Query 001660
Match_columns 1036
No_of_seqs 379 out of 1786
Neff 7.9
Searched_HMMs 29240
Date Tue Mar 26 16:45:16 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/001660.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_957-961//hhsearch_pdb/001660hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4f3t_A Protein argonaute-2; hy 1.0 1 1 1488.6 75.1 790 192-1014 18-815 (861)
2 4f1n_A Kpago; argonaute, RNAI, 1.0 1 1 1360.2 58.9 793 192-1016 10-1001(1046)
3 1yvu_A Hypothetical protein AQ 1.0 1 1 829.4 34.8 654 216-1014 5-689 (706)
4 2yhb_A QDE-2, post-transcripti 1.0 1 1 776.6 26.3 375 613-1014 2-395 (437)
5 1u04_A Argonaute, hypothetical 1.0 1 1 753.1 33.8 651 212-1011 2-749 (771)
6 3ho1_A Argonaute; argonaute, p 1.0 1 1 678.0 47.0 639 212-1014 5-666 (685)
7 2yha_A Post-transcriptional ge 1.0 1 1 628.6 27.0 326 613-1014 2-346 (388)
8 2w42_A PIWI, putative uncharac 1.0 1 1 449.3 12.0 363 587-1031 5-405 (427)
9 4g0x_A Protein argonaute 1; MI 1.0 1 1 223.4 15.7 146 615-760 2-147 (147)
10 1vyn_A Argonaute2; nucleic aci 1.0 1 1 218.2 9.9 138 406-546 2-143 (143)
No 1
>4f3t_A Protein argonaute-2; hydrolase/gene regulation, RNAI, slicer, hydrolase-RNA; 2.25A {Homo sapiens} PDB: 4ei1_A 4ei3_A* 1r4k_A 1si2_A 1si3_A
Probab=1.00 E-value=1 Score=1488.63 Aligned_cols=790 Identities=43% Similarity=0.759 Sum_probs=699.7
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCEEEECEEEEECCCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCC
Q ss_conf 99998775686899999899734376134897629985597664315865541011999999999998400287544002
Q 001660 192 APPSSKSVRFPLRPGRGSTGTRCIVKANHFFAELPDKDLHQYDVTITPEVTSRGVNRAVMEQLVKLYRESHLGKRLPAYD 271 (1036)
Q Consensus 192 ~~~~~~~~~~p~RP~~gt~G~~i~v~tN~f~i~i~~~~iy~YdV~i~pe~~~k~~~r~i~~~l~~~~~~~~~~~~~~~yD 271 (1036)
++.+++...+|.||++||.|++|.|+||||++++++..+|||||+|.|+..++++++++++++++.++...+++..++||
T Consensus 18 ~~~~~~~~~~p~RPg~Gt~G~~i~l~aN~F~v~~~~~~ly~Y~V~i~p~~~~~~~~r~i~~~l~~~~~~~~~~~~~~afD 97 (861)
T 4f3t_A 18 PPIQGYAFKPPPRPDFGTSGRTIKLQANFFEMDIPKIDIYHYELDIKPEKCPRRVNREIVEHMVQHFKTQIFGDRKPVFD 97 (861)
T ss_dssp -------CCCCBCCCCCCCSEEEEEEESEEEEECCSCEEEEEEEEEESCSCCHHHHHHHHHHHHHHSCCCCCTTCCCEEC
T ss_pred CCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEEECCCCCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHCCCEEEEC
T ss_conf 85445456679899789888478999556998778886265037847876767799999999998755665068607875
Q ss_pred CCCEEEECCCCCCCCCEEEEEEECCCCCCCCCCCCCEEEEEEEEEEEECHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCC
Q ss_conf 76459942778999631899970699999998888489999998246503548987527899992789999999880498
Q 001660 272 GRKSLYTAGPLPFLSKEFRITLLDDDDGQGGQRREREFKVVIKLAARADLHHLGLFLQGRQADAPQEALQVLDIVLRELP 351 (1036)
Q Consensus 272 G~~~LyS~~~L~~~~~~~~v~~~~~~~~~~~~~~~~~~~v~I~~~~~~~l~~l~~~l~~~~~~~~~~~lq~Lniilr~~~ 351 (1036)
|+++|||+.+||+.+..+++.+.... ..+++.|+|+|++++++++.+|.+|+.+.....+.++||+||||||+.+
T Consensus 98 G~~~l~s~~~L~~~~~~~~~~v~~~~-----~~~~~~~~V~I~~~~~i~l~~L~~~l~g~~~~~~~~~iq~Lniilr~~~ 172 (861)
T 4f3t_A 98 GRKNLYTAMPLPIGRDKVELEVTLPG-----EGKDRIFKVSIKWVSCVSLQALHDALSGRLPSVPFETIQALDVVMRHLP 172 (861)
T ss_dssp SSSEEEESSCCSCSSCEEEEECCC------------CEEEEEEEEEEEEHHHHHHHHHTCSSSCCHHHHHHHHHHHHHHH
T ss_pred CCCEEEECCCCCCCCCCEEEEEECCC-----CCCCCEEEEEEEEEEECCHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHC
T ss_conf 86317888767877863699986378-----8987279999999024388999999649987882899999999997622
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEEECCCCEEEEEEECCEEEEECCCCHHHHHHHHHCCCCC---CCCC
Q ss_conf 8974566754359999986458997699741122210136715896516422485476199999998428999---9999
Q 001660 352 TTRYCPVGRSFYSPDLGRRQPLGEGLESWRGFYQSIRPTQMGLSLNIDMSSTAFIEPLPVIDFVQQLLNRDVS---SRPL 428 (1036)
Q Consensus 352 ~~~~~~~Gr~ff~~~~~~~~~l~~g~e~~~G~~~Svr~~~~~l~lniD~~~~~F~~~~~l~d~~~~~~~~~~~---~~~~ 428 (1036)
++++..+||+||++..+...++++|+|+|+||++|||+++++|+||+|+++++|+++++|+|+++++++.... .+.+
T Consensus 173 ~~~~~~vGR~Ff~~~~~~~~~lg~Gle~w~G~~~Svr~~~~~l~LnvDvs~~~F~~~~~v~d~~~~~~~~~~~~~~~~~~ 252 (861)
T 4f3t_A 173 SMRYTPVGRSFFTASEGCSNPLGGGREVWFGFHQSVRPSLWKMMLNIDVSATAFYKAQPVIEFVCEVLDFKSIEEQQKPL 252 (861)
T ss_dssp HHHSEEETTEEECCC---CCEEETTEEEEEEEEEEEEECSSSEEEEEEEEEEEEECCEEHHHHHHHHHTCSSCC---CCC
T ss_pred CCCCCCCCCCCCCCCCCCEECCCCCEEEEECEEEEEEECCCCCEEEECCCCEEEEECCCHHHHHHHHHCCCCHHHHCCCC
T ss_conf 12464268775589877501168987998450678985178527854143102760770999999986345502203565
Q ss_pred CHHHHHHHHHHCCCEEEEEEECCCCCCEEEEECCCCCCCCCEEEEEC-CCC--CEEEHHHHHHHHCCCCCCCCCCCEEEE
Q ss_conf 96789999987044199995359866249993357899975044315-999--274398999988197667899945991
Q 001660 429 SDADRVKIKKALRGVRVEVTHRGNMRRKYRISGLTSQTTGELTFPVD-ESG--TLKSVVEYFYETYGFVIQHTQWPCLQV 505 (1036)
Q Consensus 429 ~~~~~~~i~~~Lkgl~V~~~y~g~~~r~~~I~gi~~~~~~~~~F~~~-~~g--~~isV~~Yf~~~Y~i~L~~p~lP~v~~ 505 (1036)
++.++.+++++|+|++|.++|.+..+|+|+|.+|++.++++.+|.++ ++| +++||+|||+++|||+|+||+||||++
T Consensus 253 ~~~~~~~~~k~LkGl~V~~t~~~~~~r~yrI~~i~~~pa~~~~F~~~~~~g~~~~iSV~dYFk~kYni~L~~p~lPll~~ 332 (861)
T 4f3t_A 253 TDSQRVKFTKEIKGLKVEITHCGQMKRKYRVCNVTRRPASHQTFPLQQESGQTVECTVAQYFKDRHKLVLRYPHLPCLQV 332 (861)
T ss_dssp CHHHHHHHHHHHTTCEEEESCC---CCEEEEEEEEEEETTTCEEEEECSSSCEEEEEHHHHHHHHHCCCCSCTTSEEEEE
T ss_pred CHHHHHHHHHHHCCCEEEEEECCCCCCEEEEEECCCCCCCCCEEEEECCCCCCEEEEHHHHHHHHCCCCCCCCCCCEEEE
T ss_conf 77899999998579389983037788659995378899877678765278984168889999875395247999763883
Q ss_pred CCCCCCCCCCCCCEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCEEECCCCEEEEE
Q ss_conf 47887742245425731685334469999999999985099557699999998732599981001147287155216553
Q 001660 506 GNQQRPNYLPMEVCKIVEGQRYSKRLNERQITALLKVTCQRPHERERDIMQTVHHNAYHEDPYAREFGIKISEKLASVEA 585 (1036)
Q Consensus 506 ~~~~~~~ylP~Elc~i~~gQ~~~~~l~~~~~~~lik~~~~~P~~R~~~i~~~~~~~~~~~~~~l~~fGi~i~~~~~~v~~ 585 (1036)
|++++++|||||||.|+|||++.++|+++|+++||++++..|.+|.+.|.++++.+.++.+++|++|||+|+++|++|+|
T Consensus 333 g~~~~~~ylP~Elc~i~~gQ~~~~~Lt~~q~s~mik~~~~~P~~R~~~I~~~~~~l~~~~~~~l~~fGi~i~~~~~~v~g 412 (861)
T 4f3t_A 333 GQEQKHTYLPLEVCNIVAGQRCIKKLTDNQTSTMIRATARSAPDRQEEISKLMRSASFNTDPYVREFGIMVKDEMTDVTG 412 (861)
T ss_dssp SCTTTTEEEEGGGEEECTTCBCCSCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCGGGCHHHHHTTCEECSSCEEEEE
T ss_pred CCCCCCCCCCCEEEEEECCCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHHCCCCCHHHHHCCCEEECCEEEEEE
T ss_conf 48888752565668940784455668989999999987549799999999999871689756899779788387568977
Q ss_pred EEECCCCEEECCCCCCCCCCCCCCCCCCCCCEEEECCEECEEEEEEECC--CCCHHHHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf 7808994442379984225996762012382463082203159999268--86668999999999999883295468999
Q 001660 586 RILPAPWLKYHDTGKEKDCLPQVGQWNMMNKKMVNGGTVNHWICINFSR--HVQDSIARGFCFELAQMCYISGMAFNPEP 663 (1036)
Q Consensus 586 rvLp~P~i~y~~~~~~~~~~~~~g~W~~~~~~f~~~~~i~~W~iv~~~~--~~~~~~~~~f~~~L~~~~~~~G~~~~~~p 663 (1036)
||||||+|.|+++.+ ..+.|.+|+||+++++|+.++.+++|++++|.. ...++.++.|++.|.+.|+.+||.+..+|
T Consensus 413 RvL~~P~I~y~~~~~-~~~~~~~g~W~~~~~~f~~~~~l~~W~vv~~~~~~~~~~~~~~~f~~~L~~~~~~~G~~i~~~p 491 (861)
T 4f3t_A 413 RVLQPPSILYGGRNK-AIATPVQGVWDMRNKQFHTGIEIKVWAIACFAPQRQCTEVHLKSFTEQLRKISRDAGMPIQGQP 491 (861)
T ss_dssp EECCCCCEECCSSSC-CEECCBTTBCCCTTCCCTBCCCBCCEEEEECSCTTTSCHHHHHHHHHHHHHHHHHHTCCBCSCC
T ss_pred EEECCCEEEECCCCC-CCCCCCCCCEECCCCEECCCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCC
T ss_conf 982586488568764-3337887851356988702754440599984575444589999999999999850786547997
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEECCCCCCHHHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHH
Q ss_conf 32789999045999999999999875079999619999946999712688998811034702365620220345587999
Q 001660 664 VIPPISARPEHVEKVLKTRYHDAMTKLGQGKELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKHVFKMSKQYMA 743 (1036)
Q Consensus 664 ~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~lvi~ilp~~~~~~Y~~IK~~~e~~~gI~TQci~~~t~~K~~~~~~~ 743 (1036)
.+.......+.++..++.+.+. . .++||||||+|++ .++|+.||++||+++||+||||+.+++.|.++||+.
T Consensus 492 ~~~~~~~~~~~~~~~~~~l~~~----~---~~~qlvl~Ilp~~-~~~Y~~IK~~~~~~~gI~TQcv~~~~~~k~~~q~~~ 563 (861)
T 4f3t_A 492 CFCKYAQGADSVEPMFRHLKNT----Y---AGLQLVVVILPGK-TPVYAEVKRVGDTVLGMATQCVQMKNVQRTTPQTLS 563 (861)
T ss_dssp SEEEECCSSSSHHHHHHHHHHH----S---TTCCEEEEEESSS-CTHHHHHHHHHHHTSCCEEEEEETHHHHSCCHHHHH
T ss_pred EEEEECCCHHHHHHHHHHHHHH----C---CCCCEEEEEECCC-CCHHHHHHHHHCCCCCCCEEEEEECCCCCCCHHHHH
T ss_conf 3777258457899999999852----6---8983899995898-428999999743067842289972122555678999
Q ss_pred HHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCCCCCEEEEEEEECCCCCCCEEEEEEECCCCHH
Q ss_conf 99999985229513212311014777768999299999720799999999946589983078886523679997268715
Q 001660 744 NVALKINVKVGGRNTVLVDAISRRIPLVSDRPTIIFGADVTHPHPGEDSSPSIAAVVASQDWPEVTKYAGLVCAQAHRQE 823 (1036)
Q Consensus 744 Ni~lKiN~KlGG~n~~l~~~~~~~~p~~~~~~tmiiG~DVsHp~~~~~~~pSi~a~vaS~d~~~~~ky~~~~~~q~~~~e 823 (1036)
||+||||+||||+||.+.+.. .|.+...+|||||+||+||++++...|||+|||||+| .++++|.+.+++|.+++|
T Consensus 564 ni~lKiN~KlGG~n~~l~~~~---~~~~~~~~tmiiG~DV~H~~~~~~~~pSiaa~vaS~d-~~~~~y~~~~~~Q~~~~E 639 (861)
T 4f3t_A 564 NLCLKINVKLGGVNNILLPQG---RPPVFQQPVIFLGADVTHPPAGDGKKPSIAAVVGSMD-AHPNRYCATVRVQQHRQE 639 (861)
T ss_dssp HHHHHHHHHTTCBCCEECSTT---SCGGGGSCEEEEEEEEECCC----CCCEEEEEEEECS-SSSCCEEEEEEEESTTCC
T ss_pred HHHHHHHHHCCCCCEECCCCC---CCCCCCCCEEEEEEEECCCCCCCCCCCEEEEEEEECC-CCCCEEEEEEEECCCCCC
T ss_conf 999999886198330446654---6534689658998772146888778865999999847-985658789997589955
Q ss_pred HHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEE
Q ss_conf 75501100378876754036999999999999099994699993278914699999999999999999509999998999
Q 001660 824 LIQDLFKTWQDPVRGAVSGGMIKELLISFRRATGQKPQRIIFYRDGVSEGQFYQVLLYELDAIRKACASLEPNYQPPVTF 903 (1036)
Q Consensus 824 ~i~~~~~~~~~~~~~~~~~~~i~~~L~~f~~~~g~~P~~IiiyRDGvsegq~~~v~~~Ei~~ik~a~~~~~~~y~P~it~ 903 (1036)
+|++| ++|++++|+.|++.++.+|++|||||||||||||++|+++|+++|++||.++..+|+|+|||
T Consensus 640 ~i~~l-------------~~~~~~~L~~~~~~~~~~P~~IiiyRDGVsegq~~~v~~~Ev~~i~~a~~~~~~~~~P~it~ 706 (861)
T 4f3t_A 640 IIQDL-------------AAMVRELLIQFYKSTRFKPTRIIFYRDGVSEGQFQQVLHHELLAIREACIKLEKDYQPGITF 706 (861)
T ss_dssp SCTTH-------------HHHHHHHHHHHHHHHSCCCSEEEEEEESCCGGGHHHHHHHHHHHHHHHHHHHCTTCCCEEEE
T ss_pred HHHHH-------------HHHHHHHHHHHHHHHCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEE
T ss_conf 89989-------------99999999999998289984599992687768899999999999999999854477985799
Q ss_pred EEEEECCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCEEEECCCCCCCCCCCCEEEEEECCCCCCHHHHHHH
Q ss_conf 99920443333224799987557679875730541455578756368410577444457862699954999998889999
Q 001660 904 VVVQKRHHTRLFANNHHDRNAVDRSGNILPGTVVDSKICHPTEFDFYLCSHAGIQGTSRPAHYHVLWDENKFTADGLQSL 983 (1036)
Q Consensus 904 Ivv~Krh~tRff~~~~~~~~~~~~~~N~~pGTvVD~~i~~p~~~dFyL~Sh~~~qGTarPthY~Vl~de~~~~~d~lq~l 983 (1036)
|||+||||||||+.+.++ ..++.+|++||||||++||+|.+|||||+||.++|||||||||+||+||+++++|+||+|
T Consensus 707 Ivv~Krh~tRff~~~~~~--~~~~~~N~~pGTvVD~~it~p~~~dFyL~Sh~~~qGTarPthY~Vl~d~~~~~~d~lq~l 784 (861)
T 4f3t_A 707 IVVQKRHHTRLFCTDKNE--RVGKSGNIPAGTTVDTKITHPTEFDFYLCSHAGIQGTSRPSHYHVLWDDNRFSSDELQIL 784 (861)
T ss_dssp EEEECCSCCCEEESSGGG--CBTTTTBCCTTEEECSSSSCSSBCEEEEECSCCCSSCCCCEEEEEEEETTCCCHHHHHHH
T ss_pred EEEECCCCCEEEECCCCC--CCCCCCCCCCCEECCCCCCCCCCCEEEEEEEECCCCCCCCCEEEEEECCCCCCHHHHHHH
T ss_conf 999725663562258753--334468989840115750258877799988851413666766899837999999999999
Q ss_pred HHHHHHCCCCCCCCCCCCCCCCCCCCCCHHH
Q ss_conf 9997402320386302356642100121146
Q 001660 984 TNNLCYTYARCTRSVSIGKLSLLPAFSYSSA 1014 (1036)
Q Consensus 984 T~~LC~~y~r~t~sVsip~P~~yA~~~~~~~ 1014 (1036)
||+|||+|+|||++||||+|+||||+++..+
T Consensus 785 ty~Lc~~y~~~t~~vsvpaP~yYA~~~a~R~ 815 (861)
T 4f3t_A 785 TYQLCHTYVRCTRSVSIPAPAYYAHLVAFRA 815 (861)
T ss_dssp HHHHTTCCTTSSBCCSSCHHHHHHHHHHHHH
T ss_pred HHHHHHHHHCCCCCCCCCHHHHHHHHHHHHH
T ss_conf 9998655210478887762889999999999
No 2
>4f1n_A Kpago; argonaute, RNAI, RNAse H, RNA binding protein-RNA complex; 3.19A {Vanderwaltozyma polyspora}
Probab=1.00 E-value=1 Score=1360.23 Aligned_cols=793 Identities=24% Similarity=0.371 Sum_probs=644.3
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCEEEECEEEEECCCC---------------------CEEEEEEEECCCCCC-------
Q ss_conf 9999877568689999989973437613489762998---------------------559766431586554-------
Q 001660 192 APPSSKSVRFPLRPGRGSTGTRCIVKANHFFAELPDK---------------------DLHQYDVTITPEVTS------- 243 (1036)
Q Consensus 192 ~~~~~~~~~~p~RP~~gt~G~~i~v~tN~f~i~i~~~---------------------~iy~YdV~i~pe~~~------- 243 (1036)
.+.+.....+|.||+|||.|++|.|+||||.+.+.+. .||+|+|+|.|+...
T Consensus 10 ~~~~~~~~~~p~Rp~yGt~G~~v~l~aN~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y~i~~~~~~~~~~~~~~~ 89 (1046)
T 4f1n_A 10 KEDTHAIYKVENRHDYGTKGTKVDILTNHILLAVGNDVPTEKIDKELVPKLDGWWKTAFIFTYHIDFKPQQKGPPRRGKP 89 (1046)
T ss_dssp --CCCCCCCCCBCCCCCCCSEEEEEEESEEEEECCTTSCTTTSCTTTSCCCCSTTTSCEEEEEEEEEC------------
T ss_pred CCCCCCCCCCCCCCCCCCCCCEEEEEEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCCCC
T ss_conf 87761135478999889899678999637998547775433221112334443335415899889975645665444566
Q ss_pred -------CHHHHHHHHHHHHHHH-HHCCCCCCCCCCCCCEEEECCCCC---CCCCEEEEEEE-----CCCCC--------
Q ss_conf -------1011999999999998-400287544002764599427789---99631899970-----69999--------
Q 001660 244 -------RGVNRAVMEQLVKLYR-ESHLGKRLPAYDGRKSLYTAGPLP---FLSKEFRITLL-----DDDDG-------- 299 (1036)
Q Consensus 244 -------k~~~r~i~~~l~~~~~-~~~~~~~~~~yDG~~~LyS~~~L~---~~~~~~~v~~~-----~~~~~-------- 299 (1036)
+..++.|+..|+.... ...++. .++|||+++|||+.+|| +....+.|.+. ++.++
T Consensus 90 ~~~~~~~~~k~~~ii~~ll~e~~~~~~~~~-~ia~d~~~~L~s~~~L~~~~l~~~~~~v~~~~~~~~~~~~~~~~~~~~~ 168 (1046)
T 4f1n_A 90 VPPQELSKPKKYELIEALLDEDEILYKYRD-RIAFNGEDTIYSHVPLEEFTLFDGCWEVSNKQKKKVVPGMGAPSNKASL 168 (1046)
T ss_dssp -----CCHHHHHHHHHHHHHSCTTTGGGTT-SEEECSSSEEEESSCGGGSTTCTTCCC----------------------
T ss_pred CCCCCCCHHHHHHHHHHHHHHCCHHHHCCC-CEEECCCCCEEECCCCCCCCCCCCCEEEECCCCCCCCCCCCCCCCCCCC
T ss_conf 765322123799999999972613564288-6046472216878767765357776698655334466776654433222
Q ss_pred ---CCCCCCCCEEEEEEEEEEEECHHHHHHHHCCCCCCCH-----HHHHHHHHHHHCCCCCCC---CCCC-CCCCCCCCC
Q ss_conf ---9998888489999998246503548987527899992-----789999999880498897---4566-754359999
Q 001660 300 ---QGGQRREREFKVVIKLAARADLHHLGLFLQGRQADAP-----QEALQVLDIVLRELPTTR---YCPV-GRSFYSPDL 367 (1036)
Q Consensus 300 ---~~~~~~~~~~~v~I~~~~~~~l~~l~~~l~~~~~~~~-----~~~lq~Lniilr~~~~~~---~~~~-Gr~ff~~~~ 367 (1036)
.....+++.|+|+|++++++++.+|.+|+.+...+.+ .+++++|++||++.+... ..++ +++||..+.
T Consensus 169 ~~~~~~~~~~~~~~V~i~~~~~i~l~dL~~~l~~~~~~~~~~~~~~~~i~aL~~il~~~~~~~~~~i~~vg~nkFF~~~~ 248 (1046)
T 4f1n_A 169 QKKIDPELEEMVSQITLKFSGKVGLKDIYNDTTTQDTEVQESRMSAIDKTCLLSLLGAKFMSTDDLIFQVQGNKFFIFNN 248 (1046)
T ss_dssp ---------CGGGGEEEEEEEEEEGGGGGSCSSCCCTTHHHHHHTCHHHHHHHHHHHHHHHCSSSCEEEETTTEEEECST
T ss_pred CCCCCCCCCCCEEEEEEEEEEECCHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEECCCCCCCCCCC
T ss_conf 34555556684599999871051799999997289855443334167899999997556553589648757843046798
Q ss_pred -CCCCCCCCCEEEEEEEEEEEECCCCEEEEEEECCEEEEECC-----------------CCHHHHHHHHHCCCC------
Q ss_conf -98645899769974112221013671589651642248547-----------------619999999842899------
Q 001660 368 -GRRQPLGEGLESWRGFYQSIRPTQMGLSLNIDMSSTAFIEP-----------------LPVIDFVQQLLNRDV------ 423 (1036)
Q Consensus 368 -~~~~~l~~g~e~~~G~~~Svr~~~~~l~lniD~~~~~F~~~-----------------~~l~d~~~~~~~~~~------ 423 (1036)
....+|++|+|+|+|||+|||+++++|+||||+++++||++ ++|+|++.++++...
T Consensus 249 ~~~~~~Lg~Gle~wrGffqSvRpa~~rLlLNvdvs~~aF~k~~~~~~~~~~~~~~~~~p~~lid~l~~~~~~~~~~~~~~ 328 (1046)
T 4f1n_A 249 FAKAIPFQIGGYLLQGFTVSLTHVYGGVALNTVSVPAPFIKHTKYLPGDPRFKNNEKEQFTLMDWIIECYHQSKAIRDIR 328 (1046)
T ss_dssp TCCEEECSSSEEEEEEEEEEEEEETTEEEEEEEEEEEEEECCSSSCTTSHHHHHCTTCCCCHHHHHHHHHHHHHHHHSSS
T ss_pred CCCCCCCCCCEEEEEEEEEEEEECCCCEEEEEECCCEEEEECCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCCC
T ss_conf 77510378817999767666785189408997255111784666676531000135688609999999863333322222
Q ss_pred ----CCCCCCHHHH-------HHHHHHCCCEEEEEEECC-------C-----CCCEEEEECCCCCCCCCEEEEECCC---
Q ss_conf ----9999996789-------999987044199995359-------8-----6624999335789997504431599---
Q 001660 424 ----SSRPLSDADR-------VKIKKALRGVRVEVTHRG-------N-----MRRKYRISGLTSQTTGELTFPVDES--- 477 (1036)
Q Consensus 424 ----~~~~~~~~~~-------~~i~~~Lkgl~V~~~y~g-------~-----~~r~~~I~gi~~~~~~~~~F~~~~~--- 477 (1036)
..+.++..++ .+++++||||+|+++|.+ . ..+.++|.||+..++.+++|.+++.
T Consensus 329 ~~~~~~~~~~~~d~~~f~~~~~kl~k~LKgLkV~vth~~~~~~~~g~~~~~~~~r~k~I~GLs~~~a~~~~F~~~~~~~~ 408 (1046)
T 4f1n_A 329 YNPKTAPPPSVKDLNYFVEKNTDISALLKGLKVYRPYINYSINKDGTPKPPRKRSSKGIVGFTRESAVSMRFNVLESSLK 408 (1046)
T ss_dssp CTTTTSCCCCSSHHHHHHHHCHHHHHHHTTCEECCTTCC--------------CCCEECCEECSSCSSSCC---------
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCEEEECCCCCCC
T ss_conf 23223578755665445678899999848978999866754455665244346664698634689977319961687544
Q ss_pred ----------CCEEEHHHHHHHHCCCCCCCCCCCEEEECCCCCCCCCCCCCEEECCCCCCCCCCCHHHHHHHHHHHCCCC
Q ss_conf ----------9274398999988197667899945991478877422454257316853344699999999999850995
Q 001660 478 ----------GTLKSVVEYFYETYGFVIQHTQWPCLQVGNQQRPNYLPMEVCKIVEGQRYSKRLNERQITALLKVTCQRP 547 (1036)
Q Consensus 478 ----------g~~isV~~Yf~~~Y~i~L~~p~lP~v~~~~~~~~~ylP~Elc~i~~gQ~~~~~l~~~~~~~lik~~~~~P 547 (1036)
++++||+|||+++|||+|+||+||||++|+. .+|||||||.|+|||+|+++|++ +++||++||++|
T Consensus 409 ~~~~~~~g~~~~~iTVadYFk~kYni~LkyP~LPcV~VG~~--~~ylPmElC~I~pGQr~~kKL~~--ts~MIKfAa~rP 484 (1046)
T 4f1n_A 409 KNSAPKPNEKPININTIDYFKRKYDITLKYPDMKLVNLGGK--NDVVPPECLTIVPGQKLKGQIFD--TKTYIDFSAIRP 484 (1046)
T ss_dssp --------------CHHHHHHHHSCCCCSCTTSCCEECSTT--TCEECGGGCCBCTTCBCCSCCCC--HHHHHHHHCCCH
T ss_pred CCCCCCCCCCCEEEEHHHHHHHHHCCCCCCCCCCEEEECCC--CCCCCCCEEEECCCCCCCCCCCC--HHHHHHHHCCCC
T ss_conf 45666677675278899999987394047999877997897--74213104796689624512351--789999875694
Q ss_pred HHHHHHHHHHHH-----HCCCCCCCCCCCCCEEECCCCEEEEEEEECCCCEEECCCCCC-------CCCCCCCCCCCCCC
Q ss_conf 576999999987-----325999810011472871552165537808994442379984-------22599676201238
Q 001660 548 HERERDIMQTVH-----HNAYHEDPYAREFGIKISEKLASVEARILPAPWLKYHDTGKE-------KDCLPQVGQWNMMN 615 (1036)
Q Consensus 548 ~~R~~~i~~~~~-----~~~~~~~~~l~~fGi~i~~~~~~v~~rvLp~P~i~y~~~~~~-------~~~~~~~g~W~~~~ 615 (1036)
.+|.+.|.+... .+..+.++++++|| +|+.+|++|+|||||||.|.|+++... ..+.+++|.|||++
T Consensus 485 ~eR~~~I~~~~~~~~~~~l~~~~~~~l~~FG-~I~~~m~~V~gRVLppP~L~Yg~~~~~~~~~p~~~~~~p~~G~Wnm~~ 563 (1046)
T 4f1n_A 485 TEKFDLISRLSMPAIKRGLTDSEKEESSAPH-NSAYQFMRVPSRILDAPVVQFKESTFEYKDKSYGTKHEESKGNWNMKG 563 (1046)
T ss_dssp HHHHHHHHHHHHHHHHHHTSCCC---------CCSSSCCEEEEEECCCCCEECSSCEECCCCCCSSSSGGGGTTBCCCTT
T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCHHHHHCC-CCCCCEEEEEEEECCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf 9999999999887541024666557678628-756850367788748975761687545555654344576678526888
Q ss_pred CEEEECCE-ECEEEEEEEC-C-C----CCHHHHHHHHHHHHHHHHHCCCCCCCC--CCCC---------CCCC-------
Q ss_conf 24630822-0315999926-8-8----666899999999999988329546899--9327---------8999-------
Q 001660 616 KKMVNGGT-VNHWICINFS-R-H----VQDSIARGFCFELAQMCYISGMAFNPE--PVIP---------PISA------- 670 (1036)
Q Consensus 616 ~~f~~~~~-i~~W~iv~~~-~-~----~~~~~~~~f~~~L~~~~~~~G~~~~~~--p~~~---------~~~~------- 670 (1036)
++|++++. +.+|.++++. . + ...+.+..|++.|++.|+.+||.+..+ |.+. +...
T Consensus 564 ~kf~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~Gm~i~~~~~p~~~~~~~~~~~~~~~~~~~~r~~ 643 (1046)
T 4f1n_A 564 HQFISTPAKQVNLRAIFINNANTAPPASMESELDISMDKFASDVKQLGVDFNVSGKPILINQFGPPIKKFQGGGRGGRGG 643 (1046)
T ss_dssp CCCSBCCSSCEEEEEEEEECSSSCCCGGGHHHHHHHHHHHHHHHHTTTCCEECCSCCEEEESCCSCBC------------
T ss_pred CEEECCCCCCCEEEEEEECCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
T ss_conf 87713786664079999727876665423899999999999999866985478778741213455431112334333233
Q ss_pred -------------------CCHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEECCC-CCCHHHHHHHHHHCCCCCEEEEEE
Q ss_conf -------------------904599999999999987507999961999994699-971268899881103470236562
Q 001660 671 -------------------RPEHVEKVLKTRYHDAMTKLGQGKELDLLIVILPDN-NGSLYGDLKRICETDLGLVSQCCL 730 (1036)
Q Consensus 671 -------------------~~~~~~~~l~~~~~~~~~~~~~~~~~~lvi~ilp~~-~~~~Y~~IK~~~e~~~gI~TQci~ 730 (1036)
..++.+..|..++++ . ..++|||||+|++ +.++|+.||++||+++||+||||+
T Consensus 644 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~----~---~~~~lvl~Ilp~~~~~~~Y~~IK~~~d~~~gV~TQcv~ 716 (1046)
T 4f1n_A 644 RGSRGGRGGRGAPSGPPTFETSPGEISLLNLLEN----I---PSNTYILYVLRRGNDSAVYDRLKYITDLKFGALNSCVV 716 (1046)
T ss_dssp ----------------CCCBCCTTHHHHHHHHHT----C---CTTEEEEEEESSSCCHHHHHHHHHHHTTTTCCCEEEEE
T ss_pred CCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHH----C---CCCCEEEEEECCCCCCHHHHHHHHHHHCCCCCCCEEEE
T ss_conf 3333333333344443211123179999999974----5---89978999966888716899999976135781448984
Q ss_pred ECCCCCCCHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCC----CCCCEEEEEEEECCCCCCCCCCCCEEEEEEEECCC
Q ss_conf 02203455879999999998522951321231101477776----89992999997207999999999465899830788
Q 001660 731 TKHVFKMSKQYMANVALKINVKVGGRNTVLVDAISRRIPLV----SDRPTIIFGADVTHPHPGEDSSPSIAAVVASQDWP 806 (1036)
Q Consensus 731 ~~t~~K~~~~~~~Ni~lKiN~KlGG~n~~l~~~~~~~~p~~----~~~~tmiiG~DVsHp~~~~~~~pSi~a~vaS~d~~ 806 (1036)
.+|+.|.+.||++||+||||+||||+||.|+++. ++.+ +..+|||||+||+|++++. .+||+|||||+| .
T Consensus 717 ~~t~~k~~~q~~~NI~lKiN~KLGG~n~~l~~~~---~~~l~~~~~~~ptMiiG~DVtH~p~~~--~~SiaavVaS~d-~ 790 (1046)
T 4f1n_A 717 WDNFKKNSIQYNSNVVMKMNLKLLGSNHSLSIEN---NKLLIDKESNLPILVLGSDVTHYPEKD--QNSIASLVGSYD-D 790 (1046)
T ss_dssp HHHHTTCCHHHHHHHHHHHHHHTTCBCCEECTTG---GGGGEETTTTEECEEEEEEEECCSSTT--CEEEEEEEECCS-S
T ss_pred HHHHCCCCHHHHHHHHHHHHHHCCCEEEECCCCC---CCCCCCCCCCCCEEEEEEEEECCCCCC--CCEEEEEEEEEC-C
T ss_conf 2351354278999999999986098511436654---432344456773499853111179899--872669999987-9
Q ss_pred CCCCEEEEEEECCC-CHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHH-HCCCCCEEEEEECCCCCHHHHHHHHHHHH
Q ss_conf 86523679997268-71575501100378876754036999999999999-09999469999327891469999999999
Q 001660 807 EVTKYAGLVCAQAH-RQELIQDLFKTWQDPVRGAVSGGMIKELLISFRRA-TGQKPQRIIFYRDGVSEGQFYQVLLYELD 884 (1036)
Q Consensus 807 ~~~ky~~~~~~q~~-~~e~i~~~~~~~~~~~~~~~~~~~i~~~L~~f~~~-~g~~P~~IiiyRDGvsegq~~~v~~~Ei~ 884 (1036)
++++|.+.+++|.+ ++|+|++| ++|+.++|+.|++. ++.+|++|||||||||||||.+|+++|++
T Consensus 791 ~~t~y~s~~~~Q~~~~~Eii~~L-------------~~~~~~~L~~y~~~n~~~lP~~IIiYRDGVSEGQf~~Vl~~Ev~ 857 (1046)
T 4f1n_A 791 KFTQFPGDYMLQDGPGEEIITNV-------------GSLMLNRLKIYQKHNNGKLPTKIMYFRDGVSVDQFSQVVKIEVK 857 (1046)
T ss_dssp SCCCCCEEEEEEEEETCCSCTTG-------------GGGHHHHHHHHHHTTTTCCCSSEEEEEESCCGGGHHHHHHTHHH
T ss_pred CCCEEEEEEEEECCCCCCHHHHH-------------HHHHHHHHHHHHHHCCCCCCCEEEEEECCCCHHHHHHHHHHHHH
T ss_conf 85858359998458872489889-------------99999999999986379998579998068765778999999999
Q ss_pred HHHHHHHHCC------CCCCCCEEEEEEEECCCCCCCCCCCCCCC------CCCCCCCCCCCEEEECCCCCCCCCCEEEE
Q ss_conf 9999999509------99999899999920443333224799987------55767987573054145557875636841
Q 001660 885 AIRKACASLE------PNYQPPVTFVVVQKRHHTRLFANNHHDRN------AVDRSGNILPGTVVDSKICHPTEFDFYLC 952 (1036)
Q Consensus 885 ~ik~a~~~~~------~~y~P~it~Ivv~Krh~tRff~~~~~~~~------~~~~~~N~~pGTvVD~~i~~p~~~dFyL~ 952 (1036)
+|++||.++. ++|.|+||||||+||||||||+.+.++.+ +.++.+|++||||||++||+|.+|||||+
T Consensus 858 ~Ik~a~~~~~~~~~~~~~y~Pkit~IVV~KRhhtRfF~~~~~~~d~~g~~~~~~~~~N~~pGTVVD~~It~p~~~DFyL~ 937 (1046)
T 4f1n_A 858 SIKESVRKFGPQLNGGNKYDPPVTCIATVKRNQVRFIPIQENAKNEKGEEVAVQSMGNVMPGTVVDRGITSVAHFDFFIQ 937 (1046)
T ss_dssp HHHHHHHHHTHHHHTSCCCCCCEEEEEEECSCSCCEEECCSEEECTTSCEEECEETTEECTTEEECSSSSCSSBEEEEEE
T ss_pred HHHHHHHHHHHHCCCCCCCCCCEEEEEEECCCCCEEEECCCCCCCCCCCCCCCCCCCCCCCCCEEECCCCCCCCCEEEEE
T ss_conf 99999998543003455779877999996576423511455543333443234566799997286466456674128997
Q ss_pred CCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHH
Q ss_conf 0577444457862699954999998889999999740232038630235664210012114666
Q 001660 953 SHAGIQGTSRPAHYHVLWDENKFTADGLQSLTNNLCYTYARCTRSVSIGKLSLLPAFSYSSACT 1016 (1036)
Q Consensus 953 Sh~~~qGTarPthY~Vl~de~~~~~d~lq~lT~~LC~~y~r~t~sVsip~P~~yA~~~~~~~~~ 1016 (1036)
||.++|||||||||+||+||+++++|+||+|||+|||+|+|||++||||+|+||||+++..+..
T Consensus 938 Sh~~~qGTarPthY~VL~De~~~~~d~lQ~LTy~LC~~y~r~t~sVsvPaP~yYAhlla~R~r~ 1001 (1046)
T 4f1n_A 938 SHQALKGTGVPCHYWCLYDENQSTSDYLQEICNNLCYIFGRSTTSVKVPAPVYYADLLCTRATC 1001 (1046)
T ss_dssp CSCCCSSSCCCEEEEEEEESSCCCHHHHHHHHHHTTSCCTTSSBCCSSCHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHH
T ss_conf 0334777665737999967999998999999999865533517886255789999999999999
No 3
>1yvu_A Hypothetical protein AQ_1447; RNAse H fold, RNA binding protein, gene regulation; 2.90A {Aquifex aeolicus} SCOP: b.34.14.1 c.55.3.10 PDB: 2f8s_A 2f8t_A 2nub_A
Probab=1.00 E-value=1 Score=829.43 Aligned_cols=654 Identities=15% Similarity=0.151 Sum_probs=490.7
Q ss_pred EEECEEEEECCCC-CEE-EEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEEECCCCCCCCCEEEEEE
Q ss_conf 7613489762998-559-76643158655410119999999999984002875440027645994277899963189997
Q 001660 216 VKANHFFAELPDK-DLH-QYDVTITPEVTSRGVNRAVMEQLVKLYRESHLGKRLPAYDGRKSLYTAGPLPFLSKEFRITL 293 (1036)
Q Consensus 216 v~tN~f~i~i~~~-~iy-~YdV~i~pe~~~k~~~r~i~~~l~~~~~~~~~~~~~~~yDG~~~LyS~~~L~~~~~~~~v~~ 293 (1036)
...|.|+++...+ +-| .+ +-+.|+.+.++++..|..++ . .| ++.|....-.|.+.+...+. +-...
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~----~--~~--~~~~~~~~~~~~~~~~~~~~--~~~~~ 72 (706)
T 1yvu_A 5 ALLNLYRIEYRPKDTTFTVF--KPTHEIQKEKLNKVRWRVFL----Q--TG--LPTFRREDEFWCAGKVEKDT--LYLTL 72 (706)
T ss_dssp CEESEEEEEECCSSCEEBCC--EESSCCCHHHHHHHHHHHHH----H--HC--SCEEEETTEEEESSCCTTCC--CEEEE
T ss_pred HHHHHHEEEECCCCCEEEEE--CCHHHHHHHHHHHEEEEEEE----E--CC--CCCCCCCCCCEECCCCCCCE--EEEEC
T ss_conf 65354425513677336763--45078878764120147651----0--17--86520153103435201324--89981
Q ss_pred ECCCCCCCCCCCCCEEEEEEEEEEEECHHHHHHHHCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 06999999988884899999982465035489875278999927899999998804988974566754359999986458
Q 001660 294 LDDDDGQGGQRREREFKVVIKLAARADLHHLGLFLQGRQADAPQEALQVLDIVLRELPTTRYCPVGRSFYSPDLGRRQPL 373 (1036)
Q Consensus 294 ~~~~~~~~~~~~~~~~~v~I~~~~~~~l~~l~~~l~~~~~~~~~~~lq~Lniilr~~~~~~~~~~Gr~ff~~~~~~~~~l 373 (1036)
.++ . +|+|++++++.. ..-..+.+++|+++++++.. ..++..+||+||++. ....+
T Consensus 73 ~~~----------~--~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~-~l~~~~igr~~~~~~--~~~~i 128 (706)
T 1yvu_A 73 SNG----------E--IVELKRVGEEEF---------RGFQNERECQELFRDFLTKT-KVKDKFISDFYKKFR--DKITV 128 (706)
T ss_dssp CSS----------S--CEEEEECCCEEC---------CCCSCHHHHHHHHHHHHHHT-CHHHHHHHHHHHHHH--HHHEE
T ss_pred CCC----------C--EEEEEEEEEEEC---------CCCCCCHHHHHHHHHHHHHC-CCHHHHHCCCCCCCC--CCCCC
T ss_conf 799----------7--899999988615---------67899989999999999975-774755172445833--56205
Q ss_pred ---CCCEEEEEEEEEEEECCC-CEEEEEEECCEEEEECCCCHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCCEEEEEEE
Q ss_conf ---997699741122210136-7158965164224854761999999984289999999967899999870441999953
Q 001660 374 ---GEGLESWRGFYQSIRPTQ-MGLSLNIDMSSTAFIEPLPVIDFVQQLLNRDVSSRPLSDADRVKIKKALRGVRVEVTH 449 (1036)
Q Consensus 374 ---~~g~e~~~G~~~Svr~~~-~~l~lniD~~~~~F~~~~~l~d~~~~~~~~~~~~~~~~~~~~~~i~~~Lkgl~V~~~y 449 (1036)
.+.+|+|+||.+||+..+ ++++||+|++|+ |.+..+|+|+|.+ ... . . ..+..+|
T Consensus 129 ~~~~~~l~iwPG~~tsi~~~e~~~~~L~~DvshK-vlr~~Tvld~l~~-~~~-~-----~-------------~~~~~~y 187 (706)
T 1yvu_A 129 QGKNRKIALIPEVNEKVLKSEEGYFLLHLDLKFR-IQPFETLQTLLER-NDF-N-----P-------------KRIRVKP 187 (706)
T ss_dssp ECSSCEEEEEEEEEEEEEEBSSSCEEEEEEEEEE-EEESSCHHHHHHH-CCC-C-----C-------------TTCEEEE
T ss_pred CCCCCCEEECCCEEEEEEECCCCCEEEEEEEEEE-ECCCCHHHHHHHH-HHH-C-----C-------------HHHHHHC
T ss_conf 6778767981686889885267875999973404-5566539999997-230-4-----6-------------5688643
Q ss_pred CCCCCCEE--EEECC-CCCCCCCEEEEECCCCCEEEHHHHHHHHCCCC--------CCCCCCCEEEECCCCCCCCCCCCC
Q ss_conf 59866249--99335-78999750443159992743989999881976--------678999459914788774224542
Q 001660 450 RGNMRRKY--RISGL-TSQTTGELTFPVDESGTLKSVVEYFYETYGFV--------IQHTQWPCLQVGNQQRPNYLPMEV 518 (1036)
Q Consensus 450 ~g~~~r~~--~I~gi-~~~~~~~~~F~~~~~g~~isV~~Yf~~~Y~i~--------L~~p~lP~v~~~~~~~~~ylP~El 518 (1036)
+ +++| +|++| +++.++.++|. + |..+| ||+++|+++ .+.+.+|+++.+. +. .|+++
T Consensus 188 ~---n~ty~~riddi~~~~~~P~~~f~-~--g~~iS---Yyk~~~~~~q~ll~~r~~~~~~~~~~v~~~--~~--~p~~l 254 (706)
T 1yvu_A 188 I---GIDFVGRVQDVFKAKEKGEEFFR-L--CMERS---THKSSKKAWEELLKNRELREKAFLVVLEKG--YT--YPATI 254 (706)
T ss_dssp T---TCCCCEEEEEEEESTTSCHHHHH-H--HHHTC---SSHHHHHHHHHHHHCHHHHHHCEEEEETTS--CE--EEGGG
T ss_pred C---CCEECCCCCCCCCCCCCCCEEEC-C--CCCCC---EEECCCCCCHHHHHCCCCCCCCCEEEECCC--CC--CCCEE
T ss_conf 2---55633365740046889513842-8--99755---585146754144430244567724884268--87--78644
Q ss_pred EEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCEEECCCCEEEEEEEECCCCEEECCC
Q ss_conf 57316853344699999999999850995576999999987325999810011472871552165537808994442379
Q 001660 519 CKIVEGQRYSKRLNERQITALLKVTCQRPHERERDIMQTVHHNAYHEDPYAREFGIKISEKLASVEARILPAPWLKYHDT 598 (1036)
Q Consensus 519 c~i~~gQ~~~~~l~~~~~~~lik~~~~~P~~R~~~i~~~~~~~~~~~~~~l~~fGi~i~~~~~~v~~rvLp~P~i~y~~~ 598 (1036)
|..+ -+..+|+++|+++|+++++.+|++|.+.|.++++.+ +++|++|||+|+++|++|+|||||+|+|.++.+
T Consensus 255 L~pl---c~~t~Ltd~q~~~mik~t~~~P~~R~~~i~~~~~~~----~~~L~~fGi~i~~~~~~v~gRVLp~P~i~~~~g 327 (706)
T 1yvu_A 255 LKPV---LTYENLEDEERNEVADIVRMEPGKRLNLIRYILRRY----VKALRDYGWYISPEEERAKGKLNFKDTVLDAKG 327 (706)
T ss_dssp EEEC---CCCC------HHHHTSTTSCCHHHHHHHHHHHHHHH----HHHHHTTTEEECSSCEECCEECCCCCCEECSSC
T ss_pred ECCC---CCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHH----HHHHHHCCCEECCCEEECCCEECCCCEEECCCC
T ss_conf 3001---213799999999999998259999999999999998----999997698888864221368738950664789
Q ss_pred CCCCCCCCCCCCCCCCCCEEEECCEECE---EEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHH
Q ss_conf 9842259967620123824630822031---5999926886668999999999999883295468999327899990459
Q 001660 599 GKEKDCLPQVGQWNMMNKKMVNGGTVNH---WICINFSRHVQDSIARGFCFELAQMCYISGMAFNPEPVIPPISARPEHV 675 (1036)
Q Consensus 599 ~~~~~~~~~~g~W~~~~~~f~~~~~i~~---W~iv~~~~~~~~~~~~~f~~~L~~~~~~~G~~~~~~p~~~~~~~~~~~~ 675 (1036)
..........+.|++. ++|+.++.+++ |.++ +..+ +..++.|++.|.+.|+.+||.++.++...... +.+
T Consensus 328 ~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~lW~~i-~~~~--~~~~~~f~~~L~~~~~~~G~~i~~p~~~~~~~---~~~ 400 (706)
T 1yvu_A 328 KNTKVITNLRKFLELC-RPFVKKDVLSVEIISVSV-YKKL--EWRKEEFLKELINFLKNKGIKLKIKGKSLILA---QTR 400 (706)
T ss_dssp CEECCSSCCHHHHHHC-CCCCSCSEEEEEEEEEEC--------CHHHHHHHHHHHHHHTTTCEEEEEEEEEEEC---SST
T ss_pred CCCEECCCCCCCCCCC-CCEECCCCCCCCEEEEEE-ECCH--HHHHHHHHHHHHHHHHHCCCEECCCCCCCCCC---HHH
T ss_conf 7430236875430003-741114325643389998-1661--68999999999999987496206874223340---019
Q ss_pred HHHHHHHHHHHHHHCCCCCCCCEEEEEECCC-------CCCHHHHHHHHHHCCCCCEEEEEEECCCCCC-CHHHHHHHHH
Q ss_conf 9999999999987507999961999994699-------9712688998811034702365620220345-5879999999
Q 001660 676 EKVLKTRYHDAMTKLGQGKELDLLIVILPDN-------NGSLYGDLKRICETDLGLVSQCCLTKHVFKM-SKQYMANVAL 747 (1036)
Q Consensus 676 ~~~l~~~~~~~~~~~~~~~~~~lvi~ilp~~-------~~~~Y~~IK~~~e~~~gI~TQci~~~t~~K~-~~~~~~Ni~l 747 (1036)
+..++.+..... ...+++|+|||+|++ +.++|+.||++|+ ++||+||||+.+|+.+. ..+++.||+|
T Consensus 401 ~~~~~~l~~~~~----~~~~~qlvlvIlp~~~~~~~~~~~~~Y~~IK~~~~-~~GI~TQcv~~~tl~~~~~~q~~~NI~l 475 (706)
T 1yvu_A 401 EEAKEKLIPVIN----KIKDVDLVIVFLEEYPKVDPYKSFLLYDFVKRELL-KKMIPSQVILNRTLKNENLKFVLLNVAE 475 (706)
T ss_dssp THHHHHHHHHHT----TTSSCSEEEEEEC----------CHHHHHHHHHHH-HTTCCCEEEEHHHHHHSCHHHHHHHHHH
T ss_pred HHHHHHHHHHHC----CCCCCCEEEEEECCCCCCCCCCCCCHHHHHHHHHH-CCCCCEEEEEHHHCCCCCHHHHHHHHHH
T ss_conf 999999998750----05899589999777444455567547999999985-2898549980102166530789999999
Q ss_pred HHHHHCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCCCCCEEEEEEEECCCC--CCCEEEEEEECCCCHHHH
Q ss_conf 998522951321231101477776899929999972079999999994658998307888--652367999726871575
Q 001660 748 KINVKVGGRNTVLVDAISRRIPLVSDRPTIIFGADVTHPHPGEDSSPSIAAVVASQDWPE--VTKYAGLVCAQAHRQELI 825 (1036)
Q Consensus 748 KiN~KlGG~n~~l~~~~~~~~p~~~~~~tmiiG~DVsHp~~~~~~~pSi~a~vaS~d~~~--~~ky~~~~~~q~~~~e~i 825 (1036)
|||+||||+||.|+++ ...+|||||+||+||+.+. ..||++|+|+|+| .. +++|.+....| .++|++
T Consensus 476 kiN~KLGG~nw~L~~~--------~~~~tmiIGiDVsH~~~~~-~~pSv~g~vas~d-~~g~~~~~~~~~~~q-~~~ei~ 544 (706)
T 1yvu_A 476 QVLAKTGNIPYKLKEI--------EGKVDAFVGIDISRITRDG-KTVNAVAFTKIFN-SKGELVRYYLTSYPA-FGEKLT 544 (706)
T ss_dssp HHHHHTTCCSCEESCC--------TTCCSEEEEECEEECCCSS-SCCCEEEEEEEEC-TTSCEEEEEEEEECS-CTTHHH
T ss_pred HHHHHHCCEEEEECCC--------CCCCEEEEEEEEECCCCCC-CCCEEEEEEEEEC-CCCCEEEEEEEECCC-CCCHHH
T ss_conf 9999849861560258--------8885599999886168788-8856999999985-899889999873366-642699
Q ss_pred HHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEE
Q ss_conf 50110037887675403699999999999909999469999327891469999999999999999950999999899999
Q 001660 826 QDLFKTWQDPVRGAVSGGMIKELLISFRRATGQKPQRIIFYRDGVSEGQFYQVLLYELDAIRKACASLEPNYQPPVTFVV 905 (1036)
Q Consensus 826 ~~~~~~~~~~~~~~~~~~~i~~~L~~f~~~~g~~P~~IiiyRDGvsegq~~~v~~~Ei~~ik~a~~~~~~~y~P~it~Iv 905 (1036)
+++ +..+|+.|.++++.+|++|||||||||| ++|+++|++||.+ |.|+||||+
T Consensus 545 ~~l----------------~~~~l~~~~~~~~~~P~rIIiyRDGVse-------~~El~~Ik~A~~~----~~pkit~Iv 597 (706)
T 1yvu_A 545 EKA----------------IGDVFSLLEKLGFKKGSKIVVHRDGRLY-------RDEVAAFKKYGEL----YGYSLELLE 597 (706)
T ss_dssp HHH----------------HHHHHHHHHHTTCCTTCEEEEEESSCCC-------HHHHHHHHHHHHH----HTCEEEEEE
T ss_pred HHH----------------HHHHHHHHHHHCCCCCCEEEEEECCCCC-------HHHHHHHHHHHHH----CCCCEEEEE
T ss_conf 999----------------9999999998649998379999688885-------8999999999997----299479999
Q ss_pred EEECCCCCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCEEEECCCC-CCCCCCCCEEEEEECCCCCCHHHHHHHH
Q ss_conf 920443333224799987557679875730541455578756368410577-4444578626999549999988899999
Q 001660 906 VQKRHHTRLFANNHHDRNAVDRSGNILPGTVVDSKICHPTEFDFYLCSHAG-IQGTSRPAHYHVLWDENKFTADGLQSLT 984 (1036)
Q Consensus 906 v~Krh~tRff~~~~~~~~~~~~~~N~~pGTvVD~~i~~p~~~dFyL~Sh~~-~qGTarPthY~Vl~de~~~~~d~lq~lT 984 (1036)
|+||||+|||+.+ ||+||||||. ..+||||++|.+ +|||+|||||+|+++|. ++|+||+||
T Consensus 598 V~Krh~tRfF~~~-----------np~pGTvVD~-----~~~~ffL~ss~~~~qGT~rPthY~vv~~D~--~~d~Lq~lt 659 (706)
T 1yvu_A 598 IIKRNNPRFFSNE-----------KFIKGYFYKL-----SEDSVILATYNQVYEGTHQPIKVRKVYGEL--PVEVLCSQI 659 (706)
T ss_dssp EECSSCCCEECSC-----------SCCTTEEEEB-----SSSEEEECCSCCCSTTCCCCEEEEEEECSS--CHHHHHHHH
T ss_pred EEECCCEEEECCC-----------CCCCEEEEEC-----CCCEEEEEECCCCCCCCCCCEEEEEEECCC--CHHHHHHHH
T ss_conf 9704671587889-----------9997389972-----797699994477667887887999991899--999999999
Q ss_pred HHHHHCCCCCCCCCCCCCCCCCCCCCCHHH
Q ss_conf 997402320386302356642100121146
Q 001660 985 NNLCYTYARCTRSVSIGKLSLLPAFSYSSA 1014 (1036)
Q Consensus 985 ~~LC~~y~r~t~sVsip~P~~yA~~~~~~~ 1014 (1036)
|+|||+|+|||++||+|+|+||||+++..+
T Consensus 660 y~Lc~ly~r~t~svslPaPiyYAhllA~r~ 689 (706)
T 1yvu_A 660 LSLTLMNYSSFQPIKLPATVHYSDKITKLM 689 (706)
T ss_dssp HHGGGGGCCSSSCCCSCTTTTTHHHHHHHH
T ss_pred HHHHHHCCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf 998986016489960475899999999999
No 4
>2yhb_A QDE-2, post-transcriptional gene silencing protein QDE-2; RNA binding protein, argonaute, miRNA, siRNA; 3.65A {Neurospora crassa}
Probab=1.00 E-value=1 Score=776.64 Aligned_cols=375 Identities=30% Similarity=0.503 Sum_probs=326.5
Q ss_pred CCCCEEEE-CCEECEEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCC
Q ss_conf 23824630-82203159999268866689999999999998832954689993278999904599999999999987507
Q 001660 613 MMNKKMVN-GGTVNHWICINFSRHVQDSIARGFCFELAQMCYISGMAFNPEPVIPPISARPEHVEKVLKTRYHDAMTKLG 691 (1036)
Q Consensus 613 ~~~~~f~~-~~~i~~W~iv~~~~~~~~~~~~~f~~~L~~~~~~~G~~~~~~p~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 691 (1036)
|++++|++ ++.+++|+++++..+.+...++.|++.|.+.|+.+||.++.+........+ ++.+..+ .+++..+
T Consensus 2 ~~~~~f~~p~~~l~~W~vv~~~~~~~~~~~~~f~~~l~~~~~~~G~~i~~p~~~~~~~~~-~~~~~~~--~~~~~~~--- 75 (437)
T 2yhb_A 2 AMAVKVARPCRKIEKWTYLELKGSKANEGVPQAMTAFAEFLNRTGIPINPRFSPGMSMSV-PGSEKEF--FAKVKEL--- 75 (437)
T ss_dssp ---CCCSBCCCCBCSEEEEEEECSSCCCCHHHHHHHHHHHHHHTTCCBCSCCCCCEEEEC-CSSHHHH--HHHHHHH---
T ss_pred CCCCEECCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEECCCCCCCEECCC-CCHHHHH--HHHHHHC---
T ss_conf 988886269972777999991277787999999999999998769771799876410377-8658887--9987504---
Q ss_pred CCCCCCEEEEEECCCCCCHHHHHHHHHHCCCCCEEEEEEECCCCCCCHH--HHHHHHHHHHHHCCCCCCCCCCCCCCCCC
Q ss_conf 9999619999946999712688998811034702365620220345587--99999999985229513212311014777
Q 001660 692 QGKELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKHVFKMSKQ--YMANVALKINVKVGGRNTVLVDAISRRIP 769 (1036)
Q Consensus 692 ~~~~~~lvi~ilp~~~~~~Y~~IK~~~e~~~gI~TQci~~~t~~K~~~~--~~~Ni~lKiN~KlGG~n~~l~~~~~~~~p 769 (1036)
..+++|||||+|+++.++|+.||++||+++||+||||+.+|+.|.++| |+.||+||||+||||+||.|+++ +|
T Consensus 76 -~~~~~lvl~ilp~~~~~~Y~~iK~~~~~~~gI~TQcv~~~~~~k~~~q~s~~~Ni~lKiN~KlGG~n~~l~~~----~~ 150 (437)
T 2yhb_A 76 -MSSHQFVVVLLPRKDVAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQLGYFANVGLKVNLKFGGTNHNIKTP----IP 150 (437)
T ss_dssp -HHTCSEEEEEESSCCHHHHHHHHHHHHTTSCCEEEEEEHHHHHCSTTHHHHHHHHHHHHHHHTTCBCCCCSSC----CH
T ss_pred -CCCCCEEEEEECCCCHHHHHHHHHHHHCCCCCCCEEEEHHHHCCCCCHHHHHHHHHHHHHHHHCCCCEECCCC----CC
T ss_conf -5898389999788983489999998701568541897266724766289999999999999849924023666----45
Q ss_pred CCCCCCEEEEEEEECCCC---CC--CCCCCCEEEEEEEECCCCCCCEEEEEEECC-CCHHHHHHHHCCCCCCCCCCCHHH
Q ss_conf 768999299999720799---99--999994658998307888652367999726-871575501100378876754036
Q 001660 770 LVSDRPTIIFGADVTHPH---PG--EDSSPSIAAVVASQDWPEVTKYAGLVCAQA-HRQELIQDLFKTWQDPVRGAVSGG 843 (1036)
Q Consensus 770 ~~~~~~tmiiG~DVsHp~---~~--~~~~pSi~a~vaS~d~~~~~ky~~~~~~q~-~~~e~i~~~~~~~~~~~~~~~~~~ 843 (1036)
++.+.+|||||+||+||+ ++ ....|||+|+|||+| .++++|.+.+++|. +++|+|++| ++
T Consensus 151 ~~~~~~tmiiG~DV~H~~~~~~g~~~~~~pSiaa~vaS~d-~~~~~y~~~~~~Q~~~~~E~i~~l-------------~~ 216 (437)
T 2yhb_A 151 LLAKGKTMVVGYDVTHPTNLAAGQSPASAPSIVGLVSTID-QHLGQWPAMVWNNPHGQESMTEQF-------------TD 216 (437)
T ss_dssp HHHTTCEEEEEEEECCCSCCCTTCCSTTSCEEEEEEECCS-TTCCCCCEEEEEETTTHHHHHHHH-------------HH
T ss_pred CCCCCCEEEEEEEEECCCCCCCCCCCCCCCEEEEEEEECC-CCCCEEEEEEEECCCCCHHHHHHH-------------HH
T ss_conf 4577877999888752565567776789997999987349-996744027898677644489999-------------99
Q ss_pred HHHHHHHHHHH---HHCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCC-CCCEEEEEEEECCCCCCCCCCC
Q ss_conf 99999999999---9099994699993278914699999999999999999509999-9989999992044333322479
Q 001660 844 MIKELLISFRR---ATGQKPQRIIFYRDGVSEGQFYQVLLYELDAIRKACASLEPNY-QPPVTFVVVQKRHHTRLFANNH 919 (1036)
Q Consensus 844 ~i~~~L~~f~~---~~g~~P~~IiiyRDGvsegq~~~v~~~Ei~~ik~a~~~~~~~y-~P~it~Ivv~Krh~tRff~~~~ 919 (1036)
|++++|+.|++ +++.+|++|||||||||||||.+|+++|+++|++||.++..+| .|+||||||+||||||||+.+.
T Consensus 217 ~~~~~L~~~~~~~~~~~~~P~rIiiyRDGVseGqf~~V~~~El~~i~~a~~~~~~~~~~p~it~Ivv~Krh~tRff~~~~ 296 (437)
T 2yhb_A 217 KFKTRLELWRSNPANNRSLPENILIFRDGVSEGQFQMVIKDELPLVRAACKLVYPAGKLPRITLIVSVKRHQTRFFPTDP 296 (437)
T ss_dssp HHHHHHHHHHTCGGGTTCCCSEEEEEEESCCTTTHHHHHHHTHHHHHHHHHHHSCTTCCCEEEEEEEC------------
T ss_pred HHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEECCCCEECCCCC
T ss_conf 99999999986554337998638999177566779999999999999999985043679877999997145532546775
Q ss_pred CCCCCCCCCCCCCCCEEEECCCCCCCCCCEEEECCCCCCCCCCCCEEEEEECCC------CCCHHHHHHHHHHHHHCCCC
Q ss_conf 998755767987573054145557875636841057744445786269995499------99988899999997402320
Q 001660 920 HDRNAVDRSGNILPGTVVDSKICHPTEFDFYLCSHAGIQGTSRPAHYHVLWDEN------KFTADGLQSLTNNLCYTYAR 993 (1036)
Q Consensus 920 ~~~~~~~~~~N~~pGTvVD~~i~~p~~~dFyL~Sh~~~qGTarPthY~Vl~de~------~~~~d~lq~lT~~LC~~y~r 993 (1036)
.+.+ .+.+||+||||||++||+|.+|||||+||.++|||+|||||+||+||+ ++++|+||+|||+|||+|+|
T Consensus 297 ~~~~--~~~~N~~pGTvVD~~it~p~~~dFyL~Sh~~~qGTarPthY~Vl~de~f~~~~~~~~~d~lq~lTy~Lc~~y~r 374 (437)
T 2yhb_A 297 KHIH--FKSKSPKEGTVVDRGVTNVRYWDFFLQAHASLQGTARSAHYTVLVDEIFRADYGNKAADTLEQLTHDMCYLFGR 374 (437)
T ss_dssp ---------------------------------------------CEEEEEESSHHHHHGGGHHHHHHHHHHHHHTC---
T ss_pred CCCC--CCCCCCCCCEEECCCCCCCCCCEEEEEECCCCCCCCCCEEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHCC
T ss_conf 4334--46689998557156446777732899733121046876389999378543235799989999999998775203
Q ss_pred CCCCCCCCCCCCCCCCCCHHH
Q ss_conf 386302356642100121146
Q 001660 994 CTRSVSIGKLSLLPAFSYSSA 1014 (1036)
Q Consensus 994 ~t~sVsip~P~~yA~~~~~~~ 1014 (1036)
||++||||+|+||||+++..+
T Consensus 375 ~t~sVsipaP~yYAh~~a~R~ 395 (437)
T 2yhb_A 375 ATKAVSICPPAYYADLVCDRA 395 (437)
T ss_dssp -------CHHHHHHHHHHHHH
T ss_pred CCCCCCCCCHHHHHHHHHHHH
T ss_conf 158877487899999999999
No 5
>1u04_A Argonaute, hypothetical protein PF0537; RNAI, silencing, PIWI, PAZ, RISC, slicer, RNAse H hydrolase-gene regulation complex; 2.25A {Pyrococcus furiosus} SCOP: b.34.14.1 c.55.3.10 PDB: 1z25_A 1z26_A
Probab=1.00 E-value=1 Score=753.07 Aligned_cols=651 Identities=14% Similarity=0.089 Sum_probs=477.1
Q ss_pred CCCEEEECEEEEEC---CCCCEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCE-EEECCCCCCCCC
Q ss_conf 73437613489762---99855976643158655410119999999999984002875440027645-994277899963
Q 001660 212 TRCIVKANHFFAEL---PDKDLHQYDVTITPEVTSRGVNRAVMEQLVKLYRESHLGKRLPAYDGRKS-LYTAGPLPFLSK 287 (1036)
Q Consensus 212 ~~i~v~tN~f~i~i---~~~~iy~YdV~i~pe~~~k~~~r~i~~~l~~~~~~~~~~~~~~~yDG~~~-LyS~~~L~~~~~ 287 (1036)
-+..|.+|||+++- |+ .+|+|+|++.|+++.+ +...++. .++.. +| ..+|||... ||++++|+.
T Consensus 2 ~~~~~~~n~~~~~~~~~~~-~~y~y~v~~~p~~~~~-~~~~~~~----~~~~~-~g--~~~fdg~~~~l~~~~~l~~--- 69 (771)
T 1u04_A 2 MKAIVVINLVKINKKIIPD-KIYVYRLFNDPEEELQ-KEGYSIY----RLAYE-NV--GIVIDPENLIIATTKELEY--- 69 (771)
T ss_dssp CEEEEEBSEEEBCGGGSCS-CEEEEEC-------------CCHH----HHHHH-TT--EEEEETTTTEEEESSCCCC---
T ss_pred CCEEEEEEEEEEECCCCCC-EEEEEEEECCCHHHHH-HHHHHHH----HHHHH-CC--CEEECCCCEEEECCCEECC---
T ss_conf 5069994068873246887-0599986238758889-9998999----87865-37--1896475203222532146---
Q ss_pred EEEEEEECCCCCCCCCCCCCEEEEEEEEEEEECHHHHHHHHCCCCCCCHHHHHHHHHHHHCCC-CCCC-----CCCCCCC
Q ss_conf 189997069999999888848999999824650354898752789999278999999988049-8897-----4566754
Q 001660 288 EFRITLLDDDDGQGGQRREREFKVVIKLAARADLHHLGLFLQGRQADAPQEALQVLDIVLREL-PTTR-----YCPVGRS 361 (1036)
Q Consensus 288 ~~~v~~~~~~~~~~~~~~~~~~~v~I~~~~~~~l~~l~~~l~~~~~~~~~~~lq~Lniilr~~-~~~~-----~~~~Gr~ 361 (1036)
....++++++.+++++ +|++|+++|.. ...+ +..+||+
T Consensus 70 -----------------~~~~~~~~~~~~~~~~-------------------~~~~n~i~r~~l~~~~~~~~~l~~~~r~ 113 (771)
T 1u04_A 70 -----------------EGEFIPEGEISFSELR-------------------NDYQSKLVLRLLKENGIGEYELSKLLRK 113 (771)
T ss_dssp -----------------SSCCEEEEEECGGGSC-------------------HHHHHHHHHHHHHHTTCSHHHHHHHHTT
T ss_pred -----------------CCCEEEEEEEECCEEC-------------------HHHHHHHHHHHHHHCCCCHHHHHHHHHH
T ss_conf -----------------8973789999904402-------------------9999999999998746205889997662
Q ss_pred CCCCCCCCCCCCCCCEEEEEEEEEEEECCCCEEEEEEECCEEEEECCCCHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCC
Q ss_conf 35999998645899769974112221013671589651642248547619999999842899999999678999998704
Q 001660 362 FYSPDLGRRQPLGEGLESWRGFYQSIRPTQMGLSLNIDMSSTAFIEPLPVIDFVQQLLNRDVSSRPLSDADRVKIKKALR 441 (1036)
Q Consensus 362 ff~~~~~~~~~l~~g~e~~~G~~~Svr~~~~~l~lniD~~~~~F~~~~~l~d~~~~~~~~~~~~~~~~~~~~~~i~~~Lk 441 (1036)
||++ ..+ ..+++|+|+.+||+..+++++||+|++|+ ..+..+|+|++.+.. ....+....+.
T Consensus 114 ~~~~-----~~~-~~~~~~~~~~tsi~~~e~~~ll~~di~hk-v~r~~t~~d~~~~~~-----------~~~~~~~~~~~ 175 (771)
T 1u04_A 114 FRKP-----KTF-GDYKVIPSVEMSVIKHDEDFYLVIHIIHQ-IQSMKTLWELVNKDP-----------KELEEFLMTHK 175 (771)
T ss_dssp TSCC-----EEE-TTEEEEEEEEEEEEECSSCEEEEEEEEEE-EEESSCHHHHTTTCH-----------HHHHHHHHHST
T ss_pred CCCC-----CCC-CCCEEEECCEEEEEECCCCEEEEEEEEEE-EEEHHHHHHHHHHHH-----------HHHHHHHHHCC
T ss_conf 0798-----334-66279987346688537843899986656-755567999999999-----------99998887356
Q ss_pred CEEEEEE--------ECCCCCCEEEEECCCCCCCCCE--EE---EECCCC-CEEEHHHHHHHHCCCCCCCCCCCEEEECC
Q ss_conf 4199995--------3598662499933578999750--44---315999-27439899998819766789994599147
Q 001660 442 GVRVEVT--------HRGNMRRKYRISGLTSQTTGEL--TF---PVDESG-TLKSVVEYFYETYGFVIQHTQWPCLQVGN 507 (1036)
Q Consensus 442 gl~V~~~--------y~g~~~r~~~I~gi~~~~~~~~--~F---~~~~~g-~~isV~~Yf~~~Y~i~L~~p~lP~v~~~~ 507 (1036)
|..|.++ |.-+ .++|++++ .++..+.. +| ..+ +| .++++.+||+++|+| ++++||+|+.+.
T Consensus 176 g~~~~~~~~~~~~~vy~~n-~~~Y~~~~-~~d~~~~~~~~~~~~~~~-~~~~~~~~~~~y~~~y~i--~d~~QPllvs~~ 250 (771)
T 1u04_A 176 ENLMLKDIASPLKTVYKPC-FEEYTKKP-KLDHNQEIVKYWYNYHIE-RYWNTPEAKLEFYRKFGQ--VDLKQPAILAKF 250 (771)
T ss_dssp TTCEEEETTSTTCCEEEEC-BCTTSSCB-CEECCHHHHHHHHHHHHH-HHCCSHHHHHHHHHHHCS--CCTTSCEEEEEE
T ss_pred CCEEEEECCCCCEEEEECC-CCEEECCC-CCCCCCCCHHHEECEEEC-CCCCCCCHHHHHHHHCCC--CCCCCCEEEECC
T ss_conf 7378531134442686046-62441588-512378985440130213-778874116878876486--767887698514
Q ss_pred CC-------CCCCCCCCCEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHC-----CCC--CCCCCCCCC
Q ss_conf 88-------7742245425731685334469999999999985099557699999998732-----599--981001147
Q 001660 508 QQ-------RPNYLPMEVCKIVEGQRYSKRLNERQITALLKVTCQRPHERERDIMQTVHHN-----AYH--EDPYAREFG 573 (1036)
Q Consensus 508 ~~-------~~~ylP~Elc~i~~gQ~~~~~l~~~~~~~lik~~~~~P~~R~~~i~~~~~~~-----~~~--~~~~l~~fG 573 (1036)
++ +.+||.||||.++. ...+++.+.|++|..++...|.+|.+.+.++.+.+ .-+ ..+.|+.|+
T Consensus 251 ~~~~~~~~~~~i~LiPELc~~TG---~~~~~~~~~MK~la~~trl~P~~R~~~l~~~~~~l~~~~~~~~~~~~~~l~~~~ 327 (771)
T 1u04_A 251 ASKIKKNKNYKIYLLPQLVVPTY---NAEQLESDVAKEILEYTKLMPEERKELLENILAEVDSDIIDKSLSEIEVEKIAQ 327 (771)
T ss_dssp SCC-----CCCEEECTTTEEEEE---EGGGC----CCHHHHHHCCCHHHHHHHHHHHHHHCCCSSBCSSCCEEEEEECCG
T ss_pred HHHCCCCCCCEEEECHHHHHHCC---CHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH
T ss_conf 43246788960364247653367---435666899999999877798999999999999861544307988999975554
Q ss_pred EEECCCCEEEEEEEECCCCEEECCCCCCCCCCCCCCCCC--CCCCEEEECCE----ECE------EEEEEECCCCCHHHH
Q ss_conf 287155216553780899444237998422599676201--23824630822----031------599992688666899
Q 001660 574 IKISEKLASVEARILPAPWLKYHDTGKEKDCLPQVGQWN--MMNKKMVNGGT----VNH------WICINFSRHVQDSIA 641 (1036)
Q Consensus 574 i~i~~~~~~v~~rvLp~P~i~y~~~~~~~~~~~~~g~W~--~~~~~f~~~~~----i~~------W~iv~~~~~~~~~~~ 641 (1036)
.++.. +.|.++++.+-.|.+.+. .....+.|. +++.+++.+.. +++ |.++ .+++ ...+
T Consensus 328 -~l~~~-~~v~~~~~~~~~i~~~~~-----~~~~~adW~~~~~~~~~~~~~~~p~~l~~~~~i~~wil~-~~~~--~~~~ 397 (771)
T 1u04_A 328 -ELENK-IRVRDDKGNSVPISQLNV-----QKSQLLLWTNYSRKYPVILPYEVPEKFRKIREIPMFIIL-DSGL--LADI 397 (771)
T ss_dssp -GGGSS-EEEECSSSCEEESCCC-------------CGGGGSCCCCCCCCSBCCTHHHHCCCCCEEEEE-ETTS--CHHH
T ss_pred -CCCCC-CCCCCCCCCCCCEEECCC-----CCCCCCCCCHHHCCCCCEECCCCHHHHHCCCCCCEEEEE-ECCC--HHHH
T ss_conf -11767-500254566453263276-----777667760553778511046542655043555359999-5771--6889
Q ss_pred HHHH---------HHHHHHHHHCCCC---------CCCCCCCCCCCC---------CCHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf 9999---------9999998832954---------689993278999---------904599999999999987507999
Q 001660 642 RGFC---------FELAQMCYISGMA---------FNPEPVIPPISA---------RPEHVEKVLKTRYHDAMTKLGQGK 694 (1036)
Q Consensus 642 ~~f~---------~~L~~~~~~~G~~---------~~~~p~~~~~~~---------~~~~~~~~l~~~~~~~~~~~~~~~ 694 (1036)
.+|+ +.|.+.++.+++. ++. |...+.+. +.+.++..++.+.++ +. ..
T Consensus 398 ~~f~~~~f~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~-p~~~~~~~~~~i~~dl~~~~~i~~~l~~~~~~----~~-~~ 471 (771)
T 1u04_A 398 QNFATNEFRELVKSMYYSLAKKYNSLAKKARSTNEIGL-PFLDFRGKEKVITEDLNSDKGIIEVVEQVSSF----MK-GK 471 (771)
T ss_dssp HHHHHHHHHHHHHHHCC------------------------------CEEEEECTTSHHHHHHHHHHHHHH----HT-TC
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCHHHCCCCCCCCCC-CCCCCCCCCCEECCCCCCHHHHHHHHHHHHHH----CC-CC
T ss_conf 98888876667789999875322310110356642257-87333467514315655347799999999975----15-78
Q ss_pred CCCEEEEEEC-CCCCCHHHHHHHHHHCCCCCEEEEEEECCCCCC----C-----HHHHHHHHHHHHHHCCCCCCCCCCCC
Q ss_conf 9619999946-999712688998811034702365620220345----5-----87999999999852295132123110
Q 001660 695 ELDLLIVILP-DNNGSLYGDLKRICETDLGLVSQCCLTKHVFKM----S-----KQYMANVALKINVKVGGRNTVLVDAI 764 (1036)
Q Consensus 695 ~~~lvi~ilp-~~~~~~Y~~IK~~~e~~~gI~TQci~~~t~~K~----~-----~~~~~Ni~lKiN~KlGG~n~~l~~~~ 764 (1036)
.++|+|++++ .++.+.|+.||+.| .+.||+||||..+|+.+. . .+++.||++|||+||||+||.|+.
T Consensus 472 ~~~lvlv~l~~~~~~d~Y~~IK~~~-~~~gIpTQcV~~~Tl~~~~~k~~~~~l~~sia~NIalqIn~KLGG~pW~L~~-- 548 (771)
T 1u04_A 472 ELGLAFIAARNKLSSEKFEEIKRRL-FNLNVISQVVNEDTLKNKRDKYDRNRLDLFVRHNLLFQVLSKLGVKYYVLDY-- 548 (771)
T ss_dssp SCEEEEEEECTTSCHHHHHHHHHHH-HHTTEEEEEEEHHHHHHCEETTEEEEECHHHHHHHHHHHHHHTTCBCCEESC--
T ss_pred CCCEEEEEECCCCCCCHHHHHHHHH-HCCCCCCEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCEEECC--
T ss_conf 9878999975898866689999998-5489663998435006765443323132899999999999985983326068--
Q ss_pred CCCCCCCCCCCEEEEEEEECCCCCCCCCCCCEEEEEEEECCCCCCCEEEEEEECCCCHHHHHHHHCCCCCCCCCCCHHHH
Q ss_conf 14777768999299999720799999999946589983078886523679997268715755011003788767540369
Q 001660 765 SRRIPLVSDRPTIIFGADVTHPHPGEDSSPSIAAVVASQDWPEVTKYAGLVCAQAHRQELIQDLFKTWQDPVRGAVSGGM 844 (1036)
Q Consensus 765 ~~~~p~~~~~~tmiiG~DVsHp~~~~~~~pSi~a~vaS~d~~~~~ky~~~~~~q~~~~e~i~~~~~~~~~~~~~~~~~~~ 844 (1036)
| ..+|||||+||+|+.++. .++|++|+|+|.| .+..+|.+....+.++++ +. + ..|
T Consensus 549 ----p---~~~tmiIGiDV~H~~~~~-~svs~~A~V~s~d-g~~~~~~s~~~~~~~~E~-i~-l-------------~~~ 604 (771)
T 1u04_A 549 ----R---FNYDYIIGIDVAPMKRSE-GYIGGSAVMFDSQ-GYIRKIVPIKIGEQRGES-VD-M-------------NEF 604 (771)
T ss_dssp ----C---CSSSEEEEEEEEEECCTT-TCEEEEEEEEETT-SCEEEEEEEECCCCSSSS-CC-H-------------HHH
T ss_pred ----C---CCCEEEEEEEEECCCCCC-CCEEEEEEEECCC-CCEEEEEEEEEECCCCCE-EC-H-------------HHH
T ss_conf ----9---998799999987479899-7469999997799-978999888730377637-73-9-------------999
Q ss_pred HHHHHHHHHHH-HCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEECCCCCCCCCCCCCCC
Q ss_conf 99999999999-09999469999327891469999999999999999950999999899999920443333224799987
Q 001660 845 IKELLISFRRA-TGQKPQRIIFYRDGVSEGQFYQVLLYELDAIRKACASLEPNYQPPVTFVVVQKRHHTRLFANNHHDRN 923 (1036)
Q Consensus 845 i~~~L~~f~~~-~g~~P~~IiiyRDGvsegq~~~v~~~Ei~~ik~a~~~~~~~y~P~it~Ivv~Krh~tRff~~~~~~~~ 923 (1036)
+.++|.+|++. ++.+|++|||||||+ |+++|+++|++||.+. .|+||||+|+|||||||| .+
T Consensus 605 l~~~L~~y~~~n~~~lP~RIIiyRDG~-------v~~~El~~i~ea~~~~----~p~itfIvV~Krh~tRfF-~~----- 667 (771)
T 1u04_A 605 FKEMVDKFKEFNIKLDNKKILLLRDGR-------ITNNEEEGLKYISEMF----DIEVVTMDVIKNHPVRAF-AN----- 667 (771)
T ss_dssp HHHHHHHHHHTTCCCTTCEEEEECSBC-------CCHHHHHHHHHHHHHH----TCEEEEEEEESCCCCCBS-SC-----
T ss_pred HHHHHHHHHHHHCCCCCCEEEEECCCC-------CCHHHHHHHHHHHHHC----CCCEEEEEEEECCCEEEE-CC-----
T ss_conf 999999999970799997799991888-------8789999999999855----998899999945751564-69-----
Q ss_pred CCCCCCCCCCCEEEECCCCCCCCCCEEEECCC--CCCCCCCCCEE--EEEECCCCCC----HHHHHHHHHHHHHCCCCCC
Q ss_conf 55767987573054145557875636841057--74444578626--9995499999----8889999999740232038
Q 001660 924 AVDRSGNILPGTVVDSKICHPTEFDFYLCSHA--GIQGTSRPAHY--HVLWDENKFT----ADGLQSLTNNLCYTYARCT 995 (1036)
Q Consensus 924 ~~~~~~N~~pGTvVD~~i~~p~~~dFyL~Sh~--~~qGTarPthY--~Vl~de~~~~----~d~lq~lT~~LC~~y~r~t 995 (1036)
.+|||||| . ||||+||. +.|||++|||| +|++|+++++ +|+||.+||+|||+|+||+
T Consensus 668 -------~~pGTVV~-------~-DFyL~Sh~v~~~qGTprPthY~~~Vi~D~~~~~~~~~~D~lq~lty~Lchlyyn~~ 732 (771)
T 1u04_A 668 -------MKMYFNLG-------G-AIYLIPHKLKQAKGTPIPIKLAKKRIIKNGKVEKQSITRQDVLDIFILTRLNYGSI 732 (771)
T ss_dssp -------SCEEEEET-------T-EEEEECSCCSSSCSCCCCEEEEEEEEEETTEEEECCCCHHHHHHHHHHHTCCTTCS
T ss_pred -------CCCEEEEE-------C-CEEEEECCCCCCCCCCCCEEEEEEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCC
T ss_conf -------99804996-------8-88998345458888888789997887527887877789999999998655014579
Q ss_pred C-CCCCCCCCCCCCCCC
Q ss_conf 6-302356642100121
Q 001660 996 R-SVSIGKLSLLPAFSY 1011 (1036)
Q Consensus 996 ~-sVsip~P~~yA~~~~ 1011 (1036)
+ +||+|||+||||+++
T Consensus 733 ~~svrvPAP~~YAhklA 749 (771)
T 1u04_A 733 SADMRLPAPVHYAHKFA 749 (771)
T ss_dssp SCCCCSCHHHHHHHHHH
T ss_pred CCCCCCCCHHHHHHHHH
T ss_conf 99964781279999999
No 6
>3ho1_A Argonaute; argonaute, protein-DNA-RNA complex, nucleic acid binding Pro RNA complex; 2.60A {Thermus thermophilus} PDB: 3dlb_A* 3dlh_A* 3f73_A* 3hm9_A 3hvr_A 3hxm_A* 3hk2_A 3hjf_A
Probab=1.00 E-value=1 Score=678.04 Aligned_cols=639 Identities=16% Similarity=0.148 Sum_probs=464.5
Q ss_pred CCCEEEECEEEEE-CC--CCCEEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCEEEECCCCCCCCCE
Q ss_conf 7343761348976-29--98559766431586554101199999999999840028754400276459942778999631
Q 001660 212 TRCIVKANHFFAE-LP--DKDLHQYDVTITPEVTSRGVNRAVMEQLVKLYRESHLGKRLPAYDGRKSLYTAGPLPFLSKE 288 (1036)
Q Consensus 212 ~~i~v~tN~f~i~-i~--~~~iy~YdV~i~pe~~~k~~~r~i~~~l~~~~~~~~~~~~~~~yDG~~~LyS~~~L~~~~~~ 288 (1036)
.++.|.-|-|.++ +. +.+.|.|++.+.|..+.... ..++..+++ + +|.. +---...|.|..+ | +...
T Consensus 5 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~---~--~~~~--~~~~~~~~~~~~~-~-~~~~ 74 (685)
T 3ho1_A 5 GKTEVFLNRFALRPLNPEELRPWRLEVVLDPPPGREEV-YPLLAQVAR---R--AGGV--TVRMGDGLASWSP-P-EVLV 74 (685)
T ss_dssp CCEEEEEEEEEEEECCTTTSSCEEEEEEEESCCCTTTH-HHHHHHHHH---H--TCSS--EEEETTEEEESSC-T-TTSC
T ss_pred CCEEEEEEEEECCCCCHHHCCEEEEEEECCCCCCCCHH-HHHHHHHHH---H--HCCE--EEEECCCEECCCC-C-HHHH
T ss_conf 52058975003454885348505899850799884147-789999998---7--3874--7863274000467-0-5541
Q ss_pred EEEEEECCCCCCCCCCCCCEEEEEEEEEEEECHHHHHHHHCCCCCCCHHHHHHHH-----HHHHCCCCCCCCCCCCCCCC
Q ss_conf 8999706999999988884899999982465035489875278999927899999-----99880498897456675435
Q 001660 289 FRITLLDDDDGQGGQRREREFKVVIKLAARADLHHLGLFLQGRQADAPQEALQVL-----DIVLRELPTTRYCPVGRSFY 363 (1036)
Q Consensus 289 ~~v~~~~~~~~~~~~~~~~~~~v~I~~~~~~~l~~l~~~l~~~~~~~~~~~lq~L-----niilr~~~~~~~~~~Gr~ff 363 (1036)
++=.+. ..+....|++.-.=.+.+|... ..++++|..| +-.|+.. .++..-|.-.+
T Consensus 75 ~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~ 135 (685)
T 3ho1_A 75 LEGTLA-------RMGQTYAYRLYPKGRRPLDPKD----------PGERSVLSALARRLLQERLRRL--EGVWVEGLAVY 135 (685)
T ss_dssp CEEEEE-------CSSCEEEEEEEEEEECCCCTTS----------HHHHHHHHHHHHHHHHHHHHTC--SSSEEETTEEE
T ss_pred CCCHHC-------CCCCCCCEEEEECCCCCCCCCC----------HHHHHHHHHHHHHHHHHHHHHH--HCEEECCEEEE
T ss_conf 022000-------2368866365305664578898----------6788999999999999998765--33377647898
Q ss_pred CCCCCCCCCCCCCEEEEEEEEEEEECCC-CEEEEEEECCEEEEECCCCHHHHHHHHHCCCCCCCCCCHHHHHHHHHHCCC
Q ss_conf 9999986458997699741122210136-715896516422485476199999998428999999996789999987044
Q 001660 364 SPDLGRRQPLGEGLESWRGFYQSIRPTQ-MGLSLNIDMSSTAFIEPLPVIDFVQQLLNRDVSSRPLSDADRVKIKKALRG 442 (1036)
Q Consensus 364 ~~~~~~~~~l~~g~e~~~G~~~Svr~~~-~~l~lniD~~~~~F~~~~~l~d~~~~~~~~~~~~~~~~~~~~~~i~~~Lkg 442 (1036)
-.. ..-+.|+|+++|+...|.++. ++++|.+|..+. |+++.++.+++++.. . |-
T Consensus 136 ~~~----~~~~~~~~~~~g~~~~v~~~~~~~~~l~vd~~~r-~~~~~~~~~~l~~~~------------------~-~~- 190 (685)
T 3ho1_A 136 RRE----HARGPGWRVLGGAVLDLWVSDSGAFLLEVDPAYR-ILCEMSLEAWLAQGH------------------P-LP- 190 (685)
T ss_dssp EEE----EEEETTEEEEEEEEEEEEECSSSEEEEEEEEEEE-EEECSCHHHHHHHSC------------------C-CC-
T ss_pred EEC----CCCCCCEEEECCEEEEEEECCCCCEEEEEEEHEE-ECCHHHHHHHHHHCC------------------C-CC-
T ss_conf 406----8877743884366999998778867999740301-147644999998179------------------8-32-
Q ss_pred EEEEEEECCCCCCEEEEECCCCCCCCCEEEEECCCCCEEEHHHHHHHHCCCCCCCCCCCEEEECCCC----C-----CCC
Q ss_conf 1999953598662499933578999750443159992743989999881976678999459914788----7-----742
Q 001660 443 VRVEVTHRGNMRRKYRISGLTSQTTGELTFPVDESGTLKSVVEYFYETYGFVIQHTQWPCLQVGNQQ----R-----PNY 513 (1036)
Q Consensus 443 l~V~~~y~g~~~r~~~I~gi~~~~~~~~~F~~~~~g~~isV~~Yf~~~Y~i~L~~p~lP~v~~~~~~----~-----~~y 513 (1036)
..|.++|+ .++|+|.+|+ +.+++..|. + + .+|.+||++++|.+ +.-++|.|+...+. + .+|
T Consensus 191 ~~v~~~y~---~~~~~~~~~~-~~~p~~~~l-~--~-~~s~~~y~~~k~~~--~~~~~~~vv~~~~~~~~~~~i~~~~~~ 260 (685)
T 3ho1_A 191 KRVRNAYD---RRTWELLRLG-EEDPKELPL-P--G-GLSLLDYHASKGRL--QGREGGRVAWVADPKDPRKPIPHLTGL 260 (685)
T ss_dssp SEEEESSS---CCEECCCEEE-CCCTTCC----------CSTTTTTTTSTT--TTSCCCSEEEECSCC---CCEEEETTS
T ss_pred HHHHHHCC---CCEEEEEECC-CCCCHHEEC-C--C-CCCHHHHHHHCCCC--CCCCCCEEEEEECCCCCCCCCEEEEEE
T ss_conf 77764316---6248986336-689332345-7--8-86599997542653--346786599995544578733244256
Q ss_pred CCCCCEEECCCCCCCCCCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCCCCCCCCCCCCEEECCCCEEEEEEEECCCCE
Q ss_conf 24542573168533446999999999998509955769999999873259998100114728715521655378089944
Q 001660 514 LPMEVCKIVEGQRYSKRLNERQITALLKVTCQRPHERERDIMQTVHHNAYHEDPYAREFGIKISEKLASVEARILPAPWL 593 (1036)
Q Consensus 514 lP~Elc~i~~gQ~~~~~l~~~~~~~lik~~~~~P~~R~~~i~~~~~~~~~~~~~~l~~fGi~i~~~~~~v~~rvLp~P~i 593 (1036)
|.|||| +. +-. +.+.. .++...|.+|.+++.++++. +++.|||+ +.+|++|+||+||||+|
T Consensus 261 l~p~l~-m~-~l~------~~~~~---~~trlsP~~R~~~l~~~~~~-------i~~~~Gl~-~~~~i~v~gRvLppp~I 321 (685)
T 3ho1_A 261 LVPVLT-LE-DLH------EEEGS---LALSLPWEERRRRTREIASW-------IGRRLGLG-TPEAVRAQAYRLSIPKL 321 (685)
T ss_dssp EEEECC-TT-TTS------SCSSC---CCCCCCHHHHHHHHHHHHHH-------HHHTTCSC-CCEEEEEEEEECCCCCE
T ss_pred ECHHHH-HH-HHH------HHHHH---CCCCCCHHHHHHHHHHHHHH-------HHHHCCCC-CCCCCEEEEEECCHHHH
T ss_conf 322767-87-776------66640---62567989999999999999-------88853999-89711687788388995
Q ss_pred EECCCCCCCCCCCCCCCCCCCCCEEEECCEECEEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCH
Q ss_conf 42379984225996762012382463082203159999268866689999999999998832954689993278999904
Q 001660 594 KYHDTGKEKDCLPQVGQWNMMNKKMVNGGTVNHWICINFSRHVQDSIARGFCFELAQMCYISGMAFNPEPVIPPISARPE 673 (1036)
Q Consensus 594 ~y~~~~~~~~~~~~~g~W~~~~~~f~~~~~i~~W~iv~~~~~~~~~~~~~f~~~L~~~~~~~G~~~~~~p~~~~~~~~~~ 673 (1036)
+++. . + ...|++.+.+|+.++.+ .|+++++... ...+++|++.|.+.|+.+||.++. |.... .++
T Consensus 322 -~g~~-~---~---~~~~d~~~~~~~~~~~~-~~ail~l~~~--~~~~~~f~~~L~~va~~~G~~i~~-~~~~~---~~~ 386 (685)
T 3ho1_A 322 -MGRR-A---V---SKPADALRVGFYRAQET-ALALLRLDGA--QGWPEFLRRALLRAFGASGASLRL-HTLHA---HPS 386 (685)
T ss_dssp -ESSS-B---C---SSGGGHHHHCCSSCCCE-EEEEEECSSC--CSCCHHHHHHHHHHHHSSSSCEEE-EECCC---CGG
T ss_pred -CCCC-C---C---CCCHHHCCCCCEECCCC-EEEEEECCCC--HHHHHHHHHHHHHHHHHCCCEECC-CEEEC---CCC
T ss_conf -5899-7---5---78621114753113673-5999962672--678999999999988767937635-51104---777
Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCCEEEEEECCCCCCHHHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHC
Q ss_conf 59999999999998750799996199999469997126889988110347023656202203455879999999998522
Q 001660 674 HVEKVLKTRYHDAMTKLGQGKELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKHVFKMSKQYMANVALKINVKV 753 (1036)
Q Consensus 674 ~~~~~l~~~~~~~~~~~~~~~~~~lvi~ilp~~~~~~Y~~IK~~~e~~~gI~TQci~~~t~~K~~~~~~~Ni~lKiN~Kl 753 (1036)
+.. .+...+++..+ .++||||||+|+++.+.|+.||++| .+.||+||||. +++.|...+++.||++|||+||
T Consensus 387 d~~-~~~~~l~~~~~-----~~~qlvvvIlp~~~~~~y~~IKk~~-~~~GIpTQcV~-~tl~k~~~~ia~NIaLkINaKL 458 (685)
T 3ho1_A 387 QGL-AFREALRKAKE-----EGVQAVLVLTPPMAWEDRNRLKALL-LREGLPSQILN-VPLREEERHRWENALLGLLAKA 458 (685)
T ss_dssp GTH-HHHHHHHHHHH-----TTCCEEEEEESCCCHHHHHHHHHHH-HHTTCCEEEEE-SSCCTTCHHHHHHHHHHHHHHH
T ss_pred CHH-HHHHHHHHHHH-----CCCCEEEEEECCCCCCHHHHHHHHH-HCCCCCCEEEE-CCCCCCCHHHHHHHHHHHHHHH
T ss_conf 369-99999998642-----3998899997799954789999998-63997638996-1225640719999999998873
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCCCCCEEEEEEEECC-CCCCCEEEEEEECCCCHHHHHHHHCCC
Q ss_conf 9513212311014777768999299999720799999999946589983078-886523679997268715755011003
Q 001660 754 GGRNTVLVDAISRRIPLVSDRPTIIFGADVTHPHPGEDSSPSIAAVVASQDW-PEVTKYAGLVCAQAHRQELIQDLFKTW 832 (1036)
Q Consensus 754 GG~n~~l~~~~~~~~p~~~~~~tmiiG~DVsHp~~~~~~~pSi~a~vaS~d~-~~~~ky~~~~~~q~~~~e~i~~~~~~~ 832 (1036)
||+||.|+. | ..+|||||+||+|++ ..++++++++++- ....+| ..+..|...++.++++
T Consensus 459 GG~pW~L~~------P---~~~tmiIGiDVsH~~-----~~~~~~~aav~~~dg~~~~~-~~~~~Q~~e~l~~~~L---- 519 (685)
T 3ho1_A 459 GLQVVALSG------A---YPAELAVGFDAGGRE-----SFRFGGAACAVGGDGGHLLW-TLPEAQAGERIPQEVV---- 519 (685)
T ss_dssp TCCCCEECS------C---CSCSEEEEEEEEETT-----EEEEEEEEEEECC--CCCEE-ECCCCCCSCCCHHHHH----
T ss_pred CCEEEEECC------C---CCCEEEEEEEEECCC-----CCCCCEEEEEEECCCCEEEE-EEEECCCCCEECHHHH----
T ss_conf 983578568------9---998699999997389-----89612399999788887776-7887267858649999----
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHCCCCCEEEEEECCC-CCHHHHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEEEECCC
Q ss_conf 78876754036999999999999099994699993278-91469999999999999999950999999899999920443
Q 001660 833 QDPVRGAVSGGMIKELLISFRRATGQKPQRIIFYRDGV-SEGQFYQVLLYELDAIRKACASLEPNYQPPVTFVVVQKRHH 911 (1036)
Q Consensus 833 ~~~~~~~~~~~~i~~~L~~f~~~~g~~P~~IiiyRDGv-segq~~~v~~~Ei~~ik~a~~~~~~~y~P~it~Ivv~Krh~ 911 (1036)
.+|+.++|..|++.++.+|+||||||||| +|+||. +|++||.++ .+++|||+|+||||
T Consensus 520 ---------~~~l~eaL~~Y~k~ng~lP~RIIIyRDGV~se~E~~--------~I~eAl~~~----~~~~t~IvVqKRh~ 578 (685)
T 3ho1_A 520 ---------WDLLEETLWAFRRKAGRLPSRVLLLRNGRVPQDEFA--------LALEALARE----GIAYDLVSVRKSGG 578 (685)
T ss_dssp ---------HHHHHHHHHHHHHHHSSCCSEEEEEECSSSCSGGGH--------HHHHHHHHT----TCEEEEEEEESSCC
T ss_pred ---------HHHHHHHHHHHHHHHCCCCCEEEEEECCCCCHHHHH--------HHHHHHHHC----CCCEEEEEEEECCC
T ss_conf ---------999999999999983899848999958989989999--------999999861----99879999991687
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCEEEECC--CCCCCCCCCCEEEEEECCCCCCHHHHHHHHHHHHH
Q ss_conf 3332247999875576798757305414555787563684105--77444457862699954999998889999999740
Q 001660 912 TRLFANNHHDRNAVDRSGNILPGTVVDSKICHPTEFDFYLCSH--AGIQGTSRPAHYHVLWDENKFTADGLQSLTNNLCY 989 (1036)
Q Consensus 912 tRff~~~~~~~~~~~~~~N~~pGTvVD~~i~~p~~~dFyL~Sh--~~~qGTarPthY~Vl~de~~~~~d~lq~lT~~LC~ 989 (1036)
+|||+.+. +|.+||+|+ ..+||||++| .+.|||+|||||+ +|++++++|+||++||+|||
T Consensus 579 tRfF~~n~----------pp~~Gt~v~------~e~d~flL~s~gsv~qGT~rPthy~--~D~~~~s~D~LQ~ltY~Lch 640 (685)
T 3ho1_A 579 GRVYPVQG----------RLADGLYVP------LEDKTFLLLTVHRDFRGTPRPLKLV--HEAGDTPLEALAHQIFHLTR 640 (685)
T ss_dssp CCEEESSS----------CCCSSEEEE------CSTTEEEEECCCCCSSSCCCCEEEE--EEEECSCHHHHHHHHHHGGG
T ss_pred CEEECCCC----------CCCCEEEEE------CCCCEEEEEECCCCCCCCCCEEEEE--ECCCCCCHHHHHHHHHHHHH
T ss_conf 13746898----------998759980------7897899996688876678619999--89899899999999999777
Q ss_pred CCCCCC-CCCCCCCCCCCCCCCCHHH
Q ss_conf 232038-6302356642100121146
Q 001660 990 TYARCT-RSVSIGKLSLLPAFSYSSA 1014 (1036)
Q Consensus 990 ~y~r~t-~sVsip~P~~yA~~~~~~~ 1014 (1036)
+|+||| ++||+|+|+||||+++...
T Consensus 641 my~nst~~svsvPAP~~YAhklAk~~ 666 (685)
T 3ho1_A 641 LYPASGFAFPRLPAPLHLADRLVKEV 666 (685)
T ss_dssp CCSSCSSSCCSSCHHHHHHHHHHHHH
T ss_pred HHCCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf 51168999998675789999999999
No 7
>2yha_A Post-transcriptional gene silencing protein QDE-2; RNA binding protein, argonaute, miRNA, siRNA; HET: GOL; 1.85A {Neurospora crassa} PDB: 2xdy_A
Probab=1.00 E-value=1 Score=628.62 Aligned_cols=326 Identities=29% Similarity=0.481 Sum_probs=283.1
Q ss_pred CCCCEEEE-CCEECEEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCC
Q ss_conf 23824630-82203159999268866689999999999998832954689993278999904599999999999987507
Q 001660 613 MMNKKMVN-GGTVNHWICINFSRHVQDSIARGFCFELAQMCYISGMAFNPEPVIPPISARPEHVEKVLKTRYHDAMTKLG 691 (1036)
Q Consensus 613 ~~~~~f~~-~~~i~~W~iv~~~~~~~~~~~~~f~~~L~~~~~~~G~~~~~~p~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 691 (1036)
|++++|++ ++++++|++++|..+.+...++.|++.|.+.|+.+||.++.+........+ ++.+..+ .+++...
T Consensus 2 ~~~~~f~~p~~~l~~W~vv~~~~~~~~~~~~~f~~~l~~~~~~~G~~i~~p~~~~~~~~~-~~~~~~~--~~~~~~~--- 75 (388)
T 2yha_A 2 AMAVKVARPCRKIEKWTYLELKGSKANEGVPQAMTAFAEFLNRTGIPINPRFSPGMSMSV-PGSEKEF--FAKVKEL--- 75 (388)
T ss_dssp ---CCCSBCCSCBCSEEEEEEECSSCCCCHHHHHHHHHHHHHHTTCCBCSCCCCCEEEEC-CSSHHHH--HHHHHHH---
T ss_pred CCCCEECCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCEECCCCCCCEECCC-CCHHHHH--HHHHHHC---
T ss_conf 988885169972778999990277787999999999999998769774799875410377-8638785--8987504---
Q ss_pred CCCCCCEEEEEECCCCCCHHHHHHHHHHCCCCCEEEEEEECCCCCCCHH--HHHHHHHHHHHHCCCCCCCCCCCCCCCCC
Q ss_conf 9999619999946999712688998811034702365620220345587--99999999985229513212311014777
Q 001660 692 QGKELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKHVFKMSKQ--YMANVALKINVKVGGRNTVLVDAISRRIP 769 (1036)
Q Consensus 692 ~~~~~~lvi~ilp~~~~~~Y~~IK~~~e~~~gI~TQci~~~t~~K~~~~--~~~Ni~lKiN~KlGG~n~~l~~~~~~~~p 769 (1036)
..+++|||||+|+++.++|+.||++||+++||+||||+.+|+.|.++| |++||+||||+||||+||.|+++ +|
T Consensus 76 -~~~~~lvl~ilp~~~~~~Y~~iK~~~~~~~GI~TQcv~~~~~~k~~~q~s~~~NI~lKiN~KlGG~n~~l~~~----~~ 150 (388)
T 2yha_A 76 -MSSHQFVVVLLPRKDVAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQLGYFANVGLKVNLKFGGTNHNIKTP----IP 150 (388)
T ss_dssp -HHTCSEEEEEESSSCHHHHHHHHHHHHTTTCCEEEEEEHHHHHCSTTHHHHHHHHHHHHHHHTTCBCCCCCSC----CH
T ss_pred -CCCCEEEEEEECCCCHHHHHHHHHHHHCCCCCCEEEEEHHHHCCCCCHHHHHHHHHHHHHHHHCCCCEECCCC----CC
T ss_conf -5898299999789983489999998710579750898345605767489999999999999718933122566----55
Q ss_pred CCCCCCEEEEEEEECCCC---CC--CCCCCCEEEEEEEECCCCCCCEEEEEEECC-CCHHHHHHHHCCCCCCCCCCCHHH
Q ss_conf 768999299999720799---99--999994658998307888652367999726-871575501100378876754036
Q 001660 770 LVSDRPTIIFGADVTHPH---PG--EDSSPSIAAVVASQDWPEVTKYAGLVCAQA-HRQELIQDLFKTWQDPVRGAVSGG 843 (1036)
Q Consensus 770 ~~~~~~tmiiG~DVsHp~---~~--~~~~pSi~a~vaS~d~~~~~ky~~~~~~q~-~~~e~i~~~~~~~~~~~~~~~~~~ 843 (1036)
++.+.+|||||+||+||+ || ....|||+|+|||+| .++++|.+.+++|. +++|+|++| ++
T Consensus 151 ~~~~~~tmiiG~DV~H~~~~~~g~~~~~~pSiaavVaS~d-~~~~~y~~~~~~Q~~~~~E~i~~l-------------~~ 216 (388)
T 2yha_A 151 LLAKGKTMVVGYDVTHPTNLAAGQSPASAPSIVGLVSTID-QHLGQWPAMVWNNPHGQESMTEQF-------------TD 216 (388)
T ss_dssp HHHTSCEEEEEEEEECSCCCSSSSCCTTSCEEEEEEECCS-TTCCCCCEEEEEETTTHHHHHHHH-------------HH
T ss_pred CCCCCCEEEEEEEEECCCCCCCCCCCCCCCEEEEEEEECC-CCCCEEEEEEEECCCCCCCHHHHH-------------HH
T ss_conf 4577877999877751565677776789987999877759-997779789998688862579999-------------99
Q ss_pred HHHHHHHHHHH---HHCCCCCEEEEEECCCCCHHHHHHHHHHHHHHHHHHHHCCCCC-CCCEEEEEEEECCCCCCCCCCC
Q ss_conf 99999999999---9099994699993278914699999999999999999509999-9989999992044333322479
Q 001660 844 MIKELLISFRR---ATGQKPQRIIFYRDGVSEGQFYQVLLYELDAIRKACASLEPNY-QPPVTFVVVQKRHHTRLFANNH 919 (1036)
Q Consensus 844 ~i~~~L~~f~~---~~g~~P~~IiiyRDGvsegq~~~v~~~Ei~~ik~a~~~~~~~y-~P~it~Ivv~Krh~tRff~~~~ 919 (1036)
|++++|+.|++ +++.+|++|||||||||||||.+|+++|+++|++||.++..+| .|+||||||+||
T Consensus 217 ~~~~~L~~~~~~~~~~~~~P~rIiiyRDGVseGQf~~V~~~El~~i~~a~~~~~~~~~~P~it~Ivv~Kr---------- 286 (388)
T 2yha_A 217 KFKTRLELWRSNPANNRSLPENILIFRDGVSEGQFQMVIKDELPLVRAACKLVYPAGKLPRITLIVSVKG---------- 286 (388)
T ss_dssp HHHHHHHHHHHSGGGTTCCCSEEEEEEESCCGGGHHHHHHHTHHHHHHHHHHHSCTTCCCEEEEEEEC------------
T ss_pred HHHHHHHHHHHHHHHCCCCCCEEEEEECCCCHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCC----------
T ss_conf 9999999998756543789752899946867257999999999999999998514467986799996466----------
Q ss_pred CCCCCCCCCCCCCCCEEEECCCCCCCCCCEEEECCCCCCCCCCCCEEEEEECCC------CCCHHHHHHHHHHHHHCCCC
Q ss_conf 998755767987573054145557875636841057744445786269995499------99988899999997402320
Q 001660 920 HDRNAVDRSGNILPGTVVDSKICHPTEFDFYLCSHAGIQGTSRPAHYHVLWDEN------KFTADGLQSLTNNLCYTYAR 993 (1036)
Q Consensus 920 ~~~~~~~~~~N~~pGTvVD~~i~~p~~~dFyL~Sh~~~qGTarPthY~Vl~de~------~~~~d~lq~lT~~LC~~y~r 993 (1036)
+|||||+||+||+ ++++|+||+|||+|||+|+|
T Consensus 287 -----------------------------------------arPthY~Vl~De~f~~~~~~~~~d~lq~lty~Lc~~y~r 325 (388)
T 2yha_A 287 -----------------------------------------SGSAHYTVLVDEIFRADYGNKAADTLEQLTHDMCYLFGR 325 (388)
T ss_dssp ---------------------------------------------CEEEEEESSHHHHHGGGHHHHHHHHHHHHHHC---
T ss_pred -----------------------------------------CCCCEEEEEECCCCCCCCCCCCHHHHHHHHHHHHHHHHC
T ss_conf -----------------------------------------688269998278643345799999999999999777533
Q ss_pred CCCCCCCCCCCCCCCCCCHHH
Q ss_conf 386302356642100121146
Q 001660 994 CTRSVSIGKLSLLPAFSYSSA 1014 (1036)
Q Consensus 994 ~t~sVsip~P~~yA~~~~~~~ 1014 (1036)
||++||||+|+||||+++..+
T Consensus 326 ~t~sVsipaP~yYAh~~a~R~ 346 (388)
T 2yha_A 326 ATKAVSICPPAYYADLVCDRA 346 (388)
T ss_dssp -------CHHHHHHHHHHHHH
T ss_pred CCCCCCCCCHHHHHHHHHHHH
T ss_conf 258877575899999999999
No 8
>2w42_A PIWI, putative uncharacterized protein; RNAI, RISC, argonaute, PIWI domain, protein/DNA complex; 1.90A {Archaeoglobus fulgidus} PDB: 1ytu_A 2bgg_A 1w9h_A
Probab=1.00 E-value=1 Score=449.33 Aligned_cols=363 Identities=13% Similarity=0.056 Sum_probs=255.2
Q ss_pred EECCCCEEEC--CCCCCC---CCCCCCCCCCCCCCEEEECCEE--CEEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf 8089944423--799842---2599676201238246308220--31599992688666899999999999988329546
Q 001660 587 ILPAPWLKYH--DTGKEK---DCLPQVGQWNMMNKKMVNGGTV--NHWICINFSRHVQDSIARGFCFELAQMCYISGMAF 659 (1036)
Q Consensus 587 vLp~P~i~y~--~~~~~~---~~~~~~g~W~~~~~~f~~~~~i--~~W~iv~~~~~~~~~~~~~f~~~L~~~~~~~G~~~ 659 (1036)
-|..|.+.|+ ++.+.. ...+..| +.+...+....+ .+|++|+-.+.. +.++.|.+.+.... ..++.+
T Consensus 5 ~~~ep~~~~~~~~~~~~~~~~~~~~~~g---l~~~gpy~~~~~~~~~w~vI~~~~~~--~~l~~l~~~~~~~~-g~~f~~ 78 (427)
T 2w42_A 5 KIVENGLTYRIGNGASVPISNTGELIKG---LRNYGPYEVPSLKYNQIALIHNNQFS--SLINQLKSQISSKI-DEVWHI 78 (427)
T ss_dssp ------CEEECGGGCEEESSCHHHHHHH---HHHHCCSBCCCCSSSEEEEEESCTTC--HHHHHHHHHHHHHH-HHTTCC
T ss_pred CCCCCCCEEECCCCCCCCCCCCCCHHHH---HHHCCCCCCCCCCCCEEEEEECCCCH--HHHHHHHHHHHHCC-CCCEEE
T ss_conf 4478753441247973444456787899---98669974677889889999773308--99999987533128-984053
Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCEEEEEE--------CCCCCCHHHHHHHHHHCCCCCEEEEEEE
Q ss_conf 89993278999904599999999999987507999961999994--------6999712688998811034702365620
Q 001660 660 NPEPVIPPISARPEHVEKVLKTRYHDAMTKLGQGKELDLLIVIL--------PDNNGSLYGDLKRICETDLGLVSQCCLT 731 (1036)
Q Consensus 660 ~~~p~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~lvi~il--------p~~~~~~Y~~IK~~~e~~~gI~TQci~~ 731 (1036)
.. +. .+.+.+.+++.+..+ .+++++|||+ |++....| ++|+ |+.+.||+||||+.
T Consensus 79 ~~-~~-----~~~~~y~~~i~~~l~---------~~~~lvlvilp~~~~~~~~~~~~~~y-~~K~-~~~~~gvptQ~I~~ 141 (427)
T 2w42_A 79 HN-IN-----ISEFIYDSPHFDSIK---------SQVDNAIDTGVDGIMLVLPEYNTPLY-YKLK-SYLINSIPSQFMRY 141 (427)
T ss_dssp CS-CE-----EEEEECSSSSHHHHH---------HHHHHHHHHCCSEEEEEESSCCHHHH-HHHH-HHHHTTSCEEEEEG
T ss_pred CC-CC-----CCHHHHHHHHHHHHC---------CCCCEEEEEEECCCCCCCCCCCCCHH-HHHH-HHHCCCCCCEEEEH
T ss_conf 57-76-----780789999999743---------79979999997601045898775059-9999-98679967589873
Q ss_pred CCCCCCCH-HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCEEEEEEEECCCCCCCCCCCCEEEEEEEECCCCCCC
Q ss_conf 22034558-79999999998522951321231101477776899929999972079999999994658998307888652
Q 001660 732 KHVFKMSK-QYMANVALKINVKVGGRNTVLVDAISRRIPLVSDRPTIIFGADVTHPHPGEDSSPSIAAVVASQDWPEVTK 810 (1036)
Q Consensus 732 ~t~~K~~~-~~~~Ni~lKiN~KlGG~n~~l~~~~~~~~p~~~~~~tmiiG~DVsHp~~~~~~~pSi~a~vaS~d~~~~~k 810 (1036)
+|+.+.+. .++.||++|||+||||+||.|+.. .| ...|||||+||+|++++ +++|++...| .+...
T Consensus 142 ~tl~~~~~~~~~~nIalqi~~KlGG~pW~l~~~----~~---~~~~miiGidv~h~~~~-----~v~g~a~v~~-~~g~~ 208 (427)
T 2w42_A 142 DILSNRNLTFYVDNLLVQFVSKLGGKPWILNVD----PE---KGSDIIIGTGATRIDNV-----NLFCFAMVFK-KDGTM 208 (427)
T ss_dssp GGCCTTTHHHHHHHHHHHHHHHTTCBCCEECCC----TT---SSCSEEEEEEEEESSSS-----EEEEEEEEEC-TTSCE
T ss_pred HHCCCCCCHHHHHHHHHHHHHHHCCCCEECCCC----CC---CCCEEEEEEEEEECCCC-----CEEEEEEEEC-CCCCE
T ss_conf 354556505699999999978738966064567----89---89869997899876999-----5799999983-89978
Q ss_pred EEEEEEECCCCHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHH-HHCCCCC--EEEEEECCCCCHHHHHHHHHHHHHHH
Q ss_conf 36799972687157550110037887675403699999999999-9099994--69999327891469999999999999
Q 001660 811 YAGLVCAQAHRQELIQDLFKTWQDPVRGAVSGGMIKELLISFRR-ATGQKPQ--RIIFYRDGVSEGQFYQVLLYELDAIR 887 (1036)
Q Consensus 811 y~~~~~~q~~~~e~i~~~~~~~~~~~~~~~~~~~i~~~L~~f~~-~~g~~P~--~IiiyRDGvsegq~~~v~~~Ei~~ik 887 (1036)
+...+..|..++|++++| .++++++|.+|++ .++.+|+ ||||| |||.+++++|+++|+
T Consensus 209 ~~~~~~~~~~~~E~~~~l-------------~~~l~~aL~~y~~~~~~~~P~~~rIii~------gq~~~v~~~Ei~~i~ 269 (427)
T 2w42_A 209 LWNEISPIVTSSEYLTYL-------------KSTIKKVVYGFKKSNPDWDVEKLTLHVS------GKRPKMKDGETKILK 269 (427)
T ss_dssp EEEEECCCEEGGGHHHHH-------------HHHHHHHHHHHHHHCTTCCCSEEEEEEE------SSCCSCHHHHHHHHH
T ss_pred EEEEEEECCCHHHHHHHH-------------HHHHHHHHHHHHHHHCCCCCCCEEEEEE------EECCCCCHHHHHHHH
T ss_conf 999888427706799999-------------9999999999998742789982599999------214111699999999
Q ss_pred HHHHHCCC----CCCCCEEEEEEEECCC-CCCCCCCCCCCCCCCCCCCCCCCEEEECCCCCCCCCCEEEECCCCCCC---
Q ss_conf 99995099----9999899999920443-333224799987557679875730541455578756368410577444---
Q 001660 888 KACASLEP----NYQPPVTFVVVQKRHH-TRLFANNHHDRNAVDRSGNILPGTVVDSKICHPTEFDFYLCSHAGIQG--- 959 (1036)
Q Consensus 888 ~a~~~~~~----~y~P~it~Ivv~Krh~-tRff~~~~~~~~~~~~~~N~~pGTvVD~~i~~p~~~dFyL~Sh~~~qG--- 959 (1036)
+||.++.. +|+|+||||+|+|||| +|||..+. .+||+||||||.+ ++|||.+|.+.|+
T Consensus 270 ~a~~~~~~~~~~~~~~~l~~IvV~Kr~~~~r~f~~~~--------~~nP~~GTvVd~~------~~~~l~~~~g~q~~~~ 335 (427)
T 2w42_A 270 ETVEELKKQEMVSRDVKYAILHLNETHPFWVMGDPNN--------RFHPYEGTKVKLS------SKRYLLTLLQPYLKRN 335 (427)
T ss_dssp HHHHHHHHTTSSCTTCEEEEEEEEECCCEEEEC----------------CCSEEEESS------SSEEEEEEEC------
T ss_pred HHHHHHCCCCCCCCCCCEEEEEEECCCCCEEEECCCC--------CCCCCCCEEEECC------CCEEEEEEEEEECCCC
T ss_conf 9998715443457888779999981666546654788--------8998996499758------9808999974523656
Q ss_pred ---C---CCCCEEEEEEC----CCCC-CHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCHHHHH
Q ss_conf ---4---57862699954----9999-98889999999740232038630235664210012114666764103102241
Q 001660 960 ---T---SRPAHYHVLWD----ENKF-TADGLQSLTNNLCYTYARCTRSVSIGKLSLLPAFSYSSACTQMQMHNLAFSFS 1028 (1036)
Q Consensus 960 ---T---arPthY~Vl~d----e~~~-~~d~lq~lT~~LC~~y~r~t~sVsip~P~~yA~~~~~~~~~~~~~~~l~~~~~ 1028 (1036)
+ ++||||+|++| |+.+ ++|+||++||+|||+|+|||++||+|+|+|| ||+||++++
T Consensus 336 ~~~~~~~~~Pt~y~vi~d~~~~~~~~~~~d~lq~lty~L~~~nw~~t~~v~vPap~~Y-------------AhklA~l~~ 402 (427)
T 2w42_A 336 GLEMVTPIKPLSVEIVSDNWTSEEYYHNVHEILDEIYYLSKMNWRGFRSRNLPVTVNY-------------PKLVAGIIA 402 (427)
T ss_dssp ---CEEEEEEEEEEEEEECCCTTTHHHHHHHHHHHHHHHHTCCTTSSSCCSSCHHHHH-------------HHHHHHHHH
T ss_pred CCCCCCCCCCEEEEEEECCCCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHH-------------HHHHHHHHH
T ss_conf 6565358898799999668768445989999999999854765688888983765076-------------999999986
Q ss_pred HCH
Q ss_conf 000
Q 001660 1029 QLF 1031 (1036)
Q Consensus 1029 ~~~ 1031 (1036)
++-
T Consensus 403 ~~~ 405 (427)
T 2w42_A 403 NVN 405 (427)
T ss_dssp HHH
T ss_pred HHH
T ss_conf 564
No 9
>4g0x_A Protein argonaute 1; MID domain, small RNA 5' nucleotide recognition, gene regula; 1.35A {Arabidopsis thaliana} PDB: 4g0q_A* 4g0p_A 4g0y_A* 4g0z_A* 3vna_A 3vnb_A
Probab=1.00 E-value=1 Score=223.44 Aligned_cols=146 Identities=88% Similarity=1.424 Sum_probs=130.2
Q ss_pred CCEEEECCEECEEEEEEECCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHCCCCC
Q ss_conf 82463082203159999268866689999999999998832954689993278999904599999999999987507999
Q 001660 615 NKKMVNGGTVNHWICINFSRHVQDSIARGFCFELAQMCYISGMAFNPEPVIPPISARPEHVEKVLKTRYHDAMTKLGQGK 694 (1036)
Q Consensus 615 ~~~f~~~~~i~~W~iv~~~~~~~~~~~~~f~~~L~~~~~~~G~~~~~~p~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 694 (1036)
+++|++|+++++|++++|+++.+++.+++|++.|.+.|+.+||.++++|.+.....+++++++.|+..++++.+++..+.
T Consensus 2 ~kkf~~~~~l~~Wavv~~~~~~~~~~~~~F~~~L~~~~~~~Gm~i~~p~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~ 81 (147)
T 4g0x_A 2 NKKMINGGTVNNWICINFSRQVQDNLARTFCQELAQMCYVSGMAFNPEPVLPPVSARPEQVEKVLKTRYHDATSKLSQGK 81 (147)
T ss_dssp CCCEEECCEECSEEEEECCTTCCHHHHHHHHHHHHHHHHHTTCEECSSCSSCCEECCGGGHHHHHHHHHHHHHHTSSTTC
T ss_pred CCEEECCCCCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCCCCCCEEECCCCCHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf 88770277467489998468776799999999999999984997799986521478817799999999999986404489
Q ss_pred CCCEEEEEECCCCCCHHHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf 961999994699971268899881103470236562022034558799999999985229513212
Q 001660 695 ELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKHVFKMSKQYMANVALKINVKVGGRNTVL 760 (1036)
Q Consensus 695 ~~~lvi~ilp~~~~~~Y~~IK~~~e~~~gI~TQci~~~t~~K~~~~~~~Ni~lKiN~KlGG~n~~l 760 (1036)
+++|||||+|+++.++|+.||++||+++||+||||+.+|+.|.++||++||+||||+||||+||.|
T Consensus 82 ~~~lv~~il~~~~~~~Y~~iK~~~~~~~gi~tqcv~~~~~~k~~~q~~~nv~lKiN~KlGG~N~~l 147 (147)
T 4g0x_A 82 EIDLLIVILPDNNGSLYGDLKRICETELGIVSQCCLTKHVFKMSKQYMANVALKINVKVGGRNTVL 147 (147)
T ss_dssp CCCEEEEEECSSCTTHHHHHHHHCCCCCCCCEEEEEHHHHHHCCHHHHHHHHHHHHHHTTCEECCC
T ss_pred CCEEEEEEECCCCCCHHHHHHHHHCCCCCCCCEEECHHHHCCCCHHHHHHHHHHHHHHHCCCCCCC
T ss_conf 971999996899940789999987327891658854455167778899999999977657545639
No 10
>1vyn_A Argonaute2; nucleic acid binding, RNA interference; NMR {Drosophila melanogaster} SCOP: b.34.14.1
Probab=1.00 E-value=1 Score=218.24 Aligned_cols=138 Identities=25% Similarity=0.500 Sum_probs=121.1
Q ss_pred ECCCCHHHHHHHHHCC-CCCCCCCCHHHHHHHHHHCCCEEEEEEECC---CCCCEEEEECCCCCCCCCEEEEECCCCCEE
Q ss_conf 5476199999998428-999999996789999987044199995359---866249993357899975044315999274
Q 001660 406 IEPLPVIDFVQQLLNR-DVSSRPLSDADRVKIKKALRGVRVEVTHRG---NMRRKYRISGLTSQTTGELTFPVDESGTLK 481 (1036)
Q Consensus 406 ~~~~~l~d~~~~~~~~-~~~~~~~~~~~~~~i~~~Lkgl~V~~~y~g---~~~r~~~I~gi~~~~~~~~~F~~~~~g~~i 481 (1036)
++++||+||++++++. ........+.++.+++++|+|++|.++|.+ ..+|+|+|.||++.++++++|+.+ |.++
T Consensus 2 ~~~~~vidfl~~~~~~~~~~~~~~~~~~r~~~~k~LkGl~V~~~~~~~~~~~~r~yrI~~i~~~~a~~~~F~~~--g~~i 79 (143)
T 1vyn_A 2 AMAMPMIEYLERFSLKAKINNTTNLDYSRRFLEPFLRGINVVYTPPQSFQSAPRVYRVNGLSRAPASSETFEHD--GKKV 79 (143)
T ss_dssp --CEEHHHHHHHHTTSSCCSSSSCHHHHHHHSHHHHTTEEEEECCCTTSCCCCEEEEEEEEEEEETTTCEEESS--SCEE
T ss_pred CCCCCHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHCCCEEEEEECCCCCCCCCCEEEEEECCCCCCCCEEEECC--CCEE
T ss_conf 88634999999986216666557566899999997498399995687766787359981056899521289749--9779
Q ss_pred EHHHHHHHHCCCCCCCCCCCEEEECCCCCCCCCCCCCEEECCCCCCCCCCCHHHHHHHHHHHCCC
Q ss_conf 39899998819766789994599147887742245425731685334469999999999985099
Q 001660 482 SVVEYFYETYGFVIQHTQWPCLQVGNQQRPNYLPMEVCKIVEGQRYSKRLNERQITALLKVTCQR 546 (1036)
Q Consensus 482 sV~~Yf~~~Y~i~L~~p~lP~v~~~~~~~~~ylP~Elc~i~~gQ~~~~~l~~~~~~~lik~~~~~ 546 (1036)
||+|||+++ |++|+||+||||++|++.+++|||||||.|++||+++++|+++|+++||++||.+
T Consensus 80 sv~~Yf~~~-~~~l~~p~lP~l~~g~~~k~~ylP~ElC~i~~gQ~~~~kl~~~q~~~mik~a~~~ 143 (143)
T 1vyn_A 80 TIASYFHSR-NYPLKFPQLHCLNVGSSIKSILLPIELCSIEEGQALNRKDGATQVANMIKYAATS 143 (143)
T ss_dssp EHHHHHHHT-TCCCSSTTSEEEEEECSSSEEEEEGGGEEECC-----------------------
T ss_pred EHHHHHHHC-CCCCCCCCCCEEEECCCCCCEEECCEEEECCCCCCCCCCCCHHHHHHHHHHHHCC
T ss_conf 899999872-9977899987587437889758511858805895224318989999999998359
Done!