Query 001806
Match_columns 1010
No_of_seqs 288 out of 559
Neff 4.5
Searched_HMMs 29240
Date Tue Mar 26 16:19:01 2013
Command hhsearch -i /local_scratch/syshi/lefta3m/001806.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H1_1103-1106//hhsearch_pdb/001806hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3fqd_A Protein DHP1, 5'-3' exo 1.0 1 1 1641.0 50.4 691 1-713 115-872 (899)
2 3pie_A 5'->3' exoribonuclease 1.0 1 1 1394.4 46.9 557 1-611 94-664 (1155)
3 2y35_A LD22664P; hydrolase-DNA 1.0 1 1 1278.7 39.0 491 1-611 94-586 (1140)
4 1a76_A Flap endonuclease-1 pro 1.0 1 1 44.5 7.8 92 80-246 143-235 (326)
5 1b43_A Protein (FEN-1); nuclea 1.0 1 1 39.4 7.7 104 80-246 143-247 (340)
6 1rxw_A Flap structure-specific 1.0 1 1 36.7 8.2 114 80-258 142-255 (336)
7 1ul1_X Flap endonuclease-1; pr 1.0 1 1 33.3 8.3 94 81-246 149-242 (379)
8 2izo_A FEN1, flap structure-sp 1.0 1 1 32.5 7.8 105 80-247 140-245 (346)
9 3q8k_A Flap endonuclease 1; he 1.0 1 1 28.7 8.8 95 80-246 148-242 (341)
10 3ory_A Flap endonuclease 1; hy 1.0 1 1 28.4 8.6 134 47-259 138-272 (363)
No 1
>3fqd_A Protein DHP1, 5'-3' exoribonuclease 2; protein-protein complex, exonuclease, hydrolase, mRNA proces nuclease, nucleus, rRNA processing, transcription; 2.20A {Schizosaccharomyces pombe}
Probab=1.00 E-value=1 Score=1641.01 Aligned_cols=691 Identities=40% Similarity=0.706 Sum_probs=553.8
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC--CCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCC
Q ss_conf 911001111248987989999999999999808989999--888766555546775799999999999999984079997
Q 001806 1 MNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPK--SDSQVFDSNVITPGTEFMAVLSIALQYYIHLRLNNDPGW 78 (1010)
Q Consensus 1 MNQQRSRRFRSAkea~e~~~e~e~lr~e~~~eG~~lp~~--~~~~~fDSN~ITPGT~FM~~Ls~~L~yyI~~kln~Dp~W 78 (1010)
|||||+||||||+|++++.++.++++++++++| .+++. ...+.||||||||||+||.+|+.+|+|||+.||++||+|
T Consensus 115 mnQQRsRRfrsa~~~~~~~~~~~~~~~~~~~~g-~~~~~~~~~~~~fDsN~ITPGT~FM~~L~~~L~~~i~~kl~~dp~W 193 (899)
T 3fqd_A 115 MNQQRSRRFRSSREAALKEEELQAFIEEAKQQG-IPIDENATKKKSWDSNCITPGTPFMDTLAKSLRYYIINKLNSDPCW 193 (899)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-CCBCHHHHSCCCCCGGGSSTTSHHHHHHHHHHHHHHHHHHTSCGGG
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC-CCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf 899999888765545666778999999999669-9785322345677757518862999999999999999985268452
Q ss_pred CEEEEEECCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCEEEECCCHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCC
Q ss_conf 50199991999999725789999996015999999973899806814899884128850899220213689886443469
Q 001806 79 EKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCG 158 (1010)
Q Consensus 79 k~ikVIlSda~VPGEGEHKIMdfIR~qr~~p~ydPNt~HcIYGlDADLImLsLaTHEp~f~ILREeVf~p~~~~~C~lCg 158 (1010)
++++|||||++||||||||||+|||+||++|+|||||+|||||+|||||||||+||||||+||||+|++.. +
T Consensus 194 ~~~~VIlSd~~vPGEGEHKIm~fIR~~r~~p~ydpN~~HcIyGlDADLImL~LatHep~f~ILRE~v~~~~--------~ 265 (899)
T 3fqd_A 194 RNVRFILSDASVPGEGEHKIMEFIRSQRVKPEYDPNTHHVVYGLDADLIMLGLATHEPHFRVLREDVFFQQ--------G 265 (899)
T ss_dssp TTCEEEEECTTSCSCHHHHHHHHHHHHHTSTTSCTTCCEEEECCCTTHHHHHHHTTCSSEEEEEECCC------------
T ss_pred CCCEEEEECCCCCCCCHHHHHHHHHHHHCCCCCCCCCEEEEECCCCCHHHHHHHCCCCCEEEEEEECCCCC--------C
T ss_conf 45369980898899507999999999722788899981899756710767755406773699863112476--------7
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCCCC
Q ss_conf 89876422234000136877767886556899926643999999999881479999755035566678876532046777
Q 001806 159 QPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFL 238 (1010)
Q Consensus 159 Q~GH~~~~C~g~~k~k~ge~de~~~~~~~~~k~F~fl~I~vLREYL~~El~~~~~pF~~D~ERiIDDfVfLcFfvGNDFL 238 (1010)
|.||.+.+|.|..+. ++++++. .....++|+||||++|||||+.||.+++++|+||+|||||||||||||||||||
T Consensus 266 q~~~~~~~~~~~~k~--~~~~~~~--~~~~~~~f~~l~i~iLREYL~~E~~~~~~~f~~d~ERiIDDfVfmcFfvGNDFL 341 (899)
T 3fqd_A 266 STKKTKEERLGIKRL--DDVSETN--KVPVKKPFIWLNVSILREYLEVELYVPNLPFPFDLERAIDDWVFFIFFVGNDFL 341 (899)
T ss_dssp -----CTTTTTCCBT--TC------------CCEEEEEHHHHHHHHHHHHCCTTCSSCCCHHHHHHHHHHHGGGGCCSSS
T ss_pred CCCCCHHHHCCCCCC--CCCCCCC--CCCCCCCEEEEEHHHHHHHHHHHHCCCCCCCCCHHHHHHHHHHHHHHHHCCCCC
T ss_conf 566504331243344--5432223--555568628976899999999984466888872155534444555675376547
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC
Q ss_conf 99996322547599999999999853299314798346799999999988559999999999999999999999999713
Q 001806 239 PHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQRHAERIKREKAQARR 318 (1010)
Q Consensus 239 PhLPsLeIrEGaID~Li~~Ykk~l~~~ggYLTd~G~INL~rlq~fl~~La~~Ed~IF~kR~~~e~r~~e~~kr~k~~~~~ 318 (1010)
||||+|+|++||||+|+.+||++|+++|||||++|+|||+||+.||..||++|++||++|.+.++++.++.||++.+.+.
T Consensus 342 PhlP~l~I~egaid~L~~~Yk~~l~~~~gYlt~~G~inl~rl~~~l~~L~~~E~~iF~~r~~~e~~~~~~~krr~~~~~~ 421 (899)
T 3fqd_A 342 PHLPSLDIRDGAVERLTEIWRASLPHMGGYLTLDGSVNLARAEVILSAVGNQEDDIFKRLKQQEDRRNENYRRRQQRESN 421 (899)
T ss_dssp CCCTTCCGGGTHHHHHHHHHHHHHHHHSSCSEETTEECHHHHHHHHHHHHTTHHHHHHHHHHHHTTTC------------
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 99985675778499999999999887388550399985999999999999999999999999999999878777766665
Q ss_pred CCCC------CCCCC--CCC---CCC-------CCCCCCCCCCCCCCCCCCCCC-----------CCCCCCCCCC-CCCC
Q ss_conf 9999------89889--998---665-------433468877899999987541-----------1112347898-8889
Q 001806 319 GDDV------EPLAQ--PDS---LVP-------VSRFHGSRLASGPSPSPYQQS-----------ECVGRLDNGK-GTSG 368 (1010)
Q Consensus 319 ~~~~------~~~~~--~~~---~~p-------~~~f~~~~l~~~~~~~~~~~~-----------~~~~~~~n~~-~~~~ 368 (1010)
.... ..... +.. ..+ .....+......+...+.... ...+.+.|.. ....
T Consensus 422 ~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~n~~~~~~~ 501 (899)
T 3fqd_A 422 QESESYVDNVVIQRSVETQSTEVVTSSKSTSVDTKPPKKTQKIDAPAPVDLVNLSEKTSNRSLGATNRELINNRAANRLG 501 (899)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHCCHHHHHH
T ss_conf 43102332222223455321122332212332100023555556754455445432112221012213454211033310
Q ss_pred CCCCCCCCCCCCCHH-HHHHHHH-------CCCCCCCC-CC--------HHHHHHHHHHHHHH-------HC--CCCCCC
Q ss_conf 998755457886322-5788630-------37899962-01--------79999999999842-------02--457899
Q 001806 369 RPHKVPRLSSGATIG-AAIVEAE-------NSFETDPQ-EN--------KEEFKAKLKELLRD-------KS--DAFNSD 422 (1010)
Q Consensus 369 ~~~k~~r~s~~~~~~-~a~~~~e-------~~~~~~~~-~~--------~ee~k~~~k~~l~~-------k~--d~~~~~ 422 (1010)
..+.....+. .+.+ ++.+... .....+.. +. ..+......+.+.+ ++ +....+
T Consensus 502 ~~~~~~~~~~-~n~~~a~~lk~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 580 (899)
T 3fqd_A 502 LSREAAAVSS-VNKLAASALKAQLVSNETLQNVPLEDSIASSSAYEDTDSIESSTPVVHPIDTKVSNVGQKRKAPDSTEE 580 (899)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred HHHHHHHHCC-CCHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHCCCCCCCCCCCCCCCCCC
T ss_conf 2343322012-453588999987411354344543310001110001222111243112210110112334555554332
Q ss_pred CCCHHHHCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 94100101488406789999740999946799999999999997789998753067666555555798853112012256
Q 001806 423 NPEEDKVKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQ 502 (1010)
Q Consensus 423 ~~~eD~VkL~e~gyK~rYY~~KF~v~~~~di~~~r~~Vv~~YvEGL~WVL~YYYqGcpSW~WYYPYHYAPFaSDl~~l~~ 502 (1010)
.+.+|.|+|||+|||+|||++||+++..+ ++++++||++|||||||||+|||||||||+||||||||||||||+++.+
T Consensus 581 ~~~~d~v~l~e~g~K~rYY~~KF~~~~~d--~e~~~~v~~~YvEGL~WVL~YYYqGc~SW~WyYPYHYAPfaSD~~~~~~ 658 (899)
T 3fqd_A 581 NENTDTVRLYEPGYRERYYEQKFHISPDE--PEKIREAVKHYVHGLCWVLLYYYQGCPSWTWYYPYHYAPFAADFKDLAS 658 (899)
T ss_dssp ----CCSCTTSTTHHHHHHHHTSCCCTTC--THHHHHHHHHHHHHHHHHHHHHHTCCSCSSCCCCCSSCCCGGGCCSCTT
T ss_pred CCCHHHHHHCCCCHHHHHHHHHCCCCCCC--HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHCCC
T ss_conf 45024466436526788899855998898--9999999999888888899877089878766674655626888860646
Q ss_pred CCCCCCCCCCCCHHHHHHHCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCEEEEEECCCCCHHHHHHH
Q ss_conf 33210579999816566613886545889588785325999988546888610158897431000221368896789999
Q 001806 503 FNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDE 582 (1010)
Q Consensus 503 ~~i~Fe~G~Pf~PfEQLMsVLPaaS~~~LP~~~r~LMtdp~SpIiDFYP~dF~IDlNGKk~~WQGVaLLPFIDe~rLl~a 582 (1010)
++|+|++|+||+|||||||||||+|+++||++|++||+||+|||+||||+||+|||||||++||||||||||||+|||+|
T Consensus 659 ~~i~Fe~G~PF~PfEQLMaVLPaaS~~~LP~~y~~LMtdp~SpIiDFYP~dFeiDmNGKk~~WqgVvlLPFIDE~RLL~A 738 (899)
T 3fqd_A 659 IDVKFELNQPFKPYEQLLGVLPAASKNNLPEKLQTLMTDENSEIIDFYPENFTIDLNGKKFEWQGVALLPFIDENRLLNA 738 (899)
T ss_dssp CCCCCCCCCCCCHHHHHHHHCCGGGGGGSCHHHHHHHHCTTCTTGGGCCSCCCEECSSSSCTTSSEECCCCCCHHHHHHH
T ss_pred CCEECCCCCCCCHHHHHHHHCCHHHHCCCCHHHHHHHCCCCCCCHHHCCCCCCCCCCCCCCCCCEEEECCCCCHHHHHHH
T ss_conf 74004789989859988863677563716198998736999710654954302368898355013786685688999999
Q ss_pred HHHHHCCCCHHHHHHCCCCCCEEEEECCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 98631599999996134898389972389730446545677543212333323103696767984221137999999992
Q 001806 583 VKKIEHTLTEEEARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPV 662 (1010)
Q Consensus 583 ~~~~~~~LT~eE~~RN~~g~d~Lfv~~~~~l~~~i~~l~~~~~~~~~~~~~~~~~~i~p~~s~Gl~G~i~~~~~~~~~~~ 662 (1010)
|++++++||+||++||++|.++||++++|++++.+ ++.+|++++...+++|||++|+||+|+|++++.+.++++
T Consensus 739 ~~~~~~~LT~eEk~RN~~G~~~lf~~~~~~l~~~~------~~~~y~~~~~~~~~~~~~~~s~gl~G~v~~~~~~~p~~~ 812 (899)
T 3fqd_A 739 VSKIYPQLTEEESKRNEDGSTLLFISEHHPMFSEL------VKQLYSKKRQGKPLKLSGKMAHGLFGKVNTNDSVIPNVS 812 (899)
T ss_dssp HHTTGGGSCHHHHHTTSCCCCEEEEETTSTTHHHH------HHHHTSSSCSSSCEECCGGGGTTCCSEEEECTTSCSCCC
T ss_pred HHHHHCCCCHHHHHHCCCCCCEEEEECCCCHHHHH------HHHHCCCCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCE
T ss_conf 99865529999997546798679986898408899------998503556675304480003576317884777588885
Q ss_pred CCCCCC--CCCC------CCCCEEEEEEEECCC-CCCCCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 147899--8867------668906999960899-99987679999876787899555799
Q 001806 663 FRSPVA--SMED------IMGNQVLCAIYKLPD-AHKHVTRPPAGVIFPKKIVQLEDLKP 713 (1010)
Q Consensus 663 ~~sPi~--~l~d------I~~n~~i~~~y~~P~-~~~h~s~ll~g~~~p~~~l~~~d~~~ 713 (1010)
+.||+. +|+| |.+|+++|+.|++|+ .+.|+||||+||++|+++|++.|++.
T Consensus 813 ~~sP~~~~~~~~~~~~~~i~~n~~~~~~y~~P~~~~~~~s~lL~g~~~p~~~l~~~D~~~ 872 (899)
T 3fqd_A 813 VQCPIDVTSADALQKYGSIDDNQSISLVFEVPKSHFVHKSMLLRGVKMPNRVLTPEDINQ 872 (899)
T ss_dssp BCCSSCCCSHHHHHHSCCBSSCCEEEEEEECCCCSSCCCCSCCTTCCCCCCCCCHHHHHH
T ss_pred ECCCCCCCCCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCHHHHHH
T ss_conf 518987467998545664158817999986888788867747999888989799889899
No 2
>3pie_A 5'->3' exoribonuclease (XRN1); beta berrel, tudor domain, chromo domain, mRNA turnover, RRN processing, RNA binding, DNA binding; 2.90A {Kluyveromyces lactis} PDB: 3pif_A
Probab=1.00 E-value=1 Score=1394.43 Aligned_cols=557 Identities=36% Similarity=0.665 Sum_probs=417.7
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCE
Q ss_conf 91100111124898798999999999999980898999988876655554677579999999999999998407999750
Q 001806 1 MNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVFDSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEK 80 (1010)
Q Consensus 1 MNQQRSRRFRSAkea~e~~~e~e~lr~e~~~eG~~lp~~~~~~~fDSN~ITPGT~FM~~Ls~~L~yyI~~kln~Dp~Wk~ 80 (1010)
|||||+||||||+|++++. ++..++|..+|. .+.||||||||||+||.+|+.+|+|||+.|+++||.|++
T Consensus 94 mnqQR~RRfrsa~~~~~~~-------~~~~~~g~~~~~---~~~fdsn~ITPGT~FM~~L~~~L~~~i~~k~~~d~~w~~ 163 (1155)
T 3pie_A 94 MNQQRARRFRTAMDAEKAL-------QKAIENGDELPK---GEPFDSNAITPGTEFMAKLTENLKYFIHDKITNDTRWQN 163 (1155)
T ss_pred HHHHHHHHHHHHHHHHHHH-------HHHHHCCCCCCC---CCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCC
T ss_conf 8898988877653315779-------999861876775---556664611688489999999999999997107867465
Q ss_pred EEEEECCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCEEEECCCHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCCC
Q ss_conf 19999199999972578999999601599999997389980681489988412885089922021368988644346989
Q 001806 81 IKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQP 160 (1010)
Q Consensus 81 ikVIlSda~VPGEGEHKIMdfIR~qr~~p~ydPNt~HcIYGlDADLImLsLaTHEp~f~ILREeVf~p~~~~~C~lCgQ~ 160 (1010)
++|||||++||||||||||+|||++|++|+|||||+|||||+|||||||||+||||||+||||+|++..+.+.
T Consensus 164 ~~vi~S~~~vPGEGEhKIm~~IR~~r~~p~y~pn~~H~IyG~DADLImL~L~thep~f~iLRe~v~f~~~~~~------- 236 (1155)
T 3pie_A 164 VKVIFSGHEVPGEGQHKIMDYIRAIRAQEDYNPNTRHCIYGLDADLIILGLSTHDHHFCLLREEVTFGKRSSS------- 236 (1155)
T ss_pred CEEEEECCCCCCCCHHHHHHHHHHHCCCCCCCCCCEEEEECCCHHHHHHHHCCCCCCEEEEEECCCCCCCCCC-------
T ss_conf 4899969998996189999999985027998999808996437638876640588747998500014766556-------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEHHHHHHHHHHHHCC--CCCCCCCCHHHHHHHHHHHHHHCCCCCC
Q ss_conf 87642223400013687776788655689992664399999999988147--9999755035566678876532046777
Q 001806 161 GHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRI--PNPPFEIDLECIVDDFIFMCFFVGNDFL 238 (1010)
Q Consensus 161 GH~~~~C~g~~k~k~ge~de~~~~~~~~~k~F~fl~I~vLREYL~~El~~--~~~pF~~D~ERiIDDfVfLcFfvGNDFL 238 (1010)
+ .....++|+||||++|||||+.||.. +.++|++|+|||||||||||||||||||
T Consensus 237 -----------~------------~~~~~~~f~~l~i~~LREyL~~ef~~~~~~~~~~~d~ERiiDDfVflcf~vGNDFL 293 (1155)
T 3pie_A 237 -----------V------------KTLETQNFFLLHLSILREYLALEFEEITDSVQFEYDFERVLDDFIFVLFTIGNDFL 293 (1155)
T ss_pred -----------C------------CCCCCCCEEEEEHHHHHHHHHHHHHHHCCCCCCCCCHHHHHCCEEEEHHHHCCCCC
T ss_conf -----------6------------66455870999889999999999986341568876576742462454064186258
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HH--HHH
Q ss_conf 9999632254759999999999985329931479834679999999998855999999999999999999---99--999
Q 001806 239 PHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQRHAER---IK--REK 313 (1010)
Q Consensus 239 PhLPsLeIrEGaID~Li~~Ykk~l~~~ggYLTd~G~INL~rlq~fl~~La~~Ed~IF~kR~~~e~r~~e~---~k--r~k 313 (1010)
||||+|+|++||||.|+.+||+.|+++|||||++|+|||+||+.||..|+++|++||++|...++....+ +. ..+
T Consensus 294 PhlP~l~I~~g~i~~L~~~Yk~~l~~~~gYlt~~G~inl~rl~~~l~~L~~~E~~~F~~~~~d~~~~~~k~~~~~~~~~~ 373 (1155)
T 3pie_A 294 PNLPDLHLKKGAFPVLLQTFKEALQHMDGYINEQGKINLARFSIWLKYLSDFEYLNFEKKDIDVEWFNQQLENISLEGER 373 (1155)
T ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHCCCEECCCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 99985685888199999999998876388350498983999999999999999999888765789887766532346677
Q ss_pred HHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC-CCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCC
Q ss_conf 99713999989889998665433468877899999987541111-23478988889998755457886322578863037
Q 001806 314 AQARRGDDVEPLAQPDSLVPVSRFHGSRLASGPSPSPYQQSECV-GRLDNGKGTSGRPHKVPRLSSGATIGAAIVEAENS 392 (1010)
Q Consensus 314 ~~~~~~~~~~~~~~~~~~~p~~~f~~~~l~~~~~~~~~~~~~~~-~~~~n~~~~~~~~~k~~r~s~~~~~~~a~~~~e~~ 392 (1010)
.+.+.++......+.+....+..+.. ...+...+......... .... ++......+...+ ..+ .+...
T Consensus 374 ~r~~~~~~~~~~~q~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~-~~~~~~~~~~~~~-------~~a-~~~~~- 442 (1155)
T 3pie_A 374 KRTRMGKKLLMKQQKKLIGAVKPWLL-KTVQRKVTSELQDADFEIFPLE-DKELVRANLDFLK-------EFA-FDLGL- 442 (1155)
T ss_pred HHHHHCCCCCCHHHHHHHHCCCHHHH-CCCCCCCCCCCCCCCCCCCCCC-CHHHHHHHHHHHH-------HHH-HHHCC-
T ss_conf 76541332111567766511220220-1334455555542224444567-3023455489999-------998-75211-
Q ss_pred CCCCCCCCHHH--HHHHHHHHHHHHCCC-CCCC---CCCHHHHCCCCCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHH
Q ss_conf 89996201799--999999998420245-7899---94100101488406789999740999946799999999999997
Q 001806 393 FETDPQENKEE--FKAKLKELLRDKSDA-FNSD---NPEEDKVKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRYTE 466 (1010)
Q Consensus 393 ~~~~~~~~~ee--~k~~~k~~l~~k~d~-~~~~---~~~eD~VkL~e~gyK~rYY~~KF~v~~~~di~~~r~~Vv~~YvE 466 (1010)
.... ....+. ++..+.......++. .+.+ ...++.+..+.++||+|||++||+++.. + ++++++||++|||
T Consensus 443 ~~~~-~~~~~~~~~~~~~~~~~~~~~~ee~~~~~~~~~~~~~~~~~~~~~k~rYY~~Kf~~~~~-~-~e~~~~v~~~Yve 519 (1155)
T 3pie_A 443 ILAH-SKSKDLYYFKLDLDSINXXXXXXXXXXXXXXXXXXXIYSERFVEWKDQYYKDKLDFSIN-D-TDSLKEMTENYVG 519 (1155)
T ss_pred CCCC-CCCCCCCCEECCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCCCC-C-HHHHHHHHHHHHH
T ss_conf 2234-45554321001455554321111111111111100000000024789999986299868-8-9999999999888
Q ss_pred HHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCCHHHHHHHCCCCCCC
Q ss_conf 78999875306766655555579885311201225633210579999816566613886545889588785325999988
Q 001806 467 GLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPI 546 (1010)
Q Consensus 467 GL~WVL~YYYqGcpSW~WYYPYHYAPFaSDl~~l~~~~i~Fe~G~Pf~PfEQLMsVLPaaS~~~LP~~~r~LMtdp~SpI 546 (1010)
||||||+|||+|||||+||||||||||||||+++.+++|+|++|+||+|||||||||||+|+++||++|++||+||+|||
T Consensus 520 GL~WVL~YYy~Gc~SW~WyYPYHYAPfasDl~~~~~~~i~F~~g~Pf~PfeQLm~VLP~~S~~~LP~~~~~LM~d~~SpI 599 (1155)
T 3pie_A 520 GLQWVLYYYYRGCPSWSWYYRYHYAPRISDVIKGIDQNIEFHKGQPFKPFQQLMAVLPERSKNLIPVVYRPLMYDEHSPI 599 (1155)
T ss_pred HHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHCCCCEEECCCCCCCCHHHHHHHCCHHHHCCCCHHHHHHHCCCCCCH
T ss_conf 88768987718987866557555663788997541566055379999848998510686564618686897634999825
Q ss_pred CCCCCCCCCCCCCCCCCCEEEEEECCCCCHHHHHHHHHHHHCCCCHHHHHHCCCCCCEEEEECCC
Q ss_conf 54688861015889743100022136889678999998631599999996134898389972389
Q 001806 547 SDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSH 611 (1010)
Q Consensus 547 iDFYP~dF~IDlNGKk~~WQGVaLLPFIDe~rLl~a~~~~~~~LT~eE~~RN~~g~d~Lfv~~~~ 611 (1010)
+||||+||+|||||||++||||||||||||+|||+||+++++.||+||++||++|.++||+++..
T Consensus 600 idFYP~dF~iD~NGKk~~WqgVvlLPFIDe~rLl~a~~~~~~~Lt~eE~~RN~~g~~~lf~~~~~ 664 (1155)
T 3pie_A 600 LDFYPNEVELDLNGKTADWEAVVKISFVDQKRLVEAMAPYDAKLSPDEKKRNSFGTDLIFIFNPQ 664 (1155)
T ss_pred HHHCCCCEEECCCCCCCCEEEEEECCCCCHHHHHHHHHHCCCCCCHHHHHHCCCCCCEEEEECCC
T ss_conf 66395332565889804445689777379899999986313669999996356798679995588
No 3
>2y35_A LD22664P; hydrolase-DNA complex, RNA degradation, exonuclease 5'-3', R interference; 3.20A {Drosophila melanogaster}
Probab=1.00 E-value=1 Score=1278.67 Aligned_cols=491 Identities=41% Similarity=0.760 Sum_probs=407.0
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCE
Q ss_conf 91100111124898798999999999999980898999988876655554677579999999999999998407999750
Q 001806 1 MNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVFDSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEK 80 (1010)
Q Consensus 1 MNQQRSRRFRSAkea~e~~~e~e~lr~e~~~eG~~lp~~~~~~~fDSN~ITPGT~FM~~Ls~~L~yyI~~kln~Dp~Wk~ 80 (1010)
|||||+||||||+|+++..++ ...+|... ..+.||||||||||+||.+|+.+|+|||+.|+++||.|++
T Consensus 94 mnqQR~RRfrsa~~~~~~~~~-------~~~~g~~~----~~~~fdsn~ITPGT~FM~~l~~~L~~~i~~k~~~d~~w~~ 162 (1140)
T 2y35_A 94 MNQQRSRRFRTAREAEQQEAK-------AAQRGELR----EHERFDSNCITPGTEFMVRLQEGLRAFLKTKISTDPLWQR 162 (1140)
T ss_dssp HHHHHHHHHHHHHHHHHHHHH-------HHHC-----------CCCSGGGSTTSHHHHHHHHHHHHHHHHHHHHCGGGSS
T ss_pred HHHHHHHHHHHHHHHHHHHHH-------HHHCCCCC----CCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf 899998776531012456778-------76507765----5566774621898089999999999999998516856466
Q ss_pred EEEEECCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCEEEECCCHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCCC
Q ss_conf 19999199999972578999999601599999997389980681489988412885089922021368988644346989
Q 001806 81 IKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQP 160 (1010)
Q Consensus 81 ikVIlSda~VPGEGEHKIMdfIR~qr~~p~ydPNt~HcIYGlDADLImLsLaTHEp~f~ILREeVf~p~~~~~C~lCgQ~ 160 (1010)
++|||||++||||||||||+|||.+|++|+|||||+|||||+|||||||||+|||+||+||||+|++....+
T Consensus 163 ~~Vi~S~~~vPGEGEhKIm~~IR~~~~~p~~~pn~~HciyG~DADLImL~L~the~~f~ilRe~v~f~~~~~-------- 234 (1140)
T 2y35_A 163 CTVILSGQEAPGEGEHKIMDYIRYMKTQPDYDPNTRHCLYGLDAALIILGLCTHELHFVVLREEVKFGRNVK-------- 234 (1140)
T ss_dssp SEEEEECSSSCSCHHHHHHHHHHHHHHSTTCCTTCCEEEECCSHHHHHHHHHTTCSSEEEEEESSCTTCCTT--------
T ss_pred EEEEEECCCCCCCHHHHHHHHHHHHHHCCCCCCCCEEEEECCCHHHHHHHHCCCCCCEEEEECCCCCCCCCC--------
T ss_conf 089996989898528999999999864789899970899836773999997068875899613112465445--------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEHHHHHHHHHHHHCCC-CCCCCCCHHHHHHHHHHHHHHCCCCCCC
Q ss_conf 876422234000136877767886556899926643999999999881479-9997550355666788765320467779
Q 001806 161 GHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIP-NPPFEIDLECIVDDFIFMCFFVGNDFLP 239 (1010)
Q Consensus 161 GH~~~~C~g~~k~k~ge~de~~~~~~~~~k~F~fl~I~vLREYL~~El~~~-~~pF~~D~ERiIDDfVfLcFfvGNDFLP 239 (1010)
+ .....+.|+|+||++|||||+.||... ..+|++|+||+||||||||||+||||||
T Consensus 235 ------------~-----------~~~~~~~f~~l~i~~lReyL~~ef~~~~~~~~~~d~eriidDfVfl~fl~GNDFLP 291 (1140)
T 2y35_A 235 ------------R-----------TSVEETRFFLLHLGLLREYLELEFDALRTDEHKLDIAQLIDDWVLMGFLVGNDFIP 291 (1140)
T ss_dssp ------------C-----------CCGGGCEEEEEEHHHHHHHHHHHGGGGCCSSSCCCHHHHHHHHHHHHHHHCCTTSC
T ss_pred ------------C-----------CCCCCCCEEEEEEHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHHHHHHHCCCCCC
T ss_conf ------------5-----------66444643899736899999998654126655544888777799999973876579
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf 99963225475999999999998532993147983467999999999885599999999999999999999999997139
Q 001806 240 HMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAVGSYEDRIFQKRARLHQRHAERIKREKAQARRG 319 (1010)
Q Consensus 240 hLPsLeIrEGaID~Li~~Ykk~l~~~ggYLTd~G~INL~rlq~fl~~La~~Ed~IF~kR~~~e~r~~e~~kr~k~~~~~~ 319 (1010)
|||+|+|++||||+|+.+|++.+++++||||++|+||++||+.||..|++.|+++|+++.+..+.. +. |.. ..
T Consensus 292 ~lp~l~I~~gai~~L~~~Y~~~~~~~~gyl~~~g~in~~~l~~~l~~l~~~E~~~f~~~~~~~~~~--~~---k~~--~~ 364 (1140)
T 2y35_A 292 HLPCLHISSNALPLLYRTYIGIYPTLGGNINENGKLNLRRLQIFISALTEVELDHFKEHADDLKYM--NN---KSE--AF 364 (1140)
T ss_dssp CCTTCCTTTTHHHHHHHHHHHHGGGSSSCSEETTEECHHHHHHHHHHHHHHHHHHHHHHSCC------------------
T ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCEECHHHHHHHHHHHHHHHHHHHHHHHHHHHHH--HH---CCH--HC
T ss_conf 987536577779999999999888728922479888599999999999999999999988888886--42---101--00
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHCCCCCCCCC
Q ss_conf 99989889998665433468877899999987541111234789888899987554578863225788630378999620
Q 001806 320 DDVEPLAQPDSLVPVSRFHGSRLASGPSPSPYQQSECVGRLDNGKGTSGRPHKVPRLSSGATIGAAIVEAENSFETDPQE 399 (1010)
Q Consensus 320 ~~~~~~~~~~~~~p~~~f~~~~l~~~~~~~~~~~~~~~~~~~n~~~~~~~~~k~~r~s~~~~~~~a~~~~e~~~~~~~~~ 399 (1010)
+ .. ...+ .+.+. . ..+..+ .++ +.......+
T Consensus 365 ~-~~---------------~~~~------------------~~~~~----------~--~~~~~~-~~~--~~~~~~~~~ 395 (1140)
T 2y35_A 365 D-MD---------------VGEI------------------TESQN----------L--DSDLGA-LIN--KSMLLYDDD 395 (1140)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred C-CC---------------HHHC------------------CCCCC----------C--HHHHHH-HHH--HHHHCCCCC
T ss_conf 3-31---------------2220------------------23221----------0--367899-887--554203456
Q ss_pred CHHHHHHHHHHHHHHHCCCCCCCCCCHHHHCCC-CCCHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
Q ss_conf 179999999999842024578999410010148-8406789999740999946799999999999997789998753067
Q 001806 400 NKEEFKAKLKELLRDKSDAFNSDNPEEDKVKLG-EPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEG 478 (1010)
Q Consensus 400 ~~ee~k~~~k~~l~~k~d~~~~~~~~eD~VkL~-e~gyK~rYY~~KF~v~~~~di~~~r~~Vv~~YvEGL~WVL~YYYqG 478 (1010)
. +.+...++.+.++ .++||++||++||+++..+ +++++||++|||||||||+|||+|
T Consensus 396 ~-------------------~~~~~~e~~~~~~~~~~~k~~YY~~Kf~~~~~~---~~~~~~~~~YveGl~Wvl~YYy~G 453 (1140)
T 2y35_A 396 S-------------------EEDCSDENAVLLKEFQNYKRNFYRNKFKRDPND---ELIEELCHHYVNALQWVLDYYYRG 453 (1140)
T ss_dssp -------------------------CHHHHHHHHHHHHHHHHHHHHHCSCCCH---HHHHHHHHHHHHHHHHHHHHHHTS
T ss_pred C-------------------CCCCCHHHHHHHHHHHHHHHHHHHHHHCCCCCH---HHHHHHHHHHHHHHHHHHHHHCCC
T ss_conf 5-------------------433322666654333179999999970898768---999999999999999999974589
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCCCCCHHHHHHHCCCCCCCCCCCCCCCCCCC
Q ss_conf 66655555579885311201225633210579999816566613886545889588785325999988546888610158
Q 001806 479 VCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTDFEVDM 558 (1010)
Q Consensus 479 cpSW~WYYPYHYAPFaSDl~~l~~~~i~Fe~G~Pf~PfEQLMsVLPaaS~~~LP~~~r~LMtdp~SpIiDFYP~dF~IDl 558 (1010)
||||+||||||||||||||+++.+++++|++|+||+||||||+||||+|+++||++|++||++|+|||+||||++|+|||
T Consensus 454 ~~SW~WyYpyhYAP~~sDl~~~~~~~i~F~~g~Pf~PfeQLm~VLP~~S~~~LP~~~~~Lm~~~~Spi~dfYP~~f~iD~ 533 (1140)
T 2y35_A 454 VQSWDWYYPFHYTPFISDLKNIEQVEIAFHMGTPFLPFQQLLAVLPAASAKLLPVAYHDLMLLPTSPLAEFYPLEFESDL 533 (1140)
T ss_dssp CSCSSCCCCCSSCCCGGGCCCCTTCCCCCCCCCCCCHHHHHHHHCCGGGGGGSCGGGHHHHHCTTCTTGGGSCSSCCCCC
T ss_pred CCCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHCCHHHHHHCCHHHHHHHCCCCCCHHHHCCCCEEECC
T ss_conf 88987626777685278887421354310389999859988753485544337798997424999724674943356657
Q ss_pred CCCCCCEEEEEECCCCCHHHHHHHHHHHHCCCCHHHHHHCCCCCCEEEEECCC
Q ss_conf 89743100022136889678999998631599999996134898389972389
Q 001806 559 NGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSH 611 (1010)
Q Consensus 559 NGKk~~WQGVaLLPFIDe~rLl~a~~~~~~~LT~eE~~RN~~g~d~Lfv~~~~ 611 (1010)
|||+++||||||||||||+||++|++++++.||+||++||++|.+++|.++..
T Consensus 534 nGk~~~we~VvllPFIde~~Ll~a~~~~~~~Lt~eE~~RN~~g~~~~~~~~~~ 586 (1140)
T 2y35_A 534 NGKKHDWEAVVLIPFIDEGRLLAAMLPCEAQLSLEERERNRHGPMYVYKYSTV 586 (1140)
T ss_dssp SSCCSGGGSCCCCCCCCHHHHHHTTHHHHHHSCHHHHHTTSCCCEEEEEECSS
T ss_pred CCCCCCEEEEEECCCCCHHHHHHHHHHCCCCCCHHHHHHCCCCCCEEEEECCC
T ss_conf 89847677689787378899999987500569999996425687338973665
No 4
>1a76_A Flap endonuclease-1 protein; 5'-3' EXO/endo nuclease, DNA replication, RTH, RAD27, DNA repair; 2.00A {Methanocaldococcus jannaschii} SCOP: a.60.7.1 c.120.1.2 PDB: 1a77_A
Probab=1.00 E-value=1 Score=44.51 Aligned_cols=92 Identities=23% Similarity=0.412 Sum_probs=61.5
Q ss_pred EEEEEECCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCEEEECCCHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCC
Q ss_conf 01999919999997257899999960159999999738998068148998841288508992202136898864434698
Q 001806 80 KIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQ 159 (1010)
Q Consensus 80 ~ikVIlSda~VPGEGEHKIMdfIR~qr~~p~ydPNt~HcIYGlDADLImLsLaTHEp~f~ILREeVf~p~~~~~C~lCgQ 159 (1010)
++.+| ..|||+|--|-.+-+. +...+|++.|.||++|+ + ++ +++.. ..
T Consensus 143 gi~~i----~apgEAD~~ia~La~~---------g~~~~I~S~D~Dll~~~-~---~~--v~~~~---~~---------- 190 (326)
T 1a76_A 143 GIPYV----EAPSEGEAQASYMAKK---------GDVWAVVSQDYDALLYG-A---PR--VVRNL---TT---------- 190 (326)
T ss_dssp TCCEE----ECSSCHHHHHHHHHHT---------TSSSEEECSSSGGGGGT-C---SE--EEESS---SS----------
T ss_pred CCCEE----ECCCCHHHHHHHHHHC---------CCEEEEECCCCCCCEEC-C---CE--EEEEE---CC----------
T ss_conf 99857----8984099999999977---------99789955883410224-8---87--99950---37----------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCC
Q ss_conf 98764222340001368777678865568999266439999999998814799997550355666788765320467779
Q 001806 160 PGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLP 239 (1010)
Q Consensus 160 ~GH~~~~C~g~~k~k~ge~de~~~~~~~~~k~F~fl~I~vLREYL~~El~~~~~pF~~D~ERiIDDfVfLcFfvGNDFLP 239 (1010)
..+.+.+++..-+.+.+ . ++ -+.||.+|.|+|+||+|
T Consensus 191 ----------------------------~~~~~~~~~~~~v~~~~----g-------l~----~~q~id~~~L~GsD~~p 227 (326)
T 1a76_A 191 ----------------------------TKEMPELIELNEVLEDL----R-------IS----LDDLIDIAIFMGTDYNP 227 (326)
T ss_dssp ----------------------------CSSCCEEEEHHHHHHHH----T-------CC----HHHHHHHHHHHCCTTST
T ss_pred ----------------------------CCCCEEEEEHHHHHHHC----C-------CC----HHHHHHHHHHCCCCCCC
T ss_conf ----------------------------99966998889999884----9-------99----99999999974999999
Q ss_pred -CCCCCCC
Q ss_conf -9996322
Q 001806 240 -HMPTLEI 246 (1010)
Q Consensus 240 -hLPsLeI 246 (1010)
.+|.+-.
T Consensus 228 ~GvpGiG~ 235 (326)
T 1a76_A 228 GGVKGIGF 235 (326)
T ss_dssp TTTTTCCH
T ss_pred CCCCCCCH
T ss_conf 89998579
No 5
>1b43_A Protein (FEN-1); nuclease, DNA repair, DNA replication, transferase; 2.00A {Pyrococcus furiosus} SCOP: a.60.7.1 c.120.1.2 PDB: 1mc8_A
Probab=1.00 E-value=1 Score=39.40 Aligned_cols=104 Identities=17% Similarity=0.273 Sum_probs=62.1
Q ss_pred EEEEEECCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCEEEECCCHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCC
Q ss_conf 01999919999997257899999960159999999738998068148998841288508992202136898864434698
Q 001806 80 KIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQ 159 (1010)
Q Consensus 80 ~ikVIlSda~VPGEGEHKIMdfIR~qr~~p~ydPNt~HcIYGlDADLImLsLaTHEp~f~ILREeVf~p~~~~~C~lCgQ 159 (1010)
++.+|. .|+|+|--|-..-+. ....+|++.|.|+++++- ++ |++.. ...+ .+
T Consensus 143 gip~i~----ap~EADa~iA~La~~---------g~~~~i~S~D~D~l~~g~----~~--v~~~~-~~~~---~~----- 194 (340)
T 1b43_A 143 GIPIVQ----APSEGEAQAAYMAAK---------GSVYASASQDYDSLLFGA----PR--LVRNL-TITG---KR----- 194 (340)
T ss_dssp TCCEEE----CSSCHHHHHHHHHHH---------TSSSEEECSSSHHHHTTC----SE--EEEST-TTCE---EE-----
T ss_pred CCCEEE----CCHHHHHHHHHHHHC---------CCEEEEECCCCCCCEECC----CE--EEEEE-CCCC---CC-----
T ss_conf 996897----576499999999975---------987899716878445468----68--99973-2688---75-----
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCC
Q ss_conf 98764222340001368777678865568999266439999999998814799997550355666788765320467779
Q 001806 160 PGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLP 239 (1010)
Q Consensus 160 ~GH~~~~C~g~~k~k~ge~de~~~~~~~~~k~F~fl~I~vLREYL~~El~~~~~pF~~D~ERiIDDfVfLcFfvGNDFLP 239 (1010)
+.... .......+.+++..-+.+.+ .++ -+.||.+|.|+|+||+|
T Consensus 195 ------------~~p~~--------~~~v~~~~~~~~~~~v~~~~-----------gl~----~~q~id~~~L~G~Dy~p 239 (340)
T 1b43_A 195 ------------KLPGK--------NVYVEIKPELIILEEVLKEL-----------KLT----REKLIELAILVGTDYNP 239 (340)
T ss_dssp ------------ECTTS--------SCEEEECCEEEEHHHHHHHH-----------TCC----HHHHHHHHHHHCCTTST
T ss_pred ------------CCCCC--------CCCCCCCEEEEEHHHHHHHH-----------CCC----HHHHHHHHHHCCCCCCC
T ss_conf ------------67653--------22333450687799999880-----------979----99999999761899888
Q ss_pred -CCCCCCC
Q ss_conf -9996322
Q 001806 240 -HMPTLEI 246 (1010)
Q Consensus 240 -hLPsLeI 246 (1010)
.+|.+-+
T Consensus 240 ~gv~GiG~ 247 (340)
T 1b43_A 240 GGIKGIGL 247 (340)
T ss_dssp TCSTTCCH
T ss_pred CCCCCCCH
T ss_conf 89887669
No 6
>1rxw_A Flap structure-specific endonuclease; helical clamp, helix-3 turn-helix, hydrophobic wedge, 3' FLA site, hydrolase-DNA complex; 2.00A {Archaeoglobus fulgidus} SCOP: a.60.7.1 c.120.1.2 PDB: 1rxv_A
Probab=1.00 E-value=1 Score=36.65 Aligned_cols=114 Identities=16% Similarity=0.253 Sum_probs=63.0
Q ss_pred EEEEEECCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCEEEECCCHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCC
Q ss_conf 01999919999997257899999960159999999738998068148998841288508992202136898864434698
Q 001806 80 KIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQ 159 (1010)
Q Consensus 80 ~ikVIlSda~VPGEGEHKIMdfIR~qr~~p~ydPNt~HcIYGlDADLImLsLaTHEp~f~ILREeVf~p~~~~~C~lCgQ 159 (1010)
++.+| ..|||+|--+-..-+ .....+|++.|.|+++|+- ++ |+|..... +. +.
T Consensus 142 gi~~i----~apgeAEA~lA~la~---------~g~~~~I~S~D~Dllql~~----~~--v~~~l~~~-~~---~~---- 194 (336)
T 1rxw_A 142 GIPFV----DAPSEGEAQAAYMAA---------KGDVEYTGSQDYDSLLFGS----PR--LARNLAIT-GK---RK---- 194 (336)
T ss_dssp TCCEE----ECSSCHHHHHHHHHH---------TTSSSEEECSSSHHHHTTC----SE--EEESCCC-------------
T ss_pred CCCEE----ECCCHHHHHHHHHHH---------CCCEEEEECCCCCCCEECC----CE--EEEECCCC-CC---CC----
T ss_conf 99889----738439999999997---------6993699737977144327----76--89943445-66---66----
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCC
Q ss_conf 98764222340001368777678865568999266439999999998814799997550355666788765320467779
Q 001806 160 PGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLP 239 (1010)
Q Consensus 160 ~GH~~~~C~g~~k~k~ge~de~~~~~~~~~k~F~fl~I~vLREYL~~El~~~~~pF~~D~ERiIDDfVfLcFfvGNDFLP 239 (1010)
.+.+ + ......+.+++..-+.+.+ . +. -+.||.+|.|+|+|++|
T Consensus 195 ----------~~~~--------~---~~~~~~~~~~~~~~v~~~~----g-------l~----~~q~id~~~L~GsD~ip 238 (336)
T 1rxw_A 195 ----------LPGK--------N---VYVDVKPEIIILESNLKRL----G-------LT----REQLIDIAILVGTDYNE 238 (336)
T ss_dssp -----------------------------CCCCEEEEHHHHHHHH----T-------CC----HHHHHHHHHHHCBTTBC
T ss_pred ----------CCCC--------C---CCCCCCEEEEEHHHHHHHC----C-------CC----HHHHHHHHHHCCCCCCC
T ss_conf ----------7753--------3---3344550786799999880----9-------79----99999998641899888
Q ss_pred CCCCCCCCCCHHHHHHHHH
Q ss_conf 9996322547599999999
Q 001806 240 HMPTLEIREGAINLLMAVY 258 (1010)
Q Consensus 240 hLPsLeIrEGaID~Li~~Y 258 (1010)
.+|.+-+.. |+ .|+..|
T Consensus 239 Gv~GiG~Kt-A~-kLl~~~ 255 (336)
T 1rxw_A 239 GVKGVGVKK-AL-NYIKTY 255 (336)
T ss_dssp CCTTCCHHH-HH-HHHHHH
T ss_pred CCCCCCHHH-HH-HHHHHC
T ss_conf 999848999-99-999982
No 7
>1ul1_X Flap endonuclease-1; protein complex, DNA-binding protein, flap DNA, flap endonuclease, sliding clamp, DNA clamp; 2.90A {Homo sapiens} SCOP: a.60.7.1 c.120.1.2
Probab=1.00 E-value=1 Score=33.35 Aligned_cols=94 Identities=18% Similarity=0.321 Sum_probs=60.4
Q ss_pred EEEEECCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCEEEECCCHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCCC
Q ss_conf 19999199999972578999999601599999997389980681489988412885089922021368988644346989
Q 001806 81 IKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQP 160 (1010)
Q Consensus 81 ikVIlSda~VPGEGEHKIMdfIR~qr~~p~ydPNt~HcIYGlDADLImLsLaTHEp~f~ILREeVf~p~~~~~C~lCgQ~ 160 (1010)
+.+|. .|||+|-=|--.-+. ....+|.+.|.||++++- ++ |++...+. +
T Consensus 149 i~~i~----apgEADd~iA~La~~---------g~~~~iiS~D~Dll~~g~----~~--v~~~~~~~-~----------- 197 (379)
T 1ul1_X 149 IPYLD----APSEAEASCAALVKA---------GKVYAAATEDMDCLTFGS----PV--LMRHLTAS-E----------- 197 (379)
T ss_dssp CCEEE----CSSCHHHHHHHHHHH---------TSSSEEECSCTHHHHTTC----SE--EEECSSCC-C-----------
T ss_pred CCEEC----CCCCHHHHHHHHHHC---------CCEEEEEECCCCCCCCCC----CE--EEEEECCC-C-----------
T ss_conf 98204----887399999999965---------986799826857010156----64--99970556-5-----------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCCC
Q ss_conf 87642223400013687776788655689992664399999999988147999975503556667887653204677799
Q 001806 161 GHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPH 240 (1010)
Q Consensus 161 GH~~~~C~g~~k~k~ge~de~~~~~~~~~k~F~fl~I~vLREYL~~El~~~~~pF~~D~ERiIDDfVfLcFfvGNDFLPh 240 (1010)
..+.++.+++..-+.+.+ .++ -+.||.+|.|+|+||.+.
T Consensus 198 --------------------------~~k~~~~~~~~~~v~~~~-----------gl~----~~q~id~~~L~G~D~~d~ 236 (379)
T 1ul1_X 198 --------------------------AKKLPIQEFHLSRILQEL-----------GLN----QEQFVDLCILLGSDYCES 236 (379)
T ss_dssp ---------------------------CCCCEEEEEHHHHHHHH-----------TCC----HHHHHHHHHHHHCSSSCC
T ss_pred --------------------------CCCCCEEEEEHHHHHHHH-----------CCC----HHHHHHHHHHHCCCCCCC
T ss_conf --------------------------676771998099999881-----------999----999999999809976789
Q ss_pred CCCCCC
Q ss_conf 996322
Q 001806 241 MPTLEI 246 (1010)
Q Consensus 241 LPsLeI 246 (1010)
+|.+-.
T Consensus 237 IpGIG~ 242 (379)
T 1ul1_X 237 IRGIGP 242 (379)
T ss_dssp CTTCCH
T ss_pred CCCCCH
T ss_conf 998579
No 8
>2izo_A FEN1, flap structure-specific endonuclease; hydrolase, DNA repair, DNA-binding, endonuclease, metal-BIND excision repair, DNA replication, PCNA; HET: DNA; 2.9A {Sulfolobus solfataricus}
Probab=1.00 E-value=1 Score=32.53 Aligned_cols=105 Identities=20% Similarity=0.280 Sum_probs=62.0
Q ss_pred EEEEEECCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCEEEECCCHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCC
Q ss_conf 01999919999997257899999960159999999738998068148998841288508992202136898864434698
Q 001806 80 KIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQ 159 (1010)
Q Consensus 80 ~ikVIlSda~VPGEGEHKIMdfIR~qr~~p~ydPNt~HcIYGlDADLImLsLaTHEp~f~ILREeVf~p~~~~~C~lCgQ 159 (1010)
++.+|. .|||+|-=|--.-+. ....+|++.|.|+++|+- ++ |++-.. ..+ .+.
T Consensus 140 gi~~i~----ap~EADa~ia~La~~---------g~~~~I~S~D~D~l~~~~----~~--v~~~~~-~~~---~~~---- 192 (346)
T 2izo_A 140 GIPIVQ----APSEGEAEAAYLNKL---------GLSWAAASQDYDAILFGA----KR--LVRNLT-ITG---KRK---- 192 (346)
T ss_dssp TCCEEE----CSSCHHHHHHHHHHT---------TSSSEEECSSSHHHHTTC----SE--EEESSC-C------------
T ss_pred CCCEEE----CCCCHHHHHHHHHHC---------CCEEEEECCCCCCCEECC----CE--EEEEEC-CCC---CCC----
T ss_conf 998897----487599999999967---------985899778877063257----75--999724-555---656----
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCC
Q ss_conf 98764222340001368777678865568999266439999999998814799997550355666788765320467779
Q 001806 160 PGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLP 239 (1010)
Q Consensus 160 ~GH~~~~C~g~~k~k~ge~de~~~~~~~~~k~F~fl~I~vLREYL~~El~~~~~pF~~D~ERiIDDfVfLcFfvGNDFLP 239 (1010)
.+. + .......+.+++..-+.+.+ . +. -+.||.+|.|+|+|++|
T Consensus 193 ----------~p~-~----------~~~~~~~~~~~~~~~v~~~~----g-------l~----~~q~id~~~L~G~D~~p 236 (346)
T 2izo_A 193 ----------LPN-K----------DVYVEIKPELIETEILLKKL----G-------IT----REQLIDIGILIGTDYNP 236 (346)
T ss_dssp ---------------------------CCCCCCEEEEHHHHHHHH----T-------CC----HHHHHHHHHHHCCSSST
T ss_pred ----------CCC-C----------CCCCCCCEEEEEHHHHHHHC----C-------CC----HHHHHHHHHHCCCCCCC
T ss_conf ----------765-3----------33455551887799989872----9-------98----99999999972898898
Q ss_pred -CCCCCCCC
Q ss_conf -99963225
Q 001806 240 -HMPTLEIR 247 (1010)
Q Consensus 240 -hLPsLeIr 247 (1010)
.+|.+-+.
T Consensus 237 ~Gv~GIG~K 245 (346)
T 2izo_A 237 DGIRGIGPE 245 (346)
T ss_dssp TCSTTCCHH
T ss_pred CCCCCCCHH
T ss_conf 899983799
No 9
>3q8k_A Flap endonuclease 1; helix-3 turn-helix, hydrophobic wedge, 3' flap binding site, hydrolase-DNA complex, DNA repair, replication; HET: DNA; 2.20A {Homo sapiens} PDB: 3q8l_A* 3q8m_A*
Probab=1.00 E-value=1 Score=28.72 Aligned_cols=95 Identities=18% Similarity=0.308 Sum_probs=59.1
Q ss_pred EEEEEECCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCEEEECCCHHHHHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCC
Q ss_conf 01999919999997257899999960159999999738998068148998841288508992202136898864434698
Q 001806 80 KIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQ 159 (1010)
Q Consensus 80 ~ikVIlSda~VPGEGEHKIMdfIR~qr~~p~ydPNt~HcIYGlDADLImLsLaTHEp~f~ILREeVf~p~~~~~C~lCgQ 159 (1010)
++.+|. .|||+|--|-..-+. ....+|.+-|.|+++++- ++ |++-..+ .+.
T Consensus 148 gip~i~----ap~EADd~ia~La~~---------g~v~~i~s~D~D~l~~~~----~~--v~~~~~~-~~~--------- 198 (341)
T 3q8k_A 148 GIPYLD----APSEAEASCAALVKA---------GKVYAAATEDMDCLTFGS----PV--LMRHLTA-SEA--------- 198 (341)
T ss_dssp TCCEEE----CSSCHHHHHHHHHHT---------TSSSEEECSCTHHHHTTC----SE--EEESCCC-CSS---------
T ss_pred CCCEEE----CCCCHHHHHHHHHHC---------CCEEEEECCCCCCCCCCC----CE--EEECCCC-CCC---------
T ss_conf 997897----794389999999856---------985999828855010278----67--9976654-556---------
Q ss_pred CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCC
Q ss_conf 98764222340001368777678865568999266439999999998814799997550355666788765320467779
Q 001806 160 PGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLP 239 (1010)
Q Consensus 160 ~GH~~~~C~g~~k~k~ge~de~~~~~~~~~k~F~fl~I~vLREYL~~El~~~~~pF~~D~ERiIDDfVfLcFfvGNDFLP 239 (1010)
...++..++..-+.+.+ .++. +.||-+|.|+|+|++|
T Consensus 199 ----------------------------~~~~~~~~~~~~v~~~~-----------gl~~----~q~id~~~L~G~D~~~ 235 (341)
T 3q8k_A 199 ----------------------------KKLPIQEFHLSRILQEL-----------GLNQ----EQFVDLCILLGSDYCE 235 (341)
T ss_dssp ----------------------------CCCEEEEEEHHHHHHHH-----------TCCH----HHHHHHHHHHCCSSSC
T ss_pred ----------------------------CCCCEEEECHHHHHHHH-----------CCCH----HHHHHHHHHCCCCCCC
T ss_conf ----------------------------88862997299999882-----------9999----9999999864997789
Q ss_pred CCCCCCC
Q ss_conf 9996322
Q 001806 240 HMPTLEI 246 (1010)
Q Consensus 240 hLPsLeI 246 (1010)
.+|.+-.
T Consensus 236 gipGiG~ 242 (341)
T 3q8k_A 236 SIRGIGP 242 (341)
T ss_dssp CCTTCCH
T ss_pred CCCCCCH
T ss_conf 9998468
No 10
>3ory_A Flap endonuclease 1; hydrolase; 2.00A {Desulfurococcus amylolyticus}
Probab=1.00 E-value=1 Score=28.36 Aligned_cols=134 Identities=19% Similarity=0.245 Sum_probs=72.3
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCEEEECCCHHH
Q ss_conf 55546775799999999999999984079997501999919999997257899999960159999999738998068148
Q 001806 47 SNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADL 126 (1010)
Q Consensus 47 SN~ITPGT~FM~~Ls~~L~yyI~~kln~Dp~Wk~ikVIlSda~VPGEGEHKIMdfIR~qr~~p~ydPNt~HcIYGlDADL 126 (1010)
+..||| +.+..+...|+. -++.+|.+ |||+|-=|-..-+. .....|++.|.|+
T Consensus 138 ~~~vt~--~~~~~i~~lL~~------------~GIp~i~a----pgEADaqiA~La~~---------g~~~~I~S~D~D~ 190 (363)
T 3ory_A 138 SAKLTE--EMVRDAKSLLDA------------MGIPWVQA----PAEGEAQAAYIVKK---------GDAYASASQDYDS 190 (363)
T ss_dssp CCCCCH--HHHHHHHHHHHH------------HTCCEEEC----SSCHHHHHHHHHHT---------TSCSEEECSSSHH
T ss_pred CCCCCH--HHHHHHHHHHHH------------CCCCEEEE----CCCHHHHHHHHHHC---------CCEEEEECCCCCC
T ss_conf 256889--999999999998------------79989996----86089999999977---------9968998899583
Q ss_pred HHHHHHCCCCEEEEEEECCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCEEEEHHHHHHHHHH
Q ss_conf 99884128850899220213689886443469898764222340001368777678865568999266439999999998
Q 001806 127 IMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDY 206 (1010)
Q Consensus 127 ImLsLaTHEp~f~ILREeVf~p~~~~~C~lCgQ~GH~~~~C~g~~k~k~ge~de~~~~~~~~~k~F~fl~I~vLREYL~~ 206 (1010)
++|+- ++ ++|.. +..+ .+ +. .+ ++ ......+.+++..-+.+.+
T Consensus 191 l~fg~----~~--v~~~l-~~~~---~~-----------------~~-p~----~~---~~v~~~~~~~~~~~v~~~~-- 233 (363)
T 3ory_A 191 LLFGS----PK--LVRNL-TISG---RR-----------------KL-PR----KN---EYVEVKPELIELDKLLVQL-- 233 (363)
T ss_dssp HHTTC----SE--EEEST-TTCE---EE-----------------EC-SS----TT---CEEEECCEEEEHHHHHHHH--
T ss_pred CCCCC----CE--EEEEE-ECCC---CC-----------------CC-CC----CC---CCCCCCEEEECHHHHHHHH--
T ss_conf 32478----84--89986-6256---64-----------------57-76----55---5454551897299999985--
Q ss_pred HHCCCCCCCCCCHHHHHHHHHHHHHHCCCCCCC-CCCCCCCCCCHHHHHHHHHH
Q ss_conf 814799997550355666788765320467779-99963225475999999999
Q 001806 207 EFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLP-HMPTLEIREGAINLLMAVYK 259 (1010)
Q Consensus 207 El~~~~~pF~~D~ERiIDDfVfLcFfvGNDFLP-hLPsLeIrEGaID~Li~~Yk 259 (1010)
.++. +.||-+|.|+|.||+| .+|.+-.. ..-.|+.-|.
T Consensus 234 ---------gl~~----~q~id~~~L~GsDy~p~GVpGIG~K--tA~kLl~~~g 272 (363)
T 3ory_A 234 ---------GITL----ENLIDIGILLGTDYNPDGFEGIGPK--KALQLVKAYG 272 (363)
T ss_dssp ---------TCCH----HHHHHHHHHHCBTTBTTCSTTCCHH--HHHHHHHHHT
T ss_pred ---------CCCH----HHHHHHHHHHCCCCCCCCCCCCCHH--HHHHHHHHCC
T ss_conf ---------9699----9999999980898888899983799--9999999819
Done!