Summary: Tryptophan/tyrosine permease family
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.
Tryptophan/tyrosine permease family Provide feedback
No Pfam abstract.
Martin K, Morlin G, Smith A, Nordyke A, Eisenstark A, Golomb M; , J Bacteriol 1998;180:107-118.: The tryptophanase gene cluster of Haemophilus influenzae type b: evidence for horizontal gene transfer. PUBMED:9422600 EPMC:9422600
Internal database links
|Similarity to PfamA using HHSearch:||Aa_trans AA_permease Spore_permease AA_permease_2|
External database links
This tab holds annotation information from the InterPro database.
InterPro entry IPR018227Amino acid permeases are integral membrane proteins involved in the transport of amino acids into the cell. A number of such proteins have been found to be evolutionary related [PUBMED:3146645, PUBMED:2687114, PUBMED:8382989].
Aromatic amino acids are concentrated in the cytoplasm of Escherichia coli by 4 distinct transport systems: a general aromatic amino acid permease, and a specific permease for each of the 3 types (Phe, Tyr and Trp) [PUBMED:1987112]. It has been shown [PUBMED:2022620] that some permeases in E. coli and related bacteria are evolutionary related. These permeases are proteins of about 400 to 420 amino acids and are located in the cytoplasmic membrane and, like bacterial sugar/cation transporters, are thought to contain 12 transmembrane (TM) regions [PUBMED:1987112] - hydropathy analysis, however, is inconclusive, suggesting the possibility of 10 to 12 membrane-spanning domains [PUBMED:2022620]. The best conserved domain is a stretch of 20 residues which seems to be located in a cytoplasmic loop between the first and second transmembrane region.
- 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
- the Pfam graphic itself.
Loading domain graphics...
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 18 members:AA_permease AA_permease_2 AA_permease_C Aa_trans BenE Branch_AA_trans CstA HCO3_cotransp K_trans Na_Ala_symp Nramp Spore_permease SSF Sulfate_tra_GLY 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 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:
- Pfam viewer
- an HTML-based viewer that uses DAS to retrieve alignment fragments on request
1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key: available, not generated, — not available.
Format an alignment
If you find these logos useful in your own work, please consider citing the following article:
Note: You can also download the data file for the tree.
Curation and family details
|Seed source:||Pfam-B_2873 (release 6.5)|
|Number in seed:||13|
|Number in full:||4713|
|Average length of the domain:||382.30 aa|
|Average identity of full alignment:||25 %|
|Average coverage of the sequence by the domain:||94.07 %|
|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|
Weight segments by...
Change the size of the sunburst
selected sequences to HMM
a FASTA-format file
- 0 sequences
- 0 species
How the sunburst is generated
Colouring and labels
Anomalies in the taxonomy tree
Missing taxonomic levels
Unmapped species names
Too many species/sequences
The tree shows the occurrence of this domain across different species. More...
You can use the tree controls to manipulate how the interactive tree is displayed:
- show/hide the summary boxes
- highlight species that are represented in the seed alignment
- expand/collapse the tree or expand it to a given depth
- select a sub-tree or a set of species within the tree and view them graphically or as an alignment
- save a plain text representation of the tree