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A protein complex that contains the homeodomain proteins PDX1, PBX1b and MRG1 (MEIS2) and is involved in the transcriptional regulation of pancreatic acinar cell-specific genes. A proteasome found in the nucleus of a cell. Trimeric protein complex that possesses endonuclease activity; involved in DNA repair and checkpoint signaling. In Saccharomyces the complex comprises Mre11p, Rad50p, and Xrs2p; complexes identified in other species generally contain proteins related to the Saccharomyces proteins. The regulatory subcomplex of a proteasome located in the nucleus of a cell. A protein complex that contains the BRCA1-BARD1 heterodimer, BACH1 and TopBP1, and binds to DNA during S phase at DNA damage sites. A protein complex that contains the BRCA1-BARD1 heterodimer, RAP80/UIMC1, BRCC3/BRCC36, BRE/BRCC45, FAM175A/CCDC98/Abraxas and MERIT40/NBA1, and specifically recognizes and binds K63-linked polyubiquitin chains present on histone H2A and H2AX at DNA damage sites. A multiprotein complex having distributive polyadenylation activity of a variety of RNA substrates including hypomodified and incorrectly folded tRNAs, pre-snRNAs, pre-snoRNAs, incorrectly spliced or processed pre-mRNAs, cryptic unstable transcripts (CUTs), pre-rRNAs and rRNA fragments released as part of rRNA processing. In S. cerevisiae, the complex consists of either Pap2 (also known as Trf4) or Trf5, Air1 or Air2, and Mtr4, and is involved in RNA 3'-end processing and in RNA surveillance and quality control. A protein complex that contains the BRCA1-BARD1 heterodimer, CtIP and Mre11/Rad50/NBS1 (M/R/N) complex, and binds to DNA at DNA damage sites. BRCA1-C binding ta damaged DNA is required for DNA damage-induced Chk1 phosphorylation and the G2/M transition checkpoint. A protein complex that contains CREB and FHL2, and is involved in transcriptional regulation. A protein complex that contains CREB and FHL3, and is involved in transcriptional regulation. The THO complex is a nuclear complex that is required for transcription elongation through genes containing tandemly repeated DNA sequences. The THO complex is also part of the TREX (TRanscription EXport) complex that is involved in coupling transcription to export of mRNAs to the cytoplasm. In S. cerevisiae, it is composed of four subunits: Hpr1p, Tho2p, Thp1p, and Mft1p, while the human complex is composed of 7 subunits. Telomerase is a ribonucleoprotein enzyme complex, with a minimal catalytic core composed of a catalytic reverse transcriptase subunit and an RNA subunit that provides the template for telomeric DNA addition. In vivo, the holoenzyme complex often contains additional subunits. A protein complex that consists of an RNA 5' triphosphatase and a guanyl transferase (Cet1p and Ceg1p in S. cerevisiae; Pct1 and Ceg1 in S. pombe) and is involved in mRNA capping. The transcription export (TREX) complex couples transcription elongation by RNA polymerase II to mRNA export. The complex associates with the polymerase and travels with it along the length of the transcribed gene. TREX is composed of the THO transcription elongation complex as well as other proteins that couple THO to mRNA export proteins. The TREX complex is known to be found in a wide range of eukaryotes, including S. cerevisiae and metazoans. A complex required for the loading of cohesin onto DNA prior to the establishment of cohesion. Appears to be eukaryotically conserved. Any of several heterodimers containing one or two Noc proteins, associated with preribosomal complexes; involved in ribosome biogenesis. A multiprotein complex that functions as a mitotic checkpoint inhibitor of the anaphase-promoting complex/cyclosome (APC/C). In budding yeast this complex consists of Mad2p, Mad3p, Bub3p and Cdc20p, and in mammalian cells it consists of MAD2, BUBR1, BUB3, and CDC20. A protein complex that contains the transcription factor Ste11 and the RNA binding protein Mei2; involved in regulation of conjugation in fission yeast. Any constituent part of the nucleus, a membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated. Complex of 3'-5' exoribonucleases found in the nucleus. A subcomplex of the nuclear pore complex (NPC) involved in mRNA export and NPC assembly. Contains conserved nucleoporins and other proteins; for example, the Saccharomyces complex contains Nup84p, Nup85p, Nup120p, Nup145p-C, Seh1p, Sec13p, and Nup133p. Any constituent part of the living contents of a cell; the matter contained within (but not including) the plasma membrane, usually taken to exclude large vacuoles and masses of secretory or ingested material. In eukaryotes it includes the nucleus and cytoplasm. A region of the nuclear envelope to which a microtubule organizing center (MTOC) attaches; protein complexes embedded in the nuclear envelope mediate direct or indirect linkages between the microtubule cytoskeleton and the nuclear envelope. Any constituent part of an organelle, an organized structure of distinctive morphology and function. Includes constituent parts of the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton, but excludes the plasma membrane. Protein complex that mediates editing of the mRNA encoding apolipoprotein B; catalyzes the deamination of C to U (residue 6666 in the human mRNA). Contains a catalytic subunit, APOBEC-1, and other proteins (e.g. human ASP; rat ASP and KSRP). A protein complex that contains DNA ligase III, DNA polymerase epsilon, a 5'-3' exonuclease, and the SMC1 and SMC2 proteins, and is involved in recombinational repair of deletions and gaps in DNA. A complex required for RNAi mediated heterochromatin assembly. In S. pombe this contains RNA-directed RNA polymerase, a putative helicase and a protein containing a pap25 associated domain. 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. The double lipid bilayer enclosing the nucleus and separating its contents from the rest of the cytoplasm; includes the intermembrane space, a gap of width 20-40 nm (also called the perinuclear space). A protein complex that catalyzes the endonucleolytic cleavage of pre-tRNA, producing 5'-hydroxyl and 2',3'-cyclic phosphate termini, and specifically removing the intron. The dense fibrillar network lying on the inner side of the nuclear membrane. Any of a group of intermediate-filament proteins that form the fibrous matrix on the inner surface of the nuclear envelope. They are classified as lamins A, B and C. Any complex formed of proteins that act in nucleotide-excision repair. A protein complex formed by the association of the cyclin-dependent protein kinase activating kinase (CAK) holoenzyme complex with ERCC2. The core complex of a proteasome located in the nucleus of a cell. Any of the numerous similar discrete openings in the nuclear envelope of a eukaryotic cell, where the inner and outer nuclear membranes are joined. The region between the two lipid bilayers of the nuclear envelope; 20-40 nm wide. The subunits forming the outer ring of the core complex of a proteasome located in the nucleus of a cell. The subunits forming the inner ring of the core complex of a proteasome located in the nucleus of a cell. A heterodimer involved in the recognition of base-base and small insertion/deletion mismatches. In human the complex consists of two subunits, MLH1 and PMS2. A protein complex that contains the protein kinase ATR and ATR-interacting protein (ATRIP) and binds single-stranded DNA; ssDNA binding affinity is increased in the presence of replication protein A. A heterodimeric complex of BRCA2 and BRAF35 (BRCA2-associated factor 35). The BRCA2-BRAF35 complex is often associated with condensed chromatin during mitosis. A chromosome found in the nucleus of a eukaryotic cell. A protein complex formed by the association of RGS6, a negative regulator of heterotrimeric G protein signaling, with the DMAP1-Dnmt1 transcriptional repressor complex; in the complex, RGS6 inhibits the transcriptional repressor activity of DMAP1. A eukaryotically conserved protein complex that contains DNA ligase IV and is involved in DNA repair by non-homologous end joining; in addition to the ligase, the complex also contains XRCC4 or a homolog, e.g. Saccharomyces Lif1p. A protein complex that phosphorylates amino acid residues of RNA polymerase II C-terminal domain repeats; phosphorylation occurs mainly on Ser2 and Ser5. A heterodimer involved in the recognition and repair of base-base and small insertion/deletion mismatches. In human the complex consists of two subunits, MSH2 and MSH6. A heterodimer involved in binding to and correcting insertion/deletion mutations. In human the complex consists of two subunits, MSH2 and MSH3. The subunits of the regulatory particle that directly associate with the core complex of a proteasome located in the nucleus of a cell. A complex of the retrotransposon RNA genome, reverse transcriptase, integrase, and associated molecules required for reproduction and integration of the retrotransposon into the host genome; the main structural molecule of the nucleocapsid is often a gag protein homolog. An aryl hydrocarbon receptor (AhR) complex found in the nucleus; ; consists of ligand-bound AhR and the aryl hydrocarbon receptor nuclear translocator (ARNT). The subunits that form the peripheral lid of the regulatory particle of a proteasome located in the nucleus of a cell. A heterodimer involved in the recognition of base-base and small insertion/deletion mismatches. In human the complex consists of two subunits, MLH1 and PMS1. A protein complex that promotes nucleoprotein filament formation during homologous recombination; most known examples contain two or more RecA family proteins (often Rad51 paralogs). A protein or protein-RNA complex that localizes to one or more of the sex chromosome(s), where it acts to normalize transcription between different sexes. A protein complex that binds to heme and to pri-miRNAs, and is required for the formation of a pre-microRNA (pre-miRNA), the initial step of microRNA (miRNA) biogenesis. The complex is composed of the double-stranded-RNA-specific RNase Drosha (also called RNASEN) and the RNA-binding protein DGCR8 (heme-free or heme-bound forms). Within the complex, DGCR8 function as a molecular anchor necessary for the recognition of pri-miRNA at dsRNA-ssRNA junction and directs RNASEN/Drosha to cleave the 3' and 5' strands of a stem-loop to release hairpin-shaped pre-miRNAs. A protein complex that functions downstream of the MRN complex to promote DNA repair and the G2/M checkpoint. The SOSS complex associates with single-stranded DNA at DNA lesions and is composed of SOSS-B (SOSS-B1/OBFC2B or SOSS-B2/OBFC2A), SOSS-A/INTS3 and SOSS-C/C9orf80. Organized structure of distinctive morphology and function, bounded by a single or double lipid bilayer membrane and occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, and vesicles. Excludes the plasma membrane. A protein complex that is required for efficient splicing, and prevents leakage of unspliced pre-mRNAs from the nucleus (named for pre-mRNA REtention and Splicing). In Saccharomyces, the complex consists of Ist3p, Bud13p, and Pml1p. Any constituent part of a nuclear chromosome, a chromosome found in the nucleus of a eukaryotic cell. Any constituent part of the nuclear membrane, the envelope that surrounds the nucleus of eukaryotic cells. A protein complex that comprises three core spliceosomal proteins, designated E, F, and G. Formation of the E.F.G complex is essential but not sufficient for the formation of a stable U1 snRNP complex. Any complex that mediates dynamic changes in eukaryotic chromatin. A complex composed of RNA of the small nuclear RNA (snRNA) class and protein, found in the nucleus of a eukaryotic cell. These are typically named after the snRNA(s) they contain, e.g. U1 snRNP or U4/U6 snRNP. Many, but not all, of these complexes are involved in splicing of nuclear mRNAs. Organized structure of distinctive morphology and function, occurring within the cell. Includes the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton. Excludes the plasma membrane. Particulate complex of heterogeneous nuclear RNA (hnRNA; a heterogeneous mixture of RNA molecules of high Mr with a rapid turnover rate that occurs in cell nuclei during protein synthesis; it is the form of RNA synthesized in eukaryotes by RNA polymerase II, that which is translated into protein) with protein, which is cell-specific and heterogeneous. The protein component may play a role in the processing of the hnRNA to mRNA. A multi-subunit complex deposited by the spliceosome upstream of messenger RNA exon-exon junctions. The exon-exon junction complex provides a binding platform for factors involved in mRNA export and nonsense-mediated mRNA decay. A protein complex that phosphorylates cyclin-dependent kinases such as Cdc2 on Thr161 (or an equivalent residue); contains a catalytic subunit and a regulatory subunit, and some examples also include an assembly factor. Either of the lipid bilayers that surround the nucleus and form the nuclear envelope; excludes the intermembrane space. A protein complex that couples SAGA-dependent gene expression to mRNA export at the inner side of the nuclear pore complex (NPC). The TREX-2 complex is tethered to the inner side of the NPC via the nucleoporins Nup1 and Nup60; in S. cerevisiae it contains Sac3p, Thp1p, Sus1p and Cdc31p. Cyclin-dependent protein kinase (CDK) complex found in the nucleus. A homohexameric protein complex that possesses DNA helicase activity; associates with DNA polymerase alpha-primase and translocates in the 5' to 3' direction. The portion of the nuclear lumen proximal to the inner nuclear membrane. The fibrous, electron-dense layer lying on the nucleoplasmic side of the inner membrane of a cell nucleus, composed of lamin filaments. The polypeptides of the lamina are thought to be concerned in the dissolution of the nuclear envelope and its re-formation during mitosis. The lamina is composed of lamin A and lamin C filaments cross-linked into an orthogonal lattice, which is attached via lamin B to the inner nuclear membrane through interactions with a lamin B receptor, an IFAP, in the membrane. The SSL2-core TFIIH complex when it is part of the nucleotide-excision repair factor 3 (NEF3). It is composed of the tightly associated 5 subunit core TFIIH subcomplex plus one additional, less tighly associated subunit. The subunits are well conserved from yeast to humans. In S. cerevisiae, the 5-subunit core is composed of Rad3, Tfb1, Tfb2, Ssl1, Tfb4 and the loosely associated subunit is Ssl2p (also called Rad25). In humans, the 5 subunit core is composed of ERCC2, p62, p55, p44, p34 and the loosely associated subunit is XPB. That part of the nuclear content other than the chromosomes or the nucleolus. A ribonucleoprotein that binds to specific sites in, and is required for cleavage of, the 3'-end of histone pre-mRNAs. The complex contains the U7 snRNP and additional proteins, including the stem-loop binding protein (SLBP) and the exonuclease 3'hExo/Eri-1. An intranuclear focus at which aggregated proteins have been sequestered. Any microtubule in the nucleus of a cell. Any protein complex that acts in the formation of nucleosomes or higher order chromatin structure. A protein complex that spans the nuclear outer and inner membranes, thereby linking the major cytoplasmic cytoskeleton elements to the nuclear lumen; the complex is conserved in eukaryotes and contains proteins with SUN and KASH domains. A protein complex that contains DNA ligase III and XRCC1, and is involved in base excision repair. A ubiquitin ligase complex found in the nucleus. A protein complex that contains the FAM175B/ABRO1, BRCC3/BRCC36, BRE/BRCC45 and MERIT40/NBA1 proteins, and specifically cleaves K63-linked polyubiquitin chains. A protein complex that catalyzes the deneddylation of proteins, including the cullin component of SCF ubiquitin E3 ligase; deneddylation increases the activity of cullin family ubiquitin ligases. The signalosome is involved in many regulatory process, including some which control development, in many species; also regulates photomorphogenesis in plants; in many species its subunits are highly similar to those of the proteasome. Virus-specific complex of protein required for integrating viral genomes into the host genome. Long, dynamic tubular channels, formed by invagination of the nuclear envelope, that extend deep into the nucleoplasm. The channels have an underlying lamina and are implicated in functioning in signaling and transport. Globular nuclear domains where the transcription and replication of the viral genome occurs. More than one site can be present simultaneously. Specific locations and structures in the virus infected cell involved in transcribing the viral genome. Antigenically dense structures located at the periphery of nuclei, close to but not abutting nuclear membranes. Assemblons contain the proteins for immature-capsid assembly; they are located at the periphery of a diffuse structure composed of proteins involved in DNA synthesis, which overlaps only minimally with the assemblons. More than one site can be present simultaneously. A protein complex that contains the cyclin-dependent protein kinase inhibitor p21WAF1/CIP1 bound to PCNA; formation of the complex inhibits DNA replication. Specific locations and structures in the virus infected cell involved in replicating the viral genome. A protein complex, located in the nucleus, that possesses DNA-directed RNA polymerase activity. Any of a series of ribonucleoprotein complexes that contain RNA and small nuclear ribonucleoproteins (snRNPs), and are formed sequentially during the splicing of a messenger RNA primary transcript to excise an intron. The part of the horsetail nucleus where telomeres cluster under the SPB and that leads horsetail movement. The horsetail nucleus is the elongated nucleus which forms during the rapid oscillatory movement at meiotic prophase; characterized in Schizosaccharomyces pombe. A large protein complex which is involved in the repair of DNA double-strand breaks and, in mammals, V(D)J recombination events. It consists of the DNA-dependent protein kinase catalytic subunit (DNA-PKcs), the DNA end-binding heterodimer Ku, the nuclear phosphoprotein XRCC4 or a homolog thereof, and DNA ligase IV. A protein complex that contains the zinc finger transcription factor GATA1, the LIM domain protein Lmo2 (RBTN2), the basic helix-loop-helix protein TAL1 and its binding partner TCF3. The complex is involved transcriptional regulation in hematopoiesis. A protein complex that contains the zinc finger transcription factor GATA2, the LIM domain protein Lmo2 (RBTN2), the basic helix-loop-helix protein TAL1 and its binding partner TCF3. The complex is involved transcriptional regulation in hematopoiesis. A protein complex that is formed by the association of positive transcription elongation factor complex b (P-TEFb) with the mRNA capping methyltransferase. Discrete hetero-chromatin-containing foci in interphase nuclei, which comprise clusters of centromeric DNA (as defined by gamma-satellite sequences and the abundance of heterochromatin protein 1 (HP-1) . A chromatin-associated multiprotein complex containing Polycomb Group proteins. In Drosophila, Polycomb group proteins are involved in the long-term maintenance of gene repression, and PcG protein complexes associate with Polycomb group response elements (PREs) in target genes to regulate higher-order chromatin structure. A protein complex that contains BRCA1 and Rad 51, and is involved in the control of recombination and of genome integrity. A protein complex that is involved in the transcription of ribosomal genes. In Saccharomyces this complex consists of Ckb2p, Utp22p, Rrp7p andIfh1p. A protein complex that forms part of the nuclear pore complex, and contains three transmembrane nucleoporins, encoded in S. cerevisiae by Ndc1p, Pom152p and Pom34p. A small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. Its prime function is the transcription of the nucleolar DNA into 45S ribosomal-precursor RNA, the processing of this RNA into 5.8S, 18S, and 28S components of ribosomal RNA, and the association of these components with 5S RNA and proteins synthesized outside the nucleolus. This association results in the formation of ribonucleoprotein precursors; these pass into the cytoplasm and mature into the 40S and 60S subunits of the ribosome. A conserved heterodimeric complex with SUMO activating enzyme activity. A protein complex that activates cyclin-dependent kinase 5; composed of regulatory and catalytic subunits. The volume enclosed by the nuclear inner membrane. Any constituent part of the nucleoplasm, that part of the nuclear content other than the chromosomes or the nucleolus. Any constituent part of a nucleolus, a small, dense body one or more of which are present in the nucleus of eukaryotic cells. It is rich in RNA and protein, is not bounded by a limiting membrane, and is not seen during mitosis. A location in the host cell nucleus where viral proteins colocalize late in infection prior to the onset of viral DNA synthesis. More than one site can be present simultaneously. Heterodimeric protein complex composed of a 70 kDa and a 80 kDa subunit, binds DNA through a channel formed by the heterodimer. Functions in DNA double stranded break repair, chromosome maintenance, transcription regulation, V(D)J recombination, and activation of DNA-PK. A protein complex that is involved in the repair of DNA double-strand breaks and, in mammals, V(D)J recombination events. It consists of the DNA-dependent protein kinase catalytic subunit (DNA-PKcs) and the DNA end-binding heterodimer Ku. A subcomplex of the nuclear pore complex that interacts with karyopherin-cargo complexes; a well-characterized example in Saccharomyces contains Asm4p, Nup53p, and Nup170p. A constituent part of an intracellular organelle, an organized structure of distinctive morphology and function, occurring within the cell. Includes constituent parts of the nucleus, mitochondria, plastids, vacuoles, vesicles, ribosomes and the cytoskeleton but excludes the plasma membrane. A ribonucleoprotein complex that contains members of the Argonaute family of proteins, additional protein subunits, and duplex siRNA; required for heterochromatin assembly and siRNA generation. Possibly involved in the conversion of ds siRNA to ss siRNA.

View Gene Ontology (GO) Term

GO TERM SUMMARY

Name: nuclear part
Acc: GO:0044428
Aspect: Cellular Component
Desc: Any constituent part of the nucleus, a membrane-bounded organelle of eukaryotic cells in which chromosomes are housed and replicated.
Synonyms:
  • nucleus component
Proteins in PDR annotated with:
   This term: 10 [Search]
   Term or descendants: 7707 [Refine Search]


[geneontology.org]
INTERACTIVE GO GRAPH

GO:0044428 - nuclear part (interactive image map)

YRC Informatics Platform - Version 3.0
Created and Maintained by: Michael Riffle