Search Results - "Benevides, James M"

Raman Tensors and their application in structural studies of biological systems by TSUBOI, Masamichi, BENEVIDES, James M., THOMAS, George J., Jr

“…The Raman scattering of a molecule is generated by interactions of its electrons with incident light. The electric vector of the Raman scattered light is…”
Get full text

Structural Details of the Thermophilic Filamentous Bacteriophage PH75 Determined by Polarized Raman Microspectroscopy by Tsuboi, Masamichi, Benevides, James M, Bondre, Priya, Thomas, George J

“…The filamentous virus PH75, which infects the thermophile Thermus thermophilus, consists of a closed DNA strand of 6500 nucleotides encapsidated by 2700 copies…”
Get full text

Temperature dependence of the raman spectrum of DNA. Part I-Raman signatures of premelting and melting transitions of poly(dA-dT)·poly(dA-dT) by Movileanu, Liviu, Benevides, James M., Thomas Jr, George J.

“…Poly(dA–dT)· poly(dA–dT) is a double‐helical B DNA containing A· T and T· A base pairs in alternating sequence. Although Raman spectra of this structure have…”
Get full text

Raman, polarized Raman and ultraviolet resonance Raman spectroscopy of nucleic acids and their complexes by Benevides, James M., Overman, Stacy A., Thomas Jr, George J.

“…Applications of Raman spectroscopy to investigate the molecular constituents of nucleic acids were initiated in the late 1960s and soon thereafter progressed…”
Get full text

A Structural Model for the Single-Stranded DNA Genome of Filamentous Bacteriophage Pf1 by Tsuboi, Masamichi, Tsunoda, Masaru, Overman, Stacy A, Benevides, James M, Thomas, George J

“…The filamentous bacteriophage Pf1, which infects strain PAK of Pseudomonas aeruginosa, is a flexible filament (∼2000 × 6.5 nm) consisting of a covalently…”
Get full text

The Complex of Ethidium Bromide with Genomic DNA: Structure Analysis by Polarized Raman Spectroscopy by Tsuboi, Masamichi, Benevides, James M., Thomas, George J.

“…Structural properties of the complex formed between genomic DNA and the intercalating drug ethidium bromide (EtBr) have been determined by use of a Raman…”
Get full text

Structural basis of polyamine-DNA recognition: spermidine and spermine interactions with genomic B-DNAs of different GC content probed by Raman spectroscopy by Deng, H, Bloomfield, V A, Benevides, J M, Thomas, Jr, G J

“…Four genomic DNAs of differing GC content (Micrococcus luteus, 72% GC; Escherichia coli, 50% GC; calf thymus, 42% GC; Clostridium perfringens, 27% GC) have…”
Get full text

Membrane structure and interactions with protein and DNA in bacteriophage PRD1 by Bamford, Dennis H, Stuart, David I, Cockburn, Joseph J. B, Abrescia, Nicola G. A, Grimes, Jonathan M, Sutton, Geoffrey C, Diprose, Jonathan M, Benevides, James M, Thomas, George J, Bamford, Jaana K. H

“…Membranes are essential for selectively controlling the passage of molecules in and out of cells and mediating the response of cells to their environment…”
Get full text

Orientations of Tyr 21 and Tyr 24 in the Capsid of Filamentous Virus Ff Determined by Polarized Raman Spectroscopy by Tsuboi, Masamichi, Ushizawa, Koichi, Nakamura, Koji, Benevides, James M, Overman, Stacy A, Thomas, George J

“…The capsid of filamentous virus Ff is assembled from ∼2750 copies of a 50-residue α-helical subunit, the two tyrosines of which (Tyr 21 and Tyr 24) are located…”
Get full text

Mechanisms of Specific and Nonspecific Binding of Architectural Proteins in Prokaryotic Gene Regulation by Benevides, James M, Danahy, Jessica, Kawakami, Jessica, Thomas, George J

“…IHF and HU are small basic proteins of eubacteria that bind as homodimers to double-stranded DNA and bend the duplex to promote architectures required for gene…”
Get full text

Mechanisms of drug-DNA recognition distinguished by Raman spectroscopy by Benevides, James M., Kawakami, Jessica, Thomas Jr, George J.

“…The highly chromophoric drugs, ethidium bromide (EtBr), 9‐aminoacridine (9AA) and proflavine (PF) (3,6‐diaminoacridine) bind to DNA by insertion of a…”
Get full text

Dependence of the Raman signature of genomic B-DNA on nucleotide base sequence by Deng, Hong, Bloomfield, Victor A., Benevides, James M., Thomas Jr, George J.

“…The vibrational spectra of four genomic and two synthetic DNAs, encompassing a wide range in base composition [poly(dA‐dT)·poly(dA‐dT), 0% G + C; Clostridium…”
Get full text

Local Conformational Changes Induced in B-DNA by Ethidium Intercalation by Benevides, James M, Thomas, George J

“…Structural effects of binding the intercalating drug ethidium bromide (EtBr) to 160 base pair (bp) fragments of nucleosomal calf thymus DNA have been probed by…”
Get full text

Temperature dependence of the raman spectrum of DNA. II. Raman signatures of premelting and melting transitions of poly(dA)·poly(dT) and comparison with poly(dA-dT)·poly(dA-dT) by Movileanu, Liviu, Benevides, James M., Thomas Jr, George J.

“…The temperature dependence of the Raman spectrum of poly(dA)·poly(dT) (dA: deoxyadenosine; dT: thymidine), a model for DNA containing consecutive…”
Get full text

Secondary structure polymorphism in Oxytricha nova telomeric DNA by Krafft, Christoph, Benevides, James M., Thomas, George J.

“…Tandem repeats of the telomeric DNA sequence d(T4G4) of Oxytricha nova are capable of forming unusually stable secondary structures incorporating Hoogsteen…”
Get full text

Raman spectroscopy of proteins by Benevides, James M, Overman, Stacy A, Thomas, Jr, George J

“…A protein Raman spectrum comprises discrete bands representing vibrational modes of the peptide backbone and its side chains. The spectral positions,…”
Get more information

Structural Perturbations Induced in Linear and Circular DNA by the Architectural Protein HU from Bacillus stearothermophilus by Benevides, James M, Serban, Doinita, Thomas, George J

“…HU is a small DNA-binding protein of eubacteria that is believed to induce or stabilize bending of the double helix and mediate nucleoid compaction in vivo…”
Get full text

Determination of base and backbone contributions to the thermodynamics of premelting and melting transitions in B DNA by Movileanu, Liviu, Benevides, James M., Thomas Jr, George J.

“…In previous papers of this series the temperature‐dependent Raman spectra of poly(dA)·poly(dT) and poly(dA–dT)·poly(dA–dT) were used to characterize…”
Get full text

Characterization of Subunit-Specific Interactions in a Double-Stranded RNA Virus:  Raman Difference Spectroscopy of the φ6 Procapsid by Benevides, James M, Juuti, Jarmo T, Tuma, Roman, Bamford, Dennis H, Thomas, George J

“…The icosahedral core of a double-stranded (ds) RNA virus hosts RNA-dependent polymerase activity and provides the molecular machinery for RNA packaging. The…”
Get full text

Local Raman tensors of double-helical DNA in the crystal: a basis for determining DNA residue orientations by Benevides, James M, Tsuboi, Masamichi, Wang, Andrew H. J, Thomas, George J

“…We report the first experimental determination of Raman scattering tensors for localized base and sugar-phosphate vibrations of double-helical DNA. Argon-laser…”
Get full text