Summary: Uncharacterised protein family (UPF0172)
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Uncharacterised protein family (UPF0172) Provide feedback
In Chlamydomonas reinhardtii the protein TLA1 (truncated light-harvesting chlorophyll antenna size) apparently regulates genes that define the chlorophyll-a antenna size in the photosynthetic apparatus . This family was formerly known as UPF0172.
Tetali SD, Mitra M, Melis A;, Planta. 2007;225:813-829.: Development of the light-harvesting chlorophyll antenna in the green alga Chlamydomonas reinhardtii is regulated by the novel Tla1 gene. PUBMED:16977454 EPMC:16977454
External database links
- 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
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This superfamily includes a number of proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits, regulators of transcription factors and ubiquitination-assisting protein families. In eukaryotes and in prokaryotic cognates of the ubiquitin-based modification pathway, they function as ubiquitin isopeptidases/ deubiquitinases. JAB domains are also found in diverse metabolic pathways in prokaryotes such as siderophore and cysteine biosynthesis. Other distinct versions of the JAB domain, such as RadC are predicted to function as nucleases. Structurally, the JAB domain is related to the nucleotide deaminase and binds a Zinc ion in a similar structural location.
The clan contains the following 6 members:JAB NPL4 Prok-JAB RadC Toxin-JAB1 UPF0172
We make a range of alignments for each Pfam-A family:
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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
|Number in seed:||22|
|Number in full:||258|
|Average length of the domain:||183.70 aa|
|Average identity of full alignment:||34 %|
|Average coverage of the sequence by the domain:||92.45 %|
|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:||8|
|Download:||download the raw HMM for this family|
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