rpb8 (SPBC14C8.12)


Gene Standard Namerpb8 Characterisation Statuspublished
Systematic IDSPBC14C8.12 Feature Typeprotein coding
Synonyms Name Description
ProductDNA-directed RNA polymerase I, II and III subunit Rpb8 Product Size125aa, 14.30 kDa
Genomic Location Chromosome II, 2223641-2224720 (1080nt); CDS:2223772-2224256 (485nt)

Ensembl Gene Location
GO Molecular Function
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0003677DNA bindingIEAUniProtKB-KW:KW-0238GO_REF:0000037383
GO:0003899DNA-directed RNA polymerase activity37
contributes_toISOSGD:S000005750PMID:10335407
GO:0005515protein bindingIPIrpb11PMID:10648788831
IPIrpb1PMID:10648788
IPIrpb3PMID:10648788
IPIrpb6PMID:10648788
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0006360transcription from RNA polymerase I promoterTASPMID:1033540734
GO:0006366transcription from RNA polymerase II promoterTASPMID:10335407335
GO:0006383transcription from RNA polymerase III promoterTASPMID:1033540732
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005736DNA-directed RNA polymerase I complexIDAPMID:1033540714
GO:0005665DNA-directed RNA polymerase II, core complexIDAPMID:1033540711
GO:0016591DNA-directed RNA polymerase II, holoenzymeIDAPMID:1052363955
GO:0005666DNA-directed RNA polymerase III complexIDAPMID:1033540717
GO:0005829cytosolIDAPMID:168233722315
GO:0005634nucleusIDAPMID:168233722740
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Inviable

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002061inviable vegetative cell populationMicroscopyrpb8ΔNullPMID:204732891338
Microscopyrpb8ΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000059abnormal mitotic cell cycleMicroscopyrpb8ΔNullPECO:0000005, PECO:0000137PMID:23697806686
FYPO:0000310inviable after spore germination, without cell division, with normal germ tube morphologyMicroscopyrpb8ΔNullPECO:0000005, PECO:0000137PMID:23697806303
FYPO:0002411inviable curved elongated vegetative cell16
penetrance FYPO_EXT:0000003Microscopyrpb8ΔNullPECO:0000005, PECO:0000137PMID:23697806
FYPO:0002151inviable sporeMicroscopyrpb8ΔNullPECO:0000005, PECO:0000137PMID:23697806465
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
122236412223841
222239012224102
322241512224720
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
PF03870 Pfam IPR005570 RNA polymerase, Rpb8 8 125 1
SM00658 SMART IPR005570 RNA polymerase, Rpb8 3 125 1
PTHR10917 HMMPANTHER IPR005570 RNA polymerase, Rpb8 2 125 1
PTHR10917:SF0 HMMPANTHER 2 125 1
2.40.50.140 Gene3D IPR012340 Nucleic acid-binding, OB-fold 3 65 48
2.40.50.140 Gene3D IPR012340 Nucleic acid-binding, OB-fold 66 125 48
SSF50249 SuperFamily IPR012340 Nucleic acid-binding, OB-fold 4 125 57
PIRSF000779 PIRSF IPR005570 RNA polymerase, Rpb8 1 125 1

View domain organization at Pfam

Protein Properties

Ave. residue weight 114.40 Da
Charge -1.00
Isoelectric point 5.75
Molecular weight 14.30 kDa
Number of residues 125
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
25693during GO:0000080PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
26312during GO:0000084PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
28138during GO:0000085PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
22365during GO:0000087PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
3255during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
24579during GO:0072690PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
9261.2during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
2.7during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
0.4during 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 metazoa3425
conserved in vertebrates3400
conserved in eukaryotes only2497
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
mtl1TRAMP complex ATP-dependent RNA helicase (predicted) Affinity Capture-MSPMID:24713849
pir2zf-C2H2 type zinc finger protein, implicated in RNAi (predicted) Affinity Capture-MSPMID:24713849
rpb3RNA polymerase II subunit 3 Affinity Capture-MSPMID:11839823
Affinity Capture-WesternPMID:9325316
Reconstituted ComplexPMID:9548938
Co-purificationPMID:10648788
Reconstituted Complex
Co-purificationPMID:11168400
rpb6DNA-directed RNA polymerase I, II and III subunit Rpb6 Far WesternPMID:9642054
Co-purificationPMID:9322754
rpb2RNA polymerase II complex subunit Rpb2 Far WesternPMID:9642054
rpb1RNA polymerase II large subunit Rpb1 Far WesternPMID:9642054
Affinity Capture-WesternPMID:9325316
Reconstituted ComplexPMID:10648788
Affinity Capture-MSPMID:15743411
fcp1CTD phosphatase Fcp1 Affinity Capture-MSPMID:11839823
rpb7DNA-directed RNA polymerase complex II subunit Rpb7 Affinity Capture-MSPMID:16204182
Co-purificationPMID:10523639
red1RNA elimination defective protein Red1 Affinity Capture-MSPMID:24713849
red5human ZC3H3 homolog Affinity Capture-MSPMID:24713849
External References
Database Identifier Description
NBRP SPBC14C8.12 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC14C8.12 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC14C8.12 BioGRID Interaction Datasets
Expression Viewer SPBC14C8.12 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC14C8.12 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC14C8.12 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC14C8.12 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC14C8.12 Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC14C8.12 Transcriptome Viewer (Bähler Lab)
Cyclebase SPBC14C8.12 Cell Cycle Data
GEO SPBC14C8.12 GEO profiles
PInt SPBC14C8.12 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPBC14C8.12 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPBC14C8.12 Fission yeast phenotypic data & analysis
SPD / RIKEN31/31E02Orfeome Localization Data
UniProtKB/SwissProtQ92399DNA-directed RNA polymerases I, II, and III subunit RPABC3
ModBaseQ92399Database of comparative protein structure models
STRINGQ92399Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_595915DNA-directed RNA polymerase I, II and III subunit Rpb8
RefSeq mRNANM_001021823972h- DNA-directed RNA polymerase I, II and III subunit Rpb8 (rpb8), mRNA
European Nucleotide ArchiveAF020780ENA EMBL mapping
European Nucleotide ArchiveD86555ENA EMBL mapping
European Nucleotide ArchiveY07643ENA EMBL mapping
European Nucleotide ArchiveY07644ENA EMBL mapping
ePDB3H0GThe European PDB
PDB3H0GPDB
PDBsum3H0GPDBsum
European Nucleotide ArchiveAAC39321.1ENA Protein Mapping
European Nucleotide ArchiveBAA34367.1ENA Protein Mapping
European Nucleotide ArchiveCAA18430.1ENA Protein Mapping
UniParcUPI00001345E5UniProt Archive

Literature for rpb8

Search: Europe PMC or PubMed

Release Version: PomBase:23_47 - 27 Oct 2014