Mechanical insights of oxythiamine compound as potent inhibitor for human transketolase-like protein 1 (TKTL1 protein).
Transketolase is a connecting link between glycolytic and pentose phosphate pathway, which is considered as the rate-limiting step due to synthesis of large number of ATP molecule and it can be proposed as a plausible target facilitating the growth of cancerous cells suggesting its potential role in cancer. Oxythiamine, an antimetabolite has been proved to be an efficient anticancerous compound in vitro, but its structural elucidation of the inhibitory mechanism has not yet been done against the human transketolase-like 1 protein (TKTL1). The three-dimensional (3D) structure of TKTL1 protein was modeled and subjected for refinement, stability and validation. Based on the reported homologs of transketolase (TKT), the active site residues His46, Ser49, Ser52, Ser53, Ile56, Leu82, Lys84, Leu123, Ser125, Glu128, Asp154, His160, Thr216 and Lys218 were identified and considered for molecular-modeling studies. Docking studies reveal the H-bond interactions with residues Ser49 and Lys218 that could play a major role in the activity of TKTL1. Molecular dynamics (MD) simulation study was performed to reveal the comparative stability of both native and complex forms of TKTL1. MD trajectory at 30 ns, confirm the role of active site residues Ser49, Lys84, Glu128, His160 and Lys218 in suppressing the activity of TKTL1. Glu128 is observed to be the most important residue for deprotonation state of the aminopyrimidine moiety and preferred to be the site of inhibitory action. Thus, the proposed mechanism of inhibition through in silico studies would pave the way for structure-oriented drug designing against cancer.
a Department of Bioinformatics , Structural Biology and Bio-Computing Laboratory, Alagappa University , Karaikudi , Tamil Nadu , India.
Richard
R
Mariadasse
a Department of Bioinformatics , Structural Biology and Bio-Computing Laboratory, Alagappa University , Karaikudi , Tamil Nadu , India.
Jayashree
J
Biswal
a Department of Bioinformatics , Structural Biology and Bio-Computing Laboratory, Alagappa University , Karaikudi , Tamil Nadu , India.
Prajisha
P
Jayaprakash
a Department of Bioinformatics , Structural Biology and Bio-Computing Laboratory, Alagappa University , Karaikudi , Tamil Nadu , India.
Guru Raj
GR
Rao
a Department of Bioinformatics , Structural Biology and Bio-Computing Laboratory, Alagappa University , Karaikudi , Tamil Nadu , India.
Sanjay Kumar
SK
Choubey
a Department of Bioinformatics , Structural Biology and Bio-Computing Laboratory, Alagappa University , Karaikudi , Tamil Nadu , India.
Santhosh
S
Rajendran
a Department of Bioinformatics , Structural Biology and Bio-Computing Laboratory, Alagappa University , Karaikudi , Tamil Nadu , India.
Jeyaraman
J
Jeyakanthan
D000595:Amino Acid Sequence; D020134:Catalytic Domain; D004791:Enzyme Inhibitors / Q000737:chemistry / Q000494:pharmacology*; D006801:Humans; D006860:Hydrogen Bonding; D008024:Ligands; D056004:Molecular Dynamics Simulation; D008969:Molecular Sequence Data; D010119:Oxythiamine / Q000737:chemistry / Q000494:pharmacology*; D016415:Sequence Alignment; D013816:Thermodynamics; D014174:Transketolase / Q000037:antagonists & inhibitors* / Q000737:chemistry / Q000378:metabolism
D004791:Enzyme Inhibitors; D008024:Ligands; D010119:Oxythiamine; C505431:TKTL1 protein, human; D014174:Transketolase
Glycolysis; MD; TKTL1 protein; oxythiamine; pentose phosphate pathway; transketolase