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SSR4 signal sequence receptor subunit 4 [ Homo sapiens (human) ]

Gene ID: 6748, updated on 5-Jan-2020

Summary

Official Symbol
SSR4provided by HGNC
Official Full Name
signal sequence receptor subunit 4provided by HGNC
Primary source
HGNC:HGNC:11326
See related
Ensembl:ENSG00000180879 MIM:300090
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
CDG1Y; TRAPD
Summary
This gene encodes the delta subunit of the translocon-associated protein complex which is involved in translocating proteins across the endoplasmic reticulum membrane. The encoded protein is located in the Xq28 region and is arranged in a compact head-to-head manner with the isocitrate dehydrogenase 3 (NAD+) gamma gene and both genes are driven by a CpG-embedded bidirectional promoter. Alternate splicing results in multiple transcript variants.[provided by RefSeq, Mar 2011]
Expression
Ubiquitous expression in pancreas (RPKM 97.6), stomach (RPKM 67.4) and 25 other tissues See more
Orthologs

Genomic context

See SSR4 in Genome Data Viewer
Location:
Xq28
Exon count:
9
Annotation release Status Assembly Chr Location
109.20191205 current GRCh38.p13 (GCF_000001405.39) X NC_000023.11 (153794159..153798512)
105 previous assembly GRCh37.p13 (GCF_000001405.25) X NC_000023.10 (153059630..153063967)

Chromosome X - NC_000023.11Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC102723591 Neighboring gene plexin B3 Neighboring gene SRSF protein kinase 3 Neighboring gene isocitrate dehydrogenase (NAD(+)) 3 non-catalytic subunit gamma Neighboring gene CRISPRi-validated cis-regulatory element chrX.2654 Neighboring gene PDZ domain containing 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

Bibliography

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp160, precursor env HIV-1 gp160 is identified to have a physical interaction with signal sequence receptor, delta (SSR4) in human HEK293 and/or Jurkat cell lines by using affinity tagging and purification mass spectrometry analyses PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Gene Ontology Provided by GOA

Component Evidence Code Pubs
Sec61 translocon complex NAS
Non-traceable Author Statement
more info
PubMed 
extracellular exosome HDA PubMed 
integral component of membrane IEA
Inferred from Electronic Annotation
more info
 

General protein information

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

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.

Genomic

  1. NG_041795.1 RefSeqGene

    Range
    4985..9325
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NM_001204526.1NP_001191455.1  translocon-associated protein subunit delta isoform 1 precursor

    See identical proteins and their annotated locations for NP_001191455.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1).
    Source sequence(s)
    AK094395, BC003371, BE791319, BP202705, U52111
    UniProtKB/Swiss-Prot
    P51571
    Conserved Domains (1) summary
    pfam05404
    Location:35183
    TRAP-delta; Translocon-associated protein, delta subunit precursor (TRAP-delta)
  2. NM_001204527.2NP_001191456.1  translocon-associated protein subunit delta isoform 3 precursor

    See identical proteins and their annotated locations for NP_001191456.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (3) uses an alternate exon in the 5' UTR and coding region, and initiates translation at an alternate start codon, compared to variant 1. The encoded isoform (3) has a distinct N-terminus and is shorter than isoform 1.
    Source sequence(s)
    BC032351, BG165852, BI754091, U52111
    Conserved Domains (1) summary
    pfam05404
    Location:32180
    TRAP-delta; Translocon-associated protein, delta subunit precursor (TRAP-delta)
  3. NM_006280.3NP_006271.1  translocon-associated protein subunit delta isoform 2 precursor

    See identical proteins and their annotated locations for NP_006271.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) contains an alternate segment in the 5' UTR and coding region and uses a downstream start codon, compared to variant 1. Isoform 2 has a shorter N-terminus, compared to isoform 1.
    Source sequence(s)
    Z69043
    Consensus CDS
    CCDS14731.1
    UniProtKB/Swiss-Prot
    P51571
    Related
    ENSP00000359103.3, ENST00000370086.8
    Conserved Domains (1) summary
    pfam05404
    Location:24172
    TRAP-delta; Translocon-associated protein, delta subunit precursor (TRAP-delta)

RNA

  1. NR_037927.1 RNA Sequence

    Status: REVIEWED

    Description
    Transcript Variant: This variant (4) uses an alternate internal exon, compared to variant 1. This variant is represented as non-coding because the use of the 5'-most supported translational start codon, as used in variant 1, renders the transcript a candidate for nonsense-mediated mRNA decay (NMD).
    Source sequence(s)
    BC032351, BE791319, CD672615, U52111
    Related
    ENST00000471880.5

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20191205

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000023.11 Reference GRCh38.p13 Primary Assembly

    Range
    153794159..153798512
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_024452428.1XP_024308196.1  translocon-associated protein subunit delta isoform X1

    Conserved Domains (1) summary
    pfam05404
    Location:1109
    TRAP-delta; Translocon-associated protein, delta subunit precursor (TRAP-delta)
  2. XM_017029756.1XP_016885245.1  translocon-associated protein subunit delta isoform X1

    Conserved Domains (1) summary
    pfam05404
    Location:1109
    TRAP-delta; Translocon-associated protein, delta subunit precursor (TRAP-delta)
  3. XM_017029757.1XP_016885246.1  translocon-associated protein subunit delta isoform X1

    Conserved Domains (1) summary
    pfam05404
    Location:1109
    TRAP-delta; Translocon-associated protein, delta subunit precursor (TRAP-delta)
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