.png){kind=icon}
Return
TM-align: a protein structure alignment algorithm based on the TM-score
.png){kind=icon}
OA
AI
DOI：10.1093/nar/gki524.png)
.png){kind=icon}
.png){kind=icon}
Share.png){kind=icon}
Save
Abstract
En 中文
We have developed TM-align, a new algorithm to identify the best structural alignment between protein pairs that combines the TM-score rotation matrix and Dynamic Programming (DP). The algorithm is similar to 4 times faster than CE and 20 times faster than DALI and SAL. On average, the resulting structure alignments have higher accuracy and coverage than those provided by these most often-used methods. TM-align is applied to an all-against-all structure comparison of 10 515 representative protein chains from the Protein Data Bank (PDB) with a sequence identity cutoff < 95%: 1996 distinct folds are found when a TM-score threshold of 0.5 is used. We also use TM-align to match the models predicted by TASSER for solved non-homologous proteins in PDB. For both folded and misfolded models, TM-align can almost always find close structural analogs, with an average root mean square deviation, RMSD, of 3 angstrom and 87% alignment coverage. Nevertheless, there exists a significant correlation between the correctness of the predicted structure and the structural similarity of the model to the other proteins in the PDB. This correlation could be used to assist in model selection in blind protein structure predictions.
Keywords:
STRUCTURE PREDICTION
SECONDARY STRUCTURE
GENOMIC SCALE
SEQUENCE
CLASSIFICATION
RESOLUTION
BENCHMARK
DISTANCE
DOMAIN
CASP5
AI Summary
Key information extracted from the uploaded paper, including a brief overview, abstract, background, key highlights, visual analysis, and future outlook.
Journal
IF:
13.1
Papers:
3.6W
Citations:
29.0W
Organization
No organization information available
Cited Papers
No cited papers available