lsc1 (SPBC530.13)


Gene Standard Namelsc1 Characterisation Statuspublished
Systematic IDSPBC530.13 Feature Typeprotein coding
Synonyms Name DescriptionLatrunculin Sensitive Cyclin knockout
ProductLsk1 associated cyclin Product Size335aa, 38.69 kDa
Genomic Location Chromosome II, 824063-825870 (1808nt); CDS:824374-825747 (1374nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
cyclin-dependent protein serine/threonine kinase activator activity6
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
GO Cellular Component
Term NameCount
CTDK-1 complex3
Annotation ExtensionEvidenceWith/FromReference
cytoplasm4212
Annotation ExtensionEvidenceWith/FromReference
cytosol2298
Annotation ExtensionEvidenceWith/FromReference
nuclear cyclin-dependent protein kinase holoenzyme complex6
Annotation ExtensionEvidenceWith/FromReference
nucleus2690
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Viable

Population Phenotype

Term NameGenotypesCount
decreased conjugation frequencylsc1Δ52
decreased mating efficiencylsc1Δ276
decreased sporulation frequencylsc1Δ103
normal growth on glucose carbon sourcelsc1Δ318
sensitive to latrunculin Alsc1Δ39
slow vegetative cell population growthlsc1Δ369
viable vegetative cell populationlsc1Δ3862

Cell Phenotype

Term NameGenotypesCount
abnormal premeiotic DNA replicationlsc1Δ25
abolished phosphorylation of RNA polymerase II C-terminal domain serine 2 residues2
affecting rpb1lsc1Δ
decreased protein localization to chromatin at RNA polymerase II-regulated genes during nitrogen starvation2
affects localization of lsk1lsc1Δ
delayed onset of cell cycle arrest in mitotic G1 phase in response to nitrogen starvationlsc1Δ13
normal phosphorylation of RNA polymerase II C-terminal domain serine 5 residues during vegetative growth2
affecting rpb1lsc1Δ
normal protein localization to nucleus during vegetative growth85
affecting lsk1lsc1Δ
viable vegetative cell with normal cell morphologylsc1Δ3103

FYPO Multi-allele Phenotypes

Population Phenotype

Term NameGenotypes
normal mating efficiencylsc1Δ, ste11+ (wild type)
Target Of
OntologyRelationshipGeneProduct
FYPO affected by mutation in lsk1 P-TEFb-associated cyclin-dependent protein kinase Lsk1
FYPO localization affected by mutation in lsk1 P-TEFb-associated cyclin-dependent protein kinase Lsk1
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons824063..824534, 824579..824660, 824874..825011, 825065..825188, 825245..825870
Intron824535..824578, 824661..824873, 825012..825064, 825189..825244
mRNA824063..825870
5' UTR824063..824373PMID:21511999
CDS824374..824534, 824579..824660, 824874..825011, 825065..825188, 825245..825747
3' UTR825748..825870SPC12132
Protein Features

Graphical View

Ensembl protein image with mapped locations of structural domains

Protein Families and Domains

Feature ID Database InterPro Description Start End Count
PF00134 Pfam IPR006671 Cyclin, N-terminal 158 231 11
PF00134 Pfam IPR006671 Cyclin, N-terminal 30 150 11
SM00385 SMART IPR013763 Cyclin-like 43 145 13
SM00385 SMART IPR013763 Cyclin-like 158 241 13
PTHR10026 HMMPANTHER 6 258 5
PTHR10026:SF63 HMMPANTHER 6 258 1
1.10.472.10 Gene3D IPR013763 Cyclin-like 172 232 13
1.10.472.10 Gene3D IPR013763 Cyclin-like 13 171 13
SSF47954 SuperFamily IPR013763 Cyclin-like 154 243 15
SSF47954 SuperFamily IPR013763 Cyclin-like 8 153 15

View domain organization at Pfam

Term IDTerm NameReferenceCount
PBO:0000553cyclinTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0000553

Protein Properties

Ave. residue weight 115.48 Da
Charge 15.50
Codon Adaptation Index 0.36
Isoelectric point 9.04
Molecular weight 38.69 kDa
Number of residues 335
Sequence
Gene Expression

Qualitative Gene Expression

DescriptionLevelEvidenceReference
protein levelunchanged during GO:0006995Western blot evidencePMID:22144909
present during GO:0072690Western blot evidencePMID:22144909

Quantitative Gene Expression

View graphical display of gene expression data for lsc1 (SPBC530.13)

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
443.7during GO:0072690PECO:0000126,
PECO:0000005
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
1.3during GO:0072690PECO:0000126,
PECO:0000005
population wideexperimental evidencePMID:23101633
0.34during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000126,
PECO:0000005
population wideexperimental evidencePMID:23101633
Warning
DescriptionQualifierReferenceCount
gene structure updated PMID:21511999435
Taxonomic Conservation
DescriptionQualifierReferenceCount
conserved in fungi4608
conserved in eukaryotes4516
conserved in eukaryotes only2525
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Load genes that interact physically with SPBC530.13 into the Query Builder
View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
affinity captured bylsk1P-TEFb-associated cyclin-dependent protein kinase Lsk1 Affinity Capture-WesternPMID:17502918
Genetic Interactions

Source: BioGRID

Load genes that interact genetically with SPBC530.13 into the Query Builder
View these interactions in esyN

Gene Product Evidence Reference
positive genetic interaction withire1serine/threonine protein kinase, sensor for unfolded proteins in the ER Ire1 Positive GeneticPMID:22681890
positive genetic interaction withcat1cationic amino acid transmembrane transporter Cat1 Positive GeneticPMID:22681890
positive genetic interaction withcph1Clr6 histone deacetylase associated PHD protein-1 Cph1 Positive GeneticPMID:22681890
positive genetic interaction withdtd1D-Tyr-tRNA deacylase Dtd1 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withmrpl39mitochondrial ribosomal protein subunit L39 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withlsg1Lsk1 complex gamma subunit Lsg1 Positive GeneticPMID:22681890
positive genetic interaction withSPAC22F8.05alpha,alpha-trehalose-phosphate synthase (predicted) Positive GeneticPMID:22681890
positive genetic interaction withSPCC1827.03cacetyl-CoA ligase (predicted) Positive GeneticPMID:22681890
positive genetic interaction withpro2glutamate 5-kinase Pro2 Positive GeneticPMID:22681890
positive genetic interaction withrpt419S proteasome regulatory subunit Rpt4 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withblt1ubiquitin domain-like protein Blt1 Positive GeneticPMID:22681890
positive genetic interaction withdeg1tRNA-pseudouridine synthase Deg1 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withgld1mitochondrial glycerol dehydrogenase Gld1 Positive GeneticPMID:22681890
positive genetic interaction withSPAP8A3.07cphospho-2-dehydro-3-deoxyheptonate aldolase (predicted) Positive GeneticPMID:22681890
positive genetic interaction withSPBC1348.01S. pombe specific DUF999 protein family 5 Positive GeneticPMID:22681890
positive genetic interaction withSPBC16H5.12cconserved fungal protein Positive GeneticPMID:22681890
positive genetic interaction withmak10NatC N-acetyltransferase complex subunit Mak10 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withmdm31mitochondrial inner membrane protein Mdm31 Positive GeneticPMID:22681890
positive genetic interaction withmet8siroheme synthase Met8 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withpfl9cell surface glycoprotein, flocculin Pfl9, DIPSY family Positive GeneticPMID:22681890
positive genetic interaction withSPBC21B10.08cantibiotic biosynthesis monooxygenase-like domain (predicted) Positive GeneticPMID:22681890
positive genetic interaction withcsn3COP9/signalosome complex subunit Csn3 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withgdh1NADP-specific glutamate dehydrogenase Gdh1 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withfhl1forkhead transcription factor Fhl1 Positive GeneticPMID:22681890
positive genetic interaction withSPAC9.07cGTPase Rbg1 (predicted) Positive GeneticPMID:22681890
positive genetic interaction withtcb3tricalbin, C2 domain protein (phospholipid binding) ER-plasma membrane tethering protein Tcb2 Positive GeneticPMID:22681890
positive genetic interaction withcsk1cyclin-dependent kinase/ cyclin-dependent kinase activating kinase Csk1 Positive GeneticPMID:22681890
positive genetic interaction withSPAC56F8.02AMP binding enzyme (predicted) Positive GeneticPMID:22681890
positive genetic interaction withtal1transaldolase (predicted) Positive GeneticPMID:22681890
positive genetic interaction withtrx2mitochondrial thioredoxin Trx2 Positive GeneticPMID:22681890
positive genetic interaction witharf6ADP-ribosylation factor, Arf family Arf6 Positive GeneticPMID:22681890
positive genetic interaction withmpc1mitochondrial pyruvate transmembrane transporter subunit Mpc1 (predicted) Positive GeneticPMID:22681890
negative genetic interaction withbdf2BET family double bromodomain protein Bdf2 Negative GeneticPMID:22681890
negative genetic interaction withvps1301chorein homolog Vps13a (predicted) Negative GeneticPMID:22681890
negative genetic interaction withsde2silencing defective protein Sde2 Negative GeneticPMID:22681890
negative genetic interaction withpac10prefoldin subunit 3 Pac10 (predicted) Negative GeneticPMID:22681890
negative genetic interaction witherp2COPII-coated vesicle component Erp2/3/4 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withmms19Dos2 silencing complex subunit Mms19 Negative GeneticPMID:22681890
negative genetic interaction withset3histone lysine methyltransferase Set3 Negative GeneticPMID:22681890
negative genetic interaction withrik1silencing protein Rik1 Negative GeneticPMID:22681890
negative genetic interaction withswr1SNF2 family ATP-dependent DNA helicase Swr1 Negative GeneticPMID:22681890
negative genetic interaction withclr4histone H3 lysine methyltransferase Clr4 Negative GeneticPMID:22681890
negative genetic interaction withalg5dolichyl-phosphate beta-glucosyltransferase Alg5 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withSPAC977.02S. pombe specific 5Tm protein family Negative GeneticPMID:22681890
negative genetic interaction withgcd10tRNA (m1A) methyltransferase Gcd10 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withpsh3ER chaperone SHR3 homologue Psh3 Negative GeneticPMID:22681890
negative genetic interaction withpht1histone H2A variant H2A.Z, Pht1 Negative GeneticPMID:22681890
negative genetic interaction withgar2nucleolar protein required for rRNA processing Negative GeneticPMID:22681890
negative genetic interaction withspf1Set1C PHD Finger protein Spf1 Negative GeneticPMID:22681890
negative genetic interaction withmst2histone acetyltransferase Mst2 Negative GeneticPMID:22681890
negative genetic interaction withsft1SNARE Sft1 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withmrf1mitochondrial peptide chain release factor (predicted) Negative GeneticPMID:22681890
negative genetic interaction withcoq11ubiquinone biosynthesis protein Coq11 Negative GeneticPMID:22681890
negative genetic interaction withrpb9DNA-directed RNA polymerase II complex subunit Rpb9 Negative GeneticPMID:22681890
negative genetic interaction withshf1small histone ubiquitination factor Shf1 Negative GeneticPMID:22681890
negative genetic interaction withSPAP27G11.11cdubious Negative GeneticPMID:22681890
negative genetic interaction withraf2Rik1-associated factor Raf2 Negative GeneticPMID:22681890
negative genetic interaction withase1antiparallel microtubule cross-linking factor Ase1 Negative GeneticPMID:22681890
negative genetic interaction withpof3F-box protein Pof3 Negative GeneticPMID:22681890
negative genetic interaction withash2Ash2-trithorax family protein Negative GeneticPMID:22681890
negative genetic interaction withSPAPB1E7.04cchitinase (predicted) Negative GeneticPMID:22681890
negative genetic interaction withwtf16wtf element Wtf16 Negative GeneticPMID:22681890
negative genetic interaction withpom1DYRK family protein kinase Pom1 Negative GeneticPMID:22681890
negative genetic interaction withSPBC28E12.04Schizosaccharomyces specific protein Negative GeneticPMID:22681890
negative genetic interaction withalg9mannosyltransferase complex subunit Alg9 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withswi6HP1 family chromodomain protein Swi6 Negative GeneticPMID:22681890
negative genetic interaction withraf1CLRC ubiquitin E3 ligase complex specificiy factor Raf1/Dos1 Negative GeneticPMID:22681890
negative genetic interaction withhob3BAR adaptor protein Hob3 Negative GeneticPMID:22681890
negative genetic interaction withSPBPB2B2.19cS. pombe specific 5Tm protein family Negative GeneticPMID:22681890
negative genetic interaction withmsc1Swr1 complex subunit Chk1 Negative GeneticPMID:22681890
negative genetic interaction withclp1Cdc14-related protein phosphatase Clp1/Flp1 Negative GeneticPMID:22681890
negative genetic interaction withfft3SMARCAD1 family ATP-dependent DNA helicase Fft3 Negative GeneticPMID:22681890
negative genetic interaction withptf2Mst2 histone acetytransferase acytyltransferase complex subunit Negative GeneticPMID:22681890
negative genetic interaction withmoe1translation initiation factor eIF3d Moe1 Negative GeneticPMID:22681890
negative genetic interaction withapm4AP-2 adaptor complex mu subunit Apm4 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withhos2histone deacetylase (class I) Hos2 Negative GeneticPMID:22681890
negative genetic interaction withspo20sec14 cytosolic factor family, glycerophospholipid-transfer protein Spo20/Sec14 Negative GeneticPMID:22681890
negative genetic interaction withspc2signal peptidase subunit Spc2 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withddb1damaged DNA binding protein Ddb1 Negative GeneticPMID:22681890
synthetically rescuescdc16two-component GAP Cdc16 Synthetic RescuePMID:17502918
synthetically rescuesmei2RNA-binding protein involved in meiosis Mei2 Synthetic RescuePMID:22144909
rescued byste11transcription factor Ste11 Phenotypic SuppressionPMID:22144909
External References
Database Identifier Description
NBRP SPBC530.13 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC530.13 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC530.13 BioGRID Interaction Datasets
Expression Viewer SPBC530.13 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC530.13 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC530.13 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC530.13 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC530.13 Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC530.13 Transcriptome Viewer (Bähler Lab)
GEO SPBC530.13 GEO profiles
PInt SPBC530.13 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBC530.13 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPBC530.13 Fission yeast phenotypic data & analysis
Cyclebase SPBC530.13.1 Cell Cycle Data
SPD / RIKEN21/21C08Orfeome Localization Data
UniProtKB/SwissProtO59748CTD kinase subunit beta
ModBaseO59748Database of comparative protein structure models
STRINGO59748Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_595326Lsk1 associated cyclin
RefSeq mRNANM_001021233972h- Lsk1 associated cyclin (lsc1), mRNA
European Nucleotide ArchiveCAA19179.2ENA Protein Mapping
UniParcUPI000228F45FUniProt Archive

Literature for lsc1

Search: Europe PMC or PubMed

Release Version: PomBase:30_62 - 30 Jan 2017