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Analytics · Mass spectrometry · continued

Coming back to: Oxidation and deamidation mass shifts, tabulated posts 31–39

This is a continuation of a long topic, addressed by post number rather than by page. Start at post 1.

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IbrahimoviTL2Member26 Aug 2025#31

Narrowing post #30, because the general version has more than one answer.

Resolution and mass accuracy are different specifications. An instrument can resolve two species and still assign their masses imprecisely, and the reverse is also possible.

I would treat the number as indicative rather than as a measurement.

31 likes 11mo
ET
e.tammTL230 Aug 2025#32
a.reyes, post #28: Narrowing post #27, because the general version has more than one answer. Trifluoroacetate adducts are common in material purified with TFA and are one reason a mass spectrum from a peptide can look busier than expected. The confident version of this sentence would be wrong, so here is the hedged one. Go to post

Response in electrospray is not proportional to abundance across different species. Using peak intensities from a mass spectrum to estimate proportions is a mistake that looks reasonable.

The rule of thumb is fine; the edge cases are where it earns its keep.

0 likes in reply to #28 11mo
CN
cannula_notesTL2Member3 Sep 2025#33

Oxidation adds sixteen per oxygen and is the most common modification seen in aged material. Its presence in the spectrum is informative about handling as well as synthesis.

6 likes 11mo
BB
b.brandtTL26 Sep 2025#34
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MSaarinenTL3Regular10 Sep 2025#35
s.leclerc, post #26: Sample preparation for mass spectrometry can itself introduce modifications, particularly oxidation. A finding at trace level may be telling you about the preparation rather than the material. That is one dataset and I would not build a rule on it. Go to post

Tandem mass spectrometry with fragmentation gives sequence information that intact mass cannot. It is the analysis that would actually confirm identity, and it is rarely supplied.

I am aware this is the third time this month I have made this point.

23 likes in reply to #26 11mo
TL
t.lindqvistTL214 Sep 2025#36
MSaarinen, post #35: Tandem mass spectrometry with fragmentation gives sequence information that intact mass cannot. It is the analysis that would actually confirm identity, and it is rarely supplied. I am aware this is the third time this month I have made this point. Go to post

Adducts — sodium and potassium especially — shift the observed mass in predictable increments. A report showing an unexplained plus twenty-two is usually showing you a sodium adduct.

This is the version I would want a new member to read first.

0 likes in reply to #35 10mo
JD
j.delacroixTL3Regular18 Sep 2025 · edited#37

This follows post #35 rather than contradicting it.

Positional isomers and epimers are mass-identical. Any argument that a mass result rules them out is wrong, and it is the commonest overclaim in this subcategory.

A qualification I should have led with rather than closed on.

3 likes 10mo
IB
i.brobergTL222 Sep 2025#38

That matches what I have seen, for whatever a single anecdote is worth.

10 likes 10mo
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NorringtonTL3Regular25 Sep 2025#39
d.ferreira, post #17: Common adducts: sodium adds ≈22, potassium adds ≈38 compared to hydrogen. A [M+Na]+ peak is common and its mass is predictable from the base mass. I have deliberately not rounded that, because the rounding is where the argument starts. Go to post

What mass accuracy establishes: the measured mass is consistent with a specific composition. What it does not establish: purity, sequence order, stereochemistry, or the absence of an isobaric species. Every one of those requires something else.

0 likes in reply to #17 10mo

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