ssr1 (SPAC17G6.10)


Gene Standard Namessr1 Characterisation Statuspublished
Systematic IDSPAC17G6.10 Feature Typeprotein coding
Synonyms Name DescriptionSwi/Snf RSC
ProductSWI/SNF and RSC complex subunit Ssr1 Product Size527aa, 59.64 kDa
Genomic Location Chromosome I, 3605621-3607454 (1834nt); CDS:3605798-3607381 (1584nt)

Ensembl Gene Location
GO Molecular Function
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0003677DNA bindingIEAIPR009057GO_REF:0000002385
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0006338chromatin remodelingISOSGD:S000001933GO_REF:0000024157
GO:0000122negative regulation of transcription from RNA polymerase II promoterNASPMID:1862239277
GO:0045944positive regulation of transcription from RNA polymerase II promoterNASPMID:1862239282
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0016586RSC complexIDAPMID:1862239213
GO:0016514SWI/SNF complexIDAPMID:1862239212
GO:0005829cytosolIDAPMID:168233722316
GO:0000790nuclear chromatinICGO:0016514GO_REF:0000001278
GO:0005634nucleusIDAPMID:168233722740
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002061inviable vegetative cell populationMicroscopyssr1ΔNullPECO:0000005, PECO:0000137PMID:236978061315
Microscopyssr1ΔNullPMID:20473289
ssr1ΔNullPMID:18622392

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002451inviable vegetative cell with abnormal cell shapeMicroscopyssr1ΔNullPECO:0000005, PECO:0000137PMID:23697806451
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
136056213607454

UTRs

Region Coordinates Reference
five_prime_UTR3605621..3605797PMID:21511999
three_prime_UTR3607382..3607454PMID: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
PF00249 Pfam IPR001005 SANT/Myb domain 292 334 11
PF04433 Pfam IPR007526 SWIRM domain 53 140 7
SM00717 SMART IPR001005 SANT/Myb domain 289 337 15
PS50934 Prosite Profiles IPR007526 SWIRM domain 52 149 7
PS51293 Prosite Profiles IPR017884 SANT domain 288 339 5
PTHR12802 HMMPANTHER 1 527 2
PTHR12802:SF41 HMMPANTHER 1 527 2
1.10.10.60 Gene3D IPR009057 Homeodomain-like 292 334 21
1.10.10.10 Gene3D IPR011991 Winged helix-turn-helix DNA-binding domain 51 154 44
SSF46689 SuperFamily IPR009057 Homeodomain-like 291 335 25
SSF46689 SuperFamily IPR009057 Homeodomain-like 48 154 25

View domain organization at Pfam

Manually Curated Family or Sub-families

Term IDTerm NameReferenceCount
PBO:0001260Myb familyTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0001260

Protein Properties

Ave. residue weight 113.17 Da
Charge -11.50
Isoelectric point 5.07
Molecular weight 59.64 kDa
Number of residues 527
Modifications

Protein Modifications

Term IDTerm NameEvidenceResidueReferenceCount
MOD:00046O-phospho-L-serineS527PMID:217125471663
present during mitotic M phase
present during mitotic M phaseS525PMID:21712547
MOD:00696phosphorylated residueNASPMID:195477441915
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
3750.94during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633
13737during GO:0072690PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
8935.13during GO:0072690PECO:0000014,
PECO:0000005
experimental evidencePMID:23101633
13375during GO:0000087PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
13811during GO:0000085PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
13157during GO:0000084PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
14378during GO:0000080PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107

RNA Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
2.9during GO:0072690PECO:0000014,
PECO:0000005
experimental evidencePMID:23101633
0.72during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3080
conserved in fungi4569
conserved in eukaryotes4482
conserved in metazoa3419
conserved in vertebrates3393
conserved in eukaryotes only2487
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
snf21ATP-dependent DNA helicase Snf21 Affinity Capture-MSPMID:18622392
snf59SWI/SNF complex subunit Snf59 Affinity Capture-MSPMID:18622392
rsc7RSC complex subunit Rsc7 Affinity Capture-MSPMID:18622392
cbf11CBF1/Su(H)/LAG-1 family transcription factor Cbf11 Affinity Capture-MSPMID:22540037
hhp1serine/threonine protein kinase Hhp1 Affinity Capture-MSPMID:24055157
snf5SWI/SNF complex subunit Snf5 Affinity Capture-MSPMID:18622392
snf22ATP-dependent DNA helicase Snf22 Affinity Capture-MSPMID:18622392
sfh1RSC complex subunit Sfh1 Affinity Capture-MSPMID:18622392
rsc1RSC complex subunit Rsc1 Affinity Capture-MSPMID:18622392
snf30SWI/SNF complex subunit Snf30 Affinity Capture-MSPMID:18622392
hhp2serine/threonine protein kinase Hhp2 Affinity Capture-MSPMID:24055157
External References
Database Identifier Description
NBRP SPAC17G6.10 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAC17G6.10 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPAC17G6.10 BioGRID Interaction Datasets
Expression Viewer SPAC17G6.10 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPAC17G6.10 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPAC17G6.10 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPAC17G6.10 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPAC17G6.10 Polyadenylation Viewer (Gullerova lab)
pombeTV SPAC17G6.10 Transcriptome Viewer (Bähler Lab)
Cyclebase SPAC17G6.10 Cell Cycle Data
GEO SPAC17G6.10 GEO profiles
PInt SPAC17G6.10 Protein-Protein Interaction Predictor (Bähler Lab)
WikiGene2542400SWI/SNF and RSC complex subunit Ssr1
EntrezGene2542400SWI/SNF and RSC complex subunit Ssr1
SPD / RIKEN25/25E05Orfeome Localization Data
UniProtKB/SwissProtO13788SWI/SNF and RSC complexes subunit ssr1
ModBaseO13788Database of comparative protein structure models
STRINGO13788Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_594257SWI/SNF and RSC complex subunit Ssr1
RefSeq mRNANM_001019680972h- SWI/SNF and RSC complex subunit Ssr1 (ssr1), mRNA
European Nucleotide ArchiveCAB16221ENA Protein Mapping
European Nucleotide ArchiveCAB16221.1ENA Protein Mapping
UniParcUPI000006C3B6UniProt Archive

Literature for ssr1

Search: Europe PMC or PubMed

Release Version: PomBase:22_44 - 08 Jul 2014