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 binding381
Annotation ExtensionEvidenceWith/FromReference
DNA-directed RNA polymerase activity37
Annotation ExtensionEvidenceWith/FromReference
protein binding848
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
transcription from RNA polymerase II promoter337
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytosol2316
Annotation ExtensionEvidenceWith/FromReference
DNA-directed RNA polymerase II, core complex11
Annotation ExtensionEvidenceWith/FromReference
DNA-directed RNA polymerase II, holoenzyme55
Annotation ExtensionEvidenceWith/FromReference
nucleus2690
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Inviable

Population Phenotype

Term NameAlleleExpressionCount
inviable vegetative cell populationrpb11ΔNull1427

Cell Phenotype

Term NameAlleleExpressionCount
abnormal mitotic cell cyclerpb11ΔNull794
inviable after spore germination with elongated germ tube163
penetrance FYPO_EXT:0000001rpb11ΔNull
inviable after spore germination, multiple cell divisions, cell cycle arrest in mitotic interphase, elongated cellsrpb11ΔNull87
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
114339381434002
214340481434137
314341841434842
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 1 117 2
PTHR13946:SF27 HMMPANTHER 1 117 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
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
29142during GO:0000080PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
26440during GO:0000084PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
24317during GO:0000085PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
30864during GO:0000087PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
21756during GO:0072690PECO:0000126,
PECO:0000005
single cellmass spectrometry evidencePMID:24763107
8891.11during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
4697.04during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
3during GO:0072690PECO:0000005,
PECO:0000014
population wideexperimental evidencePMID:23101633
0.52during 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 metazoa3432
conserved in vertebrates3407
conserved in archaea237
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
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
Co-purificationPMID:11168400
Affinity Capture-WesternPMID:10503538
Far WesternPMID:9642054
Co-purificationPMID:9325316
Affinity Capture-Western
Reconstituted ComplexPMID:10648788
Co-purification
rpb6DNA-directed RNA polymerase I, II and III subunit Rpb6 Co-purificationPMID:9322754
rpb2RNA polymerase II complex subunit Rpb2 Far WesternPMID:9642054
Co-fractionationPMID:9325316
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
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
PDB3H0GPDB
PDBsum3H0GPDBsum
European Nucleotide ArchiveBAA22806.1ENA Protein Mapping
European Nucleotide ArchiveCAB08752.1ENA Protein Mapping
KEGG_Enzyme00230+2.7.7.6Purine metabolism
KEGG_Enzyme00240+2.7.7.6Pyrimidine metabolism
UniParcUPI00001345EDUniProt Archive

Literature for rpb11

Search: Europe PMC or PubMed

Release Version: PomBase:25_48 - 10 Jan 2015