| GOID Link to GO |
Functional Category | Description | Protein Count link to protein list |
|---|---|---|---|
| GO:0000790 | nuclear chromatin | The ordered and organized complex of DNA, protein, and sometimes RNA, that forms the chromosome in the nucleus. | 139 |
| GO:0000794 | condensed nuclear chromosome | A highly compacted molecule of DNA and associated proteins resulting in a cytologically distinct structure that remains in the nucleus. | 75 |
| GO:0031011 | Ino80 complex | A multisubunit protein complex that contains the Ino80p ATPase; exhibits chromatin remodeling activity and 3' to 5' DNA helicase activity. | 41 |
| GO:0000778 | condensed nuclear chromosome kinetochore | A multisubunit complex that is located at the centromeric region of a condensed chromosome in the nucleus and provides an attachment point for the spindle microtubules. | 27 |
| GO:0031298 | replication fork protection complex | A protein complex conserved in eukaryotes and associated with the replication fork; the complex stabilizes stalled replication forks and is thought to be involved in coordinating leading- and lagging-strand synthesis and in replication checkpoint signaling. | 24 |
| GO:0000812 | Swr1 complex | A multisubunit protein complex that is involved in chromatin remodeling. It is required for the incorporation of the histone variant H2AZ into chromatin. In S. cerevisiae, the complex contains Swr1p, a Swi2/Snf2-related ATPase, and 12 additional subunits. | 24 |
| GO:0005726 | perichromatin fibrils | Structures of variable diameter visible in the nucleoplasm by electron microscopy, mainly observed near the border of condensed chromatin. The fibrils are enriched in RNA, and are believed to be sites of pre-mRNA splicing and polyadenylylation representing the in situ form of nascent transcripts. | 23 |
| GO:0005719 | nuclear euchromatin | The dispersed less dense form of chromatin in the interphase nucleus. It exists in at least two forms, a some being in the form of transcriptionally active chromatin which is the least condensed, while the rest is inactive euchromatin which is more condensed than active chromatin but less condensed than heterochromatin. | 22 |
| GO:0000795 | synaptonemal complex | A proteinaceous scaffold found between homologous chromosomes during meiosis. | 20 |
| GO:0000788 | nuclear nucleosome | A complex comprised of DNA wound around a multisubunit core and associated proteins, which forms the primary packing unit of DNA in the nucleus into higher order structures. | 19 |
| GO:0031618 | nuclear centromeric heterochromatin | A region of heterochromatin located near the centromere of a chromosome in the nucleus. | 19 |
| GO:0034967 | Set3 complex | A histone deacetylase complex that is involved in transcriptional regulation. In S. cerevisiae, this complex consists of Set3p, Snt1p, Hos4p, Sif2p, Cpr1p, Hos2p, and Hst1p. | 17 |
| GO:0001740 | Barr body | A structure found in a female mammalian cell containing an unpaired X chromosome that has become densely heterochromatic, silenced and localized at the nuclear periphery. | 16 |
| GO:0000780 | condensed nuclear chromosome, centromeric region | The region of a condensed chromosome in the nucleus that includes the centromere and associated proteins, including the kinetochore. In monocentric chromosomes, this region corresponds to a single area of the chromosome, whereas in holocentric chromosomes, it is evenly distributed along the chromosome. | 12 |
| GO:0043596 | nuclear replication fork | The Y-shaped region of a nuclear replicating DNA molecule, resulting from the separation of the DNA strands and in which the synthesis of new strands takes place. Also includes associated protein complexes. | 11 |
| GO:0005720 | nuclear heterochromatin | A condensed form of chromatin, occurring in the nucleus during interphase, that stains strongly with basophilic dyes. The DNA of heterochromatin is typically replicated at a later stage in the cell-division cycle than euchromatin. | 10 |
| GO:0016580 | Sin3 complex | A multiprotein complex that functions broadly in eukaryotic organisms as a transcriptional repressor of protein-coding genes, through the gene-specific deacetylation of histones. Amongst its subunits, the Sin3 complex contains Sin3-like proteins, and a number of core proteins that are shared with the NuRD complex (including histone deacetylases and histone binding proteins). The Sin3 complex does not directly bind DNA itself, but is targeted to specific genes through protein-protein interactions with DNA-binding proteins. | 8 |
| GO:0001739 | sex chromatin | A condensed mass of compacted chromatin that represents an inactivated X chromosome. | 7 |
| GO:0044454 | nuclear chromosome part | Any constituent part of a nuclear chromosome, a chromosome found in the nucleus of a eukaryotic cell. | 7 |
| GO:0005724 | nuclear telomeric heterochromatin | Heterochromatic regions of the chromosome found at the telomeres of a chromosome in the nucleus. | 6 |
| GO:0070210 | Rpd3L-Expanded complex | A protein complex that contains a histone deacetylase and is part of the chromatin remodeling machinery. In Saccharomyces cerevisiae this complex contains the Rpd3p, Sin3p, Ume1p, Pho23p, Sap30p, Sds3p, Cti6p, Rxt2p, Rxt3p, Dep1p, Ume6p, Ash1p, Dot6p, Snt1, Sif2p, Set3p, Hos2p, Tos4p and Tod6p proteins. | 6 |
| GO:0000784 | nuclear chromosome, telomeric region | The terminal region of a linear chromosome in the nucleus that includes the telomeric DNA repeats and associated proteins. | 6 |
| GO:0000800 | lateral element | A proteinaceous core found between sister chromatids during meiotic prophase. | 5 |
| GO:0070822 | Sin3-type complex | Any of a number of evolutionarily conserved histone deacetylase complexes (HDACs) containing a core consisting of a paired amphipathic helix motif protein (e.g. Sin3p in S. cerevisiae, Pst1 in S. pombe or Sin3A in mammals) at least one class I histone deacetylase (e.g. Rpd3p in S. cerevisiae, Clr6 in S. pombe, or HDAC1 and HDAC2 in mammals), and at least one WD40 repeat protein (e.g. Ume1p in S. cerevisiae, Prw1 in S. pombe, or RbAp46 and RbAp48 in mammals). These complexes also contain a variable number of other proteins that direct histone binding, DNA binding, or add other functionality to the complex. | 5 |
| GO:0034991 | nuclear meiotic cohesin complex | A cohesin complex that mediates sister chromatid cohesion in the nucleus during meiosis; has a subunit composition distinct from that of the meiotic cohesin complex. | 4 |
| GO:0030874 | nucleolar chromatin | The portion of nuclear chromatin associated with the nucleolus; includes the DNA encoding the ribosomal RNA. | 4 |
| GO:0032221 | Rpd3S complex | A eukaryotically conserved histone deacetylase complex which deacetylates histones preferentially in promoter regions. Composed of a catalytic histone deacetylase subunit, a chromodomain protein, a SIN3 family co-repressor, and a WD repeat protein (Clr6p, Alp13p, Pst2p, and Prw1p respectively in Schizosaccharomyces; Rpd3p, Sin3p, Ume1p, Rco1p and Eaf3 in Saccharomyces; homologs thereof in other species). | 4 |
| GO:0070209 | ASTRA complex | A protein complex that is part of the chromatin remodeling machinery; the acronym stands for ASsembly of Tel, Rvb and Atm-like kinase. In Saccharomyces cerevisiae this complex includes Rvb1p, Rvb2p, Tra1p, Tel2p, Asa1p, Ttilp and Tti2p. | 4 |
| GO:0033698 | Rpd3L complex | A histone deacetylase complex which deacetylates histones across gene coding regions. Composed of a catalytic histone deacetylase subunit, an Sds-3 family protein, a SIN3 family co-repressor, a WD repeat protein, and a zf- PHD finger (Clr6, Sds3, Pst1, Prw1, Png2 in Schizosaccharomyces pombe; Rpd3p, Sin3p, Ume1p, Pho23p, Sap30p, Sds3p, Cti6p, Rxt2p, Rxt3p, Dep1p, Ume6p and Ash1p in Saccharomyces cerevisiae). | 4 |
| GO:0000811 | GINS complex | A heterotetrameric protein complex that associates with replication origins, where it is required for the initiation of DNA replication, and with replication forks. | 3 |
| GO:0070211 | Snt2C complex | A histone deacetylase complex that is part of the chromatin remodeling machinery. In Saccharomyces cerevisiae this complex contains Snt2p, Ecm5p and Rpd3p. | 3 |
| GO:0005658 | alpha DNA polymerase:primase complex | A complex of four polypeptides, comprising large and small DNA polymerase alpha subunits and two primase subunits, which catalyzes the synthesis of an RNA primer on the lagging strand of replicating DNA; the smaller of the two primase subunits alone can catalyze oligoribonucleotide synthesis. | 3 |
| GO:0005664 | nuclear origin of replication recognition complex | A multisubunit complex that is located at the replication origins of a chromosome in the nucleus. | 3 |
| GO:0034990 | nuclear mitotic cohesin complex | A cohesin complex that mediates sister chromatid cohesion in the nucleus during mitosis; has a subunit composition distinct from that of the meiotic cohesin complex. | 2 |
| GO:0030998 | linear element | A proteinaceous scaffold associated with S. pombe chromosomes during meiotic prophase. Linear elements have a structure related to but not equivalent to the synaptonemal complex. | 2 |
| GO:0008622 | epsilon DNA polymerase complex | A heterotetrameric DNA polymerase complex that catalyzes processive DNA synthesis in the absence of PCNA, but is further stimulated in the presence of PCNA. The complex contains a large catalytic subunit and three small subunits, and is best characterized in Saccharomyces, in which the subunits are named Pol2p, Dpb2p, Dpb3p, and Dpb4p. Some evidence suggests that DNA polymerase epsilon is the leading strand polymerase; it is also involved in nucleotide-excision repair and mismatch repair. | 2 |
| GO:0005731 | nucleolus organizer region | A region of a chromosome where nucleoli form during interphase, and where genes encoding the largest rRNA precursor transcript are tandemly arrayed. | 2 |
| GO:0005662 | DNA replication factor A complex | A conserved heterotrimeric complex that binds nonspecifically to single-stranded DNA and is required for multiple processes in eukaryotic DNA metabolism, including DNA replication, DNA repair, and recombination. In all eukaryotic organisms examined the complex is composed of subunits of approximately 70, 30, and 14 kDa. | 1 |
| GO:0043601 | nuclear replisome | A multi-component enzymatic machine at the nuclear replication fork, which mediates DNA replication. Includes DNA primase, one or more DNA polymerases, DNA helicases, and other proteins. | 1 |
| GO:0000942 | condensed nuclear chromosome outer kinetochore | The region of a condensed nuclear chromosome kinetochore most external to centromeric DNA; this outer region mediates kinetochore-microtubule interactions. | 1 |
| GO:0033557 | Slx1-Slx4 complex | A heterodimeric protein complex that possesses an endonuclease activity that specifically cleaves certain types of branched DNA structures; because such structures often form during the replication ribosomal DNA (rDNA) repeats, the complex plays a role in the maintenance of rDNA. The subunits are known as Slx1 and Slx 4 in budding and fission yeasts, and are conserved in eukaryotes. | 1 |
| GO:0043625 | delta DNA polymerase complex | A multimeric DNA polymerase enzyme complex which differs in composition amongst species; in humans it is a heterotetramer of four subunits of approximately 125, 50, 68 and 12kDa, while in S. cerevisiae, it has three different subunits which form a heterotrimer, and the active enzyme is a dimer of this heterotrimer. Functions in DNA replication, mismatch repair and excision repair. | 1 |
| GO:0030958 | RITS complex | A protein complex required for heterochromatin assembly; contains an Argonaute homolog, a chromodomain protein, and at least one additional protein; named for RNA-induced initiation of transcriptional gene silencing. | 1 |
| GO:0000798 | nuclear cohesin complex | A cohesin complex required for cohesion between sister chromatids that remain in the nucleus. | 1 |