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. Author manuscript; available in PMC: 2011 Nov 5.
Published in final edited form as: J Proteome Res. 2010 Oct 12;9(11):5705–5714. doi: 10.1021/pr1005179

Table 1.

List of peptides bearing PB-DOPA in E. coli lysate

No Sequencesa Stochiometryb
 GI number Protein Information
Scan # %
1 KLSYTGEVK* 2/8 20.0% 170079671 transaldolase_B
2 LSYDTEASIAK* 1/7 12.5% 170079671 transaldolase_B
3 YLEHR 1/31 3.1% 170079751 pyruvate_dehydrogenase,_decarboxylase_component_E1
4 EQVAYYKEDEK* 6/37 13.9% 170079751 pyruvate_dehydrogenase,_decarboxylase_component_E1
5 YAMIGDPTGALTR 1/39 2.5% 170080288 alkyl_hydroperoxide_reductase,_C22_subunit
6 HYGALQGLNK* 5/29 14.7% 170080415 phosphoglyceromutase_1
7 AIDFSDGYYK* 4/17 19.0% 170080470 glutamine_ABC_transporter_periplasmic_binding_protein
8 SGTGSVDYAK* 2/7 22.2% 170080470 glutamine_ABC_transporter_periplasmic_binding_protein
9 ADAVLHDTPNILYFIK* 3/29 9.4% 170080470 glutamine_ABC_transporter_periplasmic_binding_protein
10 QFPNIDNAYMELGTNR* 3/23 11.5% 170080470 glutamine_ABC_transporter_periplasmic_binding_protein
11 ATNLLYTR* 14/100 12.3% 170080471 Fe-binding_and_storage_protein
12 YAIVANDVR 6/87 6.5% 170080471 Fe-binding_and_storage_protein
13 YTSVDQLK* 2/9 18.2% 170080522 arginine_ABC_transporter_periplasmic-binding_protein
14 IEYVYQSAEQLR 3/40 7.0% 170080661 glucose-1-phosphatase/inositol_phosphatase
15 YQQEPGVSGPLK 1/44 2.2% 170080661 glucose-1-phosphatase/inositol_phosphatase
16 NVAKPLVSYIDK* 1/10 9.0% 170080661 glucose-1-phosphatase/inositol_phosphatase
17 TVTYDFER 1/21 4.5% 170080787 isocitrate_dehydrogenase,_specific_for_NADP+
18 YYQGTPSPVK 1/46 2.1% 170080787 isocitrate_dehydrogenase,_specific_for_NADP+
19 LKDGEDPGYTLYDLSER 1/87 1.1% 170081164 glutamate_decarboxylase_B,_PLP-dependent
20 YLSDHPK 1/63 1.6% 170081164 glutamate_decarboxylase_B,_PLP-dependent
21 TPEGYASGSLGPTTAGR 1/22 4.3% 170081276 fumarate_hydratase,_aerobic_class_I
22 DALAPHISAETIEYHYGK 1/33 2.9% 170081319 superoxide_dismutase,_Fe
23 HHQTYVTNLNNLIK* 6/21 22.2% 170081319 superoxide_dismutase,_Fe
24 EITSTDDFYR* 2/2 100% 170081336 pyruvate_kinase_I
25 LNFSHGDYAEHGQR 1/7 12.5% 170081336 pyruvate_kinase_I
26 AATYEQIK* 2/5 28.6% 170081435 glyceraldehyde-3-phosphate_dehydrogenase_A
27 LVSWYDNETGYSNK 1/35 2.8% 170081435 glyceraldehyde-3-phosphate_dehydrogenase_A
28 VSQASDSYYYR 2/55 3.5% 170081885 hypothetical_protein_ECDH10B_2427
29 HLVDLYQQQGVEK* 4/22 15.4% 170082073 transaldolase_A
30 TYQQQVAK 2/38 5.0% 170082161 serine_hydroxymethyltransferase
31 AGYAEDEVVAVSK 1/41 2.4% 170082188 pyruvate_formate_lyase_subunit
32 LGDIEYR 2/34 5.6% 170082188 pyruvate_formate_lyase_subunit
33 YPQLTIR 1/116 0.9% 170082188 pyruvate_formate_lyase_subunit
34 DAGYTAVISHR 2/124 1.6% 170082351 enolase
35 QLGVSYFLER 2/51 3.8% 170082411 5-keto_4-deoxyuronate_isomerase
36 HYHESR* 2/16 11.1% 170082464 glycine_decarboxylase,_PLP-dependent,_subunit
37 ANEAYLQGQLGNPK 1/35 2.8% 170082482 fructose-bisphosphate_aldolase,_class_II
38 DSVSYGVVK 1/19 5.0% 170082482 fructose-bisphosphate_aldolase,_class_II
39 YYDPR* 3/15 16.7% 170082482 fructose-bisphosphate_aldolase,_class_II
40 DSQEYVSK 2/28 6.7% 170082482 fructose-bisphosphate_aldolase,_class_II
41 SLYEADLVDEAKR* 4/35 10.3% 170082483 phosphoglycerate_kinase
42 EVHIEGYTPEDKK* 1/10 9.1% 170082514 YggX
43 IPLLIHQPSYNLLNR* 3/24 8.1% 170082547 aldo-keto_reductase
44 IYEAAR* 1/9 10.0% 170082555 alcohol_dehydrogenase,_NAD(P)-dependent_
45 DLADKYGK* 1/5 20.0% 170082556 2,5-diketo-D-gluconate_reductase_A
46 AYSEAVK 1/15 6.3% 170082572 quinol_monooxygenase
47 YTQLIER 2/22 8.3% 170082702 30S_ribosomal_subunit_protein_S15
48 LEQYFDR* 2/7 22.2% 170082737 ribosomal_hibernation_promoting_factor
49 YADEVVR 2/25 7.4% 170082825 50S_ribosomal_subunit_protein_L6_
50 KNPQKNLYTFK 3/96 3.0% 170083020 acid-resistance_protein
51 LVSSAGTGHFYTTTK 1/32 3.0% 170083144 50S_ribosomal_subunit_protein_L33
52 NIFGYQYTIPTHQGR 8/153 5.0% 170083210 tryptophanase/L-cysteine_desulfhydrase
53 YADMLAMSAK 2/100 2.0% 170083210 tryptophanase/L-cysteine_desulfhydrase
54 AYREEAIIK 1/124 0.8% 170083210 tryptophanase/L-cysteine_desulfhydrase
55 FAENAYFIK 6/135 4.3% 170083210 tryptophanase/L-cysteine_desulfhydrase
56 GDEAYSGSR 1/67 1.5% 170083210 tryptophanase/L-cysteine_desulfhydrase
57 SYYALAESVK* 9/75 10.7% 170083210 tryptophanase/L-cysteine_desulfhydrase
58 VLYGALPR* 2/11 15.4% 170083249 sugar_ABC_transporter_ATP-binding_protein
59 IAGDYIAK* 16/91 15.0% 170083251 sugar_ABC_transporter_periplasmic-binding_protein
60 YPVDLK* 17/35 32.7% 170083251 sugar_ABC_transporter_periplasmic-binding_protein
61 RPDYIK 1/26 3.7% 170083379 superoxide_dismutase,_Mn
62 EAGVYMR 1/42 2.3% 170083445 50S_ribosomal_subunit_protein_L10
63 EVVEQEYR* 4/21 16.0% 170083482 glucosephosphate_isomerase
64 VNYGVTVLPTFK* 2/5 28.6% 170083491 maltose_ABC_transporter_periplasmic_substrate-
binding_protein
65 YGYQKDQAEK* 9/75 10.7% 170083502 stress_response_protein
66 QQIEEATSDYDREK 17/251 6.3% 170083592 Cpn60_chaperonin_GroEL,_large_subunit_of_GroESL
67 AQIAHFFEHYK 1/30 3.2% 170083670 inorganic_pyrophosphatase
a

Hydroxylation sites are denoted in bold, and underline.

b

PTM stoichiometry (%) is the ratio of the number of MS/MS spectra for the peptide bearing the PB-DOPA residue divided by the number of MS/MS spectra for the peptides bearing the corresponding Tyr site, namely the unmodified peptides with or without missing cleavages (cutoff PTMap score > 0.5, FDR < 1%) and modified peptides (cutoff PTMap score > 1.0, FDR < 5%).

*

denotes PB-DOPA peptides with high stoichiometry (≥10%).