Human Gene SUDS3 (ENST00000543473.2_4) from GENCODE V47lift37
  Description: SDS3 homolog, SIN3A corepressor complex component (from RefSeq NM_022491.3)
Gencode Transcript: ENST00000543473.2_4
Gencode Gene: ENSG00000111707.12_7
Transcript (Including UTRs)
   Position: hg19 chr12:118,814,360-118,855,838 Size: 41,479 Total Exon Count: 12 Strand: +
Coding Region
   Position: hg19 chr12:118,814,497-118,852,238 Size: 37,742 Coding Exon Count: 12 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr12:118,814,360-118,855,838)mRNA (may differ from genome)Protein (328 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
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MGIOMIMPubMedReactomeUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: SDS3_HUMAN
DESCRIPTION: RecName: Full=Sin3 histone deacetylase corepressor complex component SDS3; AltName: Full=45 kDa Sin3-associated polypeptide; AltName: Full=Suppressor of defective silencing 3 protein homolog;
FUNCTION: Regulatory protein which represses transcription and augments histone deacetylase activity of HDAC1. May have a potential role in tumor suppressor pathways (By similarity). May function in the assembly and/or enzymatic activity of the mSin3A corepressor complex or in mediating interactions between the complex and other regulatory complexes.
SUBUNIT: Homodimer. Component of the SIN3 histone deacetylase (HDAC) corepressor complex. Interacts with SIN3A. Interaction with SIN3B enhances the interaction between SIN3B and HDAC1 to form a complex (By similarity). Interacts with HCFC1. Component of a mSin3A corepressor complex that contains SIN3A, SAP130, SUDS3/SAP45, ARID4B/SAP180, HDAC1 and HDAC2.
INTERACTION: Q9HCU9:BRMS1; NbExp=2; IntAct=EBI-540496, EBI-714781; P51610:HCFC1; NbExp=2; IntAct=EBI-540496, EBI-396176;
TISSUE SPECIFICITY: Expressed in various cancer cell ines.
DOMAIN: The C-terminus is involved in transcriptional repression by HDAC-independent mechanisms.
SIMILARITY: Belongs to the SDS3 family.
SEQUENCE CAUTION: Sequence=BAB14685.1; Type=Erroneous initiation; Sequence=BAB15750.1; Type=Erroneous initiation;

-  Primer design for this transcript
 

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-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

+  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: 15.62 RPKM in Testis
Total median expression: 460.40 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 -66.60137-0.486 Picture PostScript Text
3' UTR -1005.173600-0.279 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
IPR013907 - Sds3

Pfam Domains:
PF08598 - Sds3-like

ModBase Predicted Comparative 3D Structure on Q9H7L9
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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 orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details Gene Details  
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004407 histone deacetylase activity
GO:0005515 protein binding
GO:0019899 enzyme binding
GO:0042826 histone deacetylase binding

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0006325 chromatin organization
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0006915 apoptotic process
GO:0016575 histone deacetylation
GO:0021762 substantia nigra development
GO:0043065 positive regulation of apoptotic process
GO:0045892 negative regulation of transcription, DNA-templated

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005829 cytosol
GO:0016580 Sin3 complex
GO:0016604 nuclear body
GO:0070822 Sin3-type complex


-  Descriptions from all associated GenBank mRNAs
  LF206938 - JP 2014500723-A/14441: Polycomb-Associated Non-Coding RNAs.
BC098404 - Homo sapiens suppressor of defective silencing 3 homolog (S. cerevisiae), mRNA (cDNA clone MGC:104711 IMAGE:30332266), complete cds.
BX647687 - Homo sapiens mRNA; cDNA DKFZp779G231 (from clone DKFZp779G231).
AK024460 - Homo sapiens FLJ00052 mRNA for FLJ00052 protein.
JD544378 - Sequence 525402 from Patent EP1572962.
LF359489 - JP 2014500723-A/166992: Polycomb-Associated Non-Coding RNAs.
JD492437 - Sequence 473461 from Patent EP1572962.
AB464255 - Synthetic construct DNA, clone: pF1KF0052, Homo sapiens SUDS3 gene for suppressor of defective silencing 3 homolog, without stop codon, in Flexi system.
LF359487 - JP 2014500723-A/166990: Polycomb-Associated Non-Coding RNAs.
AK023801 - Homo sapiens cDNA FLJ13739 fis, clone PLACE3000197.
JD037815 - Sequence 18839 from Patent EP1572962.
BC093990 - Homo sapiens suppressor of defective silencing 3 homolog (S. cerevisiae), mRNA (cDNA clone MGC:121025 IMAGE:7939835), complete cds.
BC112000 - Homo sapiens suppressor of defective silencing 3 homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:8327468), partial cds.
KJ903078 - Synthetic construct Homo sapiens clone ccsbBroadEn_12472 SUDS3 gene, encodes complete protein.
BC030252 - Homo sapiens suppressor of defective silencing 3 homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:3879376), partial cds.
JD197068 - Sequence 178092 from Patent EP1572962.
JD403199 - Sequence 384223 from Patent EP1572962.
JD495203 - Sequence 476227 from Patent EP1572962.
JD288772 - Sequence 269796 from Patent EP1572962.
JD259331 - Sequence 240355 from Patent EP1572962.
JD259065 - Sequence 240089 from Patent EP1572962.
JD258294 - Sequence 239318 from Patent EP1572962.
JD436319 - Sequence 417343 from Patent EP1572962.
JD436320 - Sequence 417344 from Patent EP1572962.
JD101389 - Sequence 82413 from Patent EP1572962.
JD566333 - Sequence 547357 from Patent EP1572962.
JD139461 - Sequence 120485 from Patent EP1572962.
JD424762 - Sequence 405786 from Patent EP1572962.
JD170775 - Sequence 151799 from Patent EP1572962.
JD310910 - Sequence 291934 from Patent EP1572962.
JD224043 - Sequence 205067 from Patent EP1572962.
JD504008 - Sequence 485032 from Patent EP1572962.
JD315010 - Sequence 296034 from Patent EP1572962.
JD409225 - Sequence 390249 from Patent EP1572962.
JD362874 - Sequence 343898 from Patent EP1572962.
JD166079 - Sequence 147103 from Patent EP1572962.
JD532533 - Sequence 513557 from Patent EP1572962.
AK026749 - Homo sapiens cDNA: FLJ23096 fis, clone LNG07417.
JD263150 - Sequence 244174 from Patent EP1572962.
JD301017 - Sequence 282041 from Patent EP1572962.
JD318306 - Sequence 299330 from Patent EP1572962.
JD174805 - Sequence 155829 from Patent EP1572962.
JD496038 - Sequence 477062 from Patent EP1572962.
JD083849 - Sequence 64873 from Patent EP1572962.
JD301122 - Sequence 282146 from Patent EP1572962.
DQ580905 - Homo sapiens piRNA piR-49017, complete sequence.
JD405008 - Sequence 386032 from Patent EP1572962.
JD564121 - Sequence 545145 from Patent EP1572962.
JD436122 - Sequence 417146 from Patent EP1572962.
JD525841 - Sequence 506865 from Patent EP1572962.
JD349420 - Sequence 330444 from Patent EP1572962.
JD476596 - Sequence 457620 from Patent EP1572962.
BC045728 - Homo sapiens suppressor of defective silencing 3 homolog (S. cerevisiae), mRNA (cDNA clone IMAGE:4815363).
JD437419 - Sequence 418443 from Patent EP1572962.
JD044479 - Sequence 25503 from Patent EP1572962.
JD360154 - Sequence 341178 from Patent EP1572962.
JD228119 - Sequence 209143 from Patent EP1572962.
JD209636 - Sequence 190660 from Patent EP1572962.
JD387073 - Sequence 368097 from Patent EP1572962.
JD490342 - Sequence 471366 from Patent EP1572962.
JD565622 - Sequence 546646 from Patent EP1572962.
JD047205 - Sequence 28229 from Patent EP1572962.
MA442515 - JP 2018138019-A/14441: Polycomb-Associated Non-Coding RNAs.
MA595066 - JP 2018138019-A/166992: Polycomb-Associated Non-Coding RNAs.
MA595064 - JP 2018138019-A/166990: Polycomb-Associated Non-Coding RNAs.

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

Protein Q9H7L9 (Reactome details) participates in the following event(s):

R-HSA-427409 Nucleolar Remodelling Complex (NoRC) binds intergenic region of rDNA
R-HSA-6782820 USP17 deubiquitinates SUDS3
R-HSA-5227490 NoRC:HDAC:DNMT methylates cytosine of the rRNA genes
R-HSA-3769447 HDAC1/2 containing-complexes deacetylate histones
R-HSA-427413 NoRC negatively regulates rRNA expression
R-HSA-5689880 Ub-specific processing proteases
R-HSA-5250941 Negative epigenetic regulation of rRNA expression
R-HSA-5688426 Deubiquitination
R-HSA-212165 Epigenetic regulation of gene expression
R-HSA-597592 Post-translational protein modification
R-HSA-74160 Gene expression (Transcription)
R-HSA-3214815 HDACs deacetylate histones
R-HSA-392499 Metabolism of proteins
R-HSA-3247509 Chromatin modifying enzymes
R-HSA-4839726 Chromatin organization

-  Other Names for This Gene
  Alternate Gene Symbols: ENST00000543473.1, NM_022491, Q4KMQ5, Q8N6H0, Q9H7L9, Q9H8D2, SAP45, SDS3, SDS3_HUMAN, uc324usp.1, uc324usp.2
UCSC ID: ENST00000543473.2_4
RefSeq Accession: NM_022491.3
Protein: Q9H7L9 (aka SDS3_HUMAN)

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