Crystal structure of Pseudomonas aeruginosa catabolic ornithine transcarbamoylase at 3.0-A resolution: a different oligomeric organization in the transcarbamoylase family.

The crystal structure of the Glu-105-->Gly mutant of catabolic ornithine transcarbamoylase (OTCase; carbamoyl phosphate + L-ornithine = orthophosphate + L-citrulline, EC 2.1.3.3) from Pseudomonas aeruginosa has been determined at 3.0-A resolution. This mutant is blocked in the active R (relaxed) state. The structure was solved by the molecular replacement method, starting from a crude molecular model built from a trimer of the catalytic subunit of another transcarbamoylase, the extensively studied aspartate transcarbamoylase (ATCase) from Escherichia coli. This model was used to generate initial low-resolution phases at 8-A resolution, which were extended to 3-A by noncrystallographic symmetry averaging. Four phase extensions were required to obtain an electron density map of very high quality from which the final model was built. The structure, including 4020 residues, has been refined to 3-A, and the current crystallographic R value is 0.216. No solvent molecules have been added to the model. The catabolic OTCase is a dodecamer composed of four trimers organized in a tetrahedral manner. Each monomer is composed of two domains. The carbamoyl phosphate binding domain shows a strong structural homology with the equivalent ATCase part. In contrast, the other domain, mainly implicated in the binding of the second substrate (ornithine for OTCase and aspartate for ATCase) is poorly conserved. The quaternary structures of these two allosteric transcarbamoylases are quite divergent: the E. coli ATCase has pseudo-32 point-group symmetry, with six catalytic and six regulatory chains; the catabolic OTCase has 23 point-group symmetry and only catalytic chains. However, both enzymes display homotropic and heterotropic cooperativity.

Y chromosome short arm-Sxr recombination in XSxr/Y males causes deletion of Rbm and XY female sex reversal.

We earlier described three lines of sex-reversed XY female mice deleted for sequences believed close to the testes-determining gene (Sry) on the Y chromosome short arm (Yp). The original sex-reversed females appeared among the offspring of XY males that carried the Yp duplication Sxr on their X chromosome. Earlier cytogenetic observations had suggested that the deletions resulted from asymmetrical meiotic recombination between the Y and the homologous Sxr region, but no direct evidence for this hypothesis was available. We have now analyzed the offspring of XSxr/Y males carrying an evolutionarily divergent Mus musculus domesticus Y chromosome, which permits detection and characterization of such recombination events. This analysis has enabled the derivation of a recombination map of Yp and Sxr, also demonstrating the orientation of Yp with respect to the Y centromere. The mapping data have established that Rbm, the murine homologue of a gene family cloned from the human Y chromosome, lies between Sry and the centromere. Analysis of two additional XY female lines shows that asymmetrical Yp-Sxr recombination leading to XY female sex reversal results in deletion of Rbm sequences. The deletions bring Sry closer to Y centromere, consistent with the hypothesis that position-effect inactivation of Sry is the basis for the sex reversal.

Constitutive phosphorylation of I kappa B alpha by casein kinase II.

The NF-kappa B/Rel proteins are sequestered in the cytoplasm in association with the phosphorylated form of I kappa B alpha. Upon induction with a wide variety of agents, the activity of NF-kappa B/Rel proteins is preceded by the rapid degradation of I kappa B alpha protein. We report the identification and partial purification of a cellular kinase from unstimulated or stimulated murine cells, which specifically phosphorylates the C terminus of I kappa B alpha. There are several consensus sites for casein kinase II (CKII) in the C-terminal region of I kappa B alpha. Additionally, the activity of the cellular kinase is blocked by antibodies against the alpha subunit of CKII. No phosphorylation of the C-terminal region of I kappa B alpha can be detected if the five possible serine and threonine residues that can be phosphorylated by CKII are mutated to alanine. A two-dimensional tryptic phosphopeptide map of I kappa B alpha from unstimulated cells was identical to that obtained by in vitro phosphorylation of I kappa B alpha with the partially purified cellular kinase. We propose that constitutive phosphorylation of I kappa B alpha is carried out by CKII.

Construction of a 2.8-megabase yeast artificial chromosome contig and cloning of the human methylthioadenosine phosphorylase gene from the tumor suppressor region on 9p21.

Many human malignant cells lack methylthioadenosine phosphorylase (MTAP) enzyme activity. The gene (MTAP) encoding this enzyme was previously mapped to the short arm of chromosome 9, band p21-22, a region that is frequently deleted in multiple tumor types. To clone candidate tumor suppressor genes from the deleted region on 9p21-22, we have constructed a long-range physical map of 2.8 megabases for 9p21 by using overlapping yeast artificial chromosome and cosmid clones. This map includes the type IIFN gene cluster, the recently identified candidate tumor suppressor genes CDKN2 (p16INK4A) and CDKN2B (p15INK4B), and several CpG islands. In addition, we have identified other transcription units within the yeast artificial chromosome contig. Sequence analysis of a 2.5-kb cDNA clone isolated from a CpG island that maps between the IFN genes and CDKN2 reveals a predicted open reading frame of 283 amino acids followed by 1302 nucleotides of 3' untranslated sequence. This gene is evolutionarily conserved and shows significant amino acid homologies to mouse and human purine nucleoside phosphorylases and to a hypothetical 25.8-kDa protein in the pet gene (coding for cytochrome bc1 complex) region of Rhodospirillum rubrum. The location, expression pattern, and nucleotide sequence of this gene suggest that it codes for the MTAP enzyme.

Physical mapping, cloning, and identification of genes within a 500-kb region containing BRCA1.

BRCA1 is a breast/ovarian cancer susceptibility gene on human chromosome 17q21. We describe a complete and detailed physical map of a 500-kb region of genomic DNA containing the BRCA1 gene and the partial cloning in phage P1 artificial chromosomes. Approximately 70 exons were isolated from this region, 11 of which were components of the BRCA1 gene. Analysis of the other exons revealed a rho-related G protein and the interferon-induced leucine-zipper protein IFP-35.

Corneal topography reinterpretation through separate analysis of the projected rings

Póster presentado en SPIE Photonics Europe, Brussels, 16-19 April 2012.

The representation of the world in national Arab news agencies: an exploration of (trans)national networks in the official Arab media

The purpose of this paper is to draw a map of the representation of the world and of Arab states as reflected by the countries of the region. To do so, we have analysed the news (4,093 news randomly collected on February and August 2005) produced by the governments of the Arab states through their national news agencies. Several regional and world maps had been constructed to show the official Arab representation of the World, the Arab countries conflict agenda, the persistence of colonial ties (with the European metropolis) and the emergence of new relationships (Asian countries). The representation of the world that appeared in the analysis focuses its interest on the USA, the war in Iraq, the Israel-Palestine conflict, the United Kingdom, France, and Iran. The Arab regional powers organise the flow of information (Saudi Arabia and Egypt) and the colonial past determines the current structure of communication (French-speaking bloc and English-speaking bloc).

Quantitative stability of linear infinite inequality systems under block perturbations with applications to convex systems

The original motivation for this paper was to provide an efficient quantitative analysis of convex infinite (or semi-infinite) inequality systems whose decision variables run over general infinite-dimensional (resp. finite-dimensional) Banach spaces and that are indexed by an arbitrary fixed set J. Parameter perturbations on the right-hand side of the inequalities are required to be merely bounded, and thus the natural parameter space is l ∞(J). Our basic strategy consists of linearizing the parameterized convex system via splitting convex inequalities into linear ones by using the Fenchel–Legendre conjugate. This approach yields that arbitrary bounded right-hand side perturbations of the convex system turn on constant-by-blocks perturbations in the linearized system. Based on advanced variational analysis, we derive a precise formula for computing the exact Lipschitzian bound of the feasible solution map of block-perturbed linear systems, which involves only the system’s data, and then show that this exact bound agrees with the coderivative norm of the aforementioned mapping. In this way we extend to the convex setting the results of Cánovas et al. (SIAM J. Optim. 20, 1504–1526, 2009) developed for arbitrary perturbations with no block structure in the linear framework under the boundedness assumption on the system’s coefficients. The latter boundedness assumption is removed in this paper when the decision space is reflexive. The last section provides the aimed application to the convex case.

Description of eight new Anomala species from Costa Rica (Coleoptera: Scarabaeidae: Rutelinae)

Eight new species of Anomala from Costa Rica are described: A. arthuri new species, A. cupreovariolosa new species, A. ferrea new species, A. nigroflava new species, A. semilla new species, A. solisi new species, A. volsellata new species, A. zumbadoi new species and a distribution map of each is given. The male genitalia (aedeagus and endophallus) of the species covered are illustrated.

Jamaica, 1763 (Image 1 of 4) (Raster Image)

This layer is a georeferenced raster image of the historic paper map entitled: This map of the island of Jamaica; laid down from the papers and under the direction of Henry Moore, Esqr.; His Majesty's Lieutenant Governor and Commander in Chief of that island, in the years 1756, 57, 58, 59, 60 & 61; & from a great number of actual surveys performed by the publishers is humbly inscribed by his lordship's most obedient & most humble servants, Thos. Craskell, engineer, Jas. Simpson, surveyor. It was published by D. Fournier in 1763. Scale [ca 1:200,000]. This layer is image 1 of 4 total images of the four sheet map, representing the southwest portion of the map.The image inside the map neatline is georeferenced to the surface of the earth and fit to the Jamaica Grid projected coordinate system. All map collar and inset information is also available as part of the raster image, including any inset maps, profiles, statistical tables, directories, text, illustrations, index maps, legends, or other information associated with the principal map. This map shows features such as towns, villages, and other human settlements, roads, drainage, selected buildings, ground cover, shoreline features, and more. Relief shown pictorially. Includes also illustrations.This layer is part of a selection of digitally scanned and georeferenced historic maps from the Harvard Map Collection. These maps typically portray both natural and manmade features. The selection represents a range of originators, ground condition dates, scales, and map purposes.

Jamaica, 1763 (Image 2 of 4) (Raster Image)

This layer is a georeferenced raster image of the historic paper map entitled: This map of the island of Jamaica; laid down from the papers and under the direction of Henry Moore, Esqr.; His Majesty's Lieutenant Governor and Commander in Chief of that island, in the years 1756, 57, 58, 59, 60 & 61; & from a great number of actual surveys performed by the publishers is humbly inscribed by his lordship's most obedient & most humble servants, Thos. Craskell, engineer, Jas. Simpson, surveyor. It was published by D. Fournier in 1763. Scale [ca 1:200,000]. This layer is image 2 of 4 total images of the four sheet map, representing the southeast portion of the map. The image inside the map neatline is georeferenced to the surface of the earth and fit to the Jamaica Grid projected coordinate system. All map collar and inset information is also available as part of the raster image, including any inset maps, profiles, statistical tables, directories, text, illustrations, index maps, legends, or other information associated with the principal map. This map shows features such as towns, villages, and other human settlements, roads, drainage, selected buildings, ground cover, shoreline features, and more. Relief shown pictorially. Includes also illustrations.This layer is part of a selection of digitally scanned and georeferenced historic maps from the Harvard Map Collection. These maps typically portray both natural and manmade features. The selection represents a range of originators, ground condition dates, scales, and map purposes.

Jamaica, 1763 (Image 3 of 4) (Raster Image)

This layer is a georeferenced raster image of the historic paper map entitled: This map of the island of Jamaica; laid down from the papers and under the direction of Henry Moore, Esqr.; His Majesty's Lieutenant Governor and Commander in Chief of that island, in the years 1756, 57, 58, 59, 60 & 61; & from a great number of actual surveys performed by the publishers is humbly inscribed by his lordship's most obedient & most humble servants, Thos. Craskell, engineer, Jas. Simpson, surveyor. It was published by D. Fournier in 1763. Scale [ca 1:200,000]. This layer is image 3 of 4 total images of the four sheet map, representing the northeast portion of the map. The image inside the map neatline is georeferenced to the surface of the earth and fit to the Jamaica Grid projected coordinate system. All map collar and inset information is also available as part of the raster image, including any inset maps, profiles, statistical tables, directories, text, illustrations, index maps, legends, or other information associated with the principal map. This map shows features such as towns, villages, and other human settlements, roads, drainage, selected buildings, ground cover, shoreline features, and more. Relief shown pictorially. Includes also illustrations.This layer is part of a selection of digitally scanned and georeferenced historic maps from the Harvard Map Collection. These maps typically portray both natural and manmade features. The selection represents a range of originators, ground condition dates, scales, and map purposes.

Jamaica, 1763 (Image 4 of 4) (Raster Image)

This layer is a georeferenced raster image of the historic paper map entitled: This map of the island of Jamaica; laid down from the papers and under the direction of Henry Moore, Esqr.; His Majesty's Lieutenant Governor and Commander in Chief of that island, in the years 1756, 57, 58, 59, 60 & 61; & from a great number of actual surveys performed by the publishers is humbly inscribed by his lordship's most obedient & most humble servants, Thos. Craskell, engineer, Jas. Simpson, surveyor. It was published by D. Fournier in 1763. Scale [ca 1:200,000]. This layer is image 4 of 4 total images of the four sheet map, representing the northwest portion of the map. The image inside the map neatline is georeferenced to the surface of the earth and fit to the Jamaica Grid projected coordinate system. All map collar and inset information is also available as part of the raster image, including any inset maps, profiles, statistical tables, directories, text, illustrations, index maps, legends, or other information associated with the principal map. This map shows features such as towns, villages, and other human settlements, roads, drainage, selected buildings, ground cover, shoreline features, and more. Relief shown pictorially. Includes also illustrations.This layer is part of a selection of digitally scanned and georeferenced historic maps from the Harvard Map Collection. These maps typically portray both natural and manmade features. The selection represents a range of originators, ground condition dates, scales, and map purposes.

County of Cornwall, Jamaica, 1763 (Image 1 of 4) (Raster Image)

This layer is a georeferenced raster image of the historic paper map entitled: This map of the county of Cornwall, in the island of Jamaica; laid down from the papers, under the direction of, Henry Moore, Esqr., His Majesty's Lieutenant Governor, and Commander in Chief of that island, in the years 1756, 57, 58, 59, 60 & 61, & from a great number of actual surveys performed by the publishers is humbly inscribed by his lordship's most obedient & humble servants, Thos. Craskell, engineer, Jas. Simpson, surveyor. It was published by D. Fournier in 1763. Scale [ca. 1:95,000]. This layer is image 1 of 4 total images of the four sheet source map, representing the southwest portion of the map. The image inside the map neatline is georeferenced to the surface of the earth and fit to the Jamaica Grid projected coordinate system. All map collar and inset information is also available as part of the raster image, including any inset maps, profiles, statistical tables, directories, text, illustrations, index maps, legends, or other information associated with the principal map. This map shows features such as towns, villages, and other human settlements, roads, parish boundaries, drainage, selected buildings and names of landowners, ground cover, shoreline features, shoals, channels, anchorage points, and more.This layer is part of a selection of digitally scanned and georeferenced historic maps from the Harvard Map Collection. These maps typically portray both natural and manmade features. The selection represents a range of originators, ground condition dates, scales, and map purposes.

County of Cornwall, Jamaica, 1763 (Image 2 of 4) (Raster Image)

This layer is a georeferenced raster image of the historic paper map entitled: This map of the county of Cornwall, in the island of Jamaica; laid down from the papers, under the direction of, Henry Moore, Esqr., His Majesty's Lieutenant Governor, and Commander in Chief of that island, in the years 1756, 57, 58, 59, 60 & 61, & from a great number of actual surveys performed by the publishers is humbly inscribed by his lordship's most obedient & humble servants, Thos. Craskell, engineer, Jas. Simpson, surveyor. It was published by D. Fournier in 1763. Scale [ca. 1:95,000]. This layer is image 2 of 4 total images of the four sheet source map, representing the southeast portion of the map. The image inside the map neatline is georeferenced to the surface of the earth and fit to the Jamaica Grid projected coordinate system. All map collar and inset information is also available as part of the raster image, including any inset maps, profiles, statistical tables, directories, text, illustrations, index maps, legends, or other information associated with the principal map. This map shows features such as towns, villages, and other human settlements, roads, parish boundaries, drainage, selected buildings and names of landowners, ground cover, shoreline features, shoals, channels, anchorage points, and more.This layer is part of a selection of digitally scanned and georeferenced historic maps from the Harvard Map Collection. These maps typically portray both natural and manmade features. The selection represents a range of originators, ground condition dates, scales, and map purposes.