Stephen H. Hughes HIV Drug Resistance Program National Cancer Institute Biography Publications Institution JoVE Articles Stephen H. Hughes has not added a biography. If you are Stephen H. Hughes and would like to personalize this page please email our Author Liaison for assistance. Publications Enhancers Are Major Targets for Murine Leukemia Virus Vector Integration Journal of Virology. Apr, 2014 | Pubmed ID: 24501411 False-positive HIV PCR Test Following Ex Vivo Lentiviral Gene Transfer Treatment of X-linked Severe Combined Immunodeficiency Vector Molecular Therapy : the Journal of the American Society of Gene Therapy. Feb, 2014 | Pubmed ID: 24487563 Bicyclic 1-hydroxy-2-oxo-1,2-dihydropyridine-3-carboxamide-containing HIV-1 Integrase Inhibitors Having High Antiviral Potency Against Cells Harboring Raltegravir-resistant Integrase Mutants Journal of Medicinal Chemistry. Feb, 2014 | Pubmed ID: 24471816 Discovery of Novel Inhibitors of HIV-1 Reverse Transcriptase Through Virtual Screening of Experimental and Theoretical Ensembles Chemical Biology & Drug Design. Jan, 2014 | Pubmed ID: 24405985 Effects of Substitutions at the 4' and 2 Positions on the Bioactivity of 4'-ethynyl-2-fluoro-2'-deoxyadenosine Antimicrobial Agents and Chemotherapy. Dec, 2013 | Pubmed ID: 24100493 Treatment with Suboptimal Doses of Raltegravir Leads to Aberrant HIV-1 Integrations Proceedings of the National Academy of Sciences of the United States of America. Sep, 2013 | Pubmed ID: 23959861 Mutations in HIV-1 Reverse Transcriptase Cause Misfolding and Miscleavage by the Viral Protease Virology. Sep, 2013 | Pubmed ID: 23850459 A Homology Model of HIV-1 Integrase and Analysis of Mutations Designed to Test the Model Journal of Molecular Biology. Jun, 2013 | Pubmed ID: 23542006 H3K4me3 Interactions with TAF3 Regulate Preinitiation Complex Assembly and Selective Gene Activation Cell. Feb, 2013 | Pubmed ID: 23452851 Differential Effects of Human Immunodeficiency Virus Type 1 Capsid and Cellular Factors Nucleoporin 153 and LEDGF/p75 on the Efficiency and Specificity of Viral DNA Integration Journal of Virology. Jan, 2013 | Pubmed ID: 23097450 Activities, Crystal Structures, and Molecular Dynamics of Dihydro-1H-isoindole Derivatives, Inhibitors of HIV-1 Integrase ACS Chemical Biology. Jan, 2013 | Pubmed ID: 23075516 Identification of a 3-aminoimidazo[1,2-a]pyridine Inhibitor of HIV-1 Reverse Transcriptase Virology Journal. 2012 | Pubmed ID: 23231773 A Comparison of the Ability of Rilpivirine (TMC278) and Selected Analogues to Inhibit Clinically Relevant HIV-1 Reverse Transcriptase Mutants Retrovirology. 2012 | Pubmed ID: 23217210 6,7-Dihydroxy-1-oxoisoindoline-4-sulfonamide-containing HIV-1 Integrase Inhibitors Bioorganic & Medicinal Chemistry Letters. Oct, 2012 | Pubmed ID: 23149229 HRP2 Determines the Efficiency and Specificity of HIV-1 Integration in LEDGF/p75 Knockout Cells but Does Not Contribute to the Antiviral Activity of a Potent LEDGF/p75-binding Site Integrase Inhibitor Nucleic Acids Research. Dec, 2012 | Pubmed ID: 23042676 HIV-1 Reverse Transcription Cold Spring Harbor Perspectives in Medicine. Oct, 2012 | Pubmed ID: 23028129 HIV-1 and HIV-2 Reverse Transcriptases: Different Mechanisms of Resistance to Nucleoside Reverse Transcriptase Inhibitors Journal of Virology. May, 2012 | Pubmed ID: 22438533 Human Immunodeficiency Virus Type 1 Capsid Mutation N74D Alters Cyclophilin A Dependence and Impairs Macrophage Infection Journal of Virology. Apr, 2012 | Pubmed ID: 22301145 Bicyclic Hydroxy-1H-pyrrolopyridine-trione Containing HIV-1 Integrase Inhibitors Chemical Biology & Drug Design. Feb, 2012 | Pubmed ID: 22107736 Mutagenesis of Human Immunodeficiency Virus Reverse Transcriptase P51 Subunit Defines Residues Contributing to Vinylogous Urea Inhibition of Ribonuclease H Activity The Journal of Biological Chemistry. Feb, 2012 | Pubmed ID: 22105069 Molecular Dynamics Approaches Estimate the Binding Energy of HIV-1 Integrase Inhibitors and Correlate with in Vitro Activity Antimicrobial Agents and Chemotherapy. Jan, 2012 | Pubmed ID: 22037850 Protein Delivery Using Engineered Virus-like Particles Proceedings of the National Academy of Sciences of the United States of America. Oct, 2011 | Pubmed ID: 21949376 The Effects of RNase H Inhibitors and Nevirapine on the Susceptibility of HIV-1 to AZT and 3TC Virology. Oct, 2011 | Pubmed ID: 21907380 Structural and Functional Analyses of the Second-generation Integrase Strand Transfer Inhibitor Dolutegravir (S/GSK1349572) Molecular Pharmacology. Oct, 2011 | Pubmed ID: 21719464 Development of Tricyclic Hydroxy-1H-pyrrolopyridine-trione Containing HIV-1 Integrase Inhibitors Bioorganic & Medicinal Chemistry Letters. May, 2011 | Pubmed ID: 21493066 4'-C-methyl-2'-deoxyadenosine and 4'-C-ethyl-2'-deoxyadenosine Inhibit HIV-1 Replication Antimicrobial Agents and Chemotherapy. May, 2011 | Pubmed ID: 21343443 Foamy Retrovirus Integrase Contains a Pol Dimerization Domain Required for Protease Activation Journal of Virology. Feb, 2011 | Pubmed ID: 21123385 Structural Basis of HIV-1 Resistance to AZT by Excision Nature Structural & Molecular Biology. Oct, 2010 | Pubmed ID: 20852643 Nature, Position, and Frequency of Mutations Made in a Single Cycle of HIV-1 Replication Journal of Virology. Oct, 2010 | Pubmed ID: 20660205 Tumors Induced in Mice by Direct Inoculation of Plasmid DNA Expressing Both Activated H-ras and C-myc International Journal of Biological Sciences. 2010 | Pubmed ID: 20376206 Flexible Use of Nuclear Import Pathways by HIV-1 Cell Host & Microbe. Mar, 2010 | Pubmed ID: 20227665 Lens Epithelium-derived Growth Factor Fusion Proteins Redirect HIV-1 DNA Integration Proceedings of the National Academy of Sciences of the United States of America. Feb, 2010 | Pubmed ID: 20133638 Structure of HIV-1 Reverse Transcriptase with the Inhibitor Beta-Thujaplicinol Bound at the RNase H Active Site Structure (London, England : 1993). Dec, 2009 | Pubmed ID: 20004166 Structural Basis for the Role of the K65R Mutation in HIV-1 Reverse Transcriptase Polymerization, Excision Antagonism, and Tenofovir Resistance The Journal of Biological Chemistry. Dec, 2009 | Pubmed ID: 19812032 Mutations in the Thumb Allow Human Immunodeficiency Virus Type 1 Reverse Transcriptase to Be Cleaved by Protease in Virions Journal of Virology. Dec, 2009 | Pubmed ID: 19759158 The Nucleoside Analogue D-carba T Blocks HIV-1 Reverse Transcription Journal of Medicinal Chemistry. Sep, 2009 | Pubmed ID: 19678643 North- and South-bicyclo[3.1.0]hexene Nucleosides: the Effect of Ring Planarity on Anti-HIV Activity ChemMedChem. Aug, 2009 | Pubmed ID: 19533724 Examination of Halogen Substituent Effects on HIV-1 Integrase Inhibitors Derived from 2,3-dihydro-6,7-dihydroxy-1H-isoindol-1-ones and 4,5-dihydroxy-1H-isoindole-1,3(2H)-diones Bioorganic & Medicinal Chemistry Letters. May, 2009 | Pubmed ID: 19364649 Structure and Function of HIV-1 Reverse Transcriptase: Molecular Mechanisms of Polymerization and Inhibition Journal of Molecular Biology. Jan, 2009 | Pubmed ID: 19022262 Synthesis of Conformationally Locked Carbocyclic Nucleoside Phosphonates to Probe the Active Site of HIV-1 RT Nucleic Acids Symposium Series (2004). 2008 | Pubmed ID: 18776534 Integration of Rous Sarcoma Virus DNA: a CA Dinucleotide is Not Required for Integration of the U3 End of Viral DNA Journal of Virology. Nov, 2008 | Pubmed ID: 18768972 Crystal Engineering of HIV-1 Reverse Transcriptase for Structure-based Drug Design Nucleic Acids Research. Sep, 2008 | Pubmed ID: 18676450 HIV-1 Reverse Transcriptase Connection Subdomain Mutations Reduce Template RNA Degradation and Enhance AZT Excision Proceedings of the National Academy of Sciences of the United States of America. Aug, 2008 | Pubmed ID: 18667707 Reduced Genotoxicity of Avian Sarcoma Leukosis Virus Vectors in Rhesus Long-term Repopulating Cells Compared to Standard Murine Retrovirus Vectors Molecular Therapy : the Journal of the American Society of Gene Therapy. Sep, 2008 | Pubmed ID: 18578011 The Effects of Alternate Polypurine Tracts (PPTs) and Mutations of Sequences Adjacent to the PPT on Viral Replication and Cleavage Specificity of the Rous Sarcoma Virus Reverse Transcriptase Journal of Virology. Sep, 2008 | Pubmed ID: 18562520 D-(+)-iso-methanocarbathymidine: a High-affinity Substrate for Herpes Simplex Virus 1 Thymidine Kinase ChemMedChem. Jul, 2008 | Pubmed ID: 18399509 High-resolution Structures of HIV-1 Reverse Transcriptase/TMC278 Complexes: Strategic Flexibility Explains Potency Against Resistance Mutations Proceedings of the National Academy of Sciences of the United States of America. Feb, 2008 | Pubmed ID: 18230722 Apparent Defects in Processive DNA Synthesis, Strand Transfer, and Primer Elongation of Met-184 Mutants of HIV-1 Reverse Transcriptase Derive Solely from a DNTP Utilization Defect The Journal of Biological Chemistry. Apr, 2008 | Pubmed ID: 18218634 Oncogenicity of DNA in Vivo: Tumor Induction with Expression Plasmids for Activated H-ras and C-myc Biologicals : Journal of the International Association of Biological Standardization. May, 2008 | Pubmed ID: 18218323 2,3-dihydro-6,7-dihydroxy-1H-isoindol-1-one-based HIV-1 Integrase Inhibitors Journal of Medicinal Chemistry. Jan, 2008 | Pubmed ID: 18095643 Mutations in the U5 Region Adjacent to the Primer Binding Site Affect TRNA Cleavage by Human Immunodeficiency Virus Type 1 Reverse Transcriptase in Vivo Journal of Virology. Jan, 2008 | Pubmed ID: 17989171 Rous Sarcoma Virus (RSV) Integration in Vivo: a CA Dinucleotide is Not Required in U3, and RSV Linear DNA Does Not Autointegrate Journal of Virology. Jan, 2008 | Pubmed ID: 17959663 Synthesis, Biological Activity, and Crystal Structure of Potent Nonnucleoside Inhibitors of HIV-1 Reverse Transcriptase That Retain Activity Against Mutant Forms of the Enzyme Journal of Medicinal Chemistry. Aug, 2007 | Pubmed ID: 17663538 Targeting to the Endoplasmic Reticulum Improves the Folding of Recombinant Human Telomerase Reverse Transcriptase Protein Expression and Purification. Nov, 2007 | Pubmed ID: 17658270 Transduction of Rhesus Macaque Hematopoietic Stem and Progenitor Cells with Avian Sarcoma and Leukosis Virus Vectors Human Gene Therapy. Aug, 2007 | Pubmed ID: 17655493 In Vitro Fidelity of the Prototype Primate Foamy Virus (PFV) RT Compared to HIV-1 RT Virology. Oct, 2007 | Pubmed ID: 17631930 The Nucleoside Analogs 4'C-methyl Thymidine and 4'C-ethyl Thymidine Block DNA Synthesis by Wild-type HIV-1 RT and Excision Proficient NRTI Resistant RT Variants Journal of Molecular Biology. Aug, 2007 | Pubmed ID: 17597154 Human T-cell Leukemia Virus Type 1 Integration Target Sites in the Human Genome: Comparison with Those of Other Retroviruses Journal of Virology. Jun, 2007 | Pubmed ID: 17409138 Analysis of Amino Acids in the Beta7-beta8 Loop of Human Immunodeficiency Virus Type 1 Reverse Transcriptase for Their Role in Virus Replication Journal of Molecular Biology. Feb, 2007 | Pubmed ID: 17141805 In Vitro Analysis of the Effects of Mutations in the G-tract of the Human Immunodeficiency Virus Type 1 Polypurine Tract on RNase H Cleavage Specificity Virology. Apr, 2007 | Pubmed ID: 17123564 Crystal Structures of Clinically Relevant Lys103Asn/Tyr181Cys Double Mutant HIV-1 Reverse Transcriptase in Complexes with ATP and Non-nucleoside Inhibitor HBY 097 Journal of Molecular Biology. Jan, 2007 | Pubmed ID: 17056061 HIV-1 Reverse Transcriptase Structure with RNase H Inhibitor Dihydroxy Benzoyl Naphthyl Hydrazone Bound at a Novel Site ACS Chemical Biology. Dec, 2006 | Pubmed ID: 17184135 Alternate Polypurine Tracts Affect Rous Sarcoma Virus Integration in Vivo Journal of Virology. Oct, 2006 | Pubmed ID: 17005708 Retrotransposon Suicide: Formation of Ty1 Circles and Autointegration Via a Central DNA Flap Journal of Virology. Dec, 2006 | Pubmed ID: 17005648 The History of N-methanocarbathymidine: the Investigation of a Conformational Concept Leads to the Discovery of a Potent and Selective Nucleoside Antiviral Agent Antiviral Research. Sep, 2006 | Pubmed ID: 16730077 Why Do HIV-1 and HIV-2 Use Different Pathways to Develop AZT Resistance? PLoS Pathogens. Feb, 2006 | Pubmed ID: 16485036 The Level of Reverse Transcriptase (RT) in Human Immunodeficiency Virus Type 1 Particles Affects Susceptibility to Nonnucleoside RT Inhibitors but Not to Lamivudine Journal of Virology. Mar, 2006 | Pubmed ID: 16474164 Combining Mutations in HIV-1 Reverse Transcriptase with Mutations in the HIV-1 Polypurine Tract Affects RNase H Cleavages Involved in PPT Utilization Virology. May, 2006 | Pubmed ID: 16473384 Mutations in the U5 Sequences Adjacent to the Primer Binding Site Do Not Affect TRNA Cleavage by Rous Sarcoma Virus RNase H but Do Cause Aberrant Integrations in Vivo Journal of Virology. Jan, 2006 | Pubmed ID: 16352569 Crystal Structures for HIV-1 Reverse Transcriptase in Complexes with Three Pyridinone Derivatives: a New Class of Non-nucleoside Inhibitors Effective Against a Broad Range of Drug-resistant Strains Journal of Medicinal Chemistry. Dec, 2005 | Pubmed ID: 16302798 Alternate Polypurine Tracts (PPTs) Affect the Rous Sarcoma Virus RNase H Cleavage Specificity and Reveal a Preferential Cleavage Following a GA Dinucleotide Sequence at the PPT-U3 Junction Journal of Virology. Nov, 2005 | Pubmed ID: 16227289 Mutations of a Residue Within the Polyproline-rich Region of Env Alter the Replication Rate and Level of Cytopathic Effects in Chimeric Avian Retroviral Vectors Journal of Virology. Aug, 2005 | Pubmed ID: 16051819 In Search of a Novel Anti-HIV Drug: Multidisciplinary Coordination in the Discovery of 4-[[4-[[4-[(1E)-2-cyanoethenyl]-2,6-dimethylphenyl]amino]-2- Pyrimidinyl]amino]benzonitrile (R278474, Rilpivirine) Journal of Medicinal Chemistry. Mar, 2005 | Pubmed ID: 15771434 Fixed Conformation Nucleoside Analogs Effectively Inhibit Excision-proficient HIV-1 Reverse Transcriptases Journal of Molecular Biology. Jan, 2005 | Pubmed ID: 15581889 Crystallography and the Design of Anti-AIDS Drugs: Conformational Flexibility and Positional Adaptability Are Important in the Design of Non-nucleoside HIV-1 Reverse Transcriptase Inhibitors Progress in Biophysics and Molecular Biology. Jun, 2005 | Pubmed ID: 15572156 Taking Aim at a Moving Target: Designing Drugs to Inhibit Drug-resistant HIV-1 Reverse Transcriptases Current Opinion in Structural Biology. Dec, 2004 | Pubmed ID: 15582396 In Vitro Characterization of a Simian Immunodeficiency Virus-human Immunodeficiency Virus (HIV) Chimera Expressing HIV Type 1 Reverse Transcriptase to Study Antiviral Resistance in Pigtail Macaques Journal of Virology. Dec, 2004 | Pubmed ID: 15564466 Effects of Mutations in the G Tract of the Human Immunodeficiency Virus Type 1 Polypurine Tract on Virus Replication and RNase H Cleavage Journal of Virology. Dec, 2004 | Pubmed ID: 15542682 A 4'-C-ethynyl-2',3'-dideoxynucleoside Analogue Highlights the Role of the 3'-OH in Anti-HIV Active 4'-C-ethynyl-2'-deoxy Nucleosides Journal of Medicinal Chemistry. Oct, 2004 | Pubmed ID: 15456247 The RCAS Vector System Folia Biologica. 2004 | Pubmed ID: 15373344 Effects of the Delta67 Complex of Mutations in Human Immunodeficiency Virus Type 1 Reverse Transcriptase on Nucleoside Analog Excision Journal of Virology. Sep, 2004 | Pubmed ID: 15331732 Identification of Glycosylation Sites in the SU Component of the Avian Sarcoma/Leukosis Virus Envelope Glycoprotein (Subgroup A) by Mass Spectrometry Virology. Aug, 2004 | Pubmed ID: 15262505 Designing Anti-AIDS Drugs Targeting the Major Mechanism of HIV-1 RT Resistance to Nucleoside Analog Drugs The International Journal of Biochemistry & Cell Biology. Sep, 2004 | Pubmed ID: 15183339 Characterization of the Polymerase and RNase H Activities of Human Foamy Virus Reverse Transcriptase Journal of Virology. Jun, 2004 | Pubmed ID: 15163704 Roles of Conformational and Positional Adaptability in Structure-based Design of TMC125-R165335 (etravirine) and Related Non-nucleoside Reverse Transcriptase Inhibitors That Are Highly Potent and Effective Against Wild-type and Drug-resistant HIV-1 Variants Journal of Medicinal Chemistry. May, 2004 | Pubmed ID: 15115397 Structures of HIV-1 RT-DNA Complexes Before and After Incorporation of the Anti-AIDS Drug Tenofovir Nature Structural & Molecular Biology. May, 2004 | Pubmed ID: 15107837 Mutations at Position 184 of Human Immunodeficiency Virus Type-1 Reverse Transcriptase Affect Virus Titer and Viral DNA Synthesis Virology. Apr, 2004 | Pubmed ID: 15063112 Nonnucleoside Inhibitor Binding Affects the Interactions of the Fingers Subdomain of Human Immunodeficiency Virus Type 1 Reverse Transcriptase with DNA Journal of Virology. Apr, 2004 | Pubmed ID: 15016861 PCR Amplification of DNA Containing Non-standard Base Pairs by Variants of Reverse Transcriptase from Human Immunodeficiency Virus-1 Nucleic Acids Research. 2004 | Pubmed ID: 14757837 HIV-1 Reverse Transcriptase Variants: Molecular Modeling of Y181C, V106A, L100I, and K103N Mutations with Nonnucleoside Inhibitors Using Monte Carlo Simulations in Combination with a Linear Response Method Drug Design and Discovery. 2003 | Pubmed ID: 15553926 Roles of Viral and Cellular Proteins in the Expression of Alternatively Spliced HTLV-1 PX MRNAs Virology. Dec, 2003 | Pubmed ID: 14675632 Mutations in the 5' End of the Human Immunodeficiency Virus Type 1 Polypurine Tract Affect RNase H Cleavage Specificity and Virus Titer Journal of Virology. Oct, 2003 | Pubmed ID: 14512562 On the Detection of Multiple-binding Modes of Ligands to Proteins, from Biological, Structural, and Modeling Data Journal of Computer-aided Molecular Design. Feb-Apr, 2003 | Pubmed ID: 13677481 Mutation of Amino Acids in the Connection Domain of Human Immunodeficiency Virus Type 1 Reverse Transcriptase That Contact the Template-primer Affects RNase H Activity Journal of Virology. Aug, 2003 | Pubmed ID: 12857924 A Conformationally Locked Analogue of the Anti-HIV Agent Stavudine. An Important Correlation Between Pseudorotation and Maximum Amplitude Journal of Medicinal Chemistry. Jul, 2003 | Pubmed ID: 12852759 Secondary Structure in the Nucleic Acid Affects the Rate of HIV-1 Nucleocapsid-mediated Strand Annealing Biochemistry. Jul, 2003 | Pubmed ID: 12846564 Molecular Modeling Calculations of HIV-1 Reverse Transcriptase Nonnucleoside Inhibitors: Correlation of Binding Energy with Biological Activity for Novel 2-aryl-substituted Benzimidazole Analogues Journal of Medicinal Chemistry. May, 2003 | Pubmed ID: 12723956 Trapping HIV-1 Reverse Transcriptase Before and After Translocation on DNA The Journal of Biological Chemistry. May, 2003 | Pubmed ID: 12554739 A Novel Mechanism for Inhibition of HIV-1 Reverse Transcriptase Bioorganic Chemistry. Dec, 2002 | Pubmed ID: 12642128 Structures of HIV-1 Reverse Transcriptase with Pre- and Post-translocation AZTMP-terminated DNA The EMBO Journal. Dec, 2002 | Pubmed ID: 12456667 Nucleoside Analog Resistance Caused by Insertions in the Fingers of Human Immunodeficiency Virus Type 1 Reverse Transcriptase Involves ATP-mediated Excision Journal of Virology. Sep, 2002 | Pubmed ID: 12186898 Mutation of the Catalytic Domain of the Foamy Virus Reverse Transcriptase Leads to Loss of Processivity and Infectivity Journal of Virology. Aug, 2002 | Pubmed ID: 12097569 Mutations in the RNase H Domain of HIV-1 Reverse Transcriptase Affect the Initiation of DNA Synthesis and the Specificity of RNase H Cleavage in Vivo Proceedings of the National Academy of Sciences of the United States of America. Jul, 2002 | Pubmed ID: 12093908 Nontemplated Nucleotide Addition by HIV-1 Reverse Transcriptase Biochemistry. May, 2002 | Pubmed ID: 11980493 Altering the RNase H Primer Grip of Human Immunodeficiency Virus Reverse Transcriptase Modifies Cleavage Specificity Biochemistry. Apr, 2002 | Pubmed ID: 11939780 Avian Bic, a Gene Isolated from a Common Retroviral Site in Avian Leukosis Virus-induced Lymphomas That Encodes a Noncoding RNA, Cooperates with C-myc in Lymphomagenesis and Erythroleukemogenesis Journal of Virology. May, 2002 | Pubmed ID: 11932393 Nontemplated Base Addition by HIV-1 RT Can Induce Nonspecific Strand Transfer in Vitro Virology. Mar, 2002 | Pubmed ID: 11886271 The M184V Mutation Reduces the Selective Excision of Zidovudine 5'-monophosphate (AZTMP) by the Reverse Transcriptase of Human Immunodeficiency Virus Type 1 Journal of Virology. Apr, 2002 | Pubmed ID: 11884549 Construction and Characterization of a Replication-competent Retroviral Shuttle Vector Plasmid Journal of Virology. Feb, 2002 | Pubmed ID: 11799171 Snelle screening van HIV reverse transcriptase en integrase-remmers Steven J. Smith1, Stephen H. Hughes1 1HIV Drug Resistance Program, National Cancer Institute JoVE 51400 Immunology and Infection
Snelle screening van HIV reverse transcriptase en integrase-remmers Steven J. Smith1, Stephen H. Hughes1 1HIV Drug Resistance Program, National Cancer Institute JoVE 51400 Immunology and Infection
