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Protein

U6 snRNA-associated Sm-like protein LSm6

Gene

LSM6

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 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

  • RNA binding Source: UniProtKB

GO - Biological processi

Keywordsi

Molecular functionRibonucleoprotein, RNA-binding
Biological processmRNA processing, mRNA splicing, rRNA processing, tRNA processing

Enzyme and pathway databases

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

Names & Taxonomyi

Protein namesi
Recommended name:
U6 snRNA-associated Sm-like protein LSm6
Gene namesi
Name:LSM6
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 4

Organism-specific databases

HGNCiHGNC:17017. LSM6.

Subcellular locationi

  • Cytoplasm 1 Publication
  • Nucleus By similarity

GO - Cellular componenti

  • cytosol Source: Reactome
  • extracellular exosome Source: UniProtKB
  • nucleoplasm Source: Reactome
  • small nuclear ribonucleoprotein complex Source: UniProtKB
  • small nucleolar ribonucleoprotein complex Source: InterPro
  • spliceosomal complex Source: UniProtKB-KW

Keywords - Cellular componenti

Cytoplasm, Nucleus, Spliceosome

Pathology & Biotechi

Organism-specific databases

DisGeNETi11157.
OpenTargetsiENSG00000164167.
PharmGKBiPA128394584.

Chemistry databases

DrugBankiDB04272. Citric Acid.
DB02745. Uridine.
DB03685. Uridine-5'-Monophosphate.

Polymorphism and mutation databases

BioMutaiLSM6.
DMDMi61227727.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001255751 – 80U6 snRNA-associated Sm-like protein LSm6Add BLAST80

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei59N6-acetyllysineCombined sources1

Keywords - PTMi

Acetylation

Proteomic databases

EPDiP62312.
PaxDbiP62312.
PeptideAtlasiP62312.
PRIDEiP62312.
TopDownProteomicsiP62312.

PTM databases

iPTMnetiP62312.
PhosphoSitePlusiP62312.

Expressioni

Gene expression databases

BgeeiENSG00000164167.
CleanExiHS_LSM6.
GenevisibleiP62312. HS.

Organism-specific databases

HPAiHPA045079.

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.2 Publications

Binary interactionsi

Show more details

Protein-protein interaction databases

BioGridi116328. 48 interactors.
DIPiDIP-31128N.
IntActiP62312. 17 interactors.
MINTiMINT-4100591.
STRINGi9606.ENSP00000296581.

Structurei

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3JCRelectron microscopy7.0061-80[»]
ProteinModelPortaliP62312.
SMRiP62312.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

eggNOGiKOG1783. Eukaryota.
COG1958. LUCA.
GeneTreeiENSGT00730000110856.
HOVERGENiHBG052369.
InParanoidiP62312.
KOiK12625.
OMAiVMYISAD.
OrthoDBiEOG091G13K2.
PhylomeDBiP62312.
TreeFamiTF313751.

Family and domain databases

InterProiView protein in InterPro
IPR016487. Lsm6/sSmF.
IPR010920. LSM_dom.
IPR001163. LSM_dom_euk/arc.
PfamiView protein in Pfam
PF01423. LSM. 1 hit.
PIRSFiPIRSF006609. snRNP_SmF. 1 hit.
SMARTiView protein in SMART
SM00651. Sm. 1 hit.
SUPFAMiSSF50182. SSF50182. 1 hit.

Sequencei

Sequence statusi: Complete.

P62312-1 [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
AJ238098 mRNA. Translation: CAB45869.1.
AF182292 mRNA. Translation: AAD56230.1.
AK312126 mRNA. Translation: BAG35062.1.
AC097372 Genomic DNA. Translation: AAY41032.1.
CH471056 Genomic DNA. Translation: EAX05029.1.
CH471056 Genomic DNA. Translation: EAX05030.1.
CH471056 Genomic DNA. Translation: EAX05031.1.
BC016026 mRNA. Translation: AAH16026.1.
CCDSiCCDS3767.1.
RefSeqiNP_009011.1. NM_007080.2.
XP_016863161.1. XM_017007672.1.
XP_016863162.1. XM_017007673.1.
UniGeneiHs.190520.

Genome annotation databases

EnsembliENST00000296581; ENSP00000296581; ENSG00000164167.
ENST00000502781; ENSP00000422392; ENSG00000164167.
ENST00000504181; ENSP00000420929; ENSG00000164167.
ENST00000515311; ENSP00000427036; ENSG00000164167.
GeneIDi11157.
KEGGihsa:11157.
UCSCiuc003ikq.5. human.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ238098 mRNA. Translation: CAB45869.1.
AF182292 mRNA. Translation: AAD56230.1.
AK312126 mRNA. Translation: BAG35062.1.
AC097372 Genomic DNA. Translation: AAY41032.1.
CH471056 Genomic DNA. Translation: EAX05029.1.
CH471056 Genomic DNA. Translation: EAX05030.1.
CH471056 Genomic DNA. Translation: EAX05031.1.
BC016026 mRNA. Translation: AAH16026.1.
CCDSiCCDS3767.1.
RefSeqiNP_009011.1. NM_007080.2.
XP_016863161.1. XM_017007672.1.
XP_016863162.1. XM_017007673.1.
UniGeneiHs.190520.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3JCRelectron microscopy7.0061-80[»]
ProteinModelPortaliP62312.
SMRiP62312.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi116328. 48 interactors.
DIPiDIP-31128N.
IntActiP62312. 17 interactors.
MINTiMINT-4100591.
STRINGi9606.ENSP00000296581.

Chemistry databases

DrugBankiDB04272. Citric Acid.
DB02745. Uridine.
DB03685. Uridine-5'-Monophosphate.

PTM databases

iPTMnetiP62312.
PhosphoSitePlusiP62312.

Polymorphism and mutation databases

BioMutaiLSM6.
DMDMi61227727.

Proteomic databases

EPDiP62312.
PaxDbiP62312.
PeptideAtlasiP62312.
PRIDEiP62312.
TopDownProteomicsiP62312.

Protocols and materials databases

DNASUi11157.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000296581; ENSP00000296581; ENSG00000164167.
ENST00000502781; ENSP00000422392; ENSG00000164167.
ENST00000504181; ENSP00000420929; ENSG00000164167.
ENST00000515311; ENSP00000427036; ENSG00000164167.
GeneIDi11157.
KEGGihsa:11157.
UCSCiuc003ikq.5. human.

Organism-specific databases

CTDi11157.
DisGeNETi11157.
GeneCardsiLSM6.
HGNCiHGNC:17017. LSM6.
HPAiHPA045079.
MIMi607286. gene.
neXtProtiNX_P62312.
OpenTargetsiENSG00000164167.
PharmGKBiPA128394584.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG1783. Eukaryota.
COG1958. LUCA.
GeneTreeiENSGT00730000110856.
HOVERGENiHBG052369.
InParanoidiP62312.
KOiK12625.
OMAiVMYISAD.
OrthoDBiEOG091G13K2.
PhylomeDBiP62312.
TreeFamiTF313751.

Enzyme and pathway databases

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

Miscellaneous databases

GeneWikiiLSM6.
GenomeRNAii11157.
PROiPR:P62312.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000164167.
CleanExiHS_LSM6.
GenevisibleiP62312. HS.

Family and domain databases

InterProiView protein in InterPro
IPR016487. Lsm6/sSmF.
IPR010920. LSM_dom.
IPR001163. LSM_dom_euk/arc.
PfamiView protein in Pfam
PF01423. LSM. 1 hit.
PIRSFiPIRSF006609. snRNP_SmF. 1 hit.
SMARTiView protein in SMART
SM00651. Sm. 1 hit.
SUPFAMiSSF50182. SSF50182. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiLSM6_HUMAN
AccessioniPrimary (citable) accession number: P62312
Secondary accession number(s): Q4W5J5, Q9Y4Y8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: July 5, 2004
Last sequence update: July 5, 2004
Last modified: March 15, 2017
This is version 125 of the entry and version 1 of the sequence. See 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

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome 4
    Human chromosome 4: 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. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  4. 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.