3Q8W

A b-aminoacyl containing thiazolidine derivative and DPPIV complex

• PDB DOI: https://doi.org/10.2210/pdb3Q8W/pdb

• Classification: HYDROLASE/HYDROLASE INHIBITOR
• Organism(s): Homo sapiens
• Expression System: Trichoplusia ni
• Mutation(s): No 


• Deposited: 2011-01-07 Released: 2011-03-16 
• Deposition Author(s): Lee, J.O., Song, D.H.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.64 Å
• R-Value Free: 
  0.324 (Depositor) 
• R-Value Work: 
  0.282 (Depositor), 0.272 (DCC) 
• R-Value Observed: 
  0.282 (Depositor) 

Literature

Discovery of b-aminoacyl containing thiazolidine derivatives as potent and selective dipeptidyl peptidase IV inhibitors

Park, W.S., Kang, S.K., Jun, M.A., Shin, M.S., Kim, K.Y., Rhee, S.D., Bae, M.A., Kim, M.S., Kim, K.R., Kang, N.S., Yoo, S.E., Lee, J.O., Song, D.H., Silinski, P., Schneider, S.E., Ahn, J.H., Kim, S.S.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 171.27 kDa 
• Atom Count: 11,972 
• Modelled Residue Count: 1,452 
• Deposited Residue Count: 1,464 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Dipeptidyl peptidase 4	A, B	732	Homo sapiens	Mutation(s): 0  Gene Names: DPP4, ADCP2, CD26 EC: 3.4.14.5
UniProt & NIH Common Fund Data Resources
Find proteins for P27487 (Homo sapiens) Explore P27487  Go to UniProtKB:  P27487
PHAROS:  P27487 GTEx:  ENSG00000197635

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
AZV	C [auth A], D [auth B]	N-(4-{[({(2R)-3-[(3R)-3-amino-4-(2,4,5-trifluorophenyl)butanoyl]-1,3-thiazolidin-2-yl}carbonyl)amino]methyl}phenyl)-D-valine C26 H31 F3 N4 O4 S ZUNWVBNRQTWJFD-WQWSHVPRSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
AZV	BindingDB:  3Q8W	IC50: 10 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.64 Å
• R-Value Free:  0.324 (Depositor) 
• R-Value Work:  0.282 (Depositor), 0.272 (DCC) 
• R-Value Observed: 0.282 (Depositor) 

Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 118.412	α = 90
b = 124.501	β = 90
c = 133.119	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data collection
PHASER	phasing
CNS	refinement
HKL-2000	data reduction
SCALEPACK	data scaling

Structure Validation

Entry History 

Deposition Data

• Released Date: 2011-03-16 
Deposition Author(s): Lee, J.O., Song, D.H.

Revision History  

• Version 1.0: 2011-03-16
  Type: Initial release
  
• Version 1.1: 2011-07-13
  Changes: Version format compliance
• Version 1.2: 2024-10-30
  Changes: Data collection, Database references, Derived calculations, Structure summary