Abstract:
:The description of protein backbone was recently improved with a group of structural fragments called Structural Alphabets instead of the regular three states (Helix, Sheet and Coil) secondary structure description. Protein Blocks is one of the Structural Alphabets used to describe each and every region of protein backbone including the coil. According to de Brevern (2000) the Protein Blocks has 16 structural fragments and each one has 5 residues in length. Protein Blocks fragments are highly informative among the available Structural Alphabets and it has been used for many applications. Here, we present a protein fold recognition method based on Protein Blocks for the annotation of twilight zone sequences. In our method, we align the predicted Protein Blocks of a query amino acid sequence with a library of assigned Protein Blocks of 953 known folds using the local pair-wise alignment. The alignment results with z-value ≥ 2.5 and P-value ≤ 0.08 are predicted as possible folds. Our method is able to recognize the possible folds for nearly 35.5% of the twilight zone sequences with their predicted Protein Block sequence obtained by pb_prediction, which is available at Protein Block Export server.
journal_name
Protein Pept Lettjournal_title
Protein and peptide lettersauthors
Suresh V,Ganesan K,Parthasarathy Sdoi
10.2174/0929866511320030003subject
Has Abstractpub_date
2013-03-01 00:00:00pages
249-54issue
3eissn
0929-8665issn
1875-5305pii
PPL-EPUB-20120516-6journal_volume
20pub_type
杂志文章abstract::Red blood cell (RBC) encapsulated L-asparaginase is a novel therapeutic for the treatment of asparagine auxotrophic malignancies. The enzyme-loaded red blood cells function as bioreactors to deplete bloodstream substrate. This delivery system provides improved pharmacodynamics with protection from circulating proteoly...
journal_title:Protein and peptide letters
pub_type: 杂志文章,评审
doi:
更新日期:2013-04-01 00:00:00
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journal_title:Protein and peptide letters
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journal_title:Protein and peptide letters
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journal_title:Protein and peptide letters
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journal_title:Protein and peptide letters
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journal_title:Protein and peptide letters
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journal_title:Protein and peptide letters
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journal_title:Protein and peptide letters
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journal_title:Protein and peptide letters
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journal_title:Protein and peptide letters
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journal_title:Protein and peptide letters
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journal_title:Protein and peptide letters
pub_type: 杂志文章,评审
doi:10.2174/092986606775338470
更新日期:2006-01-01 00:00:00
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journal_title:Protein and peptide letters
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journal_title:Protein and peptide letters
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abstract::Numerous small molecules including cytokines primarily associated with immune response have been shown to play a role in normal mesenchymal stem cells (MSC) and tumour cells' communication. One characteristic that distinguishes MSC from fibroblast and other cells of mesenchymal origin is their pro-tumour migratory beh...
journal_title:Protein and peptide letters
pub_type: 杂志文章,评审
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journal_title:Protein and peptide letters
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abstract::We have synthesised nine analogues of the antibacterial peptide anoplin with a peptoid residue at position 5 (H-GLLKXIKTLL-NH(2)). The most active compounds showed MIC-values of 12.5 and 25 microM against E.coli and S.aureus. These MIC-values are comparable with anoplin which showed 23 microM and 11 microM against E. ...
journal_title:Protein and peptide letters
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更新日期:2009-01-01 00:00:00
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journal_title:Protein and peptide letters
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journal_title:Protein and peptide letters
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journal_title:Protein and peptide letters
pub_type: 杂志文章,评审
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journal_title:Protein and peptide letters
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journal_title:Protein and peptide letters
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journal_title:Protein and peptide letters
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journal_title:Protein and peptide letters
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journal_title:Protein and peptide letters
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abstract::Utilizing different computational methods; phosphorylation, O-GlcNAc modification and Yin Yang sites are predicted in HMGN-1. Prediction results suggest that interplay of phosphorylation and O-GlcNAc modification regulates binding and removal of HMGN-1 with the nucleosome and its translocation from nucleus to cytoplas...
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