Reviewed,
UniProtKB/Swiss-Prot P55036 (PSMD4_HUMAN)
Last modified
July 7, 2009.
Version 96.
History...
Clusters with 100%,
90%,
50% identity |
Documents (4) |
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Names and origin
| Protein names | Recommended name: 26S proteasome non-ATPase regulatory subunit 4 Alternative name(s): 26S proteasome regulatory subunit S5A Rpn10 Multiubiquitin chain-binding protein Antisecretory factor 1 Short name=ASF Short name=AF | ||||
| Gene names |
| ||||
| Organism | Homo sapiens (Human) [Complete 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 | 377 AA. |
| Sequence status | Complete. |
| Sequence processing | The displayed sequence is further processed into a mature form. |
| Protein existence | Evidence at protein level. |
General annotation (Comments)
| Function | Binds and presumably selects ubiquitin-conjugates for destruction. Displays selectivity for longer polyubiquitin chains. Modulates intestinal fluid secretion. |
| Subunit structure | The 26S proteasome is composed of a core protease, known as the 20S proteasome, capped at one or both ends by the 19S regulatory complex (RC). The RC is composed of at least 18 different subunits in two subcomplexes, the base and the lid, which form the portions proximal and distal to the 20S proteolytic core, respectively. Directly interacts with NUB1. Interacts with SQSTM1. Ref.10 Ref.12 |
| Domain | The 2 UIM motifs are involved in the binding to a multi-ubiquitin chain in a cooperative way. Ref.17 Ref.18 |
| Post-translational modification | Phosphorylated upon DNA damage, probably by ATM or ATR. Ref.13 Ref.14 Ref.15 |
| Sequence similarities | Belongs to the proteasome subunit S5A family. Contains 2 UIM (ubiquitin-interacting motif) repeats. Contains 1 VWFA domain. |
Ontologies
| Keywords | |
|---|---|
| Cellular component | Proteasome |
| Coding sequence diversity | Alternative splicing |
| Domain | Repeat |
| PTM | Phosphoprotein |
| Technical term | 3D-structure Complete proteome Direct protein sequencing |
| Gene Ontology (GO) | |
| Biological process | anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process Inferred from Experiment. Source: Reactome negative regulation of ubiquitin-protein ligase activity during mitotic cell cycleInferred from Experiment. Source: Reactome positive regulation of ubiquitin-protein ligase activity during mitotic cell cycleInferred from Experiment. Source: Reactome |
| Cellular component | cytosol Inferred from electronic annotation. Source: UniProtKB-KW proteasome complexTraceable author statement. Source: ProtInc |
| Molecular function | protein binding Inferred from physical interaction. Source: IntAct |
| Complete GO annotation... | |
Binary interactions
With | Entry | #Exp. | IntAct | Notes |
|---|---|---|---|---|
| ID1 | P41134 | 1 | EBI-359318,EBI-1215527 | |
| Pax3 | P24610 | 1 | EBI-359318,EBI-1208116 | From a different organism. |
| PSMD10 | O75832 | 1 | EBI-359318,EBI-752185 | |
| PSMD6 | Q15008 | 1 | EBI-359318,EBI-359701 |
Alternative products
| This entry describes 2 isoforms produced by alternative splicing. [Align] [Select] Note: Additional isoforms seem to exist. | ||||||
| Isoform Rpn10A (identifier: P55036-1) 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 Rpn10E (identifier: P55036-2) The sequence of this isoform differs from the canonical sequence as follows: 255-268: DSDDALLKMTISQQ → GERGGIRSPGTAGC 269-377: Missing. | ||||||
| Note: May be produced at very low levels due to a premature stop codon in the mRNA, leading to nonsense-mediated mRNA decay. |
Sequence annotation (Features)
| Feature key | Position(s) | Length | Description | Graphical view | Feature identifier | ||||||||||||||||||
Molecule processing | |||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| Initiator methionine | 1 | 1 | Removed Ref.13 | ||||||||||||||||||||
| Chain | 2 – 377 | 376 | 26S proteasome non-ATPase regulatory subunit 4 | PRO_0000173828 | |||||||||||||||||||
Regions | |||||||||||||||||||||||
| Domain | 5 – 188 | 184 | VWFA | ||||||||||||||||||||
| Repeat | 211 – 230 | 20 | UIM 1 | ||||||||||||||||||||
| Repeat | 282 – 301 | 20 | UIM 2 | ||||||||||||||||||||
| Region | 216 – 220 | 5 | Essential for ubiquitin-binding | ||||||||||||||||||||
| Region | 287 – 291 | 5 | Essential for ubiquitin-binding | ||||||||||||||||||||
| Compositional bias | 238 – 246 | 9 | Poly-Ala | ||||||||||||||||||||
Amino acid modifications | |||||||||||||||||||||||
| Modified residue | 250 | 1 | Phosphothreonine By similarity | ||||||||||||||||||||
| Modified residue | 256 | 1 | Phosphoserine By similarity | ||||||||||||||||||||
| Modified residue | 266 | 1 | Phosphoserine Ref.13 Ref.14 Ref.15 | ||||||||||||||||||||
| Modified residue | 358 | 1 | Phosphoserine Ref.13 | ||||||||||||||||||||
| Modified residue | 361 | 1 | Phosphoserine Ref.13 | ||||||||||||||||||||
Natural variations | |||||||||||||||||||||||
| Alternative sequence | 255 – 268 | 14 | DSDDA…TISQQ → GERGGIRSPGTAGC in isoform Rpn10E. | VSP_005291 | |||||||||||||||||||
| Alternative sequence | 269 – 377 | 109 | Missing in isoform Rpn10E. | VSP_005292 | |||||||||||||||||||
Secondary structure | |||||||||||||||||||||||
Helix Strand Turn | |||||||||||||||||||||||
| Beta strand | 201 – 203 | 3 | |||||||||||||||||||||
| Helix | 210 – 212 | 3 | |||||||||||||||||||||
| Helix | 214 – 244 | 31 | |||||||||||||||||||||
| Beta strand | 245 – 249 | 5 | |||||||||||||||||||||
| Helix | 257 – 272 | 16 | |||||||||||||||||||||
| Beta strand | 273 – 275 | 3 | |||||||||||||||||||||
| Helix | 278 – 294 | 17 | |||||||||||||||||||||
| Beta strand | 296 – 300 | 5 | |||||||||||||||||||||
Sequences
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References
| « Hide 'large scale' references | |
| [1] | "Molecular cloning and expression of a pituitary gland protein modulating intestinal fluid secretion." Johansson E., Loennroth I., Lange S., Jonson I., Jennische E., Loennroth C. J. Biol. Chem. 270:20615-20620(1995) [PubMed: 7657640] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], PROTEIN SEQUENCE OF 63-75 AND 130-140. Tissue: Pituitary. |
| [2] | Loennroth I. Submitted (MAY-1997) to the EMBL/GenBank/DDBJ databases Cited for: SEQUENCE REVISION. |
| [3] | "Molecular cloning and expression of a multiubiquitin chain binding subunit of the human 26S protease." Ferrell K., Deveraux Q., van Nocker S., Rechsteiner M. FEBS Lett. 381:143-148(1996) [PubMed: 8641424] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], PARTIAL PROTEIN SEQUENCE. |
| [4] | "Developmentally regulated, alternative splicing of the Rpn10 gene generates multiple forms of 26S proteasomes." Kawahara H., Kasahara M., Nishiyama A., Ohsumi K., Goto T., Kishimoto T., Saeki Y., Yokosawa H., Shimbara N., Murata S., Chiba T., Suzuki K., Tanaka K. EMBO J. 19:4144-4153(2000) [PubMed: 10921894] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], ALTERNATIVE SPLICING. Tissue: Fetal brain. |
| [5] | "The DNA sequence and biological annotation of human chromosome 1." Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K. Bentley D.R.Nature 441:315-321(2006) [PubMed: 16710414] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. |
| [6] | "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: 15489334] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Liver and Lung. |
| [7] | "Proteolysis of presenilin 1 is associated with the 26S proteasome and is altered in Alzheimer's disease." Fraser P.E., Levesque G., Rogaeva E.A., Yu G., St George-Hyslop P.H. Submitted (SEP-1996) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 70-377. Tissue: Brain. |
| [8] | "Purification and characterization of the antisecretory factor: a protein in the central nervous system and in the gut which inhibits intestinal hypersecretion induced by cholera toxin." Loennroth I., Lange S. Biochim. Biophys. Acta 883:138-144(1986) [PubMed: 3524692] [Abstract] Cited for: CHARACTERIZATION. |
| [9] | "Characterization of two polyubiquitin binding sites in the 26 S protease subunit 5a." Young P., Deveraux Q., Beal R.E., Pickart C.M., Rechsteiner M. J. Biol. Chem. 273:5461-5467(1998) [PubMed: 9488668] [Abstract] Cited for: POLYUBIQUITIN BINDING SITES. |
| [10] | "Targeting of NEDD8 and its conjugates for proteasomal degradation by NUB1." Kamitani T., Kito K., Fukuda-Kamitani T., Yeh E.T.H. J. Biol. Chem. 276:46655-46660(2001) [PubMed: 11585840] [Abstract] Cited for: INTERACTION WITH NUB1. |
| [11] | "An unappreciated role for RNA surveillance." Hillman R.T., Green R.E., Brenner S.E. Genome Biol. 5:RESEARCH008.1-RESEARCH008.16(2004) [PubMed: 14759258] [Abstract] Cited for: SPLICE ISOFORM(S) THAT ARE POTENTIAL NMD TARGET(S). |
| [12] | "Sequestosome 1/p62 is a polyubiquitin chain binding protein involved in ubiquitin proteasome degradation." Seibenhener M.L., Babu J.R., Geetha T., Wong H.C., Krishna N.R., Wooten M.W. Mol. Cell. Biol. 24:8055-8068(2004) [PubMed: 15340068] [Abstract] Cited for: INTERACTION WITH SQSTM1. |
| [13] | "Mass spectrometric characterization of the affinity-purified human 26S proteasome complex." Wang X., Chen C.-F., Baker P.R., Chen P.-L., Kaiser P., Huang L. Biochemistry 46:3553-3565(2007) [PubMed: 17323924] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-266; SER-358 AND SER-361, CLEAVAGE OF INITIATOR METHIONINE, MASS SPECTROMETRY. |
| [14] | "ATM and ATR substrate analysis reveals extensive protein networks responsive to DNA damage." Matsuoka S., Ballif B.A., Smogorzewska A., McDonald E.R. III, Hurov K.E., Luo J., Bakalarski C.E., Zhao Z., Solimini N., Lerenthal Y., Shiloh Y., Gygi S.P., Elledge S.J. Science 316:1160-1166(2007) [PubMed: 17525332] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-266, MASS SPECTROMETRY. |
| [15] | "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: 18669648] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-266, MASS SPECTROMETRY. |
| [16] | Colinge J., Superti-Furga G., Bennett K.L. Submitted (OCT-2008) to UniProtKB Cited for: IDENTIFICATION [LARGE SCALE ANALYSIS], MASS SPECTROMETRY. |
| [17] | "Structural determinants for the binding of ubiquitin-like domains to the proteasome." Mueller T.D., Feigon J. EMBO J. 22:4634-4645(2003) [PubMed: 12970176] [Abstract] Cited for: STRUCTURE BY NMR OF 263-306 IN COMPLEX WITH HR23A UBIQUITIN-LIKE DOMAIN. |
| [18] | "Structure of the ubiquitin-interacting motif of S5a bound to the ubiquitin-like domain of HR23B." Fujiwara K., Tenno T., Sugasawa K., Jee J.-G., Ohki I., Kojima C., Tochio H., Hiroaki H., Hanaoka F., Shirakawa M. J. Biol. Chem. 279:4760-4767(2004) [PubMed: 14585839] [Abstract] Cited for: STRUCTURE BY NMR OF 260-307 IN COMPLEX WITH HR23B UBIQUITIN-LIKE DOMAIN. |
| + | Additional computationally mapped references. |
Cross-references
Sequence databases | |||||||||||||||||||||||||||||||||||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| U51007 mRNA. Translation: AAC50433.1. U24704 mRNA. Translation: AAB54057.1. AB033605 mRNA. Translation: BAA97581.1. AL391069, AL592424 Genomic DNA. Translation: CAH70329.1. AL592424, AL391069 Genomic DNA. Translation: CAI16390.1. BC002365 mRNA. Translation: AAH02365.1. BC072008 mRNA. Translation: AAH72008.1. U72664 mRNA. Translation: AAB68598.1. | |||||||||||||||||||||||||||||||||||||||||||
| IPI | IPI00022694. IPI00216247. | ||||||||||||||||||||||||||||||||||||||||||
| PIR | S63671. | ||||||||||||||||||||||||||||||||||||||||||
| RefSeq | NP_002801.1. | ||||||||||||||||||||||||||||||||||||||||||
| UniGene | Hs.505059 | ||||||||||||||||||||||||||||||||||||||||||
3D structure databases | |||||||||||||||||||||||||||||||||||||||||||
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| ModBase | Search... | ||||||||||||||||||||||||||||||||||||||||||
Protein-protein interaction databases | |||||||||||||||||||||||||||||||||||||||||||
| IntAct | P55036. 14 interactions. | ||||||||||||||||||||||||||||||||||||||||||
PTM databases | |||||||||||||||||||||||||||||||||||||||||||
| PhosphoSite | P55036. | ||||||||||||||||||||||||||||||||||||||||||
Proteomic databases | |||||||||||||||||||||||||||||||||||||||||||
| PRIDE | P55036. | ||||||||||||||||||||||||||||||||||||||||||
Genome annotation databases | |||||||||||||||||||||||||||||||||||||||||||
| Ensembl | ENSG00000159352. Homo sapiens. [Contig view] | ||||||||||||||||||||||||||||||||||||||||||
| GeneID | 5710. | ||||||||||||||||||||||||||||||||||||||||||
| KEGG | hsa:5710. | ||||||||||||||||||||||||||||||||||||||||||
| NMPDR | fig|9606.3.peg.2018. | ||||||||||||||||||||||||||||||||||||||||||
| UCSC | uc001exl.1. human. | ||||||||||||||||||||||||||||||||||||||||||
Organism-specific databases | |||||||||||||||||||||||||||||||||||||||||||
| GeneCards | GC01P149493. | ||||||||||||||||||||||||||||||||||||||||||
| H-InvDB | HIX0001054. | ||||||||||||||||||||||||||||||||||||||||||
| HGNC | HGNC:9561. PSMD4. | ||||||||||||||||||||||||||||||||||||||||||
| MIM | 601648. gene. | ||||||||||||||||||||||||||||||||||||||||||
| PharmGKB | PA33907. | ||||||||||||||||||||||||||||||||||||||||||
| GenAtlas | Search... | ||||||||||||||||||||||||||||||||||||||||||
Phylogenomic databases | |||||||||||||||||||||||||||||||||||||||||||
| HOVERGEN | P55036. | ||||||||||||||||||||||||||||||||||||||||||
Enzyme and pathway databases | |||||||||||||||||||||||||||||||||||||||||||
| Reactome | REACT_11045. Signaling by Wnt. REACT_13. Metabolism of amino acids. REACT_13635. Regulation of activated PAK-2p34 by proteasome mediated degradation. REACT_152. Cell Cycle, Mitotic. REACT_1538. Cell Cycle Checkpoints. REACT_383. DNA Replication. REACT_578. Apoptosis. REACT_6185. HIV Infection. REACT_6850. Cdc20:Phospho-APC/C mediated degradation of Cyclin A. REACT_9035. APC/C:Cdh1-mediated degradation of Skp2. | ||||||||||||||||||||||||||||||||||||||||||
Gene expression databases | |||||||||||||||||||||||||||||||||||||||||||
| Bgee | P55036. | ||||||||||||||||||||||||||||||||||||||||||
| CleanEx | HS_PSMD4. | ||||||||||||||||||||||||||||||||||||||||||
| GermOnline | ENSG00000159352. Homo sapiens. | ||||||||||||||||||||||||||||||||||||||||||
Family and domain databases | |||||||||||||||||||||||||||||||||||||||||||
| InterPro | IPR003903. Ubiquitin-int_motif. IPR002035. VWF_A. [Graphical view] | ||||||||||||||||||||||||||||||||||||||||||
| Pfam | PF02809. UIM. 2 hits. [Graphical view] | ||||||||||||||||||||||||||||||||||||||||||
| SMART | SM00726. UIM. 2 hits. SM00327. VWA. 1 hit. [Graphical view] | ||||||||||||||||||||||||||||||||||||||||||
| PROSITE | PS50330. UIM. 2 hits. PS50234. VWFA. 1 hit. [Graphical view] | ||||||||||||||||||||||||||||||||||||||||||
| ProtoNet | Search... | ||||||||||||||||||||||||||||||||||||||||||
Other Resources | |||||||||||||||||||||||||||||||||||||||||||
| NextBio | 22186. | ||||||||||||||||||||||||||||||||||||||||||
| SOURCE | Search... | ||||||||||||||||||||||||||||||||||||||||||
Entry information
| Entry name | PSMD4_HUMAN | ||||||||
| Accession | Primary (citable) accession number: P55036 Secondary accession number(s): Q5VWC5, Q9NS92 | ||||||||
| Entry history |
| ||||||||
| Entry status | Reviewed (UniProtKB/Swiss-Prot) | ||||||||
| Annotation project | HPI (Human Proteome Initiative) | ||||||||
Relevant documents
| Human chromosome 1 Human chromosome 1: entries, gene names and cross-references to MIM |
| MIM cross-references Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot |
| PDB cross-references Index of Protein Data Bank (PDB) cross-references |
| SIMILARITY comments Index of protein domains and families |

Clusters with


