Query 002147
Match_columns 959
No_of_seqs 261 out of 552
Neff 4.7
Searched_HMMs 29240
Date Mon Mar 25 14:20:06 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/002147.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/002147hhsearch_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 9E-228 3E-232 1991.7 58.6 708 1-726 4-872 (899)
2 3pie_A 5'->3' exoribonuclease 100.0 3E-190 1E-194 1711.6 56.5 622 1-733 1-724 (1155)
3 2y35_A LD22664P; hydrolase-DNA 100.0 9E-174 3E-178 1585.0 53.0 561 1-625 1-585 (1140)
4 1b43_A Protein (FEN-1); nuclea 98.3 1.3E-06 4.5E-11 96.2 11.0 151 51-241 23-180 (340)
5 1rxw_A Flap structure-specific 98.3 7.5E-06 2.6E-10 90.1 16.5 33 334-368 223-255 (336)
6 3qe9_Y Exonuclease 1; exonucle 98.2 4.1E-05 1.4E-09 85.1 18.4 172 1-241 1-178 (352)
7 1a76_A Flap endonuclease-1 pro 98.1 5.1E-06 1.8E-10 91.1 10.1 92 191-356 143-235 (326)
8 3ory_A Flap endonuclease 1; hy 97.8 0.00058 2E-08 76.3 18.8 134 158-369 138-272 (363)
9 3q8k_A Flap endonuclease 1; he 97.5 0.0013 4.5E-08 72.8 16.4 233 2-356 1-242 (341)
10 1ul1_X Flap endonuclease-1; pr 97.4 0.00063 2.2E-08 76.2 11.4 229 2-355 1-241 (379)
11 2izo_A FEN1, flap structure-sp 97.2 0.0028 9.5E-08 70.1 13.4 212 51-356 20-244 (346)
12 1exn_A 5'-exonuclease, 5'-nucl 96.4 0.033 1.1E-06 60.6 13.8 51 51-108 21-71 (290)
13 1dsq_A Nucleic acid binding pr 88.3 0.2 6.8E-06 35.5 1.8 20 262-281 2-21 (26)
14 1nc8_A Nucleocapsid protein; H 87.3 0.29 9.9E-06 35.5 2.2 19 262-280 6-24 (29)
15 1a6b_B Momulv, zinc finger pro 83.5 0.68 2.3E-05 36.3 2.8 22 261-282 9-30 (40)
16 1u6p_A GAG polyprotein; MLV, A 79.6 0.98 3.3E-05 37.9 2.5 22 262-283 23-44 (56)
17 2ysa_A Retinoblastoma-binding 67.5 2.1 7.1E-05 35.7 1.6 18 262-279 7-24 (55)
18 2ec7_A GAG polyprotein (PR55GA 59.3 3.7 0.00013 32.9 1.7 19 262-280 6-24 (49)
19 2bl6_A Nucleocapsid protein P1 57.9 3.8 0.00013 30.9 1.4 17 263-279 20-36 (37)
20 2a51_A Nucleocapsid protein; s 54.5 4.7 0.00016 30.7 1.4 17 264-280 2-18 (39)
21 1cl4_A Protein (GAG polyprotei 52.6 5.9 0.0002 32.8 1.9 21 262-282 30-50 (60)
22 2a51_A Nucleocapsid protein; s 51.4 5.8 0.0002 30.2 1.5 18 262-279 21-38 (39)
23 2ihx_A Nucleocapsid (NC) prote 51.3 6 0.00021 33.0 1.7 19 263-281 31-49 (61)
24 1a1t_A Nucleocapsid protein; s 51.0 7.2 0.00025 31.7 2.1 19 262-280 12-30 (55)
25 2ec7_A GAG polyprotein (PR55GA 49.3 7.8 0.00027 31.0 2.0 19 263-281 28-46 (49)
26 2bl6_A Nucleocapsid protein P1 48.9 6.4 0.00022 29.6 1.4 17 264-280 2-18 (37)
27 3nyb_B Protein AIR2; polya RNA 48.1 6.9 0.00023 35.0 1.7 20 262-281 46-65 (83)
28 1a1t_A Nucleocapsid protein; s 45.5 9.7 0.00033 30.9 2.1 19 263-281 34-52 (55)
29 2ihx_A Nucleocapsid (NC) prote 44.9 9 0.00031 32.0 1.8 20 262-281 4-23 (61)
30 3ts2_A Protein LIN-28 homolog 44.5 10 0.00036 37.1 2.5 18 264-281 99-116 (148)
31 2cqf_A RNA-binding protein LIN 42.5 9.2 0.00031 32.2 1.5 20 262-281 29-48 (63)
32 1cl4_A Protein (GAG polyprotei 39.9 6.1 0.00021 32.7 0.0 18 264-281 3-20 (60)
33 2cqf_A RNA-binding protein LIN 38.9 11 0.00039 31.6 1.5 19 262-280 7-25 (63)
34 2li8_A Protein LIN-28 homolog 38.8 12 0.0004 32.8 1.6 16 264-279 48-63 (74)
35 3ts2_A Protein LIN-28 homolog 38.3 13 0.00043 36.5 2.0 18 265-282 122-139 (148)
36 2li8_A Protein LIN-28 homolog 35.6 14 0.00048 32.3 1.6 19 262-280 24-42 (74)
37 3nyb_B Protein AIR2; polya RNA 31.2 16 0.00056 32.6 1.4 19 262-280 5-23 (83)
38 2ab9_A Pro-SFTI-1; protein, be 24.4 22 0.00077 25.7 0.8 18 858-875 2-19 (31)
39 2lli_A Protein AIR2; RNA surve 23.4 34 0.0012 32.0 2.1 18 262-279 105-122 (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=8.8e-228 Score=1991.65 Aligned_cols=708 Identities=44% Similarity=0.788 Sum_probs=627.5
Q ss_pred CccchHHHHHHhhCCCcccccccCCCccCCCCccccCCCCCCCCCCcccCeEEEeccccccccccCCCCCCCCCHHHHHH
Q 002147 1 MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKPAPTSYDDVFK 80 (959)
Q Consensus 1 MGVP~FfRWL~~rYP~ii~~~~e~~~~~~~~g~~~p~d~s~pnpng~efDnLYLDMNgIIH~C~H~~~~p~p~te~em~~ 80 (959)
||||+|||||++|||+|+++|+|+.|...++|..+|+|+|+|||||.||||||||||||||+|+|+++.+.|.||++||.
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 99999999999999999999999998877799999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhcccceEEEEEecCCCchhhhHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHcCCccCC-CCCCCccCCc
Q 002147 81 SIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRRFRAAKDAAEAEAEEERLRKEFEEAGKLLSA-KEKPETCDSN 159 (959)
Q Consensus 81 ~If~yID~L~~~VrPrKlLyiAIDGVAPrAKMNQQRsRRFrsakea~~~~~e~~~l~~e~~~~G~~l~~-~~~~~~fDSN 159 (959)
+||+|||+||.+|||||+||||||||||||||||||+||||+|+++++++++.++++++++++|...+. ..+.+.||||
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 999999999999999999999999999999999999999999999998888888899999999943321 1245789999
Q ss_pred ccccccHHHHHHHHHHHHHHHHHHhcCCCCCccEEEEeCCCCCCchhHHHHHHHHHhhcCCCCCCCCcEEEEecCchhHH
Q 002147 160 VITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIM 239 (959)
Q Consensus 160 ~ITPGT~FM~~Ls~~L~~yI~~kl~~dp~W~~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydpNt~HcIYGlDADLIm 239 (959)
||||||+||++|+.+|+|||+.||++||+|++++|||||++||||||||||+|||+||++|+|||||+|||||+||||||
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 hhhccccceEEEeeccccCCCCCcccccccccCcccccccCCCCCCCCCCCCCCCCccccCceEEEehHHHHHHHHhhcC
Q 002147 240 LSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELD 319 (959)
Q Consensus 240 L~LatHe~~f~ILRE~v~~~~~~~~c~~c~q~gh~~~~c~g~~~~~~~d~~~~~~~~~~~~~f~~l~I~vLREYL~~E~~ 319 (959)
|||+||||||+||||+|++.. +|.||.+.+|+|+.+....+.. ......++|+||||++|||||+.||.
T Consensus 244 L~LatHep~f~ILRE~v~~~~--------~q~~~~~~~~~~~~k~~~~~~~---~~~~~~~~f~~l~i~iLREYL~~E~~ 312 (899)
T 3fqd_A 244 LGLATHEPHFRVLREDVFFQQ--------GSTKKTKEERLGIKRLDDVSET---NKVPVKKPFIWLNVSILREYLEVELY 312 (899)
T ss_dssp HHHHTTCSSEEEEEECCC-----------------CTTTTTCCBTTC-------------CCEEEEEHHHHHHHHHHHHC
T ss_pred HhhhccCCceEEEeeecccCc--------Cccccchhhhcccccccccccc---ccccccCceEEEeHHHHHHHHHHHhc
Confidence 999999999999999998753 6789999999987654221111 12345678999999999999999999
Q ss_pred CCCCCCCCchhhhHhHHHHHhhhhcCCCCCCCCccccCcChHHHHHHHHHHHHhhcCCccccCCeechHHHHHHHHHHHH
Q 002147 320 IPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSVAV 399 (959)
Q Consensus 320 ~~~~pf~~dlERiIDDFVFLcffvGNDFLPhLPsl~I~eGaid~Li~~Yk~~l~~~~gYLT~~G~Inl~rl~~fl~~L~~ 399 (959)
++++||++|+||+||||||||||||||||||||+|+|++|||+.|+++||+.|++++||||++|+||++||+.||+.||.
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 HHHHHHHHHHHHHHHHHH-----------HHH------------------------------HH---H------------
Q 002147 400 YEDQIFQKRTRIQQAYEY-----------NEA------------------------------MK---L------------ 423 (959)
Q Consensus 400 ~E~~iF~kr~~~~~~~~~-----------ne~------------------------------~~---~------------ 423 (959)
+|++||++|.+.++.... ... .+ .
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 999999987643210000 000 00 0
Q ss_pred ----------------------h-------h-----------------hcc----c-----hh----hh-----------
Q 002147 424 ----------------------N-------A-----------------RRE----S-----SE----EL----------- 433 (959)
Q Consensus 424 ----------------------~-------~-----------------r~~----~-----~~----~~----------- 433 (959)
+ + +.. . .. +.
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 0 0 000 0 00 00
Q ss_pred --------h-------------cc---ccccccccccCCcchHHhHHHHhhCCCChhHHHHHHHHHHHHHHHhHHhhhcc
Q 002147 434 --------L-------------QA---PVAVADTVKLGEPGYKERYYADKFEISNPEEIDKVKKDVVLKYVEGLCWVCRY 489 (959)
Q Consensus 434 --------l-------------~~---~~~~~D~vkl~e~gyk~rYY~~KF~~~~~~d~~~~~~~vv~~YveGL~WVL~Y 489 (959)
. .. ..+..|.++|||+|||+|||++||+++..+ ++++++||++|||||||||+|
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 0 00 001346789999999999999999996543 478899999999999999999
Q ss_pred cccccCccccccccCCCccccchhcccCcccccccCCCCChHhHhhhccCCCCCCCCcHHHHhhhCCCCCCCcccCCCCc
Q 002147 490 YYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAASSSALPEKYRNLMTDPSSPIYKFYPPDF 569 (959)
Q Consensus 490 Yy~GcpSW~WyYPYHYAPfasDl~~l~~~~i~F~~g~Pf~PfeQLM~VLP~~S~~~LP~~~~~LM~dp~SpI~dfYP~dF 569 (959)
||+|||||+||||||||||||||+++.+++|+|++|+||+|||||||||||+|+++||++|++||+||+|||+||||++|
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 cccCCCCccceeeeccccCCCHHHHHHHHHhhhcCCCHHHHhhcCCCCcEEEecCCCcchHHHH-HHHhhccCCCCCCCC
Q 002147 570 QIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLYVHPQHPLYQQIT-LYCQLYHQLPPQDRF 648 (959)
Q Consensus 570 ~iD~nGKk~~WqgVvlLPFIDe~rLl~a~~~~~~~Lt~eE~~RN~~g~d~lf~~~~~~l~~~i~-~~~~~~~~~~~~~~~ 648 (959)
+|||||||++||||||||||||+|||+||++++++||+||++||++|.++||++++||+++.+. .+|... ....
T Consensus 711 eiDmNGKk~~WqgVvlLPFIDE~RLL~A~~~~~~~LT~eEk~RN~~G~~~lf~~~~~~l~~~~~~~~y~~~-----~~~~ 785 (899)
T 3fqd_A 711 TIDLNGKKFEWQGVALLPFIDENRLLNAVSKIYPQLTEEESKRNEDGSTLLFISEHHPMFSELVKQLYSKK-----RQGK 785 (899)
T ss_dssp CEECSSSSCTTSSEECCCCCCHHHHHHHHHTTGGGSCHHHHHTTSCCCCEEEEETTSTTHHHHHHHHTSSS-----CSSS
T ss_pred cccCCCCccccceEEecCccCHHHHHHHHHHhhccCCHHHHHhccCCCcEEEEeCCCchHHHHHHHhcccc-----ccCc
Confidence 9999999999999999999999999999999999999999999999999999999999999984 565321 1235
Q ss_pred cccccccccCCCccceeecccCCCCcccCCCCC--CCCC------CCCCcEEEEEeeCCC-CCCCCCCCCCCCCCCCCcC
Q 002147 649 AWEIDVNASGGMNGYIWLCERNGLRSIIPSPVK--GLPD------IERNQAINVTYLNPQ-KHRHIPEPPKGATIPAKTL 719 (959)
Q Consensus 649 ~~~id~~~~~g~~G~v~~~~~~~~~~~~~sP~~--~l~d------i~~n~~~~~~y~~P~-~~~~~~~ll~g~~~p~~~l 719 (959)
.++|||+.+.||+|+|++++.+.+++++.||+. +||| |.+|+++|+.|++|+ .+.|+|+||+||++|+++|
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 7899999999999999999
Q ss_pred CCCCCCC
Q 002147 720 KPIDIKP 726 (959)
Q Consensus 720 ~~~d~~~ 726 (959)
++.|++.
T Consensus 866 ~~~D~~~ 872 (899)
T 3fqd_A 866 TPEDINQ 872 (899)
T ss_dssp CHHHHHH
T ss_pred CHHHHHH
Confidence 9999874
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=3.2e-190 Score=1711.57 Aligned_cols=622 Identities=40% Similarity=0.756 Sum_probs=531.8
Q ss_pred CccchHHHHHHhhCCCcccccccCCCccCCCCccccCCCCCCCCCCcccCeEEEeccccccccccCCCCC--CCCCHHHH
Q 002147 1 MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKP--APTSYDDV 78 (959)
Q Consensus 1 MGVP~FfRWL~~rYP~ii~~~~e~~~~~~~~g~~~p~d~s~pnpng~efDnLYLDMNgIIH~C~H~~~~p--~p~te~em 78 (959)
||||+|||||++|||+|+ ..+++ ..+| +|||||||||||||+|+|+++.+ .+.||++|
T Consensus 1 MGVP~ffrwl~~ryP~i~-~~~~~--------~~~p-----------e~DnLYlDmNgIIH~c~h~~~~~~~~~~te~e~ 60 (1155)
T 3pie_A 1 MGIPKFFHFISERWPQIS-QLIDG--------SQIP-----------EFDNLYLDMNSILHNCTHGDGSEVNSRLSEEEV 60 (1155)
T ss_pred CChHHHHHHHHHhCcchh-hcccC--------CCCC-----------cCCeEEEecccceeeeecCCCCccccCCCHHHH
Confidence 999999999999999975 33332 2233 89999999999999999999876 68999999
Q ss_pred HHHHHHHHHHHHhhcccceEEEEEecCCCchhhhHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHcCCccCCCCCCCccCC
Q 002147 79 FKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRRFRAAKDAAEAEAEEERLRKEFEEAGKLLSAKEKPETCDS 158 (959)
Q Consensus 79 ~~~If~yID~L~~~VrPrKlLyiAIDGVAPrAKMNQQRsRRFrsakea~~~~~e~~~l~~e~~~~G~~l~~~~~~~~fDS 158 (959)
|.+||+|||+||++|||||+||||||||||||||||||+||||+|++++++. +...++|..++ +.+.|||
T Consensus 61 ~~~if~yid~l~~~vrPrkllyiAiDGVAPrAKmnqQR~RRfrsa~~~~~~~-------~~~~~~g~~~~---~~~~fds 130 (1155)
T 3pie_A 61 YSKIFSYIDHLFHTIKPKQTFYMAIDGVAPRAKMNQQRARRFRTAMDAEKAL-------QKAIENGDELP---KGEPFDS 130 (1155)
T ss_pred HHHHHHHHHHHHHhcCcceEEEEEecCCCChhHHHHHHHHHHHhhhhhhHHH-------HHHHhcCCcCC---ccccccc
Confidence 9999999999999999999999999999999999999999999999875432 12234676654 3468999
Q ss_pred cccccccHHHHHHHHHHHHHHHHHHhcCCCCCccEEEEeCCCCCCchhHHHHHHHHHhhcCCCCCCCCcEEEEecCchhH
Q 002147 159 NVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLI 238 (959)
Q Consensus 159 N~ITPGT~FM~~Ls~~L~~yI~~kl~~dp~W~~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydpNt~HcIYGlDADLI 238 (959)
|||||||+||++|+.+|+|||++|+++||.|++++|||||++||||||||||+|||++|++|+|||||+|||||+|||||
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 HhhhccccceEEEeeccccCCCCCcccccccccCcccccccCCCCCCCCCCCCCCCCccccCceEEEehHHHHHHHHhhc
Q 002147 239 MLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYEL 318 (959)
Q Consensus 239 mL~LatHe~~f~ILRE~v~~~~~~~~c~~c~q~gh~~~~c~g~~~~~~~d~~~~~~~~~~~~~f~~l~I~vLREYL~~E~ 318 (959)
||||+||||||+||||++.|..+..+ . ..+..++|+||||++|||||+.||
T Consensus 211 mL~L~thep~f~iLRe~v~f~~~~~~--------------------------~---~~~~~~~f~~l~i~~LREyL~~ef 261 (1155)
T 3pie_A 211 ILGLSTHDHHFCLLREEVTFGKRSSS--------------------------V---KTLETQNFFLLHLSILREYLALEF 261 (1155)
T ss_pred HhhhccCCCcEEEEeeccccCccccc--------------------------c---cccccCCeEEEEHHHHHHHHHHHH
Confidence 99999999999999999987542210 0 012346899999999999999999
Q ss_pred CC--CCCCCCCchhhhHhHHHHHhhhhcCCCCCCCCccccCcChHHHHHHHHHHHHhhcCCccccCCeechHHHHHHHHH
Q 002147 319 DI--PNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQS 396 (959)
Q Consensus 319 ~~--~~~pf~~dlERiIDDFVFLcffvGNDFLPhLPsl~I~eGaid~Li~~Yk~~l~~~~gYLT~~G~Inl~rl~~fl~~ 396 (959)
.. +.++|++|+|||||||||||||+|||||||||+|+|++|||+.|+++||+.|++++||||++|+||++||+.||+.
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 5688999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHH----HHHHH----HHHHHh----------------hhc-------c---------------ch
Q 002147 397 VAVYEDQIFQKRTRIQQ----AYEYN----EAMKLN----------------ARR-------E---------------SS 430 (959)
Q Consensus 397 L~~~E~~iF~kr~~~~~----~~~~n----e~~~~~----------------~r~-------~---------------~~ 430 (959)
||++|++||++|....+ ..++. +..+.+ .+. + ..
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 99999999998853211 00000 000000 000 0 00
Q ss_pred -----h---hhh-----c-----------c------------c--cc-----------cccccccCCcchHHhHHHHhhC
Q 002147 431 -----E---ELL-----Q-----------A------------P--VA-----------VADTVKLGEPGYKERYYADKFE 461 (959)
Q Consensus 431 -----~---~~l-----~-----------~------------~--~~-----------~~D~vkl~e~gyk~rYY~~KF~ 461 (959)
. +.+ . . + .+ ..+..+.+.+|||+|||++||+
T Consensus 422 ~~~~~~~~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ee~~~~~~~~~~~~~~~~~~~~~k~rYY~~Kf~ 501 (1155)
T 3pie_A 422 DKELVRANLDFLKEFAFDLGLILAHSKSKDLYYFKLDLDSINXXXXXXXXXXXXXXXXXXXIYSERFVEWKDQYYKDKLD 501 (1155)
T ss_pred chhhhhhhHHHHHHHHHhhcccccccccccccceecccccccccccccccccccccccccccchhhhhhHHHHHHHHhcC
Confidence 0 000 0 0 0 00 0001112236899999999999
Q ss_pred CCChhHHHHHHHHHHHHHHHhHHhhhcccccccCccccccccCCCccccchhcccCcccccccCCCCChHhHhhhccCCC
Q 002147 462 ISNPEEIDKVKKDVVLKYVEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMGTLPAA 541 (959)
Q Consensus 462 ~~~~~d~~~~~~~vv~~YveGL~WVL~YYy~GcpSW~WyYPYHYAPfasDl~~l~~~~i~F~~g~Pf~PfeQLM~VLP~~ 541 (959)
++..+ . +.+++||++|||||||||+|||+|||||+||||||||||||||+++.+++|+|++|+||+|||||||||||+
T Consensus 502 ~~~~~-~-e~~~~v~~~YveGL~WVL~YYy~Gc~SW~WyYPYHYAPfasDl~~~~~~~i~F~~g~Pf~PfeQLm~VLP~~ 579 (1155)
T 3pie_A 502 FSIND-T-DSLKEMTENYVGGLQWVLYYYYRGCPSWSWYYRYHYAPRISDVIKGIDQNIEFHKGQPFKPFQQLMAVLPER 579 (1155)
T ss_pred CCcCC-H-HHHHHHHHHHHHHHHhHHHHHhCCCCCccccCccccccHHHHHHhhcccceeecCCCCCCcHHHHhhhcChh
Confidence 96533 3 456799999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCcHHHHhhhCCCCCCCcccCCCCccccCCCCccceeeeccccCCCHHHHHHHHHhhhcCCCHHHHhhcCCCCcEEE
Q 002147 542 SSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVMLDLLY 621 (959)
Q Consensus 542 S~~~LP~~~~~LM~dp~SpI~dfYP~dF~iD~nGKk~~WqgVvlLPFIDe~rLl~a~~~~~~~Lt~eE~~RN~~g~d~lf 621 (959)
|+++||++|++||+||+|||+||||++|+||||||+++||||||||||||+|||+||++++++||+||++||++|.++||
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 ecCCCcchHHHHHHHhhccCCCCCCCCcccccccccCCCccceeecccCCCCcccCCCCCC-CCCCCCCcEEEEEeeCCC
Q 002147 622 VHPQHPLYQQITLYCQLYHQLPPQDRFAWEIDVNASGGMNGYIWLCERNGLRSIIPSPVKG-LPDIERNQAINVTYLNPQ 700 (959)
Q Consensus 622 ~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~id~~~~~g~~G~v~~~~~~~~~~~~~sP~~~-l~di~~n~~~~~~y~~P~ 700 (959)
+++.. ++ .+++||+++ +|||.+++|+...|..|.
T Consensus 660 ~~~~~-------------------------~~--------------------~~~~s~l~~~f~~i~~~~~~~~~~~~p~ 694 (1155)
T 3pie_A 660 IFNPQ-------------------------VD--------------------TVYKTPLAGLFNDIEHNHCIEREFIPES 694 (1155)
T ss_pred EecCC-------------------------CC--------------------ceeCCCccccCCCcccceEEEEeecCCC
Confidence 97630 11 346677765 599999999999999998
Q ss_pred CCC--CCCCCCCCCCCCCCcCCCCCCCCCCccccc
Q 002147 701 KHR--HIPEPPKGATIPAKTLKPIDIKPFPTLWHE 733 (959)
Q Consensus 701 ~~~--~~~~ll~g~~~p~~~l~~~d~~~~~~lw~~ 733 (959)
... ....|++|+.+....| ..+|+|.|-
T Consensus 695 ~~~~~~~~~l~~g~~~g~~~l-----~GFPtl~~l 724 (1155)
T 3pie_A 695 MENVKFLFGLPKGAKLGASSL-----AGFPSLKTL 724 (1155)
T ss_pred cccceecccCCcccccCcccc-----CCCCccccc
Confidence 763 4678999998877655 456887654
No 3
>2y35_A LD22664P; hydrolase-DNA complex, RNA degradation, exonuclease 5'-3', R interference; 3.20A {Drosophila melanogaster}
Probab=100.00 E-value=9.4e-174 Score=1585.01 Aligned_cols=561 Identities=42% Similarity=0.797 Sum_probs=474.9
Q ss_pred CccchHHHHHHhhCCCcccccccCCCccCCCCccccCCCCCCCCCCcccCeEEEeccccccccccCCCCCC--CCCHHHH
Q 002147 1 MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKPA--PTSYDDV 78 (959)
Q Consensus 1 MGVP~FfRWL~~rYP~ii~~~~e~~~~~~~~g~~~p~d~s~pnpng~efDnLYLDMNgIIH~C~H~~~~p~--p~te~em 78 (959)
||||+|||||++|||.+.. .+.+. .+ .+|||||||||||||+|+|+++.+. +.+|++|
T Consensus 1 MGVp~ffrwl~~ryP~~~~-~~~~~--------~~-----------~e~DnLYlDmNgIIH~c~h~~~~~~~~~~~e~e~ 60 (1140)
T 2y35_A 1 MGVPKFFRYISERYPCLSE-LAREH--------CI-----------PEFDNLYLDMNGIVHNCSHPDDNNIHFHLEEEQI 60 (1140)
T ss_dssp CCSCHHHHHHHHHSGGGEE-EEETT--------TS-----------CCCSEEEEEHHHHHHHHHCC------CCCCHHHH
T ss_pred CChhHHHHHHHHHCCchhh-hcccc--------CC-----------CcCCeEEEecchhhhhhcCCCCCCCCCCCCHHHH
Confidence 9999999999999998643 32221 11 2799999999999999999988654 4699999
Q ss_pred HHHHHHHHHHHHhhcccceEEEEEecCCCchhhhHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHcCCccCCCCCCCccCC
Q 002147 79 FKSIFDYIDHIFLLVRPRKLLYLAIDGVAPRAKMNQQRTRRFRAAKDAAEAEAEEERLRKEFEEAGKLLSAKEKPETCDS 158 (959)
Q Consensus 79 ~~~If~yID~L~~~VrPrKlLyiAIDGVAPrAKMNQQRsRRFrsakea~~~~~e~~~l~~e~~~~G~~l~~~~~~~~fDS 158 (959)
|.+||+|||+||++|||||+||||||||||||||||||+||||+|++++..+++ ..++|.. .+.+.|||
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 23468999
Q ss_pred cccccccHHHHHHHHHHHHHHHHHHhcCCCCCccEEEEeCCCCCCchhHHHHHHHHHhhcCCCCCCCCcEEEEecCchhH
Q 002147 159 NVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLI 238 (959)
Q Consensus 159 N~ITPGT~FM~~Ls~~L~~yI~~kl~~dp~W~~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydpNt~HcIYGlDADLI 238 (959)
|||||||+||.+|+++|++||+.|+++||.|++++|||||++||||||||||+|||+||++|+||||++|||||+|||||
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 HhhhccccceEEEeeccccCCCCCcccccccccCcccccccCCCCCCCCCCCCCCCCccccCceEEEehHHHHHHHHhhc
Q 002147 239 MLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYEL 318 (959)
Q Consensus 239 mL~LatHe~~f~ILRE~v~~~~~~~~c~~c~q~gh~~~~c~g~~~~~~~d~~~~~~~~~~~~~f~~l~I~vLREYL~~E~ 318 (959)
|||||||||||+||||++.|....++ .....+.|++|||++|||||+.||
T Consensus 210 mL~L~the~~f~ilRe~v~f~~~~~~------------------------------~~~~~~~f~~l~i~~lReyL~~ef 259 (1140)
T 2y35_A 210 ILGLCTHELHFVVLREEVKFGRNVKR------------------------------TSVEETRFFLLHLGLLREYLELEF 259 (1140)
T ss_dssp HHHHHTTCSSEEEEEESSCTTCCTTC------------------------------CCGGGCEEEEEEHHHHHHHHHHHG
T ss_pred HHHHccCCCcEEEeeccccccccccc------------------------------ccccccceEEEEehHHHHHHHHHh
Confidence 99999999999999999977432110 112346899999999999999999
Q ss_pred CCC-CCCCCCchhhhHhHHHHHhhhhcCCCCCCCCccccCcChHHHHHHHHHHHHhhcCCccccCCeechHHHHHHHHHH
Q 002147 319 DIP-NPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVYRREFTAMGGYLTDAGEVLLDRVEKFIQSV 397 (959)
Q Consensus 319 ~~~-~~pf~~dlERiIDDFVFLcffvGNDFLPhLPsl~I~eGaid~Li~~Yk~~l~~~~gYLT~~G~Inl~rl~~fl~~L 397 (959)
... ..+|++|+||+||||||||||+|||||||||+|+|++|||+.|+++|++.+++++||||++|+||+++|+.||+.|
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 753 3578999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHH--------HHHHHh--hhccch----h--hhhc--ccccccc--ccccC-CcchHHhHH
Q 002147 398 AVYEDQIFQKRTRIQQAYEYN--------EAMKLN--ARRESS----E--ELLQ--APVAVAD--TVKLG-EPGYKERYY 456 (959)
Q Consensus 398 ~~~E~~iF~kr~~~~~~~~~n--------e~~~~~--~r~~~~----~--~~l~--~~~~~~D--~vkl~-e~gyk~rYY 456 (959)
++.|.++|++|....+....+ .++... ...+.. . .... ...+..| .+..+ .++||++||
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 999999999874211000000 000000 000000 0 0000 0000011 11111 268999999
Q ss_pred HHhhCCCChhHHHHHHHHHHHHHHHhHHhhhcccccccCccccccccCCCccccchhcccCcccccccCCCCChHhHhhh
Q 002147 457 ADKFEISNPEEIDKVKKDVVLKYVEGLCWVCRYYYQDVCSWQWFYPYHYAPFASDLKDLSDLEITFFLGEPFRPFDQLMG 536 (959)
Q Consensus 457 ~~KF~~~~~~d~~~~~~~vv~~YveGL~WVL~YYy~GcpSW~WyYPYHYAPfasDl~~l~~~~i~F~~g~Pf~PfeQLM~ 536 (959)
++||+.+..+ ++++++|++|||||||||+|||+|||||+||||||||||||||+++.+++++|++|+||+|||||||
T Consensus 420 ~~Kf~~~~~~---~~~~~~~~~YveGl~Wvl~YYy~G~~SW~WyYpyhYAP~~sDl~~~~~~~i~F~~g~Pf~PfeQLm~ 496 (1140)
T 2y35_A 420 RNKFKRDPND---ELIEELCHHYVNALQWVLDYYYRGVQSWDWYYPFHYTPFISDLKNIEQVEIAFHMGTPFLPFQQLLA 496 (1140)
T ss_dssp HHHHCSCCCH---HHHHHHHHHHHHHHHHHHHHHHTSCSCSSCCCCCSSCCCGGGCCCCTTCCCCCCCCCCCCHHHHHHH
T ss_pred HHHhCCCCcH---HHHHHHHHHHHHHHHHHHHHhcCCCCCCCcccCCCcCchHHHHHhhccccccccCCCCCChHHHHHh
Confidence 9999986533 5678999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCCCCCCCcHHHHhhhCCCCCCCcccCCCCccccCCCCccceeeeccccCCCHHHHHHHHHhhhcCCCHHHHhhcCCC
Q 002147 537 TLPAASSSALPEKYRNLMTDPSSPIYKFYPPDFQIDMNGKRFAWQGVVKLPFIDEKLLLRQTKKLEVFLTEEELFRNSVM 616 (959)
Q Consensus 537 VLP~~S~~~LP~~~~~LM~dp~SpI~dfYP~dF~iD~nGKk~~WqgVvlLPFIDe~rLl~a~~~~~~~Lt~eE~~RN~~g 616 (959)
||||+|+++||++|++||++|+|||+||||++|+||||||+++|||||||||||++||++|++++++.||+||++||++|
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 CcEEEecCC
Q 002147 617 LDLLYVHPQ 625 (959)
Q Consensus 617 ~d~lf~~~~ 625 (959)
.+++|.++.
T Consensus 577 ~~~~~~~~~ 585 (1140)
T 2y35_A 577 PMYVYKYST 585 (1140)
T ss_dssp CEEEEEECS
T ss_pred CceEEEecc
Confidence 999998764
No 4
>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=98.35 E-value=1.3e-06 Score=96.23 Aligned_cols=151 Identities=15% Similarity=0.189 Sum_probs=77.5
Q ss_pred eEEEeccccccccccCC----CCCCCCCHHHHHHHHHHHHHHHHhhc-ccceEEEEEecCCCchhhhHHHHHhhhhHHHH
Q 002147 51 NLYLDMNGIIHPCFHPD----GKPAPTSYDDVFKSIFDYIDHIFLLV-RPRKLLYLAIDGVAPRAKMNQQRTRRFRAAKD 125 (959)
Q Consensus 51 nLYLDMNgIIH~C~H~~----~~p~p~te~em~~~If~yID~L~~~V-rPrKlLyiAIDGVAPrAKMNQQRsRRFrsake 125 (959)
-|-||.++.||.+.|.- +.+.-......-..|+.++.+++.++ .|-+ +++++||.+|-.|......||-+....
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 78999999999886622 11100000000123333333333333 4555 567999999977766544444332211
Q ss_pred HHHHHHHHHHHHHHHHHcCCccCCCCCCCcc--CCcccccccHHHHHHHHHHHHHHHHHHhcCCCCCccEEEEeCCCCCC
Q 002147 126 AAEAEAEEERLRKEFEEAGKLLSAKEKPETC--DSNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPG 203 (959)
Q Consensus 126 a~~~~~e~~~l~~e~~~~G~~l~~~~~~~~f--DSN~ITPGT~FM~~Ls~~L~~yI~~kl~~dp~W~~lkVIlSds~VPG 203 (959)
.+. +.+.++ .|..- ....| .++.||| +... .++..+... ++.+|. .|+
T Consensus 102 ~~~-------~~~~yk-~g~~~----~~~~~~~~~~~vt~--~~~~----~~~~lL~~~--------gip~i~----ap~ 151 (340)
T 1b43_A 102 EEK-------WREALE-KGEIE----EARKYAQRATRVNE--MLIE----DAKKLLELM--------GIPIVQ----APS 151 (340)
T ss_dssp HHH-------HHHHHH-HSCHH----HHHHHHHTSGGGTH--HHHH----HHHHHHHHH--------TCCEEE----CSS
T ss_pred HHH-------HHHHHH-cCCHH----HHHHHHHhcCCCCH--HHHH----HHHHHHHHc--------CCcEEE----cCh
Confidence 111 011111 11100 00011 1234544 1222 233333221 466776 569
Q ss_pred chhHHHHHHHHHhhcCCCCCCCCcEEEEecCchhHHhh
Q 002147 204 EGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLS 241 (959)
Q Consensus 204 EGEHKImdfIR~qr~~p~ydpNt~HcIYGlDADLImL~ 241 (959)
|+|-=|-..-|+ ...++|++.|.|+++++
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 999988877663 14578999999999997
No 5
>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=98.33 E-value=7.5e-06 Score=90.10 Aligned_cols=33 Identities=15% Similarity=0.475 Sum_probs=24.3
Q ss_pred hHHHHHhhhhcCCCCCCCCccccCcChHHHHHHHH
Q 002147 334 DDFVFLCFFVGNDFLPHMPTLEIREGAINLLMHVY 368 (959)
Q Consensus 334 DDFVFLcffvGNDFLPhLPsl~I~eGaid~Li~~Y 368 (959)
+.||.+|.|+|+|++|.+|.+-.+. |+ .|+..|
T Consensus 223 ~q~id~~~L~GsD~ipGv~GiG~Kt-A~-kLl~~~ 255 (336)
T 1rxw_A 223 EQLIDIAILVGTDYNEGVKGVGVKK-AL-NYIKTY 255 (336)
T ss_dssp HHHHHHHHHHCBTTBCCCTTCCHHH-HH-HHHHHH
T ss_pred HHHHHHHhhcCCCCCCCCCCcCHHH-HH-HHHHHc
Confidence 5788899999999999999864432 33 345544
No 6
>3qe9_Y Exonuclease 1; exonuclease, hydrolase-DNA complex; HET: DNA; 2.51A {Homo sapiens} PDB: 3qeb_Z* 3qea_Z*
Probab=98.18 E-value=4.1e-05 Score=85.13 Aligned_cols=172 Identities=17% Similarity=0.239 Sum_probs=88.5
Q ss_pred CccchHHHHHHhhCCCcccccccCCCccCCCCccccCCCCCCCCCCcccCeEEEeccccccccccCC----CCCCCCCHH
Q 002147 1 MGVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPD----GKPAPTSYD 76 (959)
Q Consensus 1 MGVP~FfRWL~~rYP~ii~~~~e~~~~~~~~g~~~p~d~s~pnpng~efDnLYLDMNgIIH~C~H~~----~~p~p~te~ 76 (959)
|||.++..||...-+.+ .+ ++ -.| =-|=||..+.||...... ..-.+++
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 99999999998753321 01 00 012 157788888888632211 0111222
Q ss_pred HHHHHHHHHHHHH-HhhcccceEEEEEecCCCchhhhHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHcCCccCCCCCCCc
Q 002147 77 DVFKSIFDYIDHI-FLLVRPRKLLYLAIDGVAPRAKMNQQRTRRFRAAKDAAEAEAEEERLRKEFEEAGKLLSAKEKPET 155 (959)
Q Consensus 77 em~~~If~yID~L-~~~VrPrKlLyiAIDGVAPrAKMNQQRsRRFrsakea~~~~~e~~~l~~e~~~~G~~l~~~~~~~~ 155 (959)
.++.-++..+..| -.-|+| ++.+||.+|-.|-....+||.+.....+...+. .++|..- +..+.
T Consensus 54 ~l~~~~~r~l~~L~~~gI~P----vfVFDG~~~p~Kk~~~~~Rr~~r~~~~~~~~~~--------~~~g~~~---~a~~~ 118 (352)
T 3qe9_Y 54 RYVGFCMKFVNMLLSHGIKP----ILVFDGCTLPSKKEVERSRRERRQANLLKGKQL--------LREGKVS---EAREC 118 (352)
T ss_dssp HHHHHHHHHHHHHHHTTCEE----EEEECCSCCTTTHHHHHHHHHHHHHHHHHHHHH--------TTSSCCH---HHHHH
T ss_pred HHHHHHHHHHHHHHHcCCEE----EEEECCCCcHHHHHHHHHHHHHHHHHHHHHHHH--------HHhCCHH---HHHHH
Confidence 2222222223322 122344 566999999888776665655443222211110 0112100 00011
Q ss_pred cC-CcccccccHHHHHHHHHHHHHHHHHHhcCCCCCccEEEEeCCCCCCchhHHHHHHHHHhhcCCCCCCCCcEEEEecC
Q 002147 156 CD-SNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLD 234 (959)
Q Consensus 156 fD-SN~ITPGT~FM~~Ls~~L~~yI~~kl~~dp~W~~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydpNt~HcIYGlD 234 (959)
|- +..||| + +...++..+.. -++.+|.+ |+|+|-=|--.-++ .....|++.|
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 21 235676 2 23334443332 25788874 79999977665551 3467999999
Q ss_pred chhHHhh
Q 002147 235 ADLIMLS 241 (959)
Q Consensus 235 ADLImL~ 241 (959)
.|+++++
T Consensus 172 ~Dll~~~ 178 (352)
T 3qe9_Y 172 SALLAFG 178 (352)
T ss_dssp GGGGGGT
T ss_pred cCccccc
Confidence 9999887
No 7
>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=98.15 E-value=5.1e-06 Score=91.05 Aligned_cols=92 Identities=21% Similarity=0.347 Sum_probs=61.0
Q ss_pred ccEEEEeCCCCCCchhHHHHHHHHHhhcCCCCCCCCcEEEEecCchhHHhhhccccceEEEeeccccCCCCCcccccccc
Q 002147 191 FTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQ 270 (959)
Q Consensus 191 ~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydpNt~HcIYGlDADLImL~LatHe~~f~ILRE~v~~~~~~~~c~~c~q 270 (959)
++.+|. .|||+|-=|-.+-++ ...++|++.|.|+++++ + ++ ++|. +..
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--VVRN---LTT---------- 190 (326)
T ss_dssp TCCEEE----CSSCHHHHHHHHHHT---------TSSSEEECSSSGGGGGT-C---SE--EEES---SSS----------
T ss_pred CCCeEE----CCccHHHHHHHHHHC---------CCEEEEecCCcccceec-C---CE--EEEe---ecC----------
Confidence 456664 589999977777663 34689999999999997 2 23 3332 100
Q ss_pred cCcccccccCCCCCCCCCCCCCCCCccccCceEEEehHHHHHHHHhhcCCCCCCCCCchhhhHhHHHHHhhhhcCCCCC-
Q 002147 271 VGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLP- 349 (959)
Q Consensus 271 ~gh~~~~c~g~~~~~~~d~~~~~~~~~~~~~f~~l~I~vLREYL~~E~~~~~~pf~~dlERiIDDFVFLcffvGNDFLP- 349 (959)
..+.+++++..-+.+.+ .+ + -+.||.+|.|+|+||+|
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 00135567766555443 21 1 25788899999999999
Q ss_pred CCCcccc
Q 002147 350 HMPTLEI 356 (959)
Q Consensus 350 hLPsl~I 356 (959)
++|.+-.
T Consensus 229 GvpGiG~ 235 (326)
T 1a76_A 229 GVKGIGF 235 (326)
T ss_dssp TTTTCCH
T ss_pred CCCCcCH
Confidence 9998743
No 8
>3ory_A Flap endonuclease 1; hydrolase; 2.00A {Desulfurococcus amylolyticus}
Probab=97.81 E-value=0.00058 Score=76.30 Aligned_cols=134 Identities=18% Similarity=0.300 Sum_probs=73.7
Q ss_pred CcccccccHHHHHHHHHHHHHHHHHHhcCCCCCccEEEEeCCCCCCchhHHHHHHHHHhhcCCCCCCCCcEEEEecCchh
Q 002147 158 SNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADL 237 (959)
Q Consensus 158 SN~ITPGT~FM~~Ls~~L~~yI~~kl~~dp~W~~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydpNt~HcIYGlDADL 237 (959)
+..||| +.+..+.+.|+.+ ++.+|.+ |||+|-=|-..-+ .....+|++-|.|+
T Consensus 138 ~~~vt~--~~~~~i~~lL~~~------------GIp~i~a----pgEADaqiA~La~---------~g~~~~I~S~D~D~ 190 (363)
T 3ory_A 138 SAKLTE--EMVRDAKSLLDAM------------GIPWVQA----PAEGEAQAAYIVK---------KGDAYASASQDYDS 190 (363)
T ss_dssp CCCCCH--HHHHHHHHHHHHH------------TCCEEEC----SSCHHHHHHHHHH---------TTSCSEEECSSSHH
T ss_pred cccCCH--HHHHHHHHHHHHC------------CCCEEEe----CccHHHHHHHHHH---------CCCeEEEECCCcCc
Confidence 345777 4445554444321 4667765 7899985544332 13568999999999
Q ss_pred HHhhhccccceEEEeeccccCCCCCcccccccccCcccccccCCCCCCCCCCCCCCCCccccCceEEEehHHHHHHHHhh
Q 002147 238 IMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYE 317 (959)
Q Consensus 238 ImL~LatHe~~f~ILRE~v~~~~~~~~c~~c~q~gh~~~~c~g~~~~~~~d~~~~~~~~~~~~~f~~l~I~vLREYL~~E 317 (959)
++++- ++ ++|.. +..+ +| . .+.. + ......+.+++..-+.+.+
T Consensus 191 l~fg~----~~--v~~~l-~~~~---~~-------------~-~p~~-----~-----~~v~~~~~~~~~~~v~~~~--- 233 (363)
T 3ory_A 191 LLFGS----PK--LVRNL-TISG---RR-------------K-LPRK-----N-----EYVEVKPELIELDKLLVQL--- 233 (363)
T ss_dssp HHTTC----SE--EEEST-TTCE---EE-------------E-CSST-----T-----CEEEECCEEEEHHHHHHHH---
T ss_pred cccCC----Ce--EEEEe-eccc---cc-------------c-CCcc-----c-----cccccceEEEcHHHHHHHh---
Confidence 99973 22 23321 1100 00 0 0000 0 0000124567766655543
Q ss_pred cCCCCCCCCCchhhhHhHHHHHhhhhcCCCCC-CCCccccCcChHHHHHHHHH
Q 002147 318 LDIPNPPFPINFERIVDDFVFLCFFVGNDFLP-HMPTLEIREGAINLLMHVYR 369 (959)
Q Consensus 318 ~~~~~~pf~~dlERiIDDFVFLcffvGNDFLP-hLPsl~I~eGaid~Li~~Yk 369 (959)
. ++ -+.||-+|.|+|+||+| .+|.+-.. .|+ .|+.-|.
T Consensus 234 -g-------l~----~~q~id~~~L~GsDy~p~GVpGIG~K-tA~-kLl~~~g 272 (363)
T 3ory_A 234 -G-------IT----LENLIDIGILLGTDYNPDGFEGIGPK-KAL-QLVKAYG 272 (363)
T ss_dssp -T-------CC----HHHHHHHHHHHCBTTBTTCSTTCCHH-HHH-HHHHHHT
T ss_pred -C-------cC----HHHHHHHHHHhCCCCCCCCCCCcCHH-HHH-HHHHHcC
Confidence 1 22 24677799999999999 99976433 233 3566654
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=97.54 E-value=0.0013 Score=72.81 Aligned_cols=233 Identities=17% Similarity=0.200 Sum_probs=120.7
Q ss_pred ccchHHHHHHhhCCCcccccccCCCccCCCCccccCCCCCCCCCCcccCeEEEeccccccccccCCC--CCCCCC-HHHH
Q 002147 2 GVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDG--KPAPTS-YDDV 78 (959)
Q Consensus 2 GVP~FfRWL~~rYP~ii~~~~e~~~~~~~~g~~~p~d~s~pnpng~efDnLYLDMNgIIH~C~H~~~--~p~p~t-e~em 78 (959)
||.++...|.+.-|.+++.+-=+ +. .| --|-||.++.||-+.|.-- ...-.+ .-+.
T Consensus 1 GI~GL~~~l~~~~p~~~~~~~l~-------------~l-----~g---k~l~IDgs~~lyr~~~a~~~~~~~l~~~~G~~ 59 (341)
T 3q8k_A 1 GIQGLAKLIADVAPSAIRENDIK-------------SY-----FG---RKVAIDASMSIYQFLIAVRQGGDVLQNEEGET 59 (341)
T ss_dssp CCTTHHHHHHHHCGGGEEEEEGG-------------GG-----TT---CEEEEEHHHHHHHHHHHCEETTEECBCTTSCB
T ss_pred CchhHHHHHHHhhhhccccccHH-------------Hh-----CC---CEEEEecHHHHHHHHHccccccCCCCCCCCCC
Confidence 89999999999999876643100 00 01 1578999999998776321 000000 0011
Q ss_pred HHHHHHHHHHHHhhcc-cceEEEEEecCCCchh--hhHHHHHhhhhHHHH-HHHHHH--HHHHHHHHHHHcCCccCCCCC
Q 002147 79 FKSIFDYIDHIFLLVR-PRKLLYLAIDGVAPRA--KMNQQRTRRFRAAKD-AAEAEA--EEERLRKEFEEAGKLLSAKEK 152 (959)
Q Consensus 79 ~~~If~yID~L~~~Vr-PrKlLyiAIDGVAPrA--KMNQQRsRRFrsake-a~~~~~--e~~~l~~e~~~~G~~l~~~~~ 152 (959)
-..|+.++.+++.+++ --+-+| ++||.+|-. .+...|+.|...+.+ ..++.. ..+++++....
T Consensus 60 T~al~g~~~~~~~ll~~~i~P~~-VFDg~~~~~r~~~~~~yk~~R~~~~~~~~~a~r~~~pe~l~~~~~~---------- 128 (341)
T 3q8k_A 60 TSHLMGMFYRTIRMMENGIKPVY-VFDGKPPQLKSGELAKRSERRAEAEKQLQQAQAAGAEQEVEKFTKR---------- 128 (341)
T ss_dssp CHHHHHHHHHHHHHHTTTCEEEE-EECCCCCGGGHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHHH----------
T ss_pred chHHHHHHHHHHHHHHCCCCceE-EEeCCCcccchhhhHHHHHHHhHhHHHHHHHHhcCCHHHHHHHHhh----------
Confidence 1234444444444433 222244 799999954 455555433222221 111100 01222221111
Q ss_pred CCccCCcccccccHHHHHHHHHHHHHHHHHHhcCCCCCccEEEEeCCCCCCchhHHHHHHHHHhhcCCCCCCCCcEEEEe
Q 002147 153 PETCDSNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYG 232 (959)
Q Consensus 153 ~~~fDSN~ITPGT~FM~~Ls~~L~~yI~~kl~~dp~W~~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydpNt~HcIYG 232 (959)
+..||+. -+..+.+.|+ . + ++.+|.+ |||+|-=|-..-+. ....+|.+
T Consensus 129 -----~~~vt~~--q~~~~~~lL~----~-~-------gip~i~a----p~EADd~ia~La~~---------g~v~~i~s 176 (341)
T 3q8k_A 129 -----LVKVTKQ--HNDECKHLLS----L-M-------GIPYLDA----PSEAEASCAALVKA---------GKVYAAAT 176 (341)
T ss_dssp -----TCCCCHH--HHHHHHHHHH----H-H-------TCCEEEC----SSCHHHHHHHHHHT---------TSSSEEEC
T ss_pred -----cccCCHH--HHHHHHHHHH----H-c-------CCCEEEC----CccHHHHHHHHHhc---------CCeEEEEc
Confidence 1224432 1222222222 1 1 4666664 79999988777663 23567889
Q ss_pred cCchhHHhhhccccceEEEeeccccCCCCCcccccccccCcccccccCCCCCCCCCCCCCCCCccccCceEEEehHHHHH
Q 002147 233 LDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLRE 312 (959)
Q Consensus 233 lDADLImL~LatHe~~f~ILRE~v~~~~~~~~c~~c~q~gh~~~~c~g~~~~~~~d~~~~~~~~~~~~~f~~l~I~vLRE 312 (959)
-|.|+++++- ++ ++|-. .+.+. .+..+..++..-+.+
T Consensus 177 ~D~D~l~~~~----~~--v~~~~-~~~~~------------------------------------~~~~~~~~~~~~v~~ 213 (341)
T 3q8k_A 177 EDMDCLTFGS----PV--LMRHL-TASEA------------------------------------KKLPIQEFHLSRILQ 213 (341)
T ss_dssp SCTHHHHTTC----SE--EEESC-CCCSS------------------------------------CCCEEEEEEHHHHHH
T ss_pred CCccccccCC----cE--EEEcc-ccccc------------------------------------CCCceEEEcHHHHHH
Confidence 9999999972 22 23321 01000 001345666655544
Q ss_pred HHHhhcCCCCCCCCCchhhhHhHHHHHhhhhcCCCCCCCCcccc
Q 002147 313 YLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLEI 356 (959)
Q Consensus 313 YL~~E~~~~~~pf~~dlERiIDDFVFLcffvGNDFLPhLPsl~I 356 (959)
.+ . ++- +.||-+|.|+|+|++|++|.+-.
T Consensus 214 ~~----g-------l~~----~q~id~~~L~G~D~~~gipGiG~ 242 (341)
T 3q8k_A 214 EL----G-------LNQ----EQFVDLCILLGSDYCESIRGIGP 242 (341)
T ss_dssp HH----T-------CCH----HHHHHHHHHHCCSSSCCCTTCCH
T ss_pred Hh----C-------CCH----HHHHHHHHhcCCCCCCCCCCccH
Confidence 32 2 222 45677999999999999997643
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=97.39 E-value=0.00063 Score=76.21 Aligned_cols=229 Identities=19% Similarity=0.251 Sum_probs=115.5
Q ss_pred ccchHHHHHHhhCCCcccccccCCCccCCCCccccCCCCCCCCCCcccCeEEEeccccccccccCCCCC-CCCC-HH---
Q 002147 2 GVPAFYRWLADRYPLSIVDVVEEDPQVDGEGVARPVDVSKPNPNGMEFDNLYLDMNGIIHPCFHPDGKP-APTS-YD--- 76 (959)
Q Consensus 2 GVP~FfRWL~~rYP~ii~~~~e~~~~~~~~g~~~p~d~s~pnpng~efDnLYLDMNgIIH~C~H~~~~p-~p~t-e~--- 76 (959)
||+++...|...-|.++..+- ++. -.| --|-||.+++||-+.|.-... .+.+ .+
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 899999999998886554321 100 011 268999999999988743110 0111 00
Q ss_pred -HHHHHHHHHHHHHHhh-cccceEEEEEecCCCchhhh--HHHHH-hhhhHHHHHHHHHHHHHHHHHHHHHcCCccCCCC
Q 002147 77 -DVFKSIFDYIDHIFLL-VRPRKLLYLAIDGVAPRAKM--NQQRT-RRFRAAKDAAEAEAEEERLRKEFEEAGKLLSAKE 151 (959)
Q Consensus 77 -em~~~If~yID~L~~~-VrPrKlLyiAIDGVAPrAKM--NQQRs-RRFrsakea~~~~~e~~~l~~e~~~~G~~l~~~~ 151 (959)
.-+..+|..+-+|+.. ++| +| ++||..|-.|- ...|. +|-.+..+..++ ..+|.. +
T Consensus 60 t~~l~g~~~~~~~ll~~~i~P---~~-VFDG~~~~~K~~~~~~yk~~R~~~~~~~~~~-----------~~~g~~----~ 120 (379)
T 1ul1_X 60 TSHLMGMFYRTIRMMENGIKP---VY-VFDGKPPQLKSGELAKRSERRAEAEKQLQQA-----------QAAGAE----Q 120 (379)
T ss_dssp CHHHHHHHHHHHHHHHTTCCE---EE-EECCSCCSCCCCCCCCC------------------------------------
T ss_pred chHHHHHHHHHHHHHHCCCCe---EE-EEeCCCcccccchHHHHHhhhhHHHHHHHHH-----------HHcCCH----H
Confidence 1122333334445554 666 34 89999985553 23332 222211111000 001110 0
Q ss_pred CCCccC--CcccccccHHHHHHHHHHHHHHHHHHhcCCCCCccEEEEeCCCCCCchhHHHHHHHHHhhcCCCCCCCCcEE
Q 002147 152 KPETCD--SNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSDANVPGEGEHKIMSYIRLQRNLPGFDPNTRHC 229 (959)
Q Consensus 152 ~~~~fD--SN~ITPGT~FM~~Ls~~L~~yI~~kl~~dp~W~~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydpNt~Hc 229 (959)
....|. +..||+-. +..+.+.|+ . + ++.+|. .|||+|-=|-..-+. ....+
T Consensus 121 ~~~~~~~~~~~vt~~~--~~~~~~lL~----~-~-------Gi~~i~----apgEADd~iA~La~~---------g~~~~ 173 (379)
T 1ul1_X 121 EVEKFTKRLVKVTKQH--NDECKHLLS----L-M-------GIPYLD----APSEAEASCAALVKA---------GKVYA 173 (379)
T ss_dssp --------CCCCCCSC--HHHHHHHHH----H-H-------TCCEEE----CSSCHHHHHHHHHHH---------TSSSE
T ss_pred HHHHHHhhccCCCHHH--HHHHHHHHH----H-c-------CCCeec----CCCcHHHHHHHHHhc---------CCeEE
Confidence 001111 12344322 233333332 1 1 456665 589999988877764 13478
Q ss_pred EEecCchhHHhhhccccceEEEeeccccCCCCCcccccccccCcccccccCCCCCCCCCCCCCCCCccccCceEEEehHH
Q 002147 230 LYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAECHGKPGDNPADWNGVDDTPIHKKKYQFLNIWV 309 (959)
Q Consensus 230 IYGlDADLImL~LatHe~~f~ILRE~v~~~~~~~~c~~c~q~gh~~~~c~g~~~~~~~d~~~~~~~~~~~~~f~~l~I~v 309 (959)
|.+-|.|+++++ + ++ ++|-. .+.+ . .+..+..++..-
T Consensus 174 iiS~D~Dll~~g-~---~~--v~~~~-~~~~-----------------------------~-------~k~~~~~~~~~~ 210 (379)
T 1ul1_X 174 AATEDMDCLTFG-S---PV--LMRHL-TASE-----------------------------A-------KKLPIQEFHLSR 210 (379)
T ss_dssp EECSCTHHHHTT-C---SE--EEECS-SCCC-------------------------------------CCCCEEEEEHHH
T ss_pred EEecCcCccccc-c---ce--EEEEe-cccc-----------------------------c-------CcCCeEEEeHHH
Confidence 999999999998 2 23 33321 0000 0 012355677665
Q ss_pred HHHHHHhhcCCCCCCCCCchhhhHhHHHHHhhhhcCCCCCCCCccc
Q 002147 310 LREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLPHMPTLE 355 (959)
Q Consensus 310 LREYL~~E~~~~~~pf~~dlERiIDDFVFLcffvGNDFLPhLPsl~ 355 (959)
+.+.+ . ++ -+.||.+|.|+|+||.+++|.+-
T Consensus 211 v~~~~----g-------l~----~~q~id~~~L~G~D~~d~IpGIG 241 (379)
T 1ul1_X 211 ILQEL----G-------LN----QEQFVDLCILLGSDYCESIRGIG 241 (379)
T ss_dssp HHHHH----T-------CC----HHHHHHHHHHHHCSSSCCCTTCC
T ss_pred HHHHh----C-------CC----HHHHHHHHHHhCCCcCCCCCCcC
Confidence 54433 2 11 25678899999999999999863
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=97.18 E-value=0.0028 Score=70.13 Aligned_cols=212 Identities=18% Similarity=0.287 Sum_probs=95.9
Q ss_pred eEEEeccccccccccCCCCC--CCCC-----HHHHHHHHHHHHHHHHhh-cccceEEEEEecCCCchhhhH--HHHHhhh
Q 002147 51 NLYLDMNGIIHPCFHPDGKP--APTS-----YDDVFKSIFDYIDHIFLL-VRPRKLLYLAIDGVAPRAKMN--QQRTRRF 120 (959)
Q Consensus 51 nLYLDMNgIIH~C~H~~~~p--~p~t-----e~em~~~If~yID~L~~~-VrPrKlLyiAIDGVAPrAKMN--QQRsRRF 120 (959)
-|-||.++.||.+.|.-..+ .+.+ ....+..+|..+-+|+.. ++| ++++||..|-.|-. .+|+.+.
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 68899999999877643100 0110 012233444444455655 788 68999998855443 3332221
Q ss_pred hHHHHHHHHHHHHHHHHHHHHHcCCccCCCCCCCccC--CcccccccHHHHHHHHHHHHHHHHHHhcCCCCCccEEEEeC
Q 002147 121 RAAKDAAEAEAEEERLRKEFEEAGKLLSAKEKPETCD--SNVITPGTQFMAVLSAALQYFIQARLNQIPGWQFTKVILSD 198 (959)
Q Consensus 121 rsakea~~~~~e~~~l~~e~~~~G~~l~~~~~~~~fD--SN~ITPGT~FM~~Ls~~L~~yI~~kl~~dp~W~~lkVIlSd 198 (959)
..+.+ .+.+ ....|.. +....|. +..||| +.+..+.+.|+. + ++.+|.
T Consensus 96 ~~~~~---------~l~~-~~~~g~~----~~a~~~~~~~~~vt~--~~~~~~~~lL~~-----~-------gi~~i~-- 145 (346)
T 2izo_A 96 EEAER---------KLER-AKSEGKI----EELRKYSQAILRLSN--IMVEESKKLLRA-----M-------GIPIVQ-- 145 (346)
T ss_dssp -------------------------------------------CH--HHHHHHHHHHHH-----H-------TCCEEE--
T ss_pred HHhHH---------HHHH-HHhcCCH----HHHHHHHhhccCCCH--HHHHHHHHHHHH-----C-------CCCEEE--
Confidence 11111 0110 0111211 0011121 223332 333334333332 1 466665
Q ss_pred CCCCCchhHHHHHHHHHhhcCCCCCCCCcEEEEecCchhHHhhhccccceEEEeeccccCCCCCcccccccccCcccccc
Q 002147 199 ANVPGEGEHKIMSYIRLQRNLPGFDPNTRHCLYGLDADLIMLSLATHEIHFSILREVITLPGQQEKCFVCGQVGHLAAEC 278 (959)
Q Consensus 199 s~VPGEGEHKImdfIR~qr~~p~ydpNt~HcIYGlDADLImL~LatHe~~f~ILRE~v~~~~~~~~c~~c~q~gh~~~~c 278 (959)
.|||+|-=|--.-+. ....+|++.|.|+++++- ++ ++|-.. ..+ +|. .
T Consensus 146 --ap~EADa~ia~La~~---------g~~~~I~S~D~D~l~~~~----~~--v~~~~~-~~~---~~~-------~---- 193 (346)
T 2izo_A 146 --APSEGEAEAAYLNKL---------GLSWAAASQDYDAILFGA----KR--LVRNLT-ITG---KRK-------L---- 193 (346)
T ss_dssp --CSSCHHHHHHHHHHT---------TSSSEEECSSSHHHHTTC----SE--EEESSC-C--------------------
T ss_pred --cCCcHHHHHHHHHhC---------CCeEEEECCCCCcceecC----Ce--EEEEec-ccc---ccc-------C----
Confidence 588999987666551 346899999999999883 23 333211 100 000 0
Q ss_pred cCCCCCCCCCCCCCCCCccccCceEEEehHHHHHHHHhhcCCCCCCCCCchhhhHhHHHHHhhhhcCCCCC-CCCcccc
Q 002147 279 HGKPGDNPADWNGVDDTPIHKKKYQFLNIWVLREYLQYELDIPNPPFPINFERIVDDFVFLCFFVGNDFLP-HMPTLEI 356 (959)
Q Consensus 279 ~g~~~~~~~d~~~~~~~~~~~~~f~~l~I~vLREYL~~E~~~~~~pf~~dlERiIDDFVFLcffvGNDFLP-hLPsl~I 356 (959)
+. ... .....+.+++..-+.+.+ .+ + -+.||.+|.|+|+||+| .+|.+-+
T Consensus 194 ---p~------~~~----~~~~~~~~~~~~~v~~~~----gl-------~----~~q~id~~~L~G~D~~p~Gv~GIG~ 244 (346)
T 2izo_A 194 ---PN------KDV----YVEIKPELIETEILLKKL----GI-------T----REQLIDIGILIGTDYNPDGIRGIGP 244 (346)
T ss_dssp ------------------CCCCCCEEEEHHHHHHHH----TC-------C----HHHHHHHHHHHCCSSSTTCSTTCCH
T ss_pred ---cc------ccc----ccccceEEEEHHHHHHHc----CC-------C----HHHHHHHHHHcCCCCCCCCCCCcCH
Confidence 00 000 000135667765554443 21 1 25788899999999999 9998744
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=96.37 E-value=0.033 Score=60.55 Aligned_cols=51 Identities=16% Similarity=0.077 Sum_probs=38.0
Q ss_pred eEEEeccccccccccCCCCCCCCCHHHHHHHHHHHHHHHHhhcccceEEEEEecCCCc
Q 002147 51 NLYLDMNGIIHPCFHPDGKPAPTSYDDVFKSIFDYIDHIFLLVRPRKLLYLAIDGVAP 108 (959)
Q Consensus 51 nLYLDMNgIIH~C~H~~~~p~p~te~em~~~If~yID~L~~~VrPrKlLyiAIDGVAP 108 (959)
-|.||.++++|-++|..++. | ....++..|-+|+...+|..+ .+|+||..|
T Consensus 21 lllIDg~~llyRa~~~~~G~-p-----av~Gf~~~l~~ll~~~~p~~~-vvvFD~~~~ 71 (290)
T 1exn_A 21 LMIVDGTNLGFRFKHNNSKK-P-----FASSYVSTIQSLAKSYSARTT-IVLGDKGKS 71 (290)
T ss_dssp EEEEEHHHHHHHHHHHCSSS-C-----CHHHHHHHHHHHHHHTTEEEE-EEECCBSCC
T ss_pred EEEEECcHHHHHHHhCCCCc-h-----HHHHHHHHHHHHHHHcCCCeE-EEEEcCCCc
Confidence 68999999999998843322 2 345566667777777899876 589998766
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=88.25 E-value=0.2 Score=35.48 Aligned_cols=20 Identities=35% Similarity=1.057 Sum_probs=17.2
Q ss_pred CcccccccccCcccccccCC
Q 002147 262 QEKCFVCGQVGHLAAECHGK 281 (959)
Q Consensus 262 ~~~c~~c~q~gh~~~~c~g~ 281 (959)
..+|+.||+.||++.+|...
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=87.34 E-value=0.29 Score=35.45 Aligned_cols=19 Identities=37% Similarity=0.976 Sum_probs=16.7
Q ss_pred CcccccccccCcccccccC
Q 002147 262 QEKCFVCGQVGHLAAECHG 280 (959)
Q Consensus 262 ~~~c~~c~q~gh~~~~c~g 280 (959)
..+|++||+.||++.+|..
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 3579999999999999974
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=83.52 E-value=0.68 Score=36.30 Aligned_cols=22 Identities=36% Similarity=0.936 Sum_probs=18.8
Q ss_pred CCcccccccccCcccccccCCC
Q 002147 261 QQEKCFVCGQVGHLAAECHGKP 282 (959)
Q Consensus 261 ~~~~c~~c~q~gh~~~~c~g~~ 282 (959)
...+|++||+.||.+.+|....
T Consensus 9 ~~~~C~~Cgk~GH~ardCP~~~ 30 (40)
T 1a6b_B 9 DRDQCAYCKEKGHWAKDCPKKP 30 (40)
T ss_dssp CSSSCSSSCCTTCCTTSCSSSC
T ss_pred CCCeeeECCCCCcchhhCcCCc
Confidence 3568999999999999998653
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=79.58 E-value=0.98 Score=37.86 Aligned_cols=22 Identities=36% Similarity=0.907 Sum_probs=18.8
Q ss_pred CcccccccccCcccccccCCCC
Q 002147 262 QEKCFVCGQVGHLAAECHGKPG 283 (959)
Q Consensus 262 ~~~c~~c~q~gh~~~~c~g~~~ 283 (959)
..+|+.||+.||.+.+|.....
T Consensus 23 ~~~C~~Cge~GH~ardCp~~~~ 44 (56)
T 1u6p_A 23 RDQCAYCKEKGHWAKDCPKKPR 44 (56)
T ss_dssp TTBCSSSCCBSSCGGGCTTCCC
T ss_pred CCcceeCCCCCcccccCcCCcc
Confidence 4689999999999999987643
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=67.51 E-value=2.1 Score=35.74 Aligned_cols=18 Identities=39% Similarity=0.988 Sum_probs=16.3
Q ss_pred CcccccccccCccccccc
Q 002147 262 QEKCFVCGQVGHLAAECH 279 (959)
Q Consensus 262 ~~~c~~c~q~gh~~~~c~ 279 (959)
...|+.|||.||.+.+|.
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 457999999999999996
No 18
>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=59.28 E-value=3.7 Score=32.87 Aligned_cols=19 Identities=37% Similarity=0.976 Sum_probs=14.3
Q ss_pred CcccccccccCcccccccC
Q 002147 262 QEKCFVCGQVGHLAAECHG 280 (959)
Q Consensus 262 ~~~c~~c~q~gh~~~~c~g 280 (959)
..+|+.|++.||++.+|..
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 3468888888888888864
No 19
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=57.89 E-value=3.8 Score=30.85 Aligned_cols=17 Identities=41% Similarity=1.110 Sum_probs=13.7
Q ss_pred cccccccccCccccccc
Q 002147 263 EKCFVCGQVGHLAAECH 279 (959)
Q Consensus 263 ~~c~~c~q~gh~~~~c~ 279 (959)
..|+.|++.||++.+|.
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 46888888888888875
No 20
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=54.47 E-value=4.7 Score=30.74 Aligned_cols=17 Identities=47% Similarity=1.105 Sum_probs=15.0
Q ss_pred ccccccccCcccccccC
Q 002147 264 KCFVCGQVGHLAAECHG 280 (959)
Q Consensus 264 ~c~~c~q~gh~~~~c~g 280 (959)
+|+.|++.||++.+|..
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 58999999999999974
No 21
>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=52.64 E-value=5.9 Score=32.79 Aligned_cols=21 Identities=33% Similarity=0.586 Sum_probs=17.9
Q ss_pred CcccccccccCcccccccCCC
Q 002147 262 QEKCFVCGQVGHLAAECHGKP 282 (959)
Q Consensus 262 ~~~c~~c~q~gh~~~~c~g~~ 282 (959)
...|+.|++.||++.+|..+.
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 457999999999999998653
No 22
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=51.39 E-value=5.8 Score=30.19 Aligned_cols=18 Identities=44% Similarity=0.923 Sum_probs=15.8
Q ss_pred CcccccccccCccccccc
Q 002147 262 QEKCFVCGQVGHLAAECH 279 (959)
Q Consensus 262 ~~~c~~c~q~gh~~~~c~ 279 (959)
...|+.||+.||++.+|.
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 357999999999999885
No 23
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=51.28 E-value=6 Score=33.04 Aligned_cols=19 Identities=37% Similarity=0.990 Sum_probs=16.7
Q ss_pred cccccccccCcccccccCC
Q 002147 263 EKCFVCGQVGHLAAECHGK 281 (959)
Q Consensus 263 ~~c~~c~q~gh~~~~c~g~ 281 (959)
..|+.|++.||++.+|...
T Consensus 31 ~~C~~Cg~~GH~ar~C~~~ 49 (61)
T 2ihx_A 31 ERCQLCNGMGHNAKQCRKR 49 (61)
T ss_dssp SBCTTTCCBSSCGGGCCCC
T ss_pred CeeCCCCCCCCCcCCCcCC
Confidence 4799999999999999754
No 24
>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=51.00 E-value=7.2 Score=31.69 Aligned_cols=19 Identities=47% Similarity=1.160 Sum_probs=15.0
Q ss_pred CcccccccccCcccccccC
Q 002147 262 QEKCFVCGQVGHLAAECHG 280 (959)
Q Consensus 262 ~~~c~~c~q~gh~~~~c~g 280 (959)
...|+.|++.||++.+|..
T Consensus 12 ~~~C~~Cg~~GH~a~~C~~ 30 (55)
T 1a1t_A 12 TVKCFNCGKEGHIAKNCRA 30 (55)
T ss_dssp TCBCTTTCCBSSCGGGCSS
T ss_pred CcceeeeCCCCcChhhcCC
Confidence 3578888888888888864
No 25
>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=49.25 E-value=7.8 Score=30.99 Aligned_cols=19 Identities=37% Similarity=1.108 Sum_probs=16.6
Q ss_pred cccccccccCcccccccCC
Q 002147 263 EKCFVCGQVGHLAAECHGK 281 (959)
Q Consensus 263 ~~c~~c~q~gh~~~~c~g~ 281 (959)
..|+.||+.||++.+|...
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 4799999999999999753
No 26
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=48.94 E-value=6.4 Score=29.61 Aligned_cols=17 Identities=41% Similarity=1.280 Sum_probs=15.3
Q ss_pred ccccccccCcccccccC
Q 002147 264 KCFVCGQVGHLAAECHG 280 (959)
Q Consensus 264 ~c~~c~q~gh~~~~c~g 280 (959)
.|+.|++.||.+.+|..
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 59999999999999974
No 27
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=48.14 E-value=6.9 Score=35.05 Aligned_cols=20 Identities=35% Similarity=0.949 Sum_probs=17.5
Q ss_pred CcccccccccCcccccccCC
Q 002147 262 QEKCFVCGQVGHLAAECHGK 281 (959)
Q Consensus 262 ~~~c~~c~q~gh~~~~c~g~ 281 (959)
...|++||+.||+..+|...
T Consensus 46 ~~~CYnCG~~GH~~rdC~~~ 65 (83)
T 3nyb_B 46 TIYCYNCGGKGHFGDDCKEK 65 (83)
T ss_dssp CCBCSSSSCBSSCGGGCSSC
T ss_pred CCeecccCCCCcCcccCCcc
Confidence 45899999999999999754
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=45.53 E-value=9.7 Score=30.91 Aligned_cols=19 Identities=32% Similarity=0.997 Sum_probs=16.6
Q ss_pred cccccccccCcccccccCC
Q 002147 263 EKCFVCGQVGHLAAECHGK 281 (959)
Q Consensus 263 ~~c~~c~q~gh~~~~c~g~ 281 (959)
..|+.||+.||++.+|...
T Consensus 34 ~~C~~Cg~~GH~~~~C~~~ 52 (55)
T 1a1t_A 34 KGCWKCGKEGHQMKDCTER 52 (55)
T ss_dssp CBCTTTCCBSSCGGGCSSS
T ss_pred CEeCCCCCcCCccCCCcCc
Confidence 5799999999999999743
No 29
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=44.87 E-value=9 Score=31.96 Aligned_cols=20 Identities=40% Similarity=1.011 Sum_probs=17.3
Q ss_pred CcccccccccCcccccccCC
Q 002147 262 QEKCFVCGQVGHLAAECHGK 281 (959)
Q Consensus 262 ~~~c~~c~q~gh~~~~c~g~ 281 (959)
...|+.|++.||++.+|...
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 45799999999999999754
No 30
>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=44.55 E-value=10 Score=37.11 Aligned_cols=18 Identities=39% Similarity=0.979 Sum_probs=12.6
Q ss_pred ccccccccCcccccccCC
Q 002147 264 KCFVCGQVGHLAAECHGK 281 (959)
Q Consensus 264 ~c~~c~q~gh~~~~c~g~ 281 (959)
+|+.|++.||.+.+|...
T Consensus 99 ~C~~Cg~~GH~a~~C~~~ 116 (148)
T 3ts2_A 99 RCYNCGGLDHHAKECKLP 116 (148)
T ss_dssp CCTTTCCSSCCGGGCCSC
T ss_pred cccEeCCccchhhhCCCC
Confidence 577777777777777653
No 31
>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=42.52 E-value=9.2 Score=32.22 Aligned_cols=20 Identities=35% Similarity=0.843 Sum_probs=16.2
Q ss_pred CcccccccccCcccccccCC
Q 002147 262 QEKCFVCGQVGHLAAECHGK 281 (959)
Q Consensus 262 ~~~c~~c~q~gh~~~~c~g~ 281 (959)
...|++|++.||++.+|...
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 45789999999999998754
No 32
>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=39.88 E-value=6.1 Score=32.71 Aligned_cols=18 Identities=50% Similarity=1.287 Sum_probs=0.0
Q ss_pred ccccccccCcccccccCC
Q 002147 264 KCFVCGQVGHLAAECHGK 281 (959)
Q Consensus 264 ~c~~c~q~gh~~~~c~g~ 281 (959)
.|+.|++.||++.+|...
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 699999999999999754
No 33
>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=38.94 E-value=11 Score=31.63 Aligned_cols=19 Identities=37% Similarity=0.968 Sum_probs=16.8
Q ss_pred CcccccccccCcccccccC
Q 002147 262 QEKCFVCGQVGHLAAECHG 280 (959)
Q Consensus 262 ~~~c~~c~q~gh~~~~c~g 280 (959)
...|+.|++.||++.+|..
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 3579999999999999974
No 34
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=38.78 E-value=12 Score=32.80 Aligned_cols=16 Identities=38% Similarity=1.057 Sum_probs=8.1
Q ss_pred ccccccccCccccccc
Q 002147 264 KCFVCGQVGHLAAECH 279 (959)
Q Consensus 264 ~c~~c~q~gh~~~~c~ 279 (959)
.|+.|++.||++.+|.
T Consensus 48 ~C~~Cg~~GH~ar~Cp 63 (74)
T 2li8_A 48 KCHFCQSISHMVASCP 63 (74)
T ss_dssp CCTTTCCTTSCGGGCT
T ss_pred ccCCcCCcCCccCcCc
Confidence 4555555555555553
No 35
>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=38.31 E-value=13 Score=36.52 Aligned_cols=18 Identities=33% Similarity=0.864 Sum_probs=16.0
Q ss_pred cccccccCcccccccCCC
Q 002147 265 CFVCGQVGHLAAECHGKP 282 (959)
Q Consensus 265 c~~c~q~gh~~~~c~g~~ 282 (959)
|+.|++.||++.+|...+
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 899999999999998653
No 36
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=35.64 E-value=14 Score=32.28 Aligned_cols=19 Identities=37% Similarity=0.968 Sum_probs=16.8
Q ss_pred CcccccccccCcccccccC
Q 002147 262 QEKCFVCGQVGHLAAECHG 280 (959)
Q Consensus 262 ~~~c~~c~q~gh~~~~c~g 280 (959)
...|+.|++.||++.+|..
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 4579999999999999974
No 37
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=31.23 E-value=16 Score=32.59 Aligned_cols=19 Identities=21% Similarity=0.609 Sum_probs=15.5
Q ss_pred CcccccccccCcccccccC
Q 002147 262 QEKCFVCGQVGHLAAECHG 280 (959)
Q Consensus 262 ~~~c~~c~q~gh~~~~c~g 280 (959)
...|+.|++.||++.+|..
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 3479999999999999964
No 38
>2ab9_A Pro-SFTI-1; protein, beta-sheet, random coil, hydrolase inhibitor; NMR {Helianthus annuus}
Probab=24.38 E-value=22 Score=25.70 Aligned_cols=18 Identities=28% Similarity=0.457 Sum_probs=15.2
Q ss_pred cccccceeeecccCCCCC
Q 002147 858 LGTGMSALAIEESTRSRP 875 (959)
Q Consensus 858 ~~~~~~~~~~~~~~~~~~ 875 (959)
.+|.+|.+|||+++|-..
T Consensus 2 yktsistitiedngrctk 19 (31)
T 2ab9_A 2 YKTSISTITIEDNGRCTK 19 (31)
T ss_dssp CCSSCCCSSSCCCSSCCS
T ss_pred cccceEEEEEecCCeecc
Confidence 578999999999998654
No 39
>2lli_A Protein AIR2; RNA surveillance, RNA degradation, RNA binding, exosome, RNA protein; NMR {Saccharomyces cerevisiae}
Probab=23.45 E-value=34 Score=31.97 Aligned_cols=18 Identities=33% Similarity=1.010 Sum_probs=16.3
Q ss_pred CcccccccccCccccccc
Q 002147 262 QEKCFVCGQVGHLAAECH 279 (959)
Q Consensus 262 ~~~c~~c~q~gh~~~~c~ 279 (959)
...|++|++.||++.+|.
T Consensus 105 ~~~Cy~Cg~~GH~a~dCp 122 (124)
T 2lli_A 105 TIYCYNCGGKGHFGDDCK 122 (124)
T ss_dssp CCCTTTTSSSCTTTTTSC
T ss_pred CCCcCCCCCCCcCcccCc
Confidence 468999999999999996
Done!