Tap1 transporter 1, ATP binding cassette subfamily B member [Rattus norvegicus (Norway rat)] - Gene

Summary

Official Symbol: Tap1provided by RGD
Official Full Name: transporter 1, ATP binding cassette subfamily B memberprovided by RGD
Primary source: RGD:3817
See related: Ensembl:ENSRNOG00000000457 AllianceGenome:RGD:3817
Gene type: protein coding
RefSeq status: VALIDATED
Organism: Rattus norvegicus
Lineage: Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Rattus
Also known as: Cim; Tap2; Abcb2
Summary: Enables several functions, including ATP hydrolysis activity; TAP binding activity; and adenyl ribonucleotide binding activity. Contributes to peptide antigen binding activity. Involved in peptide transport and protection from natural killer cell mediated cytotoxicity. Located in intracellular membrane-bounded organelle. Part of TAP complex. Human ortholog(s) of this gene implicated in several diseases, including MHC class I deficiency; autoimmune disease (multiple); bronchial disease (multiple); diffuse scleroderma; and lung disease (multiple). Orthologous to human TAP1 (transporter 1, ATP binding cassette subfamily B member). [provided by Alliance of Genome Resources, Apr 2022]
Expression: Biased expression in Thymus (RPKM 337.5), Spleen (RPKM 282.5) and 9 other tissues See more
Orthologs: human mouse all
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Genomic context

Location:: 20p12

Exon count:: 11

Annotation release	Status	Assembly	Chr	Location
RS_2024_02	current	GRCr8 (GCF_036323735.1)	20	NC_086038.1 (4658171..4668543, complement)
RS_2023_06	previous assembly	mRatBN7.2 (GCF_015227675.2)	20	NC_051355.1 (4656262..4666634, complement)
106	previous assembly	Rnor_6.0 (GCF_000001895.5)	20	NC_005119.4 (3979302..3989669)

Chromosome 20 - NC_086038.1 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

Project title: A rat RNA-Seq transcriptomic BodyMap across 11 organs and 4 developmental stages
Description: 320 RNA samples isolated from 11 organs (adrenal gland, brain, heart, kidney, liver, lung, muscle, spleen, thymus, and testes or uterus) from both sexes of Fischer 344 rats across four developmental stages (2-, 6-, 21-, and 104-weeks-old)
BioProject: PRJNA238328
Publication: PMID 24510058
Analysis date: Mon Jun 6 17:44:12 2016

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Study compared the biochemical properties of the nucleotide-binding domains (NBD) of human and rat TAP1; suggests that although the D-helix sequence is not conserved in ABC transporters, its precise positioning within the NBD structure has a critical role in NBD dimerization.
Title: D-helix influences dimerization of the ATP-binding cassette (ABC) transporter associated with antigen processing 1 (TAP1) nucleotide-binding domain.
The transmembrane core complex of transporter associated with antigen processing (TAP)1 and TAP2 is sufficient for UL49.5 protein of bovine herpesvirus type-1 to mediate its inhibitory activity.
Title: The varicellovirus UL49.5 protein blocks the transporter associated with antigen processing (TAP) by inhibiting essential conformational transitions in the 6+6 transmembrane TAP core complex.
TAP subunits alternate in the recruitment and loading of a single MHC class I
Title: Molecular architecture of the TAP-associated MHC class I peptide-loading complex.
the distinct nucleotide binding behaviour of TAP1 and TAP2 is controlled by the nonhomologous C-terminal tails of the two TAP chains
Title: The distinct nucleotide binding states of the transporter associated with antigen processing (TAP) are regulated by the nonhomologous C-terminal tails of TAP1 and TAP2.
Crystal structures of two rat MHC class Ia (RT1-A) molecules that are associated differentially with peptide transporter alleles TAP-A and TAP-B
Title: Crystal structures of two rat MHC class Ia (RT1-A) molecules that are associated differentially with peptide transporter alleles TAP-A and TAP-B.
the biogenesis of functional TAP depends on the assembly of preexisting TAP1 with newly synthesized TAP2, but not vice versa
Title: Biogenesis of functional antigenic peptide transporter TAP requires assembly of pre-existing TAP1 with newly synthesized TAP2.
Nucleotide binding domains of TAP show different nucleotide binding specificites, and identical mutations in the domains can have different effects on peptide transport.
Title: Functional asymmetry of the ATP-binding-cassettes of the ABC transporter TAP is determined by intrinsic properties of the nucleotide binding domains.

Submit: New GeneRIF Correction

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

RH139868 (e-PCR)
- UniSTS:221952

RH142199 (e-PCR)
- UniSTS:231449

RH139398 (e-PCR)
- UniSTS:221484

Tap1 (e-PCR), detects polymorphism
- UniSTS:474694

Gene Ontology Provided by RGD

Function	Evidence Code	Pubs
enables ABC-type peptide antigen transporter activity	IBA Inferred from Biological aspect of Ancestor more info
enables ABC-type peptide antigen transporter activity	IEA Inferred from Electronic Annotation more info
enables ABC-type peptide antigen transporter activity	ISO Inferred from Sequence Orthology more info
enables ABC-type peptide antigen transporter activity	TAS Traceable Author Statement more info	PubMed
enables ADP binding	IDA Inferred from Direct Assay more info	PubMed
enables ADP binding	IEA Inferred from Electronic Annotation more info
enables ADP binding	ISO Inferred from Sequence Orthology more info
enables ATP binding	IDA Inferred from Direct Assay more info	PubMed
enables ATP binding	IEA Inferred from Electronic Annotation more info
enables ATP binding	ISO Inferred from Sequence Orthology more info
enables ATP hydrolysis activity	IDA Inferred from Direct Assay more info	PubMed
enables ATP hydrolysis activity	IEA Inferred from Electronic Annotation more info
enables MHC class I protein binding	IDA Inferred from Direct Assay more info	PubMed
enables MHC class I protein binding	IEA Inferred from Electronic Annotation more info
enables MHC class I protein binding	ISO Inferred from Sequence Orthology more info
enables MHC class Ib protein binding	IEA Inferred from Electronic Annotation more info
enables MHC class Ib protein binding	ISO Inferred from Sequence Orthology more info
enables TAP1 binding	IBA Inferred from Biological aspect of Ancestor more info
enables TAP1 binding	IPI Inferred from Physical Interaction more info	PubMed
enables TAP2 binding	IEA Inferred from Electronic Annotation more info
enables TAP2 binding	IPI Inferred from Physical Interaction more info	PubMed
enables TAP2 binding	ISO Inferred from Sequence Orthology more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables nucleotide binding	IDA Inferred from Direct Assay more info	PubMed
contributes_to peptide antigen binding	IDA Inferred from Direct Assay more info	PubMed
enables peptide antigen binding	IEA Inferred from Electronic Annotation more info
enables peptide antigen binding	ISO Inferred from Sequence Orthology more info
contributes_to peptide transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
enables peptide transmembrane transporter activity	ISO Inferred from Sequence Orthology more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables protein homodimerization activity	IPI Inferred from Physical Interaction more info	PubMed
enables protein-containing complex binding	IDA Inferred from Direct Assay more info	PubMed
enables tapasin binding	IDA Inferred from Direct Assay more info	PubMed
enables tapasin binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
involved_in adaptive immune response	IEA Inferred from Electronic Annotation more info
involved_in antigen processing and presentation of endogenous peptide antigen via MHC class I	IBA Inferred from Biological aspect of Ancestor more info
involved_in antigen processing and presentation of endogenous peptide antigen via MHC class I	IEA Inferred from Electronic Annotation more info
involved_in antigen processing and presentation of endogenous peptide antigen via MHC class I	ISO Inferred from Sequence Orthology more info
involved_in cytosol to endoplasmic reticulum transport	IEA Inferred from Electronic Annotation more info
involved_in cytosol to endoplasmic reticulum transport	ISO Inferred from Sequence Orthology more info
involved_in defense response	IEA Inferred from Electronic Annotation more info
acts_upstream_of_or_within defense response	ISO Inferred from Sequence Orthology more info
involved_in peptide antigen transport	TAS Traceable Author Statement more info	PubMed
involved_in peptide transport	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in peptide transport	ISO Inferred from Sequence Orthology more info
involved_in protection from natural killer cell mediated cytotoxicity	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in protein transport	IEA Inferred from Electronic Annotation more info
involved_in transmembrane transport	IBA Inferred from Biological aspect of Ancestor more info

Component	Evidence Code	Pubs
part_of MHC class I peptide loading complex	IBA Inferred from Biological aspect of Ancestor more info
part_of MHC class I peptide loading complex	IDA Inferred from Direct Assay more info	PubMed
part_of MHC class I peptide loading complex	ISO Inferred from Sequence Orthology more info
part_of TAP complex	IDA Inferred from Direct Assay more info	PubMed
part_of TAP complex	IEA Inferred from Electronic Annotation more info
part_of TAP complex	ISO Inferred from Sequence Orthology more info
located_in centriolar satellite	IEA Inferred from Electronic Annotation more info
located_in centriolar satellite	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum	ISO Inferred from Sequence Orthology more info
located_in endoplasmic reticulum membrane	ISO Inferred from Sequence Orthology more info
is_active_in membrane	IBA Inferred from Biological aspect of Ancestor more info
located_in membrane	ISO Inferred from Sequence Orthology more info

General protein information

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Preferred Names: antigen peptide transporter 1

Names: APT1; ATP-binding cassette sub-family B member 2; peptide transporter TAP1; transporter 1 ABC (ATP binding cassette); transporter 1 ATP-binding cassette sub-family B; transporter 1, ATP-binding cassette, sub-family B (MDR/TAP)

NP_114444.2

EC 7.4.2.14

NCBI Reference Sequences (RefSeq)

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RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

NM_032055.4 → NP_114444.2 antigen peptide transporter 1

See identical proteins and their annotated locations for NP_114444.2

Status: VALIDATED

Source sequence(s)

BC101854, BX883043, Y10234

UniProtKB/Swiss-Prot

P36370

UniProtKB/TrEMBL

A0A023IKD8, A6JJE4, F7EQP4, P97949

Related

ENSRNOP00000000529.4, ENSRNOT00000000529.7

Conserved Domains (3) summary

TIGR00958
Location:2 → 717

3a01208; Conjugate Transporter-2 (CT2) Family protein

pfam00664
Location:177 → 435

ABC_membrane; ABC transporter transmembrane region

cl21455
Location:469 → 697

P-loop_NTPase; P-loop containing Nucleoside Triphosphate Hydrolases