Summary: Las17-binding protein actin regulator
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Las17-binding protein actin regulator Provide feedback
Ysc84 is a family of Las17-binding proteins found in metazoa. Together, Las17 and Ysc84 are essential for proper polymerisation of actin; Ysc84 is able to bind to and stabilise the actin dimer presented by Las17 and thereby promote polymerisation. An active actin cytoskeleton is necessary for adequate endocytosis. (PF00018), or a FYVE zinc finger (PF01363).
Literature references
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Robertson AS, Allwood EG, Smith AP, Gardiner FC, Costa R, Winder SJ, Ayscough KR;, Mol Biol Cell. 2009;20:1618-1628.: The WASP homologue Las17 activates the novel actin-regulatory activity of Ysc84 to promote endocytosis in yeast. PUBMED:19158382 EPMC:19158382
Internal database links
SCOOP: | EipA |
This tab holds annotation information from the InterPro database.
InterPro entry IPR007461
This entry corresponds to proteins having the Ysc84 actin binding domain (YAB). This 184 amino acid domain lies at the N terminus of the Saccharomyces cerevisiae (Baker's yeast) protein Ysc84 (SWISSPROT). It is essential for the organisation of the actin cytoskeleton, and interacts with the Arp2/3 complex [PUBMED:10512884]. Homologous domains are found across a range of species. In fungi and vertebrates the domain is at the N terminus, while there is an SH3 domain at the C terminus. In plants the domain seems to be at the C terminus and in association with a FYVE domain. Interestingly, the domain is absent in invertebrates.
The domain is also found in prokaryotes, where presumable it is also involved in protein binding, perhaps to the prokaryotic homologue of actin [PUBMED:11544518].
Domain organisation
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Alignments
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We make a range of alignments for each Pfam-A family. You can see a description of each above. You can view these alignments in various ways but please note that some types of alignment are never generated while others may not be available for all families, most commonly because the alignments are too large to handle.
Seed (270) |
Full (4121) |
Representative proteomes | UniProt (10347) |
NCBI (12663) |
Meta (193) |
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RP15 (496) |
RP35 (1760) |
RP55 (3277) |
RP75 (5181) |
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PP/heatmap | 1 |
1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key:
available,
not generated,
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We make all of our alignments available in Stockholm format. You can download them here as raw, plain text files or as gzip-compressed files.
Seed (270) |
Full (4121) |
Representative proteomes | UniProt (10347) |
NCBI (12663) |
Meta (193) |
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---|---|---|---|---|---|---|---|---|---|
RP15 (496) |
RP35 (1760) |
RP55 (3277) |
RP75 (5181) |
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Raw Stockholm | |||||||||
Gzipped |
You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.
HMM logo
HMM logos is one way of visualising profile HMMs. Logos provide a quick overview of the properties of an HMM in a graphical form. You can see a more detailed description of HMM logos and find out how you can interpret them here. More...
Trees
This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.
Note: You can also download the data file for the tree.
Curation and family details
This section shows the detailed information about the Pfam family. You can see the definitions of many of the terms in this section in the glossary and a fuller explanation of the scoring system that we use in the scores section of the help pages.
Curation
Seed source: | COG2930 |
Previous IDs: | DUF500; |
Type: | Family |
Sequence Ontology: | SO:0100021 |
Author: |
Kerrison ND |
Number in seed: | 270 |
Number in full: | 4121 |
Average length of the domain: | 117.40 aa |
Average identity of full alignment: | 31 % |
Average coverage of the sequence by the domain: | 30.72 % |
HMM information
HMM build commands: |
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 47079205 -E 1000 --cpu 4 HMM pfamseq
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Model details: |
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Model length: | 128 | ||||||||||||
Family (HMM) version: | 13 | ||||||||||||
Download: | download the raw HMM for this family |
Species distribution
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