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1  structure 97  species 0  interactions 186  sequences 3  architectures

Family: LAT2 (PF15703)

Summary: Linker for activation of T-cells family member 2

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 "LAT2". More...

LAT2 Edit Wikipedia article

LAT2
Available structures
PDBOrtholog search: PDBe RCSB
Identifiers
AliasesLAT2, LAB, NTAL, WBSCR15, WBSCR5, WSCR5, HSPC046, linker for activation of T-cells family member 2, linker for activation of T cells family member 2
External IDsOMIM: 605719 MGI: 1926479 HomoloGene: 11297 GeneCards: LAT2
Gene location (Human)
Chromosome 7 (human)
Chr.Chromosome 7 (human)[1]
Chromosome 7 (human)
Genomic location for LAT2
Genomic location for LAT2
Band7q11.23Start74,199,652 bp[1]
End74,229,834 bp[1]
RNA expression pattern
PBB GE LAT2 221581 s at fs.png
More reference expression data
Orthologs
SpeciesHumanMouse
Entrez
Ensembl
UniProt
RefSeq (mRNA)

NM_014146
NM_032463
NM_032464

NM_020044
NM_022964

RefSeq (protein)

NP_054865
NP_115852
NP_115853

NP_064428
NP_075253

Location (UCSC)Chr 7: 74.2 – 74.23 MbChr 5: 134.6 – 134.62 Mb
PubMed search[3][4]
Wikidata
View/Edit HumanView/Edit Mouse

Linker for activation of T-cells family member 2 is a protein that in humans is encoded by the LAT2 gene.[5][6][7]

This gene is one of the contiguous genes at 7q11.23 commonly deleted in Williams syndrome, a multisystem developmental disorder. This gene consists of at least 14 exons, and its alternative splicing generates 3 transcript variants, all encoding the same protein.[7]

References

  1. ^ a b c GRCh38: Ensembl release 89: ENSG00000086730 - Ensembl, May 2017
  2. ^ a b c GRCm38: Ensembl release 89: ENSMUSG00000040751 - Ensembl, May 2017
  3. ^ "Human PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
  4. ^ "Mouse PubMed Reference:". National Center for Biotechnology Information, U.S. National Library of Medicine.
  5. ^ Osborne LR, Martindale D, Scherer SW, Shi XM, Huizenga J, Heng HH, Costa T, Pober B, Lew L, Brinkman J, Rommens J, Koop B, Tsui LC (Jan 1997). "Identification of genes from a 500-kb region at 7q11.23 that is commonly deleted in Williams syndrome patients". Genomics. 36 (2): 328–36. doi:10.1006/geno.1996.0469. PMID 8812460.
  6. ^ Janssen E, Zhu M, Zhang W, Koonpaew S, Zhang W (Jan 2003). "LAB: a new membrane-associated adaptor molecule in B cell activation". Nat Immunol. 4 (2): 117–23. doi:10.1038/ni882. PMID 12514734.
  7. ^ a b "Entrez Gene: LAT2 linker for activation of T cells family, member 2".

Further reading

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.

Linker for activation of T-cells family member 2 Provide feedback

No Pfam abstract.

Literature references

  1. Brdicka T, Imrich M, Angelisova P, Brdickova N, Horvath O, Spicka J, Hilgert I, Luskova P, Draber P, Novak P, Engels N, Wienands J, Simeoni L, Osterreicher J, Aguado E, Malissen M, Schraven B, Horejsi V;, J Exp Med. 2002;196:1617-1626.: Non-T cell activation linker (NTAL): a transmembrane adaptor protein involved in immunoreceptor signaling. PUBMED:12486104 EPMC:12486104


This tab holds annotation information from the InterPro database.

InterPro entry IPR031428

The adaptor protein linker activator of T-cells 2 (LAT2), also called non-T-cell activation linker (NTAL), linker activator for B-cells (LAB) or Williams Beuren Syndrome critical region 5 (WBSCR5), is expressed in various myeloid and lymphoid cells [ PUBMED:16160011 ]. Given the wide expression pattern, it may modulate signalling in most types of leukocytes [ PUBMED:20643813 ]. It has been shown to be involved in immunoreceptor signaling [ PUBMED:12486104 ], B cell activation [ PUBMED:12514734 ], negative regulation of T cell activation [ PUBMED:17081783 ], and regulation of mast cell physiology [ PUBMED:25153696 ].

Gene Ontology

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

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 (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets and the UniProtKB sequence database. More...

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  Seed
(9)
Full
(186)
Representative proteomes UniProt
(298)
RP15
(10)
RP35
(41)
RP55
(124)
RP75
(222)
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available

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

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  Seed
(9)
Full
(186)
Representative proteomes UniProt
(298)
RP15
(10)
RP35
(41)
RP55
(124)
RP75
(222)
Alignment:
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  Seed
(9)
Full
(186)
Representative proteomes UniProt
(298)
RP15
(10)
RP35
(41)
RP55
(124)
RP75
(222)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download  
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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:Q5S7W5
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: Eberhardt R
Number in seed: 9
Number in full: 186
Average length of the domain: 122.50 aa
Average identity of full alignment: 45 %
Average coverage of the sequence by the domain: 75.83 %

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 28.1 27.0
Noise cut-off 23.9 26.7
Model length: 179
Family (HMM) version: 7
Download: download the raw HMM for this family

Species distribution

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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 LAT2 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 sequence.

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