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  • 1
    Electronic Resource
    Electronic Resource
    Springer
    Journal of molecular evolution 40 (1995), S. 102-106 
    ISSN: 1432-1432
    Keywords: Active site ; common oligopeptides ; EKKD site ; Epitheliomesenchymal interaction ; Fibronectins ; Integrins ; RGD site
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract The simultaneous emergence in evolution of a ligand and its receptor might have entailed their active sites being drawn from the pool of common oligopeptides. This was tested on the principal components of cell-matrix interaction: the RGD (Arg-Gly-Asp) site of matrix proteins and the EKKD (Gly-Lys-Lys-Asp) site of integrin cell-surface receptor. In the 32 diverse proteins scrutinized, which totalled 14,806 residues, there were 104 Arg-Gly dipeptides. Most common of the tripeptides beginning with Arg-Gly were Arg-Gly-Leu, Arg-Gly-Gly, and Arg-Gly-Asp; each was found in ten copies. RGD tripeptide was one of the commonest; the fortuitous presence of an RGD site was noted in two enzymes, fibrinogen, a pituitary hormone precursor, and a viral structural protein. The 32 proteins also contained 121 Lys-Lys dipeptides. Of the tetrapeptides centered by Lys-Lys, the commonest was Lys-Lys-Lys-Lys, in four copies. Second most common were Gly-Lys-Lys-Lys, Val-Lys-Lys-Leu, and Glu-Lys-Lys-Asp; each occurred in three copies. The fortuitous presence of an EKKD site was noted in three proteins—an intracellular transport protein, a pituitary hormone precursor and a protein of the cerebrospinal fluid. In most instances, protein-protein interaction between the fortuitously present active sites appears to bring about deleterious consequences. Occasionally, however, the fortuitous active site appears to confer a new function to a protein bearing it.
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  • 2
    Electronic Resource
    Electronic Resource
    Springer
    Journal of molecular evolution 44 (1997), S. S023 
    ISSN: 1432-1432
    Keywords: Key words: Cambrian explosion — Cellular life — Pananimalia genome
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Abstract. The first 1 billion years of our 4.5-billion-year-old planet were extremely violent, chacarterized by constant meteorite bombardment. Therefore, it is with a great surprise that we note that cellular life flourished 3.5 billion years ago. It appears that the cellular life came into being as soon as the earth's environment became hospitable. Because the main ingredient of the Archean sea was sodium bicarbonate, neither archeobacteria nor eubacteria but rather photosynthesizing organisms dominated—initially, prokaryotic cyanobacteria, soon joined by eukaryotic blue-green algae. These consumers of carbon dioxide were also releasers of molecular oxygen. The toil of 3 billion years by these releasers of molecular oxygen finally triggered the Cambrian animal explosion. With exceptions of two animal phyla, Porifera and Coelenterata, which amde slightly earlier appearances, nearly all other extant animal phyla sprang into almost simultaneous existence within 6 to 10 million years. The notion of the Cambrian pananimalia genome was advanced to explain various evolutionary consequences of this Cambrian explosion.
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  • 3
    Electronic Resource
    Electronic Resource
    Springer
    Journal of molecular evolution 20 (1984), S. 313-321 
    ISSN: 1432-1432
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology
    Notes: Summary Three outstanding properties uniquely qualify repeats of base oligomers as the primordial coding sequences of all polypeptide chains. First, when compared with randomly generated base sequences in general, they are more likely to have long open reading frames. Second, periodical polypeptide chains specified by such repeats are more likely to assume either α-helical or β-sheet secondary structures than are polypeptide chains of random sequence. Third, provided that the number of bases in the oligomeric unit is not a multiple of 3, these internally repetitious coding sequences are impervious to randomly sustained base substitutions, deletions, and insertions. This is because the recurring periodicity of their polypeptide chains is given by three consecutive copies of the oligomeric unit translated in three different reading frames. Accordingly, when one reading frame is open, the other two are automatically open as well, all three being capable of coding for polypeptide chains of identical periodicity. Under this circumstance, a frame shift due to the deletion or insertion of a number of bases that is not a multiple of 3 fails to alter the downstream amino acid sequence, and even a base change causing premature chain-termination can silence only one of the three potential coding units. Newly arisen coding sequences in modern organisms are oligomeric repeats, and most of the older genes retain various vestiges of their original internal repetitions. Some of the genes (e.g., oncogenes) have even inherited the property of being impervious to randomly sustained base changes.
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  • 4
    Electronic Resource
    Electronic Resource
    Springer
    Human genetics 〈Berlin〉 90 (1992), S. 342-345 
    ISSN: 1432-1203
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract On the average, 30% of the residues in a protein are members of peptidic palindromes, tripeptidic and longer. This percentage may go up to 50% in histones and certain other DNA binding proteins. The longest peptidic palindrome encountered thus far was 14 residues in length. However, there is every reason to expect even longer peptidic palindromes in other proteins not yet analyzed.
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  • 5
    ISSN: 1432-1211
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract Organisms which have evolved on this earth are governed by multitudes of periodicities; tomorrow is another today, and the next year is going to be much like this year. Accordingly, the principle of repetitious recurrence pervades every aspect of life on this earth. Thus, individual genes in the genome have been duplicated and triplicated often to the point of redundancy, and each coding sequence consists of numerous variously truncated as well as variously base-substituted copies of the original primordial building block base oligomers and their allies. This principle even appears to govern the manifestations of human intellect; musical compositions also rely on this principle of repetitious recurrence. Accordingly, coding base sequences can be transformed into musical scores using one set rule. Conversely, musical scores can be transcribed to coding base sequences of long open reading frames.
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  • 6
    Electronic Resource
    Electronic Resource
    Springer
    Immunogenetics 34 (1991), S. 215-221 
    ISSN: 1432-1211
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract Amino acid sequences of all proteins are essays written in the same language. Accordingly, the same set of words and phrases (oligopeptides) appear in totally unrelated proteins. The reason that only certain individuals of particular major histocompatibility complex (MHC) haplotypes can mount T-cell responses against a given antigen of pathogens is found in the fact that T-cell receptors are designed to recognize 18–20 residue-long peptide fragments sandwiched between two α-helices of class I or class II MHC molecules. At this range of peptide lengths, most would appear as self, while nonselfness of the remainders are destined to be quite ambiguous, hence creating responders and nonresponders.
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  • 7
    Electronic Resource
    Electronic Resource
    Springer
    Immunogenetics 36 (1992), S. 22-27 
    ISSN: 1432-1211
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract In order to serve as the effective target of a relevant cytotoxic T-cell receptor, the same peptide fragment has to occupy at least 0.1% of the class I major histocompatibility complex (MHC) antigen sites on the plasma membrane. Because of this need, I contend that the thymic educator cell of “self” to cytotoxic T cells can suppress autoreactive T-cell clones only with regard to at the most, 1000 self nonapeptides per a given allelic form of class I MHC antigens; e. g., HLA-A2. Each allelic form of class I MHC antigen apparently developed the preferential binding affinity toward a specific set of nonapeptides. The requirement for preferential binding can either be permissive or stringent. In the case of human HLA-A2, those nonapeptides having either Leu or Met at the second position and mainly Val, but occasionally Leu at the ninth position are preferred. Since both Leu and Val are very common residues, the typical somatic cell type readily supplies nearly 3000 high affinity host nonapeptides preferred by HLA-A2. Of those, the tolerance can be induced, at the most, to only 1000 nonapeptides. In view of this, permissive class I MHC antigens such as HLA-A2 carefully avoid high affinity nonapeptides in viral proteins, for their status as to self or nonself is uncertain, and they choose second choice nonapeptides as T epitopes. In sharp contrast to human HLA-A2, mouse H-2Db represents the stringent class I MHC antigens. In order to show the high binding affinity toward H-2Db, nonapeptides are required to carry Asn at position 5 and Met or Ile at the equally critical position 9. Inasmuch as Asn and Met are rare residues and Ile, too, is not a common residue, the typical somatic cell type can supply only several hundred host nonapeptides having the high binding affinity toward H-2Db. Under the circumstance, there is no problem in memorizing the selfness of all of them. Accordingly, T epitopes are almost invariably chosen from the high affinity nonapeptides that are present in their viral proteins.
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  • 8
    Electronic Resource
    Electronic Resource
    Springer
    Immunogenetics 7 (1978), S. 13-16 
    ISSN: 1432-1211
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Abstract The potential use of antibodies that selectively recognize either X-bearing or Y-bearing sperm is self-evident. Thus our attention was directed to the fact that under optimal conditions, H-Y antibody lyses 50% of mouse spermatozoa. Accordingly, we asked whether expression of H-Y antigen is haploid in spermatozoa from XY male mice heterozygous for the autosomal dominantSxr gene, for if H-Y expression were haploid, H-Y antibody would be expected to kill 75% of spermatozoa derived from these XY,Sxr/- males. However, maximal lysis remained at the 50% level, which indicates that haploid expression of H-Y antigen and the potential immunoselection of Y-(or X-) bearing spermatozoa are unlikely.
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  • 9
    Electronic Resource
    Electronic Resource
    Springer
    Chromosoma 11 (1960), S. 484-498 
    ISSN: 1432-0886
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
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  • 10
    ISSN: 1432-0886
    Source: Springer Online Journal Archives 1860-2000
    Topics: Biology , Medicine
    Notes: Summary and Conclusion 1. In the Chinese hamster, a species of Eurasian Cricetinae, the Y-chromosome is almost as large as the X: both have long arms approximately equal in length. 2. During male meiosis when the major portion of the X and Y are heavily condensed, the distal two-thirds of the long arms of both the X and Y remain isopycnotic and serve as pairing segments which permit side-by-side association. Coincident with condensation of the sex chromosomes at first meiotic prophase, the smallest (tenth) autosomal bivalent also manifests positive heteropycnosis. 3. Matthey believes that the large Y seen in many species of Eurasian Cricetinae results from a translocation involving a small Y, a large X, and a homologous pair of autosomes. This hypothesis explains our present observations on the Chinese hamster. 4. Side-by-side pairing of the X and Y during male meiosis is limited to those very few mammalian species in which the unusually large Y diminishes the size difference between the sex chromosomes. Available evidence indicates that this rare situation results from a translocation with the autosomes.
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