المؤلفون: Laszlo Kondacs, Priyanka Parijat, Alexander J. A. Cobb, Thomas Kampourakis

مصطلحات موضوعية: Biophysics, Biochemistry, Medicine, Physiology, Pharmacology, Biotechnology, Virology, Chemical Sciences not elsewhere classified, Physical Sciences not elsewhere classified, thin filament structure, positively charged tail, positively charged residues, cardiac muscle contraction, fingolimod hydrophobic headgroup, cardiac troponin c, thin filaments acts, sp , nctnc – ctni, cardiac troponin, fingolimod derivatives, switch region, longer derivatives, contractile myofilaments, conformational change, biophysical characterization, better inhibitors

Relation: https://figshare.com/articles/journal_contribution/Synthesis_and_Biophysical_Characterization_of_Fingolimod_Derivatives_as_Cardiac_Troponin_Antagonists/25176766

الاتاحة: https://doi.org/10.1021/acsmedchemlett.3c00511.s001
https://figshare.com/articles/journal_contribution/Synthesis_and_Biophysical_Characterization_of_Fingolimod_Derivatives_as_Cardiac_Troponin_Antagonists/25176766

المؤلفون: Ryan E. Odstrcil, Prashanta Dutta, Jin Liu

مصطلحات موضوعية: Biophysics, Biochemistry, Medicine, Computational Biology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Physical Sciences not elsewhere classified, positively charged residues, closely packed cluster, nthl1 mutant demonstrates, stable ), closed, dna repair pathway, protein conformational changes, dna repair, conformational changes, unstable ), protein conformations, human nthl1, reaction coordinate, proteins rely, molecular mechanisms, many processes, linker could, genetic abnormalities, extremely challenging, enhanced sampling, better modulation

Relation: https://figshare.com/articles/journal_contribution/Enhanced_Sampling_for_Conformational_Changes_and_Molecular_Mechanisms_of_Human_NTHL1/25408368

الاتاحة: https://doi.org/10.1021/acs.jpclett.4c00161.s001

المؤلفون: Jinglin Fu (225092), Kaitlyn Nguyen (11914702)

مصطلحات موضوعية: Biophysics, Biochemistry, Molecular Biology, Pharmacology, Biotechnology, Cancer, Infectious Diseases, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Physical Sciences not elsewhere classified, throughput screening assays, positively charged residues, dynamic light scattering, negatively charged biopolymers, high enzyme concentrations, inhibited enzyme activities, enzyme activities, negative biopolymers, inhibited enzyme, peptides inhibited, reduce peptides, promiscuous peptides, promiscuous mechanisms, possibly due, peptides selected, noncompetitive kinetics, electrostatic interaction

Relation: https://figshare.com/articles/journal_contribution/Reduction_of_Promiscuous_Peptides-Enzyme_Inhibition_and_Aggregation_by_Negatively_Charged_Biopolymers/17948716

الاتاحة: https://doi.org/10.1021/acsabm.1c01128.s001

المؤلفون: Yutaka Mahana (11973522), Izuru Ohki (428890), Erik Walinda (4224364), Daichi Morimoto (4224361), Kenji Sugase (1686628), Masahiro Shirakawa (16613)

مصطلحات موضوعية: Biophysics, Biochemistry, Medicine, Cell Biology, Genetics, Molecular Biology, Developmental Biology, Cancer, Plant Biology, Physical Sciences not elsewhere classified, positively charged residues, main difference arises, epigenetic modification essential, recognize symmetrical methyl, containing dna complexes, canonical mbd structure, mammalian mbd domains, methylated dna recognition, mbd proteins work, cpg binding domain, methylated dna, containing dna, mbd domain, mammalian mbd, solution structure, epigenetic signals, cpg recognition, dna backbone, mammalian cells, binding properties

Relation: https://figshare.com/articles/journal_contribution/Structural_Insights_into_Methylated_DNA_Recognition_by_the_Methyl-CpG_Binding_Domain_of_MBD6_from_Arabidopsis_thaliana/18732570

الاتاحة: https://doi.org/10.1021/acsomega.1c04917.s001

المؤلفون: Liqun Zhang (115900)

مصطلحات موضوعية: Biophysics, Biochemistry, Cell Biology, Molecular Biology, Pharmacology, Computational Biology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Physical Sciences not elsewhere classified, two loop regions, thus forming clusters, positively charged residues, play important roles, order parameter calculations, form three pairs, lasting hydrogen bonds, 3 analogue binds, negatively charged pops, form hydrogen bonds, six cysteine residues, stable binding structure, stable binding sites, 3 dimers binding, popc bilayer mixing, 3 disrupting pip2, mixed lipid membrane, pops mixed bilayers, stable binding, bilayers mixed, mixed membrane

Relation: https://figshare.com/articles/journal_contribution/Interaction_of_Human_Defensin_Type_3_hBD-3_with_Different_PIP2-Containing_Membranes_a_Molecular_Dynamics_Simulation_Study/16563627

الاتاحة: https://doi.org/10.1021/acs.jcim.1c00805.s001

المؤلفون: Daniel E. Mattox (10043639), Chris Bailey-Kellogg (682345)

مصطلحات موضوعية: Biochemistry, Cell Biology, Biotechnology, Virology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, random forests demonstrated, potential mechanistic insight, generalized patterns learned, defined pockets enriched, 221 complementary physicochemical, glycan complex structures, univariable comparative analyses, structural data available, positively charged residues, novel mutations related, geometric features representing, binding site features, glycan interaction specificity, div >< p, bound glycans based, interactions highlighted specificity, fine specificity <, studying lectin specificity, studying specificity, glycan pairs, polar residues, novel approach, hemagglutinin interactions, global <

Relation: https://figshare.com/articles/journal_contribution/UniLectin3D-assigned_IUPAC_glycan_names_within_the_terminal_NeuAc_group_of_glycans_/16754697

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009470.s015

المؤلفون: Daniel E. Mattox (10043639), Chris Bailey-Kellogg (682345)

مصطلحات موضوعية: Biochemistry, Cell Biology, Biotechnology, Virology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, random forests demonstrated, potential mechanistic insight, generalized patterns learned, defined pockets enriched, 221 complementary physicochemical, glycan complex structures, univariable comparative analyses, structural data available, positively charged residues, novel mutations related, geometric features representing, binding site features, glycan interaction specificity, div >< p, bound glycans based, interactions highlighted specificity, fine specificity <, studying lectin specificity, studying specificity, glycan pairs, polar residues, novel approach, hemagglutinin interactions, global <

Relation: https://figshare.com/articles/journal_contribution/UniLectin3D-assigned_IUPAC_glycan_names_within_the_terminal_fucose_group_of_glycans_/16754703

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009470.s017

المؤلفون: Daniel E. Mattox (10043639), Chris Bailey-Kellogg (682345)

مصطلحات موضوعية: Biochemistry, Cell Biology, Biotechnology, Virology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, random forests demonstrated, potential mechanistic insight, generalized patterns learned, defined pockets enriched, 221 complementary physicochemical, glycan complex structures, univariable comparative analyses, structural data available, positively charged residues, novel mutations related, geometric features representing, binding site features, glycan interaction specificity, div >< p, bound glycans based, interactions highlighted specificity, fine specificity <, studying lectin specificity, studying specificity, glycan pairs, polar residues, novel approach, hemagglutinin interactions, global <

Relation: https://figshare.com/articles/journal_contribution/UniLectin3D-assigned_IUPAC_glycan_names_within_the_high_mannose_group_of_glycans_/16754700

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009470.s016

المؤلفون: Xinyue Qiao (10738108), Liang Qu (651440), Yan Guo (83742), Tyuji Hoshino (597500)

مصطلحات موضوعية: Biophysics, Biochemistry, Medicine, Biotechnology, Immunology, Cancer, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, negatively charged ones, 12 complex models, 100 ns simulation, three typical complexes, previous studies examined, positively charged residues, amino acid residues, diverse molecular conformations, accurate molecular detection, antigen residues contributing, binding score indicated, noncharged polar residues, charged polar residues, antibodies among helix, four secondary structures, interfacial antigen residues, antibody recognition mechanism, interfacial structures, secondary structures, antibodies antibodies, antigen molecules, many studies

Relation: https://figshare.com/articles/journal_contribution/Secondary_Structure_and_Conformational_Stability_of_the_Antigen_Residues_Making_Contact_with_Antibodies/16759171

الاتاحة: https://doi.org/10.1021/acs.jpcb.1c05997.s001

المؤلفون: Ronak B. Gudhka (11546698), Mayank Vats (11546701), Camille L. Bilodeau (9327422), Scott A. McCallum (1450516), Mark A. McCoy (2177282), David J. Roush (10934270), Mark A. Snyder (260296), Steven M. Cramer (1569091)

مصطلحات موضوعية: Biophysics, Biochemistry, Medicine, Cell Biology, Pharmacology, Biotechnology, Computational Biology, Space Science, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Physical Sciences not elsewhere classified, focused hydrophobic region, gold nanoparticles functionalized, functionalized nanoparticles decreased, positively charged residues, molecular dynamics simulations, h , 150 mm salt, probing igg1 f, several aliphatic residues, density nanoparticles indicated, two multimodal cation, provided important insights, nonclustered ligand surfaces, multiple weak interactions, millimolar binding affinities, level binding affinities, 15 , capto ligand system, capto ligand nanoparticles

Relation: https://figshare.com/articles/journal_contribution/Probing_IgG1_F_sub_C_sub_Multimodal_Nanoparticle_Interactions_A_Combined_Nuclear_Magnetic_Resonance_and_Molecular_Dynamics_Simulations_Approach/16783348

الاتاحة: https://doi.org/10.1021/acs.langmuir.1c02114.s001

المؤلفون: Colin T, Mant, Ziqing, Jiang, Lajos, Gera, Tim, Davis, Robert S, Hodges

المصدر: Journal of medicinal chemistry and drug design

مصطلحات موضوعية: Acinetobacter baumannii, Gram-negative pathogen, Amphipathic α-helical peptides, Hemolytic activity, Polar face positively charged residues (D-Lys, L-Dab and L-Dap), Article, Antimicrobial peptides (AMPs), Specificity determinants

URL الوصول: https://explore.openaire.eu/search/publication?articleId=pmid________::2920425555f3305df06d5e6369c4bd0c
https://pubmed.ncbi.nlm.nih.gov/34377965

المؤلفون: du Plessis, David J. F., Nouwen, Nico, Driessen, Arnold J. M.

المصدر: du Plessis , D J F , Nouwen , N & Driessen , A J M 2011 , ' The Sec translocase ' , Biochimica et Biophysica Acta-Biomembranes , vol. 1808 , no. 3 , pp. 851-865 . https://doi.org/10.1016/j.bbamem.2010.08.016

مصطلحات موضوعية: SecA, SecYEG, YidC, Secretion, Membrane protein, SIGNAL-RECOGNITION PARTICLE, PROTEIN-CONDUCTING CHANNEL, COLI INNER MEMBRANE, PROTON MOTIVE FORCE, BACTERIAL CYTOPLASMIC MEMBRANE, POSITIVELY CHARGED RESIDUES, ENDOPLASMIC-RETICULUM MEMBRANE, LARGE CONFORMATIONAL-CHANGE, BACILLUS-SUBTILIS SECA, IN-VITRO TRANSLOCATION

الاتاحة: https://hdl.handle.net/11370/be6c1557-986a-4dbf-b596-9d84647e55f2
https://research.rug.nl/en/publications/be6c1557-986a-4dbf-b596-9d84647e55f2
https://doi.org/10.1016/j.bbamem.2010.08.016

المؤلفون: Daniel E. Mattox (10043639), Chris Bailey-Kellogg (682345)

مصطلحات موضوعية: Biochemistry, Cell Biology, Biotechnology, Virology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, random forests demonstrated, potential mechanistic insight, generalized patterns learned, defined pockets enriched, 221 complementary physicochemical, glycan complex structures, univariable comparative analyses, structural data available, positively charged residues, novel mutations related, geometric features representing, binding site features, glycan interaction specificity, div >< p, bound glycans based, interactions highlighted specificity, fine specificity <, studying lectin specificity, studying specificity, glycan pairs, polar residues, novel approach, hemagglutinin interactions, global <

Relation: https://figshare.com/articles/figure/Non-redundant_lectin_sequence_extraction_/16754658

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009470.s002

المؤلفون: Daniel E. Mattox (10043639), Chris Bailey-Kellogg (682345)

مصطلحات موضوعية: Biochemistry, Cell Biology, Biotechnology, Virology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, random forests demonstrated, potential mechanistic insight, generalized patterns learned, defined pockets enriched, 221 complementary physicochemical, glycan complex structures, univariable comparative analyses, structural data available, positively charged residues, novel mutations related, geometric features representing, binding site features, glycan interaction specificity, div >< p, bound glycans based, interactions highlighted specificity, fine specificity <, studying lectin specificity, studying specificity, glycan pairs, polar residues, novel approach, hemagglutinin interactions, global <

Relation: https://figshare.com/articles/figure/Histogram_of_the_counts_of_unique_lectins_within_each_homology_cluster_/16754661

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009470.s003

المؤلفون: Daniel E. Mattox (10043639), Chris Bailey-Kellogg (682345)

مصطلحات موضوعية: Biochemistry, Cell Biology, Biotechnology, Virology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, random forests demonstrated, potential mechanistic insight, generalized patterns learned, defined pockets enriched, 221 complementary physicochemical, glycan complex structures, univariable comparative analyses, structural data available, positively charged residues, novel mutations related, geometric features representing, binding site features, glycan interaction specificity, div >< p, bound glycans based, interactions highlighted specificity, fine specificity <, studying lectin specificity, studying specificity, glycan pairs, polar residues, novel approach, hemagglutinin interactions, global <

Relation: https://figshare.com/articles/dataset/Lectin_binding_sites_with_features_and_UniLectin3D_information_/16754655

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009470.s001

المؤلفون: Daniel E. Mattox (10043639), Chris Bailey-Kellogg (682345)

مصطلحات موضوعية: Biochemistry, Cell Biology, Biotechnology, Virology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, random forests demonstrated, potential mechanistic insight, generalized patterns learned, defined pockets enriched, 221 complementary physicochemical, glycan complex structures, univariable comparative analyses, structural data available, positively charged residues, novel mutations related, geometric features representing, binding site features, glycan interaction specificity, div >< p, bound glycans based, interactions highlighted specificity, fine specificity <, studying lectin specificity, studying specificity, glycan pairs, polar residues, novel approach, hemagglutinin interactions, global <

Relation: https://figshare.com/articles/figure/Occurrence_of_each_unique_glycan_ligand_across_groups_of_non-homologous_lectins_/16754664

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009470.s004

المؤلفون: Daniel E. Mattox (10043639), Chris Bailey-Kellogg (682345)

مصطلحات موضوعية: Biochemistry, Cell Biology, Biotechnology, Virology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, random forests demonstrated, potential mechanistic insight, generalized patterns learned, defined pockets enriched, 221 complementary physicochemical, glycan complex structures, univariable comparative analyses, structural data available, positively charged residues, novel mutations related, geometric features representing, binding site features, glycan interaction specificity, div >< p, bound glycans based, interactions highlighted specificity, fine specificity <, studying lectin specificity, studying specificity, glycan pairs, polar residues, novel approach, hemagglutinin interactions, global <

Relation: https://figshare.com/articles/figure/Glycan-specific_RF_model_training_performances_/16754670

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009470.s006

المؤلفون: Daniel E. Mattox (10043639), Chris Bailey-Kellogg (682345)

مصطلحات موضوعية: Biochemistry, Cell Biology, Biotechnology, Virology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, random forests demonstrated, potential mechanistic insight, generalized patterns learned, defined pockets enriched, 221 complementary physicochemical, glycan complex structures, univariable comparative analyses, structural data available, positively charged residues, novel mutations related, geometric features representing, binding site features, glycan interaction specificity, div >< p, bound glycans based, interactions highlighted specificity, fine specificity <, studying lectin specificity, studying specificity, glycan pairs, polar residues, novel approach, hemagglutinin interactions, global <

Relation: https://figshare.com/articles/figure/Glycan-specific_RF_model_training_performance_is_correlated_with_the_number_of_training_examples_/16754673

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009470.s007

المؤلفون: Daniel E. Mattox (10043639), Chris Bailey-Kellogg (682345)

مصطلحات موضوعية: Biochemistry, Cell Biology, Biotechnology, Virology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, random forests demonstrated, potential mechanistic insight, generalized patterns learned, defined pockets enriched, 221 complementary physicochemical, glycan complex structures, univariable comparative analyses, structural data available, positively charged residues, novel mutations related, geometric features representing, binding site features, glycan interaction specificity, div >< p, bound glycans based, interactions highlighted specificity, fine specificity <, studying lectin specificity, studying specificity, glycan pairs, polar residues, novel approach, hemagglutinin interactions, global <

Relation: https://figshare.com/articles/figure/Features_associated_with_6_vs_3_sialoglycans_and_compared_to_observed_associations_from_NeuAc_glycans_vs_all_other_glycans_/16754691

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009470.s013

المؤلفون: Daniel E. Mattox (10043639), Chris Bailey-Kellogg (682345)

مصطلحات موضوعية: Biochemistry, Cell Biology, Biotechnology, Virology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, random forests demonstrated, potential mechanistic insight, generalized patterns learned, defined pockets enriched, 221 complementary physicochemical, glycan complex structures, univariable comparative analyses, structural data available, positively charged residues, novel mutations related, geometric features representing, binding site features, glycan interaction specificity, div >< p, bound glycans based, interactions highlighted specificity, fine specificity <, studying lectin specificity, studying specificity, glycan pairs, polar residues, novel approach, hemagglutinin interactions, global <

Relation: https://figshare.com/articles/figure/Glycan-specific_median_RF_feature_importance_percentiles_within_pocket_features_/16754682

الاتاحة: https://doi.org/10.1371/journal.pcbi.1009470.s010