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37  structures 7020  species 0  interactions 55689  sequences 441  architectures

Family: AA_permease_2 (PF13520)

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.

Amino acid permease Provide feedback

No Pfam abstract.

Internal database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR002293

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 include several yeast specific and general amino acid permeases; Emericella nidulans (Aspergillus nidulans) proline transport protein (gene prnB); Trichoderma harzianum amino acid permease INDA1; Salmonella typhimurium L-asparagine permease (gene ansP); and several Escherichia coli and other bacterial permeases and transport proteins. These proteins seem to contain up to 12 transmembrane segments. This entry consists of members of the amino acid-polyamine-organocation (APC) superfamily [ PUBMED:10931886 ].

Also included in this entry is the methylthioribose transporter mtrA from Bacillus subtilis, which transports methylthioribose into the cell [ PUBMED:29280348 ].

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
(46)
Full
(55689)
Representative proteomes UniProt
(190771)
RP15
(6435)
RP35
(22528)
RP55
(48693)
RP75
(82338)
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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
(46)
Full
(55689)
Representative proteomes UniProt
(190771)
RP15
(6435)
RP35
(22528)
RP55
(48693)
RP75
(82338)
Alignment:
Format:
Order:
Sequence:
Gaps:
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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
(46)
Full
(55689)
Representative proteomes UniProt
(190771)
RP15
(6435)
RP35
(22528)
RP55
(48693)
RP75
(82338)
Raw Stockholm Download   Download   Download   Download   Download      
Gzipped 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: Jackhmmer:A5ICF5
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: Bateman A
Number in seed: 46
Number in full: 55689
Average length of the domain: 410.10 aa
Average identity of full alignment: 17 %
Average coverage of the sequence by the domain: 81.39 %

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 27.0 27.0
Trusted cut-off 27.0 27.0
Noise cut-off 26.9 26.9
Model length: 427
Family (HMM) version: 8
Download: download the raw HMM for this family

Species distribution

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Viroids Viroids Unclassified sequence Unclassified sequence

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_2 domain has been found. There are 37 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
A0A096TLT9 View 3D Structure Click here
A0A0B4KHK8 View 3D Structure Click here
A0A0G2K1G8 View 3D Structure Click here
A0A0G2KSE4 View 3D Structure Click here
A0A0K3AVL7 View 3D Structure Click here
A0A0N7KU97 View 3D Structure Click here
A0A0P0VCT7 View 3D Structure Click here
A0A0P0VCX1 View 3D Structure Click here
A0A0P0VYU0 View 3D Structure Click here
A0A0P0XI35 View 3D Structure Click here
A0A0P0XZ15 View 3D Structure Click here
A0A0P0Y735 View 3D Structure Click here
A0A0R0E9D6 View 3D Structure Click here
A0A0R0EI54 View 3D Structure Click here
A0A0R0I7B0 View 3D Structure Click here
A0A0R0IAD8 View 3D Structure Click here
A0A0R0IAD8 View 3D Structure Click here
A0A0R0IHB2 View 3D Structure Click here
A0A0R4IFJ3 View 3D Structure Click here
A0A0R4INA7 View 3D Structure Click here
A0A140LGS0 View 3D Structure Click here
A0A1D6EEG7 View 3D Structure Click here
A0A1D6FYQ6 View 3D Structure Click here
A0A1D6GQB5 View 3D Structure Click here
A0A1D6HH20 View 3D Structure Click here
A0A1D6ITD3 View 3D Structure Click here
A0A1D6K479 View 3D Structure Click here
A0A1D6K480 View 3D Structure Click here
A0A1D6K481 View 3D Structure Click here
A0A1D6KGL2 View 3D Structure Click here
A0A1D6KX53 View 3D Structure Click here
A0A1D6KZ93 View 3D Structure Click here
A0A1D6MG65 View 3D Structure Click here
A0A1D6MG66 View 3D Structure Click here
A0A1D6N1M4 View 3D Structure Click here
A0A1D6N1M5 View 3D Structure Click here
A0A1D6N1M5 View 3D Structure Click here
A0A1D6NLL4 View 3D Structure Click here
A0A1D6NQR4 View 3D Structure Click here
A0A1D6NQR4 View 3D Structure Click here
A0A1D6QHX3 View 3D Structure Click here
A0A1D8PCS6 View 3D Structure Click here
A0A1D8PDH1 View 3D Structure Click here
A0A1D8PDL9 View 3D Structure Click here
A0A1D8PGA9 View 3D Structure Click here
A0A1D8PGP7 View 3D Structure Click here
A0A1D8PGQ6 View 3D Structure Click here
A0A1D8PH79 View 3D Structure Click here
A0A1D8PJQ5 View 3D Structure Click here
A0A1D8PS37 View 3D Structure Click here
A0A2R8QU29 View 3D Structure Click here
A4HUW5 View 3D Structure Click here
A4HVX4 View 3D Structure Click here
A4IBY1 View 3D Structure Click here
A4IG22 View 3D Structure Click here
A5PN01 View 3D Structure Click here
B0UYF2 View 3D Structure Click here
B4FAC8 View 3D Structure Click here
B5D5N9 View 3D Structure Click here
B5DFJ0 View 3D Structure Click here
B6TZ59 View 3D Structure Click here
B6UB79 View 3D Structure Click here
B9EWE9 View 3D Structure Click here
B9EWF0 View 3D Structure Click here
B9EXZ6 View 3D Structure Click here
C0HEZ5 View 3D Structure Click here
C0P3V4 View 3D Structure Click here
C0P3V5 View 3D Structure Click here
C0P7B1 View 3D Structure Click here
D3ZI89 View 3D Structure Click here
D3ZMM8 View 3D Structure Click here
D4ADU2 View 3D Structure Click here
E7EXU6 View 3D Structure Click here
E7F8H5 View 3D Structure Click here
E7F8S7 View 3D Structure Click here
E9PWS4 View 3D Structure Click here
E9QF99 View 3D Structure Click here
F1M163 View 3D Structure Click here
F1QGJ2 View 3D Structure Click here
F1QNI7 View 3D Structure Click here
F1QSV1 View 3D Structure Click here
F1QYD9 View 3D Structure Click here
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F1R9X0 View 3D Structure Click here
G8JL19 View 3D Structure Click here
H2KZG9 View 3D Structure Click here
I1J840 View 3D Structure Click here
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I1JGW0 View 3D Structure Click here
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I1KBM8 View 3D Structure Click here
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I1L147 View 3D Structure Click here
I1L151 View 3D Structure Click here
I1L225 View 3D Structure Click here
I1L617 View 3D Structure Click here
I1LES0 View 3D Structure Click here
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K7L630 View 3D Structure Click here
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K7MUP1 View 3D Structure Click here
K7TR83 View 3D Structure Click here
K7TTC8 View 3D Structure Click here
O05896 View 3D Structure Click here
O08812 View 3D Structure Click here
O17069 View 3D Structure Click here
O17167 View 3D Structure Click here
O43246 View 3D Structure Click here
O44798 View 3D Structure Click here
O44832 View 3D Structure Click here
O59813 View 3D Structure Click here
O60113 View 3D Structure Click here
O64759 View 3D Structure Click here
O74537 View 3D Structure Click here
P0AA47 View 3D Structure Click here
P0AAE5 View 3D Structure Click here
P0AAE8 View 3D Structure Click here
P0AAF1 View 3D Structure Click here
P18581 View 3D Structure Click here
P19807 View 3D Structure Click here
P30823 View 3D Structure Click here
P30825 View 3D Structure Click here
P32837 View 3D Structure Click here
P38734 View 3D Structure Click here
P39277 View 3D Structure Click here
P39282 View 3D Structure Click here
P42590 View 3D Structure Click here
P45539 View 3D Structure Click here
P50276 View 3D Structure Click here
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P53744 View 3D Structure Click here
P60061 View 3D Structure Click here
P63115 View 3D Structure Click here
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P63235 View 3D Structure Click here
P70423 View 3D Structure Click here
P71892 View 3D Structure Click here
P75835 View 3D Structure Click here
P77400 View 3D Structure Click here
P82251 View 3D Structure Click here
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Q01650 View 3D Structure Click here
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Q09887 View 3D Structure Click here
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Q10087 View 3D Structure Click here
Q10HT5 View 3D Structure Click here
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Q337V1 View 3D Structure Click here
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Q50E62 View 3D Structure Click here
Q54CK3 View 3D Structure Click here
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Q54F04 View 3D Structure Click here
Q54KK3 View 3D Structure Click here
Q54KK3 View 3D Structure Click here
Q54KK4 View 3D Structure Click here
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Q54W03 View 3D Structure Click here
Q55GU7 View 3D Structure Click here
Q58026 View 3D Structure Click here
Q58596 View 3D Structure Click here
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Q5JKJ0 View 3D Structure Click here
Q5PR34 View 3D Structure Click here
Q5RKI7 View 3D Structure Click here
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Q63016 View 3D Structure Click here
Q6AXS1 View 3D Structure Click here
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Q6Z8D0 View 3D Structure Click here
Q7XUT0 View 3D Structure Click here
Q7Y166 View 3D Structure Click here
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Q84MA5 View 3D Structure Click here
Q84ST3 View 3D Structure Click here
Q86I87 View 3D Structure Click here
Q8BGK6 View 3D Structure Click here
Q8BLQ7 View 3D Structure Click here
Q8BXR1 View 3D Structure Click here
Q8GYB4 View 3D Structure Click here
Q8IR48 View 3D Structure Click here
Q8MH63 View 3D Structure Click here
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Q8VIE6 View 3D Structure Click here
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Q91WN3 View 3D Structure Click here
Q92536 View 3D Structure Click here
Q94197 View 3D Structure Click here
Q9ASS7 View 3D Structure Click here
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Q9LH39 View 3D Structure Click here
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Q9LZ20 View 3D Structure Click here
Q9NA91 View 3D Structure Click here
Q9NS82 View 3D Structure Click here
Q9QXA6 View 3D Structure Click here
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Q9R0S5 View 3D Structure Click here
Q9SHH0 View 3D Structure Click here
Q9SQZ0 View 3D Structure Click here
Q9UHI5 View 3D Structure Click here
Q9UM01 View 3D Structure Click here
Q9UPY5 View 3D Structure Click here
Q9US40 View 3D Structure Click here
Q9UT18 View 3D Structure Click here
Q9VB75 View 3D Structure Click here
Q9VKC2 View 3D Structure Click here
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Q9VPG2 View 3D Structure Click here
Q9VVM0 View 3D Structure Click here
Q9VWD3 View 3D Structure Click here
Q9WTR6 View 3D Structure Click here
Q9WVR6 View 3D Structure Click here
Q9Y1A7 View 3D Structure Click here
Q9Z127 View 3D Structure Click here
Q9Z1K8 View 3D Structure Click here
Q9ZU50 View 3D Structure Click here
U4PLX3 View 3D Structure Click here