1R9M Hydrolase date Oct 30, 2003
title Crystal Structure Of Human Dipeptidyl Peptidase Iv At 2.1 An Resolution.
authors K.Aertgeerts, S.Ye, M.G.Tennant, B.Collins, J.Rogers, B.C.Sang, R. D.R.Webb, G.S.Prasad
compound source
Molecule: Dipeptidyl Peptidase Iv
Chain: A, B, C, D
Synonym: Dpp Iv, T-Cell Activation Antigen Cd26, Tp103, Ade Deaminase Complexing Protein-2, Adabp;
Engineered: Yes
Organism_scientific: Homo Sapiens
Organism_common: Human
Organism_taxid: 9606
Gene: Dpp4, Adcp2, Cd26
Expression_system: Trichoplusia Ni
Expression_system_common: Cabbage Looper
Expression_system_taxid: 7111
Expression_system_vector_type: Baculovirus
Expression_system_vector: Pfastbachtb
symmetry Space Group: P 1 21 1
R_factor 0.218 R_Free 0.249
length a length b length c angle alpha angle beta angle gamma
121.823 124.056 144.491 90.00 114.71 90.00
method X-Ray Diffractionresolution 2.10 Å
ligand FUC, MAN, NAG enzyme Hydrolase E.C. BRENDA
related structures by homologous chain: 1NU6, 1U8E
A, D, C, B
  • virus receptor activity
  • chemorepellent activity

  • Primary referenceCrystal structure of human dipeptidyl peptidase IV in complex with a decapeptide reveals details on substrate specificity and tetrahedral intermediate formation., Aertgeerts K, Ye S, Tennant MG, Kraus ML, Rogers J, Sang BC, Skene RJ, Webb DR, Prasad GS, Protein Sci 2004 Feb;13(2):412-21. Epub 2004 Jan 10. PMID:14718659
    Data retrieval
  • Asymmetric unit, PDB entry: [header only] [complete with coordinates] (509 Kb) [Save to disk]
  • Biological Unit Coordinates (1r9m.pdb1.gz) 255 Kb
  • Biological Unit Coordinates (1r9m.pdb2.gz) 248 Kb
  • Biological Unit Coordinates (1r9m.pdb3.gz) 499 Kb
  • Biological Unit Coordinates (1r9m.pdb4.gz) 498 Kb
  • LPC: Ligand-Protein Contacts for 1R9M
  • CSU: Contacts of Structural Units for 1R9M
  • Likely Quarternary Molecular Structure file(s) for 1R9M
  • Retrieve 1R9M in mmCIF format [Save to disk]
  • SEQRES to COORDINATES correlation for 1R9M from S2C, [Save to disk]
  • View 1R9M 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 1R9M
  • 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 1R9M, from MSDmotif at EBI
  • Classification of representative domains in scop (Structural Classification of Proteins)
        - Domain d1r9ma1, region A:40-508 [Jmol] [rasmolscript] [script source]
        - Domain d1r9ma2, region A:509-766 [Jmol] [rasmolscript] [script source]
        - Domain d1r9mb1, region B:40-508 [Jmol] [rasmolscript] [script source]
        - Domain d1r9mb2, region B:509-766 [Jmol] [rasmolscript] [script source]
        - Domain d1r9mc1, region C:40-508 [Jmol] [rasmolscript] [script source]
        - Domain d1r9mc2, region C:509-766 [Jmol] [rasmolscript] [script source]
        - Domain d1r9md1, region D:40-508 [Jmol] [rasmolscript] [script source]
        - Domain d1r9md2, region D:509-766 [Jmol] [rasmolscript] [script source]
  • Fold representative 1r9m from FSSP and Dali (Families of Structurally Similar Proteins)
  • Class (fold), Architecture (subfold), Topology, Homologous superfamily from CATH
  • Summaries and structural analyses of PDB data files from PDBSum
  • Identification of Protein Pockets & Cavities at CASTp
  • Sequence-derived information
  • View one-letter amino acid or nucleotide sequence for each chain: [1r9m_A] [1r9m_D] [1r9m_C] [1r9m_B] [1r9m]
  • SWISS-PROT database: [P27487]
  • Domain organization of [DPP4_HUMAN] by SWISSPFAM
  • Other resources with information on 1R9M
  • Community annotation for 1R9M 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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