Identification of conserved C2H2 zinc-finger gene families in the Bilateria

Genome Biology

Volumn 2, Issue 5, 2001, Pages

  Knight, Robert D ^a,b   Shimeld, Sebastian M ^a  

^a UNIVERSITY OF READING   (United Kingdom)

^b UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

Additional Data File; Human Dataset; Molecular Phylogenetics; Orthologous Relationship; Orthology Group

Indexed keywords

ARTICLE; BILATERIA; CAENORHABDITIS ELEGANS; DROSOPHILA; HUMAN; HUMAN GENOME; MULTIGENE FAMILY; NONHUMAN; ORTHOLOGY; PHYLOGENY; ZINC FINGER MOTIF; ANIMAL; BIOLOGICAL MODEL; GENE; GENETICS; MOLECULAR EVOLUTION; NUCLEOTIDE SEQUENCE;

TRANSCRIPTION FACTOR; ZINC FINGER PROTEIN;

ANIMALS; CAENORHABDITIS ELEGANS; CONSERVED SEQUENCE; DROSOPHILA; EVOLUTION, MOLECULAR; GENES; HUMANS; MODELS, GENETIC; PHYLOGENY; TRANSCRIPTION FACTORS; ZINC FINGERS;

EID: 0035235252     PISSN: 14747596     EISSN: 1474760X     Source Type: Journal    
DOI: 10.1186/gb-2001-2-5-research0016     Document Type: Article

References (16)

1. Fitch WM: Homology, a personal view on some of the problems. Trends Genet. 2000, 16: 227-231. DOI: 10.1016/S0168-9525(00)02005-9
2. Tatusov RL, Koonin EV, Lipman DJ: A genomic approach to protein families. Science. 1997, 278: 631-637. DOI: 10.1126/science.278.5338.631
3. Tatusov RL, Galperin M, Natale D, Koonin EV: The COG database: a tool for genome-scale analysis of protein functions and evolution. Nucleic Acids Res. 2000, 28: 33-36. DOI: 10.1093/nar/28.1.33
4. Adoutte A, Balavoine G, Lartillot N, Lespinet O, Prud'homme B, de Rosa R: The new animal phylogeny: Reliability and implications. Proc Natl Acad Sci USA. 2000, 97: 4453-4456. DOI: 10.1073/pnas.97.9.4453
5. Pearson WR, Lipmann DJ: Improved tools for biological sequence comparison. Proc Natl Acad Sci USA. 1988, 85: 2444-2448. DOI: 10.1073/pnas.85.8.2444
6. Bohm S, Frishman D, Mewes HW: Variations of the C2H2 zinc finger motif in the yeast genome and classification of yeast zinc finger proteins. Nucleic Acids Res. 1997, 25: 2464-2469. DOI: 10.1093/nar/25.12.2464
7. Bellefroid E, Poncelet D, Lecocq P, Revelant PO, Martial J: The evolutionarily conserved Kruppel-associated box domain defines a subfamily of eukaryotic multifingered proteins. Proc Natl Acad Sci USA. 1991, 88: 3608-3612. DOI: 10.1073/pnas.88.9.3608
8. Knochel W, Poting A, Koster M, el Baradi T, Nietfeld W, Bouwmeester T, Piele T: Evolutionary conserved modules associated with zinc fingers in Xenopus laevis. Proc Natl Acad Sci USA. 1989, 86: 6097-6100. DOI: 10.1073/pnas.86.16.6097
9. Klocke B, Koster M, Hille S, Bouwmeester T, Bohm S, Pieler T, Knochel W: The FAR domain defines a new Xenopus laevis zinc finger protein subfamily with specific RNA homopolymer binding activity. Biochim Biophys Acta. 1994, 1217: 81-89. DOI: 10.1016/0167-4781(94)90128-7
10. Bateman A, Birney E, Durbin R, Eddy S, Howe K, Sonnhammer E: The Pfam Protein Families Database. Nucleic Acids Res. 2000, 28: 263-266. DOI: 10.1093/nar/28.1.263
11. Clarke N, Berg J: Zinc fingers in Caenorhabditis elegans: finding families and probing pathways. Science. 1998, 282: 2018-2022. 10.1126/science.282.5396.2018. DOI: 10.1126/science.282.5396.2018
12. Schultz J, Copley RR, Doerks T, Ponting CP, Bork P: SMART: A Web-based tool for the study of genetically mobile domains. Nucleic Acids Res. 2000, 28: 231-134. DOI: 10.1093/nar/28.1.231
13. Strimmer K, von Hassler S: Quartet puzzling: a quartet maximum likelihood method for reconstructing tree topologies. Mol Biol Evol. 1996, 13: 964-969. DOI: 10.1093/oxfordjournals.molbev.a025664
14. The Berkeley Drosophila Genome Project. [http://www.fruitfly.org/]
15. The C. elegans Protein Database Wormpep. [http://www.sanger.ac.uk/Projects/C_elegans/wormpep/]
16. Pavletich N, Pavo C: Crystal structure of a five-finger GLI-DNA complex: new perspectives on zinc fingers. Science. 1993, 261: 1701-1707. DOI: 10.1126/science.8378770