Human Gene SENP5 (uc003fwz.4)
  Description: Homo sapiens SUMO1/sentrin specific peptidase 5 (SENP5), mRNA.
RefSeq Summary (NM_152699): 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 SENP5, 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].
Transcript (Including UTRs)
   Position: hg19 chr3:196,594,727-196,661,584 Size: 66,858 Total Exon Count: 10 Strand: +
Coding Region
   Position: hg19 chr3:196,612,053-196,657,794 Size: 45,742 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:196,594,727-196,661,584)mRNA (may differ from genome)Protein (755 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedReactomeTreefamUniProtKB
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SENP5_HUMAN
DESCRIPTION: RecName: Full=Sentrin-specific protease 5; EC=3.4.22.68; AltName: Full=Sentrin/SUMO-specific protease SENP5;
FUNCTION: Protease that catalyzes two essential functions in the SUMO pathway: processing of full-length SUMO3 to its mature form and deconjugation of SUMO2 and SUMO3 from targeted proteins. Has weak proteolytic activity against full-length SUMO1 or SUMO1 conjugates. Required for cell division.
CATALYTIC ACTIVITY: Hydrolysis of the alpha-linked peptide bond in the sequence Gly-Gly-|-Ala-Thr-Tyr at the C-terminal end of the small ubiquitin-like modifier (SUMO) propeptide, Smt3, leading to the mature form of the protein. A second reaction involves the cleavage of an epsilon-linked peptide bond between the C-terminal glycine of the mature SUMO and the lysine epsilon-amino group of the target protein.
INTERACTION: P03372:ESR1; NbExp=2; IntAct=EBI-3895753, EBI-78473;
SUBCELLULAR LOCATION: Nucleus, nucleolus.
SIMILARITY: Belongs to the peptidase C48 family.
SEQUENCE CAUTION: Sequence=AAK69630.1; Type=Erroneous initiation; Note=Translation N-terminally extended;

-  Primer design for this transcript
 

Primer3Plus can design qPCR Primers that straddle exon-exon-junctions, which amplify only cDNA, not genomic DNA.
Click here to load the transcript sequence and exon structure into Primer3Plus

Exonprimer can design one pair of Sanger sequencing primers around every exon, located in non-genic sequence.
Click here to open Exonprimer with this transcript

To design primers for a non-coding sequence, zoom to a region of interest and select from the drop-down menu: View > In External Tools > Primer3


-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene           more ... click here to view the complete list

+  Common Gene Haplotype Alleles
  Press "+" in the title bar above to open this section.

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 12.19 RPKM in Brain - Cerebellar Hemisphere
Total median expression: 336.21 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -126.04249-0.506 Picture PostScript Text
3' UTR -1186.283790-0.313 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR003653 - Peptidase_C48

Pfam Domains:
PF02902 - Ulp1 protease family, C-terminal catalytic domain

SCOP Domains:
54001 - Cysteine proteinases

ModBase Predicted Comparative 3D Structure on Q96HI0
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The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologGenome BrowserNo orthologNo orthologNo ortholog
Gene Details     
Gene Sorter     
  Ensembl   
  Protein Sequence   
  Alignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004175 endopeptidase activity
GO:0005515 protein binding
GO:0008233 peptidase activity
GO:0008234 cysteine-type peptidase activity
GO:0016787 hydrolase activity
GO:0016929 SUMO-specific protease activity
GO:0070139 SUMO-specific endopeptidase activity

Biological Process:
GO:0006508 proteolysis
GO:0007049 cell cycle
GO:0016925 protein sumoylation
GO:0016926 protein desumoylation
GO:0051301 cell division

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005730 nucleolus


-  Descriptions from all associated GenBank mRNAs
  AK302305 - Homo sapiens cDNA FLJ56806 complete cds, highly similar to Sentrin-specific protease 5 (EC 3.4.22.-).
AK313764 - Homo sapiens cDNA, FLJ94365.
BC030705 - Homo sapiens SUMO1/sentrin specific peptidase 5, mRNA (cDNA clone MGC:27076 IMAGE:4824344), complete cds.
JD486498 - Sequence 467522 from Patent EP1572962.
JD140923 - Sequence 121947 from Patent EP1572962.
JD068477 - Sequence 49501 from Patent EP1572962.
CU688998 - Synthetic construct Homo sapiens gateway clone IMAGE:100020414 5' read SENP5 mRNA.
DQ890849 - Synthetic construct clone IMAGE:100003479; FLH166443.01X; RZPDo839G1186D SUMO1/sentrin specific peptidase 5 (SENP5) gene, encodes complete protein.
DQ894003 - Synthetic construct Homo sapiens clone IMAGE:100008463; FLH166439.01L; RZPDo839G1185D SUMO1/sentrin specific peptidase 5 (SENP5) gene, encodes complete protein.
KJ900439 - Synthetic construct Homo sapiens clone ccsbBroadEn_09833 SENP5 gene, encodes complete protein.
BC000958 - Homo sapiens SUMO1/sentrin specific peptidase 5, mRNA (cDNA clone IMAGE:3448343).
BC008589 - Homo sapiens SUMO1/sentrin specific peptidase 5, mRNA (cDNA clone IMAGE:3448367), partial cds.
AK124389 - Homo sapiens cDNA FLJ42398 fis, clone ASTRO2002842, moderately similar to Mus musculus smt3-specific isopeptidase 1 (Smt3ip1-pending).
AF335474 - Homo sapiens sumo/sentrin-specific protease (FKSG45) mRNA, complete cds.
JD395155 - Sequence 376179 from Patent EP1572962.
JD260168 - Sequence 241192 from Patent EP1572962.
JD377899 - Sequence 358923 from Patent EP1572962.
DQ586670 - Homo sapiens piRNA piR-53782, complete sequence.
BC013799 - Homo sapiens, clone IMAGE:4386363, mRNA.
AL049229 - Homo sapiens mRNA; cDNA DKFZp564O1016 (from clone DKFZp564O1016).
JD311984 - Sequence 293008 from Patent EP1572962.
JD346468 - Sequence 327492 from Patent EP1572962.
BC036626 - Homo sapiens cDNA clone IMAGE:5288439.
JD293367 - Sequence 274391 from Patent EP1572962.
JD311958 - Sequence 292982 from Patent EP1572962.
JD346444 - Sequence 327468 from Patent EP1572962.
JD272942 - Sequence 253966 from Patent EP1572962.
DQ598820 - Homo sapiens piRNA piR-36886, complete sequence.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q96HI0 (Reactome details) participates in the following event(s):

R-HSA-2990840 SENP1,2,5 proteolytically process SUMO1
R-HSA-2990842 SEN1,2,5 proteolytically process SUMO2
R-HSA-2993763 SENP1,2,5 proteolytically process SUMO3
R-HSA-3065679 SUMO is proteolytically processed
R-HSA-3215018 Processing and activation of SUMO
R-HSA-2990846 SUMOylation
R-HSA-597592 Post-translational protein modification
R-HSA-392499 Metabolism of proteins

-  Other Names for This Gene
  Alternate Gene Symbols: FKSG45, NM_152699, NP_689912, Q96HI0, Q96SA5, SENP5_HUMAN
UCSC ID: uc003fwz.4
RefSeq Accession: NM_152699
Protein: Q96HI0 (aka SENP5_HUMAN or SEN5_HUMAN)
CCDS: CCDS3322.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_152699.4
exon count: 10CDS single in 3' UTR: no RNA size: 6324
ORF size: 2268CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 4723.00frame shift in genome: no % Coverage: 99.73
has start codon: yes stop codon in genome: no # of Alignments: 1
has end codon: yes retained intron: no # AT/AC introns 0
selenocysteine: no end bleed into intron: 0# strange splices: 0
Click here for a detailed description of the fields of the table above.

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.