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2O at pH 3.8 to remove residual salts. All FTMS spectra were recorded on a Bruker Bio-APEX 47e spectrometer equipped with a 4.7 T magnet, external ion source, and electrospray source (Analytica of Branford, Branford, CT). Ions were accumulated in the FTMS trap for 300 ms, followed by chirp excitation and detection with a 240 kHz bandwidth. Parent multiply charged molecular ions of lysozyme were observed with a capillary skimmer potential of 60-100 V, while for CID spectra the capillary skimmer potential was increased to 160-250 V. Calibration was performed against a mixture of peptides.
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19
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9444243374
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note
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A library of fragments was computed from which to identify the closest possibilities for each of the observed ion masses. The program is implemented in Mathematica, can trace fragments through intact disulfides, and optionally allows disulfide cleavage. All fragments which include one or more cleavages of α-carbon-amide nitrogen, amide nitrogen-carbonyl carbon, or carbonyl carbon-α-carbon peptide backbone bonds are considered. In addition, all fragments in which one disulfide was cleaved at either the sulfur-sulfur or β-carbon-sulfur bond were also considered.
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9444257647
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note
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On the basis of the assigned spectrum, an internal assessment of the mass accuracy of the instrument was found to be 8 ± 5 ppm.
-
-
-
-
25
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9444270520
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note
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A peak assigned to an internal fragment in which both cleavages are at the peptide bond has identical mass and sequence to an assignment in which both cleavages are shifted by one bond toward the N or the C terminus of the polypeptide chain. These degenerate possibilities are ignored.
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26
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0027918082
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84987419408
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