bdf1 (SPCC1450.02)


Gene Standard Namebdf1 Characterisation Statuspublished
Systematic IDSPCC1450.02 Feature Typeprotein coding
Synonymsbrf1, SPCC191.13 Name Description
ProductSwr1 complex bromodomain subunit Brf1 Product Size578aa, 65.19 kDa
Genomic Location Chromosome III, 1728388-1731295 (2908nt); CDS:1728861-1730597 (1737nt)

Ensembl Gene Location
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0006338chromatin remodelingIPIGO:0000812PMID:19040720157
GO:0043486histone exchangeIPIGO:0000812PMID:1904072021
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0000812Swr1 complexIDAPMID:1904072016
GO:0005634nucleusIDAPMID:168233722740
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0001098sensitive to 4-nitroquinoline N-oxide159
expressivity FYPO_EXT:0000003Cell growth assaybdf1ΔNullPECO:0000137, PECO:0000005PMID:19264558
FYPO:0002060viable vegetative cell populationMicroscopybdf1ΔNullPMID:204732893760
Microscopybdf1ΔNullPECO:0000005, PECO:0000137PMID:23697806

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002177viable vegetative cell with normal cell morphology3086
penetrance FYPO_EXT:0000001Microscopybdf1ΔNullPECO:0000005, PECO:0000137PMID:23697806
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
117283881731295

UTRs

Region Coordinates Reference
five_prime_UTR1728388..1728860PMID:21511999
three_prime_UTR1730598..1731295PMID: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
PF00439 Pfam IPR001487 Bromodomain 93 173 9
PF00439 Pfam IPR001487 Bromodomain 260 346 9
SM00297 SMART IPR001487 Bromodomain 253 362 9
SM00297 SMART IPR001487 Bromodomain 86 192 9
PS50014 Prosite Profiles IPR001487 Bromodomain 271 343 9
PS50014 Prosite Profiles IPR001487 Bromodomain 101 173 9
PS51525 Prosite Profiles IPR027353 NET domain 430 510 2
PS00633 Prosite Patterns IPR018359 Bromodomain, conserved site 276 335 7
PTHR22880 HMMPANTHER 3 574 4
1.20.920.10 Gene3D IPR001487 Bromodomain 69 209 9
1.20.920.10 Gene3D IPR001487 Bromodomain 235 359 9
SSF47370 SuperFamily IPR001487 Bromodomain 239 364 10
SSF47370 SuperFamily IPR001487 Bromodomain 74 194 10
PR00503 PRINTS IPR001487 Bromodomain 306 324 9
PR00503 PRINTS IPR001487 Bromodomain 290 306 9
PR00503 PRINTS IPR001487 Bromodomain 324 343 9
PR00503 PRINTS IPR001487 Bromodomain 274 287 9

View domain organization at Pfam

Manually Curated Family or Sub-families

Term IDTerm NameReferenceCount
PBO:0000496bromodomainTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0000496

Protein Properties

Ave. residue weight 112.79 Da
Charge -12.50
Isoelectric point 4.92
Molecular weight 65.19 kDa
Number of residues 578
Modifications

Protein Modifications

Term IDTerm NameEvidenceResidueReferenceCount
MOD:00046O-phospho-L-serineS528PMID:247631071663
level fluctuates during mitotic cell cycleS52PMID:24763107
present during mitotic M phaseS239PMID:21712547
present during mitotic M phaseS528PMID:21712547
present during mitotic M phaseS391PMID:21712547
present during mitotic M phaseS23PMID:21712547
present during mitotic M phaseS35PMID:21712547
present during mitotic M phaseS34PMID:21712547
present during mitotic M phaseS52PMID:21712547
S239PMID:24763107
S391PMID:24763107
MOD:00047O-phospho-L-threonineT14PMID:21712547682
present during mitotic M phase
MOD:00696phosphorylated residueNASPMID:195477441915
Sequence
Gene Expression

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
11545during GO:0000087PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
12066during GO:0000085PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
12598during GO:0000084PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
12408during GO:0000080PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
5189.31during GO:0072690PECO:0000014,
PECO:0000005
experimental evidencePMID:23101633
12047during GO:0072690PECO:0000005,
PECO:0000126
mass spectrometry evidencePMID:24763107
3939during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
12during GO:0072690PECO:0000014,
PECO:0000005
experimental evidencePMID:23101633
2.8during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000014,
PECO:0000127,
PECO:0000005
experimental evidencePMID:23101633
Species Distribution
DescriptionQualifierReferenceCount
conserved in fungi4569
conserved in eukaryotes4482
conserved in metazoa3419
conserved in vertebrates3393
conserved in eukaryotes only2487
Orthologs

Manually curated orthologous groups

SpeciesGeneDescriptionLinksCount

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
rpl270160S ribosomal protein L27 Negative GeneticPMID:22681890
pnk1DNA kinase/phosphatase Pnk1 Negative GeneticPMID:18818364
SPCC736.07cunconventional prefoldin involved in translation initiation (predicted) Negative GeneticPMID:22681890
mca1transcription factor, zf-fungal binuclear cluster type Mca1 (predicted) Negative GeneticPMID:22681890
hip1hira protein, histone chaperone Hip1 Negative GeneticPMID:18818364
SPCPJ732.02cxylulose kinase (predicted) Positive GeneticPMID:18818364
swi1replication fork protection complex subunit Swi1 Synthetic RescuePMID:22095079
bdc1bromodomain containing protein 1, Bdc1 Negative GeneticPMID:22681890
shf1small histone ubiquitination factor Shf1 Negative GeneticPMID:22681890
cbp1CENP-B homolog Negative GeneticPMID:18818364
hip4histone promoter control protein Hip4 Negative GeneticPMID:18818364
nop52nucleolar protein Nop52 family (predicted) Negative GeneticPMID:22681890
nem1Nem1-Spo7 phosphatase complex catalytic subunit Nem1 (predicted) Negative GeneticPMID:22681890
SPCC550.03cSki complex RNA helicase Ski2 (predicted) Negative GeneticPMID:18818364
mug123meiotically upregulated gene Mug123 Negative GeneticPMID:22681890
alp31tubulin specific chaperone cofactor A, Alp31 Negative GeneticPMID:18818364
tcg1single-stranded telomeric binding protein Tgc1 Positive GeneticPMID:22681890
SPAC10F6.13caspartate aminotransferase (predicted) Negative GeneticPMID:22681890
elp3elongator complex subunit Elp3 (predicted) Positive GeneticPMID:18818364
clp1Cdc14-related protein phosphatase Clp1/Flp1 Negative GeneticPMID:22681890
SPBC13E7.03cRNA hairpin binding protein (predicted) Negative GeneticPMID:22681890
tom70mitochondrial TOM complex subunit Tom70 (predicted) Negative GeneticPMID:22681890
rsc4RSC complex subunit Rsc4 Positive GeneticPMID:18818364
apq12nuclear membrane organization protein Apq12 (predicted) Negative GeneticPMID:22681890
pdp1PWWP domain protein Pdp1 Positive GeneticPMID:18818364
SPBC16H5.13WD repeat protein, human WDR7 ortholog Negative GeneticPMID:18818364
bdf2BET family double bromodomain protein Bdf2 Negative GeneticPMID:18818364
Synthetic LethalityPMID:22095079
Negative GeneticPMID:22681890
ask1DASH complex subunit Ask1 Negative GeneticPMID:18818364
Negative GeneticPMID:22681890
cho1phosphatidyl-N-methylethanolamine N-methyltransferase (predicted) Negative GeneticPMID:18818364
chk1Chk1 protein kinase Synthetic Growth DefectPMID:22095079
Synthetic Rescue
mgr2mitochondrial membrane protein Mgr2 (predicted) Negative GeneticPMID:22681890
far10SIP/FAR complex FHA domain subunit Far10/Csc1 Negative GeneticPMID:22681890
SPCC126.08clectin family glycoprotein receptor (predicted) Negative GeneticPMID:22681890
rad57RecA family ATPase Rad57/Rhp57 Negative GeneticPMID:22681890
cph1Clr6 histone deacetylase associated PHD protein-1 Cph1 Negative GeneticPMID:18818364
Negative GeneticPMID:22681890
crb2DNA repair protein Rad9 homolog, Rhp9 Synthetic RescuePMID:22095079
mug154conserved fungal protein Negative GeneticPMID:18818364
SPBC31F10.10czf-MYND type zinc finger protein Negative GeneticPMID:18818364
mug20sequence orphan Positive GeneticPMID:22681890
mcl1DNA polymerase alpha accessory factor Mcl1 Negative GeneticPMID:22681890
ubp8SAGA complex ubiquitin C-terminal hydrolase Ubp8 Negative GeneticPMID:18818364
pob3FACT complex subunit Pob3 Negative GeneticPMID:18818364
arp42SWI/SNF and RSC complex subunit Arp42 Negative GeneticPMID:18818364
rpl160160S ribosomal protein L13/L16 (predicted) Negative GeneticPMID:18818364
Negative GeneticPMID:22681890
snz1pyridoxine biosynthesis protein Negative GeneticPMID:22681890
cds1replication checkpoint kinase Cds1 Synthetic Growth DefectPMID:22095079
Synthetic Rescue
alp13MRG family Clr6 histone deacetylase complex subunit Alp13 Phenotypic EnhancementPMID:19547744
SPAPB1E7.11csequence orphan Negative GeneticPMID:22681890
emc1ER membrane protein complex subunit Emc1 (predicted) Negative GeneticPMID:22681890
SPBC25H2.15SSU-rRNA maturation protein Tsr4 homolog 1 (predicted) Positive GeneticPMID:22681890
cay1cactin, spliceosome complex subunit (predicted) Negative GeneticPMID:18818364
arv1Arv1-like family protein Arv1 (predicted) Negative GeneticPMID:22681890
erp2COPII-coated vesicle component Erp2/3/4 (predicted) Negative GeneticPMID:22681890
spc34DASH complex subunit Spc34 Negative GeneticPMID:18818364
ngg1SAGA complex subunit Ngg1 Negative GeneticPMID:18818364
sec28coatomer epsilon subunit (predicted) Positive GeneticPMID:18818364
hrp1ATP-dependent DNA helicase Hrp1 Negative GeneticPMID:18818364
ser2phosphoserine phosphatase Ser2 (predicted) Negative GeneticPMID:18818364
dad2DASH complex subunit Dad2 Negative GeneticPMID:18818364
Negative GeneticPMID:22681890
SPAC17H9.13cglutamate 5-kinase (predicted) Negative GeneticPMID:22681890
fkbp39FKBP-type peptidyl-prolyl cis-trans isomerase (predicted) Negative GeneticPMID:18818364
Negative GeneticPMID:22681890
mrc1mediator of replication checkpoint 1 Phenotypic SuppressionPMID:22095079
Synthetic Rescue
Synthetic Growth Defect
sat1Golgi membrane exchange factor subunit Sat1 (predicted) Negative GeneticPMID:22681890
yaf9YEATS family histone acetyltransferase subunit Yaf9 Negative GeneticPMID:18818364
rps40140S ribosomal protein S4 (predicted) Negative GeneticPMID:22681890
rsc1RSC complex subunit Rsc1 Positive GeneticPMID:18818364
fft3SMARCAD1 family ATP-dependent DNA helicase Fft3 Negative GeneticPMID:18818364
SPAC19B12.11czinc finger protein, human ZNF593 ortholog Negative GeneticPMID:18818364
sds23PP2A-type phosphatase inhibitor Sds23/Moc1 Negative GeneticPMID:22681890
rad3ATR checkpoint kinase Rad3 Synthetic Growth DefectPMID:22095079
spo20sec14 cytosolic factor family Sec14 Negative GeneticPMID:22681890
Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
epe1Jmjc domain chromatin associated protein Epe1 Affinity Capture-MSPMID:24013502
bdf2BET family double bromodomain protein Bdf2 Affinity Capture-MSPMID:24013502
External References
Database Identifier Description
NBRP SPCC1450.02 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPCC1450.02 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPCC1450.02 BioGRID Interaction Datasets
Expression Viewer SPCC1450.02 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPCC1450.02 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPCC1450.02 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPCC1450.02 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPCC1450.02 Polyadenylation Viewer (Gullerova lab)
pombeTV SPCC1450.02 Transcriptome Viewer (Bähler Lab)
Cyclebase SPCC1450.02 Cell Cycle Data
GEO SPCC1450.02 GEO profiles
PInt SPCC1450.02 Protein-Protein Interaction Predictor (Bähler Lab)
WikiGene2538955Swr1 complex bromodomain subunit Brf1
EntrezGene2538955Swr1 complex bromodomain subunit Brf1
SPD / RIKEN35/35H03Orfeome Localization Data
UniProtKB/SwissProtQ9Y7N0SWR1 complex bromodomain subunit bdf1
ModBaseQ9Y7N0Database of comparative protein structure models
STRINGQ9Y7N0Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_588301Swr1 complex bromodomain subunit Brf1
RefSeq mRNANM_001023291972h- Swr1 complex bromodomain subunit Brf1 (bdf1), mRNA
European Nucleotide ArchiveCAB41059ENA Protein Mapping
European Nucleotide ArchiveCAB41059.1ENA Protein Mapping
UniParcUPI000006B5FEUniProt Archive

Literature for bdf1

Search: Europe PMC or PubMed

Release Version: PomBase:22_44 - 08 Jul 2014