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SEC62 SEC62 homolog, preprotein translocation factor [ Homo sapiens (human) ]

Gene ID: 7095, updated on 5-Mar-2024

Summary

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Official Symbol
SEC62provided by HGNC
Official Full Name
SEC62 homolog, preprotein translocation factorprovided by HGNC
Primary source
HGNC:HGNC:11846
See related
Ensembl:ENSG00000008952 MIM:602173; AllianceGenome:HGNC:11846
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
HTP1; TP-1; Dtrp1; TLOC1
Summary
The Sec61 complex is the central component of the protein translocation apparatus of the endoplasmic reticulum (ER) membrane. The protein encoded by this gene and SEC63 protein are found to be associated with ribosome-free SEC61 complex. It is speculated that Sec61-Sec62-Sec63 may perform post-translational protein translocation into the ER. The Sec61-Sec62-Sec63 complex might also perform the backward transport of ER proteins that are subject to the ubiquitin-proteasome-dependent degradation pathway. The encoded protein is an integral membrane protein located in the rough ER. [provided by RefSeq, Jul 2008]
Expression
Ubiquitous expression in thyroid (RPKM 46.4), brain (RPKM 36.2) and 25 other tissues See more
Orthologs
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Genomic context

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Location:
3q26.2
Exon count:
9
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 3 NC_000003.12 (169966807..169998373)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 3 NC_060927.1 (172751051..172783070)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (169684595..169716161)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene sterile alpha motif domain containing 7 Neighboring gene ReSE screen-validated silencer GRCh37_chr3:169653188-169653290 Neighboring gene family with sequence similarity 20 member B pseudogene Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20789 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20790 Neighboring gene FHL1 pseudogene 1 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20791 Neighboring gene NANOG hESC enhancer GRCh37_chr3:169686270-169686802 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20792 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14877 Neighboring gene NANOG-H3K4me1 hESC enhancer GRCh37_chr3:169756663-169757162 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 14878 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20793 Neighboring gene H3K27ac hESC enhancer GRCh37_chr3:169763504-169764004 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20794 Neighboring gene uncharacterized LOC124909455 Neighboring gene G protein-coupled receptor 160 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20795 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20796 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20797 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:169773599-169774098 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 20798 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:169779520-169780041 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr3:169780042-169780562 Neighboring gene RNA, U4 small nuclear 38, pseudogene Neighboring gene KMT5A pseudogene 3

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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

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Related articles in PubMed

  1. The 3q Oncogene SEC62 Predicts Response to Neoadjuvant Chemotherapy and Regulates Tumor Cell Migration in Triple Negative Breast Cancer. Radosa JC, et al. Int J Mol Sci, 2023 May 31. PMID 37298528, Free PMC Article
  2. Sec62 promotes gastric cancer metastasis through mediating UPR-induced autophagy activation. Su S, et al. Cell Mol Life Sci, 2022 Feb 15. PMID 35165763
  3. Identification of 3q oncogene SEC62 as a marker for distant metastasis and poor clinical outcome in invasive ductal breast cancer. Takacs FZ, et al. Arch Gynecol Obstet, 2019 May. PMID 30747329
  4. Identification of SEC62 as a potential marker for 3q amplification and cellular migration in dysplastic cervical lesions. Linxweiler M, et al. BMC Cancer, 2016 Aug 23. PMID 27553742, Free PMC Article
  5. Targeting cell migration and the endoplasmic reticulum stress response with calmodulin antagonists: a clinically tested small molecule phenocopy of SEC62 gene silencing in human tumor cells. Linxweiler M, et al. BMC Cancer, 2013 Dec 5. PMID 24304694, Free PMC Article

See all (69) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The 3q Oncogene SEC62 Predicts Response to Neoadjuvant Chemotherapy and Regulates Tumor Cell Migration in Triple Negative Breast Cancer.
    Title: The 3q Oncogene SEC62 Predicts Response to Neoadjuvant Chemotherapy and Regulates Tumor Cell Migration in Triple Negative Breast Cancer.
  2. Splicing factor SNRPA associated with microvascular invasion promotes hepatocellular carcinoma metastasis through activating NOTCH1/Snail pathway and is mediated by circSEC62/miR-625-5p axis.
    Title: Splicing factor SNRPA associated with microvascular invasion promotes hepatocellular carcinoma metastasis through activating NOTCH1/Snail pathway and is mediated by circSEC62/miR-625-5p axis.
  3. Sec62 promotes gastric cancer metastasis through mediating UPR-induced autophagy activation.
    Title: Sec62 promotes gastric cancer metastasis through mediating UPR-induced autophagy activation.
  4. Sec62 promotes stemness and chemoresistance of human colorectal cancer through activating Wnt/beta-catenin pathway.
    Title: Sec62 promotes stemness and chemoresistance of human colorectal cancer through activating Wnt/β-catenin pathway.
  5. Identification of signal peptide features for substrate specificity in human Sec62/Sec63-dependent ER protein import.
    Title: Identification of signal peptide features for substrate specificity in human Sec62/Sec63-dependent ER protein import.
  6. miR-4429 prevented gastric cancer progression through targeting METTL3 to inhibit m(6)A-caused stabilization of SEC62
    Title: MiR-4429 prevented gastric cancer progression through targeting METTL3 to inhibit m(6)A-caused stabilization of SEC62.
  7. In tissue samples from 53 breast cancer patients,found increased SEC62 protein levels in tumor tissue compared to tumor-free tissue from the same patients. Tumors with high SEC62 expression or containing isolated cells with high SEC62 staining had more frequently distant metastases. ). Overall survival was significantly worse in BC patients with high SEC62 expression and in cases with isolated-intense SEC62 staining.
    Title: Identification of 3q oncogene SEC62 as a marker for distant metastasis and poor clinical outcome in invasive ductal breast cancer.
  8. Results show higher SEC62 in the lymph node metastases from head and neck squamous cell carcinomas and cervical cancer of unknown primary patients compared with the primary tumor. Tumors from N1 to N3 stage exhibit increasing SEC62 expression in the lymphatic metastases. Its knockdown resulted in tumor cell line migration inhibition while, its overexpression stimulated cell migration.
    Title: Effect of 3q oncogenes SEC62 and SOX2 on lymphatic metastasis and clinical outcome of head and neck squamous cell carcinomas.
  9. High Sec62 expression is associated with dysplastic cervical lesions.
    Title: Identification of SEC62 as a potential marker for 3q amplification and cellular migration in dysplastic cervical lesions.
  10. identify Sec62 as a critical molecular component in maintenance and recovery of endoplasmic reticulum homeostasis
    Title: Translocon component Sec62 acts in endoplasmic reticulum turnover during stress recovery.
Submit: New GeneRIF Correction See all GeneRIFs (20)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Envelope transmembrane glycoprotein gp41 env HIV-1 gp41 is identified to have a physical interaction with SEC62 homolog (SEC62) 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

Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Clone Names

  • FLJ32803

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables signaling receptor activity TAS
Traceable Author Statement
more info
 PubMed 
Process Evidence Code Pubs
involved_in cotranslational protein targeting to membrane TAS
Traceable Author Statement
more info
 PubMed 
acts_upstream_of_or_within post-translational protein targeting to endoplasmic reticulum membrane IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in post-translational protein targeting to membrane, translocation IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in post-translational protein targeting to membrane, translocation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
is_active_in endoplasmic reticulum IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in endoplasmic reticulum membrane IEA
Inferred from Electronic Annotation
more info
  
is_active_in membrane IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in membrane IDA
Inferred from Direct Assay
more info
 PubMed 
located_in rough endoplasmic reticulum ISS
Inferred from Sequence or Structural Similarity
more info
  

General protein information

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Preferred Names
translocation protein SEC62
Names
SEC62 preprotein translocation factor
hTP-1
membrane protein SEC62, S.cerevisiae, homolog of
translocation protein 1

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)

  1. NM_003262.4 → NP_003253.1  translocation protein SEC62

    See identical proteins and their annotated locations for NP_003253.1

    Status: REVIEWED

    Source sequence(s)
    AC008040
    Consensus CDS
    CCDS3210.1
    UniProtKB/Swiss-Prot
    D3DNQ0, O00682, O00729, Q99442
    Related
    ENSP00000337688.4, ENST00000337002.9
    Conserved Domains (2) summary
    pfam05793
    Location:290 → 369
    TFIIF_alpha; Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
    pfam03839
    Location:170 → 305
    Sec62; Translocation protein Sec62

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p14 Primary Assembly

    Range
    169966807..169998373
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_047448819.1 → XP_047304775.1  translocation protein SEC62 isoform X1

  2. XM_011513114.4 → XP_011511416.1  translocation protein SEC62 isoform X1

    See identical proteins and their annotated locations for XP_011511416.1

    Conserved Domains (2) summary
    pfam05793
    Location:252 → 331
    TFIIF_alpha; Transcription initiation factor IIF, alpha subunit (TFIIF-alpha)
    pfam03839
    Location:132 → 267
    Sec62; Translocation protein Sec62

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060927.1 Alternate T2T-CHM13v2.0

    Range
    172751051..172783070
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_054347706.1 → XP_054203681.1  translocation protein SEC62 isoform X1

  2. XM_054347705.1 → XP_054203680.1  translocation protein SEC62 isoform X1

Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
Q99442.1 GenPept UniProtKB/Swiss-Prot:Q99442

Gene LinkOut

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