1ON0 | pdb_00001on0

Crystal Structure of Putative Acetyltransferase (YycN) from Bacillus subtilis, NORTHEAST STRUCTURAL GENOMICS CONSORTIUM TARGET SR144

• PDB DOI: https://doi.org/10.2210/pdb1ON0/pdb

• Classification: STRUCTURAL GENOMICS, UNKNOWN FUNCTION
• Organism(s): Bacillus subtilis
• Expression System: Escherichia coli BL21
• Mutation(s): Yes 


• Deposited: 2003-02-26 Released: 2003-03-11 
• Deposition Author(s): Forouhar, F., Shen, J., Kuzin, A., Chiang, Y., Xiao, R., Acton, T.B., Rost, B., Montelione, G.T., Tong, L., Northeast Structural Genomics Consortium (NESG)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free: 
  0.289 (Depositor), 0.306 (DCC) 
• R-Value Work: 
  0.225 (Depositor), 0.241 (DCC) 
• R-Value Observed: 
  0.259 (Depositor) 

Literature

Crystal Structure of Putative Acetyltransferase (YycN) from Bacillus subtilis

Forouhar, F., Shen, J., Kuzin, A., Chiang, Y., Xiao, R., Acton, T.B., Rost, B., Montelione, G.T., Tong, L.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 4-mer - A4 Local Symmetry: Cyclic - C2  (Explore in 3D)
Local Stoichiometry: Homo 2-mer - A2 

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

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

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 4-mer - A4 

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

Biological assembly 2 generated by PISA (software)

Macromolecule Content 

• Total Structure Weight: 75.09 kDa 
• Atom Count: 5,528 
• Modeled Residue Count: 626 
• Deposited Residue Count: 632 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
YycN protein	A, B, C, D	158	Bacillus subtilis	Mutation(s): 5  Gene Names: YYCN EC: 2.3.1
UniProt
Find proteins for O32293 (Bacillus subtilis (strain 168)) Explore O32293  Go to UniProtKB:  O32293

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SO4	E [auth A], G [auth B], H [auth C], I [auth D]	SULFATE ION O4 S QAOWNCQODCNURD-UHFFFAOYSA-L
CL	F [auth A]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M

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

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.20 Å
• R-Value Free:  0.289 (Depositor), 0.306 (DCC) 
• R-Value Work:  0.225 (Depositor), 0.241 (DCC) 
• R-Value Observed: 0.259 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 61.891	α = 90
b = 101.594	β = 97
c = 62.12	γ = 90

Software Package:

Software Name	Purpose
DENZO	data reduction
SCALEPACK	data scaling
SOLVE	phasing
CNS	refinement

Structure Validation

Entry History 

Deposition Data

• Released Date: 2003-03-11 
Deposition Author(s): Forouhar, F., Shen, J., Kuzin, A., Chiang, Y., Xiao, R., Acton, T.B., Rost, B., Montelione, G.T., Tong, L., Northeast Structural Genomics Consortium (NESG)

Revision History  

• Version 1.0: 2003-03-11
  Type: Initial release
  
• Version 1.1: 2008-04-29
  Changes: Version format compliance
• Version 1.2: 2011-07-13
  Changes: Derived calculations, Version format compliance
• Version 1.3: 2024-10-09
  Changes: Data collection, Database references, Derived calculations, Structure summary