7O9Y

Crystal structure of di-phosphorylated human CLK1 in complex with 4-(1H-indol-3-yl)pyrimidin-2-amine

• PDB DOI: https://doi.org/10.2210/pdb7O9Y/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2021-04-18 Released: 2022-05-04 
• Deposition Author(s): Livnah, O., Domovich, Y., Bracher, F., Aiger, C.
• Funding Organization(s): German-Israeli Foundation for Research and Development

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.66 Å
• R-Value Free: 0.246 
• R-Value Work: 0.217 
• R-Value Observed: 0.219 

Literature

Development of novel CLK1 inhibitors as potential drugs for treatment of Chikungunya virus infections

Livnah, O., Domovich, Y., Bracher, F., Aiger, C.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

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

Biological Assembly Evidence: homology

Macromolecule Content

• Total Structure Weight: 39.66 kDa 
• Atom Count: 2,908 
• Modelled Residue Count: 330 
• Deposited Residue Count: 337 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Dual specificity protein kinase CLK1	A	337	Homo sapiens	Mutation(s): 0  Gene Names: CLK1, CLK EC: 2.7.12.1
UniProt & NIH Common Fund Data Resources
Find proteins for P49759 (Homo sapiens) Explore P49759  Go to UniProtKB:  P49759
PHAROS:  P49759 GTEx:  ENSG00000013441

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
V5T (Subject of Investigation/LOI)	B [auth A]	4-(1~{H}-indol-3-yl)pyrimidin-2-amine C12 H10 N4 QNMZWFNNJMGJPU-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.66 Å
• R-Value Free: 0.246 
• R-Value Work: 0.217 
• R-Value Observed: 0.219 
• Space Group: P 6₅ 2 2

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 68.43	α = 90
b = 68.43	β = 90
c = 284.45	γ = 120

Software Package:

Software Name	Purpose
REFMAC	refinement
MOSFLM	data reduction
XSCALE	data scaling
MOLREP	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-05-04 
Deposition Author(s): Livnah, O., Domovich, Y., Bracher, F., Aiger, C.

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Funding Organization	Location	Grant Number
German-Israeli Foundation for Research and Development	Israel	i-1453-207.9/2018

Revision History  

• Version 1.0: 2022-05-04
  Type: Initial release
  
• Version 1.1: 2024-01-31
  Changes: Data collection, Refinement description