Analysis of proteins with the 'hot dog' fold: prediction of function and identification of catalytic residues of hypothetical proteins.
BACKGROUND
The hot dog fold has been found in more than sixty proteins since the first report of its existence about a decade ago. The fold appears to have a strong association with fatty acid biosynthesis, its regulation and metabolism, as the proteins with this fold are predominantly coenzyme A-binding enzymes with a variety of substrates located at their active sites.


RESULTS
We have analyzed the structural features and sequences of proteins having the hot dog fold. This study reveals that though the basic architecture of the fold is well conserved in these proteins, significant differences exist in their sequence, nature of substrate and oligomerization. Segments with certain conserved sequence motifs seem to play crucial structural and functional roles in various classes of these proteins.


CONCLUSIONS
The analysis led to predictions regarding the functional classification and identification of possible catalytic residues of a number of hot dog fold-containing hypothetical proteins whose structures were determined in high throughput structural genomics projects.
Pidugu
Lakshmi S
LS
Molecular Biophysics Unit, Indian Institute of Science, Bangalore, India. plsmukhi@gmail.com
Maity
Koustav
K
Ramaswamy
Karthikeyan
K
Surolia
Namita
N
Suguna
Kaza
K
D000595:Amino Acid Sequence; D000818:Animals; D020134:Catalytic Domain; D019295:Computational Biology; D017124:Conserved Sequence; D029968:Escherichia coli Proteins / Q000737:chemistry*; D054889:Fatty Acid Synthase, Type II; D005227:Fatty Acids / Q000096:biosynthesis; D006801:Humans; D006836:Hydro-Lyases / Q000737:chemistry*; D010802:Phylogeny; D017510:Protein Folding; D017434:Protein Structure, Tertiary; D020539:Sequence Analysis, Protein; D013869:Thiolester Hydrolases / Q000737:chemistry*
D029968:Escherichia coli Proteins; D005227:Fatty Acids; D013869:Thiolester Hydrolases; D006836:Hydro-Lyases; C047118:3-hydroxyacyl-(acyl-carrier-protein) dehydratase; D054889:Fatty Acid Synthase, Type II