Annotated spectra

Annotated spectra of M_06_23_E2_ETD.msf

Workflow created with Discoverer version: 1.2.0.208 (DBVersion:53)

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Search name: M15_CS23_Excl2_ETD
Search description: -
Search date: 03/21/2013 12:07:46

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The pipeline tree:
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    |-(0) Spectrum Files
        |-(1) Spectrum Selector
            |-(2) Non-Fragment Filter
                |-(3) Mascot

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Search name: M15_CS23_Excl2_ETD
Search description: -
Search date: 03/21/2013 12:07:46

================================================================================

The pipeline tree:
------------------

    |-(0) Spectrum Files
        |-(1) Spectrum Selector
            |-(2) Non-Fragment Filter
                |-(3) Mascot

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Processing node 0: Spectrum Files
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Input Data:
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File Name(s): F:\New Folder\M15_CS23_Excl2.raw

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Processing node 1: Spectrum Selector
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1. General Settings:
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Precursor Selection: Use MS1 Precursor
Use New Precursor Reevaluation: True

2. Spectrum Properties Filter:
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Lower RT Limit: 0
Upper RT Limit: 0
Lowest Charge State: 0
Highest Charge State: 0
Min. Precursor Mass: 400 Da
Max. Precursor Mass: 10000 Da
Total Intensity Threshold: 0
Minimum Peak Count: 1

3. Scan Event Filters:
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MS Order: Is MS2
Activation Type: Is ETD
Scan Type: Is Full

4. Peak Filters:
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S/N Threshold (FT-only): 3

5. Replacements for Unrecognized Properties:
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Unrecognized Charge Replacements: Automatic
Unrecognized Mass Analyzer Replacements: ITMS
Unrecognized MS Order Replacements: MS2
Unrecognized Activation Type Replacements: ETD
Unrecognized Polarity Replacements: +

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Processing node 2: Non-Fragment Filter
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1. Precursor Peaks:
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Remove Precursor Peak: True
Mass Window Offset: 4 Da

2. Charge Reduced Precursors:
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Remove Charge Reduced Precursors: True
Mass Window Offset: 2 Da

3. Neutral Losses From Charge Reduced Precursors:
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Remove Neutral Loss Peaks: True
Mass Window Offset: 2 Da
Remove Only Known Masses: True
Maximum Neutral Loss Mass: 120 Da

4. FT Overtones:
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Remove Precursor Overtones: False
Mass Window Offset: 0.5 Da

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Processing node 3: Mascot
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1. Input Data:
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Protein Database: TAIR10
Enzyme Name: Trypsin
Maximum Missed Cleavage Sites: 2
Instrument: ETD-TRAP
Taxonomy: All entries

1.1 Peptide Scoring Options:
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Peptide Cut Off Score: 10

1.2 Protein Scoring Options:
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Use MudPIT Scoring: True
Protein Relevance Threshold: 20
Protein Relevance Factor: 1

2. Decoy Database Search:
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Decoy Search: True

3. Tolerances:
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Precursor Mass Tolerance: 5 ppm
Fragment Mass Tolerance: 0.6 Da
Use Average Precursor Mass: False

4. Decoy Database Search:
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Significance High: 0.0335
Significance Middle: 0.415

4. Dynamic Modifications:
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1. Dynamic Modification: Phosphogood (ST)
2. Dynamic Modification: Phospho (Y)

5. Static Modifications:
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1. Static Modification: Methylthio (C)

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Processing details:

03/21/2013 12:14 PM (3):Mascot: Search completed
03/21/2013 12:14 PM (3):Mascot: 70 protein(s) scored and inserted into result file in 2 s
03/21/2013 12:14 PM (3):Mascot: ScoreCalculator: 70 protein(s) scored
03/21/2013 12:14 PM (3):Mascot: Result finalization started
03/21/2013 12:14 PM (3):Mascot: Start calculating relaxed FDR
03/21/2013 12:14 PM (3):Mascot: Start calculating strict FDR
03/21/2013 12:14 PM (3):Mascot: Used mascot server http://mascot/mascot/ with Mascot version 2.2.7
03/21/2013 12:14 PM (3):Mascot: Sending 143 peptide hits (251 peptides) to result file
03/21/2013 12:14 PM (3):Mascot: Sending 21 decoy peptide hits (37 peptides) to result file
03/21/2013 12:14 PM (3):Mascot: Reading decoy results
03/21/2013 12:14 PM (3):Mascot: Start translating results
03/21/2013 12:14 PM (3):Mascot: Start mapping modifications
03/21/2013 12:13 PM (3):Mascot: Received 80 proteins from Mascot server
03/21/2013 12:13 PM (3):Mascot: Start mapping 80 proteins
03/21/2013 12:13 PM (3):Mascot: Start parsing results
03/21/2013 12:13 PM (3):Mascot: Received Mascot result file (filename=../data/20130321/F007431.dat)
03/21/2013 12:13 PM (3):Mascot: Mascot Server completed
03/21/2013 12:12 PM (3):Mascot: Mascot result on server (filename=../data/20130321/F007431.dat)
03/21/2013 12:12 PM (3):Mascot: Start searching 3774 spectra
03/21/2013 12:12 PM (2):Non-Fragment Filter: Sending 774 spectra to Mascot
03/21/2013 12:12 PM (2):Non-Fragment Filter: Sending 774 spectra to result file
03/21/2013 12:12 PM (2):Non-Fragment Filter: Receiving spectra 3001 to 3775.
03/21/2013 12:12 PM (1):Spectrum Selector: Sending 774 spectra to Spectrum Distributor
03/21/2013 12:12 PM (2):Non-Fragment Filter: Sending 1000 spectra to Mascot
03/21/2013 12:12 PM (2):Non-Fragment Filter: Sending 1000 spectra to result file
03/21/2013 12:12 PM (2):Non-Fragment Filter: Receiving spectra 2001 to 3001.
03/21/2013 12:12 PM (1):Spectrum Selector: Sending 1000 spectra to Spectrum Distributor
03/21/2013 12:11 PM (2):Non-Fragment Filter: Sending 1000 spectra to Mascot
03/21/2013 12:11 PM (2):Non-Fragment Filter: Sending 1000 spectra to result file
03/21/2013 12:11 PM (2):Non-Fragment Filter: Receiving spectra 1001 to 2001.
03/21/2013 12:11 PM (1):Spectrum Selector: Sending 1000 spectra to Spectrum Distributor
03/21/2013 12:11 PM (3):Mascot: Use mascot server http://mascot/mascot/ with Mascot version 2.2.7
03/21/2013 12:11 PM (2):Non-Fragment Filter: Sending 1000 spectra to Mascot
03/21/2013 12:11 PM (2):Non-Fragment Filter: Sending 1000 spectra to result file
03/21/2013 12:11 PM (2):Non-Fragment Filter: Receiving spectra 1 to 1001.
03/21/2013 12:11 PM (1):Spectrum Selector: Sending 1000 spectra to Spectrum Distributor

Top

Confidence	Sequence	Activation Type	Modifications	IonScore	ΔScore	Rank	Search Engine	Charge	Precursor m/z [Da]	ΔM [ppm]	First Scan	Last Scan	Annotated Spectrum	Peak List


Medium	ILsSLSR	ETD	S3(PhospR4)	23.93	0.00	1	Mascot (3)	2	428.21985	-1.37	1836	1836	Image	Peak List

Medium	LVtSLSR	ETD	T3(PhospR4)	23.67		2	Mascot (3)	2	428.21985	-1.37	1836	1836	Image	Peak List

Medium	LIsSSIR	ETD	S3(PhospR4)	21.52		3	Mascot (3)	2	428.21985	-1.37	1836	1836	Image	Peak List

Medium	VVLTSLQsFPR	ETD	S8(PhospR4)	17.80	1.00	1	Mascot (3)	2	663.84546	1.40	2451	2451	Image	Peak List

High	VHIsEPEPEVK	ETD	S4(PhospR4)	32.18	1.00	1	Mascot (3)	3	448.54578	-1.16	839	839	Image	Peak List

High	VDVYNRVNsIPR	ETD	S9(PhospR4)	26.74	1.00	1	Mascot (3)	2	756.37292	1.26	1134	1134	Image	Peak List

Medium	AAsFNIIPSSTGAAK	ETD	S3(PhospR4)	21.55	1.00	1	Mascot (3)	2	757.86676	0.74	2081	2081	Image	Peak List

High	sISSAQFFGNQNR	ETD	S1(PhospR4)	25.21	1.00	1	Mascot (3)	2	768.33807	3.24	1915	1915	Image	Peak List

High	SKsWGITDPELQR	ETD	S3(PhospR4)	35.20	0.31	1	Mascot (3)	3	532.91846	-0.64	1547	1547	Image	Peak List

Medium	IGsSEMLIEGEDVR	ETD	S3(PhospR4)	18.08	1.00	1	Mascot (3)	2	807.86066	3.63	2170	2170	Image	Peak List

High	LSRPGsGSVSGLASQR	ETD	S6(PhospR4)	26.58	0.26	1	Mascot (3)	2	819.90198	0.41	753	753	Image	Peak List

Medium	ALsESTNLHPFMTK	ETD	S3(PhospR4)	20.19	1.00	1	Mascot (3)	2	828.38013	1.83	1673	1673	Image	Peak List

High	TLSYPTPPLNLQsPR	ETD	S13(PhospR4)	31.72	1.00	1	Mascot (3)	2	882.44031	0.29	2396	2396	Image	Peak List

Medium	EsKSHLNLNEcLTLPK	ETD	S2(PhospR4); C11(Methylthio)	20.38	1.00	1	Mascot (3)	3	651.30603	0.90	2226	2226	Image	Peak List

Medium	NANRIPHSSsAPNLSDTR	ETD	S10(PhospR4)	24.68	0.16	1	Mascot (3)	3	672.98059	1.21	515	515	Image	Peak List

High	MVsEKVKDMLQAPTLESK	ETD	S3(PhospR4)	28.79	1.00	1	Mascot (3)	3	705.34436	-4.21	1913	1913	Image	Peak List

High	VQNSHDVYKMtGETGSYR	ETD	T11(PhospR4)	49.07	0.45	1	Mascot (3)	3	717.97736	0.44	634	634	Image	Peak List

High	TSsFRDPLSVSDSASPIPSR	ETD	S3(PhospR4)	48.68	0.08	1	Mascot (3)	3	729.34357	1.62	2016	2016	Image	Peak List

Medium	LDAARPTtPRPPsPLADAPR	ETD	T8(PhospR4); S13(PhospR4)	18.41	1.00	1	Mascot (3)	3	753.69482	0.68	1360	1360	Image	Peak List

High	HYSEDVGEVQASQEKPVsPK	ETD	S18(PhospR4)	28.80	1.00	1	Mascot (3)	3	765.34967	0.32	503	503	Image	Peak List

Medium	sAPTTPINQNAAAAFAAVSEEER	ETD	S1(PhospR4)	23.83	0.21	1	Mascot (3)	3	809.04004	0.96	2905	2905	Image	Peak List

Medium	LFLFPASSGFGsQSSTQSDRDR	ETD	S12(PhospR4)	20.04	1.00	1	Mascot (3)	3	824.04108	2.07	2795	2795	Image	Peak List

Medium	DDSFQKVNDHPIsTVESNLSAK	ETD	S13(PhospR4)	18.33	1.00	1	Mascot (3)	3	837.71899	0.97	1670	1670	Image	Peak List

High	HVVDEPANEEKPSESSAALsPEK	ETD	S20(PhospR4)	30.88	1.00	1	Mascot (3)	3	844.05145	2.06	487	487	Image	Peak List

Medium	GKGDDDsVHNVEFSGGNVHLITTK	ETD	S7(PhospR4)	24.04	1.00	1	Mascot (3)	3	869.40112	0.17	1281	1281	Image	Peak List

Medium	VTYVAPPRPPsPVHEGSEEGSSPR	ETD	S11(PhospR4)	24.51	1.00	1	Mascot (3)	3	871.41144	2.14	938	938	Image	Peak List

High	HPQWQSDDGGDNsEPESPSDSLR	ETD	S13(PhospR4)	26.27	1.00	1	Mascot (3)	3	874.01471	2.86	1031	1031	Image	Peak List

Medium	RDDsFQKVNDHPISTVESNLSAK	ETD	S4(PhospR4)	24.96	1.00	1	Mascot (3)	3	889.75183	-0.07	1309	1309	Image	Peak List

High	ItSSPKQEIGTGEATEQEEGKEQK	ETD	T2(PhospR4)	44.36	0.45	1	Mascot (3)	3	895.41650	1.86	470	470	Image	Peak List

High	SMsAPSLQPLQGVPSGGLQSSEVKPSGR	ETD	S3(PhospR4)	27.47	0.04	1	Mascot (3)	3	954.46838	1.45	2139	2139	Image	Peak List

High	NVEGsNEDEEEEIEEDGEEISEVDHAK	ETD	S5(PhospR4)	32.29	1.00	1	Mascot (3)	3	1047.41101	-1.27	2268	2268	Image	Peak List

Medium	TDGSTtPAYAHGQHHSIFSPATGAVSDSSLK	ETD	T6(PhospR4)	18.67	1.00	1	Mascot (3)	3	1069.81897	1.36	1260	1260	Image	Peak List

High	KEEATPAPAVVEtPVKEPETTTTAPVAEPPKP	ETD	T13(PhospR4)	32.20	0.09	1	Mascot (3)	3	1131.23657	0.87	1358	1358	Image	Peak List

Medium	EDDSASLSPSSVPPSsLsRTWKHQVFPSFHGADVR	ETD	S16(PhospR4); S18(PhospR4)	18.18	1.00	1	Mascot (3)	3	1324.26758	2.09	797	797	Image	Peak List

Annotated spectra of M_06_23_E2_ETD.msf

Peptides

Search Summary