SSE: a nucleotide and amino acid sequence analysis platform
BMC Research Notes, 2012 Background There is an increasing need to develop bioinformatic tools to organise and analyse the rapidly growing amount of nucleotide and amino acid sequence data in organisms ranging from viruses to eukaryotes.
Simmonds Peter
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The signature motif of the Saccharomyces cerevisiae Pif1 DNA helicase is essential in vivo for mitochondrial and nuclear functions and in vitro for ATPase activity [PDF]
, 2018 Pif1 family DNA helicases are conserved from bacteria to humans and have critical and diverse functions in vivo that promote genome integrity. Pif1 family helicases share a 23 amino acid region, called the Pif1 signature motif (SM) that is unique to this
Galletto, Roberto +3 more
core +2 more sources
Insertion of the FeB cofactor in cNORs lacking metal inserting chaperones
FEBS Letters, EarlyView.Nitric oxide reductase is an enzyme found in the bacterial denitrification pathway. The NOR active site contains a non‐heme iron, often, but not always inserted with the assistance of chaperones. Here, we study the insertion of FeB in the subfamily of cNORs lacking chaperones and found a putative channel, conserved in the family, perhaps enabling the ...
Sofia Appelgren, Pia Ädelroth
wiley +1 more source
Amino acid classification based spectrum kernel fusion for protein subnuclear localization
BMC Bioinformatics, 2010 Background Prediction of protein localization in subnuclear organelles is more challenging than general protein subcelluar localization. There are only three computational models for protein subnuclear localization thus far, to the best of our knowledge.
Fei Wang, Mei Suyu
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Incorporating background frequency improves entropy-based residue conservation measures
BMC Bioinformatics, 2006 Background Several entropy-based methods have been developed for scoring sequence conservation in protein multiple sequence alignments. High scoring amino acid positions may correlate with structurally or functionally important residues.
Samudrala Ram, Wang Kai
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FEBS Letters, EarlyView.LHCPs are transported to the thylakoid membrane via the (cp)SRP pathway. This process involves a transit complex of (cp)SRP43, (cp)SRP54 and LHCP, which interacts with (cp)FtsY and Alb3 at the membrane. GTP hydrolysis by (cp)SRP54 and (cp)FtsY triggers complex dissociation.
Victor Zegarra +7 more
wiley +1 more source
Spectral Analysis of Sequence Variability in Basic-Helix-loop-helix (bHLH) Protein Domains
Evolutionary Bioinformatics, 2006 The basic helix-loop-helix (bHLH) family of transcription factors is used as a paradigm to explore structural implications of periodicity patterns in amino acid sequence variability.
Zhi Wang, William R. Atchley
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Predicting DNA-binding sites of proteins from amino acid sequence
BMC Bioinformatics, 2006 Background Understanding the molecular details of protein-DNA interactions is critical for deciphering the mechanisms of gene regulation. We present a machine learning approach for the identification of amino acid residues involved in protein-DNA ...
Wu Feihong +5 more
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Amino acid sequence elucidation of human acrosin-trypsin inhibitor (HUSI-II) reveals that Kazal-type proteinase inhibitors are structurally related to β-subunits of glycoprotein hormones [PDF]
, 1990 The amino acid sequence of the acrosin-trypsin inhibitor HUSI-II from human seminal plasma is presented which unequivocally identifies HUSI-II as being of Kazal-type.
Eulitz, Manfred +2 more
core +1 more source
Taurine promotes glucagon‐like peptide‐1 secretion in enteroendocrine L cells
FEBS Letters, EarlyView.Taurine, a sulfur‐containing amino acid, is likely taken up by enteroendocrine L cells via the taurine transporter. This process increases the levels of cytosolic ATP. The increase in intracellular Ca2+ concentrations and glucagon‐like peptide‐1 secretion through membrane depolarization is caused by the closure of ATP‐sensitive potassium channels ...
Yuri Osuga +6 more
wiley +1 more source