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1.
《Journal of molecular biology》2021,433(15):167097
DNA glycosylases remove damaged or modified nucleobases by cleaving the N-glycosyl bond and the correct nucleotide is restored through subsequent base excision repair. In addition to excising threatening lesions, DNA glycosylases contribute to epigenetic regulation by mediating DNA demethylation and perform other important functions. However, the catalytic mechanism remains poorly defined for many glycosylases, including MBD4 (methyl-CpG binding domain IV), a member of the helix-hairpin-helix (HhH) superfamily. MBD4 excises thymine from G·T mispairs, suppressing mutations caused by deamination of 5-methylcytosine, and it removes uracil and modified uracils (e.g., 5-hydroxymethyluracil) mispaired with guanine. To investigate the mechanism of MBD4 we solved high-resolution structures of enzyme-DNA complexes at three stages of catalysis. Using a non-cleavable substrate analog, 2′-deoxy-pseudouridine, we determined the first structure of an enzyme-substrate complex for wild-type MBD4, which confirms interactions that mediate lesion recognition and suggests that a catalytic Asp, highly conserved in HhH enzymes, binds the putative nucleophilic water molecule and stabilizes the transition state. Observation that mutating the Asp (to Gly) reduces activity by 2700-fold indicates an important role in catalysis, but probably not one as the nucleophile in a double-displacement reaction, as previously suggested. Consistent with direct-displacement hydrolysis, a structure of the enzyme-product complex indicates a reaction leading to inversion of configuration. A structure with DNA containing 1-azadeoxyribose models a potential oxacarbenium-ion intermediate and suggests the Asp could facilitate migration of the electrophile towards the nucleophilic water. Finally, the structures provide detailed snapshots of the HhH motif, informing how these ubiquitous metal-binding elements mediate DNA binding. 相似文献
2.
Sacramento Doralice Rodrigues Coelho Rosalie Reed Rodrigues Wigg Márcia Dutra Toledo Luna Linhares Luiz Fernando de Matos dos Santos Marta Gonçalves Azevedo Soares Semêdo Luzia Teixeira de Ribeiro da Silva Antonio Jorge 《World journal of microbiology & biotechnology》2004,20(3):225-229
A promising producer of bioactive compounds isolated from a Brazilian tropical soil was tested for its range of antimicrobial
activities. Strain 606, classified as Streptomyces sp., could not be identified up to species level, suggesting a possible new taxon. The supernatant and 10 extracts and fractions,
obtained by extraction and chromatographic techniques, presented antimicrobial activity using antibiograms. The methanolic
fraction was highly active against pathogenic bacteria, phytopathogenic fungi and the human pathogenic yeast Candida albicans. It also possessed high antiviral activity inhibiting the propagation of an acyclovir-resistant herpes simplex virus type
1 strain on HEp-2 cells at non-cytotoxic concentration. The strong cytotoxic effect suggests an antitumour action.
This revised version was published online in August 2006 with corrections to the Cover Date. 相似文献
3.
J.G. Roddick 《Phytochemistry》1974,13(1):9-25
The literature relating to chemical, biochemical and biological aspects of the steroidal glycoalkaloid, α-tomatine, is reviewed. The alkaloid, which can be used as a starting compound for the synthesis of steroidal hormones, is toxic to a wide range of living organisms. The significance of tomatine to plants which elaborate it is discussed and some possible uses of the compound are mentioned. 相似文献
4.
V. Grant 《Plant Systematics and Evolution》2001,230(1-2):89-96
This paper deals with the use of cladistic methods and cladograms in phylogeny reconstruction in plant groups containing
numerous taxa. How accurate are the cladograms as to details? Accuracy tests at the level of details require an independently
known phylogeny, which excludes most plant groups, but such tests can be carried out in domesticated and experimental plant
groups which have documented pedigrees. Four such tests are known and are presented here: a new case in Gilia and three previously published cases in Avena, Hordeum, and Helianthus. The four cases include domesticated and experimental plants, use of morphological and molecular evidence, and presence of
dichotomous as well as reticulate phylogenies. The cladograms of the four plant groups all differ in significant details from
the known pedigrees. These results are discussed in relation to problems of interpretation of cladograms.
Received March 21, 2000 Accepted August 16, 2001 相似文献
5.
6.
Nitrogen fertigation of greenhouse-grown cucumber 总被引:2,自引:0,他引:2
I. Papadopoulos 《Plant and Soil》1986,93(1):87-93
Summary This greenhouse study investigated the response of trickle-irrigated cucumber (Cucumis sativa cv. ‘Petita’) to three N levels applied with every irrigation via the irrigation stream. The plants were grown in pots filled
with 12 kg of soil. Water containing 5.8, 11.8, or 17.8 mmol N/l, and uniformly supplied with 2.0 and 3.9 mmol/l of P and
K, respectively, was applied two to three times daily. In all treatments of 0.3 leaching fraction was allowed.
The resulting total N applications were 15.7, 31., and 47.2 g N/plant. The total amount of water applied was 1851/plant. Total
N and NO3-N, in lajinae and petioles, increased with increasing N level whereas P and K in generated decreased. Although different
NO3/NH4 ratios in the treatments may have influeced the response to N, it could be concluded that the highest yield was obtained
with 11.8 mmol N/1 due to increased number of fruit. In the root volume of this treatment the NO3-N concentration in the soil solution was aroun 7 mmol/1 for most of the growing season. The dry matter concentration of fruits
was not affected by the N levels.
It was concluded that 11.8 mmol N/1 applied with every irrigation via the irrigation stream is adequate to cover the needs
of greenhous-grown cucumber for higher yield (9.42 kg/plant over a harvesting period of 93 days). 相似文献
7.
8.
Genes for the biosynthesis of spinosyns: applications for yield improvement in Saccharopolyspora spinosa 总被引:2,自引:0,他引:2
K Madduri C Waldron P Matsushima M C Broughton K Crawford D J Merlo R H Baltz 《Journal of industrial microbiology & biotechnology》2001,27(6):399-402
Spinosyns A and D are the active ingredients in an insect control agent produced by fermentation of Saccharopolyspora spinosa. Spinosyns are macrolides with a 21-carbon, tetracyclic lactone backbone to which the deoxysugars forosamine and tri-O-methylrhamnose are attached. The spinosyn biosynthesis genes, except for the rhamnose genes, are located in a cluster that
spans 74 kb of the S. spinosa genome. DNA sequence analysis, targeted gene disruptions and bioconversion studies identified five large genes encoding type
I polyketide synthase subunits, and 14 genes involved in sugar biosynthesis, sugar attachment to the polyketide or cross-bridging
of the polyketide. Four rhamnose biosynthetic genes, two of which are also necessary for forosamine biosynthesis, are located
outside the spinosyn gene cluster. Duplication of the spinosyn genes linked to the polyketide synthase genes stimulated the
final step in the biosynthesis — the conversion of the forosamine-less pseudoaglycones to endproducts. Duplication of genes
involved in the early steps of deoxysugar biosynthesis increased spinosyn yield significantly. Journal of Industrial Microbiology & Biotechnology (2001) 27, 399–402.
Received 31 May 2001/ Accepted in revised form 09 July 2001 相似文献
9.
Papers on the mechanisms of translation initiation in mammals studied by reconstruction of initiation complexes from individual components are reviewed. The author points to the constraints of this approach and to the pitfalls ignoring which one might come to erroneous conclusions and even artifacts. In addition, some methods employed in the field as well as some technical problems are discussed in the paper, together with the means of obviating them. The review could be a guidebook for newcomers into this quite labor-consuming field. 相似文献
10.
Bidens cordylocarpa is a high polyploid species restricted in distribution to stream sides in the mountains of Jalisco, Mexico. The morphologically
enigmatic species was originally described as a member of the genus Coreopsis, but later transferred to Bidens, largely because the involucral bracts appear most similar to Bidens. Characters of the cypselae, often useful in generic placement, are of no value for this species because the fruits have
features not detected in either Bidens or Coreopsis. Sequences from the internal transcribed spacer region of nuclear ribosomal DNA (ITS) were used to assess the relationships
of Bidens cordylocarpa. The molecular phylogeny places B. cordylocarpa in a strongly supported clade of Mexican and South American Bidens, and provides more definitive evidence of relationships than morphology, chromosome number, or secondary chemistry. Molecular,
morphological, and chromosomal data suggest that B. cordylocarpa is an ancient polyploid, perhaps the remnant of a polyploid complex.
Received August 28, 2000 Accepted February 11, 2001 相似文献