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0  structures 501  species 0  interactions 6390  sequences 58  architectures

Family: Aa_trans (PF01490)

Summary: Transmembrane amino acid transporter protein

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 transporter". More...

Amino acid transporter Edit Wikipedia article

Transmembrane amino acid transporter protein
Identifiers
Symbol Aa_trans
Pfam PF01490
InterPro IPR013057
TCDB 2.A.18

An amino acid transporter is a membrane transport protein that transports amino acids. They are mainly of the solute carrier family.

Contents

[edit] Solute carrier family examples

[edit] VIAAT

Vesicular inhibitory amino acid transporter (VIAAT) is responsible for the storage of GABA and glycine in neuronal synaptic vesicles.[12]

[edit] Human proteins containing this domain

ATA2; SLC32A1; SLC36A1; SLC36A2; SLC36A3; SLC36A4; SLC38A1; SLC38A2; SLC38A3; SLC38A4; SLC38A5; SLC38A6;

[edit] References

  1. ^ Kanai Y, Hediger MA (2004). "The glutamate/neutral amino acid transporter family SLC1: molecular, physiological and pharmacological aspects". Pflugers Arch 447 (5): 469–479. doi:10.1007/s00424-003-1146-4. PMID 14530974. 
  2. ^ Palacin M, Kanai Y (2004). "The ancillary proteins of HATs: SLC3 family of amino acid transporters". Pflugers Arch 447 (5): 490–494. doi:10.1007/s00424-003-1062-7. PMID 14770309. 
  3. ^ Verrey F, Closs EI, Wagner CA, Palacin M, Endou H, Kanai Y (2004). "CATs and HATs: the SLC7 family of amino acid transporters". Pflugers Arch 447 (5): 532–542. doi:10.1007/s00424-003-1086-z. PMID 14770310. 
  4. ^ Daniel H, Kottra G (2004). "The proton oligopeptide cotransporter family SLC15 in physiology and pharmacology". Pflugers Arch 447 (5): 610–618. doi:10.1007/s00424-003-1101-4. PMID 12905028. 
  5. ^ Reimer RJ, Edwards RH (2004). "Organic anion transport is the primary function of the SLC17/type I phosphate transporter family". Pflugers Arch 447 (5): 629–635. doi:10.1007/s00424-003-1087-y. PMID 12811560. 
  6. ^ Eiden LE, Schafer MK, Weihe E, Schutz B (2004). "The vesicular amine transporter family (SLC18): amine/proton antiporters required for vesicular accumulation and regulated exocytotic secretion of monoamines and acetylcholine". Pflugers Arch 447 (5): 636–640. doi:10.1007/s00424-003-1100-5. PMID 12827358. 
  7. ^ Palmieri F (2004). "The mitochondrial transporter family (SLC25): physiological and pathological implications". Pflugers Arch 447 (5): 689–709. doi:10.1007/s00424-003-1099-7. PMID 14598172. 
  8. ^ Mount DB, Romero MF (2004). "The SLC26 gene family of multifunctional anion exchangers". Pflugers Arch 447 (5): 710–721. doi:10.1007/s00424-003-1090-3. PMID 12759755. 
  9. ^ Gasnier B (2004). "The SLC32 transporter, a key protein for the synaptic release of inhibitory amino acids". Pflugers Arch 447 (5): 752–755. doi:10.1007/s00424-003-1091-2. PMID 12750892. 
  10. ^ Boll M, Daniel H, Gasnier B (2004). "The SLC36 family: proton-coupled transporters for the absorption of selected amino acids from extracellular and intracellular proteolysis family". Pflugers Arch 447 (5): 776–779. doi:10.1007/s00424-003-1073-4. PMID 12748860. 
  11. ^ Mackenzie B, Erickson JD (2004). "Sodium-coupled neutral amino acid (System N/A) transporters of the SLC38 gene family". Pflugers Arch 447 (5): 784–795. doi:10.1007/s00424-003-1117-9. PMID 12845534. 
  12. ^ [Vesicular Inhibitory Amino Acid Transporter Is Present in Glucagon-Containing Secretory Granules in {alpha}TC6 Cells, Mouse Clonal {alpha}-Cells, and {alpha}-Cells of Islets of Langerhans] Diabetes 52:2066-2074, 2003

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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.

Transmembrane amino acid transporter protein Provide feedback

This transmembrane region is found in many amino acid transporters including UNC-47 and MTR. UNC-47 encodes a vesicular amino butyric acid (GABA) transporter, (VGAT). UNC-47 is predicted to have 10 transmembrane domains P34579 [1]. MTR is a N system amino acid transporter system protein involved in methyltryptophan resistance P38680. Other members of this family include proline transporters and amino acid permeases.

Literature references

  1. McIntire SL, Reimer RJ, Schuske K, Edwards RH, Jorgensen EM; , Nature 1997;389:870-876.: Identification and characterization of the vesicular GABA transporter. PUBMED:9349821 EPMC:9349821


External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR013057

This transmembrane region is found in many amino acid transporters including SWISSPROT (UNC-47) and SWISSPROT (MTR). UNC-47 encodes a vesicular amino butyric acid (GABA) transporter, (VGAT) and is is predicted to have 10 transmembrane domains UNC47_CAEEL [PUBMED:9349821]. MTR is an N system amino acid transporter system protein involved in methyltryptophan resistance MTR_NEUCR. Other members of this family include proline transporters and amino acid transporters whose specificity has not yet been identified.

Domain organisation

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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...

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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
(24)
Full
(6390)
Representative proteomes NCBI
(7221)
Meta
(166)
RP15
(1380)
RP35
(2401)
RP55
(3501)
RP75
(4195)
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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
(24)
Full
(6390)
Representative proteomes NCBI
(7221)
Meta
(166)
RP15
(1380)
RP35
(2401)
RP55
(3501)
RP75
(4195)
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
(24)
Full
(6390)
Representative proteomes NCBI
(7221)
Meta
(166)
RP15
(1380)
RP35
(2401)
RP55
(3501)
RP75
(4195)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download   Download  
Gzipped Download   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.

Pfam alignments:

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: Pfam-B_419 (release 4.0)
Previous IDs: none
Type: Family
Author: Bashton M, Bateman A
Number in seed: 24
Number in full: 6390
Average length of the domain: 337.70 aa
Average identity of full alignment: 15 %
Average coverage of the sequence by the domain: 78.72 %

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 20.0 20.0
Trusted cut-off 20.0 20.0
Noise cut-off 19.9 19.9
Model length: 409
Family (HMM) version: 13
Download: download the raw HMM for this family

Species distribution

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