/
Enzymes.xml
executable file
·336 lines (336 loc) · 17.8 KB
/
Enzymes.xml
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<?xml version="1.0" encoding="ISO-8859-1"?>
<PARAMETERS>
<NODE name="Enzymes">
<NODE name="Trypsin">
<ITEM name="Name" value="Trypsin" type="string" />
<ITEM name="RegEx" value="(?<=[KRX])(?!P)" type="string" />
<ITEM name="RegExDescription" value="Trypsin cleaves following a K or R residue unless the next residue is P." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="MS:1001251" type="string" />
<ITEM name="XTandemID" value="[KR]|{P}" type="string" />
<ITEM name="OMSSAID" value="0" type="int" />
<ITEM name="CometID" value="1" type="int" />
</NODE>
<NODE name="Arg-C">
<ITEM name="Name" value="Arg-C" type="string" />
<ITEM name="RegEx" value="(?<=[RX])(?!P)" type="string" />
<ITEM name="RegExDescription" value="Arg-C cleaves following R residue unless the next residue is P." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="MS:1001303" type="string" />
<ITEM name="XTandemID" value="[R]|{P}" type="string" />
<ITEM name="OMSSAID" value="1" type="int" />
<ITEM name="CometID" value="5" type="int" />
<NODE name="Synonyms">
<ITEM name="Clostripain" value="Clostripain" type="string" />
<ITEM name="argc" value="argc" type="string" />
<ITEM name="arg_c" value="arg_c" type="string" />
</NODE>
</NODE>
<NODE name="Arg-C/P">
<ITEM name="Name" value="Arg-C/P" type="string" />
<ITEM name="RegEx" value="(?<=[RX])" type="string" />
<ITEM name="RegExDescription" value="Arg-C/P cleaves after R residues." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="XTandemID" value="[R]|[X]" type="string" />
<ITEM name="CometID" value="12" type="int" />
<ITEM name="MSGFID" value="6" type="int" />
</NODE>
<NODE name="Asp-N">
<ITEM name="Name" value="Asp-N" type="string" />
<ITEM name="RegEx" value="(?=[DBX])" type="string" />
<ITEM name="RegExDescription" value="Asp-N cleaves before D(or B)." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="MS:1001304" type="string" />
<ITEM name="XTandemID" value="[X]|[BD]" type="string" />
<ITEM name="OMSSAID" value="12" type="int" />
<ITEM name="CometID" value="6" type="int" />
<NODE name="Synonyms">
<ITEM name="asp_n" value="asp_n" type="string" />
</NODE>
</NODE>
<NODE name="Asp-N/B">
<ITEM name="Name" value="Asp-N/B" type="string" />
<ITEM name="RegEx" value="(?=[DX])" type="string" />
<ITEM name="RegExDescription" value="Asp-N/B cleaves before D(while B is ignored)." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="XTandemID" value="[X]|[D]" type="string" />
<ITEM name="MSGFID" value="7" type="int" />
</NODE>
<NODE name="Asp-N_ambic">
<ITEM name="Name" value="Asp-N_ambic" type="string" />
<ITEM name="RegEx" value="(?=[DBEZX])" type="string" />
<ITEM name="RegExDescription" value="Asp-N Ammonium bicarbonate cleaves before D(or B) or E(or Z)." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="MS:1001305" type="string" />
<ITEM name="XTandemID" value="[X]|[DE]" type="string" />
<ITEM name="OMSSAID" value="19" type="int" />
</NODE>
<NODE name="Chymotrypsin">
<ITEM name="Name" value="Chymotrypsin" type="string" />
<ITEM name="RegEx" value="(?<=[FYWLJX])(?!P)" type="string" />
<ITEM name="RegExDescription" value="Chymotrypsin cleaves following F, Y, W or L(or J) residue unless the next residue is P." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="MS:1001306" type="string" />
<ITEM name="XTandemID" value="[FYWL]|{P}" type="string" />
<ITEM name="OMSSAID" value="3" type="int" />
<ITEM name="CometID" value="10" type="int" />
</NODE>
<NODE name="Chymotrypsin/P">
<ITEM name="Name" value="Chymotrypsin/P" type="string" />
<ITEM name="RegEx" value="(?<=[FYWLJX])" type="string" />
<ITEM name="RegExDescription" value="Chymotrypsin cleaves following F, Y, W or L(or J) residue." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="XTandemID" value="[FYWL]|[X]" type="string" />
<ITEM name="MSGFID" value="2" type="int" />
</NODE>
<NODE name="CNBr">
<ITEM name="Name" value="CNBr" type="string" />
<ITEM name="RegEx" value="(?<=[MX])" type="string" />
<ITEM name="RegExDescription" value="CNBr cleaves following M." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="MS:1001307" type="string" />
<ITEM name="XTandemID" value="[M]|[X]" type="string" />
<ITEM name="OMSSAID" value="2" type="int" />
<ITEM name="CometID" value="7" type="int" />
</NODE>
<NODE name="Formic_acid">
<ITEM name="Name" value="Formic_acid" type="string" />
<ITEM name="RegEx" value="(?<=[DBX])(?=[DBX])" type="string" />
<ITEM name="RegExDescription" value="Formic_acid cuts after D(or B) and next residue is D (or B)." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="MS:1001308" type="string" />
<ITEM name="XTandemID" value="[D]|[D]" type="string" />
<ITEM name="OMSSAID" value="4" type="int" />
</NODE>
<NODE name="Lys-C">
<ITEM name="Name" value="Lys-C" type="string" />
<ITEM name="RegEx" value="(?<=[KX])(?!P)" type="string" />
<ITEM name="RegExDescription" value="Lys-C cuts after K if not followed by P." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="MS:1001309" type="string" />
<ITEM name="XTandemID" value="[K]|{P}" type="string" />
<ITEM name="OMSSAID" value="5" type="int" />
<ITEM name="CometID" value="3" type="int" />
<NODE name="Synonyms">
<ITEM name="lys_c" value="lys_c" type="string" />
</NODE>
</NODE>
<NODE name="Lys-N">
<ITEM name="Name" value="Lys-N" type="string" />
<ITEM name="RegEx" value="(?=[KX])" type="string" />
<ITEM name="RegExDescription" value="Lys-N cuts before K." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="" type="string" />
<ITEM name="XTandemID" value="[X]|[K]" type="string" />
<ITEM name="CometID" value="4" type="int" />
<ITEM name="MSGFID" value="4" type="int" />
<NODE name="Synonyms">
<ITEM name="lys_n" value="lys_n" type="string" />
</NODE>
</NODE>
<NODE name="Lys-C/P">
<ITEM name="Name" value="Lys-C/P" type="string" />
<ITEM name="RegEx" value="(?<=[KX])" type="string" />
<ITEM name="RegExDescription" value="Lys-C/P cuts after K." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="MS:1001310" type="string" />
<ITEM name="XTandemID" value="[K]|[X]" type="string" />
<ITEM name="OMSSAID" value="6" type="int" />
<ITEM name="MSGFID" value="3" type="int" />
</NODE>
<NODE name="PepsinA">
<ITEM name="Name" value="PepsinA" type="string" />
<ITEM name="RegEx" value="(?<=[FLJX])" type="string" />
<ITEM name="RegExDescription" value="PepsinA cuts after F or L(or J)." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="MS:1001311" type="string" />
<ITEM name="XTandemID" value="[FL]|[X]" type="string" />
<ITEM name="OMSSAID" value="7" type="int" />
<ITEM name="CometID" value="9" type="int" />
</NODE>
<NODE name="TrypChymo">
<ITEM name="Name" value="TrypChymo" type="string" />
<ITEM name="RegEx" value="(?<=[FYWLJKRX])(?!P)" type="string" />
<ITEM name="RegExDescription" value="TrypChymo cuts after F, Y, W, L(or J), K or R if not followed by P." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="MS:1001312" type="string" />
<ITEM name="XTandemID" value="[FYWLKR]|{P}" type="string" />
<ITEM name="OMSSAID" value="9" type="int" />
</NODE>
<NODE name="Trypsin/P">
<ITEM name="Name" value="Trypsin/P" type="string" />
<ITEM name="RegEx" value="(?<=[KRX])" type="string" />
<ITEM name="RegExDescription" value="Trypsin/P cuts after K or R." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="MS:1001313" type="string" />
<ITEM name="XTandemID" value="[KR]|[X]" type="string" />
<ITEM name="OMSSAID" value="10" type="int" />
<ITEM name="CometID" value="2" type="int" />
<ITEM name="MSGFID" value="1" type="int" />
</NODE>
<NODE name="V8-DE">
<ITEM name="Name" value="V8-DE" type="string" />
<ITEM name="RegEx" value="(?<=[DBEZX])(?!P)" type="string" />
<ITEM name="RegExDescription" value="V8-DE cuts after D(or B) or E(or Z) if not followed by P." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="MS:1001314" type="string" />
<ITEM name="XTandemID" value="[BDEZ]|{P}" type="string" />
</NODE>
<NODE name="V8-E">
<ITEM name="Name" value="V8-E" type="string" />
<ITEM name="RegEx" value="(?<=[EZX])(?!P)" type="string" />
<ITEM name="RegExDescription" value="V8-E cuts after E(or Z) if not followed by P." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="MS:1001315" type="string" />
<ITEM name="XTandemID" value="[EZ]|{P}" type="string" />
</NODE>
<NODE name="leukocyte elastase">
<ITEM name="Name" value="leukocyte elastase" type="string" />
<ITEM name="RegEx" value="(?<=[ALIJVX])(?!P)" type="string" />
<ITEM name="RegExDescription" value="leukocyte elastase cuts after A or L or I(or J) or V if not followed by P." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="MS:1001915" type="string" />
<ITEM name="XTandemID" value="[ALIV]|{P}" type="string" />
</NODE>
<NODE name="proline endopeptidase">
<ITEM name="Name" value="proline endopeptidase" type="string" />
<ITEM name="RegEx" value="(?<=[HKRX][PX])(?!P)" type="string" />
<ITEM name="RegExDescription" value="proline endopeptidase cuts after HP, KP or RP if not followed by P." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="MS:1001916" type="string" />
</NODE>
<NODE name="glutamyl endopeptidase">
<ITEM name="Name" value="glutamyl endopeptidase" type="string" />
<ITEM name="RegEx" value="(?<=[DBEZX])" type="string" />
<ITEM name="RegExDescription" value="glutamyl endopeptidase cuts after D(or B) or E(or Z)." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="MS:1001917" type="string" />
<ITEM name="XTandemID" value="[DE]|[X]" type="string" />
<ITEM name="OMSSAID" value="20" type="int" />
<ITEM name="CometID" value="8" type="int" />
<ITEM name="MSGFID" value="5" type="int" />
<NODE name="Synonyms">
<ITEM name="Glu-C" value="Glu-C" type="string" />
<ITEM name="glu_c" value="glu_c" type="string" />
<ITEM name="staphylococcal protease" value="staphylococcal protease" type="string" />
</NODE>
</NODE>
<NODE name="alphaLP">
<ITEM name="Name" value="Alpha-lytic protease" type="string" />
<ITEM name="RegEx" value="(?<=[TASVX])" type="string" />
<ITEM name="RegExDescription" value="Alpha-lytic protease (aLP) cuts after T, A, S, or V." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="XTandemID" value="[ASTV]|[X]" type="string" />
<ITEM name="MSGFID" value="8" type="int" />
</NODE>
<NODE name="2-iodobenzoate">
<ITEM name="Name" value="2-iodobenzoate" type="string" />
<ITEM name="RegEx" value="(?<=[WX])" type="string" />
<ITEM name="RegExDescription" value="2-iodobenzoate cuts after W." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="MS:1001918" type="string" />
<ITEM name="XTandemID" value="[W]|[X]" type="string" />
</NODE>
<NODE name="iodosobenzoate">
<ITEM name="Name" value="iodosobenzoate" type="string" />
<ITEM name="RegEx" value="(?<=W)" type="string" />
</NODE>
<NODE name="staphylococcal protease/D">
<ITEM name="Name" value="staphylococcal protease/D" type="string" />
<ITEM name="RegEx" value="(?<=[EZX])" type="string" />
<ITEM name="RegExDescription" value="staphylococcal protease/D cuts after E(or Z)." type="string" />
<NODE name="Synonyms">
<ITEM name="Glu-C/D" value="Glu-C/D" type="string" />
<ITEM name="staphylococcal protease/D" value="staphylococcal protease/D" type="string" />
</NODE>
</NODE>
<NODE name="proline-endopeptidase/HKR">
<ITEM name="Name" value="proline-endopeptidase/HKR" type="string" />
<ITEM name="RegEx" value="(?<=[PX])" type="string" />
<ITEM name="RegExDescription" value="proline-endopeptidase/HKR cuts after P." type="string" />
</NODE>
<NODE name="Glu-C+P">
<ITEM name="Name" value="Glu-C+P" type="string" />
<ITEM name="RegEx" value="(?<=[DBEZX])(?!P)" type="string" />
<ITEM name="RegExDescription" value="Glu-C+P cuts after D(or B) or E(or Z) unless followed by P." type="string" />
<NODE name="Synonyms">
<ITEM name="Glu-C+P" value="Glu-C+P" type="string" />
<ITEM name="staphylococcal protease+P" value="staphylococcal protease+P" type="string" />
</NODE>
</NODE>
<NODE name="PepsinA + P">
<ITEM name="Name" value="PepsinA + P" type="string" />
<ITEM name="RegEx" value="(?<=[FLJX])(?!P)" type="string" />
<ITEM name="RegExDescription" value="PepsinA + P cuts after F or L(or J) unless followed by P." type="string" />
</NODE>
<NODE name="cyanogen-bromide">
<ITEM name="Name" value="cyanogen-bromide" type="string" />
<ITEM name="RegEx" value="(?<=[MX])" type="string" />
<ITEM name="RegExDescription" value="cyanogen-bromide cuts after M." type="string" />
</NODE>
<NODE name="Clostripain/P">
<ITEM name="Name" value="Clostripain/P" type="string" />
<ITEM name="RegEx" value="(?<=[RX])" type="string" />
<ITEM name="RegExDescription" value="Clostripain/P cuts after R." type="string" />
</NODE>
<NODE name="elastase-trypsin-chymotrypsin">
<ITEM name="Name" value="elastase-trypsin-chymotrypsin" type="string" />
<ITEM name="RegEx" value="(?<=[ALIVKRWFYX])(?!P)" type="string" />
<ITEM name="RegExDescription" value="elastase-trypsin-chymotrypsin cuts after A,L,I(or J),V,K,R,W,F,Y unless followed by P." type="string" />
</NODE>
<NODE name="no cleavage">
<ITEM name="Name" value="no cleavage" type="string" />
<ITEM name="RegEx" value="()" type="string" />
<ITEM name="RegExDescription" value="no cleavage." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="MS:1001955" type="string" />
<ITEM name="XTandemID" value="[Z]|[Z]" type="string" />
<ITEM name="OMSSAID" value="11" type="int" />
<ITEM name="MSGFID" value="9" type="int" />
<ITEM name="CometID" value="11" type="int" />
<NODE name="Synonyms">
<ITEM name="no_cut" value="no_cut" type="string" />
</NODE>
</NODE>
<NODE name="unspecific cleavage">
<ITEM name="Name" value="unspecific cleavage" type="string" />
<ITEM name="RegEx" value="(?<=[A-Z])" type="string" />
<ITEM name="RegExDescription" value="unspecific cleavage cuts at every site." type="string" />
<ITEM name="NTermGain" value="H" type="string" />
<ITEM name="CTermGain" value="OH" type="string" />
<ITEM name="PSIID" value="MS:1001956" type="string" />
<ITEM name="XTandemID" value="[X]|[X]" type="string" />
<ITEM name="OMSSAID" value="17" type="int" />
<ITEM name="CometID" value="0" type="int" />
<ITEM name="MSGFID" value="0" type="int" />
<NODE name="Synonyms">
<ITEM name="no_enzyme" value="no_enzyme" type="string" />
<ITEM name="nonspecific" value="nonspecific" type="string" />
</NODE>
</NODE>
</NODE>
</PARAMETERS>