Fold prediction and comparative modeling of Bdm1: a probable alpha/beta hydrolase associated with hot water epilepsy.
Hot water epilepsy (HWE) is a benign and rare form of reflex epilepsy that occurs most commonly in humans. Bdm1 is one of the proteins whose mRNA transcript is overexpressed during HWE in a rat model. We show, by sequence analysis and fold recognition methods, that Bdm1 has strong structural similarities to alpha/beta hydrolases like the thioesterases. A three-dimensional model derived by comparative modeling methods allowed the search for catalytic residues using a flexible functional template characteristic of these enzymes. We predict that Bdm1 might be regulated by homocysteine levels by means of direct participation in degradation pathways.
Bhaduri
Anirban
A
National Centre for Biological Sciences, Tata Insititute of Fundamental Research, UAS-GKVK Campus, Bangalore 560 065, India.
Krishnaswamy
Lakshminarasimhan
L
Ullal
Gautam R
GR
Panicker
Mitradas M
MM
Sowdhamini
Ramanathan
R
D000595:Amino Acid Sequence; D000818:Animals; D001665:Binding Sites; D020134:Catalytic Domain / Q000235:genetics; D020195:Epilepsy, Reflex / Q000201:enzymology / Q000235:genetics; D006801:Humans; D006867:Hydrolases / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism; D006868:Hydrolysis; D008958:Models, Molecular; D008969:Molecular Sequence Data; D009124:Muscle Proteins / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism; D009419:Nerve Tissue Proteins / Q000737:chemistry* / Q000235:genetics / Q000378:metabolism; D011487:Protein Conformation; D017510:Protein Folding; D051381:Rats; D016415:Sequence Alignment; D017386:Sequence Homology, Amino Acid; D013379:Substrate Specificity
D009124:Muscle Proteins; C486613:Ndrg4 protein, rat; D009419:Nerve Tissue Proteins; D006867:Hydrolases