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 modification125
Annotation ExtensionEvidenceWith/FromReference
transcription elongation from RNA polymerase II promoter33
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
Cdc73/Paf1 complex5
Annotation ExtensionEvidenceWith/FromReference
cytosol2307
Annotation ExtensionEvidenceWith/FromReference
nucleus2691
Annotation ExtensionEvidenceWith/FromReference
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Viable

Single-allele Phenotypes

Population Phenotype

Term NameGenotypesCount
decreased cell population growth on glucose carbon sourcepaf1Δ286
decreased mating efficiencypaf1Δ252
sensitive to rapamycinpaf1Δ78
viable vegetative cell populationpaf1Δ3819

Cell Phenotype

Term NameGenotypesCount
abnormal microtubule cytoskeleton morphology during mitotic interphasepaf1Δ186
abolished histone H2B-K119 ubiquitinationpaf1Δ3
abolished histone H3-K4 methylationpaf1Δ6
normal histone H3-K36 methylationpaf1Δ3
viable elongated vegetative cellpaf1Δ306
viable vegetative cell with abnormal cell shapepaf1Δ687
viable vegetative cell with normal cell morphologypaf1Δ3097
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 1048

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 NameResidueCount
O-phospho-L-serine 1674
present during mitotic M phase, cellular response to thiabendazoleS388
present during mitotic M phaseS384
S384, S388, S394
present during cellular response to thiabendazole, mitotic M phaseS394
Annotation ExtensionEvidenceResidueReference
experimental evidence S384 PMID:24763107
present during mitotic M phase experimental evidence S384 PMID:21712547
experimental evidence S388 PMID:24763107
present during cellular response to thiabendazole IDA S388 PMID:18257517
present during mitotic M phase experimental evidence S388 PMID:21712547
experimental evidence S394 PMID:24763107
present during mitotic M phase experimental evidence S394 PMID:21712547
present during cellular response to thiabendazole IDA S394 PMID:18257517
phosphorylated residue 1930
Annotation ExtensionEvidenceResidueReference
IDA PMID:19547744
Sequence
Gene Expression

Quantitative Gene Expression

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
13506during GO:0072690PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
5080.43during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
3304.38during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
4.7during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
0.86during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
Warning
DescriptionQualifierReferenceCount
gene structure updated PMID:21511999433
Taxonomic Conservation
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3090
conserved in fungi4604
conserved in eukaryotes4514
conserved in metazoa3421
conserved in vertebrates3396
conserved in eukaryotes only2503
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Load gene 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 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
affinity captured bytpr1RNA polymerase II associated Paf1 complex subunit Tpr1 Affinity Capture-MSPMID:24385927
Genetic Interactions

Source: BioGRID

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

Gene Product Evidence Reference
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 ArchiveCU329670ENA EMBL mapping
European Nucleotide ArchiveCAB65804ENA Protein Mapping
European Nucleotide ArchiveCAB65804.2ENA Protein Mapping
UniParcUPI000228F4BBUniProt Archive

Literature for paf1

Search: Europe PMC or PubMed

Release Version: PomBase:29_56 - 12 Nov 2015