6AYW | pdb_00006ayw

The structure of human CamKII with bound inhibitor

• PDB DOI: https://doi.org/10.2210/pdb6AYW/pdb

• Classification: TRANSFERASE/TRANSFERASE Inhibitor
• Organism(s): Homo sapiens
• Expression System: unidentified baculovirus
• Mutation(s): No 


• Deposited: 2017-09-08 Released: 2017-11-15 
• Deposition Author(s): Somoza, J.R., Villasenor, A.G.

---

Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free: 
  0.267 (Depositor), 0.270 (DCC) 
• R-Value Work: 
  0.199 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.202 (Depositor) 

Literature

The structure of human CamKII with bound inhibitor

Somoza, J.R., Villasenor, A.G.

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 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: 70.01 kDa 
• Atom Count: 5,043 
• Modeled Residue Count: 586 
• Deposited Residue Count: 604 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Calcium/calmodulin-dependent protein kinase type II subunit delta	A, B	302	Homo sapiens	Mutation(s): 0  Gene Names: CAMK2D, CAMKD EC: 2.7.11.17
UniProt & NIH Common Fund Data Resources
Find proteins for Q13557 (Homo sapiens) Explore Q13557  Go to UniProtKB:  Q13557
PHAROS:  Q13557 GTEx:  ENSG00000145349

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
C2V	C [auth A], F [auth B]	N-[2-(dimethylamino)ethyl]-3-[6-(thiophen-2-yl)imidazo[1,2-b]pyridazin-3-yl]benzamide C21 H21 N5 O S WWJQERVKTFKCOB-UHFFFAOYSA-N
DTT	D [auth A], E [auth B]	2,3-DIHYDROXY-1,4-DITHIOBUTANE C4 H10 O2 S2 VHJLVAABSRFDPM-IMJSIDKUSA-N

Binding Affinity Annotations
ID	Source	Binding Affinity
C2V	BindingDB:  6AYW	IC50: 37 (nM) from 1 assay(s)

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.05 Å
• R-Value Free:  0.267 (Depositor), 0.270 (DCC) 
• R-Value Work:  0.199 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.202 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 54.149	α = 90
b = 68.11	β = 94.558
c = 84.825	γ = 90

Software Package:

Software Name	Purpose
HKL-2000	data processing
EPMR	phasing
PHENIX	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2017-11-15 
Deposition Author(s): Somoza, J.R., Villasenor, A.G.

Revision History  

• Version 1.0: 2017-11-15
  Type: Initial release
  
• Version 1.1: 2024-03-13
  Changes: Data collection, Database references