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<?xml version="1.0" encoding="UTF-8"?>
<protein_summary xmlns="http://regis-web.systemsbiology.net/protXML" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://sashimi.sourceforge.net/schema_revision/protXML/protXML_v3.xsd" summary_xml="/nfs/wsi/bs/share/usr/bertsch/SchlueterDaten/080625/080625_Grad_5mg/IDs/080625_GRAD_66_OMSSA.protXML">
<protein_summary_header reference_database="/share/usr/bertsch/sequences/uniprot_sprot_human_55.4.fasta" residue_substitution_list="I -> L" source_files="/nfs/wsi/bs/share/usr/bertsch/SchlueterDaten/080625/080625_Grad_5mg/IDs/080625_GRAD_66_OMSSA.pepXML" source_files_alt="/nfs/wsi/bs/share/usr/bertsch/SchlueterDaten/080625/080625_Grad_5mg/IDs/080625_GRAD_66_OMSSA.pepXML" min_peptide_probability="0.20" min_peptide_weight="0.50" num_predicted_correct_prots="4.1" num_input_1_spectra="0" num_input_2_spectra="19" num_input_3_spectra="58" num_input_4_spectra="0" num_input_5_spectra="0" initial_min_peptide_prob="0.05" total_no_spectrum_ids="14.4" sample_enzyme="trypsin">
<program_details analysis="proteinprophet" time="Thu Sep 4 11:14:47 200" version=" Insilicos_LabKey_C++ (TPP v3.5 SQUALL (pre-release) rev.4, Build 200806091442 (linux))">
<proteinprophet_details occam_flag="Y" groups_flag="Y" degen_flag="Y" nsp_flag="Y" initial_peptide_wt_iters="1" nsp_distribution_iters="3" final_peptide_wt_iters="0" run_options="NOPLOT MINPROB0.05 EXCELPEPS EXCEL0.05">
<nsp_information neighboring_bin_smoothing="Y">
<nsp_distribution bin_no="0" nsp_lower_bound_incl="0.00" nsp_upper_bound_excl="0.10" pos_freq="0.181" neg_freq="0.413" pos_to_neg_ratio="0.44"/>
<nsp_distribution bin_no="1" nsp_lower_bound_incl="0.10" nsp_upper_bound_excl="0.25" pos_freq="0.093" neg_freq="0.141" pos_to_neg_ratio="0.66"/>
<nsp_distribution bin_no="2" nsp_lower_bound_incl="0.25" nsp_upper_bound_excl="0.50" pos_freq="0.077" neg_freq="0.070" pos_to_neg_ratio="1.10"/>
<nsp_distribution bin_no="3" nsp_lower_bound_incl="0.50" nsp_upper_bound_excl="1.00" pos_freq="0.110" neg_freq="0.073" pos_to_neg_ratio="1.50"/>
<nsp_distribution bin_no="4" nsp_lower_bound_incl="1.00" nsp_upper_bound_excl="2.00" pos_freq="0.147" neg_freq="0.076" pos_to_neg_ratio="1.94"/>
<nsp_distribution bin_no="5" nsp_lower_bound_incl="2.00" nsp_upper_bound_excl="5.00" pos_freq="0.218" neg_freq="0.084" pos_to_neg_ratio="2.58"/>
<nsp_distribution bin_no="6" nsp_lower_bound_incl="5.00" nsp_upper_bound_excl="15.00" pos_freq="0.104" neg_freq="0.073" pos_to_neg_ratio="1.43" alt_pos_to_neg_ratio="2.58"/>
<nsp_distribution bin_no="7" nsp_lower_bound_incl="15.00" nsp_upper_bound_excl="inf" pos_freq="0.069" neg_freq="0.069" pos_to_neg_ratio="1.00" alt_pos_to_neg_ratio="2.58"/>
</nsp_information>
<ni_information>
</ni_information>
<protein_summary_data_filter min_probability="0.00" sensitivity="1.000" false_positive_error_rate="0.939" predicted_num_correct="4" predicted_num_incorrect="63" />
<protein_summary_data_filter min_probability="0.10" sensitivity="1.000" false_positive_error_rate="0.421" predicted_num_correct="4" predicted_num_incorrect="3" />
<protein_summary_data_filter min_probability="0.20" sensitivity="1.000" false_positive_error_rate="0.421" predicted_num_correct="4" predicted_num_incorrect="3" />
<protein_summary_data_filter min_probability="0.30" sensitivity="0.834" false_positive_error_rate="0.155" predicted_num_correct="3" predicted_num_incorrect="1" />
<protein_summary_data_filter min_probability="0.40" sensitivity="0.834" false_positive_error_rate="0.155" predicted_num_correct="3" predicted_num_incorrect="1" />
<protein_summary_data_filter min_probability="0.50" sensitivity="0.715" false_positive_error_rate="0.033" predicted_num_correct="3" predicted_num_incorrect="0" />
<protein_summary_data_filter min_probability="0.60" sensitivity="0.715" false_positive_error_rate="0.033" predicted_num_correct="3" predicted_num_incorrect="0" />
<protein_summary_data_filter min_probability="0.70" sensitivity="0.715" false_positive_error_rate="0.033" predicted_num_correct="3" predicted_num_incorrect="0" />
<protein_summary_data_filter min_probability="0.80" sensitivity="0.715" false_positive_error_rate="0.033" predicted_num_correct="3" predicted_num_incorrect="0" />
<protein_summary_data_filter min_probability="0.90" sensitivity="0.715" false_positive_error_rate="0.033" predicted_num_correct="3" predicted_num_incorrect="0" />
<protein_summary_data_filter min_probability="0.95" sensitivity="0.492" false_positive_error_rate="0.002" predicted_num_correct="2" predicted_num_incorrect="0" />
<protein_summary_data_filter min_probability="0.96" sensitivity="0.492" false_positive_error_rate="0.002" predicted_num_correct="2" predicted_num_incorrect="0" />
<protein_summary_data_filter min_probability="0.97" sensitivity="0.492" false_positive_error_rate="0.002" predicted_num_correct="2" predicted_num_incorrect="0" />
<protein_summary_data_filter min_probability="0.98" sensitivity="0.492" false_positive_error_rate="0.002" predicted_num_correct="2" predicted_num_incorrect="0" />
<protein_summary_data_filter min_probability="0.99" sensitivity="0.492" false_positive_error_rate="0.002" predicted_num_correct="2" predicted_num_incorrect="0" />
<protein_summary_data_filter min_probability="1.00" sensitivity="0.000" false_positive_error_rate="0.000" predicted_num_correct="0" predicted_num_incorrect="0" />
</proteinprophet_details>
</program_details>
</protein_summary_header>
<dataset_derivation generation_no="0">
</dataset_derivation>
<protein_group group_number="1" probability="0.9990">
<protein protein_name="P02787|TRFE_HUMAN" n_indistinguishable_proteins="1" probability="0.9990" percent_coverage="8.6" unique_stripped_peptides="CSTSSLLEACTFR+IMNGEADAMSLDGGFVYIAGK+MYLGYEYVTAIR+TAGWNIPMGLLYNK" group_sibling_id="a" total_number_peptides="6" pct_spectrum_ids="23.51">
<annotation protein_description="Serotransferrin precursor - Homo sapiens (Human)"/>
<peptide peptide_sequence="MYLGYEYVTAIR" charge="2" initial_probability="0.7097" nsp_adjusted_probability="0.8633" weight="1.00" is_nondegenerate_evidence="Y" n_enzymatic_termini="2" n_sibling_peptides="2.07" n_sibling_peptides_bin="5" n_instances="2" exp_tot_instances="1.33" is_contributing_evidence="Y" calc_neutral_pep_mass="1478.7100">
</peptide>
<peptide peptide_sequence="CSTSSLLEACTFR" charge="2" initial_probability="0.6477" nsp_adjusted_probability="0.8261" weight="1.00" is_nondegenerate_evidence="Y" n_enzymatic_termini="2" n_sibling_peptides="2.13" n_sibling_peptides_bin="5" n_instances="1" exp_tot_instances="0.65" is_contributing_evidence="Y" calc_neutral_pep_mass="1531.7100">
</peptide>
<peptide peptide_sequence="TAGWNIPMGLLYNK" charge="2" initial_probability="0.5647" nsp_adjusted_probability="0.7701" weight="1.00" is_nondegenerate_evidence="Y" n_enzymatic_termini="2" n_sibling_peptides="2.21" n_sibling_peptides_bin="5" n_instances="1" exp_tot_instances="0.56" is_contributing_evidence="Y" calc_neutral_pep_mass="1593.8400">
<modification_info modified_peptide="TAGWNIP[147]MGLLYNK">
<mod_aminoacid_mass position="7" mass="147.035000"/>
</modification_info>
</peptide>
<peptide peptide_sequence="IMNGEADAMSLDGGFVYIAGK" charge="2" initial_probability="0.4581" nsp_adjusted_probability="0.6859" weight="1.00" is_nondegenerate_evidence="Y" n_enzymatic_termini="2" n_sibling_peptides="2.32" n_sibling_peptides_bin="5" n_instances="1" exp_tot_instances="0.46" is_contributing_evidence="Y" calc_neutral_pep_mass="2159.4400">
</peptide>
<peptide peptide_sequence="TAGWNIPMGLLYNK" charge="2" initial_probability="0.3973" nsp_adjusted_probability="0.3973" weight="1.00" is_nondegenerate_evidence="Y" n_enzymatic_termini="2" n_sibling_peptides="2.38" n_sibling_peptides_bin="5" n_instances="1" exp_tot_instances="0.40" is_contributing_evidence="Y" calc_neutral_pep_mass="1577.8400">
</peptide>
</protein>
</protein_group>
<protein_group group_number="2" probability="0.9970">
<protein protein_name="P02768|ALBU_HUMAN" n_indistinguishable_proteins="1" probability="0.9970" percent_coverage="10.0" unique_stripped_peptides="AEFAEVSKLVTDLTK+AVMDDFAAFVEK+RHPDYSVVLLLR+RMPCAEDYLSVVLNQLCVLHEK" group_sibling_id="a" total_number_peptides="5" pct_spectrum_ids="17.70">
<annotation protein_description="Serum albumin precursor - Homo sapiens (Human)"/>
<peptide peptide_sequence="AVMDDFAAFVEK" charge="2" initial_probability="0.6440" nsp_adjusted_probability="0.7780" weight="1.00" is_nondegenerate_evidence="Y" n_enzymatic_termini="2" n_sibling_peptides="1.91" n_sibling_peptides_bin="4" n_instances="1" exp_tot_instances="0.64" is_contributing_evidence="Y" calc_neutral_pep_mass="1342.5200">
</peptide>
<peptide peptide_sequence="RHPDYSVVLLLR" charge="3" initial_probability="0.6119" nsp_adjusted_probability="0.7534" weight="1.00" is_nondegenerate_evidence="Y" n_enzymatic_termini="2" n_sibling_peptides="1.94" n_sibling_peptides_bin="4" n_instances="1" exp_tot_instances="0.61" is_contributing_evidence="Y" calc_neutral_pep_mass="1467.7100">
</peptide>
<peptide peptide_sequence="AEFAEVSKLVTDLTK" charge="3" initial_probability="0.5055" nsp_adjusted_probability="0.7254" peptide_group_designator="a" weight="1.00" is_nondegenerate_evidence="Y" n_enzymatic_termini="2" n_sibling_peptides="2.05" n_sibling_peptides_bin="5" n_instances="1" exp_tot_instances="0.51" is_contributing_evidence="Y" calc_neutral_pep_mass="1650.8700">
</peptide>
<peptide peptide_sequence="AEFAEVSKLVTDLTK" charge="2" initial_probability="0.4919" nsp_adjusted_probability="0.7144" peptide_group_designator="a" weight="1.00" is_nondegenerate_evidence="Y" n_enzymatic_termini="2" n_sibling_peptides="2.06" n_sibling_peptides_bin="5" n_instances="1" exp_tot_instances="0.49" is_contributing_evidence="Y" calc_neutral_pep_mass="1650.8700">
</peptide>
<peptide peptide_sequence="RMPCAEDYLSVVLNQLCVLHEK" charge="3" initial_probability="0.3025" nsp_adjusted_probability="0.3025" weight="1.00" is_nondegenerate_evidence="Y" n_enzymatic_termini="2" n_sibling_peptides="2.25" n_sibling_peptides_bin="5" n_instances="1" exp_tot_instances="0.30" is_contributing_evidence="Y" calc_neutral_pep_mass="2675.1100">
</peptide>
</protein>
</protein_group>
<protein_group group_number="3" probability="0.9051">
<protein protein_name="P01009|A1AT_HUMAN" n_indistinguishable_proteins="1" probability="0.9051" percent_coverage="5.7" unique_stripped_peptides="ITPNLAEFAFSLYR+LSITGTYDLK" group_sibling_id="a" total_number_peptides="2" pct_spectrum_ids="8.22">
<annotation protein_description="Alpha-1-antitrypsin precursor - Homo sapiens (Human)"/>
<peptide peptide_sequence="ITPNLAEFAFSLYR" charge="2" initial_probability="0.6666" nsp_adjusted_probability="0.7504" weight="1.00" is_nondegenerate_evidence="Y" n_enzymatic_termini="2" n_sibling_peptides="0.52" n_sibling_peptides_bin="3" n_instances="1" exp_tot_instances="0.67" is_contributing_evidence="Y" calc_neutral_pep_mass="1641.8600">
</peptide>
<peptide peptide_sequence="LSITGTYDLK" charge="2" initial_probability="0.5203" nsp_adjusted_probability="0.6199" weight="1.00" is_nondegenerate_evidence="Y" n_enzymatic_termini="2" n_sibling_peptides="0.67" n_sibling_peptides_bin="3" n_instances="1" exp_tot_instances="0.52" is_contributing_evidence="Y" calc_neutral_pep_mass="1110.2600">
</peptide>
</protein>
</protein_group>
<protein_group group_number="4" probability="0.4788">
<protein protein_name="P01876|IGHA1_HUMAN" n_indistinguishable_proteins="2" probability="0.4788" percent_coverage="5.0" unique_stripped_peptides="QEPSQGTTTFAVTSILR" group_sibling_id="a" total_number_peptides="1" pct_spectrum_ids="4.69">
<annotation protein_description="Ig alpha-1 chain C region - Homo sapiens (Human)"/>
<indistinguishable_protein protein_name="P01877|IGHA2_HUMAN">
<annotation protein_description="Ig alpha-2 chain C region - Homo sapiens (Human)"/>
</indistinguishable_protein>
<peptide peptide_sequence="QEPSQGTTTFAVTSILR" charge="2" initial_probability="0.6765" nsp_adjusted_probability="0.4788" weight="1.00" is_nondegenerate_evidence="Y" n_enzymatic_termini="2" n_sibling_peptides="0.00" n_sibling_peptides_bin="0" n_instances="1" exp_tot_instances="0.68" is_contributing_evidence="Y" calc_neutral_pep_mass="1836.0100">
</peptide>
</protein>
</protein_group>
<protein_group group_number="5" probability="0.2663">
<protein protein_name="P00738|HPT_HUMAN" n_indistinguishable_proteins="2" probability="0.2663" percent_coverage="3.4" unique_stripped_peptides="SCAVAEYGVYVK" group_sibling_id="a" total_number_peptides="1" pct_spectrum_ids="3.13">
<annotation protein_description="Haptoglobin precursor [Contains: Haptoglobin alpha chain; Haptoglobin beta chain] - Homo sapiens (Human)"/>
<indistinguishable_protein protein_name="P00739|HPTR_HUMAN">
<annotation protein_description="Haptoglobin-related protein precursor - Homo sapiens (Human)"/>
</indistinguishable_protein>
<peptide peptide_sequence="SCAVAEYGVYVK" charge="2" initial_probability="0.4524" nsp_adjusted_probability="0.2663" weight="1.00" is_nondegenerate_evidence="Y" n_enzymatic_termini="2" n_sibling_peptides="0.00" n_sibling_peptides_bin="0" n_instances="1" exp_tot_instances="0.45" is_contributing_evidence="Y" calc_neutral_pep_mass="1346.5000">
<modification_info modified_peptide="S[161]CAVAEYGVYVK">
<mod_aminoacid_mass position="1" mass="161.015000"/>
</modification_info>
</peptide>
</protein>
</protein_group>
<protein_group group_number="6" probability="0.2059">
<protein protein_name="Q96PD5|PGRP2_HUMAN" n_indistinguishable_proteins="1" probability="0.2059" percent_coverage="2.6" unique_stripped_peptides="GWHWVGAHTLGHNSR" group_sibling_id="a" total_number_peptides="1" pct_spectrum_ids="2.57">
<annotation protein_description="N-acetylmuramoyl-L-alanine amidase precursor - Homo sapiens (Human)"/>
<peptide peptide_sequence="GWHWVGAHTLGHNSR" charge="3" initial_probability="0.3712" nsp_adjusted_probability="0.2059" weight="1.00" is_nondegenerate_evidence="Y" n_enzymatic_termini="2" n_sibling_peptides="0.00" n_sibling_peptides_bin="0" n_instances="1" exp_tot_instances="0.37" is_contributing_evidence="Y" calc_neutral_pep_mass="1714.8400">
</peptide>
</protein>
</protein_group>
<protein_group group_number="7" probability="0.2026">
<protein protein_name="P04217|A1BG_HUMAN" n_indistinguishable_proteins="1" probability="0.2026" percent_coverage="2.0" unique_stripped_peptides="LETPDFQLFK" group_sibling_id="a" total_number_peptides="1" pct_spectrum_ids="2.54">
<annotation protein_description="Alpha-1B-glycoprotein precursor - Homo sapiens (Human)"/>
<peptide peptide_sequence="LETPDFQLFK" charge="2" initial_probability="0.3665" nsp_adjusted_probability="0.2026" weight="1.00" is_nondegenerate_evidence="Y" n_enzymatic_termini="2" n_sibling_peptides="0.00" n_sibling_peptides_bin="0" n_instances="1" exp_tot_instances="0.37" is_contributing_evidence="Y" calc_neutral_pep_mass="1237.4000">
</peptide>
</protein>
</protein_group>
</protein_summary>
|
