7YH3

TRAPPC3 from Thorarchaeota SMTZ1-45

• PDB DOI: https://doi.org/10.2210/pdb7YH3/pdb

• Classification: UNKNOWN FUNCTION
• Organism(s): Candidatus Thorarchaeota archaeon SMTZ1-45
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2022-07-12 Released: 2023-07-19 
• Deposition Author(s): Robinson, R.C., Tran, L.T.
• Funding Organization(s): Japan Science and Technology, Japan Society for the Promotion of Science (JSPS), Other private

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.258 
• R-Value Work: 0.216 
• R-Value Observed: 0.218 

Literature

TRAPPC3 from Thorarchaeota SMTZ1-45

Tran, L.T., Robinson, R.C.

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 2  

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

Biological assembly 2 assigned by authors and generated by PISA (software)

Biological Assembly Evidence: homology

Macromolecule Content

• Total Structure Weight: 72.62 kDa 
• Atom Count: 5,688 
• Modelled Residue Count: 616 
• Deposited Residue Count: 636 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
TRAPPC3 from Thorarchaeota SMTZ1-45	A, B, C, D	159	Candidatus Thorarchaeota archaeon SMTZ1-45	Mutation(s): 0  Gene Names: AM325_04720
UniProt
Find proteins for A0A135VRB8 (Candidatus Thorarchaeota archaeon SMTZ1-45) Explore A0A135VRB8  Go to UniProtKB:  A0A135VRB8

Small Molecules

Ligands 1 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram
ZN (Subject of Investigation/LOI)	E [auth A], F [auth B], G [auth C], H [auth D]	ZINC ION Zn PTFCDOFLOPIGGS-UHFFFAOYSA-N

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.70 Å
• R-Value Free: 0.258 
• R-Value Work: 0.216 
• R-Value Observed: 0.218 
• Space Group: P 1 2₁ 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 68.387	α = 90
b = 62.06	β = 100.46
c = 69.324	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
PDB_EXTRACT	data extraction
HKL-2000	data reduction
HKL-2000	data scaling
PHASER	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2023-07-19 
Deposition Author(s): Robinson, R.C., Tran, L.T.

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Funding Organization	Location	Grant Number
Japan Science and Technology	Japan	JPMJCR19S5
Japan Society for the Promotion of Science (JSPS)	Japan	JP20H00476
Other private		Moore and Simons foundations GBMF9743

Revision History  

• Version 1.0: 2023-07-19
  Type: Initial release
  
• Version 1.1: 2023-11-29
  Changes: Data collection, Refinement description