REBASE-a database for DNA restriction and modification: enzymes, genes and genomes

被引：367

作者：

Roberts, Richard J. ^{[1
]}

Vincze, Tamas ^{[1
]}

Posfai, Janos ^{[1
]}

Macelis, Dana ^{[1
]}

机构：

[1] New England Biolabs Inc, Ipswich, MA 01938 USA

来源：

NUCLEIC ACIDS RESEARCH | 2010年 / 38卷

关键词：

D O I：

10.1093/nar/gkp874

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

REBASE is a comprehensive database of information about restriction enzymes, DNA methyl-transferases and related proteins involved in the biological process of restriction-modification (R-M). It contains fully referenced information about recognition and cleavage sites, isoschizomers, neoschizomers, commercial availability, methylation sensitivity, crystal and sequence data. Experimentally characterized homing endonucleases are also included. The fastest growing segment of REBASE contains the putative R-M systems found in the sequence databases. Comprehensive descriptions of the R-M content of all fully sequenced genomes are available including summary schematics. The contents of REBASE may be browsed from the web (http://rebase.neb.com) and selected compilations can be downloaded by ftp (ftp.neb.com). Additionally, monthly updates can be requested via email.

引用

页码：D234 / D236

页数：3

共 9 条

[1] The Universal Protein Resource (UniProt) 2009 [J].

Bairoch, Amos ;

Consortium, UniProt ;

Bougueleret, Lydie ;

Altairac, Severine ;

Amendolia, Valeria ;

Auchincloss, Andrea ;

Argoud-Puy, Ghislaine ;

Axelsen, Kristian ;

Baratin, Delphine ;

Blatter, Marie-Claude ;

Boeckmann, Brigitte ;

Bolleman, Jerven ;

Bollondi, Laurent ;

Boutet, Emmanuel ;

Quintaje, Silvia Braconi ;

Breuza, Lionel ;

Bridge, Alan ;

deCastro, Edouard ;

Ciapina, Luciane ;

Coral, Danielle ;

Coudert, Elisabeth ;

Cusin, Isabelle ;

Delbard, Gwennaelle ;

Dornevil, Dolnide ;

Roggli, Paula Duek ;

Duvaud, Severine ;

Estreicher, Anne ;

Famiglietti, Livia ;

Feuermann, Marc ;

Gehant, Sebastian ;

Farriol-Mathis, Nathalie ;

Ferro, Serenella ;

Gasteiger, Elisabeth ;

Gateau, Alain ;

Gerritsen, Vivienne ;

Gos, Arnaud ;

Gruaz-Gumowski, Nadine ;

Hinz, Ursula ;

Hulo, Chantal ;

Hulo, Nicolas ;

James, Janet ;

Jimenez, Silvia ;

Jungo, Florence ;

Junker, Vivien ;

Kappler, Thomas ;

Keller, Guillaume ;

Lachaize, Corinne ;

Lane-Guermonprez, Lydie ;

Langendijk-Genevaux, Petra ;

Lara, Vicente .

NUCLEIC ACIDS RESEARCH, 2009, 37 :D169-D174

[2]

Bateman A, 2004, NUCLEIC ACIDS RES, V32, pD138, DOI [10.1093/nar/gkp985, 10.1093/nar/gkh121, 10.1093/nar/gkr1065]

[3]

Benson DA, 2013, NUCLEIC ACIDS RES, V41, pD36, DOI [10.1093/nar/gkn723, 10.1093/nar/gkp1024, 10.1093/nar/gkw1070, 10.1093/nar/gkr1202, 10.1093/nar/gkx1094, 10.1093/nar/gkl986, 10.1093/nar/gkq1079, 10.1093/nar/gks1195, 10.1093/nar/gkg057]

[4] The RCSB PDB information portal for structural genomics [J].

Kouranov, Andrei ;

Xie, Lei ;

de la Cruz, Joanna ;

Chen, Li ;

Westbrook, John ;

Bourne, Philip E. ;

Berman, Helen M. .

NUCLEIC ACIDS RESEARCH, 2006, 34 :D302-D305

[5] NCBI reference sequences (RefSeq): a curated non-redundant sequence database of genomes, transcripts and proteins [J].

Pruitt, Kim D. ;

Tatusova, Tatiana ;

Maglott, Donna R. .

NUCLEIC ACIDS RESEARCH, 2007, 35 :D61-D65

[6] REBASE - enzymes and genes for DNA restriction and modification [J].

Roberts, Richard J. ;

Vincze, Tamas ;

Posfai, Janos ;

Macelis, Dana .

NUCLEIC ACIDS RESEARCH, 2007, 35 :D269-D270

[7] A nomenclature for restriction enzymes, DNA methyltransferases, homing endonucleases and their genes [J].

Roberts, RJ ;

Belfort, M ;

Bestor, T ;

Bhagwat, AS ;

Bickle, TA ;

Bitinaite, J ;

Blumenthal, RM ;

Degtyarev, SK ;

Dryden, DTF ;

Dybvig, K ;

Firman, K ;

Gromova, ES ;

Gumport, RI ;

Halford, SE ;

Hattman, S ;

Heitman, J ;

Hornby, DP ;

Janulaitis, A ;

Jeltsch, A ;

Josephsen, J ;

Kiss, A ;

Klaenhammer, TR ;

Kobayashi, I ;

Kong, HM ;

Krüger, DH ;

Lacks, S ;

Marinus, MG ;

Miyahara, M ;

Morgan, RD ;

Murray, NE ;

Nagaraja, V ;

Piekarowicz, A ;

Pingoud, A ;

Raleigh, E ;

Rao, DN ;

Reich, N ;

Repin, VE ;

Selker, EU ;

Shaw, PC ;

Stein, DC ;

Stoddard, BL ;

Szybalski, W ;

Trautner, TA ;

Van Etten, JL ;

Vitor, JMB ;

Wilson, GG ;

Xu, SY .

NUCLEIC ACIDS RESEARCH, 2003, 31 (07) :1805-1812

[8] Environmental genome shotgun sequencing of the Sargasso Sea [J].

Venter, JC ;

Remington, K ;

Heidelberg, JF ;

Halpern, AL ;

Rusch, D ;

Eisen, JA ;

Wu, DY ;

Paulsen, I ;

Nelson, KE ;

Nelson, W ;

Fouts, DE ;

Levy, S ;

Knap, AH ;

Lomas, MW ;

Nealson, K ;

White, O ;

Peterson, J ;

Hoffman, J ;

Parsons, R ;

Baden-Tillson, H ;

Pfannkoch, C ;

Rogers, YH ;

Smith, HO .

SCIENCE, 2004, 304 (5667) :66-74

[9] Using shotgun sequence data to find active restriction enzyme genes [J].

Zheng, Yu ;

Posfai, Janos ;

Morgan, Richard D. ;

Vincze, Tamas ;

Roberts, Richard J. .

NUCLEIC ACIDS RESEARCH, 2009, 37 (01)

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