"The chemical reactions and pathways resulting in the breakdown of a protein or peptide by hydrolysis of its peptide bonds, initiated by the covalent attachment of a ubiquitin moiety, or multiple ubiquitin moieties, to the protein [goid 6511] [evidence IEA]; The covalent alteration of one or more amino acids occurring in a protein after the protein has been completely translated and released from the ribosome [goid 43687] [evidence IEA]; Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving a protein [goid 51246] [evidence IEA]; The error-free repair of a double-strand break in DNA in which the broken DNA molecule is repaired using homologous sequences. A strand in the broken DNA searches for a homologous region in an intact chromosome to serve as the template for DNA synthesis. The restoration of two intact DNA molecules results in the exchange, reciprocal or nonreciprocal, of genetic material between the intact DNA molecule and the broken DNA molecule [goid 724] [pmid 17349954] [evidence IMP]; The 5' to 3' exonucleolytic resection of the DNA at the site of the break to form a 3' single-strand DNA overhang [goid 729] [pmid 17349954] [evidence IMP]; Pathways for DNA repair which occur after DNA has replicated, e.g. mismatch repair, and which involve translesion synthesis (TLS-type) DNA polymerases [goid 6301] [pmid 17349954] [evidence IMP]; The hydrolysis of a peptide bond or bonds within a protein [goid 6508] [pmid 8902611] [evidence TAS]; The chemical reactions and pathways resulting in the breakdown of a protein or peptide by hydrolysis of its peptide bonds, initiated by the covalent attachment of a ubiquitin moiety, or multiple ubiquitin moieties, to the protein [goid 6511] [evidence IEA]; Any process that activates or increases the frequency, rate or extent of the covalent alteration of a histone [goid 31058] [pmid 17349954] [evidence IMP]; Any process that modulates the frequency, rate or extent of the addition of a ubiquitin moiety to a histone protein [goid 33182] [pmid 17349954] [evidence IMP]; Any process that activates or increases the frequency, rate or extent of an I-kappaB kinase/NF-kappaB induced cascade [goid 43123] [pmid 16129784] [evidence IMP]; The covalent alteration of one or more amino acids occurring in a protein after the protein has been completely translated and released from the ribosome [goid 43687] [evidence IEA]; Any process that activates or increases the frequency, rate or extent of DNA repair [goid 45739] [pmid 16129784] [evidence IMP]; A series of molecular signals initiated by the cross-linking of an antigen receptor on a T cell [goid 50852] [pmid 15125833] [evidence IMP]; Any process that activates or increases the frequency, rate or extent of activity of the transcription factor NF-kappaB [goid 51092] [pmid 14695475] [evidence IMP]; Any process that modulates the frequency, rate or extent of the chemical reactions and pathways involving a protein [goid 51246] [evidence IEA]; Any process that activates, maintains or increases the rate of ubiquitin ligase activity, the catalysis of the reaction: ATP + ubiquitin + protein lysine = AMP + diphosphate + protein N-ubiquityllysine [goid 51443] [pmid 17349954] [evidence IMP]"