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Protein

U6 snRNA-associated Sm-like protein LSm6

Gene

lsm6

Organism
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
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

Keywordsi

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

Enzyme and pathway databases

ReactomeiR-SPO-430039. mRNA decay by 5' to 3' exoribonuclease.

Names & Taxonomyi

Protein namesi
Recommended name:
U6 snRNA-associated Sm-like protein LSm6
Gene namesi
Name:lsm6
ORF Names:SPAC2F3.17c
OrganismiSchizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Taxonomic identifieri284812 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaTaphrinomycotinaSchizosaccharomycetesSchizosaccharomycetalesSchizosaccharomycetaceaeSchizosaccharomyces
Proteomesi
  • UP000002485 Componenti: Chromosome I

Organism-specific databases

EuPathDBiFungiDB:SPAC2F3.17c.
PomBaseiSPAC2F3.17c. lsm6.

Subcellular locationi

GO - Cellular componenti

Keywords - Cellular componenti

Cytoplasm, Nucleus, Spliceosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001255771 – 75U6 snRNA-associated Sm-like protein LSm6Add BLAST75

Proteomic databases

MaxQBiQ9UUI1.
PRIDEiQ9UUI1.

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

Protein-protein interaction databases

BioGridi278481. 2 interactors.
STRINGi4896.SPAC2F3.17c.1.

Structurei

Secondary structure

175
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi4 – 11Combined sources8
Turni12 – 14Combined sources3
Beta strandi15 – 20Combined sources6
Beta strandi26 – 34Combined sources9
Beta strandi39 – 49Combined sources11
Beta strandi52 – 63Combined sources12
Helixi64 – 66Combined sources3
Beta strandi67 – 72Combined sources6

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3SWNX-ray2.50B/E/Q/T1-75[»]
4EMKX-ray2.30B1-75[»]
ProteinModelPortaliQ9UUI1.
SMRiQ9UUI1.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9UUI1.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

HOGENOMiHOG000223542.
InParanoidiQ9UUI1.
KOiK12625.
OMAiVMYISAD.
OrthoDBiEOG092C5VL3.
PhylomeDBiQ9UUI1.

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.

Q9UUI1-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDSSPNEFLN KVIGKKVLIR LSSGVDYKGI LSCLDGYMNL ALERTEEYVN
60 70
GKKTNVYGDA FIRGNNVLYV SALDD
Length:75
Mass (Da):8,336
Last modified:May 1, 2000 - v1
Checksum:i20B1B1F2E380BCCF
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CU329670 Genomic DNA. Translation: CAB54975.1.
PIRiT38534.
RefSeqiNP_594380.1. NM_001019801.2.

Genome annotation databases

EnsemblFungiiSPAC2F3.17c.1; SPAC2F3.17c.1:pep; SPAC2F3.17c.
GeneIDi2541997.
KEGGispo:SPAC2F3.17c.

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.

Entry informationi

Entry nameiLSM6_SCHPO
AccessioniPrimary (citable) accession number: Q9UUI1
Entry historyiIntegrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: May 1, 2000
Last modified: July 5, 2017
This is version 107 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. Schizosaccharomyces pombe
    Schizosaccharomyces pombe: entries and gene names
  3. SIMILARITY comments
    Index of protein domains and families