Reviewed, UniProtKB/Swiss-Prot Q9Y333 (LSM2_HUMAN)

Names and origin

Protein names

Recommended name:
U6 snRNA-associated Sm-like protein LSm2

Alternative name(s):
snRNP core Sm-like protein Sm-x5
Small nuclear ribonuclear protein D homolog
Protein G7b

Gene names

Name:	LSM2
Synonyms:	C6orf28, G7B

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

General annotation (Comments)

Function	Binds specifically to the 3'-terminal U-tract of U6 snRNA. May be involved in pre-mRNA splicing.
Subunit structure	Identified in the spliceosome C complex, at least composed of AQR, ASCC3L1, C19orf29, CDC40, CDC5L, CRNKL1, DDX23, DDX41, DDX48, DDX5, DGCR14, DHX35, DHX38, DHX8, EFTUD2, FRG1, GPATC1, HNRPA1, HNRPA2B1, HNRPA3, HNRPC, HNRPF, HNRPH1, HNRPK, HNRPM, HNRPR, HNRPU, KIAA1160, KIAA1604, LSM2, LSM3, MAGOH, MORG1, PABPC1, PLRG1, PNN, PPIE, PPIL1, PPIL3, PPWD1, PRPF19, PRPF4B, PRPF6, PRPF8, RALY, RBM22, RBM8A, RBMX, SART1, SF3A1, SF3A2, SF3A3, SF3B1, SF3B2, SF3B3, SFRS1, SKIV2L2, SNRPA1, SNRPB, SNRPB2, SNRPD1, SNRPD2, SNRPD3, SNRPE, SNRPF, SNRPG, SNW1, SRRM1, SRRM2, SYF2, SYNCRIP, TFIP11, THOC4, U2AF1, WDR57, XAB2 and ZCCHC8. LSm subunits form a heteromer with a donut shape.
Subcellular location	Nucleus Potential.
Post-translational modification	Phosphorylated upon DNA damage, probably by ATM or ATR. Ref.9 Ref.10
Sequence similarities	Belongs to the snRNP Sm proteins family.

Ontologies

Keywords
Biological process	mRNA processing mRNA splicing
Cellular component	Nucleus Spliceosome
Ligand	RNA-binding
Molecular function	Ribonucleoprotein
PTM	Phosphoprotein
Technical term	Complete proteome Direct protein sequencing
Gene Ontology (GO)
Biological process	nuclear mRNA splicing, via spliceosome Non-traceable author statement. Source: UniProtKB
Cellular component	spliceosomal complex Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	U6 snRNA binding Ref.1 Non-traceable author statement. Source: UniProtKB
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
DNAJA1	P31689	2	EBI-347416,EBI-347834
EXOSC10	Q01780	1	EBI-347416,EBI-358236
LSM1	O15116	2	EBI-347416,EBI-347619
LSM3	P62310	5	EBI-347416,EBI-348239
LSM7	Q9UK45	3	EBI-347416,EBI-348372
LSM8	O95777	3	EBI-347416,EBI-347779
SNRPD2	P62316	2	EBI-347416,EBI-297993
SNRPE	P62304	2	EBI-347416,EBI-348082
ZNF408	Q9H9D4	3	EBI-347416,EBI-347633

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 95	95	U6 snRNA-associated Sm-like protein LSm2		PRO_0000125556
Amino acid modifications
	Modified residue	35	1	Phosphotyrosine Ref.9
	Modified residue	79	1	Phosphothreonine Ref.10

Sequences

	Sequence		Length	Mass (Da)
	Q9Y333-1 [UniParc]. Last modified November 1, 1999. Version 1. Checksum: 623591A09A6ABACE	FASTA	95	10,835
	10 20 30 40 50 60 MLFYSFFKSL VGKDVVVELK NDLSICGTLH SVDQYLNIKL TDISVTDPEK YPHMLSVKNC 70 80 90 FIRGSVVRYV QLPADEVDTQ LLQDAARKEA LQQKQ

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"A doughnut-shaped heteromer of human Sm-like proteins binds to the 3'-end of U6 snRNA, thereby facilitating U4/U6 duplex formation in vitro." Achsel T., Brahms H., Kastner B., Bachi A., Wilm M., Luehrmann R. EMBO J. 18:5789-5802(1999) [PubMed: 10523320] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA], PARTIAL PROTEIN SEQUENCE.
[2]	"Characterisation of the novel gene G7b located in the class III region of the human major histocompatibility complex." Olavesen M.G., Campbell R.D. Submitted (AUG-1999) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[3]	"Human SMX5 homolog." Schmarda A., Fresser F., Paulmichl M. Submitted (OCT-1999) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[4]	"Analysis of the gene-dense major histocompatibility complex class III region and its comparison to mouse." Xie T., Rowen L., Aguado B., Ahearn M.E., Madan A., Qin S., Campbell R.D., Hood L. Genome Res. 13:2621-2636(2003) [PubMed: 14656967] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[5]	"Homo sapiens 2,229,817bp genomic DNA of 6p21.3 HLA class I region." Shiina S., Tamiya G., Oka A., Inoko H. Submitted (SEP-1999) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
[6]	"Gene expression profiling in the human hypothalamus-pituitary-adrenal axis and full-length cDNA cloning." Hu R.-M., Han Z.-G., Song H.-D., Peng Y.-D., Huang Q.-H., Ren S.-X., Gu Y.-J., Huang C.-H., Li Y.-B., Jiang C.-L., Fu G., Zhang Q.-H., Gu B.-W., Dai M., Mao Y.-F., Gao G.-F., Rong R., Ye M. , Zhou J., Xu S.-H., Gu J., Shi J.-X., Jin W.-R., Zhang C.-K., Wu T.-M., Huang G.-Y., Chen Z., Chen M.-D., Chen J.-L. Proc. Natl. Acad. Sci. U.S.A. 97:9543-9548(2000) [PubMed: 10931946] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA]. Tissue: Hypothalamus.
[7]	"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: Placenta.
[8]	"Purification and characterization of native spliceosomes suitable for three-dimensional structural analysis." Jurica M.S., Licklider L.J., Gygi S.P., Grigorieff N., Moore M.J. RNA 8:426-439(2002) [PubMed: 11991638] [Abstract] Cited for: IDENTIFICATION BY MASS SPECTROMETRY, IDENTIFICATION IN THE SPLICEOSOMAL C COMPLEX.
[9]	"Immunoaffinity profiling of tyrosine phosphorylation in cancer cells." Rush J., Moritz A., Lee K.A., Guo A., Goss V.L., Spek E.J., Zhang H., Zha X.-M., Polakiewicz R.D., Comb M.J. Nat. Biotechnol. 23:94-101(2005) [PubMed: 15592455] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT TYR-35, MASS SPECTROMETRY.
[10]	"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 THR-79, MASS SPECTROMETRY.
[11]	Colinge J., Superti-Furga G., Bennett K.L. Submitted (OCT-2008) to UniProtKB Cited for: IDENTIFICATION [LARGE SCALE ANALYSIS], MASS SPECTROMETRY.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AF182288 mRNA. Translation: AAD56226.1. AJ245416 mRNA. Translation: CAB52190.1. AF196468 mRNA. Translation: AAG33023.1. AF134726 Genomic DNA. Translation: AAD21818.1. BA000025 Genomic DNA. Translation: BAB63302.1. AF136977 mRNA. Translation: AAG49438.1. BC009192 mRNA. Translation: AAH09192.1.
IPI	IPI00032460.
RefSeq	NP_067000.1.
UniGene	Hs.103106
3D structure databases
SMR	Q9Y333. Positions 3-80.
ModBase	Search...
Protein-protein interaction databases
IntAct	Q9Y333. 19 interactions.
STRING	Q9Y333.
PTM databases
PhosphoSite	Q9Y333.
Proteomic databases
PeptideAtlas	Q9Y333.
PRIDE	Q9Y333.
Genome annotation databases
Ensembl	ENST00000375661; ENSP00000364813; ENSG00000204392; Homo sapiens. [Genome view] ENST00000383391; ENSP00000372883; ENSG00000172850; Homo sapiens. [Genome view] ENST00000424975; ENSP00000403345; ENSG00000231502; Homo sapiens. [Genome view] ENST00000432122; ENSP00000414006; ENSG00000224979; Homo sapiens. [Genome view] ENST00000434125; ENSP00000406280; ENSG00000225998; Homo sapiens. [Genome view] ENST00000455705; ENSP00000414634; ENSG00000236826; Homo sapiens. [Genome view]
GeneID	57819.
KEGG	hsa:57819.
UCSC	uc003nxg.1. human.
Organism-specific databases
CTD	57819.
GeneCards	GC06M031873.
H-InvDB	HIX0005732. HIX0057905. HIX0058082.
HGNC	HGNC:13940. LSM2.
MIM	607282. gene.
PharmGKB	PA25929.
GenAtlas	Search...
Phylogenomic databases
HOGENOM	HBG749684.
HOVERGEN	HBG000486.
InParanoid	Q9Y333.
OMA	DPDKYPH.
OrthoDB	EOG9VX4QB.
PhylomeDB	Q9Y333.
Enzyme and pathway databases
Reactome	REACT_125. Processing of Capped Intron-Containing Pre-mRNA. REACT_20605. Metabolism of mRNA. REACT_71. Gene Expression.
Gene expression databases
CleanEx	HS_LSM2.
Genevestigator	Q9Y333.
GermOnline	ENSG00000204392. Homo sapiens.
Family and domain databases
InterPro	IPR001163. LSM_domain. IPR006649. LSM_domain_euk/arc. IPR010920. LSM_related_domain. IPR016654. U6_snRNA_Lsm2. [Graphical view]
Pfam	PF01423. LSM. 1 hit. [Graphical view]
PIRSF	PIRSF016394. U6_snRNA_Lsm2. 1 hit.
SMART	SM00651. Sm. 1 hit. [Graphical view]
SUPFAM	SSF50182. Sm_like_riboprot. 1 hit.
ProtoNet	Search...
Other Resources
NextBio	64772.
SOURCE	Search...

Entry information

Entry name

LSM2_HUMAN

Accession

Primary (citable) accession number: Q9Y333

Entry history

Integrated into UniProtKB/Swiss-Prot:	December 1, 2000
Last sequence update:	November 1, 1999
Last modified:	March 2, 2010
This is version 99 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)

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.