A novel family of P-loop NTPases with an unusual phyletic distribution and transmembrane segments inserted within the NTPase domain pot

... informationOpen Access2004Aravindet al.Volume 5, Issue 5, Article R30Research A novel family of P-loop NTPases with an unusual phyletic distribution and transmembrane segments inserted within the NTPase ... pro-tein. The apparent preponderance of horizontal gene transferin the evolution of the KAP family and the phylogenetic affin-ities of the animal KAP NTPases suggest that the gene for a membrane-spanning ... the core P-loop domain, the KAP family NTPase domain contains an additional strand after the core strand 2 (Figure 1). By analogy with the RecA and VirD4/PilT classes, this additional extended...

... fractions wereseparately pyridylaminated and designated endoH-PA,PNGaseF-PA, PNGaseA-PA and Hyd(HFA)-PA, respect-ively. Analytical anion-exchange HPLC of the pyridyl-aminated oligosaccharide pools ... terminal galactose, 6-substi-tuted mannose and 4-substituted GlcNAc (Table 2). The Y 4a and Y 3a ions at m/z 996 and 834 obtained by ESI-IT-MS/MS analysis are in agreement with a linear arrangement of ... be a versatile tool for simultaneous desalting, fractionation and analysis of picomolar amounts of carbohydrates. Forpreparative purposes, PA-glycans, recovered after endoH and PNGase F treatment,...

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... EvaluationBecause we study a non-standard task, there is noexisting annotated data set. We therefore created a small data set and made our own human judgmentfor quantitative evaluation purpose.5.1 DataWe ... entitycategories and compare our method with two baseline methods. Both quantitativeevaluation based on human judgment and qualitative comparison demonstrate the ef-fectiveness and advantages of ... patternsin terms of f1 measure compared with two baselinemethods, and it can also achieve reasonably goodquality of aspect clusters in terms of purity. Com-pared with standard LDA and K-means sentenceclustering,...

... referees for valuable suggestions on the paper and thank the Center of Excellence in Mathematics, the Thailand Research Fund, and the GraduateSchool of Chiang Mai University f or financial support.References1 ... SpacesUrailuk Singthong1 and Suthep Suantai1, 21Department of Mathematics, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand2PERDO National Centre of Excellence in Mathematics, ... pp. 659–678, 2003.6 S. Atsushiba and W. Takahashi, “Strong convergence theorems for a finite family of nonexpansivemappings and applications,” Indian Journal of Mathematics, vol. 41, no. 3, pp....

... fromOriental Yeast (Tokyo, Japan). Restriction enzymes and kits for genetic manipulation were from Takara Shuzo(Kyoto, Japan), Toyobo (Osaka, Japan), and New EnglandBiolabs (Beverly, MA, USA). All other ... other reagents were of analytical grade from Nacalai Tesque (Kyoto, Japan) and Wako Pure Chemical Industries (Osaka, Japan).Culture and screening of bacteriaBacterial strains were cultivated for ... family. Proc Natl Acad Sci USA 90, 2404–2408.10 Shibata K, Tarui A, Todoroki N, Kawamoto S,Takahashi S, Kera Y & Yamada R (2001) Occurrence of N-methyl-l-aspartate in bivalves and its distribution compared...

... energy values wereselected from the 60 000 ligands, and 50 of them werepurchased and used in further evaluation of theirantimycobacterial activities.Antimycobacterial activities of the selectedligands ... CCAATGCGCCTGCCGCAGGACTAGCGGlu168 fi Ala Up: CAGCACTCGTCGCGGTCCATACCGAGDown: CTCGGTATGGACCGCGACGAGTGCTGVal169 fi Ala Up: CACTCGTCGAGGCCCATACCGAGCAGDown: CTGCTCGGTATGGGCCTCGACGAGTGHis170 fi Ala ... 7A) and tested the enzyme activities of these mutants. There are 11 residues surroundingATB107 within a distance of 5 A ˚. Ten of them weremutated to alanine, with a methyl group side chain,except...

... dorso-medial part of the OP and OE, whereas the NeuroD and NCAM transcripts are foundin the entire OP and OE areas. The o-macstranscripts are found in all cell layers of the OPandOEincontrasttotheNCAM ... toproduce acyl-CoA on the outer membrane of mitochondria.Acyl-CoA is then transported into the matrix forb-oxidation of acyl-group. Among the MACS family proteins with the acyl-CoA synthetase activity, ... BSA forFig. 2. In situ hybridization of the olfactory and vomeronasal epithelia.Coronal sections of the rat OE (A) and VNE (B) were hybridized with DIG-labeled antisense probes of OMP, OCAM and...

... TCG AGCCCC-3¢;antisense:5¢-GGG GCT CGA GAA AAA AAAAAAGAAAGAAAGAAAGAAAGAAAGAAAGAA AGA AAG AAA GAA AGG AAT TCG GGCCCG GGG-3¢) representing base pairs 1830–1881 of the MARCKS cDNA [38] and cloning ... overexpression of HuD(lane 4) and HuR (lane 6) (upper panel). Staining of the gel with ethidium bromide revealed equal loading of the gel and integrity of the RNA (lower panel). The positions of the 28S and ... (lanes 1 and 4), with 1 lg bovine serumalbumin (BSA) (lanes 2 and 5), with 1 lg protein of total extract fromSwiss 3T3 cells (lanes 3 and 6). After RNase T1 digestion (lanes 2, 3, 5 and 6) samples...

... A 260 and A 280values were determined. The RNA quality and quantity was determined with the Agilent2100 Bioanalyser and the 2100 expert software.RT-PCRFirst-strand synthesis was carried out with ... centrifugation(Amicon, 10 kDa cut-off) and the polypeptide migra-ting with an apparent molecular mass of 80 kDa in the SDS ⁄ PAGE analysis of the concentrate was excisedfrom the gel and subjected to MS analyses ... CCP-similarcore. A similarity search against the translated GenBanknucleotide database (tBLASTn) revealed significantsimilarity between MCA2590 and an unannotatedORF of Methylomicrobium album...