Page last updated: 2024-10-24

ribosome biogenesis

Definition

Target type: biologicalprocess

A cellular process that results in the biosynthesis of constituent macromolecules, assembly, and arrangement of constituent parts of ribosome subunits; includes transport to the sites of protein synthesis. [GOC:ma, PMID:26404467, Wikipedia:Ribosome_biogenesis]

Ribosome biogenesis is a complex and highly regulated process essential for protein synthesis in all living organisms. It involves the assembly of ribosomal subunits, the primary machinery for translating genetic information into proteins. This process begins in the nucleolus, a specialized region within the nucleus.

The first step involves the transcription of ribosomal RNA (rRNA) genes by RNA polymerase I. This produces a large precursor rRNA molecule, which undergoes extensive processing and modification. Simultaneously, ribosomal proteins synthesized in the cytoplasm are imported into the nucleolus.

The rRNA precursor is cleaved and trimmed by various nucleases, and specific modifications are introduced, including methylation and pseudouridylation. These modifications are crucial for rRNA structure and function.

The modified rRNA molecules then associate with ribosomal proteins in a step-wise manner. The assembly process is facilitated by a number of chaperone proteins and small nucleolar ribonucleoproteins (snoRNPs).

The initial assembly of ribosomal subunits occurs in the nucleolus. The smaller 40S subunit is formed from the 18S rRNA and a set of ribosomal proteins. The larger 60S subunit is assembled from the 5.8S, 25S, and 5S rRNAs, and another set of ribosomal proteins.

The mature ribosomal subunits are then exported from the nucleus through nuclear pore complexes into the cytoplasm. In the cytoplasm, the two subunits associate to form a complete ribosome, ready to initiate protein synthesis.

This complex process is tightly regulated, ensuring that ribosomes are produced in the correct amounts and with the appropriate quality control. Errors in ribosome biogenesis can lead to various cellular dysfunctions and diseases.'
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Proteins (7)

ProteinDefinitionTaxonomy
30S ribosomal protein S4A small ribosomal subunit protein uS4 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0A7V8]Escherichia coli K-12
30S ribosomal protein S10A small ribosomal subunit protein uS10 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0A7R5]Escherichia coli K-12
Cullin-4AA cullin-4A that is encoded in the genome of human. [PRO:DNx, UniProtKB:Q13619]Homo sapiens (human)
40S ribosomal protein S28A small ribosomal subunit protein eS28 that is encoded in the genome of human. [PRO:DNx, UniProtKB:P62857]Homo sapiens (human)
Glutamine synthetaseA glutamine synthetase that is encoded in the genome of human. [PRO:DNx, UniProtKB:P15104]Homo sapiens (human)
60S acidic ribosomal protein P0A eukaryotic-type large ribosomal subunit protein uL10 that is encoded in the genome of human. [PRO:DNx, UniProtKB:P05388]Homo sapiens (human)
Exportin-1An exportin-1 that is encoded in the genome of human. [PRO:CNA]Homo sapiens (human)

Compounds (31)

CompoundDefinitionClassesRoles
coumarin2H-chromen-2-one: coumarin derivativecoumarinsfluorescent dye;
human metabolite;
plant metabolite
prednisoloneprednisolone : A glucocorticoid that is prednisone in which the oxo group at position 11 has been reduced to the corresponding beta-hydroxy group. It is a drug metabolite of prednisone.

Prednisolone: A glucocorticoid with the general properties of the corticosteroids. It is the drug of choice for all conditions in which routine systemic corticosteroid therapy is indicated, except adrenal deficiency states.
11beta-hydroxy steroid;
17alpha-hydroxy steroid;
20-oxo steroid;
21-hydroxy steroid;
3-oxo-Delta(1),Delta(4)-steroid;
C21-steroid;
glucocorticoid;
primary alpha-hydroxy ketone;
tertiary alpha-hydroxy ketone
adrenergic agent;
anti-inflammatory drug;
antineoplastic agent;
drug metabolite;
environmental contaminant;
immunosuppressive agent;
xenobiotic
chloramphenicolAmphenicol: Chloramphenicol and its derivatives.C-nitro compound;
carboxamide;
diol;
organochlorine compound
antibacterial drug;
antimicrobial agent;
Escherichia coli metabolite;
geroprotector;
Mycoplasma genitalium metabolite;
protein synthesis inhibitor
framycetinframycetin : A tetracyclic antibacterial agent derived from neomycin, being a glycoside ester of neamine and neobiosamine B.

Framycetin: A component of NEOMYCIN that is produced by Streptomyces fradiae. On hydrolysis it yields neamine and neobiosamine B. (From Merck Index, 11th ed)
aminoglycosideallergen;
antibacterial drug;
Escherichia coli metabolite
ostholosthol: from Cnidium monnieri and Angelica pubescens (both Apiaceae); structure given in first sourcebotanical anti-fungal agent;
coumarins
metabolite
herniarinherniarin : A member of the class of coumarins that is coumarin substituted by a methoxy group at position 7.

herniarin: methoxy analog of umbelliferone; structure
coumarinsfluorochrome
erythromycinerythromycin : Any of several wide-spectrum macrolide antibiotics obtained from actinomycete Saccharopolyspora erythraea (formerly known as Streptomyces erythraeus).

erythromycin A : An erythromycin that consists of erythronolide A having 2,6-dideoxy-3-C-methyl-3-O-methyl-alpha-L-ribo-hexopyranosyl and 3,4,6-trideoxy-3-(dimethylamino)-beta-D-xylo-hexopyranosyl residues attahced at positions 4 and 6 respectively.

Erythromycin: A bacteriostatic antibiotic macrolide produced by Streptomyces erythreus. Erythromycin A is considered its major active component. In sensitive organisms, it inhibits protein synthesis by binding to 50S ribosomal subunits. This binding process inhibits peptidyl transferase activity and interferes with translocation of amino acids during translation and assembly of proteins.
cyclic ketone;
erythromycin
neamineneamine : 2-Deoxy-D-streptamine glycosylated at the 4-oxygen with a 6-amino-alpha-D-glucosaminyl group.

neamine: fragment of NEOMYCIN B; structure in first source
2,6-dideoxy-alpha-D-glucoside;
aminoglycoside
antibacterial agent
florfenicolflorfenicol : A carboxamide that is the N-dichloroacetyl derivative of (1R,2S)-2-amino-3-fluoro-1-[4-(methanesulfonyl)phenyl]propan-1-ol. A synthetic veterinary antibiotic that is used for treatment of bovine respiratory disease and foot rot; also used in aquaculture.

florfenicol: structure given in first source
organochlorine compound;
organofluorine compound;
secondary alcohol;
secondary carboxamide;
sulfone
antimicrobial agent
antibiotic g 418antibiotic G 418: from Micromonospora rhodorangea
paromomycinparomomycin : An amino cyclitol glycoside that is the 1-O-(2-amino-2-deoxy-alpha-D-glucopyranoside) and the 3-O-(2,6-diamino-2,6-dideoxy-beta-L-idopyranosyl)-beta-D-ribofuranoside of 4,6-diamino-2,3-dihydroxycyclohexane (the 1R,2R,3S,4R,6S diastereoisomer). It is obtained from various Streptomyces species. A broad-spectrum antibiotic, it is used (generally as the sulfate salt) for the treatment of acute and chronic intestinal protozoal infections, but is not effective for extraintestinal protozoal infections. It is also used as a therapeutic against visceral leishmaniasis.

Paromomycin: An aminoglycoside antibacterial and antiprotozoal agent produced by species of STREPTOMYCES.
amino cyclitol glycoside;
aminoglycoside antibiotic
anthelminthic drug;
antibacterial drug;
antiparasitic agent;
antiprotozoal drug
puromycinpuromycinsantiinfective agent;
antimicrobial agent;
antineoplastic agent;
EC 3.4.11.14 (cytosol alanyl aminopeptidase) inhibitor;
EC 3.4.14.2 (dipeptidyl-peptidase II) inhibitor;
nucleoside antibiotic;
protein synthesis inhibitor
netilmicinNetilmicin: Semisynthetic 1-N-ethyl derivative of SISOMYCIN, an aminoglycoside antibiotic with action similar to gentamicin, but less ear and kidney toxicity.
linezolidacetamides;
morpholines;
organofluorine compound;
oxazolidinone
antibacterial drug;
protein synthesis inhibitor
zithromaxazithromycin : A macrolide antibiotic useful for the treatment of bacterial infections.

Azithromycin: A semi-synthetic macrolide antibiotic structurally related to ERYTHROMYCIN. It has been used in the treatment of Mycobacterium avium intracellulare infections, toxoplasmosis, and cryptosporidiosis.
macrolide antibioticantibacterial drug;
environmental contaminant;
xenobiotic
tiamulintiamulin : A carbotricyclic compound that is pleuromutilin in which the hydroxyacetate group is replaced by a 2-{[2-(diethylamino)ethyl]sulfanyl}acetate group. An antibacterial drug, tiamulin is used in veterinary medicine (generally as its hydrogen fumarate salt) for the treatment of swine dysentery caused by Serpulina hyodysenteriae.

tiamulin: 81723 HFU and tiamutin are for fumarate salt; prevents senescence in ascomycete; pleuromutilin derivative; RN given refers to ((3aS-(3aalpha,4beta,5alpha,6alpha,8beta,9alpha,9abeta,10S*))-isomer
carbotricyclic compound;
carboxylic ester;
cyclic ketone;
organic sulfide;
secondary alcohol;
semisynthetic derivative;
tertiary amino compound;
tetracyclic diterpenoid
antibacterial drug
4-pyridin-4-yl-2-sulfanylidene-5,6,7,8-tetrahydro-1H-quinoline-3-carbonitrilebipyridines
hmr 3647
josamycinacetate ester;
aldehyde;
disaccharide derivative;
glycoside;
macrolide antibiotic;
tertiary alcohol;
tertiary amino compound
antibacterial drug;
metabolite
albocyclinealbocycline: macrolide antibiotic isolated from Streptomyces bruneogriseus nov. sp. MCRL-0129; specifically anti-staphylococcal, including antibiotic-resistant strains; structuremacrolide
ci 940leptomycin : A complex, very long chain, polyunsaturated fatty acid whose core structure comprises 8-oxononadeca-2,10,12,16,18-pentaenoic acid having methyl substituents at positions 3, 5, 7, 9, 11 and 15 and a 3,6-dihydropyran-6-one-2-yl group at position 19.hydroxy polyunsaturated fatty acid;
leptomycin
antifungal agent;
bacterial metabolite
evernimicin
gentamicin sulfate
gentamicin sulfate
pristinamycin iibvirginiamycin M2: structure in first source
cem 101solithromycin: an antibacterial fluoroketolide; structure in first source
kpt-185KPT-185: binds CRM1 to inhibit nuclear export; has antineoplastic activity
tetracyclinetetracycline : A broad-spectrum polyketide antibiotic produced by the Streptomyces genus of actinobacteria.

Tetracycline: A naphthacene antibiotic that inhibits AMINO ACYL TRNA binding during protein synthesis.
eravacyclineeravacycline: has antibacterial activitytetracyclines
selinexorselinexor: inhibits karyopherin XPO1
PF-06446846PF-06446846 : A triazolopyridine that is 3H-[1,2,3]triazolo[4,5-b]pyridine substituted by a 4-{(3-chloropyridin-2-yl)[(3R)-piperidin-3-yl]carbamoyl}phenyl group at position 3. It is a potent inhibitor of PCSK9.

PF-06446846: inhibits translation of PCSK9 ;structure in first source
benzamides;
monochloropyridine;
piperidines;
tertiary carboxamide;
triazolopyridine
antilipemic drug;
EC 3.4.21.61 (kexin) inhibitor