.234 R_Free 0.265
crystal
cell
length a length b length c angle alpha angle beta angle gamma
198.780 198.780 132.400 90.00 90.00 120.00
method X-Ray Diffractionresolution 3.15 Å
ligand NAG enzyme Hydrolase E.C.3.1.3.48 BRENDA
Primary referenceStructural basis for extracellular cis and trans RPTPsigma signal competition in synaptogenesis., Coles CH, Mitakidis N, Zhang P, Elegheert J, Lu W, Stoker AW, Nakagawa T, Craig AM, Jones EY, Aricescu AR, Nat Commun. 2014 Nov 11;5:5209. doi: 10.1038/ncomms6209. PMID:25385546
Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (197 Kb) [Save to disk]
  • Biological Unit Coordinates (4pbx.pdb1.gz) 192 Kb
  • LPC: Ligand-Protein Contacts for 4PBX
  • CSU: Contacts of Structural Units for 4PBX
  • Structure Factors (422 Kb)
  • Retrieve 4PBX in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 4PBX from S2C, [Save to disk]
  • Re-refined 4pbx structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 4PBX 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 4PBX
  • Cartoon representation from PDB Cartoon
  • Ramachandran plot from PDBSum
  • Structure-derived information
  • Dipole moment, from Dipole Server at Weizmann Institute
  • Crystal Contacts, from CryCo at Weizmann Institute
  • 3D motif for 4PBX, from MSDmotif at EBI
  • Fold representative 4pbx from FSSP and Dali (Families of Structurally Similar Proteins)
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [4pbx] [4pbx_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
  • Domains found in 4PBX: [FN3] [IGc2 ] by SMART
  • Other resources with information on 4PBX
  • Community annotation for 4PBX at PDBWiki (http://pdbwiki.org)

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