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DNA-binding protein

The Rice DNA-Binding Protein ZBED Controls Stress Regulators and Maintains Disease Resistance After a Mild Drought

The Rice DNA-Binding Protein ZBED Controls Stress Regulators and Maintains Disease Resistance After a Mild Drought

... rice protein increases tolerance against drought by scavenging reactive oxygen species (ROS) ( Xiong et ...mitogen-activated protein kinase (MAPK) from rice OsMAPK5 positively regulates drought, salt, and ...

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The Escherichia coli colibactin resistance protein ClbS is a novel DNA binding protein that protects DNA from nucleolytic degradation

The <em>Escherichia coli</em> colibactin resistance protein ClbS is a novel DNA binding protein that protects DNA from nucleolytic degradation

... biotinylated DNA for immobilization on the streptavidin sensor chip, plasmid pJBPL-A was used as a matrix DNA to amplify the 403 bp long DNA sequence (from Salmonella ...non-specific binding to ...

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The Mycobacterium tuberculosis Ser/Thr kinase substrate Rv2175c is a DNA-binding protein regulated by phosphorylation.

The Mycobacterium tuberculosis Ser/Thr kinase substrate Rv2175c is a DNA-binding protein regulated by phosphorylation.

... same conditions at pH 4.6, and a few chemical shift variations could be observed on the 1 H, 15 N HSQC spectrum recorded after treatment with the kinases (Fig. 7, A and B). Only the Thr 9 residue and its close neighbors ...

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TAR DNA-Binding protein 43 (TDP-43) regulates stress granule dynamics via differential regulation of G3BP and TIA-1

TAR DNA-Binding protein 43 (TDP-43) regulates stress granule dynamics via differential regulation of G3BP and TIA-1

... dynamic protein involved in other aspects of mRNA ...or protein-protein interactions. Furthermore, disruption of RNA/DNA binding ability, particularly by RRM1, can interfere with the ...

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Bound or free: interaction of the C-terminal domain of Escherichia coli single-stranded DNA-binding protein (SSB) with the tetrameric core of SSB.

Bound or free: interaction of the C-terminal domain of Escherichia coli single-stranded DNA-binding protein (SSB) with the tetrameric core of SSB.

... of binding found by the Gaussian chain model must be compared to the probability of finding the C-peptide in the binding site if the peptide concentration is uniform as in the a ffinity measurements performed ...

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MeCP2-E1 isoform is a dynamically expressed, weakly DNA-bound protein with different protein and DNA interactions compared to MeCP2-E2

MeCP2-E1 isoform is a dynamically expressed, weakly DNA-bound protein with different protein and DNA interactions compared to MeCP2-E2

... fluorescent protein) fusion proteins ...E1 protein level at 12 ...exposure. Protein levels were measured at different time points after depolarization (55 mM ...then, protein levels decrease ...

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Insights into the effect of the G245S single point mutation on the structure of p53 and the binding of the protein to DNA

Insights into the effect of the G245S single point mutation on the structure of p53 and the binding of the protein to DNA

... pivotal binding of p53 with the consensus site of the DNA, which is essential to maintaining the transcriptional activity of ...to DNA as a tetramer composed of four identical subunits [27], ...

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Heptose I glycan substitutions on Neisseria gonorrhoeae lipooligosaccharide influence C4b-binding protein binding and serum resistance

Heptose I glycan substitutions on Neisseria gonorrhoeae lipooligosaccharide influence C4b-binding protein binding and serum resistance

... While the proximal Glc on HepI was required for C4BP binding to Por1B strains, we observed that Por1A strain FA19 bound C4BP even when it lacked any HepI glycan substitution. The lgtF (HepI unsubstituted) mutant ...

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Convolutional neural network architectures for predicting DNA–protein binding

Convolutional neural network architectures for predicting DNA–protein binding

... 3.3 CNNs excel in capturing higher-order features The motif occupancy task is much harder than motif discovery, as we strictly matched the distribution of motif strength in the positive and negative set and therefore ...

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ALS-associated RNA-binding protein FUS and mRNA translation regulation

ALS-associated RNA-binding protein FUS and mRNA translation regulation

... Direct binding and co- localization of FUS and S6 would provide strong evidences of the interaction between them and would be a great adding to my ...RNA binding was essential for FUS to inhibit ...RNA ...

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Fast and accurate genome-scale identification of DNA-binding sites

Fast and accurate genome-scale identification of DNA-binding sites

... This comparison demonstrates the ability of MOTIF to search for complete sets of PWM motifs on the largest genomes much more efficiently than the fastest available solution and for a large range of parameter values. The ...

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Insights on protein-DNA recognition by coarse grain modelling.

Insights on protein-DNA recognition by coarse grain modelling.

... the protein DNA model to protein conformational variation, by carrying – out similar tests with structures of proteins that are not complexed with any DNA, keeping intact the conformation of ...

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Characterization of the Bacillus subtilis Penicillin-Binding Protein PBP4*

Characterization of the Bacillus subtilis Penicillin-Binding Protein PBP4*

... PBP4* protein was not significantly modified by the C-terminal domain deletion ( Figure 1(b) ...the protein harboring the C-terminal ...the protein lacking the C-terminal ...This protein has ...

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High Resolution Crystal Structures Leverage Protein Binding Affinity Predictions

High Resolution Crystal Structures Leverage Protein Binding Affinity Predictions

... Outlook. Estimating binding affinities is a central endeavor to understand protein - protein interactions. Strikingly, the predictive models and variables presented here yield a prediction accuracy ...

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Unexpected tricovalent binding mode of boronic acids within the active site of a penicillin binding protein.

Unexpected tricovalent binding mode of boronic acids within the active site of a penicillin binding protein.

... 257 Crystallography. Overall structures. R39 is a low-molecular- 258 weight type-4 PBP with a structure similar to those of E. coli PBP4 259 and B. subtilis PBP4a. 31,32 The asymmetric unit of R39 crystals 260 contains ...

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The transcription-coupled DNA repair-initiating protein CSB promotes XRCC1 recruitment to oxidative DNA damage

The transcription-coupled DNA repair-initiating protein CSB promotes XRCC1 recruitment to oxidative DNA damage

... of DNA damaging agents leading to various types of DNA le- sions. DNA damage contributes to genome instability and is associated with serious consequences for human health, including cancer, ...

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N6-methyl-adenine: an epigenetic signal for DNA-protein interactions.

N6-methyl-adenine: an epigenetic signal for DNA-protein interactions.

... E. coli lineages can inherit loci in different epigenetic states, a phenomenon reminiscent of genomic imprinting. In turn, differential regulation of IS 10 and traJ in sister DNA molecules 48,68 shows that ...

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Selective and Cooperative Ligand Binding to Antiparallel Human Telomeric DNA G-Quadruplexes

Selective and Cooperative Ligand Binding to Antiparallel Human Telomeric DNA G-Quadruplexes

... therefore seems essential for both the high affinity and high cooperativity of ligand binding. Next, to test the effect of the metal centre, we replaced copper by Zn, Pd or Pt (Figure S18). As known already from ...

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The bromodomain protein Brd4 insulates chromatin from DNA damage signalling

The bromodomain protein Brd4 insulates chromatin from DNA damage signalling

... to DNA damage signaling with protein-protein and kinase- substrate interactions collated from the ...literature. Protein-protein and kinase-substrate interactions shown by solid and ...

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Crystal structure of penicillin-binding protein 3 (PBP3) from Escherichia coli

Crystal structure of penicillin-binding protein 3 (PBP3) from Escherichia coli

... penicillin-binding protein; peptidoglycan; PBP3; ftsI Abstract: In Escherichia coli, penicillin-binding protein 3 (PBP3), also known as FtsI, is a central component of the divisome, catalyzing ...

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