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  • Springer Nature  (89)
  • PANGAEA  (69)
  • American Institute of Physics (AIP)  (49)
  • International Union of Crystallography (IUCr)
  • 2020-2024  (28)
  • 1990-1994  (150)
  • 1975-1979  (61)
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  • 1
    Electronic Resource
    Electronic Resource
    Structure of copper- and oxalate-substituted human lactoferrin at 2.0 Å resolution (1994)
    Copenhagen : International Union of Crystallography (IUCr)
    Acta crystallographica 50 (1994), S. 302-316 
    Details
    ISSN: 1399-0047
    Source: Crystallography Journals Online : IUCR Backfile Archive 1948-2001
    Topics: Chemistry and Pharmacology , Geosciences , Physics
    Notes: The three-dimensional structure of human dicupric monooxalate lactoferrin, Cu2oxLf, has been determined to 2.0 Å resolution, using X-ray diffraction data collected by diffractometry to 2.5 Å resolution, and oscillation photography on a synchrotron source to 2.0 Å resolution. Difference electron-density maps calculated between Cu2oxLf and both dicupric lactoferrin, Cu2Lf, and diferric lactoferrin, Fe2Lf, showed that the oxalate had replaced a carbonate in the C-terminal binding site, and that, relative to Cu2Lf, there were no significant differences in the N-terminal site. The structure was then refined crystallographically by restrained least-squares methods. The final model, in which the r.m.s. deviation in bond distances is 0.017 Å, contains 5314 protein atoms (691 residues), two Cu2+ ions, one bicarbonate ion, one oxalate ion, 325 solvent molecules and one sugar residue. The crystallographic R factor of 0.193 is for 46 134 reflections in the range 8.0 to 2.0 Å resolution. The oxalate ion is coordinated to copper in a 1,2-bidentate fashion, and the added bulk of the anion results in the rearrangement of the side chains of nearby arginine and tyrosine residues. No other major alterations in the molecule can be observed, the overall protein structure being the same as that for Cu2Lf and Fe2Lf.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1107/S0907444994000491
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    Paper (German National Licenses)
    Fulltext
  • 2
    Electronic Resource
    Electronic Resource
    Search designs for protein crystallization based on orthogonal arrays (1994)
    Copenhagen : International Union of Crystallography (IUCr)
    Acta crystallographica 50 (1994), S. 429-440 
    Details
    ISSN: 1399-0047
    Source: Crystallography Journals Online : IUCR Backfile Archive 1948-2001
    Topics: Chemistry and Pharmacology , Geosciences , Physics
    Notes: In protein crystallography, the initial experimental problem is the identification of physical and chemical conditions that will support nucleation and crystal growth. Ideally, experiments to search for such conditions would be based on a full-factorial structure, with variation in the temperature and solution composition. However, consideration of even a moderate number of possibilities for the composition of the system will result in factorial experiments which may be prohibitively large. In this paper it is proposed that search experiments for protein crystallization might be based on orthogonal arrays. These are subsets of full-factorial experiments which possess a great deal of symmetry, such that a uniform distribution of points throughout the experimental region is preserved. Such experiments have reasonable size, explore the proposed experimental region in a systematic fashion, and form a logical basis for a sequential approach to the search for crystallization conditions. Examples of such initial search experiments are given, and their application to some recent protein crystallization problems in this laboratory is described briefly. The relationship of this approach to other protein crystallization search procedures is also discussed.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1107/S0907444993014374
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    Paper (German National Licenses)
    Fulltext
  • 3
    Electronic Resource
    Electronic Resource
    Enzymatic deglycosylation as a tool for crystallization of mamalian binding proteins (1994)
    Copenhagen : International Union of Crystallography (IUCr)
    Acta crystallographica 50 (1994), S. 380-384 
    Details
    ISSN: 1399-0047
    Source: Crystallography Journals Online : IUCR Backfile Archive 1948-2001
    Topics: Chemistry and Pharmacology , Geosciences , Physics
    Notes: Enzymatic deglycosylation has been used in attempts to crystallize several glycoproteins with the aim of overcoming the problems resulting from heterogeneity and flexibility of the attached glycan chains. An endoglycosidase preparation from Flavobacterium meningosepticum, comprising the enzymes endo F and PNGase-F, was used in experiments on the mammalian binding proteins lactoferrin and haemopexin. Significant differences were found in the susceptibility of different proteins to deglycosylation. For human lactoferrin (Lf) and its recombinant N-terminal half-molecule (LfN), deglycosylation was rapid and complete, and was essential for obtaining high-quality crystals of both apo-Lf and LfN; for bovine Lf, however, complete deglycosylation did not occur. Similarly, for rabbit haemopexin the carbohydrate chain on the C-terminal domain was easily removed, but the three chains on the N-terminal domain proved more resistant and their removal led to some fragmentation of the protein. Nevertheless, this approach provided the only means of crystallizing the C-terminal domain and is likely to be useful for other glycoproteins.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1107/S0907444993013435
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    Paper (German National Licenses)
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  • 4
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    Apolactoferrin structure demonstrates ligand-induced conformational change in transferrins (1990)
    Springer Nature
    Details
    Publication Date: 1990-04-01
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
    Published by Springer Nature
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    PAPER CURRENT
  • 5
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    Collection data of the new species Tedania (Tedaniopsis) rappi (Demospongiae, Poecilosclerida, Tedaniidae) (2020)
    PANGAEA
    Details
    Publication Date: 2023-02-24
    Description: We report the first records of the new species Tedania (Tedaniopsis) rappi (Demospongiae, Poecilosclerida, Tedaniidae) from the Orphan Seamount, between 2999.88 and 3449.629 m in depth.
    Keywords: Area/locality; Campaign; Code; Collection; Conductivity; DATE/TIME; Deep-sea Sponge Grounds Ecosystems of the North Atlantic; Depth, bottom/max; DEPTH, water; Device type; Discovery (2013); DY081; DY081_5; DY081_ROV327; Event label; Habitat; HUD2010-029; HUD2010-029_1340-3; Hudson; ICY-LAB; LATITUDE; LONGITUDE; Palancre; PAoM_1905_2183; Reference/source; Remote operated platform for oceanography; Remote operated vehicle; ROPOS; ROV; Salinity; San_Juan_Archipelago; Species; SponGES; Station label; Tartar_Strait; Temperature, water; Treatment; Type; Vessel
    Type: Dataset
    Format: text/tab-separated-values, 53 data points
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    DATA PANGAEA
  • 6
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    Abundances and indices for soil microbial biomarkers (brGDGTs and isoGDGTs) in eleven soil profiles along a Serengeti transect (2022)
    PANGAEA
    Details
    Publication Date: 2023-01-30
    Description: Soil profiles were collected along a transect across the Serengeti ecosystem, in Tanzania from 2-3S and 34-35.5E, 1153 to 1677 m above sea level and 0 to 1.6 m soil depth. The samples are modern soils and the temporal span of the soil depth profiles is unconstrained, likely centuries to millennia. The survey is intended to observe soil microbial lipid biomarkers that are commonly used as proxies for temperature and pH and to assess their robustness in alkaline carbonate-precipitating soil profiles, where soil carbonate proxies can also be applied. These modern calibrations can inform reconstructions of Eastern African paleoenvironments using the same proxies in geological archives. Lipid extractions and purifications were performed at USC in 2018-2019 and abundances of branched and isoprenoidal glycerol dialkyl glycerol tetraethers were obtained by high pressure liquid chromatography mass spectrometry, performed in 2020-2021 at the University of Arizona. Contextual data include total dissolved solids and pH measurements at the University of Houston in 2020-2021. For more information, please consult associated manuscript on the GDGTs within these soil profiles: Peaple et al., (2022) Identifying the drivers of GDGT distributions in alkaline soil profiles within the Serengeti ecosystem, Organic Geochemistry, in review. A publication on the bulk organics and compound specific carbon isotopic composition of plant waxes in the same soils: Zhang, et al. (2021) Carbon isotopic composition of plant waxes, bulk organics and carbonates from soils of the Serengeti grasslands, Geochimica et Cosmochimica Acta, 311, 316-331, doi:10.1016/j.gca.2021.07.005. That study includes stable hydrogen isotopic data on plant wax, available from doi:10.1594/PANGAEA.921002. A publication on multiple oxygen isotopes within carbonates in the same soil profiles can be found at: Beverly, E.J., Levin, N.E., Passey, B.H., Aron, P.G., Yarian, D.A., Page, M. and Pelletier, E.M. (2021) Triple oxygen and clumped isotopes in modern soil carbonate along an aridity gradient in the Serengeti, Tanzania. Earth and Planetary Science Letters, 567, 116952, doi:10.1016/j.epsl.2021.116952. That study includes stable carbon isotopic data on soil carbonates, available from doi:10.5281/zenodo.4919027.
    Keywords: GDGTs; pH; Salinity; Soil
    Type: Dataset
    Format: application/zip, 2 datasets
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    DATA PANGAEA
  • 7
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    (Table 1) Distribution of copper porphyrins and other pigments in deep-sea sediments (1978)
    PANGAEA
    In:  Supplement to: Palmer, Susan E; Baker, Earl W (1978): Copper porphyrins in deep-sea sediments: a possible indicator of oxidized terrestrial organic matter. Science, 201(4350), 49-51, https://doi.org/10.1126/science.201.4350.49
    Details
    Publication Date: 2023-12-07
    Description: Copper porphyrins have been isolated from deep-sea sediments collected during six legs of the Deep Sea Drilling Project-International Program of Ocean Drilling. These pigments are present in depositional areas receiving high inputs of terrestrially derived oxidized organic matter. Such areas include the Black Sea, the Bay of Biscay, the Blake-Bahama Basin, and slumped Miocene deposits off Cape Bojador on the west coast of Africa.
    Keywords: 38-341; 42-380A; 42-381; 43-386; 43-387; 44-391A; 44-391C; 47-397; 47-397A; 47-398D; Black Sea; Chlorins; Deep Sea Drilling Project; DRILL; Drilling/drill rig; DSDP; Event label; Glomar Challenger; Leg38; Leg42; Leg43; Leg44; Leg47; North Atlantic/BASIN; North Atlantic/CONT RISE; North Atlantic/Norwegian Sea; North Atlantic/SEAMOUNT; Porphyrins; Sample code/label
    Type: Dataset
    Format: text/tab-separated-values, 192 data points
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  • 8
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    Concentrations and relative abundance of GDGT soil profiles along a Serengeti transect (2022)
    PANGAEA
    Details
    Publication Date: 2023-12-22
    Keywords: Archaeol; Archaeol and Caldarchaeol Ecometric index; Banagi; Branched and isoprenoid tetraether index; Branched glycerol dialkyl glycerol tetraether; Branched glycerol dialkyl glycerol tetraether, Ia; Branched glycerol dialkyl glycerol tetraether, Ia, fractional abundance; Branched glycerol dialkyl glycerol tetraether, Ib; Branched glycerol dialkyl glycerol tetraether, Ib, fractional abundance; Branched glycerol dialkyl glycerol tetraether, Ic; Branched glycerol dialkyl glycerol tetraether, Ic, fractional abundance; Branched glycerol dialkyl glycerol tetraether, IIa; Branched glycerol dialkyl glycerol tetraether, IIa, fractional abundance; Branched glycerol dialkyl glycerol tetraether, IIa'; Branched glycerol dialkyl glycerol tetraether, IIa', fractional abundance; Branched glycerol dialkyl glycerol tetraether, IIb; Branched glycerol dialkyl glycerol tetraether, IIb, fractional abundance; Branched glycerol dialkyl glycerol tetraether, IIb'; Branched glycerol dialkyl glycerol tetraether, IIb', fractional abundance; Branched glycerol dialkyl glycerol tetraether, IIc; Branched glycerol dialkyl glycerol tetraether, IIc, fractional abundance; Branched glycerol dialkyl glycerol tetraether, IIc'; Branched glycerol dialkyl glycerol tetraether, IIc', fractional abundance; Branched glycerol dialkyl glycerol tetraether, IIIa; Branched glycerol dialkyl glycerol tetraether, IIIa, fractional abundance; Branched glycerol dialkyl glycerol tetraether, IIIa'; Branched glycerol dialkyl glycerol tetraether, IIIa', fractional abundance; Branched glycerol dialkyl glycerol tetraether, IIIb; Branched glycerol dialkyl glycerol tetraether, IIIb, fractional abundance; Branched glycerol dialkyl glycerol tetraether, IIIb'; Branched glycerol dialkyl glycerol tetraether, IIIb', fractional abundance; Branched glycerol dialkyl glycerol tetraether, IIIc; Branched glycerol dialkyl glycerol tetraether, IIIc, fractional abundance; Branched glycerol dialkyl glycerol tetraether, IIIc'; Branched glycerol dialkyl glycerol tetraether, IIIc', fractional abundance; Carbon, organic, total; Cyclization ratio of branched tetraethers; DEPTH, soil; Depth comment; Elevation of event; Event label; Isomer ratio of 6-methyl branched glycerol dialkyl glycerol tetraethers; Isoprenoid acyclic glycerol dialkyl glycerol tetraether; Isoprenoid acyclic glycerol dialkyl glycerol tetraether, fractional abundance; Isoprenoidal glycerol dialkyl glycerol tetraethers; Isoprenoid dicyclic glycerol dialkyl glycerol tetraether; Isoprenoid dicyclic glycerol dialkyl glycerol tetraether, fractional abundance; Isoprenoid glycerol dialkyl glycerol tetraether, 5; Isoprenoid glycerol dialkyl glycerol tetraether, 5, fractional abundance; Isoprenoid glycerol dialkyl glycerol tetraether, 5'; Isoprenoid glycerol dialkyl glycerol tetraether, 5', fractional abundance; Isoprenoid glycerol dialkyl glycerol tetraether, per unit mass total organic carbon; Isoprenoid glycerol dialkyl glycerol tetraether/branched glycerol dialkyl glycerol tetraether ratio; Isoprenoid monocyclic glycerol dialkyl glycerol tetraether; Isoprenoid monocyclic glycerol dialkyl glycerol tetraether, fractional abundance; Isoprenoid tricyclic glycerol dialkyl glycerol tetraether; Isoprenoid tricyclic glycerol dialkyl glycerol tetraether, fractional abundance; Kemarishe; Kirawira; Latitude of event; Longitude of event; Makoma; Malambo Road; Methylation index of 5-methyl branched glycerol dialkyl glycerol tetraether; MULT; Multiple investigations; Musabi; Naabi Hill; Ndabakal; Nyaruswiga; Optional event label; Precipitation, annual mean; Sample code/label; Serengeti; Serengeti_soil_Banagi; Serengeti_soil_Kemarishe; Serengeti_soil_Kirawira; Serengeti_soil_Makoma; Serengeti_soil_Malambo_Road; Serengeti_soil_Musabi; Serengeti_soil_Naabi_Hill; Serengeti_soil_Ndabaka; Serengeti_soil_Nyaruswiga; Serengeti_soil_Shifting_Sands; Serengeti_soil_Simba_Kopjes; Shifting Sands; Simba Kopjes; Temperature, annual mean
    Type: Dataset
    Format: text/tab-separated-values, 1352 data points
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    DATA PANGAEA
  • 9
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    Aerosol chemical composition (major ions and iodine speciation) during the TransBrom cruise in the western Pacific Ocean, October 2009 (2021)
    PANGAEA
    Details
    Publication Date: 2023-12-12
    Description: Size segregated aerosol samples were collected during the Very short lived bromine compounds in the ocean and their transport pathways into the stratosphere (TransBrom) cruise (FS Sonne, SO202) during 9 - 25 October 2009 in the western Pacific Ocean (~141 E - 146 E, 20 S – 43 N). The samples were collected by Christian Müller, Sebastian Wache and Arne Lanatowitz of GEOMAR, Kiel, Germany. The aerosol sampler was situated on the roof of the ship's wheelhouse. Samples were collected using a Sierra-type cascade impactor to separate the aerosol particles at an aerodynamic diameter cutoff of 1 µm. Collection time for the samples varied between 20.3 and 26.8 hours. Samples were extracted with ultrapure water and the major ions Na+, NH4+, Mg2+, K+, Ca2+, Cl-, NO3-, SO42-, oxalate, Br- and methanesulfonate were determined by ion chromatography (IC). Total soluble iodine (TSI) was determined by inductively coupled plasma - mass spectrometry (ICP-MS) and iodide (I-) and iodate (IO3-) were determined by IC-ICP-MS. The dataset contains the atmospheric concentrations of all measured soluble major ions (in nmol/m³) and iodine species (in pmol/m³).
    Keywords: Air volume; Ammonium, soluble; Ammonium, soluble, standard deviation; Bromide, soluble; Bromide, soluble, standard deviation; Calcium, soluble; Calcium, soluble, standard deviation; Chloride, soluble; Chloride, soluble, standard deviation; Date/Time of event; Date/Time of event 2; Elemental species separation and detection (IC-ICP-MS); Event label; high-volume aerosol collection; High volume aerosol collector (Graseby-Anderson type); Inductively coupled plasma - mass spectrometry (ICP-MS); Iodate, soluble; Iodate, soluble, standard deviation; Iodide, soluble; Iodide, soluble, standard deviation; Iodine, soluble; Iodine, soluble, standard deviation; Ion chromatography; Latitude of event; Latitude of event 2; Longitude of event; Longitude of event 2; Magnesium, soluble; Magnesium, soluble, standard deviation; Methane sulfonic acid; Methane sulfonic acid, standard deviation; Nitrate, soluble; Nitrate, soluble, standard deviation; Oxalate, soluble; Oxalate, soluble, standard deviation; Potassium, soluble; Potassium, soluble, standard deviation; Sample code/label; Size fraction; size-segregated aerosol particles; SO202/2; SO202/2_I01; SO202/2_I02; SO202/2_I03; SO202/2_I04; SO202/2_I05; SO202/2_I06; SO202/2_I07; SO202/2_I08; SO202/2_I09; SO202/2_I10; SO202/2_I11; SO202/2_I12; SO202/2_I13; Sodium, soluble; Sodium, soluble, standard deviation; Sonne; Sulfate, soluble; Sulfate, soluble, standard deviation; TransBrom; Western Pacific Ocean
    Type: Dataset
    Format: text/tab-separated-values, 776 data points
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    DATA PANGAEA
  • 10
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    Geochemistry of the volcanic basement of ODP Hole 134-831B (1994)
    PANGAEA
    In:  Supplement to: Baker, Peter E; Coltorti, Massimo; Briqueu, Louis; Hasenaka, Toshiaki; Condliffe, Eric; Crawford, Anthony J (1994): Petrology and composition of the volcanic basement of Bougainville Guyot, Site 831. In: Green, HG; Collot, J-Y; Stokking, LB; et al. (eds.), Proceedings of the Ocean Drilling Program, Scientific Results, College Station, TX (Ocean Drilling Program), 134, 363-373, https://doi.org/10.2973/odp.proc.sr.134.017.1994
    Details
    Publication Date: 2024-01-09
    Description: The basement of Bougainville Guyot drilled at Site 831 consists of andesitic hyalobreccias derived from a submarine arc volcano. The volcanic sequence has been dated by K/Ar at approximately 37 Ma. The 121 m of andesitic hyalobreccias drilled in Hole 831B have been divided into five subunits of two types: one appears to be primary, and the other contains evidence of reworking and a subaerial clastic input. Variations are attributed to fluctuations in water depth. The distinctive hyalobreccias consist of andesitic blebs with chilled margins and peripheral fractures set in a chaotic greenish matrix that is mainly altered glass, with crystals similar to those in the blebs or clasts. Their formation is attributed to violent reaction of andesitic magma discharged into seawater, in perhaps the submarine equivalent of fire-fountaining. There was limited reworking by currents and debris flows on the flanks of the submarine volcano. The andesite shows no significant compositional variation in phenocryst phases throughout the drilled sequence and contains phenocrysts of plagioclase (An88-43), clinopyroxene (Ca44Mg46Fe10-Ca41Mg40Fe19), orthopyroxene (Ca4Mg79Fe17-Ca3Mg58Fe39), and titanomagnetite. There is a systematic change in volcanic composition with height in the section, from more mafic andesites at the base, to overlying more acid andesites, and strong evidence exists that magma mixing may have played a significant role in the genesis of these lavas. The andesites have affinities with the low-K arc tholeiite series. Trace element and isotopic systematics for these rocks indicate very minor involvement of a LILE- and 87Sr-enriched slab-derived fluid in their petrogenesis. This accords with the previous suggestion that Bougainville Guyot forms part of an Eocene proto-island arc developed along the southern side of the d'Entrecasteaux Zone, above a southward-dipping subduction zone.
    Keywords: 134-831B; Coral Sea; DRILL; Drilling/drill rig; Joides Resolution; Leg134; Ocean Drilling Program; ODP
    Type: Dataset
    Format: application/zip, 6 datasets
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    DATA PANGAEA
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