The data analysis was performed using MetaMorpheus version 1.0.1, available at https://github.com/smith-chem-wisc/MetaMorpheus.
The following crosslink discovery were used: crosslinker name = SDA_Any; crosslinker type = True; crosslinker mass = 82.0419; crosslinker modification site(s) = KSTY; protease = trypsin; maximum missed cleavages = 3; minimum peptide length = 5; maximum peptide length = 60; initiator methionine behavior = Variable; max modification isoforms = 1024; fixed modifications = ; variable modifications = Carbamidomethyl on C, Carbamidomethyl on U, Oxidation on M; parent mass tolerance(s) = ±10.0000 PPM; product mass tolerance = ±20.0000 PPM; The combined search database contained 4 total entries including 0 contaminant sequences. Data files were processed on a computer running Microsoft Windows 10.0.17763 with a 64-bit Intel(R) Xeon(R) Gold 6238 CPU @ 2.10GHz processor with 44 threads and 512GB installed RAM. 
The total time to perform the XLSearch task on 3 spectra file(s) was 2.72 minutes.

Published works using MetaMorpheus software are encouraged to cite: Solntsev, S. K.; Shortreed, M. R.; Frey, B. L.; Smith, L. M. Enhanced Global Post-translational Modification Discovery with MetaMorpheus. Journal of Proteome Research. 2018, 17 (5), 1844-1851.

Spectra files: 
	D:\Users_FPL\Zheng\20250514_BFPACrosslinkers_Search\BFPACrosslinkers_BSA_Conditions\20240802_Eclipse_VQ_ZS_BSA_SDA_R1.raw
	D:\Users_FPL\Zheng\20250514_BFPACrosslinkers_Search\BFPACrosslinkers_BSA_Conditions\20240802_Eclipse_VQ_ZS_BSA_SDA_R2.raw
	D:\Users_FPL\Zheng\20250514_BFPACrosslinkers_Search\BFPACrosslinkers_BSA_Conditions\20240802_Eclipse_VQ_ZS_BSA_SDA_R3.raw
Databases:
	D:\Users_FPL\Zheng\20250514_BFPACrosslinkers_Search\BFPACrosslinkers_BSA_Conditions\XLMS_BSAenolase.fasta Downloaded on: 05/14/2025 13:17:50