Sequence analysis and protein interactions of Arabidopsis CIA2 and CIL proteins
Botanical Studies, 2020 Background A previous screening of Arabidopsis thaliana for mutants exhibiting dysfunctional chloroplast protein transport identified the chloroplast import apparatus (cia) gene.
Chun-Yen Yang, Chih-Wen Sun
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Sequence analysis of the AAA protein family [PDF]
Protein Science, 1997 AbstractThe AAA protein family, a recently recognized group of Walker‐type ATPases, has been subjected to an extensive sequence analysis. Multiple sequence alignments revealed the existence of a region of sequence similarity, the so‐called AAA cassette.
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BioSeq-Diabolo: Biological sequence similarity analysis using Diabolo.
PLoS Computational Biology, 2023 As the key for biological sequence structure and function prediction, disease diagnosis and treatment, biological sequence similarity analysis has attracted more and more attentions. However, the exiting computational methods failed to accurately analyse
Hongliang Li, Bin Liu
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An assessment of feature relevance in predicting protein function from sequence [PDF]
, 2004 Improving the performance of protein function prediction is the ultimate goal for a bioinformatician working in functional genomics. The classical prediction approach is to employ pairwise sequence alignments. However this method often faces difficulties
Tan, AC +17 more
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Sequence complexity of amyloidogenic regions in intrinsically disordered human proteins.
PLoS ONE, 2014 An amyloidogenic region (AR) in a protein sequence plays a significant role in protein aggregation and amyloid formation. We have investigated the sequence complexity of AR that is present in intrinsically disordered human proteins.
Swagata Das +6 more
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Relative evolutionary rate inference in HyPhy with LEISR [PDF]
PeerJ, 2018 We introduce LEISR (Likehood Estimation of Individual Site Rates, pronounced “laser”), a tool to infer relative evolutionary rates from protein and nucleotide data, implemented in HyPhy.
Stephanie J. Spielman +1 more
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Prediction of bacterial E3 ubiquitin ligase effectors using reduced amino acid peptide fingerprinting [PDF]
PeerJ, 2019 Background Although pathogenic Gram-negative bacteria lack their own ubiquitination machinery, they have evolved or acquired virulence effectors that can manipulate the host ubiquitination process through structural and/or functional mimicry of host ...
Jason E. McDermott +5 more
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Convergent evolution in structural elements of proteins investigated using cross profile analysis
BMC Bioinformatics, 2012 Background Evolutionary relations of similar segments shared by different protein folds remain controversial, even though many examples of such segments have been found. To date, several methods such as those based on the results of structure comparisons,
Tomii Kentaro +2 more
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The sim gene of Escherichia coli phage P1: nucleotide sequence and purification of the processed protein [PDF]
, 1990 Maillou J, Dreiseikelmann B. The sim gene of Escherichia coli phage P1: nucleotide sequence and purification of the processed protein. Virology. 1990;175(2):500-507.The sim gene of bacteriophage P1 causes exclusion of a superinfecting P1 phage.
Maillou, Julia, Dreiseikelmann, Brigitte
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Probabilistic arithmetic automata : applications of a stochastic computational framework in biological sequence analysis [PDF]
, 2009 Herms I. Probabilistic arithmetic automata : applications of a stochastic computational framework in biological sequence analysis. Bielefeld (Germany): Bielefeld University; 2009.The immense amount of biological sequence data available these days ...
Herms, Inke
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