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SSR1 signal sequence receptor subunit 1 [ Homo sapiens (human) ]

Gene ID: 6745, updated on 11-Sep-2019

Summary

Official Symbol
SSR1provided by HGNC
Official Full Name
signal sequence receptor subunit 1provided by HGNC
Primary source
HGNC:HGNC:11323
See related
Ensembl:ENSG00000124783 MIM:600868
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
TRAPA
Summary
The signal sequence receptor (SSR) is a glycosylated endoplasmic reticulum (ER) membrane receptor associated with protein translocation across the ER membrane. The SSR consists of 2 subunits, a 34-kD glycoprotein encoded by this gene and a 22-kD glycoprotein. This gene generates several mRNA species as a result of complex alternative polyadenylation. This gene is unusual in that it utilizes arrays of polyA signal sequences that are mostly non-canonical. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, May 2014]
Expression
Ubiquitous expression in thyroid (RPKM 19.2), appendix (RPKM 16.5) and 25 other tissues See more
Orthologs

Genomic context

See SSR1 in Genome Data Viewer
Location:
6p24.3
Exon count:
8
Annotation release Status Assembly Chr Location
109.20190905 current GRCh38.p13 (GCF_000001405.39) 6 NC_000006.12 (7281143..7313199, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 6 NC_000006.11 (7281283..7313541, complement)

Chromosome 6 - NC_000006.12Genomic Context describing neighboring genes Neighboring gene ras responsive element binding protein 1 Neighboring gene skeletal muscle cis-regulatory module in RREB1 intron Neighboring gene Sharpr-MPRA regulatory region 2698 Neighboring gene 1-aminocyclopropane-1-carboxylate synthase homolog (inactive) like pseudogene Neighboring gene cancer antigen 1 Neighboring gene ribosomal protein S3 pseudogene 4

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Phenotypes

NHGRI GWAS Catalog

Description
Genome-wide trans-ancestry meta-analysis provides insight into the genetic architecture of type 2 diabetes susceptibility.
NHGRI GWA Catalog

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of signal sequence receptor, alpha (SSR1) by siRNA inhibits HIV-1 replication in HeLa P4/R5 cells PubMed

Go to the HIV-1, Human Interaction Database

Pathways from BioSystems

  • Gene Expression, organism-specific biosystem (from REACTOME)
    Gene Expression, organism-specific biosystemGene Expression covers the pathways by which genomic DNA is transcribed to yield RNA, the regulation of these transcription processes, and the pathways by which newly-made RNA Transcripts are process...
  • IRE1alpha activates chaperones, organism-specific biosystem (from REACTOME)
    IRE1alpha activates chaperones, organism-specific biosystemIRE1-alpha is a single-pass transmembrane protein that resides in the endoplasmic reticulum (ER) membrane. The C-terminus of IRE1-alpha is located in the cytosol; the N-terminus is located in the ER ...
  • Metabolism of proteins, organism-specific biosystem (from REACTOME)
    Metabolism of proteins, organism-specific biosystemProtein metabolism comprises the pathways of translation, post-translational modification and protein folding.
  • Protein processing in endoplasmic reticulum, organism-specific biosystem (from KEGG)
    Protein processing in endoplasmic reticulum, organism-specific biosystemThe endoplasmic reticulum (ER) is a subcellular organelle where proteins are folded with the help of lumenal chaperones. Newly synthesized peptides enter the ER via the sec61 pore and are glycosylate...
  • Protein processing in endoplasmic reticulum, conserved biosystem (from KEGG)
    Protein processing in endoplasmic reticulum, conserved biosystemThe endoplasmic reticulum (ER) is a subcellular organelle where proteins are folded with the help of lumenal chaperones. Newly synthesized peptides enter the ER via the sec61 pore and are glycosylate...
  • SRP-dependent cotranslational protein targeting to membrane, organism-specific biosystem (from REACTOME)
    SRP-dependent cotranslational protein targeting to membrane, organism-specific biosystemThe process for translation of a protein destined for the endoplasmic reticulum (ER) branches from the canonical cytoslic translation process at the point when a nascent polypeptide containing a hydr...
  • Translation, organism-specific biosystem (from REACTOME)
    Translation, organism-specific biosystemProtein synthesis is accomplished through the process of translation of an mRNA sequence into a polypeptide chain. This process can be divided into three distinct stages: initiation, elongation and ...
  • Translocon-associated protein (TRAP) complex, organism-specific biosystem (from KEGG)
    Translocon-associated protein (TRAP) complex, organism-specific biosystemStructural complex; Genetic information processing; Protein processing
  • Translocon-associated protein (TRAP) complex, conserved biosystem (from KEGG)
    Translocon-associated protein (TRAP) complex, conserved biosystemStructural complex; Genetic information processing; Protein processing
  • Unfolded Protein Response (UPR), organism-specific biosystem (from REACTOME)
    Unfolded Protein Response (UPR), organism-specific biosystemThe Unfolded Protein Response (UPR) is a regulatory system that protects the Endoplasmic Reticulum (ER) from overload. The UPR is provoked by the accumulation of improperly folded protein in the ER d...
  • XBP1(S) activates chaperone genes, organism-specific biosystem (from REACTOME)
    XBP1(S) activates chaperone genes, organism-specific biosystemXbp-1 (S) binds the sequence CCACG in ER Stress Responsive Elements (ERSE, consensus sequence CCAAT (N)9 CCACG) located upstream from many genes. The ubiquitous transcription factor NF-Y, a heterotri...

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ14232, FLJ22100, FLJ23034, FLJ78242, FLJ93042, DKFZp781N23103

Gene Ontology Provided by GOA

Function Evidence Code Pubs
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
Process Evidence Code Pubs
IRE1-mediated unfolded protein response TAS
Traceable Author Statement
more info
 
cotranslational protein targeting to membrane TAS
Traceable Author Statement
more info
PubMed 
positive regulation of cell proliferation TAS
Traceable Author Statement
more info
PubMed 
Component Evidence Code Pubs
endoplasmic reticulum IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
endoplasmic reticulum IDA
Inferred from Direct Assay
more info
 
endoplasmic reticulum membrane TAS
Traceable Author Statement
more info
 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

Preferred Names
translocon-associated protein subunit alpha
Names
SSR alpha subunit
SSR-alpha
TRAP alpha
signal sequence receptor subunit alpha
signal sequence receptor, alpha
translocon-associated protein alpha subunit

NCBI Reference Sequences (RefSeq)

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)

  1. NM_001292008.2NP_001278937.1  translocon-associated protein subunit alpha isoform 2 precursor

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate in-frame splice junction at the 5' end of an exon compared to variant 1.The resulting isoform (2) has the same N- and C-termini but is shorter compared to isoform 1.
    Source sequence(s)
    AL139095, AL550910, BC007710, BM685131
    Consensus CDS
    CCDS78109.1
    UniProtKB/Swiss-Prot
    P43307
    UniProtKB/TrEMBL
    C9JBX5
    Related
    ENSP00000420730.1, ENST00000489567.5
    Conserved Domains (1) summary
    pfam03896
    Location:14212
    TRAP_alpha; Translocon-associated protein (TRAP), alpha subunit
  2. NM_003144.5NP_003135.2  translocon-associated protein subunit alpha isoform 1 precursor

    See identical proteins and their annotated locations for NP_003135.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) represents the longest transcript and encodes the longer isoform (1).
    Source sequence(s)
    AL139095, BC007710, BM685131
    Consensus CDS
    CCDS4499.1
    UniProtKB/Swiss-Prot
    P43307
    Related
    ENSP00000244763.4, ENST00000244763.9
    Conserved Domains (1) summary
    pfam03896
    Location:14280
    TRAP_alpha; Translocon-associated protein (TRAP), alpha subunit

RNA

  1. NR_120448.2 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) lacks an alternate exon compared to variant 1. This variant is represented as non-coding because the use of the 5'-most expected translational start codon renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    AL139095, BC007710, BM685131, BQ216448

RefSeqs of Annotated Genomes: Homo sapiens Annotation Release 109 details...Open this link in a new tab

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000006.12 Reference GRCh38.p13 Primary Assembly

    Range
    7281143..7313199 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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