نتائج البحث - "precursor cation specificity"

1

Academic Journal

Homology modelling.

المؤلفون: Janani Durairaj (10344975), Elena Melillo (10344978), Harro J. Bouwmeester (10344981), Jules Beekwilder (45525), Dick de Ridder (17852), Aalt D. J. van Dijk (8666520)

مصطلحات موضوعية: Biochemistry, Molecular Biology, Evolutionary Biology, Infectious Diseases, Plant Biology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Information Systems not elsewhere classified, reaction pathway selection, Sequence identity-based screening, STS sequence similarity, plant species, STS sequences, enzyme, plant sesquiterpene synthases Sesqu., Integrating structure-based machine, precursor cation formation, precursor cation specificity

Relation: https://figshare.com/articles/journal_contribution/Homology_modelling_/14263449

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008197.s001

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2

Academic Journal

Fragmentation patterns.

المؤلفون: Janani Durairaj (10344975), Elena Melillo (10344978), Harro J. Bouwmeester (10344981), Jules Beekwilder (45525), Dick de Ridder (17852), Aalt D. J. van Dijk (8666520)

مصطلحات موضوعية: Biochemistry, Molecular Biology, Evolutionary Biology, Infectious Diseases, Plant Biology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Information Systems not elsewhere classified, reaction pathway selection, Sequence identity-based screening, STS sequence similarity, plant species, STS sequences, enzyme, plant sesquiterpene synthases Sesqu., Integrating structure-based machine, precursor cation formation, precursor cation specificity

Relation: https://figshare.com/articles/journal_contribution/Fragmentation_patterns_/14263452

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008197.s002

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3

Academic Journal

Predicted nerolidyl percentages.

المؤلفون: Janani Durairaj (10344975), Elena Melillo (10344978), Harro J. Bouwmeester (10344981), Jules Beekwilder (45525), Dick de Ridder (17852), Aalt D. J. van Dijk (8666520)

مصطلحات موضوعية: Biochemistry, Molecular Biology, Evolutionary Biology, Infectious Diseases, Plant Biology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Information Systems not elsewhere classified, reaction pathway selection, Sequence identity-based screening, STS sequence similarity, plant species, STS sequences, enzyme, plant sesquiterpene synthases Sesqu., Integrating structure-based machine, precursor cation formation, precursor cation specificity

Relation: https://figshare.com/articles/journal_contribution/Predicted_nerolidyl_percentages_/14263458

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008197.s004

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4

Academic Journal

Residue importance scores.

المؤلفون: Janani Durairaj (10344975), Elena Melillo (10344978), Harro J. Bouwmeester (10344981), Jules Beekwilder (45525), Dick de Ridder (17852), Aalt D. J. van Dijk (8666520)

مصطلحات موضوعية: Biochemistry, Molecular Biology, Evolutionary Biology, Infectious Diseases, Plant Biology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Information Systems not elsewhere classified, reaction pathway selection, Sequence identity-based screening, STS sequence similarity, plant species, STS sequences, enzyme, plant sesquiterpene synthases Sesqu., Integrating structure-based machine, precursor cation formation, precursor cation specificity

Relation: https://figshare.com/articles/journal_contribution/Residue_importance_scores_/14263461

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008197.s005

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5

Academic Journal

Predicted contacts from co-evolutionary analysis.

المؤلفون: Janani Durairaj (10344975), Elena Melillo (10344978), Harro J. Bouwmeester (10344981), Jules Beekwilder (45525), Dick de Ridder (17852), Aalt D. J. van Dijk (8666520)

مصطلحات موضوعية: Biochemistry, Molecular Biology, Evolutionary Biology, Infectious Diseases, Plant Biology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Information Systems not elsewhere classified, reaction pathway selection, Sequence identity-based screening, STS sequence similarity, plant species, STS sequences, enzyme, plant sesquiterpene synthases Sesqu., Integrating structure-based machine, precursor cation formation, precursor cation specificity

Relation: https://figshare.com/articles/journal_contribution/Predicted_contacts_from_co-evolutionary_analysis_/14263464

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008197.s006

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6

Academic Journal

Alignment of discussed STSs.

المؤلفون: Janani Durairaj (10344975), Elena Melillo (10344978), Harro J. Bouwmeester (10344981), Jules Beekwilder (45525), Dick de Ridder (17852), Aalt D. J. van Dijk (8666520)

مصطلحات موضوعية: Biochemistry, Molecular Biology, Evolutionary Biology, Infectious Diseases, Plant Biology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Information Systems not elsewhere classified, reaction pathway selection, Sequence identity-based screening, STS sequence similarity, plant species, STS sequences, enzyme, plant sesquiterpene synthases Sesqu., Integrating structure-based machine, precursor cation formation, precursor cation specificity

Relation: https://figshare.com/articles/journal_contribution/Alignment_of_discussed_STSs_/14263467

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008197.s007

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7

Academic Journal

Classification framework.

المؤلفون: Janani Durairaj (10344975), Elena Melillo (10344978), Harro J. Bouwmeester (10344981), Jules Beekwilder (45525), Dick de Ridder (17852), Aalt D. J. van Dijk (8666520)

مصطلحات موضوعية: Biochemistry, Molecular Biology, Evolutionary Biology, Infectious Diseases, Plant Biology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Information Systems not elsewhere classified, reaction pathway selection, Sequence identity-based screening, STS sequence similarity, plant species, STS sequences, enzyme, plant sesquiterpene synthases Sesqu., Integrating structure-based machine, precursor cation formation, precursor cation specificity

Relation: https://figshare.com/articles/journal_contribution/Classification_framework_/14263473

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008197.s009

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8

Academic Journal

Citrus bergamia STS chromatograms.

المؤلفون: Janani Durairaj (10344975), Elena Melillo (10344978), Harro J. Bouwmeester (10344981), Jules Beekwilder (45525), Dick de Ridder (17852), Aalt D. J. van Dijk (8666520)

مصطلحات موضوعية: Biochemistry, Molecular Biology, Evolutionary Biology, Infectious Diseases, Plant Biology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Information Systems not elsewhere classified, reaction pathway selection, Sequence identity-based screening, STS sequence similarity, plant species, STS sequences, enzyme, plant sesquiterpene synthases Sesqu., Integrating structure-based machine, precursor cation formation, precursor cation specificity

Relation: https://figshare.com/articles/journal_contribution/_i_Citrus_bergamia_i_STS_chromatograms_/14263470

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008197.s008

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9

42 STSs characterized from August 2017-January 2020, used as an independent test set.

المؤلفون: Janani Durairaj (10344975), Elena Melillo (10344978), Harro J. Bouwmeester (10344981), Jules Beekwilder (45525), Dick de Ridder (17852), Aalt D. J. van Dijk (8666520)

مصطلحات موضوعية: Biochemistry, Molecular Biology, Evolutionary Biology, Infectious Diseases, Plant Biology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Information Systems not elsewhere classified, reaction pathway selection, Sequence identity-based screening, STS sequence similarity, plant species, STS sequences, enzyme, plant sesquiterpene synthases Sesqu., Integrating structure-based machine, precursor cation formation, precursor cation specificity

Relation: https://figshare.com/articles/dataset/42_STSs_characterized_from_August_2017-January_2020_used_as_an_independent_test_set_/14263455

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008197.s003

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10

Image

Characterized STSs visualized using the feature values of the cation-specific residues followed by dimensionality reduction using UMAP [23], which positions STSs with similar feature values closer to each other.

المؤلفون: Janani Durairaj (10344975), Elena Melillo (10344978), Harro J. Bouwmeester (10344981), Jules Beekwilder (45525), Dick de Ridder (17852), Aalt D. J. van Dijk (8666520)

مصطلحات موضوعية: Biochemistry, Molecular Biology, Evolutionary Biology, Infectious Diseases, Plant Biology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Information Systems not elsewhere classified, reaction pathway selection, Sequence identity-based screening, STS sequence similarity, plant species, STS sequences, enzyme, plant sesquiterpene synthases Sesqu., Integrating structure-based machine, precursor cation formation, precursor cation specificity

Relation: https://figshare.com/articles/figure/Characterized_STSs_visualized_using_the_feature_values_of_the_cation-specific_residues_followed_by_dimensionality_reduction_using_UMAP_23_which_positions_STSs_with_similar_feature_values_closer_to_each_other_/14263479

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008197.g002

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11

Image

The reaction mechanism of sesquiterpene production starts with farnesyl diphosphate (( E , E )-FPP).

المؤلفون: Janani Durairaj (10344975), Elena Melillo (10344978), Harro J. Bouwmeester (10344981), Jules Beekwilder (45525), Dick de Ridder (17852), Aalt D. J. van Dijk (8666520)

مصطلحات موضوعية: Biochemistry, Molecular Biology, Evolutionary Biology, Infectious Diseases, Plant Biology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Information Systems not elsewhere classified, reaction pathway selection, Sequence identity-based screening, STS sequence similarity, plant species, STS sequences, enzyme, plant sesquiterpene synthases Sesqu., Integrating structure-based machine, precursor cation formation, precursor cation specificity

Relation: https://figshare.com/articles/figure/The_reaction_mechanism_of_sesquiterpene_production_starts_with_farnesyl_diphosphate_i_E_i_i_E_i_-FPP_/14263476

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008197.g001

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12

Image

Fig 3 -

المؤلفون: Janani Durairaj (10344975), Elena Melillo (10344978), Harro J. Bouwmeester (10344981), Jules Beekwilder (45525), Dick de Ridder (17852), Aalt D. J. van Dijk (8666520)

مصطلحات موضوعية: Biochemistry, Molecular Biology, Evolutionary Biology, Infectious Diseases, Plant Biology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Information Systems not elsewhere classified, reaction pathway selection, Sequence identity-based screening, STS sequence similarity, plant species, STS sequences, enzyme, plant sesquiterpene synthases Sesqu., Integrating structure-based machine, precursor cation formation, precursor cation specificity

Relation: https://figshare.com/articles/figure/Fig_3_-/14263485

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008197.g003

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13

Image

Fig 4 -

المؤلفون: Janani Durairaj (10344975), Elena Melillo (10344978), Harro J. Bouwmeester (10344981), Jules Beekwilder (45525), Dick de Ridder (17852), Aalt D. J. van Dijk (8666520)

مصطلحات موضوعية: Biochemistry, Molecular Biology, Evolutionary Biology, Infectious Diseases, Plant Biology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Information Systems not elsewhere classified, reaction pathway selection, Sequence identity-based screening, STS sequence similarity, plant species, STS sequences, enzyme, plant sesquiterpene synthases Sesqu., Integrating structure-based machine, precursor cation formation, precursor cation specificity

Relation: https://figshare.com/articles/figure/Fig_4_-/14263488

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008197.g004

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14

The six structures used for multi-template modelling.

المؤلفون: Janani Durairaj (10344975), Elena Melillo (10344978), Harro J. Bouwmeester (10344981), Jules Beekwilder (45525), Dick de Ridder (17852), Aalt D. J. van Dijk (8666520)

مصطلحات موضوعية: Biochemistry, Molecular Biology, Evolutionary Biology, Infectious Diseases, Plant Biology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Information Systems not elsewhere classified, reaction pathway selection, Sequence identity-based screening, STS sequence similarity, plant species, STS sequences, enzyme, plant sesquiterpene synthases Sesqu., Integrating structure-based machine, precursor cation formation, precursor cation specificity

Relation: https://figshare.com/articles/dataset/The_six_structures_used_for_multi-template_modelling_/14263491

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008197.t001

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15

Validation results of three classifiers.

المؤلفون: Janani Durairaj (10344975), Elena Melillo (10344978), Harro J. Bouwmeester (10344981), Jules Beekwilder (45525), Dick de Ridder (17852), Aalt D. J. van Dijk (8666520)

مصطلحات موضوعية: Biochemistry, Molecular Biology, Evolutionary Biology, Infectious Diseases, Plant Biology, Biological Sciences not elsewhere classified, Chemical Sciences not elsewhere classified, Information Systems not elsewhere classified, reaction pathway selection, Sequence identity-based screening, STS sequence similarity, plant species, STS sequences, enzyme, plant sesquiterpene synthases Sesqu., Integrating structure-based machine, precursor cation formation, precursor cation specificity

Relation: https://figshare.com/articles/dataset/Validation_results_of_three_classifiers_/14263494

الاتاحة: https://doi.org/10.1371/journal.pcbi.1008197.t002

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