Query 001223
Match_columns 1120
No_of_seqs 274 out of 566
Neff 4.6
Searched_HMMs 29240
Date Mon Mar 25 17:14:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/001223.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/001223hhsearch_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 2E-233 6E-238 2066.4 58.6 802 1-823 4-872 (899)
2 3pie_A 5'->3' exoribonuclease 100.0 3E-191 9E-196 1742.9 54.6 696 1-816 1-715 (1155)
3 2y35_A LD22664P; hydrolase-DNA 100.0 2E-175 8E-180 1620.2 44.7 581 1-720 1-585 (1140)
4 1b43_A Protein (FEN-1); nuclea 98.4 6.4E-07 2.2E-11 100.3 11.7 151 50-240 23-180 (340)
5 1rxw_A Flap structure-specific 98.2 1.4E-05 4.7E-10 89.5 14.0 104 190-356 142-245 (336)
6 1a76_A Flap endonuclease-1 pro 98.2 5.9E-06 2E-10 92.0 10.9 91 190-355 143-234 (326)
7 3qe9_Y Exonuclease 1; exonucle 98.1 3E-05 1E-09 87.6 14.5 172 1-240 1-178 (352)
8 3ory_A Flap endonuclease 1; hy 97.8 0.00012 4.1E-09 83.1 13.7 134 157-369 138-272 (363)
9 1ul1_X Flap endonuclease-1; pr 97.5 0.00052 1.8E-08 78.1 12.6 229 2-355 1-241 (379)
10 2izo_A FEN1, flap structure-sp 97.3 0.0012 4E-08 74.4 12.8 211 50-356 20-244 (346)
11 3q8k_A Flap endonuclease 1; he 97.2 0.0013 4.6E-08 73.9 11.4 232 2-355 1-241 (341)
12 1exn_A 5'-exonuclease, 5'-nucl 96.1 0.059 2E-06 59.6 14.5 145 50-251 21-166 (290)
13 1dsq_A Nucleic acid binding pr 85.0 0.33 1.1E-05 35.1 1.5 18 262-279 3-20 (26)
14 1nc8_A Nucleocapsid protein; H 84.8 0.42 1.4E-05 35.3 2.0 19 261-279 6-24 (29)
15 1a6b_B Momulv, zinc finger pro 83.4 0.64 2.2E-05 37.2 2.6 22 260-281 9-30 (40)
16 1u6p_A GAG polyprotein; MLV, A 76.8 1.1 3.8E-05 38.3 2.1 22 261-282 23-44 (56)
17 2ysa_A Retinoblastoma-binding 70.0 1.5 5.2E-05 37.3 1.3 18 261-278 7-24 (55)
18 2bl6_A Nucleocapsid protein P1 59.1 3.6 0.00012 31.7 1.5 17 262-278 20-36 (37)
19 2ec7_A GAG polyprotein (PR55GA 56.8 4.3 0.00015 33.2 1.7 19 261-279 6-24 (49)
20 1cl4_A Protein (GAG polyprotei 53.8 6.2 0.00021 33.3 2.2 20 261-280 30-49 (60)
21 2a51_A Nucleocapsid protein; s 53.0 5.4 0.00018 31.0 1.6 17 262-278 22-38 (39)
22 2a51_A Nucleocapsid protein; s 49.5 5.5 0.00019 31.0 1.1 17 263-279 2-18 (39)
23 2cqf_A RNA-binding protein LIN 49.3 7.6 0.00026 33.4 2.1 20 261-280 29-48 (63)
24 2ec7_A GAG polyprotein (PR55GA 48.7 7.1 0.00024 31.9 1.7 18 262-279 28-45 (49)
25 3ts2_A Protein LIN-28 homolog 48.0 7.7 0.00026 38.8 2.2 16 263-278 99-114 (148)
26 2li8_A Protein LIN-28 homolog 47.5 9.8 0.00034 33.9 2.6 16 263-278 26-41 (74)
27 2ihx_A Nucleocapsid (NC) prote 46.2 6.6 0.00023 33.4 1.2 19 262-280 31-49 (61)
28 2bl6_A Nucleocapsid protein P1 45.0 7.8 0.00027 29.8 1.3 17 263-279 2-18 (37)
29 1a1t_A Nucleocapsid protein; s 43.8 7.5 0.00026 32.2 1.1 19 261-279 12-30 (55)
30 2ihx_A Nucleocapsid (NC) prote 43.3 8.9 0.0003 32.7 1.6 20 261-280 4-23 (61)
31 1a1t_A Nucleocapsid protein; s 42.3 9.3 0.00032 31.7 1.5 18 262-279 34-51 (55)
32 3nyb_B Protein AIR2; polya RNA 40.8 9.9 0.00034 34.7 1.6 19 261-279 46-64 (83)
33 1cl4_A Protein (GAG polyprotei 40.4 5.9 0.0002 33.4 0.0 18 263-280 3-20 (60)
34 2cqf_A RNA-binding protein LIN 39.1 13 0.00043 32.0 1.9 19 261-279 7-25 (63)
35 3nyb_B Protein AIR2; polya RNA 34.8 14 0.00046 33.8 1.5 19 261-279 5-23 (83)
36 2li8_A Protein LIN-28 homolog 33.2 16 0.00056 32.5 1.7 19 262-280 47-65 (74)
37 3ts2_A Protein LIN-28 homolog 31.5 16 0.00054 36.5 1.4 18 264-281 122-139 (148)
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=1.8e-233 Score=2066.42 Aligned_cols=802 Identities=43% Similarity=0.760 Sum_probs=634.3
Q ss_pred CcchhHHHHHHhhCCcccccccccCcccc-CCccccCCCCCCCCCCCccCeEEEeccccccccccCCCCCCCCCHHHHHH
Q 001223 1 MGVPAFYRWLAEKYPLVVADVIEEEPVVI-DGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAPTTFDEVFQ 79 (1120)
Q Consensus 1 MGVP~FfRWL~~rYP~ii~~viE~~~~~~-dG~~iP~d~s~pNPNg~efDNLYLDMNGIIH~C~Hpe~~~~p~te~Emf~ 79 (1120)
||||+|||||++|||+|+++|+|+.|.++ ||..||+|+++|||||.||||||||||||||+|+|+++.+.+.|++|||.
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 99999999999999999999999999888 89999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhhccccceEEEEecCCCchhhhHHHHhhhccchhHHHHHHHHHHHHHHHHHHhCCCCCCC--CCCCCCcc
Q 001223 80 CMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPK--SDSQVFDS 157 (1120)
Q Consensus 80 ~If~yIDrL~~~VRPrKlLyiAIDGVAPRAKMNQQRsRRFrsakea~~~~~~~~~l~~e~~~eg~~lp~~--~~~~~fDS 157 (1120)
+||+|||+||.+|||||+||||||||||||||||||+||||+|++++++.++.++++++++++| .+++. ...+.|||
T Consensus 84 ~If~yid~l~~~vrPrklly~AiDGVAPrAKmnQQRsRRfrsa~~~~~~~~~~~~~~~~~~~~g-~~~~~~~~~~~~fDs 162 (899)
T 3fqd_A 84 AVFEYTDRILAMVRPRQLLFIAIDGVAPRAKMNQQRSRRFRSSREAALKEEELQAFIEEAKQQG-IPIDENATKKKSWDS 162 (899)
T ss_dssp HHHHHHHHHHHHHCEEEEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHT-CCBCHHHHSCCCCCG
T ss_pred HHHHHHHHHHHHcCcceeEEEeecCCCCchHHHHHHHHHHHhhhhhhhhHHHHHHHHHHHHhcC-CCCccccccccCCCc
Confidence 9999999999999999999999999999999999999999999999998888888888998888 33321 24578999
Q ss_pred CcccCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecChhHH
Q 001223 158 NVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLI 237 (1120)
Q Consensus 158 N~ITPGT~FM~~Ls~~L~~yI~~kl~~Dp~W~~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydPNt~HcIYGlDADLI 237 (1120)
|||||||+||++|+.+|+|||+.||++||+|++++|||||++||||||||||+|||+||++|+|||||+|||||+|||||
T Consensus 163 N~ITPGT~FM~~L~~~L~~~i~~kl~~dp~W~~~~VIlSd~~vPGEGEHKIm~fIR~~r~~p~ydpN~~HcIyGlDADLI 242 (899)
T 3fqd_A 163 NCITPGTPFMDTLAKSLRYYIINKLNSDPCWRNVRFILSDASVPGEGEHKIMEFIRSQRVKPEYDPNTHHVVYGLDADLI 242 (899)
T ss_dssp GGSSTTSHHHHHHHHHHHHHHHHHHTSCGGGTTCEEEEECTTSCSCHHHHHHHHHHHHHTSTTSCTTCCEEEECCCTTHH
T ss_pred CccCCccHHHHHHHHHHHHHHHHHhhcCcccccceEEEeCCCCCCccHHHHHHHHHHHhcCCCCCCCCeEEEEccCccHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhcCCceEEEeecccccCCCCCcccccCCCCCcccccccccccccCCCCcCCCcccCCCCCeEEEehhHHHHHHHHH
Q 001223 238 MLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYE 317 (1120)
Q Consensus 238 mL~LatHep~f~ILRE~V~~~~~~~~c~~cgQ~gH~~~~c~g~~k~k~~e~~~~~~~~~~~~~~f~~l~I~vLREYL~~e 317 (1120)
||||+||||||+||||+|++.. +|.||.+.+|.|+.|. ++++++. .....++|+||||++|||||+.|
T Consensus 243 mL~LatHep~f~ILRE~v~~~~--------~q~~~~~~~~~~~~k~--~~~~~~~--~~~~~~~f~~l~i~iLREYL~~E 310 (899)
T 3fqd_A 243 MLGLATHEPHFRVLREDVFFQQ--------GSTKKTKEERLGIKRL--DDVSETN--KVPVKKPFIWLNVSILREYLEVE 310 (899)
T ss_dssp HHHHHTTCSSEEEEEECCC-----------------CTTTTTCCBT--TC------------CCEEEEEHHHHHHHHHHH
T ss_pred HHhhhccCCceEEEeeecccCc--------Cccccchhhhcccccc--ccccccc--cccccCceEEEeHHHHHHHHHHH
Confidence 9999999999999999998753 6889999999997665 4555432 23456899999999999999999
Q ss_pred hcCCCCCCccchhhhhhHHHHhhhhcccCCCCCCCccccccchHHHHHHHHHHHHHhcCCccccCCccCHHHHHHHHHHH
Q 001223 318 FRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAV 397 (1120)
Q Consensus 318 l~~~~~pF~~dlERiIDDfVfLcffvGNDFLPhLPsL~IreGaId~Li~~YKk~L~~~ggYLT~~G~INl~rl~~fl~~L 397 (1120)
|.++++||++|+|||||||||||||||||||||||+|+|++||||+|+.+||++|+++|||||++|+|||+||+.||+.|
T Consensus 311 ~~~~~~~f~~d~ERiIDDfVfmcFfvGNDFLPhlP~l~I~egaid~L~~~Yk~~l~~~~gYlt~~G~inl~rl~~~l~~L 390 (899)
T 3fqd_A 311 LYVPNLPFPFDLERAIDDWVFFIFFVGNDFLPHLPSLDIRDGAVERLTEIWRASLPHMGGYLTLDGSVNLARAEVILSAV 390 (899)
T ss_dssp HCCTTCSSCCCHHHHHHHHHHHGGGGCCSSSCCCTTCCGGGTHHHHHHHHHHHHHHHHSSCSEETTEECHHHHHHHHHHH
T ss_pred hcccCCCCCchhhhhhhhhhhhhHhhCcccCCCCCccCcCCChHHHHHHHHHHHHHHcCCeeecCCEEcHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCC------CCC--CCCCCc---cc-------cccccCCCCCCCCCCC
Q 001223 398 GSYEDRIFQKRARLHQRHAERIKREKAQARRGDDV------EPL--AQPDSL---VP-------VSRFHGSRLASGPSPS 459 (1120)
Q Consensus 398 ~~~Ed~iF~~r~~~e~r~~e~~kr~k~~~~~~~~~------~~~--~~p~~~---~p-------~~~~~~~~l~~~~~~~ 459 (1120)
|++|++||++|.+.++++.++.+|++.+.+..... ... ..+... .+ .....+......+...
T Consensus 391 ~~~E~~iF~~r~~~e~~~~~~~krr~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 470 (899)
T 3fqd_A 391 GNQEDDIFKRLKQQEDRRNENYRRRQQRESNQESESYVDNVVIQRSVETQSTEVVTSSKSTSVDTKPPKKTQKIDAPAPV 470 (899)
T ss_dssp HTTHHHHHHHHHHHHTTTC-------------------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHhhhhhhhhcccccccccccccccccccccccccccccccccccccccccCcccc
Confidence 99999999999998887777777665443211110 000 000000 00 0000000000000000
Q ss_pred CCccc--c---------ccccccCCC-CCCCCCCcccccCCCcchhhHHHhhh-------ccCCCCcc-cc--------H
Q 001223 460 PYQQS--E---------CVGRLDNGK-GTSGRPHKVPRLSSGATIGAAIVEAE-------NSFETDPQ-EN--------K 511 (1120)
Q Consensus 460 ~~~~~--~---------~~~~~~~~~-~~~~~~~k~~~~s~~~~~~~~~~~~e-------~~~~~~~~-~~--------~ 511 (1120)
++... . ..+.+.+.. ......+.....+..+..+++.++.. .....++. +. .
T Consensus 471 ~~~~~~~~~~~~~~~~~~~~~~~n~~~~~~~~~~~~~~~~~~n~~~a~~lk~~l~~~~~~~~~~~~~~~~~~~~~e~~~~ 550 (899)
T 3fqd_A 471 DLVNLSEKTSNRSLGATNRELINNRAANRLGLSREAAAVSSVNKLAASALKAQLVSNETLQNVPLEDSIASSSAYEDTDS 550 (899)
T ss_dssp --------------------------------------------------------------------------------
T ss_pred ccccccccccccchhhhhhhhhhcchhhhhhhhhhhhhhcccchhHHHHHHHHhhccccccccccccccccccccccccc
Confidence 00000 0 000000000 00000000000000000001111100 00000000 00 0
Q ss_pred HHHHHHHHHHHhh-------hcc--cCCCCCchhhhhccCCCchhHHHHHHhcCCCChhHHHHHHHHHHHHHHhhHHHHh
Q 001223 512 EEFKAKLKELLRD-------KSD--AFNSDNPEEDKVKLGEPGWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVM 582 (1120)
Q Consensus 512 eelk~~l~~~~~~-------k~d--~~~~~~~~eD~VkL~e~gwK~rYY~~KF~v~~~~di~~~r~~vv~~YvEGL~WVL 582 (1120)
.+......+.+++ ++. ....+.+.+|.|+|||+|||+|||++||+++..+ ++++++||++|||||||||
T Consensus 551 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~v~l~e~g~K~rYY~~KF~~~~~d--~e~~~~v~~~YvEGL~WVL 628 (899)
T 3fqd_A 551 IESSTPVVHPIDTKVSNVGQKRKAPDSTEENENTDTVRLYEPGYRERYYEQKFHISPDE--PEKIREAVKHYVHGLCWVL 628 (899)
T ss_dssp ----------------------------------CCSCTTSTTHHHHHHHHTSCCCTTC--THHHHHHHHHHHHHHHHHH
T ss_pred ccccccchhhhhccccccccccccccccccccchhhhhhcccchHHHHHHHhcCCCCCC--HHHHHHHHHHHHHHHHHHH
Confidence 0000000000000 000 0011123568899999999999999999997644 4789999999999999999
Q ss_pred hhhccCcCcccccccCCCCcccccccccccccceecCCCCCChhhhhhhcCCCCCCCCCcHHHHhhhcCCCCCCcccCCC
Q 001223 583 HYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPT 662 (1120)
Q Consensus 583 ~YYyqGcpSW~WYYPYHYAPfaSDl~~l~~~~i~Fe~G~Pf~PfEQLMsVLPaaS~~~LP~~~r~LMtdp~SpIiDFYP~ 662 (1120)
+|||||||||+||||||||||||||+++.+++|+|++|+||+|||||||||||+|+++||++||+||+||+|||+||||+
T Consensus 629 ~YYYqGc~SW~WyYPYHYAPfaSD~~~~~~~~i~Fe~G~PF~PfEQLMaVLPaaS~~~LP~~y~~LMtdp~SpIiDFYP~ 708 (899)
T 3fqd_A 629 LYYYQGCPSWTWYYPYHYAPFAADFKDLASIDVKFELNQPFKPYEQLLGVLPAASKNNLPEKLQTLMTDENSEIIDFYPE 708 (899)
T ss_dssp HHHHTCCSCSSCCCCCSSCCCGGGCCSCTTCCCCCCCCCCCCHHHHHHHHCCGGGGGGSCHHHHHHHHCTTCTTGGGCCS
T ss_pred HHHhCCCCCCcccCcccccchHHHHhhcccCceecCCCCCCChHHHHHhhcCHhhhCcccHHHHHHhcCCCCcchhhCcc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccCCCCcccccceeccCCCChHHHHHHHHhhcCCCCHHHHhhccCCCceEEeecCCCcchhhhhhhhHhhhhhhhhh
Q 001223 663 DFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKER 742 (1120)
Q Consensus 663 dF~ID~NGKk~~WqGVaLLPFIDe~rLl~a~~~~~~~LT~eE~~RN~~g~d~lfv~~~~~l~~~i~~l~~~~~~~~~~~~ 742 (1120)
+|+|||||||++||||||||||||+|||+||++++++||+||++||++|.++||++++||+++.+ ++.+|++++
T Consensus 709 dFeiDmNGKk~~WqgVvlLPFIDE~RLL~A~~~~~~~LT~eEk~RN~~G~~~lf~~~~~~l~~~~------~~~~y~~~~ 782 (899)
T 3fqd_A 709 NFTIDLNGKKFEWQGVALLPFIDENRLLNAVSKIYPQLTEEESKRNEDGSTLLFISEHHPMFSEL------VKQLYSKKR 782 (899)
T ss_dssp CCCEECSSSSCTTSSEECCCCCCHHHHHHHHHTTGGGSCHHHHHTTSCCCCEEEEETTSTTHHHH------HHHHTSSSC
T ss_pred cccccCCCCccccceEEecCccCHHHHHHHHHHhhccCCHHHHHhccCCCcEEEEeCCCchHHHH------HHHhccccc
Confidence 99999999999999999999999999999999999999999999999999999999999998754 345565555
Q ss_pred hhhhhcCCcCcCCCcceeeecCCCCCCCCcccCCCC--CCcC------CcCCceEEEEecCCC-CCCCCCCCCCCCcccC
Q 001223 743 VEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVA--SMED------IMGNQVLCAIYKLPD-AHKHVTRPPAGVIFPK 813 (1120)
Q Consensus 743 ~~~~~~i~~~~s~g~~G~v~~~~~~~~~~~~~sPi~--~l~d------I~~n~~i~~~y~~P~-~~~h~s~ll~gv~~P~ 813 (1120)
...+++|||++|+||+|+|++++.+.+.++|.|||. +||| |.+|++|||.|++|+ .+.|+|+||+||++|+
T Consensus 783 ~~~~~~~~~~~s~gl~G~v~~~~~~~p~~~~~sP~~~~~~~~~~~~~~i~~n~~~~~~y~~P~~~~~~~s~lL~g~~~p~ 862 (899)
T 3fqd_A 783 QGKPLKLSGKMAHGLFGKVNTNDSVIPNVSVQCPIDVTSADALQKYGSIDDNQSISLVFEVPKSHFVHKSMLLRGVKMPN 862 (899)
T ss_dssp SSSCEECCGGGGTTCCSEEEECTTSCSCCCBCCSSCCCSHHHHHHSCCBSSCCEEEEEEECCCCSSCCCCSCCTTCCCCC
T ss_pred cCcccccCcccccCcceEEEeCCCcCCCCeecCCCCccCCCCccccccccCCcEEEEEEeCCCCCCCcCCcCCCCCCCCC
Confidence 555688999999999999999999888899999997 9999 999999999999999 6999999999999999
Q ss_pred CCCCcccCCC
Q 001223 814 KIVQLEDLKP 823 (1120)
Q Consensus 814 ~~l~~~d~~~ 823 (1120)
++|++.|++.
T Consensus 863 ~~l~~~D~~~ 872 (899)
T 3fqd_A 863 RVLTPEDINQ 872 (899)
T ss_dssp CCCCHHHHHH
T ss_pred CCCCHHHHHH
Confidence 9999999883
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=2.8e-191 Score=1742.94 Aligned_cols=696 Identities=36% Similarity=0.679 Sum_probs=532.2
Q ss_pred CcchhHHHHHHhhCCcccccccccCccccCCccccCCCCCCCCCCCccCeEEEeccccccccccCCCCC--CCCCHHHHH
Q 001223 1 MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRP--APTTFDEVF 78 (1120)
Q Consensus 1 MGVP~FfRWL~~rYP~ii~~viE~~~~~~dG~~iP~d~s~pNPNg~efDNLYLDMNGIIH~C~Hpe~~~--~p~te~Emf 78 (1120)
||||+|||||++|||+|+.. + ++..+| +|||||||||||||+|+|+++.+ .+.|++|||
T Consensus 1 MGVP~ffrwl~~ryP~i~~~-~-------~~~~~p-----------e~DnLYlDmNgIIH~c~h~~~~~~~~~~te~e~~ 61 (1155)
T 3pie_A 1 MGIPKFFHFISERWPQISQL-I-------DGSQIP-----------EFDNLYLDMNSILHNCTHGDGSEVNSRLSEEEVY 61 (1155)
T ss_pred CChHHHHHHHHHhCcchhhc-c-------cCCCCC-----------cCCeEEEecccceeeeecCCCCccccCCCHHHHH
Confidence 99999999999999998643 2 233444 89999999999999999999876 588999999
Q ss_pred HHHHHHHHHHHhhccccceEEEEecCCCchhhhHHHHhhhccchhHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCccC
Q 001223 79 QCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVFDSN 158 (1120)
Q Consensus 79 ~~If~yIDrL~~~VRPrKlLyiAIDGVAPRAKMNQQRsRRFrsakea~~~~~~~~~l~~e~~~eg~~lp~~~~~~~fDSN 158 (1120)
.+||+|||+||.+|||||+||||||||||||||||||+||||+|++++++.. +..++|..+|. .+.||||
T Consensus 62 ~~if~yid~l~~~vrPrkllyiAiDGVAPrAKmnqQR~RRfrsa~~~~~~~~-------~~~~~g~~~~~---~~~fdsn 131 (1155)
T 3pie_A 62 SKIFSYIDHLFHTIKPKQTFYMAIDGVAPRAKMNQQRARRFRTAMDAEKALQ-------KAIENGDELPK---GEPFDSN 131 (1155)
T ss_pred HHHHHHHHHHHHhcCcceEEEEEecCCCChhHHHHHHHHHHHhhhhhhHHHH-------HHHhcCCcCCc---ccccccc
Confidence 9999999999999999999999999999999999999999999998764322 23456776663 3689999
Q ss_pred cccCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecChhHHH
Q 001223 159 VITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIM 238 (1120)
Q Consensus 159 ~ITPGT~FM~~Ls~~L~~yI~~kl~~Dp~W~~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydPNt~HcIYGlDADLIm 238 (1120)
||||||+||.+|+.+|+|||++||++||.|++++|||||++||||||||||+|||++|++|+|||||+|||||+||||||
T Consensus 132 ~ITPGT~FM~~L~~~L~~~i~~k~~~d~~w~~~~vi~S~~~vPGEGEhKIm~~IR~~r~~p~y~pn~~H~IyG~DADLIm 211 (1155)
T 3pie_A 132 AITPGTEFMAKLTENLKYFIHDKITNDTRWQNVKVIFSGHEVPGEGQHKIMDYIRAIRAQEDYNPNTRHCIYGLDADLII 211 (1155)
T ss_pred cccCCcHHHHHHHHHHHHHHHHHhhCCcCccccEEEEeCCCCCCccHHHHHHHHHHhccCCCCCCCCeEEEeccChhHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhcCCceEEEeecccccCCCCCcccccCCCCCcccccccccccccCCCCcCCCcccCCCCCeEEEehhHHHHHHHHHh
Q 001223 239 LALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEF 318 (1120)
Q Consensus 239 L~LatHep~f~ILRE~V~~~~~~~~c~~cgQ~gH~~~~c~g~~k~k~~e~~~~~~~~~~~~~~f~~l~I~vLREYL~~el 318 (1120)
|||+||||||+||||+|++..+... + .....+.|+||||++|||||+.||
T Consensus 212 L~L~thep~f~iLRe~v~f~~~~~~------------------~------------~~~~~~~f~~l~i~~LREyL~~ef 261 (1155)
T 3pie_A 212 LGLSTHDHHFCLLREEVTFGKRSSS------------------V------------KTLETQNFFLLHLSILREYLALEF 261 (1155)
T ss_pred hhhccCCCcEEEEeeccccCccccc------------------c------------cccccCCeEEEEHHHHHHHHHHHH
Confidence 9999999999999999866432100 0 011246799999999999999999
Q ss_pred cC--CCCCCccchhhhhhHHHHhhhhcccCCCCCCCccccccchHHHHHHHHHHHHHhcCCccccCCccCHHHHHHHHHH
Q 001223 319 RI--PNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQA 396 (1120)
Q Consensus 319 ~~--~~~pF~~dlERiIDDfVfLcffvGNDFLPhLPsL~IreGaId~Li~~YKk~L~~~ggYLT~~G~INl~rl~~fl~~ 396 (1120)
.. +.++|++|+|||||||||||||||||||||||+|+|++||||.|+++||+.|+++|||||++|+|||+||+.||+.
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 6789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhhHHHHHHHHHHHHHHHH---HHHH--HHHHHhhcCCCCCCCCCCCCccccccccCCCCCCCCCCCCCcccccc-ccc
Q 001223 397 VGSYEDRIFQKRARLHQRHA---ERIK--REKAQARRGDDVEPLAQPDSLVPVSRFHGSRLASGPSPSPYQQSECV-GRL 470 (1120)
Q Consensus 397 L~~~Ed~iF~~r~~~e~r~~---e~~k--r~k~~~~~~~~~~~~~~p~~~~p~~~~~~~~l~~~~~~~~~~~~~~~-~~~ 470 (1120)
||++|++||++|...++... +++. ..+.+++.++......+.+....+..+... ..+...+......... ..+
T Consensus 342 L~~~E~~~F~~~~~d~~~~~~k~~~~~~~~~~~r~~~~~~~~~~~q~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~l 420 (1155)
T 3pie_A 342 LSDFEYLNFEKKDIDVEWFNQQLENISLEGERKRTRMGKKLLMKQQKKLIGAVKPWLLK-TVQRKVTSELQDADFEIFPL 420 (1155)
T ss_pred HHHHHHHHHHHHhhHHHHHHHhhhhhhhhhHHHhhhhcccccchhHHhhhhccchhhhc-cccccccccccccccccccc
Confidence 99999999999976532221 1111 001111111110000000000000000000 0000000000000000 000
Q ss_pred cCCCCCCCCCCcccccCCCcchhhHHHhhhccCCCCccccHHHHHHHH--HHHHhhhccc-C---CCCCchhhhhccCCC
Q 001223 471 DNGKGTSGRPHKVPRLSSGATIGAAIVEAENSFETDPQENKEEFKAKL--KELLRDKSDA-F---NSDNPEEDKVKLGEP 544 (1120)
Q Consensus 471 ~~~~~~~~~~~k~~~~s~~~~~~~~~~~~e~~~~~~~~~~~eelk~~l--~~~~~~k~d~-~---~~~~~~eD~VkL~e~ 544 (1120)
.+.. .....+...+ ..+ .+... .... ...++....++ .......++. . +.....++.+..+.+
T Consensus 421 ~~~~-~~~~~~~~~~-------~~a-~~~~~-~~~~-~~~~~~~~~~~~~~~~~~~~~~ee~~~~~~~~~~~~~~~~~~~ 489 (1155)
T 3pie_A 421 EDKE-LVRANLDFLK-------EFA-FDLGL-ILAH-SKSKDLYYFKLDLDSINXXXXXXXXXXXXXXXXXXXIYSERFV 489 (1155)
T ss_pred Cchh-hhhhhHHHHH-------HHH-Hhhcc-cccc-cccccccceecccccccccccccccccccccccccccchhhhh
Confidence 0000 0000000000 000 00000 0000 00000000000 0000000000 0 000011223334457
Q ss_pred chhHHHHHHhcCCCChhHHHHHHHHHHHHHHhhHHHHhhhhccCcCcccccccCCCCcccccccccccccceecCCCCCC
Q 001223 545 GWKERYYEEKFNAKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFK 624 (1120)
Q Consensus 545 gwK~rYY~~KF~v~~~~di~~~r~~vv~~YvEGL~WVL~YYyqGcpSW~WYYPYHYAPfaSDl~~l~~~~i~Fe~G~Pf~ 624 (1120)
|||+|||++||+++..+ ++++++||++|||||||||+|||+|||||+||||||||||||||+++.+++|+|++|+||+
T Consensus 490 ~~k~rYY~~Kf~~~~~~--~e~~~~v~~~YveGL~WVL~YYy~Gc~SW~WyYPYHYAPfasDl~~~~~~~i~F~~g~Pf~ 567 (1155)
T 3pie_A 490 EWKDQYYKDKLDFSIND--TDSLKEMTENYVGGLQWVLYYYYRGCPSWSWYYRYHYAPRISDVIKGIDQNIEFHKGQPFK 567 (1155)
T ss_pred hHHHHHHHHhcCCCcCC--HHHHHHHHHHHHHHHHhHHHHHhCCCCCccccCccccccHHHHHHhhcccceeecCCCCCC
Confidence 99999999999997543 3467899999999999999999999999999999999999999999989999999999999
Q ss_pred hhhhhhhcCCCCCCCCCcHHHHhhhcCCCCCCcccCCCcccccCCCCcccccceeccCCCChHHHHHHHHhhcCCCCHHH
Q 001223 625 PFNQLLGVFPSASSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEE 704 (1120)
Q Consensus 625 PfEQLMsVLPaaS~~~LP~~~r~LMtdp~SpIiDFYP~dF~ID~NGKk~~WqGVaLLPFIDe~rLl~a~~~~~~~LT~eE 704 (1120)
|||||||||||+|+++||++|++||+||+|||+||||++|+|||||||++||||||||||||+|||+||++++++||+||
T Consensus 568 PfeQLm~VLP~~S~~~LP~~~~~LM~d~~SpIidFYP~dF~iD~NGKk~~WqgVvlLPFIDe~rLl~a~~~~~~~Lt~eE 647 (1155)
T 3pie_A 568 PFQQLMAVLPERSKNLIPVVYRPLMYDEHSPILDFYPNEVELDLNGKTADWEAVVKISFVDQKRLVEAMAPYDAKLSPDE 647 (1155)
T ss_pred cHHHHhhhcChhhhccCcHhHHHhhcCCCCchhhhCccceeecCCCCccceeeEEECCcCCHHHHHHHHhhccccCCHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhccCCCceEEeecCCCcchhhhhhhhHhhhhhhhhhhhhhhcCCcCcCCCcceeeecCCCCCCCCcccCCCC-CCcCC
Q 001223 705 ARRNSIMADMLFVLLSHPLSASIYTLDEHCKQLKIKERVEVKERLNPELSDGMNGYISPCAGDPHPPVFRSPVA-SMEDI 783 (1120)
Q Consensus 705 ~~RN~~g~d~lfv~~~~~l~~~i~~l~~~~~~~~~~~~~~~~~~i~~~~s~g~~G~v~~~~~~~~~~~~~sPi~-~l~dI 783 (1120)
++||++|.++||+++... ..++.||++ .+|||
T Consensus 648 ~~RN~~g~~~lf~~~~~~-----------------------------------------------~~~~~s~l~~~f~~i 680 (1155)
T 3pie_A 648 KKRNSFGTDLIFIFNPQV-----------------------------------------------DTVYKTPLAGLFNDI 680 (1155)
T ss_pred HhhccCCCcEEEEecCCC-----------------------------------------------CceeCCCccccCCCc
Confidence 999999999999975311 023456775 57899
Q ss_pred cCCceEEEEecCCCCC--CCCCCCCCCCcccCCCC
Q 001223 784 MGNQVLCAIYKLPDAH--KHVTRPPAGVIFPKKIV 816 (1120)
Q Consensus 784 ~~n~~i~~~y~~P~~~--~h~s~ll~gv~~P~~~l 816 (1120)
.++.|+...|.+|... .-+..|++|+++-...|
T Consensus 681 ~~~~~~~~~~~~p~~~~~~~~~~l~~g~~~g~~~l 715 (1155)
T 3pie_A 681 EHNHCIEREFIPESMENVKFLFGLPKGAKLGASSL 715 (1155)
T ss_pred ccceEEEEeecCCCcccceecccCCcccccCcccc
Confidence 9999999999999863 33578888888654433
No 3
>2y35_A LD22664P; hydrolase-DNA complex, RNA degradation, exonuclease 5'-3', R interference; 3.20A {Drosophila melanogaster}
Probab=100.00 E-value=2.4e-175 Score=1620.16 Aligned_cols=581 Identities=42% Similarity=0.806 Sum_probs=475.8
Q ss_pred CcchhHHHHHHhhCCcccccccccCccccCCccccCCCCCCCCCCCccCeEEEeccccccccccCCCCCCC--CCHHHHH
Q 001223 1 MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDRPAP--TTFDEVF 78 (1120)
Q Consensus 1 MGVP~FfRWL~~rYP~ii~~viE~~~~~~dG~~iP~d~s~pNPNg~efDNLYLDMNGIIH~C~Hpe~~~~p--~te~Emf 78 (1120)
||||+|||||++|||+|+..+.+ ..+| +|||||||||||||+|+|+++.+.+ .+|+|||
T Consensus 1 MGVp~ffrwl~~ryP~~~~~~~~--------~~~~-----------e~DnLYlDmNgIIH~c~h~~~~~~~~~~~e~e~~ 61 (1140)
T 2y35_A 1 MGVPKFFRYISERYPCLSELARE--------HCIP-----------EFDNLYLDMNGIVHNCSHPDDNNIHFHLEEEQIF 61 (1140)
T ss_dssp CCSCHHHHHHHHHSGGGEEEEET--------TTSC-----------CCSEEEEEHHHHHHHHHCC------CCCCHHHHH
T ss_pred CChhHHHHHHHHHCCchhhhccc--------cCCC-----------cCCeEEEecchhhhhhcCCCCCCCCCCCCHHHHH
Confidence 99999999999999987543222 1122 8999999999999999999987654 6899999
Q ss_pred HHHHHHHHHHHhhccccceEEEEecCCCchhhhHHHHhhhccchhHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCccC
Q 001223 79 QCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVFDSN 158 (1120)
Q Consensus 79 ~~If~yIDrL~~~VRPrKlLyiAIDGVAPRAKMNQQRsRRFrsakea~~~~~~~~~l~~e~~~eg~~lp~~~~~~~fDSN 158 (1120)
.+||+|||+||.+|||||+||||||||||||||||||+||||+|+++++.++ +..++|... ..+.||||
T Consensus 62 ~~if~yid~l~~~vrPrkll~iAiDGvAPrAKmnqQR~RRfrsa~~~~~~~~-------~~~~~g~~~----~~~~fdsn 130 (1140)
T 2y35_A 62 QEIFNYVDKLFYLIKPQRLFFLSVDGVAPRAKMNQQRSRRFRTAREAEQQEA-------KAAQRGELR----EHERFDSN 130 (1140)
T ss_dssp HHHHHHHHHHHHHHCCSSEEEEECCCSCCHHHHHHHHHHHHHHHHHHHHHHH-------HHHHC-----------CCCSG
T ss_pred HHHHHHHHHHHheeccceeEEEEecCCCchhHHHHHHHHHhhhhhhhhhhHH-------HHhhcCCcc----ccccCCcc
Confidence 9999999999999999999999999999999999999999999998765432 223445432 24689999
Q ss_pred cccCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecChhHHH
Q 001223 159 VITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIM 238 (1120)
Q Consensus 159 ~ITPGT~FM~~Ls~~L~~yI~~kl~~Dp~W~~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydPNt~HcIYGlDADLIm 238 (1120)
||||||+||.+|+.+|++||+.|+++||.|++++|||||++||||||||||+|||.+|++|+|||||+|||||+||||||
T Consensus 131 ~ITPGT~FM~~l~~~L~~~i~~k~~~d~~w~~~~Vi~S~~~vPGEGEhKIm~~IR~~~~~p~~~pn~~HciyG~DADLIm 210 (1140)
T 2y35_A 131 CITPGTEFMVRLQEGLRAFLKTKISTDPLWQRCTVILSGQEAPGEGEHKIMDYIRYMKTQPDYDPNTRHCLYGLDAALII 210 (1140)
T ss_dssp GGSTTSHHHHHHHHHHHHHHHHHHHHCGGGSSSEEEEECSSSCSCHHHHHHHHHHHHHHSTTCCTTCCEEEECCSHHHHH
T ss_pred ccCCCcHHHHHHHHHHHHHHHHHhccCccccceEEEEeCCCCCCchHHHHHHHHHHHhhCCCCCCCCeEEEEccCHhHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhhcCCceEEEeecccccCCCCCcccccCCCCCcccccccccccccCCCCcCCCcccCCCCCeEEEehhHHHHHHHHHh
Q 001223 239 LALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEF 318 (1120)
Q Consensus 239 L~LatHep~f~ILRE~V~~~~~~~~c~~cgQ~gH~~~~c~g~~k~k~~e~~~~~~~~~~~~~~f~~l~I~vLREYL~~el 318 (1120)
|||+||||||+||||+|++....+ +. ......|++|||++|||||+.||
T Consensus 211 L~L~the~~f~ilRe~v~f~~~~~--------------------~~-----------~~~~~~f~~l~i~~lReyL~~ef 259 (1140)
T 2y35_A 211 LGLCTHELHFVVLREEVKFGRNVK--------------------RT-----------SVEETRFFLLHLGLLREYLELEF 259 (1140)
T ss_dssp HHHHTTCSSEEEEEESSCTTCCTT--------------------CC-----------CGGGCEEEEEEHHHHHHHHHHHG
T ss_pred HHHccCCCcEEEeecccccccccc--------------------cc-----------cccccceEEEEehHHHHHHHHHh
Confidence 999999999999999986542110 00 01235799999999999999999
Q ss_pred cC-CCCCCccchhhhhhHHHHhhhhcccCCCCCCCccccccchHHHHHHHHHHHHHhcCCccccCCccCHHHHHHHHHHH
Q 001223 319 RI-PNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLEIREGAINLLMAVYKKEFRALGGYLTDGSKPSLRRVEHFIQAV 397 (1120)
Q Consensus 319 ~~-~~~pF~~dlERiIDDfVfLcffvGNDFLPhLPsL~IreGaId~Li~~YKk~L~~~ggYLT~~G~INl~rl~~fl~~L 397 (1120)
.. ...+|++|+|||||||||||||+|||||||||+|+|++|||++|+++|++.++++|||||++|+||++||+.||+.|
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 75 34579999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCCCCCCCCCCccccccccCCCCCCCCCCCCCccccccccccCCCCCC
Q 001223 398 GSYEDRIFQKRARLHQRHAERIKREKAQARRGDDVEPLAQPDSLVPVSRFHGSRLASGPSPSPYQQSECVGRLDNGKGTS 477 (1120)
Q Consensus 398 ~~~Ed~iF~~r~~~e~r~~e~~kr~k~~~~~~~~~~~~~~p~~~~p~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~ 477 (1120)
++.|+++|++|.+..+.. +. |.. +.+ .. +. .+... ..+ .
T Consensus 340 ~~~E~~~f~~~~~~~~~~--~~---k~~--~~~-~~----------~~-----~~~~~---~~~-----~---------- 378 (1140)
T 2y35_A 340 TEVELDHFKEHADDLKYM--NN---KSE--AFD-MD----------VG-----EITES---QNL-----D---------- 378 (1140)
T ss_dssp HHHHHHHHHHHSCC------------------------------------------------------------------
T ss_pred HHHHHHHHHHHHHHHHHh--hh---cch--hcc-cc----------hh-----hcccc---ccc-----h----------
Confidence 999999998875321110 00 000 000 00 00 00000 000 0
Q ss_pred CCCCcccccCCCcchhhHHHhhhccCCCCccccHHHHHHHHHHHHhhhcccCCCCCchhhhhccC-CCchhHHHHHHhcC
Q 001223 478 GRPHKVPRLSSGATIGAAIVEAENSFETDPQENKEEFKAKLKELLRDKSDAFNSDNPEEDKVKLG-EPGWKERYYEEKFN 556 (1120)
Q Consensus 478 ~~~~k~~~~s~~~~~~~~~~~~e~~~~~~~~~~~eelk~~l~~~~~~k~d~~~~~~~~eD~VkL~-e~gwK~rYY~~KF~ 556 (1120)
.... +.++. ..+....+.. .+...++.+.++ .++||++||++||+
T Consensus 379 ------------~~~~-~~~~~--~~~~~~~~~~-------------------~~~~~e~~~~~~~~~~~k~~YY~~Kf~ 424 (1140)
T 2y35_A 379 ------------SDLG-ALINK--SMLLYDDDSE-------------------EDCSDENAVLLKEFQNYKRNFYRNKFK 424 (1140)
T ss_dssp ---------------------------------------------------------CHHHHHHHHHHHHHHHHHHHHHC
T ss_pred ------------hHHH-HHHHh--hhhccccccc-------------------cccchhhhhhhhhhhHHHHHHHHHHhC
Confidence 0000 00000 0000000000 000011122222 36899999999999
Q ss_pred CCChhHHHHHHHHHHHHHHhhHHHHhhhhccCcCcccccccCCCCcccccccccccccceecCCCCCChhhhhhhcCCCC
Q 001223 557 AKTPEEREETRKDVVLRYTEGLCWVMHYYYEGVCSWQWFYPYHYAPFASDLKDLDQFNISFELGHPFKPFNQLLGVFPSA 636 (1120)
Q Consensus 557 v~~~~di~~~r~~vv~~YvEGL~WVL~YYyqGcpSW~WYYPYHYAPfaSDl~~l~~~~i~Fe~G~Pf~PfEQLMsVLPaa 636 (1120)
++..+ +++++||++|||||||||+|||+|||||+||||||||||||||+++.+++|+|++|+||+||||||+||||+
T Consensus 425 ~~~~~---~~~~~~~~~YveGl~Wvl~YYy~G~~SW~WyYpyhYAP~~sDl~~~~~~~i~F~~g~Pf~PfeQLm~VLP~~ 501 (1140)
T 2y35_A 425 RDPND---ELIEELCHHYVNALQWVLDYYYRGVQSWDWYYPFHYTPFISDLKNIEQVEIAFHMGTPFLPFQQLLAVLPAA 501 (1140)
T ss_dssp SCCCH---HHHHHHHHHHHHHHHHHHHHHHTSCSCSSCCCCCSSCCCGGGCCCCTTCCCCCCCCCCCCHHHHHHHHCCGG
T ss_pred CCCcH---HHHHHHHHHHHHHHHHHHHHhcCCCCCCCcccCCCcCchHHHHHhhccccccccCCCCCChHHHHHhhcChh
Confidence 87543 567899999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCcHHHHhhhcCCCCCCcccCCCcccccCCCCcccccceeccCCCChHHHHHHHHhhcCCCCHHHHhhccCCCceEE
Q 001223 637 SSHALPEHYRKLMTDPNSPISDFYPTDFEVDMNGKRYSWQGIAKLPFIDEARLLDEVKKIEHTLTEEEARRNSIMADMLF 716 (1120)
Q Consensus 637 S~~~LP~~~r~LMtdp~SpIiDFYP~dF~ID~NGKk~~WqGVaLLPFIDe~rLl~a~~~~~~~LT~eE~~RN~~g~d~lf 716 (1120)
|+++||++|++||++|+|||+||||++|+||||||+++||||||||||||+|||+|++++++.||+||++||++|.+++|
T Consensus 502 S~~~LP~~~~~Lm~~~~Spi~dfYP~~f~iD~nGk~~~we~VvllPFIde~~Ll~a~~~~~~~Lt~eE~~RN~~g~~~~~ 581 (1140)
T 2y35_A 502 SAKLLPVAYHDLMLLPTSPLAEFYPLEFESDLNGKKHDWEAVVLIPFIDEGRLLAAMLPCEAQLSLEERERNRHGPMYVY 581 (1140)
T ss_dssp GGGGSCGGGHHHHHCTTCTTGGGSCSSCCCCCSSCCSGGGSCCCCCCCCHHHHHHTTHHHHHHSCHHHHHTTSCCCEEEE
T ss_pred hhhhCCHHHHHhhcCCCCchhHhCccceeecCCCCcCcEEeEEECCcCCHHHHHHHHHhccccCCHHHHhhcccCCceEE
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eecC
Q 001223 717 VLLS 720 (1120)
Q Consensus 717 v~~~ 720 (1120)
..+.
T Consensus 582 ~~~~ 585 (1140)
T 2y35_A 582 KYST 585 (1140)
T ss_dssp EECS
T ss_pred Eecc
Confidence 8764
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=98.45 E-value=6.4e-07 Score=100.33 Aligned_cols=151 Identities=13% Similarity=0.172 Sum_probs=80.0
Q ss_pred eEEEeccccccccccCCC---CCCCCC-HHHHHHHHHHHHHHHHhhc-cccceEEEEecCCCchhhhHHHHhhhccchhH
Q 001223 50 NLYLDMNGIIHPCFHPED---RPAPTT-FDEVFQCMFDYIDRLFVMV-RPRKLLYMAIDGVAPRAKMNQQRSRRFRASKD 124 (1120)
Q Consensus 50 NLYLDMNGIIH~C~Hpe~---~~~p~t-e~Emf~~If~yIDrL~~~V-RPrKlLyiAIDGVAPRAKMNQQRsRRFrsake 124 (1120)
-|-||.++.||-+.+.-. ...-.+ .-+.-..|+.++.+++.++ .|-+ +++++||.+|-.|......||-+....
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 789999999998765321 000000 0001123444444444444 4544 567899999988877665555544322
Q ss_pred HHHHHHHHHHHHHHHHHhCCCCCCCCCCCCC--ccCcccCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEcCCCCCC
Q 001223 125 AADSAAEEERLRQEFEREGRKLPPKSDSQVF--DSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPG 202 (1120)
Q Consensus 125 a~~~~~~~~~l~~e~~~eg~~lp~~~~~~~f--DSN~ITPGT~FM~~Ls~~L~~yI~~kl~~Dp~W~~lkVIlSds~VPG 202 (1120)
.+.. .+.+ +.|+.-. ...| .++.||| +.+.. ++..+.. + ++.+|. .|+
T Consensus 102 ~~~~-------~~~y-k~g~~~~----~~~~~~~~~~vt~--~~~~~----~~~lL~~-~-------gip~i~----ap~ 151 (340)
T 1b43_A 102 EEKW-------REAL-EKGEIEE----ARKYAQRATRVNE--MLIED----AKKLLEL-M-------GIPIVQ----APS 151 (340)
T ss_dssp HHHH-------HHHH-HHSCHHH----HHHHHHTSGGGTH--HHHHH----HHHHHHH-H-------TCCEEE----CSS
T ss_pred HHHH-------HHHH-HcCCHHH----HHHHHHhcCCCCH--HHHHH----HHHHHHH-c-------CCcEEE----cCh
Confidence 1111 1111 1111000 0011 2234444 22222 3333322 1 466776 479
Q ss_pred ChhhhHHHHHHHhhcCCCCCCCCcEEEEecChhHHHHH
Q 001223 203 EGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLA 240 (1120)
Q Consensus 203 EGEHKImdfIR~qr~~p~ydPNt~HcIYGlDADLImL~ 240 (1120)
|+|-=|-..-+. ....+|++.|.||++++
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 999988877764 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=98.16 E-value=1.4e-05 Score=89.47 Aligned_cols=104 Identities=18% Similarity=0.265 Sum_probs=58.8
Q ss_pred ccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecChhHHHHHhhcCCceEEEeecccccCCCCCcccccCC
Q 001223 190 KIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQ 269 (1120)
Q Consensus 190 ~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydPNt~HcIYGlDADLImL~LatHep~f~ILRE~V~~~~~~~~c~~cgQ 269 (1120)
++.+|. .|||+|-=+- ++- + .....+|++.|.||++|+ + ++ |+|..... + .| .
T Consensus 142 gi~~i~----apgeAEA~lA-~la--~------~g~~~~I~S~D~Dllql~-~---~~--v~~~l~~~-~---~~---~- 194 (336)
T 1rxw_A 142 GIPFVD----APSEGEAQAA-YMA--A------KGDVEYTGSQDYDSLLFG-S---PR--LARNLAIT-G---KR---K- 194 (336)
T ss_dssp TCCEEE----CSSCHHHHHH-HHH--H------TTSSSEEECSSSHHHHTT-C---SE--EEESCCC-------------
T ss_pred CCCEEE----cCchHHHHHH-HHH--H------cCCeeEEEcCCCCcceec-C---Ce--EEEecccc-c---cc---c-
Confidence 456664 5899999433 332 1 134689999999999998 2 33 34431100 0 00 0
Q ss_pred CCCcccccccccccccCCCCcCCCcccCCCCCeEEEehhHHHHHHHHHhcCCCCCCccchhhhhhHHHHhhhhcccCCCC
Q 001223 270 PGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLP 349 (1120)
Q Consensus 270 ~gH~~~~c~g~~k~k~~e~~~~~~~~~~~~~~f~~l~I~vLREYL~~el~~~~~pF~~dlERiIDDfVfLcffvGNDFLP 349 (1120)
.+. ++ ......+++++...+.+.+ .+ + -+.||.+|.|+|+|++|
T Consensus 195 ----------~~~--------~~---~~~~~~~~~~~~~~v~~~~----gl-------~----~~q~id~~~L~GsD~ip 238 (336)
T 1rxw_A 195 ----------LPG--------KN---VYVDVKPEIIILESNLKRL----GL-------T----REQLIDIAILVGTDYNE 238 (336)
T ss_dssp -----------------------------CCCCEEEEHHHHHHHH----TC-------C----HHHHHHHHHHHCBTTBC
T ss_pred ----------CCc--------cc---cccccceEEeEHHHHHHHc----CC-------C----HHHHHHHHhhcCCCCCC
Confidence 000 00 0000135677776655443 22 2 24788899999999999
Q ss_pred CCCcccc
Q 001223 350 HMPTLEI 356 (1120)
Q Consensus 350 hLPsL~I 356 (1120)
.+|++-+
T Consensus 239 Gv~GiG~ 245 (336)
T 1rxw_A 239 GVKGVGV 245 (336)
T ss_dssp CCTTCCH
T ss_pred CCCCcCH
Confidence 9998543
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=98.16 E-value=5.9e-06 Score=92.03 Aligned_cols=91 Identities=23% Similarity=0.399 Sum_probs=61.2
Q ss_pred ccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecChhHHHHHhhcCCceEEEeecccccCCCCCcccccCC
Q 001223 190 KIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQ 269 (1120)
Q Consensus 190 ~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydPNt~HcIYGlDADLImL~LatHep~f~ILRE~V~~~~~~~~c~~cgQ 269 (1120)
++.+|. .|||+|-=|-.+-+. ....+|++.|.||++|+ + ++ ++|-. ..
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 355664 589999988777763 34589999999999997 2 33 33321 00
Q ss_pred CCCcccccccccccccCCCCcCCCcccCCCCCeEEEehhHHHHHHHHHhcCCCCCCccchhhhhhHHHHhhhhcccCCCC
Q 001223 270 PGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLP 349 (1120)
Q Consensus 270 ~gH~~~~c~g~~k~k~~e~~~~~~~~~~~~~~f~~l~I~vLREYL~~el~~~~~pF~~dlERiIDDfVfLcffvGNDFLP 349 (1120)
+ .+.+++++...+.+.+ . ++ -+.||.+|.|+|+||+|
T Consensus 191 ---------------------~-------~~~~~~~~~~~v~~~~----g-------l~----~~q~id~~~L~GsD~~p 227 (326)
T 1a76_A 191 ---------------------T-------KEMPELIELNEVLEDL----R-------IS----LDDLIDIAIFMGTDYNP 227 (326)
T ss_dssp ---------------------C-------SSCCEEEEHHHHHHHH----T-------CC----HHHHHHHHHHHCCTTST
T ss_pred ---------------------C-------CCceEEEEHHHHHHHc----C-------CC----HHHHHHHHHHcCCCCCC
Confidence 0 0145677776655433 2 22 24688899999999999
Q ss_pred -CCCccc
Q 001223 350 -HMPTLE 355 (1120)
Q Consensus 350 -hLPsL~ 355 (1120)
.+|.+-
T Consensus 228 ~GvpGiG 234 (326)
T 1a76_A 228 GGVKGIG 234 (326)
T ss_dssp TTTTTCC
T ss_pred CCCCCcC
Confidence 999974
No 7
>3qe9_Y Exonuclease 1; exonuclease, hydrolase-DNA complex; HET: DNA; 2.51A {Homo sapiens} PDB: 3qeb_Z* 3qea_Z*
Probab=98.07 E-value=3e-05 Score=87.62 Aligned_cols=172 Identities=17% Similarity=0.282 Sum_probs=88.5
Q ss_pred CcchhHHHHHHhhCCcccccccccCccccCCccccCCCCCCCCCCCccCeEEEeccccccccccCC----CCCCCCCHHH
Q 001223 1 MGVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPE----DRPAPTTFDE 76 (1120)
Q Consensus 1 MGVP~FfRWL~~rYP~ii~~viE~~~~~~dG~~iP~d~s~pNPNg~efDNLYLDMNGIIH~C~Hpe----~~~~p~te~E 76 (1120)
|||.+|..||...-+.+- ++ ...|. -|=||....||-..... ..-.+++ .
T Consensus 1 MGI~GL~~~L~~~~~~~~---l~----~l~Gk-----------------~vaIDas~wL~~~~~~~~~~l~~G~~t~--~ 54 (352)
T 3qe9_Y 1 MGIQGLLQFIKEASEPIH---VR----KYKGQ-----------------VVAVDTYCWLHKGAIACAEKLAKGEPTD--R 54 (352)
T ss_dssp -CCTTHHHHTTTSEEEEE---GG----GGTTS-----------------EEEEETHHHHHHHHHHTHHHHHTTCCCC--H
T ss_pred CCcchHHHHHHhhCCcCC---HH----HhCCc-----------------EEEEecHHHHHHhhhccchhhcCCCCcH--H
Confidence 999999999977543221 11 11222 56788888888632210 0112232 1
Q ss_pred HHHHHHHHHHHHH-hhccccceEEEEecCCCchhhhHHHHhhhccchhHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCC
Q 001223 77 VFQCMFDYIDRLF-VMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVF 155 (1120)
Q Consensus 77 mf~~If~yIDrL~-~~VRPrKlLyiAIDGVAPRAKMNQQRsRRFrsakea~~~~~~~~~l~~e~~~eg~~lp~~~~~~~f 155 (1120)
++.-++..+..|. .-|+| ++.+||.+|-.|-....+||-+.....+...+ ..++|.. +...+.|
T Consensus 55 l~~~~~r~l~~L~~~gI~P----vfVFDG~~~p~Kk~~~~~Rr~~r~~~~~~~~~--------~~~~g~~---~~a~~~f 119 (352)
T 3qe9_Y 55 YVGFCMKFVNMLLSHGIKP----ILVFDGCTLPSKKEVERSRRERRQANLLKGKQ--------LLREGKV---SEARECF 119 (352)
T ss_dssp HHHHHHHHHHHHHHTTCEE----EEEECCSCCTTTHHHHHHHHHHHHHHHHHHHH--------HTTSSCC---HHHHHHH
T ss_pred HHHHHHHHHHHHHHcCCEE----EEEECCCCcHHHHHHHHHHHHHHHHHHHHHHH--------HHHhCCH---HHHHHHH
Confidence 2222222233221 22444 56799999988877665555543222111110 0111210 0000112
Q ss_pred -ccCcccCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecCh
Q 001223 156 -DSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDA 234 (1120)
Q Consensus 156 -DSN~ITPGT~FM~~Ls~~L~~yI~~kl~~Dp~W~~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydPNt~HcIYGlDA 234 (1120)
.+..||| + +...++..+.. -+|.+|.+ |+|+|-=|--.-+. .....|++.|.
T Consensus 120 ~~~~~vt~--~----~~~~i~~~L~~--------~gIp~i~a----p~EADaqiA~La~~---------g~~~~I~S~D~ 172 (352)
T 3qe9_Y 120 TRSINITH--A----MAHKVIKAARS--------QGVDCLVA----PYEADAQLAYLNKA---------GIVQAIITEDS 172 (352)
T ss_dssp GGGCCCCH--H----HHHHHHHHHHH--------TTCEEEEC----SSCHHHHHHHHHHT---------TSCSEEECSCG
T ss_pred hhcCCCCH--H----HHHHHHHHHHH--------cCCcEEEC----CcchHHHHHHHHHC---------CCeEEEEeCCc
Confidence 1235676 2 23334444432 25778874 79999977666552 34579999999
Q ss_pred hHHHHH
Q 001223 235 DLIMLA 240 (1120)
Q Consensus 235 DLImL~ 240 (1120)
||++|+
T Consensus 173 Dll~~~ 178 (352)
T 3qe9_Y 173 ALLAFG 178 (352)
T ss_dssp GGGGGT
T ss_pred Cccccc
Confidence 998887
No 8
>3ory_A Flap endonuclease 1; hydrolase; 2.00A {Desulfurococcus amylolyticus}
Probab=97.83 E-value=0.00012 Score=83.12 Aligned_cols=134 Identities=20% Similarity=0.283 Sum_probs=74.4
Q ss_pred cCcccCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecChhH
Q 001223 157 SNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADL 236 (1120)
Q Consensus 157 SN~ITPGT~FM~~Ls~~L~~yI~~kl~~Dp~W~~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydPNt~HcIYGlDADL 236 (1120)
+..||| +.+..+.+.|+.+ +|.+|.+ |||+|-=|-..-+ -....+|++-|.|+
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 345776 4455555555433 4566665 8899986544432 13568999999999
Q ss_pred HHHHhhcCCceEEEeecccccCCCCCcccccCCCCCcccccccccccccCCCCcCCCcccCCCCCeEEEehhHHHHHHHH
Q 001223 237 IMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDY 316 (1120)
Q Consensus 237 ImL~LatHep~f~ILRE~V~~~~~~~~c~~cgQ~gH~~~~c~g~~k~k~~e~~~~~~~~~~~~~~f~~l~I~vLREYL~~ 316 (1120)
++|+- ++ |+|-. +..+ +| +. . .++ ......+++++...+.+.+
T Consensus 191 l~fg~----~~--v~~~l-~~~~---~~-----------------~~-p----~~~---~~v~~~~~~~~~~~v~~~~-- 233 (363)
T 3ory_A 191 LLFGS----PK--LVRNL-TISG---RR-----------------KL-P----RKN---EYVEVKPELIELDKLLVQL-- 233 (363)
T ss_dssp HHTTC----SE--EEEST-TTCE---EE-----------------EC-S----STT---CEEEECCEEEEHHHHHHHH--
T ss_pred cccCC----Ce--EEEEe-eccc---cc-----------------cC-C----ccc---cccccceEEEcHHHHHHHh--
Confidence 99873 22 34431 1100 00 00 0 000 0000124677776655543
Q ss_pred HhcCCCCCCccchhhhhhHHHHhhhhcccCCCC-CCCccccccchHHHHHHHHH
Q 001223 317 EFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLP-HMPTLEIREGAINLLMAVYK 369 (1120)
Q Consensus 317 el~~~~~pF~~dlERiIDDfVfLcffvGNDFLP-hLPsL~IreGaId~Li~~YK 369 (1120)
. ++. +-||-+|.|+|+||+| .+|.+-.. .|+. |+.-|.
T Consensus 234 --g-------l~~----~q~id~~~L~GsDy~p~GVpGIG~K-tA~k-Ll~~~g 272 (363)
T 3ory_A 234 --G-------ITL----ENLIDIGILLGTDYNPDGFEGIGPK-KALQ-LVKAYG 272 (363)
T ss_dssp --T-------CCH----HHHHHHHHHHCBTTBTTCSTTCCHH-HHHH-HHHHHT
T ss_pred --C-------cCH----HHHHHHHHHhCCCCCCCCCCCcCHH-HHHH-HHHHcC
Confidence 2 222 3577799999999999 99975432 3444 555553
No 9
>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=97.49 E-value=0.00052 Score=78.12 Aligned_cols=229 Identities=17% Similarity=0.289 Sum_probs=116.4
Q ss_pred cchhHHHHHHhhCCcccccccccCccccCCccccCCCCCCCCCCCccCeEEEeccccccccccCCCC--CCCCCHH-HHH
Q 001223 2 GVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPEDR--PAPTTFD-EVF 78 (1120)
Q Consensus 2 GVP~FfRWL~~rYP~ii~~viE~~~~~~dG~~iP~d~s~pNPNg~efDNLYLDMNGIIH~C~Hpe~~--~~p~te~-Emf 78 (1120)
||++|...|...-|.++..+- +.. -.| --|-||.+.+||-+.|.-.. ..-.+.+ +.-
T Consensus 1 GI~GL~~~L~~~~~~~~~~~~-------------l~~----l~g---~~l~IDg~~~lyr~~~a~~~~~~~l~~~~G~~t 60 (379)
T 1ul1_X 1 GIQGLAKLIADVAPSAIREND-------------IKS----YFG---RKVAIDASMSIYQFLIAVRQGGDVLQNEEGETT 60 (379)
T ss_dssp CCTTHHHHHHTTCTTSCCEEC-------------GGG----GTT---CCEEEEHHHHHHHHHSCC-------------CC
T ss_pred CcChhHHHHHHhccccceeeC-------------HHH----cCC---CEEEEEchHHHHHHHHhCCCcccccCcCCCCCc
Confidence 899999999998886654421 000 012 26889999999998875311 0001110 111
Q ss_pred HHHHHHHHH---HHhh-ccccceEEEEecCCCchhhhHH--HH-hhhccchhHHHHHHHHHHHHHHHHHHhCCCCCCCCC
Q 001223 79 QCMFDYIDR---LFVM-VRPRKLLYMAIDGVAPRAKMNQ--QR-SRRFRASKDAADSAAEEERLRQEFEREGRKLPPKSD 151 (1120)
Q Consensus 79 ~~If~yIDr---L~~~-VRPrKlLyiAIDGVAPRAKMNQ--QR-sRRFrsakea~~~~~~~~~l~~e~~~eg~~lp~~~~ 151 (1120)
..|+.++.+ |+.. ++| +| ++||..|-.|-.. .| .+|-.+.....+ ...+|. |++
T Consensus 61 ~~l~g~~~~~~~ll~~~i~P---~~-VFDG~~~~~K~~~~~~yk~~R~~~~~~~~~-----------~~~~g~--~~~-- 121 (379)
T 1ul1_X 61 SHLMGMFYRTIRMMENGIKP---VY-VFDGKPPQLKSGELAKRSERRAEAEKQLQQ-----------AQAAGA--EQE-- 121 (379)
T ss_dssp HHHHHHHHHHHHHHHTTCCE---EE-EECCSCCSCCCCCCCCC-------------------------------------
T ss_pred hHHHHHHHHHHHHHHCCCCe---EE-EEeCCCcccccchHHHHHhhhhHHHHHHHH-----------HHHcCC--HHH--
Confidence 123334444 4443 555 34 8999998555332 22 222211111100 001111 000
Q ss_pred CCCCc--cCcccCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEE
Q 001223 152 SQVFD--SNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCL 229 (1120)
Q Consensus 152 ~~~fD--SN~ITPGT~FM~~Ls~~L~~yI~~kl~~Dp~W~~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydPNt~HcI 229 (1120)
-..|. +..||+- -+..+.+.|+.+ ++.+|. .|||+|-=|--.-+. ....+|
T Consensus 122 ~~~~~~~~~~vt~~--~~~~~~~lL~~~------------Gi~~i~----apgEADd~iA~La~~---------g~~~~i 174 (379)
T 1ul1_X 122 VEKFTKRLVKVTKQ--HNDECKHLLSLM------------GIPYLD----APSEAEASCAALVKA---------GKVYAA 174 (379)
T ss_dssp -------CCCCCCS--CHHHHHHHHHHH------------TCCEEE----CSSCHHHHHHHHHHH---------TSSSEE
T ss_pred HHHHHhhccCCCHH--HHHHHHHHHHHc------------CCCeec----CCCcHHHHHHHHHhc---------CCeEEE
Confidence 01122 2234332 233333333322 355665 489999988888775 234789
Q ss_pred EecChhHHHHHhhcCCceEEEeecccccCCCCCcccccCCCCCcccccccccccccCCCCcCCCcccCCCCCeEEEehhH
Q 001223 230 YGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWT 309 (1120)
Q Consensus 230 YGlDADLImL~LatHep~f~ILRE~V~~~~~~~~c~~cgQ~gH~~~~c~g~~k~k~~e~~~~~~~~~~~~~~f~~l~I~v 309 (1120)
.+-|.||++++ + ++ |+|-..+. + ..+..++.++...
T Consensus 175 iS~D~Dll~~g-~---~~--v~~~~~~~-~-------------------------------------~~k~~~~~~~~~~ 210 (379)
T 1ul1_X 175 ATEDMDCLTFG-S---PV--LMRHLTAS-E-------------------------------------AKKLPIQEFHLSR 210 (379)
T ss_dssp ECSCTHHHHTT-C---SE--EEECSSCC-C--------------------------------------CCCCEEEEEHHH
T ss_pred EecCcCccccc-c---ce--EEEEeccc-c-------------------------------------cCcCCeEEEeHHH
Confidence 99999999997 2 23 33321000 0 0012466777765
Q ss_pred HHHHHHHHhcCCCCCCccchhhhhhHHHHhhhhcccCCCCCCCccc
Q 001223 310 LREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLE 355 (1120)
Q Consensus 310 LREYL~~el~~~~~pF~~dlERiIDDfVfLcffvGNDFLPhLPsL~ 355 (1120)
+.+.+ . ++. +.||.||.|+|+||.+.||.+-
T Consensus 211 v~~~~----g-------l~~----~q~id~~~L~G~D~~d~IpGIG 241 (379)
T 1ul1_X 211 ILQEL----G-------LNQ----EQFVDLCILLGSDYCESIRGIG 241 (379)
T ss_dssp HHHHH----T-------CCH----HHHHHHHHHHHCSSSCCCTTCC
T ss_pred HHHHh----C-------CCH----HHHHHHHHHhCCCcCCCCCCcC
Confidence 54432 2 222 4678899999999999999863
No 10
>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=97.34 E-value=0.0012 Score=74.36 Aligned_cols=211 Identities=17% Similarity=0.240 Sum_probs=96.3
Q ss_pred eEEEeccccccccccCCCC---CCCCC----HHHHHHHHHHHHHHHHhh-ccccceEEEEecCCCchhhhHH--HHh-hh
Q 001223 50 NLYLDMNGIIHPCFHPEDR---PAPTT----FDEVFQCMFDYIDRLFVM-VRPRKLLYMAIDGVAPRAKMNQ--QRS-RR 118 (1120)
Q Consensus 50 NLYLDMNGIIH~C~Hpe~~---~~p~t----e~Emf~~If~yIDrL~~~-VRPrKlLyiAIDGVAPRAKMNQ--QRs-RR 118 (1120)
-|-||.+++||-+.+.-.. ..-.+ ....+..+|..+-+|+.. ++| ++++||..|-.|-.. .|. +|
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 6889999999987664311 00000 011223334444455554 788 689999988555433 332 22
Q ss_pred ccchhHHHHHHHHHHHHHHHHHHhCCCCCCCCCCCCCc--cCcccCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEc
Q 001223 119 FRASKDAADSAAEEERLRQEFEREGRKLPPKSDSQVFD--SNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILS 196 (1120)
Q Consensus 119 Frsakea~~~~~~~~~l~~e~~~eg~~lp~~~~~~~fD--SN~ITPGT~FM~~Ls~~L~~yI~~kl~~Dp~W~~lkVIlS 196 (1120)
-.+..+ +.+ ....|.. .....|- +..||| +.+..+.+.|+.+ ++.+|.
T Consensus 96 ~~~~~~----------l~~-~~~~g~~----~~a~~~~~~~~~vt~--~~~~~~~~lL~~~------------gi~~i~- 145 (346)
T 2izo_A 96 EEAERK----------LER-AKSEGKI----EELRKYSQAILRLSN--IMVEESKKLLRAM------------GIPIVQ- 145 (346)
T ss_dssp --------------------------------------------CH--HHHHHHHHHHHHH------------TCCEEE-
T ss_pred HHhHHH----------HHH-HHhcCCH----HHHHHHHhhccCCCH--HHHHHHHHHHHHC------------CCCEEE-
Confidence 211111 110 0111110 0001122 223332 3444444444322 456665
Q ss_pred CCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEecChhHHHHHhhcCCceEEEeecccccCCCCCcccccCCCCCcccc
Q 001223 197 DANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAAN 276 (1120)
Q Consensus 197 ds~VPGEGEHKImdfIR~qr~~p~ydPNt~HcIYGlDADLImL~LatHep~f~ILRE~V~~~~~~~~c~~cgQ~gH~~~~ 276 (1120)
.|||+|-=|--.-+. ....+|++.|.||++|+- ++ |+|-.. ..+ +|
T Consensus 146 ---ap~EADa~ia~La~~---------g~~~~I~S~D~D~l~~~~----~~--v~~~~~-~~~---~~------------ 191 (346)
T 2izo_A 146 ---APSEGEAEAAYLNKL---------GLSWAAASQDYDAILFGA----KR--LVRNLT-ITG---KR------------ 191 (346)
T ss_dssp ---CSSCHHHHHHHHHHT---------TSSSEEECSSSHHHHTTC----SE--EEESSC-C-------------------
T ss_pred ---cCCcHHHHHHHHHhC---------CCeEEEECCCCCcceecC----Ce--EEEEec-ccc---cc------------
Confidence 589999988776651 346899999999999872 33 333210 000 00
Q ss_pred cccccccccCCCCcCCCcccCCCCCeEEEehhHHHHHHHHHhcCCCCCCccchhhhhhHHHHhhhhcccCCCC-CCCccc
Q 001223 277 CEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLREYLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLP-HMPTLE 355 (1120)
Q Consensus 277 c~g~~k~k~~e~~~~~~~~~~~~~~f~~l~I~vLREYL~~el~~~~~pF~~dlERiIDDfVfLcffvGNDFLP-hLPsL~ 355 (1120)
+... ++ ......+++++...+.+.+ .+ + -+.||.+|.|+|+||+| .+|.+-
T Consensus 192 -----~~p~-----~~---~~~~~~~~~~~~~~v~~~~----gl-------~----~~q~id~~~L~G~D~~p~Gv~GIG 243 (346)
T 2izo_A 192 -----KLPN-----KD---VYVEIKPELIETEILLKKL----GI-------T----REQLIDIGILIGTDYNPDGIRGIG 243 (346)
T ss_dssp --------------------CCCCCCEEEEHHHHHHHH----TC-------C----HHHHHHHHHHHCCSSSTTCSTTCC
T ss_pred -----cCcc-----cc---cccccceEEEEHHHHHHHc----CC-------C----HHHHHHHHHHcCCCCCCCCCCCcC
Confidence 0000 00 0000135677776555433 22 2 24688899999999999 999874
Q ss_pred c
Q 001223 356 I 356 (1120)
Q Consensus 356 I 356 (1120)
+
T Consensus 244 ~ 244 (346)
T 2izo_A 244 P 244 (346)
T ss_dssp H
T ss_pred H
Confidence 4
No 11
>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=97.20 E-value=0.0013 Score=73.94 Aligned_cols=232 Identities=18% Similarity=0.232 Sum_probs=121.3
Q ss_pred cchhHHHHHHhhCCcccccccccCccccCCccccCCCCCCCCCCCccCeEEEeccccccccccCCC--CCCCCC-HHHHH
Q 001223 2 GVPAFYRWLAEKYPLVVADVIEEEPVVIDGVKIPVDTSKPNPNGLEYDNLYLDMNGIIHPCFHPED--RPAPTT-FDEVF 78 (1120)
Q Consensus 2 GVP~FfRWL~~rYP~ii~~viE~~~~~~dG~~iP~d~s~pNPNg~efDNLYLDMNGIIH~C~Hpe~--~~~p~t-e~Emf 78 (1120)
||.++...|.+.-|.+++.+-=+ +..| --|-||.++.||-+.|.-. ...-++ .-+.-
T Consensus 1 GI~GL~~~l~~~~p~~~~~~~l~---~l~g-----------------k~l~IDgs~~lyr~~~a~~~~~~~l~~~~G~~T 60 (341)
T 3q8k_A 1 GIQGLAKLIADVAPSAIRENDIK---SYFG-----------------RKVAIDASMSIYQFLIAVRQGGDVLQNEEGETT 60 (341)
T ss_dssp CCTTHHHHHHHHCGGGEEEEEGG---GGTT-----------------CEEEEEHHHHHHHHHHHCEETTEECBCTTSCBC
T ss_pred CchhHHHHHHHhhhhccccccHH---HhCC-----------------CEEEEecHHHHHHHHHccccccCCCCCCCCCCc
Confidence 89999999999999877654110 0111 1578999999988766321 000000 00111
Q ss_pred HHHHHHHHHHHhhcc-ccceEEEEecCCCchhh--hHHHHh-hhccchhHHHHHHH--HHHHHHHHHHHhCCCCCCCCCC
Q 001223 79 QCMFDYIDRLFVMVR-PRKLLYMAIDGVAPRAK--MNQQRS-RRFRASKDAADSAA--EEERLRQEFEREGRKLPPKSDS 152 (1120)
Q Consensus 79 ~~If~yIDrL~~~VR-PrKlLyiAIDGVAPRAK--MNQQRs-RRFrsakea~~~~~--~~~~l~~e~~~eg~~lp~~~~~ 152 (1120)
..|+.++.+++.+++ --+-+| ++||.+|-.| +...|. +|-.+.+...++.. ..+.+.+...
T Consensus 61 ~al~g~~~~~~~ll~~~i~P~~-VFDg~~~~~r~~~~~~yk~~R~~~~~~~~~a~r~~~pe~l~~~~~------------ 127 (341)
T 3q8k_A 61 SHLMGMFYRTIRMMENGIKPVY-VFDGKPPQLKSGELAKRSERRAEAEKQLQQAQAAGAEQEVEKFTK------------ 127 (341)
T ss_dssp HHHHHHHHHHHHHHTTTCEEEE-EECCCCCGGGHHHHHHHHHHHHHHHHHHHHHHTTCCHHHHHHHHH------------
T ss_pred hHHHHHHHHHHHHHHCCCCceE-EEeCCCcccchhhhHHHHHHHhHhHHHHHHHHhcCCHHHHHHHHh------------
Confidence 244445555554444 223344 7999999554 455543 33222111110000 0011111110
Q ss_pred CCCccCcccCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEcCCCCCCChhhhHHHHHHHhhcCCCCCCCCcEEEEec
Q 001223 153 QVFDSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPGEGEHKIMSYVRLQRNLPGYDPNTRHCLYGL 232 (1120)
Q Consensus 153 ~~fDSN~ITPGT~FM~~Ls~~L~~yI~~kl~~Dp~W~~lkVIlSds~VPGEGEHKImdfIR~qr~~p~ydPNt~HcIYGl 232 (1120)
.+..||+. -+..+.+.|+.+ +|.+|.. |||+|-=|--.-+. ....+|.+-
T Consensus 128 ---~~~~vt~~--q~~~~~~lL~~~------------gip~i~a----p~EADd~ia~La~~---------g~v~~i~s~ 177 (341)
T 3q8k_A 128 ---RLVKVTKQ--HNDECKHLLSLM------------GIPYLDA----PSEAEASCAALVKA---------GKVYAAATE 177 (341)
T ss_dssp ---HTCCCCHH--HHHHHHHHHHHH------------TCCEEEC----SSCHHHHHHHHHHT---------TSSSEEECS
T ss_pred ---hcccCCHH--HHHHHHHHHHHc------------CCCEEEC----CccHHHHHHHHHhc---------CCeEEEEcC
Confidence 01123332 222333333322 4566664 79999988877763 235678899
Q ss_pred ChhHHHHHhhcCCceEEEeecccccCCCCCcccccCCCCCcccccccccccccCCCCcCCCcccCCCCCeEEEehhHHHH
Q 001223 233 DADLIMLALATHEVHFSILREVVFTPGQQDKCFLCGQPGHLAANCEGKAKRKAGEFDEKGDEVVVPKKPYQFLHIWTLRE 312 (1120)
Q Consensus 233 DADLImL~LatHep~f~ILRE~V~~~~~~~~c~~cgQ~gH~~~~c~g~~k~k~~e~~~~~~~~~~~~~~f~~l~I~vLRE 312 (1120)
|.|+++++- ++ |+|-.-+ .. + ....+..++...+.+
T Consensus 178 D~D~l~~~~----~~--v~~~~~~-~~-------------------------------~------~~~~~~~~~~~~v~~ 213 (341)
T 3q8k_A 178 DMDCLTFGS----PV--LMRHLTA-SE-------------------------------A------KKLPIQEFHLSRILQ 213 (341)
T ss_dssp CTHHHHTTC----SE--EEESCCC-CS-------------------------------S------CCCEEEEEEHHHHHH
T ss_pred CccccccCC----cE--EEEcccc-cc-------------------------------c------CCCceEEEcHHHHHH
Confidence 999999972 22 3432100 00 0 012356677665544
Q ss_pred HHHHHhcCCCCCCccchhhhhhHHHHhhhhcccCCCCCCCccc
Q 001223 313 YLDYEFRIPNPPFEIDLECIVDDFIFMCFFVGNDFLPHMPTLE 355 (1120)
Q Consensus 313 YL~~el~~~~~pF~~dlERiIDDfVfLcffvGNDFLPhLPsL~ 355 (1120)
- + .++.+ .||-+|.|+|+|++|.+|.+-
T Consensus 214 ~----~-------gl~~~----q~id~~~L~G~D~~~gipGiG 241 (341)
T 3q8k_A 214 E----L-------GLNQE----QFVDLCILLGSDYCESIRGIG 241 (341)
T ss_dssp H----H-------TCCHH----HHHHHHHHHCCSSSCCCTTCC
T ss_pred H----h-------CCCHH----HHHHHHHhcCCCCCCCCCCcc
Confidence 3 2 22333 567799999999999999753
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=96.14 E-value=0.059 Score=59.58 Aligned_cols=145 Identities=16% Similarity=0.160 Sum_probs=80.7
Q ss_pred eEEEeccccccccccCCCCCCCCCHHHHHHHHHHHHHHHHhhccccceEEEEecCCCchhhhHHHHhhhccchhHHHHHH
Q 001223 50 NLYLDMNGIIHPCFHPEDRPAPTTFDEVFQCMFDYIDRLFVMVRPRKLLYMAIDGVAPRAKMNQQRSRRFRASKDAADSA 129 (1120)
Q Consensus 50 NLYLDMNGIIH~C~Hpe~~~~p~te~Emf~~If~yIDrL~~~VRPrKlLyiAIDGVAPRAKMNQQRsRRFrsakea~~~~ 129 (1120)
-|-||.+++||-++|..++. | .+..++..|-+|+...+|..++ +|+||..| .-|..-|-.-|......
T Consensus 21 lllIDg~~llyRa~~~~~G~-p-----av~Gf~~~l~~ll~~~~p~~~v-vvFD~~~~-----tfR~~~~~~YKa~R~~~ 88 (290)
T 1exn_A 21 LMIVDGTNLGFRFKHNNSKK-P-----FASSYVSTIQSLAKSYSARTTI-VLGDKGKS-----VFRLEHLPEYKGNRDEK 88 (290)
T ss_dssp EEEEEHHHHHHHHHHHCSSS-C-----CHHHHHHHHHHHHHHTTEEEEE-EECCBSCC-----HHHHHHCTTTTHHHHHH
T ss_pred EEEEECcHHHHHHHhCCCCc-h-----HHHHHHHHHHHHHHHcCCCeEE-EEEcCCCc-----hhhhhCcHHHHcCCCCC
Confidence 68999999999998843332 2 2344555666667778898764 89998766 34544444333222111
Q ss_pred HHHHHHHHHHHHhCCCCCCCCCCCCCccCcccCCcHHHHHHHHHHHHHHHHHhcCCCCCcccEEEEcCCCCCC-ChhhhH
Q 001223 130 AEEERLRQEFEREGRKLPPKSDSQVFDSNVITPGTEFMAVLSIALQYYIHLRLNNDPGWEKIKVILSDANVPG-EGEHKI 208 (1120)
Q Consensus 130 ~~~~~l~~e~~~eg~~lp~~~~~~~fDSN~ITPGT~FM~~Ls~~L~~yI~~kl~~Dp~W~~lkVIlSds~VPG-EGEHKI 208 (1120)
..+ .......+++ .|+..+.+.|+.+ ++ ++.+| .+|| |++==|
T Consensus 89 ----------p~~----------~~~~~e~L~~--q~~~~ikell~~~---~~-------gip~i----~~~g~EADDvi 132 (290)
T 1exn_A 89 ----------YAQ----------RTEEEKALDE--QFFEYLKDAFELC---KT-------TFPTF----TIRGVEADDMA 132 (290)
T ss_dssp ----------HHT----------SCHHHHHHHH--HHHHHHHHHHHHH---TT-------TSCEE----CCTTBCHHHHH
T ss_pred ----------Ccc----------ccccchhHHH--hhHHHHHHHHHhh---CC-------CCcEE----EECCcCHHHHH
Confidence 000 0000000000 0122233323221 11 23444 3789 999988
Q ss_pred HHHHHHhhcCCCCCCCCcEEEEecChhHHHHHhhcCCceEEEe
Q 001223 209 MSYVRLQRNLPGYDPNTRHCLYGLDADLIMLALATHEVHFSIL 251 (1120)
Q Consensus 209 mdfIR~qr~~p~ydPNt~HcIYGlDADLImL~LatHep~f~IL 251 (1120)
--.-++-... ....+|++.|-|+..|. .+++.|+
T Consensus 133 atLa~~~~~~-----G~~v~IvS~DkDl~Qlv----~~~v~v~ 166 (290)
T 1exn_A 133 AYIVKLIGHL-----YDHVWLISTDGDWDTLL----TDKVSRF 166 (290)
T ss_dssp HHHHHHHGGG-----SSCEEEECSCGGGGGGC----CSSEEEE
T ss_pred HHHHHHHHHC-----CCcEEEEeCCCChhhcC----CCCEEEE
Confidence 8877764432 23588999999997765 3566655
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=85.00 E-value=0.33 Score=35.07 Aligned_cols=18 Identities=39% Similarity=1.150 Sum_probs=16.3
Q ss_pred CcccccCCCCCccccccc
Q 001223 262 DKCFLCGQPGHLAANCEG 279 (1120)
Q Consensus 262 ~~c~~cgQ~gH~~~~c~g 279 (1120)
..|+.||+.||++.+|..
T Consensus 3 ~~Cf~CG~~GH~ardC~~ 20 (26)
T 1dsq_A 3 PVCFSCGKTGHIKRDCKE 20 (26)
T ss_dssp CBCTTTCCBSSCTTTTTC
T ss_pred CeeEeCCCCCcccccCCC
Confidence 579999999999999964
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=84.82 E-value=0.42 Score=35.32 Aligned_cols=19 Identities=37% Similarity=0.947 Sum_probs=16.6
Q ss_pred CCcccccCCCCCccccccc
Q 001223 261 QDKCFLCGQPGHLAANCEG 279 (1120)
Q Consensus 261 ~~~c~~cgQ~gH~~~~c~g 279 (1120)
..+|+.||+.||++.+|..
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=83.37 E-value=0.64 Score=37.19 Aligned_cols=22 Identities=36% Similarity=0.890 Sum_probs=18.5
Q ss_pred CCCcccccCCCCCccccccccc
Q 001223 260 QQDKCFLCGQPGHLAANCEGKA 281 (1120)
Q Consensus 260 ~~~~c~~cgQ~gH~~~~c~g~~ 281 (1120)
...+|+.||+.||.+.+|....
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 3568999999999999996643
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=76.83 E-value=1.1 Score=38.25 Aligned_cols=22 Identities=36% Similarity=0.918 Sum_probs=18.4
Q ss_pred CCcccccCCCCCcccccccccc
Q 001223 261 QDKCFLCGQPGHLAANCEGKAK 282 (1120)
Q Consensus 261 ~~~c~~cgQ~gH~~~~c~g~~k 282 (1120)
..+|+.||+.||.+.+|....+
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 4689999999999999976533
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=70.00 E-value=1.5 Score=37.28 Aligned_cols=18 Identities=50% Similarity=1.220 Sum_probs=16.2
Q ss_pred CCcccccCCCCCcccccc
Q 001223 261 QDKCFLCGQPGHLAANCE 278 (1120)
Q Consensus 261 ~~~c~~cgQ~gH~~~~c~ 278 (1120)
...|+.|||.||.+.+|.
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 357999999999999995
No 18
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=59.13 E-value=3.6 Score=31.69 Aligned_cols=17 Identities=47% Similarity=1.249 Sum_probs=13.2
Q ss_pred CcccccCCCCCcccccc
Q 001223 262 DKCFLCGQPGHLAANCE 278 (1120)
Q Consensus 262 ~~c~~cgQ~gH~~~~c~ 278 (1120)
..|+.|++.||++.+|.
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 46888888888888774
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=56.85 E-value=4.3 Score=33.16 Aligned_cols=19 Identities=37% Similarity=0.947 Sum_probs=13.8
Q ss_pred CCcccccCCCCCccccccc
Q 001223 261 QDKCFLCGQPGHLAANCEG 279 (1120)
Q Consensus 261 ~~~c~~cgQ~gH~~~~c~g 279 (1120)
...|+.|++.||++.+|..
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 3568888888888877754
No 20
>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=53.78 E-value=6.2 Score=33.31 Aligned_cols=20 Identities=30% Similarity=0.619 Sum_probs=17.3
Q ss_pred CCcccccCCCCCcccccccc
Q 001223 261 QDKCFLCGQPGHLAANCEGK 280 (1120)
Q Consensus 261 ~~~c~~cgQ~gH~~~~c~g~ 280 (1120)
...|+.|++.||++.+|...
T Consensus 30 ~~~C~~Cg~~GH~ar~C~~~ 49 (60)
T 1cl4_A 30 PGLCPRCKRGKHWANECKSK 49 (60)
T ss_dssp CCSCSSCSSCSSCSTTCCCT
T ss_pred CcceeECCCCCCccCcCCCc
Confidence 36799999999999999764
No 21
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=52.96 E-value=5.4 Score=31.02 Aligned_cols=17 Identities=35% Similarity=0.905 Sum_probs=13.8
Q ss_pred CcccccCCCCCcccccc
Q 001223 262 DKCFLCGQPGHLAANCE 278 (1120)
Q Consensus 262 ~~c~~cgQ~gH~~~~c~ 278 (1120)
..|+.||+.||++.+|.
T Consensus 22 ~~C~~Cg~~GH~~~~C~ 38 (39)
T 2a51_A 22 EGCWNCGSKEHRFAQCP 38 (39)
T ss_dssp SSCTTTCCSSSCTTTSC
T ss_pred CccccCCCCCCccCcCc
Confidence 57888888888888873
No 22
>2a51_A Nucleocapsid protein; sivlhoest, structure, NCP8, viral protein, metal binding protein; NMR {Synthetic}
Probab=49.46 E-value=5.5 Score=30.96 Aligned_cols=17 Identities=53% Similarity=1.265 Sum_probs=15.4
Q ss_pred cccccCCCCCccccccc
Q 001223 263 KCFLCGQPGHLAANCEG 279 (1120)
Q Consensus 263 ~c~~cgQ~gH~~~~c~g 279 (1120)
+|+.|++.||++.+|..
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 59999999999999964
No 23
>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=49.30 E-value=7.6 Score=33.37 Aligned_cols=20 Identities=35% Similarity=0.790 Sum_probs=15.5
Q ss_pred CCcccccCCCCCcccccccc
Q 001223 261 QDKCFLCGQPGHLAANCEGK 280 (1120)
Q Consensus 261 ~~~c~~cgQ~gH~~~~c~g~ 280 (1120)
...|+.|++.||++.+|...
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 45788888888888888654
No 24
>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=48.70 E-value=7.1 Score=31.88 Aligned_cols=18 Identities=39% Similarity=1.102 Sum_probs=16.0
Q ss_pred CcccccCCCCCccccccc
Q 001223 262 DKCFLCGQPGHLAANCEG 279 (1120)
Q Consensus 262 ~~c~~cgQ~gH~~~~c~g 279 (1120)
..|+.||+.||++.+|..
T Consensus 28 ~~C~~Cg~~GH~~~~C~~ 45 (49)
T 2ec7_A 28 QGCWKCGKTGHVMAKCPE 45 (49)
T ss_dssp CSCSSSCCSSCCGGGCCS
T ss_pred CeeCcCCCcCCccCCCcC
Confidence 479999999999999954
No 25
>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=48.01 E-value=7.7 Score=38.75 Aligned_cols=16 Identities=38% Similarity=1.059 Sum_probs=8.8
Q ss_pred cccccCCCCCcccccc
Q 001223 263 KCFLCGQPGHLAANCE 278 (1120)
Q Consensus 263 ~c~~cgQ~gH~~~~c~ 278 (1120)
+|+.|++.||++.+|.
T Consensus 99 ~C~~Cg~~GH~a~~C~ 114 (148)
T 3ts2_A 99 RCYNCGGLDHHAKECK 114 (148)
T ss_dssp CCTTTCCSSCCGGGCC
T ss_pred cccEeCCccchhhhCC
Confidence 3555555555555554
No 26
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=47.48 E-value=9.8 Score=33.93 Aligned_cols=16 Identities=38% Similarity=1.059 Sum_probs=7.8
Q ss_pred cccccCCCCCcccccc
Q 001223 263 KCFLCGQPGHLAANCE 278 (1120)
Q Consensus 263 ~c~~cgQ~gH~~~~c~ 278 (1120)
.|+.|++.||++.+|.
T Consensus 26 ~C~~Cg~~GH~a~~C~ 41 (74)
T 2li8_A 26 RCYNCGGLDHHAKECK 41 (74)
T ss_dssp CCTTTCCSSSCTTTCS
T ss_pred cccccCCcCcCcccCC
Confidence 3555555555554443
No 27
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=46.21 E-value=6.6 Score=33.44 Aligned_cols=19 Identities=37% Similarity=0.922 Sum_probs=16.6
Q ss_pred CcccccCCCCCcccccccc
Q 001223 262 DKCFLCGQPGHLAANCEGK 280 (1120)
Q Consensus 262 ~~c~~cgQ~gH~~~~c~g~ 280 (1120)
..|+.|++.||++.+|...
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 5799999999999999653
No 28
>2bl6_A Nucleocapsid protein P11; lentivirus, polyprotein, core protein, retrovirus zinc finger-like domains; NMR {Equine infectious anemia virus}
Probab=45.02 E-value=7.8 Score=29.75 Aligned_cols=17 Identities=47% Similarity=1.425 Sum_probs=15.3
Q ss_pred cccccCCCCCccccccc
Q 001223 263 KCFLCGQPGHLAANCEG 279 (1120)
Q Consensus 263 ~c~~cgQ~gH~~~~c~g 279 (1120)
.|+.|++.||++.+|..
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 59999999999999954
No 29
>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=43.76 E-value=7.5 Score=32.25 Aligned_cols=19 Identities=53% Similarity=1.200 Sum_probs=15.5
Q ss_pred CCcccccCCCCCccccccc
Q 001223 261 QDKCFLCGQPGHLAANCEG 279 (1120)
Q Consensus 261 ~~~c~~cgQ~gH~~~~c~g 279 (1120)
...|+.|++.||++.+|..
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 3579999999999988854
No 30
>2ihx_A Nucleocapsid (NC) protein; protein-RNA complex, viral protein/RNA complex; NMR {Rous sarcoma virus}
Probab=43.26 E-value=8.9 Score=32.65 Aligned_cols=20 Identities=45% Similarity=1.154 Sum_probs=17.1
Q ss_pred CCcccccCCCCCcccccccc
Q 001223 261 QDKCFLCGQPGHLAANCEGK 280 (1120)
Q Consensus 261 ~~~c~~cgQ~gH~~~~c~g~ 280 (1120)
...|+.|++.||++.+|...
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 35799999999999999653
No 31
>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=42.33 E-value=9.3 Score=31.66 Aligned_cols=18 Identities=33% Similarity=1.003 Sum_probs=16.2
Q ss_pred CcccccCCCCCccccccc
Q 001223 262 DKCFLCGQPGHLAANCEG 279 (1120)
Q Consensus 262 ~~c~~cgQ~gH~~~~c~g 279 (1120)
..|+.||+.||++.+|..
T Consensus 34 ~~C~~Cg~~GH~~~~C~~ 51 (55)
T 1a1t_A 34 KGCWKCGKEGHQMKDCTE 51 (55)
T ss_dssp CBCTTTCCBSSCGGGCSS
T ss_pred CEeCCCCCcCCccCCCcC
Confidence 579999999999999954
No 32
>3nyb_B Protein AIR2; polya RNA polymerase, zinc knuckle protein, RNA surveillance binds to TRF4P/AIR2P heterodimer; 2.70A {Saccharomyces cerevisiae}
Probab=40.84 E-value=9.9 Score=34.69 Aligned_cols=19 Identities=32% Similarity=0.931 Sum_probs=16.9
Q ss_pred CCcccccCCCCCccccccc
Q 001223 261 QDKCFLCGQPGHLAANCEG 279 (1120)
Q Consensus 261 ~~~c~~cgQ~gH~~~~c~g 279 (1120)
...|+.||+.||++.+|..
T Consensus 46 ~~~CYnCG~~GH~~rdC~~ 64 (83)
T 3nyb_B 46 TIYCYNCGGKGHFGDDCKE 64 (83)
T ss_dssp CCBCSSSSCBSSCGGGCSS
T ss_pred CCeecccCCCCcCcccCCc
Confidence 4689999999999999964
No 33
>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=40.35 E-value=5.9 Score=33.45 Aligned_cols=18 Identities=50% Similarity=1.250 Sum_probs=0.0
Q ss_pred cccccCCCCCcccccccc
Q 001223 263 KCFLCGQPGHLAANCEGK 280 (1120)
Q Consensus 263 ~c~~cgQ~gH~~~~c~g~ 280 (1120)
.|+.|++.||++.+|...
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 699999999999999653
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=39.10 E-value=13 Score=32.00 Aligned_cols=19 Identities=37% Similarity=0.880 Sum_probs=16.7
Q ss_pred CCcccccCCCCCccccccc
Q 001223 261 QDKCFLCGQPGHLAANCEG 279 (1120)
Q Consensus 261 ~~~c~~cgQ~gH~~~~c~g 279 (1120)
...|+.|++.||++.+|..
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=34.84 E-value=14 Score=33.79 Aligned_cols=19 Identities=26% Similarity=0.658 Sum_probs=15.5
Q ss_pred CCcccccCCCCCccccccc
Q 001223 261 QDKCFLCGQPGHLAANCEG 279 (1120)
Q Consensus 261 ~~~c~~cgQ~gH~~~~c~g 279 (1120)
+..|+.|++.||++.+|..
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 3579999999999999954
No 36
>2li8_A Protein LIN-28 homolog A; zinc finger, micro RNA, transcription-RNA complex; NMR {Homo sapiens}
Probab=33.18 E-value=16 Score=32.49 Aligned_cols=19 Identities=37% Similarity=0.835 Sum_probs=16.7
Q ss_pred CcccccCCCCCcccccccc
Q 001223 262 DKCFLCGQPGHLAANCEGK 280 (1120)
Q Consensus 262 ~~c~~cgQ~gH~~~~c~g~ 280 (1120)
..|+.|++.||++.+|...
T Consensus 47 ~~C~~Cg~~GH~ar~Cp~~ 65 (74)
T 2li8_A 47 KKCHFCQSISHMVASCPLK 65 (74)
T ss_dssp CCCTTTCCTTSCGGGCTTG
T ss_pred CccCCcCCcCCccCcCcCC
Confidence 4799999999999999654
No 37
>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=31.45 E-value=16 Score=36.49 Aligned_cols=18 Identities=39% Similarity=0.857 Sum_probs=15.8
Q ss_pred ccccCCCCCccccccccc
Q 001223 264 CFLCGQPGHLAANCEGKA 281 (1120)
Q Consensus 264 c~~cgQ~gH~~~~c~g~~ 281 (1120)
|+.|++.||++.+|...+
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 889999999999997654
Done!