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At least 217 records · Page 12

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DOE OSTI2021

The Role of Hydrophobic Nodes in the Dynamics of Class A β-Lactamases

Class A β-lactamases are known for being able to rapidly gain broad spectrum catalytic efficiency against most β-lactamase inhibitor combinations as a result of elusively minor point mutations. The evolution in class A β-lactamases occurs through optimisation of their dynamic phenotypes at different timescales. At long-timescales, certain conformations are more catalytically permissive than others while at the short timescales, fine-grained optimisation of free energy barriers can improve efficiency in ligand processing by the active site. Free energy barriers, which define all coordinated movements, depend on the flexibility of the secondary structural elements. The most highly conserved residues in class A β-lactamases are hydrophobic nodes that stabilize the core. To assess how the stable hydrophobic core is linked to the structural dynamics of the active site, we carried out adaptively sampled molecular dynamics (MD) simulations in four representative class A β-lactamases (KPC-2, SME-1, TEM-1, and SHV-1). Using Markov State Models (MSM) and unsupervised deep learning, we show that the dynamics of the hydrophobic nodes is used as a metastable relay of kinetic information within the core and is coupled with the catalytically permissive conformation of the active site environment. Finally, our results collectively demonstrate that the class A enzymes described here, share several important dynamic similarities and the hydrophobic nodes comprise of an informative set of dynamic variables in representative class A β-lactamases.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2024

Description of Pegethrix niliensis sp. nov., a Novel Cyanobacterium from the Nile River Basin, Egypt: A Polyphasic Analysis and Comparative Study of Related Genera in the Oculatellales Order

In this paper, we examine the filamentous cyanobacterial strain NILCB16 and describe it as a new species within the genus Pegethrix. The original population was sampled from a mat growing in an irrigation canal in the Nile River, Egypt. Initially classified under Plectonema or Planktolyngbya, the strain is a potential producer of the toxins microcystin and β-N-Methylamino-L-Alanine (BMAA). Additionally, we reviewed the taxonomic relationships between the Oculatellales genera. To describe the new species, we conducted a polyphasic study, encompassing 16S rRNA gene phylogenetic analyses performed using both Maximum Likelihood and Bayesian methods, sequence identity (p-distance) analysis, 16S-23S ITS secondary structures, and morphological and habitat comparisons. The phylogenetic analysis revealed that strain NILCB16 clustered within the Pegethrix clade with strong phylogenetic support, but in a distinct position from other species in the genus. The strain shared a maximum 16S rRNA gene identity of 97.3% with P. qiandaoensis and 96.1% with the type species, P. bostrychoides. Morphologically, NILCB16 can be differentiated from other species in the genus by its lack of false branching. Our phylogenetic analyses also show that Pegethrix, Cartusia, Elainella, and Maricoleus are clustered with strong phylogenetic support. They exhibit high 16S rRNA gene identity and are morphologically indistinguishable, suggesting they could potentially be merged into a single genus in the future.

Hentschke, Guilherme Scotta (ORCID:000000034396024↗

NASA NTRS1976

Sequence characterization of 5S ribosomal RNA from eight gram positive procaryotes

Complete nucleotide sequences are presented for 5S rRNA from Bacillus subtilis, B. firmus, B. pasteurii, B. brevis, Lactobacillus brevis, and Streptococcus faecalis, and 5S rRNA oligonucleotide catalogs and partial sequence data are given for B. cereus and Sporosarcina ureae. These data demonstrate a striking consistency of 5S rRNA primary and secondary structure within a given bacterial grouping. An exception is B. brevis, in which the 5S rRNA sequence varies significantly from that of other bacilli in the tuned helix and the procaryotic loop. The localization of these variations suggests that B. brevis occupies an ecological niche that selects such changes. It is noted that this organism produces antibiotics which affect ribosome function.

Woese, C. R.↗

NASA NTRS1977

Flight service evaluation of Kevlar-49/epoxy composite panels in wide-bodied commercial transport aircraft

Kevlar-49 fairing panels, installed as flight service components on three L-1011s, were inspected after three years' service, and found to be performing satisfactorily. There are six Kevlar-49 panels on each aircraft, including sandwich and solid laminate wing-body panels, and 150 C service aft engine fairings. The service history to date indicates that Kevlar-49 epoxy composite materials have satisfactory service characteristics for use in aircraft secondary structure.

Stone, R. H.↗

NASA NTRS1979

Results of transonic tests in the NASA/MSFC 14-inch trisonic wind tunnel on a 0.004-scale model (74-OTS) space shuttle launch vehicle (FA25)

The primary objective of the test was to determine the aerodynamic increments due to the attach structure. Secondary objectives were to determine the effects of: (1) orbiter nose mold line changes; (2) wire bundle fairings on data measurements; and (3) flow angularity. The scale model was tested over the Mach range from 0.60 to 1.25 at angles of attack and sideslip from -8 to +8 deg. The total pressure was 22 psia for all runs. Six-component orbiter data were obtained from a balance in the orbiter which was sting supported. The external tank was attached to the solid rocket booster, each of which was sting supported. An alternate two sting/two balance arrangement was also tested with a single sting and balance in the external tank measuring combined ET/SRB aero data replacing the two stings in the SRB's. Two runs were also made at Mach number 4.96 with the two SRB's removed. The aerodynamic coefficients obtained are tabulated as a function of angle of attack or sideslip for each Mach number value.

Lundy, T. E.↗

NASA NTRS1978

Propagation of cosmic rays in extragalactic radio sources

A model of extragalactic radio sources is considered which assumes that relativistic electrons carry energy from the central galaxy to the radio lobes and also emit the radio waves. It is suggested that the radio emission is confined to an axis because electrons propagate parallel to the magnetic field more readily than perpendicular to it and that symmetric radio lobes appear on this axis because electrons are deposited at supercoherent transitions far from the central galaxy, where they propagate diffusively. The slow drift velocities that characterize this propagation are shown to explain the secondary structure between the main lobes and to establish a relationship between double sources and galactic radio trails.

Earl, J. A.↗

NASA NTRS1980

Current and projected use of carbon composites in United States aircraft

It is noted that carbon composite materials are beginning to be used in commercial transports, general aviation aircraft, military fighter aircraft and helicopters due to demonstrated weight savings and potential manufacturing cost savings. Attention is given to current production applications of carbon composites which range from the secondary structures of new commercial transports to wing primary structures of fighters. Current development efforts are discussed that will lead to their future application to fuselages, as well as whole airframes. Finally, laminate constructions which vary widely, and may be relevant to avionics system design, are examined.

Leonard, R. W.↗

NASA NTRS1980

An active alignment scheme for the MPTS array

In order to achieve and maintain required flatness of the antenna array, a rotating laser beam used for leveling applications on earth was utilized as a reference system. A photoconductive sensor with a reflective collecting surface determines the displacement and polarity of any misalignment and automatically engages a stepping motor to drive a variable-length mechanism to make the necessary corrections. Once aligned, little power is dissipated since a nulling bridge circuit that centers on the beam is used. A three-point subarray alignment arrangement is described which independently adjusts, in the three orthogonal directions, the height and tilt of subarrays within the MPTS array and readily adapts to any physical distortions of the secondary structure (such as that resulting from severe temperature extremes caused by an eclipse of the Sun). It is shown that only one rotating laser system is required since optical blockage is minimal on the array surface and that it is possible to incorporate a number of redundant laser systems for reliability without affecting the overall performance.

Iwasaki, R.↗

NASA NTRS1980

Aircraft wing weight build-up methodology with modification for materials and construction techniques

An aircraft wing weight estimating method based on a component buildup technique is described. A simplified analytically derived beam model, modified by a regression analysis, is used to estimate the wing box weight, utilizing a data base of 50 actual airplane wing weights. Factors representing materials and methods of construction were derived and incorporated into the basic wing box equations. Weight penalties to the wing box for fuel, engines, landing gear, stores and fold or pivot are also included. Methods for estimating the weight of additional items (secondary structure, control surfaces) have the option of using details available at the design stage (i.e., wing box area, flap area) or default values based on actual aircraft from the data base.

York, P.↗

NASA NTRS1981

Flight service evaluation of kevlar-49 epoxy composite panels in wide-bodied commercial transport aircraft: Flight service report

Kevlar-49 fairing panels, installed as flight service components on three L-1011s, were inspected after 7 years service. There are six Kevlar-49 panels on each aircraft: a left hand and right hand set of a wing-body sandwich fairing; a slid laminate under-wing fillet panel; and a 422 K service aft engine fairing. The three L-1011s include one each in service with Eastern, Air Canada, and TWA. The fairings have accumulated a total of 52,500 hours, with one ship set having 17.700 hours service. The inspections were conducted at the airlines' major maintenance bases with the participation of Lockheed Engineering. The Kevlar-49 components were found to be performing satisfactorily in service with no major problems or any condition requiring corrective action. The only defects noted were minor impact damage and a minor degree of fastener hole fraying and elongation. These are for the most part comparable to damage noted on fiberglass fairings. The service history to date indicates that Kevlar-49 epoxy composite materials have satisfactory service characteristics for use in aircraft secondary structure.

Stone, R. H.↗

NASA NTRS1981

The nucleotide sequence of Beneckea harveyi 5S rRNA

The primary sequence of the 5S ribosomal RNA isolated from the free-living bioluminescent marine bacterium Beneckea harveyi is reported and discussed in regard to indications of phylogenetic relationships with the bacteria Escherichia coli and Photobacterium phosphoreum. Sequences were determined for oligonucleotide products generated by digestion with ribonuclease T1, pancreatic ribonuclease and ribonuclease T2. The presence of heterogeneity is indicated for two sites. The B. harveyi sequence can be arranged into the same four helix secondary structures as E. coli and other prokaryotic 5S rRNAs. Examination of the 5S-RNS sequences of the three bacteria indicates that B. harveyi and P. phosphoreum are specifically related and share a common ancestor which diverged from an ancestor of E. coli at a somewhat earlier time, consistent with previous studies.

Luehrsen, K. R.↗

NASA NTRS1982

Flight service evaluation of Kevlar-49 epoxy composite panels in wide-bodied commercial transport aircraft

Kevlar-49 fairing panels, installed as flight service components on three l-1011's, were inspected after 8 years service. The fairings had accumulated a total of 62,000 hours, with one ship set having 20,850 hours service. Kevlar-49 components were found to be performing satisfactorily in service with no major problems. The only defects noted were minor impact damage, a few minor disbonds and a minor degree of fastener hole fraying and elongation. The service history to date indicates that Kevlar-49 epoxy composite materials have satisfactory service characteristics for use in aircraft secondary structures.

Stone, R. H.↗

NASA NTRS1982

Noise and economic characteristics of an advanced blended supersonic transport concept

Noise and economic characteristics were obtained for an advanced supersonic transport concept that utilized wing body blending, a double bypass variable cycle engine, superplastically formed and diffusion bonded titanium in both the primary and secondary structures, and an alternative interior arrangement that provides increased seating capacity. The configuration has a cruise Mach number of 2.62, provisions for 290 passengers, a mission range of 8.19 Mm (4423 n.mi.), and an average operating cruise lift drag ratio of 9.23. Advanced operating procedures, which have the potential to reduce airport community noise, were explored by using a simulator. Traded jet noise levels of 105.7 and 103.4 EPNdB were obtained by using standard and advanced takeoff operational procedures, respectively. A new method for predicting lateral attenuation was utilized in obtaining these jet noise levels.

Molloy, J. K.↗

NASA NTRS1982

Mission peculiar equipment /MPE/ for Spacelab Mission 1 payload

A variety of payload integrator-furnished, Mission Peculiar Equipment (MPE) has been incorporated by the Spacelab Mission 1 payload complement in order to satisfy each payload developer's interface and service requirements. Attention is given to the design features of secondary structures, the NASA Experiment Power Branching Distributor and ESA Junction Box, module cabling and vent lines, and passive thermal protection. A major task to be fulfilled during payload integration is the satisfaction of all instrument and facility servicing requirements without mutual interference.

Sims, J. H.↗

NASA NTRS1983

Sequence of the 16S ribosomal RNA from Halobacterium volcanii, an archaebacterium

The sequence of the 16S ribosomal RNA (rRNA) from the archaebacterium Halobacterium volcanii has been determined by DNA sequencing methods. The archaebacterial rRNA is similar to its eubacterial counterpart in secondary structure. Although it is closer in sequence to the eubacterial 16S rRNA than to the eukaryotic 16S-like rRNA, the H. volcanii sequence also shows certain points of specific similarity to its eukaryotic counterpart. Since the H. volcanii sequence is closer to both the eubacterial and the eukaryotic sequences than these two are to one another, it follows that the archaebacterial sequence resembles their common ancestral sequence more closely than does either of the other two versions.

Gupta, R.↗

NASA NTRS1983

Flight service evaluation of Kevlar-49 epoxy composite panels in wide-bodies commercial transport aircraft

Kevlar-49 fairing panels, installed as flight service components on three L-1011s, were inspected after 9 years of service. There are six Kevlar-49 panels on each aircraft: a left hand and right hand set of a wing body sandwich fairing; a solid laminate under wing fillet panel; and a 422 K (300 F) service aft engine fairing. The fairings have accumulated a total of 70,000 hours, with one ship set having over 24,000 hours service. The Kevlar-49 components were found to be performing satisfactorily in service with no major problems, or any condition requiring corrective action. The only defects noted were minor impact damage, a few minor disbonds and a minor degree of fastener hole fraying and elongation. These are for the most part comparable to damage noted on fiberglass fairings. The service history to date indicates that Kevlar-49 epoxy composite materials have satisfactory service characteristics for use in aircraft secondary structure.

Stone, R. H.↗

NASA NTRS1984

Flight service evaluation of Kevlar-49 epoxy composite panels in wide-bodied commercial transport aircraft

Kevlar-49 fairing panels, installed as flight service components on three L-1011s, were inspected after 10 years of service. There are six Kevlar-49 panels on each aircraft: a left-hand and right-hand set of a wing-body sandwich fairing; a solid laminate under-wing fillet panel; and a 422 K (300 F) service aft engine fairing. The three L-1011s include one each in service with Eastern, Air Canada, and TWA. The fairings have accumulated a total of 79,568 hours, with one ship set having nearly 28,000 hours service. The inspections were conducted at the airlines' major maintenance bases with the participation of Lockheed Engineering. The Kevlar-49 components were found to be performing satisfactorily in service with no major problems, or any condition requiring corrective action. The only defects noted were minor impact damage, a few minor disbonds and a minor degree of fastener hole fraying and elongation. These are for the most part comparable to damage noted on fiberglass fairings. The service history obtained in this program indicates that Kevlar-49 epoxy composite materials have satisfactory service characteristics for use in aircraft secondary structure.

Stone, R. H.↗

NASA NTRS1983

Preliminary evaluation of large area bonding processes for repair of graphite/polyimide composites

It is pointed out that graphite/polyimide (Gr/PI) composites are potential candidates for primary and secondary structural components in the next generation of reusable space vehicles and supersonic aircraft which are to possess operational capabilities involving the temperature range from 400 to 600 F. In connection with the considered applications, it is necessary to establish economic and reliable methods for the repair of Gr/PI composite components which have been damaged. The present investigation is concerned with the results of research conducted to develop a bonding process applicable to the repair of large areas in Gr/PI composite structural components. Attention is given to five repair techniques for Gr/PI composite materials. The techniques were employed to fabricate large panels from which flexure and short-beam-shear specimens were machined.

Deaton, J. W.↗