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Showing 1 to 15 of 15 for “"dodecamer"”.
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Effector Response of the Aspartate Transcarbamoylase From Wild Type Pseudomonas Putida and a Mutant with 11 Amino Acids Deleted at the N-terminus of PyrB.
… (ATCase) from Pseudomonas putida is a dodecamer of two different polypeptides. Unlike the enterics, the Pseudomonas ATCase lacks regulatory polypeptides but employs instead inactive dihydroorotases for an active dodecamer. Previous work showed that PyrB contains not only the active site …
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The role of the N domain in substrate binding, oligomerization, and allosteric regulation of the AAA+ Lon protease
… that Lon equilibrates between a hexamer and a dodecamer. Based on biochemical analysis and a low-resolution EM dodecamer structure, Lon appears to shift its substrate profile by changing oligomeric states and contacts between N domains appear to stabilize the dodecamer. In Chapters 4 and 5, 1 …
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Folding-Driven Synthesis of Dynamic Covalent Oligomers Joined by Imine Linkages
… labile imine bond. The imine bond in the imine dodecamer shows an order of magnitude longer half-life compared with the imine tetramer. The folding process could affect either the protonation or attack of water in the hydrolysis mechanism. Similar trends were observed for imine reduction …
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Isolation and characterization of Saccharomyces cerevisiae mutants for vacuolar import and autophagocytosis
… protein and the matured vauolar protein from homododecameric complexes. Only the matured homododecameric complex shows enzymatic activity. We developed a new genetic screen to isolate mutants in the biogenesis of the vacuolar aminopeptidase 1 based on the enzymatic activity. We developed a new …
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Effects of a carcinogenic alkyl lesion on DNA: A structural study by x-ray crystallography
… determined by X-ray crystallography. The DNA dodecamer d(CGC ($\rm e\sp6G$) AATTCGCG) could be crystallized only when complexed to minor groove binding drugs like Hoechst 33258, Hoechst 33342, Netropsin, as well as SN6999. In addition, the native dodecamer d(CGCGAATTCGCG) was crystallized with …
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Structure-Function Studies on Aspartate Transcarbamoylase and Regulation of Pyrimidine Biosynthesis by a Positive Activator Protein, PyrR in Pseudomonas putida
… and how it is assembled. The E. coli ATCase is a dodecamer of two different polypeptides, encoded by pyrBI. Six regulatory (PyrI) and six catalytic (PyrB) polypeptides assemble from two preformed trimers (B3) and three preformed regulatory dimers (I2) in the conserved 2B3:3I2 molecular structure. …
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Developmental changes in the structure and function of lobster hemocyanin
… routine respiration. The ratio of hexameric and dodecameric forms of hemocyanin were determined for each of the stages under study. Stage I and II larvae possess almost exclusively hexameric hemocyanin, but stage III larvae have almost equal proportions of the two forms. The dodecamer …
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Using peptides to examine the interaction interface between Aspartate transcarbamoylase and Dihydroorotase in pyrimidine biosynthesis in Aquifex aeolicus
… structure of the non-covalently associated dodecamer of DHOase and ATCase from <em>A. aeolicus</em> was examined using bioinformatics, and a peptide was designed to block a specific hydrophobic region. In this work, several peptides have been synthesized by solid phase peptide synthesis …
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Molecular Dynamics Study of Hormone Receptors Binding DNA and Hormones
… and thyroid hormone receptor. In the DNA dodecamer, d(CGCGAATTCGCG), two Adenine residues, individually or jointly, were replaced with the 2 '-deoxy-7-(hydroxymethyl)-7-deazaadenosine (hm7c 7dA) analogue. The simulations show that the incorporation of the analogue appears to affect neither …
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Novel approaches to the synthesis of selenium modified nucleosides, nucleotides and nucleic acids
… both a modified A-form decanucleotide and B-form dodecamer duplex was found and the structure of the former solved to a resolution of 1.45 Å using SAD X-ray crystallography. The DNA structure adjacent to the modification was not significantly perturbed. The phosphoroselenolate linkage was found to …
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Crystal structure of the Large Type III Glutamine Synthetase from Bacteroides Fragilis
… structure revealed that GlnN was a double-ringed dodecamer with D6 symmetry and the arrangement of active sites within the hexameric rings closely matched the GSI structure. Following the design of a rapid purification protocol and improvements to the stability and solubility of GlnN, conditions …
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Targeting isoprenoid biosynthesis for drug discovery
… AATT site located in the minor groove of the DNA dodecamer d(CGCGAATTCGCG)2 duplex. These results provide new leads for antibacterial development based on a poly-pharmaceutical approach targeting DNA and isoprenoid biosynthesis. In chapter 5, I report the possibility of bisphosphonates as …
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Three-dimensional structure of a type III glutamine synthetase by single particle reconstruction
… GlnA as a hexamer, this work has revealed a dodecameric structure, with subunits (82.8KDa) arranged in two opposing hexagonal rings with distinct handedness. This is similar to the quaternary structure of GSIs and GlnTs except that the complex is 50% longer and the two rings are not …
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Multi-target drug discovery against Staphylococcus aureus and Trypanosoma brucei infections
… pathway. Besides, they bound to an AT-rich DNA dodecamer (CGCGAATTCGCG)2 and were found to increase the melting transition by up to 24 °C using differential scanning calorimetry (DSC). Good correlations (R2 = 0.89, S. aureus) were found between experimental and predicted cell growth inhibition …
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Structural and functional consequences of platinum anticancer drug binding to free and nucleosomal DNA
… 1.77-A resolution X-ray crystal structure of a dodecamer DNA duplex with the sequence 5'-CCTCTGGTCTCC-3' that has been modified to contain a single engineered 1,2-cis- {Pt(NH 3)2}2+-d(GpG) cross-link, the major DNA adduct of cisplatin, is reported in Chapter 4. These data represent a significant …