The SUBcellular location database for Arabidopsis proteins (SUBA4, http://suba.live) is a comprehensive collection of manually curated published data sets of large-scale subcellular proteomics, fluorescent protein visualization, protein-protein interaction (PPI) as well as subcellular targeting calls from...
Protein-protein interactionRalstonia solanacearum is a devastating bacterial pathogen that has an unusually wide host range. R. solanacearum , together with Arabidopsis thaliana , has become a model system for studying the molecular basis of plant–pathogen interactions. Protein–protein interactions (PPIs...
The IQD1-KLCR1 interaction in yeast (Fig. 5) is supported by querying the Arabidopsis interactome database, which points to interactions between IQD and KLCR protein, i.e. IQD2 with At4g10840 (KLCR1) and At3g27960 (KLCR2) and IQD23 with At3g27960 (KLCR2) (43). The Arabidopsis KL...
and presents an overview of the database of these genes, and highlights some aspects of the distribution of mutants in different pathways and protein classes. The database provides information on the phenotypes of mutants, pathways, and enzymes/proteins associated with the mutants and allows rapid ...
Protein-protein interactions (PPIs) constitute the regulatory network that coordinates diverse cellular functions. There are growing needs in plant research for creating protein interaction maps behind complex cellular processes and at a systems biology level. However, only a few approaches have been succ...
We generated an extended PPI network to have a complete view of the protein interaction landscape of TFs directing gynoecium development (Figure 6C). For this, we retrieved reported interactions (IntAct database; Orchard et al., 2014) between the GYN-TF set of proteins (this study) and other...
Histone modifications can regulate transcription epigenetically by marking specific genomic loci, which can be mapped using chromatin immunoprecipitation sequencing (ChIP-seq). Here we present QHistone, a predictive database of 1534 ChIP-seqs from 27 his
(Basic Local Alignment Search Tool) search of theArabidopsisprotein database. However, anotherArabidopsisgene (AT1G15200,AtPININ) encodes a protein with an RSB domain and is considered a homolog of mammalian Pinin14. AtACINUS and AtPININ share 12 amino acids within the 15-amino acid region ...
For protein quantitation, only unique peptides were used to quantify proteins. These filters resulted in a false discovery rate of less than 5% after decoy database searches were performed. For biological repeats, spectra from the two technical repeats were combined into one file and searched. ...
We found that while the protein–protein interaction is constitutive, CRY2 and TCP22 form photobodies in a blue-light-dependent manner. We also show that the characteristics of CRY2 containing photobodies can be regulated by PPK kinases and the TBS motif of the CIRCADIAN CLOCK ASSOCIATED 1 (...