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 binding372
Annotation ExtensionEvidenceWith/FromReference
DNA-directed RNA polymerase activity37
Annotation ExtensionEvidenceWith/FromReference
protein binding863
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
transcription from RNA polymerase I promoter32
Annotation ExtensionEvidenceWith/FromReference
transcription from RNA polymerase II promoter339
Annotation ExtensionEvidenceWith/FromReference
transcription from RNA polymerase III promoter33
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytosol2306
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
nucleus2692
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Inviable

Population Phenotype

Term NameGenotypesCount
inviable vegetative cell populationrpb8Δ1453

Cell Phenotype

Term NameGenotypesCount
abnormal mitotic cell cyclerpb8Δ858
inviable after spore germination, without cell division, with normal germ tube morphologyrpb8Δ303
inviable curved elongated vegetative cellrpb8Δ22
inviable sporerpb8Δ476
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons2223641..2223841, 2223901..2224102, 2224151..2224720
Intron2223842..2223900, 2224103..2224150
5' UTR2223641..2223771D86555
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 HMMPANTHER IPR005570 RNA polymerase, Rpb8 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

View domain organization at Pfam

Protein Properties

Ave. residue weight 114.40 Da
Charge -1.00
Codon Adaptation Index 0.42
Isoelectric point 5.75
Molecular weight 14.30 kDa
Number of residues 125
Sequence
Gene Expression

Qualitative Gene Expression

DescriptionLevelEvidenceReference
protein leveldecreased during GO:0060274Western blot evidencePMID:11918671
decreased during GO:0009267Western blot evidencePMID:11918671
present during GO:0072690Western blot evidencePMID:11918671
decreased during GO:0034605Western blot evidencePMID:11918671

Quantitative Gene Expression

View graphical display of gene expression data for rpb8 (SPBC14C8.12)

Protein Level

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

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
2.7during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
0.4during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
Taxonomic Conservation
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3092
conserved in fungi4605
conserved in eukaryotes4515
conserved in metazoa3424
conserved in vertebrates3399
conserved in eukaryotes only2505
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Load genes that interact physically with SPBC14C8.12 into the Query Builder
View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
forms complex withrpb3RNA polymerase II subunit 3 Reconstituted ComplexPMID:9548938
forms complex withrpb1RNA polymerase II large subunit Rpb1 Reconstituted ComplexPMID:10648788
co-purifies withrpb7DNA-directed RNA polymerase complex II subunit Rpb7 Co-purificationPMID:10523639
co-purifies withrpb6DNA-directed RNA polymerase I, II and III subunit Rpb6 Co-purificationPMID:9322754
co-purifies withrpb3RNA polymerase II subunit 3 Co-purificationPMID:11168400
capturesrpb2RNA polymerase II complex subunit Rpb2 Far WesternPMID:9642054
capturesrpb1RNA polymerase II large subunit Rpb1 Far WesternPMID:9642054
affinity captured bymtl1TRAMP complex ATP-dependent RNA helicase (predicted) Affinity Capture-MSPMID:24713849
affinity captured byrpb3RNA polymerase II subunit 3 Affinity Capture-MSPMID:11839823
affinity captured byrpb1RNA polymerase II large subunit Rpb1 Affinity Capture-MSPMID:15743411
affinity captured byfcp1CTD phosphatase Fcp1 Affinity Capture-MSPMID:11839823
affinity captured byred5human ZC3H3 homolog Affinity Capture-MSPMID:24713849
affinity captured bypir2zf-C2H2 type zinc finger protein, implicated in RNAi (predicted) Affinity Capture-MSPMID:24713849
affinity captured byrpb7DNA-directed RNA polymerase complex II subunit Rpb7 Affinity Capture-MSPMID:16204182
affinity captured byred1RNA elimination defective protein Red1 Affinity Capture-MSPMID:24713849
captured byrpb1RNA polymerase II large subunit Rpb1 Far WesternPMID:9642054
captured byrpb6DNA-directed RNA polymerase I, II and III subunit Rpb6 Far WesternPMID:9642054
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

Literature for rpb8

Search: Europe PMC or PubMed

Release Version: PomBase:30_58 - 11 Mar 2016