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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

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-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

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Nucleus, Spliceosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 7575U6 snRNA-associated Sm-like protein LSm6PRO_0000125577Add
BLAST

Proteomic databases

MaxQBiQ9UUI1.

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 interactions.

Structurei

Secondary structure

1
75
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi4 – 118Combined sources
Turni12 – 143Combined sources
Beta strandi15 – 206Combined sources
Beta strandi26 – 349Combined sources
Beta strandi39 – 4911Combined sources
Beta strandi52 – 6312Combined sources
Helixi64 – 663Combined sources
Beta strandi67 – 726Combined sources

3D structure databases

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

Miscellaneous databases

EvolutionaryTraceiQ9UUI1.

Family & Domainsi

Sequence similaritiesi

Phylogenomic databases

HOGENOMiHOG000223542.
InParanoidiQ9UUI1.
KOiK12625.
OMAiEEYSNGQ.
OrthoDBiEOG7PZSB0.
PhylomeDBiQ9UUI1.

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.

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.

Cross-referencesi

Sequence databases

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

3D structure databases

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

Protein-protein interaction databases

BioGridi278481. 2 interactions.

Proteomic databases

MaxQBiQ9UUI1.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Organism-specific databases

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

Phylogenomic databases

HOGENOMiHOG000223542.
InParanoidiQ9UUI1.
KOiK12625.
OMAiEEYSNGQ.
OrthoDBiEOG7PZSB0.
PhylomeDBiQ9UUI1.

Enzyme and pathway databases

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

Miscellaneous databases

EvolutionaryTraceiQ9UUI1.
NextBioi20803078.
PROiQ9UUI1.

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 genome sequence of Schizosaccharomyces pombe."
    Wood V., Gwilliam R., Rajandream M.A., Lyne M.H., Lyne R., Stewart A., Sgouros J.G., Peat N., Hayles J., Baker S.G., Basham D., Bowman S., Brooks K., Brown D., Brown S., Chillingworth T., Churcher C.M., Collins M.
    , Connor R., Cronin A., Davis P., Feltwell T., Fraser A., Gentles S., Goble A., Hamlin N., Harris D.E., Hidalgo J., Hodgson G., Holroyd S., Hornsby T., Howarth S., Huckle E.J., Hunt S., Jagels K., James K.D., Jones L., Jones M., Leather S., McDonald S., McLean J., Mooney P., Moule S., Mungall K.L., Murphy L.D., Niblett D., Odell C., Oliver K., O'Neil S., Pearson D., Quail M.A., Rabbinowitsch E., Rutherford K.M., Rutter S., Saunders D., Seeger K., Sharp S., Skelton J., Simmonds M.N., Squares R., Squares S., Stevens K., Taylor K., Taylor R.G., Tivey A., Walsh S.V., Warren T., Whitehead S., Woodward J.R., Volckaert G., Aert R., Robben J., Grymonprez B., Weltjens I., Vanstreels E., Rieger M., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Duesterhoeft A., Fritzc C., Holzer E., Moestl D., Hilbert H., Borzym K., Langer I., Beck A., Lehrach H., Reinhardt R., Pohl T.M., Eger P., Zimmermann W., Wedler H., Wambutt R., Purnelle B., Goffeau A., Cadieu E., Dreano S., Gloux S., Lelaure V., Mottier S., Galibert F., Aves S.J., Xiang Z., Hunt C., Moore K., Hurst S.M., Lucas M., Rochet M., Gaillardin C., Tallada V.A., Garzon A., Thode G., Daga R.R., Cruzado L., Jimenez J., Sanchez M., del Rey F., Benito J., Dominguez A., Revuelta J.L., Moreno S., Armstrong J., Forsburg S.L., Cerutti L., Lowe T., McCombie W.R., Paulsen I., Potashkin J., Shpakovski G.V., Ussery D., Barrell B.G., Nurse P.
    Nature 415:871-880(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 972 / ATCC 24843.

Entry informationi

Entry nameiLSM6_SCHPO
AccessioniPrimary (citable) accession number: Q9UUI1
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: May 1, 2000
Last modified: May 11, 2016
This is version 99 of the entry and version 1 of the sequence. [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

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.