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 NameCount
DNA binding379
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
GO Cellular Component
Term NameCount
cytosol2314
Annotation ExtensionEvidenceWith/FromReference
nuclear chromatin318
Annotation ExtensionEvidenceWith/FromReference
nucleus2696
Annotation ExtensionEvidenceWith/FromReference
RSC complex13
Annotation ExtensionEvidenceWith/FromReference
SWI/SNF complex12
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Inviable

Population Phenotype

Term NameAlleleExpressionCount
inviable vegetative cell populationssr1ΔNull1438

Cell Phenotype

Term NameAlleleExpressionCount
inviable vegetative cell with abnormal cell shapessr1ΔNull472
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons3605621..3607454
mRNA3605621..3607454
5' UTR3605621..3605797PMID:21511999
CDS3605798..3607381
3' 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
PF04433 Pfam IPR007526 SWIRM domain 53 140 7
PF00249 Pfam IPR001005 SANT/Myb domain 292 334 9
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:SF41 HMMPANTHER 1 527 2
PTHR12802 HMMPANTHER 1 527 2
1.10.10.60 Gene3D IPR009057 Homeodomain-like 292 334 24
1.10.10.10 Gene3D IPR011991 Winged helix-turn-helix DNA-binding domain 51 154 46
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 NameResidueCount
O-phospho-L-serine 1672
present during mitotic M phaseS527
present during mitotic M phaseS525
Annotation ExtensionEvidenceResidueReference
present during mitotic M phase experimental evidence S525 PMID:21712547
present during mitotic M phase experimental evidence S527 PMID:21712547
phosphorylated residue 1927
Annotation ExtensionEvidenceResidueReference
IDA PMID:19547744
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

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

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
2.9during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
0.72during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population wideexperimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3092
conserved in fungi4603
conserved in eukaryotes4514
conserved in metazoa3424
conserved in vertebrates3399
conserved in eukaryotes only2501
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
affinity captured bycbf11CBF1/Su(H)/LAG-1 family transcription factor Cbf11 Affinity Capture-MSPMID:22540037
affinity captured bymtl1TRAMP complex ATP-dependent RNA helicase (predicted) Affinity Capture-MSPMID:24713849
affinity captured bypir2zf-C2H2 type zinc finger protein, implicated in RNAi (predicted) Affinity Capture-MSPMID:24713849
affinity captured byred1RNA elimination defective protein Red1 Affinity Capture-MSPMID:24713849
affinity captured byrsc1RSC complex subunit Rsc1 Affinity Capture-MSPMID:18622392
affinity captured byrsc7RSC complex subunit Rsc7 Affinity Capture-MSPMID:18622392
affinity captured bysfh1RSC complex subunit Sfh1 Affinity Capture-MSPMID:18622392
affinity captured bysnf21ATP-dependent DNA helicase Snf21 Affinity Capture-MSPMID:18622392
affinity captured bysnf22ATP-dependent DNA helicase Snf22 Affinity Capture-MSPMID:18622392
affinity captured bysnf30SWI/SNF complex subunit Snf30 Affinity Capture-MSPMID:18622392
affinity captured bysnf5SWI/SNF complex subunit Snf5 Affinity Capture-MSPMID:18622392
affinity captured bysnf59SWI/SNF complex subunit Snf59 Affinity Capture-MSPMID:18622392
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)
GEO SPAC17G6.10 GEO profiles
PInt SPAC17G6.10 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPAC17G6.10 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPAC17G6.10 Fission yeast phenotypic data & analysis
Cyclebase SPAC17G6.10.1 Cell Cycle Data
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 ArchiveCAB16221.1ENA Protein Mapping
UniParcUPI000006C3B6UniProt Archive

Literature for ssr1

Search: Europe PMC or PubMed

Release Version: PomBase:26_53 - 27 May 2015