4AE3 | pdb_00004ae3

Crystal structure of ammosamide 272:myosin-2 motor domain complex

• PDB DOI: https://doi.org/10.2210/pdb4AE3/pdb

• Classification: HYDROLASE
• Organism(s): Dictyostelium discoideum AX4
• Expression System: Dictyostelium discoideum AX4
• Mutation(s): No 


• Deposited: 2012-01-05 Released: 2013-01-16 
• Deposition Author(s): Chinthalapudi, K., Heissler, S.M., Fenical, W., Manstein, D.J.

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free: 
  0.254 (Depositor), 0.250 (DCC) 
• R-Value Work: 
  0.214 (Depositor), 0.210 (DCC) 
• R-Value Observed: 
  0.216 (Depositor) 

Starting Model: experimental

Literature

Structural Basis for Ammosamide Mediated Myosin Motor Activity Inhibition

Chinthalapudi, K., Heissler, S.M., Fenical, W., Manstein, D.J.

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)

Macromolecule Content 

• Total Structure Weight: 89.88 kDa 
• Atom Count: 6,491 
• Modeled Residue Count: 743 
• Deposited Residue Count: 776 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
MYOSIN-2 HEAVY CHAIN	A	776	Dictyostelium discoideum AX4	Mutation(s): 0  EC: 3.6.4.1
UniProt
Find proteins for P08799 (Dictyostelium discoideum) Explore P08799  Go to UniProtKB:  P08799

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
AOV	B [auth A]	ADP ORTHOVANADATE C10 H17 N5 O14 P2 V SWCHWRVRYDCWAN-AZGWGOJFSA-J
27X	D [auth A], E [auth A]	AMMOSAMIDE 272 C13 H12 N4 O3 LBJXTHMUZLBEBR-UHFFFAOYSA-N
EDO	F [auth A], G [auth A], H [auth A], I [auth A]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N
MG	C [auth A]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.50 Å
• R-Value Free:  0.254 (Depositor), 0.250 (DCC) 
• R-Value Work:  0.214 (Depositor), 0.210 (DCC) 
• R-Value Observed: 0.216 (Depositor) 

Space Group: C 2 2 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 88.05	α = 90
b = 145.52	β = 90
c = 153.83	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PROTEUM2	data reduction
SADABS	data scaling
PHASER	phasing

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-01-16 
Deposition Author(s): Chinthalapudi, K., Heissler, S.M., Fenical, W., Manstein, D.J.

Revision History  

• Version 1.0: 2013-01-16
  Type: Initial release
  
• Version 1.1: 2023-12-20
  Changes: Data collection, Database references, Derived calculations, Other, Refinement description