3JYH Hydrolase date Sep 21, 2009
title Human Dipeptidyl Peptidase Dpp7
authors E.Dobrovetsky, A.Dong, A.Seitova, L.Crombett, S.Paganon, D.Cossar A.M.Edwards, C.H.Arrowsmith, C.Bountra, J.Weigelt, A.Hassel, L.S A.Bochkarev, Structural Genomics Consortium (Sgc)
compound source
Molecule: Dipeptidyl-Peptidase 2
Chain: A, B, C, D
Fragment: Peptidase Domain: Unp Residues 28-492
Synonym: Dipeptidyl-Peptidase II, Dpp II, Dipeptidyl Aminop II, Quiescent Cell Proline Dipeptidase, Dipeptidyl Peptidas
Ec: 3.4.14.2
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dpp2, Dpp7, Qpp
Expression_system: Spodoptera Frugiperda
Expression_system_taxid: 7108
Expression_system_strain: Sf9
Expression_system_cell_line: Sf9 Insect Cells
Expression_system_vector_type: Plasmid
Expression_system_vector: Baculovirus
Expression_system_plasmid: Pfhmsp-Lic-N
symmetry Space Group: P 1 21 1
R_factor 0.180 R_Free 0.222
crystal
cell
length a length b length c angle alpha angle beta angle gamma
80.216 130.215 124.436 90.00 102.36 90.00
method X-Ray Diffractionresolution 2.19 Å
ligand BMA, NAG enzyme Hydrolase E.C.3.4.14.2 BRENDA
Gene
Ontology
ChainFunctionProcessComponent
A, D, C, B


Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (305 Kb) [Save to disk]
  • Biological Unit Coordinates (3jyh.pdb1.gz) 152 Kb
  • Biological Unit Coordinates (3jyh.pdb2.gz) 148 Kb
  • LPC: Ligand-Protein Contacts for 3JYH
  • CSU: Contacts of Structural Units for 3JYH
  • Structure Factors (1924 Kb)
  • Retrieve 3JYH in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 3JYH from S2C, [Save to disk]
  • Re-refined 3jyh structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models
  • View 3JYH 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 3JYH
  • 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 3JYH, from MSDmotif at EBI
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [3jyh] [3jyh_C] [3jyh_A] [3jyh_B] [3jyh_D]
  • SWISS-PROT database: [Q9UHL4]
  • Domain organization of [DPP2_HUMAN] by SWISSPFAM
  • Other resources with information on 3JYH
  • Community annotation for 3JYH 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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