6KYR

Crystal structure of DCLK1 mutant (P675L) Autoinhibited Kinase Domain

• PDB DOI: https://doi.org/10.2210/pdb6KYR/pdb

• Classification: SIGNALING PROTEIN
• Organism(s): Homo sapiens
• Expression System: Escherichia coli
• Mutation(s): Yes 


• Deposited: 2019-09-20 Released: 2020-09-23 
• Deposition Author(s): Yu, Y., Chen, Q.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.21 Å
• R-Value Free: 0.201 
• R-Value Work: 0.179 
• R-Value Observed: 0.182 

Literature

DCLK1 Autoinhibition and Activation in Tumorigenesis

Cheng, L., Yang, Z., Guo, W., Wu, C., Liang, S., Tong, A., Cao, Z., Thorne, R.F., Yang, S.Y., Yu, Y., Chen, Q.

(2021) Innovation (Camb) 

• DOI: https://doi.org/10.1016/j.xinn.2021.100191

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: gel filtration

Biological Assembly 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Macromolecule Content

• Total Structure Weight: 73.5 kDa 
• Atom Count: 5,318 
• Modelled Residue Count: 621 
• Deposited Residue Count: 656 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Serine/threonine-protein kinase DCLK1	A, B	328	Homo sapiens	Mutation(s): 1  Gene Names: DCLK1, DCAMKL1, DCDC3A, KIAA0369 EC: 2.7.11.1
UniProt & NIH Common Fund Data Resources
Find proteins for O15075 (Homo sapiens) Explore O15075  Go to UniProtKB:  O15075
PHAROS:  O15075 GTEx:  ENSG00000133083

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
BME	C [auth A], D [auth A], E [auth B]	BETA-MERCAPTOETHANOL C2 H6 O S DGVVWUTYPXICAM-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.21 Å
• R-Value Free: 0.201 
• R-Value Work: 0.179 
• R-Value Observed: 0.182 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 77.941	α = 90
b = 78.003	β = 90
c = 177.611	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
HKL-3000	data reduction
HKL-3000	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2020-09-23 
Deposition Author(s): Yu, Y., Chen, Q.

Revision History  

• Version 1.0: 2020-09-23
  Type: Initial release
  
• Version 1.1: 2021-12-08
  Changes: Database references
• Version 1.2: 2023-11-22
  Changes: Data collection, Database references, Refinement description