Literature DB >> 11125092

Kabat Database and its applications: future directions.

G Johnson1, T T Wu.   

Abstract

The Kabat Database was initially started in 1970 to determine the combining site of antibodies based on the available amino acid sequences. The precise delineation of complementarity determining regions (CDR) of both light and heavy chains provides the first example of how properly aligned sequences can be used to derive structural and functional information of biological macromolecules. This knowledge has subsequently been applied to the construction of artificial antibodies with prescribed specificities, and to many other studies. The Kabat database now includes nucleotide sequences, sequences of T cell receptors for antigens (TCR), major histocompatibility complex (MHC) class I and II molecules, and other proteins of immunological interest. While new sequences are continually added into this database, we have undertaken the task of developing more analytical methods to study the information content of this collection of aligned sequences. New examples of analysis will be illustrated on a yearly basis. The Kabat Database and its applications are freely available at http://immuno.bme.nwu.edu.

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Year:  2001        PMID: 11125092      PMCID: PMC29771          DOI: 10.1093/nar/29.1.205

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN: 0305-1048            Impact factor:   16.971


  9 in total

1.  Kabat database and its applications: 30 years after the first variability plot.

Authors:  G Johnson; T T Wu
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

Review 2.  Evolution of antigen binding receptors.

Authors:  G W Litman; M K Anderson; J P Rast
Journal:  Annu Rev Immunol       Date:  1999       Impact factor: 28.527

3.  Possible assortment of a1 and a2 region gene segments in human MHC class I molecules.

Authors:  G Johnson; T T Wu
Journal:  Genetics       Date:  1998-06       Impact factor: 4.562

Review 4.  Antibodies of sharks: revolution and evolution.

Authors:  J J Marchalonis; S F Schluter; R M Bernstein; V S Hohman
Journal:  Immunol Rev       Date:  1998-12       Impact factor: 12.988

5.  A method of estimating the numbers of human and mouse T cell receptors for antigen alpha and beta chain V-genes.

Authors:  G Johnson; T T Wu
Journal:  Immunol Cell Biol       Date:  1997-12       Impact factor: 5.126

6.  Profile of numbers of sequence differences among V-genes coding for the variable regions of T cell receptor for antigen alpha and beta chains.

Authors:  G Johnson; T T Wu
Journal:  J Mol Evol       Date:  1997-03       Impact factor: 2.395

7.  Somatic hyperconversion diversifies the single Vh gene of the chicken with a high incidence in the D region.

Authors:  C A Reynaud; A Dahan; V Anquez; J C Weill
Journal:  Cell       Date:  1989-10-06       Impact factor: 41.582

8.  A method of estimating the numbers of human and mouse immunoglobulin V-genes.

Authors:  G Johnson; T T Wu
Journal:  Genetics       Date:  1997-03       Impact factor: 4.562

9.  An analysis of the sequences of the variable regions of Bence Jones proteins and myeloma light chains and their implications for antibody complementarity.

Authors:  T T Wu; E A Kabat
Journal:  J Exp Med       Date:  1970-08-01       Impact factor: 14.307

  9 in total
  28 in total

1.  Antibody epitopes on the neuraminidase of a recent H3N2 influenza virus (A/Memphis/31/98).

Authors:  Upma Gulati; Chi-Ching Hwang; Lalitha Venkatramani; Shelly Gulati; Stephen J Stray; Janis T Lee; W Graeme Laver; Alexey Bochkarev; Adam Zlotnick; Gillian M Air
Journal:  J Virol       Date:  2002-12       Impact factor: 5.103

2.  Noncovalent scFv multimers of tumor-targeting anti-Lewis(y) hu3S193 humanized antibody.

Authors:  Barbara E Power; Larissa Doughty; Deborah R Shapira; John E Burns; Ann M Bayly; Joanne M Caine; Zhanqi Liu; Andrew M Scott; Peter J Hudson; Alexander A Kortt
Journal:  Protein Sci       Date:  2003-04       Impact factor: 6.725

3.  Investigating the properties of Bacillus thuringiensis Cry proteins with novel loop replacements created using combinatorial molecular biology.

Authors:  Craig R Pigott; Martin S King; David J Ellar
Journal:  Appl Environ Microbiol       Date:  2008-04-11       Impact factor: 4.792

4.  Apparent structural differences at the tetramerization region of erythroid and nonerythroid beta spectrin as discriminated by phage displayed scFvs.

Authors:  Yuanli Song; Chloe Antoniou; Adnan Memic; Brian K Kay; L W-M Fung
Journal:  Protein Sci       Date:  2011-03-30       Impact factor: 6.725

5.  Consensus design of a NOD receptor leucine rich repeat domain with binding affinity for a muramyl dipeptide, a bacterial cell wall fragment.

Authors:  Rachael Parker; Ana Mercedes-Camacho; Tijana Z Grove
Journal:  Protein Sci       Date:  2014-04-17       Impact factor: 6.725

6.  Cloning and sequence analysis of cDNAs encoding the heavy and light chain variable regions of an Ab2beta anti-idiotypic monoclonal antibody possessing an internal image of cocaine.

Authors:  M Ho; M Segre
Journal:  Biochim Biophys Acta       Date:  2001-10-31

7.  Monoclonal antibody 667 recognizes the variable region A motif of the ecotropic retrovirus CasBrE envelope glycoprotein and inhibits Env binding to the viral receptor.

Authors:  Hanna Dreja; Laurent Gros; Sylvie Villard; Estanislao Bachrach; Anna Oates; Claude Granier; Thierry Chardes; Jean-Claude Mani; Marc Piechaczyk; Mireia Pelegrin
Journal:  J Virol       Date:  2003-10       Impact factor: 5.103

8.  Cofactor-containing antibodies: crystal structure of the original yellow antibody.

Authors:  Xueyong Zhu; Paul Wentworth; Robert A Kyle; Richard A Lerner; Ian A Wilson
Journal:  Proc Natl Acad Sci U S A       Date:  2006-02-28       Impact factor: 11.205

9.  Crystal structures of a therapeutic single chain antibody in complex with two drugs of abuse-Methamphetamine and 3,4-methylenedioxymethamphetamine.

Authors:  Reha Celikel; Eric C Peterson; S Michael Owens; Kottayil I Varughese
Journal:  Protein Sci       Date:  2009-11       Impact factor: 6.725

10.  Generating conformation-specific synthetic antibodies to trap proteins in selected functional states.

Authors:  Marcin Paduch; Akiko Koide; Serdar Uysal; Shahir S Rizk; Shohei Koide; Anthony A Kossiakoff
Journal:  Methods       Date:  2012-12-29       Impact factor: 3.608

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