slm9 (SPBC15D4.03)


Gene Standard Nameslm9 Characterisation Statuspublished
Systematic IDSPBC15D4.03 Feature Typeprotein coding
Synonyms Name Description
Producthira protein Slm9 Product Size807aa, 90.43 kDa
Genomic Location Chromosome II, 3015406-3018155 (2750nt); CDS:3015538-3017961 (2424nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
protein binding848
Annotation ExtensionEvidenceWith/FromReference
transcription corepressor activity12
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
GO Cellular Component
Term NameCount
cytosol2316
Annotation ExtensionEvidenceWith/FromReference
HIR complex4
Annotation ExtensionEvidenceWith/FromReference
nuclear chromatin298
Annotation ExtensionEvidenceWith/FromReference
nucleus2690
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Population Phenotype

Term NameAlleleExpressionCount
viable vegetative cell populationslm9ΔNull3781

Cell Phenotype

Term NameAlleleExpressionCount
abnormal mitotic cell cycleslm9ΔNull794
abnormal positive regulation of transcription13
affecting hhf1slm9ΔNull
affecting hht1slm9ΔNull
affecting hta2slm9ΔNull
affecting hht3slm9ΔNull
affecting hhf3slm9ΔNull
affecting hhf2slm9ΔNull
affecting hht2slm9ΔNull
affecting hta1slm9ΔNull
elongated vegetative cellslm9ΔNull703
viable elongated vegetative cell231
penetrance FYPO_EXT:0000001slm9ΔNull
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
130154063018155

UTRs

Region Coordinates Reference
five_prime_UTR3015406..3015537PMID:21511999
three_prime_UTR3017962..3018155PMID:21511999
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
PF07569 Pfam IPR011494 TUP1-like enhancer of split 528 743 2
PF00400 Pfam IPR001680 WD40 repeat 175 212 104
PF00400 Pfam IPR001680 WD40 repeat 273 313 104
SM00320 SMART IPR001680 WD40 repeat 319 356 112
SM00320 SMART IPR001680 WD40 repeat 267 313 112
SM00320 SMART IPR001680 WD40 repeat 173 212 112
SM00320 SMART IPR001680 WD40 repeat 46 92 112
PS00678 Prosite Patterns IPR019775 WD40 repeat, conserved site 300 314 65
PS50294 Prosite Profiles IPR017986 WD40-repeat-containing domain 180 221 104
PS50082 Prosite Profiles IPR001680 WD40 repeat 180 215 100
PTHR13831 HMMPANTHER 173 801 2
PTHR13831:SF0 HMMPANTHER 173 801 2
2.130.10.10 Gene3D IPR015943 WD40/YVTN repeat-like-containing domain 164 376 145
2.130.10.10 Gene3D IPR015943 WD40/YVTN repeat-like-containing domain 473 581 145
2.130.10.10 Gene3D IPR015943 WD40/YVTN repeat-like-containing domain 20 130 145
SSF50978 SuperFamily IPR017986 WD40-repeat-containing domain 174 357 135
SSF50978 SuperFamily IPR017986 WD40-repeat-containing domain 16 134 135

View domain organization at Pfam

Manually Curated Family or Sub-families

Term IDTerm NameReferenceCount
PBO:0000190WD repeat proteinTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0000190

Protein Properties

Ave. residue weight 112.06 Da
Charge 10.50
Isoelectric point 7.33
Molecular weight 90.43 kDa
Number of residues 807
Modifications

Protein Modifications

Term NameResidueCount
O-phospho-L-serine 1670
present during mitotic M phaseS421
present during mitotic M phaseS422
present during mitotic M phaseS406
present during mitotic M phaseS418
present during mitotic M phaseS398
S406, S422, S765
present during mitotic M phaseS425
Annotation ExtensionEvidenceResidueReference
present during mitotic M phase experimental evidence S398 PMID:21712547
experimental evidence S406 PMID:24763107
present during mitotic M phase experimental evidence S406 PMID:21712547
present during mitotic M phase experimental evidence S418 PMID:21712547
present during mitotic M phase experimental evidence S421 PMID:21712547
experimental evidence S422 PMID:24763107
present during mitotic M phase experimental evidence S422 PMID:21712547
present during mitotic M phase experimental evidence S425 PMID:21712547
experimental evidence S765 PMID:24763107
phosphorylated residue 1922
Annotation ExtensionEvidenceResidueReference
IDA PMID:19547744
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
1707during GO:0072690PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
103.33during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
1.1during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
0.4during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population wideexperimental evidencePMID:23101633
Misc
DescriptionQualifierReferenceCount
deletion mutant expression profiling PMID:1962028278
target of proteasomeInferred from Physical Interaction PMID:209761053
target of chaperonin-containing T-complexInferred from Physical Interaction PMID:209761051
Miscellaneous Functional Group
DescriptionQualifierReferenceCount
histone chaperone14
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3092
conserved in fungi4604
conserved in eukaryotes4516
conserved in metazoa3432
conserved in vertebrates3407
conserved in eukaryotes only2503
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
pss1heat shock protein Pss1 Affinity Capture-MSPMID:20976105
cct6chaperonin-containing T-complex zeta subunit Cct6 Affinity Capture-MSPMID:20976105
hsp90Hsp90 chaperone Affinity Capture-MSPMID:20976105
rad2414-3-3 protein Rad24 Affinity Capture-MSPMID:20976105
nda3tubulin beta Nda3 Affinity Capture-MSPMID:20976105
cct4chaperonin-containing T-complex delta subunit Cct4 Affinity Capture-MSPMID:20976105
trs1cytoplasmic threonine-tRNA ligase Trs1 (predicted) Affinity Capture-MSPMID:20976105
mts419S proteasome regulatory subunit Mts4 Affinity Capture-MSPMID:20976105
dfr1dihydrofolate reductase/ serine hydrolase family fusion protein Dfr1 Affinity Capture-MSPMID:20976105
gpd1glycerol-3-phosphate dehydrogenase Gpd1 Affinity Capture-MSPMID:20976105
cct8chaperonin-containing T-complex theta subunit Cct8 Affinity Capture-MSPMID:20976105
cdc48AAA family ATPase involved in ubiquitin-mediated protein degradation Cdc48 Affinity Capture-MSPMID:20976105
vma2V-type ATPase V1 subunit B Affinity Capture-MSPMID:20976105
rpt119S proteasome regulatory subunit Rpt1 (predicted) Affinity Capture-MSPMID:20976105
hip1hira protein, histone chaperone Hip1 Affinity Capture-MSPMID:20976105
Affinity Capture-MSPMID:16428807
Affinity Capture-WesternPMID:15121850
ura1carbamoyl-phosphate synthase (glutamine hydrolyzing), aspartate carbamoyltransferase Ura1 Affinity Capture-MSPMID:20976105
rpt319S proteasome regulatory subunit Rpt3 (predicted) Affinity Capture-MSPMID:20976105
ilv1acetolactate synthase catalytic subunit Affinity Capture-MSPMID:20976105
cts1CTP synthase Cts1 (predicted) Affinity Capture-MSPMID:20976105
SPBC365.16conserved protein Affinity Capture-MSPMID:20976105
lys4homocitrate synthase Affinity Capture-MSPMID:20976105
ade1phosphoribosylamine-glycine ligase/phosphoribosylformylglycinamidine cyclo-ligase Affinity Capture-MSPMID:20976105
slm9hira protein Slm9 Affinity Capture-MSPMID:20976105
SPCC1827.06caspartate semialdehyde dehydrogenase (predicted) Affinity Capture-MSPMID:20976105
tef3translation elongation factor eEF3 Affinity Capture-MSPMID:20976105
rpt419S proteasome regulatory subunit Rpt4 (predicted) Affinity Capture-MSPMID:20976105
sir1sulfite reductase Sir1 Affinity Capture-MSPMID:20976105
hip3HIRA interacting protein Hip3 Affinity Capture-MSPMID:20976105
Affinity Capture-WesternPMID:16428807
Affinity Capture-MS
rpt219S proteasome regulatory subunit Rpt2 Affinity Capture-MSPMID:20976105
cia1histone chaperone Cia1 Affinity Capture-MSPMID:21211723
hip4histone promoter control protein Hip4 Affinity Capture-MSPMID:20976105
Affinity Capture-Western
atb2tubulin alpha 2 Affinity Capture-MSPMID:20976105
vrs2mitochondrial valine-tRNA ligase Vrs2/Vas2 Affinity Capture-MSPMID:20976105
pgk1phosphoglycerate kinase Pgk1 (predicted) Affinity Capture-MSPMID:20976105
anc1mitochondrial adenine nucleotide carrier Anc1 Affinity Capture-MSPMID:20976105
ssa1heat shock protein Ssa1 (predicted) Affinity Capture-MSPMID:20976105
cct1chaperonin-containing T-complex alpha subunit Cct1 Affinity Capture-MSPMID:20976105
fba1fructose-bisphosphate aldolase Fba1 Affinity Capture-MSPMID:20976105
rvb1AAA family ATPase Rvb1 Affinity Capture-MSPMID:20976105
gus1cytoplasmic glutamate-tRNA ligase gus1 (predicted) Affinity Capture-MSPMID:20976105
atp2F1-ATPase beta subunit Atp2 Affinity Capture-MSPMID:20976105
rpt519S proteasome regulatory subunit Rpt5 (predicted) Affinity Capture-MSPMID:20976105
Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
rik1silencing protein Rik1 Synthetic Growth DefectPMID:18931302
set1histone lysine methyltransferase Set1 Synthetic Growth DefectPMID:18931302
hos2histone deacetylase (class I) Hos2 Synthetic Growth DefectPMID:18931302
cdr1NIM1 family serine/threonine protein kinase Cdr1/Nim1 Phenotypic EnhancementPMID:10835386
ctu1cytosolic thiouridylase subunit Ctu1 Synthetic Growth DefectPMID:18931302
cdr2serine/threonine protein kinase Cdr2 Phenotypic EnhancementPMID:10835386
cul3cullin 3 Synthetic Growth DefectPMID:18931302
mmd1deoxyhypusine hydroxylase (predicted) Synthetic Growth DefectPMID:18931302
pof9F-box protein Pof9 Synthetic Growth DefectPMID:18931302
pyp2tyrosine phosphatase Pyp2 Synthetic Growth DefectPMID:18931302
hst2Sir2 family histone deacetylase Hst2 Synthetic Growth DefectPMID:18931302
pmt3SUMO Synthetic Growth DefectPMID:18931302
ctf18RFC-like complex subunit Ctf18 Synthetic Growth DefectPMID:18931302
swd1Set1C complex subunit Swd1 Phenotypic SuppressionPMID:19547744
alg6glucosyltransferase Alg6 Synthetic Growth DefectPMID:18931302
sgf73SAGA complex subunit Sgf73 Synthetic Growth DefectPMID:18931302
ash2Ash2-trithorax family protein Synthetic Growth DefectPMID:18931302
ies2Ino80 complex subunit Ies2 Synthetic Growth DefectPMID:18931302
cdc25M phase inducer tyrosine phosphatase Cdc25 Synthetic Growth DefectPMID:9843572
Phenotypic SuppressionPMID:10835386
swc2Swr1 complex complex subunit Swc2 Synthetic Growth DefectPMID:18931302
mak10NatC N-acetyltransferase complex subunit Mak10 (predicted) Synthetic Growth DefectPMID:18931302
pht1histone H2A variant H2A.Z, Pht1 Synthetic Growth DefectPMID:18931302
pli1SUMO E3 ligase Pli1 Synthetic Growth DefectPMID:18931302
res2MBF transcription factor complex subunit Res2 Synthetic Growth DefectPMID:18931302
spf1Set1C PHD Finger protein Spf1 Synthetic Growth DefectPMID:18931302
wee1M phase inhibitor protein kinase Wee1 Synthetic Growth DefectPMID:9843572
Phenotypic SuppressionPMID:10835386
spa2GTPase activating protein Spa2 (predicted) Synthetic Growth DefectPMID:18931302
mrc1mediator of replication checkpoint 1 Synthetic Growth DefectPMID:18931302
pof3F-box protein Pof3 Synthetic Growth DefectPMID:18931302
rud3Golgi matrix protein Rud3 (predicted) Synthetic Growth DefectPMID:18931302
fhl1forkhead transcription factor Fhl1 Synthetic Growth DefectPMID:18931302
swi6HP1 family chromodomain protein Swi6 Synthetic Growth DefectPMID:18931302
External References
Database Identifier Description
NBRP SPBC15D4.03 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC15D4.03 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC15D4.03 BioGRID Interaction Datasets
Expression Viewer SPBC15D4.03 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC15D4.03 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC15D4.03 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC15D4.03 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC15D4.03 Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC15D4.03 Transcriptome Viewer (Bähler Lab)
Cyclebase SPBC15D4.03 Cell Cycle Data
GEO SPBC15D4.03 GEO profiles
PInt SPBC15D4.03 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBC15D4.03 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPBC15D4.03 Fission yeast phenotypic data & analysis
SPD / RIKEN39/39F12Orfeome Localization Data
UniProtKB/SwissProtO74309Histone transcription regulator slm9
ModBaseO74309Database of comparative protein structure models
STRINGO74309Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_596243hira protein Slm9
RefSeq mRNANM_001022162972h- hira protein Slm9 (slm9), mRNA
European Nucleotide ArchiveCAA20478.1ENA Protein Mapping
UniParcUPI0000135A1CUniProt Archive

Literature for slm9

Search: Europe PMC or PubMed

Release Version: PomBase:25_48 - 10 Jan 2015