3BJM Hydrolase date Dec 04, 2007
title Crystal Structure Of Human Dpp-Iv In Complex With (1s,3s, 5s 2-Amino-2-(3-Hydroxytricyclo[3.3.1.13,7]Dec-1- Yl)Acetyl]-2 Azabicyclo[3.1.0]Hexane-3-Carbonitrile (Cas), (1s,3s,5s)-2- Amino-2-(3-Hydroxyadamantan-1- Yl)Acetyl)-2-Azabicyclo[3.1. 3-Carbonitrile (Iupac), Or Bms-477118
authors H.E.Klei
compound source
Molecule: Dipeptidyl Peptidase 4
Chain: A, B
Synonym: Dipeptidyl Peptidase Iv, Dpp Iv,T-Cell Activation Cd26, Tp103, Adenosine Deaminase Complexing Protein 2, Adab
Ec: 3.4.14.5
 Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
symmetry Space Group: P 21 21 21
R_factor 0.213 R_Free 0.253
crystal
cell
length a length b length c angle alpha angle beta angle gamma
65.278 67.954 423.816 90.00 90.00 90.00
method X-Ray Diffractionresolution 2.35 Å
ligand BJM, NAG BindingDB enzyme Hydrolase E.C.3.4.14.5 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, B
  • virus receptor activity
  • chemorepellent activity


    • Primary referenceInvolvement of DPP-IV catalytic residues in enzyme-saxagliptin complex formation., Metzler WJ, Yanchunas J, Weigelt C, Kish K, Klei HE, Xie D, Zhang Y, Corbett M, Tamura JK, He B, Hamann LG, Kirby MS, Marcinkeviciene J, Protein Sci. 2008 Feb;17(2):240-50. PMID:18227430
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (246 Kb) [Save to disk]
  • Biological Unit Coordinates (3bjm.pdb1.gz) 240 Kb
  • LPC: Ligand-Protein Contacts for 3BJM
  • CSU: Contacts of Structural Units for 3BJM
  • Likely Quarternary Molecular Structure file(s) for 3BJM
  • Structure Factors (647 Kb)
  • Retrieve 3BJM in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3BJM from S2C, [Save to disk]
  • Re-refined 3bjm structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
    • View 3BJM 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 3BJM
  • 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 3BJM, from MSDmotif at EBI
    • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3bjm] [3bjm_A] [3bjm_B]
  • SWISS-PROT database: [P27487]
  • Domain organization of [DPP4_HUMAN] by SWISSPFAM
    • Other resources with information on 3BJM
  • Community annotation for 3BJM at PDBWiki (http://pdbwiki.org)
  • MMDB (Entrez's Structure Database)
    • Movements, Movies and Images
  • Images from IMB Jena Image Library of Biological Macromolecules.

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