ptr6 (SPAC13F5.02c)


Gene Standard Nameptr6 Characterisation Statuspublished
Systematic IDSPAC13F5.02c Feature Typeprotein coding
Synonymstaf7 Name Description
Producttranscription factor TFIID complex subunit Taf7 Product Size393aa, 45.00 kDa
Genomic Location Chromosome I, 2173796-2172410 (1387nt); CDS:2173752-2172530 (1223nt)

Ensembl Gene Location
GO Molecular Function
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0000991core RNA polymerase II binding transcription factor activityISOSGD:S000004840GO_REF:000002433
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0016973poly(A)+ mRNA export from nucleus16
requiredIMPPMID:10388808
GO:0006357regulation of transcription from RNA polymerase II promoterISOSGD:S000004840GO_REF:0000024291
GO:0006367transcription initiation from RNA polymerase II promoterISOSGD:S000004840GO_REF:000002436
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0005829cytosolIDAPMID:168233722315
GO:0005634nucleusIDAPMID:103888082740
IDAPMID:16823372
GO:0005669transcription factor TFIID complexIDAPMID:1197233216
Fission Yeast Phenotype Ontology
Gene Deletion Viability: Inviable

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002061inviable vegetative cell populationMicroscopyptr6ΔNullPECO:0000005, PECO:0000137PMID:236978061338
Microscopyptr6ΔNullPMID:20473289

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000311inviable after spore germination with normal, unseptated germ tube morphology237
penetrance FYPO_EXT:0000003Microscopyptr6ΔNullPECO:0000005, PECO:0000137PMID:23697806
FYPO:0002151inviable spore465
penetrance FYPO_EXT:0000001Microscopyptr6ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
121737962173425
221733832172410

UTRs

Region Coordinates Reference
five_prime_UTR2173796..2173753PMID:21511999
three_prime_UTR2172529..2172410PMID: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
PF04658 Pfam IPR006751 TAFII55 protein, conserved region 72 223 1
PTHR12228 HMMPANTHER 1 388 2
PTHR12228:SF0 HMMPANTHER 1 388 1
Coil ncoils Rabaptin coiled-coil domain 204 225 968
Coil ncoils Rabaptin coiled-coil domain 302 340 968

View domain organization at Pfam

Protein Properties

Ave. residue weight 114.50 Da
Charge -21.50
Isoelectric point 4.57
Molecular weight 45.00 kDa
Number of residues 393
Modifications

Protein Modifications

Term IDTerm NameEvidenceResidueReferenceCount
MOD:00046O-phospho-L-serineIDAS310PMID:182575171670
present during cellular response to thiabendazole
present during cellular response to thiabendazoleIDAS308PMID:18257517
present during mitotic M phaseexperimental evidenceS16PMID:21712547
present during mitotic M phaseexperimental evidenceS18PMID:21712547
MOD:00047O-phospho-L-threonineexperimental evidenceT20PMID:21712547692
present during mitotic M phase
MOD:00696phosphorylated residueNASPMID:182575171922
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
1188.2during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
6299.86during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000005,
PECO:0000014,
PECO:0000127
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
4.3during GO:0072690PECO:0000005,
PECO:0000014
population_wideexperimental evidencePMID:23101633
1.4during 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 fungi4600
conserved in eukaryotes4514
conserved in metazoa3425
conserved in vertebrates3400
conserved in eukaryotes only2497
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
taf5SAGA complex subunit/TATA-binding protein associated factor/transcription factor TFIID complex subunit Taf5 Affinity Capture-WesternPMID:11972332
Affinity Capture-WesternPMID:11279037
taf73transcription factor TFIID complex subunit Taf5-like Affinity Capture-WesternPMID:11972332
Affinity Capture-WesternPMID:11279037
hhp1serine/threonine protein kinase Hhp1 Affinity Capture-MSPMID:24055157
pir2zf-C2H2 type zinc finger protein, implicated in RNAi (predicted) Affinity Capture-MSPMID:24713849
bdf2BET family double bromodomain protein Bdf2 Affinity Capture-MSPMID:24013502
External References
Database Identifier Description
NBRP SPAC13F5.02c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPAC13F5.02c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPAC13F5.02c BioGRID Interaction Datasets
Expression Viewer SPAC13F5.02c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPAC13F5.02c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPAC13F5.02c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPAC13F5.02c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPAC13F5.02c Polyadenylation Viewer (Gullerova lab)
pombeTV SPAC13F5.02c Transcriptome Viewer (Bähler Lab)
Cyclebase SPAC13F5.02c Cell Cycle Data
GEO SPAC13F5.02c GEO profiles
PInt SPAC13F5.02c Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPAC13F5.02c Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPAC13F5.02c Fission yeast phenotypic data & analysis
SPD / RIKEN22/22B07Orfeome Localization Data
UniProtKB/SwissProtO13701Transcription initiation factor TFIID subunit 7
ModBaseO13701Database of comparative protein structure models
STRINGO13701Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_593650transcription factor TFIID complex subunit Taf7
RefSeq mRNANM_001019082972h- transcription factor TFIID complex subunit Taf7 (ptr6), mRNA
European Nucleotide ArchiveBAA32487.1ENA Protein Mapping
European Nucleotide ArchiveCAB11765.1ENA Protein Mapping
UniParcUPI00001367E9UniProt Archive

Literature for ptr6

Search: Europe PMC or PubMed

Release Version: PomBase:23_47 - 27 Oct 2014