| molecular function |
|---|
| | GO:0005524 | | ATP binding | | Interacting selectively and non-covalently with ATP, adenosine 5'-triphosphate, a universally important coenzyme and enzyme regulator. |
| | GO:0003677 | | DNA binding | | Any molecular function by which a gene product interacts selectively and non-covalently with DNA (deoxyribonucleic acid). |
| | GO:0008094 | | DNA-dependent ATPase activity | | Catalysis of the reaction: ATP + H2O = ADP + phosphate; this reaction requires the presence of single- or double-stranded DNA, and it drives another reaction. |
| | GO:0031490 | | chromatin DNA binding | | Interacting selectively and non-covalently with DNA that is assembled into chromatin. |
| | GO:0004386 | | helicase activity | | Catalysis of the reaction: NTP + H2O = NDP + phosphate, to drive the unwinding of a DNA or RNA helix. |
| | GO:0016787 | | hydrolase activity | | Catalysis of the hydrolysis of various bonds, e.g. C-O, C-N, C-C, phosphoric anhydride bonds, etc. Hydrolase is the systematic name for any enzyme of EC class 3. |
| | GO:0035064 | | methylated histone binding | | Interacting selectively and non-covalently with a histone in which a residue has been modified by methylation. Histones are any of a group of water-soluble proteins found in association with the DNA of eukaroytic chromosomes. |
| | GO:0070615 | | nucleosome-dependent ATPase activity | | Catalysis of the reaction: ATP + H2O = ADP + phosphate. This reaction requires the presence of one or more nucleosomes. |
| | GO:0000166 | | nucleotide binding | | Interacting selectively and non-covalently with a nucleotide, any compound consisting of a nucleoside that is esterified with (ortho)phosphate or an oligophosphate at any hydroxyl group on the ribose or deoxyribose. |
| | GO:0000182 | | rDNA binding | | Interacting selectively and non-covalently with DNA sequences encoding ribosomal RNA. |
| | GO:0044212 | | transcription regulatory region DNA binding | | Interacting selectively and non-covalently with a DNA region that regulates the transcription of a region of DNA, which may be a gene, cistron, or operon. Binding may occur as a sequence specific interaction or as an interaction observed only once a factor has been recruited to the DNA by other factors. |
| biological process |
|---|
| | GO:0043044 | | ATP-dependent chromatin remodeling | | Dynamic structural changes to eukaryotic chromatin that require energy from the hydrolysis of ATP, ranging from local changes necessary for transcriptional regulation to global changes necessary for chromosome segregation, mediated by ATP-dependent chromatin-remodelling factors. |
| | GO:0071894 | | histone H2B conserved C-terminal lysine ubiquitination | | A histone ubiquitination process in which a ubiquitin monomer is added to a conserved lysine residue in the C-terminus of histone H2B. The conserved lysine residue is K119 in fission yeast, K123 in budding yeast, or K120 in mammals. |
| | GO:2000104 | | negative regulation of DNA-dependent DNA replication | | Any process that stops, prevents, or reduces the frequency, rate or extent of DNA-dependent DNA replication. |
| | GO:0071441 | | negative regulation of histone H3-K14 acetylation | | Any process that stops, prevents, or reduces the frequency, rate or extent of the addition of an acetyl group to histone H3 at position 14 of the histone. |
| | GO:2000616 | | negative regulation of histone H3-K9 acetylation | | Any process that stops, prevents or reduces the frequency, rate or extent of histone H3-K9 acetylation. |
| | GO:1900050 | | negative regulation of histone exchange | | Any process that stops, prevents or reduces the frequency, rate or extent of histone exchange. |
| | GO:0042766 | | nucleosome mobilization | | The movement of nucleosomes along a DNA fragment. |
| | GO:0034728 | | nucleosome organization | | A process that is carried out at the cellular level which results in the assembly, arrangement of constituent parts, or disassembly of one or more nucleosomes. |
| | GO:0016584 | | nucleosome positioning | | Ordering of successions of nucleosomes into regular arrays so that nucleosomes are positioned at defined distances from one another. |
| | GO:1902275 | | regulation of chromatin organization | | Any process that modulates the frequency, rate or extent of chromatin organization. |
| | GO:0060303 | | regulation of nucleosome density | | Any process that modulates the number of nucleosomes in a given region of a chromosome. |
| | GO:0006355 | | regulation of transcription, DNA-templated | | Any process that modulates the frequency, rate or extent of cellular DNA-templated transcription. |
| | GO:0001178 | | regulation of transcriptional start site selection at RNA polymerase II promoter | | Any process that modulates the rate, frequency or extent of a process involved in the selection of the specific location within the template strand of an RNA polymerase II promoter for hybridization of the cognate ribonucleotides and formation of first phosphodiester bond within the nascent transcript. |
| | GO:0006363 | | termination of RNA polymerase I transcription | | The process in which the synthesis of an RNA molecule by RNA polymerase I using a DNA template is completed. RNAP I termination requires binding of a terminator protein so specific sequences downstream of the transcription unit. |
| | GO:0006369 | | termination of RNA polymerase II transcription | | The process in which the synthesis of an RNA molecule by RNA polymerase II using a DNA template is completed. |
| | GO:0006368 | | transcription elongation from RNA polymerase II promoter | | The extension of an RNA molecule after transcription initiation and promoter clearance at an RNA polymerase II promoter by the addition of ribonucleotides catalyzed by RNA polymerase II. |
| | GO:0006351 | | transcription, DNA-templated | | The cellular synthesis of RNA on a template of DNA. |
| cellular component |
|---|
| | GO:0000124 | | SAGA complex | | A SAGA-type histone acetyltransferase complex that contains Spt8 (in budding yeast) or a homolog thereof; additional polypeptides include Spt group, consisting of Spt7, Spt3, and Spt20/Ada5, which interact with the TATA-binding protein (TBP); the Ada group, consisting of Ada1, Ada2, Ada3, Ada4/Gcn5, and Ada5/Spt20, which is functionally linked to the nucleosomal HAT activity; Tra1, an ATM/PI-3 kinase-related protein that targets DNA-bound activators for recruitment to promoters; the TBP-associated factor (TAF) proteins, consisting of Taf5, Taf6, Taf9, Taf10, and Taf12, which mediate nucleosomal HAT activity and are thought to help recruit the basal transcription machinery; the ubiquitin specifc protease Ubp-8. |
| | GO:0046695 | | SLIK (SAGA-like) complex | | A SAGA-type histone acetyltransferase complex that contains Rtg2 and a smaller form of Spt7 than the fungal SAGA complex, and lacks Spt8. The complex is involved in the yeast retrograde response pathway, which is important for gene expression changes during mitochondrial dysfunction. |
| | GO:0000790 | | nuclear chromatin | | The ordered and organized complex of DNA, protein, and sometimes RNA, that forms the chromosome in the nucleus. |
| | GO:0030874 | | nucleolar chromatin | | The portion of nuclear chromatin associated with the nucleolus; includes the DNA encoding the ribosomal RNA. |
| | GO:0005634 | | nucleus | | A membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. In most cells, the nucleus contains all of the cell's chromosomes except the organellar chromosomes, and is the site of RNA synthesis and processing. In some species, or in specialized cell types, RNA metabolism or DNA replication may be absent. |
Description
