protein coding gene - lsm3 (SPBC9B6.05c) - Lsm2-8 complex subunit Lsm3

Gene summary

Standard name: lsm3
Systematic ID: SPBC9B6.05c
Product: Lsm2-8 complex subunit Lsm3
Organism: Schizosaccharomyces pombe (fission yeast)
UniProt ID: Q9Y7M4
ORFeome ID: 05/05E12
Characterisation status: biological role published
Feature type: mRNA gene
Genomic location: chromosome II: 1821460..1822728 reverse strand

Annotation

GO biological process

GO:0045292 - mRNA cis splicing, via spliceosome

References:

GO_REF:0000033

GO:0033962 - P-body assembly

References:

GO_REF:0000033

GO:0034337 - RNA folding

References:

GO_REF:0000108

GO cellular component

GO:0071013 - catalytic step 2 spliceosome

References:

GO_REF:0000033

GO:0140445 - chromosome, telomeric repeat region

References:

PMID:29422503

GO:1990726 - Lsm1-7-Pat1 complex

References:

PMID:32518066

GO:0120115 - Lsm2-8 complex

References:

PMID:32518066

GO:0005730 - nucleolus

References:

GO_REF:0000024

GO:0005634 - nucleus

References:

PMID:16823372

GO:0000932 - P-body

References:

GO_REF:0000033

GO:0071011 - precatalytic spliceosome

References:

GO_REF:0000033

GO:0005686 - U2 snRNP

References:

PMID:26292707

GO:0046540 - U4/U6 x U5 tri-snRNP complex

References:

GO_REF:0000033

GO:0005682 - U5 snRNP

References:

PMID:26292707

GO:0005688 - U6 snRNP

References:

PMID:32518066

GO molecular function

GO:0008266 - poly(U) RNA binding

References:

PMID:22615807

GO:0005515 - protein binding

References:

PMID:22615807

GO:0140691 - RNA folding chaperone

References:

PMID:32518066

GO:0070034 - telomerase RNA binding

References:

PMID:29422503

GO:0030620 - U2 snRNA binding

References:

PMID:26292707

Modification

MOD:00046 - O-phospho-L-serine

References:

MOD:00696 - phosphorylated residue

References:

PMID:19547744

Qualitative gene expression

PomGeneEx:0000012 - RNA level decreased

References:

PMID:16537923

Quantitative gene expression

PBO:0006310 - protein level

References:

PMID:23101633

PBO:0011963 - RNA level

References:

PMID:23101633

Single locus phenotype

FYPO:0000059 - abnormal mitotic cell cycle

References:

PMID:23697806

Genotypes:

lsm3delta

FYPO:0003529 - inviable after spore germination, multiple cell divisions, cell cycle arrest in mitotic interphase, elongated cells

References:

PMID:23697806

Genotypes:

lsm3delta

FYPO:0002061 - inviable vegetative cell population

References:

Genotypes:

lsm3delta

Taxonomic conservation

PBO:0011065 - conserved in eukaryotes

PBO:0011071 - conserved in eukaryotes only

PBO:0011064 - conserved in fungi

PBO:0011069 - conserved in metazoa

PBO:0011070 - conserved in vertebrates

PBO:0006222 - predominantly single copy (one to one)

Protein features

ID	Name	InterPro name	DB name
PF01423	LSM	Sm_dom_euk/arc	Pfam
cd01730	LSm3	Lsm3	CDD
PS52002	SM	Sm	PROSITE profiles
SM00651	Sm	Sm_dom_euk/arc	SMART
G3DSA:2.30.30.100:FF:000036			CATH-FunFam
G3DSA:2.30.30.100			CATH-Gene3D
SSF50182		LSM_dom_sf	SUPERFAMILY
PTHR13110		Sm-like_LSM3	PANTHER

Orthologs

LSM3 (HGNC:17874) Homo sapiens
lsm3 (SJAG_03460) Schizosaccharomyces japonicus
LSM3 (YLR438C-A) Saccharomyces cerevisiae

References / Literature

GO_REF:0000108 - Automatic assignment of GO terms using logical inference, based on on inter-ontology links.
PMID:22001694 - Structure of the LSm657 complex: an assembly intermediate of the LSm1-7 and LSm2-8 rings.: Mund M et al. J Mol Biol 2011 Nov 25;414(2):165-76
PMID:23101633 - Quantitative analysis of fission yeast transcriptomes and proteomes in proliferating and quiescent cells.: Marguerat S et al. Cell 2012 Oct 26;151(3):671-83
PMID:22615807 - Crystal structures of Lsm3, Lsm4 and Lsm5/6/7 from Schizosaccharomyces pombe.: Wu D et al. PLoS One 2012;7(5):e36768
PMID:33378677 - Quality-Control Mechanism for Telomerase RNA Folding in the Cell.: Hu X et al. Cell Rep 2020 Dec 29;33(13):108568
PMID:11751918 - The fission yeast ES2 homologue, Bis1, interacts with the Ish1 stress-responsive nuclear envelope protein.: Taricani L et al. J Biol Chem 2002 Mar 22;277(12):10562-72
PMID:32518066 - Molecular basis for the distinct cellular functions of the Lsm1-7 and Lsm2-8 complexes.: Montemayor EJ et al. RNA 2020 Oct;26(10):1400-1413
PMID:20473289 - Analysis of a genome-wide set of gene deletions in the fission yeast Schizosaccharomyces pombe.: Kim DU et al. Nat Biotechnol 2010 Jun;28(6):617-623
PMID:22446625 - Telomerase RNA biogenesis involves sequential binding by Sm and Lsm complexes.: Tang W et al. Nature 2012 Mar 25;484(7393):260-4
PMID:31474649 - Identification of 15 New Bypassable Essential Genes of Fission Yeast.: Takeda A et al. Cell Struct Funct 2019 Sep 27;44(2):113-119
PMID:25720772 - Quantitative phosphoproteomics reveals pathways for coordination of cell growth and division by the conserved fission yeast kinase pom1.: Kettenbach AN et al. Mol Cell Proteomics 2015 May;14(5):1275-87
PMID:26771498 - A Proteome-wide Fission Yeast Interactome Reveals Network Evolution Principles from Yeasts to Human.: Vo TV et al. Cell 2016 Jan 14;164(1-2):310-323
PMID:16823372 - ORFeome cloning and global analysis of protein localization in the fission yeast Schizosaccharomyces pombe.: Matsuyama A et al. Nat Biotechnol 2006 Jul;24(7):841-7
PMID:21511999 - Comparative functional genomics of the fission yeasts.: Rhind N et al. Science 2011 May 20;332(6032):930-6
PMID:28947618 - Sde2 is an intron-specific pre-mRNA splicing regulator activated by ubiquitin-like processing.: Thakran P et al. EMBO J 2018 Jan 04;37(1):89-101
PMID:18257517 - Phosphoproteome analysis of fission yeast.: Wilson-Grady JT et al. J Proteome Res 2008 Mar;7(3):1088-97
PMID:29422501 - LARP7 family proteins have conserved function in telomerase assembly.: Collopy LC et al. Nat Commun 2018 Feb 08;9(1):557
PMID:29422503 - LARP7-like protein Pof8 regulates telomerase assembly and poly(A)+TERRA expression in fission yeast.: Mennie AK et al. Nat Commun 2018 Feb 08;9(1):586
PMID:19547744 - Evolution of phosphoregulation: comparison of phosphorylation patterns across yeast species.: Beltrao P et al. PLoS Biol 2009 Jun 16;7(6):e1000134
GO_REF:0000033 - Annotation inferences using phylogenetic trees
PMID:26292707 - Structure of a yeast spliceosome at 3.6-angstrom resolution.: Yan C et al. Science 2015 Sep 11;349(6253):1182-91
PMID:33823663 - A TOR (target of rapamycin) and nutritional phosphoproteome of fission yeast reveals novel targets in networks conserved in humans.: Halova L et al. Open Biol 2021 Apr;11(4):200405
PMID:16537923 - Sterol regulatory element binding protein is a principal regulator of anaerobic gene expression in fission yeast.: Todd BL et al. Mol Cell Biol 2006 Apr;26(7):2817-31
PMID:23697806 - A genome-wide resource of cell cycle and cell shape genes of fission yeast.: Hayles J et al. Open Biol 2013 May 22;3(5):130053
GO_REF:0000024 - Manual transfer of experimentally-verified manual GO annotation data to orthologs by curator judgment of sequence similarity.