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 NameCount
DNA binding379
Annotation ExtensionEvidenceWith/FromReference
DNA-directed RNA polymerase activity37
Annotation ExtensionEvidenceWith/FromReference
protein binding856
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
transcription from RNA polymerase I promoter31
Annotation ExtensionEvidenceWith/FromReference
transcription from RNA polymerase II promoter333
Annotation ExtensionEvidenceWith/FromReference
transcription from RNA polymerase III promoter33
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytosol2314
Annotation ExtensionEvidenceWith/FromReference
DNA-directed RNA polymerase I complex14
Annotation ExtensionEvidenceWith/FromReference
DNA-directed RNA polymerase II, core complex11
Annotation ExtensionEvidenceWith/FromReference
DNA-directed RNA polymerase II, holoenzyme55
Annotation ExtensionEvidenceWith/FromReference
DNA-directed RNA polymerase III complex17
Annotation ExtensionEvidenceWith/FromReference
nucleus2695
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Inviable

Population Phenotype

Term NameAlleleExpressionCount
inviable vegetative cell populationrpb8ΔNull1435

Cell Phenotype

Term NameAlleleExpressionCount
abnormal mitotic cell cyclerpb8ΔNull846
inviable after spore germination, without cell division, with normal germ tube morphologyrpb8ΔNull303
inviable curved elongated vegetative cellrpb8ΔNull16
inviable sporerpb8ΔNull470
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons2223641..2223841, 2223901..2224102, 2224151..2224720
Introns2223842..2223900
Introns2224103..2224150Y07643
mRNA2223641..2224720
5' UTR2223641..2223771D86555
CDS2223772..2223841, 2223901..2224102, 2224151..2224256
3' UTR2224257..2224720SPRPB8U3
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:SF0 HMMPANTHER 1 125 1
PTHR10917 HMMPANTHER IPR005570 RNA polymerase, Rpb8 1 125 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
24579during GO:0072690PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
3255during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
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 fungi4604
conserved in eukaryotes4516
conserved in metazoa3430
conserved in vertebrates3405
conserved in eukaryotes only2502
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 byfcp1CTD phosphatase Fcp1 Affinity Capture-MSPMID:11839823
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 byred5human ZC3H3 homolog Affinity Capture-MSPMID:24713849
capturesrpb1RNA polymerase II large subunit Rpb1 Far WesternPMID:9642054
captured byrpb1RNA polymerase II large subunit Rpb1 Far WesternPMID:9642054
affinity captured byrpb1RNA polymerase II large subunit Rpb1 Affinity Capture-WesternPMID:9325316
forms complex withrpb1RNA polymerase II large subunit Rpb1 Reconstituted ComplexPMID:10648788
affinity captured byrpb1RNA polymerase II large subunit Rpb1 Affinity Capture-MSPMID:15743411
capturesrpb2RNA polymerase II complex subunit Rpb2 Far WesternPMID:9642054
affinity captured byrpb3RNA polymerase II subunit 3 Affinity Capture-MSPMID:11839823
affinity captured byrpb3RNA polymerase II subunit 3 Affinity Capture-WesternPMID:9325316
forms complex withrpb3RNA polymerase II subunit 3 Reconstituted ComplexPMID:9548938
forms complex withrpb3RNA polymerase II subunit 3 Reconstituted ComplexPMID:10648788
co-purifies withrpb3RNA polymerase II subunit 3 Co-purificationPMID:10648788
co-purifies withrpb3RNA polymerase II subunit 3 Co-purificationPMID:11168400
captured byrpb6DNA-directed RNA polymerase I, II and III subunit Rpb6 Far WesternPMID:9642054
co-purifies withrpb6DNA-directed RNA polymerase I, II and III subunit Rpb6 Co-purificationPMID:9322754
affinity captured byrpb7DNA-directed RNA polymerase complex II subunit Rpb7 Affinity Capture-MSPMID:16204182
co-purifies withrpb7DNA-directed RNA polymerase complex II subunit Rpb7 Co-purificationPMID:10523639
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)
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
Cyclebase SPBC14C8.12.1 Cell Cycle Data
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:26_51 - 07 Apr 2015