7DSU

Structure of Mod subunit of the Type III restriction-modification enzyme Mbo45V

• PDB DOI: https://doi.org/10.2210/pdb7DSU/pdb

• Classification: DNA BINDING PROTEIN
• Organism(s): Mycoplasmopsis bovis
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2021-01-02 Released: 2022-01-05 
• Deposition Author(s): Ahmed, I., Chouhan, O.P., Gopinath, A., Morgan, R.D., Bhagat, K., Singh, A., Saikrishnan, K.
• Funding Organization(s): Science and Engineering Research Board (SERB)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free: 0.285 
• R-Value Work: 0.226 
• R-Value Observed: 0.229 

Literature

Structure of Mod subunit of the Type III restriction-modification enzyme Mbo45V

Ahmed, I., Chouhan, O.P., Gopinath, A., Morgan, R.D., Bhagat, K., Singh, A., Saikrishnan, K.

To be published.

Biological Assembly 1  

Global Symmetry: Cyclic - C2  (Explore in 3D)
Global Stoichiometry: Homo 2-mer - A2 

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

Biological Assembly Evidence: gel filtration

Macromolecule Content

• Total Structure Weight: 133.65 kDa 
• Atom Count: 6,294 
• Modelled Residue Count: 832 
• Deposited Residue Count: 1,134 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Mbo45V	A, B	567	Mycoplasmopsis bovis	Mutation(s): 0
UniProt
Find proteins for A0A2N8U1P8 (Mycoplasmopsis bovis) Explore A0A2N8U1P8  Go to UniProtKB:  A0A2N8U1P8

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SFG (Subject of Investigation/LOI)	C [auth A], D [auth B]	SINEFUNGIN C15 H23 N7 O5 LMXOHSDXUQEUSF-YECHIGJVSA-N
EDO	E [auth B]	1,2-ETHANEDIOL C2 H6 O2 LYCAIKOWRPUZTN-UHFFFAOYSA-N

Modified Residues  1 Unique
ID	Chains	Type	Formula	2D Diagram	Parent
MSE	A, B	L-PEPTIDE LINKING	C5 H11 N O2 Se		MET

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 3.20 Å
• R-Value Free: 0.285 
• R-Value Work: 0.226 
• R-Value Observed: 0.229 
• Space Group: P 2₁ 2₁ 2₁

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 95.296	α = 90
b = 100.875	β = 90
c = 187.316	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
XDS	data reduction
Aimless	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2022-01-05 
Deposition Author(s): Ahmed, I., Chouhan, O.P., Gopinath, A., Morgan, R.D., Bhagat, K., Singh, A., Saikrishnan, K.

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Funding Organization	Location	Grant Number
Science and Engineering Research Board (SERB)	India	--

Revision History  

• Version 1.0: 2022-01-05
  Type: Initial release
  
• Version 1.1: 2023-04-05
  Changes: Database references, Structure summary