Search Results - "Haliloglu T"

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Computational and experimental mapping of the allosteric network of two manganese ABC transporters.

Authors: Duman O Kuznetsova A Levanon NL et al.

Source: Protein science : a publication of the Protein Society [Protein Sci] 2025 Feb; Vol. 34 (2), pp. e70039.

Publication Type: Journal Article

Journal Info: Publisher: Cold Spring Harbor Laboratory Press Country of Publication: United States NLM ID: 9211750 Publication Model: Print Cited Medium: Internet ISSN: 1469-896X (Electronic) Linking ISSN: 09618368 NLM ISO Abbreviation: Protein Sci Subsets: MEDLINE

Reused Protein Segments Linked to Functional Dynamics.

Authors: Kutlu Y Axel G Kolodny R et al.

Source: Molecular biology and evolution [Mol Biol Evol] 2024 Sep 04; Vol. 41 (9).

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Oxford University Press Country of Publication: United States NLM ID: 8501455 Publication Model: Print Cited Medium: Internet ISSN: 1537-1719 (Electronic) Linking ISSN: 07374038 NLM ISO Abbreviation: Mol Biol Evol Subsets: MEDLINE

Deciphering Allosteric Disease Mutations Through Intrinsic Dynamics.

Authors: Kaskaloglu B Duman O Kutlu Y et al.

Source: Journal of molecular biology [J Mol Biol] 2025 Oct 15; Vol. 437 (20), pp. 169326. Date of Electronic Publication: 2025 Jul 04.

Publication Type: Journal Article

Journal Info: Publisher: Elsevier Country of Publication: Netherlands NLM ID: 2985088R Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1089-8638 (Electronic) Linking ISSN: 00222836 NLM ISO Abbreviation: J Mol Biol Subsets: MEDLINE

Global dynamics behind enzyme catalysis, evolution, and design.

Authors: Aykac Fas B Akbas Buz ZE Haliloglu T

Source: Current opinion in structural biology [Curr Opin Struct Biol] 2025 Oct; Vol. 94, pp. 103131. Date of Electronic Publication: 2025 Aug 12.

Publication Type: Journal Article; Review

Journal Info: Publisher: Elsevier Science Country of Publication: England NLM ID: 9107784 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1879-033X (Electronic) Linking ISSN: 0959440X NLM ISO Abbreviation: Curr Opin Struct Biol Subsets: MEDLINE

Prediction of allosteric communication pathways in proteins.

Authors: Haliloglu T Hacisuleyman A Erman B

Source: Bioinformatics (Oxford, England) [Bioinformatics] 2022 Jul 11; Vol. 38 (14), pp. 3590-3599.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Oxford University Press Country of Publication: England NLM ID: 9808944 Publication Model: Print Cited Medium: Internet ISSN: 1367-4811 (Electronic) Linking ISSN: 13674803 NLM ISO Abbreviation: Bioinformatics Subsets: MEDLINE

Computational analysis of long-range allosteric communications in CFTR.

Authors: Ersoy A Altintel B Livnat Levanon N et al.

Source: ELife [Elife] 2023 Dec 18; Vol. 12. Date of Electronic Publication: 2023 Dec 18.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: eLife Sciences Publications, Ltd Country of Publication: England NLM ID: 101579614 Publication Model: Electronic Cited Medium: Internet ISSN: 2050-084X (Electronic) Linking ISSN: 2050084X NLM ISO Abbreviation: Elife Subsets: MEDLINE

Subsets of Slow Dynamic Modes Reveal Global Information Sources as Allosteric Sites.

Authors: Altintel B Acar B Erman B et al.

Source: Journal of molecular biology [J Mol Biol] 2022 Sep 15; Vol. 434 (17), pp. 167644. Date of Electronic Publication: 2022 May 26.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Elsevier Country of Publication: Netherlands NLM ID: 2985088R Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1089-8638 (Electronic) Linking ISSN: 00222836 NLM ISO Abbreviation: J Mol Biol Subsets: MEDLINE

Cullin neddylation may allosterically tune polyubiquitin chain length and topology.

Authors: Onel M Sumbul F Liu J et al.

Source: The Biochemical journal [Biochem J] 2017 Feb 20; Vol. 474 (5), pp. 781-795. Date of Electronic Publication: 2017 Feb 20.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't; Research Support, N.I.H., Intramural; Research Support, N.I.H., Extramural

Journal Info: Publisher: Published by Portland Press on behalf of the Biochemical Society Country of Publication: England NLM ID: 2984726R Publication Model: Electronic Cited Medium: Internet ISSN: 1470-8728 (Electronic) Linking ISSN: 02646021 NLM ISO Abbreviation: Biochem J Subsets: MEDLINE

DynaFace: Discrimination between Obligatory and Non-obligatory Protein-Protein Interactions Based on the Complex's Dynamics.

Authors: Soner S Ozbek P Garzon JI et al.

Source: PLoS computational biology [PLoS Comput Biol] 2015 Oct 27; Vol. 11 (10), pp. e1004461. Date of Electronic Publication: 2015 Oct 27 (Print Publication: 2015).

Publication Type: Journal Article; Research Support, N.I.H., Extramural; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Public Library of Science Country of Publication: United States NLM ID: 101238922 Publication Model: eCollection Cited Medium: Internet ISSN: 1553-7358 (Electronic) Linking ISSN: 1553734X NLM ISO Abbreviation: PLoS Comput Biol Subsets: MEDLINE

Structural insight into host plasma membrane association and assembly of HIV-1 matrix protein.

Authors: Ciftci H Tateishi H Koiwai K et al.

Source: Scientific reports [Sci Rep] 2021 Aug 04; Vol. 11 (1), pp. 15819. Date of Electronic Publication: 2021 Aug 04.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.

Journal Info: Publisher: Nature Publishing Group Country of Publication: England NLM ID: 101563288 Publication Model: Electronic Cited Medium: Internet ISSN: 2045-2322 (Electronic) Linking ISSN: 20452322 NLM ISO Abbreviation: Sci Rep Subsets: MEDLINE

Global Dynamics Renders Protein Sites with High Functional Response.

Authors: Kutlu Y Ben-Tal N Haliloglu T

Source: The journal of physical chemistry. B [J Phys Chem B] 2021 May 13; Vol. 125 (18), pp. 4734-4745. Date of Electronic Publication: 2021 Apr 29.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: American Chemical Society Country of Publication: United States NLM ID: 101157530 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1520-5207 (Electronic) Linking ISSN: 15205207 NLM ISO Abbreviation: J Phys Chem B Subsets: MEDLINE

Oncogenic mutations on Rac1 affect global intrinsic dynamics underlying GTP and PAK1 binding.

Authors: Acuner SE Sumbul F Torun H et al.

Source: Biophysical journal [Biophys J] 2021 Mar 02; Vol. 120 (5), pp. 866-876. Date of Electronic Publication: 2021 Jan 28.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Cell Press Country of Publication: United States NLM ID: 0370626 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1542-0086 (Electronic) Linking ISSN: 00063495 NLM ISO Abbreviation: Biophys J Subsets: MEDLINE

Local and Global Motions Underlying Antibiotic Binding in Bacterial Ribosome.

Authors: Kurkcuoglu O Gunes MU Haliloglu T

Source: Journal of chemical information and modeling [J Chem Inf Model] 2020 Dec 28; Vol. 60 (12), pp. 6447-6461. Date of Electronic Publication: 2020 Nov 24.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: American Chemical Society Country of Publication: United States NLM ID: 101230060 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1549-960X (Electronic) Linking ISSN: 15499596 NLM ISO Abbreviation: J Chem Inf Model Subsets: MEDLINE

Structure, dynamics and implied gating mechanism of a human cyclic nucleotide-gated channel.

Authors: Gofman Y Schärfe C Marks DS et al.

Source: PLoS computational biology [PLoS Comput Biol] 2014 Dec 04; Vol. 10 (12), pp. e1003976. Date of Electronic Publication: 2014 Dec 04 (Print Publication: 2014).

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Public Library of Science Country of Publication: United States NLM ID: 101238922 Publication Model: eCollection Cited Medium: Internet ISSN: 1553-7358 (Electronic) Linking ISSN: 1553734X NLM ISO Abbreviation: PLoS Comput Biol Subsets: MEDLINE

Hot spots in a network of functional sites.

Authors: Ozbek P Soner S Haliloglu T

Source: PloS one [PLoS One] 2013 Sep 02; Vol. 8 (9), pp. e74320. Date of Electronic Publication: 2013 Sep 02 (Print Publication: 2013).

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Public Library of Science Country of Publication: United States NLM ID: 101285081 Publication Model: eCollection Cited Medium: Internet ISSN: 1932-6203 (Electronic) Linking ISSN: 19326203 NLM ISO Abbreviation: PLoS One Subsets: MEDLINE

MCPath: Monte Carlo path generation approach to predict likely allosteric pathways and functional residues.

Authors: Kaya C Armutlulu A Ekesan S et al.

Source: Nucleic acids research [Nucleic Acids Res] 2013 Jul; Vol. 41 (Web Server issue), pp. W249-55. Date of Electronic Publication: 2013 Jun 05.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Oxford University Press Country of Publication: England NLM ID: 0411011 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1362-4962 (Electronic) Linking ISSN: 03051048 NLM ISO Abbreviation: Nucleic Acids Res Subsets: MEDLINE

Monte Carlo simulations of peptide-membrane interactions with the MCPep web server.

Authors: Gofman Y Haliloglu T Ben-Tal N

Source: Nucleic acids research [Nucleic Acids Res] 2012 Jul; Vol. 40 (Web Server issue), pp. W358-63. Date of Electronic Publication: 2012 Jun 13.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Oxford University Press Country of Publication: England NLM ID: 0411011 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1362-4962 (Electronic) Linking ISSN: 03051048 NLM ISO Abbreviation: Nucleic Acids Res Subsets: MEDLINE

Distinct Allosteric Networks Underlie Mechanistic Speciation of ABC Transporters.

Authors: Acar B Rose J Aykac Fas B et al.

Source: Structure (London, England : 1993) [Structure] 2020 Jun 02; Vol. 28 (6), pp. 651-663.e5. Date of Electronic Publication: 2020 Apr 21.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Cell Press Country of Publication: United States NLM ID: 101087697 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1878-4186 (Electronic) Linking ISSN: 09692126 NLM ISO Abbreviation: Structure Subsets: MEDLINE

Predicting important residues and interaction pathways in proteins using Gaussian Network Model: binding and stability of HLA proteins.

Authors: Haliloglu T Gul A Erman B

Source: PLoS computational biology [PLoS Comput Biol] 2010 Jul 08; Vol. 6 (7), pp. e1000845. Date of Electronic Publication: 2010 Jul 08.

Publication Type: Journal Article; Research Support, Non-U.S. Gov't

Journal Info: Publisher: Public Library of Science Country of Publication: United States NLM ID: 101238922 Publication Model: Electronic Cited Medium: Internet ISSN: 1553-7358 (Electronic) Linking ISSN: 1553734X NLM ISO Abbreviation: PLoS Comput Biol Subsets: MEDLINE