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  • Articles  (116,531)
  • Wiley  (112,239)
  • Annual Reviews
  • 2000-2004  (49,194)
  • 1985-1989  (35,736)
  • 1980-1984  (31,601)
  • Chemistry and Pharmacology  (60,745)
  • Geosciences  (31,203)
  • Agriculture, Forestry, Horticulture, Fishery, Domestic Science, Nutrition  (22,404)
  • Architecture, Civil Engineering, Surveying  (9,253)
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  • Articles  (116,531)
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  • 1
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Earth and Planetary Sciences 10 (1982), S. 235-256 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
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  • 2
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Earth and Planetary Sciences 13 (1985), S. 29-47 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
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  • 3
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Earth and Planetary Sciences 13 (1985), S. 175-199 
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  • 4
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Earth and Planetary Sciences 13 (1985), S. 297-314 
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  • 5
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Earth and Planetary Sciences 15 (1987), S. 73-95 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
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  • 6
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Earth and Planetary Sciences 15 (1987), S. 171-212 
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  • 7
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Earth and Planetary Sciences 13 (1985), S. 345-383 
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  • 8
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Earth and Planetary Sciences 13 (1985), S. 269-296 
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  • 9
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Earth and Planetary Sciences 13 (1985), S. 385-428 
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  • 10
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Earth and Planetary Sciences 15 (1987), S. 1-24 
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  • 11
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Earth and Planetary Sciences 15 (1987), S. 97-113 
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  • 12
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Earth and Planetary Sciences 17 (1989), S. 335-360 
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  • 13
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Earth and Planetary Sciences 17 (1989), S. 361-384 
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  • 14
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Earth and Planetary Sciences 17 (1989), S. 439-472 
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  • 15
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Earth and Planetary Sciences 17 (1989), S. 1-13 
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  • 16
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Earth and Planetary Sciences 28 (2000), S. 419-475 
    ISSN: 0084-6597
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Geosciences , Physics
    Notes: Abstract This survey of the current status of research into Earth's orbitally forced paleoclimatic record summarizes recent developments in the theory of Earth's orbital parameters, and reviews how various techniques of data collection and analysis have fared in the search and recovery of orbital signals in ancient stratigraphy. The emerging significance of the quasi-periodicity of Earth's orbital variations as a principal tool in the analysis of orbitally forced stratigraphy is discussed in detail. Five case studies are presented that illustrate new directions in research: (a) time series analysis of discontinuous strata; (b) measurement of ultra-high resolution stratigraphic signals; (c) new perspectives on the 100 kyr Pleistocene glaciation problem; (d) stratigraphic evidence for solar system resonance modes; and (e) evaluating Phanerozoic length of day from orbitally forced stratigraphy.
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  • 17
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Earth and Planetary Sciences 28 (2000), S. 571-610 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Geosciences , Physics
    Notes: Abstract Theories of scaling apply wherever similarity exists across many scales. This similarity may be found in geometry and in dynamical processes. Universality arises when the qualitative character of a system is sufficient to quantitatively predict its essential features, such as the exponents that characterize scaling laws. Within geomorphology, two areas where the concepts of scaling and universality have found application are the geometry of river networks and the statistical structure of topography. We begin this review with a pedagogical presentation of scaling and universality. We then describe recent progress made in applying these ideas to networks and topography. This overview leads to a synthesis that attempts a classification of surface and network properties based on generic mechanisms and geometric constraints. We also briefly review how scaling and universality have been applied to related problems in sedimentology-specifically, the origin of stromatolites and the relation of the statistical properties of submarine-canyon topography to the size distribution of turbidite deposits. Throughout the review, our intention is to elucidate not only the problems that can be solved using these concepts, but also those that cannot.
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  • 18
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    Annual Review of Earth and Planetary Sciences 29 (2001), S. 47-69 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
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    Notes: Abstract This paper reviews recent research focused on the Earth's inner core. Large inner-core traveltime anomalies and the anomalous splitting of core-sensitive free oscillations strongly suggest that the inner core is anisotropic. Initial models involved a simple, constant or depth-dependent cylindrical anisotropy at a level less than a few percent. Recent observations suggest that its eastern hemisphere is largely isotropic, whereas its western hemisphere is highly anisotropic, and there are indications that its top 100 km may be isotropic. The coda of inner-core reflected phases has been used to infer strong heterogeneities with a length scale of just a few kilometers. Thus, a complicated three-dimensional picture of the inner core is beginning to emerge, although it has been suggested that much of this complexity may be the misinterpretation of signals that have their origin in the lowermost mantle. Numerical models of the geodynamo suggest that the inner core may rotate at a slightly different rate than the mantle. Recent seismological estimates based upon traveltime and normal-mode data limit inner-core differential rotation to less than +0.2 degrees per year.
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  • 19
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Earth and Planetary Sciences 29 (2001), S. 135-163 
    ISSN: 0084-6597
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Geosciences , Physics
    Notes: Abstract The recycling of elements by plants and plant-induced biological activity cause the rates and products of weathering to be markedly different from what would result in abiotic processes. Plants directly control water dynamics, weathering, and the chemistry of weathering solutions, which is clearly exhibited in equatorial areas where old weathering mantles are greatly influenced by biological activity. Depending on the dynamics of plant-induced organometallic compounds, this weathering results in either clayey soils, which are in a dynamic equilibrium sustained by the forest's cycling of elements, or sandy soils. In most places (tropical as well temperate areas), the weathering mantle can be regarded as being in a dynamic equilibrium sustained by plants.
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  • 20
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Earth and Planetary Sciences 30 (2002), S. 65-88 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Geosciences , Physics
    Notes: Abstract Molecular and paleontological data provide independent means of estimating when groups of organisms evolved in the geological past, but neither approach can be considered straightforward. The single most fundamental obstacle to developing an accurate estimate of times of origination from gene sequence data is variation in rates of molecular evolution, both through time and among lineages. Although various techniques have been proposed to circumvent this problem, none unambiguously allow the components of time and rate to be separated. Furthermore, problems of establishing accurate calibration points, correctly rooted phylogenies, and accurate estimates of branch length remain formidable. Conversely, paleontological dates fix only the latest possible time of divergence, and so probabilistic methods are required to set a lower boundary on origination dates. Realistic confidence intervals that take preservational biases into account are only just becoming available. Although molecular and paleontological approaches to dating often agree reasonably well, there are two notable areas of disagreement; when mammal and bird orders originated and when the major phyla originated. The discrepancy in dating bird/mammal ordinal origins probably reflects a global rock-record bias. Paleontological sampling in the Late Cretaceous is still too restricted geographically to draw any firm conclusions about the existence of a pre-Tertiary record for modern orders of bird or mammal from anywhere other than North America. Dating the time of origin of phyla is more complicated, and is confounded by both preservational biases and problems of molecular clock estimation.
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  • 21
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    Annual Review of Earth and Planetary Sciences 30 (2002), S. 207-235 
    ISSN: 0084-6597
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Geosciences , Physics
    Notes: Abstract The subducted lithosphere is composed of a complex pattern of chemical systems that undergo continuous and discontinuous phase transformation, through pressure and temperature variations. Volatile recycling plays a major geodynamic role in triggering mass transfer, melting, and volcanism. Although buoyancy forces are controlled by modal amounts of the most abundant phases, usually volatile-free, petrogenesis and chemical differentiation are controlled by the occurrence of minor phases, most of them volatile-bearing. Devolatilization of the subducted lithosphere is a continuous process distributed over more than 300 km of the slab-mantle interface. Melting of the subducted crust, if any, along sufficiently hot P-T paths, is governed by fluid-absent reactions, even though the difference between fluid and melt vanishes at pressures above the second critical end point. The density distribution at a depth of 660 km suggests episodic penetration in space and time of subducted slabs into the lower mantle and sinking down to the D" region at the core-mantle boundary.
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  • 22
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    Annual Review of Earth and Planetary Sciences 30 (2002), S. 307-345 
    ISSN: 0084-6597
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Geosciences , Physics
    Notes: Abstract Pluto and Charon, once thought to be a singular system in an odd orbit at the edge of the solar system, are now known as members of a vast population of icy bodies beyond Neptune. Models for the occurrence of the odd orbit and formation of these bodies in the context of the total population are reviewed. Pluto's orbital characteristics, coupled with the existence of volatiles on the surface, suggest that large-scale seasonal change should occur on the surface. Models of seasonal variability are discussed, past and current observations are examined for evidence of variability, and a straw-man model of seasonal changes is proposed. Finally, recent observations of the surface composition of Charon are discussed and compared with observations of other similarly sized icy bodies in the outer Solar System.
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  • 23
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    Annual Review of Earth and Planetary Sciences 31 (2003), S. 555-577 
    ISSN: 0084-6597
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Geosciences , Physics
    Notes: Abstract We present preliminary evidence for a ~10,000-year earthquake record from two major fault systems based on sediment cores collected along the continental margins of western North America. New stratigraphic evidence from Cascadia demonstrates that 13 earthquakes ruptured the entire margin from Vancouver Island to at least the California border since the eruption of the Mazama ash 7700 years ago. The 13 events above this prominent stratigraphic marker have an average repeat time of 600 years, and the youngest event ~300 years ago coincides with the coastal record. We also extend the record of past earthquakes to the base of the Holocene (at least 9800 years ago), during which 18 events correlate along the same region. The sequence of Holocene events in Cascadia appears to contain a repeating pattern of events, a tantalizing first look at what may be the long-term behavior of a major fault system. The northern California margin cores show a cyclic record of turbidite beds that may represent Holocene earthquakes on the northern segment of the San Andreas Fault. Preliminary results are in reasonably good agreement with onshore paleoseismic data that indicate an age for the penultimate event in the mid-1600s at several sites and the most likely age for the third event of ~AD 1300.
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  • 24
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    Annual Review of Earth and Planetary Sciences 32 (2004), S. 363-401 
    ISSN: 0084-6597
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Geosciences , Physics
    Notes: The nation has over 40,000 metric tonnes (MT) of nuclear waste destined for disposal in a geologic repository at Yucca Mountain. In this review, we highlight some of the important geoscience issues associated with the project and place them in the context of the process by which a final decision on Yucca Mountain will be made. The issues include understanding how water could infiltrate the repository, corrode the canisters, dissolve the waste, and transport it to the biosphere during a 10,000-year compliance period in a region, the Basin and Range province, that is known for seismic and volcanic activity. Although the site is considered to be "dry," a considerable amount of water is present as pore waters and as structural water in zeolites. The geochemical environment is oxidizing, and the present repository design will maintain temperatures at greater than 100oC for thousands of years. Geoscientists in this project are challenged to make unprecedented predictions about coupled thermal, hydrologic, mechanical, and geochemical processes governing the future behavior of the repository and to conduct research in a regulatory and legal environment that requires a quantitative analysis of repository performance.
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    Annual Review of Earth and Planetary Sciences 32 (2004), S. 403-433 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Geosciences , Physics
    Notes: The migration of the Mendocino triple junction through central and northern California over the past 25-30 million years has led to a profound change in plate interactions along coastal California. The tectonic consequences of the abrupt change from subduction plate interactions north of the triple junction to the development of the San Andreas transform system south of the triple junction can be seen in the geologic record and geophysical observations. The primary driver of this tectonism is a coupling among the subducting Juan de Fuca (Gorda), North American, and Pacific plates that migrates with the triple junction. This coupling leads to ephemeral thickening of the overlying North American crust, associated uplift and subsequent subsidence, and a distinctive sequence of fault development and volcanism.
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    Annual Review of Earth and Planetary Sciences 32 (2004), S. 151-185 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Geosciences , Physics
    Notes: Bedrock rivers set much of the relief structure of active orogens and dictate rates and patterns of denudation. Quantitative understanding of the role of climate-driven denudation in the evolution of unglaciated orogens depends first and foremost on knowledge of fluvial erosion processes and the factors that control incision rate. The results of intense research in the past decade are reviewed here, with the aim of highlighting remaining unknowns and suggesting fruitful avenues for further research. This review considers in turn (a) the occurrence and morphology of bedrock channels and their relation to tectonic setting; (b) the physical processes of fluvial incision into rock; and (c) models of river incision, their implications, and the field and laboratory data needed to test, refine, and extend them.
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    Annual Review of Earth and Planetary Sciences 31 (2003), S. 399-427 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Geosciences , Physics
    Notes: Abstract Considerable progress has been made over the past decade in understanding the static rheological properties of granitic magmas in the continental crust. Changes in H2O content, CO2 content, and oxidation state of the interstitial melt phase have been identified as important compositional factors governing the rheodynamic behavior of the solid/fluid mixture. Although the strengths of granitic magmas over the crystallization interval are still poorly constrained, theoretical investigations suggest that during magma ascent, yield strengths of the order of 9 kPa are required to completely retard the upward flow in meter-wide conduits. In low Bagnold number magma suspensions with moderate crystal contents (solidosities 0.1 〈=phi〈= 0.3), viscous fluctuations may lead to flow differentiation by shear-enhanced diffusion. AMS and microstructural studies support the idea that granite plutons are intruded as crystal-poor liquids (phi〈= 50%), with fabric and foliation development restricted to the final stages of emplacement. If so, then these fabrics contain no information on the ascent (vertical transport) history of the magma. Deformation of a magmatic mush during pluton emplacement can enhance significantly the pressure gradient in the melt, resulting in a range of local macroscopic flow structures, including layering, crystal alignment, and other mechanical instabilities such as shear zones. As the suspension viscosity varies with stress rate, it is not clear how the timing of proposed rheological transitions formulated from simple equations for static magma suspensions applies to mixtures undergoing shear. New theories of magmas as multiphase flows are required if the full complexity of granitic magma rheology is to be resolved.
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    Annual Review of Earth and Planetary Sciences 31 (2003), S. 579-594 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Geosciences , Physics
    Notes: Abstract Is El Nino one phase of a continual, self-sustaining natural mode of the coupled ocean-atmosphere that has La Nina as the complementary phase? Or is El Nino a temporary departure from "normal" conditions "triggered" by a random disturbance such as a burst of westerly winds? A growing body of evidence-stability analyses, studies of the energetics, simulations that reproduce the statistics of sea surface temperature variations in the eastern equatorial Pacific-indicates that reality corresponds to a compromise between these two possibilities: The observed Southern Oscillation between El Nino and La Nina corresponds to a weakly damped mode that is sustained by random disturbances. This means that the predictability of El Nino is limited by the continual presence of "noise" so that forecasts should be probabilistic. The Southern Oscillation is also subject to decadal modulations. How it will be influenced by global warming is a matter of considerable uncertainty.
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  • 29
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    Annual Review of Earth and Planetary Sciences 32 (2004), S. 47-66 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
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    Notes: Computer models are used to mimic the early evolution of ancient vascular plants (tracheophytes). These models have three components: (a) an N-dimensional domain of all mathematically conceivable ancient morphologies (a morphospace); (b) a numerical assessment of the ability (fitness) of each morphology to intercept light, maintain mechanical stability, conserve water, and produce and disperse spores; and (c) an algorithm that searches the morphospace for successively more fit variants (an adaptive walk). Beginning with the most ancient known plant form, evolution is simulated by locating neighboring morphologies that progressively perform one or more tasks more efficiently. The resulting simulated adaptive walks indicate that early tracheophyte evolution involved optimizing the performance of many tasks simultaneously rather than maximizing the performance of one or only a few tasks individually, and that the requirement for optimization accelerated the tempo of morphological evolution in the Silurian and Devonian.
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    Annual Review of Earth and Planetary Sciences 32 (2004), S. 465-494 
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    Topics: Geosciences , Physics
    Notes: Models of processes in the alpine snow cover fundamentally depend on the spatial distribution of the surface energy balance over areas where topographic variability causes huge differences in the incoming solar radiation and in snow depth because of redistribution by wind. At a spatial scale commensurate with that of the terrain, we want to know which areas are covered by snow, and we want to estimate the snow's spectral albedo, along with other properties such as grain size, contaminants, temperature, liquid water content, and depth or water equivalent. From multispectral and hyperspectral remote sensing at wavelengths from 0.4-15 mum, the retrievable properties include snow-covered area, albedo, grain size, liquid water very near the surface, and temperature. Spectral mixture analysis allows the retrieval of the subpixel variability of snow-covered area, along with the snow's albedo. Remaining research challenges include the remote sensing of absorbing impurities; accounting for variability in the bidirectional-reflectance distribution function and the variability of grain size with depth; retrieving snow cover in forested regions; reconciling field measurements of emissivity with snow properties; and adapting the algorithms to frequent, large-scale processing.
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    Annual Review of Earth and Planetary Sciences 32 (2004), S. 601-652 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Geosciences , Physics
    Notes: We examine the genetics of marine diversification along the West Coast of North America in relation to the Late Neogene geology and climate of the region. Trophically important components of the diverse West Coast fauna, including kelp, alcid birds (e.g., auks, puffins), salmon, rockfish, abalone, and Cancer crabs, appear to have radiated during peaks of upwelling primarily in the Late Miocene and in some cases secondarily in the Pleistocene. Phylogeographic barriers associated with Mio-Pliocene estuaries of the mid-California coast, the Pliocene opening of the Gulf of California, tectonic and eustatic evolution of the California Bight, as well as the influence of Pleistocene and Holocene climate change on genetic structure are assessed in a geologic context. Comparisons to East Coast and western freshwater systems, as well as upwelling systems around the globe, provide perspective for the survey.
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    Annual Review of Earth and Planetary Sciences 32 (2004), S. 215-255 
    ISSN: 0084-6597
    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Geosciences , Physics
    Notes: Measurements of cosmogenic nuclides, predominately 10Be, allow new insights into the ways in which and the rates at which sediment is generated, transported, and deposited over timescales ranging from 103 to 106 years. Samples from rock exposures are used to estimate erosion rates at points on the landscape, whereas samples of fluvial sediment provide estimates of basin-scale rates of denudation integrated over 〈1 to 〉104 km2. Nuclide data show that hilltop, bare rock outcrops erode more slowly than basins as a whole, suggesting the potential for relief to increase over time as well-drained outcrops grow higher. More elaborate experiments and interpretive models provide insight into the distribution of hillslope processes, including the bedrock-to-soil conversion rate, which appears to increase under shallow soil cover and then decrease under deeper soils. Changes in average nuclide activity down slopes can be used to estimate grain speed over millennia, suggesting, for example, that sediment on desert piedmonts moves, on average, decimeters to meters per year. In other cases, changes in nuclide activity down river networks or along shorelines can be interpreted with mixing models to indicate sediment sources. Sediment deposition rates in otherwise undateable deposits can now be estimated by analyzing samples collected from depth profiles. Over the past decade, the analysis and interpretation of cosmogenic nuclides has given geomorphologists an unprecedented opportunity to measure rates and infer the distribution of geomorphic processes across Earth's varied landscapes. Long-standing models of landscape change can now be tested quantitatively.
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    Annual Review of Earth and Planetary Sciences 32 (2004), S. 257-285 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
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    Notes: Avulsion is the natural process by which flow diverts out of an established river channel into a new permanent course on the adjacent floodplain. Avulsions are primarily features of aggrading floodplains. Their recurrence interval varies widely among the few modern rivers for which such data exist, ranging from as low as 28 years for the Kosi River (India) to up to 1400 years for the Mississippi. Avulsions cause loss of life, property damage, destabilization of shipping and irrigation channels, and even coastal erosion as sediment is temporarily sequestered on the floodplain. They are also the main process that builds alluvial stratigraphy. Their causes remain relatively unknown, but stability analyses of bifurcating channels suggest that thresholds in the relative energy slope and Shields parameter of the bifurcating channel system are key factors.
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    Palo Alto, Calif. : Annual Reviews
    Annual Review of Earth and Planetary Sciences 9 (1981), S. 59-80 
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    Annual Review of Earth and Planetary Sciences 8 (1980), S. 65-93 
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    Annual Review of Biochemistry 50 (1981), S. 815-843 
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    Annual Review of Biochemistry 69 (2000), S. 115-144 
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    Notes: Abstract The faithful segregation of genetic information requires highly orchestrated changes of chromosome structure during the mitotic cell cycle. The linkage between duplicated sister DNAs is established during S phase and maintained throughout G2 phase (cohesion). In early mitosis, dramatic structural changes occur to produce metaphase chromosomes, each consisting of a pair of compacted sister chromatids (condensation). At anaphase onset, a signal is produced to disrupt the linkage between sister chromatids (separation), allowing them to be pulled apart to opposite poles of the cell. This review discusses our current understanding of the three stages of large-scale structural changes of chromosomes in eukaryotic cells. Recent genetic and biochemical studies have identified key components involved in these processes and started to uncover hitherto unexpected functional links between mitotic chromosome dynamics and other important chromosome functions.
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    Annual Review of Biochemistry 69 (2000), S. 69-93 
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    Notes: Abstract An unconventional mechanism for retaining improperly folded glycoproteins and facilitating acquisition of their native tertiary and quaternary structures operates in the endoplasmic reticulum. Recognition of folding glycoproteins by two resident lectins, membrane-bound calnexin and its soluble homolog, calreticulin, is mediated by protein-linked monoglucosylated oligosaccharides. These oligosaccharides contain glucose (Glc), mannose (Man), and N-acetylglucosamine (GlcNAc) in the general form Glc1Man7-9GlcNAc2. They are formed by glucosidase I- and II-catalyzed partial deglucosylation of the oligosaccharide transferred from dolichol diphosphate derivatives to Asn residues in nascent polypeptide chains (Glc3Man9GlcNAc2). Further deglucosylation of the oligosaccharides by glucosidase II liberates glycoproteins from their calnexin/calreticulin anchors. Monoglucosylated glycans are then recreated by the UDP-Glc:glycoprotein glucosyltransferase (GT), and thus recognized again by the lectins, only when linked to improperly folded protein moieties, as GT behaves as a sensor of glycoprotein conformations. The deglucosylation-reglucosylation cycle continues until proper folding is achieved. The lectin-monoglucosylated oligosaccharide interaction is one of the alternative ways by which cells retain improperly folded glycoproteins in the endoplasmic reticulum. Although it decreases the folding rate, it increases folding efficiency, prevents premature glycoprotein oligomerization and degradation, and suppresses formation of nonnative disulfide bonds by hindering aggregation and thus allowing interaction of protein moieties of folding glycoproteins with classical chaperones and other proteins that assist in folding.
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    Annual Review of Biochemistry 70 (2001), S. 149-180 
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    Notes: Abstract The three-dimensional structures of tryptophan synthase, carbamoyl phosphate synthetase, glutamine phosphoribosylpyrophosphate amidotransferase, and asparagine synthetase have revealed the relative locations of multiple active sites within these proteins. In all of these polyfunctional enzymes, a product formed from the catalytic reaction at one active site is a substrate for an enzymatic reaction at a distal active site. Reaction intermediates are translocated from one active site to the next through the participation of an intermolecular tunnel. The tunnel in tryptophan synthase is ~25 A in length, whereas the tunnel in carbamoyl phosphate synthetase is nearly 100 A long. Kinetic studies have demonstrated that the individual reactions are coordinated through allosteric coupling of one active site with another. The participation of these molecular tunnels is thought to protect reactive intermediates from coming in contact with the external medium.
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    Annual Review of Biochemistry 70 (2001), S. 1-37 
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    Notes: Abstract I was fortunate to practice science during the last half of the previous century, when many basic biological and biochemical concepts could be experimentally addressed for the first time. My introduction to research involved isolating and identifying intermediates in the niacin biosynthetic pathway. These studies were followed by investigations focused on determining the properties of genes and enzymes essential to metabolism and examining how they were alterable by mutation. The most challenging problem I initially attacked was establishing the colinear relationship between gene and protein. Subsequent research emphasized identification and characterization of regulatory mechanisms that microorganisms use to control gene expression. An elaborate regulatory strategy, transcription attenuation, was discovered that is often based on selection between alternative RNA structures. Throughout my career I enjoyed the excitement of solving basic scientific problems. Most rewarding, however, was the feeling that I was helping young scientists experience the pleasure of performing creative research.
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    Annual Review of Biochemistry 70 (2001), S. 181-208 
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    Notes: Abstract The elaborate process of genomic replication requires a large collection of proteins properly assembled at a DNA replication fork. Several decades of research on the bacterium Escherichia coli and its bacteriophages T4 and T7 have defined the roles of many proteins central to DNA replication. These three different prokaryotic replication systems use the same fundamental components for synthesis at a moving DNA replication fork even though the number and nature of some individual proteins are different and many lack extensive sequence homology. The components of the replication complex can be grouped into functional categories as follows: DNA polymerase, helix destabilizing protein, polymerase accessory factors, and primosome (DNA helicase and DNA primase activities). The replication of DNA derives from a multistep enzymatic pathway that features the assembly of accessory factors and polymerases into a functional holoenzyme; the separation of the double-stranded template DNA by helicase activity and its coupling to the primase synthesis of RNA primers to initiate Okazaki fragment synthesis; and the continuous and discontinuous synthesis of the leading and lagging daughter strands by the polymerases. This review summarizes and compares and contrasts for these three systems the types, timing, and mechanism of reactions and of protein-protein interactions required to initiate, control, and coordinate the synthesis of the leading and lagging strands at a DNA replication fork and comments on their generality.
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    Annual Review of Biochemistry 70 (2001), S. 369-413 
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    Notes: Abstract DNA topoisomerases solve the topological problems associated with DNA replication, transcription, recombination, and chromatin remodeling by introducing temporary single- or double-strand breaks in the DNA. In addition, these enzymes fine-tune the steady-state level of DNA supercoiling both to facilitate protein interactions with the DNA and to prevent excessive supercoiling that is deleterious. In recent years, the crystal structures of a number of topoisomerase fragments, representing nearly all the known classes of enzymes, have been solved. These structures provide remarkable insights into the mechanisms of these enzymes and complement previous conclusions based on biochemical analyses. Surprisingly, despite little or no sequence homology, both type IA and type IIA topoisomerases from prokaryotes and the type IIA enzymes from eukaryotes share structural folds that appear to reflect functional motifs within critical regions of the enzymes. The type IB enzymes are structurally distinct from all other known topoisomerases but are similar to a class of enzymes referred to as tyrosine recombinases. The structural themes common to all topoisomerases include hinged clamps that open and close to bind DNA, the presence of DNA binding cavities for temporary storage of DNA segments, and the coupling of protein conformational changes to DNA rotation or DNA movement. For the type II topoisomerases, the binding and hydrolysis of ATP further modulate conformational changes in the enzymes to effect changes in DNA topology.
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    Notes: Abstract The 3-phosphorylated inositol lipids fulfill roles as second messengers by interacting with the lipid binding domains of a variety of cellular proteins. Such interactions can affect the subcellular localization and aggregation of target proteins, and through allosteric effects, their activity. Generation of 3-phosphoinositides has been documented to influence diverse cellular pathways and hence alter a spectrum of fundamental cellular activities. This review is focused on the 3-phosphoinositide lipids, the synthesis of which is acutely triggered by extracellular stimuli, the enzymes responsible for their synthesis and metabolism, and their cell biological roles. Much knowledge has recently been gained through structural insights into the lipid kinases, their interaction with inhibitors, and the way their 3-phosphoinositide products interact with protein targets. This field is now moving toward a genetic dissection of 3-phosphoinositide action in a variety of model organisms. Such approaches will reveal the true role of the 3-phosphoinositides at the organismal level in health and disease.
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    Annual Review of Biochemistry 70 (2001), S. 755-775 
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    Notes: Abstract The signal recognition particle (SRP) and its membrane-associated receptor (SR) catalyze targeting of nascent secretory and membrane proteins to the protein translocation apparatus of the cell. Components of the SRP pathway and salient features of the molecular mechanism of SRP-dependent protein targeting are conserved in all three kingdoms of life. Recent advances in the structure determination of a number of key components in the eukaryotic and prokaryotic SRP pathway provide new insight into the molecular basis of SRP function, and they set the stage for future work toward an integrated picture that takes into account the dynamic and contextual properties of this remarkable cellular machine.
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    Annual Review of Biochemistry 70 (2001), S. 777-810 
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    Notes: Abstract Viral envelope glycoproteins promote viral infection by mediating the fusion of the viral membrane with the host-cell membrane. Structural and biochemical studies of two viral glycoproteins, influenza hemagglutinin and HIV-1 envelope protein, have led to a common model for viral entry. The fusion mechanism involves a transient conformational species that can be targeted by therapeutic strategies. This mechanism of infectivity is likely utilized by a wide variety of enveloped viruses for which similar therapeutic interventions should be possible.
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    Annual Review of Biochemistry 71 (2002), S. 247-273 
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    Notes: Abstract It has been a long-standing challenge to decipher the principles that enable cells to both organize their genomes into compact chromatin and ensure that the genetic information remains accessible to regulatory factors and enzymes within the confines of the nucleus. The discovery of nucleosome remodeling activities that utilize the energy of ATP to render nucleosomal DNA accessible has been a great leap forward. In vitro, these enzymes weaken the tight wrapping of DNA around the histone octamers, thereby facilitating the sliding of histone octamers to neighboring DNA segments, their displacement to unlinked DNA, and the accumulation of patches of accessible DNA on the surface of nucleosomes. It is presumed that the collective action of these enzymes endows chromatin with dynamic properties that govern all nuclear functions dealing with chromatin as a substrate. The diverse set of ATPases that qualify as the molecular motors of the nucleosome remodeling process have a common history and are part of a superfamily. The physiological context of their remodeling action builds on the association with a wide range of other proteins to form distinct complexes for nucleosome remodeling. This review summarizes the recent progress in our understanding of the mechanisms underlying the nucleosome remodeling reaction, the targeting of remodeling machines to selected sites in chromatin, and their integration into complex regulatory schemes.
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    Annual Review of Biochemistry 71 (2002), S. 165-189 
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    Notes: Abstract Ribonuclease P (RNase P) is an essential endonuclease that acts early in the tRNA biogenesis pathway. This enzyme catalyzes cleavage of the leader sequence of precursor tRNAs (pre-tRNAs), generating the mature 5' end of tRNAs. RNase P activities have been identified in Bacteria, Archaea, and Eucarya, as well as organelles. Most forms of RNase P are ribonucleoproteins, i.e., they consist of an essential RNA subunit and protein subunits, although the composition of the enzyme in mitochondria and chloroplasts is still under debate. The recent purification of the eukaryotic nuclear RNase P has demonstrated a significantly larger protein content compared to the bacterial enzyme. Moreover, emerging evidence suggests that the eukaryotic RNase P has evolved into at least two related nuclear enzymes with distinct functions, RNase P and RNase MRP. Here we review current information on RNase P, with emphasis on the composition, structure, and functions of the eukaryotic nuclear holoenzyme, and its relationship with RNase MRP.
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    Annual Review of Biochemistry 71 (2002), S. 333-374 
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    Notes: Abstract The maintenance of the eukaryotic genome requires precisely coordinated replication of the entire genome each time a cell divides. To achieve this coordination, eukaryotic cells use an ordered series of steps to form several key protein assemblies at origins of replication. Recent studies have identified many of the protein components of these complexes and the time during the cell cycle they assemble at the origin. Interestingly, despite distinct differences in origin structure, the identity and order of assembly of eukaryotic replication factors is highly conserved across all species. This review describes our current understanding of these events and how they are coordinated with cell cycle progression. We focus on bringing together the results from different organisms to provide a coherent model of the events of initiation. We emphasize recent progress in determining the function of the different replication factors once they have been assembled at the origin.
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    Annual Review of Biochemistry 53 (1984), S. 537-572 
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    Annual Review of Biochemistry 71 (2002), S. 307-331 
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    Notes: Abstract The core apparatus that regulates circadian rhythm has been extensively studied over the past five years. A looming question remains, however, regarding how this apparatus is adjusted to maintain coordination between physiology and the changing environment. The diversity of stimuli and input pathways that gain access to the circadian clock are summarized. Cellular metabolic states could serve to link physiologic perception of the environment to the circadian oscillatory apparatus. A simple model, integrating biochemical, cellular, and physiologic data, is presented to account for the connection of cellular metabolism and circadian rhythm.
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    Annual Review of Biochemistry 71 (2002), S. 375-403 
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    Notes: Abstract Ubiquitous in eukaryotic cells, the La protein associates with the 3' termini of many newly synthesized small RNAs. RNAs bound by the La protein include all nascent transcripts made by RNA polymerase III as well as certain small RNAs synthesized by other RNA polymerases. Recent genetic and biochemical analyses have revealed that binding by the La protein protects the 3' ends of these RNAs from exonucleases. This La-mediated stabilization is required for the normal pathway of pre-tRNA maturation, facilitates assembly of small RNAs into functional RNA-protein complexes, and contributes to nuclear retention of certain small RNAs. Studies of mutant La proteins have given some insights into how the La protein specifically recognizes its RNA targets. However, many questions remain regarding the molecular mechanisms by which La protein binding influences multiple steps in small RNA biogenesis. This review focuses on the roles of the La protein in small RNA biogenesis and also discusses data that implicate the La protein in the translation of specific mRNAs.
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    Annual Review of Biochemistry 71 (2002), S. 537-592 
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    Topics: Chemistry and Pharmacology , Biology
    Notes: Abstract The ATP-binding cassette (ABC) transporters are a family of large proteins in membranes and are able to transport a variety of compounds through membranes against steep concentration gradients at the cost of ATP hydrolysis. The available outline of the human genome contains 48 ABC genes; 16 of these have a known function and 14 are associated with a defined human disease. Major physiological functions of ABC transporters include the transport of lipids, bile salts, toxic compounds, and peptides for antigen presentation or other purposes. We review the functions of mammalian ABC transporters, emphasizing biochemical mechanisms and genetic defects. Our overview illustrates the importance of ABC transporters in human physiology, toxicology, pharmacology, and disease. We focus on three topics: (a) ABC transporters transporting drugs (xenotoxins) and drug conjugates. (b) Mammalian secretory epithelia using ABC transporters to excrete a large number of substances, sometimes against a steep concentration gradient. Several inborn errors in liver metabolism are due to mutations in one of the genes for these pumps; these are discussed. (c) A rapidly increasing number of ABC transporters are found to play a role in lipid transport. Defects in each of these transporters are involved in human inborn or acquired diseases.
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    Annual Review of Biochemistry 71 (2002), S. 755-781 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Chemistry and Pharmacology , Biology
    Notes: Abstract The existence and function of actin in the nucleus has been hotly debated for forty years. Recently, beta-actin was found to be a component of mammalian SWI/SNF-like BAF chromatin remodeling complexes and still more recently other SWI/SNF-related chromatin remodeling complexes in yeast, flies, and man. Although the function of actin in these chromatin remodeling complexes is only starting to be explored, the fact that actin is one of the most regulated proteins in the cell suggests that control of nuclear actin may be a critical regulatory point in the control of chromatin remodeling. Actin rapidly shuttles between the nucleus and the cytoplasm offering additional sites and modes of regulation. In addition, actin-related proteins (Arps) are also components of these chromatin remodeling complexes and have been implicated in transcriptional control in yeast. The observation that the BAF chromatin remodeling complex in which actin was originally identified, is also a human tumor suppressor complex necessary for the actions of the retinoblastoma protein indicates that the study of nuclear actin is likely to contribute to understanding cell growth control.
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    Annual Review of Biochemistry 71 (2002), S. 847-885 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Chemistry and Pharmacology , Biology
    Notes: Abstract Enzymes are called upon to differ greatly in the difficulty of the tasks that they perform. The catalytic proficiency of an enzyme can be evaluated by comparing the second-order rate constant (kcat/Km) with the rate of the spontaneous reaction in neutral solution in the absence of a catalyst. The proficiencies of enzymes, measured in this way, are matched by their affinity constants for the altered substrate in the transition state. These values vary from approximately ~109 M-1 for carbonic anhydrase to ~1023 M-1 for yeast orotidine 5'-phosphate decarboxylase (ODCase). ODCase turns its substrate over with a half-time of 18 ms, in a reaction that proceeds in its absence with a half-time of 78 million years in neutral solution. ODCase differs from other decarboxylases in that its catalytic activity does not depend on the presence of metals or other cofactors, or on the formation of a covalent bond to the substrate. Several mechanisms of transition state stabilization are considered in terms of ODCase crystal structures observed in the presence and absence of bound analogs of the substrate, transition state, and product. Very large connectivity effects are indicated by the results of experiments testing how transition state stabilization is affected by the truncation of binding determinants of the substrate and the active site.
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    Annual Review of Biochemistry 54 (1985), S. 597-629 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
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    Annual Review of Biochemistry 54 (1985), S. 631-664 
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    Annual Review of Biochemistry 72 (2003), S. 743-781 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Chemistry and Pharmacology , Biology
    Notes: Abstract The p21-activated kinases (PAKs) 1-3 are serine/threonine protein kinases whose activity is stimulated by the binding of active Rac and Cdc42 GTPases. Our understanding of the regulation and biology of these important signaling proteins has increased tremendously since their discovery in the mid-1990s. PAKs 1-3 are activated by a variety of GTPase-dependent and -independent mechanisms. This complexity reflects the contributions of PAK function in many cellular signaling pathways and the need to carefully control PAK action in a highly localized manner. PAKs serve as important regulators of cytoskeletal dynamics and cell motility, transcription through MAP kinase cascades, death and survival signaling, and cell-cycle progression. Consequently, PAKs have also been implicated in a number of pathological conditions and in cell transformation. We propose here a key role for PAK action in coordinating the dynamics of the actin and microtubule cytoskeletons during directional motility of cells, as well as in other functions requiring cytoskeletal polarization.
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    Annual Review of Biochemistry 54 (1985), S. 803-830 
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    Annual Review of Biochemistry 73 (2004), S. 269-292 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Chemistry and Pharmacology , Biology
    Notes: The structures of the Ca2+-ATPase (SERCA1a) have been determined for five different states by X-ray crystallography. Detailed comparison of the structures in the Ca2+ bound form and unbound (but thapsigargin bound) form reveals that very large rearrangements of the transmembrane helices take place accompanying Ca2+ dissociation and binding and that they are mechanically linked with equally large movements of the cytoplasmic domains. The meanings of the rearrangements of the transmembrane helices and those of the cytoplasmic domains as well as the mechanistic roles of phosphorylation are now becoming clear. Furthermore, the roles of critical amino acid residues identified by extensive mutagenesis studies are becoming evident in terms of atomic structure.
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    Annual Review of Biochemistry 73 (2004), S. 467-489 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Chemistry and Pharmacology , Biology
    Notes: The bacterial TolC protein plays a common role in the expulsion of diverse molecules, which include protein toxins and antibacterial drugs, from the cell. TolC is a trimeric 12-stranded alpha/beta barrel, comprising an alpha-helical trans-periplasmic tunnel embedded in the outer membrane by a contiguous beta-barrel channel. This structure establishes a 140 A long single pore fundamentally different to other membrane proteins and presents an exit duct to substrates, large and small, engaged at specific inner membrane translocases. TolC is open to the outside medium but is closed at its periplasmic entrance. When TolC is recruited by a substrate-laden translocase, the entrance is opened to allow substrate passage through a contiguous machinery spanning the entire cell envelope, from the cytosol to the external environment. Transition to the transient open state is achieved by an iris-like mechanism in which entrance alpha-helices undergo an untwisting realignment, thought to be stabilized by interaction with periplasmic helices of the translocase. TolC family proteins are ubiquitous among gram-negative bacteria, and the conserved entrance aperture presents a possible cheomotherapeutic target in multidrug-resistant pathogens.
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    Annual Review of Biochemistry 73 (2004), S. 177-208 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Chemistry and Pharmacology , Biology
    Notes: Telomeres are essential for genome stability in all eukaryotes. Changes in telomere functions and the associated chromosomal abnormalities have been implicated in human aging and cancer. Telomeres are composed of repetitive sequences that can be maintained by telomerase, a complex containing a reverse transcriptase (hTERT in humans and Est2 in budding yeast), a template RNA (hTERC in humans and Tlc1 in yeast), and accessory factors (the Est1 proteins and dyskerin in humans and Est1, Est3, and Sm proteins in budding yeast). Telomerase is regulated in cis by proteins that bind to telomeric DNA. This regulation can take place at the telomere terminus, involving single-stranded DNA-binding proteins (POT1 in humans and Cdc13 in budding yeast), which have been proposed to contribute to the recruitment of telomerase and may also regulate the extent or frequency of elongation. In addition, proteins that bind along the length of the telomere (TRF1/TIN2/tankyrase in humans and Rap1/Rif1/Rif2 in budding yeast) are part of a negative feedback loop that regulates telomere length. Here we discuss the details of telomerase and its regulation by the telomere.
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    Annual Review of Biochemistry 73 (2004), S. 559-587 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Chemistry and Pharmacology , Biology
    Notes: Protein S-palmitoylation is the thioester linkage of long-chain fatty acids to cysteine residues in proteins. Addition of palmitate to proteins facilitates their membrane interactions and trafficking, and it modulates protein-protein interactions and enzyme activity. The reversibility of palmitoylation makes it an attractive mechanism for regulating protein activity, and this feature has generated intensive investigation of this modification. The regulation of palmitoylation occurs through the actions of protein acyltransferases and protein acylthioesterases. Identification of the protein acyltransferases Erf2/Erf4 and Akr1 in yeast has provided new insight into the palmitoylation reaction. These molecules work in concert with thioesterases, such as acyl-protein thioesterase 1, to regulate the palmitoylation status of numerous signaling molecules, ultimately influencing their function. This review discusses the function and regulation of protein palmitoylation, focusing on intracellular proteins that participate in cell signaling or protein trafficking.
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    Annual Review of Biochemistry 73 (2004), S. 991-1018 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Chemistry and Pharmacology , Biology
    Notes: Cytochrome P450 enzymes are heme-containing monooxygenases that are named after an absorption band at 450 nm when complexed with carbon monoxide. They catalyze a wide variety of reactions and are unique in their ability to hydroxylate nonactivated hydrocarbons. P450 enzymes are involved in numerous biological processes, which include the biosynthesis of lipids, steroids, antibiotics, and the degradation of xenobiotics. In line with the variety of reactions catalyzed, the size of their substrates varies significantly. Some P450s have open active sites (e.g., BM3), and some have shielded active sites that open only transiently (e.g., P450cam), whereas others bind the substrate only when attached to carrier proteins (e.g., Oxy proteins). Structural aspects of both organic and gaseous ligand binding and electron transfer are described.
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    Annual Review of Biochemistry 73 (2004), S. 241-268 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Chemistry and Pharmacology , Biology
    Notes: ATP-binding cassette (ABC) transporters couple ATP hydrolysis to the uptake and efflux of solutes across the cell membrane in bacteria and eukaryotic cells. In bacteria, these transporters are important virulence factors because they play roles in nutrient uptake and in secretion of toxins and antimicrobial agents. In humans, many diseases, such as cystic fibrosis, hyperinsulinemia, and macular dystrophy, are traced to defects in ABC transporters. Recent advances in structural determination and functional analysis of bacterial ABC transporters, reviewed herein, have greatly increased our understanding of the molecular mechanism of transport in this transport superfamily.
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    Annual Review of Biochemistry 73 (2004), S. 791-836 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Chemistry and Pharmacology , Biology
    Notes: Just as Darwinian evolution in nature has led to the development of many sophisticated enzymes, Darwinian evolution in vitro has proven to be a powerful approach for obtaining similar results in the laboratory. This review focuses on the development of nucleic acid enzymes starting from a population of random-sequence RNA or DNA molecules. In order to illustrate the principles and practice of in vitro evolution, two especially well-studied categories of catalytic nucleic acid are considered: RNA enzymes that catalyze the template-directed ligation of RNA and DNA enzymes that catalyze the cleavage of RNA. The former reaction, which involves attack of a 2'- or 3'-hydroxyl on the alpha-phosphate of a 5'-triphosphate, is more difficult. It requires a comparatively larger catalytic motif, containing more nucleotides than can be sampled exhaustively within a starting population of random-sequence RNAs. The latter reaction involves deprotonation of the 2'-hydroxyl adjacent to the cleavage site, resulting in cleaved products that bear a 2',3'-cyclic phosphate and 5'-hydroxyl. The difficulty of this reaction, and therefore the complexity of the corresponding DNA enzyme, depends on whether a catalytic cofactor, such as a divalent metal cation or small molecule, is present in the reaction mixture.
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    Annual Review of Biochemistry 73 (2004), S. 147-176 
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    Topics: Chemistry and Pharmacology , Biology
    Notes: The genetic code is established by the aminoacylation of transfer RNA, reactions in which each amino acid is linked to its cognate tRNA that, in turn, harbors the nucleotide triplet (anticodon) specific to the amino acid. The accuracy of aminoacylation is essential for building and maintaining the universal tree of life. The ability to manipulate and expand the code holds promise for the development of new methods to create novel proteins and to understand the origins of life. Recent efforts to manipulate the genetic code have fulfilled much of this potential. These efforts have led to incorporation of nonnatural amino acids into proteins for a variety of applications and have demonstrated the plausibility of specific proposals for early evolution of the code.
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    Annual Review of Biochemistry 73 (2004), S. 39-85 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Chemistry and Pharmacology , Biology
    Notes: DNA damage is a relatively common event in the life of a cell and may lead to mutation, cancer, and cellular or organismic death. Damage to DNA induces several cellular responses that enable the cell either to eliminate or cope with the damage or to activate a programmed cell death process, presumably to eliminate cells with potentially catastrophic mutations. These DNA damage response reactions include: (a) removal of DNA damage and restoration of the continuity of the DNA duplex; (b) activation of a DNA damage checkpoint, which arrests cell cycle progression so as to allow for repair and prevention of the transmission of damaged or incompletely replicated chromosomes; (c) transcriptional response, which causes changes in the transcription profile that may be beneficial to the cell; and (d) apoptosis, which eliminates heavily damaged or seriously deregulated cells. DNA repair mechanisms include direct repair, base excision repair, nucleotide excision repair, double-strand break repair, and cross-link repair. The DNA damage checkpoints employ damage sensor proteins, such as ATM, ATR, the Rad17-RFC complex, and the 9-1-1 complex, to detect DNA damage and to initiate signal transduction cascades that employ Chk1 and Chk2 Ser/Thr kinases and Cdc25 phosphatases. The signal transducers activate p53 and inactivate cyclin-dependent kinases to inhibit cell cycle progression from G1 to S (the G1/S checkpoint), DNA replication (the intra-S checkpoint), or G2 to mitosis (the G2/M checkpoint). In this review the molecular mechanisms of DNA repair and the DNA damage checkpoints in mammalian cells are analyzed.
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    Annual Review of Biochemistry 73 (2004), S. 953-990 
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    Source: Annual Reviews Electronic Back Volume Collection 1932-2001ff
    Topics: Chemistry and Pharmacology , Biology
    Notes: Opioid receptors belong to the large superfamily of seven transmembrane-spanning (7TM) G protein-coupled receptors (GPCRs). As a class, GPCRs are of fundamental physiological importance mediating the actions of the majority of known neurotransmitters and hormones. Opioid receptors are particularly intriguing members of this receptor family. They are activated both by endogenously produced opioid peptides and by exogenously administered opiate compounds, some of which are not only among the most effective analgesics known but also highly addictive drugs of abuse. A fundamental question in addiction biology is why exogenous opioid drugs, such as morphine and heroin, have a high liability for inducing tolerance, dependence, and addiction. This review focuses on many aspects of opioid receptors with the aim of gaining a greater insight into mechanisms of opioid tolerance and dependence.
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    Annual Review of Biochemistry 73 (2004), S. 705-748 
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    Topics: Chemistry and Pharmacology , Biology
    Notes: Mechanical processes are involved in nearly every facet of the cell cycle. Mechanical forces are generated in the cell during processes as diverse as chromosomal segregation, replication, transcription, translation, translocation of proteins across membranes, cell locomotion, and catalyzed protein and nucleic acid folding and unfolding, among others. Because force is a product of all these reactions, biochemists are beginning to directly apply external forces to these processes to alter the extent or even the fate of these reactions hoping to reveal their underlying molecular mechanisms. This review provides the conceptual framework to understand the role of mechanical force in biochemistry.
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    Annual Review of Biochemistry 73 (2004), S. 837-859 
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    Topics: Chemistry and Pharmacology , Biology
    Notes: The fastest simple, kinetically two-state protein folds a million times more rapidly than the slowest. Here we review many recent theories of protein folding kinetics in terms of their ability to qualitatively rationalize, if not quantitatively predict, this fundamental experimental observation.
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