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

Summary

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: mouse all
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Genomic context

Location:: 3q26.2

Exon count:: 9

Annotation release	Status	Assembly	Chr	Location
RS_2024_08	current	GRCh38.p14 (GCF_000001405.40)	3	NC_000003.12 (169966807..169998373)
RS_2024_08	current	T2T-CHM13v2.0 (GCF_009914755.1)	3	NC_060927.1 (172751051..172783070)
RS_2024_09	previous assembly	GRCh37.p13 (GCF_000001405.25)	3	NC_000003.11 (169684595..169716161)

Chromosome 3 - NC_000003.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

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Expression

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See details

Project title: HPA RNA-seq normal tissues 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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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

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.
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.
Sec62 promotes gastric cancer metastasis through mediating UPR-induced autophagy activation.
Title: Sec62 promotes gastric cancer metastasis through mediating UPR-induced autophagy activation.
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.
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.
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.
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.
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.
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.
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)

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

STS-AA031543 (e-PCR)
- UniSTS:7688

GDB:434012 (e-PCR)
- UniSTS:157204

MARC_17479-17480:1016465460:1 (e-PCR)
- UniSTS:268312

SHGC-77511 (e-PCR)
- UniSTS:22296

RH48979 (e-PCR)
- UniSTS:90655

RH69313 (e-PCR)
- UniSTS:17962

SHGC-77520 (e-PCR)
- UniSTS:26174

G19801 (e-PCR)
- UniSTS:36677

A001Y45 (e-PCR)
- UniSTS:36678

D20S1089 (e-PCR)
- UniSTS:473423

D1S1423 (e-PCR)
- UniSTS:149619

D1S1425 (e-PCR)
- UniSTS:149621

GDB:335751 (e-PCR)
- UniSTS:156601

WI-20113 (e-PCR)
- UniSTS:79062

RH16643 (e-PCR)
- UniSTS:20451

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
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)

NM_003262.4 → NP_003253.1 translocation protein SEC62

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_2024_08

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000003.12 Reference GRCh38.p14 Primary Assembly

Range

169966807..169998373

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_047448819.1 → XP_047304775.1 translocation protein SEC62 isoform X1
XM_011513114.4 → XP_011511416.1 translocation protein SEC62 isoform X1

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