Human Gene CTBP2 (ENST00000337195.11_6) from GENCODE V47lift37
  Description: C-terminal binding protein 2, transcript variant 1 (from RefSeq NM_001329.4)
Gencode Transcript: ENST00000337195.11_6
Gencode Gene: ENSG00000175029.17_13
Transcript (Including UTRs)
   Position: hg19 chr10:126,672,886-126,849,132 Size: 176,247 Total Exon Count: 11 Strand: -
Coding Region
   Position: hg19 chr10:126,678,087-126,727,623 Size: 49,537 Coding Exon Count: 9 

Page IndexSequence and LinksUniProtKB CommentsPrimersMalaCardsCTD
Gene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther Species
GO AnnotationsmRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr10:126,672,886-126,849,132)mRNA (may differ from genome)Protein (445 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CTBP2_HUMAN
DESCRIPTION: RecName: Full=C-terminal-binding protein 2; Short=CtBP2;
FUNCTION: Corepressor targeting diverse transcription regulators. Functions in brown adipose tissue (BAT) differentiation (By similarity).
FUNCTION: Isoform 2 probably acts as a scaffold for specialized synapses.
SUBUNIT: Interacts with the C-terminus of adenovirus E1A protein. Can form homodimers or heterodimers of CTBP1 and CTBP2. Interacts with HIPK2 and ZNF217. Interacts with PRDM16; represses white adipose tissue (WAT)-specific genes expression (By similarity). Interacts with PNN, NRIP1 and WIZ.
INTERACTION: P20749:BCL3; NbExp=2; IntAct=EBI-741533, EBI-958997; P51946:CCNH; NbExp=5; IntAct=EBI-741533, EBI-741406; Q14526:HIC1; NbExp=2; IntAct=EBI-741533, EBI-2507362; O75807:PPP1R15A; NbExp=2; IntAct=EBI-741533, EBI-714746; Q92786:PROX1; NbExp=2; IntAct=EBI-741533, EBI-3912635; Q9UN79:SOX13; NbExp=2; IntAct=EBI-741533, EBI-3928516; A2APF7:Zbp1 (xeno); NbExp=2; IntAct=EBI-741533, EBI-6115394;
SUBCELLULAR LOCATION: Nucleus (Potential). Cell junction, synapse (By similarity).
TISSUE SPECIFICITY: Ubiquitous. Highest levels in heart, skeletal muscle, and pancreas.
PTM: Isoform 2 is phosphorylated upon DNA damage, probably by ATM or ATR at Thr-179; Ser-181 and Ser-185. Phosphorylation by HIPK2 on Ser-428 induces proteasomal degradation (By similarity).
SIMILARITY: Belongs to the D-isomer specific 2-hydroxyacid dehydrogenase family.

-  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


-  MalaCards Disease Associations
  MalaCards Gene Search: CTBP2
Diseases sorted by gene-association score: retinitis pigmentosa 14 (11), deafness, autosomal recessive 9 (6), prostate cancer susceptibility (5), congenital stationary night blindness (1)

-  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: 10.63 RPKM in Cervix - Endocervix
Total median expression: 250.77 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 -190.80450-0.424 Picture PostScript Text
3' UTR -1253.295201-0.241 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
IPR006139 - D-isomer_2_OHA_DH_cat_dom
IPR006140 - D-isomer_2_OHA_DH_NAD-bd
IPR016040 - NAD(P)-bd_dom

Pfam Domains:
PF00389 - D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain
PF02826 - D-isomer specific 2-hydroxyacid dehydrogenase, NAD binding domain

SCOP Domains:
51735 - NAD(P)-binding Rossmann-fold domains
52283 - Formate/glycerate dehydrogenase catalytic domain-like
52440 - PreATP-grasp domain
51984 - MurCD N-terminal domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2OME - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P56545
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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 SorterGene Sorter    
 RGD    
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003714 transcription corepressor activity
GO:0005515 protein binding
GO:0016491 oxidoreductase activity
GO:0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor
GO:0016618 hydroxypyruvate reductase activity
GO:0019901 protein kinase binding
GO:0030267 glyoxylate reductase (NADP) activity
GO:0042803 protein homodimerization activity
GO:0044877 macromolecular complex binding
GO:0051287 NAD binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0008152 metabolic process
GO:0008285 negative regulation of cell proliferation
GO:0016032 viral process
GO:0019079 viral genome replication
GO:0030154 cell differentiation
GO:0045892 negative regulation of transcription, DNA-templated
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0048386 positive regulation of retinoic acid receptor signaling pathway
GO:0050872 white fat cell differentiation
GO:0055114 oxidation-reduction process

Cellular Component:
GO:0005634 nucleus
GO:0005829 cytosol
GO:0017053 transcriptional repressor complex
GO:0030054 cell junction
GO:0045202 synapse


-  Descriptions from all associated GenBank mRNAs
  LF384305 - JP 2014500723-A/191808: Polycomb-Associated Non-Coding RNAs.
AL833398 - Homo sapiens mRNA; cDNA DKFZp762O119 (from clone DKFZp762O119).
AF016507 - Homo sapiens C-terminal binding protein 2 mRNA, complete cds.
BC052276 - Homo sapiens C-terminal binding protein 2, mRNA (cDNA clone IMAGE:4562556), complete cds.
AK290390 - Homo sapiens cDNA FLJ76091 complete cds, highly similar to Homo sapiens C-terminal binding protein 2 (CTBP2), transcript variant 1, mRNA.
BC002486 - Homo sapiens C-terminal binding protein 2, mRNA (cDNA clone IMAGE:3349397), complete cds.
BC047018 - Homo sapiens C-terminal binding protein 2, mRNA (cDNA clone IMAGE:5223382), complete cds.
BC072020 - Homo sapiens C-terminal binding protein 2, mRNA (cDNA clone IMAGE:4542562), complete cds.
MA619882 - JP 2018138019-A/191808: Polycomb-Associated Non-Coding RNAs.
JD244601 - Sequence 225625 from Patent EP1572962.
JD183072 - Sequence 164096 from Patent EP1572962.
JD297061 - Sequence 278085 from Patent EP1572962.
JD091326 - Sequence 72350 from Patent EP1572962.
AK024316 - Homo sapiens cDNA FLJ14254 fis, clone OVARC1001496, highly similar to Homo sapiens C-terminal binding protein 2 mRNA.
AF222711 - Homo sapiens ribeye mRNA, complete cds.
JD411298 - Sequence 392322 from Patent EP1572962.
JD284820 - Sequence 265844 from Patent EP1572962.
JD429015 - Sequence 410039 from Patent EP1572962.
BC037900 - Homo sapiens C-terminal binding protein 2, mRNA (cDNA clone MGC:43945 IMAGE:5276086), complete cds.
JD409883 - Sequence 390907 from Patent EP1572962.
JD403379 - Sequence 384403 from Patent EP1572962.
DQ250324 - Homo sapiens C-terminal binding protein 2 mRNA, partial cds.
JD269773 - Sequence 250797 from Patent EP1572962.
KJ905721 - Synthetic construct Homo sapiens clone ccsbBroadEn_15391 CTBP2 gene, encodes complete protein.
BT007012 - Homo sapiens C-terminal binding protein 2 mRNA, complete cds.
KJ901364 - Synthetic construct Homo sapiens clone ccsbBroadEn_10758 CTBP2 gene, encodes complete protein.
AB462993 - Synthetic construct DNA, clone: pF1KB3372, Homo sapiens CTBP2 gene for C-terminal binding protein 2, without stop codon, in Flexi system.
CU677986 - Synthetic construct Homo sapiens gateway clone IMAGE:100017282 5' read CTBP2 mRNA.
CU691518 - Synthetic construct Homo sapiens gateway clone IMAGE:100020907 5' read CTBP2 mRNA.
JD369000 - Sequence 350024 from Patent EP1572962.
JD196268 - Sequence 177292 from Patent EP1572962.
JD554296 - Sequence 535320 from Patent EP1572962.
JD323929 - Sequence 304953 from Patent EP1572962.
JD036054 - Sequence 17078 from Patent EP1572962.
JD470042 - Sequence 451066 from Patent EP1572962.
JD056189 - Sequence 37213 from Patent EP1572962.

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

Protein P56545 (Reactome details) participates in the following event(s):

R-HSA-5334050 TCF7L2/TCF7L1 bind CTBP1 to repress WNT target genes
R-HSA-4641265 Repression of WNT target genes
R-HSA-5339700 TCF7L2 mutants don't bind CTBP
R-HSA-195253 Degradation of beta-catenin by the destruction complex
R-HSA-4791275 Signaling by WNT in cancer
R-HSA-195721 Signaling by WNT
R-HSA-5663202 Diseases of signal transduction
R-HSA-162582 Signal Transduction
R-HSA-1643685 Disease

-  Other Names for This Gene
  Alternate Gene Symbols: A8K2X5, CTBP2_HUMAN, D3DRF5, ENST00000337195.1, ENST00000337195.10, ENST00000337195.2, ENST00000337195.3, ENST00000337195.4, ENST00000337195.5, ENST00000337195.6, ENST00000337195.7, ENST00000337195.8, ENST00000337195.9, NM_001329, O43449, P56545, Q5SQP7, Q69YI3, Q86SV0, Q8IY44, Q9H2T8, uc317usc.1, uc317usc.2
UCSC ID: ENST00000337195.11_6
RefSeq Accession: NM_001329.4
Protein: P56545 (aka CTBP2_HUMAN or CTP2_HUMAN)

-  Gene Model Information
  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.