SPCC550.03c


Gene Standard NameUnassigned Characterisation Statusbiological_role_inferred
Systematic IDSPCC550.03c Feature Typeprotein coding
Synonyms Name Description
ProductSki complex RNA helicase Ski2 (predicted) Product Size1213aa, 138.03 kDa
Genomic Location Chromosome III, 1191396-1187669 (3728nt); CDS:1191376-1187735 (3642nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
ATP binding558
Annotation ExtensionEvidenceWith/FromReference
RNA helicase activity41
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
GO Cellular Component
Term NameCount
cytoplasm4207
Annotation ExtensionEvidenceWith/FromReference
cytosol2314
Annotation ExtensionEvidenceWith/FromReference
nucleolus359
Annotation ExtensionEvidenceWith/FromReference
Ski complex3
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Population Phenotype

Term NameAlleleExpressionCount
sensitive to bortezomibSPCC550.03cΔNull256
sensitive to cadmiumSPCC550.03cΔNull246
sensitive to salt stressSPCC550.03cΔNull88
viable vegetative cell populationSPCC550.03cΔNull3795

Cell Phenotype

Term NameAlleleExpressionCount
viable vegetative cell with normal cell morphologySPCC550.03cΔNull3093
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons1191396..1187669
mRNA1191396..1187669
5' UTR1191396..1191377PMID:21511999
CDS1191376..1187735
3' UTR1187734..1187669PMID: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
PF13234 Pfam IPR025696 rRNA-processing arch domain 747 848 3
PF08148 Pfam IPR012961 DSH, C-terminal 1033 1213 3
PF00270 Pfam IPR011545 DEAD/DEAH box helicase domain 284 430 43
PF00271 Pfam IPR001650 Helicase, C-terminal 617 692 68
SM00487 SMART IPR014001 Helicase superfamily 1/2, ATP-binding domain 277 460 69
SM00490 SMART IPR001650 Helicase, C-terminal 606 692 68
PS51194 Prosite Profiles IPR001650 Helicase, C-terminal 545 736 69
PS51192 Prosite Profiles IPR014001 Helicase superfamily 1/2, ATP-binding domain 289 445 69
PTHR11752:SF62 HMMPANTHER 46 1213 1
PTHR11752 HMMPANTHER 46 1213 6
3.40.50.300 Gene3D IPR027417 P-loop containing nucleoside triphosphate hydrolase 535 576 288
3.40.50.300 Gene3D IPR027417 P-loop containing nucleoside triphosphate hydrolase 616 701 288
3.40.50.300 Gene3D IPR027417 P-loop containing nucleoside triphosphate hydrolase 278 454 288
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 612 704 294
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 295 430 294
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 515 572 294
PIRSF005198 PIRSF IPR016438 RNA helicase, ATP-dependent, SK12/DOB1 1 1213 3
Coil ncoils Rabaptin coiled-coil domain 763 791 968

View domain organization at Pfam

Manually Curated Family or Sub-families

Term IDTerm NameReferenceCount
PBO:0000174DEAD/DEAH box helicaseTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0000174

Protein Properties

Ave. residue weight 113.79 Da
Charge 3.50
Isoelectric point 6.72
Molecular weight 138.03 kDa
Number of residues 1213
Modifications

Protein Modifications

Term NameResidueCount
O-phospho-L-serineS143 1672
present during mitotic M phaseS143
Annotation ExtensionEvidenceResidueReference
experimental evidence S143 PMID:24763107
present during mitotic M phase experimental evidence S143 PMID:21712547
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
8449during GO:0000080PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
8279during GO:0000084PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
7505during GO:0000085PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
7902during GO:0000087PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
1068.48during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
8749during GO:0072690PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
996.6during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
2.1during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
0.86during 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 fungi4604
conserved in eukaryotes4516
conserved in metazoa3430
conserved in vertebrates3405
conserved in eukaryotes only2502
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
positive genetic interaction withatp11mitochondrial F1-ATPase chaperone Atp11 (predicted) Positive GeneticPMID:22681890
negative genetic interaction withbdf1Swr1 complex bromodomain subunit Brf1 Negative GeneticPMID:18818364
negative genetic interaction withcaf4CCR4-Not complex subunit Caf4/Mdv1 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withcbh1CENP-B homolog Cbh1 Negative GeneticPMID:22681890
negative genetic interaction withcdt2WD repeat protein Cdt2 Negative GeneticPMID:22681890
negative genetic interaction withcho1phosphatidyl-N-methylethanolamine N-methyltransferase (predicted) Negative GeneticPMID:18818364
positive genetic interaction withcpd1tRNA (m1A) methyltransferase complex catalytic subunit Cpd1 Positive GeneticPMID:18818364
negative genetic interaction withcph2Clr6 histone deacetylase associated PHD protein-2 Cph2 Negative GeneticPMID:22681890
negative genetic interaction withcwf19complexed with Cdc5 protein Cwf19 Negative GeneticPMID:22681890
negative genetic interaction withcyp7cyclophilin family peptidyl-prolyl cis-trans isomerase Cyp7 (predicted) Negative GeneticPMID:18818364
negative genetic interaction withdsc5UBX domain containing protein required for Sre1 cleavage Negative GeneticPMID:22681890
positive genetic interaction withelp3elongator complex subunit Elp3 (predicted) Positive GeneticPMID:18818364
synthetic lethal withexo2exonuclease II Exo2 Synthetic LethalityPMID:23503588
positive genetic interaction withfbh1DNA helicase I, ubiquitin ligase F-box adaptor Fbh1 Positive GeneticPMID:18818364
positive genetic interaction withfft3SMARCAD1 family ATP-dependent DNA helicase Fft3 Positive GeneticPMID:18818364
positive genetic interaction withfft3SMARCAD1 family ATP-dependent DNA helicase Fft3 Positive GeneticPMID:22681890
negative genetic interaction withfhl1forkhead transcription factor Fhl1 Negative GeneticPMID:22681890
positive genetic interaction withfin1serine/threonine protein kinase, NIMA related Fin1 Positive GeneticPMID:18818364
negative genetic interaction withfta6Mis6-Sim4 complex Fta6 Negative GeneticPMID:22681890
negative genetic interaction withhip1hira protein, histone chaperone Hip1 Negative GeneticPMID:18818364
negative genetic interaction withhip1hira protein, histone chaperone Hip1 Negative GeneticPMID:22681890
negative genetic interaction withhip4histone promoter control protein Hip4 Negative GeneticPMID:18818364
negative genetic interaction withhip4histone promoter control protein Hip4 Negative GeneticPMID:22681890
negative genetic interaction withhrd1synviolin family ubiquitin-protein ligase E3, Hrd1 Negative GeneticPMID:18818364
negative genetic interaction withhrp1ATP-dependent DNA helicase Hrp1 Negative GeneticPMID:18818364
positive genetic interaction withlaf1clr6 L associated factor 1 Laf1 Positive GeneticPMID:18818364
negative genetic interaction withluc7U1 snRNP-associated protein Luc7 Negative GeneticPMID:22681890
negative genetic interaction withmsc1multi-copy suppressor of Chk1 Negative GeneticPMID:18818364
negative genetic interaction withmug154conserved fungal protein Negative GeneticPMID:22681890
negative genetic interaction withmug81ATP-dependent RNA helicase Slh1, human ASCC3 ortholog (predicted) Negative GeneticPMID:18818364
negative genetic interaction withmug81ATP-dependent RNA helicase Slh1, human ASCC3 ortholog (predicted) Negative GeneticPMID:22681890
negative genetic interaction withpab2poly(A) binding protein Pab2 Negative GeneticPMID:18818364
negative genetic interaction withpar2protein phosphatase regulatory subunit Par2 Negative GeneticPMID:18818364
negative genetic interaction withpek1MAP kinase kinase Pek1 Negative GeneticPMID:22681890
positive genetic interaction withplb1phospholipase B homolog Plb1 Positive GeneticPMID:22681890
positive genetic interaction withptc3protein phosphatase 2c homolog 3 Positive GeneticPMID:18818364
negative genetic interaction withrad2514-3-3 protein Rad25 Negative GeneticPMID:22681890
negative genetic interaction withrap1telomere binding protein Rap1 Negative GeneticPMID:18818364
negative genetic interaction withres1MBF transcription factor complex subunit Res1 Negative GeneticPMID:22681890
negative genetic interaction withrga3Rho-type GTPase activating protein Rga3 Negative GeneticPMID:22681890
positive genetic interaction withrok1ATP-dependent RNA helicase Rok1 (predicted) Positive GeneticPMID:18818364
negative genetic interaction withsck2serine/threonine protein kinase Sck2 Negative GeneticPMID:24463365
negative genetic interaction withset1histone lysine methyltransferase Set1 Negative GeneticPMID:18818364
negative genetic interaction withSPBC16H5.13WD repeat protein, human WDR7 ortholog Negative GeneticPMID:18818364
negative genetic interaction withSPBC21C3.03ABC1 kinase family protein Negative GeneticPMID:22681890
negative genetic interaction withSPBC31F10.10czf-MYND type zinc finger protein Negative GeneticPMID:18818364
negative genetic interaction withSPBC56F2.08cRNA-binding protein (predicted) Negative GeneticPMID:18818364
negative genetic interaction withSPCC306.07cU3 snoRNP-associated protein Cic1/Utp30 family (predicted) Negative GeneticPMID:22681890
negative genetic interaction withspn1mitotic septin Spn1 Negative GeneticPMID:18818364
negative genetic interaction withsrb11cyclin CycC, Srb mediator subunit Srb11 Negative GeneticPMID:18818364
negative genetic interaction withsrb7mediator complex subunit Srb7 Negative GeneticPMID:18818364
negative genetic interaction withsre2membrane-tethered transcription factor Sre2 Negative GeneticPMID:21504829
negative genetic interaction withsre2membrane-tethered transcription factor Sre2 Negative GeneticPMID:22681890
negative genetic interaction withstn1telomere cap complex subunit Stn1 Negative GeneticPMID:22681890
negative genetic interaction withsty1MAP kinase Sty1 Negative GeneticPMID:22681890
negative genetic interaction withsum2G2/M transition checkpoint protein Sum2 Negative GeneticPMID:18818364
negative genetic interaction withsum2G2/M transition checkpoint protein Sum2 Negative GeneticPMID:22681890
negative genetic interaction withswd1Set1C complex subunit Swd1 Negative GeneticPMID:22681890
negative genetic interaction withswd2Set1C complex subunit Swd2.1 Negative GeneticPMID:18818364
negative genetic interaction withtea5pseudokinase Tea5 Negative GeneticPMID:22681890
positive genetic interaction withtma23ribosome biogenesis protein Tma23 (predicted) Positive GeneticPMID:18818364
negative genetic interaction withtoc1Tor complex Tor2 interacting protein 1 Negative GeneticPMID:22681890
positive genetic interaction withtom70mitochondrial TOM complex subunit Tom70 (predicted) Positive GeneticPMID:22681890
negative genetic interaction withtps1alpha,alpha-trehalose-phosphate synthase Negative GeneticPMID:22681890
negative genetic interaction withubc6ubiquitin conjugating enzyme E2 Ubc6 (predicted) Negative GeneticPMID:18818364
negative genetic interaction withubc6ubiquitin conjugating enzyme E2 Ubc6 (predicted) Negative GeneticPMID:22681890
positive genetic interaction withvph2endoplasmic reticulum membrane protein involved in assembly of the V-ATPase (predicted) Positive GeneticPMID:22681890
negative genetic interaction withyaf9YEATS family histone acetyltransferase subunit Yaf9 Negative GeneticPMID:18818364
negative genetic interaction withypa1protein phosphatase type 2A regulator, PTPA family Ypa1 Negative GeneticPMID:22681890
External References
Database Identifier Description
NBRP SPCC550.03c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPCC550.03c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPCC550.03c BioGRID Interaction Datasets
Expression Viewer SPCC550.03c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPCC550.03c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPCC550.03c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPCC550.03c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPCC550.03c Polyadenylation Viewer (Gullerova lab)
pombeTV SPCC550.03c Transcriptome Viewer (Bähler Lab)
GEO SPCC550.03c GEO profiles
PInt SPCC550.03c Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPCC550.03c Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPCC550.03c Fission yeast phenotypic data & analysis
Cyclebase SPCC550.03c.1 Cell Cycle Data
SPD / RIKEN39/39B10Orfeome Localization Data
UniProtKB/SwissProtO59801Putative ATP-dependent RNA helicase C550.03c
ModBaseO59801Database of comparative protein structure models
STRINGO59801Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_588095Ski complex RNA helicase Ski2 (predicted)
RefSeq mRNANM_001023086972h- Ski complex RNA helicase Ski2 (predicted) (SPCC550.03c), mRNA
European Nucleotide ArchiveCAA19107.1ENA Protein Mapping
UniParcUPI0000069A65UniProt Archive

Literature for SPCC550.03c

Search: Europe PMC or PubMed

Release Version: PomBase:26_51 - 07 Apr 2015