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Generally scores below 0.20 corresponds to randomly chosen unrelated proteins whereas structures with a score higher than 0.5 assume roughly the same fold. [2] A quantitative study [3] shows that proteins of TM-score = 0.5 have a posterior probability of 37% in the same CATH topology family and of 13% in the same SCOP fold family. The ...
The I-TASSER server allows users to generate automatically protein structure and function predictions. Input Mandatory: Amino acid sequence with length from 10 to 1,500 residues; Optional (user can provide optionally restraints and templates to assist I-TASSER modeling): Contact restraints; Distance maps; Inclusion of special templates
TM-align TM-score based protein structure alignment: Cα: Pair: nil: server and download: Y. Zhang & J. Skolnick: 2005 mTM-align Multiple protein structure alignment based on TM-align Cα Multi No server and download: R. Dong, Z. Peng, Y. Zhang & J. Yang 2018 VAST Vector Alignment Search Tool: SSE: Pair: nil: server: S. Bryant: 1996 PrISM
Transitive Consistency Score (TCS) is an extended version of the T-Coffee scoring scheme. [14] It uses T-Coffee libraries of pairwise alignments to evaluate any third party MSA. Pairwise projections can be produced using fast or slow methods, thus allowing a trade-off between speed and accuracy.
TM-score – a different structure comparison measure Longest continuous segment (LCS) — A different structure comparison measure Global distance calculation (GDC_sc, GDC_all) — Structure comparison measures that use full-model information (not just α-carbon) to assess similarity
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By the original design the GDT algorithm calculates 20 GDT scores, i.e. for each of 20 consecutive distance cutoffs (0.5 Å, 1.0 Å, 1.5 Å, ... 10.0 Å). [2] For structure similarity assessment it is intended to use the GDT scores from several cutoff distances, and scores generally increase with increasing cutoff.