"Hybrid Protein Model": a new clustering approach for 3D local structures: Evolution of Hybrid Protein Model

Texte intégral

(1)”Hybrid Protein Model”: a new clustering approach for 3D local structures Cristina Benros, Serge Hazout, Alexandre de Brevern. To cite this version: Cristina Benros, Serge Hazout, Alexandre de Brevern. ”Hybrid Protein Model”: a new clustering approach for 3D local structures: Evolution of Hybrid Protein Model. 2002, pp.36-45. �inserm00134559�. HAL Id: inserm-00134559 https://www.hal.inserm.fr/inserm-00134559 Submitted on 2 Mar 2007. HAL is a multi-disciplinary open access archive for the deposit and dissemination of scientific research documents, whether they are published or not. The documents may come from teaching and research institutions in France or abroad, or from public or private research centers.. L’archive ouverte pluridisciplinaire HAL, est destinée au dépôt et à la diffusion de documents scientifiques de niveau recherche, publiés ou non, émanant des établissements d’enseignement et de recherche français ou étrangers, des laboratoires publics ou privés..

(2) HAL author manuscript. Proceedings of the Workshop on Bioinformatics - 13th International Symposium on Meth. HAL author manuscript. “Hybrid protein model”: a new clustering approach for 3D local structures. inserm-00134559, version 1. Equipe de Bioinformatique, Génomique et Moléculaire, INSERM U436, Université Paris 7, case 7113, 2, place Jussieu,75251 Paris Cedex 05, FRANCE. C.Benros, S.Hazout, A.G. de Brevern.

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(173) ^bzmoü?^(_?k-mo(k Ck-c?ý[t yabi\CaZ^_ÌabdAnb_ `@b¦*` K. HAL author manuscript inserm-00134559, version 1. %[ÿhY?go^Þ ßAa_?[c?ÿÝa-d(kÞmjgoYuy³moY?gj^[]cZmjaÝA`d fx]^

(174) dÊem \?gjabmj^s[cñdfgk-ÿbi^schmmjgk-cCxtknmo^s_ []chmoaÞ goa-mo^[]c Àx]aeyýe*g` f mjaå*`gfhji-zÅgj[]ÿbüZm3(mjüu^þLü?ahx^\?goa-mj^s[cÝ[]mjgk-cujxtknmj^_ß[]chmoaí*gjabmj^[]cÝ`4x]ayýe6Åj^^êühmjmj\jlkk-y

(175) ahcu_eabg Y?gB>V m}YCjj[^sYV dfgekÌdfahg _e^mok-[]xt

(176) N 7N. n EpoQ=EXMq[r=?> K:&X<qræ>LM :] nts Eu[rwv ûü?^.ÿbahkbxVa-dJ%

(177) ? go[]_*gjabmj^s[càwae_e^sx %:Aw:L[tmjayabi\ukhy³m moü?^\?goa-mo^[]cà}mogjYCy³mjYugj^(^scuy

(178) ae_e^_[]cr*` []cZmjaÌyxYC}mo^g a-d4y

(179) abcZmo[ÿhY?abYu2 mjgoYuy

(180) mjY?go^dfgk-ÿhi^cZmos ^scuy

(181) ^hz¼mjü?^ü

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(183) abi\âahj^s_ra-dF [mj^ k-cC_rdfahg(þLü?[tyü;^ b^sgBr

(184) \CaZ[mj[]abc Ãv[](_?^,u c?^_xå

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(186) _e[t}mogj[ ? Yemo[ahczy7{8}|e~52 þL[mjüz|eå ~ _e^cua-mj[]c?ÿahc?^la-d4mjü?^rs *`"*&. hzI?z]z

(187) vûü?^¦\?go[cCy

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(189) \?goa-mo^[]címjgoYuy³moY?go^[t y

(190) Y?m[]cZmjaan b^sgjxtk-\u\?[cuÿ^sgj[]^s4abdí *`s {«cmjü?^2êkbi\?x^hzmjü?Â`·^sgj[]^s4[t2Ö.Ö¦Ö.Ö¦Ö¦Ö.É¼ÇoØuÒ}Óè-Í$Åj^^%[]ÿbY?go^2bk

(191) WAkbyü \?goa-mo^[]cldfgokbÿbi^cZm4[]4ab\?mj[]ikbxx l

(192) x]aysknmo^s_l[]ck.gj^sÿb[]abclabdVmjü?^vü

(193) ? gj[t_\ugjabmj^[]c:9^s^v%[]ÿbY?go^v(E moüuknm[t4jx][ÿhühmox

(194) iae_e[ u ^s_Iz [Î ^hmjü?^(A` _e[t}mogj[ ? Yemo[ahcêx]aeyk-mj^s_[]cmoü?[tLgj^sÿb[]abcêk-go^2jx][ÿhühmox

(195) y

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(199) ? gj[t_l\?goa-mo^[]cÌk-x]x]anþ mjüu^2mokhyý[c?ÿ.k-cu_mjü?^2yüuk-gkby

(200) mj^sgj[ s= k-mj[]abca-d$k"-% \?goa-moa-m

(201) \â^ 2% dfahg*moü?[]jY5u j^

(202) ma-dIdfahx]_?s?ahg k¦xaeysk-xVmjgoYuy³moY?gj^" _egkÚþLc[]cêmjü?^_?k-moku k-c?ý¼zeþ4^y

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(214) m}þ4^^cm}þ4aü

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(216) k¦j^go[]^s4a-d*`4gokbcu_eabix

(217) abg_e^go^s_Izekbcu_moü?^^y

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(219) ? go[]_\?goa-mj^s[c$. .

(220) HAL author manuscript inserm-00134559, version 1. %[ÿhY?go^5 go[]cuy

(221) []\?x]Âabdumjüu^ %

(222) ?go[t_ goa-mo^[]c.wae_e^s x %+H* w Vmogokb[cu[c?ÿC9k%3dfgokbÿbi^cZma-d%sv*`[] mk-ýb^sc.gk-cC_eabix

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(224) ?go[]_\?goa-mj^s[c$z koy

(225) ahgj^[t moü?^càyabi\?Yemo^s_moG a ucC_êmjü?-^ C^}m2kb_e^XhYCkb,y

(226) 6C^m}þA^s^cmoü?^(dfgk-ÿhi^cZmk-cu_mjü?^.ü

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(232) abdmjü?^dfgk-ÿhi^cZmN*` kbgj^[]cuygj^kbj^s^ _ Åyabx]abgo^sD _ CaÚ>

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(234) \â^[]_e^mj^sgji[]c?^s_"

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(237) ia_?[ u^_àmoa[]cuygj^kbj^(mjüu^ x][ýh^c?^jNa-d moü?[tN\Ck-gjmNa-d*mjü?^¦ü

(238) u gj[t_à\?goa-mo^[]cmjamjüu^.x]aeyk-xmjgoYuy³moY?gj^'Ì¼{«cr\âahj[¥mo[ahc:¼z¼moü?^. nkbxY?^¦a-d*mjü?^">¡¢ê*` y { h }|ef% [tyüuk-cuÿb^s_.[]chmoa/. y { h }|ef'0kA. pjS0 x]xemjüu^La-mjüu^g *`Re£ i üukÚ b^4moü?^[]g nk-x]Y?^s _?^sy

(239) go^skh^;

(240) 6. y { h }|ef¤0kA. c 0S*ûü?^2x^k-goc?[]c?ÿly

(241) a^,¥y

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(244) go^skh^vmoü?ôy

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(247) ¦C ^m}þA^s^c moü?^;y

(248) abcC^y

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(250) abcZmo[ÿhY?abYuÌdfgk-ÿbi^schmy

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(252) \âahj[¥mo[ahcz a-dmjü?^êü

(253) u gj[t_Þ\?goa-mo^[]cÝyüukbgokhy³mj^sgj[ = ^kåy

(254) x]Yumj^g¦a-ddfgokbÿbi^cZmo.a-dNx^sc?ÿ-moü§ }mogjYuy

(255) mjY?gk-x]x

(256) j[i[]x]kbgsûü?[t4j[mj^vikb[cZmk-[]cu*[moyabcZmj[]cY?[¥m

(257) þL[mjümjü?^2y

(258) ahcZmj[]ÿbY?ahYu*j[¥mo^.ÃÊçëj[]cuy

(259) ^mjü?^ l

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(261) ahii¦ahcÌdfahgmjü?^(oy

(262) ahgj^2y

(263) ahi\?Yemj[]c?ÿC N 7HU. ¨©ªVN=?>$UA:© :$<AKe@^T> = >IQKeFRXj<4Xj<« F<P>JV K5X8© F]EboQ=>XjM¬[í=?>Ke:Xj< cah\emj[]ilk-xIü

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(266) ÈÎô*½½

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(269) ^v[]4x]aysknmo^s_l[]cÌmoü?^v\CaZ[mj[]abc6}2[]cmoü?^Nü

(270) ?go[]_Ì\?goa-mj^s[c$z mjüu^Ìdfgk-ÿhi¦^scZmG6L® jü?[¥dÊmo^s_Ýa-d abcu^Ìgo^sj[]_eYu^Ì[]cßmjü?^j^sXZY?^cCy

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(273) ? gj[t_\?gjabmj^s[cV ~ak¦ \?gjabmj^s[c}mogjYCy³mjYugj^2[tgj^s\?gj^^scZmj^s_'Ì

(274) k¦x[]i[¥mo^s_êcY?iâ ^gLabd ü

(275) ? gj[t_. \?goa-mo^[]cgo^ÿh[ahcu f[]![ G¯ÍÇ-ô Âj½Ä-ÔeÉâÄbÒ-Éâ×ÀàôÃÊÈf»ÃÊÉ ÈÊ»u½»ÀbÁÂ³ÃÅÄÌØâÂjÇ-ÈS½ÃÊÉuåûþAargj^sÿb[]abcuabd x^sc?ÿ-moü° kbgj^lgo^s_eYucu_?k-cZm¦[cßmoü?^Ìü

(276) ?go[]_;\ugjabmj^[]c þLü?^scmoü?^[]g y

(277) ahcu^y

(278) Yemo[ h^*` _e[tmjgo[ ?Y?mj[]abcu kbgj^2y

(279) x]ahj^bze[Î ^b k.dfgokbÿbi^cZm ykbc6â^^skh[]x

(280) xaeysknmj^_Ì[]cêmjü?^^2m}þ4a¦gj^sÿb[]abcus ?abggo^s_eYCy

(281) []c?ÿ(moü?^2gj^_eY?cu_?kbcuy,

(282) hzþA^2y

(283) ahi¦\uYemj^_eY?go[]c?ÿ.k¦y,

(284) ey

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(286) ?gj[t_\?goa-mo^[]cà[t f[Î ^b µD;. { 0*Lk-cu_ê[moN^y

(287) abcC_ahc?^[t$ ³ f[Î ^b ³ µ _¶ {¸· { ¹º . { 0*³?goabi mjü?[t ilk-mjgo[¥6 SB

(288) i¦i^mjgo [ =s^s_ dfabg4moü?^vkbcuk- x

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(290) mszeþ4^ e² » » » ²±+* _e^ uc?^¦[cmoü?^y

(291) abc?dfYu[]abcrik-mjgo[¥moü?^.þLüuabx]^._e[tk-ÿhabcukbx]a-d i[cu[ilk-xx]^c?ÿbmjüu z¼[Î ^h ±+*3²}³e²3±+*G ²³2G gÝ ²}³ g3 *^

(292) ?y

(293) ^s^s_e[]c?ÿlkÿh[ h^caysy

(294) Y?gogo^cuy^NcY?i C^sg ¼ { ½¦{«cêabY?gLmjYuA_

(295) hzeþA^2üukÚ h4^ u^_ kbcuG _ ¼ { ½Qmoaê.kbcu_ @h.go^sj\C^y³mo[ h^ x

(296) b iabc?ÿ¦moü?^gj^sÿb[]abc\uk-[]goszeþ4^2j^x]^sy

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(298) àabcu^¦go^ÿh[ahcàa-d4x^sc?ÿ-moü;i¦ahgj^.mjüCk-c ¦[t2go^ m}^sy

(299) mj^_rdfgoabiämoü?^lü

(300) ?gj[t_í\?gjabmj^s[ c

(301) í,y

(302) ey

(303) x]^bLdÊmo^gky

(304) ^sgmk-[]crcY?-i C^sg a-d4,y

(305) ey

(306) x]^ssz¼mjü?^go^s_eYCy³mj[]abcra-dAü

(307) ?go[]_à\?gjabmj ^s[cíx^sc?ÿ-moüí[t2}moab\?\â^s_I 1íâ ?mok-[]crkbcrab\?mj[]ikbxü

(308) ugj[t_\?goa-mo^[]cVz¼mjü?[t â^[]c?ÿ .

(309) y

(310) ahcu_e[mj[]abc?^_'

(311) Ìmjü?^(yü?ah[]y^Nabd moü?^\ukbgokbi¦^mj^sgo (k-cC_' ¼ { ½¦ /. . ¾P#%"³%#. U78O. Ç(a). HPM. PBs. Æ. Å. Nb. obs.. Ç(b) È 2500 È 2000. (c). 2.0 1.5 1.0 0.5 0.0 8 6 4 2 0. Ç(d). 1. 20. Ä40. 60. 80. 100. 1500 1000 500 0. Entropy. inserm-00134559, version 1. p o n m l k j i h g f e d c b a. rmsd. HAL author manuscript. O ¿v=u@hK§Á$oQ=>XjMÂV=?>Ke:Xj< À Ü¦½³Ñ×Â³Ã ØâÈÎÃÅÇnÉ3ÇÓÈÊ»u½»ÀbÁÂ³ÃÅÄ¦Ø¼ÂjÇnÈ«½

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(313) eyx^"Å[9 ^b]z ó nk-x]Y?^2dfabgkü

(314) ?go[]_å\?goa-mo^[]cåabdLx^sc?ÿ-moC ü F.sbuÌ%[ÿhY?go^bküuanþ 2mjü?^y

(315) abi\âahj[¥mo[ahc;a-d4mjü?^ÌA`(k-x]abc?ÿêmoü?^ü

(316) ?gj[t_ \?goa-mo^[]cV.cuk- x

(317) e[tva-d*moü?^ü

(318) ugj[t_r\ugjabmj^[]cíjY?ÿhÿb^smoNmoüuknm2mjüu^¦go^ÿhY?xtk-g2^y

(319) abcC_?k-g

(320) }mogjYuy

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(322) x]^sk-go x

(323) 2_?^

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(325) \C^ abEd Îü?^sx[ty

(326) ^_e[t}mo[c?ÿhY?[tüuk ?x]$^

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(330) N [ Ã¼^go^cZmmogokbcu[mj[]abcC/ C^m}þA^s^c·go^ÿhY?x]kbg^y

(331) ahcu_?k-g

(332) 3mjgoYuy

(333) mjY?go^skbgj^ [t [ ?x]^ xjSü?^x][3moz a jSü?^sx[ â^

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