taf5 (SPCC5E4.03c)


Gene Standard Nametaf5 Characterisation Statuspublished
Systematic IDSPCC5E4.03c Feature Typeprotein coding
Synonymstaf72 Name Description
ProductSAGA complex subunit/TATA-binding protein associated factor/transcription factor TFIID complex subunit Taf5 Product Size643aa, 72.38 kDa
Genomic Location Chromosome III, 642561-640083 (2479nt); CDS:642444-640145 (2300nt)

Ensembl Gene Location
GO Molecular Function
Term NameCount
protein binding868
Annotation ExtensionEvidenceWith/FromReference
GO Biological Process
Term NameCount
chromatin remodeling155
Annotation ExtensionEvidenceWith/FromReference
histone acetylation46
Annotation ExtensionEvidenceWith/FromReference
regulation of transcription, DNA-templated389
Annotation ExtensionEvidenceWith/FromReference
transcription initiation from RNA polymerase II promoter37
Annotation ExtensionEvidenceWith/FromReference
GO Cellular Component
Term NameCount
cytosol2302
Annotation ExtensionEvidenceWith/FromReference
nucleus2692
Annotation ExtensionEvidenceWith/FromReference
SAGA complex19
Annotation ExtensionEvidenceWith/FromReference
transcription factor TFIID complex16
Annotation ExtensionEvidenceWith/FromReference
FYPO Single-Allele Phenotypes
Gene Deletion Viability: Inviable

Population Phenotype

Term NameGenotypesCount
inviable vegetative cell populationtaf5Δ1451

Cell Phenotype

Term NameGenotypesCount
inviable after spore germination, multiple cell divisions, abnormal morphologytaf5Δ205
inviable vegetative cellΔ408-490 (408-490)1351
taf5Δ
Δ491-574 (491-574)
Δ257-643 (257-643)
Δ53-156 (53-156)
Δ3-256 (3-256)
Δ360-643 (360-643)
Δ158-241 (158-241)
Δ361-407 (361-407)
Δ3-153 (3-153)
Δ614-643 (614-643)
Δ273-359 (273-359)
normal mRNA level during vegetative growth16
affecting ubc11taf5+
viable vegetative cellΔ3-37 (3-37)3651
Δ242-271 (242-271)
579-600 (579-600)

FYPO Multi-allele Phenotypes

Population Phenotype

Term NameGenotypes
inviable vegetative cell populationtaf72:ura4+, taf73+

Cell Phenotype

Term NameGenotypes
normal vegetative cell growthtaf5+, ubcP4- 140
Transcript
Ensembl transcript structure with UTRs, exons and introns

Transcript Structure

Region Coordinates Reference
Exons642561..642138, 641924..640831, 640774..640606, 640556..640292, 640241..640083
Intron642137..641925, 640830..640775, 640605..640557, 640291..640242
mRNA642561..640083
5' UTR642561..642445PMID:21511999
CDS642444..642138, 641924..640831, 640774..640606, 640556..640292, 640241..640145
3' UTR640144..640083PMID: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
PF08513 Pfam IPR006594 LIS1 homology motif 10 36 8
PF00400 Pfam IPR001680 WD40 repeat 539 575 82
PF00400 Pfam IPR001680 WD40 repeat 455 491 82
PF00400 Pfam IPR001680 WD40 repeat 497 533 82
PF00400 Pfam IPR001680 WD40 repeat 417 449 82
PF00400 Pfam IPR001680 WD40 repeat 377 407 82
PF04494 Pfam IPR007582 TFIID subunit, WD40-associated region 51 183 2
SM00667 SMART IPR006594 LIS1 homology motif 8 40 10
SM00320 SMART IPR001680 WD40 repeat 313 352 112
SM00320 SMART IPR001680 WD40 repeat 369 407 112
SM00320 SMART IPR001680 WD40 repeat 410 449 112
SM00320 SMART IPR001680 WD40 repeat 536 575 112
SM00320 SMART IPR001680 WD40 repeat 452 491 112
SM00320 SMART IPR001680 WD40 repeat 494 533 112
PS00678 Prosite Patterns IPR019775 WD40 repeat, conserved site 478 492 65
PS00678 Prosite Patterns IPR019775 WD40 repeat, conserved site 562 576 65
PS50082 Prosite Profiles IPR001680 WD40 repeat 375 416 100
PS50896 Prosite Profiles IPR006594 LIS1 homology motif 8 40 11
PS50294 Prosite Profiles IPR017986 WD40-repeat-containing domain 320 584 104
PS50082 Prosite Profiles IPR001680 WD40 repeat 320 361 100
PS50082 Prosite Profiles IPR001680 WD40 repeat 501 542 100
PS50082 Prosite Profiles IPR001680 WD40 repeat 459 500 100
PS50082 Prosite Profiles IPR001680 WD40 repeat 543 576 100
PS50082 Prosite Profiles IPR001680 WD40 repeat 417 449 100
PTHR19879 HMMPANTHER 2 640 2
PTHR19879:SF1 HMMPANTHER 2 640 2
2.130.10.10 Gene3D IPR015943 WD40/YVTN repeat-like-containing domain 313 601 145
SSF50978 SuperFamily IPR017986 WD40-repeat-containing domain 312 617 135
SSF160897 SuperFamily 45 188 2
PR00320 PRINTS IPR020472 G-protein beta WD-40 repeat 478 492 43
PR00320 PRINTS IPR020472 G-protein beta WD-40 repeat 394 408 43
PR00320 PRINTS IPR020472 G-protein beta WD-40 repeat 562 576 43

View domain organization at Pfam

Term IDTerm NameReferenceCount
PBO:0000190WD repeat proteinTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0000190

Protein Properties

Ave. residue weight 112.57 Da
Charge 0.00
Codon Adaptation Index 0.40
Isoelectric point 6.51
Molecular weight 72.38 kDa
Number of residues 643
Modifications

Protein Modifications

Term NameResidueCount
O-phospho-L-serine 1676
present during mitotic M phase, cellular response to thiabendazoleS256
S256
Annotation ExtensionEvidenceResidueReference
present during mitotic M phase experimental evidence S256 PMID:21712547
present during cellular response to thiabendazole IDA S256 PMID:18257517
experimental evidence S256 PMID:24763107
Sequence
Gene Expression

Quantitative Gene Expression

View graphical display of gene expression data for taf5 (SPCC5E4.03c)

Protein Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
4392during GO:0000080PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
4506during GO:0000084PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
4792during GO:0000085PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
4392during GO:0000087PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
4912during GO:0072690PECO:0000005,
PECO:0000126
single cellmass spectrometry evidencePMID:24763107
4263.44during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
2382.38during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)ExtensionConditionScaleEvidenceReference
3.7during GO:0072690PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
0.92during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population wideexperimental evidencePMID:23101633
Taxonomic Conservation
DescriptionQualifierReferenceCount
predominantly single copy (one to one)3092
conserved in fungi4606
conserved in eukaryotes4516
conserved in metazoa3424
conserved in vertebrates3399
conserved in eukaryotes only2506
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Physical Interactions

Source: BioGRID

Load genes that interact physically with SPCC5E4.03c into the Query Builder
View all interactions in esyN
View the HCPIN interactions in esyN

Gene Product Evidence Reference
affinity capturestaf111transcription factor TFIID complex subunit Taf111 Affinity Capture-WesternPMID:11279037
affinity capturestaf7transcription factor TFIID complex subunit Taf7 Affinity Capture-WesternPMID:11972332
affinity capturestbp1TATA-binding protein (TBP) Affinity Capture-WesternPMID:11279037
affinity capturesgcn5SAGA complex histone acetyltransferase catalytic subunit Gcn5 Affinity Capture-WesternPMID:11279037
affinity capturestaf6histone H4-like TAF Taf6, SAGA complex subunit Affinity Capture-WesternPMID:11972332
affinity capturestfg3transcription factor TFIIF complex subunit Tfg3 Affinity Capture-WesternPMID:15616156
affinity captured byada1adenosine deaminase Ada1 Affinity Capture-MSPMID:21642955
affinity captured bycbf11CBF1/Su(H)/LAG-1 family transcription factor Cbf11 Affinity Capture-MSPMID:22540037
affinity captured bytra1SAGA complex phosphatidylinositol pseudokinase Tra1 Affinity Capture-MSPMID:21642955
affinity captured bybdf2BET family double bromodomain protein Bdf2 Affinity Capture-MSPMID:24013502
affinity captured byhfi1SAGA complex subunit Hfi1 Affinity Capture-MSPMID:19056896
affinity captured byspt7SAGA complex bromodomain subunit Spt7 Affinity Capture-MSPMID:19056896
binds activation domain construct withtaf6histone H4-like TAF Taf6, SAGA complex subunit Two-hybridPMID:11972332
forms complex withtaf6histone H4-like TAF Taf6, SAGA complex subunit Reconstituted ComplexPMID:11972332
Genetic Interactions

Source: BioGRID

Load genes that interact genetically with SPCC5E4.03c into the Query Builder
View these interactions in esyN

Gene Product Evidence Reference
negative genetic interaction withfft3SMARCAD1 family ATP-dependent DNA helicase Fft3 Negative GeneticPMID:22681890
negative genetic interaction withgcd10tRNA (m1A) methyltransferase Gcd10 (predicted) Negative GeneticPMID:22681890
negative genetic interaction withvps38phophatidylinositol 3-kinase complex subunit Vps38 Negative GeneticPMID:22681890
negative genetic interaction withget1GET complex subunit Get1 (predicted) Negative GeneticPMID:22681890
overexpression rescuesubc11ubiquitin conjugating enzyme E2, Ubc11/UbcP4 Dosage RescuePMID:11279037
overexpression rescuescut9anaphase-promoting complex, TPR lobe subcomplex subunit Cut9/Apc6 Dosage RescuePMID:11279037
External References
Database Identifier Description
NBRP SPCC5E4.03c Fission yeast strain database, National BioResource Project (Japan)
YOGY SPCC5E4.03c Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPCC5E4.03c BioGRID Interaction Datasets
Expression Viewer SPCC5E4.03c Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPCC5E4.03c Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPCC5E4.03c Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPCC5E4.03c Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPCC5E4.03c Polyadenylation Viewer (Gullerova lab)
pombeTV SPCC5E4.03c Transcriptome Viewer (Bähler Lab)
GEO SPCC5E4.03c GEO profiles
PInt SPCC5E4.03c Protein-Protein Interaction Predictor (Bähler Lab)
PeptideAtlas SPCC5E4.03c Peptides identified in tandem mass spectrometry proteomics experiments
SYSGRO SPCC5E4.03c Fission yeast phenotypic data & analysis
Cyclebase SPCC5E4.03c.1 Cell Cycle Data
SPD / RIKEN38/38B09Orfeome Localization Data
UniProtKB/SwissProtO13282Transcription initiation factor TFIID subunit 5
ModBaseO13282Database of comparative protein structure models
STRINGO13282Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_587902transcription initiation factor TFIID subunit 5
RefSeq mRNANM_001022894972h- transcription initiation factor TFIID subunit 5 (taf5), mRNA

Literature for taf5

Search: Europe PMC or PubMed

Release Version: PomBase:30_59 - 12 Apr 2016