paf1 (SPAC664.03)


Gene Standard Namepaf1 Characterisation Statusbiological_role_inferred
Systematic IDSPAC664.03 Feature Typeprotein coding
Synonyms Name Description
ProductRNA polymerase II associated Paf1 complex (predicted) Product Size456aa, 51.19 kDa
Genomic Location Chromosome I, 1708728-1710347 (1620nt); CDS:1708822-1710229 (1408nt)

Ensembl Gene Location
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0031060regulation of histone methylationISOSGD:S000000483GO_REF:000002427
GO:0006368transcription elongation from RNA polymerase II promoterISOSGD:S000000483GO_REF:000002434
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0016593Cdc73/Paf1 complexISOSGD:S000000483GO_REF:00000245
GO:0005829cytosolIDAPMID:168233722315
GO:0005634nucleusIDAPMID:168233722740
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002060viable vegetative cell populationMicroscopypaf1ΔNullPECO:0000005, PECO:0000137PMID:236978063759
Microscopypaf1ΔNullPMID:20473289

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0003625abnormal microtubule cytoskeleton morphology during mitotic interphase186
penetrance FYPO_EXT:0000002experimental phenotypic evidencepaf1ΔNullPECO:0000005, PECO:0000103, PECO:0000137DOI:10.1016/j.devcel.2014.09.005
FYPO:0002922abolished histone H2B-K119 ubiquitinationWestern blot assaypaf1ΔNullPECO:0000137PMID:241000103
FYPO:0002917abolished histone H3-K4 methylationWestern blot assaypaf1ΔNullPECO:0000137PMID:241000104
FYPO:0000708decreased mating efficiencyhigh throughput nucleotide sequencing assay evidencepaf1ΔNullPECO:0000015PMID:23950735240
FYPO:0002920normal histone H3-K36 methylationWestern blot assaypaf1ΔNullPECO:0000137PMID:241000103
FYPO:0001492viable elongated vegetative cell221
expressivity FYPO_EXT:0000001
penetrance FYPO_EXT:0000003
experimental phenotypic evidencepaf1ΔNullPECO:0000137, PECO:0000005, PECO:0000103DOI:10.1016/j.devcel.2014.09.005
FYPO:0002197viable vegetative cell with abnormal cell shape467
penetrance FYPO_EXT:0000001experimental phenotypic evidencepaf1ΔNullPECO:0000005, PECO:0000103, PECO:0000137DOI:10.1016/j.devcel.2014.09.005
FYPO:0002177viable vegetative cell with normal cell morphology3089
penetrance FYPO_EXT:0000001Microscopypaf1ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
117087281708824
217088621710347

UTRs

Region Coordinates Reference
five_prime_UTR1708728..1708821PMID:21511999
three_prime_UTR1710230..1710347PMID:21511999
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
PF03985 Pfam IPR007133 RNA polymerase II-associated, Paf1 6 431 1
PTHR23188 HMMPANTHER IPR007133 RNA polymerase II-associated, Paf1 1 452 1
PTHR23188:SF5 HMMPANTHER 1 452 1
Coil ncoils Rabaptin coiled-coil domain 372 396 968

View domain organization at Pfam

Protein Properties

Ave. residue weight 112.26 Da
Charge -23.00
Isoelectric point 4.61
Molecular weight 51.19 kDa
Number of residues 456
Modifications

Protein Modifications

Term IDTerm NameEvidenceResidueReferenceCount
MOD:00046O-phospho-L-serineIDAS388PMID:182575171670
present during cellular response to thiabendazole
present during mitotic M phaseexperimental evidenceS384PMID:21712547
present during mitotic M phaseexperimental evidenceS388PMID:21712547
present during mitotic M phaseexperimental evidenceS394PMID:21712547
present during cellular response to thiabendazoleIDAS394PMID:18257517
experimental evidenceS384PMID:24763107
experimental evidenceS388PMID:24763107
experimental evidenceS394PMID:24763107
MOD:00696phosphorylated residueNASPMID:182575171922
NASPMID:19547744
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
14694during GO:0000080PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
14808during GO:0000084PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
16522during GO:0000085PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
13824during GO:0000087PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
13506during GO:0072690PECO:0000126,
PECO:0000005
single_cellmass spectrometry evidencePMID:24763107
5080.43during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
3304.38during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
4.7during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
0.86during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633
Warning
DescriptionQualifierReferenceCount
gene structure updated PMID:21511999432
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


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
sgf73SAGA complex subunit Sgf73 Negative GeneticPMID:25076038
Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
cdc73RNA polymerase II accessory factor, Cdc73 family (predicted) Affinity Capture-MSPMID:24385927
leo1RNA polymerase II associated Paf1 complex (predicted) Affinity Capture-MSPMID:24385927
tpr1RNA polymerase II associated Paf1 complex subunit Tpr1 Affinity Capture-MSPMID:24385927
External References
Database Identifier Description
NBRP SPAC664.03 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAC664.03 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPAC664.03 BioGRID Interaction Datasets
Expression Viewer SPAC664.03 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPAC664.03 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPAC664.03 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPAC664.03 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPAC664.03 Polyadenylation Viewer (Gullerova lab)
pombeTV SPAC664.03 Transcriptome Viewer (Bähler Lab)
Cyclebase SPAC664.03 Cell Cycle Data
GEO SPAC664.03 GEO profiles
PInt SPAC664.03 Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPAC664.03 Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPAC664.03 Fission yeast phenotypic data & analysis
SPD / RIKEN21/21G04Orfeome Localization Data
UniProtKB/SwissProtQ9US06RNA polymerase II-associated protein 1 homolog
ModBaseQ9US06Database of comparative protein structure models
STRINGQ9US06Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_593451RNA polymerase II associated Paf1 complex (predicted)
RefSeq mRNANM_001018884972h- RNA polymerase II associated Paf1 complex (predicted) (SPAC664.03), mRNA
European Nucleotide ArchiveCAB65804.2ENA Protein Mapping
UniParcUPI000228F4BBUniProt Archive

Literature for paf1

Search: Europe PMC or PubMed

Release Version: PomBase:23_47 - 27 Oct 2014