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BSSB: BLAST Server for Structural Biologists

Uthayakumar, Muthukumarasamy and Sowmiya, Govindhan and Sabarinathan, Radhakrishnan and Udayaprakash, N and Vaishnavi, Kirti M and Sekar, Kanagaraj (2011) BSSB: BLAST Server for Structural Biologists. In: Journal of Applied Crystallography, 44 (Part 3). pp. 651-654.

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Official URL: http://scripts.iucr.org/cgi-bin/paper?S00218898110...


The Basic Local Alignment Search Tool (BLAST) is one of the most widely used sequence alignment programs with which similarity searches, for both protein and nucleic acid sequences, can be performed against large databases at high speed. A large number of tools exist for processing BLAST output, but none of them provide three-dimensional structure visualization. This shortcoming has been addressed in the proposed tool BLAST Server for Structural Biologists (BSSB), which maps a BLAST output onto the three-dimensional structure of the subject protein. The three-dimensional structure of the subject protein is represented using a three-color coding scheme (identical: red; similar: yellow; and mismatch: white) based on the pairwise alignment obtained. Thus, the user will be able to visualize a possible three-dimensional structure for the query protein sequence. This information can be used to gain a deeper insight into the sequence-structure correlation. Furthermore, the additional structure-level information enables the user to make coherent and logical decisions regarding the type of input model structure or fragment that can be used for molecular replacement calculations. This tool is freely available to all users at http://bioserver1.physics.iisc.ernet.in/bssb/.

Item Type: Journal Article
Publication: Journal of Applied Crystallography
Publisher: John Wiley & Sons
Additional Information: Copyright of this article belongs to John Wiley & Sons.
Keywords: protein crystallography;sequence alignment;structure visualization;BLAST;BSSB.
Department/Centre: Division of Information Sciences (Doesn't exist now) > BioInformatics Centre
Date Deposited: 17 Jun 2011 08:15
Last Modified: 15 Oct 2018 09:42
URI: http://eprints.iisc.ac.in/id/eprint/38220

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