User talk:Farnad Zaghi: Difference between revisions
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== Proteomic E-coli Project == | <nowiki>Insert non-formatted text here</nowiki>== Proteomic E-coli Project == | ||
[[Image:2D_Gel_Explenation.jpg]] | [[Image:2D_Gel_Explenation.jpg]] | ||
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Spot Number NCBI accession (gI) number Uniprot accession # Theor-etical Mass Theor-etical pI RMS error (ppm) # peptides matched % Coverage Mascot Protein Score Mascot Score Highest Non-Homologous Protein Name | Spot Number NCBI accession (gI) number Uniprot accession # Theor-etical Mass Theor-etical pI RMS error (ppm) # peptides matched % Coverage Mascot Protein Score Mascot Score Highest Non-Homologous Protein Name | ||
1 (E1) no hit | '''1''' (E1) no hit | ||
2 (E3) no hit | '''2''' (E3) no hit | ||
3 (E5) no hit | '''3''' (E5) no hit | ||
4 (E7) gi|297521112|ref NP_06939498 19514 5.17 30 10 69% 120 87 malate dehydrogenase [Escherichia coli OP50] | '''4''' (E7) gi|297521112|ref NP_06939498 19514 5.17 30 10 69% 120 87 malate dehydrogenase [Escherichia coli OP50] | ||
gi|15803770|ref NP_289804 32488 5.61 31 11 44% 112 87 malate dehydrogenase [Escherichia coli O157:H7 EDL933] | gi|15803770|ref NP_289804 32488 5.61 31 11 44% 112 87 malate dehydrogenase [Escherichia coli O157:H7 EDL933] | ||
gi|91212656|ref YP_542642 35207 6.03 31 11 41% 109 87 malate dehydrogenase [Escherichia coli UTI89] | gi|91212656|ref YP_542642 35207 6.03 31 11 41% 109 87 malate dehydrogenase [Escherichia coli UTI89] | ||
| Line 33: | Line 33: | ||
gi|300979785|ref ZP_07174711 35221 6.36 30 10 35% 92 87 malate dehydrogenase, NAD-dependent [Escherichia coli MS 200-1] | gi|300979785|ref ZP_07174711 35221 6.36 30 10 35% 92 87 malate dehydrogenase, NAD-dependent [Escherichia coli MS 200-1] | ||
5 (E9) gi|16130476|ref NP_417046 45459 6.03 24 16 27% 169 NONE serine hydroxymethyltransferase [Escherichia coli str. K-12 substr. MG1655] | '''5''' (E9) gi|16130476|ref NP_417046 45459 6.03 24 16 27% 169 NONE serine hydroxymethyltransferase [Escherichia coli str. K-12 substr. MG1655] | ||
gi|15803076|ref NP_289107 45487 6.03 24 16 27% 169 NONE serine hydroxymethyltransferase [Escherichia coli O157:H7 EDL933] | gi|15803076|ref NP_289107 45487 6.03 24 16 27% 169 NONE serine hydroxymethyltransferase [Escherichia coli O157:H7 EDL933] | ||
gi|218706054|ref YP_002413573 45445 6.03 24 16 27% 169 NONE serine hydroxymethyltransferase [Escherichia coli O157:H7 EDL933] | gi|218706054|ref YP_002413573 45445 6.03 24 16 27% 169 NONE serine hydroxymethyltransferase [Escherichia coli O157:H7 EDL933] | ||
| Line 43: | Line 43: | ||
gi|301024834|ref ZP_07188471 45776 6.13 24 15 26% 155 NONE glycine hydroxymethyltransferase [Escherichia coli MS 69-1] | gi|301024834|ref ZP_07188471 45776 6.13 24 15 26% 155 NONE glycine hydroxymethyltransferase [Escherichia coli MS 69-1] | ||
7 (E11) gi|16131841|ref NP_418439 47777 5.16 23 29 61% 293 210 isocitrate lyase [Escherichia coli str. K-12 substr. MG1655] | '''7''' (E11) gi|16131841|ref NP_418439 47777 5.16 23 29 61% 293 210 isocitrate lyase [Escherichia coli str. K-12 substr. MG1655] | ||
gi|193062786|ref ZP_03043879 51533 5.06 18 13 33% 85 293 6-phosphogluconate dehydrogenase, decarboxylating [Escherichia coli E22] | gi|193062786|ref ZP_03043879 51533 5.06 18 13 33% 85 293 6-phosphogluconate dehydrogenase, decarboxylating [Escherichia coli E22] | ||
gi|16129099|ref NP_415654 46070 5.15 18 22 60% 210 293 "e14 prophage; isocitrate dehydrogenase, specific for NADP+ [Escherichia coli str. K-12 substr. MG1655] | gi|16129099|ref NP_415654 46070 5.15 18 22 60% 210 293 "e14 prophage; isocitrate dehydrogenase, specific for NADP+ [Escherichia coli str. K-12 substr. MG1655] | ||
| Line 55: | Line 55: | ||
gi|300922666|ref ZP_07138763 46011 5.35 17 20 55% 179 293 isocitrate dehydrogenase, NADP-dependent [Escherichia coli MS 182-1] | gi|300922666|ref ZP_07138763 46011 5.35 17 20 55% 179 293 isocitrate dehydrogenase, NADP-dependent [Escherichia coli MS 182-1] | ||
6 (F1) gi|15803822|ref NP_289856 36717 4.98 31 14 46% 199 NONE DNA-directed RNA polymerase subunit alpha [Escherichia coli O157:H7 EDL933] | '''6''' (F1) gi|15803822|ref NP_289856 36717 4.98 31 14 46% 199 NONE DNA-directed RNA polymerase subunit alpha [Escherichia coli O157:H7 EDL933] | ||
gi|227883427|ref ZP_04001232 36691 4.98 31 14 46% 199 NONE DNA-directed RNA polymerase subunit alpha [Escherichia coli 83972] | gi|227883427|ref ZP_04001232 36691 4.98 31 14 46% 199 NONE DNA-directed RNA polymerase subunit alpha [Escherichia coli 83972] | ||
8 (F5) gi|15804735|ref NP_290776 57447 4.81 15 22 44% 243 NONE chaperonin GroEL [Escherichia coli O157:H7 EDL933] | '''8''' (F5) gi|15804735|ref NP_290776 57447 4.81 15 22 44% 243 NONE chaperonin GroEL [Escherichia coli O157:H7 EDL933] | ||
gi|15834378|ref NP_313151 57464 4.81 15 22 44% 243 NONE chaperonin GroEL [Escherichia coli O157:H7 str. Sakai] | gi|15834378|ref NP_313151 57464 4.81 15 22 44% 243 NONE chaperonin GroEL [Escherichia coli O157:H7 str. Sakai] | ||
gi|110644502|ref YP_672232 57464 4.85 15 22 44% 243 NONE chaperonin GroEL [Escherichia coli 536] | gi|110644502|ref YP_672232 57464 4.85 15 22 44% 243 NONE chaperonin GroEL [Escherichia coli 536] | ||
| Line 64: | Line 64: | ||
gi|297520397|ref ZP_06938783 35245 4.85 21 11 36% 112 NONE chaperonin GroEL [Escherichia coli OP50] | gi|297520397|ref ZP_06938783 35245 4.85 21 11 36% 112 NONE chaperonin GroEL [Escherichia coli OP50] | ||
9 (F7) gi|300926981|ref ZP_07142741 77677 5.24 29 37 62% 313 100 translation elongation factor G [Escherichia coli MS 182-1] | '''9''' (F7) gi|300926981|ref ZP_07142741 77677 5.24 29 37 62% 313 100 translation elongation factor G [Escherichia coli MS 182-1] | ||
gi|218706934|ref YP_002414453 77762 5.21 28 37 61% 311 100 elongation factor G [Escherichia coli UMN026] | gi|218706934|ref YP_002414453 77762 5.21 28 37 61% 311 100 elongation factor G [Escherichia coli UMN026] | ||
gi|15803853|ref NP_289887 77704 5.24 28 38 63% 324 100 elongation factor G [Escherichia coli O157:H7 EDL933] | gi|15803853|ref NP_289887 77704 5.24 28 38 63% 324 100 elongation factor G [Escherichia coli O157:H7 EDL933] | ||
| Line 71: | Line 71: | ||
gi|15803116|ref NP_289147 96041 5.37 34 22 29% 100 324 protein disaggregation chaperone [Escherichia coli O157:H7 EDL933] | gi|15803116|ref NP_289147 96041 5.37 34 22 29% 100 324 protein disaggregation chaperone [Escherichia coli O157:H7 EDL933] | ||
10 (F9) no hit | '''10''' (F9) no hit | ||
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no hit http://128.59.63.100/mascot/cgi/master_results.pl?file=../data/20111211/F015492.dat&sessionID=FZaghi_206677355780492 Invirtogel_F9_0001 | no hit http://128.59.63.100/mascot/cgi/master_results.pl?file=../data/20111211/F015492.dat&sessionID=FZaghi_206677355780492 Invirtogel_F9_0001 | ||
== MS/MS Results == | == MS/MS Results == | ||
Revision as of 13:43, 25 June 2014
Insert non-formatted text here== Proteomic E-coli Project ==
Mascot Wizard Results
Spot Number NCBI accession (gI) number Uniprot accession # Theor-etical Mass Theor-etical pI RMS error (ppm) # peptides matched % Coverage Mascot Protein Score Mascot Score Highest Non-Homologous Protein Name 1 (E1) no hit
2 (E3) no hit
3 (E5) no hit
4 (E7) gi|297521112|ref NP_06939498 19514 5.17 30 10 69% 120 87 malate dehydrogenase [Escherichia coli OP50] gi|15803770|ref NP_289804 32488 5.61 31 11 44% 112 87 malate dehydrogenase [Escherichia coli O157:H7 EDL933] gi|91212656|ref YP_542642 35207 6.03 31 11 41% 109 87 malate dehydrogenase [Escherichia coli UTI89] gi|170018520|ref YP_001723474 32478 5.61 31 11 44% 112 87 malate dehydrogenase [Escherichia coli ATCC 8739] gi|209920706|ref YP_002294790 32504 5.61 31 11 44% 112 87 malate dehydrogenase [Escherichia coli SE11 gi|218555800|ref YP_002388713 32461 5.61 30 10 37% 95 87 malate dehydrogenase [Escherichia coli IAI1] gi|218706850|ref YP_002414369 32487 6.21 30 10 37% 95 87 "malate dehydrogenase [Escherichia coli UMN026]
" gi|110643470|ref YP_671200 32502 5.61 30 10 37% 95 87 malate dehydrogenase [Escherichia coli 536]
gi|194429110|ref ZP_03061640 32488 5.61 31 11 44% 112 87 malate dehydrogenase, NAD-dependent [Escherichia coli B171] gi|191168165|ref ZP_03029961 32477 5.61 30 10 37% 95 87 malate dehydrogenase, NAD-dependent [Escherichia coli B7A] gi|300898002|ref ZP_07116376 35206 6.85 30 10 35% 92 87 malate dehydrogenase, NAD-dependent [Escherichia coli MS 198-1] gi|301022169|ref ZP_07186088 35207 6.36 30 10 35% 92 87 malate dehydrogenase, NAD-dependent [Escherichia coli MS 69-1] gi|300937348|ref ZP_07152185 35223 6.36 30 10 35% 92 87 malate dehydrogenase, NAD-dependent [Escherichia coli MS 21-1] gi|300817513|ref ZP_07097729 35196 6.36 30 10 35% 92 87 malate dehydrogenase, NAD-dependent [Escherichia coli MS 107-1] gi|300979785|ref ZP_07174711 35221 6.36 30 10 35% 92 87 malate dehydrogenase, NAD-dependent [Escherichia coli MS 200-1]
5 (E9) gi|16130476|ref NP_417046 45459 6.03 24 16 27% 169 NONE serine hydroxymethyltransferase [Escherichia coli str. K-12 substr. MG1655] gi|15803076|ref NP_289107 45487 6.03 24 16 27% 169 NONE serine hydroxymethyltransferase [Escherichia coli O157:H7 EDL933] gi|218706054|ref YP_002413573 45445 6.03 24 16 27% 169 NONE serine hydroxymethyltransferase [Escherichia coli O157:H7 EDL933] gi|26248915|ref NP_754955 45746 6.13 24 16 27% 167 NONE serine hydroxymethyltransferase [Escherichia coli CFT073 gi|291283776|ref YP_003500594 45501 6.13 24 16 27% 167 NONE Serine hydroxymethyltransferase [Escherichia coli O55:H7 str. CB9615] gi|297521279|ref ZP_06939665 16829 7.74 44 11 51% 128 serine hydroxymethyltransferase [Escherichia coli OP50]
gi|300898338|ref ZP_07116686 45732 6.13 24 16 27% 167 NONE glycine hydroxymethyltransferase [Escherichia coli MS 198-1]. gi|301024834|ref ZP_07188471 45776 6.13 24 15 26% 155 NONE glycine hydroxymethyltransferase [Escherichia coli MS 69-1]
7 (E11) gi|16131841|ref NP_418439 47777 5.16 23 29 61% 293 210 isocitrate lyase [Escherichia coli str. K-12 substr. MG1655] gi|193062786|ref ZP_03043879 51533 5.06 18 13 33% 85 293 6-phosphogluconate dehydrogenase, decarboxylating [Escherichia coli E22] gi|16129099|ref NP_415654 46070 5.15 18 22 60% 210 293 "e14 prophage; isocitrate dehydrogenase, specific for NADP+ [Escherichia coli str. K-12 substr. MG1655]
[Escherichia coli str. K-12 substr. MG1655].
" gi|300922666|ref ZP_07138763 46011 5.35 17 20 55% 179 293 isocitrate dehydrogenase, NADP-dependent [Escherichia coli MS 182-1]
6 (F1) gi|15803822|ref NP_289856 36717 4.98 31 14 46% 199 NONE DNA-directed RNA polymerase subunit alpha [Escherichia coli O157:H7 EDL933] gi|227883427|ref ZP_04001232 36691 4.98 31 14 46% 199 NONE DNA-directed RNA polymerase subunit alpha [Escherichia coli 83972]
8 (F5) gi|15804735|ref NP_290776 57447 4.81 15 22 44% 243 NONE chaperonin GroEL [Escherichia coli O157:H7 EDL933] gi|15834378|ref NP_313151 57464 4.81 15 22 44% 243 NONE chaperonin GroEL [Escherichia coli O157:H7 str. Sakai] gi|110644502|ref YP_672232 57464 4.85 15 22 44% 243 NONE chaperonin GroEL [Escherichia coli 536] gi|260870948|ref YP_003237350 57709 4.85 15 22 44% 243 NONE chaperonin Cpn60 [Escherichia coli O111:H- str. 11128] gi|297520397|ref ZP_06938783 35245 4.85 21 11 36% 112 NONE chaperonin GroEL [Escherichia coli OP50]
9 (F7) gi|300926981|ref ZP_07142741 77677 5.24 29 37 62% 313 100 translation elongation factor G [Escherichia coli MS 182-1] gi|218706934|ref YP_002414453 77762 5.21 28 37 61% 311 100 elongation factor G [Escherichia coli UMN026] gi|15803853|ref NP_289887 77704 5.24 28 38 63% 324 100 elongation factor G [Escherichia coli O157:H7 EDL933] gi|297517420|ref ZP_06935806 58232 5.16 28 27 55% 211 100 elongation factor G [Escherichia coli OP50] gi|297518827|ref ZP_06937213 20222 5.33 29 11 78% 101 100 elongation factor G [Escherichia coli OP50] gi|15803116|ref NP_289147 96041 5.37 34 22 29% 100 324 protein disaggregation chaperone [Escherichia coli O157:H7 EDL933]
10 (F9) no hit
_________________________________
NCBI accession (gI) number Uniprot accession # Theor-etical Mass Theor-etical pI RMS error (ppm) # peptides matched % Coverage Mascot Protein Score Mascot Score Highest Non-Homologous Protein Name Summary URL Protein View URL Revised Protein Summary Additional Protein View Additional Protein View Comment input_data_file
no hit http://128.59.63.100/mascot/cgi/master_results.pl?file=../data/20111207/F015434.dat&sessionID=FZaghi_81508037746369 Invirtogel_E1_0001
no hit http://128.59.63.100/mascot/cgi/master_results.pl?file=../data/20111207/F015433.dat&sessionID=FZaghi_81508037746369 Invirtogel_E3_0001
no hit http://128.59.63.100/mascot/cgi/master_results.pl?file=../data/20111207/F015432.dat&sessionID=FZaghi_81508037746369 Invirtogel_E5_0001
gi|297521112|ref NP_06939498 19514 5.17 30 10 69% 120 87 malate dehydrogenase [Escherichia coli OP50] http://128.59.63.100/mascot/cgi/master_results.pl?file=../data/20111207/F015435.dat&sessionID=FZaghi_81508037746369 http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111207/F015435.dat&hit=1 malate dehydrogenase and malate dehydrogenase NAD-dependent for deifferent strant of E coli Invirtogel_E7_0001 gi|15803770|ref NP_289804 32488 5.61 31 11 44% 112 87 malate dehydrogenase [Escherichia coli O157:H7 EDL933] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111207/F015435.dat&hit=2 gi|91212656|ref YP_542642 35207 6.03 31 11 41% 109 87 malate dehydrogenase [Escherichia coli UTI89] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111207/F015435.dat&hit=9 gi|170018520|ref YP_001723474 32478 5.61 31 11 44% 112 87 malate dehydrogenase [Escherichia coli ATCC 8739] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111207/F015435.dat&hit=6 gi|209920706|ref YP_002294790 32504 5.61 31 11 44% 112 87 malate dehydrogenase [Escherichia coli SE11 http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111207/F015435.dat&hit=8 gi|218555800|ref YP_002388713 32461 5.61 30 10 37% 95 87 malate dehydrogenase [Escherichia coli IAI1] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111207/F015435.dat&hit=19 gi|218706850|ref YP_002414369 32487 6.21 30 10 37% 95 87 "malate dehydrogenase [Escherichia coli UMN026]
" http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111207/F015435.dat&hit=20 gi|110643470|ref YP_671200 32502 5.61 30 10 37% 95 87 malate dehydrogenase [Escherichia coli 536] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111207/F015435.dat&hit=21
gi|194429110|ref ZP_03061640 32488 5.61 31 11 44% 112 87 malate dehydrogenase, NAD-dependent [Escherichia coli B171] http://128.59.63.100/mascot/cgi/master_results.pl?file=../data/20111207/F015435.dat&sessionID=FZaghi_81508037746369 gi|191168165|ref ZP_03029961 32477 5.61 30 10 37% 95 87 malate dehydrogenase, NAD-dependent [Escherichia coli B7A] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111207/F015435.dat&hit=17 gi|300898002|ref ZP_07116376 35206 6.85 30 10 35% 92 87 malate dehydrogenase, NAD-dependent [Escherichia coli MS 198-1] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111207/F015435.dat&hit=22 gi|301022169|ref ZP_07186088 35207 6.36 30 10 35% 92 87 malate dehydrogenase, NAD-dependent [Escherichia coli MS 69-1] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111207/F015435.dat&hit=23 gi|300937348|ref ZP_07152185 35223 6.36 30 10 35% 92 87 malate dehydrogenase, NAD-dependent [Escherichia coli MS 21-1] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111207/F015435.dat&hit=24 gi|300817513|ref ZP_07097729 35196 6.36 30 10 35% 92 87 malate dehydrogenase, NAD-dependent [Escherichia coli MS 107-1] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111207/F015435.dat&hit=25 gi|300979785|ref ZP_07174711 35221 6.36 30 10 35% 92 87 malate dehydrogenase, NAD-dependent [Escherichia coli MS 200-1] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111207/F015435.dat&hit=26
gi|16130476|ref NP_417046 45459 6.03 24 16 27% 169 NONE serine hydroxymethyltransferase [Escherichia coli str. K-12 substr. MG1655] http://128.59.63.100/mascot/cgi/master_results.pl?file=../data/20111207/F015415.dat&sessionID=FZaghi_450724603025029 http://128.59.63.100/mascot/cgi/protein_view.pl?file=..%2Fdata%2F20111207%2FF015415.dat;hit=2 serine/ glycine hydroxymethyltransferase for different strains of E coli Invirtogel_E9_0001 gi|15803076|ref NP_289107 45487 6.03 24 16 27% 169 NONE serine hydroxymethyltransferase [Escherichia coli O157:H7 EDL933] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111207/F015415.dat&hit=3 gi|218706054|ref YP_002413573 45445 6.03 24 16 27% 169 NONE serine hydroxymethyltransferase [Escherichia coli O157:H7 EDL933] http://128.59.63.100/mascot/cgi/protein_view.pl?file=..%2Fdata%2F20111208%2FF015472.dat;hit=7 gi|26248915|ref NP_754955 45746 6.13 24 16 27% 167 NONE serine hydroxymethyltransferase [Escherichia coli CFT073 http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111208/F015472.dat&hit=8 gi|291283776|ref YP_003500594 45501 6.13 24 16 27% 167 NONE Serine hydroxymethyltransferase [Escherichia coli O55:H7 str. CB9615] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111208/F015472.dat&hit=10 gi|297521279|ref ZP_06939665 16829 7.74 44 11 51% 128 serine hydroxymethyltransferase [Escherichia coli OP50] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111208/F015472.dat&hit=16
gi|300898338|ref ZP_07116686 45732 6.13 24 16 27% 167 NONE glycine hydroxymethyltransferase [Escherichia coli MS 198-1]. http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111208/F015472.dat&hit=9 gi|301024834|ref ZP_07188471 45776 6.13 24 15 26% 155 NONE glycine hydroxymethyltransferase [Escherichia coli MS 69-1] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111208/F015472.dat&hit=11
gi|16131841|ref NP_418439 47777 5.16 23 29 61% 293 210 isocitrate lyase [Escherichia coli str. K-12 substr. MG1655] http://128.59.63.100/mascot/cgi/master_results.pl?file=../data/20111207/F015436.dat&sessionID=FZaghi_81508037746369 http://128.59.63.100/mascot/cgi/protein_view.pl?file=..%2Fdata%2F20111207%2FF015436.dat;hit=1 other Entries with the same sequence have found in different strains of E coli. Such as gi|227886989|ref for E coli 83972, gi|218561077|ref for E coli S88, gi|91213527|ref for E coli UTI89, gi|15804601|ref for E coli O157:H7 EDL933 , gi|291285425|ref for E coli O55:H7 str. CB9615, gi|26250784|ref for E coli CFT073, and gi|300820055|ref for E coli MS 107-1. gi|193062786|ref ZP_03043879 51533 5.06 18 13 33% 85 293 6-phosphogluconate dehydrogenase, decarboxylating [Escherichia coli E22] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111207/F015436.dat&hit=63 It has been reported as a Mixture with aboave Protien ID. gi|16129099|ref NP_415654 46070 5.15 18 22 60% 210 293 "e14 prophage; isocitrate dehydrogenase, specific for NADP+ [Escherichia coli str. K-12 substr. MG1655]
[Escherichia coli str. K-12 substr. MG1655].
" http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111207/F015436.dat&hit=24 Invirtogel_E11_0001
gi|300922666|ref ZP_07138763 46011 5.35 17 20 55% 179 293 isocitrate dehydrogenase, NADP-dependent [Escherichia coli MS 182-1] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111207/F015436.dat&hit=63
gi|15803822|ref NP_289856 36717 4.98 31 14 46% 199 NONE DNA-directed RNA polymerase subunit alpha [Escherichia coli O157:H7 EDL933] http://128.59.63.100/mascot/cgi/master_results.pl?file=../data/20111207/F015431.dat&sessionID=FZaghi_81508037746369 http://128.59.63.100/mascot/cgi/protein_view.pl?file=..%2Fdata%2F20111207%2FF015431.dat;hit=1 Invirtogel_F1_0001 gi|227883427|ref ZP_04001232 36691 4.98 31 14 46% 199 NONE DNA-directed RNA polymerase subunit alpha [Escherichia coli 83972] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111207/F015431.dat&hit=6
gi|15804735|ref NP_290776 57447 4.81 15 22 44% 243 NONE chaperonin GroEL [Escherichia coli O157:H7 EDL933] http://128.59.63.100/mascot/cgi/master_results.pl?file=../data/20111207/F015437.dat&sessionID=FZaghi_81508037746369 http://128.59.63.100/mascot/cgi/protein_view.pl?file=..%2Fdata%2F20111211%2FF015491.dat;hit=4 homologous protein find in different strains of E coli Invirtogel_F5_0001 gi|15834378|ref NP_313151 57464 4.81 15 22 44% 243 NONE chaperonin GroEL [Escherichia coli O157:H7 str. Sakai] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111211/F015491.dat&hit=6 gi|110644502|ref YP_672232 57464 4.85 15 22 44% 243 NONE chaperonin GroEL [Escherichia coli 536] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111211/F015491.dat&hit=7 gi|260870948|ref YP_003237350 57709 4.85 15 22 44% 243 NONE chaperonin Cpn60 [Escherichia coli O111:H- str. 11128] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111211/F015491.dat&hit=11 gi|297520397|ref ZP_06938783 35245 4.85 21 11 36% 112 NONE chaperonin GroEL [Escherichia coli OP50] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111211/F015491.dat&hit=51
gi|300926981|ref ZP_07142741 77677 5.24 29 37 62% 313 100 translation elongation factor G [Escherichia coli MS 182-1] http://128.59.63.100/mascot/cgi/master_results.pl?file=../data/20111207/F015430.dat&sessionID=FZaghi_304826335457584 http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111211/F015490.dat&hit=23 homologous protein find in different strains of E coli Invirtogel_F7_0001 gi|218706934|ref YP_002414453 77762 5.21 28 37 61% 311 100 elongation factor G [Escherichia coli UMN026] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111211/F015490.dat&hit=23 gi|15803853|ref NP_289887 77704 5.24 28 38 63% 324 100 elongation factor G [Escherichia coli O157:H7 EDL933] http://128.59.63.100/mascot/cgi/protein_view.pl?file=..%2Fdata%2F20111207%2FF015430.dat;hit=1 gi|297517420|ref ZP_06935806 58232 5.16 28 27 55% 211 100 elongation factor G [Escherichia coli OP50] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111211/F015490.dat&hit=23 gi|297518827|ref ZP_06937213 20222 5.33 29 11 78% 101 100 elongation factor G [Escherichia coli OP50] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111211/F015490.dat&hit=57 gi|15803116|ref NP_289147 96041 5.37 34 22 29% 100 324 protein disaggregation chaperone [Escherichia coli O157:H7 EDL933] http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111211/F015490.dat&hit=60 reported as a mixture with above protein ID
no hit http://128.59.63.100/mascot/cgi/master_results.pl?file=../data/20111211/F015492.dat&sessionID=FZaghi_206677355780492 Invirtogel_F9_0001
MS/MS Results
Filename NCBI gi number Uniprot KB ID Protein Name Mascot Score # acceptable peptides Precursor RMS ppm error Product RMS Error (avg. of accepted peptides) Comment Mascot Search Results URL (Select Summary) (Protein URL) B1_DDA_S_042811_4ul_1_CID.PKL GI:29788785|ref NP_821133 tubulin beta chain [Homo sapiens] 361 6 5 6.5 Proteins matching the same set of peptides as gi|7106439|ref the tubulin beta-5 chain [Mus musculus] http://128.59.63.100/mascot/cgi/master_results.pl?file=../data/20111117/F015215.dat http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111117/F015215.dat&hit=gi%7c7106439%7cref&px=1&ave_thresh=26&_sigthreshold=0.05&_server_mudpit_switch=0.001 GI:17986283|ref NP_006000 tubulin alpha-1A chain [Homo sapiens] 359 5 6 12.6 Proteins matching the same set of peptides as gi|6755901|ref in Mus musculus http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111117/F015215.dat&hit=gi%7c5174735%7cref&px=1&ave_thresh=26&_sigthreshold=0.05&_server_mudpit_switch=0.001 gi|5174735|ref NP_006079 tubulin beta-2C chain 219 5 5 8.8 the protein has a unique peptide eventhought it share another 4 pepide with nonhemologus protien http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111117/F015215.dat&hit=gi%7c5174735%7cref&px=1&ave_thresh=26&_sigthreshold=0.05&_server_mudpit_switch=0.001 gi|4501885|ref NP_001092 actin, cytoplasmic 1 [Homo sapiens] 209 2 3 30 eventhough the protien has to peptide score above the identety and hemology thershold I am not reporting it since the peptides have poor spectrum http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111117/F015215.dat&hit=gi%7c4501885%7cref&px=1&ave_thresh=26&_sigthreshold=0.05&_server_mudpit_switch=0.001 gi|4507729|ref NP_001060 tubulin beta-2A chain [Homo sapiens 170 4 5 9.25 http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111117/F015215.dat&hit=gi%7c4507729%7cref&px=1&ave_thresh=26&_sigthreshold=0.05&_server_mudpit_switch=0.001
B1_DDA_S_042811_4ul_2_CID.PKL gi|4501885|ref NP_001092 actin, cytoplasmic 1 [Homo sapiens] 154 3 5 14.3 http://128.59.63.100/mascot/cgi/master_results.pl?file=../data/20111117/F015250.dat http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111117/F015250.dat&hit=gi%7c4501885%7cref&px=1&ave_thresh=25&_sigthreshold=0.05&_server_mudpit_switch=0.001 gi|4501887|ref NP_001605 actin, cytoplasmic 2 [Homo sapiens] 154 3 5 14.3 http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111117/F015250.dat&hit=gi%7c4501887%7cref&px=1&ave_thresh=25&_sigthreshold=0.05&_server_mudpit_switch=0.001 gi|63055057|ref NP_001017992 beta-actin-like protein 2 [Homo sapiens] 2 1 16.5 one of the peptide has been used already for another protien however it may use as a second peptide with above identity thereshold to avoid "one hit wonder" but I don’t report this protien. http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111117/F015250.dat&hit=gi%7c63055057%7cref&px=1&ave_thresh=25&_sigthreshold=0.05&_server_mudpit_switch=0.001
B2_DDA_S_042811_4ul_1_CID.PKL NO HIT DECOY ON http://128.59.63.100/mascot/cgi/master_results.pl?file=../data/20111117/F015253.dat gi|14389309|ref NP_116093 tubulin alpha-1C chain [Homo sapiens] 301 5 7 13 http://128.59.63.100/mascot/cgi/master_results.pl?file=../data/20111117/F015257.dat http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111117/F015258.dat&hit=gi%7c14389309%7cref&px=1&ave_thresh=26&_sigthreshold=0.05&_server_mudpit_switch=0.001 GI:57013276|ref NP_006073 tubulin alpha-1B chain [Homo sapiens] 301 5 7 13 gi|34740335|ref tubulin alpha-1B chain containing the same sequence in [Mus musculus] from NCBI http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111117/F015258.dat&hit=gi%7c34740335%7cref&px=1&ave_thresh=26&_sigthreshold=0.05&_server_mudpit_switch=0.001 http://www.ncbi.nlm.nih.gov/protein/57013276 gi|5174735|ref NP_006079 tubulin beta-2C chain [Homo sapiens] 207 5 6 8.8 http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111117/F015258.dat&hit=gi%7c5174735%7cref&px=1&ave_thresh=26&_sigthreshold=0.05&_server_mudpit_switch=0.001
gi|4503471|ref NP_001393 elongation factor 1-alpha 1 [Homo sapiens] 154 2 3 8 since the spectra belong to a 1D gel , there are non hemolugous protien available in the sample http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111117/F015258.dat&hit=gi%7c4503471%7cref&px=1&ave_thresh=26&_sigthreshold=0.05&_server_mudpit_switch=0.001
B2_DDA_S_042811_4ul_2_CID.PKL gi|4501885|ref NP_001092 actin, cytoplasmic 1 [Homo sapiens] 154 3 4 16 ERRO-Tolerant OFF http://128.59.63.100/mascot/cgi/master_results.pl?file=../data/20111117/F015261.dat http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111117/F015261.dat&hit=gi%7c4501885%7cref&px=1&ave_thresh=25&_sigthreshold=0.05&_server_mudpit_switch=0.001 gi|4501887|ref NP_001605 actin, cytoplasmic 2 [Homo sapiens] 154 3 4 16 http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111117/F015261.dat&hit=gi%7c4501887%7cref&px=1&ave_thresh=25&_sigthreshold=0.05&_server_mudpit_switch=0.001 gi|63055057|ref NP_001017992 beta-actin-like protein 2 95 2 1 16.5 http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111120/F015269.dat&hit=gi%7c63055057%7cref&px=1&ave_thresh=25&_sigthreshold=0.05&_server_mudpit_switch=0.001 the protein has a unique peptide eventhought it share another pepide with nonhemologus protien gi|4501885|ref NP_001092 actin, cytoplasmic 1 [Homo sapiens] 154 4 4 12.5 ERRO-Tolerant ON http://128.59.63.100/mascot/cgi/master_results.pl?file=../data/20111117/F015265.dat http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111117/F015261.dat&hit=gi%7c4501885%7cref&px=1&ave_thresh=25&_sigthreshold=0.05&_server_mudpit_switch=0.001 gi|4501887|ref NP_001605 actin, cytoplasmic 2 [Homo sapiens] 154 4 4 12.5 http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111117/F015261.dat&hit=gi%7c4501887%7cref&px=1&ave_thresh=25&_sigthreshold=0.05&_server_mudpit_switch=0.001 gi|5453597|ref NP_006126 F-actin-capping protein subunit alpha-1 122 3 4 10.3 http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111117/F015265.dat&hit=gi%7c5453597%7cref&px=1&ave_thresh=25&_sigthreshold=0.05&_server_mudpit_switch=0.001 gi|63055057|ref NP_001017992 beta-actin-like protein 2 95 2 1 7.5 http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111120/F015270.dat&hit=gi%7c63055057%7cref&px=1&ave_thresh=25&_sigthreshold=0.05&_server_mudpit_switch=0.001 gi|4501883|ref NP_001604 actin, aortic smooth muscle 84 2 3 7.5 http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111120/F015270.dat&hit=gi%7c4501883%7cref&px=1&ave_thresh=25&_sigthreshold=0.05&_server_mudpit_switch=0.001 gi|4501889|ref NP_001606 actin, gamma-enteric smooth muscle propeptide 84 2 3 7.5 http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111120/F015270.dat&hit=gi%7c4501889%7cref&px=1&ave_thresh=25&_sigthreshold=0.05&_server_mudpit_switch=0.001 gi|4885049|ref NP_005150 actin, alpha cardiac muscle 1 proprotein 84 2 3 7.5 http://128.59.63.100/mascot/cgi/protein_view.pl?file=../data/20111120/F015270.dat&hit=gi%7c4885049%7cref&px=1&ave_thresh=25&_sigthreshold=0.05&_server_mudpit_switch=0.001
Personal/Lab Info
User:Julius_B._Lucks, User:Jason_R._Kelly and User:Reshma_P._Shetty.
