3H0C

Crystal Structure of Human Dipeptidyl Peptidase IV (CD26) in Complex with a Reversed Amide Inhibitor

Structural Biology Knowledgebase: 3H0C SBKB.org


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.66 Å
  • R-Value Free: 0.271
  • R-Value Work: 0.204

wwPDB Validation Full Report


Literature

Macromolecules
Sequence Display for 3H0C

Classification: HYDROLASE

Total Structure Weight: 171652.49

Macromolecule Entities
Molecule Chains Length Organism Details
Dipeptidyl peptidase 4 A, B 728 Homo sapiens EC#: 3.4.14.5 IUBMB
Gene Name(s): DPP4 Gene View ADCP2 CD26

Small Molecules
Ligands 3 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
PS4
Query on PS4

A, B N-({(2S)-1-[(3R)-3-amino-4-(3-chlorophenyl)butanoyl]pyrrolidin- 2-yl}methyl)-3-(methylsulfonyl)benzamide
C23 H28 Cl N3 O4 S
QRGBOABBMKYMLG-UXHICEINSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NDG
Query on NDG

A, B 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
C8 H15 N O6
OVRNDRQMDRJTHS-PVFLNQBWSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
NAG
Query on NAG

A, B N-ACETYL-D-GLUCOSAMINE
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
Ligand Explorer
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
PS4 IC50: 0.38 nM (100) BindingDB

N/A in BindingMoad
N/A in PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.66 Å
  • R-Value Free: 0.271
  • R-Value Work: 0.204
  • Space Group: P 21 21 21
  • Electron Density Server: EDS EDS

Unit Cell:

Length (Å) Angle (°)
a = 65.69 α = 90.00
b = 67.07 β = 90.00
c = 425.14 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-04-09
  • Released Date: 2009-06-09
  • Deposition author(s): Nordhoff, S., Cerezo-Galvez, S., Deppe, H., Hill, O., Lopez-Canet, M., Rummey, C., Thiemann, M., Matassa, V.G., Edwards, P.J., Feurer, A.

Revision History

  • 2011-07-13
    Type: Non-polymer description | Details: chemical name/synonym update
  • 2011-07-13
    Type: Version format compliance | Details: compliance with PDB Exchange Dictionary V4