I. Arkin

发表

Microsecond molecular dynamics simulation shows effect of slow loop dynamics on backbone amide order parameters of proteins.

R. Dror, R. Friesner, K. Lindorff-Larsen, 2008, The journal of physical chemistry. B.

Interaction and conformational dynamics of membrane‐spanning protein helices

I. Arkin, D. Langosch, 2009, Protein science : a publication of the Protein Society.

Potential Viroporin Candidates From Pathogenic Viruses Using Bacteria-Based Bioassays

M. Krugliak, I. Arkin, P. Tomar, 2019, Viruses.

Quantitative analysis of influenza M2 channel blockers.

M. Krugliak, I. Arkin, C. Gilon, 2011, Biochimica et biophysica acta.

Computational and experimental analysis of drug binding to the Influenza M2 channel.

M. Krugliak, I. Arkin, P. Astrahan, 2014, Biochimica et biophysica acta.

Mapping the Resistance Potential of Influenza's H+ Channel against an Antiviral Blocker.

M. Krugliak, I. Arkin, R. Alhadeff, 2016, Journal of molecular biology.

A Robust Proton Flux (pHlux) Assay for Studying the Function and Inhibition of the Influenza A M2 Proton Channel.

K. Lindorff-Larsen, J. Martins, I. Arkin, 2018, Biochemistry.

Folding of the Transmembrane 25-Residues Influenza A M2 and Ala-25 Peptides

I. Arkin, S. Scheiner, A. Kolocouris, 2020 .

How do aminoadamantanes block the influenza M2 channel, and how does resistance develop?

M. Krugliak, I. Arkin, P. Astrahan, 2011, Journal of the American Chemical Society.

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

T. Stevens, I. Arkin, T J Stevens, 2000, Proteins.

Prediction of Glycosylphosphatidylinositol-Anchored Proteins in Arabidopsis. A Genomic Analysis1

Paul Dupree, Isaiah T Arkin, T. Stevens, 2002, Plant Physiology.

SARS Coronavirus E Protein in Phospholipid Bilayers: An X-Ray Study

I. Arkin, E. Arbely, T. Salditt, 2005, Biophysical Journal.

Viral ion channel proteins in model membranes: a comparative study by X-ray reflectivity

I. Arkin, E. Arbely, T. Salditt, 2006, European Biophysics Journal.

Structural organization of the pentameric transmembrane alpha‐helices of phospholamban, a cardiac ion channel.

D. Engelman, P. Adams, A. Brünger, 1994, The EMBO journal.

Substitution rates in α‐helical transmembrane proteins

Tim J. Stevens, Isaiah T. Arkin, T. Stevens, 2001 .

Mechanistic studies of the apical sodium‐dependent bile acid transporter

I. Arkin, R. Alhadeff, Assaf Ganoth, 2015, Proteins.

Strength of a bifurcated H bond

I. Arkin, Esther S Feldblum, 2014, Proceedings of the National Academy of Sciences.

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

J. Torres, J. Goodman, A. Kukol, 2001, Biopolymers.

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

T. Stevens, I. Arkin, Isaiah T. Arkin, 2008, Protein science : a publication of the Protein Society.

Exploring models of the influenza A M2 channel: MD simulations in a phospholipid bilayer.

D. Tieleman, L. Forrest, A. Kukol, 2000, Biophysical journal.

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

H. Benyamini, I. Arkin, A. Friedler, 2009, Proteins.

Folding of the Transmembrane 25-Residues Influenza A M2 and Ala-25 Peptides

I. Arkin, S. Scheiner, A. Kolocouris, 2020 .

Quantitative Analysis of Multiplex H-Bonds

I. Arkin, Esther S Brielle, Esther S. Brielle, 2020, Journal of the American Chemical Society.

SARS E protein in phospholipid bilayers: an anomalous X-ray reflectivity study

T. Metzger, I. Arkin, E. Arbely, 2004, Physica B: Condensed Matter.

Disorder influence on linear dichroism analyses of smectic phases.

I. Arkin, T. Salditt, Z. Khattari, 2005, Biophysical journal.

Site-specific dichroism analysis utilizing transmission FTIR.

I. Arkin, Itamar Kass, E. Arbely, 2003, Biophysical journal.

C-deuterated alanine: a new label to study membrane protein structure using site-specific infrared dichroism.

J. Torres, I. Arkin, 2002, Biophysical journal.

Use of a single glycine residue to determine the tilt and orientation of a transmembrane helix. A new structural label for infrared spectroscopy.

J. Torres, A. Kukol, I. Arkin, 2000, Biophysical journal.

Structural aspects of oligomerization taking place between the transmembrane alpha-helices of bitopic membrane proteins.

I. Arkin, 2002, Biochimica et biophysica acta.

Sequence analysis Genetic algorithm-based optimization of hydrophobicity tables

I. Arkin, Hadas Leonov, Moti Zviling, 2005 .

Site-Directed Dichroism As a Method for Obtaining Rotational and Orientational Constraints for Oriented Polymers

Isaiah T. Arkin, Axel T. Brunger, A. Brunger, 1997 .

The orientation of the antibiotic peptide maculatin 1.1 in DMPG and DMPC lipid bilayers. Support for a pore‐forming mechanism

J. Torres, I. Arkin, J. Bowie, 2002, FEBS letters.

Searching for Blockers of Dengue and West Nile Virus Viroporins

I. Arkin, Hiya Lahiri, 2022, Viruses.

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

I. Arkin, Itamar Kass, M. Cooper, 2004, Proteins.

Folding Molecular Dynamics Simulations of the Transmembrane Peptides of Influenza A, B M2, and MERS-, SARS-CoV E Viral Proteins (preprint)

I. Arkin, N. M. Glykos, A. Kolocouris, 2022, 2209.05377.

Structural Disorder of the CD3ζ Transmembrane Domain Studied with 2D IR Spectroscopy and Molecular Dynamics Simulations

I. Arkin, Itamar Kass, M. Zanni, 2006 .

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

I. Arkin, Amit Benazraf, 2023, Protein Science : A Publication of the Protein Society.

Isotope-Edited Amide II Mode: A New Label for Site-Specific Vibrational Spectroscopy.

I. Arkin, Esther S. Brielle, 2021, The journal of physical chemistry letters.

Picosecond dynamics of a membrane protein revealed by 2D IR.

Prabuddha Mukherjee, Isaiah T Arkin, Martin T Zanni, 2006, Proceedings of the National Academy of Sciences of the United States of America.

Site-specific vibrational dynamics of the CD3zeta membrane peptide using heterodyned two-dimensional infrared photon echo spectroscopy.

Amber T. Krummel, I. Arkin, Itamar Kass, 2004, The Journal of chemical physics.

A trimerizing GxxxG motif is uniquely inserted in the severe acute respiratory syndrome (SARS) coronavirus spike protein transmembrane domain.

I. Arkin, Z. Granot, Itamar Kass, 2006, Biochemistry.

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

Isaiah T Arkin, Eyal Vardy, I. Arkin, 2004, Protein science : a publication of the Protein Society.

Fourier transform infrared spectroscopy and site-directed isotope labeling as a probe of local secondary structure in the transmembrane domain of phospholamban.

S. O. Smith, D. Engelman, I. Arkin, 1996, Biophysical journal.

Dynamic control of slow water transport by aquaporin 0: Implications for hydration and junction stability in the eye lens

R. Dror, M. Jensen, D. Shaw, 2008, Proceedings of the National Academy of Sciences.

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

I. Arkin, K. Gottschalk, H. Kaback, 2004 .

Statistical analysis of predicted transmembrane α-helices

A. Brunger, I. Arkin, 1998 .

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

I. Arkin, Hadas Leonov, J. Mitchell, 2003, Proteins.

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

M. Krugliak, I. Arkin, P. Tomar, 2021, Pharmaceuticals.

SARS-CoV-2 E protein is a potential ion channel that can be inhibited by Gliclazide and Memantine

I. Arkin, Prabhat Pratap Singh Tomar, 2020, Biochemical and Biophysical Research Communications.

Genetic algorithm-based optimization of hydrophobicity tables

Moti Zviling, Hadas Leonov, Isaiah T. Arkin, 2005, Bioinform..

A Highly Unusual Palindromic Transmembrane Helical Hairpin Formed by SARS Coronavirus E Protein

I. Arkin, E. Arbely, T. Salditt, 2004, Journal of Molecular Biology.

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

Isaiah T. Arkin, Raphael Alhadeff, Miriam Krugliak, 2011, PloS one.

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

I. Arkin, Anamika Singh, 2022, Pharmaceuticals.

Mechanism of Na+/H+ Antiporting

Brent A. Gregersen, R. Dror, K. Bowers, 2007, Science.

Computational searching and mutagenesis suggest a structure for the pentameric transmembrane domain of phospholamban

Paul D. Adams, Isaiah T. Arkin, Axel T. Brünger, 1995, Nature Structural Biology.

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

A T Brünger, D. Engelman, A. Brünger, 1997, Proteins.

Statistical analysis of predicted transmembrane alpha-helices.

A. Brunger, I. Arkin, 1998, Biochimica et biophysica acta.

Resistance characteristics of influenza to amino-adamantyls.

Isaiah T Arkin, I. Arkin, P. Astrahan, 2011, Biochimica et biophysica acta.

A structure for the trimeric MHC class II-associated invariant chain transmembrane domain.

J. Torres, A. Kukol, I. Arkin, 2002, Journal of molecular biology.

Hydrogen/deuterium exchange of hydrophobic peptides in model membranes by electrospray ionization mass spectrometry

Isaiah T Arkin, I. Arkin, R. Broadhurst, 2002, Journal of the American Society for Mass Spectrometry.

FTIR Studies of Viral Ion Channels

I. Arkin, Itamar Kass, 2005 .

Computational study of the Na+/H+ antiporter from Vibrio parahaemolyticus

Isaiah T. Arkin, Raphael Alhadeff, I. Arkin, 2011, Journal of molecular modeling.

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

Isaiah T. Arkin, Raphael Alhadeff, Dovrat Kohen, 2011, PloS one.

Bacteria-Based Analysis of HIV-1 Vpu Channel Activity

M. Krugliak, I. Arkin, R. Alhadeff, 2014, PloS one.

vpu transmembrane peptide structure obtained by site-specific fourier transform infrared dichroism and global molecular dynamics searching.

A. Kukol, I. Arkin, 1999, Biophysical journal.

A molecular switch for Cdc48 activity and localization during oxidative stress and aging

M. Schuldiner, I. Arkin, D. Reichmann, 2019, bioRxiv.

Determining the secondary structure and orientation of EmrE, a multi-drug transporter, indicates a transmembrane four-helix bundle.

W. P. Russ, I. Arkin, S. Schuldiner, 1996, Biochemistry.

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

M. Krugliak, I. Arkin, P. Tomar, 2022, Biomedicines.

Site-Specific Hydrogen Exchange in a Membrane Environment Analyzed by Infrared Spectroscopy.

I. Arkin, Esther S. Brielle, 2018, The journal of physical chemistry letters.

Structural perspectives of phospholamban, a helical transmembrane pentamer.

S. O. Smith, D. Engelman, P. Adams, 1997, Annual review of biophysics and biomolecular structure.

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

Dieter Langosch, Philipp Pagel, Isaiah T. Arkin, 2013, Bioinform..

Experimental Measurement of the Strength of a Cα−H···O Bond in a Lipid Bilayer

I. Arkin, E. Arbely, 2004 .

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

Antonios Kolocouris, Steve Scheiner, Ioannis Stylianakis, 2020, J. Comput. Chem..

Structural model of the phospholamban ion channel complex in phospholipid membranes.

S. O. Smith, D. Engelman, I. Arkin, 1995, Journal of molecular biology.

How pH opens a H+ channel: the gating mechanism of influenza A M2.

I. Arkin, Itamar Kass, 2005, Structure.

Predicting the Reproductive Toxicity of Chemicals Using Ensemble Learning Methods and Molecular Fingerprints.

I. Arkin, Li Zhang, Hongsheng Liu, 2021, Toxicology letters.

Isotope-edited IR spectroscopy for the study of membrane proteins

I. Arkin, 2006, Current Opinion in Chemical Biology.

Random Mutagenesis Analysis of the Influenza A M2 Proton Channel Reveals Novel Resistance Mutants.

K. Lindorff-Larsen, Amelie Stein, R. Hartmann-Petersen, 2018, Biochemistry.

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

I. Arkin, Hadas Leonov, 2010, European Biophysics Journal.

How important are transmembrane helices of bitopic membrane proteins?

Moti Zviling, Isaiah T Arkin, I. Arkin, 2007, Biochimica et biophysica acta.

Gating mechanism of the influenza A M2 channel revealed by 1D and 2D IR spectroscopies.

I. Arkin, M. Zanni, Yu-Shan Lin, 2009, Structure.

Structure of the Transmembrane Cysteine Residues in Phospholamban

S. O. Smith, D. Engelman, P. Adams, 1997, The Journal of Membrane Biology.

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)

I. Arkin, T J Stevens, I T Arkin, 2000, Proteins.

Are membrane proteins “inside‐out” proteins?

T. Stevens, I. Arkin, T J Stevens, 1999, Proteins.

Gaining insight into membrane protein structure using isotope-edited FTIR.

I. Arkin, Joshua Manor, 2013, Biochimica et biophysica acta.

The structure of the HIV-1 Vpu ion channel: modelling and simulation studies.

F. Cordes, L. Forrest, A. Kukol, 2001, Biochimica et biophysica acta.

Mapping the energy surface of transmembrane helix-helix interactions.

J. Torres, A. Kukol, I. Arkin, 2001, Biophysical journal.

Use of Isotope-Edited FTIR to Derive a Backbone Structure of a Transmembrane Protein.

I. Arkin, E. Arbely, A. Beerlink, 2014, The journal of physical chemistry letters.

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

I. Arkin, Hadas Leonov, Uzi Kochva, 2003, Protein science : a publication of the Protein Society.

A proof-of-concept study of the secondary structure of influenza A, B M2 and MERS- and SARS-CoV E transmembrane peptides using folding molecular dynamics simulations in a membrane mimetic solvent.

I. Arkin, N. M. Glykos, A. Kolocouris, 2022, Physical chemistry chemical physics : PCCP.

Structural disorder of the CD3zeta transmembrane domain studied with 2D IR spectroscopy and molecular dynamics simulations.

I. Arkin, Itamar Kass, M. Zanni, 2006, The journal of physical chemistry. B.

Mapping the lipid-exposed surfaces of membrane proteins

D. Engelman, I. Arkin, Steven O. Smith, 1996, Nature Structural Biology.

A periodicity analysis of transmembrane helices

Hadas Leonov, Isaiah T. Arkin, I. Arkin, 2005, Bioinform..

Structure of the Influenza C Virus CM2 Protein Transmembrane Domain Obtained by Site-specific Infrared Dichroism and Global Molecular Dynamics Searching*

I. Arkin, Andreas Kukol, 2000, The Journal of Biological Chemistry.

Bioinformatic Modeling of Transmembrane α-Helical Bundles Based on Evolutionary Data

I. Arkin, Hadas Leonov, 2004 .

Biodata of Isaiah T. Arkin, the co-author (with Hadas Leonov) of the chapter entitled "Bioinformatic modeling of transmembrane -helical bundles based on evolutionary

Isaiah Arkin, I. Arkin, 2004 .

Syntaxin 1A Modulates the Voltage-gated L-type Calcium Channel (Cav1.2) in a Cooperative Manner*

I. Arkin, D. Atlas, O. Wiser, 2003, Journal of Biological Chemistry.

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

M. Krugliak, I. Arkin, P. Tomar, 2021, Viruses.

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

I. Arkin, Jinhui Meng, Li Zhang, 2021, Interdisciplinary Sciences: Computational Life Sciences.

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

J. Briggs, J. Torres, I. Arkin, 2001, Proteins.

Substitution rates in alpha-helical transmembrane proteins.

T. Stevens, I. Arkin, T J Stevens, 2001, Protein science : a publication of the Protein Society.

Viroporins of Mpox Virus

M. Krugliak, I. Arkin, Kingshuk Basu, 2023, International journal of molecular sciences.

Environment Polarity in Proteins Mapped Noninvasively by FTIR Spectroscopy.

I. Arkin, M. Zanni, Joshua Manor, 2012, The journal of physical chemistry letters.

Correction for Mukherjee et al., Picosecond dynamics of a membrane protein revealed by 2D IR

I. Arkin, Itamar Kass, M. Zanni, 2006 .

Targeted Drug Repurposing Against the SARS-CoV-2 E channel Identifies Blockers With in vitro Antiviral Activity

M. Krugliak, I. Arkin, P. Tomar, 2021, bioRxiv.