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0  structures 121  species 0  interactions 297  sequences 2  architectures

Family: SUN (PF03856)

Summary: Beta-glucosidase (SUN family)

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The Pfam group coordinates the annotation of Pfam families in Wikipedia, but we have not yet assigned a Wikipedia article to this family. If you think that a particular Wikipedia article provides good annotation, please let us know.

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.

Beta-glucosidase (SUN family) Provide feedback

Members of this family include Nca3, Sun4 and Sim1. This is a family of yeast proteins, involved in a diverse set of functions (DNA replication, aging, mitochondrial biogenesis and cell septation)[1]. BGLA from Candida wickerhamii has been characterised as a Beta-glucosidase EC:3.2.1.21.

Literature references

  1. Mouassite M, Camougrand N, Schwob E, Demaison G, Laclau M, Guerin M; , Yeast 2000;16:905-919.: The 'SUN' family: yeast SUN4/SCW3 is involved in cell septation. PUBMED:10870102 EPMC:10870102

  2. Skory CD, Freer SN; , Appl Environ Microbiol 1995;61:518-525.: Cloning and characterization of a gene encoding a cell-bound, extracellular beta-glucosidase in the yeast Candida wickerhamii. PUBMED:7574590 EPMC:7574590


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR005556

This is a family of proteins is restricted to the fungi, the Saccharomycetales and Schizosaccharomycetales. In Saccharomyces cerevisiae (Baker's yeast)they have been termed the SUN gene family, whose products display high homology in their 258 amino acid C-terminal domain. SIM1, UTH1, NCA3 (SUN, the founding members and now including SUN4) are involved in different cellular processes: DNA replication, ageing, mitochondrial biogenesis and in the cell septation process (SUN4) [PUBMED:10870102].

NCA3 (Nuclear Control of ATPase), is one of the two nuclear genes involved in the control of mitochondrial expression of subunits 6 and 8 of the Fo-F1 ATP synthase in Saccharomyces cerevisiae (Baker s yeast). Mutations in either NCA2 (INTERPRO) or NCA3 dramatically lower the level of the co-transcript encoding subunits 6 and 8 [PUBMED:7723016, PUBMED:7586026]. Also, since NCA3 is one of the four S. cerevisiae genes of the SUN family other SUN family genes were tested; however only UTH1 (but not SUN4 or SIM1) was found to interfere with mitochondria biogenesis [PUBMED:10683261].

Domain organisation

Below is a listing of the unique domain organisations or architectures in which this domain is found. More...

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Alignments

We store a range of different sequence alignments for families. As well as the seed alignment from which the family is built, we provide the full alignment, generated by searching the sequence database using the family HMM. We also generate alignments using four representative proteomes (RP) sets, the NCBI sequence database, and our metagenomics sequence database. More...

View options

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
(50)
Full
(297)
Representative proteomes NCBI
(287)
Meta
(0)
RP15
(29)
RP35
(95)
RP55
(169)
RP75
(204)
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(50)
Full
(297)
Representative proteomes NCBI
(287)
Meta
(0)
RP15
(29)
RP35
(95)
RP55
(169)
RP75
(204)
Alignment:
Format:
Order:
Sequence:
Gaps:
Download/view:

Download options

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
(50)
Full
(297)
Representative proteomes NCBI
(287)
Meta
(0)
RP15
(29)
RP35
(95)
RP55
(169)
RP75
(204)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download    
Gzipped Download   Download   Download   Download   Download   Download   Download    

You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

External links

MyHits provides a collection of tools to handle multiple sequence alignments. For example, one can refine a seed alignment (sequence addition or removal, re-alignment or manual edition) and then search databases for remote homologs using HMMER3.

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 View help on the curation process

Seed source: DOMO:DM02469;
Previous IDs: none
Type: Family
Author: Finn RD
Number in seed: 50
Number in full: 297
Average length of the domain: 247.20 aa
Average identity of full alignment: 45 %
Average coverage of the sequence by the domain: 59.94 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 25.0 25.0
Trusted cut-off 82.4 81.7
Noise cut-off 17.0 22.3
Model length: 249
Family (HMM) version: 8
Download: download the raw HMM for this family

Species distribution

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This visualisation provides a simple graphical representation of the distribution of this family across species. You can find the original interactive tree in the adjacent tab. More...

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