MASCOT Search Results

Search metadata
User : Jennifer
E-mail : [email protected]
Search title : Rita6 sp
MS data file : PRT1270_T-BRSC_6_20250714122635.mgf
Database : SwissProt 57.15 (515,203 sequences; 181,334,896 residues)
Timestamp : 12 Aug 2025 at 23:38:56 GMT
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Search parameters
Type of search : MS/MS Ion Search
Enzyme : GluC_Trypsin
Fixed modifications : Carbamidomethyl (C)
Variable modifications : Deamidated (NQ), Oxidation (M)
Mass values : Monoisotopic
Protein mass : Unrestricted
Peptide mass tolerance : ± 20 ppm
Fragment mass tolerance : ± 0.1 Da
Max missed cleavages : 1
Instrument type : ESI-FTICR
Number of queries : 4,869

Score distribution

Peptide score distribution

Peptide score distribution. Ions score is −10log(P), where P is the probability that the observed match is a random event. Individual ions scores > 39 indicate identity or extensive homology (p<0.05).

Protein score distribution for the first 50 proteins

[Deprecated] Score distribution for family members in the first 50 proteins. Protein scores are derived from ions scores as a non-probabilistic basis for ranking protein families.

Legend
Dupes Expect Rank U 1 2 Peptide
0.037 +2 GAYSLSLR significant
9 +1 GFFLFVEGGR top ranking
6.4e-005 +1 GSSIFGLAPGK significant and top ranking
1.3e-006 +1 X SSGTSYPDVLK peptide is found in all proteins in family member 1
6.2e-007 +1 / VCNYVSWIK peptide is found in some but not all proteins in family member 2
6.4e-005 +1 U GSSIFGLAPGK unique
+2 5.7e-005 +1 LNTLETEEWFFK peptide has two duplicates
0.18 +1 LNTLETEEWFFK duplicate peptide

Right-facing triangle (+) in the Dupes or Rank column indicates content that can be expanded by clicking on it. Down-facing triangle (-) indicates the content is expanded and can be collapsed. For more details about particular columns, see results format help.

Protein Family Summary

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Protein families 1–10 (out of 187)

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+1

Accession Score Description
Family member distances as a dendrogram 1 EFTU2_PSEPK 1352 Elongation factor Tu-B OS=Pseudomonas putida (strain KT2440) GN=tufB PE=3 SV=1
4 EFTU_CYAP7 34 Elongation factor Tu OS=Cyanothece sp. (strain PCC 7424) GN=tuf PE=3 SV=1
3 EFTU_CARRP 180 Elongation factor Tu OS=Carsonella ruddii (strain PV) GN=tuf PE=3 SV=1
2 EFTU1_PSEPK 1236 Elongation factor Tu-A OS=Pseudomonas putida (strain KT2440) GN=tufA PE=3 SV=1

-2

Accession Score Description
Family member distances as a dendrogram 1 ATPB_PSEPG 1121 ATP synthase subunit beta OS=Pseudomonas putida (strain GB-1) GN=atpD PE=3 SV=1
2 ATPB_PSEFS 949 ATP synthase subunit beta OS=Pseudomonas fluorescens (strain SBW25) GN=atpD PE=3 SV=1
Cut threshold

Score Mass Matches Sequences emPAI
ATPB_PSEPG 1121 49415 37 (26) 15 (11) 0.89
ATP synthase subunit beta OS=Pseudomonas putida (strain GB-1) GN=atpD PE=3 SV=1
2 samesets of ATPB_PSEPG
ATPB_PSEPK 1121 49385 37 (26) 15 (11) 0.89
ATP synthase subunit beta OS=Pseudomonas putida (strain KT2440) GN=atpD PE=3 SV=1
ATPB_PSEP1 1121 49385 37 (26) 15 (11) 0.89
ATP synthase subunit beta OS=Pseudomonas putida (strain F1 / ATCC 700007) GN=atpD PE=3 SV=1
ATPB_PSEFS 949 49516 33 (22) 12 (9) 0.72
ATP synthase subunit beta OS=Pseudomonas fluorescens (strain SBW25) GN=atpD PE=3 SV=1

-40 peptide matches (22 non-duplicate, 18 duplicate)

Query Dupes Observed Mr(expt) Mr(calc) ppm  M Score Expect Rank U 1 2 Peptide
Query Dupes Observed Mr(expt) Mr(calc) ppm  M Score Expect Rank U 1 2 Peptide
309 +1 305.1845 608.3544 608.3533 1.81 0 10 0.34 +1Score > 31 indicates identity
Score > 18 indicates homology		 X X K.YVSLK.D
676   395.7012 789.3878 789.3868 1.28 0 22 0.42 +1Score > 43 indicates identity
Score > 31 indicates homology		 X X K.DSNVLDK.V
1069 +3 481.2799 960.5452 960.5393 6.20 0 66 0.00013 +1Score > 39 indicates identity U X X K.VGLFGGAGVGK.T
1072   962.5442 961.5369 961.5345 2.51 0 46 0.012 +2Score > 39 indicates identity U X X R.GVQYVLQR.Y
1075 +2 481.7765 961.5384 961.5345 4.09 0 30 0.17 +1Score > 39 indicates identity
Score > 35 indicates homology		 U X X R.GVQYVLQR.Y
1369   553.7934 1105.5722 1105.5624 8.94 1 13 1.3 +4Score > 42 indicates identity
Score > 26 indicates homology		 X X K.TVNMMELIR.N
1438   567.3226 1132.6306 1132.6162 12.8 1 44 0.0038 +1Score > 39 indicates identity
Score > 32 indicates homology		 U X X R.VALTGLTMAEK.F
1618 +1 602.8380 1203.6614 1203.6499 9.57 0 32 0.031 +1Score > 39 indicates identity
Score > 29 indicates homology		 U X R.DVVPSVYNALK.V
2176 +1 484.2727 1449.7963 1449.7827 9.34 1 101 1.4e-009 +1Score > 38 indicates identity
Score > 25 indicates homology		 U X X R.YTLAGTEVSALLGR.M
2177 +2 725.9074 1449.8002 1449.7827 12.1 1 99 2.8e-009 +1Score > 38 indicates identity
Score > 26 indicates homology		 U X X R.YTLAGTEVSALLGR.M
2502 +1 533.3029 1596.8869 1596.8723 9.12 0 58 0.00043 +1Score > 37 indicates identity U X X R.GLDVVDTGAAISVPVGK.A
D:\Xcalibur\Data\Jennifer\PRT1270 Rita DDA\PRT1270_T-BRSC_6_20250714122635.raw

Score > 37 indicates identity
2503 +2 799.4511 1596.8876 1596.8723 9.60 0 99 3.4e-008 -1Score > 37 indicates identity U X X R.GLDVVDTGAAISVPVGK.A
9.62 0 64 0.00012 2 GLNVIDSGAAISVPVGK   + Deamidated (NQ)
15.8 0 11 24 3 LGWGLGNALQLADIR   + Deamidated (NQ)
-13.2 0 9 36 4 VLTGLDVGVLVNNVGK   + Deamidated (NQ)
-13.1 0 9 36 5 LQAAVNLALVDQTLK   + Deamidated (NQ)
-4.42 1 8 44 6 IRDQANSLLRPSVK   + Deamidated (NQ)
15.8 1 6 63 7 LEPLGFNQIGEKPR  
-14.0 1 6 66 8 WVINTRQVAQLLR   + Deamidated (NQ)
18.3 0 6 67 9 QGQLGQGIVVQSIDR  
9.66 1 6 71 10 LASLNAEALNNLLLE  
2614   823.4165 1644.8184 1644.7930 15.5 0 73 1.5e-005 +1Score > 41 indicates identity
Score > 37 indicates homology		 U X X K.VALVYGQMNEPPGNR.L + Deamidated (NQ)
2660 +1 557.0024 1667.9854 1667.9610 14.6 1 81 4.7e-007 +1Score > 30 indicates identity U X X R.IVQIIGAVIDVEFPR.D
2661 +2 835.0002 1667.9858 1667.9610 14.9 1 99 8e-009 +1Score > 30 indicates identity U X X R.IVQIIGAVIDVEFPR.D
2747   571.3331 1710.9775 1710.9556 12.8 1 21 1 +2Score > 34 indicates identity U X K.YVSLKDTIAGFSGILK.G
2992   928.4540 1854.8934 1854.8860 4.00 1 53 0.0026 +1Score > 40 indicates identity U X R.QLDPNVIGQEHYDTAR.G
2993   619.3051 1854.8935 1854.8860 4.01 1 23 0.67 +1Score > 40 indicates identity
Score > 34 indicates homology		 U X R.QLDPNVIGQEHYDTAR.G
2996   619.6415 1855.9027 1855.8700 17.6 1 21 0.15 +1Score > 40 indicates identity
Score > 25 indicates homology		 U X R.QLDPNVIGQEHYDTAR.G + Deamidated (NQ)
3137   653.3495 1957.0267 1956.9986 14.4 1 74 1.5e-006 +1Score > 38 indicates identity
Score > 28 indicates homology		 U X R.FLSQPFFVAEVFTGSPGK.Y
3188   995.5222 1989.0298 1989.0055 12.3 0 83 2.1e-007 +1Score > 39 indicates identity
Score > 29 indicates homology		 U X X R.DIASLGIYPAVDPLDSTSR.Q
3870 +2 813.0845 2436.2317 2436.1921 16.2 1 75 2.3e-007 +1Score > 38 indicates identity
Score > 21 indicates homology		 U X R.GIHQPAPSFADQAGGNDLLETGIK.V + Deamidated (NQ)

+30 subsets and intersections (603 subset proteins in total)

+3

Accession Score Description
Family member distances as a dendrogram 1 ATPA_PSEPK 954 ATP synthase subunit alpha OS=Pseudomonas putida (strain KT2440) GN=atpA PE=3 SV=1
2 ATPA_RICAH 173 ATP synthase subunit alpha OS=Rickettsia akari (strain Hartford) GN=atpA PE=3 SV=1
3 ATPA_VEREI 163 ATP synthase subunit alpha OS=Verminephrobacter eiseniae (strain EF01-2) GN=atpA PE=3 SV=1

+4

Accession Score Description
Family member distances as a dendrogram 1 CH60_PSEPK 667 60 kDa chaperonin OS=Pseudomonas putida (strain KT2440) GN=groL PE=3 SV=1
4 CH602_SORC5 69 60 kDa chaperonin 2 OS=Sorangium cellulosum (strain So ce56) GN=groL2 PE=3 SV=1
3 CH60_COLMA 82 60 kDa chaperonin OS=Colwellia maris GN=groL PE=3 SV=2
2 CH601_ECOK1 119 60 kDa chaperonin 1 OS=Escherichia coli O1:K1 / APEC GN=groL1 PE=3 SV=1

+5

Accession Score Description
Family member distances as a dendrogram 1 RPOC_PSEPK 451 DNA-directed RNA polymerase subunit beta' OS=Pseudomonas putida (strain KT2440) GN=rpoC PE=3 SV=1
4 RPOC_PELUB 108 DNA-directed RNA polymerase subunit beta' OS=Pelagibacter ubique GN=rpoC PE=3 SV=1
3 RPOC_SYNAS 149 DNA-directed RNA polymerase subunit beta' OS=Syntrophus aciditrophicus (strain SB) GN=rpoC PE=3 SV=1
2 RPOB_PSEP1 316 DNA-directed RNA polymerase subunit beta OS=Pseudomonas putida (strain F1 / ATCC 700007) GN=rpoB PE=3 SV=1

+6

Accession Score Description
1 RL1_PSEE4 451 50S ribosomal protein L1 OS=Pseudomonas entomophila (strain L48) GN=rplA PE=3 SV=1

+7

Accession Score Description
1 OTCC_PSEPK 445 Ornithine carbamoyltransferase, catabolic OS=Pseudomonas putida (strain KT2440) GN=arcB PE=3 SV=3

+8

Accession Score Description
1 ARCA_PSEPK 405 Arginine deiminase OS=Pseudomonas putida (strain KT2440) GN=arcA PE=3 SV=1

+9

Accession Score Description
1 DLDH2_PSEPU 387 Dihydrolipoamide dehydrogenase OS=Pseudomonas putida GN=lpdG PE=1 SV=4

+10

Accession Score Description
1 DBHB_PSEAE 318 DNA-binding protein HU-beta OS=Pseudomonas aeruginosa GN=hupB PE=1 SV=3
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