Finding transcription factor binding motifs for coregulated genes by combining sequence overrepresentation with cross-species conservation by Jia, Hui., Li, Jinming.

“…Novel computational methods for finding transcription factor binding motifs have long been sought due to tedious work of experimentally identifying them. …”
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Structural characterization of the full-length Hantaan virus polymerase by Keown, JR, Carrique, L, Nilsson-Payant, BE, Fodor, E, Grimes, JM

“…We determine a series of structures at resolutions between 2.7 and 3.3 Å of RNA free polymerase comprising the core, core and endonuclease, and a full-length polymerase. The full-length polymerase structure depicts the location of the cap binding and C-terminal domains which are arranged in a conformation that is incompatible with transcription and in a novel conformation not observed in previous conformations of cap-snatching viral polymerases. …”

Evaluation of keratin templates on dermal regeneration of full-thickness burns by Moay, Zi Kuang

“…Full-thickness burns presents themselves as damages to both epidermis and dermis, and may affect the subcutaneous tissue, muscular, neurovascular, and skeletal structures. …”
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Structural and functional characterisation of the collagen binding domain of fibronectin by Millard, CJ

“…However, the presence of at least a single GlcNAc sugar residue on the second sugar chain site on 8Fn1 (N- linked to N511) is essential for full affinity binding to collagen. Direct binding of the 8Fn1-9Fn1 module pair to collagen is assessed with a short collagen peptide and the binding is monitored by NMR. …”

Structural basis of RNA binding by leucine zipper GCN4 by Nikolaev, Yaroslav, Pervushin, Konstantin

“…Further studies in the context of full-length bZIP factors are envisaged to address the biological relevance of LZ RNase activity.…”
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Binding modes of teixobactin to lipid ii : molecular dynamics study by Liu, Yang, Liu, Yaxin, Chan-Park, Mary Bee Eng, Mu, Yuguang

“…In agreement with experimental findings, the pyrophosphate group and the attached first sugar subunit of LII are found to be the minimal motif for stable TXB binding. …”
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Crystallographic details of the nucleotide-binding pocket of subunit A and B of A-ATP synthases and insight into the nucleotide-binding subunit α of the Escherichia coli F-ATP synt... by Vikeramjeet Singh Tadwal

“…A region that is critical for nucleotide binding in the A- and B-subunit of A-ATP synthases is the loop called as P-loop (phosphate-binding loop). …”
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Correlative light and electron microscopy of telomeric repeat-binding factor 1 in mammalian cells by von Otter, Eric

“…Telomeric chromatin consists of ‘TTAGGG’ DNA repeats sequences, nucleosomes and specific telomere-binding proteins called “shelterin”. Shelterin is a six-protein complex that is essential for genome stability. …”
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Impact of pyridyl moieties on the inhibitory properties of prominent acyclic metal chelators against metallo-β-lactamase-producing Enterobacteriaceae : investigating the molecular... by Sosibo, Sphelele C., Somboro, Anou M., Amoako, Daniel G., Osei Sekyere, John, Bester, Linda A., Ngila, Jane C., Sun, Darren Delai, Kumalo, Hezekiel M.

“…The findings revealed that the pyridyl group plays a vital role in the inhibitory activity of the tested molecules against CREs and should be exploited as potential MBL inhibitors.…”
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Conformational antibody binding to a native, cell-free expressed GPCR in block copolymer membranes by De Hoog, Hans-Peter M., Lin JieRong, Esther M., Banerjee, Sourabh, Décaillot, Fabien M., Nallani, Madhavan

“…The polymer-stabilized CXCR4 is readily immobilized onto biosensor chips for label-free binding analysis. Kinetic characterization using a conformationally sensitive antibody shows the receptor to exist in the correctly folded conformation, showing binding behaviour that is commensurate with heterologously expressed CXCR4.…”
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Alternative splicing in the DBD linker region of p63 modulates binding to DNA and iASPP in vitro by Lotz, R, Osterburg, C, Chaikuad, A, Weber, S, Akutsu, M, Machel, AC, Beyer, U, Gebel, J, Löhr, F, Knapp, S, Dobbelstein, M, Lu, X, Dötsch, V

“…Here we characterize the interaction of iASPP with p63 and show that it binds to the linker region between the DNA binding domain and the oligomerization domain. …”

Regulation of mRNA abundance by polypyrimidine tract-binding protein-controlled alternate 5′ splice site choice by Hamid, Fursham M., Makeyev, Eugene V.

“…Hps1 is essential for proper biogenesis of lysosome-related organelles and loss of its function leads to a disease called type 1 Hermansky-Pudlak Syndrome (HPS). We show that Ptbp1 promotes preferential utilization of the u5′ss giving rise to stable mRNAs encoding a full-length Hps1 protein, whereas bias towards d5′ss triggered by Ptbp1 down-regulation generates transcripts susceptible to nonsense-mediated decay (NMD). …”
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The SARS-CoV-2 nucleocapsid protein interferes with the full enzymatic activation of UPF1 and its interaction with UPF2 by Nuccetelli, V, Mghezzi-Habellah, M, Deymier, S, Roisin, A, Gérard-Baraggia, F, Rocchi, C, Coureux, P, Gouet, P, Cimarelli, A, Mocquet, V, Fiorini, F

“…Additionally, we showed that Np binds directly to UPF2, disrupting the formation of the UPF1/UPF2 complex essential for NMD progression. …”

Molecular insights into evolution, mutations and receptor-binding specificity of influenza A and B viruses from outpatients and hospitalized patients in Singapore by Ivan, Fransiskus Xaverius, Zhou, Xinrui, Lau, Suk Hiang, Rashid, Shamima, Teo, Jasmine S. M., Lee, Hong Kai, Koay, Evelyn S., Chan, Kwai Peng, Leo, Yee Sin, Chen, Mark I. Cheng, Kwoh, Chee Keong, Chow, Vincent T.

“…Furthermore, we observed a trend in which the HA proteins of influenza A/H3N2 and A/H1N1 exhibited enhanced ability to bind both avian and human host cell receptors. In contrast, the binding ability to each receptor was relatively stable for the HA of influenza B. …”
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21W.730-2 Expository Writing - Food for Thought: Writing and Reading about Food and Culture, Fall 2005 by Boiko, Karen

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Chronic oxidative stress promotes GADD34-mediated phosphorylation of the TAR DNA-binding protein TDP-43, a modification linked to neurodegeneration by Goh, Catherine Wenhui, Lee, Irene Chengjie, Sundaram, Jeyapriya Rajameenakshi, George, Simi Elizabeth, Yusoff, Permeen, Brush, Matthew Hayden, Sze, Newman Siu Kwan, Shenolikar, Shirish

“…In response to oxidative stress, but not ER stress, GADD34 recruited TDP-43, and enhanced cytoplasmic distribution and cysteine modifications of TDP-43 promoted its binding to GADD34. Arsenite also recruited a TDP-43 kinase, casein kinase-1ϵ (CK1ϵ), to GADD34. …”
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Induction of z-conformation in ribosomal RNA by Z-DNA binding domain Zα of the human double-stranded RNA deaminase I (ADAR1) by Zhao, Jing

“…Based on this finding, we proposed that the role of ZαADAR1 in binding to ribosomes and inhibiting translation is to recognize potentially Z-forming structures and/or induce localized structural transitions from A- to Z-conformations in ribosomal RNA. …”
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Nutraceuticals silybin B, resveratrol, and epigallocatechin-3 gallate-bind to cardiac muscle troponin to restore the loss of lusitropy caused by cardiomyopathy mutations in vitro,... by Yang, Z, Sheehan, AM, Messer, AE, Tsui, S, Sparrow, A, Redwood, C, Kren, V, Gould, IR, Marston, SB

“…Results: Silybin B, EGCG and resveratrol restored the phosphorylation-induced change in molecular dynamics to wild-type values, whilst silybin A, an inactive isomer of silybin B, and Epicatechin gallate, an EGCG analogue that does not recouple, did not. …”

Myopathy-causing Q147P TPM2 mutation shifts tropomyosin strands further towards the open position and increases the proportion of strong-binding cross-bridges during the ATPase cyc... by Karpicheva, OE, Simonyan, AO, Kuleva, NV, Redwood, CS, Borovikov, YS

“…Despite its reduced affinity for actin in co-sedimentation assay, the Q147P mutant incorporates into the muscle fiber. However, compared to wild-type tropomyosin, it locates closer to the center of the actin filament. …”

The role of growth factor receptor bound protein 2 (GRB2) in gain of function of mutant p53. by Lau, Sok Ting.

“…In this study, GRB2, a binding partner of mutant p53 was explored to uncover its role in mutant p53 “gain-of-function”. …”
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