Human Gene CDK5RAP3 (uc031rda.1) Description and Page Index
  Description: Homo sapiens CDK5 regulatory subunit associated protein 3 (CDK5RAP3), transcript variant 1, mRNA.
RefSeq Summary (NM_001278216): This gene encodes a protein that has been reported to function in signaling pathways governing transcriptional regulation and cell cycle progression. It may play a role in tumorigenesis and metastasis. A pseudogene of this gene is located on the long arm of chromosome 20. Alternative splicing results in multiple transcript variants that encode different isoforms. [provided by RefSeq, May 2013].
Transcript (Including UTRs)
   Position: hg19 chr17:46,048,322-46,059,152 Size: 10,831 Total Exon Count: 12 Strand: +
Coding Region
   Position: hg19 chr17:46,053,257-46,058,868 Size: 5,612 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsCTDGene AllelesRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
Other NamesModel InformationMethods
Data last updated: 2013-06-14

-  Sequence and Links to Tools and Databases
Genomic Sequence (chr17:46,048,322-46,059,152)mRNA (may differ from genome)Protein (281 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
BioGPSCGAPEnsemblEntrez GeneExonPrimerGeneCards
H-INVHGNCHPRDHuman Cortex Gene ExpressionLynxMGI
neXtProtOMIMPubMedStanford SOURCEUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
DESCRIPTION: RecName: Full=CDK5 regulatory subunit-associated protein 3; AltName: Full=CDK5 activator-binding protein C53; AltName: Full=Protein HSF-27;
FUNCTION: Potential regulator of CDK5 activity. May be involved in cell proliferation. Regulates CDK5 activity via its interaction with CDK5R1 (By similarity).
SUBUNIT: Interacts with CDK5R1. This interaction is prevented by the association between CDK5R1 and CDK5RAP3 (By similarity). Interacts with the enteric adenovirus serotype 41 fiber protein. Interacts with UFL1.
INTERACTION: Q04206:RELA; NbExp=4; IntAct=EBI-718818, EBI-73886;
TISSUE SPECIFICITY: Ubiquitous. Expressed in heart, brain, placenta, lung, liver, skeletal muscle, kidney and pancreas. Isoform 3 is expressed in kidney, liver, skeletal muscle and placenta.
PTM: Phosphorylated in vitro by CDK5 (By similarity).
SIMILARITY: Belongs to the CDK5RAP3 family.
SEQUENCE CAUTION: Sequence=AAK69655.1; Type=Frameshift; Positions=410;

-  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: 150.08 RPKM in Pituitary
Total median expression: 2916.86 RPKM

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

+  Microarray Expression Data
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-  mRNA Secondary Structure of 3' and 5' UTRs
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -733.271791-0.409 Picture PostScript Text
3' UTR -94.00284-0.331 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
IPR008491 - DUF773

Pfam Domains:
PF05600 - Protein of unknown function (DUF773)

ModBase Predicted Comparative 3D Structure on Q96JB5
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 Details     
Gene Sorter     

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005515 protein binding
GO:0019901 protein kinase binding
GO:0030332 cyclin binding
GO:0044389 ubiquitin-like protein ligase binding
GO:0051019 mitogen-activated protein kinase binding
GO:0051059 NF-kappaB binding
GO:0097371 MDM2/MDM4 family protein binding

Biological Process:
GO:0000079 regulation of cyclin-dependent protein serine/threonine kinase activity
GO:0001933 negative regulation of protein phosphorylation
GO:0007095 mitotic G2 DNA damage checkpoint
GO:0007420 brain development
GO:0008283 cell proliferation
GO:0010921 regulation of phosphatase activity
GO:0030262 apoptotic nuclear changes
GO:0030968 endoplasmic reticulum unfolded protein response
GO:0031398 positive regulation of protein ubiquitination
GO:0032088 negative regulation of NF-kappaB transcription factor activity
GO:0043407 negative regulation of MAP kinase activity
GO:0044387 negative regulation of protein kinase activity by regulation of protein phosphorylation
GO:0044818 mitotic G2/M transition checkpoint
GO:0045664 regulation of neuron differentiation
GO:0045944 positive regulation of transcription from RNA polymerase II promoter
GO:0071569 protein ufmylation
GO:0071901 negative regulation of protein serine/threonine kinase activity
GO:1900182 positive regulation of protein localization to nucleus
GO:1901798 positive regulation of signal transduction by p53 class mediator
GO:1903363 negative regulation of cellular protein catabolic process
GO:2000060 positive regulation of protein ubiquitination involved in ubiquitin-dependent protein catabolic process

Cellular Component:
GO:0005634 nucleus
GO:0005730 nucleolus
GO:0005737 cytoplasm
GO:0005813 centrosome
GO:0005815 microtubule organizing center
GO:0005829 cytosol
GO:0005856 cytoskeleton
GO:0012505 endomembrane system
GO:0016020 membrane
GO:0032991 macromolecular complex
GO:0005874 microtubule

-  Descriptions from all associated GenBank mRNAs
  AK300643 - Homo sapiens cDNA FLJ56403 complete cds, highly similar to CDK5 regulatory subunit-associated protein 3.
LF209295 - JP 2014500723-A/16798: Polycomb-Associated Non-Coding RNAs.
AK223387 - Homo sapiens mRNA for CDK5 regulatory subunit associated protein 3 isoform b variant, clone: FCC106G06.
JD189859 - Sequence 170883 from Patent EP1572962.
JD195844 - Sequence 176868 from Patent EP1572962.
AF217982 - Homo sapiens CDK5 regulatory subunit associated protein IC53-2 (PP1553) mRNA, complete cds.
AK023722 - Homo sapiens cDNA FLJ13660 fis, clone PLACE1011586, highly similar to Rattus norvegicus clone C53 CDK5 activator-binding protein mRNA.
JD211369 - Sequence 192393 from Patent EP1572962.
JD115164 - Sequence 96188 from Patent EP1572962.
AF343090 - Homo sapiens HSF-27 protein mRNA, complete cds.
LF327503 - JP 2014500723-A/135006: Polycomb-Associated Non-Coding RNAs.
AF110322 - Homo sapiens MSTP016 (MST016) mRNA, complete cds.
AK225274 - Homo sapiens mRNA for CDK5 regulatory subunit associated protein 3 isoform b variant, clone: DMC09120.
BC072435 - Homo sapiens CDK5 regulatory subunit associated protein 3, mRNA (cDNA clone MGC:87717 IMAGE:5751801), complete cds.
BC009957 - Homo sapiens CDK5 regulatory subunit associated protein 3, mRNA (cDNA clone MGC:14989 IMAGE:4130677), complete cds.
AB062433 - Homo sapiens OK/SW-cl.114 mRNA, complete cds.
HQ448144 - Synthetic construct Homo sapiens clone IMAGE:100071529; CCSB006836_04 CDK5 regulatory subunit associated protein 3 (CDK5RAP3) gene, encodes complete protein.
KJ899629 - Synthetic construct Homo sapiens clone ccsbBroadEn_09023 CDK5RAP3 gene, encodes complete protein.
BC013407 - Homo sapiens CDK5 regulatory subunit associated protein 3, mRNA (cDNA clone IMAGE:2988445), partial cds.
JD466827 - Sequence 447851 from Patent EP1572962.
JD098752 - Sequence 79776 from Patent EP1572962.
JD494241 - Sequence 475265 from Patent EP1572962.
JD270613 - Sequence 251637 from Patent EP1572962.
AK000260 - Homo sapiens cDNA FLJ20253 fis, clone COLF6895.
JD134391 - Sequence 115415 from Patent EP1572962.
JD289157 - Sequence 270181 from Patent EP1572962.
JD514317 - Sequence 495341 from Patent EP1572962.
JD071597 - Sequence 52621 from Patent EP1572962.
JD453700 - Sequence 434724 from Patent EP1572962.
JD227024 - Sequence 208048 from Patent EP1572962.
JD115490 - Sequence 96514 from Patent EP1572962.
JD362714 - Sequence 343738 from Patent EP1572962.
AK301739 - Homo sapiens cDNA FLJ59273 complete cds, highly similar to CDK5 regulatory subunit-associated protein 3.
JD523717 - Sequence 504741 from Patent EP1572962.
JD095827 - Sequence 76851 from Patent EP1572962.
JD115069 - Sequence 96093 from Patent EP1572962.
JD203167 - Sequence 184191 from Patent EP1572962.
JD364103 - Sequence 345127 from Patent EP1572962.
JD220716 - Sequence 201740 from Patent EP1572962.
JD126734 - Sequence 107758 from Patent EP1572962.
JD066636 - Sequence 47660 from Patent EP1572962.
LF327500 - JP 2014500723-A/135003: Polycomb-Associated Non-Coding RNAs.
JD458190 - Sequence 439214 from Patent EP1572962.
JD488664 - Sequence 469688 from Patent EP1572962.
JD466212 - Sequence 447236 from Patent EP1572962.
JD336777 - Sequence 317801 from Patent EP1572962.
JD265076 - Sequence 246100 from Patent EP1572962.
JD561781 - Sequence 542805 from Patent EP1572962.
JD131791 - Sequence 112815 from Patent EP1572962.
JD514693 - Sequence 495717 from Patent EP1572962.
JD377412 - Sequence 358436 from Patent EP1572962.
JD349625 - Sequence 330649 from Patent EP1572962.
JD322368 - Sequence 303392 from Patent EP1572962.
JD280393 - Sequence 261417 from Patent EP1572962.
JD054337 - Sequence 35361 from Patent EP1572962.
JD222715 - Sequence 203739 from Patent EP1572962.
JD483879 - Sequence 464903 from Patent EP1572962.
JD353295 - Sequence 334319 from Patent EP1572962.
JD022756 - Sequence 3780 from Patent EP1572962.
JD029442 - Sequence 10466 from Patent EP1572962.
JD556091 - Sequence 537115 from Patent EP1572962.
AK124412 - Homo sapiens cDNA FLJ42421 fis, clone BLADE2002782, weakly similar to Rattus norvegicus clone C53 CDK5 activator-binding protein mRNA.
JD068923 - Sequence 49947 from Patent EP1572962.
JD471691 - Sequence 452715 from Patent EP1572962.
JD548469 - Sequence 529493 from Patent EP1572962.
JD239642 - Sequence 220666 from Patent EP1572962.
JD508102 - Sequence 489126 from Patent EP1572962.
JD071642 - Sequence 52666 from Patent EP1572962.
JD182840 - Sequence 163864 from Patent EP1572962.
JD089375 - Sequence 70399 from Patent EP1572962.
JD546239 - Sequence 527263 from Patent EP1572962.
JD221780 - Sequence 202804 from Patent EP1572962.
JD535027 - Sequence 516051 from Patent EP1572962.
JD155348 - Sequence 136372 from Patent EP1572962.
JD329252 - Sequence 310276 from Patent EP1572962.
JD309093 - Sequence 290117 from Patent EP1572962.
JD141975 - Sequence 122999 from Patent EP1572962.
MA563080 - JP 2018138019-A/135006: Polycomb-Associated Non-Coding RNAs.
MA563077 - JP 2018138019-A/135003: Polycomb-Associated Non-Coding RNAs.
MA444872 - JP 2018138019-A/16798: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: CK5P3_HUMAN, D3DTU1, D3DTU2, IC53, MSTP016, NM_001278216, NP_001265145, OK/SW-cl.114, PP1553, Q53FA2, Q96JB5, Q9H3F8, Q9H8G0, Q9HBR9, uc002imq.1
UCSC ID: uc031rda.1
RefSeq Accession: NM_001278216
Protein: Q96JB5 (aka CK5P3_HUMAN or C5P3_HUMAN)

-  Gene Model Information
category: coding nonsense-mediated-decay: no RNA accession: NM_001278216.1
exon count: 12CDS single in 3' UTR: no RNA size: 2921
ORF size: 846CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 552.50frame 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: yes # AT/AC introns 0
selenocysteine: no end bleed into intron: 327# 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.