slm9 (SPBC15D4.03)

Gene Standard Nameslm9 ChromosomeII
Systematic IDSPBC15D4.03 Gene Start3015406
Synonyms Gene End3018155
Producthira protein Slm9 Gene Length2750
Feature Typeprotein coding CDS Start3015538
Name Description CDS End3017961
Characterisation Statuspublished CDS Length2424

Ensembl Gene Location
  1. SPNCRNA.1571
  2. SPNCRNA.1572
  3. gsf1
  4. slm9
  5. gpt2
  6. snu1
  7. SPNCRNA.1573
  8. SPBC15D4.05
  9. naa30
  10. atg9
Fission Yeast Phenotype Ontology

Ontology Graph

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Term IDTerm NameEvidenceAlleleAllele TypeExpressionConditionReference
FYPO:0000623abnormal positive regulation of transcriptionQuantitative PCRslm9delta (deletion)deletionPMID:17452352
has_regulation_target hht2
has_regulation_target hht3Quantitative PCRslm9delta (deletion)deletionPMID:17452352
has_regulation_target hht1Quantitative PCRslm9delta (deletion)deletionPMID:17452352
has_regulation_target hta1Quantitative PCRslm9delta (deletion)deletionPMID:17452352
has_regulation_target hhf1Quantitative PCRslm9delta (deletion)deletionPMID:17452352
has_regulation_target hta2Quantitative PCRslm9delta (deletion)deletionPMID:17452352
has_regulation_target hhf3Quantitative PCRslm9delta (deletion)deletionPMID:17452352
has_regulation_target hhf2Quantitative PCRslm9delta (deletion)deletionPMID:17452352
FYPO:0002060viable vegetative cell populationMicroscopyslm9delta (deletion)deletionPMID:20473289
GO Molecular Function

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Term IDTerm NameEvidenceWith/FromReference
GO:0003714transcription corepressor activityTASPMID:15121850
GO:0005515protein bindingIPIhip1PMID:15121850
GO Biological Process

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Term IDTerm NameEvidenceWith/FromReference
GO:0000070mitotic sister chromatid segregationIMPPMID:15121850
GO:0006336DNA replication-independent nucleosome assemblyTASPMID:16428807
GO:0006995cellular response to nitrogen starvationIMPPMID:15121850
GO:0007070negative regulation of transcription from RNA polymerase II promoter during mitosisIMPPMID:16428807
GO:0010389regulation of G2/M transition of mitotic cell cycleIMPPMID:10835386
GO:0016568chromatin modificationIEAUniProtKB:KW-0156GO_REF:0000037
GO:0030466chromatin silencing at silent mating-type cassetteIMPPMID:15121850
GO:0030702chromatin silencing at centromere
occurs_at regional_centromere_outer_repeat_regionIMPPMID:15121850
GO:0034613cellular protein localization
has_input hip1IMPPMID:16428807
GO Cellular Component

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Term IDTerm NameEvidenceWith/FromReference
GO:0000417HIR complexIDAPMID:20976105
GO:0000790nuclear chromatinICGO:0003714GO_REF:0000001
GO:0005634nucleusIDAPMID:10835386
IDAPMID:16823372
GO:0005829cytosolIDAPMID:16823372
Transcript
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Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
130154063018155

References

Region Start End Reference
three_prime_UTR30179623018155PMID:21511999
three_prime_UTR30179623018155PMID:21511999
five_prime_UTR30154063015537PMID:21511999
Protein Features
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Graphical View

Ensembl protein image with mapped locations of structural domains

Protein Families and Domains

Feature ID InterPro Database Description Start End All Genes
PF07569 IPR011494 Pfam TUP1-like enhancer of split 528 743 2
PF00400 IPR001680 Pfam WD40 repeat 175 212 104
PF00400 IPR001680 Pfam WD40 repeat 273 313 104
SM00320 IPR001680 SMART WD40 repeat 319 356 120
SM00320 IPR001680 SMART WD40 repeat 267 313 120
SM00320 IPR001680 SMART WD40 repeat 173 212 120
SM00320 IPR001680 SMART WD40 repeat 46 92 120
PS50294 IPR017986 Prosite Profiles WD40-repeat-containing domain 180 221 104
PS50082 IPR001680 Prosite Profiles WD40 repeat 180 215 100
PS00678 IPR019775 Prosite Patterns WD40 repeat, conserved site 300 314 65
G3DSA:2.130.10.10 IPR015943 Gene3D 20 130 144
G3DSA:2.130.10.10 IPR015943 Gene3D 164 376 144
G3DSA:2.130.10.10 IPR015943 Gene3D 473 581 144
SSF50978 IPR017986 SuperFamily 174 357 135
SSF50978 IPR017986 SuperFamily 16 134 135
PTHR13831:SF0 hmmpanther 66 803 2
PTHR13831 hmmpanther 66 803 2

View domain organization at Pfam

Protein Modifications (PSI-MOD)

Term IDTerm NameEvidenceResidueReference
MOD:00696phosphorylated residuePMID:19547744

Manually Curated Family or Sub-families

Term IDTerm NameReferenceAll Genes
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
Sequence
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Gene Expression
DescriptionEvidenceDuringConditionRangeAverage per CellReference
deletion mutant expression profiling PMID:19620282
protein levelexperimental evidencePECO:0000014,
PECO:0000005		population_wide103.33PMID:23101633
experimental evidencecell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127		population_widePMID:23101633
RNA levelexperimental evidencecell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005		population_wide0.4PMID:23101633
experimental evidencePECO:0000014,
PECO:0000005		population_wide1.1PMID:23101633
Misc
DescriptionQualifierReference
target of proteasomeInferred from Physical Interaction PMID:20976105
target of chaperonin-containing T-complexInferred from Physical Interaction PMID:20976105
Miscellaneous Functional Group
DescriptionQualifierReference
histone chaperone
Species Distribution
DescriptionQualifierReference
predominantly single copy (one to one)
conserved in fungi
conserved in eukaryotes
conserved in metazoa
conserved in vertebrates
conserved in eukaryotes only
Manually curated orthologous groups
SpeciesGeneDescription

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Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
mrc1mediator of replication checkpoint 1 Synthetic Growth DefectPMID:18931302
rud3Golgi matrix protein Rud3 (predicted) Synthetic Growth DefectPMID:18931302
cdr2serine/threonine protein kinase Cdr2 Phenotypic EnhancementPMID:10835386
hst2Sir2 family histone deacetylase Hst2 Synthetic Growth DefectPMID:18931302
mmd1deoxyhypusine hydroxylase (predicted) Synthetic Growth DefectPMID:18931302
cdc25M phase inducer phosphatase Cdc25 Synthetic Growth DefectPMID:9843572
Phenotypic SuppressionPMID:10835386
ctu1cytosolic thiouridylase subunit Ctu1 Synthetic Growth DefectPMID:18931302
pli1SUMO E3 ligase Pli1 Synthetic Growth DefectPMID:18931302
pyp2tyrosine phosphatase Pyp2 Synthetic Growth DefectPMID:18931302
pht1histone H2A variant H2A.Z, Pht1 Synthetic Growth DefectPMID:18931302
sgf73SAGA complex subunit Sgf73 Synthetic Growth DefectPMID:18931302
ash2Ash2-trithorax family protein Synthetic Growth DefectPMID:18931302
swc2Swr1 complex complex subunit Swc2 Synthetic Growth DefectPMID:18931302
set1histone lysine methyltransferase Set1 Synthetic Growth DefectPMID:18931302
cdr1NIM1 family serine/threonine protein kinase Cdr1/Nim1 Phenotypic EnhancementPMID:10835386
swd1Set1C complex subunit Swd1 Phenotypic SuppressionPMID:19547744
rik1silencing protein Rik1 Synthetic Growth DefectPMID:18931302
fhl1forkhead transcription factor Fhl1 Synthetic Growth DefectPMID:18931302
pmt3SUMO Synthetic Growth DefectPMID:18931302
pof9F-box protein Pof9 Synthetic Growth DefectPMID:18931302
res2MBF transcription factor complex subunit Res2 Synthetic Growth DefectPMID:18931302
pof3F-box protein Pof3 Synthetic Growth DefectPMID:18931302
wee1M phase inhibitor protein kinase Wee1 Synthetic Growth DefectPMID:9843572
Phenotypic SuppressionPMID:10835386
alg6glucosyltransferase Alg6 (predicted) Synthetic Growth DefectPMID:18931302
hos2histone deacetylase (class I) Hos2 Synthetic Growth DefectPMID:18931302
ctf18RFC-like complex subunit Ctf18 Synthetic Growth DefectPMID:18931302
swi6HP1 family chromodomain protein Swi6 Synthetic Growth DefectPMID:18931302
spf1Set1C PHD Finger protein Spf1 Synthetic Growth DefectPMID:18931302
ies2Ino80 complex subunit Ies2 Synthetic Growth DefectPMID:18931302
cul3cullin 3 Synthetic Growth DefectPMID:18931302
mak10NatC N-acetyltransferase complex subunit Mak10 (predicted) Synthetic Growth DefectPMID:18931302
SPAC3G9.05GTPase activating protein (predicted) Synthetic Growth DefectPMID:18931302
Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
rpt219S proteasome regulatory subunit Rpt2 Affinity Capture-MSPMID:20976105
atp2F1-ATPase beta subunit Atp2 Affinity Capture-MSPMID:20976105
vma2V-type ATPase V1 subunit B Affinity Capture-MSPMID:20976105
pss1heat shock protein Pss1 Affinity Capture-MSPMID:20976105
atb2tubulin alpha 2 Affinity Capture-MSPMID:20976105
cct6chaperonin-containing T-complex zeta subunit Cct6 Affinity Capture-MSPMID:20976105
dfr1dihydrofolate reductase Dfr1 Affinity Capture-MSPMID:20976105
mts419S proteasome regulatory subunit Mts4 Affinity Capture-MSPMID:20976105
hip1hira protein, histone chaperone Hip1 Affinity Capture-WesternPMID:15121850
Affinity Capture-MSPMID:16428807
Co-localization
Affinity Capture-MSPMID:20976105
trs1cytoplasmic threonine-tRNA ligase Trs1 (predicted) Affinity Capture-MSPMID:20976105
SPCC1827.06caspartate semialdehyde dehydrogenase (predicted) Affinity Capture-MSPMID:20976105
sir1sulfite reductase Sir1 Affinity Capture-MSPMID:20976105
ura1carbamoyl-phosphate synthase (glutamine hydrolyzing), aspartate carbamoyltransferase Ura1 Affinity Capture-MSPMID:20976105
SPAC17A5.15cglutamate-tRNA ligase (predicted) Affinity Capture-MSPMID:20976105
rvb1AAA family ATPase Rvb1 Affinity Capture-MSPMID:20976105
vrs2mitochondrial valine-tRNA ligase Vrs2/Vas2 Affinity Capture-MSPMID:20976105
rpt319S proteasome regulatory subunit Rpt3 (predicted) Affinity Capture-MSPMID:20976105
rad2414-3-3 protein Rad24 Affinity Capture-MSPMID:20976105
pgk1phosphoglycerate kinase Pgk1 (predicted) Affinity Capture-MSPMID:20976105
SPBC365.16conserved protein Affinity Capture-MSPMID:20976105
anc1mitochondrial adenine nucleotide carrier Anc1 Affinity Capture-MSPMID:20976105
cia1histone chaperone Cia1 Affinity Capture-MSPMID:21211723
cct4chaperonin-containing T-complex delta subunit Cct4 Affinity Capture-MSPMID:20976105
gpd1glycerol-3-phosphate dehydrogenase Gpd1 Affinity Capture-MSPMID:20976105
cct1chaperonin-containing T-complex alpha subunit Cct1 Affinity Capture-MSPMID:20976105
hip3HIRA interacting protein Hip3 Affinity Capture-WesternPMID:16428807
Affinity Capture-MS
Affinity Capture-MSPMID:20976105
nda3tubulin beta Nda3 Affinity Capture-MSPMID:20976105
tef3translation elongation factor eEF3 Affinity Capture-MSPMID:20976105
cct8chaperonin-containing T-complex theta subunit Cct8 Affinity Capture-MSPMID:20976105
lys4homocitrate synthase Affinity Capture-MSPMID:20976105
rpt419S proteasome regulatory subunit Rpt4 (predicted) Affinity Capture-MSPMID:20976105
fba1fructose-bisphosphate aldolase Fba1 Affinity Capture-MSPMID:20976105
cdc48AAA family ATPase Cdc48 Affinity Capture-MSPMID:20976105
cts1CTP synthase Cts1 (predicted) Affinity Capture-MSPMID:20976105
rpt519S proteasome regulatory subunit Rpt5 (predicted) Affinity Capture-MSPMID:20976105
hsp90Hsp90 chaperone Affinity Capture-MSPMID:20976105
ilv1acetolactate synthase catalytic subunit Affinity Capture-MSPMID:20976105
ssa1heat shock protein Ssa1 (predicted) Affinity Capture-MSPMID:20976105
rpt119S proteasome regulatory subunit Rpt1 (predicted) Affinity Capture-MSPMID:20976105
hip4histone promoter control protein Hip4 Affinity Capture-MSPMID:20976105
Affinity Capture-Western
ade1phosphoribosylamine-glycine ligase/phosphoribosylformylglycinamidine cyclo-ligase Affinity Capture-MSPMID:20976105
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External References
Database Identifier Description
NBRP SPBC15D4.03 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC15D4.03 Retrieval of eukaryotic orthologs
BioGrid SPBC15D4.03 BioGRID Interaction Datasets
Bähler Lab SPBC15D4.03 Cell Cycle Expression Profile
Bähler Lab SPBC15D4.03 Meiosis/Sporulation Expression Profies
Bähler Lab SPBC15D4.03 Pheromone response/mating expression profiles
Bähler Lab SPBC15D4.03 Environmental stress expression profiles
Bähler Lab SPBC15D4.03 Bähler Lab Transcriptome Viewer
Cyclebase SPBC15D4.03 Cell Cycle Data
PInt SPBC15D4.03 Bähler Lab Protein-Protein Interaction Predictor
Entrez Gene SPBC15D4.03 Entrez Gene
WikiGene2540128hira protein Slm9
Uniprot_genenameSLM9
EntrezGene2540128hira protein Slm9
UniProtKB/SwissProtO74309Histone transcription regulator slm9
ModBaseO74309Database of comparative protein structure models
Pfam Protein DomainsO74309Pfam Domain Arrangement
RefSeq PeptideNP_596243hira protein Slm9
RefSeq mRNANM_001022162972h- hira protein Slm9 (slm9), mRNA
European Nucleotide ArchiveCAA20478ENA Protein Mapping
SPD / RIKEN39/39F12Orfeome Localization Data
UniParcUPI0000135A1CUniProt Archive

Literature for slm9
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Search: UK PMC or PubMed

Release Version: PomBase:18_35 - 11 May 2013