Human Gene RNF2 (uc001grc.1)
  Description: Homo sapiens ring finger protein 2 (RNF2), mRNA.
RefSeq Summary (NM_007212): Polycomb group (PcG) of proteins form the multiprotein complexes that are important for the transcription repression of various genes involved in development and cell proliferation. The protein encoded by this gene is one of the PcG proteins. It has been shown to interact with, and suppress the activity of, transcription factor CP2 (TFCP2/CP2). Studies of the mouse counterpart suggested the involvement of this gene in the specification of anterior-posterior axis, as well as in cell proliferation in early development. This protein was also found to interact with huntingtin interacting protein 2 (HIP2), an ubiquitin-conjugating enzyme, and possess ubiquitin ligase activity. [provided by RefSeq, Jul 2008].
Transcript (Including UTRs)
   Position: hg19 chr1:185,014,551-185,071,740 Size: 57,190 Total Exon Count: 7 Strand: +
Coding Region
   Position: hg19 chr1:185,056,686-185,069,433 Size: 12,748 Coding Exon Count: 6 

Page IndexSequence and LinksUniProtKB CommentsPrimersGenetic AssociationsMalaCards
CTDGene AllelesRNA-Seq ExpressionMicroarray ExpressionRNA StructureProtein Structure
Other SpeciesGO AnnotationsmRNA DescriptionsPathwaysOther NamesModel Information
Methods
Data last updated at UCSC: 2013-06-14

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr1:185,014,551-185,071,740)mRNA (may differ from genome)Protein (336 aa)
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-  Comments and Description Text from UniProtKB
  ID: RING2_HUMAN
DESCRIPTION: RecName: Full=E3 ubiquitin-protein ligase RING2; EC=6.3.2.-; AltName: Full=Huntingtin-interacting protein 2-interacting protein 3; Short=HIP2-interacting protein 3; AltName: Full=Protein DinG; AltName: Full=RING finger protein 1B; Short=RING1b; AltName: Full=RING finger protein 2; AltName: Full=RING finger protein BAP-1;
FUNCTION: E3 ubiquitin-protein ligase that mediates monoubiquitination of 'Lys-119' of histone H2A, thereby playing a central role in histone code and gene regulation. H2A 'Lys-119' ubiquitination gives a specific tag for epigenetic transcriptional repression and participates in X chromosome inactivation of female mammals. May be involved in the initiation of both imprinted and random X inactivation. Essential component of a Polycomb group (PcG) multiprotein PRC1-like complex, a complex class required to maintain the transcriptionally repressive state of many genes, including Hox genes, throughout development. PcG PRC1 complex acts via chromatin remodeling and modification of histones, rendering chromatin heritably changed in its expressibility. E3 ubiquitin- protein ligase activity is enhanced by BMI1/PCGF4. Acts as the main E3 ubiquitin ligase on histone H2A of the PRC1 complex, while RING1 may rather act as a modulator of RNF2/RING2 activity.
PATHWAY: Protein modification; protein ubiquitination.
SUBUNIT: Component of chromatin-associated Polycomb (PcG) complexes. Part of the E2F6.com-1 complex in G0 phase composed of E2F6, MGA, MAX, TFDP1, CBX3, BAT8, EUHMTASE1, RING1, RNF2/RING2, MBLR, L3MBTL2 and YAF2. Component of a PRC1-like complex. Component of some MLL1/MLL complex, at least composed of the core components MLL, ASH2L, HCFC1/HCF1, WDR5 and RBBP5, as well as the facultative components C17orf49, CHD8, E2F6, HSP70, INO80C, KANSL1, LAS1L, MAX, MCRS1, MGA, MYST1/MOF, PELP1, PHF20, PRP31, RING2, RUVB1/TIP49A, RUVB2/TIP49B, SENP3, TAF1, TAF4, TAF6, TAF7, TAF9 and TEX10. Interacts with RYBP, HIP2 and TFCP2. Association to the chromosomal DNA is cell-cycle dependent. Component of repressive BCOR complex containing Polycomb group subcomplex at least composed of RYBP, PCGF1, BCOR and RING1. Interacts with Interacts with PCGF2, CBX4, CBX6, CBX7 and CBX8. Interacts with CBX2, BMI and PHC2. Interacts with RYBP, HIP2 and TFCP2 (By similarity).
INTERACTION: P08183:ABCB1; NbExp=2; IntAct=EBI-722416, EBI-1057359; P35226:BMI1; NbExp=5; IntAct=EBI-722416, EBI-2341576; O00257-3:CBX4; NbExp=2; IntAct=EBI-722416, EBI-4392727; O95503:CBX6; NbExp=3; IntAct=EBI-722416, EBI-3951758; O95931:CBX7; NbExp=3; IntAct=EBI-722416, EBI-3923843; Q9HC52:CBX8; NbExp=4; IntAct=EBI-722416, EBI-712912; Q9H7Z6:KAT8; NbExp=2; IntAct=EBI-722416, EBI-896414; Q9BSM1:PCGF1; NbExp=4; IntAct=EBI-722416, EBI-749901; P35227:PCGF2; NbExp=6; IntAct=EBI-722416, EBI-2129767; Q3KNV8:PCGF3; NbExp=2; IntAct=EBI-722416, EBI-2339807; Q86SE9:PCGF5; NbExp=2; IntAct=EBI-722416, EBI-2827999; Q06587:RING1; NbExp=4; IntAct=EBI-722416, EBI-752313;
SUBCELLULAR LOCATION: Nucleus. Chromosome (By similarity). Note=Enriched on inactive X chromosome (Xi) in female trophoblast stem (TS) cells as well as differentiating embryonic stem (ES) cells. The enrichment on Xi is transient during TS and ES cell differentiation. The association with Xi is mitotically stable in non-differentiated TS cells (By similarity).
PTM: Polyubiquitinated in the presence of UBE2D3 (in vitro) (By similarity).
PTM: Monoubiquitinated, by auto-ubiquitination (By similarity).
MISCELLANEOUS: The hPRC-H complex purification reported by PubMed:12167701 probably presents a mixture of different PRC1-like complexes.
SIMILARITY: Contains 1 RING-type zinc finger.
SEQUENCE CAUTION: Sequence=CAI17849.1; Type=Erroneous gene model prediction; Sequence=CAI17850.1; Type=Erroneous gene model prediction;

-  Primer design for this transcript
 

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Click here to load the transcript sequence and exon structure into Primer3Plus

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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


-  Genetic Association Studies of Complex Diseases and Disorders
  Genetic Association Database (archive): RNF2
CDC HuGE Published Literature: RNF2

-  MalaCards Disease Associations
  MalaCards Gene Search: RNF2
Diseases sorted by gene-association score: angelman syndrome (3)

-  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: 6.71 RPKM in Testis
Total median expression: 161.71 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 -108.10233-0.464 Picture PostScript Text
3' UTR -544.392307-0.236 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
IPR017907 - Znf_RING_CS

Pfam Domains:
PF00097 - Zinc finger, C3HC4 type (RING finger)
PF01396 - Topoisomerase DNA binding C4 zinc finger
PF13445 - RING-type zinc-finger
PF13639 - Ring finger domain
PF13920 - Zinc finger, C3HC4 type (RING finger)
PF13923 - Zinc finger, C3HC4 type (RING finger)
PF16207 - RAWUL domain RING finger- and WD40-associated ubiquitin-like

SCOP Domains:
57850 - RING/U-box

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2H0D - X-ray MuPIT 3GS2 - X-ray MuPIT 3H8H - X-ray MuPIT 3IXS - X-ray MuPIT 3RPG - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q99496
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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 BrowserGenome BrowserNo orthologNo ortholog
Gene DetailsGene Details Gene Details  
Gene SorterGene Sorter Gene Sorter  
 RGDEnsemblFlyBase  
 Protein SequenceProtein SequenceProtein Sequence  
 AlignmentAlignmentAlignment  

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0003682 chromatin binding
GO:0005515 protein binding
GO:0008270 zinc ion binding
GO:0016740 transferase activity
GO:0046872 metal ion binding
GO:0061630 ubiquitin protein ligase activity
GO:0071535 RING-like zinc finger domain binding
GO:0004842 ubiquitin-protein transferase activity

Biological Process:
GO:0000122 negative regulation of transcription from RNA polymerase II promoter
GO:0000278 mitotic cell cycle
GO:0001702 gastrulation with mouth forming second
GO:0006351 transcription, DNA-templated
GO:0006355 regulation of transcription, DNA-templated
GO:0007281 germ cell development
GO:0009948 anterior/posterior axis specification
GO:0016567 protein ubiquitination
GO:0016574 histone ubiquitination
GO:0035518 histone H2A monoubiquitination
GO:0036353 histone H2A-K119 monoubiquitination
GO:0043433 negative regulation of sequence-specific DNA binding transcription factor activity
GO:0070317 negative regulation of G0 to G1 transition

Cellular Component:
GO:0000151 ubiquitin ligase complex
GO:0000791 euchromatin
GO:0000792 heterochromatin
GO:0001739 sex chromatin
GO:0005634 nucleus
GO:0005654 nucleoplasm
GO:0005694 chromosome
GO:0016604 nuclear body
GO:0031519 PcG protein complex
GO:0035102 PRC1 complex
GO:0071339 MLL1 complex


-  Descriptions from all associated GenBank mRNAs
  AF141327 - Homo sapiens ring finger protein BAP-1 mRNA, complete cds.
AK091574 - Homo sapiens cDNA FLJ34255 fis, clone FCBBF5000353, highly similar to Ubiquitin ligase protein RING2 (EC 6.3.2.-) (RING finger protein 2).
AX747069 - Sequence 594 from Patent EP1308459.
BC012583 - Homo sapiens ring finger protein 2, mRNA (cDNA clone MGC:13490 IMAGE:4285715), complete cds.
AK314793 - Homo sapiens cDNA, FLJ95665, Homo sapiens ring finger protein 2 (RNF2), mRNA.
JD209408 - Sequence 190432 from Patent EP1572962.
JD139699 - Sequence 120723 from Patent EP1572962.
Y10571 - H.sapiens mRNA for dinG gene.
AB464175 - Synthetic construct DNA, clone: pF1KB7663, Homo sapiens RNF2 gene for ring finger protein 2, without stop codon, in Flexi system.
DQ892932 - Synthetic construct clone IMAGE:100005562; FLH190957.01X; RZPDo839F1076D ring finger protein 2 (RNF2) gene, encodes complete protein.
DQ896181 - Synthetic construct Homo sapiens clone IMAGE:100010641; FLH190953.01L; RZPDo839F1066D ring finger protein 2 (RNF2) gene, encodes complete protein.
KJ897473 - Synthetic construct Homo sapiens clone ccsbBroadEn_06867 RNF2 gene, encodes complete protein.
AF075026 - Homo sapiens full length insert cDNA YI36A06.
JD510524 - Sequence 491548 from Patent EP1572962.
JD315342 - Sequence 296366 from Patent EP1572962.
JD281139 - Sequence 262163 from Patent EP1572962.
JD113011 - Sequence 94035 from Patent EP1572962.
JD508476 - Sequence 489500 from Patent EP1572962.
JD201491 - Sequence 182515 from Patent EP1572962.
JD049934 - Sequence 30958 from Patent EP1572962.
JD491464 - Sequence 472488 from Patent EP1572962.
JD207481 - Sequence 188505 from Patent EP1572962.
JD276010 - Sequence 257034 from Patent EP1572962.
JD385763 - Sequence 366787 from Patent EP1572962.
JD237482 - Sequence 218506 from Patent EP1572962.

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

Protein Q99496 (Reactome details) participates in the following event(s):

R-HSA-4551727 CBX4 SUMOylates CBX4 in PRC1 with SUMO1
R-HSA-4551655 CBX4 SUMOylates BMI1 in PRC1 with SUMO1
R-HSA-9007447 E2F6 forms the PRC1L4 complex
R-HSA-3229089 PRC1.4 complex binds H3K27Me3 nucleosomes on CDKN2A promoter
R-HSA-3229102 p-MAPKAPK3 phosphorylates BMI1
R-HSA-9007283 CBX3 and PRC1.6 associate with E2F6.com-1
R-HSA-9007464 The PRC1L4 complex binds the UXT gene promoter
R-HSA-9007467 The PRC1L4 complex binds the CDC7 gene promoter
R-HSA-4570463 CBX4 (Pc2) SUMOylates CETN2 with SUMO2,3
R-HSA-4570499 CBX4 (Pc2) SUMOylates HNRNPK with SUMO2
R-HSA-8937989 RUNX1 binds PRC1 complexes
R-HSA-8943817 MECOM (EVI1) recruits polycomb repressor complexes (PRCs) to the PTEN gene promoter
R-HSA-8953452 E2F6.com-1 complex binds the E2F1 gene promoter
R-HSA-4551638 SUMOylation of chromatin organization proteins
R-HSA-8953750 Transcriptional Regulation by E2F6
R-HSA-3108232 SUMO E3 ligases SUMOylate target proteins
R-HSA-2559580 Oxidative Stress Induced Senescence
R-HSA-212436 Generic Transcription Pathway
R-HSA-2990846 SUMOylation
R-HSA-3108214 SUMOylation of DNA damage response and repair proteins
R-HSA-4570464 SUMOylation of RNA binding proteins
R-HSA-8939243 RUNX1 interacts with co-factors whose precise effect on RUNX1 targets is not known
R-HSA-8943724 Regulation of PTEN gene transcription
R-HSA-2559583 Cellular Senescence
R-HSA-73857 RNA Polymerase II Transcription
R-HSA-597592 Post-translational protein modification
R-HSA-8878171 Transcriptional regulation by RUNX1
R-HSA-6807070 PTEN Regulation
R-HSA-2262752 Cellular responses to stress
R-HSA-74160 Gene expression (Transcription)
R-HSA-392499 Metabolism of proteins
R-HSA-1257604 PIP3 activates AKT signaling
R-HSA-8953897 Cellular responses to external stimuli
R-HSA-9006925 Intracellular signaling by second messengers
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: B2RBS7, BAP1, DING, HIPI3, NM_007212, NP_009143, Q5TEN1, Q5TEN2, Q99496, RING1B, RING2_HUMAN
UCSC ID: uc001grc.1
RefSeq Accession: NM_007212
Protein: Q99496 (aka RING2_HUMAN)
CCDS: CCDS1365.1

-  Gene Model Information
 
category: coding nonsense-mediated-decay: no RNA accession: NM_007212.3
exon count: 7CDS single in 3' UTR: no RNA size: 3551
ORF size: 1011CDS single in intron: no Alignment % ID: 100.00
txCdsPredict score: 1876.50frame 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: 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.