Molecular mechanism analysis of Gloydius shedaoensis venom gloshedobin interaction with inhibitors by homology modeling.
Snake venom thrombin-like enzymes (SVTLEs) are widely applied in the treatment of thrombotic diseases, however, the molecular mechanism of its inhibition by synthetic and natural proteinaceous inhibitors is not yet understood. Here we investigated effects of protease inhibitors including phenylmethylsulfonil fluoride (PMSF), benzamidine (BMD) and its derivates on the activity of recombinant gloshedobin, a SVTLE from the snake Gloydius shedaoensis. The molecular inhibition mechanism was postulated by separately docking inhibitors into three-dimensional model of gloshedobin using protein C activator from Agkistrodon contortrix contortrix venom (ACC-C, which bear 78% identity with gloshedobin) as template. The analysis indicated that the strongest inhibitor, PMSF, was via a covalent bond with the catalytic Ser195, while other inhibitors showing weaker inhibitory activity were via hydrogen bond with Ser195 or non-catalytic residues.
School of Bioscience and Biotechnology, Dalian University of Technology, Dalian 116024, China.
Xiuping
X
Jiang
Lei
L
Chen
Jianqiang
J
Xu
Qing
Q
Yang
D000818:Animals; D001550:Benzamidines / Q000737:chemistry / Q000494:pharmacology; D055162:Biocatalysis / Q000187:drug effects; D002417:Cattle; D008958:Models, Molecular; D010664:Phenylmethylsulfonyl Fluoride / Q000737:chemistry / Q000494:pharmacology; D010802:Phylogeny; D011994:Recombinant Proteins / Q000378:metabolism; D015842:Serine Proteinase Inhibitors / Q000494:pharmacology*; D040681:Structural Homology, Protein; D013917:Thrombin / Q000037:antagonists & inhibitors / Q000737:chemistry / Q000378:metabolism*; D014757:Viper Venoms / Q000037:antagonists & inhibitors* / Q000737:chemistry / Q000378:metabolism*; D017819:Viperidae / Q000378:metabolism*
D001550:Benzamidines; D011994:Recombinant Proteins; D015842:Serine Proteinase Inhibitors; D014757:Viper Venoms; D010664:Phenylmethylsulfonyl Fluoride; D013917:Thrombin; C557086:gloshedobin protein, Gloydius shedaoensis; C032157:benzamidine