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SBAL: a practical tool to generate and edit structure-based amino acid sequence alignments
<span title="2012-02-12">2012</span>
<i title="Oxford University Press (OUP)">
<a target="_blank" rel="noopener" href="https://fatcat.wiki/container/4r72gbmtcrde5no3fwwogjs3cu" style="color: black;">Computer applications in the biosciences : CABIOS</a>
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We have developed SBAL, a tool to generate and edit secondary structure-based sequence alignments. It is easy to install and provides a user-friendly interface. ...
The algorithm implemented for automated and semiautomated secondary structure-based alignment calculations shows a comparable performance to existing software. ...
We acknowledge partial support of this study by the ARC (to RG, AH and AL) and the NHMRC (to AH). Conflict of interest: none declared. ...
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<a target="_blank" rel="external noopener noreferrer" href="https://doi.org/10.1093/bioinformatics/bts035">doi:10.1093/bioinformatics/bts035</a>
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An integrated Java tool for generating amino acid sequence alignments with mapped secondary structure elements
<span title="2014-05-20">2014</span>
<i title="Springer Nature">
<a target="_blank" rel="noopener" href="https://fatcat.wiki/container/by5shwibsvfk3acyvniuab5bra" style="color: black;">3 Biotech</a>
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Here, we report recent updates to the Java application SBAL, an integrated tool to generate, edit, visualise and analyse secondary structure-based sequence alignments. ...
Keywords Modelling Á Structure analysis Á Structure-based amino acid sequence alignments Electronic supplementary material The online version of this article ( ...
and the source are credited. ...
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Chemical probing suggests redox-regulation of the carbonic anhydrase activity of mycobacterial Rv1284
<span title="2015-05-18">2015</span>
<i title="Wiley">
<a target="_blank" rel="noopener" href="https://fatcat.wiki/container/6sl6l3ojendhnjf3odmmtutouq" style="color: black;">The FEBS Journal</a>
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These authors made equal contributions to the work Database Atomic coordinates and structure factors have been deposited with the PDB, accession numbers 4yf4, 4yf5, 4yf6. ...
The active site cavity of this dimeric protein is characterised by an exceptionally small volume and harbours a catalytic zinc ion coordinated by two cysteine and one histidine residue side chains. ...
MC and AH collected diffraction data, and AH solved the crystal structures. RAD provided natural products. PA, RAD, PT and AH analysed data. ...
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Evolutionary Relationship of Disease Resistance Genes in Soybean and Arabidopsis Specific for thePseudomonas syringaeEffectors AvrB and AvrRpm1
<span title="2014-07-17">2014</span>
<i title="American Society of Plant Biologists (ASPB)">
<a target="_blank" rel="noopener" href="https://fatcat.wiki/container/lyouqq67dncvxgcbflq26svwta" style="color: black;">Plant Physiology</a>
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The tightly linked soybean Rpg1b and Rpg1r genes share a close evolutionary relationship, with Rpg1b containing a recombination event that combined a NB domain closely related to Rpg1r with CC and LRR ...
Using structural modeling, we mapped polymorphisms between Rpg1b and Rpg1r onto the predicted tertiary structure of Rpg1b, which revealed highly polymorphic surfaces within both the CC and LRR domains. ...
ACKNOWLEDGEMENTS We thank Michelle Metcalf and Brian Rutter for technical assistance, Blake Meyers for an alignment of the Arabidopsis CNL genes, and the USDA Soybean Germplasm Collection for soybean seed ...
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Structure-based drug discovery using trehalose-6-phosphate phosphatase, an infectious disease target
<span title="2019-05-15">2019</span>
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Structure-based sequence analysis of the TPP enzymes of a range of pathogens supported the proposal of three topological groups with structural differences and revealed species-specific variation in what ...
This work focuses on the TPP enzymes of the parasitic nematodes Toxocara canis and Ancylostoma ceylanicum as the centre of a target-based approach to identify novel TPP inhibitors with potential as early ...
The structure-based amino acid sequence alignment of nematode TPPs highlights a conserved cysteine residue in the nematode group of mono-enzyme TPPs. ...
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From root tips to phylogenetic branches : a functional and evolutionary study of peroxidases
<span title="">2006</span>
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J'ai ainsi (avec Christophe Dunand) créé une base de données visant à regrouper les séquences de peroxydases et de pouvoir ainsi les comparer de manière rapide et efficace. ...
Ce travail a fait l'objet de la publication suivante : Passardi F, Longet D, Penel C, Dunand C. The class III peroxidase multigenic family in rice and its evolution in land plants. ...
(FWF project P18751) to Marcel Zamocky, Christa Jakopitsch and Christian Obinger. ...
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