Human Gene RNF7 (ENST00000273480.4_4) from GENCODE V47lift37
  Description: ring finger protein 7, transcript variant 1 (from RefSeq NM_014245.5)
Gencode Transcript: ENST00000273480.4_4
Gencode Gene: ENSG00000114125.14_7
Transcript (Including UTRs)
   Position: hg19 chr3:141,457,140-141,466,402 Size: 9,263 Total Exon Count: 3 Strand: +
Coding Region
   Position: hg19 chr3:141,457,184-141,464,119 Size: 6,936 Coding Exon Count: 3 

Page IndexSequence and LinksUniProtKB CommentsPrimersCTDGene Alleles
RNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein StructureOther SpeciesGO Annotations
mRNA DescriptionsPathwaysOther NamesModel InformationMethods
Data last updated at UCSC: 2024-08-22 23:36:26

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr3:141,457,140-141,466,402)mRNA (may differ from genome)Protein (113 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaAlphaFold
BioGPSEnsemblEntrez GeneExonPrimerGeneCardsHGNC
MGIOMIMPubMedReactomeUniProtKBWikipedia
BioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RBX2_HUMAN
DESCRIPTION: RecName: Full=RING-box protein 2; Short=Rbx2; AltName: Full=CKII beta-binding protein 1; Short=CKBBP1; AltName: Full=RING finger protein 7; AltName: Full=Regulator of cullins 2; AltName: Full=Sensitive to apoptosis gene protein;
FUNCTION: Probable component of the SCF (SKP1-CUL1-F-box protein) E3 ubiquitin ligase complex which mediates the ubiquitination and subsequent proteasomal degradation of target proteins involved in cell cycle progression, signal transduction and transcription. Through the RING-type zinc finger, seems to recruit the E2 ubiquitination enzyme to the complex and brings it into close proximity to the substrate. Promotes the neddylation of CUL5 via its interaction with UBE2F. May play a role in protecting cells from apoptosis induced by redox agents.
PATHWAY: Protein modification; protein ubiquitination.
SUBUNIT: Probable part of SCF complexes, which consist of SKP1, CUL1, RNF7/RBX2 and a F-box protein. Interacts (preferentially) with CUL5. Also interacts (with lower preference) with CUL1, CUL2, CUL3, CUL4A and CUL4B. Interacts with UBE2F. Interacts with CSNK2B, the interaction is not affected by phosphorylation by CK2.
INTERACTION: Q9Y6K9:IKBKG; NbExp=3; IntAct=EBI-398632, EBI-81279; P12504:vif (xeno); NbExp=4; IntAct=EBI-398632, EBI-779991;
SUBCELLULAR LOCATION: Cytoplasm. Nucleus.
TISSUE SPECIFICITY: Expressed in heart, liver, skeletal muscle and pancreas. At very low levels expressed in brain, placenta and lung.
INDUCTION: By 1,10-phenanthroline.
DOMAIN: The RING-type zinc finger domain is essential for ubiquitin ligase activity. It coordinates an additional third zinc ion.
PTM: Phosphorylation by CK2 is required for efficient degradation of NFKBIA and CDKN1B.
SIMILARITY: Belongs to the RING-box family.
SIMILARITY: Contains 1 RING-type zinc finger.
WEB RESOURCE: Name=Atlas of Genetics and Cytogenetics in Oncology and Haematology; URL="http://atlasgeneticsoncology.org/Genes/RNF7ID44108ch3q22.html";

-  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


-  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: 27.89 RPKM in Testis
Total median expression: 813.66 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 -10.2044-0.232 Picture PostScript Text
3' UTR -582.502283-0.255 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
IPR001841 - Znf_RING
IPR013083 - Znf_RING/FYVE/PHD
IPR024766 - Znf_RING_H2

Pfam Domains:
PF12678 - RING-H2 zinc finger domain
PF12861 - Anaphase-promoting complex subunit 11 RING-H2 finger

SCOP Domains:
57850 - RING/U-box

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2ECL - NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q9UBF6
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 orthologGenome BrowserNo ortholog
Gene DetailsGene Details Gene DetailsGene Details 
Gene SorterGene Sorter Gene SorterGene Sorter 
 RGDEnsembl WormBase 
    Protein Sequence 
    Alignment 

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0005507 copper ion binding
GO:0005515 protein binding
GO:0008270 zinc ion binding
GO:0019788 NEDD8 transferase activity
GO:0046872 metal ion binding
GO:0061630 ubiquitin protein ligase activity
GO:0097602 cullin family protein binding

Biological Process:
GO:0016567 protein ubiquitination
GO:0031146 SCF-dependent proteasomal ubiquitin-dependent protein catabolic process
GO:0043687 post-translational protein modification
GO:0045116 protein neddylation
GO:0051775 response to redox state

Cellular Component:
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0031462 Cul2-RING ubiquitin ligase complex
GO:0031463 Cul3-RING ubiquitin ligase complex
GO:0031466 Cul5-RING ubiquitin ligase complex
GO:0031467 Cul7-RING ubiquitin ligase complex
GO:0043224 nuclear SCF ubiquitin ligase complex
GO:0080008 Cul4-RING E3 ubiquitin ligase complex


-  Descriptions from all associated GenBank mRNAs
  AK311982 - Homo sapiens cDNA, FLJ92255, highly similar to Homo sapiens ring finger protein 7 (RNF7), mRNA.
BC008627 - Homo sapiens ring finger protein 7, mRNA (cDNA clone MGC:17274 IMAGE:4177613), complete cds.
BC005966 - Homo sapiens ring finger protein 7, mRNA (cDNA clone MGC:14618 IMAGE:4069078), complete cds.
AF164679 - Homo sapiens ring finger protein CKBBP1 mRNA, complete cds.
DQ891759 - Synthetic construct clone IMAGE:100004389; FLH179669.01X; RZPDo839B02132D ring finger protein 7 (RNF7) gene, encodes complete protein.
DQ894943 - Synthetic construct Homo sapiens clone IMAGE:100009403; FLH179665.01L; RZPDo839B02131D ring finger protein 7 (RNF7) gene, encodes complete protein.
AB590187 - Synthetic construct DNA, clone: pFN21AE1410, Homo sapiens RNF7 gene for ring finger protein 7, without stop codon, in Flexi system.
KJ892818 - Synthetic construct Homo sapiens clone ccsbBroadEn_02212 RNF7 gene, encodes complete protein.
KJ898056 - Synthetic construct Homo sapiens clone ccsbBroadEn_07450 RNF7 gene, encodes complete protein.
AK289894 - Homo sapiens cDNA FLJ76377 complete cds, highly similar to Homo sapiens ring finger protein 7 (RNF7), transcript variant 2, mRNA.
BT007348 - Homo sapiens ring finger protein 7 mRNA, complete cds.
AF142060 - Homo sapiens RING finger protein (ROC2) mRNA, complete cds.
AF312226 - Homo sapiens SAG splice variant mRNA, complete cds.
AF092878 - Homo sapiens zinc RING finger protein SAG mRNA, complete cds.
JD360752 - Sequence 341776 from Patent EP1572962.
JD295291 - Sequence 276315 from Patent EP1572962.
JD081314 - Sequence 62338 from Patent EP1572962.
JD019690 - Sequence 714 from Patent EP1572962.
JD019691 - Sequence 715 from Patent EP1572962.
JD026400 - Sequence 7424 from Patent EP1572962.
JD021286 - Sequence 2310 from Patent EP1572962.
JD032953 - Sequence 13977 from Patent EP1572962.
JD028860 - Sequence 9884 from Patent EP1572962.
JD153497 - Sequence 134521 from Patent EP1572962.
JD040176 - Sequence 21200 from Patent EP1572962.
JD431831 - Sequence 412855 from Patent EP1572962.
JD271942 - Sequence 252966 from Patent EP1572962.
JD465430 - Sequence 446454 from Patent EP1572962.

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

Protein Q9UBF6 (Reactome details) participates in the following event(s):

R-HSA-983157 Interaction of E3 with substrate and E2-Ub complex
R-HSA-983147 Release of E3 from polyubiquitinated substrate
R-HSA-8952039 NEDD8:AcM-UBE2F binds CRL5 E3 ubiquitin ligase complex
R-HSA-8955241 CAND1 binds cytosolic CRL E3 ubiquitin ligases
R-HSA-8952044 AcM-UBE2F transfers NEDD8 to CRL5 E3 ubiquitin ligase complex
R-HSA-983140 Transfer of Ub from E2 to substrate and release of E2
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-983168 Antigen processing: Ubiquitination & Proteasome degradation
R-HSA-8951664 Neddylation
R-HSA-983169 Class I MHC mediated antigen processing & presentation
R-HSA-597592 Post-translational protein modification
R-HSA-1280218 Adaptive Immune System
R-HSA-392499 Metabolism of proteins
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: A8K1H9, A8MTB5, C9JYL3, D3DNF7, D3DNF8, ENST00000273480.1, ENST00000273480.2, ENST00000273480.3, NM_014245, Q9BXN8, Q9UBF6, Q9Y5M7, RBX2, RBX2_HUMAN, ROC2, SAG, uc317jce.1, uc317jce.2
UCSC ID: ENST00000273480.4_4
RefSeq Accession: NM_014245.5
Protein: Q9UBF6 (aka RBX2_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.