Question: What kinase(s) phosphorylates WNK2 at site s49 (and s45) ?
1) Googling does not help me. 2) Nice site:https://www.phosphosite.org/proteinAction.action?id=2242&showAllSites=true - I cannot find any information what kinases phosphorilates sites - I see only sites, but not what kinases creates the phosphorilation. 3) Uniprot provides information on "s45", but not on s49 - look on section "ptm processing" https://www.uniprot.org/uniprotkb/Q9Y3S1/entry#ptm_processing - go to "Modified residue 45" - there is a paper: https://pubmed.ncbi.nlm.nih.gov/21733846/ and FIGURE 6 (table) in it with "Predicted Kinases" DMPK, PAK. It is not clear whether these predictions are reliable and are there any other opinions. 4) some other data sources including omnipath does not contain information on WNK2 at all.
So if you already played with chatGPT, you may enjoy its answers, it is natural to appeal to it for such question. It is really great source of knowledge. However there are some subtle points.
1) You cannot completely trust chatGPT - it is well-known that it can describe very smoothly and convincingly quite a nonsense. Second what seems to me - it can mix some details - I am afraid for example it can give information for say WNK4, instead of WNK2 , but mentioning WNK2.
2) It may not directly answer the question. "what kinase phosphorilates protein WNK2 at positions S45, S49" - does not provide a precise answer. But for that there is a trick: A) ask a more general question - "what kinases phosphorilates protein WNK2 at any position ?" B) after that go to specific question: "please give me positions where these kinases phosphorilate the WNK2" In a sense it is like with human - first explain the context, than go to details. But it strange to see such from machine.
Full dialogue is saved here: https://www.kaggle.com/code/alexandervc/mb-21a-search-wnk-in-kinase-target-data?scriptVersionId=116937086&cellId=3
And you get the answer from ChatGPT:
The specific positions on the WNK2 protein where these kinases phosphorylate it may vary depending on the cellular context and the conditions of the experiment. However, some of the known phosphorylation sites on WNK2 are: Protein Kinase A (PKA) phosphorylates WNK2 at S45 and S49 Protein Kinase C (PKC) phosphorylates WNK2 at S45 and S49 Mitogen-activated protein kinase (MAPK) phosphorylates WNK2 at T365 Protein Kinase G (PKG) phosphorylates WNK2 at S49 Protein Kinase D (PKD) phosphorylates WNK2 at T365 Cyclin-dependent kinase (CDK) phosphorylates WNK2 at T365 Casein kinase 2 (CK2) phosphorylates WNK2 at S49 GSK-3 (Glycogen synthase kinase 3) phosphorylates WNK2 at S49 It is important to note that these are examples of known phosphorylation sites and that the specific phosphorylation site may depend on the specific condition of the experiment.
Question: Is that information reliable ? What are your general advices to deal with chatGPT - to verify its answers ? to force to give your answers when it does not not answer directly at first ?
I think the answer is pretty simple - do what we've always done and lean on the scientific literature.
DO NOT use ChatGPT answers whole cloth without extensively fact-checking them, in particular, one thing your post doesn't mention is that ChatGPT will completely make up references.