9JQ8 | pdb_00009jq8

Roadblock2 homodimer structure from Candidatus Prometheoarchaeum syntrophicum strain MK-D1

• PDB DOI: https://doi.org/10.2210/pdb9JQ8/pdb

• Classification: UNKNOWN FUNCTION
• Organism(s): Promethearchaeum syntrophicum
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2024-09-27 Released: 2024-10-30 
• Deposition Author(s): Ponlachantra, K., Robinson, R.C.
• Funding Organization(s): Vidyasirimedhi Institute of Science and Technology (VISTEC), Simons Foundation, Other private

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 1.79 Å
• R-Value Free: 
  0.239 (Depositor), 0.238 (DCC) 
• R-Value Work: 
  0.192 (Depositor), 0.193 (DCC) 
• R-Value Observed: 
  0.194 (Depositor) 

Starting Model: in silico

Literature

Roadblock domain protein from Asgard archaea

Ponlachantra, K., 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 Evidence: native gel electrophoresis

Macromolecule Content 

• Total Structure Weight: 24.59 kDa 
• Atom Count: 1,786 
• Modeled Residue Count: 221 
• Deposited Residue Count: 226 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Roadblock/LC7 domain protein	A, B	113	Promethearchaeum syntrophicum	Mutation(s): 0  Gene Names: DSAG12_02493
UniProt
Find proteins for A0A5B9DD18 (Promethearchaeum syntrophicum) Explore A0A5B9DD18  Go to UniProtKB:  A0A5B9DD18

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 1.79 Å
• R-Value Free:  0.239 (Depositor), 0.238 (DCC) 
• R-Value Work:  0.192 (Depositor), 0.193 (DCC) 
• R-Value Observed: 0.194 (Depositor) 

Space Group: C 1 2 1

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 101.245	α = 90
b = 33.47	β = 111.86
c = 58.219	γ = 90

Software Package:

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

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-10-30 
Deposition Author(s): Ponlachantra, K., Robinson, R.C.

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Funding Organization	Location	Grant Number
Vidyasirimedhi Institute of Science and Technology (VISTEC)	Thailand	--
Simons Foundation	United States	GBMF9743
Other private	United States	Moore Foundation GBMF9743

Revision History  

• Version 1.0: 2024-10-30
  Type: Initial release