3H9F

Crystal Structure of Human Dual Specificity Protein Kinase (TTK) in complex with a pyrimido-diazepin ligand


Experimental Data Snapshot

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.253
  • R-Value Work: 0.207

Literature

Macromolecules
Sequence Display for 3H9F

Classification: TRANSFERASE

Total Structure Weight: 36870.38

Macromolecule Entities
Molecule Chains Length Organism Details
Dual specificity protein kinase TTK A 313 Homo sapiens EC#: 2.7.12.1 IUBMB
Gene Name(s): TTK Gene View MPS1 MPS1L1
Metabolic Pathways
Maps:       
Reactions:
ESCHER  BiGG

Small Molecules
Ligands 2 Unique
ID Chains Name / Formula / InChI Key 2D Diagram 3D Interactions
92M
Query on 92M

A 9-cyclopentyl-2-(4-(4-hydroxypiperidin-1- yl)-2-methoxyphenylamino)-5-methyl-8,9-dihydro- 5H-pyrimido[4,5-b][1,4]diazepin-6(7H)-one
7, (Synonym)
C25 H34 N6 O3
KBILTEUAXWLXKP-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
MG
Query on MG

A MAGNESIUM ION
Mg
JLVVSXFLKOJNIY-UHFFFAOYSA-N
Ligand Explorer NGL
 
Binding Pocket (JSmol)
 
Electron Density (JSmol)
External Ligand Annotations
ID Binding Affinity (Sequence Identity %)
92M N/A in BindingDB
N/A in BindingMoad
Kd: 12 nM  PDBbind
Modified Residues 2 Unique
ID Chains Type Formula 2D Diagram Parent
TPO
Query on TPO
A L-PEPTIDE LINKING C4 H10 N O6 P THR
SEP
Query on SEP
A L-PEPTIDE LINKING C3 H8 N O6 P SER

Experimental Data & Validation

Experimental Data

  • Method: X-RAY DIFFRACTION
  • Resolution: 2.6 Å
  • R-Value Free: 0.253
  • R-Value Work: 0.207
  • Space Group: I 2 2 2

Unit Cell:

Length (Å) Angle (°)
a = 70.69 α = 90.00
b = 110.75 β = 90.00
c = 115.20 γ = 90.00

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History

Deposition Data

  • Deposited Date: 2009-04-30
  • Released Date: 2009-05-19
  • Deposition author(s): Filippakopoulos, P., Soundararajan, M., Keates, T., Elkins, J.M., King, O., Fedorov, O., Picaud, S.S., Pike, A.C.W., Yue, W., Chaikuad, A., von Delft, F., Arrowsmith, C.H., Edwards, A., Weigelt, J., Bountra, C., Kwiatkowski, N., Gray, N.S., Knapp, S., Structural Genomics Consortium (SGC)

Revision History

  • Version 1_0: 2009-05-19

    Type: Initial release

  • Version 1_1: 2011-07-13

    Type: Advisory, Version format compliance