Summary: Terpene synthase family, metal binding domain
This is the Wikipedia entry entitled "Terpene synthase C terminal domain". More...
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Terpene synthase C terminal domain Edit Wikipedia article
5-epi-aristolochene synthase from nicotiana tabacum
In molecular biology, this protein domain belongs to the terpene synthase family (TPS). Its role is to synthesize terpenes which are part of primary metabolism, such as sterols and carotene and also part of the secondary metabolism. This entry will focus on the C terminal domain of the TPS protein.
Terpenes synthases have a role in producing important molecules in metabolism, these molecules are part of a large group called terpenoids . In particular, the C terminal domain catalyzes the cyclization of geranyl diphosphate, orienting and stabilizing multiple reactive carbocation intermediates. Or in simpler terms, the C terminal aids the synthesis of new molecules.
It is thought to have at least two alpha helices.
Sequences containing this protein domain belong to the terpene synthase family. It has been suggested that this gene family be designated tps (for terpene synthase). Sequence comparisons reveal similarities between the monoterpene (C10) synthases, sesquiterpene (C15) synthases and the diterpene (C20) synthases. It has been split into six subgroups on the basis of phylogeny, called Tpsa-Tpsf .
- Tpsf includes linalool synthase. In the fungus Phaeosphaeria sp. (strain L487) the synthesis of ent-kaurene from geranylgeranyl dophosphate is promoted by a single bifunctional protein.
- Starks CM, Back K, Chappell J, Noel JP (1997). "Structural basis for cyclic terpene biosynthesis by tobacco 5-epi-aristolochene synthase.". Science 277 (5333): 1815–20. doi:10.1126/science.277.5333.1815. PMID 9295271.
- Bohlmann J, Steele CL, Croteau R (August 1997). "Monoterpene synthases from grand fir (Abies grandis). cDNA isolation, characterization, and functional expression of myrcene synthase, (-)-(4S)-limonene synthase, and (-)-(1S,5S)-pinene synthase". J. Biol. Chem. 272 (35): 21784–92. doi:10.1074/jbc.272.35.21784. PMID 9268308.
- , 5-epi- aristolochene synthase,  and (+)-delta-cadinene synthase SWISSPROT
- "4S-limonene synthase precursor - Mentha spicata (Spearmint)". Uniprot.org. doi:10.1073/pnas.0700915104. Retrieved 2012-08-02.
- "Ent-copalyl diphosphate synthase, chloroplastic precursor - Pisum sativum (Garden pea)". Uniprot.org. doi:10.1046/j.1365-313X.1997.11030443.x. Retrieved 2012-08-02.
- "Taxadiene synthase - Taxus brevifolia (Pacific yew)". Uniprot.org. doi:10.1074/jbc.271.16.9201. Retrieved 2012-08-02.
- "Pinene synthase, chloroplastic precursor - Abies grandis (Grand fir)". Uniprot.org. Retrieved 2012-08-02.
- "Myrcene synthase, chloroplastic precursor - Abies grandis (Grand fir)". Uniprot.org. Retrieved 2012-08-02.
- "Ent-kaur-16-ene synthase, chloroplastic precursor - Cucurbita maxima (Pumpkin)". Uniprot.org. doi:10.1046/j.1365-313X.1996.10020203.x. Retrieved 2012-08-02.
- "Linalool synthase - Clarkia concinna (Red ribbons)". Uniprot.org. Retrieved 2012-08-02.
- Kawaide H, Imai R, Sassa T, Kamiya Y (August 1997). "Ent-kaurene synthase from the fungus Phaeosphaeria sp. L487. cDNA isolation, characterization, and bacterial expression of a bifunctional diterpene cyclase in fungal gibberellin biosynthesis". J. Biol. Chem. 272 (35): 21706–12. doi:10.1074/jbc.272.35.21706. PMID 9268298.
This tab holds the annotation information that is stored in the Pfam database. As we move to using Wikipedia as our main source of annotation, the contents of this tab will be gradually replaced by the Wikipedia tab.
Terpene synthase family, metal binding domain Provide feedback
It has been suggested that this gene family be designated tps (for terpene synthase) . It has been split into six subgroups on the basis of phylogeny, called tpsa-tpsf. tpsa includes vetispiridiene synthase Q39979 5-epi- aristolochene synthase, Q40577 and (+)-delta-cadinene synthase P93665. tpsb includes (-)-limonene synthase, Q40322. tpsc includes kaurene synthase A, O04408. tpsd includes taxadiene synthase, Q41594 pinene synthase, O24475 and myrcene synthase, O24474. tpse includes kaurene synthase B. tpsf includes linalool synthase.
Bohlmann J, Steele CL, Croteau R; , J Biol Chem 1997;272:21784-21792.: Monoterpene synthases from grand fir (Abies grandis). cDNA isolation, characterization, and functional expression of myrcene synthase, (-)-(4S)-limonene synthase, and (-)-(1S,5S)-pinene synthase. PUBMED:9268308 EPMC:9268308
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR005630
Sequences containing this domain belong to the terpene synthase family. It has been suggested that this gene family be designated tps (for terpene synthase). Sequence comparisons reveal similarities between the monoterpene (C10) synthases, sesquiterpene (C15) synthases and the diterpene (C20) synthases. It has been split into six subgroups on the basis of phylogeny, called Tpsa-Tpsf [PUBMED:9268308].
- Tpsa includes vetispiridiene synthase SWISSPROT, 5-epi- aristolochene synthase, SWISSPROT and (+)-delta-cadinene synthase SWISSPROT.
- Tpsb includes (-)-limonene synthase, SWISSPROT.
- Tpsc includes copalyl diphosphate synthase (kaurene synthase A), SWISSPROT.
- Tpsd includes taxadiene synthase, SWISSPROT, pinene synthase, SWISSPROT and myrcene synthase, SWISSPROT.
- Tpse includes ent-kaurene synthase B SWISSPROT.
- Tpsf includes linalool synthase SWISSPROT.
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
|Molecular function||magnesium ion binding (GO:0000287)|
|lyase activity (GO:0016829)|
|terpene synthase activity (GO:0010333)|
- the number of sequences which exhibit this architecture
a textual description of the architecture, e.g. Gla, EGF x 2, Trypsin.
This example describes an architecture with one
Gladomain, followed by two consecutive
EGFdomains, and finally a single
- the UniProt description of the protein sequence
- the number of residues in the sequence
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We make a range of alignments for each Pfam-A family:
- the curated alignment from which the HMM for the family is built
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key: available, not generated, — not available.
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Curation and family details
|Seed source:||Pfam-B_728 (release 3.0)|
|Author:||Finn RD, Bateman A, Griffiths-Jones SR|
|Number in seed:||87|
|Number in full:||2046|
|Average length of the domain:||234.00 aa|
|Average identity of full alignment:||21 %|
|Average coverage of the sequence by the domain:||48.78 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||11|
|Download:||download the raw HMM for this family|
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There are 2 interactions for this family. More...
We determine these interactions using iPfam, which considers the interactions between residues in three-dimensional protein structures and maps those interactions back to Pfam families. You can find more information about the iPfam algorithm in the journal article that accompanies the website.
For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the Terpene_synth_C domain has been found. There are 92 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein seqence.
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