Human Gene CCND3 (ENST00000372991.9_7) from GENCODE V47lift37
  Description: cyclin D3, transcript variant 2 (from RefSeq NM_001760.5)
Gencode Transcript: ENST00000372991.9_7
Gencode Gene: ENSG00000112576.13_16
Transcript (Including UTRs)
   Position: hg19 chr6:41,902,690-41,909,546 Size: 6,857 Total Exon Count: 5 Strand: -
Coding Region
   Position: hg19 chr6:41,903,678-41,909,387 Size: 5,710 Coding Exon Count: 5 

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 (chr6:41,902,690-41,909,546)mRNA (may differ from genome)Protein (292 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: CCND3_HUMAN
DESCRIPTION: RecName: Full=G1/S-specific cyclin-D3;
FUNCTION: Regulatory component of the cyclin D3-CDK4 (DC) complex that phosphorylates and inhibits members of the retinoblastoma (RB) protein family including RB1 and regulates the cell-cycle during G(1)/S transition. Phosphorylation of RB1 allows dissociation of the transcription factor E2F from the RB/E2F complex and the subsequent transcription of E2F target genes which are responsible for the progression through the G(1) phase. Hypophosphorylates RB1 in early G(1) phase. Cyclin D-CDK4 complexes are major integrators of various mitogenenic and antimitogenic signals. Also substrate for SMAD3, phosphorylating SMAD3 in a cell-cycle-dependent manner and repressing its transcriptional activity. Component of the ternary complex, cyclin D3/CDK4/CDKN1B, required for nuclear translocation and activity of the cyclin D-CDK4 complex.
SUBUNIT: Interacts with the CDK4 and CDK6 protein kinases to form a serine/threonine kinase holoenzyme complex. The cyclin subunit imparts substrate specificity to the complex. Interacts with ATF5. Interacts with EIF3K. Component of the ternary complex cyclin D/CDK4/CDKN1B required for nuclear translocation and modulation of CDK4-mediated kinase activity. Can form similar complexes with either CDKN1A or CDKN2A.
INTERACTION: O94921:CDK14; NbExp=5; IntAct=EBI-375013, EBI-1043945; P11802:CDK4; NbExp=6; IntAct=EBI-375013, EBI-295644; Q00534:CDK6; NbExp=2; IntAct=EBI-375013, EBI-295663; P38936:CDKN1A; NbExp=3; IntAct=EBI-375013, EBI-375077;
SUBCELLULAR LOCATION: Nucleus. Cytoplasm. Membrane. Note=Cyclin D- CDK4 complexes accumulate at the nuclear membrane and are then translocated to the nucleus through interaction with KIP/CIP family members (By similarity).
PTM: Polyubiquitinated by the SCF(FBXL2) complex, leading to proteasomal degradation.
SIMILARITY: Belongs to the cyclin family. Cyclin D subfamily.
SIMILARITY: Contains 1 cyclin N-terminal domain.
WEB RESOURCE: Name=NIEHS-SNPs; URL="http://egp.gs.washington.edu/data/ccnd3/";

-  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: CCND3
Diseases sorted by gene-association score: bladder carcinoma in situ (22), b-cell lymphomas (21), retinoblastoma (13), burkitt lymphoma (8), gliosarcoma (7), multiple myeloma (7), mantle cell lymphoma (5), reticulosarcoma (5), retinal cancer (5), sensory system cancer (4), fructose intolerance, hereditary (4), breast cancer (3), lymphoma, non-hodgkin (2), chronic lymphocytic leukemia (2), ocular cancer (1)

-  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: 77.11 RPKM in Whole Blood
Total median expression: 902.87 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 -80.00159-0.503 Picture PostScript Text
3' UTR -360.60988-0.365 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
IPR013763 - Cyclin-like
IPR014400 - Cyclin_A/B/D/E
IPR004367 - Cyclin_C
IPR006671 - Cyclin_N

Pfam Domains:
PF00134 - Cyclin, N-terminal domain
PF02984 - Cyclin, C-terminal domain

SCOP Domains:
47954 - Cyclin-like

Protein Data Bank (PDB) 3-D Structure
MuPIT help
3G33 - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on P30281
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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    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004693 cyclin-dependent protein serine/threonine kinase activity
GO:0005515 protein binding
GO:0019901 protein kinase binding

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0001934 positive regulation of protein phosphorylation
GO:0007049 cell cycle
GO:0007165 signal transduction
GO:0042098 T cell proliferation
GO:0042127 regulation of cell proliferation
GO:0045737 positive regulation of cyclin-dependent protein serine/threonine kinase activity
GO:0046626 regulation of insulin receptor signaling pathway
GO:0051301 cell division
GO:0051726 regulation of cell cycle

Cellular Component:
GO:0000307 cyclin-dependent protein kinase holoenzyme complex
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0016020 membrane


-  Descriptions from all associated GenBank mRNAs
  AK096276 - Homo sapiens cDNA FLJ38957 fis, clone NT2RI2000128, highly similar to G1/S-specific cyclin-D3.
AB209825 - Homo sapiens mRNA for cyclin D3 variant protein.
AK057206 - Homo sapiens cDNA FLJ32644 fis, clone SYNOV2001239, highly similar to G1/S-specific cyclin-D3.
AK097856 - Homo sapiens cDNA FLJ40537 fis, clone THYMU1000109, highly similar to G1/S-SPECIFIC CYCLIN D3.
AK303452 - Homo sapiens cDNA FLJ57763 complete cds, highly similar to G1/S-specific cyclin-D3.
BC011616 - Homo sapiens cyclin D3, mRNA (cDNA clone MGC:10400 IMAGE:3946312), complete cds.
M92287 - Homo sapiens cyclin D3 (CCND3) mRNA, complete cds.
AK055519 - Homo sapiens cDNA FLJ30957 fis, clone HCASM2000214, highly similar to G1/S-specific cyclin-D3.
M90814 - Human D3-type cyclin (CCND3) mRNA, complete cds.
JD078856 - Sequence 59880 from Patent EP1572962.
JD136575 - Sequence 117599 from Patent EP1572962.
JD482294 - Sequence 463318 from Patent EP1572962.
JD132307 - Sequence 113331 from Patent EP1572962.
JD295949 - Sequence 276973 from Patent EP1572962.
JD192427 - Sequence 173451 from Patent EP1572962.
JD177876 - Sequence 158900 from Patent EP1572962.
JD271482 - Sequence 252506 from Patent EP1572962.
JD565331 - Sequence 546355 from Patent EP1572962.
JD131166 - Sequence 112190 from Patent EP1572962.
JD092644 - Sequence 73668 from Patent EP1572962.
JD268054 - Sequence 249078 from Patent EP1572962.
JD072493 - Sequence 53517 from Patent EP1572962.
JD111518 - Sequence 92542 from Patent EP1572962.
JD040763 - Sequence 21787 from Patent EP1572962.
JD216862 - Sequence 197886 from Patent EP1572962.
JD178507 - Sequence 159531 from Patent EP1572962.
JD068116 - Sequence 49140 from Patent EP1572962.
JD101152 - Sequence 82176 from Patent EP1572962.
JD400518 - Sequence 381542 from Patent EP1572962.
CR542246 - Homo sapiens full open reading frame cDNA clone RZPDo834C0326D for gene CCND3, cyclin D3; complete cds, incl. stopcodon.
DQ891748 - Synthetic construct clone IMAGE:100004378; FLH181632.01X; RZPDo839F06136D cyclin D3 (CCND3) gene, encodes complete protein.
AK315421 - Homo sapiens cDNA, FLJ96475, Homo sapiens cyclin D3 (CCND3), mRNA.
KJ890843 - Synthetic construct Homo sapiens clone ccsbBroadEn_00237 CCND3 gene, encodes complete protein.
DQ895130 - Synthetic construct Homo sapiens clone IMAGE:100009590; FLH181628.01L; RZPDo839F06135D cyclin D3 (CCND3) gene, encodes complete protein.
AB385206 - Synthetic construct DNA, clone: pF1KB9359, Homo sapiens CCND3 gene for G1/S-specific cyclin-D3, complete cds, without stop codon, in Flexi system.
AK299187 - Homo sapiens cDNA FLJ58934 complete cds, moderately similar to G1/S-specific cyclin-D3.
LF212989 - JP 2014500723-A/20492: Polycomb-Associated Non-Coding RNAs.
JD428112 - Sequence 409136 from Patent EP1572962.
JD336003 - Sequence 317027 from Patent EP1572962.
MA448566 - JP 2018138019-A/20492: Polycomb-Associated Non-Coding RNAs.

-  Biochemical and Signaling Pathways
  BioCarta from NCI Cancer Genome Anatomy Project
h_cellcyclePathway - Cyclins and Cell Cycle Regulation

Reactome (by CSHL, EBI, and GO)

Protein P30281 (Reactome details) participates in the following event(s):

R-HSA-5692764 MAPK6 binds CCND3
R-HSA-8941895 Formation of CDK4/6:CCND complexes
R-HSA-8938867 CCND3,(CCND1,CCND2) binds RUNX1
R-HSA-8941915 Cip/Kip CDK inhibitors bind CDK4/6:CCND complexes
R-HSA-8942607 Tyrosine kinases phosphorylate Cip/Kip inhibitors bound to CDK4/6:CCND complexes
R-HSA-8942836 CDK4/6:CCND complexes are activated by T-loop phosphorylation of CDK4/6
R-HSA-69227 Cyclin D:CDK4/6 phosphorylates RB1 and prevents RB1 binding to E2F1/2/3:DP1/2 complexes
R-HSA-1226094 Cyclin D:Cdk4/6 mediated phosphorylation of p130 (RBL2) and dissociation of phosphorylated p130 (RBL2) from DP1:E2F4/5 complex
R-HSA-1226095 Cyclin D:CDK4/6 mediated phosphorylation of p107 (RBL1) and dissociation of phosphorylated p107 (p-RBL1) from DP1:E2F4 complex
R-HSA-5687128 MAPK6/MAPK4 signaling
R-HSA-69231 Cyclin D associated events in G1
R-HSA-8934593 Regulation of RUNX1 Expression and Activity
R-HSA-5683057 MAPK family signaling cascades
R-HSA-69236 G1 Phase
R-HSA-8878171 Transcriptional regulation by RUNX1
R-HSA-162582 Signal Transduction
R-HSA-453279 Mitotic G1-G1/S phases
R-HSA-212436 Generic Transcription Pathway
R-HSA-69278 Cell Cycle (Mitotic)
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-1640170 Cell Cycle
R-HSA-74160 Gene expression (Transcription)

-  Other Names for This Gene
  Alternate Gene Symbols: B2RD63, B3KQ22, CCND3 , CCND3_HUMAN, E9PAS4, E9PB36, ENST00000372991.1, ENST00000372991.2, ENST00000372991.3, ENST00000372991.4, ENST00000372991.5, ENST00000372991.6, ENST00000372991.7, ENST00000372991.8, NM_001760, P30281, Q5T8J0, Q6FG62, Q96F49, uc318kjs.1, uc318kjs.2
UCSC ID: ENST00000372991.9_7
RefSeq Accession: NM_001760.5
Protein: P30281 (aka CCND3_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.