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Table 2 DNA repair proteins identification by LC-MS/MS

From: DNA repair in Mycoplasma gallisepticum

NCBI ID Protein name Unused score* ProteinPilot score The number of unique peptides (with the reliability of identification > = 95%) Coverage protein sequence by unique peptides (with the reliability of identification > = 95%)
gi|31541218 SMC (Cohesin) 84.01 84.01 55 54.43
gi|284811881 UvrA (Excinuclease ABC subunit B) 75.8 75.8 50 55.67
gi|284811888 MGA_0793 (DNA helicase, contain vsr-domain) 62.07 62.07 41 36.41
gi|284812070 UvrD (DNA helicase II) 51.65 51.65 27 47.54
gi|284811857 UvrB (Excinuclease ABC subunit B) 41.75 41.75 24 39.01
gi|31541419 Nfo (endonuclease IV) 31.18 31.18 17 63.04
gi|284812280 LigA (DNA ligase) 24.41 24.83 13 23.08
gi|284812220 RecR (recombinase RecR) 24.06 24.06 15 72.82
gi|284811982 MutM (Formamidopyrimidine-DNA glycosylase) 20.02 20.02 10 41.97
gi|31541551 MGA_0195 (contain endonuclease type II domain) 18.9 18.9 18 49.18
gi|284812101 Hup2 (histone-like protein) 16.7 18.1 23 71.72
gi|284811981 Exo (5′- 3′-exonuclease) 12.01 12.01 8 37.85
gi|284812049 UvrC (Excinuclease ABC subunit C) 6.19 6.19 4 5.672
gi|31541441 MGA_0016 (recombinase RecO) 5.29 5.29 3 19.5
gi|31541171 putative Holliday junction resolvase 4.9 4.9 5 31.69
gi|284812207 DinB (DNA-polymerase IV) 4.05 4.05 2 5.985
gi|31541522 RecA (recombinase RecА) 4.01 4.01 2 8.547
gi|31541659 Ung (Uracil-DNA glycosylase) 3.13 3.86 3 13.85
  1. *The protein identification algorithm receives the value score for the protein as the sum of the scores for all its related peptides (the score in the program is a direct derivative of ProteinPilot reliability of identification). In the case where a peptide is common to the two proteins, its contribution to the score of the protein, which has a lower accuracy of the identification (less than the total score) will be less than the maximum possible value, calculated based on the reliability of his identification. Thus, the value of the unused score reflects the use of the same peptides (or rather the spectrum on the basis of which were identified peptides) in the identification of other proteins. The closer the value of the unused score to the total score of the protein, the more specific and accurate is this identification.