7QW6

Adenine-specific DNA methyltransferase M.BseCI complexed with AdoHcy and cognate hemimethylated DNA duplex

• PDB DOI: https://doi.org/10.2210/pdb7QW6/pdb
• NAKB: 7QW6

• Classification: TRANSFERASE
• Organism(s): Geobacillus stearothermophilus
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-01-24 Released: 2023-01-25 
• Deposition Author(s): Mitsikas, D.A., Kouyianou, K., Kotsifaki, D., Providaki, M., Bouriotis, V., Glykos, N.M., Kokkinidis, M.
• Funding Organization(s): Not funded

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.206 
• R-Value Work: 0.176 
• R-Value Observed: 0.177 

Literature

Structure of M.BseCI DNA methyltransferase from Geobacillus stearothermophilus.

Mitsikas, D.A., Kouyianou, K., Kotsifaki, D., Providaki, M., Bouriotis, V., Glykos, N.M., Kokkinidis, M.

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: 74.25 kDa 
• Atom Count: 5,133 
• Modelled Residue Count: 576 
• Deposited Residue Count: 605 
• Unique protein chains: 1
• Unique nucleic acid chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Modification methylase BseCI	A	585	Geobacillus stearothermophilus	Mutation(s): 0  Gene Names: bseCIM EC: 2.1.1.72
UniProt
Find proteins for P43423 (Geobacillus stearothermophilus) Explore P43423  Go to UniProtKB:  P43423

Entity ID: 2
Molecule	Chains	Length	Organism	Image
Hemimethylated DNA duplex	B [auth Z]	10	Geobacillus stearothermophilus

Entity ID: 3
Molecule	Chains	Length	Organism	Image
Hemimethylated DNA duplex	C [auth Y]	10	Geobacillus stearothermophilus

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SAH (Subject of Investigation/LOI)	D [auth A]	S-ADENOSYL-L-HOMOCYSTEINE C14 H20 N6 O5 S ZJUKTBDSGOFHSH-WFMPWKQPSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.40 Å
• R-Value Free: 0.206 
• R-Value Work: 0.176 
• R-Value Observed: 0.177 
• Space Group: P 6₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 87.721	α = 90
b = 87.721	β = 90
c = 156.093	γ = 120

Software Package:

Software Name	Purpose
PHENIX	refinement
iMOSFLM	data reduction
Aimless	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-01-25 
Deposition Author(s): Mitsikas, D.A., Kouyianou, K., Kotsifaki, D., Providaki, M., Bouriotis, V., Glykos, N.M., Kokkinidis, M.

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Funding Organization	Location	Grant Number
Not funded	Greece	--

Revision History  

• Version 1.0: 2023-01-25
  Type: Initial release
  
• Version 1.1: 2024-01-31
  Changes: Data collection, Refinement description