YLR403W - Revision history

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@@ Line 18: / Line 18: @@
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-'''Description of YLR403W:''' Regulates transcription of ribosomal protein and biogenesis genes; controls expression of ribosomal protein and ribosome biogenesis genes in response to nutrients and stress, regulates G2/M transitions during mitotic cell cycle and DNA-damage response, modulates cell size; regulated by TORC1 and Mrs6p; single zinc finger with dispersed spacing and analysis of ChIP data suggest it is unlikely to bind DNA directly, but may act through Rap1p; can form the [ISP+] prion<ref name='S000058122'>Bohm S, et al. (1997) Variations of the C2H2 zinc finger motif in the yeast genome and classification of yeast zinc finger proteins. Nucleic Acids Res 25(12):2464-9 {{SGDpaper|S000058122}} PMID 9171100</ref><ref name='S000081242'>Cipollina C, et al. (2005) SFP1 is involved in cell size modulation in respiro-fermentative growth conditions. Yeast 22(5):385-99 {{SGDpaper|S000081242}} PMID 15806610</ref><ref name='S000131167'>Gordan R, et al. (2009) Distinguishing direct versus indirect transcription factor-DNA interactions. Genome Res 19(11):2090-100 {{SGDpaper|S000131167}} PMID 19652015</ref><ref name='S000070190'>Jorgensen P, et al. (2002) Systematic identification of pathways that couple cell growth and division in yeast. Science 297(5580):395-400 {{SGDpaper|S000070190}} PMID 12089449</ref><ref name='S000077407'>Jorgensen P, et al. (2004) A dynamic transcriptional network communicates growth potential to ribosome synthesis and critical cell size. Genes Dev 18(20):2491-505 {{SGDpaper|S000077407}} PMID 15466158</ref><ref name='S000129791'>Lempiainen H, et al. (2009) Sfp1 interaction with TORC1 and Mrs6 reveals feedback regulation on TOR signaling. Mol Cell 33(6):704-16 {{SGDpaper|S000129791}} PMID 19328065</ref><ref name='S000077584'>Marion RM, et al. (2004) Sfp1 is a stress- and nutrient-sensitive regulator of ribosomal protein gene expression. Proc Natl Acad Sci U S A 101(40):14315-22 {{SGDpaper|S000077584}} PMID 15353587</ref><ref name='S000043166'>Xu Z and Norris D (1998) The SFP1 gene product of Saccharomyces cerevisiae regulates G2/M transitions during the mitotic cell cycle and DNA-damage response. Genetics 150(4):1419-28
+'''Description of YLR403W:''' Regulates transcription of ribosomal protein and biogenesis genes; regulates response to nutrients and stress, G2/M transitions during mitotic cell cycle and DNA-damage response, and modulates cell size; regulated by TORC1 and Mrs6p; sequence of zinc finger, ChIP localization data, and protein-binding microarray (PBM) data, and computational analyses suggest it binds DNA directly at highly active RP genes and indirectly through Rap1p at others; can form the [ISP+] prion<ref name='S000058122'>Bohm S, et al. (1997) Variations of the C2H2 zinc finger motif in the yeast genome and classification of yeast zinc finger proteins. Nucleic Acids Res 25(12):2464-9 {{SGDpaper|S000058122}} PMID 9171100</ref><ref name='S000081242'>Cipollina C, et al. (2005) SFP1 is involved in cell size modulation in respiro-fermentative growth conditions. Yeast 22(5):385-99 {{SGDpaper|S000081242}} PMID 15806610</ref><ref name='S000131167'>Gordan R, et al. (2009) Distinguishing direct versus indirect transcription factor-DNA interactions. Genome Res 19(11):2090-100 {{SGDpaper|S000131167}} PMID 19652015</ref><ref name='S000070190'>Jorgensen P, et al. (2002) Systematic identification of pathways that couple cell growth and division in yeast. Science 297(5580):395-400 {{SGDpaper|S000070190}} PMID 12089449</ref><ref name='S000077407'>Jorgensen P, et al. (2004) A dynamic transcriptional network communicates growth potential to ribosome synthesis and critical cell size. Genes Dev 18(20):2491-505 {{SGDpaper|S000077407}} PMID 15466158</ref><ref name='S000129791'>Lempiainen H, et al. (2009) Sfp1 interaction with TORC1 and Mrs6 reveals feedback regulation on TOR signaling. Mol Cell 33(6):704-16 {{SGDpaper|S000129791}} PMID 19328065</ref><ref name='S000077584'>Marion RM, et al. (2004) Sfp1 is a stress- and nutrient-sensitive regulator of ribosomal protein gene expression. Proc Natl Acad Sci U S A 101(40):14315-22 {{SGDpaper|S000077584}} PMID 15353587</ref><ref name='S000043166'>Xu Z and Norris D (1998) The SFP1 gene product of Saccharomyces cerevisiae regulates G2/M transitions during the mitotic cell cycle and DNA-damage response. Genetics 150(4):1419-28 {{SGDpaper|S000043166}} PMID 9832520</ref><ref name='S000147139'>Zeevi D, et al. (2011) Compensation for differences in gene copy number among yeast ribosomal proteins is encoded within their promoters. Genome Res () {{SGDpaper|S000147139}} PMID 22009988</ref><ref name='S000129025'>Zhu C, et al. (2009) High-resolution DNA-binding specificity analysis of yeast transcription factors. Genome Res 19(4):556-66
-  {{SGDpaper|S000043166}} PMID 9832520</ref>
+  {{SGDpaper|S000129025}} PMID 19158363</ref>
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 <br>
-'''Description of YLR403W:''' Regulates transcription of ribosomal protein and biogenesis genes; controls expression of ribosomal protein and ribosome biogenesis genes in response to nutrients and stress, regulates G2/M transitions during mitotic cell cycle and DNA-damage response, modulates cell size; regulated by TORC1 and Mrs6p; single zinc finger with dispersed spacing and analysis of ChIP data suggests it is unlikely to bind DNA directly; can form the [ISP+] prion<ref name='S000058122'>Bohm S, et al. (1997) Variations of the C2H2 zinc finger motif in the yeast genome and classification of yeast zinc finger proteins. Nucleic Acids Res 25(12):2464-9 {{SGDpaper|S000058122}} PMID 9171100</ref><ref name='S000081242'>Cipollina C, et al. (2005) SFP1 is involved in cell size modulation in respiro-fermentative growth conditions. Yeast 22(5):385-99 {{SGDpaper|S000081242}} PMID 15806610</ref><ref name='S000131167'>Gordan R, et al. (2009) Distinguishing direct versus indirect transcription factor-DNA interactions. Genome Res 19(11):2090-100 {{SGDpaper|S000131167}} PMID 19652015</ref><ref name='S000070190'>Jorgensen P, et al. (2002) Systematic identification of pathways that couple cell growth and division in yeast. Science 297(5580):395-400 {{SGDpaper|S000070190}} PMID 12089449</ref><ref name='S000077407'>Jorgensen P, et al. (2004) A dynamic transcriptional network communicates growth potential to ribosome synthesis and critical cell size. Genes Dev 18(20):2491-505 {{SGDpaper|S000077407}} PMID 15466158</ref><ref name='S000129791'>Lempiainen H, et al. (2009) Sfp1 interaction with TORC1 and Mrs6 reveals feedback regulation on TOR signaling. Mol Cell 33(6):704-16 {{SGDpaper|S000129791}} PMID 19328065</ref><ref name='S000077584'>Marion RM, et al. (2004) Sfp1 is a stress- and nutrient-sensitive regulator of ribosomal protein gene expression. Proc Natl Acad Sci U S A 101(40):14315-22 {{SGDpaper|S000077584}} PMID 15353587</ref><ref name='S000043166'>Xu Z and Norris D (1998) The SFP1 gene product of Saccharomyces cerevisiae regulates G2/M transitions during the mitotic cell cycle and DNA-damage response. Genetics 150(4):1419-28
+'''Description of YLR403W:''' Regulates transcription of ribosomal protein and biogenesis genes; controls expression of ribosomal protein and ribosome biogenesis genes in response to nutrients and stress, regulates G2/M transitions during mitotic cell cycle and DNA-damage response, modulates cell size; regulated by TORC1 and Mrs6p; single zinc finger with dispersed spacing and analysis of ChIP data suggest it is unlikely to bind DNA directly, but may act through Rap1p; can form the [ISP+] prion<ref name='S000058122'>Bohm S, et al. (1997) Variations of the C2H2 zinc finger motif in the yeast genome and classification of yeast zinc finger proteins. Nucleic Acids Res 25(12):2464-9 {{SGDpaper|S000058122}} PMID 9171100</ref><ref name='S000081242'>Cipollina C, et al. (2005) SFP1 is involved in cell size modulation in respiro-fermentative growth conditions. Yeast 22(5):385-99 {{SGDpaper|S000081242}} PMID 15806610</ref><ref name='S000131167'>Gordan R, et al. (2009) Distinguishing direct versus indirect transcription factor-DNA interactions. Genome Res 19(11):2090-100 {{SGDpaper|S000131167}} PMID 19652015</ref><ref name='S000070190'>Jorgensen P, et al. (2002) Systematic identification of pathways that couple cell growth and division in yeast. Science 297(5580):395-400 {{SGDpaper|S000070190}} PMID 12089449</ref><ref name='S000077407'>Jorgensen P, et al. (2004) A dynamic transcriptional network communicates growth potential to ribosome synthesis and critical cell size. Genes Dev 18(20):2491-505 {{SGDpaper|S000077407}} PMID 15466158</ref><ref name='S000129791'>Lempiainen H, et al. (2009) Sfp1 interaction with TORC1 and Mrs6 reveals feedback regulation on TOR signaling. Mol Cell 33(6):704-16 {{SGDpaper|S000129791}} PMID 19328065</ref><ref name='S000077584'>Marion RM, et al. (2004) Sfp1 is a stress- and nutrient-sensitive regulator of ribosomal protein gene expression. Proc Natl Acad Sci U S A 101(40):14315-22 {{SGDpaper|S000077584}} PMID 15353587</ref><ref name='S000043166'>Xu Z and Norris D (1998) The SFP1 gene product of Saccharomyces cerevisiae regulates G2/M transitions during the mitotic cell cycle and DNA-damage response. Genetics 150(4):1419-28
   {{SGDpaper|S000043166}} PMID 9832520</ref>
 <br>

@@ Line 18: / Line 18: @@
 |}
 <br>
-'''Description of YLR403W:''' Transcription factor that controls expression of ribosome biogenesis genes in response to nutrients and stress, regulates G2/M transitions during mitotic cell cycle and DNA-damage response, modulates cell size; regulated by TORC1 and Mrs6p; can form the [ISP+] prion<ref name='S000081242'>Cipollina C, et al. (2005) SFP1 is involved in cell size modulation in respiro-fermentative growth conditions. Yeast 22(5):385-99 {{SGDpaper|S000081242}} PMID 15806610</ref><ref name='S000070190'>Jorgensen P, et al. (2002) Systematic identification of pathways that couple cell growth and division in yeast. Science 297(5580):395-400 {{SGDpaper|S000070190}} PMID 12089449</ref><ref name='S000077407'>Jorgensen P, et al. (2004) A dynamic transcriptional network communicates growth potential to ribosome synthesis and critical cell size. Genes Dev 18(20):2491-505 {{SGDpaper|S000077407}} PMID 15466158</ref><ref name='S000129791'>Lempiainen H, et al. (2009) Sfp1 interaction with TORC1 and Mrs6 reveals feedback regulation on TOR signaling. Mol Cell 33(6):704-16 {{SGDpaper|S000129791}} PMID 19328065</ref><ref name='S000077584'>Marion RM, et al. (2004) Sfp1 is a stress- and nutrient-sensitive regulator of ribosomal protein gene expression. Proc Natl Acad Sci U S A 101(40):14315-22 {{SGDpaper|S000077584}} PMID 15353587</ref><ref name='S000043166'>Xu Z and Norris D (1998) The SFP1 gene product of Saccharomyces cerevisiae regulates G2/M transitions during the mitotic cell cycle and DNA-damage response. Genetics 150(4):1419-28
+'''Description of YLR403W:''' Regulates transcription of ribosomal protein and biogenesis genes; controls expression of ribosomal protein and ribosome biogenesis genes in response to nutrients and stress, regulates G2/M transitions during mitotic cell cycle and DNA-damage response, modulates cell size; regulated by TORC1 and Mrs6p; single zinc finger with dispersed spacing and analysis of ChIP data suggests it is unlikely to bind DNA directly; can form the [ISP+] prion<ref name='S000058122'>Bohm S, et al. (1997) Variations of the C2H2 zinc finger motif in the yeast genome and classification of yeast zinc finger proteins. Nucleic Acids Res 25(12):2464-9 {{SGDpaper|S000058122}} PMID 9171100</ref><ref name='S000081242'>Cipollina C, et al. (2005) SFP1 is involved in cell size modulation in respiro-fermentative growth conditions. Yeast 22(5):385-99 {{SGDpaper|S000081242}} PMID 15806610</ref><ref name='S000131167'>Gordan R, et al. (2009) Distinguishing direct versus indirect transcription factor-DNA interactions. Genome Res 19(11):2090-100 {{SGDpaper|S000131167}} PMID 19652015</ref><ref name='S000070190'>Jorgensen P, et al. (2002) Systematic identification of pathways that couple cell growth and division in yeast. Science 297(5580):395-400 {{SGDpaper|S000070190}} PMID 12089449</ref><ref name='S000077407'>Jorgensen P, et al. (2004) A dynamic transcriptional network communicates growth potential to ribosome synthesis and critical cell size. Genes Dev 18(20):2491-505 {{SGDpaper|S000077407}} PMID 15466158</ref><ref name='S000129791'>Lempiainen H, et al. (2009) Sfp1 interaction with TORC1 and Mrs6 reveals feedback regulation on TOR signaling. Mol Cell 33(6):704-16 {{SGDpaper|S000129791}} PMID 19328065</ref><ref name='S000077584'>Marion RM, et al. (2004) Sfp1 is a stress- and nutrient-sensitive regulator of ribosomal protein gene expression. Proc Natl Acad Sci U S A 101(40):14315-22 {{SGDpaper|S000077584}} PMID 15353587</ref><ref name='S000043166'>Xu Z and Norris D (1998) The SFP1 gene product of Saccharomyces cerevisiae regulates G2/M transitions during the mitotic cell cycle and DNA-damage response. Genetics 150(4):1419-28
   {{SGDpaper|S000043166}} PMID 9832520</ref>
 <br>

@@ Line 4: / Line 4: @@
 {|{{Prettytable}} align = 'right' width = '200px'
 |-
-|valign="top" nowrap bgcolor="{{SGDblue}}"| '''Systematic name''' || [http://db.yeastgenome.org/cgi-bin/locus.pl?dbid=S000004395 YLR403W]
+|valign="top" nowrap bgcolor="{{SGDblue}}"| '''Systematic name''' || [http://www.yeastgenome.org/cgi-bin/locus.pl?dbid=S000004395 YLR403W]
 |-
 |valign="top" nowrap bgcolor="{{SGDblue}}"| '''Gene name'''         ||''SFP1 ''

@@ Line 18: / Line 18: @@
 |}
 <br>
-'''Description of YLR403W:''' Transcription factor that controls expression of ribosome biogenesis genes in response to nutrients and stress, regulates G2/M transitions during mitotic cell cycle and DNA-damage response, modulates cell size; regulated by TORC1 and Mrs6p<ref name='S000081242'>Cipollina C, et al. (2005) SFP1 is involved in cell size modulation in respiro-fermentative growth conditions. Yeast 22(5):385-99 {{SGDpaper|S000081242}} PMID 15806610</ref><ref name='S000070190'>Jorgensen P, et al. (2002) Systematic identification of pathways that couple cell growth and division in yeast. Science 297(5580):395-400 {{SGDpaper|S000070190}} PMID 12089449</ref><ref name='S000077407'>Jorgensen P, et al. (2004) A dynamic transcriptional network communicates growth potential to ribosome synthesis and critical cell size. Genes Dev 18(20):2491-505 {{SGDpaper|S000077407}} PMID 15466158</ref><ref name='S000129791'>Lempiainen H, et al. (2009) Sfp1 interaction with TORC1 and Mrs6 reveals feedback regulation on TOR signaling. Mol Cell 33(6):704-16 {{SGDpaper|S000129791}} PMID 19328065</ref><ref name='S000077584'>Marion RM, et al. (2004) Sfp1 is a stress- and nutrient-sensitive regulator of ribosomal protein gene expression. Proc Natl Acad Sci U S A 101(40):14315-22 {{SGDpaper|S000077584}} PMID 15353587</ref><ref name='S000043166'>Xu Z and Norris D (1998) The SFP1 gene product of Saccharomyces cerevisiae regulates G2/M transitions during the mitotic cell cycle and DNA-damage response. Genetics 150(4):1419-28
+'''Description of YLR403W:''' Transcription factor that controls expression of ribosome biogenesis genes in response to nutrients and stress, regulates G2/M transitions during mitotic cell cycle and DNA-damage response, modulates cell size; regulated by TORC1 and Mrs6p; can form the [ISP+] prion<ref name='S000081242'>Cipollina C, et al. (2005) SFP1 is involved in cell size modulation in respiro-fermentative growth conditions. Yeast 22(5):385-99 {{SGDpaper|S000081242}} PMID 15806610</ref><ref name='S000070190'>Jorgensen P, et al. (2002) Systematic identification of pathways that couple cell growth and division in yeast. Science 297(5580):395-400 {{SGDpaper|S000070190}} PMID 12089449</ref><ref name='S000077407'>Jorgensen P, et al. (2004) A dynamic transcriptional network communicates growth potential to ribosome synthesis and critical cell size. Genes Dev 18(20):2491-505 {{SGDpaper|S000077407}} PMID 15466158</ref><ref name='S000129791'>Lempiainen H, et al. (2009) Sfp1 interaction with TORC1 and Mrs6 reveals feedback regulation on TOR signaling. Mol Cell 33(6):704-16 {{SGDpaper|S000129791}} PMID 19328065</ref><ref name='S000077584'>Marion RM, et al. (2004) Sfp1 is a stress- and nutrient-sensitive regulator of ribosomal protein gene expression. Proc Natl Acad Sci U S A 101(40):14315-22 {{SGDpaper|S000077584}} PMID 15353587</ref><ref name='S000043166'>Xu Z and Norris D (1998) The SFP1 gene product of Saccharomyces cerevisiae regulates G2/M transitions during the mitotic cell cycle and DNA-damage response. Genetics 150(4):1419-28
   {{SGDpaper|S000043166}} PMID 9832520</ref>
 <br>

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 |valign="top" nowrap bgcolor="{{SGDblue}}"| '''Gene name'''         ||''SFP1 ''
 |-
-|valign="top" nowrap bgcolor="{{SGDblue}}"| '''Aliases'''           ||'' ''
+|valign="top" nowrap bgcolor="{{SGDblue}}"| '''Aliases'''           ||''[ISP(+)], [ISP+]''
 |-
 |valign="top" nowrap bgcolor="{{SGDblue}}"| '''Feature type'''           || ORF, Verified[[Category:ORF]][[Category:ORF, Verified]]

@@ Line 13: / Line 13: @@
 |-
 |valign="top" nowrap bgcolor="{{SGDblue}}"| '''Coordinates'''
-|nowrap| Chr XII:925567..927618
+|nowrap| Chr XII:925568..927619
 |-
 |valign="top" nowrap bgcolor="{{SGDblue}}"| '''Primary SGDID'''           || S000004395