Query psy12447
Match_columns 551
No_of_seqs 212 out of 1678
Neff 7.5
Searched_HMMs 29240
Date Fri Aug 16 19:31:56 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy12447.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/12447hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3iay_A DNA polymerase delta ca 100.0 2.4E-72 8.1E-77 646.0 37.5 413 4-551 25-464 (919)
2 2gv9_A DNA polymerase; polymer 100.0 1.9E-57 6.5E-62 531.7 29.3 416 21-550 99-548 (1193)
3 3k59_A POL II, DNA polymerase 100.0 3.5E-44 1.2E-48 405.6 22.6 324 26-551 7-348 (786)
4 1qht_A Protein (DNA polymerase 100.0 6.2E-43 2.1E-47 398.0 21.4 309 28-550 1-324 (775)
5 1s5j_A DNA polymerase I; repli 100.0 1.7E-43 5.8E-48 405.3 16.3 353 23-550 12-387 (847)
6 1noy_A Protein (DNA polymerase 100.0 5.2E-41 1.8E-45 354.6 5.7 297 51-551 12-334 (388)
7 3qex_A DNA polymerase, GP43; d 99.9 1.7E-28 5.9E-33 278.9 8.7 220 243-551 105-337 (903)
8 2py5_A DNA polymerase; protein 97.7 4.7E-05 1.6E-09 83.6 7.1 36 362-399 44-79 (575)
9 2p1j_A POLIII, DNA polymerase 97.6 0.00013 4.5E-09 68.2 8.6 40 356-399 77-116 (186)
10 3mxm_B Three prime repair exon 97.6 8.4E-05 2.9E-09 72.7 7.4 42 359-400 102-144 (242)
11 3u3y_B Three prime repair exon 97.6 7.7E-05 2.6E-09 75.5 6.7 42 359-400 102-144 (314)
12 1y97_A Three prime repair exon 97.4 0.00032 1.1E-08 68.1 8.7 40 360-399 98-138 (238)
13 2f96_A Ribonuclease T; RNAse, 97.1 0.0025 8.6E-08 61.1 10.9 44 355-399 101-150 (224)
14 3v9w_A Ribonuclease T; DEDD nu 97.0 0.0067 2.3E-07 58.5 13.2 43 356-399 110-158 (235)
15 1zbh_A 3'-5' exonuclease ERI1; 96.9 0.019 6.4E-07 57.7 15.4 44 355-399 150-198 (299)
16 1w0h_A 3'-5' exonuclease ERI1; 96.8 0.038 1.3E-06 51.7 15.7 44 356-400 83-131 (204)
17 2qxf_A Exodeoxyribonuclease I; 96.7 0.02 6.8E-07 61.3 14.6 43 357-400 80-122 (482)
18 2gui_A DNA polymerase III epsi 96.6 0.016 5.5E-07 54.0 11.6 41 356-400 80-120 (194)
19 3iay_A DNA polymerase delta ca 96.3 0.0011 3.7E-08 76.6 1.7 121 291-458 293-426 (919)
20 1zbu_A ERI-1 homolog, 3'-5' ex 96.2 0.028 9.7E-07 57.6 11.6 43 356-399 201-248 (349)
21 3tr8_A Oligoribonuclease; tran 94.9 0.035 1.2E-06 51.7 6.0 42 356-398 83-127 (186)
22 2igi_A Oligoribonuclease; RNAs 93.5 0.1 3.4E-06 47.8 6.0 42 355-397 78-122 (180)
23 2xri_A ERI1 exoribonuclease 3; 92.8 0.79 2.7E-05 43.5 11.3 42 356-400 102-151 (224)
24 1noy_A Protein (DNA polymerase 92.7 0.06 2E-06 56.0 3.4 60 290-367 168-229 (388)
25 2gbz_A Oligoribonuclease; ORN, 92.1 0.096 3.3E-06 48.8 3.8 42 356-398 83-127 (194)
26 3cg7_A CRN-4, cell death-relat 85.8 1.6 5.5E-05 43.6 7.6 42 356-400 93-140 (308)
27 2gv9_A DNA polymerase; polymer 81.2 0.54 1.9E-05 55.6 2.1 48 301-366 391-438 (1193)
28 1wlj_A Interferon stimulated g 68.0 1 3.6E-05 41.4 -0.1 31 356-390 68-98 (189)
29 3qex_A DNA polymerase, GP43; d 63.6 4.4 0.00015 46.4 3.9 49 301-367 184-232 (903)
30 3k59_A POL II, DNA polymerase 59.0 4.1 0.00014 46.0 2.6 50 299-366 192-241 (786)
31 2kfn_A Klenow fragment of DNA 45.1 96 0.0033 33.6 10.7 32 487-518 115-147 (605)
32 1x9m_A DNA polymerase; DNA plo 33.2 88 0.003 34.6 8.1 32 361-394 42-73 (698)
No 1
>3iay_A DNA polymerase delta catalytic subunit; protein-DNA complex, DNA replication, DNA-BI DNA-directed DNA polymerase, exonuclease, hydrolase; HET: DNA DOC DCP; 2.00A {Saccharomyces cerevisiae}
Probab=100.00 E-value=2.4e-72 Score=645.97 Aligned_cols=413 Identities=45% Similarity=0.784 Sum_probs=337.5
Q ss_pred ccccCcCCCCCCCC-CCCCCCceEEEEEEEEEEeCCCCCCCCCCCCCCccEEEEEeecCCCcEEEEEEeceeeEEEEeCC
Q psy12447 4 QQTSDKWSRAPPPE-LNPKEDKIVFQQISIEHYTGEPIPGMPGSQLKPVPIVRMFGVTMEGNSVCCHVHGFSPYLYVSAP 82 (551)
Q Consensus 4 ~~~~~~w~~~~~~~-~~~~~~~~~f~~~d~d~~~~~~~~~~~~~~~~~~pvI~lfG~te~G~svcv~V~gf~PYFYv~~~ 82 (551)
+++...|.|||+|+ ++|..+.+.||++|+||+.. ++. .+.+++|+|+|||+|++|.+|||+||||+|||||..+
T Consensus 25 ~~~~~~~~~~~~~~~~~~~~~~~~f~~ld~~~~~~---~~~--~~~~~~~virlfg~t~~G~sv~v~V~gf~PYFYv~~~ 99 (919)
T 3iay_A 25 EHDLSSFERKKLPTDFDPSLYDISFQQIDAEQSVL---NGI--KDENTSTVVRFFGVTSEGHSVLCNVTGFKNYLYVPAP 99 (919)
T ss_dssp ----CCCCCCCCCTTCCTTTCCEEEEEEEEEEEEC---SSS--CBTTBCEEEEEEEEETTSCEEEEEEESCCCEEEEECC
T ss_pred cccccCcCCCCCCcccCCCCCceEEEEEecccccc---ccc--cccCCeeEEEEEEEeCCCCEEEEEECCcCCEEEEEcC
Confidence 34567899999866 99999999999999999862 223 2345789999999999999999999999999999998
Q ss_pred CC---CChhHHHHHHHHHHHHHHHHhccCcccccceEEEEEEEEeeeeeeecCCCcccEEEEEcccCCC-----------
Q psy12447 83 KE---FNSTHCRAFKEALNRAIIADMRGNKDEIQEAVLMVEIVQKQTVFGFWGEELENFLKITESVFPT----------- 148 (551)
Q Consensus 83 ~~---~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~i~~ie~V~k~~lygy~~~~~~~flKI~~~~~~~----------- 148 (551)
++ ++.++++.+...|++.+ ...+.++++|+|+++|||+++.+.+|+||+......
T Consensus 100 ~~~~~~~~~~~~~~~~~L~~~~-----------~~~v~~ve~v~K~~l~gy~~~~~~~~lKI~~~~p~~v~~~r~~l~~g 168 (919)
T 3iay_A 100 NSSDANDQEQINKFVHYLNETF-----------DHAIDSIEVVSKQSIWGYSGDTKLPFWKIYVTYPHMVNKLRTAFERG 168 (919)
T ss_dssp SSGGGGCHHHHHHHHHHHHTTT-----------TTCEEEEEEEEEEESSCCSCSCCEEEEEEEESSTTHHHHHHHHHHHS
T ss_pred CcccccchhHHHHHHHHHHHhh-----------cCCceEEEEEeeeccccCCCCCceEEEEEEEcCHHHHHHHHHHHHcc
Confidence 87 77666666555554321 346899999999999999876679999999533211
Q ss_pred ------cCCCcccccccCcchhhhhhhhCCCCcceEEEeCCCeeEecCCCCCCCCCCCccccceeEEEEEcCcccCCCCc
Q psy12447 149 ------FPTHTYKAFESNIDFDIRFMVDNDIVGCNWIEIPPGKWQLRGQHKFSNTNRPCVSRCQLEIDVSTDDIVSHAPE 222 (551)
Q Consensus 149 ------l~~~~~~vyEa~I~~~~rFliD~~I~g~~Wi~i~~~~~~~~~~~~~~~~~~~r~S~c~iEi~v~~~~I~n~~~~ 222 (551)
+....+++|| ||+|++|||+|++|.||+|++++++.+..+... .+.|+|++|++|.+++
T Consensus 169 ~~~~~~~~~~~~~~yE-dI~~~~RfliD~~I~g~~W~~i~~~~~~~~~~~-------~~~S~c~~Ev~v~~~~------- 233 (919)
T 3iay_A 169 HLSFNSWFSNGTTTYD-NIAYTLRLMVDCGIVGMSWITLPKGKYSMIEPN-------NRVSSCQLEVSINYRN------- 233 (919)
T ss_dssp CCCGGGSSTTCCCCBC-CCCHHHHHHHHHTCCTTCEEEECTTSEEECCGG-------GCCBCCSEEEEEETTT-------
T ss_pred ccccccccccCccccc-CCChHhhheeecCCccceEEEEecCcceecccc-------CCccceeEEEEeeccc-------
Confidence 1113578999 999999999999999999999998888765432 3689999999999988
Q ss_pred ccccCCCcccccCCCCCcccccCceeEEEEEEeccCCCCCCCCCCCcEEEEEEEeeccCCCcccccccccccCCcccccC
Q psy12447 223 EIDVSTDDIVSHAPEGEWSKVAPLRILSFDIECAGRKGIFPDPNHDPIIQIANMCISQGASENIFVKNVFTLNTCAPIVG 302 (551)
Q Consensus 223 ~~~~~~~~~~~~~~~~~~~~~p~l~ils~DIE~~~~~~~fP~~~~d~I~~Is~~~~~~~~~~~~~~~~~~~l~~~~~i~~ 302 (551)
++++.++.+|..+||+++|||||||.+++|.||+|++|+|+|||+++..+|...
T Consensus 234 --------l~~~~~~~~~~~~PplrilSfDIEt~~~~g~fP~~~~D~Ii~IS~~v~~~g~~~------------------ 287 (919)
T 3iay_A 234 --------LIAHPAEGDWSHTAPLRIMSFDIECAGRIGVFPEPEYDPVIQIANVVSIAGAKK------------------ 287 (919)
T ss_dssp --------CEEECSSGGGSCCCCCEEEEEEEEECCCTTSCCCTTTCCEEEEEEEEEETTCSS------------------
T ss_pred --------cccccccccccCCCCceEEEEEEEECCCCCCCCCCCCCcEEEEEEEEecCCCcc------------------
Confidence 455555667878999999999999999988899999999999999886665433
Q ss_pred ceeeeecchhhHHHHHHHHHHHhCCCCccCceeeeeeecCCCCCccCcEEeEcCCHHHHHHHHHHHHHhcCCceEEeecc
Q psy12447 303 SQVICCKTETELLDKWSAFIRTMGQGASENIFVKNVFTLNTCAPIVGSQVICCKTETELLDKWSAFIRELDPDIFTGYNI 382 (551)
Q Consensus 303 ~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~p~~~~~f~~~~~~~~~g~~V~~~~~E~~LL~~f~~~i~~~dPDii~GyNi 382 (551)
|+.+.+|+++.|+++.|..|..|++|++||.+|+++|+++|||||+|||+
T Consensus 288 ------------------------------~~~r~~f~l~~~~~~~~~~V~~~~sE~eLL~~F~~~i~~~DPDIIvGyNi 337 (919)
T 3iay_A 288 ------------------------------PFIRNVFTLNTCSPITGSMIFSHATEEEMLSNWRNFIIKVDPDVIIGYNT 337 (919)
T ss_dssp ------------------------------CSEEEEEEESCCCCBTTBEEEEESSHHHHHHHHHHHHHHHCCSEEEESST
T ss_pred ------------------------------cceeEEEEecCCCCCCCCeEEECCCHHHHHHHHHHHHHHhCCCEEEecCC
Confidence 44466788888888889999999999999999999999999999999999
Q ss_pred cCCChHHHHHHHHHcCCCcccccccccccccccchhhhhhhcccccccccccccCCCccccccccccccccccccccccc
Q psy12447 383 QNFDFPYLINRAKHLGVKNFTFLGRVKDIRSVIKDSFIQSKQMGKRENKTINFEGNSDRRETLGVKNFTFLGRVKDIRSV 462 (551)
Q Consensus 383 ~~fdl~yL~~R~~~l~i~~~~~l~R~~~~~~~~~~~f~~s~~~g~~~~~~~~~~~~~~~~~~l~~~~~~~lg~~k~~~~~ 462 (551)
.+||||||.+||..+|++.|..+||.++.....+
T Consensus 338 ~~FDlpyL~~Ra~~lgi~~~~~lGR~~~~~~~~~---------------------------------------------- 371 (919)
T 3iay_A 338 TNFDIPYLLNRAKALKVNDFPYFGRLKTVKQEIK---------------------------------------------- 371 (919)
T ss_dssp TTTHHHHHHHHHHHTTCTTCSCCSSBTTCCCCBC----------------------------------------------
T ss_pred ccCCHHHHHHHHHHcCCCchhhhccccCcccccc----------------------------------------------
Confidence 9999999999999999998888999865421111
Q ss_pred cccccccccccCcccceeeeeeceeeeeHHHHHHHHccCCCCCHHHHHHHhhccCCCCCChhhHHHHHhcCCCCCcc---
Q psy12447 463 IKDSFIQSKQMGKRENKTINFEGRVCFDLLFVLLREYKLRSYTLNSVSYHFLQEQKEDVQHSIISDLQIALLQPSDP--- 539 (551)
Q Consensus 463 i~~~~~~s~~~g~~~~~~~~i~GR~~lDl~~~~~~~~kl~sYsL~~V~~~~Lg~~k~~~~~~~i~~~~~~~~~~~~~--- 539 (551)
+..+++++||.+....+.++||+++|+|+++++++++.||+|++||+++||++|+++++++|.+||.+++..+.+
T Consensus 372 --~~~~~~~~~g~~~~~~~~i~GR~~lDl~~~~k~~~~l~sysL~~Va~~~Lg~~K~dv~~~~I~~l~~~~~~~~~~L~~ 449 (919)
T 3iay_A 372 --ESVFSSKAYGTRETKNVNIDGRLQLDLLQFIQREYKLRSYTLNAVSAHFLGEQKEDVHYSIISDLQNGDSETRRRLAV 449 (919)
T ss_dssp --CEEEEETTTEEEEECCBCCTTCEEEEHHHHHHHHCCCSCCCHHHHHHHHHCCC------CCHHHHHTSCHHHHHHHHH
T ss_pred --ccccccccccccccceeEEcCeEEEEhHHHHHhhcCCCCCCHHHHHHHhcccCCCCCCHHHHHHHHhcChhhHHHHHH
Confidence 123445567766656689999999999999999999999999999999999999999999999999977655554
Q ss_pred ---cccccccccCCC
Q psy12447 540 ---KSNAAPLRYSPK 551 (551)
Q Consensus 540 ---~D~~l~~rl~~~ 551 (551)
+||+|+++||.|
T Consensus 450 Y~~~Da~l~~~L~~k 464 (919)
T 3iay_A 450 YCLKDAYLPLRLMEK 464 (919)
T ss_dssp HHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHH
Confidence 999999999753
No 2
>2gv9_A DNA polymerase; polymerase alpha fold, transferase; HET: DNA; 2.68A {Human herpesvirus 1} PDB: 1dml_B*
Probab=100.00 E-value=1.9e-57 Score=531.73 Aligned_cols=416 Identities=20% Similarity=0.315 Sum_probs=296.9
Q ss_pred CCCceEEEEEEEEEEeCCC----CCCCCCC----CCCCccEEEEEeecCCCcEEEEEEeceeeEEEEeCCCC---CChhH
Q psy12447 21 KEDKIVFQQISIEHYTGEP----IPGMPGS----QLKPVPIVRMFGVTMEGNSVCCHVHGFSPYLYVSAPKE---FNSTH 89 (551)
Q Consensus 21 ~~~~~~f~~~d~d~~~~~~----~~~~~~~----~~~~~pvI~lfG~te~G~svcv~V~gf~PYFYv~~~~~---~~~~~ 89 (551)
..+.++||++|+-+.+... +..+|.+ -...+|+|+|||+|++|.+|||+|+||+|||||..++. +..+.
T Consensus 99 ~~~~~~fh~yd~~~~~~~~~~~~~~~~~~~f~~~i~p~g~vi~l~g~t~~G~sv~v~v~~f~pYFYv~~~~~~~~~~~~~ 178 (1193)
T 2gv9_A 99 NPTVTVFHVYDILENVEHAYGMRAAQFHARFMDAITPTGTVITLLGLTPEGHRVAVHVYGTRQYFYMNKEEVDRHLQCRA 178 (1193)
T ss_dssp CCCCSEEEEEEEEEEEECTGGGTTSCCCHHHHHHTSSCEEEEEEEEECSSCCEEEEEEECCCEEEEEEHHHHHHTTCCCS
T ss_pred CCCcceEEEEEEEEEEEeccccccccCCHHHhhccCCCCCEEEEEEEcCCCCEEEEEECCCCeEEEEECCCccccccccc
Confidence 3456999999997554333 4444421 24567999999999999999999999999999997642 22223
Q ss_pred HHHHHHHHHHHHHHHhccCcccccceEEEEEEEEeeeeeeecCCCcccEEEEEcccC---CCcCC---CcccccccCcch
Q psy12447 90 CRAFKEALNRAIIADMRGNKDEIQEAVLMVEIVQKQTVFGFWGEELENFLKITESVF---PTFPT---HTYKAFESNIDF 163 (551)
Q Consensus 90 ~~~~~~~l~~~l~~~~~~~~~~~~~~i~~ie~V~k~~lygy~~~~~~~flKI~~~~~---~~l~~---~~~~vyEa~I~~ 163 (551)
+..+.+.|+..+..............+++++.|+|+++|+|.+ .+..|+||+.... +.+++ ..+++||+||+|
T Consensus 179 ~~~~~~~l~~~l~~~~~~~~~~~~~~~~~ve~V~k~~l~~~~~-~~~~~~ki~~~~p~~v~~lr~~~~~~~~~~E~dI~~ 257 (1193)
T 2gv9_A 179 PRDLCERMAAALRESPGASFRGISADHFEAEVVERTDVYYYET-RPALFYRVYVRSGRVLSYLCDNFCPAIKKYEGGVDA 257 (1193)
T ss_dssp HHHHHHHHHHHHHHSSSCCTTCCCGGGCEEEEEEEEESSCSSC-CCEEEEEEEESCHHHHHHHHHHTCSSSCEESTTCCH
T ss_pred HHHHHHHHHHHHHhhccccccccccCcceEEEEEEeeccccCC-CcceEEEEeccCHHHHHHHHhhccCCceEEeccCch
Confidence 4455555555443321100112234678999999999999984 5789999995331 22222 257899999999
Q ss_pred hhhhhhhC-CCCcceEEEeCCC----eeEecCCCCCCCCCCCccccceeEEEEEcCcccCCCCcccccCCCcccccCCCC
Q psy12447 164 DIRFMVDN-DIVGCNWIEIPPG----KWQLRGQHKFSNTNRPCVSRCQLEIDVSTDDIVSHAPEEIDVSTDDIVSHAPEG 238 (551)
Q Consensus 164 ~~rFliD~-~I~g~~Wi~i~~~----~~~~~~~~~~~~~~~~r~S~c~iEi~v~~~~I~n~~~~~~~~~~~~~~~~~~~~ 238 (551)
++|||+|+ +|.||+|++++.+ .+.++... .+.|+|++|++|.++++ +..+...
T Consensus 258 ~~RfliD~~~i~~~~W~~i~~~~~g~~~~~r~~~-------~~~s~c~~E~~~~~~~~---------------~~~~~~~ 315 (1193)
T 2gv9_A 258 TTRFILDNPGFVTFGWYRLKPGRNNTLAQPRAPM-------AFGTSSDVEFNCTADNL---------------AIEGGMS 315 (1193)
T ss_dssp HHHHHHHSTTCCSSEEEEECCBTTTBCCEECCGG-------GCSBSCSEEEEEEGGGE---------------EECCSCC
T ss_pred hheEeEEcCCCCCcceEEEecccccceeeecccc-------ccCCCCceEEEEEcccc---------------eEccccC
Confidence 99999999 9999999999874 24443221 35799999999998883 3322222
Q ss_pred CcccccCceeEEEEEEeccCC---CCCCCCC--CCcEEEEEEEeeccCCCcccccccccccCCcccccCceeeeecchhh
Q psy12447 239 EWSKVAPLRILSFDIECAGRK---GIFPDPN--HDPIIQIANMCISQGASENIFVKNVFTLNTCAPIVGSQVICCKTETE 313 (551)
Q Consensus 239 ~~~~~p~l~ils~DIE~~~~~---~~fP~~~--~d~I~~Is~~~~~~~~~~~~~~~~~~~l~~~~~i~~~~v~~~~~e~~ 313 (551)
..|++++|||||||.+.+ ..||+|+ .|+|+|||++++..+... .....++++++|..+.+
T Consensus 316 ---~~P~lrvlsfDIE~~~~g~~~~~FP~a~~~~D~Ii~IS~~~~~~~~~~-~~~~~v~~l~~~~~~~~----------- 380 (1193)
T 2gv9_A 316 ---DLPAYKLMCFDIECKAGGEDELAFPVAGHPEDLVIQISCLLYDLSTTA-LEHVLLFSLGSCDLPES----------- 380 (1193)
T ss_dssp ---CCCCCEEEEEEEEEECCSSCTTSCCCTTSTTSEEEEEEEEEEETTTCC-EEEEEEEEESCCCCCHH-----------
T ss_pred ---CCCCceEEEEEEEEcccCCCCCCCCCccccCCceEEEEEEEEeccCCC-cceEEEEECCCcCCcch-----------
Confidence 258999999999999863 3699995 699999999887544332 11223555555543211
Q ss_pred HHHHHHHHHHHhCCCCccCceeeeeeecCCCCCccCcEEeEcCCHHHHHHHHHHHHHhcCCceEEeecccCCChHHHHHH
Q psy12447 314 LLDKWSAFIRTMGQGASENIFVKNVFTLNTCAPIVGSQVICCKTETELLDKWSAFIRELDPDIFTGYNIQNFDFPYLINR 393 (551)
Q Consensus 314 ~~~~~~~~~~~~~~~~~~~p~~~~~f~~~~~~~~~g~~V~~~~~E~~LL~~f~~~i~~~dPDii~GyNi~~fdl~yL~~R 393 (551)
|. .++. + ....|..|..|++|++||.+|+++|+++|||||+|||+.+||||||.+|
T Consensus 381 ----f~---~~~k------~-----------~~~~~~~V~~~~sE~eLL~~F~~~I~~~DPDIIvGyNi~~FDlpyL~~R 436 (1193)
T 2gv9_A 381 ----HL---NELA------A-----------RGLPTPVVLEFDSEFEMLLAFMTLVKQYGPEFVTGYNIINFDWPFLLAK 436 (1193)
T ss_dssp ----HH---HHHH------H-----------TTCCCCEEEEESSHHHHHHHHHHHHHHHCCSEEEESSTTTTHHHHHHHH
T ss_pred ----hh---hhcc------c-----------ccCCCceEEecCCHHHHHHHHHHHHHhcCCCEEEEcCCcCccHHHHHHH
Confidence 00 0000 0 0113567999999999999999999999999999999999999999999
Q ss_pred H-HHcCCCcccccccccccccccchhhhhhhcccccccccccccCCCccccccccccccccccccccccccccccccccc
Q psy12447 394 A-KHLGVKNFTFLGRVKDIRSVIKDSFIQSKQMGKRENKTINFEGNSDRRETLGVKNFTFLGRVKDIRSVIKDSFIQSKQ 472 (551)
Q Consensus 394 ~-~~l~i~~~~~l~R~~~~~~~~~~~f~~s~~~g~~~~~~~~~~~~~~~~~~l~~~~~~~lg~~k~~~~~i~~~~~~s~~ 472 (551)
| ..+|++. ..+||++..... + .+...+..
T Consensus 437 a~~~~gl~l-~~~GRl~r~~~~-k------------------------------------------------~~~~~~~~ 466 (1193)
T 2gv9_A 437 LTDIYKVPL-DGYGRMNGRGVF-R------------------------------------------------VWDIGQSH 466 (1193)
T ss_dssp HHHTTCCCC-TTTSSBSSSCCE-E------------------------------------------------ECC-----
T ss_pred HHHHcCCCh-HHhcccccCCcc-e------------------------------------------------eecccccc
Confidence 6 5678764 356776432100 0 00000011
Q ss_pred cCcccceeeeeeceeeeeHHHHHHHHccCCCCCHHHHHHHhhccCCCCCChhhHHHHHhcCCCCCcc------ccccccc
Q psy12447 473 MGKRENKTINFEGRVCFDLLFVLLREYKLRSYTLNSVSYHFLQEQKEDVQHSIISDLQIALLQPSDP------KSNAAPL 546 (551)
Q Consensus 473 ~g~~~~~~~~i~GR~~lDl~~~~~~~~kl~sYsL~~V~~~~Lg~~k~~~~~~~i~~~~~~~~~~~~~------~D~~l~~ 546 (551)
++. ...+.+.||++||+|+++++.+++.||+|++||+++||++|+++++++|.+||.++++.+.+ +||+|++
T Consensus 467 f~~--~~~~~i~GRv~lDl~~~~~~~~kl~sYsL~~Va~~~Lg~~K~dv~~~eI~~~~~~~~~~r~~L~~Ycl~Da~lt~ 544 (1193)
T 2gv9_A 467 FQK--RSKIKVNGMVNIDMYGIITDKIKLSSYKLNAVAEAVLKDKKKDLSYRDIPAYYATGPAQRGVIGEYCIQDSLLVG 544 (1193)
T ss_dssp -------CEEETTBEEEEHHHHHTTTCCCSCCCHHHHHHHTSCCCCCCCCTTTHHHHHHHCHHHHHHHHHHHHHHHHHHH
T ss_pred ccc--cceEEEcCeEeehHHHHHHHHhccCCCCHHHHHHHHhccCCCCCCHHHHHHHHHcCChhHHHHHHHHHHHHHHHH
Confidence 221 24578999999999999999999999999999999999999999999999999998754433 9999999
Q ss_pred ccCC
Q psy12447 547 RYSP 550 (551)
Q Consensus 547 rl~~ 550 (551)
+|+.
T Consensus 545 ~L~~ 548 (1193)
T 2gv9_A 545 QLFF 548 (1193)
T ss_dssp HHHH
T ss_pred HHHH
Confidence 9874
No 3
>3k59_A POL II, DNA polymerase II; protein-DNA complex, DNA damage, DNA repair, DNA-binding; HET: DNA DOC DCP; 1.92A {Escherichia coli} PDB: 3k57_A* 3k58_A* 3k5l_A* 3k5m_A* 3k5n_A* 3k5o_A* 3maq_A* 1q8i_A*
Probab=100.00 E-value=3.5e-44 Score=405.55 Aligned_cols=324 Identities=17% Similarity=0.211 Sum_probs=234.6
Q ss_pred EEEEEEEEEEeCCCCCCCCCCCCCCccEEEEEeecCCCcEEEEEEeceeeEEEEeCCCCCChhHHHHHHHHHHHHHHHHh
Q psy12447 26 VFQQISIEHYTGEPIPGMPGSQLKPVPIVRMFGVTMEGNSVCCHVHGFSPYLYVSAPKEFNSTHCRAFKEALNRAIIADM 105 (551)
Q Consensus 26 ~f~~~d~d~~~~~~~~~~~~~~~~~~pvI~lfG~te~G~svcv~V~gf~PYFYv~~~~~~~~~~~~~~~~~l~~~l~~~~ 105 (551)
.=+++|.+|... +.+++|++||+|++|. +||.|+||+||||++.++. .. +.. .+
T Consensus 7 ~g~~l~~~~~~~-----------~~g~~i~~~g~t~~G~-~~v~v~~~~~yfy~~~~~~------~~----~~~----~~ 60 (786)
T 3k59_A 7 AGFILTRHWRDT-----------PQGTEVSFWLATDNGP-LQVTLAPQESVAFIPADQV------PR----AQH----IL 60 (786)
T ss_dssp EEEEEEEEEEEE-----------TTEEEEEEEEEETTEE-EEEECSCCCEEEEEEGGGH------HH----HHH----HT
T ss_pred ccEEEeeEEEEe-----------CCceEEEEEEEcCCCC-EEEEEcCCceEEEEECCcH------HH----HHH----HH
Confidence 456899998762 2569999999999996 9999999999999976542 11 111 11
Q ss_pred ccCcccccceEEEEEEEEeeeeeeecCCCcccEEEEEcccCC-------CcCCCcccccccCcchhhhhhhhCCCCcceE
Q psy12447 106 RGNKDEIQEAVLMVEIVQKQTVFGFWGEELENFLKITESVFP-------TFPTHTYKAFESNIDFDIRFMVDNDIVGCNW 178 (551)
Q Consensus 106 ~~~~~~~~~~i~~ie~V~k~~lygy~~~~~~~flKI~~~~~~-------~l~~~~~~vyEa~I~~~~rFliD~~I~g~~W 178 (551)
.. ...+.++.+ .+++|++ ++++||+..... .++..++++|||||+|.+|||+|++|.||+|
T Consensus 61 ~~------~~~~~~~~~---~l~~~~~---~~~~~i~~~~~~~~~~~r~~l~~~g~~v~EadI~~~~RfliD~~i~~~~w 128 (786)
T 3k59_A 61 QG------EQGFRLTPL---ALKDFHR---QPVYGLYCRAHRQLMNYEKRLREGGVTVYEADVRPPERYLMERFITSPVW 128 (786)
T ss_dssp TT------CCSEEEEEE---EEECTTC---CEEEEEEESSHHHHHHHHHHHHHTTCCCBSTTCCHHHHHHHHTTCSSEEE
T ss_pred hc------CCceEEEEe---eeeeecC---ceEEEEEECCHHHHHHHHHHHHHcCCceeeccCChhheeeEecCcccceE
Confidence 11 123444444 4556653 488999953321 2223468999999999999999999999999
Q ss_pred EEeCCCeeEecCCCCCCCCCCCccccceeEEEEEcCcccCCCCcccccCCCcccccCCCCCcccccCceeEEEEEEeccC
Q psy12447 179 IEIPPGKWQLRGQHKFSNTNRPCVSRCQLEIDVSTDDIVSHAPEEIDVSTDDIVSHAPEGEWSKVAPLRILSFDIECAGR 258 (551)
Q Consensus 179 i~i~~~~~~~~~~~~~~~~~~~r~S~c~iEi~v~~~~I~n~~~~~~~~~~~~~~~~~~~~~~~~~p~l~ils~DIE~~~~ 258 (551)
++... . . + ..+.|++. +..++ .|+|++|||||||...
T Consensus 129 ~~~~~---~-~--~--------~~~~~~~~---------------------------~~~~~--~p~lrilsfDIE~~~~ 165 (786)
T 3k59_A 129 VEGDM---H-N--G--------TIVNARLK---------------------------PHPDY--RPPLKWVSIDIETTRH 165 (786)
T ss_dssp EEEEE---E-T--T--------EEEEEEEE---------------------------ECSSC--CCCCCEEEEEEEECTT
T ss_pred EEEec---c-C--C--------ceecceEe---------------------------eCCCC--CCCCeEEEEEEEEcCC
Confidence 98642 1 0 0 12222211 11123 6999999999999942
Q ss_pred CCCCCCCCCCcEEEEEEEeeccCCCcccccccccccCCcccccCceeeeecchhhHHHHHHHHHHHhCCCCccCceeeee
Q psy12447 259 KGIFPDPNHDPIIQIANMCISQGASENIFVKNVFTLNTCAPIVGSQVICCKTETELLDKWSAFIRTMGQGASENIFVKNV 338 (551)
Q Consensus 259 ~~~fP~~~~d~I~~Is~~~~~~~~~~~~~~~~~~~l~~~~~i~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~p~~~~~ 338 (551)
| +|++|++. +... +. +
T Consensus 166 -g--------~i~~I~~~----~~~~----~~-----------------------------------------------v 181 (786)
T 3k59_A 166 -G--------ELYCIGLE----GCGQ----RI-----------------------------------------------V 181 (786)
T ss_dssp -S--------CEEEEEEE----ETTE----EE-----------------------------------------------E
T ss_pred -C--------CEEEEEec----CCCC----Ce-----------------------------------------------E
Confidence 2 58888853 1111 12 3
Q ss_pred eecCCCC---CccCcEEeEcCCHHHHHHHHHHHHHhcCCceEEeecccCCChHHHHHHHHHcCCCccccccccccccccc
Q psy12447 339 FTLNTCA---PIVGSQVICCKTETELLDKWSAFIRELDPDIFTGYNIQNFDFPYLINRAKHLGVKNFTFLGRVKDIRSVI 415 (551)
Q Consensus 339 f~~~~~~---~~~g~~V~~~~~E~~LL~~f~~~i~~~dPDii~GyNi~~fdl~yL~~R~~~l~i~~~~~l~R~~~~~~~~ 415 (551)
|+++.|+ .+.+.+|..|++|++||.+|+++++++|||||+|||+.+||||||.+||..+|++. .+||.....
T Consensus 182 ~~l~~~~~~~~~~~~~V~~f~~E~~lL~~f~~~i~~~dPDii~g~N~~~FD~pyL~~Ra~~~~i~~--~lGR~~~~~--- 256 (786)
T 3k59_A 182 YMLGPENGDASSLDFELEYVASRPQLLEKLNAWFANYDPDVIIGWNVVQFDLRMLQKHAERYRLPL--RLGRDNSEL--- 256 (786)
T ss_dssp EEESSCCSCCTTCSSEEEEESSHHHHHHHHHHHHHHHCCSEEEESSTTTTHHHHHHHHHHHHTCCC--CCBTTTBCC---
T ss_pred EEEecCCCCCCCCCceEEEeCCHHHHHHHHHHHHHHcCCCEEEecCCccCcHHHHHHHHHHhCCCc--eeccCCCcc---
Confidence 4444443 34577899999999999999999999999999999999999999999999999986 588864311
Q ss_pred chhhhhhhcccccccccccccCCCccccccccccccccccccccccccccccccccccCcccceeeeeeceeeeeHHHHH
Q psy12447 416 KDSFIQSKQMGKRENKTINFEGNSDRRETLGVKNFTFLGRVKDIRSVIKDSFIQSKQMGKRENKTINFEGRVCFDLLFVL 495 (551)
Q Consensus 416 ~~~f~~s~~~g~~~~~~~~~~~~~~~~~~l~~~~~~~lg~~k~~~~~i~~~~~~s~~~g~~~~~~~~i~GR~~lDl~~~~ 495 (551)
.+....++ +....+.++||+++|+|+++
T Consensus 257 ---------------------------------------------------~~~~~~~~-~~~~~~~i~GRv~lDl~~~l 284 (786)
T 3k59_A 257 ---------------------------------------------------EWREHGFK-NGVFFAQAKGRLIIDGIEAL 284 (786)
T ss_dssp ---------------------------------------------------EEEECSSS-TTCEEEECTTCEEEEHHHHH
T ss_pred ---------------------------------------------------cccccccC-CCceeEEEcCEEEEEhHHHH
Confidence 01111111 12335789999999999999
Q ss_pred HH-HccCCCCCHHHHHHHhhccCCCCCC----hhhHHHHHhcCCCCCcc---cccccccccCCC
Q psy12447 496 LR-EYKLRSYTLNSVSYHFLQEQKEDVQ----HSIISDLQIALLQPSDP---KSNAAPLRYSPK 551 (551)
Q Consensus 496 ~~-~~kl~sYsL~~V~~~~Lg~~k~~~~----~~~i~~~~~~~~~~~~~---~D~~l~~rl~~~ 551 (551)
++ .+++.||+|++||+++||++|++.+ .++|.++|.+++...+. +||+|+++||.|
T Consensus 285 k~~~~~l~SysL~~Va~~~Lg~~K~~~~~~~~~~eI~~~~~~~~~~L~~Y~l~Da~L~~~L~~k 348 (786)
T 3k59_A 285 KSAFWNFSSFSLETVAQELLGEGKSIDNPWDRMDEIDRRFAEDKPALATYNLKNCELVTQIFHK 348 (786)
T ss_dssp HHTTCCCSCCSHHHHHHHHHCCCCC-CCHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHH
T ss_pred HhccCCCCCCCHHHHHHHHhCCCCcccCccccHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHH
Confidence 97 6899999999999999999998654 37899999988754444 999999999754
No 4
>1qht_A Protein (DNA polymerase); archaea, hyperthermostable, family B polymer alpha family polymerase, transferase; 2.10A {Thermococcus SP} SCOP: c.55.3.5 e.8.1.1 PDB: 1tgo_A 2xhb_A* 2vwj_A* 2vwk_A* 1wns_A* 1wn7_A 1qqc_A* 4ahc_A* 4ail_C* 3a2f_A* 2jgu_A* 1d5a_A
Probab=100.00 E-value=6.2e-43 Score=397.95 Aligned_cols=309 Identities=24% Similarity=0.320 Sum_probs=232.9
Q ss_pred EEEEEEEEeCCCCCCCCCCCCCCccEEEEEeecCCCcEEEEEEeceeeEEEEeCCCCCChhHHHHHHHHHHHHHHHHhcc
Q psy12447 28 QQISIEHYTGEPIPGMPGSQLKPVPIVRMFGVTMEGNSVCCHVHGFSPYLYVSAPKEFNSTHCRAFKEALNRAIIADMRG 107 (551)
Q Consensus 28 ~~~d~d~~~~~~~~~~~~~~~~~~pvI~lfG~te~G~svcv~V~gf~PYFYv~~~~~~~~~~~~~~~~~l~~~l~~~~~~ 107 (551)
+++|+||+.. .+.|+|++||.+ +|+++|++++||+||||+.++++...+.+.. ..+.
T Consensus 1 ~ll~~~y~~~-----------~~~~~i~~~~~~-~g~~~~~~~~~f~PYfyv~~~~~~~~~~~~~-----------~~~~ 57 (775)
T 1qht_A 1 MILDTDYITE-----------NGKPVIRVFKKE-NGEFKIEYDRTFEPYFYALLKDDSAIEDVKK-----------VTAK 57 (775)
T ss_dssp CEEEEEEEEE-----------TTEEEEEEEEEE-TTEEEEEEECCCCCEEEEEESCGGGHHHHTT-----------CEEE
T ss_pred CeEEEEEecc-----------CCCEEEEEEEee-CCEEEEEEECCCceEEEEECCCCccHHHHHH-----------HHHH
Confidence 3799999973 256999999987 5999999999999999999886533221100 0100
Q ss_pred CcccccceEEEEEEEEeeeeeeecCCCcccEEEEEcccCCCc-------C--CCcccccccCcchhhhhhhhCCCCcceE
Q psy12447 108 NKDEIQEAVLMVEIVQKQTVFGFWGEELENFLKITESVFPTF-------P--THTYKAFESNIDFDIRFMVDNDIVGCNW 178 (551)
Q Consensus 108 ~~~~~~~~i~~ie~V~k~~lygy~~~~~~~flKI~~~~~~~l-------~--~~~~~vyEa~I~~~~rFliD~~I~g~~W 178 (551)
........+..++ |+|+ ++| .+.+|+||+......+ + ....++||+||+|+.|||+|++|.++.|
T Consensus 58 ~~~~~~~~~~~~~-v~k~-~~g----~~~~~~ki~~~~~~~~~~~r~~l~~~~~~~~~~E~dI~~~~r~lid~~i~~~~~ 131 (775)
T 1qht_A 58 RHGTVVKVKRAEK-VQKK-FLG----RPIEVWKLYFNHPQDVPAIRDRIRAHPAVVDIYEYDIPFAKRYLIDKGLIPMEG 131 (775)
T ss_dssp ETTEEEECCEEEE-EEEE-ETT----EEEEEEEEECSCTTHHHHHHHHHHTSTTEEEEESCSSCHHHHHHHHTTCCTTCS
T ss_pred hcCCCcceEEEEE-EEee-ecC----CCceEEEEEEcCHHHHHHHHHHHHhCCCceeeEeccCChHheeeEEcCccccCC
Confidence 0011122355666 7777 545 4789999996443221 1 1236899999999999999999977633
Q ss_pred EEeCCCeeEecCCCCCCCCCCCccccceeEEEEEcCcccCCCCcccccCCCcccccCCCCCcccccCceeEEEEEEeccC
Q psy12447 179 IEIPPGKWQLRGQHKFSNTNRPCVSRCQLEIDVSTDDIVSHAPEEIDVSTDDIVSHAPEGEWSKVAPLRILSFDIECAGR 258 (551)
Q Consensus 179 i~i~~~~~~~~~~~~~~~~~~~r~S~c~iEi~v~~~~I~n~~~~~~~~~~~~~~~~~~~~~~~~~p~l~ils~DIE~~~~ 258 (551)
.|++++|||||||...
T Consensus 132 ----------------------------------------------------------------~~~l~ilsfDIEt~~~ 147 (775)
T 1qht_A 132 ----------------------------------------------------------------DEELTMLAFAIATLYH 147 (775)
T ss_dssp ----------------------------------------------------------------CCCCCEEEEEEEECCC
T ss_pred ----------------------------------------------------------------CCCcEEEEEEEEEcCC
Confidence 1468999999999974
Q ss_pred CCCCCCCCCCcEEEEEEEeeccCCCcccccccccccCCcccccCceeeeecchhhHHHHHHHHHHHhCCCCccCceeeee
Q psy12447 259 KGIFPDPNHDPIIQIANMCISQGASENIFVKNVFTLNTCAPIVGSQVICCKTETELLDKWSAFIRTMGQGASENIFVKNV 338 (551)
Q Consensus 259 ~~~fP~~~~d~I~~Is~~~~~~~~~~~~~~~~~~~l~~~~~i~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~p~~~~~ 338 (551)
.+|+|..|+|+|||+.... ... +
T Consensus 148 --~~p~~~~d~Ii~Is~~~~~--~~~------~----------------------------------------------- 170 (775)
T 1qht_A 148 --EGEEFGTGPILMISYADGS--EAR------V----------------------------------------------- 170 (775)
T ss_dssp --TTCCTTCSCEEEEEEECSS--CEE------E-----------------------------------------------
T ss_pred --CCCCCCCCcEEEEEEEecC--CCe------e-----------------------------------------------
Confidence 3799999999999976311 111 1
Q ss_pred eecCCCCCccCcEEeEcCCHHHHHHHHHHHHHhcCCceEEeecccCCChHHHHHHHHHcCCCcccccccccccccccchh
Q psy12447 339 FTLNTCAPIVGSQVICCKTETELLDKWSAFIRELDPDIFTGYNIQNFDFPYLINRAKHLGVKNFTFLGRVKDIRSVIKDS 418 (551)
Q Consensus 339 f~~~~~~~~~g~~V~~~~~E~~LL~~f~~~i~~~dPDii~GyNi~~fdl~yL~~R~~~l~i~~~~~l~R~~~~~~~~~~~ 418 (551)
++. ..+.+..|..|++|++||.+|+++|+++|||+|+|||+.+||||||.+||..+|++. .+||.+...
T Consensus 171 ~t~---~~i~~~~v~~~~~E~~LL~~f~~~i~~~dPDiivGyN~~~FDlpyL~~Ra~~~gi~~--~lgR~~~~~------ 239 (775)
T 1qht_A 171 ITW---KKIDLPYVDVVSTEKEMIKRFLRVVREKDPDVLITYNGDNFDFAYLKKRCEELGIKF--TLGRDGSEP------ 239 (775)
T ss_dssp EES---SCCCCSSEEECSCHHHHHHHHHHHHHHHCCSEEEESSTTTTHHHHHHHHHHHTTCCC--CCSTTSCCC------
T ss_pred Eee---ccccccceEEcCCHHHHHHHHHHHHHhcCCCEEEEeCCCCccHHHHHHHHHHcCCCc--ccccCCCcC------
Confidence 111 112233578899999999999999999999999999999999999999999999986 578853211
Q ss_pred hhhhhcccccccccccccCCCccccccccccccccccccccccccccccccccccCcccceeeeeeceeeeeHHHHHHHH
Q psy12447 419 FIQSKQMGKRENKTINFEGNSDRRETLGVKNFTFLGRVKDIRSVIKDSFIQSKQMGKRENKTINFEGRVCFDLLFVLLRE 498 (551)
Q Consensus 419 f~~s~~~g~~~~~~~~~~~~~~~~~~l~~~~~~~lg~~k~~~~~i~~~~~~s~~~g~~~~~~~~i~GR~~lDl~~~~~~~ 498 (551)
.+ +.+|.+ ....++||+++|+|+++++.
T Consensus 240 ------------------------------------------------~~--~~~g~~--~~~~i~Gr~~lDl~~~~k~~ 267 (775)
T 1qht_A 240 ------------------------------------------------KI--QRMGDR--FAVEVKGRIHFDLYPVIRRT 267 (775)
T ss_dssp ------------------------------------------------EE--EEETTE--EEEECTTSEEEEHHHHHHHH
T ss_pred ------------------------------------------------ce--eecCce--eeEEecCeEEEEHHHHHHHh
Confidence 01 113322 34678999999999999999
Q ss_pred ccCCCCCHHHHHHHhhccCCCCCChhhHHHHHhcCCCCCcc------cccccccccCC
Q psy12447 499 YKLRSYTLNSVSYHFLQEQKEDVQHSIISDLQIALLQPSDP------KSNAAPLRYSP 550 (551)
Q Consensus 499 ~kl~sYsL~~V~~~~Lg~~k~~~~~~~i~~~~~~~~~~~~~------~D~~l~~rl~~ 550 (551)
++|+||+|++||+++||.+|+++++++|.+||.+++ ++.+ +||.++++|+.
T Consensus 268 ~~l~sysL~~Va~~~Lg~~K~dv~~~~i~~~~~~~~-~l~~l~~Y~~~Da~lt~~L~~ 324 (775)
T 1qht_A 268 INLPTYTLEAVYEAVFGKPKEKVYAEEIAQAWESGE-GLERVARYSMEDAKVTYELGR 324 (775)
T ss_dssp SCCSCCCHHHHHHHHHCCCCCCCCHHHHHHHHTTTC-SHHHHHHHHHHHHHHHHHHHH
T ss_pred cCcCcCCHHHHHHHHhCCCCCccCHHHHHHHHhcCc-cHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999876 3333 99999999863
No 5
>1s5j_A DNA polymerase I; replication, disulfide bonds, transferase; HET: DNA; 2.40A {Sulfolobus solfataricus} SCOP: c.55.3.5 e.8.1.1
Probab=100.00 E-value=1.7e-43 Score=405.31 Aligned_cols=353 Identities=20% Similarity=0.260 Sum_probs=241.3
Q ss_pred CceEEEEEEEEEEeCCCCCCCCCCCCCCccEEEEEeecCCCcEEEEEEeceeeEEEEeCCCCCChhHHHHHHHHHHHHHH
Q psy12447 23 DKIVFQQISIEHYTGEPIPGMPGSQLKPVPIVRMFGVTMEGNSVCCHVHGFSPYLYVSAPKEFNSTHCRAFKEALNRAII 102 (551)
Q Consensus 23 ~~~~f~~~d~d~~~~~~~~~~~~~~~~~~pvI~lfG~te~G~svcv~V~gf~PYFYv~~~~~~~~~~~~~~~~~l~~~l~ 102 (551)
+.-.++++|++|... .+.|+|+|||.+++|.+||++|+||+||||+..+.+ ++..+..
T Consensus 12 ~~~~~~ll~~~y~~~-----------~~~~vi~l~~~~~~~~~~~~~v~gf~pYfyv~~~~~----~~~~~~~------- 69 (847)
T 1s5j_A 12 ENKIYFLLQVDYDGK-----------KGKAVCKLFDKETQKIYALYDNTGHKPYFLVDLEPD----KVGKIPK------- 69 (847)
T ss_dssp TTCEEEEEEEEEETT-----------TTEEEEEEEETTTTEEEEEECCSCCCCEEEESSCHH----HHTTCHH-------
T ss_pred cCCeEEEEeeeeecC-----------CCCeEEEEEEeeCCccEEEEEcCCCceEEEEECCcH----HHHHHHH-------
Confidence 445689999998752 356999999999999999999999999999987642 2222111
Q ss_pred HHhccCcccccceEEEEEEEEeeeeeeecCCCcccEEEEEccc---CCCcCCCcccccccCcchhhhhhhhCCCCcceEE
Q psy12447 103 ADMRGNKDEIQEAVLMVEIVQKQTVFGFWGEELENFLKITESV---FPTFPTHTYKAFESNIDFDIRFMVDNDIVGCNWI 179 (551)
Q Consensus 103 ~~~~~~~~~~~~~i~~ie~V~k~~lygy~~~~~~~flKI~~~~---~~~l~~~~~~vyEa~I~~~~rFliD~~I~g~~Wi 179 (551)
.++. ..+.+++.|+|.++|+ + ++.+|+||+... .+.+++..-++||+||+|+.|||+|++|.||+|+
T Consensus 70 -~~~~------~~~~~ve~v~k~~~~~--~-~~~~~~ki~~~~p~~v~~~r~~l~~~~EadI~~~~RfliD~~i~~~~w~ 139 (847)
T 1s5j_A 70 -IVRD------PSFDHIETVSKIDPYT--W-NKFKLTKIVVRDPLAVRRLRNDVPKAYEAHIKYFNNYMYDIGLIPGMPY 139 (847)
T ss_dssp -HHTC------TTEEEEEEEEEECTTT--C-CEEEEEEEEESSHHHHHHHTTSSSCEESCSSCHHHHHHHHHTCCTTSEE
T ss_pred -Hhcc------CCceEEEEEEeEeccC--C-CceeEEEEEEeCHHHHHHHHHHhhhheecCCchHhhhheecCccceEEE
Confidence 1221 2479999999999865 3 578999999643 2333333228999999999999999999999999
Q ss_pred EeCCCeeEecCCCCCCCCCCCccccceeEEEEEcCcccCCCCcccccCCCcccccCCCCCc-----ccccCceeEEEEEE
Q psy12447 180 EIPPGKWQLRGQHKFSNTNRPCVSRCQLEIDVSTDDIVSHAPEEIDVSTDDIVSHAPEGEW-----SKVAPLRILSFDIE 254 (551)
Q Consensus 180 ~i~~~~~~~~~~~~~~~~~~~r~S~c~iEi~v~~~~I~n~~~~~~~~~~~~~~~~~~~~~~-----~~~p~l~ils~DIE 254 (551)
++....++.... +.+ .|+++.+.++..+.+++ +.. .+.+| ...|+++++|||||
T Consensus 140 ~~~~~~~~~~~~---------~~~---~~~~~~~~~~~~~~~~~-------~~~--~~~~~~~~~~~~~p~l~ilsfDIE 198 (847)
T 1s5j_A 140 VVKNGKLESVYL---------SLD---EKDVEEIKKAFADSDEM-------TRQ--MAVDWLPIFETEIPKIKRVAIDIE 198 (847)
T ss_dssp EEETTEEEECCC---------CCC---HHHHHHHHHHTTTSCHH-------HHH--HHHHHTHHHHSCCCCCCEEEEEEE
T ss_pred EEeccccccccc---------ccc---hhhccchhhhhccchhh-------hcc--cccccchhcccCCCCceEEEEEEE
Confidence 998776654311 111 23333333322111100 000 00112 23699999999999
Q ss_pred ecc-CCCCCCCCCC--CcEEEEEEEeeccCCCcccccccccccCCcccccCceeeeecchhhHHHHHHHHHHHhCCCCcc
Q psy12447 255 CAG-RKGIFPDPNH--DPIIQIANMCISQGASENIFVKNVFTLNTCAPIVGSQVICCKTETELLDKWSAFIRTMGQGASE 331 (551)
Q Consensus 255 ~~~-~~~~fP~~~~--d~I~~Is~~~~~~~~~~~~~~~~~~~l~~~~~i~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~ 331 (551)
|.+ ..|.||+|+. |+|++||+. ..+|.. .++.++.+.. .
T Consensus 199 t~s~~~g~fP~~~~~~d~Ii~Is~~-~~~g~~------~~~~~~~~~~--~----------------------------- 240 (847)
T 1s5j_A 199 VYTPVKGRIPDSQKAEFPIISIALA-GSDGLK------KVLVLNRNDV--N----------------------------- 240 (847)
T ss_dssp ECCSSSSCCCCTTTCCSCEEEEEEE-ETTSCE------EEEEECSSCC--C-----------------------------
T ss_pred eCcCCCCCCCCccccCCcEEEEEEE-ccCCCc------EEEEEeCCcc--c-----------------------------
Confidence 966 4677999975 999999985 233321 2333332110 0
Q ss_pred CceeeeeeecCCCCCccCcEEeEcCCHHHHHHHHHHHHHhcCCceEEeecccCCChHHHHHHHHHcCCCccccccccccc
Q psy12447 332 NIFVKNVFTLNTCAPIVGSQVICCKTETELLDKWSAFIRELDPDIFTGYNIQNFDFPYLINRAKHLGVKNFTFLGRVKDI 411 (551)
Q Consensus 332 ~p~~~~~f~~~~~~~~~g~~V~~~~~E~~LL~~f~~~i~~~dPDii~GyNi~~fdl~yL~~R~~~l~i~~~~~l~R~~~~ 411 (551)
. ...++.|..|..|++|++||.+|+++|+. +|+|+|||+.+||||||.+||..+|++.. +.
T Consensus 241 -~---------~~~~i~~~~v~~~~~E~~LL~~f~~~i~~--~diivgyN~~~FDlPyL~~Ra~~lgi~~~----~~--- 301 (847)
T 1s5j_A 241 -E---------GSVKLDGISVERFNTEYELLGRFFDILLE--YPIVLTFNGDDFDLPYIYFRALKLGYFPE----EI--- 301 (847)
T ss_dssp -C---------CCEEETTEEEEEESSHHHHHHHHHHHHTT--CSEEEESSTTTTHHHHHHHHHHTTTCCGG----GC---
T ss_pred -c---------cccCCCCCeEEEeCCHHHHHHHHHHHhcc--CCEEEEeCCCCchHHHHHHHHHHcCCCcc----cC---
Confidence 0 00123577899999999999999999975 47999999999999999999999998521 00
Q ss_pred ccccchhhhhhhcccccccccccccCCCcccccccccccccccccccccccccccccccccc-Ccccceeeeeeceeeee
Q psy12447 412 RSVIKDSFIQSKQMGKRENKTINFEGNSDRRETLGVKNFTFLGRVKDIRSVIKDSFIQSKQM-GKRENKTINFEGRVCFD 490 (551)
Q Consensus 412 ~~~~~~~f~~s~~~g~~~~~~~~~~~~~~~~~~l~~~~~~~lg~~k~~~~~i~~~~~~s~~~-g~~~~~~~~i~GR~~lD 490 (551)
++. . |.. ...+.||+++|
T Consensus 302 -------------------------------------------------------p~~---~~gr~---~~~i~gr~~~D 320 (847)
T 1s5j_A 302 -------------------------------------------------------PID---VAGKD---EAKYLAGLHID 320 (847)
T ss_dssp -------------------------------------------------------SEE---CCSTT---CCEETTSEEEE
T ss_pred -------------------------------------------------------Cee---ecCCC---ceEeccEEEee
Confidence 000 1 211 25678999999
Q ss_pred HHHHHHHH--------ccCCCCCHHHHHHHhhccCCCCCChhhHHHHHhcCCCCCcc---cccccccccCC
Q psy12447 491 LLFVLLRE--------YKLRSYTLNSVSYHFLQEQKEDVQHSIISDLQIALLQPSDP---KSNAAPLRYSP 550 (551)
Q Consensus 491 l~~~~~~~--------~kl~sYsL~~V~~~~Lg~~k~~~~~~~i~~~~~~~~~~~~~---~D~~l~~rl~~ 550 (551)
+|++++++ .++.||+|++||+++||++|.+++ .++.+ .+....+. +||.|+++|+.
T Consensus 321 l~~~~~~~~~~~y~f~~kl~sysL~~Va~~~Lg~~K~dv~-~~i~~---~~~~~l~~Ycl~Da~lt~~L~~ 387 (847)
T 1s5j_A 321 LYKFFFNKAVRNYAFEGKYNEYNLDAVAKALLGTSKVKVD-TLISF---LDVEKLIEYNFRDAEITLQLTT 387 (847)
T ss_dssp HHHHHTSHHHHHHTSTTCCSSCSHHHHHHHHHCCCCC--S-SCTTT---CCHHHHHHHHHHHHHHHHHTTT
T ss_pred hHHHHhhhhhhhhccccccccccHHHHHHHHhCCCCcchh-Hhhhh---ccHHHHHHHHHHHHHHHHHHHH
Confidence 99998753 367999999999999999999985 44421 11111111 99999999963
No 6
>1noy_A Protein (DNA polymerase (E.C.2.7.7.7)); exonuclease, DNA-binding, complex (nucleotidyltransferase/DNA); HET: DNA; 2.20A {Enterobacteria phage T4} SCOP: c.55.3.5 PDB: 1noz_A*
Probab=100.00 E-value=5.2e-41 Score=354.58 Aligned_cols=297 Identities=22% Similarity=0.283 Sum_probs=212.3
Q ss_pred ccEEEEEeecCCCcEEEEEEeceeeEEEEeCCCCCChhHHHHHHHHHHHHHHHHhccCcccccceEEEEEEEEeeeeeee
Q psy12447 51 VPIVRMFGVTMEGNSVCCHVHGFSPYLYVSAPKEFNSTHCRAFKEALNRAIIADMRGNKDEIQEAVLMVEIVQKQTVFGF 130 (551)
Q Consensus 51 ~pvI~lfG~te~G~svcv~V~gf~PYFYv~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~~i~~ie~V~k~~lygy 130 (551)
++++++||+|++|. +||++.+|+||||++.++.. ..++++|
T Consensus 12 g~~~~~~g~~~~G~-~~v~~~~f~pyfy~~~~~~~-------------------------------------~~~~~~g- 52 (388)
T 1noy_A 12 GNNIVERYIDENGK-ERTREVEYLPTMFRHCKEES-------------------------------------KYKDIYG- 52 (388)
T ss_dssp TTEEEEEEECTTSC-EEEEEEECCCSEECGGGGTC-------------------------------------SSCTTTT-
T ss_pred CCEEEEEEEcCCCC-EEEEEECCcEEEEEEcCCCc-------------------------------------ceEEeCC-
Confidence 37889999999998 99999999999999754310 0122322
Q ss_pred cCCCcccEEEEEcccC-------CCcCCCcccccccCcchhhhhhhhCCCCcceEEEeCCCeeEecCCCCCCCCCCCccc
Q psy12447 131 WGEELENFLKITESVF-------PTFPTHTYKAFESNIDFDIRFMVDNDIVGCNWIEIPPGKWQLRGQHKFSNTNRPCVS 203 (551)
Q Consensus 131 ~~~~~~~flKI~~~~~-------~~l~~~~~~vyEa~I~~~~rFliD~~I~g~~Wi~i~~~~~~~~~~~~~~~~~~~r~S 203 (551)
+++.+|+.... ..++..++++||++ +|..||++|. +. ||+
T Consensus 53 -----~~~~~i~~~~~~~~~~~~~~l~~~~~~v~e~~-rf~~~~~~d~-~~--g~~------------------------ 99 (388)
T 1noy_A 53 -----KNCAPQKFPSMKDARDWMKRMEDIGLEALGMN-DFKLAYISDT-YG--SEI------------------------ 99 (388)
T ss_dssp -----CCCCCEECSSHHHHHHHHHHHHHHCTTCTHHH-HHHHHHHHHH-TC--SCC------------------------
T ss_pred -----CEEEEEeCCCHHHHHHHHHHHHhcCceeccCc-HHHHHHhhhc-CC--cce------------------------
Confidence 23344553221 12223457899999 9999999986 22 231
Q ss_pred cceeEEEEEcCcccCCCCcccccCCCcccccCCCCCcccccCceeEEEEEEeccCCCCCCCCCC--CcEEEEEEEeeccC
Q psy12447 204 RCQLEIDVSTDDIVSHAPEEIDVSTDDIVSHAPEGEWSKVAPLRILSFDIECAGRKGIFPDPNH--DPIIQIANMCISQG 281 (551)
Q Consensus 204 ~c~iEi~v~~~~I~n~~~~~~~~~~~~~~~~~~~~~~~~~p~l~ils~DIE~~~~~~~fP~~~~--d~I~~Is~~~~~~~ 281 (551)
| . ..|++++|||||||.+ +.||+|+. |+|+|||++...++
T Consensus 100 ----~-------------------------------~-~~p~l~vlsfDIEt~~--~~fP~~~~~~d~Ii~Is~~~~~~~ 141 (388)
T 1noy_A 100 ----V-------------------------------Y-DRKFVRVANCDIEVTG--DKFPDPMKAEYEIDAITHYDSIDD 141 (388)
T ss_dssp ----C-------------------------------C-CGGGCCEEEEEEEECC--SSCCCTTTCCSCEEEEEEEETTTT
T ss_pred ----e-------------------------------c-CCCCeEEEEEEEEeCC--CCCCCCCCCCCeEEEEEEEEecCC
Confidence 0 0 1488999999999998 56999974 69999998743222
Q ss_pred CCcccccccccccCCcccccCceeeeecchhhHHHHHHHHHHHhCCCCccCcee------eeeeecCCCCCcc--CcEEe
Q psy12447 282 ASENIFVKNVFTLNTCAPIVGSQVICCKTETELLDKWSAFIRTMGQGASENIFV------KNVFTLNTCAPIV--GSQVI 353 (551)
Q Consensus 282 ~~~~~~~~~~~~l~~~~~i~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~p~~------~~~f~~~~~~~~~--g~~V~ 353 (551)
.. .+|+|- +++..+ ..|+. ...|+++.|.++. ++.|.
T Consensus 142 ~~------~~~~l~-~~~~~~----------------------------~~~~~~~~~~~~~~f~~~~~~~~~~~~v~v~ 186 (388)
T 1noy_A 142 RF------YVFDLL-NSMYGS----------------------------VSKWDAKLAAKLDCEGGDEVPQEILDRVIYM 186 (388)
T ss_dssp EE------EEEEEC-CCSSCC----------------------------CCCCCHHHHHSCGGGTCCCCCHHHHTTEEEE
T ss_pred eE------EEEEEe-eccCCC----------------------------CCccccccccccccccccccccccCCCeEEE
Confidence 10 122210 000000 00111 1257888887653 56788
Q ss_pred EcCCHHHHHHHHHHHHHhcCCceEEeecccCCChHHHHHHHHH-cCC---Ccccccccccccccccchhhhhhhcccccc
Q psy12447 354 CCKTETELLDKWSAFIRELDPDIFTGYNIQNFDFPYLINRAKH-LGV---KNFTFLGRVKDIRSVIKDSFIQSKQMGKRE 429 (551)
Q Consensus 354 ~~~~E~~LL~~f~~~i~~~dPDii~GyNi~~fdl~yL~~R~~~-l~i---~~~~~l~R~~~~~~~~~~~f~~s~~~g~~~ 429 (551)
.|++|++||.+|+++|+++|||||+|||+.+||||||.+||.. +|+ +.|+.+||.....
T Consensus 187 ~~~~E~~LL~~f~~~i~~~dPDii~GyN~~~FDlpyL~~Ra~~~lg~~l~~~~s~~~r~~~~~----------------- 249 (388)
T 1noy_A 187 PFDNERDMLMEYINLWEQKRPAIFTGWNIEGFDVPYIMNRVKMILGERSMKRFSPIGRVKSKL----------------- 249 (388)
T ss_dssp EESCHHHHHHHHHHHHHHSCCSEEECSSTTTTHHHHHHHHHHHHHHHHHHGGGSTTSCEEEEE-----------------
T ss_pred EcCCHHHHHHHHHHHHHHhCCcEEEecCCCCccHHHHHHHHHHHcCCccccccCccccccccc-----------------
Confidence 9999999999999999999999999999999999999999998 885 4455555543210
Q ss_pred cccccccCCCccccccccccccccccccccccccccccccccccCcccceeeeeeceeeeeHHHHHHH-Hcc-CCCCCHH
Q psy12447 430 NKTINFEGNSDRRETLGVKNFTFLGRVKDIRSVIKDSFIQSKQMGKRENKTINFEGRVCFDLLFVLLR-EYK-LRSYTLN 507 (551)
Q Consensus 430 ~~~~~~~~~~~~~~~l~~~~~~~lg~~k~~~~~i~~~~~~s~~~g~~~~~~~~i~GR~~lDl~~~~~~-~~k-l~sYsL~ 507 (551)
+ .+++|.+. ...++||+++|+|+++++ +++ +.||+|+
T Consensus 250 --------------------------------------~-~~~~g~~~--~~~i~GR~~lD~~~~~k~~~~~~l~sysL~ 288 (388)
T 1noy_A 250 --------------------------------------L-QNMYGSKE--IYSIDGVSILDYLDLYKKFAFTNLPSFSLE 288 (388)
T ss_dssp --------------------------------------C-CGGGCSCE--EEEETTSEECCHHHHHHHHTCCCCSCCSHH
T ss_pred --------------------------------------C-hhhhCCcc--eEEEcCeEEeEHHHHHhhcCcCcccCCCHH
Confidence 0 02355432 378999999999999999 688 9999999
Q ss_pred HHHHHhhccCCCCCChhhHHHHHhcCCCCCcc---cccccccccCCC
Q psy12447 508 SVSYHFLQEQKEDVQHSIISDLQIALLQPSDP---KSNAAPLRYSPK 551 (551)
Q Consensus 508 ~V~~~~Lg~~k~~~~~~~i~~~~~~~~~~~~~---~D~~l~~rl~~~ 551 (551)
+||+++||++|.+++ ++|.+||.++....+. +||+|+++|+.|
T Consensus 289 ~Va~~~Lg~~K~d~~-~~i~~~~~~~~~~l~~Y~~~D~~l~~~L~~k 334 (388)
T 1noy_A 289 SVAQHETKKGKLPYD-GPINKLRETNHQRYISYNIIDVESVQAIDKI 334 (388)
T ss_dssp HHHHHHHSCCCCCCS-SCGGGHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhCCCCCCcH-HHHHHHHHhCHHHHHHHHHHHHHHHHHHHHH
Confidence 999999999999976 8999999954433333 999999999753
No 7
>3qex_A DNA polymerase, GP43; difluorotoluene nucleoside; HET: DNA DOC DGT; 1.73A {Enterobacteria phage RB69} PDB: 3qei_A* 3qer_A* 3qes_A* 3qet_A* 3qep_A* 3qew_A* 3qev_A* 3s9h_A* 3sq0_A* 4dtn_A* 4dto_A* 4dtp_A* 4dtr_A* 4dts_A* 4dtu_A* 4dtx_A* 4e3s_A* 4fjm_A* 4fjl_A* 3spz_A* ...
Probab=99.95 E-value=1.7e-28 Score=278.94 Aligned_cols=220 Identities=26% Similarity=0.334 Sum_probs=154.2
Q ss_pred ccCceeEEEEEEeccCCCCCCCCC--CCcEEEEEEEeeccCCCcccccccccccCCcccccCceeeeecchhhHHHHHHH
Q psy12447 243 VAPLRILSFDIECAGRKGIFPDPN--HDPIIQIANMCISQGASENIFVKNVFTLNTCAPIVGSQVICCKTETELLDKWSA 320 (551)
Q Consensus 243 ~p~l~ils~DIE~~~~~~~fP~~~--~d~I~~Is~~~~~~~~~~~~~~~~~~~l~~~~~i~~~~v~~~~~e~~~~~~~~~ 320 (551)
.+.+++++|||||.+.+ .||+|+ .+||++||+. .+.+... -++.| -+++..+ + ..|..
T Consensus 105 ~~~ir~~~~DIEv~~~~-~fPd~~~~~~~Ii~It~~-d~~~~~~-----~~~~l-~~~~~~~--~----------~~~~~ 164 (903)
T 3qex_A 105 HTKIRVANFDIEVTSPD-GFPEPSQAKHPIDAITHY-DSIDDRF-----YVFDL-LNSPYGN--V----------EEWSI 164 (903)
T ss_dssp GGGSCEEEEEEECCCTT-SSCCTTTCCSCCCEEEEE-ETTTTEE-----EEEEE-CEETTEE--C----------CCCCH
T ss_pred cccccEEEEeEEeCCCC-CCCCcccCCCCEEEEEEE-eCCCCEE-----EEEEe-ecccccc--c----------ccccc
Confidence 46799999999997654 599997 7999999987 2222211 11111 0000000 0 00100
Q ss_pred H--HHHhCCCCccCceeeeeeecCCCCCccCcEEeEcCCHHHHHHHHHHHHHhcCCceEEeecccCCChHHHHHHHHH-c
Q psy12447 321 F--IRTMGQGASENIFVKNVFTLNTCAPIVGSQVICCKTETELLDKWSAFIRELDPDIFTGYNIQNFDFPYLINRAKH-L 397 (551)
Q Consensus 321 ~--~~~~~~~~~~~p~~~~~f~~~~~~~~~g~~V~~~~~E~~LL~~f~~~i~~~dPDii~GyNi~~fdl~yL~~R~~~-l 397 (551)
- +.....|+.+.| +..+.++.|..|++|++||.+|+++|+++|||||+|||+.+||||||.+||.. +
T Consensus 165 ~~~~~~~~~~~~~~~----------~~~~~~v~v~~f~sE~eLL~~F~~~I~~~DPDIItGyN~~~FDlPYL~~RA~~l~ 234 (903)
T 3qex_A 165 EIAAKLQEQGGDEVP----------SEIIDKIIYMPFDNEKELLMEYLNFWQQKTPVILTGWNVESFAIPYVYNRIKNIF 234 (903)
T ss_dssp HHHHSCGGGTCCCCC----------HHHHTTEEEEEESSHHHHHHHHHHHHHHTCCSEEECSSTTTTHHHHHHHHHHHHH
T ss_pred ccccccccccccccc----------cccCCCeEEEEcCCHHHHHHHHHHHHHHhCCCEEEecCCccCCHHHHHHHHHHHc
Confidence 0 000000111011 12235788999999999999999999999999999999999999999999998 5
Q ss_pred CCC---cccccccccccccccchhhhhhhcccccccccccccCCCccccccccccccccccccccccccccccccccccC
Q psy12447 398 GVK---NFTFLGRVKDIRSVIKDSFIQSKQMGKRENKTINFEGNSDRRETLGVKNFTFLGRVKDIRSVIKDSFIQSKQMG 474 (551)
Q Consensus 398 ~i~---~~~~l~R~~~~~~~~~~~f~~s~~~g~~~~~~~~~~~~~~~~~~l~~~~~~~lg~~k~~~~~i~~~~~~s~~~g 474 (551)
|++ .+..+||..... ..+++|
T Consensus 235 gi~~~~~ls~~gR~~~~~--------------------------------------------------------~~~~~G 258 (903)
T 3qex_A 235 GESTAKRLSPHRKTRVKV--------------------------------------------------------IENMYG 258 (903)
T ss_dssp CHHHHGGGSTTSCEEEEE--------------------------------------------------------EEETTE
T ss_pred CCcccccccccccccccc--------------------------------------------------------hhhhcC
Confidence 874 334455543210 113355
Q ss_pred cccceeeeeeceeeeeHHHHHHHH--ccCCCCCHHHHHHHhhccCCCCCChhhHHHHHhcCCCCCcc---cccccccccC
Q psy12447 475 KRENKTINFEGRVCFDLLFVLLRE--YKLRSYTLNSVSYHFLQEQKEDVQHSIISDLQIALLQPSDP---KSNAAPLRYS 549 (551)
Q Consensus 475 ~~~~~~~~i~GR~~lDl~~~~~~~--~kl~sYsL~~V~~~~Lg~~k~~~~~~~i~~~~~~~~~~~~~---~D~~l~~rl~ 549 (551)
.+. .+.++||+++|+|+++++. .++.||+|++||+++||++|++++ .+|.+||.++....+. +||+|+++|+
T Consensus 259 ~~~--~~~i~GRv~lDl~~~~k~~~~~~l~SYsLd~VA~~lLg~~K~d~~-~~I~~~~~~d~~~L~~Ycl~Da~Lt~~L~ 335 (903)
T 3qex_A 259 SRE--IITLFGISVLDYIDLYKKFSFTNQPSYSLDYISEFELNVGKLKYD-GPISKLRESNHQRYISYNIIAVYRVLQID 335 (903)
T ss_dssp EEE--EEEETTCEECCHHHHHHHHSCCCCSCCCHHHHHHHHHCCCCCCCS-SCGGGHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred Cce--eEEEeCeEEeeHHHHHHHhCccCcCCCCHHHHHHHHcCCCccccH-HHHHHHHhcCHHHHHHHHHHHHHHHHHHH
Confidence 443 4889999999999999983 489999999999999999999997 8999999876544444 9999999997
Q ss_pred CC
Q psy12447 550 PK 551 (551)
Q Consensus 550 ~~ 551 (551)
.|
T Consensus 336 ~K 337 (903)
T 3qex_A 336 AK 337 (903)
T ss_dssp HH
T ss_pred HH
Confidence 53
No 8
>2py5_A DNA polymerase; protein-DNA complex, replication, transferase/DNA complex; HET: DNA; 1.60A {Bacillus phage PHI29} SCOP: c.55.3.5 e.8.1.1 PDB: 1xhz_A* 1xhx_A* 2ex3_A* 1xi1_A* 2pyj_A* 2pyl_A* 2pzs_A*
Probab=97.67 E-value=4.7e-05 Score=83.64 Aligned_cols=36 Identities=25% Similarity=0.455 Sum_probs=31.4
Q ss_pred HHHHHHHHHhcCCceEEeecccCCChHHHHHHHHHcCC
Q psy12447 362 LDKWSAFIRELDPDIFTGYNIQNFDFPYLINRAKHLGV 399 (551)
Q Consensus 362 L~~f~~~i~~~dPDii~GyNi~~fdl~yL~~R~~~l~i 399 (551)
|.+|++++...|||| ++||+ +||+.+|++|+...|.
T Consensus 44 l~~fi~~~~~~~~~i-~~hNl-~FD~~~l~~~~~~~~~ 79 (575)
T 2py5_A 44 LDEFMAWVLKVQADL-YFHNL-KFAGAFIINWLERNGF 79 (575)
T ss_dssp HHHHHHHHHHHCCEE-EETTH-HHHHHHHHHHHHHTTC
T ss_pred HHHHHHHHHHcCCEE-EEECh-hhhHHHHHHHHHHhCc
Confidence 577888899999995 55999 9999999999998863
No 9
>2p1j_A POLIII, DNA polymerase III POLC-type; structural genomics, exonuclease, PSI-2, protein structure initiative; HET: DNA; 2.50A {Thermotoga maritima MSB8}
Probab=97.63 E-value=0.00013 Score=68.20 Aligned_cols=40 Identities=25% Similarity=0.413 Sum_probs=32.7
Q ss_pred CCHHHHHHHHHHHHHhcCCceEEeecccCCChHHHHHHHHHcCC
Q psy12447 356 KTETELLDKWSAFIRELDPDIFTGYNIQNFDFPYLINRAKHLGV 399 (551)
Q Consensus 356 ~~E~~LL~~f~~~i~~~dPDii~GyNi~~fdl~yL~~R~~~l~i 399 (551)
.+..+.+.+|.+++. ..+++|||+ .||+++|...+..+|+
T Consensus 77 ~~~~~v~~~~~~~l~---~~~lv~hn~-~fD~~~L~~~~~~~g~ 116 (186)
T 2p1j_A 77 RSIEEVLPEFLGFLE---DSIIVAHNA-NFDYRFLRLWIKKVMG 116 (186)
T ss_dssp CBHHHHHHHHHHHSS---SCEEEETTH-HHHHHHHHHHHHHHHC
T ss_pred CCHHHHHHHHHHHHC---CCEEEEECc-HHHHHHHHHHHHHcCC
Confidence 466778888888875 479999999 9999999877776665
No 10
>3mxm_B Three prime repair exonuclease 1; RNAse H-like fold, polyproline type II helix, hydrolase-DNA; HET: DNA; 1.75A {Mus musculus} SCOP: c.55.3.5 PDB: 3mxj_B 2ioc_B 3mxi_B* 3b6o_A* 2o4g_A* 3b6p_A* 2o4i_A 2oa8_A
Probab=97.62 E-value=8.4e-05 Score=72.67 Aligned_cols=42 Identities=24% Similarity=0.355 Sum_probs=34.2
Q ss_pred HHHHHHHHHHHHhc-CCceEEeecccCCChHHHHHHHHHcCCC
Q psy12447 359 TELLDKWSAFIREL-DPDIFTGYNIQNFDFPYLINRAKHLGVK 400 (551)
Q Consensus 359 ~~LL~~f~~~i~~~-dPDii~GyNi~~fdl~yL~~R~~~l~i~ 400 (551)
.+.+..|.+++... .|.+++|||...||+++|..-+.++|+.
T Consensus 102 ~ev~~~~~~fl~~~~~~~~lVaHNav~FD~~fL~~~~~r~g~~ 144 (242)
T 3mxm_B 102 DNLAILLRAFLQRQPQPCCLVAHNGDRYDFPLLQTELARLSTP 144 (242)
T ss_dssp HHHHHHHHHHHHTSCSSEEEEETTTTTTHHHHHHHHHHTSSSC
T ss_pred HHHHHHHHHHHhcCCCCCEEEEcCChHhhHHHHHHHHHHcCCC
Confidence 36889999998864 3479999999899999998777776653
No 11
>3u3y_B Three prime repair exonuclease 1; RNAse H fold, 3' exonuclease, homodimer, hydrolase-DNA compl; HET: BU1; 2.28A {Mus musculus} PDB: 3u6f_B*
Probab=97.59 E-value=7.7e-05 Score=75.49 Aligned_cols=42 Identities=24% Similarity=0.343 Sum_probs=34.1
Q ss_pred HHHHHHHHHHHHhcC-CceEEeecccCCChHHHHHHHHHcCCC
Q psy12447 359 TELLDKWSAFIRELD-PDIFTGYNIQNFDFPYLINRAKHLGVK 400 (551)
Q Consensus 359 ~~LL~~f~~~i~~~d-PDii~GyNi~~fdl~yL~~R~~~l~i~ 400 (551)
.+++..|.+++...+ |.+++|||+..||+++|..-+.++|+.
T Consensus 102 ~ev~~~l~~fL~~~~~~~vLVAHNga~FD~~FL~~el~r~Gl~ 144 (314)
T 3u3y_B 102 DNLAILLRAFLQRQPQPCCLVAHNGDRYDFPLLQTELARLSTP 144 (314)
T ss_dssp HHHHHHHHHHHHTSCSSEEEEETTTTTTHHHHHHHHHHTSSSC
T ss_pred HHHHHHHHHHHhcCCCCcEEEEeCcHHHHHHHHHHHHHHcCCC
Confidence 468888888888743 579999999999999998777776653
No 12
>1y97_A Three prime repair exonuclease 2; TREX2, hydrolase; 2.50A {Homo sapiens} SCOP: c.55.3.5
Probab=97.43 E-value=0.00032 Score=68.05 Aligned_cols=40 Identities=25% Similarity=0.463 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHhcC-CceEEeecccCCChHHHHHHHHHcCC
Q psy12447 360 ELLDKWSAFIRELD-PDIFTGYNIQNFDFPYLINRAKHLGV 399 (551)
Q Consensus 360 ~LL~~f~~~i~~~d-PDii~GyNi~~fdl~yL~~R~~~l~i 399 (551)
+++..+.+++.... +.+++|||...||+++|...+..+|+
T Consensus 98 ~v~~~l~~fl~~~~~~~~lVahN~~~FD~~fL~~~~~~~g~ 138 (238)
T 1y97_A 98 AVVRTLQAFLSRQAGPICLVAHNGFDYDFPLLCAELRRLGA 138 (238)
T ss_dssp HHHHHHHHHHTTSCSSEEEEETTTTTTHHHHHHHHHHHHTC
T ss_pred HHHHHHHHHHHhCCCCCEEEecCchhhhHHHHHHHHHHcCC
Confidence 35666666666544 48999999999999999887777665
No 13
>2f96_A Ribonuclease T; RNAse, RNT, RNAse T, tRNA hydrolase, SAD, PS protein structure initiative, midwest center for structural genomics; 2.09A {Pseudomonas aeruginosa} SCOP: c.55.3.5
Probab=97.10 E-value=0.0025 Score=61.13 Aligned_cols=44 Identities=25% Similarity=0.330 Sum_probs=35.2
Q ss_pred cCCHHHHHHHHHHHHHhc------CCceEEeecccCCChHHHHHHHHHcCC
Q psy12447 355 CKTETELLDKWSAFIREL------DPDIFTGYNIQNFDFPYLINRAKHLGV 399 (551)
Q Consensus 355 ~~~E~~LL~~f~~~i~~~------dPDii~GyNi~~fdl~yL~~R~~~l~i 399 (551)
-....+.+..|..++..+ +..+++|||. .||+++|...+.++|+
T Consensus 101 ~~~~~~v~~~~~~~l~~~~~~~~~~~~~lV~hn~-~FD~~fL~~~~~~~g~ 150 (224)
T 2f96_A 101 AVQEEAALTEIFRGIRKALKANGCKRAILVGHNS-SFDLGFLNAAVARTGI 150 (224)
T ss_dssp CBCHHHHHHHHHHHHHHHHHHTTCSEEEEEETTH-HHHHHHHHHHHHHHTC
T ss_pred CCCHHHHHHHHHHHHHHHhhhcccCCCEEEEeCh-hhhHHHHHHHHHHcCC
Confidence 346778899999888754 4578999998 8999999877776665
No 14
>3v9w_A Ribonuclease T; DEDD nucleases family, EXO-nucleases, hydrolase-DNA complex; HET: DNA; 1.70A {Escherichia coli} PDB: 3ngy_A 3v9u_A* 3ngz_A* 3va3_A* 3v9z_A* 3nh0_A 3nh2_A 3nh1_A* 3v9s_A* 3v9x_A* 3va0_A* 2is3_A
Probab=97.03 E-value=0.0067 Score=58.54 Aligned_cols=43 Identities=21% Similarity=0.336 Sum_probs=35.0
Q ss_pred CCHHHHHHHHHHHHHhc------CCceEEeecccCCChHHHHHHHHHcCC
Q psy12447 356 KTETELLDKWSAFIREL------DPDIFTGYNIQNFDFPYLINRAKHLGV 399 (551)
Q Consensus 356 ~~E~~LL~~f~~~i~~~------dPDii~GyNi~~fdl~yL~~R~~~l~i 399 (551)
....+.+..|..++..+ ...+++|||+ .||+.+|...+..+|+
T Consensus 110 ~~~~~vl~~~~~~l~~~~~~~~~~~~~lVahN~-~fD~~~L~~~~~~~g~ 158 (235)
T 3v9w_A 110 VSGYEALHEIFKVVRKGIKASGCNRAIMVAHNA-NFDHSFMMAAAERASL 158 (235)
T ss_dssp BCHHHHHHHHHHHHHHHHTTTTCCEEEEEETTT-HHHHHHHHHHHHHTTC
T ss_pred CCHHHHHHHHHHHHHHHhhhccCCCcEEEEeCh-HHHHHHHHHHHHHcCC
Confidence 46778899999998764 4579999998 9999999777777665
No 15
>1zbh_A 3'-5' exonuclease ERI1; histone mRNA 3'-END-specific recognition, structures of 3'- exonuclease and ITS RNA complex, hydrolase/RNA complex; HET: AMP; 3.00A {Homo sapiens}
Probab=96.88 E-value=0.019 Score=57.66 Aligned_cols=44 Identities=11% Similarity=0.063 Sum_probs=35.1
Q ss_pred cCCHHHHHHHHHHHHHhc----CCceEEeecccCCChH-HHHHHHHHcCC
Q psy12447 355 CKTETELLDKWSAFIREL----DPDIFTGYNIQNFDFP-YLINRAKHLGV 399 (551)
Q Consensus 355 ~~~E~~LL~~f~~~i~~~----dPDii~GyNi~~fdl~-yL~~R~~~l~i 399 (551)
-.+..+.+..|.+++... ..++++|||. .||+. +|..-+...|+
T Consensus 150 ap~~~evl~~f~~~l~~~~~~~~~~~lVahn~-~fD~~~fL~~~~~~~g~ 198 (299)
T 1zbh_A 150 ADTFPQVLKKVIDLMKLKELGTKYKYSLLTDG-SWDMSKFLNIQCQLSRL 198 (299)
T ss_dssp SBCHHHHHHHHHHHHHHTTBTTTBCEEEEESS-SHHHHTHHHHHHHHTTB
T ss_pred CCCHHHHHHHHHHHHhhcccCCCCcEEEEEeC-HHHHHHHHHHHHHHcCC
Confidence 356788999999999976 2369999999 79999 99766666655
No 16
>1w0h_A 3'-5' exonuclease ERI1; nuclease domain, hydrolase; HET: AMP; 1.59A {Homo sapiens} SCOP: c.55.3.5
Probab=96.77 E-value=0.038 Score=51.74 Aligned_cols=44 Identities=14% Similarity=0.112 Sum_probs=35.0
Q ss_pred CCHHHHHHHHHHHHHhcC----CceEEeecccCCChH-HHHHHHHHcCCC
Q psy12447 356 KTETELLDKWSAFIRELD----PDIFTGYNIQNFDFP-YLINRAKHLGVK 400 (551)
Q Consensus 356 ~~E~~LL~~f~~~i~~~d----PDii~GyNi~~fdl~-yL~~R~~~l~i~ 400 (551)
.+..+.+..|.+++.... ..+++|||. .||+. +|..-+...|++
T Consensus 83 ~~~~~v~~~~~~~l~~~~~~~~~~~lv~hn~-~fD~~~~L~~~~~~~~~~ 131 (204)
T 1w0h_A 83 DTFPQVLKKVIDWMKLKELGTKYKYSLLTDG-SWDMSKFLNIQCQLSRLK 131 (204)
T ss_dssp BCHHHHHHHHHHHHHHTTBTTTBCEEEEESS-TTTTHHHHHHHHHHHTCC
T ss_pred CCHHHHHHHHHHHHHhcCCCCCCcEEEEEEC-cchHHHHHHHHHHHhCCC
Confidence 567889999999999763 467999998 79997 997666666653
No 17
>2qxf_A Exodeoxyribonuclease I; alpha-beta domain, DNAQ superfamily, SH3-like domain, produc structure, DNA damage, DNA repair, exonuclease; HET: TMP; 1.50A {Escherichia coli} SCOP: c.55.3.5 PDB: 1fxx_A* 3c94_A 3c95_A 3hl8_A* 3hp9_A*
Probab=96.69 E-value=0.02 Score=61.31 Aligned_cols=43 Identities=16% Similarity=0.080 Sum_probs=35.5
Q ss_pred CHHHHHHHHHHHHHhcCCceEEeecccCCChHHHHHHHHHcCCC
Q psy12447 357 TETELLDKWSAFIRELDPDIFTGYNIQNFDFPYLINRAKHLGVK 400 (551)
Q Consensus 357 ~E~~LL~~f~~~i~~~dPDii~GyNi~~fdl~yL~~R~~~l~i~ 400 (551)
.|.+.+..|.+++.. ...+++|||+..||+++|..-+.+.|+.
T Consensus 80 ~~~evl~~f~~~l~~-~~~~lVaHNs~~FD~~fL~~~~~r~g~~ 122 (482)
T 2qxf_A 80 NEAAFAARIHSLFTV-PKTCILGYNNVRFDDEVTRNIFYRNFYD 122 (482)
T ss_dssp CHHHHHHHHHHHHTS-TTEEEEESSTTTTHHHHHHHHHHHTTSC
T ss_pred CHHHHHHHHHHHHcC-CCCEEEEECCHHHHHHHHHHHHHHhCCC
Confidence 567889999988875 4579999998899999998777777664
No 18
>2gui_A DNA polymerase III epsilon subunit; DNA polymerase proofreading domain, transferase; HET: DNA U5P; 1.60A {Escherichia coli} SCOP: c.55.3.5 PDB: 1j54_A* 1j53_A* 2ido_A* 2xy8_A*
Probab=96.58 E-value=0.016 Score=53.98 Aligned_cols=41 Identities=22% Similarity=0.246 Sum_probs=32.9
Q ss_pred CCHHHHHHHHHHHHHhcCCceEEeecccCCChHHHHHHHHHcCCC
Q psy12447 356 KTETELLDKWSAFIRELDPDIFTGYNIQNFDFPYLINRAKHLGVK 400 (551)
Q Consensus 356 ~~E~~LL~~f~~~i~~~dPDii~GyNi~~fdl~yL~~R~~~l~i~ 400 (551)
+...+.+..|.+++.. .+++|||. .||+++|...+..+|++
T Consensus 80 ~~~~~v~~~~~~~l~~---~~lv~hn~-~fD~~~L~~~~~~~g~~ 120 (194)
T 2gui_A 80 PTFAEVADEFMDYIRG---AELVIHNA-AFDIGFMDYEFSLLKRD 120 (194)
T ss_dssp CCHHHHHHHHHHHHTT---SEEEETTH-HHHHHHHHHHHHHTCSC
T ss_pred CCHHHHHHHHHHHHCC---CeEEEEch-HHhHHHHHHHHHHcCCC
Confidence 4567788899888863 58999998 89999998777777653
No 19
>3iay_A DNA polymerase delta catalytic subunit; protein-DNA complex, DNA replication, DNA-BI DNA-directed DNA polymerase, exonuclease, hydrolase; HET: DNA DOC DCP; 2.00A {Saccharomyces cerevisiae}
Probab=96.28 E-value=0.0011 Score=76.57 Aligned_cols=121 Identities=36% Similarity=0.581 Sum_probs=81.8
Q ss_pred ccccCCcccccCceeeeecchhhHHHHHHHHHHHhCCCCccCceeeeeeecCCCCCccCcEEeEcCCHHHHHHHHHHHHH
Q psy12447 291 VFTLNTCAPIVGSQVICCKTETELLDKWSAFIRTMGQGASENIFVKNVFTLNTCAPIVGSQVICCKTETELLDKWSAFIR 370 (551)
Q Consensus 291 ~~~l~~~~~i~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~p~~~~~f~~~~~~~~~g~~V~~~~~E~~LL~~f~~~i~ 370 (551)
+|++++|+++.+..|..+++|.+||.+|..+++..+ | +.+.|+|+..|+-.+ |+.|...+
T Consensus 293 ~f~l~~~~~~~~~~V~~~~sE~eLL~~F~~~i~~~D------P-----------DIIvGyNi~~FDlpy-L~~Ra~~l-- 352 (919)
T 3iay_A 293 VFTLNTCSPITGSMIFSHATEEEMLSNWRNFIIKVD------P-----------DVIIGYNTTNFDIPY-LLNRAKAL-- 352 (919)
T ss_dssp EEEESCCCCBTTBEEEEESSHHHHHHHHHHHHHHHC------C-----------SEEEESSTTTTHHHH-HHHHHHHT--
T ss_pred EEEecCCCCCCCCeEEECCCHHHHHHHHHHHHHHhC------C-----------CEEEecCCccCCHHH-HHHHHHHc--
Confidence 356667888999999999999999999999998876 4 446789999999888 88888643
Q ss_pred hcCCceEEeecccCCChHHHHHHHHHcCCCcccccccccccccccchhhhhhhcccccccccccccCCC-----------
Q psy12447 371 ELDPDIFTGYNIQNFDFPYLINRAKHLGVKNFTFLGRVKDIRSVIKDSFIQSKQMGKRENKTINFEGNS----------- 439 (551)
Q Consensus 371 ~~dPDii~GyNi~~fdl~yL~~R~~~l~i~~~~~l~R~~~~~~~~~~~f~~s~~~g~~~~~~~~~~~~~----------- 439 (551)
++..|+ . +.|... ..+ ..+... .+++++|.++.+.+.+.|++
T Consensus 353 ----------gi~~~~--~-lGR~~~---~~~----~~~~~~-------~~~~~~g~~~~~~~~i~GR~~lDl~~~~k~~ 405 (919)
T 3iay_A 353 ----------KVNDFP--Y-FGRLKT---VKQ----EIKESV-------FSSKAYGTRETKNVNIDGRLQLDLLQFIQRE 405 (919)
T ss_dssp ----------TCTTCS--C-CSSBTT---CCC----CBCCEE-------EEETTTEEEEECCBCCTTCEEEEHHHHHHHH
T ss_pred ----------CCCchh--h-hccccC---ccc----cccccc-------cccccccccccceeEEcCeEEEEhHHHHHhh
Confidence 222222 1 122111 100 011111 02345666666667788885
Q ss_pred --ccccccccccccccccccc
Q psy12447 440 --DRRETLGVKNFTFLGRVKD 458 (551)
Q Consensus 440 --~~~~~l~~~~~~~lg~~k~ 458 (551)
.++|+|+++++++||++|.
T Consensus 406 ~~l~sysL~~Va~~~Lg~~K~ 426 (919)
T 3iay_A 406 YKLRSYTLNAVSAHFLGEQKE 426 (919)
T ss_dssp CCCSCCCHHHHHHHHHCCC--
T ss_pred cCCCCCCHHHHHHHhcccCCC
Confidence 2889999999999999986
No 20
>1zbu_A ERI-1 homolog, 3'-5' exonuclease ERI1; hydrolase; HET: AMP; 3.00A {Homo sapiens}
Probab=96.19 E-value=0.028 Score=57.63 Aligned_cols=43 Identities=12% Similarity=0.077 Sum_probs=33.9
Q ss_pred CCHHHHHHHHHHHHHhcC----CceEEeecccCCChH-HHHHHHHHcCC
Q psy12447 356 KTETELLDKWSAFIRELD----PDIFTGYNIQNFDFP-YLINRAKHLGV 399 (551)
Q Consensus 356 ~~E~~LL~~f~~~i~~~d----PDii~GyNi~~fdl~-yL~~R~~~l~i 399 (551)
.+..+.+..|.+++...+ .++++|||. .||+. +|..-+...|+
T Consensus 201 p~~~eVl~~f~~~l~~~~~~~~~~~lVaHNa-~FD~~~fL~~~~~~~g~ 248 (349)
T 1zbu_A 201 DTFPQVLKKVIDLMKLKELGTKYKYSLLTDG-SWDMSKFLNIQCQLSRL 248 (349)
T ss_dssp EEHHHHHHHHHHHHHHTTBTTTBCEEEEESS-SHHHHTHHHHHHHHTTB
T ss_pred CCHHHHHHHHHHHHhcccccCCCcEEEEECc-HhhHHHHHHHHHHHhCC
Confidence 356778999999998762 269999999 69999 99766666554
No 21
>3tr8_A Oligoribonuclease; transcription, hydrolase; 2.50A {Coxiella burnetii}
Probab=94.88 E-value=0.035 Score=51.69 Aligned_cols=42 Identities=19% Similarity=0.172 Sum_probs=32.7
Q ss_pred CCHHHHHHHHHHHHHhc---CCceEEeecccCCChHHHHHHHHHcC
Q psy12447 356 KTETELLDKWSAFIREL---DPDIFTGYNIQNFDFPYLINRAKHLG 398 (551)
Q Consensus 356 ~~E~~LL~~f~~~i~~~---dPDii~GyNi~~fdl~yL~~R~~~l~ 398 (551)
.++.+.+..|.++++.+ .-.+++|||. .||+++|..-+.++|
T Consensus 83 p~~~ev~~~~l~fl~~~~~~~~~~lvghn~-~FD~~FL~~~~~~~~ 127 (186)
T 3tr8_A 83 VDEVEAETLTLAFLEKYVSAGKSPLCGNSV-CQDRRFLSRYMPRLN 127 (186)
T ss_dssp CCHHHHHHHHHHHHTTTSCTTCSCEEESST-HHHHHHHHHHCHHHH
T ss_pred CCHHHHHHHHHHHHHHhccCCCcEEEEEcH-HHhHHHHHHHHHHcC
Confidence 57889999999999754 3358899988 799999976555544
No 22
>2igi_A Oligoribonuclease; RNAse, exoribonuclease, exonuclease, hydrolase, mRNA decay; 1.70A {Escherichia coli} SCOP: c.55.3.5 PDB: 1yta_A 1j9a_A
Probab=93.48 E-value=0.1 Score=47.82 Aligned_cols=42 Identities=19% Similarity=0.211 Sum_probs=32.5
Q ss_pred cCCHHHHHHHHHHHHHhcCC---ceEEeecccCCChHHHHHHHHHc
Q psy12447 355 CKTETELLDKWSAFIRELDP---DIFTGYNIQNFDFPYLINRAKHL 397 (551)
Q Consensus 355 ~~~E~~LL~~f~~~i~~~dP---Dii~GyNi~~fdl~yL~~R~~~l 397 (551)
-.+..+.+..|.+++...-| .+++|||. .||+++|..-+..+
T Consensus 78 ~~~~~~v~~~~~~~l~~~~~~~~~~lv~hn~-~fD~~fL~~~~~~~ 122 (180)
T 2igi_A 78 TMGDREAELATLEFLKQWVPAGKSPICGNSI-GQDRRFLFKYMPEL 122 (180)
T ss_dssp CCCHHHHHHHHHHHHTTTSCTTTSCEEESSH-HHHHHHHHHHCHHH
T ss_pred CCCHHHHHHHHHHHHHHhCCCCCceEEecCH-HHHHHHHHHHHHHh
Confidence 35778899999999987533 48999997 79999997655443
No 23
>2xri_A ERI1 exoribonuclease 3; hydrolase, metal binding; 2.15A {Homo sapiens}
Probab=92.77 E-value=0.79 Score=43.50 Aligned_cols=42 Identities=12% Similarity=0.353 Sum_probs=30.5
Q ss_pred CCHHHHHHHHHHHHHhcCCceEEeeccc-------CCChHHHH-HHHHHcCCC
Q psy12447 356 KTETELLDKWSAFIRELDPDIFTGYNIQ-------NFDFPYLI-NRAKHLGVK 400 (551)
Q Consensus 356 ~~E~~LL~~f~~~i~~~dPDii~GyNi~-------~fdl~yL~-~R~~~l~i~ 400 (551)
.+..+.+..|.+++... +++|||.. .||+.+|+ .-+...|++
T Consensus 102 ~~~~~v~~~f~~~l~~~---~lv~hn~~~~~~t~g~fD~~fll~~~~~~~g~~ 151 (224)
T 2xri_A 102 PSLQQVLERVDEWMAKE---GLLDPNVKSIFVTCGDWDLKVMLPGQCQYLGLP 151 (224)
T ss_dssp CCHHHHHHHHHHHHHHT---TTTSTTSCEEEEESSSHHHHTHHHHHHHHHTCC
T ss_pred CCHHHHHHHHHHHHhhc---ccccCCCceEEEEeChhhHHHHHHHHHHHhCCC
Confidence 56788999999999864 46777775 89999855 444555653
No 24
>1noy_A Protein (DNA polymerase (E.C.2.7.7.7)); exonuclease, DNA-binding, complex (nucleotidyltransferase/DNA); HET: DNA; 2.20A {Enterobacteria phage T4} SCOP: c.55.3.5 PDB: 1noz_A*
Probab=92.66 E-value=0.06 Score=56.03 Aligned_cols=60 Identities=7% Similarity=0.020 Sum_probs=49.4
Q ss_pred cccccCCcccccC--ceeeeecchhhHHHHHHHHHHHhCCCCccCceeeeeeecCCCCCccCcEEeEcCCHHHHHHHHHH
Q psy12447 290 NVFTLNTCAPIVG--SQVICCKTETELLDKWSAFIRTMGQGASENIFVKNVFTLNTCAPIVGSQVICCKTETELLDKWSA 367 (551)
Q Consensus 290 ~~~~l~~~~~i~~--~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~p~~~~~f~~~~~~~~~g~~V~~~~~E~~LL~~f~~ 367 (551)
.+|++++|+++.+ ..|..+++|.+||.+|..+++..+ | +.+.|+|+..|+-.+ |+.+...
T Consensus 168 ~~f~~~~~~~~~~~~v~v~~~~~E~~LL~~f~~~i~~~d------P-----------Dii~GyN~~~FDlpy-L~~Ra~~ 229 (388)
T 1noy_A 168 DCEGGDEVPQEILDRVIYMPFDNERDMLMEYINLWEQKR------P-----------AIFTGWNIEGFDVPY-IMNRVKM 229 (388)
T ss_dssp GGGTCCCCCHHHHTTEEEEEESCHHHHHHHHHHHHHHSC------C-----------SEEECSSTTTTHHHH-HHHHHHH
T ss_pred ccccccccccccCCCeEEEEcCCHHHHHHHHHHHHHHhC------C-----------cEEEecCCCCccHHH-HHHHHHH
Confidence 4789999998764 456789999999999999998765 4 456889999999888 8888765
No 25
>2gbz_A Oligoribonuclease; ORN, deddh, structural genomics, hydrolase; 2.30A {Xanthomonas campestris PV}
Probab=92.08 E-value=0.096 Score=48.80 Aligned_cols=42 Identities=21% Similarity=0.193 Sum_probs=32.0
Q ss_pred CCHHHHHHHHHHHHHhcC---CceEEeecccCCChHHHHHHHHHcC
Q psy12447 356 KTETELLDKWSAFIRELD---PDIFTGYNIQNFDFPYLINRAKHLG 398 (551)
Q Consensus 356 ~~E~~LL~~f~~~i~~~d---PDii~GyNi~~fdl~yL~~R~~~l~ 398 (551)
.+..+.+..|.+++...- ..+++|||. .||+.+|...+.+++
T Consensus 83 p~~~ev~~~~~~~l~~~~~~~~~~lvghn~-~FD~~fL~~~~~~~~ 127 (194)
T 2gbz_A 83 VTHAQAEAQTVAFLGEWIRAGASPMCGNSI-CQDRRFLHRQMSRLE 127 (194)
T ss_dssp CCHHHHHHHHHHHHTTTCCTTSSCEEESSH-HHHHHHHHHHCHHHH
T ss_pred CCHHHHHHHHHHHHHHhCCCCCceEEecCH-HHhHHHHHHHHHHhc
Confidence 467889999999998642 234999997 799999976555543
No 26
>3cg7_A CRN-4, cell death-related nuclease 4; hydrolase, apoptosis, 3'-5' exonuclease, deddh; 2.50A {Caenorhabditis elegans} PDB: 3cm5_A 3cm6_A
Probab=85.83 E-value=1.6 Score=43.65 Aligned_cols=42 Identities=10% Similarity=0.139 Sum_probs=29.8
Q ss_pred CCHHHHHHHHHHHHHhcCCceEEeecc-----cCCCh-HHHHHHHHHcCCC
Q psy12447 356 KTETELLDKWSAFIRELDPDIFTGYNI-----QNFDF-PYLINRAKHLGVK 400 (551)
Q Consensus 356 ~~E~~LL~~f~~~i~~~dPDii~GyNi-----~~fdl-~yL~~R~~~l~i~ 400 (551)
.+..+.+..|.+++.... ++|||. -.||+ .+|..-+...|+.
T Consensus 93 p~~~evl~~f~~~l~~~~---lvahn~~lv~~g~fD~~~fL~~~~~~~g~~ 140 (308)
T 3cg7_A 93 DTFDVVYEQFQQWLITLG---LEEGKFAFVCDSRQDLWRIAQYQMKLSNIQ 140 (308)
T ss_dssp CBHHHHHHHHHHHHHHHC---CCTTSEEEEESSSHHHHTHHHHHHHHTTCC
T ss_pred CCHHHHHHHHHHHHHhCC---cCCcceEEeccCcccHHHHHHHHHHHcCCC
Confidence 466778999999998764 356665 26898 6886666666653
No 27
>2gv9_A DNA polymerase; polymerase alpha fold, transferase; HET: DNA; 2.68A {Human herpesvirus 1} PDB: 1dml_B*
Probab=81.22 E-value=0.54 Score=55.60 Aligned_cols=48 Identities=21% Similarity=0.261 Sum_probs=40.2
Q ss_pred cCceeeeecchhhHHHHHHHHHHHhCCCCccCceeeeeeecCCCCCccCcEEeEcCCHHHHHHHHH
Q psy12447 301 VGSQVICCKTETELLDKWSAFIRTMGQGASENIFVKNVFTLNTCAPIVGSQVICCKTETELLDKWS 366 (551)
Q Consensus 301 ~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~p~~~~~f~~~~~~~~~g~~V~~~~~E~~LL~~f~ 366 (551)
++..|..+++|.+||.+|..+++..+ | +.+.|+|+..|+-.+ |+.|..
T Consensus 391 ~~~~V~~~~sE~eLL~~F~~~I~~~D------P-----------DIIvGyNi~~FDlpy-L~~Ra~ 438 (1193)
T 2gv9_A 391 PTPVVLEFDSEFEMLLAFMTLVKQYG------P-----------EFVTGYNIINFDWPF-LLAKLT 438 (1193)
T ss_dssp CCCEEEEESSHHHHHHHHHHHHHHHC------C-----------SEEEESSTTTTHHHH-HHHHHH
T ss_pred CCceEEecCCHHHHHHHHHHHHHhcC------C-----------CEEEEcCCcCccHHH-HHHHHH
Confidence 35678899999999999999999876 4 456799999999888 888864
No 28
>1wlj_A Interferon stimulated gene 20KDA; exoribonuclease, hydrolase; HET: U5P; 1.90A {Homo sapiens} SCOP: c.55.3.5
Probab=67.99 E-value=1 Score=41.37 Aligned_cols=31 Identities=13% Similarity=0.196 Sum_probs=25.0
Q ss_pred CCHHHHHHHHHHHHHhcCCceEEeecccCCChHHH
Q psy12447 356 KTETELLDKWSAFIRELDPDIFTGYNIQNFDFPYL 390 (551)
Q Consensus 356 ~~E~~LL~~f~~~i~~~dPDii~GyNi~~fdl~yL 390 (551)
.+..+.+..|.+++. -.+++|||.. ||+.+|
T Consensus 68 ~~~~~v~~~~~~~l~---~~~lV~hn~~-fD~~~L 98 (189)
T 1wlj_A 68 TPFAVARLEILQLLK---GKLVVGHDLK-HDFQAL 98 (189)
T ss_dssp EEHHHHHHHHHHHHT---TSEEEESSHH-HHHHHT
T ss_pred CCHHHHHHHHHHHHC---CCEEEECCcH-HHHHHH
Confidence 356778888888885 4799999986 999777
No 29
>3qex_A DNA polymerase, GP43; difluorotoluene nucleoside; HET: DNA DOC DGT; 1.73A {Enterobacteria phage RB69} PDB: 3qei_A* 3qer_A* 3qes_A* 3qet_A* 3qep_A* 3qew_A* 3qev_A* 3s9h_A* 3sq0_A* 4dtn_A* 4dto_A* 4dtp_A* 4dtr_A* 4dts_A* 4dtu_A* 4dtx_A* 4e3s_A* 4fjm_A* 4fjl_A* 3spz_A* ...
Probab=63.56 E-value=4.4 Score=46.43 Aligned_cols=49 Identities=14% Similarity=0.092 Sum_probs=41.5
Q ss_pred cCceeeeecchhhHHHHHHHHHHHhCCCCccCceeeeeeecCCCCCccCcEEeEcCCHHHHHHHHHH
Q psy12447 301 VGSQVICCKTETELLDKWSAFIRTMGQGASENIFVKNVFTLNTCAPIVGSQVICCKTETELLDKWSA 367 (551)
Q Consensus 301 ~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~p~~~~~f~~~~~~~~~g~~V~~~~~E~~LL~~f~~ 367 (551)
.+..++.+++|.+||.+|..+++..+ | +.+.|+|+..|+-.+ |+.|...
T Consensus 184 ~~v~v~~f~sE~eLL~~F~~~I~~~D------P-----------DIItGyN~~~FDlPY-L~~RA~~ 232 (903)
T 3qex_A 184 DKIIYMPFDNEKELLMEYLNFWQQKT------P-----------VILTGWNVESFAIPY-VYNRIKN 232 (903)
T ss_dssp TTEEEEEESSHHHHHHHHHHHHHHTC------C-----------SEEECSSTTTTHHHH-HHHHHHH
T ss_pred CCeEEEEcCCHHHHHHHHHHHHHHhC------C-----------CEEEecCCccCCHHH-HHHHHHH
Confidence 46778999999999999999998765 4 456799999999888 8888864
No 30
>3k59_A POL II, DNA polymerase II; protein-DNA complex, DNA damage, DNA repair, DNA-binding; HET: DNA DOC DCP; 1.92A {Escherichia coli} PDB: 3k57_A* 3k58_A* 3k5l_A* 3k5m_A* 3k5n_A* 3k5o_A* 3maq_A* 1q8i_A*
Probab=58.96 E-value=4.1 Score=46.05 Aligned_cols=50 Identities=16% Similarity=0.209 Sum_probs=41.5
Q ss_pred cccCceeeeecchhhHHHHHHHHHHHhCCCCccCceeeeeeecCCCCCccCcEEeEcCCHHHHHHHHH
Q psy12447 299 PIVGSQVICCKTETELLDKWSAFIRTMGQGASENIFVKNVFTLNTCAPIVGSQVICCKTETELLDKWS 366 (551)
Q Consensus 299 ~i~~~~v~~~~~e~~~~~~~~~~~~~~~~~~~~~p~~~~~f~~~~~~~~~g~~V~~~~~E~~LL~~f~ 366 (551)
++.+..|..+++|.+||.+|..+++..+ | +.+.|+|+..|+-.+ |+.+..
T Consensus 192 ~~~~~~V~~f~~E~~lL~~f~~~i~~~d------P-----------Dii~g~N~~~FD~py-L~~Ra~ 241 (786)
T 3k59_A 192 SSLDFELEYVASRPQLLEKLNAWFANYD------P-----------DVIIGWNVVQFDLRM-LQKHAE 241 (786)
T ss_dssp TTCSSEEEEESSHHHHHHHHHHHHHHHC------C-----------SEEEESSTTTTHHHH-HHHHHH
T ss_pred CCCCceEEEeCCHHHHHHHHHHHHHHcC------C-----------CEEEecCCccCcHHH-HHHHHH
Confidence 3456789999999999999999998875 4 446788999999888 888875
No 31
>2kfn_A Klenow fragment of DNA polymerase I; complex (polymerase/DNA), exonuclease, transferase, transferase/DNA complex; HET: US1; 2.03A {Escherichia coli} SCOP: c.55.3.5 e.8.1.1 PDB: 1d9f_A* 1d9d_A* 1krp_A* 1ksp_A* 1qsl_A* 1kfs_A* 2kfz_A* 2kzm_A* 2kzz_A* 1dpi_A* 1kfd_A* 1kln_A* 1d8y_A*
Probab=45.10 E-value=96 Score=33.60 Aligned_cols=32 Identities=13% Similarity=0.220 Sum_probs=23.1
Q ss_pred eeeeHHHHHHHHc-cCCCCCHHHHHHHhhccCC
Q psy12447 487 VCFDLLFVLLREY-KLRSYTLNSVSYHFLQEQK 518 (551)
Q Consensus 487 ~~lDl~~~~~~~~-kl~sYsL~~V~~~~Lg~~k 518 (551)
.++|++...+-.. ...+|+|++++.++||...
T Consensus 115 ~~~DT~laayLL~p~~~~~~L~~La~~~Lg~~~ 147 (605)
T 2kfn_A 115 IAFDTMLESYILNSVAGRHDMDSLAERWLKHKT 147 (605)
T ss_dssp EEEEHHHHHHHHCTTSSCCSHHHHHHHHSCCCC
T ss_pred ccccHHHHHHHhCCCCCCCCHHHHHHHhcCCCc
Confidence 3678876665433 3568999999999987543
No 32
>1x9m_A DNA polymerase; DNA ploymerase, N-2-acetylaminofluorene, replication block, mutagenesis, transferase/electron transport/DNA complex; HET: DNA 2DT 8FG; 2.10A {Enterobacteria phage T7} SCOP: c.55.3.5 e.8.1.1 PDB: 1skr_A* 1skw_A* 1sl0_A* 1sks_A* 1sl2_A* 1t7p_A* 1t8e_A* 1tk0_A* 1tk5_A* 1tk8_A* 1tkd_A* 1sl1_A* 1x9s_A* 1x9w_A* 1zyq_A* 2ajq_A*
Probab=33.25 E-value=88 Score=34.62 Aligned_cols=32 Identities=25% Similarity=0.256 Sum_probs=23.8
Q ss_pred HHHHHHHHHHhcCCceEEeecccCCChHHHHHHH
Q psy12447 361 LLDKWSAFIRELDPDIFTGYNIQNFDFPYLINRA 394 (551)
Q Consensus 361 LL~~f~~~i~~~dPDii~GyNi~~fdl~yL~~R~ 394 (551)
.+..|..++. .-..++|||...||+.+|...+
T Consensus 42 ~l~~L~~~l~--~~~~kV~HNa~kfD~~~L~~~~ 73 (698)
T 1x9m_A 42 YLDALEAEVA--RGGLIVFHNGHKYDVPALTKLA 73 (698)
T ss_dssp HHHHHHHHHH--TTCCEEESSTTTTHHHHHHHHH
T ss_pred HHHHHHHHHh--cCCeEEEcCChHHHHHHHHHhh
Confidence 5666777665 3346899999889999997654
Done!