Query 004706
Match_columns 734
No_of_seqs 240 out of 535
Neff 5.6
Searched_HMMs 29240
Date Mon Mar 25 03:13:36 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/004706.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/004706hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3fqd_A Protein DHP1, 5'-3' exo 100.0 1E-227 5E-232 1947.1 63.4 707 1-725 4-871 (899)
2 3pie_A 5'->3' exoribonuclease 100.0 8E-189 3E-193 1664.8 56.8 611 1-717 1-713 (1155)
3 2y35_A LD22664P; hydrolase-DNA 100.0 1E-174 3E-179 1562.7 47.8 562 1-626 1-586 (1140)
4 1rxw_A Flap structure-specific 98.5 3.7E-06 1.3E-10 90.4 17.4 114 191-368 142-255 (336)
5 1b43_A Protein (FEN-1); nuclea 98.4 2.8E-07 9.6E-12 99.3 8.6 151 51-241 23-180 (340)
6 1a76_A Flap endonuclease-1 pro 98.3 1.4E-06 4.9E-11 93.3 10.1 92 191-356 143-235 (326)
7 3qe9_Y Exonuclease 1; exonucle 98.1 3.7E-05 1.3E-09 83.3 16.6 172 1-241 1-178 (352)
8 3ory_A Flap endonuclease 1; hy 97.9 0.00015 5.3E-09 78.8 16.7 115 191-369 157-272 (363)
9 3q8k_A Flap endonuclease 1; he 97.7 0.00077 2.6E-08 72.7 16.7 230 2-356 1-242 (341)
10 1ul1_X Flap endonuclease-1; pr 97.6 0.00026 8.9E-09 77.4 11.5 229 2-355 1-241 (379)
11 2izo_A FEN1, flap structure-sp 97.5 0.0006 2E-08 73.6 13.5 213 51-357 20-245 (346)
12 1exn_A 5'-exonuclease, 5'-nucl 96.2 0.074 2.5E-06 56.1 15.1 144 51-252 21-166 (290)
13 1dsq_A Nucleic acid binding pr 88.2 0.2 7E-06 33.8 1.7 20 262-281 2-21 (26)
14 1nc8_A Nucleocapsid protein; H 85.0 0.43 1.5E-05 32.9 2.0 19 262-280 6-24 (29)
15 1a6b_B Momulv, zinc finger pro 80.7 0.62 2.1E-05 34.9 1.6 21 261-281 9-29 (40)
16 1u6p_A GAG polyprotein; MLV, A 76.0 1.4 4.7E-05 35.4 2.3 22 261-282 22-43 (56)
17 2ysa_A Retinoblastoma-binding 75.9 1 3.5E-05 36.0 1.6 18 262-279 7-24 (55)
18 2bl6_A Nucleocapsid protein P1 58.7 3.6 0.00012 29.6 1.4 17 263-279 20-36 (37)
19 2ec7_A GAG polyprotein (PR55GA 55.4 4.6 0.00016 31.0 1.5 19 262-280 6-24 (49)
20 2ec7_A GAG polyprotein (PR55GA 52.5 6.3 0.00021 30.2 1.9 19 263-281 28-46 (49)
21 2a51_A Nucleocapsid protein; s 51.4 5 0.00017 29.2 1.1 17 264-280 2-18 (39)
22 2ihx_A Nucleocapsid (NC) prote 50.8 6.6 0.00022 31.5 1.8 20 263-282 31-50 (61)
23 2a51_A Nucleocapsid protein; s 50.4 5.6 0.00019 28.9 1.3 18 262-279 21-38 (39)
24 1cl4_A Protein (GAG polyprotei 50.2 6 0.00021 31.4 1.5 21 262-282 30-50 (60)
25 3nyb_B Protein AIR2; polya RNA 47.4 7.1 0.00024 33.5 1.6 21 261-281 45-65 (83)
26 2bl6_A Nucleocapsid protein P1 47.3 7 0.00024 28.1 1.3 17 264-280 2-18 (37)
27 1a1t_A Nucleocapsid protein; s 45.2 8.8 0.0003 29.9 1.7 17 263-279 13-29 (55)
28 1a1t_A Nucleocapsid protein; s 44.1 8.5 0.00029 30.0 1.5 17 265-281 36-52 (55)
29 2ihx_A Nucleocapsid (NC) prote 41.7 9.9 0.00034 30.4 1.5 20 262-281 4-23 (61)
30 2cqf_A RNA-binding protein LIN 40.3 10 0.00034 30.7 1.4 20 262-281 29-48 (63)
31 1cl4_A Protein (GAG polyprotei 40.0 6 0.00021 31.4 0.0 18 264-281 3-20 (60)
32 3ts2_A Protein LIN-28 homolog 39.6 13 0.00045 35.1 2.3 17 264-280 99-115 (148)
33 2li8_A Protein LIN-28 homolog 35.7 12 0.00042 31.3 1.3 18 263-280 47-64 (74)
34 2cqf_A RNA-binding protein LIN 35.6 13 0.00045 29.9 1.4 19 262-280 7-25 (63)
35 3nyb_B Protein AIR2; polya RNA 34.0 14 0.00047 31.7 1.3 19 262-280 5-23 (83)
36 3ts2_A Protein LIN-28 homolog 30.4 17 0.00058 34.3 1.4 18 265-282 122-139 (148)
37 2li8_A Protein LIN-28 homolog 30.1 16 0.00055 30.6 1.0 19 262-280 24-42 (74)
38 2kfe_A Meucin-24; alpha-helix, 25.2 56 0.0019 22.2 2.8 21 164-185 3-23 (26)
39 2lli_A Protein AIR2; RNA surve 24.9 30 0.001 31.2 1.9 19 261-279 104-122 (124)
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=100.00 E-value=1.5e-227 Score=1947.10 Aligned_cols=707 Identities=44% Similarity=0.779 Sum_probs=626.7
Q ss_pred CccchHHHHHHhhCCCcccccccCCCccCCCCcccCCCCCCCCCCCcccCeEEeeccccccccccCCCCCCCCCHHHHHH
Q 004706 1 MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFK 80 (734)
Q Consensus 1 MGVP~ffrWL~~rYP~i~~~~~e~~~~~~~~g~~~p~d~s~pn~n~~~~DnLYlDmNgIIH~c~h~~~~~~p~te~e~~~ 80 (734)
||||+|||||++|||+|+++|+|+.|..+.||..+|+|.++|||||.+|||||||||||||+|+|+++.+.|.||++||.
T Consensus 4 MGVP~ffRWLs~rYP~i~~~~~e~~~~~~~~g~~~p~d~~~pnpng~e~DnLYlDmNgIIH~c~h~~~~~~~~te~e~~~ 83 (899)
T 3fqd_A 4 MGVPALFRLLSRKFAKVITPVIEAPTEKLPDGTEIEPDLSLPNPNGVECDNLYLDMNGIVHPCSHPEDRPAPETEDEMMV 83 (899)
T ss_dssp CCHHHHHHHHHHHCGGGEEECCCCCCEECTTSCEECCCTTSCCTTSSCEEEEEEETHHHHHHHHSCSSSCCCCSHHHHHH
T ss_pred cchHHHHHHHHHHCCccchhhcccccccccCCccccccccCCCCCCcccceEEEecchhhhhhcCCCCCCCCCCHHHHHH
Confidence 99999999999999999999999998888899999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhcccceeEEEeecCCCchhhhHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhCcccCC-CCCCCCCCCc
Q 004706 81 SIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRRFRAAKDAAEAEAEEERLRKEFEEAGKLLSA-KEKPETCDSN 159 (734)
Q Consensus 81 ~If~yid~l~~~vrPrkllyiAiDGVAPrAKmnQQRsRRfrsa~~~~~~~~~~~~~~~~~~~eg~~~~~-~~~~~~fDsN 159 (734)
+||+|||+||++|||||+||||||||||||||||||+||||+|++++++.++.+++++++.++|...+. ......||||
T Consensus 84 ~If~yid~l~~~vrPrklly~AiDGVAPrAKmnQQRsRRfrsa~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~fDsN 163 (899)
T 3fqd_A 84 AVFEYTDRILAMVRPRQLLFIAIDGVAPRAKMNQQRSRRFRSSREAALKEEELQAFIEEAKQQGIPIDENATKKKSWDSN 163 (899)
T ss_dssp HHHHHHHHHHHHHCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTCCBCHHHHSCCCCCGG
T ss_pred HHHHHHHHHHHHcCcceeEEEeecCCCCchHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHhcCCCCccccccccCCCcC
Confidence 999999999999999999999999999999999999999999999998888788888888888843211 1256899999
Q ss_pred ccccccHHHHHHHHHHHHHHHHHHhcCCCCcccEEEEcCCCCCCChhhHHHHHHHHhhcCCCCCCCCcEEEEecChhHHH
Q 004706 160 VITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIM 239 (734)
Q Consensus 160 ~ITPGT~FM~~L~~~L~~yi~~kl~~dp~w~~l~VI~Sds~vPGEGEHKIm~fIR~qr~~p~ydpn~~H~IyG~DADLIm 239 (734)
||||||+||.+|+.+|+|||+.||++||+|++++|||||++||||||||||+|||+||++|+|||||+|||||+||||||
T Consensus 164 ~ITPGT~FM~~L~~~L~~~i~~kl~~dp~W~~~~VIlSd~~vPGEGEHKIm~fIR~~r~~p~ydpN~~HcIyGlDADLIm 243 (899)
T 3fqd_A 164 CITPGTPFMDTLAKSLRYYIINKLNSDPCWRNVRFILSDASVPGEGEHKIMEFIRSQRVKPEYDPNTHHVVYGLDADLIM 243 (899)
T ss_dssp GSSTTSHHHHHHHHHHHHHHHHHHTSCGGGTTCEEEEECTTSCSCHHHHHHHHHHHHHTSTTSCTTCCEEEECCCTTHHH
T ss_pred ccCCccHHHHHHHHHHHHHHHHHhhcCcccccceEEEeCCCCCCccHHHHHHHHHHHhcCCCCCCCCeEEEEccCccHhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhcCCceEEEeeccccCCCCCcccccccccCcccccccCCCCCCCCCCCCCCCCcccccceEEEehHHHHHHHHhhhC
Q 004706 240 LSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELD 319 (734)
Q Consensus 240 L~Lathe~~f~ILRE~v~~~~~~~~c~~c~q~~h~~~~c~~~~~~~~~~~~~~~~~~~~~~~f~~l~I~~LREyL~~e~~ 319 (734)
|||+||||||+||||+|+++. +|.||.+.+|.++......+ .. ......++|+||||++|||||..||.
T Consensus 244 L~LatHep~f~ILRE~v~~~~--------~q~~~~~~~~~~~~k~~~~~--~~-~~~~~~~~f~~l~i~iLREYL~~E~~ 312 (899)
T 3fqd_A 244 LGLATHEPHFRVLREDVFFQQ--------GSTKKTKEERLGIKRLDDVS--ET-NKVPVKKPFIWLNVSILREYLEVELY 312 (899)
T ss_dssp HHHHTTCSSEEEEEECCC-----------------CTTTTTCCBTTC-------------CCEEEEEHHHHHHHHHHHHC
T ss_pred HhhhccCCceEEEeeecccCc--------Cccccchhhhcccccccccc--cc-ccccccCceEEEeHHHHHHHHHHHhc
Confidence 999999999999999998754 67899999998865321111 00 12345678999999999999999999
Q ss_pred CCCCCCCCchhhhHHHHHHHhhhhcCCCCCCCCcccccchhHHHHHHHHHHHhhhcCCccccCCeechHHHHHHHHHHHH
Q 004706 320 IPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAV 399 (734)
Q Consensus 320 ~~~~~~~~d~eRiIDDfVfLcf~~GNDFLPhlPsl~I~egaid~Li~~Yk~~l~~~~gYLt~~g~inl~~l~~fl~~l~~ 399 (734)
+++.+|++|+||+||||||||||||||||||||+|+|++|||+.|+++||+.++++|||||++|+||++||+.||+.||+
T Consensus 313 ~~~~~f~~d~ERiIDDfVfmcFfvGNDFLPhlP~l~I~egaid~L~~~Yk~~l~~~~gYlt~~G~inl~rl~~~l~~L~~ 392 (899)
T 3fqd_A 313 VPNLPFPFDLERAIDDWVFFIFFVGNDFLPHLPSLDIRDGAVERLTEIWRASLPHMGGYLTLDGSVNLARAEVILSAVGN 392 (899)
T ss_dssp CTTCSSCCCHHHHHHHHHHHGGGGCCSSSCCCTTCCGGGTHHHHHHHHHHHHHHHHSSCSEETTEECHHHHHHHHHHHHT
T ss_pred ccCCCCCchhhhhhhhhhhhhHhhCcccCCCCCccCcCCChHHHHHHHHHHHHHHcCCeeecCCEEcHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hHHHHHHHHHHHHHHHHHHH-----------H------------------------------HH---Hh-----------
Q 004706 400 YEDQIFQKRTRIQQAYEYNE-----------A------------------------------MK---LN----------- 424 (734)
Q Consensus 400 ~E~~if~~r~~~~~~~~~~~-----------~------------------------------~~---~~----------- 424 (734)
.|++||++|.+.+++...+. . .+ ..
T Consensus 393 ~E~~iF~~r~~~e~~~~~~~krr~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 472 (899)
T 3fqd_A 393 QEDDIFKRLKQQEDRRNENYRRRQQRESNQESESYVDNVVIQRSVETQSTEVVTSSKSTSVDTKPPKKTQKIDAPAPVDL 472 (899)
T ss_dssp THHHHHHHHHHHHTTTC---------------------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccccccccccccccccccccccccccccccccccccccccCcccccc
Confidence 99999999876442100000 0 00 00
Q ss_pred ---------------------hhh--c---c-----------h------------------------hhh----------
Q 004706 425 ---------------------ARR--E---S-----------S------------------------EEL---------- 433 (734)
Q Consensus 425 ---------------------~r~--~---~-----------~------------------------~~~---------- 433 (734)
+|. . + + +.+
T Consensus 473 ~~~~~~~~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~n~~~a~~lk~~l~~~~~~~~~~~~~~~~~~~~~e~~~~~~ 552 (899)
T 3fqd_A 473 VNLSEKTSNRSLGATNRELINNRAANRLGLSREAAAVSSVNKLAASALKAQLVSNETLQNVPLEDSIASSSAYEDTDSIE 552 (899)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ccccccccccchhhhhhhhhhcchhhhhhhhhhhhhhcccchhHHHHHHHHhhccccccccccccccccccccccccccc
Confidence 000 0 0 0 000
Q ss_pred ---------------------hcC---ccccccccccCCcchHHhHHHHhhCCCChhhHhHHHHHHHHHHHHHHHHHhhh
Q 004706 434 ---------------------LQA---PVAVADTVKLGEPGYKERYYADKFEISNPEEIDKVKKDVVLKYVEGLCWVCRY 489 (734)
Q Consensus 434 ---------------------~~~---~~~~~d~v~l~e~~~k~rYY~~Kf~~~~~~~~~~~~~~v~~~Y~eGl~Wvl~Y 489 (734)
... ..+..|.+++|++|||+|||++|||++..+ ++++++||++|||||||||+|
T Consensus 553 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~l~e~g~K~rYY~~KF~~~~~d--~e~~~~v~~~YvEGL~WVL~Y 630 (899)
T 3fqd_A 553 SSTPVVHPIDTKVSNVGQKRKAPDSTEENENTDTVRLYEPGYRERYYEQKFHISPDE--PEKIREAVKHYVHGLCWVLLY 630 (899)
T ss_dssp --------------------------------CCSCTTSTTHHHHHHHHTSCCCTTC--THHHHHHHHHHHHHHHHHHHH
T ss_pred ccccchhhhhccccccccccccccccccccchhhhhhcccchHHHHHHHhcCCCCCC--HHHHHHHHHHHHHHHHHHHHH
Confidence 000 001347789999999999999999997653 478899999999999999999
Q ss_pred hccCccccccccCCCCCccccchhcccCccccccCCCCCChHHHhhhcCCCCCCCCCchhhhhhcCCCCCcccccCCCcc
Q 004706 490 YYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDF 569 (734)
Q Consensus 490 Yy~G~pSW~WyYPyhYAP~asDl~~l~~~~i~F~~g~Pf~PfeQLm~VLP~~S~~~LP~~~~~Lm~d~~SpI~dfYP~~f 569 (734)
||+|||||+||||||||||||||+++.+++|+|++|+||+|||||||||||+|+++||++|++||++|+|||+||||++|
T Consensus 631 YYqGc~SW~WyYPYHYAPfaSD~~~~~~~~i~Fe~G~PF~PfEQLMaVLPaaS~~~LP~~y~~LMtdp~SpIiDFYP~dF 710 (899)
T 3fqd_A 631 YYQGCPSWTWYYPYHYAPFAADFKDLASIDVKFELNQPFKPYEQLLGVLPAASKNNLPEKLQTLMTDENSEIIDFYPENF 710 (899)
T ss_dssp HHTCCSCSSCCCCCSSCCCGGGCCSCTTCCCCCCCCCCCCHHHHHHHHCCGGGGGGSCHHHHHHHHCTTCTTGGGCCSCC
T ss_pred HhCCCCCCcccCcccccchHHHHhhcccCceecCCCCCCChHHHHHhhcCHhhhCcccHHHHHHhcCCCCcchhhCcccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccCCCCccceeeeecccCCChHHHHHHHhhhhcCCCHHHHhhccCCCcEEEEcCCCccHHHHH-HHhhhccCCCCCCCc
Q 004706 570 QIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQIT-LYCQLYHQLPPQDRF 648 (734)
Q Consensus 570 ~iD~nGk~~~WqgV~lLPFIDe~~Ll~a~~~~~~~Lt~eE~~RN~~g~~~lf~~~~~~~~~~~~-~~~~~~~~~~~~~~~ 648 (734)
+||||||+++||||||||||||+|||+||+++++.||+||++||++|.++||++++||+++.+. .+|++.. ...
T Consensus 711 eiDmNGKk~~WqgVvlLPFIDE~RLL~A~~~~~~~LT~eEk~RN~~G~~~lf~~~~~~l~~~~~~~~y~~~~-----~~~ 785 (899)
T 3fqd_A 711 TIDLNGKKFEWQGVALLPFIDENRLLNAVSKIYPQLTEEESKRNEDGSTLLFISEHHPMFSELVKQLYSKKR-----QGK 785 (899)
T ss_dssp CEECSSSSCTTSSEECCCCCCHHHHHHHHHTTGGGSCHHHHHTTSCCCCEEEEETTSTTHHHHHHHHTSSSC-----SSS
T ss_pred cccCCCCccccceEEecCccCHHHHHHHHHHhhccCCHHHHHhccCCCcEEEEeCCCchHHHHHHHhccccc-----cCc
Confidence 9999999999999999999999999999999999999999999999999999999999999995 6776432 234
Q ss_pred cccccccccCCcccceecccCCCCCcccCCCCC--CCCC------CCCCcEEEEEecCCC-CCCCCCCCCCCCCCCCCcc
Q 004706 649 AWEIDVNASGGMNGYIWLCERNGLRSIIPSPVK--GLPD------IERNQAINVTYLNPQ-KHRHIPEPPKGATIPAKTI 719 (734)
Q Consensus 649 ~~~~~~~~~~g~~g~~~~~~~~~~~~~~~~p~~--~~~~------i~~~~~~~~~y~~p~-~~~~~~~ll~g~~~p~~~l 719 (734)
+++|||++|+||+|+|+.++.+.+++++.||+. +||| |.+|+++|+.|++|+ .+.|+|+||+||++|+++|
T Consensus 786 ~~~~~~~~s~gl~G~v~~~~~~~p~~~~~sP~~~~~~~~~~~~~~i~~n~~~~~~y~~P~~~~~~~s~lL~g~~~p~~~l 865 (899)
T 3fqd_A 786 PLKLSGKMAHGLFGKVNTNDSVIPNVSVQCPIDVTSADALQKYGSIDDNQSISLVFEVPKSHFVHKSMLLRGVKMPNRVL 865 (899)
T ss_dssp CEECCGGGGTTCCSEEEECTTSCSCCCBCCSSCCCSHHHHHHSCCBSSCCEEEEEEECCCCSSCCCCSCCTTCCCCCCCC
T ss_pred ccccCcccccCcceEEEeCCCcCCCCeecCCCCccCCCCccccccccCCcEEEEEEeCCCCCCCcCCcCCCCCCCCCCCC
Confidence 578999999999999999999999999999997 8999 999999999999998 8899999999999999999
Q ss_pred cccccc
Q 004706 720 VGASKA 725 (734)
Q Consensus 720 ~~~~~~ 725 (734)
|.+|+.
T Consensus 866 ~~~D~~ 871 (899)
T 3fqd_A 866 TPEDIN 871 (899)
T ss_dssp CHHHHH
T ss_pred CHHHHH
Confidence 998753
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=100.00 E-value=7.8e-189 Score=1664.83 Aligned_cols=611 Identities=40% Similarity=0.754 Sum_probs=522.1
Q ss_pred CccchHHHHHHhhCCCcccccccCCCccCCCCcccCCCCCCCCCCCcccCeEEeeccccccccccCCCCC--CCCCHHHH
Q 004706 1 MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKP--APTSYDDV 78 (734)
Q Consensus 1 MGVP~ffrWL~~rYP~i~~~~~e~~~~~~~~g~~~p~d~s~pn~n~~~~DnLYlDmNgIIH~c~h~~~~~--~p~te~e~ 78 (734)
||||+|||||++|||.|++.+ + +..+| +|||||||||||||+|+|+++.+ .+.||++|
T Consensus 1 MGVP~ffrwl~~ryP~i~~~~-~--------~~~~p-----------e~DnLYlDmNgIIH~c~h~~~~~~~~~~te~e~ 60 (1155)
T 3pie_A 1 MGIPKFFHFISERWPQISQLI-D--------GSQIP-----------EFDNLYLDMNSILHNCTHGDGSEVNSRLSEEEV 60 (1155)
T ss_pred CChHHHHHHHHHhCcchhhcc-c--------CCCCC-----------cCCeEEEecccceeeeecCCCCccccCCCHHHH
Confidence 999999999999999986433 2 22222 89999999999999999999876 68999999
Q ss_pred HHHHHHHHHHHHhhcccceeEEEeecCCCchhhhHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhCcccCCCCCCCCCCC
Q 004706 79 FKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRRFRAAKDAAEAEAEEERLRKEFEEAGKLLSAKEKPETCDS 158 (734)
Q Consensus 79 ~~~If~yid~l~~~vrPrkllyiAiDGVAPrAKmnQQRsRRfrsa~~~~~~~~~~~~~~~~~~~eg~~~~~~~~~~~fDs 158 (734)
|.+||+|||+||++|||||+||||||||||||||||||+||||+|++++++.. ...++|..++ +.+.|||
T Consensus 61 ~~~if~yid~l~~~vrPrkllyiAiDGVAPrAKmnqQR~RRfrsa~~~~~~~~-------~~~~~g~~~~---~~~~fds 130 (1155)
T 3pie_A 61 YSKIFSYIDHLFHTIKPKQTFYMAIDGVAPRAKMNQQRARRFRTAMDAEKALQ-------KAIENGDELP---KGEPFDS 130 (1155)
T ss_pred HHHHHHHHHHHHHhcCcceEEEEEecCCCChhHHHHHHHHHHHhhhhhhHHHH-------HHHhcCCcCC---ccccccc
Confidence 99999999999999999999999999999999999999999999998764321 1234565543 3578999
Q ss_pred cccccccHHHHHHHHHHHHHHHHHHhcCCCCcccEEEEcCCCCCCChhhHHHHHHHHhhcCCCCCCCCcEEEEecChhHH
Q 004706 159 NVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLI 238 (734)
Q Consensus 159 N~ITPGT~FM~~L~~~L~~yi~~kl~~dp~w~~l~VI~Sds~vPGEGEHKIm~fIR~qr~~p~ydpn~~H~IyG~DADLI 238 (734)
|||||||+||.+|+.+|+|||++|+++||+|++++||+||++||||||||||+|||++|++|+|||||+|||||+|||||
T Consensus 131 n~ITPGT~FM~~L~~~L~~~i~~k~~~d~~w~~~~vi~S~~~vPGEGEhKIm~~IR~~r~~p~y~pn~~H~IyG~DADLI 210 (1155)
T 3pie_A 131 NAITPGTEFMAKLTENLKYFIHDKITNDTRWQNVKVIFSGHEVPGEGQHKIMDYIRAIRAQEDYNPNTRHCIYGLDADLI 210 (1155)
T ss_pred ccccCCcHHHHHHHHHHHHHHHHHhhCCcCccccEEEEeCCCCCCccHHHHHHHHHHhccCCCCCCCCeEEEeccChhHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhcCCceEEEeeccccCCCCCcccccccccCcccccccCCCCCCCCCCCCCCCCcccccceEEEehHHHHHHHHhhh
Q 004706 239 MLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYEL 318 (734)
Q Consensus 239 mL~Lathe~~f~ILRE~v~~~~~~~~c~~c~q~~h~~~~c~~~~~~~~~~~~~~~~~~~~~~~f~~l~I~~LREyL~~e~ 318 (734)
||||+||||||+||||++.++.+... ...+..++|++|||++|||||+.||
T Consensus 211 mL~L~thep~f~iLRe~v~f~~~~~~-----------------------------~~~~~~~~f~~l~i~~LREyL~~ef 261 (1155)
T 3pie_A 211 ILGLSTHDHHFCLLREEVTFGKRSSS-----------------------------VKTLETQNFFLLHLSILREYLALEF 261 (1155)
T ss_pred HhhhccCCCcEEEEeeccccCccccc-----------------------------ccccccCCeEEEEHHHHHHHHHHHH
Confidence 99999999999999999887542210 0112346899999999999999999
Q ss_pred CC--CCCCCCCchhhhHHHHHHHhhhhcCCCCCCCCcccccchhHHHHHHHHHHHhhhcCCccccCCeechHHHHHHHHH
Q 004706 319 DI--PNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQS 396 (734)
Q Consensus 319 ~~--~~~~~~~d~eRiIDDfVfLcf~~GNDFLPhlPsl~I~egaid~Li~~Yk~~l~~~~gYLt~~g~inl~~l~~fl~~ 396 (734)
.. +..+|++|+||+||||||||||+|||||||||+|+|++|||+.|+++|++.++++|||||++|+||++||+.||+.
T Consensus 262 ~~~~~~~~~~~d~ERiiDDfVflcf~vGNDFLPhlP~l~I~~g~i~~L~~~Yk~~l~~~~gYlt~~G~inl~rl~~~l~~ 341 (1155)
T 3pie_A 262 EEITDSVQFEYDFERVLDDFIFVLFTIGNDFLPNLPDLHLKKGAFPVLLQTFKEALQHMDGYINEQGKINLARFSIWLKY 341 (1155)
T ss_pred HhhccccCCCccHhHhhcceeeehhhhCcccCCCCCccCcCCChHHHHHHHHHHHHHhcCCeeccCCEEcHHHHHHHHHH
Confidence 74 5678999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhHHHHHHHHHHHHHHHHHH--------HHHHHh--------hhhcc------------h---------h-h---hhc
Q 004706 397 VAVYEDQIFQKRTRIQQAYEYN--------EAMKLN--------ARRES------------S---------E-E---LLQ 435 (734)
Q Consensus 397 l~~~E~~if~~r~~~~~~~~~~--------~~~~~~--------~r~~~------------~---------~-~---~~~ 435 (734)
||++|+++|++|...++.+... +..+.+ .+++. + + . .+.
T Consensus 342 L~~~E~~~F~~~~~d~~~~~~k~~~~~~~~~~~r~~~~~~~~~~~q~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~ 421 (1155)
T 3pie_A 342 LSDFEYLNFEKKDIDVEWFNQQLENISLEGERKRTRMGKKLLMKQQKKLIGAVKPWLLKTVQRKVTSELQDADFEIFPLE 421 (1155)
T ss_pred HHHHHHHHHHHHhhHHHHHHHhhhhhhhhhHHHhhhhcccccchhHHhhhhccchhhhcccccccccccccccccccccC
Confidence 9999999999886532111100 000000 00000 0 0 0 000
Q ss_pred -----------------------------C------------c--cc-----------cccccccCCcchHHhHHHHhhC
Q 004706 436 -----------------------------A------------P--VA-----------VADTVKLGEPGYKERYYADKFE 461 (734)
Q Consensus 436 -----------------------------~------------~--~~-----------~~d~v~l~e~~~k~rYY~~Kf~ 461 (734)
. + ++ ..+.++.+.+|||+|||++|||
T Consensus 422 ~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ee~~~~~~~~~~~~~~~~~~~~~k~rYY~~Kf~ 501 (1155)
T 3pie_A 422 DKELVRANLDFLKEFAFDLGLILAHSKSKDLYYFKLDLDSINXXXXXXXXXXXXXXXXXXXIYSERFVEWKDQYYKDKLD 501 (1155)
T ss_pred chhhhhhhHHHHHHHHHhhcccccccccccccceecccccccccccccccccccccccccccchhhhhhHHHHHHHHhcC
Confidence 0 0 00 0001112236999999999999
Q ss_pred CCChhhHhHHHHHHHHHHHHHHHHHhhhhccCccccccccCCCCCccccchhcccCccccccCCCCCChHHHhhhcCCCC
Q 004706 462 ISNPEEIDKVKKDVVLKYVEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAA 541 (734)
Q Consensus 462 ~~~~~~~~~~~~~v~~~Y~eGl~Wvl~YYy~G~pSW~WyYPyhYAP~asDl~~l~~~~i~F~~g~Pf~PfeQLm~VLP~~ 541 (734)
++.. + .+.++++|++|+|||||||+|||+|||||+||||||||||||||+++.+++++|++|+||+|||||||||||+
T Consensus 502 ~~~~-~-~e~~~~v~~~YveGL~WVL~YYy~Gc~SW~WyYPYHYAPfasDl~~~~~~~i~F~~g~Pf~PfeQLm~VLP~~ 579 (1155)
T 3pie_A 502 FSIN-D-TDSLKEMTENYVGGLQWVLYYYYRGCPSWSWYYRYHYAPRISDVIKGIDQNIEFHKGQPFKPFQQLMAVLPER 579 (1155)
T ss_pred CCcC-C-HHHHHHHHHHHHHHHHhHHHHHhCCCCCccccCccccccHHHHHHhhcccceeecCCCCCCcHHHHhhhcChh
Confidence 9754 3 3456899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCchhhhhhcCCCCCcccccCCCcccccCCCCccceeeeecccCCChHHHHHHHhhhhcCCCHHHHhhccCCCcEEE
Q 004706 542 SSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLY 621 (734)
Q Consensus 542 S~~~LP~~~~~Lm~d~~SpI~dfYP~~f~iD~nGk~~~WqgV~lLPFIDe~~Ll~a~~~~~~~Lt~eE~~RN~~g~~~lf 621 (734)
|+++||++|++||+||+|||+||||++|+||||||+++||||||||||||+||++||+++++.||+||++||++|.+++|
T Consensus 580 S~~~LP~~~~~LM~d~~SpIidFYP~dF~iD~NGKk~~WqgVvlLPFIDe~rLl~a~~~~~~~Lt~eE~~RN~~g~~~lf 659 (1155)
T 3pie_A 580 SKNLIPVVYRPLMYDEHSPILDFYPNEVELDLNGKTADWEAVVKISFVDQKRLVEAMAPYDAKLSPDEKKRNSFGTDLIF 659 (1155)
T ss_pred hhccCcHhHHHhhcCCCCchhhhCccceeecCCCCccceeeEEECCcCCHHHHHHHHhhccccCCHHHHhhccCCCcEEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred EcCCCccHHHHHHHhhhccCCCCCCCccccccccccCCcccceecccCCCCCcccCCCCCC-CCCCCCCcEEEEEecCCC
Q 004706 622 VHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGMNGYIWLCERNGLRSIIPSPVKG-LPDIERNQAINVTYLNPQ 700 (734)
Q Consensus 622 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~g~~~~~~~~~~~~~~~~p~~~-~~~i~~~~~~~~~y~~p~ 700 (734)
+++... + ...+||+.+ +|||.++.|+...|.+|.
T Consensus 660 ~~~~~~-------------------------~--------------------~~~~s~l~~~f~~i~~~~~~~~~~~~p~ 694 (1155)
T 3pie_A 660 IFNPQV-------------------------D--------------------TVYKTPLAGLFNDIEHNHCIEREFIPES 694 (1155)
T ss_pred EecCCC-------------------------C--------------------ceeCCCccccCCCcccceEEEEeecCCC
Confidence 965420 0 134556654 689999999999999997
Q ss_pred CCC--CCCCCCCCCCCCCC
Q 004706 701 KHR--HIPEPPKGATIPAK 717 (734)
Q Consensus 701 ~~~--~~~~ll~g~~~p~~ 717 (734)
... ....|++|+.+-..
T Consensus 695 ~~~~~~~~~l~~g~~~g~~ 713 (1155)
T 3pie_A 695 MENVKFLFGLPKGAKLGAS 713 (1155)
T ss_pred cccceecccCCcccccCcc
Confidence 642 35788888876544
No 3
>2y35_A LD22664P; hydrolase-DNA complex, RNA degradation, exonuclease 5'-3', R interference; 3.20A {Drosophila melanogaster}
Probab=100.00 E-value=1e-174 Score=1562.70 Aligned_cols=562 Identities=42% Similarity=0.793 Sum_probs=475.4
Q ss_pred CccchHHHHHHhhCCCcccccccCCCccCCCCcccCCCCCCCCCCCcccCeEEeeccccccccccCCCCCC--CCCHHHH
Q 004706 1 MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKPA--PTSYDDV 78 (734)
Q Consensus 1 MGVP~ffrWL~~rYP~i~~~~~e~~~~~~~~g~~~p~d~s~pn~n~~~~DnLYlDmNgIIH~c~h~~~~~~--p~te~e~ 78 (734)
||||+|||||++|||.+...+.+. .+ .+|||||||||||||+|+|+++.+. +.+|++|
T Consensus 1 MGVp~ffrwl~~ryP~~~~~~~~~---------~~-----------~e~DnLYlDmNgIIH~c~h~~~~~~~~~~~e~e~ 60 (1140)
T 2y35_A 1 MGVPKFFRYISERYPCLSELAREH---------CI-----------PEFDNLYLDMNGIVHNCSHPDDNNIHFHLEEEQI 60 (1140)
T ss_dssp CCSCHHHHHHHHHSGGGEEEEETT---------TS-----------CCCSEEEEEHHHHHHHHHCC------CCCCHHHH
T ss_pred CChhHHHHHHHHHCCchhhhcccc---------CC-----------CcCCeEEEecchhhhhhcCCCCCCCCCCCCHHHH
Confidence 999999999999999875433211 11 2899999999999999999987654 4699999
Q ss_pred HHHHHHHHHHHHhhcccceeEEEeecCCCchhhhHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhCcccCCCCCCCCCCC
Q 004706 79 FKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRRFRAAKDAAEAEAEEERLRKEFEEAGKLLSAKEKPETCDS 158 (734)
Q Consensus 79 ~~~If~yid~l~~~vrPrkllyiAiDGVAPrAKmnQQRsRRfrsa~~~~~~~~~~~~~~~~~~~eg~~~~~~~~~~~fDs 158 (734)
|++||+|||+||++|||||+||||||||||||||||||+||||+|++++..+++ ..++|+. ...+.|||
T Consensus 61 ~~~if~yid~l~~~vrPrkll~iAiDGvAPrAKmnqQR~RRfrsa~~~~~~~~~-------~~~~g~~----~~~~~fds 129 (1140)
T 2y35_A 61 FQEIFNYVDKLFYLIKPQRLFFLSVDGVAPRAKMNQQRSRRFRTAREAEQQEAK-------AAQRGEL----REHERFDS 129 (1140)
T ss_dssp HHHHHHHHHHHHHHHCCSSEEEEECCCSCCHHHHHHHHHHHHHHHHHHHHHHHH-------HHHC-----------CCCS
T ss_pred HHHHHHHHHHHHheeccceeEEEEecCCCchhHHHHHHHHHhhhhhhhhhhHHH-------HhhcCCc----cccccCCc
Confidence 999999999999999999999999999999999999999999999987654321 2234542 23578999
Q ss_pred cccccccHHHHHHHHHHHHHHHHHHhcCCCCcccEEEEcCCCCCCChhhHHHHHHHHhhcCCCCCCCCcEEEEecChhHH
Q 004706 159 NVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLI 238 (734)
Q Consensus 159 N~ITPGT~FM~~L~~~L~~yi~~kl~~dp~w~~l~VI~Sds~vPGEGEHKIm~fIR~qr~~p~ydpn~~H~IyG~DADLI 238 (734)
|||||||+||.+|+++|++||+.|+++||.|++++||+|||+||||||||||+|||+||++|+|||||+|||||+|||||
T Consensus 130 n~ITPGT~FM~~l~~~L~~~i~~k~~~d~~w~~~~Vi~S~~~vPGEGEhKIm~~IR~~~~~p~~~pn~~HciyG~DADLI 209 (1140)
T 2y35_A 130 NCITPGTEFMVRLQEGLRAFLKTKISTDPLWQRCTVILSGQEAPGEGEHKIMDYIRYMKTQPDYDPNTRHCLYGLDAALI 209 (1140)
T ss_dssp GGGSTTSHHHHHHHHHHHHHHHHHHHHCGGGSSSEEEEECSSSCSCHHHHHHHHHHHHHHSTTCCTTCCEEEECCSHHHH
T ss_pred cccCCCcHHHHHHHHHHHHHHHHHhccCccccceEEEEeCCCCCCchHHHHHHHHHHHhhCCCCCCCCeEEEEccCHhHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhcCCceEEEeeccccCCCCCcccccccccCcccccccCCCCCCCCCCCCCCCCcccccceEEEehHHHHHHHHhhh
Q 004706 239 MLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYEL 318 (734)
Q Consensus 239 mL~Lathe~~f~ILRE~v~~~~~~~~c~~c~q~~h~~~~c~~~~~~~~~~~~~~~~~~~~~~~f~~l~I~~LREyL~~e~ 318 (734)
||||+||+|||+||||++.++...+ ......+.|+++||++|||||+.||
T Consensus 210 mL~L~the~~f~ilRe~v~f~~~~~------------------------------~~~~~~~~f~~l~i~~lReyL~~ef 259 (1140)
T 2y35_A 210 ILGLCTHELHFVVLREEVKFGRNVK------------------------------RTSVEETRFFLLHLGLLREYLELEF 259 (1140)
T ss_dssp HHHHHTTCSSEEEEEESSCTTCCTT------------------------------CCCGGGCEEEEEEHHHHHHHHHHHG
T ss_pred HHHHccCCCcEEEeecccccccccc------------------------------cccccccceEEEEehHHHHHHHHHh
Confidence 9999999999999999987643211 0112346799999999999999999
Q ss_pred CCC-CCCCCCchhhhHHHHHHHhhhhcCCCCCCCCcccccchhHHHHHHHHHHHhhhcCCccccCCeechHHHHHHHHHH
Q 004706 319 DIP-NPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSV 397 (734)
Q Consensus 319 ~~~-~~~~~~d~eRiIDDfVfLcf~~GNDFLPhlPsl~I~egaid~Li~~Yk~~l~~~~gYLt~~g~inl~~l~~fl~~l 397 (734)
... ..++++|+||+||||||||||+|||||||||+|+|++||++.|+++|++.+++++||||++|+||+++|+.||+.|
T Consensus 260 ~~~~~~~~~~d~eriidDfVfl~fl~GNDFLP~lp~l~I~~gai~~L~~~Y~~~~~~~~gyl~~~g~in~~~l~~~l~~l 339 (1140)
T 2y35_A 260 DALRTDEHKLDIAQLIDDWVLMGFLVGNDFIPHLPCLHISSNALPLLYRTYIGIYPTLGGNINENGKLNLRRLQIFISAL 339 (1140)
T ss_dssp GGGCCSSSCCCHHHHHHHHHHHHHHHCCTTSCCCTTCCTTTTHHHHHHHHHHHHGGGSSSCSEETTEECHHHHHHHHHHH
T ss_pred hhhccccccccHHHHHHHHHHHHHHhCCccCCCCCccccCCCHHHHHHHHHHHHHHHcCCcccCCCEEcHHHHHHHHHHH
Confidence 743 3468899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhHHHHHHHHHHHHHHHHHHHH--------HHHh--hhhcch---hh--hh-cC--cccccc--ccccC-CcchHHhHH
Q 004706 398 AVYEDQIFQKRTRIQQAYEYNEA--------MKLN--ARRESS---EE--LL-QA--PVAVAD--TVKLG-EPGYKERYY 456 (734)
Q Consensus 398 ~~~E~~if~~r~~~~~~~~~~~~--------~~~~--~r~~~~---~~--~~-~~--~~~~~d--~v~l~-e~~~k~rYY 456 (734)
++.|.++|++|....+....+.+ .... ...... .. .+ .. ..+..| ....+ .++||++||
T Consensus 340 ~~~E~~~f~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~~k~~YY 419 (1140)
T 2y35_A 340 TEVELDHFKEHADDLKYMNNKSEAFDMDVGEITESQNLDSDLGALINKSMLLYDDDSEEDCSDENAVLLKEFQNYKRNFY 419 (1140)
T ss_dssp HHHHHHHHHHHSCC------------------------------------------------CHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhhhcchhcccchhhccccccchhHHHHHHHhhhhccccccccccchhhhhhhhhhhHHHHHHH
Confidence 99999999987521111100000 0000 000000 00 00 00 000001 11111 268999999
Q ss_pred HHhhCCCChhhHhHHHHHHHHHHHHHHHHHhhhhccCccccccccCCCCCccccchhcccCccccccCCCCCChHHHhhh
Q 004706 457 ADKFEISNPEEIDKVKKDVVLKYVEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMG 536 (734)
Q Consensus 457 ~~Kf~~~~~~~~~~~~~~v~~~Y~eGl~Wvl~YYy~G~pSW~WyYPyhYAP~asDl~~l~~~~i~F~~g~Pf~PfeQLm~ 536 (734)
++||+.+.. +++++++|++|+|||||||+|||+|||||+||||||||||||||+++.+++++|++|+||+||+||||
T Consensus 420 ~~Kf~~~~~---~~~~~~~~~~YveGl~Wvl~YYy~G~~SW~WyYpyhYAP~~sDl~~~~~~~i~F~~g~Pf~PfeQLm~ 496 (1140)
T 2y35_A 420 RNKFKRDPN---DELIEELCHHYVNALQWVLDYYYRGVQSWDWYYPFHYTPFISDLKNIEQVEIAFHMGTPFLPFQQLLA 496 (1140)
T ss_dssp HHHHCSCCC---HHHHHHHHHHHHHHHHHHHHHHHTSCSCSSCCCCCSSCCCGGGCCCCTTCCCCCCCCCCCCHHHHHHH
T ss_pred HHHhCCCCc---HHHHHHHHHHHHHHHHHHHHHhcCCCCCCCcccCCCcCchHHHHHhhccccccccCCCCCChHHHHHh
Confidence 999998754 35678999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCCCCchhhhhhcCCCCCcccccCCCcccccCCCCccceeeeecccCCChHHHHHHHhhhhcCCCHHHHhhccCC
Q 004706 537 TLPAASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVM 616 (734)
Q Consensus 537 VLP~~S~~~LP~~~~~Lm~d~~SpI~dfYP~~f~iD~nGk~~~WqgV~lLPFIDe~~Ll~a~~~~~~~Lt~eE~~RN~~g 616 (734)
||||+|+++||++|++||++|+|||+||||++|+||||||+++|||||||||||++||++|++++++.||+||++||++|
T Consensus 497 VLP~~S~~~LP~~~~~Lm~~~~Spi~dfYP~~f~iD~nGk~~~we~VvllPFIde~~Ll~a~~~~~~~Lt~eE~~RN~~g 576 (1140)
T 2y35_A 497 VLPAASAKLLPVAYHDLMLLPTSPLAEFYPLEFESDLNGKKHDWEAVVLIPFIDEGRLLAAMLPCEAQLSLEERERNRHG 576 (1140)
T ss_dssp HCCGGGGGGSCGGGHHHHHCTTCTTGGGSCSSCCCCCSSCCSGGGSCCCCCCCCHHHHHHTTHHHHHHSCHHHHHTTSCC
T ss_pred hcChhhhhhCCHHHHHhhcCCCCchhHhCccceeecCCCCcCcEEeEEECCcCCHHHHHHHHHhccccCCHHHHhhcccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcEEEEcCCC
Q 004706 617 LDLLYVHPQH 626 (734)
Q Consensus 617 ~~~lf~~~~~ 626 (734)
.+++|..+..
T Consensus 577 ~~~~~~~~~~ 586 (1140)
T 2y35_A 577 PMYVYKYSTV 586 (1140)
T ss_dssp CEEEEEECSS
T ss_pred CceEEEeccc
Confidence 9999987643
No 4
>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=98.45 E-value=3.7e-06 Score=90.42 Aligned_cols=114 Identities=15% Similarity=0.259 Sum_probs=62.9
Q ss_pred ccEEEEcCCCCCCChhhHHHHHHHHhhcCCCCCCCCcEEEEecChhHHHHHhhcCCceEEEeeccccCCCCCcccccccc
Q 004706 191 FTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQ 270 (734)
Q Consensus 191 ~l~VI~Sds~vPGEGEHKIm~fIR~qr~~p~ydpn~~H~IyG~DADLImL~Lathe~~f~ILRE~v~~~~~~~~c~~c~q 270 (734)
++.+|. .|||+|.= +.+.-+ ....++|++.|.|++.++- +++ +|.- ...+.
T Consensus 142 gi~~i~----apgeAEA~-lA~la~--------~g~~~~I~S~D~Dllql~~----~~v--~~~l-~~~~~--------- 192 (336)
T 1rxw_A 142 GIPFVD----APSEGEAQ-AAYMAA--------KGDVEYTGSQDYDSLLFGS----PRL--ARNL-AITGK--------- 192 (336)
T ss_dssp TCCEEE----CSSCHHHH-HHHHHH--------TTSSSEEECSSSHHHHTTC----SEE--EESC-CC------------
T ss_pred CCCEEE----cCchHHHH-HHHHHH--------cCCeeEEEcCCCCcceecC----CeE--EEec-ccccc---------
Confidence 356663 68999994 333321 1346899999999999982 333 4431 11000
Q ss_pred cCcccccccCCCCCCCCCCCCCCCCcccccceEEEehHHHHHHHHhhhCCCCCCCCCchhhhHHHHHHHhhhhcCCCCCC
Q 004706 271 VGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPH 350 (734)
Q Consensus 271 ~~h~~~~c~~~~~~~~~~~~~~~~~~~~~~~f~~l~I~~LREyL~~e~~~~~~~~~~d~eRiIDDfVfLcf~~GNDFLPh 350 (734)
++ .+. .+ .. ....++.++...+.+.+ .+ + -+.|+.+|.|+|+|++|.
T Consensus 193 -------~~-~~~---~~------~~-~~~~~~~~~~~~v~~~~----gl-------~----~~q~id~~~L~GsD~ipG 239 (336)
T 1rxw_A 193 -------RK-LPG---KN------VY-VDVKPEIIILESNLKRL----GL-------T----REQLIDIAILVGTDYNEG 239 (336)
T ss_dssp ----------------------------CCCCEEEEHHHHHHHH----TC-------C----HHHHHHHHHHHCBTTBCC
T ss_pred -------cc-CCc---cc------cc-cccceEEeEHHHHHHHc----CC-------C----HHHHHHHHhhcCCCCCCC
Confidence 00 000 00 00 00135667766554433 22 1 246788999999999999
Q ss_pred CCcccccchhHHHHHHHH
Q 004706 351 MPTLEIREGAINLLMHVY 368 (734)
Q Consensus 351 lPsl~I~egaid~Li~~Y 368 (734)
+|++-... --.|+..|
T Consensus 240 v~GiG~Kt--A~kLl~~~ 255 (336)
T 1rxw_A 240 VKGVGVKK--ALNYIKTY 255 (336)
T ss_dssp CTTCCHHH--HHHHHHHH
T ss_pred CCCcCHHH--HHHHHHHc
Confidence 99854432 33355555
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=98.45 E-value=2.8e-07 Score=99.31 Aligned_cols=151 Identities=15% Similarity=0.187 Sum_probs=76.3
Q ss_pred eEEeeccccccccccCC----CCCCCCCHHHHHHHHHHHHHHHHhhc-ccceeEEEeecCCCchhhhHHHHHhhhhhHHH
Q 004706 51 NLYLDMNGIIHPCFHPD----GKPAPTSYDDVFKSIFDYIDHIFLLV-RPRKLLYLAIDGVAPRAKMNQQRTRRFRAAKD 125 (734)
Q Consensus 51 nLYlDmNgIIH~c~h~~----~~~~p~te~e~~~~If~yid~l~~~v-rPrkllyiAiDGVAPrAKmnQQRsRRfrsa~~ 125 (734)
-|-||.++.+|.+.|.- +.+-.......-..+..++.++++++ .|-+ +++++||.+|-.|......||-+....
T Consensus 23 ~l~ID~~~~l~r~~~a~~~~~~~~l~~~~G~~t~~l~g~~~~l~~ll~~~i~-pv~VFDG~~~~~K~~~~~~R~~~r~~~ 101 (340)
T 1b43_A 23 KIAIDALNAIYQFLSTIRQKDGTPLMDSKGRITSHLSGLFYRTINLMEAGIK-PVYVFDGEPPEFKKKELEKRREAREEA 101 (340)
T ss_dssp EEEEEHHHHHHHHHHHSBCTTSCBCBCTTSCBCHHHHHHHHHHHHHHHTTCE-EEEEECCSCCCCSSCSSTTCCCCTTHH
T ss_pred EEEEEhHHHHHHHHHHhccccCCccccccCCchHHHHHHHHHHHHHHhCCCE-EEEEecCCCchhhhhhHHHHHHHHHHH
Confidence 68999999999886532 11100000000012333333333333 5555 567899999977766554444332211
Q ss_pred HHHHHHHHHHHHHHHHHhCcccCCCCCCCCC--CCcccccccHHHHHHHHHHHHHHHHHHhcCCCCcccEEEEcCCCCCC
Q 004706 126 AAEAEAEEERLRKEFEEAGKLLSAKEKPETC--DSNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPG 203 (734)
Q Consensus 126 ~~~~~~~~~~~~~~~~~eg~~~~~~~~~~~f--DsN~ITPGT~FM~~L~~~L~~yi~~kl~~dp~w~~l~VI~Sds~vPG 203 (734)
.+.. .+.+. .|..- ....+ .++.|||. ... .++..+.. + ++.+|. .|+
T Consensus 102 ~~~~-------~~~yk-~g~~~----~~~~~~~~~~~vt~~--~~~----~~~~lL~~-~-------gip~i~----ap~ 151 (340)
T 1b43_A 102 EEKW-------REALE-KGEIE----EARKYAQRATRVNEM--LIE----DAKKLLEL-M-------GIPIVQ----APS 151 (340)
T ss_dssp HHHH-------HHHHH-HSCHH----HHHHHHHTSGGGTHH--HHH----HHHHHHHH-H-------TCCEEE----CSS
T ss_pred HHHH-------HHHHH-cCCHH----HHHHHHHhcCCCCHH--HHH----HHHHHHHH-c-------CCcEEE----cCh
Confidence 1100 00010 11100 00001 13345441 222 23333322 2 356666 579
Q ss_pred ChhhHHHHHHHHhhcCCCCCCCCcEEEEecChhHHHHH
Q 004706 204 EGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLS 241 (734)
Q Consensus 204 EGEHKIm~fIR~qr~~p~ydpn~~H~IyG~DADLImL~ 241 (734)
|+|.=|-..-|+ ...+.|++.|.|+++++
T Consensus 152 EADa~iA~La~~---------g~~~~i~S~D~D~l~~g 180 (340)
T 1b43_A 152 EGEAQAAYMAAK---------GSVYASASQDYDSLLFG 180 (340)
T ss_dssp CHHHHHHHHHHH---------TSSSEEECSSSHHHHTT
T ss_pred hHHHHHHHHHHc---------CCEEEEEccCCCcceec
Confidence 999988877664 14578999999999997
No 6
>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=98.32 E-value=1.4e-06 Score=93.30 Aligned_cols=92 Identities=21% Similarity=0.347 Sum_probs=60.9
Q ss_pred ccEEEEcCCCCCCChhhHHHHHHHHhhcCCCCCCCCcEEEEecChhHHHHHhhcCCceEEEeeccccCCCCCcccccccc
Q 004706 191 FTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQ 270 (734)
Q Consensus 191 ~l~VI~Sds~vPGEGEHKIm~fIR~qr~~p~ydpn~~H~IyG~DADLImL~Lathe~~f~ILRE~v~~~~~~~~c~~c~q 270 (734)
++.+|. .|||+|-=|-.+-++ +..++|++.|.|+++++ + ++ ++|.. ..
T Consensus 143 gi~~i~----apgEAD~~ia~La~~---------g~~~~I~S~D~Dll~~~-~---~~--v~~~~-~~------------ 190 (326)
T 1a76_A 143 GIPYVE----APSEGEAQASYMAKK---------GDVWAVVSQDYDALLYG-A---PR--VVRNL-TT------------ 190 (326)
T ss_dssp TCCEEE----CSSCHHHHHHHHHHT---------TSSSEEECSSSGGGGGT-C---SE--EEESS-SS------------
T ss_pred CCCeEE----CCccHHHHHHHHHHC---------CCEEEEecCCcccceec-C---CE--EEEee-cC------------
Confidence 355553 689999977766653 34689999999999997 2 33 34421 00
Q ss_pred cCcccccccCCCCCCCCCCCCCCCCcccccceEEEehHHHHHHHHhhhCCCCCCCCCchhhhHHHHHHHhhhhcCCCCC-
Q 004706 271 VGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLP- 349 (734)
Q Consensus 271 ~~h~~~~c~~~~~~~~~~~~~~~~~~~~~~~f~~l~I~~LREyL~~e~~~~~~~~~~d~eRiIDDfVfLcf~~GNDFLP- 349 (734)
..+.+++++...+.+.+ .+ + -+.|+.+|.|+|+||+|
T Consensus 191 ---------------------------~~~~~~~~~~~~v~~~~----gl-------~----~~q~id~~~L~GsD~~p~ 228 (326)
T 1a76_A 191 ---------------------------TKEMPELIELNEVLEDL----RI-------S----LDDLIDIAIFMGTDYNPG 228 (326)
T ss_dssp ---------------------------CSSCCEEEEHHHHHHHH----TC-------C----HHHHHHHHHHHCCTTSTT
T ss_pred ---------------------------CCCceEEEEHHHHHHHc----CC-------C----HHHHHHHHHHcCCCCCCC
Confidence 01245677766554433 22 1 24678899999999999
Q ss_pred CCCcccc
Q 004706 350 HMPTLEI 356 (734)
Q Consensus 350 hlPsl~I 356 (734)
++|++-.
T Consensus 229 GvpGiG~ 235 (326)
T 1a76_A 229 GVKGIGF 235 (326)
T ss_dssp TTTTCCH
T ss_pred CCCCcCH
Confidence 9999743
No 7
>3qe9_Y Exonuclease 1; exonuclease, hydrolase-DNA complex; HET: DNA; 2.51A {Homo sapiens} PDB: 3qeb_Z* 3qea_Z*
Probab=98.14 E-value=3.7e-05 Score=83.33 Aligned_cols=172 Identities=17% Similarity=0.249 Sum_probs=87.7
Q ss_pred CccchHHHHHHhhCCCcccccccCCCccCCCCcccCCCCCCCCCCCcccCeEEeeccccccccccCC----CCCCCCCHH
Q 004706 1 MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPD----GKPAPTSYD 76 (734)
Q Consensus 1 MGVP~ffrWL~~rYP~i~~~~~e~~~~~~~~g~~~p~d~s~pn~n~~~~DnLYlDmNgIIH~c~h~~----~~~~p~te~ 76 (734)
|||.++..||...-+.+ .+ ++ -.| =-|=||..+.+|...... ....+++
T Consensus 1 MGI~GL~~~L~~~~~~~--~l-~~-----l~G-----------------k~vaIDas~wL~~~~~~~~~~l~~G~~t~-- 53 (352)
T 3qe9_Y 1 MGIQGLLQFIKEASEPI--HV-RK-----YKG-----------------QVVAVDTYCWLHKGAIACAEKLAKGEPTD-- 53 (352)
T ss_dssp -CCTTHHHHTTTSEEEE--EG-GG-----GTT-----------------SEEEEETHHHHHHHHHHTHHHHHTTCCCC--
T ss_pred CCcchHHHHHHhhCCcC--CH-HH-----hCC-----------------cEEEEecHHHHHHhhhccchhhcCCCCcH--
Confidence 99999999997653321 01 00 012 147788999998743211 0112222
Q ss_pred HHHHHHHHHHHHH-HhhcccceeEEEeecCCCchhhhHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHhCcccCCCCCCCC
Q 004706 77 DVFKSIFDYIDHI-FLLVRPRKLLYLAIDGVAPRAKMNQQRTRRFRAAKDAAEAEAEEERLRKEFEEAGKLLSAKEKPET 155 (734)
Q Consensus 77 e~~~~If~yid~l-~~~vrPrkllyiAiDGVAPrAKmnQQRsRRfrsa~~~~~~~~~~~~~~~~~~~eg~~~~~~~~~~~ 155 (734)
.+..-++..+..| -.-|+| ++.+||.+|-.|-....+||-+.....+...+ ...+|... ...+.
T Consensus 54 ~l~~~~~r~l~~L~~~gI~P----vfVFDG~~~p~Kk~~~~~Rr~~r~~~~~~~~~--------~~~~g~~~---~a~~~ 118 (352)
T 3qe9_Y 54 RYVGFCMKFVNMLLSHGIKP----ILVFDGCTLPSKKEVERSRRERRQANLLKGKQ--------LLREGKVS---EAREC 118 (352)
T ss_dssp HHHHHHHHHHHHHHHTTCEE----EEEECCSCCTTTHHHHHHHHHHHHHHHHHHHH--------HTTSSCCH---HHHHH
T ss_pred HHHHHHHHHHHHHHHcCCEE----EEEECCCCcHHHHHHHHHHHHHHHHHHHHHHH--------HHHhCCHH---HHHHH
Confidence 2222222222322 122444 56799999988877665555543322111111 01112100 00011
Q ss_pred CC-CcccccccHHHHHHHHHHHHHHHHHHhcCCCCcccEEEEcCCCCCCChhhHHHHHHHHhhcCCCCCCCCcEEEEecC
Q 004706 156 CD-SNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLD 234 (734)
Q Consensus 156 fD-sN~ITPGT~FM~~L~~~L~~yi~~kl~~dp~w~~l~VI~Sds~vPGEGEHKIm~fIR~qr~~p~ydpn~~H~IyG~D 234 (734)
|- +..||| . +...++..+.. -++.++.+ |+|+|-=|--.-++ .....|++.|
T Consensus 119 f~~~~~vt~--~----~~~~i~~~L~~--------~gIp~i~a----p~EADaqiA~La~~---------g~~~~I~S~D 171 (352)
T 3qe9_Y 119 FTRSINITH--A----MAHKVIKAARS--------QGVDCLVA----PYEADAQLAYLNKA---------GIVQAIITED 171 (352)
T ss_dssp HGGGCCCCH--H----HHHHHHHHHHH--------TTCEEEEC----SSCHHHHHHHHHHT---------TSCSEEECSC
T ss_pred HhhcCCCCH--H----HHHHHHHHHHH--------cCCcEEEC----CcchHHHHHHHHHC---------CCeEEEEeCC
Confidence 11 234676 2 23334444432 25777764 79999977655541 3467999999
Q ss_pred hhHHHHH
Q 004706 235 ADLIMLS 241 (734)
Q Consensus 235 ADLImL~ 241 (734)
.|+++++
T Consensus 172 ~Dll~~~ 178 (352)
T 3qe9_Y 172 SALLAFG 178 (352)
T ss_dssp GGGGGGT
T ss_pred cCccccc
Confidence 9998887
No 8
>3ory_A Flap endonuclease 1; hydrolase; 2.00A {Desulfurococcus amylolyticus}
Probab=97.95 E-value=0.00015 Score=78.85 Aligned_cols=115 Identities=19% Similarity=0.324 Sum_probs=64.2
Q ss_pred ccEEEEcCCCCCCChhhHHHHHHHHhhcCCCCCCCCcEEEEecChhHHHHHhhcCCceEEEeeccccCCCCCcccccccc
Q 004706 191 FTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQ 270 (734)
Q Consensus 191 ~l~VI~Sds~vPGEGEHKIm~fIR~qr~~p~ydpn~~H~IyG~DADLImL~Lathe~~f~ILRE~v~~~~~~~~c~~c~q 270 (734)
++.+|.+ |||+|-=| .++-+ ......|++.|.|+++++- ++ ++|.. +..+
T Consensus 157 GIp~i~a----pgEADaqi-A~La~--------~g~~~~I~S~D~D~l~fg~----~~--v~~~l-~~~~---------- 206 (363)
T 3ory_A 157 GIPWVQA----PAEGEAQA-AYIVK--------KGDAYASASQDYDSLLFGS----PK--LVRNL-TISG---------- 206 (363)
T ss_dssp TCCEEEC----SSCHHHHH-HHHHH--------TTSCSEEECSSSHHHHTTC----SE--EEEST-TTCE----------
T ss_pred CCCEEEe----CccHHHHH-HHHHH--------CCCeEEEECCCcCccccCC----Ce--EEEEe-eccc----------
Confidence 3566654 88999855 44322 1356899999999999873 22 34431 1100
Q ss_pred cCcccccccCCCCCCCCCCCCCCCCcccccceEEEehHHHHHHHHhhhCCCCCCCCCchhhhHHHHHHHhhhhcCCCCC-
Q 004706 271 VGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLP- 349 (734)
Q Consensus 271 ~~h~~~~c~~~~~~~~~~~~~~~~~~~~~~~f~~l~I~~LREyL~~e~~~~~~~~~~d~eRiIDDfVfLcf~~GNDFLP- 349 (734)
.+. .++ ........++.++...+.+.+ .+ +- +-||-+|.|+|+||+|
T Consensus 207 ------~~~-~p~----------~~~~v~~~~~~~~~~~v~~~~----gl-------~~----~q~id~~~L~GsDy~p~ 254 (363)
T 3ory_A 207 ------RRK-LPR----------KNEYVEVKPELIELDKLLVQL----GI-------TL----ENLIDIGILLGTDYNPD 254 (363)
T ss_dssp ------EEE-CSS----------TTCEEEECCEEEEHHHHHHHH----TC-------CH----HHHHHHHHHHCBTTBTT
T ss_pred ------ccc-CCc----------cccccccceEEEcHHHHHHHh----Cc-------CH----HHHHHHHHHhCCCCCCC
Confidence 000 000 000000124667776665443 21 22 3567799999999999
Q ss_pred CCCcccccchhHHHHHHHHH
Q 004706 350 HMPTLEIREGAINLLMHVYR 369 (734)
Q Consensus 350 hlPsl~I~egaid~Li~~Yk 369 (734)
.+|++-.. .|+ .|+..|.
T Consensus 255 GVpGIG~K-tA~-kLl~~~g 272 (363)
T 3ory_A 255 GFEGIGPK-KAL-QLVKAYG 272 (363)
T ss_dssp CSTTCCHH-HHH-HHHHHHT
T ss_pred CCCCcCHH-HHH-HHHHHcC
Confidence 99985543 233 4666665
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=97.68 E-value=0.00077 Score=72.71 Aligned_cols=230 Identities=18% Similarity=0.214 Sum_probs=119.6
Q ss_pred ccchHHHHHHhhCCCcccccccCCCccCCCCcccCCCCCCCCCCCcccCeEEeeccccccccccCCC--CCCCCCH-HHH
Q 004706 2 GVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDG--KPAPTSY-DDV 78 (734)
Q Consensus 2 GVP~ffrWL~~rYP~i~~~~~e~~~~~~~~g~~~p~d~s~pn~n~~~~DnLYlDmNgIIH~c~h~~~--~~~p~te-~e~ 78 (734)
||.++...|.+.-|.+++.+-=+.- .| --+-||.++.||.+.|.-. ...-.+. -+.
T Consensus 1 GI~GL~~~l~~~~p~~~~~~~l~~l----~g-----------------k~l~IDgs~~lyr~~~a~~~~~~~l~~~~G~~ 59 (341)
T 3q8k_A 1 GIQGLAKLIADVAPSAIRENDIKSY----FG-----------------RKVAIDASMSIYQFLIAVRQGGDVLQNEEGET 59 (341)
T ss_dssp CCTTHHHHHHHHCGGGEEEEEGGGG----TT-----------------CEEEEEHHHHHHHHHHHCEETTEECBCTTSCB
T ss_pred CchhHHHHHHHhhhhccccccHHHh----CC-----------------CEEEEecHHHHHHHHHccccccCCCCCCCCCC
Confidence 8999999999999987765311000 11 1478999999998877321 0000000 000
Q ss_pred HHHHHHHHHHH---Hh-hcccceeEEEeecCCCchhh--hHHHHHhhhhhHHHHHH-HHH--HHHHHHHHHHHhCcccCC
Q 004706 79 FKSIFDYIDHI---FL-LVRPRKLLYLAIDGVAPRAK--MNQQRTRRFRAAKDAAE-AEA--EEERLRKEFEEAGKLLSA 149 (734)
Q Consensus 79 ~~~If~yid~l---~~-~vrPrkllyiAiDGVAPrAK--mnQQRsRRfrsa~~~~~-~~~--~~~~~~~~~~~eg~~~~~ 149 (734)
-..|+.++.++ +. -++| +| ++||.+|-.| +..+|+.|...+.+... ... ..+++.+....
T Consensus 60 T~al~g~~~~~~~ll~~~i~P---~~-VFDg~~~~~r~~~~~~yk~~R~~~~~~~~~a~r~~~pe~l~~~~~~------- 128 (341)
T 3q8k_A 60 TSHLMGMFYRTIRMMENGIKP---VY-VFDGKPPQLKSGELAKRSERRAEAEKQLQQAQAAGAEQEVEKFTKR------- 128 (341)
T ss_dssp CHHHHHHHHHHHHHHTTTCEE---EE-EECCCCCGGGHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH-------
T ss_pred chHHHHHHHHHHHHHHCCCCc---eE-EEeCCCcccchhhhHHHHHHHhHhHHHHHHHHhcCCHHHHHHHHhh-------
Confidence 12233333344 43 3555 34 7999999544 55555433222221111 000 01112111110
Q ss_pred CCCCCCCCCcccccccHHHHHHHHHHHHHHHHHHhcCCCCcccEEEEcCCCCCCChhhHHHHHHHHhhcCCCCCCCCcEE
Q 004706 150 KEKPETCDSNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHC 229 (734)
Q Consensus 150 ~~~~~~fDsN~ITPGT~FM~~L~~~L~~yi~~kl~~dp~w~~l~VI~Sds~vPGEGEHKIm~fIR~qr~~p~ydpn~~H~ 229 (734)
+..||+. -+..+.+.|+ .+ ++.+|. .|||+|-=|-..-++ ....+
T Consensus 129 --------~~~vt~~--q~~~~~~lL~-----~~-------gip~i~----ap~EADd~ia~La~~---------g~v~~ 173 (341)
T 3q8k_A 129 --------LVKVTKQ--HNDECKHLLS-----LM-------GIPYLD----APSEAEASCAALVKA---------GKVYA 173 (341)
T ss_dssp --------TCCCCHH--HHHHHHHHHH-----HH-------TCCEEE----CSSCHHHHHHHHHHT---------TSSSE
T ss_pred --------cccCCHH--HHHHHHHHHH-----Hc-------CCCEEE----CCccHHHHHHHHHhc---------CCeEE
Confidence 1124432 1222222222 11 356665 479999988777663 23567
Q ss_pred EEecChhHHHHHhhcCCceEEEeeccccCCCCCcccccccccCcccccccCCCCCCCCCCCCCCCCcccccceEEEehHH
Q 004706 230 LYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWV 309 (734)
Q Consensus 230 IyG~DADLImL~Lathe~~f~ILRE~v~~~~~~~~c~~c~q~~h~~~~c~~~~~~~~~~~~~~~~~~~~~~~f~~l~I~~ 309 (734)
|.+.|.|+++++- ++ ++|-- .+.+. ....+..++...
T Consensus 174 i~s~D~D~l~~~~----~~--v~~~~-~~~~~------------------------------------~~~~~~~~~~~~ 210 (341)
T 3q8k_A 174 AATEDMDCLTFGS----PV--LMRHL-TASEA------------------------------------KKLPIQEFHLSR 210 (341)
T ss_dssp EECSCTHHHHTTC----SE--EEESC-CCCSS------------------------------------CCCEEEEEEHHH
T ss_pred EEcCCccccccCC----cE--EEEcc-ccccc------------------------------------CCCceEEEcHHH
Confidence 8899999999972 22 34431 11000 012356677665
Q ss_pred HHHHHHhhhCCCCCCCCCchhhhHHHHHHHhhhhcCCCCCCCCcccc
Q 004706 310 LREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEI 356 (734)
Q Consensus 310 LREyL~~e~~~~~~~~~~d~eRiIDDfVfLcf~~GNDFLPhlPsl~I 356 (734)
+.+. +.+ +-+ .||-+|.|+|+|++|.+|++-.
T Consensus 211 v~~~----~gl-------~~~----q~id~~~L~G~D~~~gipGiG~ 242 (341)
T 3q8k_A 211 ILQE----LGL-------NQE----QFVDLCILLGSDYCESIRGIGP 242 (341)
T ss_dssp HHHH----HTC-------CHH----HHHHHHHHHCCSSSCCCTTCCH
T ss_pred HHHH----hCC-------CHH----HHHHHHHhcCCCCCCCCCCccH
Confidence 5443 322 223 5667999999999999997544
No 10
>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=97.59 E-value=0.00026 Score=77.37 Aligned_cols=229 Identities=18% Similarity=0.243 Sum_probs=115.9
Q ss_pred ccchHHHHHHhhCCCcccccccCCCccCCCCcccCCCCCCCCCCCcccCeEEeeccccccccccCCCCC-CCC-CHH---
Q 004706 2 GVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKP-APT-SYD--- 76 (734)
Q Consensus 2 GVP~ffrWL~~rYP~i~~~~~e~~~~~~~~g~~~p~d~s~pn~n~~~~DnLYlDmNgIIH~c~h~~~~~-~p~-te~--- 76 (734)
||+++...|...-|.+++.+- +.. -.| --|-||.+++||.+.|.-... .+. +.+
T Consensus 1 GI~GL~~~L~~~~~~~~~~~~--------------l~~----l~g---~~l~IDg~~~lyr~~~a~~~~~~~l~~~~G~~ 59 (379)
T 1ul1_X 1 GIQGLAKLIADVAPSAIREND--------------IKS----YFG---RKVAIDASMSIYQFLIAVRQGGDVLQNEEGET 59 (379)
T ss_dssp CCTTHHHHHHTTCTTSCCEEC--------------GGG----GTT---CCEEEEHHHHHHHHHSCC-------------C
T ss_pred CcChhHHHHHHhccccceeeC--------------HHH----cCC---CEEEEEchHHHHHHHHhCCCcccccCcCCCCC
Confidence 899999999998886654321 000 011 258999999999988743110 001 100
Q ss_pred -HHHHHHHHHHHHHHhh-cccceeEEEeecCCCchhhhH--HHHH-hhhhhHHHHHHHHHHHHHHHHHHHHhCcccCCCC
Q 004706 77 -DVFKSIFDYIDHIFLL-VRPRKLLYLAIDGVAPRAKMN--QQRT-RRFRAAKDAAEAEAEEERLRKEFEEAGKLLSAKE 151 (734)
Q Consensus 77 -e~~~~If~yid~l~~~-vrPrkllyiAiDGVAPrAKmn--QQRs-RRfrsa~~~~~~~~~~~~~~~~~~~eg~~~~~~~ 151 (734)
.-+..+|..+-+|+.. ++| +| ++||..|-.|-. .+|. +|-.+..+..+ ...+|.. .
T Consensus 60 t~~l~g~~~~~~~ll~~~i~P---~~-VFDG~~~~~K~~~~~~yk~~R~~~~~~~~~-----------~~~~g~~----~ 120 (379)
T 1ul1_X 60 TSHLMGMFYRTIRMMENGIKP---VY-VFDGKPPQLKSGELAKRSERRAEAEKQLQQ-----------AQAAGAE----Q 120 (379)
T ss_dssp CHHHHHHHHHHHHHHHTTCCE---EE-EECCSCCSCCCCCCCCC------------------------------------
T ss_pred chHHHHHHHHHHHHHHCCCCe---EE-EEeCCCcccccchHHHHHhhhhHHHHHHHH-----------HHHcCCH----H
Confidence 1122333334445554 666 33 899999855533 3332 22211111100 0011110 0
Q ss_pred CCCCCC--CcccccccHHHHHHHHHHHHHHHHHHhcCCCCcccEEEEcCCCCCCChhhHHHHHHHHhhcCCCCCCCCcEE
Q 004706 152 KPETCD--SNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHC 229 (734)
Q Consensus 152 ~~~~fD--sN~ITPGT~FM~~L~~~L~~yi~~kl~~dp~w~~l~VI~Sds~vPGEGEHKIm~fIR~qr~~p~ydpn~~H~ 229 (734)
.-..|. +..||+. -+..+.+.|+ .+ ++.+|. .|||+|-=|-..-++ ....+
T Consensus 121 ~~~~~~~~~~~vt~~--~~~~~~~lL~-----~~-------Gi~~i~----apgEADd~iA~La~~---------g~~~~ 173 (379)
T 1ul1_X 121 EVEKFTKRLVKVTKQ--HNDECKHLLS-----LM-------GIPYLD----APSEAEASCAALVKA---------GKVYA 173 (379)
T ss_dssp --------CCCCCCS--CHHHHHHHHH-----HH-------TCCEEE----CSSCHHHHHHHHHHH---------TSSSE
T ss_pred HHHHHHhhccCCCHH--HHHHHHHHHH-----Hc-------CCCeec----CCCcHHHHHHHHHhc---------CCeEE
Confidence 011111 1234432 2233333332 11 355555 689999988777664 13478
Q ss_pred EEecChhHHHHHhhcCCceEEEeeccccCCCCCcccccccccCcccccccCCCCCCCCCCCCCCCCcccccceEEEehHH
Q 004706 230 LYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWV 309 (734)
Q Consensus 230 IyG~DADLImL~Lathe~~f~ILRE~v~~~~~~~~c~~c~q~~h~~~~c~~~~~~~~~~~~~~~~~~~~~~~f~~l~I~~ 309 (734)
|.+.|.|+++++- ++ ++|.. .+.+ ..+..+..++...
T Consensus 174 iiS~D~Dll~~g~----~~--v~~~~-~~~~------------------------------------~~k~~~~~~~~~~ 210 (379)
T 1ul1_X 174 AATEDMDCLTFGS----PV--LMRHL-TASE------------------------------------AKKLPIQEFHLSR 210 (379)
T ss_dssp EECSCTHHHHTTC----SE--EEECS-SCCC-------------------------------------CCCCEEEEEHHH
T ss_pred EEecCcCcccccc----ce--EEEEe-cccc------------------------------------cCcCCeEEEeHHH
Confidence 9999999999982 33 33321 0000 0012456677665
Q ss_pred HHHHHHhhhCCCCCCCCCchhhhHHHHHHHhhhhcCCCCCCCCccc
Q 004706 310 LREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLE 355 (734)
Q Consensus 310 LREyL~~e~~~~~~~~~~d~eRiIDDfVfLcf~~GNDFLPhlPsl~ 355 (734)
+.+.+ .+ + -+.||-+|.|+|+||.+++|++-
T Consensus 211 v~~~~----gl-------~----~~q~id~~~L~G~D~~d~IpGIG 241 (379)
T 1ul1_X 211 ILQEL----GL-------N----QEQFVDLCILLGSDYCESIRGIG 241 (379)
T ss_dssp HHHHH----TC-------C----HHHHHHHHHHHHCSSSCCCTTCC
T ss_pred HHHHh----CC-------C----HHHHHHHHHHhCCCcCCCCCCcC
Confidence 54433 22 1 24677899999999999999863
No 11
>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=97.55 E-value=0.0006 Score=73.58 Aligned_cols=213 Identities=18% Similarity=0.287 Sum_probs=95.8
Q ss_pred eEEeeccccccccccCCCCC--CCC-C----HHHHHHHHHHHHHHHHhh-cccceeEEEeecCCCchhhhH--HHHHhhh
Q 004706 51 NLYLDMNGIIHPCFHPDGKP--APT-S----YDDVFKSIFDYIDHIFLL-VRPRKLLYLAIDGVAPRAKMN--QQRTRRF 120 (734)
Q Consensus 51 nLYlDmNgIIH~c~h~~~~~--~p~-t----e~e~~~~If~yid~l~~~-vrPrkllyiAiDGVAPrAKmn--QQRsRRf 120 (734)
-|-||.++.+|.+.|.-..+ .+. + ....+..++..+-+++.. ++| ++++||..|-.|-. .+|+.+.
T Consensus 20 ~l~IDg~~~l~r~~~a~~~~~g~~l~~~~G~~t~al~g~~~~~~~ll~~~i~P----v~vFDG~~~~~r~~~~~~yk~~R 95 (346)
T 2izo_A 20 RVSIDGYNALYQFLAAIRQPDGTPLMDSQGRVTSHLSGLFYRTINILEEGVIP----IYVFDGKPPEQKSEELERRRKAK 95 (346)
T ss_dssp EEEEEHHHHHHHHHHSCCCC---CCBCSSSCBCHHHHHHHHHHHHHHHHTEEE----EEEECC-----------------
T ss_pred EEEEEhHHHHHHHHHhccccccccccccCCCccHHHHHHHHHHHHHHHCCCcE----EEEECCCCcchhhhHHHHHHHHH
Confidence 58899999999876643100 010 0 011233344444456655 788 68999998855543 3332222
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHhCcccCCCCCCCCCC--CcccccccHHHHHHHHHHHHHHHHHHhcCCCCcccEEEEcC
Q 004706 121 RAAKDAAEAEAEEERLRKEFEEAGKLLSAKEKPETCD--SNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSD 198 (734)
Q Consensus 121 rsa~~~~~~~~~~~~~~~~~~~eg~~~~~~~~~~~fD--sN~ITPGT~FM~~L~~~L~~yi~~kl~~dp~w~~l~VI~Sd 198 (734)
..+.+ ++.+ ....|.. .....|- +..||| +.+..+.+.|+ .+ ++.+|.
T Consensus 96 ~~~~~---------~l~~-~~~~g~~----~~a~~~~~~~~~vt~--~~~~~~~~lL~-----~~-------gi~~i~-- 145 (346)
T 2izo_A 96 EEAER---------KLER-AKSEGKI----EELRKYSQAILRLSN--IMVEESKKLLR-----AM-------GIPIVQ-- 145 (346)
T ss_dssp -------------------------------------------CH--HHHHHHHHHHH-----HH-------TCCEEE--
T ss_pred HHhHH---------HHHH-HHhcCCH----HHHHHHHhhccCCCH--HHHHHHHHHHH-----HC-------CCCEEE--
Confidence 11111 0110 0111211 0011111 223333 33333333333 11 356665
Q ss_pred CCCCCChhhHHHHHHHHhhcCCCCCCCCcEEEEecChhHHHHHhhcCCceEEEeeccccCCCCCcccccccccCcccccc
Q 004706 199 ANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAEC 278 (734)
Q Consensus 199 s~vPGEGEHKIm~fIR~qr~~p~ydpn~~H~IyG~DADLImL~Lathe~~f~ILRE~v~~~~~~~~c~~c~q~~h~~~~c 278 (734)
.|||+|-=|--.-+. ....+|++.|.|+++++- ++ ++|-. ...+. |
T Consensus 146 --ap~EADa~ia~La~~---------g~~~~I~S~D~D~l~~~~----~~--v~~~~-~~~~~---~------------- 191 (346)
T 2izo_A 146 --APSEGEAEAAYLNKL---------GLSWAAASQDYDAILFGA----KR--LVRNL-TITGK---R------------- 191 (346)
T ss_dssp --CSSCHHHHHHHHHHT---------TSSSEEECSSSHHHHTTC----SE--EEESS-CC--------------------
T ss_pred --cCCcHHHHHHHHHhC---------CCeEEEECCCCCcceecC----Ce--EEEEe-ccccc---c-------------
Confidence 689999987665541 346899999999999883 33 33321 11000 0
Q ss_pred cCCCCCCCCCCCCCCCCcccccceEEEehHHHHHHHHhhhCCCCCCCCCchhhhHHHHHHHhhhhcCCCCC-CCCccccc
Q 004706 279 HGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLP-HMPTLEIR 357 (734)
Q Consensus 279 ~~~~~~~~~~~~~~~~~~~~~~~f~~l~I~~LREyL~~e~~~~~~~~~~d~eRiIDDfVfLcf~~GNDFLP-hlPsl~I~ 357 (734)
. .+. .+ ......+++++...+.+.+ .+ + -+.|+-+|.|+|+||+| .+|++-..
T Consensus 192 ~-~p~---~~-------~~~~~~~~~~~~~~v~~~~----gl-------~----~~q~id~~~L~G~D~~p~Gv~GIG~K 245 (346)
T 2izo_A 192 K-LPN---KD-------VYVEIKPELIETEILLKKL----GI-------T----REQLIDIGILIGTDYNPDGIRGIGPE 245 (346)
T ss_dssp ------------------CCCCCCEEEEHHHHHHHH----TC-------C----HHHHHHHHHHHCCSSSTTCSTTCCHH
T ss_pred c-Ccc---cc-------cccccceEEEEHHHHHHHc----CC-------C----HHHHHHHHHHcCCCCCCCCCCCcCHH
Confidence 0 000 00 0000135667766554433 22 1 24678899999999999 99987543
No 12
>1exn_A 5'-exonuclease, 5'-nuclease; hydrolase; 2.50A {Enterobacteria phage T5} SCOP: a.60.7.1 c.120.1.2 PDB: 1ut5_A 1ut8_A 1xo1_A
Probab=96.22 E-value=0.074 Score=56.14 Aligned_cols=144 Identities=15% Similarity=0.118 Sum_probs=79.7
Q ss_pred eEEeeccccccccccCCCCCCCCCHHHHHHHHHHHHHHHHhhcccceeEEEeecCCCchhhhHHHHHhhhhhHHHHHHHH
Q 004706 51 NLYLDMNGIIHPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRRFRAAKDAAEAE 130 (734)
Q Consensus 51 nLYlDmNgIIH~c~h~~~~~~p~te~e~~~~If~yid~l~~~vrPrkllyiAiDGVAPrAKmnQQRsRRfrsa~~~~~~~ 130 (734)
-|-||.++++|.++|..++. | ....++..+-+++...+|..+ .+|+||.+| +-|..-+-.-|......
T Consensus 21 lllIDg~~llyRa~~~~~G~-p-----av~Gf~~~l~~ll~~~~p~~~-vvvFD~~~~-----tfR~~~~~~YKa~R~~~ 88 (290)
T 1exn_A 21 LMIVDGTNLGFRFKHNNSKK-P-----FASSYVSTIQSLAKSYSARTT-IVLGDKGKS-----VFRLEHLPEYKGNRDEK 88 (290)
T ss_dssp EEEEEHHHHHHHHHHHCSSS-C-----CHHHHHHHHHHHHHHTTEEEE-EEECCBSCC-----HHHHHHCTTTTHHHHHH
T ss_pred EEEEECcHHHHHHHhCCCCc-h-----HHHHHHHHHHHHHHHcCCCeE-EEEEcCCCc-----hhhhhCcHHHHcCCCCC
Confidence 58999999999998844332 2 344566666777777899876 589998766 34444332222211110
Q ss_pred HHHHHHHHHHHHhCcccCCCCCCCCCCCcccccccHHHHHHHHH-HHHHHHHHHhcCCCCcccEEEEcCCCCCC-ChhhH
Q 004706 131 AEEERLRKEFEEAGKLLSAKEKPETCDSNVITPGTQFMAVLSAA-LQYFIQARLNQIPGWQFTKVILSDANVPG-EGEHK 208 (734)
Q Consensus 131 ~~~~~~~~~~~~eg~~~~~~~~~~~fDsN~ITPGT~FM~~L~~~-L~~yi~~kl~~dp~w~~l~VI~Sds~vPG-EGEHK 208 (734)
. .+ .... -+.|..+ +. .+++-+.. .--++.++ ..|| |++-=
T Consensus 89 p----------~~----------~~~~----------~e~L~~q~~~-~ikell~~--~~~gip~i----~~~g~EADDv 131 (290)
T 1exn_A 89 Y----------AQ----------RTEE----------EKALDEQFFE-YLKDAFEL--CKTTFPTF----TIRGVEADDM 131 (290)
T ss_dssp H----------HT----------SCHH----------HHHHHHHHHH-HHHHHHHH--HTTTSCEE----CCTTBCHHHH
T ss_pred C----------cc----------cccc----------chhHHHhhHH-HHHHHHHh--hCCCCcEE----EECCcCHHHH
Confidence 0 00 0000 1222222 11 12222111 00123443 3899 99988
Q ss_pred HHHHHHHhhcCCCCCCCCcEEEEecChhHHHHHhhcCCceEEEe
Q 004706 209 IMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSIL 252 (734)
Q Consensus 209 Im~fIR~qr~~p~ydpn~~H~IyG~DADLImL~Lathe~~f~IL 252 (734)
|--.-++.... ....+|++.|-|+..|. .++++++
T Consensus 132 iatLa~~~~~~-----G~~v~IvS~DkDl~Qlv----~~~v~v~ 166 (290)
T 1exn_A 132 AAYIVKLIGHL-----YDHVWLISTDGDWDTLL----TDKVSRF 166 (290)
T ss_dssp HHHHHHHHGGG-----SSCEEEECSCGGGGGGC----CSSEEEE
T ss_pred HHHHHHHHHHC-----CCcEEEEeCCCChhhcC----CCCEEEE
Confidence 87777664332 23588999999997765 3566555
No 13
>1dsq_A Nucleic acid binding protein P14; CCHC type zinc finger, virus/viral protein; NMR {Mouse mammary tumor virus} SCOP: g.40.1.1
Probab=88.20 E-value=0.2 Score=33.78 Aligned_cols=20 Identities=35% Similarity=1.057 Sum_probs=17.0
Q ss_pred CcccccccccCcccccccCC
Q 004706 262 QEKCFVCGQVGHLAAECHGK 281 (734)
Q Consensus 262 ~~~c~~c~q~~h~~~~c~~~ 281 (734)
...|+.||+.||++.+|...
T Consensus 2 ~~~Cf~CG~~GH~ardC~~~ 21 (26)
T 1dsq_A 2 GPVCFSCGKTGHIKRDCKEE 21 (26)
T ss_dssp CCBCTTTCCBSSCTTTTTCC
T ss_pred CCeeEeCCCCCcccccCCCc
Confidence 35799999999999999754
No 14
>1nc8_A Nucleocapsid protein; HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus 2} SCOP: g.40.1.1 PDB: 2di2_A
Probab=85.01 E-value=0.43 Score=32.92 Aligned_cols=19 Identities=37% Similarity=0.976 Sum_probs=16.5
Q ss_pred CcccccccccCcccccccC
Q 004706 262 QEKCFVCGQVGHLAAECHG 280 (734)
Q Consensus 262 ~~~c~~c~q~~h~~~~c~~ 280 (734)
...|+.||+.||++.+|..
T Consensus 6 ~~~C~nCgk~GH~ar~C~~ 24 (29)
T 1nc8_A 6 VIRCWNCGKEGHSARQCRA 24 (29)
T ss_dssp CCBCTTTSCBSSCGGGCCS
T ss_pred CCEEEECCccccCHhHCcc
Confidence 3579999999999999964
No 15
>1a6b_B Momulv, zinc finger protein NCP10; nucleocapsid protein, intercalation, nucleic acid, retrovirus, viral protein/DNA complex; HET: DNA; NMR {Synthetic} SCOP: g.40.1.1
Probab=80.73 E-value=0.62 Score=34.85 Aligned_cols=21 Identities=33% Similarity=0.860 Sum_probs=18.2
Q ss_pred CCcccccccccCcccccccCC
Q 004706 261 QQEKCFVCGQVGHLAAECHGK 281 (734)
Q Consensus 261 ~~~~c~~c~q~~h~~~~c~~~ 281 (734)
...+|+.||+.||.+.+|...
T Consensus 9 ~~~~C~~Cgk~GH~ardCP~~ 29 (40)
T 1a6b_B 9 DRDQCAYCKEKGHWAKDCPKK 29 (40)
T ss_dssp CSSSCSSSCCTTCCTTSCSSS
T ss_pred CCCeeeECCCCCcchhhCcCC
Confidence 456899999999999999754
No 16
>1u6p_A GAG polyprotein; MLV, A-minor K-turn, stem loop, bulge, G-U mismatch, G-A MIS U mismatch, A-C mismatch, zinc finger, NC, viral protein-RN; HET: AP7; NMR {Moloney murine leukemia virus} SCOP: g.40.1.1 PDB: 1wwd_A 1wwe_A 1wwf_A 1wwg_A
Probab=76.02 E-value=1.4 Score=35.37 Aligned_cols=22 Identities=36% Similarity=0.936 Sum_probs=18.5
Q ss_pred CCcccccccccCcccccccCCC
Q 004706 261 QQEKCFVCGQVGHLAAECHGKP 282 (734)
Q Consensus 261 ~~~~c~~c~q~~h~~~~c~~~~ 282 (734)
....|+.||+.||.+.+|....
T Consensus 22 ~~~~C~~Cge~GH~ardCp~~~ 43 (56)
T 1u6p_A 22 DRDQCAYCKEKGHWAKDCPKKP 43 (56)
T ss_dssp CTTBCSSSCCBSSCGGGCTTCC
T ss_pred CCCcceeCCCCCcccccCcCCc
Confidence 3468999999999999997653
No 17
>2ysa_A Retinoblastoma-binding protein 6; zinc finger, CCHC, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=75.94 E-value=1 Score=35.96 Aligned_cols=18 Identities=39% Similarity=0.988 Sum_probs=16.3
Q ss_pred CcccccccccCccccccc
Q 004706 262 QEKCFVCGQVGHLAAECH 279 (734)
Q Consensus 262 ~~~c~~c~q~~h~~~~c~ 279 (734)
...|+.|||.||.+.+|-
T Consensus 7 ~~~C~kCGk~GH~~k~Cp 24 (55)
T 2ysa_A 7 GYTCFRCGKPGHYIKNCP 24 (55)
T ss_dssp SCCCTTTCCTTSCGGGCS
T ss_pred CCccccCCCcCcccccCC
Confidence 467999999999999995
No 18
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=58.73 E-value=3.6 Score=29.61 Aligned_cols=17 Identities=41% Similarity=1.110 Sum_probs=12.9
Q ss_pred cccccccccCccccccc
Q 004706 263 EKCFVCGQVGHLAAECH 279 (734)
Q Consensus 263 ~~c~~c~q~~h~~~~c~ 279 (734)
..|+.|++.||++.+|.
T Consensus 20 ~~C~~Cg~~GH~a~~C~ 36 (37)
T 2bl6_A 20 KVCFKCKQPGHFSKQCR 36 (37)
T ss_dssp TTCSSCCCTTGGGGTTC
T ss_pred CeEccCCCcCCccCcCc
Confidence 46788888888887774
No 19
>2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1
Probab=55.44 E-value=4.6 Score=30.99 Aligned_cols=19 Identities=37% Similarity=0.976 Sum_probs=14.3
Q ss_pred CcccccccccCcccccccC
Q 004706 262 QEKCFVCGQVGHLAAECHG 280 (734)
Q Consensus 262 ~~~c~~c~q~~h~~~~c~~ 280 (734)
...|+.|++.||++.+|..
T Consensus 6 ~~~C~~Cg~~GH~a~~C~~ 24 (49)
T 2ec7_A 6 VIRCWNCGKEGHSARQCRA 24 (49)
T ss_dssp CCBCTTTCCBTCCTTTCCC
T ss_pred cCeeeecCCCCcChhhCcC
Confidence 3568888888888888854
No 20
>2ec7_A GAG polyprotein (PR55GAG); nucleocapsid protein, HIV-2, RNA recognition, zinc finger, viral protein; NMR {Human immunodeficiency virus type 2} SCOP: g.40.1.1
Probab=52.48 E-value=6.3 Score=30.20 Aligned_cols=19 Identities=37% Similarity=1.108 Sum_probs=16.5
Q ss_pred cccccccccCcccccccCC
Q 004706 263 EKCFVCGQVGHLAAECHGK 281 (734)
Q Consensus 263 ~~c~~c~q~~h~~~~c~~~ 281 (734)
..|+.||+.||++.+|..+
T Consensus 28 ~~C~~Cg~~GH~~~~C~~~ 46 (49)
T 2ec7_A 28 QGCWKCGKTGHVMAKCPER 46 (49)
T ss_dssp CSCSSSCCSSCCGGGCCSS
T ss_pred CeeCcCCCcCCccCCCcCC
Confidence 4699999999999999653
No 21
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=51.39 E-value=5 Score=29.20 Aligned_cols=17 Identities=47% Similarity=1.105 Sum_probs=14.9
Q ss_pred ccccccccCcccccccC
Q 004706 264 KCFVCGQVGHLAAECHG 280 (734)
Q Consensus 264 ~c~~c~q~~h~~~~c~~ 280 (734)
.|+.|++.||++.+|..
T Consensus 2 ~C~~Cg~~GH~a~~C~~ 18 (39)
T 2a51_A 2 TCFNCGKPGHTARMCRQ 18 (39)
T ss_dssp BCTTTCCBSSCTTTCCS
T ss_pred eeeccCCCCcccccCCC
Confidence 58999999999999964
No 22
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=50.79 E-value=6.6 Score=31.47 Aligned_cols=20 Identities=35% Similarity=0.929 Sum_probs=16.6
Q ss_pred cccccccccCcccccccCCC
Q 004706 263 EKCFVCGQVGHLAAECHGKP 282 (734)
Q Consensus 263 ~~c~~c~q~~h~~~~c~~~~ 282 (734)
..|+.|++.||++.+|....
T Consensus 31 ~~C~~Cg~~GH~ar~C~~~~ 50 (61)
T 2ihx_A 31 ERCQLCNGMGHNAKQCRKRD 50 (61)
T ss_dssp SBCTTTCCBSSCGGGCCCCC
T ss_pred CeeCCCCCCCCCcCCCcCCC
Confidence 56999999999999997543
No 23
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=50.42 E-value=5.6 Score=28.92 Aligned_cols=18 Identities=44% Similarity=0.923 Sum_probs=15.6
Q ss_pred CcccccccccCccccccc
Q 004706 262 QEKCFVCGQVGHLAAECH 279 (734)
Q Consensus 262 ~~~c~~c~q~~h~~~~c~ 279 (734)
...|+.||+.||++.+|.
T Consensus 21 ~~~C~~Cg~~GH~~~~C~ 38 (39)
T 2a51_A 21 QEGCWNCGSKEHRFAQCP 38 (39)
T ss_dssp CSSCTTTCCSSSCTTTSC
T ss_pred CCccccCCCCCCccCcCc
Confidence 357999999999999884
No 24
>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A
Probab=50.21 E-value=6 Score=31.41 Aligned_cols=21 Identities=33% Similarity=0.586 Sum_probs=17.9
Q ss_pred CcccccccccCcccccccCCC
Q 004706 262 QEKCFVCGQVGHLAAECHGKP 282 (734)
Q Consensus 262 ~~~c~~c~q~~h~~~~c~~~~ 282 (734)
...|+.|++.||++.+|..+.
T Consensus 30 ~~~C~~Cg~~GH~ar~C~~~~ 50 (60)
T 1cl4_A 30 PGLCPRCKRGKHWANECKSKT 50 (60)
T ss_dssp CCSCSSCSSCSSCSTTCCCTT
T ss_pred CcceeECCCCCCccCcCCCcc
Confidence 467999999999999997653
No 25
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=47.37 E-value=7.1 Score=33.52 Aligned_cols=21 Identities=33% Similarity=0.923 Sum_probs=17.8
Q ss_pred CCcccccccccCcccccccCC
Q 004706 261 QQEKCFVCGQVGHLAAECHGK 281 (734)
Q Consensus 261 ~~~~c~~c~q~~h~~~~c~~~ 281 (734)
....|+.||+.||+..+|...
T Consensus 45 ~~~~CYnCG~~GH~~rdC~~~ 65 (83)
T 3nyb_B 45 HTIYCYNCGGKGHFGDDCKEK 65 (83)
T ss_dssp CCCBCSSSSCBSSCGGGCSSC
T ss_pred CCCeecccCCCCcCcccCCcc
Confidence 346899999999999999754
No 26
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=47.32 E-value=7 Score=28.08 Aligned_cols=17 Identities=41% Similarity=1.280 Sum_probs=15.1
Q ss_pred ccccccccCcccccccC
Q 004706 264 KCFVCGQVGHLAAECHG 280 (734)
Q Consensus 264 ~c~~c~q~~h~~~~c~~ 280 (734)
.|+.|++.||++.+|..
T Consensus 2 ~C~~Cg~~GH~~~~C~~ 18 (37)
T 2bl6_A 2 TCYNCGKPGHLSSQCRA 18 (37)
T ss_dssp CBSSSCCSSCCTTTSSC
T ss_pred cccccCCCCcchhhCcC
Confidence 59999999999999964
No 27
>1a1t_A Nucleocapsid protein; stem-loop RNA, viral protein/RNA complex; NMR {Human immunodeficiency virus 1} SCOP: g.40.1.1 PDB: 1mfs_A 1f6u_A* 1aaf_A 2l4l_A 2exf_A 2jzw_A* 1bj6_A* 1esk_A 1q3y_A 1q3z_A 2e1x_A 2iwj_A
Probab=45.23 E-value=8.8 Score=29.87 Aligned_cols=17 Identities=53% Similarity=1.286 Sum_probs=9.7
Q ss_pred cccccccccCccccccc
Q 004706 263 EKCFVCGQVGHLAAECH 279 (734)
Q Consensus 263 ~~c~~c~q~~h~~~~c~ 279 (734)
..|+.|++.||++.+|.
T Consensus 13 ~~C~~Cg~~GH~a~~C~ 29 (55)
T 1a1t_A 13 VKCFNCGKEGHIAKNCR 29 (55)
T ss_dssp CBCTTTCCBSSCGGGCS
T ss_pred cceeeeCCCCcChhhcC
Confidence 34666666666655554
No 28
>1a1t_A Nucleocapsid protein; stem-loop RNA, viral protein/RNA complex; NMR {Human immunodeficiency virus 1} SCOP: g.40.1.1 PDB: 1mfs_A 1f6u_A* 1aaf_A 2l4l_A 2exf_A 2jzw_A* 1bj6_A* 1esk_A 1q3y_A 1q3z_A 2e1x_A 2iwj_A
Probab=44.11 E-value=8.5 Score=29.96 Aligned_cols=17 Identities=35% Similarity=1.112 Sum_probs=14.9
Q ss_pred cccccccCcccccccCC
Q 004706 265 CFVCGQVGHLAAECHGK 281 (734)
Q Consensus 265 c~~c~q~~h~~~~c~~~ 281 (734)
|+.||+.||++.+|...
T Consensus 36 C~~Cg~~GH~~~~C~~~ 52 (55)
T 1a1t_A 36 CWKCGKEGHQMKDCTER 52 (55)
T ss_dssp CTTTCCBSSCGGGCSSS
T ss_pred eCCCCCcCCccCCCcCc
Confidence 78999999999999643
No 29
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=41.69 E-value=9.9 Score=30.39 Aligned_cols=20 Identities=40% Similarity=1.011 Sum_probs=17.1
Q ss_pred CcccccccccCcccccccCC
Q 004706 262 QEKCFVCGQVGHLAAECHGK 281 (734)
Q Consensus 262 ~~~c~~c~q~~h~~~~c~~~ 281 (734)
...|+.|++.||++.+|...
T Consensus 4 ~~~C~~Cg~~GH~a~~C~~~ 23 (61)
T 2ihx_A 4 RGLCYTCGSPGHYQAQCPKK 23 (61)
T ss_dssp TTBCSSSCCBTCCGGGCTTT
T ss_pred CCcccccCCCCeehhhCcCC
Confidence 45799999999999999654
No 30
>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=40.33 E-value=10 Score=30.65 Aligned_cols=20 Identities=35% Similarity=0.843 Sum_probs=16.8
Q ss_pred CcccccccccCcccccccCC
Q 004706 262 QEKCFVCGQVGHLAAECHGK 281 (734)
Q Consensus 262 ~~~c~~c~q~~h~~~~c~~~ 281 (734)
...|+.|++.||++.+|...
T Consensus 29 ~~~C~~Cg~~GH~ar~Cp~~ 48 (63)
T 2cqf_A 29 PKKCHFCQSISHMVASCPLK 48 (63)
T ss_dssp SSCCTTTCCSSSCTTTCTGG
T ss_pred CCccCCcCCcCCccCcCCCc
Confidence 46799999999999999653
No 31
>1cl4_A Protein (GAG polyprotein); nucleocapsid protein, RNA binding protein, retrovirus, viral protein; NMR {Mason-pfizer monkey virus} SCOP: g.40.1.1 PDB: 1dsv_A
Probab=39.96 E-value=6 Score=31.40 Aligned_cols=18 Identities=50% Similarity=1.287 Sum_probs=0.0
Q ss_pred ccccccccCcccccccCC
Q 004706 264 KCFVCGQVGHLAAECHGK 281 (734)
Q Consensus 264 ~c~~c~q~~h~~~~c~~~ 281 (734)
.|+.|++.||++.+|...
T Consensus 3 ~Cf~Cg~~GH~a~~C~~~ 20 (60)
T 1cl4_A 3 SCFKCGKKGHFAKNCHEH 20 (60)
T ss_dssp ------------------
T ss_pred ccccCCCCCcCHhhCcCC
Confidence 599999999999999654
No 32
>3ts2_A Protein LIN-28 homolog A; microrna biogenesis, protein-RNA complex, PRE-element, CCHC knuckle; HET: GMP; 2.01A {Mus musculus} PDB: 3trz_A* 3ts0_A*
Probab=39.59 E-value=13 Score=35.05 Aligned_cols=17 Identities=41% Similarity=1.048 Sum_probs=11.2
Q ss_pred ccccccccCcccccccC
Q 004706 264 KCFVCGQVGHLAAECHG 280 (734)
Q Consensus 264 ~c~~c~q~~h~~~~c~~ 280 (734)
.|+.|++.||.+.+|..
T Consensus 99 ~C~~Cg~~GH~a~~C~~ 115 (148)
T 3ts2_A 99 RCYNCGGLDHHAKECKL 115 (148)
T ss_dssp CCTTTCCSSCCGGGCCS
T ss_pred cccEeCCccchhhhCCC
Confidence 46666666666666654
No 33
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=35.75 E-value=12 Score=31.28 Aligned_cols=18 Identities=33% Similarity=0.881 Sum_probs=11.2
Q ss_pred cccccccccCcccccccC
Q 004706 263 EKCFVCGQVGHLAAECHG 280 (734)
Q Consensus 263 ~~c~~c~q~~h~~~~c~~ 280 (734)
..|+.|++.||++.+|..
T Consensus 47 ~~C~~Cg~~GH~ar~Cp~ 64 (74)
T 2li8_A 47 KKCHFCQSISHMVASCPL 64 (74)
T ss_dssp CCCTTTCCTTSCGGGCTT
T ss_pred CccCCcCCcCCccCcCcC
Confidence 456666666666666643
No 34
>2cqf_A RNA-binding protein LIN-28; CCHC zinc-finger, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=35.62 E-value=13 Score=29.93 Aligned_cols=19 Identities=37% Similarity=0.968 Sum_probs=16.7
Q ss_pred CcccccccccCcccccccC
Q 004706 262 QEKCFVCGQVGHLAAECHG 280 (734)
Q Consensus 262 ~~~c~~c~q~~h~~~~c~~ 280 (734)
...|+.|++.||++.+|..
T Consensus 7 ~~~C~~Cg~~GH~a~~C~~ 25 (63)
T 2cqf_A 7 GDRCYNCGGLDHHAKECKL 25 (63)
T ss_dssp CCCCSSSCCSSSCTTTCCS
T ss_pred CCcccccCCCCcChhhCCC
Confidence 4579999999999999964
No 35
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=33.97 E-value=14 Score=31.72 Aligned_cols=19 Identities=21% Similarity=0.609 Sum_probs=15.3
Q ss_pred CcccccccccCcccccccC
Q 004706 262 QEKCFVCGQVGHLAAECHG 280 (734)
Q Consensus 262 ~~~c~~c~q~~h~~~~c~~ 280 (734)
+..|+.|++.||++.+|..
T Consensus 5 ~~~C~~Cg~~GH~~~~Cp~ 23 (83)
T 3nyb_B 5 KVQCTLCKSKKHSKERCPS 23 (83)
T ss_dssp --CCSSSCCSSSCGGGCGG
T ss_pred cCCCCCCCCCCCccccCCC
Confidence 4579999999999999953
No 36
>3ts2_A Protein LIN-28 homolog A; microrna biogenesis, protein-RNA complex, PRE-element, CCHC knuckle; HET: GMP; 2.01A {Mus musculus} PDB: 3trz_A* 3ts0_A*
Probab=30.37 E-value=17 Score=34.31 Aligned_cols=18 Identities=33% Similarity=0.864 Sum_probs=15.7
Q ss_pred cccccccCcccccccCCC
Q 004706 265 CFVCGQVGHLAAECHGKP 282 (734)
Q Consensus 265 c~~c~q~~h~~~~c~~~~ 282 (734)
|+.|++.||++.+|..+.
T Consensus 122 C~~Cg~~GH~~r~Cp~~~ 139 (148)
T 3ts2_A 122 CHFCQSINHMVASCPLKA 139 (148)
T ss_dssp CTTTCCSSCCGGGCTTTT
T ss_pred ccccCCcCCEeccCcCCC
Confidence 889999999999997553
No 37
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=30.09 E-value=16 Score=30.59 Aligned_cols=19 Identities=37% Similarity=0.968 Sum_probs=16.6
Q ss_pred CcccccccccCcccccccC
Q 004706 262 QEKCFVCGQVGHLAAECHG 280 (734)
Q Consensus 262 ~~~c~~c~q~~h~~~~c~~ 280 (734)
...|+.|++.||++.+|..
T Consensus 24 ~~~C~~Cg~~GH~a~~C~~ 42 (74)
T 2li8_A 24 GDRCYNCGGLDHHAKECKL 42 (74)
T ss_dssp TSCCTTTCCSSSCTTTCSS
T ss_pred CCcccccCCcCcCcccCCC
Confidence 3579999999999999974
No 38
>2kfe_A Meucin-24; alpha-helix, antimicrobial protein; NMR {Synthetic}
Probab=25.23 E-value=56 Score=22.16 Aligned_cols=21 Identities=24% Similarity=0.537 Sum_probs=16.7
Q ss_pred ccHHHHHHHHHHHHHHHHHHhc
Q 004706 164 GTQFMAVLSAALQYFIQARLNQ 185 (734)
Q Consensus 164 GT~FM~~L~~~L~~yi~~kl~~ 185 (734)
|++||.+|.+.|.. +.+|+.+
T Consensus 3 gkei~~kiK~kl~~-akdK~k~ 23 (26)
T 2kfe_A 3 GREFMSNLKEKLSG-VKEKMKN 23 (26)
T ss_dssp THHHHHHHHHHHHH-HHHHTTT
T ss_pred hhHHHHHHHHHHHH-HHHHHHc
Confidence 89999999999875 5566654
No 39
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=24.92 E-value=30 Score=31.22 Aligned_cols=19 Identities=32% Similarity=0.978 Sum_probs=16.7
Q ss_pred CCcccccccccCccccccc
Q 004706 261 QQEKCFVCGQVGHLAAECH 279 (734)
Q Consensus 261 ~~~~c~~c~q~~h~~~~c~ 279 (734)
....|+.|++.||++.+|.
T Consensus 104 ~~~~Cy~Cg~~GH~a~dCp 122 (124)
T 2lli_A 104 HTIYCYNCGGKGHFGDDCK 122 (124)
T ss_dssp CCCCTTTTSSSCTTTTTSC
T ss_pred CCCCcCCCCCCCcCcccCc
Confidence 3568999999999999995
Done!