atf1 (SPBC29B5.01)


Gene Standard Nameatf1 Characterisation Statuspublished
Systematic IDSPBC29B5.01 Feature Typeprotein coding
Synonymsgad7, mts1, SPNCRNA.353, SPNG1409, sss1 Name Description
Producttranscription factor, Atf-CREB family Atf1 Product Size566aa, 59.71 kDa
Genomic Location Chromosome II, 1546194-1549862 (3669nt); CDS:1547661-1549361 (1701nt)

Ensembl Gene Location
GO Molecular Function
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0003723RNA bindingIDAPMID:7518718627
GO:0000978RNA polymerase II core promoter proximal region sequence-specific DNA bindingIDAPMID:855703996
at iron_repressed_GATA_elementIDAPMID:9135083
IDAPMID:15448137
at M26_binding_siteIDAPMID:15448137
GO:0000982RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity73
regulates ecm33IDAPMID:20032302
GO:0001077RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription26
during cellular response to cadmium ion, regulates ntp1IMPPMID:15164362
regulates gsa1IMPPMID:12787490
regulates sro1IMPPMID:18410345
during regulation of transcription from RNA polymerase II promoter in response to oxidative stress, regulates hsr1IMPPMID:18003976
during cellular response to heat, regulates ntp1IMPPMID:15164362
regulates ish1IMPPMID:11751918
regulates ecm33IMPPMID:20032302
regulates gpx1IMPPMID:10455235
GO:0005515protein bindingIPIsty1GO_REF:0000001887
GO:0046982protein heterodimerization activityIPIpcr1PMID:795884961
GO:0042803protein homodimerization activityIPIatf1PMID:795884934
GO:0010844recombination hotspot bindingIDAPMID:79588492
GO:0043565sequence-specific DNA bindingIDAPMID:7958849141
GO Biological Process
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:0010846activation of reciprocal meiotic recombinationIMPPMID:93911011
GO:0070301cellular response to hydrogen peroxideIGIpap1PMID:1608774414
GO:0006995cellular response to nitrogen starvationIMPPMID:1544813793
GO:0009267cellular response to starvation122
requiredIMPPMID:8557039
requiredIMPPMID:9135083
GO:0031990mRNA export from nucleus in response to heat stressIMPPMID:158409443
GO:0045128negative regulation of reciprocal meiotic recombinationIMPPMID:183759812
GO:0036129negative regulation of transcription from RNA polymerase II promoter in response to hydrogen peroxide1
regulates bfr1IMPPMID:9585505
GO:0045944positive regulation of transcription from RNA polymerase II promoter85
during cellular response to glucose starvation, in presence of maltose, regulates agl1IMPPMID:24224056
during cellular response to glucose starvation, in presence of maltose, regulates gpx1IMPPMID:24224056
during cellular response to glucose starvation, in presence of maltose, regulates fbp1IMPPMID:24224056
GO:0045893positive regulation of transcription, DNA-templated98
during meiotic cell cycleIDAPMID:8557039
GO:0043949regulation of cAMP-mediated signalingIMPPMID:154481377
GO:0010847regulation of chromatin assemblyIMPPMID:154481377
GO:0010848regulation of chromatin disassemblyIMPPMID:154481373
GO:1900411regulation of histone acetylation by regulation of transcription from RNA polymerase II promoterIMPPMID:152181501
GO:1900412regulation of histone methylation by regulation of transcription from RNA polymerase II promoterIMPPMID:152181501
GO:0010520regulation of reciprocal meiotic recombinationIMPPMID:93911015
GO:0006357regulation of transcription from RNA polymerase II promoterIDAPMID:20032302264
NOT GO:0046685response to arsenic-containing substanceIGIpap1PMID:16087744
GO:0006366transcription from RNA polymerase II promoterIMPPMID:15164362130
GO Cellular Component
Term IDTerm NameEvidenceWith/FromReferenceCount
GO:1990243atf1-pcr1 complexIGIpcr1PMID:242240562
GO:0000790nuclear chromatinNASGO_REF:0000001247
GO:0005634nucleusIDAPMID:168233722730
Fission Yeast Phenotype Ontology

Population Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0002924decreased cell population growth on maltose carbon sourceCell growth assayatf1ΔNullPECO:0000236PMID:242240563
FYPO:0001241normal cell population growth on anisomycinCell growth assayatf1ΔNullPECO:0000137PMID:95855052
FYPO:0001237normal cell population growth on cadmiumCell growth assayatf1ΔNullPECO:0000137PMID:95855054
FYPO:0001023normal cell population growth on cisplatinCell growth assayatf1ΔNullPECO:0000137PMID:958550536
FYPO:0001236normal cell population growth on cycloheximideCell growth assayatf1ΔNullPECO:0000137PMID:95855059
FYPO:0001240normal cell population growth on diamideCell growth assayatf1ΔNullPECO:0000137PMID:95855052
FYPO:0001238normal cell population growth on staurosporineCell growth assayatf1ΔNullPECO:0000137PMID:95855055
FYPO:0001239normal cell population growth on t-BOOHCell growth assayatf1ΔNullPECO:0000137PMID:95855051
FYPO:0001357normal vegetative cell population growthCell growth assayatf1ΔNullPECO:0000137PMID:9585505415
FYPO:0000097sensitive to caffeineCell growth assayatf1ΔNullPECO:0000137PMID:1967230695
expressivity FYPO_EXT:0000001
FYPO:0000087sensitive to hydrogen peroxideCell growth assayatf1ΔNullPECO:0000137PMID:19672306112
expressivity FYPO_EXT:0000003
FYPO:0002060viable vegetative cell populationMicroscopyatf1ΔNullPECO:0000137, PECO:0000005PMID:236978063755
Microscopyatf1ΔNullPMID:20473289

Cell Phenotype

Term IDTerm NameEvidenceAlleleExpressionConditionReferenceCount
FYPO:0000235abnormal regulation of translation in response to osmotic stressatf1ΔNullPMID:180656502
FYPO:0002623decreased RNA level during cellular response to glucose stimulusTranscript expression level evidenceatf1 mutantNot specifiedPMID:114532514
affecting mae2
FYPO:0001259decreased RNA level during cellular response to hypoxiaTranscript expression level evidenceatf1 mutantNot specifiedPMID:114532515
affecting mae2
FYPO:0002305decreased RNA level during cellular response to non-ionic osmotic stressTranscript expression level evidenceatf1ΔNullPECO:0000201, PECO:0000025PMID:104284983
affecting cta3
FYPO:0002304decreased RNA level during cellular response to salt stressTranscript expression level evidenceatf1ΔNullPECO:0000201, PECO:0000166PMID:104284983
affecting cta3
FYPO:0002925decreased protein localization to M26 siteChromatin immunoprecipitation experimentatf1ΔNullPECO:0000236PMID:242240562
affecting med7
FYPO:0000781decreased transcription during vegetative growthQuantitative PCRatf1ΔNullPECO:0000236PMID:2422405615
affecting agl1
affecting agl1Quantitative PCRatf1ΔNullPECO:0000236PMID:24224056
affecting fbp1Quantitative PCRatf1ΔNullPECO:0000236PMID:24224056
FYPO:0000825increased RNA level during vegetative growthNorthern assay evidenceatf1ΔNullPECO:0000078PMID:958550581
affecting bfr1
FYPO:0001246normal RNA level during cellular response to hydrogen peroxideTranscript expression level evidenceatf1ΔNullPMID:99742193
affecting ntp1
FYPO:0001096normal RNA level during nitrogen starvationNorthern assay evidenceatf1ΔNullPECO:0000126, PECO:0000103PMID:97106088
affecting fnx1
FYPO:0001483normal alpha,alpha-trehalase activity increase during cellular response to oxidative stressEnzyme assay dataatf1ΔNullPMID:99742191
FYPO:0000988normal cellular response to arsenicCell growth assayatf1ΔNullPECO:0000137PMID:95855052
FYPO:0002177viable vegetative cell with normal cell morphologyMicroscopyatf1ΔNullPECO:0000137, PECO:0000005PMID:236978063078
penetrance FYPO_EXT:0000001
Target Of
RelationshipGeneProductReference
input for lkh1 dual specificity protein kinase Lkh1 PMID:14623292
substrate of sty1 MAP kinase Sty1 PMID:9251044
Transcript
Ensembl transcript structure with UTRs, exons and introns

Exons

Exon Start End
115461941546464
215473201549862

UTRs

Region Start End Reference
three_prime_UTR15493621549862PMID:21511999
five_prime_UTR15461941546464PMID:21511999
five_prime_UTR15473201547660PMID: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
PF11785 Pfam IPR020956 Transcription factor Aft1, osmotic stress domain 57 100 1
PF11787 Pfam IPR021756 Transcription factor Aft1, HRR domain 238 317 1
PF11786 Pfam IPR021755 Transcription factor Aft1, HRA domain 148 234 1
PF00170 Pfam IPR004827 Basic-leucine zipper domain 474 530 5
SM00338 SMART IPR004827 Basic-leucine zipper domain 470 534 6
PS50217 Prosite Profiles IPR004827 Basic-leucine zipper domain 472 535 6
PTHR19304:SF5 HMMPANTHER 85 542 2
PTHR19304 HMMPANTHER 85 542 4
G3DSA:1.20.5.170 Gene3D 474 535 7
SSF57959 SuperFamily 474 534 6
Coil ncoils Rabaptin coiled-coil domain 497 532 975
Low complexity (SEG) seg 43 53
Low complexity (SEG) seg 107 121
Low complexity (SEG) seg 283 293

View domain organization at Pfam

Manually Curated Family or Sub-families

Term IDTerm NameReferenceCount
PBO:0000545bZIP (basic leucine zipper) transcription factor familyPMID:8824587Temporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0000545
PBO:0002433Atf-CREB subfamilyTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0002433
PBO:0012854G1 Arrest DefectiveTemporary processing gif - replaced by AJAX with count of genes annotated with the term PBO:0012854

Protein Properties

Ave. residue weight 105.50 Da
Charge -2.50
Isoelectric point 5.75
Molecular weight 59.71 kDa
Number of residues 566
Sequence
Gene Expression

Qualitative Gene Expression

DescriptionLevelEvidenceReference
RNA levelincreasedexpression microarray evidencePMID:12529438
during GO:0034599
increased,
in presence of cadmium sulfate
expression microarray evidencePMID:12529438
increased,
in presence of methyl methanesulfonate
expression microarray evidencePMID:12529438
increasedexpression microarray evidencePMID:12529438
during GO:0071470
increasedexpression microarray evidencePMID:12529438
during GO:0034605

Quantitative Gene Expression

Protein Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
3577.25during GO:0072690PECO:0000014,
PECO:0000005
population_wideexperimental evidencePMID:23101633
6987.67during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population_wideexperimental evidencePMID:23101633

RNA Level

Molecules/Cell (average)DuringConditionScaleEvidenceReference
5during GO:0072690PECO:0000014,
PECO:0000005
population_wideexperimental evidencePMID:23101633
3during cell quiescence following G1 arrest due to nitrogen limitationPECO:0000127,
PECO:0000014,
PECO:0000005
population_wideexperimental evidencePMID:23101633
Subunit Composition
DescriptionQualifierReferenceCount
homodimeric PMID:795884917
heterodimeric PMID:79588495
Misc
DescriptionQualifierReferenceCount
deletion mutant expression profiling PMID:12529438 PMID:1800397679
Pathway
DescriptionQualifierReferenceCount
links stress-activated MAPK (Sty1) pathway to cAMP-dependent protein kinase (Pka1) pathway PMID:154481373
Species Distribution
DescriptionQualifierReferenceCount
orthologs cannot be distinguished132
conserved in fungi4564
conserved in eukaryotes4482
conserved in eukaryotes only2485
Orthologs

Orthologs in Compara


Genetic Interactions

Source: BioGRID

Gene Product Evidence Reference
rpn1019S proteasome regulatory subunit Rpn10 Synthetic LethalityPMID:10809753
cip1RNA-binding protein Cip1 Synthetic RescuePMID:16407405
pap1transcription factor Pap1/Caf3 Phenotypic EnhancementPMID:11907263
Synthetic LethalityPMID:15247218
Synthetic RescuePMID:16087744
Negative GeneticPMID:9585505
Phenotypic EnhancementPMID:10749922
zip1transcription factor Zip1 Dosage RescuePMID:10102365
ran1serine/threonine protein kinase Ran1 Synthetic RescuePMID:8824587
sck2serine/threonine protein kinase Sck2 Synthetic LethalityPMID:20453258
ubp6ubiquitin C-terminal hydrolase Ubp6 Synthetic LethalityPMID:15533439
sty1MAP kinase Sty1 Synthetic Growth DefectPMID:20061379
Phenotypic Enhancement
Dosage Rescue
Phenotypic SuppressionPMID:9154834
Dosage RescuePMID:8824587
ago1argonaute Phenotypic EnhancementPMID:15218150
wis1MAP kinase kinase Wis1 Phenotypic SuppressionPMID:15870269
Synthetic RescuePMID:8824587
dcr1dicer Phenotypic EnhancementPMID:15218150
tup11transcriptional corepressor Tup11 Phenotypic SuppressionPMID:11238405
prr1transcription factor Prr1 Synthetic Growth DefectPMID:11179424
cip2RNA-binding protein Cip2 Synthetic RescuePMID:16407405
tup12transcriptional corepressor Tup12 Phenotypic SuppressionPMID:11238405
deb1transcription factor Deb1/Rdp1 Phenotypic EnhancementPMID:15218150
uch2ubiquitin C-terminal hydrolase Uch2 Synthetic Growth DefectPMID:15533439
pcr1transcription factor Pcr1 Dosage RescuePMID:10102365
Phenotypic EnhancementPMID:18375616
atf31transcription factor Atf31 Dosage RescuePMID:10102365
atf21transcription factor, Atf-CREB family Atf21 Dosage RescuePMID:10102365
int6eIF3e subunit Int6 Dosage RescuePMID:20875427
cut1separase/separin Synthetic LethalityPMID:16861909
Physical Interactions

Source: BioGRID

Gene Product Evidence Reference
rpn1019S proteasome regulatory subunit Rpn10 Affinity Capture-WesternPMID:11584278
clr6histone deacetylase (class I) Clr6 Affinity Capture-WesternPMID:15292231
clr3histone deacetylase (class II) Clr3 Affinity Capture-WesternPMID:15292231
dph1UBA domain protein Dph1 Affinity Capture-WesternPMID:11584278
cbf11CBF1/Su(H)/LAG-1 family transcription factor Cbf11 Affinity Capture-MSPMID:22540037
rhp23Rad23 homolog Rhp23 Affinity Capture-WesternPMID:11584278
fbh1DNA helicase I Affinity Capture-WesternPMID:19836238
pcr1transcription factor Pcr1 Affinity Capture-RNAPMID:22144913
Affinity Capture-WesternPMID:9135083
Affinity Capture-WesternPMID:18375616
pmk1MAP kinase Pmk1 Biochemical ActivityPMID:17881729
swi6HP1 family chromodomain protein Swi6 Affinity Capture-WesternPMID:15292231
pka1cAMP-dependent protein kinase catalytic subunit Pka1 Biochemical ActivityPMID:23640764
Affinity Capture-Western
sty1MAP kinase Sty1 Biochemical ActivityPMID:8824588
Biochemical ActivityPMID:12383265
Two-hybridPMID:23695164
Biochemical ActivityPMID:23640764
Biochemical ActivityPMID:8824587
Affinity Capture-Western
Biochemical ActivityPMID:18272791
External References
Database Identifier Description
NBRP SPBC29B5.01 Fission yeast strain database, National BioResource Project (Japan)
YOGY SPBC29B5.01 Retrieval of eukaryotic orthologs (Bähler Lab)
BioGrid SPBC29B5.01 BioGRID Interaction Datasets
Expression Viewer SPBC29B5.01 Cell Cycle Expression Profile (Bähler Lab)
Expression Viewer SPBC29B5.01 Meiosis/Sporulation Expression Profies (Bähler Lab)
Expression Viewer SPBC29B5.01 Pheromone response/mating expression profiles (Bähler Lab)
Expression Viewer SPBC29B5.01 Environmental stress expression profiles (Bähler Lab)
Pomb(A) SPBC29B5.01 Polyadenylation Viewer (Gullerova lab)
pombeTV SPBC29B5.01 Transcriptome Viewer (Bähler Lab)
Cyclebase SPBC29B5.01 Cell Cycle Data
GEO SPBC29B5.01 GEO profiles
PInt SPBC29B5.01 Protein-Protein Interaction Predictor (Bähler Lab)
WikiGene2540329transcription factor Atf1
EntrezGene2540329transcription factor Atf1
SPD / RIKEN33/33C12Orfeome Localization Data
UniProtKB/SwissProtP52890Transcription factor atf1
ModBaseP52890Database of comparative protein structure models
StringP52890Network display of known and predicted interactions and functional associations
RefSeq PeptideNP_595652transcription factor Atf1
RefSeq mRNANM_001021546972h- transcription factor Atf1 (atf1), mRNA
European Nucleotide ArchiveAAA93260ENA Protein Mapping
European Nucleotide ArchiveAAB46990ENA Protein Mapping
European Nucleotide ArchiveBAA09817ENA Protein Mapping
European Nucleotide ArchiveBAA09841ENA Protein Mapping
European Nucleotide ArchiveBAA12194ENA Protein Mapping
European Nucleotide ArchiveCAC05510ENA Protein Mapping
UniParcUPI0000126228UniProt Archive

Literature for atf1

Search: Europe PMC or PubMed

Release Version: PomBase:21_41 - 24 Feb 2014