DYW1 - Plant Editosome Database - BIG Data Center

Summary

Editing Factor: DYW1
Synonym: DYW DOMAIN PROTEIN 1
Description: Encoding an RNA editing factor acting specifically on the plastid ndhD-1 editing site; DYW motif of DYW1, an editing factor required for editing of the ndhD-1 site in Arabidopsis chloroplasts; Several amino acids of this signature motif are required for RNA editing in vivo and for zinc binding in vitro; The DYW domain of DYW1 has features in common with cytidine deaminases, reinforcing the hypothesis that this domain forms part of the active enzyme that carries out RNA editing in plants
Protein Family: PPR
Subclass: DYW
Construct Structure: E+-DYW, PLS-E-DYW
Gene ID & Species: AT1G47580 (Arabidopsis thaliana)
Edited Gene(s): ndhD
Editing Type(s): C-to-U (38)
Publication(s): [1] Multiple PPR protein interactions are involved in the RNA editing system in mitochondria and plastids., Proceedings of the National Academy of Sciences of the United States of America, 2017. [PMID=28761003]
[2] The cytidine deaminase signature HxE(x)n CxxC of DYW1 binds zinc and is necessary for RNA editing of ndhD-1., The New phytologist, 2014. [PMID=25041347]
[3] Two interacting proteins are necessary for the editing of the NdhD-1 site in Arabidopsis plastids., The Plant cell, 2012. [PMID=23001034]

Editing Details

Species Gene ID Organelle Edited Gene Position Region Editing Type Codon Amino Acid Molecular Effect Experiment Details
Arabidopsis thaliana AT1G47580 Plastid
Chloroplast
ndhD 2 CDS C-to-U ACG=>AUG
NA=>NA
T=>M
NA=>NA
Recoding
NA
Experiment Details
Genotype (Ecotype) Allele Treatment Treatment Detail Mutant Type Phenotype Tissue Development Stage Detection Method Editing Frequency Editing Extent Mutant Effect PMID
Col-0dyw1-1EMS MutantThe EMS mutant causeds a deletion of a guanidine at the position + 262 resulting a frameshift in the ORFKnockout; HomozygousA macroscopic phenotype identical to wild-type Col-0 plants; impaired in NDH ActivityLeaf18 daysPoisoned Primer Extension (PPE) Assay0.00%UneditedAbsent23001034
Col-0WTControlControlControlNormalLeaf18 daysPoisoned Primer Extension (PPE) AssayNAHighNone23001034
NAdyw1-1NANANAExhibit a superficially WT phenotypeLeaf18 daysPoisoned Primer Extension (PPE) Assay0.00%UneditedAbsent25041347
NAdyw1-10EMS MutantThe EMS mutant causes an amino acid change (R136K) in the short remnant E domainHomozygousExhibit a superficially WT phenotypeLeaf18 daysPoisoned Primer Extension (PPE) AssayNANASimilar25041347
NAdyw1-11EMS MutantThe EMS mutant causes an amino acid change (A138T) in the DYW domainHomozygousExhibit a superficially WT phenotypeLeaf18 daysPoisoned Primer Extension (PPE) Assay37.70%LowDecreased25041347
NAdyw1-11 com1ComplementationNANANALeaf18 daysPoisoned Primer Extension (PPE) Assay60.00%HighDecreased25041347
NAdyw1-11 com2ComplementationNANANALeaf18 daysPoisoned Primer Extension (PPE) Assay61.00%HighDecreased25041347
NAdyw1-12EMS MutantThe EMS mutant causes an amino acid change (E143K) in the DYW domainHomozygousExhibit a superficially WT phenotypeLeaf18 daysPoisoned Primer Extension (PPE) Assay43.40%MediumDecreased25041347
NAdyw1-12 comp1ComplementationNANANALeaf18 daysPoisoned Primer Extension (PPE) Assay60.00%HighDecreased25041347
NAdyw1-12 comp2ComplementationNANANALeaf18 daysPoisoned Primer Extension (PPE) Assay63.00%HighDecreased25041347
NAdyw1-13EMS MutantThe EMS mutant causes an amino acid change (P178S) in the DYW domainHomozygousExhibit a superficially WT phenotypeLeaf18 daysPoisoned Primer Extension (PPE) AssayNANASimilar25041347
NAdyw1-14EMS MutantThe EMS mutant causes an amino acid change (H219Y) in the DYW domainHomozygousExhibit a superficially WT phenotypeLeaf18 daysPoisoned Primer Extension (PPE) AssayNANASimilar25041347
NAdyw1-15EMS MutantThe EMS mutant causes an amino acid change (D222N) in the DYW domainHomozygousExhibit a superficially WT phenotypeLeaf18 daysPoisoned Primer Extension (PPE) AssayNANASimilar25041347
NAdyw1-16EMS MutantThe EMS mutant causes an amino acid change (D229N) in the DYW domainHomozygousExhibit a superficially WT phenotypeLeaf18 daysPoisoned Primer Extension (PPE) Assay39.30%LowDecreased25041347
NAdyw1-16 comp1ComplementationNANANALeaf18 daysPoisoned Primer Extension (PPE) Assay62.00%HighIncreased25041347
NAdyw1-16 comp1ComplementationNANANALeaf18 daysPoisoned Primer Extension (PPE) Assay62.00%HighIncreased25041347
NAdyw1-2EMS MutantThe EMS mutant causes an amino acid change (A11T) In The Putative Organelle Targeting SequenceHomozygousExhibit a superficially WT phenotypeLeaf18 daysPoisoned Primer Extension (PPE) Assay66.50%HighDecreased25041347
NAdyw1-2 comp1ComplementationNANANALeaf18 daysPoisoned Primer Extension (PPE) Assay63.00%HighDecreased25041347
NAdyw1-2 comp2ComplementationNANANALeaf18 daysPoisoned Primer Extension (PPE) Assay72.00%HighDecreased25041347
NAdyw1-3EMS MutantThe EMS mutant causes an amino acid change (G30R) In The N-Terminal Of The E And DYW DomainsHomozygousExhibit a superficially WT phenotypeLeaf18 daysPoisoned Primer Extension (PPE) AssayNANASimilar25041347
NAdyw1-4EMS MutantThe EMS mutant causes an amino acid change (T50I) In The N-Terminal Of The E And DYW DomainsHomozygousExhibit a superficially WT phenotypeLeaf18 daysPoisoned Primer Extension (PPE) Assay43.70%MediumDecreased25041347
NAdyw1-4 comp1ComplementationNANANALeaf18 daysPoisoned Primer Extension (PPE) Assay57.00%MediumIncreased25041347
NAdyw1-5EMS MutantThe EMS mutant causes an amino acid change (R61K) In The N-Terminal Of The E And DYW DomainsHomozygousExhibit a superficially WT phenotypeLeaf18 daysPoisoned Primer Extension (PPE) AssayNANASimilar25041347
NAdyw1-6EMS MutantThe EMS mutant causes an amino acid change (R70K) In The N-Terminal Of The E And DYW DomainsHomozygousExhibit a superficially WT phenotypeLeaf18 daysPoisoned Primer Extension (PPE) AssayNANASimilar25041347
NAdyw1-7EMS MutantThe EMS mutant causes an amino acid change (G112E) In The N-Terminal Of The E And DYW DomainsHomozygousExhibit a superficially WT phenotypeLeaf18 daysPoisoned Primer Extension (PPE) AssayNANASimilar25041347
NAdyw1-8EMS MutantThe EMS mutant causes an amino acid change (G132E) In The Short Remnant E DomainHomozygousExhibit a superficially WT phenotypeLeaf18 daysPoisoned Primer Extension (PPE) AssayNANASimilar25041347
NAdyw1-9EMS MutantThe EMS mutant causes an amino acid change (E134K) In The Short Remnant E DomainHomozygousExhibit a superficially WT phenotypeLeaf18 daysPoisoned Primer Extension (PPE) AssayNANASimilar25041347
NAM1Targeted PCR Mutant,Constructs Were Expressed Under Control Of The Native Dyw1Promoter And Used To Complementation The Dyw1-1 MutantThe mutant causes (E165A) in the CDA signature sequenceNANALeaf18 daysPoisoned Primer Extension (PPE) Assay0.00%UneditedAbsent25041347
NAM2Targeted PCR Mutant,Constructs Were Expressed Under Control Of The Native Dyw1Promoter And Used To Complementation The Dyw1-1 MutantThe mutant causes (H163A+E165A) in the CDA signature sequenceNANALeaf18 daysPoisoned Primer Extension (PPE) Assay0.00%UneditedAbsent25041347
NAM3Targeted PCR Mutant,Constructs Were Expressed Under Control Of The Native Dyw1Promoter And Used To Complementation The Dyw1-1 MutantThe mutant causes (C191A+C194A) in the CDA signature sequenceNANALeaf18 daysPoisoned Primer Extension (PPE) Assay0.00%UneditedAbsent25041347
NAM4Targeted PCR Mutant,Constructs Were Expressed Under Control Of The Native Dyw1Promoter And Used To Complementation The Dyw1-1 MutantThe mutant causes (D229A) in the DYW tripletNANALeaf18 daysPoisoned Primer Extension (PPE) Assay26.70%LowAbsent25041347
NAM5Targeted PCR Mutant,Constructs Were Expressed Under Control Of The Native Dyw1Promoter And Used To Complementation The Dyw1-1 MutantThe mutant causes (Y230A) in the DYW tripletNANALeaf18 daysPoisoned Primer Extension (PPE) Assay51.70%MediumAbsent25041347
NAM6Targeted PCR Mutant,Constructs Were Expressed Under Control Of The Native Dyw1Promoter And Used To Complementation The Dyw1-1 MutantThe mutant causes (W231A) in the DYW tripletNANALeaf18 daysPoisoned Primer Extension (PPE) Assay0.00%UneditedAbsent25041347
NAM7Targeted PCR Mutant,Constructs Were Expressed Under Control Of The Native Dyw1Promoter And Used To Complementation The Dyw1-1 MutantThe mutant causes (△DYW Triplet) in the DYW tripletNANALeaf18 daysPoisoned Primer Extension (PPE) Assay0.00%UneditedAbsent25041347
Col-0WTControlControlControlNormalLeaf18 daysPoisoned Primer Extension (PPE) Assay56.00%MediumNone25041347
Col-0WTControlControlControlNormalLeafNART-PCR and calculated with the DNADynamo software (BlueTract26.00%LowNone28761003
Col-0DYW2-GFP-OE1Generating Arabidopsis plants overexpressing the GFP-tagged DYW2 geneCol-0 A. thaliana plants were transformed with the 35S::DYW2-GFP plasmids (in pK7WGF2 backbone) by the floral-dip method. Transformed plants were selected based on Kanamycin resistance. Two independenNASlow growthLeafNART-PCR and calculated with the DNADynamo software (BlueTract37.00%LowIncreased28761003
Col-0DYW2-GFP-OE2Generating Arabidopsis plants overexpressing the GFP-tagged DYW2 geneCol-0 A. thaliana plants were transformed with the 35S::DYW2-GFP plasmids (in pK7WGF2 backbone) by the floral-dip method. Transformed plants were selected based on Kanamycin resistance. Two independenNASlow growthLeafNART-PCR and calculated with the DNADynamo software (BlueTract46.00%MediumIncreased28761003
Last update: Jul 2021 (version 1.0)