﻿<?xml version="1.0" encoding="utf-8"?>
<srm_settings format_version="20.1" software_version="Skyline (64-bit) 20.1.0.31 (f09d9bed5)">
  <settings_summary name="デフォルト">
    <peptide_settings>
      <enzyme name="Trypsin" cut="KR" no_cut="P" sense="C" />
      <digest_settings max_missed_cleavages="0" />
      <peptide_prediction use_measured_rts="true" measured_rt_window="10" use_spectral_library_drift_times="false" spectral_library_drift_times_peak_width_calc_type="resolving_power" spectral_library_drift_times_resolving_power="0" spectral_library_drift_times_width_at_dt_zero="0" spectral_library_drift_times_width_at_dt_max="0" />
      <peptide_filter start="0" min_length="8" max_length="25" auto_select="true">
        <peptide_exclusions>
          <exclusion name="Met" regex="[M]" />
        </peptide_exclusions>
      </peptide_filter>
      <peptide_libraries pick="library" />
      <peptide_modifications max_variable_mods="3" max_neutral_losses="1">
        <static_modifications>
          <static_modification name="Carbamidomethyl (C)" aminoacid="C" formula="H3C2NO" />
        </static_modifications>
        <heavy_modifications>
          <static_modification name="Label:13C(6)15N(2) (C-term K)" aminoacid="K" terminus="C" label_13C="true" label_15N="true" />
          <static_modification name="Label:13C(6)15N(4) (C-term R)" aminoacid="R" terminus="C" label_13C="true" label_15N="true" />
        </heavy_modifications>
      </peptide_modifications>
      <quantification weighting="none" fit="linear" normalization="none" units="ppm" />
    </peptide_settings>
    <transition_settings>
      <transition_prediction precursor_mass_type="Monoisotopic" fragment_mass_type="Monoisotopic" optimize_by="None">
        <predict_collision_energy name="Shimadzu QQQ" step_size="1" step_count="5">
          <regression_ce charge="2" slope="0.04" intercept="-0.5082" />
          <regression_ce charge="3" slope="0.037" intercept="-0.8368" />
        </predict_collision_energy>
      </transition_prediction>
      <transition_filter precursor_charges="2,3" product_charges="1,2" precursor_adducts="[M-3H],[M-2H],[M-H],[M-],[M+H],[M+],[M+2H],[M+3H]" product_adducts="[M-3],[M-2],[M-],[M+],[M+2],[M+3]" fragment_types="b,y" small_molecule_fragment_types="f" fragment_range_first="ion 2" fragment_range_last="last ion" precursor_mz_window="0" auto_select="true">
        <measured_ion name="N-terminal to Proline" cut="P" sense="N" min_length="3" />
      </transition_filter>
      <transition_libraries ion_match_tolerance="0.5" min_ion_count="0" ion_count="3" pick_from="all" />
      <transition_integration />
      <transition_instrument min_mz="50" max_mz="1500" mz_match_tolerance="0.055" />
    </transition_settings>
    <data_settings document_guid="15ef46d7-5804-4581-9e30-11e559aeaf1d" />
    <measured_results time_normal_area="true">
      <replicate name="Background_12C">
        <sample_file id="Background_12C_f0" file_path="D:\Dropbox\共有：プロトコル MS 8060（law data &amp; methods)\Kosaka\200315\04_NoDNA12C.lcd" sample_name="04_NoDNA12C" modified_time="2020-03-14T20:01:25">
          <instrument_info_list>
            <instrument_info>
              <model>Shimadzu instrument model</model>
              <ionsource>electrospray ionization</ionsource>
              <analyzer>quadrupole/quadrupole/quadrupole</analyzer>
              <detector>conversion dynode electron multiplier</detector>
            </instrument_info>
          </instrument_info_list>
        </sample_file>
      </replicate>
      <replicate name="Background_13C">
        <sample_file id="Background_13C_f0" file_path="D:\Dropbox\共有：プロトコル MS 8060（law data &amp; methods)\Kosaka\200315\05_NoDNA13C.lcd" sample_name="05_NoDNA13C" modified_time="2020-03-14T20:58:03">
          <instrument_info_list>
            <instrument_info>
              <model>Shimadzu instrument model</model>
              <ionsource>electrospray ionization</ionsource>
              <analyzer>quadrupole/quadrupole/quadrupole</analyzer>
              <detector>conversion dynode electron multiplier</detector>
            </instrument_info>
          </instrument_info_list>
        </sample_file>
      </replicate>
      <replicate name="LacZ_12C_N=1">
        <sample_file id="LacZ_12C_N-1_f0" file_path="D:\Dropbox\共有：プロトコル MS 8060（law data &amp; methods)\Kosaka\200315\06_LacZ#012C.lcd" sample_name="06_LacZ#012C" modified_time="2020-03-14T21:54:41">
          <instrument_info_list>
            <instrument_info>
              <model>Shimadzu instrument model</model>
              <ionsource>electrospray ionization</ionsource>
              <analyzer>quadrupole/quadrupole/quadrupole</analyzer>
              <detector>conversion dynode electron multiplier</detector>
            </instrument_info>
          </instrument_info_list>
        </sample_file>
      </replicate>
      <replicate name="LacZ_13C_N=1">
        <sample_file id="LacZ_13C_N-1_f0" file_path="D:\Dropbox\共有：プロトコル MS 8060（law data &amp; methods)\Kosaka\200315\07_LacZ#013C.lcd" sample_name="07_LacZ#013C" modified_time="2020-03-14T22:51:21">
          <instrument_info_list>
            <instrument_info>
              <model>Shimadzu instrument model</model>
              <ionsource>electrospray ionization</ionsource>
              <analyzer>quadrupole/quadrupole/quadrupole</analyzer>
              <detector>conversion dynode electron multiplier</detector>
            </instrument_info>
          </instrument_info_list>
        </sample_file>
      </replicate>
      <replicate name="LacZ_12C_N=2">
        <sample_file id="LacZ_12C_N-2_f0" file_path="D:\Dropbox\共有：プロトコル MS 8060（law data &amp; methods)\Kosaka\200315\08_LacZ#112C.lcd" sample_name="08_LacZ#112C" modified_time="2020-03-14T23:48:00">
          <instrument_info_list>
            <instrument_info>
              <model>Shimadzu instrument model</model>
              <ionsource>electrospray ionization</ionsource>
              <analyzer>quadrupole/quadrupole/quadrupole</analyzer>
              <detector>conversion dynode electron multiplier</detector>
            </instrument_info>
          </instrument_info_list>
        </sample_file>
      </replicate>
      <replicate name="LacZ_13C_N=2">
        <sample_file id="LacZ_13C_N-2_f0" file_path="D:\Dropbox\共有：プロトコル MS 8060（law data &amp; methods)\Kosaka\200315\09_LacZ#113C.lcd" sample_name="09_LacZ#113C" modified_time="2020-03-15T00:44:37">
          <instrument_info_list>
            <instrument_info>
              <model>Shimadzu instrument model</model>
              <ionsource>electrospray ionization</ionsource>
              <analyzer>quadrupole/quadrupole/quadrupole</analyzer>
              <detector>conversion dynode electron multiplier</detector>
            </instrument_info>
          </instrument_info_list>
        </sample_file>
      </replicate>
      <replicate name="LacZ_12C_N=3">
        <sample_file id="LacZ_12C_N-3_f0" file_path="D:\Dropbox\共有：プロトコル MS 8060（law data &amp; methods)\Kosaka\200315\10_LacZ#212C.lcd" sample_name="10_LacZ#212C" modified_time="2020-03-15T01:41:15">
          <instrument_info_list>
            <instrument_info>
              <model>Shimadzu instrument model</model>
              <ionsource>electrospray ionization</ionsource>
              <analyzer>quadrupole/quadrupole/quadrupole</analyzer>
              <detector>conversion dynode electron multiplier</detector>
            </instrument_info>
          </instrument_info_list>
        </sample_file>
      </replicate>
      <replicate name="LacZ_13C_N=3">
        <sample_file id="LacZ_13C_N-3_f0" file_path="D:\Dropbox\共有：プロトコル MS 8060（law data &amp; methods)\Kosaka\200315\11_LacZ#213c.lcd" sample_name="11_LacZ#213c" modified_time="2020-03-15T02:37:55">
          <instrument_info_list>
            <instrument_info>
              <model>Shimadzu instrument model</model>
              <ionsource>electrospray ionization</ionsource>
              <analyzer>quadrupole/quadrupole/quadrupole</analyzer>
              <detector>conversion dynode electron multiplier</detector>
            </instrument_info>
          </instrument_info_list>
        </sample_file>
      </replicate>
    </measured_results>
  </settings_summary>
  <protein name="LacZ" description="" websearch_status="X" auto_manage_children="false">
    <sequence>
        MTMITDSLAV VLQRRDWENP GVTQLNRLAA HPPFASWRNS EEARTDRPSQ
        QLRSLNGEWR FAWFPAPEAV PESWLECDLP EADTVVVPSN WQMHGYDAPI
        YTNVTYPITV NPPFVPTENP TGCYSLTFNV DESWLQEGQT RIIFDGVNSA
        FHLWCNGRWV GYGQDSRLPS EFDLSAFLRA GENRLAVMVL RWSDGSYLED
        QDMWRMSGIF RDVSLLHKPT TQISDFHVAT RFNDDFSRAV LEAEVQMCGE
        LRDYLRVTVS LWQGETQVAS GTAPFGGEII DERGGYADRV TLRLNVENPK
        LWSAEIPNLY RAVVELHTAD GTLIEAEACD VGFREVRIEN GLLLLNGKPL
        LIRGVNRHEH HPLHGQVMDE QTMVQDILLM KQNNFNAVRC SHYPNHPLWY
        TLCDRYGLYV VDEANIETHG MVPMNRLTDD PRWLPAMSER VTRMVQRDRN
        HPSVIIWSLG NESGHGANHD ALYRWIKSVD PSRPVQYEGG GADTTATDII
        CPMYARVDED QPFPAVPKWS IKKWLSLPGE TRPLILCEYA HAMGNSLGGF
        AKYWQAFRQY PRLQGGFVWD WVDQSLIKYD ENGNPWSAYG GDFGDTPNDR
        QFCMNGLVFA DRTPHPALTE AKHQQQFFQF RLSGQTIEVT SEYLFRHSDN
        ELLHWMVALD GKPLASGEVP LDVAPQGKQL IELPELPQPE SAGQLWLTVR
        VVQPNATAWS EAGHISAWQQ WRLAENLSVT LPAASHAIPH LTTSEMDFCI
        ELGNKRWQFN RQSGFLSQMW IGDKKQLLTP LRDQFTRAPL DNDIGVSEAT
        RIDPNAWVER WKAAGHYQAE AALLQCTADT LADAVLITTA HAWQHQGKTL
        FISRKTYRID GSGQMAITVD VEVASDTPHP ARIGLNCQLA QVAERVNWLG
        LGPQENYPDR LTAACFDRWD LPLSDMYTPY VFPSENGLRC GTRELNYGPH
        QWRGDFQFNI SRYSQQQLME TSHRHLLHAE EGTWLNIDGF HMGIGGDDSW
        SPSVSAEFQL SAGRYHYQLV WCQK</sequence>
    <peptide auto_manage_children="false" sequence="DWENPGVTQLNR" modified_sequence="DWENPGVTQLNR" start="15" end="27" prev_aa="R" next_aa="L" calc_neutral_pep_mass="1427.679341" num_missed_cleavages="0" avg_measured_retention_time="27.0721779">
      <implicit_modifications>
        <implicit_heavy_modifications>
          <implicit_modification index_aa="11" modification_name="Label:13C(6)15N(4) (C-term R)" mass_diff="+10" />
        </implicit_heavy_modifications>
      </implicit_modifications>
      <peptide_results>
        <peptide_result replicate="Background_12C" peak_count_ratio="1" retention_time="27.0740337" />
        <peptide_result replicate="Background_13C" peak_count_ratio="1" retention_time="27.0789833" />
        <peptide_result replicate="LacZ_12C_N=1" peak_count_ratio="1" retention_time="27.1383839" />
        <peptide_result replicate="LacZ_13C_N=1" peak_count_ratio="0.5" retention_time="27.3017349" />
        <peptide_result replicate="LacZ_12C_N=2" peak_count_ratio="1" retention_time="27.0740337" />
        <peptide_result replicate="LacZ_13C_N=2" peak_count_ratio="1" retention_time="26.9453335" />
        <peptide_result replicate="LacZ_12C_N=3" peak_count_ratio="1" retention_time="26.9700851" />
        <peptide_result replicate="LacZ_13C_N=3" peak_count_ratio="1" retention_time="26.9948349" />
      </peptide_results>
      <precursor charge="2" calc_neutral_mass="1427.679341" precursor_mz="714.846947" auto_manage_children="false" collision_energy="28.085678" modified_sequence="DWENPGVTQLNR">
        <precursor_results>
          <precursor_peak replicate="Background_12C" peak_count_ratio="1" retention_time="27.0443344" start_time="27.004734" end_time="27.2324333" fwhm="0.0698595047" area="9859.192" background="8493.452" height="1829.79565" truncated="0" identified="false" user_set="TRUE" />
          <precursor_peak replicate="Background_13C" peak_count_ratio="1" retention_time="27.0641346" start_time="26.8463345" end_time="27.1829338" fwhm="0.121076554" area="32505.4648" background="2789.44873" height="3720.25684" truncated="0" identified="false" user_set="TRUE" />
          <precursor_peak replicate="LacZ_12C_N=1" peak_count_ratio="1" retention_time="27.1334343" start_time="26.9354343" end_time="27.4205341" fwhm="0.1295214" area="1005548.94" background="61813.67" height="111642.875" truncated="0" identified="false" user_set="TRUE" />
          <precursor_peak replicate="LacZ_13C_N=1" peak_count_ratio="0" retention_time="27.3017349" start_time="27.1532345" end_time="27.5195332" fwhm="0.0867081" area="18051.7227" background="17488.002" height="2847.85254" truncated="0" identified="false" user_set="FALSE" />
          <precursor_peak replicate="LacZ_12C_N=2" peak_count_ratio="1" retention_time="27.1037331" start_time="26.9651337" end_time="27.2918339" fwhm="0.119357653" area="868639.9" background="31629.668" height="110659.242" truncated="0" identified="false" user_set="TRUE" />
          <precursor_peak replicate="LacZ_13C_N=2" peak_count_ratio="1" retention_time="26.9453335" start_time="26.7176342" end_time="27.1532345" fwhm="0.03875129" area="8908.172" background="69915.91" height="2537.32715" truncated="0" identified="false" user_set="FALSE" />
          <precursor_peak replicate="LacZ_12C_N=3" peak_count_ratio="1" retention_time="27.0245342" start_time="26.8859348" end_time="27.2819347" fwhm="0.120025858" area="1594662.75" background="62982.8359" height="190873.438" truncated="0" identified="false" user_set="TRUE" />
          <precursor_peak replicate="LacZ_13C_N=3" peak_count_ratio="1" retention_time="26.9849339" start_time="26.7671337" end_time="27.2324333" fwhm="0.07115954" area="12117.3779" background="77147.14" height="2347.5332" truncated="0" identified="false" user_set="FALSE" />
        </precursor_results>
        <transition fragment_type="b" fragment_ordinal="2" calc_neutral_mass="301.106256" product_charge="1" cleavage_aa="W" loss_neutral_mass="0">
          <precursor_mz>714.846947</precursor_mz>
          <product_mz>302.113532</product_mz>
          <collision_energy>28.085678</collision_energy>
          <transition_results>
            <transition_peak replicate="Background_12C" retention_time="27.0443344" start_time="27.004734" end_time="27.2324333" area="9859.192" background="8493.452" height="1829.79565" fwhm="0.0698595047" truncated="false" identified="false" rank="1" points_across="23" user_set="TRUE" />
            <transition_peak replicate="Background_13C" retention_time="27.0641346" start_time="26.8463345" end_time="27.1829338" area="32505.4648" background="2789.44873" height="3720.25684" fwhm="0.121076554" truncated="false" identified="false" rank="1" points_across="34" user_set="TRUE" />
            <transition_peak replicate="LacZ_12C_N=1" retention_time="27.1334343" start_time="26.9354343" end_time="27.4205341" area="1005548.94" background="61813.67" height="111642.875" fwhm="0.1295214" truncated="false" identified="false" rank="1" points_across="49" user_set="TRUE" />
            <transition_peak replicate="LacZ_13C_N=1" retention_time="27.3017349" start_time="27.1532345" end_time="27.5195332" area="18051.7227" background="17488.002" height="2847.85254" fwhm="0.0867081" truncated="false" identified="false" rank="1" points_across="37" user_set="FALSE" forced_integration="true" />
            <transition_peak replicate="LacZ_12C_N=2" retention_time="27.1037331" start_time="26.9651337" end_time="27.2918339" area="868639.9" background="31629.668" height="110659.242" fwhm="0.119357653" truncated="false" identified="false" rank="1" points_across="33" user_set="TRUE" />
            <transition_peak replicate="LacZ_13C_N=2" retention_time="26.9453335" start_time="26.7176342" end_time="27.1532345" area="8908.172" background="69915.91" height="2537.32715" fwhm="0.03875129" truncated="false" identified="false" rank="1" points_across="44" user_set="FALSE" />
            <transition_peak replicate="LacZ_12C_N=3" retention_time="27.0245342" start_time="26.8859348" end_time="27.2819347" area="1594662.75" background="62982.8359" height="190873.438" fwhm="0.120025858" truncated="false" identified="false" rank="1" points_across="40" user_set="TRUE" />
            <transition_peak replicate="LacZ_13C_N=3" retention_time="26.9849339" start_time="26.7671337" end_time="27.2324333" area="12117.3779" background="77147.14" height="2347.5332" fwhm="0.07115954" truncated="false" identified="false" rank="1" points_across="47" user_set="FALSE" />
          </transition_results>
        </transition>
      </precursor>
      <precursor charge="2" isotope_label="heavy" calc_neutral_mass="1437.68761" precursor_mz="719.851081" auto_manage_children="false" collision_energy="28.085678" modified_sequence="DWENPGVTQLNR[+10.0]">
        <precursor_results>
          <precursor_peak replicate="Background_12C" peak_count_ratio="1" retention_time="27.1037331" start_time="27.004734" end_time="27.2324333" fwhm="0.1691234" area="19173.1523" background="1041.22961" height="2163.78613" truncated="0" identified="false" user_set="TRUE" />
          <precursor_peak replicate="Background_13C" peak_count_ratio="1" retention_time="27.0938339" start_time="26.8463345" end_time="27.1829338" fwhm="0.0918347" area="13194.0684" background="17563.1348" height="2406.37939" truncated="0" identified="false" user_set="TRUE" />
          <precursor_peak replicate="LacZ_12C_N=1" peak_count_ratio="1" retention_time="27.1433334" start_time="26.9354343" end_time="27.4205341" area="57967.95" background="27036.6758" height="4605.17725" truncated="0" identified="false" user_set="TRUE" />
          <precursor_peak replicate="LacZ_13C_N=1" peak_count_ratio="1" retention_time="27.3017349" start_time="27.1532345" end_time="27.5195332" fwhm="0.1162877" area="628884.7" background="21421.1563" height="74390.84" truncated="0" identified="false" user_set="FALSE" />
          <precursor_peak replicate="LacZ_12C_N=2" peak_count_ratio="1" retention_time="27.0443344" start_time="26.9651337" end_time="27.2918339" fwhm="0.1191407" area="253850.766" background="60669.1055" height="33087.3" truncated="0" identified="false" user_set="TRUE" />
          <precursor_peak replicate="LacZ_13C_N=2" peak_count_ratio="1" retention_time="26.9453335" start_time="26.7176342" end_time="27.1532345" fwhm="0.128925651" area="1381569" background="45573.3438" height="142757.25" truncated="0" identified="false" user_set="FALSE" />
          <precursor_peak replicate="LacZ_12C_N=3" peak_count_ratio="1" retention_time="26.9156342" start_time="26.8859348" end_time="27.2819347" area="137803.3" background="64280.7344" height="19983.15" truncated="0" identified="false" user_set="TRUE" />
          <precursor_peak replicate="LacZ_13C_N=3" peak_count_ratio="1" retention_time="27.004734" start_time="26.7671337" end_time="27.2324333" fwhm="0.136413753" area="1947871" background="59307.44" height="205409.953" truncated="0" identified="false" user_set="FALSE" />
        </precursor_results>
        <transition fragment_type="b" fragment_ordinal="2" calc_neutral_mass="301.106256" product_charge="1" cleavage_aa="W" loss_neutral_mass="0">
          <precursor_mz>719.851081</precursor_mz>
          <product_mz>302.113532</product_mz>
          <collision_energy>28.085678</collision_energy>
          <transition_results>
            <transition_peak replicate="Background_12C" retention_time="27.1037331" start_time="27.004734" end_time="27.2324333" area="19173.1523" background="1041.22961" height="2163.78613" fwhm="0.1691234" truncated="false" identified="false" rank="1" points_across="23" user_set="TRUE" />
            <transition_peak replicate="Background_13C" retention_time="27.0938339" start_time="26.8463345" end_time="27.1829338" area="13194.0684" background="17563.1348" height="2406.37939" fwhm="0.0918347" truncated="false" identified="false" rank="1" points_across="34" user_set="TRUE" />
            <transition_peak replicate="LacZ_12C_N=1" retention_time="27.1433334" start_time="26.9354343" end_time="27.4205341" area="57967.95" background="27036.6758" height="4605.17725" fwhm="0.230475217" fwhm_degenerate="true" truncated="false" identified="false" rank="1" points_across="49" user_set="TRUE" />
            <transition_peak replicate="LacZ_13C_N=1" retention_time="27.3017349" start_time="27.1532345" end_time="27.5195332" area="628884.7" background="21421.1563" height="74390.84" fwhm="0.1162877" truncated="false" identified="false" rank="1" points_across="37" user_set="FALSE" />
            <transition_peak replicate="LacZ_12C_N=2" retention_time="27.0443344" start_time="26.9651337" end_time="27.2918339" area="253850.766" background="60669.1055" height="33087.3" fwhm="0.1191407" truncated="false" identified="false" rank="1" points_across="33" user_set="TRUE" />
            <transition_peak replicate="LacZ_13C_N=2" retention_time="26.9453335" start_time="26.7176342" end_time="27.1532345" area="1381569" background="45573.3438" height="142757.25" fwhm="0.128925651" truncated="false" identified="false" rank="1" points_across="44" user_set="FALSE" />
            <transition_peak replicate="LacZ_12C_N=3" retention_time="26.9156342" start_time="26.8859348" end_time="27.2819347" area="137803.3" background="64280.7344" height="19983.15" fwhm="0.1109454" fwhm_degenerate="true" truncated="false" identified="false" rank="1" points_across="40" user_set="TRUE" />
            <transition_peak replicate="LacZ_13C_N=3" retention_time="27.004734" start_time="26.7671337" end_time="27.2324333" area="1947871" background="59307.44" height="205409.953" fwhm="0.136413753" truncated="false" identified="false" rank="1" points_across="47" user_set="FALSE" />
          </transition_results>
        </transition>
      </precursor>
    </peptide>
    <peptide auto_manage_children="false" sequence="LAAHPPFASWR" modified_sequence="LAAHPPFASWR" start="27" end="38" prev_aa="R" next_aa="N" calc_neutral_pep_mass="1251.651276" num_missed_cleavages="0" avg_measured_retention_time="28.8967133">
      <implicit_modifications>
        <implicit_heavy_modifications>
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