rpb11 (SPAC3A12.07)

Gene Standard Namerpb11 Characterisation Statuspublished
Systematic IDSPAC3A12.07 Feature Typeprotein coding
Synonyms Name Description
ProductRNA polymerase II complex subunit Rpb11 Product Size123aa, 14.13 kDa
Genomic Location Chromosome I, 1433938-1434842 (905nt); CDS:1433953-1434415 (463nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
DNA binding383
Annotation ExtensionEvidenceWith/FromReference
DNA-directed RNA polymerase activity37
Annotation ExtensionEvidenceWith/FromReference
protein binding831
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
transcription from RNA polymerase II promoter335
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
Annotation ExtensionEvidenceWith/FromReference
DNA-directed RNA polymerase II, core complex11
Annotation ExtensionEvidenceWith/FromReference
DNA-directed RNA polymerase II, holoenzyme55
Annotation ExtensionEvidenceWith/FromReference
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Inviable

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002061inviable vegetative cell populationMicroscopyrpb11ΔNullPECO:0000005, PECO:0000137PMID:236978061338

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000059abnormal mitotic cell cycleMicroscopyrpb11ΔNullPECO:0000005, PECO:0000137PMID:23697806686
FYPO:0000314inviable after spore germination with elongated germ tube163
penetrance FYPO_EXT:0000001Microscopyrpb11ΔNullPECO:0000005, PECO:0000137PMID:23697806
FYPO:0003529inviable after spore germination, multiple cell divisions, cell cycle arrest in mitotic interphase, elongated cellsMicroscopyrpb11ΔNullPECO:0000005, PECO:0000137PMID:2369780687
Ensembl transcript structure with UTRs, exons and introns


Exon Start End
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
PF13656 Pfam 28 104 2
PS01154 Prosite Patterns IPR008193 DNA-directed RNA polymerase Rpb11, 13-16kDa subunit, conserved site 34 65 2
PTHR13946 HMMPANTHER 1 122 2
PTHR13946:SF16 HMMPANTHER 1 122 1
3.30.1360.10 Gene3D 1 112 4
SSF55257 SuperFamily IPR009025 DNA-directed RNA polymerase, RBP11-like dimerisation domain 1 109 4

View domain organization at Pfam

Protein Properties

Ave. residue weight 114.86 Da
Charge -6.00
Isoelectric point 4.66
Molecular weight 14.13 kDa
Number of residues 123
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
29142during GO:0000080PECO:0000126,
single_cellmass spectrometry evidencePMID:24763107
26440during GO:0000084PECO:0000126,
single_cellmass spectrometry evidencePMID:24763107
24317during GO:0000085PECO:0000126,
single_cellmass spectrometry evidencePMID:24763107
30864during GO:0000087PECO:0000126,
single_cellmass spectrometry evidencePMID:24763107
21756during GO:0072690PECO:0000126,
single_cellmass spectrometry evidencePMID:24763107
8891.11during GO:0072690PECO:0000005,
population_wideexperimental evidencePMID:23101633
4697.04during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
3during GO:0072690PECO:0000005,
population_wideexperimental evidencePMID:23101633
0.52during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
population_wideexperimental evidencePMID:23101633
Species Distribution
predominantly single copy (one to one)3092
conserved in fungi4600
conserved in eukaryotes4514
conserved in metazoa3425
conserved in vertebrates3400
conserved in archaea237

Manually curated orthologous groups


Orthologs in Compara

Physical Interactions

Source: BioGRID

View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
med7mediator complex subunit Med7 Affinity Capture-MSPMID:15182371
mtl1TRAMP complex ATP-dependent RNA helicase (predicted) Affinity Capture-MSPMID:24713849
rpb3RNA polymerase II subunit 3 Affinity Capture-MSPMID:11839823
Reconstituted ComplexPMID:9548938
Affinity Capture-WesternPMID:10503538
Far WesternPMID:9642054
Affinity Capture-WesternPMID:9325316
Reconstituted Complex
rpb6DNA-directed RNA polymerase I, II and III subunit Rpb6 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
red1RNA elimination defective protein Red1 Affinity Capture-MSPMID:24713849
Genetic Interactions

Source: BioGRID

View these interactions in esyN

Gene Product Evidence Reference
rpb3RNA polymerase II subunit 3 Dosage RescuePMID:10503538
External References
Database Identifier Description
NBRP SPAC3A12.07 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAC3A12.07 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPAC3A12.07 BioGRID Interaction Datasets
Expression Viewer SPAC3A12.07 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPAC3A12.07 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPAC3A12.07 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPAC3A12.07 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPAC3A12.07 Polyadenylation Viewer (Gullerova lab)
pombeTV SPAC3A12.07 Transcriptome Viewer (Bähler Lab)
Cyclebase SPAC3A12.07 Cell Cycle Data
GEO SPAC3A12.07 GEO profiles
PInt SPAC3A12.07 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPAC3A12.07 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPAC3A12.07 Fission yeast phenotypic data & analysis
SPD / RIKEN04/04B11Orfeome Localization Data
KEGGMAP03020KEGG Pathway Database
KEGGMAP00230KEGG Pathway Database
KEGGMAP00240KEGG Pathway Database
UniProtKB/SwissProtP87123DNA-directed RNA polymerase II subunit RPB11
ModBaseP87123Database of comparative protein structure models
STRINGP87123Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_593333RNA polymerase II complex subunit Rpb11
RefSeq mRNANM_001018765972h- RNA polymerase II complex subunit Rpb11 (rpb11), mRNA
European Nucleotide ArchiveAF027822ENA EMBL mapping
European Nucleotide ArchiveD85902ENA EMBL mapping
ePDB3H0GThe European PDB
European Nucleotide ArchiveBAA22806.1ENA Protein Mapping
European Nucleotide ArchiveCAB08752.1ENA Protein Mapping
UniParcUPI00001345EDUniProt Archive

Literature for rpb11

Search: Europe PMC or PubMed

Release Version: PomBase:23_47 - 27 Oct 2014