ConSSeq: a web-based application for analysis of amino acid conservation based on HSSP database and within context of structure

被引：6

作者：

Higa, RH

Montagner, AJ

Togawa, RC

Kuser, PR

Yamagishi, MEB

Mancini, AL

Pappas, G

Miura, RT

Horita, LG

Neshich, G ^{[1
]}

机构：

[1] Empresa Brasileira Pesquisa Agropecuaria, Ctr Nacl Pesquisa Agropecuaria, Nucleo Bioinformat, Campinas, SP, Brazil

[2] Univ Catolica Brasilia, Lab Bioinformat, Embrapa Recursos Genet & Biotecnol, BR-70770900 Brasilia, DF, Brazil

来源：

BIOINFORMATICS | 2004年 / 20卷 / 12期

基金：

巴西圣保罗研究基金会;

关键词：

D O I：

10.1093/bioinformatics/bth185

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

A web-based application to analyze protein amino acids conservation-Consensus Sequence (ConSSeq) is presented. ConSSeq graphically represents information about amino acid conservation based on sequence alignments reported in homology-derived structures of proteins. Beyond the relative entropy for each position in the alignment, ConSSeq also presents the consensus sequence and information about the amino acids, which are predominant at each position of the alignment. ConSSeq is part of the STING Millennium Suite and is implemented as a Java Applet.

引用

页码：1983 / 1985

页数：3

共 8 条

[1] ConSurf: An algorithmic tool for the identification of functional regions in proteins by surface mapping of phylogenetic information [J].

Armon, A ;

Graur, D ;

Ben-Tal, N .

JOURNAL OF MOLECULAR BIOLOGY, 2001, 307 (01) :447-463

[2] The SWISS-PROT protein sequence database and its supplement TrEMBL in 2000 [J].

Bairoch, A ;

Apweiler, R .

NUCLEIC ACIDS RESEARCH, 2000, 28 (01) :45-48

[3] The Protein Data Bank [J].

Berman, HM ;

Westbrook, J ;

Feng, Z ;

Gilliland, G ;

Bhat, TN ;

Weissig, H ;

Shindyalov, IN ;

Bourne, PE .

NUCLEIC ACIDS RESEARCH, 2000, 28 (01) :235-242

[4]

CAMPIONE M, 2001, JAVATM TUTORIAL SHOR

[5] The HSSP database of protein structure sequence alignments and family profiles [J].

Dodge, C ;

Schneider, R ;

Sander, C .

NUCLEIC ACIDS RESEARCH, 1998, 26 (01) :313-315

[6] STING Millennium: a web-based suite of programs for comprehensive and simultaneous analysis of protein structure and sequence [J].

Neshich, G ;

Togawa, RC ;

Mancini, AL ;

Kuser, PR ;

Yamagishi, MEB ;

Pappas, G ;

Torres, WV ;

Campos, TFE ;

Ferreira, LL ;

Luna, FM ;

Oliveira, AG ;

Miura, RT ;

Inoue, MK ;

Horita, LG ;

de Souza, DF ;

Dominiquini, F ;

Alvaro, A ;

Lima, CS ;

Ogawa, FO ;

Gomes, GB ;

Palandrani, JF ;

dos Santos, GF ;

de Freitas, EM ;

Mattiuz, AR ;

Costa, IC ;

de Almeida, CL ;

Souza, S ;

Baudet, C ;

Higa, RH .

NUCLEIC ACIDS RESEARCH, 2003, 31 (13) :3386-3392

[7] DATABASE OF HOMOLOGY-DERIVED PROTEIN STRUCTURES AND THE STRUCTURAL MEANING OF SEQUENCE ALIGNMENT [J].

SANDER, C ;

SCHNEIDER, R .

PROTEINS-STRUCTURE FUNCTION AND GENETICS, 1991, 9 (01) :56-68

[8] SEQUENCE LOGOS - A NEW WAY TO DISPLAY CONSENSUS SEQUENCES [J].

SCHNEIDER, TD ;

STEPHENS, RM .

NUCLEIC ACIDS RESEARCH, 1990, 18 (20) :6097-6100

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