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Showing 1 to 20 of 137 for “"ssDNA"”.
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A Kinetic Study of Anti-VEGF-A Polyclonal Antibodies and Anti-VEGF-A ssDNA Aptamers
… and diagnosis methods are aptamers. Aptamers are ssDNA, RNA or polypeptide constructs that function like active antibodies. Antibodies and aptamers both specifically bind to selected target molecules, and as such they enable the detection or targeting of the presence or absence of a specific …
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UNRAVELING THE MOLECULAR MECHANISM OF BRCA2-POLTETA INTERPLAY IN PREVENTING SSDNA GAP ACCUMULATION DURING DNA REPLICATION
… replication-associated single-stranded DNA (ssDNA) gaps, which lead us to explore the role of POLθ in repairing these gaps. By employing a novel POLθ polymerase inhibitor (POLθi), we reveal the crucial function of POLθ in filling ssDNA gaps. Treatment of BRCA1/2-deficient cells with POLθi …
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Single molecule force spectroscopy of single stranded DNA binding protein and Rep helicase
… proteins that protect single-stranded DNA (ssDNA) during genome maintenance. Escherichia coli SSB is a prototypical homo-tetrameric SSB protein that can wrap up to 65 nucleotides of ssDNA in one of its binding modes. Here we present mechanical studies of E. coli SSB bound to ssDNA using …
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Binding configurations of single-stranded DNA binding protein and their influence on DNA recombinase
… cleaves the newly-generated 5' end of the ssDNA. This process leaves the remaining ssDNA strand exposed to the surrounding environment and prone to nucleolytic and chemical attacks. Cells have evolved single-stranded DNA binding (SSB) proteins to wrap and protect this ssDNA. In E. coli, SSB …
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Fluorescence imaging of single molecule dynamics on long single stranded DNA
… DNA (dsDNA) or short single-stranded DNA (ssDNA). Here, a single molecule imaging approach for observing dynamics of proteins on long ssDNA of thousands of nucleotides in length is presented, with a detailed explanation on how to implement, operate and calibrate the hybrid instrument …
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Structural Studies of Two Sequence-General DNA -Binding Proteins
On the other hand, ssDNA-protein interaction is far less well understood than dsDNA-protein interactions. Gene V proteins from the filamentous phages are excellent systems for studying the interactions between protein and ssDNA. Some high resolution crystal structures were determined already. The …
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Evaluation and adaptation of molecular approaches for detection and characterization of viruses of the respiratory tract
… DNA (dsDNA, 48 kb), linear single stranded DNA (ssDNA, 3.6 kb), small circular dsDNA (2.6 kb) and a large circular dsDNA (8.6 kb) were used as representatives of different types of viral nucleic acids for the evaluation of phi29-amplification at limiting concentrations. Phi29-amplification of …
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Distinct Functions of POT1 in Telomere Protection and Length Regulation
… POT1 binds to telomeric single-stranded DNA (ssDNA), protecting chromosome ends from being detected as sites of DNA damage and negatively regulating telomere length. POT1 is composed of an N-terminal ssDNA-binding domain and a C-terminal protein-interaction domain. With regard to the latter, …
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Structural and Biochemical Investigation of the Molecular Mechanisms of DNA Response and Repair in Humans and <em>Escherichia coli</em>.
… A (RPA), the eukaryotic single-stranded DNA (ssDNA) binding protein, is a required factor for all major DNA metabolisms. Although much work has been done to elucidate the nature of the interaction between RPA and ssDNA currently there is no structural information on how the full-length protein …
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1. X-ray crystallographic analyses of the gene V protein from Ff bacteriophage, a single-stranded DNA-binding protein, and its Y41 mutants 2. X-ray crystallographic analyses of several anticancer drugs and their interactions with DNA
… Ff (M13, f1, fd) is a single-stranded DNA (ssDNA) binding protein which binds to ssDNA non-specifically and cooperatively. The structure of the wild-type protein has been determined and refined at 1.8A resolution (Skinner et al., (1994) Proc. Natl. Acad. Sci. USA. 91, 2071-2075). It is …
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XPD Helicase: Shifting the Inchworm Into Reverse
… This work characterizes XPD as a 5' to 3' ssDNA translocase that preferentially unwinds forked DNA substrates, contains an FeS cluster, binds to the ssDNA-dsDNA junction of forked substrates, and is capable of unwinding forked substrates up to 40 bps as a monomer in the presence of RPA2. I …
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Single stranded DNA: A new model system for single molecule polymer dynamics
… flexible polymers based on single stranded DNA (ssDNA). Using a biochemical synthesis scheme called rolling circle replication, long strands (>25 µm) of ssDNA containing “designer sequences” have been generated to prevent intramolecular base pairing. Polymer chains are synthesized with amine …
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1, Structural and Functional Studies of Human Replication Protein A; 2 DNA Damage Responses and DNA Repair Defects in Laminopathy-Based Premature Aging.
… protein A (RPA), a single-stranded DNA (ssDNA) binding protein, is essential for almost all DNA metabolic pathways. However, the role of RPA in nucleotide excision repair (NER), a DNA repair pathway for removing bulky DNA lesions, remains elusive. In this study, the binding of RPA to a …
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A label-free, fluorescence based assay for microarray
… in which different single-stranded DNA (ssDNA) molecules of known sequences are immobilized at specific spots. The immobilized ssDNA strands are called probes. In application, the chip is exposed to a solution containing ssDNA of unknown sequence, called targets, which are labeled with …
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CAPILLARY ELECTROPHORESIS ANALYSIS OF SINGLE-STRANDED DNA APTAMERS AND THEIR INTERACTIONS WITH PROTEIN TARGETS AND CARBON DOTS
… (CDs) could significantly change the mobility of ssDNA samples upon noncovalent interaction. Preliminary observations revealed substantial interactions between carbon dots and ssDNA, as evidenced by changes in fluorescence emission of labeled DNA samples, but further studies are needed to prove …
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Single-molecule study of the DNA helicase regulating genomic stability
… RecA protein effectively from single strand DNA (ssDNA) as it pulls the RecA-coated lagging strand from the DNA junction. Our observation provides plausible mechanistic explanation for how a helicase can protect stalled replication fork from uncontrolled recombination in vivo. PcrA is a …
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Single-Stranded Dna Scanning And Deamination With Single-Molecule Resolution
… resonance energy transfer (smFRET) to study ssDNA scanning and deamination by Apo3G and AID. Consistent with previous ensemble measurements, single-molecule trajectories exhibit short binders (<25 s) and long binders (25 s - 10 min), which are heterogeneously distributed for Apo3G and …
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Regulación de la rutas de tolerancia a daños replicativos dependientes de RAD6, RAD5 y RAD52 durante el ciclo celular en Saccharomyces cerevisiae
… completar post-replicativamente las lesiones de ssDNA generadas durante el bypass de la horquilla de replicación. Mientras que TLS requiere polimerasas especializadas capaces de incorporar un dNTP opuesto a la lesión y es propenso a errores, HR usa la cromatida hermana para reparar las lesiones …
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Determination of the molecular mechanism of cell-to-cell movement in squash leaf curl geminivirus
… MPs: a nuclear shuttle (BR1) to transport the ssDNA progeny as a BR1:ssDNA complex between the nuclear and cytoplasmic compartments; and a second MP (BL1) which functions to transport the BR1:ssDNA complexes across the cell wall into adjacent cells. I will show that this movement is coordinated …
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RAD51-MEDIATED ABASIC SITES PROTECTION PREVENTS REPLICATION FORK COLLAPSE.
… mechanisms by which AP sites are repaired within ssDNA to avoid catastrophic chromosomal breakage remain unclear. Genes encoding for some BER proteins are synthetically lethal with BRCA1/2, which are frequently mutated in several type of cancers, including ovarian and breast cancer. In this study, …
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