Human Gene MYCBP2 (ENST00000544440.7_13) from GENCODE V47lift37
  Description: MYC binding protein 2 (from RefSeq NM_015057.5)
Gencode Transcript: ENST00000544440.7_13
Gencode Gene: ENSG00000005810.20_14
Transcript (Including UTRs)
   Position: hg19 chr13:77,618,792-77,901,229 Size: 282,438 Total Exon Count: 83 Strand: -
Coding Region
   Position: hg19 chr13:77,619,513-77,900,910 Size: 281,398 Coding Exon Count: 83 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr13:77,618,792-77,901,229)mRNA (may differ from genome)Protein (4678 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
AlphaFoldBioGPSEnsemblEntrez GeneExonPrimerGeneCards
HGNCMalacardsMGIOMIMPubMedUniProtKB
WikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: MYCB2_HUMAN
DESCRIPTION: RecName: Full=Probable E3 ubiquitin-protein ligase MYCBP2; EC=6.3.2.-; AltName: Full=Myc-binding protein 2; AltName: Full=Pam/highwire/rpm-1 protein; AltName: Full=Protein associated with Myc;
FUNCTION: Probable E3 ubiquitin-protein ligase which mediates ubiquitination and subsequent proteasomal degradation of target proteins. May function as a facilitator or regulator of transcriptional activation by MYC. May have a role during synaptogenesis.
PATHWAY: Protein modification; protein ubiquitination.
SUBUNIT: Interacts with MYC. Interacts with TSC2 (tuberin) when TSC2 is in complex with TSC1 (hamartin). Interacts with FBXO45.
SUBCELLULAR LOCATION: Nucleus.
TISSUE SPECIFICITY: Expressed in all tissues examined, expression is exceptionally abundant in brain and thymus. Colocalizes with TSC1 and TSC2 along the neurites and in the growth cones. Colocalized with TSC1 in one of the filopodial extensions at the tip of a growth cone.
SIMILARITY: Belongs to the highwire family.
SIMILARITY: Contains 1 B box-type zinc finger.
SIMILARITY: Contains 1 DOC domain.
SIMILARITY: Contains 1 filamin repeat.
SIMILARITY: Contains 5 RCC1 repeats.
SIMILARITY: Contains 1 RING-type zinc finger.
SEQUENCE CAUTION: Sequence=AAD39842.1; Type=Frameshift; Positions=4636; Sequence=AAH37971.1; Type=Erroneous initiation; Sequence=CAI39758.1; Type=Erroneous gene model prediction;

-  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: MYCBP2
Diseases sorted by gene-association score: ecthyma (9), reticulate acropigmentation of kitamura (8), brunner syndrome (6)

-  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: 19.57 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 385.24 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 -168.10319-0.527 Picture PostScript Text
3' UTR -155.00721-0.215 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
IPR004939 - APC_su10/DOC_dom
IPR017868 - Filamin/ABP280_repeat-like
IPR008979 - Galactose-bd-like
IPR013783 - Ig-like_fold
IPR014756 - Ig_E-set
IPR012983 - PHR
IPR000408 - Reg_chr_condens
IPR009091 - Reg_csome_cond/b-lactamase_inh
IPR001841 - Znf_RING
IPR013083 - Znf_RING/FYVE/PHD

Pfam Domains:
PF00415 - Regulator of chromosome condensation (RCC1) repeat
PF03256 - Anaphase-promoting complex, subunit 10 (APC10)
PF08005 - PHR domain
PF08239 - Bacterial SH3 domain
PF13540 - Regulator of chromosome condensation (RCC1) repeat
PF13639 - Ring finger domain

SCOP Domains:
48371 - ARM repeat
81296 - E set domains
49785 - Galactose-binding domain-like
63829 - Calcium-dependent phosphotriesterase
101898 - NHL repeat
50965 - Galactose oxidase, central domain
50985 - RCC1/BLIP-II
57850 - RING/U-box

ModBase Predicted Comparative 3D Structure on O75592
FrontTopSide
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:0005515 protein binding
GO:0016740 transferase activity
GO:0046872 metal ion binding

Biological Process:
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0016567 protein ubiquitination

Cellular Component:
GO:0005634 nucleus
GO:0016020 membrane
GO:0043231 intracellular membrane-bounded organelle


-  Descriptions from all associated GenBank mRNAs
  LF210194 - JP 2014500723-A/17697: Polycomb-Associated Non-Coding RNAs.
AF075587 - Homo sapiens protein associated with Myc mRNA, complete cds.
JA482246 - Sequence 229 from Patent WO2011072091.
JE980538 - Sequence 229 from Patent EP2862929.
MA445771 - JP 2018138019-A/17697: Polycomb-Associated Non-Coding RNAs.
BX647202 - Homo sapiens mRNA; cDNA DKFZp686M08244 (from clone DKFZp686M08244).
AK092651 - Homo sapiens cDNA FLJ35332 fis, clone PROST2014862.
AB020723 - Homo sapiens mRNA for KIAA0916 protein, partial cds.
AF083244 - Homo sapiens HSPC026 mRNA, complete cds.
JD301730 - Sequence 282754 from Patent EP1572962.
JD534072 - Sequence 515096 from Patent EP1572962.
JD237672 - Sequence 218696 from Patent EP1572962.
AK025299 - Homo sapiens cDNA: FLJ21646 fis, clone COL08455.
AK025250 - Homo sapiens cDNA: FLJ21597 fis, clone COL07126.
JD043767 - Sequence 24791 from Patent EP1572962.
BC037971 - Homo sapiens MYC binding protein 2, mRNA (cDNA clone IMAGE:4944770), partial cds.
JD056443 - Sequence 37467 from Patent EP1572962.
JD087382 - Sequence 68406 from Patent EP1572962.
JD288372 - Sequence 269396 from Patent EP1572962.
JD402135 - Sequence 383159 from Patent EP1572962.
JD566166 - Sequence 547190 from Patent EP1572962.
JD019401 - Sequence 425 from Patent EP1572962.
JD033263 - Sequence 14287 from Patent EP1572962.
LF335524 - JP 2014500723-A/143027: Polycomb-Associated Non-Coding RNAs.
LF335525 - JP 2014500723-A/143028: Polycomb-Associated Non-Coding RNAs.
LF335526 - JP 2014500723-A/143029: Polycomb-Associated Non-Coding RNAs.
LF335527 - JP 2014500723-A/143030: Polycomb-Associated Non-Coding RNAs.
LF335529 - JP 2014500723-A/143032: Polycomb-Associated Non-Coding RNAs.
LF335532 - JP 2014500723-A/143035: Polycomb-Associated Non-Coding RNAs.
LF335533 - JP 2014500723-A/143036: Polycomb-Associated Non-Coding RNAs.
AL110277 - Homo sapiens mRNA; cDNA DKFZp586G0322 (from clone DKFZp586G0322); partial cds.
AK023888 - Homo sapiens cDNA FLJ13826 fis, clone THYRO1000585, highly similar to Homo sapiens protein associated with Myc mRNA.
AK000968 - Homo sapiens cDNA FLJ10106 fis, clone HEMBA1002569, highly similar to Homo sapiens protein associated with Myc mRNA.
LF335535 - JP 2014500723-A/143038: Polycomb-Associated Non-Coding RNAs.
LF335536 - JP 2014500723-A/143039: Polycomb-Associated Non-Coding RNAs.
LF335537 - JP 2014500723-A/143040: Polycomb-Associated Non-Coding RNAs.
LF335545 - JP 2014500723-A/143048: Polycomb-Associated Non-Coding RNAs.
LF335546 - JP 2014500723-A/143049: Polycomb-Associated Non-Coding RNAs.
MA571101 - JP 2018138019-A/143027: Polycomb-Associated Non-Coding RNAs.
MA571102 - JP 2018138019-A/143028: Polycomb-Associated Non-Coding RNAs.
MA571103 - JP 2018138019-A/143029: Polycomb-Associated Non-Coding RNAs.
MA571104 - JP 2018138019-A/143030: Polycomb-Associated Non-Coding RNAs.
MA571106 - JP 2018138019-A/143032: Polycomb-Associated Non-Coding RNAs.
MA571109 - JP 2018138019-A/143035: Polycomb-Associated Non-Coding RNAs.
MA571110 - JP 2018138019-A/143036: Polycomb-Associated Non-Coding RNAs.
MA571112 - JP 2018138019-A/143038: Polycomb-Associated Non-Coding RNAs.
MA571113 - JP 2018138019-A/143039: Polycomb-Associated Non-Coding RNAs.
MA571114 - JP 2018138019-A/143040: Polycomb-Associated Non-Coding RNAs.
MA571122 - JP 2018138019-A/143048: Polycomb-Associated Non-Coding RNAs.
MA571123 - JP 2018138019-A/143049: Polycomb-Associated Non-Coding RNAs.
LF335551 - JP 2014500723-A/143054: Polycomb-Associated Non-Coding RNAs.
LF335554 - JP 2014500723-A/143057: Polycomb-Associated Non-Coding RNAs.
LF335555 - JP 2014500723-A/143058: Polycomb-Associated Non-Coding RNAs.
LF335556 - JP 2014500723-A/143059: Polycomb-Associated Non-Coding RNAs.
LF335557 - JP 2014500723-A/143060: Polycomb-Associated Non-Coding RNAs.
LF335559 - JP 2014500723-A/143062: Polycomb-Associated Non-Coding RNAs.
LF335560 - JP 2014500723-A/143063: Polycomb-Associated Non-Coding RNAs.
LF335561 - JP 2014500723-A/143064: Polycomb-Associated Non-Coding RNAs.
LF335562 - JP 2014500723-A/143065: Polycomb-Associated Non-Coding RNAs.
LF335580 - JP 2014500723-A/143083: Polycomb-Associated Non-Coding RNAs.
LF335581 - JP 2014500723-A/143084: Polycomb-Associated Non-Coding RNAs.
LF335584 - JP 2014500723-A/143087: Polycomb-Associated Non-Coding RNAs.
LF335585 - JP 2014500723-A/143088: Polycomb-Associated Non-Coding RNAs.
LF335588 - JP 2014500723-A/143091: Polycomb-Associated Non-Coding RNAs.
MA571128 - JP 2018138019-A/143054: Polycomb-Associated Non-Coding RNAs.
MA571131 - JP 2018138019-A/143057: Polycomb-Associated Non-Coding RNAs.
MA571132 - JP 2018138019-A/143058: Polycomb-Associated Non-Coding RNAs.
MA571133 - JP 2018138019-A/143059: Polycomb-Associated Non-Coding RNAs.
MA571134 - JP 2018138019-A/143060: Polycomb-Associated Non-Coding RNAs.
MA571136 - JP 2018138019-A/143062: Polycomb-Associated Non-Coding RNAs.
MA571137 - JP 2018138019-A/143063: Polycomb-Associated Non-Coding RNAs.
MA571138 - JP 2018138019-A/143064: Polycomb-Associated Non-Coding RNAs.
MA571139 - JP 2018138019-A/143065: Polycomb-Associated Non-Coding RNAs.
MA571157 - JP 2018138019-A/143083: Polycomb-Associated Non-Coding RNAs.
MA571158 - JP 2018138019-A/143084: Polycomb-Associated Non-Coding RNAs.
MA571161 - JP 2018138019-A/143087: Polycomb-Associated Non-Coding RNAs.
MA571162 - JP 2018138019-A/143088: Polycomb-Associated Non-Coding RNAs.
MA571165 - JP 2018138019-A/143091: Polycomb-Associated Non-Coding RNAs.
LF335594 - JP 2014500723-A/143097: Polycomb-Associated Non-Coding RNAs.
JD113434 - Sequence 94458 from Patent EP1572962.
MA571171 - JP 2018138019-A/143097: Polycomb-Associated Non-Coding RNAs.

-  Other Names for This Gene
  Alternate Gene Symbols: A6NJC6, ENST00000544440.1, ENST00000544440.2, ENST00000544440.3, ENST00000544440.4, ENST00000544440.5, ENST00000544440.6, KIAA0916 , MYCB2_HUMAN, MYCBP2 , NM_015057, O75592, PAM , Q5JSX8, Q5VZN6, Q6PIB6, Q9UQ11, Q9Y6E4, uc324vor.1, uc324vor.2
UCSC ID: ENST00000544440.7_13
RefSeq Accession: NM_015057.5
Protein: O75592 (aka MYCB2_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.