Page last updated: 2024-12-05

pseudouridine

Description Research Excerpts Clinical Trials Roles Classes Pathways Study Profile Bioassays Related Drugs Related Conditions Protein Interactions Research Growth Market Indicators

Pseudouridine (Ψ) is a naturally occurring nucleoside modification found in RNA molecules. It is a structural isomer of uridine, where the uracil base is linked to the ribose sugar through the C5 position instead of the N1 position. This isomerization results in a unique chemical structure that significantly alters the properties of the RNA molecule. Pseudouridine is widely studied for its potential therapeutic applications and its role in biological processes.'

Cross-References

ID SourceID
PubMed CID15047
CHEMBL ID3144027
CHEBI ID17802
SCHEMBL ID64635
MeSH IDM0017967

Synonyms (55)

Synonym
nsc 162405
7r0r6h6keg ,
unii-7r0r6h6keg
CHEBI:17802 ,
beta-pseudouridine
5-(beta-d-ribofuranosyl)uracil
5-(beta-d-ribofuranosyl)pyrimidine-2,4(1h,3h)-dione
(1s)-1,4-anhydro-1-(2,4-dioxo-1,2,3,4-tetrahydropyrimidin-5-yl)-d-ribitol
psi-uridine
beta-d-pseudouridine
uracil, 5-beta-d-ribofuranosyl- (6ci,7ci,8ci)
2,4(1h,3h)-pyrimidinedione, 5-beta-d-ribofuranosyl
d-ribitol, 1,4-anhydro-1-c-(1,2,3,4-tetrahydro-2,4-dioxo-5-pyrimidinyl)-, (1s)-
1445-07-4
pseudouridine ,
C02067
5-b-d-ribofuranosyl-uracil
SCHEMBL64635
AKOS022185210
5-((2s,3r,4s,5r)-3,4-dihydroxy-5-(hydroxymethyl)-tetrahydrofuran-2-yl)pyrimidine-2,4(1h,3h)-dione
W-201268
CHEMBL3144027
5-[(2s,3r,4s,5r)-3,4-dihydroxy-5-(hydroxymethyl)oxolan-2-yl]-1,2,3,4-tetrahydropyrimidine-2,4-dione
PTJWIQPHWPFNBW-GBNDHIKLSA-N
AC-32344
b-pseudouridine
5-((2s,3r,4s,5r)-3,4-dihydroxy-5-(hydroxymethyl)tetrahydrofuran-2-yl)pyrimidine-2,4(1h,3h)-dione
y-uridine
beta-delta-pseudouridine
5-(b-d-ribofuranosyl)uracil
b-d-pseudouridine
5-beta-delta-ribofuranosyl-uracil
5-(b-delta-ribofuranosyl)uracil
pseudo uridine
CS-0059468
HY-113061
5-(.beta.-d-ribofuranosyl)uracil
EX-A3663
Q420445
5-[(2s,3r,4s,5r)-3,4-dihydroxy-5-(hydroxymethyl)-oxolan-2-yl]-1h-pyrimidine-2,4-dione
AS-35037
P2396
(1s)-1,4-anhydro-1-(2,4-dioxo-1,2,3,4-tetrahydro-5-pyrimidinyl)-d-ribitol
FJF ,
5-[(2~{s},3~{r},4~{s},5~{r})-5-(hydroxymethyl)-3,4-bis(oxidanyl)oxolan-2-yl]-1~{h}-pyrimidine-2,4-dione
W-201269
A848547
?-pseudouridine
psi (synthetic)
5-(beta-d-ribofuranosyl)uracil (synthetic)
pseudouridine (synthetic)
P2939
5-beta-d-ribofuranosyl-2,4(1h,3h)-pyrimidinedione (synthetic)
(1s)-1,4-anhydro-1-(2,4-dioxo-1,2,3,4-tetrahydro-5-pyrimidinyl)-d-ribitol (synthetic)
BP-58830

Research Excerpts

Overview

Pseudouridine is a ubiquitous RNA modification and plays a crucial role in many biological processes. Its functions have remained elusive due to the difficulty of transcriptome-wide mapping. It is an important urinary cancer biomarker, especially in human colorectal cancer (CRC)

ExcerptReferenceRelevance
"Pseudouridine (Ψ) is an abundant mRNA modification in mammalian transcriptome, but its functions have remained elusive due to the difficulty of transcriptome-wide mapping. "( Interferon inducible pseudouridine modification in human mRNA by quantitative nanopore profiling.
Dai, Q; Dersh, D; Eren, AM; Huang, S; Katanski, CD; Lolans, K; Pan, T; Yewdell, J; Zhang, W, 2021
)
2.38
"Pseudouridine (Ψ) is an RNA base modification ubiquitously found in many types of RNAs. "( Destabilization of mutated human PUS3 protein causes intellectual disability.
Biela, A; Biela, M; Chmielewska, JJ; Chramiec-Głąbik, A; Dobosz, D; Dziembowska, M; Glatt, S; Gos, M; Jeżowski, J; Kościelniak, A; Kosińska, J; Kuzniewska, B; Laczmanska, I; Lin, TY; Nowak, J; Ploski, R; Rzonca-Niewczas, S; Smigiel, R, 2022
)
2.16
"Pseudouridine is a ubiquitous RNA modification and plays a crucial role in many biological processes. "( Predicting Pseudouridine Sites with Porpoise.
Guo, X; Li, F; Song, J, 2023
)
2.74
"Pseudouridine (Ψ) is an abundant post-transcriptional RNA modification in ncRNA and mRNA. "( Quantitative profiling of pseudouridylation landscape in the human transcriptome.
Jiang, Z; Li, K; Liu, W; Lu, B; Ma, Y; Peng, J; Yi, C; Zhang, M; Zhuang, Y, 2023
)
2.35
"Pseudouridine is a prevalent RNA modification, and its metabolic fate after RNA turnover was recently characterized in eukaryotes, in the plant Arabidopsis thaliana."( Structural basis for the substrate specificity and catalytic features of pseudouridine kinase from Arabidopsis thaliana.
Kim, SH; Rhee, S; Witte, CP, 2021
)
1.57
"Pseudouridine is a ubiquitous RNA modification type present in eukaryotes and prokaryotes, which plays a vital role in various biological processes. "( Porpoise: a new approach for accurate prediction of RNA pseudouridine sites.
Chen, J; Coin, LJM; Guo, X; Jin, P; Li, F; Song, J; Xiang, D, 2021
)
2.31
"Pseudouridine (Ψ) is an important urinary cancer biomarker, especially in human colorectal cancer (CRC). "( Tailor-Made Molecularly Imprinted Polymer for Selective Recognition of the Urinary Tumor Marker Pseudouridine.
Agrofoglio, LA; Favetta, P; Hall, AJ; Krstulja, A; Lettieri, S; Roy, V, 2017
)
2.12
"Pseudouridine [Ψ] is a frequent base modification in the ribosomal RNA [rRNA] and may be involved in the modulation of the conformational flexibility of rRNA helix-loop structures during protein synthesis. "( Pseudouridylation of 23S rRNA helix 69 promotes peptide release by release factor RF2 but not by release factor RF1.
Hetényi, C; Kipper, K; Liiv, A; Remme, J; Sild, S, 2011
)
1.81
"Pseudouridine is a modified nucleoside derived from the degradation of transfer ribonucleic acid. "( [Determination of pseudouridine in serum by high performance liquid chromatography].
Hu, Y; Liu, B; Tang, Q, 1997
)
2.07
"Pseudouridine (Psi) is an abundant modified nucleoside in RNA and a number of studies have shown that the presence of Psi affects RNA structure and function. "( Pseudouridine modification in Caenorhabditis elegans spliceosomal snRNAs: unique modifications are found in regions involved in snRNA-snRNA interactions.
Padgett, RW; Patton, JR, 2005
)
3.21
"Pseudouridine is a modified nucleoside derived from the degradation of some species of RNA, primarily transfer RNA, the level of which is elevated in biological fluids of tumor-bearing subjects. "( Serum pseudouridine as a biochemical marker in the development of AKR mouse lymphoma.
Bridges, S; Cimino, F; Colonna, A; Gurgo, C; Russo, T; Salvatore, F, 1984
)
2.19
"Pseudouridine (psi) is an outstanding nucleoside which is not rebuilt into the tRNA once the parent tRNA is broken down. "( Inhibition of glucose utilization in isolated rat soleus muscle by pseudouridine: implications for renal failure.
Dzúrik, R; Lajdová, I; Spustová, V, 1993
)
1.96
"Pseudouridine is a modified nucleoside derived from RNA catabolism; the concentration of this nucleoside is elevated in body fluids of both tumour-bearing and human immunodeficiency virus (HIV) infected patients. "( Pseudouridine for monitoring interferon treatment of patients with chronic hepatitis C.
Colonna, A; Costa, C; Guadagnino, V; Maiorano, A; Stamile, E, 1996
)
3.18
"Pseudouridine is a modified base found in all tRNA and rRNA. "( Attempted prebiotic synthesis of pseudouridine.
Dworkin, JP, 1997
)
2.02
"Pseudouridine (psi) is a unique nucleoside accumulated in the sera of renal failure (RF) patients. "( Pseudouridine excretion in healthy subjects and its accumulation in renal failure.
Dzúrik, R; Lajdová, I; Opatrný, K; Spustová, V, 1992
)
3.17

Effects

ExcerptReferenceRelevance
"Pseudouridine profiling has revealed many previously unknown sites of the RNA modification pseudouridine (Ψ) in cellular RNAs. "( Investigating Pseudouridylation Mechanisms by High-Throughput in Vitro RNA Pseudouridylation and Sequencing.
Gilbert, WV; Martinez, NM, 2021
)
2.06

Actions

Pseudouridine synthases catalyze the isomerization of uridine to pseudouridine in RNA molecules. The basis for recognition of the RNA sites or how they catalyze this reaction is unknown.

ExcerptReferenceRelevance
"Pseudouridine synthases catalyze formation of the most abundant modification of functional RNAs by site-specifically isomerizing uridines to pseudouridines. "( Pre-steady-state kinetic analysis of the three Escherichia coli pseudouridine synthases TruB, TruA, and RluA reveals uniformly slow catalysis.
Dobing, SR; Keffer-Wilkes, LC; Kothe, U; Wright, JR, 2011
)
2.05
"The pseudouridine synthases catalyze the isomerization of uridine to pseudouridine at particular positions in certain RNA molecules. "( Critical aspartic acid residues in pseudouridine synthases.
Mueller, EG; Paulson, JL; Ramamurthy, V; Spedaliere, CJ; Swann, SL, 1999
)
1.14
"The pseudouridine synthases catalyze the isomerization of uridine to pseudouridine in RNA molecules. "( Role of cysteine residues in pseudouridine synthases of different families.
Mueller, EG; Ramamurthy, V; Spedaliere, CJ; Swann, SL, 1999
)
1.15
"Pseudouridine synthases catalyze the isomerization of specific uridines to pseudouridine in a variety of RNAs, yet the basis for recognition of the RNA sites or how they catalyze this reaction is unknown. "( The structural basis for tRNA recognition and pseudouridine formation by pseudouridine synthase I.
Foster, PG; Huang, L; Santi, DV; Stroud, RM, 2000
)
2.01

Toxicity

ExcerptReferenceRelevance
" This study indicates that the structure of toxic RNAs has a significant role in controlling the onset of neuromuscular diseases."( Modifications to toxic CUG RNAs induce structural stability, rescue mis-splicing in a myotonic dystrophy cell model and reduce toxicity in a myotonic dystrophy zebrafish model.
Berglund, JA; Coonrod, LA; Copperman, J; deLorimier, E; Guenza, MG; Reister, EE; Sharma, K; Taber, A; Todd, PK, 2014
)
0.4

Dosage Studied

ExcerptRelevanceReference
" A good dose-response curve was observed in the range between 31."( Monoclonal antibody to pseudouridine used to develop a radioimmunoassay.
Amuro, Y; Fujioka, H; Hada, T; Higashino, K; Hirano, H; Nishino, T; Ohe, Y; Shin, S; Tamura, S, 1990
)
0.59
[information is derived through text-mining from research data collected from National Library of Medicine (NLM), extracted Dec-2023]

Roles (1)

RoleDescription
fundamental metaboliteAny metabolite produced by all living cells.
[role information is derived from Chemical Entities of Biological Interest (ChEBI), Hastings J, Owen G, Dekker A, Ennis M, Kale N, Muthukrishnan V, Turner S, Swainston N, Mendes P, Steinbeck C. (2016). ChEBI in 2016: Improved services and an expanding collection of metabolites. Nucleic Acids Res]

Drug Classes (1)

ClassDescription
pseudouridines
[compound class information is derived from Chemical Entities of Biological Interest (ChEBI), Hastings J, Owen G, Dekker A, Ennis M, Kale N, Muthukrishnan V, Turner S, Swainston N, Mendes P, Steinbeck C. (2016). ChEBI in 2016: Improved services and an expanding collection of metabolites. Nucleic Acids Res]

Pathways (6)

PathwayProteinsCompounds
Metabolism14961108
Nucleotide metabolism89125
Nucleotide salvage2128
Pyrimidine salvage913
Purine Degradation28
pseudouridine degradation08
pseudouridine degradation29

Bioassays (1)

Assay IDTitleYearJournalArticle
AID211074Binding affinity towards recombinant thymidine phosphorylase TP; Not available2003Bioorganic & medicinal chemistry letters, Jan-06, Volume: 13, Issue:1
Design of novel N-(2,4-dioxo-1,2,3,4-tetrahydro-thieno[3,2-d]pyrimidin-7-yl)-guanidines as thymidine phosphorylase inhibitors, and flexible docking to a homology model.
[information is prepared from bioassay data collected from National Library of Medicine (NLM), extracted Dec-2023]

Research

Studies (758)

TimeframeStudies, This Drug (%)All Drugs %
pre-1990180 (23.75)18.7374
1990's140 (18.47)18.2507
2000's151 (19.92)29.6817
2010's164 (21.64)24.3611
2020's123 (16.23)2.80
[information is prepared from research data collected from National Library of Medicine (NLM), extracted Dec-2023]

Market Indicators

Research Demand Index: 58.68

According to the monthly volume, diversity, and competition of internet searches for this compound, as well the volume and growth of publications, there is estimated to be very strong demand-to-supply ratio for research on this compound.

MetricThis Compound (vs All)
Research Demand Index58.68 (24.57)
Research Supply Index6.67 (2.92)
Research Growth Index4.70 (4.65)
Search Engine Demand Index99.96 (26.88)
Search Engine Supply Index2.00 (0.95)

This Compound (58.68)

All Compounds (24.57)

Study Types

Publication TypeThis drug (%)All Drugs (%)
Trials5 (0.64%)5.53%
Reviews73 (9.35%)6.00%
Case Studies3 (0.38%)4.05%
Observational1 (0.13%)0.25%
Other699 (89.50%)84.16%
[information is prepared from research data collected from National Library of Medicine (NLM), extracted Dec-2023]