These new or corrected annotations will be submitted to UniProtKB/Swiss-Prot. Glycan-binding proteins were annotated with cross-references to the KEGG GLYCAN database when available (Hashimoto et al., 2006).
Around 1,300 transcripts received GO annotation 'DNA binding,' of which around 400 were also were annotated with the more specific GO term 'sequence-specific DNA binding transcription factor activity.' These sequences likely represented expressed transcription factors involved in regulation of gene expression during fruit development and ripening.
Moreover, 37 genes that code for proteins with the calcium ion binding (GO: 0005509) activities were identified, which were annotated with catalytic activity and participated in metabolic processes.
The dataset was extracted from ChEMBL 2. Only compounds tested on rat or human receptors by radio-ligand binding assays and for which p K i bioactivity values were annotated with a '=' relationship were included in the final dataset.
In total, 10,446 contigs were annotated with 69,778 GO terms that involved binding, catalytic activity, transport, metabolism, response to stimuli, signal transduction, nucleic acid processes, and cellular biogenesis.
To find all phosphorylated forms in PRO annotated with PPI information, we searched PRO for terms with 'phosphorylated' in the name that were annotated with the GO (19) term GO 0005515 (protein binding) or its child terms.
The proteins were annotated with KAAS94, with SBH and ghostX as settings and with InterProScan 5.6-48.095.
