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Protein

U6 snRNA-associated Sm-like protein LSm3

Gene

LSM3

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Binds specifically to the 3'-terminal U-tract of U6 snRNA.

GO - Molecular functioni

  1. poly(A) RNA binding Source: UniProtKB

GO - Biological processi

  1. exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay Source: Reactome
  2. gene expression Source: Reactome
  3. mRNA processing Source: UniProtKB
  4. mRNA splicing, via spliceosome Source: UniProtKB
  5. nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay Source: Reactome
Complete GO annotation...

Keywords - Molecular functioni

Ribonucleoprotein

Keywords - Biological processi

mRNA processing, mRNA splicing

Keywords - Ligandi

RNA-binding

Enzyme and pathway databases

ReactomeiREACT_20518. mRNA decay by 5' to 3' exoribonuclease.

Names & Taxonomyi

Protein namesi
Recommended name:
U6 snRNA-associated Sm-like protein LSm3
Gene namesi
Name:LSM3
ORF Names:MDS017
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componenti: Chromosome 3

Organism-specific databases

HGNCiHGNC:17874. LSM3.

Subcellular locationi

Nucleus Curated

GO - Cellular componenti

  1. catalytic step 2 spliceosome Source: UniProtKB
  2. cytosol Source: Reactome
  3. nucleus Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Nucleus, Spliceosome

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA134881991.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Initiator methioninei1 – 11Removed2 Publications
Chaini2 – 102101U6 snRNA-associated Sm-like protein LSm3PRO_0000125560Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei2 – 21N-acetylalanine2 Publications

Keywords - PTMi

Acetylation

Proteomic databases

MaxQBiP62310.
PaxDbiP62310.
PeptideAtlasiP62310.
PRIDEiP62310.

PTM databases

PhosphoSiteiP62310.

Expressioni

Gene expression databases

BgeeiP62310.
CleanExiHS_LSM3.
GenevestigatoriP62310.

Organism-specific databases

HPAiHPA044966.

Interactioni

Subunit structurei

LSm subunits form a heteromer with a doughnut shape. Identified in the spliceosome C complex.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
LSM1O151163EBI-348239,EBI-347619
LSM10Q969L44EBI-348239,EBI-373268
LSM2Q9Y33311EBI-348239,EBI-347416
LSM5Q9Y4Y93EBI-348239,EBI-373007
LSM6P623123EBI-348239,EBI-373310
LSM7Q9UK454EBI-348239,EBI-348372
LSM8O957776EBI-348239,EBI-347779
YBX1P678092EBI-348239,EBI-354065

Protein-protein interaction databases

BioGridi118105. 36 interactions.
DIPiDIP-31218N.
IntActiP62310. 27 interactions.
MINTiMINT-1036960.
STRINGi9606.ENSP00000302160.

Structurei

3D structure databases

SMRiP62310. Positions 16-98.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the snRNP Sm proteins family.Curated

Phylogenomic databases

eggNOGiNOG236203.
GeneTreeiENSGT00390000013951.
HOGENOMiHOG000223550.
HOVERGENiHBG052368.
InParanoidiP62310.
KOiK12622.
OMAiGYDSHCN.
OrthoDBiEOG76HQ4Q.
PhylomeDBiP62310.
TreeFamiTF312907.

Family and domain databases

InterProiIPR010920. LSM_dom.
IPR001163. Ribonucl_LSM.
IPR006649. Ribonucl_LSM_euk/arc.
[Graphical view]
PfamiPF01423. LSM. 1 hit.
[Graphical view]
SMARTiSM00651. Sm. 1 hit.
[Graphical view]
SUPFAMiSSF50182. SSF50182. 1 hit.

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P62310-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MADDVDQQQT TNTVEEPLDL IRLSLDERIY VKMRNDRELR GRLHAYDQHL
60 70 80 90 100
NMILGDVEET VTTIEIDEET YEEIYKSTKR NIPMLFVRGD GVVLVAPPLR

VG
Length:102
Mass (Da):11,845
Last modified:January 23, 2007 - v2
Checksum:i206B0DF0D95CD4D2
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ238095 mRNA. Translation: CAB45866.1.
AF182289 mRNA. Translation: AAD56227.1.
AF182418 mRNA. Translation: AAG14954.1.
CR457185 mRNA. Translation: CAG33466.1.
CH471055 Genomic DNA. Translation: EAW64190.1.
BC007055 mRNA. Translation: AAH07055.1.
CCDSiCCDS2619.1.
RefSeqiNP_055278.1. NM_014463.2.
UniGeneiHs.111632.

Genome annotation databases

EnsembliENST00000306024; ENSP00000302160; ENSG00000170860.
GeneIDi27258.
KEGGihsa:27258.
UCSCiuc003byn.3. human.

Polymorphism databases

DMDMi61227725.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ238095 mRNA. Translation: CAB45866.1.
AF182289 mRNA. Translation: AAD56227.1.
AF182418 mRNA. Translation: AAG14954.1.
CR457185 mRNA. Translation: CAG33466.1.
CH471055 Genomic DNA. Translation: EAW64190.1.
BC007055 mRNA. Translation: AAH07055.1.
CCDSiCCDS2619.1.
RefSeqiNP_055278.1. NM_014463.2.
UniGeneiHs.111632.

3D structure databases

SMRiP62310. Positions 16-98.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi118105. 36 interactions.
DIPiDIP-31218N.
IntActiP62310. 27 interactions.
MINTiMINT-1036960.
STRINGi9606.ENSP00000302160.

PTM databases

PhosphoSiteiP62310.

Polymorphism databases

DMDMi61227725.

Proteomic databases

MaxQBiP62310.
PaxDbiP62310.
PeptideAtlasiP62310.
PRIDEiP62310.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000306024; ENSP00000302160; ENSG00000170860.
GeneIDi27258.
KEGGihsa:27258.
UCSCiuc003byn.3. human.

Organism-specific databases

CTDi27258.
GeneCardsiGC03P014219.
HGNCiHGNC:17874. LSM3.
HPAiHPA044966.
MIMi607283. gene.
neXtProtiNX_P62310.
PharmGKBiPA134881991.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiNOG236203.
GeneTreeiENSGT00390000013951.
HOGENOMiHOG000223550.
HOVERGENiHBG052368.
InParanoidiP62310.
KOiK12622.
OMAiGYDSHCN.
OrthoDBiEOG76HQ4Q.
PhylomeDBiP62310.
TreeFamiTF312907.

Enzyme and pathway databases

ReactomeiREACT_20518. mRNA decay by 5' to 3' exoribonuclease.

Miscellaneous databases

ChiTaRSiLSM3. human.
GeneWikiiLSM3.
GenomeRNAii27258.
NextBioi50206.
PROiP62310.
SOURCEiSearch...

Gene expression databases

BgeeiP62310.
CleanExiHS_LSM3.
GenevestigatoriP62310.

Family and domain databases

InterProiIPR010920. LSM_dom.
IPR001163. Ribonucl_LSM.
IPR006649. Ribonucl_LSM_euk/arc.
[Graphical view]
PfamiPF01423. LSM. 1 hit.
[Graphical view]
SMARTiSM00651. Sm. 1 hit.
[Graphical view]
SUPFAMiSSF50182. SSF50182. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  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(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Tissue: Fetal liver and Spleen.
  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(1998) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], PARTIAL PROTEIN SEQUENCE.
  3. "Novel genes expressed in hematopoietic stem/progenitor cells from myelodysplastic syndrome patients."
    Huang C., Qian B., Tu Y., Gu W., Wang Y., Han Z., Chen Z.
    Submitted (AUG-1999) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Hematopoietic stem cell.
  4. "Cloning of human full open reading frames in Gateway(TM) system entry vector (pDONR201)."
    Ebert L., Schick M., Neubert P., Schatten R., Henze S., Korn B.
    Submitted (MAY-2004) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
  5. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  6. "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(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Kidney.
  7. "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(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY, IDENTIFICATION IN THE SPLICEOSOMAL C COMPLEX.
  8. "Lys-N and trypsin cover complementary parts of the phosphoproteome in a refined SCX-based approach."
    Gauci S., Helbig A.O., Slijper M., Krijgsveld J., Heck A.J., Mohammed S.
    Anal. Chem. 81:4493-4501(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT ALA-2, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS], CLEAVAGE OF INITIATOR METHIONINE [LARGE SCALE ANALYSIS].
  9. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  10. Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT ALA-2, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS], CLEAVAGE OF INITIATOR METHIONINE [LARGE SCALE ANALYSIS].

Entry informationi

Entry nameiLSM3_HUMAN
AccessioniPrimary (citable) accession number: P62310
Secondary accession number(s): Q6IAH0, Q9Y4Z1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 5, 2004
Last sequence update: January 23, 2007
Last modified: April 1, 2015
This is version 112 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny 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.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome 3
    Human chromosome 3: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  3. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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 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.