5T4B Hydrolase Hydrolase Inhibitor date Aug 29, 2016
title Human Dpp4 In Complex With A Ligand 34a
authors G.Scapin
compound source
Molecule: Dipeptidyl Peptidase 4
Chain: A, B
Synonym: Adabp,Adenosine Deaminase Complexing Protein 2,Adc Dipeptidyl Peptidase Iv,Dpp Iv,T-Cell Activation Antigen Cd
Ec: 3.4.14.5
Engineered: Yes
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dpp4, Adcp2, Cd26
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
symmetry Space Group: P 21 21 21
R_factor 0.158 R_Free 0.186
crystal
cell
length a length b length c angle alpha angle beta angle gamma
117.610 125.680 137.170 90.00 90.00 90.00
method X-Ray Diffractionresolution 1.76 Å
ligand 75N, NA, NAG enzyme Hydrolase E.C.3.4.14.5 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • virus receptor activity
  • chemorepellent activity


    • Primary referenceScaffold-hopping from xanthines to tricyclic guanines: A case study of dipeptidyl peptidase 4 (DPP4) inhibitors., Pissarnitski DA, Zhao Z, Cole D, Wu WL, Domalski M, Clader JW, Scapin G, Voigt J, Soriano A, Kelly T, Powles MA, Yao Z, Burnett DA, Bioorg Med Chem. 2016 Sep 4. pii: S0968-0896(16)30694-0. doi:, 10.1016/j.bmc.2016.09.007. PMID:27670099
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (293 Kb) [Save to disk]
  • Biological Unit Coordinates (5t4b.pdb1.gz) 286 Kb
  • LPC: Ligand-Protein Contacts for 5T4B
  • CSU: Contacts of Structural Units for 5T4B
  • Structure Factors (5572 Kb)
  • Retrieve 5T4B in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 5T4B from S2C, [Save to disk]
  • Re-refined 5t4b structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 5T4B 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 5T4B
  • 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
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [5t4b] [5t4b_B] [5t4b_A]
  • SWISS-PROT database:
  • Domain organization of by SWISSPFAM
    • Other resources with information on 5T4B
  • Community annotation for 5T4B at PDBWiki (http://pdbwiki.org)

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