Query psy1361
Match_columns 1274
No_of_seqs 397 out of 1500
Neff 5.3
Searched_HMMs 46136
Date Fri Aug 16 15:28:58 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1361.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1361hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0970|consensus 100.0 1E-256 3E-261 2261.7 78.3 1134 41-1235 4-1429(1429)
2 TIGR00592 pol2 DNA polymerase 100.0 2E-147 5E-152 1423.0 70.1 886 77-1012 1-1172(1172)
3 PTZ00166 DNA polymerase delta 100.0 1.9E-96 4E-101 938.2 55.0 521 560-1158 489-1028(1054)
4 cd05534 POLBc_zeta DNA polymer 100.0 9.4E-90 2E-94 812.8 38.3 414 577-1018 1-449 (451)
5 cd05532 POLBc_alpha DNA polyme 100.0 5.2E-89 1.1E-93 797.7 37.0 398 621-1029 3-400 (400)
6 cd05533 POLBc_delta DNA polyme 100.0 3.3E-86 7.2E-91 772.2 36.5 374 625-1014 2-392 (393)
7 KOG0969|consensus 100.0 2.3E-85 4.9E-90 766.4 36.0 526 560-1158 497-1039(1066)
8 cd05536 POLBc_B3 DNA polymeras 100.0 3.2E-81 7E-86 725.8 36.2 369 624-1022 2-370 (371)
9 KOG0968|consensus 100.0 4.7E-82 1E-86 758.1 28.2 524 560-1148 895-1450(1488)
10 COG0417 PolB DNA polymerase el 100.0 7.8E-80 1.7E-84 771.5 39.7 416 560-1017 357-775 (792)
11 PF00136 DNA_pol_B: DNA polyme 100.0 2.1E-80 4.5E-85 739.3 24.0 437 577-1032 1-465 (466)
12 PHA03036 DNA polymerase; Provi 100.0 3.8E-79 8.3E-84 757.0 35.9 426 560-1012 482-986 (1004)
13 PRK05761 DNA polymerase I; Rev 100.0 2.1E-78 4.4E-83 755.5 39.4 426 560-1022 346-775 (787)
14 PRK05762 DNA polymerase II; Re 100.0 2.5E-78 5.5E-83 758.5 38.1 397 560-1023 355-779 (786)
15 cd05537 POLBc_Pol_II DNA polym 100.0 6.9E-77 1.5E-81 688.2 33.1 344 625-1014 2-370 (371)
16 cd05530 POLBc_B1 DNA polymeras 100.0 4.4E-75 9.6E-80 672.0 34.3 359 623-1012 10-371 (372)
17 cd00145 POLBc DNA polymerase t 100.0 7.4E-73 1.6E-77 645.7 32.6 321 625-1012 2-323 (323)
18 cd05538 POLBc_Pol_II_B DNA pol 100.0 1.2E-72 2.6E-77 647.9 32.3 338 625-1010 2-344 (347)
19 PHA02528 43 DNA polymerase; Pr 100.0 1.3E-72 2.8E-77 705.0 32.7 498 444-1021 257-872 (881)
20 cd05531 POLBc_B2 DNA polymeras 100.0 1.2E-70 2.7E-75 632.7 31.8 340 624-1014 3-352 (352)
21 cd05535 POLBc_epsilon DNA poly 100.0 1.1E-53 2.4E-58 505.3 30.2 309 688-1011 219-613 (621)
22 PHA03334 putative DNA polymera 100.0 1.7E-43 3.6E-48 437.8 21.8 301 572-886 580-997 (1545)
23 PF08996 zf-DNA_Pol: DNA Polym 100.0 1.6E-41 3.5E-46 360.7 9.5 173 1053-1234 5-188 (188)
24 smart00486 POLBc DNA polymeras 100.0 5E-40 1.1E-44 388.0 19.6 226 560-793 227-470 (471)
25 PHA02523 43B DNA polymerase su 100.0 2.1E-37 4.5E-42 346.9 17.5 292 722-1026 37-386 (391)
26 KOG1798|consensus 100.0 2.6E-31 5.7E-36 326.0 19.1 443 560-1027 456-1142(2173)
27 PHA02524 43A DNA polymerase su 99.9 3.6E-23 7.9E-28 245.6 11.1 135 560-715 331-479 (498)
28 PF12254 DNA_pol_alpha_N: DNA 99.9 1.4E-23 3.1E-28 186.7 4.4 64 61-124 1-67 (67)
29 PHA02563 DNA polymerase; Provi 99.7 1.1E-16 2.4E-21 195.4 8.9 206 623-860 235-543 (630)
30 PF03104 DNA_pol_B_exo1: DNA p 99.3 4.4E-13 9.5E-18 152.6 -2.4 135 412-555 3-141 (325)
31 TIGR00592 pol2 DNA polymerase 98.8 2E-10 4.3E-15 151.5 -3.4 165 562-738 433-620 (1172)
32 PF08490 DUF1744: Domain of un 97.9 0.00014 2.9E-09 86.8 13.7 262 560-840 126-396 (396)
33 PHA02735 putative DNA polymera 96.9 0.0037 8E-08 73.1 10.0 44 624-669 270-313 (716)
34 KOG1798|consensus 94.3 0.97 2.1E-05 60.5 16.5 106 735-840 1761-1868(2173)
35 PF03175 DNA_pol_B_2: DNA poly 83.8 0.36 7.7E-06 59.1 0.3 34 623-657 203-236 (459)
36 PHA03144 helicase-primase prim 82.3 37 0.00081 44.0 16.7 220 631-918 401-639 (746)
37 PF03175 DNA_pol_B_2: DNA poly 81.8 0.04 8.8E-07 67.2 -8.9 45 688-745 329-373 (459)
38 PHA03181 helicase-primase prim 81.6 43 0.00094 43.4 16.8 223 631-917 410-652 (764)
39 PF14205 Cys_rich_KTR: Cystein 81.4 1.3 2.8E-05 39.0 2.7 34 1131-1166 2-40 (55)
40 PHA03140 helicase-primase prim 67.4 1.2E+02 0.0027 39.5 15.7 186 631-878 408-613 (772)
41 PRK11702 hypothetical protein; 55.7 7.2 0.00016 39.1 1.9 62 43-123 2-66 (108)
42 COG3623 SgaU Putative L-xylulo 37.2 52 0.0011 37.4 5.0 62 717-781 52-113 (287)
43 PRK06266 transcription initiat 36.5 59 0.0013 35.5 5.3 52 1112-1166 92-147 (178)
44 PRK14715 DNA polymerase II lar 32.6 1.2E+02 0.0026 42.0 8.0 96 1121-1234 1530-1625(1627)
45 PRK14714 DNA polymerase II lar 27.9 1.5E+02 0.0033 41.0 7.8 95 1121-1232 1241-1335(1337)
46 TIGR00373 conserved hypothetic 27.6 1.2E+02 0.0026 32.4 5.8 51 1112-1165 84-138 (158)
47 PRK04023 DNA polymerase II lar 26.7 2E+02 0.0044 39.0 8.4 95 1121-1232 1025-1119(1121)
48 PF08988 DUF1895: Protein of u 23.8 1.9E+02 0.0041 27.0 5.5 40 694-734 17-60 (68)
49 PRK05762 DNA polymerase II; Re 22.8 85 0.0018 41.7 4.3 127 381-537 3-131 (786)
50 PF14260 zf-C4pol: C4-type zin 21.8 93 0.002 28.6 3.2 40 1095-1142 13-52 (73)
No 1
>KOG0970|consensus
Probab=100.00 E-value=1.2e-256 Score=2261.72 Aligned_cols=1134 Identities=41% Similarity=0.669 Sum_probs=923.4
Q ss_pred ccccccchhcccchhhHHHHHHHHHHhcCCCcceeceeccccccccccChHHHHHHHHhhccCCceEeCCCccccccCcc
Q psy1361 41 KMEGGRAKRQKIDKTNKFAAFQKLKDLKGQGVKHKYEFTADENVYEEVSEKEYTERVLKRQEDDWIDDDGGDGYVEDGRE 120 (1274)
Q Consensus 41 ~~~~~R~rr~~~~k~gr~aALe~LKa~RG~g~k~~yeVee~~~VYdEVDE~eY~kiVr~R~~DDFIVDDdG~GYvDdGrE 120 (1274)
|-+++|+||.+++|++|++|||+||+|||. ..+|+|+++++|||+|||+||+||||+||.|||||||||.||||+|+|
T Consensus 4 s~ses~~rR~~~~ks~r~~alerLk~ar~s--~~~Ye~e~~~~vYD~VDeeEY~k~v~~r~~DdfvVdDdG~GYvd~G~d 81 (1429)
T KOG0970|consen 4 SESESRRRRSRGSKSSRLAALERLKAARTS--GDKYEVEEVEDVYDTVDEEEYRKIVRQRLDDDFVVDDDGVGYVDNGVD 81 (1429)
T ss_pred CCcchhhhhhccCchhhHHHHHHHHHhhcc--CcccccccccccccccCHHHHHHHHHHHhcCCeEEeCCCccccccCcc
Confidence 344889999999999999999999999977 689999999999999999999999999999999999999999999999
Q ss_pred ccCCCCccch--hhhh-h-hhh---hhccccCCCCCCccchHHhhhcCCCCcccccccCCCchHHHHHHhhcccCCCC--
Q psy1361 121 IFDDDIEDVP--QKKE-K-HDK---RKKNKNIQNPNAKGDIQKLLANMPVKKKKKEEVQLNNDDVLADLLSEVNTTIA-- 191 (1274)
Q Consensus 121 ifDdd~edd~--~~~~-k-~k~---~kK~kkk~~~~~~~~I~~~F~~~~~Kk~~~~~~~~~~Dd~L~diL~e~~~~~~-- 191 (1274)
+||.+.++++ ..++ | ||+ .||+.+..+.+...+|+++|.+.++|+..+.+..+++|+||+||||+++.+++
T Consensus 82 eeD~~~~s~ed~~nek~k~gk~~kk~Kr~~k~~~~t~~~~~kk~~~~~~aka~~d~k~~~k~d~~~~diLg~~~e~~~e~ 161 (1429)
T KOG0970|consen 82 EEDWSSPSDEDTGNEKKKGGKKPKKDKRKEKDHPVTQMLSTKKSNSALVAKATADQKKSVKIDNFMADILGSIDEEEAEE 161 (1429)
T ss_pred hhhccCCCccccccccccccccccchhhhhccccccccccccccchhhhhhhhccccccccchhhHHHHhhhcccccccc
Confidence 7775322222 2221 1 222 22223333677889999999999999888888899999999999999997754
Q ss_pred -c-----------ccccCCCccccccCCCCCCCCChhhhhhccCCCcccccccc----CCCCCCCCCcccccccCcchhh
Q psy1361 192 -P-----------TLKLNTKTNEIVIPKEEPPAPTAKEYLANFSKPIKVEKKIE----KPIKKEPSPLKDEIKSNDSVME 255 (1274)
Q Consensus 192 -~-----------~~~~~~~~~~~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~ 255 (1274)
+ ..+||+...+. ++++.+.+ ..++....+... .....+.+....++-..+ ..+
T Consensus 162 ~~~~~~i~~~~~s~~~rk~~~~a~-n~~~~~~~---------~~~~~kki~~~~s~~ke~~s~Pvp~~~~~~~~~d-~~~ 230 (1429)
T KOG0970|consen 162 PEKLKKIRPATPSSPKRKFDSAAK-NDSLVPVA---------IAKKKKKIAEDSSSDKERESSPVPTKRADFYIPD-VQP 230 (1429)
T ss_pred ccccccccCCCCcccccccccccc-CCccCccc---------ccccccccCCCCCcCCCCCCCCCCchhhhccCCC-ccc
Confidence 1 11222222221 22221111 011100000000 000000000100100000 001
Q ss_pred hhhhhhhcCCCCCCCcc-cccccccccccccccccCcchhhhhhhhhHhhhcccccccccccccccccccccccCCCCCC
Q psy1361 256 VEMNVAEQSKEEPVDDG-LWEQMQIDDWDNSQQTQDVLPEQAKVELQIEAIESQSIEEKVDVTNVESVSSAVELSTSPPP 334 (1274)
Q Consensus 256 ~~~~~~~~~~~~~~~~~-~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 334 (1274)
...+..+....+++++. ++.++..++.. ..+. ....+......+|....... ...++..+|
T Consensus 231 ~~~e~e~~~~ate~e~~e~~~pl~~ee~~-~die-et~~~~~~~~eeV~~~~~a~--------------~~~~s~~s~-- 292 (1429)
T KOG0970|consen 231 EADEVENPVKATEFEDTELENPLADEEDI-EDIE-ETIAMKKLSMEEVTDTARAN--------------KDTISKLSP-- 292 (1429)
T ss_pred ccccccCcccccccccccccccccccccc-ccHH-HHHHhhhHHHHHHhhhhhcc--------------ccchhhcCC--
Confidence 11111111112333222 44443321110 0000 00000000000000000000 000000111
Q ss_pred cccccccccchhhHhhhcCCCCCCCcccccccCCCCCcccccc-CCceeEEEeeehhccccCCCCEEEEEeeeeecCCCc
Q psy1361 335 QVVEKKEHKCAEWEAIQTEPSTSEPQVHSRTADDSLPLATDHE-NKKVFRMFFLDAFEDIYKQPGTVYLFGKVFVKENNS 413 (1274)
Q Consensus 335 ~~~~~~~~~~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~l~fyw~d~~E~~~~~~g~~~lfGKv~~~~~~~ 413 (1274)
..+ ++|..-...+..+.+ ..++++.+.++++...+ ++++|+|||||||||+++.||+|||||||+. ++.+
T Consensus 293 -----~s~--~~~~~di~~~~~~~~-~~~~~~~s~~~~~~~~D~e~~~l~f~wlDaYee~~~~~g~l~LFGKVk~-~~~t 363 (1429)
T KOG0970|consen 293 -----GSP--PGEPEDIKGLGPSNS-LQVDTDSSSGVLVKPEDVEDGSLRFFWLDAYEEVYKAPGTLYLFGKVKL-SGDT 363 (1429)
T ss_pred -----CCC--CcChhhhhccCcccc-hhhccchhhcccccccccccceEEEEEehhhHHHhCCCceEEEEeeeec-cCCC
Confidence 111 223222222211111 34455556667776665 7999999999999999999999999999998 6899
Q ss_pred eEEEEEEEeceeeeEEEecCCC------CcCCCCccCHHHHHHHHHH-HHhhcCCCceeeeeeeccccccCCCCCCccce
Q psy1361 414 HSSCCVIVQNIDRKIYLLPRSE------HLKTKEPVSIAQVYSEFDQ-IATQYKILDFKSRKIEKKYAFNLPGVPDLSEY 486 (1274)
Q Consensus 414 ~~Sccv~v~~~~R~~y~lPr~~------~~~~~~~~~~~dv~~e~~~-~~~~~~i~~~~~k~v~r~yaf~~~~vp~~~~y 486 (1274)
|+||||+|+||+|+||||||+. ++++ .++++.|||+||.+ ++++++++.||+|+|+++|||+.||||..++|
T Consensus 364 ~~Sccv~V~ni~R~lyflPR~~~l~~~~~e~~-~~~s~~dv~~E~~~~l~~k~~~~~fk~k~v~~~yafe~~dvp~~~dy 442 (1429)
T KOG0970|consen 364 YVSCCVVVKNICRVLYFLPRPIKLSAAVGEDS-IPESKRDVYKEVGSLLSNKLGLTEFKSKPVKKNYAFELPDVPMKSDY 442 (1429)
T ss_pred ceEEEEEEcCeeeEEEecccccccccccCCcc-chhhHHHHHHHHHHHHHhhhhhhHhhhhhhhhhhccccCCCCCCCcc
Confidence 9999999999999999999985 4444 67899999999998 67889999999999999999999999999999
Q ss_pred eeEeeccCCCCCCCCCCCCceeeeccCchhHHHHHHhhccccCCCeeeccccccCCCccceeEEEEEeccccc-------
Q psy1361 487 LEVRYSAKCPALPSDLSGDTFSHVFGTKSSFLENLLLERKIKGPSWLEFPEAEKFPSRISWCKYEVQCNQMEK------- 559 (1274)
Q Consensus 487 l~v~y~~~~p~lp~~~~G~tfs~vfgt~~s~~E~fll~rki~GP~wl~i~~~~~~~~~~swck~e~~~~~~~~------- 559 (1274)
|||.||+..|.||+|++|.||+||||++|++||+|++.|||||||||+|.++.....++|||++||.+.+|++
T Consensus 443 LeV~y~~~~p~LP~Dlkgdsfshvfgt~tn~lE~fll~rKimGPCWlkv~~~s~~~~~~SwCk~Ev~v~sP~nI~~~~~~ 522 (1429)
T KOG0970|consen 443 LEVLYSYETPKLPSDLKGDSFSHVFGTNTNPLERFLLSRKIMGPCWLKVKGYSDPPRNASWCKVEVTVKSPQNITVVCSK 522 (1429)
T ss_pred eEEeccccCCCCccccccchHHHHhccCccHHHHHHHhccccCceEEEeecCCCCCCCccceeeEEEecCCcceEEeecC
Confidence 9999999999999999999999999999999999999999999999999999977899999999999999977
Q ss_pred --------------------------------------------------------------------------------
Q psy1361 560 -------------------------------------------------------------------------------- 559 (1274)
Q Consensus 560 -------------------------------------------------------------------------------- 559 (1274)
T Consensus 523 ~a~~Ppl~llsL~i~T~~N~k~~~~Eiv~is~l~~~~~~id~p~p~~~~~~~~c~l~rP~~~~fP~g~~ela~~k~~~v~ 602 (1429)
T KOG0970|consen 523 KAPPPPLTLLSLNIRTSMNPKQNKNEIVMISMLCFHNFSIDKPAPAPAFPRHFCVLTRPPGTSFPLGLKELAKQKLSKVV 602 (1429)
T ss_pred CCCCCCeeEEEeeeeehhccccchhhhhhhhhhhcccccccCCCCCCcccCcceeEecCCCCcCCchHHHHHHhccCceE
Confidence
Q ss_pred --------------------------------------------------------------------------------
Q psy1361 560 -------------------------------------------------------------------------------- 559 (1274)
Q Consensus 560 -------------------------------------------------------------------------------- 559 (1274)
T Consensus 603 ~~~sErALLs~fla~~~~~dpD~iVgHn~~~~~l~VLl~R~~~~Kip~WS~IgRLrrS~~~kfg~~s~~~e~~~~aGRl~ 682 (1429)
T KOG0970|consen 603 LHNSERALLSHFLAMLNKEDPDVIVGHNIQGFYLDVLLSRLHALKIPNWSSIGRLRRSWPPKFGRSSSFGEFFIIAGRLM 682 (1429)
T ss_pred EecCHHHHHHHHHHHhhccCCCEEEEeccccchHHHHHHHHHHhcCcchhhhhhhhhccccccCCcccccccccccceEE
Confidence
Q ss_pred ---------------------------------------------------------------------------chhhh
Q psy1361 560 ---------------------------------------------------------------------------IRITN 564 (1274)
Q Consensus 560 ---------------------------------------------------------------------------~qLt~ 564 (1274)
+||||
T Consensus 683 CD~~~~a~~lik~~S~~LseL~q~~l~~eR~~i~~~~i~~~y~~s~~L~~ll~~~~~d~~~~l~i~~~l~~LpLs~qlTn 762 (1429)
T KOG0970|consen 683 CDLNLAARELIKAQSYSLSELSQQILKEERKEINANEIPKMYEDSKSLTYLLEHTITDAELILQIMFRLNALPLSKQLTN 762 (1429)
T ss_pred eehHHHHHhhhccccccHHHHHHHHHhhhcccCCHhHhhhhccChHHHHHHHHHHhHHHHHHHHHHHHhccchHHHHHHH
Confidence 89999
Q ss_pred ccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCccCcCccCCcccc--c--ccccCCCCCcccCCceeecccccccc
Q psy1361 565 VCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETG--E--ANKGKGRKKAAYSGGLVLEPKKGFYD 640 (1274)
Q Consensus 565 IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~~~~~~~~~~d~--~--~~~~~~~kk~~Y~GGlVlePk~GlYd 640 (1274)
|+||.|+|||+||||+||||+|||+||++|||+|||....+. .++.++ + +...+++++++|+||+||||+.|||+
T Consensus 763 IaGni~~RTL~G~RAeRnEylLLH~F~~~~fIvPDK~~ssk~-~~d~d~~~eg~d~~~~~KKk~kYaGGLVlePkkGlYe 841 (1429)
T KOG0970|consen 763 IAGNIWARTLQGGRAERNEYLLLHEFYKNGFIVPDKQNSSKA-QKDADETEEGADEPSKGKKKAKYAGGLVLEPKKGLYE 841 (1429)
T ss_pred HHhHHHHHHhhccchhhhhHHHHHHHHHCCccCCCccchhhh-hhhhhhhhccccccccccccccccCceeeccccchhh
Confidence 999999999999999999999999999999999999854332 222222 1 12236788899999999999999999
Q ss_pred eeEEEeeccccChhHHHHhccccccccccccCCCccccccccCCcccccCCCcHHHHHHHHHHHHHHHHHhcCCCCChHH
Q psy1361 641 KFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSDITTLCEYLPEHQVDTGILPSEIKKLVESRRQVKALMKQPNLSSDL 720 (1274)
Q Consensus 641 ~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~~~~~ip~~~~~~~~~~GILP~iL~~Lle~R~~vK~~mK~~~~~~~~ 720 (1274)
++|++||||||||||||+||||||||.+.. .+.+++|. +|.+...+||||++|+.||++|++||++||+. .+|++
T Consensus 842 ~~VLllDFNSLYPSIIQEyNICFTTv~~~~---~d~Dqlp~-lP~s~~~~GiLPr~l~~LVerRk~VK~lMK~~-~tp~~ 916 (1429)
T KOG0970|consen 842 KYVLLLDFNSLYPSIIQEYNICFTTVDRFS---VDSDQLPR-LPSSSSEQGILPRLLENLVERRKEVKKLMKQE-LTPEK 916 (1429)
T ss_pred heeEEEEccccchHHHHHhhheeeeccccc---cCcccCCC-CCCccccCCccHHHHHHHHHHHHHHHHHHhcC-CCHHH
Confidence 999999999999999999999999999842 23568998 99888999999999999999999999999995 89999
Q ss_pred HHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcCccceeccccceeeecCCCCHHHH
Q psy1361 721 LMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEVIYGDTDSLMISCNVNDYDSV 800 (1274)
Q Consensus 721 ~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g~~VIYGDTDSImI~~~~~d~eea 800 (1274)
+.||||||+|||||||||||||||++||||++|||++||.+||+||++|+++|++||++|||||||||||++|..|+++|
T Consensus 917 ~~q~DIRQqALKLTANSMYGCLGf~~SRFyAkpLAaLVT~KGReiLm~Tk~Lve~mnl~VIYGDTDSvMInTn~td~~~a 996 (1429)
T KOG0970|consen 917 RKQLDIRQQALKLTANSMYGCLGFVNSRFYAKPLAALVTYKGREILMNTKDLVEKMNLEVIYGDTDSVMINTNSTDYEEA 996 (1429)
T ss_pred HHhhhHHHHHHhhhhccchhhcccccchhhhhhHHHHHhhhhHHHHHHHHHHHHhcCeEEEEcCCceEEeeCCCccHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhcCccEEEEeeehhhHhhccccccceEEEeeecCCCceeeeeeeecceeecCChHHHHHHHHHHHHHH
Q psy1361 801 FKIGNQIKSECNKLYKQLELDIDGVYKYMLLLKKKKYAALSISKLSNGKMICSQEIKGVDVVRRDWSQLASEAGKFVISQ 880 (1274)
Q Consensus 801 ~kig~eI~~~VN~~~~~LeLe~E~vy~~lLLl~KKrYA~l~~~~~~dG~~~~~~evKGle~vRRD~c~l~K~~~~~vL~~ 880 (1274)
++||++|+++||++|+.||||+||||++|||++||||||+.+.++++| .+.+|+|||||||||||+|+|++++.||++
T Consensus 997 ~kig~~~k~~VNkrYk~LEIDiDgVfkrlLLlkKKKYAAL~l~~dgkg--~~~~E~KGLDmvRRDwc~Lake~g~~vLd~ 1074 (1429)
T KOG0970|consen 997 LKIGNEFKQAVNKRYKLLEIDIDGVFKRLLLLKKKKYAALTLNKDGKG--VERIEVKGLDMVRRDWCQLAKEIGKAVLDK 1074 (1429)
T ss_pred HHHHHHHHHHHHHHhhhheeehhHHHHHHHHHhhhhheeEEecCCCCC--ceeeeecccchhHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999876665 567999999999999999999999999999
Q ss_pred HHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcccceeeecccCCccccCCCCCchHHHHHHHHhhhCCCCCCCCC
Q psy1361 881 ILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTDRKALPHVQVALRLNNTNSKKLKQGD 960 (1274)
Q Consensus 881 ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK~pe~Y~d~~~~PHV~vAlrl~~~~G~~v~~Gd 960 (1274)
||++.+ +++++++||++|+++.++|++|.||+++|+|+++|+|+|++|++.+++|||+||+||++++++.+++||
T Consensus 1075 ILs~~~-----~ee~veaI~d~L~kI~~k~~~G~vpl~~fvI~k~LtK~Pe~Yp~~kslPhVqVALrm~~~G~~~~k~gD 1149 (1429)
T KOG0970|consen 1075 ILSDKS-----REEIVEAIHDELRKISEKLENGNVPLEKFVITKTLTKNPEAYPDGKSLPHVQVALRMNKRGKRKVKAGD 1149 (1429)
T ss_pred HHcCCC-----HHHHHHHHHHHHHHHHHHHhcCccchhheeeehhccCChhhCCCcccCcHHHHHHHHHHhcCcccccCC
Confidence 999999 999999999999999999999999999999999999999999999999999999999986669999999
Q ss_pred EEEEEEEe-CCCCCcccccccChHHHhhCCC-ccccHHHHHhccchHHHHHhccccCCCChhHHHHHhCCcccchhhhcc
Q psy1361 961 TISYIICE-DGTSEAATQRAYNIEELKNNSK-LKIDVNYYLSQQIHPVVTRLLEPIEGTDAVRIAECLGLDTSLYRSQIK 1038 (1274)
Q Consensus 961 ~I~YVI~~-~g~~~~~~~RA~~p~e~~~~~~-l~iD~eYYl~kQI~Ppv~Rl~~pi~G~d~~~ia~~Lgld~~~y~~~~~ 1038 (1274)
+|+||||+ +|...++++|||||+|+..+++ |.||+.|||+|||||||+|||+||+|+|+++||+||||||++||.+..
T Consensus 1150 vV~yVI~~~D~~~~~As~RAyh~~e~~~~~~~l~iD~~YYLa~QIhPvV~Rlve~Iegt~a~riae~LGlDstkyr~~~~ 1229 (1429)
T KOG0970|consen 1150 VVPYVICKEDGIDNPASERAYHPDEVMPDEDNLAIDYNYYLAQQIHPVVERLVEPIEGTDAVRIAECLGLDSTKYRRHEG 1229 (1429)
T ss_pred eEEEEEecCCCCCCchhhcccChHhhCccCcceeechhhHhhhhcchhHHHHhhhhcccCHHHHHHHhCCCchhhhhhhc
Confidence 99999994 6777788899999999987544 999999999999999999999999999999999999999999998764
Q ss_pred cccccccccccc-CC-cchhhhcccCcceeeecCCccCCCcccccCcccc-CCCCcccc-cccCCCCCCCCCCCCCHHHH
Q psy1361 1039 ESIQQSEENILG-VG-EAEEVKYQFCDKFEFTCMNPSCKQVNTVEAPTRL-STHGVVFV-LDECINPECKVPPYTYLPHL 1114 (1274)
Q Consensus 1039 ~~~~~~~~~~~~-~~-~~~~~~f~~~~~~~~~C~~~~C~~~~~~~~~~~~-~~~~~~~~-~~~C~~~~C~~~~~~~~~~i 1114 (1274)
.+.+ .+...+ .+ +++.++|++|++|.+.|| .|++++.+.++|.. +.....+. .+.|. .|+..++.+.++|
T Consensus 1230 ~q~~--~~a~s~~~s~~td~~~~~~ce~~~l~Cp--tC~~~~~~~~~~~~~s~~~~~~~l~~~Ca--~Cq~~~~~~~~~i 1303 (1429)
T KOG0970|consen 1230 NQKE--NSALSPDESTLTDVERFKDCEPLTLRCP--TCSTENSRAFAVDKVSEMSRKEVLSLYCA--RCQQEPIESPASI 1303 (1429)
T ss_pred chhh--hhhhCCCcchhcchhhhccccceEEECC--CCCCcccccccccCcccchhhhHhhhcCh--hhhcCCccchHHH
Confidence 2222 222222 33 789999999999999999 99999999988873 33333344 45587 6999988889999
Q ss_pred HHHHHHHHHHHHHhhccceeeeCCCCCCCcccccccccC--CCCCCCcccceeeeecChHHHHHHHHHHHHhcchhhhhh
Q psy1361 1115 INKLSQDMNKYIVKYYEGWLKCEDPGCSDLTRRCPLGLK--TRLCTTCHKYKLHRVYTELQLYQQLSFFHYICDITKALT 1192 (1274)
Q Consensus 1115 ~nql~~~ir~~i~~yy~~~~~Cdd~~C~~~tr~~~~~~~--~~~c~~C~~g~~~~~ys~~~ly~qL~y~~~lfd~~~~~~ 1192 (1274)
.||+.++||.||++||.|||+|||++|+++||++++++. ||.|++|..|.|+++||+++|||||+||++|||.+ |+.
T Consensus 1304 ~nq~~~qir~fV~~yy~g~lvCdd~tC~~~TR~~sv~~~R~g~~C~~C~~g~l~r~Ytd~~LY~Ql~y~r~i~d~e-al~ 1382 (1429)
T KOG0970|consen 1304 TNQVERQIRCFVSLYYLGWLVCDDPTCGFRTRQQSVFGKREGPLCPGCRIGVLRREYTDKQLYNQLCYFRYILDCE-ALE 1382 (1429)
T ss_pred HHHHHHHHHHHHHHHhhhheeecCcccccccccceeeccccCccCccccccchhhhhhHHHHHHHHHHHHHHHhhH-HHh
Confidence 999999999999999999999999999999999999998 89999997799999999999999999999999999 888
Q ss_pred cCCCCC----ccCChhHHHHHHHHHHHHHHHHHhcCCceechhhhhh
Q psy1361 1193 KSDTPS----IKFDSETYMGYCKMKQHVERFLESSAYNIVDLKKLFS 1235 (1274)
Q Consensus 1193 ~~~~~~----~~~~~~~~~~~~~~~~~v~~~l~~~~~~~V~l~~lf~ 1235 (1274)
++.... ..+.++.+.+|+.+...|++||++|||+||||++||.
T Consensus 1383 k~t~~~~~~k~~~~p~~~~ayn~l~~~i~~~l~~~ay~~vdls~iFa 1429 (1429)
T KOG0970|consen 1383 KMTLAHRLQKEFLTPESIKAYNRLARTIEKYLNKNAYRYVDLSKIFA 1429 (1429)
T ss_pred hhccchhccccccCHHHHHHHHHHHHHHHHHHhhccceEechHhhcC
Confidence 776533 2567777788999999999999999999999999994
No 2
>TIGR00592 pol2 DNA polymerase (pol2). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=100.00 E-value=2.2e-147 Score=1422.99 Aligned_cols=886 Identities=45% Similarity=0.707 Sum_probs=680.5
Q ss_pred eeccccccccccChHHHHHHHHhhccCCceEeCCCccccccCccccCCCCc-cchhhhhhhh--hhhccccCC--CCCCc
Q psy1361 77 EFTADENVYEEVSEKEYTERVLKRQEDDWIDDDGGDGYVEDGREIFDDDIE-DVPQKKEKHD--KRKKNKNIQ--NPNAK 151 (1274)
Q Consensus 77 eVee~~~VYdEVDE~eY~kiVr~R~~DDFIVDDdG~GYvDdGrEifDdd~e-dd~~~~~k~k--~~kK~kkk~--~~~~~ 151 (1274)
.|+++++|||||||+||+||||+|++|||||||||.||||||||||||||| .+..+. +++ +++|+.++. +++++
T Consensus 1 ~~~~~~~vyeeVde~eY~k~v~er~~dd~i~dd~g~gyve~gre~f~de~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~ 79 (1172)
T TIGR00592 1 MVEDTDYIYEDVDEEEYSKRVQEKPIDDIFVKDDGEGYVEDGREFFPDEDDILDLDKD-DGSAAEAKKKDKENHKKVTKP 79 (1172)
T ss_pred CcccccchhhhccHHHHHHHHhccccCCeEEeCCCceeeccCcccccccchhcccccc-ccccccccccchhccCcCCCc
Confidence 367899999999999999999999999999999999999999999987544 222221 222 112222222 57899
Q ss_pred cchHHhhhcCCCCcccccccCCCchHHHHHHhhcccCCCC--c--------ccccCCCcccc---ccCCCCCC-CC----
Q psy1361 152 GDIQKLLANMPVKKKKKEEVQLNNDDVLADLLSEVNTTIA--P--------TLKLNTKTNEI---VIPKEEPP-AP---- 213 (1274)
Q Consensus 152 ~~I~~~F~~~~~Kk~~~~~~~~~~Dd~L~diL~e~~~~~~--~--------~~~~~~~~~~~---~~~~s~~~-~~---- 213 (1274)
++|++||+++++||++++++++++||+|+|||||++++.. + ..+.+.....+ ++.+.... ..
T Consensus 80 ~~~~~~f~~~~~~k~~~~k~~~~~d~~l~dil~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~v~~~~~~~~~~~~~~~~~ 159 (1172)
T TIGR00592 80 NNIKAVRIACAPKKKKDRKKSLGKDGLLGDILQELNKTETAQRKITPRLVSVPKLKFSSPADVPAINDFSNHHPAVVDIV 159 (1172)
T ss_pred cchhheeeccccccccccccccCcchhHHHHHHHhhhccccccccccCcccccccccccccchhhccccccccccccccc
Confidence 9999999999999888888999999999999999997532 1 00111111111 12221110 00
Q ss_pred ------ChhhhhhccCCCccccccccCCCCCCCCCcccccccCcchhhhhhhhhhcCCCC--CC---Ccc-ccccccccc
Q psy1361 214 ------TAKEYLANFSKPIKVEKKIEKPIKKEPSPLKDEIKSNDSVMEVEMNVAEQSKEE--PV---DDG-LWEQMQIDD 281 (1274)
Q Consensus 214 ------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~---~~~-~d~~~~~~~ 281 (1274)
....|+.+...|.. . ..............++.- ...+-.++-.+.. ++ ++. +|..++.+.
T Consensus 160 e~di~~~~r~~~d~~~~p~~--~--~~~~~~~~~~~~~~~p~~----~~~sfdiE~~~~~g~~~fp~~~~~~D~ii~is~ 231 (1172)
T TIGR00592 160 KKAIPVSTRYLLEKILIPVP--L--KRAEFAGGDVQMEGDPEL----KLASFDIETYFHDGKDFFPGDENPADEEIMIST 231 (1172)
T ss_pred cCCCCccccccccccccCCC--C--CccccccccccccCCCcc----cccccccccccccccccCccccccccccccccc
Confidence 11122222222200 0 000000000000000000 0000000000000 00 000 111111000
Q ss_pred ccccccccCcchhhhhhhhhHhhhcccccccccccccccccccccccCCCCCCcccccccccchhhHhhhcCCCCCCCcc
Q psy1361 282 WDNSQQTQDVLPEQAKVELQIEAIESQSIEEKVDVTNVESVSSAVELSTSPPPQVVEKKEHKCAEWEAIQTEPSTSEPQV 361 (1274)
Q Consensus 282 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~W~~~~~~~~~~~~~~ 361 (1274)
.+ +..... ....++..++.-.. .+..+ ...+.+.....+.......|.-+.+. +.+ ..+
T Consensus 232 ----~~------~~~~~~-~~~~~~~~~~~~~~-~~~~~-------~~~~~v~~~~~E~~~L~~f~~~i~~~-dpd-ii~ 290 (1172)
T TIGR00592 232 ----TP------VIAKQW-DYESEPEARVVTWK-KPDKP-------TTGSYVESVSEEISMIKRFWDVIDQE-DTD-VEI 290 (1172)
T ss_pred ----cc------cccccc-ccCCCccchhhhcc-Ccccc-------CCCccceeccchHHHHhhHHHHHhhc-Ccc-hhc
Confidence 00 000000 00000000000000 00000 00001111111112223346666543 222 245
Q ss_pred cccccCCCCCccccccCCceeEEEeeehhccccCCCCEEEEEeeeeecCCCceEEEEEEEeceeeeEEEecCCC------
Q psy1361 362 HSRTADDSLPLATDHENKKVFRMFFLDAFEDIYKQPGTVYLFGKVFVKENNSHSSCCVIVQNIDRKIYLLPRSE------ 435 (1274)
Q Consensus 362 ~~~~~~~~~~~~~~~~~~~~l~fyw~d~~E~~~~~~g~~~lfGKv~~~~~~~~~Sccv~v~~~~R~~y~lPr~~------ 435 (1274)
..+.+..++|... +.+.++||| ||||++.+.+|++|||||. ..++|||+.|.|++|++|+||++.
T Consensus 291 gYNi~~FD~pyl~---~~~~~~~~~-da~~dr~~~~G~~~lfGr~-----~~~~s~~~~v~g~~R~~~~l~~~Grv~~D~ 361 (1172)
T TIGR00592 291 TVNGDNFDLVYLA---DRQVFQFYW-DAYEDPAEKLGVVLLFGRD-----VDHVSPCVQVKGINRDLFFLPREGKIDFDL 361 (1172)
T ss_pred ccccccCccceec---CCceEEeeH-HhhhHHhhCCCeEEEeccc-----CCceeEEEEECCeeeeeEEeeccccccccc
Confidence 5666777788763 267888888 9999988899999999993 248999999999999999999985
Q ss_pred CcCCCCccCHHHHHHHHHH-HHhhcCCCceeeeeeeccccccCC--CCCCccceeeEeec-----cCCCCCCCCCCCCce
Q psy1361 436 HLKTKEPVSIAQVYSEFDQ-IATQYKILDFKSRKIEKKYAFNLP--GVPDLSEYLEVRYS-----AKCPALPSDLSGDTF 507 (1274)
Q Consensus 436 ~~~~~~~~~~~dv~~e~~~-~~~~~~i~~~~~k~v~r~yaf~~~--~vp~~~~yl~v~y~-----~~~p~lp~~~~G~tf 507 (1274)
...+...+++++++.|+.. ++.+.+++.|++|.|.++|||+.+ ++|...+|++|.|+ +..|.+|.++.|.+|
T Consensus 362 ~~~~~~~~~l~~y~le~vs~~~lg~~k~dv~~k~I~~~~~~~~~~~~v~y~~~~lkv~y~l~~~~~~l~~l~~~~~g~~~ 441 (1172)
T TIGR00592 362 GKVTRRTINLPDYYLEFVSELALGYKKEKFRAKPIAKKYEFEAPDIDAPYSSEYLEVTYELGKEFAPMEALPSDLKGQTF 441 (1172)
T ss_pred cchhcccccHHHHHHHHHHHHHhhcCcCceeeEEehhhccCCCCccCCcCCcceEEEEEccCccchhhhhhhhhccCCcc
Confidence 4567778999999999877 788899999999999999999998 89999999999999 678899999999999
Q ss_pred eeeccCchhHHHHHHhhccccCCCeeeccccccCCC-ccceeEEEEEeccccc---------------------------
Q psy1361 508 SHVFGTKSSFLENLLLERKIKGPSWLEFPEAEKFPS-RISWCKYEVQCNQMEK--------------------------- 559 (1274)
Q Consensus 508 s~vfgt~~s~~E~fll~rki~GP~wl~i~~~~~~~~-~~swck~e~~~~~~~~--------------------------- 559 (1274)
+||||++++.+|+|+++|+|||||||.+.++..... +.|||++|+.+..+.+
T Consensus 442 ~~vf~~n~g~~erfll~rki~gp~WL~i~~p~~~~~~~~S~c~yEga~v~~p~v~~g~~~~~pPl~vLdFsi~SlyPsi~ 521 (1172)
T TIGR00592 442 WHVFGSNTGNLERFLLLRKIKGPCWLAVKGPDELEYPRRSWCKYEGGYVKPPNVEKGLDKTPPPLVVLDFSMKSLNPSII 521 (1172)
T ss_pred hheeccCHHHHHHHHhcCCCCCCceEEeCCCcccCcCCccccceEEEEecCccccccccCCCCCeEEEEeeeEEecCccc
Confidence 999999999999999999999999999999987654 4899999876654431
Q ss_pred -----------------------------------c--------------------------------------------
Q psy1361 560 -----------------------------------I-------------------------------------------- 560 (1274)
Q Consensus 560 -----------------------------------~-------------------------------------------- 560 (1274)
+
T Consensus 522 ~~~nl~iS~~v~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~L~~~~sEr~lL~~fl~~~~~~DPD 601 (1172)
T TIGR00592 522 RNEIVSIPDTLHREFALDKPPPEPPYDVHPCVGTRPKDCSFPLDLKGEFPGKKPSLVEDLATERALIKKFMAKVKKIDPD 601 (1172)
T ss_pred cCceEEEEEEEeecccccCCCCCCccceEEEEEEccCCCCCCchhhhhhhccCCcEEEEecCHHHHHHHHHHHHHhcCCC
Confidence 1
Q ss_pred --------------------------------------------------------------------------------
Q psy1361 561 -------------------------------------------------------------------------------- 560 (1274)
Q Consensus 561 -------------------------------------------------------------------------------- 560 (1274)
T Consensus 602 ii~g~n~~qfdlkvl~nR~~~l~i~~~~~~Gr~~~~~~~~~~~~~~~~Grl~~D~~~~~k~~~~~~sy~L~~v~~~~L~~ 681 (1172)
T TIGR00592 602 EIVGHDYQQRALKVLANRINDLKIPTWSKIGRLRRSPKFGRRFGERTCGRMICDVEISAKELIRCKSYDLSELVQQILKT 681 (1172)
T ss_pred EEEEEcccCccHHHHHHHHHHcCCCcccccCccccCCCccccccceECCEEEEEHHHHHHHHhCcCCCCHHHHHHHHhCC
Confidence
Q ss_pred ------------------------------------------------hhhhccCchhHhHhcCchhHHHHHHHHHHHhc
Q psy1361 561 ------------------------------------------------RITNVCGNVLSRTLMGGRSERNEFLLLHAFHE 592 (1274)
Q Consensus 561 ------------------------------------------------qLt~IaGn~~srtl~ggraeR~E~LLLhef~~ 592 (1274)
|||+|+|++|+|+++|||++||||||||+||+
T Consensus 682 ~k~~~~~~~i~~~~~~~~~~~~~~~y~~~Da~l~~~L~~~l~~l~l~~~lt~i~G~~~~~~l~~~~~~r~e~lll~~~~~ 761 (1172)
T TIGR00592 682 ERKVIPIDNINNMYSESSSLTYLLEHTWKDAMFILQIMCELNVLPLALQITNIAGNIMSRTLMGGRSERNEFLLLHAFYE 761 (1172)
T ss_pred CCcccCHHHHHHHHhCcHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhCCcHHhccCCchHHHHHHHHHHHHHh
Confidence 46789999999999999999999999999999
Q ss_pred CCEeecCCccCcCc-cCCcccccccccCCCCCcccCCceeecccccccceeEEEeeccccChhHHHHhcccccccccccc
Q psy1361 593 KSYVLPDKQYGKNK-KEGEETGEANKGKGRKKAAYSGGLVLEPKKGFYDKFIILMDFNSLYPSIIQEYNICFTTIPVRML 671 (1274)
Q Consensus 593 ~~yIlPdk~~~~~~-~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~GlYd~~VlvLDFnSLYPSII~~yNIcptTv~~~~~ 671 (1274)
+|||+|++....+. ..++++++.+.....++.+|+||+|++|++|||++||++|||||||||||++||||||||+...+
T Consensus 762 ~~~i~P~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~Gg~V~eP~~G~y~~~V~~lDF~SLYPSIi~~~Nic~~t~~~~~~ 841 (1172)
T TIGR00592 762 NNYIVPDKQIFRKQQKLGDEDEEIDGYKKGKKAAYAGGLVLEPKVGLYDKYVLLMDFNSLYPSIIQEFNICFTTVQQKVD 841 (1172)
T ss_pred CCEEccCccccccccccccccccccccccccccCcCCCeEecCCCCcccCCEEEEEcCCccHHHHHHhCcCccccCCCCc
Confidence 99999998754321 11222221121222356899999999999999999999999999999999999999999987543
Q ss_pred CCCccccccccCCcccccCCCcHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHhhccccccccCCCCCcCCCCC
Q psy1361 672 QDSDITTLCEYLPEHQVDTGILPSEIKKLVESRRQVKALMKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFA 751 (1274)
Q Consensus 672 ~~~~~~~ip~~~~~~~~~~GILP~iL~~Lle~R~~vK~~mK~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~ 751 (1274)
.+++|. ++.+..+.||||++|+.|+++|+++|++||+ +.+|+++.+||++|+|||++|||||||||+++|||||
T Consensus 842 ----~~~~~~-~~~~~~~~Gilp~il~~L~~~R~~~K~~mk~-~~~~~~~~~~d~~Q~AlKi~aNS~YG~lG~~~~r~~~ 915 (1172)
T TIGR00592 842 ----EDELPE-LPDSELEMGILPRELRKLVERRKEVKKLMKQ-DLNPDLRLQYDIRQKALKLTANSMYGCLGYSKSRFYA 915 (1172)
T ss_pred ----chhccc-CCcccccCcchHHHHHHHHHHHHHHHHHhhc-CCCHHHHHHHHHHHHHHHHhhhccccccccccccccC
Confidence 346676 7777789999999999999999999999998 7899999999999999999999999999999999999
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHhcCccceeccccceeeecCCCCHHHHHHHHHHHHHHHhhcCccEEEEeeehhhHhhc
Q psy1361 752 QPLAALVTAKGREILLNTKSLVENLNYEVIYGDTDSLMISCNVNDYDSVFKIGNQIKSECNKLYKQLELDIDGVYKYMLL 831 (1274)
Q Consensus 752 ~~lA~~IT~~GReiL~~tke~ve~~g~~VIYGDTDSImI~~~~~d~eea~kig~eI~~~VN~~~~~LeLe~E~vy~~lLL 831 (1274)
.++|++||++||++|++|+++++++|++|||||||||||+++..+.++++++|++|+++||+.|++|+||+|++|.++||
T Consensus 916 ~~~A~~iT~~GR~~l~~~~~~~e~~g~~VIYGDTDSv~v~~~~~~~~e~~~~~~~~~~~in~~~~~l~le~e~vy~~~ll 995 (1172)
T TIGR00592 916 KPLAALVTAKGREILEHTRQLVEEMNLEVIYGDTDSIMINTPGTKYEEVFKIGKEFKSEVNKLYKLLELDIDGVFKRLLL 995 (1172)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHcCCEEEEecCCeEEEEcCCCCHHHHHHHHHHHHHHHhhcCCceEEeehhhhHhhHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccceEEEeeecCCCceeeeeeeecceeecCChHHHHHHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHh
Q psy1361 832 LKKKKYAALSISKLSNGKMICSQEIKGVDVVRRDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLD 911 (1274)
Q Consensus 832 l~KKrYA~l~~~~~~dG~~~~~~evKGle~vRRD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~ 911 (1274)
++||||||+.++...+|...+++++||+++||||||+|+|++++++|+.||++++ .+++++.|+++++++.++|+
T Consensus 996 ~~KKrYa~l~~~~~~~g~~~~k~~~KGle~vRrD~~~l~k~~~~~vl~~il~~~~-----~~~~~~~i~~~l~~~~~~l~ 1070 (1172)
T TIGR00592 996 LKKKKYAAIKVEGDSDGNYTTKQEVKGLDIVRRDWSPLAKETGKKVLDTILSDKD-----VEEAVEEVQEVLEKIGKNVL 1070 (1172)
T ss_pred hhccceEEEeeccCcCCCcceeEEeecceEEECCcHHHHHHHHHHHHHHHHcCCC-----HHHHHHHHHHHHHHHHHHHh
Confidence 9999999999877667877778999999999999999999999999999999999 99999999999999999999
Q ss_pred CCCcCcccceeeecccCCccccCCCCCchHHHHHHHHhhhCCCCCCCCCEEEEEEEeCCCCCcccccccChHHHhh-CCC
Q psy1361 912 NGFVPLTLLEITKQLTKAPEEYTDRKALPHVQVALRLNNTNSKKLKQGDTISYIICEDGTSEAATQRAYNIEELKN-NSK 990 (1274)
Q Consensus 912 ~g~vpledlvI~K~LsK~pe~Y~d~~~~PHV~vAlrl~~~~G~~v~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~-~~~ 990 (1274)
+|++|+++|+|+|+|+|+|++|++++.+|||+||+||+++.|..+++|++|+||||.++++....+||++|+++.. .++
T Consensus 1071 ~g~~~~~~lvi~k~l~k~~~~Y~~~~~~phv~~A~~~~~~~g~~~~~G~~I~Yvi~~~~~~~~~~~ra~~~~~~~~~~~~ 1150 (1172)
T TIGR00592 1071 NGEVPLEKFVINKQLTRDPKDYPDGASLPHVHVALRINARGGRKVKAGDVVSYVICKDGGNLSARQRAYALEELQRKHNN 1150 (1172)
T ss_pred cCCCCHHHeeehhhccCCHHHcCCCCCChHHHHHHHHHHhcCCCCCCCCEEEEEEEeCCCCcchhhhccChHHhhccCCC
Confidence 9999999999999999999999988889999999999876689999999999999998877777889999999964 457
Q ss_pred ccccHHHHHhccchHHHHHhcc
Q psy1361 991 LKIDVNYYLSQQIHPVVTRLLE 1012 (1274)
Q Consensus 991 l~iD~eYYl~kQI~Ppv~Rl~~ 1012 (1274)
+.||++|||++||+|||.|||+
T Consensus 1151 l~iD~~yYi~~qi~p~~~Ri~e 1172 (1172)
T TIGR00592 1151 LIYDTQYYLEHQIHPVVLRILE 1172 (1172)
T ss_pred CCcCHHHHHHhhcHHHHHHhhC
Confidence 9999999999999999999996
No 3
>PTZ00166 DNA polymerase delta catalytic subunit; Provisional
Probab=100.00 E-value=1.9e-96 Score=938.20 Aligned_cols=521 Identities=29% Similarity=0.455 Sum_probs=431.1
Q ss_pred chhhhccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCccCcCccCCcccccccccCCCCCcccCCceeeccccccc
Q psy1361 560 IRITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGFY 639 (1274)
Q Consensus 560 ~qLt~IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~~~~~~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~GlY 639 (1274)
.++++++|.++..++.+|++.|+|++|+|+++++||++|++.... .....+|+||+|++|++|||
T Consensus 489 ~e~arv~gip~~~v~~rG~q~kv~s~Llr~~~~~~~viP~~~~~~---------------~~~~~~yeGg~VleP~~G~y 553 (1054)
T PTZ00166 489 VEMARVTGTPIGWLLTRGQQIKVTSQLLRKCKKLNYVIPTVKYSG---------------GGSEEKYEGATVLEPKKGFY 553 (1054)
T ss_pred HHHhhccCCChHHhhcCCcchhHHHHHHHHHHhcCeeccCchhcc---------------ccccCCCCCceeecCCCCCe
Confidence 579999999999999999999999999999999999999875321 12346899999999999999
Q ss_pred ceeEEEeeccccChhHHHHhccccccccccccCC--Cccc--cccc--cCCcccccCCCcHHHHHHHHHHHHHHHHHhcC
Q psy1361 640 DKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQD--SDIT--TLCE--YLPEHQVDTGILPSEIKKLVESRRQVKALMKQ 713 (1274)
Q Consensus 640 d~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~--~~~~--~ip~--~~~~~~~~~GILP~iL~~Lle~R~~vK~~mK~ 713 (1274)
++||++|||+|||||||++|||||||+++..+.. .++. ..|. .|...+.++||||++|++|++.|+++|+.||+
T Consensus 554 ~~pV~vLDF~SLYPSIiia~NlcysTl~~~~~~~~~~~~~~~~~p~g~~Fv~~~~r~Gilp~iL~~Ll~~R~~~K~~mk~ 633 (1054)
T PTZ00166 554 DEPIATLDFASLYPSIMIAHNLCYSTLVPPNDANNYPEDTYVTTPTGDKFVKKEVRKGILPLIVEELIAARKKAKKEMKD 633 (1054)
T ss_pred eCceEEeecCCcccHHHHhcCCCcceeecchhhccCCCcceeecCCCceeeecCCCCcccHHHHHHHHHHHHHHHHHHhh
Confidence 9999999999999999999999999998765311 0111 1132 23344568999999999999999999999998
Q ss_pred CCCChHHHHHHHHHHHHhhccccccccCCCCCc-CCCCCHHHHHHHHHHhHHHHHHHHHHHHhc---------Cccceec
Q psy1361 714 PNLSSDLLMQYDIRQKALKLTANSMYGCLGFPN-SRFFAQPLAALVTAKGREILLNTKSLVENL---------NYEVIYG 783 (1274)
Q Consensus 714 ~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~-sRfy~~~lA~~IT~~GReiL~~tke~ve~~---------g~~VIYG 783 (1274)
. .+|.++++||.||+|||++|||+|||+|+++ +||||.++|++||++||++|++|++++|+. |++||||
T Consensus 634 ~-~d~~~~~~ld~rQ~AlKi~aNS~YG~~G~~~~gr~~c~~iA~sIT~~GR~~i~~t~~~ie~~~~~~~g~~~g~~VIYG 712 (1054)
T PTZ00166 634 E-KDPLLKKVLNGRQLALKISANSVYGYTGAQVGGQLPCLEVSTSITSFGRQMIDKTKELVEKHYTKANGYKHDATVIYG 712 (1054)
T ss_pred C-CCHHHHHHHHHHHHhhhhhccccccccccccCCccccHHHHHHHHHHHHHHHHHHHHHHHHhccccccCcCCeEEEec
Confidence 5 4999999999999999999999999999999 899999999999999999999999999986 9999999
Q ss_pred cccceeeecCCCCHHHHHHHHHHHHHHHhhcC-ccEEEEeeehhhHhhccccccceEEEeeecCCCceeeeeeeecceee
Q psy1361 784 DTDSLMISCNVNDYDSVFKIGNQIKSECNKLY-KQLELDIDGVYKYMLLLKKKKYAALSISKLSNGKMICSQEIKGVDVV 862 (1274)
Q Consensus 784 DTDSImI~~~~~d~eea~kig~eI~~~VN~~~-~~LeLe~E~vy~~lLLl~KKrYA~l~~~~~~dG~~~~~~evKGle~v 862 (1274)
|||||||+++..+.++++++|++++++||+.+ ++|+||||+||.++||++||||||+.+++. +. ..++++||+|+|
T Consensus 713 DTDSvfV~~~~~~~~ea~~~g~e~a~~Is~~~~~pi~LefEkvy~~~ll~~KKrYag~~~~~~-~~--~~k~d~KGie~v 789 (1054)
T PTZ00166 713 DTDSVMVKFGTDDIQEAMDLGKEAAERISKKFLKPIKLEFEKVYCPYLLMNKKRYAGLLYTNP-EK--YDKIDCKGIETV 789 (1054)
T ss_pred CCCceEEEeCCccHHHHHHHHHHHHHHHHHhcCCCcEEEEeeeeeeeeecccceEEEEEEecC-CC--CceeeeeeeEEE
Confidence 99999999999899999999999999999987 689999999999999999999999988753 21 236799999999
Q ss_pred cCChHHHHHHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcccceeeecccCCccccCCCCCchHH
Q psy1361 863 RRDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTDRKALPHV 942 (1274)
Q Consensus 863 RRD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK~pe~Y~d~~~~PHV 942 (1274)
|||||+|+|++++++|+.||.+++ ++.+.+++++++.+|++|++|+++|+|+|+|+| ++|.. .+|||
T Consensus 790 RRD~c~~~k~~~~~vl~~il~~~d---------~~~a~~~~~~~~~~l~~~~v~i~~lvi~k~l~k--~~Y~~--~~phv 856 (1054)
T PTZ00166 790 RRDNCLLVQQMVETVLNKILIEKD---------VESAIEFTKGKISDLLQNRIDISLLVITKSLGK--DDYEG--RLAHV 856 (1054)
T ss_pred eccchHHHHHHHHHHHHHHHccCC---------HHHHHHHHHHHHHHHHcCCCCHHHEEEEEEech--hhCCC--CCcHH
Confidence 999999999999999999999888 455667888888999999999999999999999 78974 47999
Q ss_pred HHHHHHhhh-CCCCCCCCCEEEEEEEeCCCCCcccccccChHHHhhCCCccccHHHHHhccchHHHHHhccccCCCChhH
Q psy1361 943 QVALRLNNT-NSKKLKQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVVTRLLEPIEGTDAVR 1021 (1274)
Q Consensus 943 ~vAlrl~~~-~G~~v~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~~~~l~iD~eYYl~kQI~Ppv~Rl~~pi~G~d~~~ 1021 (1274)
+||+||+++ .|..++.||+|+|||++++++.++.+||++|.++. +++++||++|||+ ||+||+.|||+|| |.|
T Consensus 857 ~~A~rl~~rd~~~~p~~GdrI~YViv~~~~~~~~~~ra~~p~~~~-~~~~~iD~~YYi~-ql~~pl~Ri~~~i-~~~--- 930 (1054)
T PTZ00166 857 ELAKKLRQRDPGSAPNVGDRVSYVIVKGAKGAPQYERAEDPLYVL-ENNIPIDTQYYLD-QIKNPLLRIFEGV-MDN--- 930 (1054)
T ss_pred HHHHHHHHhCcCcCCCCCCEEEEEEEECCCCcchhhhccCHHHHH-hcCCCCCHHHHHH-HHHHHHHHHHHHh-hcC---
Confidence 999999764 47899999999999998776677899999999887 4689999999999 9999999999999 555
Q ss_pred HHHHhCCcccchhhhccccccccccccccCCcchhhhcccCcceeeecCCccCCCcccccCccccCCCCcccccccCCCC
Q psy1361 1022 IAECLGLDTSLYRSQIKESIQQSEENILGVGEAEEVKYQFCDKFEFTCMNPSCKQVNTVEAPTRLSTHGVVFVLDECINP 1101 (1274)
Q Consensus 1022 ia~~Lgld~~~y~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~C~~~~C~~~~~~~~~~~~~~~~~~~~~~~C~~~ 1101 (1274)
..+||--+..+........ ...-.+|- ....+|. .|+.... .+..|.
T Consensus 931 ~~~~~~~~~~~~~~~~~~~------------~~~~~~~~---~~~~~c~--~c~~~~~--------------~~~~c~-- 977 (1054)
T PTZ00166 931 PDSLFSGEHTRHITISSSS------------KGGLSKFV---KKQLQCL--GCKSVIK--------------EGALCD-- 977 (1054)
T ss_pred HHHHhccCccceeeecCCC------------cccHHHHH---hcCcccC--CCCCCCC--------------CCCcCc--
Confidence 4568742322221111100 00111221 2468999 9998641 135787
Q ss_pred CCC-CCCCCCHHHHHHHHHHHHHHHHHhhccceeeeCCCCCCCcccccccccCCCCCC
Q psy1361 1102 ECK-VPPYTYLPHLINKLSQDMNKYIVKYYEGWLKCEDPGCSDLTRRCPLGLKTRLCT 1158 (1274)
Q Consensus 1102 ~C~-~~~~~~~~~i~nql~~~ir~~i~~yy~~~~~Cdd~~C~~~tr~~~~~~~~~~c~ 1158 (1274)
.|. ..+. .+...+...++..-.+|-..|.+| +.|+....+ .+.+....||
T Consensus 978 ~c~~~~~~----~~~~~~~~~~~~~e~~~~~~~~~c--~~c~g~~~~-~~~c~~~dc~ 1028 (1054)
T PTZ00166 978 NCNQNKEP----SIYGKKLAKRRHKEAEYSQLWTQC--QRCQGSLHQ-EVICTNRDCP 1028 (1054)
T ss_pred cccCCCHH----HHHHHHHHHHHHHHHHHHHHHHHh--hhccCCCCC-CCcccCCCCc
Confidence 484 3322 344455667777888899999999 789876543 3444445555
No 4
>cd05534 POLBc_zeta DNA polymerase type-B zeta subfamily catalytic domain. DNA polymerase (Pol) zeta is a member of the eukaryotic B-family of DNA polymerases and distantly related to DNA Pol delta. Pol zeta plays a major role in translesion replication and the production of either spontaneous or induced mutations. Apart from its role in translesion replication, Pol zeta also appears to be involved in somatic hypermutability in B lymphocytes, an important element for the production of high affinity antibodies in response to an antigen.
Probab=100.00 E-value=9.4e-90 Score=812.83 Aligned_cols=414 Identities=27% Similarity=0.429 Sum_probs=359.3
Q ss_pred chhHHHHHHHHHHHhcCCEeecCCccCcCccCCcccccccccCCCCCcccCCceeecccccccceeEEEeeccccChhHH
Q psy1361 577 GRSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGFYDKFIILMDFNSLYPSII 656 (1274)
Q Consensus 577 graeR~E~LLLhef~~~~yIlPdk~~~~~~~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~GlYd~~VlvLDFnSLYPSII 656 (1274)
|++.|+|++|||+++++||++|++..... ..+.+.|+||+|++|++|||++||++|||+|||||||
T Consensus 1 g~q~rve~~llr~~~~~g~~~p~~~~~~~--------------~~~~~~~~g~~V~eP~~G~y~~~V~vLDF~SLYPSIi 66 (451)
T cd05534 1 GSQFRVESMLLRLAKPENYILPSPSRQQV--------------AQQRALECLPLVMEPESGFYSDPVIVLDFQSLYPSIM 66 (451)
T ss_pred CCeEEeHHHHHHHHHHcCEEeecCchhcc--------------ccccccccCcEeecCCcCcccCceEEEecccccHHHH
Confidence 67889999999999999999998742210 1235678999999999999999999999999999999
Q ss_pred HHhccccccccccccCC--Cc---------------------cccc---ccc--CCcccccCCCcHHHHHHHHHHHHHHH
Q psy1361 657 QEYNICFTTIPVRMLQD--SD---------------------ITTL---CEY--LPEHQVDTGILPSEIKKLVESRRQVK 708 (1274)
Q Consensus 657 ~~yNIcptTv~~~~~~~--~~---------------------~~~i---p~~--~~~~~~~~GILP~iL~~Lle~R~~vK 708 (1274)
++|||||||+++..... .+ .+.+ |++ |...+.+.||||++|+.|++.|+++|
T Consensus 67 ~~~Nic~sT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~Gilp~iL~~Ll~~R~~~K 146 (451)
T cd05534 67 IAYNYCYSTCLGRVEELNGGGKFGFLGVKLYLPPPPLDLLLLKDDVTISPNGVMFVKKSVRKGILPKMLEEILDTRIMVK 146 (451)
T ss_pred HHhCcCcccccccccccccccccccccccccccccccccccCCCcEEECCCcceeecCCCCCCchHHHHHHHHHHHHHHH
Confidence 99999999998652110 00 0111 221 22334589999999999999999999
Q ss_pred HHhcCCCCChHHHHHHHHHHHHhhccccccccCCCCCcC-CCCCHHHHHHHHHHhHHHHHHHHHHHHh---cCccceecc
Q psy1361 709 ALMKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNS-RFFAQPLAALVTAKGREILLNTKSLVEN---LNYEVIYGD 784 (1274)
Q Consensus 709 ~~mK~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~s-Rfy~~~lA~~IT~~GReiL~~tke~ve~---~g~~VIYGD 784 (1274)
++||+.+.++.++.+||.+|+|+||+|||+|||+|++++ ||||.++|++||+.||++|++|++++++ +|++|||||
T Consensus 147 ~~mk~~~~~~~~~~~ld~~Q~AlKi~~NS~YGy~G~~~~gr~~~~~iA~~IT~~GR~~l~~~~~~ie~~~~~g~~VIYGD 226 (451)
T cd05534 147 KAMKKYKDDKKLQRILDARQLALKLLANVTYGYTAASFSGRMPCVEIADSIVQTGRETLERAIELIESTPKWGAKVVYGD 226 (451)
T ss_pred HHHhhCCCCHHHHHHHHHHHHHHHHHhhccccccccccccccccHHHHHHHHHHHHHHHHHHHHHHhhccccCceEEeec
Confidence 999986656889999999999999999999999999974 9999999999999999999999999998 999999999
Q ss_pred ccceeeecCCCCHHHHHHHHHHHHHHHhhcCc-cEEEEeeehhhHhhccccccceEEEeeecCCCceeeeeeeecceeec
Q psy1361 785 TDSLMISCNVNDYDSVFKIGNQIKSECNKLYK-QLELDIDGVYKYMLLLKKKKYAALSISKLSNGKMICSQEIKGVDVVR 863 (1274)
Q Consensus 785 TDSImI~~~~~d~eea~kig~eI~~~VN~~~~-~LeLe~E~vy~~lLLl~KKrYA~l~~~~~~dG~~~~~~evKGle~vR 863 (1274)
||||||++++.+.++++++|++|+++||+.++ +|+||+|++|.++||++||||||+.+++.+++ .+++++||+++||
T Consensus 227 TDSvfv~~~~~~~~~~~~~~~~i~~~in~~~~~~i~le~E~vy~~~ll~~KKrYag~~~~~~~~~--~~ki~~KGle~vR 304 (451)
T cd05534 227 TDSLFVLLPGRTKEEAFKIGKEIAEAVTAANPSPIKLKFEKVYHPCVLVTKKRYVGYKYESPDQT--EPTFDAKGIETVR 304 (451)
T ss_pred ccceeEecCCCCHHHHHHHHHHHHHHHHHhCCCCceeeHHHHHHHHHHHhhhhEEEEEEecCCCC--CceEEeecceEEe
Confidence 99999999988899999999999999999885 89999999999999999999999998764333 3467999999999
Q ss_pred CChHHHHHHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcccceeeecccCCccccC-CCCCchHH
Q psy1361 864 RDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYT-DRKALPHV 942 (1274)
Q Consensus 864 RD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK~pe~Y~-d~~~~PHV 942 (1274)
||||+|+|++++++|+.||.+++ ++.+++++.+.+.+|++|++|+++|+|+|+|++.+ |. .+..+|||
T Consensus 305 rD~~~~~k~~~~~vl~~il~~~d---------~~~~~~~l~~~~~~l~~g~~~~~dlii~k~l~~~~--y~~~~~~p~hv 373 (451)
T cd05534 305 RDGCPAVQKILEKSLRILFETKD---------LSTVKSYLQRQWSKLLQGRVSIQDFIFAKEVRLGT--YKEGATLPAGA 373 (451)
T ss_pred cccHHHHHHHHHHHHHHHhccCC---------HHHHHHHHHHHHHHHHcCCCCHHHeEEEEEeeccc--cCccCCCChHH
Confidence 99999999999999999999888 45667788889999999999999999999999864 32 23446899
Q ss_pred HHHHHHhh-hCCCCCCCCCEEEEEEEeCCCCCcccccccChHHHhhCCCccccHHHHHhccchHHHHHhccccCCCC
Q psy1361 943 QVALRLNN-TNSKKLKQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVVTRLLEPIEGTD 1018 (1274)
Q Consensus 943 ~vAlrl~~-~~G~~v~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~~~~l~iD~eYYl~kQI~Ppv~Rl~~pi~G~d 1018 (1274)
+||++++. ..|..++.|++|+|||+++..+.++.+||++|+++..++++.||++|||++||+||+.|||++| |++
T Consensus 374 ~~A~k~~~~~~~~~~~~G~rI~YViv~~~~~~~~~~ra~~~~~~~~~~~~~iD~~yYi~~Qi~~~~~ril~~~-g~~ 449 (451)
T cd05534 374 IVALRRMEKDPRAEPQYGERVPYVVVRGEPGSRLIDLVVSPEEFLADPSLRLDAEYYITKQIIPALDRLFNLV-GVD 449 (451)
T ss_pred HHHHHHHHhCCCCCCCCCCEEEEEEEeCCCCCcHHHhccCHHHHhhcCCCCCChHHHHHhcCHHHHHHHHHHc-CCc
Confidence 99977654 3567889999999999987655678999999998876778999999999999999999999998 776
No 5
>cd05532 POLBc_alpha DNA polymerase type-B alpha subfamily catalytic domain. Three DNA-dependent DNA polymerases type B (alpha, delta, and epsilon) have been identified as essential for nuclear DNA replication in eukaryotes. DNA polymerase (Pol) alpha is almost exclusively required for the initiation of DNA replication and the priming of Okazaki fragments during elongation. In most organisms no specific repair role, other than check point control, has been assigned to this enzyme. Pol alpha contains both polymerase and exonuclease domains, but lacks exonuclease activity suggesting that the exonuclease domain may be for structural purposes only.
Probab=100.00 E-value=5.2e-89 Score=797.70 Aligned_cols=398 Identities=62% Similarity=0.985 Sum_probs=366.9
Q ss_pred CCCcccCCceeecccccccceeEEEeeccccChhHHHHhccccccccccccCCCccccccccCCcccccCCCcHHHHHHH
Q psy1361 621 RKKAAYSGGLVLEPKKGFYDKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSDITTLCEYLPEHQVDTGILPSEIKKL 700 (1274)
Q Consensus 621 ~kk~~Y~GGlVlePk~GlYd~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~~~~~ip~~~~~~~~~~GILP~iL~~L 700 (1274)
+++.+|+||+|++|++|+|++||++|||+|||||||++|||||+||++..+....... .. +.....+.||||++|+.|
T Consensus 3 ~~~~~y~Gg~V~eP~~G~y~~~V~~lDF~SLYPSIi~~~Ni~~~Ti~~~~~~~~~~~~-~~-~~~~~~~~Gilp~~l~~l 80 (400)
T cd05532 3 KKKAKYAGGLVLEPKKGLYDKFILLLDFNSLYPSIIQEYNICFTTVDRADPDDEDDEE-PP-LPPSDQEKGILPRIIRKL 80 (400)
T ss_pred CccCCcCCceeecCCCCcccCceEEEeccccchHHHHHhcCChhhcccccccccCCcc-cc-ccccccCCCchHHHHHHH
Confidence 5678999999999999999999999999999999999999999999976543211111 11 445577999999999999
Q ss_pred HHHHHHHHHHhcCCCCChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcCccc
Q psy1361 701 VESRRQVKALMKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEV 780 (1274)
Q Consensus 701 le~R~~vK~~mK~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g~~V 780 (1274)
++.|.++|++|++. .+++++.+||.+|+|+|++|||+|||+|+++|||||.++|++||+.||++|+.|++++++.|++|
T Consensus 81 ~~~R~~~K~~~k~~-~d~~~~~~~d~~Q~alKi~~NS~YG~~g~~~~r~~~~~~A~~iT~~GR~~l~~~~~~~e~~g~~V 159 (400)
T cd05532 81 VERRRQVKKLMKSE-KDPDKKAQLDIRQLALKLTANSMYGCLGFSYSRFYAKPLAALITSKGREILQKTKDLVEKMNLEV 159 (400)
T ss_pred HHHHHHHHHHHhcC-CCHHHHHHHHHHHHHHHHHHhhcccccccccccccChHHHHHHHHHHHHHHHHHHHHHHHcCCEE
Confidence 99999999999984 58999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeccccceeeecCCCCHHHHHHHHHHHHHHHhhcCccEEEEeeehhhHhhccccccceEEEeeecCCCceeeeeeeecce
Q psy1361 781 IYGDTDSLMISCNVNDYDSVFKIGNQIKSECNKLYKQLELDIDGVYKYMLLLKKKKYAALSISKLSNGKMICSQEIKGVD 860 (1274)
Q Consensus 781 IYGDTDSImI~~~~~d~eea~kig~eI~~~VN~~~~~LeLe~E~vy~~lLLl~KKrYA~l~~~~~~dG~~~~~~evKGle 860 (1274)
||||||||||.++..+.++++++|++|+++||+.|++|+|++|++|.+++|++||||||+.++..+. ...++++||++
T Consensus 160 iYgDTDSifv~~~~~~~~~~~~~~~~i~~~in~~~~~i~le~e~iy~~~ll~~KKrYag~~~~~~~~--~~~k~~~KGie 237 (400)
T cd05532 160 IYGDTDSIMINTGTTDYEEAKKLGNKIKKEVNKSYKKLEIDIDGVFKRLLLLKKKKYAALKVVDDDK--GKLKKEVKGLD 237 (400)
T ss_pred EEeCCCeEEEecCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhhcceEEEeecCCc--cceeeEEecee
Confidence 9999999999998888999999999999999999999999999999999999999999998875432 23467999999
Q ss_pred eecCChHHHHHHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcccceeeecccCCccccCCCCCch
Q psy1361 861 VVRRDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTDRKALP 940 (1274)
Q Consensus 861 ~vRRD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK~pe~Y~d~~~~P 940 (1274)
++|||||+|+|++++++|+.||.+++ .+++++.+++++++++++|.+|++|+++|+|+++|+|++++|..++.+|
T Consensus 238 ~~RrD~~~~~k~~~~~vl~~ll~~~~-----~~~~~~~i~~~~~~~~~~l~~~~~~~~~lii~k~l~k~~~~Y~~~~~~~ 312 (400)
T cd05532 238 IVRRDWCPLSKEIGNYVLDQILSDKS-----REDIVENIHEYLRKINEDLRNGKIPLEKFIITKQLTKNPEEYPDKKSLP 312 (400)
T ss_pred EEecccHHHHHHHHHHHHHHHHcCCC-----hHHHHHHHHHHHHHHHHHHHcCCCCHHHEEEeecccCChHHcCCCCCCc
Confidence 99999999999999999999999998 8889999999999999999999999999999999999999999876789
Q ss_pred HHHHHHHHhhhCCCCCCCCCEEEEEEEeCCCCCcccccccChHHHhhCCCccccHHHHHhccchHHHHHhccccCCCChh
Q psy1361 941 HVQVALRLNNTNSKKLKQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVVTRLLEPIEGTDAV 1020 (1274)
Q Consensus 941 HV~vAlrl~~~~G~~v~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~~~~l~iD~eYYl~kQI~Ppv~Rl~~pi~G~d~~ 1020 (1274)
||+||+||.+ .|..+.+|++|+|||++++++.++++||++|+++..+.+++||++|||++||+||+.|||+||+|++.+
T Consensus 313 hv~~A~rl~~-~g~~~~~G~rI~Yvi~~~~~~~~~~~ra~~~~~~~~~~~~~iD~~yYi~~qi~~pl~ri~~~~~~~~~~ 391 (400)
T cd05532 313 HVQVALRMNK-RGRKVKAGDTIPYIICKDGSSKSLADRAYHPDEVKKNENLKIDIEYYLSQQILPPISRLCEPIEGTDAV 391 (400)
T ss_pred HHHHHHHHHH-cCCCCCCCCEEEEEEEeCCCCCchhhhccCHHHHhhccCCCCChHHHHHHhhHHHHHHHHHhccCCCHH
Confidence 9999999976 678999999999999987766678999999999975567899999999999999999999999999999
Q ss_pred HHHHHhCCc
Q psy1361 1021 RIAECLGLD 1029 (1274)
Q Consensus 1021 ~ia~~Lgld 1029 (1274)
+||+|||++
T Consensus 392 ~~~~~~~~~ 400 (400)
T cd05532 392 RLAECLGLD 400 (400)
T ss_pred HHHHHhCCC
Confidence 999999986
No 6
>cd05533 POLBc_delta DNA polymerase type-B delta subfamily catalytic domain. Three DNA-dependent DNA polymerases type B (alpha, delta, and epsilon) have been identified as essential for nuclear DNA replication in eukaryotes. Presently, no direct data is available regarding the strand specificity of DNA polymerase during DNA replication in vivo. However, mutation analysis supports the hypothesis that DNA polymerase delta is the enzyme responsible for both elongation and maturation of Okazaki fragments on the lagging strand.
Probab=100.00 E-value=3.3e-86 Score=772.16 Aligned_cols=374 Identities=32% Similarity=0.522 Sum_probs=335.8
Q ss_pred ccCCceeecccccccceeEEEeeccccChhHHHHhccccccccccccCC----Cccccccc--cCCcccccCCCcHHHHH
Q psy1361 625 AYSGGLVLEPKKGFYDKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQD----SDITTLCE--YLPEHQVDTGILPSEIK 698 (1274)
Q Consensus 625 ~Y~GGlVlePk~GlYd~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~----~~~~~ip~--~~~~~~~~~GILP~iL~ 698 (1274)
+|+||+|++|++|||++||++|||+|||||||++|||||+|+++..+.. ++....|. .|...+.+.||||++|+
T Consensus 2 ~Y~Gg~V~eP~~G~y~~~V~~lDF~SLYPSIi~~~Nic~~T~~~~~~~~~~~~~~~~~~p~~~~f~~~~~~~Gilp~iL~ 81 (393)
T cd05533 2 QYEGATVIEPIKGYYDVPIATLDFASLYPSIMMAHNLCYTTLLNKNTAKKLPPEDYIKTPNGDYFVKSSVRKGLLPEILE 81 (393)
T ss_pred CCCCeEeccCCCCCccCCeEEecCCCccHHHHHHhCcCccccccCcccccCCCcceEECCCCceeecCCCCCCchHHHHH
Confidence 6999999999999999999999999999999999999999998765421 11122233 12333568999999999
Q ss_pred HHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhc--
Q psy1361 699 KLVESRRQVKALMKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENL-- 776 (1274)
Q Consensus 699 ~Lle~R~~vK~~mK~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~-- 776 (1274)
.|++.|+++|++|++ ..++.++.+||.+|+|+|++|||+|||+|++++||||.++|++||++||++|+.|++++++.
T Consensus 82 ~Ll~~R~~~K~~mk~-~~d~~~~~~ld~~Q~AlKi~~NS~YG~~G~~~~r~~~~~~A~~iT~~GR~~l~~~~~~ie~~~~ 160 (393)
T cd05533 82 ELLAARKRAKKDLKE-ETDPFKKAVLDGRQLALKISANSVYGFTGATVGKLPCLEISSSVTSFGRQMIEKTKKLVEEKYT 160 (393)
T ss_pred HHHHHHHHHHHHHhh-CCCHHHHHHHHHHHHhhheeeeecccccccccCCccchHHHHHHHHhHHHHHHHHHHHHHHhhc
Confidence 999999999999998 56899999999999999999999999999999999999999999999999999999999974
Q ss_pred -------CccceeccccceeeecCCCCHHHHHHHHHHHHHHHhhcCc-cEEEEeeehhhHhhccccccceEEEeeecCCC
Q psy1361 777 -------NYEVIYGDTDSLMISCNVNDYDSVFKIGNQIKSECNKLYK-QLELDIDGVYKYMLLLKKKKYAALSISKLSNG 848 (1274)
Q Consensus 777 -------g~~VIYGDTDSImI~~~~~d~eea~kig~eI~~~VN~~~~-~LeLe~E~vy~~lLLl~KKrYA~l~~~~~~dG 848 (1274)
|++|||||||||||+++..+.++++++|.+|++.||+.|+ +|+||+|++|.++|+++||||||+.+++. ++
T Consensus 161 ~~~g~~~~~~VIYGDTDSvfv~~~~~~~~~~~~~~~ei~~~i~~~~~~~i~Le~E~vy~~~ll~~KKrYag~~~~~~-~~ 239 (393)
T cd05533 161 KANGYSHDAKVIYGDTDSVMVKFGVSDVEEAMKLGKEAAEYVSKKFIKPIKLEFEKVYFPYLLINKKRYAGLLWTNP-DK 239 (393)
T ss_pred ccccCCCceEEEecCCCceEEEcCCCCHHHHHHHHHHHHHHHHhcCCCCeEEeeHHHHHHHHHHHHhhheEEEeecC-CC
Confidence 8899999999999999988999999999999999999884 89999999999999999999999987652 22
Q ss_pred ceeeeeeeecceeecCChHHHHHHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcccceeeecccC
Q psy1361 849 KMICSQEIKGVDVVRRDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTK 928 (1274)
Q Consensus 849 ~~~~~~evKGle~vRRD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK 928 (1274)
..++++||++++|||||+|+|++++++|+.||.+++ . +.++++++++.++|++|++|+++|+|+++|+|
T Consensus 240 --~~ki~~KGle~vRRD~~~~~k~~~~~vl~~il~~~~-----~----~~~~~~~~~~~~~l~~~~~~~~~l~i~k~l~k 308 (393)
T cd05533 240 --HDKMDTKGIETVRRDNCLLVQNVVETCLNKILIERD-----V----EGAIEFVKGVISDLLQNKIDISLLVITKALTK 308 (393)
T ss_pred --CceeEEeceEEEcccchHHHHHHHHHHHHHHHhcCC-----H----HHHHHHHHHHHHHHHcCCCCHHHEEEEeeecC
Confidence 235799999999999999999999999999999888 4 45667788888999999999999999999999
Q ss_pred CccccCCCCCchHHHHHHHHhhh-CCCCCCCCCEEEEEEEeCCCCCcccccccChHHHhhCCCccccHHHHHhccchHHH
Q psy1361 929 APEEYTDRKALPHVQVALRLNNT-NSKKLKQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVV 1007 (1274)
Q Consensus 929 ~pe~Y~d~~~~PHV~vAlrl~~~-~G~~v~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~~~~l~iD~eYYl~kQI~Ppv 1007 (1274)
.|++|... +|||+||+||+++ .|..+++|++|+|||+.+.++..+.+||++|+++.. .++.||++|||++||+||+
T Consensus 309 ~~~~Y~~~--~phv~~A~rl~~~~~g~~~~~G~rI~Yvi~~~~~~~~~~~~a~~~~~~~~-~~~~iD~~yYi~~qi~~pl 385 (393)
T cd05533 309 TADDYAGK--QAHVELAERMRKRDPGSAPNVGDRVPYVIIKGAKGAKAYEKAEDPIYVLE-NNIPIDTQYYLENQLSKPL 385 (393)
T ss_pred ChhhcCCC--CchHHHHHHHHhcCCCCCCCCCCEEEEEEEECCCCCcHHhhccCHHHHHh-cCCCCChHHHHHhcchHHH
Confidence 99999853 7999999999865 378999999999999987656678899999999874 6789999999999999999
Q ss_pred HHhcccc
Q psy1361 1008 TRLLEPI 1014 (1274)
Q Consensus 1008 ~Rl~~pi 1014 (1274)
.|||+||
T Consensus 386 ~ri~~~~ 392 (393)
T cd05533 386 LRIFEPI 392 (393)
T ss_pred HHHHhhh
Confidence 9999997
No 7
>KOG0969|consensus
Probab=100.00 E-value=2.3e-85 Score=766.36 Aligned_cols=526 Identities=30% Similarity=0.462 Sum_probs=436.4
Q ss_pred chhhhccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCccCcCccCCcccccccccCCCCCcccCCceeeccccccc
Q psy1361 560 IRITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGFY 639 (1274)
Q Consensus 560 ~qLt~IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~~~~~~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~GlY 639 (1274)
.++++++|.+++-.|++|++..+-++|||.+.+.++++|+-.... .....|+|+.|+||..|+|
T Consensus 497 ~EMARVTGVP~syLltRGqqIKVlSqLlRkakq~~~~~P~i~~~~----------------s~~e~yEGatVIEp~kGfY 560 (1066)
T KOG0969|consen 497 TEMARVTGVPISYLLTRGQQIKVLSQLLRKAKQKDFVIPNIKSQG----------------SDDEQYEGATVIEPRKGFY 560 (1066)
T ss_pred HhhhhhhCCcHHHHHhCCcchHHHHHHHHHHhhcCeeeeeecccC----------------CccccccccEEeecccccC
Confidence 688999999999999999999999999999999999999865321 1135799999999999999
Q ss_pred ceeEEEeeccccChhHHHHhccccccccccccCC----Cccccccc--cCCcccccCCCcHHHHHHHHHHHHHHHHHhcC
Q psy1361 640 DKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQD----SDITTLCE--YLPEHQVDTGILPSEIKKLVESRRQVKALMKQ 713 (1274)
Q Consensus 640 d~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~----~~~~~ip~--~~~~~~~~~GILP~iL~~Lle~R~~vK~~mK~ 713 (1274)
+.||+.|||+|||||||++||+||||++...... ++....|. +|.....++|+||++|++||..|+.+|+.||.
T Consensus 561 ~~PIATLDFaSLYPSIMmahNLCYtTLl~~~t~~~l~~~~~~~TP~g~yFv~~~~rkGlLP~ILe~ll~aRKraK~dlk~ 640 (1066)
T KOG0969|consen 561 DKPIATLDFASLYPSIMMAHNLCYTTLLTKETVEKLGDEDYTRTPTGDYFVKTEVRKGLLPEILEDLLTARKRAKADLKK 640 (1066)
T ss_pred CCCceeeehhhhhhHHHHHhhhhheeccccchhhhcCccceeECCCCCeeeehhhhccccHHHHHHHHHHHHHHHHHHHh
Confidence 9999999999999999999999999998765421 22333354 57777899999999999999999999999999
Q ss_pred CCCChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHh---------cCccceecc
Q psy1361 714 PNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVEN---------LNYEVIYGD 784 (1274)
Q Consensus 714 ~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~---------~g~~VIYGD 784 (1274)
++||.+++.||.||+|||+.|||.||++|++.++++|.+|..+||+.||+||..|+.++|+ .++.|||||
T Consensus 641 -ekDp~kr~vldGRQLAlKisANSvYGFTGAtvGkLPCleIS~SVT~yGR~MI~~TK~~Ve~~y~~~ngy~~da~ViYGD 719 (1066)
T KOG0969|consen 641 -EKDPFKRAVLDGRQLALKISANSVYGFTGATVGKLPCLEISQSVTAYGRQMIEKTKKLVEEKYTIKNGYSHDAVVIYGD 719 (1066)
T ss_pred -ccCHHHHhhhcchhhheeecccccccccccccCccceeeechhhHHHHHHHHHHHHHHHHHHhhhccCCccccEEEecC
Confidence 6899999999999999999999999999999999999999999999999999999999996 356899999
Q ss_pred ccceeeecCCCCHHHHHHHHHHHHHHHhhcC-ccEEEEeeehhhHhhccccccceEEEeeecCCCceeeeeeeecceeec
Q psy1361 785 TDSLMISCNVNDYDSVFKIGNQIKSECNKLY-KQLELDIDGVYKYMLLLKKKKYAALSISKLSNGKMICSQEIKGVDVVR 863 (1274)
Q Consensus 785 TDSImI~~~~~d~eea~kig~eI~~~VN~~~-~~LeLe~E~vy~~lLLl~KKrYA~l~~~~~~dG~~~~~~evKGle~vR 863 (1274)
||||||.++..+.++|+++|+++++.|+..| ++|.||||+||-+.||..||||||+.|.+...+ .+++.||+++||
T Consensus 720 TDSVMv~Fgv~~v~~am~lg~eaa~~vs~~F~~PIkLEFEKvY~PYLLInKKRYAGL~~t~pd~~---DkmD~kGietVR 796 (1066)
T KOG0969|consen 720 TDSVMVKFGVSDVEEAMKLGREAAEYVSSKFVKPIKLEFEKVYFPYLLINKKRYAGLLWTNPDVF---DKMDCKGIETVR 796 (1066)
T ss_pred CceEEEecCchhHHHHHHHhHHHHHHHHhcCCCCceeEeeeeecceEEeccceeeeeEeccCCcC---ccccccccchhc
Confidence 9999999999999999999999999999887 689999999999999999999999998854222 357899999999
Q ss_pred CChHHHHHHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcccceeeecccCCccccCCCCCchHHH
Q psy1361 864 RDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTDRKALPHVQ 943 (1274)
Q Consensus 864 RD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK~pe~Y~d~~~~PHV~ 943 (1274)
||.|+|++++...+|+.||..++ ++.++ .+.++.+.+|.-+.++++.++|+|.|+|.-++|..+ ++||+
T Consensus 797 RDnc~LV~~v~~~~L~kiLi~rd-----v~gA~----~fvk~~IsDlL~nriDiS~LVItK~Ltkagd~Y~~k--qaHve 865 (1066)
T KOG0969|consen 797 RDNCPLVANVVNTVLRKILIERD-----VEGAL----AFVKDTISDLLCNRIDISLLVITKELTKAGDDYAAK--QAHVE 865 (1066)
T ss_pred cCCchHHHHHHHHHHHHHHhhcC-----hHHHH----HHHHHHHHHHHhcccceeeeeeeehhcccccchhhh--hhhHH
Confidence 99999999999999999999999 55554 455566778888999999999999999999999864 79999
Q ss_pred HHHHHhhh-CCCCCCCCCEEEEEEEeCCCCCcccccccChHHHhhCCCccccHHHHHhccchHHHHHhccccCCCChhHH
Q psy1361 944 VALRLNNT-NSKKLKQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVVTRLLEPIEGTDAVRI 1022 (1274)
Q Consensus 944 vAlrl~~~-~G~~v~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~~~~l~iD~eYYl~kQI~Ppv~Rl~~pi~G~d~~~i 1022 (1274)
+|.||+++ .|..+..||||||||+....+.++.+|+.+|-.+. +++++||..|||++|+..|+.||++||-|--
T Consensus 866 LAermrkRD~gtaP~lGDRVpYVIi~~akg~~ay~rsEDP~fVL-enNipiD~~yYL~nQlsKPllrIfePILg~~---- 940 (1066)
T KOG0969|consen 866 LAERMRKRDAGTAPNLGDRVPYVIIAAAKGAPAYERSEDPLYVL-ENNIPIDTRYYLENQLSKPLLRIFEPILGDA---- 940 (1066)
T ss_pred HHHHhhhcCCCCCCccCCcCcEEEEecccCCchhcCCCCCeEEe-cCCCCcchHHHHhhhhhhhHHHHhhhhhCch----
Confidence 99999874 68899999999999998877788999999997776 5889999999999999999999999995432
Q ss_pred HHHhCCcccchhhhccccccccccccccCCcchhhhcccCcceeeecCCccCCCcccccCccccCCCCcccccccCCCCC
Q psy1361 1023 AECLGLDTSLYRSQIKESIQQSEENILGVGEAEEVKYQFCDKFEFTCMNPSCKQVNTVEAPTRLSTHGVVFVLDECINPE 1102 (1274)
Q Consensus 1023 a~~Lgld~~~y~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~C~~~~C~~~~~~~~~~~~~~~~~~~~~~~C~~~~ 1102 (1274)
+--.+-..+-|..+..+. ..++ + -.| .....+|. +|+...... ....|.|
T Consensus 941 -~~~l~~g~htR~~~v~~~------~~gG-l---~~F---~kk~~tC~--gCk~~~~~~------------~~~~C~~-- 990 (1066)
T KOG0969|consen 941 -EKELLRGDHTRTITVTTS------KVGG-L---MAF---AKKVETCL--GCKAPLRKG------------EQALCEN-- 990 (1066)
T ss_pred -hhccccccceeEEEeecc------cccc-h---hhh---hhhccccc--ccccccccc------------cchhhhh--
Confidence 111222233333322110 0000 0 111 23467899 999865421 2236875
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHhhccceeeeCCCCCCCcccccccccCCCCCC
Q psy1361 1103 CKVPPYTYLPHLINKLSQDMNKYIVKYYEGWLKCEDPGCSDLTRRCPLGLKTRLCT 1158 (1274)
Q Consensus 1103 C~~~~~~~~~~i~nql~~~ir~~i~~yy~~~~~Cdd~~C~~~tr~~~~~~~~~~c~ 1158 (1274)
|.... ..+..+-...++..-.+|-+-|..| +.|+...+.. +.++...||
T Consensus 991 C~~r~----~~lyqk~v~~~~~lee~fsrlWt~C--qrcqgs~h~~-vic~~rdCp 1039 (1066)
T KOG0969|consen 991 CLPRS----SELYQKQVSHVNDLEEKFSRLWTEC--QRCQGSLHEE-VICSNRDCP 1039 (1066)
T ss_pred hcccH----HHHHHHHHHHHHHHHHHHHHHHHHH--HHHHhhHhhh-heeccCCCC
Confidence 76542 2455666678889999999999999 6788765443 222344454
No 8
>cd05536 POLBc_B3 DNA polymerase type-B B3 subfamily catalytic domain. Archaeal proteins that are involved in DNA replication are similar to those from eukaryotes. Some members of the archaea also possess multiple family B DNA polymerases (B1, B2 and B3). So far there is no specific function(s) has been assigned for different members of the archaea type B DNA polymerases. Phylogenetic analyses of eubacterial, archaeal, and eukaryotic family B DNA polymerases are support independent gene duplications during the evolution of archaeal and eukaryotic family B DNA polymerases. Structural comparison of the thermostable DNA polymerase type B to its mesostable homolog suggests several adaptations to high temperature such as shorter loops, disulfide bridges, and increasing electrostatic interaction at subdomain interfaces.
Probab=100.00 E-value=3.2e-81 Score=725.76 Aligned_cols=369 Identities=37% Similarity=0.591 Sum_probs=327.4
Q ss_pred cccCCceeecccccccceeEEEeeccccChhHHHHhccccccccccccCCCccccccccCCcccccCCCcHHHHHHHHHH
Q psy1361 624 AAYSGGLVLEPKKGFYDKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSDITTLCEYLPEHQVDTGILPSEIKKLVES 703 (1274)
Q Consensus 624 ~~Y~GGlVlePk~GlYd~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~~~~~ip~~~~~~~~~~GILP~iL~~Lle~ 703 (1274)
.+|+||+|++|++|||++ |++|||+|||||||++|||||||++...+.+.. ...+.+..+...+.||+|++|+.|++.
T Consensus 2 ~~y~Gg~V~~P~~G~y~~-V~~lDf~SLYPSii~~~Ni~~~Ti~~~~~~~~~-~~~~~~~~f~~~~~Gilp~il~~ll~~ 79 (371)
T cd05536 2 ESYEGGIVLEPEKGLHEN-IVVLDFSSLYPSIMIKYNISPDTLVREGCEDCD-VEPQVGHKFRKDPPGFIPSVLEDLLEE 79 (371)
T ss_pred CCCCceEEeCCCCCCcCC-EEEEEcccccHHHHHHHCcChhhcCCCCccccc-cCCCCCcEEecCCCCchHHHHHHHHHH
Confidence 469999999999999998 999999999999999999999999976653211 011112233456899999999999999
Q ss_pred HHHHHHHhcCCCCChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcCccceec
Q psy1361 704 RRQVKALMKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEVIYG 783 (1274)
Q Consensus 704 R~~vK~~mK~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g~~VIYG 783 (1274)
|.++|++||+.+.++.++++||.+|+|+||+|||+|||+|++++||||.++|++||+.||++|++|++++++.|++||||
T Consensus 80 R~~~K~~mk~~~~~~~~~~~~d~~Q~AlKi~~NS~YG~~g~~~~r~~~~~~A~~iT~~GR~~l~~~~~~i~~~g~~VIYg 159 (371)
T cd05536 80 RRRIKEKMKKLDPESEEYKLLDERQRAIKILANSFYGYMGWANARWYCKECAEAVTAWGREYIKTTIKIAEEKGFKVIYG 159 (371)
T ss_pred HHHHHHHHhhCCCcHHHHHHHHHHHHHHHHHHhccccccccccccCCCHHHHHHHHHHHHHHHHHHHHHHHHcCCEEEEE
Confidence 99999999987666688999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccceeeecCCCCHHHHHHHHHHHHHHHhhcCccEEEEeeehhhHhhccccccceEEEeeecCCCceeeeeeeecceeec
Q psy1361 784 DTDSLMISCNVNDYDSVFKIGNQIKSECNKLYKQLELDIDGVYKYMLLLKKKKYAALSISKLSNGKMICSQEIKGVDVVR 863 (1274)
Q Consensus 784 DTDSImI~~~~~d~eea~kig~eI~~~VN~~~~~LeLe~E~vy~~lLLl~KKrYA~l~~~~~~dG~~~~~~evKGle~vR 863 (1274)
|||||||+++..+. +++.+.++.+.||+.++ |+||+|++|.+++|++||||||+. .+|+ +++||++++|
T Consensus 160 DTDSvfv~~~~~~~--~~~~~~~l~~~i~~~~~-i~le~E~vy~~~l~~~KKrY~g~~----~~g~----i~~KG~e~~R 228 (371)
T cd05536 160 DTDSLFVKIDGADA--VKKKVKKLLKYINEELP-LELEIEKFYKRGFFVTKKRYAGLT----EDGK----IDVVGLEVVR 228 (371)
T ss_pred cCcccEEeecCchH--HHHHHHHHHHHHHhcCC-eeEEEeeeeHHHHHhhhceeEEEc----cCCe----EEEEeeeeEe
Confidence 99999999986542 56677888899999887 999999999999999999999984 3565 5799999999
Q ss_pred CChHHHHHHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcccceeeecccCCccccCCCCCchHHH
Q psy1361 864 RDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTDRKALPHVQ 943 (1274)
Q Consensus 864 RD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK~pe~Y~d~~~~PHV~ 943 (1274)
||||+|+|++++++|+.||.+++ .++ +.+++.++.++|++|++|+++|+|+++|+|+|++|.+ .+||++
T Consensus 229 rD~~~~~k~~~~~~l~~ll~~~~-----~~~----~~~~~~~~~~~l~~g~~~~~dlii~k~l~k~~~~Y~~--~~~hv~ 297 (371)
T cd05536 229 RDWSEIAKETQARVLEAILKEGD-----VEE----AVKIVKEVIEKLKRGEVPPEKLVIWKQLTKDLSEYKA--TGPHVA 297 (371)
T ss_pred CccHHHHHHHHHHHHHHHHcCCC-----HHH----HHHHHHHHHHHHHcCCCCHHHeEEeHHhcCCHHHhCC--CCcHHH
Confidence 99999999999999999999988 554 5567778889999999999999999999999999985 479999
Q ss_pred HHHHHhhhCCCCCCCCCEEEEEEEeCCCCCcccccccChHHHhhCCCccccHHHHHhccchHHHHHhccccCCCChhHH
Q psy1361 944 VALRLNNTNSKKLKQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVVTRLLEPIEGTDAVRI 1022 (1274)
Q Consensus 944 vAlrl~~~~G~~v~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~~~~l~iD~eYYl~kQI~Ppv~Rl~~pi~G~d~~~i 1022 (1274)
+|++|.+ .|..+.+|++|+|||++++. +..+||++++++. .++.+|++||+++||+||+.|||+++ |+|.+.|
T Consensus 298 ~a~~l~~-~g~~~~~G~rI~Yvi~~~~~--~~~dr~~p~~~~~--~~~~iD~~yYi~~qi~~pl~ril~~~-g~~~~~l 370 (371)
T cd05536 298 AAKKLAK-RGYKVRPGTKIGYVIVKGSG--KISDRAYPYDMVD--EKHKYDAEYYIDNQVLPAVLRILEAF-GYKEEDL 370 (371)
T ss_pred HHHHHHh-cCCCCCCCCEEEEEEEECCC--cccccccCHHHhc--cCCCCCHHHHHHHhcHHHHHHHHHHh-CCCHHHc
Confidence 9999986 58899999999999997642 5789999998774 57899999999999999999999998 8886654
No 9
>KOG0968|consensus
Probab=100.00 E-value=4.7e-82 Score=758.05 Aligned_cols=524 Identities=25% Similarity=0.351 Sum_probs=427.2
Q ss_pred chhhhccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCccCcCccCCcccccccccCCCCCcccCCceeeccccccc
Q psy1361 560 IRITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGFY 639 (1274)
Q Consensus 560 ~qLt~IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~~~~~~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~GlY 639 (1274)
.+++++.|..+-.++++|++.|+|++|||.+|..|||.|.....+. ..+++..+-.+||||+..||
T Consensus 895 ~E~ARv~GIdF~sV~tRGSQ~rVESmllRiAk~~Nyi~~SPs~kQv--------------~~q~A~EcvPLVMEPeS~fY 960 (1488)
T KOG0968|consen 895 SEMARVIGIDFHSVLTRGSQFRVESMLLRIAKPMNYIAPSPSHKQV--------------AMQGAPECVPLVMEPESAFY 960 (1488)
T ss_pred HHHHHhhcceeeEEeeccchhhHHHHHHHHhcccccccCCccHHHH--------------hhcCCccccceeecchhhhc
Confidence 6789999999999999999999999999999999999998763221 23467788999999999999
Q ss_pred ceeEEEeeccccChhHHHHhccccccccccccCC---C---------------------cccccccc--CCcccccCCCc
Q psy1361 640 DKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQD---S---------------------DITTLCEY--LPEHQVDTGIL 693 (1274)
Q Consensus 640 d~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~---~---------------------~~~~ip~~--~~~~~~~~GIL 693 (1274)
++||+||||+|||||||++||+||+|+.+....- + +....|++ ++++++++|+|
T Consensus 961 ~~PViVLDFQSLYPSivIAYNyCySTcLG~v~~l~~~~e~~LG~s~~s~~~dil~~~~ndV~isPNgv~yVK~sVRkgvL 1040 (1488)
T KOG0968|consen 961 FDPVIVLDFQSLYPSIVIAYNYCYSTCLGKVGNLNQMNEIKLGVSKYSLPPDILVLAKNDVTISPNGVMYVKPSVRKGVL 1040 (1488)
T ss_pred cCceEEEEchhhcchHHHhHHHHHHHhhhHHHhhccccceeeeeeeccCCHHHHHHHhcceeeCCCceEEechhhhhhhH
Confidence 9999999999999999999999999998865321 0 01111332 34567899999
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHhhccccccccCCCCCcC-CCCCHHHHHHHHHHhHHHHHHHHHH
Q psy1361 694 PSEIKKLVESRRQVKALMKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNS-RFFAQPLAALVTAKGREILLNTKSL 772 (1274)
Q Consensus 694 P~iL~~Lle~R~~vK~~mK~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~s-Rfy~~~lA~~IT~~GReiL~~tke~ 772 (1274)
|++|+++|+.|.+||+.||..+.+..+.+++|.||+||||+||.+|||+.+.+| ||+|.++|++|..+||++|++++++
T Consensus 1041 pkmLeEIL~tRiMVKkaMK~~~~~~~L~RiLnaRQLALKLiANVTYGYTsA~FSGRMPCaElADsIV~~GRETLEraIe~ 1120 (1488)
T KOG0968|consen 1041 PKMLEEILATRIMVKKAMKRTKDNKKLKRILNARQLALKLIANVTYGYTSANFSGRMPCAELADSIVQKGRETLERAIEM 1120 (1488)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcchHHHHHHhhhHHHHHHHHhhccccccccccCCCCchHHHHHHHHHhhHHHHHHHHHH
Confidence 999999999999999999997657778899999999999999999999999988 9999999999999999999999999
Q ss_pred HHh---cCccceeccccceeeecCCCCHHHHHHHHHHHHHHHhhcC-ccEEEEeeehhhHhhccccccceEEEeeecCCC
Q psy1361 773 VEN---LNYEVIYGDTDSLMISCNVNDYDSVFKIGNQIKSECNKLY-KQLELDIDGVYKYMLLLKKKKYAALSISKLSNG 848 (1274)
Q Consensus 773 ve~---~g~~VIYGDTDSImI~~~~~d~eea~kig~eI~~~VN~~~-~~LeLe~E~vy~~lLLl~KKrYA~l~~~~~~dG 848 (1274)
++. ||++||||||||+||.+++.+.++||+||++|++.|++.+ +++.|+||+||.+++|++||||+|++|+.....
T Consensus 1121 Vn~~d~w~AkVVYGDTDSmFVlL~GaT~eeAF~IGq~iAe~VT~~NP~PV~LKfEKVY~PCvL~tKKRYVG~~YEs~~Qk 1200 (1488)
T KOG0968|consen 1121 VNRGDYWGAKVVYGDTDSMFVLLPGATVEEAFEIGQEIAEAVTNSNPKPVVLKFEKVYHPCVLLTKKRYVGFMYESPNQK 1200 (1488)
T ss_pred HhcCCcCCeEEEEcCCCceEEEecCccHHHHHHHHHHHHHHHHhcCCCCeEEEeeeecccceeeeccceeeeeeccCccc
Confidence 984 8999999999999999999999999999999999999887 589999999999999999999999999976433
Q ss_pred ceeeeeeeecceeecCChHHHHHHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcccceeeecccC
Q psy1361 849 KMICSQEIKGVDVVRRDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTK 928 (1274)
Q Consensus 849 ~~~~~~evKGle~vRRD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK 928 (1274)
. +.++.||||+||||.||.+.++.+++|+.||..++ ++.|+.|+...+.++.+|+++++||++.|.++-
T Consensus 1201 ~--PiFDAKGIETVRRDtcPavakilEksL~LlFetkd---------lS~IK~y~q~~~~ki~~Gkvs~qDF~FaKEvRl 1269 (1488)
T KOG0968|consen 1201 E--PIFDAKGIETVRRDTCPAVAKILEKSLRLLFETKD---------LSKIKKYLQNVCNKIQEGKVSFQDFCFAKEVRL 1269 (1488)
T ss_pred C--CccccccceeeeccCcHHHHHHHHHHHHHHhhccc---------HHHHHHHHHHHHHHHhhCCcchhhheeeeeecc
Confidence 3 35799999999999999999999999999999988 889999999999999999999999999999975
Q ss_pred CccccCCCCCchHHHHHHHHh-hhCCCCCCCCCEEEEEEEeCCCCCcccccccChHHHhhCCCccccHHHHHhccchHHH
Q psy1361 929 APEEYTDRKALPHVQVALRLN-NTNSKKLKQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVV 1007 (1274)
Q Consensus 929 ~pe~Y~d~~~~PHV~vAlrl~-~~~G~~v~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~~~~l~iD~eYYl~kQI~Ppv 1007 (1274)
-..|..+..+|...+|+|+. ++....++.|+||||||+.+.++..+.+|.+.|+||+..+.+++|..|||.+||+||+
T Consensus 1270 -~~~~~~~~~pP~avva~r~i~~DpR~EPqygERVPYvII~G~pG~~L~~~vvsP~efL~~~~~rLn~~YYINk~iiPpL 1348 (1488)
T KOG0968|consen 1270 -EKYYSASAAPPGAVVARRRITKDPRHEPQYGERVPYVIIDGVPGSTLYSRVVSPEEFLRNPTYRLNTFYYINKQIIPPL 1348 (1488)
T ss_pred -eeccccccCCchHHHHHHHhccCCccCccccccCCeEEEeCCCCCcHHHHhcCHHHHhcCCceeccceeeehhhccchH
Confidence 23444455567777887654 4566789999999999999888889999999999999888899999999999999999
Q ss_pred HHhccccCCCChhHHHHHhCCcccchhhhccccccccccccccCCcchhhhcccCcceeeecCCccCCCcccccCccccC
Q psy1361 1008 TRLLEPIEGTDAVRIAECLGLDTSLYRSQIKESIQQSEENILGVGEAEEVKYQFCDKFEFTCMNPSCKQVNTVEAPTRLS 1087 (1274)
Q Consensus 1008 ~Rl~~pi~G~d~~~ia~~Lgld~~~y~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~C~~~~C~~~~~~~~~~~~~ 1087 (1274)
.|++..| |+| +-.|.--.|+.-|+......- + +..++. +|--....|+ .|-..
T Consensus 1349 ~Rvf~Li-G~~---v~~W~~Empk~krtS~~~te~-e-----~~~~ti-----d~f~ts~hC~--~c~~~---------- 1401 (1488)
T KOG0968|consen 1349 DRVFNLI-GAD---VDSWYHEMPKSKRTSLKLTET-E-----KGGITI-----DTFVTSKHCS--SCCSR---------- 1401 (1488)
T ss_pred HHHhhhc-ccc---hhhHHHhcccccccccccccc-c-----cCCcee-----eEEEeecccc--chhcc----------
Confidence 9999999 888 445776666633332211100 0 000111 1111234555 44211
Q ss_pred CCCcccccccCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHhhccceeeeCCCCCCCccccc
Q psy1361 1088 THGVVFVLDECINPECKVPPYTYLPHLINKLSQDMNKYIVKYYEGWLKCEDPGCSDLTRRC 1148 (1274)
Q Consensus 1088 ~~~~~~~~~~C~~~~C~~~~~~~~~~i~nql~~~ir~~i~~yy~~~~~Cdd~~C~~~tr~~ 1148 (1274)
..+...|. .|...|.. ++...+ ...|++-+++-.-..+| .+|+....+.
T Consensus 1402 ----~~~~~lC~--~Clqnp~~-~a~~~v---~~~~~l~re~~~L~~iC--r~Cs~~~~~~ 1450 (1488)
T KOG0968|consen 1402 ----IGSTQLCS--DCLQNPSA-TALALV---QKGRELERERSQLITIC--RSCSGSSQRD 1450 (1488)
T ss_pred ----cccchhHH--HHHhChHH-HHHHHH---HHHHHHHHHHHHHHHHH--hhcCCccccc
Confidence 11234676 58776643 233333 34555555555555688 5798876543
No 10
>COG0417 PolB DNA polymerase elongation subunit (family B) [DNA replication, recombination, and repair]
Probab=100.00 E-value=7.8e-80 Score=771.47 Aligned_cols=416 Identities=37% Similarity=0.598 Sum_probs=374.8
Q ss_pred chhhhccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCccCcCccCCcccccccccCCCCCcccCCceeeccccccc
Q psy1361 560 IRITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGFY 639 (1274)
Q Consensus 560 ~qLt~IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~~~~~~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~GlY 639 (1274)
.++++++|+++.+++.+|++.++|++|+|++++.||++|++.... ....|.||+|++|.+|||
T Consensus 357 ~e~s~vsg~~~~~~~~~~~~~~~~~~l~~~a~~~~~~iP~~~~~~-----------------~~~~~~Gg~V~~P~~Gly 419 (792)
T COG0417 357 IELSRVSGLPLDDVTRAGSGARVEGLLLREAKRRGELIPNKEERP-----------------ERKKYKGGLVLEPEPGLY 419 (792)
T ss_pred HHHHHHhCCCHHHHcccchhHHHHHHHHHHHhhcCEeccCccccc-----------------hhhhcCCCEEccCCcccc
Confidence 789999999999999999999999999999999999999886321 115799999999999999
Q ss_pred ceeEEEeeccccChhHHHHhccccccccccccCCCccccccc-cCCcccccCCCcHHHHHHHHHHHHHHHHHhcCCCCCh
Q psy1361 640 DKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSDITTLCE-YLPEHQVDTGILPSEIKKLVESRRQVKALMKQPNLSS 718 (1274)
Q Consensus 640 d~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~~~~~ip~-~~~~~~~~~GILP~iL~~Lle~R~~vK~~mK~~~~~~ 718 (1274)
++ |++|||+|||||||++|||||+|+++..+.. ....|. ++..+..++|++|++|..|+++|.++|+.|++ ..++
T Consensus 420 ~~-V~vLDF~SLYPSII~~~Ni~p~T~~~~~~~~--~~~~~~~~~~~~~~~~G~lp~il~~L~~~R~~~K~~~k~-~~~~ 495 (792)
T COG0417 420 EN-VLVLDFSSLYPSIIIKYNISPDTLVEEDCSD--DYSPPGVGHGFCKREKGFLPEILEELLDRRDEIKKKMKK-EKDP 495 (792)
T ss_pred Cc-EEEEEccccChHHHHHhCCCcceecCCCccc--cccCCCCcccccccCCCchHHHHHHHHHHHHHHHHHhcc-cCCh
Confidence 99 9999999999999999999999999876531 111121 23445678999999999999999999999999 4667
Q ss_pred HHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcCccceeccccceeeecCCCCHH
Q psy1361 719 DLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEVIYGDTDSLMISCNVNDYD 798 (1274)
Q Consensus 719 ~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g~~VIYGDTDSImI~~~~~d~e 798 (1274)
.++.+||.+|+||||+|||+|||+|+++|||||.++|++||++||+||+.|++++|++|++|||||||||||.++....+
T Consensus 496 ~e~~~~d~rQ~AlKvl~NS~YGy~G~~~~rf~~~e~a~~VT~~gR~ii~~t~~~ae~~G~~ViyGDTDSlfv~~~~~~~~ 575 (792)
T COG0417 496 SERKLLDGRQLALKVLANSFYGYLGYSNSRFYCIECAESVTAFGREILRETKELAEEMGLRVIYGDTDSLFVTLPGATYE 575 (792)
T ss_pred HHHHHHHHHHHHHHHHHhhccccccccCCccCCHHHHHHHHHHHHHHHHHHHHHHHHcCCEEEEECCceeEEEcCCCchH
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999988899
Q ss_pred HHHHHHHHHHHHHhhcC-ccEEEEeeehhhHhhccc-cccceEEEeeecCCCceeeeeeeecceeecCChHHHHHHHHHH
Q psy1361 799 SVFKIGNQIKSECNKLY-KQLELDIDGVYKYMLLLK-KKKYAALSISKLSNGKMICSQEIKGVDVVRRDWSQLASEAGKF 876 (1274)
Q Consensus 799 ea~kig~eI~~~VN~~~-~~LeLe~E~vy~~lLLl~-KKrYA~l~~~~~~dG~~~~~~evKGle~vRRD~c~l~K~~~~~ 876 (1274)
+|+++++++.+.||..+ .+|+||+|++|++++|+. ||||||+.. +|. ++++||+++||||||+|+|++|.+
T Consensus 576 ea~~~~~~l~~~vn~~~~~~i~lE~e~~y~~~ll~~~KKRYag~~~----~g~---~~~vKG~e~~RrD~~~l~k~~q~~ 648 (792)
T COG0417 576 EAIKIGEELVEEVNERLPSGIELEVEKVYKRFLLPTAKKRYAGLLE----DGD---KIEVKGLETVRRDWPELVKEFQRE 648 (792)
T ss_pred HHHHHHHHHHHHHhhcCCCCeEEEeeehhhhhhccccccceEEEec----cCC---EEEEeeeEEEecCccHHHHHHHHH
Confidence 99999999999999874 589999999999999999 999999964 442 468999999999999999999999
Q ss_pred HHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcccceeeecccCCccccCCCCCchHHHHHHHHhhhCCCCC
Q psy1361 877 VISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTDRKALPHVQVALRLNNTNSKKL 956 (1274)
Q Consensus 877 vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK~pe~Y~d~~~~PHV~vAlrl~~~~G~~v 956 (1274)
||+.||.+++ +++++ ..+++.+..++++|.+|+++|+|+++|+|.+.+|.. ++||+.+|++++.. |..+
T Consensus 649 vl~~il~~~~-----~e~~~---~~~~~~v~~~l~~~~~~~~~lvi~k~l~k~~~ey~~--~~p~~~~a~~~~~~-g~~~ 717 (792)
T COG0417 649 VLEVLLSGRD-----VEEAL---AKYVRDVIEKLRNGEVPIEKLVISKRLTRPLSEYKA--NKPHVVVAARLRKR-GINV 717 (792)
T ss_pred HHHHHHcCCC-----HHHHH---HHHHHHHHHHHHcCCcCHHHheeeeeeccChhhhcC--CCcHHHHHHHHHhC-CCCC
Confidence 9999999999 76664 677888889999999999999999999999999974 57999999998764 8999
Q ss_pred CCCCEEEEEEEeCCCCCcccccccChHHHhhCCCccccHHHHHhccchHHHHHhccccCCC
Q psy1361 957 KQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVVTRLLEPIEGT 1017 (1274)
Q Consensus 957 ~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~~~~l~iD~eYYl~kQI~Ppv~Rl~~pi~G~ 1017 (1274)
.+|++|+|||+++. .+..+||.+|..+. ..++.||++||+++||+||+.||+++|.+.
T Consensus 718 ~~g~~i~Yvi~~~~--~~~~~ra~~~~~~~-~~~~~iD~~YY~~~Ql~~~~~ril~~i~~~ 775 (792)
T COG0417 718 KPGDRIPYVIVKGK--GKLVERAEPPELVD-EENSPIDYEYYITKQLLPALERILEPIGGN 775 (792)
T ss_pred CCCCEeEEEEecCC--CcccccccCceecc-cccccCCHHHHHhccchHHHHHHHHHhccc
Confidence 99999999999865 46889999997775 355789999999999999999999999433
No 11
>PF00136 DNA_pol_B: DNA polymerase family B Several related DNA polymerases were too dissimilar to be included.; InterPro: IPR006134 DNA is the biological information that instructs cells how to exist in an ordered fashion: accurate replication is thus one of the most important events in the life cycle of a cell. This function is performed by DNA- directed DNA-polymerases 2.7.7.7 from EC) by adding nucleotide triphosphate (dNTP) residues to the 5'-end of the growing chain of DNA, using a complementary DNA chain as a template. Small RNA molecules are generally used as primers for chain elongation, although terminal proteins may also be used for the de novo synthesis of a DNA chain. Even though there are 2 different methods of priming, these are mediated by 2 very similar polymerases classes, A and B, with similar methods of chain elongation. A number of DNA polymerases have been grouped under the designation of DNA polymerase family B. Six regions of similarity (numbered from I to VI) are found in all or a subset of the B family polymerases. The most conserved region (I) includes a conserved tetrapeptide with two aspartate residues. Its function is not yet known, however, it has been suggested that it may be involved in binding a magnesium ion. All sequences in the B family contain a characteristic DTDS motif, and possess many functional domains, including a 5'-3' elongation domain, a 3'-5' exonuclease domain [], a DNA binding domain, and binding domains for both dNTP's and pyrophosphate []. This domain of DNA polymerase B appears to consist of more than one activities, possibly including elongation, DNA-binding and dNTP binding [].; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 1QHT_A 1NOY_A 1NOZ_B 2CW7_A 2CW8_A 1WNS_A 2XHB_A 2VWK_A 2VWJ_A 1TGO_A ....
Probab=100.00 E-value=2.1e-80 Score=739.35 Aligned_cols=437 Identities=37% Similarity=0.612 Sum_probs=365.7
Q ss_pred chhHHHHHHHHHHHhcCCEeecCCccCcCccCCcccccccccCCCCCcccCCceeecccccccceeEEEeeccccChhHH
Q psy1361 577 GRSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGFYDKFIILMDFNSLYPSII 656 (1274)
Q Consensus 577 graeR~E~LLLhef~~~~yIlPdk~~~~~~~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~GlYd~~VlvLDFnSLYPSII 656 (1274)
|++.|+|++|||+++++||++|++...... .......+..|+||+|++|++|||+++|.+|||+|||||||
T Consensus 1 gq~~~v~~~ll~~~~~~~~~~p~~~~~~~~---------~~~~~~~~~~y~Gg~V~~P~~G~~~~v~~~lDF~SLYPsii 71 (466)
T PF00136_consen 1 GQQIRVESLLLREAHRRNYIIPSKKERPEG---------FTSKSEQKEKYEGGYVLEPKPGLYENVVSVLDFASLYPSII 71 (466)
T ss_dssp -CHHHHHHHHHHHHHHTTBE-B-HHHHHHT---------HHHHHHHCTCEEEC-BE--HSSEEEEEEEEEEETTHHHHHH
T ss_pred CchhhHHHHHHHHHHHCCEEeeCCcccccc---------cccccccccccccceeeccccccccCceeeeecccccHHHH
Confidence 789999999999999999999987633100 00012346789999999999999999555899999999999
Q ss_pred HHhccccccccccc-cCC----Cc--ccccc----c----cCCcccccCCCcHHHHHHHHHHHHHHHHHhcCCCCChHH-
Q psy1361 657 QEYNICFTTIPVRM-LQD----SD--ITTLC----E----YLPEHQVDTGILPSEIKKLVESRRQVKALMKQPNLSSDL- 720 (1274)
Q Consensus 657 ~~yNIcptTv~~~~-~~~----~~--~~~ip----~----~~~~~~~~~GILP~iL~~Lle~R~~vK~~mK~~~~~~~~- 720 (1274)
++|||||+|+++.. +.. .+ .+..+ . .+.....+.||||++|+.|++.|.++|+.|++. .++.+
T Consensus 72 ~~~Ni~~~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gilp~~l~~~l~~R~~~K~~~~~~-~~~~~~ 150 (466)
T PF00136_consen 72 IAYNICPETIVDDDECKDNEVSPDIKYDYGPFIVGSPVGVRFVKKGVRPGILPEILEELLEKRKEIKKLMKKA-KDPDEE 150 (466)
T ss_dssp HHTTHSTTTBTCTTHCSSEEEHTTCCCCTCEEEECSCCSEEEESSTCSHHHHHHHHHHHHHHHHHHHHHHHHC-CHHHHH
T ss_pred HhccCCcceEecchhhhcccccccccccccceeecCCceeeecccCcccccChHHHHHHHHHHHHHhhhhhhh-ccchhh
Confidence 99999999999886 211 00 01111 0 122346789999999999999999999999984 44444
Q ss_pred HHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhc--CccceeccccceeeecCCCCHH
Q psy1361 721 LMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENL--NYEVIYGDTDSLMISCNVNDYD 798 (1274)
Q Consensus 721 ~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~--g~~VIYGDTDSImI~~~~~d~e 798 (1274)
+..||.+|+|+||+|||+|||+|+.+||||+.++|++||+.||++|+.+++++++. |++|||||||||||.++..+.+
T Consensus 151 ~~~~d~~Q~a~Ki~~NS~YG~~g~~~~r~~~~~~a~~iT~~GR~~i~~~~~~~~~~~~g~~viYgDTDSv~v~~~~~~~~ 230 (466)
T PF00136_consen 151 YAILDARQLALKIIANSFYGYLGAKNSRFYCKEIAEAITATGREIIKKAIEIIEEMEFGFEVIYGDTDSVFVQFPDSDKE 230 (466)
T ss_dssp HHHHHHHHHHHHHHHTTHHHHHTSTTSTT--HHHHHHHHHHHHHHHHHHHHHHHHHSCTEEEEEEETTEEEEECTTCHHH
T ss_pred HHHHHHHHHhhcccceeeEeecCccccchhhhhhhheehhhhHhhHHHHHHHHHhhcccceEEEEcccceEEecCCCcHH
Confidence 89999999999999999999999999999999999999999999999999999998 9999999999999999988888
Q ss_pred HHHHHHHHHHHHHhhc--CccEEEEeeehhhHhhccccccceEEEeeecCCCceeeeeeeecceeecCChHHHHHHHHHH
Q psy1361 799 SVFKIGNQIKSECNKL--YKQLELDIDGVYKYMLLLKKKKYAALSISKLSNGKMICSQEIKGVDVVRRDWSQLASEAGKF 876 (1274)
Q Consensus 799 ea~kig~eI~~~VN~~--~~~LeLe~E~vy~~lLLl~KKrYA~l~~~~~~dG~~~~~~evKGle~vRRD~c~l~K~~~~~ 876 (1274)
++.+.+++++++||+. +.+++||+|++|.+++|+.|||||++.+++. |...+++++||++++|||||+|+|+++++
T Consensus 231 ~~~~~~~~l~~~i~~~~~~~~i~le~E~~y~~~~l~~KKrY~~~~~~~~--~~~~~~~~~kG~e~~RrD~~~~~k~~~~~ 308 (466)
T PF00136_consen 231 DAKKKGEELAKEINSELFPSPIKLEFEKVYRWFILLAKKRYAGLKYDNE--GKKKGKIKIKGLELVRRDWCPFVKDIQRE 308 (466)
T ss_dssp HHHHHHHHHHHHHHHHSCSTTHEEEEEEEEEEEEEEETTEEEEEETCCC--EEETSEEEEESSSGGSSSSTHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhhhhcCCCceeeecccEEEEEEEccCCccceeeeec--ccccceeEEeccccccCchhHHHHHHHHH
Confidence 9999999999999975 4689999999999999999999999988754 33234679999999999999999999999
Q ss_pred HHHHHHccCCCCCCchHHHHHHHH----HHHHHHHHHHhCCCcCcccceeeecccCCccccCCCCCchHHHHHHHHhhhC
Q psy1361 877 VISQILDEQSYTDYSLDDRLQNIH----EHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTDRKALPHVQVALRLNNTN 952 (1274)
Q Consensus 877 vL~~ILs~~~~~~~~~e~~ve~I~----~~l~~~~~kL~~g~vpledlvI~K~LsK~pe~Y~d~~~~PHV~vAlrl~~~~ 952 (1274)
+|+.||.+.+ .+.+.+.|+ +++.++.+++++|.+++++|+|+++++|++++|... ..|||.+|.+|....
T Consensus 309 ~l~~il~~~~-----~~~~~~~i~~~~~e~l~~~~~~l~~~~~~~~~li~~k~l~k~~~~Y~~~-~~~hv~~a~rl~~~~ 382 (466)
T PF00136_consen 309 VLEIILKGKD-----PEEAVEKIKEVIIEYLKKYIEKLRNGEVPIEDLIISKRLSKDLEEYKKK-TPPHVRAAKRLKKRG 382 (466)
T ss_dssp HHHHHHTTCC-----HHHHHHHHHHHHHHHHHHHHHHHHTTCSHGGGGHEEEECCSCGGGCSSS-HHHHHHHHHHHHCTT
T ss_pred HHHHHhCCCC-----HHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHhhhccCCccccccc-CCcHHHHHHHHHhhh
Confidence 9999999998 776655554 788888888999999999999999999999999864 346999999998654
Q ss_pred -CCCCCCCCEEEEEEEeC---CCCCcccccccChHHHhhCCCccccHHHHHhccchHHHHHhccccCCCChhHHHHHhCC
Q psy1361 953 -SKKLKQGDTISYIICED---GTSEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVVTRLLEPIEGTDAVRIAECLGL 1028 (1274)
Q Consensus 953 -G~~v~~Gd~I~YVI~~~---g~~~~~~~RA~~p~e~~~~~~l~iD~eYYl~kQI~Ppv~Rl~~pi~G~d~~~ia~~Lgl 1028 (1274)
+..+.+||+|+|||+.+ +.+....+++.+|+++.. .++.||++||+++||+||+.|||+++++.+...++.||+.
T Consensus 383 ~~~~p~~GdrI~Yvi~~~~~~~~~~~~~~~~~~~~~~~~-~~~~iD~~yYi~~ql~~pl~ril~~~~~~~~~~~~~~~~~ 461 (466)
T PF00136_consen 383 PGYKPQKGDRIPYVIVKGPSKKKGPKPSERAEDPEYVKE-NNLPIDYEYYIEKQLLPPLERILEPLGWNDVEKKESCLAI 461 (466)
T ss_dssp HCTCTGTTSEEEEEEBSSSSTTHCEEESCSEETTTHHHH-TTS-BSHHHHHHTTHHHHHHHHHHTCTTTSHHHCCCHHHT
T ss_pred cccCCcCCCEeEEEEEcCccccccccchhhccChhhhhc-cCCCcchHHHHhhccHHHHHHHHHHhcCCcHHHHHHHhcc
Confidence 57888999999999987 234567889999988764 5589999999999999999999999987779999999998
Q ss_pred cccc
Q psy1361 1029 DTSL 1032 (1274)
Q Consensus 1029 d~~~ 1032 (1274)
..++
T Consensus 462 ~~~~ 465 (466)
T PF00136_consen 462 FFRK 465 (466)
T ss_dssp TS-G
T ss_pred cccC
Confidence 7543
No 12
>PHA03036 DNA polymerase; Provisional
Probab=100.00 E-value=3.8e-79 Score=756.95 Aligned_cols=426 Identities=24% Similarity=0.340 Sum_probs=358.7
Q ss_pred chhhhccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCccCcCccCCcccccccccCCCCCcccCCceeeccccccc
Q psy1361 560 IRITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGFY 639 (1274)
Q Consensus 560 ~qLt~IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~~~~~~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~GlY 639 (1274)
..++..++.+..+++..+++.+++.+|||.+.+.|+++|... +..+.+|+||+|++|++|+|
T Consensus 482 ~~~a~~~~lp~~~~i~~~~s~~i~~qllr~~~~~~~i~p~~~------------------~~~~~~YeGa~VlEP~~G~Y 543 (1004)
T PHA03036 482 DAGASTYLLPQSMVFEYRASTLIKGPLLKLLLEEKTILVRSE------------------TKNKFPYEGGKVFAPKQKMF 543 (1004)
T ss_pred HHHHHHhcCChhheEeeeeccccccHHHHHHHHCCcccccCC------------------CCccCCcCceEEecCCCCcc
Confidence 445666677888888899999999999999999999999321 11234799999999999999
Q ss_pred ceeEEEeeccccChhHHHHhccccccccccccCCCc------c----ccc-----------c---c----cCCcccccCC
Q psy1361 640 DKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSD------I----TTL-----------C---E----YLPEHQVDTG 691 (1274)
Q Consensus 640 d~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~~------~----~~i-----------p---~----~~~~~~~~~G 691 (1274)
++||++|||+|||||||++|||||+|+++..+.+.. . ... | . .+.+.+.++|
T Consensus 544 ~~pV~vLDFaSLYPSIIia~NLcyeTlv~~~~~~~~~~~~i~~~~i~~~~p~~dy~~v~~~~~~~~~v~~~~vf~~~rkG 623 (1004)
T PHA03036 544 DNNVLIFDYNSLYPNVCIFGNLSPETLVGVVVNDNRLEAEINKQELRRKYPYPRYIYVHCEPRSPDLVSEIAVFDRRIEG 623 (1004)
T ss_pred cCCEEEEEccccchHHHHHhCCCcCeEeeccccccccccccccccccccCCCccceeeeccCCcccccccceeecCCCCc
Confidence 989999999999999999999999999864321100 0 001 1 0 0112346899
Q ss_pred CcHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHH
Q psy1361 692 ILPSEIKKLVESRRQVKALMKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKS 771 (1274)
Q Consensus 692 ILP~iL~~Lle~R~~vK~~mK~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke 771 (1274)
|||++|+.|++.|+++|++||+ ..++.++.+||.+|+|+|++|||+|||+|++++||||.++|++||+.||++|+.|++
T Consensus 624 ILP~iL~~Ll~~Rk~~Kk~mK~-~~d~~e~~~lD~rQlAlKI~aNS~YG~~G~~~~rly~~~iA~sVTa~GR~mI~~tk~ 702 (1004)
T PHA03036 624 IIPKLLKTFLEERARYKKLLKE-ATSSVEKAIYDSMQYTYKIVANSVYGLMGFRNSALYSYASAKSCTAIGRNMIKYLNS 702 (1004)
T ss_pred ChHHHHHHHHHHHHHHHHHHhh-CCChHHHHHHHHHHHHHHHHHhcccccccccCccccCHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999999998 457888999999999999999999999999999999999999999999999999998
Q ss_pred HHHh--------------------------------------cCccceeccccceeeecCCCCHHHHHHHHHHHHHHHhh
Q psy1361 772 LVEN--------------------------------------LNYEVIYGDTDSLMISCNVNDYDSVFKIGNQIKSECNK 813 (1274)
Q Consensus 772 ~ve~--------------------------------------~g~~VIYGDTDSImI~~~~~d~eea~kig~eI~~~VN~ 813 (1274)
+++. +|++|||||||||||+++..+.++++++|.++++.||+
T Consensus 703 ~Ve~~~~~~~~~~l~~~p~~~f~~~~r~~~~~~~~~l~~~~~~g~kVIYGDTDSVFV~~~~~d~eea~~ig~ela~~In~ 782 (1004)
T PHA03036 703 VLNGSKLINGKLILANCPINPFFKDDRSIDTNYDTNLPVEYNFTFRSVYGDTDSVFLEINTKDVDKSIKIAKELERIINE 782 (1004)
T ss_pred HhhcccccchhhhhhhccccccccccccccccccccccccccCCcEEEEEecCeeEEEcCCCCHHHHHHHHHHHHHHHHH
Confidence 7542 68999999999999999988999999999999999997
Q ss_pred --cCccEEEEeeehhhHhhccccccceEEEeeecCCCceeeeeeeecceeecCChHHHHHHHHHHHHHHH---HccCCCC
Q psy1361 814 --LYKQLELDIDGVYKYMLLLKKKKYAALSISKLSNGKMICSQEIKGVDVVRRDWSQLASEAGKFVISQI---LDEQSYT 888 (1274)
Q Consensus 814 --~~~~LeLe~E~vy~~lLLl~KKrYA~l~~~~~~dG~~~~~~evKGle~vRRD~c~l~K~~~~~vL~~I---Ls~~~~~ 888 (1274)
.+++++||||+||.++||++||||||+.++....+...+++++||+++||||||+|+|++++.+++.| |++++..
T Consensus 783 ~lf~~pikLEfEKVY~~lLLl~KKRYAGl~~~~~~~~~~~~kid~KGie~VRRD~c~fvK~v~~~vi~~L~~iL~~~d~~ 862 (1004)
T PHA03036 783 KVLFDNFKIEFEAVYKNLIMQSKKKYTTLKYIASSTDGSVPERVNKGTSETRRDVSKFHKYMIKIYKTRLLDMLSEGNMN 862 (1004)
T ss_pred HhcCCCeEEEehhhHHHHHhhhhhheeeEeeccccCCCCceEEEEECceeEeCchHHHHHHHHHHHHHHHHHHhccCCch
Confidence 35799999999999999999999999998764223334578999999999999999999999976655 8876521
Q ss_pred CCchHHHHHHHHHHHHHHHHHHhCCCcCcccceeeecccCCccccCCCCCchHHHHHHHHhhhCCCCCCCCCEEEEEEEe
Q psy1361 889 DYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTDRKALPHVQVALRLNNTNSKKLKQGDTISYIICE 968 (1274)
Q Consensus 889 ~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK~pe~Y~d~~~~PHV~vAlrl~~~~G~~v~~Gd~I~YVI~~ 968 (1274)
. .+.+++.+++.+.++...+++|++|+++|+|+++|++ .|++.+ +|||+||.||+++.+..++.||||+||++.
T Consensus 863 ~--~~~~i~~Lk~~i~dL~~n~~~~~vple~LviSk~l~~---~Yk~~~-~ph~~la~r~~~r~~~~p~iGDRv~YV~i~ 936 (1004)
T PHA03036 863 S--NQVCIDILRSLEKDLIIEFDSRSAPLEMFLLSRTHHC---NYKSPD-NPNMYLVNEYNKNNPEKIEIGERYYFAYIC 936 (1004)
T ss_pred h--HHHHHHHHHHHHHHHHHHHhcCCCCHHHHhhhhcccc---cCCCCC-CCHHHHHHHHHhhCCCCCCCCCEEEEEEEE
Confidence 1 4677888888888888888999999999999999987 498765 799999999988655689999999999875
Q ss_pred CCC--------CCcccccccChHHHhhCCCccccHHHHHhccchHHHHHhcc
Q psy1361 969 DGT--------SEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVVTRLLE 1012 (1274)
Q Consensus 969 ~g~--------~~~~~~RA~~p~e~~~~~~l~iD~eYYl~kQI~Ppv~Rl~~ 1012 (1274)
+.. +.+..+||.+|..+. +++++||++||+. ||.-+|.+|+.
T Consensus 937 ~~~~~w~~~~~~~~~ye~aeDp~yvl-~~~~~I~~e~Y~~-~l~~~v~n~l~ 986 (1004)
T PHA03036 937 PINLPWQKKLVNIKTYERIIDRSFKL-KSNERIFYEVYFK-RLATEVVNLLD 986 (1004)
T ss_pred CCCccccccccCcccceeecCccccc-cCCCceeHHHHHH-HHHHHHHHHhc
Confidence 433 346788999998776 6889999999998 56666666664
No 13
>PRK05761 DNA polymerase I; Reviewed
Probab=100.00 E-value=2.1e-78 Score=755.51 Aligned_cols=426 Identities=26% Similarity=0.376 Sum_probs=356.1
Q ss_pred chhhhccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCccCcCccCCcccccccccCCCCCcccCCceeeccccccc
Q psy1361 560 IRITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGFY 639 (1274)
Q Consensus 560 ~qLt~IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~~~~~~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~GlY 639 (1274)
+++++++|.++.++..++.+.++|++|+++++++||++|++...... .+ +..........+|+||+|++|++|+|
T Consensus 346 ~elarit~lpl~~v~r~~~g~~i~~~l~~~a~~~~~liP~~~~~~~~-~~----~~~~~~~~~~~~y~Gg~V~~P~~G~y 420 (787)
T PRK05761 346 LLLSRISKLPIEELSRATISTWISNLEYWEHRKRGWLIPWKEDILRL-DH----EVYKKAIIKGKKYRGGLVFQPPPGIF 420 (787)
T ss_pred HHHHHHHCcCHHHHhccCHHHHHHHHHHHHHHhCCEeCCCCcccccc-cc----ccccccccccCCcCCcEEeccCCCce
Confidence 78999999999999888889999999999999999999987641100 00 00000122357899999999999999
Q ss_pred ceeEEEeeccccChhHHHHhccccccccccccCCCcccccc-c-cCCcccccCCCcHHHHHHHHHHHHHHHHHhcCCC-C
Q psy1361 640 DKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSDITTLC-E-YLPEHQVDTGILPSEIKKLVESRRQVKALMKQPN-L 716 (1274)
Q Consensus 640 d~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~~~~~ip-~-~~~~~~~~~GILP~iL~~Lle~R~~vK~~mK~~~-~ 716 (1274)
++ |++|||+|||||||++|||||+|+++..+.+. ....+ . +...+..+.||+|.+|+.|++.|+++|+.|++.+ .
T Consensus 421 ~~-V~vlDF~SLYPSIi~~~Ni~p~T~~~~~~~~~-~~~~~~~~~~~~~~~~~gl~~~il~~l~~~R~~~k~~~~~~~~~ 498 (787)
T PRK05761 421 FN-VYVLDFASLYPSIIVKWNLSPETVRIPECKCH-YDDEVPELGHSVCDDRPGLTSVLVGLLRDFRVKIYKKKAKDPNL 498 (787)
T ss_pred ee-EEEeeecccchHHHHHhCCChhhccCcccccc-ccCCCCCCCceeecCCCCchHHHHHHHHHHHHHHHHHhhccCCC
Confidence 98 99999999999999999999999997754221 11011 1 1223356899999999999999999999998743 4
Q ss_pred ChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcCccceeccccceeeecCCCC
Q psy1361 717 SSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEVIYGDTDSLMISCNVND 796 (1274)
Q Consensus 717 ~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g~~VIYGDTDSImI~~~~~d 796 (1274)
+++++++||.+|+|||++|||+|||+|++++||||+++|++||+.||++|++|+++++++|++|||||||||||+.+.
T Consensus 499 ~~~~~~~ld~~Q~AlKi~~NS~YGy~G~~~~r~~~~~~A~~IT~~GR~~l~~t~~~ie~~g~~VIYGDTDSvfv~~~~-- 576 (787)
T PRK05761 499 DEERRAWYDVVQRALKVFLNASYGVFGAENFKLYRIEVAESITALGREILLSTKKKAEELGLKVLYGDTDSLFVWGPT-- 576 (787)
T ss_pred CHHHHHHHHHHHHhheeeeecccccccccCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHcCCEEEEEeCceEEEECCC--
Confidence 788999999999999999999999999999999999999999999999999999999999999999999999999764
Q ss_pred HHHHHHHHHHHHHHHhhcCccEEEEeeehhhHhhcc-ccccceEEEeeecCCCceeeeeeeecceeecCChHHHHHHHHH
Q psy1361 797 YDSVFKIGNQIKSECNKLYKQLELDIDGVYKYMLLL-KKKKYAALSISKLSNGKMICSQEIKGVDVVRRDWSQLASEAGK 875 (1274)
Q Consensus 797 ~eea~kig~eI~~~VN~~~~~LeLe~E~vy~~lLLl-~KKrYA~l~~~~~~dG~~~~~~evKGle~vRRD~c~l~K~~~~ 875 (1274)
.+++. ++.++|++.+ +|+||+|++|++++|. +||||||+. .+|+ +++||+++||||||+|+|++++
T Consensus 577 ~~~~~----~l~~~i~~~~-~i~LE~Ek~y~~~l~~~~KKrYag~~----~dgk----i~~KG~e~vRrD~~~~~k~~~~ 643 (787)
T PRK05761 577 KESLE----ELIKEIEERT-GIDLEVDKTYDWVAFSGLKKNYFGVL----KDGK----VKIKGIVAKKRNTPEFVKELQR 643 (787)
T ss_pred HHHHH----HHHHHHHHhC-CCceEEEEEEEEEEEecccceEEEEe----cCCe----EEEEEEEEEeCCchHHHHHHHH
Confidence 34444 4555565555 4999999999999885 999999996 3564 5899999999999999999999
Q ss_pred HHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcccceeeecccCCccccCCCCCchHHHHHHHHhhhCCCC
Q psy1361 876 FVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTDRKALPHVQVALRLNNTNSKK 955 (1274)
Q Consensus 876 ~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK~pe~Y~d~~~~PHV~vAlrl~~~~G~~ 955 (1274)
++|+.||.++++++ ..++++.+++++++.+.+|++|++|+++|+|+++|+|++++|... .+|||++|+++. +.|..
T Consensus 644 ~vl~~ll~~~~~~~--~~~~~~~~~~~v~~~~~~l~~g~~~~~~lvi~k~l~k~~~~Y~~~-~~~hv~aa~~~~-~~g~~ 719 (787)
T PRK05761 644 EVLEVLKSIRSPED--VEKVKDEIEDVLKRYYEKLRAKDYPLDELAIRVRLSKPLDEYTKN-TPQHVKAALQLR-DYGVE 719 (787)
T ss_pred HHHHHHhcCCChhH--HHHHHHHHHHHHHHHHHHHHcCCCCHHHEEEEeeecCCHHHhcCC-CchHHHHHHHHH-hCCCC
Confidence 99999999988222 234566899999999999999999999999999999999999864 469999999986 47899
Q ss_pred CCCCCEEEEEEEeCCCCCcccccccChHHHhhCCCccccHHHHHhccchHHHHHhccccCCCChhHH
Q psy1361 956 LKQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVVTRLLEPIEGTDAVRI 1022 (1274)
Q Consensus 956 v~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~~~~l~iD~eYYl~kQI~Ppv~Rl~~pi~G~d~~~i 1022 (1274)
+.+||+|+|||++++. ++. |-++. ...+||++||++ ||.|++.||+.+| |++...|
T Consensus 720 ~~~Gd~I~YVi~~~~~------~~~-p~~~~--~~~~iD~~yYi~-~l~~~~~~il~~~-g~~~~~l 775 (787)
T PRK05761 720 VSPGDIISYVKVDDKR------GVK-PVQLA--KLSEIDVEKYIE-LLRSALEQILSAL-GVSWDDI 775 (787)
T ss_pred CCCCCEEEEEEEcCCC------CCC-hhhhc--ccCCcCHHHHHH-HHHHHHHHHHHHh-CCCHHHH
Confidence 9999999999997643 233 33342 456899999997 9999999999998 8886665
No 14
>PRK05762 DNA polymerase II; Reviewed
Probab=100.00 E-value=2.5e-78 Score=758.51 Aligned_cols=397 Identities=31% Similarity=0.508 Sum_probs=344.8
Q ss_pred chhhhccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCccCcCccCCcccccccccCCCCCcccCCceeeccccccc
Q psy1361 560 IRITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGFY 639 (1274)
Q Consensus 560 ~qLt~IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~~~~~~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~GlY 639 (1274)
.++++|+|++|.+++ |++.++|++|||++|++||++|++... ....|.||+|++|++|||
T Consensus 355 ~ela~l~g~~~~~v~--~~~~~~e~lll~~~~~~g~v~P~~~~~------------------~~~~y~Gg~V~~p~~G~y 414 (786)
T PRK05762 355 LERATVTGLPLDRVG--GSVAAFEHLYLPRAHRAGYVAPNLGER------------------PGEASPGGYVMDSKPGLY 414 (786)
T ss_pred HHHHHHhCcCHHHhC--ccHHhHHHHHHHHHHHCCEeCCCcccc------------------cccccCccEEecCCCCCc
Confidence 789999999999975 677788999999999999999987421 135799999999999999
Q ss_pred ceeEEEeeccccChhHHHHhccccccccccccCCCcccccc--ccCCcccccCCCcHHHHHHHHHHHHHHHHHhcCCCCC
Q psy1361 640 DKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSDITTLC--EYLPEHQVDTGILPSEIKKLVESRRQVKALMKQPNLS 717 (1274)
Q Consensus 640 d~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~~~~~ip--~~~~~~~~~~GILP~iL~~Lle~R~~vK~~mK~~~~~ 717 (1274)
++ |++|||+|||||||++|||||+|++...+.+ +.+.++ .+..+. .+.||||++|+.|++.|+++|+.|++
T Consensus 415 ~~-V~~lDF~SLYPSIi~~~Ni~p~T~~~~~~~~-~~~~~~~~~~~~f~-k~~gilp~~l~~l~~~R~~~K~~~~~---- 487 (786)
T PRK05762 415 DS-VLVLDFKSLYPSIIRTFNIDPDGLVEGLAQP-PEESVAGFLGARFS-REKHFLPEIVERLWEGRDEAKREMNK---- 487 (786)
T ss_pred Cc-eEEEEchhhhHHHHHHhCcCccceecCCCCC-CcccccCCCCcccc-ccCcchHHHHHHHHHHHHHHHHHHHH----
Confidence 97 9999999999999999999999998654321 111222 112222 38999999999999999999999975
Q ss_pred hHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcCccceeccccceeeecC-CCC
Q psy1361 718 SDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEVIYGDTDSLMISCN-VND 796 (1274)
Q Consensus 718 ~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g~~VIYGDTDSImI~~~-~~d 796 (1274)
.+|+|+|++|||+|||||++++||||+++|++||+.||++|+.|+++++++|++|||||||||||+++ ..+
T Consensus 488 --------~~q~a~Ki~~Ns~YG~~g~~~~r~~~~~~A~~it~~Gr~~l~~~~~~~~~~g~~viYgDTDSifv~~~~~~~ 559 (786)
T PRK05762 488 --------PLSQAIKIIMNAFYGVLGSSGCRFFDPRLASSITMRGHEIMKQTRELIEAQGYQVIYGDTDSTFVWLGGAHD 559 (786)
T ss_pred --------HHHHHHHhhhhhcccccccccccccChHHHHHHHHhHHHHHHHHHHHHHHCCCEEEeecCCceEEEcCCCCC
Confidence 58999999999999999999999999999999999999999999999999999999999999999997 568
Q ss_pred HHHHHHHHHHHHHHHhhcCc-----------cEEEEeeehhhHhhcc--------ccccceEEEeeecCCCceeeeeeee
Q psy1361 797 YDSVFKIGNQIKSECNKLYK-----------QLELDIDGVYKYMLLL--------KKKKYAALSISKLSNGKMICSQEIK 857 (1274)
Q Consensus 797 ~eea~kig~eI~~~VN~~~~-----------~LeLe~E~vy~~lLLl--------~KKrYA~l~~~~~~dG~~~~~~evK 857 (1274)
.+++.++|++|+++||+.|+ +|+||+|++|.+++|+ +||||||+.+...++| ++++|
T Consensus 560 ~~~~~~~~~~l~~~in~~~~~~l~~~~~~~~~l~le~E~vy~~~~l~~~rg~~~~~KKrYag~~~~~~~~~----~~~~K 635 (786)
T PRK05762 560 EEDAAKIGRALVQEINQWWQEHLQQEFGLESALELEFEKHYRRFFMPTIRGAEEGSKKRYAGLIQEGDGDG----RIVFK 635 (786)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhhhccCCCceEEEEeeeeehhccccccccchhhhheEEEEEEccCCCc----eEEEE
Confidence 89999999999999998543 6999999999999995 9999999998544444 46899
Q ss_pred cceeecCChHHHHHHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcccceeeecccCCccccCCCC
Q psy1361 858 GVDVVRRDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTDRK 937 (1274)
Q Consensus 858 Gle~vRRD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK~pe~Y~d~~ 937 (1274)
|+++||||||+|+|++++++|+.||.+++ . +++++++.++|++|++| ++|+|+|+|+|++++|.. +
T Consensus 636 Gle~vRrD~~~~~k~~~~~vl~~il~~~~-----~-------~~~~~~~~~~l~~~~~~-~~lv~~k~l~k~~~~Y~~-~ 701 (786)
T PRK05762 636 GLETVRTDWTPLAKEFQQELYERIFRGEP-----Y-------VDYVREVIDKLRAGELD-EKLVYRKRLRRPLDEYQR-N 701 (786)
T ss_pred eeEEECCChHHHHHHHHHHHHHHHhcCCC-----H-------HHHHHHHHHHHHcCCCc-hhEEEEehcCCCHHHcCC-C
Confidence 99999999999999999999999999888 3 67888899999999999 999999999999999984 5
Q ss_pred CchHHHHHHHHhhhCCCC------CCCCCEEEEEEEeCCCCCcccccccChHHHhhCCCccccHHHHHhccchHHHHHhc
Q psy1361 938 ALPHVQVALRLNNTNSKK------LKQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVVTRLL 1011 (1274)
Q Consensus 938 ~~PHV~vAlrl~~~~G~~------v~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~~~~l~iD~eYYl~kQI~Ppv~Rl~ 1011 (1274)
.+|||++|+++++. |.. ++.|++|+||||..|++ +.. . .+++||++|||++||.|++.||+
T Consensus 702 ~~phv~aa~~~~~~-~~~~~~~~~~~~g~~I~Yvi~~~g~~-~~~--------~---~~~~iD~~yYi~kql~p~~~ril 768 (786)
T PRK05762 702 VPPHVRAARLADEM-GYKVGRPLQYQNGGKIGYVITVNGPE-PLE--------Y---RKSPIDYDYYIEKQLQPVADRIL 768 (786)
T ss_pred CCHHHHHHHHHHhc-CcccCCcccCCCCCEEEEEEEeCCCC-cHH--------h---cCCCCCHHHHHHHhhHHHHHHHH
Confidence 68999999998763 332 35899999999865543 221 1 25789999999999999999999
Q ss_pred cccCCCChhHHH
Q psy1361 1012 EPIEGTDAVRIA 1023 (1274)
Q Consensus 1012 ~pi~G~d~~~ia 1023 (1274)
.+| |.+...|.
T Consensus 769 ~~~-~~~~~~~~ 779 (786)
T PRK05762 769 PFF-GDDFATLK 779 (786)
T ss_pred hhh-CCCHHHHh
Confidence 988 88866653
No 15
>cd05537 POLBc_Pol_II DNA polymerase type-II subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as repair of DNA damaged by UV irradiation or oxidation has been proven by genetic studies. DNA polymerase III is the main enzyme responsible for replication of the bacterial chromosome; however, In vivo studies have also shown that Pol II is able to participate in chromosomal DNA replication with larger role in lagging-strand replication.
Probab=100.00 E-value=6.9e-77 Score=688.22 Aligned_cols=344 Identities=29% Similarity=0.474 Sum_probs=296.6
Q ss_pred ccCCceeecccccccceeEEEeeccccChhHHHHhccccccccccccCCCccccccc--cCCcccccCCCcHHHHHHHHH
Q psy1361 625 AYSGGLVLEPKKGFYDKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSDITTLCE--YLPEHQVDTGILPSEIKKLVE 702 (1274)
Q Consensus 625 ~Y~GGlVlePk~GlYd~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~~~~~ip~--~~~~~~~~~GILP~iL~~Lle 702 (1274)
.++||+|++|++|||++ |++|||+|||||||++|||||+|++...+.......++. +..+ ..+.||||++|+.|++
T Consensus 2 ~~~Gg~V~eP~~G~y~~-V~vlDF~SLYPSII~~~Ni~p~t~~~~~~~~~~~~~~~~~~~~~f-~~~~Gilp~~l~~l~~ 79 (371)
T cd05537 2 SSPGGYVMDSKPGLYKN-VLVLDFKSLYPSIIRTFLIDPLGLIEGLKAPDPEDLIPGFLGARF-SREKHILPDLIARLWA 79 (371)
T ss_pred CCCCcEEeCCCCCccCc-eEEEEcccccHHHHHHhCCCCceecCCCCCCCccccccCCCCCeE-ecCCCchHHHHHHHHH
Confidence 46899999999999997 999999999999999999999999765442211122222 1111 2356999999999999
Q ss_pred HHHHHHHHhcCCCCChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcCcccee
Q psy1361 703 SRRQVKALMKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEVIY 782 (1274)
Q Consensus 703 ~R~~vK~~mK~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g~~VIY 782 (1274)
.|+++|+.|+. .+|+|||++|||+|||+|++++||||+++|++||+.||++|+.|+++++++|++|||
T Consensus 80 ~R~~~K~~~~~------------~~q~AlKi~~Ns~YG~~g~~~~r~~~~~~A~~iT~~GR~~l~~~~~~~e~~g~~ViY 147 (371)
T cd05537 80 ARDEAKREKNA------------PLSQAIKIIMNSFYGVLGSTGCRFFDPRLASSITLRGHEIMKQTRAWIEQQGYQVIY 147 (371)
T ss_pred HHHHHHHhccH------------HHHHhHhhheecceeecccccccccChHHHHHHHHHHHHHHHHHHHHHHHcCCEEEE
Confidence 99999998753 379999999999999999999999999999999999999999999999999999999
Q ss_pred ccccceeeecCC-CCHHHHHHHHHHHHHHHhhcCc-----------cEEEEeeehhhHhhcc--------ccccceEEEe
Q psy1361 783 GDTDSLMISCNV-NDYDSVFKIGNQIKSECNKLYK-----------QLELDIDGVYKYMLLL--------KKKKYAALSI 842 (1274)
Q Consensus 783 GDTDSImI~~~~-~d~eea~kig~eI~~~VN~~~~-----------~LeLe~E~vy~~lLLl--------~KKrYA~l~~ 842 (1274)
||||||||+++. .+.+++.++|++|++.||+.|+ +++||||++|.++||+ +||||||+.+
T Consensus 148 gDTDSvfV~~~~~~~~~~~~~~~~~l~~~In~~~~~~~~~~~~~~~~l~Le~Ekvy~~~ll~~~~~~~~~~KKrYag~~~ 227 (371)
T cd05537 148 GDTDSTFVWLGEELDAAEAQAIGKELASQINQWWAQKLKEEFGLESFLEIEFETHYSRFFMPTIRGSDEGSKKRYAGLKS 227 (371)
T ss_pred ecCCceEEecCCCCCHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCceEEEeeeeeeeeeeccccccccccceEEEEEE
Confidence 999999999986 6789999999999999998652 5899999999999986 7999999987
Q ss_pred eecCCCceeeeeeeecceeecCChHHHHHHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCccccee
Q psy1361 843 SKLSNGKMICSQEIKGVDVVRRDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEI 922 (1274)
Q Consensus 843 ~~~~dG~~~~~~evKGle~vRRD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI 922 (1274)
+ .++| ++++||+++||||||+|+|++++++|+.||.+++ . +++++++..+|++|++| ++|+|
T Consensus 228 ~-~~~~----~i~~KGle~vRrD~~~l~k~~~~~vl~~il~~~~-----~-------~~~~~~~~~~l~~g~~~-~~lvi 289 (371)
T cd05537 228 T-DGGD----ELVFKGLETVRSDWTPLARQFQKELYERVFNDEP-----Y-------EGFIKETVEELLAGELD-ELLVY 289 (371)
T ss_pred E-CCCc----EEEeecceeEecchHHHHHHHHHHHHHHHhcCCC-----H-------HHHHHHHHHHHHcCCCc-hHhEE
Confidence 6 3344 4689999999999999999999999999999887 3 46677888899999999 99999
Q ss_pred eecccCCccccCCCCCchHHHHHHHHhhhCCCC---CCCCCEEEEEEEeCCCCCcccccccChHHHhhCCCccccHHHHH
Q psy1361 923 TKQLTKAPEEYTDRKALPHVQVALRLNNTNSKK---LKQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYL 999 (1274)
Q Consensus 923 ~K~LsK~pe~Y~d~~~~PHV~vAlrl~~~~G~~---v~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~~~~l~iD~eYYl 999 (1274)
+++|+|+|++|.. +.+|||+||+++++ .|.. +.+||+|+|||+.+|+. + . + ...++||++|||
T Consensus 290 ~k~L~k~~~~Y~~-~~~phv~aa~~~~~-~~~~~~~~~~gd~I~YVi~~~g~~-~-------~-~---~~~~~iD~~yYi 355 (371)
T cd05537 290 RKRLRRPLSEYTK-NVPPHVQAARLADQ-INRELGRPRQYQWIEYVITVNGPE-P-------L-E---YRTSPLDYQHYI 355 (371)
T ss_pred ehhcCCCHHHcCC-CCCcHHHHHHHHHh-cCCccCCCCCCCEEEEEEecCCcc-h-------H-h---hcCCCCCHHHHH
Confidence 9999999999974 45799999999875 5543 46799999999986532 1 1 1 135799999999
Q ss_pred hccchHHHHHhcccc
Q psy1361 1000 SQQIHPVVTRLLEPI 1014 (1274)
Q Consensus 1000 ~kQI~Ppv~Rl~~pi 1014 (1274)
++||+|++.|||.++
T Consensus 356 ~~qi~p~~~ril~~~ 370 (371)
T cd05537 356 DKQLKPIADSILPFL 370 (371)
T ss_pred HhccHHHHHHHHHhc
Confidence 999999999999876
No 16
>cd05530 POLBc_B1 DNA polymerase type-B B1 subfamily catalytic domain. Archaeal proteins that are involved in DNA replication are similar to those from eukaryotes. Some archaeal members also possess multiple family B DNA polymerases (B1, B2 and B3). So far there is no specific function(s) has been assigned for different members of the archaea type B DNA polymerases. Phylogenetic analyses of eubacterial, archaeal, and eukaryotic family B DNA polymerases are support independent gene duplications during the evolution of archaeal and eukaryotic family B DNA polymerases.
Probab=100.00 E-value=4.4e-75 Score=672.02 Aligned_cols=359 Identities=27% Similarity=0.426 Sum_probs=303.8
Q ss_pred CcccCCceeecccccccceeEEEeeccccChhHHHHhccccccccccccCCCcccccccc-CCcccccCCCcHHHHHHHH
Q psy1361 623 KAAYSGGLVLEPKKGFYDKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSDITTLCEY-LPEHQVDTGILPSEIKKLV 701 (1274)
Q Consensus 623 k~~Y~GGlVlePk~GlYd~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~~~~~ip~~-~~~~~~~~GILP~iL~~Ll 701 (1274)
..+|+||+||+|++|||++ |++|||+|||||||++|||||+|++...+.+ ....+|.. ......+.||+|++|+.|+
T Consensus 10 ~~~y~Gg~V~~P~~G~y~~-V~~lDF~SLYPSIi~~~Ni~~~T~~~~~~~~-~~~~~p~~~~~~~~~~~Gilp~il~~L~ 87 (372)
T cd05530 10 GKKYRGAIVLEPPPGIFFN-VVVLDFASLYPSIIKVWNLSYETVNCPHCEC-KTNEVPEVGHWVCKKRPGITSQIIGLLR 87 (372)
T ss_pred CCCCCCCEeecCCCCcccc-EEEEEcccccHHHHHHhCCChhhcccCcccc-cceecCCCCceEEecCCCccHHHHHHHH
Confidence 4689999999999999999 9999999999999999999999999765421 12334441 1122468999999999999
Q ss_pred HHHHHHH-HHhcCCCCChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcCccc
Q psy1361 702 ESRRQVK-ALMKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEV 780 (1274)
Q Consensus 702 e~R~~vK-~~mK~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g~~V 780 (1274)
+.|+++| ++|+....+|+++.+||.+|+|+||+|||+|||+|+.++||||+++|++||+.||++|+.|+++++++|++|
T Consensus 88 ~~R~~~~k~~~k~~~~d~~~~~~ld~~Q~alKi~~NS~YG~~g~~~~~~~~~~~A~~it~~GR~~l~~~~~~~~~~g~~V 167 (372)
T cd05530 88 DLRVKIYKKKAKDKSLDEEMRQWYDVVQSAMKVFINASYGVFGAENFPLYCPPVAESTTALGRYIITSTIKKARELGLKV 167 (372)
T ss_pred HHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHHHHhccccccccccCCCCcHHHHHHHHHHHHHHHHHHHHHHHHCCcEE
Confidence 9999865 455554448999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeccccceeeecCCCCHHHHHHHHHHHHHHHhhcCccEEEEeeehhhHhhcc-ccccceEEEeeecCCCceeeeeeeecc
Q psy1361 781 IYGDTDSLMISCNVNDYDSVFKIGNQIKSECNKLYKQLELDIDGVYKYMLLL-KKKKYAALSISKLSNGKMICSQEIKGV 859 (1274)
Q Consensus 781 IYGDTDSImI~~~~~d~eea~kig~eI~~~VN~~~~~LeLe~E~vy~~lLLl-~KKrYA~l~~~~~~dG~~~~~~evKGl 859 (1274)
||||||||||+.+. .+.+ ++|.++|++.+ +++||+|++|++++|. +||||||+. .+|+ +++||+
T Consensus 168 IYGDTDSvfv~~~~--~~~~----~~i~~~i~~~~-~i~le~E~~y~~~ll~~~KKrY~g~~----~~gk----i~~KGi 232 (372)
T cd05530 168 LYGDTDSLFLWNPP--QEQL----EDLVEWVEKEL-GLDLELDKEYRYVVFSGLKKNYLGVT----KDGS----VDIKGL 232 (372)
T ss_pred EEEeccceEEecCC--hhHH----HHHHHHHhhcc-CceEEEEEEEeeeeeccccccEEEEe----cCCc----EEEEeE
Confidence 99999999999764 2333 45566677666 5999999999987775 799999984 3564 589999
Q ss_pred eeecCChHHHHHHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcccceeeecccCCccccCCCCCc
Q psy1361 860 DVVRRDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTDRKAL 939 (1274)
Q Consensus 860 e~vRRD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK~pe~Y~d~~~~ 939 (1274)
+++|||||+|+|++++++|+.||.+++.++ .+++++.+++++++...+|++|++|+++|+|+++|+|+|++|... .+
T Consensus 233 e~~RrD~~~~~k~~~~~vl~~ll~~~~~~~--~~~~~~~i~~~~~~~~~~l~~g~~~~~~lvi~k~L~K~~~~Y~~~-~~ 309 (372)
T cd05530 233 LGKKRNTPEFVKELFYEVIEILSAVNSPED--FEKAREKIRDIVKGVYKRLKKKEYTLDQLAFKVMLSKPPEEYTKN-TP 309 (372)
T ss_pred EEEeCCchHHHHHHHHHHHHHHHhcCChHH--HHHHHHHHHHHHHHHHHHHHcCCCCHHHheeehhccCCHHHhcCC-CC
Confidence 999999999999999999999999876222 346677899999999999999999999999999999999999854 57
Q ss_pred hHHHHHHHHhhhCCCCCCCCCEEEEEEEeCCCCCcccccccChHHHhhCCCccccHHHHHhccchHHHHHhcc
Q psy1361 940 PHVQVALRLNNTNSKKLKQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVVTRLLE 1012 (1274)
Q Consensus 940 PHV~vAlrl~~~~G~~v~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~~~~l~iD~eYYl~kQI~Ppv~Rl~~ 1012 (1274)
|||+||++|.+ .|..+++|++|+|||+.+..+. .|-+.. ....||++|||+ +|.+++++|++
T Consensus 310 phv~aa~~~~~-~g~~~~~G~~I~YVi~~~~~~~-------~p~~~~--~~~~iD~~yYi~-~l~~a~~~i~~ 371 (372)
T cd05530 310 QHVKAARQLEK-YGRNVEAGDIISYVKVKGKEGV-------KPVQLA--RLDEVDVEKYVE-IMRSTLEQILG 371 (372)
T ss_pred HHHHHHHHHHh-cCCCCCCCCEEEEEEEeCCCCC-------chhhhc--cCCCCCHHHHHH-HHHHHHHHHhc
Confidence 99999998865 6899999999999999764432 232321 234799999997 59999999875
No 17
>cd00145 POLBc DNA polymerase type-B family catalytic domain. DNA-directed DNA polymerases elongate DNA by adding nucleotide triphosphate (dNTP) residues to the 5'-end of the growing chain of DNA. DNA-directed DNA polymerases are multifunctional with both synthetic (polymerase) and degradative modes (exonucleases) and play roles in the processes of DNA replication, repair, and recombination. DNA-dependent DNA polymerases can be classified in six main groups based upon their phylogenetic relationships with E. coli polymerase I (class A), E. coli polymerase II (class B), E. coli polymerase III (class C), euryarchaeota polymerase II (class D), human polymerase beta (class x), E. coli UmuC/DinB, and eukaryotic RAP 30/Xeroderma pigmentosum variant (class Y). Family B DNA polymerases include E. coli DNA polymerase II, some eubacterial phage DNA polymerases, nuclear replicative DNA polymerases (alpha, delta, epsilon, and zeta), and eukaryotic viral and plasmid-borne enzymes. DNA polymerase is
Probab=100.00 E-value=7.4e-73 Score=645.67 Aligned_cols=321 Identities=35% Similarity=0.525 Sum_probs=283.7
Q ss_pred ccCCceeecccccccceeEEEeeccccChhHHHHhccccccccccccCCCccccccccCCcccccCCCcHHHHHHHHHHH
Q psy1361 625 AYSGGLVLEPKKGFYDKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSDITTLCEYLPEHQVDTGILPSEIKKLVESR 704 (1274)
Q Consensus 625 ~Y~GGlVlePk~GlYd~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~~~~~ip~~~~~~~~~~GILP~iL~~Lle~R 704 (1274)
+|+||+|++|++|+|++ |++|||+|||||||++|||||+|++...+.......+...+..+..++||+|.+|+.|++.|
T Consensus 2 ~y~Gg~V~~P~~G~~~~-V~~lDf~SLYPSIi~~~Ni~~~T~~~~~~~~~~~~~~~~~~~~~~~~~Gilp~iL~~Ll~~R 80 (323)
T cd00145 2 PYEGGYVFDPIPGLYEN-VIVLDFKSLYPSIIITYNLSPTTLVGNGEIAAPEDYIGVGFRSPKDRKGLLPRILEELLNFR 80 (323)
T ss_pred CCCCcEEecCcccccCc-eEEeecCCccHHHHHHhCCCcccccccccccCcccccCccccccCCCCCCCHHHHHHHHHHH
Confidence 69999999999999985 99999999999999999999999997654321111111124455779999999999999999
Q ss_pred HHHHHHhcCCCCChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcCccceecc
Q psy1361 705 RQVKALMKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEVIYGD 784 (1274)
Q Consensus 705 ~~vK~~mK~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g~~VIYGD 784 (1274)
+++|+.|++.+.++.++.+||.+|+|+|++|||+|||+|+++||||+.++|++||+.||++|++|+++++++|++|||||
T Consensus 81 ~~~K~~mk~~~~~~~~~~~~d~~Q~AlKi~~NS~YG~~G~~~~r~~~~~~A~~IT~~GR~~l~~~~~~ie~~g~~VIYGD 160 (323)
T cd00145 81 DEAKKRMKAAKLAPEERVLYDNRQQALKVLANSFYGYLGAKFFRFYDPEVAASITSFGREIIQDTIALVEEHGARVIYGD 160 (323)
T ss_pred HHHHHHHhhCcCCHHHHHHHHHHhhhhheeeecceeecccccccCCChHHHHHHHHHHHHHHHHHHHHHHHcCCEEEEEC
Confidence 99999999976679999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccceeeecCC-CCHHHHHHHHHHHHHHHhhcCccEEEEeeehhhHhhccccccceEEEeeecCCCceeeeeeeecceeec
Q psy1361 785 TDSLMISCNV-NDYDSVFKIGNQIKSECNKLYKQLELDIDGVYKYMLLLKKKKYAALSISKLSNGKMICSQEIKGVDVVR 863 (1274)
Q Consensus 785 TDSImI~~~~-~d~eea~kig~eI~~~VN~~~~~LeLe~E~vy~~lLLl~KKrYA~l~~~~~~dG~~~~~~evKGle~vR 863 (1274)
||||||.++. .+.+++.++|+++.+.| ..+.+|+||+|++|.++++++||||||+.+++. ....++++||+++||
T Consensus 161 TDSifv~~~~~~~~~~~~~~~~~~~~~i-~~~~~i~le~E~vy~~~ll~~KKrYag~~~~~~---~~~~~~~~KG~e~vR 236 (323)
T cd00145 161 TDSIFVSLPKMGTKEDAIKEGREILQEL-ADEHLLELEFEKVYLPFFLGKKKRYAGLDIWKG---QDEGKIDIKGLETRR 236 (323)
T ss_pred CCceEEEeCCCCCHHHHHHHHHHHHHHh-CCCCCeEEEEchhhHHHHHhhhhhEEEEEEEcC---CCCceEEEEcceEEe
Confidence 9999999988 78999999999999999 456789999999999999999999999998752 223467999999999
Q ss_pred CChHHHHHHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcccceeeecccCCccccCCCCCchHHH
Q psy1361 864 RDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTDRKALPHVQ 943 (1274)
Q Consensus 864 RD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK~pe~Y~d~~~~PHV~ 943 (1274)
||||+|+|++++++|+.||.+++ +++.+++++.++
T Consensus 237 rD~~~~~k~~~~~vl~~ll~~~~--------~~~~v~~~~~~l------------------------------------- 271 (323)
T cd00145 237 RDSPPLVKKFQKEVLELILEEER--------KVEAVKEYIDEL------------------------------------- 271 (323)
T ss_pred cCcHHHHHHHHHHHHHHHHcCCc--------hHHHHHHHHHHh-------------------------------------
Confidence 99999999999999999999522 255566665554
Q ss_pred HHHHHhhhCCCCCCCCCEEEEEEEeCCCCCcccccccChHHHhhCCCccccHHHHHhccchHHHHHhcc
Q psy1361 944 VALRLNNTNSKKLKQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVVTRLLE 1012 (1274)
Q Consensus 944 vAlrl~~~~G~~v~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~~~~l~iD~eYYl~kQI~Ppv~Rl~~ 1012 (1274)
|+|+|||++++++.++.+||++|+++. +..++||++||+++|++||+.||++
T Consensus 272 ----------------~~i~yvi~~~~~~~~~~~ra~~~~~~~-~~~~~iD~~yY~~~~~~~~~~ri~~ 323 (323)
T cd00145 272 ----------------DKVKYVVTRGGKGVPDYERADPPLEDL-DKRHRIDYEYYLERLLQPPLERIFE 323 (323)
T ss_pred ----------------ccccEEEEcCCCCCCcccccCChhhhc-ccCCCCChHHHHHhccHhHHHHhcC
Confidence 899999999877777789999998775 4678999999999999999999984
No 18
>cd05538 POLBc_Pol_II_B DNA polymerase type-II B subfamily catalytic domain. Bacteria contain five DNA polymerases (I, II, III, IV and V). DNA polymerase II (Pol II) is a prototype for the B-family of polymerases. The role of Pol II in a variety of cellular activities, such as repair of DNA damaged by UV irradiation or oxidation has been proved by genetic studies. DNA polymerase III is the main enzyme responsible for replication of the bacterial chromosome; however, In vivo studies have also shown that Pol II is able to participate in chromosomal DNA replication with larger role in lagging-strand replication.
Probab=100.00 E-value=1.2e-72 Score=647.93 Aligned_cols=338 Identities=24% Similarity=0.351 Sum_probs=294.1
Q ss_pred ccCCceeecccccccceeEEEeeccccChhHHHHhccccccccccccCCCccccccccCCcccccCCCcHHHHHHHHHHH
Q psy1361 625 AYSGGLVLEPKKGFYDKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSDITTLCEYLPEHQVDTGILPSEIKKLVESR 704 (1274)
Q Consensus 625 ~Y~GGlVlePk~GlYd~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~~~~~ip~~~~~~~~~~GILP~iL~~Lle~R 704 (1274)
+|+||+|++|.+|+|++ |++|||+|||||||++|||||+ ..+.||+|.+|+.|++.|
T Consensus 2 ~~~GG~v~~p~~Gl~~~-V~~lDf~SLYPSIi~~~ni~p~----------------------~~~~Gilp~il~~Ll~~R 58 (347)
T cd05538 2 KFEGGYAYVFITGVLGP-IVHADVASLYPSIMLAYRICPA----------------------RDSLGIFLALLKYLVELR 58 (347)
T ss_pred CcCCceEcccCCcCcCc-eEEEEcccchHHHHHHhCCCCC----------------------CCCCcccHHHHHHHHHHH
Confidence 58999999999999998 9999999999999999999985 126799999999999999
Q ss_pred HHHHHHhcCCCCChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcCccceecc
Q psy1361 705 RQVKALMKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEVIYGD 784 (1274)
Q Consensus 705 ~~vK~~mK~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g~~VIYGD 784 (1274)
.++|+.||+ ..++.++.+||.+|+|+|+++||+|||||+.++||||+++|++||+.||++|+.|+++++++|++|||||
T Consensus 59 ~~~K~~~k~-~~~~~~~~~~d~~Q~AlKi~~NS~YG~lG~~~~r~~~~~~A~~iT~~GR~~L~~~~~~~e~~g~~VIygD 137 (347)
T cd05538 59 LAAKESARA-AARPAERDAFKAKQAAFKVLINSFYGYLGTGLHAFSDPEAAAEVTRLGRELLKLMIRWLRRRGATPVEVD 137 (347)
T ss_pred HHHHHHHhc-CCChHHHHHHHHHHHHHhhhhhhchhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHCCCEEEEEc
Confidence 999999998 4578899999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccceeeecCCC-C-HHHHHHHHHHHHHHHhhcC-ccEEEEeeehhhHhhccccccceEEEeeecCCCceeeeeeeeccee
Q psy1361 785 TDSLMISCNVN-D-YDSVFKIGNQIKSECNKLY-KQLELDIDGVYKYMLLLKKKKYAALSISKLSNGKMICSQEIKGVDV 861 (1274)
Q Consensus 785 TDSImI~~~~~-d-~eea~kig~eI~~~VN~~~-~~LeLe~E~vy~~lLLl~KKrYA~l~~~~~~dG~~~~~~evKGle~ 861 (1274)
||||||..+.. + .+++ +++.++|++.+ .+|+||+|++|.+||+++|||||++. .+|+ +++||+++
T Consensus 138 TDSi~v~~~~~~~~~~~~----~~~~~~i~~~~~~~i~le~e~~y~~~l~~~KKrYa~~~----~~gk----i~~KG~e~ 205 (347)
T cd05538 138 TDGIYFIPPNGVDTEDEE----EELVRELSSTLPKGITVEFDGRYRAMFSYKIKNYALLD----YDGK----LIVKGSAF 205 (347)
T ss_pred CCeeEEEeCCCCChHHHH----HHHHHHHHHhCCCCeEEEEhHHHHHHHhhcCceEEEEe----cCCc----EEEECCCc
Confidence 99999987643 2 3343 45556666554 58999999999999999999999974 3565 47999999
Q ss_pred ecCChHHHHHHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcccceeeecccCCccccCCCC--Cc
Q psy1361 862 VRRDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEYTDRK--AL 939 (1274)
Q Consensus 862 vRRD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK~pe~Y~d~~--~~ 939 (1274)
||||||+|+|++++++|+.||.+.. +.++++++++.++|++|++|+++|+|+++|+|+|++|.++. ..
T Consensus 206 vRrD~~~~~k~~~~~vl~~ll~~~~----------~~~~~~~~~~~~~l~~~~~~~~~l~i~k~l~k~~~~Y~~~~~~~~ 275 (347)
T cd05538 206 RSRGIEPFLREFLREAVRLLLQGDG----------AGVHDLYEDYLRRLRSHELPISDLARTETLKESPEEYLQKVRAGK 275 (347)
T ss_pred ccCCchHHHHHHHHHHHHHHHcCCh----------HHHHHHHHHHHHHHHcCCCCHHHEEEEeecCCCHHHHhhhhhccc
Confidence 9999999999999999999997543 46788999999999999999999999999999999996542 22
Q ss_pred hHHHHHHHHhhhCCCCCCCCCEEEEEEEeCCCCCcccccccChHHHhhCCCccccHHHHHhccchHHHHHh
Q psy1361 940 PHVQVALRLNNTNSKKLKQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVVTRL 1010 (1274)
Q Consensus 940 PHV~vAlrl~~~~G~~v~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~~~~l~iD~eYYl~kQI~Ppv~Rl 1010 (1274)
+|..+|.++....|..+++||+|+|||++++.+.++++||++++++.. +..++|++|||++ |...+.|+
T Consensus 276 ~~~~~a~~~a~~~g~~~~~G~~I~Yvi~~~~~g~~~~~ra~~~~~~~~-~~~~~d~~yY~~~-l~~~~~~~ 344 (347)
T cd05538 276 RNPAAAYEIALARPREWRAGDRVTYYVSGTGKGVSVYENCRLVADYDP-AHPDENTGFYAER-LLQLAARL 344 (347)
T ss_pred CChhHHHHHHHhcCCCCCCCCEEEEEEEeCCCCCCHHHhhccHHHhCC-CccccCHHHHHHH-HHHHHHhh
Confidence 454444444445789999999999999988777788999999988853 4578999999974 66555554
No 19
>PHA02528 43 DNA polymerase; Provisional
Probab=100.00 E-value=1.3e-72 Score=705.03 Aligned_cols=498 Identities=19% Similarity=0.212 Sum_probs=371.5
Q ss_pred CHHHHHHHHHHHHhhcCCCceeeeeeeccccccCCCCCCccceeeEeeccCCCCCCCCCCCCceeeeccCchhHHHHHHh
Q psy1361 444 SIAQVYSEFDQIATQYKILDFKSRKIEKKYAFNLPGVPDLSEYLEVRYSAKCPALPSDLSGDTFSHVFGTKSSFLENLLL 523 (1274)
Q Consensus 444 ~~~dv~~e~~~~~~~~~i~~~~~k~v~r~yaf~~~~vp~~~~yl~v~y~~~~p~lp~~~~G~tfs~vfgt~~s~~E~fll 523 (1274)
++.++++.+. ..++.+|++..|...|--+.. .++.+..+.+.|..+...+-.|.+
T Consensus 257 D~~dl~k~~~----~~~l~SYsLe~VA~~~LG~~K---------------------~d~~~~eI~~l~~~d~~~l~~Ynl 311 (881)
T PHA02528 257 DYLDLYKKFT----FTNQPSYRLDYIAEVELGKKK---------------------LDYSDGPFKKFRETDHQKYIEYNI 311 (881)
T ss_pred eHHHHHHHhh----hcccccCCHHHHHHHHhCCCC---------------------ccCCHHHHHHHHhcCHHHHHHHHH
Confidence 3445555432 236889999999887643311 012245566666666555555655
Q ss_pred hccccCCCeeeccccccCCCccceeEEEEEecccccchhhhccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCccC
Q psy1361 524 ERKIKGPSWLEFPEAEKFPSRISWCKYEVQCNQMEKIRITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQYG 603 (1274)
Q Consensus 524 ~rki~GP~wl~i~~~~~~~~~~swck~e~~~~~~~~~qLt~IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~~ 603 (1274)
++ |.|.+.=..... .-+-..++++++|.++.+++. +....+++|+|++|++|||+|++..
T Consensus 312 ~D-----a~Lv~~L~~kl~------------ll~~~~e~ArltGi~l~~v~s--q~~~~~~lll~~~~r~g~viP~~~~- 371 (881)
T PHA02528 312 ID-----VELVDRLDDKRK------------LIELVLSMAYYAKINFEDVFS--PIKTWDAIIFNSLKEEKIVIPENKS- 371 (881)
T ss_pred HH-----HHHHHHHHHHHH------------HHHHHHHHHHHhCCcHHHhcc--hHhHHHHHHHHHHHHcCcccCCccc-
Confidence 55 222221110000 001126899999999999964 4445689999999999999997642
Q ss_pred cCccCCcccccccccCCCCCcccCCceeecccccccceeEEEeeccccChhHHHHhccccccccccccCCCc--------
Q psy1361 604 KNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGFYDKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSD-------- 675 (1274)
Q Consensus 604 ~~~~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~GlYd~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~~-------- 675 (1274)
+...+|.||+|++|+||||++ |++|||+|||||||++|||||+|+++..+....
T Consensus 372 -----------------~~~~~y~Gg~V~eP~pGlY~~-VvVLDF~SLYPSIIiayNIcp~Tlv~~~~~~~~~~~~~~~~ 433 (881)
T PHA02528 372 -----------------HKKQKYAGAFVKEPVPGAYRW-VVSFDLTSLYPSIIRQVNISPETIAGTFHVAPVHEYINKTA 433 (881)
T ss_pred -----------------cCCCCCCCcEEecCCCCcccc-eEEEeccccChHHHHHhCCChhhcccccccccccccccccc
Confidence 124679999999999999985 999999999999999999999999876431100
Q ss_pred ---ccc---ccccCCcccccCCCcHHHHHHHHHHHHHHHHHhcCCCCC--------------------------------
Q psy1361 676 ---ITT---LCEYLPEHQVDTGILPSEIKKLVESRRQVKALMKQPNLS-------------------------------- 717 (1274)
Q Consensus 676 ---~~~---ip~~~~~~~~~~GILP~iL~~Lle~R~~vK~~mK~~~~~-------------------------------- 717 (1274)
.+. -|++..+.+.++||||++|++|++.|+++|+.|++.+.+
T Consensus 434 ~~~~~~~~~~p~G~~F~k~~~GiLP~iL~~Ll~~R~~~Kk~Mk~~~~~~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~ 513 (881)
T PHA02528 434 PRPSDEYSCSPNGWMYRKDIRGVIPTEIKKVFDQRKIYKKKMLAAERNAELIKTILEDLNDSVDTPIDVDYYFDFSDEFK 513 (881)
T ss_pred CCCCCceeEcCCCCeEeCCCCeehHHHHHHHHHHHHHHHHHHHhccccccccccccccccccccccccccccccchhhhh
Confidence 000 122222335579999999999999999999999764322
Q ss_pred ------------------hHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHH----Hh
Q psy1361 718 ------------------SDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLV----EN 775 (1274)
Q Consensus 718 ------------------~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~v----e~ 775 (1274)
..++++||.+|+|+|++|||+|||||+.++||||.++|++||+.||++|+.++..+ ++
T Consensus 514 ~~~~~~~~~~l~~~~~~~~~~~~~~d~~Q~A~KI~~NS~YG~lG~~~~r~y~~~~A~aiT~~Gr~~I~~i~~~~~e~l~~ 593 (881)
T PHA02528 514 AELKTLTKSSLKALLEECEKEIALCNTIQMARKILINSLYGALGNEHFRYYDLRNAEAITLFGQLAIQWIERKMNEYLNK 593 (881)
T ss_pred hhhcccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHhhhhhccCcCccCCCHHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence 14578999999999999999999999999999999999999999999888666544 32
Q ss_pred ----cC-ccceeccccceeeecCCC-CHH------HHH-------HHH------------HHHHHHHhhcCccEEEEeee
Q psy1361 776 ----LN-YEVIYGDTDSLMISCNVN-DYD------SVF-------KIG------------NQIKSECNKLYKQLELDIDG 824 (1274)
Q Consensus 776 ----~g-~~VIYGDTDSImI~~~~~-d~e------ea~-------kig------------~eI~~~VN~~~~~LeLe~E~ 824 (1274)
.| ++|||||||||||+++.. +.. +.. +++ .++++.+|...+++.+++|+
T Consensus 594 ~~~~~g~~~VIYGDTDSvfV~~~~~~~~~~~~~~~~~~~lv~~~~~~~~~~l~~~~~~~~~el~e~~~~~~~~~~m~~ek 673 (881)
T PHA02528 594 LCKTEDEDYVIYGDTDSIYVNLDPLVEKVGEDKFKDTNHWVDFLDKFCKERMEPYIDSSYRELCEYMNNYEHLMFMDREA 673 (881)
T ss_pred hhcccCCcEEEEEcCCeeEEEeCCcchhhhhccchhHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHhhhccccchhHHH
Confidence 45 699999999999998643 110 011 111 24556666555568999999
Q ss_pred hhhHhhccccccceEEEeeecCCCceeeeeeeecceeecCChHHHHHHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHH
Q psy1361 825 VYKYMLLLKKKKYAALSISKLSNGKMICSQEIKGVDVVRRDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMK 904 (1274)
Q Consensus 825 vy~~lLLl~KKrYA~l~~~~~~dG~~~~~~evKGle~vRRD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~ 904 (1274)
+|.+++|.+||||||+.++.++...-.+++++||+|+||||||+++|++++++++.||.+.+ +.++++++
T Consensus 674 ~~~~~~~~sKKRYAgl~~~~~g~~~~~~kl~~kGlEtvRsD~~~lak~~q~~vi~~Il~~~~----------e~~~~yvk 743 (881)
T PHA02528 674 IAGPGFWTAKKRYALNVWDSEGTRYAEPKLKIMGIETQRSSTPKAVQKALKEAIRRILQEGE----------ESLQEYIK 743 (881)
T ss_pred HhhHhhhhccccEEEEeccCCCcccCCCeEEEecceeeecchHHHHHHHHHHHHHHHHhCCc----------HhHHHHHH
Confidence 99999999999999997654321000246789999999999999999999999999998744 45677788
Q ss_pred HHHHHHhCCCcCcccceeeecccCCcccc------CCCCCchHHHHHH---HHhhh-CCC-CCCCCCEEEEEEEeCCCCC
Q psy1361 905 KIRTDLDNGFVPLTLLEITKQLTKAPEEY------TDRKALPHVQVAL---RLNNT-NSK-KLKQGDTISYIICEDGTSE 973 (1274)
Q Consensus 905 ~~~~kL~~g~vpledlvI~K~LsK~pe~Y------~d~~~~PHV~vAl---rl~~~-~G~-~v~~Gd~I~YVI~~~g~~~ 973 (1274)
++.+++++ +|++++.|+ ++++++++| +.++.+|||.+|+ ++++. .|. .++.|++|.||+.+++.
T Consensus 744 ~~i~~~~~--~d~~~i~~~-~~~~~l~~Y~~~~~~y~k~~pphV~aA~~~~~~~~~~~g~~~~~~G~kI~~v~lk~~~-- 818 (881)
T PHA02528 744 EFEKEFRK--LDYEEIAFV-SSANNIAKYSDDKGIPGKGCPIHIRGALLYNRAVKGTLGYPPIQEGEKVMVLPLKEPN-- 818 (881)
T ss_pred HHHHHHHc--CCHHHEEee-eccCCHHHhcccccccccCCCHHHHHHHHHHHHHhhhcCCcccCCCCEEEEEEEeCCC--
Confidence 88888887 999999988 899999998 4456789999999 66654 677 88999999999998654
Q ss_pred cccccccChHHHhhCCCccc--cHHHHHhcc------chHHHHHhccccCCCChhH
Q psy1361 974 AATQRAYNIEELKNNSKLKI--DVNYYLSQQ------IHPVVTRLLEPIEGTDAVR 1021 (1274)
Q Consensus 974 ~~~~RA~~p~e~~~~~~l~i--D~eYYl~kQ------I~Ppv~Rl~~pi~G~d~~~ 1021 (1274)
+.++||++.+.... -.-.+ |.+||++.| |+||+.|||++| |++-..
T Consensus 819 ~~~~~~~~~~~~~~-~p~~~~~d~~~~iD~~~~~~k~~~~p~~~il~~~-g~~~~~ 872 (881)
T PHA02528 819 PIGENCIAWPSGTE-LPKEIRSDLLKWVDYNLLFEKSFIKPLKNITEAI-GWDYEK 872 (881)
T ss_pred CCCCceEecccccc-CHHHHhhchhheechhhhhhhhhhhHHHHHHHHh-CCCccc
Confidence 57889988765421 12256 999999999 999999999988 777433
No 20
>cd05531 POLBc_B2 DNA polymerase type-B B2 subfamily catalytic domain. Archaeal proteins that are involved in DNA replication are similar to those from eukaryotes. Some archaeal members also possess multiple family B DNA polymerases (B1, B2 and B3). So far there is no specific function(s) has been assigned for different members of the archaea type B DNA polymerases. Phylogenetic analyses of eubacterial, archaeal, and eukaryotic family B DNA polymerases are support independent gene duplications during the evolution of archaeal and eukaryotic family B DNA polymerases.
Probab=100.00 E-value=1.2e-70 Score=632.65 Aligned_cols=340 Identities=27% Similarity=0.432 Sum_probs=288.3
Q ss_pred cccCCceeecccccccceeEEEeeccccChhHHHHhccccccccccccCCCccccccccCCcccccCCCcHHHHHHHHHH
Q psy1361 624 AAYSGGLVLEPKKGFYDKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSDITTLCEYLPEHQVDTGILPSEIKKLVES 703 (1274)
Q Consensus 624 ~~Y~GGlVlePk~GlYd~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~~~~~ip~~~~~~~~~~GILP~iL~~Lle~ 703 (1274)
.+|+||+|++|++|+|++ |++|||+|||||||++|||||+|+++..+.+ ...++........+.||+|++|+.|+++
T Consensus 3 ~~~~Gg~V~~p~~G~~~~-V~~lDF~SLYPSii~~~ni~~~ti~~~~~~~--~~~~~~~~~~~~~~~gilp~~l~~l~~~ 79 (352)
T cd05531 3 LADRGGLVFQPEPGLYEN-VAQIDFSSMYPSIIVKYNISPETINCRCCEC--RDHVYLGHRICLKRRGFLPEVLEPLLER 79 (352)
T ss_pred cCCCCcEEecCCCCccCc-eEEEEccccchHHHHHhCCChhhccccCccc--ccCCCCCceEecCCCCchHHHHHHHHHH
Confidence 479999999999999998 9999999999999999999999998765421 1112221222357899999999999999
Q ss_pred HHHHHHHhcCCCCChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcCccceec
Q psy1361 704 RRQVKALMKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEVIYG 783 (1274)
Q Consensus 704 R~~vK~~mK~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g~~VIYG 783 (1274)
|.++|+.||+.+ + +|.+|+|+|++|||+|||||+++||||+.++|++||+.||++|++|++++|++|++||||
T Consensus 80 R~~~K~~~k~~~-~------~d~~q~AlKi~~NS~YGylG~~~~~f~~~~~A~~vT~~GR~~L~~~~~~~e~~g~~VIyg 152 (352)
T cd05531 80 RLEYKRLKKEED-P------YAGRQKALKWILVTSFGYLGYKNAKFGRIEVHEAITAYGRKILLRAKEIAEEMGFRVLHG 152 (352)
T ss_pred HHHHHHHhhcCC-C------chHHHhhheeeeecccccccccccccCChHHHHHHHHHHHHHHHHHHHHHHHcCCEEEEE
Confidence 999999999742 2 399999999999999999999999999999999999999999999999999999999999
Q ss_pred cccceeeecCCCCHHHHHHHHHHHHHHHhhcCccEEEEeeehhhHhhcc-------ccccceEEEeeecCCCceeeeeee
Q psy1361 784 DTDSLMISCNVNDYDSVFKIGNQIKSECNKLYKQLELDIDGVYKYMLLL-------KKKKYAALSISKLSNGKMICSQEI 856 (1274)
Q Consensus 784 DTDSImI~~~~~d~eea~kig~eI~~~VN~~~~~LeLe~E~vy~~lLLl-------~KKrYA~l~~~~~~dG~~~~~~ev 856 (1274)
|||||||+++. ...+ +..+|++.+ +++|++|++|.+++|+ .||||+|+. .+|+ +++
T Consensus 153 DTDSvfv~~~~----~~~~----~~~~i~~~~-~i~l~le~~y~~~~~~~~~~~~~~kKrY~g~~----~~g~----i~~ 215 (352)
T cd05531 153 IVDSLWIQGRG----DIEE----LAREIEERT-GIPLKLEGHYDWIVFLPERDGLGAPNRYFGRL----SDGE----MKV 215 (352)
T ss_pred ccccceeecCc----hHHH----HHHHHHHhc-CCceEEEEEEEEEEeeccccccCcceeEEEec----CCCc----EEE
Confidence 99999999732 2333 444455444 4889999999998765 589999985 2565 479
Q ss_pred ecceeecCChHHHHHHHHHHHHHHHHccCCCCCCchHH---HHHHHHHHHHHHHHHHhCCCcCcccceeeecccCCcccc
Q psy1361 857 KGVDVVRRDWSQLASEAGKFVISQILDEQSYTDYSLDD---RLQNIHEHMKKIRTDLDNGFVPLTLLEITKQLTKAPEEY 933 (1274)
Q Consensus 857 KGle~vRRD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~---~ve~I~~~l~~~~~kL~~g~vpledlvI~K~LsK~pe~Y 933 (1274)
||+++||||||+|+|++++++|+.||.+++ +++ .++.+++++++...+|++|. +++|+|+++|+|++++|
T Consensus 216 KG~e~vRrD~~~~~k~~~~~vl~~ll~~~~-----~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~lvi~k~l~k~~~~Y 288 (352)
T cd05531 216 RGIELRRRDTPPFVKKFQEEALDILASAKT-----PEELLKLREEALDLFRRYLQRLREGD--LEDLIIEKKISKRSSEY 288 (352)
T ss_pred EeeEEEeCCchHHHHHHHHHHHHHHhcCCC-----HHHHHHHHHHHHHHHHHHHHHHhcCC--hHHEEEEEEecCCHHHc
Confidence 999999999999999999999999999998 654 45678889999999999998 89999999999999999
Q ss_pred CCCCCchHHHHHHHHhhhCCCCCCCCCEEEEEEEeCCCCCcccccccChHHHhhCCCccccHHHHHhccchHHHHHhccc
Q psy1361 934 TDRKALPHVQVALRLNNTNSKKLKQGDTISYIICEDGTSEAATQRAYNIEELKNNSKLKIDVNYYLSQQIHPVVTRLLEP 1013 (1274)
Q Consensus 934 ~d~~~~PHV~vAlrl~~~~G~~v~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~~~~l~iD~eYYl~kQI~Ppv~Rl~~p 1013 (1274)
... .|| ||++|++ .|..+++|++|+|||+.++.+.+. + .+...+|++||++ ||.|++.+|+.+
T Consensus 289 ~~~--~~~--~a~~l~~-~g~~~~~G~~I~Yvi~~~~~~~~~---------~--~~~~~~D~~yYi~-~l~~~~~~il~~ 351 (352)
T cd05531 289 KVL--AST--ALKALRA-KGVSVVPGMKIEYIVRDGKRPVPD---------L--GNDEGYDTKYYRE-LLERAAEELLFP 351 (352)
T ss_pred CCc--hHH--HHHHHHh-CCCCCCCCCEEEEEEEECCCCCcc---------c--cccCCCCHHHHHH-HHHHHHHHhccC
Confidence 853 456 7888865 789999999999999987654322 1 3567899999996 899999999876
Q ss_pred c
Q psy1361 1014 I 1014 (1274)
Q Consensus 1014 i 1014 (1274)
+
T Consensus 352 ~ 352 (352)
T cd05531 352 L 352 (352)
T ss_pred C
Confidence 4
No 21
>cd05535 POLBc_epsilon DNA polymerase type-B epsilon subfamily catalytic domain. Three DNA-dependent DNA polymerases type B (alpha, delta, and epsilon) have been identified as essential for nuclear DNA replication in eukaryotes. DNA polymerase (Pol) epsilon has been proposed to play a role in elongation of the leading strand during DNA replication. Pol epsilon might also have a role in DNA repair. The structure of pol epsilon is characteristic of this family with the exception that it contains a large c-terminal domain with an unclear function. Phylogenetic analyses indicate that Pol epsilon is the ortholog to the archaeal Pol B3 rather than to Pol alpha, delta, or zeta. This might be because pol epsilon is ancestral to both archaea and eukaryotes DNA polymerases type B.
Probab=100.00 E-value=1.1e-53 Score=505.29 Aligned_cols=309 Identities=24% Similarity=0.355 Sum_probs=253.0
Q ss_pred ccCCCcHHHHHHHHHHHHHHHHHhcCCC---------CCh-------HHHHHHHHHHHHhhccccccccCCCCCcCCCCC
Q psy1361 688 VDTGILPSEIKKLVESRRQVKALMKQPN---------LSS-------DLLMQYDIRQKALKLTANSMYGCLGFPNSRFFA 751 (1274)
Q Consensus 688 ~~~GILP~iL~~Lle~R~~vK~~mK~~~---------~~~-------~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~ 751 (1274)
.+-+++...++.+.++|..+|.+.|..+ .++ .+-.+||++|+|+|+++||||||+|+++||||+
T Consensus 219 rEn~Fyvdtvr~FrdrRy~yK~~~k~~k~~~~~~~~~~~~~~~~~a~~~~~lyDs~Q~A~KiIlNSfYGYlG~~gsRwYs 298 (621)
T cd05535 219 RENPFYVDTVRAFRDRRYEYKGLHKVWKKKLEAAKAAGDAAEIKEAKKMVVLYDSLQLAHKCILNSFYGYVMRKGSRWYS 298 (621)
T ss_pred ccCCcHHhhHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhHHHHHHHHHHHHHHHHHHHHHHHhhccCccCcCCcccCC
Confidence 5789999999999999999999887521 111 233689999999999999999999999999999
Q ss_pred HHHHHHHHHHhHHHHHHHHHHHHhcCccceeccccceeeecCCCCHHH---HHHHHHHH---------HH-----HHhhc
Q psy1361 752 QPLAALVTAKGREILLNTKSLVENLNYEVIYGDTDSLMISCNVNDYDS---VFKIGNQI---------KS-----ECNKL 814 (1274)
Q Consensus 752 ~~lA~~IT~~GReiL~~tke~ve~~g~~VIYGDTDSImI~~~~~d~ee---a~kig~eI---------~~-----~VN~~ 814 (1274)
.++|++||++||+||+.|++++++.|+.| |||||||||.+|....++ +.+.|+++ .. .+|..
T Consensus 299 ~emA~~VT~~GreIIk~tr~lvE~~G~~V-egDTDsI~~~lp~~~~e~~~~~~k~g~~~~~~~~~~~LN~~V~~~~tn~q 377 (621)
T cd05535 299 MEMAGIVCYTGANIIQMARELVEQIGRPL-ELDTDGIWCILPKSFPENFTFKTKNGKKVTISYPCVMLNHLVHKKFTNDQ 377 (621)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhcCCEE-EEecCeeEEEcCCCChHHHHHHhhccchhhhhhhHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999988 799999999987664443 22223332 22 23322
Q ss_pred C----------------ccEEEEeeehhhHhhcc--------ccccceEEEeeecCCCceeeeeeeecceeecCChHHHH
Q psy1361 815 Y----------------KQLELDIDGVYKYMLLL--------KKKKYAALSISKLSNGKMICSQEIKGVDVVRRDWSQLA 870 (1274)
Q Consensus 815 ~----------------~~LeLe~E~vy~~lLLl--------~KKrYA~l~~~~~~dG~~~~~~evKGle~vRRD~c~l~ 870 (1274)
| .+|+||+||+|++|||+ .|||||++. .||++ .++||+|++|||||+|+
T Consensus 378 y~~l~~p~~~~y~i~se~~IefEvDG~Yk~mllpask~~~~~~KKRYAv~~----~dG~i---~elKGfEikRRd~~~La 450 (621)
T cd05535 378 YQELVDPSTGTYETRSENSIFFEVDGPYKAMILPASKEEGKLLKKRYAVFN----EDGSL---AELKGFEVKRRGELQLI 450 (621)
T ss_pred hhhccCcccccccccccceeEEEeccceeeeEcccccccccccccceEEEc----CCCCE---EEEeCceeeeCCHHHHH
Confidence 2 14999999999999995 799999873 46765 48999999999999999
Q ss_pred HHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhC--CCcC----cccceeeecccCCccccCCCCCchHHHH
Q psy1361 871 SEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDN--GFVP----LTLLEITKQLTKAPEEYTDRKALPHVQV 944 (1274)
Q Consensus 871 K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~--g~vp----ledlvI~K~LsK~pe~Y~d~~~~PHV~v 944 (1274)
|++|++|++.||.|.+ .+++++.|++.+.+..+.|++ +.++ ++.++++++|+|+|++|++.++ |||++
T Consensus 451 K~fQ~eV~e~iL~g~~-----~Eea~~~V~~v~~~~ld~L~~~~~~~~d~eLi~li~~~k~LsK~l~eY~~~ks-~~V~~ 524 (621)
T cd05535 451 KIFQSEVFDAFLKGST-----LEECYAAVAAVANYWLDVLDSKGENLDDEELFELISENRSMSKKLEEYGNQKS-TSITT 524 (621)
T ss_pred HHHHHHHHHHHHcCCC-----HHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHhhcccCCCHHHcCCCCC-cHHHH
Confidence 9999999999999999 999999999999988888888 4555 4457779999999999998766 68999
Q ss_pred HHHHhhhCC--CCCCCCCEEEEEEEeCCCCCcccccccChHHHhhC-----------------CC--c--cccHHHHHhc
Q psy1361 945 ALRLNNTNS--KKLKQGDTISYIICEDGTSEAATQRAYNIEELKNN-----------------SK--L--KIDVNYYLSQ 1001 (1274)
Q Consensus 945 Alrl~~~~G--~~v~~Gd~I~YVI~~~g~~~~~~~RA~~p~e~~~~-----------------~~--l--~iD~eYYl~k 1001 (1274)
|+||++-.| ..+..|++|+|||+.++.+.++++||+|+.-|..+ .. + -||++||++.
T Consensus 525 AkRl~e~lg~~~~~~~G~~i~YII~~~p~~~~vseRAiPv~if~~~~~~~~~~lrkW~~~~~~~~~d~r~iiDW~YY~~r 604 (621)
T cd05535 525 AKRLAEFLGDQMVKDKGLSCKYIISKKPEGSPVTERAIPVAIFQAEPEVRKHYLRKWLKDPSDEDLDIRDIIDWDYYIER 604 (621)
T ss_pred HHHHHHhhcCCcccCCCCeEEEEEEeCCCCCCccccccChhhhcCCHHHHHHHHHHHhCCCCcCCCChhhhhchHHHHHH
Confidence 999986444 46679999999999988888999999988755311 01 1 3789999874
Q ss_pred cchHHHHHhc
Q psy1361 1002 QIHPVVTRLL 1011 (1274)
Q Consensus 1002 QI~Ppv~Rl~ 1011 (1274)
+--+|++|+
T Consensus 605 -l~~~iqKii 613 (621)
T cd05535 605 -LGSTIQKII 613 (621)
T ss_pred -HHHHHHhee
Confidence 666666665
No 22
>PHA03334 putative DNA polymerase catalytic subunit; Provisional
Probab=100.00 E-value=1.7e-43 Score=437.81 Aligned_cols=301 Identities=22% Similarity=0.246 Sum_probs=217.3
Q ss_pred hHhcCc--hhHHHH-HHHHHHHhcCCEeecCCccCcCccCCcccccccccCCCCCcccCCceeecccccc-----cceeE
Q psy1361 572 RTLMGG--RSERNE-FLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGF-----YDKFI 643 (1274)
Q Consensus 572 rtl~gg--raeR~E-~LLLhef~~~~yIlPdk~~~~~~~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~Gl-----Yd~~V 643 (1274)
+++..| ++.|+- .+|+.+..+.|+++|.-...... -.. +......+....|+||+|++|++|+ |++||
T Consensus 580 ~v~fdG~vQQIKV~s~lL~kA~~~~~~~ia~~~i~~s~--ilP--~~~~~~~~~~~~YeGAtVLEP~~Gf~~~~~Y~~PV 655 (1545)
T PHA03334 580 VMNFCGFVQSTKSVEVPLLKARLRIGIFVATGRIAESL--CMP--EKYARDCRQKIKLKGGYVFAPLTGLTFAGPYQGTE 655 (1545)
T ss_pred eecccCccchhhHHHHHHHHHHHhcCcccccccccccc--cCC--cccccccccccccCCeEeecCCCCccccccCCCcE
Confidence 445666 888876 45555555888888632211000 000 0000012345789999999999999 67899
Q ss_pred EEeeccccChhHHHHhccccccccccccCCC-------cccccccc----------------CCcccccCCCcHHHHHHH
Q psy1361 644 ILMDFNSLYPSIIQEYNICFTTIPVRMLQDS-------DITTLCEY----------------LPEHQVDTGILPSEIKKL 700 (1274)
Q Consensus 644 lvLDFnSLYPSII~~yNIcptTv~~~~~~~~-------~~~~ip~~----------------~~~~~~~~GILP~iL~~L 700 (1274)
++|||+|||||||++|||||+|++...+... +...+|.+ .|......+++|.+|++|
T Consensus 656 aVLDFASLYPSIIiahNLCYeTLV~~~c~~~~~~~~~~d~~k~p~gy~~~~~vy~V~~~~~~~P~~~rf~SiLp~LL~eL 735 (1545)
T PHA03334 656 LTLDFASLYPSNMCDANISPEAIVDPDCTARVRGWVVFDWKKIDRGFGKATLMYTILRTKPEEPSWRRFTTYTTSSLNHY 735 (1545)
T ss_pred EEEEccccchHHHHHhCCCcccccCccchhhhccccccccccCCcccCccccceeeccccCcCCCcceecchHHHHHHHH
Confidence 9999999999999999999999997654210 00111211 122223567999999999
Q ss_pred HHHHHHHHHHhcCCCCChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHH-hcCcc
Q psy1361 701 VESRRQVKALMKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVE-NLNYE 779 (1274)
Q Consensus 701 le~R~~vK~~mK~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve-~~g~~ 779 (1274)
++.|+++|+.||+ ..++.++.+||.+|+|||++|||+|||+|. .+|++||++||++|+.++++++ +.|++
T Consensus 736 L~~RK~~Kk~MKk-~kDp~er~iLD~rQlALKVtANSvYGytG~--------~cA~lVTa~GRemI~~t~~~IE~e~G~~ 806 (1545)
T PHA03334 736 LSMRTEYKGAMKQ-AKDPKLKSYHNQLQNEMKICANSHYGVAPH--------ACQHLITTLGRHKIKLVEEFIKKEPGMT 806 (1545)
T ss_pred HHHHHHHHHHHhh-CCCHHHHHHHHHHHHHHHHHHHhhcCcchh--------HHHHHHHHHHHHHHHHHHHHHHHhCCCE
Confidence 9999999999998 468889999999999999999999999875 4789999999999999999999 89999
Q ss_pred ceeccccceeeecCCCCH---------H--HHHHHHHH------------HHH---------------HHhh-c------
Q psy1361 780 VIYGDTDSLMISCNVNDY---------D--SVFKIGNQ------------IKS---------------ECNK-L------ 814 (1274)
Q Consensus 780 VIYGDTDSImI~~~~~d~---------e--ea~kig~e------------I~~---------------~VN~-~------ 814 (1274)
|||||||||||.++..+. . +....+.. +.+ -+|. +
T Consensus 807 VIYGDTDSVfV~~p~~d~~~~~~d~v~~~~~~~~~~~~~~~~~s~~~~~~~~~~k~~~~~~~v~~~L~~l~~~l~d~m~~ 886 (1545)
T PHA03334 807 VNYGDTDSVMFQLPPDDAETYLEDTVTLEDEERAPLEYTLEEWSAEAVNHVTKAKTKREGETVQSILSDLNTVLYDDMIE 886 (1545)
T ss_pred EEEEeCCceEEEeCccccccccccccchhhhhhhhhhhhHHHHHHHHHHHHHhhhhhcccchHHHHHHHHHHHHHHHHHH
Confidence 999999999999874321 0 11111111 111 0110 0
Q ss_pred ---C----------c------------cE--------------EEEeeehhhHhhccccccceEEEeeecCCCce-eeee
Q psy1361 815 ---Y----------K------------QL--------------ELDIDGVYKYMLLLKKKKYAALSISKLSNGKM-ICSQ 854 (1274)
Q Consensus 815 ---~----------~------------~L--------------eLe~E~vy~~lLLl~KKrYA~l~~~~~~dG~~-~~~~ 854 (1274)
| + +. +|++|..-.-.++++||+|+..+++.+ +|++ .+++
T Consensus 887 ~l~~~~~~~~~~p~~~~~~~~~~d~~~g~~~~~~~~f~~~~ItkL~yEn~stv~~~~aKK~Yi~~vhd~e-~~~~~~pKl 965 (1545)
T PHA03334 887 RLRYVDEGGSVEPFKDGEDWWVVDPLDGIWTYVRDPFSSELITKLCYENTSTVTCRLAKKMYIYTNHELN-NGPLGNTKI 965 (1545)
T ss_pred hheEeCCCCcEeeccCCCceeeecCCCceEEEeccchhHhHHHHHhhhcchhhhhhhhhhhhheeeeecC-Cccccccee
Confidence 0 0 01 234444444456679999999998865 4443 5789
Q ss_pred eeecceeecCChHHHHHHHHHHHHHHHHccCC
Q psy1361 855 EIKGVDVVRRDWSQLASEAGKFVISQILDEQS 886 (1274)
Q Consensus 855 evKGle~vRRD~c~l~K~~~~~vL~~ILs~~~ 886 (1274)
+++|++.+|+..+.+++++.+++++.||.|..
T Consensus 966 K~~G~ea~KSStpga~r~~~~d~i~lI~~gga 997 (1545)
T PHA03334 966 KMRGMQANKSSAAGATRRITNDFVNLIFKGGA 997 (1545)
T ss_pred eeccccccccCCcHHHHHHHHHHHHHHhcCCe
Confidence 99999999999999999999999999999865
No 23
>PF08996 zf-DNA_Pol: DNA Polymerase alpha zinc finger; InterPro: IPR015088 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. The DNA Polymerase alpha zinc finger domain adopts an alpha-helix-like structure, followed by three turns, all of which involve proline. The resulting motif is a helix-turn-helix motif, in contrast to other zinc finger domains, which show anti-parallel sheet and helix conformation. Zinc binding occurs due to the presence of four cysteine residues positioned to bind the metal centre in a tetrahedral coordination geometry. The function of this domain is uncertain: it has been proposed that the zinc finger motif may be an essential part of the DNA binding domain []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0001882 nucleoside binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 3FLO_D 1N5G_A 1K0P_A 1K18_A.
Probab=100.00 E-value=1.6e-41 Score=360.74 Aligned_cols=173 Identities=33% Similarity=0.612 Sum_probs=126.7
Q ss_pred cchhhhcccCcceeeecCCccCCCcccccCccccCCCCcccccccCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHhhccc
Q psy1361 1053 EAEEVKYQFCDKFEFTCMNPSCKQVNTVEAPTRLSTHGVVFVLDECINPECKVPPYTYLPHLINKLSQDMNKYIVKYYEG 1132 (1274)
Q Consensus 1053 ~~~~~~f~~~~~~~~~C~~~~C~~~~~~~~~~~~~~~~~~~~~~~C~~~~C~~~~~~~~~~i~nql~~~ir~~i~~yy~~ 1132 (1274)
++|+|||++|++|.|+|| .|++++.|+|+|.+.+....++++.|++ |+.. .+.++|+|||+++||++|++||+|
T Consensus 5 ~~d~erf~~c~~l~~~C~--~C~~~~~f~g~~~~~~~~~~~~~~~C~~--C~~~--~~~~~l~Nql~l~iR~~i~~YY~g 78 (188)
T PF08996_consen 5 ISDEERFKDCEPLKLTCP--SCGTEFEFPGVFEEDGDDVSPSGLQCPN--CSTP--LSPASLVNQLELQIREHISRYYEG 78 (188)
T ss_dssp ---TTTTTT---EEEE-T--TT--EEEE-SSS--SSEEEETTEEEETT--T--B----HHHHHHHHHHHHHHHHHHHHH-
T ss_pred CCHHHHhcCCCceEeECC--CCCCCccccccccCCccccccCcCcCCC--CCCc--CCHHHHHHHHHHHHHHHHHHHHHh
Confidence 789999999999999999 9999999999999665566688999996 8883 457899999999999999999999
Q ss_pred eeeeCCCCCCCcccccccccCCCCCC---CcccceeeeecChHHHHHHHHHHHHhcchhhhhhcCCCCC--------ccC
Q psy1361 1133 WLKCEDPGCSDLTRRCPLGLKTRLCT---TCHKYKLHRVYTELQLYQQLSFFHYICDITKALTKSDTPS--------IKF 1201 (1274)
Q Consensus 1133 ~~~Cdd~~C~~~tr~~~~~~~~~~c~---~C~~g~~~~~ys~~~ly~qL~y~~~lfd~~~~~~~~~~~~--------~~~ 1201 (1274)
||+||||+|+++||++++++.+ |+ +| +|+|+++|||++||+||+||++|||+++|++++.+.. .++
T Consensus 79 wl~Cdd~~C~~~TR~~~~~~~r--C~~~~~C-~G~m~~eyse~~LY~QL~yf~~LFD~~~a~~k~~~~~~~~~~~~~~~l 155 (188)
T PF08996_consen 79 WLVCDDPTCGNRTRQLSLYGKR--CPGAPGC-KGKMRREYSEKDLYNQLCYFRSLFDVDKALKKLKKKAEKEKQEKIRAL 155 (188)
T ss_dssp -CCCCTCCCHHCCCSTTSTTTC--ST-STT--HHCCCCSS-HHHHHHHHHHHHHHT-HHHHHTT-S--SS---HHHHHHH
T ss_pred CceeCcccccCcccccccCCCC--CCCcccc-cceeeeeecHHHHHHHHHHHHHHhChHHHHHhhccchhhHHHHHHHHH
Confidence 9999999999999999999754 88 99 9999999999999999999999999999999886321 156
Q ss_pred ChhHHHHHHHHHHHHHHHHHhcCCceechhhhh
Q psy1361 1202 DSETYMGYCKMKQHVERFLESSAYNIVDLKKLF 1234 (1274)
Q Consensus 1202 ~~~~~~~~~~~~~~v~~~l~~~~~~~V~l~~lf 1234 (1274)
++.++..|..++++|++||++|||+||||++||
T Consensus 156 ~~~~~~~~~~l~~~v~k~L~~~~y~~V~L~~LF 188 (188)
T PF08996_consen 156 AEQNREAFKALKQVVDKYLNRSGYRWVDLSSLF 188 (188)
T ss_dssp HHHTHHHHHHHHHHHHHHHHC------------
T ss_pred HHHHHHHHHHHHHHHHHHHHHcCCCEeehhhcC
Confidence 788999999999999999999999999999998
No 24
>smart00486 POLBc DNA polymerase type-B family. DNA polymerase alpha, delta, epsilon and zeta chain (eukaryota), DNA polymerases in archaea, DNA polymerase II in e. coli, mitochondrial DNA polymerases and and virus DNA polymerases
Probab=100.00 E-value=5e-40 Score=387.99 Aligned_cols=226 Identities=46% Similarity=0.697 Sum_probs=190.3
Q ss_pred chhhhccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCccCcCccCCcccccccccCCCCCcccCCceeeccccccc
Q psy1361 560 IRITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGFY 639 (1274)
Q Consensus 560 ~qLt~IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~~~~~~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~GlY 639 (1274)
+++++++|.++.+++.+|++.++|++|+|++++.|+++|++....... .....++...|.||+|++|.+|+|
T Consensus 227 ~~~s~~~~~~~~~~~~~g~~~~v~~~l~~~~~~~~~~~P~~~~~~~~~--------~~~~~~~~~~y~gg~v~~p~~g~~ 298 (471)
T smart00486 227 IELARIAGIPQRRTLYYGSQIRVESLLLREAKKNNYILPSKSLIDFKG--------SEPELKKKAKYPGGKVLEPKKGFY 298 (471)
T ss_pred HHHHHHHCcCHHHHHhcCcHHHHHHHHHHHHhhCCEEeccchhccccc--------ccccccccccccccEEecCCCCcc
Confidence 788999999999999999999999999999999999999876322100 000123457899999999999999
Q ss_pred ceeEEEeeccccChhHHHHhccccccccccccCCCc-----------cccccc--cCCcccccCCCcHHHHHHHHHHHHH
Q psy1361 640 DKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSD-----------ITTLCE--YLPEHQVDTGILPSEIKKLVESRRQ 706 (1274)
Q Consensus 640 d~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~~-----------~~~ip~--~~~~~~~~~GILP~iL~~Lle~R~~ 706 (1274)
++||+++||+|||||||++|||||+|++........ ....|. .+.....+.||+|++|..|++.|.+
T Consensus 299 ~~~v~~lDf~SlYPsii~~~nl~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gil~~~l~~l~~~R~~ 378 (471)
T smart00486 299 DNPVLVLDFNSLYPSIIIAHNLCYSTLVGRGENSGELFLDVEDLLTIKYEKPEGYHFVKKNIRKGILPKLLKKLLDKRKE 378 (471)
T ss_pred cCceEEeehhhccHHHHHHhCCCCcccccccccccccCCChhhcceeeecCCCcceeecCCCCCeehHHHHHHHHHHHHH
Confidence 999999999999999999999999999876531100 000111 1223344579999999999999999
Q ss_pred HHHHhcCCC-CChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcC----ccce
Q psy1361 707 VKALMKQPN-LSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLN----YEVI 781 (1274)
Q Consensus 707 vK~~mK~~~-~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g----~~VI 781 (1274)
+|+.|++.. .+..++..||.+|.|+|+++||+||++|+.++|||+.++|++||+.||.+|+.+++++++.| ++||
T Consensus 379 ~K~~~~~~~~~~~~~~~~~d~~q~a~K~~~Ns~yG~~g~~~~~~~~~~~a~~iT~~gr~~l~~~~~~i~~~~~~~~~~vi 458 (471)
T smart00486 379 IKKLMKKEKDESEELKKLLDSRQLALKLTANSVYGYLGFTNSRLYCKPLAASVTALGREILEKTKELIEKNGYPPGFKVI 458 (471)
T ss_pred HHHHHhhCCCCcHHHHHHHHHHHHHHHhhhcccccccccccccCccHHHHHHHHHHHHHHHHHHHHHHHHhCCCCCeEEE
Confidence 999998843 23348999999999999999999999999999999999999999999999999999999987 8999
Q ss_pred eccccceeeecC
Q psy1361 782 YGDTDSLMISCN 793 (1274)
Q Consensus 782 YGDTDSImI~~~ 793 (1274)
|||||||||+.+
T Consensus 459 YgDTDSi~v~~~ 470 (471)
T smart00486 459 YGDTDSIFVTKP 470 (471)
T ss_pred EecCceEEEecC
Confidence 999999999875
No 25
>PHA02523 43B DNA polymerase subunit B; Provisional
Probab=100.00 E-value=2.1e-37 Score=346.92 Aligned_cols=292 Identities=16% Similarity=0.178 Sum_probs=224.6
Q ss_pred HHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHH--------HHHhcCcc-ceeccccceeeec
Q psy1361 722 MQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKS--------LVENLNYE-VIYGDTDSLMISC 792 (1274)
Q Consensus 722 ~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke--------~ve~~g~~-VIYGDTDSImI~~ 792 (1274)
+..+.+|.|+|+++||+|||||+.++|||++++|++||++||++|+++.. +++..|++ |||||||||||.+
T Consensus 37 a~~~~~q~AiKIlmNSfYGylG~~~~R~yd~e~A~aVT~~Gre~Ik~i~~~~ney~~~l~~t~G~~~VIYgDTDSifv~~ 116 (391)
T PHA02523 37 QKRNTNQLNRKILINSLYGALGNNWFRYFDLRNAEAITTYGQLAIRWIERKLNEYINELVKTTGVDYVCYIDTDSVYLNM 116 (391)
T ss_pred HHHhcchHHHHHHHHhhhhhhcCCCceecCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCcceEEEecCCeeEEEe
Confidence 34577899999999999999999999999999999999999999995554 56667996 9999999999998
Q ss_pred CCCCHHHHH---------------HHHHHHHHHHhhc-----------CccEEEEeeehhhHh--------hccccccce
Q psy1361 793 NVNDYDSVF---------------KIGNQIKSECNKL-----------YKQLELDIDGVYKYM--------LLLKKKKYA 838 (1274)
Q Consensus 793 ~~~d~eea~---------------kig~eI~~~VN~~-----------~~~LeLe~E~vy~~l--------LLl~KKrYA 838 (1274)
+........ -...+|...||+. ...+.+++|++|.++ ++.+|||||
T Consensus 117 ~~~v~~~~~~~~~d~~~~vd~ldk~~~~~iE~~In~sY~el~eymna~~h~~~m~rE~ia~~f~~s~g~~gfw~~KKRYA 196 (391)
T PHA02523 117 EAVVNRVGIDKFRDTNHLIDFLDNLGSKKLEPFIDDSYKELEEYMNHDHHLLLMDREAIFGAPLGSDGIGGFWTGKKRYA 196 (391)
T ss_pred cchHHHHhhhhhccchhhhHHHHHHHHHHhHHHHHHHHHHHHHHhcchhhhhhhhHHHhccccccccccchhhhhhhhhh
Confidence 642110000 0133444444443 346889999999996 888999999
Q ss_pred EEEeeecCCCceeeeeeeecceeecCChHHHHHHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcc
Q psy1361 839 ALSISKLSNGKMICSQEIKGVDVVRRDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLT 918 (1274)
Q Consensus 839 ~l~~~~~~dG~~~~~~evKGle~vRRD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vple 918 (1274)
+-+|+++|..--.+++++.|+|++|+|.++++|+++++|++.||.+.+ +.|++|+.++.+..+ .+|++
T Consensus 197 ~~v~d~EG~r~~epklkI~G~E~qrSstp~~~~~~~ke~i~~Il~~~e----------e~iqeyi~~~~~ey~--~~~~~ 264 (391)
T PHA02523 197 LNVYDMEGTRYAEPHLKIMGLETQRSSTPLACQKSLKESIRRLLQEGE----------SSLQDYFKEFKDEFK--NIPYQ 264 (391)
T ss_pred heeeeccCccccCCccceeeeeecccCchHHHHHHHHHHHHHHHhCCh----------HHHHHHHHHHHHHHh--cCCHH
Confidence 999997654333468999999999999999999999999999998765 347888888888886 79999
Q ss_pred ccee---eecccCCccccCC--CCCchHHHHHHHHhhhCCCC-----CCCCCEEEEEEEeCCCCCc--ccccc---cChH
Q psy1361 919 LLEI---TKQLTKAPEEYTD--RKALPHVQVALRLNNTNSKK-----LKQGDTISYIICEDGTSEA--ATQRA---YNIE 983 (1274)
Q Consensus 919 dlvI---~K~LsK~pe~Y~d--~~~~PHV~vAlrl~~~~G~~-----v~~Gd~I~YVI~~~g~~~~--~~~RA---~~p~ 983 (1274)
+..+ +..+.|..+.|.. +..+.||..|+-.|+-.+.. +..|++|..+..+.+.... -...+ ..|+
T Consensus 265 ~Ia~~s~~~~I~K~~d~~~~~~kg~p~hvrGal~~N~~~~~~~~~~~i~~GeKvk~l~Lk~~np~~~~c~~~~sgd~iP~ 344 (391)
T PHA02523 265 DVAAVSSANNIGKNGDALGFPIKGTPYHVKGVLAYNRIAKTDTAIPMISEGEKVMVLPLRDRNPFNEACFAWPSGTPIPP 344 (391)
T ss_pred HhcccCCCCchhhcccccCCCCCCCchhhHHHHHHHHHhcccCCCccccCCCceEEEeccCCCCCCcceEeccCCCCCCH
Confidence 9998 5778887777643 34668999998666543333 7899999888887543211 11111 3466
Q ss_pred HHhhCCCccccHHHHHhccchHHHHHhccccCCCChhHHHHHh
Q psy1361 984 ELKNNSKLKIDVNYYLSQQIHPVVTRLLEPIEGTDAVRIAECL 1026 (1274)
Q Consensus 984 e~~~~~~l~iD~eYYl~kQI~Ppv~Rl~~pi~G~d~~~ia~~L 1026 (1274)
||..+--..||++--+++.++-|++|||+++ ||+....|..+
T Consensus 345 ef~~D~~k~iDy~~mfeKtf~~Pl~~I~ea~-g~~~ek~asL~ 386 (391)
T PHA02523 345 AVEADVLKYLDINKLFDKTFVKPLSSICEAT-KTDYEFRNNLF 386 (391)
T ss_pred HhhccHHhhccHHHHHHHHHHhHHHHHHHHh-CCChhheecHH
Confidence 7743212368999999999999999999999 88877766544
No 26
>KOG1798|consensus
Probab=99.97 E-value=2.6e-31 Score=325.96 Aligned_cols=443 Identities=22% Similarity=0.319 Sum_probs=327.5
Q ss_pred chhhhccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCccCcCccCCcccccccccCCCCCcccCCceeeccccccc
Q psy1361 560 IRITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGFY 639 (1274)
Q Consensus 560 ~qLt~IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~~~~~~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~GlY 639 (1274)
|.|.+|.+.....+|.-|++..+|.||+-++...|.|+|+|...-. +...| |.--....|-||.|-.-++|+|
T Consensus 456 FsLctIIPl~PDevLRKGSGTLCE~LLmVeA~~~NIv~PNK~~e~~--~~f~d-----GhlleSETYVGGHVE~LesGVF 528 (2173)
T KOG1798|consen 456 FSLCTIIPLNPDEVLRKGSGTLCEALLMVEAYHANIVFPNKHTEDP--EKFYD-----GHLLESETYVGGHVECLESGVF 528 (2173)
T ss_pred hhhhhccccChHHHHhcCcchHHHHHHHHHHHhcCeecCCcCccch--hhhcc-----CeeeeeeeeechhhhhHhcccc
Confidence 8899999999999999999999999999999999999999974211 00000 1112256899999988888977
Q ss_pred -----------------------------------------------------------------ce-eEEEeeccccCh
Q psy1361 640 -----------------------------------------------------------------DK-FIILMDFNSLYP 653 (1274)
Q Consensus 640 -----------------------------------------------------------------d~-~VlvLDFnSLYP 653 (1274)
++ .|++||.+||||
T Consensus 529 RSDip~~F~~dp~a~~eLi~~l~~~L~~~l~vE~k~~vd~v~nfeEv~~~I~~kL~~lrd~p~R~E~PlIYHLDVaaMYP 608 (2173)
T KOG1798|consen 529 RSDIPTEFRMDPSAYEELIDELGETLDFALTVENKVRVDEVTNFEEVKDEILEKLEELRDVPIREEGPLIYHLDVAAMYP 608 (2173)
T ss_pred cccCcccccCCHHHHHHHHHHHHHHHHHHHhhhcccchhhhcCHHHHHHHHHHHHHHhcCCCccccCCeEEEEehhhccC
Confidence 33 489999999999
Q ss_pred hHHHHhccccccccccccC---C---C----------------------c---------ccccccc-----------CC-
Q psy1361 654 SIIQEYNICFTTIPVRMLQ---D---S----------------------D---------ITTLCEY-----------LP- 684 (1274)
Q Consensus 654 SII~~yNIcptTv~~~~~~---~---~----------------------~---------~~~ip~~-----------~~- 684 (1274)
+||.+..+.|..++....+ + . + .+.+|.. ++
T Consensus 609 NIilTNRLQP~siv~E~~C~~CDfN~P~ktC~Rkm~W~WRGe~~pa~r~EY~~I~~qlesE~f~~~~~~~~~k~F~~L~~ 688 (2173)
T KOG1798|consen 609 NIILTNRLQPDSIVDEEICAACDFNKPGKTCKRKMEWAWRGEYFPAKRSEYHRIKKQLESESFPAGAPFSPSKSFHELSR 688 (2173)
T ss_pred ceeeecCCCCcccccHhhhccCCCCCCCcchhhhheeeeeeeEecCcchHHHHHHHHHHhccCCCCCCCCCCcccccCCH
Confidence 9999999999998765321 1 0 0 1111210 00
Q ss_pred ---------------------------------cccccCCCcHHHHHHHHHHHHHHHHHhcCCC---------CChHH--
Q psy1361 685 ---------------------------------EHQVDTGILPSEIKKLVESRRQVKALMKQPN---------LSSDL-- 720 (1274)
Q Consensus 685 ---------------------------------~~~~~~GILP~iL~~Lle~R~~vK~~mK~~~---------~~~~~-- 720 (1274)
-...+..++-..++.+.++|.++|.+.|... .+...
T Consensus 689 ~eq~~~~kkRl~~Ysrk~Y~rv~~~~i~eRet~ICqRENpFYVdTVrsFRDRRYeyK~L~K~wkg~ls~a~~sg~~a~i~ 768 (2173)
T KOG1798|consen 689 EEQAAKLKKRLKDYSRKVYHRVKDTEIEERETTICQRENPFYVDTVRSFRDRRYEYKGLHKVWKGKLSAAKASGDLARIK 768 (2173)
T ss_pred HHHHHHHHHHHHHHHHHHHhHhcccchhhhhcchhhccCchhhhhHHHhhhhhhHHHHHHHHHHHHHhhhhccCchhhHH
Confidence 0124567888899999999999998876421 11111
Q ss_pred -----HHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcCccceeccccceeeecCCC
Q psy1361 721 -----LMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEVIYGDTDSLMISCNVN 795 (1274)
Q Consensus 721 -----~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g~~VIYGDTDSImI~~~~~ 795 (1274)
-..||..|+|.|.++||+|||....+||||..++|..||.+|-.||+.|++++|..|- ..-=|||+||+-+|..
T Consensus 769 eak~mvVlYdSLQLAHKcILNSFYGYVMRKGsRWYSMEMAGIvc~TGAnIIq~AR~lVEriGr-PLELDTDGIWCilP~S 847 (2173)
T KOG1798|consen 769 EAKKMVVLYDSLQLAHKCILNSFYGYVMRKGSRWYSMEMAGIVCLTGANIIQMARELVERIGR-PLELDTDGIWCILPGS 847 (2173)
T ss_pred hhhheEEehHhHHHHHHHHHhhhhhhhhccccchheeehhheeeccchHHHHHHHHHHHHhCC-CeeccCCceEEeccCC
Confidence 1369999999999999999999999999999999999999999999999999999884 4568999999987764
Q ss_pred CHHHH-------HH---------HHHHHHHHH-hhc-----------C-----ccEEEEeeehhhHhhccc--------c
Q psy1361 796 DYDSV-------FK---------IGNQIKSEC-NKL-----------Y-----KQLELDIDGVYKYMLLLK--------K 834 (1274)
Q Consensus 796 d~eea-------~k---------ig~eI~~~V-N~~-----------~-----~~LeLe~E~vy~~lLLl~--------K 834 (1274)
-++.. .+ +-..+.+.. |.. | ..|.+|+||.|+.|||.+ |
T Consensus 848 FPEnf~Fk~~n~kkvtiSYPc~mLN~~V~e~fTN~QYq~L~dp~~~~Y~t~SEnSIfFEVDGPYkAMILPaSkEEGk~lK 927 (2173)
T KOG1798|consen 848 FPENFTFKLKNGKKVTISYPCVMLNHLVHEGFTNHQYQELVDPVRLTYVTRSENSIFFEVDGPYKAMILPASKEEGKLLK 927 (2173)
T ss_pred CccceEEEecCCcEEEEechHHHHHHHHHhccchhhHHHhcCcccceeeecccceEEEEecCceeEEeeccchhhhhhhh
Confidence 32210 00 111122211 212 2 148899999999999974 8
Q ss_pred ccceEEEeeecCCCceeeeeeeecceeecCChHHHHHHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCC
Q psy1361 835 KKYAALSISKLSNGKMICSQEIKGVDVVRRDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGF 914 (1274)
Q Consensus 835 KrYA~l~~~~~~dG~~~~~~evKGle~vRRD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~ 914 (1274)
||||-+. .||.+ -|+||+|+.||.--.|+|.+|.++++..|.|.. .|++.+.|. .+.+.|-+|..+.
T Consensus 928 KRYAVFN----~DGsL---AELKGFEiKRRGEL~lIK~FQs~lF~~FL~Gst-----LEEcY~aVA-~Vad~WLDiL~s~ 994 (2173)
T KOG1798|consen 928 KRYAVFN----EDGSL---AELKGFEIKRRGELKLIKVFQSELFKVFLKGST-----LEECYSAVA-AVADRWLDILDSH 994 (2173)
T ss_pred heeEEec----CCCch---hhhcCceeeecchhhHHHHHHHHHHHHHhCCCc-----HHHHHHHHH-HHHHHHHHHHHhc
Confidence 9999884 58887 489999999999999999999999999999999 899888775 4455666665432
Q ss_pred ---cC----cccceeeecccCCccccCCCCCchHHHHHHHHhhhCCCC-CC-CCCEEEEEEEeCCCCCcccccccChHHH
Q psy1361 915 ---VP----LTLLEITKQLTKAPEEYTDRKALPHVQVALRLNNTNSKK-LK-QGDTISYIICEDGTSEAATQRAYNIEEL 985 (1274)
Q Consensus 915 ---vp----ledlvI~K~LsK~pe~Y~d~~~~PHV~vAlrl~~~~G~~-v~-~Gd~I~YVI~~~g~~~~~~~RA~~p~e~ 985 (1274)
++ ++.+.-++.++|.+++|...++ -.+.-|+||..=.|.. ++ .|-...|||...+.+.++++||.|.--|
T Consensus 995 G~~l~D~eL~elISEnrSMSk~L~dYg~QKS-tsitTAkRLaeFLGd~MvKDkGL~C~yIIs~~P~g~PVtERAIPVAIF 1073 (2173)
T KOG1798|consen 995 GADLTDSELLELISENRSMSKKLEDYGGQKS-TSITTAKRLAEFLGDDMVKDKGLACRYIISRKPEGAPVTERAIPVAIF 1073 (2173)
T ss_pred cCCCCcHHHHHHHhhchhhhhhHHHhccccc-hHHHHHHHHHHHhchhhhhccCceeEEEEEecCCCCCcccccceeEEE
Confidence 32 2334567889999999987766 3577899997546653 33 7899999999988888999999764322
Q ss_pred h--------------hCCCc-------cccHHHHHhcc--------chHH-HHHhccccCCCChhHHHHHhC
Q psy1361 986 K--------------NNSKL-------KIDVNYYLSQQ--------IHPV-VTRLLEPIEGTDAVRIAECLG 1027 (1274)
Q Consensus 986 ~--------------~~~~l-------~iD~eYYl~kQ--------I~Pp-v~Rl~~pi~G~d~~~ia~~Lg 1027 (1274)
. +.+.+ -||++||+++. .+|+ ++++-.|++.+ ....||.
T Consensus 1074 ~ae~~vk~~fLRkW~k~~sl~d~dIR~IiDWdYY~eRLgSaIQKiItIPAAlQ~VsNPVpRv---~hPdWL~ 1142 (2173)
T KOG1798|consen 1074 QAEPPVKKHFLRKWTKDSSLEDTDIRAIIDWDYYRERLGSAIQKIITIPAALQGVSNPVPRV---PHPDWLQ 1142 (2173)
T ss_pred ecCcHHHHHHHHHHhccCccccCChheeeehHHHHHHHHHHHHHHhhhHHHHhccCCCCCCC---CCcHHHH
Confidence 1 12222 58999999652 2333 56666777644 3556773
No 27
>PHA02524 43A DNA polymerase subunit A; Provisional
Probab=99.88 E-value=3.6e-23 Score=245.61 Aligned_cols=135 Identities=22% Similarity=0.320 Sum_probs=108.9
Q ss_pred chhhhccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCccCcCccCCcccccccccCCCCCcccCCceeeccccccc
Q psy1361 560 IRITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGFY 639 (1274)
Q Consensus 560 ~qLt~IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~~~~~~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~GlY 639 (1274)
.++++++|.++.+++ +++..++++|+++++++|+++|+.... ...+|+||+|++|.+|+|
T Consensus 331 ~~larvtglpl~~v~--~qikv~~~lllr~~~~~g~viP~~~~~------------------~~~~Y~GA~V~eP~~GlY 390 (498)
T PHA02524 331 LSLSYYAKIRFDDVL--GTIKVWDSIIFNSLVESNVVIPAMKAS------------------PKQSFPGAYVKEPVPGGY 390 (498)
T ss_pred HHHHHHHCCCHHHhc--cHHHHHHHHHHHHHHHCCEecCCCCCC------------------CCCccCCeEEecCCCccc
Confidence 678999999999996 567778999999999999999975421 134799999999999999
Q ss_pred ceeEEEeeccccChhHHHHhccccccccccccCC--------------CccccccccCCcccccCCCcHHHHHHHHHHHH
Q psy1361 640 DKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQD--------------SDITTLCEYLPEHQVDTGILPSEIKKLVESRR 705 (1274)
Q Consensus 640 d~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~--------------~~~~~ip~~~~~~~~~~GILP~iL~~Lle~R~ 705 (1274)
++ |++|||+|||||||++|||||+|+++..... ++....|.+.-+.+.++||||++|++|++.|+
T Consensus 391 ~~-VivLDFaSLYPSII~a~NIsPeTl~~~~~~~~~~~~~~~~~~~~~~~~~~~P~G~~F~K~~~GilP~iLe~Ll~~RK 469 (498)
T PHA02524 391 RY-GLSFDLTSLYPSILRLLNISPEMIAGMFSPARLEDYINKVAPKPSDQFSCAPNGMMYKKGVVGVLPNETEKVFLQRK 469 (498)
T ss_pred cC-eEEEEccccCHHHHHHhCCCHHHhhccccccchhhhccccCCCCCcceEECCCCCEEecCCCcccHHHHHHHHHHHH
Confidence 98 6889999999999999999999997642100 01111233222345789999999999999999
Q ss_pred HHHHHhcCCC
Q psy1361 706 QVKALMKQPN 715 (1274)
Q Consensus 706 ~vK~~mK~~~ 715 (1274)
++|+.|+++.
T Consensus 470 ~~Kk~M~~a~ 479 (498)
T PHA02524 470 SEKKMMLAAI 479 (498)
T ss_pred HHHHHHHHhH
Confidence 9999999853
No 28
>PF12254 DNA_pol_alpha_N: DNA polymerase alpha subunit p180 N terminal; InterPro: IPR024647 This entry represents the N-terminal domain of DNA polymerase alpha catalytic subunit (the DNA polymerase alpha complex is composed of four subunits). This domain is approximately 70 amino acids in length and it contains a specific labile site [].
Probab=99.88 E-value=1.4e-23 Score=186.68 Aligned_cols=64 Identities=50% Similarity=0.885 Sum_probs=58.4
Q ss_pred HHHHHHhc-CCC-cceeceeccccccccccChHHHHHHHHhhc-cCCceEeCCCccccccCccccCC
Q psy1361 61 FQKLKDLK-GQG-VKHKYEFTADENVYEEVSEKEYTERVLKRQ-EDDWIDDDGGDGYVEDGREIFDD 124 (1274)
Q Consensus 61 Le~LKa~R-G~g-~k~~yeVee~~~VYdEVDE~eY~kiVr~R~-~DDFIVDDdG~GYvDdGrEifDd 124 (1274)
|++||+|| |++ +...|+|++.++|||||||+||++||++|+ +|||||||||.||||+|+|+|||
T Consensus 1 L~~Lk~~R~~g~~~~~~~ev~e~~~IYdeVdE~eY~~~v~~R~~~dDFIvDDdG~GYvD~G~e~wdd 67 (67)
T PF12254_consen 1 LEKLKAAREGGKKRTDEYEVEEEEDIYDEVDEEEYRKLVRKRLQEDDFIVDDDGEGYVDDGREEWDD 67 (67)
T ss_pred CHHHHHHHhcCCccccchhhhcccccceeeCHHHHHHHHHHHHhcCCceEcCCCCcccccChhhccC
Confidence 78999999 443 445899999999999999999999999995 89999999999999999999975
No 29
>PHA02563 DNA polymerase; Provisional
Probab=99.66 E-value=1.1e-16 Score=195.36 Aligned_cols=206 Identities=23% Similarity=0.297 Sum_probs=138.4
Q ss_pred CcccCCceee---cccccccceeEEEeeccccChhHHHHhcccccccccccc-CCC---------c--------cccccc
Q psy1361 623 KAAYSGGLVL---EPKKGFYDKFIILMDFNSLYPSIIQEYNICFTTIPVRML-QDS---------D--------ITTLCE 681 (1274)
Q Consensus 623 k~~Y~GGlVl---ePk~GlYd~~VlvLDFnSLYPSII~~yNIcptTv~~~~~-~~~---------~--------~~~ip~ 681 (1274)
+.+|.||.|. ++.+|++++ +.++|++|||||+|..+++++.+-..... ..+ + ...+|.
T Consensus 235 r~sY~GGr~~~~~~~~~~~~~~-~~~yDvnSlYPsaM~~~~~P~g~p~~~~~k~~~~~~~~~~i~~~~~~f~~~ev~~p~ 313 (630)
T PHA02563 235 RKFYRGGRTWYNPKYIGKLIEE-GYVYDVNSLYPYVMYNAKLPYGEPFYEKGKPAELKPDPLYIYNYGALFKLKKGYVPD 313 (630)
T ss_pred HHheeCceeecccccccccccc-ccccccccccHHHHhhccCCCCCceeeccCcccccccccccccceEEEEEEEccCCC
Confidence 3589999998 899999988 77999999999999999998865221110 000 0 000000
Q ss_pred ----------------cCC-----------------------------------------cccccCCCcHHHHHHHHHHH
Q psy1361 682 ----------------YLP-----------------------------------------EHQVDTGILPSEIKKLVESR 704 (1274)
Q Consensus 682 ----------------~~~-----------------------------------------~~~~~~GILP~iL~~Lle~R 704 (1274)
.+| .-....+++.+.+..|.+.|
T Consensus 314 ~~~i~Ik~~~~~~~~~i~p~g~~~g~~~~~E~~~~~~~~i~le~~ik~y~~~~i~v~~Gy~fe~~~~~FkeyI~~lY~iK 393 (630)
T PHA02563 314 DMLIQIKSNLDFNGRLVLKVGIVKYVNSGNEYVDLNLNNLDLELEITHYDAFNEEVESGVVFECETGLFRDFIDHFYEIK 393 (630)
T ss_pred ccccceeccccCCCceeeecccEeeEecCceEEEEEeceEEHHHhhhccceeEEEEEEEEEEcccCchHHHHHHHHHHHH
Confidence 000 00123567777788888877
Q ss_pred HHHHHHhcCCCCChHHHHHHHHHHHHhhccccccccCCCCCcC---CC--------------------CC-HHHHHHHHH
Q psy1361 705 RQVKALMKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNS---RF--------------------FA-QPLAALVTA 760 (1274)
Q Consensus 705 ~~vK~~mK~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~s---Rf--------------------y~-~~lA~~IT~ 760 (1274)
.+.|+.-+ .+...|+++||.||-+|-.-- ++ .. .++|++||+
T Consensus 394 ~~~K~~~~--------------~~~i~KLlLNSLYGKfg~~p~~~~~~~~l~~~~~l~~~~~~~~~~~~~yv~iAa~ITa 459 (630)
T PHA02563 394 TNSKGAKK--------------QNMLAKLMLNSLYGKFALNPDNTGKVPYLDDNGRLDLISNGEENKEPNYIPIAAFITA 459 (630)
T ss_pred hccccCcc--------------HHHHHHHHHhcccchhhcCccccCceeeecccceeeeecCCccccccccchHHHHHHH
Confidence 77544211 236899999999999986432 11 11 579999999
Q ss_pred HhHHHHHHHHHHHHhcCccceeccccceeeecCCCCH-HHHHHHHHHHHHHHhhcCccEEEEeeehhhHhhccccccceE
Q psy1361 761 KGREILLNTKSLVENLNYEVIYGDTDSLMISCNVNDY-DSVFKIGNQIKSECNKLYKQLELDIDGVYKYMLLLKKKKYAA 839 (1274)
Q Consensus 761 ~GReiL~~tke~ve~~g~~VIYGDTDSImI~~~~~d~-eea~kig~eI~~~VN~~~~~LeLe~E~vy~~lLLl~KKrYA~ 839 (1274)
.||.+|..++..+++. |+|||||||||....... .+-+-.|. ++. .+++|.++.+.+++++|.|+.
T Consensus 460 ~aR~~m~~~~~~~~~~---v~Y~DTDSi~v~~~~~~~L~~~~i~~~----eLG------k~k~E~~~~~~~fl~~K~Y~l 526 (630)
T PHA02563 460 RARSNLLSALQYLYEK---FIYCDTDSIHLEGAETPKLPKDMIDPK----ELG------KWDHEGEFIKAKYLRPKKYAL 526 (630)
T ss_pred HHHHHHHHHHHHhhcc---EEEECCceEEEecCccccCchhhCChh----Hhc------ceeccceeeEEEEEeccEEEE
Confidence 9999999999998765 999999999998654321 11000011 111 236788899999999999965
Q ss_pred EEeeecCCCceeeeeeeecce
Q psy1361 840 LSISKLSNGKMICSQEIKGVD 860 (1274)
Q Consensus 840 l~~~~~~dG~~~~~~evKGle 860 (1274)
+.. +.+|++. +.+||+.
T Consensus 527 ~~~--d~~~~i~--ik~KGi~ 543 (630)
T PHA02563 527 YAE--EVNGKLK--IKCAGMP 543 (630)
T ss_pred Eec--CCCceEE--EEeCCCC
Confidence 532 3456653 6789984
No 30
>PF03104 DNA_pol_B_exo1: DNA polymerase family B, exonuclease domain Several related DNA polymerases were too dissimilar to be included.; InterPro: IPR006133 DNA is the biological information that instructs cells how to exist in an ordered fashion: accurate replication is thus one of the most important events in the life cycle of a cell. This function is performed by DNA- directed DNA-polymerases 2.7.7.7 from EC) by adding nucleotide triphosphate (dNTP) residues to the 5'-end of the growing chain of DNA, using a complementary DNA chain as a template. Small RNA molecules are generally used as primers for chain elongation, although terminal proteins may also be used for the de novo synthesis of a DNA chain. Even though there are 2 different methods of priming, these are mediated by 2 very similar polymerases classes, A and B, with similar methods of chain elongation. A number of DNA polymerases have been grouped under the designation of DNA polymerase family B. Six regions of similarity (numbered from I to VI) are found in all or a subset of the B family polymerases. The most conserved region (I) includes a conserved tetrapeptide with two aspartate residues. Its function is not yet known. However, it has been suggested that it may be involved in binding a magnesium ion. All sequences in the B family contain a characteristic DTDS motif, and possess many functional domains, including a 5'-3' elongation domain, a 3'-5' exonuclease domain [], a DNA binding domain, and binding domains for both dNTP's and pyrophosphate []. This domain has 3' to 5' exonuclease activity and adopts a ribonuclease H type fold [].; GO: 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication; PDB: 1QHT_A 4AHC_A 3A2F_A 2JGU_A 4AIL_C 1NOY_A 1NOZ_B 3IAY_A 1WNS_A 3K5O_A ....
Probab=99.25 E-value=4.4e-13 Score=152.58 Aligned_cols=135 Identities=27% Similarity=0.513 Sum_probs=108.7
Q ss_pred CceEEEEEEEeceeeeEEEecCCCCcCCCCccCHHHHHHHHHH-HHhhcCCCceeeeeeeccccccCCCCCCccceeeEe
Q psy1361 412 NSHSSCCVIVQNIDRKIYLLPRSEHLKTKEPVSIAQVYSEFDQ-IATQYKILDFKSRKIEKKYAFNLPGVPDLSEYLEVR 490 (1274)
Q Consensus 412 ~~~~Sccv~v~~~~R~~y~lPr~~~~~~~~~~~~~dv~~e~~~-~~~~~~i~~~~~k~v~r~yaf~~~~vp~~~~yl~v~ 490 (1274)
..+.||||+|.|+.|.+|++|++. ....++.+++.. +..+.++..++++.|+|+++|+..+.+.+. |++|.
T Consensus 3 ~~g~svcv~v~~f~pyfYv~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~V~r~~~~~~y~~~~~~-~lkV~ 74 (325)
T PF03104_consen 3 EDGKSVCVRVHGFRPYFYVLPPES-------DSPKDLEQFIEQLLRKKFKIDVFKIEKVKRKKSFYGYDGKEEP-FLKVY 74 (325)
T ss_dssp CTSEEEEEEEST--EEEEEEESSG-------GGHHHHTTHEEHHEETTEEEEEEEEEEEEEEEESSEETTEEEE-EEEEE
T ss_pred CCCCEEEEEEcCCCEEEEEECCCC-------ccHHHHHHHHHHHhhhccCCceEEEEEEEeeeeeccCCCCCce-EEEEE
Confidence 357999999999999999999973 122333333333 456789999999999998888877776666 99999
Q ss_pred eccCCC--CCCCCCCCCceeeeccCchhHHHHHHhhccccCCCeeecccc-ccCCCccceeEEEEEec
Q psy1361 491 YSAKCP--ALPSDLSGDTFSHVFGTKSSFLENLLLERKIKGPSWLEFPEA-EKFPSRISWCKYEVQCN 555 (1274)
Q Consensus 491 y~~~~p--~lp~~~~G~tfs~vfgt~~s~~E~fll~rki~GP~wl~i~~~-~~~~~~~swck~e~~~~ 555 (1274)
|+...+ .++..+.+ ++.++|+.+.+.+++|+++++|+||||+++++. .......|||+.|+.+.
T Consensus 75 ~~~~~~~~~~~~~l~~-~~~~~~e~~i~~~~rfl~~~~i~~~~wi~i~~~~~~~~~~~s~~~~e~~~~ 141 (325)
T PF03104_consen 75 FSSPRDVRKLRDNLKK-TFFKVYEADIPPLERFLIDRNIRGPGWIKIKNPSKPVKDRVSWCDIEFSVD 141 (325)
T ss_dssp ESSTTHHHHHHHHHHH-TEEEEESTSS-HHHHHHHHTTHCTTEEEEEETTECHHHHHTCTCSCECECC
T ss_pred ECcHHHHHHHHHHHHh-ccchhhccCCCHHHheeeecCcccceeeecccccccccccccccccccccc
Confidence 998876 56667776 999999999999999999999999999999998 44457889999999775
No 31
>TIGR00592 pol2 DNA polymerase (pol2). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=98.85 E-value=2e-10 Score=151.52 Aligned_cols=165 Identities=24% Similarity=0.337 Sum_probs=126.7
Q ss_pred hhhccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCccCcCccCCcccccccccCCCCCcccCCceeecc--ccccc
Q psy1361 562 ITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEP--KKGFY 639 (1274)
Q Consensus 562 Lt~IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~~~~~~~~~~d~~~~~~~~~kk~~Y~GGlVleP--k~GlY 639 (1274)
.+.+.|.+++.+...+++..+++++.+.+...+++.|........ .......|+|+.|++| .+|+|
T Consensus 433 ~~~~~g~~~~~vf~~n~g~~erfll~rki~gp~WL~i~~p~~~~~------------~~~S~c~yEga~v~~p~v~~g~~ 500 (1172)
T TIGR00592 433 PSDLKGQTFWHVFGSNTGNLERFLLLRKIKGPCWLAVKGPDELEY------------PRRSWCKYEGGYVKPPNVEKGLD 500 (1172)
T ss_pred hhhccCCcchheeccCHHHHHHHHhcCCCCCCceEEeCCCcccCc------------CCccccceEEEEecCcccccccc
Confidence 567789999999888999999999999999999999865532110 1123568999999999 99999
Q ss_pred ce--eEEEeecc--ccChhHHHHhcccccccccccc-CC----Cccccc-ccc--------CC--cccccCCCcHHHHHH
Q psy1361 640 DK--FIILMDFN--SLYPSIIQEYNICFTTIPVRML-QD----SDITTL-CEY--------LP--EHQVDTGILPSEIKK 699 (1274)
Q Consensus 640 d~--~VlvLDFn--SLYPSII~~yNIcptTv~~~~~-~~----~~~~~i-p~~--------~~--~~~~~~GILP~iL~~ 699 (1274)
.+ ||++|||+ |||||||+++|||.+|+..... .+ .+.... +.. +| ......|++|..|..
T Consensus 501 ~~~pPl~vLdFsi~SlyPsi~~~~nl~iS~~v~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~L~~ 580 (1172)
T TIGR00592 501 KTPPPLVVLDFSMKSLNPSIIRNEIVSIPDTLHREFALDKPPPEPPYDVHPCVGTRPKDCSFPLDLKGEFPGKKPSLVED 580 (1172)
T ss_pred CCCCCeEEEEeeeEEecCccccCceEEEEEEEeecccccCCCCCCccceEEEEEEccCCCCCCchhhhhhhccCCcEEEE
Confidence 98 89999999 9999999999999776654321 10 000000 100 01 012467999999999
Q ss_pred HHHHHHHHHHHhcCC-CCChHHHHHHHHHHHHhhcccccc
Q psy1361 700 LVESRRQVKALMKQP-NLSSDLLMQYDIRQKALKLTANSM 738 (1274)
Q Consensus 700 Lle~R~~vK~~mK~~-~~~~~~~~~ld~rQ~ALKl~aNS~ 738 (1274)
+.+.|..+++.|+.. ..+|+...-||++|.|||+++|=+
T Consensus 581 ~~sEr~lL~~fl~~~~~~DPDii~g~n~~qfdlkvl~nR~ 620 (1172)
T TIGR00592 581 LATERALIKKFMAKVKKIDPDEIVGHDYQQRALKVLANRI 620 (1172)
T ss_pred ecCHHHHHHHHHHHHHhcCCCEEEEEcccCccHHHHHHHH
Confidence 999999999999864 348888899999999999999965
No 32
>PF08490 DUF1744: Domain of unknown function (DUF1744); InterPro: IPR013697 This domain is found on the catalytic subunit of DNA polymerase epsilon. It is found C-terminal to IPR006133 from INTERPRO and IPR006134 from INTERPRO. ; GO: 0003887 DNA-directed DNA polymerase activity, 0008270 zinc ion binding, 0006260 DNA replication, 0005634 nucleus
Probab=97.86 E-value=0.00014 Score=86.84 Aligned_cols=262 Identities=13% Similarity=0.147 Sum_probs=162.0
Q ss_pred chhhhccCchhHhHhcCchhHHHHHHHHHHHhcCCEeecCCccCcCccCCcccccccccCCCCCcccCCceeeccccccc
Q psy1361 560 IRITNVCGNVLSRTLMGGRSERNEFLLLHAFHEKSYVLPDKQYGKNKKEGEETGEANKGKGRKKAAYSGGLVLEPKKGFY 639 (1274)
Q Consensus 560 ~qLt~IaGn~~srtl~ggraeR~E~LLLhef~~~~yIlPdk~~~~~~~~~~~d~~~~~~~~~kk~~Y~GGlVlePk~GlY 639 (1274)
+++++.+..|+...-......-..-+.-|.+++.|+|+=..... .+..|..+.| +.. ..........+.--.||+|
T Consensus 126 i~laRY~~IPlgNl~~D~~~f~~Di~yAR~L~~~~~VLW~S~~~-~PDlGG~e~D-d~~--~~~~~~~~~~~~in~pG~Y 201 (396)
T PF08490_consen 126 IELARYAHIPLGNLPSDNPLFLIDIFYARRLRKNNHVLWWSPSP-RPDLGGKEED-DNR--LLWDMDELESPEINNPGAY 201 (396)
T ss_pred HHHHHHcCCCcccCCcchHHHHHHHHHHHHHHHCCeEEeCCCCC-CCCCCcchhh-hhc--ccccccccCceEEECCCcc
Confidence 34455555554443333334556777888899999998544321 1212211000 000 0001112223344689999
Q ss_pred ceeEEEeecccc-ChhHHHHhccccccccccccC--CCcc--ccc--cccCCcccccCCCcHHHHHHHHHHHHHHHHHhc
Q psy1361 640 DKFIILMDFNSL-YPSIIQEYNICFTTIPVRMLQ--DSDI--TTL--CEYLPEHQVDTGILPSEIKKLVESRRQVKALMK 712 (1274)
Q Consensus 640 d~~VlvLDFnSL-YPSII~~yNIcptTv~~~~~~--~~~~--~~i--p~~~~~~~~~~GILP~iL~~Lle~R~~vK~~mK 712 (1274)
.+..+.||+..| .-+|.++--|-= +.+.... ..+. ... ...-...-.+..+-+..++ -.|.++|..++
T Consensus 202 ~~vcvEl~i~~LavnaiL~S~~i~e--~EG~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~f~---iLr~mv~~w~~ 276 (396)
T PF08490_consen 202 RSVCVELDISNLAVNAILQSSLINE--LEGSDSAGFNFDTASDASNGSANSSSSYDESAFCSAAFR---ILRSMVKSWLR 276 (396)
T ss_pred ceEEEEEEecceeHHHHHHHhHHhh--hcCCccccccccccccccccccccccccccccccHHHHH---HHHHHHHHHHH
Confidence 998899999988 445554443321 0110000 0000 000 0000000012222333222 23455556655
Q ss_pred CCCCChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcCccceeccccceeeec
Q psy1361 713 QPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEVIYGDTDSLMISC 792 (1274)
Q Consensus 713 ~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g~~VIYGDTDSImI~~ 792 (1274)
+. ..... ..| .+++.+|-.+-...|.+|++.|...|-..=+..+.+...-++++|.+|||+|-..|.|.|
T Consensus 277 d~-~~~n~--~AD-------~ll~~f~rWl~sp~S~LyDPaL~~~v~~LmkK~flqLl~Ef~rlG~~VVyA~~~riil~T 346 (396)
T PF08490_consen 277 DA-LKGNS--FAD-------SLLQHFYRWLSSPSSLLYDPALHRMVHNLMKKVFLQLLAEFRRLGSKVVYADFNRIILCT 346 (396)
T ss_pred HH-hcCCc--cHH-------HHHHHHHHHHcCCcccccCHHHHHHHHHHHHHHHHHHHHHHHHcCCEEEEEcCCEEEEEC
Confidence 41 10000 011 125778999999999999999999999999998888888889999999999999999999
Q ss_pred CCCCHHHHHHHHHHHHHHHhh--cCccEEEEeeehhhHhhccccccceEE
Q psy1361 793 NVNDYDSVFKIGNQIKSECNK--LYKQLELDIDGVYKYMLLLKKKKYAAL 840 (1274)
Q Consensus 793 ~~~d~eea~kig~eI~~~VN~--~~~~LeLe~E~vy~~lLLl~KKrYA~l 840 (1274)
+..+.++|...++-|.+.|+. +|..|+|++...|..+++..+.+|+|+
T Consensus 347 ~K~~~~~A~ay~~yi~~~i~~~~lF~~l~l~~~~~w~~LlwmD~~NygGi 396 (396)
T PF08490_consen 347 GKTSLENAYAYVQYILKSIRSRELFSWLDLKPVRYWDSLLWMDPYNYGGI 396 (396)
T ss_pred CCCCHHHHHHHHHHHHHHHhcccccccEEeEHHHHhhhheEecccccCCC
Confidence 999999999999999999975 578999999999999999999999874
No 33
>PHA02735 putative DNA polymerase type B; Provisional
Probab=96.93 E-value=0.0037 Score=73.10 Aligned_cols=44 Identities=27% Similarity=0.397 Sum_probs=35.8
Q ss_pred cccCCceeecccccccceeEEEeeccccChhHHHHhcccccccccc
Q psy1361 624 AAYSGGLVLEPKKGFYDKFIILMDFNSLYPSIIQEYNICFTTIPVR 669 (1274)
Q Consensus 624 ~~Y~GGlVlePk~GlYd~~VlvLDFnSLYPSII~~yNIcptTv~~~ 669 (1274)
..|.||.+---++|=+-. |+.-|.||+||+||+.. =.|.|+...
T Consensus 270 EsYyGGrfeV~KrgnvGE-v~~pDINSaYPaim~dl-PDpKTl~W~ 313 (716)
T PHA02735 270 ESYAGGRFEVFKRGNVGE-VAAPDINSAYPAILADL-PDPKTLNWK 313 (716)
T ss_pred HhhcCCceEEeccCccce-eeeccccccchHHHHhC-CCCcccchh
Confidence 579999977778888877 99999999999999993 357776543
No 34
>KOG1798|consensus
Probab=94.29 E-value=0.97 Score=60.51 Aligned_cols=106 Identities=14% Similarity=0.256 Sum_probs=89.2
Q ss_pred ccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcCccceeccccceeeecCCCCHHHHHHHHHHHHHHHhhc
Q psy1361 735 ANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEVIYGDTDSLMISCNVNDYDSVFKIGNQIKSECNKL 814 (1274)
Q Consensus 735 aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g~~VIYGDTDSImI~~~~~d~eea~kig~eI~~~VN~~ 814 (1274)
.+..+-.+-...|.++++.|...+...=+....+...-++..|+.|||.|-+=|-|+|+..+.+.|....+-|.+.+...
T Consensus 1761 v~~l~~Wl~spss~L~dpaL~~~vh~lmkK~fl~L~~e~~rlGa~iIyA~~nkili~T~K~~~e~A~~y~e~l~ksi~t~ 1840 (2173)
T KOG1798|consen 1761 VQHLSRWLRSPSSKLHDPALHRHVHVLMKKLFLQLLAELRRLGAIIIYADFNKILINTGKFSVEAAKAYSEYLLKSISTL 1840 (2173)
T ss_pred HHHHHHHHcCCcccccCHHHHHHHHHHHHHHHHHHHHHHHhcCCeEEEecCCEEEEecCCCCHHHHHHHHHHHHHhhhcc
Confidence 34555566667889999999999988888888887778889999999999999999999999999999999998888653
Q ss_pred --CccEEEEeeehhhHhhccccccceEE
Q psy1361 815 --YKQLELDIDGVYKYMLLLKKKKYAAL 840 (1274)
Q Consensus 815 --~~~LeLe~E~vy~~lLLl~KKrYA~l 840 (1274)
|..|.|.+-.-|..+++..+-+|.|.
T Consensus 1841 ~~f~~l~i~~~r~wd~llwmD~~n~~g~ 1868 (2173)
T KOG1798|consen 1841 PVFHLLDINPVRYWDSLLWMDAHNYGGH 1868 (2173)
T ss_pred cchhheeccHHHHHHHHhhhcccccccc
Confidence 56788888888899999988885443
No 35
>PF03175 DNA_pol_B_2: DNA polymerase type B, organellar and viral; InterPro: IPR004868 This entry is found in DNA polymerase type B proteins. Proteins in this entry are found in plant and fungal mitochondria, and in viruses.; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication; PDB: 1XI1_B 2EX3_G 1XHZ_D 1XHX_C 2PZS_B 2PY5_A 2PYL_A 2PYJ_A.
Probab=83.81 E-value=0.36 Score=59.09 Aligned_cols=34 Identities=38% Similarity=0.564 Sum_probs=25.1
Q ss_pred CcccCCceeecccccccceeEEEeeccccChhHHH
Q psy1361 623 KAAYSGGLVLEPKKGFYDKFIILMDFNSLYPSIIQ 657 (1274)
Q Consensus 623 k~~Y~GGlVlePk~GlYd~~VlvLDFnSLYPSII~ 657 (1274)
+.+|.||.+.--.+|.+. .|..+|++||||++|.
T Consensus 203 r~s~~GGr~~~~~~~~~~-~i~~yDvnSLYP~~m~ 236 (459)
T PF03175_consen 203 RKSYYGGRCEVFKPGIKN-KIYYYDVNSLYPSAMK 236 (459)
T ss_dssp -EEE-GGGB-TEEEESE----EEEEETTHHHHHHH
T ss_pred HhhcCCceeeeeeccccc-ceeeeeccCCcHHHHh
Confidence 468999999767777777 5999999999999988
No 36
>PHA03144 helicase-primase primase subunit; Provisional
Probab=82.31 E-value=37 Score=43.96 Aligned_cols=220 Identities=12% Similarity=0.167 Sum_probs=134.9
Q ss_pred eecccccccceeEEEeeccccChhHHHHhccccccccccccCCCccccccccCCcccccCCCcHHHHHHHHHHHHHHHHH
Q psy1361 631 VLEPKKGFYDKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSDITTLCEYLPEHQVDTGILPSEIKKLVESRRQVKAL 710 (1274)
Q Consensus 631 VlePk~GlYd~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~~~~~ip~~~~~~~~~~GILP~iL~~Lle~R~~vK~~ 710 (1274)
+++|-.=+-.-+++-+||+-++|++..+. .|+ + . -|...+..|
T Consensus 401 il~~P~~i~~~wlAKFDFSaFfptLy~al--~p~------h-----~------------------RL~~~v~aR------ 443 (746)
T PHA03144 401 ILDHPAVIGGVWLAKFDFSAFFPTLYLAL--FPG------H-----E------------------RLARAVRAR------ 443 (746)
T ss_pred ccCCCceecceeEEEeechhhHHHHHHHh--CCC------c-----h------------------hHHHHHHHH------
Confidence 34444434444689999999999999886 232 0 0 133333344
Q ss_pred hcCCCCChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcCccceeccccceee
Q psy1361 711 MKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEVIYGDTDSLMI 790 (1274)
Q Consensus 711 mK~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g~~VIYGDTDSImI 790 (1274)
++.. . -.||-.+-+++|-|-. -++....+|-..+-.|=....+.+.+.||-|==..-|+.|=
T Consensus 444 ~r~~--~-----------pwlK~aLv~f~GgL~h-----~~p~~yr~ii~i~N~Is~~vE~~A~~~~FAiCtYvkDGfWG 505 (746)
T PHA03144 444 ARRE--K-----------PWLKAALVSFFGGLQH-----ICPAAYRALIALANAVSRALERAANAVGFAVCTYVKDGFWG 505 (746)
T ss_pred hccc--C-----------chHHHHHHHHhhhhhh-----cCHHHHHHHHHHHHHHHHHHHHHHhhcCeeEEeecCCceEE
Confidence 2221 1 1578888899987744 57888899999999988888888889999888888998774
Q ss_pred ecCCC-----C---HHHHHHHHHHHHHHHhhc-------C---ccEEEEeeehhhHhhccccccceEEEeeecCCCceee
Q psy1361 791 SCNVN-----D---YDSVFKIGNQIKSECNKL-------Y---KQLELDIDGVYKYMLLLKKKKYAALSISKLSNGKMIC 852 (1274)
Q Consensus 791 ~~~~~-----d---~eea~kig~eI~~~VN~~-------~---~~LeLe~E~vy~~lLLl~KKrYA~l~~~~~~dG~~~~ 852 (1274)
-++.. . ...++.+-.......++. + ..+.|.+||||.-.++..-..|=... ...+.
T Consensus 506 ~f~~~~~~~~~~~a~~~ae~lR~ace~aA~~~L~~~GL~~~~~~~l~LRlEGvyThAvsW~~~~yWLwN---~~~~~--- 579 (746)
T PHA03144 506 VLGVDPQDAVSADALAAAERARAACQAAAEAVLADMGLLLPEGAPLHLRLEGLYTHAVSWSQHGYWLWN---RRTDT--- 579 (746)
T ss_pred eccCCcccccccchhhHHHHHHHHHHHHHHHHHHhcCCCCCCCCCceEEEeEEeeeeeeecCcceeecc---CCCCc---
Confidence 44332 1 122333333333333321 1 25788999999999998888775442 21221
Q ss_pred eeeeecceeecCChHHHHHHHHHHHHHHHHc-cCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCcc
Q psy1361 853 SQEIKGVDVVRRDWSQLASEAGKFVISQILD-EQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPLT 918 (1274)
Q Consensus 853 ~~evKGle~vRRD~c~l~K~~~~~vL~~ILs-~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vple 918 (1274)
-++-|+-. |.-.+..+|+....+|..... ..+ .+.+.+..++.+.++....-..+.+.+
T Consensus 580 -~~~vGFP~-Rs~~a~~ak~aL~~lL~~~~~~~~~-----~~~~~~~a~~~cd~lv~~AF~~R~D~~ 639 (746)
T PHA03144 580 -EDFVGFPL-RSAAARAAKAALRALLRAAVADSAD-----AETLRQAAREACDRLVLEAFARRLDAE 639 (746)
T ss_pred -cceeeccC-chHHHHHHHHHHHHHHHHhcCChhh-----HHHHHHHHHHHHHHHHHHHHhhcCCCC
Confidence 24679965 666677777777777752221 122 344555555555555555444444443
No 37
>PF03175 DNA_pol_B_2: DNA polymerase type B, organellar and viral; InterPro: IPR004868 This entry is found in DNA polymerase type B proteins. Proteins in this entry are found in plant and fungal mitochondria, and in viruses.; GO: 0000166 nucleotide binding, 0003677 DNA binding, 0003887 DNA-directed DNA polymerase activity, 0008408 3'-5' exonuclease activity, 0006260 DNA replication; PDB: 1XI1_B 2EX3_G 1XHZ_D 1XHX_C 2PZS_B 2PY5_A 2PYL_A 2PYJ_A.
Probab=81.75 E-value=0.04 Score=67.19 Aligned_cols=45 Identities=29% Similarity=0.418 Sum_probs=31.2
Q ss_pred ccCCCcHHHHHHHHHHHHHHHHHhcCCCCChHHHHHHHHHHHHhhccccccccCCCCC
Q psy1361 688 VDTGILPSEIKKLVESRRQVKALMKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFP 745 (1274)
Q Consensus 688 ~~~GILP~iL~~Lle~R~~vK~~mK~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~ 745 (1274)
...|++++.++.+.+.|...|+.... .+.-.||++||.||=+|-.
T Consensus 329 ~~~~~F~~~i~~~~~~k~~~k~~~~~-------------~~~i~KL~lNSlyGkf~~~ 373 (459)
T PF03175_consen 329 EKGGLFKEYIDKLYELKKNAKKKADK-------------EKSIAKLLLNSLYGKFGQN 373 (459)
T ss_dssp EES-TTHHHHHHHHHHHHH--HHHHH----------------HHHHHHHHHHHHHS--
T ss_pred cccCchHHHHHHHHHhhhhhccCCch-------------hHHHHHHHHhhhhhhhccC
Confidence 46789999999999999988765422 1157899999999988753
No 38
>PHA03181 helicase-primase primase subunit; Provisional
Probab=81.57 E-value=43 Score=43.39 Aligned_cols=223 Identities=13% Similarity=0.165 Sum_probs=141.2
Q ss_pred eecccccccceeEEEeeccccChhHHHHhccccccccccccCCCccccccccCCcccccCCCcHHHHHHHHHHHHHHHHH
Q psy1361 631 VLEPKKGFYDKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSDITTLCEYLPEHQVDTGILPSEIKKLVESRRQVKAL 710 (1274)
Q Consensus 631 VlePk~GlYd~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~~~~~ip~~~~~~~~~~GILP~iL~~Lle~R~~vK~~ 710 (1274)
++++-.=+-.-+++-+||+-++|++..+.= |+ + .-|.+.+.. .
T Consensus 410 il~~P~~i~~~~~AkFDFSaFfptLylaLf--P~------h-----------------------~rL~~~v~a------R 452 (764)
T PHA03181 410 IFREPTLIENAAIAKFDFSAFFATLYLGLF--PC------H-----------------------SRLRDAVKA------R 452 (764)
T ss_pred ccCCCceeccceEEEeechhhHHHHHHHHC--CC------c-----------------------HHHHHHHHH------H
Confidence 345444444456899999999999988732 32 0 113333333 3
Q ss_pred hcCCCCChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcCccceeccccceee
Q psy1361 711 MKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEVIYGDTDSLMI 790 (1274)
Q Consensus 711 mK~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g~~VIYGDTDSImI 790 (1274)
++... --||..+-+++|-|-. -++.+..+|-..+-.|=......+.+.||-|==..-|+.|=
T Consensus 453 ~rre~-------------~wLK~aLv~f~G~Lkh-----~~p~~y~aii~i~N~Is~~vE~~A~~~~FAiCtYvkDGfWG 514 (764)
T PHA03181 453 LRREK-------------DWLKRPIVEFGGLLKH-----FREDVYKAIIGIGNHISLEVEATASTLMFAPCTYVKDGMWG 514 (764)
T ss_pred hcccC-------------chHHHHHHHHhhhhhh-----cCHHHHHHHHHHHHHHHHHHHHHHhhcCeeEEeecCCceEE
Confidence 33311 1477788888887744 57888999999999998888888889999888888898774
Q ss_pred ecCCC---------CHHHHH-HHHHHHHHHHhh-------cC---ccEEEEeeehhhHhhccccccceEEEeeecCCCce
Q psy1361 791 SCNVN---------DYDSVF-KIGNQIKSECNK-------LY---KQLELDIDGVYKYMLLLKKKKYAALSISKLSNGKM 850 (1274)
Q Consensus 791 ~~~~~---------d~eea~-kig~eI~~~VN~-------~~---~~LeLe~E~vy~~lLLl~KKrYA~l~~~~~~dG~~ 850 (1274)
-++.. ....++ .+-.......++ .+ ..+.|.+||||.-.++..-..|=... ...+.
T Consensus 515 ~F~~~~~~~~~~~~~~~~a~~~lR~ac~~aA~~~l~~~GL~~p~~~~l~LRlEGvYThAvsW~~n~yWLwN---~~~~~- 590 (764)
T PHA03181 515 TFIDKANNVIVSPEGNENIFETLRVACNESANRLATSIGLRFPDGINLQMRLEGVYTHAMSWNANCYWLWN---RNTRE- 590 (764)
T ss_pred ecccccccccccchhhHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCceEEEeEEeeeeeeecCcceeecc---CCCCC-
Confidence 33321 122333 222223333332 12 25788999999999988888775442 22221
Q ss_pred eeeeeeecceeecCChHHHHHHHHHHHHHHHHccCCCCCCchHHHHHHHHHHHHHHHHHHhCCCcCc
Q psy1361 851 ICSQEIKGVDVVRRDWSQLASEAGKFVISQILDEQSYTDYSLDDRLQNIHEHMKKIRTDLDNGFVPL 917 (1274)
Q Consensus 851 ~~~~evKGle~vRRD~c~l~K~~~~~vL~~ILs~~~~~~~~~e~~ve~I~~~l~~~~~kL~~g~vpl 917 (1274)
-++-|+ .-|.....-+|+....+|+.|....+..+ ..+.+++..++.+.++...--..+.+.
T Consensus 591 ---~~~vGF-P~r~~~~~~ak~~Ls~lL~~i~~~~~~~~-~l~~~~~~a~~~cd~Lv~~AF~~R~D~ 652 (764)
T PHA03181 591 ---SDFVGF-PKQPEFATHAKEALSTLLEEICLCNDTDE-SLLTIQEKVQKVFEELLYMAFKKRGDA 652 (764)
T ss_pred ---cceeec-CCCcHHHHHHHHHHHHHHHHHHhccCCcc-cHHHHHHHHHHHHHHHHHHHHhhcCCC
Confidence 245788 45777888999999999998887655111 144555666666666555554444443
No 39
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=81.43 E-value=1.3 Score=38.98 Aligned_cols=34 Identities=26% Similarity=0.540 Sum_probs=22.9
Q ss_pred cceeeeCCCCCCCcccccccccC----CC-CCCCcccceee
Q psy1361 1131 EGWLKCEDPGCSDLTRRCPLGLK----TR-LCTTCHKYKLH 1166 (1274)
Q Consensus 1131 ~~~~~Cdd~~C~~~tr~~~~~~~----~~-~c~~C~~g~~~ 1166 (1274)
..|+.| |.|+++||.---.-. .| .||.|.+.++.
T Consensus 2 ~~Wi~C--P~CgnKTR~kir~DT~LkNfPlyCpKCK~EtlI 40 (55)
T PF14205_consen 2 SEWILC--PICGNKTRLKIREDTVLKNFPLYCPKCKQETLI 40 (55)
T ss_pred CeEEEC--CCCCCccceeeecCceeccccccCCCCCceEEE
Confidence 479999 999999975321111 23 49999766553
No 40
>PHA03140 helicase-primase primase subunit; Provisional
Probab=67.38 E-value=1.2e+02 Score=39.48 Aligned_cols=186 Identities=14% Similarity=0.216 Sum_probs=119.6
Q ss_pred eecccccccceeEEEeeccccChhHHHHhccccccccccccCCCccccccccCCcccccCCCcHHHHHHHHHHHHHHHHH
Q psy1361 631 VLEPKKGFYDKFIILMDFNSLYPSIIQEYNICFTTIPVRMLQDSDITTLCEYLPEHQVDTGILPSEIKKLVESRRQVKAL 710 (1274)
Q Consensus 631 VlePk~GlYd~~VlvLDFnSLYPSII~~yNIcptTv~~~~~~~~~~~~ip~~~~~~~~~~GILP~iL~~Lle~R~~vK~~ 710 (1274)
++++-.=+-.-+++-|||+-++|+|..+.- |+ + .-|.+++..|
T Consensus 408 il~~P~~i~~~wlAKFDFSaFfptLY~alf--P~------h-----------------------~rL~r~v~aR------ 450 (772)
T PHA03140 408 ILDSPVCVRDLWLAKFDFSAFFPTIYCALF--PE------H-----------------------ARLARIIRAR------ 450 (772)
T ss_pred ccCCCceeccceEEEeechhhHHHHHHHHC--cC------c-----------------------HHHHHHHHHH------
Confidence 455544444556789999999999988743 32 0 1144444444
Q ss_pred hcCCCCChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcCccceeccccceee
Q psy1361 711 MKQPNLSSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEVIYGDTDSLMI 790 (1274)
Q Consensus 711 mK~~~~~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g~~VIYGDTDSImI 790 (1274)
++.. .| -||-.+-+++|-|-. -++.+..+|-..+-.|=....+.+.+.||-|-=..-|+.|=
T Consensus 451 ~rre--~p-----------~LK~aLv~f~GgLrh-----~~p~~y~aii~i~N~Is~~vE~~A~~~~FAiCtYvKDGFWG 512 (772)
T PHA03140 451 RRRG--RP-----------CLKPALVTFFGGLRH-----IHPPAYKAIIALANAISACVERAANERNFAICTYVKDGFWG 512 (772)
T ss_pred hccC--Cc-----------hHHHHHHHHhhhhhh-----cCHHHHHHHHHHHHHHHHHHHHHHhhcCeeEEeeccCceeE
Confidence 2221 11 477778889887744 56888999999999988888888889999888888898774
Q ss_pred ecCCC---------CHHHHHHHHHHHHHHHhhc--------C---ccEEEEeeehhhHhhccccccceEEEeeecCCCce
Q psy1361 791 SCNVN---------DYDSVFKIGNQIKSECNKL--------Y---KQLELDIDGVYKYMLLLKKKKYAALSISKLSNGKM 850 (1274)
Q Consensus 791 ~~~~~---------d~eea~kig~eI~~~VN~~--------~---~~LeLe~E~vy~~lLLl~KKrYA~l~~~~~~dG~~ 850 (1274)
-++.. ....++.+-......+++. + ..+.|.+||||.-.+...-..|=.. +...++.
T Consensus 513 ~F~~~~~~~~~~~~~~~~a~~lR~ace~aA~~~L~~~~GL~~~~~~~l~LRlEGvyThAvsW~~~~yWLw---N~~~~~~ 589 (772)
T PHA03140 513 AFGDLVPGAVSRDAARAAALALRDDCERAVEAVLRDDLGLRPAEGAEPHLRFEGVFTHAVSWCTTGYWLW---NATTGES 589 (772)
T ss_pred ecccccccccccchhhhHHHHHHHHHHHHHHHHHHHhcCcCCCCCCCceEEEeEEeeeeeeecCcceeec---ccCCCCc
Confidence 33222 1233333333333333321 1 2578889999999998887777433 2112211
Q ss_pred eeeeeeecceeecCChHHHHHHHHHHHH
Q psy1361 851 ICSQEIKGVDVVRRDWSQLASEAGKFVI 878 (1274)
Q Consensus 851 ~~~~evKGle~vRRD~c~l~K~~~~~vL 878 (1274)
-++-|+ .-|.....-+|+....+|
T Consensus 590 ---~~~vGF-P~rs~a~~~ak~~l~~lL 613 (772)
T PHA03140 590 ---EHLVGV-PCRSEAARDAKESLAGLL 613 (772)
T ss_pred ---cceeec-cCccHHHHHHHHHHHHHH
Confidence 135688 457777788888888777
No 41
>PRK11702 hypothetical protein; Provisional
Probab=55.75 E-value=7.2 Score=39.13 Aligned_cols=62 Identities=24% Similarity=0.432 Sum_probs=40.9
Q ss_pred ccccchhcccchhhHHHHHHHHHHhcCCCcceeceeccccccccccChHHHHHHHHhhccCCce---EeCCCccccccCc
Q psy1361 43 EGGRAKRQKIDKTNKFAAFQKLKDLKGQGVKHKYEFTADENVYEEVSEKEYTERVLKRQEDDWI---DDDGGDGYVEDGR 119 (1274)
Q Consensus 43 ~~~R~rr~~~~k~gr~aALe~LKa~RG~g~k~~yeVee~~~VYdEVDE~eY~kiVr~R~~DDFI---VDDdG~GYvDdGr 119 (1274)
+..|+||.|+.+. ..-+++| |--.+++.. +.+++++|...| |.|| |+-+|.+|.--|-
T Consensus 2 a~~RsRRlRKKL~--v~EFqeL------GF~v~~~~~------~~~~~e~~D~~v-----D~fIde~Ie~ngL~f~G~G~ 62 (108)
T PRK11702 2 AKNRSRRLRKKMH--IDEFQEL------GFSVNWRFP------EGTSEEQIDATV-----DAFIDEVIEPNGLAFDGSGY 62 (108)
T ss_pred ccchhHHHHhhhh--hHhhHhh------eeEEEEEEC------CCCCHHHHHHHH-----HHHHHHHHhcCCceecCCcc
Confidence 4678888877654 5556666 422344433 349999999987 4454 5889999966565
Q ss_pred cccC
Q psy1361 120 EIFD 123 (1274)
Q Consensus 120 EifD 123 (1274)
..|+
T Consensus 63 ~~~e 66 (108)
T PRK11702 63 LAWE 66 (108)
T ss_pred eeEE
Confidence 5664
No 42
>COG3623 SgaU Putative L-xylulose-5-phosphate 3-epimerase [Carbohydrate transport and metabolism]
Probab=37.17 E-value=52 Score=37.43 Aligned_cols=62 Identities=19% Similarity=0.209 Sum_probs=41.0
Q ss_pred ChHHHHHHHHHHHHhhccccccccCCCCCcCCCCCHHHHHHHHHHhHHHHHHHHHHHHhcCccce
Q psy1361 717 SSDLLMQYDIRQKALKLTANSMYGCLGFPNSRFFAQPLAALVTAKGREILLNTKSLVENLNYEVI 781 (1274)
Q Consensus 717 ~~~~~~~ld~rQ~ALKl~aNS~YG~lG~~~sRfy~~~lA~~IT~~GReiL~~tke~ve~~g~~VI 781 (1274)
+.+++.++...-..--+..||| ||.+ +-||+-----..+...|.+|+++++.++.++|.+.|
T Consensus 52 s~~er~~l~~ai~etgv~ipSm--ClSa-HRRfPfGS~D~~~r~~aleiM~KaI~LA~dLGIRtI 113 (287)
T COG3623 52 SKEERLALVNAIQETGVRIPSM--CLSA-HRRFPFGSKDEATRQQALEIMEKAIQLAQDLGIRTI 113 (287)
T ss_pred CHHHHHHHHHHHHHhCCCccch--hhhh-hccCCCCCCCHHHHHHHHHHHHHHHHHHHHhCceeE
Confidence 3444555544444566778998 6644 334443333367889999999999999998765443
No 43
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=36.52 E-value=59 Score=35.46 Aligned_cols=52 Identities=17% Similarity=0.185 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHHHhh--cc--ceeeeCCCCCCCcccccccccCCCCCCCcccceee
Q psy1361 1112 PHLINKLSQDMNKYIVKY--YE--GWLKCEDPGCSDLTRRCPLGLKTRLCTTCHKYKLH 1166 (1274)
Q Consensus 1112 ~~i~nql~~~ir~~i~~y--y~--~~~~Cdd~~C~~~tr~~~~~~~~~~c~~C~~g~~~ 1166 (1274)
..|.+++.....+.-.++ .. ..++| |.|+.+--..-....+..||.| .+.|.
T Consensus 92 d~ik~~~~~~~~klk~~l~~e~~~~~Y~C--p~C~~rytf~eA~~~~F~Cp~C-g~~L~ 147 (178)
T PRK06266 92 EIIKKKKMEELKKLKEQLEEEENNMFFFC--PNCHIRFTFDEAMEYGFRCPQC-GEMLE 147 (178)
T ss_pred HHHHHHHHHHHHHHHHHhhhccCCCEEEC--CCCCcEEeHHHHhhcCCcCCCC-CCCCe
Confidence 345666655554444442 22 36899 6799765443222237899999 45544
No 44
>PRK14715 DNA polymerase II large subunit; Provisional
Probab=32.61 E-value=1.2e+02 Score=41.98 Aligned_cols=96 Identities=20% Similarity=0.383 Sum_probs=68.3
Q ss_pred HHHHHHHhhccceeeeCCCCCCCcccccccccCCCCCCCcccceeeeecChHHHHHHHHHHHHhcchhhhhhcCCCCCcc
Q psy1361 1121 DMNKYIVKYYEGWLKCEDPGCSDLTRRCPLGLKTRLCTTCHKYKLHRVYTELQLYQQLSFFHYICDITKALTKSDTPSIK 1200 (1274)
Q Consensus 1121 ~ir~~i~~yy~~~~~Cdd~~C~~~tr~~~~~~~~~~c~~C~~g~~~~~ys~~~ly~qL~y~~~lfd~~~~~~~~~~~~~~ 1200 (1274)
.|+..++.|-+..++| -|+.+-|++|+.+ .||.| .|.+....++...-..|- +.+.+. ....
T Consensus 1530 Dl~GNLRaFsrQ~~RC---kC~~kyRR~PL~G---~C~kC-Gg~~ilTV~kGsv~KYl~-------~a~~~~----~~y~ 1591 (1627)
T PRK14715 1530 DLIGNLRAFSRQEFRC---KCGAKYRRVPLKG---KCPKC-GSKLILTVSKGAVEKYMP-------VAKMMA----EKYN 1591 (1627)
T ss_pred hhhhhhhhhhccceee---cCCCccccCCCCC---cCccc-CCeEEEEEecchHHHHHH-------HHHHHH----HHcC
Confidence 4556778899999999 5999999999975 59999 789998998887755442 111110 0112
Q ss_pred CChhHHHHHHHHHHHHHHHHHhcCCceechhhhh
Q psy1361 1201 FDSETYMGYCKMKQHVERFLESSAYNIVDLKKLF 1234 (1274)
Q Consensus 1201 ~~~~~~~~~~~~~~~v~~~l~~~~~~~V~l~~lf 1234 (1274)
...-.++++..+..-++.........-+.|++.|
T Consensus 1592 v~~Y~~qRl~~~~~~i~slF~~~~~kq~~l~df~ 1625 (1627)
T PRK14715 1592 VNDYTKQRLCIIKEGIKSLFENDKRKQVKLDDFF 1625 (1627)
T ss_pred chHHHHHHHHHHHHHHHHhhccccccccCHHHHh
Confidence 3444567788888888888887777777777755
No 45
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=27.89 E-value=1.5e+02 Score=40.96 Aligned_cols=95 Identities=17% Similarity=0.257 Sum_probs=63.8
Q ss_pred HHHHHHHhhccceeeeCCCCCCCcccccccccCCCCCCCcccceeeeecChHHHHHHHHHHHHhcchhhhhhcCCCCCcc
Q psy1361 1121 DMNKYIVKYYEGWLKCEDPGCSDLTRRCPLGLKTRLCTTCHKYKLHRVYTELQLYQQLSFFHYICDITKALTKSDTPSIK 1200 (1274)
Q Consensus 1121 ~ir~~i~~yy~~~~~Cdd~~C~~~tr~~~~~~~~~~c~~C~~g~~~~~ys~~~ly~qL~y~~~lfd~~~~~~~~~~~~~~ 1200 (1274)
.|...++.|-+.-++|- -|+.+-|++|+.+ .|+.| .|.+....++...-..|. +.+.+. ....
T Consensus 1241 Dl~GNLraFsrQ~~RC~--kC~~kyRR~PL~G---~C~kC-Gg~iilTv~~Gsv~KYl~-------~a~~~~----~~y~ 1303 (1337)
T PRK14714 1241 DLIGNLRAFSRQEFRCL--KCGTKYRRMPLAG---KCRKC-GGRIILTVHEGSVEKYLD-------TAKMVA----TEYN 1303 (1337)
T ss_pred hhhhhhhhhhccceeec--ccCcccccCCCCC---ccccc-CCeEEEEEecchHHHHHH-------HHHHHH----HHcC
Confidence 45566788999999994 6999999999975 59999 789999999887755442 121111 0112
Q ss_pred CChhHHHHHHHHHHHHHHHHHhcCCceechhh
Q psy1361 1201 FDSETYMGYCKMKQHVERFLESSAYNIVDLKK 1232 (1274)
Q Consensus 1201 ~~~~~~~~~~~~~~~v~~~l~~~~~~~V~l~~ 1232 (1274)
+.+-.++++..|..-|+.......-..+.|.+
T Consensus 1304 ~~~Y~~qRl~~l~~~i~s~F~~~~~kq~~l~d 1335 (1337)
T PRK14714 1304 VREYTKQRLEVLDRDIESLFENDKNKQSGLAD 1335 (1337)
T ss_pred chHHHHHHHHHHHHHHHHhhccccccccChhh
Confidence 33445567777777777666655555555554
No 46
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=27.64 E-value=1.2e+02 Score=32.38 Aligned_cols=51 Identities=20% Similarity=0.154 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHhh--c--cceeeeCCCCCCCcccccccccCCCCCCCccccee
Q psy1361 1112 PHLINKLSQDMNKYIVKY--Y--EGWLKCEDPGCSDLTRRCPLGLKTRLCTTCHKYKL 1165 (1274)
Q Consensus 1112 ~~i~nql~~~ir~~i~~y--y--~~~~~Cdd~~C~~~tr~~~~~~~~~~c~~C~~g~~ 1165 (1274)
..|.+++...+.+.-.++ . ...++| |.|+.+--..-....+..||.| .+.|
T Consensus 84 d~Ik~~~~~~~~~lk~~l~~e~~~~~Y~C--p~c~~r~tf~eA~~~~F~Cp~C-g~~L 138 (158)
T TIGR00373 84 DVLKRKLEETAKKLREKLEFETNNMFFIC--PNMCVRFTFNEAMELNFTCPRC-GAML 138 (158)
T ss_pred HHHHHHHHHHHHHHHHHHhhccCCCeEEC--CCCCcEeeHHHHHHcCCcCCCC-CCEe
Confidence 345555555444444432 2 245799 7799765443222237899999 4544
No 47
>PRK04023 DNA polymerase II large subunit; Validated
Probab=26.66 E-value=2e+02 Score=38.97 Aligned_cols=95 Identities=17% Similarity=0.260 Sum_probs=61.0
Q ss_pred HHHHHHHhhccceeeeCCCCCCCcccccccccCCCCCCCcccceeeeecChHHHHHHHHHHHHhcchhhhhhcCCCCCcc
Q psy1361 1121 DMNKYIVKYYEGWLKCEDPGCSDLTRRCPLGLKTRLCTTCHKYKLHRVYTELQLYQQLSFFHYICDITKALTKSDTPSIK 1200 (1274)
Q Consensus 1121 ~ir~~i~~yy~~~~~Cdd~~C~~~tr~~~~~~~~~~c~~C~~g~~~~~ys~~~ly~qL~y~~~lfd~~~~~~~~~~~~~~ 1200 (1274)
.|...++.|.+.-++| .-|+.+-|++|+.+ .|+.| .|.+....++...-..|. +.+.+.+ ...
T Consensus 1025 Dl~GNLRaFsrQ~fRC--~kC~~kYRR~PL~G---~C~kC-Gg~lilTVh~GsV~KYl~-------~s~~la~----~Y~ 1087 (1121)
T PRK04023 1025 DLIGNLRAFSRQEFRC--TKCGAKYRRPPLSG---KCPKC-GGNLILTVHKGSVEKYLE-------VSKKLAE----EYG 1087 (1121)
T ss_pred hhhhhhhhhcccceee--cccCcccccCCCCC---cCccC-CCeEEEEEecchHHHHHH-------HHHHHHH----HcC
Confidence 4556678899999999 46999999999974 59999 799999998887755442 1111110 012
Q ss_pred CChhHHHHHHHHHHHHHHHHHhcCCceechhh
Q psy1361 1201 FDSETYMGYCKMKQHVERFLESSAYNIVDLKK 1232 (1274)
Q Consensus 1201 ~~~~~~~~~~~~~~~v~~~l~~~~~~~V~l~~ 1232 (1274)
+.+-.++++..|..-|+.....-.-..+.|++
T Consensus 1088 v~~Y~kQRi~~l~~~I~slF~~~~~kq~~l~d 1119 (1121)
T PRK04023 1088 VSDYTKQRLELLERGIKSLFENDKSKQSGLSD 1119 (1121)
T ss_pred ChHHHHHHHHHHHHHHHHhhccccccccchhh
Confidence 33344556666666666665544444444443
No 48
>PF08988 DUF1895: Protein of unknown function (DUF1895); InterPro: IPR015081 The YscE protein, produced by the pathogen Yersinia, assumes a secondary structure composed of two anti-parallel alpha-helices separated by a flexible loop. The function of this protein is, as yet, unknown. ; PDB: 1ZW0_B 2P58_A 2UWJ_E 2Q1K_D 3PH0_B.
Probab=23.78 E-value=1.9e+02 Score=27.03 Aligned_cols=40 Identities=18% Similarity=0.184 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHHHhcCCCCChHHHHHH----HHHHHHhhcc
Q psy1361 694 PSEIKKLVESRRQVKALMKQPNLSSDLLMQY----DIRQKALKLT 734 (1274)
Q Consensus 694 P~iL~~Lle~R~~vK~~mK~~~~~~~~~~~l----d~rQ~ALKl~ 734 (1274)
-.+...|.+.+..+|+.|.. ..+|+++.+| +.-+.|++++
T Consensus 17 ~~i~~~L~~a~~~vkr~L~~-G~~P~eyQq~q~~~~AieAA~~Vi 60 (68)
T PF08988_consen 17 RAIEQQLRQAQSQVKRKLDR-GGTPQEYQQLQQQYDAIEAAIAVI 60 (68)
T ss_dssp HHHHHHHHHHHHHHHHHHTC-TSSHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHhcC-CCCHHHHHHHHHHHHHHHHHHHHH
Confidence 35778899999999999998 5789988654 5667777766
No 49
>PRK05762 DNA polymerase II; Reviewed
Probab=22.83 E-value=85 Score=41.65 Aligned_cols=127 Identities=15% Similarity=0.109 Sum_probs=71.1
Q ss_pred eeEEEeeehhccccCCCCEEEEEeeeeecCCCceEEEEEEEeceeeeEEEecCCCCcCCCCccCHHHHHHHHHHHHhhcC
Q psy1361 381 VFRMFFLDAFEDIYKQPGTVYLFGKVFVKENNSHSSCCVIVQNIDRKIYLLPRSEHLKTKEPVSIAQVYSEFDQIATQYK 460 (1274)
Q Consensus 381 ~l~fyw~d~~E~~~~~~g~~~lfGKv~~~~~~~~~Sccv~v~~~~R~~y~lPr~~~~~~~~~~~~~dv~~e~~~~~~~~~ 460 (1274)
.+.||.||..-......-.|+|||+-. .--++||.+.+-.=.+|..|.. .+....+...
T Consensus 3 ~~~~~lL~~~~~~~~~~~vi~l~g~t~-----~G~~~~v~~~~~~~yFy~~~~~-----------~~~~~~~~~~----- 61 (786)
T PRK05762 3 LQQGFILTRHYRDTPGGPEVELWLATD-----EGPRVVLLDPQFRPYFIPAEQD-----------ERAESLLAGE----- 61 (786)
T ss_pred ceEEEEEeeEEEEECCeEEEEEEEEcC-----CCCEEEEECCCCcEEEEEeCch-----------hhhHHHHhhc-----
Confidence 467899998776433344789999843 2457888888765555544422 1111223221
Q ss_pred CCceeeeeeeccccccCCCCCCccceeeEeec--cCCCCCCCCCCCCceeeeccCchhHHHHHHhhccccCCCeeeccc
Q psy1361 461 ILDFKSRKIEKKYAFNLPGVPDLSEYLEVRYS--AKCPALPSDLSGDTFSHVFGTKSSFLENLLLERKIKGPSWLEFPE 537 (1274)
Q Consensus 461 i~~~~~k~v~r~yaf~~~~vp~~~~yl~v~y~--~~~p~lp~~~~G~tfs~vfgt~~s~~E~fll~rki~GP~wl~i~~ 537 (1274)
..+..+++... .|... .+..+..+ .....+|..+.. .--.+|.++-....+|++++.|.+-.|+.+..
T Consensus 62 -~~~~~~~~~l~-~~~~~------~~~~~~~~~~~~~~~~~~~~~~-~~~~i~EaDI~~~~R~lid~~i~~~~w~~~~~ 131 (786)
T PRK05762 62 -IGVRLSPLALK-DFHRR------PVLGLYCRQHRQLTRLPKRLRE-GGVDVYEADIRFPERYLMERFITPCVWFSGEV 131 (786)
T ss_pred -ccceeecccee-cccCC------eeeEEEeccHHHHHHHHHHHHH-cCCeEEECCCChhHhheeeCCCCCcEEEEEEe
Confidence 11555555322 33321 11111111 111223333331 23467899999999999999999999987653
No 50
>PF14260 zf-C4pol: C4-type zinc-finger of DNA polymerase delta
Probab=21.79 E-value=93 Score=28.60 Aligned_cols=40 Identities=23% Similarity=0.577 Sum_probs=30.3
Q ss_pred cccCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHhhccceeeeCCCCCC
Q psy1361 1095 LDECINPECKVPPYTYLPHLINKLSQDMNKYIVKYYEGWLKCEDPGCS 1142 (1274)
Q Consensus 1095 ~~~C~~~~C~~~~~~~~~~i~nql~~~ir~~i~~yy~~~~~Cdd~~C~ 1142 (1274)
...|. .|...|.. .+. .|...++..-++|-.-|.+| .+|.
T Consensus 13 ~~lC~--~C~~~~~~---~~~-~l~~~~~~~E~~~~~l~~iC--~~C~ 52 (73)
T PF14260_consen 13 SPLCS--NCRSDPQQ---TIY-NLLSRLRELERRFNELWTIC--QSCS 52 (73)
T ss_pred CCcCc--ccCcChHH---HHH-HHHHHHHHHHHHHHHHHHHH--HHhc
Confidence 35787 58876542 333 67778888889999999999 6888
Done!