Summary: Permease family
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Permease family Provide feedback
This family includes permeases for diverse substrates such as xanthine P42086 uracil P39766 and vitamin C Q9UGH3. However many members of this family are functionally uncharacterised and may transport other substrates. Members of this family have ten predicted transmembrane helices.
Internal database links
|SCOOP:||Sulfate_transp HCO3_cotransp BenE MFS_MOT1|
|Similarity to PfamA using HHSearch:||Sulfate_transp|
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR006043
This entry represents a susbset of the wider APC (Amino acid-Polyamine-organoCation) superfamily of transporters [PUBMED:10931886]. Characterised proteins in this entry include:
- Xanthine permease PbuX, involved in cellualar xanthine transport [PUBMED:9098051]
- Uric acid permeases which promotes uptake of uric acid into the cell in limiting-nitrogen conditions [PUBMED:11344136]
- Uracil permease [PUBMED:8206848]
- Sodium-dependent vitamin C transporter, a sodium/ascorbate cotransporter mediating electrogenic uptake of Vitamin C [PUBMED:11396616]
These proteins generally contain 12 transmembrane regions. Many members of this family are uncharacterised and may transport other substrates eg. RutG is likely to transport pyrimidines into the cell [PUBMED:16540542].
The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.
|Cellular component||membrane (GO:0016020)|
|Molecular function||transporter activity (GO:0005215)|
|Biological process||transport (GO:0006810)|
|transmembrane transport (GO:0055085)|
- the number of sequences which exhibit this architecture
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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 large superfamily contains a variety of transporters including amino acid permeases that according to TCDB belong to the APC (Amino acid-Polyamine-organoCation) superfamily.
The clan contains the following 20 members:AA_permease AA_permease_2 AA_permease_C Aa_trans BCCT BenE Branch_AA_trans CstA HCO3_cotransp K_trans MFS_MOT1 Na_Ala_symp Nramp SNF Spore_permease SSF Sulfate_transp Transp_cyt_pur Trp_Tyr_perm Xan_ur_permease
We make a range of alignments for each Pfam-A family:
- the curated alignment from which the HMM for the family is built
- the alignment generated by searching the sequence database using the HMM
- Representative Proteomes (RPs) at 15%, 35%, 55% and 75% co-membership thresholds
- alignment generated by searching the UniProtKB sequence database using the family HMM
- alignment generated by searching the NCBI sequence database using the family HMM
- alignment generated by searching the metagenomics sequence database using the family HMM
You can see the alignments as HTML or in three different sequence viewers:
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Curation and family details
|Seed source:||Pfam-B_1593 (release 2.1)|
|Number in seed:||20|
|Number in full:||5068|
|Average length of the domain:||363.90 aa|
|Average identity of full alignment:||21 %|
|Average coverage of the sequence by the domain:||80.18 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 11927849 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||17|
|Download:||download the raw HMM for this family|
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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 Xan_ur_permease domain has been found. There are 1 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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