Organisms dead box rna helicases. Medical search. Frequent questions

DEAD box proteins, characterized by the conserved motif Asp-Glu-Ala-Asp, are putative RNA helicases. (thermofisher.com)

The DEAH and SKI2 families have had proteins that have been identified to be related to the DEAD box family. (wikipedia.org)
DEAD box, DEAH, and the SKI2 families are collectively referred to as DExD/H proteins. (wikipedia.org)
It is thought that each family has a specific role in RNA metabolism, for example both DEAD box and DEAH box proteins NTPase activities become stimulated by RNA, but DEAD box proteins use ATP and DEAH does not. (wikipedia.org)
As shown in the figure, DEAD box proteins are needed in the initial steps of spliceosome formation, while DEAH box proteins are indirectly required for the transesterifications, release of the mRNA, and recycling of the spliceosome complex9. (wikipedia.org)
DDX3X DEAD/DEAH box helicase RNA helicase Walker A motif Johnson, E. R. (wikipedia.org)
Low temperature-adapted microorganisms have strategies to grow at cold temperatures such as the production of cold acclimation proteins, DEAD/DEAH box helicases, and compatible solutes plus increasing their cellular membrane fluidity. (diva-portal.org)

The eIF4A translation initiation factor was the first DEAD box protein found to have a RNA dependent ATPase activity. (wikipedia.org)
Ded1 is another DEAD box protein that is also needed for translation initiation, but its exact role in this process is still obscure. (wikipedia.org)
Vasa, a DEAD box protein highly related to Ded1 plays a part in translation initiation by interacting with eukaryotic initiation factor 2 (eIF2). (wikipedia.org)
Activities of the DEAD box (Asp-Glu-Ala-Asp) family of proteins- including RNA-dependent ATPase and RNA helicase- function in all organisms to sculpt RNA-RNA duplex and RNA-protein complexes, ensuring that necessary rearrangements are rapidly and properly resolved during genetic information processing. (gsu.edu)
DDX43 (also called cancer/testis antigen 13, or DEAD box protein HAGE, or helical antigen) displays tumor-specific expression. (nih.gov)
DDX53 (also called cancer-associated gene protein, or cancer/testis antigen 26, or DEAD box protein CAGE) shows high expression level in various tumors and is involved in anti-cancer drug resistance. (nih.gov)
Ded1 is an RNA helicase protein of the DEAD-box subfamily in eukaryotic organisms (Sharma & Jankowsky, 2014) which can act as an activator or initiation factor, during translation (Hilliker et al. (richmond.edu)
Our goal is to determine whether the methylation of Ded1 has an effect on the resulting helicase ability of the protein, by comparing the helicase activity of unmethylated to methylated WT Ded1 using an in vitro helicase assay. (richmond.edu)
Background: The exon junction complex (EJC), which contains four core components, eukaryotic initiation factor 4AIII (eIF4AIII), MAGO/NASHI (MAGO), Y14/Tsunagi/RNA-binding protein 8A, and Barentsz/Metastatic lymph node 51, is formed in both nucleus and cytoplasm, and plays important roles in gene expression. (ncu.edu.tw)
The predicted NOM1 protein contains one MIF4G domain and one MA3 domain and, consistent with data obtained with other MIF4G/MA3 proteins, interacts with members of the eIF4A family of helicases. (umn.edu)
The goal of our research group is to elucidate the molecular mechanisms underlying the initiation phase of protein synthesis in eukaryotic organisms. (nih.gov)
and the 40S subunit- and RNA-binding protein eIF4B. (nih.gov)
The process is ATP-dependent and likely requires several RNA helicases, including the DEAD-box protein Ded1p. (nih.gov)
Targeting the distinct, 3' UTR of AtARP4 transcripts with RNA interference caused a drastic reduction in the level of AtARP4 protein expression, and resulted in strong pleiotropic phenotypes such as altered organization of plant organs, early flowering, delayed flower senescence and high levels of sterility. (or.jp)
In Fungi , it is formed by a RNA Helicase, Mtr4, in addition with a poly(A)polymerase, Trf4 or Trf5 and a RNA-binding zinc knuckle protein, Air1/2. (eu.org)
The TRAMP complex consists of a RNA helicase (MTR4), a poly(A)polymerase (Trf4 or Trf5) and a RNA-binding zinc knuckle protein (Air1 or Air2). (eu.org)
RNA polymerase-associated protein RapA (EC 3.6.4. (weizmann.ac.il)
Moreover, RNA-protein complexes (RNPs) provide glimpses at the molecular ancestry of modern cells, which most likely evolved from an RNA-dominated world. (fu-berlin.de)
In these processes, transcript-borne regulatory RNAs alone or in conjunction with protein factors assemble on the surface of RNAP and accompany the enzyme during further transcription by an RNA looping mechanism, rendering the elongation complex resistant to pause and/or termination signals downstream of the original modification site. (fu-berlin.de)
Thephyletic distribution of nucleolar protein domains in a collection of completeproteomes of selected organisms from all domains of life confirms thearchaebacterial origin of the core machinery for ribosome maturation andassembly, but also reveals substantial eubacterial and eukaryotic contributionsto nucleolus evolution. (embl-heidelberg.de)
This gene encodes a DEAD box protein, which is a homolog of VASA proteins in Drosophila and several other species. (thermofisher.com)
Studies of this DExD/H-box protein may provide a critical handle to understand how HCV replicates in the cell. (sinica.edu.tw)

DEAD box proteins are considered to be RNA helicases and many have been found to be required in cellular processes such as RNA metabolism, including nuclear transcription, pre mRNA splicing, ribosome biogenesis, nucleocytoplasmic transport, translation, RNA decay and organellar gene expression. (wikipedia.org)
Identified as a prototypic member of the DEAD box family and documented as an ATPase and RNA helicase, p68 plays essential and diverse functions in the control of gene expression ranging from pre-mRNA/rRNA processing and mRNA decay/stability to transcriptional activation and initiation. (gsu.edu)
These genes, encoding for RNA binding proteins, contain a highly conserved RNA recognition motif and at least one DAZ repeat encoding for a 24 amino acids sequence able to bind other mRNA binding proteins. (ijbs.com)
2011). Ded1 has several functions in yeast including assembly of translational initiation factors, scanning the mRNA for the start codon, and unwinding any double stranded segments of mRNA with its helicase ability. (richmond.edu)
In our studies of the role of the RNA-activated ATPase eIF4A in promoting mRNA recruitment to the PIC, we showed that the PIC itself activates the ATPase function of the factor over and above the stimulation provided by RNA. (nih.gov)
LOCUS BC012726 2824 bp mRNA linear HUM 11-DEC-2003 DEFINITION Homo sapiens DEAD (Asp-Glu-Ala-Asp) box polypeptide 31, mRNA (cDNA clone IMAGE:3941452), partial cds. (nig.ac.jp)
RNAs and proteins can also engage in more transient interactions, for example during co-transcriptional regulation of RNA polymerases or during post-transcriptional regulation of (pre-)mRNA life cycles. (fu-berlin.de)
We investigate the molecular mechanisms, by which RNAs and proteins cooperate to bring about the biological functions of selected RNPs involved in transcription and pre-mRNA splicing. (fu-berlin.de)
These proteins are involved in essentially all RNA-related biological processes such as mRNA splicing, ribosomal biogenesis, mRNA export, translation, and RNA turnover. (sinica.edu.tw)
These studies allowed us to define the functions of Dbp3p (60S ribosomal subunit biogenesis), Dbp5p (mRNA export), Ded1p (translation initiation), Dhh1p (RNA turnover), and Prp28p (pre-mRNA splicing). (sinica.edu.tw)

Differential RNA-dependent ATPase activities of four rRNA processing yeast DEAD-box proteins. (colorado.edu)

DEAD box proteins were first brought to attention in the late 1980s in a study that looked at a group of NTP binding sites that were similar in sequence to the eIF4A RNA helicase sequence. (wikipedia.org)
The results of this study showed that these proteins (p68, SrmB, MSS116, vasa, PL10, mammalian eIF4A, yeast eIF4A) involved in RNA metabolism had several common elements. (wikipedia.org)
MIF4G and MA3 domains serve as binding sites for one or more isoforms of the eIF4A family of ATP-dependent DEAD-box RNA helicases that are required for translation and for nonsense-mediated decay. (umn.edu)

Bacteria transcribe their genomes with the help of multi-subunit RNA polymerases (RNAPs), which comprise two large β and β' subunits that form the active site, two regulatory α subunits and an ω subunit that supports RNAP assembly. (fu-berlin.de)
A dominant negative mutant of the E. coli RNA helicase DbpA blocks assembly of the 50S ribosomal subunit. (colorado.edu)

However, DAZ is present only in higher primates, and no DAZ homolog is found in unicellular organisms. (ijbs.com)

Both DDX46 and DDX53 are members of the DEAD-box helicases, a diverse family of proteins involved in ATP-dependent RNA unwinding, needed in a variety of cellular processes including splicing, ribosome biogenesis and RNA degradation. (nih.gov)
The TRAMP complex is involved in exosome-mediated degradation of aberrant RNAs and RNA surveillance in the nucleus. (eu.org)
Oligo-adenylated tails are added to aberrant RNA substrates, thus marking them for degradation. (eu.org)

So far, troubleshooting has identified favorable conditions for RNA duplex annealing, and the current work is optimizing the subsequent unwinding kinetics of the helicase assay. (richmond.edu)

There are three DEAD box proteins in the yeast system, Sub2, Prp28, and Prp5, and have been proven to be required for in vivo splicing. (wikipedia.org)
However, recent advances in the field allowed discovering that mitophagy seems to be only slightly affected in PINK1 KO mice and flies, putting into question the physiological relevance of this pathway in vivo in the whole organism. (bvsalud.org)
The α 2 ββ'ω core enzyme cooperates with transcription factors and responds to signals on DNA templates and nascent RNAs to achieve full functionality in vivo . (fu-berlin.de)
It is now believed that the in vivo targets of DExD/H-box proteins are likely to be RNP complexes, rather than the RNA duplexes per se. (sinica.edu.tw)

Example of a Bypass Genetics Screen We have been studying the functions of the ubiquitous DExD/H-box proteins, which are often referred to as RNA helicases or RNA unwindases, in the budding yeast Saccharomyces cerevisiae and other organisms. (sinica.edu.tw)

These proteins have a highly conserved RNA recognition motif (RRM) for binding target mRNAs and at least one characteristic sequence of 24 amino acids, which are termed as DAZ repeats [ 1 ]. (ijbs.com)
The non-covalent binding of Trf4 ( P53632 ) and the DExH-helicase core of Mtr4 ( P47047 , PF00270 ) is mediated by the described motif, which is conserved in both Trf4 ( P53632 ) and Trf5 ( P48561 ) in Fungi . (eu.org)

DEAD box proteins are involved in an assortment of metabolic processes that typically involve RNAs, but in some cases also other nucleic acids. (wikipedia.org)

They are implicated in a number of cellular processes involving alteration of RNA secondary structure such as translation initiation, nuclear and mitochondrial splicing, and ribosome and spliceosome assembly. (thermofisher.com)

which is found in almost all organisms and which sometimes contains operon structures in bacterial genomes. (easyomics.org)

DEAD-box helicase DDX27 regulates 3' end formation of ribosomal 47S RNA and stably associates with the PeBoW-complex. (nih.gov)
Pausing and termination can be further modulated by elongation factors, such as N-utilization substances A and G. Some regulatory factors or RNAs can stably insulate RNAP from the destabilizing effects of terminators over long distances (processive anti-termination). (fu-berlin.de)

RNP-based processive anti-termination underlies the switching from immediate-early to delayed-early gene expression in other lambdoid phages as well as ribosomal RNA synthesis in Escherichia coli . (fu-berlin.de)

RNA processing and surveillance is a mechanisms closely regulated. (eu.org)

Database searches reveal that NOM1 homologs exist in several organisms and that at least two of these are essential genes. (umn.edu)

Many eukaryotic precursor messenger RNAs (pre-mRNAs) bear coding regions (exons) interspersed with non-coding intervening sequences (introns). (fu-berlin.de)

We have systematically examined the roles of a number of DExD/H-box proteins in yeast using a combination of genetic, molecular biological, biochemical, bioinformatic, and cell biological approaches. (sinica.edu.tw)

Thus, DExD/H-box proteins function most likely as "RNPases" to "re-configure" various RNP complexes during and upon their transcriptional birth, their processing and export to cytoplasm for translation, and their ultimate demise by RNA turnover. (sinica.edu.tw)
In short, DExD/H-box proteins play key roles in governing the itinerary and functionality of the genetic information packages, from cradle to grave. (sinica.edu.tw)
Last, but not least, we are also exploring the possibility that one of the cellular DExD/H-box proteins is required for hepatitis C virus (HCV) replication. (sinica.edu.tw)

RNA synthesis is terminated intrinsically, when the elongation complex transcribes a stable RNA hairpin followed by a uridine-rich stretch, or with the aid of transcription termination factor ρ. (fu-berlin.de)
Huang YH, Said N, Loll B, Wahl MC (2019) Structural basis for the function of SuhB as a transcription factor in ribosomal RNA synthesis. (fu-berlin.de)

Numerous fundamental cellular processes, including virtually every aspect of gene expression and regulation, depend on the cooperation of RNAs and proteins. (fu-berlin.de)

This investigation of the helicase ability of Ded1 will provide us with more knowledge of the downstream effects of Ded1 methylation. (richmond.edu)

To study the biological roles of OsRH2 and OsRH34 in rice, transgenic rice plants were generated by RNA interference. (ncu.edu.tw)

Specific RNAs and proteins associate to build up some of the most complex macromolecular machineries of living cells, such as ribosomes and spliceosomes, which mediate particular steps of gene expression. (fu-berlin.de)

Here we outline the current status of the viral evasion mechanism underlying the regulation of the cGAS-STING pathway, focusing on how post-transcriptional modifications, viral proteins, and non-coding RNAs involve innate immunity during viral infection, attempting to inspire new targets discovery and uncover potential clinical antiviral treatments. (frontiersin.org)

Many organisms, including humans, contain DEAD-box (SF2) helicases, which are involved in RNA metabolism. (wikipedia.org)

There were nine common sequences found to be conserved amongst the studied species, which is an important criterion of the DEAD box family. (wikipedia.org)
We found that the RNA localization pattern of pumilio ( pum1 ) is similar to the pattern described for a subset of maternal transcripts marking the posterior end of ascidian embryos. (biomedcentral.com)

Sleep-like states have been described in Drosophila and the mechanisms and factors that generate and define sleep-wake profiles in this model organism are being thoroughly investigated. (bvsalud.org)

Prp28 may have a role in recognizing the 5' splice site and does not display RNA helicase activity, suggesting that other factors must be present in order to activate Prp28. (wikipedia.org)
Enables RNA binding activity. (nih.gov)

Various DNA insulators have been identified or are postulated in many organisms, and the paradigmatic CTCF-dependent insulators are perhaps the best understood and most widespread in function. (biologists.com)

This family includes three members, Boule (or Boll ), Dazl (or Dazla ) and DAZ , encoding RNA binding proteins. (ijbs.com)

Based on the structure evidence that other KH-I superfamily members bind RNA/ssDNA. (nih.gov)

Anatomy1

Organisms2

Chemicals and Drugs21

Phenomena and Processes16

Information Science3

Putative1

DEAH6

Protein22

MRNA10

ATPase1

EIF4A3

Subunit2

Homolog1

Degradation3

Duplex1

Vivo4

Saccharomyces1

Motif2

Nucleic acids1

Ribosome1

Genomes1

Stably2

Escherichia1

Processing and surveillance1

Genes1

Exons1

Yeast1

DExD3

Transcription2

Cellular1

Methylation1

Interference1

Gene expression1

Pathway1

Metabolism1

Found2

Mechanisms1

Activity2

Function1

Family1

Bind1