Human Gene CCNF (uc002cqd.1) Description and Page Index
  Description: Homo sapiens cyclin F (CCNF), mRNA.
RefSeq Summary (NM_001761): This gene encodes a member of the cyclin family. Cyclins are important regulators of cell cycle transitions through their ability to bind and activate cyclin-dependent protein kinases. This member also belongs to the F-box protein family which is characterized by an approximately 40 amino acid motif, the F-box. The F-box proteins constitute one of the four subunits of the ubiquitin protein ligase complex called SCFs (SKP1-cullin-F-box), which function in phosphorylation-dependent ubiquitination. The F-box proteins are divided into 3 classes: Fbws containing WD-40 domains, Fbls containing leucine-rich repeats, and Fbxs containing either different protein-protein interaction modules or no recognizable motifs. The protein encoded by this gene belongs to the Fbxs class and it was one of the first proteins in which the F-box motif was identified. [provided by RefSeq, Jul 2008]. Publication Note: This RefSeq record includes a subset of the publications that are available for this gene. Please see the Gene record to access additional publications. ##Evidence-Data-START## Transcript exon combination :: Z36714.1, SRR1803617.234804.1 [ECO:0000332] RNAseq introns :: single sample supports all introns SAMEA1965299, SAMEA1968540 [ECO:0000348] ##Evidence-Data-END## ##RefSeq-Attributes-START## MANE Ensembl match :: ENST00000397066.9/ ENSP00000380256.4 RefSeq Select criteria :: based on conservation, expression, longest protein ##RefSeq-Attributes-END##
Transcript (Including UTRs)
   Position: hg19 chr16:2,479,395-2,508,859 Size: 29,465 Total Exon Count: 17 Strand: +
Coding Region
   Position: hg19 chr16:2,479,483-2,507,021 Size: 27,539 Coding Exon Count: 17 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr16:2,479,395-2,508,859)mRNA (may differ from genome)Protein (786 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
GeneNetworkH-INVHGNCHPRDLynxMGI
neXtProtOMIMPubMedReactomeStanford SOURCETreefam
UniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: CCNF_HUMAN
DESCRIPTION: RecName: Full=Cyclin-F; AltName: Full=F-box only protein 1;
FUNCTION: Substrate recognition component of a SCF (SKP1-CUL1-F- box protein) E3 ubiquitin-protein ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of CP110 during G2 phase, thereby acting as an inhibitor of centrosome reduplication.
SUBUNIT: Component of the SCF(Cyclin F) complex consisting of CUL1, RBX1, SKP1 and CCNF. Interacts with CCNB1; interaction is required for nuclear localization of CCNB1. Interacts with CCP110; this interaction leads to CCP110 ubiquitination and degradation via the proteasome pathway.
INTERACTION: P31350:RRM2; NbExp=12; IntAct=EBI-1207574, EBI-2339245; P63208:SKP1; NbExp=6; IntAct=EBI-1207574, EBI-307486;
SUBCELLULAR LOCATION: Nucleus. Cytoplasm, cytoskeleton, centrosome, centriole. Note=Localization in the centrosome is rare in S phase cells and increases in G2 cells, Localizes on both the mother and daughter centrioles. Localization to centrosomes is not dependent on CP110. Also localizes to the nucleus.
TISSUE SPECIFICITY: Widely expressed.
DEVELOPMENTAL STAGE: Appears in S phase, peaks in G2 phase and disappears as cells enter into mitosis (at protein level).
DOMAIN: The nuclear localization signals mediate the localization to the nucleus and are required for CCNB1 localization to the nucleus.
PTM: Degraded when the spindle assembly checkpoint is activated during the G2-M transition. Degradation is not dependent on the proteasome or ubiquitin and depends on the C-terminal PEST sequence.
PTM: Phosphorylated just before cells enter into mitosis.
MISCELLANEOUS: Founding member of the F-box domain protein family, which obtained its name from cyclin-F (PubMed:8706131).
SIMILARITY: Belongs to the cyclin family. Cyclin AB subfamily.
SIMILARITY: Contains 1 cyclin N-terminal domain.
SIMILARITY: Contains 1 F-box domain.

-  MalaCards Disease Associations
  MalaCards Gene Search: CCNF
Diseases sorted by gene-association score: amyotrophic lateral sclerosis 1* (76), necrotizing fasciitis (6), dementia, frontotemporal (1)
* = Manually curated disease association

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene
  • D000082 Acetaminophen
  • C017947 sodium arsenite
  • D015632 1-Methyl-4-phenyl-1,2,3,6-tetrahydropyridine
  • C029497 2,3-bis(3'-hydroxybenzyl)butyrolactone
  • C027576 4-hydroxy-2-nonenal
  • D015123 7,8-Dihydro-7,8-dihydroxybenzo(a)pyrene 9,10-oxide
  • C553817 7-(benzylamino)-1,3,4,8-tetrahydropyrrolo(4,3,2-de)quinolin-8(1H)-one
  • C547126 AZM551248
  • D000643 Ammonium Chloride
  • D001554 Benzene
          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: 10.08 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 50.36 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 -49.2088-0.559 Picture PostScript Text
3' UTR -725.301838-0.395 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
IPR004367 - Cyclin_C
IPR006671 - Cyclin_N
IPR001810 - F-box_dom_cyclin-like
IPR011990 - TPR-like_helical

Pfam Domains:
PF00134 - Cyclin, N-terminal domain
PF00646 - F-box domain
PF02984 - Cyclin, C-terminal domain
PF12937 - F-box-like

SCOP Domains:
81383 - F-box domain
47954 - Cyclin-like

ModBase Predicted Comparative 3D Structure on P41002
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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 orthologGenome BrowserGenome BrowserNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
Gene SorterGene Sorter    
 RGDEnsembl   
 Protein SequenceProtein Sequence   
 AlignmentAlignment   

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004842 ubiquitin-protein transferase activity
GO:0005515 protein binding

Biological Process:
GO:0000209 protein polyubiquitination
GO:0000320 re-entry into mitotic cell cycle
GO:0001890 placenta development
GO:0007049 cell cycle
GO:0010826 negative regulation of centrosome duplication
GO:0016567 protein ubiquitination
GO:0031146 SCF-dependent proteasomal ubiquitin-dependent protein catabolic process
GO:0043687 post-translational protein modification
GO:0051301 cell division
GO:0051726 regulation of cell cycle

Cellular Component:
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005813 centrosome
GO:0005814 centriole
GO:0005829 cytosol
GO:0005856 cytoskeleton
GO:0019005 SCF ubiquitin ligase complex
GO:0030054 cell junction


-  Descriptions from all associated GenBank mRNAs
  Z36714 - H.sapiens mRNA for cyclin F.
AK313371 - Homo sapiens cDNA, FLJ93902, highly similar to Homo sapiens cyclin F (CCNF), mRNA.
U17105 - Human cyclin F mRNA, complete cds.
BC012349 - Homo sapiens cyclin F, mRNA (cDNA clone MGC:20163 IMAGE:4634116), complete cds.
AB208829 - Homo sapiens mRNA for G2/mitotic-specific cyclin F variant protein.
DQ890775 - Synthetic construct clone IMAGE:100003405; FLH165850.01X; RZPDo839H07160D cyclin F (CCNF) gene, encodes complete protein.
AK172853 - Homo sapiens cDNA FLJ24014 fis, clone LNG12467.
JD278225 - Sequence 259249 from Patent EP1572962.
JD183147 - Sequence 164171 from Patent EP1572962.
JD059415 - Sequence 40439 from Patent EP1572962.
JD179899 - Sequence 160923 from Patent EP1572962.
JD378574 - Sequence 359598 from Patent EP1572962.
JD068989 - Sequence 50013 from Patent EP1572962.
JD387386 - Sequence 368410 from Patent EP1572962.
JD474066 - Sequence 455090 from Patent EP1572962.
JD392722 - Sequence 373746 from Patent EP1572962.
JD270306 - Sequence 251330 from Patent EP1572962.
JD316267 - Sequence 297291 from Patent EP1572962.
JD153175 - Sequence 134199 from Patent EP1572962.
JD142965 - Sequence 123989 from Patent EP1572962.
JD439378 - Sequence 420402 from Patent EP1572962.
JD051180 - Sequence 32204 from Patent EP1572962.
JD291023 - Sequence 272047 from Patent EP1572962.
JD297951 - Sequence 278975 from Patent EP1572962.
JD510991 - Sequence 492015 from Patent EP1572962.
JD503491 - Sequence 484515 from Patent EP1572962.
DQ593711 - Homo sapiens piRNA piR-33823, complete sequence.
JD446623 - Sequence 427647 from Patent EP1572962.
JD221407 - Sequence 202431 from Patent EP1572962.
JD438917 - Sequence 419941 from Patent EP1572962.
JD380565 - Sequence 361589 from Patent EP1572962.
JD085776 - Sequence 66800 from Patent EP1572962.
JD283112 - Sequence 264136 from Patent EP1572962.
DL491881 - Novel nucleic acids.
JD204818 - Sequence 185842 from Patent EP1572962.
JD269041 - Sequence 250065 from Patent EP1572962.
DL490446 - Novel nucleic acids.
JD132700 - Sequence 113724 from Patent EP1572962.
JD325698 - Sequence 306722 from Patent EP1572962.
JD565423 - Sequence 546447 from Patent EP1572962.
JD051953 - Sequence 32977 from Patent EP1572962.
JD198788 - Sequence 179812 from Patent EP1572962.
JD154272 - Sequence 135296 from Patent EP1572962.
JD262411 - Sequence 243435 from Patent EP1572962.
JD296108 - Sequence 277132 from Patent EP1572962.
JD547975 - Sequence 528999 from Patent EP1572962.
JD228447 - Sequence 209471 from Patent EP1572962.
JD418116 - Sequence 399140 from Patent EP1572962.
JD418117 - Sequence 399141 from Patent EP1572962.
JD307915 - Sequence 288939 from Patent EP1572962.
JD417042 - Sequence 398066 from Patent EP1572962.
JD206593 - Sequence 187617 from Patent EP1572962.
JD070623 - Sequence 51647 from Patent EP1572962.
JD398972 - Sequence 379996 from Patent EP1572962.
JD207524 - Sequence 188548 from Patent EP1572962.
JD309508 - Sequence 290532 from Patent EP1572962.
JD409402 - Sequence 390426 from Patent EP1572962.
JD341519 - Sequence 322543 from Patent EP1572962.
JD435345 - Sequence 416369 from Patent EP1572962.
JD324630 - Sequence 305654 from Patent EP1572962.
JD249400 - Sequence 230424 from Patent EP1572962.
JD505369 - Sequence 486393 from Patent EP1572962.
JD205278 - Sequence 186302 from Patent EP1572962.
JD547335 - Sequence 528359 from Patent EP1572962.
JD146633 - Sequence 127657 from Patent EP1572962.
JD545963 - Sequence 526987 from Patent EP1572962.
JD137929 - Sequence 118953 from Patent EP1572962.
JD088557 - Sequence 69581 from Patent EP1572962.

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

Protein P41002 (Reactome details) participates in the following event(s):

R-HSA-8952620 NEDD8:AcM-UBE2M binds CRL1 E3 ubiquitin ligase complex
R-HSA-8956200 MyrG-DCUN1D3 binds CRL1 E3 ubiquitin ligase complex
R-HSA-983157 Interaction of E3 with substrate and E2-Ub complex
R-HSA-983147 Release of E3 from polyubiquitinated substrate
R-HSA-8955241 CAND1 binds cytosolic CRL E3 ubiquitin ligases
R-HSA-8952618 AcM-UBE2M transfers NEDD8 to CRL1 E3 ubiquitin ligase complex
R-HSA-8955289 COMMDs displace CAND1 from cytosolic CRL E3 ubiquitin ligase complexes
R-HSA-8956040 COP9 signalosome deneddylates cytosolic CRL E3 ubiquitin ligase complexes
R-HSA-983140 Transfer of Ub from E2 to substrate and release of E2
R-HSA-8951664 Neddylation
R-HSA-983168 Antigen processing: Ubiquitination & Proteasome degradation
R-HSA-597592 Post-translational protein modification
R-HSA-983169 Class I MHC mediated antigen processing & presentation
R-HSA-392499 Metabolism of proteins
R-HSA-1280218 Adaptive Immune System
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: B2R8H3, CCNF_HUMAN, FBX1, FBXO1, NM_001761, NP_001752, P41002, Q96EG9
UCSC ID: uc002cqd.1
RefSeq Accession: NM_001761
Protein: P41002 (aka CCNF_HUMAN)
CCDS: CCDS10467.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_001761.2
exon count: 17CDS single in 3' UTR: no RNA size: 4287
ORF size: 2361CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 4922.00frame shift in genome: no % Coverage: 100.00
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.