Term issue: Rpd1 CTD-S5-S7

[ValWood]

~O42661~ P36594 ~Rpd1~ Rpb1 CTD-S5-S7

"These experiments implicate Ser5, Pro6, and Ser7 as component letters of a CTD coding “word” that transduces a repressive transcriptional signal via serine phosphorylation."

This is a similar situation (it seems that "most" need to be phopshophorylated). The important part is that for the code they need to occur together (my understanding is that the S5-S7 would be both phosphorylated on a variable number of repeats). Althought the Pro6 is important I don't know its isomerization status in this "word", it isn't interrogated here (it just needs to be a proline at this position but it isn't clear why)

S5 can be added by Msc6 or cdk9 I don't yet know what phosphorylates S7

[ValWood]

oh: PMID:26264592 RNA polymerase II CTD phospho-sites Ser5 and Ser7 govern phosphate homeostasis in fission yeast.

[nataled]

Hi Val, Can you check the identifiers and genes? O42661 is for smd1 (Small nuclear ribonucleoprotein Sm D1). I cannot find a gene rpd1 in pombe, but perhaps it is intended to refer to RNA pol II? That's what the paper is talking about. Perhaps it should be rpb1, but that's UniProtKB:P36594.

On the chance I'm correct, the term would be:

[Term]
id: PR:000085737
name: DNA-directed RNA polymerase II subunit rpb1 phosphorylated 4 (Schizosaccharomyces pombe)
def: "A DNA-directed RNA polymerase II subunit rpb1 CTD-phosphorylated form (Schizosaccharomyces pombe) that has been post-translationally modified to include phosphoserine at the fifth and seventh positions of one or more of the C-terminal heptad repeats (YSPTSPS)." [PRO:DAN, PomBase:VW, PMID:26264592]
comment: Category=organism-modification. Requested by=PomBase.
synonym: "Spom-rpb1/Phos:4" EXACT PRO-short-label [PRO:DNx]
is_a: PR:000050494 ! DNA-directed RNA polymerase II subunit rpb1 CTD-phosphorylated form (Schizosaccharomyces pombe)
relationship: has_part MOD:00046 ! O-phospho-L-serine
relationship: only_in_taxon NCBITaxon:4896 ! Schizosaccharomyces pombe

[ValWood]

This is what happens when you think you know gene names in your head! You are correct, It should be Rpb1 (DNA-directed RNA polymerase II complex large subunit Rpb1) P36594