O94742 (SEM1_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
26S proteasome complex subunit SEM1

Gene names

Name:	SEM1
Synonyms:	DSH1
Ordered Locus Names:	YDR363W-A

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces

Protein attributes

Sequence length	89 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Versatile protein that might stabilize multiple protein complexes involved in diverse pathways. Subunit of the 26S proteasome which plays a role in ubiquitin-dependent proteolysis. Associates also with the TREX-2 complex that is required for transcription-coupled mRNA export, and the COP9 signalosome, which is involved in deneddylation. Ref.8 Ref.9
Subunit structure	Part of the 26S proteasome. Associates with the nuclear pore complex (NPC)-associated TREX-2 complex and the COP9 signalosome. Interacts with CSN12 and THP3. Ref.6 Ref.8
Disruption phenotype	Impairs mRNA export and transcription elongation, and induces strong transcription-associated hyperrecombination phenotypes. Ref.8
Miscellaneous	Present with 5590 molecules/cell in log phase SD medium. Ref.7
Sequence similarities	Belongs to the DSS1/SEM1 family.

Ontologies

Keywords
Biological process	Transcription
Cellular component	Proteasome
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	exocytosis Inferred from genetic interaction Ref.1. Source: SGD filamentous growth Inferred from mutant phenotype Ref.1. Source: SGD mRNA export from nucleus Inferred from mutant phenotype Ref.6. Source: SGD proteasomal ubiquitin-dependent protein catabolic process Inferred from direct assay Ref.9. Source: SGD proteasome assembly Inferred from mutant phenotype. Source: SGD regulation of cell cycle Inferred from mutant phenotype. Source: SGD transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	microsome Inferred from direct assay Ref.1. Source: SGD nucleus Inferred from physical interaction. Source: SGD proteasome regulatory particle, lid subcomplex Inferred from direct assay Ref.9. Source: SGD proteasome storage granule Inferred from direct assay. Source: SGD
Molecular function	protein binding Inferred from physical interaction. Source: IntAct
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
HSM3	P38348	2	EBI-31337,EBI-21152

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 89	89	26S proteasome complex subunit SEM1		PRO_0000122970

Sequences

	Sequence		Length	Mass (Da)
	O94742 [UniParc]. Last modified May 1, 1999. Version 1. Checksum: B66B578ABB01E672	FASTA	89	10,386
	10 20 30 40 50 60 MSTDVAAAQA QSKIDLTKKK NEEINKKSLE EDDEFEDFPI DTWANGETIK SNAVTQTNIW 70 80 EENWDDVEVD DDFTNELKAE LDRYKRENQ

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"SEM1, a homologue of the split hand/split foot malformation candidate gene Dss1, regulates exocytosis and pseudohyphal differentiation in yeast." Jantti J., Lahdenranta J., Olkkonen V.M., Soderlund H., Keranen S. Proc. Natl. Acad. Sci. U.S.A. 96:909-914(1999) [PubMed: 9927667] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[2]	DeHoratius C., Green M.R. Submitted (MAY-1998) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 90840 / EAY235 / FY23.
[3]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome IV." Jacq C., Alt-Moerbe J., Andre B., Arnold W., Bahr A., Ballesta J.P.G., Bargues M., Baron L., Becker A., Biteau N., Bloecker H., Blugeon C., Boskovic J., Brandt P., Brueckner M., Buitrago M.J., Coster F., Delaveau T. , del Rey F., Dujon B., Eide L.G., Garcia-Cantalejo J.M., Goffeau A., Gomez-Peris A., Granotier C., Hanemann V., Hankeln T., Hoheisel J.D., Jaeger W., Jimenez A., Jonniaux J.-L., Kraemer C., Kuester H., Laamanen P., Legros Y., Louis E.J., Moeller-Rieker S., Monnet A., Moro M., Mueller-Auer S., Nussbaumer B., Paricio N., Paulin L., Perea J., Perez-Alonso M., Perez-Ortin J.E., Pohl T.M., Prydz H., Purnelle B., Rasmussen S.W., Remacha M.A., Revuelta J.L., Rieger M., Salom D., Saluz H.P., Saiz J.E., Saren A.-M., Schaefer M., Scharfe M., Schmidt E.R., Schneider C., Scholler P., Schwarz S., Soler-Mira A., Urrestarazu L.A., Verhasselt P., Vissers S., Voet M., Volckaert G., Wagner G., Wambutt R., Wedler E., Wedler H., Woelfl S., Harris D.E., Bowman S., Brown D., Churcher C.M., Connor R., Dedman K., Gentles S., Hamlin N., Hunt S., Jones L., McDonald S., Murphy L.D., Niblett D., Odell C., Oliver K., Rajandream M.A., Richards C., Shore L., Walsh S.V., Barrell B.G., Dietrich F.S., Mulligan J.T., Allen E., Araujo R., Aviles E., Berno A., Carpenter J., Chen E., Cherry J.M., Chung E., Duncan M., Hunicke-Smith S., Hyman R.W., Komp C., Lashkari D., Lew H., Lin D., Mosedale D., Nakahara K., Namath A., Oefner P., Oh C., Petel F.X., Roberts D., Schramm S., Schroeder M., Shogren T., Shroff N., Winant A., Yelton M.A., Botstein D., Davis R.W., Johnston M., Andrews S., Brinkman R., Cooper J., Ding H., Du Z., Favello A., Fulton L., Gattung S., Greco T., Hallsworth K., Hawkins J., Hillier L.W., Jier M., Johnson D., Johnston L., Kirsten J., Kucaba T., Langston Y., Latreille P., Le T., Mardis E., Menezes S., Miller N., Nhan M., Pauley A., Peluso D., Rifkin L., Riles L., Taich A., Trevaskis E., Vignati D., Wilcox L., Wohldman P., Vaudin M., Wilson R., Waterston R., Albermann K., Hani J., Heumann K., Kleine K., Mewes H.-W., Zollner A., Zaccaria P. Nature 387:75-78(1997) [PubMed: 9169867] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[4]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[5]	"Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae." Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F., Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J., Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J. , Simpson A.J.G., Bulyk M.L., Harlow E., Marsischky G., Kolodner R.D., LaBaer J. Genome Res. 17:536-543(2007) [PubMed: 17322287] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[6]	"A genetic interaction map of RNA-processing factors reveals links between Sem1/Dss1-containing complexes and mRNA export and splicing." Wilmes G.M., Bergkessel M., Bandyopadhyay S., Shales M., Braberg H., Cagney G., Collins S.R., Whitworth G.B., Kress T.L., Weissman J.S., Ideker T., Guthrie C., Krogan N.J. Mol. Cell 32:735-746(2008) [PubMed: 19061648] [Abstract] Cited for: INTERACTION WITH CSN12 AND THP3.
[7]	"Global analysis of protein expression in yeast." Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S. Nature 425:737-741(2003) [PubMed: 14562106] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[8]	"Sem1 is a functional component of the nuclear pore complex-associated messenger RNA export machinery." Faza M.B., Kemmler S., Jimeno S., Gonzalez-Aguilera C., Aguilera A., Hurt E., Panse V.G. J. Cell Biol. 184:833-846(2009) [PubMed: 19289793] [Abstract] Cited for: DISRUPTION PHENOTYPE, FUNCTION, SUBUNIT, INTERACTION WITH CSN12 AND THP3.
[9]	"Sem1p is a novel subunit of the 26S proteasome from Saccharomyces cerevisiae." Sone T., Saeki Y., Toh-e A., Yokosawa H. J. Biol. Chem. 279:28807-28816(2004) [PubMed: 15117943] [Abstract] Cited for: FUNCTION.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AF059310 mRNA. Translation: AAD08804.1. AF065136 Genomic DNA. Translation: AAC96096.1. U28372 Genomic DNA. No translation available. AY557719 Genomic DNA. Translation: AAS56045.1. BK006938 Genomic DNA. Translation: DAA12202.1.
PIR	S78744.
RefSeq	NP_010651.1. NM_001184328.1.
3D structure databases
ProteinModelPortal	O94742.
SMR	O94742. Positions 27-83.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-8754N.
IntAct	O94742. 15 interactions.
MINT	MINT-2779426.
STRING	O94742.
Proteomic databases
PeptideAtlas	O94742.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YDR363W-A; YDR363W-A; YDR363W-A.
GeneID	851967.
KEGG	sce:YDR363W-A.
NMPDR	fig|4932.3.peg.1418.
Organism-specific databases
CYGD	YDR363w-a.
SGD	S000007235. SEM1.
Phylogenomic databases
eggNOG	KOG4764.
GeneTree	EFGT00050000006450.
OMA	IWEENWD.
Gene expression databases
ArrayExpress	O94742.
Genevestigator	O94742.
GermOnline	YDR363W-A. Saccharomyces cerevisiae.
Family and domain databases
InterPro	IPR007834. DSS1_SEM1. [Graphical view]
KO	K10881.
PANTHER	PTHR16771. DSS1_SEM1. 1 hit.
Pfam	PF05160. DSS1_SEM1. 1 hit. [Graphical view]
ProtoNet	Search...
Other
NextBio	970085.

Entry information

Entry name

SEM1_YEAST

Accession

Primary (citable) accession number: O94742
Secondary accession number(s): D6VSZ2

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 19, 2004
Last sequence update:	May 1, 1999
Last modified:	December 14, 2011
This is version 85 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program