Reviewed, UniProtKB/Swiss-Prot P62312 (LSM6_HUMAN)

Names and origin

Protein names

Recommended name:
    U6 snRNA-associated Sm-like protein LSm6

Gene names

Name:

LSM6

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	80 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is not processed.
Protein existence	Evidence at protein level.

General annotation (Comments)

Function	Component of LSm protein complexes, which are involved in RNA processing and may function in a chaperone-like manner, facilitating the efficient association of RNA processing factors with their substrates. Component of the cytoplasmic LSM1-LSM7 complex, which is thought to be involved in mRNA degradation by activating the decapping step in the 5'-to-3' mRNA decay pathway. 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 di-snRNP, U4/U6.U5 tri-snRNP, and free U6 snRNP). It binds directly to the 3'-terminal U-tract of U6 snRNA and plays a role in the biogenesis and stability of the U6 snRNP and U4/U6 snRNP complexes. LSM2-LSM8 probably also is involved degradation of nuclear pre-mRNA by targeting them for decapping, and in processing of pre-tRNAs, pre-rRNAs and U3 snoRNA By similarity.
Subunit structure	Component of the heptameric LSM1-LSM7 complex, which consists of LSM1, LSM2, LSM3, LSM4, LSM5, LSM6 and LSM7. Component of the heptameric LSM2-LSM8 complex, which consists of LSM2, LSM3, LSM4, LSM5, LSM6, LSM7 and LSM8. The LSm subunits form a seven-membered ring structure with a donut shape.
Subcellular location	Cytoplasm. Nucleus By similarity.
Sequence similarities	Belongs to the snRNP Sm proteins family. SmF/LSm6 subfamily.

Ontologies

Keywords
Biological process	mRNA processing mRNA splicing rRNA processing tRNA processing
Cellular component	Cytoplasm Nucleus
Ligand	RNA-binding
Molecular function	Ribonucleoprotein
Technical term	Complete proteome Direct protein sequencing
Gene Ontology (GO)
Biological process	RNA splicing Ref.2 Traceable author statement. Source: UniProtKB mRNA processing Inferred from electronic annotation. Source: UniProtKB-KW rRNA processing Inferred from electronic annotation. Source: UniProtKB-KW tRNA processing Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell small nuclear ribonucleoprotein complex Ref.2 Traceable author statement. Source: UniProtKB
Molecular function	RNA binding Inferred from electronic annotation. Source: UniProtKB-KW protein binding Inferred from physical interaction. Source: IntAct
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct	Notes
LSM1	O15116	1	EBI-373310,EBI-347619
LSM3	P62310	2	EBI-373310,EBI-348239
LSM5	Q9Y4Y9	2	EBI-373310,EBI-373007
LSM7	Q9UK45	2	EBI-373310,EBI-348372
LSM8	O95777	1	EBI-373310,EBI-347779
MCRS1	Q96EZ8	1	EBI-373310,EBI-348259
POLD2	P49005	1	EBI-373310,EBI-372354
SNRPD2	P62316	1	EBI-373310,EBI-297993

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 80	80	U6 snRNA-associated Sm-like protein LSm6		PRO_0000125575

Sequences

	Sequence		Length	Mass (Da)
	P62312-1 [UniParc]. Last modified July 5, 2004. Version 1. Checksum: 21167891FDE804F1	FASTA	80	9,128
	10 20 30 40 50 60 MSLRKQTPSD FLKQIIGRPV VVKLNSGVDY RGVLACLDGY MNIALEQTEE YVNGQLKNKY 70 80 GDAFIRGNNV LYISTQKRRM

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Sm and Sm-like proteins assemble in two related complexes of deep evolutionary origin." Salgado-Garrido J., Bragado-Nilsson E., Kandels-Lewis S., Seraphin B. EMBO J. 18:3451-3462(1999) [PubMed: 10369684] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [MRNA].
[2]	"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, IDENTIFICATION IN THE LSM2-LSM8 COMPLEX.
[3]	"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: Uterus.
[4]	"The human LSm1-7 proteins colocalize with the mRNA-degrading enzymes Dcp1/2 and Xrnl in distinct cytoplasmic foci." Ingelfinger D., Arndt-Jovin D.J., Luehrmann R., Achsel T. RNA 8:1489-1501(2002) [PubMed: 12515382] [Abstract] Cited for: SUBCELLULAR LOCATION, IDENTIFICATION IN THE LSM1-LSM7 COMPLEX.
[5]	Colinge J., Superti-Furga G., Bennett K.L. Submitted (OCT-2008) to UniProtKB Cited for: IDENTIFICATION [LARGE SCALE ANALYSIS], MASS SPECTROMETRY.

Cross-references

Sequence databases
EMBLGenBankDDBJ	AJ238098 mRNA. Translation: CAB45869.1. AF182292 mRNA. Translation: AAD56230.1. BC016026 mRNA. Translation: AAH16026.1.
IPI	IPI00001146.
RefSeq	NP_009011.1.
UniGene	Hs.190520
3D structure databases
HSSP	HSSP built from PDB template 1N9R based on UniProtKB P54999.
ModBase	Search...
Protein-protein interaction databases
IntAct	P62312. 8 interactions.
Proteomic databases
PeptideAtlas	P62312.
PRIDE	P62312.
Genome annotation databases
Ensembl	ENSG00000164167. Homo sapiens. [Contig view]
GeneID	11157.
KEGG	hsa:11157.
UCSC	uc003ikq.2. human.
Organism-specific databases
GeneCards	GC04P147316.
H-InvDB	HIX0004547.
HGNC	HGNC:17017. LSM6.
MIM	607286. gene.
PharmGKB	PA128394584.
GenAtlas	Search...
Phylogenomic databases
HOGENOM	P62312.
HOVERGEN	P62312.
OMA	P62312. EQTEEYS.
Gene expression databases
ArrayExpress	P62312.
Bgee	P62312.
CleanEx	HS_LSM6.
GermOnline	ENSG00000164167. Homo sapiens.
Family and domain databases
InterPro	IPR006649. Euk_arc_LSM_core. IPR001163. LSM_snRNP_core. [Graphical view]
Pfam	PF01423. LSM. 1 hit. [Graphical view]
SMART	SM00651. Sm. 1 hit. [Graphical view]
ProtoNet	Search...
Other Resources
NextBio	42433.
SOURCE	Search...

Entry information

Entry name

LSM6_HUMAN

Accession

Primary (citable) accession number: P62312
Secondary accession number(s): Q9Y4Y8

Entry history

Integrated into UniProtKB/Swiss-Prot:	July 5, 2004
Last sequence update:	July 5, 2004
Last modified:	July 7, 2009
This is version 49 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

HPI (Human Proteome Initiative)