Query 005428
Match_columns 697
No_of_seqs 176 out of 1009
Neff 7.6
Searched_HMMs 29240
Date Tue Mar 26 01:06:46 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/005428.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/005428hhsearch_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 5E-103 2E-107 927.2 58.7 563 121-696 18-596 (861)
2 4f1n_A Kpago; argonaute, RNAI, 100.0 2E-89 6.8E-94 810.5 44.2 553 124-688 13-746 (1046)
3 1yvu_A Hypothetical protein AQ 100.0 4E-50 1.4E-54 463.4 17.4 421 197-696 49-499 (706)
4 1u04_A Argonaute, hypothetical 100.0 1.1E-45 3.8E-50 426.1 20.0 464 142-696 3-556 (771)
5 3ho1_A Argonaute; argonaute, p 100.0 1.3E-38 4.6E-43 361.3 28.6 447 142-696 6-475 (685)
6 4g0x_A Protein argonaute 1; MI 100.0 1.7E-29 5.8E-34 238.4 13.9 145 544-689 2-147 (147)
7 4g0o_A Protein argonaute 5; MI 100.0 8.9E-29 3E-33 231.1 10.8 138 544-689 2-139 (139)
8 1vyn_A Argonaute2; nucleic aci 99.9 4.7E-28 1.6E-32 227.1 10.7 138 335-475 2-143 (143)
9 3luc_A Protein argonaute-2; MI 99.9 2E-27 6.7E-32 221.8 13.7 135 544-685 2-138 (138)
10 4g0m_A Protein argonaute 2; MI 99.9 1.9E-27 6.4E-32 225.1 9.9 144 544-689 2-150 (150)
11 3mj0_A Protein argonaute-2; ar 99.9 6.4E-25 2.2E-29 199.9 9.9 118 336-457 1-123 (124)
12 2xfm_A MIWI, PIWI-like protein 99.9 3.7E-25 1.3E-29 208.9 8.5 135 336-486 1-150 (150)
13 3qir_A PIWI-like protein 2; st 99.9 6.1E-24 2.1E-28 199.0 9.9 132 336-484 1-148 (148)
14 2yha_A Post-transcriptional ge 99.9 4.1E-23 1.4E-27 224.3 12.5 146 542-696 2-160 (388)
15 2yhb_A QDE-2, post-transcripti 99.9 1.2E-22 4.1E-27 223.5 12.5 145 542-696 2-160 (437)
16 3o7v_X PIWI-like protein 1; PI 99.8 2.8E-21 9.7E-26 175.3 11.3 114 338-467 2-124 (124)
17 1r6z_P Chimera of maltose-bind 99.8 5.1E-21 1.7E-25 216.6 10.1 130 328-461 375-509 (509)
18 2w42_A PIWI, putative uncharac 99.4 3.1E-14 1.1E-18 156.5 -0.3 159 516-696 5-183 (427)
19 2qvw_A GLP_546_48378_50642; di 98.6 1.9E-08 6.4E-13 117.2 6.1 84 364-451 151-252 (756)
20 2l69_A Rossmann 2X3 fold prote 31.6 56 0.0019 27.0 4.5 59 556-634 3-61 (134)
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=4.8e-103 Score=927.25 Aligned_cols=563 Identities=34% Similarity=0.638 Sum_probs=478.3
Q ss_pred CCCCCCcccCCCCCCCCCCCCEEEEEEEEEEeEcCCCCceEeEEEEecCCCChHHHHHHHHHHHHHhccCccCCCcceec
Q 005428 121 FPTSSKSLSFAPRPGYGQVGTKCIVKANHFFAELPDKDLNQYDVTITPEVASRTVNRAIMAELVRLYKESDLGMRLPAYD 200 (697)
Q Consensus 121 ~~~~~~~~~~~~RP~~Gt~G~~v~l~tN~F~i~~~~~~iy~Y~V~i~p~v~~k~~~r~ii~~l~~~~~~~~~~~~~~~yD 200 (697)
||.+++...+|.||++||.|++|.|+||||++.+++..+|||||+|.|+..+++++++|++++++++..+.|++..++||
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 56667788999999999999999999999999998888999999999999999999999999999876556876667999
Q ss_pred CCceEEecCCCCCCceeEEEEeccCCCCCCCCCCCcEEEEEEEEeeeechhhHHHHHcCCCCCChhHHHHHHHHHHhccc
Q 005428 201 GRKSLYTAGELPFVWKEFKIKLVDELDGINGPKRVREYKVVIKFAARANMHHLGQFLAGKRADAPQEALQILDIVLRELS 280 (697)
Q Consensus 201 G~~~LyS~~~L~~~~~~~~v~l~~~~~~~~~~~~~~~~~V~Ik~~~~i~l~~L~~~l~~~~~~~~~~~~q~Lniilr~~~ 280 (697)
|+++|||+.+|+.+...+++.+....+ .+.+.|+|+|++++++++++|.+|+.|...+.+.+++|+||||||+.+
T Consensus 98 G~~~l~s~~~L~~~~~~~~~~v~~~~~-----~~~~~~~V~I~~~~~i~l~~L~~~l~g~~~~~~~~~iq~Lniilr~~~ 172 (861)
T 4f3t_A 98 GRKNLYTAMPLPIGRDKVELEVTLPGE-----GKDRIFKVSIKWVSCVSLQALHDALSGRLPSVPFETIQALDVVMRHLP 172 (861)
T ss_dssp SSSEEEESSCCSCSSCEEEEECCC------------CEEEEEEEEEEEEHHHHHHHHHTCSSSCCHHHHHHHHHHHHHHH
T ss_pred CcceEEECCcCCCCCcceEEEEecCCC-----CCCcEEEEEEEEeeecCHHHHHHHhcCCCCCCcHHHHHHHHHHHHhhc
Confidence 999999999999764333343322111 356789999999999999999999999988888999999999999988
Q ss_pred cCccccCCccccCCCCCCcccCCCcEEEeeeeeeeEEeeCCeeEEEeecccccccccccHHHHHHHHhCCCcc---CCCC
Q 005428 281 TKRYCPIGRSFFSPSIRTPQRLGDGLESWCGFYQSIRPTQMGLSLNIDMASAAFIEPLPVIEFVAQLLGKDVL---SRTL 357 (697)
Q Consensus 281 ~~~~~~~Gr~ff~~~~~~~~~l~~Gle~~~Gf~~SvR~~~~~l~LniD~s~~~F~~~~~lld~i~~~~~~~~~---~r~l 357 (697)
+.+|..+||+||++..+...++++|+|+|+||++|||+++++++||+|+++++||++++|+|+|.++++..+. .+.+
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 8899999999999875544678999999999999999999999999999999999999999999999875432 3457
Q ss_pred ChhHHHHHHHHhcCcEEEEeecCCccceEEEecccCCCCcceEEeec-CCC--ceeeHHHHHHHHhCCcccCCCCcEEEe
Q 005428 358 SDSDRVKIKKALRGVKVEVTHRGTVRRKYRVSGLTSQPTRELVFPVD-DNS--TMKSVVEYFQEMYGFTIQHTHLPCLQV 434 (697)
Q Consensus 358 ~~~~~~~i~~~LkglkV~~~~~~~~~r~~rI~~i~~~~a~~~~F~~~-d~g--~~iSV~dYF~~~Y~i~L~~p~lPlv~~ 434 (697)
++.++.+++++|+|++|.++|.++.+|+|+|.+|++.++.+.+|+++ ++| .+|||+|||+++|||+|+||+||||++
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 78889999999999999999975446789999999988888899753 233 478999999999999999999999999
Q ss_pred ccCCcceeecccceEecCCccccccCCHHHHHHHHHHhcCCchhHHHHHHHHHHhhcCCcchHHhhcCceecCcceEeee
Q 005428 435 GNQKKANYLPMEACKIVEGQRYTKRLNERQITALLKVTCQRPRDRENDILQTVQQNAYDQDLYAKEFGIKISEKLASVEA 514 (697)
Q Consensus 435 g~~~~~~ylP~Elc~i~~gQr~~~~L~~~q~~~mik~a~~~P~eR~~~I~~~~~~~~~~~~~~L~~fGi~I~~~~~~V~a 514 (697)
|.+++++|||||||.|+|||+|+++|+++|+++||++|+..|.+|.+.|.++++.++++.+++|++|||+|+++|++|+|
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 98888999999999999999999999999999999999999999999999999988888889999999999999999999
Q ss_pred eecCCCeeeeccCCCccccCCcccccccCCceecCCcccceeEEEEeCCC--cCHHHHHHHHHHHHHHHHhcCCccCCCC
Q 005428 515 RILPAPWLKYHENGKEKDCLPQVGQWNMMNKKMINGMTVSRWACINFSRS--VQESVARGFCNELAQMCQVSGMEFNPEP 592 (697)
Q Consensus 515 rvL~~P~I~y~~~~~~~~v~p~~g~Wnl~~~kf~~~~~i~~W~vv~~~~~--~~~~~~~~F~~~L~~~~~~~Gm~i~~~~ 592 (697)
||||+|.|.|+++++ ..+.|.+|+|++++++|+.++.+++|++++++.. ++++.+++|++.|.+.|+.+||.+..+|
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 999999999997532 1346789999999999999999999999998742 4577899999999999999999998656
Q ss_pred cccccCCCchHHHHHHHHHHHHHhhccCCCCceEEEEEeCCCCchhhHHHHHHhhhccCceeeeeeccccccCChHHHHH
Q 005428 593 VIPIHNARPDQVEKALKHVYHSSMSKTKGKELELLLAILPDNNGSLYGDLKRICETDLGIISQCCLTKHVFKISKQYLAN 672 (697)
Q Consensus 593 ~~~~~~~~~~~~~~~L~~~~~~~~~~~~~~~~~lvlvIlp~~~~~~Y~~IK~~~d~~~GV~TQcv~~~t~~K~~~q~~~N 672 (697)
.+.......+.++..++.+.+. ..+++|||||||++ .++|+.||++||+++||+||||+.+++.|.++||++|
T Consensus 492 ~~~~~~~~~~~~~~~~~~l~~~------~~~~qlvl~Ilp~~-~~~Y~~IK~~~~~~~gI~TQcv~~~~~~k~~~q~~~n 564 (861)
T 4f3t_A 492 CFCKYAQGADSVEPMFRHLKNT------YAGLQLVVVILPGK-TPVYAEVKRVGDTVLGMATQCVQMKNVQRTTPQTLSN 564 (861)
T ss_dssp SEEEECCSSSSHHHHHHHHHHH------STTCCEEEEEESSS-CTHHHHHHHHHHHTSCCEEEEEETHHHHSCCHHHHHH
T ss_pred eEEEecCchHHHHHHHHHHHhh------cCCCcEEEEEeCCC-ccHHHHHHHHhcccCCcceEEEEecccccccHHHHHH
Confidence 5422222334455555544332 14689999999965 5789999999999999999999999999989999999
Q ss_pred HHHHHhccCCCcccccc--------cCCcccc
Q 005428 673 VSLKINVKVCLSFNSSV--------ELNTILC 696 (697)
Q Consensus 673 I~lKIN~KLGG~~n~~l--------~~~tmi~ 696 (697)
|+||||+||||+||..+ +.+||||
T Consensus 565 i~lKiN~KlGG~n~~l~~~~~~~~~~~~tmii 596 (861)
T 4f3t_A 565 LCLKINVKLGGVNNILLPQGRPPVFQQPVIFL 596 (861)
T ss_dssp HHHHHHHHTTCBCCEECSTTSCGGGGSCEEEE
T ss_pred HHHHHHHhcCCcceeccccccccccCCceEEE
Confidence 99999999999987432 2489986
No 2
>4f1n_A Kpago; argonaute, RNAI, RNAse H, RNA binding protein-RNA complex; 3.19A {Vanderwaltozyma polyspora}
Probab=100.00 E-value=2e-89 Score=810.53 Aligned_cols=553 Identities=18% Similarity=0.257 Sum_probs=418.4
Q ss_pred CCCcccCCCCCCCCCCCCEEEEEEEEEEeEcCCC---------------------CceEeEEEEecCCC-----------
Q 005428 124 SSKSLSFAPRPGYGQVGTKCIVKANHFFAELPDK---------------------DLNQYDVTITPEVA----------- 171 (697)
Q Consensus 124 ~~~~~~~~~RP~~Gt~G~~v~l~tN~F~i~~~~~---------------------~iy~Y~V~i~p~v~----------- 171 (697)
+.....+|.||+|||.|++|.|+||||.+.+++. .||+|+|+|.|+..
T Consensus 13 ~~~~~~~p~Rp~yGt~G~~v~l~aN~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Y~i~~~~~~~~~~~~~~~~~~ 92 (1046)
T 4f1n_A 13 THAIYKVENRHDYGTKGTKVDILTNHILLAVGNDVPTEKIDKELVPKLDGWWKTAFIFTYHIDFKPQQKGPPRRGKPVPP 92 (1046)
T ss_dssp CCCCCCCCBCCCCCCCSEEEEEEESEEEEECCTTSCTTTSCTTTSCCCCSTTTSCEEEEEEEEEC---------------
T ss_pred ccccccCCCCCCCCCCCcEEEEEeeEEEEecCCCccccccccccccccccccccceEEEEEEEEcccccccccccccCcc
Confidence 5567889999999999999999999999999443 79999999988533
Q ss_pred ---ChHHHHHHHHHHHHHhc-cCccCCCcceecCCceEEecCCCC---CCceeEEEEec-----cCCCC-----------
Q 005428 172 ---SRTVNRAIMAELVRLYK-ESDLGMRLPAYDGRKSLYTAGELP---FVWKEFKIKLV-----DELDG----------- 228 (697)
Q Consensus 172 ---~k~~~r~ii~~l~~~~~-~~~~~~~~~~yDG~~~LyS~~~L~---~~~~~~~v~l~-----~~~~~----------- 228 (697)
++.++++||.+|+++.. ...++. .+||||+++|||..+|+ .....|.|++. ++.++
T Consensus 93 ~~~~~~k~~~ii~~ll~e~~~~~~~~~-~ia~d~~~~L~s~~~L~~~~l~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~ 171 (1046)
T 4f1n_A 93 QELSKPKKYELIEALLDEDEILYKYRD-RIAFNGEDTIYSHVPLEEFTLFDGCWEVSNKQKKKVVPGMGAPSNKASLQKK 171 (1046)
T ss_dssp --CCHHHHHHHHHHHHHSCTTTGGGTT-SEEECSSSEEEESSCGGGSTTCTTCCC-------------------------
T ss_pred cccchhHHHHHHHHHHHhcchhhhcCC-ceeecCccceEECCcCCccccCCCceEEeccccccccCCccccccccccccc
Confidence 35678889999887621 112543 48999999999999999 33345667665 22221
Q ss_pred CCCCCCCcEEEEEEEEeeeechhhHHHHHcCCCCCCh-----hHHHHHHHHHHhccccCc---cccCC-ccccCCCC-CC
Q 005428 229 INGPKRVREYKVVIKFAARANMHHLGQFLAGKRADAP-----QEALQILDIVLRELSTKR---YCPIG-RSFFSPSI-RT 298 (697)
Q Consensus 229 ~~~~~~~~~~~V~Ik~~~~i~l~~L~~~l~~~~~~~~-----~~~~q~Lniilr~~~~~~---~~~~G-r~ff~~~~-~~ 298 (697)
.....+.+.|+|+|++++++++.+|.+|+.+...+.. .+.+++|++||.+.+... ..++| ++||..+. ..
T Consensus 172 ~~~~~~~~~~~V~i~~~~~i~l~dL~~~l~~~~~~~~~~~~~~~~i~aL~~il~~~~~~~~~~i~~vg~nkFF~~~~~~~ 251 (1046)
T 4f1n_A 172 IDPELEEMVSQITLKFSGKVGLKDIYNDTTTQDTEVQESRMSAIDKTCLLSLLGAKFMSTDDLIFQVQGNKFFIFNNFAK 251 (1046)
T ss_dssp ------CGGGGEEEEEEEEEEGGGGGSCSSCCCTTHHHHHHTCHHHHHHHHHHHHHHHCSSSCEEEETTTEEEECSTTCC
T ss_pred ccccccCceEEEEEEEeeecCHHHHHHHHcCCCccccccccchHHHHHHHHHHhhhhhhcCCceEEcCCcccccCCCCCc
Confidence 0012567789999999999999999999999876432 678999999999987433 24455 45775432 23
Q ss_pred cccCCCcEEEeeeeeeeEEeeCCeeEEEeeccccccccc-----------------ccHHHHHHHHhCCCc---------
Q 005428 299 PQRLGDGLESWCGFYQSIRPTQMGLSLNIDMASAAFIEP-----------------LPVIEFVAQLLGKDV--------- 352 (697)
Q Consensus 299 ~~~l~~Gle~~~Gf~~SvR~~~~~l~LniD~s~~~F~~~-----------------~~lld~i~~~~~~~~--------- 352 (697)
..++++|+|+|+|||+|||++.++|+||||+++++||++ ++|+|+|.++++..+
T Consensus 252 ~~~Lg~Gle~wrGffqSvRpa~~rLlLNvdvs~~aF~k~~~~~~~~~~~~~~~~~p~~lid~l~~~~~~~~~~~~~~~~~ 331 (1046)
T 4f1n_A 252 AIPFQIGGYLLQGFTVSLTHVYGGVALNTVSVPAPFIKHTKYLPGDPRFKNNEKEQFTLMDWIIECYHQSKAIRDIRYNP 331 (1046)
T ss_dssp EEECSSSEEEEEEEEEEEEEETTEEEEEEEEEEEEEECCSSSCTTSHHHHHCTTCCCCHHHHHHHHHHHHHHHHSSSCTT
T ss_pred cccCCCcEEEEEeEeeeEEecCCceEEEEeccceeEEeccccCcccccccccccCCccHHHHHHHHhccccccccccccc
Confidence 478999999999999999999999999999999999985 799999999875211
Q ss_pred -cCCCCChhHH-------HHHHHHhcCcEEEEeecCC------------ccceEEEecccCCCCcceEEeecCC------
Q 005428 353 -LSRTLSDSDR-------VKIKKALRGVKVEVTHRGT------------VRRKYRVSGLTSQPTRELVFPVDDN------ 406 (697)
Q Consensus 353 -~~r~l~~~~~-------~~i~~~LkglkV~~~~~~~------------~~r~~rI~~i~~~~a~~~~F~~~d~------ 406 (697)
..+.++..++ .+++++|+||+|+++|.+. ..+.++|.||+..++.+.+|+++++
T Consensus 332 ~~~~~~~~~d~~~f~~~~~kl~k~LKgLkV~vth~~~~~~~~g~~~~~~~~r~k~I~GLs~~~a~~~~F~~~~~~~~~~~ 411 (1046)
T 4f1n_A 332 KTAPPPSVKDLNYFVEKNTDISALLKGLKVYRPYINYSINKDGTPKPPRKRSSKGIVGFTRESAVSMRFNVLESSLKKNS 411 (1046)
T ss_dssp TTSCCCCSSHHHHHHHHCHHHHHHHTTCEECCTTCC--------------CCCEECCEECSSCSSSCC------------
T ss_pred cccCCCchhhhhhhhHHHHHHHHHhCCCEEEEEecCccccccccccccccccceEEeeccCCCCCceEEeccCCcccccc
Confidence 1233444454 7899999999999999641 1246999999998999999987543
Q ss_pred ----C---ceeeHHHHHHHHhCCcccCCCCcEEEeccCCcceeecccceEecCCccccccCCHHHHHHHHHHhcCCchhH
Q 005428 407 ----S---TMKSVVEYFQEMYGFTIQHTHLPCLQVGNQKKANYLPMEACKIVEGQRYTKRLNERQITALLKVTCQRPRDR 479 (697)
Q Consensus 407 ----g---~~iSV~dYF~~~Y~i~L~~p~lPlv~~g~~~~~~ylP~Elc~i~~gQr~~~~L~~~q~~~mik~a~~~P~eR 479 (697)
| ..+||+|||+++||++|+||+||||++|+. .+|||||||.|+|||+|+++|++ +++||++||++|.+|
T Consensus 412 ~~~~g~~~~~iTVadYFk~kYni~LkyP~LPcV~VG~~--~~ylPmElC~I~pGQr~~kKL~~--ts~MIKfAa~rP~eR 487 (1046)
T 4f1n_A 412 APKPNEKPININTIDYFKRKYDITLKYPDMKLVNLGGK--NDVVPPECLTIVPGQKLKGQIFD--TKTYIDFSAIRPTEK 487 (1046)
T ss_dssp -----------CHHHHHHHHSCCCCSCTTSCCEECSTT--TCEECGGGCCBCTTCBCCSCCCC--HHHHHHHHCCCHHHH
T ss_pred cccCCcCceEEEHHHHHHHHhCcccCCCCCCEEEECCC--CcccccceEEecCCccccccccc--HHHHHHHHccCcHHH
Confidence 1 578999999999999999999999999874 37999999999999999999987 479999999999999
Q ss_pred HHHHHHHHH-----hhcCCcchHHhhcCceecCcceEeeeeecCCCeeeeccCCCc-------cccCCcccccccCCcee
Q 005428 480 ENDILQTVQ-----QNAYDQDLYAKEFGIKISEKLASVEARILPAPWLKYHENGKE-------KDCLPQVGQWNMMNKKM 547 (697)
Q Consensus 480 ~~~I~~~~~-----~~~~~~~~~L~~fGi~I~~~~~~V~arvL~~P~I~y~~~~~~-------~~v~p~~g~Wnl~~~kf 547 (697)
++.|.+... .+..+.+++|++|| +|+.+|++|+||||+||.|.|+++... ....+.+|+|||++++|
T Consensus 488 ~~~I~~~~~~~~~~~l~~~~~~~l~~FG-~I~~~m~~V~gRVLppP~L~Yg~~~~~~~~~p~~~~~~p~~G~Wnm~~~kf 566 (1046)
T 4f1n_A 488 FDLISRLSMPAIKRGLTDSEKEESSAPH-NSAYQFMRVPSRILDAPVVQFKESTFEYKDKSYGTKHEESKGNWNMKGHQF 566 (1046)
T ss_dssp HHHHHHHHHHHHHHHTSCCC---------CCSSSCCEEEEEECCCCCEECSSCEECCCCCCSSSSGGGGTTBCCCTTCCC
T ss_pred HHHHHHHHHHhhhccccccccHhHHhcC-CccCceeeEEEEEcCCCeEeecCCcccccccccccccCccCCcccCCCCEE
Confidence 999998642 23345678999999 999999999999999999999874211 01345789999999999
Q ss_pred cCCcc-cceeEEEEeCCC------cCHHHHHHHHHHHHHHHHhcCCccCCC--Cccc---------ccCC----------
Q 005428 548 INGMT-VSRWACINFSRS------VQESVARGFCNELAQMCQVSGMEFNPE--PVIP---------IHNA---------- 599 (697)
Q Consensus 548 ~~~~~-i~~W~vv~~~~~------~~~~~~~~F~~~L~~~~~~~Gm~i~~~--~~~~---------~~~~---------- 599 (697)
+.++. +..|.++++... .....+++|++.|.+.|+.+||.+..+ |.+. +...
T Consensus 567 ~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~Gm~i~~~~~p~~~~~~~~~~~~~~~~~~~~r~~~~~ 646 (1046)
T 4f1n_A 567 ISTPAKQVNLRAIFINNANTAPPASMESELDISMDKFASDVKQLGVDFNVSGKPILINQFGPPIKKFQGGGRGGRGGRGS 646 (1046)
T ss_dssp SBCCSSCEEEEEEEEECSSSCCCGGGHHHHHHHHHHHHHHHHTTTCCEECCSCCEEEESCCSCBC---------------
T ss_pred ecCCcccceEEEEEEcCCCcccccccHHHHHHHHHHHHHHHHhcCCccCCCCCCcccccccccccccccccccccccccc
Confidence 99874 566666554321 134678999999999999999999763 3211 0000
Q ss_pred ----------------CchHHHHHHHHHHHHHhhccCCCCceEEEEEeCCC-CchhhHHHHHHhhhccCceeeeeecccc
Q 005428 600 ----------------RPDQVEKALKHVYHSSMSKTKGKELELLLAILPDN-NGSLYGDLKRICETDLGIISQCCLTKHV 662 (697)
Q Consensus 600 ----------------~~~~~~~~L~~~~~~~~~~~~~~~~~lvlvIlp~~-~~~~Y~~IK~~~d~~~GV~TQcv~~~t~ 662 (697)
...+.+..|.++++.+ ..++|||||||++ +.++|+.||++||+++||+||||+.+++
T Consensus 647 ~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~------~~~~lvl~Ilp~~~~~~~Y~~IK~~~d~~~gV~TQcv~~~t~ 720 (1046)
T 4f1n_A 647 RGGRGGRGAPSGPPTFETSPGEISLLNLLENI------PSNTYILYVLRRGNDSAVYDRLKYITDLKFGALNSCVVWDNF 720 (1046)
T ss_dssp -------------CCCBCCTTHHHHHHHHHTC------CTTEEEEEEESSSCCHHHHHHHHHHHTTTTCCCEEEEEHHHH
T ss_pred ccccccccccccccccccchHHHHHHHHHHhc------CCCCEEEEEecCCCCchHHHHHHHHhhccCCcccEEEehhhh
Confidence 0023455666666543 4689999999997 6789999999999999999999999999
Q ss_pred ccCChHHHHHHHHHHhccCCCccccc
Q 005428 663 FKISKQYLANVSLKINVKVCLSFNSS 688 (697)
Q Consensus 663 ~K~~~q~~~NI~lKIN~KLGG~~n~~ 688 (697)
.|.++||++||+||||+||||+||..
T Consensus 721 ~k~~~q~~~NI~lKiN~KLGG~n~~l 746 (1046)
T 4f1n_A 721 KKNSIQYNSNVVMKMNLKLLGSNHSL 746 (1046)
T ss_dssp TTCCHHHHHHHHHHHHHHTTCBCCEE
T ss_pred ccccHHHHHHHHHHHHHhcCCeeeec
Confidence 99999999999999999999998743
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=4e-50 Score=463.44 Aligned_cols=421 Identities=12% Similarity=0.067 Sum_probs=302.8
Q ss_pred ceecCCceEEecCCCCCCceeEEEEeccCCCCCCCCCCCcEEEEEEEEeeeechhhHHHHHcCCCCCChhHHHHHHHHHH
Q 005428 197 PAYDGRKSLYTAGELPFVWKEFKIKLVDELDGINGPKRVREYKVVIKFAARANMHHLGQFLAGKRADAPQEALQILDIVL 276 (697)
Q Consensus 197 ~~yDG~~~LyS~~~L~~~~~~~~v~l~~~~~~~~~~~~~~~~~V~Ik~~~~i~l~~L~~~l~~~~~~~~~~~~q~Lniil 276 (697)
+.|-...-.|+.++...+. .-.+.. .+. .|+|+++++++.- .-..+.+++|++++++
T Consensus 49 ~~~~~~~~~~~~~~~~~~~--~~~~~~----------~~~--~~~~~~~~~~~~~---------~~~~~~~~~~~~~~~~ 105 (706)
T 1yvu_A 49 PTFRREDEFWCAGKVEKDT--LYLTLS----------NGE--IVELKRVGEEEFR---------GFQNERECQELFRDFL 105 (706)
T ss_dssp CEEEETTEEEESSCCTTCC--CEEEEC----------SSS--CEEEEECCCEECC---------CCSCHHHHHHHHHHHH
T ss_pred ccccccccceeccccccce--EEEEcC----------CCC--EEEEEEEEEeecc---------CCCCCHHHHHHHHHHH
Confidence 4555556788988887653 233321 122 4669999988620 0125789999999999
Q ss_pred hccccCccccCCccccCCCCCCcccC---CCcEEEeeeeeeeEEeeC-CeeEEEeecccccccccccHHHHHHHHhCCCc
Q 005428 277 RELSTKRYCPIGRSFFSPSIRTPQRL---GDGLESWCGFYQSIRPTQ-MGLSLNIDMASAAFIEPLPVIEFVAQLLGKDV 352 (697)
Q Consensus 277 r~~~~~~~~~~Gr~ff~~~~~~~~~l---~~Gle~~~Gf~~SvR~~~-~~l~LniD~s~~~F~~~~~lld~i~~~~~~~~ 352 (697)
+.. ..++..+||+||++... ..+ .++||+|+||.+||+..+ ++++||+|++|+ |++..||+|+|.+ +...
T Consensus 106 ~~~-~l~~~~igr~~~~~~~~--~~i~~~~~~l~iwPG~~tsi~~~e~~~~~L~~DvshK-vlr~~Tvld~l~~-~~~~- 179 (706)
T 1yvu_A 106 TKT-KVKDKFISDFYKKFRDK--ITVQGKNRKIALIPEVNEKVLKSEEGYFLLHLDLKFR-IQPFETLQTLLER-NDFN- 179 (706)
T ss_dssp HHT-CHHHHHHHHHHHHHHHH--HEEECSSCEEEEEEEEEEEEEEBSSSCEEEEEEEEEE-EEESSCHHHHHHH-CCCC-
T ss_pred HHc-CChHhhhCccccCcccc--ccccCCCCcEEEccCeEEEEEeccCCCeEEEEEeeee-ecccchHHHHHHH-hhhc-
Confidence 988 56667899999998654 234 568999999999999998 999999999999 6999999999998 4321
Q ss_pred cCCCCChhHHHHHHHHhcCcEEEEeecCCccceE--EEecc-cCCCCcceEEeecCCCceeeHHHHHHHHhCCc------
Q 005428 353 LSRTLSDSDRVKIKKALRGVKVEVTHRGTVRRKY--RVSGL-TSQPTRELVFPVDDNSTMKSVVEYFQEMYGFT------ 423 (697)
Q Consensus 353 ~~r~l~~~~~~~i~~~LkglkV~~~~~~~~~r~~--rI~~i-~~~~a~~~~F~~~d~g~~iSV~dYF~~~Y~i~------ 423 (697)
+ ..+..+|. +.+| +|++| +|+.++.++|. + |..+| ||+++|++.
T Consensus 180 -----~-------------~~~~~~y~---n~ty~~riddi~~~~~~P~~~f~-~--g~~iS---Yyk~~~~~~q~ll~~ 232 (706)
T 1yvu_A 180 -----P-------------KRIRVKPI---GIDFVGRVQDVFKAKEKGEEFFR-L--CMERS---THKSSKKAWEELLKN 232 (706)
T ss_dssp -----C-------------TTCEEEET---TCCCCEEEEEEEESTTSCHHHHH-H--HHHTC---SSHHHHHHHHHHHHC
T ss_pred -----c-------------hhHHhhcc---cceeccccCcccccCCCcceEec-C--CCCcc---eEecccCcchhhhhc
Confidence 0 13556774 2358 99998 99999999997 2 45568 999988765
Q ss_pred --ccCCCCcEEEeccCCc-ceeecccceEecCCccccccCCHHHHHHHHHHhcCCchhHHHHHHHHHHhhcCCcchHHhh
Q 005428 424 --IQHTHLPCLQVGNQKK-ANYLPMEACKIVEGQRYTKRLNERQITALLKVTCQRPRDRENDILQTVQQNAYDQDLYAKE 500 (697)
Q Consensus 424 --L~~p~lPlv~~g~~~~-~~ylP~Elc~i~~gQr~~~~L~~~q~~~mik~a~~~P~eR~~~I~~~~~~~~~~~~~~L~~ 500 (697)
.+.+.+++++.+.+.. +.++++ ||.+ ++|+++|+++|+++|+.+|.+|.+.|.++++.+ ++.|++
T Consensus 233 r~~~~~~~~~~v~~~~~~p~~lL~p-lc~~-------t~Ltd~q~~~mik~t~~~P~~R~~~i~~~~~~~----~~~L~~ 300 (706)
T 1yvu_A 233 RELREKAFLVVLEKGYTYPATILKP-VLTY-------ENLEDEERNEVADIVRMEPGKRLNLIRYILRRY----VKALRD 300 (706)
T ss_dssp HHHHHHCEEEEETTSCEEEGGGEEE-CCCC-------C------HHHHTSTTSCCHHHHHHHHHHHHHHH----HHHHHT
T ss_pred cccccCCceEEeccCCCCCceeecc-cccc-------CCCCHHHHHHHHHHHccCHHHHHHHHHHHHHHH----HHHHHH
Confidence 4445555555433111 233443 6655 799999999999999999999999999988763 578999
Q ss_pred cCceecCcceEeeeeecCCCeeeeccCCCccccCCcccccccCCceecCCcccce---eEEEEeCCCcCHHHHHHHHHHH
Q 005428 501 FGIKISEKLASVEARILPAPWLKYHENGKEKDCLPQVGQWNMMNKKMINGMTVSR---WACINFSRSVQESVARGFCNEL 577 (697)
Q Consensus 501 fGi~I~~~~~~V~arvL~~P~I~y~~~~~~~~v~p~~g~Wnl~~~kf~~~~~i~~---W~vv~~~~~~~~~~~~~F~~~L 577 (697)
|||+|+++|++|+|||||+|.|.++.+..........|.|++.+ +|+.++.++. |++++..+ + ..+++|++.|
T Consensus 301 fGi~i~~~~~~v~gRVLp~P~i~~~~g~~~~~~~~~~~~~~~~~-~~~~~~~l~~~~lW~~i~~~~--~-~~~~~f~~~L 376 (706)
T 1yvu_A 301 YGWYISPEEERAKGKLNFKDTVLDAKGKNTKVITNLRKFLELCR-PFVKKDVLSVEIISVSVYKKL--E-WRKEEFLKEL 376 (706)
T ss_dssp TTEEECSSCEECCEECCCCCCEECSSCCEECCSSCCHHHHHHCC-CCCSCSEEEEEEEEEEC--------CHHHHHHHHH
T ss_pred cCCEECCceeecccEEcCCceeecCCCCcceeccCCcccccccC-ceecccccccceEEEEEecch--h-HHHHHHHHHH
Confidence 99999999999999999999998643321112223346677654 5778888888 85554332 2 2789999999
Q ss_pred HHHHHhcCCccCCCCcccccCCCchHHHHHHHHHHHHHhhccCCCCceEEEEEeCCC-------CchhhHHHHHHhhhcc
Q 005428 578 AQMCQVSGMEFNPEPVIPIHNARPDQVEKALKHVYHSSMSKTKGKELELLLAILPDN-------NGSLYGDLKRICETDL 650 (697)
Q Consensus 578 ~~~~~~~Gm~i~~~~~~~~~~~~~~~~~~~L~~~~~~~~~~~~~~~~~lvlvIlp~~-------~~~~Y~~IK~~~d~~~ 650 (697)
.+.|+.+||.++.++.......+.+++ ++.+.+.+. ...+++|+|||+|++ +.++|+.||++|+ ++
T Consensus 377 ~~~~~~~G~~i~~p~~~~~~~~~~~~~---~~~l~~~~~---~~~~~qlvlvIlp~~~~~~~~~~~~~Y~~IK~~~~-~~ 449 (706)
T 1yvu_A 377 INFLKNKGIKLKIKGKSLILAQTREEA---KEKLIPVIN---KIKDVDLVIVFLEEYPKVDPYKSFLLYDFVKRELL-KK 449 (706)
T ss_dssp HHHHHTTTCEEEEEEEEEEECSSTTHH---HHHHHHHHT---TTSSCSEEEEEEC----------CHHHHHHHHHHH-HT
T ss_pred HHHHHHcCceecCCccccccchhHHHH---HHHHHHHhc---ccCCCcEEEEEECCccccccccCccHHHHHHHHHh-cC
Confidence 999999999997653332223333333 443333221 125789999999998 7889999999966 89
Q ss_pred CceeeeeeccccccC-ChHHHHHHHHHHhccCCCcccccc---cCCcccc
Q 005428 651 GIISQCCLTKHVFKI-SKQYLANVSLKINVKVCLSFNSSV---ELNTILC 696 (697)
Q Consensus 651 GV~TQcv~~~t~~K~-~~q~~~NI~lKIN~KLGG~~n~~l---~~~tmi~ 696 (697)
||+||||..+++.+. ..|++.||+||||+||||+||... +.+||++
T Consensus 450 GI~TQcv~~~tl~~~~~~q~~~NI~lkiN~KLGG~nw~L~~~~~~~tmiI 499 (706)
T 1yvu_A 450 MIPSQVILNRTLKNENLKFVLLNVAEQVLAKTGNIPYKLKEIEGKVDAFV 499 (706)
T ss_dssp TCCCEEEEHHHHHHSCHHHHHHHHHHHHHHHTTCCSCEESCCTTCCSEEE
T ss_pred CCceEEEehhhccccchHHHHHHHHHHHHHHhCCeeeeeccCCCCceEEE
Confidence 999999999999774 579999999999999999998542 2478986
No 4
>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=1.1e-45 Score=426.07 Aligned_cols=464 Identities=13% Similarity=0.065 Sum_probs=309.9
Q ss_pred EEEEEEEEEEeEc---CCCCceEeEEEEecCCCChHHHHHHHHHHHHHhccCccCCCcceecCCce--EEecCCCCCCce
Q 005428 142 KCIVKANHFFAEL---PDKDLNQYDVTITPEVASRTVNRAIMAELVRLYKESDLGMRLPAYDGRKS--LYTAGELPFVWK 216 (697)
Q Consensus 142 ~v~l~tN~F~i~~---~~~~iy~Y~V~i~p~v~~k~~~r~ii~~l~~~~~~~~~~~~~~~yDG~~~--LyS~~~L~~~~~ 216 (697)
++.|.+|||+|.. |+ .+|+|+|+|.|+++.+ ++..++..+.+ .+| .++|||. . ||++++|+-
T Consensus 3 ~~~~~~n~~~~~~~~~~~-~~y~y~v~~~p~~~~~-~~~~~~~~~~~-----~~g--~~~fdg~-~~~l~~~~~l~~--- 69 (771)
T 1u04_A 3 KAIVVINLVKINKKIIPD-KIYVYRLFNDPEEELQ-KEGYSIYRLAY-----ENV--GIVIDPE-NLIIATTKELEY--- 69 (771)
T ss_dssp EEEEEBSEEEBCGGGSCS-CEEEEEC-------------CCHHHHHH-----HTT--EEEEETT-TTEEEESSCCCC---
T ss_pred ceEEEeeeEEEecccCCC-eeEEEEeecCChHHHH-HHHHHHHHHHh-----hcC--cEEecCc-ceeeeccceecc---
Confidence 6789999999986 66 9999999999999877 66666655543 455 5799997 6 999999861
Q ss_pred eEEEEeccCCCCCCCCCCCcEEEEEEEEeeeechhhHHHHHcCCCCCChhHHHHHHHHHHhccc-cCc-----cccCCcc
Q 005428 217 EFKIKLVDELDGINGPKRVREYKVVIKFAARANMHHLGQFLAGKRADAPQEALQILDIVLRELS-TKR-----YCPIGRS 290 (697)
Q Consensus 217 ~~~v~l~~~~~~~~~~~~~~~~~V~Ik~~~~i~l~~L~~~l~~~~~~~~~~~~q~Lniilr~~~-~~~-----~~~~Gr~ 290 (697)
.+..+.|+++.+++++ +|++|+++|... ..+ +..+||+
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
Confidence 1234777887776652 889999999987 444 7789999
Q ss_pred ccCCCCCCcccCCCcEEEeeeeeeeEEeeCCeeEEEeecccccccccccHHHHHHHHhCCCccCCCCChhHHHHHHHHhc
Q 005428 291 FFSPSIRTPQRLGDGLESWCGFYQSIRPTQMGLSLNIDMASAAFIEPLPVIEFVAQLLGKDVLSRTLSDSDRVKIKKALR 370 (697)
Q Consensus 291 ff~~~~~~~~~l~~Gle~~~Gf~~SvR~~~~~l~LniD~s~~~F~~~~~lld~i~~~~~~~~~~r~l~~~~~~~i~~~Lk 370 (697)
||++. .+ ..+++|+||.+||+..+++++|++|++|++ .+..||+|+|.+.. ...+.+.....
T Consensus 114 ~~~~~-----~~-~~~~~~~~~~tsi~~~e~~~ll~~di~hkv-~r~~t~~d~~~~~~-----------~~~~~~~~~~~ 175 (771)
T 1u04_A 114 FRKPK-----TF-GDYKVIPSVEMSVIKHDEDFYLVIHIIHQI-QSMKTLWELVNKDP-----------KELEEFLMTHK 175 (771)
T ss_dssp TSCCE-----EE-TTEEEEEEEEEEEEECSSCEEEEEEEEEEE-EESSCHHHHTTTCH-----------HHHHHHHHHST
T ss_pred cCCCc-----cc-cccEEEECceeeEEecCCceEEEEEeeeeE-eehhHHHHHHHHHH-----------HHHHHHHHhcc
Confidence 99872 33 468999999999999999999999999998 89999999987542 24455667778
Q ss_pred CcEEEEe--------ecCCccceEEEecccCCCCcce--EE---eecCC-CceeeHHHHHHHHhCCcccCCCCcEEEecc
Q 005428 371 GVKVEVT--------HRGTVRRKYRVSGLTSQPTREL--VF---PVDDN-STMKSVVEYFQEMYGFTIQHTHLPCLQVGN 436 (697)
Q Consensus 371 glkV~~~--------~~~~~~r~~rI~~i~~~~a~~~--~F---~~~d~-g~~iSV~dYF~~~Y~i~L~~p~lPlv~~g~ 436 (697)
|.-|.+. |..| ..+|++++ .++..+.+ +| ..+++ +++ ++.+||+++|++ ++++||+|++..
T Consensus 176 g~~~~~~~~~~~~~vy~~n-~~~Y~~~~-~~d~~~~~~~~~~~~~~~~~~~~~-~~~~~y~~~y~i--~d~~QPllvs~~ 250 (771)
T 1u04_A 176 ENLMLKDIASPLKTVYKPC-FEEYTKKP-KLDHNQEIVKYWYNYHIERYWNTP-EAKLEFYRKFGQ--VDLKQPAILAKF 250 (771)
T ss_dssp TTCEEEETTSTTCCEEEEC-BCTTSSCB-CEECCHHHHHHHHHHHHHHHCCSH-HHHHHHHHHHCS--CCTTSCEEEEEE
T ss_pred CcEEeeeccccceeEeecc-cceeecCC-ccccCCCChhheeceeecCCCCCc-chhHHHHHhcCc--CcCCCCeEEecc
Confidence 8877777 6322 23477776 66555554 55 53321 444 777777799995 899999999964
Q ss_pred C-------CcceeecccceEecCCccccccCCHHHHHHHHHHhcCCchhHHHHHHHHHHhh-----cCC--cchHHhhcC
Q 005428 437 Q-------KKANYLPMEACKIVEGQRYTKRLNERQITALLKVTCQRPRDRENDILQTVQQN-----AYD--QDLYAKEFG 502 (697)
Q Consensus 437 ~-------~~~~ylP~Elc~i~~gQr~~~~L~~~q~~~mik~a~~~P~eR~~~I~~~~~~~-----~~~--~~~~L~~fG 502 (697)
+ .+.+||.||||.+.. ...+++.+.+++|..++...|.+|.+.|.++++.+ .-+ ..+.|+.|+
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
Confidence 2 346899999999952 11234445556899999999999999999999887 322 224567777
Q ss_pred ceecCcceEeeeeecCCCeeeeccCCCccccCCcccccc--cCCceecCCcc----cce------eEEEEeCCCcCHHHH
Q 005428 503 IKISEKLASVEARILPAPWLKYHENGKEKDCLPQVGQWN--MMNKKMINGMT----VSR------WACINFSRSVQESVA 570 (697)
Q Consensus 503 i~I~~~~~~V~arvL~~P~I~y~~~~~~~~v~p~~g~Wn--l~~~kf~~~~~----i~~------W~vv~~~~~~~~~~~ 570 (697)
.++.. +.|.++++.+-.|..++- .....++|. +++.+++.+.. +++ |++++. + ....+
T Consensus 328 -~l~~~-~~v~~~~~~~~~i~~~~~-----~~~~~adW~~~~~~~~~~~~~~~p~~l~~~~~i~~wil~~~-~--~~~~~ 397 (771)
T 1u04_A 328 -ELENK-IRVRDDKGNSVPISQLNV-----QKSQLLLWTNYSRKYPVILPYEVPEKFRKIREIPMFIILDS-G--LLADI 397 (771)
T ss_dssp -GGGSS-EEEECSSSCEEESCCC-------------CGGGGSCCCCCCCCSBCCTHHHHCCCCCEEEEEET-T--SCHHH
T ss_pred -ccCcC-cccccccccccceeecCc-----CCCccCCcchhhCCCcceecccchhhhhcccccceEEEEeC-C--chHHH
Confidence 57766 777766665544444331 123468994 56667755442 444 665554 4 35677
Q ss_pred HHHH---------HHHHHHHHhcCCc---------cCCCC------cccccC--CCchHHHHHHHHHHHHHhhccCCCCc
Q 005428 571 RGFC---------NELAQMCQVSGME---------FNPEP------VIPIHN--ARPDQVEKALKHVYHSSMSKTKGKEL 624 (697)
Q Consensus 571 ~~F~---------~~L~~~~~~~Gm~---------i~~~~------~~~~~~--~~~~~~~~~L~~~~~~~~~~~~~~~~ 624 (697)
.+|+ +.|.++++.+|+. ++-|. ...+.. .+.+.++..++.+.+... +..+
T Consensus 398 ~~f~~~~f~~~~~~~l~~~~~~~~~~~~~~~~~~~i~~p~~~~~~~~~~i~~dl~~~~~i~~~l~~~~~~~~----~~~~ 473 (771)
T 1u04_A 398 QNFATNEFRELVKSMYYSLAKKYNSLAKKARSTNEIGLPFLDFRGKEKVITEDLNSDKGIIEVVEQVSSFMK----GKEL 473 (771)
T ss_dssp HHHHHHHHHHHHHHHCC-----------------------------CEEEEECTTSHHHHHHHHHHHHHHHT----TCSC
T ss_pred HHHHHHHhhhHHHHHHHHHhhcccchhhcccccccccCCCcccccCcceecccccchHHHHHHHHHHHHhcc----CCCC
Confidence 8888 5555555434332 22211 110111 122456777777766542 3467
Q ss_pred eEEEEEe-CCCCchhhHHHHHHhhhccCceeeeeeccccccC----C-----hHHHHHHHHHHhccCCCccccccc---C
Q 005428 625 ELLLAIL-PDNNGSLYGDLKRICETDLGIISQCCLTKHVFKI----S-----KQYLANVSLKINVKVCLSFNSSVE---L 691 (697)
Q Consensus 625 ~lvlvIl-p~~~~~~Y~~IK~~~d~~~GV~TQcv~~~t~~K~----~-----~q~~~NI~lKIN~KLGG~~n~~l~---~ 691 (697)
+|+||++ |.++.+.|+.||++| .+.||+||||..+|+.+. + .+++.||++|||+||||+||. |+ .
T Consensus 474 ~lvlv~l~~~~~~d~Y~~IK~~~-~~~gIpTQcV~~~Tl~~~~~k~~~~~l~~sia~NIalqIn~KLGG~pW~-L~~p~~ 551 (771)
T 1u04_A 474 GLAFIAARNKLSSEKFEEIKRRL-FNLNVISQVVNEDTLKNKRDKYDRNRLDLFVRHNLLFQVLSKLGVKYYV-LDYRFN 551 (771)
T ss_dssp EEEEEEECTTSCHHHHHHHHHHH-HHTTEEEEEEEHHHHHHCEETTEEEEECHHHHHHHHHHHHHHTTCBCCE-ESCCCS
T ss_pred CEEEEEEcCCCCcchHHHHHHHH-hcCCcccEEEecccccCccccccccchhHHHHHHHHHHHHHHhCCccee-ecCCCC
Confidence 9987777 455668999999998 799999999999998643 2 678999999999999999994 44 4
Q ss_pred Ccccc
Q 005428 692 NTILC 696 (697)
Q Consensus 692 ~tmi~ 696 (697)
+||+|
T Consensus 552 ~tmiI 556 (771)
T 1u04_A 552 YDYII 556 (771)
T ss_dssp SSEEE
T ss_pred CEEEE
Confidence 88886
No 5
>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=1.3e-38 Score=361.34 Aligned_cols=447 Identities=15% Similarity=0.131 Sum_probs=315.7
Q ss_pred EEEEEEEEEEeE-c--CCCCceEeEEEEecCCCChHHHHHHHHHHHHHhccCccCCCcceecCCceEEecCCCCCCc-ee
Q 005428 142 KCIVKANHFFAE-L--PDKDLNQYDVTITPEVASRTVNRAIMAELVRLYKESDLGMRLPAYDGRKSLYTAGELPFVW-KE 217 (697)
Q Consensus 142 ~v~l~tN~F~i~-~--~~~~iy~Y~V~i~p~v~~k~~~r~ii~~l~~~~~~~~~~~~~~~yDG~~~LyS~~~L~~~~-~~ 217 (697)
++.|.-|-|.+. + ++.+.|.|+|.+.|..+..++. .++..++.+ +|. ..+==| +.|.|.+. |..- .+
T Consensus 6 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~-----~~~-~~~~~~-~~~~~~~~-~~~~~~~ 76 (685)
T 3ho1_A 6 KTEVFLNRFALRPLNPEELRPWRLEVVLDPPPGREEVY-PLLAQVARR-----AGG-VTVRMG-DGLASWSP-PEVLVLE 76 (685)
T ss_dssp CEEEEEEEEEEEECCTTTSSCEEEEEEEESCCCTTTHH-HHHHHHHHH-----TCS-SEEEET-TEEEESSC-TTTSCCE
T ss_pred ceeEEEeeeecccCChhhCceeEEEEecCCCCCcchHH-HHHHHHHHH-----hCC-eEEeec-CceecccC-chhhhcc
Confidence 588999999997 4 6789999999999875544443 455566654 232 212223 48999887 4321 23
Q ss_pred EEEEeccCCCCCCCCCCCcEEEEEEEEeeeechhhHHHHHcCCCCCChhHHHHHHHHHHhcccc------CccccCCccc
Q 005428 218 FKIKLVDELDGINGPKRVREYKVVIKFAARANMHHLGQFLAGKRADAPQEALQILDIVLRELST------KRYCPIGRSF 291 (697)
Q Consensus 218 ~~v~l~~~~~~~~~~~~~~~~~V~Ik~~~~i~l~~L~~~l~~~~~~~~~~~~q~Lniilr~~~~------~~~~~~Gr~f 291 (697)
..+. . ......|.+.-.-...+|.. +..--++|+.+-|.... .....-|.-.
T Consensus 77 ~~~~--~-------~~~~~~~~~~~~~~~~~~~~-------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 134 (685)
T 3ho1_A 77 GTLA--R-------MGQTYAYRLYPKGRRPLDPK-------------DPGERSVLSALARRLLQERLRRLEGVWVEGLAV 134 (685)
T ss_dssp EEEE--C-------SSCEEEEEEEEEEECCCCTT-------------SHHHHHHHHHHHHHHHHHHHHTCSSSEEETTEE
T ss_pred chhc--c-------ccCCcceeeeecccccCCCC-------------ChHHHHHHHHHHHHHHHHHHHhhhceEEccEEE
Confidence 3331 1 12334455555555566642 22333444444333221 1221122222
Q ss_pred cCCCCCCcccCCCcEEEeeeeeeeEEeeC-CeeEEEeecccccccccccHHHHHHHHhCCCccCCCCChhHHHHHHHHhc
Q 005428 292 FSPSIRTPQRLGDGLESWCGFYQSIRPTQ-MGLSLNIDMASAAFIEPLPVIEFVAQLLGKDVLSRTLSDSDRVKIKKALR 370 (697)
Q Consensus 292 f~~~~~~~~~l~~Gle~~~Gf~~SvR~~~-~~l~LniD~s~~~F~~~~~lld~i~~~~~~~~~~r~l~~~~~~~i~~~Lk 370 (697)
+-.. ..-|.|.|+.+|+...|.+.. ++++|.||.++. ||++.++.+++++... |.
T Consensus 135 ~~~~----~~~~~~~~~~~g~~~~v~~~~~~~~~l~vd~~~r-~~~~~~~~~~l~~~~~-------------------~~ 190 (685)
T 3ho1_A 135 YRRE----HARGPGWRVLGGAVLDLWVSDSGAFLLEVDPAYR-ILCEMSLEAWLAQGHP-------------------LP 190 (685)
T ss_dssp EEEE----EEEETTEEEEEEEEEEEEECSSSEEEEEEEEEEE-EEECSCHHHHHHHSCC-------------------CC
T ss_pred Eeec----CCCCCceEEecceEEEEEECCCCcEEEEEeehee-ecChhhHHHHHHhCCC-------------------cc
Confidence 2111 233789999999999999997 999999999999 6999999999987432 33
Q ss_pred CcEEEEeecCCccceEEEecccCCCCcceEEeecCCCceeeHHHHHHHHhCCcccCCCCcEEEeccC----Cc-----ce
Q 005428 371 GVKVEVTHRGTVRRKYRVSGLTSQPTRELVFPVDDNSTMKSVVEYFQEMYGFTIQHTHLPCLQVGNQ----KK-----AN 441 (697)
Q Consensus 371 glkV~~~~~~~~~r~~rI~~i~~~~a~~~~F~~~d~g~~iSV~dYF~~~Y~i~L~~p~lPlv~~g~~----~~-----~~ 441 (697)
..|..+|+ .++|+|.+|+ +.+|++.|-. + .+|++||++++|.+ +.-++|+|+.-.+ ++ ..
T Consensus 191 -~~v~~~y~---~~~~~~~~~~-~~~p~~~~l~---~-~~s~~~y~~~k~~~--~~~~~~~vv~~~~~~~~~~~i~~~~~ 259 (685)
T 3ho1_A 191 -KRVRNAYD---RRTWELLRLG-EEDPKELPLP---G-GLSLLDYHASKGRL--QGREGGRVAWVADPKDPRKPIPHLTG 259 (685)
T ss_dssp -SEEEESSS---CCEECCCEEE-CCCTTCC----------CSTTTTTTTSTT--TTSCCCSEEEECSCC---CCEEEETT
T ss_pred -HHHhhhcc---cceEEEeecc-cCCchheecC---C-CccHHHHHhhcccc--cccCCceEEEEeccccCCCcceeeee
Confidence 57999996 3589999999 6778877762 2 46999999999887 8889999876432 22 35
Q ss_pred eecccceEecCCccccccCCHHHHHHHHHHhcCCchhHHHHHHHHHHhhcCCcchHHhhcCceecCcceEeeeeecCCCe
Q 005428 442 YLPMEACKIVEGQRYTKRLNERQITALLKVTCQRPRDRENDILQTVQQNAYDQDLYAKEFGIKISEKLASVEARILPAPW 521 (697)
Q Consensus 442 ylP~Elc~i~~gQr~~~~L~~~q~~~mik~a~~~P~eR~~~I~~~~~~~~~~~~~~L~~fGi~I~~~~~~V~arvL~~P~ 521 (697)
||.|||| + ..|++.+.. .++..+|.+|++.+.++++. +++.|||+ +++|++|+||+||+|+
T Consensus 260 ~l~p~l~-m-------~~l~~~~~~---~~trlsP~~R~~~l~~~~~~-------i~~~~Gl~-~~~~i~v~gRvLppp~ 320 (685)
T 3ho1_A 260 LLVPVLT-L-------EDLHEEEGS---LALSLPWEERRRRTREIASW-------IGRRLGLG-TPEAVRAQAYRLSIPK 320 (685)
T ss_dssp SEEEECC-T-------TTTSSCSSC---CCCCCCHHHHHHHHHHHHHH-------HHHTTCSC-CCEEEEEEEEECCCCC
T ss_pred eechHhH-H-------HHHhhhhhh---ccccCCHHHHHHHHHHHHHH-------HHHhcCCC-CCCcceEEEEEcCHHH
Confidence 8999999 7 467765543 68889999999999998654 57889998 9999999999999999
Q ss_pred eeeccCCCccccCCcccccccCCceecCCcccceeEEEEeCCCcCHHHHHHHHHHHHHHHHhcCCccCCCCcccccCCCc
Q 005428 522 LKYHENGKEKDCLPQVGQWNMMNKKMINGMTVSRWACINFSRSVQESVARGFCNELAQMCQVSGMEFNPEPVIPIHNARP 601 (697)
Q Consensus 522 I~y~~~~~~~~v~p~~g~Wnl~~~kf~~~~~i~~W~vv~~~~~~~~~~~~~F~~~L~~~~~~~Gm~i~~~~~~~~~~~~~ 601 (697)
| +++. .+ .+.|++.+..|+.++.. .|+++++.+. ...+++|++.|.+.|+.+||.++. +.. ...+
T Consensus 321 I-~g~~----~~---~~~~d~~~~~~~~~~~~-~~ail~l~~~--~~~~~~f~~~L~~va~~~G~~i~~-~~~---~~~~ 385 (685)
T 3ho1_A 321 L-MGRR----AV---SKPADALRVGFYRAQET-ALALLRLDGA--QGWPEFLRRALLRAFGASGASLRL-HTL---HAHP 385 (685)
T ss_dssp E-ESSS----BC---SSGGGHHHHCCSSCCCE-EEEEEECSSC--CSCCHHHHHHHHHHHHSSSSCEEE-EEC---CCCG
T ss_pred h-cCCC----Cc---CCchhhccCcceeccCc-eEEEEeccCc--hHHHHHHHHHHHHHHHhCCcEecc-cee---ecCC
Confidence 9 7642 11 24566666677777665 7999998863 356789999999999999999985 222 1112
Q ss_pred hHHHHHHHHHHHHHhhccCCCCceEEEEEeCCCCchhhHHHHHHhhhccCceeeeeeccccccCChHHHHHHHHHHhccC
Q 005428 602 DQVEKALKHVYHSSMSKTKGKELELLLAILPDNNGSLYGDLKRICETDLGIISQCCLTKHVFKISKQYLANVSLKINVKV 681 (697)
Q Consensus 602 ~~~~~~L~~~~~~~~~~~~~~~~~lvlvIlp~~~~~~Y~~IK~~~d~~~GV~TQcv~~~t~~K~~~q~~~NI~lKIN~KL 681 (697)
++.. .+.+++++.. ..++++||||+|++..+.|+.||++| .+.||+||||. +++.+...+++.||+||||+||
T Consensus 386 ~d~~-~~~~~l~~~~----~~~~qlvvvIlp~~~~~~y~~IKk~~-~~~GIpTQcV~-~tl~k~~~~ia~NIaLkINaKL 458 (685)
T 3ho1_A 386 SQGL-AFREALRKAK----EEGVQAVLVLTPPMAWEDRNRLKALL-LREGLPSQILN-VPLREEERHRWENALLGLLAKA 458 (685)
T ss_dssp GGTH-HHHHHHHHHH----HTTCCEEEEEESCCCHHHHHHHHHHH-HHTTCCEEEEE-SSCCTTCHHHHHHHHHHHHHHH
T ss_pred CchH-HHHHHHHHhh----hcCCCEEEEEECCCCccHHHHHHHHH-hcCCCccEEEe-cccccccHhHHHHHHHHHHHHh
Confidence 2111 2333333332 24799999999999989999999986 79999999999 8887777889999999999999
Q ss_pred CCccccccc---CCcccc
Q 005428 682 CLSFNSSVE---LNTILC 696 (697)
Q Consensus 682 GG~~n~~l~---~~tmi~ 696 (697)
||+||. |+ .+||+|
T Consensus 459 GG~pW~-L~~P~~~tmiI 475 (685)
T 3ho1_A 459 GLQVVA-LSGAYPAELAV 475 (685)
T ss_dssp TCCCCE-ECSCCSCSEEE
T ss_pred CCeeEE-ecCCCCCeEEE
Confidence 999984 44 478876
No 6
>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=1.7e-29 Score=238.36 Aligned_cols=145 Identities=72% Similarity=1.159 Sum_probs=129.0
Q ss_pred CceecCCcccceeEEEEeCCCcCHHHHHHHHHHHHHHHHhcCCccCCCCcccccCCCchHHHHHHHHHHHHHhhcc-CCC
Q 005428 544 NKKMINGMTVSRWACINFSRSVQESVARGFCNELAQMCQVSGMEFNPEPVIPIHNARPDQVEKALKHVYHSSMSKT-KGK 622 (697)
Q Consensus 544 ~~kf~~~~~i~~W~vv~~~~~~~~~~~~~F~~~L~~~~~~~Gm~i~~~~~~~~~~~~~~~~~~~L~~~~~~~~~~~-~~~ 622 (697)
+++|++|+.+++|++|++++..+++.+++|++.|.+.|+.+||.+++++.+.+...+++++++.|+++++++.+++ ++.
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 5689999999999999999766678899999999999999999999888776666678899999999988765432 135
Q ss_pred CceEEEEEeCCCCchhhHHHHHHhhhccCceeeeeeccccccCChHHHHHHHHHHhccCCCcccccc
Q 005428 623 ELELLLAILPDNNGSLYGDLKRICETDLGIISQCCLTKHVFKISKQYLANVSLKINVKVCLSFNSSV 689 (697)
Q Consensus 623 ~~~lvlvIlp~~~~~~Y~~IK~~~d~~~GV~TQcv~~~t~~K~~~q~~~NI~lKIN~KLGG~~n~~l 689 (697)
+++|||||||+++.++|+.||++||+++||+||||+.+++.|.++||++||+||||+||||+| |.|
T Consensus 82 ~~~lv~~il~~~~~~~Y~~iK~~~~~~~gi~tqcv~~~~~~k~~~q~~~nv~lKiN~KlGG~N-~~l 147 (147)
T 4g0x_A 82 EIDLLIVILPDNNGSLYGDLKRICETELGIVSQCCLTKHVFKMSKQYMANVALKINVKVGGRN-TVL 147 (147)
T ss_dssp CCCEEEEEECSSCTTHHHHHHHHCCCCCCCCEEEEEHHHHHHCCHHHHHHHHHHHHHHTTCEE-CCC
T ss_pred CCeEEEEEeCCCCccHHHHHHHHHccCCCcccEEechhhhcCCCHHHHHHHHHHHHHhhCccc-ccC
Confidence 799999999999888999999999999999999999999999899999999999999999995 654
No 7
>4g0o_A Protein argonaute 5; MID domain, small RNA 5' nucleotide recognition, gene regula; 2.19A {Arabidopsis thaliana}
Probab=99.95 E-value=8.9e-29 Score=231.14 Aligned_cols=138 Identities=46% Similarity=0.911 Sum_probs=122.0
Q ss_pred CceecCCcccceeEEEEeCCCcCHHHHHHHHHHHHHHHHhcCCccCCCCcccccCCCchHHHHHHHHHHHHHhhccCCCC
Q 005428 544 NKKMINGMTVSRWACINFSRSVQESVARGFCNELAQMCQVSGMEFNPEPVIPIHNARPDQVEKALKHVYHSSMSKTKGKE 623 (697)
Q Consensus 544 ~~kf~~~~~i~~W~vv~~~~~~~~~~~~~F~~~L~~~~~~~Gm~i~~~~~~~~~~~~~~~~~~~L~~~~~~~~~~~~~~~ 623 (697)
+++|+.|+.+++|+++++++..+++.+++|++.|.+.|+.+||.++++|.+.....++++++..|+++++++ .+
T Consensus 2 ~kkf~~~~~l~~W~vv~~~~~~~~~~~~~F~~~L~~~~~~~Gm~i~~p~~~~~~~~~~~~~e~~l~~~~~~~------~~ 75 (139)
T 4g0o_A 2 DKKMVNGAKVTSWTCVSFSTRIDRGLPQEFCKQLIGMCVSKGMEFKPQPAIPFISCPPEHIEEALLDIHKRA------PG 75 (139)
T ss_dssp CEEEEECCEECSEEEEECCSSSCTTHHHHHHHHHHHHHHHHTCEECSSCSSCCEECCGGGHHHHHHHHHHHC------TT
T ss_pred CCeEccCcccCeEEEEEccCCCCHHHHHHHHHHHHHHHHHcCCccCCCCEEeeecCCchhHHHHHHHHHHhc------CC
Confidence 578999999999999999755567889999999999999999999987766554456778888888877654 36
Q ss_pred ceEEEEEeCCCCchhhHHHHHHhhhccCceeeeeeccccccCChHHHHHHHHHHhccCCCcccccc
Q 005428 624 LELLLAILPDNNGSLYGDLKRICETDLGIISQCCLTKHVFKISKQYLANVSLKINVKVCLSFNSSV 689 (697)
Q Consensus 624 ~~lvlvIlp~~~~~~Y~~IK~~~d~~~GV~TQcv~~~t~~K~~~q~~~NI~lKIN~KLGG~~n~~l 689 (697)
++|+|||||+++.+ |+.||++||+++||+||||+.+++.|.++||++||+||||+||||+| |.|
T Consensus 76 ~qlv~~ilp~~~~~-Y~~iK~~~~~~~gi~tQcv~~~~~~k~~~q~~~nv~lKiN~KlGG~N-~~l 139 (139)
T 4g0o_A 76 LQLLIVILPDVTGS-YGKIKRICETELGIVSQCCQPRQVNKLNKQYMENVALKINVKTGGRN-TVL 139 (139)
T ss_dssp CSEEEEECCSSSSC-HHHHHCCCCCCCCCCEEEECHHHHHHTCHHHHHHHHHHHHHHTTCEE-EEC
T ss_pred CcEEEEEECCCCCc-HHHHHHHHhccCCcceEEechhhhcCCCHHHHHHHHHHHhhhhCccc-CcC
Confidence 89999999998887 99999999999999999999999999899999999999999999995 654
No 8
>1vyn_A Argonaute2; nucleic acid binding, RNA interference; NMR {Drosophila melanogaster} SCOP: b.34.14.1
Probab=99.95 E-value=4.7e-28 Score=227.08 Aligned_cols=138 Identities=28% Similarity=0.505 Sum_probs=97.0
Q ss_pred cccccHHHHHHHHhCCC-ccCCCCChhHHHHHHHHhcCcEEEEeecC---CccceEEEecccCCCCcceEEeecCCCcee
Q 005428 335 IEPLPVIEFVAQLLGKD-VLSRTLSDSDRVKIKKALRGVKVEVTHRG---TVRRKYRVSGLTSQPTRELVFPVDDNSTMK 410 (697)
Q Consensus 335 ~~~~~lld~i~~~~~~~-~~~r~l~~~~~~~i~~~LkglkV~~~~~~---~~~r~~rI~~i~~~~a~~~~F~~~d~g~~i 410 (697)
|+++||+||++++++.. ...+.+.+.++.+++++|+|++|.++|++ +.+++|+|.||++.++++.+|+.+ |.++
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 57899999999988432 11122346778899999999999999953 236789999999999999999853 5678
Q ss_pred eHHHHHHHHhCCcccCCCCcEEEeccCCcceeecccceEecCCccccccCCHHHHHHHHHHhcCC
Q 005428 411 SVVEYFQEMYGFTIQHTHLPCLQVGNQKKANYLPMEACKIVEGQRYTKRLNERQITALLKVTCQR 475 (697)
Q Consensus 411 SV~dYF~~~Y~i~L~~p~lPlv~~g~~~~~~ylP~Elc~i~~gQr~~~~L~~~q~~~mik~a~~~ 475 (697)
||+|||+++ |++|+||+||||++|.+.+++|||||||.|+|||+|+++|+++|+++||++||.+
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 9
>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=99.95 E-value=2e-27 Score=221.85 Aligned_cols=135 Identities=30% Similarity=0.505 Sum_probs=115.9
Q ss_pred CceecCCcccceeEEEEeCCC--cCHHHHHHHHHHHHHHHHhcCCccCCCCcccccCCCchHHHHHHHHHHHHHhhccCC
Q 005428 544 NKKMINGMTVSRWACINFSRS--VQESVARGFCNELAQMCQVSGMEFNPEPVIPIHNARPDQVEKALKHVYHSSMSKTKG 621 (697)
Q Consensus 544 ~~kf~~~~~i~~W~vv~~~~~--~~~~~~~~F~~~L~~~~~~~Gm~i~~~~~~~~~~~~~~~~~~~L~~~~~~~~~~~~~ 621 (697)
+++|+.|+.+++|++++++.. .+++.+++|++.|.+.|+.+||.+.++|.+.....++++++..++++.+..
T Consensus 2 ~kkf~~~~~l~~Wavv~~~~~r~~~~~~~~~F~~~L~~~~~~~Gm~i~~~p~~~~~~~~~~~v~~~~~~l~~~~------ 75 (138)
T 3luc_A 2 NKQFHTGIEIKVWAIACFAPQRQCTEVHLKSFTEQLRKISRDAGMPIQGQPCFCKYAQGADSVEPMFRHLKNTY------ 75 (138)
T ss_dssp -CCCCCCCCBCSEEEEECSCTTTSCHHHHHHHHHHHHHHHHHHTCCBCSSCSEEEECCSGGGHHHHHHHHHHHC------
T ss_pred cCeecCCcccceEEEEEecCcccccHHHHHHHHHHHHHHHHhcCCCCCCCCeeeecCCcHHHHHHHHHHHHhcC------
Confidence 678999999999999999742 477899999999999999999999887765544445667777777665431
Q ss_pred CCceEEEEEeCCCCchhhHHHHHHhhhccCceeeeeeccccccCChHHHHHHHHHHhccCCCcc
Q 005428 622 KELELLLAILPDNNGSLYGDLKRICETDLGIISQCCLTKHVFKISKQYLANVSLKINVKVCLSF 685 (697)
Q Consensus 622 ~~~~lvlvIlp~~~~~~Y~~IK~~~d~~~GV~TQcv~~~t~~K~~~q~~~NI~lKIN~KLGG~~ 685 (697)
.+++|||||||+ +.++|+.||++||+++||+||||+.+++.|.++||++||+||||+||||+|
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 568999999999999999999999999999899999999999999999984
No 10
>4g0m_A Protein argonaute 2; MID domain, small RNA 5' nucleotide recognition, gene regula; 2.31A {Arabidopsis thaliana}
Probab=99.94 E-value=1.9e-27 Score=225.14 Aligned_cols=144 Identities=30% Similarity=0.460 Sum_probs=109.4
Q ss_pred CceecCCcccceeEEEEeCCCcC-HHHHHHHHHHHHHHHHhcCCccCCCCccccc----CCCchHHHHHHHHHHHHHhhc
Q 005428 544 NKKMINGMTVSRWACINFSRSVQ-ESVARGFCNELAQMCQVSGMEFNPEPVIPIH----NARPDQVEKALKHVYHSSMSK 618 (697)
Q Consensus 544 ~~kf~~~~~i~~W~vv~~~~~~~-~~~~~~F~~~L~~~~~~~Gm~i~~~~~~~~~----~~~~~~~~~~L~~~~~~~~~~ 618 (697)
+++|++++.+++|+++++++... ...+++|++.|.+.|+.+||.+++|..+... ..+++++++.|+++++++..+
T Consensus 2 ~kkf~~~~~l~~Wavv~~~~~~~~~~~~~~f~~~l~~~~~~~Gm~i~~P~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~ 81 (150)
T 4g0m_A 2 KKGVTRGSIVKHWAVLDFTASERFNKMPNDFVDNLIDRCWRLGMQMEAPIVYKTSRMETLSNGNAIEELLRSVIDEASRK 81 (150)
T ss_dssp -------CEECSEEEEETTTTTSTTCCCTTHHHHHHHHHHHTTCEECCCSEEEECCGGGGGCHHHHHHHHHHHHHHHHHH
T ss_pred CCeECCCcccCeEEEEEecCCcchhHHHHHHHHHHHHHHHHcCCccCCCceeeccccccccCchHHHHHHHHHHHHHHHh
Confidence 56899999999999999986421 1378999999999999999999875443211 245778888999988876644
Q ss_pred cCCCCceEEEEEeCCCCchhhHHHHHHhhhccCceeeeeeccccccCChHHHHHHHHHHhccCCCcccccc
Q 005428 619 TKGKELELLLAILPDNNGSLYGDLKRICETDLGIISQCCLTKHVFKISKQYLANVSLKINVKVCLSFNSSV 689 (697)
Q Consensus 619 ~~~~~~~lvlvIlp~~~~~~Y~~IK~~~d~~~GV~TQcv~~~t~~K~~~q~~~NI~lKIN~KLGG~~n~~l 689 (697)
.++..++|+|||||+++. .|+.||++||+++||+||||+.+++.|.++||++||+||||+||||+| |.|
T Consensus 82 ~~~~~pqlv~~ilp~~~~-~Y~~iK~~~~~~~gi~tqcv~~~~~~k~~~q~~~nv~lkiN~KlGG~n-~~l 150 (150)
T 4g0m_A 82 HGGARPTLVLCAMSRKDD-GYKTLKWIAETKLGLVTQCFLTGPATKGGDQYRANLALKMNAKVGGSN-VEL 150 (150)
T ss_dssp TTTCCCCEEEEEESSCCT-HHHHHHHCCCCCSCCEEEEEEHHHHSSSCHHHHHHHHHHHHHHC--------
T ss_pred cCCCCCcEEEEEECCCCc-cHHHHHHHHhhccCcceEEeehhhccCCCHHHHHHHHHHHhhccCCcc-CcC
Confidence 333468999999999875 599999999999999999999999999999999999999999999995 553
No 11
>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=6.4e-25 Score=199.93 Aligned_cols=118 Identities=31% Similarity=0.559 Sum_probs=98.3
Q ss_pred ccccHHHHHHHHhCCC--ccCCCCChhHHHHHHHHhcCcEEEEeecC---CccceEEEecccCCCCcceEEeecCCCcee
Q 005428 336 EPLPVIEFVAQLLGKD--VLSRTLSDSDRVKIKKALRGVKVEVTHRG---TVRRKYRVSGLTSQPTRELVFPVDDNSTMK 410 (697)
Q Consensus 336 ~~~~lld~i~~~~~~~--~~~r~l~~~~~~~i~~~LkglkV~~~~~~---~~~r~~rI~~i~~~~a~~~~F~~~d~g~~i 410 (697)
++++|+|||++++... +..+.| +.++.+++++|+|++|.++|++ +.+++|+|.||++.++++.+|+.+ |..+
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 223557 5678899999999999999952 236789999999999999999963 6788
Q ss_pred eHHHHHHHHhCCcccCCCCcEEEeccCCcceeecccceEecCCcccc
Q 005428 411 SVVEYFQEMYGFTIQHTHLPCLQVGNQKKANYLPMEACKIVEGQRYT 457 (697)
Q Consensus 411 SV~dYF~~~Y~i~L~~p~lPlv~~g~~~~~~ylP~Elc~i~~gQr~~ 457 (697)
||+|||+++ |++|+||+||||++|...+++|||||||.|+|||+++
T Consensus 78 sV~~Yf~~~-~~~l~~p~lP~l~~g~~~~~~ylP~Elc~i~~gQ~~~ 123 (124)
T 3mj0_A 78 TIASYFHSR-NYPLKFPQLHCLNVGSSIKSILLPIELCSIEEGQALN 123 (124)
T ss_dssp EHHHHHHTT-TCCCSCSSSEEEECCBTTBCCEECGGGEEEEC-----
T ss_pred EHHHHHHHc-CCcccCCCCCeEeecCCCCceEecceeEEECCCCccC
Confidence 999999997 9999999999999998889999999999999999986
No 12
>2xfm_A MIWI, PIWI-like protein 1; RNA-protein complex, differentiation, RNA interference; HET: OMU; NMR {Mus musculus}
Probab=99.91 E-value=3.7e-25 Score=208.92 Aligned_cols=135 Identities=20% Similarity=0.313 Sum_probs=95.6
Q ss_pred ccccHHHHHHHHhCCCccCCCCChhHHHHHHHHhcCcEEEEeecCCccceEEEecccCCCCcceEEeecCCCceeeHHHH
Q 005428 336 EPLPVIEFVAQLLGKDVLSRTLSDSDRVKIKKALRGVKVEVTHRGTVRRKYRVSGLTSQPTRELVFPVDDNSTMKSVVEY 415 (697)
Q Consensus 336 ~~~~lld~i~~~~~~~~~~r~l~~~~~~~i~~~LkglkV~~~~~~~~~r~~rI~~i~~~~a~~~~F~~~d~g~~iSV~dY 415 (697)
+++||+|+|.++++.. ..+..+.++++.|+|++|.++|+ +++|+|.+|+|++++.++|+.++ |..+||+||
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---NKTYRVDDIDWDQNPKSTFKKAD-GSEVSFLEY 71 (150)
T ss_dssp CCCBHHHHHHHHHHHS-----CHHHHHHHHHHHHTTCEEEETTT---TEEEECCEEETTCCTTCCCCSSS-SCCCCHHHH
T ss_pred CCccHHHHHHHHHccc-----cchHHHHHHHHHhCCcEEEEeeC---CceEEeeecCCCCCccCeeecCC-CceeeHHHH
Confidence 4689999999987521 22456889999999999999995 46899999999999999998644 566899999
Q ss_pred HHHHhCCcccCCCCcEEEeccCC---------cceeecccceEecCCccccccCCHHHHHH------HHHHhcCCchhHH
Q 005428 416 FQEMYGFTIQHTHLPCLQVGNQK---------KANYLPMEACKIVEGQRYTKRLNERQITA------LLKVTCQRPRDRE 480 (697)
Q Consensus 416 F~~~Y~i~L~~p~lPlv~~g~~~---------~~~ylP~Elc~i~~gQr~~~~L~~~q~~~------mik~a~~~P~eR~ 480 (697)
|+++||++|+||+||||+++.+. +.+|||||||.|. +|+++|+++ |+++|+.+|.+|.
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 6699999999994 799999884 8899999999999
Q ss_pred HHHHHH
Q 005428 481 NDILQT 486 (697)
Q Consensus 481 ~~I~~~ 486 (697)
+.|.++
T Consensus 145 ~~i~~f 150 (150)
T 2xfm_A 145 REVGRL 150 (150)
T ss_dssp ------
T ss_pred HHHhcC
Confidence 988753
No 13
>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=99.90 E-value=6.1e-24 Score=198.97 Aligned_cols=132 Identities=17% Similarity=0.245 Sum_probs=90.3
Q ss_pred ccccHHHHHHHHhCCCccCCCCChhHHHHHHHHhcCcEEEEeecCCccceEEEecccCCCCcceEEeecCCCceeeHHHH
Q 005428 336 EPLPVIEFVAQLLGKDVLSRTLSDSDRVKIKKALRGVKVEVTHRGTVRRKYRVSGLTSQPTRELVFPVDDNSTMKSVVEY 415 (697)
Q Consensus 336 ~~~~lld~i~~~~~~~~~~r~l~~~~~~~i~~~LkglkV~~~~~~~~~r~~rI~~i~~~~a~~~~F~~~d~g~~iSV~dY 415 (697)
+..||+|+|.++.... .+..+.++++.|+|+.|.+.|+ ++.|+|.+|+|+.++..+|+.++ |..+||+||
T Consensus 1 r~~tvld~m~~~~~~~------~~~~~~~~~k~l~g~~V~t~yn---nk~YrI~~I~~~~~p~s~F~~~d-g~~iT~~eY 70 (148)
T 3qir_A 1 RNDCVLDVMHAIYQQN------KEHFQDECTKLLVGNIVITRYN---NRTYRIDDVDWNKTPKDSFTMSD-GKEITFLEY 70 (148)
T ss_dssp -CCCHHHHHHHHHHHH------HHHHHHHHHHHHTTCEEEETTT---CCEEECCEEETTCCTTSEEECTT-SCEEEHHHH
T ss_pred CcchHHHHHHHHHhhC------cHHHHHHHHHHcCCCEEEEccC---CcEEEEeeecCCCCcCccccCCC-CCcccHHHH
Confidence 3579999999875421 1356889999999999999995 36899999999999999999654 677899999
Q ss_pred HHHHhCCcccCCCCcEEEeccCC----------cceeecccceEecCCccccccCCHHHHH------HHHHHhcCCchhH
Q 005428 416 FQEMYGFTIQHTHLPCLQVGNQK----------KANYLPMEACKIVEGQRYTKRLNERQIT------ALLKVTCQRPRDR 479 (697)
Q Consensus 416 F~~~Y~i~L~~p~lPlv~~g~~~----------~~~ylP~Elc~i~~gQr~~~~L~~~q~~------~mik~a~~~P~eR 479 (697)
|+++|||.|+||+||||+++.+. +++|||||||.+ ++|++++++ +|+.+++..|.+|
T Consensus 71 f~~kY~i~I~~~~qPlL~~~~k~~~~~~~~~~~~~~yL~pELC~l-------tgLtd~~r~d~~~mk~l~~~tr~~P~~R 143 (148)
T 3qir_A 71 YSKNYGITVKEEDQPLLIHRPSERQDNHGMLLKGEILLLPELSFM-------TGIPEKMKKDFRAMKDLAQQINLSPKQH 143 (148)
T ss_dssp HHHHHCCCCSCTTCCEEEECCTTCCCC---CCSCCEEECGGGEEC-------C---------------------------
T ss_pred HHHHcCCeecCCCCceEEeecccccCCCCCCccceeeecHHHhhh-------cCCCHHHHhhhHHHHHHHHHHCCCHHHH
Confidence 99999999999999999998642 579999999999 489999987 6999999999999
Q ss_pred HHHHH
Q 005428 480 ENDIL 484 (697)
Q Consensus 480 ~~~I~ 484 (697)
...|+
T Consensus 144 ~~~l~ 148 (148)
T 3qir_A 144 HSALE 148 (148)
T ss_dssp -----
T ss_pred HHhhC
Confidence 88763
No 14
>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=99.88 E-value=4.1e-23 Score=224.27 Aligned_cols=146 Identities=18% Similarity=0.310 Sum_probs=113.6
Q ss_pred cCCceecC-CcccceeEEEEeCCCcCHHHHHHHHHHHHHHHHhcCCccCCCCc-c--cccCCCchHHHHHHHHHHHHHhh
Q 005428 542 MMNKKMIN-GMTVSRWACINFSRSVQESVARGFCNELAQMCQVSGMEFNPEPV-I--PIHNARPDQVEKALKHVYHSSMS 617 (697)
Q Consensus 542 l~~~kf~~-~~~i~~W~vv~~~~~~~~~~~~~F~~~L~~~~~~~Gm~i~~~~~-~--~~~~~~~~~~~~~L~~~~~~~~~ 617 (697)
+++++|++ ++.+++|+++++....+...+++|++.|.+.|+.+||.++.+.. + ...+...+.+ .+++...
T Consensus 2 ~~~~~f~~p~~~l~~W~vv~~~~~~~~~~~~~f~~~l~~~~~~~G~~i~~p~~~~~~~~~~~~~~~~--~~~~~~~---- 75 (388)
T 2yha_A 2 AMAVKVARPCRKIEKWTYLELKGSKANEGVPQAMTAFAEFLNRTGIPINPRFSPGMSMSVPGSEKEF--FAKVKEL---- 75 (388)
T ss_dssp ---CCCSBCCSCBCSEEEEEEECSSCCCCHHHHHHHHHHHHHHTTCCBCSCCCCCEEEECCSSHHHH--HHHHHHH----
T ss_pred CCCCEeccCCCcCCEEEEEEecCCCCHHHHHHHHHHHHHHHHHcCCEeCCCCCcceecCCCchHHHh--HHHHhhc----
Confidence 56789999 78999999999965335567899999999999999999987532 1 1112222222 2233221
Q ss_pred ccCCCCceEEEEEeCCCCchhhHHHHHHhhhccCceeeeeeccccccCChH--HHHHHHHHHhccCCCccccccc-----
Q 005428 618 KTKGKELELLLAILPDNNGSLYGDLKRICETDLGIISQCCLTKHVFKISKQ--YLANVSLKINVKVCLSFNSSVE----- 690 (697)
Q Consensus 618 ~~~~~~~~lvlvIlp~~~~~~Y~~IK~~~d~~~GV~TQcv~~~t~~K~~~q--~~~NI~lKIN~KLGG~~n~~l~----- 690 (697)
..+++|||||||+++.++|+.||++||+++||+||||+.+++.|.++| |++||+||||+||||+||....
T Consensus 76 ---~~~~~lvl~ilp~~~~~~Y~~iK~~~~~~~GI~TQcv~~~~~~k~~~q~s~~~NI~lKiN~KlGG~n~~l~~~~~~~ 152 (388)
T 2yha_A 76 ---MSSHQFVVVLLPRKDVAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQLGYFANVGLKVNLKFGGTNHNIKTPIPLL 152 (388)
T ss_dssp ---HHTCSEEEEEESSSCHHHHHHHHHHHHTTTCCEEEEEEHHHHHCSTTHHHHHHHHHHHHHHHTTCBCCCCCSCCHHH
T ss_pred ---cCCCeEEEEEECCCChhHHHHHHHHHhccCCCceEEEehhhhcCcCcHHHHHHHHHHHHHHHhCCcceecccccccc
Confidence 136899999999998889999999999999999999999999888888 9999999999999999874321
Q ss_pred --CCcccc
Q 005428 691 --LNTILC 696 (697)
Q Consensus 691 --~~tmi~ 696 (697)
.+|||+
T Consensus 153 ~~~~tmii 160 (388)
T 2yha_A 153 AKGKTMVV 160 (388)
T ss_dssp HTSCEEEE
T ss_pred CCCCEEEE
Confidence 379986
No 15
>2yhb_A QDE-2, post-transcriptional gene silencing protein QDE-2; RNA binding protein, argonaute, miRNA, siRNA; 3.65A {Neurospora crassa}
Probab=99.88 E-value=1.2e-22 Score=223.52 Aligned_cols=145 Identities=19% Similarity=0.337 Sum_probs=113.3
Q ss_pred cCCceecC-CcccceeEEEEeCCCcCHHHHHHHHHHHHHHHHhcCCccCCCCc---ccccCCCchHHHHHHHHHHHHHhh
Q 005428 542 MMNKKMIN-GMTVSRWACINFSRSVQESVARGFCNELAQMCQVSGMEFNPEPV---IPIHNARPDQVEKALKHVYHSSMS 617 (697)
Q Consensus 542 l~~~kf~~-~~~i~~W~vv~~~~~~~~~~~~~F~~~L~~~~~~~Gm~i~~~~~---~~~~~~~~~~~~~~L~~~~~~~~~ 617 (697)
+++++|++ ++.+++|+++++....+...+++|++.|.+.|+.+||.++.+.. +...+...+.+ .+++...
T Consensus 2 ~~~~~f~~p~~~l~~W~vv~~~~~~~~~~~~~f~~~l~~~~~~~G~~i~~p~~~~~~~~~~~~~~~~--~~~~~~~---- 75 (437)
T 2yhb_A 2 AMAVKVARPCRKIEKWTYLELKGSKANEGVPQAMTAFAEFLNRTGIPINPRFSPGMSMSVPGSEKEF--FAKVKEL---- 75 (437)
T ss_dssp ---CCCSBCCCCBCSEEEEEEECSSCCCCHHHHHHHHHHHHHHTTCCBCSCCCCCEEEECCSSHHHH--HHHHHHH----
T ss_pred CCCCEeccCCCcCCEEEEEEecCCCCHHHHHHHHHHHHHHHHHcCCEeCCCCCcceecCCCchHHHH--HHHHhhc----
Confidence 56788999 68999999999964335567899999999999999999987532 11222222222 2233221
Q ss_pred ccCCCCceEEEEEeCCCCchhhHHHHHHhhhccCceeeeeeccccccCChH--HHHHHHHHHhccCCCccccccc-----
Q 005428 618 KTKGKELELLLAILPDNNGSLYGDLKRICETDLGIISQCCLTKHVFKISKQ--YLANVSLKINVKVCLSFNSSVE----- 690 (697)
Q Consensus 618 ~~~~~~~~lvlvIlp~~~~~~Y~~IK~~~d~~~GV~TQcv~~~t~~K~~~q--~~~NI~lKIN~KLGG~~n~~l~----- 690 (697)
..+++|||||||+++.++|+.||++||+++||+||||..+++.|.++| |++||+||||+||||+||. |+
T Consensus 76 ---~~~~~lvl~ilp~~~~~~Y~~iK~~~~~~~gI~TQcv~~~~~~k~~~q~s~~~Ni~lKiN~KlGG~n~~-l~~~~~~ 151 (437)
T 2yhb_A 76 ---MSSHQFVVVLLPRKDVAIYNMVKRAADITFGVHTVCCVAEKFLSTKGQLGYFANVGLKVNLKFGGTNHN-IKTPIPL 151 (437)
T ss_dssp ---HHTCSEEEEEESSCCHHHHHHHHHHHHTTSCCEEEEEEHHHHHCSTTHHHHHHHHHHHHHHHTTCBCCC-CSSCCHH
T ss_pred ---cCCCcEEEEEECCCChhHHHHHHHHHhcccCcccEEEehhHhcCcccHHHHHHHHHHHHHHHhCCccee-ccccccc
Confidence 136899999999998889999999999999999999999999888888 9999999999999999884 43
Q ss_pred ---CCcccc
Q 005428 691 ---LNTILC 696 (697)
Q Consensus 691 ---~~tmi~ 696 (697)
.+|||+
T Consensus 152 ~~~~~tmii 160 (437)
T 2yhb_A 152 LAKGKTMVV 160 (437)
T ss_dssp HHTTCEEEE
T ss_pred cCCCCEEEE
Confidence 379986
No 16
>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=99.85 E-value=2.8e-21 Score=175.27 Aligned_cols=114 Identities=18% Similarity=0.309 Sum_probs=92.5
Q ss_pred ccHHHHHHHHhCCCccCCCCChhHHHHHHHHhcCcEEEEeecCCccceEEEecccCCCCcceEEeecCCCceeeHHHHHH
Q 005428 338 LPVIEFVAQLLGKDVLSRTLSDSDRVKIKKALRGVKVEVTHRGTVRRKYRVSGLTSQPTRELVFPVDDNSTMKSVVEYFQ 417 (697)
Q Consensus 338 ~~lld~i~~~~~~~~~~r~l~~~~~~~i~~~LkglkV~~~~~~~~~r~~rI~~i~~~~a~~~~F~~~d~g~~iSV~dYF~ 417 (697)
.||+|+|.++.... -....+.++.+.|+|+.|.+.|+ +++|+|.+|+|+.++.++|+.+ +|..+||+|||+
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 68999999875421 12457889999999999999996 3689999999999999999864 367889999999
Q ss_pred HHhCCcccCCCCcEEEeccCC---------cceeecccceEecCCccccccCCHHHHHH
Q 005428 418 EMYGFTIQHTHLPCLQVGNQK---------KANYLPMEACKIVEGQRYTKRLNERQITA 467 (697)
Q Consensus 418 ~~Y~i~L~~p~lPlv~~g~~~---------~~~ylP~Elc~i~~gQr~~~~L~~~q~~~ 467 (697)
++|||.|++|+||||+++.+. +.+|||||||.+ ++|+++++++
T Consensus 73 ~kY~i~I~~~~QPLL~~~~k~~~~~~~~~~~~iyLipELC~l-------tGltd~~r~d 124 (124)
T 3o7v_X 73 KQYNQEITDLKQPMLVSQPKRRRGPGGTLPGPAMLIPELCYL-------TGLTDKMRND 124 (124)
T ss_dssp HHHCCCCCCSSCCEEEECCC----------CCEEECGGGEEC-------CCCC------
T ss_pred HHhCceecCCCcceEEEeeecccCCCCCCcceEEechhheec-------cCCChHhccC
Confidence 999999999999999997532 579999999999 6999998763
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=99.83 E-value=5.1e-21 Score=216.60 Aligned_cols=130 Identities=28% Similarity=0.520 Sum_probs=102.1
Q ss_pred ecccccccccccHHHHHHHHhCCCccCCCCCh--hHHHHHHHHhcCcEEEEeecCC---ccceEEEecccCCCCcceEEe
Q 005428 328 DMASAAFIEPLPVIEFVAQLLGKDVLSRTLSD--SDRVKIKKALRGVKVEVTHRGT---VRRKYRVSGLTSQPTRELVFP 402 (697)
Q Consensus 328 D~s~~~F~~~~~lld~i~~~~~~~~~~r~l~~--~~~~~i~~~LkglkV~~~~~~~---~~r~~rI~~i~~~~a~~~~F~ 402 (697)
+...+.||++++|+|+|.+++...+ .+.+++ ..+.++.+.||||+|+++|.++ .+|.|+|.+|+..++.+.+|+
T Consensus 375 ~~~~~~~~~~~p~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~l~v~~~~~~~~~~~~~~~~i~~~~~~~~~~~~f~ 453 (509)
T 1r6z_P 375 DISHKSFPISMPMIEYLERFSLKAK-INNTTNLDYSRRFLEPFLRGINVVYTPPQSFQSAPRVYRVNGLSRAPASSETFE 453 (509)
T ss_dssp CSSCCCSSCEEEHHHHHHHHTTCSC-CCTTCCGGGGHHHHHHHHTTCEEEECCCGGGCCCCEEEECCEEEEEETTTCEEE
T ss_pred hhhhhccCCCccHHHHHHHHhhccc-cCCccccchhHHHHHHHhCCcEEEEecCCCccCCCCeEEEeeCCCCChhhcEec
Confidence 4456679999999999999974322 133443 3445699999999999999653 467899999999899999999
Q ss_pred ecCCCceeeHHHHHHHHhCCcccCCCCcEEEeccCCcceeecccceEecCCccccccCC
Q 005428 403 VDDNSTMKSVVEYFQEMYGFTIQHTHLPCLQVGNQKKANYLPMEACKIVEGQRYTKRLN 461 (697)
Q Consensus 403 ~~d~g~~iSV~dYF~~~Y~i~L~~p~lPlv~~g~~~~~~ylP~Elc~i~~gQr~~~~L~ 461 (697)
.+ +++|||+|||+ +||++|+||+||||++|+.++++|||||||.|+|||||+.+|+
T Consensus 454 ~~--~~~~sv~~yf~-~~~~~l~~p~lp~v~~~~~~~~~~~P~e~~~i~~~q~~~~~~~ 509 (509)
T 1r6z_P 454 HD--GKKVTIASYFH-SRNYPLKFPQLHCLNVGSSIKSILLPIELCSIEEGQALNRKDG 509 (509)
T ss_dssp ET--TEEEEHHHHHH-HTTCCCSCTTSEEEECSCTTSCCEECGGGEEEEC---------
T ss_pred cC--CeEEEHHHHHH-HcCCcccCCCCCeEecCCCCCCceecceeeEecCCccccccCC
Confidence 74 57899999999 7999999999999999998899999999999999999998885
No 18
>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=99.38 E-value=3.1e-14 Score=156.54 Aligned_cols=159 Identities=11% Similarity=-0.025 Sum_probs=93.2
Q ss_pred ecCCCeeeeccCCCcc-----ccCCcccccccCCceecCCccc--ceeEEEEeCCCcCHHHHHHHHHHHHHHHHhcCCcc
Q 005428 516 ILPAPWLKYHENGKEK-----DCLPQVGQWNMMNKKMINGMTV--SRWACINFSRSVQESVARGFCNELAQMCQVSGMEF 588 (697)
Q Consensus 516 vL~~P~I~y~~~~~~~-----~v~p~~g~Wnl~~~kf~~~~~i--~~W~vv~~~~~~~~~~~~~F~~~L~~~~~~~Gm~i 588 (697)
.|..|.+.|+.++... ..+|..| +++...+..... .+|++|+..+. .+.++.|.+.+.... ..++.+
T Consensus 5 ~~~ep~~~~~~~~~~~~~~~~~~~~~~g---l~~~gpy~~~~~~~~~w~vI~~~~~--~~~l~~l~~~~~~~~-g~~f~~ 78 (427)
T 2w42_A 5 KIVENGLTYRIGNGASVPISNTGELIKG---LRNYGPYEVPSLKYNQIALIHNNQF--SSLINQLKSQISSKI-DEVWHI 78 (427)
T ss_dssp ------CEEECGGGCEEESSCHHHHHHH---HHHHCCSBCCCCSSSEEEEEESCTT--CHHHHHHHHHHHHHH-HHTTCC
T ss_pred ccCCCcceeeccCCCcccccccCCHHHH---HHhcCCCccCCCCCCEEEEEECccc--HHHHHHHHHhhhhcC-CCceee
Confidence 3566778888322111 1222222 333334443333 78999998874 234444444443332 245555
Q ss_pred CCCCcccccCCCchHHHHHHHHHHHHHhhccCCCCceEEEEEe--------CCCCchhhHHHHHHhhhccCceeeeeecc
Q 005428 589 NPEPVIPIHNARPDQVEKALKHVYHSSMSKTKGKELELLLAIL--------PDNNGSLYGDLKRICETDLGIISQCCLTK 660 (697)
Q Consensus 589 ~~~~~~~~~~~~~~~~~~~L~~~~~~~~~~~~~~~~~lvlvIl--------p~~~~~~Y~~IK~~~d~~~GV~TQcv~~~ 660 (697)
..+. .+.+.|.+++.+.++. +++++|||+ |++....|. +|+ ++.++||+||||..+
T Consensus 79 ~~~~------~~~~~y~~~i~~~l~~--------~~~lvlvilp~~~~~~~~~~~~~~y~-~K~-~~~~~gvptQ~I~~~ 142 (427)
T 2w42_A 79 HNIN------ISEFIYDSPHFDSIKS--------QVDNAIDTGVDGIMLVLPEYNTPLYY-KLK-SYLINSIPSQFMRYD 142 (427)
T ss_dssp CSCE------EEEEECSSSSHHHHHH--------HHHHHHHHCCSEEEEEESSCCHHHHH-HHH-HHHHTTSCEEEEEGG
T ss_pred cCCc------CChHHHHHHHHHHhcC--------CCCEEEEEEEccccccCCCCCcchHH-HHH-HHhCCCcCcEEEEhh
Confidence 3321 1122333334433321 478899999 666655555 786 567999999999999
Q ss_pred ccccCChHH-HHHHHHHHhccCCCccccccc----CCcccc
Q 005428 661 HVFKISKQY-LANVSLKINVKVCLSFNSSVE----LNTILC 696 (697)
Q Consensus 661 t~~K~~~q~-~~NI~lKIN~KLGG~~n~~l~----~~tmi~ 696 (697)
|+.+.+.++ +.||++|||+||||+||.... .+||+|
T Consensus 143 tl~~~~~~~~~~nIalqi~~KlGG~pW~l~~~~~~~~~mii 183 (427)
T 2w42_A 143 ILSNRNLTFYVDNLLVQFVSKLGGKPWILNVDPEKGSDIII 183 (427)
T ss_dssp GCCTTTHHHHHHHHHHHHHHHTTCBCCEECCCTTSSCSEEE
T ss_pred hcccccchhHHHHHHHHHHHHhCCcceecccCCCCCCeEEE
Confidence 998766555 889999999999999995433 368876
No 19
>2qvw_A GLP_546_48378_50642; dicer, RNAI,pseudo-merohedral twin, hydrolase; 3.00A {Giardia intestinalis} PDB: 2ffl_A
Probab=98.63 E-value=1.9e-08 Score=117.19 Aligned_cols=84 Identities=20% Similarity=0.334 Sum_probs=70.7
Q ss_pred HHHHHhcCcEEEEeecCCccceEEEecccCCCCcceEEeecCCCceeeHHHHHHHHhCCcccCCCCcEEEeccC------
Q 005428 364 KIKKALRGVKVEVTHRGTVRRKYRVSGLTSQPTRELVFPVDDNSTMKSVVEYFQEMYGFTIQHTHLPCLQVGNQ------ 437 (697)
Q Consensus 364 ~i~~~LkglkV~~~~~~~~~r~~rI~~i~~~~a~~~~F~~~d~g~~iSV~dYF~~~Y~i~L~~p~lPlv~~g~~------ 437 (697)
.+.+.|.|..|.+.|++ +++|+|.+|+++.++.++|+.+ +..+|+.|||+++||++|++++||+|.+...
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 35678999999999963 4789999999999999999953 3668999999999999999999999998531
Q ss_pred ------------CcceeecccceEec
Q 005428 438 ------------KKANYLPMEACKIV 451 (697)
Q Consensus 438 ------------~~~~ylP~Elc~i~ 451 (697)
.+.++||||||.+.
T Consensus 227 r~~~~~~~~~~~~~~v~L~PELC~vt 252 (756)
T 2qvw_A 227 QIPAPGSWDDLAPKLRFLPPELCLLL 252 (756)
T ss_dssp CCCSTTC-CCSCSSCEEECTTTCEEC
T ss_pred ccccccccccCCccceeeCHHHheee
Confidence 12479999999994
No 20
>2l69_A Rossmann 2X3 fold protein; structural genomics, northeast structural genomics consortiu PSI-biology, protein structure initiative; NMR {Artificial gene}
Probab=31.58 E-value=56 Score=27.01 Aligned_cols=59 Identities=12% Similarity=0.370 Sum_probs=34.9
Q ss_pred eEEEEeCCCcCHHHHHHHHHHHHHHHHhcCCccCCCCcccccCCCchHHHHHHHHHHHHHhhccCCCCceEEEEEeCCC
Q 005428 556 WACINFSRSVQESVARGFCNELAQMCQVSGMEFNPEPVIPIHNARPDQVEKALKHVYHSSMSKTKGKELELLLAILPDN 634 (697)
Q Consensus 556 W~vv~~~~~~~~~~~~~F~~~L~~~~~~~Gm~i~~~~~~~~~~~~~~~~~~~L~~~~~~~~~~~~~~~~~lvlvIlp~~ 634 (697)
.++++|+. ++..++. |.+..+..|+.+.. + .+|.++.+.+.++.++ -+..++++++.|+
T Consensus 3 ivivvfst--deetlrk----fkdiikkngfkvrt-----v--rspqelkdsieelvkk-------ynativvvvvddk 61 (134)
T 2l69_A 3 IVIVVFST--DEETLRK----FKDIIKKNGFKVRT-----V--RSPQELKDSIEELVKK-------YNATIVVVVVDDK 61 (134)
T ss_dssp EEEEECCC--CHHHHHH----HHHHHHHTTCEEEE-----E--CSHHHHHHHHHHHTTC-------CCCEEEEEECSSH
T ss_pred EEEEEEeC--CHHHHHH----HHHHHHhcCceEEE-----e--cCHHHHHHHHHHHHHH-------hCCeEEEEEEccH
Confidence 45667776 4555554 45556677876532 1 2466666666665543 2567777777654
Done!