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SENP3 SUMO specific peptidase 3 [ Homo sapiens (human) ]

Gene ID: 26168, updated on 10-Dec-2024

Summary

Official Symbol
SENP3provided by HGNC
Official Full Name
SUMO specific peptidase 3provided by HGNC
Primary source
HGNC:HGNC:17862
See related
Ensembl:ENSG00000161956 MIM:612844; AllianceGenome:HGNC:17862
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
SSP3; Ulp1; SMT3IP1
Summary
The reversible posttranslational modification of proteins by the addition of small ubiquitin-like SUMO proteins (see SUMO1; MIM 601912) is required for numerous biologic processes. SUMO-specific proteases, such as SENP3, are responsible for the initial processing of SUMO precursors to generate a C-terminal diglycine motif required for the conjugation reaction. They also have isopeptidase activity for the removal of SUMO from high molecular mass SUMO conjugates (Di Bacco et al., 2006 [PubMed 16738315]).[supplied by OMIM, Jun 2009]
Expression
Ubiquitous expression in testis (RPKM 20.2), brain (RPKM 14.1) and 25 other tissues See more
Orthologs
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Genomic context

See SENP3 in Genome Data Viewer
Location:
17p13.1
Exon count:
11
Annotation release Status Assembly Chr Location
RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 17 NC_000017.11 (7561919..7571969)
RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 17 NC_060941.1 (7466180..7476216)
RS_2024_09 previous assembly GRCh37.p13 (GCF_000001405.25) 17 NC_000017.10 (7465236..7475287)

Chromosome 17 - NC_000017.11Genomic Context describing neighboring genes Neighboring gene TNFSF12-TNFSF13 readthrough Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8126 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8127 Neighboring gene TNF superfamily member 12 Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:7458208-7458708 Neighboring gene H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:7460817-7461610 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11627 Neighboring gene TNF superfamily member 13 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11628 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8128 Neighboring gene SENP3-EIF4A1 readthrough (NMD candidate) Neighboring gene H3K4me1 hESC enhancer GRCh37_chr17:7466006-7466702 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11629 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11630 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11631 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 11632 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8129 Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 8130 Neighboring gene NANOG-H3K27ac-H3K4me1 hESC enhancer GRCh37_chr17:7476397-7477152 Neighboring gene H3K27ac hESC enhancer GRCh37_chr17:7477153-7477908 Neighboring gene eukaryotic translation initiation factor 4A1 Neighboring gene small nucleolar RNA, H/ACA box 48 Neighboring gene small nucleolar RNA, C/D box 10

Genomic regions, transcripts, and products

Expression

  • Project title: Tissue-specific circular RNA induction during human fetal development
  • Description: 35 human fetal samples from 6 tissues (3 - 7 replicates per tissue) collected between 10 and 20 weeks gestational time were sequenced using Illumina TruSeq Stranded Total RNA
  • BioProject: PRJNA270632
  • Publication: PMID 26076956
  • Analysis date: Mon Apr 2 22:54:59 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

Phenotypes

EBI GWAS Catalog

Description
Genome-wide scan identifies variant in TNFSF13 associated with serum IgM in a healthy Chinese male population.
EBI GWAS Catalog

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 gp120-treated vaginal epithelial cells show upregulation of SUMO1/sentrin/SMT3 specific peptidase 3 (SENP3) expression as compared to untreated control PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

General gene information

Readthrough SENP3-EIF4A1

Readthrough gene: SENP3-EIF4A1, Included gene: EIF4A1

Clone Names

  • DKFZp762A152, DKFZp586K0919

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables cysteine-type deubiquitinase activity  
enables cysteine-type peptidase activity PubMed 
enables deSUMOylase activity  
enables deSUMOylase activity PubMed 
enables deSUMOylase activity PubMed 
enables protein binding PubMed 
Component Evidence Code Pubs
part_of MLL1 complex PubMed 
located_in cytoplasm  
located_in nucleolus  
located_in nucleoplasm  
located_in nucleoplasm  
is_active_in nucleus  

General protein information

Preferred Names
sentrin-specific protease 3
Names
SUMO-1-specific protease 3
SUMO1/sentrin/SMT3 specific peptidase 3
sentrin/SUMO-specific protease 3
NP_056485.2

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_015670.6NP_056485.2  sentrin-specific protease 3

    See identical proteins and their annotated locations for NP_056485.2

    Status: VALIDATED

    Source sequence(s)
    AC016876, BC048306, BF514106, BQ424754, BQ956948, CX165088
    Consensus CDS
    CCDS73958.1
    UniProtKB/Swiss-Prot
    Q66K15, Q86VS7, Q96PS4, Q9H4L4, Q9Y3W9
    UniProtKB/TrEMBL
    A0A087X0R7
    Related
    ENSP00000314029.8, ENST00000321337.12
    Conserved Domains (1) summary
    pfam02902
    Location:400572
    Peptidase_C48; Ulp1 protease family, C-terminal catalytic domain

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

  1. NC_000017.11 Reference GRCh38.p14 Primary Assembly

    Range
    7561919..7571969
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060941.1 Alternate T2T-CHM13v2.0

    Range
    7466180..7476216
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
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