The program extends the two-stranded coiled-coil prediction program PairCoil to the identification of three-stranded coiled coils. The computations are based upon data gathered from a three-stranded coiled-coil database comprising 6,319 amino acid residues, as well as from the previously constructed...
Multicoil2 significantly improves both coiled-coil detection and dimer versus trimer state prediction over the original Multicoil algorithm retrained on a newly-constructed database of coiled-coil sequences. The new database, comprised of 2,105 sequences containing 124,088 residues, includes reliable...
Sequence analysis Paircoil2:improved prediction of coiled coils from sequence A.V.McDonnell1,T.Jiang2,†,A.E.Keating2,Ãand B.Berger1,Ã 1Mathematics Department,Computer Science and Artificial Intelligence Laboratory and2Department of Biology, Massachusetts Institute of Technology,Cambridge,MA...
Repacking protein cores with backbone freedom: structure prediction for coiled coils. Progress in homology modeling and protein design has generated considerable interest in methods for predicting side-chain packing in the hydrophobic cores ... P,B,Harbury,... - 《Proceedings of the National Academy...
Meanwhile, the rules that can explicitly explain the prediction results of the test coiled coil can be extracted from the AAFreqCoil model for a better explanation of user predictions. A web server and stand-alone program implementing the AAFreqCoil algorithm are freely available athttp://...
To test the prediction that Q/N-rich and polyQ stretches can be part of α-helical CC structures, and to assess effects of the CC mutations, we used circular dichroism (CD) to analyze the secondary structure of three sets of peptides (Figure 4A). CD is used extensively to study the fo...
展开 关键词: ALPHA-TROPOMYOSIN PROTEIN ACTIN MUSCLE SPECIFICITY STABILITY BINDING DESIGN ACTIVATION PREDICTION DOI: 10.1002/prot.24218 被引量: 16 年份: 2013 收藏 引用 批量引用 报错 分享 全部来源 求助全文 全文购买 Wiley 万方医学 dx.doi.org Ingenta NCBI 查看更多 相似文献 参考文献 引证文献Deriving...
Notably, the enhanced performance of Multicoil2 is evident when tested in stringent leave-family-out crossvalidation on the new database, reflecting expected performance on challenging new prediction targets that have minimal sequence similarity to known coiled-coil families. The Multicoil2 program and...
Prediction of the stability of coiled coils using molecular dynamics simulations. Mol. Simul. 2007; 33: 463-473.Lee, H.; Larson, R. G., Prediction of the stability of coiled coils using molecular dynamics simulations. Molecular Simulation 2007,33 (6-8), 463-473. 52. Religa, T. L, ...
Parry DAD. Coiled-coils in alpha-helix-containing proteins: analysis of the residue types within the heptad repeat and the use of these data in the prediction of coiled coils in other proteins. Biosci Rep. 1981; 2 :1017–1024. doi: 10.1007/BF01122170. [ Cross Ref ]...