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Identification and analysis of evolutionarily cohesive functional modules in protein networks.
Campillos M, von Mering C, Jensen LJ, Bork P. Campillos M, et al. Among authors: bork p. Genome Res. 2006 Mar;16(3):374-82. doi: 10.1101/gr.4336406. Epub 2006 Jan 31. Genome Res. 2006. PMID: 16449501 Free PMC article.
An ATPase domain common to prokaryotic cell cycle proteins, sugar kinases, actin, and hsp70 heat shock proteins.
Bork P, Sander C, Valencia A. Bork P, et al. Proc Natl Acad Sci U S A. 1992 Aug 15;89(16):7290-4. doi: 10.1073/pnas.89.16.7290. Proc Natl Acad Sci U S A. 1992. PMID: 1323828 Free PMC article.
Proposed acquisition of an animal protein domain by bacteria.
Bork P, Doolittle RF. Bork P, et al. Proc Natl Acad Sci U S A. 1992 Oct 1;89(19):8990-4. doi: 10.1073/pnas.89.19.8990. Proc Natl Acad Sci U S A. 1992. PMID: 1409594 Free PMC article.
A P-loop-like motif in a widespread ATP pyrophosphatase domain: implications for the evolution of sequence motifs and enzyme activity.
Bork P, Koonin EV. Bork P, et al. Proteins. 1994 Dec;20(4):347-55. doi: 10.1002/prot.340200407. Proteins. 1994. PMID: 7731953
The observed pattern of amino acid residue conservation and predicted secondary structures suggest that this motif may be a modified version of the P-loop of nucleotide binding domains, and that it is likely to be involved in phosphate binding. ...
The observed pattern of amino acid residue conservation and predicted secondary structures suggest that this motif may be a modified version …
Evolutionarily mobile modules in proteins.
Doolittle RF, Bork P. Doolittle RF, et al. Among authors: bork p. Sci Am. 1993 Oct;269(4):50-6. doi: 10.1038/scientificamerican1093-50. Sci Am. 1993. PMID: 8235550 Review. No abstract available.
Fibronectin type III modules in the receptor phosphatase CD45 and tapeworm antigens.
Bork P, Doolittle RF. Bork P, et al. Protein Sci. 1993 Jul;2(7):1185-7. doi: 10.1002/pro.5560020714. Protein Sci. 1993. PMID: 8358302 Free PMC article. No abstract available.
Convergent evolution of similar enzymatic function on different protein folds: the hexokinase, ribokinase, and galactokinase families of sugar kinases.
Bork P, Sander C, Valencia A. Bork P, et al. Protein Sci. 1993 Jan;2(1):31-40. doi: 10.1002/pro.5560020104. Protein Sci. 1993. PMID: 8382990 Free PMC article.
Protein sequence motifs.
Bork P, Koonin EV. Bork P, et al. Curr Opin Struct Biol. 1996 Jun;6(3):366-76. doi: 10.1016/s0959-440x(96)80057-1. Curr Opin Struct Biol. 1996. PMID: 8804823 Review.
Structure and distribution of modules in extracellular proteins.
Bork P, Downing AK, Kieffer B, Campbell ID. Bork P, et al. Q Rev Biophys. 1996 May;29(2):119-67. doi: 10.1017/s0033583500005783. Q Rev Biophys. 1996. PMID: 8870072 Review. No abstract available.
Go hunting in sequence databases but watch out for the traps.
Bork P, Bairoch A. Bork P, et al. Trends Genet. 1996 Oct;12(10):425-7. doi: 10.1016/0168-9525(96)60040-7. Trends Genet. 1996. PMID: 8909140 No abstract available.
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