LiteFold/GO huggingface dataset:
obsolete class I cytochrome c (GO:0009466)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: class I cytochrome c
Comment: This term was made obsolete because it represents a gene product.
obsolete monoheme class I cytochrome c (GO:0009467)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: monoheme class I cytochrome c
Comment: This term was made obsolete because it represents a gene product.
obsolete diheme class I cytochrome c (GO:0009468)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: diheme class I cytochrome c
Comment: This term was made obsolete because it represents a gene product.
obsolete class II cytochrome c (GO:0009469)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: class II cytochrome c
Comment: This term was made obsolete because it represents a gene product.
obsolete class IIa cytochrome c (GO:0009470)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: class IIa cytochrome c
Comment: This term was made obsolete because it represents a gene product.
obsolete class III cytochrome c (GO:0009471)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: class III cytochrome c
Comment: This term was made obsolete because it represents a gene product.
obsolete cytochrome c7 (triheme) (GO:0009473)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: cytochrome c7 (triheme)
Comment: This term was made obsolete because it represents a gene product.
obsolete high-molecular-weight cytochrome c (hexadecaheme) (GO:0009475)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: high-molecular-weight cytochrome c (hexadecaheme)
Comment: This term was made obsolete because it represents a gene product.
obsolete class IV cytochrome c (GO:0009476)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: class IV cytochrome c
Comment: This term was made obsolete because it represents a gene product.
obsolete cytochrome c1 (GO:0009477)
Namespace: molecular_function
Definition: OBSOLETE. A cytochrome c that is an integral component of the mitochondrial respiratory complex III. Functions as an electron donor to cytochrome c.
Synonyms: cytochrome c1
Comment: This term was made obsolete because it represents a gene product.
obsolete cytochrome c554 (GO:0009478)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: cytochrome c554
Comment: This term was made obsolete because it represents a gene product.
obsolete cytochrome f (GO:0009479)
Namespace: molecular_function
Definition: OBSOLETE. A cytochrome c that is characteristic of green plants and transfers electrons to plastocyanin.
Synonyms: cytochrome f
Comment: This term was made obsolete because it represents a gene product.
obsolete class IIb cytochrome c (GO:0009480)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: class IIb cytochrome c
Comment: This term was made obsolete because it represents a gene product.
obsolete aa3-type cytochrome c oxidase (GO:0009481)
Namespace: molecular_function
Definition: OBSOLETE. Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: 4 ferrocytochrome c + O2 = 4 ferricytochrome c + 2 H2O.
Synonyms: aa3-type cytochrome c oxidase
Comment: This term was made obsolete because it describes a class of gene products rather than a molecular function.
obsolete ba3-type cytochrome c oxidase (GO:0009482)
Namespace: molecular_function
Definition: OBSOLETE. Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: 4 ferrocytochrome c + O2 = 4 ferricytochrome c + 2 H2O.
Synonyms: ba3-type cytochrome c oxidase
Comment: This term was made obsolete because it describes a class of gene products rather than a molecular function.
obsolete caa3-type cytochrome c oxidase (GO:0009483)
Namespace: molecular_function
Definition: OBSOLETE. Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: 4 ferrocytochrome c + O2 = 4 ferricytochrome c + 2 H2O.
Synonyms: caa3-type cytochrome c oxidase
Comment: This term was made obsolete because it describes a class of gene products rather than a molecular function.
obsolete cbb3-type cytochrome c oxidase (GO:0009485)
Namespace: molecular_function
Definition: OBSOLETE. Enables the transfer of a solute or solutes from one side of a membrane to the other according to the reaction: 4 ferrocytochrome c + O2 = 4 ferricytochrome c + 2 H2O.
Synonyms: cbb3-type cytochrome c oxidase
Comment: This term was made obsolete because it describes a class of gene products rather than a molecular function.
cytochrome bo3 ubiquinol oxidase activity (GO:0009486)
Namespace: molecular_function
Definition: Catalysis of the reaction: 2 ubiquinol + O2 + 4 H+ = 2 ubiquinone + 2 H2O + 4 H+ [periplasmic space].
Synonyms: cytochrome bo oxidase; cytochrome bo(3) oxidase; cytochrome o ubiquinol oxidase activity
obsolete glutaredoxin (GO:0009487)
Namespace: molecular_function
Definition: OBSOLETE. A small disulfide-containing redox protein that serves as a glutathione-disulfide oxidoreductase.
Synonyms: glutaredoxin
Comment: This term was made obsolete because it represents a gene product.
obsolete amicyanin (GO:0009488)
Namespace: molecular_function
Definition: OBSOLETE. A copper-containing protein that acts as an electron carrier between methylamine dehydrogenase and cytochrome c.
Synonyms: amicyanin
Comment: This term was made obsolete because it does not represent a molecular function.
obsolete mononuclear iron electron carrier (GO:0009490)
Namespace: molecular_function
Definition: OBSOLETE. A mononuclear iron entity that serves as an electron acceptor and electron donor in an electron transport system.
Synonyms: mononuclear iron electron carrier
Comment: This term was made obsolete because it refers to a class of gene products.
obsolete redox-active disulfide bond electron carrier (GO:0009491)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: redox-active disulfide bond electron carrier; redox-active disulphide bond electron carrier
Comment: This term was made obsolete because it refers to a class of gene products.
obsolete 2Fe-2S electron transfer carrier (GO:0009492)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: 2Fe-2S electron transfer carrier
Comment: This term was made obsolete because it refers to a class of gene products.
obsolete adrenodoxin-type ferredoxin (GO:0009493)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: adrenodoxin-type ferredoxin
Comment: This term was made obsolete because it does not represent a function.
obsolete chloroplast-type ferredoxin (GO:0009494)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: chloroplast-type ferredoxin
Comment: This term was made obsolete because it does not represent a function.
obsolete thioredoxin-like 2Fe-2S ferredoxin (GO:0009495)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: thioredoxin-like 2Fe-2S ferredoxin
Comment: This term was made obsolete because it does not represent a function.
plastoquinol--plastocyanin reductase activity (GO:0009496)
Namespace: molecular_function
Definition: Catalysis of the reaction: 2 H+[side 1] + 2 oxidized plastocyanin + plastoquinol-1 = 2 H+[side 2] + 2 reduced plastocyanin + plastoquinone. This reaction involves the concomitant transfer of 2 H+ ions across a membrane.
Synonyms: cytochrome b6f; cytochrome b6f complex activity; plastoquinol-plastocyanin reductase activity; plastoquinol/plastocyanin oxidoreductase activity; plastoquinol:oxidized-plastocyanin oxidoreductase activity
obsolete 3Fe-4S/4Fe-4S electron transfer carrier (GO:0009497)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: 3Fe-4S/4Fe-4S electron transfer carrier
Comment: This term was made obsolete because it refers to a class of gene products.
obsolete bacterial-type ferredoxin (GO:0009498)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: bacterial-type ferredoxin
Comment: This term was made obsolete because it does not represent a function.
obsolete monocluster bacterial-type ferredoxin (GO:0009499)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: monocluster bacterial-type ferredoxin
Comment: This term was made obsolete because it does not represent a function.
obsolete dicluster bacterial-type ferredoxin (GO:0009500)
Namespace: molecular_function
Definition: OBSOLETE. (Was not defined before being made obsolete).
Synonyms: dicluster bacterial-type ferredoxin
Comment: This term was made obsolete because it does not represent a function.
amyloplast (GO:0009501)
Namespace: cellular_component
Definition: A plastid whose main function is to synthesize and store starch.
obsolete photosynthetic electron transport chain (GO:0009502)
Namespace: cellular_component
Definition: OBSOLETE. A series of membrane-linked oxidation-reduction reactions in which electrons are transferred from an initial electron donor through a series of intermediates to a final electron acceptor (usually oxygen).
Synonyms: photosynthetic electron transport chain
Comment: This term was made obsolete because it represents a process.
thylakoid light-harvesting complex (GO:0009503)
Namespace: cellular_component
Definition: A thylakoid membrane complex of chlorophylls a and b together with chlorophyll a-b binding proteins. In addition, LHCs contain a number of other proteins, the function of which is speculative, together with accessory pigments. The LHCs capture and transfer energy to photosystems I and II. An example of this is found in Arabidopsis thaliana.
cell plate (GO:0009504)
Namespace: cellular_component
Definition: The nascent cell membrane and cell wall structure that forms between two daughter nuclei near the center of a dividing plant cell. It develops at the equatorial region of the phragmoplast. It grows outwards to join with the lateral walls and form two daughter cells.
plant-type cell wall (GO:0009505)
Namespace: cellular_component
Definition: A more or less rigid structure lying outside the cell membrane of a cell and composed of cellulose and pectin and other organic and inorganic substances.
Synonyms: cellulose and pectin-containing cell wall; plant cell wall
plasmodesma (GO:0009506)
Namespace: cellular_component
Definition: A fine cytoplasmic channel, found in all higher plants, that connects the cytoplasm of one cell to that of an adjacent cell.
Synonyms: plasmodesmata
chloroplast (GO:0009507)
Namespace: cellular_component
Definition: A chlorophyll-containing plastid with thylakoids organized into grana and frets, or stroma thylakoids, and embedded in a stroma.
plastid chromosome (GO:0009508)
Namespace: cellular_component
Definition: A circular DNA molecule containing plastid encoded genes.
chromoplast (GO:0009509)
Namespace: cellular_component
Definition: A plastid containing pigments other than chlorophyll, usually yellow and orange carotenoid pigments.
plasmodesmatal desmotubule (GO:0009510)
Namespace: cellular_component
Definition: A tightly wound cylinder of membrane that is located within the plasmodesmal pore and runs the length of the plasmodesma. The desmotubule likely provides a rigid stability to plasmodesmata and confers a fixed diameter and pore size to the plasmodesmal canal, and is linked to the endoplasmic reticulum in each of the adjacent cell.
Synonyms: desmotubule central rod
plasmodesmatal endoplasmic reticulum (GO:0009511)
Namespace: cellular_component
Definition: Endoplasmic reticulum found in plasmodesmata, junctions connecting the cytoplasm of adjacent plant cells.
Synonyms: plasmodesmatal ER
cytochrome b6f complex (GO:0009512)
Namespace: cellular_component
Definition: Complex that transfers electrons from reduced plastoquinone to oxidized plastocyanin and translocates protons from the stroma to the lumen. The complex contains a core structure of three catalytic subunits: cytochrome b, the Rieske iron sulfur protein (ISP), and cytochrome f, which are arranged in an integral membrane-bound dimeric complex; additional subunits are present, and vary among different species.
Synonyms: cyt b(6)f complex; cyt b6-f complex; cyt b6/f complex; cyt b6f complex; cytochrome b(6)f complex; cytochrome b6-f complex; cytochrome b6/f complex
etioplast (GO:0009513)
Namespace: cellular_component
Definition: A plastid arrested in the development of chloroplasts from proplastids due to absence of light or low light conditions.
glyoxysome (GO:0009514)
Namespace: cellular_component
Definition: A specialized form of peroxisome that contains the enzymes of the glyoxylate pathway. The glyoxysome is found in some plant cells, notably the cells of germinating seeds.
granal stacked thylakoid (GO:0009515)
Namespace: cellular_component
Definition: Appressed thylakoid membranes that are part of a granum (stacked regions). A characteristic of these appressed regions is the preferential localization of photosystem II.
Synonyms: chloroplast stacked thylakoid
leucoplast (GO:0009516)
Namespace: cellular_component
Definition: A colorless plastid involved in the synthesis of monoterpenes.
PSII associated light-harvesting complex II (GO:0009517)
Namespace: cellular_component
Definition: Protein-pigment complex associated with photosystem II.
Synonyms: LHCII
PSI associated light-harvesting complex I (GO:0009518)
Namespace: cellular_component
Definition: Protein-pigment complex associated with photosystem I.
Synonyms: LHCI
middle lamella (GO:0009519)
Namespace: cellular_component
Definition: Layer of intercellular material, chiefly pectic substances, cementing together the primary walls of contiguous cells.
photosystem I (GO:0009522)
Namespace: cellular_component
Definition: A photosystem that contains an iron-sulfur reaction center associated with accessory pigments and electron carriers. In cyanobacteria and chloroplasts, photosystem I functions as a light-dependent plastocyanin-ferredoxin oxidoreductase, transferring electrons from plastocyanin to ferredoxin; in photosynthetic bacteria that have only a single type I photosystem, such as the green sulfur bacteria, electrons can go either to ferredoxin (Fd) -> NAD+ or to menaquinone (MK) -> Cytb/FeS -> Cytc555 -> photosystem I (cyclic photophosphorylation).
photosystem II (GO:0009523)
Namespace: cellular_component
Definition: A photosystem that contains a pheophytin-quinone reaction center with associated accessory pigments and electron carriers. In cyanobacteria and chloroplasts, in the presence of light, PSII functions as a water-plastoquinone oxidoreductase, transferring electrons from water to plastoquinone, whereas other photosynthetic bacteria carry out anoxygenic photosynthesis and oxidize other compounds to re-reduce the photoreaction center.
phragmoplast (GO:0009524)
Namespace: cellular_component
Definition: The phragmoplast is a plant cell specific cytoplasmic structure composed of cytoskeletal polymers, membranes, and associated cytosolic proteins that functions as the focused secretory module for assembling the cell plate.
phragmosome (GO:0009525)
Namespace: cellular_component
Definition: A flattened membranous vesicle containing cell wall components.
plastid envelope (GO:0009526)
Namespace: cellular_component
Definition: The double lipid bilayer enclosing a plastid and separating its contents from the rest of the cytoplasm; includes the intermembrane space.
plastid outer membrane (GO:0009527)
Namespace: cellular_component
Definition: The outer, i.e. cytoplasm-facing, lipid bilayer of the plastid envelope.
plastid inner membrane (GO:0009528)
Namespace: cellular_component
Definition: The inner, i.e. lumen-facing, lipid bilayer of the plastid envelope; also faces the plastid stroma.
primary cell wall (GO:0009530)
Namespace: cellular_component
Definition: A plant cell wall that is still able to expand, permitting cell growth. Primary cell walls contain more pectin than secondary walls and no lignin is present.
secondary cell wall (GO:0009531)
Namespace: cellular_component
Definition: A plant cell wall that is no longer able to expand and so does not permit growth. Secondary cell walls contain less pectin that primary cell walls. The secondary cell is mostly composed of cellulose and is strengthened with lignin.
plastid stroma (GO:0009532)
Namespace: cellular_component
Definition: The proteinaceous ground substance of plastids.
chloroplast stromal thylakoid (GO:0009533)
Namespace: cellular_component
Definition: Unstacked thylakoids that connect the grana stacks through the stroma.
chloroplast thylakoid (GO:0009534)
Namespace: cellular_component
Definition: Sac-like membranous structures (cisternae) in a chloroplast combined into stacks (grana) and present singly in the stroma (stroma thylakoids or frets) as interconnections between grana. An example of this component is found in Arabidopsis thaliana.
chloroplast thylakoid membrane (GO:0009535)
Namespace: cellular_component
Definition: The pigmented membrane of a chloroplast thylakoid. An example of this component is found in Arabidopsis thaliana.
plastid (GO:0009536)
Namespace: cellular_component
Definition: Any member of a family of organelles found in the cytoplasm of plants and some protists, which are membrane-bounded and contain DNA. Plant plastids develop from a common type, the proplastid.
photosystem I reaction center (GO:0009538)
Namespace: cellular_component
Definition: A photochemical system containing P700, the chlorophyll a dimer that functions as a primary electron donor. Functioning as a light-dependent plastocyanin-ferredoxin oxidoreductase, it transfers electrons from plastocyanin to ferredoxin.
Synonyms: photosystem I reaction centre
photosystem II reaction center (GO:0009539)
Namespace: cellular_component
Definition: An integral membrane complex containing P680, the chlorophyll a molecule that functions as a primary electron donor. In the light, functioning as a water-plastoquinone oxidoreductase, it transfers electrons from water to plastoquinone.
Synonyms: photosystem II reaction centre
etioplast prolamellar body (GO:0009541)
Namespace: cellular_component
Definition: A three dimensional regular lattice found in etioplasts. It is composed of a continuous system of tubules but when exposed to light the symmetrical arrangement is rapidly lost as tubules become pinched off into two dimensional sections of lattice. These for perforated sheets of membrane that move apart, extend and increase, finally establishing the typical granal and intergranal lamellae of the mature chloroplast.
granum (GO:0009542)
Namespace: cellular_component
Definition: Distinct stack of lamellae seen within chloroplasts. Grana contain the pigments, electron transfer compounds, and enzymes essential to the light-dependent reactions of photosynthesis.
chloroplast thylakoid lumen (GO:0009543)
Namespace: cellular_component
Definition: The cavity enclosed within the chloroplast thylakoid membrane. An example of this component is found in Arabidopsis thaliana.
obsolete chloroplast ATP synthase complex (GO:0009544)
Namespace: cellular_component
Definition: OBSOLETE. The protein complex that catalyzes the phosphorylation of ADP to ATP in chloroplasts.
Comment: The reason for obsoletion is that this term unnecssarily specified a cellular compartment.
elaioplast (GO:0009545)
Namespace: cellular_component
Definition: A leucoplast in which oil is stored.
plasmodesmatal cytoplasmic sleeve (GO:0009546)
Namespace: cellular_component
Definition: The space between the plasma membrane and the desmotubule of a plasmodesma.
Synonyms: plasmodesmatal cytoplasmic annulus
plastid ribosome (GO:0009547)
Namespace: cellular_component
Definition: A ribosome contained within a plastid.
plasmodesmatal plasma membrane (GO:0009548)
Namespace: cellular_component
Definition: The portion of the plasma membrane surrounding a plasmodesma.
cellulose microfibril (GO:0009549)
Namespace: cellular_component
Definition: A microfibril composed of cellulose arranged in orthogonal layers. Cellulose is a straight chain polysaccharide composed of B(14) linked glucose subunits. It is a major component of plant cell walls. Higher plant microfibrils are about 10nm in diameter and extremely long in relation to their width. The cellulose molecules are oriented parallel to the long axis of the microfibril in a paracrystalline array, which provides great tensile strength. The microfibrils are held in place by the wall matrix and their orientation is closely controlled by the cell.
primary plasmodesma (GO:0009550)
Namespace: cellular_component
Definition: A plasmodesma that consists of a simple, single channel; found predominantly in young tissue and formed as a function of cell plate formation during cytokinesis.
Synonyms: simple plasmodesma
secondary plasmodesma (GO:0009551)
Namespace: cellular_component
Definition: A plasmodesma with a branched structure, often with many channels leading into a larger central cavity; found in older tissues and usually derived from preexisting primary plasmodesmata.
embryo sac development (GO:0009553)
Namespace: biological_process
Definition: The process whose specific outcome is the progression of the embryo sac over time, from its formation to the mature structure. The process begins with the meiosis of the megasporocyte to form four haploid megaspores. Three of the megaspores disintegrate, and the fourth undergoes mitosis giving rise to a binucleate syncytial embryo sac. The two haploid nuclei migrate to the opposite poles of the embryo sac and then undergo two rounds of mitosis generating four haploid nuclei at each pole. One nucleus from each set of four migrates to the center of the cell. Cellularization occurs, resulting in an eight-nucleate seven-celled structure. This structure contains two synergid cells and an egg cell at the micropylar end, and three antipodal cells at the other end. A binucleate endosperm mother cell is formed at the center. The two polar nuclei fuse resulting in a mononucleate diploid endosperm mother cell. The three antipodal cells degenerate.
Synonyms: female gametophyte development
megasporogenesis (GO:0009554)
Namespace: biological_process
Definition: The process in which the megasporocyte undergoes meiosis, giving rise to four haploid megaspores in the nucellus.
Synonyms: megaspore development; megaspore mother cell meiosis; meiosis of the megasporocyte; meiotic division of the megasporocyte
pollen development (GO:0009555)
Namespace: biological_process
Definition: The process whose specific outcome is the progression of the pollen grain over time, from its formation to the mature structure. The process begins with the meiosis of the microsporocyte to form four haploid microspores. The nucleus of each microspore then divides by mitosis to form a two-celled organism, the pollen grain, that contains a tube cell as well as a smaller generative cell. The pollen grain is surrounded by an elaborate cell wall. In some species, the generative cell immediately divides again to give a pair of sperm cells. In most flowering plants, however this division takes place later, in the tube that develops when a pollen grain germinates.
Synonyms: formation of generative and vegetative cells; male gametophyte development; male gametophyte formation; microgametophyte development; pollen grain formation
microsporogenesis (GO:0009556)
Namespace: biological_process
Definition: The process in which the microsporocyte undergoes meiosis, giving rise to four haploid microspores.
Synonyms: microspore development