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Protein

U6 snRNA-associated Sm-like protein LSm6

Gene

Lsm6

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 3 out of 5-Experimental evidence at protein leveli

Functioni

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, spliceosomal 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).By similarity

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein

Keywords - Biological processi

mRNA processing, mRNA splicing, rRNA processing, tRNA processing

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

ReactomeiR-MMU-430039. mRNA decay by 5' to 3' exoribonuclease.
R-MMU-72163. mRNA Splicing - Major Pathway.

Names & Taxonomyi

Protein namesi
Recommended name:
U6 snRNA-associated Sm-like protein LSm6
Gene namesi
Name:Lsm6
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 8

Organism-specific databases

MGIiMGI:1925901. Lsm6.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus, Spliceosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 8080U6 snRNA-associated Sm-like protein LSm6PRO_0000125576Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei59 – 591N6-acetyllysineBy similarity

Keywords - PTMi

Acetylation

Proteomic databases

EPDiP62313.
PaxDbiP62313.
PeptideAtlasiP62313.
PRIDEiP62313.
TopDownProteomicsiP62313.

PTM databases

iPTMnetiP62313.
PhosphoSiteiP62313.

Expressioni

Gene expression databases

BgeeiP62313.
ExpressionAtlasiP62313. baseline and differential.
GenevisibleiP62313. MM.

Interactioni

Subunit structurei

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 doughnut shape (By similarity).By similarity

GO - Molecular functioni

Protein-protein interaction databases

IntActiP62313. 1 interaction.
MINTiMINT-4100608.
STRINGi10090.ENSMUSP00000049722.

Structurei

3D structure databases

ProteinModelPortaliP62313.
SMRiP62313. Positions 7-74.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG1783. Eukaryota.
COG1958. LUCA.
HOVERGENiHBG052369.
InParanoidiP62313.
KOiK12625.
OMAiEEYSNGQ.
OrthoDBiEOG7HXCTK.
PhylomeDBiP62313.
TreeFamiTF313751.

Family and domain databases

InterProiIPR016487. Lsm6/sSmF.
IPR010920. LSM_dom.
IPR001163. LSM_dom_euk/arc.
[Graphical view]
PfamiPF01423. LSM. 1 hit.
[Graphical view]
PIRSFiPIRSF006609. snRNP_SmF. 1 hit.
SMARTiSM00651. Sm. 1 hit.
[Graphical view]
SUPFAMiSSF50182. SSF50182. 1 hit.

Sequencei

Sequence statusi: Complete.

P62313-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSLRKQTPSD FLKQIIGRPV VVKLNSGVDY RGVLACLDGY MNIALEQTEE
60 70 80
YVNGQLKNKY GDAFIRGNNV LYISTQKRRM
Length:80
Mass (Da):9,128
Last modified:July 5, 2004 - v1
Checksum:i21167891FDE804F1
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK019126 mRNA. Translation: BAB31555.1.
BC030427 mRNA. Translation: AAH30427.1.
CCDSiCCDS40396.1.
RefSeqiNP_001177933.1. NM_001191004.1.
NP_084421.1. NM_030145.3.
UniGeneiMm.28694.

Genome annotation databases

EnsembliENSMUST00000051867; ENSMUSP00000049722; ENSMUSG00000031683.
ENSMUST00000130325; ENSMUSP00000119841; ENSMUSG00000031683.
GeneIDi78651.
KEGGimmu:78651.
UCSCiuc009mie.2. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK019126 mRNA. Translation: BAB31555.1.
BC030427 mRNA. Translation: AAH30427.1.
CCDSiCCDS40396.1.
RefSeqiNP_001177933.1. NM_001191004.1.
NP_084421.1. NM_030145.3.
UniGeneiMm.28694.

3D structure databases

ProteinModelPortaliP62313.
SMRiP62313. Positions 7-74.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

IntActiP62313. 1 interaction.
MINTiMINT-4100608.
STRINGi10090.ENSMUSP00000049722.

PTM databases

iPTMnetiP62313.
PhosphoSiteiP62313.

Proteomic databases

EPDiP62313.
PaxDbiP62313.
PeptideAtlasiP62313.
PRIDEiP62313.
TopDownProteomicsiP62313.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000051867; ENSMUSP00000049722; ENSMUSG00000031683.
ENSMUST00000130325; ENSMUSP00000119841; ENSMUSG00000031683.
GeneIDi78651.
KEGGimmu:78651.
UCSCiuc009mie.2. mouse.

Organism-specific databases

CTDi11157.
MGIiMGI:1925901. Lsm6.

Phylogenomic databases

eggNOGiKOG1783. Eukaryota.
COG1958. LUCA.
HOVERGENiHBG052369.
InParanoidiP62313.
KOiK12625.
OMAiEEYSNGQ.
OrthoDBiEOG7HXCTK.
PhylomeDBiP62313.
TreeFamiTF313751.

Enzyme and pathway databases

ReactomeiR-MMU-430039. mRNA decay by 5' to 3' exoribonuclease.
R-MMU-72163. mRNA Splicing - Major Pathway.

Miscellaneous databases

PROiP62313.
SOURCEiSearch...

Gene expression databases

BgeeiP62313.
ExpressionAtlasiP62313. baseline and differential.
GenevisibleiP62313. MM.

Family and domain databases

InterProiIPR016487. Lsm6/sSmF.
IPR010920. LSM_dom.
IPR001163. LSM_dom_euk/arc.
[Graphical view]
PfamiPF01423. LSM. 1 hit.
[Graphical view]
PIRSFiPIRSF006609. snRNP_SmF. 1 hit.
SMARTiSM00651. Sm. 1 hit.
[Graphical view]
SUPFAMiSSF50182. SSF50182. 1 hit.
ProtoNetiSearch...

Publicationsi

  1. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: C57BL/6J.
  2. "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] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Strain: FVB/N.
    Tissue: Mammary tumor.
  3. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Brain, Heart, Pancreas, Spleen and Testis.

Entry informationi

Entry nameiLSM6_MOUSE
AccessioniPrimary (citable) accession number: P62313
Secondary accession number(s): Q9Y4Y8
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 5, 2004
Last sequence update: July 5, 2004
Last modified: July 6, 2016
This is version 100 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.