P47093 (LSM8_YEAST) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
U6 snRNA-associated Sm-like protein LSm8

Gene names

Name:	LSM8
Ordered Locus Names:	YJR022W
ORF Names:	J1464, YJR83.16

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	109 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Component of the nuclear LSM2-LSM8 complex, which is involved in splicing of nuclear mRNAs. LSM2-LSM8 associates with multiple snRNP complexes containing the U6 snRNA (U4/U6 snRNP, U4/U6.U5 snRNP, and free U6 snRNP). It binds directly to the U6 snRNA and plays a role in the biogenesis and stability of the U6 snRNP and U4/U6 snRNP complexes. It probably also is involved degradation of nuclear pre-mRNA by targeting them for decapping. LSM2-LSM8 probably is involved in processing of pre-tRNAs, pre-rRNAs and U3 snoRNA. LSM2 is required for processing of pre-tRNAs, pre-rRNAs and U3 snoRNA. Ref.5 Ref.6 Ref.10
Subunit structure	Component of the heptameric LSM2-LSM8 complex, which consists of LSM2, LSM3, LSM4, LSM5, LSM6, LSM7 and LSM8. LSM2-LSM8 associates with PAT1 and XRN1. The LSm subunits form a seven-membered ring structure with a donut shape By similarity.
Subcellular location	Nucleus. Cytoplasm Ref.9.
Miscellaneous	Present with 1440 molecules/cell in log phase SD medium. Ref.8
Sequence similarities	Belongs to the snRNP Sm proteins family.
Sequence caution	The sequence CAA60945.1 differs from that shown. Reason: Erroneous initiation. The sequence CAA89547.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Biological process	mRNA processing rRNA processing tRNA processing
Cellular component	Cytoplasm Nucleus
Molecular function	Ribonucleoprotein
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	nuclear mRNA splicing, via spliceosome Inferred from physical interaction. Source: SGD rRNA processing Inferred from electronic annotation. Source: UniProtKB-KW tRNA processing Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	U4/U6 x U5 tri-snRNP complex Inferred from direct assay. Source: SGD U6 snRNP Inferred from direct assay. Source: SGD cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell nucleolus 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
LSM2	P38203	4	EBI-313,EBI-180
LSM6	Q06406	3	EBI-313,EBI-196

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 109	109	U6 snRNA-associated Sm-like protein LSm8		PRO_0000203088

Sequences

	Sequence		Length	Mass (Da)
	P47093 [UniParc]. Last modified October 3, 2006. Version 2. Checksum: B6E37F585B6292EA	FASTA	109	12,385
	10 20 30 40 50 60 MSATLKDYLN KRVVIIKVDG ECLIASLNGF DKNTNLFITN VFNRISKEFI CKAQLLRGSE 70 80 90 100 IALVGLIDAE NDDSLAPIDE KKVPMLKDTK NKIENEHVIW EKVYESKTK

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Complete nucleotide sequence of Saccharomyces cerevisiae chromosome X." Galibert F., Alexandraki D., Baur A., Boles E., Chalwatzis N., Chuat J.-C., Coster F., Cziepluch C., de Haan M., Domdey H., Durand P., Entian K.-D., Gatius M., Goffeau A., Grivell L.A., Hennemann A., Herbert C.J., Heumann K. , Hilger F., Hollenberg C.P., Huang M.-E., Jacq C., Jauniaux J.-C., Katsoulou C., Kirchrath L., Kleine K., Kordes E., Koetter P., Liebl S., Louis E.J., Manus V., Mewes H.-W., Miosga T., Obermaier B., Perea J., Pohl T.M., Portetelle D., Pujol A., Purnelle B., Ramezani Rad M., Rasmussen S.W., Rose M., Rossau R., Schaaff-Gerstenschlaeger I., Smits P.H.M., Scarcez T., Soriano N., To Van D., Tzermia M., Van Broekhoven A., Vandenbol M., Wedler H., von Wettstein D., Wambutt R., Zagulski M., Zollner A., Karpfinger-Hartl L. EMBO J. 15:2031-2049(1996) [PubMed: 8641269] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 96604 / S288c / FY1679.
[2]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[3]	"The sequence of 24.3 kb from chromosome X reveals five complete open reading frames, all of which correspond to new genes, and a tandem insertion of a Ty1 transposon." Zagulski M., Babinska B., Gromadka R., Migdalski A., Rytka J., Sulicka J., Herbert C.J. Yeast 11:1179-1186(1995) [PubMed: 8619316] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 48-109.
[4]	"A Sm-like protein complex that participates in mRNA degradation." Bouveret E., Rigaut G., Shevchenko A., Wilm M., Seraphin B. EMBO J. 19:1661-1671(2000) [PubMed: 10747033] [Abstract] Cited for: IDENTIFICATION IN THE LSM2-LSM8 COMPLEX, ASSOCIATION OF THE LSM2-LSM8 COMPLEX WITH U6 SNRNA, MASS SPECTROMETRY.
[5]	"Lsm proteins are required for normal processing of pre-tRNAs and their efficient association with La-homologous protein Lhp1p." Kufel J., Allmang C., Verdone L., Beggs J.D., Tollervey D. Mol. Cell. Biol. 22:5248-5256(2002) [PubMed: 12077351] [Abstract] Cited for: FUNCTION IN PROCESSING OF PRE-TRNAS.
[6]	"Lsm Proteins are required for normal processing and stability of ribosomal RNAs." Kufel J., Allmang C., Petfalski E., Beggs J.D., Tollervey D. J. Biol. Chem. 278:2147-2156(2003) [PubMed: 12438310] [Abstract] Cited for: FUNCTION IN PROCESSING OF PRE-RRNAS.
[7]	"Sequencing and comparison of yeast species to identify genes and regulatory elements." Kellis M., Patterson N., Endrizzi M., Birren B.W., Lander E.S. Nature 423:241-254(2003) [PubMed: 12748633] [Abstract] Cited for: IDENTIFICATION OF PROBABLE INITIATION SITE.
[8]	"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].
[9]	"Global analysis of protein localization in budding yeast." Huh W.-K., Falvo J.V., Gerke L.C., Carroll A.S., Howson R.W., Weissman J.S., O'Shea E.K. Nature 425:686-691(2003) [PubMed: 14562095] [Abstract] Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
[10]	"Nuclear pre-mRNA decapping and 5' degradation in yeast require the Lsm2-8p complex." Kufel J., Bousquet-Antonelli C., Beggs J.D., Tollervey D. Mol. Cell. Biol. 24:9646-9657(2004) [PubMed: 15485930] [Abstract] Cited for: FUNCTION OF THE LSM2-LSM8 COMPLEX IN NUCLEAR MRNA DEGRADATION.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	X87611 Genomic DNA. Translation: CAA60945.1. Different initiation. Z49522 Genomic DNA. Translation: CAA89547.1. Different initiation. X87297 Genomic DNA. No translation available. BK006943 Genomic DNA. Translation: DAA08812.1.
PIR	S55211.
RefSeq	NP_012556.2. NM_001181680.1.
3D structure databases
ProteinModelPortal	P47093.
SMR	P47093. Positions 3-66.
ModBase	Search...
Protein-protein interaction databases
DIP	DIP-903N.
IntAct	P47093. 41 interactions.
MINT	MINT-383498.
STRING	P47093.
Proteomic databases
PeptideAtlas	P47093.
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblFungi	YJR022W; YJR022W; YJR022W.
GeneID	853479.
KEGG	sce:YJR022W.
NMPDR	fig|4932.3.peg.3530.
Organism-specific databases
CYGD	YJR022w.
SGD	S000003783. LSM8.
Phylogenomic databases
eggNOG	fuNOG12968.
HOGENOM	HBG202231.
OrthoDB	EOG48H0D6.
Gene expression databases
ArrayExpress	P47093.
Genevestigator	P47093.
GermOnline	YJR022W. Saccharomyces cerevisiae.
Family and domain databases
InterPro	IPR010920. LSM-related_domain. IPR001163. LSM_domain. IPR006649. LSM_domain_euk/arc. [Graphical view]
KO	K12627.
Pfam	PF01423. LSM. 1 hit. [Graphical view]
SMART	SM00651. Sm. 1 hit. [Graphical view]
SUPFAM	SSF50182. Sm_like_riboprot. 1 hit.
ProtoNet	Search...
Other
NextBio	974089.

Entry information

Entry name

LSM8_YEAST

Accession

Primary (citable) accession number: P47093
Secondary accession number(s): D6VWJ6

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1996
Last sequence update:	October 3, 2006
Last modified:	December 14, 2011
This is version 90 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program