Reviewed,
UniProtKB/Swiss-Prot P40318 (SSM4_YEAST)
Last modified
June 16, 2009.
Version 78.
History...
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90%,
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Names and origin · Protein attributes · General annotation (Comments) · Ontologies · Binary interactions · Sequence annotation (Features) · Sequences · References · Cross-references · Entry information · Relevant documents
Names and origin
| Protein names | Recommended name: E3 ubiquitin-protein ligase Doa10 EC=6.3.2.- | ||||||||
| Gene names |
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| Organism | Saccharomyces cerevisiae (Baker's yeast) [Complete proteome] | ||||||||
| Taxonomic identifier | 4932 [NCBI] | ||||||||
| Taxonomic lineage | Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces |
Protein attributes
| Sequence length | 1319 AA. |
| Sequence status | Complete. |
| Sequence processing | The displayed sequence is not processed. |
| Protein existence | Evidence at protein level. |
General annotation (Comments)
| Function | Acts as an E3 ubiquitin-protein ligase which accepts ubiquitin specifically from endoplasmic reticulum-associated UBC6 and UBC7 E2 ligases, and transfers it to substrates promoting their degradation. Mediates the degradation of a broad range of substrates, inluding endoplasmic reticulum membrane proteins, soluble nuclear proteins and soluble cytoplasmic proteins. Part of the ERAD-C pathway responsible for the rapid degradation of membrane proteins with misfolded cytoplasmic domains. Ref.3 Ref.5 Ref.6 Ref.7 Ref.9 |
| Pathway | |
| Subunit structure | Part of the ERAD-C complex which contains SSM4, UBC7, CUE1, CDC48, NPL4, UFD1 AND SEL1/UBX2. Interacts with SEL1/UBX2. Interacts with UBC6 and UBC7. Ref.4 |
| Subcellular location | Endoplasmic reticulum membrane; Multi-pass membrane protein. Nucleus inner membrane; Multi-pass membrane protein. Ref.3 Ref.9 |
| Domain | The RING-CH-type zinc finger domain is required for E3 ligase activity. |
| Sequence similarities | Contains 1 RING-CH-type zinc finger. |
Ontologies
| Keywords | |
|---|---|
| Biological process | Ubl conjugation pathway |
| Cellular component | Endoplasmic reticulum Membrane Nucleus |
| Domain | Transmembrane Zinc-finger |
| Ligand | Metal-binding Zinc |
| Molecular function | Ligase |
| PTM | Phosphoprotein |
| Technical term | Complete proteome |
| Gene Ontology (GO) | |
| Biological process | ER-associated protein catabolic process Ref.3 Inferred from mutant phenotype. Source: SGD |
| Cellular component | Doa10p ubiquitin ligase complex Ref.6 Inferred from direct assay. Source: SGD integral to endoplasmic reticulum membrane Ref.3Inferred from direct assay. Source: SGD nuclear inner membrane Ref.9Inferred from direct assay. Source: SGD |
| Molecular function | protein binding Ref.4 Inferred from physical interaction. Source: IntAct ubiquitin-protein ligase activity Ref.3Inferred from direct assay. Source: SGD zinc ion bindingInferred from electronic annotation. Source: UniProtKB-KW |
| Complete GO annotation... | |
Binary interactions
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||
Molecule processing | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Chain | 1 – 1319 | 1319 | E3 ubiquitin-protein ligase Doa10 | PRO_0000072214 | |||||
Regions | |||||||||
| Topological domain | 1 – 131 | 131 | Cytoplasmic Potential | ||||||
| Transmembrane | 132 – 152 | 21 | Potential | ||||||
| Topological domain | 153 – 203 | 51 | Extracellular Potential | ||||||
| Transmembrane | 204 – 224 | 21 | Potential | ||||||
| Topological domain | 225 – 468 | 244 | Cytoplasmic Potential | ||||||
| Transmembrane | 469 – 489 | 21 | Potential | ||||||
| Topological domain | 490 – 491 | 2 | Extracellular Potential | ||||||
| Transmembrane | 492 – 512 | 21 | Potential | ||||||
| Topological domain | 513 – 626 | 114 | Cytoplasmic Potential | ||||||
| Transmembrane | 627 – 647 | 21 | Potential | ||||||
| Topological domain | 648 – 660 | 13 | Extracellular Potential | ||||||
| Transmembrane | 661 – 681 | 21 | Potential | ||||||
| Topological domain | 682 – 739 | 58 | Cytoplasmic Potential | ||||||
| Transmembrane | 740 – 760 | 21 | Potential | ||||||
| Topological domain | 761 – 965 | 205 | Extracellular Potential | ||||||
| Transmembrane | 966 – 986 | 21 | Potential | ||||||
| Topological domain | 987 – 988 | 2 | Cytoplasmic Potential | ||||||
| Transmembrane | 989 – 1009 | 21 | Potential | ||||||
| Topological domain | 1010 – 1019 | 10 | Extracellular Potential | ||||||
| Transmembrane | 1020 – 1040 | 21 | Potential | ||||||
| Topological domain | 1041 – 1113 | 73 | Cytoplasmic Potential | ||||||
| Transmembrane | 1114 – 1134 | 21 | Potential | ||||||
| Topological domain | 1135 – 1168 | 34 | Extracellular Potential | ||||||
| Transmembrane | 1169 – 1189 | 21 | Potential | ||||||
| Topological domain | 1190 – 1213 | 24 | Cytoplasmic Potential | ||||||
| Transmembrane | 1214 – 1234 | 21 | Potential | ||||||
| Topological domain | 1235 – 1270 | 36 | Extracellular Potential | ||||||
| Transmembrane | 1271 – 1291 | 21 | Potential | ||||||
| Topological domain | 1292 – 1319 | 28 | Cytoplasmic Potential | ||||||
| Zinc finger | 31 – 100 | 70 | RING-CH-type | ||||||
| Compositional bias | 288 – 291 | 4 | Poly-Ala | ||||||
| Compositional bias | 293 – 296 | 4 | Poly-Asn | ||||||
| Compositional bias | 332 – 341 | 10 | Asp/Gln/Ser-rich (acidic) | ||||||
| Compositional bias | 369 – 374 | 6 | Poly-Gln | ||||||
Amino acid modifications | |||||||||
| Modified residue | 897 | 1 | Phosphoserine Ref.10 | ||||||
Experimental info | |||||||||
| Sequence conflict | 241 | 1 | L → F in CAA54133. Ref.1 | ||||||
| Sequence conflict | 743 | 1 | A → T in CAA54133. Ref.1 | ||||||
| Sequence conflict | 1085 | 1 | N → D in CAA54133. Ref.1 | ||||||
| Sequence conflict | 1186 | 1 | Y → F in CAA54133. Ref.1 | ||||||
Sequences
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References
| « Hide 'large scale' references | |
| [1] | "Inactivation of SSM4, a new Saccharomyces cerevisiae gene, suppresses mRNA instability due to RNA14 mutations." Mandart E., Dufour M.-E., Lacroute F. Mol. Gen. Genet. 245:323-333(1994) [PubMed: 7816042] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 28383 / FL100 / VTT C-80102. |
| [2] | "The nucleotide sequence of Saccharomyces cerevisiae chromosome IX." Churcher C.M., Bowman S., Badcock K., Bankier A.T., Brown D., Chillingworth T., Connor R., Devlin K., Gentles S., Hamlin N., Harris D.E., Horsnell T., Hunt S., Jagels K., Jones M., Lye G., Moule S., Odell C.  Barrell B.G.Nature 387:84-87(1997) [PubMed: 9169870] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972. |
| [3] | "A conserved ubiquitin ligase of the nuclear envelope/endoplasmic reticulum that functions in both ER-associated and Matalpha2 repressor degradation." Swanson R., Locher M., Hochstrasser M. Genes Dev. 15:2660-2674(2001) [PubMed: 11641273] [Abstract] Cited for: FUNCTION, SUBCELLULAR LOCATION. |
| [4] | "Ubx2 links the Cdc48 complex to ER-associated protein degradation." Neuber O., Jarosch E., Volkwein C., Walter J., Sommer T. Nat. Cell Biol. 7:993-998(2005) [PubMed: 16179953] [Abstract] Cited for: INTERACTION WITH SEL1; UBC6 AND UBC7, IDENTIFICATION IN COMPLEX WITH SEL1 AND CDC48. |
| [5] | "Membrane-bound Ubx2 recruits Cdc48 to ubiquitin ligases and their substrates to ensure efficient ER-associated protein degradation." Schuberth C., Buchberger A. Nat. Cell Biol. 7:999-1006(2005) [PubMed: 16179952] [Abstract] Cited for: FUNCTION, IDENTIFICATION IN COMPLEX WITH SEL1; CDC48 AND UFD1. |
| [6] | "Distinct ubiquitin-ligase complexes define convergent pathways for the degradation of ER proteins." Carvalho P., Goder V., Rapoport T.A. Cell 126:361-373(2006) [PubMed: 16873066] [Abstract] Cited for: FUNCTION, IDENTIFICATION IN THE ERAD-C COMPLEX WITH UBC7; CUE1; CDC48, NPL4 AND SEL1. |
| [7] | "Membrane and soluble substrates of the Doa10 ubiquitin ligase are degraded by distinct pathways." Ravid T., Kreft S.G., Hochstrasser M. EMBO J. 25:533-543(2006) [PubMed: 16437165] [Abstract] Cited for: FUNCTION. |
| [8] | "Membrane topology of the yeast endoplasmic reticulum-localized ubiquitin ligase Doa10 and comparison with its human ortholog TEB4 (MARCH-VI)." Kreft S.G., Wang L., Hochstrasser M. J. Biol. Chem. 281:4646-4653(2006) [PubMed: 16373356] [Abstract] Cited for: TOPOLOGY. |
| [9] | "Spatially regulated ubiquitin ligation by an ER/nuclear membrane ligase." Deng M., Hochstrasser M. Nature 443:827-831(2006) [PubMed: 17051211] [Abstract] Cited for: SUBCELLULAR LOCATION, FUNCTION. |
| [10] | "A multidimensional chromatography technology for in-depth phosphoproteome analysis." Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H. Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed: 18407956] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-897, MASS SPECTROMETRY. |
| + | Additional computationally mapped references. |
Cross-references
Sequence databases | |
|---|---|
| X76715 Genomic DNA. Translation: CAA54133.1. Z46881 Genomic DNA. Translation: CAA86961.1. Z46861 Genomic DNA. Translation: CAA86921.1. | |
| PIR | S49951. |
| RefSeq | NP_012234.1. |
3D structure databases | |
| ModBase | Search... |
Protein-protein interaction databases | |
| DIP | DIP:7286N. |
| IntAct | P40318. 82 interactions. |
Proteomic databases | |
| PeptideAtlas | P40318. |
Genome annotation databases | |
| Ensembl | YIL030C. Saccharomyces cerevisiae. [Contig view] |
| GeneID | 854781. |
| GenomeReviews | Gene locus YIL030C in contig Z47047_GR. |
| KEGG | sce:YIL030C. |
| NMPDR | fig|4932.3.peg.1768. |
Organism-specific databases | |
| CYGD | YIL030c. |
| SGD | S000001292. SSM4. |
| Yeast-GFP | Search... |
Phylogenomic databases | |
| HOGENOM | P40318. |
| OMA | P40318. TIVYRPP. |
Gene expression databases | |
| ArrayExpress | P40318. |
| GermOnline | YIL030C. Saccharomyces cerevisiae. |
Family and domain databases | |
| InterPro | IPR018957. Znf_C3HC4_RING-type. IPR011016. Znf_RING-CH. [Graphical view] |
| Pfam | PF00097. zf-C3HC4. 1 hit. [Graphical view] |
| SMART | SM00744. RINGv. 1 hit. [Graphical view] |
| PROSITE | PS51292. ZF_RING_CH. 1 hit. [Graphical view] |
| ProtoNet | Search... |
Other Resources | |
| NextBio | 977562. |
Entry information
| Entry name | SSM4_YEAST | ||||||||
| Accession | Primary (citable) accession number: P40318 | ||||||||
| Entry history |
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| Entry status | Reviewed (UniProtKB/Swiss-Prot) | ||||||||
| Annotation project | FPAP (Fungal Proteome Annotation Project) | ||||||||
Relevant documents
| PATHWAY comments Index of metabolic and biosynthesis pathways |
| SIMILARITY comments Index of protein domains and families |
| Yeast Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD |
| Yeast chromosome IX Yeast (Saccharomyces cerevisiae) chromosome IX: entries and gene names |
