Page last updated: 2024-10-24
rRNA binding
Definition
Target type: molecularfunction
Binding to a ribosomal RNA. [GOC:jl]
Ribosomal RNA (rRNA) binding is a fundamental molecular function that plays a crucial role in protein synthesis. rRNA molecules, which are essential components of ribosomes, are responsible for catalyzing the formation of peptide bonds between amino acids. rRNA binding proteins, such as ribosomal proteins and translation factors, interact with specific regions of rRNA to facilitate various steps in the translation process.
The molecular function of rRNA binding encompasses several key aspects:
1. **Ribosome assembly:** rRNA binding proteins participate in the assembly of ribosomal subunits by interacting with rRNA and providing structural support. They help to fold and stabilize the rRNA molecule, ensuring the proper formation of the ribosome's functional structure.
2. **Translation initiation:** During translation initiation, rRNA binding proteins facilitate the binding of mRNA to the ribosome. They interact with the 5' cap of mRNA and guide it to the small ribosomal subunit, allowing the ribosome to initiate translation.
3. **Translation elongation:** During translation elongation, rRNA binding proteins contribute to the movement of the ribosome along the mRNA, as well as the recruitment of tRNA molecules carrying amino acids. They interact with the ribosome's A, P, and E sites, ensuring accurate codon-anticodon pairing and polypeptide chain elongation.
4. **Translation termination:** rRNA binding proteins are involved in the termination of translation by recognizing stop codons in mRNA and facilitating the release of the newly synthesized polypeptide chain from the ribosome.
5. **Regulation of translation:** rRNA binding proteins can regulate translation by influencing the accessibility of mRNA to the ribosome, affecting the rate of translation, and modulating the stability of mRNA transcripts.
6. **Ribosome biogenesis:** rRNA binding proteins are essential for the synthesis and processing of rRNA molecules. They participate in the transcription, modification, and maturation of rRNA, ensuring the proper formation of functional rRNA molecules.
Overall, rRNA binding is a complex and multifaceted molecular function that is essential for protein synthesis and cellular function. The precise interactions between rRNA binding proteins and rRNA molecules are crucial for the efficient and accurate translation of genetic information into proteins.'
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Proteins (52)
| Protein | Definition | Taxonomy |
|---|---|---|
| 50S ribosomal protein L25 | A large ribosomal subunit protein bL25 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P68919] | Escherichia coli K-12 |
| 30S ribosomal protein S21 | A small ribosomal subunit protein bS21 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P68679] | Escherichia coli K-12 |
| 50S ribosomal protein L5 | A large ribosomal subunit protein uL5 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P62399] | Escherichia coli K-12 |
| 50S ribosomal protein L22 | A large ribosomal subunit protein uL22 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P61175] | Escherichia coli K-12 |
| 50S ribosomal protein L4 | A large ribosomal subunit protein uL4 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P60723] | Escherichia coli K-12 |
| 50S ribosomal protein L24 | A large ribosomal subunit protein uL24 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P60624] | Escherichia coli K-12 |
| 50S ribosomal protein L3 | A large ribosomal subunit protein uL3 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P60438] | Escherichia coli K-12 |
| 50S ribosomal protein L2 | A large ribosomal subunit protein uL2 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P60422] | Escherichia coli K-12 |
| 50S ribosomal protein L18 | A large ribosomal subunit protein uL18 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0C018] | Escherichia coli K-12 |
| 30S ribosomal protein S17 | A small ribosomal subunit protein uS17 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0AG63] | Escherichia coli K-12 |
| 30S ribosomal protein S14 | A small ribosomal subunit protein uS14 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0AG59] | Escherichia coli K-12 |
| 50S ribosomal protein L6 | A large ribosomal subunit protein uL6 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0AG55] | Escherichia coli K-12 |
| 50S ribosomal protein L21 | A large ribosomal subunit protein bL21 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0AG48] | Escherichia coli K-12 |
| 30S ribosomal protein S15 | A small ribosomal subunit protein uS15 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0ADZ4] | Escherichia coli K-12 |
| 50S ribosomal protein L23 | A large ribosomal subunit protein uL23 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0ADZ0] | Escherichia coli K-12 |
| 50S ribosomal protein L16 | A large ribosomal subunit protein uL16 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0ADY7] | Escherichia coli K-12 |
| 50S ribosomal protein L14 | A large ribosomal subunit protein uL14 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0ADY3] | Escherichia coli K-12 |
| 30S ribosomal protein S8 | A small ribosomal subunit protein uS8 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0A7W7] | Escherichia coli K-12 |
| 30S ribosomal protein S5 | A small ribosomal subunit protein uS5 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0A7W1] | Escherichia coli K-12 |
| 30S ribosomal protein S4 | A 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 S3 | A small ribosomal subunit protein uS3 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0A7V3] | Escherichia coli K-12 |
| 30S ribosomal protein S20 | A small ribosomal subunit protein bS20 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0A7U7] | Escherichia coli K-12 |
| 30S ribosomal protein S19 | A small ribosomal subunit protein uS19 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0A7U3] | Escherichia coli K-12 |
| 30S ribosomal protein S18 | A small ribosomal subunit protein bS18 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0A7T7] | Escherichia coli K-12 |
| 30S ribosomal protein S13 | A small ribosomal subunit protein uS13 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0A7S9] | Escherichia coli K-12 |
| 30S ribosomal protein S12 | A small ribosomal subunit protein uS12 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0A7S3] | Escherichia coli K-12 |
| 30S ribosomal protein S11 | A small ribosomal subunit protein uS11 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0A7R9] | Escherichia coli K-12 |
| 50S ribosomal protein L31 | A large ribosomal subunit protein bL31 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0A7M9] | Escherichia coli K-12 |
| 50S ribosomal protein L29 | A large ribosomal subunit protein uL29 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0A7M6] | Escherichia coli K-12 |
| 50S ribosomal protein L28 | A large ribosomal subunit protein bL28 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0A7M2] | Escherichia coli K-12 |
| 50S ribosomal protein L27 | A large ribosomal subunit protein bL27 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0A7L8] | Escherichia coli K-12 |
| 50S ribosomal protein L20 | A large ribosomal subunit protein bL20 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0A7L3] | Escherichia coli K-12 |
| 50S ribosomal protein L1 | A large ribosomal subunit protein uL1 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0A7L0] | Escherichia coli K-12 |
| 50S ribosomal protein L19 | A large ribosomal subunit protein bL19 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0A7K6] | Escherichia coli K-12 |
| 50S ribosomal protein L11 | A large ribosomal subunit protein uL11 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0A7J7] | Escherichia coli K-12 |
| 50S ribosomal protein L10 | A large ribosomal subunit protein uL10 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P0A7J3] | Escherichia coli K-12 |
| 50S ribosomal protein L15 | A large ribosomal subunit protein uL15 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P02413] | Escherichia coli K-12 |
| 30S ribosomal protein S7 | A small ribosomal subunit protein uS7 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P02359] | Escherichia coli K-12 |
| 30S ribosomal protein S6 | A small ribosomal subunit protein bS6 that is encoded in the genome of Escherichia coli K-12. [PRO:DNx, UniProtKB:P02358] | Escherichia coli K-12 |
| 40S ribosomal protein S5 | A eukaryotic-type small ribosomal subunit protein uS7 that is encoded in the genome of human. [PRO:DNx, UniProtKB:P46782] | Homo sapiens (human) |
| 40S ribosomal protein S9 | A eukaryotic-type small ribosomal subunit protein uS4 that is encoded in the genome of human. [PRO:DNx, UniProtKB:P46781] | Homo sapiens (human) |
| Lysine-specific demethylase 2B | A lysine-specific demethylase 2B that is encoded in the genome of human. [PRO:DNx, UniProtKB:Q8NHM5] | Homo sapiens (human) |
| 2-5A-dependent ribonuclease | A 2-5A-dependent ribonuclease that is encoded in the genome of human. [PRO:DNx, UniProtKB:Q05823] | Homo sapiens (human) |
| 60S ribosomal protein L8 | A eukaryotic-type large ribosomal subunit protein uL2 that is encoded in the genome of human. [PRO:DNx, UniProtKB:P62917] | Homo sapiens (human) |
| 60S ribosomal protein L23a | A eukaryotic-type large ribosomal subunit protein uL23 that is encoded in the genome of human. [PRO:DNx, UniProtKB:P62750] | Homo sapiens (human) |
| 40S ribosomal protein S4, X isoform | A small ribosomal subunit protein eS4, X isoform that is encoded in the genome of human. [PRO:DNx, UniProtKB:P62701] | Homo sapiens (human) |
| 40S ribosomal protein S11 | A eukaryotic-type small ribosomal subunit protein uS17 that is encoded in the genome of human. [PRO:DNx, UniProtKB:P62280] | Homo sapiens (human) |
| 40S ribosomal protein S18 | A eukaryotic-type small ribosomal subunit protein uS13 that is encoded in the genome of human. [PRO:DNx, UniProtKB:P62269] | Homo sapiens (human) |
| 60S ribosomal protein L37 | A large ribosomal subunit protein eL37 that is encoded in the genome of human. [PRO:DNx, UniProtKB:P61927] | Homo sapiens (human) |
| 60S ribosomal protein L9 | A eukaryotic-type large ribosomal subunit protein uL6 that is encoded in the genome of human. [PRO:DNx, UniProtKB:P32969] | Homo sapiens (human) |
| 40S ribosomal protein S4, Y isoform 1 | A small ribosomal subunit protein eS4, Y isoform 1 that is encoded in the genome of human. [PRO:DNx, UniProtKB:P22090] | Homo sapiens (human) |
| Nucleophosmin | A nucleophosmin that is encoded in the genome of human. [PRO:DNx, UniProtKB:P06748] | Homo sapiens (human) |
Compounds (35)
| Compound | Definition | Classes | Roles |
|---|---|---|---|
| deferiprone | deferiprone : A member of the class of 4-pyridones that is pyridin-4(1H)-one substituted at positions 1 and 2 by methyl groups and at position 3 by a hydroxy group. A lipid-soluble iron-chelator used for treatment of thalassaemia. Deferiprone: A pyridone derivative and iron chelator that is used in the treatment of IRON OVERLOAD in patients with THALASSEMIA. | 4-pyridones | iron chelator; protective agent |
| imatinib | aromatic amine; benzamides; N-methylpiperazine; pyridines; pyrimidines | antineoplastic agent; apoptosis inducer; tyrosine kinase inhibitor | |
| chloramphenicol | Amphenicol: 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 |
| butylparaben | organic molecular entity | ||
| framycetin | framycetin : 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) | aminoglycoside | allergen; antibacterial drug; Escherichia coli metabolite |
| erythromycin | erythromycin : 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 | |
| neamine | neamine : 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 |
| florfenicol | florfenicol : 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 418 | antibiotic G 418: from Micromonospora rhodorangea | ||
| paromomycin | paromomycin : 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 |
| puromycin | puromycins | antiinfective 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 | |
| netilmicin | Netilmicin: Semisynthetic 1-N-ethyl derivative of SISOMYCIN, an aminoglycoside antibiotic with action similar to gentamicin, but less ear and kidney toxicity. | ||
| linezolid | acetamides; morpholines; organofluorine compound; oxazolidinone | antibacterial drug; protein synthesis inhibitor | |
| zithromax | azithromycin : 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 antibiotic | antibacterial drug; environmental contaminant; xenobiotic |
| pd 173955 | PD 173955: inhibits src family-selective tyrosine kinase; structure in first source | aryl sulfide; dichlorobenzene; methyl sulfide; pyridopyrimidine | tyrosine kinase inhibitor |
| tiamulin | tiamulin : 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 |
| hmr 3647 | |||
| vitexin | C-glycosyl compound; trihydroxyflavone | antineoplastic agent; EC 3.2.1.20 (alpha-glucosidase) inhibitor; plant metabolite; platelet aggregation inhibitor | |
| hyperoside | quercetin 3-O-beta-D-galactopyranoside : A quercetin O-glycoside that is quercetin with a beta-D-galactosyl residue attached at position 3. Isolated from Artemisia capillaris, it exhibits hepatoprotective activity. | beta-D-galactoside; monosaccharide derivative; quercetin O-glycoside; tetrahydroxyflavone | hepatoprotective agent; plant metabolite |
| myricetin | 7-hydroxyflavonol; hexahydroxyflavone | antineoplastic agent; antioxidant; cyclooxygenase 1 inhibitor; food component; geroprotector; hypoglycemic agent; plant metabolite | |
| ellagic acid | catechols; cyclic ketone; lactone; organic heterotetracyclic compound; polyphenol | antioxidant; EC 1.14.18.1 (tyrosinase) inhibitor; EC 2.3.1.5 (arylamine N-acetyltransferase) inhibitor; EC 2.4.1.1 (glycogen phosphorylase) inhibitor; EC 2.5.1.18 (glutathione transferase) inhibitor; EC 2.7.1.127 (inositol-trisphosphate 3-kinase) inhibitor; EC 2.7.1.151 (inositol-polyphosphate multikinase) inhibitor; EC 2.7.4.6 (nucleoside-diphosphate kinase) inhibitor; EC 2.7.7.7 (DNA-directed DNA polymerase) inhibitor; EC 5.99.1.2 (DNA topoisomerase) inhibitor; EC 5.99.1.3 [DNA topoisomerase (ATP-hydrolysing)] inhibitor; food additive; fungal metabolite; geroprotector; plant metabolite; skin lightening agent | |
| josamycin | acetate ester; aldehyde; disaccharide derivative; glycoside; macrolide antibiotic; tertiary alcohol; tertiary amino compound | antibacterial drug; metabolite | |
| bosutinib | 4-((2,4-dichloro-5-methoxyphenyl)amino)-6-methoxy-7-(3-(4-methyl-1-piperazinyl)propoxy)-3-quinolinecarbonitrile: a Src kinase inhibitor; structure in first source | aminoquinoline; aromatic ether; dichlorobenzene; N-methylpiperazine; nitrile; tertiary amino compound | antineoplastic agent; tyrosine kinase inhibitor |
| albocycline | albocycline: macrolide antibiotic isolated from Streptomyces bruneogriseus nov. sp. MCRL-0129; specifically anti-staphylococcal, including antibiotic-resistant strains; structure | macrolide | |
| evernimicin | |||
| gentamicin sulfate | |||
| gentamicin sulfate | |||
| crizotinib | crizotinib : A 3-[1-(2,6-dichloro-3-fluorophenyl)ethoxy]-5-[1-(piperidin-4-yl)pyrazol-4-yl]pyridin-2-amine that has R configuration at the chiral centre. The active enantiomer, it acts as a kinase inhibitor and is used for the treatment of patients with locally advanced or metastatic non-small cell lung cancer (NSCLC) Crizotinib: A piperidine and aminopyridine derivative that acts as an inhibitor of RECEPTOR PROTEIN-TYROSINE KINASES, including ANAPLASTIC LYMPHOMA KINASE (ALK) and HEPATOCYTE GROWTH FACTOR RECEPTOR (HGFR; c-Met). It is used in the treatment of NON-SMALL CELL LUNG CANCER. | 3-[1-(2,6-dichloro-3-fluorophenyl)ethoxy]-5-[1-(piperidin-4-yl)pyrazol-4-yl]pyridin-2-amine | antineoplastic agent; biomarker; EC 2.7.10.1 (receptor protein-tyrosine kinase) inhibitor |
| pristinamycin iib | virginiamycin M2: structure in first source | ||
| cem 101 | solithromycin: an antibacterial fluoroketolide; structure in first source | ||
| tetracycline | tetracycline : 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. | ||
| eravacycline | eravacycline: has antibacterial activity | tetracyclines | |
| 3-[[2-(2-pyridinyl)-6-(1,2,4,5-tetrahydro-3-benzazepin-3-yl)-4-pyrimidinyl]amino]propanoic acid | organonitrogen heterocyclic compound | ||
| ceritinib | ceritinib : A member of the class of aminopyrimidines that is 2,6-diamino-5-chloropyrimidine in which the amino groups at positions 2 and 6 are respectively carrying 2-methoxy-4-(piperidin-4-yl)-5-methylphenyl and 2-(isopropylsulfonyl)phenyl substituents. Used for the treatment of ALK-positive metastatic non-small cell lung cancer. ceritinib: an anaplastic lymphoma kinase inhibitor | aminopyrimidine; aromatic ether; organochlorine compound; piperidines; secondary amino compound; sulfone | antineoplastic agent; EC 2.7.10.1 (receptor protein-tyrosine kinase) inhibitor |
| PF-06446846 | PF-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 |