2LRS | pdb_00002lrs

The second dsRBD domain from A. thaliana DICER-LIKE 1

• PDB DOI: https://doi.org/10.2210/pdb2LRS/pdb
• BMRB: 18393

• Classification: HYDROLASE
• Organism(s): Arabidopsis thaliana
• Expression System: Escherichia coli
• Mutation(s): No 


• Deposited: 2012-04-12 Released: 2013-01-23 
• Deposition Author(s): Burdisso, P., Suarez, I., Bersch, B., Bologna, N., Palatnik, J., Boisbouvier, J., Rasia, R.

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Experimental Data Snapshot

• Method: SOLUTION NMR
• Conformers Calculated: 1000 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Literature

Second Double-Stranded RNA Binding Domain of Dicer-like Ribonuclease 1: Structural and Biochemical Characterization.

Burdisso, P., Suarez, I.P., Bologna, N.G., Palatnik, J.F., Bersch, B., Rasia, R.M.

(2012) Biochemistry 51: 10159-10166

• PubMed: 23194006 
• DOI: https://doi.org/10.1021/bi301247r
• Primary Citation Related Structures: 
  2LRS


• PubMed Abstract: 
  

  Dicer-like ribonuclease III enzymes are involved in different paths related to RNA silencing in plants. Little is known about the structural aspects of these processes. Here we present a structural characterization of the second double-stranded RNA binding domain (dsRBD) of DCL1, which is presumed to participate in pri-micro-RNA recognition and subcellular localization of this protein. We determined the solution structure and found that it has a canonical fold but bears some variation with respect to other homologous domains. We also found that this domain binds both double-stranded RNA and double-stranded DNA, in contrast to most dsRBDs. Our characterization shows that this domain likely has functions other than substrate recognition and binding.

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Organizational Affiliation: 
• Instituto de Biología Molecular y Celular de Rosario (IBR-CONICET), Facultad de Ciencias Bioquímicas y Farmacéuticas, Universidad Nacional de Rosario, Santa Fe, Argentina.

Biological Assembly 1  

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

Biological assembly 1 assigned by authors.

Macromolecule Content 

• Total Structure Weight: 7.96 kDa 
• Atom Count: 556 
• Modeled Residue Count: 71 
• Deposited Residue Count: 71 
• Unique protein chains: 1

Macromolecules

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Endoribonuclease Dicer homolog 1	A	71	Arabidopsis thaliana	Mutation(s): 0  Gene Names: DCL1, ASU1, CAF SIN1, SUS1, At1g01040, T25K16.4 EC: 3.1.26
UniProt
Find proteins for Q9SP32 (Arabidopsis thaliana) Explore Q9SP32  Go to UniProtKB:  Q9SP32

Experimental Data & Validation

Experimental Data

• Method: SOLUTION NMR
• Conformers Calculated: 1000 
• Conformers Submitted: 20 
• Selection Criteria: structures with the lowest energy 

Structure Validation

Entry History 

Deposition Data

• Released Date: 2013-01-23 
Deposition Author(s): Burdisso, P., Suarez, I., Bersch, B., Bologna, N., Palatnik, J., Boisbouvier, J., Rasia, R.

Revision History  

• Version 1.0: 2013-01-23
  Type: Initial release
  
• Version 1.1: 2024-05-01
  Changes: Data collection, Database references