8PU4 | pdb_00008pu4

FaRel2 bound to the ATP analogue, APCPP

• PDB DOI: https://doi.org/10.2210/pdb8PU4/pdb

• Classification: ANTITOXIN
• Organism(s): Coprobacillus sp. D7
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2023-07-16 Released: 2024-07-24 
• Deposition Author(s): Garcia-Pino, A., Talavera Perez, A., Dominguez Molina, L.
• Funding Organization(s): Fonds National de la Recherche Scientifique (FNRS)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.62 Å
• R-Value Free: 
  0.255 (Depositor), 0.250 (DCC) 
• R-Value Work: 
  0.194 (Depositor), 0.200 (DCC) 
• R-Value Observed: 
  0.197 (Depositor) 

Starting Model: experimental

Literature

FaRel2 bound to the ATP analogue, APCPP

Garcia-Pino, A., Talavera Perez, A., Dominguez Molina, L.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 1 assigned by authors.

Biological Assembly Evidence: gel filtration

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 2 assigned by authors.

Biological Assembly 3  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Monomer - A1 

Biological assembly 3 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 75.77 kDa 
• Atom Count: 4,230 
• Modeled Residue Count: 478 
• Deposited Residue Count: 618 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
RelA/SpoT domain-containing protein	A, B, C	206	Coprobacillus sp. D7	Mutation(s): 0  Gene Names: DXB93_19735
UniProt
Find proteins for A0A3E3DY42 (Thomasclavelia ramosa) Explore A0A3E3DY42  Go to UniProtKB:  A0A3E3DY42

Small Molecules

Ligands 2 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
DOU (Subject of Investigation/LOI)	D [auth A], F [auth B], H [auth C]	[(2~{R},3~{S},4~{R},5~{R})-5-(6-aminopurin-9-yl)-3,4-bis(oxidanyl)oxolan-2-yl]methoxy-[[oxidanyl(phosphonooxy)phosphoryl]methyl]phosphinic acid C11 H18 N5 O12 P3 CAWZRIXWFRFUQB-UHFFFAOYSA-N
MG	E [auth A], G [auth B], I [auth C]	MAGNESIUM ION Mg JLVVSXFLKOJNIY-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.62 Å
• R-Value Free:  0.255 (Depositor), 0.250 (DCC) 
• R-Value Work:  0.194 (Depositor), 0.200 (DCC) 
• R-Value Observed: 0.197 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 31.498	α = 90
b = 60.581	β = 90.589
c = 177.157	γ = 90

Software Package:

Software Name	Purpose
BUSTER	refinement
autoPROC	data processing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-07-24 
Deposition Author(s): Garcia-Pino, A., Talavera Perez, A., Dominguez Molina, L.

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Funding Organization	Location	Grant Number
Fonds National de la Recherche Scientifique (FNRS)	Belgium	PDR T.0090.22

Revision History  

• Version 1.0: 2024-07-24
  Type: Initial release