2GBG

rat DPP-IV with alkynyl cyanopyrrolidine #2


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.269
  • R-Value Work: 0.235

Literature

Macromolecules
Sequence Display for 2GBG

Classification: HYDROLASE

Total Structure Weight: 169034.59

Macromolecule Entities
Molecule Chains Length Organism Details
Dipeptidyl peptidase 4 A, B 730 Rattus norvegicus EC#: 3.4.14.5 IUBMB
Fragment: Dipeptidyl Peptidase 4 Soluble Form (Residues 38-767)
Gene Name(s): Dpp4 Cd26
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
1AD
Query on 1AD

A (1S)-2-[(2S,5R)-2-(AMINOMETHYL)-5-PROP-1- YN-1-YLPYRROLIDIN-1-YL]-1-CYCLOPENTYL-2-OXOETHANAMINE
C15 H25 N3 O
RIKCMKYTGBHVSX-IHRRRGAJSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
SO4
Query on SO4

A SULFATE ION
O4 S
QAOWNCQODCNURD-UHFFFAOYSA-L
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
1AD N/A in BindingDB
N/A in BindingMoad
Ki: 56 nM  PDBbind

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 3.0 Å
  • R-Value Free: 0.269
  • R-Value Work: 0.235
  • Space Group: P 21 3

Unit Cell:

Length (Å) Angle (°)
a = 207.50 α = 90.00
b = 207.50 β = 90.00
c = 207.50 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2006-03-10
  • Released Date: 2006-07-04
  • Deposition author(s): Longenecker, K.L., Jakob, C.G., Fry, E.H., Wilk, S.

Revision History

  • Version 1_0: 2006-07-04

    Type: Initial release

  • Version 1_1: 2008-05-01

    Type: Version format compliance

  • Version 1_2: 2011-07-13

    Type: Version format compliance

  • Version 1_3: 2017-10-18

    Type: Refinement description