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Protein

Sm-like protein LSm1

Gene

LSM1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Component of the cytoplasmic LSM1-LSM7 complex which is involved in mRNA degradation by activating the decapping step. The LSM1-LSM7 complex binds RNA with a preference for poly-U ends.4 Publications

Miscellaneous

Present with 3490 molecules/cell in log phase SD medium.1 Publication

GO - Molecular functioni

  • chromatin binding Source: SGD
  • mRNA binding Source: SGD
  • RNA cap binding Source: SGD

GO - Biological processi

  • deadenylation-dependent decapping of nuclear-transcribed mRNA Source: SGD
  • mRNA processing Source: UniProtKB-KW
  • nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay Source: SGD

Keywordsi

Molecular functionRibonucleoprotein, RNA-binding
Biological processmRNA processing

Enzyme and pathway databases

BioCyciYEAST:G3O-31575-MONOMER
ReactomeiR-SCE-430039 mRNA decay by 5' to 3' exoribonuclease

Names & Taxonomyi

Protein namesi
Recommended name:
Sm-like protein LSm1
Alternative name(s):
SPB8 protein
Gene namesi
Name:LSM1
Synonyms:SPB8
Ordered Locus Names:YJL124C
ORF Names:J0714
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome X

Organism-specific databases

EuPathDBiFungiDB:YJL124C
SGDiS000003660 LSM1

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm, Nucleus

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi105R → A: Slightly reduces affinity for poly-U RNA ends. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001255531 – 172Sm-like protein LSm1Add BLAST172

Proteomic databases

MaxQBiP47017
PaxDbiP47017
PRIDEiP47017

Interactioni

Subunit structurei

Component of the heptameric LSM1-LSM7 complex that forms a seven-membered ring structure with a donut shape. The LSm subunits are arranged in the order LSM1, LSM2, LSM3, LSM6, LSM5, LSM7 and LSM4. Except for LSM1, where a C-terminal helix crosses the ring structure to form additional interactions with LSM3 and LSM6, each subunit interacts only with its two neighboring subunits. The LSM1-LSM7 complex interacts with PAT1; within the complex PAT1 has direct interactions with LSM2 and LSM3.5 Publications

Binary interactionsi

Show more details

Protein-protein interaction databases

BioGridi33632, 981 interactors
DIPiDIP-1330N
IntActiP47017, 43 interactors
MINTiP47017
STRINGi4932.YJL124C

Structurei

Secondary structure

1172
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi42 – 47Combined sources6
Beta strandi48 – 58Combined sources11
Beta strandi63 – 71Combined sources9
Beta strandi77 – 88Combined sources12
Turni89 – 92Combined sources4
Beta strandi93 – 104Combined sources12
Helixi106 – 108Combined sources3
Beta strandi109 – 114Combined sources6
Helixi117 – 125Combined sources9
Beta strandi127 – 129Combined sources3
Helixi132 – 158Combined sources27
Turni159 – 161Combined sources3

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4C8QX-ray3.70A45-145[»]
4C92X-ray2.30A27-172[»]
4M75X-ray2.95A/H30-172[»]
ProteinModelPortaliP47017
SMRiP47017
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the snRNP Sm proteins family.Curated

Phylogenomic databases

GeneTreeiENSGT00730000111133
HOGENOMiHOG000223544
InParanoidiP47017
KOiK12620
OMAiFMVRGEN
OrthoDBiEOG092C5VL3

Family and domain databases

CDDicd01728 LSm1, 1 hit
InterProiView protein in InterPro
IPR034104 Lsm1
IPR001163 LSM_dom_euk/arc
IPR010920 LSM_dom_sf
PfamiView protein in Pfam
PF01423 LSM, 1 hit
SMARTiView protein in SMART
SM00651 Sm, 1 hit
SUPFAMiSSF50182 SSF50182, 1 hit

Sequencei

Sequence statusi: Complete.

P47017-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSANSKDRNQ SNQDAKRQQQ NFPKKISEGE ADLYLDQYNF TTTAAIVSSV
60 70 80 90 100
DRKIFVLLRD GRMLFGVLRT FDQYANLILQ DCVERIYFSE ENKYAEEDRG
110 120 130 140 150
IFMIRGENVV MLGEVDIDKE DQPLEAMERI PFKEAWLTKQ KNDEKRFKEE
160 170
THKGKKMARH GIVYDFHKSD MY
Length:172
Mass (Da):20,307
Last modified:February 1, 1996 - v1
Checksum:i2632FA5288E178A2
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z49399 Genomic DNA Translation: CAA89419.1
AY558307 Genomic DNA Translation: AAS56633.1
BK006943 Genomic DNA Translation: DAA08678.1
PIRiS56905
RefSeqiNP_012411.1, NM_001181557.1

Genome annotation databases

EnsemblFungiiYJL124C; YJL124C; YJL124C
GeneIDi853318
KEGGisce:YJL124C

Similar proteinsi

Entry informationi

Entry nameiLSM1_YEAST
AccessioniPrimary (citable) accession number: P47017
Secondary accession number(s): D6VW62
Entry historyiIntegrated into UniProtKB/Swiss-Prot: February 1, 1996
Last sequence update: February 1, 1996
Last modified: May 23, 2018
This is version 155 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

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