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Asx?%? ` Glx?=?×ê5ù¤/?!_ ?? üúd >`<L8 ?? íDBg,X!￡?t<?,Qc?è1k"??íJ!ü ?GL4??a1A?,X!ü ?GL4??,X??'ú? ++ $F?êE¨ 2,X4§p>4?4??Y4{?><?1???><,X<?,QF? ?b(Mn,X(=/?ú2O5àá 5×<% pI `ú$G￡×1`??><ù ?Zá5×<%(=/?ú2O? pI `ú$G￡,X<'<?,Q×1Y??>< ,X<?,Qá ?b(Mn(=/?ú2OèJèú pI `ú$G￡35×<% üY?<Q' Au1kk4§p ?á,ì àèLêú><aZA1c?a¤?,X4??`<,ì0ú? AACompIdent,X?t ?/?è AACompSim¤o2O,Xúdèa!5ù1rP`k,X!ü ?GL4?? qBEˉ> e2?á àè a5ùS*ü SWISS PROT,Xc?qB? Wilkins1è 1996??y*ü Compute pI/MW?????k,Xá àD ?1Au1k?)úA?1+ &? `ú$G￡?YyF'/?è!ü ?GL 4?? ü(=/?Kè ú±\,X? Cordwell1è 1995?èJèE?E?úd!ü ?GL,X4??è-è0J5ù 6?￠"b 25ác?,ì?,X<?,QKè ￥)?,ì?? Hobohm ` Sanderè 1995?? ′!8è ü ?43,XDBge2? ?.TEY14??údè6?<?,QBüKèG2?¤oè????·? PROPSEARCH PROPSEARCHa AACompSim? è3y*ü<?,Q,X!ü ?GL4??9?#<?,QBüKè,X?6(2??BA1 ECê? ￥5ù/?E-?T6?EO? ￥)? à?<?,QBü?￡,X? ,? Hobohm ` Sanderè 1995??E- ?T!¨ AACompSimèt??WS*üZ 144/?á à,X(=ê2?9Eˉ> údèJùàú$ G￡???!_ ?,X ?G￡?G +c"? `G + 9K1?E-o2?,XL? ü>/?01A? ?G￡èJ úJaDBg? SWISS PROT ` PIR?,X!￡tc?NXAu1kQ,X ?G￡Eˉ> !¨EW?1YE- ?t NXAu1kQ,X ?G￡DBg??8V4zZ!￡ ?1A?L?,XêKè? PROPSEARCH,X WebáuL?,XEg91A?c?DèJEg?,X?tr_ ò 11.1?E-G?01 A?c?,X?7?Dk s NOR 90,Xc??4§p+C±/?úú?′!?èA1ú·><Z1A?c?a + PROPSEARCHR,X?c?Kè,X,ì?/?zè￠5à2b à??￡è ′!8E? ><aKY,ì ,Xs6?? 10úêè"><a?/?<?,Q,ì,X ?6???b 87á?"b 8.7úú,ì? ?μz¤P? 94áè5à"b 7.5úíE? 99.6á?úd ò 11.1,X4§p ???è NOR 90a?o E@) ′$?<?,Q NI-?è 2/201 ?0′y*ü<?,QBüc?,XNX#?"? 2005 1 18file://E:\wcb\*ó(=μC:?A￥??1 ?0′y*ü<?,QBüc?,XNX#? ... Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om %?GJ??t retinoblastoma4§ ü<?,Q?6`|<?,Q4§ ü<?,Q radixin `|#?/? GTPGJMJ<?,Q ,X RalBP11<?,Q,ì??' E-o<?,Q,Xs6? ?7?á àèWàJáF???U,X4§p×' 5àèJ A?? DNA,X4§ ü<?,QèE-k/?/? ?6? üá às6? F?G?*üZ,X ú,ì,X4§X 3?7??Eˉ> ? ? BLASTPe2?í.BAx4§p `A??GK?!_ ? ú??U,X? Fragment search: OFF (POS1 and POS2 are begin and end of sequence) Rank ID DIST LEN2 POS1 POS2 pI DE 1 >p1;s18193 0.00 727 1 727 5.33 autoantigen NOR 90 – human 2 ubf1_human 1.36 764 1 764 5.62 NUCLEOLAR TRANSCRIPTION FACTOR 1 (UPSTREAM BINDING FACTOR 1) (UBF 3 ubf1_mouse 1.40 765 1 765 5.55 NUCLEOLAR TRANSCRIPTION FACTOR 1 (UPSTREAM BINDING FACTOR 1) (UBF 4 ubf1_rat 1.57 764 1 764 5.61 NUCLEOLAR TRANSCRIPTION FACTOR 1 (UPSTREAM BINDING FACTOR 1) (UBF 5 ubf1_xenla 3.95 677 1 677 5.79 NUCLEOLAR TRANSCRIPTION FACTOR 1 (UPSTREAM BINDING FACTOR 1) (UBF 6 ubf2_xenla 4.18 701 1 701 6.05 NUCLEOLAR TRANSCRIPTION FACTOR 2 (UPSTREAM BINDING FACTOR 2) (UBF 7 >p1;s57552 7.72 606 1 606 6.63 hypothetical protein YPR018w – yeast (Saccharomyces cerevisiae) 8 >p1;i50463 8.49 772 1 772 5.71 protein kinase – chicken 9 >p1;h54024 8.83 768 1 768 5.27 protein kinase (EC 2.7.1.37) cdc2 related PITSLRE alpha 2 10 >p1;b54024 8.87 777 1 777 5.27 protein kinase (EC 2.7.1.37) cdc2 related PITSLRE alpha 2 11 >p1;g54024 8.90 766 1 766 5.21 protein kinase (EC 2.7.1.37) cdc2 related PITSLRE beta 2 12 >p1;a55817 9.00 783 1 783 5.19 cyclin dependent kinase 130 PITSLRE – mouse 13 >p1;f54024 9.11 777 1 777 5.30 protein kinase (EC 2.7.1.37) cdc2 related PITSLRE beta 2 14 >p1;e54024 9.11 779 1 779 5.42 protein kinase (EC 2.7.1.37) cdc2 related PITSLRE alpha 2 15 yaa5_schpo 9.45 598 1 598 4.78 HYPOTHETICAL 69.5 KD PROTEIN C22G7.05 IN CHROMOSOME I. 16 >p1;s62449 9.45 598 1 598 4.78 hypothetical protein SPAC22G7.05 – fission yeast (Schizosaccharomyces pombe) 17 >f1;i58390 9.45 920 1 920 5.00 retinoblastoma binding protein 1 isoform I 18 >p1;s63193 9.58 590 1 590 6.15 hypothetical protein YNL227c – yeast (Saccharomyces cerevisiae) 19 ynw7_yeast 9.58 590 1 590 6.15 HYPOTHETICAL 68.8 KD PROTEIN IN URE2 SSU72 INTERGENIC REGION. 20 >p1;s49634 9.74 899 1 899 4.79 hypothetical protein YML093w – yeast (Saccharomyces cerevisiae) 21 ymj3_yeast 9.74 899 1 899 4.79 HYPOTHETICAL 103.0 KD PROTEIN IN RAD10 PRS4 INTERGENIC REGION. 22 radi_human 9.76 583 1 583 6.33 RADIXIN. 23 radi_pig 9.81 583 1 583 6.21 RADIXIN (MOESIN B). 24 >f1;i78883 9.83 866 1 866 4.77 retinoblastoma binding protein 1 isoform II NI-?è 3/201 ?0′y*ü<?,QBüc?,XNX#?"? 2005 1 18file://E:\wcb\*ó(=μC:?A￥??1 ?0′y*ü<?,QBüc?,XNX#? ... Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om ò 11.1 ?b!ü ?GL4??,X PROPSEARCHDBe2??Eg9c??7?Dk s NOR 90?1T"?CK ??èL8 ?Z?·G??$m `??aHt,??DBgC±/?'ú,X,è? ò?><,X?4-?,X B C±/?kúf?,XNNc? SWISS PROTê PIR?A??C±/?kú?1A?c?aA1c?G? ′,XKSz?G? ′,X!5B?￠ POS1 POS2??Au1k?,X pIè1 ?íA1c?,X￡E?? MOWSE ú$G￡e2?? Molecular Weight Searchè MOWSE?1k"?y*üZE?E?BüB? MS?T9?k,Xμ C? Pappin1è 1993??y*ü`H<?,QBü,Xú$G￡ ?J>(Mn<?,QGJ#\ê a{(=,Xú$G￡è ?/?t-1<?,QBü6?>?.B′A? .BAxè4-?+81FrP`!6??n,X4§p?+bt-1<?,Q′L? a<F?êF?ú#cèE-??"?:+ ￡?ZrP`êKè? MOWSE,XEg9?t4?[[êèù ???rP`#n,X6?!??><èú$G￡8× è ü 0.7 4.0Kda Kè?Au1kE?/? ?b ü OWLM2k-<?,QBüc?g? Akrigg1è 1988?ù ?,XμC?'ú ?b ü?nú$G￡8× èY<?,Q?t(!?ú$G￡?)?,X ?D?Eg?,X4§pkú?G,X 30t<?,Q ,X?><èùàWà ü OWL,X5,? á/?è,ì0ú6?!?c?è `JW43AuμC??3-è0Jk? üS *ütêè?Eg96?!?ú$G￡êè?.B)[ 99á?A1e2?áu ?E?E? ? mowse@daresburg.ac.uk ￥E?+ $F?êr)??9?kè?Gb1A??,X4?8VμCè ?1,ìA1   ￥E?+ $F?êèJ ü#\C!7[mT “help”E-tA?? ?bc?,X(=)ú?Bü Compute pI/MW? ExPASy? Compute pI/MWAu1kEg9c?1+ &? `ú$G￡,X1K?í pI,X.Bn ?b?ó-è0Jú<?,QBü ￠+?GL? ??5ê?E?/?E?/?9?k,X pK? Bjellqvist1è 1993?? ′!8èA10 5ùA: *ü èíb.??<?,QBük,X pI ?6?á?.B?ú$G￡,XAu1k^c?!￡t!ü ? GL,X à!2?G ú$G￡t ü?CKèatT?t"ú$,Xú$G￡?*ü ?1^c?H)ú FASTA ?èê¤o SWISS PROT?A?èê5ù ? ?.Bn,X#?t ??81*ü ¤oZc?èA11K? 7?|Au1k<c?,X pI `ú$G￡×81*ü ¤o,X SWISS PROT?A?è/?c?/A15,?,X￡E? `(=/?A?)×Vp*ü 4-?Z?!?c?(!?8× èíAu1kú üA1(!?TEˉ> è5àáJ\íHt c?? PeptideMass? ExPASy? PeptideMass1KJ\í6?!?B òúdrP`è*üb.Bn<?,QBü üa(Mn<?,QGJêê:A?0*ü? ,XY?{(=? Wilkins1è 1997??E?E? PeptideMass ?1NX#"?·4§p,XGJ `A?ùà?6? <?,QGJ? trypsin??2°<?,QGJ? chymotrypsin?? LysC?$?ê"? ArgC? AspN ` GluC? ?5{ GCê.?GLGC?? 6?!üGL `+.?!üGL ? üAu1k{(=6?!?!t1?OD?81*ü ¤o,X SWISS PROT?A?è5àá )?!?c?è PeptideMassE?6?y*ü SWISS PROTg?"?,XμC #}Au 1k?_VèL8 ?μ ?c?è a ü>?!é9?-1,X5?A￥ a?OD?Eg?4§p???><èJ ú4-?Eg9<?,Q,X pI `ú$G￡è' a SWISS PROTGb ?/?,Xú$G￡?!&???OD a ? /?,XμCè? a6?(!?,Xc?? TGREASE 25 >p1;b42997 9.87 754 1 754 5.17 retinoblastoma associated protein 2 – human 26 >p1;a57467 9.91 647 1 647 5.74 Ra1BP1 – rat NI-?è 4/201 ?0′y*ü<?,QBüc?,XNX#?"? 2005 1 18file://E:\wcb\*ó(=μC:?A￥??1 ?0′y*ü<?,QBüc?,XNX#? ... Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om TGREASE"?<?,QBüc?KSzAu1kJ+c"?,X1K? Kyte ` Doolittleè 1982??+c"? ” !￡/?!ü ?GL ?Y,X(M?è G!ü ?GLE°/? < è"ú$èú7??ù ?Eˉ<?,QBü ?,X,ìíC_ ??E-?C_?tT0NKè0?'5ê `JW?o ′2??nZ?t<?,QBü?4?l ′?,XY4è0NKèX B5? ′!8è TGREASEíNX#)×(?<?,QY ? 1 ???YnC?7pc?1?M6F?Yh*ü? TGREASE 2b FASTA2??/?c?è ?1￠ Virginia?:kèJ ?10(à0?/?c ü Macê Dos2?43? E¤> ? +c"?NX#,X?"?qC*b+c"?,X>5G￡zèE-G?!￡t!ü ?GL BJ?2??,X(=)ú(M??_ Vè$??·??C?C^"é"Q,ìê{*ó,X7?+6?1?è>C\?tD1·><J+c"??KYè P?!7,X!ü ?GLKYè?,X+c"?×5àKYè"Bó,X!ü ?GLíèt?"?' aè"?<?,QBü c?,X+c"?,X/?|G èê5ù/??+c"?2?é>Au1k?9?0k ·,X?z ?1A×H ,XèE-G?|9$é 11!_ ?,X0k ·?z19?kè?,XμC `è?,X >?FD?? a^4§p4? ? ?+c"?é!_ ?c ?,X4?6 ò? ò 11.2*ü?,X,Q?2? ?'%0,X TGREASE ò? ò,X?a rLC?7p !?,X!5B<Q' á`<?7èè`5ù,X,ìG??4￡,ì'a??U"??,XE-/??"? á??NX#C?7p !?èE?NX#Y,X+c" ??K?*ü9?#C?7p !?,X?"?ú ü aM6?K?A| A?? ……………… ò 11.2 TGREASE0 Kytt Doolittle+c"?úd4§p?Eg9c??P?? `,Q?2? ?'%è S*üZ5,?,X0k ·KSz? òiF?,X2kt4?1tT,Xè·><Z SWISS PROT?"?,XA1<? ,Q 1L 8R B? P25025?,X×tC?7p !?,X!5B? SAPS <?,QBüc?43Auúd?"?? Statistical Analysis of Protein Sequencesè SAPS?*üb4-? Gb1A?c?,XS"ˉ,X43AuμC? Brendel1è 1992??'?t<?,Qc?E?E? Web+ M6¤x4- SAPSèáu <?E¨ 2?? úGbA1<?,Q,X(=)ú `ê:?Bü,XμCèE-oF???E?E?c? 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NI-?è 5/201 ?0′y*ü<?,QBüc?,XNX#?"? 2005 1 18file://E:\wcb\*ó(=μC:?A￥??1 ?0′y*ü<?,QBüc?,XNX#? ... Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om a D=??,ì!¨è EJò?/?è7?),X4§X?a D=?? ü`4{4§X )YF?6?!?Ká àè!? K6?b?5ê?5,ìF?,X EJòKè??5 EJòKèE?E?E-/?!?K0*üSHt4§X6? El ′ (?E-ol ′( ?1G> ,Xè3 ?1 ?G> ,XèE- a?b ? E Jò1?0? `&?0?,X a ???t El ′(,X ?/? E¤?|è?6?JòX? ￥ 5(?,XùE@èJ6? ?G> E ′(? 1976H Levitt ` Chothia B<?,QBü`4{4§Xê,Xf?NNc¤?Z?tú2O2?43? Levitt ` Chothiaè 1976??M2 1T )è?t D4§X ?+ D=??X?×?t E4§X?U+ EJòX ??6`4v<?,QL _,X<+ D=??X?,X<?,QBüè ′5à2b D4§X2O? Takanoè 1977??Bü ':±2? E 2O,XQ_$èJ5 E JòKè,X!?K,X??6?Z?t2??,XJ(?4§X? Guss ` Freemanè 1983??4? ül ′2O D /E+xó?)?,X EJò ` D=??X?,X?T?2?!?E?<?,Q D /E<?,Q,X?tQ_$èJ EJòX??,X El ′è < è+ D=??ù è? Burnett1è 1974?? ü1?A|A?èY?tAá?4￡ ?)??/24￡5%4°?WC\ZAu1kE?/?:4,X6?o1? ó?2O,X:4è5à??DAu1k/?cF?ê- ?Y,XNNc,?,? ;> ???/24￡5%4°T üV` 4{4§XNX#E-/?úd?? `C_?,XK?NlYS"ˉ,Xh*ü?!￡t/24￡5%4°F?ù ??tEg9 ` ?tEg?? ü`4{4§XNX#,Xh*üèEg9c?ú9,XμCèEg?!￡t(Mn!ü ? GL6?(Mn`4{4§X,X′)[?rL,X:4E?/? ￥*ó ü!bEg9 `Eg?Kè,X?tê?t Ld ??:4,Xr)?L??U ?5%4°¤o?4?A?4?DBL??E-G?è?4? üE?,XA?4?L??#? 4§X,X<?,QBüDBg?5%4°?t1E-oμC ??R!ü ?GLc?a1(MnT?[G2?6? 4§XKè,X?6(2??/24￡5%4° ü`4{4§XNX#,Xh*üèK',XA|A? ??? Kneller1 ? 1990?,X[)? nnpredict nnpredict1k"?S*üZ?t ??!O\/24￡5%4° ?4-!￡t!ü ?GLúG!NX#,X2O _? Kneller 1è 1990?? üNX#êèáu <S*ü FASTA?,X[êèJY )+0úêY+0ú,Xc?1 ?<? ,QBü,Xl ′2O? D?EêD /E??!_ ?>ú′2OèV D=???+?? EJò?(?êJW ?é??81í4-n!_ ?t4-?NX#èí??TK? ????èE-Aèa′"?0? ?μ,XúG!?81 "uYGbl ′2O,XμCèNX#36? üánl ′2O,X???Eˉ> è5àèE-5,?,X10??? ByF'èíb?Gr_,XNX#è nnpredict,X?.B)[CYE?Z 65á? c?E?E? ? nnpredict@celeste.ucsf.edu ￥E?+ $F?ê¤x4- nnpredict?1T?2?!?E?<?,Q _è+ $F?ê,X?? option: a/b >flavodoxin Anacystis nidulans AKIGLFYGTQTGVTQTIAESIQQEFGGESIVDLNDIANADASKLNAYDYLIIGCPTWNVGELQSDWEGIY DDLDSVNFQGKKVAYFGAGDQVGYSDNFQDAMGILEEKISSLGSQTVGYWPIEGYDFNESKAVRNNQFVG LAIDEDNQPDLTKNRIKTWVSQLKSEFGL Option> ?a<?,QBü,Xl ′2O?Q*üb′l ′2OèD DèE Eè a/b D /E?!￡t+ $F? ê ?6?¤x?tc?èáu <E¨ 2,X4§p4￡H)ú?? ò 11.3? PredictProtein NI-?è 6/201 ?0′y*ü<?,QBüc?,XNX#?"? 2005 1 18file://E:\wcb\*ó(=μC:?A￥??1 ?0′y*ü<?,QBüc?,XNX#? ... Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om PredictProtein? Rost1è 1994? üNX#h*üZ+9á à,X?"??Ojè<?,QBüc?>0 1A?c? ü SWISS PROTge2?,ì,Xc??',ì,Xc?>R aè?t á MaxHom,X 1k"?>*ü9Eˉ> ? ? ?b(MU1T ò,X?c?!¨í? Sander ` Schneiderè 1991?? MaxHom*üEá ·,X?"?9XE?!¨í?'1? ?e2? SWISS PROT aèYR,Xc?a1A?c?Eˉ> !¨íè JXE???t!¨í a,X(MU1T ò?' aèE-t1T ò ?>*ü9 ü SWISS PROTe2??,X,ìc ??+ MaxHom{*ó,X?c?!¨íLc a>5B9?t/24￡5%4°è*ü?+/? PHD? Rostè 1996?,X ?"?Eˉ> NX#? PHDE-?+`4{4§XNX#?"?á??4-!￡t!_ ?úG!?t`4{4§X2O _èWE? íc?T!￡t!&?,XNX# ?μz4-\43Auúd?A1?"?,XG ?.B)[CYE? 72á??G!_ ?NX #?.B)[E? 90á1T? ? predictprotein@embl hcidelberg.de ￥E?,XEg9c?+ $F?ê1??? Joe Buzzcut National Human Genome Research Institute, NIH buzzcut@baldguys.org # flavodoxin Anacystis nidulans AKIGLFYGTQTGVTQTIAESIQQEFGGESIVDLNDIANADASDLNAYDYLIIGCPTWNVGELQSDWEGIY DDLDSVNFQGKKVAYFGAGDQVGYSDNFQDAMGILEEKISSLGSQTVGYWPIEGYDFNESKAVRNNQFVG LAIDEDNQPDLTKNRIKTWVSQLKSEFGL ü á+?￠2G2? `  >  aè ? ?áu <><aLc a?t )+0úc??c? ?T FASTA?èJáA?Y0Nè?43,X! ?+ ?·óèc? a3áA?YJWe?S? Eg?4§pY?\?Jù ??G￡YGμC?JY MaxHome2?4§pèJùà?c?!¨í,X4§ pèW ?1*üb_V ?b(MU1T ò,Xe2?ê(=/?B2?úd1Eˉ?!9-è0J?Vp¤x,Xc? ü PDBgY?-1 à$d<?,QèíJ PDB?A? ?3?Eg?E¨ 2?Lc a?"?DμCè? ar LNX#4§p?a nnpredictá àè PredictProteinE?E¨ 2!￡t!&?,XNX# ?μz2?éè8× è￠èKY?P?,X ?μzè3AèA1!&?úG!,X`4{4§X2O _!7.B,X?í(Mn_ $A1/?cE¨ 2,XNX#4§pè1 ?aJWNX#?"?,X!¨EWH)ú a?? ò 11.3? SSPRED a PredictProtein,ìè EMBL,X`4{4§XNX#?"?? Mehta1è 1995? üDBge2?c? ,X,ì<?,QèX??c?!¨íè' aEˉ> NX#?A1?"? ü!¨íêè(M?"??M2±\!&?,Xó 6èJy*ü!¨í4§p0??NX#4§p???NX#4§p4￡E?$?L8 ?Fwo1T )á ü)ú,X4§p ) èE-oùàKSzá ü)ú,X )ê?/?4§X2O _'?Z? o?/?2O _?_VèNX# HHHEHHèh ?? HHHHHH??Y,X D =??h7??t!_ ?KSèY,X E Jòh7??t!_ ? KS? à 1T?2?!?E?<?,Q_è1?¤x4- sspred@embl heidelberg.de,X0 SSPREDe2?F?ê ?? SEQUENCE TITLE flavodoxin Anacystis nidulans NI-?è 7/201 ?0′y*ü<?,QBüc?,XNX#?"? 2005 1 18file://E:\wcb\*ó(=μC:?A￥??1 ?0′y*ü<?,QBüc?,XNX#? ... Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om BLOSUM 62 ALIGN 50 INDEL 10 Z_SCORE 7.0 SEQ AKIGLFYGTQTGVTQTIAESIQQEFGGESIVDLNDIANADASDLNAYDYLIIGCPTWNVGELQSDWEGIY DDLDSVNFQGEKVAYFGAGDQVGYSDNFQDAMGILEEKISSLGSQTVGYWPIEGYDFNESKAVRNNQFVG LAIDEDNQPDLTKNRIKTWVSQLKSEFGL END GKA? SEQUENCE¤/áu <Y?t )c?>¤xT9? TITLE> A?ù ?GbEg9c?,X?o A?AáèJ? üE¨ 24§p?)?? BLOSUM 62 Q??/ SSPRED ü0!¨í'úêS*üA1-?L ? PAM -?L ` BLOSUM-?L F? ?1EY*ü,Xè5à5,?,XA?5B PAM 120? INDEL 100N!5.ú?*ü ?1á1uE-?> 5àA} SSPRED ?b*ü,X'ú-?L NX# üE?,X5,??L!" INDELS0N!|9 è ?y ?? ALIGN 50?/áu <*ü 50t?G!¨íEˉ> `4{4§XNX#? Z_SCORE 7.0> A?*ü ¤P?êL!" BLITZe2?,X#óz?? aèc??UtT(MnCK?GK+ SEQ `4§3GK+ END? üúd4§3 aè*ü úkù ??2??Eg?[ê,X+ $F?ê?Jùà üNX#*ü,X BLITZ {*ó,X?c?!¨í,X4§pè1 ??4?NX#,X4§p?+ $F?êE?ùà??NX#4§p ?E?$? a ,X4§p?!M6,Xc?r_,X SSPRED?4?NX#4§paJW?"?,X!¨EW?? ò 11.3? SOPMA !b"? ?G??,X CNRS? Centre National de la Recherche Scientifique?S*ü(à(M,X?"? Eˉ> <?,QBü`4{4§XNX#?Wá*ü?/?è5à/?,ìf(à0?,X?"?Eˉ> NX#èJú4§p"L? H)ú??t?7èNX#4§p?E-/??"?ùà? Garnier Gibrat Robson? GOR??"? ? Garnier1è 1996?? Levin à$dNX#?"?? Levin1è 1986?? ?G?NX#?"?? Deléage ` Rouxè 1987??0!M6 PredictProtein?F?ú,X PHD?"? ` CNRS7??,X SOPMA?"? ? Geourjon ` Déleageè 1995??1T ),XAèè SOPMAE-/?7?ìê,XNX#?"??0?Z?-1`4{4§ Xc?,X ?4{DBgèg,X!￡t<?,QBüF?4￡E? ?b,ì?,X`4{4§XNX#?' a*ü ?4{g k,XμC ?í1A?c?Eˉ> `4{4§XNX#? S*üE-/??"? ?1úc?D0+ $F?ê¤x4- deleage@ibcp.frè*ü SOPMA0F?ê NlèêS*ü SOPMA,X Web+ M6? ?/?0?F?ú,XNX#4§p1 ??7èNX#4§pF??? ò 11.3? ?/??"?,X!¨EW  B ò 11.3è ?1a,??Y,X?"? üNX#`4{4§X?M6`?k,ìíEWQèF?á`5b? EYT?2?!?E?<?,Q0#A?,Xr_ ′WKY,ìíá,X4§X?WYt D =?? `t E ′ (è2b D /E l ′2O?Y?oúG!4§p ü ?/??"??7è,X?V ?/??"?F?\Q R Z E 1? E 3? E 4 ` D 5?Yo?"?^¤o`4{4§X )Oi$?]Z?V nnpredict$?]Z D NI-?è 8/201 ?0′y*ü<?,QBüc?,XNX#?"? 2005 1 18file://E:\wcb\*ó(=μC:?A￥??1 ?0′y*ü<?,QBüc?,XNX#? ... Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om ? D 3 ` D 4?è5àYoNX#?"?k,X4§p5#*ó(=:??V ?G?NX#?"? ü E 4èAx =??? ′( `¤?|?ty?txó?)??? PredictProtein?"?!7.BRZY,X`4{4§X )èJ ü???.BA??Z`4{4§Xê,XKSzè üH'TNX#><)??G?JM2AèaJW ?"?"u*üêáóQè ′ üJW¤or_′+e?Y¤/??"?><)?èQ?+b"uYè?μC ?*ü9?? ?/??"??Qè?Q^c?¤x4-?táu <èú4§p"L?H)úèE?E??,X !¨EW9?? ?oNX#4§p?0?êá?0??? ü ò 11.3/,X CNRS?7èc?2bE-?2O? A?è?7èc?3á`<!7.B,X??<Q' E-??"?Jtù ?¤/?íNX#?"?Bù±L=,X NX#è+E-oNX#,X.BrZ4§pZ ?μz? ……………… ò 11.3 ?/?`4{4§XNX#?"?,X!¨EW?01A?c?,XT?2?!?E?<?,Q? flavodoxin??/? D /E<?,QèJc?f ü1?> ?í!￡tNX#è+·>< D=??è(·>< EJòè7·>< E¤?|èJ W!&?F?Ax′?? K??G?*ü,X ?NX#?"?? üJ4§p,Xo{èJAo4?￡E???!7[? ò ,X???> + PDB[ê,XT?2?!?E?<?,Q? 1OFVè Smith1è 1983?k,X`4{4§Xú×? (M!^4§Xê4§X(MU B5 D=?? ` E ′(,X!5B ?1EW?.B NX#?9èJW(Mn,X4§Xê4§X(MUèV K? =?? `C?7p 3 ?1NX#?9?E-2ONX#,X?"?"uY`4{4§XNX#?"??è?U+bE- o4§Xê4§X(MU,Xl ′??_?á ú#ù.?1uV!8è811A?c? ü?-14§XDBg6? e2?,ì<?,QèíNX#,X?.Bz ?6?\P?? K?=?? COILS1k"?ú1A?c? ü?t+?-1ù ? K?=??<?,Q4§X,XDBgEˉ> e2?? Lupas1è 1991??/?c3ú1A?c?aù ?)×(?<?,Qc?,X PDB ?4{gEˉ> !¨EWèJ B?tge2?k ú,Xá à?nEg9c?6? K?=??,XV)[? COILS ?1?EQ VAX/VMS2?43TS*üèE?E?1T ),X Web+ M6S*üíè??? /?c?U"c?DB GCGê FASTA?è? ? ?1¤x?5ê?5c??L8Zc?è*ü E?6? ü?/?'ú-?L EY??/?? MTK B6`)×<?,Q? s6`)×<?,Q `?|<?,Qc?k,X'ú-? L ×ê MTIDKè B6`)×<?,Q? s6`)×<?,Q?Kè4x4è2O<?,Q  ?92f<?,Q `?|<?,Qk ,X'ú-?L ?/?c05ùéE?Z?/?-?L ,XE?*ü(M&?? MTKèE? ü?# ?Jò4§Xè5à MTIDKE? üJW?6?*ü E?6? |?tEYNM4-\!￡t K?D `G!5BT!_ ??E? ?"??,ì à,X G??Vp COILS ü′G? `YG????k,X4§p,ì?\?èí ?6?><a, ü!7JíA??/? c,X05ùA: Aè COILS*ü9?#a$?#?y?o,Xo? K?=??,Xèíbù ?,Xê ?? K? =??í ?6??#á?81?tc?>¤xáu <è/?c?H)ú???NX#4§p òè/"? -c? ?tF?ú6? K?=??,X ??? ?t ?b Macintoshi2?43,Xh*ü/?c## MacStripeS*üZ Lupas,X COILS,XNX#?"?è6?Eg? EW1T ),XNX#4§p? Knightè 1994?? MacStripe?U"Eg9[ê FASTA? PIRêJWBF![ê ?èJB5 COILS? {*ó?t ò6[êèù ?6? K?=??,XV)[è1 ?*ü?(? ò/×E2 'G?á??,XE24á???M61 GCN4_è+ MacStripek,X43Au4§p[ê,X?F?ú? 89 89 L 5 a 0.760448 0.000047 90 90 D 5 b 0.760448 0.000047 91 91 D 5 c 0.760448 0.000047 NI-?è 9/201 ?0′y*ü<?,QBüc?,XNX#?"? 2005 1 18file://E:\wcb\*ó(=μC:?A￥??1 ?0′y*ü<?,QBüc?,XNX#? ... Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om 92 92 A 5 d 0.760448 0.000047 93. 93 V 5 e 0.760448 0.000047 94 94 V 5 f 0.760448 0.000047 95 95 E 5 g 0.760448 0.000047 96 96 S 5 a 0.760448 0.000047 97 97 F 5 b 0.760448 0.000047 98 98 F 5 c 0.774300 0.000058 99 99 S 5 d 0.812161 0.000101 100 100 S 5 e 0.812161 0.000101 101 101 S 5 f 0.812161 0.000101 102 102 T 5 g 0.812161 0.000101 ￠o ? ??ú?·><!_ ?c ??/? ???!ü ?GL/?2O?×E2'? `!_ ? ü×E2' ,X!5B? a b c d e f g?? Lupaskú ` LupasV)[? üE-t_$è"??1h?è?à6? #ù.,??×E2'G?á???údHt GCN4c?4§p><a×E2'G?á??k8CQ4è?è ? ü ¤o  3Yú/???' 43Au4§pá6??+9áAuèJ4§p6?è?? Aèa×E2'G?á?? úa, ü?3 ?1￠ COILSk2O,XEg?èáE?E? Webáu <è5à ü üE?,X UnixAu 1kT]>??t&Aá??4êm,X/?cèE-?!9íA??*ü 5à??.á,X? C?7p  3 !M6òA|A?E?,X Kyte Doolittle,X TGREASE1k"?6?Y ?#P?+c"?,X  3èWJá? K?*ü9NX#C?7p  3,Xè ′"$??)×(?<?,Q,XY ? 3 ?+c"?,X??à9,?? /??K?NX#C?7p ,X?"?? TMpredèWqM4?tC?7p<?,QDBg Tmbase? Hofmann ` Stoffelè 1993?? Tmbase9$da Swiss ProtgèJù ?Z!￡tc?,X?oLtμC?C?7p4§ X  3,XDG￡?C?7p4§X 3,X!5B ?J{5Dc?,X??? Tmpredy*üE-oμCJa81Ft -?L 4§ ü9Eˉ> NX#? Tmpred,X Web+ M6 ú1Ta?*ü ú )+0úc?Eg91A?c?[èJ ?1?nNX#êG?*ü ,XC?7p=??+c" ,X??KSz `??KSz?Eg?4§pù ? ˉtF?ú? ?6?,XC?7p=?? ?,ì G??><??A?,XC?7p§%? _1 ?·><,ì à4§p,X ò?Vp*ü*<?,Q5ú6( ?'? P51684?0 1A?c?èú?k?M6,X? _? 2 possible models considered, only significant TM segments used > STRONGLY prefered model: N terminus outside 7 strong transmembrane helices, total score : 14196 # from to length score orientation NI-?è 10/201 ?0′y*ü<?,QBüc?,XNX#?"? 2005 1 18file://E:\wcb\*ó(=μC:?A￥??1 ?0′y*ü<?,QBüc?,XNX#? ... Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om 1 55 74 (20) 2707 o i 2 83 104 (22) 1914 i o 3 120 141 (22) 1451 o i 4 166 184 (19) 2155 i o 5 212 235 (24) 2530 o i 6 255 276 (22) 2140 i o 7 299 319 (21) 1299 o i > alternative model 7 strong transmembrane helices, total score : 11974 # from to length score orientation 1 47 69 (23) 2494 i o 2 84 104 (21) 1407 o i 3 123 141 (19) 1352 i o 4 166 185 (20) 1904 o i 5 219 236 (18) 2453 i o 6 252 274 (23) 1386 o i 7 300 319 (20) 915 i o !￡/??A?,X? _F??? !?CK? `4?!6!&?è ?J,ìí7p,X a ??+Yê inside to outsideèê+êY outside to inside??1k"?05ùD' ??E-o? _ ?bA?<F?C? 7p  üNX#F?>R? ′5àE-o? _h>,?0￠A1?"?kDB,X?|z? ￥,X4§p? 1`/?NX#?"? TMAPèW2Ob SSPREDG?*üZ?c?!¨í9¤P?NX#,X?.B?? Persson ` Argosè 1994?? à ?*<?,Q5ú ü ?'_è¤x4- tmap@embl heidelberg.de,X1A?c?,X ?V?/? SEQUENCE TITLE G protein coupled receptor BLOSUM 62 INDEL 10 ALIGN 50 NI-?è 11/201 ?0′y*ü<?,QBüc?,XNX#?"? 2005 1 18file://E:\wcb\*ó(=μC:?A￥??1 ?0′y*ü<?,QBüc?,XNX#? ... Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Z_SCORE 4 SEQ MSGESMNFSDVFDSSEDYFVSVNTSYYSVDSEMLLCSLQEVRQFSRLFVPIAYSLICVFGLLGNILVVIT FAFYKKARSMTLVYLLNMAIADLLFVLTLPFWAVSHATGAWVFSNATCKLLKGIYAINFNCGMLLLTCIS END TITLE> SE¨ 24-*ü ,X4§p?bE|Ax? BLOSUM 62 Q??n*ü BLITZ ü Swiss Prote2?G? *ü,Xkú-?L èE-G? ?1G?*ü?? ?k,X BLOSUMê PAM-?L × INDEL? ALIGN ` Z_SCORE1 Q? a!M6 ü SSPREDáuE? ?`<? ?c?D!M6?TCK?GK+ SEQè? a?T END GK+?′A?*ü+ $F?êE?*ü Web+ M6è4§pF?++ $F?êE¨ 2?E¨ 2,XY?ùà BLITZ 1A?c?0,X?c?!¨í4§pèGb ?C?7p !5B,XNX#è1 ?4-?4§p ò/,X PostScript[ê?í*<?,Q5ú ü ?',X TMAPNX#4§pV?? PREDICTED TRANSMEMBRANE SEGMENTS FOR PROTEIN G protein coupled receptor TM 1: 46 74 (29) TM 2: 82 108 (27) TM 3: 117 145 (29) TM 4: 159 187 (29) TM 5: 212 240 (29) TM 6: 251 276 (26) Eg?4§p?\1T )è4-?ZC?7p !?c ?? ? !?CK? `4?!6!5Bèà ? !?KSz? ' èíb à?t<?,Q?tá à,X?"?4-?ZY:+á à,XNX#4§p? TmpredNX#Z×tC? 7p !?è5à TMAP,XNX#AtèJè?4? !?E?4ì,ìfG? ′? ü Swiss_ProtèE-tc?5 ,?"?aZ×tC?7p !?? 43 69? 79 99? 115 136? 155 175? 206 233? 250 2741 ? 299 316??,ì!¨?è Tmpred,X4§pè0ú üE-o!5Bè ü?D???è Tmpred,XNX#!¨rL?? ?/á?KS?o `#?o?í TMAP3? è ? TMAP^? a?t !?Ht$?]Z?*ü ?6? A?? TMAPNX#!¨ TmpredQèE-G? à ?UA×y*ü?/??"?Eˉ> NX#E-??*ü1*+9è' aa 1u1J4§p? μ ?6?  TzT?:,X*ó(=c?úd?? ￥Z SignalPE-t?,Xμ ?6? ?J>?!&??#1K ? Nielsen1è 1997??A11k"? ?b/24￡5%4°?"?è*ü?-1μ ?c?,XM=D!?L? s *ó(=? M=D!?L? s *ó(= ?,ó *ó(=,Xc?ú?0A?4?L?? SignalPNX#,Xú"? _μ ?6?è5à NI-?è 12/201 ?0′y*ü<?,QBüc?,XNX#?"? 2005 1 18file://E:\wcb\*ó(=μC:?A￥??1 ?0′y*ü<?,QBüc?,XNX#? ... Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om áFwo ?a4?62Yμ ??E?,X<?,Q? ?2O6?o2? *óKS ′$ IB!'?*óKSA×8V2?&è P05019?èKY?-1>?!&?èE?E? Web+ M6 ¤x4- SignalPt1úd?NX#G?*ü,X,ó A?4?L?èúd4§pV?? ************************* SignalP predictions ************************* Using networks trained on euk data >IGF IB length = 195 # pos aa C S Y 46 A 0.365 0.823 0.495 47 T 0.450 0.654 0.577 48 A 0.176 0.564 0.369 49 G 0.925 0.205 0.855 50 P 0.815 0.163 0.376 < Is the sequence a signal peptide? # Measure Position Value Cutoff Conclusion max. C 49 0.925 0.37 Yes max. Y 49 0.855 0.34 Yes max. S 37 0.973 0.88 Yes mean S 1 48 0.550 0.48 Yes # Most likely cleavage site between pos. 48 and 49: ATA GP Eg?4§p,X1?F?úè?A?&,X?>?!&?'ú? ü>?&?,X&?0?!&?Tkú?P?? ?A?6,X?μ ?6?'úè!b>?&?!,X!&?kúP?5à>?&? a,X!&?kú"?M2ú "? _<?,Q,X1?0?,X6kú3EW"?? a,X<?4-?4D ü>?&?'úèE-t′)G ú?? ? t!&?KYP?&ú àê ?6ú+P?E@"?Eg?[ê,X4§¤?K?NlE-tc?μ ?6? ??è' a B43Au|??? ?6?,X>?&?? ü Swiss_ProtíA1<?,Q,X"??·??'s6? JòCK?a 49!è!7 SignalPNX#,X? ?6?,X>?&?? M2)×6  3 1×0′?4￡A|A?E?*ü SEG/?c üEˉ> DBge2?!FB,a"á? !??*ü à ,X1k"?èE?E? NI-?è 13/201 ?0′y*ü<?,QBüc?,XNX#?"? 2005 1 18file://E:\wcb\*ó(=μC:?A￥??1 ?0′y*ü<?,QBüc?,XNX#? ... Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om A×8V?o ￥0k ·KSz??o ￥á? K1 `ê á? K2è ?1*ü9?#Yn,XM2)×6  3? ? Q? “seq sequence.txt 45 3.4 3.75” aè SEGúS*üKSb5,? 12,X0k ·è ′5à6??# KSM2)×64§X 3??t*ü SEG?#M2)×6  3,X_$?? ò 11.4? ò 11.4 SEGNX#,X neurofibromatosis type 2 ? ′? L11353?{(=<?,Q,XM2)×6  3?M2)× 6 1?m?boE??D+??!￡? +,X!_ ?!5B? Y4{4§X 1 307 MAGAIASRMSFSSLKRKQPKTFTVRIVTMD AEMEFNCEMKWKGKDLFDLVCRTLGLRETW FEGLQYTIKDTVAWLKMDKKVLDHDVSKEE PVTFHFLAKFYPENAEEELVQEITQHLFFL QVKKQILDEKIYCPPEASVLLASYAVQAKY GDYDPSVHKRGFLAQEELLPKRVINLYQMT PEMWEERITAWYAEHRGRARDEAEMEYLKI AQDLEMYGVNYFAIRNKKGTELLLGVDALG LHIYDPENRLTPKISFPWNEIRNISYSDKE FTIKPLDKKIDVFKFNSSKLRVNKLTLQLC IGNHDLF mrrrkadslevqqmkaqareekarkqmerq rlarekqmreeaertrdelerrllqmkeea tmanealmrseetadllaekaqiteeeakl laqkaaeaeqemqrikatairteeekrlme qkvleaevlalkmaeeserrakeadqlkqd lqeareaerrakqklleiatk 308 478 479 496 PTYPPMNPIPAPLPPDIP sfnligdslsfdfkdtdmkrlsmeiekekv eymekskhlqeqlnelkteiealklkeret aldihnensdrggsskhntikkltlqsak s 497 587 588 595 RVAFFEEL NI-?è 14/201 ?0′y*ü<?,QBüc?,XNX#?"? 2005 1 18file://E:\wcb\*ó(=μC:?A￥??1 ?0′y*ü<?,QBüc?,XNX#? ... Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om 4§XNX#?V ?b<?,QBüc?DB,XNX#?"??á `TT? ?L?,X?￠c?ú ` ?.B NX#<?,QBü4§X,XG??U?" bE- ,XAxA???' c? ?1?nXB5èFw?tc?  ?6??n à?tXB5? B4§X!¨c?èt±\è1 ?<?,QBüP|? motifDG￡YL$,X?"? ? Chothia ` Leskè 1986× Chothiaè 1992?Aèaè"u??U??￠?43,X ?bc?!¨í,X?"? ??R<?,QKè,X,ì??c?a4§X,XG2?K?Nl,X $d üb<?,QBül ′E?/?,XK?Nlè E-E￥9?o4DE?,XA|A?,X&ú&?? Bryant ` Altschulè 1995× Eisenhaber1è 1995× Lemer 1è 1995?? '!?9?,X4§XNX#?"? à$d??èê/? “threading”?"?? Bryant ` Lawrenceè 1993× Fetrow ` Bryantè 1993× Jones ` Thorntonè 1996??E-/??"?út-14§X,X<?,QBüc ?0SE?+;J'>!?ê NMR .?Ek,X?-14§XMJ<?,Q,X4§X $??íbc?4§X ,X!￡ ?n!è1k?!_ ?Kè,ìf0*üo `+c"0*ü???E-o&áo:Au1k,X,?,XR?t-14§ Xc? ü,??4§XT,X6?G￡?ì `XB5?0 ?,X!¨í!5B?E- ,X/?c?U0?L?,XAu1kè?U "Au1k.@ê7??? ??,X UNIX100-è1 ??UY(MnAu1kAá??,X-1A?? <Q' threadingE- ,XT\?èWí.@ê `?K?-1A?,X?U" ?6????*ó(=:?h *ü,XLp.a?ZL!"h*ü,XLp.aè?o?bS*ü,X/?c>? ￥?9??*ó(=:?¤oZ!¨ EW<?,Q??,X8CQ?!9E￥??A?? ?<?,Q4§Xúd1KèV WHAT IF ` LOOKF?¤oZè#? 9s6?èE-G? ?L$bA|A? ?b Web,X!C ECê?? ?tc?4§X7?|!¨EW/?c SWISS MODEL? Peitschè 1996??t?!9E?/?? “First Approach”??è*ü9?nc?6? ú>???'c?¤x/?cè SWISS MODELúJaJ' ò￡DBg? ExPdb?!¨EWè ?Y' ExPdb, üac?ú,ì,X à$dc?ê!>y ?? ??VpE-?!9 ü ExPdbRZ?tê?t üE?,X à$d(=èí??0??t s$? _èJú4§ p++ $F?êE¨ 2?E-o4§p6?a¤x4- SWISS MODEL,X “Optimize”??èy*üJW-1A?V *ó(=ê:μCè9?!7¤?,X4§X? _? 1`/??"?ú4§Xa4§X,ìí!¨èa1×0′A|A?,X ?G￡!¨íe2?1K? VAST? s)ú2O ? DALI1k"? ü?t<?,QKè?R,ì,Xy?o??èJEˉ> ìê aE¨ 2?G,X4§X!¨í? ? Holm ` Sanderè 1993??E-/??"?A???KSz,X0NLmèJA?!¨í(!?Kèf,ìxóE2 yèE- }Z üH'Tá,ì,Xá à<?,QKè?R,ì,X(Mn4§X 3? DALI,X Web+ M66? í PDB?Y,X?4? $?Eˉ> údè3 ?+*ü ¤x?4? PDB?,X $??Jè81?t,?? <?,QF? ü PDBgèí ?1 ü?t<í<,X PDB!¨EWDBg FSSP<?,Ql ′2O?￡4§X!¨í g? Holm ` Sanderè 1994?R?4￡1kQ,X4§XE￥F?? ? a?/??"?í!M6,X PHD`4{4§XNX#?"?,X>9? TOPITS?"?? Rostè 1995?è PDB gG?,X<?,QBüY4è4§X>5?A￥?`4{4§X,X?4è+0úèX?e2?,XDBg?' aè1 A?c?,X`4{4§X `$?#? ? ??E?E? PHD?"?>.Bnè4§p3,??4è+0ú?1A? `,??+ 0úa1|?????"?Eˉ> !¨íèJ1!80?4§XNX#?E¨ 2,X4§pú4{?><è4-?1A? c?a,??4§X,X?ì!¨íè1 ?íNX#?.B?V)[,XA?? Z score?? E-G?A|A?,XY/??"?F?,ì' ?,X?"?è ′!8Wà6?EW?E¨ 24§pJ ?1S*ü Web2O+ M6? Wà ü?#4§XKè,ì?><)??,X"G??μá? “threading”?"?,X?4?%0o ? 1E?E??E￥,X Aslomar?A?9AèaèA??10?4?hFT ?aZ?t4§XNX#02C/? Lemer 1è 1995??E-t!M6¤,XèáT?A?,XrP` ><aè<Q' <?,QBül ′K?NlE?E°t k?·?è?G￡<?,QBül ′2OE?6?k ?M4,XE|A??1uá à?"? ü02C/ ?YKSè02 C/??E??A?G?*ü?7è,ì?"?,X4§XèB5!M6`4{4§XNX#4-?_$,X?"? ? ?E-o ￥)?p?ê·ê ú??è2?Lc-?2O ? ′4?Au?,X àê ￥)è-è 0J5ù üE|A??n ? ′{(= a6?NX#4§Xas6?,XG2?¤oZYo,X1K? 1 110′#] ?Y?,X ′(M5%C$d NI-?è 15/201 ?0′y*ü<?,QBüc?,XNX#?"? 2005 1 18file://E:\wcb\*ó(=μC:?A￥??1 ?0′y*ü<?,QBüc?,XNX#? ... Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om PREDICTION OF PHYSICAL PROPERTIES Compute pI/MW http://expasy.hcuge.ch/ch2d/pi.tool.thml PeptideMass http://expasy.hcuge.ch/sprot/peptide mass.html TGREASE ftp://ftp.vrgnia.edu/pub/fasta/ SAPS http://ulrec2.unil.ch/software/SAPS_form.html PREDICTION OF PROTEIN IDENTITY BASED ON COMPOSITION AACompIdent http://expasy.hcuge.ch/ch2d/aacompi.html AACompSim http://expasy.hcuge.ch/ch2d/aacsim.html PROPSEARCH http://www.embl heidelerg.de/prs.html PREDICTION OF SECONDARY STRUCTURE AND FOLDING CLASS nnpredict http://www.cmpharm.ucsf.edu/~nomi/nnpredict.html PredictProtein http://www.embl heidelerg.de/predictprotein/ SOPMA http://www.ibcp.fr/predict.html SSPRED http://www.embl heidelberg.de/sspred/sspred_info.html PREDICTION OF SPECIALIZED STRUCTURES OR FEATURES COILS http://ulrec3.unil.ch/software/COILS_form.html MacStrip http://www.wi.mit.edu/matsudaira/macstripe.html SignalP http://www.cbs.dtu.dk/services/SignalP/ TMAP http://ww.embl heidelberg.de/tmap/tmap_sin.html TMpred http://ulrec3.unil.ch/software/TMPRED_form.htm STRUCTURE PREDICTION Bryant Lawrence ftp://ncbi.nlm.nih.gov/pub/pkb DALI http://www.embl heidelberg.de/dali/dali.html FSSP http://www.embl heidelberg.de/dali/fssp/fssp.html NI-?è 16/201 ?0′y*ü<?,QBüc?,XNX#?"? 2005 1 18file://E:\wcb\*ó(=μC:?A￥??1 ?0′y*ü<?,QBüc?,XNX#? ... Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om ?5×[) Akrigg, D., Bleasby, A. J., Dix, N. I. M., Findlay, J. B. C., North, A. C. T., Parry Smith, D., Wootton, J. C., Blundell, T. I., Gardner, S. P., Hayes, F., Stemberg, M. J. E., Thornton, J. M., Tickle, I. J., and Murray Rust, P. (1988). A protein sequence/structure database. Nature 335, 745 746. Anfinsen, C. B., Haber, E., Sela, M., and White, F. H. (1961). The kinetics of the formation of native ribonuclease during oxidation of the reduced poly peptide chain. Proc. Natl. Acad. Sci. U.S.A. 47, 1309 1314. Appel, R. D., Bairoch, A., and Hochstrasser, D. F. (1994). A new generation of information retrieval tools for biologists: The example of the ExPASy WWW server. Trends Biochem. Sci. 19, 258 260. Bjellqvist, B., Hughes, G., Pasquali, C., Paquet, N., Ravier, F., Sanchez, J. C., Frutiger, S., and Hochstrasser, D. F. (1993). The focusing positions of polypeptides in immobilized pH gradients can be predicted from their amino acid sequence. Electrophoresis 14, 1023 1031. Brendel, V., Bucher, P., Nourbakhsh, I., Blasidell, B. E., and Karlin, S. (1992). Methods and algorithms for statistical analysis of protein sequences. Proc. Natl. Acad. Sci. U.S.A. 89, 2001 2006. Bryant, S. H., and Altschul, S. F. (1995). Statistics of sequence structure threading. Curr. Opin. Struct. Biol. 5, 236 244. Bryant, S. H., and Lawrence, C. E. (1993). An empircal energy function for threading protein sequence through the folding motif. Proteins 16, 92 112. Burnett, R. M., Darling, G. D., Kendall, D. S., LeQuesne, M. E., Mayhew, S. G., Smith, W. W., and Ludwig, M. L. (1974). The structure of the oxidized form of clostridial favodoxin at 1.9 ? resolution. J. Biol. Chem. 249, 4383 4392. Chothia, C. (1992). One thousand families for the molecular biologist. Nature 357, 543 544. Chothia, C., and Lesk, A. M. (1986). The relation between the divergence of sequence and structure in proteins. EMBO J. 5, 823 826. Cordwell, S. J., Wilkins, M. R., Cerpa Poljak, A., Gooley, A. A., Duncan, M., Williams, K. L., and Humphery Smith, I. (1995). Cross species identification of proteins separated by two dimensional eletrophoresis using matrix assisted laser desorption ionization/time of flight mass spectrometry SWISS MODEL http://expasy.hcuge.ch/swissmod/SWISS MODEL.html TOPITS http://www.embl heidelberg.de/predictprotein/phd_help.html NI-?è 17/201 ?0′y*ü<?,QBüc?,XNX#?"? 2005 1 18file://E:\wcb\*ó(=μC:?A￥??1 ?0′y*ü<?,QBüc?,XNX#? ... Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om and amino acid compsition. Electrophoresis 16, 438 443. Deléage, G., and Roux, B. (1987). An algorithm for protein secondary structure based on class prediction. Protein Eng. 1, 289 294. Eisenhaber, F., Persson, B., and Argos, P. (1995). 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Hoppe Scyler 347, 166. Holm, L., and Sander, C. (1993). Protein structure comparison by alignment of distance matrices. J. Mol. Biol. 233, 123 138. Holm, L., and Sander, C. (1994). The FSSP database of structurally aligned protein fold families. Nucl. Acids Res. 22, 3600 3609. Jones, D. T., and Thornton, J. M. (1996). Poteintial energy functions for threading. Curr. Opin. Struct. Biol. 6, 210 216. Kneller, D. G., Cohen, F. E., and Langridge, R. (1990). Improvemnets in protein secondary structure prediction by and enhanced neural network. J. Mol. Biol. 214, 171 182. Knight, A. E. (1994). The Diversity of Myosin like Proteins (Cambridge: Cambridge University Press). Kyte, J., and Doolittle, R. F. (1982). A simple method for displaying the hydropathic charactor of a protein. J. Mol. Biol. 157, 105 132. Lemer, C. M., Rooman, M. J., and Wodak, S. J. (1995). Protein structure prediction by threading methods: Evaluation of current techniques. Protein 23, 337 355. NI-?è 18/201 ?0′y*ü<?,QBüc?,XNX#?"? 2005 1 18file://E:\wcb\*ó(=μC:?A￥??1 ?0′y*ü<?,QBüc?,XNX#? ... Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Levin, J. M., Robson, B., and Garnier, J. (1986). An algorithm for secondary structure determination in proteins based on sequence similarity. FEBS Lett. 205, 303 308. Levitt, M., and Chothia, C. (1976). Structural patterns in globular proteins. Nature 261, 552 558. Lupas, A., Van Dyke, M., and Stock, J. (1991). Predicting coiled coils from protein sequences. Science 252, 1162 1164. Mehta, P. K., Heringa, J., and Argos, P. (1995). A simple and fast approach to prediction of protein secondary structure from multiply aligned sequences with accuracy above 70%. Protein Sci. 4, 2517 2525. Nielsen, H., Engelbrecht, J., Brunak, S., and von Heijne, G. (1997). Identification of prokaryotic and eukaryotic signal peptides and prediction of their cleavage sites. Protein Eng. 10, 1 6. Papin, D. J. C., Hojrup, P., and Bleasby, A. J. (1993). Rapid identification of proteins by peptide mass fingeprinting. Curr. Biol. 3, 327 332. Pauling, L., and Corey, R. B. (1951). The structure of proteins: Tow hydrogen bonded helical configurations of the polypeptide chain. Proc. Natl. Acad. Sci. U.S.A. 37, 205 211. Peitsch, M. C. (1996). ProMod and SWISS MODEL: Internet based tools for automated comparative protein modelling. Biochem. Soc. Trans. 24, 274 279. Person, B., and Argos, P. (1994). Prediction of transmembrane segments in proteins utilising multiple sequence alignments. J. Mol. Biol. 237, 182 192. Rost, B. (1995). TOPITS: Threading one dimensional predictions into three dimensional structures. In Third International Conference on Intelligent Systems for Molecular Biology. C. Rawlings, D. Clark, R. Altman, L. Hunter, T. Lengauer, and S. Wodak, Eds. (Cambridge: AAA1 Press), pp. 314 321. Rost, B. (1996). PHD: Predicting one dimensional protein structure by profile based neural networks. Methods Enzymol. 266, 525 539. Rost, B., Sander, C., and Schneider, R. (1994). PHD: A mail server for protein secondary structure prediction. CABIOS 10, 53 60. Sander, C., and Schneider, R. (1991). Proteins 9, 56 68. Smith, W. W., Pattridge, K. A., Ludwig, M. L., Petsko, G. A., Tsernoglou, D., Tanaka, M., and Yasunobu, K. T. (1983). Structure of oxidized flavodoxin from Anacystis nidulans. J. Mol. Biol. 165, 737 755. Takano, T. (1977). Structure of myoglobin refined at 2.0 ?. J. Mol. Biol. 110, 537 584. Wilkins, M. R., Pasquali, C., Appel, R. D., Ou, K., Golaz, O., Sanchez, J. NI-?è 19/201 ?0′y*ü<?,QBüc?,XNX#?"? 2005 1 18file://E:\wcb\*ó(=μC:?A￥??1 ?0′y*ü<?,QBüc?,XNX#? ... Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om C., Yan, J. X., Gooley, A. A., Hughes, G., Humphery Smith, I., Williams, K. L., and Hochstrasser, D. F. (1996). From proteins to proteomes: Large scale protein identification by two dimensional electrophoresis and amino acid analysis. Bio/Techniques 14, 61 65. Wilkins, M. R., Lindskog, I., Gasteiger, E., Bairoch, A., Sanchez, J. C., Hochstrasser, D. F., and Appel, R. D. (1997). Detailed peptide characterization using PeptideMass, a World Wide Web accessible tool. Electrophoresis 18, 403 408. V T? NI ?? NI E¨ 2,? ) E¨ 29 X NI-?è 20/201 ?0′y*ü<?,QBüc?,XNX#?"? 2005 1 18file://E:\wcb\*ó(=μC:?A￥??1 ?0′y*ü<?,QBüc?,XNX#? ... Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om Click to buy NOW! PDF XCHANGE ww w.d ocu track.c om