R. Ishima

发表

NMRstructureof thehistidine kinasedomainof the E . coli osmosensorEnvZ

M. Swindells, M. Inouye, T. Yamazaki, 2022 .

Flap opening and dimer-interface flexibility in the free and inhibitor-bound HIV protease, and their implications for function.

J. Louis, D. Torchia, R. Ishima, 1999, Structure.

Folded Monomer of HIV-1 Protease*

A. Gronenborn, J. Louis, D. Torchia, 2001, The Journal of Biological Chemistry.

15N–{1H} NOE experiment at high magnetic field strengths

Q. Gong, R. Ishima, 2007, Journal of biomolecular NMR.

Solution Structure of the Mature HIV-1 Protease Monomer

Angela M Gronenborn, Rieko Ishima, A. Gronenborn, 2003, Journal of Biological Chemistry.

NMR structure of the histidine kinase domain of the E. coli osmosensor EnvZ

Mitsuhiko Ikura, Mark B. Swindells, Rieko Ishima, 1998, Nature.

Solution structure of the homodimeric core domain of Escherichia coli histidine kinase EnvZ

Yan Zhu, Mitsuhiko Ikura, Rieko Ishima, 1999, Nature Structural Biology.

Human general transcription factor TFIIB: conformational variability and interaction with VP16 activation domain.

M Ikura, D. Reinberg, M. Ikura, 1998, Biochemistry.

Transverse 13C Relaxation of CHD2 Methyl Isotopmers To Detect Slow Conformational Changes of Protein Side Chains

D. Torchia, R. Ishima, and John M. Louis, 1999 .

Mutational and Structural Studies Aimed at Characterizing the Monomer of HIV-1 Protease and Its Precursor*

J. Louis, D. Torchia, R. Ishima, 2007, Journal of Biological Chemistry.

Discovery of a novel mesothelin specific human antibody VH domain

D. Dimitrov, J. Mellors, R. Ishima, 2022 .

Solution Structure of a TBP–TAFII230 Complex Protein Mimicry of the Minor Groove Surface of the TATA Box Unwound by TBP

L. Kay, M. Ikura, Y. Nakatani, 1998, Cell.

Proton spin relaxation in biopolymers at high magnetic fields

R. Ishima, K. Akasaka, S. Shibata, 1990 .

Relative domain orientation of the L289K HIV‐1 reverse transcriptase monomer

Yun-Xing Wang, R. Ishima, N. Sluis-Cremer, 2022, Protein science : a publication of the Protein Society.

An NMR strategy to detect conformational differences in a protein complexed with highly analogous inhibitors in solution.

R. Ishima, J. Persons, S. N. Khan, 2018, Methods.

Effect of tRNA on the Maturation of HIV-1 Reverse Transcriptase.

S. Sarafianos, R. Ishima, M. Parniak, 2018, Journal of molecular biology.

CEST and DEST Experiments

R. Ishima, J. Persons, S. N. Khan, 2018 .

Structural integrity of the ribonuclease H domain in HIV‐1 reverse transcriptase

Justin Spiriti, D. Zuckerman, R. Ishima, 2015, Proteins.

An in vitro 1H-MRS Model of Oncogene Transfection

H. Sakahara, J. Konishi, R. Ishima, 1997, Acta radiologica.

A probe to monitor performance of 15N longitudinal relaxation experiments for proteins in solution

R. Ishima, 2014, Journal of biomolecular NMR.

Model-free analysis for large proteins at high magnetic field strengths

A. Hinck, R. Ishima, Shou-Lin Chang, 2007, Journal of biomolecular NMR.

A large library based on a novel (CH2) scaffold: identification of HIV-1 inhibitors.

D. Dimitrov, R. Ishima, Yang Feng, 2009, Biochemical and biophysical research communications.

Application of the quasi-spectral density function of 15N nuclei to the selection of a motional model for model-free analysis

K. Nagayama, R. Ishima, Kazuhiko Yamasaki, 1995, Journal of biomolecular NMR.

CPMG relaxation dispersion.

R. Ishima, 2014, Methods in molecular biology.

Practical aspects of 15N CPMG transverse relaxation experiments for proteins in solution

Q. Gong, R. Ishima, W. Myint, 2009 .

The HIV‐1 p66 homodimeric RT exhibits different conformations in the binding‐competent and ‐incompetent NNRTI site

A. Gronenborn, N. G. Sharaf, R. Ishima, 2017, Proteins.

Conformational plasticity of the NNRTI-binding pocket in HIV-1 reverse transcriptase - A fluorine NMR study

A. Gronenborn, N. G. Sharaf, R. Ishima, 2016 .

1H-magnetic resonance spectroscopic observation of cultured malignant cells pharmacologically induced to different phenotypes.

H. Sakahara, J. Konishi, R. Ishima, 1996, Academic radiology.

General features of proton longitudinal relaxation in proteins in solution

R. Ishima, K. Akasaka, S. Shibata, 1991 .

Inhibitors of HIV-1 Reverse Transcriptase—Associated Ribonuclease H Activity

S. Sarafianos, R. Ishima, M. Parniak, 2012, Biology.

Inhibitors of HIV-1 Nef-Mediated Activation of the Myeloid Src-Family Kinase Hck Block HIV-1 Replication in Macrophages and Disrupt MHC-I Downregulation.

R. Ptak, S. Du, T. Smithgall, 2022, ACS infectious diseases.

KIBRA C 2 : distinctive phosphoinositide and Ca 2 + binding 1 Distinctive phosphoinositide and Ca 2 + binding properties of normal and cognitive performance-linked variant forms of KIBRA C 2 domain

S. Crennell, M. Sansom, G. Harris, 2018 .

Discovery of a novel human antibody VH domain with potent activity against mesothelin expressing cancer cells in both CAR T-cell and antibody drug conjugate formats

D. Dimitrov, J. Mellors, R. Ishima, 2022, bioRxiv.

A probe to monitor performance of 15N longitudinal relaxation experiments for proteins in solution

R. Ishima, 2014, Journal of Biomolecular NMR.

Quantitative comparison of errors in 15N transverse relaxation rates measured using various CPMG phasing schemes

Yufeng Cai, R. Ishima, W. Myint, 2012, Journal of Biomolecular NMR.

Revealing the dimer dissociation and existence of a folded monomer of the mature HIV‐2 protease

J. Louis, R. Ishima, Annie Aniana, 2009, Protein science : a publication of the Protein Society.

Interaction between the enamel matrix proteins amelogenin and ameloblastin.

R. Ishima, M. Zeichner‐David, R. Ravindranath, 2004, Biochemical and biophysical research communications.

Binding thermodynamics of metal ions to HIV-1 ribonuclease H domain

M. Oda, R. Ishima, Zhaoyong Xi, 2018, Journal of Thermal Analysis and Calorimetry.

Estimating the time scale of chemical exchange of proteins from measurements of transverse relaxation rates in solution

D. Torchia, R. Ishima, 1999, Journal of biomolecular NMR.

NMR‐Based Screening of Membrane Protein Ligands

J. Klein-Seetharaman, B. Beck, R. Ishima, 2010, Chemical biology & drug design.

Carbonyl carbon transverse relaxation dispersion measurements and ms-μs timescale motion in a protein hydrogen bond network

J. Louis, D. Torchia, J. Baber, 2004 .

Extending the range of amide proton relaxation dispersion experiments in proteins using a constant-time relaxation-compensated CPMG approach

D. Torchia, R. Ishima, 2003, Journal of biomolecular NMR.

Large Multidomain Protein NMR: HIV-1 Reverse Transcriptase Precursor in Solution

R. Ishima, N. Sluis-Cremer, Tatiana V. Ilina, 2020, International journal of molecular sciences.

A 2-Hydroxyisoquinoline-1,3-Dione Active-Site RNase H Inhibitor Binds in Multiple Modes to HIV-1 Reverse Transcriptase

Andrew D. Huber, Skyler T. Kramer, S. Sarafianos, 2017, Antimicrobial Agents and Chemotherapy.

31P-NMR Studies of biodegradative threonine deaminase fromEscherichia coli: Ionization state of the phosphate group of pyridoxal 5′-phosphate

R. Ishima, Y. Kawata, K. Akasaka, 1992 .

Comparison of methyl rotation axis order parameters derived from model-free analyses of (2)H and (13)C longitudinal and transverse relaxation rates measured in the same protein sample.

J. Louis, D. Torchia, R. Ishima, 2001, Journal of the American Chemical Society.

19F NMR relaxation studies of fluorosubstituted tryptophans

A. Gronenborn, R. Ishima, T. Polenova, 2019, Journal of Biomolecular NMR.

Characterization of sarcoplasmic reticulum Ca2+ ATPase nucleotide binding domain mutants using NMR spectroscopy.

Q. Gong, R. Ishima, Jinwoo Ahn, 2011, Biochemical and biophysical research communications.

Distinctive phosphoinositide- and Ca2+-binding properties of normal and cognitive performance–linked variant forms of KIBRA C2 domain

S. Crennell, M. Sansom, G. Harris, 2018, The Journal of Biological Chemistry.

Structural features and ligand binding properties of tandem WW domains from YAP and TAZ, nuclear effectors of the Hippo pathway.

R. Ishima, F. Giuntini, A. Upadhyay, 2011, Biochemistry.

Target binding to S100B reduces dynamic properties and increases Ca(2+)-binding affinity for wild type and EF-hand mutant proteins.

David J Weber, M. Liriano, R. Ishima, 2012, Journal of molecular biology.

Protein dynamics from NMR

Rieko Ishima, D. Torchia, R. Ishima, 2000, Nature Structural Biology.

A highly-specific fully-human antibody and CAR-T cells targeting CD66e/CEACAM5 are cytotoxic for CD66e-expressing cancer cells in vitro and in vivo.

D. Dimitrov, J. Mellors, R. Ishima, 2021, Cancer letters.

Quasi-Spectral-Density Function Analysis for Nitrogen-15 Nuclei in Proteins

K. Nagayama, R. Ishima, 1995 .

Protein backbone dynamics revealed by quasi spectral density function analysis of amide N-15 nuclei.

K. Nagayama, R. Ishima, Kuniaki Nagayama, 1995, Biochemistry.

Novel macromolecular inhibitors of human immunodeficiency virus-1 protease.

J. Louis, R. Ishima, J. Tözsér, 2008, Protein engineering, design & selection : PEDS.

Chemical exchange effects during refocusing pulses in constant-time CPMG relaxation dispersion experiments

R. Ishima, W. Myint, 2009, Journal of biomolecular NMR.

Engineered Human Antibody Constant Domains with Increased Stability*

T. Veenstra, D. Dimitrov, P. Prabakaran, 2009, Journal of Biological Chemistry.

Protein-Inhibitor Interaction Studies Using NMR.

Rieko Ishima, R. Ishima, 2015, Applications of NMR spectroscopy.

Drug Resistance Mutations Alter Dynamics of Inhibitor-Bound HIV-1 Protease

C. Schiffer, Yufeng Cai, R. Ishima, 2014, Journal of chemical theory and computation.

Differential Flap Dynamics in Wild-type and a Drug Resistant Variant of HIV-1 Protease Revealed by Molecular Dynamics and NMR Relaxation.

C. Schiffer, Yufeng Cai, R. Ishima, 2012, Journal of chemical theory and computation.

Quantitative comparison of errors in 15N transverse relaxation rates measured using various CPMG phasing schemes

C. Schiffer, Yufeng Cai, R. Ishima, 2012, Journal of biomolecular NMR.

Recent developments in (15)N NMR relaxation studies that probe protein backbone dynamics.

R. Ishima, 2012, Topics in current chemistry.

NMR studies on domain diffusion and alignment in modular GB1 repeats.

A. Gronenborn, R. Ishima, Katlyn K. Meier, 2010, Biophysical journal.

Dynamics of antibody domains studied by solution NMR.

D. Dimitrov, R. Ishima, J. Walsh, 2009, Methods in molecular biology.

Rapid structural fluctuations of the free HIV protease flaps in solution: Relationship to crystal structures and comparison with predictions of dynamics calculations

Rieko Ishima, J. Louis, Yun-Xing Wang, 2002, Protein science : a publication of the Protein Society.

Characterization of two hydrophobic methyl clusters in HIV-1 protease by NMR spin relaxation in solution.

J. Louis, D. Torchia, R. Ishima, 2001, Journal of molecular biology.

Spectral densities of nitrogen nuclei in Escherichia coli ribonuclease HI obtained by 15N NMR relaxation and molecular dynamics

M. Saito, K. Nagayama, R. Ishima, 1995, Journal of biomolecular NMR.

Molecular mechanics of calcium–myristoyl switches

L. Stryer, M. Ikura, J. Gordon, 1997, Nature.

Protein dynamics revealed by CPMG dispersion

R. Ishima, S. Bagby, 2017 .

Structural Basis of the Allosteric Inhibitor Interaction on the HIV‐1 Reverse Transcriptase RNase H Domain

R. Ishima, M. Parniak, Jinwoo Ahn, 2012, Chemical biology & drug design.

Interaction of HIV‐1 Reverse Transcriptase Ribonuclease H with an Acylhydrazone Inhibitor

Q. Gong, R. Ishima, M. Parniak, 2011, Chemical biology & drug design.

Determinants of Active-Site Inhibitor Interaction with HIV-1 RNase H.

S. Sarafianos, R. Ishima, Nataliya S. Myshakina, 2019, ACS infectious diseases.

Conformational Changes in HIV-1 Reverse Transcriptase that Facilitate Its Maturation.

S. Sarafianos, G. Kawai, R. Ishima, 2019, Structure.

The p66 immature precursor of HIV‐1 reverse transcriptase

A. Gronenborn, N. G. Sharaf, R. Ishima, 2014, Proteins.

Revisiting Monomeric HIV-1 Protease

Angela M Gronenborn, Rieko Ishima, L. Pannell, 2003, The Journal of Biological Chemistry.

Terminal disorder: a common structural feature of the axial proteins of bacterial flagellum?

R. Ishima, S. Aizawa, K. Akasaka, 1992, Journal of molecular biology.

Termini of Salmonella flagellin are disordered and become organized upon polymerization into flagellar filament.

R. Ishima, S. Aizawa, K. Akasaka, 1990, Journal of molecular biology.

Molecular structure and dynamics of proteins in solution: Insights derived from high-resolution NMR approaches

D. Torchia, R. Ishima, 2003 .

Entire-Dataset Analysis of NMR Fast-Exchange Titration Spectra: A Mg2+ Titration Analysis for HIV-1 Ribonuclease H Domain.

M. Oda, Justin Spiriti, K. Kanaori, 2016, The journal of physical chemistry. B.

Three-dimensional structure of gurmarin, a sweet taste-suppressing polypeptide

R. Ishima, S. Aimoto, T. Imoto, 1995, Journal of biomolecular NMR.

Conformational Plasticity of the NNRTI-Binding Pocket in HIV-1 Reverse Transcriptase: A Fluorine Nuclear Magnetic Resonance Study.

A. Gronenborn, N. G. Sharaf, R. Ishima, 2016, Biochemistry.

Probing Structural Changes among Analogous Inhibitor-Bound Forms of HIV-1 Protease and a Drug-Resistant Mutant in Solution by NMR

R. Ishima, Nese Kurt-Yilmaz, J. Paulsen, 2018 .

Effect of Lysyl–tRNA Synthetase on the Maturation of HIV-1 Reverse Transcriptase

R. Ishima, Tatiana V. Ilina, Michel Guerrero, 2020, ACS omega.

HIV-1 protease: structure, dynamics, and inhibition.

Irene T Weber, Rieko Ishima, J. Louis, 2007, Advances in pharmacology.

Probing Structural Changes among Analogous Inhibitor-Bound Forms of HIV-1 Protease and a Drug-Resistant Mutant in Solution by Nuclear Magnetic Resonance.

C. Schiffer, R. Ishima, Nese Kurt-Yilmaz, 2018, Biochemistry.

Error estimation and global fitting in transverse-relaxation dispersion experiments to determine chemical-exchange parameters

Rieko Ishima, D. Torchia, R. Ishima, 2005, Journal of biomolecular NMR.

Conformational dynamics of recoverin's Ca2+‐myristoyl switch probed by 15N NMR relaxation dispersion and chemical shift analysis

Xianzhong Xu, R. Ishima, J. Ames, 2011, Proteins.

Using Amide 1H and 15N Transverse Relaxation To Detect Millisecond Time-Scale Motions in Perdeuterated Proteins: Application to HIV-1 Protease

D. Torchia, P. Wingfield, S. Stahl, 1998 .

Accuracy of Optimized Chemical-exchange Parameters Derived by Fitting CPMG R2 Dispersion Profiles when R20a ≠ R20b

Rieko Ishima, D. Torchia, R. Ishima, 2006, Journal of biomolecular NMR.

Transverse1H Cross Relaxation in1H–15N Correlated1H CPMG Experiments

J. Louis, D. Torchia, R. Ishima, 1999 .

Effects of radiation damping for biomolecular NMR experiments in solution: a hemisphere concept for water suppression.

R. Ishima, 2015, Concepts in magnetic resonance. Part A, Bridging education and research.

A solution NMR study of the binding kinetics and the internal dynamics of an HIV‐1 protease‐substrate complex

A. Gronenborn, J. Louis, T. Yamazaki, 2003, Protein science : a publication of the Protein Society.

A novel peptide isolated from the leaves of Gymnema sylvestre--I. Characterization and its suppressive effect on the neural responses to sweet taste stimuli in the rat.

R. Ishima, T. Imoto, K. Akasaka, 1991, Comparative biochemistry and physiology. A, Comparative physiology.

Structure of the active 27‐residue fragment of human calpastatin

A. Tamura, M. Maki, R. Ishima, 1991, FEBS letters.

Effect of the Active Site D25N Mutation on the Structure, Stability, and Ligand Binding of the Mature HIV-1 Protease*

J. Louis, I. Weber, R. Ishima, 2008, Journal of Biological Chemistry.

Highly conserved glycine 86 and arginine 87 residues contribute differently to the structure and activity of the mature HIV‐1 protease

Irene T Weber, Rieko Ishima, J. Louis, 2010, Proteins.

NMR and MD studies combined to elucidate inhibitor and water interactions of HIV-1 protease and their modulations with resistance mutations

C. Schiffer, R. Ishima, Nese Kurt Yilmaz, 2019, Journal of Biomolecular NMR.

Preclinical assessment of a novel human antibody VH domain targeting mesothelin as an antibody-drug conjugate

D. Dimitrov, R. Ishima, Xiaojie Chu, 2023, Molecular therapy oncolytics.

Characterization of sarcoplasmic reticulum Ca2+ ATPase nucleotide binding domain mutants using NMR spectroscopy.

Q. Gong, R. Ishima, Jinwoo Ahn, 2011, Biochemical and biophysical research communications.

The reduced form of the antibody CH2 domain

D. Dimitrov, R. Ishima, Xianglei Liu, 2021, Protein science : a publication of the Protein Society.

Assessment of Novel Mesothelin-Specific Human Antibody Domain VH-Fc Fusion Proteins-Based PET Agents

R. Ishima, Xiaojie Chu, Abhinav Bhise, 2023, ACS omega.

Distinctive phosphoinositide- and Ca 2 (cid:2) -binding properties of normal and cognitive performance–linked variant forms of KIBRA C2 domain

S. Crennell, M. Sansom, R. Ishima, 2018 .

Construction and characterization of a fully active PXR/SRC-1 tethered protein with increased stability W.Wang, W.W.Prosise, J.Chen, S.Shane Taremi, H.V.Le, V.Madison, X.Cui, A.Thomas, K.-C.Cheng and C.A.Lesburg 425 Directed evolution of a biterminal bacterial display scaffold enhances the display o

J. Louis, P. Daugherty, R. Ishima, 2008 .