Sandhya, S. ; Kishore, S. ; Sowdhamini, R. ; Srinivasan, N. (2003) Effective detection of remote homologues by searching in sequence dataset of a protein domain fold FEBS Letters, 552 (2-3). pp. 225-230. ISSN 0014-5793
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Official URL: http://www.sciencedirect.com/science/article/pii/S...
Related URL: http://dx.doi.org/10.1016/S0014-5793(03)00929-3
Abstract
Profile matching methods are commonly used in searches in protein sequence databases to detect evolutionary relationships. We describe here a sensitive protocol, which detects remote similarities by searching in a specialized database of sequences belonging to a fold. We have assessed this protocol by exploring the relationships we detect among sequences known to belong to specific folds. We find that searches within sequences adopting a fold are more effective in detecting remote similarities and evolutionary connections than searches in a database of all sequences. We also discuss the implications of using this strategy to link sequence and structure space.
| Item Type: | Article |
|---|---|
| Source: | Copyright of this article belongs to Elsevier Science. |
| Keywords: | Evolution; Profile-based Method; Remote Homology; Superfamily |
| ID Code: | 61244 |
| Deposited On: | 15 Sep 2011 03:56 |
| Last Modified: | 15 Sep 2011 03:56 |
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