Pho4: Difference between revisions

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== Function ==

Phosphate system positive regulatory protein '''Pho4''' is a transcriptional activator which regulates the expression of phosphatase under conditions of phosphate starvation<ref>PMID:2220078</ref>. For details see [[Pho4 bHLH Protein]].

Phosphate system positive regulatory protein '''Pho4''' is a transcriptional activator which regulates the expression of phosphatase under conditions of phosphate starvation in Saccharomyces cerevisiae <ref>PMID:2220078</ref>. For details see [[Pho4 bHLH Protein]].

*<scene name='72/725407/Cv/2'>Yeast Pho4 DNA-binding domain interactions with DNA</scene>.

*<scene name='72/725407/Cv/3'>Yeast Pho4 DNA-binding domain interactions with DNA</scene>.

Its structure is a basic basic helix-loop-helix (bHLH)~~<ref>PMID:2220078</ref>~~

Its structure is a basic basic helix-loop-helix (bHLH)

The pho4 protein takes part in transcription of several yeast genes related to phosphate metabolism:

[[PH05]] encoding repressible acid phosphatase

'''PH05 encoding repressible acid phosphatase,''' the expression of Pho5 in Saccharomyces cerevisiae is derepressed by a specific level of inorganic phosphate (Pi), and depressed when the Pi concentrate in the medium is lowered, the regulatory system of the Pi signals coded by PHO4 PHO2 , PHO80, and PHO81 genes.<ref>PMID:2671650</ref>

[[PH08]] encoding alkaline phosphatase~~<ref>PMID:2671650</ref>~~

'''PH08 encoding alkaline phosphatase'''

[[PH081 ]] a regulatory gene~~<ref>PMID:2671650</ref>~~

'''PH081 a regulatory gene''' regulated by PHO system wuth the use of Pi

[[PH084]] phosphate permease gene<ref>PMID:3902805</ref>

'''PH084 phosphate permease gene'''<ref>PMID:3902805</ref>

'''PH085 is a cyclin-dependent protein kinase'''<ref>PMID:17850263</ref>

other than that, the Pho4 protein seems to contain a coding region for non translated mitochondrial proteins<ref>PMID:2183025</ref>

</StructureSection>

==~~sturcture~~==

==Structure==

The structure of the Pho4 protein is a basic Helix-loop-helix(bHLH) , The linker sequence between Helix1(H1) and Helix2(H2) contains several residues: Asn, Glu, Pro and Ser<ref>PMID: 3775366</ref> . The DNA binding site is a homodimer and two monomers in a left‐handed four‐helix bundle fold (identical to bHLH/Zip and bHLH proteins fold) .

The structure of the Pho4 protein is a basic Helix-loop-helix(bHLH) motif, The linker sequence between Helix1(H1) and Helix2(H2) contains several residues: Asn, Glu, Pro and Ser<ref>PMID:3775366</ref>. The DNA binding site is a homodimer and two monomers in a left‐handed four‐helix bundle fold (identical to bHLH/Zip and bHLH proteins fold).

*loop structure

Pho4 loops (conserved structure?) are long but compact and forms a short alpha-helical structure <ref>PMID:1170095</ref>. The PHO4 loop contains a Trp residue that faces the aromatic rings of Tyr52 and His55 of helix H2, and Pro28 of H2 and H1.~~an aromatic cluster forms a cap structure~~ is ~~observed.~~<ref>PMID: 9303313</ref>

Pho4 loops (conserved structure?) are long but compact and forms a short alpha-helical structure <ref>PMID:1170095</ref>. The PHO4 loop contains a Trp residue that faces the aromatic rings of Tyr52 and His55 of helix H2, and Pro28 of H2 and H1. the Pho4 is lack of inner hydrogen network and the loop create one contact with phosphate group by Ser41<ref>PMID: 9303313</ref>an aromatic cluster forms a cap structure is observed

*DNA binding

The Pho4 protein binds to DNA as a homodimer, and the binding region binds specifically to E-box sequence CACGTG and it's 3'-flanking bases by a specific subset of the basic region of the bHLH motif.<ref>PMID:1861859</ref>

the residues who takes part in the E-box recognition are His5, Glu9, and Arg13.

== 3D Structures of ~~lactoferrin~~ ==

== 3D Structures of Pho ==

Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}

{{#tree:id=OrganizedByTopic|openlevels=0|

*Pho4

**[[1a0a]] – yPho4 DNA-binding domain + DNA - yeast

**[[3w3x]] – yPho4 peptide + importin subunit b-3

*Pho85

**[[4krd]] – yPho85 + Pho85 cyclin-10

**[[2pk9]], [[2pmi]] – yPho85 + Pho80 cyclin-10

**[[4krc]] – yPho85 + Pho85 cyclin-10 + ATPgS

}}

~~[[1a0a]] – yPho4 DNA-binding domain + DNA - yeast ~~

~~[[3w3x]] – yPho4 peptide + importin subunit b-3 ~~

== References ==

[[Category:Topic ~~–Page~~]]

[[Category:Topic Page]]

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@@ Line 4: / Line 4: @@
 == Function ==
-Phosphate system positive regulatory protein '''Pho4''' is a transcriptional activator which regulates the expression of phosphatase under conditions of phosphate starvation<ref>PMID:2220078</ref>.  For details see [[Pho4 bHLH Protein]].
+Phosphate system positive regulatory protein '''Pho4''' is a transcriptional activator which regulates the expression of phosphatase under conditions of phosphate starvation in Saccharomyces cerevisiae <ref>PMID:2220078</ref>.  For details see [[Pho4 bHLH Protein]].
-*<scene name='72/725407/Cv/2'>Yeast Pho4 DNA-binding domain interactions with DNA</scene>.
+*<scene name='72/725407/Cv/3'>Yeast Pho4 DNA-binding domain interactions with DNA</scene>.
-Its structure is a basic basic helix-loop-helix (bHLH)<ref>PMID:2220078</ref>
+Its structure is a basic basic helix-loop-helix (bHLH)
 The pho4 protein takes part in transcription of several yeast genes related to phosphate metabolism:
-[[PH05]] encoding repressible acid phosphatase
+'''PH05 encoding repressible acid phosphatase,''' the expression of Pho5 in Saccharomyces cerevisiae is derepressed by a specific level of inorganic phosphate (Pi), and depressed when the Pi concentrate in the medium is lowered, the regulatory system of the Pi signals coded by PHO4 PHO2 , PHO80, and PHO81 genes.<ref>PMID:2671650</ref>
-[[PH08]] encoding alkaline phosphatase<ref>PMID:2671650</ref>
+'''PH08 encoding alkaline phosphatase'''
-[[PH081 ]] a regulatory gene<ref>PMID:2671650</ref>
+'''PH081 a regulatory gene''' regulated by PHO system wuth the use of Pi
-[[PH084]] phosphate permease gene<ref>PMID:3902805</ref>
+'''PH084 phosphate permease gene'''<ref>PMID:3902805</ref>
+'''PH085 is a cyclin-dependent protein kinase'''<ref>PMID:17850263</ref>
+other than that, the Pho4  protein seems to contain a coding region for non translated mitochondrial proteins<ref>PMID:2183025</ref>
 </StructureSection>
-==sturcture==
+==Structure==
-The structure of the Pho4 protein is a basic Helix-loop-helix(bHLH) , The linker sequence between Helix1(H1) and Helix2(H2)  contains several residues:  Asn,  Glu, Pro and Ser<ref>PMID: 3775366</ref> . The DNA binding site is a homodimer and two monomers in a left‐handed four‐helix bundle fold (identical to bHLH/Zip and bHLH proteins fold) .
+The structure of the Pho4 protein is a basic Helix-loop-helix(bHLH) motif, The linker sequence between Helix1(H1) and Helix2(H2)  contains several residues:  Asn,  Glu, Pro and Ser<ref>PMID:3775366</ref>. The DNA binding site is a homodimer and two monomers in a left‐handed four‐helix bundle fold (identical to bHLH/Zip and bHLH proteins fold).
 *loop structure
-Pho4 loops (conserved structure?) are long but compact and forms a short alpha-helical structure <ref>PMID:1170095</ref>. The PHO4 loop contains a Trp residue that faces the aromatic rings of Tyr52 and His55 of helix H2, and Pro28 of H2 and H1.an aromatic cluster forms a cap structure is observed.<ref>PMID: 9303313</ref>
+Pho4 loops (conserved structure?) are long but compact and forms a short alpha-helical structure <ref>PMID:1170095</ref>. The PHO4 loop contains a Trp residue that faces the aromatic rings of Tyr52 and His55 of helix H2, and Pro28 of H2 and H1. the Pho4 is lack of  inner hydrogen network and the loop create one contact with phosphate group by Ser41<ref>PMID: 9303313</ref>an aromatic cluster forms a cap structure is observed
+*DNA binding
+The Pho4 protein binds to DNA as a homodimer, and the binding region binds specifically to E-box sequence CACGTG and it's 3'-flanking bases by a specific subset of the basic region of the bHLH motif.<ref>PMID:1861859</ref>
+the residues who takes part in the E-box recognition are His5, Glu9, and Arg13.
-== 3D Structures of lactoferrin ==
+== 3D Structures of Pho ==
 Updated on {{REVISIONDAY2}}-{{MONTHNAME|{{REVISIONMONTH}}}}-{{REVISIONYEAR}}
+{{#tree:id=OrganizedByTopic|openlevels=0|
+*Pho4
+**[[1a0a]] – yPho4 DNA-binding domain + DNA - yeast<br />
+**[[3w3x]] – yPho4 peptide + importin subunit b-3<br />
+*Pho85
+**[[4krd]] – yPho85 + Pho85 cyclin-10<br />
+**[[2pk9]], [[2pmi]] – yPho85 + Pho80 cyclin-10<br />
+**[[4krc]] – yPho85 + Pho85 cyclin-10 + ATPgS<br />
+}}
-[[1a0a]] – yPho4 DNA-binding domain + DNA - yeast<br />
-[[3w3x]] – yPho4 peptide + importin subunit b-3<br />
 == References ==
 <references/>
-[[Category:Topic –Page]]
+[[Category:Topic Page]]