title: Molecular cloning, sequence analysis and homology modeling of the first caudata amphibian antifreeze-like protein in axolotl (Ambystoma mexicanum).
abstract: Antifreeze proteins (AFPs) refer to a class of polypeptides that are produced by certain vertebrates, plants, fungi, and bacteria and which permit their survival in subzero environments. In this study, we report the molecular cloning, sequence analysis and three-dimensional structure of the axolotl antifreeze-like protein (AFLP) by homology modeling of the first caudate amphibian AFLP. We constructed a full-length spleen cDNA library of axolotl (Ambystoma mexicanum). An EST having highest similarity (∼42%) with freeze-responsive liver protein Li16 from Rana sylvatica was identified, and the full-length cDNA was subsequently obtained by RACE-PCR. The axolotl antifreeze-like protein sequence represents an open reading frame for a putative signal peptide and the mature protein composed of 93 amino acids. The calculated molecular mass and the theoretical isoelectric point (pl) of this mature protein were 10128.6 Da and 8.97, respectively. The molecular characterization of this gene and its deduced protein were further performed by detailed bioinformatics analysis. The three-dimensional structure of current AFLP was predicted by homology modeling, and the conserved residues required for functionality were identified. The homology model constructed could be of use for effective drug design. This is the first report of an antifreeze-like protein identified from a caudate amphibian.
authors.affiliation: School of Life Science and Biotechnology, Dalian University of Technology, Dalian, Liaoning, China.
authors.forename: Songyan
authors.initials: S
authors.lastname: Zhang
authors.forename: Jiuxiang
authors.initials: J
authors.lastname: Gao
authors.forename: Yiling
authors.initials: Y
authors.lastname: Lu
authors.forename: Shasha
authors.initials: S
authors.lastname: Cai
authors.forename: Xue
authors.initials: X
authors.lastname: Qiao
authors.forename: Yipeng
authors.initials: Y
authors.lastname: Wang
authors.forename: Haining
authors.initials: H
authors.lastname: Yu
mesh_terms: D000595:Amino Acid Sequence; D000818:Animals; D021301:Antifreeze Proteins / Q000737:chemistry / Q000235:genetics / Q000378:metabolism*; D001483:Base Sequence; D003001:Cloning, Molecular; D018076:DNA, Complementary / Q000235:genetics; D005786:Gene Expression Regulation; D008958:Models, Molecular; D011487:Protein Conformation; D016415:Sequence Alignment; D014562:Caudata / Q000235:genetics / Q000378:metabolism*
chemical_list: D021301:Antifreeze Proteins; D018076:DNA, Complementary