SPBC582.10c


Gene Standard NameUnassigned Characterisation Statusbiological_role_inferred
Systematic IDSPBC582.10c Feature Typeprotein coding
Synonyms Name Description
ProductATP-dependent DNA helicase Rhp16b (predicted) Product Size830aa, 93.95 kDa
Genomic Location Chromosome II, 439017-436090 (2928nt); CDS:438777-436233 (2545nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
ATP binding558
Annotation ExtensionEvidenceWith/FromReference
DNA binding383
Annotation ExtensionEvidenceWith/FromReference
DNA-dependent ATPase activity65
Annotation ExtensionEvidenceWith/FromReference
helicase activity94
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process

GO Slim Terms

DNA repair


Term NameCount
nucleotide-excision repair28
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytoplasm4205
Annotation ExtensionEvidenceWith/FromReference
cytosol2315
Annotation ExtensionEvidenceWith/FromReference
nucleotide-excision repair factor 4 complex1
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002060viable vegetative cell populationMicroscopySPBC582.10cΔNullPMID:126183703759
MicroscopySPBC582.10cΔNullPMID:20473289
MicroscopySPBC582.10cΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002177viable vegetative cell with normal cell morphology3089
penetrance FYPO_EXT:0000001MicroscopySPBC582.10cΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
1439017437989
2437936436090

UTRs

Region Coordinates Reference
five_prime_UTR439017..438778PMID:21511999
three_prime_UTR436232..436090PMID: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
PF00271 Pfam IPR001650 Helicase, C-terminal 689 767 68
PF00176 Pfam IPR000330 SNF2-related 236 554 20
SM00487 SMART IPR014001 Helicase, superfamily 1/2, ATP-binding domain 229 445 69
SM00490 SMART IPR001650 Helicase, C-terminal 684 767 68
PS51192 Prosite Profiles IPR014001 Helicase, superfamily 1/2, ATP-binding domain 249 433 69
PS51194 Prosite Profiles IPR001650 Helicase, C-terminal 662 816 69
PTHR10799 HMMPANTHER 210 828 21
PTHR10799:SF232 HMMPANTHER 210 828 1
3.40.50.300 Gene3D 646 799 288
3.40.50.300 Gene3D 230 432 288
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 210 472 294
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 639 827 294
SSF52540 SuperFamily IPR027417 P-loop containing nucleoside triphosphate hydrolase 491 573 294
Coil ncoils Rabaptin coiled-coil domain 780 801 968

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
PBO:0000175helicase C-terminal domainTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0000175

Protein Properties

Ave. residue weight 113.19 Da
Charge 40.00
Isoelectric point 9.91
Molecular weight 93.95 kDa
Number of residues 830
Modifications

Protein Modifications

Term IDTerm NameEvidenceResidueReferenceCount
MOD:00046O-phospho-L-serineexperimental evidenceS812PMID:217125471670
present during mitotic M phase
present during cellular response to thiabendazoleIDAS712PMID:18257517
MOD:00696phosphorylated residueNASPMID:182575171922
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
1280during GO:0000080PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
1129during GO:0000084PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
1233during GO:0000085PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
1442during GO:0000087PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
1279during GO:0072690PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
NDduring cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
0.73during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
0.23during 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 fungi4600
conserved in eukaryotes4514
conserved in eukaryotes only2497
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
mal3EB1 family Mal3 Positive GeneticPMID:22681890
meu10GPI anchored cell surface protein involved in ascospore wall assembly Meu10 Positive GeneticPMID:22681890
spp27RNA polymerase I upstream activation factor complex subunit Spp27 Negative GeneticPMID:22681890
SPAP8A3.07cphospho-2-dehydro-3-deoxyheptonate aldolase (predicted) Negative GeneticPMID:22681890
cgs2cAMP-specific phosphodiesterase Cgs2 Positive GeneticPMID:22681890
ste20Rictor homolog, Ste20 Positive GeneticPMID:22681890
dep1Sds3-like family protein Dep1 Positive GeneticPMID:22681890
alg12dolichyl pyrophosphate Man7GlcNAc2 alpha-1,6-mannosyltransferase Alg12 (predicted) Negative GeneticPMID:22681890
gar2nucleolar protein required for rRNA processing Positive GeneticPMID:22681890
SPBC16H5.13WD repeat protein, human WDR7 ortholog Negative GeneticPMID:18818364
dsc2Golgi Dsc E3 ligase complex subunit Dsc2 Negative GeneticPMID:21504829
cia1histone chaperone Cia1 Positive GeneticPMID:18818364
alm1medial ring protein Alm1 Negative GeneticPMID:22681890
SPBC31F10.02acyl-CoA hydrolase (predicted) Positive GeneticPMID:22681890
cid12poly(A) polymerase Cid12 Positive GeneticPMID:18818364
hmt2sulfide-quinone oxidoreductase Positive GeneticPMID:22681890
SPBC725.10tspO homolog, involved in the cytoplasmic to mitochondrial transport of haem (predicted) Positive GeneticPMID:22681890
External References
Database Identifier Description
NBRP SPBC582.10c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC582.10c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC582.10c BioGRID Interaction Datasets
Expression Viewer SPBC582.10c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC582.10c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC582.10c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC582.10c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC582.10c Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC582.10c Transcriptome Viewer (Bähler Lab)
Cyclebase SPBC582.10c Cell Cycle Data
GEO SPBC582.10c GEO profiles
PInt SPBC582.10c Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBC582.10c Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPBC582.10c Fission yeast phenotypic data & analysis
SPD / RIKEN29/29C11Orfeome Localization Data
UniProtKB/SwissProtQ10332Uncharacterized ATP-dependent helicase C582.10c
ModBaseQ10332Database of comparative protein structure models
STRINGQ10332Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_595178ATP-dependent DNA helicase Rhp16b (predicted)
RefSeq mRNANM_001021086972h- ATP-dependent DNA helicase Rhp16b (predicted) (SPBC582.10c), mRNA
European Nucleotide ArchiveBAA87269.1ENA Protein Mapping
European Nucleotide ArchiveCAB46673.1ENA Protein Mapping
UniParcUPI000013A3B6UniProt Archive

Literature for SPBC582.10c

Search: Europe PMC or PubMed

Release Version: PomBase:23_47 - 27 Oct 2014