Pre-binding of small protein B to a stalled ribosome triggers trans-translation.
Protein Binding, Protein Biosynthesis, RNA; Bacterial/*chemistry, RNA; Messenger/metabolism, RNA-Binding Proteins/metabolism/* ... Pre-binding of small protein B to a stalled ribosome triggers trans-translation.. Hallier, Marc ...http://uu.diva-portal.org/smash/record.jsf?pid=diva2:102123
Nuclear factor YY1 inhibits transforming growth factor beta- and bone morphogenetic protein-induced cell differentiation
Protein Binding, Protein Structure; Tertiary, RNA; Small Interfering/metabolism, Research Support; Non-U.S. Gov't, Reverse ... Smad proteins transduce transforming growth factor beta (TGF-beta) and bone morphogenetic protein (BMP) signals that regulate ... DNA-Binding Proteins/metabolism/*physiology, Dose-Response Relationship; Drug, Glutathione Transferase/metabolism, Humans, Mice ... YY1 inhibits binding of Smads to their cognate DNA elements in vitro and blocks Smad recruitment to the Smad-binding element- ...http://uu.diva-portal.org/smash/record.jsf?pid=diva2:101622
Increased expression of cellular RNA-binding proteins in HPV-induced neoplasia and cervical cancer
... whereas the superficial layers remained negative for all tested RNA-binding proteins. Expression of all RNA-binding proteins ... Increased expression of cellular RNA-binding proteins in HPV-induced neoplasia and cervical cancer. Fay, Joanna ... The expression profile of the RNA-binding proteins is similar to PCNA expression in histologically normal epithelium as well as ... The expression profile of a panel of RNA-binding proteins (heterogeneous ribonucleoprotein (hnRNP) A1, hnRNP C1/C2, hnRNP H, ...http://uu.diva-portal.org/smash/record.jsf?pid=diva2:300395
Our results show that HMGA2 is critical for normal expression of IGF2BP2, which encodes an RNA-binding protein. Finally, we ... the RNA-binding protein 28 (RBM28) was in closest proximity to leptin. We deduced the full-length of the RBM28 cDNA sequence ... whole-genome sequencing, RNA-seq, body size, IGF2BP2, mtDNA National Category Genetics Identifiers. urn:nbn:se:uu:diva-320763 ( ... Through RNA-Seq analyses, we identified 137 genes that are missing in chicken, including the long-sought-after nephrin and ...http://uu.diva-portal.org/smash/person.jsf?pid=authority-person%3A10766
A novel conserved RNA-binding domain protein, RBD-1, is essential for ribosome biogenesis
RNA Polymerase I/metabolism, RNA Processing; Post-Transcriptional, RNA; Ribosomal/metabolism, RNA-Binding Proteins/genetics/* ... RNA-binding domain-1 (RBD-1), that is involved in ribosome biogenesis. This protein contains six consensus RNA-binding domains ... A novel conserved RNA-binding domain protein, RBD-1, is essential for ribosome biogenesis. Björk, Petra ... Nuclear Proteins/genetics/*metabolism, Protein Structure; Tertiary, RNA Interference, ...http://uu.diva-portal.org/smash/record.jsf?pid=diva2:38173
Decreased expression of RNA-binding motif protein 3 correlates with tumour progression and poor prognosis in urothelial bladder...
Decreased expression of RNA-binding motif protein 3 correlates with tumour progression and poor prognosis in urothelial bladder ... BACKGROUND: Low nuclear expression of the RNA-binding motif protein 3 (RBM3) has previously been found to be associated with ...http://uu.diva-portal.org/smash/record.jsf?pid=diva2:621823
Changes in TDP-43 expression in development, aging, and in the neurofilament light protein knockout mouse
The transactive response DNA-binding protein 43 (TDP-43) has been identified as a neurofilament light (NF-L) messenger RNA ( ... Transactive response DNA-binding protein 43 (TDP-43), Neurofilament light (NF-L), Amyotrophic lateral sclerosis (ALS), ... mRNA)-binding protein. Abnormally increased levels of TDP-43 are detected in patients with amyotrophic lateral sclerosis and a ... we investigated whether the deficiency of NF-L protein can result in alterations in TDP-43 localization or protein expression ...http://uu.diva-portal.org/smash/record.jsf?pid=diva2:811429
Characterization of interactions between hepatitis C virus NS5B polymerase, annexin A2 and RNA - effects on NS5B catalysis and...
The RNA binding of the two proteins was independent and AnxA2 and NS5B interacted with different RNAs in ternary complexes of ... Annexin A2 (AnxA2) has been reported to co-precipitate with the non-structural (NS) HCV proteins NS5B and NS3/NS4A, indicating ... CONCLUSIONS: The complex interplay revealed between NS5B, AnxA2, RNA and filibuvir, suggests that AnxA2 may have an important ... Characterization of interactions between hepatitis C virus NS5B polymerase, annexin A2 and RNA - effects on NS5B catalysis and ...http://uu.diva-portal.org/smash/record.jsf?pid=diva2:1170189
Cycling of RNAs on Hfq
RNA chaperone, protein-RNA interaction, binding kinetics, sRNA-mediated regulation, RNA exchange National Category Natural ... Thus, transient binding of competitor RNA to Hfq-RNA complexes increases cycling rates and solves the strong binding/high ... In contrast, the changing pool of binding-competent RNAs must compete for access to this helper protein in a minute time frame ... requires a correspondingly rapid change in the pool of Hfq-bound RNAs. Biochemical studies have suggested tight binding of Hfq ...http://uu.diva-portal.org/smash/record.jsf?pid=diva2:645385
DiVA - Search result
The most significant functions of cellular RNA-binding proteins, previously shown to interact with the deregulated lncRNAs ... The novel RNAs may code for hitherto undetected proteins or alternatively spliced mRNAs for known proteins. The open reading ... The most heavily phosphorylated protein was the DNA binding protein (DBP) with 15 different sites. The phosphorylation ... pIIIa and ply proteins. The pin protein was found to be the most highly modified protein with now 18 verified sites of ...http://uu.diva-portal.org/smash/resultList.jsf?af=%5B%5D&aq=%5B%5B%7B%22journalId%22%3A%221955%22%7D%5D%5D&aqe=%5B%5D&aq2=%5B%5B%5D%5D&language=en&query=
DiVA - Sökresultat
Phosphorylation of SRSF1 on this site enhanced the RNA binding capacity of SRSF1 in vivo and reduced the protein's capacity to ... We show that the single WH2 motif containing protein thymosin β4 in part sequesters actin by binding its pointed end via a C- ... Human filamin A is a 280 kDa protein involved in actin-filament cross-linking. It is structurally divided into an actin-binding ... We conclude that PKA phosphorylation of SRSF1 at serine 119 regulates SFRS1-dependent RNA binding and processing but not its ...http://uu.diva-portal.org/smash/resultList.jsf?af=%5B%5D&aq=%5B%5B%7B%22organisationId%22%3A%221362%22%7D%5D%5D&aqe=%5B%5D&aq2=%5B%5B%5D%5D&language=sv&query=
Ribosomes lacking protein S20 are defective in mRNA binding and subunit association
Protein synthesis is a complex process performed by sophisticated cellular particles known as ribosomes. Although RNA ... Ribosomes lacking protein S20 are defective in mRNA binding and subunit association. Tobin, Christina Uppsala University, ... ribosome, protein synthesis, ribosomal proteins, translation initiation, ribosome biogenesis, fitness costs, compensatory ... Here, we examined the role of small subunit protein S20 in translation using both in vivo and in vitro techniques. By means of ...http://uu.diva-portal.org/smash/record.jsf?pid=diva2:374647
Different cleavage sites are aligned differently in the active site of M1 RNA, the catalytic subunit of Escherichia coli RNase...
Escherichia coli Proteins, Hydrolysis, Molecular Sequence Data, Nucleic Acid Conformation, RNA; Catalytic/genetics/*metabolism ... Base Sequence, Binding Sites, Catalysis, Cations; Divalent, Endoribonucleases/genetics/*metabolism, Escherichia coli/* ... RNA; Messenger/chemistry/*metabolism, RNA; Transfer/chemistry/metabolism, Ribonuclease P National Category Microbiology ... Different cleavage sites are aligned differently in the active site of M1 RNA, the catalytic subunit of Escherichia coli RNase ...http://uu.diva-portal.org/smash/record.jsf?pid=diva2:42681
DiVA - Search result
... and the HTH DNA-binding proteins, led us to propose the working hypothesis that thionins represent a new group of DNA-binding ... iron regulatory protein 1A) and stem-loop RNA structures referred to as IREs (iron responsive elements). mbn-dmfrn cell lines ... We found that the interaction between the two proteins is mediated by the binding of the C-terminus of megalin, which has a ... Ligatoxin B, a new cytotoxic protein with a novel helix-turn-helix DNA-binding domain from the mistletoe Phoradendron liga2002 ...http://uu.diva-portal.org/smash/resultList.jsf?af=%5B%5D&aq=%5B%5B%7B%22journalId%22%3A%221352%22%7D%5D%5D&aqe=%5B%5D&aq2=%5B%5B%5D%5D&language=en&query=
Targeting Infectious Disease : Structural and functional studies of proteins from two RNA viruses and Mycobacterium tuberculosis
The latter proved to be a stable framework for the design of inhibitors that extend from the cramped substrate-binding site and ... Targeting Infectious Disease: Structural and functional studies of proteins from two RNA viruses and Mycobacterium tuberculosis ... The high-resolution structure of the methyltransferase domain of the MODV NS5 protein (MTase(MODV)) was determined. The protein ... The approach also allowed the first design of an inhibitor that bridge both DXR substrate and co-factor binding sites, ...http://uu.diva-portal.org/smash/record.jsf?pid=diva2:610521
Significant pKa Perturbation of Nucleobases Is an Intrinsic Property of the Sequence Context in DNA and RNA
DNA stores our genetic code, whereas RNA is involved both in protein biosynthesis and catalysis. Various ligand-binding and ... Paper IX showed that the pKa values of the nucleobases in monomeric nucleotides can be used to show that a RNA-RNA duplex is ... This thesis is based on nine research publications (I - IX) on structure and reactivity of RNA vis-à-vis DNA. The DNA and RNA ... 1. Some Aspects of Physicochemical Properties of DNA and RNA. Open this publication in new window or tab ,,Some Aspects of ...http://uu.diva-portal.org/smash/record.jsf?pid=diva2:168032
Expression and purification of recombinant poly(A)-specific ribonuclease (PARN)
Further we show that the cap binding complex (CBC) inhibits PARN activity through a protein-protein interaction. To investigate ... We identified tryptophan 475, located within the RNA recognition motif (RRM) of PARN, as crucial for cap binding. A crystal ... A regulatory role in protein synthesis has been proposed for PARN based on its ability to bind the cap that is required for ... Tryptophan 475 binds the inverted 7-Me-guanosine residue through a stacking interaction. Involvement of the nuclease domain in ...http://uu.diva-portal.org/smash/record.jsf?pid=diva2:171828
Monoclonal antibody MX35 detects the membrane transporter NaPi2b (SLC34A2) in human carcinomas
... selective down-regulation of SLC34A2 gene expression by RNA interference and the resulting loss of mAb MX35 binding to MX35- ... We further show that NaPi2b in cancer cells is expressed on the cell surface as a heavily N-glycosylated protein, with evidence ... We report here that mAb MX35 recognizes the sodium-dependent phosphate transport protein 2b (NaPi2b) in human cancer cells. ... ovarian cancer, monoclonal antibody, MX35, protein sequence analysis, NaPi2b, tumor antigen, cancer immunotherapy National ...http://uu.diva-portal.org/smash/record.jsf?pid=diva2:43704
Identification of Divalent Metal Ion Binding Sites in RNA/DNA-Metabolizing Enzymes by Fe(II)-Mediated Hydroxyl Radical Cleavage
... mediated hydroxyl radical cleavage of proteins, Fenton reaction, Identification of divalent metal ion binding sites in proteins ... Protein kinase recognition motif, RNA/DNA-metabolizing enzymes National Category Biochemistry and Molecular Biology Identifiers ... 2014 (English)In: Handbook of RNA Biochemistry: Second, Completely Revised and Enlarged Edition / [ed] Roland K. Hartmann, ... 3′ exonuclease, 3′ exonucleolytic site of Escherichia coli DNA polymerase I, Bovine heart protein kinase A catalytic subunit, ...http://uu.diva-portal.org/smash/record.jsf?pid=diva2:1048377
Protein Folding Activity of the Ribosome (PFAR) : A Target for Antiprion Compounds
6AP and GA inhibit PFAR by competition with the protein substrates for the common binding sites on the domain V rRNA. PFAR ... Biochemical and genetic studies reveal that these compounds target ribosomal RNA (rRNA) and inhibit specifically the protein ... Protein Folding Activity of the Ribosome (PFAR): A Target for Antiprion Compounds. Banerjee, Debapriya Uppsala University, ... Thus, prions originate as protein folding problems. The discovery of yeast prion(s) and the development of a red-/white-colony ...http://uu.diva-portal.org/smash/record.jsf?pid=diva2:775067
Protein Expression Profiling of Cancer Biomarkers
Background: Anillin (ANLN), an actin-binding protein required for cytokinesis, has recently been presented as part of a ... The functional relevance of ANLN was investigated in two breast cancer cell lines using RNA interference. Results: High nuclear ... The special AT-rich sequence-binding protein 2 (SATB2), a nuclear matrix-associated transcription factor and epigenetic ... The Human Protein Atlas project is a Swedish research initiative that uses antibody-based proteomics for large scale protein ...http://uu.diva-portal.org/smash/record.jsf?pid=diva2:866185
DiVA - Search result
Kinetic Analysis of the RNA Cleavage of the oxetane modified Antisense-RNA Hybrid Duplex by RNase H.2002In: J. Chem. Soc. ... 3'-anthraniloyl adenosine (a mimic of 3'-teminal CCAOH of the aminoacyl-tRNAPhe) binds to EF-Tu*GTP in preference over 2'- ... the 3'-endo conformation in discriminating between correctly and incorrectly charged aminoacyl-tRNAPhe by EF-Tu during protein ... Measurement of nucleobase pKa values in model mononucleotides shows RNA-RNA duplexes to be more stable than DNA-DNA duplexes. ...http://uu.diva-portal.org/smash/resultList.jsf?dswid=-4800&af=%5B%22categoryId%3A11528%22%5D&p=1&fs=true&language=en&searchType=SIMPLE&query=&aq=%5B%5B%7B%22categoryId%22%3A%2211533%22%7D%5D%5D&aq2=%5B%5B%5D%5D&aqe=%5B%5D&noOfRows=50&sortOrder=author_sort_asc&sortOrder2=title_sort_asc&onlyFullText=false&sf=all
Vitamin B-12 repression of the btuB gene in Salmonella typhimurium is mediated via a translational control which requires...
RIBOSOME-BINDING-SITE; RNA SECONDARY STRUCTURE; HEAT-SHOCK RESPONSE; ESCHERICHIA-COLI; MESSENGER-RNA; BIOSYNTHETIC GENES; SIGMA ... Expression of the Salmonella typhimurium btuB gene, which encodes an outer membrane protein required for vitamin B-12 uptake, ...http://uu.diva-portal.org/smash/record.jsf?pid=diva2:112866
Regulation of Gene Expression in Multiple Myeloma Cells and Normal Fibroblasts : Integrative Bioinformatic and Experimental...
In presence of growth signals CGGBP1 is retained in the nuclei and exhibits enhanced Alu binding thus inhibiting RNA Polymerase ... CGGBP1 (CGG triplet repeat-binding protein 1) regulates cell proliferation, stress response,cytokinesis, telomeric integrity ... III binding on Alus. Hence we suggest a mechanism by which CGGBP1 orchestrates Alu RNA-mediated regulation of RNA Polymerase II ... We found that CGGBP1 binding affects global gene expression by RNA Polymerase II. This is mediated by Alu ...http://uu.diva-portal.org/smash/record.jsf?pid=diva2:757411
DiVA - Search result
RNA visible). Simulations of half-capsids of these viruses with no RNA present revealed that the binding sites of RNA ... The use of LIE in simplified binding free energy calculations to predict protein−ligand binding free energies is also discussed ... we predicted the localization of the unresolved RNA in the viruses. Both viruses showed a hot-spot for RNA binding at the S- ... can be disfavored by the electrostatic interactions with the surrounding protein. Explicit protein effects on transition states ...http://uu.diva-portal.org/smash/resultList.jsf?af=%5B%5D&aq=%5B%5B%7B%22journalId%22%3A%227533%22%7D%5D%5D&aqe=%5B%5D&aq2=%5B%5B%5D%5D&language=en&query=