Protein database searches for multiple alignments

doi:10.1073/pnas.87.14.5509

Comparative Study

. 1990 Jul;87(14):5509-13.

doi: 10.1073/pnas.87.14.5509.

Protein database searches for multiple alignments

S F Altschul¹, D J Lipman

Affiliations

PMID: 2196570
PMCID: PMC54354
DOI: 10.1073/pnas.87.14.5509

Comparative Study

Protein database searches for multiple alignments

S F Altschul et al. Proc Natl Acad Sci U S A. 1990 Jul.

. 1990 Jul;87(14):5509-13.

doi: 10.1073/pnas.87.14.5509.

Authors

S F Altschul¹, D J Lipman

Affiliation

¹ National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD 20894.

PMID: 2196570
PMCID: PMC54354
DOI: 10.1073/pnas.87.14.5509

Abstract

Protein database searches frequently can reveal biologically significant sequence relationships useful in understanding structure and function. Weak but meaningful sequence patterns can be obscured, however, by other similarities due only to chance. By searching a database for multiple as opposed to pairwise alignments, distant relationships are much more easily distinguished from background noise. Recent statistical results permit the power of this approach to be analyzed. Given a typical query sequence, an algorithm described here permits the current protein database to be searched for three-sequence alignments in less than 4 min. Such searches have revealed a variety of subtle relationships that pairwise search methods would be unable to detect.

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References

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[1] EMBO J. 1985 May;4(5):1267-72 - PubMed

[2] EMBO J. 1985 May;4(5):1267-72 - PubMed

[3] Science. 1985 Mar 22;227(4693):1435-41 - PubMed

[4] Science. 1985 Mar 22;227(4693):1435-41 - PubMed

[5] Science. 1986 Mar 28;231(4745):1567-72 - PubMed

[6] Science. 1986 Mar 28;231(4745):1567-72 - PubMed

[7] Nucleic Acids Res. 1986 Mar 11;14(5):2215-28 - PubMed

[8] Nucleic Acids Res. 1986 Mar 11;14(5):2215-28 - PubMed

[9] Proc Natl Acad Sci U S A. 1986 Apr;83(8):2363-7 - PubMed

[10] Proc Natl Acad Sci U S A. 1986 Apr;83(8):2363-7 - PubMed

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Protein database searches for multiple alignments

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Protein database searches for multiple alignments

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