8IGD

The crystal structure of the minimal interaction domains of DRB7.2:DRB4 complex

• PDB DOI: https://doi.org/10.2210/pdb8IGD/pdb

• Classification: GENE REGULATION
• Organism(s): Arabidopsis thaliana
• Expression System: Escherichia coli BL21(DE3)
• Mutation(s): No 


• Deposited: 2023-02-20 Released: 2024-06-26 
• Deposition Author(s): Paturi, S., Deshmukh, M.V.
• Funding Organization(s): Council of Scientific & Industrial Research (CSIR)

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Experimental Data Snapshot

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 0.254 
• R-Value Work: 0.202 
• R-Value Observed: 0.205 

Starting Model: in silico

Literature

The mechanism of the DRB7.2:DRB4 mediated endogenous inverted-repeat dsRNA (endo-IR dsRNA) sequestering in plants

Paturi, S., Deshmukh, M.V.

To be published.

Biological Assembly 1  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Biological Assembly Evidence: NMR relaxation study, isothermal titration calorimetry

Biological Assembly 2  

Global Symmetry: Asymmetric - C1 
Global Stoichiometry: Hetero 2-mer - A1B1 

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

Macromolecule Content

• Total Structure Weight: 38.54 kDa 
• Atom Count: 2,080 
• Modelled Residue Count: 259 
• Deposited Residue Count: 336 
• Unique protein chains: 2

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Double-stranded RNA-binding domain (DsRBD)-containing protein	A, B	97	Arabidopsis thaliana	Mutation(s): 0  Gene Names: AT4G00420
UniProt
Find proteins for F4JHB3 (Arabidopsis thaliana) Explore F4JHB3  Go to UniProtKB:  F4JHB3

Entity ID: 2
Molecule	Chains	Sequence Length	Organism	Details	Image
Double-stranded RNA-binding protein 4	C, D	71	Arabidopsis thaliana	Mutation(s): 0  Gene Names: DBR4
UniProt
Find proteins for Q8H1D4 (Arabidopsis thaliana) Explore Q8H1D4  Go to UniProtKB:  Q8H1D4

Experimental Data & Validation

Experimental Data

• Method: X-RAY DIFFRACTION
• Resolution: 2.90 Å
• R-Value Free: 0.254 
• R-Value Work: 0.202 
• R-Value Observed: 0.205 
• Space Group: I 4

Unit Cell:

Length ( Å )	Angle ( ˚ )
a = 93.94	α = 90
b = 93.94	β = 90
c = 102.81	γ = 90

Software Package:

Software Name	Purpose
PHENIX	refinement
iMOSFLM	data reduction
SCALA	data scaling
PHENIX	phasing

Structure Validation

Entry History & Funding Information

Deposition Data

• Released Date: 2024-06-26 
Deposition Author(s): Paturi, S., Deshmukh, M.V.

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Funding Organization	Location	Grant Number
Council of Scientific & Industrial Research (CSIR)	India	MLP0161

Revision History  

• Version 1.0: 2024-06-26
  Type: Initial release