P78317 (RNF4_HUMAN) Reviewed, UniProtKB/Swiss-Prot
Last modified
May 1, 2013.
Version 120.
History...
Names·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order
Names·Attributes·General annotation·Ontologies·Alt products·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize orderNames and origin
| Protein names | Recommended name: E3 ubiquitin-protein ligase RNF4 EC=6.3.2.- Alternative name(s): RING finger protein 4 Small nuclear ring finger protein Short name=Protein SNURF | ||||||
| Gene names |
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| Organism | Homo sapiens (Human) [Reference proteome] | ||||||
| Taxonomic identifier | 9606 [NCBI] | ||||||
| Taxonomic lineage | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo![]() |
Protein attributes
| Sequence length | 190 AA. |
| Sequence status | Complete. |
| Protein existence | Evidence at protein level |
General annotation (Comments)
| Function | E3 ubiquitin-protein ligase which binds polysumoylated chains covalently attached to proteins and mediates 'Lys-6'-, 'Lys-11'-, 'Lys-48'- and 'Lys-63'-linked polyubiquitination of those substrates and their subsequent targeting to the proteasome for degradation. Regulates the degradation of several proteins including PML and the transcriptional activator PEA3. Involved in chromosome alignment and spindle assembly, it regulates the kinetochore CENPH-CENPI-CENPK complex by targeting polysumoylated CENPI to proteasomal degradation. Regulates the cellular responses to hypoxia and heat shock through degradation of respectively EPAS1 and PARP1. Alternatively, it may also bind DNA/nucleosomes and have a more direct role in the regulation of transcription for instance enhancing basal transcription and steroid receptor-mediated transcriptional activation. Ref.7 Ref.9 Ref.12 Ref.14 Ref.15 Ref.16 |
| Pathway | |
| Subunit structure | Homodimer (via RING-type zinc finger domain). Interacts with GSC2 By similarity. Interacts with AR/the androgen receptor and TBP By similarity. Interacts with TCF20 By similarity. Interacts with PATZ1. Interacts with TRPS1; negatively regulates TRPS1 transcriptional repressor activity. Interacts with PML; SUMO1-dependent. Interacts with PML; SUMO2-dependent. Interacts with PARP1. Interacts with PML (isoform PML-1, isoform PML-2, isoform PML-3, isoform PML-4, isoform PML-5 and isoform PML-6). Ref.6 Ref.7 Ref.8 Ref.11 Ref.15 Ref.17 |
| Subcellular location | Cytoplasm. Nucleus. Nucleus › PML body. Nucleus › nucleoplasm Ref.7 Ref.8 Ref.15. |
| Tissue specificity | Widely expressed at low levels in many tissues; highly expressed in testis. Ref.2 |
| Domain | The RING-type zinc finger domain is required for the ubiquitination of polysumoylated substrates By similarity. |
| Post-translational modification | Sumoylated; conjugated by one or two SUMO1 moieties By similarity. Autoubiquitinated By similarity. |
| Sequence similarities | Contains 1 RING-type zinc finger. |
Ontologies
Alternative products
| This entry describes 2 isoforms produced by alternative splicing. [Align] [Select] | ||||||
| Isoform 1 (identifier: P78317-1) This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. | ||||||
| Isoform 2 (identifier: P78317-2) The sequence of this isoform differs from the canonical sequence as follows: 72-113: ERRRPRRNAR...RDVYVTTHTP → GPQVLSVVPS...SSVASASVIP 114-190: Missing. | ||||||
| Note: No experimental confirmation available. |
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||||||||||||||||||
Molecule processing | |||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Chain | 1 – 190 | 190 | E3 ubiquitin-protein ligase RNF4 | PRO_0000056043 | |||||||||||||||||||||
Regions | |||||||||||||||||||||||||
| Zinc finger | 132 – 177 | 46 | RING-type | ||||||||||||||||||||||
| Region | 1 – 16 | 16 | Required for ubiquitination activity By similarity | ||||||||||||||||||||||
| Region | 4 – 61 | 58 | Mediates interaction with TRPS1 By similarity | ||||||||||||||||||||||
| Motif | 36 – 39 | 4 | SUMO interaction motif 1; mediates the binding to polysumoylated substrates | ||||||||||||||||||||||
| Motif | 46 – 49 | 4 | SUMO interaction motif 2; mediates the binding to polysumoylated substrates | ||||||||||||||||||||||
| Motif | 57 – 59 | 3 | SUMO interaction motif 3; mediates the binding to polysumoylated substrates | ||||||||||||||||||||||
| Motif | 67 – 70 | 4 | SUMO interaction motif 4; mediates the binding to polysumoylated substrates | ||||||||||||||||||||||
Amino acid modifications | |||||||||||||||||||||||||
| Modified residue | 94 | 1 | Phosphoserine Ref.10 Ref.13 | ||||||||||||||||||||||
| Modified residue | 95 | 1 | Phosphoserine Ref.10 Ref.13 | ||||||||||||||||||||||
Natural variations | |||||||||||||||||||||||||
| Alternative sequence | 72 – 113 | 42 | ERRRP…TTHTP → GPQVLSVVPSAWTDTQRSCR MDVSSFPQNAAMSSVASASV IP in isoform 2. | VSP_045789 | |||||||||||||||||||||
| Alternative sequence | 114 – 190 | 77 | Missing in isoform 2. | VSP_045790 | |||||||||||||||||||||
Secondary structure | |||||||||||||||||||||||||
Helix Strand Turn | |||||||||||||||||||||||||
| Turn | 133 – 135 | 3 | |||||||||||||||||||||||
| Helix | 139 – 144 | 6 | |||||||||||||||||||||||
| Beta strand | 149 – 152 | 4 | |||||||||||||||||||||||
| Beta strand | 153 – 155 | 3 | |||||||||||||||||||||||
| Beta strand | 157 – 159 | 3 | |||||||||||||||||||||||
| Helix | 160 – 169 | 10 | |||||||||||||||||||||||
| Turn | 174 – 176 | 3 | |||||||||||||||||||||||
| Turn | 181 – 183 | 3 | |||||||||||||||||||||||
| Beta strand | 185 – 187 | 3 | |||||||||||||||||||||||
Sequences
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References
| « Hide 'large scale' references | |
| [1] | "The primary structure and genomic organization of five novel transcripts located close to the Huntington's disease gene on human chromosome 4p16.3." Hadano S., Ishida Y., Ikeda J.-E. DNA Res. 5:177-186(1998) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1). Tissue: Brain. |
| [2] | "Identification and characterization of a novel RING-finger gene (RNF4) mapping at 4p16.3." Chiariotti L., Benvenuto G., Fedele M., Santoro M., Simeone A., Fusco A., Bruni C.B. Genomics 47:258-265(1998) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1), TISSUE SPECIFICITY. Tissue: Brain. |
| [3] | "Complete sequencing and characterization of 21,243 full-length human cDNAs." Ota T., Suzuki Y., Nishikawa T., Otsuki T., Sugiyama T., Irie R., Wakamatsu A., Hayashi K., Sato H., Nagai K., Kimura K., Makita H., Sekine M., Obayashi M., Nishi T., Shibahara T., Tanaka T., Ishii S. Sugano S.Nat. Genet. 36:40-45(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORMS 1 AND 2). Tissue: Hair follicle dermal papilla, Testis and Tongue. |
| [4] | "Generation and annotation of the DNA sequences of human chromosomes 2 and 4." Hillier L.W., Graves T.A., Fulton R.S., Fulton L.A., Pepin K.H., Minx P., Wagner-McPherson C., Layman D., Wylie K., Sekhon M., Becker M.C., Fewell G.A., Delehaunty K.D., Miner T.L., Nash W.E., Kremitzki C., Oddy L., Du H. Wilson R.K.Nature 434:724-731(2005) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. |
| [5] | "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)." The MGC Project Team Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1). Tissue: Testis. |
| [6] | "A novel member of the BTB/POZ family, PATZ, associates with the RNF4 RING finger protein and acts as a transcriptional repressor." Fedele M., Benvenuto G., Pero R., Majello B., Battista S., Lembo F., Vollono E., Day P.M., Santoro M., Lania L., Bruni C.B., Fusco A., Chiatiotti L. J. Biol. Chem. 275:7894-7901(2000) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH PATZ1. |
| [7] | "The RING finger protein RNF4, a co-regulator of transcription, interacts with the TRPS1 transcription factor." Kaiser F.J., Moeroey T., Chang G.T., Horsthemke B., Luedecke H.J. J. Biol. Chem. 278:38780-38785(2003) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, INTERACTION WITH TRPS1, SUBCELLULAR LOCATION. |
| [8] | "SUMO-1 promotes association of SNURF (RNF4) with PML nuclear bodies." Haekli M., Karvonen U., Jaenne O.A., Palvimo J.J. Exp. Cell Res. 304:224-233(2005) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH PML, SUBCELLULAR LOCATION. |
| [9] | "RNF4 is a poly-SUMO-specific E3 ubiquitin ligase required for arsenic-induced PML degradation." Tatham M.H., Geoffroy M.C., Shen L., Plechanovova A., Hattersley N., Jaffray E.G., Palvimo J.J., Hay R.T. Nat. Cell Biol. 10:538-546(2008) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION. |
| [10] | "A quantitative atlas of mitotic phosphorylation." Dephoure N., Zhou C., Villen J., Beausoleil S.A., Bakalarski C.E., Elledge S.J., Gygi S.P. Proc. Natl. Acad. Sci. U.S.A. 105:10762-10767(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-94 AND SER-95, MASS SPECTROMETRY. Tissue: Cervix carcinoma. |
| [11] | "PARP-1 transcriptional activity is regulated by sumoylation upon heat shock." Martin N., Schwamborn K., Schreiber V., Werner A., Guillier C., Zhang X.D., Bischof O., Seeler J.S., Dejean A. EMBO J. 28:3534-3548(2009) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH PARP1. |
| [12] | "Extracellular signal-regulated kinase mitogen-activated protein kinase signaling initiates a dynamic interplay between sumoylation and ubiquitination to regulate the activity of the transcriptional activator PEA3." Guo B., Sharrocks A.D. Mol. Cell. Biol. 29:3204-3218(2009) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION. |
| [13] | "Quantitative phosphoproteomic analysis of T cell receptor signaling reveals system-wide modulation of protein-protein interactions." Mayya V., Lundgren D.H., Hwang S.-I., Rezaul K., Wu L., Eng J.K., Rodionov V., Han D.K. Sci. Signal. 2:RA46-RA46(2009) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-94 AND SER-95, MASS SPECTROMETRY. Tissue: Leukemic T-cell. |
| [14] | "The SUMO protease SENP6 is essential for inner kinetochore assembly." Mukhopadhyay D., Arnaoutov A., Dasso M. J. Cell Biol. 188:681-692(2010) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION. |
| [15] | "Arsenic-induced SUMO-dependent recruitment of RNF4 into PML nuclear bodies." Geoffroy M.C., Jaffray E.G., Walker K.J., Hay R.T. Mol. Biol. Cell 21:4227-4239(2010) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, INTERACTION WITH SUMOYLATED PML, SUBCELLULAR LOCATION. |
| [16] | "RNF4 and VHL regulate the proteasomal degradation of SUMO-conjugated Hypoxia-Inducible Factor-2alpha." van Hagen M., Overmeer R.M., Abolvardi S.S., Vertegaal A.C. Nucleic Acids Res. 38:1922-1931(2010) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION. |
| [17] | "Requirement of PML SUMO interacting motif for RNF4- or arsenic trioxide-induced degradation of nuclear PML isoforms." Maroui M.A., Kheddache-Atmane S., El Asmi F., Dianoux L., Aubry M., Chelbi-Alix M.K. PLoS ONE 7:E44949-E44949(2012) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH PML. |
| [18] | "Solution structure of the RING domain of the human RING finger protein 4." RIKEN structural genomics initiative (RSGI) Submitted (JUL-2007) to the PDB data bank Cited for: STRUCTURE BY NMR OF 122-183. |
| + | Additional computationally mapped references. |
Cross-references
Sequence databases | |||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| EMBL GenBank DDBJ | AB000468 mRNA. Translation: BAA19122.1. U95140 mRNA. Translation: AAC52022.1. AK128038 mRNA. Translation: BAG54620.1. AK309509 mRNA. No translation available. AK312534 mRNA. Translation: BAG35433.1. AL110117 Genomic DNA. No translation available. AL645924 Genomic DNA. No translation available. BX322586 Genomic DNA. No translation available. CR450722 Genomic DNA. No translation available. CR545473 Genomic DNA. No translation available. BC031935 mRNA. Translation: AAH31935.1. | ||||||||||||||||||
| IPI | IPI00297694. IPI00965645. | ||||||||||||||||||
| RefSeq | NP_001171938.1. NM_001185009.2. NP_001171939.1. NM_001185010.2. NP_002929.1. NM_002938.4. | ||||||||||||||||||
| UniGene | Hs.740360. | ||||||||||||||||||
3D structure databases | |||||||||||||||||||
| PDBe RCSB PDB PDBj |
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| ProteinModelPortal | P78317. | ||||||||||||||||||
| ModBase | Search... | ||||||||||||||||||
Protein-protein interaction databases | |||||||||||||||||||
| IntAct | P78317. 14 interactions. | ||||||||||||||||||
| MINT | MINT-271054. | ||||||||||||||||||
| STRING | 9606.ENSP00000315212. | ||||||||||||||||||
PTM databases | |||||||||||||||||||
| PhosphoSite | P78317. | ||||||||||||||||||
Polymorphism databases | |||||||||||||||||||
| DMDM | 18202358. | ||||||||||||||||||
Proteomic databases | |||||||||||||||||||
| PaxDb | P78317. | ||||||||||||||||||
| PRIDE | P78317. | ||||||||||||||||||
Protocols and materials databases | |||||||||||||||||||
| DNASU | 6047. | ||||||||||||||||||
| StructuralBiologyKnowledgebase | Search... | ||||||||||||||||||
Genome annotation databases | |||||||||||||||||||
| Ensembl | ENST00000314289; ENSP00000315212; ENSG00000063978. ENST00000506706; ENSP00000424076; ENSG00000063978. ENST00000511600; ENSP00000426503; ENSG00000063978. ENST00000511859; ENSP00000426615; ENSG00000063978. | ||||||||||||||||||
| GeneID | 6047. | ||||||||||||||||||
| KEGG | hsa:6047. | ||||||||||||||||||
| UCSC | uc003gfb.3. human. | ||||||||||||||||||
Organism-specific databases | |||||||||||||||||||
| CTD | 6047. | ||||||||||||||||||
| GeneCards | GC04P002463. | ||||||||||||||||||
| HGNC | HGNC:10067. RNF4. | ||||||||||||||||||
| HPA | HPA049356. | ||||||||||||||||||
| MIM | 602850. gene. | ||||||||||||||||||
| neXtProt | NX_P78317. | ||||||||||||||||||
| PharmGKB | PA34439. | ||||||||||||||||||
| GenAtlas | Search... | ||||||||||||||||||
Phylogenomic databases | |||||||||||||||||||
| eggNOG | NOG327779. | ||||||||||||||||||
| HOGENOM | HOG000059548. | ||||||||||||||||||
| HOVERGEN | HBG018577. | ||||||||||||||||||
| InParanoid | P78317. | ||||||||||||||||||
| OMA | THRQYHP. | ||||||||||||||||||
| OrthoDB | EOG4S4PHN. | ||||||||||||||||||
Enzyme and pathway databases | |||||||||||||||||||
| Reactome | REACT_6900. Immune System. | ||||||||||||||||||
| UniPathway | UPA00143. | ||||||||||||||||||
Gene expression databases | |||||||||||||||||||
| ArrayExpress | P78317. | ||||||||||||||||||
| Bgee | P78317. | ||||||||||||||||||
| CleanEx | HS_RNF4. | ||||||||||||||||||
| Genevestigator | P78317. | ||||||||||||||||||
| GermOnline | ENSG00000063978. Homo sapiens. | ||||||||||||||||||
Family and domain databases | |||||||||||||||||||
| Gene3D | 3.30.40.10. 1 hit. | ||||||||||||||||||
| InterPro | IPR001841. Znf_RING. IPR013083. Znf_RING/FYVE/PHD. IPR017907. Znf_RING_CS. [Graphical view] | ||||||||||||||||||
| Pfam | PF13639. zf-RING_2. 1 hit. [Graphical view] | ||||||||||||||||||
| SMART | SM00184. RING. 1 hit. [Graphical view] | ||||||||||||||||||
| PROSITE | PS00518. ZF_RING_1. 1 hit. PS50089. ZF_RING_2. 1 hit. [Graphical view] | ||||||||||||||||||
| ProtoNet | Search... | ||||||||||||||||||
Other | |||||||||||||||||||
| ChiTaRS | RNF4. human. | ||||||||||||||||||
| EvolutionaryTrace | P78317. | ||||||||||||||||||
| GenomeRNAi | 6047. | ||||||||||||||||||
| NextBio | 23561. | ||||||||||||||||||
| SOURCE | Search... | ||||||||||||||||||
Entry information
| Entry name | RNF4_HUMAN | ||||||||
| Accession | Primary (citable) accession number: P78317 Secondary accession number(s): B2R6D6, D6RF58, Q49AR8 | ||||||||
| Entry history |
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| Entry status | Reviewed (UniProtKB/Swiss-Prot) | ||||||||
| Annotation program | Chordata Protein Annotation Program | ||||||||
| Disclaimer | Any medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care. | ||||||||
Relevant documents
| Human chromosome 4 Human chromosome 4: entries, gene names and cross-references to MIM |
| MIM cross-references Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot |
| PATHWAY comments Index of metabolic and biosynthesis pathways |
| PDB cross-references Index of Protein Data Bank (PDB) cross-references |
| SIMILARITY comments Index of protein domains and families |

Clusters with
