Query 001961
Match_columns 990
No_of_seqs 415 out of 1553
Neff 7.9
Searched_HMMs 29240
Date Mon Mar 25 06:26:00 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001961.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/001961hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 4f3t_A Protein argonaute-2; hy 100.0 2E-163 8E-168 1508.1 76.4 766 192-990 18-791 (861)
2 4f1n_A Kpago; argonaute, RNAI, 100.0 2E-149 8E-154 1377.4 59.3 767 192-990 10-975 (1046)
3 1yvu_A Hypothetical protein AQ 100.0 3.6E-89 1.2E-93 822.9 36.6 589 267-990 48-665 (706)
4 2yhb_A QDE-2, post-transcripti 100.0 2.5E-86 8.7E-91 761.9 27.6 350 613-990 2-371 (437)
5 1u04_A Argonaute, hypothetical 100.0 1.3E-80 4.4E-85 746.7 35.3 629 213-990 3-727 (771)
6 3ho1_A Argonaute; argonaute, p 100.0 5.9E-73 2E-77 668.6 44.2 614 213-990 6-641 (685)
7 2yha_A Post-transcriptional ge 100.0 3.9E-68 1.3E-72 603.6 27.9 302 613-990 2-322 (388)
8 2w42_A PIWI, putative uncharac 100.0 7.3E-47 2.5E-51 434.8 11.2 335 587-990 5-377 (427)
9 4g0x_A Protein argonaute 1; MI 100.0 4.6E-29 1.6E-33 245.4 15.4 146 615-760 2-147 (147)
10 4g0o_A Protein argonaute 5; MI 100.0 2.3E-28 7.8E-33 237.9 11.6 138 615-760 2-139 (139)
11 1vyn_A Argonaute2; nucleic aci 99.9 1.5E-28 5.3E-33 239.9 9.7 138 406-546 2-143 (143)
12 3luc_A Protein argonaute-2; MI 99.9 8.5E-27 2.9E-31 226.7 13.9 136 614-757 1-138 (138)
13 4g0m_A Protein argonaute 2; MI 99.9 7.3E-27 2.5E-31 230.5 10.4 143 615-760 2-150 (150)
14 3mj0_A Protein argonaute-2; ar 99.9 7.8E-25 2.7E-29 207.2 9.3 119 407-529 1-124 (124)
15 2xfm_A MIWI, PIWI-like protein 99.9 1.3E-24 4.5E-29 213.7 8.2 135 407-557 1-150 (150)
16 3qir_A PIWI-like protein 2; st 99.9 8E-24 2.7E-28 205.9 9.2 136 408-554 2-147 (148)
17 1r6z_P Chimera of maltose-bind 99.8 8.1E-21 2.8E-25 226.2 10.2 131 399-532 375-509 (509)
18 3o7v_X PIWI-like protein 1; PI 99.8 3.6E-20 1.2E-24 174.5 10.3 112 409-536 2-122 (124)
19 2qvw_A GLP_546_48378_50642; di 98.5 4.5E-08 1.5E-12 119.1 5.5 85 435-523 151-253 (756)
20 2nrr_A Uvrabc system protein C 70.1 30 0.001 33.2 10.5 102 775-916 17-120 (159)
21 3qbz_A DDK kinase regulatory s 67.9 2 6.7E-05 41.1 1.8 64 846-909 45-117 (160)
22 2nrt_A Uvrabc system protein C 49.3 66 0.0023 32.7 9.4 102 775-916 22-125 (220)
23 2b5u_A Colicin E3; high resolu 32.2 13 0.00043 41.8 0.9 11 775-785 503-513 (551)
24 3c65_A Uvrabc system protein C 20.7 3.6E+02 0.012 27.4 9.2 98 775-909 14-118 (226)
25 4b4u_A Bifunctional protein fo 20.2 3.1E+02 0.01 29.2 8.9 57 693-751 51-108 (303)
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=100.00 E-value=2.3e-163 Score=1508.10 Aligned_cols=766 Identities=43% Similarity=0.766 Sum_probs=669.8
Q ss_pred CCCCCCCccCcCCCCCCCCCCcceEeeceEEEecCCCceEEEEEEecCCCCchhhHHHHHHHHHHHHHhhccCCccceEe
Q 001961 192 APPSSKSVRFPLRPGRGSTGTRCIVKANHFFAELPDKDLHQYDVTITPEVTSRGVNRAVMEQLVKLYRESHLGKRLPAYD 271 (990)
Q Consensus 192 ~p~~~~~~~~p~RP~~Gt~G~~i~l~tN~f~i~~~~~~iy~YdV~i~pe~~~k~~~r~i~~~l~~~~~~~~~g~~~~~yD 271 (990)
+|.+++.+.+|.||++||.|++|.|+||||+|+++++.||||||+|+|+..+++++|+||+++++.++...+++..+|||
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
Confidence 34556678899999999999999999999999999889999999999999889999999999988775555777777999
Q ss_pred CCceEEecCCCCCCcceEEEEEecCCCCCCCCCCCcEEEEEEEEeeEechhhHHHHhcCCCCCChHHHHHHHHHHHhcCC
Q 001961 272 GRKSLYTAGPLPFLSKEFRITLLDDDDGQGGQRREREFKVVIKLAARADLHHLGLFLQGRQADAPQEALQVLDIVLRELP 351 (990)
Q Consensus 272 G~k~lys~~~L~~~~~~~~v~l~~~~~~~~~~~~~~~~~V~Ik~~~~~~l~~l~~~l~g~~~~~~~~~iq~Lniilr~~~ 351 (990)
|+++|||+.+||+++..+++.+.... ..+++.|+|+|++++++++++|.+||.|.....+.++||+||||||+.+
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
Confidence 99999999999986654444442211 1356789999999999999999999999988888999999999999988
Q ss_pred CCCccccCccccCCCCCCcccCCCcEEEEeeeeeeeeeccCceEEeeeccccccccCccHHHHHHHHhcCCCC---CCCC
Q 001961 352 TTRYCPVGRSFYSPDLGRRQPLGEGLESWRGFYQSIRPTQMGLSLNIDMSSTAFIEPLPVIDFVQQLLNRDVS---SRPL 428 (990)
Q Consensus 352 ~~~~~~~gr~ff~~~~~~~~~lg~g~e~~~G~~~Svr~~~~~l~LniD~s~~~F~~~~~l~d~~~~~~~~~~~---~~~~ 428 (990)
+++|..+||+||++..+...++++|+|+|+||++|||+++++|+||||+++++|++++||+|+|.++++..+. .+++
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
Confidence 8899999999998765445678999999999999999999999999999999999999999999999875432 3457
Q ss_pred ChHHHHHHHHHhcccEEEEeecCCccceEEEecccCCCCcceeeeec-CCC--ceeeHHHHHHHHcCCcccCCCCceEEe
Q 001961 429 SDADRVKIKKALRGVRVEVTHRGNMRRKYRISGLTSQTTGELTFPVD-ESG--TLKSVVEYFYETYGFVIQHTQWPCLQV 505 (990)
Q Consensus 429 ~~~~~~~l~~~LkGl~V~~~~~~~~~r~~~I~gi~~~~a~~~~F~~~-~~g--~~iSV~eYf~~~Y~i~L~~p~lP~l~~ 505 (990)
++.++.+++++|+|++|.++|.+..+|+|+|.+|++.++++.+|.++ ++| ++|||+|||+++|||+|+||+||||++
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
Confidence 78889999999999999999976557899999999988899999753 334 379999999999999999999999999
Q ss_pred ccCCcCccccccceeeccCcccccCCCHHHHHHHHHhhcCCchHHHHHHHHHHHhccCCCCccccccCeEEcccceEeee
Q 001961 506 GNQQRPNYLPMEVCKIVEGQRYSKRLNERQITALLKVTCQRPHERERDIMQTVHHNAYHEDPYAREFGIKISEKLASVEA 585 (990)
Q Consensus 506 g~~~~~~ylP~Elc~i~~gQ~~~~kl~~~q~~~mik~a~~~P~~R~~~i~~~~~~~~~~~~~~l~~fGi~i~~~~~~v~a 585 (990)
|++++++|||||||.|+|||++.++|+++|+++|||+|+.+|.+|.+.|.++++.+.++.+++|++|||+|+++|++|+|
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
Confidence 98888999999999999999999999999999999999999999999999999888888889999999999999999999
Q ss_pred EEeCCCceeeccCCCccccCCcCccccccCceeeeCceeceeEEEEecC--CcchHHHHHHHHHHHHHHHhcCcccCCCC
Q 001961 586 RILPAPWLKYHDTGKEKDCLPQVGQWNMMNKKMVNGGTVNHWICINFSR--HVQDSIARGFCFELAQMCYISGMAFNPEP 663 (990)
Q Consensus 586 rvL~~P~i~y~~~~~~~~~~p~~G~Wn~~~~kf~~~~~l~~W~vv~~~~--~~~~~~~~~f~~~L~~~~~~~Gm~i~~~p 663 (990)
||||+|+|.|+++++ ..+.|.+|+|||++++|++++++++|+|++|.. .+..+.++.|++.|.+.|+.+||.+..+|
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
Confidence 999999999986432 235688999999999999999999999999863 34577899999999999999999997656
Q ss_pred ccCCCCCCchhHHHHHHHHHHHHHhhcCCCCCccEEEEEecCCCCchhHHHHHHhhhccCeeeeeeeeccccccchhHHH
Q 001961 664 VIPPISARPEHVEKVLKTRYHDAMTKLGQGKELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKHVFKMSKQYMA 743 (990)
Q Consensus 664 ~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~lvl~ilp~~~~~~Y~~iK~~~~~~~gI~TQci~~~t~~k~~~q~~~ 743 (990)
.+.......+.++..++.+.+. ..++||||||||++ .++|+.||++||+++||+||||+.+++.|.++||+.
T Consensus 492 ~~~~~~~~~~~~~~~~~~l~~~-------~~~~qlvl~Ilp~~-~~~Y~~IK~~~~~~~gI~TQcv~~~~~~k~~~q~~~ 563 (861)
T 4f3t_A 492 CFCKYAQGADSVEPMFRHLKNT-------YAGLQLVVVILPGK-TPVYAEVKRVGDTVLGMATQCVQMKNVQRTTPQTLS 563 (861)
T ss_dssp SEEEECCSSSSHHHHHHHHHHH-------STTCCEEEEEESSS-CTHHHHHHHHHHHTSCCEEEEEETHHHHSCCHHHHH
T ss_pred eEEEecCchHHHHHHHHHHHhh-------cCCCcEEEEEeCCC-ccHHHHHHHHhcccCCcceEEEEecccccccHHHHH
Confidence 5432222345566555544321 14689999999965 578999999999999999999999999988999999
Q ss_pred HHHHHHHHhcCccccccccccccCCCccCCCCeEEEEEeecCCCCCCCCCCceeEEEEeecCCCccceeeEEEEccCChh
Q 001961 744 NVALKINVKVGGRNTVLVDAISRRIPLVSDRPTIIFGADVTHPHPGEDSSPSIAAVVASQDWPEVTKYAGLVCAQAHRQE 823 (990)
Q Consensus 744 Ni~lKiN~KlGG~N~~l~~~~~~~~p~~~~~~tmiiG~DVsHp~~~~~~~pSiaavVaS~d~~~~~ky~~~~~~Q~~~~E 823 (990)
|||||||+||||+||.+.+. ..|.+...+|||||+||+||+++....|||||||||+| .++++|.+.+++|.+++|
T Consensus 564 ni~lKiN~KlGG~n~~l~~~---~~~~~~~~~tmiiG~DV~H~~~~~~~~pSiaa~vaS~d-~~~~~y~~~~~~Q~~~~E 639 (861)
T 4f3t_A 564 NLCLKINVKLGGVNNILLPQ---GRPPVFQQPVIFLGADVTHPPAGDGKKPSIAAVVGSMD-AHPNRYCATVRVQQHRQE 639 (861)
T ss_dssp HHHHHHHHHTTCBCCEECST---TSCGGGGSCEEEEEEEEECCC----CCCEEEEEEEECS-SSSCCEEEEEEEESTTCC
T ss_pred HHHHHHHHhcCCcceecccc---ccccccCCceEEEEEEecccCCCCCCCceEEEEEEEcC-CCcceEEEEEEEcCCCcc
Confidence 99999999999999988653 23445568999999999999988667899999999999 789999999999999999
Q ss_pred hhhhhhccccCCCcccchhHHHHHHHHHHHHHhCCCCceEEEEecCCCchhHHHHHHHHHHHHHHHHHhhCCCCCCCEEE
Q 001961 824 LIQDLFKTWQDPVRGAVSGGMIKELLISFRRATGQKPQRIIFYRDGVSEGQFYQVLLYELDAIRKACASLEPNYQPPVTF 903 (990)
Q Consensus 824 ~i~~l~~~~~~~~~~~~~~~m~~~~L~~f~~~~g~~P~~IIiyRDGVsegq~~~vl~~E~~~i~~a~~~~~~~~~P~it~ 903 (990)
+|++| .+|++++|+.|+++++.+|++|||||||||||||.+|+++|+++|++||.+++.+|+|+|||
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
Confidence 99998 78999999999999999999999999999999999999999999999999999999999999
Q ss_pred EEEeecccccccccCCCCCCCCCCCCCCCCcceeeccccCCCcccEEEeeccCccccccCCeeEEEecCCCCCHHHHHHH
Q 001961 904 VVVQKRHHTRLFANNHHDRNAVDRSGNILPGTVVDSKICHPTEFDFYLCSHAGIQGTSRPAHYHVLWDENKFTADGLQSL 983 (990)
Q Consensus 904 Ivv~Krh~tRff~~~~~~~~~~~~~~N~~pGTvVD~~It~p~~~dFyL~Sh~~~qGTarPthY~Vl~de~~~~~d~lq~l 983 (990)
|||+||||||||+.+.++ ..++.+||+||||||++||||.+||||||||+++|||||||||+||+||+++++|+||+|
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
Confidence 999999999999986532 235789999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhcC
Q 001961 984 TNNLCYT 990 (990)
Q Consensus 984 t~~LC~~ 990 (990)
||+|||+
T Consensus 785 ty~Lc~~ 791 (861)
T 4f3t_A 785 TYQLCHT 791 (861)
T ss_dssp HHHHTTC
T ss_pred HHHHhhh
Confidence 9999996
No 2
>4f1n_A Kpago; argonaute, RNAI, RNAse H, RNA binding protein-RNA complex; 3.19A {Vanderwaltozyma polyspora}
Probab=100.00 E-value=2.5e-149 Score=1377.38 Aligned_cols=767 Identities=24% Similarity=0.377 Sum_probs=604.6
Q ss_pred CCCCCCCccCcCCCCCCCCCCcceEeeceEEEecCCC---------------------ceEEEEEEecCCCCc-------
Q 001961 192 APPSSKSVRFPLRPGRGSTGTRCIVKANHFFAELPDK---------------------DLHQYDVTITPEVTS------- 243 (990)
Q Consensus 192 ~p~~~~~~~~p~RP~~Gt~G~~i~l~tN~f~i~~~~~---------------------~iy~YdV~i~pe~~~------- 243 (990)
.|.+.....+|.||+|||.|++|.|+||||.|.+.+. .||+|+|+|.|+...
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
Confidence 4556677889999999999999999999999998755 799999999986432
Q ss_pred -------hhhHHHHHHHHHHHHH-hhccCCccceEeCCceEEecCCCC---CCcceEEEEEe-----cCCCCC-------
Q 001961 244 -------RGVNRAVMEQLVKLYR-ESHLGKRLPAYDGRKSLYTAGPLP---FLSKEFRITLL-----DDDDGQ------- 300 (990)
Q Consensus 244 -------k~~~r~i~~~l~~~~~-~~~~g~~~~~yDG~k~lys~~~L~---~~~~~~~v~l~-----~~~~~~------- 300 (990)
++.+++|+..|+++.. ...++.. +||||+++|||+.+|| +....+.|... ++.++.
T Consensus 90 ~~~~~~~~~k~~~ii~~ll~e~~~~~~~~~~-ia~d~~~~L~s~~~L~~~~l~~~~~~v~~~~~~~~~~~~~~~~~~~~~ 168 (1046)
T 4f1n_A 90 VPPQELSKPKKYELIEALLDEDEILYKYRDR-IAFNGEDTIYSHVPLEEFTLFDGCWEVSNKQKKKVVPGMGAPSNKASL 168 (1046)
T ss_dssp -----CCHHHHHHHHHHHHHSCTTTGGGTTS-EEECSSSEEEESSCGGGSTTCTTCCC----------------------
T ss_pred CcccccchhHHHHHHHHHHHhcchhhhcCCc-eeecCccceEECCcCCccccCCCceEEeccccccccCCcccccccccc
Confidence 4456777777776411 1124444 7999999999999999 54556777665 222210
Q ss_pred ----CCCCCCcEEEEEEEEeeEechhhHHHHhcCCCCCCh-----HHHHHHHHHHHhcCCCCC----ccccCccccCCCC
Q 001961 301 ----GGQRREREFKVVIKLAARADLHHLGLFLQGRQADAP-----QEALQVLDIVLRELPTTR----YCPVGRSFYSPDL 367 (990)
Q Consensus 301 ----~~~~~~~~~~V~Ik~~~~~~l~~l~~~l~g~~~~~~-----~~~iq~Lniilr~~~~~~----~~~~gr~ff~~~~ 367 (990)
....+++.|+|+|++++++++.+|.+||.+.....+ .+++++||+||++.+... +...+++||..+.
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
Confidence 112567889999999999999999999999865422 578999999999865333 3344556885432
Q ss_pred -CCcccCCCcEEEEeeeeeeeeeccCceEEeeeccccccccC-----------------ccHHHHHHHHhcCCC------
Q 001961 368 -GRRQPLGEGLESWRGFYQSIRPTQMGLSLNIDMSSTAFIEP-----------------LPVIDFVQQLLNRDV------ 423 (990)
Q Consensus 368 -~~~~~lg~g~e~~~G~~~Svr~~~~~l~LniD~s~~~F~~~-----------------~~l~d~~~~~~~~~~------ 423 (990)
....+|++|+|+|+|||+||||++++|+||||+++++||++ ++|+|+|.++++..+
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
Confidence 24678999999999999999999999999999999999985 799999999876211
Q ss_pred ----CCCCCChHHH-------HHHHHHhcccEEEEeecC-------C-----ccceEEEecccCCCCcceeeeecCC---
Q 001961 424 ----SSRPLSDADR-------VKIKKALRGVRVEVTHRG-------N-----MRRKYRISGLTSQTTGELTFPVDES--- 477 (990)
Q Consensus 424 ----~~~~~~~~~~-------~~l~~~LkGl~V~~~~~~-------~-----~~r~~~I~gi~~~~a~~~~F~~~~~--- 477 (990)
..+.++..++ .+++++||||+|+++|.+ + ..+.++|.||+..++++++|.+++.
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
Confidence 1223333344 789999999999999974 1 1357999999999999999987532
Q ss_pred ----------CceeeHHHHHHHHcCCcccCCCCceEEeccCCcCccccccceeeccCcccccCCCHHHHHHHHHhhcCCc
Q 001961 478 ----------GTLKSVVEYFYETYGFVIQHTQWPCLQVGNQQRPNYLPMEVCKIVEGQRYSKRLNERQITALLKVTCQRP 547 (990)
Q Consensus 478 ----------g~~iSV~eYf~~~Y~i~L~~p~lP~l~~g~~~~~~ylP~Elc~i~~gQ~~~~kl~~~q~~~mik~a~~~P 547 (990)
+++|||+|||+++|||+|+||+||||++|++ .+|||||||.|+|||+|+++|++ +++|||+||++|
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
Confidence 1579999999999999999999999999974 37999999999999999999987 489999999999
Q ss_pred hHHHHHHHHHHH-----hccCCCCccccccCeEEcccceEeeeEEeCCCceeeccCCCc-------cccCCcCccccccC
Q 001961 548 HERERDIMQTVH-----HNAYHEDPYAREFGIKISEKLASVEARILPAPWLKYHDTGKE-------KDCLPQVGQWNMMN 615 (990)
Q Consensus 548 ~~R~~~i~~~~~-----~~~~~~~~~l~~fGi~i~~~~~~v~arvL~~P~i~y~~~~~~-------~~~~p~~G~Wn~~~ 615 (990)
.+|++.|.+.+. .+.++.+++|++|| +|+.+|++|+|||||||.|+|+++... ..+.|++|.|||++
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
Confidence 999999998642 24446788999999 999999999999999999999864211 01346789999999
Q ss_pred ceeeeCce-eceeEEEEec-C-C----cchHHHHHHHHHHHHHHHhcCcccCCC--CccC---------CCCC-------
Q 001961 616 KKMVNGGT-VNHWICINFS-R-H----VQDSIARGFCFELAQMCYISGMAFNPE--PVIP---------PISA------- 670 (990)
Q Consensus 616 ~kf~~~~~-l~~W~vv~~~-~-~----~~~~~~~~f~~~L~~~~~~~Gm~i~~~--p~~~---------~~~~------- 670 (990)
++|++++. +.+|.++++. . . ...+.++.|++.|++.|+.+||.+..+ |.+. +...
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
Confidence 99999874 5667665432 1 1 134678999999999999999999752 4221 0000
Q ss_pred -------------------CchhHHHHHHHHHHHHHhhcCCCCCccEEEEEecCC-CCchhHHHHHHhhhccCeeeeeee
Q 001961 671 -------------------RPEHVEKVLKTRYHDAMTKLGQGKELDLLIVILPDN-NGSLYGDLKRICETDLGLVSQCCL 730 (990)
Q Consensus 671 -------------------~~~~~~~~l~~~~~~a~~~~~~~~~~~lvl~ilp~~-~~~~Y~~iK~~~~~~~gI~TQci~ 730 (990)
..++.+..|..++++ + .+++|||||||++ +.++|+.||++||+++||+||||+
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
Confidence 002334555555443 2 4689999999998 678999999999999999999999
Q ss_pred eccccccchhHHHHHHHHHHHhcCccccccccccccCCCcc----CCCCeEEEEEeecCCCCCCCCCCceeEEEEeecCC
Q 001961 731 TKHVFKMSKQYMANVALKINVKVGGRNTVLVDAISRRIPLV----SDRPTIIFGADVTHPHPGEDSSPSIAAVVASQDWP 806 (990)
Q Consensus 731 ~~t~~k~~~q~~~Ni~lKiN~KlGG~N~~l~~~~~~~~p~~----~~~~tmiiG~DVsHp~~~~~~~pSiaavVaS~d~~ 806 (990)
.+++.|.+.||++|||||||+||||+||.|++.. ++.+ +..+|||||+||+|++++. .+||||||||+| .
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
Confidence 9999998999999999999999999999997642 2333 2357999999999954332 469999999999 7
Q ss_pred CccceeeEEEEccC-ChhhhhhhhccccCCCcccchhHHHHHHHHHHHHH-hCCCCceEEEEecCCCchhHHHHHHHHHH
Q 001961 807 EVTKYAGLVCAQAH-RQELIQDLFKTWQDPVRGAVSGGMIKELLISFRRA-TGQKPQRIIFYRDGVSEGQFYQVLLYELD 884 (990)
Q Consensus 807 ~~~ky~~~~~~Q~~-~~E~i~~l~~~~~~~~~~~~~~~m~~~~L~~f~~~-~g~~P~~IIiyRDGVsegq~~~vl~~E~~ 884 (990)
++++|.+.+++|.+ ++|+|++| .+||.++|+.|++. ++.+|++|||||||||||||.+|+++||+
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
Confidence 89999999999998 99999998 78999999999998 78999999999999999999999999999
Q ss_pred HHHHHHHhhC------CCCCCCEEEEEEeecccccccccCCCCCCC------CCCCCCCCCcceeeccccCCCcccEEEe
Q 001961 885 AIRKACASLE------PNYQPPVTFVVVQKRHHTRLFANNHHDRNA------VDRSGNILPGTVVDSKICHPTEFDFYLC 952 (990)
Q Consensus 885 ~i~~a~~~~~------~~~~P~it~Ivv~Krh~tRff~~~~~~~~~------~~~~~N~~pGTvVD~~It~p~~~dFyL~ 952 (990)
+|++||.++. .+|+|+||||||+||||||||+.+.++.+. .++.+||+||||||++||||.+||||||
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
Confidence 9999999885 579999999999999999999975432110 1236899999999999999999999999
Q ss_pred eccCccccccCCeeEEEecCCCCCHHHHHHHHHHhhcC
Q 001961 953 SHAGIQGTSRPAHYHVLWDENKFTADGLQSLTNNLCYT 990 (990)
Q Consensus 953 Sh~~~qGTarPthY~Vl~de~~~~~d~lq~lt~~LC~~ 990 (990)
||+++|||||||||+||+||+++++|+||+|||+|||+
T Consensus 938 Sh~~~qGTarPthY~VL~De~~~~~d~lQ~LTy~LC~~ 975 (1046)
T 4f1n_A 938 SHQALKGTGVPCHYWCLYDENQSTSDYLQEICNNLCYI 975 (1046)
T ss_dssp CSCCCSSSCCCEEEEEEEESSCCCHHHHHHHHHHTTSC
T ss_pred ccccCCCcccCcEEEEEeCCCCCCHHHHHHHHHHHhhh
Confidence 99999999999999999999999999999999999996
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=100.00 E-value=3.6e-89 Score=822.93 Aligned_cols=589 Identities=15% Similarity=0.154 Sum_probs=443.8
Q ss_pred cceEeCCceEEecCCCCCCcceEEEEEecCCCCCCCCCCCcEEEEEEEEeeEechhhHHHHhcCCCCCChHHHHHHHHHH
Q 001961 267 LPAYDGRKSLYTAGPLPFLSKEFRITLLDDDDGQGGQRREREFKVVIKLAARADLHHLGLFLQGRQADAPQEALQVLDIV 346 (990)
Q Consensus 267 ~~~yDG~k~lys~~~L~~~~~~~~v~l~~~~~~~~~~~~~~~~~V~Ik~~~~~~l~~l~~~l~g~~~~~~~~~iq~Lnii 346 (990)
++.|-....+|.+++... .++-++..++ . +|+|+++++++.- .-..+.+++|+++++
T Consensus 48 ~~~~~~~~~~~~~~~~~~--~~~~~~~~~~----------~--~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~ 104 (706)
T 1yvu_A 48 LPTFRREDEFWCAGKVEK--DTLYLTLSNG----------E--IVELKRVGEEEFR---------GFQNERECQELFRDF 104 (706)
T ss_dssp SCEEEETTEEEESSCCTT--CCCEEEECSS----------S--CEEEEECCCEECC---------CCSCHHHHHHHHHHH
T ss_pred Cccccccccceecccccc--ceEEEEcCCC----------C--EEEEEEEEEeecc---------CCCCCHHHHHHHHHH
Confidence 456777778999988743 3333443221 1 5679998877510 012467899999999
Q ss_pred HhcCCCCCccccCccccCCCCCCcccC---CCcEEEEeeeeeeeeecc-CceEEeeeccccccccCccHHHHHHHHhcCC
Q 001961 347 LRELPTTRYCPVGRSFYSPDLGRRQPL---GEGLESWRGFYQSIRPTQ-MGLSLNIDMSSTAFIEPLPVIDFVQQLLNRD 422 (990)
Q Consensus 347 lr~~~~~~~~~~gr~ff~~~~~~~~~l---g~g~e~~~G~~~Svr~~~-~~l~LniD~s~~~F~~~~~l~d~~~~~~~~~ 422 (990)
++.. .+.+..+||+||++. ....+ .+++|+|+||..||+..+ ++++||+|++|+ |.+..||+|+|.+ ...
T Consensus 105 ~~~~-~l~~~~igr~~~~~~--~~~~i~~~~~~l~iwPG~~tsi~~~e~~~~~L~~DvshK-vlr~~Tvld~l~~-~~~- 178 (706)
T 1yvu_A 105 LTKT-KVKDKFISDFYKKFR--DKITVQGKNRKIALIPEVNEKVLKSEEGYFLLHLDLKFR-IQPFETLQTLLER-NDF- 178 (706)
T ss_dssp HHHT-CHHHHHHHHHHHHHH--HHHEEECSSCEEEEEEEEEEEEEEBSSSCEEEEEEEEEE-EEESSCHHHHHHH-CCC-
T ss_pred HHHc-CChHhhhCccccCcc--ccccccCCCCcEEEccCeEEEEEeccCCCeEEEEEeeee-ecccchHHHHHHH-hhh-
Confidence 9988 455668999999875 33455 467999999999999998 999999999998 8999999999998 331
Q ss_pred CCCCCCChHHHHHHHHHhcccEEEEeecCCccceE--EEecc-cCCCCcceeeeecCCCceeeHHHHHHHHcCCc-----
Q 001961 423 VSSRPLSDADRVKIKKALRGVRVEVTHRGNMRRKY--RISGL-TSQTTGELTFPVDESGTLKSVVEYFYETYGFV----- 494 (990)
Q Consensus 423 ~~~~~~~~~~~~~l~~~LkGl~V~~~~~~~~~r~~--~I~gi-~~~~a~~~~F~~~~~g~~iSV~eYf~~~Y~i~----- 494 (990)
. . ..+..+|+ +++| +|++| +++..+.++|. + |..+| ||+++|++.
T Consensus 179 ~-----~-------------~~~~~~y~---n~ty~~riddi~~~~~~P~~~f~-~--g~~iS---Yyk~~~~~~q~ll~ 231 (706)
T 1yvu_A 179 N-----P-------------KRIRVKPI---GIDFVGRVQDVFKAKEKGEEFFR-L--CMERS---THKSSKKAWEELLK 231 (706)
T ss_dssp C-----C-------------TTCEEEET---TCCCCEEEEEEEESTTSCHHHHH-H--HHHTC---SSHHHHHHHHHHHH
T ss_pred c-----c-------------hhHHhhcc---cceeccccCcccccCCCcceEec-C--CCCcc---eEecccCcchhhhh
Confidence 1 0 13446675 5678 99998 99888999996 2 56688 999998876
Q ss_pred ---ccCCCCceEEeccCCcCccccccceeeccCcccccCCCHHHHHHHHHhhcCCchHHHHHHHHHHHhccCCCCccccc
Q 001961 495 ---IQHTQWPCLQVGNQQRPNYLPMEVCKIVEGQRYSKRLNERQITALLKVTCQRPHERERDIMQTVHHNAYHEDPYARE 571 (990)
Q Consensus 495 ---L~~p~lP~l~~g~~~~~~ylP~Elc~i~~gQ~~~~kl~~~q~~~mik~a~~~P~~R~~~i~~~~~~~~~~~~~~l~~ 571 (990)
.+++.+|++..+. +. .|+++|.. --+..+|+++|+++|+++|+.+|++|++.|.++++.+ +++|++
T Consensus 232 ~r~~~~~~~~~~v~~~--~~--~p~~lL~p---lc~~t~Ltd~q~~~mik~t~~~P~~R~~~i~~~~~~~----~~~L~~ 300 (706)
T 1yvu_A 232 NRELREKAFLVVLEKG--YT--YPATILKP---VLTYENLEDEERNEVADIVRMEPGKRLNLIRYILRRY----VKALRD 300 (706)
T ss_dssp CHHHHHHCEEEEETTS--CE--EEGGGEEE---CCCCC------HHHHTSTTSCCHHHHHHHHHHHHHHH----HHHHHT
T ss_pred ccccccCCceEEeccC--CC--CCceeecc---ccccCCCCHHHHHHHHHHHccCHHHHHHHHHHHHHHH----HHHHHH
Confidence 4455565555443 21 23444432 1133589999999999999999999999999998763 577999
Q ss_pred cCeEEcccceEeeeEEeCCCceeeccCCCccccCCcCccccccCceeeeCceece---eEEEEecCCcchHHHHHHHHHH
Q 001961 572 FGIKISEKLASVEARILPAPWLKYHDTGKEKDCLPQVGQWNMMNKKMVNGGTVNH---WICINFSRHVQDSIARGFCFEL 648 (990)
Q Consensus 572 fGi~i~~~~~~v~arvL~~P~i~y~~~~~~~~~~p~~G~Wn~~~~kf~~~~~l~~---W~vv~~~~~~~~~~~~~f~~~L 648 (990)
|||+|+++|++|+|||||+|+|.+..+.......+..+.|+++ ++|+.++.++. |.++ +..+ +..++.|++.|
T Consensus 301 fGi~i~~~~~~v~gRVLp~P~i~~~~g~~~~~~~~~~~~~~~~-~~~~~~~~l~~~~lW~~i-~~~~--~~~~~~f~~~L 376 (706)
T 1yvu_A 301 YGWYISPEEERAKGKLNFKDTVLDAKGKNTKVITNLRKFLELC-RPFVKKDVLSVEIISVSV-YKKL--EWRKEEFLKEL 376 (706)
T ss_dssp TTEEECSSCEECCEECCCCCCEECSSCCEECCSSCCHHHHHHC-CCCCSCSEEEEEEEEEEC--------CHHHHHHHHH
T ss_pred cCCEECCceeecccEEcCCceeecCCCCcceeccCCccccccc-CceecccccccceEEEEE-ecch--hHHHHHHHHHH
Confidence 9999999999999999999999864321111222334566655 46888889999 8554 4332 22689999999
Q ss_pred HHHHHhcCcccCCCCccCCCCCCchhHHHHHHHHHHHHHhhcCCCCCccEEEEEecCC-------CCchhHHHHHHhhhc
Q 001961 649 AQMCYISGMAFNPEPVIPPISARPEHVEKVLKTRYHDAMTKLGQGKELDLLIVILPDN-------NGSLYGDLKRICETD 721 (990)
Q Consensus 649 ~~~~~~~Gm~i~~~p~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~lvl~ilp~~-------~~~~Y~~iK~~~~~~ 721 (990)
.+.|+.+||.++.++...... +.++..++.+.....+ ..+++|||||+|++ +.++|+.||++|+ +
T Consensus 377 ~~~~~~~G~~i~~p~~~~~~~---~~~~~~~~~l~~~~~~----~~~~qlvlvIlp~~~~~~~~~~~~~Y~~IK~~~~-~ 448 (706)
T 1yvu_A 377 INFLKNKGIKLKIKGKSLILA---QTREEAKEKLIPVINK----IKDVDLVIVFLEEYPKVDPYKSFLLYDFVKRELL-K 448 (706)
T ss_dssp HHHHHTTTCEEEEEEEEEEEC---SSTTHHHHHHHHHHTT----TSSCSEEEEEEC----------CHHHHHHHHHHH-H
T ss_pred HHHHHHcCceecCCccccccc---hhHHHHHHHHHHHhcc----cCCCcEEEEEECCccccccccCccHHHHHHHHHh-c
Confidence 999999999997643322222 2334444444332211 25799999999998 7789999999965 8
Q ss_pred cCeeeeeeeecccccc-chhHHHHHHHHHHHhcCccccccccccccCCCccCCCCeEEEEEeecCCCCCCCCCCceeEEE
Q 001961 722 LGLVSQCCLTKHVFKM-SKQYMANVALKINVKVGGRNTVLVDAISRRIPLVSDRPTIIFGADVTHPHPGEDSSPSIAAVV 800 (990)
Q Consensus 722 ~gI~TQci~~~t~~k~-~~q~~~Ni~lKiN~KlGG~N~~l~~~~~~~~p~~~~~~tmiiG~DVsHp~~~~~~~pSiaavV 800 (990)
+||+||||+.+|+.+. ..|++.||+||||+||||+||.|+.. ...+|||||+||+||+.+. ..||++|+|
T Consensus 449 ~GI~TQcv~~~tl~~~~~~q~~~NI~lkiN~KLGG~nw~L~~~--------~~~~tmiIGiDVsH~~~~~-~~pSv~g~v 519 (706)
T 1yvu_A 449 KMIPSQVILNRTLKNENLKFVLLNVAEQVLAKTGNIPYKLKEI--------EGKVDAFVGIDISRITRDG-KTVNAVAFT 519 (706)
T ss_dssp TTCCCEEEEHHHHHHSCHHHHHHHHHHHHHHHTTCCSCEESCC--------TTCCSEEEEECEEECCCSS-SCCCEEEEE
T ss_pred CCCceEEEehhhccccchHHHHHHHHHHHHHHhCCeeeeeccC--------CCCceEEEEEEEeccCCCC-CCceEEEEE
Confidence 9999999999999864 57999999999999999999998642 2368999999999997443 369999999
Q ss_pred EeecCCC--ccceeeEEEEccCChhhhhhhhccccCCCcccchhHHHHHHHHHHHHHhCCCCceEEEEecCCCchhHHHH
Q 001961 801 ASQDWPE--VTKYAGLVCAQAHRQELIQDLFKTWQDPVRGAVSGGMIKELLISFRRATGQKPQRIIFYRDGVSEGQFYQV 878 (990)
Q Consensus 801 aS~d~~~--~~ky~~~~~~Q~~~~E~i~~l~~~~~~~~~~~~~~~m~~~~L~~f~~~~g~~P~~IIiyRDGVsegq~~~v 878 (990)
||+| .. +++|.+....| .++|++++| +..+|+.|++.++.+|++||||||||||
T Consensus 520 as~d-~~g~~~~~~~~~~~q-~~~ei~~~l----------------~~~~l~~~~~~~~~~P~rIIiyRDGVse------ 575 (706)
T 1yvu_A 520 KIFN-SKGELVRYYLTSYPA-FGEKLTEKA----------------IGDVFSLLEKLGFKKGSKIVVHRDGRLY------ 575 (706)
T ss_dssp EEEC-TTSCEEEEEEEEECS-CTTHHHHHH----------------HHHHHHHHHHTTCCTTCEEEEEESSCCC------
T ss_pred EEEc-CCCCEEEEEEEeccc-ccchHHHHH----------------HHHHHHHHHHhcCCCCcEEEEEeCCCCc------
Confidence 9998 54 57777776555 478888665 4555677887788999999999999999
Q ss_pred HHHHHHHHHHHHHhhCCCCCCCEEEEEEeecccccccccCCCCCCCCCCCCCCCCcceeeccccCCCcccEEEeeccC-c
Q 001961 879 LLYELDAIRKACASLEPNYQPPVTFVVVQKRHHTRLFANNHHDRNAVDRSGNILPGTVVDSKICHPTEFDFYLCSHAG-I 957 (990)
Q Consensus 879 l~~E~~~i~~a~~~~~~~~~P~it~Ivv~Krh~tRff~~~~~~~~~~~~~~N~~pGTvVD~~It~p~~~dFyL~Sh~~-~ 957 (990)
++|+++|++||++ |.|+||||||+||||+|||+. +||+||||||. ..+||||++|.+ +
T Consensus 576 -~~El~~Ik~A~~~----~~pkit~IvV~Krh~tRfF~~-----------~np~pGTvVD~-----~~~~ffL~ss~~~~ 634 (706)
T 1yvu_A 576 -RDEVAAFKKYGEL----YGYSLELLEIIKRNNPRFFSN-----------EKFIKGYFYKL-----SEDSVILATYNQVY 634 (706)
T ss_dssp -HHHHHHHHHHHHH----HTCEEEEEEEECSSCCCEECS-----------CSCCTTEEEEB-----SSSEEEECCSCCCS
T ss_pred -HHHHHHHHHHHHH----cCCcEEEEEEEeccCeeEECC-----------CCCCCeEEEEc-----CCCeEEEEecCCcc
Confidence 8999999999987 479999999999999999984 26999999994 468999998776 9
Q ss_pred cccccCCeeEEEecCCCCCHHHHHHHHHHhhcC
Q 001961 958 QGTSRPAHYHVLWDENKFTADGLQSLTNNLCYT 990 (990)
Q Consensus 958 qGTarPthY~Vl~de~~~~~d~lq~lt~~LC~~ 990 (990)
|||+|||||+|+++|. ++|+||+|||+|||+
T Consensus 635 qGT~rPthY~vv~~D~--~~d~Lq~lty~Lc~l 665 (706)
T 1yvu_A 635 EGTHQPIKVRKVYGEL--PVEVLCSQILSLTLM 665 (706)
T ss_dssp TTCCCCEEEEEEECSS--CHHHHHHHHHHGGGG
T ss_pred CCCCCCEEEEEEeCCC--CHHHHHHHHHHHHHh
Confidence 9999999999444444 999999999999996
No 4
>2yhb_A QDE-2, post-transcriptional gene silencing protein QDE-2; RNA binding protein, argonaute, miRNA, siRNA; 3.65A {Neurospora crassa}
Probab=100.00 E-value=2.5e-86 Score=761.90 Aligned_cols=350 Identities=31% Similarity=0.525 Sum_probs=254.3
Q ss_pred ccCceeee-CceeceeEEEEecCCcchHHHHHHHHHHHHHHHhcCcccCCCCccCCCCCCchhHHHHHHHHHHHHHhhcC
Q 001961 613 MMNKKMVN-GGTVNHWICINFSRHVQDSIARGFCFELAQMCYISGMAFNPEPVIPPISARPEHVEKVLKTRYHDAMTKLG 691 (990)
Q Consensus 613 ~~~~kf~~-~~~l~~W~vv~~~~~~~~~~~~~f~~~L~~~~~~~Gm~i~~~p~~~~~~~~~~~~~~~l~~~~~~a~~~~~ 691 (990)
|++++|++ ++++++|+|++|....+.+.++.|++.|.+.|+.+||.+..+........ .++.++.+ .++++...
T Consensus 2 ~~~~~f~~p~~~l~~W~vv~~~~~~~~~~~~~f~~~l~~~~~~~G~~i~~p~~~~~~~~-~~~~~~~~--~~~~~~~~-- 76 (437)
T 2yhb_A 2 AMAVKVARPCRKIEKWTYLELKGSKANEGVPQAMTAFAEFLNRTGIPINPRFSPGMSMS-VPGSEKEF--FAKVKELM-- 76 (437)
T ss_dssp ---CCCSBCCCCBCSEEEEEEECSSCCCCHHHHHHHHHHHHHHTTCCBCSCCCCCEEEE-CCSSHHHH--HHHHHHHH--
T ss_pred CCCCEeccCCCcCCEEEEEEecCCCCHHHHHHHHHHHHHHHHHcCCEeCCCCCcceecC-CCchHHHH--HHHHhhcc--
Confidence 56789999 68999999999964435567899999999999999999976421110000 11113333 22222211
Q ss_pred CCCCccEEEEEecCCCCchhHHHHHHhhhccCeeeeeeeeccccccchh--HHHHHHHHHHHhcCccccccccccccCCC
Q 001961 692 QGKELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKHVFKMSKQ--YMANVALKINVKVGGRNTVLVDAISRRIP 769 (990)
Q Consensus 692 ~~~~~~lvl~ilp~~~~~~Y~~iK~~~~~~~gI~TQci~~~t~~k~~~q--~~~Ni~lKiN~KlGG~N~~l~~~~~~~~p 769 (990)
.+++|||||||+++.++|+.||++||+++||+||||+.+++.|.++| |++||+||||+||||+||.|+.. +|
T Consensus 77 --~~~~lvl~ilp~~~~~~Y~~iK~~~~~~~gI~TQcv~~~~~~k~~~q~s~~~Ni~lKiN~KlGG~n~~l~~~----~~ 150 (437)
T 2yhb_A 77 --SSHQFVVVLLPRKDVAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQLGYFANVGLKVNLKFGGTNHNIKTP----IP 150 (437)
T ss_dssp --HTCSEEEEEESSCCHHHHHHHHHHHHTTSCCEEEEEEHHHHHCSTTHHHHHHHHHHHHHHHTTCBCCCCSSC----CH
T ss_pred --CCCcEEEEEECCCChhHHHHHHHHHhcccCcccEEEehhHhcCcccHHHHHHHHHHHHHHHhCCcceecccc----cc
Confidence 36899999999998889999999999999999999999999888888 99999999999999999999753 45
Q ss_pred ccCCCCeEEEEEeecCCC---CC--CCCCCceeEEEEeecCCCccceeeEEEEcc-CChhhhhhhhccccCCCcccchhH
Q 001961 770 LVSDRPTIIFGADVTHPH---PG--EDSSPSIAAVVASQDWPEVTKYAGLVCAQA-HRQELIQDLFKTWQDPVRGAVSGG 843 (990)
Q Consensus 770 ~~~~~~tmiiG~DVsHp~---~~--~~~~pSiaavVaS~d~~~~~ky~~~~~~Q~-~~~E~i~~l~~~~~~~~~~~~~~~ 843 (990)
++.+.+|||||+||+||+ |+ ....|||||||||+| .++++|.+.+++|. +++|+|++| ++
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
Confidence 555689999999999998 77 346799999999999 99999999999999 999999998 79
Q ss_pred HHHHHHHHHHH---HhCCCCceEEEEecCCCchhHHHHHHHHHHHHHHHHHhhCCCC-CCCEEEEEEeecccccccccCC
Q 001961 844 MIKELLISFRR---ATGQKPQRIIFYRDGVSEGQFYQVLLYELDAIRKACASLEPNY-QPPVTFVVVQKRHHTRLFANNH 919 (990)
Q Consensus 844 m~~~~L~~f~~---~~g~~P~~IIiyRDGVsegq~~~vl~~E~~~i~~a~~~~~~~~-~P~it~Ivv~Krh~tRff~~~~ 919 (990)
|++++|+.|++ +++.+|++|||||||||||||.+|+++|+++|++||.++++.| +|+||||||+||||||||+.+.
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
Confidence 99999999999 8899999999999999999999999999999999999998888 8999999999999999999876
Q ss_pred CCCCCCC-CCCCCCCcceeeccccCCCcccEEEeeccCccccccCCeeEEEecCC------CCCHHHHHHHHHHhhcC
Q 001961 920 HDRNAVD-RSGNILPGTVVDSKICHPTEFDFYLCSHAGIQGTSRPAHYHVLWDEN------KFTADGLQSLTNNLCYT 990 (990)
Q Consensus 920 ~~~~~~~-~~~N~~pGTvVD~~It~p~~~dFyL~Sh~~~qGTarPthY~Vl~de~------~~~~d~lq~lt~~LC~~ 990 (990)
.+ .| +.+||+||||||++||||.+||||||||.++|||||||||+||+||+ ++++|+||+|||+|||+
T Consensus 297 ~~---~~~~~~N~~pGTvVD~~it~p~~~dFyL~Sh~~~qGTarPthY~Vl~de~f~~~~~~~~~d~lq~lTy~Lc~~ 371 (437)
T 2yhb_A 297 KH---IHFKSKSPKEGTVVDRGVTNVRYWDFFLQAHASLQGTARSAHYTVLVDEIFRADYGNKAADTLEQLTHDMCYL 371 (437)
T ss_dssp ----------------------------------------------CEEEEEESSHHHHHGGGHHHHHHHHHHHHHTC
T ss_pred cc---cccccCCCCCceEecccccCCCCceEEEEecccccccCCceEEEEEeCCccccccCCCCHHHHHHHHHHHHHh
Confidence 43 23 68999999999999999999999999999999999999999999998 99999999999999996
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=100.00 E-value=1.3e-80 Score=746.68 Aligned_cols=629 Identities=14% Similarity=0.099 Sum_probs=442.2
Q ss_pred cceEeeceEEEec---CCCceEEEEEEecCCCCchhhHHHHHHHHHHHHHhhccCCccceEeCCce-EEecCCCCCCcce
Q 001961 213 RCIVKANHFFAEL---PDKDLHQYDVTITPEVTSRGVNRAVMEQLVKLYRESHLGKRLPAYDGRKS-LYTAGPLPFLSKE 288 (990)
Q Consensus 213 ~i~l~tN~f~i~~---~~~~iy~YdV~i~pe~~~k~~~r~i~~~l~~~~~~~~~g~~~~~yDG~k~-lys~~~L~~~~~~ 288 (990)
++.|.+|||+|.. ++ .||+|+|+++|+++++ +...++. .++.. +| ..+|||..- ||++++|+-
T Consensus 3 ~~~~~~n~~~~~~~~~~~-~~y~y~v~~~p~~~~~-~~~~~~~----~~~~~-~g--~~~fdg~~~~l~~~~~l~~---- 69 (771)
T 1u04_A 3 KAIVVINLVKINKKIIPD-KIYVYRLFNDPEEELQ-KEGYSIY----RLAYE-NV--GIVIDPENLIIATTKELEY---- 69 (771)
T ss_dssp EEEEEBSEEEBCGGGSCS-CEEEEEC-------------CCHH----HHHHH-TT--EEEEETTTTEEEESSCCCC----
T ss_pred ceEEEeeeEEEecccCCC-eeEEEEeecCChHHHH-HHHHHHH----HHHhh-cC--cEEecCcceeeeccceecc----
Confidence 5789999999976 45 9999999999998876 4444443 33333 56 358999742 999998851
Q ss_pred EEEEEecCCCCCCCCCCCcEEEEEEEEeeEechhhHHHHhcCCCCCChHHHHHHHHHHHhcC-CCCC-----ccccCccc
Q 001961 289 FRITLLDDDDGQGGQRREREFKVVIKLAARADLHHLGLFLQGRQADAPQEALQVLDIVLREL-PTTR-----YCPVGRSF 362 (990)
Q Consensus 289 ~~v~l~~~~~~~~~~~~~~~~~V~Ik~~~~~~l~~l~~~l~g~~~~~~~~~iq~Lniilr~~-~~~~-----~~~~gr~f 362 (990)
....++|+|+.+++++ +|++|+++|.. .+.+ +..+||+|
T Consensus 70 ----------------~~~~~~~~~~~~~~~~-------------------~~~~n~i~r~~l~~~~~~~~~l~~~~r~~ 114 (771)
T 1u04_A 70 ----------------EGEFIPEGEISFSELR-------------------NDYQSKLVLRLLKENGIGEYELSKLLRKF 114 (771)
T ss_dssp ----------------SSCCEEEEEECGGGSC-------------------HHHHHHHHHHHHHHTTCSHHHHHHHHTTT
T ss_pred ----------------CCCeEEEEEEEcceec-------------------HHHHHHHHHHHHHHcccchHHHHHHhhhc
Confidence 1234677777665442 78999999984 3445 67899999
Q ss_pred cCCCCCCcccCCCcEEEEeeeeeeeeeccCceEEeeeccccccccCccHHHHHHHHhcCCCCCCCCChHHHHHHHHHhcc
Q 001961 363 YSPDLGRRQPLGEGLESWRGFYQSIRPTQMGLSLNIDMSSTAFIEPLPVIDFVQQLLNRDVSSRPLSDADRVKIKKALRG 442 (990)
Q Consensus 363 f~~~~~~~~~lg~g~e~~~G~~~Svr~~~~~l~LniD~s~~~F~~~~~l~d~~~~~~~~~~~~~~~~~~~~~~l~~~LkG 442 (990)
|++ ..+ ..+++|.|+..||+..+++++|++|++|++ .+..||+|+|.++. ...+.+.+.+.|
T Consensus 115 ~~~-----~~~-~~~~~~~~~~tsi~~~e~~~ll~~di~hkv-~r~~t~~d~~~~~~-----------~~~~~~~~~~~g 176 (771)
T 1u04_A 115 RKP-----KTF-GDYKVIPSVEMSVIKHDEDFYLVIHIIHQI-QSMKTLWELVNKDP-----------KELEEFLMTHKE 176 (771)
T ss_dssp SCC-----EEE-TTEEEEEEEEEEEEECSSCEEEEEEEEEEE-EESSCHHHHTTTCH-----------HHHHHHHHHSTT
T ss_pred CCC-----ccc-cccEEEECceeeEEecCCceEEEEEeeeeE-eehhHHHHHHHHHH-----------HHHHHHHHhccC
Confidence 987 233 358999999999999999999999999985 78889999987543 244566677788
Q ss_pred cEEEEe--------ecCCccceEEEecccCCCCcce--ee---eecCCC-ceeeHHHHHHHHcCCcccCCCCceEEeccC
Q 001961 443 VRVEVT--------HRGNMRRKYRISGLTSQTTGEL--TF---PVDESG-TLKSVVEYFYETYGFVIQHTQWPCLQVGNQ 508 (990)
Q Consensus 443 l~V~~~--------~~~~~~r~~~I~gi~~~~a~~~--~F---~~~~~g-~~iSV~eYf~~~Y~i~L~~p~lP~l~~g~~ 508 (990)
..|.+. |.-+ +++|+|++ .++..+.+ +| ..+ +| ..+++.+||+++|++ ++++||+|+.+.+
T Consensus 177 ~~~~~~~~~~~~~vy~~n-~~~Y~~~~-~~d~~~~~~~~~~~~~~~-~~~~~~~~~~~y~~~y~i--~d~~QPllvs~~~ 251 (771)
T 1u04_A 177 NLMLKDIASPLKTVYKPC-FEEYTKKP-KLDHNQEIVKYWYNYHIE-RYWNTPEAKLEFYRKFGQ--VDLKQPAILAKFA 251 (771)
T ss_dssp TCEEEETTSTTCCEEEEC-BCTTSSCB-CEECCHHHHHHHHHHHHH-HHCCSHHHHHHHHHHHCS--CCTTSCEEEEEES
T ss_pred cEEeeeccccceeEeecc-cceeecCC-ccccCCCChhheeceeec-CCCCCcchhHHHHHhcCc--CcCCCCeEEecch
Confidence 877777 6211 35566665 44444444 55 432 10 346777778899995 8999999999653
Q ss_pred C-------cCccccccceeeccCcccccCCCHHHHHHHHHhhcCCchHHHHHHHHHHHhc-----cCC--CCccccccCe
Q 001961 509 Q-------RPNYLPMEVCKIVEGQRYSKRLNERQITALLKVTCQRPHERERDIMQTVHHN-----AYH--EDPYAREFGI 574 (990)
Q Consensus 509 ~-------~~~ylP~Elc~i~~gQ~~~~kl~~~q~~~mik~a~~~P~~R~~~i~~~~~~~-----~~~--~~~~l~~fGi 574 (990)
+ +.+||.||||.++. ...+++.+.|++|..++...|.+|.+.|.++.+.+ .-+ ..+.|+.|+
T Consensus 252 ~~~~~~~~~~i~LiPELc~~TG---~~~~~~~~~MK~la~~trl~P~~R~~~l~~~~~~l~~~~~~~~~~~~~~l~~~~- 327 (771)
T 1u04_A 252 SKIKKNKNYKIYLLPQLVVPTY---NAEQLESDVAKEILEYTKLMPEERKELLENILAEVDSDIIDKSLSEIEVEKIAQ- 327 (771)
T ss_dssp CC-----CCCEEECTTTEEEEE---EGGGC----CCHHHHHHCCCHHHHHHHHHHHHHHCCCSSBCSSCCEEEEEECCG-
T ss_pred hhccCCCCceeeechHhhhhcC---chhhhhHHHHHHHHHHHCCCHHHHHHHHHHHHHHhhhhhhcCCHHHHHHHhhhh-
Confidence 3 36899999999995 55677889999999999999999999999999887 222 234577777
Q ss_pred EEcccceEeeeEEeCCCceeeccCCCccccCCcCcccc--ccCceeeeCce----ec------eeEEEEecCCcchHHHH
Q 001961 575 KISEKLASVEARILPAPWLKYHDTGKEKDCLPQVGQWN--MMNKKMVNGGT----VN------HWICINFSRHVQDSIAR 642 (990)
Q Consensus 575 ~i~~~~~~v~arvL~~P~i~y~~~~~~~~~~p~~G~Wn--~~~~kf~~~~~----l~------~W~vv~~~~~~~~~~~~ 642 (990)
.++.. +.|.++++.+-.|.+.+ . ..+..+.|. +++.+++.+.. ++ .|+++ ..+. .+.+.
T Consensus 328 ~l~~~-~~v~~~~~~~~~i~~~~--~---~~~~~adW~~~~~~~~~~~~~~~p~~l~~~~~i~~wil~-~~~~--~~~~~ 398 (771)
T 1u04_A 328 ELENK-IRVRDDKGNSVPISQLN--V---QKSQLLLWTNYSRKYPVILPYEVPEKFRKIREIPMFIIL-DSGL--LADIQ 398 (771)
T ss_dssp GGGSS-EEEECSSSCEEESCCC-------------CGGGGSCCCCCCCCSBCCTHHHHCCCCCEEEEE-ETTS--CHHHH
T ss_pred ccCcC-cccccccccccceeecC--c---CCCccCCcchhhCCCcceecccchhhhhcccccceEEEE-eCCc--hHHHH
Confidence 46655 66665554432233332 0 123458994 56777755442 44 46665 4433 55677
Q ss_pred HHH---------HHHHHHHHhcCcc---------cCCCCccCCCCC---------CchhHHHHHHHHHHHHHhhcCCCCC
Q 001961 643 GFC---------FELAQMCYISGMA---------FNPEPVIPPISA---------RPEHVEKVLKTRYHDAMTKLGQGKE 695 (990)
Q Consensus 643 ~f~---------~~L~~~~~~~Gm~---------i~~~p~~~~~~~---------~~~~~~~~l~~~~~~a~~~~~~~~~ 695 (990)
.|+ +.|.+.++.+++. ++. |...+.+. +.+.++..++.+.++ +. +..
T Consensus 399 ~f~~~~f~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~-p~~~~~~~~~~i~~dl~~~~~i~~~l~~~~~~----~~-~~~ 472 (771)
T 1u04_A 399 NFATNEFRELVKSMYYSLAKKYNSLAKKARSTNEIGL-PFLDFRGKEKVITEDLNSDKGIIEVVEQVSSF----MK-GKE 472 (771)
T ss_dssp HHHHHHHHHHHHHHCC------------------------------CEEEEECTTSHHHHHHHHHHHHHH----HT-TCS
T ss_pred HHHHHHhhhHHHHHHHHHhhcccchhhcccccccccC-CCcccccCcceecccccchHHHHHHHHHHHHh----cc-CCC
Confidence 777 4454444333332 222 21111111 123455566555443 22 246
Q ss_pred ccEEEEEe-cCCCCchhHHHHHHhhhccCeeeeeeeecccccc----c-----hhHHHHHHHHHHHhcCccccccccccc
Q 001961 696 LDLLIVIL-PDNNGSLYGDLKRICETDLGLVSQCCLTKHVFKM----S-----KQYMANVALKINVKVGGRNTVLVDAIS 765 (990)
Q Consensus 696 ~~lvl~il-p~~~~~~Y~~iK~~~~~~~gI~TQci~~~t~~k~----~-----~q~~~Ni~lKiN~KlGG~N~~l~~~~~ 765 (990)
++||||++ |.++.+.|+.||+.| ++.||+||||..+|+.+. . .+++.||++|||+||||+||.|+.
T Consensus 473 ~~lvlv~l~~~~~~d~Y~~IK~~~-~~~gIpTQcV~~~Tl~~~~~k~~~~~l~~sia~NIalqIn~KLGG~pW~L~~--- 548 (771)
T 1u04_A 473 LGLAFIAARNKLSSEKFEEIKRRL-FNLNVISQVVNEDTLKNKRDKYDRNRLDLFVRHNLLFQVLSKLGVKYYVLDY--- 548 (771)
T ss_dssp CEEEEEEECTTSCHHHHHHHHHHH-HHTTEEEEEEEHHHHHHCEETTEEEEECHHHHHHHHHHHHHHTTCBCCEESC---
T ss_pred CCEEEEEEcCCCCcchHHHHHHHH-hcCCcccEEEecccccCccccccccchhHHHHHHHHHHHHHHhCCcceeecC---
Confidence 89987777 455668999999998 799999999999998643 2 678999999999999999999863
Q ss_pred cCCCccCCCCeEEEEEeecCCCCCCCCCCceeEEEEeecCCCccceeeEEEEccCChhhhhhhhccccCCCcccchhHHH
Q 001961 766 RRIPLVSDRPTIIFGADVTHPHPGEDSSPSIAAVVASQDWPEVTKYAGLVCAQAHRQELIQDLFKTWQDPVRGAVSGGMI 845 (990)
Q Consensus 766 ~~~p~~~~~~tmiiG~DVsHp~~~~~~~pSiaavVaS~d~~~~~ky~~~~~~Q~~~~E~i~~l~~~~~~~~~~~~~~~m~ 845 (990)
| ..+|||||+||+|++++ ..+++++|+|+|.| ....+|.+.+..|.++ |.++ + ..|+
T Consensus 549 ---p---~~~tmiIGiDV~H~~~~-~~svs~~A~V~s~d-g~~~~~~s~~~~~~~~-E~i~-l-------------~~~l 605 (771)
T 1u04_A 549 ---R---FNYDYIIGIDVAPMKRS-EGYIGGSAVMFDSQ-GYIRKIVPIKIGEQRG-ESVD-M-------------NEFF 605 (771)
T ss_dssp ---C---CSSSEEEEEEEEEECCT-TTCEEEEEEEEETT-SCEEEEEEEECCCCSS-SSCC-H-------------HHHH
T ss_pred ---C---CCCEEEEEEEEEcCCCC-CCceEEEEEEECCC-CCEEEEEEEEeecCCc-cEEc-H-------------HHHH
Confidence 2 25899999999998654 34688889999998 7777887765545544 4443 4 5799
Q ss_pred HHHHHHHHHH-hCCCCceEEEEecCCCchhHHHHHHHHHHHHHHHHHhhCCCCCCCEEEEEEeecccccccccCCCCCCC
Q 001961 846 KELLISFRRA-TGQKPQRIIFYRDGVSEGQFYQVLLYELDAIRKACASLEPNYQPPVTFVVVQKRHHTRLFANNHHDRNA 924 (990)
Q Consensus 846 ~~~L~~f~~~-~g~~P~~IIiyRDGVsegq~~~vl~~E~~~i~~a~~~~~~~~~P~it~Ivv~Krh~tRff~~~~~~~~~ 924 (990)
+++|.+|++. ++.+|+||||||||+ |+++|+++|++||.++ .|+||||+|+||||||||. +
T Consensus 606 ~~~L~~y~~~n~~~lP~RIIiyRDG~-------v~~~El~~i~ea~~~~----~p~itfIvV~Krh~tRfF~-~------ 667 (771)
T 1u04_A 606 KEMVDKFKEFNIKLDNKKILLLRDGR-------ITNNEEEGLKYISEMF----DIEVVTMDVIKNHPVRAFA-N------ 667 (771)
T ss_dssp HHHHHHHHHTTCCCTTCEEEEECSBC-------CCHHHHHHHHHHHHHH----TCEEEEEEEESCCCCCBSS-C------
T ss_pred HHHHHHHHHHhCCCCCCEEEEEcCCC-------CCHHHHHHHHHHHHhc----CCCEEEEEEEecCceeeec-C------
Confidence 9999999998 578999999999997 7899999999999875 5899999999999999992 1
Q ss_pred CCCCCCCCCcceeeccccCCCcccEEEeecc--CccccccCCee--EEEecCCCCC----HHHHHHHHHHhhcC
Q 001961 925 VDRSGNILPGTVVDSKICHPTEFDFYLCSHA--GIQGTSRPAHY--HVLWDENKFT----ADGLQSLTNNLCYT 990 (990)
Q Consensus 925 ~~~~~N~~pGTvVD~~It~p~~~dFyL~Sh~--~~qGTarPthY--~Vl~de~~~~----~d~lq~lt~~LC~~ 990 (990)
.+|||||| . ||||+||. +.|||++|||| +||+|+++++ +|+||.|||+|||+
T Consensus 668 ------~~pGTVV~-------~-DFyL~Sh~v~~~qGTprPthY~~~Vi~D~~~~~~~~~~D~lq~lty~Lchl 727 (771)
T 1u04_A 668 ------MKMYFNLG-------G-AIYLIPHKLKQAKGTPIPIKLAKKRIIKNGKVEKQSITRQDVLDIFILTRL 727 (771)
T ss_dssp ------SCEEEEET-------T-EEEEECSCCSSSCSCCCCEEEEEEEEEETTEEEECCCCHHHHHHHHHHHTC
T ss_pred ------CCCeeEEe-------C-CEEEEeccccCCCCCCCCEEEEEEEEecCCCCCCCCCHHHHHHHHHHhhhh
Confidence 25899993 3 99999995 56999999999 9999999999 99999999999996
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=100.00 E-value=5.9e-73 Score=668.62 Aligned_cols=614 Identities=17% Similarity=0.164 Sum_probs=440.5
Q ss_pred cceEeeceEEEe-cC--CCceEEEEEEecCCCCchhhHHHHHHHHHHHHHhhccCCccceEeCCceEEecCCCCCCcceE
Q 001961 213 RCIVKANHFFAE-LP--DKDLHQYDVTITPEVTSRGVNRAVMEQLVKLYRESHLGKRLPAYDGRKSLYTAGPLPFLSKEF 289 (990)
Q Consensus 213 ~i~l~tN~f~i~-~~--~~~iy~YdV~i~pe~~~k~~~r~i~~~l~~~~~~~~~g~~~~~yDG~k~lys~~~L~~~~~~~ 289 (990)
++.|.-|-|.++ +. +.+.|.|+|.++|..+.... ..++..++.+ +|.. +---...|.|..+ |. ...+
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~-----~~~~--~~~~~~~~~~~~~-~~-~~~~ 75 (685)
T 3ho1_A 6 KTEVFLNRFALRPLNPEELRPWRLEVVLDPPPGREEV-YPLLAQVARR-----AGGV--TVRMGDGLASWSP-PE-VLVL 75 (685)
T ss_dssp CEEEEEEEEEEEECCTTTSSCEEEEEEEESCCCTTTH-HHHHHHHHHH-----TCSS--EEEETTEEEESSC-TT-TSCC
T ss_pred ceeEEEeeeecccCChhhCceeEEEEecCCCCCcchH-HHHHHHHHHH-----hCCe--EEeecCceecccC-ch-hhhc
Confidence 578999999996 44 67899999999986554333 3344444432 3432 2222346777655 42 1112
Q ss_pred EEEEecCCCCCCCCCCCcEEEEEEEEeeEechhhHHHHhcCCCCCChHHHHHH-----HHHHHhcCCCCCccccCccccC
Q 001961 290 RITLLDDDDGQGGQRREREFKVVIKLAARADLHHLGLFLQGRQADAPQEALQV-----LDIVLRELPTTRYCPVGRSFYS 364 (990)
Q Consensus 290 ~v~l~~~~~~~~~~~~~~~~~V~Ik~~~~~~l~~l~~~l~g~~~~~~~~~iq~-----Lniilr~~~~~~~~~~gr~ff~ 364 (990)
+=.+. ..++...|++.-.=.+.+|..+ ...+++|.. |+-.|+.. +.+..-|.-.+-
T Consensus 76 ~~~~~-------~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~ 136 (685)
T 3ho1_A 76 EGTLA-------RMGQTYAYRLYPKGRRPLDPKD----------PGERSVLSALARRLLQERLRRL--EGVWVEGLAVYR 136 (685)
T ss_dssp EEEEE-------CSSCEEEEEEEEEEECCCCTTS----------HHHHHHHHHHHHHHHHHHHHTC--SSSEEETTEEEE
T ss_pred cchhc-------cccCCcceeeeecccccCCCCC----------hHHHHHHHHHHHHHHHHHHHhh--hceEEccEEEEe
Confidence 22221 1234445766655555555432 122444443 33344444 222222222221
Q ss_pred CCCCCcccCCCcEEEEeeeeeeeeecc-CceEEeeeccccccccCccHHHHHHHHhcCCCCCCCCChHHHHHHHHHhccc
Q 001961 365 PDLGRRQPLGEGLESWRGFYQSIRPTQ-MGLSLNIDMSSTAFIEPLPVIDFVQQLLNRDVSSRPLSDADRVKIKKALRGV 443 (990)
Q Consensus 365 ~~~~~~~~lg~g~e~~~G~~~Svr~~~-~~l~LniD~s~~~F~~~~~l~d~~~~~~~~~~~~~~~~~~~~~~l~~~LkGl 443 (990)
.. ..-|.|+|+.+|+.-.|.++. ++++|.||+.+. |+...++++++++.. . |- .
T Consensus 137 ~~----~~~~~~~~~~~g~~~~v~~~~~~~~~l~vd~~~r-~~~~~~~~~~l~~~~------------------~-~~-~ 191 (685)
T 3ho1_A 137 RE----HARGPGWRVLGGAVLDLWVSDSGAFLLEVDPAYR-ILCEMSLEAWLAQGH------------------P-LP-K 191 (685)
T ss_dssp EE----EEEETTEEEEEEEEEEEEECSSSEEEEEEEEEEE-EEECSCHHHHHHHSC------------------C-CC-S
T ss_pred ec----CCCCCceEEecceEEEEEECCCCcEEEEEeehee-ecChhhHHHHHHhCC------------------C-cc-H
Confidence 11 122789999999999999997 899999999997 899999999998742 2 33 5
Q ss_pred EEEEeecCCccceEEEecccCCCCcceeeeecCCCceeeHHHHHHHHcCCcccCCCCceEEeccC----Cc-----Cccc
Q 001961 444 RVEVTHRGNMRRKYRISGLTSQTTGELTFPVDESGTLKSVVEYFYETYGFVIQHTQWPCLQVGNQ----QR-----PNYL 514 (990)
Q Consensus 444 ~V~~~~~~~~~r~~~I~gi~~~~a~~~~F~~~~~g~~iSV~eYf~~~Y~i~L~~p~lP~l~~g~~----~~-----~~yl 514 (990)
.|.++|+ .++|+|.+|+ +.+++..|.. + .||++|||+++|.+ +.-++|.|+...+ .+ .+||
T Consensus 192 ~v~~~y~---~~~~~~~~~~-~~~p~~~~l~---~-~~s~~~y~~~k~~~--~~~~~~~vv~~~~~~~~~~~i~~~~~~l 261 (685)
T 3ho1_A 192 RVRNAYD---RRTWELLRLG-EEDPKELPLP---G-GLSLLDYHASKGRL--QGREGGRVAWVADPKDPRKPIPHLTGLL 261 (685)
T ss_dssp EEEESSS---CCEECCCEEE-CCCTTCC----------CSTTTTTTTSTT--TTSCCCSEEEECSCC---CCEEEETTSE
T ss_pred HHhhhcc---cceEEEeecc-cCCchheecC---C-CccHHHHHhhcccc--cccCCceEEEEeccccCCCcceeeeeee
Confidence 8999998 5799999999 4567777752 2 69999999999888 8888987765332 11 3589
Q ss_pred cccceeeccCcccccCCCHHHHHHHHHhhcCCchHHHHHHHHHHHhccCCCCccccccCeEEcccceEeeeEEeCCCcee
Q 001961 515 PMEVCKIVEGQRYSKRLNERQITALLKVTCQRPHERERDIMQTVHHNAYHEDPYAREFGIKISEKLASVEARILPAPWLK 594 (990)
Q Consensus 515 P~Elc~i~~gQ~~~~kl~~~q~~~mik~a~~~P~~R~~~i~~~~~~~~~~~~~~l~~fGi~i~~~~~~v~arvL~~P~i~ 594 (990)
-|||| +. + |++.|-. .+++..|.+|.+.|.++++. ++++|||+ +.+|++|+||+||+|+|
T Consensus 262 ~p~l~-m~-~------l~~~~~~---~~trlsP~~R~~~l~~~~~~-------i~~~~Gl~-~~~~i~v~gRvLppp~I- 321 (685)
T 3ho1_A 262 VPVLT-LE-D------LHEEEGS---LALSLPWEERRRRTREIASW-------IGRRLGLG-TPEAVRAQAYRLSIPKL- 321 (685)
T ss_dssp EEECC-TT-T------TSSCSSC---CCCCCCHHHHHHHHHHHHHH-------HHHTTCSC-CCEEEEEEEEECCCCCE-
T ss_pred chHhH-HH-H------Hhhhhhh---ccccCCHHHHHHHHHHHHHH-------HHHhcCCC-CCCcceEEEEEcCHHHh-
Confidence 99999 43 2 3332211 68899999999999999765 47889998 99999999999999999
Q ss_pred eccCCCccccCCcCccccccCceeeeCceeceeEEEEecCCcchHHHHHHHHHHHHHHHhcCcccCCCCccCCCCCCchh
Q 001961 595 YHDTGKEKDCLPQVGQWNMMNKKMVNGGTVNHWICINFSRHVQDSIARGFCFELAQMCYISGMAFNPEPVIPPISARPEH 674 (990)
Q Consensus 595 y~~~~~~~~~~p~~G~Wn~~~~kf~~~~~l~~W~vv~~~~~~~~~~~~~f~~~L~~~~~~~Gm~i~~~p~~~~~~~~~~~ 674 (990)
+++. . + ...|++.+.+|+.++.+ .|+++++... ...++.|++.|.+.|+.+||+|.. |... ..+++
T Consensus 322 ~g~~-~---~---~~~~d~~~~~~~~~~~~-~~ail~l~~~--~~~~~~f~~~L~~va~~~G~~i~~-~~~~---~~~~d 387 (685)
T 3ho1_A 322 MGRR-A---V---SKPADALRVGFYRAQET-ALALLRLDGA--QGWPEFLRRALLRAFGASGASLRL-HTLH---AHPSQ 387 (685)
T ss_dssp ESSS-B---C---SSGGGHHHHCCSSCCCE-EEEEEECSSC--CSCCHHHHHHHHHHHHSSSSCEEE-EECC---CCGGG
T ss_pred cCCC-C---c---CCchhhccCcceeccCc-eEEEEeccCc--hHHHHHHHHHHHHHHHhCCcEecc-ceee---cCCCc
Confidence 7642 1 1 24677777888887765 6999988653 245679999999999999999975 3322 11222
Q ss_pred HHHHHHHHHHHHHhhcCCCCCccEEEEEecCCCCchhHHHHHHhhhccCeeeeeeeeccccccchhHHHHHHHHHHHhcC
Q 001961 675 VEKVLKTRYHDAMTKLGQGKELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKHVFKMSKQYMANVALKINVKVG 754 (990)
Q Consensus 675 ~~~~l~~~~~~a~~~~~~~~~~~lvl~ilp~~~~~~Y~~iK~~~~~~~gI~TQci~~~t~~k~~~q~~~Ni~lKiN~KlG 754 (990)
.. .+...+++..+ .++||||||+|+++.+.|+.||++| .+.||+||||. +++.|...+++.||+||||+|||
T Consensus 388 ~~-~~~~~l~~~~~-----~~~qlvvvIlp~~~~~~y~~IKk~~-~~~GIpTQcV~-~tl~k~~~~ia~NIaLkINaKLG 459 (685)
T 3ho1_A 388 GL-AFREALRKAKE-----EGVQAVLVLTPPMAWEDRNRLKALL-LREGLPSQILN-VPLREEERHRWENALLGLLAKAG 459 (685)
T ss_dssp TH-HHHHHHHHHHH-----TTCCEEEEEESCCCHHHHHHHHHHH-HHTTCCEEEEE-SSCCTTCHHHHHHHHHHHHHHHT
T ss_pred hH-HHHHHHHHhhh-----cCCCEEEEEECCCCccHHHHHHHHH-hcCCCccEEEe-cccccccHhHHHHHHHHHHHHhC
Confidence 11 23333333322 4699999999999988999999986 79999999999 88877778999999999999999
Q ss_pred ccccccccccccCCCccCCCCeEEEEEeecCCCCCCCCCCceeEEEEeecC-CCccceeeEEEEccCChhhhhhhhcccc
Q 001961 755 GRNTVLVDAISRRIPLVSDRPTIIFGADVTHPHPGEDSSPSIAAVVASQDW-PEVTKYAGLVCAQAHRQELIQDLFKTWQ 833 (990)
Q Consensus 755 G~N~~l~~~~~~~~p~~~~~~tmiiG~DVsHp~~~~~~~pSiaavVaS~d~-~~~~ky~~~~~~Q~~~~E~i~~l~~~~~ 833 (990)
|+||.|+. | ..+|||||+||+|++. .++++++++++- ....+| +.+..|.+.++.+++|
T Consensus 460 G~pW~L~~------P---~~~tmiIGiDVsH~~~-----~~~~~~aav~~~dg~~~~~-~~~~~Q~~e~l~~~~L----- 519 (685)
T 3ho1_A 460 LQVVALSG------A---YPAELAVGFDAGGRES-----FRFGGAACAVGGDGGHLLW-TLPEAQAGERIPQEVV----- 519 (685)
T ss_dssp CCCCEECS------C---CSCSEEEEEEEEETTE-----EEEEEEEEEECC--CCCEE-ECCCCCCSCCCHHHHH-----
T ss_pred CeeEEecC------C---CCCeEEEEEEEEcCCC-----CccceEEEEEECCCCEEEe-EEEEccCCcEecHHHH-----
Confidence 99999864 3 2689999999999862 355555555440 334443 2345565544455677
Q ss_pred CCCcccchhHHHHHHHHHHHHHhCCCCceEEEEecCC-CchhHHHHHHHHHHHHHHHHHhhCCCCCCCEEEEEEeecccc
Q 001961 834 DPVRGAVSGGMIKELLISFRRATGQKPQRIIFYRDGV-SEGQFYQVLLYELDAIRKACASLEPNYQPPVTFVVVQKRHHT 912 (990)
Q Consensus 834 ~~~~~~~~~~m~~~~L~~f~~~~g~~P~~IIiyRDGV-segq~~~vl~~E~~~i~~a~~~~~~~~~P~it~Ivv~Krh~t 912 (990)
.+|+.++|+.|++.++.+|+||||||||| ||+||. +|++||+++ .+++|||||+||||+
T Consensus 520 --------~~~l~eaL~~Y~k~ng~lP~RIIIyRDGV~se~E~~--------~I~eAl~~~----~~~~t~IvVqKRh~t 579 (685)
T 3ho1_A 520 --------WDLLEETLWAFRRKAGRLPSRVLLLRNGRVPQDEFA--------LALEALARE----GIAYDLVSVRKSGGG 579 (685)
T ss_dssp --------HHHHHHHHHHHHHHHSSCCSEEEEEECSSSCSGGGH--------HHHHHHHHT----TCEEEEEEEESSCCC
T ss_pred --------HHHHHHHHHHHHHHhCCCCcEEEEEeCCCCCHHHHH--------HHHHHHHhc----CCCEEEEEEEecCCc
Confidence 68999999999999999999999999999 888665 556788876 378999999999999
Q ss_pred cccccCCCCCCCCCCCCCCCCcceeeccccCCCcccEEEeec--cCccccccCCeeEEEecCCCCCHHHHHHHHHHhhcC
Q 001961 913 RLFANNHHDRNAVDRSGNILPGTVVDSKICHPTEFDFYLCSH--AGIQGTSRPAHYHVLWDENKFTADGLQSLTNNLCYT 990 (990)
Q Consensus 913 Rff~~~~~~~~~~~~~~N~~pGTvVD~~It~p~~~dFyL~Sh--~~~qGTarPthY~Vl~de~~~~~d~lq~lt~~LC~~ 990 (990)
|||+.+ .+|.+||+|+ ..+||||++| +++|||+|||||+ +|++++++|+||+|||+|||+
T Consensus 580 RfF~~n----------~pp~~Gt~v~------~e~d~flL~s~gsv~qGT~rPthy~--~D~~~~s~D~LQ~ltY~Lchm 641 (685)
T 3ho1_A 580 RVYPVQ----------GRLADGLYVP------LEDKTFLLLTVHRDFRGTPRPLKLV--HEAGDTPLEALAHQIFHLTRL 641 (685)
T ss_dssp CEEESS----------SCCCSSEEEE------CSTTEEEEECCCCCSSSCCCCEEEE--EEEECSCHHHHHHHHHHGGGC
T ss_pred eEecCC----------CCCCCeEEEe------CCCCEEEEEecCCCCccCCceEEEE--ECCCCCCHHHHHHHHHHHHHh
Confidence 999953 2567777774 3466666665 4689999999998 999999999999999999996
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=100.00 E-value=3.9e-68 Score=603.56 Aligned_cols=302 Identities=29% Similarity=0.493 Sum_probs=254.9
Q ss_pred ccCceeee-CceeceeEEEEecCCcchHHHHHHHHHHHHHHHhcCcccCCCCccCCCCCCchhHHHHHHHHHHHHHhhcC
Q 001961 613 MMNKKMVN-GGTVNHWICINFSRHVQDSIARGFCFELAQMCYISGMAFNPEPVIPPISARPEHVEKVLKTRYHDAMTKLG 691 (990)
Q Consensus 613 ~~~~kf~~-~~~l~~W~vv~~~~~~~~~~~~~f~~~L~~~~~~~Gm~i~~~p~~~~~~~~~~~~~~~l~~~~~~a~~~~~ 691 (990)
|++++|++ ++++++|+|++|....+.+.++.|++.|.+.|+.+||.+..+........ .++.++.+ .++++...
T Consensus 2 ~~~~~f~~p~~~l~~W~vv~~~~~~~~~~~~~f~~~l~~~~~~~G~~i~~p~~~~~~~~-~~~~~~~~--~~~~~~~~-- 76 (388)
T 2yha_A 2 AMAVKVARPCRKIEKWTYLELKGSKANEGVPQAMTAFAEFLNRTGIPINPRFSPGMSMS-VPGSEKEF--FAKVKELM-- 76 (388)
T ss_dssp ---CCCSBCCSCBCSEEEEEEECSSCCCCHHHHHHHHHHHHHHTTCCBCSCCCCCEEEE-CCSSHHHH--HHHHHHHH--
T ss_pred CCCCEeccCCCcCCEEEEEEecCCCCHHHHHHHHHHHHHHHHHcCCEeCCCCCcceecC-CCchHHHh--HHHHhhcc--
Confidence 57889999 78999999999964445567899999999999999999976421110000 11123334 22222211
Q ss_pred CCCCccEEEEEecCCCCchhHHHHHHhhhccCeeeeeeeeccccccchh--HHHHHHHHHHHhcCccccccccccccCCC
Q 001961 692 QGKELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKHVFKMSKQ--YMANVALKINVKVGGRNTVLVDAISRRIP 769 (990)
Q Consensus 692 ~~~~~~lvl~ilp~~~~~~Y~~iK~~~~~~~gI~TQci~~~t~~k~~~q--~~~Ni~lKiN~KlGG~N~~l~~~~~~~~p 769 (990)
.+++|||||||+++.++|+.||++||+++||+||||+.+|+.|.++| |++||+||||+||||+||.|++. +|
T Consensus 77 --~~~~lvl~ilp~~~~~~Y~~iK~~~~~~~GI~TQcv~~~~~~k~~~q~s~~~NI~lKiN~KlGG~n~~l~~~----~~ 150 (388)
T 2yha_A 77 --SSHQFVVVLLPRKDVAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQLGYFANVGLKVNLKFGGTNHNIKTP----IP 150 (388)
T ss_dssp --HTCSEEEEEESSSCHHHHHHHHHHHHTTTCCEEEEEEHHHHHCSTTHHHHHHHHHHHHHHHTTCBCCCCCSC----CH
T ss_pred --CCCeEEEEEECCCChhHHHHHHHHHhccCCCceEEEehhhhcCcCcHHHHHHHHHHHHHHHhCCcceecccc----cc
Confidence 36899999999998889999999999999999999999999888888 99999999999999999999753 45
Q ss_pred ccCCCCeEEEEEeecCCC---CC--CCCCCceeEEEEeecCCCccceeeEEEEcc-CChhhhhhhhccccCCCcccchhH
Q 001961 770 LVSDRPTIIFGADVTHPH---PG--EDSSPSIAAVVASQDWPEVTKYAGLVCAQA-HRQELIQDLFKTWQDPVRGAVSGG 843 (990)
Q Consensus 770 ~~~~~~tmiiG~DVsHp~---~~--~~~~pSiaavVaS~d~~~~~ky~~~~~~Q~-~~~E~i~~l~~~~~~~~~~~~~~~ 843 (990)
++.+.+|||||+||+||+ |+ ....|||||||||+| .++++|.+.+++|. +++|+|++| ++
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
Confidence 555689999999999998 77 446799999999999 99999999999999 999999998 79
Q ss_pred HHHHHHHHHHH---HhCCCCceEEEEecCCCchhHHHHHHHHHHHHHHHHHhhCCCC-CCCEEEEEEeecccccccccCC
Q 001961 844 MIKELLISFRR---ATGQKPQRIIFYRDGVSEGQFYQVLLYELDAIRKACASLEPNY-QPPVTFVVVQKRHHTRLFANNH 919 (990)
Q Consensus 844 m~~~~L~~f~~---~~g~~P~~IIiyRDGVsegq~~~vl~~E~~~i~~a~~~~~~~~-~P~it~Ivv~Krh~tRff~~~~ 919 (990)
|++++|+.|++ +++.+|++|||||||||||||.+|+++|+++|++||.+++.+| +|+||||||+||
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----------
Confidence 99999999999 8899999999999999999999999999999999999998888 899999999999
Q ss_pred CCCCCCCCCCCCCCcceeeccccCCCcccEEEeeccCccccccCCeeEEEecCC------CCCHHHHHHHHHHhhcC
Q 001961 920 HDRNAVDRSGNILPGTVVDSKICHPTEFDFYLCSHAGIQGTSRPAHYHVLWDEN------KFTADGLQSLTNNLCYT 990 (990)
Q Consensus 920 ~~~~~~~~~~N~~pGTvVD~~It~p~~~dFyL~Sh~~~qGTarPthY~Vl~de~------~~~~d~lq~lt~~LC~~ 990 (990)
||||||+||+||+ ++++|+||+|||+|||+
T Consensus 287 -----------------------------------------arPthY~Vl~De~f~~~~~~~~~d~lq~lty~Lc~~ 322 (388)
T 2yha_A 287 -----------------------------------------SGSAHYTVLVDEIFRADYGNKAADTLEQLTHDMCYL 322 (388)
T ss_dssp ---------------------------------------------CEEEEEESSHHHHHGGGHHHHHHHHHHHHHHC
T ss_pred -----------------------------------------cCCceEEEEeCCccccccCCCCHHHHHHHHHHHHHH
Confidence 9999999999998 99999999999999996
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=100.00 E-value=7.3e-47 Score=434.79 Aligned_cols=335 Identities=13% Similarity=0.072 Sum_probs=224.9
Q ss_pred EeCCCceeec--cCCCcc---ccCCcCccccccCceeeeCcee--ceeEEEEecCCcchHHHHHHHHHHHHHHHhcCccc
Q 001961 587 ILPAPWLKYH--DTGKEK---DCLPQVGQWNMMNKKMVNGGTV--NHWICINFSRHVQDSIARGFCFELAQMCYISGMAF 659 (990)
Q Consensus 587 vL~~P~i~y~--~~~~~~---~~~p~~G~Wn~~~~kf~~~~~l--~~W~vv~~~~~~~~~~~~~f~~~L~~~~~~~Gm~i 659 (990)
-|..|.+.|+ ++.+.. ...|..| +++...+....+ .+|++|+-.+.. +.++.|.+.+.... ..++.+
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
Confidence 3667778888 322100 1112222 333344444333 789999755432 23334433333221 234444
Q ss_pred CCCCccCCCCCCchhHHHHHHHHHHHHHhhcCCCCCccEEEEEe--------cCCCCchhHHHHHHhhhccCeeeeeeee
Q 001961 660 NPEPVIPPISARPEHVEKVLKTRYHDAMTKLGQGKELDLLIVIL--------PDNNGSLYGDLKRICETDLGLVSQCCLT 731 (990)
Q Consensus 660 ~~~p~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~~~~lvl~il--------p~~~~~~Y~~iK~~~~~~~gI~TQci~~ 731 (990)
.. +. .+.+.+.+.+++.++ .+++++|||+ |+++...| .+|+ +++++||+||||+.
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
Confidence 22 11 112222223332222 1478899999 66655545 5785 56899999999999
Q ss_pred ccccccch-hHHHHHHHHHHHhcCccccccccccccCCCccCCCCeEEEEEeecCCCCCCCCCCceeEEEEeecCCCccc
Q 001961 732 KHVFKMSK-QYMANVALKINVKVGGRNTVLVDAISRRIPLVSDRPTIIFGADVTHPHPGEDSSPSIAAVVASQDWPEVTK 810 (990)
Q Consensus 732 ~t~~k~~~-q~~~Ni~lKiN~KlGG~N~~l~~~~~~~~p~~~~~~tmiiG~DVsHp~~~~~~~pSiaavVaS~d~~~~~k 810 (990)
+|+.+.+. .++.||++|||+||||+||.|+.. .| ..+|||||+||+|++++ +++|++...| .+...
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
Confidence 99986554 458899999999999999998752 12 15799999999999753 5666644444 44444
Q ss_pred eeeEEEEccCChhhhhhhhccccCCCcccchhHHHHHHHHHHHH-HhCCCCc--eEEEEecCCCchhHHHHHHHHHHHHH
Q 001961 811 YAGLVCAQAHRQELIQDLFKTWQDPVRGAVSGGMIKELLISFRR-ATGQKPQ--RIIFYRDGVSEGQFYQVLLYELDAIR 887 (990)
Q Consensus 811 y~~~~~~Q~~~~E~i~~l~~~~~~~~~~~~~~~m~~~~L~~f~~-~~g~~P~--~IIiyRDGVsegq~~~vl~~E~~~i~ 887 (990)
+...+..|.+++|++++| ..|++++|++|++ .|+.+|+ ||||| |||.+|+++|+++|+
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
Confidence 444555666789999998 7899999999999 8898888 66887 889999999999999
Q ss_pred HHHHhhCC----CCCCCEEEEEEeeccc-ccccccCCCCCCCCCCCCCCCCcceeeccccCCCcccEEEeeccCccc---
Q 001961 888 KACASLEP----NYQPPVTFVVVQKRHH-TRLFANNHHDRNAVDRSGNILPGTVVDSKICHPTEFDFYLCSHAGIQG--- 959 (990)
Q Consensus 888 ~a~~~~~~----~~~P~it~Ivv~Krh~-tRff~~~~~~~~~~~~~~N~~pGTvVD~~It~p~~~dFyL~Sh~~~qG--- 959 (990)
+||.++.. +|+|+||||+|+|||| +|||..+. .+||+||||||.+ ++|||++|.+.|+
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
Confidence 99999864 7899999999999999 88886431 3599999999973 6677777777776
Q ss_pred ---cc---cCCeeEEEec----CCCC-CHHHHHHHHHHhhcC
Q 001961 960 ---TS---RPAHYHVLWD----ENKF-TADGLQSLTNNLCYT 990 (990)
Q Consensus 960 ---Ta---rPthY~Vl~d----e~~~-~~d~lq~lt~~LC~~ 990 (990)
|. +||||+|++| |+.+ ++|+||++||+|||+
T Consensus 336 ~~~~~~~~~Pt~y~vi~d~~~~~~~~~~~d~lq~lty~L~~~ 377 (427)
T 2w42_A 336 GLEMVTPIKPLSVEIVSDNWTSEEYYHNVHEILDEIYYLSKM 377 (427)
T ss_dssp ---CEEEEEEEEEEEEEECCCTTTHHHHHHHHHHHHHHHHTC
T ss_pred ccccccCCCCEEEEEEecCCcCcccCCCHHHHHHHHHHhhCc
Confidence 53 3999999995 4555 589999999999996
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=99.96 E-value=4.6e-29 Score=245.37 Aligned_cols=146 Identities=88% Similarity=1.424 Sum_probs=130.5
Q ss_pred CceeeeCceeceeEEEEecCCcchHHHHHHHHHHHHHHHhcCcccCCCCccCCCCCCchhHHHHHHHHHHHHHhhcCCCC
Q 001961 615 NKKMVNGGTVNHWICINFSRHVQDSIARGFCFELAQMCYISGMAFNPEPVIPPISARPEHVEKVLKTRYHDAMTKLGQGK 694 (990)
Q Consensus 615 ~~kf~~~~~l~~W~vv~~~~~~~~~~~~~f~~~L~~~~~~~Gm~i~~~p~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~ 694 (990)
+++|++|+++++|+||+|++..+++.++.|++.|.+.|+.+||.+.++|.+.....+++++++.|+++++++.+++..+.
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
Confidence 57899999999999999987766778999999999999999999988777666566789999999999887765442135
Q ss_pred CccEEEEEecCCCCchhHHHHHHhhhccCeeeeeeeeccccccchhHHHHHHHHHHHhcCcccccc
Q 001961 695 ELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKHVFKMSKQYMANVALKINVKVGGRNTVL 760 (990)
Q Consensus 695 ~~~lvl~ilp~~~~~~Y~~iK~~~~~~~gI~TQci~~~t~~k~~~q~~~Ni~lKiN~KlGG~N~~l 760 (990)
+++|||||||+++.++|+.||++||+++||+||||+.+|+.|.++||++||+||||+||||+||.|
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
Confidence 799999999999888999999999999999999999999998899999999999999999999864
No 10
>4g0o_A Protein argonaute 5; MID domain, small RNA 5' nucleotide recognition, gene regula; 2.19A {Arabidopsis thaliana}
Probab=99.95 E-value=2.3e-28 Score=237.89 Aligned_cols=138 Identities=57% Similarity=1.003 Sum_probs=122.5
Q ss_pred CceeeeCceeceeEEEEecCCcchHHHHHHHHHHHHHHHhcCcccCCCCccCCCCCCchhHHHHHHHHHHHHHhhcCCCC
Q 001961 615 NKKMVNGGTVNHWICINFSRHVQDSIARGFCFELAQMCYISGMAFNPEPVIPPISARPEHVEKVLKTRYHDAMTKLGQGK 694 (990)
Q Consensus 615 ~~kf~~~~~l~~W~vv~~~~~~~~~~~~~f~~~L~~~~~~~Gm~i~~~p~~~~~~~~~~~~~~~l~~~~~~a~~~~~~~~ 694 (990)
+++|+++++|++|+|++|+++.+.+.++.|++.|.+.|+.+||.+.++|.+.....+++++++.|+.+++++ .
T Consensus 2 ~kkf~~~~~l~~W~vv~~~~~~~~~~~~~F~~~L~~~~~~~Gm~i~~p~~~~~~~~~~~~~e~~l~~~~~~~-------~ 74 (139)
T 4g0o_A 2 DKKMVNGAKVTSWTCVSFSTRIDRGLPQEFCKQLIGMCVSKGMEFKPQPAIPFISCPPEHIEEALLDIHKRA-------P 74 (139)
T ss_dssp CEEEEECCEECSEEEEECCSSSCTTHHHHHHHHHHHHHHHHTCEECSSCSSCCEECCGGGHHHHHHHHHHHC-------T
T ss_pred CCeEccCcccCeEEEEEccCCCCHHHHHHHHHHHHHHHHHcCCccCCCCEEeeecCCchhHHHHHHHHHHhc-------C
Confidence 579999999999999999755667889999999999999999999876766554456788888888776642 3
Q ss_pred CccEEEEEecCCCCchhHHHHHHhhhccCeeeeeeeeccccccchhHHHHHHHHHHHhcCcccccc
Q 001961 695 ELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKHVFKMSKQYMANVALKINVKVGGRNTVL 760 (990)
Q Consensus 695 ~~~lvl~ilp~~~~~~Y~~iK~~~~~~~gI~TQci~~~t~~k~~~q~~~Ni~lKiN~KlGG~N~~l 760 (990)
+++|||||||+++.+ |+.||++||+++||+||||+.+|+.|.++||++||+||||+||||+||.|
T Consensus 75 ~~qlv~~ilp~~~~~-Y~~iK~~~~~~~gi~tQcv~~~~~~k~~~q~~~nv~lKiN~KlGG~N~~l 139 (139)
T 4g0o_A 75 GLQLLIVILPDVTGS-YGKIKRICETELGIVSQCCQPRQVNKLNKQYMENVALKINVKTGGRNTVL 139 (139)
T ss_dssp TCSEEEEECCSSSSC-HHHHHCCCCCCCCCCEEEECHHHHHHTCHHHHHHHHHHHHHHTTCEEEEC
T ss_pred CCcEEEEEECCCCCc-HHHHHHHHhccCCcceEEechhhhcCCCHHHHHHHHHHHhhhhCcccCcC
Confidence 699999999999888 99999999999999999999999999899999999999999999999864
No 11
>1vyn_A Argonaute2; nucleic acid binding, RNA interference; NMR {Drosophila melanogaster} SCOP: b.34.14.1
Probab=99.95 E-value=1.5e-28 Score=239.90 Aligned_cols=138 Identities=25% Similarity=0.500 Sum_probs=98.4
Q ss_pred ccCccHHHHHHHHhcC-CCCCCCCChHHHHHHHHHhcccEEEEeecC---CccceEEEecccCCCCcceeeeecCCCcee
Q 001961 406 IEPLPVIDFVQQLLNR-DVSSRPLSDADRVKIKKALRGVRVEVTHRG---NMRRKYRISGLTSQTTGELTFPVDESGTLK 481 (990)
Q Consensus 406 ~~~~~l~d~~~~~~~~-~~~~~~~~~~~~~~l~~~LkGl~V~~~~~~---~~~r~~~I~gi~~~~a~~~~F~~~~~g~~i 481 (990)
++++||+|||+++++. ....+...+.++.+++++|+|++|.++|.+ +.+|+|+|.+|++.++++.+|+.+ |.++
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
Confidence 5789999999998843 221223446788899999999999999953 357899999999999999999853 6789
Q ss_pred eHHHHHHHHcCCcccCCCCceEEeccCCcCccccccceeeccCcccccCCCHHHHHHHHHhhcCC
Q 001961 482 SVVEYFYETYGFVIQHTQWPCLQVGNQQRPNYLPMEVCKIVEGQRYSKRLNERQITALLKVTCQR 546 (990)
Q Consensus 482 SV~eYf~~~Y~i~L~~p~lP~l~~g~~~~~~ylP~Elc~i~~gQ~~~~kl~~~q~~~mik~a~~~ 546 (990)
||+|||+++ |++|+||+||||++|++.+++|||||||.|++||+++++|+++|+++||++||.+
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
Confidence 999999998 9999999999999999889999999999999999999999999999999999863
No 12
>3luc_A Protein argonaute-2; MID domain, ribonucleoprotein, RNA-binding, RNA-mediated GEN silencing, translation regulation, RNA binding protein; 1.69A {Homo sapiens} PDB: 3lud_A* 3lug_A 3luh_A 3luj_A* 3luk_A 3qx8_A* 3qx9_A*
Probab=99.94 E-value=8.5e-27 Score=226.66 Aligned_cols=136 Identities=29% Similarity=0.514 Sum_probs=115.2
Q ss_pred cCceeeeCceeceeEEEEecC--CcchHHHHHHHHHHHHHHHhcCcccCCCCccCCCCCCchhHHHHHHHHHHHHHhhcC
Q 001961 614 MNKKMVNGGTVNHWICINFSR--HVQDSIARGFCFELAQMCYISGMAFNPEPVIPPISARPEHVEKVLKTRYHDAMTKLG 691 (990)
Q Consensus 614 ~~~kf~~~~~l~~W~vv~~~~--~~~~~~~~~f~~~L~~~~~~~Gm~i~~~p~~~~~~~~~~~~~~~l~~~~~~a~~~~~ 691 (990)
++++|++|++|++|+|++|+. ..+++.++.|++.|.+.|+.+||.+..+|.+.....++++++..|+.+.+. .
T Consensus 1 ~~kkf~~~~~l~~Wavv~~~~~r~~~~~~~~~F~~~L~~~~~~~Gm~i~~~p~~~~~~~~~~~v~~~~~~l~~~----~- 75 (138)
T 3luc_A 1 SNKQFHTGIEIKVWAIACFAPQRQCTEVHLKSFTEQLRKISRDAGMPIQGQPCFCKYAQGADSVEPMFRHLKNT----Y- 75 (138)
T ss_dssp --CCCCCCCCBCSEEEEECSCTTTSCHHHHHHHHHHHHHHHHHHTCCBCSSCSEEEECCSGGGHHHHHHHHHHH----C-
T ss_pred CcCeecCCcccceEEEEEecCcccccHHHHHHHHHHHHHHHHhcCCCCCCCCeeeecCCcHHHHHHHHHHHHhc----C-
Confidence 367899999999999999963 256788999999999999999999987676554444567777777665432 1
Q ss_pred CCCCccEEEEEecCCCCchhHHHHHHhhhccCeeeeeeeeccccccchhHHHHHHHHHHHhcCccc
Q 001961 692 QGKELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKHVFKMSKQYMANVALKINVKVGGRN 757 (990)
Q Consensus 692 ~~~~~~lvl~ilp~~~~~~Y~~iK~~~~~~~gI~TQci~~~t~~k~~~q~~~Ni~lKiN~KlGG~N 757 (990)
.+++|||||||+ +.++|+.||++||+++||+||||+.+|+.|.++||++||+||||+||||+|
T Consensus 76 --~~~qlv~~ilp~-~~~~Y~~iK~~~~~~~gv~tqcv~~~~~~k~~~q~~~nv~lKiN~KlGG~N 138 (138)
T 3luc_A 76 --AGLQLVVVILPG-KTPVYAEVKRVGDTVLGMATQCVQMKNVQRTTPQTLSNLCLKINVKLGGVN 138 (138)
T ss_dssp --TTCCEEEEEECS-SCHHHHHHHHHHHTTSCCCEEEEEHHHHHSCCHHHHHHHHHHHHHHHSCC-
T ss_pred --CCCcEEEEEECC-CChHHHHHHHHhccCCCcceEEeCchhccCCCHHHHHHHHHHHhhccCCcC
Confidence 468999999997 568999999999999999999999999999899999999999999999987
No 13
>4g0m_A Protein argonaute 2; MID domain, small RNA 5' nucleotide recognition, gene regula; 2.31A {Arabidopsis thaliana}
Probab=99.94 E-value=7.3e-27 Score=230.46 Aligned_cols=143 Identities=34% Similarity=0.577 Sum_probs=108.7
Q ss_pred CceeeeCceeceeEEEEecCCcc-hHHHHHHHHHHHHHHHhcCcccCCCCccCC-C----CCCchhHHHHHHHHHHHHHh
Q 001961 615 NKKMVNGGTVNHWICINFSRHVQ-DSIARGFCFELAQMCYISGMAFNPEPVIPP-I----SARPEHVEKVLKTRYHDAMT 688 (990)
Q Consensus 615 ~~kf~~~~~l~~W~vv~~~~~~~-~~~~~~f~~~L~~~~~~~Gm~i~~~p~~~~-~----~~~~~~~~~~l~~~~~~a~~ 688 (990)
+++|+++++|++|+|++|++... ...++.|++.|.+.|+.+||.+++ |.+.. . ..+++++++.|+++++++.+
T Consensus 2 ~kkf~~~~~l~~Wavv~~~~~~~~~~~~~~f~~~l~~~~~~~Gm~i~~-P~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 80 (150)
T 4g0m_A 2 KKGVTRGSIVKHWAVLDFTASERFNKMPNDFVDNLIDRCWRLGMQMEA-PIVYKTSRMETLSNGNAIEELLRSVIDEASR 80 (150)
T ss_dssp -------CEECSEEEEETTTTTSTTCCCTTHHHHHHHHHHHTTCEECC-CSEEEECCGGGGGCHHHHHHHHHHHHHHHHH
T ss_pred CCeECCCcccCeEEEEEecCCcchhHHHHHHHHHHHHHHHHcCCccCC-CceeeccccccccCchHHHHHHHHHHHHHHH
Confidence 57899999999999999975421 126789999999999999999976 54321 1 24678888899999887765
Q ss_pred hcCCCCCccEEEEEecCCCCchhHHHHHHhhhccCeeeeeeeeccccccchhHHHHHHHHHHHhcCcccccc
Q 001961 689 KLGQGKELDLLIVILPDNNGSLYGDLKRICETDLGLVSQCCLTKHVFKMSKQYMANVALKINVKVGGRNTVL 760 (990)
Q Consensus 689 ~~~~~~~~~lvl~ilp~~~~~~Y~~iK~~~~~~~gI~TQci~~~t~~k~~~q~~~Ni~lKiN~KlGG~N~~l 760 (990)
++. +..++|||||||+++. .|+.||++||+++||+||||+.+|+.|.++||++||+||||+||||+||.|
T Consensus 81 ~~~-~~~pqlv~~ilp~~~~-~Y~~iK~~~~~~~gi~tqcv~~~~~~k~~~q~~~nv~lkiN~KlGG~n~~l 150 (150)
T 4g0m_A 81 KHG-GARPTLVLCAMSRKDD-GYKTLKWIAETKLGLVTQCFLTGPATKGGDQYRANLALKMNAKVGGSNVEL 150 (150)
T ss_dssp HTT-TCCCCEEEEEESSCCT-HHHHHHHCCCCCSCCEEEEEEHHHHSSSCHHHHHHHHHHHHHHC-------
T ss_pred hcC-CCCCcEEEEEECCCCc-cHHHHHHHHhhccCcceEEeehhhccCCCHHHHHHHHHHHhhccCCccCcC
Confidence 542 2368999999999885 599999999999999999999999999899999999999999999999865
No 14
>3mj0_A Protein argonaute-2; argonaut, PAZ domain, 3'-END 2'-O-methylated ssRNA, RNA-RNA protein complex; HET: OMU; 2.31A {Drosophila melanogaster} SCOP: b.34.14.1 PDB: 1t2r_A 1t2s_A
Probab=99.91 E-value=7.8e-25 Score=207.17 Aligned_cols=119 Identities=29% Similarity=0.557 Sum_probs=98.7
Q ss_pred cCccHHHHHHHHhcCC--CCCCCCChHHHHHHHHHhcccEEEEeecC---CccceEEEecccCCCCcceeeeecCCCcee
Q 001961 407 EPLPVIDFVQQLLNRD--VSSRPLSDADRVKIKKALRGVRVEVTHRG---NMRRKYRISGLTSQTTGELTFPVDESGTLK 481 (990)
Q Consensus 407 ~~~~l~d~~~~~~~~~--~~~~~~~~~~~~~l~~~LkGl~V~~~~~~---~~~r~~~I~gi~~~~a~~~~F~~~~~g~~i 481 (990)
+++||+|||++++... +..+.+ +.++.+++++|+|++|.++|.+ ..+++|+|.+|++.+|++++|+++ |+++
T Consensus 1 ~~~~vief~~e~~~~~~~~~~~~l-~~~r~~~~k~LkGl~V~~~~~~~~~~~~r~yrI~~l~~~~a~~~~F~~~--g~~i 77 (124)
T 3mj0_A 1 SSMPMIEYLERFSLKAKINNTTNL-DYSRRFLEPFLRGINVVYTPPQSFQSAPRVYRVNGLSRAPASSETFEHD--GKKV 77 (124)
T ss_dssp CEEEHHHHHHHHTCSSCCCTTCCG-GGSHHHHHHHHTTCEEEECCCGGGTCCCEEEECCEEEEEETTTCEEESS--SSEE
T ss_pred CCccHHHHHHHHhhhcccccccCC-HHHHHHHHHHhCCeEEEEecccccccCCceEEEEeccCCCccccEEeeC--CcEE
Confidence 4689999999997532 223456 5668899999999999999952 357899999999999999999863 7899
Q ss_pred eHHHHHHHHcCCcccCCCCceEEeccCCcCccccccceeeccCccccc
Q 001961 482 SVVEYFYETYGFVIQHTQWPCLQVGNQQRPNYLPMEVCKIVEGQRYSK 529 (990)
Q Consensus 482 SV~eYf~~~Y~i~L~~p~lP~l~~g~~~~~~ylP~Elc~i~~gQ~~~~ 529 (990)
||+|||+++ |++|+||+||||++|+..+++|||||||.|+|||++++
T Consensus 78 sV~~Yf~~~-~~~l~~p~lP~l~~g~~~~~~ylP~Elc~i~~gQ~~~~ 124 (124)
T 3mj0_A 78 TIASYFHSR-NYPLKFPQLHCLNVGSSIKSILLPIELCSIEEGQALNR 124 (124)
T ss_dssp EHHHHHHTT-TCCCSCSSSEEEECCBTTBCCEECGGGEEEEC------
T ss_pred EHHHHHHHc-CCcccCCCCCeEeecCCCCceEecceeEEECCCCccCC
Confidence 999999998 99999999999999988889999999999999999863
No 15
>2xfm_A MIWI, PIWI-like protein 1; RNA-protein complex, differentiation, RNA interference; HET: OMU; NMR {Mus musculus}
Probab=99.90 E-value=1.3e-24 Score=213.67 Aligned_cols=135 Identities=22% Similarity=0.364 Sum_probs=95.8
Q ss_pred cCccHHHHHHHHhcCCCCCCCCChHHHHHHHHHhcccEEEEeecCCccceEEEecccCCCCcceeeeecCCCceeeHHHH
Q 001961 407 EPLPVIDFVQQLLNRDVSSRPLSDADRVKIKKALRGVRVEVTHRGNMRRKYRISGLTSQTTGELTFPVDESGTLKSVVEY 486 (990)
Q Consensus 407 ~~~~l~d~~~~~~~~~~~~~~~~~~~~~~l~~~LkGl~V~~~~~~~~~r~~~I~gi~~~~a~~~~F~~~~~g~~iSV~eY 486 (990)
+++||+|+|.++++.. ..+..+.+++++|+|++|.++|+ +++|+|.+|++.++++++|++. +|..+||+||
T Consensus 1 r~~tvld~~~~~~~~~-----~~~~~~~~~~~~l~g~~V~t~y~---nr~yrI~~i~~~~~p~~~F~~~-~g~~~T~~eY 71 (150)
T 2xfm_A 1 RSETVLDFMFNLYQQT-----EEHKFQEQVSKELIGLIVLTKYN---NKTYRVDDIDWDQNPKSTFKKA-DGSEVSFLEY 71 (150)
T ss_dssp CCCBHHHHHHHHHHHS-----CHHHHHHHHHHHHTTCEEEETTT---TEEEECCEEETTCCTTCCCCSS-SSCCCCHHHH
T ss_pred CCccHHHHHHHHHccc-----cchHHHHHHHHHhCCcEEEEeeC---CceEEeeecCCCCCccCeeecC-CCceeeHHHH
Confidence 4679999999988631 22456889999999999999997 5899999999999999999864 4678999999
Q ss_pred HHHHcCCcccCCCCceEEeccCC---------cCccccccceeeccCcccccCCCHHH------HHHHHHhhcCCchHHH
Q 001961 487 FYETYGFVIQHTQWPCLQVGNQQ---------RPNYLPMEVCKIVEGQRYSKRLNERQ------ITALLKVTCQRPHERE 551 (990)
Q Consensus 487 f~~~Y~i~L~~p~lP~l~~g~~~---------~~~ylP~Elc~i~~gQ~~~~kl~~~q------~~~mik~a~~~P~~R~ 551 (990)
|+++|||+|+||+||||+++.+. +++|||||||.|+ +|+++| +++|+++|+.+|.+|.
T Consensus 72 f~~~Y~i~i~~~~qPlL~~~~~~~~~~~~~~~~~~~LppELC~i~-------~L~d~~rs~~~~mk~l~~~t~~~P~~R~ 144 (150)
T 2xfm_A 72 YRKQYNQEITDLKQPVLVSQPKRRRGPGGTLPGPAMLIPELCYLT-------GLTDKMRNDFNVMKDLAVHTRLTPEQRQ 144 (150)
T ss_dssp HHTTCCCCCCCSSSCEEEECSSCTTCCSSCSSCCEEECGGGEEEC-------STTC------------------------
T ss_pred HHHHcCCccCCCCCCeEEecccccccccccccceEEecHHHhccC-------CCCHHHHhhHHHHHHHHHHHccCHHHHH
Confidence 99999999999999999998642 6799999999999 355555 4469999999999999
Q ss_pred HHHHHH
Q 001961 552 RDIMQT 557 (990)
Q Consensus 552 ~~i~~~ 557 (990)
+.|.++
T Consensus 145 ~~i~~f 150 (150)
T 2xfm_A 145 REVGRL 150 (150)
T ss_dssp ------
T ss_pred HHHhcC
Confidence 988653
No 16
>3qir_A PIWI-like protein 2; structural genomics consortium, SGC, PAZ domain, RNAI, RNA B RNA binding protein; 2.45A {Homo sapiens} PDB: 3o7x_A
Probab=99.89 E-value=8e-24 Score=205.88 Aligned_cols=136 Identities=18% Similarity=0.266 Sum_probs=91.6
Q ss_pred CccHHHHHHHHhcCCCCCCCCChHHHHHHHHHhcccEEEEeecCCccceEEEecccCCCCcceeeeecCCCceeeHHHHH
Q 001961 408 PLPVIDFVQQLLNRDVSSRPLSDADRVKIKKALRGVRVEVTHRGNMRRKYRISGLTSQTTGELTFPVDESGTLKSVVEYF 487 (990)
Q Consensus 408 ~~~l~d~~~~~~~~~~~~~~~~~~~~~~l~~~LkGl~V~~~~~~~~~r~~~I~gi~~~~a~~~~F~~~~~g~~iSV~eYf 487 (990)
..||+|+|.++.... ...++.+++++|+|+.|.+.|+ ++.|+|.+|+++.++..+|+.. +|..+||+|||
T Consensus 2 ~~tvld~m~~~~~~~------~~~~~~~~~k~l~g~~V~t~yn---nk~YrI~~I~~~~~p~s~F~~~-dg~~iT~~eYf 71 (148)
T 3qir_A 2 NDCVLDVMHAIYQQN------KEHFQDECTKLLVGNIVITRYN---NRTYRIDDVDWNKTPKDSFTMS-DGKEITFLEYY 71 (148)
T ss_dssp CCCHHHHHHHHHHHH------HHHHHHHHHHHHTTCEEEETTT---CCEEECCEEETTCCTTSEEECT-TSCEEEHHHHH
T ss_pred cchHHHHHHHHHhhC------cHHHHHHHHHHcCCCEEEEccC---CcEEEEeeecCCCCcCccccCC-CCCcccHHHHH
Confidence 468999999876421 2457889999999999999996 5899999999999999999864 47899999999
Q ss_pred HHHcCCcccCCCCceEEeccCC----------cCccccccceeeccCcccccCCCHHHHHHHHHhhcCCchHHHHHH
Q 001961 488 YETYGFVIQHTQWPCLQVGNQQ----------RPNYLPMEVCKIVEGQRYSKRLNERQITALLKVTCQRPHERERDI 554 (990)
Q Consensus 488 ~~~Y~i~L~~p~lP~l~~g~~~----------~~~ylP~Elc~i~~gQ~~~~kl~~~q~~~mik~a~~~P~~R~~~i 554 (990)
+++|||+|+||+||||+++.+. +++|||||||.++ |.....+.+.++|++|+++++..|.+|.+.|
T Consensus 72 ~~kY~i~I~~~~qPlL~~~~k~~~~~~~~~~~~~~yL~pELC~lt-gLtd~~r~d~~~mk~l~~~tr~~P~~R~~~l 147 (148)
T 3qir_A 72 SKNYGITVKEEDQPLLIHRPSERQDNHGMLLKGEILLLPELSFMT-GIPEKMKKDFRAMKDLAQQINLSPKQHHSAL 147 (148)
T ss_dssp HHHHCCCCSCTTCCEEEECCTTCCCC---CCSCCEEECGGGEECC--------------------------------
T ss_pred HHHcCCeecCCCCceEEeecccccCCCCCCccceeeecHHHhhhc-CCCHHHHhhhHHHHHHHHHHCCCHHHHHHhh
Confidence 9999999999999999998643 5799999999999 6777777788889999999999999998865
No 17
>1r6z_P Chimera of maltose-binding periplasmic protein AN argonaute 2; deviant OB fold, RNAI, gene regulation; HET: MAL; 2.80A {Escherichia coli} SCOP: b.34.14.1 c.94.1.1
Probab=99.82 E-value=8.1e-21 Score=226.17 Aligned_cols=131 Identities=27% Similarity=0.506 Sum_probs=103.2
Q ss_pred eccccccccCccHHHHHHHHhcCCCCC-CCCChHHHHHHHHHhcccEEEEeecCC---ccceEEEecccCCCCcceeeee
Q 001961 399 DMSSTAFIEPLPVIDFVQQLLNRDVSS-RPLSDADRVKIKKALRGVRVEVTHRGN---MRRKYRISGLTSQTTGELTFPV 474 (990)
Q Consensus 399 D~s~~~F~~~~~l~d~~~~~~~~~~~~-~~~~~~~~~~l~~~LkGl~V~~~~~~~---~~r~~~I~gi~~~~a~~~~F~~ 474 (990)
+.....|++++||+|+|.+++.....+ ....+..+.+++++||||+|+++|.++ .+|.|+|.+|+..++++.+|++
T Consensus 375 ~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~i~~~~~~~~~~~~f~~ 454 (509)
T 1r6z_P 375 DISHKSFPISMPMIEYLERFSLKAKINNTTNLDYSRRFLEPFLRGINVVYTPPQSFQSAPRVYRVNGLSRAPASSETFEH 454 (509)
T ss_dssp CSSCCCSSCEEEHHHHHHHHTTCSCCCTTCCGGGGHHHHHHHHTTCEEEECCCGGGCCCCEEEECCEEEEEETTTCEEEE
T ss_pred hhhhhccCCCccHHHHHHHHhhccccCCccccchhHHHHHHHhCCcEEEEecCCCccCCCCeEEEeeCCCCChhhcEecc
Confidence 445567999999999999997432221 112344556799999999999999754 5789999999998999999987
Q ss_pred cCCCceeeHHHHHHHHcCCcccCCCCceEEeccCCcCccccccceeeccCcccccCCC
Q 001961 475 DESGTLKSVVEYFYETYGFVIQHTQWPCLQVGNQQRPNYLPMEVCKIVEGQRYSKRLN 532 (990)
Q Consensus 475 ~~~g~~iSV~eYf~~~Y~i~L~~p~lP~l~~g~~~~~~ylP~Elc~i~~gQ~~~~kl~ 532 (990)
+ +++|||+|||+ +|||+|+||+||||+++++++++|||||||.|++||||+.||+
T Consensus 455 ~--~~~~sv~~yf~-~~~~~l~~p~lp~v~~~~~~~~~~~P~e~~~i~~~q~~~~~~~ 509 (509)
T 1r6z_P 455 D--GKKVTIASYFH-SRNYPLKFPQLHCLNVGSSIKSILLPIELCSIEEGQALNRKDG 509 (509)
T ss_dssp T--TEEEEHHHHHH-HTTCCCSCTTSEEEECSCTTSCCEECGGGEEEEC---------
T ss_pred C--CeEEEHHHHHH-HcCCcccCCCCCeEecCCCCCCceecceeeEecCCccccccCC
Confidence 4 68999999999 8999999999999999988899999999999999999999875
No 18
>3o7v_X PIWI-like protein 1; PIWI, RNA silencing, PI-RNA, HIWI1, HILI, PAZ domain, RNA BI protein; HET: OMU; 2.10A {Homo sapiens} PDB: 2l5c_A 2l5d_A 3o3i_X 3o6e_X*
Probab=99.81 E-value=3.6e-20 Score=174.45 Aligned_cols=112 Identities=21% Similarity=0.354 Sum_probs=92.4
Q ss_pred ccHHHHHHHHhcCCCCCCCCChHHHHHHHHHhcccEEEEeecCCccceEEEecccCCCCcceeeeecCCCceeeHHHHHH
Q 001961 409 LPVIDFVQQLLNRDVSSRPLSDADRVKIKKALRGVRVEVTHRGNMRRKYRISGLTSQTTGELTFPVDESGTLKSVVEYFY 488 (990)
Q Consensus 409 ~~l~d~~~~~~~~~~~~~~~~~~~~~~l~~~LkGl~V~~~~~~~~~r~~~I~gi~~~~a~~~~F~~~~~g~~iSV~eYf~ 488 (990)
.||+|+|.++.... -....+.+++++|+|+.|.+.|+ ++.|+|.+|+++.++.++|+.. +|..+||+|||+
T Consensus 2 ~tvld~~~~~~~~~-----~~~~~~~~~~k~l~G~~V~t~yn---nk~YrI~~I~~~~~p~s~F~~~-dg~~~T~~eYyk 72 (124)
T 3o7v_X 2 ETVLDFMFNFYHQT-----EEHKFQEQVSKELIGLVVLTKYN---NKTYRVDDIDWDQNPKSTFKKA-DGSEVSFLEYYR 72 (124)
T ss_dssp CBHHHHHHHSCCCS-----SHHHHHHHHHHHHTTCEEEETTS---SCEEECCEEETTCCTTCEEECT-TSCEEEHHHHHH
T ss_pred ccHHHHHHHHHHhc-----ccHHHHHHHHHHcCCCEEEEeeC---CeEEEEeeeCCCCCccCcccCC-CCCeeeHHHHHH
Confidence 58999999875321 12467889999999999999997 5899999999999999999863 478999999999
Q ss_pred HHcCCcccCCCCceEEeccCC---------cCccccccceeeccCcccccCCCHHHH
Q 001961 489 ETYGFVIQHTQWPCLQVGNQQ---------RPNYLPMEVCKIVEGQRYSKRLNERQI 536 (990)
Q Consensus 489 ~~Y~i~L~~p~lP~l~~g~~~---------~~~ylP~Elc~i~~gQ~~~~kl~~~q~ 536 (990)
++|||+|+||+||||+++.+. +++|||||||.++ .|++++.
T Consensus 73 ~kY~i~I~~~~QPLL~~~~k~~~~~~~~~~~~iyLipELC~lt-------Gltd~~r 122 (124)
T 3o7v_X 73 KQYNQEITDLKQPMLVSQPKRRRGPGGTLPGPAMLIPELCYLT-------GLTDKMR 122 (124)
T ss_dssp HHHCCCCCCSSCCEEEECCC----------CCEEECGGGEECC-------CCC----
T ss_pred HHhCceecCCCcceEEEeeecccCCCCCCcceEEechhheecc-------CCChHhc
Confidence 999999999999999998543 5799999999998 4666543
No 19
>2qvw_A GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral twin, hydrolase; 3.00A {Giardia intestinalis} PDB: 2ffl_A
Probab=98.53 E-value=4.5e-08 Score=119.10 Aligned_cols=85 Identities=16% Similarity=0.302 Sum_probs=71.8
Q ss_pred HHHHHhcccEEEEeecCCccceEEEecccCCCCcceeeeecCCCceeeHHHHHHHHcCCcccCCCCceEEeccC------
Q 001961 435 KIKKALRGVRVEVTHRGNMRRKYRISGLTSQTTGELTFPVDESGTLKSVVEYFYETYGFVIQHTQWPCLQVGNQ------ 508 (990)
Q Consensus 435 ~l~~~LkGl~V~~~~~~~~~r~~~I~gi~~~~a~~~~F~~~~~g~~iSV~eYf~~~Y~i~L~~p~lP~l~~g~~------ 508 (990)
...+.|+|..|.+.|++ +|.|+|.+|+++.++.++|+.. +..+|+.|||+++||++|++++||+|.++..
T Consensus 151 ~~~~~l~g~vV~t~ynn--~r~Y~i~~id~d~~P~S~F~~~--~~~~Ty~dYYk~ky~i~I~d~~QPLL~~~~~~~~~~~ 226 (756)
T 2qvw_A 151 TLSASLHGRMVATPEIS--WSLYVVLGIDSTQTSLSYFTRA--NESITYMRYYATAHNIHLRAADLPLVAAVRLDDLKDH 226 (756)
T ss_dssp -CTTTSTTCEEEETTTT--TEEEEEEEEEEEEETTSEEEET--TEEEEHHHHHHHTTCCCCSCTTSEEEEEEETTTTTTC
T ss_pred hhHHHhCCCEEecCCCC--ceEEEEEEecCCCCCCCcCCCC--CCCCCHHHHHHHHcCcccccCCCCeEEEEeccccccc
Confidence 35678999999999972 3899999999988889999853 3679999999999999999999999998642
Q ss_pred ------------CcCccccccceeecc
Q 001961 509 ------------QRPNYLPMEVCKIVE 523 (990)
Q Consensus 509 ------------~~~~ylP~Elc~i~~ 523 (990)
.+.++||||||.+++
T Consensus 227 r~~~~~~~~~~~~~~v~L~PELC~vt~ 253 (756)
T 2qvw_A 227 QIPAPGSWDDLAPKLRFLPPELCLLLP 253 (756)
T ss_dssp CCCSTTC-CCSCSSCEEECTTTCEECC
T ss_pred ccccccccccCCccceeeCHHHheeec
Confidence 124799999999984
No 20
>2nrr_A Uvrabc system protein C; UVRC, endonuclase, NER, hydrolase; 1.20A {Thermotoga maritima}
Probab=70.10 E-value=30 Score=33.24 Aligned_cols=102 Identities=19% Similarity=0.217 Sum_probs=55.4
Q ss_pred CeEEEEEeecCCCCCCCCCCceeEEEEeecCCCcc--ceeeEEEEccCChhhhhhhhccccCCCcccchhHHHHHHHHHH
Q 001961 775 PTIIFGADVTHPHPGEDSSPSIAAVVASQDWPEVT--KYAGLVCAQAHRQELIQDLFKTWQDPVRGAVSGGMIKELLISF 852 (990)
Q Consensus 775 ~tmiiG~DVsHp~~~~~~~pSiaavVaS~d~~~~~--ky~~~~~~Q~~~~E~i~~l~~~~~~~~~~~~~~~m~~~~L~~f 852 (990)
|.-|=++|+||-.. .-+||++|.-.| .... .|. .+.+.. +-.+|. .+|+|.|..-
T Consensus 17 P~RIE~fDiSh~~G----~~~VasmVVf~~-g~p~K~~YR-rf~I~~---~g~DDy--------------a~M~Evl~RR 73 (159)
T 2nrr_A 17 PYRIEGIDISHLQG----KYTVASLVVFED-GFPKKGDYR-RYKIEQ---DHPDDY--------------ESIRTVVKRR 73 (159)
T ss_dssp CCEEEEEEEECC-------CCEEEEEEEET-TEECGGGCE-EEEC--------CHH--------------HHHHHHHHHH
T ss_pred CCEEEEEECCccCC----ccceEEEEEEeC-CccChhhCc-eeecCC---CCCCHH--------------HHHHHHHHHH
Confidence 67899999999753 346888887666 3221 222 112221 112454 5667777544
Q ss_pred HHHhCCCCceEEEEecCCCchhHHHHHHHHHHHHHHHHHhhCCCCCCCEEEEEEeecccccccc
Q 001961 853 RRATGQKPQRIIFYRDGVSEGQFYQVLLYELDAIRKACASLEPNYQPPVTFVVVQKRHHTRLFA 916 (990)
Q Consensus 853 ~~~~g~~P~~IIiyRDGVsegq~~~vl~~E~~~i~~a~~~~~~~~~P~it~Ivv~Krh~tRff~ 916 (990)
++.- .+|+-|+| || +.||+.. .++++.++.- .+.+|-+.|+ ..++|-
T Consensus 74 ~~r~-~~PDLilI--DG-GkgQl~a--------A~~vl~elg~----~i~v~glAK~-~e~l~~ 120 (159)
T 2nrr_A 74 YSKH-PLPNLLFV--DG-GIGQVNA--------AIEALKEIGK----DCPVVGLAKK-EETVVF 120 (159)
T ss_dssp HTTS-CCCSEEEE--SS-CHHHHHH--------HHHHHHHTTC----CCCEEEEC-----CEEE
T ss_pred hccC-CCCCEEEE--eC-CHHHHHH--------HHHHHHHcCC----CccEEEEEcC-CcEEEe
Confidence 3322 68987776 77 5677654 4566666642 3568888887 344543
No 21
>3qbz_A DDK kinase regulatory subunit DBF4; FHA domain,RAD53, replication checkpoint, cell cycle; 2.69A {Saccharomyces cerevisiae}
Probab=67.90 E-value=2 Score=41.11 Aligned_cols=64 Identities=13% Similarity=0.219 Sum_probs=43.1
Q ss_pred HHHHHHHHHHh-CCCCceEEEEecCCCchhHHHHHHHHHHH----HHHHHHhhCCC----CCCCEEEEEEeec
Q 001961 846 KELLISFRRAT-GQKPQRIIFYRDGVSEGQFYQVLLYELDA----IRKACASLEPN----YQPPVTFVVVQKR 909 (990)
Q Consensus 846 ~~~L~~f~~~~-g~~P~~IIiyRDGVsegq~~~vl~~E~~~----i~~a~~~~~~~----~~P~it~Ivv~Kr 909 (990)
.+-|..|+++- +.+|...+||.|.++|.+.......|++. +++++..|... |.-.+|+||..+.
T Consensus 45 ~~eL~~WQ~~WRkifk~~~vfYFDt~~~~~~~~~~k~kl~K~~~llkr~f~~LGA~I~~FFd~~VTiVIT~R~ 117 (160)
T 3qbz_A 45 PKELLEWQTNWKKIMKRDSRIYFDITDDVEMNTYNKSKMDKRRDLLKRGFLTLGAQITQFFDTTVTIVITRRS 117 (160)
T ss_dssp HHHHHHHHHHHHHHHHHHCEEEECCCCSSCCCHHHHHHHHHHHHHHHHHHHTTTCEEESSCCTTCCEEEESSC
T ss_pred HHHHHHHHHHHHHhCccCcEEEecCCChhhhhHHHHHHHHHHHHHHHHHHHHcCCEeeeeccCCeEEEEecCc
Confidence 34556666543 35677789999999987655554555544 66777777542 7789998885443
No 22
>2nrt_A Uvrabc system protein C; UVRC, endonuclease, RNAse H, helix hairpin helix, NER, hydrolase; 1.50A {Thermotoga maritima} PDB: 2nrv_A 2nrw_A 2nrx_A 2nrz_A
Probab=49.34 E-value=66 Score=32.66 Aligned_cols=102 Identities=19% Similarity=0.217 Sum_probs=59.4
Q ss_pred CeEEEEEeecCCCCCCCCCCceeEEEEeecCCCcc--ceeeEEEEccCChhhhhhhhccccCCCcccchhHHHHHHHHHH
Q 001961 775 PTIIFGADVTHPHPGEDSSPSIAAVVASQDWPEVT--KYAGLVCAQAHRQELIQDLFKTWQDPVRGAVSGGMIKELLISF 852 (990)
Q Consensus 775 ~tmiiG~DVsHp~~~~~~~pSiaavVaS~d~~~~~--ky~~~~~~Q~~~~E~i~~l~~~~~~~~~~~~~~~m~~~~L~~f 852 (990)
|.-|=++|+||-.. .-+||++|.-.| .... .|. .+.+.. +-.+|. .+|+|.|..-
T Consensus 22 p~rIE~fDiSh~~G----~~~V~smVvf~~-g~p~k~~YR-rf~i~~---~g~DDy--------------a~m~Evl~RR 78 (220)
T 2nrt_A 22 PYRIEGIDISHLQG----KYTVASLVVFED-GFPKKGDYR-RYKIEQ---DHPDDY--------------ESIRTVVKRR 78 (220)
T ss_dssp CCEEEEEEEEEETT----TEEEEEEEEEET-TEECGGGCE-EEEEEC---SSCCHH--------------HHHHHHHHHH
T ss_pred CCEEEEEECCccCC----ccceEEEEEEeC-CccChhhCc-eeeCCC---CCCCHH--------------HHHHHHHHHH
Confidence 66889999999753 346888887665 3221 222 122222 112454 4667776444
Q ss_pred HHHhCCCCceEEEEecCCCchhHHHHHHHHHHHHHHHHHhhCCCCCCCEEEEEEeecccccccc
Q 001961 853 RRATGQKPQRIIFYRDGVSEGQFYQVLLYELDAIRKACASLEPNYQPPVTFVVVQKRHHTRLFA 916 (990)
Q Consensus 853 ~~~~g~~P~~IIiyRDGVsegq~~~vl~~E~~~i~~a~~~~~~~~~P~it~Ivv~Krh~tRff~ 916 (990)
++.- .+|+-||| || +.||+.. .++++.++.- .+.+|-+.|+ ..++|-
T Consensus 79 ~~r~-~~PDLili--DG-GkgQl~~--------a~~vl~~lg~----~i~v~glaK~-~e~l~~ 125 (220)
T 2nrt_A 79 YSKH-PLPNLLFV--DG-GIGQVNA--------AIEALKEIGK----DCPVVGLAKK-EETVVF 125 (220)
T ss_dssp HTTS-CCCSEEEE--SS-SHHHHHH--------HHHHHHHTTC----CCCEEEECTT-TCCEEE
T ss_pred hccC-CCCCEEEE--eC-CHHHHHH--------HHHHHHHcCC----CCeEEEEECC-CcEEEe
Confidence 3322 68987776 77 5677654 4566666642 3668888887 344443
No 23
>2b5u_A Colicin E3; high resolution colicin E3, ribosome inactivation, ribosome inhibitor, hydrolase; HET: CIT; 2.30A {Escherichia coli} SCOP: b.101.1.1 b.110.1.1 h.4.9.1 PDB: 1jch_A* 1ujw_B* 2ysu_B 1e44_B 2xfz_Y* 2xg1_Y*
Probab=32.16 E-value=13 Score=41.83 Aligned_cols=11 Identities=27% Similarity=0.320 Sum_probs=5.3
Q ss_pred CeEEEEEeecC
Q 001961 775 PTIIFGADVTH 785 (990)
Q Consensus 775 ~tmiiG~DVsH 785 (990)
...|.=-|-.|
T Consensus 503 ~~~iyEWDs~h 513 (551)
T 2b5u_A 503 GRKIYEWDSQH 513 (551)
T ss_dssp TTEEEEEETTT
T ss_pred CCeeeeccccC
Confidence 33455555444
No 24
>3c65_A Uvrabc system protein C; UVRC, endonuclease, nucleotide excision repair, DNA repair, RNAse H, cytoplasm, DNA damage, DNA excision; 1.90A {Bacillus stearothermophilus}
Probab=20.70 E-value=3.6e+02 Score=27.36 Aligned_cols=98 Identities=20% Similarity=0.256 Sum_probs=53.0
Q ss_pred CeEEEEEeecCCCCCCCCCCceeEEEEeecCCCcc--ceeeEEEEccCChhhhhhhhccccCCCcccchhHHHHHHHH-H
Q 001961 775 PTIIFGADVTHPHPGEDSSPSIAAVVASQDWPEVT--KYAGLVCAQAHRQELIQDLFKTWQDPVRGAVSGGMIKELLI-S 851 (990)
Q Consensus 775 ~tmiiG~DVsHp~~~~~~~pSiaavVaS~d~~~~~--ky~~~~~~Q~~~~E~i~~l~~~~~~~~~~~~~~~m~~~~L~-~ 851 (990)
|.-|=++|+||-.. .-+||++|.-.| .... .|. .+.+.. .+-.+|. .+|+|.|. .
T Consensus 14 p~rIE~fDiSh~~G----~~~V~smVvf~~-g~p~k~~YR-~f~i~~--~~g~DDy--------------a~m~Evl~RR 71 (226)
T 3c65_A 14 PRRIEAFDNSNIYG----ADPVSALVVFLD-GKPAKKEYR-KYKVKT--VAGPNDY--------------ETMREVVRRR 71 (226)
T ss_dssp CSEEEEEEEEESSS----SSCEEEEEEEET-TEECGGGCE-EEECCC--CCTTCHH--------------HHHHHHHHHH
T ss_pred CCEEEEEECCccCC----cCceEEEEEEeC-CccChhhCc-eeecCC--CCCCcHH--------------HHHHHHHHHH
Confidence 77899999999753 346888887666 3221 222 112211 1111343 35555553 3
Q ss_pred HHH---HhCCCCceEEEEecCCCchhHHHHHHHHHHHHHHHH-HhhCCCCCCCEEEEEEeec
Q 001961 852 FRR---ATGQKPQRIIFYRDGVSEGQFYQVLLYELDAIRKAC-ASLEPNYQPPVTFVVVQKR 909 (990)
Q Consensus 852 f~~---~~g~~P~~IIiyRDGVsegq~~~vl~~E~~~i~~a~-~~~~~~~~P~it~Ivv~Kr 909 (990)
|.+ ....+|+-||| || +.||+.. .++++ .++.- .+.+|-+.|.
T Consensus 72 ~~r~~~e~~~~PDLili--DG-GkgQl~~--------a~~vl~~~lg~----~i~v~glaK~ 118 (226)
T 3c65_A 72 YTRVLKEGLPLPDLIII--DG-GKGHLSA--------VRDVLENELGL----DVPLAGLAKD 118 (226)
T ss_dssp HHHHHHHTCCCCSEEEE--SS-CHHHHHH--------HHHHHHHTSCC----CCCEEEC---
T ss_pred HhhhhcccCCCCCEEEE--eC-CHHHHHH--------HHHHHHHhcCC----CceEEEEEcC
Confidence 332 22358987776 77 5677654 45666 46642 3567777784
No 25
>4b4u_A Bifunctional protein fold; oxidoreductase; HET: NAP; 1.45A {Acinetobacter baumannii atcc 19606} PDB: 4b4v_A* 4b4w_A*
Probab=20.17 E-value=3.1e+02 Score=29.18 Aligned_cols=57 Identities=16% Similarity=0.183 Sum_probs=40.6
Q ss_pred CCCccEEEEEecCC-CCchhHHHHHHhhhccCeeeeeeeeccccccchhHHHHHHHHHHH
Q 001961 693 GKELDLLIVILPDN-NGSLYGDLKRICETDLGLVSQCCLTKHVFKMSKQYMANVALKINV 751 (990)
Q Consensus 693 ~~~~~lvl~ilp~~-~~~~Y~~iK~~~~~~~gI~TQci~~~t~~k~~~q~~~Ni~lKiN~ 751 (990)
+..|.|.++++-++ .+..|-+.|...+.+.||.+..+.... .....-+.+.+.++|.
T Consensus 51 g~~P~LavIlVG~dpaS~~Yv~~K~k~c~~vGi~s~~~~lp~--~~se~ell~~I~~LN~ 108 (303)
T 4b4u_A 51 GRTPILATILVGDDGASATYVRMKGNACRRVGMDSLKIELPQ--ETTTEQLLAEIEKLNA 108 (303)
T ss_dssp SCCCEEEEEEESCCHHHHHHHHHHHHHHHHTTCEEEEEEECT--TCCHHHHHHHHHHHHT
T ss_pred CCCCcEEEEEeCCCHHHHHHHHHHHHHHHHcCCeEEEEecCc--cCCHHHHHHHHHHhcC
Confidence 35688888777655 346799999888899999998876532 1234456677777774
Done!