Douglas E. Smith
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View article: Systematic Parameter Selection for Short Fiber Polymer Composite Direct Fiber Simulation
Systematic Parameter Selection for Short Fiber Polymer Composite Direct Fiber Simulation Open
The orientation of fibers in short discontinuous fiber reinforced polymer composites is a critical factor in determining final mechanical and thermal properties. Tensor‐based models of fiber orientation are common but require difficult‐to‐…
View article: Single-molecule measurements of bacteriophage lambda DNA packaging using purified terminase motor proteins and E. coli integration host factor
Single-molecule measurements of bacteriophage lambda DNA packaging using purified terminase motor proteins and E. coli integration host factor Open
Biomotor-driven DNA packaging is a key step in the life cycle of many viruses. We previously developed single-molecule methods using optical tweezers to measure packaging dynamics of the bacteriophage lambda motor. The lambda system is mor…
View article: Reviewer #2 (Public Review): Regulation of phage lambda packaging motor-DNA interactions: Nucleotide independent and dependent gripping and friction
Reviewer #2 (Public Review): Regulation of phage lambda packaging motor-DNA interactions: Nucleotide independent and dependent gripping and friction Open
Many dsDNA viruses utilize ATP-powered "terminase" motors to package their genomes into procapsid shells. Here we use a single-molecule DNA grip/slip assay with rapid solution exchange to probe effects of nucleotide binding/dissociation in…
View article: Reviewer #1 (Public Review): Regulation of phage lambda packaging motor-DNA interactions: Nucleotide independent and dependent gripping and friction
Reviewer #1 (Public Review): Regulation of phage lambda packaging motor-DNA interactions: Nucleotide independent and dependent gripping and friction Open
Many dsDNA viruses utilize ATP-powered "terminase" motors to package their genomes into procapsid shells. Here we use a single-molecule DNA grip/slip assay with rapid solution exchange to probe effects of nucleotide binding/dissociation in…
View article: Regulation of phage lambda packaging motor-DNA interactions: Nucleotide independent and dependent gripping and friction
Regulation of phage lambda packaging motor-DNA interactions: Nucleotide independent and dependent gripping and friction Open
Many dsDNA viruses utilize ATP-powered “terminase” motors to package their genomes into procapsid shells. Here we use a single-molecule DNA grip/slip assay with rapid solution exchange to probe effects of nucleotide binding/dissociation in…
View article: Author Response: Regulation of phage lambda packaging motor-DNA interactions: Nucleotide independent and dependent gripping and friction
Author Response: Regulation of phage lambda packaging motor-DNA interactions: Nucleotide independent and dependent gripping and friction Open
Many dsDNA viruses utilize ATP-powered "terminase" motors to package their genomes into procapsid shells. Here we use a single-molecule DNA grip/slip assay with rapid solution exchange to probe effects of nucleotide binding/dissociation in…
View article: Regulation of phage lambda packaging motor-DNA interactions: Nucleotide independent and dependent gripping and friction
Regulation of phage lambda packaging motor-DNA interactions: Nucleotide independent and dependent gripping and friction Open
Many dsDNA viruses utilize ATP-powered “terminase” motors to package their genomes into procapsid shells. Here we use a single-molecule DNA grip/slip assay with rapid solution exchange to probe effects of nucleotide binding/dissociation in…
View article: Role of DNA–DNA sliding friction and nonequilibrium dynamics in viral genome ejection and packaging
Role of DNA–DNA sliding friction and nonequilibrium dynamics in viral genome ejection and packaging Open
Many viruses eject their DNA via a nanochannel in the viral shell, driven by internal forces arising from the high-density genome packing. The speed of DNA exit is controlled by friction forces that limit the molecular mobility, but the na…
View article: Role of DNA-DNA sliding friction and non-equilibrium dynamics in viral genome ejection and packaging
Role of DNA-DNA sliding friction and non-equilibrium dynamics in viral genome ejection and packaging Open
Many viruses eject their DNA via a nanochannel in the viral shell, driven by internal forces arising from the high-density genome packing. The speed of DNA exit is controlled by friction forces that limit the molecular mobility, but the na…
View article: Regulation of phage lambda packaging motor-DNA interactions: Nucleotide independent and dependent gripping and friction
Regulation of phage lambda packaging motor-DNA interactions: Nucleotide independent and dependent gripping and friction Open
Many dsDNA viruses utilize ATP-powered “terminase” motors to package their genomes into procapsid shells. Here we use a single-molecule DNA grip/slip assay with rapid solution exchange to probe effects of nucleotide binding/dissociation in…
View article: Measurement of the ($\pi^-$, Ar) total hadronic cross section at the LArIAT experiment
Measurement of the ($\pi^-$, Ar) total hadronic cross section at the LArIAT experiment Open
We present the first measurement of the negative pion total hadronic cross section on argon, which we performed at the Liquid Argon In A Testbeam (LArIAT) experiment. All hadronic reaction channels, as well as hadronic elastic interactions…
View article: Determining Trap Compliances, Microsphere Size Variations, and Response Linearities in Single DNA Molecule Elasticity Measurements with Optical Tweezers
Determining Trap Compliances, Microsphere Size Variations, and Response Linearities in Single DNA Molecule Elasticity Measurements with Optical Tweezers Open
We previously introduced the use of DNA molecules for calibration of biophysical force and displacement measurements with optical tweezers. Force and length scale factors can be determined from measurements of DNA stretching. Trap complian…
View article: Function of a viral genome packaging motor from bacteriophage T4 is insensitive to DNA sequence
Function of a viral genome packaging motor from bacteriophage T4 is insensitive to DNA sequence Open
Many viruses employ ATP-powered motors during assembly to translocate DNA into procapsid shells. Previous reports raise the question if motor function is modulated by substrate DNA sequence: (i) the phage T4 motor exhibits large translocat…
View article: Evidence that a catalytic glutamate and an ‘Arginine Toggle’ act in concert to mediate ATP hydrolysis and mechanochemical coupling in a viral DNA packaging motor
Evidence that a catalytic glutamate and an ‘Arginine Toggle’ act in concert to mediate ATP hydrolysis and mechanochemical coupling in a viral DNA packaging motor Open
ASCE ATPases include ring-translocases such as cellular helicases and viral DNA packaging motors (terminases). These motors have conserved Walker A and B motifs that bind Mg2+-ATP and a catalytic carboxylate that activates water for hydrol…
View article: Experimental comparison of forces resisting viral DNA packaging and driving DNA ejection
Experimental comparison of forces resisting viral DNA packaging and driving DNA ejection Open
We compare forces resisting DNA packaging and forces driving DNA ejection in bacteriophage phi29 with theoretical predictions. Ejection of DNA from prohead-motor complexes is triggered by heating complexes after in vitro packaging and forc…