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{
"count": 543,
"next": "https://cinder.proteo.info/api/subcellular_locations/?format=api&limit=20&offset=380&ordering=location_identifier",
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"results": [
{
"location_identifier": "Nuclear body.",
"topology_identifier": null,
"orientation_identifier": null,
"accession": "SL-0494",
"definition": "Nuclear body is a collective term for several nuclear, extra- nucleolar, non-membrane-bound sub-compartments, including, but not limited to Cajal bodies, Gemini of Cajal bodies (gems), nuclear speckles and PML bodies. Nuclear bodies are visible as distinct spots in the nucleoplasm. They can vary in number and size depending on the cell line and the type of nuclear body. ",
"synonyms": null,
"content": "Nucleus, nuclear body.",
"is_a": null,
"part_of": "Nucleus.; ",
"keyword": null,
"gene_ontology": "GO:0016604; nuclear body; ",
"annotation": null,
"references": null,
"links": null
},
{
"location_identifier": "Nuclear pore complex.",
"topology_identifier": null,
"orientation_identifier": null,
"accession": "SL-0185",
"definition": "The nuclear pore complex (NPC) constitutes the exclusive means of nucleocytoplasmic transport in eukaryotes during interphase. NPCs allow the passive diffusion of ions and small molecules (up to about 20 kDa or 5 nm) and the active, nuclear transport receptor (karyopherin: importin and exportin)-mediated bidirectional transport of macromolecules such as proteins, RNAs, ribonucleoprotein (RNPs), and ribosomal subunits (up to about 10 MDa) across the double-membrane nuclear envelope. NPC components, collectively referred to as nucleoporins (NUPs), can play the role of both NPC structural components and of docking or interaction partners for transiently associated nuclear transport factors. The NPC is composed of at least 30 distinct subunits, shows 8-fold rotational symmetry with specialized structures on the cyto- and nucleoplasmic side and in the nuclear envelope embedded core. The MW varies from about 44-60 MDa in S. cerevisiae to 60-120 MDa in vertebrates, yet the overall architecture is conserved. ",
"synonyms": "NPC; Nuclear pore.; ",
"content": "Nucleus, nuclear pore complex.",
"is_a": null,
"part_of": "Nucleus envelope.; ",
"keyword": "KW-0906",
"gene_ontology": "GO:0005643; nuclear pore; ",
"annotation": null,
"references": null,
"links": null
},
{
"location_identifier": "Nucleoid.",
"topology_identifier": null,
"orientation_identifier": null,
"accession": "SL-0187",
"definition": "The nucleoid is the prokaryotic pseudocompartment formed by the chromatin-dense area. This region, which is functionally equivalent to the eukaryotic nucleus, is not surrounded by a membrane. ",
"synonyms": null,
"content": "Cytoplasm, nucleoid.",
"is_a": null,
"part_of": "Cytoplasm.; ",
"keyword": null,
"gene_ontology": "GO:0009295; nucleoid; ",
"annotation": null,
"references": null,
"links": null
},
{
"location_identifier": "Nucleolus.",
"topology_identifier": null,
"orientation_identifier": null,
"accession": "SL-0188",
"definition": "The nucleolus is a non-membrane bound nuclear compartment found in eukaryotic cells which is the site of ribosome biogenesis. The interphase nucleolus is organized around the tandemly repeated genes for preribosomal RNA (rRNA). It is composed of at least 2 sub- compartments: the dense fibrillar component (DFC, also called pars fibrosa) and the granular component (GC or pars granulosa). The DFC contains newly synthesized preribosomal RNA and a collection of proteins; the GC is made up of nearly completed preribosomal particles destined for the cytoplasm. In most metazoans, but generally not in lower eukaryotes, a third component, the fibrillar center (FC), can be seen. Plant and animal nuclei can contain more than one nucleolus. ",
"synonyms": "Nucleoli.; ",
"content": "Nucleus, nucleolus.",
"is_a": null,
"part_of": "Nucleus.; ",
"keyword": null,
"gene_ontology": "GO:0005730; nucleolus; ",
"annotation": null,
"references": null,
"links": null
},
{
"location_identifier": "Nucleolus fibrillar center.",
"topology_identifier": null,
"orientation_identifier": null,
"accession": "SL-0497",
"definition": "The nucleolus fibrillar center (FC) is a sub-compartment of most metazoan nucleoli. The transcription of ribosomal RNA (rRNA) genes generates 2 structures that are found in all nucleoli: the dense fibrillar component (DFC) and the granular component (GC). The DFC contains newly synthesized preribosomal RNA and a collection of proteins; the GC is made up of nearly completed preribosomal particles destined for the cytoplasm. In most metazoans, but generally not in lower eukaryotes, a third component, the FC, can be seen. The FC is surrounded by the DFC. The zone of transcription from multiple copy rRNA genes is in the border region between these 2 structures. ",
"synonyms": "Nucleoli fibrillar center.; ",
"content": "Nucleus, nucleolus fibrillar center.",
"is_a": null,
"part_of": "Nucleolus.; ",
"keyword": null,
"gene_ontology": "GO:0001650; fibrillar center; ",
"annotation": null,
"references": null,
"links": null
},
{
"location_identifier": "Nucleomorph.",
"topology_identifier": null,
"orientation_identifier": null,
"accession": "SL-0189",
"definition": "Nucleomorphs are vestigial endosymbiont found in cryptomonads and chlorachniophytes algae. These organisms respectively retain an enslaved red or green algal nucleus. ",
"synonyms": null,
"content": "Nucleomorph.",
"is_a": null,
"part_of": null,
"keyword": "KW-0542",
"gene_ontology": "GO:0033009; nucleomorph; ",
"annotation": null,
"references": null,
"links": null
},
{
"location_identifier": "Nucleoplasm.",
"topology_identifier": null,
"orientation_identifier": null,
"accession": "SL-0190",
"definition": "The nucleoplasm is a highly viscous liquid contained within the nucleus that surrounds the chromosomes and other subnuclear organelles. A network of fibers known as the nuclear matrix can also be found in the nucleoplasm. ",
"synonyms": "Karyolymph; Karyoplasm.; ",
"content": "Nucleus, nucleoplasm.",
"is_a": null,
"part_of": "Nucleus.; ",
"keyword": null,
"gene_ontology": "GO:0005654; nucleoplasm; ",
"annotation": null,
"references": null,
"links": null
},
{
"location_identifier": "Nucleus.",
"topology_identifier": null,
"orientation_identifier": null,
"accession": "SL-0191",
"definition": "The nucleus is the most obvious organelle in any eukaryotic cell. It is a membrane-bound organelle surrounded by double membranes which contains most of the cell's genetic material. It communicates with the surrounding cytosol via numerous nuclear pores. ",
"synonyms": "Nuclear; Nuclei.; ",
"content": "Nucleus.",
"is_a": null,
"part_of": null,
"keyword": "KW-0539",
"gene_ontology": "GO:0005634; nucleus; ",
"annotation": null,
"references": null,
"links": null
},
{
"location_identifier": "Nucleus envelope.",
"topology_identifier": null,
"orientation_identifier": null,
"accession": "SL-0178",
"definition": "The nuclear envelope is a membrane system which surrounds the nucleoplasm of eukaryotic cells. It is composed of the nuclear lamina, nuclear pore complexes and two nuclear membranes. The space between the two membranes is called the nuclear intermembrane space. ",
"synonyms": "Karyotheca; Nuclear envelope; Nucleolemma; Perinuclear envelope.; ",
"content": "Nucleus envelope.",
"is_a": null,
"part_of": "Nucleus.; ",
"keyword": null,
"gene_ontology": "GO:0005635; nuclear envelope; ",
"annotation": null,
"references": null,
"links": null
},
{
"location_identifier": "Nucleus inner membrane.",
"topology_identifier": null,
"orientation_identifier": null,
"accession": "SL-0179",
"definition": "The inner membrane of the nucleus is the membrane which separates the nuclear matrix from the intermembrane space. In mammals, the inner nuclear membrane is associated with heterochromatin and the nuclear lamina. ",
"synonyms": "Inner nuclear membrane; Nuclear inner membrane.; ",
"content": "Nucleus inner membrane.",
"is_a": "Nucleus membrane.; ",
"part_of": null,
"keyword": null,
"gene_ontology": "GO:0005637; nuclear inner membrane; ",
"annotation": null,
"references": null,
"links": null
},
{
"location_identifier": "Nucleus intermembrane space.",
"topology_identifier": null,
"orientation_identifier": null,
"accession": "SL-0184",
"definition": "The nuclear intermembrane space is the space between the inner and outer nuclear membranes. ",
"synonyms": "Nuclear envelope lumen; Nuclear intermembrane space;; Nuclear periplasm; Nuclear periplasmic space; Nucleus envelope lumen;; Perinuclear space.; ",
"content": "Nucleus intermembrane space.",
"is_a": null,
"part_of": "Nucleus envelope.; ",
"keyword": null,
"gene_ontology": "GO:0005641; nuclear envelope lumen; ",
"annotation": null,
"references": null,
"links": null
},
{
"location_identifier": "Nucleus lamina.",
"topology_identifier": null,
"orientation_identifier": null,
"accession": "SL-0180",
"definition": "The nuclear lamina is a meshwork of intermediate filament proteins called lamins and lamin-binding proteins that are embedded in the inner nuclear membrane. ",
"synonyms": "Nuclear lamina.; ",
"content": "Nucleus lamina.",
"is_a": null,
"part_of": "Nucleus envelope.; ",
"keyword": null,
"gene_ontology": "GO:0005652; nuclear lamina; ",
"annotation": null,
"references": null,
"links": null
},
{
"location_identifier": "Nucleus matrix.",
"topology_identifier": null,
"orientation_identifier": null,
"accession": "SL-0181",
"definition": "The nuclear matrix is a three-dimensional filamentous protein network, found in the nucleoplasm, which provides a structural framework for organising chromatin, while facilitating transcription and replication. ",
"synonyms": "Nuclear matrix; Nuclear scaffold; Nuclear skeleton.; ",
"content": "Nucleus matrix.",
"is_a": null,
"part_of": "Nucleus.; ",
"keyword": null,
"gene_ontology": "GO:0016363; nuclear matrix; ",
"annotation": null,
"references": null,
"links": null
},
{
"location_identifier": "Nucleus membrane.",
"topology_identifier": null,
"orientation_identifier": null,
"accession": "SL-0182",
"definition": "The membrane surrounding the nucleus. This term is used when it is not known if the protein is found in or associated with the inner or outer nuclear membrane. ",
"synonyms": "Nuclear membrane.; ",
"content": "Nucleus membrane.",
"is_a": "Membrane.; ",
"part_of": "Endomembrane system.; Nucleus envelope.; ",
"keyword": null,
"gene_ontology": "GO:0031965; nuclear membrane; ",
"annotation": null,
"references": null,
"links": null
},
{
"location_identifier": "Nucleus outer membrane.",
"topology_identifier": null,
"orientation_identifier": null,
"accession": "SL-0183",
"definition": "The outer membrane of the nucleus is the membrane facing the cytoplasm. In mammals, the outer nuclear membrane is continuous in many places with the rough endoplasmic reticulum and is dotted with ribosomes. ",
"synonyms": "Nuclear outer membrane; Outer nuclear membrane.; ",
"content": "Nucleus outer membrane.",
"is_a": "Nucleus membrane.; ",
"part_of": null,
"keyword": null,
"gene_ontology": "GO:0005640; nuclear outer membrane; ",
"annotation": null,
"references": null,
"links": null
},
{
"location_identifier": "Nucleus speckle.",
"topology_identifier": null,
"orientation_identifier": null,
"accession": "SL-0186",
"definition": "The nuclear speckles are small subnuclear membraneless organelles or structures, also called the splicing factor (SF) compartments that correspond to nuclear domains located in interchromatin regions of the nucleoplasm of mammalian cells. Protein found in speckles serves as a reservoir of factors that participate in transcription and pre-mRNA processing. Speckles appear, at the immunofluorescence-microscope level, as irregular, punctuate structures, which vary in size and shape. Usually 25-50 speckles are observed per interphase mammalian nucleus. At the electronic-microscope level, they are composed of heterogeneous mixture of electro-dense particles with diameters ranging from 20-25 nm and are called interchromatin granules clusters (IGCs). Speckles are dynamic structures. Both their protein and RNA- protein components can cycle continuously between speckles and other nuclear locations depending on the transcriptional state of the cell. Structures similar to nuclear speckles have been identified in the amphibian oocyte nucleus (called B snurposomes) and in Drosophila melanogaster embryos, but not in yeast. ",
"synonyms": "B snurposome; IGC; Interchromatin granules clusters; Nuclear speck;; Nuclear speckle; SF compartments; Splicing Factor compartments;; Splicing speckle.; ",
"content": "Nucleus speckle.",
"is_a": "Nuclear body.; ",
"part_of": "Nucleus.; ",
"keyword": null,
"gene_ontology": "GO:0016607; nuclear speck; ",
"annotation": null,
"references": null,
"links": null
},
{
"location_identifier": "Organellar chromatophore.",
"topology_identifier": null,
"orientation_identifier": null,
"accession": "SL-0351",
"definition": "The organellar chromatophore is the photosynthetic inclusion found in Paulinella species, which are photosynthetic thecate amoeba. It probably derives from a different endosymbiotic event than that which led to all other plastids. Houses the machinery necessary for photosynthesis and CO(2) fixation and may also be able to make a few amino acids, some fatty acids and a few cofactors. They are surrounded by 2 membranes, between which is found a residual peptidoglycan wall, and contain thylakoids. ",
"synonyms": null,
"content": "Plastid, organellar chromatophore.",
"is_a": "Plastid.; ",
"part_of": null,
"keyword": "KW-0994",
"gene_ontology": "GO:0070111; organellar chromatophore; ",
"annotation": null,
"references": null,
"links": null
},
{
"location_identifier": "Organellar chromatophore inner membrane.",
"topology_identifier": null,
"orientation_identifier": null,
"accession": "SL-0359",
"definition": "The organellar chromatophore inner membrane is the membrane which separates the chromatophore stroma from the intermembrane space. Found exclusively in Paulinella species, which are photosynthetic thecate amoeba. ",
"synonyms": null,
"content": "Plastid, organellar chromatophore inner membrane.",
"is_a": "Plastid inner membrane.; Organellar chromatophore membrane.; ",
"part_of": "Organellar chromatophore.; ",
"keyword": null,
"gene_ontology": "GO:0070113; organellar chromatophore inner membrane; ",
"annotation": null,
"references": null,
"links": null
},
{
"location_identifier": "Organellar chromatophore intermembrane space.",
"topology_identifier": null,
"orientation_identifier": null,
"accession": "SL-0360",
"definition": "The intermembrane space between the inner and the outer organellar chromatophore membranes. Found exclusively in Paulinella species, which are photosynthetic thecate amoeba. ",
"synonyms": null,
"content": "Plastid, organellar chromatophore intermembrane space.",
"is_a": "Plastid intermembrane space.; ",
"part_of": "Organellar chromatophore.; ",
"keyword": null,
"gene_ontology": "GO:0070115; organellar chromatophore intermembrane space; ",
"annotation": null,
"references": null,
"links": null
},
{
"location_identifier": "Organellar chromatophore membrane.",
"topology_identifier": null,
"orientation_identifier": null,
"accession": "SL-0352",
"definition": "One of the membranes of an organellar chromatophore. This term is used when it is not known with which membrane (outer membrane, inner membrane or thylakoid) a protein is associated. Found exclusively in Paulinella species, which are photosynthetic thecate amoeba. ",
"synonyms": null,
"content": "Plastid, organellar chromatophore membrane.",
"is_a": "Plastid membrane.; ",
"part_of": "Organellar chromatophore.; ",
"keyword": null,
"gene_ontology": "GO:0070112; organellar chromatophore membrane; ",
"annotation": null,
"references": null,
"links": null
}
]
}