Phylogenetic analyses of amino acid variation in the serpin proteins

Atchley WR, Lokot T, Wollenberg K, Dress A, Ragg H (2001)
MOLECULAR BIOLOGY AND EVOLUTION 18(8): 1502-1511.

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Abstract
Phylogenetic analyses of 110 serpin protein sequences revealed clades consistent with independent phylogenetic analyses based on exon-intron structure and diagnostic amino acid sites. Trees were estimated by maximum likelihood, neighbor joining and partial split decomposition using both the BLOSUM 62 and Jones-Taylor-Thornton substitution matrices. Neighbor-joining trees gave results closest to those based on independent analyses using genomic and chromosomal data. The maximum-likelihood trees derived using the quartet puzzling algorithm were very conservative, producing many small clades that separated groups of proteins that other results suggest were related. Independent analyses based on exon-intron structure suggested that a neighbor-joining tree was more accurate than maximum-likelihood trees obtained using the quartet puzzling algorithm.
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Atchley WR, Lokot T, Wollenberg K, Dress A, Ragg H. Phylogenetic analyses of amino acid variation in the serpin proteins. MOLECULAR BIOLOGY AND EVOLUTION. 2001;18(8):1502-1511.
Atchley, W. R., Lokot, T., Wollenberg, K., Dress, A., & Ragg, H. (2001). Phylogenetic analyses of amino acid variation in the serpin proteins. MOLECULAR BIOLOGY AND EVOLUTION, 18(8), 1502-1511.
Atchley, W. R., Lokot, T., Wollenberg, K., Dress, A., and Ragg, H. (2001). Phylogenetic analyses of amino acid variation in the serpin proteins. MOLECULAR BIOLOGY AND EVOLUTION 18, 1502-1511.
Atchley, W.R., et al., 2001. Phylogenetic analyses of amino acid variation in the serpin proteins. MOLECULAR BIOLOGY AND EVOLUTION, 18(8), p 1502-1511.
W.R. Atchley, et al., “Phylogenetic analyses of amino acid variation in the serpin proteins”, MOLECULAR BIOLOGY AND EVOLUTION, vol. 18, 2001, pp. 1502-1511.
Atchley, W.R., Lokot, T., Wollenberg, K., Dress, A., Ragg, H.: Phylogenetic analyses of amino acid variation in the serpin proteins. MOLECULAR BIOLOGY AND EVOLUTION. 18, 1502-1511 (2001).
Atchley, William R., Lokot, Tatjana, Wollenberg, Kurt, Dress, Andreas, and Ragg, Hermann. “Phylogenetic analyses of amino acid variation in the serpin proteins”. MOLECULAR BIOLOGY AND EVOLUTION 18.8 (2001): 1502-1511.
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Marques PI, Ferreira Z, Martins M, Figueiredo J, Silva DI, Castro P, Morales-Hojas R, Simoes-Correia J, Seixas S., PLoS ONE 8(6), 2013
PMID: 23826168
Differential recognition by tick-resistant cattle of the recombinantly expressed Rhipicephalus microplus serine protease inhibitor-3 (RMS-3).
Rodriguez-Valle M, Vance M, Moolhuijzen PM, Tao X, Lew-Tabor AE., Ticks Tick Borne Dis 3(3), 2012
PMID: 22608113
Ancestry and evolution of a secretory pathway serpin.
Kumar A, Ragg H., BMC Evol. Biol. 8(), 2008
PMID: 18793432
Serpins in plants and green algae.
Roberts TH, Hejgaard J., Funct. Integr. Genomics 8(1), 2008
PMID: 18060440
The exchangeability of amino acids in proteins.
Yampolsky LY, Stoltzfus A., Genetics 170(4), 2005
PMID: 15944362
Serpins in unicellular Eukarya, Archaea, and Bacteria: sequence analysis and evolution.
Roberts TH, Hejgaard J, Saunders NF, Cavicchioli R, Curmi PM., J. Mol. Evol. 59(4), 2004
PMID: 15638455
A new phylogenetic marker, apolipoprotein B, provides compelling evidence for eutherian relationships.
Amrine-Madsen H, Koepfli KP, Wayne RK, Springer MS., Mol. Phylogenet. Evol. 28(2), 2003
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Serpins: structure, function and molecular evolution.
van Gent D, Sharp P, Morgan K, Kalsheker N., Int. J. Biochem. Cell Biol. 35(11), 2003
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PMID: 12169660

39 References

Data provided by Europe PubMed Central.

Viral inhibition of inflammation: cowpox virus encodes an inhibitor of the interleukin-1 beta converting enzyme.
Ray CA, Black RA, Kronheim SR, Greenstreet TA, Sleath PR, Salvesen GS, Pickup DJ., Cell 69(4), 1992
PMID: 1339309
The ovalbumin family of serpin proteins.
Remold-O'Donnell E., FEBS Lett. 315(2), 1993
PMID: 8417965

AUTHOR UNKNOWN, Mol. Biol. Evol. 4(), 1987
Human neuroserpin (PI12): cDNA cloning and chromosomal localization to 3q26.
Schrimpf SP, Bleiker AJ, Brecevic L, Kozlov SV, Berger P, Osterwalder T, Krueger SR, Schinzel A, Sonderegger P., Genomics 40(1), 1997
PMID: 9070919
cDNA sequence coding for a rat glia-derived nexin and its homology to members of the serpin superfamily.
Sommer J, Gloor SM, Rovelli GF, Hofsteenge J, Nick H, Meier R, Monard D., Biochemistry 26(20), 1987
PMID: 3427015

Strimmer, Mol. Biol. Evol. 14(2), 1997

Strimmer, Mol. Biol. Evol. 13(7), 1996
Organization, evolutionary conservation, expression and unusual Alu density of the human gene for pigment epithelium-derived factor, a unique neurotrophic serpin.
Tombran-Tink J, Mazuruk K, Rodriguez IR, Chung D, Linker T, Englander E, Chader GJ., Mol. Vis. 2(), 1996
PMID: 9238088

AUTHOR UNKNOWN, JOURNAL OF MOLECULAR EVOLUTION 36(), 1993

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