Phosphate system positive regulatory protein PHO4 - Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

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P07270 (PHO4_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified October 3, 2012. Version 134. History...

Clusters with 100%, 90%, 50% identity |

Documents (4) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
Phosphate system positive regulatory protein PHO4

Gene names

Name:	PHO4
Ordered Locus Names:	YFR034C

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces

Protein attributes

Sequence length	312 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Transcriptional activator that regulates the expression of repressible phosphatase under phosphate starvation conditions. Binds to the upstream activating sequence (UAS) of several phosphatase encoding PHO genes. Inhibited by the cyclin-CDK PHO80-PHO85 under high-phosphate conditions.
Subunit structure	Binds DNA as a homodimer. Interacts with transcription factor PHO2 and binds cooperatively to PHO5 UAS. Interacts with the cyclin-CDK PHO80-PHO85 and the CDK inhibitor (CKI) PHO81. Ref.9 Ref.10
Subcellular location	Cytoplasm. Nucleus. Note: Predominantly cytoplasmic under high-phosphate conditions and localized to the nucleus upon phosphate starvation. Ref.12
Domain	the 9aaTAD motif (residues 75 to 83) is a transactivation domain present in a large number of yeast and animal transcription factors. Ref.7 Ref.14
Post-translational modification	Phosphorylated by the cyclin-CDK PHO80-PHO85 at five residues under high-phosphate conditions, preventing PHO4 from activating the structural PHO genes. Phosphorylation of Ser-114 and Ser-128 promotes nuclear export. Phosphorylation of Ser-152 decreases nuclear import. Phosphorylation of Ser-223 decreases the binding affinity for PHO2. Ref.11 Ref.12 Ref.13 Ref.15 Ref.16 Ref.17 Ref.18
Sequence similarities	Contains 1 bHLH (basic helix-loop-helix) domain.
Sequence caution	The sequence CAA27345.1 differs from that shown. Reason: Frameshift at position 290.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Cellular component	Cytoplasm Nucleus
Ligand	DNA-binding
Molecular function	Activator
PTM	Phosphoprotein
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	cellular response to phosphate starvation Inferred from mutant phenotype Ref.13. Source: SGD chromatin remodeling Inferred from mutant phenotype PubMed 2196175. Source: SGD phosphate-containing compound metabolic process Traceable author statement PubMed 8918192. Source: SGD positive regulation of phosphate metabolic process Inferred from genetic interaction PubMed 3915785. Source: SGD positive regulation of transcription from RNA polymerase II promoter Inferred from genetic interaction PubMed 3915785. Source: SGD transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	cytoplasm Inferred from direct assay Ref.13. Source: SGD nucleus Inferred from direct assay Ref.13. Source: SGD
Molecular function	sequence-specific DNA binding Inferred from direct assay PubMed 19111667 PubMed 19158363 PubMed 2664469. Source: SGD sequence-specific DNA binding transcription factor activity Traceable author statement PubMed 8918192. Source: SGD
Complete GO annotation...

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 312

312

Phosphate system positive regulatory protein PHO4

PRO_0000127422

Regions

Domain

250 – 306

bHLH

Region

1 – 31

Interaction with PHO80

Region

75 – 99

Transcription activation domain

Region

156 – 200

Interaction with PHO80

Region

201 – 218

Interaction with PHO2

Region

203 – 227

Involved in oligomerization

Motif

75 – 83

9aaTAD

Motif

140 – 166

Nuclear localization signal

Amino acid modifications

Modified residue

100

Phosphoserine; by PHO85 Ref.12 Ref.13

Modified residue

114

Phosphoserine; by PHO85 Ref.12 Ref.13

Modified residue

128

Phosphoserine; by PHO85 Ref.12 Ref.13 Ref.18

Modified residue

152

Phosphoserine; by PHO85 Ref.12 Ref.13 Ref.18

Modified residue

204

Phosphoserine Ref.17 Ref.18

Modified residue

223

Phosphoserine; by PHO85 Ref.12 Ref.13 Ref.15

Modified residue

242

Phosphoserine Ref.16 Ref.17 Ref.18

Modified residue

243

Phosphoserine Ref.16 Ref.17 Ref.18

Experimental info

Sequence conflict

269

A → P in CAA27345. Ref.1

Sequence conflict

269

A → P Ref.2

Sequence conflict

310

V → G Ref.2

Secondary structure

312

Helix Strand Turn

Details...

Sequences

Sequence

Length

Mass (Da)

Tools

P07270 [UniParc].

Last modified January 9, 2007. Version 4.
Checksum: 6DB93C0DDDB4D741
Show »

FASTA

312

34,089

        10         20         30         40         50         60 
MGRTTSEGIH GFVDDLEPKS SILDKVGDFI TVNTKRHDGR EDFNEQNDEL NSQENHNSSE 

        70         80         90        100        110        120 
NGNENENEQD SLALDDLDRA FELVEGMDMD WMMPSHAHHS PATTATIKPR LLYSPLIHTQ 

       130        140        150        160        170        180 
SAVPVTISPN LVATATSTTS ANKVTKNKSN SSPYLNKRRG KPGPDSATSL FELPDSVIPT 

       190        200        210        220        230        240 
PKPKPKPKQY PKVILPSNST RRVSPVTAKT SSSAEGVVVA SESPVIAPHG SSHSRSLSKR 

       250        260        270        280        290        300 
RSSGALVDDD KRESHKHAEQ ARRNRLAVAL HELASLIPAE WKQQNVSAAP SKATTVEAAC 

       310 
RYIRHLQQNV ST

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Isolation, physical characterization and expression analysis of the Saccharomyces cerevisiae positive regulatory gene PHO4." Legrain M., de Wilde M., Hilger F. Nucleic Acids Res. 14:3059-3073(1986) [PubMed: 3008105] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]	"Mode of expression of the positive regulatory genes PHO2 and PHO4 of the phosphatase regulon in Saccharomyces cerevisiae." Yoshida K., Kuromitsu Z., Ogawa N., Oshima Y. Mol. Gen. Genet. 217:31-39(1989) [PubMed: 2505053] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[3]	"Fifteen open reading frames in a 30.8 kb region of the right arm of chromosome VI from Saccharomyces cerevisiae." Eki T., Naitou M., Hagiwara H., Abe M., Ozawa M., Sasanuma S., Sasanuma M., Tsuchiya Y., Shibata T., Watanabe K., Ono A., Yamazaki M., Tashiro H., Hanaoka F., Murakami Y. Yeast 12:177-190(1996) [PubMed: 8686381] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[4]	"Analysis of the nucleotide sequence of chromosome VI from Saccharomyces cerevisiae." Murakami Y., Naitou M., Hagiwara H., Shibata T., Ozawa M., Sasanuma S., Sasanuma M., Tsuchiya Y., Soeda E., Yokoyama K., Yamazaki M., Tashiro H., Eki T. Nat. Genet. 10:261-268(1995) [PubMed: 7670463] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[5]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[6]	"Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae." Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F., Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J., Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J. LaBaer J. Genome Res. 17:536-543(2007) [PubMed: 17322287] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[7]	"Functional domains of a positive regulatory protein, PHO4, for transcriptional control of the phosphatase regulon in Saccharomyces cerevisiae." Ogawa N., Oshima Y. Mol. Cell. Biol. 10:2224-2236(1990) [PubMed: 2183025] [Abstract] Cited for: DOMAINS.
[8]	"The yeast regulatory gene PHO4 encodes a helix-loop-helix motif." Berben G.H.F., Legrain M., Gilliquet V., Hilger F. Yeast 6:451-454(1990) [PubMed: 2220078] [Abstract] Cited for: HELIX-LOOP-HELIX MOTIF.
[9]	"The activation domain of a basic helix-loop-helix protein is masked by repressor interaction with domains distinct from that required for transcription regulation." Jayaraman P.-S., Hirst K., Goding C.R. EMBO J. 13:2192-2199(1994) [PubMed: 8187772] [Abstract] Cited for: INTERACTION WITH PHO80.
[10]	"The transcription factor, the Cdk, its cyclin and their regulator: directing the transcriptional response to a nutritional signal." Hirst K., Fisher F., McAndrew P.C., Goding C.R. EMBO J. 13:5410-5420(1994) [PubMed: 7957107] [Abstract] Cited for: INTERACTION WITH PHO2; PHO80 AND PHO81.
[11]	"Phosphorylation of the transcription factor PHO4 by a cyclin-CDK complex, PHO80-PHO85." Kaffman A., Herskowitz I., Tjian R., O'Shea E.K. Science 263:1153-1156(1994) [PubMed: 8108735] [Abstract] Cited for: PHOSPHORYLATION.
[12]	"Regulation of PHO4 nuclear localization by the PHO80-PHO85 cyclin-CDK complex." O'Neill E.M., Kaffman A., Jolly E.R., O'Shea E.K. Science 271:209-212(1996) [PubMed: 8539622] [Abstract] Cited for: PHOSPHORYLATION AT SER-100; SER-114; SER-128; SER-152 AND SER-223, SUBCELLULAR LOCATION.
[13]	"Roles of phosphorylation sites in regulating activity of the transcription factor Pho4." Komeili A., O'Shea E.K. Science 284:977-980(1999) [PubMed: 10320381] [Abstract] Cited for: PHOSPHORYLATION AT SER-100; SER-114; SER-128; SER-152 AND SER-223.
[14]	"Nine-amino-acid transactivation domain: establishment and prediction utilities." Piskacek S., Gregor M., Nemethova M., Grabner M., Kovarik P., Piskacek M. Genomics 89:756-768(2007) [PubMed: 17467953] [Abstract] Cited for: DOMAIN.
[15]	"Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae." Li X., Gerber S.A., Rudner A.D., Beausoleil S.A., Haas W., Villen J., Elias J.E., Gygi S.P. J. Proteome Res. 6:1190-1197(2007) [PubMed: 17330950] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-223, MASS SPECTROMETRY. Strain: ADR376.
[16]	"Analysis of phosphorylation sites on proteins from Saccharomyces cerevisiae by electron transfer dissociation (ETD) mass spectrometry." Chi A., Huttenhower C., Geer L.Y., Coon J.J., Syka J.E.P., Bai D.L., Shabanowitz J., Burke D.J., Troyanskaya O.G., Hunt D.F. Proc. Natl. Acad. Sci. U.S.A. 104:2193-2198(2007) [PubMed: 17287358] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-242 AND SER-243, MASS SPECTROMETRY.
[17]	"Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases." Smolka M.B., Albuquerque C.P., Chen S.H., Zhou H. Proc. Natl. Acad. Sci. U.S.A. 104:10364-10369(2007) [PubMed: 17563356] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-204; SER-242 AND SER-243, MASS SPECTROMETRY.
[18]	"A multidimensional chromatography technology for in-depth phosphoproteome analysis." Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H. Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed: 18407956] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-128; SER-152; SER-204; SER-242 AND SER-243, MASS SPECTROMETRY.
[19]	"Crystal structure of PHO4 bHLH domain-DNA complex: flanking base recognition." Shimizu T., Toumoto A., Ihara K., Shimizu M., Kyogoku Y., Ogawa N., Oshima Y., Hakoshima T. EMBO J. 16:4689-4697(1997) [PubMed: 9303313] [Abstract] Cited for: X-RAY CRYSTALLOGRAPHY (2.8 ANGSTROMS) OF 251-312.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

X03719 Genomic DNA. Translation: CAA27345.1. Frameshift.
D50617 Genomic DNA. Translation: BAA09273.1.
AY692776 Genomic DNA. Translation: AAT92795.1.
BK006940 Genomic DNA. Translation: DAA12477.1.

PIR

S56289.

RefSeq

NP_116692.1. NM_001179999.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1A0A	X-ray	2.80	A/B	251-312	[»]

ProteinModelPortal

P07270.

SMR

P07270. Positions 251-312.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-911N.

IntAct

P07270. 110 interactions.

MINT

MINT-2779852.

STRING

P07270.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblFungi

YFR034C; YFR034C; YFR034C.

GeneID

850594.

KEGG

sce:YFR034C.

Organism-specific databases

CYGD

YFR034c.

SGD

S000001930. PHO4.

Phylogenomic databases

eggNOG

NOG39146.

K06658.

OrthoDB

EOG4QVGNV.

Gene expression databases

ArrayExpress

P07270.

Genevestigator

P07270.

GermOnline

YFR034C. Saccharomyces cerevisiae.

Family and domain databases

Gene3D

G3DSA:4.10.280.10. HLH_DNA_bd. 1 hit.

InterPro

IPR011598. HLH_dom.
[Graphical view]

Pfam

PF00010. HLH. 1 hit.
[Graphical view]

SMART

SM00353. HLH. 1 hit.
[Graphical view]

SUPFAM

SSF47459. HLH_basic. 1 hit.

PROSITE

PS50888. BHLH. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

EvolutionaryTrace

P07270.

NextBio

966449.

Entry information

Entry name

PHO4_YEAST

Accession

Primary (citable) accession number: P07270
Secondary accession number(s): D6VTR7

Entry history

Integrated into UniProtKB/Swiss-Prot:	April 1, 1988
Last sequence update:	January 9, 2007
Last modified:	October 3, 2012
This is version 134 of the entry and version 4 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program

Relevant documents

Yeast

Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD

Yeast chromosome VI

Yeast (Saccharomyces cerevisiae) chromosome VI: entries and gene names

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Oct	NOV	Dec
	09
2011	2012	2013

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Sequence annotation (Features)

Molecule processing

Regions

Amino acid modifications

Experimental info

Secondary structure

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents