A nucleotide residue derived from N(6)-dimethylallyladenine 5'-monophosphate with linkages at the 3'- and 5'-positions.


GMP 3'-end residue

The 3'-end bound-monomer of a guanylyl-5'-monophosphoric acid that is part of a nucleic acid.


A nucleotide residue derived from N,N-dimethyladenosine 5'-monophosphate.


A nucleotide residue derived from 2-thio-N(6)-dimethylallyladenine 5'-monophosphate with linkages at the 3'- and 5'-positions.


ribonucleotide residue

A nucleotide residue consisting of a nucleobase bound at the glycosidic nitrogen to a ribose ring that has a free valence at an oxygen atom and which is bound at the O-5' atom to a phosphate group, having a further free valence at one of its oxygen atoms.


lysine monophosphate residue

A nucleotide residue derived from lysine monophosphate.


A nucleotide residue derived from 2'-O-methyladenosine 5'-monophosphate.


A nucleotide residue derived from N(1)-methylpseudouridine 5'-monophosphate.


A nucleotide residue derived from 2'-O-methylcytidine 5'-monophosphate.


cyclobutadithymidine residue

A nucleotide residue derived from cyclobutadithymidine.


A nucleotide residue derived from beta-wybutosine 5'-monophosphate with linkages at the 3'- and 5'-positions.


A nucleotide residue derived from 5-methylaminomethyl-2-thiouridine 5'-monophosphate.


A nucleotide residue derived from 5-carboxymethylaminomethyluridine 5'-monophosphate.


livermorium atom

A chalcogen atom with a symbol Lv and atomic number 116.


An amino-acid residue derived from O-(alpha-D-mannose-1-phosphoryl)-L-serine. A modified serine residue.


An organic anionic group obtained by deprotonation of the phosphate OH groups of any adenosine-5'-diphospho-5'-(2'-deoxyribonucleotide) residue; major species at pH 7.3.


pigment cell

category: biolink:Cell biolink:AnatomicalEntity biolink:PhysicalEssence biolink:OrganismalEntity biolink:SubjectOfInvestigation biolink:BiologicalEntity biolink:ThingWithTaxon biolink:NamedThing biolink:PhysicalEssenceOrOccurrent

description: A pigment cell is a cell that contains pigment granules.


inosine 5'-phosphate(1-) residue

An organic anionic group obtained by deprotonation of the phosphate function of inosine 5'-phosphate residue; major species at 7.3.


The stable isotope of thallium with relative atomic mass 202.9723. The least abundant (29.524 atom percent) isotope of naturally occurring thallium.


5'-triphosphoguanosine(3-) residue

An organic anionic group obtained by deprotonation of the triphosphate OH groups of 5'-triphosphoguanosine residue; major species at pH 7.3.


allene core

An organic group derived from allene.


3beta-hydroxy-Delta(5)-steroid group

An organic group derived from any 3beta-hydroxy-Delta(5)-steroid.


iron-57 atom

The stable isotope of iron with relative atomic mass 56.935399, 2.1 atom percent natural abundance and nuclear spin 1/2.


metalloid atom

An atom of an element that exhibits properties that are between those of metals and nonmetals, or that has a mixture of them. The term generally includes boron, silicon, germanium, arsenic, antimony, and tellurium, while carbon, aluminium, selenium, polonium, and astatine are less commonly included.


arsenic-75 atom

A stable isotope of arsenic with relative atomic mass 74.921596, 100 atom percent natural abundance and nuclear spin 3/2.


N(pros)-phosphonato-L-histidine residue

An anionic amino-acid residue formed by loss of both protons from the phospho group of an N(pros)-phospho-L-histidine residue, the principal form present at pH 7.3.


TERPYRIDINE

A tridentate heterocyclic ligand that binds metals at three meridional sites giving two adjacent 5-membered MN2C2 chelate rings.


terpyridines

Compounds containing three linked pyridine rings.


neural crest-derived structure

category: biolink:AnatomicalEntity biolink:PhysicalEssence biolink:OrganismalEntity biolink:SubjectOfInvestigation biolink:BiologicalEntity biolink:ThingWithTaxon biolink:NamedThing biolink:PhysicalEssenceOrOccurrent

description: An anatomical structure that develops from the neural crest.


diphosphate group(3-)

An inorganic anionic group that is the trianionic form of diphosphate group arising from deprotonation of the phosphate OH groups.


glycerol phosphate oligomer

An oligomer comprised principally of glycerol phosphate units.


A synthetic stereospecifically numbered glycerol phosphate (GroP) oligomer. The structure of an sn-3-GroP hexamer, it can be conjugated to a protein through a 6-aminohexyl linker.


A synthetic stereospecifically numbered glycerol phosphate (GroP) oligomer. The structure of an sn-3-GroP pentamer, it can be conjugated to a protein through a 6-aminohexyl linker.


A synthetic alpha-glucosyl-functionalized stereospecifically numbered glycerol phosphate (GroP) oligomer in which the alpha-glucosyl substituent is located at the terminal unit of an sn-3-GroP hexamer.


A 7-methyl guanosine (m7G) linked via an inverted 5'-5' triphosphate bridge to an initiating 2'-O-methyl-purine-ribonucleotide-ribonucleotide; major species at pH 7.3


potassium-39 atom

The stable isotope of potassium with relative atomic mass 38.963707, 93.3 atom percent natural abundance and nuclear spin 3/2.


An alpha-amino-acid residue anion obtained by deprotonation of the carboxy and phosphate groups of C-terminal-gamma-(5-phospho-L-glutamyl)-L-2-glutamic acid group. Major structure at pH 7.3.


Major species at pH 7.3.


ectoderm-derived structure

description: An anatomical structure that develops (entirely or partially) from the ectoderm.


glandular epithelial cell

description: A specialized epithelial cell that is capable of synthesizing and secreting certain biomolecules.


name: structure with developmental contribution from neural crest

description: An anatomical structure that has some part that develops from the neural crest.


barrier cell

description: A cell whose primary function is to prevent the transport of stuff across compartments.


kidney cell

description: A cell that is part of a kidney.


endo-epithelial cell

description: An epithelial cell derived from endoderm.


meso-epithelial cell

description: Epithelial cell derived from mesoderm or mesenchyme.


electrically responsive cell

description: A cell whose function is determined by its response to an electric signal.


endothelial cell

description: An endothelial cell comprises the outermost layer or lining of anatomical structures and can be squamous or cuboidal. In mammals, endothelial cell has vimentin filaments and is derived from the mesoderm.


eukaryotic cell

description: Any cell that only exists in Eukaryota.


epithelial cell of alimentary canal

description: An epithelial cell of the musculomembranous digestive tube extending from the mouth to the anus.


enterocyte

description: An epithelial cell that has its apical plasma membrane folded into microvilli to provide ample surface for the absorption of nutrients from the intestinal lumen.


lysosome-rich enterocyte

description: An enterocyte that possesses a large supranuclear vacuolar system that preferentially internalizes dietary protein via receptor-mediated and fluid-phase endocytosis for intracellular digestion and trans-cellular transport. In zebrafish these cells are located in the posterior region of the mid intestine throughout life. In mammals they are found in the ileum pre-weaning and later are replaced by mature enterocytes.


electrically signaling cell

description: A cell that initiates an electrical signal and passes that signal to another cell.


stuff accumulating cell

description: A cell that is specialised to accumulate a particular substance(s).


endocrine cell

description: A cell of an endocrine gland, ductless glands that secrete substances which are released directly into the circulation and which influence metabolism and other body functions.


electrically active cell

description: A cell whose function is determined by the generation or the reception of an electric signal.


secretory cell

description: A cell that specializes in controlled release of one or more substances.


epithelial cell of pancreas

description: An epithelial cell of the pancreas.


hematopoietic cell

description: A cell of a hematopoietic lineage.


mesoderm-derived structure

description: An anatomical structure that develops (entirely or partially) from the mesoderm.


peptide hormone secreting cell

description: Any secretory cell that is capable of some peptide hormone secretion.


epithelial cell

description: A cell that is usually found in a two-dimensional sheet with a free surface. The cell has a cytoskeleton that allows for tight cell to cell contact and for cell polarity where apical part is directed towards the lumen and the basal part to the basal lamina.


defensive cell

description: A cell whose primary function is to protect the organism.


cell

description: A material entity of anatomical origin (part of or deriving from an organism) that has as its parts a maximally connected cell compartment surrounded by a plasma membrane.


sensory receptor cell

description: A cell that is capable of detection of a stimulus involved in sensory perception.


endoderm-derived structure

description: An anatomical structure that develops (entirely or partially) from the endoderm.


lining cell

description: A cell within an epithelial cell sheet whose main function is to act as an internal or external covering for a tissue or an organism.


myeloid cell

description: A cell of the monocyte, granulocyte, mast cell, megakaryocyte, or erythroid lineage.


An organic anionic group obtained by deprotonation of 7-[(3S)-3-amino-3-carboxypropyl]wyosine residue.


nitrogen-doped carbon nanotube

A carbon nanotube grown in a nitrogen-rich atmosphere, in which a small percentage of carbon atoms have been replaced by nitrogen atoms.


An organic anionic group obtained by deprotonation of the three free phosphate OH groups of N(2),N(2),N(7)-trimethylguanosine 5'-triphosphate group.


inorganic group

Any substituent group which does not contain carbon.


aza group

A group used specifically for instances where nitrogen replaces carbon in a compound, either as the divalent group NH for the group CH2, or a single trivalent nitrogen atom for the group CH.


triphosphate group

An inorganic group obtained by removal of one of the hydrogen atoms from triphosphoric acid.


phosphono group

The inorganic group -P(=O)OH2.


binuclear copper ion

An inorganic group consisting of two copper atoms in close proximity (charge not specified).


phosphate group

An inorganic group obtained by removal of one of the hydroxy groups from phosphoric acid.


diphosphate group

An inorganic group obtained by removal of one of the hydrogen atoms from diphosphoric acid.


phosphatediyl group

A phosphate group with two free valences at oxygen atoms.


chromium atom

A chromium group element atom that has atomic number 24.


A synthetic radioactive isotope of chromium having a half-life of 27.7 days and decaying by electron capture with emission of gamma rays (0.32 MeV); it is used to label red blood cells for measurement of mass or volume, survival time, and sequestration studies, for the diagnosis of gastrointestinal bleeding, and to label platelets to study their survival.


An organic anionic group obtained by deprotonation of the phosphate group of 3'-(L-selenocysteinyl)adenylyl group. It is the major structure at pH 7.3 (according to Marvin v 6.2.0.).


bimetallic nanoparticle

A nanoparticle consisting of a two metal elements.


aluminium-28 atom

The radioactive isotope of aluminium with relative atomic mass 27.981910 and half-life of 2.25 min.


nanostructure

A nanometre sized object.


nanoparticle

A nanosized spherical or capsule-shaped structure.


nanowire

A nanometre-sized wire composed of either organic or inorganic substances.


hops yellow 560

A quantum dot fluorescent dye with an emission wavelength of 560 nm.


dieuropium trioxide nanoparticle

A nanoparticle consisting of dieuropium trioxide.


catskill green 540

A quantum dot fluorescent dye with an emission wavelength of 540 nm.


nanotube

A nanometre sized tube composed of either organic or inorganic substances.


inorganic nanoparticle

A nanoparticle that contains no carbon.


boron-doped carbon nanotube

Carbon nanotubes grown in a boron-rich atmosphere, in which a small percentage of carbon atoms have been replaced by boron atoms.


Qdot 565

A quantum dot fluorescent dye with an emission wavelength of 564 nm.


magnetic nanoparticle

Any nanoparticle that can be manipulated using magnetic fields. Magnetic nanoparticle normally have an iron, nickel or cobalt core.


trititanate nanotube

A nanotube primarily composed of H2Ti3O7 where the H atoms can be substituted by metal atoms.


cobalt phosphide nanoparticle

An inorganic nanoparticle consisting of cobalt cations and phosphide(3-) anions. Depending on the method of preparation, the formula can vary from CoP through Co3P2 to Co2P.


Qdot 800

A quantum dot fluorescent dye with an emission wavelength of 799 nm.


nanofibre

A fibre with a diameter of approximately 100 nm.


nanosheet

A sheet with nanometre thickness.


titanate nanotube

A nanotube primarily composed of H2TinO2n+1 where the H atoms can be substituted by metal atoms.


quantum dot

A nanometre sized semiconducting particle, whose excitons (electron-hole pairs) are confined in three spatial dimensions.


Qdot 655

A quantum dot fluorescent dye with an emission wavelength of 654 nm.


name: nitrogen-doped titanium dioxide nanotube

description: A titanium dioxide nanotube in which a small percentage of oxygen atoms have been replaced by nitrogen atoms.


Qdot 525

A quantum dot fluorescent dye with an emission wavelength of 524 nm.


carbon nanotubosome

A hollow shell consisting of covalently cross-linked carbon nanotubes.


A divalent organic group consisting of an N-acetyl-alpha-neuraminyl-(2->8)-N-acetyl-alpha-neuraminyl-(2->8)-N-acetyl-alpha-neuraminyl-(2->3)-beta-D-galactosyl tetrasaccharide residue, to the galactosyl residue of which is also (1->4) linked a ->3)-beta-D-galactosyl-(1->3)-N-acetyl-beta-D-galactosaminyl disaccharide group.


An anionic amino-acid residue obtained by deprotonation of the Neu5Ac carboxy groups of N(4)-{alpha-Neu5Ac-(2->6)-beta-D-Gal-(1->4)-beta-D-GlcNAc-(1->2)-[beta-D-Gal-(1->4)-beta-D-GlcNAc-(1->4)]-alpha-D-Man-(1->3)-[alpha-Neu5Ac-(2->3)-beta-D-Gal-(1->4)-beta-D-GlcNAc-(1->2)-[beta-D-Gal-(1->4)-beta-D-GlcNAc-(1->6)]-alpha-D-Man-(1->6)]-beta-D-Man-(1->4)-beta-D-GlcNAc-(1->4)-beta-D-GlcNAc}-L-Asn residue; major species at pH 7.3.


An organic anionic group derived from 6-N-(ADP-D-ribosyl)-L-lysine residue.


antiaromatic compound

A compound that contain 4n (n =/= 0) pi-electrons in a cyclic planar, or nearly planar, system of alternating single and double bonds.


3'-(L-threonyl)adenylyl(1-) group

An organic anionic group obtained by deprotonation of the phosphate group of 3'-(L-seryl)adenylyl group. It is the major structure at pH 7.3 (according to Marvin v 6.2.0.).


N(6)-(glycylglycyl)-L-lysine residue

An amino-acid residue consisting of an L-lysine residue, to the epsilon amino group of which is attached a glycylglycine dipeptide through an isopeptide bond.


5'-end triphospho-guanosine(4-) residue

An organic anionic group obtained by deprotonation of the triphosphate OH groups of a 5'-end triphospho-guanosine residue; major species at pH 7.3.


metal atom

An atom of an element that exhibits typical metallic properties, being typically shiny, with high electrical and thermal conductivity.


An anionic amino-acid residue obtained by deprotonation of the phosphate and carboxy groups of O-(S-pimeloylpantetheine-4'-phosphoryl)serine(2-) residue; major species at pH 7.3.


3'-(L-tyrosyl)adenylyl(1-) group

An organic anionic group obtained by deprotonation of the phosphate group of 3'-(L-tyrosyl)adenylyl group. It is the major structure at pH 7.3 (according to Marvin v 6.2.0.).


An organic anionic group obtained by deprotonation of the phosphate and diphosphate OH groups of any 3'-end 2'-deoxyribonucleotide-3'-diphospho-5'-guanosine residue; major species at pH 7.3.


A  zwitterionic group obtained by transfer of a proton from the amino terminus to the side-chain carboxy group of L-methionyl-L-aspartyl residue; major species at pH 7.3.


aromatic compound

A cyclically conjugated molecular entity with a stability (due to delocalization) significantly greater than that of a hypothetical localized structure (e.g. Kekule structure) is said to possess aromatic character.


An organic anionic group obtained by deprotonation of the glucuronosyl carboxy group of O(3)-(beta-D-glucuronosyl-(1->3)-beta-D-galactosyl-(1->3)-beta-D-galactosyl-(1->4)-beta-D-xylosyl)-L-serine residue; major species at pH 7.3.


Major microspecies at pH 7.3


5-methyl dCMP(1-) residue

An organic anionic group obtained by deprotonation of the phosphate OH group of 5-methyl dCMP residue; major species at pH 7.3.


name: archaeosine 5'-phosphate zwitterionic residue

description: A zwitterionic group derived from archaeosine, a  7-formamidino-7-deazaguanine; major microspecies at pH 7.3


wybutosine 5'-monophosphate(1-) residue

An organic anionic group obtained by deprotonation of the phosphate OH group of wybutosine 5'-monophosphate.


cyclic AMP-AMP-GMP(3-)

A cyclic trinucleotide that consists of two AMP and one GMP units cyclised via 3',5'-linkages, major species at pH 7.3.


tritiated compound

Any isotopically modified compound that has one or more hydrogens replaced by tritium.


The radioactive isotope of thallium with relative atomic mass 198.9698 and half-life of 7.42 hours.


macrocycle

A cyclic compound containing nine or more atoms as part of the cyclic system.


An organic anionic group obtained by deprotonation of the phosphate OH group of any 3'-end 5'-phosphate-ribonucleotide residue; major species at pH 7.3.


An L-alpha-amino acid residue derived from N(omega)-(ADP-D-ribosyl)-L-arginine.


An organic anionic group obtained by deprotonation of the free phosphate OH group of 5-(2-methoxy-2-oxoethyl)uridine residue.


An organic anionic group obtained by deprotonation of the phosphate OH group of N(6)-methyl-dAMP residue; major species at pH 7.3.


An organic anionic group obtained by deprotonation of the phosphate and carboxy functions as well as protonation of the amino function of N(1)-methyl-N(3)-[(3S)-3-amino-3-carboxypropyl]-pseudouridine 5'-phosphate residue; major species at 7.3.


L-cysteate residue

An alpha-amino-acid residue anion derived from L-cysteate; major microspecies at pH 7.3.


An organic anionic group derived from N-acetyl-beta-D-galactosaminyl-(1->3)-N-acetyl-beta-D-glucosaminyl-(1->4)-6-O-phosphonato-alpha-D-mannose(2-)


name: 5-methylaminomethyl-S-(2E)-geranyl-thiouridine 5'-monophosphate zwitterion residue

description: A zwitterionic group obtained by transfer of a proton from the amino to the phosphate group of 5-methylaminomethyl-S-(2E)-geranyl-thiouridine 5'-monophosphate residue; major microspecies at pH 7.3.


A ribonucleotide residue(1-) obtained by deprotonation of the phosphate OH group of 5-(methoxycarbonylmethoxy)uridine 5'-phosphate residue. Major microspecies at pH 7.4.


C-terminal Gly-Gly(1-) residue

An organic anionic group obtained by deprotonation of deprotonation of the phosphate OH group of C-terminal Gly-Gly residue


main group molecular entity

A molecular entity containing one or more atoms from any of groups 1, 2, 13, 14, 15, 16, 17, and 18 of the periodic table.


The stable isotope of thallium with relative atomic mass 204.9744. The most abundant (70.476 atom percent) isotope of naturally occurring thallium.


2'-O-methylribonucleotide(1-) residue

An organic anionic group obtained by deprotonation of the phosphate OH group of any 2'-O-methylribonucleotide residue; major species at pH 7.3.


cyclic compound

Any molecule that consists of a series of atoms joined together to form a ring.


An O-[S-(L-alpha-aminoacyl)pantetheine-4'-phosphoryl]serine zwitterionic residue obtained by transfer of a proton from the phosphate to the amino group of O-(S-D-alanylpantetheine-4'-phosphoryl)serine residue; major microspecies at pH 7.3.


An anionic amino-acid residue obtained by deprotonation of the phosphoramidate OH group of N(epsilon)-(5'-guanylyl)-L-lysine residue; major species at pH 7.3.


A zwitterionic group obtained by transfer of a proton from the phosphate to the amino group of 3'-(L-cysteinyl)adenylyl group


magnesium-25 atom

The stable isotope of magnesium with relative atomic mass 24.985837, 10.0 atom percent natural abundance and nuclear spin 5/2.


inorganic anionic group

An anionic group that contains no carbon.


A C-terminal Xaa-hydroxyglycino(1-) residue in which the 2-hydroxy group has S stereochemistry.


name: 3'-end ribonucleotide 2'-phosphate(3-) residue


5-carboxy-dCMP(2-) residue

An organic anionic group obtained by deprotonation of the phosphate and carboxy groups of 5-carboxy-dCMP residue; major species at pH 7.3.


An organic group forming part of, and a proposed epitope within, ganglioside GD2. The -(1->4)-R in the name may represent -(1->4)-glucosyl.


molybdenum cofactor(3-)

An organic anionic group derived from molybdenum cofactor(3-).  It is the major microspecies at pH 7.3 (according to Marvin v 6.2.0.).


3'-terminal pUpU(2-) residue

An organic anionic group obtained by deprotonation of the phosphate OH groups of 3'-terminal pUpU residue; major species at pH 7.3.


C-terminal amino-acid residue

The residue in a peptide that has a free carboxyl group, or at least does not acylate another amino-acid residue, is called C-terminal.


A zwitterionic group obtained by transfer of a proton from the phosphate to the amino group of any O-[S-(L-alpha-aminoacyl)pantetheine-4'-phosphoryl]serine residue; major microspecies at pH 7.3.


N(6)-glutaryl-L-lysine(1-) residue

An anionic amino-acid residue obtained by deprotonation of the free carboxy group of N(6)-glutaryl-L-lysine residue; major species at pH 7.3.


FMN-L-serine(2-) residue

An organic anionic group obtained by deprotonation of the phosphate OH group and the heterocyclic ring of FMN-L-serine residue.


An alpha-amino-acid residue anion obtained by deprotonation of the carboxy groups as well as protonatoin of the amino group of C-terminal-gamma-(L-ornithyl)-L-2-glutamic acid group. Major structure at pH 7.3.


name: 5'-end ribonucleotide 5'-triphosphate(4-) residue


An organic anionic group obtained by deprotonation of the phosphate OH group of 1,N(2)-etheno-2'-deoxyguanosine 5'-monophosphate residue; major species at pH 7.3.


name: 7-N-[(5S)-5-amino-5-carboxypentyl]formamidino-7-deazaguanosine 5'-monophosphate zwitterion residue

description: Major species at pH 7.3


A zwitterionic group obtained by transfer of a proton from the amino terminus to the side-chain carboxy group of L-methionyl-L-glutamyl residue; major species at pH 7.3.


An organic group forming part of, and a proposed epitope within, ganglioside GM1. The ->8) linkage to Neu5Ac may represent an additional alpha2->8-linked sialic acid residue, while the -(1->4)-yl may represent -(1->4)-glucosyl.


3'-(L-aspartate)adenylyl(1-) group

An organic anionic group obtained by deprotonation of the phosphate and carboxy functions as well as protonation of the amino function of 3'-(L-aspartyl)adenylyl group; major species at 7.3.


cyclic organic group

An organic group that consists of a closed ring. It may be a substituent or a skeleton.


An organic anionic group obtained by deprotonation of the phosphate OH group of beta-hydroxywybutosine 5'-monophosphate.


An alpha-amino-acid residue anion obtained by deprotonation of the phosphate OH groups of N-acetyl-beta-D-galactosaminyl-(1->3)-N-acetyl-beta-D-glucosaminyl-(1->4)-6-O-phosphono-alpha-D-mannosyl-L-serine residue


name: an L-amino acyl-L-cysteinyl dipeptide residue


O-adenyl-L-threonine(1-) residue

An anionic amino-acid residue obtained by removal of a proton form the phosphate group of O-adenyl-L-threonine residue; major species at pH 7.3.


An organic anionic group obtained by deprotonation of the free phosphate OH group of 2-methyladenosine 5'-monophosphate residue.


cavitand

A macrocycle that has a cavity large enough to accommodate other molecules.


tin-116 atom

The stable isotope of tin with relative atomic mass 115.901747 and 14.54 atom percent natural abundance.


An alpha-amino-acid residue anion obtained by deprotonation of the carboxy groups of O(3)-(beta-D-GlcA-(1->3)-poly[beta-D-GalNAc-(1->4)-beta-D-GlcA-(1->3)]-beta-D-GalNAc-(1->4)-beta-D-GlcA-(1->3)-beta-D-Gal-(1->3)-beta-D-Gal-(1->4)-beta-D-Xyl)-L-serine residue.


An organic anionic group obtained by deprotonation of the phosphate and diphosphate OH groups of any guanosine-5'-diphospho-5'-(2'-deoxyribonucleotide) residue; major species at pH 7.3.


chemical substance

A chemical substance is a portion of matter of constant composition, composed of molecular entities of the same type or of different types.


A 7-methyl guanosine (m7G) linked via an inverted 5'-5' triphosphate bridge to an initiating 2'-O-methyl-AACA oligonucleotide; major species at pH 7.3.


Major microspecies at pH 7.3


phosphatidyl group

An acyl group derived from a phosphatidic acid.


A trisaccharide residue obtained from alpha-maltotriose by removal of the anomeric hydroxy group from the residue at the reducing end and the hydrogen attached to the 4-hydroxy group of the residue at the non-reducing end. Corresponds to the minimal monoclonal antibody (Mab) binding epitope for the binding of Mabs to mycobacterial capsular alpha-glucans of Mycobacterium smegmatis.


3'-(L-histidyl)adenylyl(1-) group

An organic anionic group obtained by deprotonation of the phosphate function of 3'-(L-histidyl)adenylyl group; major species at 7.3.


An organic anionic group obtained by deprotonation of the three free phosphate OH groups of 7-methylguanosine 5'-triphosphate group.


An organic anionic group obtained by deprotonation of the carboxy and phosphate OH groups of 5-(carboxymethoxy)uridine 5'-phosphate residue. Major microspecies at pH 7.4.


heterocyclic compound

A cyclic compound having as ring members atoms of at least two different elements.


polyatomic entity

Any molecular entity consisting of more than one atom.


L-tyrosine-O-sulfate(1-) residue

An alpha-amino-acid residue anion obtained by removal of a proton form the sulfate group of L-tyrosine-O-sulfate residue.


N-acetylamino-acid residue

An amino-acid residue obtained by formal N-acetylation of any N-terminal alpha-amino-acid residue.


non-covalently-bound molecular entity

Systems consisting of two or more molecular entities held together by non-covalent interactions.


mineral

In general, a mineral is a chemical substance that is normally crystalline formed and has been formed as a result of geological processes. The term also includes metamict substances (naturally occurring, formerly crystalline substances whose crystallinity has been destroyed by ionising radiation) and can include naturally occurring amorphous substances that have never been crystalline ('mineraloids') such as georgite and calciouranoite as well as substances formed by the action of geological processes on bigenic compounds ('biogenic minerals').


tin-118 atom

The stable isotope of tin with relative atomic mass 117.901609 and 24.22 atom percent natural abundance.


An organic anionic group that is the conjugate base of  5-carboxymethylaminomethyluridine 5'-monophosphate residue.


L-leucinate residue

An alpha-amino-acid residue anion derived from L-leucinate. Major structure at pH 7.3.


Major species at pH 7.3


O(4)-phosphonato-L-tyrosine(2-) residue

An alpha-amino-acid residue anion derived from O(4)-phosphonato-L-tyrosine(2-)


name: lysidine monophosphate zwitterion residue

description: A zwitterionic group that is the major structure at pH 7.3 of lysidine monophosphate residue (according to Marvin v. 6.2.0).


moscovium atom

A pnictogen atom with a symbol Mc and atomic number 115.


inorganic molecular entity

A molecular entity that contains no carbon.


alkali metal molecular entity

A molecular entity containing one or more atoms of an alkali metal.


An organic anionic group obtained by deprotonation of the free phosphate OH and carboxy groups of 2-methylthio-N(6)-L-threonylcarbamoyladenine 5'-monophosphate residue.


An alpha-amino acid residue anion derived from O(3)-(N-acetyl-alpha-D-glucosaminyl-poly[(1->4)-beta-D-glucuronosyl-(1->4)-N-acetyl-alpha-D-glucosaminyl]-(1->4)-beta-D-glucuronosyl-(1->3)-beta-D-galactosyl-(1->3)-beta-D-galactosyl-(1->4)-beta-D-xylosyl)-L-serine


5-formyl CMP(1-) residue

An organic anionic group obtained by deprotonation of the phosphate OH group of 5-formyl CMP residue; major species at pH 7.3.


deoxyribonucleotide(1-) residue

An organic anionic group obtained by deprotonation of the phosphate OH group of any deoxyribonucleotide residue; major species at pH 7.3.


purine deoxyribonucleotide(1-) residue

A organic anionic residue involved in a DNA molecule which is derived from deprotonation of the phosphate OH group of purine deoxyribonucleotide residue.


name: L-isoaspartate alpha-methyl ester residue

description: An amino acid residue derived from L-isoaspartic acid alpha-methyl ester.


name: O-(S-[2R,4R,6R]-2,4,6-trimethyl-very-long-chain fatty acyl-pantetheine-4'-phosphoryl)serine(1-) residue

description: An O-(S-acylpantetheine-4'-phosphoryl)serine(1-) residue obatined by deprotonation of the phosphate group of any O-(S-[2R,4R,6R]-2,4,6-trimethyl-very-long-chain fatty acyl-pantetheine-4'-phosphoryl)serine residue; major species at pH 7.3.


atom

A chemical entity constituting the smallest component of an element having the chemical properties of the element.


Major species at pH 7.3.


3'-end deoxyribonucleotide(1-) residue

An organic anionic group obtained by deprotonation of the phosphate OH group of any 3'-end deoxyribonucleotide residue.


An organic anionic group that is the conjugate base of rifamycin-undecaketide carboxy group, obtained by selective deprotonation of the 2-hydroxy group.


An organic anionic group obtained by deprotonation of the phosphate group of 3'-(N-formyl-L-methionyl)adenylyl group. It is the major structure at pH 7.3.


An organic anionic group obtained by deprotonation of the phosphate OH group of deoxycytidine 5'-monophosphate residue; major species at pH 7.3.


isotopically modified compound

Any molecular entity in which the isotopic ratio of nuclides for at least one element deviates measurably from that occurring in nature. The term includes both isotopically substituted compounds (in which essentially all the molecules of the compound have only the indicated nuclide(s) at each designated position) and isotopically labeled compounds (a formal mixture of an isotopically unmodified compound with one or more analogous isotopically substituted compound(s).


ring assembly

Two or more cyclic systems (single rings or fused systems) which are directly joined to each other by double or single bonds are named ring assemblies when the number of such direct ring junctions is one less than the number of cyclic systems involved.


A zwitterionic group obtained by transfer of a proton from the amino terminus to the side-chain carboxy group of L-leucyl-L-aspartyl residue; major species at pH 7.3.


7,8-dihydro-8-oxoguanyl group

A group that is derived from 7,8-dihydro-8-oxoguanine.


isowyosine 5'-monophosphate(1-) residue

An organic anionic group obtained by deprotonation of the phosphate OH group of isowyosine 5'-monophosphate residue; major species at pH 7.3.


functionalised copovidone group

Any group formed by functionalisation of the the copolymer copovidone.


An organic anionic group obtained by deprotonation of the phosphate OH groups of N(6)-(Ni(2+)-pyridinium-3,5-bisthiocarboxylate mononucleotide)-L-lysine residue.


mineral nutrient

A mineral that is an inorganic nutrient which must be ingested and absorbed in adequate amounts to satisfy a wide range of essential metabolic and/or structural functions in the human body.


Major microspecies at pH 7.3


aspartate residue

An alpha-amino-acid residue anion resulting from the deprotonation of the carboxy group of an aspartic acid residue.


nucleotide 5'-phosphate(1-) residue

An organic anionic group obtained by deprotonation of the phosphate function of any nucleotide 5'-phosphate residue; major species at 7.3.


3'-end ribonucleotide(1-) residue

An organic anionic group obtained by deprotonation of the phosphate OH group of any 3'-end ribonucleotide residue.


hydrated silica

A mineral comprised of silicon dioxide, with variable amounts of water in its formula.


thallium

A metallic element first identified and named from the brilliant green line in its flame spectrum (from Greek thetaalphalambdalambdaomicronsigma, a green shoot).


name: 3'-end 2'-deoxyribonucleotide 3'-(L-tyrosyl-phosphate)(2-) residue


rubidium-85 atom

A stable isotope of rubidium with relative atomic mass 84.91179, 72.17 atom percent natural abundance and nuclear spin 5/2.


pnictogen

Any p-block element atom that is in group 15 of the periodic table: nitrogen, phosphorus, arsenic, antimony and bismuth.


A divalent group consisting of beta-D-glucuronosyl and beta-D-glucosyloxy residues linked (1->4) with attachment points at the glucuronosyl O-3 and glucosyl O-1 atoms. The ST3 repeating unit of Streptococcus pneumoniae serotype 3.


An alpha-amino-acid residue anion obtained by deprotonation of the carboxy group of N(6)-[(R)-S(8)-succinyldihydrolipoyl]-L-lysine residue; major species at pH 7.3.


A zwitterionic group obtained by transfer of a proton from the phosphate to the amino group of 3'-(L-methionyl)adenylyl group


indolizidine skeleton

An organic heterobicyclic group derived from indolizidine.


An organic anionic group obtained by deprotonation of the carboxy groups of N-acetyl-alpha-neuraminyl-(2->8)-N-acetyl-alpha-neuraminyl-(2->3)-beta-D-galactosyl group; major species at pH 7.3.


N-terminal amino-acid residue

The residue in a peptide that has an amino group that is free, or at least not acylated by another amino-acid residue, is called N-terminal.


An alpha-amino-acid residue anion obtained by deprotonation of the carboxy groups of C-terminal-gamma-L-glutamyl-L-2-aminoadipic acid group. Major structure at pH 7.3


A deuterated compound that is harmine in which all three hydrogen atoms of the methoxy group are replaced by deuterium.


cluster

A cluster is a number of metal centres grouped close together which can have direct metal bonding interactions or interactions through a bridging ligand, but are not necessarily held together by these interactions.


bicyclic compound

A molecule that features two fused rings.


AMP 3'-end(1-) residue

A 3'-end ribonucleotide(1-) residue obtained by deprotonation of the phosphate OH group of 3'-end AMP residue; major species at pH 7.3.


A zwitterionic group obtained by transfer of a proton from the phosphate to the amino group of 3'-(L-leucyl)adenylyl group


nihonium atom

A boron group element atom with a symbol Nh and atomic number 113.


A ribonucleotide residue(1-) derived from cytidine 5'-monophosphate(2-).


name: 5-methylaminomethyl-2-selenouridine 5'-monophosphate zwitterion residue

description: A zwitterionic group obtained by transfer of a proton from the amino to the phosphate group of 5-methylaminomethyl-2-selenouridine 5'-monophosphate residue.


guanosine 5'-monophosphate(1-) residue

An organic anionic group obtained by deprotonation of the phosphate OH group of GMP residue.


queuosine 5'-phosphate(1-) residue

A negatively charged group obtained by removal of a proton from the phosphate group of queuosine 5'-phosphate residue. Major species at pH 7.3.


L-tyrosine-O-phosphate(2-) residue

An alpha-amino-acid residue anion obtained by deprotonation of the phosphate OH groups of L-tyrosine-O-phosphate residue; major speices aqt pH 7.3.


Major microspecies at pH 7.3.


positronium molecular entity

A type of exotic molecular entity in which an electron and a positron are bound together as a long-lived metastable state.


mancude ring

Any molecular entity that consists of a ring having (formally) the maximum number of noncumulative double bonds.


p-block element atom

Any main group element atom belonging to the p-block of the periodic table.


A ribonucleotide residue(1-) obtained by deprotonation of the phosphate OH group of 5-methoxy-UMP residue; major species at pH 7.3.


An organic anionic group obtained by deprotonation of the phosphate OH groups of any tRNA 3'-terminal nucleotidyl-cytidyl-cytidyl-adenosyl-cytidyl-cytidyl-adenosine residue; major species at pH 7.3.


An alpha-amino-acid residue anion obtained by deprotonation of the carboxy groups of O(3)-(beta-D-GalNAc-(1->4)-beta-D-GlcA-(1->3)-beta-D-GalNAc-(1->4)-beta-D-GlcA-(1->3)-beta-D-Gal-(1->3)-beta-D-Gal-(1->4)-beta-D-Xyl)-L-serine residue


3-sulfino-L-alanine(1-) residue

An alpha-amino-acid residue anion derived from 3-sulfino-L-alanine(1-).


An organic anionic group obtained by deprotonation of the phosphate OH groups of any 5'-phosphate ribonucleotide-(2'-deoxyribonucleotide) residue; major species at pH 7.3.


A catenane consisting of three interlocked macrocycles.


(Z)-2,3-didehydroaspartate residue

An anionic amino acid residue that is the (Z)-isomer of the alpha,beta-didehydro derivative of aspartate residue. Major microspecies at pH 7.3.


An alpha-amino-acid residue anion obtained by deprotonation of the carboxy groups of O(3)-(poly[beta-D-GalNAc-(1->4)-beta-D-GlcA-(1->3)]-beta-D-GalNAc-(1->4)-beta-D-GlcA-(1->3)-beta-D-Gal-(1->3)-beta-D-Gal-(1->4)-beta-D-Xyl)-L-serine residue


positronium

Atom-like pair of particles consisting of an anti-electron (positron) and an electron.


group

A defined linked collection of atoms or a single atom within a molecular entity.


name: 3'-terminal uridine 3'-phosphate(3-) residue


An organic anionic group obtained by deprotonation of the diphosphate OH groups of any adenosine-5'-diphospho 5'-end ribonucleotide residue; major species at pH 7.3.


Systems consisting of two or more molecular entities that are held together by their topology such that they cannot be separated without breaking bonds.


deuterated compound

Any isotopically modified compound that has one or more hydrogen atoms replaced by deuterium.


name: alpha-D-mannosyl-4''-O-queuosine 5'-phosphate zwitterion residue

description: A zwitterionic group obtained by transfer of a proton from the phosphate to the amino group of alpha-D-mannosyl-4''-O-queuosine 5'-phosphate residue; major species at pH 7.3.


An organic anionic group obtained by deprotonation of the phosphate OH group of 1,N(6)-etheno-2'-deoxyadenosine 5'-monophosphate residue; major species at pH 7.3.


[4)-D-GlcpNS-(1->](1-) residue

An organic anionic group resulting from the removal of the proton from the sulfamic acid group of [4)-D-GlcpNS-(1->] residue. The major structure at pH 7.3 of N-sulfo-D-glucosamine residue.


name: O-(S-[2R,4R,6R]-2,4,6-trimethyl-ultra-long-chain fatty acyl-pantetheine-4'-phosphoryl)serine(1-) residue

description: Any O-(S-[2R,4R,6R]-2,4,6-trimethyl-very-long-chain fatty acyl-pantetheine-4'-phosphoryl)serine(1-) residue in which the fatty acyl group has a chain length greater than C27.


category: biolink:CellularComponent biolink:AnatomicalEntity biolink:PhysicalEssence biolink:OrganismalEntity biolink:SubjectOfInvestigation biolink:BiologicalEntity biolink:ThingWithTaxon biolink:NamedThing biolink:PhysicalEssenceOrOccurrent

description: A location, relative to cellular compartments and structures, occupied by a macromolecular machine. There are three types of cellular components described in the gene ontology: (1) the cellular anatomical entity where a gene product carries out a molecular function (e.g., plasma membrane, cytoskeleton) or membrane-enclosed compartments (e.g., mitochondrion); (2) virion components, where viral proteins act, and (3) the stable macromolecular complexes of which gene product are parts (e.g., the clathrin complex).


3'-glycyladenylyl zwitterionic group

A zwitterionic group obtained by transfer of a proton from the phosphate to the amino group of 3'-glycyladenylyl group


An organic anionic group obtained by deprotonation of the phosphate OH group of any 3'-end ribonucleotidyl-ribonucleotide residue.


An organic anionic group obtained by deprotonation of the phosphate OH group of N(1)-methyladenosine 5'-monophosphate residue.


An alpha-amino-acid residue anion obtained by deprotonation of the sulfo group of S-(sulfosulfanyl)-L-cysteine residue; major species at pH 7.3.


indium atom

A metallic element first identified and named from the brilliant indigo (Latin indicum) blue line in its flame spectrum.


24G7 epitope

An antigenic epitope recognized by an anti-bilirubin monoclonal antibody designated 24G7. A substructure of bilirubin IXalpha, it is the region containing the oxo group at C-1, the methyl group at C-2, C-(4, 5, 6, 9), and N-21 and -22.


diphthine betaine residue

A zwitterionic group that is the conjugate base of diphthine residue, obtained by deprotonation of the carboxy group; major species at pH 7.3.


name: 3'-end ribonucleotide 3'-phosphate(3-) residue

description: An organic anionic group obtained by deprotonation of the phosphate OH groups of any 3'-end ribonucleotide 3'-phosphate residue.


3-oxo-Delta(4)-steroid group

An organic group derived from any 3-oxo-Delta(4)-steroid.


organic heterobicyclic ring

A bicyclic organic group that contains both carbon and hetero atoms.


An organic anionic group obtained by deprotonation of the glucuronosyl carboxy group of O(3)-(N-acetyl-beta-D-glucosaminyl-(1->4)-beta-D-glucuronosyl-(1->3)-beta-D-galactosyl-(1->3)-beta-D-galactosyl-(1->4)-beta-D-xylosyl)-L-serine residue.


anionic amino-acid residue

An amino-acid residue carrying an overall negative charge.


3-selenino-L-alanine(1-) residue

An alpha-amino-acid residue anion that is the conjugate base of 3-selenino-L-alanine residue, arising from deprotonation of the selenino group.


name: 5'-(N(2),N(2),N(7)-trimethyl 5'-triphosphoguanosine)-(purine ribonucleotide)(2-) residue

description: A 2,2,7-trimethyl guanosine (m(2,2,7)G) linked via an inverted 5'-5' triphosphate bridge to an initiating purine ribonucleotide; major microspecies at pH 7.3.


Major microspecies at pH 7.3


adenosine 5'-monophosphate(1-) residue

An organic anionic group obtained by deprotonation of the free phosphate OH group of AMP residue.


ferroheme c di-L-cysteine(2-) residue

An organic anionic group that is ferroheme c(2-)  bound to cytochrome c by two L-cysteine residues; major species at pH 7.3.


thymidine 5'-monophosphate(1-) residue

An organic anionic group obtained by deprotonation of the phosphate OH group of dTMP residue. Major species at pH 7.3


L-cystine residue

A cystine residue in which both stereocentres have L (= R) configuration.


3-nitro-L-tyrosine(1-) residue

An alpha-amino-acid residue anion resulting from the deprotonation of the 4-hydroxy group of 3-nitro-L-tyrosine residue. Major species at pH 7.3.


uridine 5'-monophosphate(1-) residue

An organic anionic group derived by deprotonation of the phosphate OH group of UMP residue.


An organic group forming part of, and a proposed epitope within, ganglioside GM2. The -(1->4)-R in the name may represent -(1->4)-glucosyl.


N-formyl-L-methionyl group

An amino-acid residue derived from N-formyl-L-methionine.


An organic anionic group obtained by deprotonation of the OH group of C-terminal Xaa-hydroxyglycino residue.


An alpha-amino-acid residue anion obtained by deprotonation of the carboxy group of O(3)-[N-acetyl-alpha-neuraminyl-(2->3)-beta-D-galactosyl-(1->3)-N-acetyl-alpha-D-galactosaminyl]-L-threonine residue; major species at pH 7.3.


A pyrimidine deoxyribonucleotide(1-) residue obtained by deprotonation of the phosphate OH group of 5-hydroxymethyldeoxycytidine 5'-monophosphate residue.


An alpha-amino-acid residue anion obtained by deprotonation of the carboxy group of O(3)-[N-acetyl-alpha-neuraminyl-(2->3)-beta-D-galactosyl-(1->3)-N-acetyl-alpha-D-galactosaminyl]-L-serine residue; major species at pH 7.3.


An organic anionic group obtained by deprotonation of the phosphate OH group of N(3)-methyl-2'-deoxythymidine 5'-monophosphate residue; major species at pH 7.3.


O-phospho-L-serine(2-) residue

An alpha-amino-acid residue anion obtained by deprotonation of the phosphate OH groups of O-phospho-L-serine residue; major speices at pH 7.3.


fulvalenes

The hydrocarbon fulvalene and its derivatives formed by substitution (and by extension, analogues formed by replacement of one or more carbon atoms of the fulvalene skeleton by a heteroatom).


indole skeleton

A mancude heterobicyclic organic group consisting of a benzene ring fused to a pyrrole ring.


niobium-93 atom

The stable isotope of niobium with relative atomic mass 92.906378, 100 atom percent natural abundance and nuclear spin 9/2.


cysteine tryptophylquinone residue

An amino-acid residue derived from cysteine tryptophylquinone.


D-cystine residue

A cystine residue in which both stereocentres have D (= S) configuration.


An L-alpha-amino acid residue derived from S-(ADP-D-ribosyl)-L-cysteine.


name: an L-amino acyl-L-seryl dipeptide residue


molecule

Any polyatomic entity that is an electrically neutral entity consisting of more than one atom.


N(6)-malonyl-L-lysine(1-) residue

An anionic amino-acid residue obtained by deprotonation of the free carboxy group of N(6)-malonyl-L-lysine residue; major species at pH 7.3.


perylene skeleton

An arene skeleton consisting of two naphthalene skeleta bonded to each other at the 1- and 7- positions.


An organic anionic group obtained by deprotonation of the carboxy groups of S-3-[(2R)-phycocyanobilin]-L-cysteine residue; major species at pH 7.3.


A zwitterionic group derived from N(1)-ethyl-2'-deoxyadenosine 5'-monophosphate; major species at pH 7.3.


(Z)-2,3-didehydroaspartic acid residue

A 2,3-dehydroamino acid resulting from the formal dehydrogenation of the side chain of aspartic acid to introduce a C=C double bond at the 2-3 position.


name: a 3'-terminal ribonucleotide 3'-(5'-diphosphoguanosine)(3-) residue


An organic anionic group obtained by deprotonation of the phosphate and diphosphate OH groups of O-[2'-(5-phosphoribosyl)-3'-dephospho-CoA]-L-serine residue.


An organic anionic group obtained by deprotonation of the diphosphate OH groups of 4-N-(ADP-D-ribosyl)-L-asparagine residue.


N-carboxy-L-methionine(1-) residue

An alpha-amino-acid residue anion derived from N-carboxy-L-methionine residue by removal of a proton from the carboxy group attached to the nitrogen.


tin-117 atom

The stable isotope of tin with relative atomic mass 116.902956, 7.68 atom percent natural abundance and nuclear spin (1)/2.


An organic anionic group obtained by deprotonation of the side-chain carboxy group of N(alpha)-acetyl-L-methionyl-L-glutamyl residue.


An organic anionic group obtained by deprotonation of the side-chain carboxy group of N(alpha)-acetyl-L-methionyl-L-aspartyl residue.


name: 5'-end purine ribonucleotide 5'-triphosphate(4-) residue

description: An organic anionic group obtained by deprotonation of the triphosphate OH groups of any 5'-end purine ribonucleotide 5'-triphosphate residue; major species at pH 7.3.


An organic anionic group obtained by deprotonation of the phosphate OH group of N(1)-methylpseudouridine 5'-monophosphate residue.


name: 3'-end deoxyribonucleotide 2,3-dehydro-2,3-deoxyribose phosphate(2-) residue


3'-(D-tyrosyl)adenylyl(1-) group

An organic anionic group obtained by deprotonation of the phosphate group of 3'-(D-tyrosyl)adenylyl group. It is the major structure at pH 7.3 (according to Marvin v 6.2.0.).


A alpha-amino-acid residue anion obtained by deprotonation of the phosphate and diphosphate groups as well as protonation of the guanidino group of N(omega)-(2'-phospho-ADP-D-ribosyl)-L-arginine residue; major species at pH 7.3.


abasic DNA-protein cross-linked residue

An organic group that is any protein residue cross-linked with an abasic site of DNA.


An anionic amino-acid residue consisting of a 5'-phospho-purine ribonucleotide residue linked to the N(tele) of an L-histidine residue; major microspecies at pH 7.3


An amino-acid residue that is formed when the carboxy group of any amino acid (where R is the side chain) undergoes a cyclodehydration reaction with a neighboring L-threonine amino acid in a protein, resulting in the formation of a 5-methyl oxazoline moiety.


organic group

Any substituent group or skeleton containing carbon.


5'-end ribonucleotide(1-) residue

An organic anionic group obtained by deprotonation of one of the phosphate OH groups of any 5'-end ribonucleotide residue.


chalcogen

Any p-block element belonging to the group 16 family of the periodic table.


name: 7-methyldeoxyguanosine 5'-monophosphate zwitterion residue

description: A zwitterionic group derived from 7-methyldeoxyguanosine 5'-monophosphate; major species at pH 7.3.


elemental caesium

An element in the hydrogen group of the periodic table with atomic number 55, atomic mass 132.9055, M.P. 28.5 C, and B.P. 671 C.


name: 5-methylaminomethyl-2-thiouridine 5'-monophosphate zwitterion residue

description: A zwitterionic group obtained by transfer of a proton from the amino to the phosphate group of 5-methylaminomethyl-2-thiouridine 5'-monophosphate residue.


transition element atom

An element whose atom has an incomplete d sub-shell, or which can give rise to cations with an incomplete d sub-shell.


An organic anionic group that is the conjugate base of 2'-deoxyribose 5'-monophosphate residue obtained by deprotonation of the phosphate OH group; major species at pH 7.3.


spherand

A macrocyclic ligand consisting of meta-bridged phenol groups. Spherands are complex  cryptands, having an almost spherical structure, and are able to form complexes by enveloping the metal cations.


A zwitterionic group obtained by transfer of a proton from the phosphate to the amino group of 3'-(L-prolyl)adenylyl group


name: C-terminal alpha-amino acyl-L-glutamate(2-) residue


heterobicyclic compound

A bicyclic compound in which at least one of the rings contains at least one skeletal heteroatom.


An organic anionic group obtained by deprotonation of the free phosphate OH group of N(6)-dimethylallyladenine 5'-monophosphate residue.


O-adenyl-L-tyrosine(1-) residue

An alpha-amino-acid residue anion obtained by removal of a proton form the phosphate group of O-adenyl-L-tyrosine residue; major species at pH 7.3.


glycyl-AMP(1-) residue

An organic anionic group derived from glycyl-AMP(1-).


2-thiouridine 5'-phosphate(1-) residue

An organic anionic group obtained by deprotonation of the phosphate OH group of 2-thiouridine 5'-phosphate residue; major species at pH 7.3.


An organic anionic group derived from N(omega)-(ADP-D-ribosyl)-L-arginine(1-); major species at pH 7.3


An organic anionic group obtained by deprotonation of the phosphate OH group of N(2)-methylguanosine 5'-monophosphate residue


name: L-cysteine coenzyme A disulfide(4-) residue


N(6)-(2-carboxyethyl)-L-lysine residue

An amino-acid residue consisting of an L-lysine residue, to the epsilon amino group of which is attached a 2-carboxyethyl group.


An organic anionic group obtained by deprotonation of the phosphate OH group of dGMP residue; major species at pH 7.3.


L-alpha-aspartyl zwitterionic group

The zwitterionic group formed from L-aspartic acid; the major structure at pH 7.3 of the L-alpha-aspartyl group, formed by protonation of the alpha-amino group and concomitant deprotonation of the gamma-carboxy group.


zwitterionic group

A neutral group having formal unit electrical charges of opposite sign on non-adjacent atoms.


N(6)-carboxy-L-lysine residue

An amino-acid residue derived from N(6)-carboxy-L-lysine.


An organic anionic group obtained by deprotonation of the triphosphate OH groups of 5'-(N(7)-methyl 5'-triphosphoguanosine)-2'-O-methyladenosine residue; major species at pH 7.3.


molybdenum cofactor(2-)

Molybdenum cofactor MoCo protonated to pH 7.3.


An organic anionic group obtained by deprotonation of the carboxy group of N-acetyl-alpha-neuraminyl-(2->3)-beta-D-galactosyl group; major species at pH 7.3.


carboxybiotinyl-L-lysine(1-) residue

An alpha-amino-acid residue anion obtained by deprotonation of the carboxy group of carboxybiotinyl-L-lysine residue; major species at pH 7.3.


An organic anionic group obtained by deprotonation of the phosphate OH group of 3,N(4)-etheno-2'-deoxycytidine 5'-monophosphate residue; major species at pH 7.3.


An organic anionic group derived from 5-O-(ADP-D-ribosyl)-L-glutamate residue


name: queuosine 5'-phosphate zwitterion residue

description: A zwitterionic group obtained by transfer of a proton from the phosphate to the amino group of queuosine 5'-phosphate residue.


organic iron compound

An iron compound with C-H bonds


metal allergen

Any metal which causes the onset of an allergic reaction.


name: C-terminal S-(Gly-Gly)-L-Cys zwitterion residue

description: A zwitterionic group obtained by transfer of a proton from the carboxy to the amino group of C-terminal S-(Gly-Gly)-L-Cys residue; major species at pH 7.3.


An organic anionic group obtained by deprotonation of the diphosphate OH groups of 4-(ADP-D-ribosyl)-L-aspartyl residue. Major microspecies at pH 7.3


(15)N-modified compound

An isotopically modified compound in which the abundance of a (15)N isotope at one or more positions has been increased above that of the naturally occurring level.


organic anionic group

An anionic group that contains carbon.


ribonucleotide residue(1-)

An organic anionic group obtained by deprotonation of the phosphate OH group of any ribonucleotide residue; major species at pH 7.3.


An organic anionic group obtained by deprotonation of the phosphate and carboxy functions as well as protonation of the amino function of 3-(3-amino-3-carboxypropyl)uridine 5'-phosphate residue; major species at 7.3.


trisaccharide residue

A divalent organic group that is three contiguous constituent monosaccharide units of an oligo- or poly-saccharide, formed formally by loss of the anomeric hydroxy group from the monosaccharide residue at its reducing end and of H from one of the hydroxy groups of the residue at its non-reducing end.


An alpha-amino-acid residue anion obtained by deprotonation of the carboxy groups of C-terminal-gamma-(L-glutamyl 5-semialdehyde)-L-2-glutamic acid group. Major structure at pH 7.3.


An organic anionic group obtained by deprotonation of the free phosphate OH group of 5-methyluridine 5'-monophosphate residue.


name: 2-cyano-3-(3,5-dimethoxyphenyl)-2-[(3,5-dimethoxyphenyl)methyl]propanoic acid ethyl ester


A deuterated compound that is methanol in which all four hydrogen atoms are replaced by deuterium. It is commonly used as a solvent in NMR spectroscopy.


A branched 11-residue branched carbohydrate group consisting of one alpha-D-GalN, one beta-D-Gal, one alpha-D-GalNac, one alpha-D-GlcN, one beta-D-Glc, one alpha-Kdo, two alpha-D-GalA and three alpha-LDHep residues, linked as shown.


A zwitterionic group obtained by transfer of a proton from the phosphate to the amino group of 3'-(L-glutaminyl)adenylyl group


An organic anionic group obtained by deprotonation of the glucuronosyl carboxy group of O(3)-(N-acetyl-alpha-D-glucosaminyl-(1->4)-beta-D-glucuronosyl-(1->3)-beta-D-galactosyl-(1->3)-beta-D-galactosyl-(1->4)-beta-D-xylosyl)-L-serine residue.


s-block molecular entity

An s-block molecular entity is a molecular entity containing one or more atoms of an s-block element.


An organic anionic group obtained by deprotonation of the carboxy groups of S-3-[(2R)-phycourobilin]-L-cysteine residue; major species at pH 7.3.


A catenane consisting of two interlocked macrocycles.


An anionic amino-acid residue residue that is a representation of high mannose glucans.


The functionalised copovidone group in which copovidone is linked to an N-octyl-N'-[(1-vinyl-1H-1,2,3-triazol-4-yl)methyl]pentanediamide group.


The functionalised copovidone group in which copovidone is linked to a 2-({3,4-dioxo-2-[(2-{[3-(vinyloxy)propyl]sulfanyl}ethyl)amino]cyclobut-1-en-1-yl}amino)ethyl group.


oligomer

A molecule of intermediate relative molecular mass, the structure of which essentially comprises a small plurality of units derived, actually or conceptually, from molecules of lower relative molecular mass.


A zwitterionic group obtained by transfer of a proton from the phosphate to the amino group of O-[S-4-(aminobutanoyl)pantetheine-4'-phosphoryl]serine residue; major species at pH 7.3.


exotic molecular entity

A molecular entity in which one or more sub-atomic particles have been replaced by other particles of the same charge.


uridylyl-L-serine(1-) residue

An alpha-amino-acid residue anion obtained by deprotonation of the phosphate OH group of uridylyl-L-serine residue; major species at pH 7.3.


anionic group

A group that carries an overall negative charge.


FMN-L-threonine(2-) residue

An organic anionic group obtained by deprotonation of the phosphate OH group and the heterocyclic ring of FMN-L-threonine residue.


N(omega)-phospho-L-arginine(1-) residue

An alpha-amino-acid residue anion derived from N(omega)-phospho-L-arginine(1-).


An alpha-amino-acid residue anion obtained by removal of a proton from both of the gamma-carboxy groups of gamma-carboxy-L-glutamic acid residue.


An organic anionic group obtained by deprotonation of the phosphate and diphosphate OH groups of S-acetyl O-[2'-(5-phosphoribosyl)-3'-dephospho-CoA]-L-serine residue.


An organic anionic group obtained by deprotonation of the carboxy groups of S-3-[(2R)-phycoviolobilin]-L-cysteine residue; major species at pH 7.3.


alkaline earth molecular entity

An alkaline earth molecular entity is a molecular entity containing one or more atoms of an alkaline earth metal.


An amino-acid residue that is formed when the carboxy group of any amino acid (where R is the side chain) undergoes a cyclodehydration reaction with a neighboring L-cysteine amino acid in a protein, resulting in the formation of a 2-thiazoline moiety.


An organic anionic group obtained by deprotonation of the free phosphate OH group of N(3)-methyluridine 5'-monophosphate residue.


An organic anionic group obtained by deprotonation of the phosphate OH group of 5-methyl-2-thiouridine 5'-phosphate residue; major species at pH 7.3.


Major species at pH 7.3


An organic anionic group obtained by deprotonation of the free phosphate OH group of N(2),N(2)-dimethylguanosine 5'-phosphate residue.


C-terminal Gly-Gly-AMP(1-) group

An organic anionic group obtained by deprotonation of deprotonation of the phosphate OH group of C-terminal Gly-Gly-AMP residue


main group element atom

An atom belonging to one of the main groups (found in the s- and p- blocks) of the periodic table.


N(2)-(ADP-D-ribosyl)-dGMP(3-) residue

A 2'-deoxyribonucleotide residue that is 2'-deoxyguanosine 5'-monophosphate(1-) residue substituted by an ADP-D-ribofuranosyl group at position N(2) of the guanine ring; major microspecies at pH 7.3.


An organic group forming part of, and a proposed epitope within, globoside GM1.


name: C-terminal alpha-amino acyl-L-glutamyl-L-glutamate(3-) residue


tin-119 atom

The stable isotope of tin with relative atomic mass 118.903311, 8.59 atom percent natural abundance and nuclear spin (1)/2.


(14)C-modified compound

An isotopically modified compound in which the abundance of a (14)C isotope at one or more positions has been increased above that of the naturally occurring level (1 - 1.5 atoms for every 10(12) atoms of the carbon in the atmosphere). With a half-life of 5,700 years, (14)C is the longest-lived radioisotope of carbon.


dolichyl diphosphate group(2-)

An organic anionic group obtained by deprotonation of the diphosphate function of dolichyl diphosphate group. It is the major structure at pH 7.3 (according to Marvin v 6.2.0.).


An amino-acid residue that is formed when the carboxy group of any amino acid (where R is the side chain) undergoes a cyclodehydration reaction with a neighboring L-cysteine amino acid in a protein, resulting in the formation of a 2-thiazoline ring which is dehydrogenated to the corresponding 1,3-thiazole moiety.


An anionic amino-acid residue formed by proton loss from the phospho group of an O-(pantetheine-4'-phosphoryl)serine residue, the principal form present at pH 7.3.


An organic anionic group obtained by deprotonation of the free phosphate OH group of 2-thio-N(6)-dimethylallyladenine 5'-monophosphate residue.


An amino-acid residue derived from 5'-(N(6)-L-lysine)-L-tyrosylquinone.


homocyclic compound

A cyclic compound having as ring members atoms of the same element only.


N(6)-carboxy-L-lysine(1-) residue

An alpha-amino-acid residue anion obtained by deprotonation of the free carboxy group of N(6)-carboxy-L-lysine residue; major species at pH 7.3.


muonium molecular entity

A type of exotic molecular entity in which an electron is replaced by a muon.


amino-acid residue

When two or more amino acids combine to form a peptide, the elements of water are removed, and what remains of each amino acid is called an amino-acid residue.


4-thiouridine 5'-phosphate(1-) residue

An organic anionic group obtained by deprotonation of the phosphate OH group of 5-thiouridine 5'-phosphate residue; major species at pH 7.3.


N-acetyl-L-methionyl residue

An N-acetylamino-acid residue derived from N-acetyl-L-methionine.


An organic anionic group obtained by deprotonation of the sulfanylcarbonyl and phosphate OH groups of S-[1-(5-O-phosphono-beta-D-ribofuranosyl)-5-(sulfanylcarbonyl)pyridinium-3-carbonyl]-L-cysteine residue.


N(6)-succinyl-L-lysine(1-) residue

An anionic amino-acid residue obtained by deprotonation of the free carboxy group of N(6)-succinyl-L-lysine residue; major species at pH 7.3.


An O-[S-(L-alpha-aminoacyl)pantetheine-4'-phosphoryl]serine zwitterionic residue obtained by transfer of a proton from the phosphate to the amino group of O-(S-L-prolylpantetheine-4'-phosphoryl)serine residue; major microspecies at pH 7.3.


An organic anionic residue derived by deprotonation of the phosphate OH group of pyrimidine deoxyribonucleotide residue.


elemental rubidium

An element in the hydrogen group of the periodic table with atomic number 37, atomic mass 85.468, M.P. 39.30 C, and B.P. 688 C.


4-O-methyl-dTMP(1-) residue

An organic anionic group obtained by deprotonation of the phosphate OH group of 4-O-methyl-dTMP residue. Major species at pH 7.3


An organic anionic group obtained by deprotonation of the phosphate OH group of 2'-deoxyadenosine 5'-monophosphate (dAMP) residue; major species at pH 7.3.


catenane

Mechanically-interlocked molecular entities where the constituent macrocyclic molecular entities are interlocked like links on a chain.


An O-(S-2-carboxyacylpantetheine-4'-phosphoryl)-L-serine(2-) residue in which the S-acyl group is specified as 2-carboxytetradecanoyl.


cyclyl group

A univalent group formed by removing a hydrogen atom from any ring atom of a cyclic compound.


A deuterated compound that is  lysergic acid diethylamide in which the three methyl hydrogens are replaced by deuterium.


An organic group formed by loss of the terminal amino group from 8-hydrazinocarbonyloctyl 2-O-methyl-alpha-L-rhamnoside; the monosaccharide moiety within the Mycobactrium bovis-specific neoantigen 2-MeRha-O-BSA (BSA = Bovine Serum Albumin).


An O-(S-pantetheine-4'-phosphoryl)-L-serine(2-) residue in which the S-acyl group is a  2-carboxyacyl.


thioglycine(1-) residue

An organic anionic group obtained by deprotonation of the thiolacid SH group of thioglycine residue.


L-alpha-glutamyl zwitterionic group

The zwitterionic group formed from L-glutamic acid; the major structure at pH 7.3 of the L-alpha-glutamyl group, formed by protonation of the alpha-amino group and concomitant deprotonation of the gamma-carboxy group.


name: 1-methyldeoxyadenosine  5'-monophosphate residue

description: A zwitterionic group derived from 1-methyldeoxyadenosine  5'-monophosphate; major species at pH 7.3.


pure substance

A pure substance is a chemical substance composed of multiple molecules, which are all of the same kind.


An organic anionic group obtained by deprotonation of the triphosphate OH groups of 5'-(N(7)-methyl 5'-triphosphoguanosine)-N(6)-methyl-2'-O-methyladenosine residue; major species at pH 7.3.


An organic anionic group obtained by deprotonation of the phosphate OH groups of any 5'-end 2'-deoxyribonucleotide residue; major species at pH 7.3.


An organic anionic group obtained by deprotonation of the phosphate OH group of N(3)-methylcytidine 5'-monophosphate residue.


name: 3'-end uridine-uridine 2',3'-cyclophosphate(3-) residue


A zwitterionic group obtained by transfer of a proton from the phosphate to the amino group of 3'-(L-isoleucyl)adenylyl group


virion component

description: Any constituent part of a virion, a complete fully infectious extracellular virus particle.


A ribonucleotide residue(1-) obtained by deprotonation of the phosphate OH group of 5-hydroxy-UMP residue. Major microspecies at pH 7.4.


(11)C-modified compound

An isotopically modified compound which contains one or more (11)C atoms. (11)C is the most stable artificial isotope of carbon, decaying by positron emission to (11)B with a half-life of 20.334 minutes.


A zwitterionic group obtained by transfer of a proton from the phosphate to the amino group of 3'-(L-alanyl)adenylyl group


An organic anionic group obtained by deprotonation of the phosphate OH group of N(3)-methylpseudouridine 5'-monophosphate residue.


aluminium-26 atom

The radioactive isotope of aluminium with relative atomic mass 25.986892 and half-life of 717,000 years.


name: 5'-end (N(2),N(2),N(7)-trimethyl 5'-triphosphoguanosine)- ribonucleoside(2-) residue


3'-(L-tryptophyl)adenylyl(1-) group

An organic anionic group obtained by deprotonation of the phosphate group of 3'-(L-tryptophyl)adenylyl group. It is the major structure at pH 7.3 (according to Marvin v 6.2.0.).


thioacyl group

Groups formed by removing one or more hydroxy groups from thioxoacids that have the general structure RkE(=S)l(OH)m (l =/= 0), and replacement analogues of such thioacyl groups.


An organic group consisting of an alpha-L-rhamnosyl-(1->3)-beta-D-glucosyl group linked to the terminal N of an adipamido group. PMID:27091615 reports several of these being linked to the CRM197 immunogenic carrier protein to form a semisynthetic glycoconjugate.


An alpha-amino-acid residue anion obtained by deprotonation of the carboxy groups of C-terminal-gamma-L-glutamyl-L-2-aminoadipic acid semialdehyde group. Major structure at pH 7.3


cytidine 5'-monophosphate(1-) residue

An organic anionic group that is the conjugate base of CMP residue, obtained by deprotonation of the phosphate OH group; major species at pH 7.3.


TTQ cofactor

Formed from a cross-linking of two Trp residues.


muonium

Atom-like particle consisting of a positive muon and an electron.


name: 7-aminomethyl-7-carbaguanine 5'-phosphate zwitterion residue

description: A zwitterionic group obtained by transfer of a proton from the phosphate to the amino group of 7-aminomethyl-7-carbaguanine 5'-phosphate residue.


name: tRNA 3'-terminal nucleotidyl-cytidyl-cytidine(3-) residue

description: An organic anionic group obtained by deprotonation of the phosphate OH groups of any tRNA 3'-terminal nucleotidyl-cytidyl-cytidine residue; major species at pH 7.3.


cucurbiturils

Compounds based on cucurbituril skeleton.


An organic anionic group that is the conjugate base of 5-taurinomethyl-2-thiouridine 5'-phosphate residue; major species at pH 7.3.


An amino-acid residue formed from 2'-(5''-phosphoribosyl)-3'-dephospho-CoA serine.


3'-(L-seryl)adenylyl(1-) group

An organic anionic group obtained by deprotonation of the phosphate group of 3'-(L-seryl)adenylyl group. It is the major structure at pH 7.3 (according to Marvin v 6.2.0.).