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46  structures 4304  species 0  interactions 33312  sequences 305  architectures

Family: AA_permease (PF00324)

Summary: Amino acid permease

Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.

This is the Wikipedia entry entitled "Amino acid permease". More...

Amino acid permease Edit Wikipedia article

Amino acid permease
Identifiers
SymbolAA_permease
PfamPF13520
Pfam clanCL0062
InterProIPR004841
PROSITEPDOC00191
TCDB2.A.3
OPM superfamily64
OPM protein3gia

Amino acid permeases are membrane permeases involved in the transport of amino acids into the cell. A number of such proteins have been found to be evolutionary related.[1][2][3] These proteins contain 12 transmembrane segments.

See also

Human proteins containing this domain

CIP1; SLC12A1; SLC12A2; SLC12A3; SLC12A4; SLC12A5; SLC12A6; SLC12A7; SLC12A8; SLC12A9; SLC7A1; SLC7A10; SLC7A11; SLC7A13; SLC7A14; SLC7A2; SLC7A3; SLC7A4; SLC7A5; SLC7A6; SLC7A7; SLC7A8; SLC7A9;

References

  1. ^ Weber E, Jund R, Chevallier MR (1988). "Evolutionary relationship and secondary structure predictions in four transport proteins of Saccharomyces cerevisiae". J. Mol. Evol. 27 (4): 341–350. doi:10.1007/BF02101197. PMID 3146645.
  2. ^ Vandenbol M, Grenson M, Jauniaux JC (1989). "Nucleotide sequence of the Saccharomyces cerevisiae PUT4 proline-permease-encoding gene: similarities between CAN1, HIP1 and PUT4 permeases". Gene. 83 (1): 153–159. doi:10.1016/0378-1119(89)90413-7. PMID 2687114.
  3. ^ Reizer J, Reizer A, Finley K, Kakuda D, Saier Jr MH, MacLeod CL (1993). "Mammalian integral membrane receptors are homologous to facilitators and antiporters of yeast, fungi, and eubacteria". Protein Sci. 2 (1): 20–30. doi:10.1002/pro.5560020103. PMC 2142299. PMID 8382989.
This article incorporates text from the public domain Pfam and InterPro: IPR004841


This page is based on a Wikipedia article. The text is available under the Creative Commons Attribution/Share-Alike License.

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.

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No Pfam abstract.

Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR004841

Amino 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 ]. These proteins seem to contain up to 12 transmembrane segments. The best conserved region in this family is located in the second transmembrane segment.

This domain is found in amino acid permeases, as well as in solute carrier family 12A (SLC12A) members.

Gene Ontology

The mapping between Pfam and Gene Ontology is provided by InterPro. If you use this data please cite InterPro.

Domain organisation

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

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Pfam Clan

This family is a member of clan APC (CL0062), which has the following description:

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

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 (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets and the UniProtKB 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
(25)
Full
(33312)
Representative proteomes UniProt
(119482)
RP15
(3476)
RP35
(11826)
RP55
(27178)
RP75
(47395)
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HTML View             
PP/heatmap 1            

1Cannot generate PP/Heatmap alignments for seeds; no PP data available

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

Format an alignment

  Seed
(25)
Full
(33312)
Representative proteomes UniProt
(119482)
RP15
(3476)
RP35
(11826)
RP55
(27178)
RP75
(47395)
Alignment:
Format:
Order:
Sequence:
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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
(25)
Full
(33312)
Representative proteomes UniProt
(119482)
RP15
(3476)
RP35
(11826)
RP55
(27178)
RP75
(47395)
Raw Stockholm Download   Download   Download   Download   Download   Download    
Gzipped 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.

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: Prosite
Previous IDs: aa_permeases;
Type: Domain
Sequence Ontology: SO:0000417
Author: Finn RD , Bateman A
Number in seed: 25
Number in full: 33312
Average length of the domain: 386.80 aa
Average identity of full alignment: 20 %
Average coverage of the sequence by the domain: 69.64 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 57096847 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 24.6 24.6
Trusted cut-off 24.6 24.6
Noise cut-off 24.5 24.5
Model length: 479
Family (HMM) version: 23
Download: download the raw HMM for this family

Species distribution

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Selections

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Structures

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 AA_permease domain has been found. There are 46 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 sequence.

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AlphaFold Structure Predictions

The list of proteins below match this family and have AlphaFold predicted structures. Click on the protein accession to view the predicted structure.

Protein Predicted structure External Information
A0A0B4LGD3 View 3D Structure Click here
A0A0B4LGD3 View 3D Structure Click here
A0A0G2KTI4 View 3D Structure Click here
A0A0P0YD22 View 3D Structure Click here
A0A0R4IYN4 View 3D Structure Click here
A0A1D6FNR0 View 3D Structure Click here
A0A1D6M2A7 View 3D Structure Click here
A0A1D6QHT6 View 3D Structure Click here
A0A1D8PCR4 View 3D Structure Click here
A0A1D8PDP0 View 3D Structure Click here
A0A1D8PH27 View 3D Structure Click here
A0A1D8PJU0 View 3D Structure Click here
A0A1D8PK89 View 3D Structure Click here
A0A1D8PMB1 View 3D Structure Click here
A0A1D8PN88 View 3D Structure Click here
A0A1D8PNP3 View 3D Structure Click here
A0A1D8PPG4 View 3D Structure Click here
A0A1D8PPI5 View 3D Structure Click here
A0A1D8PQM7 View 3D Structure Click here
A0A1D8PU34 View 3D Structure Click here
A0A1D8PU37 View 3D Structure Click here
A0A2R8Q739 View 3D Structure Click here
A0A2R8QIZ4 View 3D Structure Click here
A0A2R8QSC8 View 3D Structure Click here
A0A2R8QSC8 View 3D Structure Click here
A0A2R8RX62 View 3D Structure Click here
A0A2R8RX62 View 3D Structure Click here
A0AV02 View 3D Structure Click here
A2BFP5 View 3D Structure Click here
A9C3V4 View 3D Structure Click here
B5BP45 View 3D Structure Click here
E9PTX9 View 3D Structure Click here
E9QJH0 View 3D Structure Click here
E9QJH0 View 3D Structure Click here
F1QBW2 View 3D Structure Click here
F1QBW2 View 3D Structure Click here
F1R8D4 View 3D Structure Click here
G3V6N7 View 3D Structure Click here
G3V6N7 View 3D Structure Click here
H2KZC3 View 3D Structure Click here
H2KZC3 View 3D Structure Click here
H8ESD5 View 3D Structure Click here
K7LCK9 View 3D Structure Click here
K7LMX4 View 3D Structure Click here
K7MCG4 View 3D Structure Click here
L7N6B9 View 3D Structure Click here
M9PI37 View 3D Structure Click here
O33203 View 3D Structure Click here
O44846 View 3D Structure Click here
O46100 View 3D Structure Click here
O59831 View 3D Structure Click here
O60146 View 3D Structure Click here
O60170 View 3D Structure Click here
O74543 View 3D Structure Click here
P04817 View 3D Structure Click here
P06775 View 3D Structure Click here
P0AAE0 View 3D Structure Click here
P0AAE2 View 3D Structure Click here
P15380 View 3D Structure Click here
P15993 View 3D Structure Click here
P19145 View 3D Structure Click here
P24207 View 3D Structure Click here
P25376 View 3D Structure Click here
P25527 View 3D Structure Click here
P25737 View 3D Structure Click here
P27837 View 3D Structure Click here
P32487 View 3D Structure Click here
P34261 View 3D Structure Click here
P36029 View 3D Structure Click here
P38084 View 3D Structure Click here
P38085 View 3D Structure Click here
P38090 View 3D Structure Click here
P38329 View 3D Structure Click here
P38967 View 3D Structure Click here
P38971 View 3D Structure Click here
P40901 View 3D Structure Click here
P41815 View 3D Structure Click here
P43548 View 3D Structure Click here
P48813 View 3D Structure Click here
P53388 View 3D Structure Click here
P55011 View 3D Structure Click here
P55012 View 3D Structure Click here
P55014 View 3D Structure Click here
P55016 View 3D Structure Click here
P55017 View 3D Structure Click here
P55018 View 3D Structure Click here
P59158 View 3D Structure Click here
P76037 View 3D Structure Click here
P77610 View 3D Structure Click here
P9WQM7 View 3D Structure Click here
P9WQM9 View 3D Structure Click here
Q03770 View 3D Structure Click here
Q08986 View 3D Structure Click here
Q09573 View 3D Structure Click here
Q09573 View 3D Structure Click here
Q12372 View 3D Structure Click here
Q13621 View 3D Structure Click here
Q19301 View 3D Structure Click here
Q1L963 View 3D Structure Click here
Q1L964 View 3D Structure Click here
Q1LX46 View 3D Structure Click here
Q2FVI1 View 3D Structure Click here
Q2FVV1 View 3D Structure Click here
Q2FXN2 View 3D Structure Click here
Q2FXP8 View 3D Structure Click here
Q2FYU8 View 3D Structure Click here
Q2UVJ5 View 3D Structure Click here
Q47689 View 3D Structure Click here
Q54KK2 View 3D Structure Click here
Q59QM3 View 3D Structure Click here
Q59RL1 View 3D Structure Click here
Q59WB3 View 3D Structure Click here
Q59WG4 View 3D Structure Click here
Q59WU0 View 3D Structure Click here
Q5A695 View 3D Structure Click here
Q5AG77 View 3D Structure Click here
Q5AIA8 View 3D Structure Click here
Q5AL37 View 3D Structure Click here
Q5AMG7 View 3D Structure Click here
Q5RK27 View 3D Structure Click here
Q5RK27 View 3D Structure Click here
Q63632 View 3D Structure Click here
Q63632 View 3D Structure Click here
Q63633 View 3D Structure Click here
Q63633 View 3D Structure Click here
Q657W3 View 3D Structure Click here
Q66HR0 View 3D Structure Click here
Q6Z0E2 View 3D Structure Click here
Q8CJI3 View 3D Structure Click here
Q8VI23 View 3D Structure Click here
Q91V14 View 3D Structure Click here
Q91V14 View 3D Structure Click here
Q92367 View 3D Structure Click here
Q924N4 View 3D Structure Click here
Q924N4 View 3D Structure Click here
Q99MR3 View 3D Structure Click here
Q9BXP2 View 3D Structure Click here
Q9C0V0 View 3D Structure Click here
Q9H2X9 View 3D Structure Click here
Q9H2X9 View 3D Structure Click here
Q9HDV2 View 3D Structure Click here
Q9JIS8 View 3D Structure Click here
Q9JIS8 View 3D Structure Click here
Q9P5N2 View 3D Structure Click here
Q9P5N4 View 3D Structure Click here
Q9P768 View 3D Structure Click here
Q9UHW9 View 3D Structure Click here
Q9UHW9 View 3D Structure Click here
Q9UP95 View 3D Structure Click here
Q9UP95 View 3D Structure Click here
Q9URZ3 View 3D Structure Click here
Q9URZ4 View 3D Structure Click here
Q9VJ75 View 3D Structure Click here
Q9VNC7 View 3D Structure Click here
Q9WVL3 View 3D Structure Click here
Q9WVL3 View 3D Structure Click here
Q9Y666 View 3D Structure Click here
Q9Y666 View 3D Structure Click here
S6FWN4 View 3D Structure Click here
S6FWN4 View 3D Structure Click here
X1WED4 View 3D Structure Click here
X1WED4 View 3D Structure Click here