3D4L	Hydrolase	date	May 14, 2008
title	Human Dipeptidyl Peptidase Ivcd26 In Complex With A Novel I
authors	G.Scapin
compound		source
Molecule: Dipeptidyl Peptidase 4 Soluble Form Chain: A, B Fragment: Extracellular Domain (Residues 39-766) Synonym: Dipeptidyl Peptidase Iv, Dpp Iv, T-Cell Activation Cd26, Tp103, Adenosine Deaminase Complexing Protein 2, Adab Dipeptidyl Peptidase 4 Membrane Form, Dipeptidyl Peptidase Membrane Form, Dipeptidyl Peptidase 4 Soluble Form, Dipepti Peptidase Iv Soluble Form; Ec: 3.4.14.5 Engineered: Yes Mutation: Yes		Organism_scientific: Homo Sapiens Organism_common: Human Organism_taxid: 9606 Gene: Dpp4, Adcp2, Cd26 Expression_system: Spodoptera Frugiperda Expression_system_strain: Hi5 Expression_system_vector_type: Baculovirus Expression_system_plasmid: Pbluebac4.5
symmetry	Space Group: P 21 21 21	R_factor 0.192 R_Free 0.217
crystal cell	length a length b length c angle alpha angle beta angle gamma 118.435 125.749 137.175 90.00 90.00 90.00
method	X-Ray Diffraction	resolution	2.00 Å
ligand	605, NA, NAG, NDG BindingDB	enzyme	Hydrolase E.C.3.4.14.5 BRENDA
Gene Ontology	Chain Function Process Component A, B virus receptor activity chemorepellent activity
Primary reference	Discovery of new binding elements in DPP-4 inhibition and their applications in novel DPP-4 inhibitor design., Liang GB, Qian X, Biftu T, Singh S, Gao YD, Scapin G, Patel S, Leiting B, Patel R, Wu J, Zhang X, Thornberry NA, Weber AE, Bioorg Med Chem Lett. 2008 Jul 1;18(13):3706-10. Epub 2008 May 20. PMID:18524582

Data retrieval

Asymmetric unit, PDB entry: [header only] [complete with coordinates] (268 Kb) [Save to disk] Biological Unit Coordinates (3d4l.pdb1.gz) 260 Kb LPC: Ligand-Protein Contacts for 3D4L CSU: Contacts of Structural Units for 3D4L Likely Quarternary Molecular Structure file(s) for 3D4L Structure Factors (1144 Kb) Retrieve 3D4L in mmCIF format [Save to disk] SEQRES to COORDINATES correlation for 3D4L from S2C, [Save to disk] Re-refined 3d4l structure from PDB_REDO, a databank with updated and optimised macromolecular X-ray diffraction structure models

View 3D4L 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 3D4L

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 3D4L, from MSDmotif at EBI

Sequence-derived information

View one-letter amino acid or nucleotide sequence for each chain: [3d4l_A] [3d4l_B] [3d4l] SWISS-PROT database: [P27487] Domain organization of [DPP4_HUMAN] by SWISSPFAM

Other resources with information on 3D4L

Community annotation for 3D4L at PDBWiki (http://pdbwiki.org) MMDB (Entrez's Structure Database)

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