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Academic Journal

Benchmarking inverse folding models for antibody CDR sequence design.

Authors : Li Y; BioMap Research, Haidian District, Beijing, China.; Lang Y

Subjects: Complementarity Determining Regions*/Complementarity Determining Regions*/Complementarity Determining Regions*/chemistry ; Complementarity Determining Regions*/Complementarity Determining Regions*/Complementarity Determining Regions*/genetics ; Protein Folding*

Source: PloS one [PLoS One] 2025 Jun 04; Vol. 20 (6), pp. e0324566. Date of Electronic Publication: 2025 Jun 04 (Print Publisher: Public Library of Science Country of Publication: United States NLM ID: 101285081 Publication Model: eCollection Cited Medium: Internet

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Academic Journal

Conserved domains and structural motifs that differentiate closely related Rex1 and Rex3 DEDDh exoribonucleases are required for their function in yeast.

Authors : Daniels PW; School of Biosciences, The University of Sheffield, Sheffield, United Kingdom.; Kelly S

Subjects: Saccharomyces cerevisiae*/Saccharomyces cerevisiae*/Saccharomyces cerevisiae*/enzymology ; Saccharomyces cerevisiae*/Saccharomyces cerevisiae*/Saccharomyces cerevisiae*/genetics ; Saccharomyces cerevisiae*/Saccharomyces cerevisiae*/Saccharomyces cerevisiae*/metabolism

Source: PloS one [PLoS One] 2025 Jun 02; Vol. 20 (6), pp. e0321120. Date of Electronic Publication: 2025 Jun 02 (Print Publisher: Public Library of Science Country of Publication: United States NLM ID: 101285081 Publication Model: eCollection Cited Medium: Internet

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Academic Journal

Two different and robustly modeled DNA binding modes of Competence Protein ComP - systematic modeling with AlphaFold 3, RoseTTAFold2NA, Chai-1 and re-docking in HADDOCK.

Authors : Helsem SA; Department of Life Sciences and Health, Faculty of Health Sciences, OsloMet, Oslo, Norway.; Alfsnes K

Subjects: Bacterial Proteins*/Bacterial Proteins*/Bacterial Proteins*/metabolism ; Bacterial Proteins*/Bacterial Proteins*/Bacterial Proteins*/chemistry ; DNA-Binding Proteins*/DNA-Binding Proteins*/DNA-Binding Proteins*/chemistry

Source: PloS one [PLoS One] 2025 May 08; Vol. 20 (5), pp. e0315160. Date of Electronic Publication: 2025 May 08 (Print Publisher: Public Library of Science Country of Publication: United States NLM ID: 101285081 Publication Model: eCollection Cited Medium: Internet

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Academic Journal

Coevolution in human small Heat Shock Protein 1 is promoted by interactions between the Alpha-Crystallin domain and the disordered regions.

Authors : Racigh V; Departamento de Ciencia y Tecnología, Universidad Nacional de Quilmes, Bernal, Argentina.; Rodriguez Sawicki L

Subjects: Evolution, Molecular* ; alpha-Crystallins*/alpha-Crystallins*/alpha-Crystallins*/metabolism ; alpha-Crystallins*/alpha-Crystallins*/alpha-Crystallins*/chemistry

Source: PloS one [PLoS One] 2025 May 05; Vol. 20 (5), pp. e0321163. Date of Electronic Publication: 2025 May 05 (Print Publisher: Public Library of Science Country of Publication: United States NLM ID: 101285081 Publication Model: eCollection Cited Medium: Internet

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Academic Journal

Investigating the quaternary structure of a homomultimeric catechol 1,2-dioxygenase: An integrative structural biology study.

Authors : Almeida-Juarez AG; Laboratorio de Bioquímica Estructural, Departamento de Medicina Molecular y Bioprocesos, Instituto de Biotecnología, Universidad Nacional Autónoma de México, Cuernavaca, Morelos, México.; Chodankar S

Subjects: Catechol 1,2-Dioxygenase*/Catechol 1,2-Dioxygenase*/Catechol 1,2-Dioxygenase*/chemistry ; Catechol 1,2-Dioxygenase*/Catechol 1,2-Dioxygenase*/Catechol 1,2-Dioxygenase*/metabolism ; Bacterial Proteins*/Bacterial Proteins*/Bacterial Proteins*/chemistry

Source: PloS one [PLoS One] 2025 May 05; Vol. 20 (5), pp. e0315992. Date of Electronic Publication: 2025 May 05 (Print Publisher: Public Library of Science Country of Publication: United States NLM ID: 101285081 Publication Model: eCollection Cited Medium: Internet

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Academic Journal

In silico studies provide new structural insights into trans-dimerization of β1 and β2 subunits of the Na+, K+-ATPase.

Authors : Ramírez-Salinas G; Laboratorio de Diseño y Desarrollo de Nuevos Fármacos e Innovación Biotecnológica (Laboratory for the Design and Development of New Drugs and Biotechnological Innovation), Sección de Estudios de Posgrado e Investigación, Escuela Superior de Medicina, Instituto Politécnico Nacional, Ciudad de México, México.; Shoshani L

Subjects: Sodium-Potassium-Exchanging ATPase*/Sodium-Potassium-Exchanging ATPase*/Sodium-Potassium-Exchanging ATPase*/chemistry ; Sodium-Potassium-Exchanging ATPase*/Sodium-Potassium-Exchanging ATPase*/Sodium-Potassium-Exchanging ATPase*/metabolism ; Protein Subunits*/Protein Subunits*/Protein Subunits*/chemistry

Source: PloS one [PLoS One] 2025 Apr 29; Vol. 20 (4), pp. e0321064. Date of Electronic Publication: 2025 Apr 29 (Print Publisher: Public Library of Science Country of Publication: United States NLM ID: 101285081 Publication Model: eCollection Cited Medium: Internet

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Academic Journal

Chameleon sequences-Structural effects.

Authors : Slupina M; ALSTOM ZWUS Sp. z o.o. Modelarska, Katowice, Poland.; Stapor K

Subjects: Proteins*/Proteins*/Proteins*/chemistry; Hydrophobic and Hydrophilic Interactions ; Protein Structure, Secondary

Source: PloS one [PLoS One] 2025 Apr 22; Vol. 20 (4), pp. e0315901. Date of Electronic Publication: 2025 Apr 22 (Print Publisher: Public Library of Science Country of Publication: United States NLM ID: 101285081 Publication Model: eCollection Cited Medium: Internet

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Academic Journal

Assessing interface accuracy in macromolecular complexes.

Authors : Ludwiczak O; Institute of Computing Science, Poznan University of Technology, Poznan, Poland.; Antczak M

Subjects: Macromolecular Substances*/Macromolecular Substances*/Macromolecular Substances*/chemistry ; Computational Biology*/Computational Biology*/Computational Biology*/methods; RNA/RNA/RNA/chemistry

Source: PloS one [PLoS One] 2025 Apr 02; Vol. 20 (4), pp. e0319917. Date of Electronic Publication: 2025 Apr 02 (Print Publisher: Public Library of Science Country of Publication: United States NLM ID: 101285081 Publication Model: eCollection Cited Medium: Internet

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Academic Journal

Navigating the unstructured by evaluating alphafold's efficacy in predicting missing residues and structural disorder in proteins.

Authors : Zheng S; Bio-Electron Microscopy Facility, iHuman Institution, ShanghaiTech University, Shanghai, China.

Subjects: Proteins*/Proteins*/Proteins*/chemistry ; Intrinsically Disordered Proteins*/Intrinsically Disordered Proteins*/Intrinsically Disordered Proteins*/chemistry; Databases, Protein

Source: PloS one [PLoS One] 2025 Mar 25; Vol. 20 (3), pp. e0313812. Date of Electronic Publication: 2025 Mar 25 (Print Publisher: Public Library of Science Country of Publication: United States NLM ID: 101285081 Publication Model: eCollection Cited Medium: Internet

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Academic Journal

Exploration of small molecules as inhibitors of potential BACE1 protein to treat amyloid cerebrovascular disease by employing molecular modeling and simulation approaches.

Authors : Wang Z; College of Chinese Medicine, Hubei University of Chinese Medicine, Wuhan, Hubei, China.; The Third People's Hospital of Hubei Province, Affiliated Jianghan University, Wuhan, Hubei, China.

Subjects: Amyloid Precursor Protein Secretases*/Amyloid Precursor Protein Secretases*/Amyloid Precursor Protein Secretases*/antagonists & inhibitors ; Amyloid Precursor Protein Secretases*/Amyloid Precursor Protein Secretases*/Amyloid Precursor Protein Secretases*/chemistry ; Amyloid Precursor Protein Secretases*/Amyloid Precursor Protein Secretases*/Amyloid Precursor Protein Secretases*/metabolism

Source: PloS one [PLoS One] 2025 Mar 21; Vol. 20 (3), pp. e0317716. Date of Electronic Publication: 2025 Mar 21 (Print Publisher: Public Library of Science Country of Publication: United States NLM ID: 101285081 Publication Model: eCollection Cited Medium: Internet

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نتائج البحث

فلترة النتائج

Benchmarking inverse folding models for antibody CDR sequence design.

Conserved domains and structural motifs that differentiate closely related Rex1 and Rex3 DEDDh exoribonucleases are required for their function in yeast.

Two different and robustly modeled DNA binding modes of Competence Protein ComP - systematic modeling with AlphaFold 3, RoseTTAFold2NA, Chai-1 and re-docking in HADDOCK.

Coevolution in human small Heat Shock Protein 1 is promoted by interactions between the Alpha-Crystallin domain and the disordered regions.

Investigating the quaternary structure of a homomultimeric catechol 1,2-dioxygenase: An integrative structural biology study.

In silico studies provide new structural insights into trans-dimerization of β1 and β2 subunits of the Na+, K+-ATPase.

Chameleon sequences-Structural effects.

Assessing interface accuracy in macromolecular complexes.

Navigating the unstructured by evaluating alphafold's efficacy in predicting missing residues and structural disorder in proteins.

Exploration of small molecules as inhibitors of potential BACE1 protein to treat amyloid cerebrovascular disease by employing molecular modeling and simulation approaches.

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