Works matching AU Arkin, Isaiah T.

Results: 35

Self-interaction of transmembrane helices representing pre-clusters from the human single-span membrane proteins.

Published in:

Bioinformatics, 2013, v. 29, n. 13, p. 1623, doi. 10.1093/bioinformatics/btt247

By:

Kirrbach, Jan;
Krugliak, Miriam;
Ried, Christian L.;
Pagel, Philipp;
Arkin, Isaiah T.;
Langosch, Dieter

Publication type:

Article

Site-specific examination of secondary structure and orientation determination in membrane proteins: The peptidic 13C18O group as a novel infrared probe.

Published in:

Biopolymers, 2001, v. 59, n. 6, p. 396, doi. 10.1002/1097-0282(200111)59:6<396::AID-BIP1044>3.0.CO;2-Y

By:

Torres, Jaume;
Kukol, Andreas;
Goodman, Jonathan M.;
Arkin, Isaiah T.

Publication type:

Article

Genetic algorithm-based optimization of hydrophobicity tables.

Published in:

Bioinformatics, 2005, v. 21, n. 11, p. 2651

By:

Isaiah T. Arkin

Publication type:

Article

A periodicity analysis of transmembrane helices.

Published in:

Bioinformatics, 2005, v. 21, n. 11, p. 2604

By:

Isaiah T. Arkin

Publication type:

Article

MutagenPred-GCNNs: A Graph Convolutional Neural Network-Based Classification Model for Mutagenicity Prediction with Data-Driven Molecular Fingerprints.

Published in:

Interdisciplinary Sciences: Computational Life Sciences, 2021, v. 13, n. 1, p. 25, doi. 10.1007/s12539-020-00407-2

By:

Li, Shimeng;
Zhang, Li;
Feng, Huawei;
Meng, Jinhui;
Xie, Di;
Yi, Liwei;
Arkin, Isaiah T.;
Liu, Hongsheng

Publication type:

Article

Bacteria-Based Analysis of HIV-1 Vpu Channel Activity.

Published in:

PLoS ONE, 2014, v. 9, n. 10, p. 1, doi. 10.1371/journal.pone.0105387

By:

Taube, Robert;
Alhadeff, Raphael;
Assa, Dror;
Krugliak, Miriam;
Arkin, Isaiah T.

Publication type:

Article

Characterization of the Na+/H+ Antiporter from Yersinia pestis.

Published in:

PLoS ONE, 2011, v. 6, n. 11, p. 1, doi. 10.1371/journal.pone.0026115

By:

Ganoth, Assaf;
Alhadeff, Raphael;
Kohen, Dovrat;
Arkin, Isaiah T.

Publication type:

Article

Promiscuous Binding in a Selective Protein: The Bacterial Na+/H+ Antiporter.

Published in:

PLoS ONE, 2011, v. 6, n. 10, p. 1, doi. 10.1371/journal.pone.0025182

By:

Alhadeff, Raphael;
Ganoth, Assaf;
Krugliak, Miriam;
Arkin, Isaiah T.

Publication type:

Article

Structure and dynamics of the influenza A M2 Channel: a comparison of three structures.

Published in:

Journal of Molecular Modeling, 2009, v. 15, n. 11, p. 1317, doi. 10.1007/s00894-009-0493-2

By:

Leonov, Hadas;
Arkin, Isaiah T.

Publication type:

Article

A novel method of resistance for influenza against a channel-blocking antiviral drug.

Published in:

Proteins, 2004, v. 55, n. 2, p. 251, doi. 10.1002/prot.20018

By:

Astrahan, Peleg;
Kass, Itamar;
Cooper, Matthew A.;
Arkin, Isaiah T.

Publication type:

Article

Monte Carlo estimation of the number of possible protein folds: Effects of sampling bias and folds distributions.

Published in:

Proteins, 2003, v. 51, n. 3, p. 352, doi. 10.1002/prot.10336

By:

Hadas Leonov;
Joseph S.B. Mitchell;
Isaiah T. Arkin

Publication type:

Article

A new method to model membrane protein structure based on silent amino acid substitutions.

Published in:

Proteins, 2001, v. 44, n. 3, p. 370, doi. 10.1002/prot.1102

By:

Briggs, John A.G.;
Torres, Jaume;
Arkin, Isaiah T.

Publication type:

Article

Turning an opinion inside-out: Rees and Eisenberg's commentary (Proteins 2000;38:121-122) on 'Are membrane proteins 'inside-out' proteins?' (Proteins 1999;36:135-143).

Published in:

Proteins, 2000, v. 40, n. 3, p. 463, doi. 10.1002/1097-0134(20000815)40:3<463::AID-PROT120>3.0.CO;2-D

By:

Stevens, Timothy J.;
Arkin, Isaiah T.

Publication type:

Article

Do more complex organisms have a greater proportion of membrane proteins in their genomes?

Published in:

Proteins, 2000, v. 39, n. 4, p. 417, doi. 10.1002/(SICI)1097-0134(20000601)39:4<417::AID-PROT140>3.0.CO;2-Y

By:

Stevens, Timothy J.;
Arkin, Isaiah T.

Publication type:

Article

Are membrane proteins 'inside-out' proteins?

Published in:

Proteins, 1999, v. 36, n. 1, p. 135, doi. 10.1002/(SICI)1097-0134(19990701)36:1<135::AID-PROT11>3.0.CO;2-I

By:

Stevens, Timothy J.;
Arkin, Isaiah T.

Publication type:

Article

Are there dominant membrane protein families with a given number of helices?

Published in:

Proteins, 1997, v. 28, n. 4, p. 465, doi. 10.1002/(SICI)1097-0134(199708)28:4<465::AID-PROT1>3.0.CO;2-9

By:

Arkin, Isaiah T.;
Brünger, Axel T.;
Engelman, Donald M.

Publication type:

Article

Zika M—A Potential Viroporin: Mutational Study and Drug Repurposing.

Published in:

Biomedicines, 2022, v. 10, n. 3, p. 641, doi. 10.3390/biomedicines10030641

By:

Tomar, Prabhat Pratap Singh;
Krugliak, Miriam;
Singh, Anamika;
Arkin, Isaiah T.

Publication type:

Article

pH-driven helix rotations in the influenza M2 H+ channel: a potential gating mechanism.

Published in:

European Biophysics Journal, 2010, v. 39, n. 7, p. 1043, doi. 10.1007/s00249-009-0434-0

By:

Leonov, Hadas;
Arkin, Isaiah T.

Publication type:

Article

Targeting Viral Ion Channels: A Promising Strategy to Curb SARS-CoV-2.

Published in:

Pharmaceuticals (14248247), 2022, v. 15, n. 4, p. N.PAG, doi. 10.3390/ph15040396

By:

Singh, Anamika;
Arkin, Isaiah T.

Publication type:

Article

Identification of SARS-CoV-2 E Channel Blockers from a Repurposed Drug Library.

Published in:

Pharmaceuticals (14248247), 2021, v. 14, n. 7, p. 604, doi. 10.3390/ph14070604

By:

Tomar, Prabhat Pratap Singh;
Krugliak, Miriam;
Arkin, Isaiah T.

Publication type:

Article

Searching for Blockers of Dengue and West Nile Virus Viroporins.

Published in:

Viruses (1999-4915), 2022, v. 14, n. 8, p. 1750, doi. 10.3390/v14081750

By:

Lahiri, Hiya;
Arkin, Isaiah T.

Publication type:

Article

Blockers of the SARS-CoV-2 3a Channel Identified by Targeted Drug Repurposing.

Published in:

Viruses (1999-4915), 2021, v. 13, n. 3, p. 532, doi. 10.3390/v13030532

By:

Tomar, Prabhat Pratap Singh;
Krugliak, Miriam;
Arkin, Isaiah T.;
Andrei, Graciela

Publication type:

Article

Potential Viroporin Candidates From Pathogenic Viruses Using Bacteria-Based Bioassays.

Published in:

Viruses (1999-4915), 2019, v. 11, n. 7, p. 632, doi. 10.3390/v11070632

By:

Tomar, Prabhat Pratap Singh;
Oren, Rivka;
Krugliak, Miriam;
Arkin, Isaiah T.

Publication type:

Article

The balance between side‐chain and backbone‐driven association in folding of the α‐helical influenza A transmembrane peptide.

Published in:

Journal of Computational Chemistry, 2020, v. 41, n. 25, p. 2177, doi. 10.1002/jcc.26381

By:

Stylianakis, Ioannis;
Shalev, Ariella;
Scheiner, Steve;
Sigalas, Michael P.;
Arkin, Isaiah T.;
Glykos, Nikolas;
Kolocouris, Antonios

Publication type:

Article

Hydrogen Bond Strengthens Acceptor Group: The Curious Case of the C–H···O=C Bond.

Published in:

International Journal of Molecular Sciences, 2024, v. 25, n. 16, p. 8606, doi. 10.3390/ijms25168606

By:

Basu, Kingshuk;
Brielle, Esther S.;
Arkin, Isaiah T.

Publication type:

Article

Viroporins of Mpox Virus.

Published in:

International Journal of Molecular Sciences, 2023, v. 24, n. 18, p. 13828, doi. 10.3390/ijms241813828

By:

Basu, Kingshuk;
Krugliak, Miriam;
Arkin, Isaiah T.

Publication type:

Article

Exhaustive mutational analysis of severe acute respiratory syndrome coronavirus 2 ORF3a: An essential component in the pathogen's infectivity cycle.

Published in:

Protein Science: A Publication of the Protein Society, 2023, v. 32, n. 1, p. 1, doi. 10.1002/pro.4528

By:

Benazraf, Amit;
Arkin, Isaiah T.

Publication type:

Article

Interaction and conformational dynamics of membrane‐spanning protein helices.

Published in:

Protein Science: A Publication of the Protein Society, 2009, v. 18, n. 7, p. 1343, doi. 10.1002/pro.154

By:

Langosch, Dieter;
Arkin, Isaiah T.

Publication type:

Article

Distinct protein interfaces in transmembrane domains suggest an in vivo folding model.

Published in:

Protein Science: A Publication of the Protein Society, 2004, v. 13, n. 11, p. 3028, doi. 10.1110/ps.04723704

By:

Stevens, Timothy J.;
Mizuguchi, Kenji;
Arkin, Isaiah T.

Publication type:

Article

Structural conservation in the major facilitator superfamily as revealed by comparative modeling.

Published in:

Protein Science: A Publication of the Protein Society, 2004, v. 13, n. 7, p. 1832, doi. 10.1110/ps.04657704

By:

Vardy, Eyal;
Arkin, Isaiah T.;
Gottschalk, Kay E.;
Kaback, H. Ronald;
Schuldiner, Shimon

Publication type:

Article

Modeling the structure of the respiratory syncytial virus small hydrophobic protein by silent-mutation analysis of global searching molecular dynamics.

Published in:

Protein Science: A Publication of the Protein Society, 2003, v. 12, n. 12, p. 2668, doi. 10.1110/ps.03151103

By:

Kochva, Uzi;
Leonov, Hadas;
Arkin, Isaiah T.

Publication type:

Article

Substitution rates in α-helical transmembrane proteins.

Published in:

Protein Science: A Publication of the Protein Society, 2001, v. 10, n. 12, p. 2507, doi. 10.1110/ps.10501

By:

Stevens, Timothy J.;
Arkin, Isaiah T.

Publication type:

Article

The effect of nucleotide bias upon the composition and prediction of transmembrane helices.

Published in:

Protein Science: A Publication of the Protein Society, 2000, v. 9, n. 3, p. 505

By:

STEVENS, TIMOTHY J.;
ARKIN, ISAIAH T.

Publication type:

Article

Mechanistic studies of the apical sodium-dependent bile acid transporter.

Published in:

Proteins, 2015, v. 83, n. 6, p. 1107, doi. 10.1002/prot.24796

By:

Alhadeff, Raphael;
Ganoth, Assaf;
Arkin, Isaiah T.

Publication type:

Article

A model for the interaction between NF-kappa-B and ASPP2 suggests an I-kappa-B-like binding mechanism.

Published in:

Proteins, 2009, v. 77, n. 3, p. 602, doi. 10.1002/prot.22473

By:

Benyamini, Hadar;
Leonov, Hadas;
Rotem, Shahar;
Katz, Chen;
Arkin, Isaiah T.;
Friedler, Assaf

Publication type:

Article

Works matching AU Arkin, Isaiah T.

Self-interaction of transmembrane helices representing pre-clusters from the human single-span membrane proteins.

Site-specific examination of secondary structure and orientation determination in membrane proteins: The peptidic <sup>13</sup>C<sup>18</sup>O group as a novel infrared probe.

Genetic algorithm-based optimization of hydrophobicity tables.

A periodicity analysis of transmembrane helices.

MutagenPred-GCNNs: A Graph Convolutional Neural Network-Based Classification Model for Mutagenicity Prediction with Data-Driven Molecular Fingerprints.

Bacteria-Based Analysis of HIV-1 Vpu Channel Activity.

Characterization of the Na<sup>+</sup>/H<sup>+</sup> Antiporter from Yersinia pestis.

Promiscuous Binding in a Selective Protein: The Bacterial Na<sup>+</sup>/H<sup>+</sup> Antiporter.

Structure and dynamics of the influenza A M2 Channel: a comparison of three structures.

A novel method of resistance for influenza against a channel-blocking antiviral drug.

Monte Carlo estimation of the number of possible protein folds: Effects of sampling bias and folds distributions.

A new method to model membrane protein structure based on silent amino acid substitutions.

Turning an opinion inside-out: Rees and Eisenberg's commentary (Proteins 2000;38:121-122) on 'Are membrane proteins 'inside-out' proteins?' (Proteins 1999;36:135-143).

Do more complex organisms have a greater proportion of membrane proteins in their genomes?

Are membrane proteins 'inside-out' proteins?

Are there dominant membrane protein families with a given number of helices?

Zika M—A Potential Viroporin: Mutational Study and Drug Repurposing.

pH-driven helix rotations in the influenza M2 H<sup>+</sup> channel: a potential gating mechanism.

Targeting Viral Ion Channels: A Promising Strategy to Curb SARS-CoV-2.

Identification of SARS-CoV-2 E Channel Blockers from a Repurposed Drug Library.

Searching for Blockers of Dengue and West Nile Virus Viroporins.

Blockers of the SARS-CoV-2 3a Channel Identified by Targeted Drug Repurposing.

Potential Viroporin Candidates From Pathogenic Viruses Using Bacteria-Based Bioassays.

The balance between side‐chain and backbone‐driven association in folding of the α‐helical influenza A transmembrane peptide.

Hydrogen Bond Strengthens Acceptor Group: The Curious Case of the C–H···O=C Bond.

Viroporins of Mpox Virus.

Exhaustive mutational analysis of severe acute respiratory syndrome coronavirus 2 ORF3a: An essential component in the pathogen's infectivity cycle.

Interaction and conformational dynamics of membrane‐spanning protein helices.

Distinct protein interfaces in transmembrane domains suggest an in vivo folding model.

Structural conservation in the major facilitator superfamily as revealed by comparative modeling.

Modeling the structure of the respiratory syncytial virus small hydrophobic protein by silent-mutation analysis of global searching molecular dynamics.

Substitution rates in α-helical transmembrane proteins.

The effect of nucleotide bias upon the composition and prediction of transmembrane helices.

Mechanistic studies of the apical sodium-dependent bile acid transporter.

A model for the interaction between NF-kappa-B and ASPP2 suggests an I-kappa-B-like binding mechanism.