7YRI | pdb_00007yri

S-adenosylmethionine sensor upstream of mTORC1

• PDB DOI: https://doi.org/10.2210/pdb7YRI/pdb

• Classification: TRANSFERASE
• Organism(s): Drosophila melanogaster
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-08-10 Released: 2023-08-16 
• Deposition Author(s): Zhang, H., Li, X.Z., Wen, Y.N.
• Funding Organization(s): Other government

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.61 Å
• R-Value Free: 
  0.270 (Depositor), 0.271 (DCC) 
• R-Value Work: 
  0.225 (Depositor), 0.226 (DCC) 
• R-Value Observed: 
  0.228 (Depositor) 

Literature

S-adenosylmethionine sensor upstream of mTORC1

Zhang, H., Li, X.Z., Wen, Y.N.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 1 assigned by authors.

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Homo 2-mer - A2 

Biological assembly 2 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 111.26 kDa 
• Atom Count: 7,099 
• Modeled Residue Count: 836 
• Deposited Residue Count: 944 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
S-adenosylmethionine sensor upstream of mTORC1	A [auth J], B [auth C], C [auth A], D	236	Drosophila melanogaster	Mutation(s): 0  Gene Names: Samtor, CG3570 EC: 2.1.1
UniProt
Find proteins for Q9W138 (Drosophila melanogaster) Explore Q9W138  Go to UniProtKB:  Q9W138

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
SAM (Subject of Investigation/LOI)	E [auth J], F [auth C], G [auth A], H [auth D]	S-ADENOSYLMETHIONINE C15 H22 N6 O5 S MEFKEPWMEQBLKI-FCKMPRQPSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.61 Å
• R-Value Free:  0.270 (Depositor), 0.271 (DCC) 
• R-Value Work:  0.225 (Depositor), 0.226 (DCC) 
• R-Value Observed: 0.228 (Depositor) 

Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 64.08	α = 90
b = 78.892	β = 96.17
c = 98.892	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
XDS	data reduction
XDS	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-08-16 
Deposition Author(s): Zhang, H., Li, X.Z., Wen, Y.N.

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Funding Organization	Location	Grant Number
Other government		--

Revision History  

• Version 1.0: 2023-08-16
  Type: Initial release
  
• Version 1.1: 2025-01-29
  Changes: Database references, Source and taxonomy, Structure summary