User:Alexbateman/sandbox hotdog domain
| HotDog domain | |||||||||
|---|---|---|---|---|---|---|---|---|---|
 Cartoon representation of the molecular structure of the crystal structure of TT0310 protein from Thermus thermophilus HB8 (PDB: 1WLU) [1] | |||||||||
| Identifiers | |||||||||
| Symbol | HotDog | ||||||||
| Pfam | PF03061 | ||||||||
| Pfam clan | CL0050 | ||||||||
| ECOD | 222.1.1 | ||||||||
| InterPro | IPR029069 | ||||||||
| |||||||||
In molecular biology the HotDog domain is a protein structural motif found in a diverse superfamily of enzymes, primarily thioesterases and dehydratases. The name "HotDog" refers to its characteristic structure, where a central α-helix (the "sausage") is wrapped by a curved β-sheet (the "bun").[2]
Structure
[edit]The HotDog domain consists of a central α-helix (typically 5 turns long) and an antiparallel β-sheet (usually 5-7 strands) that wraps around the α-helix. The basic structural unit of HotDog domain proteins is typically a homodimer, formed by the association of two monomers or two tandem copies of the domain. However, more complex quaternary structures, including tetramers and hexamers, have been observed.[3]
Function
[edit]Proteins containing the HotDog domain are primarily involved in thioester hydrolysis, various ehydration reactions and acyl transfer reactions. Hotdog fold protein play roles in various metabolic pathways, such as fatty acid biosynthesis and degradation, polyketide biosynthesis and phenylacetic acid degradation.
Enzyme families
[edit]The HotDog domain superfamily includes several enzyme families, such as:
- 4-hydroxybenzoyl-CoA thioesterases
- FabA-like dehydratases
- YbgC-like acyl-CoA thioesterases
- TesB-like thioesterases
- MaoC dehydratase-like enzymes
Catalytic mechanism
[edit]The catalytic mechanism of HotDog domain enzymes varies depending on the specific enzyme and reaction. However, many of these enzymes share common features in their active sites including a conserved catalytic triad or dyad, often including aspartate, glutamate, or serine residues. A nucleophilic attack mechanism, typically involving an activated water molecule and Substrate binding sites that accommodate the CoA moiety and the acyl group.
Evolution and distribution
[edit]HotDog domain proteins are found in all three domains of life: Bacteria, Archaea, and Eukaryota. Their widespread distribution suggests an ancient evolutionary origin. Despite low overall sequence similarity, the structural conservation of the HotDog fold implies a common ancestor for these diverse enzymes.[4]
See also
[edit]References
[edit]- ^ Kunishima, Naoki; Asada, Yukuhiko; Sugahara, Mayumi; Ishijima, Jun; Nodake, Yuichi; Sugahara, Mitsuaki; Miyano, Masashi; Kuramitsu, Seiki; Yokoyama, Shigeyuki; Sugahara, Michihiro (2005-09-01). "A novel induced-fit reaction mechanism of asymmetric hot dog thioesterase PAAI". Journal of molecular biology. 352 (1): 212–228. doi:10.1016/j.jmb.2005.07.008. ISSN 1089-8638. PMID 16061252.
- ^ Dillon, SC; Bateman, A (2004). "The Hotdog fold: wrapping up a superfamily of thioesterases and dehydratases". BMC Bioinformatics. 5: 109. doi:10.1186/1471-2105-5-109. PMC 516016. PMID 15307895.
{{cite journal}}: CS1 maint: PMC format (link) CS1 maint: unflagged free DOI (link) - ^ Pidugu, LS; Maity, K; Ramaswamy, K; Surolia, N; Suguna, K (2009). "Analysis of proteins with the 'hot dog' fold: prediction of function and identification of catalytic residues of hypothetical proteins". BMC Structural Biology. 9: 37. doi:10.1186/1472-6807-9-37. PMC 2698920. PMID 19473548.
{{cite journal}}: CS1 maint: PMC format (link) CS1 maint: unflagged free DOI (link) - ^ Cantu, DC; Chen, Y; Reilly, PJ (2010). "Thioesterases: A new perspective based on their primary and tertiary structures". Protein Science. 19 (7): 1281–1295. doi:10.1002/pro.417. PMC 2974821. PMID 20506386.
{{cite journal}}: CS1 maint: PMC format (link)