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 NameCount
histone modification121
Annotation ExtensionEvidenceWith/FromReference
transcription elongation from RNA polymerase II promoter31
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
Cdc73/Paf1 complex5
Annotation ExtensionEvidenceWith/FromReference
cytosol2298
Annotation ExtensionEvidenceWith/FromReference
nucleus2690
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Viable

Population Phenotype

Term NameGenotypesCount
decreased cell population growth on glucose carbon sourcepaf1Δ393
decreased mating efficiencypaf1Δ276
sensitive to hydrogen peroxidepaf1Δ160
sensitive to rapamycinpaf1Δ80
viable vegetative cell populationpaf1Δ3862

Cell Phenotype

Term NameGenotypesCount
abnormal microtubule cytoskeleton morphology during mitotic interphasepaf1Δ187
abolished histone H2B-K119 ubiquitination during vegetative growthpaf1Δ3
abolished histone H3-K4 methylation during vegetative growthpaf1Δ6
decreased protein level during vegetative growth164
affecting ctt1paf1Δ
normal histone H3-K36 methylation during vegetative growthpaf1Δ3
viable elongated vegetative cellpaf1Δ329
viable vegetative cell with abnormal cell shapepaf1Δ709
viable vegetative cell with normal cell morphologypaf1Δ3103
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons1708728..1708824, 1708862..1710347
Intron1708825..1708861
mRNA1708728..1710347
5' UTR1708728..1708821PMID:21511999
CDS1708822..1708824, 1708862..1710229
3' 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 factor Paf1 7 430 1
PTHR23188 HMMPANTHER IPR007133 RNA polymerase II associated factor Paf1 4 440 1
Coil ncoils Predicted coiled-coil protein (DUF2205) 372 395 1049

View domain organization at Pfam

Protein Properties

Ave. residue weight 112.26 Da
Charge -23.00
Codon Adaptation Index 0.41
Isoelectric point 4.61
Molecular weight 51.19 kDa
Number of residues 456
Modifications

Protein Modifications

Term NameResidueCount
O-phospho-L-serine 2293
present during mitotic M phase, cellular response to thiabendazoleS388
present during cellular response to thiabendazole, mitotic M phaseS394
present during mitotic M phaseS384
S217, S384, S388, S394
Annotation ExtensionEvidenceResidueReference
present during mitotic M phase experimental evidence S388 PMID:21712547
present during cellular response to thiabendazole IDA S388 PMID:18257517
present during cellular response to thiabendazole IDA S394 PMID:18257517
present during mitotic M phase experimental evidence S384 PMID:21712547
present during mitotic M phase experimental evidence S394 PMID:21712547
experimental evidence S388 PMID:24763107
experimental evidence S394 PMID:24763107
experimental evidence S384 PMID:24763107
IDA S217 PMID:25720772
IDA S394 PMID:25720772
phosphorylated residue 2515
Annotation ExtensionEvidenceResidueReference
IDA PMID:19547744
O-phosphorylated residueS217,S220, S217,Y218, S384,S388,S394, S388,S394, S388,S402 2461
Annotation ExtensionEvidenceResidueReference
IDA S217,S220 PMID:25720772
IDA S217,Y218 PMID:25720772
IDA S388,S402 PMID:25720772
IDA S388,S394 PMID:25720772
IDA S384,S388,S394 PMID:25720772
Sequence
Gene Expression

Quantitative Gene Expression

View graphical display of gene expression data for paf1 (SPAC664.03)

Protein Level

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

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
4.7during GO:0072690PECO:0000126,
PECO:0000005
population wideexperimental evidencePMID:23101633
0.86during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000126,
PECO:0000005
population wideexperimental evidencePMID:23101633
Warning
DescriptionQualifierReferenceCount
gene structure updated PMID:21511999435
Taxonomic Conservation
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3087
conserved in fungi4608
conserved in eukaryotes4516
conserved in metazoa3498
conserved in vertebrates3473
conserved in eukaryotes only2525
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Load genes that interact physically with SPAC664.03 into the Query Builder
View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
affinity captured byleo1RNA polymerase II associated Paf1 complex (predicted) Affinity Capture-MSPMID:25972440
affinity captured bytpr1RNA polymerase II associated Paf1 complex subunit Tpr1 Affinity Capture-MSPMID:24385927
affinity capturestpr1RNA polymerase II associated Paf1 complex subunit Tpr1 Affinity Capture-MSPMID:24385927
affinity capturesleo1RNA polymerase II associated Paf1 complex (predicted) Affinity Capture-MSPMID:24385927
affinity capturescdc73RNA polymerase II accessory factor, Cdc73 family (predicted) Affinity Capture-MSPMID:24385927
Genetic Interactions

Source: BioGRID

Load genes that interact genetically with SPAC664.03 into the Query Builder
View these interactions in esyN

Gene Product Evidence Reference
rescuesleo1RNA polymerase II associated Paf1 complex (predicted) Phenotypic SuppressionPMID:25972440
negative genetic interaction withsgf73SAGA complex subunit Sgf73 Negative GeneticPMID:25076038
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)
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
Cyclebase SPAC664.03.1 Cell Cycle Data
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:30_62 - 30 Jan 2017