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Preprint

Sequence alignment

AD Acacia F. Dishman

Last updated date: Oct 19, 2022 Views: 288 Forks: 0

original An abbreviated version of this protocol was published in Science in Jan, 2021
Evolution of fold switching in a metamorphic protein
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Final sequence alignment used in phylogenetic analysis. List is comprised of 457 chemokine sequences from 36 different vertebrate species. Each entry is annotated with chemokine subfamily, and residue range employed in alignment. The two letter abbreviation listed for each species is based on binomial nomenclature when possible: Ac, Anolis carolinensis; Af, Anoplopoma fimbria; Am, Ailuropoda melanoleuca; Bt, Bos tarus; Cf, Canis familiaris; Cg, Cricetulus griseus; Ci, Ctenopharyngodon idella; Cj, Callithrix jacchus; Cp, Cavia porecellus; Dr, Danio rerio; Ec, Equus caballus; El, Esox lucius; Fc, Felis catus; Gg, Gallus gallus; Hs, Homo sapien; La, Loxodonta africanan; Mam, Macaca mulatta; Md, Monodelphis domestica; Mg, Meleagris gallopavo; Mm, Mus musculus; Nl, Nomascus leucogenys; Oa, Ovis aries; Oc, Oryctolagus cuniculus; Om, Oncorhynchus mykiss; On, Oreochromis niloticus; Ora, Ornithorhynchus anatinus; Pa, Pongo abelii; Pla, Plecoglossus altivelis; Pt, Pan troglodytes; Rn, Rattus norvegicus; Sm, Scophthalmus maximus; Sas, Salmo salar; Ss, Sus Scroofa; Tg, Taeniopygia guttata; Tr, Takifugu rubripes; Xt, Xenopus tropicalis

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How to cite：
Readers should cite both the Bio-protocol preprint and the original research article where this protocol was used:
  1. Dishman, A(2022). Sequence alignment. Bio-protocol Preprint. bio-protocol.org/prep2000.
  2. Dishman, A. F., Tyler, R. C., Fox, J. C., Kleist, A. B., Prehoda, K. E., Babu, M. M., Peterson, F. C. and Volkman, B. F.(2021). Evolution of fold switching in a metamorphic protein. Science 371(6524). DOI: 10.1126/science.abd8700

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