Human Gene RNF31 (ENST00000324103.11_5) from GENCODE V47lift37
  Description: ring finger protein 31, transcript variant 1 (from RefSeq NM_017999.5)
Gencode Transcript: ENST00000324103.11_5
Gencode Gene: ENSG00000092098.18_17
Transcript (Including UTRs)
   Position: hg19 chr14:24,616,707-24,629,864 Size: 13,158 Total Exon Count: 21 Strand: +
Coding Region
   Position: hg19 chr14:24,616,908-24,629,782 Size: 12,875 Coding Exon Count: 21 

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

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr14:24,616,707-24,629,864)mRNA (may differ from genome)Protein (1072 aa)
Gene SorterGenome BrowserOther Species FASTAVisiGeneGene interactionsTable Schema
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HGNCMalacardsMGIOMIMPubMedReactome
UniProtKBWikipediaBioGrid CRISPR DB

-  Comments and Description Text from UniProtKB
  ID: RNF31_HUMAN
DESCRIPTION: RecName: Full=E3 ubiquitin-protein ligase RNF31; EC=6.3.2.-; AltName: Full=HOIL-1-interacting protein; Short=HOIP; AltName: Full=RING finger protein 31; AltName: Full=Zinc in-between-RING-finger ubiquitin-associated domain protein;
FUNCTION: E3 ubiquitin-protein ligase component of the LUBAC complex which conjugates linear ('M-1'-linked) polyubiquitin chains to substrates and plays a key role in NF-kappa-B activation and regulation of inflammation. LUBAC conjugates linear polyubiquitin to IKBKG and RIPK1 and is involved in activation of the canonical NF-kappa-B and the JNK signaling pathways. Linear ubiquitination mediated by the LUBAC complex interferes with TNF- induced cell death and thereby prevents inflammation. LUBAC is proposed to be recruited to the TNF-R1 signaling complex (TNF-RSC) following polyubiquitination of TNF-RSC components by BIRC2 and/or BIRC3 and to conjugate linear polyubiquitin to IKBKG and possibly other components contributing to the stability of the complex. Binds polyubiquitin of different linkage types.
SUBUNIT: Interacts with MUSK (By similarity). Component of the LUBAC complex (linear ubiquitin chain assembly complex) which consists of SHARPIN, RBCK1 and RNF31. LUBAC has a MW of approximative 600 kDa suggesting a heteromultimeric assembly of its subunits. Associates with the TNF-R1 signaling complex (TNF- RSC) in a stimulation-dependent manner.
INTERACTION: Q9QYP6:Azi2 (xeno); NbExp=2; IntAct=EBI-948111, EBI-6115874; P84022:SMAD3; NbExp=2; IntAct=EBI-948111, EBI-347161; Q4VA12:Traf1 (xeno); NbExp=2; IntAct=EBI-948111, EBI-6116765;
SUBCELLULAR LOCATION: Cytoplasm (By similarity).
TISSUE SPECIFICITY: Expressed in both normal and transformed breast epithelial cell lines.
DOMAIN: The RanBP2-type zinc fingers mediate the specific interaction with ubiquitin.
DOMAIN: The UBA domain mediates association with RBCK1/HOIL1 via interaction with its UBL domain.
DOMAIN: RING 1 and IBR zinc-fingers catalyze the first step transfer of ubiquitin from the E2 onto RING 2, to transiently form a HECT-like covalent thioester intermediate.
DOMAIN: The linear ubiquitin chain determining domain (LDD) mediates the final transfer of ubiquitin from RING 2 onto the N- terminus of a target ubiquitin.
SIMILARITY: Contains 1 IBR-type zinc finger.
SIMILARITY: Contains 3 RanBP2-type zinc fingers.
SIMILARITY: Contains 2 RING-type zinc fingers.
SIMILARITY: Contains 1 UBA domain.
SEQUENCE CAUTION: Sequence=BAB15675.1; Type=Erroneous termination; Positions=1060; Note=Translated as Glu; Sequence=BAB15675.1; Type=Frameshift; Positions=1036; Sequence=BAB15675.1; Type=Miscellaneous discrepancy; Note=Intron retention; Sequence=BAB70948.1; Type=Erroneous initiation;

-  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: RNF31
Diseases sorted by gene-association score: polyglucosan body myopathy 1 with or without immunodeficiency* (175), glycogen storage disease iv (6)
* = Manually curated disease association

-  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: 20.18 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 556.14 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 -110.30201-0.549 Picture PostScript Text
3' UTR -25.3082-0.309 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
IPR018997 - PUB_domain
IPR026254 - RNF31
IPR009060 - UBA-like
IPR015940 - UBA/transl_elong_EF1B_N_euk
IPR002867 - Znf_C6HC
IPR001876 - Znf_RanBP2
IPR001841 - Znf_RING
IPR017907 - Znf_RING_CS

Pfam Domains:
PF00641 - Zn-finger in Ran binding protein and others
PF01485 - IBR domain, a half RING-finger domain
PF09409 - PUB domain
PF16678 - HOIP UBA domain pair
PF18091 - E3 Ubiquitin Ligase RBR C-terminal domain
PF18486 - PNGase/UBA- or UBX-containing domain

SCOP Domains:
48695 - Multiheme cytochromes
46934 - UBA-like
143503 - PUG domain-like
90209 - Ran binding protein zinc finger-like
57850 - RING/U-box
57889 - Cysteine-rich domain

Protein Data Bank (PDB) 3-D Structure
MuPIT help
2CT7 - NMR MuPIT 4DBG - X-ray MuPIT


ModBase Predicted Comparative 3D Structure on Q96EP0
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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 orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
Gene DetailsGene Details    
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-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004842 ubiquitin-protein transferase activity
GO:0005515 protein binding
GO:0016740 transferase activity
GO:0031625 ubiquitin protein ligase binding
GO:0043130 ubiquitin binding
GO:0046872 metal ion binding

Biological Process:
GO:0000209 protein polyubiquitination
GO:0007249 I-kappaB kinase/NF-kappaB signaling
GO:0010803 regulation of tumor necrosis factor-mediated signaling pathway
GO:0023035 CD40 signaling pathway
GO:0043123 positive regulation of I-kappaB kinase/NF-kappaB signaling
GO:0050852 T cell receptor signaling pathway
GO:0051092 positive regulation of NF-kappaB transcription factor activity
GO:0097039 protein linear polyubiquitination
GO:1903955 positive regulation of protein targeting to mitochondrion

Cellular Component:
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:0009898 cytoplasmic side of plasma membrane
GO:0035631 CD40 receptor complex
GO:0071797 LUBAC complex


-  Descriptions from all associated GenBank mRNAs
  AY256461 - Homo sapiens zinc in-between-ring-finger ubiquitin-associated domain (ZIBRA) mRNA, complete cds.
AK291247 - Homo sapiens cDNA FLJ75313 complete cds, highly similar to Homo sapiens interferon-stimulated transcription factor 3, gamma 48kDa, mRNA.
JD345381 - Sequence 326405 from Patent EP1572962.
AK225832 - Homo sapiens mRNA for RING finger protein 31 variant, clone: FCC127F09.
AK000973 - Homo sapiens cDNA FLJ10111 fis, clone HEMBA1002696.
JD152150 - Sequence 133174 from Patent EP1572962.
BC012077 - Homo sapiens ring finger protein 31, mRNA (cDNA clone MGC:19975 IMAGE:4653017), complete cds.
JD459150 - Sequence 440174 from Patent EP1572962.
JD278147 - Sequence 259171 from Patent EP1572962.
JD466579 - Sequence 447603 from Patent EP1572962.
JD207181 - Sequence 188205 from Patent EP1572962.
AB385175 - Synthetic construct DNA, clone: pF1KB7009, Homo sapiens RNF31 gene for RING finger protein 31, complete cds, without stop codon, in Flexi system.
AB265810 - Homo sapiens hoip mRNA for ubiquitin ligase, complete cds.
AK122711 - Homo sapiens cDNA FLJ16199 fis, clone CTONG1000241, highly similar to RING finger protein 31.
AK055542 - Homo sapiens cDNA FLJ30980 fis, clone HHDPC2000149, highly similar to Mus musculus partial mRNA for muscle protein 534.
BC009821 - Homo sapiens ring finger protein 31, mRNA (cDNA clone IMAGE:3948483), partial cds.
BC017376 - Homo sapiens ring finger protein 31, mRNA (cDNA clone IMAGE:3835973), partial cds.
KJ902757 - Synthetic construct Homo sapiens clone ccsbBroadEn_12151 RNF31 gene, encodes complete protein.
AK027154 - Homo sapiens cDNA: FLJ23501 fis, clone LNG02837.
AK074144 - Homo sapiens mRNA for FLJ00217 protein.
AB384423 - Synthetic construct DNA, clone: pF1KSDF0217, Homo sapiens RNF31 gene for RING finger protein 31, complete cds, without stop codon, in Flexi system.
JD252802 - Sequence 233826 from Patent EP1572962.
JD519339 - Sequence 500363 from Patent EP1572962.

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

Protein Q96EP0 (Reactome details) participates in the following event(s):

R-HSA-5357904 TNF:TNFR1:TRADD:TRAF2:RIPK1 binds LUBAC
R-HSA-5661517 LUBAC comlex binds OTULIN
R-HSA-5357776 TNF:TNFR1:TRADD:TRAF2:K63polyUb-RIPK1:BIRC2,3:LUBAC recruits IKKA:IKBKB:IKBKG
R-HSA-5357956 TNFR1-induced NFkappaB signaling pathway
R-HSA-5357905 Regulation of TNFR1 signaling
R-HSA-75893 TNF signaling
R-HSA-73887 Death Receptor Signalling
R-HSA-162582 Signal Transduction

-  Other Names for This Gene
  Alternate Gene Symbols: A0A962, ENST00000324103.1, ENST00000324103.10, ENST00000324103.2, ENST00000324103.3, ENST00000324103.4, ENST00000324103.5, ENST00000324103.6, ENST00000324103.7, ENST00000324103.8, ENST00000324103.9, NM_017999, Q86VI2, Q8TEI0, Q96EP0, Q96GB4, Q96NF1, Q9H5F1, Q9NWD2, RNF31 , RNF31_HUMAN, uc317rpc.1, uc317rpc.2, ZIBRA
UCSC ID: ENST00000324103.11_5
RefSeq Accession: NM_017999.5
Protein: Q96EP0 (aka RNF31_HUMAN or RN31_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.