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:0000024156
GO:0000122negative regulation of transcription from RNA polymerase II promoterNASPMID:1862239274
GO:0045944positive regulation of transcription from RNA polymerase II promoterNASPMID:1862239285
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0016586RSC complexIDAPMID:1862239213
GO:0016514SWI/SNF complexIDAPMID:1862239212
GO:0005829cytosolIDAPMID:168233722317
GO:0000790nuclear chromatinICGO:0016514GO_REF:0000001247
GO:0005634nucleusIDAPMID:168233722730
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002061inviable vegetative cell populationssr1ΔNullPMID:186223921309
Microscopyssr1ΔNullPECO:0000005, PECO:0000137PMID:23697806
Microscopyssr1ΔNullPMID:20473289

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002451inviable vegetative cell with abnormal cell shapeMicroscopyssr1ΔNullPECO:0000005, PECO:0000137PMID:23697806441
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
136056213607454

UTRs

Region Start End Reference
three_prime_UTR36073823607454PMID:21511999
five_prime_UTR36056213605797PMID: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
PF04433 Pfam IPR007526 SWIRM domain 53 140 7
PF00249 Pfam IPR001005 SANT/Myb domain 292 334 11
SM00717 SMART IPR001005 SANT/Myb domain 289 337 15
PS51293 Prosite Profiles IPR017884 SANT domain 288 339 5
PS50934 Prosite Profiles IPR007526 SWIRM domain 52 149 7
PTHR12802:SF6 HMMPANTHER 1 503 2
PTHR12802 HMMPANTHER 1 503 2
G3DSA:1.10.10.60 Gene3D IPR009057 292 334 21
G3DSA:1.10.10.10 Gene3D IPR011991 51 154 44
SSF46689 SuperFamily IPR009057 48 154 25
SSF46689 SuperFamily IPR009057 291 335 25
Low complexity (SEG) seg 166 183
Low complexity (SEG) seg 414 426

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:00696phosphorylated residuePMID:195477441192
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
3750.94during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
8935.13during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
0.72during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
2.9during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3080
conserved in fungi4564
conserved in eukaryotes4482
conserved in metazoa3419
conserved in vertebrates3394
conserved in eukaryotes only2485
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
UniParcUPI000006C3B6UniProt Archive

Literature for ssr1

Search: Europe PMC or PubMed

Release Version: PomBase:21_41 - 24 Feb 2014