Query 000430
Match_columns 1517
No_of_seqs 492 out of 1738
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 08:23:34 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/000430.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/000430hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0970 DNA polymerase alpha, 100.0 6E-304 1E-308 2706.7 92.2 1385 1-1515 1-1429(1429)
2 TIGR00592 pol2 DNA polymerase 100.0 8E-176 2E-180 1728.9 88.0 882 302-1270 277-1172(1172)
3 PTZ00166 DNA polymerase delta 100.0 1E-142 3E-147 1393.3 87.6 914 331-1413 38-1015(1054)
4 KOG0969 DNA polymerase delta, 100.0 3E-144 5E-149 1276.9 48.2 905 333-1413 73-1026(1066)
5 PRK05762 DNA polymerase II; Re 100.0 1E-112 3E-117 1095.0 70.0 739 334-1281 3-779 (786)
6 PRK05761 DNA polymerase I; Rev 100.0 4E-105 8E-110 1019.0 62.5 724 338-1281 20-776 (787)
7 COG0417 PolB DNA polymerase el 100.0 6E-104 1E-108 1013.1 65.9 757 351-1282 8-782 (792)
8 PHA03036 DNA polymerase; Provi 100.0 1E-103 3E-108 993.1 58.3 664 529-1266 140-983 (1004)
9 PHA02528 43 DNA polymerase; Pr 100.0 7.3E-98 2E-102 952.2 56.6 559 637-1271 175-865 (881)
10 KOG0968 DNA polymerase zeta, c 100.0 9.5E-92 2.1E-96 853.3 50.0 597 629-1282 727-1364(1488)
11 cd05534 POLBc_zeta DNA polymer 100.0 3.2E-86 6.9E-91 801.0 37.9 408 817-1276 1-449 (451)
12 cd05532 POLBc_alpha DNA polyme 100.0 3.1E-86 6.8E-91 793.1 36.7 392 886-1287 3-400 (400)
13 cd05533 POLBc_delta DNA polyme 100.0 7.5E-85 1.6E-89 779.0 34.1 368 890-1272 2-392 (393)
14 cd05536 POLBc_B3 DNA polymeras 100.0 7.5E-79 1.6E-83 723.0 36.2 361 889-1280 2-370 (371)
15 PF00136 DNA_pol_B: DNA polyme 100.0 2.4E-78 5.2E-83 741.9 32.1 434 817-1290 1-465 (466)
16 cd05537 POLBc_Pol_II DNA polym 100.0 4.6E-75 1E-79 688.4 35.2 340 890-1272 2-370 (371)
17 cd05530 POLBc_B1 DNA polymeras 100.0 3.2E-73 6.9E-78 671.0 37.8 349 887-1270 9-371 (372)
18 cd00145 POLBc DNA polymerase t 100.0 4.1E-70 8.9E-75 638.5 30.6 312 890-1270 2-323 (323)
19 cd05531 POLBc_B2 DNA polymeras 100.0 3.1E-69 6.6E-74 635.4 33.8 334 889-1271 3-351 (352)
20 cd05538 POLBc_Pol_II_B DNA pol 100.0 2E-69 4.4E-74 635.2 30.8 336 890-1268 2-344 (347)
21 KOG1798 DNA polymerase epsilon 100.0 6E-66 1.3E-70 635.6 38.7 699 481-1294 196-1155(2173)
22 smart00486 POLBc DNA polymeras 100.0 3.4E-65 7.3E-70 622.7 43.3 435 550-1050 1-470 (471)
23 PHA03334 putative DNA polymera 100.0 1.4E-61 3.1E-66 606.7 43.1 468 636-1142 327-997 (1545)
24 cd05535 POLBc_epsilon DNA poly 100.0 2.7E-56 5.9E-61 536.2 31.2 311 944-1269 217-613 (621)
25 PHA02524 43A DNA polymerase su 100.0 4E-51 8.6E-56 491.4 34.3 286 628-973 169-479 (498)
26 PF08996 zf-DNA_Pol: DNA Polym 100.0 4.2E-47 9.2E-52 412.2 11.4 184 1307-1514 1-188 (188)
27 cd05776 DNA_polB_alpha_exo ina 100.0 5.8E-45 1.3E-49 409.1 19.2 234 550-801 1-234 (234)
28 PF03104 DNA_pol_B_exo1: DNA p 100.0 1.6E-40 3.4E-45 388.4 14.2 308 366-745 5-325 (325)
29 cd05777 DNA_polB_delta_exo DED 100.0 1.5E-32 3.2E-37 308.3 24.4 219 547-798 2-228 (230)
30 PHA02523 43B DNA polymerase su 100.0 9.1E-33 2E-37 314.2 19.8 290 977-1280 36-382 (391)
31 cd05778 DNA_polB_zeta_exo inac 100.0 2.6E-29 5.7E-34 282.0 21.5 217 551-790 3-230 (231)
32 TIGR00592 pol2 DNA polymerase 100.0 6.4E-31 1.4E-35 350.2 -4.5 410 483-994 156-620 (1172)
33 cd05780 DNA_polB_Kod1_like_exo 100.0 1.7E-27 3.7E-32 261.0 21.6 191 550-793 1-195 (195)
34 cd05784 DNA_polB_II_exo DEDDy 100.0 3.4E-27 7.3E-32 257.9 21.7 187 550-790 1-192 (193)
35 cd05785 DNA_polB_like2_exo Unc 99.9 5.6E-26 1.2E-30 251.0 20.9 190 547-790 4-206 (207)
36 cd05781 DNA_polB_B3_exo DEDDy 99.9 4.1E-25 8.8E-30 240.9 21.4 179 550-792 1-187 (188)
37 cd05160 DEDDy_DNA_polB_exo DED 99.9 4.5E-25 9.7E-30 242.0 21.1 195 554-791 1-199 (199)
38 cd05779 DNA_polB_epsilon_exo D 99.9 4.4E-25 9.4E-30 243.0 20.7 195 551-790 1-203 (204)
39 cd05783 DNA_polB_B1_exo DEDDy 99.9 7E-22 1.5E-26 218.0 20.5 186 548-791 1-202 (204)
40 PF12254 DNA_pol_alpha_N: DNA 99.9 2E-22 4.3E-27 181.3 5.1 66 26-95 1-66 (67)
41 PHA02563 DNA polymerase; Provi 99.8 3.1E-18 6.8E-23 212.9 23.4 198 889-1116 236-543 (630)
42 cd05782 DNA_polB_like1_exo Unc 99.7 4.6E-16 1E-20 172.6 14.0 133 638-792 76-208 (208)
43 PF10108 DNA_pol_B_exo2: Predi 99.3 7E-12 1.5E-16 137.9 13.5 136 638-795 35-171 (209)
44 PF13482 RNase_H_2: RNase_H su 98.7 1.2E-07 2.6E-12 101.1 11.1 115 639-794 42-164 (164)
45 COG3359 Predicted exonuclease 97.9 0.00014 3.1E-09 81.0 13.2 115 638-792 141-264 (278)
46 PHA02735 putative DNA polymera 97.9 0.00017 3.8E-09 84.6 14.4 41 889-931 270-310 (716)
47 PF08490 DUF1744: Domain of un 97.8 0.00085 1.8E-08 81.9 19.8 188 897-1097 194-396 (396)
48 PRK05711 DNA polymerase III su 97.7 0.0011 2.4E-08 75.9 16.7 170 550-793 2-172 (240)
49 TIGR01406 dnaQ_proteo DNA poly 97.6 0.0013 2.8E-08 74.7 16.2 167 553-793 1-168 (225)
50 cd06131 DNA_pol_III_epsilon_Ec 97.5 0.0027 5.9E-08 68.1 15.3 164 555-793 2-166 (167)
51 PRK06807 DNA polymerase III su 97.3 0.004 8.7E-08 74.0 15.9 161 551-793 7-168 (313)
52 PRK08517 DNA polymerase III su 97.3 0.0038 8.3E-08 72.2 15.0 162 549-793 65-227 (257)
53 cd06136 TREX1_2 DEDDh 3'-5' ex 97.3 0.0063 1.4E-07 66.5 15.3 93 642-792 83-176 (177)
54 PRK07883 hypothetical protein; 97.1 0.0071 1.5E-07 77.2 16.3 163 549-793 12-178 (557)
55 smart00479 EXOIII exonuclease 97.1 0.01 2.2E-07 63.2 14.9 161 554-793 2-163 (169)
56 PRK07740 hypothetical protein; 97.1 0.0072 1.6E-07 69.5 14.4 167 548-793 55-222 (244)
57 PF03175 DNA_pol_B_2: DNA poly 97.0 0.00057 1.2E-08 85.3 5.2 33 889-922 204-236 (459)
58 PRK06310 DNA polymerase III su 97.0 0.016 3.4E-07 67.0 16.3 142 552-752 7-148 (250)
59 PRK07942 DNA polymerase III su 97.0 0.023 5E-07 64.9 16.7 146 549-752 3-154 (232)
60 PRK08074 bifunctional ATP-depe 96.9 0.014 3E-07 79.0 16.6 138 553-752 4-143 (928)
61 PRK06309 DNA polymerase III su 96.9 0.021 4.6E-07 65.2 15.4 99 637-793 63-162 (232)
62 PRK05601 DNA polymerase III su 96.8 0.038 8.2E-07 66.5 17.2 194 548-793 42-245 (377)
63 PRK06063 DNA polymerase III su 96.7 0.041 8.8E-07 65.7 17.1 140 549-752 12-153 (313)
64 TIGR00573 dnaq exonuclease, DN 96.7 0.028 6.1E-07 63.5 14.7 103 552-679 7-109 (217)
65 cd06134 RNaseT DEDDh 3'-5' exo 96.7 0.043 9.3E-07 60.7 15.8 173 554-793 7-185 (189)
66 TIGR01405 polC_Gram_pos DNA po 96.5 0.055 1.2E-06 74.4 18.2 140 552-753 190-330 (1213)
67 PRK05168 ribonuclease T; Provi 96.5 0.079 1.7E-06 59.7 16.7 146 549-749 14-171 (211)
68 cd06138 ExoI_N N-terminal DEDD 96.5 0.018 3.9E-07 63.3 11.2 109 556-682 2-110 (183)
69 cd06130 DNA_pol_III_epsilon_li 96.4 0.032 6.9E-07 58.9 12.0 133 555-752 2-136 (156)
70 PRK06195 DNA polymerase III su 96.4 0.031 6.7E-07 66.5 13.1 135 553-749 2-137 (309)
71 TIGR01407 dinG_rel DnaQ family 96.3 0.055 1.2E-06 72.8 16.2 139 553-753 1-140 (850)
72 PRK07748 sporulation inhibitor 96.1 0.11 2.4E-06 58.3 15.0 168 551-793 3-176 (207)
73 PRK07246 bifunctional ATP-depe 95.9 0.092 2E-06 70.2 15.4 137 552-753 7-145 (820)
74 cd06144 REX4_like DEDDh 3'-5' 95.9 0.029 6.3E-07 59.8 8.6 32 637-672 61-92 (152)
75 TIGR03491 RecB family nuclease 95.8 0.037 8.1E-07 69.3 10.7 120 638-792 326-456 (457)
76 PRK09145 DNA polymerase III su 95.7 0.24 5.2E-06 55.3 15.3 105 550-678 27-132 (202)
77 cd06127 DEDDh DEDDh 3'-5' exon 95.7 0.13 2.9E-06 53.3 12.6 102 555-680 1-102 (159)
78 TIGR01298 RNaseT ribonuclease 95.6 0.38 8.2E-06 53.9 16.2 174 552-793 8-188 (200)
79 KOG1798 DNA polymerase epsilon 95.5 0.21 4.7E-06 67.1 15.5 107 989-1096 1759-1867(2173)
80 cd06149 ISG20 DEDDh 3'-5' exon 95.4 0.057 1.2E-06 58.0 8.6 32 638-673 62-93 (157)
81 COG0847 DnaQ DNA polymerase II 95.3 0.2 4.4E-06 57.2 13.3 164 552-794 13-179 (243)
82 PRK09146 DNA polymerase III su 95.3 0.25 5.5E-06 56.8 13.8 107 549-679 44-151 (239)
83 PF01612 DNA_pol_A_exo1: 3'-5' 95.1 0.03 6.5E-07 59.8 5.5 105 643-793 65-171 (176)
84 cd06133 ERI-1_3'hExo_like DEDD 94.9 0.65 1.4E-05 50.0 14.9 168 555-793 2-175 (176)
85 cd06145 REX1_like DEDDh 3'-5' 94.7 0.082 1.8E-06 56.4 7.4 66 639-752 61-127 (150)
86 cd06137 DEDDh_RNase DEDDh 3'-5 94.7 0.077 1.7E-06 57.2 7.2 64 641-752 71-138 (161)
87 COG2176 PolC DNA polymerase II 94.5 0.16 3.5E-06 67.5 10.6 140 548-749 417-558 (1444)
88 PRK07247 DNA polymerase III su 94.5 0.58 1.3E-05 52.3 13.7 97 552-673 5-101 (195)
89 PRK06722 exonuclease; Provisio 93.4 1.7 3.8E-05 51.2 15.5 108 553-682 6-115 (281)
90 PRK11779 sbcB exonuclease I; P 91.1 1.2 2.6E-05 56.2 11.0 113 550-680 4-117 (476)
91 PRK05359 oligoribonuclease; Pr 90.3 1.4 3E-05 48.6 9.6 110 553-680 4-121 (181)
92 cd06135 Orn DEDDh 3'-5' exonuc 90.2 1.2 2.7E-05 48.5 9.0 110 555-680 2-117 (173)
93 cd06125 DnaQ_like_exo DnaQ-lik 90.1 0.32 7E-06 48.0 4.0 35 647-682 35-69 (96)
94 PRK00448 polC DNA polymerase I 88.7 3.5 7.7E-05 58.3 13.5 138 552-752 419-558 (1437)
95 PRK09182 DNA polymerase III su 86.4 2.8 6.1E-05 49.9 9.3 32 549-581 34-65 (294)
96 cd06146 mut-7_like_exo DEDDy 3 86.4 1.8 4E-05 48.1 7.3 67 724-793 114-191 (193)
97 PHA03144 helicase-primase prim 84.4 73 0.0016 42.2 20.7 228 896-1177 401-647 (746)
98 cd06139 DNA_polA_I_Ecoli_like_ 83.9 5.2 0.00011 43.6 9.3 108 639-793 51-166 (193)
99 PHA03181 helicase-primase prim 82.3 1E+02 0.0023 40.8 20.8 225 896-1174 410-658 (764)
100 cd00007 35EXOc 3'-5' exonuclea 80.3 8.1 0.00018 39.9 8.8 68 724-793 80-151 (155)
101 PRK07983 exodeoxyribonuclease 78.5 18 0.00039 41.3 11.5 54 725-793 97-150 (219)
102 PTZ00315 2'-phosphotransferase 78.5 45 0.00097 43.3 15.9 107 552-678 56-175 (582)
103 PRK05755 DNA polymerase I; Pro 73.6 11 0.00024 51.5 9.5 103 642-793 357-465 (880)
104 PRK06266 transcription initiat 69.4 4.7 0.0001 44.6 3.8 49 1324-1394 117-165 (178)
105 smart00474 35EXOc 3'-5' exonuc 68.4 18 0.00038 38.2 7.8 66 725-793 101-167 (172)
106 PRK00398 rpoP DNA-directed RNA 67.1 4.3 9.4E-05 34.8 2.3 28 1324-1372 3-30 (46)
107 PF00929 RNase_T: Exonuclease; 66.8 5 0.00011 41.6 3.3 104 555-678 1-104 (164)
108 TIGR00373 conserved hypothetic 65.7 5.1 0.00011 43.4 3.1 47 1324-1392 109-155 (158)
109 PF13719 zinc_ribbon_5: zinc-r 63.2 4.8 0.0001 33.1 1.8 32 1324-1371 2-33 (37)
110 PF09986 DUF2225: Uncharacteri 62.6 8.5 0.00018 43.8 4.3 84 1324-1416 5-94 (214)
111 TIGR02098 MJ0042_CXXC MJ0042 f 62.1 4.8 0.0001 32.9 1.6 14 1324-1337 2-15 (38)
112 TIGR01206 lysW lysine biosynth 61.6 5.3 0.00011 35.8 1.9 30 1324-1372 2-31 (54)
113 PRK10829 ribonuclease D; Provi 61.5 16 0.00035 45.0 6.6 103 644-793 63-166 (373)
114 PHA03140 helicase-primase prim 60.6 4.8E+02 0.01 35.0 19.3 226 896-1174 408-668 (772)
115 smart00834 CxxC_CXXC_SSSS Puta 60.2 6.8 0.00015 32.3 2.2 14 1323-1336 4-17 (41)
116 PF14353 CpXC: CpXC protein 55.5 5.9 0.00013 41.2 1.3 15 1324-1338 1-15 (128)
117 PF13717 zinc_ribbon_4: zinc-r 55.4 8.2 0.00018 31.6 1.9 32 1324-1371 2-33 (36)
118 PF09723 Zn-ribbon_8: Zinc rib 51.3 12 0.00025 31.7 2.2 14 1323-1336 4-17 (42)
119 PF09538 FYDLN_acid: Protein o 48.2 11 0.00024 38.4 1.9 11 1324-1334 9-19 (108)
120 PF14205 Cys_rich_KTR: Cystein 46.2 18 0.00039 32.4 2.5 15 1400-1416 2-16 (55)
121 PRK12380 hydrogenase nickel in 44.8 15 0.00033 37.6 2.4 16 1321-1336 67-82 (113)
122 smart00531 TFIIE Transcription 44.4 10 0.00023 40.5 1.1 35 1323-1372 98-132 (147)
123 smart00659 RPOLCX RNA polymera 44.0 19 0.00041 31.0 2.3 27 1324-1372 2-28 (44)
124 TIGR00593 pola DNA polymerase 43.7 43 0.00093 45.9 6.9 105 642-793 365-473 (887)
125 PRK00564 hypA hydrogenase nick 43.6 16 0.00035 37.7 2.3 16 1321-1336 68-83 (117)
126 TIGR02605 CxxC_CxxC_SSSS putat 43.5 17 0.00037 31.7 2.1 14 1323-1336 4-17 (52)
127 TIGR00100 hypA hydrogenase nic 43.3 17 0.00037 37.4 2.4 16 1321-1336 67-82 (115)
128 cd06129 RNaseD_like DEDDy 3'-5 41.8 24 0.00053 37.9 3.5 67 725-794 94-160 (161)
129 cd06143 PAN2_exo DEDDh 3'-5' e 41.7 78 0.0017 35.1 7.2 35 738-790 139-173 (174)
130 PRK03681 hypA hydrogenase nick 41.5 18 0.0004 37.1 2.3 15 1321-1335 67-81 (114)
131 PHA02952 EEV maturation protei 40.1 52 0.0011 42.9 6.4 39 638-677 252-294 (648)
132 PF01155 HypA: Hydrogenase exp 39.7 10 0.00022 38.9 0.2 16 1321-1336 67-82 (113)
133 cd06141 WRN_exo DEDDy 3'-5' ex 37.7 41 0.00089 36.2 4.5 68 725-793 100-168 (170)
134 PRK03824 hypA hydrogenase nick 36.5 26 0.00057 37.1 2.6 18 1321-1338 67-84 (135)
135 PF03337 Pox_F12L: Poxvirus F1 36.4 85 0.0018 41.2 7.4 41 638-678 252-297 (651)
136 PF10571 UPF0547: Uncharacteri 33.5 27 0.00058 26.8 1.5 9 1326-1334 2-10 (26)
137 PRK05978 hypothetical protein; 31.5 26 0.00055 37.8 1.6 31 1322-1372 31-61 (148)
138 PF13240 zinc_ribbon_2: zinc-r 30.2 28 0.0006 25.9 1.1 9 1326-1334 1-9 (23)
139 TIGR02300 FYDLN_acid conserved 30.2 31 0.00068 36.1 1.8 11 1324-1334 9-19 (129)
140 PF13248 zf-ribbon_3: zinc-rib 29.3 27 0.00058 26.6 0.9 10 1325-1334 3-12 (26)
141 PRK14714 DNA polymerase II lar 29.3 85 0.0018 43.9 6.0 65 1324-1453 667-735 (1337)
142 PF09862 DUF2089: Protein of u 28.0 34 0.00073 35.3 1.7 10 1363-1372 12-21 (113)
143 KOG2249 3'-5' exonuclease [Rep 25.9 3.5E+02 0.0076 32.0 9.3 42 734-793 221-262 (280)
144 COG2888 Predicted Zn-ribbon RN 25.3 41 0.00088 30.8 1.4 15 1323-1337 26-40 (61)
145 COG4888 Uncharacterized Zn rib 25.1 16 0.00035 36.5 -1.1 14 1322-1335 20-33 (104)
146 PRK10144 formate-dependent nit 24.8 61 0.0013 34.1 2.8 32 1363-1396 40-71 (126)
147 TIGR03147 cyt_nit_nrfF cytochr 24.8 60 0.0013 34.1 2.8 32 1363-1396 40-71 (126)
148 PRK14892 putative transcriptio 23.9 29 0.00063 35.0 0.3 34 1363-1403 42-78 (99)
149 KOG4793 Three prime repair exo 23.9 68 0.0015 37.6 3.2 46 636-683 102-147 (318)
150 COG0615 TagD Cytidylyltransfer 23.8 1E+02 0.0022 33.1 4.2 34 648-682 79-113 (140)
151 PF07295 DUF1451: Protein of u 23.8 54 0.0012 35.3 2.3 16 1322-1337 110-125 (146)
152 COG1675 TFA1 Transcription ini 23.6 57 0.0012 36.2 2.5 29 1325-1373 114-142 (176)
153 PHA03242 envelope glycoprotein 23.3 82 0.0018 39.4 4.0 38 19-57 363-412 (428)
154 KOG3657 Mitochondrial DNA poly 23.1 1.3E+02 0.0028 40.2 5.8 56 740-800 323-384 (1075)
155 cd06140 DNA_polA_I_Bacillus_li 23.0 3.8E+02 0.0082 28.8 8.8 67 724-793 82-152 (178)
156 PRK00762 hypA hydrogenase nick 21.5 60 0.0013 33.9 2.1 16 1321-1337 67-82 (124)
157 COG1996 RPC10 DNA-directed RNA 20.8 60 0.0013 28.8 1.6 28 1323-1371 5-32 (49)
158 TIGR03830 CxxCG_CxxCG_HTH puta 20.5 1E+02 0.0022 31.6 3.5 29 1363-1396 31-59 (127)
159 COG5216 Uncharacterized conser 20.3 48 0.001 30.1 0.9 14 1322-1336 20-33 (67)
No 1
>KOG0970 consensus DNA polymerase alpha, catalytic subunit [Replication, recombination and repair]
Probab=100.00 E-value=6.4e-304 Score=2706.68 Aligned_cols=1385 Identities=43% Similarity=0.702 Sum_probs=1125.1
Q ss_pred CCCCCccccccccccccchhHHHHHHHHHHHHHcCCCccCCCccccccccCCcccccChHHHHHHHHHHHhhcCCcEEeC
Q 000430 1 MKDEQPVVAGRRRSRGAEASARAEALERLKALRRGGRRSGDSVGYNIKLENPIYDTVAEDEYDALVARRREEARGFIVDD 80 (1517)
Q Consensus 1 ~~~~~~~~~~R~~r~~~~k~~r~~ALe~LK~~r~ggk~~~~~~~yeV~e~~~VYdeVDE~eY~kiV~~Rq~d~dDfIVDD 80 (1517)
|+|+++ ++|+||.+.+|++|++||||||++| |.+ ++|||+++++|||+|||+||.||||+||+| ||||||
T Consensus 1 ms~s~s--es~~rR~~~~ks~r~~alerLk~ar-~s~-----~~Ye~e~~~~vYD~VDeeEY~k~v~~r~~D--dfvVdD 70 (1429)
T KOG0970|consen 1 MSDSES--ESRRRRSRGSKSSRLAALERLKAAR-TSG-----DKYEVEEVEDVYDTVDEEEYRKIVRQRLDD--DFVVDD 70 (1429)
T ss_pred CCCCCc--chhhhhhccCchhhHHHHHHHHHhh-ccC-----cccccccccccccccCHHHHHHHHHHHhcC--CeEEeC
Confidence 888887 7888888889999999999999999 332 379999999999999999999999999885 999999
Q ss_pred CCCcccCCCcc-cccccCCCCCCCCcccccchhhhhhhhhhhhcccccccCcCCCCCchhHHHhhcchhhHHHHHhcccc
Q 000430 81 DGLGYGDEGQE-EDWSVAGLPSSSDDESLDGQRSIKKQRIEKRGKKENNQNVRKPNPSLTAAAAMMGKQRLSAMLTSTAM 159 (1517)
Q Consensus 81 dG~GYvddGrE-~~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~i~~~f~~~~~ 159 (1517)
||.||||+||+ +||+.+ ++++..+++ +|++|+.++ .||+++ ..++++..+++++|++. +
T Consensus 71 dG~GYvd~G~deeD~~~~-----s~ed~~nek--~k~gk~~kk----~Kr~~k--------~~~~t~~~~~kk~~~~~-~ 130 (1429)
T KOG0970|consen 71 DGVGYVDNGVDEEDWSSP-----SDEDTGNEK--KKGGKKPKK----DKRKEK--------DHPVTQMLSTKKSNSAL-V 130 (1429)
T ss_pred CCccccccCcchhhccCC-----Ccccccccc--ccccccccc----hhhhhc--------cccccccccccccchhh-h
Confidence 99999999994 466411 222222112 222221111 122222 24788999999999998 4
Q ss_pred cccccccccc-cchHHHHHHHhccCCCchh--------------hhhhcccccCCccccccccccccccc-cccCC-CC-
Q 000430 160 FKKSKDEKVK-ESESVIDEVLAEFAPDEAD--------------RERRRRSVSSNIKSFVSVNSVKTNSQ-LVTNS-TN- 221 (1517)
Q Consensus 160 ~kK~~~~~~~-~~d~~l~dil~e~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~-~~- 221 (1517)
.|+..+.++. +.|+||+||||+++.++.. ..+||+...+..+..++++..++... ....+ ..
T Consensus 131 aka~~d~k~~~k~d~~~~diLg~~~e~~~e~~~~~~~i~~~~~s~~~rk~~~~a~n~~~~~~~~~~~~kki~~~~s~~ke 210 (1429)
T KOG0970|consen 131 AKATADQKKSVKIDNFMADILGSIDEEEAEEPEKLKKIRPATPSSPKRKFDSAAKNDSLVPVAIAKKKKKIAEDSSSDKE 210 (1429)
T ss_pred hhhhccccccccchhhHHHHhhhccccccccccccccccCCCCccccccccccccCCccCcccccccccccCCCCCcCCC
Confidence 5554555544 8999999999999854322 12222221111111112222211110 00001 11
Q ss_pred -cCcccccc-----ccccccccCCcchhhhhhcccccCC--Ccc---cccccchhhHhhhhcccccchhhhhhccccccc
Q 000430 222 -SVKENSDL-----INNFVQIQNCDVVEESKELKWESDN--STE---LTKRDNFVEVKEKVKDEVNEDVKECKKLNAKIS 290 (1517)
Q Consensus 222 -~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~--~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 290 (1517)
+..|.... .+|..... .++++++ ++.+.. .++ ++++++ .++.+...-+..+.........+.+.
T Consensus 211 ~~s~Pvp~~~~~~~~~d~~~~~--~e~e~~~--~ate~e~~e~~~pl~~ee~~-~dieet~~~~~~~~eeV~~~~~a~~~ 285 (1429)
T KOG0970|consen 211 RESSPVPTKRADFYIPDVQPEA--DEVENPV--KATEFEDTELENPLADEEDI-EDIEETIAMKKLSMEEVTDTARANKD 285 (1429)
T ss_pred CCCCCCCchhhhccCCCccccc--ccccCcc--cccccccccccccccccccc-ccHHHHHHhhhHHHHHHhhhhhcccc
Confidence 11111101 11111100 0111111 011101 000 111111 11111111000000000011122222
Q ss_pred c--CCCCcccccccchhhcCCCcccccCCCCCccccc----ccccC-CCCcEeEEEEeeeccccCCCCcEEEEEEEeec-
Q 000430 291 T--EKDPLLSATAGWKEVSGGNMVLDEGKSGLNCQES----EFEVD-DDGSLPFYILDAHEQLSGANMGTLYLFGKVKA- 362 (1517)
Q Consensus 291 ~--~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~----~~~~~-~~~~l~fywlD~~E~~~~~~~g~l~LFGKv~~- 362 (1517)
. ..++.++ ++|..-..+.....+ ..+..+.+ ..+.+ ++++|+||||||||++++ .||+|||||||+.
T Consensus 286 ~~s~~s~~s~--~~~~~di~~~~~~~~--~~~~~~~s~~~~~~~~D~e~~~l~f~wlDaYee~~~-~~g~l~LFGKVk~~ 360 (1429)
T KOG0970|consen 286 TISKLSPGSP--PGEPEDIKGLGPSNS--LQVDTDSSSGVLVKPEDVEDGSLRFFWLDAYEEVYK-APGTLYLFGKVKLS 360 (1429)
T ss_pred chhhcCCCCC--CcChhhhhccCcccc--hhhccchhhcccccccccccceEEEEEehhhHHHhC-CCceEEEEeeeecc
Confidence 2 1233333 334322221110000 01111111 11223 789999999999999995 4999999999995
Q ss_pred CCceeEEEEEEecceeeEEEeeCCCCCCchhHHHhhHhhhhccCchHHHHHHHHHHHhhhHHHHHHHhh-cCCeeeEEEE
Q 000430 363 GSTHHSCCVVVKNMQRCVYAIPNGPLFQTDEIMKLEKDAEESRISPMAFRKKLQDVALGLKTEIANQLL-NLNVSNYIVS 441 (1517)
Q Consensus 363 ~~~~~Sccv~V~n~~R~~y~lPr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ei~~~~~-~~~i~~~~~k 441 (1517)
+.+|+||||+|+||+|.+|||||+.......- +.+ .+.+ +.||++||...+. +++++.|+++
T Consensus 361 ~~t~~Sccv~V~ni~R~lyflPR~~~l~~~~~-----e~~-~~~s-----------~~dv~~E~~~~l~~k~~~~~fk~k 423 (1429)
T KOG0970|consen 361 GDTYVSCCVVVKNICRVLYFLPRPIKLSAAVG-----EDS-IPES-----------KRDVYKEVGSLLSNKLGLTEFKSK 423 (1429)
T ss_pred CCCceEEEEEEcCeeeEEEecccccccccccC-----Ccc-chhh-----------HHHHHHHHHHHHHhhhhhhHhhhh
Confidence 57899999999999999999999976543221 111 1122 3677888888876 5999999999
Q ss_pred EEEeecccCCCCCCCCceeEEEEEecCCCCCCCcCCCCCccccccCCCchHHHHHhhhcCCCCceeEEEeccccCCCCCC
Q 000430 442 PVKRRYAFGQAEIPAGENYVLKINYPFKDPPLPADLKGENFCSLLGTHSSALELFLVKRKVKGPSWLSISKFSSCPAPQR 521 (1517)
Q Consensus 442 ~v~r~yafe~~~vp~~~~~~lkv~y~~~~p~lp~~l~G~tf~~vfgtn~s~~ErFli~rkI~Gp~Wl~i~~~~~~~~~~~ 521 (1517)
+|+++||||.+|||.+++| |||.|||..|+||+||+|.||+||||+|+++||+|+|+|+|||||||+|.++.. ...+
T Consensus 424 ~v~~~yafe~~dvp~~~dy-LeV~y~~~~p~LP~Dlkgdsfshvfgt~tn~lE~fll~rKimGPCWlkv~~~s~--~~~~ 500 (1429)
T KOG0970|consen 424 PVKKNYAFELPDVPMKSDY-LEVLYSYETPKLPSDLKGDSFSHVFGTNTNPLERFLLSRKIMGPCWLKVKGYSD--PPRN 500 (1429)
T ss_pred hhhhhhccccCCCCCCCcc-eEEeccccCCCCccccccchHHHHhccCccHHHHHHHhccccCceEEEeecCCC--CCCC
Confidence 9999999999999999887 999999999999999999999999999999999999999999999999998873 5789
Q ss_pred cccceEEEEEeCCCCcccccCCCCCCCCCCceEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccc
Q 000430 522 VSWCKYEITVDSPKDIRVSSSSKHVAEVPPVTVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLS 601 (1517)
Q Consensus 522 ~S~Ck~Ev~v~~~~~I~~~~~~~~~~~~PpL~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~ 601 (1517)
+|||++||.|.+|++|+++ .+ ...++|||++|||+|+|++|+++|.+||+|||+++++++.||.|+|.+.++ .
T Consensus 501 ~SwCk~Ev~v~sP~nI~~~-~~-~~a~~Ppl~llsL~i~T~~N~k~~~~Eiv~is~l~~~~~~id~p~p~~~~~-----~ 573 (1429)
T KOG0970|consen 501 ASWCKVEVTVKSPQNITVV-CS-KKAPPPPLTLLSLNIRTSMNPKQNKNEIVMISMLCFHNFSIDKPAPAPAFP-----R 573 (1429)
T ss_pred ccceeeEEEecCCcceEEe-ec-CCCCCCCeeEEEeeeeehhccccchhhhhhhhhhhcccccccCCCCCCccc-----C
Confidence 9999999999999999984 22 236799999999999999999999999999999999999999999987654 8
Q ss_pred eEEEEecCCCcccCCccchhhhcccCCCCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCC
Q 000430 602 HFTVVRKLDGGIFPMGFNKEATDRNSKAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRV 681 (1517)
Q Consensus 602 ~f~~~r~~~~~~fp~~f~~~~~~~~~~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI 681 (1517)
|||++++|.+++||+||...++++.+ + +..+++|++||++|++.++++|||||||||+.+|+|++|++|+++|||
T Consensus 574 ~~c~l~rP~~~~fP~g~~ela~~k~~----~-v~~~~sErALLs~fla~~~~~dpD~iVgHn~~~~~l~VLl~R~~~~Ki 648 (1429)
T KOG0970|consen 574 HFCVLTRPPGTSFPLGLKELAKQKLS----K-VVLHNSERALLSHFLAMLNKEDPDVIVGHNIQGFYLDVLLSRLHALKI 648 (1429)
T ss_pred cceeEecCCCCcCCchHHHHHHhccC----c-eEEecCHHHHHHHHHHHhhccCCCEEEEeccccchHHHHHHHHHHhcC
Confidence 99999999999999999844433322 2 456689999999999999999999999999999999999999999999
Q ss_pred CCCccccccccccCCCcccccCcccccCCCCCCceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhh
Q 000430 682 PSSMWSKIGRLKRSEMPKLRKGRTIFGSGASPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHD 761 (1517)
Q Consensus 682 ~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~e 761 (1517)
|+ ||+||||+|+.+|++++++ +||. +..++|||+||+-.+++++++++||+|+++++++|+.+|.+++..+
T Consensus 649 p~--WS~IgRLrrS~~~kfg~~s-~~~e------~~~~aGRl~CD~~~~a~~lik~~S~~LseL~q~~l~~eR~~i~~~~ 719 (1429)
T KOG0970|consen 649 PN--WSSIGRLRRSWPPKFGRSS-SFGE------FFIIAGRLMCDLNLAARELIKAQSYSLSELSQQILKEERKEINANE 719 (1429)
T ss_pred cc--hhhhhhhhhccccccCCcc-cccc------cccccceEEeehHHHHHhhhccccccHHHHHHHHHhhhcccCCHhH
Confidence 98 9999999999556675443 3664 3468999999999999999999999999999999999999999999
Q ss_pred HHHHHhcchhHHHHHHHHHHhHHHHHHHHhhcccchhHHHHhhhcCCchhhhhcccccchhHHhHHHHHHhcCeeccCcc
Q 000430 762 VLKMFQTLESLMELIEYGETDAWLSMELMFHLSVLPLTRQLTNISGNLWGKTLQGARAQRVEYLLLHAFRAKKYIVPDKF 841 (1517)
Q Consensus 762 I~~~~~~~~~l~~l~~y~~~DA~L~~~L~~kl~ilpL~~qLt~I~Gn~~~rtL~g~r~~r~E~LLLhef~~~~yI~Pdk~ 841 (1517)
|+++|.++.+|..+++++++|++++++||++|++|||++|||||+||.|+|||+|||++||||+|||+||++|||+|||.
T Consensus 720 i~~~y~~s~~L~~ll~~~~~d~~~~l~i~~~l~~LpLs~qlTnIaGni~~RTL~G~RAeRnEylLLH~F~~~~fIvPDK~ 799 (1429)
T KOG0970|consen 720 IPKMYEDSKSLTYLLEHTITDAELILQIMFRLNALPLSKQLTNIAGNIWARTLQGGRAERNEYLLLHEFYKNGFIVPDKQ 799 (1429)
T ss_pred hhhhccChHHHHHHHHHHhHHHHHHHHHHHHhccchHHHHHHHHHhHHHHHHhhccchhhhhHHHHHHHHHCCccCCCcc
Confidence 99999999889999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred chhhHhhhhhcccCCCcccccccccccccCCCCCCCCccccccCCCCCCCCCceeeecccccccceEEEeeccCcchhHH
Q 000430 842 TYVKETKMAKQRSNHGVEDRNVEELTNEDANFDNDTSHNDHRKGKRGPAYAGGLVLEPKKGLYDKYILLLDFNSLYPSII 921 (1517)
Q Consensus 842 ~~~~~~~~~~~r~~~~~e~~~~~~~~~~d~~~~~~~~~~~~~~~~~k~~Y~GGlVleP~~Gly~~~V~~LDF~SLYPSII 921 (1517)
...+.+ +..+. +.++ .....+++++++|+||+||||++|||+++|++|||||||||||
T Consensus 800 ~ssk~~---------~d~d~----------~~eg---~d~~~~~KKk~kYaGGLVlePkkGlYe~~VLllDFNSLYPSII 857 (1429)
T KOG0970|consen 800 NSSKAQ---------KDADE----------TEEG---ADEPSKGKKKAKYAGGLVLEPKKGLYEKYVLLLDFNSLYPSII 857 (1429)
T ss_pred chhhhh---------hhhhh----------hhcc---ccccccccccccccCceeeccccchhhheeEEEEccccchHHH
Confidence 332211 11111 1111 1112235677999999999999999999999999999999999
Q ss_pred HHhCccccccccC--CCCCcccCCC-CCccCCcHHHHHHHHHHHHHHHHHHhhcch-hHHHhhHHHHHHHhhhhhccccc
Q 000430 922 QEYNICFTTVERS--PDGLVPHLPS-SKTTGVLPELLKNLVQRRRMVKTWMKTASG-LKIQQLDIQQQALKLTANSMYGC 997 (1517)
Q Consensus 922 ~~~NIc~tTv~~~--~d~~v~~~p~-~~~~GilP~iL~~Ll~~R~~vK~~mK~~~~-~~~~~~d~rQ~AlKl~aNS~YG~ 997 (1517)
|+||||||||.+. ..+.+|.+|. ..++||||++|+.||++|++||++||+..+ .++.||||||+||||||||||||
T Consensus 858 QEyNICFTTv~~~~~d~Dqlp~lP~s~~~~GiLPr~l~~LVerRk~VK~lMK~~~tp~~~~q~DIRQqALKLTANSMYGC 937 (1429)
T KOG0970|consen 858 QEYNICFTTVDRFSVDSDQLPRLPSSSSEQGILPRLLENLVERRKEVKKLMKQELTPEKRKQLDIRQQALKLTANSMYGC 937 (1429)
T ss_pred HHhhheeeeccccccCcccCCCCCCccccCCccHHHHHHHHHHHHHHHHHHhcCCCHHHHHhhhHHHHHHhhhhccchhh
Confidence 9999999999972 2346899995 489999999999999999999999998644 89999999999999999999999
Q ss_pred ccccccccCCHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEeeccceeeecCcccHHHHHHHHHHHHHHHhcccceeEE
Q 000430 998 LGFSNSRFYAKPLAELITQQGREILRSTVDLVQNNLNLEVIYGDTDSIMIHSGIDDIAKAKAIAGKVIQEVNKKYKCLEI 1077 (1517)
Q Consensus 998 lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~~~g~~VIYGDTDSimI~~~~~~~~ea~~ig~~i~~~Vn~~~~~leL 1077 (1517)
|||++||||++|+|++||.+||+||++|++++++ ||++|||||||||||++|.+|+++|++||++|+++||++|+.|||
T Consensus 938 LGf~~SRFyAkpLAaLVT~KGReiLm~Tk~Lve~-mnl~VIYGDTDSvMInTn~td~~~a~kig~~~k~~VNkrYk~LEI 1016 (1429)
T KOG0970|consen 938 LGFVNSRFYAKPLAALVTYKGREILMNTKDLVEK-MNLEVIYGDTDSVMINTNSTDYEEALKIGNEFKQAVNKRYKLLEI 1016 (1429)
T ss_pred cccccchhhhhhHHHHHhhhhHHHHHHHHHHHHh-cCeEEEEcCCceEEeeCCCccHHHHHHHHHHHHHHHHHHhhhhee
Confidence 9999999999999999999999999999999997 999999999999999999999999999999999999999999999
Q ss_pred eeeeeeeeeeeeccceeeEEEeeecCCccceeEEEeeeeeeeCchhHhHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHH
Q 000430 1078 DLDGLYKRMLLLKKKKYAAVKVQFKDGMPYEVIERKGLDMVRRDWSLLSKEVGDFCLSQILSERSCEDVVESIHNSLMKV 1157 (1517)
Q Consensus 1078 E~E~vy~~~lLl~KKrYa~l~~~~~dG~~~~~~e~KGle~vRRD~c~l~k~~~~~vl~~IL~~~~~e~~~~~i~~~l~~~ 1157 (1517)
|+||||++|||++||||||+.+. +||+-.+.+|+|||||||||||+|+|++++.||++||++.++|++++.||++|+++
T Consensus 1017 DiDgVfkrlLLlkKKKYAAL~l~-~dgkg~~~~E~KGLDmvRRDwc~Lake~g~~vLd~ILs~~~~ee~veaI~d~L~kI 1095 (1429)
T KOG0970|consen 1017 DIDGVFKRLLLLKKKKYAALTLN-KDGKGVERIEVKGLDMVRRDWCQLAKEIGKAVLDKILSDKSREEIVEAIHDELRKI 1095 (1429)
T ss_pred ehhHHHHHHHHHhhhhheeEEec-CCCCCceeeeecccchhHHHHHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Confidence 99999999999999999999987 68886678999999999999999999999999999999999999999999999999
Q ss_pred HHHHhcCCCCccceEEeeccCCCCCCCCCCCCchHHHHHHHHHhcCCCCCCCCCCeeEEEEEeccCCCCCCCcCcccccc
Q 000430 1158 QEDMRSGQVALEKYVITKTLTKPPEAYPDAKNQPHVQVALRLKQSGYSTGCSAGDTVPYIICCEQGTSSGSSVGIAQRAR 1237 (1517)
Q Consensus 1158 ~~~l~~g~v~l~~lvItk~LsK~~~~Y~~~k~~pHV~vA~rl~~~g~~~~~~~Gd~I~YVI~~~~~~~~~~~~~~~~RA~ 1237 (1517)
.++|++|.||+++|+|+|+|+|+|++|++++++|||+||+||+++|. +.+++||+|+||||+.++ ...++++|||
T Consensus 1096 ~~k~~~G~vpl~~fvI~k~LtK~Pe~Yp~~kslPhVqVALrm~~~G~-~~~k~gDvV~yVI~~~D~----~~~~As~RAy 1170 (1429)
T KOG0970|consen 1096 SEKLENGNVPLEKFVITKTLTKNPEAYPDGKSLPHVQVALRMNKRGK-RKVKAGDVVPYVICKEDG----IDNPASERAY 1170 (1429)
T ss_pred HHHHhcCccchhheeeehhccCChhhCCCcccCcHHHHHHHHHHhcC-cccccCCeEEEEEecCCC----CCCchhhccc
Confidence 99999999999999999999999999999999999999999999994 679999999999998654 3456679999
Q ss_pred CchhhhhcCCCCCCChHHHHhhCchHHHHHhhcccCCCCHHHHHHHhCCCCcceecCCCCCCCCCCCCcccccCCchhhc
Q 000430 1238 HPDELKKGDGKWMIDIDYYASQQIHPVVSRLCASIEGTSPERLADCLGLDPSKFQSKPSETMSSDPSSSLLFAVGDEERY 1317 (1517)
Q Consensus 1238 ~P~ev~~~~~~l~iD~eYYl~~QI~p~v~Rl~~pI~g~~~~~la~~lGld~~~~~~~~~~~~~~~~~~~~~~~~~d~erf 1317 (1517)
||+|+...+++|.||++|||.|||||||+|||+||+||+++|||+|||||+++|+.+...+..++...+..++++|.+||
T Consensus 1171 h~~e~~~~~~~l~iD~~YYLa~QIhPvV~Rlve~Iegt~a~riae~LGlDstkyr~~~~~q~~~~a~s~~~s~~td~~~~ 1250 (1429)
T KOG0970|consen 1171 HPDEVMPDEDNLAIDYNYYLAQQIHPVVERLVEPIEGTDAVRIAECLGLDSTKYRRHEGNQKENSALSPDESTLTDVERF 1250 (1429)
T ss_pred ChHhhCccCcceeechhhHhhhhcchhHHHHhhhhcccCHHHHHHHhCCCchhhhhhhcchhhhhhhCCCcchhcchhhh
Confidence 99999998877999999999999999999999999999999999999999999998876666677788888999999999
Q ss_pred cCCCCceeeCCCCCCccccCCcccccccccCCCCCCCcccccccccccCCCCCCccccCCCCHHHHHHHHHHHHHHHHHh
Q 000430 1318 RGCEPLILSCPSCSSTFDCPAVCSSICMSVSEKPSKPETEYNFWRTLRCPKCPEEVEAGRISPGMIANQVKRQADGFVSM 1397 (1517)
Q Consensus 1318 ~~~~~l~~~C~~C~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~i~nql~~~ir~~i~~ 1397 (1517)
++|+||.+.||.|++++.+.+++.... +.....+..+.|++|+.++ ..++++|.||++++||.||++
T Consensus 1251 ~~ce~~~l~CptC~~~~~~~~~~~~~s----------~~~~~~~l~~~Ca~Cq~~~---~~~~~~i~nq~~~qir~fV~~ 1317 (1429)
T KOG0970|consen 1251 KDCEPLTLRCPTCSTENSRAFAVDKVS----------EMSRKEVLSLYCARCQQEP---IESPASITNQVERQIRCFVSL 1317 (1429)
T ss_pred ccccceEEECCCCCCcccccccccCcc----------cchhhhHhhhcChhhhcCC---ccchHHHHHHHHHHHHHHHHH
Confidence 999999999999999999998886321 1112345678899999854 458999999999999999999
Q ss_pred hhceeeeeCCccCCCcccccceeeeccCcCCCCCCCCCCcc-eeeEeeechHHHHHHHHHHHHhhchhHhHhhhhcccCc
Q 000430 1398 YYKGLMMCDDETCKYTTCSLNLRLIGDAERGTVCPNYPRCN-GRLVRKYTEADLYKQLTYFCHLLDTQRGIEKMEISAKI 1476 (1517)
Q Consensus 1398 yy~~~~~Cdd~~C~~~tr~~~~r~~~~~~~~~~C~~~~~C~-g~m~~~ys~~~ly~qL~y~~~lfd~~~~~~~~~~~~~~ 1476 (1517)
||.|||+||||+|+++||+++|++ .+.|+.|+ +|+ |+|+++||+++||||||||++|||++ |++++....++
T Consensus 1318 yy~g~lvCdd~tC~~~TR~~sv~~---~R~g~~C~---~C~~g~l~r~Ytd~~LY~Ql~y~r~i~d~e-al~k~t~~~~~ 1390 (1429)
T KOG0970|consen 1318 YYLGWLVCDDPTCGFRTRQQSVFG---KREGPLCP---GCRIGVLRREYTDKQLYNQLCYFRYILDCE-ALEKMTLAHRL 1390 (1429)
T ss_pred HhhhheeecCcccccccccceeec---cccCccCc---cccccchhhhhhHHHHHHHHHHHHHHHhhH-HHhhhccchhc
Confidence 999999999999999999999987 56799998 497 99999999999999999999999999 99998776665
Q ss_pred hhHHHHhhhHHHHHHHHHHHHHHHHhcCCCeeecCCcee
Q 000430 1477 PLEKELNKIRPVVALAASTVQRIRERCAYGWVKLNDIAI 1515 (1517)
Q Consensus 1477 ~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~v~l~~lf~ 1515 (1517)
+-+.......++++.+..+|++||++|||+||||+.||.
T Consensus 1391 ~k~~~~p~~~~ayn~l~~~i~~~l~~~ay~~vdls~iFa 1429 (1429)
T KOG0970|consen 1391 QKEFLTPESIKAYNRLARTIEKYLNKNAYRYVDLSKIFA 1429 (1429)
T ss_pred cccccCHHHHHHHHHHHHHHHHHHhhccceEechHhhcC
Confidence 555455566777888999999999999999999999995
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=7.7e-176 Score=1728.87 Aligned_cols=882 Identities=41% Similarity=0.664 Sum_probs=746.6
Q ss_pred cchhhcCCCcccccCCCCCcccccccccCC-CCcEeEEEEeeeccccCCCCcEEEEEEEeecCCceeEEEEEEecceeeE
Q 000430 302 GWKEVSGGNMVLDEGKSGLNCQESEFEVDD-DGSLPFYILDAHEQLSGANMGTLYLFGKVKAGSTHHSCCVVVKNMQRCV 380 (1517)
Q Consensus 302 ~w~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~l~fywlD~~E~~~~~~~g~l~LFGKv~~~~~~~Sccv~V~n~~R~~ 380 (1517)
.|+-+.+.+.. ...+-+.....+|.-. .+.+.||| |+|+++.. ..|+++||||.. .++|||+.|.|++|++
T Consensus 277 f~~~i~~~dpd---ii~gYNi~~FD~pyl~~~~~~~~~~-da~~dr~~-~~G~~~lfGr~~---~~~s~~~~v~g~~R~~ 348 (1172)
T TIGR00592 277 FWDVIDQEDTD---VEITVNGDNFDLVYLADRQVFQFYW-DAYEDPAE-KLGVVLLFGRDV---DHVSPCVQVKGINRDL 348 (1172)
T ss_pred HHHHHhhcCcc---hhcccccccCccceecCCceEEeeH-HhhhHHhh-CCCeEEEecccC---CceeEEEEECCeeeee
Confidence 46666543321 1234444444454433 46677777 99998763 589999999942 3699999999999999
Q ss_pred EEeeCCCCCCchhHHHhhHhhhhccCchHHHHHHHHHHHhhhHHHHHH-HhhcCCeeeEEEEEEEeecccCCC--CCCCC
Q 000430 381 YAIPNGPLFQTDEIMKLEKDAEESRISPMAFRKKLQDVALGLKTEIAN-QLLNLNVSNYIVSPVKRRYAFGQA--EIPAG 457 (1517)
Q Consensus 381 y~lPr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ei~~-~~~~~~i~~~~~k~v~r~yafe~~--~vp~~ 457 (1517)
|++|++.++..+.. .+....+++.+ ++.|+.. ++.+.++..|+++++.++|+|+.+ ++|..
T Consensus 349 ~~l~~~Grv~~D~~-----~~~~~~~~l~~-----------y~le~vs~~~lg~~k~dv~~k~I~~~~~~~~~~~~v~y~ 412 (1172)
T TIGR00592 349 FFLPREGKIDFDLG-----KVTRRTINLPD-----------YYLEFVSELALGYKKEKFRAKPIAKKYEFEAPDIDAPYS 412 (1172)
T ss_pred EEeecccccccccc-----chhcccccHHH-----------HHHHHHHHHHhhcCcCceeeEEehhhccCCCCccCCcCC
Confidence 99999987653321 11112233333 3333322 455788999999999999999988 88875
Q ss_pred ceeEEEEEec-----CCCCCCCcCCCCCccccccCCCchHHHHHhhhcCCCCceeEEEeccccCCCCCCcccceEEEEEe
Q 000430 458 ENYVLKINYP-----FKDPPLPADLKGENFCSLLGTHSSALELFLVKRKVKGPSWLSISKFSSCPAPQRVSWCKYEITVD 532 (1517)
Q Consensus 458 ~~~~lkv~y~-----~~~p~lp~~l~G~tf~~vfgtn~s~~ErFli~rkI~Gp~Wl~i~~~~~~~~~~~~S~Ck~Ev~v~ 532 (1517)
.. +++|.|+ +.+|.+|.+++|.+|+||||+|++.+|||+++|+|+|||||.+..+... ...+.|||++|+.+.
T Consensus 413 ~~-~lkv~y~l~~~~~~l~~l~~~~~g~~~~~vf~~n~g~~erfll~rki~gp~WL~i~~p~~~-~~~~~S~c~yEga~v 490 (1172)
T TIGR00592 413 SE-YLEVTYELGKEFAPMEALPSDLKGQTFWHVFGSNTGNLERFLLLRKIKGPCWLAVKGPDEL-EYPRRSWCKYEGGYV 490 (1172)
T ss_pred cc-eEEEEEccCccchhhhhhhhhccCCcchheeccCHHHHHHHHhcCCCCCCceEEeCCCccc-CcCCccccceEEEEe
Confidence 44 5999999 6788999999999999999999999999999999999999999877653 233479999999999
Q ss_pred CCCCcccccCCCCCCCCCCceEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCc
Q 000430 533 SPKDIRVSSSSKHVAEVPPVTVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGG 612 (1517)
Q Consensus 533 ~~~~I~~~~~~~~~~~~PpL~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~ 612 (1517)
.+.+|.+ +.+..+||++||||+||+. ++..+.++|++||++++.+..++++.+.+.+ ..+|+...++.++
T Consensus 491 ~~p~v~~----g~~~~~pPl~vLdFsi~Sl-yPsi~~~~nl~iS~~v~~~~~~d~~~~~~~~-----~~~~~~~~~~~~~ 560 (1172)
T TIGR00592 491 KPPNVEK----GLDKTPPPLVVLDFSMKSL-NPSIIRNEIVSIPDTLHREFALDKPPPEPPY-----DVHPCVGTRPKDC 560 (1172)
T ss_pred cCccccc----cccCCCCCeEEEEeeeEEe-cCccccCceEEEEEEEeecccccCCCCCCcc-----ceEEEEEEccCCC
Confidence 8876654 3344689999999999954 5556778999999999998888765443322 2567777777888
Q ss_pred ccCCccchhhhcccCCCCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCcccccccc
Q 000430 613 IFPMGFNKEATDRNSKAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRL 692 (1517)
Q Consensus 613 ~fp~~f~~~~~~~~~~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRl 692 (1517)
.||++|....... .+..+ ..+.+|++||.+|++.++++|||+++|||+.+|||+||++||..++++. |+++||+
T Consensus 561 ~~p~~~~~~~~~~---~~~~L-~~~~sEr~lL~~fl~~~~~~DPDii~g~n~~qfdlkvl~nR~~~l~i~~--~~~~Gr~ 634 (1172)
T TIGR00592 561 SFPLDLKGEFPGK---KPSLV-EDLATERALIKKFMAKVKKIDPDEIVGHDYQQRALKVLANRINDLKIPT--WSKIGRL 634 (1172)
T ss_pred CCCchhhhhhhcc---CCcEE-EEecCHHHHHHHHHHHHHhcCCCEEEEEcccCccHHHHHHHHHHcCCCc--ccccCcc
Confidence 9999998654322 23344 4457999999999999999999999999999999999999999999997 9999999
Q ss_pred ccCCCcccccCcccccCCCCCCceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhH
Q 000430 693 KRSEMPKLRKGRTIFGSGASPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESL 772 (1517)
Q Consensus 693 kr~~~p~~~~~~~~fg~~~~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l 772 (1517)
+++ +++++ .|+ ..++||++||++..+++.++++||+|++||+++||.+|.++++.+|.++|.++..+
T Consensus 635 ~~~--~~~~~---~~~--------~~~~Grl~~D~~~~~k~~~~~~sy~L~~v~~~~L~~~k~~~~~~~i~~~~~~~~~~ 701 (1172)
T TIGR00592 635 RRS--PKFGR---RFG--------ERTCGRMICDVEISAKELIRCKSYDLSELVQQILKTERKVIPIDNINNMYSESSSL 701 (1172)
T ss_pred ccC--CCccc---ccc--------ceECCEEEEEHHHHHHHHhCcCCCCHHHHHHHHhCCCCcccCHHHHHHHHhCcHHH
Confidence 876 33311 132 24889999999999999999999999999999999999999999999999988889
Q ss_pred HHHHHHHHHhHHHHHHHHhhcccchhHHHHhhhcCCchhhhhcccccchhHHhHHHHHHhcCeeccCccchhhHhhhhhc
Q 000430 773 MELIEYGETDAWLSMELMFHLSVLPLTRQLTNISGNLWGKTLQGARAQRVEYLLLHAFRAKKYIVPDKFTYVKETKMAKQ 852 (1517)
Q Consensus 773 ~~l~~y~~~DA~L~~~L~~kl~ilpL~~qLt~I~Gn~~~rtL~g~r~~r~E~LLLhef~~~~yI~Pdk~~~~~~~~~~~~ 852 (1517)
..++.||++||.|+++|+.++++|||+.|||+|+|++|+|+|.|||++|||+||||+||++|||+|++....+..
T Consensus 702 ~~~~~y~~~Da~l~~~L~~~l~~l~l~~~lt~i~G~~~~~~l~~~~~~r~e~lll~~~~~~~~i~P~~~~~~~~~----- 776 (1172)
T TIGR00592 702 TYLLEHTWKDAMFILQIMCELNVLPLALQITNIAGNIMSRTLMGGRSERNEFLLLHAFYENNYIVPDKQIFRKQQ----- 776 (1172)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHhCCcHHhccCCchHHHHHHHHHHHHHhCCEEccCcccccccc-----
Confidence 999999999999999999999999999999999999999999999999999999999999999999986432110
Q ss_pred ccCCCcccccccccccccCCCCCCCCccccccCCCCCCCCCceeeecccccccceEEEeeccCcchhHHHHhCccccccc
Q 000430 853 RSNHGVEDRNVEELTNEDANFDNDTSHNDHRKGKRGPAYAGGLVLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVE 932 (1517)
Q Consensus 853 r~~~~~e~~~~~~~~~~d~~~~~~~~~~~~~~~~~k~~Y~GGlVleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~ 932 (1517)
.. +.++. ..+ .....++++|+||+|++|++|||++||++||||||||||||+|||||||++
T Consensus 777 ~~--~~~~~----------~~~-------~~~~~~~~~y~Gg~V~eP~~G~y~~~V~~lDF~SLYPSIi~~~Nic~~t~~ 837 (1172)
T TIGR00592 777 KL--GDEDE----------EID-------GYKKGKKAAYAGGLVLEPKVGLYDKYVLLMDFNSLYPSIIQEFNICFTTVQ 837 (1172)
T ss_pred cc--ccccc----------ccc-------ccccccccCcCCCeEecCCCCcccCCEEEEEcCCccHHHHHHhCcCccccC
Confidence 00 00100 000 001124578999999999999999999999999999999999999999998
Q ss_pred cCCC-CCcccCC-CCCccCCcHHHHHHHHHHHHHHHHHHhhcch-hHHHhhHHHHHHHhhhhhcccccccccccccCCHH
Q 000430 933 RSPD-GLVPHLP-SSKTTGVLPELLKNLVQRRRMVKTWMKTASG-LKIQQLDIQQQALKLTANSMYGCLGFSNSRFYAKP 1009 (1517)
Q Consensus 933 ~~~d-~~v~~~p-~~~~~GilP~iL~~Ll~~R~~vK~~mK~~~~-~~~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~ 1009 (1517)
...+ +.+|.+| ...+.||||++|+.|+++|+++|++||+..+ .++++||+||+|||++|||||||||+++|||||.+
T Consensus 838 ~~~~~~~~~~~~~~~~~~Gilp~il~~L~~~R~~~K~~mk~~~~~~~~~~~d~~Q~AlKi~aNS~YG~lG~~~~r~~~~~ 917 (1172)
T TIGR00592 838 QKVDEDELPELPDSELEMGILPRELRKLVERRKEVKKLMKQDLNPDLRLQYDIRQKALKLTANSMYGCLGYSKSRFYAKP 917 (1172)
T ss_pred CCCcchhcccCCcccccCcchHHHHHHHHHHHHHHHHHhhcCCCHHHHHHHHHHHHHHHHhhhccccccccccccccChH
Confidence 6543 2466666 4578999999999999999999999998555 78999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhccCceEEEeeccceeeecCcccHHHHHHHHHHHHHHHhcccceeEEeeeeeeeeeeee
Q 000430 1010 LAELITQQGREILRSTVDLVQNNLNLEVIYGDTDSIMIHSGIDDIAKAKAIAGKVIQEVNKKYKCLEIDLDGLYKRMLLL 1089 (1517)
Q Consensus 1010 lA~~IT~~GR~iL~~t~~~ve~~~g~~VIYGDTDSimI~~~~~~~~ea~~ig~~i~~~Vn~~~~~leLE~E~vy~~~lLl 1089 (1517)
+|++||++||++|++|++++++ +|++|||||||||||+++..+.++++++|++++++||+.|++|+||+|++|+++||+
T Consensus 918 ~A~~iT~~GR~~l~~~~~~~e~-~g~~VIYGDTDSv~v~~~~~~~~e~~~~~~~~~~~in~~~~~l~le~e~vy~~~ll~ 996 (1172)
T TIGR00592 918 LAALVTAKGREILEHTRQLVEE-MNLEVIYGDTDSIMINTPGTKYEEVFKIGKEFKSEVNKLYKLLELDIDGVFKRLLLL 996 (1172)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH-cCCEEEEecCCeEEEEcCCCCHHHHHHHHHHHHHHHhhcCCceEEeehhhhHhhHhh
Confidence 9999999999999999999986 899999999999999999989999999999999999999999999999999999999
Q ss_pred ccceeeEEEeee-cCCccceeEEEeeeeeeeCchhHhHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHhcCCCCc
Q 000430 1090 KKKKYAAVKVQF-KDGMPYEVIERKGLDMVRRDWSLLSKEVGDFCLSQILSERSCEDVVESIHNSLMKVQEDMRSGQVAL 1168 (1517)
Q Consensus 1090 ~KKrYa~l~~~~-~dG~~~~~~e~KGle~vRRD~c~l~k~~~~~vl~~IL~~~~~e~~~~~i~~~l~~~~~~l~~g~v~l 1168 (1517)
+||||||+.+.. .+|....++++||+|+||||||+|+|++++.+|+.||++++.+++++.+++++.++.++|++|++|+
T Consensus 997 ~KKrYa~l~~~~~~~g~~~~k~~~KGle~vRrD~~~l~k~~~~~vl~~il~~~~~~~~~~~i~~~l~~~~~~l~~g~~~~ 1076 (1172)
T TIGR00592 997 KKKKYAAIKVEGDSDGNYTTKQEVKGLDIVRRDWSPLAKETGKKVLDTILSDKDVEEAVEEVQEVLEKIGKNVLNGEVPL 1076 (1172)
T ss_pred hccceEEEeeccCcCCCcceeEEeecceEEECCcHHHHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHhcCCCCH
Confidence 999999998642 2566556899999999999999999999999999999999999999999999999999999999999
Q ss_pred cceEEeeccCCCCCCCCCCCCchHHHHHHHHHhc-CCCCCCCCCCeeEEEEEeccCCCCCCCcCccccccCchhhhhcCC
Q 000430 1169 EKYVITKTLTKPPEAYPDAKNQPHVQVALRLKQS-GYSTGCSAGDTVPYIICCEQGTSSGSSVGIAQRARHPDELKKGDG 1247 (1517)
Q Consensus 1169 ~~lvItk~LsK~~~~Y~~~k~~pHV~vA~rl~~~-g~~~~~~~Gd~I~YVI~~~~~~~~~~~~~~~~RA~~P~ev~~~~~ 1247 (1517)
++|+|+|+|+|+|++|++++++|||+||+||+++ | ..++.|++|+||||.+. ++...++||++|+++....+
T Consensus 1077 ~~lvi~k~l~k~~~~Y~~~~~~phv~~A~~~~~~~g--~~~~~G~~I~Yvi~~~~-----~~~~~~~ra~~~~~~~~~~~ 1149 (1172)
T TIGR00592 1077 EKFVINKQLTRDPKDYPDGASLPHVHVALRINARGG--RKVKAGDVVSYVICKDG-----GNLSARQRAYALEELQRKHN 1149 (1172)
T ss_pred HHeeehhhccCCHHHcCCCCCChHHHHHHHHHHhcC--CCCCCCCEEEEEEEeCC-----CCcchhhhccChHHhhccCC
Confidence 9999999999999999987899999999999998 5 45999999999999842 23456789999999986555
Q ss_pred CCCCChHHHHhhCchHHHHHhhc
Q 000430 1248 KWMIDIDYYASQQIHPVVSRLCA 1270 (1517)
Q Consensus 1248 ~l~iD~eYYl~~QI~p~v~Rl~~ 1270 (1517)
+|+||++|||+|||+||+.|||+
T Consensus 1150 ~l~iD~~yYi~~qi~p~~~Ri~e 1172 (1172)
T TIGR00592 1150 NLIYDTQYYLEHQIHPVVLRILE 1172 (1172)
T ss_pred CCCcCHHHHHHhhcHHHHHHhhC
Confidence 69999999999999999999996
No 3
>PTZ00166 DNA polymerase delta catalytic subunit; Provisional
Probab=100.00 E-value=1.3e-142 Score=1393.34 Aligned_cols=914 Identities=26% Similarity=0.407 Sum_probs=718.2
Q ss_pred CCCcEeEEEEeeecc---------------c-cCCCCcEEEEEEEeecCCceeEEEEEEecceeeEEEeeCCCCCCchhH
Q 000430 331 DDGSLPFYILDAHEQ---------------L-SGANMGTLYLFGKVKAGSTHHSCCVVVKNMQRCVYAIPNGPLFQTDEI 394 (1517)
Q Consensus 331 ~~~~l~fywlD~~E~---------------~-~~~~~g~l~LFGKv~~~~~~~Sccv~V~n~~R~~y~lPr~~~~~~~~~ 394 (1517)
.+..|.|+.||+.+. . .....++|+|||++.+| +|+||+|+|+.+||| +|.+..+.+.++
T Consensus 38 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~pvIRlFGvTe~G---~SV~v~V~gF~PYFY-V~~p~~~~~~~~ 113 (1054)
T PTZ00166 38 LQKDLVFFQLDADYTEKDDKSQGNPHNTVSGVRHVEVPIIRLYGVTKEG---HSVLVNVHNFFPYFY-IEAPPNFLPEDS 113 (1054)
T ss_pred ccCCceEEEEeeeccccccccccCccccCCCccCCCceEEEEEEecCCC---CEEEEEEeCCceEEE-EecCCCCCHHHH
Confidence 456899999999883 1 11223679999999999 999999999999998 677766655444
Q ss_pred HHhhHhhhhccCchHHHHHHHHHHHhhhHHHHHHHhhcCCeeeEEEEEEEeecccCCCCCCCCceeEEEEEe--cCCCCC
Q 000430 395 MKLEKDAEESRISPMAFRKKLQDVALGLKTEIANQLLNLNVSNYIVSPVKRRYAFGQAEIPAGENYVLKINY--PFKDPP 472 (1517)
Q Consensus 395 ~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ei~~~~~~~~i~~~~~k~v~r~yafe~~~vp~~~~~~lkv~y--~~~~p~ 472 (1517)
..+. ..++..+. +.-..--....|..+.+...+..|+|.. .+...||||.. |...|.
T Consensus 114 ~~~~--------------~~L~~~l~---~~~~~~~~~~~V~~VeiV~k~sl~gY~~----~~~~~flKIt~~~P~~v~k 172 (1054)
T PTZ00166 114 QKLK--------------RELNAQLS---EQSQFKKYQNTVLDIEIVKKESLMYYKG----NGEKDFLKITVQLPKMVPR 172 (1054)
T ss_pred HHHH--------------HHHHHHHh---hcccccccCCceEEEEEEEeeeeceeCC----CCceeEEEEEEcCHHHHHH
Confidence 3222 22221100 0000000001355666666666688884 23456899976 333344
Q ss_pred CCcCCC-CC----------ccccccCCCchHHHHHhhhcCCCCceeEEEec--cccCCCCCCcccceEEEEEeCCCCccc
Q 000430 473 LPADLK-GE----------NFCSLLGTHSSALELFLVKRKVKGPSWLSISK--FSSCPAPQRVSWCKYEITVDSPKDIRV 539 (1517)
Q Consensus 473 lp~~l~-G~----------tf~~vfgtn~s~~ErFli~rkI~Gp~Wl~i~~--~~~~~~~~~~S~Ck~Ev~v~~~~~I~~ 539 (1517)
+...|+ |. ....+||+|++++.|||||++|.|++|++++. +...+..++.|||++|+.|+.. +|.+
T Consensus 173 lR~~Le~g~~~~~~~~~~~~~~~vyEsnI~f~lRFmID~~I~g~~Wi~i~~~~~~~~~~~~~~s~c~~E~~~~~~-~l~~ 251 (1054)
T PTZ00166 173 LRSLIESGVVVCGGGWDGIRLFQTYESNVPFVLRFLIDNNITGGSWLTLPKGKYKIRPPKKKTSTCQIEVDCSYE-DLIP 251 (1054)
T ss_pred HHHHHHcCCcccccccccccccceeecCCCHHHHHHhccCCCceeEEEecCcceeecccccCCCcceEEEEEehh-heee
Confidence 433332 21 23468999999999999999999999999974 3333334579999999999864 4555
Q ss_pred ccCCCCCCCCCCceEEEEEeeec------CCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcc
Q 000430 540 SSSSKHVAEVPPVTVTAINLKTV------FNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGI 613 (1517)
Q Consensus 540 ~~~~~~~~~~PpL~vlS~dIeT~------~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~ 613 (1517)
+..+++|..+|||+||||||||. ||+++ .++|++||++++....-..+ + ....||+
T Consensus 252 ~~~~~~~~~~pplrilSfDIE~~~~~g~~FP~~~-~D~IIqIs~~~~~~g~~~~~-----~----~r~vftl-------- 313 (1054)
T PTZ00166 252 LPPEGEYLTIAPLRILSFDIECIKLKGLGFPEAE-NDPVIQISSVVTNQGDEEEP-----L----TKFIFTL-------- 313 (1054)
T ss_pred cccccccCCCCCcEEEEEEEEECCCCCCCCCCCC-CCcEEEEEEEEeeCCCccCC-----c----ceEEEec--------
Confidence 44455677899999999999995 56554 57888999887654321101 1 0123443
Q ss_pred cCCccchhhhcccCCCCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccc
Q 000430 614 FPMGFNKEATDRNSKAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLK 693 (1517)
Q Consensus 614 fp~~f~~~~~~~~~~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlk 693 (1517)
+.+. ...|+.|+.+ .+|++||.+|+++|+.+|||||+|||+.+||||||++||+.+|++. |+.|||++
T Consensus 314 ---~~c~------~i~g~~V~~f-~sE~eLL~~f~~~I~~~DPDII~GYNi~~FDlpYL~~Ra~~l~i~~--~~~lgR~~ 381 (1054)
T PTZ00166 314 ---KECA------SIAGANVLSF-ETEKELLLAWAEFVIAVDPDFLTGYNIINFDLPYLLNRAKALKLND--FKYLGRIK 381 (1054)
T ss_pred ---Cccc------cCCCceEEEe-CCHHHHHHHHHHHHHhcCCCEEEecCCcCCcHHHHHHHHHHhCCCc--hhhcCccc
Confidence 2222 2356677665 7999999999999999999999999999999999999999999997 99999986
Q ss_pred cCCCc-ccc-cCcccccCCCCCCceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcc-h
Q 000430 694 RSEMP-KLR-KGRTIFGSGASPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTL-E 770 (1517)
Q Consensus 694 r~~~p-~~~-~~~~~fg~~~~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~-~ 770 (1517)
..... +.. .++..||.+. .....+.||+++|+|..+++.+++.||+|++||.++||++|.++++.+|.++|..+ .
T Consensus 382 ~~~~~~~~~~~~~~~~g~~~--~~~~~i~GR~~iDl~~~~~~~~kl~sYsL~~Vs~~~Lg~~K~dv~~~~i~~~~~~~~~ 459 (1054)
T PTZ00166 382 STRSVIKDSKFSSKQMGTRE--SKEINIEGRIQFDVMDLIRRDYKLKSYSLNYVSFEFLKEQKEDVHYSIISDLQNGSPE 459 (1054)
T ss_pred CCCccccccccccccccccc--cceeEeeeEEEEEHHHHHHHhcCcCcCCHHHHHHHHhCCCCCCCCHHHHHHHHhcChh
Confidence 64221 110 1122344322 12457899999999999999999999999999999999999999999999999854 4
Q ss_pred hHHHHHHHHHHhHHHHHHHHhhcccchhHHHHhhhcCCchhhhhcccccchhHHhHHHHHHhcCeeccCccchhhHhhhh
Q 000430 771 SLMELIEYGETDAWLSMELMFHLSVLPLTRQLTNISGNLWGKTLQGARAQRVEYLLLHAFRAKKYIVPDKFTYVKETKMA 850 (1517)
Q Consensus 771 ~l~~l~~y~~~DA~L~~~L~~kl~ilpL~~qLt~I~Gn~~~rtL~g~r~~r~E~LLLhef~~~~yI~Pdk~~~~~~~~~~ 850 (1517)
.+.++++||++||.|+++|+.+|++++.+.+|++++|.+|.+++..|++.|+|++|+|+++++||++|++...
T Consensus 460 ~~~~l~~Y~l~Da~L~~~L~~kl~~~~~~~e~arv~gip~~~v~~rG~q~kv~s~Llr~~~~~~~viP~~~~~------- 532 (1054)
T PTZ00166 460 TRRRIAVYCLKDAILPLRLLDKLLLIYNYVEMARVTGTPIGWLLTRGQQIKVTSQLLRKCKKLNYVIPTVKYS------- 532 (1054)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHhhccCCChHHhhcCCcchhHHHHHHHHHHhcCeeccCchhc-------
Confidence 6889999999999999999999999999999999999999999999999999999999999999999986310
Q ss_pred hcccCCCcccccccccccccCCCCCCCCccccccCCCCCCCCCceeeecccccccceEEEeeccCcchhHHHHhCccccc
Q 000430 851 KQRSNHGVEDRNVEELTNEDANFDNDTSHNDHRKGKRGPAYAGGLVLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTT 930 (1517)
Q Consensus 851 ~~r~~~~~e~~~~~~~~~~d~~~~~~~~~~~~~~~~~k~~Y~GGlVleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tT 930 (1517)
+ ..+..+|+||+|+||++|||++||++|||+|||||||++|||||||
T Consensus 533 ------~---------------------------~~~~~~yeGg~VleP~~G~y~~pV~vLDF~SLYPSIiia~NlcysT 579 (1054)
T PTZ00166 533 ------G---------------------------GGSEEKYEGATVLEPKKGFYDEPIATLDFASLYPSIMIAHNLCYST 579 (1054)
T ss_pred ------c---------------------------ccccCCCCCceeecCCCCCeeCceEEeecCCcccHHHHhcCCCcce
Confidence 0 0123579999999999999999999999999999999999999999
Q ss_pred cccCCC------CCcccCC-------CCCccCCcHHHHHHHHHHHHHHHHHHhhcch-hHHHhhHHHHHHHhhhhhcccc
Q 000430 931 VERSPD------GLVPHLP-------SSKTTGVLPELLKNLVQRRRMVKTWMKTASG-LKIQQLDIQQQALKLTANSMYG 996 (1517)
Q Consensus 931 v~~~~d------~~v~~~p-------~~~~~GilP~iL~~Ll~~R~~vK~~mK~~~~-~~~~~~d~rQ~AlKl~aNS~YG 996 (1517)
+++..+ +.+...| ...++||||++|++|++.|+++|+.||++++ .++.+||.||+|||++|||+||
T Consensus 580 l~~~~~~~~~~~~~~~~~p~g~~Fv~~~~r~Gilp~iL~~Ll~~R~~~K~~mk~~~d~~~~~~ld~rQ~AlKi~aNS~YG 659 (1054)
T PTZ00166 580 LVPPNDANNYPEDTYVTTPTGDKFVKKEVRKGILPLIVEELIAARKKAKKEMKDEKDPLLKKVLNGRQLALKISANSVYG 659 (1054)
T ss_pred eecchhhccCCCcceeecCCCceeeecCCCCcccHHHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHhhhhhcccccc
Confidence 987542 1111223 2458999999999999999999999999877 8899999999999999999999
Q ss_pred cccccc-cccCCHHHHHHHHHHHHHHHHHHHHHHHhc--------cCceEEEeeccceeeecCcccHHHHHHHHHHHHHH
Q 000430 997 CLGFSN-SRFYAKPLAELITQQGREILRSTVDLVQNN--------LNLEVIYGDTDSIMIHSGIDDIAKAKAIAGKVIQE 1067 (1517)
Q Consensus 997 ~lG~~~-srfy~~~lA~~IT~~GR~iL~~t~~~ve~~--------~g~~VIYGDTDSimI~~~~~~~~ea~~ig~~i~~~ 1067 (1517)
|+|+++ +||||.++|++||++||++|++|+++||+. +|++|||||||||||+++..++++++++|.+++++
T Consensus 660 ~~G~~~~gr~~c~~iA~sIT~~GR~~i~~t~~~ie~~~~~~~g~~~g~~VIYGDTDSvfV~~~~~~~~ea~~~g~e~a~~ 739 (1054)
T PTZ00166 660 YTGAQVGGQLPCLEVSTSITSFGRQMIDKTKELVEKHYTKANGYKHDATVIYGDTDSVMVKFGTDDIQEAMDLGKEAAER 739 (1054)
T ss_pred ccccccCCccccHHHHHHHHHHHHHHHHHHHHHHHHhccccccCcCCeEEEecCCCceEEEeCCccHHHHHHHHHHHHHH
Confidence 999999 999999999999999999999999999974 38999999999999999988999999999999999
Q ss_pred Hhccc-ceeEEeeeeeeeeeeeeccceeeEEEeeecCCccceeEEEeeeeeeeCchhHhHHHHHHHHHHHHhccCCHHHH
Q 000430 1068 VNKKY-KCLEIDLDGLYKRMLLLKKKKYAAVKVQFKDGMPYEVIERKGLDMVRRDWSLLSKEVGDFCLSQILSERSCEDV 1146 (1517)
Q Consensus 1068 Vn~~~-~~leLE~E~vy~~~lLl~KKrYa~l~~~~~dG~~~~~~e~KGle~vRRD~c~l~k~~~~~vl~~IL~~~~~e~~ 1146 (1517)
||+.| ++|+||||++|.++||++||||||+.++.. ...+++++||+|+||||||+|+|++++.+|+.||.+++.+.+
T Consensus 740 Is~~~~~pi~LefEkvy~~~ll~~KKrYag~~~~~~--~~~~k~d~KGie~vRRD~c~~~k~~~~~vl~~il~~~d~~~a 817 (1054)
T PTZ00166 740 ISKKFLKPIKLEFEKVYCPYLLMNKKRYAGLLYTNP--EKYDKIDCKGIETVRRDNCLLVQQMVETVLNKILIEKDVESA 817 (1054)
T ss_pred HHHhcCCCcEEEEeeeeeeeeecccceEEEEEEecC--CCCceeeeeeeEEEeccchHHHHHHHHHHHHHHHccCCHHHH
Confidence 99998 489999999999999999999999987532 234679999999999999999999999999999999998887
Q ss_pred HHHHHHHHHHHHHHHhcCCCCccceEEeeccCCCCCCCCCCCCchHHHHHHHHHhcCCCCCCCCCCeeEEEEEeccCCCC
Q 000430 1147 VESIHNSLMKVQEDMRSGQVALEKYVITKTLTKPPEAYPDAKNQPHVQVALRLKQSGYSTGCSAGDTVPYIICCEQGTSS 1226 (1517)
Q Consensus 1147 ~~~i~~~l~~~~~~l~~g~v~l~~lvItk~LsK~~~~Y~~~k~~pHV~vA~rl~~~g~~~~~~~Gd~I~YVI~~~~~~~~ 1226 (1517)
++.+++ .+++|++|++|+++|+|+|+|+| ++|+. .+|||+||+||++++.+..|+.||||+|||+.+.
T Consensus 818 ~~~~~~----~~~~l~~~~v~i~~lvi~k~l~k--~~Y~~--~~phv~~A~rl~~rd~~~~p~~GdrI~YViv~~~---- 885 (1054)
T PTZ00166 818 IEFTKG----KISDLLQNRIDISLLVITKSLGK--DDYEG--RLAHVELAKKLRQRDPGSAPNVGDRVSYVIVKGA---- 885 (1054)
T ss_pred HHHHHH----HHHHHHcCCCCHHHEEEEEEech--hhCCC--CCcHHHHHHHHHHhCcCcCCCCCCEEEEEEEECC----
Confidence 766654 56788899999999999999999 78984 6899999999999965567999999999999752
Q ss_pred CCCcCccccccCchhhhhcCCCCCCChHHHHhhCchHHHHHhhcccCCCCHHHHHHHhCCCCcceecCCCCCCCCCCCCc
Q 000430 1227 GSSVGIAQRARHPDELKKGDGKWMIDIDYYASQQIHPVVSRLCASIEGTSPERLADCLGLDPSKFQSKPSETMSSDPSSS 1306 (1517)
Q Consensus 1227 ~~~~~~~~RA~~P~ev~~~~~~l~iD~eYYl~~QI~p~v~Rl~~pI~g~~~~~la~~lGld~~~~~~~~~~~~~~~~~~~ 1306 (1517)
.+.++++||++|.+++++ +++||++|||+ ||+||+.|||+||.+. +.. |+--+..+...-... . ..+
T Consensus 886 -~~~~~~~ra~~p~~~~~~--~~~iD~~YYi~-ql~~pl~Ri~~~i~~~-~~~---~~~~~~~~~~~~~~~--~---~~~ 952 (1054)
T PTZ00166 886 -KGAPQYERAEDPLYVLEN--NIPIDTQYYLD-QIKNPLLRIFEGVMDN-PDS---LFSGEHTRHITISSS--S---KGG 952 (1054)
T ss_pred -CCcchhhhccCHHHHHhc--CCCCCHHHHHH-HHHHHHHHHHHHhhcC-HHH---HhccCccceeeecCC--C---ccc
Confidence 235789999999999876 49999999999 9999999999999765 333 332122222111000 0 011
Q ss_pred ccccCCchhhccCCCCceeeCCCCCCccccCCcccccccccCCCCCCCcccccccccccCCCCCCccccCCCCHHHHHHH
Q 000430 1307 LLFAVGDEERYRGCEPLILSCPSCSSTFDCPAVCSSICMSVSEKPSKPETEYNFWRTLRCPKCPEEVEAGRISPGMIANQ 1386 (1517)
Q Consensus 1307 ~~~~~~d~erf~~~~~l~~~C~~C~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~i~nq 1386 (1517)
+ .+|- ....+|..|+.... .+..|.+|... .+..+...
T Consensus 953 ~-------~~~~---~~~~~c~~c~~~~~--------------------------~~~~c~~c~~~------~~~~~~~~ 990 (1054)
T PTZ00166 953 L-------SKFV---KKQLQCLGCKSVIK--------------------------EGALCDNCNQN------KEPSIYGK 990 (1054)
T ss_pred H-------HHHH---hcCcccCCCCCCCC--------------------------CCCcCccccCC------CHHHHHHH
Confidence 1 2221 23578999997541 13579999431 23455556
Q ss_pred HHHHHHHHHHhhhceeeeeCCccCCCc
Q 000430 1387 VKRQADGFVSMYYKGLMMCDDETCKYT 1413 (1517)
Q Consensus 1387 l~~~ir~~i~~yy~~~~~Cdd~~C~~~ 1413 (1517)
+...++..=.+|-.-|-+|. .|...
T Consensus 991 ~~~~~~~~e~~~~~~~~~c~--~c~g~ 1015 (1054)
T PTZ00166 991 KLAKRRHKEAEYSQLWTQCQ--RCQGS 1015 (1054)
T ss_pred HHHHHHHHHHHHHHHHHHhh--hccCC
Confidence 66677777778889999997 57543
No 4
>KOG0969 consensus DNA polymerase delta, catalytic subunit [Replication, recombination and repair]
Probab=100.00 E-value=2.5e-144 Score=1276.85 Aligned_cols=905 Identities=25% Similarity=0.402 Sum_probs=734.1
Q ss_pred CcEeEEEEeeeccc-----cCCCCcEEEEEEEeecCCceeEEEEEEecceeeEEEeeCCCCCCchhHHHhhHhhhhccCc
Q 000430 333 GSLPFYILDAHEQL-----SGANMGTLYLFGKVKAGSTHHSCCVVVKNMQRCVYAIPNGPLFQTDEIMKLEKDAEESRIS 407 (1517)
Q Consensus 333 ~~l~fywlD~~E~~-----~~~~~g~l~LFGKv~~~~~~~Sccv~V~n~~R~~y~lPr~~~~~~~~~~~~~~~~~~~~~~ 407 (1517)
..+.|..+|+.... ..+..++|+|||.+..| .|+||+|+|+.+||| +|.|..|.++++.++.+.+..
T Consensus 73 ~~i~fqq~~~e~y~~~~~~~~~~~pvvr~fGvT~~G---~sv~~~v~gf~pyfY-v~ap~g~~~e~i~~~~~~l~~---- 144 (1066)
T KOG0969|consen 73 NDIEFQQIDIEFYVENGSGTSGSVPVVRLFGVTKEG---NSVCCHVHGFFPYFY-VEAPNGFGPEHIGKFQQALDV---- 144 (1066)
T ss_pred ccceEEEeehhhhccCCCcccCCCceEEEeeeccCC---CeEEEEEecccceEE-ecCCCCCCHHHHHHHHHHHHH----
Confidence 57899999987731 11235679999999999 999999999999998 788888988888665544422
Q ss_pred hHHHHHHHHHHHhhhHHHHHHHhhcCCeeeEEEEEEEeecccCCCCCCCCceeEEEEEecCCCCCCCc----CCC-C---
Q 000430 408 PMAFRKKLQDVALGLKTEIANQLLNLNVSNYIVSPVKRRYAFGQAEIPAGENYVLKINYPFKDPPLPA----DLK-G--- 479 (1517)
Q Consensus 408 ~~~~~~~~~~~~~~v~~ei~~~~~~~~i~~~~~k~v~r~yafe~~~vp~~~~~~lkv~y~~~~p~lp~----~l~-G--- 479 (1517)
.+.+ ..+....+......|.|+. .+...|+||.. +.|.+-+ .|+ |
T Consensus 145 ----------~~~~-----------~av~~ve~~~k~~l~~~~g----~~k~~f~kit~--~lP~~~~~~r~~lergv~~ 197 (1066)
T KOG0969|consen 145 ----------KVTA-----------HAVDHVEVVSKESLYGYQG----DTKQPFLKITV--TLPRMVAAARRLLERGVFI 197 (1066)
T ss_pred ----------HHHH-----------hHHHHHHHHhhhhhheecC----CCCceeEEEec--ccHHHHHHhHHHHHhcccc
Confidence 1111 0011111222234566663 44567888876 4554322 121 2
Q ss_pred -----CccccccCCCchHHHHHhhhcCCCCceeEEEeccccCCCCCCcccceEEEEEeCCCCcccccCCCCCCCCCCceE
Q 000430 480 -----ENFCSLLGTHSSALELFLVKRKVKGPSWLSISKFSSCPAPQRVSWCKYEITVDSPKDIRVSSSSKHVAEVPPVTV 554 (1517)
Q Consensus 480 -----~tf~~vfgtn~s~~ErFli~rkI~Gp~Wl~i~~~~~~~~~~~~S~Ck~Ev~v~~~~~I~~~~~~~~~~~~PpL~v 554 (1517)
..+-..|++|+.+.-|||+++.|.|+.|++++.........+.|.||+|+.|.+.+.|++ +.+++|..+|||++
T Consensus 198 ~~~~~~~~~~~yEsNi~f~lrfmvd~~iVG~~wi~lp~gk~~~~~~~~s~cqlEv~v~y~~lish-p~eG~w~~~APlrv 276 (1066)
T KOG0969|consen 198 SGKGEKVGFTTYESNIDFVLRFMVDCDIVGMNWIELPAGKYRIRDNRVSRCQLEVSVNYKDLISH-PAEGEWSKIAPLRV 276 (1066)
T ss_pred cccCcceeeeEecCCccEEEEEEecCccccceeEEeccchheeccchhcccceEEEEeecccccc-cccCcccccccccc
Confidence 123346889999999999999999999999985433223368999999999998777776 67889999999999
Q ss_pred EEEEeeec-----CCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCC
Q 000430 555 TAINLKTV-----FNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKA 629 (1517)
Q Consensus 555 lS~dIeT~-----~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~ 629 (1517)
|||||||. ||+++.++.|++++++...+.. .|. ..+.||+ + .+.++.
T Consensus 277 lSfDIECagrkg~FPe~~~DPvIQIan~v~~~Ge~--~pf---------~rnvf~l-----------~------~capI~ 328 (1066)
T KOG0969|consen 277 LSFDIECAGRKGVFPEAKIDPVIQIANLVTLQGEN--EPF---------VRNVFTL-----------K------TCAPIV 328 (1066)
T ss_pred cceeEEeccCCCCCCccccChHHHHHHHHHHhcCC--chH---------HHhhhcc-----------c------CcCCCC
Confidence 99999997 8999988888887776654432 121 1234443 2 234568
Q ss_pred CCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCC-Ccc-cccCcccc
Q 000430 630 GSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSE-MPK-LRKGRTIF 707 (1517)
Q Consensus 630 g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~-~p~-~~~~~~~f 707 (1517)
|++|++++ +|++||..|-.+|++.|||||+||||.+||+|||++||+.|||.. |+-|||++... +-+ ...++..+
T Consensus 329 G~~V~~~~-~e~elL~~W~~firevDPDvI~GYNi~nFDiPYll~RA~~L~Ie~--Fp~LGRikn~~s~irDttfSSkq~ 405 (1066)
T KOG0969|consen 329 GSNVHSYE-TEKELLESWRKFIREVDPDVIIGYNICNFDIPYLLNRAKTLGIEN--FPYLGRIKNSRSVIRDSTFSSKQY 405 (1066)
T ss_pred CceeEEec-cHHHHHHHHHHHHHhcCCCeEecccccccccceecChHhhcCccc--ccccceecccceeeeccccchhhc
Confidence 99999885 799999999999999999999999999999999999999999998 99999998642 222 22234445
Q ss_pred cCCCCCCceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcc-hhHHHHHHHHHHhHHHH
Q 000430 708 GSGASPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTL-ESLMELIEYGETDAWLS 786 (1517)
Q Consensus 708 g~~~~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~-~~l~~l~~y~~~DA~L~ 786 (1517)
|++.+ +.+.|.|||++|+..+..+.+|++||+|++|+.||||++|+|++++-|..+.+.+ ..+++|+.||++||+|+
T Consensus 406 GtRet--K~v~I~GRlqfDllqvi~Rd~KLrSytLNaVs~hFL~EQKEDV~~siItdLQng~~~TRRRlA~YCLkDAYLP 483 (1066)
T KOG0969|consen 406 GTRET--KEVNIDGRLQFDLLQVILRDYKLRSYTLNAVSAHFLGEQKEDVHHSIITDLQNGNEQTRRRLAVYCLKDAYLP 483 (1066)
T ss_pred Ccccc--eEEeecceeeehHHHHHHHhhhhhhcchhhhHHHhhhhhcccccccchhhhhcCcHHHHHHHHHHHhhhhcch
Confidence 54432 3568999999999999999999999999999999999999999999999988854 56899999999999999
Q ss_pred HHHHhhcccchhHHHHhhhcCCchhhhhcccccchhHHhHHHHHHhcCeeccCccchhhHhhhhhcccCCCccccccccc
Q 000430 787 MELMFHLSVLPLTRQLTNISGNLWGKTLQGARAQRVEYLLLHAFRAKKYIVPDKFTYVKETKMAKQRSNHGVEDRNVEEL 866 (1517)
Q Consensus 787 ~~L~~kl~ilpL~~qLt~I~Gn~~~rtL~g~r~~r~E~LLLhef~~~~yI~Pdk~~~~~~~~~~~~r~~~~~e~~~~~~~ 866 (1517)
++|+.+|++|-.+.+|++++|.+++..|..|++..+=++||+.+.++++++|+-.++ +
T Consensus 484 lRLlekLM~ivNy~EMARVTGVP~syLltRGqqIKVlSqLlRkakq~~~~~P~i~~~-------------~--------- 541 (1066)
T KOG0969|consen 484 LRLLEKLMVIVNYTEMARVTGVPISYLLTRGQQIKVLSQLLRKAKQKDFVIPNIKSQ-------------G--------- 541 (1066)
T ss_pred HHHHHHHHHHHhHHhhhhhhCCcHHHHHhCCcchHHHHHHHHHHhhcCeeeeeeccc-------------C---------
Confidence 999999999999999999999999999988888888889999999999999986321 0
Q ss_pred ccccCCCCCCCCccccccCCCCCCCCCceeeecccccccceEEEeeccCcchhHHHHhCccccccccCC------CCCcc
Q 000430 867 TNEDANFDNDTSHNDHRKGKRGPAYAGGLVLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVERSP------DGLVP 940 (1517)
Q Consensus 867 ~~~d~~~~~~~~~~~~~~~~~k~~Y~GGlVleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~------d~~v~ 940 (1517)
.....|+||.|+||.+|||+.||++|||+||||||||+||+||||++... ++.+.
T Consensus 542 -------------------s~~e~yEGatVIEp~kGfY~~PIATLDFaSLYPSIMmahNLCYtTLl~~~t~~~l~~~~~~ 602 (1066)
T KOG0969|consen 542 -------------------SDDEQYEGATVIEPRKGFYDKPIATLDFASLYPSIMMAHNLCYTTLLTKETVEKLGDEDYT 602 (1066)
T ss_pred -------------------CccccccccEEeecccccCCCCceeeehhhhhhHHHHHhhhhheeccccchhhhcCcccee
Confidence 11257999999999999999999999999999999999999999998742 23344
Q ss_pred cCC-------CCCccCCcHHHHHHHHHHHHHHHHHHhhcch-hHHHhhHHHHHHHhhhhhcccccccccccccCCHHHHH
Q 000430 941 HLP-------SSKTTGVLPELLKNLVQRRRMVKTWMKTASG-LKIQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAE 1012 (1517)
Q Consensus 941 ~~p-------~~~~~GilP~iL~~Ll~~R~~vK~~mK~~~~-~~~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~ 1012 (1517)
.+| ...++|+||++|++|+..|+.+|+.||+++| .+++.||.||+|||+.|||+||++|++.++++|.+|..
T Consensus 603 ~TP~g~yFv~~~~rkGlLP~ILe~ll~aRKraK~dlk~ekDp~kr~vldGRQLAlKisANSvYGFTGAtvGkLPCleIS~ 682 (1066)
T KOG0969|consen 603 RTPTGDYFVKTEVRKGLLPEILEDLLTARKRAKADLKKEKDPFKRAVLDGRQLALKISANSVYGFTGATVGKLPCLEISQ 682 (1066)
T ss_pred ECCCCCeeeehhhhccccHHHHHHHHHHHHHHHHHHHhccCHHHHhhhcchhhheeecccccccccccccCccceeeech
Confidence 455 4679999999999999999999999999998 99999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhcc--------CceEEEeeccceeeecCcccHHHHHHHHHHHHHHHhccc-ceeEEeeeeee
Q 000430 1013 LITQQGREILRSTVDLVQNNL--------NLEVIYGDTDSIMIHSGIDDIAKAKAIAGKVIQEVNKKY-KCLEIDLDGLY 1083 (1517)
Q Consensus 1013 ~IT~~GR~iL~~t~~~ve~~~--------g~~VIYGDTDSimI~~~~~~~~ea~~ig~~i~~~Vn~~~-~~leLE~E~vy 1083 (1517)
+||++||+||..|+.+||+.+ ++.|||||||||||+++..++++|+++|.+++++|+..| +||+||||+||
T Consensus 683 SVT~yGR~MI~~TK~~Ve~~y~~~ngy~~da~ViYGDTDSVMv~Fgv~~v~~am~lg~eaa~~vs~~F~~PIkLEFEKvY 762 (1066)
T KOG0969|consen 683 SVTAYGRQMIEKTKKLVEEKYTIKNGYSHDAVVIYGDTDSVMVKFGVSDVEEAMKLGREAAEYVSSKFVKPIKLEFEKVY 762 (1066)
T ss_pred hhHHHHHHHHHHHHHHHHHHhhhccCCccccEEEecCCceEEEecCchhHHHHHHHhHHHHHHHHhcCCCCceeEeeeee
Confidence 999999999999999999743 578999999999999999999999999999999999999 58999999999
Q ss_pred eeeeeeccceeeEEEeeecCCccceeEEEeeeeeeeCchhHhHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHhc
Q 000430 1084 KRMLLLKKKKYAAVKVQFKDGMPYEVIERKGLDMVRRDWSLLSKEVGDFCLSQILSERSCEDVVESIHNSLMKVQEDMRS 1163 (1517)
Q Consensus 1084 ~~~lLl~KKrYa~l~~~~~dG~~~~~~e~KGle~vRRD~c~l~k~~~~~vl~~IL~~~~~e~~~~~i~~~l~~~~~~l~~ 1163 (1517)
.++||+.||||||+.|+ +....++++.||+|.||||+|+|++++.+.+|+.||..+|++.+...+++. +.++.-
T Consensus 763 ~PYLLInKKRYAGL~~t--~pd~~DkmD~kGietVRRDnc~LV~~v~~~~L~kiLi~rdv~gA~~fvk~~----IsDlL~ 836 (1066)
T KOG0969|consen 763 FPYLLINKKRYAGLLWT--NPDVFDKMDCKGIETVRRDNCPLVANVVNTVLRKILIERDVEGALAFVKDT----ISDLLC 836 (1066)
T ss_pred cceEEeccceeeeeEec--cCCcCccccccccchhccCCchHHHHHHHHHHHHHHhhcChHHHHHHHHHH----HHHHHh
Confidence 99999999999999986 344457899999999999999999999999999999999999999988764 567778
Q ss_pred CCCCccceEEeeccCCCCCCCCCCCCchHHHHHHHHHhcCCCCCCCCCCeeEEEEEeccCCCCCCCcCccccccCchhhh
Q 000430 1164 GQVALEKYVITKTLTKPPEAYPDAKNQPHVQVALRLKQSGYSTGCSAGDTVPYIICCEQGTSSGSSVGIAQRARHPDELK 1243 (1517)
Q Consensus 1164 g~v~l~~lvItk~LsK~~~~Y~~~k~~pHV~vA~rl~~~g~~~~~~~Gd~I~YVI~~~~~~~~~~~~~~~~RA~~P~ev~ 1243 (1517)
+.++++.|+|+|.|+|.-++|.. .++||++|.||++|+...+|..||||||||+... .+.++++|+++|.+|+
T Consensus 837 nriDiS~LVItK~Ltkagd~Y~~--kqaHveLAermrkRD~gtaP~lGDRVpYVIi~~a-----kg~~ay~rsEDP~fVL 909 (1066)
T KOG0969|consen 837 NRIDISLLVITKELTKAGDDYAA--KQAHVELAERMRKRDAGTAPNLGDRVPYVIIAAA-----KGAPAYERSEDPLYVL 909 (1066)
T ss_pred cccceeeeeeeehhcccccchhh--hhhhHHHHHHhhhcCCCCCCccCCcCcEEEEecc-----cCCchhcCCCCCeEEe
Confidence 99999999999999999999995 7999999999999988889999999999999753 3467899999999999
Q ss_pred hcCCCCCCChHHHHhhCchHHHHHhhcccCCCCHHHHHHHhCCCCcceecCCCCCCCCCCCCcccccCCchhhccCCCCc
Q 000430 1244 KGDGKWMIDIDYYASQQIHPVVSRLCASIEGTSPERLADCLGLDPSKFQSKPSETMSSDPSSSLLFAVGDEERYRGCEPL 1323 (1517)
Q Consensus 1244 ~~~~~l~iD~eYYl~~QI~p~v~Rl~~pI~g~~~~~la~~lGld~~~~~~~~~~~~~~~~~~~~~~~~~d~erf~~~~~l 1323 (1517)
+++ ++||..|||++||..|+.||+|||.|.-.. -++-..+-+.....+ ....++...+. -
T Consensus 910 enN--ipiD~~yYL~nQlsKPllrIfePILg~~~~-----~l~~g~htR~~~v~~---~~~gGl~~F~k----------k 969 (1066)
T KOG0969|consen 910 ENN--IPIDTRYYLENQLSKPLLRIFEPILGDAEK-----ELLRGDHTRTITVTT---SKVGGLMAFAK----------K 969 (1066)
T ss_pred cCC--CCcchHHHHhhhhhhhHHHHhhhhhCchhh-----ccccccceeEEEeec---ccccchhhhhh----------h
Confidence 874 999999999999999999999999986411 222222222221111 01112222221 2
Q ss_pred eeeCCCCCCccccCCcccccccccCCCCCCCcccccccccccCCCCCCccccCCCCHHHHHHHHHHHHHHHHHhhhceee
Q 000430 1324 ILSCPSCSSTFDCPAVCSSICMSVSEKPSKPETEYNFWRTLRCPKCPEEVEAGRISPGMIANQVKRQADGFVSMYYKGLM 1403 (1517)
Q Consensus 1324 ~~~C~~C~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~i~nql~~~ir~~i~~yy~~~~ 1403 (1517)
..+|.+|+...... ..-.|.+|.. ..+ .+..+-...++..=.+|-.-|-
T Consensus 970 ~~tC~gCk~~~~~~------------------------~~~~C~~C~~-----r~~--~lyqk~v~~~~~lee~fsrlWt 1018 (1066)
T KOG0969|consen 970 VETCLGCKAPLRKG------------------------EQALCENCLP-----RSS--ELYQKQVSHVNDLEEKFSRLWT 1018 (1066)
T ss_pred cccccccccccccc------------------------cchhhhhhcc-----cHH--HHHHHHHHHHHHHHHHHHHHHH
Confidence 35799999765321 1237999976 222 3333444556666677777898
Q ss_pred eeCCccCCCc
Q 000430 1404 MCDDETCKYT 1413 (1517)
Q Consensus 1404 ~Cdd~~C~~~ 1413 (1517)
.|. -|.-.
T Consensus 1019 ~Cq--rcqgs 1026 (1066)
T KOG0969|consen 1019 ECQ--RCQGS 1026 (1066)
T ss_pred HHH--HHHhh
Confidence 897 45443
No 5
>PRK05762 DNA polymerase II; Reviewed
Probab=100.00 E-value=1.2e-112 Score=1095.00 Aligned_cols=739 Identities=26% Similarity=0.385 Sum_probs=577.9
Q ss_pred cEeEEEEeeeccccCCCCcEEEEEEEeecCCceeEEEEEEecceeeEEEeeCCCCCCchhHHHhhHhhhhccCchHHHHH
Q 000430 334 SLPFYILDAHEQLSGANMGTLYLFGKVKAGSTHHSCCVVVKNMQRCVYAIPNGPLFQTDEIMKLEKDAEESRISPMAFRK 413 (1517)
Q Consensus 334 ~l~fywlD~~E~~~~~~~g~l~LFGKv~~~~~~~Sccv~V~n~~R~~y~lPr~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 413 (1517)
.+.||.||.+.... ....+|+|||++.+| .|+||.+.|+.++||..|.... ..
T Consensus 3 ~~~~~lL~~~~~~~-~~~~vi~l~g~t~~G---~~~~v~~~~~~~yFy~~~~~~~----------------------~~- 55 (786)
T PRK05762 3 LQQGFILTRHYRDT-PGGPEVELWLATDEG---PRVVLLDPQFRPYFIPAEQDER----------------------AE- 55 (786)
T ss_pred ceEEEEEeeEEEEE-CCeEEEEEEEEcCCC---CEEEEECCCCcEEEEEeCchhh----------------------hH-
Confidence 47899999988743 235679999999988 8999999999999986543210 00
Q ss_pred HHHHHHhhhHHHHHHHhhcCCeeeEEEEEEEeecccCCCCCCCCceeEEEEE--ecCCCCCCCcCCCCCccccccCCCch
Q 000430 414 KLQDVALGLKTEIANQLLNLNVSNYIVSPVKRRYAFGQAEIPAGENYVLKIN--YPFKDPPLPADLKGENFCSLLGTHSS 491 (1517)
Q Consensus 414 ~~~~~~~~v~~ei~~~~~~~~i~~~~~k~v~r~yafe~~~vp~~~~~~lkv~--y~~~~p~lp~~l~G~tf~~vfgtn~s 491 (1517)
..+... ..+.++++. ...|... .+..+. .+.....+|..+.. .-..+|++++.
T Consensus 56 ----------~~~~~~------~~~~~~~~~-l~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~-~~~~i~EaDI~ 110 (786)
T PRK05762 56 ----------SLLAGE------IGVRLSPLA-LKDFHRR-------PVLGLYCRQHRQLTRLPKRLRE-GGVDVYEADIR 110 (786)
T ss_pred ----------HHHhhc------ccceeeccc-eecccCC-------eeeEEEeccHHHHHHHHHHHHH-cCCeEEECCCC
Confidence 001110 013344432 1222211 112221 12223345555542 23468999999
Q ss_pred HHHHHhhhcCCCCceeEEEeccccCCCCCCcccceEEEEEeCCCCcccccCCCCCCCCCCceEEEEEeeecCCCCCCccc
Q 000430 492 ALELFLVKRKVKGPSWLSISKFSSCPAPQRVSWCKYEITVDSPKDIRVSSSSKHVAEVPPVTVTAINLKTVFNKRQDVNE 571 (1517)
Q Consensus 492 ~~ErFli~rkI~Gp~Wl~i~~~~~~~~~~~~S~Ck~Ev~v~~~~~I~~~~~~~~~~~~PpL~vlS~dIeT~~n~~~~~~E 571 (1517)
+..|||||++|.+++|+++.... .++..++.+. .+.+ .+. ..|+|++|||||||... .+
T Consensus 111 ~~~R~lid~~i~~~~w~~~~~~~--------~~~~~~~~~~---~i~~----~~~-~~p~lrvlsfDIE~~~~-----~~ 169 (786)
T PRK05762 111 FPERYLMERFITPCVWFSGEVEQ--------YTTDGVLRNA---RLKP----APD-YRPPLKVVSLDIETSNK-----GE 169 (786)
T ss_pred hhHhheeeCCCCCcEEEEEEeec--------cccceeEEec---ceee----CCC-CCCCCeEEEEEEEEcCC-----Cc
Confidence 99999999999999999887321 1455555432 3433 111 13999999999999753 47
Q ss_pred EEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCCCCceEeecccHHHHHHHHHHHH
Q 000430 572 IVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKAGSNVLCCESSERALLNRLMIEL 651 (1517)
Q Consensus 572 I~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~g~~v~~~~~nEreLL~~Fl~~I 651 (1517)
|++|++. +.. .+ ..+.+ ..+... + + .++..++||++||.+|+++|
T Consensus 170 i~sI~~~---~~~--~~------------~vi~i-g~~~~~--~--------------~-~~v~~~~sE~~LL~~F~~~i 214 (786)
T PRK05762 170 LYSIGLE---GCG--QR------------PVIML-GPPNGE--A--------------L-DFLEYVADEKALLEKFNAWF 214 (786)
T ss_pred eEEeeec---CCC--CC------------eEEEE-ECCCCC--C--------------c-ceEEEcCCHHHHHHHHHHHH
Confidence 8888863 110 00 12222 111100 0 0 11335589999999999999
Q ss_pred HhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCCCCceeeecceEEeecHHHH
Q 000430 652 YKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGASPGIMSCIAGRLLCDTFLCS 731 (1517)
Q Consensus 652 ~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~~~~~~i~GRlv~D~~~~~ 731 (1517)
+++|||||+|||+.+||||||.+||+.||++. ++||.+... .+. ...+. .......+.||+++|+|.++
T Consensus 215 ~~~DPDIIvGyNi~~FDlpyL~~Ra~~lgi~~----~~GR~~~~~--~~~--~~~~~---~~~~~~~i~GRv~lDl~~~~ 283 (786)
T PRK05762 215 AEHDPDVIIGWNVVQFDLRLLQERAERYGIPL----RLGRDGSEL--EWR--EHPFR---SGYGFASVPGRLVLDGIDAL 283 (786)
T ss_pred HhcCCCEEEEeCCCCCcHHHHHHHHHHhCCCc----ccCcCCCcc--ccc--cCCCC---CCcceEEEeeEEEEEHHHHH
Confidence 99999999999999999999999999999985 467755431 110 00010 01123578999999999999
Q ss_pred hhcc-ccCCCCHHHHHHHhcCCCCCccCh----hhHHHHHhcchhHHHHHHHHHHhHHHHHHHHhhcccchhHHHHhhhc
Q 000430 732 RDLL-REVSYSLTQLAKTQLNKDRKEVGP----HDVLKMFQTLESLMELIEYGETDAWLSMELMFHLSVLPLTRQLTNIS 806 (1517)
Q Consensus 732 k~~~-k~~SYsL~~va~~~Lg~~k~di~~----~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L~~kl~ilpL~~qLt~I~ 806 (1517)
++.. ++.||+|++||+++||+.|.+.++ .+|.++|.+ +..+|++||++||.++++|+.+++++|++.++++++
T Consensus 284 k~~~~~l~sysL~~Va~~~Lg~~K~~~d~~~~~~eI~~~~~~--~~~~l~~Y~l~Da~lt~~L~~kl~ll~~~~ela~l~ 361 (786)
T PRK05762 284 KSATWVFDSFSLEYVSQRLLGEGKAIDDPYDRMDEIDRRFAE--DKPALARYNLKDCELVTRIFEKTKLLPFLLERATVT 361 (786)
T ss_pred HHhhccCCCCCHHHHHHHHhCCCeeccCccccHHHHHHHHhh--hHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHh
Confidence 9876 889999999999999998876555 789999985 356899999999999999999999999999999999
Q ss_pred CCchhhhhcccccchhHHhHHHHHHhcCeeccCccchhhHhhhhhcccCCCcccccccccccccCCCCCCCCccccccCC
Q 000430 807 GNLWGKTLQGARAQRVEYLLLHAFRAKKYIVPDKFTYVKETKMAKQRSNHGVEDRNVEELTNEDANFDNDTSHNDHRKGK 886 (1517)
Q Consensus 807 Gn~~~rtL~g~r~~r~E~LLLhef~~~~yI~Pdk~~~~~~~~~~~~r~~~~~e~~~~~~~~~~d~~~~~~~~~~~~~~~~ 886 (1517)
|.+|++++ +++.++|++|||++|++||++|++.. .
T Consensus 362 g~~~~~v~--~~~~~~e~lll~~~~~~g~v~P~~~~-------------------------------------------~ 396 (786)
T PRK05762 362 GLPLDRVG--GSVAAFEHLYLPRAHRAGYVAPNLGE-------------------------------------------R 396 (786)
T ss_pred CcCHHHhC--ccHHhHHHHHHHHHHHCCEeCCCccc-------------------------------------------c
Confidence 99999985 67778999999999999999998621 0
Q ss_pred CCCCCCCceeeecccccccceEEEeeccCcchhHHHHhCccccccccCCC----CCccc-CC--CCCccCCcHHHHHHHH
Q 000430 887 RGPAYAGGLVLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVERSPD----GLVPH-LP--SSKTTGVLPELLKNLV 959 (1517)
Q Consensus 887 ~k~~Y~GGlVleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~d----~~v~~-~p--~~~~~GilP~iL~~Ll 959 (1517)
.+..|+||+|++|++|||++ |++|||+|||||||++|||||+|++...+ +.++. .. ..++.||||++|+.|+
T Consensus 397 ~~~~y~Gg~V~~p~~G~y~~-V~~lDF~SLYPSIi~~~Ni~p~T~~~~~~~~~~~~~~~~~~~~f~k~~gilp~~l~~l~ 475 (786)
T PRK05762 397 PGEASPGGYVMDSKPGLYDS-VLVLDFKSLYPSIIRTFNIDPDGLVEGLAQPPEESVAGFLGARFSREKHFLPEIVERLW 475 (786)
T ss_pred cccccCccEEecCCCCCcCc-eEEEEchhhhHHHHHHhCcCccceecCCCCCCcccccCCCCccccccCcchHHHHHHHH
Confidence 12479999999999999997 99999999999999999999999985421 11111 01 2348999999999999
Q ss_pred HHHHHHHHHHhhcchhHHHhhHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHhccCceEEE
Q 000430 960 QRRRMVKTWMKTASGLKIQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAELITQQGREILRSTVDLVQNNLNLEVIY 1039 (1517)
Q Consensus 960 ~~R~~vK~~mK~~~~~~~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~~~g~~VIY 1039 (1517)
+.|+++|+.|++ .+|+|+|++|||+|||||++++||||+++|++||+.||++|+.|++++++ .|++|||
T Consensus 476 ~~R~~~K~~~~~----------~~q~a~Ki~~Ns~YG~~g~~~~r~~~~~~A~~it~~Gr~~l~~~~~~~~~-~g~~viY 544 (786)
T PRK05762 476 EGRDEAKREMNK----------PLSQAIKIIMNAFYGVLGSSGCRFFDPRLASSITMRGHEIMKQTRELIEA-QGYQVIY 544 (786)
T ss_pred HHHHHHHHHHHH----------HHHHHHHhhhhhcccccccccccccChHHHHHHHHhHHHHHHHHHHHHHH-CCCEEEe
Confidence 999999999975 78999999999999999999999999999999999999999999999996 8999999
Q ss_pred eeccceeeecC-cccHHHHHHHHHHHHHHHhcccc-----------eeEEeeeeeeeeeeee--------ccceeeEEEe
Q 000430 1040 GDTDSIMIHSG-IDDIAKAKAIAGKVIQEVNKKYK-----------CLEIDLDGLYKRMLLL--------KKKKYAAVKV 1099 (1517)
Q Consensus 1040 GDTDSimI~~~-~~~~~ea~~ig~~i~~~Vn~~~~-----------~leLE~E~vy~~~lLl--------~KKrYa~l~~ 1099 (1517)
||||||||+++ ..+.+++.++|.+++++||+.|+ +++||+|++|.++||+ +||||||+.+
T Consensus 545 gDTDSifv~~~~~~~~~~~~~~~~~l~~~in~~~~~~l~~~~~~~~~l~le~E~vy~~~~l~~~rg~~~~~KKrYag~~~ 624 (786)
T PRK05762 545 GDTDSTFVWLGGAHDEEDAAKIGRALVQEINQWWQEHLQQEFGLESALELEFEKHYRRFFMPTIRGAEEGSKKRYAGLIQ 624 (786)
T ss_pred ecCCceEEEcCCCCCHHHHHHHHHHHHHHHHHHHHhhhhhhccCCCceEEEEeeeeehhccccccccchhhhheEEEEEE
Confidence 99999999997 56788999999999999998653 6999999999999995 9999999986
Q ss_pred eecCCccceeEEEeeeeeeeCchhHhHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHhcCCCCccceEEeeccCC
Q 000430 1100 QFKDGMPYEVIERKGLDMVRRDWSLLSKEVGDFCLSQILSERSCEDVVESIHNSLMKVQEDMRSGQVALEKYVITKTLTK 1179 (1517)
Q Consensus 1100 ~~~dG~~~~~~e~KGle~vRRD~c~l~k~~~~~vl~~IL~~~~~e~~~~~i~~~l~~~~~~l~~g~v~l~~lvItk~LsK 1179 (1517)
. .+| .+++++||+|+||||||+|+|++++++++.||.+++. ++++.+++++|++|++| ++|+|+|+|+|
T Consensus 625 ~-~~~--~~~~~~KGle~vRrD~~~~~k~~~~~vl~~il~~~~~-------~~~~~~~~~~l~~~~~~-~~lv~~k~l~k 693 (786)
T PRK05762 625 E-GDG--DGRIVFKGLETVRTDWTPLAKEFQQELYERIFRGEPY-------VDYVREVIDKLRAGELD-EKLVYRKRLRR 693 (786)
T ss_pred c-cCC--CceEEEEeeEEECCChHHHHHHHHHHHHHHHhcCCCH-------HHHHHHHHHHHHcCCCc-hhEEEEehcCC
Confidence 3 333 3568999999999999999999999999999999886 44566778899999999 99999999999
Q ss_pred CCCCCCCCCCchHHHHHHHHHhcCCCC----CCCCCCeeEEEEEeccCCCCCCCcCccccccCchhhhhcCCCCCCChHH
Q 000430 1180 PPEAYPDAKNQPHVQVALRLKQSGYST----GCSAGDTVPYIICCEQGTSSGSSVGIAQRARHPDELKKGDGKWMIDIDY 1255 (1517)
Q Consensus 1180 ~~~~Y~~~k~~pHV~vA~rl~~~g~~~----~~~~Gd~I~YVI~~~~~~~~~~~~~~~~RA~~P~ev~~~~~~l~iD~eY 1255 (1517)
++++|.. +.+|||++|++++++|... .++.|++|+||||.. |+ .++ +. . +++||++|
T Consensus 694 ~~~~Y~~-~~~phv~aa~~~~~~~~~~~~~~~~~~g~~I~Yvi~~~-g~-----~~~--------~~--~--~~~iD~~y 754 (786)
T PRK05762 694 PLDEYQR-NVPPHVRAARLADEMGYKVGRPLQYQNGGKIGYVITVN-GP-----EPL--------EY--R--KSPIDYDY 754 (786)
T ss_pred CHHHcCC-CCCHHHHHHHHHHhcCcccCCcccCCCCCEEEEEEEeC-CC-----CcH--------Hh--c--CCCCCHHH
Confidence 9999994 6799999999999987542 246899999999753 11 122 11 1 37899999
Q ss_pred HHhhCchHHHHHhhcccCCCCHHHHH
Q 000430 1256 YASQQIHPVVSRLCASIEGTSPERLA 1281 (1517)
Q Consensus 1256 Yl~~QI~p~v~Rl~~pI~g~~~~~la 1281 (1517)
||++||+|+++||+.++ |.+.+.|.
T Consensus 755 Yi~kql~p~~~ril~~~-~~~~~~~~ 779 (786)
T PRK05762 755 YIEKQLQPVADRILPFF-GDDFATLK 779 (786)
T ss_pred HHHHhhHHHHHHHHhhh-CCCHHHHh
Confidence 99999999999999988 88877774
No 6
>PRK05761 DNA polymerase I; Reviewed
Probab=100.00 E-value=3.5e-105 Score=1019.03 Aligned_cols=724 Identities=23% Similarity=0.293 Sum_probs=556.6
Q ss_pred EEEeeeccccCCCCcEEEEEEEeecCCceeEEEEEE--ecceeeEEEeeCCCCCCchhHHHhhHhhhhccCchHHHHHHH
Q 000430 338 YILDAHEQLSGANMGTLYLFGKVKAGSTHHSCCVVV--KNMQRCVYAIPNGPLFQTDEIMKLEKDAEESRISPMAFRKKL 415 (1517)
Q Consensus 338 ywlD~~E~~~~~~~g~l~LFGKv~~~~~~~Sccv~V--~n~~R~~y~lPr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 415 (1517)
|.||+.++.. .+.++|+|||+- + .+..+.. .|+.||+|..+.+. ++.+
T Consensus 20 ~lld~~Y~~~-~~~~vi~l~~~~--~---~~~~~~~d~~gfkPYfy~~~~~~-----~~~~------------------- 69 (787)
T PRK05761 20 YLLSVDYDGK-LGKAVVKLYDPE--T---GKIYKWYDRTGHKPYFLTDLDPD-----EIDK------------------- 69 (787)
T ss_pred eEEEEEEecc-CCeeEEEEEecC--C---CeEEEEEcCCCCCCeEEecCChH-----HHHh-------------------
Confidence 8899988743 346789999994 3 3555666 45899999664431 1000
Q ss_pred HHHHhhhHHHHHHHhhcCCeeeEEEEEEEeecccCCCCCCCCceeEEEEEe--cCCCCCCCcCCCCCccccccCCCchHH
Q 000430 416 QDVALGLKTEIANQLLNLNVSNYIVSPVKRRYAFGQAEIPAGENYVLKINY--PFKDPPLPADLKGENFCSLLGTHSSAL 493 (1517)
Q Consensus 416 ~~~~~~v~~ei~~~~~~~~i~~~~~k~v~r~yafe~~~vp~~~~~~lkv~y--~~~~p~lp~~l~G~tf~~vfgtn~s~~ 493 (1517)
...+...-.+..+.+..+.+.|.|.. ..++||.. |...|.+...++.. ..+|++|+.+.
T Consensus 70 ----------~~~~~~~~~~~~~e~~~~~~~~~~~~-------~~~~kI~~~~p~~v~~~r~~~~~~--~~~~EaDI~f~ 130 (787)
T PRK05761 70 ----------IPKILRHPSFDHLEIVEKYDGLRDKK-------VKVTKIVVKDPLAVRRLRLSVRDI--PRAWEADIKYE 130 (787)
T ss_pred ----------hhhhhcCCCeeeEEEEEEEeccCCCc-------ceEEEEEECCHHHHHHHHHHHHhh--hhheeCCCChH
Confidence 00011123466677777777888762 33577766 33344443333221 47999999999
Q ss_pred HHHhhhcCCCCceeEEEeccccCCCCCCcccceEEEEEeCCCCccccc--CCCCCCCCCCceEEEEEeeecCCCCCCccc
Q 000430 494 ELFLVKRKVKGPSWLSISKFSSCPAPQRVSWCKYEITVDSPKDIRVSS--SSKHVAEVPPVTVTAINLKTVFNKRQDVNE 571 (1517)
Q Consensus 494 ErFli~rkI~Gp~Wl~i~~~~~~~~~~~~S~Ck~Ev~v~~~~~I~~~~--~~~~~~~~PpL~vlS~dIeT~~n~~~~~~E 571 (1517)
.|||+|++|.|++|+.+....... ....|++|+......++.... .......+|||++|||||||..+..
T Consensus 131 ~RyliD~~i~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~P~lk~lsfDIE~~~~~~----- 202 (787)
T PRK05761 131 FRYIYDNGLIPGMPYDVKNGLESV---EPEILVEEIKKAFKDERKLAEDWLPIFEAPIPKIKRIAIDIEVYTPAK----- 202 (787)
T ss_pred HheEEeCCCCCCceEEeccccccc---ccccccccccccchhhhhhhhhhhhhccCCCCCcceEEEEEEeccCcC-----
Confidence 999999999999999996533211 112266666543211111100 0001136899999999999963210
Q ss_pred EEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCCCCceEeecccHHHHHHHHHHHH
Q 000430 572 IVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKAGSNVLCCESSERALLNRLMIEL 651 (1517)
Q Consensus 572 I~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~g~~v~~~~~nEreLL~~Fl~~I 651 (1517)
..||. .+|++||.+|+.+|
T Consensus 203 ----------------------------------------g~~P~---------------------~~E~eLL~~f~~~i 221 (787)
T PRK05761 203 ----------------------------------------GRIPD---------------------DSEKELLAELFDII 221 (787)
T ss_pred ----------------------------------------CCCCC---------------------CCHHHHHHHHHHHH
Confidence 00111 47999999999999
Q ss_pred HhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCCCCceeeecceEEeecHHHH
Q 000430 652 YKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGASPGIMSCIAGRLLCDTFLCS 731 (1517)
Q Consensus 652 ~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~~~~~~i~GRlv~D~~~~~ 731 (1517)
+++||||+ ||+.+||||||.+||..+|++. ..+++.. + .|+.++|++...
T Consensus 222 ~~~dPdi~--yN~~~FDlPYL~~Ra~~lgi~~---~~~~~~~--------------~-----------~~~~~iDl~~~~ 271 (787)
T PRK05761 222 LEYPPVVT--FNGDNFDLPYLYNRALKLGIPK---EEIPIEP--------------G-----------RAGIHIDLYKFF 271 (787)
T ss_pred HhcCCEEE--EcCCcchHHHHHHHHHHhCCCc---hhccccc--------------C-----------CCceEEechhhe
Confidence 99999986 9999999999999999999985 2223210 0 023345554332
Q ss_pred hh----------ccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHHH--hhcccchhH
Q 000430 732 RD----------LLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMELM--FHLSVLPLT 799 (1517)
Q Consensus 732 k~----------~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L~--~kl~ilpL~ 799 (1517)
+. .++.++|+|+.||+++||++|.+++ .+|.+ .++.+|++||++||.|+++|+ .+..+|++.
T Consensus 272 ~~~~~~~y~~~~~~~~~~ysL~~Va~~~Lg~~K~~~~-~~i~~-----~~~~~l~~Y~l~Da~l~~~L~~f~~~~~l~~~ 345 (787)
T PRK05761 272 QNKAVRSYAFYGKYRHREARLDAVGRALLGISKVELE-TNISE-----LDLEELAEYNFRDAEITLKLTFFNNELVLKLI 345 (787)
T ss_pred eecceeeeeccceeecccCChHHHHHHHhCCCccccc-ccccc-----cCHHHHHHHHHHHHHHHHHHHHhhhhhHHHHH
Confidence 21 1345699999999999999999998 45543 256799999999999999995 477899999
Q ss_pred HHHhhhcCCchhhhhcccccchhHHhHHHHHHhcCeeccCccchhhHhhhhhcccCCCcccccccccccccCCCCCCCCc
Q 000430 800 RQLTNISGNLWGKTLQGARAQRVEYLLLHAFRAKKYIVPDKFTYVKETKMAKQRSNHGVEDRNVEELTNEDANFDNDTSH 879 (1517)
Q Consensus 800 ~qLt~I~Gn~~~rtL~g~r~~r~E~LLLhef~~~~yI~Pdk~~~~~~~~~~~~r~~~~~e~~~~~~~~~~d~~~~~~~~~ 879 (1517)
.+|++++|.++.++..++.+.++|++|+++++++|+++|++...... ..+.
T Consensus 346 ~elarit~lpl~~v~r~~~g~~i~~~l~~~a~~~~~liP~~~~~~~~----------~~~~------------------- 396 (787)
T PRK05761 346 LLLSRISKLPIEELSRATISTWISNLEYWEHRKRGWLIPWKEDILRL----------DHEV------------------- 396 (787)
T ss_pred HHHHHHHCcCHHHHhccCHHHHHHHHHHHHHHhCCEeCCCCcccccc----------cccc-------------------
Confidence 99999999999999888889999999999999999999987431000 0000
Q ss_pred cccccCCCCCCCCCceeeecccccccceEEEeeccCcchhHHHHhCccccccccCCCCC--c-c--c---CCCCCccCCc
Q 000430 880 NDHRKGKRGPAYAGGLVLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVERSPDGL--V-P--H---LPSSKTTGVL 951 (1517)
Q Consensus 880 ~~~~~~~~k~~Y~GGlVleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~d~~--v-~--~---~p~~~~~Gil 951 (1517)
.........+|+||+|++|++|+|++ |++|||+|||||||++|||||+|+++..+.. . + . .-+..+.|++
T Consensus 397 -~~~~~~~~~~y~Gg~V~~P~~G~y~~-V~vlDF~SLYPSIi~~~Ni~p~T~~~~~~~~~~~~~~~~~~~~~~~~~~gl~ 474 (787)
T PRK05761 397 -YKKAIIKGKKYRGGLVFQPPPGIFFN-VYVLDFASLYPSIIVKWNLSPETVRIPECKCHYDDEVPELGHSVCDDRPGLT 474 (787)
T ss_pred -ccccccccCCcCCcEEeccCCCceee-EEEeeecccchHHHHHhCCChhhccCccccccccCCCCCCCceeecCCCCch
Confidence 00001234689999999999999998 9999999999999999999999998653211 1 1 1 1156789999
Q ss_pred HHHHHHHHHHHHHHHHHHhhcc--h-hHHHhhHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHHH
Q 000430 952 PELLKNLVQRRRMVKTWMKTAS--G-LKIQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAELITQQGREILRSTVDL 1028 (1517)
Q Consensus 952 P~iL~~Ll~~R~~vK~~mK~~~--~-~~~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ 1028 (1517)
|.+|+.|++.|+++|+.|++.+ + .++++||.+|+|+|++|||+|||+|++++||||+++|++||+.||++|++|+++
T Consensus 475 ~~il~~l~~~R~~~k~~~~~~~~~~~~~~~~ld~~Q~AlKi~~NS~YGy~G~~~~r~~~~~~A~~IT~~GR~~l~~t~~~ 554 (787)
T PRK05761 475 SVLVGLLRDFRVKIYKKKAKDPNLDEERRAWYDVVQRALKVFLNASYGVFGAENFKLYRIEVAESITALGREILLSTKKK 554 (787)
T ss_pred HHHHHHHHHHHHHHHHHhhccCCCCHHHHHHHHHHHHhheeeeecccccccccCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999999999998754 2 689999999999999999999999999999999999999999999999999999
Q ss_pred HHhccCceEEEeeccceeeecCcccHHHHHHHHHHHHHHHhcccceeEEeeeeeeeeeeee-ccceeeEEEeeecCCccc
Q 000430 1029 VQNNLNLEVIYGDTDSIMIHSGIDDIAKAKAIAGKVIQEVNKKYKCLEIDLDGLYKRMLLL-KKKKYAAVKVQFKDGMPY 1107 (1517)
Q Consensus 1029 ve~~~g~~VIYGDTDSimI~~~~~~~~ea~~ig~~i~~~Vn~~~~~leLE~E~vy~~~lLl-~KKrYa~l~~~~~dG~~~ 1107 (1517)
+++ +|++|||||||||||+.+. .+.+ .+++++|++.+ +|+||+|++|++++|. +||||||+. .+|+
T Consensus 555 ie~-~g~~VIYGDTDSvfv~~~~--~~~~----~~l~~~i~~~~-~i~LE~Ek~y~~~l~~~~KKrYag~~---~dgk-- 621 (787)
T PRK05761 555 AEE-LGLKVLYGDTDSLFVWGPT--KESL----EELIKEIEERT-GIDLEVDKTYDWVAFSGLKKNYFGVL---KDGK-- 621 (787)
T ss_pred HHH-cCCEEEEEeCceEEEECCC--HHHH----HHHHHHHHHhC-CCceEEEEEEEEEEEecccceEEEEe---cCCe--
Confidence 986 8999999999999999764 2233 34566777777 4999999999999885 999999986 4664
Q ss_pred eeEEEeeeeeeeCchhHhHHHHHHHHHHHHhccCCHHHH---HHHHHHHHHHHHHHHhcCCCCccceEEeeccCCCCCCC
Q 000430 1108 EVIERKGLDMVRRDWSLLSKEVGDFCLSQILSERSCEDV---VESIHNSLMKVQEDMRSGQVALEKYVITKTLTKPPEAY 1184 (1517)
Q Consensus 1108 ~~~e~KGle~vRRD~c~l~k~~~~~vl~~IL~~~~~e~~---~~~i~~~l~~~~~~l~~g~v~l~~lvItk~LsK~~~~Y 1184 (1517)
+++||+++||||||+|+|++++.+|+.||.+++++++ ++.+++++.+.+++|++|++|+++|+|+|+|+|++++|
T Consensus 622 --i~~KG~e~vRrD~~~~~k~~~~~vl~~ll~~~~~~~~~~~~~~~~~~v~~~~~~l~~g~~~~~~lvi~k~l~k~~~~Y 699 (787)
T PRK05761 622 --VKIKGIVAKKRNTPEFVKELQREVLEVLKSIRSPEDVEKVKDEIEDVLKRYYEKLRAKDYPLDELAIRVRLSKPLDEY 699 (787)
T ss_pred --EEEEEEEEEeCCchHHHHHHHHHHHHHHhcCCChhHHHHHHHHHHHHHHHHHHHHHcCCCCHHHEEEEeeecCCHHHh
Confidence 7999999999999999999999999999999998854 34778888899999999999999999999999999999
Q ss_pred CCCCCchHHHHHHHHHhcCCCCCCCCCCeeEEEEEeccCCCCCCCcCccccccCchhhhhcCCCCCCChHHHHhhCchHH
Q 000430 1185 PDAKNQPHVQVALRLKQSGYSTGCSAGDTVPYIICCEQGTSSGSSVGIAQRARHPDELKKGDGKWMIDIDYYASQQIHPV 1264 (1517)
Q Consensus 1185 ~~~k~~pHV~vA~rl~~~g~~~~~~~Gd~I~YVI~~~~~~~~~~~~~~~~RA~~P~ev~~~~~~l~iD~eYYl~~QI~p~ 1264 (1517)
.. +.+|||++|++|++.|.. +++||+|+|||+++.+ +| .|.++.. +.+||++||++ ||.|+
T Consensus 700 ~~-~~~~hv~aa~~~~~~g~~--~~~Gd~I~YVi~~~~~-----------~~-~p~~~~~---~~~iD~~yYi~-~l~~~ 760 (787)
T PRK05761 700 TK-NTPQHVKAALQLRDYGVE--VSPGDIISYVKVDDKR-----------GV-KPVQLAK---LSEIDVEKYIE-LLRSA 760 (787)
T ss_pred cC-CCchHHHHHHHHHhCCCC--CCCCCEEEEEEEcCCC-----------CC-Chhhhcc---cCCcCHHHHHH-HHHHH
Confidence 86 467999999999988854 9999999999997421 22 3555532 37899999997 99999
Q ss_pred HHHhhcccCCCCHHHHH
Q 000430 1265 VSRLCASIEGTSPERLA 1281 (1517)
Q Consensus 1265 v~Rl~~pI~g~~~~~la 1281 (1517)
++||++++ |.+...|-
T Consensus 761 ~~~il~~~-g~~~~~l~ 776 (787)
T PRK05761 761 LEQILSAL-GVSWDDIR 776 (787)
T ss_pred HHHHHHHh-CCCHHHHc
Confidence 99998876 66666553
No 7
>COG0417 PolB DNA polymerase elongation subunit (family B) [DNA replication, recombination, and repair]
Probab=100.00 E-value=6.3e-104 Score=1013.06 Aligned_cols=757 Identities=31% Similarity=0.474 Sum_probs=603.5
Q ss_pred CcEEEEEEEeecCCceeEEEEEEecceeeEEEeeCCCCCCchhHHHhhHhhhhccCchHHHHHHHHHHHhhhHHHHHHHh
Q 000430 351 MGTLYLFGKVKAGSTHHSCCVVVKNMQRCVYAIPNGPLFQTDEIMKLEKDAEESRISPMAFRKKLQDVALGLKTEIANQL 430 (1517)
Q Consensus 351 ~g~l~LFGKv~~~~~~~Sccv~V~n~~R~~y~lPr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ei~~~~ 430 (1517)
...+++||....| .++++.+.++..++|+.+.... +.+. . ....+ ..
T Consensus 8 ~~~~~~~~~~~~G---~~v~~~~~~~~~~~~~~~~~~~--~~~~------~----------~~~~~------------~~ 54 (792)
T COG0417 8 FPLVRIFGDTDSG---KSVVKLVATFRPYFYVTLDNSR--PEDY------V----------LKILN------------RR 54 (792)
T ss_pred ceEEEEeeecCCC---CEEEEEecCCCCcEEEecCCCc--ccch------h----------hhhcc------------cc
Confidence 4678999999998 8999999999999997665430 0000 0 00000 00
Q ss_pred hcCCeeeEEEEEEEeecccCCCCCCCCceeEEEEEecCCCCCCCcCCC-C-CccccccCCCchHHHHHhhhcCCCCceeE
Q 000430 431 LNLNVSNYIVSPVKRRYAFGQAEIPAGENYVLKINYPFKDPPLPADLK-G-ENFCSLLGTHSSALELFLVKRKVKGPSWL 508 (1517)
Q Consensus 431 ~~~~i~~~~~k~v~r~yafe~~~vp~~~~~~lkv~y~~~~p~lp~~l~-G-~tf~~vfgtn~s~~ErFli~rkI~Gp~Wl 508 (1517)
..-.+.......+...|+-. .++ ..-+..++|-..|.+-...+ . .....+|++|+.+..||+++++|.++.|+
T Consensus 55 ~~~~~~~~~~~~~~~~~~~~--~~~---~~~i~~~~p~~v~~~r~~~~~~~~~~~~i~e~dI~~~~r~~~d~~i~~~~~~ 129 (792)
T COG0417 55 LDDVLELEEVENVPDPYLGR--EVE---VLKIYARDPQAVRKLREKVKRELEGVVDIFEADIPFAMRYLIDKGIRPMVWV 129 (792)
T ss_pred ccccceeeeeeeeeccccCC--ccc---ceeeEecCHHHHHHHHHHHhhhhhccceEeecCCCcchheeeecCCCCceEE
Confidence 00001111133444444322 121 11133444444444332222 2 23456899999999999999999999999
Q ss_pred EEeccccCCCCCCcccceEEEEEeCCCCcccccCCCCCCCCCCceEEEEEeeecCCCC----CCcccEEEEEEEEeeccc
Q 000430 509 SISKFSSCPAPQRVSWCKYEITVDSPKDIRVSSSSKHVAEVPPVTVTAINLKTVFNKR----QDVNEIVSASVVCCHKAK 584 (1517)
Q Consensus 509 ~i~~~~~~~~~~~~S~Ck~Ev~v~~~~~I~~~~~~~~~~~~PpL~vlS~dIeT~~n~~----~~~~EI~~iS~~~~~~~~ 584 (1517)
.+........... . + .......|+|++|||||+|..+.. .-.+.|++|+........
T Consensus 130 ~~~~~~~~~~~~~-~-------------~-----~~~~~~~p~l~~la~DiE~~~~~~~~~~~~~d~~~~i~~~~~~~~~ 190 (792)
T COG0417 130 SVDVEDIGSIHSL-F-------------L-----EHREDVRPPLRVLAFDIETLSEPGKFPDGEKDPIIMISYAIEAEGG 190 (792)
T ss_pred Eeeeccccchhhc-c-------------c-----ccccCcCCCceEEEEEEEEecCCCCCCCccCCceEEEEEEeccCCC
Confidence 9974321100000 0 1 112356899999999999985322 224567777665443221
Q ss_pred ccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCCCCceEeecccHHHHHHHHHHHHHhcCCCEEEcccc
Q 000430 585 IDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNI 664 (1517)
Q Consensus 585 id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi 664 (1517)
. + ..++ .....|..|. .+.+|.+||++|..++..+|||||+|||+
T Consensus 191 ~----~----------~~~~--------------------~~~~~~~~v~-~~~~e~e~l~~~~~~i~~~dPdVIvgyn~ 235 (792)
T COG0417 191 L----I----------EVFI--------------------YTSGEGFSVE-VVISEAELLERFVELIREYDPDVIVGYNG 235 (792)
T ss_pred c----c----------cccc--------------------ccCCCCceeE-EecCHHHHHHHHHHHHHhcCCCEEEeccC
Confidence 1 0 0000 0111233333 44789999999999999999999999999
Q ss_pred CcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCCCCceeeecceEEeecHHHHh-hccccCCCCHH
Q 000430 665 SGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGASPGIMSCIAGRLLCDTFLCSR-DLLREVSYSLT 743 (1517)
Q Consensus 665 ~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~~~~~~i~GRlv~D~~~~~k-~~~k~~SYsL~ 743 (1517)
.+||||||.+||..++++. + +||..+....+. ..+. ...||++||++..++ +.+++.+|+|.
T Consensus 236 ~~fd~pyl~~Ra~~lgi~~--~--~gr~~~~~~~~~----~~~~---------~~~Gr~~iDl~~~~~~~~~~~~~ysl~ 298 (792)
T COG0417 236 DNFDWPYLAERAERLGIPL--R--LGRDGSELRVRK----SGFS---------SQVGRLHIDLYPALRRRPLNLKSYSLE 298 (792)
T ss_pred CcCChHHHHHHHHHhCCCc--c--ccccccccceee----cccc---------cccceEEEecHHHHhhhhcccccccHH
Confidence 9999999999999999998 4 888766533211 1111 112999999999988 68999999999
Q ss_pred HHHHHhcCCCC-CccChhhHHHHHhcc-hhHHHHHHHHHHhHHHHHHHHhhcccchhHHHHhhhcCCchhhhhcccccch
Q 000430 744 QLAKTQLNKDR-KEVGPHDVLKMFQTL-ESLMELIEYGETDAWLSMELMFHLSVLPLTRQLTNISGNLWGKTLQGARAQR 821 (1517)
Q Consensus 744 ~va~~~Lg~~k-~di~~~eI~~~~~~~-~~l~~l~~y~~~DA~L~~~L~~kl~ilpL~~qLt~I~Gn~~~rtL~g~r~~r 821 (1517)
.++..+|++.+ .+++...+...|... .+..+++.||+.|+.|+++++.+.++||+..++++|+|.+|.+++.++++.+
T Consensus 299 ~v~~~~l~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~~~l~~~~e~s~vsg~~~~~~~~~~~~~~ 378 (792)
T COG0417 299 AVSEALLGEGKREDIPYDSMEEIWPDWADSKLRLLLYNLSDADLVLRILLKNELLPLLIELSRVSGLPLDDVTRAGSGAR 378 (792)
T ss_pred HHHHHhcccccccccCccchhhccccCccchhHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHhCCCHHHHcccchhHH
Confidence 99999999987 888888877777643 3467999999999999999999999999999999999999999999999999
Q ss_pred hHHhHHHHHHhcCeeccCccchhhHhhhhhcccCCCcccccccccccccCCCCCCCCccccccCCCCCCCCCceeeeccc
Q 000430 822 VEYLLLHAFRAKKYIVPDKFTYVKETKMAKQRSNHGVEDRNVEELTNEDANFDNDTSHNDHRKGKRGPAYAGGLVLEPKK 901 (1517)
Q Consensus 822 ~E~LLLhef~~~~yI~Pdk~~~~~~~~~~~~r~~~~~e~~~~~~~~~~d~~~~~~~~~~~~~~~~~k~~Y~GGlVleP~~ 901 (1517)
+|++|+|++++.++++|++.... ....|+||+|++|.+
T Consensus 379 ~~~~l~~~a~~~~~~iP~~~~~~------------------------------------------~~~~~~Gg~V~~P~~ 416 (792)
T COG0417 379 VEGLLLREAKRRGELIPNKEERP------------------------------------------ERKKYKGGLVLEPEP 416 (792)
T ss_pred HHHHHHHHHhhcCEeccCccccc------------------------------------------hhhhcCCCEEccCCc
Confidence 99999999999999999974210 014799999999999
Q ss_pred ccccceEEEeeccCcchhHHHHhCccccccccCCCCCc---c---cCCCCCccCCcHHHHHHHHHHHHHHHHHHhhcch-
Q 000430 902 GLYDKYILLLDFNSLYPSIIQEYNICFTTVERSPDGLV---P---HLPSSKTTGVLPELLKNLVQRRRMVKTWMKTASG- 974 (1517)
Q Consensus 902 Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~d~~v---~---~~p~~~~~GilP~iL~~Ll~~R~~vK~~mK~~~~- 974 (1517)
|+|++ |++|||+|||||||++|||||+|++....... + ...++.++|++|++|+.|+++|.++|+.||+.++
T Consensus 417 Gly~~-V~vLDF~SLYPSII~~~Ni~p~T~~~~~~~~~~~~~~~~~~~~~~~~G~lp~il~~L~~~R~~~K~~~k~~~~~ 495 (792)
T COG0417 417 GLYEN-VLVLDFSSLYPSIIIKYNISPDTLVEEDCSDDYSPPGVGHGFCKREKGFLPEILEELLDRRDEIKKKMKKEKDP 495 (792)
T ss_pred cccCc-EEEEEccccChHHHHHhCCCcceecCCCccccccCCCCcccccccCCCchHHHHHHHHHHHHHHHHHhcccCCh
Confidence 99999 99999999999999999999999997542211 1 1227889999999999999999999999999876
Q ss_pred hHHHhhHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEeeccceeeecCcccH
Q 000430 975 LKIQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAELITQQGREILRSTVDLVQNNLNLEVIYGDTDSIMIHSGIDDI 1054 (1517)
Q Consensus 975 ~~~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~~~g~~VIYGDTDSimI~~~~~~~ 1054 (1517)
.++.+||.+|+||||+|||+|||+|++++||||.++|++||++||++|+.|++++++ +|++|||||||||||..+.+..
T Consensus 496 ~e~~~~d~rQ~AlKvl~NS~YGy~G~~~~rf~~~e~a~~VT~~gR~ii~~t~~~ae~-~G~~ViyGDTDSlfv~~~~~~~ 574 (792)
T COG0417 496 SERKLLDGRQLALKVLANSFYGYLGYSNSRFYCIECAESVTAFGREILRETKELAEE-MGLRVIYGDTDSLFVTLPGATY 574 (792)
T ss_pred HHHHHHHHHHHHHHHHHhhccccccccCCccCCHHHHHHHHHHHHHHHHHHHHHHHH-cCCEEEEECCceeEEEcCCCch
Confidence 789999999999999999999999999999999999999999999999999999996 9999999999999999998889
Q ss_pred HHHHHHHHHHHHHHhcccc-eeEEeeeeeeeeeeeec-cceeeEEEeeecCCccceeEEEeeeeeeeCchhHhHHHHHHH
Q 000430 1055 AKAKAIAGKVIQEVNKKYK-CLEIDLDGLYKRMLLLK-KKKYAAVKVQFKDGMPYEVIERKGLDMVRRDWSLLSKEVGDF 1132 (1517)
Q Consensus 1055 ~ea~~ig~~i~~~Vn~~~~-~leLE~E~vy~~~lLl~-KKrYa~l~~~~~dG~~~~~~e~KGle~vRRD~c~l~k~~~~~ 1132 (1517)
++++++++++.++||.+++ +|+||+|++|+++||+. ||||||+.. +|. ++++||++++|||||+|+|++|.+
T Consensus 575 ~ea~~~~~~l~~~vn~~~~~~i~lE~e~~y~~~ll~~~KKRYag~~~---~g~---~~~vKG~e~~RrD~~~l~k~~q~~ 648 (792)
T COG0417 575 EEAIKIGEELVEEVNERLPSGIELEVEKVYKRFLLPTAKKRYAGLLE---DGD---KIEVKGLETVRRDWPELVKEFQRE 648 (792)
T ss_pred HHHHHHHHHHHHHHhhcCCCCeEEEeeehhhhhhccccccceEEEec---cCC---EEEEeeeEEEecCccHHHHHHHHH
Confidence 9999999999999999854 89999999999999999 999999974 563 489999999999999999999999
Q ss_pred HHHHHhccCCHHHHHHHHHHHHHHHHHHHhcCCCCccceEEeeccCCCCCCCCCCCCchHHHHHHHHHhcCCCCCCCCCC
Q 000430 1133 CLSQILSERSCEDVVESIHNSLMKVQEDMRSGQVALEKYVITKTLTKPPEAYPDAKNQPHVQVALRLKQSGYSTGCSAGD 1212 (1517)
Q Consensus 1133 vl~~IL~~~~~e~~~~~i~~~l~~~~~~l~~g~v~l~~lvItk~LsK~~~~Y~~~k~~pHV~vA~rl~~~g~~~~~~~Gd 1212 (1517)
||+.||.+++++++. ..++..+.+++++|.+++++|+|+|+|+|.+.+|. +++||+.+|++++.+|. .+.+|+
T Consensus 649 vl~~il~~~~~e~~~---~~~~~~v~~~l~~~~~~~~~lvi~k~l~k~~~ey~--~~~p~~~~a~~~~~~g~--~~~~g~ 721 (792)
T COG0417 649 VLEVLLSGRDVEEAL---AKYVRDVIEKLRNGEVPIEKLVISKRLTRPLSEYK--ANKPHVVVAARLRKRGI--NVKPGD 721 (792)
T ss_pred HHHHHHcCCCHHHHH---HHHHHHHHHHHHcCCcCHHHheeeeeeccChhhhc--CCCcHHHHHHHHHhCCC--CCCCCC
Confidence 999999999999984 44556678899999999999999999999999998 47899999999999874 499999
Q ss_pred eeEEEEEeccCCCCCCCcCccccccCchhhhhcCCCCCCChHHHHhhCchHHHHHhhcccCCCCHHHHHH
Q 000430 1213 TVPYIICCEQGTSSGSSVGIAQRARHPDELKKGDGKWMIDIDYYASQQIHPVVSRLCASIEGTSPERLAD 1282 (1517)
Q Consensus 1213 ~I~YVI~~~~~~~~~~~~~~~~RA~~P~ev~~~~~~l~iD~eYYl~~QI~p~v~Rl~~pI~g~~~~~la~ 1282 (1517)
+|+|||+.++ .++++||+.|.++..++ ++||++||+++||+||+.|++++|.+.-.....+
T Consensus 722 ~i~Yvi~~~~-------~~~~~ra~~~~~~~~~~--~~iD~~YY~~~Ql~~~~~ril~~i~~~~~~~~~~ 782 (792)
T COG0417 722 RIPYVIVKGK-------GKLVERAEPPELVDEEN--SPIDYEYYITKQLLPALERILEPIGGNFAELKGE 782 (792)
T ss_pred EeEEEEecCC-------CcccccccCceeccccc--ccCCHHHHHhccchHHHHHHHHHhcccHhhhccc
Confidence 9999999742 46789999998887653 7899999999999999999999997765444433
No 8
>PHA03036 DNA polymerase; Provisional
Probab=100.00 E-value=1.3e-103 Score=993.13 Aligned_cols=664 Identities=21% Similarity=0.271 Sum_probs=524.6
Q ss_pred EEEeCCCCcccccCCCCCCCCCCceEEEEEeeec----CCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEE
Q 000430 529 ITVDSPKDIRVSSSSKHVAEVPPVTVTAINLKTV----FNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFT 604 (1517)
Q Consensus 529 v~v~~~~~I~~~~~~~~~~~~PpL~vlS~dIeT~----~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~ 604 (1517)
+.|++|+..-. .+-+ .-.-|++.|||||||. ||.+.. +-|..||+.+..... ....||
T Consensus 140 y~c~~p~~~f~--~~i~-~~~~~~~~lsfDIEC~~~g~FPs~~~-~pvshIs~~~~~~~~--------------~~~~~~ 201 (1004)
T PHA03036 140 YHCDDPKKCFA--NKIP-RFDIPRSYLFLDIECHFDKKFPSVFI-NPVSHISCCYIDLSG--------------KEKRFT 201 (1004)
T ss_pred eeeCCHHHHhc--CcCC-CccCcceeEEEEEEeccCCCCCCccc-CcceEEEEEEEecCC--------------CeeEEE
Confidence 55677875422 1112 2345799999999998 666664 667778873332211 013355
Q ss_pred EEec--------CCCcccCCccchhhhcccCCCCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHH
Q 000430 605 VVRK--------LDGGIFPMGFNKEATDRNSKAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRA 676 (1517)
Q Consensus 605 ~~r~--------~~~~~fp~~f~~~~~~~~~~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra 676 (1517)
++.. ++...+.+.-+..+ ....|..++.+ .+|++|| .|+.+|.+.|||+|+|||+++||||||.+|+
T Consensus 202 l~n~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~-~sE~~ml-~~~~~i~~~d~D~i~~yNg~nFD~~Yi~~R~ 276 (1004)
T PHA03036 202 LINEDMLSEDEIEEAVKRGYYEIESL---LDMDYSKELIL-CSEIVLL-RIAKKLLELEFDYVVTFNGHNFDLRYISNRL 276 (1004)
T ss_pred Eeccccccccccccceeeeeeccccc---cccCCceeeec-CCHHHHH-HHHHHHHhcCCCEEEeccCCCcchHHHHHHH
Confidence 5432 01111111111111 11244555656 5899988 6799999999999999999999999999999
Q ss_pred HHcCCCCCccccccccccCCCccccc---CcccccCCCCCCcee-eecceEEeecHHHHhhccccCCCCHHHHHHHhc--
Q 000430 677 QVCRVPSSMWSKIGRLKRSEMPKLRK---GRTIFGSGASPGIMS-CIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQL-- 750 (1517)
Q Consensus 677 ~~lkI~~~~wsriGRlkr~~~p~~~~---~~~~fg~~~~~~~~~-~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~L-- 750 (1517)
+.|+...-.+...|++.........+ .....|...+....+ .+.||+++|+|.++++..++.||+|++||++++
T Consensus 277 ~~L~~~~~~~~~~~~~~~~~~~v~~r~~~s~~~~gg~~~~t~~i~~~~G~i~fDLy~~i~k~~~L~sYkL~~Vsk~~f~~ 356 (1004)
T PHA03036 277 ELLTGEKIIFRSPDGKETVHLCIYERNLSSHKGVGGVANTTYHINNNNGTIFFDLYTFIQKTEKLDSYKLDSISKNAFNC 356 (1004)
T ss_pred HHhccCceeeccCCCcccccceeeccccccccccCccccceEEecccCCeEEEEhHHHHhhhcCcccccHHHHHHHhhcc
Confidence 99865321244456654432211100 001111111111222 368999999999999999999999999999966
Q ss_pred ---------------C--------------------------C------------------------------------C
Q 000430 751 ---------------N--------------------------K------------------------------------D 753 (1517)
Q Consensus 751 ---------------g--------------------------~------------------------------------~ 753 (1517)
| . +
T Consensus 357 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~f~~vl~t~ny~~i~~~~~~k~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 436 (1004)
T PHA03036 357 NAKVLSENNNEVTFIGDNTTDAKGKASIFSEVLSTGNYVTINDDDICKILDKDIIENSFTVKVICKNNYIPGDTYTLSFG 436 (1004)
T ss_pred ceeeeecCCceeEEccCcccccccchhhhhhhhcccceeeecccchhhhcccccccccceeeeecccccccccceeeccc
Confidence 5 4 7
Q ss_pred CCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHHHhhcccchhHHHHhhhcCCchhhhhcccccchhHHhHHHHHHhc
Q 000430 754 RKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMELMFHLSVLPLTRQLTNISGNLWGKTLQGARAQRVEYLLLHAFRAK 833 (1517)
Q Consensus 754 k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L~~kl~ilpL~~qLt~I~Gn~~~rtL~g~r~~r~E~LLLhef~~~ 833 (1517)
|.|+++.+|...|. .+.+.+++.||++||.|+++|+.++.++.-..+++..++.+..+++..+++.+++.+||+.+.+.
T Consensus 437 KdDV~~~~i~~~~~-~~~r~rla~YClkDa~L~l~L~~~l~~~~~v~~~a~~~~lp~~~~i~~~~s~~i~~qllr~~~~~ 515 (1004)
T PHA03036 437 KDDVDLSDMYKNYN-LEIALEMARYCIHDACLCKYLWEYYGIETKIDAGASTYLLPQSMVFEYRASTLIKGPLLKLLLEE 515 (1004)
T ss_pred ccCCCHHHHHHHhC-hhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCChhheEeeeeccccccHHHHHHHHC
Confidence 89999999999997 46688999999999999999999999988888899999999999999999999999999999999
Q ss_pred CeeccCccchhhHhhhhhcccCCCcccccccccccccCCCCCCCCccccccCCCCCCCCCceeeecccccccceEEEeec
Q 000430 834 KYIVPDKFTYVKETKMAKQRSNHGVEDRNVEELTNEDANFDNDTSHNDHRKGKRGPAYAGGLVLEPKKGLYDKYILLLDF 913 (1517)
Q Consensus 834 ~yI~Pdk~~~~~~~~~~~~r~~~~~e~~~~~~~~~~d~~~~~~~~~~~~~~~~~k~~Y~GGlVleP~~Gly~~~V~~LDF 913 (1517)
|+++|... ++.+.+|+||+|++|++|||++||++|||
T Consensus 516 ~~i~p~~~-------------------------------------------~~~~~~YeGa~VlEP~~G~Y~~pV~vLDF 552 (1004)
T PHA03036 516 KTILVRSE-------------------------------------------TKNKFPYEGGKVFAPKQKMFDNNVLIFDY 552 (1004)
T ss_pred CcccccCC-------------------------------------------CCccCCcCceEEecCCCCcccCCEEEEEc
Confidence 99998320 01123799999999999999989999999
Q ss_pred cCcchhHHHHhCccccccccCC--CC-------------Ccc--c------CC------------CCCccCCcHHHHHHH
Q 000430 914 NSLYPSIIQEYNICFTTVERSP--DG-------------LVP--H------LP------------SSKTTGVLPELLKNL 958 (1517)
Q Consensus 914 ~SLYPSII~~~NIc~tTv~~~~--d~-------------~v~--~------~p------------~~~~~GilP~iL~~L 958 (1517)
+||||||||+|||||+|+++.. ++ ..| . .| ...++||||++|+.|
T Consensus 553 aSLYPSIIia~NLcyeTlv~~~~~~~~~~~~i~~~~i~~~~p~~dy~~v~~~~~~~~~v~~~~vf~~~rkGILP~iL~~L 632 (1004)
T PHA03036 553 NSLYPNVCIFGNLSPETLVGVVVNDNRLEAEINKQELRRKYPYPRYIYVHCEPRSPDLVSEIAVFDRRIEGIIPKLLKTF 632 (1004)
T ss_pred cccchHHHHHhCCCcCeEeeccccccccccccccccccccCCCccceeeeccCCcccccccceeecCCCCcChHHHHHHH
Confidence 9999999999999999998521 00 011 0 01 235799999999999
Q ss_pred HHHHHHHHHHHhhcch-hHHHhhHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHh------
Q 000430 959 VQRRRMVKTWMKTASG-LKIQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAELITQQGREILRSTVDLVQN------ 1031 (1517)
Q Consensus 959 l~~R~~vK~~mK~~~~-~~~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~------ 1031 (1517)
++.|+++|++||++++ .++.+||.+|+|+|++|||+|||+|++++||||.++|++||++||++|+.|+++|++
T Consensus 633 l~~Rk~~Kk~mK~~~d~~e~~~lD~rQlAlKI~aNS~YG~~G~~~~rly~~~iA~sVTa~GR~mI~~tk~~Ve~~~~~~~ 712 (1004)
T PHA03036 633 LEERARYKKLLKEATSSVEKAIYDSMQYTYKIVANSVYGLMGFRNSALYSYASAKSCTAIGRNMIKYLNSVLNGSKLING 712 (1004)
T ss_pred HHHHHHHHHHHhhCCChHHHHHHHHHHHHHHHHHhcccccccccCccccCHHHHHHHHHHHHHHHHHHHHHhhcccccch
Confidence 9999999999999877 788999999999999999999999999999999999999999999999999987642
Q ss_pred -------------------------------ccCceEEEeeccceeeecCcccHHHHHHHHHHHHHHHhcc--cceeEEe
Q 000430 1032 -------------------------------NLNLEVIYGDTDSIMIHSGIDDIAKAKAIAGKVIQEVNKK--YKCLEID 1078 (1517)
Q Consensus 1032 -------------------------------~~g~~VIYGDTDSimI~~~~~~~~ea~~ig~~i~~~Vn~~--~~~leLE 1078 (1517)
.+|++|||||||||||+++..+.++++++|.++++.||+. +++++||
T Consensus 713 ~~~l~~~p~~~f~~~~r~~~~~~~~~l~~~~~~g~kVIYGDTDSVFV~~~~~d~eea~~ig~ela~~In~~lf~~pikLE 792 (1004)
T PHA03036 713 KLILANCPINPFFKDDRSIDTNYDTNLPVEYNFTFRSVYGDTDSVFLEINTKDVDKSIKIAKELERIINEKVLFDNFKIE 792 (1004)
T ss_pred hhhhhhccccccccccccccccccccccccccCCcEEEEEecCeeEEEcCCCCHHHHHHHHHHHHHHHHHHhcCCCeEEE
Confidence 1689999999999999999889999999999999999985 3689999
Q ss_pred eeeeeeeeeeeccceeeEEEeeec-CCccceeEEEeeeeeeeCchhHhHHHHHHHHHHH---HhccCC---HHHHHHHHH
Q 000430 1079 LDGLYKRMLLLKKKKYAAVKVQFK-DGMPYEVIERKGLDMVRRDWSLLSKEVGDFCLSQ---ILSERS---CEDVVESIH 1151 (1517)
Q Consensus 1079 ~E~vy~~~lLl~KKrYa~l~~~~~-dG~~~~~~e~KGle~vRRD~c~l~k~~~~~vl~~---IL~~~~---~e~~~~~i~ 1151 (1517)
||++|+++||++||||||+.+... .+...+++++||+|+||||||+|+|++++.+++. +|++++ .+.+++.++
T Consensus 793 fEKVY~~lLLl~KKRYAGl~~~~~~~~~~~~kid~KGie~VRRD~c~fvK~v~~~vi~~L~~iL~~~d~~~~~~~i~~Lk 872 (1004)
T PHA03036 793 FEAVYKNLIMQSKKKYTTLKYIASSTDGSVPERVNKGTSETRRDVSKFHKYMIKIYKTRLLDMLSEGNMNSNQVCIDILR 872 (1004)
T ss_pred ehhhHHHHHhhhhhheeeEeeccccCCCCceEEEEECceeEeCchHHHHHHHHHHHHHHHHHHhccCCchhHHHHHHHHH
Confidence 999999999999999999987532 1233468999999999999999999999986664 588875 568899999
Q ss_pred HHHHHHHHHHhcCCCCccceEEeeccCCCCCCCCCCCCchHHHHHHHHHhcCCCCCCCCCCeeEEEEEeccCC---CCCC
Q 000430 1152 NSLMKVQEDMRSGQVALEKYVITKTLTKPPEAYPDAKNQPHVQVALRLKQSGYSTGCSAGDTVPYIICCEQGT---SSGS 1228 (1517)
Q Consensus 1152 ~~l~~~~~~l~~g~v~l~~lvItk~LsK~~~~Y~~~k~~pHV~vA~rl~~~g~~~~~~~Gd~I~YVI~~~~~~---~~~~ 1228 (1517)
+.+.++...+++|++|+++|+|+++|+++ |++ +++||+++|.||++++.. .|+.||||+|||+.+... .+..
T Consensus 873 ~~i~dL~~n~~~~~vple~LviSk~l~~~---Yk~-~~~ph~~la~r~~~r~~~-~p~iGDRv~YV~i~~~~~~w~~~~~ 947 (1004)
T PHA03036 873 SLEKDLIIEFDSRSAPLEMFLLSRTHHCN---YKS-PDNPNMYLVNEYNKNNPE-KIEIGERYYFAYICPINLPWQKKLV 947 (1004)
T ss_pred HHHHHHHHHHhcCCCCHHHHhhhhccccc---CCC-CCCCHHHHHHHHHhhCCC-CCCCCCEEEEEEEECCCcccccccc
Confidence 98899999999999999999999999864 987 459999999999999864 899999999998764221 0012
Q ss_pred CcCccccccCchhhhhcCCCCCCChHHHHhhCchHHHH
Q 000430 1229 SVGIAQRARHPDELKKGDGKWMIDIDYYASQQIHPVVS 1266 (1517)
Q Consensus 1229 ~~~~~~RA~~P~ev~~~~~~l~iD~eYYl~~QI~p~v~ 1266 (1517)
+.+.++||++|.+++++ +++||++||+++-++++++
T Consensus 948 ~~~~ye~aeDp~yvl~~--~~~I~~e~Y~~~l~~~v~n 983 (1004)
T PHA03036 948 NIKTYERIIDRSFKLKS--NERIFYEVYFKRLATEVVN 983 (1004)
T ss_pred CcccceeecCccccccC--CCceeHHHHHHHHHHHHHH
Confidence 34678999999999876 4999999999965555554
No 9
>PHA02528 43 DNA polymerase; Provisional
Probab=100.00 E-value=7.3e-98 Score=952.24 Aligned_cols=559 Identities=21% Similarity=0.287 Sum_probs=452.4
Q ss_pred cccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHH-cCCCC-CccccccccccCCCcccccCcccccCCCCCC
Q 000430 637 ESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQV-CRVPS-SMWSKIGRLKRSEMPKLRKGRTIFGSGASPG 714 (1517)
Q Consensus 637 ~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~-lkI~~-~~wsriGRlkr~~~p~~~~~~~~fg~~~~~~ 714 (1517)
+.+|++||.+|+++|+..|||||+|||+.+||||||++||+. +|+.. ..++.+|+.+...+ ...||.+.
T Consensus 175 ~~sE~eLL~~F~~~i~~~DPDII~GyNi~~FDlpYL~~Ra~~~lg~~~~~~l~~~~~~~~~~~------~~~~g~~~--- 245 (881)
T PHA02528 175 FDTEREMLLEYINFWEENTPVIFTGWNVELFDVPYIINRIKNILGEKTAKRLSPWGKVKERTI------ENMYGREE--- 245 (881)
T ss_pred cCCHHHHHHHHHHHHHHhCCcEEEecCCccCCHHHHHHHHHHHcCcccccccccccccccccc------cccccccc---
Confidence 479999999999999999999999999999999999999996 57653 12455555432211 11233211
Q ss_pred ceeeecceEEeecHHHHhhc--cccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHHHhh
Q 000430 715 IMSCIAGRLLCDTFLCSRDL--LREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMELMFH 792 (1517)
Q Consensus 715 ~~~~i~GRlv~D~~~~~k~~--~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L~~k 792 (1517)
....+.||+++|++...+.+ .++.||+|++||+++||.+|.++++.+|.++|.++. .+|++||++||.|+++|+.+
T Consensus 246 ~~~~i~GRv~lD~~dl~k~~~~~~l~SYsLe~VA~~~LG~~K~d~~~~eI~~l~~~d~--~~l~~Ynl~Da~Lv~~L~~k 323 (881)
T PHA02528 246 IAYDISGISILDYLDLYKKFTFTNQPSYRLDYIAEVELGKKKLDYSDGPFKKFRETDH--QKYIEYNIIDVELVDRLDDK 323 (881)
T ss_pred eeEEEcceEEEeHHHHHHHhhhcccccCCHHHHHHHHhCCCCccCCHHHHHHHHhcCH--HHHHHHHHHHHHHHHHHHHH
Confidence 12468999999999888873 368999999999999999999999999999998764 58999999999999999999
Q ss_pred cccchhHHHHhhhcCCchhhhhcccccchhHHhHHHHHHhcCeeccCccchhhHhhhhhcccCCCcccccccccccccCC
Q 000430 793 LSVLPLTRQLTNISGNLWGKTLQGARAQRVEYLLLHAFRAKKYIVPDKFTYVKETKMAKQRSNHGVEDRNVEELTNEDAN 872 (1517)
Q Consensus 793 l~ilpL~~qLt~I~Gn~~~rtL~g~r~~r~E~LLLhef~~~~yI~Pdk~~~~~~~~~~~~r~~~~~e~~~~~~~~~~d~~ 872 (1517)
+++|+++.++++++|.++.+++ ++...++++|||++|++||++|++..
T Consensus 324 l~ll~~~~e~ArltGi~l~~v~--sq~~~~~~lll~~~~r~g~viP~~~~------------------------------ 371 (881)
T PHA02528 324 RKLIELVLSMAYYAKINFEDVF--SPIKTWDAIIFNSLKEEKIVIPENKS------------------------------ 371 (881)
T ss_pred HHHHHHHHHHHHHhCCcHHHhc--chHhHHHHHHHHHHHHcCcccCCccc------------------------------
Confidence 9999999999999999999995 45566789999999999999997521
Q ss_pred CCCCCCccccccCCCCCCCCCceeeecccccccceEEEeeccCcchhHHHHhCccccccccCCC---------CCcc---
Q 000430 873 FDNDTSHNDHRKGKRGPAYAGGLVLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVERSPD---------GLVP--- 940 (1517)
Q Consensus 873 ~~~~~~~~~~~~~~~k~~Y~GGlVleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~d---------~~v~--- 940 (1517)
....+|+||+|++|++|||+ +|++|||+|||||||++|||||+|++...+ +.++
T Consensus 372 -------------~~~~~y~Gg~V~eP~pGlY~-~VvVLDF~SLYPSIIiayNIcp~Tlv~~~~~~~~~~~~~~~~~~~~ 437 (881)
T PHA02528 372 -------------HKKQKYAGAFVKEPVPGAYR-WVVSFDLTSLYPSIIRQVNISPETIAGTFHVAPVHEYINKTAPRPS 437 (881)
T ss_pred -------------cCCCCCCCcEEecCCCCccc-ceEEEeccccChHHHHHhCCChhhccccccccccccccccccCCCC
Confidence 11357999999999999998 499999999999999999999999986421 0111
Q ss_pred ----cCC-----CCCccCCcHHHHHHHHHHHHHHHHHHhhcch-------------------------------------
Q 000430 941 ----HLP-----SSKTTGVLPELLKNLVQRRRMVKTWMKTASG------------------------------------- 974 (1517)
Q Consensus 941 ----~~p-----~~~~~GilP~iL~~Ll~~R~~vK~~mK~~~~------------------------------------- 974 (1517)
..| ++.++||||++|++|++.|+++|+.||+++.
T Consensus 438 ~~~~~~p~G~~F~k~~~GiLP~iL~~Ll~~R~~~Kk~Mk~~~~~~~~~k~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 517 (881)
T PHA02528 438 DEYSCSPNGWMYRKDIRGVIPTEIKKVFDQRKIYKKKMLAAERNAELIKTILEDLNDSVDTPIDVDYYFDFSDEFKAELK 517 (881)
T ss_pred CceeEcCCCCeEeCCCCeehHHHHHHHHHHHHHHHHHHHhccccccccccccccccccccccccccccccchhhhhhhhc
Confidence 012 2457999999999999999999999976531
Q ss_pred ---------------hHHHhhHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHh-------c
Q 000430 975 ---------------LKIQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAELITQQGREILRSTVDLVQN-------N 1032 (1517)
Q Consensus 975 ---------------~~~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~-------~ 1032 (1517)
.++++||.+|+|+|++|||+||+||+.++||||.++|++||+.||.+|+.+.+.+++ .
T Consensus 518 ~~~~~~l~~~~~~~~~~~~~~d~~Q~A~KI~~NS~YG~lG~~~~r~y~~~~A~aiT~~Gr~~I~~i~~~~~e~l~~~~~~ 597 (881)
T PHA02528 518 TLTKSSLKALLEECEKEIALCNTIQMARKILINSLYGALGNEHFRYYDLRNAEAITLFGQLAIQWIERKMNEYLNKLCKT 597 (881)
T ss_pred ccchhhhhhhhhhhHHHHHHHHHHHHHHHHHHHhhhhhccCcCccCCCHHHHHHHHHHhHHHHHHHHHHHHHHHHHhhcc
Confidence 346899999999999999999999999999999999999999999998866654432 1
Q ss_pred cC-ceEEEeeccceeeecCccc-HH------HHHH-------HH------------HHHHHHHhcccceeEEeeeeeeee
Q 000430 1033 LN-LEVIYGDTDSIMIHSGIDD-IA------KAKA-------IA------------GKVIQEVNKKYKCLEIDLDGLYKR 1085 (1517)
Q Consensus 1033 ~g-~~VIYGDTDSimI~~~~~~-~~------ea~~-------ig------------~~i~~~Vn~~~~~leLE~E~vy~~ 1085 (1517)
.| ++|||||||||||+++..- .. +... ++ .++++.+|...+++.|++|++|.+
T Consensus 598 ~g~~~VIYGDTDSvfV~~~~~~~~~~~~~~~~~~~lv~~~~~~~~~~l~~~~~~~~~el~e~~~~~~~~~~m~~ek~~~~ 677 (881)
T PHA02528 598 EDEDYVIYGDTDSIYVNLDPLVEKVGEDKFKDTNHWVDFLDKFCKERMEPYIDSSYRELCEYMNNYEHLMFMDREAIAGP 677 (881)
T ss_pred cCCcEEEEEcCCeeEEEeCCcchhhhhccchhHHHHHHHHHHHHHHhhhhhhhHHHHHHHHHHhhhccccchhHHHHhhH
Confidence 35 6999999999999986321 00 1111 11 145566665555689999999999
Q ss_pred eeeeccceeeEEEeeecCCcc--ceeEEEeeeeeeeCchhHhHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHhc
Q 000430 1086 MLLLKKKKYAAVKVQFKDGMP--YEVIERKGLDMVRRDWSLLSKEVGDFCLSQILSERSCEDVVESIHNSLMKVQEDMRS 1163 (1517)
Q Consensus 1086 ~lLl~KKrYa~l~~~~~dG~~--~~~~e~KGle~vRRD~c~l~k~~~~~vl~~IL~~~~~e~~~~~i~~~l~~~~~~l~~ 1163 (1517)
+|+.+||||||+.+. .+|+. .+++++||+|+||||||+|+|++|+++++.||.+++ +++.++|+ ++++++++
T Consensus 678 ~~~~sKKRYAgl~~~-~~g~~~~~~kl~~kGlEtvRsD~~~lak~~q~~vi~~Il~~~~-e~~~~yvk----~~i~~~~~ 751 (881)
T PHA02528 678 GFWTAKKRYALNVWD-SEGTRYAEPKLKIMGIETQRSSTPKAVQKALKEAIRRILQEGE-ESLQEYIK----EFEKEFRK 751 (881)
T ss_pred hhhhccccEEEEecc-CCCcccCCCeEEEecceeeecchHHHHHHHHHHHHHHHHhCCc-HhHHHHHH----HHHHHHHc
Confidence 999999999999754 34543 257999999999999999999999999999999866 66555555 45666666
Q ss_pred CCCCccceEEeeccCCCCCCC------CCCCCchHHHHHH---HHHh--cCCCCCCCCCCeeEEEEEeccCCCCCCCcCc
Q 000430 1164 GQVALEKYVITKTLTKPPEAY------PDAKNQPHVQVAL---RLKQ--SGYSTGCSAGDTVPYIICCEQGTSSGSSVGI 1232 (1517)
Q Consensus 1164 g~v~l~~lvItk~LsK~~~~Y------~~~k~~pHV~vA~---rl~~--~g~~~~~~~Gd~I~YVI~~~~~~~~~~~~~~ 1232 (1517)
+|++++.|. ++++++++| ..++.+|||.+|+ ++++ .|. ..++.|++|.|||.++. .++
T Consensus 752 --~d~~~i~~~-~~~~~l~~Y~~~~~~y~k~~pphV~aA~~~~~~~~~~~g~-~~~~~G~kI~~v~lk~~-------~~~ 820 (881)
T PHA02528 752 --LDYEEIAFV-SSANNIAKYSDDKGIPGKGCPIHIRGALLYNRAVKGTLGY-PPIQEGEKVMVLPLKEP-------NPI 820 (881)
T ss_pred --CCHHHEEee-eccCCHHHhcccccccccCCCHHHHHHHHHHHHHhhhcCC-cccCCCCEEEEEEEeCC-------CCC
Confidence 999999988 999999998 3346799999999 7777 565 46999999999999853 467
Q ss_pred cccccCchhhhhcCCCCCC--ChHHHHhhC------chHHHHHhhcc
Q 000430 1233 AQRARHPDELKKGDGKWMI--DIDYYASQQ------IHPVVSRLCAS 1271 (1517)
Q Consensus 1233 ~~RA~~P~ev~~~~~~l~i--D~eYYl~~Q------I~p~v~Rl~~p 1271 (1517)
++||+......+-. -.+ |++||+++| |+||+.||+++
T Consensus 821 ~~~~~~~~~~~~~p--~~~~~d~~~~iD~~~~~~k~~~~p~~~il~~ 865 (881)
T PHA02528 821 GENCIAWPSGTELP--KEIRSDLLKWVDYNLLFEKSFIKPLKNITEA 865 (881)
T ss_pred CCceEeccccccCH--HHHhhchhheechhhhhhhhhhhHHHHHHHH
Confidence 78998766543322 246 999999999 99999997664
No 10
>KOG0968 consensus DNA polymerase zeta, catalytic subunit [Replication, recombination and repair]
Probab=100.00 E-value=9.5e-92 Score=853.26 Aligned_cols=597 Identities=24% Similarity=0.364 Sum_probs=512.5
Q ss_pred CCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCccccc
Q 000430 629 AGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFG 708 (1517)
Q Consensus 629 ~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg 708 (1517)
.|..|..+ .+|++|++.+..++.++||||+.||.+.++.|.||++|++.|++.. --.|.|++....-........||
T Consensus 727 ~~~~V~~~-~sE~elf~ev~~~i~q~DPDIl~GyEi~~~SWGyl~eR~~~l~~di--~~~lsRv~~~~~~n~~d~~~ewg 803 (1488)
T KOG0968|consen 727 YGCRVVVM-ESELELFEEVAKLIVQYDPDILLGYEIHNLSWGYLIERAKLLGIDI--SRDLSRVKCYEKTNESDDEREWG 803 (1488)
T ss_pred CCceEEEe-hhHHHHHHHHHHHHHhcCcceeeeeeecccchHHHHHHHHHhcchH--HHHHhcCCChhhhhhhhhhhhcc
Confidence 45566544 6899999999999999999999999999999999999999999985 34567765432211111122333
Q ss_pred CCCCCCceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcch--hHHHHHHHHHHhHHHH
Q 000430 709 SGASPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLE--SLMELIEYGETDAWLS 786 (1517)
Q Consensus 709 ~~~~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~--~l~~l~~y~~~DA~L~ 786 (1517)
..... -+.+.||+++.+|+..|..+.+.+|+|++|+.++|+++-.-+++..+.++|.+.. .+..++.|-+.-|.+-
T Consensus 804 ~tt~S--~i~i~GR~~lNiWRilR~eV~L~nYtlEsv~~nVL~kk~P~~~~~~Lt~~~~s~~~~~r~~~l~y~l~Ra~~N 881 (1488)
T KOG0968|consen 804 YTTIS--GINIVGRHVLNIWRILRSEVALTNYTLESVVFNVLRKKIPMFDFAVLTRWWKSKRSAERNDVLNYLLSRARLN 881 (1488)
T ss_pred ceeec--cccccchhhhhHHHHHhhhhhhhhccHHHHHHHHHHhhcCCCcHHHHHHHHhcccHHHHHHHHHHHHHHhhhh
Confidence 22211 2468899999999999999999999999999999998888899999999999754 3678999999999999
Q ss_pred HHHHhhcccchhHHHHhhhcCCchhhhhcccccchhHHhHHHHHHhcCeeccCccchhhHhhhhhcccCCCccccccccc
Q 000430 787 MELMFHLSVLPLTRQLTNISGNLWGKTLQGARAQRVEYLLLHAFRAKKYIVPDKFTYVKETKMAKQRSNHGVEDRNVEEL 866 (1517)
Q Consensus 787 ~~L~~kl~ilpL~~qLt~I~Gn~~~rtL~g~r~~r~E~LLLhef~~~~yI~Pdk~~~~~~~~~~~~r~~~~~e~~~~~~~ 866 (1517)
++|+.++.++--+.+++++.|..+-.++..|.+-|+|.+|||-+|..|||.|....+. +.
T Consensus 882 lelLsq~d~i~k~~E~ARv~GIdF~sV~tRGSQ~rVESmllRiAk~~Nyi~~SPs~kQ--------v~------------ 941 (1488)
T KOG0968|consen 882 LELLSQLDWILKNSEMARVIGIDFHSVLTRGSQFRVESMLLRIAKPMNYIAPSPSHKQ--------VA------------ 941 (1488)
T ss_pred HHHHHHHHHHHhhHHHHHhhcceeeEEeeccchhhHHHHHHHHhcccccccCCccHHH--------Hh------------
Confidence 9999999999999999999999999999999999999999999999999999863211 00
Q ss_pred ccccCCCCCCCCccccccCCCCCCCCCceeeecccccccceEEEeeccCcchhHHHHhCccccccccCC------CC---
Q 000430 867 TNEDANFDNDTSHNDHRKGKRGPAYAGGLVLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVERSP------DG--- 937 (1517)
Q Consensus 867 ~~~d~~~~~~~~~~~~~~~~~k~~Y~GGlVleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~------d~--- 937 (1517)
..++.-.-.+||||+..||.+||+||||.||||||||+||+||+|+...- ++
T Consensus 942 -------------------~q~A~EcvPLVMEPeS~fY~~PViVLDFQSLYPSivIAYNyCySTcLG~v~~l~~~~e~~L 1002 (1488)
T KOG0968|consen 942 -------------------MQGAPECVPLVMEPESAFYFDPVIVLDFQSLYPSIVIAYNYCYSTCLGKVGNLNQMNEIKL 1002 (1488)
T ss_pred -------------------hcCCccccceeecchhhhccCceEEEEchhhcchHHHhHHHHHHHhhhHHHhhccccceee
Confidence 01123345799999999999999999999999999999999999997521 00
Q ss_pred -----------------Cc-------ccCCCCCccCCcHHHHHHHHHHHHHHHHHHhhcch--hHHHhhHHHHHHHhhhh
Q 000430 938 -----------------LV-------PHLPSSKTTGVLPELLKNLVQRRRMVKTWMKTASG--LKIQQLDIQQQALKLTA 991 (1517)
Q Consensus 938 -----------------~v-------~~~p~~~~~GilP~iL~~Ll~~R~~vK~~mK~~~~--~~~~~~d~rQ~AlKl~a 991 (1517)
+| ..++.++++|+||++|+++++.|.+||+.||..++ ....++|.||+|||++|
T Consensus 1003 G~s~~s~~~dil~~~~ndV~isPNgv~yVK~sVRkgvLpkmLeEIL~tRiMVKkaMK~~~~~~~L~RiLnaRQLALKLiA 1082 (1488)
T KOG0968|consen 1003 GVSKYSLPPDILVLAKNDVTISPNGVMYVKPSVRKGVLPKMLEEILATRIMVKKAMKRTKDNKKLKRILNARQLALKLIA 1082 (1488)
T ss_pred eeeeccCCHHHHHHHhcceeeCCCceEEechhhhhhhHHHHHHHHHHHHHHHHHHHHHhcchHHHHHHhhhHHHHHHHHh
Confidence 11 11236789999999999999999999999999884 56789999999999999
Q ss_pred hccccccccccc-ccCCHHHHHHHHHHHHHHHHHHHHHHHh--ccCceEEEeeccceeeecCcccHHHHHHHHHHHHHHH
Q 000430 992 NSMYGCLGFSNS-RFYAKPLAELITQQGREILRSTVDLVQN--NLNLEVIYGDTDSIMIHSGIDDIAKAKAIAGKVIQEV 1068 (1517)
Q Consensus 992 NS~YG~lG~~~s-rfy~~~lA~~IT~~GR~iL~~t~~~ve~--~~g~~VIYGDTDSimI~~~~~~~~ea~~ig~~i~~~V 1068 (1517)
|-.|||+.+..| |++|-++|.+|..+||++|++++++|+. .+|++||||||||+||.++..+.++|+.||++|++.|
T Consensus 1083 NVTYGYTsA~FSGRMPCaElADsIV~~GRETLEraIe~Vn~~d~w~AkVVYGDTDSmFVlL~GaT~eeAF~IGq~iAe~V 1162 (1488)
T KOG0968|consen 1083 NVTYGYTSANFSGRMPCAELADSIVQKGRETLERAIEMVNRGDYWGAKVVYGDTDSMFVLLPGATVEEAFEIGQEIAEAV 1162 (1488)
T ss_pred hccccccccccCCCCchHHHHHHHHHhhHHHHHHHHHHHhcCCcCCeEEEEcCCCceEEEecCccHHHHHHHHHHHHHHH
Confidence 999999998886 9999999999999999999999999974 4799999999999999999999999999999999999
Q ss_pred hcccc-eeEEeeeeeeeeeeeeccceeeEEEeeecCCccceeEEEeeeeeeeCchhHhHHHHHHHHHHHHhccCCHHHHH
Q 000430 1069 NKKYK-CLEIDLDGLYKRMLLLKKKKYAAVKVQFKDGMPYEVIERKGLDMVRRDWSLLSKEVGDFCLSQILSERSCEDVV 1147 (1517)
Q Consensus 1069 n~~~~-~leLE~E~vy~~~lLl~KKrYa~l~~~~~dG~~~~~~e~KGle~vRRD~c~l~k~~~~~vl~~IL~~~~~e~~~ 1147 (1517)
+..+| |+.|.||+||.+++|+.||||+|++++..+- ..+.++.||||+||||.||.+.++.+++|..|+..++.
T Consensus 1163 T~~NP~PV~LKfEKVY~PCvL~tKKRYVG~~YEs~~Q-k~PiFDAKGIETVRRDtcPavakilEksL~LlFetkdl---- 1237 (1488)
T KOG0968|consen 1163 TNSNPKPVVLKFEKVYHPCVLLTKKRYVGFMYESPNQ-KEPIFDAKGIETVRRDTCPAVAKILEKSLRLLFETKDL---- 1237 (1488)
T ss_pred HhcCCCCeEEEeeeecccceeeeccceeeeeeccCcc-cCCccccccceeeeccCcHHHHHHHHHHHHHHhhcccH----
Confidence 99885 8999999999999999999999999975443 34568999999999999999999999999999999885
Q ss_pred HHHHHHHHHHHHHHhcCCCCccceEEeeccCCCCCCCCCCCCchHHHHHHHHHhcCCCCCCCCCCeeEEEEEeccCCCCC
Q 000430 1148 ESIHNSLMKVQEDMRSGQVALEKYVITKTLTKPPEAYPDAKNQPHVQVALRLKQSGYSTGCSAGDTVPYIICCEQGTSSG 1227 (1517)
Q Consensus 1148 ~~i~~~l~~~~~~l~~g~v~l~~lvItk~LsK~~~~Y~~~k~~pHV~vA~rl~~~g~~~~~~~Gd~I~YVI~~~~~~~~~ 1227 (1517)
..|+.++.....++..|++++.+|++.|.++- -..|..+...|...+|+|++..++...|+.|+||||||+.+ .
T Consensus 1238 S~IK~y~q~~~~ki~~Gkvs~qDF~FaKEvRl-~~~~~~~~~pP~avva~r~i~~DpR~EPqygERVPYvII~G-----~ 1311 (1488)
T KOG0968|consen 1238 SKIKKYLQNVCNKIQEGKVSFQDFCFAKEVRL-EKYYSASAAPPGAVVARRRITKDPRHEPQYGERVPYVIIDG-----V 1311 (1488)
T ss_pred HHHHHHHHHHHHHHhhCCcchhhheeeeeecc-eeccccccCCchHHHHHHHhccCCccCccccccCCeEEEeC-----C
Confidence 45667777778889999999999999999985 23455555678889999999998888999999999999985 3
Q ss_pred CCcCccccccCchhhhhcCCCCCCChHHHHhhCchHHHHHhhcccCCCCHHHHHH
Q 000430 1228 SSVGIAQRARHPDELKKGDGKWMIDIDYYASQQIHPVVSRLCASIEGTSPERLAD 1282 (1517)
Q Consensus 1228 ~~~~~~~RA~~P~ev~~~~~~l~iD~eYYl~~QI~p~v~Rl~~pI~g~~~~~la~ 1282 (1517)
++..+++|.+.|+|+++++. +++|..|||.+||+||+.|+|.-| |.+...++.
T Consensus 1312 pG~~L~~~vvsP~efL~~~~-~rLn~~YYINk~iiPpL~Rvf~Li-G~~v~~W~~ 1364 (1488)
T KOG0968|consen 1312 PGSTLYSRVVSPEEFLRNPT-YRLNTFYYINKQIIPPLDRVFNLI-GADVDSWYH 1364 (1488)
T ss_pred CCCcHHHHhcCHHHHhcCCc-eeccceeeehhhccchHHHHhhhc-ccchhhHHH
Confidence 56789999999999998874 999999999999999999998854 666555543
No 11
>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=3.2e-86 Score=800.96 Aligned_cols=408 Identities=27% Similarity=0.428 Sum_probs=350.9
Q ss_pred cccchhHHhHHHHHHhcCeeccCccchhhHhhhhhcccCCCcccccccccccccCCCCCCCCccccccCCCCCCCCCcee
Q 000430 817 ARAQRVEYLLLHAFRAKKYIVPDKFTYVKETKMAKQRSNHGVEDRNVEELTNEDANFDNDTSHNDHRKGKRGPAYAGGLV 896 (1517)
Q Consensus 817 ~r~~r~E~LLLhef~~~~yI~Pdk~~~~~~~~~~~~r~~~~~e~~~~~~~~~~d~~~~~~~~~~~~~~~~~k~~Y~GGlV 896 (1517)
|++.|+|++|||++++.||++|++... + .....+.|+||+|
T Consensus 1 g~q~rve~~llr~~~~~g~~~p~~~~~---------------~------------------------~~~~~~~~~g~~V 41 (451)
T cd05534 1 GSQFRVESMLLRLAKPENYILPSPSRQ---------------Q------------------------VAQQRALECLPLV 41 (451)
T ss_pred CCeEEeHHHHHHHHHHcCEEeecCchh---------------c------------------------cccccccccCcEe
Confidence 568899999999999999999986210 0 0012356899999
Q ss_pred eecccccccceEEEeeccCcchhHHHHhCccccccccCCC----------------------------CCcccCC-----
Q 000430 897 LEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVERSPD----------------------------GLVPHLP----- 943 (1517)
Q Consensus 897 leP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~d----------------------------~~v~~~p----- 943 (1517)
+||++|||++||++|||+|||||||++|||||||+++..+ +.+...|
T Consensus 42 ~eP~~G~y~~~V~vLDF~SLYPSIi~~~Nic~sT~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~f 121 (451)
T cd05534 42 MEPESGFYSDPVIVLDFQSLYPSIMIAYNYCYSTCLGRVEELNGGGKFGFLGVKLYLPPPPLDLLLLKDDVTISPNGVMF 121 (451)
T ss_pred ecCCcCcccCceEEEecccccHHHHHHhCcCcccccccccccccccccccccccccccccccccccCCCcEEECCCccee
Confidence 9999999999999999999999999999999999985311 0111122
Q ss_pred --CCCccCCcHHHHHHHHHHHHHHHHHHhhcch--hHHHhhHHHHHHHhhhhhcccccccccc-cccCCHHHHHHHHHHH
Q 000430 944 --SSKTTGVLPELLKNLVQRRRMVKTWMKTASG--LKIQQLDIQQQALKLTANSMYGCLGFSN-SRFYAKPLAELITQQG 1018 (1517)
Q Consensus 944 --~~~~~GilP~iL~~Ll~~R~~vK~~mK~~~~--~~~~~~d~rQ~AlKl~aNS~YG~lG~~~-srfy~~~lA~~IT~~G 1018 (1517)
...++||||++|+.|++.|+++|++||++++ .++.+||.+|+|+|++|||+|||+|+++ +||||.++|++||+.|
T Consensus 122 ~~~~~~~Gilp~iL~~Ll~~R~~~K~~mk~~~~~~~~~~~ld~~Q~AlKi~~NS~YGy~G~~~~gr~~~~~iA~~IT~~G 201 (451)
T cd05534 122 VKKSVRKGILPKMLEEILDTRIMVKKAMKKYKDDKKLQRILDARQLALKLLANVTYGYTAASFSGRMPCVEIADSIVQTG 201 (451)
T ss_pred ecCCCCCCchHHHHHHHHHHHHHHHHHHhhCCCCHHHHHHHHHHHHHHHHHhhccccccccccccccccHHHHHHHHHHH
Confidence 1347999999999999999999999998875 7789999999999999999999999997 5999999999999999
Q ss_pred HHHHHHHHHHHHh--ccCceEEEeeccceeeecCcccHHHHHHHHHHHHHHHhcccc-eeEEeeeeeeeeeeeeccceee
Q 000430 1019 REILRSTVDLVQN--NLNLEVIYGDTDSIMIHSGIDDIAKAKAIAGKVIQEVNKKYK-CLEIDLDGLYKRMLLLKKKKYA 1095 (1517)
Q Consensus 1019 R~iL~~t~~~ve~--~~g~~VIYGDTDSimI~~~~~~~~ea~~ig~~i~~~Vn~~~~-~leLE~E~vy~~~lLl~KKrYa 1095 (1517)
|++|++|++++++ .+|++|||||||||||+++..+.++++++|++++++||+.|+ +++||+|++|.++||++|||||
T Consensus 202 R~~l~~~~~~ie~~~~~g~~VIYGDTDSvfv~~~~~~~~~~~~~~~~i~~~in~~~~~~i~le~E~vy~~~ll~~KKrYa 281 (451)
T cd05534 202 RETLERAIELIESTPKWGAKVVYGDTDSLFVLLPGRTKEEAFKIGKEIAEAVTAANPSPIKLKFEKVYHPCVLVTKKRYV 281 (451)
T ss_pred HHHHHHHHHHHhhccccCceEEeecccceeEecCCCCHHHHHHHHHHHHHHHHHhCCCCceeeHHHHHHHHHHHhhhhEE
Confidence 9999999999986 489999999999999999888889999999999999999985 7999999999999999999999
Q ss_pred EEEeeecCCccceeEEEeeeeeeeCchhHhHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHhcCCCCccceEEee
Q 000430 1096 AVKVQFKDGMPYEVIERKGLDMVRRDWSLLSKEVGDFCLSQILSERSCEDVVESIHNSLMKVQEDMRSGQVALEKYVITK 1175 (1517)
Q Consensus 1096 ~l~~~~~dG~~~~~~e~KGle~vRRD~c~l~k~~~~~vl~~IL~~~~~e~~~~~i~~~l~~~~~~l~~g~v~l~~lvItk 1175 (1517)
|+.+. .+|...+++++||+|+||||||+|+|++++++|+.||.+++.+++.+ ++.+.+.+|++|.+|+++|+|+|
T Consensus 282 g~~~~-~~~~~~~ki~~KGle~vRrD~~~~~k~~~~~vl~~il~~~d~~~~~~----~l~~~~~~l~~g~~~~~dlii~k 356 (451)
T cd05534 282 GYKYE-SPDQTEPTFDAKGIETVRRDGCPAVQKILEKSLRILFETKDLSTVKS----YLQRQWSKLLQGRVSIQDFIFAK 356 (451)
T ss_pred EEEEe-cCCCCCceEEeecceEEecccHHHHHHHHHHHHHHHhccCCHHHHHH----HHHHHHHHHHcCCCCHHHeEEEE
Confidence 99875 23333467999999999999999999999999999999999777555 45567788999999999999999
Q ss_pred ccCCCCCCCCCCCCchHHHHHHHHHhcCCCCCCCCCCeeEEEEEeccCCCCCCCcCccccccCchhhhhcCCCCCCChHH
Q 000430 1176 TLTKPPEAYPDAKNQPHVQVALRLKQSGYSTGCSAGDTVPYIICCEQGTSSGSSVGIAQRARHPDELKKGDGKWMIDIDY 1255 (1517)
Q Consensus 1176 ~LsK~~~~Y~~~k~~pHV~vA~rl~~~g~~~~~~~Gd~I~YVI~~~~~~~~~~~~~~~~RA~~P~ev~~~~~~l~iD~eY 1255 (1517)
+|++....|. +..+|||+||+|+++++....++.|++|+|||+++. ++..+++||++|+++...+ +++||++|
T Consensus 357 ~l~~~~y~~~-~~~p~hv~~A~k~~~~~~~~~~~~G~rI~YViv~~~-----~~~~~~~ra~~~~~~~~~~-~~~iD~~y 429 (451)
T cd05534 357 EVRLGTYKEG-ATLPAGAIVALRRMEKDPRAEPQYGERVPYVVVRGE-----PGSRLIDLVVSPEEFLADP-SLRLDAEY 429 (451)
T ss_pred EeeccccCcc-CCCChHHHHHHHHHHhCCCCCCCCCCEEEEEEEeCC-----CCCcHHHhccCHHHHhhcC-CCCCChHH
Confidence 9998652222 245699999999998876667999999999999753 2346889999999876554 59999999
Q ss_pred HHhhCchHHHHHhhcccCCCC
Q 000430 1256 YASQQIHPVVSRLCASIEGTS 1276 (1517)
Q Consensus 1256 Yl~~QI~p~v~Rl~~pI~g~~ 1276 (1517)
||++||+||+.|||++| |++
T Consensus 430 Yi~~Qi~~~~~ril~~~-g~~ 449 (451)
T cd05534 430 YITKQIIPALDRLFNLV-GVD 449 (451)
T ss_pred HHHhcCHHHHHHHHHHc-CCc
Confidence 99999999999999975 443
No 12
>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=3.1e-86 Score=793.06 Aligned_cols=392 Identities=63% Similarity=1.002 Sum_probs=361.6
Q ss_pred CCCCCCCCceeeecccccccceEEEeeccCcchhHHHHhCccccccccCCCCC-----cccCCCCCccCCcHHHHHHHHH
Q 000430 886 KRGPAYAGGLVLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVERSPDGL-----VPHLPSSKTTGVLPELLKNLVQ 960 (1517)
Q Consensus 886 ~~k~~Y~GGlVleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~d~~-----v~~~p~~~~~GilP~iL~~Ll~ 960 (1517)
+++.+|+||+|++|.+|||++||++|||+|||||||++|||||+|+++..+.. ....++..+.||||++|+.|++
T Consensus 3 ~~~~~y~Gg~V~eP~~G~y~~~V~~lDF~SLYPSIi~~~Ni~~~Ti~~~~~~~~~~~~~~~~~~~~~~Gilp~~l~~l~~ 82 (400)
T cd05532 3 KKKAKYAGGLVLEPKKGLYDKFILLLDFNSLYPSIIQEYNICFTTVDRADPDDEDDEEPPLPPSDQEKGILPRIIRKLVE 82 (400)
T ss_pred CccCCcCCceeecCCCCcccCceEEEeccccchHHHHHhcCChhhcccccccccCCccccccccccCCCchHHHHHHHHH
Confidence 45678999999999999999999999999999999999999999998754321 2233478899999999999999
Q ss_pred HHHHHHHHHhhcch-hHHHhhHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHhccCceEEE
Q 000430 961 RRRMVKTWMKTASG-LKIQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAELITQQGREILRSTVDLVQNNLNLEVIY 1039 (1517)
Q Consensus 961 ~R~~vK~~mK~~~~-~~~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~~~g~~VIY 1039 (1517)
.|.++|++||+.++ .++.+||.+|+|+|++|||+|||+|+++|||||.++|++||+.||++|+.|++++++ .|++|||
T Consensus 83 ~R~~~K~~~k~~~d~~~~~~~d~~Q~alKi~~NS~YG~~g~~~~r~~~~~~A~~iT~~GR~~l~~~~~~~e~-~g~~ViY 161 (400)
T cd05532 83 RRRQVKKLMKSEKDPDKKAQLDIRQLALKLTANSMYGCLGFSYSRFYAKPLAALITSKGREILQKTKDLVEK-MNLEVIY 161 (400)
T ss_pred HHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHhhcccccccccccccChHHHHHHHHHHHHHHHHHHHHHHH-cCCEEEE
Confidence 99999999999877 889999999999999999999999999999999999999999999999999999986 7999999
Q ss_pred eeccceeeecCcccHHHHHHHHHHHHHHHhcccceeEEeeeeeeeeeeeeccceeeEEEeeecCCccceeEEEeeeeeee
Q 000430 1040 GDTDSIMIHSGIDDIAKAKAIAGKVIQEVNKKYKCLEIDLDGLYKRMLLLKKKKYAAVKVQFKDGMPYEVIERKGLDMVR 1119 (1517)
Q Consensus 1040 GDTDSimI~~~~~~~~ea~~ig~~i~~~Vn~~~~~leLE~E~vy~~~lLl~KKrYa~l~~~~~dG~~~~~~e~KGle~vR 1119 (1517)
||||||||.++..+.+++++++.+++++||+.|++|+||+|++|.+++|++||||||+.+. .+|...+++++||++++|
T Consensus 162 gDTDSifv~~~~~~~~~~~~~~~~i~~~in~~~~~i~le~e~iy~~~ll~~KKrYag~~~~-~~~~~~~k~~~KGie~~R 240 (400)
T cd05532 162 GDTDSIMINTGTTDYEEAKKLGNKIKKEVNKSYKKLEIDIDGVFKRLLLLKKKKYAALKVV-DDDKGKLKKEVKGLDIVR 240 (400)
T ss_pred eCCCeEEEecCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHhhhhhcceEEEee-cCCccceeeEEeceeEEe
Confidence 9999999999888899999999999999999998999999999999999999999999865 344334579999999999
Q ss_pred CchhHhHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHhcCCCCccceEEeeccCCCCCCCCCCCCchHHHHHHHH
Q 000430 1120 RDWSLLSKEVGDFCLSQILSERSCEDVVESIHNSLMKVQEDMRSGQVALEKYVITKTLTKPPEAYPDAKNQPHVQVALRL 1199 (1517)
Q Consensus 1120 RD~c~l~k~~~~~vl~~IL~~~~~e~~~~~i~~~l~~~~~~l~~g~v~l~~lvItk~LsK~~~~Y~~~k~~pHV~vA~rl 1199 (1517)
||||+|+|++++.+|+.||.+.+.+++++.+++++.++.++|.+|++|+++|+|+++|+|++++|...+++|||++|+||
T Consensus 241 rD~~~~~k~~~~~vl~~ll~~~~~~~~~~~i~~~~~~~~~~l~~~~~~~~~lii~k~l~k~~~~Y~~~~~~~hv~~A~rl 320 (400)
T cd05532 241 RDWCPLSKEIGNYVLDQILSDKSREDIVENIHEYLRKINEDLRNGKIPLEKFIITKQLTKNPEEYPDKKSLPHVQVALRM 320 (400)
T ss_pred cccHHHHHHHHHHHHHHHHcCCChHHHHHHHHHHHHHHHHHHHcCCCCHHHEEEeecccCChHHcCCCCCCcHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999986588999999999
Q ss_pred HhcCCCCCCCCCCeeEEEEEeccCCCCCCCcCccccccCchhhhhcCCCCCCChHHHHhhCchHHHHHhhcccCCCCHHH
Q 000430 1200 KQSGYSTGCSAGDTVPYIICCEQGTSSGSSVGIAQRARHPDELKKGDGKWMIDIDYYASQQIHPVVSRLCASIEGTSPER 1279 (1517)
Q Consensus 1200 ~~~g~~~~~~~Gd~I~YVI~~~~~~~~~~~~~~~~RA~~P~ev~~~~~~l~iD~eYYl~~QI~p~v~Rl~~pI~g~~~~~ 1279 (1517)
+++|. .+.+|++|+|||+++.+ ..++++||++|+++.... ++++|++|||++||+||+.|||+||.+++.++
T Consensus 321 ~~~g~--~~~~G~rI~Yvi~~~~~-----~~~~~~ra~~~~~~~~~~-~~~iD~~yYi~~qi~~pl~ri~~~~~~~~~~~ 392 (400)
T cd05532 321 NKRGR--KVKAGDTIPYIICKDGS-----SKSLADRAYHPDEVKKNE-NLKIDIEYYLSQQILPPISRLCEPIEGTDAVR 392 (400)
T ss_pred HHcCC--CCCCCCEEEEEEEeCCC-----CCchhhhccCHHHHhhcc-CCCCChHHHHHHhhHHHHHHHHHhccCCCHHH
Confidence 99984 59999999999998532 246899999999998432 48999999999999999999999999999999
Q ss_pred HHHHhCCC
Q 000430 1280 LADCLGLD 1287 (1517)
Q Consensus 1280 la~~lGld 1287 (1517)
||+|||||
T Consensus 393 ~~~~~~~~ 400 (400)
T cd05532 393 LAECLGLD 400 (400)
T ss_pred HHHHhCCC
Confidence 99999996
No 13
>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=7.5e-85 Score=778.99 Aligned_cols=368 Identities=33% Similarity=0.546 Sum_probs=332.3
Q ss_pred CCCCceeeecccccccceEEEeeccCcchhHHHHhCccccccccCCC------CCcccCC-------CCCccCCcHHHHH
Q 000430 890 AYAGGLVLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVERSPD------GLVPHLP-------SSKTTGVLPELLK 956 (1517)
Q Consensus 890 ~Y~GGlVleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~d------~~v~~~p-------~~~~~GilP~iL~ 956 (1517)
+|+||+|++|++|||++||++|||+|||||||++|||||||+++..+ +.+...| ++.+.||||.+|+
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 69999999999999999999999999999999999999999987532 1122223 3568999999999
Q ss_pred HHHHHHHHHHHHHhhcch-hHHHhhHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHhc---
Q 000430 957 NLVQRRRMVKTWMKTASG-LKIQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAELITQQGREILRSTVDLVQNN--- 1032 (1517)
Q Consensus 957 ~Ll~~R~~vK~~mK~~~~-~~~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~~--- 1032 (1517)
.|++.|+++|+.||++++ .++.+||.+|+|+|++|||+|||+|++++||||.++|++||++||++|+.|++++++.
T Consensus 82 ~Ll~~R~~~K~~mk~~~d~~~~~~ld~~Q~AlKi~~NS~YG~~G~~~~r~~~~~~A~~iT~~GR~~l~~~~~~ie~~~~~ 161 (393)
T cd05533 82 ELLAARKRAKKDLKEETDPFKKAVLDGRQLALKISANSVYGFTGATVGKLPCLEISSSVTSFGRQMIEKTKKLVEEKYTK 161 (393)
T ss_pred HHHHHHHHHHHHHhhCCCHHHHHHHHHHHHhhheeeeecccccccccCCccchHHHHHHHHhHHHHHHHHHHHHHHhhcc
Confidence 999999999999998776 7889999999999999999999999999999999999999999999999999999873
Q ss_pred -----cCceEEEeeccceeeecCcccHHHHHHHHHHHHHHHhcccc-eeEEeeeeeeeeeeeeccceeeEEEeeecCCcc
Q 000430 1033 -----LNLEVIYGDTDSIMIHSGIDDIAKAKAIAGKVIQEVNKKYK-CLEIDLDGLYKRMLLLKKKKYAAVKVQFKDGMP 1106 (1517)
Q Consensus 1033 -----~g~~VIYGDTDSimI~~~~~~~~ea~~ig~~i~~~Vn~~~~-~leLE~E~vy~~~lLl~KKrYa~l~~~~~dG~~ 1106 (1517)
+|++|||||||||||+++..+.++++++|.+|++.||+.|+ +++||+|++|.++|+++||||||+.+. ++..
T Consensus 162 ~~g~~~~~~VIYGDTDSvfv~~~~~~~~~~~~~~~ei~~~i~~~~~~~i~Le~E~vy~~~ll~~KKrYag~~~~--~~~~ 239 (393)
T cd05533 162 ANGYSHDAKVIYGDTDSVMVKFGVSDVEEAMKLGKEAAEYVSKKFIKPIKLEFEKVYFPYLLINKKRYAGLLWT--NPDK 239 (393)
T ss_pred cccCCCceEEEecCCCceEEEcCCCCHHHHHHHHHHHHHHHHhcCCCCeEEeeHHHHHHHHHHHHhhheEEEee--cCCC
Confidence 28899999999999999988999999999999999999995 799999999999999999999999875 2333
Q ss_pred ceeEEEeeeeeeeCchhHhHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHhcCCCCccceEEeeccCCCCCCCCC
Q 000430 1107 YEVIERKGLDMVRRDWSLLSKEVGDFCLSQILSERSCEDVVESIHNSLMKVQEDMRSGQVALEKYVITKTLTKPPEAYPD 1186 (1517)
Q Consensus 1107 ~~~~e~KGle~vRRD~c~l~k~~~~~vl~~IL~~~~~e~~~~~i~~~l~~~~~~l~~g~v~l~~lvItk~LsK~~~~Y~~ 1186 (1517)
.+++++||++++|||||+|+|++++.+|+.||.+++.+++++.++ +++++|.+|++|+++|+|+++|+|.|++|..
T Consensus 240 ~~ki~~KGle~vRRD~~~~~k~~~~~vl~~il~~~~~~~~~~~~~----~~~~~l~~~~~~~~~l~i~k~l~k~~~~Y~~ 315 (393)
T cd05533 240 HDKMDTKGIETVRRDNCLLVQNVVETCLNKILIERDVEGAIEFVK----GVISDLLQNKIDISLLVITKALTKTADDYAG 315 (393)
T ss_pred CceeEEeceEEEcccchHHHHHHHHHHHHHHHhcCCHHHHHHHHH----HHHHHHHcCCCCHHHEEEEeeecCChhhcCC
Confidence 457999999999999999999999999999999999887766555 5667889999999999999999999999995
Q ss_pred CCCchHHHHHHHHHhcCCCCCCCCCCeeEEEEEeccCCCCCCCcCccccccCchhhhhcCCCCCCChHHHHhhCchHHHH
Q 000430 1187 AKNQPHVQVALRLKQSGYSTGCSAGDTVPYIICCEQGTSSGSSVGIAQRARHPDELKKGDGKWMIDIDYYASQQIHPVVS 1266 (1517)
Q Consensus 1187 ~k~~pHV~vA~rl~~~g~~~~~~~Gd~I~YVI~~~~~~~~~~~~~~~~RA~~P~ev~~~~~~l~iD~eYYl~~QI~p~v~ 1266 (1517)
.+|||+||+||+++|.+..+++|++|+|||+.+. ++..+++||++|+++.++ +++||++|||++||+||+.
T Consensus 316 --~~phv~~A~rl~~~~~g~~~~~G~rI~Yvi~~~~-----~~~~~~~~a~~~~~~~~~--~~~iD~~yYi~~qi~~pl~ 386 (393)
T cd05533 316 --KQAHVELAERMRKRDPGSAPNVGDRVPYVIIKGA-----KGAKAYEKAEDPIYVLEN--NIPIDTQYYLENQLSKPLL 386 (393)
T ss_pred --CCchHHHHHHHHhcCCCCCCCCCCEEEEEEEECC-----CCCcHHhhccCHHHHHhc--CCCCChHHHHHhcchHHHH
Confidence 5899999999999965567999999999999752 235678999999999976 4899999999999999999
Q ss_pred Hhhccc
Q 000430 1267 RLCASI 1272 (1517)
Q Consensus 1267 Rl~~pI 1272 (1517)
|||+||
T Consensus 387 ri~~~~ 392 (393)
T cd05533 387 RIFEPI 392 (393)
T ss_pred HHHhhh
Confidence 999997
No 14
>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=7.5e-79 Score=723.04 Aligned_cols=361 Identities=37% Similarity=0.625 Sum_probs=321.2
Q ss_pred CCCCCceeeecccccccceEEEeeccCcchhHHHHhCccccccccCCCCCcccCC------CCCccCCcHHHHHHHHHHH
Q 000430 889 PAYAGGLVLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVERSPDGLVPHLP------SSKTTGVLPELLKNLVQRR 962 (1517)
Q Consensus 889 ~~Y~GGlVleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~d~~v~~~p------~~~~~GilP~iL~~Ll~~R 962 (1517)
.+|+||+|++|++|||++ |++|||+|||||||++|||||||++...+.+.+..+ +..++||+|++|+.|++.|
T Consensus 2 ~~y~Gg~V~~P~~G~y~~-V~~lDf~SLYPSii~~~Ni~~~Ti~~~~~~~~~~~~~~~~~f~~~~~Gilp~il~~ll~~R 80 (371)
T cd05536 2 ESYEGGIVLEPEKGLHEN-IVVLDFSSLYPSIMIKYNISPDTLVREGCEDCDVEPQVGHKFRKDPPGFIPSVLEDLLEER 80 (371)
T ss_pred CCCCceEEeCCCCCCcCC-EEEEEcccccHHHHHHHCcChhhcCCCCccccccCCCCCcEEecCCCCchHHHHHHHHHHH
Confidence 369999999999999997 999999999999999999999999875432211112 4678999999999999999
Q ss_pred HHHHHHHhhcch--hHHHhhHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEe
Q 000430 963 RMVKTWMKTASG--LKIQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAELITQQGREILRSTVDLVQNNLNLEVIYG 1040 (1517)
Q Consensus 963 ~~vK~~mK~~~~--~~~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~~~g~~VIYG 1040 (1517)
+++|+.||+.++ .++++||.+|+|+|++|||+|||+|++++||||.++|++||+.||++|++|++++++ .|++||||
T Consensus 81 ~~~K~~mk~~~~~~~~~~~~d~~Q~AlKi~~NS~YG~~g~~~~r~~~~~~A~~iT~~GR~~l~~~~~~i~~-~g~~VIYg 159 (371)
T cd05536 81 RRIKEKMKKLDPESEEYKLLDERQRAIKILANSFYGYMGWANARWYCKECAEAVTAWGREYIKTTIKIAEE-KGFKVIYG 159 (371)
T ss_pred HHHHHHHhhCCCcHHHHHHHHHHHHHHHHHHhccccccccccccCCCHHHHHHHHHHHHHHHHHHHHHHHH-cCCEEEEE
Confidence 999999998765 689999999999999999999999999999999999999999999999999999986 89999999
Q ss_pred eccceeeecCcccHHHHHHHHHHHHHHHhcccceeEEeeeeeeeeeeeeccceeeEEEeeecCCccceeEEEeeeeeeeC
Q 000430 1041 DTDSIMIHSGIDDIAKAKAIAGKVIQEVNKKYKCLEIDLDGLYKRMLLLKKKKYAAVKVQFKDGMPYEVIERKGLDMVRR 1120 (1517)
Q Consensus 1041 DTDSimI~~~~~~~~ea~~ig~~i~~~Vn~~~~~leLE~E~vy~~~lLl~KKrYa~l~~~~~dG~~~~~~e~KGle~vRR 1120 (1517)
|||||||+++..+. +++.+.+++++||+.++ |+||+|++|.++++++||||||+. .+|+ +++||++++||
T Consensus 160 DTDSvfv~~~~~~~--~~~~~~~l~~~i~~~~~-i~le~E~vy~~~l~~~KKrY~g~~---~~g~----i~~KG~e~~Rr 229 (371)
T cd05536 160 DTDSLFVKIDGADA--VKKKVKKLLKYINEELP-LELEIEKFYKRGFFVTKKRYAGLT---EDGK----IDVVGLEVVRR 229 (371)
T ss_pred cCcccEEeecCchH--HHHHHHHHHHHHHhcCC-eeEEEeeeeHHHHHhhhceeEEEc---cCCe----EEEEeeeeEeC
Confidence 99999999886542 56677888899999996 999999999999999999999984 3665 78999999999
Q ss_pred chhHhHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHhcCCCCccceEEeeccCCCCCCCCCCCCchHHHHHHHHH
Q 000430 1121 DWSLLSKEVGDFCLSQILSERSCEDVVESIHNSLMKVQEDMRSGQVALEKYVITKTLTKPPEAYPDAKNQPHVQVALRLK 1200 (1517)
Q Consensus 1121 D~c~l~k~~~~~vl~~IL~~~~~e~~~~~i~~~l~~~~~~l~~g~v~l~~lvItk~LsK~~~~Y~~~k~~pHV~vA~rl~ 1200 (1517)
|||+|+|++++++|+.||.+++.+++++.++ ++.++|++|++|+++|+|+|+|+|++++|.. .+||+++|+||+
T Consensus 230 D~~~~~k~~~~~~l~~ll~~~~~~~~~~~~~----~~~~~l~~g~~~~~dlii~k~l~k~~~~Y~~--~~~hv~~a~~l~ 303 (371)
T cd05536 230 DWSEIAKETQARVLEAILKEGDVEEAVKIVK----EVIEKLKRGEVPPEKLVIWKQLTKDLSEYKA--TGPHVAAAKKLA 303 (371)
T ss_pred ccHHHHHHHHHHHHHHHHcCCCHHHHHHHHH----HHHHHHHcCCCCHHHeEEeHHhcCCHHHhCC--CCcHHHHHHHHH
Confidence 9999999999999999999999988776554 5677889999999999999999999999985 689999999999
Q ss_pred hcCCCCCCCCCCeeEEEEEeccCCCCCCCcCccccccCchhhhhcCCCCCCChHHHHhhCchHHHHHhhcccCCCCHHHH
Q 000430 1201 QSGYSTGCSAGDTVPYIICCEQGTSSGSSVGIAQRARHPDELKKGDGKWMIDIDYYASQQIHPVVSRLCASIEGTSPERL 1280 (1517)
Q Consensus 1201 ~~g~~~~~~~Gd~I~YVI~~~~~~~~~~~~~~~~RA~~P~ev~~~~~~l~iD~eYYl~~QI~p~v~Rl~~pI~g~~~~~l 1280 (1517)
++|. .+++|++|+|||++++ .++++||++++++. . ++.+|++||+++||+||+.|||+++ |.|.+.|
T Consensus 304 ~~g~--~~~~G~rI~Yvi~~~~-------~~~~dr~~p~~~~~-~--~~~iD~~yYi~~qi~~pl~ril~~~-g~~~~~l 370 (371)
T cd05536 304 KRGY--KVRPGTKIGYVIVKGS-------GKISDRAYPYDMVD-E--KHKYDAEYYIDNQVLPAVLRILEAF-GYKEEDL 370 (371)
T ss_pred hcCC--CCCCCCEEEEEEEECC-------CcccccccCHHHhc-c--CCCCCHHHHHHHhcHHHHHHHHHHh-CCCHHHc
Confidence 9985 4999999999999742 35789999887764 2 4899999999999999999999975 6665543
No 15
>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=2.4e-78 Score=741.91 Aligned_cols=434 Identities=37% Similarity=0.615 Sum_probs=368.4
Q ss_pred cccchhHHhHHHHHHhcCeeccCccchhhHhhhhhcccCCCcccccccccccccCCCCCCCCccccccCCCCCCCCCcee
Q 000430 817 ARAQRVEYLLLHAFRAKKYIVPDKFTYVKETKMAKQRSNHGVEDRNVEELTNEDANFDNDTSHNDHRKGKRGPAYAGGLV 896 (1517)
Q Consensus 817 ~r~~r~E~LLLhef~~~~yI~Pdk~~~~~~~~~~~~r~~~~~e~~~~~~~~~~d~~~~~~~~~~~~~~~~~k~~Y~GGlV 896 (1517)
|++.|+|++|||+++++||++|++........ .....+++|+||+|
T Consensus 1 gq~~~v~~~ll~~~~~~~~~~p~~~~~~~~~~----------------------------------~~~~~~~~y~Gg~V 46 (466)
T PF00136_consen 1 GQQIRVESLLLREAHRRNYIIPSKKERPEGFT----------------------------------SKSEQKEKYEGGYV 46 (466)
T ss_dssp -CHHHHHHHHHHHHHHTTBE-B-HHHHHHTHH----------------------------------HHHHHCTCEEEC-B
T ss_pred CchhhHHHHHHHHHHHCCEEeeCCcccccccc----------------------------------ccccccccccccee
Confidence 67899999999999999999998753211000 00112468999999
Q ss_pred eecccccccceEEEeeccCcchhHHHHhCccccccccCC---C-----C---C-cc----------cCCCCCccCCcHHH
Q 000430 897 LEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVERSP---D-----G---L-VP----------HLPSSKTTGVLPEL 954 (1517)
Q Consensus 897 leP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~---d-----~---~-v~----------~~p~~~~~GilP~i 954 (1517)
++|++|||+++|.+|||+|||||||++|||||+|++... . . + .+ ..+...+.||||++
T Consensus 47 ~~P~~G~~~~v~~~lDF~SLYPsii~~~Ni~~~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~gilp~~ 126 (466)
T PF00136_consen 47 LEPKPGLYENVVSVLDFASLYPSIIIAYNICPETIVDDDECKDNEVSPDIKYDYGPFIVGSPVGVRFVKKGVRPGILPEI 126 (466)
T ss_dssp E--HSSEEEEEEEEEEETTHHHHHHHHTTHSTTTBTCTTHCSSEEEHTTCCCCTCEEEECSCCSEEEESSTCSHHHHHHH
T ss_pred eccccccccCceeeeecccccHHHHHhccCCcceEecchhhhcccccccccccccceeecCCceeeecccCcccccChHH
Confidence 999999999966689999999999999999999999764 0 0 0 11 12356789999999
Q ss_pred HHHHHHHHHHHHHHHhhcch-hH-HHhhHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHhc
Q 000430 955 LKNLVQRRRMVKTWMKTASG-LK-IQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAELITQQGREILRSTVDLVQNN 1032 (1517)
Q Consensus 955 L~~Ll~~R~~vK~~mK~~~~-~~-~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~~ 1032 (1517)
|+.|++.|+++|+.|++.++ .+ +..||.+|+|+||+|||+|||+|+++||||++++|++||+.||++|+.|++++++.
T Consensus 127 l~~~l~~R~~~K~~~~~~~~~~~~~~~~d~~Q~a~Ki~~NS~YG~~g~~~~r~~~~~~a~~iT~~GR~~i~~~~~~~~~~ 206 (466)
T PF00136_consen 127 LEELLEKRKEIKKLMKKAKDPDEEYAILDARQLALKIIANSFYGYLGAKNSRFYCKEIAEAITATGREIIKKAIEIIEEM 206 (466)
T ss_dssp HHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHHHHHHHHHTTHHHHHTSTTSTT--HHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhhhhhhhccchhhHHHHHHHHHhhcccceeeEeecCccccchhhhhhhheehhhhHhhHHHHHHHHHhh
Confidence 99999999999999999877 44 89999999999999999999999999999999999999999999999999999972
Q ss_pred -cCceEEEeeccceeeecCcccHHHHHHHHHHHHHHHhccc--ceeEEeeeeeeeeeeeeccceeeEEEeeecCCcccee
Q 000430 1033 -LNLEVIYGDTDSIMIHSGIDDIAKAKAIAGKVIQEVNKKY--KCLEIDLDGLYKRMLLLKKKKYAAVKVQFKDGMPYEV 1109 (1517)
Q Consensus 1033 -~g~~VIYGDTDSimI~~~~~~~~ea~~ig~~i~~~Vn~~~--~~leLE~E~vy~~~lLl~KKrYa~l~~~~~dG~~~~~ 1109 (1517)
.|++|||||||||||.++..+.+++.+.+.+++++|++.+ .+++||+|++|.+++|+.|||||++.+. .+|+..++
T Consensus 207 ~~g~~viYgDTDSv~v~~~~~~~~~~~~~~~~l~~~i~~~~~~~~i~le~E~~y~~~~l~~KKrY~~~~~~-~~~~~~~~ 285 (466)
T PF00136_consen 207 EFGFEVIYGDTDSVFVQFPDSDKEDAKKKGEELAKEINSELFPSPIKLEFEKVYRWFILLAKKRYAGLKYD-NEGKKKGK 285 (466)
T ss_dssp SCTEEEEEEETTEEEEECTTCHHHHHHHHHHHHHHHHHHHSCSTTHEEEEEEEEEEEEEEETTEEEEEETC-CCEEETSE
T ss_pred cccceEEEEcccceEEecCCCcHHHHHHHHHHHHHHHhhhhcCCCceeeecccEEEEEEEccCCccceeee-ecccccce
Confidence 3999999999999999998888889999999999999874 5799999999999999999999999864 35554467
Q ss_pred EEEeeeeeeeCchhHhHHHHHHHHHHHHhccCCHHHHHHHHH----HHHHHHHHHHhcCCCCccceEEeeccCCCCCCCC
Q 000430 1110 IERKGLDMVRRDWSLLSKEVGDFCLSQILSERSCEDVVESIH----NSLMKVQEDMRSGQVALEKYVITKTLTKPPEAYP 1185 (1517)
Q Consensus 1110 ~e~KGle~vRRD~c~l~k~~~~~vl~~IL~~~~~e~~~~~i~----~~l~~~~~~l~~g~v~l~~lvItk~LsK~~~~Y~ 1185 (1517)
+++||++++|||||+|+|++++.+|+.||.+.+.+++.+.++ ++|....++++++.+++++|+++++++|++++|.
T Consensus 286 ~~~kG~e~~RrD~~~~~k~~~~~~l~~il~~~~~~~~~~~i~~~~~e~l~~~~~~l~~~~~~~~~li~~k~l~k~~~~Y~ 365 (466)
T PF00136_consen 286 IKIKGLELVRRDWCPFVKDIQREVLEIILKGKDPEEAVEKIKEVIIEYLKKYIEKLRNGEVPIEDLIISKRLSKDLEEYK 365 (466)
T ss_dssp EEEESSSGGSSSSTHHHHHHHHHHHHHHHTTCCHHHHHHHHHHHHHHHHHHHHHHHHTTCSHGGGGHEEEECCSCGGGCS
T ss_pred eEEeccccccCchhHHHHHHHHHHHHHHhCCCCHHHHHHHHHHHHHHHHHHhhccccccchhHHHHHHhhhccCCccccc
Confidence 999999999999999999999999999999999998866555 6777778889999999999999999999999999
Q ss_pred CCCCchHHHHHHHHHhcCCCCCCCCCCeeEEEEEeccCCCCCCCcCccccccCchhhhhcCCCCCCChHHHHhhCchHHH
Q 000430 1186 DAKNQPHVQVALRLKQSGYSTGCSAGDTVPYIICCEQGTSSGSSVGIAQRARHPDELKKGDGKWMIDIDYYASQQIHPVV 1265 (1517)
Q Consensus 1186 ~~k~~pHV~vA~rl~~~g~~~~~~~Gd~I~YVI~~~~~~~~~~~~~~~~RA~~P~ev~~~~~~l~iD~eYYl~~QI~p~v 1265 (1517)
. ...|||.+|.||+++|....++.||||+|||+..+. ......+.+++++|+++.+++ +.||++||+++||.||+
T Consensus 366 ~-~~~~hv~~a~rl~~~~~~~~p~~GdrI~Yvi~~~~~--~~~~~~~~~~~~~~~~~~~~~--~~iD~~yYi~~ql~~pl 440 (466)
T PF00136_consen 366 K-KTPPHVRAAKRLKKRGPGYKPQKGDRIPYVIVKGPS--KKKGPKPSERAEDPEYVKENN--LPIDYEYYIEKQLLPPL 440 (466)
T ss_dssp S-SHHHHHHHHHHHHCTTHCTCTGTTSEEEEEEBSSSS--TTHCEEESCSEETTTHHHHTT--S-BSHHHHHHTTHHHHH
T ss_pred c-cCCcHHHHHHHHHhhhcccCCcCCCEeEEEEEcCcc--ccccccchhhccChhhhhccC--CCcchHHHHhhccHHHH
Confidence 6 445699999999999844668899999999997531 123456789999999988764 89999999999999999
Q ss_pred HHhhcccCCCCHHHHHHHhCCCCcc
Q 000430 1266 SRLCASIEGTSPERLADCLGLDPSK 1290 (1517)
Q Consensus 1266 ~Rl~~pI~g~~~~~la~~lGld~~~ 1290 (1517)
.|||+++.+.+...+++||+...++
T Consensus 441 ~ril~~~~~~~~~~~~~~~~~~~~~ 465 (466)
T PF00136_consen 441 ERILEPLGWNDVEKKESCLAIFFRK 465 (466)
T ss_dssp HHHHHTCTTTSHHHCCCHHHTTS-G
T ss_pred HHHHHHhcCCcHHHHHHHhcccccC
Confidence 9999999999999999999987654
No 16
>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=4.6e-75 Score=688.42 Aligned_cols=340 Identities=31% Similarity=0.513 Sum_probs=294.7
Q ss_pred CCCCceeeecccccccceEEEeeccCcchhHHHHhCccccccccCCCC-----CcccCC---CCCccCCcHHHHHHHHHH
Q 000430 890 AYAGGLVLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVERSPDG-----LVPHLP---SSKTTGVLPELLKNLVQR 961 (1517)
Q Consensus 890 ~Y~GGlVleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~d~-----~v~~~p---~~~~~GilP~iL~~Ll~~ 961 (1517)
.++||+|++|++|||++ |++|||+|||||||++|||||+|++...+. .++..+ +..+.||||++|+.|++.
T Consensus 2 ~~~Gg~V~eP~~G~y~~-V~vlDF~SLYPSII~~~Ni~p~t~~~~~~~~~~~~~~~~~~~~~f~~~~Gilp~~l~~l~~~ 80 (371)
T cd05537 2 SSPGGYVMDSKPGLYKN-VLVLDFKSLYPSIIRTFLIDPLGLIEGLKAPDPEDLIPGFLGARFSREKHILPDLIARLWAA 80 (371)
T ss_pred CCCCcEEeCCCCCccCc-eEEEEcccccHHHHHHhCCCCceecCCCCCCCccccccCCCCCeEecCCCchHHHHHHHHHH
Confidence 46799999999999997 999999999999999999999998764321 122211 235579999999999999
Q ss_pred HHHHHHHHhhcchhHHHhhHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEee
Q 000430 962 RRMVKTWMKTASGLKIQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAELITQQGREILRSTVDLVQNNLNLEVIYGD 1041 (1517)
Q Consensus 962 R~~vK~~mK~~~~~~~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~~~g~~VIYGD 1041 (1517)
|+++|+.|+. .+|+|+|++|||+|||+|++++||||+++|++||+.||++|+.|++++++ +|++|||||
T Consensus 81 R~~~K~~~~~----------~~q~AlKi~~Ns~YG~~g~~~~r~~~~~~A~~iT~~GR~~l~~~~~~~e~-~g~~ViYgD 149 (371)
T cd05537 81 RDEAKREKNA----------PLSQAIKIIMNSFYGVLGSTGCRFFDPRLASSITLRGHEIMKQTRAWIEQ-QGYQVIYGD 149 (371)
T ss_pred HHHHHHhccH----------HHHHhHhhheecceeecccccccccChHHHHHHHHHHHHHHHHHHHHHHH-cCCEEEEec
Confidence 9999998753 47999999999999999999999999999999999999999999999986 899999999
Q ss_pred ccceeeecCc-ccHHHHHHHHHHHHHHHhcccc-----------eeEEeeeeeeeeeeee--------ccceeeEEEeee
Q 000430 1042 TDSIMIHSGI-DDIAKAKAIAGKVIQEVNKKYK-----------CLEIDLDGLYKRMLLL--------KKKKYAAVKVQF 1101 (1517)
Q Consensus 1042 TDSimI~~~~-~~~~ea~~ig~~i~~~Vn~~~~-----------~leLE~E~vy~~~lLl--------~KKrYa~l~~~~ 1101 (1517)
||||||+++. .+.+++.++|.++++.||+.|+ +++||||++|.++||+ +||||||+.+.
T Consensus 150 TDSvfV~~~~~~~~~~~~~~~~~l~~~In~~~~~~~~~~~~~~~~l~Le~Ekvy~~~ll~~~~~~~~~~KKrYag~~~~- 228 (371)
T cd05537 150 TDSTFVWLGEELDAAEAQAIGKELASQINQWWAQKLKEEFGLESFLEIEFETHYSRFFMPTIRGSDEGSKKRYAGLKST- 228 (371)
T ss_pred CCceEEecCCCCCHHHHHHHHHHHHHHHHHHHHHhhhhhhcCCCCceEEEeeeeeeeeeeccccccccccceEEEEEEE-
Confidence 9999999986 5788999999999999998662 5899999999999997 79999999864
Q ss_pred cCCccceeEEEeeeeeeeCchhHhHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHhcCCCCccceEEeeccCCCC
Q 000430 1102 KDGMPYEVIERKGLDMVRRDWSLLSKEVGDFCLSQILSERSCEDVVESIHNSLMKVQEDMRSGQVALEKYVITKTLTKPP 1181 (1517)
Q Consensus 1102 ~dG~~~~~~e~KGle~vRRD~c~l~k~~~~~vl~~IL~~~~~e~~~~~i~~~l~~~~~~l~~g~v~l~~lvItk~LsK~~ 1181 (1517)
+|. +++++||+|+||||||+|+|++++++|+.||.+++.+ +++.+++++|++|++| ++|+|+|+|+|+|
T Consensus 229 -~~~--~~i~~KGle~vRrD~~~l~k~~~~~vl~~il~~~~~~-------~~~~~~~~~l~~g~~~-~~lvi~k~L~k~~ 297 (371)
T cd05537 229 -DGG--DELVFKGLETVRSDWTPLARQFQKELYERVFNDEPYE-------GFIKETVEELLAGELD-ELLVYRKRLRRPL 297 (371)
T ss_pred -CCC--cEEEeecceeEecchHHHHHHHHHHHHHHHhcCCCHH-------HHHHHHHHHHHcCCCc-hHhEEehhcCCCH
Confidence 443 4689999999999999999999999999999998754 4455667789999999 9999999999999
Q ss_pred CCCCCCCCchHHHHHHHHHhcCCC-CCCCCCCeeEEEEEeccCCCCCCCcCccccccCchhhhhcCCCCCCChHHHHhhC
Q 000430 1182 EAYPDAKNQPHVQVALRLKQSGYS-TGCSAGDTVPYIICCEQGTSSGSSVGIAQRARHPDELKKGDGKWMIDIDYYASQQ 1260 (1517)
Q Consensus 1182 ~~Y~~~k~~pHV~vA~rl~~~g~~-~~~~~Gd~I~YVI~~~~~~~~~~~~~~~~RA~~P~ev~~~~~~l~iD~eYYl~~Q 1260 (1517)
++|+. +++|||++|++|+++|.. ..+..||+|+||||.+ ++ .|.+ .+ +++||++|||++|
T Consensus 298 ~~Y~~-~~~phv~aa~~~~~~~~~~~~~~~gd~I~YVi~~~-g~-------------~~~~--~~--~~~iD~~yYi~~q 358 (371)
T cd05537 298 SEYTK-NVPPHVQAARLADQINRELGRPRQYQWIEYVITVN-GP-------------EPLE--YR--TSPLDYQHYIDKQ 358 (371)
T ss_pred HHcCC-CCCcHHHHHHHHHhcCCccCCCCCCCEEEEEEecC-Cc-------------chHh--hc--CCCCCHHHHHHhc
Confidence 99985 578999999999999853 2357899999999973 11 1221 12 3899999999999
Q ss_pred chHHHHHhhccc
Q 000430 1261 IHPVVSRLCASI 1272 (1517)
Q Consensus 1261 I~p~v~Rl~~pI 1272 (1517)
|+|+++||++++
T Consensus 359 i~p~~~ril~~~ 370 (371)
T cd05537 359 LKPIADSILPFL 370 (371)
T ss_pred cHHHHHHHHHhc
Confidence 999999999864
No 17
>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=3.2e-73 Score=670.95 Aligned_cols=349 Identities=30% Similarity=0.471 Sum_probs=299.6
Q ss_pred CCCCCCCceeeecccccccceEEEeeccCcchhHHHHhCccccccccCCCC----CcccCC---CCCccCCcHHHHHHHH
Q 000430 887 RGPAYAGGLVLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVERSPDG----LVPHLP---SSKTTGVLPELLKNLV 959 (1517)
Q Consensus 887 ~k~~Y~GGlVleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~d~----~v~~~p---~~~~~GilP~iL~~Ll 959 (1517)
+..+|+||+|++|++|||++ |++|||+|||||||++|||||+|++++.+. .+|..+ +..+.||+|++|+.|+
T Consensus 9 ~~~~y~Gg~V~~P~~G~y~~-V~~lDF~SLYPSIi~~~Ni~~~T~~~~~~~~~~~~~p~~~~~~~~~~~Gilp~il~~L~ 87 (372)
T cd05530 9 KGKKYRGAIVLEPPPGIFFN-VVVLDFASLYPSIIKVWNLSYETVNCPHCECKTNEVPEVGHWVCKKRPGITSQIIGLLR 87 (372)
T ss_pred cCCCCCCCEeecCCCCcccc-EEEEEcccccHHHHHHhCCChhhcccCcccccceecCCCCceEEecCCCccHHHHHHHH
Confidence 34689999999999999998 999999999999999999999999975432 133322 4678999999999999
Q ss_pred HHHHHHHH-HHhhcc-h-hHHHhhHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHhccCce
Q 000430 960 QRRRMVKT-WMKTAS-G-LKIQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAELITQQGREILRSTVDLVQNNLNLE 1036 (1517)
Q Consensus 960 ~~R~~vK~-~mK~~~-~-~~~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~~~g~~ 1036 (1517)
+.|+++|+ +|+..+ + .++.+||++|+|+|++|||+|||+|+.++||||+++|++||+.||++|++|++++++ .|++
T Consensus 88 ~~R~~~~k~~~k~~~~d~~~~~~ld~~Q~alKi~~NS~YG~~g~~~~~~~~~~~A~~it~~GR~~l~~~~~~~~~-~g~~ 166 (372)
T cd05530 88 DLRVKIYKKKAKDKSLDEEMRQWYDVVQSAMKVFINASYGVFGAENFPLYCPPVAESTTALGRYIITSTIKKARE-LGLK 166 (372)
T ss_pred HHHHHHHHHHhhCCCCCHHHHHHHHHHHHHHHHHHhccccccccccCCCCcHHHHHHHHHHHHHHHHHHHHHHHH-CCcE
Confidence 99998754 455544 3 789999999999999999999999999999999999999999999999999999986 8999
Q ss_pred EEEeeccceeeecCcccHHHHHHHHHHHHHHHhcccceeEEeeeeeeeeeeee-ccceeeEEEeeecCCccceeEEEeee
Q 000430 1037 VIYGDTDSIMIHSGIDDIAKAKAIAGKVIQEVNKKYKCLEIDLDGLYKRMLLL-KKKKYAAVKVQFKDGMPYEVIERKGL 1115 (1517)
Q Consensus 1037 VIYGDTDSimI~~~~~~~~ea~~ig~~i~~~Vn~~~~~leLE~E~vy~~~lLl-~KKrYa~l~~~~~dG~~~~~~e~KGl 1115 (1517)
|||||||||||+.+. .+.+ .++.++|++.+ +++||+|++|++++|. +||||||+. .+|+ +++||+
T Consensus 167 VIYGDTDSvfv~~~~--~~~~----~~i~~~i~~~~-~i~le~E~~y~~~ll~~~KKrY~g~~---~~gk----i~~KGi 232 (372)
T cd05530 167 VLYGDTDSLFLWNPP--QEQL----EDLVEWVEKEL-GLDLELDKEYRYVVFSGLKKNYLGVT---KDGS----VDIKGL 232 (372)
T ss_pred EEEEeccceEEecCC--hhHH----HHHHHHHhhcc-CceEEEEEEEeeeeeccccccEEEEe---cCCc----EEEEeE
Confidence 999999999998763 2223 45666777777 5999999999987775 799999974 4665 799999
Q ss_pred eeeeCchhHhHHHHHHHHHHHHhccCCHH---HHHHHHHHHHHHHHHHHhcCCCCccceEEeeccCCCCCCCCCCCCchH
Q 000430 1116 DMVRRDWSLLSKEVGDFCLSQILSERSCE---DVVESIHNSLMKVQEDMRSGQVALEKYVITKTLTKPPEAYPDAKNQPH 1192 (1517)
Q Consensus 1116 e~vRRD~c~l~k~~~~~vl~~IL~~~~~e---~~~~~i~~~l~~~~~~l~~g~v~l~~lvItk~LsK~~~~Y~~~k~~pH 1192 (1517)
+++|||||+|+|++++++|+.||.+++++ ++++.+++++.+..++|++|++|+++|+|+++|+|+|++|.. ..+||
T Consensus 233 e~~RrD~~~~~k~~~~~vl~~ll~~~~~~~~~~~~~~i~~~~~~~~~~l~~g~~~~~~lvi~k~L~K~~~~Y~~-~~~ph 311 (372)
T cd05530 233 LGKKRNTPEFVKELFYEVIEILSAVNSPEDFEKAREKIRDIVKGVYKRLKKKEYTLDQLAFKVMLSKPPEEYTK-NTPQH 311 (372)
T ss_pred EEEeCCchHHHHHHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHHHHHHHcCCCCHHHheeehhccCCHHHhcC-CCCHH
Confidence 99999999999999999999999987765 466678899999999999999999999999999999999986 46899
Q ss_pred HHHHHHHHhcCCCCCCCCCCeeEEEEEeccCCCCCCCcCccccccCchhhhhcCCCCCCChHHHHhhCchHHHHHhhc
Q 000430 1193 VQVALRLKQSGYSTGCSAGDTVPYIICCEQGTSSGSSVGIAQRARHPDELKKGDGKWMIDIDYYASQQIHPVVSRLCA 1270 (1517)
Q Consensus 1193 V~vA~rl~~~g~~~~~~~Gd~I~YVI~~~~~~~~~~~~~~~~RA~~P~ev~~~~~~l~iD~eYYl~~QI~p~v~Rl~~ 1270 (1517)
|.||++|.++|. .+++|++|+|||+.+.++ . .|.+.... .+||++|||+ +|.+++++|++
T Consensus 312 v~aa~~~~~~g~--~~~~G~~I~YVi~~~~~~-----~-------~p~~~~~~---~~iD~~yYi~-~l~~a~~~i~~ 371 (372)
T cd05530 312 VKAARQLEKYGR--NVEAGDIISYVKVKGKEG-----V-------KPVQLARL---DEVDVEKYVE-IMRSTLEQILG 371 (372)
T ss_pred HHHHHHHHhcCC--CCCCCCEEEEEEEeCCCC-----C-------chhhhccC---CCCCHHHHHH-HHHHHHHHHhc
Confidence 999999999885 499999999999975321 1 24443222 4799999998 59999999875
No 18
>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=4.1e-70 Score=638.55 Aligned_cols=312 Identities=36% Similarity=0.517 Sum_probs=275.6
Q ss_pred CCCCceeeecccccccceEEEeeccCcchhHHHHhCccccccccCCCCC-------cccCCCCCccCCcHHHHHHHHHHH
Q 000430 890 AYAGGLVLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVERSPDGL-------VPHLPSSKTTGVLPELLKNLVQRR 962 (1517)
Q Consensus 890 ~Y~GGlVleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~d~~-------v~~~p~~~~~GilP~iL~~Ll~~R 962 (1517)
+|+||+|++|++|+|++ |++|||+|||||||++|||||+|++...+.. +...-+..++||+|.+|+.|++.|
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 9999999999999999999999998743211 111125678999999999999999
Q ss_pred HHHHHHHhhcch--hHHHhhHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEe
Q 000430 963 RMVKTWMKTASG--LKIQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAELITQQGREILRSTVDLVQNNLNLEVIYG 1040 (1517)
Q Consensus 963 ~~vK~~mK~~~~--~~~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~~~g~~VIYG 1040 (1517)
+++|+.||+.++ .++.+||.+|+|+|++|||+|||+|+++|||||+++|++||+.||++|++|++++++ .|++||||
T Consensus 81 ~~~K~~mk~~~~~~~~~~~~d~~Q~AlKi~~NS~YG~~G~~~~r~~~~~~A~~IT~~GR~~l~~~~~~ie~-~g~~VIYG 159 (323)
T cd00145 81 DEAKKRMKAAKLAPEERVLYDNRQQALKVLANSFYGYLGAKFFRFYDPEVAASITSFGREIIQDTIALVEE-HGARVIYG 159 (323)
T ss_pred HHHHHHHhhCcCCHHHHHHHHHHhhhhheeeecceeecccccccCCChHHHHHHHHHHHHHHHHHHHHHHH-cCCEEEEE
Confidence 999999998774 789999999999999999999999999999999999999999999999999999986 89999999
Q ss_pred eccceeeecCc-ccHHHHHHHHHHHHHHHhcccceeEEeeeeeeeeeeeeccceeeEEEeeecCCccceeEEEeeeeeee
Q 000430 1041 DTDSIMIHSGI-DDIAKAKAIAGKVIQEVNKKYKCLEIDLDGLYKRMLLLKKKKYAAVKVQFKDGMPYEVIERKGLDMVR 1119 (1517)
Q Consensus 1041 DTDSimI~~~~-~~~~ea~~ig~~i~~~Vn~~~~~leLE~E~vy~~~lLl~KKrYa~l~~~~~dG~~~~~~e~KGle~vR 1119 (1517)
|||||||+++. .+.+++.++|+++.++| ....+|+||+|++|.++|+++||||||+.++. |+..+++++||+|+||
T Consensus 160 DTDSifv~~~~~~~~~~~~~~~~~~~~~i-~~~~~i~le~E~vy~~~ll~~KKrYag~~~~~--~~~~~~~~~KG~e~vR 236 (323)
T cd00145 160 DTDSIFVSLPKMGTKEDAIKEGREILQEL-ADEHLLELEFEKVYLPFFLGKKKRYAGLDIWK--GQDEGKIDIKGLETRR 236 (323)
T ss_pred CCCceEEEeCCCCCHHHHHHHHHHHHHHh-CCCCCeEEEEchhhHHHHHhhhhhEEEEEEEc--CCCCceEEEEcceEEe
Confidence 99999999987 78999999999999999 34468999999999999999999999998752 4444679999999999
Q ss_pred CchhHhHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHhcCCCCccceEEeeccCCCCCCCCCCCCchHHHHHHHH
Q 000430 1120 RDWSLLSKEVGDFCLSQILSERSCEDVVESIHNSLMKVQEDMRSGQVALEKYVITKTLTKPPEAYPDAKNQPHVQVALRL 1199 (1517)
Q Consensus 1120 RD~c~l~k~~~~~vl~~IL~~~~~e~~~~~i~~~l~~~~~~l~~g~v~l~~lvItk~LsK~~~~Y~~~k~~pHV~vA~rl 1199 (1517)
||||+|+|++++++|+.||.+ +++++.+++++.++
T Consensus 237 rD~~~~~k~~~~~vl~~ll~~---~~~~~~v~~~~~~l------------------------------------------ 271 (323)
T cd00145 237 RDSPPLVKKFQKEVLELILEE---ERKVEAVKEYIDEL------------------------------------------ 271 (323)
T ss_pred cCcHHHHHHHHHHHHHHHHcC---CchHHHHHHHHHHh------------------------------------------
Confidence 999999999999999999996 44566666655443
Q ss_pred HhcCCCCCCCCCCeeEEEEEeccCCCCCCCcCccccccCchhhhhcCCCCCCChHHHHhhCchHHHHHhhc
Q 000430 1200 KQSGYSTGCSAGDTVPYIICCEQGTSSGSSVGIAQRARHPDELKKGDGKWMIDIDYYASQQIHPVVSRLCA 1270 (1517)
Q Consensus 1200 ~~~g~~~~~~~Gd~I~YVI~~~~~~~~~~~~~~~~RA~~P~ev~~~~~~l~iD~eYYl~~QI~p~v~Rl~~ 1270 (1517)
|+|+|||+++. .+.++.+||++|+++++. +++||++||+++||+||+.||++
T Consensus 272 ------------~~i~yvi~~~~-----~~~~~~~ra~~~~~~~~~--~~~iD~~yY~~~~~~~~~~ri~~ 323 (323)
T cd00145 272 ------------DKVKYVVTRGG-----KGVPDYERADPPLEDLDK--RHRIDYEYYLERLLQPPLERIFE 323 (323)
T ss_pred ------------ccccEEEEcCC-----CCCCcccccCChhhhccc--CCCCChHHHHHhccHhHHHHhcC
Confidence 89999999742 235667999999988754 48999999999999999999974
No 19
>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=3.1e-69 Score=635.40 Aligned_cols=334 Identities=27% Similarity=0.446 Sum_probs=286.6
Q ss_pred CCCCCceeeecccccccceEEEeeccCcchhHHHHhCccccccccCCCCCcccC-----CCCCccCCcHHHHHHHHHHHH
Q 000430 889 PAYAGGLVLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVERSPDGLVPHL-----PSSKTTGVLPELLKNLVQRRR 963 (1517)
Q Consensus 889 ~~Y~GGlVleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~d~~v~~~-----p~~~~~GilP~iL~~Ll~~R~ 963 (1517)
.+|+||+|++|++|||++ |++|||+|||||||++|||||+|+++..+...+.. -+.++.||+|.+|+.|+++|.
T Consensus 3 ~~~~Gg~V~~p~~G~~~~-V~~lDF~SLYPSii~~~ni~~~ti~~~~~~~~~~~~~~~~~~~~~~gilp~~l~~l~~~R~ 81 (352)
T cd05531 3 LADRGGLVFQPEPGLYEN-VAQIDFSSMYPSIIVKYNISPETINCRCCECRDHVYLGHRICLKRRGFLPEVLEPLLERRL 81 (352)
T ss_pred cCCCCcEEecCCCCccCc-eEEEEccccchHHHHHhCCChhhccccCcccccCCCCCceEecCCCCchHHHHHHHHHHHH
Confidence 369999999999999998 99999999999999999999999986543221111 156899999999999999999
Q ss_pred HHHHHHhhcchhHHHhhHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEeecc
Q 000430 964 MVKTWMKTASGLKIQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAELITQQGREILRSTVDLVQNNLNLEVIYGDTD 1043 (1517)
Q Consensus 964 ~vK~~mK~~~~~~~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~~~g~~VIYGDTD 1043 (1517)
++|+.||+.++ +|.+|+|+|++|||+|||||+++||||+.++|++||+.||++|++|++++++ +|++|||||||
T Consensus 82 ~~K~~~k~~~~-----~d~~q~AlKi~~NS~YGylG~~~~~f~~~~~A~~vT~~GR~~L~~~~~~~e~-~g~~VIygDTD 155 (352)
T cd05531 82 EYKRLKKEEDP-----YAGRQKALKWILVTSFGYLGYKNAKFGRIEVHEAITAYGRKILLRAKEIAEE-MGFRVLHGIVD 155 (352)
T ss_pred HHHHHhhcCCC-----chHHHhhheeeeecccccccccccccCChHHHHHHHHHHHHHHHHHHHHHHH-cCCEEEEEccc
Confidence 99999997653 3999999999999999999999999999999999999999999999999986 89999999999
Q ss_pred ceeeecCcccHHHHHHHHHHHHHHHhcccceeEEeeeeeeeeeeee-------ccceeeEEEeeecCCccceeEEEeeee
Q 000430 1044 SIMIHSGIDDIAKAKAIAGKVIQEVNKKYKCLEIDLDGLYKRMLLL-------KKKKYAAVKVQFKDGMPYEVIERKGLD 1116 (1517)
Q Consensus 1044 SimI~~~~~~~~ea~~ig~~i~~~Vn~~~~~leLE~E~vy~~~lLl-------~KKrYa~l~~~~~dG~~~~~~e~KGle 1116 (1517)
||||+.+. .. .+++++|++.+ +++|++|++|.+++|+ .||||+|+. .+|+ +++||++
T Consensus 156 Svfv~~~~----~~----~~~~~~i~~~~-~i~l~le~~y~~~~~~~~~~~~~~kKrY~g~~---~~g~----i~~KG~e 219 (352)
T cd05531 156 SLWIQGRG----DI----EELAREIEERT-GIPLKLEGHYDWIVFLPERDGLGAPNRYFGRL---SDGE----MKVRGIE 219 (352)
T ss_pred cceeecCc----hH----HHHHHHHHHhc-CCceEEEEEEEEEEeeccccccCcceeEEEec---CCCc----EEEEeeE
Confidence 99999732 12 24556666666 4889999999998765 589999985 3665 7899999
Q ss_pred eeeCchhHhHHHHHHHHHHHHhccCCHHHHH---HHHHHHHHHHHHHHhcCCCCccceEEeeccCCCCCCCCCCCCchHH
Q 000430 1117 MVRRDWSLLSKEVGDFCLSQILSERSCEDVV---ESIHNSLMKVQEDMRSGQVALEKYVITKTLTKPPEAYPDAKNQPHV 1193 (1517)
Q Consensus 1117 ~vRRD~c~l~k~~~~~vl~~IL~~~~~e~~~---~~i~~~l~~~~~~l~~g~v~l~~lvItk~LsK~~~~Y~~~k~~pHV 1193 (1517)
++|||||+|+|++++.+|+.||.+++++++. +.+++++.+...+|++|. +++|+|+|+|+|++++|.. ..||
T Consensus 220 ~vRrD~~~~~k~~~~~vl~~ll~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~--~~~lvi~k~l~k~~~~Y~~--~~~~- 294 (352)
T cd05531 220 LRRRDTPPFVKKFQEEALDILASAKTPEELLKLREEALDLFRRYLQRLREGD--LEDLIIEKKISKRSSEYKV--LAST- 294 (352)
T ss_pred EEeCCchHHHHHHHHHHHHHHhcCCCHHHHHHHHHHHHHHHHHHHHHHhcCC--hHHEEEEEEecCCHHHcCC--chHH-
Confidence 9999999999999999999999999998654 456678888889999998 8999999999999999995 4566
Q ss_pred HHHHHHHhcCCCCCCCCCCeeEEEEEeccCCCCCCCcCccccccCchhhhhcCCCCCCChHHHHhhCchHHHHHhhcc
Q 000430 1194 QVALRLKQSGYSTGCSAGDTVPYIICCEQGTSSGSSVGIAQRARHPDELKKGDGKWMIDIDYYASQQIHPVVSRLCAS 1271 (1517)
Q Consensus 1194 ~vA~rl~~~g~~~~~~~Gd~I~YVI~~~~~~~~~~~~~~~~RA~~P~ev~~~~~~l~iD~eYYl~~QI~p~v~Rl~~p 1271 (1517)
||++|+++|. .+++|++|+|||+.+.++ . |. ..+ ..++|++||++ ||.|++.+|+.+
T Consensus 295 -~a~~l~~~g~--~~~~G~~I~Yvi~~~~~~-----~--------~~--~~~--~~~~D~~yYi~-~l~~~~~~il~~ 351 (352)
T cd05531 295 -ALKALRAKGV--SVVPGMKIEYIVRDGKRP-----V--------PD--LGN--DEGYDTKYYRE-LLERAAEELLFP 351 (352)
T ss_pred -HHHHHHhCCC--CCCCCCEEEEEEEECCCC-----C--------cc--ccc--cCCCCHHHHHH-HHHHHHHHhccC
Confidence 8999999985 499999999999975321 1 11 112 47899999997 899999999875
No 20
>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=2e-69 Score=635.24 Aligned_cols=336 Identities=24% Similarity=0.354 Sum_probs=285.2
Q ss_pred CCCCceeeecccccccceEEEeeccCcchhHHHHhCccccccccCCCCCcccCCCCCccCCcHHHHHHHHHHHHHHHHHH
Q 000430 890 AYAGGLVLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVERSPDGLVPHLPSSKTTGVLPELLKNLVQRRRMVKTWM 969 (1517)
Q Consensus 890 ~Y~GGlVleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~d~~v~~~p~~~~~GilP~iL~~Ll~~R~~vK~~m 969 (1517)
+|+||+|++|.+|+|++ |++|||+|||||||++|||||+ ..+.||+|.+|+.|++.|.++|+.|
T Consensus 2 ~~~GG~v~~p~~Gl~~~-V~~lDf~SLYPSIi~~~ni~p~---------------~~~~Gilp~il~~Ll~~R~~~K~~~ 65 (347)
T cd05538 2 KFEGGYAYVFITGVLGP-IVHADVASLYPSIMLAYRICPA---------------RDSLGIFLALLKYLVELRLAAKESA 65 (347)
T ss_pred CcCCceEcccCCcCcCc-eEEEEcccchHHHHHHhCCCCC---------------CCCCcccHHHHHHHHHHHHHHHHHH
Confidence 59999999999999997 9999999999999999999974 2457999999999999999999999
Q ss_pred hhcch-hHHHhhHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEeeccceeee
Q 000430 970 KTASG-LKIQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAELITQQGREILRSTVDLVQNNLNLEVIYGDTDSIMIH 1048 (1517)
Q Consensus 970 K~~~~-~~~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~~~g~~VIYGDTDSimI~ 1048 (1517)
|++++ .++.+||.+|+|+|+++||+|||||++++||||+++|++||+.||++|++|++++++ +|++|||||||||||.
T Consensus 66 k~~~~~~~~~~~d~~Q~AlKi~~NS~YG~lG~~~~r~~~~~~A~~iT~~GR~~L~~~~~~~e~-~g~~VIygDTDSi~v~ 144 (347)
T cd05538 66 RAAARPAERDAFKAKQAAFKVLINSFYGYLGTGLHAFSDPEAAAEVTRLGRELLKLMIRWLRR-RGATPVEVDTDGIYFI 144 (347)
T ss_pred hcCCChHHHHHHHHHHHHHhhhhhhchhhhcCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHH-CCCEEEEEcCCeeEEE
Confidence 98776 788999999999999999999999999999999999999999999999999999986 8999999999999998
Q ss_pred cCc--ccHHHHHHHHHHHHHHHhccc-ceeEEeeeeeeeeeeeeccceeeEEEeeecCCccceeEEEeeeeeeeCchhHh
Q 000430 1049 SGI--DDIAKAKAIAGKVIQEVNKKY-KCLEIDLDGLYKRMLLLKKKKYAAVKVQFKDGMPYEVIERKGLDMVRRDWSLL 1125 (1517)
Q Consensus 1049 ~~~--~~~~ea~~ig~~i~~~Vn~~~-~~leLE~E~vy~~~lLl~KKrYa~l~~~~~dG~~~~~~e~KGle~vRRD~c~l 1125 (1517)
.+. .+.+++. ++.++|++.+ .+|+||+|++|++||+++|||||++. .+|+ +++||+|+||||||+|
T Consensus 145 ~~~~~~~~~~~~----~~~~~i~~~~~~~i~le~e~~y~~~l~~~KKrYa~~~---~~gk----i~~KG~e~vRrD~~~~ 213 (347)
T cd05538 145 PPNGVDTEDEEE----ELVRELSSTLPKGITVEFDGRYRAMFSYKIKNYALLD---YDGK----LIVKGSAFRSRGIEPF 213 (347)
T ss_pred eCCCCChHHHHH----HHHHHHHHhCCCCeEEEEhHHHHHHHhhcCceEEEEe---cCCc----EEEECCCcccCCchHH
Confidence 754 2234444 4556666665 37999999999999999999999974 4665 7899999999999999
Q ss_pred HHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHhcCCCCccceEEeeccCCCCCCCCCCC--CchHHH-HHHHHHhc
Q 000430 1126 SKEVGDFCLSQILSERSCEDVVESIHNSLMKVQEDMRSGQVALEKYVITKTLTKPPEAYPDAK--NQPHVQ-VALRLKQS 1202 (1517)
Q Consensus 1126 ~k~~~~~vl~~IL~~~~~e~~~~~i~~~l~~~~~~l~~g~v~l~~lvItk~LsK~~~~Y~~~k--~~pHV~-vA~rl~~~ 1202 (1517)
+|++++++|+.||.+. .+ .+++++.++.++|++|++|+++|+|+++|+|+|++|.+.. ..+|.. +|++++.+
T Consensus 214 ~k~~~~~vl~~ll~~~-~~----~~~~~~~~~~~~l~~~~~~~~~l~i~k~l~k~~~~Y~~~~~~~~~~~~~a~~~a~~~ 288 (347)
T cd05538 214 LREFLREAVRLLLQGD-GA----GVHDLYEDYLRRLRSHELPISDLARTETLKESPEEYLQKVRAGKRNPAAAYEIALAR 288 (347)
T ss_pred HHHHHHHHHHHHHcCC-hH----HHHHHHHHHHHHHHcCCCCHHHEEEEeecCCCHHHHhhhhhcccCChhHHHHHHHhc
Confidence 9999999999999764 33 4666777788999999999999999999999999996421 224533 34444555
Q ss_pred CCCCCCCCCCeeEEEEEeccCCCCCCCcCccccccCchhhhhcCCCCCCChHHHHhhCchHHHHHh
Q 000430 1203 GYSTGCSAGDTVPYIICCEQGTSSGSSVGIAQRARHPDELKKGDGKWMIDIDYYASQQIHPVVSRL 1268 (1517)
Q Consensus 1203 g~~~~~~~Gd~I~YVI~~~~~~~~~~~~~~~~RA~~P~ev~~~~~~l~iD~eYYl~~QI~p~v~Rl 1268 (1517)
|. .+++||+|+||||.+. ++.++++||+.++.+..+ ...+|++||++. |.-.+.|+
T Consensus 289 g~--~~~~G~~I~Yvi~~~~-----~g~~~~~ra~~~~~~~~~--~~~~d~~yY~~~-l~~~~~~~ 344 (347)
T cd05538 289 PR--EWRAGDRVTYYVSGTG-----KGVSVYENCRLVADYDPA--HPDENTGFYAER-LLQLAARL 344 (347)
T ss_pred CC--CCCCCCEEEEEEEeCC-----CCCCHHHhhccHHHhCCC--ccccCHHHHHHH-HHHHHHhh
Confidence 64 5999999999999752 345779999977776543 367999999994 55455543
No 21
>KOG1798 consensus DNA polymerase epsilon, catalytic subunit A [Replication, recombination and repair]
Probab=100.00 E-value=6e-66 Score=635.63 Aligned_cols=699 Identities=22% Similarity=0.277 Sum_probs=534.9
Q ss_pred ccccccCCCchHHHHHhhhcCCCCceeEEEeccccCCCCCCcccceEEEEEeCCCCcccccCCCCCCCCCCceEEEEEee
Q 000430 481 NFCSLLGTHSSALELFLVKRKVKGPSWLSISKFSSCPAPQRVSWCKYEITVDSPKDIRVSSSSKHVAEVPPVTVTAINLK 560 (1517)
Q Consensus 481 tf~~vfgtn~s~~ErFli~rkI~Gp~Wl~i~~~~~~~~~~~~S~Ck~Ev~v~~~~~I~~~~~~~~~~~~PpL~vlS~dIe 560 (1517)
.+..+-+.+++++-||.||.+|..+-|+.++..+ .++.+..- .....-|.++||+||||
T Consensus 196 ~IvDiREYDVPyHvR~sID~~IrvG~WY~V~~~~------------~~v~i~~r---------~~~i~radp~VlAFDIE 254 (2173)
T KOG1798|consen 196 SIVDIREYDVPYHVRVSIDLDIRVGQWYNVSYNS------------GPVEIERR---------TDLIERADPRVLAFDIE 254 (2173)
T ss_pred hhhhHhhcCCceEEEEeecCCeeeeeeeeeeeec------------cceEEEec---------ccccccCCceEEEEeee
Confidence 3556678999999999999999999999987311 12222211 11235688999999999
Q ss_pred ec-----CCCCCCcccEEEEEEEEeecc-ccc-CccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCCCCce
Q 000430 561 TV-----FNKRQDVNEIVSASVVCCHKA-KID-TPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKAGSNV 633 (1517)
Q Consensus 561 T~-----~n~~~~~~EI~~iS~~~~~~~-~id-~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~g~~v 633 (1517)
|+ ||+++ .++|+|||.++.+.+ .|. +.++ ...+..|.+.+||+ |+ |.-.
T Consensus 255 TtKlPLKFPDae-~DqIMMISYMiDGqGfLItNREiV------s~DIedfEYTPKpE---~e--------------G~F~ 310 (2173)
T KOG1798|consen 255 TTKLPLKFPDAE-SDQIMMISYMIDGQGFLITNREIV------SEDIEDFEYTPKPE---YE--------------GPFC 310 (2173)
T ss_pred cccCCCCCCCcc-cceEEEEEEEecCceEEEechhhh------ccchhhcccCCccc---cc--------------cceE
Confidence 98 78776 589999999998643 332 2222 23457788877765 22 2223
Q ss_pred EeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCCC
Q 000430 634 LCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGASP 713 (1517)
Q Consensus 634 ~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~ 713 (1517)
+..+++|-+||.+|+..|++..|.|||.||+.-|||||+..||..||++. ...+|..++++ +-+-
T Consensus 311 v~Ne~dEv~Ll~RfFeHiq~~kP~iivTyNGDFFDWPFve~Ra~~hGi~m--~eEiGF~~D~~--------gEyk----- 375 (2173)
T KOG1798|consen 311 VFNEPDEVGLLQRFFEHIQEVKPTIIVTYNGDFFDWPFVEARAKIHGISM--NEEIGFRRDSQ--------GEYK----- 375 (2173)
T ss_pred EecCCcHHHHHHHHHHHHHhcCCcEEEEecCccccchhhHHHHHhcCCCc--chhcCceeccc--------cccc-----
Confidence 45678999999999999999999999999999999999999999999997 77888765532 1111
Q ss_pred CceeeecceEEeecHHHHhhc--cccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHHHh
Q 000430 714 GIMSCIAGRLLCDTFLCSRDL--LREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMELMF 791 (1517)
Q Consensus 714 ~~~~~i~GRlv~D~~~~~k~~--~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L~~ 791 (1517)
-+-.+|+|++.|+|++ ++..|..|+.|++..||....+++|++|.++..+.++ .|+.|+..||+.++.|+.
T Consensus 376 -----s~~c~HmDcfrWVKRDSYLPqGSqgLKAVTkaKLGYdPvEvdPEdM~~~A~EkPQ--~lasYSVSDAVATYyLYM 448 (2173)
T KOG1798|consen 376 -----SPFCIHMDCFRWVKRDSYLPQGSQGLKAVTKAKLGYDPVEVDPEDMVRMAMEKPQ--TLASYSVSDAVATYYLYM 448 (2173)
T ss_pred -----ccceeehhhhhhhhhcccCCCcccchhHHHHHhhCCCcccCCHHHhhhhhhhCch--hhhhcchHHHHHHHHHHH
Confidence 1234689999999986 5778999999999999999999999999999998876 899999999999999999
Q ss_pred hcccchhHHHHhhhcCCchhhhhcccccchhHHhHHHHHHhcCeeccCccchhhHhhhhhcccCCCcccccccccccccC
Q 000430 792 HLSVLPLTRQLTNISGNLWGKTLQGARAQRVEYLLLHAFRAKKYIVPDKFTYVKETKMAKQRSNHGVEDRNVEELTNEDA 871 (1517)
Q Consensus 792 kl~ilpL~~qLt~I~Gn~~~rtL~g~r~~r~E~LLLhef~~~~yI~Pdk~~~~~~~~~~~~r~~~~~e~~~~~~~~~~d~ 871 (1517)
++ +.|+...|++|.......+|+.|.|..+|.||+-+++..|.|+|+|.....++ ...|
T Consensus 449 kY-VhPFIFsLctIIPl~PDevLRKGSGTLCE~LLmVeA~~~NIv~PNK~~e~~~~------f~dG-------------- 507 (2173)
T KOG1798|consen 449 KY-VHPFIFSLCTIIPLNPDEVLRKGSGTLCEALLMVEAYHANIVFPNKHTEDPEK------FYDG-------------- 507 (2173)
T ss_pred HH-hhhHHhhhhhccccChHHHHhcCcchHHHHHHHHHHHhcCeecCCcCccchhh------hccC--------------
Confidence 86 88999999999999999999999999999999999999999999997432110 0000
Q ss_pred CCCCCCCccccccCCCCCCCCCceeeeccccccc----------------------------------------------
Q 000430 872 NFDNDTSHNDHRKGKRGPAYAGGLVLEPKKGLYD---------------------------------------------- 905 (1517)
Q Consensus 872 ~~~~~~~~~~~~~~~~k~~Y~GGlVleP~~Gly~---------------------------------------------- 905 (1517)
+.-..+.|-||.|---+.|+|+
T Consensus 508 ------------hlleSETYVGGHVE~LesGVFRSDip~~F~~dp~a~~eLi~~l~~~L~~~l~vE~k~~vd~v~nfeEv 575 (2173)
T KOG1798|consen 508 ------------HLLESETYVGGHVECLESGVFRSDIPTEFRMDPSAYEELIDELGETLDFALTVENKVRVDEVTNFEEV 575 (2173)
T ss_pred ------------eeeeeeeeechhhhhHhcccccccCcccccCCHHHHHHHHHHHHHHHHHHHhhhcccchhhhcCHHHH
Confidence 0001123444444333333321
Q ss_pred -------------------c-eEEEeeccCcchhHHHHhCccccccccCC-----C------------------------
Q 000430 906 -------------------K-YILLLDFNSLYPSIIQEYNICFTTVERSP-----D------------------------ 936 (1517)
Q Consensus 906 -------------------~-~V~~LDF~SLYPSII~~~NIc~tTv~~~~-----d------------------------ 936 (1517)
+ .|++||++||||+||.+..|.|.+++... |
T Consensus 576 ~~~I~~kL~~lrd~p~R~E~PlIYHLDVaaMYPNIilTNRLQP~siv~E~~C~~CDfN~P~ktC~Rkm~W~WRGe~~pa~ 655 (2173)
T KOG1798|consen 576 KDEILEKLEELRDVPIREEGPLIYHLDVAAMYPNIILTNRLQPDSIVDEEICAACDFNKPGKTCKRKMEWAWRGEYFPAK 655 (2173)
T ss_pred HHHHHHHHHHhcCCCccccCCeEEEEehhhccCceeeecCCCCcccccHhhhccCCCCCCCcchhhhheeeeeeeEecCc
Confidence 3 49999999999999999999999987421 0
Q ss_pred -------------CCccc------------C-----------------------------------CCCCccCCcHHHHH
Q 000430 937 -------------GLVPH------------L-----------------------------------PSSKTTGVLPELLK 956 (1517)
Q Consensus 937 -------------~~v~~------------~-----------------------------------p~~~~~GilP~iL~ 956 (1517)
+.+|. + -|+++..++-..++
T Consensus 656 r~EY~~I~~qlesE~f~~~~~~~~~k~F~~L~~~eq~~~~kkRl~~Ysrk~Y~rv~~~~i~eRet~ICqRENpFYVdTVr 735 (2173)
T KOG1798|consen 656 RSEYHRIKKQLESESFPAGAPFSPSKSFHELSREEQAAKLKKRLKDYSRKVYHRVKDTEIEERETTICQRENPFYVDTVR 735 (2173)
T ss_pred chHHHHHHHHHHhccCCCCCCCCCCcccccCCHHHHHHHHHHHHHHHHHHHHhHhcccchhhhhcchhhccCchhhhhHH
Confidence 00110 0 16789999999999
Q ss_pred HHHHHHHHHHHHHhhcch-----------hH-------HHhhHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHH
Q 000430 957 NLVQRRRMVKTWMKTASG-----------LK-------IQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAELITQQG 1018 (1517)
Q Consensus 957 ~Ll~~R~~vK~~mK~~~~-----------~~-------~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~~IT~~G 1018 (1517)
.+.++|.++|.+.|..+. .+ .-+||..|+|+|+++||||||...++||||+++||..||.+|
T Consensus 736 sFRDRRYeyK~L~K~wkg~ls~a~~sg~~a~i~eak~mvVlYdSLQLAHKcILNSFYGYVMRKGsRWYSMEMAGIvc~TG 815 (2173)
T KOG1798|consen 736 SFRDRRYEYKGLHKVWKGKLSAAKASGDLARIKEAKKMVVLYDSLQLAHKCILNSFYGYVMRKGSRWYSMEMAGIVCLTG 815 (2173)
T ss_pred HhhhhhhHHHHHHHHHHHHHhhhhccCchhhHHhhhheEEehHhHHHHHHHHHhhhhhhhhccccchheeehhheeeccc
Confidence 999999999999886542 11 126999999999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHHhccCceEEEeeccceeeecCcccHH-------HHHH---------HHHHHHH------------HHhc
Q 000430 1019 REILRSTVDLVQNNLNLEVIYGDTDSIMIHSGIDDIA-------KAKA---------IAGKVIQ------------EVNK 1070 (1517)
Q Consensus 1019 R~iL~~t~~~ve~~~g~~VIYGDTDSimI~~~~~~~~-------ea~~---------ig~~i~~------------~Vn~ 1070 (1517)
..||++|+++||. .| +.+.-|||+||+-+|.+-.+ ..++ +...+++ -++.
T Consensus 816 AnIIq~AR~lVEr-iG-rPLELDTDGIWCilP~SFPEnf~Fk~~n~kkvtiSYPc~mLN~~V~e~fTN~QYq~L~dp~~~ 893 (2173)
T KOG1798|consen 816 ANIIQMARELVER-IG-RPLELDTDGIWCILPGSFPENFTFKLKNGKKVTISYPCVMLNHLVHEGFTNHQYQELVDPVRL 893 (2173)
T ss_pred hHHHHHHHHHHHH-hC-CCeeccCCceEEeccCCCccceEEEecCCcEEEEechHHHHHHHHHhccchhhHHHhcCcccc
Confidence 9999999999996 66 67889999999987754221 0111 1111221 1222
Q ss_pred cc-----ceeEEeeeeeeeeeeeec--------cceeeEEEeeecCCccceeEEEeeeeeeeCchhHhHHHHHHHHHHHH
Q 000430 1071 KY-----KCLEIDLDGLYKRMLLLK--------KKKYAAVKVQFKDGMPYEVIERKGLDMVRRDWSLLSKEVGDFCLSQI 1137 (1517)
Q Consensus 1071 ~~-----~~leLE~E~vy~~~lLl~--------KKrYa~l~~~~~dG~~~~~~e~KGle~vRRD~c~l~k~~~~~vl~~I 1137 (1517)
.| ..|.+|+||.|+.|+|.+ |||||.++ .||.+ -|+||+|++||.--+|+|.+|..++..+
T Consensus 894 ~Y~t~SEnSIfFEVDGPYkAMILPaSkEEGk~lKKRYAVFN---~DGsL---AELKGFEiKRRGEL~lIK~FQs~lF~~F 967 (2173)
T KOG1798|consen 894 TYVTRSENSIFFEVDGPYKAMILPASKEEGKLLKKRYAVFN---EDGSL---AELKGFEIKRRGELKLIKVFQSELFKVF 967 (2173)
T ss_pred eeeecccceEEEEecCceeEEeeccchhhhhhhhheeEEec---CCCch---hhhcCceeeecchhhHHHHHHHHHHHHH
Confidence 23 269999999999999973 89999886 58987 4899999999999999999999999999
Q ss_pred hccCCHHHHHHHHHHHHHHHHHHHhcCCCCc------cceEEeeccCCCCCCCCCCCCchHHHHHHHHHhc-CCCCCCCC
Q 000430 1138 LSERSCEDVVESIHNSLMKVQEDMRSGQVAL------EKYVITKTLTKPPEAYPDAKNQPHVQVALRLKQS-GYSTGCSA 1210 (1517)
Q Consensus 1138 L~~~~~e~~~~~i~~~l~~~~~~l~~g~v~l------~~lvItk~LsK~~~~Y~~~k~~pHV~vA~rl~~~-g~~~~~~~ 1210 (1517)
|.|.+.|++++.|........+-|.+.--++ +.+.-+++++|.+++|.. .....+..|+||.+. |....--.
T Consensus 968 L~GstLEEcY~aVA~Vad~WLDiL~s~G~~l~D~eL~elISEnrSMSk~L~dYg~-QKStsitTAkRLaeFLGd~MvKDk 1046 (2173)
T KOG1798|consen 968 LKGSTLEECYSAVAAVADRWLDILDSHGADLTDSELLELISENRSMSKKLEDYGG-QKSTSITTAKRLAEFLGDDMVKDK 1046 (2173)
T ss_pred hCCCcHHHHHHHHHHHHHHHHHHHHhccCCCCcHHHHHHHhhchhhhhhHHHhcc-ccchHHHHHHHHHHHhchhhhhcc
Confidence 9999999998887665555555454432222 334558899999999997 445679999999986 64333357
Q ss_pred CCeeEEEEEeccCCCCCCCcCccccccCchhhhhcC---------------C------CCCCChHHHHhhC---------
Q 000430 1211 GDTVPYIICCEQGTSSGSSVGIAQRARHPDELKKGD---------------G------KWMIDIDYYASQQ--------- 1260 (1517)
Q Consensus 1211 Gd~I~YVI~~~~~~~~~~~~~~~~RA~~P~ev~~~~---------------~------~l~iD~eYYl~~Q--------- 1260 (1517)
|-++.|||...+ .+.++++||.+ .-+...+ + ..-||++||+++.
T Consensus 1047 GL~C~yIIs~~P-----~g~PVtERAIP-VAIF~ae~~vk~~fLRkW~k~~sl~d~dIR~IiDWdYY~eRLgSaIQKiIt 1120 (2173)
T KOG1798|consen 1047 GLACRYIISRKP-----EGAPVTERAIP-VAIFQAEPPVKKHFLRKWTKDSSLEDTDIRAIIDWDYYRERLGSAIQKIIT 1120 (2173)
T ss_pred CceeEEEEEecC-----CCCCcccccce-eEEEecCcHHHHHHHHHHhccCccccCChheeeehHHHHHHHHHHHHHHhh
Confidence 899999999854 35788999974 2222111 1 1248999999973
Q ss_pred chHHHHHhhcccCCC-CHHHHHHHhCCCCcceecC
Q 000430 1261 IHPVVSRLCASIEGT-SPERLADCLGLDPSKFQSK 1294 (1517)
Q Consensus 1261 I~p~v~Rl~~pI~g~-~~~~la~~lGld~~~~~~~ 1294 (1517)
|-..++++-.|++.+ .+.+|-.-++-..++|+..
T Consensus 1121 IPAAlQ~VsNPVpRv~hPdWL~kkv~~k~dk~rQ~ 1155 (2173)
T KOG1798|consen 1121 IPAALQGVSNPVPRVPHPDWLQKKVAEKNDKFRQK 1155 (2173)
T ss_pred hHHHHhccCCCCCCCCCcHHHHhhhccchhhhhhh
Confidence 334467777888887 6788888888777888765
No 22
>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=3.4e-65 Score=622.67 Aligned_cols=435 Identities=37% Similarity=0.565 Sum_probs=353.6
Q ss_pred CCceEEEEEeeecCCC-----CCC-cccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhh
Q 000430 550 PPVTVTAINLKTVFNK-----RQD-VNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEAT 623 (1517)
Q Consensus 550 PpL~vlS~dIeT~~n~-----~~~-~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~ 623 (1517)
|+++++||||||..+. ... .++|++|++.+..+.... +. ....|++ +.+..+
T Consensus 1 ~~~~~~~~DIEt~~~~~~~p~~~~~~~~ii~i~~~~~~~~~~~---~~-------~~~~~~~-----------~~~~~~- 58 (471)
T smart00486 1 PPLKILSFDIETYTDGGLFPDPLIFEDEIIQISLVINDGDKKG---PE-------ERICFTL-----------GTCKEI- 58 (471)
T ss_pred CCceEEEEEEEECCCCCCCCCCCCCCCeEEEEEEEEEECCCCC---Cc-------eeEEEEe-----------cCcCCC-
Confidence 6899999999998542 221 578999999888654320 00 0011222 111111
Q ss_pred cccCCCCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccC
Q 000430 624 DRNSKAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKG 703 (1517)
Q Consensus 624 ~~~~~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~ 703 (1517)
.+..++.+ .+|++||.+|++++++.|||||+|||+.+||++||++|+..++++. |.++||++.. +.....
T Consensus 59 -----~~~~~~~~-~~E~~lL~~f~~~i~~~dpdii~g~N~~~FD~~~i~~R~~~~~~~~--~~~i~r~~~~--~~~~~~ 128 (471)
T smart00486 59 -----DGVEVYEF-NNEKELLKAFLEFIKKYDPDIIYGHNISNFDLPYIISRLEKLKIKP--LSFIGRLKNI--IDIKRK 128 (471)
T ss_pred -----CCCeEEec-CCHHHHHHHHHHHHHHhCCCEEEeecCCCCCHHHHHHHHHHcCCCC--HHHcCcCCCC--CCcccc
Confidence 23345544 6999999999999999999999999999999999999999999987 7789998763 111000
Q ss_pred cccccCCC-CCCceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcc-hhHHHHHHHHHH
Q 000430 704 RTIFGSGA-SPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTL-ESLMELIEYGET 781 (1517)
Q Consensus 704 ~~~fg~~~-~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~-~~l~~l~~y~~~ 781 (1517)
...+.... .......+.||+++|++..++..+++.+|+|++||+++||.++.++++.+|.++|... ..+..+++||++
T Consensus 129 ~~~~~~~~~~~~~~~~~~g~~~~Dl~~~~~~~~kl~~~~L~~va~~~l~~~k~d~~~~~i~~~~~~~~~~~~~~~~Y~~~ 208 (471)
T smart00486 129 KPLFGSKSFGKTIKVKIKGRLVIDLYNLYKNKLKLPSYKLDTVAEYLLGKEKDDLPYKDIPELYNLNYKLRDELLEYCIQ 208 (471)
T ss_pred cCccccccccccceeEeccEEEEEhHHHHHHHhCcccCCHHHHHHHHhCCCCCCCCHHHHHHHHhcCHHHHHHHHHHHHH
Confidence 00000000 1112457899999999999999999999999999999999999999999999999976 567899999999
Q ss_pred hHHHHHHHHhhcccchhHHHHhhhcCCchhhhhcccccchhHHhHHHHHHhcCeeccCccchhhHhhhhhcccCCCcccc
Q 000430 782 DAWLSMELMFHLSVLPLTRQLTNISGNLWGKTLQGARAQRVEYLLLHAFRAKKYIVPDKFTYVKETKMAKQRSNHGVEDR 861 (1517)
Q Consensus 782 DA~L~~~L~~kl~ilpL~~qLt~I~Gn~~~rtL~g~r~~r~E~LLLhef~~~~yI~Pdk~~~~~~~~~~~~r~~~~~e~~ 861 (1517)
|+.++++|+.+++++++..++++++|.+|.+++.+|++.++|++|++++++.|+++|++...... .
T Consensus 209 D~~l~~~l~~~l~~~~~~~~~s~~~~~~~~~~~~~g~~~~v~~~l~~~~~~~~~~~P~~~~~~~~--------------~ 274 (471)
T smart00486 209 DAVLTLKLFNKLNVIPLIIELARIAGIPQRRTLYYGSQIRVESLLLREAKKNNYILPSKSLIDFK--------------G 274 (471)
T ss_pred HHHHHHHHHHHHhHHHHHHHHHHHHCcCHHHHHhcCcHHHHHHHHHHHHhhCCEEeccchhcccc--------------c
Confidence 99999999999999999999999999999999999999999999999999999999987421100 0
Q ss_pred cccccccccCCCCCCCCccccccCCCCCCCCCceeeecccccccceEEEeeccCcchhHHHHhCccccccccCCC--CC-
Q 000430 862 NVEELTNEDANFDNDTSHNDHRKGKRGPAYAGGLVLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVERSPD--GL- 938 (1517)
Q Consensus 862 ~~~~~~~~d~~~~~~~~~~~~~~~~~k~~Y~GGlVleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~d--~~- 938 (1517)
.....+...+|+||+|++|.+|+|++||+++||+|||||||++|||||+|++.... +.
T Consensus 275 -------------------~~~~~~~~~~y~gg~v~~p~~g~~~~~v~~lDf~SlYPsii~~~nl~~~t~~~~~~~~~~~ 335 (471)
T smart00486 275 -------------------SEPELKKKAKYPGGKVLEPKKGFYDNPVLVLDFNSLYPSIIIAHNLCYSTLVGRGENSGEL 335 (471)
T ss_pred -------------------ccccccccccccccEEecCCCCcccCceEEeehhhccHHHHHHhCCCCccccccccccccc
Confidence 00011234689999999999999999999999999999999999999999986432 00
Q ss_pred -----------------cccCCCCCccCCcHHHHHHHHHHHHHHHHHHhhcch---hHHHhhHHHHHHHhhhhhcccccc
Q 000430 939 -----------------VPHLPSSKTTGVLPELLKNLVQRRRMVKTWMKTASG---LKIQQLDIQQQALKLTANSMYGCL 998 (1517)
Q Consensus 939 -----------------v~~~p~~~~~GilP~iL~~Ll~~R~~vK~~mK~~~~---~~~~~~d~rQ~AlKl~aNS~YG~l 998 (1517)
...+....+.|+||++|..|++.|.++|+.|++.++ .++.+||.+|+|+|+++||+||++
T Consensus 336 ~~~~~~~~~~~~~~~~~~~~~~~~~~~gil~~~l~~l~~~R~~~K~~~~~~~~~~~~~~~~~d~~q~a~K~~~Ns~yG~~ 415 (471)
T smart00486 336 FLDVEDLLTIKYEKPEGYHFVKKNIRKGILPKLLKKLLDKRKEIKKLMKKEKDESEELKKLLDSRQLALKLTANSVYGYL 415 (471)
T ss_pred CCChhhcceeeecCCCcceeecCCCCCeehHHHHHHHHHHHHHHHHHHhhCCCCcHHHHHHHHHHHHHHHhhhccccccc
Confidence 001113345799999999999999999999998765 479999999999999999999999
Q ss_pred cccccccCCHHHHHHHHHHHHHHHHHHHHHHHhccC----ceEEEeeccceeeecC
Q 000430 999 GFSNSRFYAKPLAELITQQGREILRSTVDLVQNNLN----LEVIYGDTDSIMIHSG 1050 (1517)
Q Consensus 999 G~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~~~g----~~VIYGDTDSimI~~~ 1050 (1517)
|+.++|||+.++|++||+.||.+|+.|++++++ .| ++|||||||||||+.+
T Consensus 416 g~~~~~~~~~~~a~~iT~~gr~~l~~~~~~i~~-~~~~~~~~viYgDTDSi~v~~~ 470 (471)
T smart00486 416 GFTNSRLYCKPLAASVTALGREILEKTKELIEK-NGYPPGFKVIYGDTDSIFVTKP 470 (471)
T ss_pred ccccccCccHHHHHHHHHHHHHHHHHHHHHHHH-hCCCCCeEEEEecCceEEEecC
Confidence 999999999999999999999999999999997 45 8999999999999875
No 23
>PHA03334 putative DNA polymerase catalytic subunit; Provisional
Probab=100.00 E-value=1.4e-61 Score=606.73 Aligned_cols=468 Identities=21% Similarity=0.212 Sum_probs=342.4
Q ss_pred ecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCC----------ccccc-cccccCCCcccccCc
Q 000430 636 CESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSS----------MWSKI-GRLKRSEMPKLRKGR 704 (1517)
Q Consensus 636 ~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~----------~wsri-GRlkr~~~p~~~~~~ 704 (1517)
-+.+|.+||-+|+..|+++ .||+.-||.. ||+.+|.+|.+-+.-..+ +|..+ .+-.....|.+..++
T Consensus 327 ~c~~e~~~l~~fl~~~~~~-v~vlyv~n~~-fdv~vi~~rl~~y~~~~~~~~~~~~l~~~~~~~~s~~~~~~~~~~~f~~ 404 (1545)
T PHA03334 327 ACADELEMLLAFLNRLRKS-VNVLYVYNAE-FDVQVIQSRLNYYAFKQRPHPLTKALMEAWEAFLSKDPQLVPAQLLFGS 404 (1545)
T ss_pred EeccHHHHHHHHHHHHHhh-ccEEEEeccc-ccHHHHHHHHHHhhccCCCCcHHHHHHHHHHHHhccCCccCCceeEehh
Confidence 3579999999999999984 7999999975 999999999998654321 12211 111111111111111
Q ss_pred cc---------------------------------------------c--cCCCCCCceeeecceEEeecHHHHhh---c
Q 000430 705 TI---------------------------------------------F--GSGASPGIMSCIAGRLLCDTFLCSRD---L 734 (1517)
Q Consensus 705 ~~---------------------------------------------f--g~~~~~~~~~~i~GRlv~D~~~~~k~---~ 734 (1517)
+. | ......+..+.+.||+++|+|.++++ .
T Consensus 405 ~~~~s~y~~ll~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~v~~f~~n~~~~~~~kv~~~GrviiDMy~Vc~~K~~~ 484 (1545)
T PHA03334 405 DILNSNYLELLDVIESHKAQFKATCRKAAARKEEIGSYMKTRDTVQDFNDNDKKYLNSTSHGFGAHIIDLMRVCNTKSIK 484 (1545)
T ss_pred hHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHhhhHHHHHHHHHhhcccccccccceeeeccEEEEehHHHHhhcccc
Confidence 10 0 00111223467899999999999998 4
Q ss_pred cccCCCCHHHHHHHhcCCCC-----------CccChhhHHHHHhcc-hhHHHHHHHHHHhHHHHHHHHhhcccchhHHHH
Q 000430 735 LREVSYSLTQLAKTQLNKDR-----------KEVGPHDVLKMFQTL-ESLMELIEYGETDAWLSMELMFHLSVLPLTRQL 802 (1517)
Q Consensus 735 ~k~~SYsL~~va~~~Lg~~k-----------~di~~~eI~~~~~~~-~~l~~l~~y~~~DA~L~~~L~~kl~ilpL~~qL 802 (1517)
++++||+|++||+++||++| +|+++.+|+.+|..+ ..+.+++.||++||+|+++|+.++..+.-+.++
T Consensus 485 ~kL~sYkLNTVA~~~LgeqKp~k~~~k~~K~eDV~YkeI~~lf~~g~e~RaRla~YCLkDA~LvlrLlkkl~~h~e~~er 564 (1545)
T PHA03334 485 AKCSSRKLDTVARLIISKSKPHKNPPKIGKMDDVKYTEMDGMFTAGGAALARYLIYNLVDSELLIRIAKNLDPVIEFLNR 564 (1545)
T ss_pred cCccCCcHHHHHHHHHhcccccccccccCcccCCCHHHHHHHHhcChhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 89999999999999999999 999999999999864 569999999999999999999999988888889
Q ss_pred hhhcCCchhh------hhccc--ccchhH-HhHHHHHHhcCeeccCccchhhHhhhhhcccCCCcccccccccccccCCC
Q 000430 803 TNISGNLWGK------TLQGA--RAQRVE-YLLLHAFRAKKYIVPDKFTYVKETKMAKQRSNHGVEDRNVEELTNEDANF 873 (1517)
Q Consensus 803 t~I~Gn~~~r------tL~g~--r~~r~E-~LLLhef~~~~yI~Pdk~~~~~~~~~~~~r~~~~~e~~~~~~~~~~d~~~ 873 (1517)
.+.+|++..- ++..| ++.|+- .+|+.+..+.|+++|.-.... .... |..
T Consensus 565 aRvT~~id~~~l~RG~v~fdG~vQQIKV~s~lL~kA~~~~~~~ia~~~i~~---------------s~il-------P~~ 622 (1545)
T PHA03334 565 LRATYNIDYVAHGRGVMNFCGFVQSTKSVEVPLLKARLRIGIFVATGRIAE---------------SLCM-------PEK 622 (1545)
T ss_pred HhcccCCceeecccceecccCccchhhHHHHHHHHHHHhcCcccccccccc---------------cccC-------Ccc
Confidence 9888876522 23334 666665 455555558899998532110 0000 000
Q ss_pred CCCCCccccccCCCCCCCCCceeeeccccc-----ccceEEEeeccCcchhHHHHhCccccccccCCCC-Cc--------
Q 000430 874 DNDTSHNDHRKGKRGPAYAGGLVLEPKKGL-----YDKYILLLDFNSLYPSIIQEYNICFTTVERSPDG-LV-------- 939 (1517)
Q Consensus 874 ~~~~~~~~~~~~~~k~~Y~GGlVleP~~Gl-----y~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~d~-~v-------- 939 (1517)
... ..+...+|+||+|++|++|| |++||++|||+|||||||++|||||+|++.+..- .+
T Consensus 623 ------~~~-~~~~~~~YeGAtVLEP~~Gf~~~~~Y~~PVaVLDFASLYPSIIiahNLCYeTLV~~~c~~~~~~~~~~d~ 695 (1545)
T PHA03334 623 ------YAR-DCRQKIKLKGGYVFAPLTGLTFAGPYQGTELTLDFASLYPSNMCDANISPEAIVDPDCTARVRGWVVFDW 695 (1545)
T ss_pred ------ccc-ccccccccCCeEeecCCCCccccccCCCcEEEEEccccchHHHHHhCCCcccccCccchhhhcccccccc
Confidence 000 01234679999999999999 6789999999999999999999999999864310 00
Q ss_pred ---c-----------------cCCC-CCccCCcHHHHHHHHHHHHHHHHHHhhcch-hHHHhhHHHHHHHhhhhhccccc
Q 000430 940 ---P-----------------HLPS-SKTTGVLPELLKNLVQRRRMVKTWMKTASG-LKIQQLDIQQQALKLTANSMYGC 997 (1517)
Q Consensus 940 ---~-----------------~~p~-~~~~GilP~iL~~Ll~~R~~vK~~mK~~~~-~~~~~~d~rQ~AlKl~aNS~YG~ 997 (1517)
| ..|. ....+++|.+|++|++.|+++|+.||++++ .++.+||.+|+|+|++|||+|||
T Consensus 696 ~k~p~gy~~~~~vy~V~~~~~~~P~~~rf~SiLp~LL~eLL~~RK~~Kk~MKk~kDp~er~iLD~rQlALKVtANSvYGy 775 (1545)
T PHA03334 696 KKIDRGFGKATLMYTILRTKPEEPSWRRFTTYTTSSLNHYLSMRTEYKGAMKQAKDPKLKSYHNQLQNEMKICANSHYGV 775 (1545)
T ss_pred ccCCcccCccccceeeccccCcCCCcceecchHHHHHHHHHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHhhcCc
Confidence 1 0111 224578999999999999999999999887 78999999999999999999999
Q ss_pred ccccccccCCHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEeeccceeeecCccc-----------HHHHHHHHHH---
Q 000430 998 LGFSNSRFYAKPLAELITQQGREILRSTVDLVQNNLNLEVIYGDTDSIMIHSGIDD-----------IAKAKAIAGK--- 1063 (1517)
Q Consensus 998 lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~~~g~~VIYGDTDSimI~~~~~~-----------~~ea~~ig~~--- 1063 (1517)
+|. .+|++||++||++|+.|++++++..|++|||||||||||+++..+ .++..+++..
T Consensus 776 tG~--------~cA~lVTa~GRemI~~t~~~IE~e~G~~VIYGDTDSVfV~~p~~d~~~~~~d~v~~~~~~~~~~~~~~~ 847 (1545)
T PHA03334 776 APH--------ACQHLITTLGRHKIKLVEEFIKKEPGMTVNYGDTDSVMFQLPPDDAETYLEDTVTLEDEERAPLEYTLE 847 (1545)
T ss_pred chh--------HHHHHHHHHHHHHHHHHHHHHHHhCCCEEEEEeCCceEEEeCccccccccccccchhhhhhhhhhhhHH
Confidence 875 468999999999999999999855899999999999999987432 1111111110
Q ss_pred ------------------------HHHHHhccc-----------------ce---------------e------------
Q 000430 1064 ------------------------VIQEVNKKY-----------------KC---------------L------------ 1075 (1517)
Q Consensus 1064 ------------------------i~~~Vn~~~-----------------~~---------------l------------ 1075 (1517)
|-+.+|... .| .
T Consensus 848 ~~s~~~~~~~~~~k~~~~~~~v~~~L~~l~~~l~d~m~~~l~~~~~~~~~~p~~~~~~~~~~d~~~g~~~~~~~~f~~~~ 927 (1545)
T PHA03334 848 EWSAEAVNHVTKAKTKREGETVQSILSDLNTVLYDDMIERLRYVDEGGSVEPFKDGEDWWVVDPLDGIWTYVRDPFSSEL 927 (1545)
T ss_pred HHHHHHHHHHHhhhhhcccchHHHHHHHHHHHHHHHHHHhheEeCCCCcEeeccCCCceeeecCCCceEEEeccchhHhH
Confidence 111111110 01 1
Q ss_pred --EEeeeeeeeeeeeeccceeeEEEeeecCCcc-ceeEEEeeeeeeeCchhHhHHHHHHHHHHHHhccCC
Q 000430 1076 --EIDLDGLYKRMLLLKKKKYAAVKVQFKDGMP-YEVIERKGLDMVRRDWSLLSKEVGDFCLSQILSERS 1142 (1517)
Q Consensus 1076 --eLE~E~vy~~~lLl~KKrYa~l~~~~~dG~~-~~~~e~KGle~vRRD~c~l~k~~~~~vl~~IL~~~~ 1142 (1517)
+|++|..-.-.+..+||+|+...+..++|.+ .++++++|++.+|...+..++.+.+.+++.||.|.-
T Consensus 928 ItkL~yEn~stv~~~~aKK~Yi~~vhd~e~~~~~~pKlK~~G~ea~KSStpga~r~~~~d~i~lI~~gga 997 (1545)
T PHA03334 928 ITKLCYENTSTVTCRLAKKMYIYTNHELNNGPLGNTKIKMRGMQANKSSAAGATRRITNDFVNLIFKGGA 997 (1545)
T ss_pred HHHHhhhcchhhhhhhhhhhhheeeeecCCcccccceeeeccccccccCCcHHHHHHHHHHHHHHhcCCe
Confidence 2333333333344689999999887555553 468999999999999999999999999999999863
No 24
>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=2.7e-56 Score=536.18 Aligned_cols=311 Identities=22% Similarity=0.274 Sum_probs=251.7
Q ss_pred CCCccCCcHHHHHHHHHHHHHHHHHHhhcch------------------hHHHhhHHHHHHHhhhhhccccccccccccc
Q 000430 944 SSKTTGVLPELLKNLVQRRRMVKTWMKTASG------------------LKIQQLDIQQQALKLTANSMYGCLGFSNSRF 1005 (1517)
Q Consensus 944 ~~~~~GilP~iL~~Ll~~R~~vK~~mK~~~~------------------~~~~~~d~rQ~AlKl~aNS~YG~lG~~~srf 1005 (1517)
|+++.+|+...++.+.++|..+|.+.|..+. ....+||++|+|+|+++||||||+|+++|||
T Consensus 217 CqrEn~Fyvdtvr~FrdrRy~yK~~~k~~k~~~~~~~~~~~~~~~~~a~~~~~lyDs~Q~A~KiIlNSfYGYlG~~gsRw 296 (621)
T cd05535 217 CQRENPFYVDTVRAFRDRRYEYKGLHKVWKKKLEAAKAAGDAAEIKEAKKMVVLYDSLQLAHKCILNSFYGYVMRKGSRW 296 (621)
T ss_pred EeccCCcHHhhHHHHHHHHHHHHHHHHHHHHHHhhhhccCChhHHHHHHHHHHHHHHHHHHHHHHHhhccCccCcCCccc
Confidence 6789999999999999999999999886532 1236899999999999999999999999999
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEeeccceeeecCcccHHH---HHHHHHH---------HH-----HHH
Q 000430 1006 YAKPLAELITQQGREILRSTVDLVQNNLNLEVIYGDTDSIMIHSGIDDIAK---AKAIAGK---------VI-----QEV 1068 (1517)
Q Consensus 1006 y~~~lA~~IT~~GR~iL~~t~~~ve~~~g~~VIYGDTDSimI~~~~~~~~e---a~~ig~~---------i~-----~~V 1068 (1517)
|++++|++||++||+||+.|++++++ +|+.| |||||||||.+|....++ +.+.|++ +. +.+
T Consensus 297 Ys~emA~~VT~~GreIIk~tr~lvE~-~G~~V-egDTDsI~~~lp~~~~e~~~~~~k~g~~~~~~~~~~~LN~~V~~~~t 374 (621)
T cd05535 297 YSMEMAGIVCYTGANIIQMARELVEQ-IGRPL-ELDTDGIWCILPKSFPENFTFKTKNGKKVTISYPCVMLNHLVHKKFT 374 (621)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHh-cCCEE-EEecCeeEEEcCCCChHHHHHHhhccchhhhhhhHHHHHHHHHHHHH
Confidence 99999999999999999999999985 89987 799999999876553322 2222222 11 223
Q ss_pred hccc----------------ceeEEeeeeeeeeeeee--------ccceeeEEEeeecCCccceeEEEeeeeeeeCchhH
Q 000430 1069 NKKY----------------KCLEIDLDGLYKRMLLL--------KKKKYAAVKVQFKDGMPYEVIERKGLDMVRRDWSL 1124 (1517)
Q Consensus 1069 n~~~----------------~~leLE~E~vy~~~lLl--------~KKrYa~l~~~~~dG~~~~~~e~KGle~vRRD~c~ 1124 (1517)
|..| .+|+||+||+|++|||+ .|||||++. .||++ +++||+|+||||||+
T Consensus 375 n~qy~~l~~p~~~~y~i~se~~IefEvDG~Yk~mllpask~~~~~~KKRYAv~~---~dG~i---~elKGfEikRRd~~~ 448 (621)
T cd05535 375 NDQYQELVDPSTGTYETRSENSIFFEVDGPYKAMILPASKEEGKLLKKRYAVFN---EDGSL---AELKGFEVKRRGELQ 448 (621)
T ss_pred HHHhhhccCcccccccccccceeEEEeccceeeeEcccccccccccccceEEEc---CCCCE---EEEeCceeeeCCHHH
Confidence 3222 14999999999999995 799999874 47874 589999999999999
Q ss_pred hHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHhc--CCCC----ccceEEeeccCCCCCCCCCCCCchHHHHHHH
Q 000430 1125 LSKEVGDFCLSQILSERSCEDVVESIHNSLMKVQEDMRS--GQVA----LEKYVITKTLTKPPEAYPDAKNQPHVQVALR 1198 (1517)
Q Consensus 1125 l~k~~~~~vl~~IL~~~~~e~~~~~i~~~l~~~~~~l~~--g~v~----l~~lvItk~LsK~~~~Y~~~k~~pHV~vA~r 1198 (1517)
|+|++|++|++.||.|.+.|++++.|++.+.++.+.|++ +.++ ++.++++++|+|+|++|++. ..+||++|+|
T Consensus 449 LaK~fQ~eV~e~iL~g~~~Eea~~~V~~v~~~~ld~L~~~~~~~~d~eLi~li~~~k~LsK~l~eY~~~-ks~~V~~AkR 527 (621)
T cd05535 449 LIKIFQSEVFDAFLKGSTLEECYAAVAAVANYWLDVLDSKGENLDDEELFELISENRSMSKKLEEYGNQ-KSTSITTAKR 527 (621)
T ss_pred HHHHHHHHHHHHHHcCCCHHHHHHHHHHHHHHHHHHHHhccCCCChHHHHHHHHhhcccCCCHHHcCCC-CCcHHHHHHH
Confidence 999999999999999999999999999999988888888 5555 34467799999999999984 4568999999
Q ss_pred HHhc-CCCCCCCCCCeeEEEEEeccCCCCCCCcCccccccCchhhhhcCC--------------------CCCCChHHHH
Q 000430 1199 LKQS-GYSTGCSAGDTVPYIICCEQGTSSGSSVGIAQRARHPDELKKGDG--------------------KWMIDIDYYA 1257 (1517)
Q Consensus 1199 l~~~-g~~~~~~~Gd~I~YVI~~~~~~~~~~~~~~~~RA~~P~ev~~~~~--------------------~l~iD~eYYl 1257 (1517)
|++. |....+..|++|+|||+.++ .+.++++||+++.-+....+ .--||++||+
T Consensus 528 l~e~lg~~~~~~~G~~i~YII~~~p-----~~~~vseRAiPv~if~~~~~~~~~~lrkW~~~~~~~~~d~r~iiDW~YY~ 602 (621)
T cd05535 528 LAEFLGDQMVKDKGLSCKYIISKKP-----EGSPVTERAIPVAIFQAEPEVRKHYLRKWLKDPSDEDLDIRDIIDWDYYI 602 (621)
T ss_pred HHHhhcCCcccCCCCeEEEEEEeCC-----CCCCccccccChhhhcCCHHHHHHHHHHHhCCCCcCCCChhhhhchHHHH
Confidence 9883 44445889999999999853 34688999987654432211 0127999999
Q ss_pred hhCchHHHHHhh
Q 000430 1258 SQQIHPVVSRLC 1269 (1517)
Q Consensus 1258 ~~QI~p~v~Rl~ 1269 (1517)
+. +-.+++.|.
T Consensus 603 ~r-l~~~iqKii 613 (621)
T cd05535 603 ER-LGSTIQKII 613 (621)
T ss_pred HH-HHHHHHhee
Confidence 85 555555543
No 25
>PHA02524 43A DNA polymerase subunit A; Provisional
Probab=100.00 E-value=4e-51 Score=491.37 Aligned_cols=286 Identities=19% Similarity=0.247 Sum_probs=236.8
Q ss_pred CCCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHH-cCCCC-CccccccccccCCCcccccCcc
Q 000430 628 KAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQV-CRVPS-SMWSKIGRLKRSEMPKLRKGRT 705 (1517)
Q Consensus 628 ~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~-lkI~~-~~wsriGRlkr~~~p~~~~~~~ 705 (1517)
..|+.|+.| .+|++||.+|+.+|++.|||||+|||+.+||||||++||+. +|+.. ..|+++||..... ...
T Consensus 169 ~~~v~v~~f-~sE~eLL~~F~~~i~~~DPDIItGYNi~nFDlPYL~~Ra~~~lGi~~~~~~~~~Gr~~~~~------s~~ 241 (498)
T PHA02524 169 LDNVVYMPF-EDEVDLLLNYIQLWKANTPDLVFGWNSEGFDIPYIITRITNILGEKAANQLSPYGKITSKT------ITN 241 (498)
T ss_pred cCCeEEEEe-CCHHHHHHHHHHHHHHhCCCEEEeCCCcccCHHHHHHHHHHHhCCcccccccccccccccc------cee
Confidence 456677777 78999999999999999999999999999999999999975 89863 1377788754311 112
Q ss_pred cccCCCCCCceeeecceEEeecHHHHhhc--cccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhH
Q 000430 706 IFGSGASPGIMSCIAGRLLCDTFLCSRDL--LREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDA 783 (1517)
Q Consensus 706 ~fg~~~~~~~~~~i~GRlv~D~~~~~k~~--~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA 783 (1517)
.||.. ....++||+++|++.++++. .++.||+|++||.++||++|.++.. .|..+|.++. .+|++||++||
T Consensus 242 ~~G~~----~~~~I~GRv~iDl~~l~kk~s~~~l~sYsL~~Vs~~~Lg~~K~d~~~-~I~~l~~~d~--~rla~YclkDa 314 (498)
T PHA02524 242 LYGEK----IIYKIHGIALMDYMDVFKKFSFTPMPDYKLGNVGYREVKADKLDYEG-PINKFRKADH--QRYVDYCVRDT 314 (498)
T ss_pred ecCce----eEEEEeeEEEeEHHHHHHHhhhccCCCCCHHHHHHHhcCCccccchh-hHHHHhcCch--HHHHHHHHHHH
Confidence 33321 13579999999999999885 6899999999999999999988753 5888887643 68999999999
Q ss_pred HHHHHHHhhcccchhHHHHhhhcCCchhhhhcccccchhHHhHHHHHHhcCeeccCccchhhHhhhhhcccCCCcccccc
Q 000430 784 WLSMELMFHLSVLPLTRQLTNISGNLWGKTLQGARAQRVEYLLLHAFRAKKYIVPDKFTYVKETKMAKQRSNHGVEDRNV 863 (1517)
Q Consensus 784 ~L~~~L~~kl~ilpL~~qLt~I~Gn~~~rtL~g~r~~r~E~LLLhef~~~~yI~Pdk~~~~~~~~~~~~r~~~~~e~~~~ 863 (1517)
.|++.|..++.+|++..+|++++|.++.+++ +++..++++|+++++++|+++|+...
T Consensus 315 ~L~~~L~~~~~ll~~~~~larvtglpl~~v~--~qikv~~~lllr~~~~~g~viP~~~~--------------------- 371 (498)
T PHA02524 315 DIILLIDGRRCFIDLILSLSYYAKIRFDDVL--GTIKVWDSIIFNSLVESNVVIPAMKA--------------------- 371 (498)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCHHHhc--cHHHHHHHHHHHHHHHCCEecCCCCC---------------------
Confidence 9999998889999999999999999999996 46778899999999999999997521
Q ss_pred cccccccCCCCCCCCccccccCCCCCCCCCceeeecccccccceEEEeeccCcchhHHHHhCccccccccCC--------
Q 000430 864 EELTNEDANFDNDTSHNDHRKGKRGPAYAGGLVLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVERSP-------- 935 (1517)
Q Consensus 864 ~~~~~~d~~~~~~~~~~~~~~~~~k~~Y~GGlVleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~-------- 935 (1517)
..+.+|+||+|++|.+|+|++ |++|||+|||||||++|||||+|++...
T Consensus 372 ----------------------~~~~~Y~GA~V~eP~~GlY~~-VivLDFaSLYPSII~a~NIsPeTl~~~~~~~~~~~~ 428 (498)
T PHA02524 372 ----------------------SPKQSFPGAYVKEPVPGGYRY-GLSFDLTSLYPSILRLLNISPEMIAGMFSPARLEDY 428 (498)
T ss_pred ----------------------CCCCccCCeEEecCCCccccC-eEEEEccccCHHHHHHhCCCHHHhhccccccchhhh
Confidence 012469999999999999998 6789999999999999999999987431
Q ss_pred --------CCCcccCC-----CCCccCCcHHHHHHHHHHHHHHHHHHhhcc
Q 000430 936 --------DGLVPHLP-----SSKTTGVLPELLKNLVQRRRMVKTWMKTAS 973 (1517)
Q Consensus 936 --------d~~v~~~p-----~~~~~GilP~iL~~Ll~~R~~vK~~mK~~~ 973 (1517)
++.+...| ++.++||||.+|++|++.|+++|+.|+++.
T Consensus 429 ~~~~~~~~~~~~~~~P~G~~F~K~~~GilP~iLe~Ll~~RK~~Kk~M~~a~ 479 (498)
T PHA02524 429 INKVAPKPSDQFSCAPNGMMYKKGVVGVLPNETEKVFLQRKSEKKMMLAAI 479 (498)
T ss_pred ccccCCCCCcceEECCCCCEEecCCCcccHHHHHHHHHHHHHHHHHHHHhH
Confidence 01111223 356899999999999999999999999854
No 26
>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=4.2e-47 Score=412.24 Aligned_cols=184 Identities=35% Similarity=0.697 Sum_probs=124.9
Q ss_pred ccccCCchhhccCCCCceeeCCCCCCccccCCcccccccccCCCCCCCcccccccccccCCCCCCccccCCCCHHHHHHH
Q 000430 1307 LLFAVGDEERYRGCEPLILSCPSCSSTFDCPAVCSSICMSVSEKPSKPETEYNFWRTLRCPKCPEEVEAGRISPGMIANQ 1386 (1517)
Q Consensus 1307 ~~~~~~d~erf~~~~~l~~~C~~C~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~i~nq 1386 (1517)
|+++++|+|||++|+||.|+||+|++++.|+|++..... ...++|+.|++|+. .+++++|+||
T Consensus 1 l~s~~~d~erf~~c~~l~~~C~~C~~~~~f~g~~~~~~~------------~~~~~~~~C~~C~~-----~~~~~~l~Nq 63 (188)
T PF08996_consen 1 LESQISDEERFKDCEPLKLTCPSCGTEFEFPGVFEEDGD------------DVSPSGLQCPNCST-----PLSPASLVNQ 63 (188)
T ss_dssp -------TTTTTT---EEEE-TTT--EEEE-SSS--SSE------------EEETTEEEETTT-------B--HHHHHHH
T ss_pred CCCcCCHHHHhcCCCceEeECCCCCCCccccccccCCcc------------ccccCcCcCCCCCC-----cCCHHHHHHH
Confidence 568899999999999999999999999999999874321 12345899999998 7899999999
Q ss_pred HHHHHHHHHHhhhceeeeeCCccCCCcccccceeeeccCcCCCCCCCCCCcceeeEeeechHHHHHHHHHHHHhhchhHh
Q 000430 1387 VKRQADGFVSMYYKGLMMCDDETCKYTTCSLNLRLIGDAERGTVCPNYPRCNGRLVRKYTEADLYKQLTYFCHLLDTQRG 1466 (1517)
Q Consensus 1387 l~~~ir~~i~~yy~~~~~Cdd~~C~~~tr~~~~r~~~~~~~~~~C~~~~~C~g~m~~~ys~~~ly~qL~y~~~lfd~~~~ 1466 (1517)
|+++||++|++||+|||+||||+|+++||+++|+ |..|++.++|+|+|+++|||++|||||+||++|||+++|
T Consensus 64 l~l~iR~~i~~YY~gwl~Cdd~~C~~~TR~~~~~-------~~rC~~~~~C~G~m~~eyse~~LY~QL~yf~~LFD~~~a 136 (188)
T PF08996_consen 64 LELQIREHISRYYEGWLVCDDPTCGNRTRQLSLY-------GKRCPGAPGCKGKMRREYSEKDLYNQLCYFRSLFDVDKA 136 (188)
T ss_dssp HHHHHHHHHHHHHH--CCCCTCCCHHCCCSTTST-------TTCST-STT-HHCCCCSS-HHHHHHHHHHHHHHT-HHHH
T ss_pred HHHHHHHHHHHHHHhCceeCcccccCcccccccC-------CCCCCCcccccceeeeeecHHHHHHHHHHHHHHhChHHH
Confidence 9999999999999999999999999999999883 444997789999999999999999999999999999999
Q ss_pred HhhhhcccCchhH----HHHhhhHHHHHHHHHHHHHHHHhcCCCeeecCCce
Q 000430 1467 IEKMEISAKIPLE----KELNKIRPVVALAASTVQRIRERCAYGWVKLNDIA 1514 (1517)
Q Consensus 1467 ~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~v~~~~~~~~~~~v~l~~lf 1514 (1517)
++++.+....... .....++++|+.++++|++||++|||+||||++||
T Consensus 137 ~~k~~~~~~~~~~~~~~~l~~~~~~~~~~l~~~v~k~L~~~~y~~V~L~~LF 188 (188)
T PF08996_consen 137 LKKLKKKAEKEKQEKIRALAEQNREAFKALKQVVDKYLNRSGYRWVDLSSLF 188 (188)
T ss_dssp HTT-S--SS---HHHHHHHHHHTHHHHHHHHHHHHHHHHC------------
T ss_pred HHhhccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCEeehhhcC
Confidence 9998643322221 23368999999999999999999999999999998
No 27
>cd05776 DNA_polB_alpha_exo inactive DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase alpha, a family-B DNA polymerase. The 3'-5' exonuclease domain of eukaryotic DNA polymerase alpha. DNA polymerase alpha is a family-B DNA polymerase with a catalytic subunit that contains a DnaQ-like 3'-5' exonuclease domain. It is one of the three DNA-dependent type B DNA polymerases (delta and epsilon are the other two) that have been identified as essential for nuclear DNA replication in eukaryotes. DNA polymerase alpha is almost exclusively required for the initiation of DNA replication and the priming of Okazaki fragments during elongation. It associates with DNA primase and is the only enzyme able to start DNA synthesis de novo. The catalytic subunit contains both polymerase and 3'-5' exonuclease domains, but only exhibits polymerase activity. The 3'-5' exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, without the four conserved acidic residues that are
Probab=100.00 E-value=5.8e-45 Score=409.08 Aligned_cols=234 Identities=44% Similarity=0.724 Sum_probs=207.1
Q ss_pred CCceEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCC
Q 000430 550 PPVTVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKA 629 (1517)
Q Consensus 550 PpL~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~ 629 (1517)
|||+||||+|+|++|+++|++||+|||+++|+++++|++++.+.++ ...|+++|++.+..||.++....++.
T Consensus 1 Ppl~v~sls~~T~~n~k~~~~EI~~iS~~~~~~~~~d~~~~~~~~~----~~~~~~~r~~~~~~~~~~~~~~~~~~---- 72 (234)
T cd05776 1 PPLTVMSLSIKTVLNSKTNKNEIVMISMLVHRNVSLDKPTPPPPFQ----SHTCTLTRPLGRSPPPDLFEKNAKKK---- 72 (234)
T ss_pred CCeEEEEEEeEEEecCcCCcchhheehHHHhcCCCCCCCCCCcccc----cceEEEEeCCCCCCCCchHHHHHHhc----
Confidence 8999999999999999999999999999999999999998876654 35577788877778888887665432
Q ss_pred CCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccC
Q 000430 630 GSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGS 709 (1517)
Q Consensus 630 g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~ 709 (1517)
+..|. .+++|++||++|+++|+++|||||+|||+.+|||+||++||+.+|++. ||++||+++..+|+..+ ++.++
T Consensus 73 ~~~v~-~~~~E~~LL~~f~~~i~~~DPDiivG~Ni~~fdl~~L~~R~~~l~i~~--ws~iGR~~~~~~~~~~~-~~~~~- 147 (234)
T cd05776 73 KTKVR-IFENERALLNFFLAKLQKIDPDVLVGHDLEGFDLDVLLSRIQELKVPH--WSRIGRLKRSVWPKKKG-GGKFG- 147 (234)
T ss_pred CCcEE-EeCCHHHHHHHHHHHHhhcCCCEEEeeccCCCCHHHHHHHHHHhCCCc--cccccccccccCccccc-ccccc-
Confidence 33454 458999999999999999999999999999999999999999999997 99999999988886532 22222
Q ss_pred CCCCCceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHH
Q 000430 710 GASPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMEL 789 (1517)
Q Consensus 710 ~~~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L 789 (1517)
.+..++||++||++..++++++++||+|++||+++||.+|.++++.+|.++|.+...+.++++||++||+++++|
T Consensus 148 -----~~~~~~GRl~~D~~~~~k~~~~~~sY~L~~va~~~Lg~~k~di~~~~i~~~~~~~~~l~~l~~y~~~Da~l~~~L 222 (234)
T cd05776 148 -----ERELTAGRLLCDTYLSAKELIRCKSYDLTELSQQVLGIERQDIDPEEILNMYNDSESLLKLLEHTEKDAYLILQL 222 (234)
T ss_pred -----ccccccCchhhccHHHHHHHhCCCCCChHHHHHHHhCcCcccCCHHHHHHHHhCHHHHHHHHHHHHHHHHHHHHH
Confidence 234689999999999999999999999999999999999999999999999998778999999999999999999
Q ss_pred HhhcccchhHHH
Q 000430 790 MFHLSVLPLTRQ 801 (1517)
Q Consensus 790 ~~kl~ilpL~~q 801 (1517)
++++++||||+|
T Consensus 223 ~~kl~il~Ltkq 234 (234)
T cd05776 223 MFKLNILPLTKQ 234 (234)
T ss_pred HHHHCCCcCCCC
Confidence 999999999986
No 28
>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=100.00 E-value=1.6e-40 Score=388.37 Aligned_cols=308 Identities=28% Similarity=0.454 Sum_probs=218.4
Q ss_pred eeEEEEEEecceeeEEEeeCCCCCCchhHHHhhHhhhhccCchHHHHHHHHHHHhhhHHHHHH-HhhcCCeeeEEEEEEE
Q 000430 366 HHSCCVVVKNMQRCVYAIPNGPLFQTDEIMKLEKDAEESRISPMAFRKKLQDVALGLKTEIAN-QLLNLNVSNYIVSPVK 444 (1517)
Q Consensus 366 ~~Sccv~V~n~~R~~y~lPr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~ei~~-~~~~~~i~~~~~k~v~ 444 (1517)
+.||||+|+|+.|+||++|++..... + + .+++.. +..+.++..+++++|+
T Consensus 5 g~svcv~v~~f~pyfYv~~~~~~~~~-~-----------------~-----------~~~~~~~~~~~~~~~~~~~~~V~ 55 (325)
T PF03104_consen 5 GKSVCVRVHGFRPYFYVLPPESDSPK-D-----------------L-----------EQFIEQLLRKKFKIDVFKIEKVK 55 (325)
T ss_dssp SEEEEEEEST--EEEEEEESSGGGHH-H-----------------H-----------TTHEEHHEETTEEEEEEEEEEEE
T ss_pred CCEEEEEEcCCCEEEEEECCCCccHH-H-----------------H-----------HHHHHHHhhhccCCceEEEEEEE
Confidence 49999999999999999999742100 0 0 001111 3346788999999999
Q ss_pred eecccCCCCCCCCceeEEEEEecCCCC--CCCcCCCCCccccccCCCchHHHHHhhhcCCCCceeEEEeccccCCCCCCc
Q 000430 445 RRYAFGQAEIPAGENYVLKINYPFKDP--PLPADLKGENFCSLLGTHSSALELFLVKRKVKGPSWLSISKFSSCPAPQRV 522 (1517)
Q Consensus 445 r~yafe~~~vp~~~~~~lkv~y~~~~p--~lp~~l~G~tf~~vfgtn~s~~ErFli~rkI~Gp~Wl~i~~~~~~~~~~~~ 522 (1517)
|++.|+..+.+.. . |+||.|+...+ .++..+++ ++.++||+++++++|||++++|+||||+++++... ......
T Consensus 56 r~~~~~~y~~~~~-~-~lkV~~~~~~~~~~~~~~l~~-~~~~~~e~~i~~~~rfl~~~~i~~~~wi~i~~~~~-~~~~~~ 131 (325)
T PF03104_consen 56 RKKSFYGYDGKEE-P-FLKVYFSSPRDVRKLRDNLKK-TFFKVYEADIPPLERFLIDRNIRGPGWIKIKNPSK-PVKDRV 131 (325)
T ss_dssp EEEESSEETTEEE-E-EEEEEESSTTHHHHHHHHHHH-TEEEEESTSS-HHHHHHHHTTHCTTEEEEEETTEC-HHHHHT
T ss_pred eeeeeccCCCCCc-e-EEEEEECcHHHHHHHHHHHHh-ccchhhccCCCHHHheeeecCcccceeeecccccc-cccccc
Confidence 9666554444432 3 79999976665 77878887 89999999999999999999999999999987611 124577
Q ss_pred ccceEEEEEeCCCCcccccCCCCCCCCCCceEEEEEeeecCCC----CCCcccEEEEEEEEeecccccCccccccccCCC
Q 000430 523 SWCKYEITVDSPKDIRVSSSSKHVAEVPPVTVTAINLKTVFNK----RQDVNEIVSASVVCCHKAKIDTPMLASEWKKPG 598 (1517)
Q Consensus 523 S~Ck~Ev~v~~~~~I~~~~~~~~~~~~PpL~vlS~dIeT~~n~----~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~ 598 (1517)
|||+.|+.|... ++..... ....|||++|||||||..+. ....++|+|||++++....- .+ .
T Consensus 132 s~~~~e~~~~~~-~~~~~~~---~~~~p~l~i~s~DIe~~~~~~~~P~~~~d~I~~Is~~~~~~~~~-~~---------~ 197 (325)
T PF03104_consen 132 SWCDIEFSVDYS-NLKPLPD---ESIPPPLRILSFDIETYSNDGKFPDPEKDEIIMISYVVYRNGSS-EP---------Y 197 (325)
T ss_dssp CTCSCECECCHH-HHECHTS---SSSGGGSEEEEEEEEECSSSSSS-TTTTSEEEEEEEEEEETTEE-ET---------T
T ss_pred cccccccccccc-ccccccc---cccccccceeEEEEEEccccCCCCCCCCCeEEEEEEEEEecccc-CC---------C
Confidence 999999998653 3333111 11229999999999998665 45789999999999876411 01 0
Q ss_pred ccceEEEEecCCCcccCCccchhhhcccCCC-CCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHH
Q 000430 599 MLSHFTVVRKLDGGIFPMGFNKEATDRNSKA-GSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQ 677 (1517)
Q Consensus 599 ~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~-g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~ 677 (1517)
....|++... . ... +..|+.+ ++|++||.+|+++|+++|||||+|||+.+|||+||++||+
T Consensus 198 ~~~~~~~~~~-~----------------~~~~~~~v~~~-~~E~~lL~~f~~~i~~~dPDii~GyN~~~fD~~yl~~R~~ 259 (325)
T PF03104_consen 198 RRKVFTLGSC-D----------------SIEDNVEVIYF-DSEKELLEAFLDIIQEYDPDIITGYNIDGFDLPYLIERAK 259 (325)
T ss_dssp EEEEEECSCS-C----------------CTTCTTEEEEE-SSHHHHHHHHHHHHHHHS-SEEEESSTTTTHHHHHHHHHH
T ss_pred ceEEEEecCC-C----------------CCCCCcEEEEE-CCHHHHHHHHHHHHHhcCCcEEEEecccCCCHHHHHHHHH
Confidence 1123333111 0 011 4466655 7999999999999999999999999999999999999999
Q ss_pred HcCCCC-----CccccccccccCCCcccccCcccccCCCCCCceeeecceEEeecHHHHhhccccCCCCHHHH
Q 000430 678 VCRVPS-----SMWSKIGRLKRSEMPKLRKGRTIFGSGASPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQL 745 (1517)
Q Consensus 678 ~lkI~~-----~~wsriGRlkr~~~p~~~~~~~~fg~~~~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~v 745 (1517)
.+|++. ..|+++||+++..++... ++ ........++||++||++.++++.+++.||+|++|
T Consensus 260 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~--~~~~~~~~~~Gr~~~D~~~~~~~~~~l~sY~L~~V 325 (325)
T PF03104_consen 260 KLGIDMFDLNGRRWSRFGRLKRKKWPSSA-----NG--SRKFSRIDIPGRLVLDLYRLARKDYKLDSYSLDNV 325 (325)
T ss_dssp HTTTCTHHSTTSTTTEEEEEEEEESEECT-----CC--CTTEEEEEETTSEEEEHHHHHHHHS--SS-SHHHH
T ss_pred HhCccccccccccccceeEEeeccccccc-----CC--CcceeEEEECCChHhHHHHHHHhhCCCCCCCCCCC
Confidence 997653 137777777665544321 11 11123457999999999999999999999999987
No 29
>cd05777 DNA_polB_delta_exo DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase delta, a family-B DNA polymerase. The 3'-5' exonuclease domain of eukaryotic DNA polymerase delta. DNA polymerase delta is a family-B DNA polymerase with a catalytic subunit that contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain. It is one of the three DNA-dependent type B DNA polymerases (alpha and epsilon are the other two) that have been identified as essential for nuclear DNA replication in eukaryotes. DNA polymerase delta is the enzyme responsible for both elongation and maturation of Okazaki fragments on the lagging strand. It is also implicated in mismatch repair (MMR) and base excision repair (BER). The catalytic subunit displays both polymerase and 3'-5' exonuclease activities. The exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic
Probab=100.00 E-value=1.5e-32 Score=308.28 Aligned_cols=219 Identities=21% Similarity=0.301 Sum_probs=171.0
Q ss_pred CCCCCceEEEEEeeec-----CCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchh
Q 000430 547 AEVPPVTVTAINLKTV-----FNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKE 621 (1517)
Q Consensus 547 ~~~PpL~vlS~dIeT~-----~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~ 621 (1517)
.++|||++|||||||. ||+++. ++|++||+.+.....- .+. ....|++ .++
T Consensus 2 ~~~p~l~~ls~DIE~~s~~g~fP~p~~-D~Ii~Is~~~~~~~~~---~~~-------~~~~~~l----~~~--------- 57 (230)
T cd05777 2 SKIAPLRILSFDIECAGRKGVFPEPEK-DPVIQIANVVTRQGEG---EPF-------IRNIFTL----KTC--------- 57 (230)
T ss_pred CCCCCceEEEEEEEECCCCCCCCCCCC-CeEEEEEEEEEeCCCC---CCc-------eeEEEEe----CCC---------
Confidence 3689999999999997 677664 7999999987654321 110 0122333 111
Q ss_pred hhcccCCCCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcc--
Q 000430 622 ATDRNSKAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPK-- 699 (1517)
Q Consensus 622 ~~~~~~~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~-- 699 (1517)
....|..|..+ .+|++||.+|+++|+++|||||+|||+.+||||||.+||+.+|++. |+++||+++...+.
T Consensus 58 ----~~~~~~~v~~~-~~E~eLL~~f~~~i~~~DPDii~GyN~~~FDl~yL~~R~~~l~i~~--~~~lgR~~~~~~~~~~ 130 (230)
T cd05777 58 ----APIVGAQVFSF-ETEEELLLAWRDFVQEVDPDIITGYNICNFDLPYLLERAKALKLNT--FPFLGRIKNIKSTIKD 130 (230)
T ss_pred ----CCCCCCEEEEE-CCHHHHHHHHHHHHHhcCCCEEEEecCCCCCHHHHHHHHHHhCCcc--ccccccccCCceeEeC
Confidence 11234556544 7999999999999999999999999999999999999999999987 99999987643221
Q ss_pred cccCcccccCCCCCCceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcc-hhHHHHHHH
Q 000430 700 LRKGRTIFGSGASPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTL-ESLMELIEY 778 (1517)
Q Consensus 700 ~~~~~~~fg~~~~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~-~~l~~l~~y 778 (1517)
....+..||... .....+.||++||+|.++++.+++.||+|++||+++||.+|.++++++|.++|.++ ..+.++++|
T Consensus 131 ~~~~~~~~g~~~--~~~~~i~GR~~iD~~~~~~~~~kl~sy~L~~Va~~~Lg~~k~d~~~~~i~~~~~~~~~~~~~l~~Y 208 (230)
T cd05777 131 TTFSSKQMGTRE--TKEINIEGRIQFDLLQVIQRDYKLRSYSLNSVSAHFLGEQKEDVHYSIITDLQNGNPETRRRLAVY 208 (230)
T ss_pred Cccccccccccc--ceEEEEcCEEeeeHHHHHHHhcCcccCcHHHHHHHHhCCCCCCCCHHHHHHHHccCHhHhHHHHHh
Confidence 001122333221 12357899999999999999999999999999999999999999999999999755 458899999
Q ss_pred HHHhHHHHHHHHhhcccchh
Q 000430 779 GETDAWLSMELMFHLSVLPL 798 (1517)
Q Consensus 779 ~~~DA~L~~~L~~kl~ilpL 798 (1517)
|++||.|+++|+.+|++|..
T Consensus 209 ~~~Da~l~l~L~~kl~~~~~ 228 (230)
T cd05777 209 CLKDAYLPLRLLDKLMCLVN 228 (230)
T ss_pred hHHHHHHHHHHHHHHhhHcc
Confidence 99999999999999988763
No 30
>PHA02523 43B DNA polymerase subunit B; Provisional
Probab=100.00 E-value=9.1e-33 Score=314.17 Aligned_cols=290 Identities=19% Similarity=0.219 Sum_probs=212.9
Q ss_pred HHhhHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHH--------HHHhccCce-EEEeeccceee
Q 000430 977 IQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAELITQQGREILRSTVD--------LVQNNLNLE-VIYGDTDSIMI 1047 (1517)
Q Consensus 977 ~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~~IT~~GR~iL~~t~~--------~ve~~~g~~-VIYGDTDSimI 1047 (1517)
.+..+.+|.|+|+++||+|||||+.++|||++++|++||++||++|+.+.. +++ ..|++ |||||||||||
T Consensus 36 ~a~~~~~q~AiKIlmNSfYGylG~~~~R~yd~e~A~aVT~~Gre~Ik~i~~~~ney~~~l~~-t~G~~~VIYgDTDSifv 114 (391)
T PHA02523 36 EQKRNTNQLNRKILINSLYGALGNNWFRYFDLRNAEAITTYGQLAIRWIERKLNEYINELVK-TTGVDYVCYIDTDSVYL 114 (391)
T ss_pred HHHHhcchHHHHHHHHhhhhhhcCCCceecCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh-hcCcceEEEecCCeeEE
Confidence 345688899999999999999999999999999999999999999995555 444 36996 99999999999
Q ss_pred ecCcccHHHHH---------------HHHHHH-----------HHHHhcccceeEEeeeeeeeee--------eeeccce
Q 000430 1048 HSGIDDIAKAK---------------AIAGKV-----------IQEVNKKYKCLEIDLDGLYKRM--------LLLKKKK 1093 (1517)
Q Consensus 1048 ~~~~~~~~ea~---------------~ig~~i-----------~~~Vn~~~~~leLE~E~vy~~~--------lLl~KKr 1093 (1517)
+++.-...... ....++ ++++|.....+.+++|++|.++ ++.+|||
T Consensus 115 ~~~~~v~~~~~~~~~d~~~~vd~ldk~~~~~iE~~In~sY~el~eymna~~h~~~m~rE~ia~~f~~s~g~~gfw~~KKR 194 (391)
T PHA02523 115 NMEAVVNRVGIDKFRDTNHLIDFLDNLGSKKLEPFIDDSYKELEEYMNHDHHLLLMDREAIFGAPLGSDGIGGFWTGKKR 194 (391)
T ss_pred EecchHHHHhhhhhccchhhhHHHHHHHHHHhHHHHHHHHHHHHHHhcchhhhhhhhHHHhccccccccccchhhhhhhh
Confidence 98631100000 012233 3444443346899999999997 8889999
Q ss_pred eeEEEeeecCCccc--eeEEEeeeeeeeCchhHhHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHHHhcCCCCccce
Q 000430 1094 YAAVKVQFKDGMPY--EVIERKGLDMVRRDWSLLSKEVGDFCLSQILSERSCEDVVESIHNSLMKVQEDMRSGQVALEKY 1171 (1517)
Q Consensus 1094 Ya~l~~~~~dG~~~--~~~e~KGle~vRRD~c~l~k~~~~~vl~~IL~~~~~e~~~~~i~~~l~~~~~~l~~g~v~l~~l 1171 (1517)
||+-.|. .+|+.+ +++++.|+|.+|+|.++++|++++++++.||.+.. ++ |++++.++++..+ ++|+++.
T Consensus 195 YA~~v~d-~EG~r~~epklkI~G~E~qrSstp~~~~~~~ke~i~~Il~~~e-e~----iqeyi~~~~~ey~--~~~~~~I 266 (391)
T PHA02523 195 YALNVYD-MEGTRYAEPHLKIMGLETQRSSTPLACQKSLKESIRRLLQEGE-SS----LQDYFKEFKDEFK--NIPYQDV 266 (391)
T ss_pred hhheeee-ccCccccCCccceeeeeecccCchHHHHHHHHHHHHHHHhCCh-HH----HHHHHHHHHHHHh--cCCHHHh
Confidence 9998764 678765 58999999999999999999999999999999765 22 5566666777775 7899999
Q ss_pred EE---eeccCCCCCCCCC--CCCchHHHHHHHHHhc-CC---CCCCCCCCeeEEEEEeccCCCCCCCcCccccc---cCc
Q 000430 1172 VI---TKTLTKPPEAYPD--AKNQPHVQVALRLKQS-GY---STGCSAGDTVPYIICCEQGTSSGSSVGIAQRA---RHP 1239 (1517)
Q Consensus 1172 vI---tk~LsK~~~~Y~~--~k~~pHV~vA~rl~~~-g~---~~~~~~Gd~I~YVI~~~~~~~~~~~~~~~~RA---~~P 1239 (1517)
.+ +..+.|..+.|.. ++.+.||..|+--+.. +. -..+..|+.|..+..+...+. ...-...+ .-|
T Consensus 267 a~~s~~~~I~K~~d~~~~~~kg~p~hvrGal~~N~~~~~~~~~~~i~~GeKvk~l~Lk~~np~---~~~c~~~~sgd~iP 343 (391)
T PHA02523 267 AAVSSANNIGKNGDALGFPIKGTPYHVKGVLAYNRIAKTDTAIPMISEGEKVMVLPLRDRNPF---NEACFAWPSGTPIP 343 (391)
T ss_pred cccCCCCchhhcccccCCCCCCCchhhHHHHHHHHHhcccCCCccccCCCceEEEeccCCCCC---CcceEeccCCCCCC
Confidence 88 5888888888754 3467899888744332 11 134789999988877642221 11111222 347
Q ss_pred hhhhhcCCCCCCChHHHHhhCchHHHHHhhcccCCCCHHHH
Q 000430 1240 DELKKGDGKWMIDIDYYASQQIHPVVSRLCASIEGTSPERL 1280 (1517)
Q Consensus 1240 ~ev~~~~~~l~iD~eYYl~~QI~p~v~Rl~~pI~g~~~~~l 1280 (1517)
+|+.-.- .-.+|++--+++.+..|++|||++| |.+-+..
T Consensus 344 ~ef~~D~-~k~iDy~~mfeKtf~~Pl~~I~ea~-g~~~ek~ 382 (391)
T PHA02523 344 PAVEADV-LKYLDINKLFDKTFVKPLSSICEAT-KTDYEFR 382 (391)
T ss_pred HHhhccH-HhhccHHHHHHHHHHhHHHHHHHHh-CCChhhe
Confidence 7764321 1247889999999999999988865 4444443
No 31
>cd05778 DNA_polB_zeta_exo inactive DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase zeta, a family-B DNA polymerase. The 3'-5' exonuclease domain of eukaryotic DNA polymerase zeta. DNA polymerase zeta is a family-B DNA polymerase which is distantly related to DNA polymerase delta. It plays a major role in translesion replication and the production of either spontaneous or induced mutations. In addition, DNA polymerase 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. The catalytic subunit contains both polymerase and 3'-5' exonuclease domains, but only exhibits polymerase activity. The DnaQ-like 3'-5' exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, without the four conserved acidic residues that are crucial for metal binding and catalysis.
Probab=99.97 E-value=2.6e-29 Score=281.96 Aligned_cols=217 Identities=16% Similarity=0.188 Sum_probs=163.0
Q ss_pred CceEEEEEeeec-----CCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhh--
Q 000430 551 PVTVTAINLKTV-----FNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEAT-- 623 (1517)
Q Consensus 551 pL~vlS~dIeT~-----~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~-- 623 (1517)
.|++|||||+|. ||++++ ++|.+|+..+...... ... ... ...+++-... +....
T Consensus 3 ~l~~ls~dI~~~s~~~~~Pdp~~-D~I~~I~~~~~~~~~~---~~~-----~~~-~~~~l~~~~~--------~~~~~~~ 64 (231)
T cd05778 3 HLTILSLEVHVNTRGDLLPDPEF-DPISAIFYCIDDDVSP---FIL-----DAN-KVGVIIVDEL--------KSNASNG 64 (231)
T ss_pred ceEEEEEEEEECCCCCCCcCCCC-CCeeEEEEEEecCCCc---ccc-----ccc-ceeEEEEcCc--------cchhhhh
Confidence 589999999987 677775 6788888776543321 000 000 1112211111 10000
Q ss_pred -cccCCCCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCcc-ccccccccCCCcccc
Q 000430 624 -DRNSKAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMW-SKIGRLKRSEMPKLR 701 (1517)
Q Consensus 624 -~~~~~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~w-sriGRlkr~~~p~~~ 701 (1517)
......|..|..+ ++|++||.+|+++|+.+|||||+|||+.+|||+||++||+.++++. | ++|||+++...++..
T Consensus 65 ~~~~~~~~~~v~~~-~~E~~LL~~f~~~i~~~DPDii~GyNi~~fd~~YL~~Ra~~l~~~~--~~~~lgR~~~~~~~~~~ 141 (231)
T cd05778 65 RIRSGLSGIPVEVV-ESELELFEELIDLVRRFDPDILSGYEIQRSSWGYLIERAAALGIDD--LLDEISRVPSDSNGKFG 141 (231)
T ss_pred ccccCCCCCeEEEe-CCHHHHHHHHHHHHHHhCCCEEEEeccccCcHHHHHHHHHHhCCcc--hhhhccCCCCCCccccc
Confidence 0012345566655 7999999999999999999999999999999999999999999997 8 999999876554332
Q ss_pred cCcccccCCCCCCceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcc--hhHHHHHHHH
Q 000430 702 KGRTIFGSGASPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTL--ESLMELIEYG 779 (1517)
Q Consensus 702 ~~~~~fg~~~~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~--~~l~~l~~y~ 779 (1517)
...+.||.+.. ....++||+++|+|..+++.+++.||+|++||.++||+++.++++.+|.++|+++ ..+.++++||
T Consensus 142 ~~~~~~g~~~~--~~~~i~GRi~lD~~~~~r~~~kl~sYsL~~V~~~~L~~~k~~~~~~~i~~~~~~~~~~~r~~v~~Y~ 219 (231)
T cd05778 142 DRDDEWGYTHT--SGIKIVGRHILNVWRLMRSELALTNYTLENVVYHVLHQRIPLYSNKTLTEWYKSGSASERWRVLEYY 219 (231)
T ss_pred ccccccccccC--CceEEeeEEEeEhHHHHHHHcCcccCCHHHHHHHHhCCCCCCCCHHHHHHHHHcCCHhHhHHHHHHH
Confidence 22223543221 2357899999999999999999999999999999999999999999999999753 4689999999
Q ss_pred HHhHHHHHHHH
Q 000430 780 ETDAWLSMELM 790 (1517)
Q Consensus 780 ~~DA~L~~~L~ 790 (1517)
++||.++++|+
T Consensus 220 l~d~~l~l~Ll 230 (231)
T cd05778 220 LKRVRLNLEIL 230 (231)
T ss_pred HHHHHHHHHhh
Confidence 99999999987
No 32
>TIGR00592 pol2 DNA polymerase (pol2). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.96 E-value=6.4e-31 Score=350.17 Aligned_cols=410 Identities=19% Similarity=0.230 Sum_probs=287.5
Q ss_pred ccccCCCchHHHHHhhhcCCCCceeEEEeccccCCCCCCcccceEEEEEeCCCCcccccCCCCCCCCCCceEEEEEeeec
Q 000430 483 CSLLGTHSSALELFLVKRKVKGPSWLSISKFSSCPAPQRVSWCKYEITVDSPKDIRVSSSSKHVAEVPPVTVTAINLKTV 562 (1517)
Q Consensus 483 ~~vfgtn~s~~ErFli~rkI~Gp~Wl~i~~~~~~~~~~~~S~Ck~Ev~v~~~~~I~~~~~~~~~~~~PpL~vlS~dIeT~ 562 (1517)
..+++.+.++.-|.+|++.+.-+.| +.+.. ..+ .+ ....+||++++||||||.
T Consensus 156 ~~~~e~di~~~~r~~~d~~~~p~~~---~~~~~----------------~~~-~~-------~~~~~p~~~~~sfdiE~~ 208 (1172)
T TIGR00592 156 VDIVKKAIPVSTRYLLEKILIPVPL---KRAEF----------------AGG-DV-------QMEGDPELKLASFDIETY 208 (1172)
T ss_pred cccccCCCCccccccccccccCCCC---Ccccc----------------ccc-cc-------cccCCCcccccccccccc
Confidence 3456677777788889888866433 10100 000 01 123469999999999986
Q ss_pred CC-------CCCC-cccEEEEEEEEeeccccc-CccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCCCCce
Q 000430 563 FN-------KRQD-VNEIVSASVVCCHKAKID-TPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKAGSNV 633 (1517)
Q Consensus 563 ~n-------~~~~-~~EI~~iS~~~~~~~~id-~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~g~~v 633 (1517)
.. .+++ .+.|++||+..-...... ...+. ....|..+.| .++.|+.|
T Consensus 209 ~~~g~~~fp~~~~~~D~ii~is~~~~~~~~~~~~~~~~------------------~~~~~~~~~~------~~~~~~~v 264 (1172)
T TIGR00592 209 FHDGKDFFPGDENPADEEIMISTTPVIAKQWDYESEPE------------------ARVVTWKKPD------KPTTGSYV 264 (1172)
T ss_pred cccccccCcccccccccccccccccccccccccCCCcc------------------chhhhccCcc------ccCCCccc
Confidence 32 1222 345667775300000000 00000 0012223322 34467777
Q ss_pred EeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHH-------------HHHHcCCCCCccccccccccCCCccc
Q 000430 634 LCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLH-------------RAQVCRVPSSMWSKIGRLKRSEMPKL 700 (1517)
Q Consensus 634 ~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~-------------Ra~~lkI~~~~wsriGRlkr~~~p~~ 700 (1517)
..+ ++|.+||..|+.+|++.|||||+|||+.+||||||++ |++.+|. ...+||.........
T Consensus 265 ~~~-~~E~~~L~~f~~~i~~~dpdii~gYNi~~FD~pyl~~~~~~~~~~da~~dr~~~~G~----~~lfGr~~~~~s~~~ 339 (1172)
T TIGR00592 265 ESV-SEEISMIKRFWDVIDQEDTDVEITVNGDNFDLVYLADRQVFQFYWDAYEDPAEKLGV----VLLFGRDVDHVSPCV 339 (1172)
T ss_pred eec-cchHHHHhhHHHHHhhcCcchhcccccccCccceecCCceEEeeHHhhhHHhhCCCe----EEEecccCCceeEEE
Confidence 766 7999999999999999999999999999999999999 5554443 345676211100000
Q ss_pred ccCccccc-CCCCCCceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHH
Q 000430 701 RKGRTIFG-SGASPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYG 779 (1517)
Q Consensus 701 ~~~~~~fg-~~~~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~ 779 (1517)
...| .+. .....+.||+.+|++..+++.+++.+|+|+.|+.++||.++.++.+..|.+.|..... .+++.||
T Consensus 340 ----~v~g~~R~--~~~l~~~Grv~~D~~~~~~~~~~l~~y~le~vs~~~lg~~k~dv~~k~I~~~~~~~~~-~~~v~y~ 412 (1172)
T TIGR00592 340 ----QVKGINRD--LFFLPREGKIDFDLGKVTRRTINLPDYYLEFVSELALGYKKEKFRAKPIAKKYEFEAP-DIDAPYS 412 (1172)
T ss_pred ----EECCeeee--eEEeeccccccccccchhcccccHHHHHHHHHHHHHhhcCcCceeeEEehhhccCCCC-ccCCcCC
Confidence 0111 000 1123578999999999999999999999999999999999999999999999986532 2578999
Q ss_pred HHhHHHHHHHHhhcccchhHHHHhhhcCCchhhhhcccccchhHHhHHHHHHhcCeeccCccchhhHhhhhhcccCCCcc
Q 000430 780 ETDAWLSMELMFHLSVLPLTRQLTNISGNLWGKTLQGARAQRVEYLLLHAFRAKKYIVPDKFTYVKETKMAKQRSNHGVE 859 (1517)
Q Consensus 780 ~~DA~L~~~L~~kl~ilpL~~qLt~I~Gn~~~rtL~g~r~~r~E~LLLhef~~~~yI~Pdk~~~~~~~~~~~~r~~~~~e 859 (1517)
.+|+.+++.|+.++..++ .....+.|..++.+...++++.+++++.+.+...+++.|......
T Consensus 413 ~~~lkv~y~l~~~~~~l~--~l~~~~~g~~~~~vf~~n~g~~erfll~rki~gp~WL~i~~p~~~--------------- 475 (1172)
T TIGR00592 413 SEYLEVTYELGKEFAPME--ALPSDLKGQTFWHVFGSNTGNLERFLLLRKIKGPCWLAVKGPDEL--------------- 475 (1172)
T ss_pred cceEEEEEccCccchhhh--hhhhhccCCcchheeccCHHHHHHHHhcCCCCCCceEEeCCCccc---------------
Confidence 999999999887655444 334678899999998889999999999988888888877543110
Q ss_pred cccccccccccCCCCCCCCccccccCCCCCCCCCceeeec--ccccccc--eEEEeecc--CcchhHHHHhCcccccccc
Q 000430 860 DRNVEELTNEDANFDNDTSHNDHRKGKRGPAYAGGLVLEP--KKGLYDK--YILLLDFN--SLYPSIIQEYNICFTTVER 933 (1517)
Q Consensus 860 ~~~~~~~~~~d~~~~~~~~~~~~~~~~~k~~Y~GGlVleP--~~Gly~~--~V~~LDF~--SLYPSII~~~NIc~tTv~~ 933 (1517)
..+ .....+|+|+.|++| .+|+|.+ ||++|||+ |||||||++||||++|++.
T Consensus 476 ---------------------~~~-~~S~c~yEga~v~~p~v~~g~~~~~pPl~vLdFsi~SlyPsi~~~~nl~iS~~v~ 533 (1172)
T TIGR00592 476 ---------------------EYP-RRSWCKYEGGYVKPPNVEKGLDKTPPPLVVLDFSMKSLNPSIIRNEIVSIPDTLH 533 (1172)
T ss_pred ---------------------CcC-CccccceEEEEecCccccccccCCCCCeEEEEeeeEEecCccccCceEEEEEEEe
Confidence 000 012357999999999 9999998 89999999 9999999999999877763
Q ss_pred CC--------CCCccc------------CC---CCCccCCcHHHHHHHHHHHHHHHHHHhhcc--h-hHHHhhHHHHHHH
Q 000430 934 SP--------DGLVPH------------LP---SSKTTGVLPELLKNLVQRRRMVKTWMKTAS--G-LKIQQLDIQQQAL 987 (1517)
Q Consensus 934 ~~--------d~~v~~------------~p---~~~~~GilP~iL~~Ll~~R~~vK~~mK~~~--~-~~~~~~d~rQ~Al 987 (1517)
.. +..... +| .....|++|..|..+.+.|..+++.|+... | +....||++|.||
T Consensus 534 ~~~~~d~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~L~~~~sEr~lL~~fl~~~~~~DPDii~g~n~~qfdl 613 (1172)
T TIGR00592 534 REFALDKPPPEPPYDVHPCVGTRPKDCSFPLDLKGEFPGKKPSLVEDLATERALIKKFMAKVKKIDPDEIVGHDYQQRAL 613 (1172)
T ss_pred ecccccCCCCCCccceEEEEEEccCCCCCCchhhhhhhccCCcEEEEecCHHHHHHHHHHHHHhcCCCEEEEEcccCccH
Confidence 21 110100 11 114678999999999999999999999775 3 6778899999999
Q ss_pred hhhhhcc
Q 000430 988 KLTANSM 994 (1517)
Q Consensus 988 Kl~aNS~ 994 (1517)
|+++|=+
T Consensus 614 kvl~nR~ 620 (1172)
T TIGR00592 614 KVLANRI 620 (1172)
T ss_pred HHHHHHH
Confidence 9999943
No 33
>cd05780 DNA_polB_Kod1_like_exo DEDDy 3'-5' exonuclease domain of Pyrococcus kodakaraensis Kod1 and similar archaeal family-B DNA polymerases. The 3'-5' exonuclease domain of archaeal family-B DNA polymerases with similarity to Pyrococcus kodakaraensis Kod1, including polymerases from Desulfurococcus (D. Tok Pol) and Thermococcus gorgonarius (Tgo Pol). Kod1, D. Tok Pol, and Tgo Pol are thermostable enzymes that exhibit both polymerase and 3'-5' exonuclease activities. They are family-B DNA polymerases. Their amino termini harbor a DEDDy-type DnaQ-like 3'-5' exonuclease domain that contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and are involved in metal binding and catalysis. The exonuclease domain of family B polymerases contains a beta hairpin structure that plays an important role in active site switching in the event of nucleotide misincorporation. Members of this subfamily show
Probab=99.95 E-value=1.7e-27 Score=261.03 Aligned_cols=191 Identities=19% Similarity=0.253 Sum_probs=150.3
Q ss_pred CCceEEEEEeeec----CCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcc
Q 000430 550 PPVTVTAINLKTV----FNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDR 625 (1517)
Q Consensus 550 PpL~vlS~dIeT~----~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~ 625 (1517)
|+|+++||||||. +|.+ ..++|++||+...... ..++. .+ . .
T Consensus 1 p~l~i~~fDIEt~~~~g~p~~-~~d~Ii~Is~~~~~~~-----------------~~~~~-~~-~------~-------- 46 (195)
T cd05780 1 EDLKILSFDIEVLNHEGEPNP-EKDPIIMISFADEGGN-----------------KVITW-KK-F------D-------- 46 (195)
T ss_pred CCceEEEEEEEecCCCCCCCC-CCCcEEEEEEecCCCc-----------------eEEEe-cC-C------C--------
Confidence 8999999999996 4444 4588999998552211 11111 00 0 0
Q ss_pred cCCCCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcc
Q 000430 626 NSKAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRT 705 (1517)
Q Consensus 626 ~~~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~ 705 (1517)
. . . +..+.+|++||.+|+++|+++|||||+|||+.+||||||.+|+..+|++. .+||.++ .|++.+.+.
T Consensus 47 -~-~--~-v~~~~~E~~lL~~F~~~i~~~dpdiivgyN~~~FD~pyL~~R~~~~gi~~----~~~r~~~--~~~~~~~g~ 115 (195)
T cd05780 47 -L-P--F-VEVVKTEKEMIKRFIEIVKEKDPDVIYTYNGDNFDFPYLKKRAEKLGIEL----DLGRDGS--EIKIQRGGF 115 (195)
T ss_pred -C-C--e-EEEeCCHHHHHHHHHHHHHHcCCCEEEecCCCCCcHHHHHHHHHHhCCCC----ccccCCC--ceeEeecce
Confidence 0 0 1 23347999999999999999999999999999999999999999999985 4566542 233222111
Q ss_pred cccCCCCCCceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHH
Q 000430 706 IFGSGASPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWL 785 (1517)
Q Consensus 706 ~fg~~~~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L 785 (1517)
. ....+.||+++|++..+++.+++.||+|++||+++||.+|.++++++|.++|.+++.+.++++||++||.+
T Consensus 116 ~--------~~~~i~Gr~~lDl~~~~~~~~~l~sy~L~~v~~~~Lg~~k~d~~~~~i~~~~~~~~~~~~l~~Y~~~D~~l 187 (195)
T cd05780 116 N--------NASEIKGRIHVDLYPVARRTLNLTRYTLERVYEELFGIEKEDVPGEEIAEAWDSGENLERLFRYSMEDAKY 187 (195)
T ss_pred e--------eeeccCCeEEEeHHHHHHhhCCCCcCcHHHHHHHHhCCCCCcCCHHHHHHHHhCCCchHHHHHHhHHHHHH
Confidence 1 12357899999999999999999999999999999999999999999999999876789999999999999
Q ss_pred HHHHHhhc
Q 000430 786 SMELMFHL 793 (1517)
Q Consensus 786 ~~~L~~kl 793 (1517)
+++|+.++
T Consensus 188 t~~L~~~~ 195 (195)
T cd05780 188 TYEIGKEF 195 (195)
T ss_pred HHHHHhhC
Confidence 99999753
No 34
>cd05784 DNA_polB_II_exo DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase II and similar bacterial family-B DNA polymerases. The 3'-5' exonuclease domain of Escherichia coli DNA polymerase II (Pol II) and similar bacterial proteins. Pol II is a family-B DNA polymerase. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. This exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and are involved in metal binding and catalysis. The exonuclease domain has a fundamental role in the proofreading activity of polII. It contains a beta hairpin structure that plays an important role in active site switching in the event of a nucleotide misincorporation. Pol II is involved in a variety of cellular activities, such as the repair of DNA damaged
Probab=99.95 E-value=3.4e-27 Score=257.86 Aligned_cols=187 Identities=21% Similarity=0.321 Sum_probs=140.9
Q ss_pred CCceEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCC
Q 000430 550 PPVTVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKA 629 (1517)
Q Consensus 550 PpL~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~ 629 (1517)
|||++|||||||... ++|.+|++..... + ..+++ .... ...
T Consensus 1 p~l~~~~fDIE~~~~-----~~i~~i~~~~~~~----~-------------~i~~~-~~~~----------------~~~ 41 (193)
T cd05784 1 PKLKVVSLDIETSMD-----GELYSIGLYGEGQ----E-------------RVLMV-GDPE----------------DDA 41 (193)
T ss_pred CCccEEEEEeecCCC-----CCEEEEEeecCCC----C-------------EEEEE-CCCC----------------CCC
Confidence 899999999999632 3888887632100 0 11222 1100 012
Q ss_pred CCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccC
Q 000430 630 GSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGS 709 (1517)
Q Consensus 630 g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~ 709 (1517)
|..+.. +++|++||.+|+++|+++|||||+|||+.+||||||.+||+.+|++. ++||.++. |.+...+ ..
T Consensus 42 ~~~v~~-~~~E~~lL~~f~~~i~~~dPDvi~g~N~~~FD~~yl~~R~~~~~i~~----~~gR~~~~--~~~~~~g-~~-- 111 (193)
T cd05784 42 PDNIEW-FADEKSLLLALIAWFAQYDPDIIIGWNVINFDLRLLQRRAEAHGLPL----RLGRGGSP--LNWRQSG-KP-- 111 (193)
T ss_pred CCEEEE-ECCHHHHHHHHHHHHHhhCCCEEEECCCcCcCHHHHHHHHHHhCCCc----ccccCCCc--cccccCC-cC--
Confidence 334444 47999999999999999999999999999999999999999999986 46666542 2221111 00
Q ss_pred CCCCCceeeecceEEeecHHHHhh-ccccCCCCHHHHHHHhcCCCCCccC----hhhHHHHHhcchhHHHHHHHHHHhHH
Q 000430 710 GASPGIMSCIAGRLLCDTFLCSRD-LLREVSYSLTQLAKTQLNKDRKEVG----PHDVLKMFQTLESLMELIEYGETDAW 784 (1517)
Q Consensus 710 ~~~~~~~~~i~GRlv~D~~~~~k~-~~k~~SYsL~~va~~~Lg~~k~di~----~~eI~~~~~~~~~l~~l~~y~~~DA~ 784 (1517)
......+.||++||++..+++ .++++||+|++||+++||.+|.+++ +.+|.++|.++. .++++||++||.
T Consensus 112 ---~~~~~~i~GR~~~D~~~~~k~~~~kl~sy~L~~Va~~~Lg~~K~~~~~~~~~~eI~~~~~~~~--~~l~~Y~~~Da~ 186 (193)
T cd05784 112 ---GQGFLSLPGRVVLDGIDALKTATYHFESFSLENVAQELLGEGKLIHDVDDRGAEIERLFREDK--LALARYNLQDCE 186 (193)
T ss_pred ---CcceEEEeeEEEEEhHHHHHHccCCCCcCCHHHHHHHHhCCCccccCcccCHHHHHHHHhhCH--HHHHHHHHHHHH
Confidence 112457899999999988876 6899999999999999999888765 459999999765 489999999999
Q ss_pred HHHHHH
Q 000430 785 LSMELM 790 (1517)
Q Consensus 785 L~~~L~ 790 (1517)
|+++|+
T Consensus 187 L~l~L~ 192 (193)
T cd05784 187 LVWRIF 192 (193)
T ss_pred HHHHHh
Confidence 999997
No 35
>cd05785 DNA_polB_like2_exo Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases. A subfamily of the 3'-5' exonuclease domain of family-B DNA polymerases. This subfamily is composed of uncharacterized bacterial family-B DNA polymerases. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. This exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are involved in metal binding and catalysis. The exonuclease domain of family-B DNA polymerases has a fundamental role in proofreading activity. It contains a beta hairpin structure that plays an important role in active site switching in the event of a nucleotide misincorporation. Family-B DNA polymerases are predominantly involved in DNA replication and DNA repair.
Probab=99.94 E-value=5.6e-26 Score=251.01 Aligned_cols=190 Identities=22% Similarity=0.259 Sum_probs=143.7
Q ss_pred CCCCCceEEEEEeeecCC------C-CCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccc
Q 000430 547 AEVPPVTVTAINLKTVFN------K-RQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFN 619 (1517)
Q Consensus 547 ~~~PpL~vlS~dIeT~~n------~-~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~ 619 (1517)
...|+|++|||||||..+ . ....++|+|||+....+. . ..+.
T Consensus 4 ~~~~~lkilsfDIE~~~~~~~~~p~p~~~~d~Ii~Is~~~~~~~-----------~-----~~~~--------------- 52 (207)
T cd05785 4 MTFDDLRRLQLDIETYSLPGFFFSNPDRGDDRIIIVALRDNRGW-----------E-----EVLH--------------- 52 (207)
T ss_pred CCCCCceEEEEEEEecCCCCccCCCCCCCCCeEEEEecccCCCc-----------e-----eeec---------------
Confidence 357999999999999632 1 234467999987422110 0 0000
Q ss_pred hhhhcccCCCCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcc
Q 000430 620 KEATDRNSKAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPK 699 (1517)
Q Consensus 620 ~~~~~~~~~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~ 699 (1517)
. . +.+|++||.+|+++|+++|||||||||+.+||||||.+|++.+|++.. |+++|+..+..
T Consensus 53 ---------~-----~-~~~E~~lL~~f~~~i~~~dPdii~g~N~~~FD~pyl~~R~~~~~~~~~-~~r~~~~~~~~--- 113 (207)
T cd05785 53 ---------A-----E-DAAEKELLEELVAIIRERDPDVIEGHNIFRFDLPYLRRRCRRHGVPLA-IGRDGSIPRQR--- 113 (207)
T ss_pred ---------c-----C-CCCHHHHHHHHHHHHHHhCCCEEeccCCcccCHHHHHHHHHHhCCCcc-cccCCCcceEe---
Confidence 0 1 268999999999999999999999999999999999999999999873 77776643321
Q ss_pred cccCcccccCCCCCCceeeecceEEeecHHHHhh----ccccCCCCHHHHHHHh--cCCCCCccChhhHHHHHhcchhHH
Q 000430 700 LRKGRTIFGSGASPGIMSCIAGRLLCDTFLCSRD----LLREVSYSLTQLAKTQ--LNKDRKEVGPHDVLKMFQTLESLM 773 (1517)
Q Consensus 700 ~~~~~~~fg~~~~~~~~~~i~GRlv~D~~~~~k~----~~k~~SYsL~~va~~~--Lg~~k~di~~~eI~~~~~~~~~l~ 773 (1517)
.+...++.+........+.||+++|++.++++ ..++.||+|++||+++ ++.+|.++++.+|.++|.++. .
T Consensus 114 --~~~~~~~~~~~~~~~~~i~Gr~~iDl~~~~~~~~~~~~~l~sysL~~Va~~~g~~~~~k~d~~~~~I~~l~~~~~--~ 189 (207)
T cd05785 114 --PSRFRFAERLIDYPRYDIPGRHVIDTYFLVQLFDVSSRDLPSYGLKAVAKHFGLASPDRTYIDGRQIAEVWRSDP--A 189 (207)
T ss_pred --eccccccccccccceEEecCEEEEEcHHHHHhhcccccCCCCCCHHHHHHHhcccCCCcCCCCHHHHHHHHhcCH--H
Confidence 11112222211123457899999999998875 4578999999999997 677899999999999999864 5
Q ss_pred HHHHHHHHhHHHHHHHH
Q 000430 774 ELIEYGETDAWLSMELM 790 (1517)
Q Consensus 774 ~l~~y~~~DA~L~~~L~ 790 (1517)
++++||++|+.+|++|.
T Consensus 190 ~l~~Y~~~D~~~t~~l~ 206 (207)
T cd05785 190 RLLAYALDDVRETEGLA 206 (207)
T ss_pred HHHHHHHHHHHHHHHhh
Confidence 99999999999999885
No 36
>cd05781 DNA_polB_B3_exo DEDDy 3'-5' exonuclease domain of Sulfurisphaera ohwakuensis DNA polymerase B3 and similar archaeal family-B DNA polymerases. The 3'-5' exonuclease domain of archaeal proteins with similarity to Sulfurisphaera ohwakuensis DNA polymerase B3. B3 is a family-B DNA polymerase. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. B3 exhibits both polymerase and 3'-5' exonuclease activities. This exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and are involved in metal binding and catalysis. The exonuclease domain of family B polymerases also contains a beta hairpin structure that plays an important role in active site switching in the event of nucleotide misincorporation. Archaeal proteins that are involved in DNA replicatio
Probab=99.93 E-value=4.1e-25 Score=240.89 Aligned_cols=179 Identities=21% Similarity=0.311 Sum_probs=142.5
Q ss_pred CCceEEEEEeeec----CCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcc
Q 000430 550 PPVTVTAINLKTV----FNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDR 625 (1517)
Q Consensus 550 PpL~vlS~dIeT~----~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~ 625 (1517)
|||++|||||||. ||.+. .+.|+|||+....+. . .++
T Consensus 1 p~l~~l~fDIEt~~~~gfp~~~-~d~Ii~Is~~~~~g~-----------------~--~~~------------------- 41 (188)
T cd05781 1 PDLKTLAFDIEVYSKYGTPNPR-RDPIIVISLATSNGD-----------------V--EFI------------------- 41 (188)
T ss_pred CCceEEEEEEEecCCCCCCCCC-CCCEEEEEEEeCCCC-----------------E--EEE-------------------
Confidence 8999999999996 45554 478999998552111 0 000
Q ss_pred cCCCCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcc
Q 000430 626 NSKAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRT 705 (1517)
Q Consensus 626 ~~~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~ 705 (1517)
..-..+|++||.+|+++|+++|||||+|||+.+||||||..||+.+|++. .+||.... .++. +
T Consensus 42 --------~~~~~~E~~lL~~F~~~i~~~dPd~i~gyN~~~FDlpyl~~Ra~~~gi~~----~~gr~~~~-~~~~----~ 104 (188)
T cd05781 42 --------LAEGLDDRKIIREFVKYVKEYDPDIIVGYNSNAFDWPYLVERARVLGVKL----DVGRRGGS-EPST----G 104 (188)
T ss_pred --------EecCCCHHHHHHHHHHHHHHcCCCEEEecCCCcCcHHHHHHHHHHhCCCc----ccccCCCc-cccc----C
Confidence 00125899999999999999999999999999999999999999999986 35553221 1111 1
Q ss_pred cccCCCCCCceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCC----CCCccChhhHHHHHhcchhHHHHHHHHHH
Q 000430 706 IFGSGASPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNK----DRKEVGPHDVLKMFQTLESLMELIEYGET 781 (1517)
Q Consensus 706 ~fg~~~~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~----~k~di~~~eI~~~~~~~~~l~~l~~y~~~ 781 (1517)
.|+ ...+.||+++|++.+++...++.||+|++||+. ||. ++.++++.+|.++|.++.++.++++||++
T Consensus 105 ~~~-------~~~i~Gr~~iDl~~~~~~~~~l~~y~L~~Va~~-Lg~~k~~~k~~~~~~~i~~~~~~~~~~~~l~~Y~~~ 176 (188)
T cd05781 105 VYG-------HYSITGRLNVDLYDFAEEIPEVKVKTLENVAEY-LGVMKKSERVLIEWYRIYEYWDDEKKRDILLKYNRD 176 (188)
T ss_pred Ccc-------eEeeeeEEEEEhHHHHHhhCCCCCCCHHHHHHH-HCCCccccccCCCHHHHHHHHcCcccHHHHHHHHHH
Confidence 122 246899999999999999999999999999984 886 46679999999999987678899999999
Q ss_pred hHHHHHHHHhh
Q 000430 782 DAWLSMELMFH 792 (1517)
Q Consensus 782 DA~L~~~L~~k 792 (1517)
|+.+++.|+.+
T Consensus 177 D~~~t~~l~~~ 187 (188)
T cd05781 177 DARSTYGLAEK 187 (188)
T ss_pred HHHHHHHHHhh
Confidence 99999999875
No 37
>cd05160 DEDDy_DNA_polB_exo DEDDy 3'-5' exonuclease domain of family-B DNA polymerases. The 3'-5' exonuclease domain of family-B DNA polymerases. This domain has a fundamental role in reducing polymerase errors and is involved in proofreading activity. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. This domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. The exonuclease domain of family B polymerase also contains a beta hairpin structure that plays an important role in active site switching in the event of nucleotide misincorporation. Members include Escherichia coli DNA polymerase II, some eubacterial phage DNA polymerases, nuclear replicative
Probab=99.93 E-value=4.5e-25 Score=242.03 Aligned_cols=195 Identities=24% Similarity=0.273 Sum_probs=145.5
Q ss_pred EEEEEeeecCC----CCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCC
Q 000430 554 VTAINLKTVFN----KRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKA 629 (1517)
Q Consensus 554 vlS~dIeT~~n----~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~ 629 (1517)
|+||||||+.+ .+ ..++|++||++....... ..+.....+.....+ .+.
T Consensus 1 v~~~DIEt~~~~~~p~~-~~d~Ii~I~~~~~~~g~~---------------~~~~~~~~~~~~~~~-----------~i~ 53 (199)
T cd05160 1 VLSFDIETTPPVGGPEP-DRDPIICITYADSFDGVK---------------VVFLLKTSTVGDDIE-----------FID 53 (199)
T ss_pred CccEEEeecCCCCCcCC-CCCCEEEEEEEEeeCCce---------------eeEEEeecccCCcCC-----------CCC
Confidence 58999999854 33 478999999987632211 111111111111111 113
Q ss_pred CCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccC
Q 000430 630 GSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGS 709 (1517)
Q Consensus 630 g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~ 709 (1517)
+..+. .+++|++||.+|+++++.+|||||||||+.+||||||.+|+..+|++. | +++.++...++. ...
T Consensus 54 ~~~v~-~~~~E~~lL~~f~~~i~~~dpdiivg~N~~~FD~~~L~~R~~~~~~~~--~--~~~~r~~~~~~~---~~~--- 122 (199)
T cd05160 54 GIEVE-YFADEKELLKRFFDIIREYDPDILTGYNIDDFDLPYLLKRAEALGIKL--T--DGIYRRSGGEKS---SGS--- 122 (199)
T ss_pred CceEE-EeCCHHHHHHHHHHHHHhcCCCEEEEeccCCCcHHHHHHHHHHhCCCc--c--cccccccCCCcc---CCc---
Confidence 34554 448999999999999999999999999999999999999999999987 7 344434333321 111
Q ss_pred CCCCCceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHH
Q 000430 710 GASPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMEL 789 (1517)
Q Consensus 710 ~~~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L 789 (1517)
.....++||++||++..++...++.||+|++||+++||.+|.++++.++..+ .....+.++++||++||.++++|
T Consensus 123 ----~~~~~~~gr~~~D~~~~~r~~~~l~sy~L~~v~~~~l~~~k~~~~~~~~~~~-~~~~~~~~~~~Y~~~D~~~~~~l 197 (199)
T cd05160 123 ----TERIAVKGRVVFDLLAAYKRDFKLKSYTLDAVAEELLGEGKEKVDGEIIEDA-EWEEDPERLIEYNLKDAELTLQI 197 (199)
T ss_pred ----ccceeeeccEeeehHHHHHHhcCcccCCHHHHHHHHhCCCCCcCCHHHHhhc-cCcchHHHHHHHHHHHHHHHHHh
Confidence 1234689999999999999999999999999999999999999999999885 23346889999999999999999
Q ss_pred Hh
Q 000430 790 MF 791 (1517)
Q Consensus 790 ~~ 791 (1517)
+.
T Consensus 198 ~~ 199 (199)
T cd05160 198 LE 199 (199)
T ss_pred hC
Confidence 73
No 38
>cd05779 DNA_polB_epsilon_exo DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase epsilon, a family-B DNA polymerase. The 3'-5' exonuclease domain of eukaryotic DNA polymerase epsilon. DNA polymerase epsilon is a family-B DNA polymerase with a catalytic subunit that contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain. It is one of the three DNA-dependent type B DNA polymerases (alpha and delta are the other two) that have been identified as essential for nuclear DNA replication in eukaryotes. DNA polymerase epsilon plays a role in elongating the leading strand during DNA replication. It is also involved in DNA repair. The catalytic subunit contains both polymerase and 3'-5' exonuclease activities. The N-terminal exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and are involved in metal binding and catalysis. DNA polymerase epsilon also carries a unique
Probab=99.93 E-value=4.4e-25 Score=243.02 Aligned_cols=195 Identities=22% Similarity=0.221 Sum_probs=143.2
Q ss_pred CceEEEEEeeec-----CCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcc
Q 000430 551 PVTVTAINLKTV-----FNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDR 625 (1517)
Q Consensus 551 pL~vlS~dIeT~-----~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~ 625 (1517)
||++|||||||. ||.+ ..++|++||+++...... .+.. . +.. .....|..+.+..+
T Consensus 1 ~lrilafDIE~~~~~~~fP~~-~~D~Ii~IS~~~~~~g~~---~~~~--------~---~~~-~~~~~~~~~~~~~~--- 61 (204)
T cd05779 1 DPRVLAFDIETTKLPLKFPDA-ETDQIMMISYMIDGQGYL---IVNR--------E---IVS-EDIEDFEYTPKPEY--- 61 (204)
T ss_pred CceEEEEEEEecCCCCCCcCC-CCCeEEEEEEEEecCCEE---Eecc--------c---ccc-cccccccccCCCCC---
Confidence 689999999996 4555 458899999987542210 0000 0 000 00011111111111
Q ss_pred cCCCC-CceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCc
Q 000430 626 NSKAG-SNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGR 704 (1517)
Q Consensus 626 ~~~~g-~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~ 704 (1517)
.| ..++.+ .+|++||.+|+++|+++|||+|+|||+.+||||||.+|++.+|++. ...+|+.... .
T Consensus 62 ---~~~~~v~~~-~~E~~lL~~f~~~i~~~~Pd~i~gyN~~~FD~pyl~~R~~~~~~~~--~~~~g~~~~~--------~ 127 (204)
T cd05779 62 ---EGPFKVFNE-PDEKALLQRFFEHIREVKPHIIVTYNGDFFDWPFVEARAAIHGLSM--EEEIGFRKDS--------E 127 (204)
T ss_pred ---CCceEEecC-CCHHHHHHHHHHHHHHhCCCEEEecCccccCHHHHHHHHHHhCCCc--hhhhCeEecC--------C
Confidence 12 233444 7999999999999999999999999999999999999999999986 5556653211 0
Q ss_pred ccccCCCCCCceeeecceEEeecHHHHhhccc--cCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHh
Q 000430 705 TIFGSGASPGIMSCIAGRLLCDTFLCSRDLLR--EVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETD 782 (1517)
Q Consensus 705 ~~fg~~~~~~~~~~i~GRlv~D~~~~~k~~~k--~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~D 782 (1517)
+ ...+.||+++|++.+++.... ..||+|++||+++||.+|.++++.+|.++|.++. .+|++||++|
T Consensus 128 ~----------~~~~~gr~~iDl~~~~~~~~~l~~~sysLd~Va~~~Lg~~K~~~~~~~I~~~~~~~~--~~l~~Y~~~D 195 (204)
T cd05779 128 G----------EYKSRYIIHMDCFRWVKRDSYLPQGSQGLKAVTKAKLGYDPVELDPEDMVPLAREDP--QTLASYSVSD 195 (204)
T ss_pred C----------eEEeccEEEEEhHHHHHHhhcCCCCCccHHHHHHHHhCCCcCcCCHHHHHHHHhCCc--HHHHhccHHH
Confidence 0 123579999999999887443 4799999999999999999999999999998755 4899999999
Q ss_pred HHHHHHHH
Q 000430 783 AWLSMELM 790 (1517)
Q Consensus 783 A~L~~~L~ 790 (1517)
|.+|+.|+
T Consensus 196 ~~~T~~l~ 203 (204)
T cd05779 196 AVATYYLY 203 (204)
T ss_pred HHHHHHHh
Confidence 99999986
No 39
>cd05783 DNA_polB_B1_exo DEDDy 3'-5' exonuclease domain of Sulfolobus solfataricus DNA polymerase B1 and similar archaeal family-B DNA polymerases. The 3'-5' exonuclease domain of Sulfolobus solfataricus DNA polymerase B1 and similar archaeal proteins. B1 is a family-B DNA polymerase. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. B1displays thermostable polymerase and 3'-5' exonuclease activities. This exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and are involved in metal binding and catalysis. The exonuclease domain of family-B polymerases also contains a beta hairpin structure that plays an important role in active site switching in the event of nucleotide misincorporation. Family-B DNA polymerases from thermophilic archaea are uniq
Probab=99.88 E-value=7e-22 Score=217.99 Aligned_cols=186 Identities=19% Similarity=0.274 Sum_probs=130.7
Q ss_pred CCCCceEEEEEeeec------CCCCCC-cccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccch
Q 000430 548 EVPPVTVTAINLKTV------FNKRQD-VNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNK 620 (1517)
Q Consensus 548 ~~PpL~vlS~dIeT~------~n~~~~-~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~ 620 (1517)
++|+|++|||||||. ||.+++ .++|++||+....+. ..+.++.......++..
T Consensus 1 ~~P~lrilsfDIE~~~~~~~~fP~~~~~~d~IisI~~~~~~~~-----------------~~v~~~~~~~~~~~~~~--- 60 (204)
T cd05783 1 PIPKLKRIAIDIEVYTPIKGRIPDPKTAEYPVISVALAGSDGL-----------------KRVLVLKREGVEGLEGL--- 60 (204)
T ss_pred CCCCceEEEEEEEECCCCCCCCcCCCCCCCeEEEEEEcCCCCC-----------------cEEEEEecCCccccccc---
Confidence 479999999999996 344432 256888876311100 12223222111111100
Q ss_pred hhhcccCCCCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCcc-ccccccccCCCcc
Q 000430 621 EATDRNSKAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMW-SKIGRLKRSEMPK 699 (1517)
Q Consensus 621 ~~~~~~~~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~w-sriGRlkr~~~p~ 699 (1517)
...+..+..| .+|++||.+|+++|+++ |+|||||+.+||||||..|++.+|++.... ..+||
T Consensus 61 ------~~~~~~v~~~-~~E~~lL~~F~~~i~~~--~~iig~N~~~FDlpyl~~R~~~~gi~~~~~~~~~~~-------- 123 (204)
T cd05783 61 ------LPEGAEVEFF-DSEKELIREAFKIISEY--PIVLTFNGDNFDLPYLYNRALKLGIPKEEIPIYLKR-------- 123 (204)
T ss_pred ------CCCCCeEEec-CCHHHHHHHHHHHHhcC--CEEEEeCCCCcCHHHHHHHHHHhCCChhhCceeecC--------
Confidence 1133455555 79999999999999987 589999999999999999999999873100 00111
Q ss_pred cccCcccccCCCCCCceeeecceEEeecHHHHhh-cc-------ccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchh
Q 000430 700 LRKGRTIFGSGASPGIMSCIAGRLLCDTFLCSRD-LL-------REVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLES 771 (1517)
Q Consensus 700 ~~~~~~~fg~~~~~~~~~~i~GRlv~D~~~~~k~-~~-------k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~ 771 (1517)
. ...+.||+++|++.+.+. .+ +..||+|++||+++||.+|.+++ .+|.++ +
T Consensus 124 -----~----------~~~~~g~~~iDl~~~~~~~~~~~~~~~~~~~~~~L~~Va~~~lg~~K~~~~-~~i~~~-----~ 182 (204)
T cd05783 124 -----D----------YATLKHGIHIDLYKFFSNRAIQVYAFGNKYREYTLDAVAKALLGEGKVELE-KNISEL-----N 182 (204)
T ss_pred -----C----------ceeccCcEEeECHHHhhccchhhhhhccccccCcHHHHHHHhcCCCcccCC-chhhhh-----c
Confidence 0 124789999999987654 22 56899999999999999999997 567766 4
Q ss_pred HHHHHHHHHHhHHHHHHHHh
Q 000430 772 LMELIEYGETDAWLSMELMF 791 (1517)
Q Consensus 772 l~~l~~y~~~DA~L~~~L~~ 791 (1517)
+.+|++||++||.++++|+.
T Consensus 183 ~~~l~~Y~~~D~~lt~~L~~ 202 (204)
T cd05783 183 LYELAEYNYRDAELTLELTT 202 (204)
T ss_pred HHHHHHhhHHHHHHHHHHhc
Confidence 67999999999999999873
No 40
>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=99.86 E-value=2e-22 Score=181.30 Aligned_cols=66 Identities=53% Similarity=0.951 Sum_probs=60.5
Q ss_pred HHHHHHHHcCCCccCCCccccccccCCcccccChHHHHHHHHHHHhhcCCcEEeCCCCcccCCCcccccc
Q 000430 26 LERLKALRRGGRRSGDSVGYNIKLENPIYDTVAEDEYDALVARRREEARGFIVDDDGLGYGDEGQEEDWS 95 (1517)
Q Consensus 26 Le~LK~~r~ggk~~~~~~~yeV~e~~~VYdeVDE~eY~kiV~~Rq~d~dDfIVDDdG~GYvddGrE~~w~ 95 (1517)
|++||++|+||+++ ...|+|++.++|||||||+||+++|++|+.+ +||||||||.||||+|||+ |+
T Consensus 1 L~~Lk~~R~~g~~~--~~~~ev~e~~~IYdeVdE~eY~~~v~~R~~~-dDFIvDDdG~GYvD~G~e~-wd 66 (67)
T PF12254_consen 1 LEKLKAAREGGKKR--TDEYEVEEEEDIYDEVDEEEYRKLVRKRLQE-DDFIVDDDGEGYVDDGREE-WD 66 (67)
T ss_pred CHHHHHHHhcCCcc--ccchhhhcccccceeeCHHHHHHHHHHHHhc-CCceEcCCCCcccccChhh-cc
Confidence 78999999998877 6789999999999999999999999999553 7999999999999999995 84
No 41
>PHA02563 DNA polymerase; Provisional
Probab=99.79 E-value=3.1e-18 Score=212.92 Aligned_cols=198 Identities=25% Similarity=0.343 Sum_probs=135.2
Q ss_pred CCCCCceee---ecccccccceEEEeeccCcchhHHHHhCcccccccc--C-C-----C---------------CCccc-
Q 000430 889 PAYAGGLVL---EPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVER--S-P-----D---------------GLVPH- 941 (1517)
Q Consensus 889 ~~Y~GGlVl---eP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~--~-~-----d---------------~~v~~- 941 (1517)
..|.||.|. ++.+|++++ +.++|++|||||+|..+++++.+-.. . + + +.+|.
T Consensus 236 ~sY~GGr~~~~~~~~~~~~~~-~~~yDvnSlYPsaM~~~~~P~g~p~~~~~k~~~~~~~~~~i~~~~~~f~~~ev~~p~~ 314 (630)
T PHA02563 236 KFYRGGRTWYNPKYIGKLIEE-GYVYDVNSLYPYVMYNAKLPYGEPFYEKGKPAELKPDPLYIYNYGALFKLKKGYVPDD 314 (630)
T ss_pred HheeCceeecccccccccccc-ccccccccccHHHHhhccCCCCCceeeccCcccccccccccccceEEEEEEEccCCCc
Confidence 479999998 889999987 77999999999999999998865210 0 0 0 00010
Q ss_pred -----C-----------C------------------------------------------CCCccCCcHHHHHHHHHHHH
Q 000430 942 -----L-----------P------------------------------------------SSKTTGVLPELLKNLVQRRR 963 (1517)
Q Consensus 942 -----~-----------p------------------------------------------~~~~~GilP~iL~~Ll~~R~ 963 (1517)
. | -....+++.+.+..|.+.|.
T Consensus 315 ~~i~Ik~~~~~~~~~i~p~g~~~g~~~~~E~~~~~~~~i~le~~ik~y~~~~i~v~~Gy~fe~~~~~FkeyI~~lY~iK~ 394 (630)
T PHA02563 315 MLIQIKSNLDFNGRLVLKVGIVKYVNSGNEYVDLNLNNLDLELEITHYDAFNEEVESGVVFECETGLFRDFIDHFYEIKT 394 (630)
T ss_pred cccceeccccCCCceeeecccEeeEecCceEEEEEeceEEHHHhhhccceeEEEEEEEEEEcccCchHHHHHHHHHHHHh
Confidence 0 0 01224666677777777777
Q ss_pred HHHHHHhhcchhHHHhhHHHHHHHhhhhhccccccccccc---cc--------------------CC-HHHHHHHHHHHH
Q 000430 964 MVKTWMKTASGLKIQQLDIQQQALKLTANSMYGCLGFSNS---RF--------------------YA-KPLAELITQQGR 1019 (1517)
Q Consensus 964 ~vK~~mK~~~~~~~~~~d~rQ~AlKl~aNS~YG~lG~~~s---rf--------------------y~-~~lA~~IT~~GR 1019 (1517)
+.|+.- ..+...|+++||.||-+|-.-- ++ +. .++|++||+.||
T Consensus 395 ~~K~~~------------~~~~i~KLlLNSLYGKfg~~p~~~~~~~~l~~~~~l~~~~~~~~~~~~~yv~iAa~ITa~aR 462 (630)
T PHA02563 395 NSKGAK------------KQNMLAKLMLNSLYGKFALNPDNTGKVPYLDDNGRLDLISNGEENKEPNYIPIAAFITARAR 462 (630)
T ss_pred ccccCc------------cHHHHHHHHHhcccchhhcCccccCceeeecccceeeeecCCccccccccchHHHHHHHHHH
Confidence 765432 1246999999999999996533 11 11 579999999999
Q ss_pred HHHHHHHHHHHhccCceEEEeeccceeeecCcccH-HHHHHHHHHHHHHHhcccceeEEeeeeeeeeeeeeccceeeEEE
Q 000430 1020 EILRSTVDLVQNNLNLEVIYGDTDSIMIHSGIDDI-AKAKAIAGKVIQEVNKKYKCLEIDLDGLYKRMLLLKKKKYAAVK 1098 (1517)
Q Consensus 1020 ~iL~~t~~~ve~~~g~~VIYGDTDSimI~~~~~~~-~ea~~ig~~i~~~Vn~~~~~leLE~E~vy~~~lLl~KKrYa~l~ 1098 (1517)
.+|..+++.+++ . |+||||||||+....... .+.+-.+.++ =.+++|.++.+.+++++|.|+...
T Consensus 463 ~~m~~~~~~~~~-~---v~Y~DTDSi~v~~~~~~~L~~~~i~~~eL----------Gk~k~E~~~~~~~fl~~K~Y~l~~ 528 (630)
T PHA02563 463 SNLLSALQYLYE-K---FIYCDTDSIHLEGAETPKLPKDMIDPKEL----------GKWDHEGEFIKAKYLRPKKYALYA 528 (630)
T ss_pred HHHHHHHHHhhc-c---EEEECCceEEEecCccccCchhhCChhHh----------cceeccceeeEEEEEeccEEEEEe
Confidence 999999998875 2 999999999998654321 1100001111 124788999999999999996554
Q ss_pred eeecCCccceeEEEeeee
Q 000430 1099 VQFKDGMPYEVIERKGLD 1116 (1517)
Q Consensus 1099 ~~~~dG~~~~~~e~KGle 1116 (1517)
.. .+|++ .+.+||+.
T Consensus 529 ~d-~~~~i--~ik~KGi~ 543 (630)
T PHA02563 529 EE-VNGKL--KIKCAGMP 543 (630)
T ss_pred cC-CCceE--EEEeCCCC
Confidence 21 23443 47889984
No 42
>cd05782 DNA_polB_like1_exo Uncharacterized bacterial subgroup of the DEDDy 3'-5' exonuclease domain of family-B DNA polymerases. A subfamily of the 3'-5' exonuclease domain of family-B DNA polymerases. This subfamily is composed of uncharacterized bacterial family-B DNA polymerases. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. This exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are involved in metal binding and catalysis. The exonuclease domain of family-B DNA polymerases has a fundamental role in proofreading activity. It contains a beta hairpin structure that plays an important role in active site switching in the event of a nucleotide misincorporation. Family-B DNA polymerases are predominantly involved in DNA replication and DNA repair.
Probab=99.66 E-value=4.6e-16 Score=172.57 Aligned_cols=133 Identities=26% Similarity=0.260 Sum_probs=109.1
Q ss_pred ccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCCCCcee
Q 000430 638 SSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGASPGIMS 717 (1517)
Q Consensus 638 ~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~~~~~ 717 (1517)
.+|++||..|++.|++++| +|||||+.+||||||..|+..+|++.+.|...|. + + .++..
T Consensus 76 ~~E~elL~~F~~~i~~~~p-~lv~yNg~~FDlP~L~~Ra~~~gi~~p~~~~~~~--~---~------~~y~~-------- 135 (208)
T cd05782 76 ADEKELLEDFFQLIEKKNP-RLVSFNGRGFDLPVLHLRALIHGVSAPAYFDLGN--K---D------WNYRN-------- 135 (208)
T ss_pred CCHHHHHHHHHHHHHHhCC-EEEecCCCcCCHHHHHHHHHHhCCCCccccCccc--c---h------hhccC--------
Confidence 5899999999999999988 8999999999999999999999997532322221 1 0 01211
Q ss_pred eecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHHHhh
Q 000430 718 CIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMELMFH 792 (1517)
Q Consensus 718 ~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L~~k 792 (1517)
..+|| ++|++...+...+..+|+|++||+.+....|.++++.+|.++|.+++ +.++++||++|+..++.|+.+
T Consensus 136 r~~~~-h~DL~~~~~~~~~~~~~~L~~va~~lG~~~K~d~~G~~v~~~y~~g~-~~~I~~Yc~~Dv~~t~~l~lr 208 (208)
T cd05782 136 RYSER-HLDLMDLLAFYGARARASLDLLAKLLGIPGKMDVDGSQVWELYAEGK-LDEIAEYCETDVLNTYLLYLR 208 (208)
T ss_pred cCCCC-cccHHHHHhccCccCCCCHHHHHHHhCCCCCcCCCHHHHHHHHHcCC-hHHHHHHHHHHHHHHHHHHhC
Confidence 24588 99999988876677999999999866556899999999999999865 889999999999999999853
No 43
>PF10108 DNA_pol_B_exo2: Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; InterPro: IPR019288 This entry represents various prokaryotic 3'-5' exonucleases and hypothetical proteins.
Probab=99.34 E-value=7e-12 Score=137.91 Aligned_cols=136 Identities=24% Similarity=0.302 Sum_probs=105.8
Q ss_pred ccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCCCCcee
Q 000430 638 SSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGASPGIMS 717 (1517)
Q Consensus 638 ~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~~~~~ 717 (1517)
.+|++||..|++.|.+..|- +||||+-+||+|||..|+..+||+.+.|-.+|. ..|- +|.+
T Consensus 35 ~~E~~lL~~F~~~~~~~~p~-LVs~NG~~FDlP~L~~Ral~~gi~~p~~~~~~~---k~We-------nY~~-------- 95 (209)
T PF10108_consen 35 DDEKELLQDFFDLVEKYNPQ-LVSFNGRGFDLPVLCRRALIHGISAPRYLDIGN---KPWE-------NYRN-------- 95 (209)
T ss_pred CCHHHHHHHHHHHHHhCCCe-EEecCCccCCHHHHHHHHHHhCCCCchhhhcCC---CCcc-------cccc--------
Confidence 46999999999999999984 699999999999999999999999755554554 1111 1111
Q ss_pred eecceEEeecHHHHhhccccCCCCHHHHHHHhcCC-CCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHHHhhccc
Q 000430 718 CIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNK-DRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMELMFHLSV 795 (1517)
Q Consensus 718 ~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~-~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L~~kl~i 795 (1517)
..+-+ +||++......-...+-+|+.+|.. ||. .|.+++++++.++|.++ ++.++..||++|+..|+.|+.+++.
T Consensus 96 Ry~~~-H~DLmd~l~~~g~~~~~sLd~la~~-lgiPgK~~idGs~V~~~y~~g-~i~~I~~YCe~DVl~T~~lylR~~~ 171 (209)
T PF10108_consen 96 RYSER-HLDLMDLLSFYGAKARTSLDELAAL-LGIPGKDDIDGSQVAELYQEG-DIDEIREYCEKDVLNTYLLYLRFEL 171 (209)
T ss_pred ccCcc-cccHHHHHhccCccccCCHHHHHHH-cCCCCCCCCCHHHHHHHHHcC-CHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 12234 8999855443224567899999985 454 59999999999999865 6889999999999999999988643
No 44
>PF13482 RNase_H_2: RNase_H superfamily; PDB: 1TKD_A 1TK5_A 2AJQ_F 1T8E_A 1T7P_A 1SKR_A 1X9W_A 1TK8_A 1TK0_A 1SL2_A ....
Probab=98.66 E-value=1.2e-07 Score=101.15 Aligned_cols=115 Identities=26% Similarity=0.369 Sum_probs=73.5
Q ss_pred cHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCCCCceee
Q 000430 639 SERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGASPGIMSC 718 (1517)
Q Consensus 639 nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~~~~~~ 718 (1517)
+|.+++..++..+.+. +.++|||+.+||+|+|.+|+..++++. +
T Consensus 42 ~ee~~~~~~~~~l~~~--~~iv~yng~~FD~p~L~~~~~~~~~~~--------------~-------------------- 85 (164)
T PF13482_consen 42 DEEEIILEFFELLDEA--DNIVTYNGKNFDIPFLKRRAKRYGLPP--------------P-------------------- 85 (164)
T ss_dssp HHHHHHHH--HHHHTT----EEESSTTTTHHHHHHHHH-HHHH----------------G--------------------
T ss_pred HHHHHHHHHHHHHhcC--CeEEEEeCcccCHHHHHHHHHHcCCCc--------------c--------------------
Confidence 4455555554666655 889999999999999999997666541 0
Q ss_pred ecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCC--CccChhhHHHHHhc------chhHHHHHHHHHHhHHHHHHHH
Q 000430 719 IAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDR--KEVGPHDVLKMFQT------LESLMELIEYGETDAWLSMELM 790 (1517)
Q Consensus 719 i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k--~di~~~eI~~~~~~------~~~l~~l~~y~~~DA~L~~~L~ 790 (1517)
.-++|++..++.... .||+|.+|++. ||..+ .++++.++...|.. ...+..++.||..|+..+.+|+
T Consensus 86 ---~~~iDl~~~~~~~~~-~~~~Lk~ve~~-lg~~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~i~~yN~~Dv~~~~~L~ 160 (164)
T PF13482_consen 86 ---FNHIDLLKIIKKHFL-ESYSLKNVEKF-LGIERRDDDISGSESVKLYKEYLETGDPEALEEILEYNEDDVRATRRLY 160 (164)
T ss_dssp ---GGEEEHHHHHT-TTS-CCTT--SHHH------------HHHHHHHHHH---TTGGTS--HHHHHHHHHHHHHHHHHH
T ss_pred ---cchhhHHHHHHhccC-CCCCHHHHhhh-cccccccCCCCHHHHHHHHHHHHhcCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 015899888775444 99999999998 55554 46888999888874 2357899999999999999999
Q ss_pred hhcc
Q 000430 791 FHLS 794 (1517)
Q Consensus 791 ~kl~ 794 (1517)
.+|+
T Consensus 161 ~~l~ 164 (164)
T PF13482_consen 161 EWLN 164 (164)
T ss_dssp HHH-
T ss_pred HHhC
Confidence 8763
No 45
>COG3359 Predicted exonuclease [DNA replication, recombination, and repair]
Probab=97.88 E-value=0.00014 Score=81.01 Aligned_cols=115 Identities=22% Similarity=0.207 Sum_probs=86.6
Q ss_pred ccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCCCCcee
Q 000430 638 SSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGASPGIMS 717 (1517)
Q Consensus 638 ~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~~~~~ 717 (1517)
..|.++|+.|+..+ |-.++|.||+-.||+|||. |+....++.. |
T Consensus 141 ~~E~avle~fl~~~---~~~~lvsfNGkaFD~Pfik-R~v~~~~el~-------------l------------------- 184 (278)
T COG3359 141 EEEVAVLENFLHDP---DFNMLVSFNGKAFDIPFIK-RMVRDRLELS-------------L------------------- 184 (278)
T ss_pred chhhHHHHHHhcCC---CcceEEEecCcccCcHHHH-HHHhcccccC-------------c-------------------
Confidence 46999999998765 6679999999999999999 8777666540 1
Q ss_pred eecceEEeecHHHHhhccc--cCCCCHHHHHHHhcCCCCCc-cChhhHHHHHh---c--chh-HHHHHHHHHHhHHHHHH
Q 000430 718 CIAGRLLCDTFLCSRDLLR--EVSYSLTQLAKTQLNKDRKE-VGPHDVLKMFQ---T--LES-LMELIEYGETDAWLSME 788 (1517)
Q Consensus 718 ~i~GRlv~D~~~~~k~~~k--~~SYsL~~va~~~Lg~~k~d-i~~~eI~~~~~---~--~~~-l~~l~~y~~~DA~L~~~ 788 (1517)
-+.++|+|..+|++.| +.+-+|.+|-+ +||..|.+ +++..-+.+|. . ++. +..|+.||..|+.-...
T Consensus 185 ---~~~H~DL~h~~RRlwk~~l~~c~Lk~VEr-~LGi~R~edtdG~~~p~lyr~~~~~~dp~ll~~l~~hN~eDvlnL~~ 260 (278)
T COG3359 185 ---EFGHFDLYHPSRRLWKHLLPRCGLKTVER-ILGIRREEDTDGYDGPELYRLYRRYGDPGLLDGLVLHNREDVLNLPT 260 (278)
T ss_pred ---cccchhhhhhhhhhhhccCCCCChhhHHH-HhCccccccCCCcchHHHHHHHHHcCCHHHHHHHHHccHHHHHhHHH
Confidence 1227899988888764 67788999988 99998877 66655554443 2 333 56789999999876666
Q ss_pred HHhh
Q 000430 789 LMFH 792 (1517)
Q Consensus 789 L~~k 792 (1517)
|+.+
T Consensus 261 i~~h 264 (278)
T COG3359 261 IIKH 264 (278)
T ss_pred HHHH
Confidence 6654
No 46
>PHA02735 putative DNA polymerase type B; Provisional
Probab=97.87 E-value=0.00017 Score=84.55 Aligned_cols=41 Identities=32% Similarity=0.429 Sum_probs=34.2
Q ss_pred CCCCCceeeecccccccceEEEeeccCcchhHHHHhCcccccc
Q 000430 889 PAYAGGLVLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTV 931 (1517)
Q Consensus 889 ~~Y~GGlVleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv 931 (1517)
+.|.||.+---++|=+-. |+.-|.||+||+||+.. =.|.|+
T Consensus 270 EsYyGGrfeV~KrgnvGE-v~~pDINSaYPaim~dl-PDpKTl 310 (716)
T PHA02735 270 ESYAGGRFEVFKRGNVGE-VAAPDINSAYPAILADL-PDPKTL 310 (716)
T ss_pred HhhcCCceEEeccCccce-eeeccccccchHHHHhC-CCCccc
Confidence 469999988888898876 99999999999999983 346664
No 47
>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=97.82 E-value=0.00085 Score=81.86 Aligned_cols=188 Identities=18% Similarity=0.295 Sum_probs=133.0
Q ss_pred eecccccccceEEEeeccCc-chhHHHHhCccc------cccccC-----CCCCcccCCCCCccCCcHHHHHHHHHHHHH
Q 000430 897 LEPKKGLYDKYILLLDFNSL-YPSIIQEYNICF------TTVERS-----PDGLVPHLPSSKTTGVLPELLKNLVQRRRM 964 (1517)
Q Consensus 897 leP~~Gly~~~V~~LDF~SL-YPSII~~~NIc~------tTv~~~-----~d~~v~~~p~~~~~GilP~iL~~Ll~~R~~ 964 (1517)
.--.||+|++..+.||+..| .-+|.++.-|-= .++... ..+.......-.+..+-+..+ .-.|..
T Consensus 194 ~in~pG~Y~~vcvEl~i~~LavnaiL~S~~i~e~EG~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~f---~iLr~m 270 (396)
T PF08490_consen 194 EINNPGAYRSVCVELDISNLAVNAILQSSLINELEGSDSAGFNFDTASDASNGSANSSSSYDESAFCSAAF---RILRSM 270 (396)
T ss_pred EEECCCccceEEEEEEecceeHHHHHHHhHHhhhcCCccccccccccccccccccccccccccccccHHHH---HHHHHH
Confidence 33588999998899999988 455555443311 000000 000000000112233334333 335677
Q ss_pred HHHHHhhcch-hHHHhhHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEeecc
Q 000430 965 VKTWMKTASG-LKIQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAELITQQGREILRSTVDLVQNNLNLEVIYGDTD 1043 (1517)
Q Consensus 965 vK~~mK~~~~-~~~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~~~g~~VIYGDTD 1043 (1517)
+|..+++... .. ..| .+++.+|-.+-...|.+|++.+...|-..=+..+.+...-+++ +|.+|||+|-.
T Consensus 271 v~~w~~d~~~~n~--~AD-------~ll~~f~rWl~sp~S~LyDPaL~~~v~~LmkK~flqLl~Ef~r-lG~~VVyA~~~ 340 (396)
T PF08490_consen 271 VKSWLRDALKGNS--FAD-------SLLQHFYRWLSSPSSLLYDPALHRMVHNLMKKVFLQLLAEFRR-LGSKVVYADFN 340 (396)
T ss_pred HHHHHHHHhcCCc--cHH-------HHHHHHHHHHcCCcccccCHHHHHHHHHHHHHHHHHHHHHHHH-cCCEEEEEcCC
Confidence 7777765211 11 111 1257799999999999999999999998888888877777764 99999999999
Q ss_pred ceeeecCcccHHHHHHHHHHHHHHHhcc--cceeEEeeeeeeeeeeeeccceeeEE
Q 000430 1044 SIMIHSGIDDIAKAKAIAGKVIQEVNKK--YKCLEIDLDGLYKRMLLLKKKKYAAV 1097 (1517)
Q Consensus 1044 SimI~~~~~~~~ea~~ig~~i~~~Vn~~--~~~leLE~E~vy~~~lLl~KKrYa~l 1097 (1517)
.|.|.++..++++|...++.|.+.|+.+ |..|.|+....|..++++.+.+|+|+
T Consensus 341 riil~T~K~~~~~A~ay~~yi~~~i~~~~lF~~l~l~~~~~w~~LlwmD~~NygGi 396 (396)
T PF08490_consen 341 RIILCTGKTSLENAYAYVQYILKSIRSRELFSWLDLKPVRYWDSLLWMDPYNYGGI 396 (396)
T ss_pred EEEEECCCCCHHHHHHHHHHHHHHHhcccccccEEeEHHHHhhhheEecccccCCC
Confidence 9999999999999999999999988764 67899999999999999999999874
No 48
>PRK05711 DNA polymerase III subunit epsilon; Provisional
Probab=97.67 E-value=0.0011 Score=75.91 Aligned_cols=170 Identities=15% Similarity=0.174 Sum_probs=101.0
Q ss_pred CCceEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceE-EEEecCCCcccCCccchhhhcccCC
Q 000430 550 PPVTVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHF-TVVRKLDGGIFPMGFNKEATDRNSK 628 (1517)
Q Consensus 550 PpL~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f-~~~r~~~~~~fp~~f~~~~~~~~~~ 628 (1517)
++++.+.||+||+.-++...++|+.|+++...+..+. . ..| ++++ |.. ..|. .+..-..+
T Consensus 2 ~~~r~vvlDtETTGldp~~~drIIEIGaV~v~~~~~~----~---------~~f~~~i~-P~~-~i~~----~a~~VHGI 62 (240)
T PRK05711 2 AIMRQIVLDTETTGLNQREGHRIIEIGAVELINRRLT----G---------RNFHVYIK-PDR-LVDP----EALAVHGI 62 (240)
T ss_pred CCCeEEEEEeeCCCcCCCCCCeEEEEEEEEEECCEEe----c---------cEEEEEEC-cCC-cCCH----HHhhhcCC
Confidence 5689999999999544433578999998765443221 0 223 3444 332 2221 11110100
Q ss_pred CCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCccccc
Q 000430 629 AGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFG 708 (1517)
Q Consensus 629 ~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg 708 (1517)
.. ..+.-.+...+++..|+.++.. ..+||||. .||+.+|-.-+..++.+ | |.+ .
T Consensus 63 T~-e~l~~~p~f~ev~~~f~~fi~~---~~lVaHNa-~FD~~fL~~el~r~g~~---~-----------~~~-------~ 116 (240)
T PRK05711 63 TD-EFLADKPTFAEVADEFLDFIRG---AELIIHNA-PFDIGFMDYEFALLGRD---I-----------PKT-------N 116 (240)
T ss_pred CH-HHHcCCCCHHHHHHHHHHHhCC---CEEEEEcc-HHhHHHHHHHHHHhCCC---C-----------Ccc-------c
Confidence 00 1112235678899999999864 46899998 69999998766655422 1 111 0
Q ss_pred CCCCCCceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHH
Q 000430 709 SGASPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSME 788 (1517)
Q Consensus 709 ~~~~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~ 788 (1517)
..+ + ++|++..++.+++..+++|+.+|+.+ |.....-. ..-++.||.++.+
T Consensus 117 ---------~~~-~-~iDTl~lar~~~p~~~~~L~aL~~~~-gi~~~~r~-----------------~H~AL~DA~~~A~ 167 (240)
T PRK05711 117 ---------TFC-K-VTDTLAMARRMFPGKRNSLDALCKRY-GIDNSHRT-----------------LHGALLDAEILAE 167 (240)
T ss_pred ---------ccC-c-eeeHHHHHHHHcCCCCCCHHHHHHHC-CCCCCCCC-----------------CCCHHHHHHHHHH
Confidence 011 1 68999888888877889999999865 43211000 1124578888888
Q ss_pred HHhhc
Q 000430 789 LMFHL 793 (1517)
Q Consensus 789 L~~kl 793 (1517)
++.++
T Consensus 168 v~~~l 172 (240)
T PRK05711 168 VYLAM 172 (240)
T ss_pred HHHHH
Confidence 87554
No 49
>TIGR01406 dnaQ_proteo DNA polymerase III, epsilon subunit, Proteobacterial. This model represents DnaQ, the DNA polymerase III epsilon subunit, as found in most Proteobacteria. It consists largely of an exonuclease domain as described in pfam model pfam00929. In Gram-positive bacteria, closely related regions are found both in the Gram-positive type DNA polymerase III alpha subunit and as an additional N-terminal domain of a DinG-family helicase. Both are excluded from this model, as are smaller proteins, also outside the Proteobacteria, that are similar in size to the epsilon subunit but as different in sequence as are the epsilon-like regions found in Gram-positive bacteria.
Probab=97.63 E-value=0.0013 Score=74.73 Aligned_cols=167 Identities=18% Similarity=0.175 Sum_probs=97.1
Q ss_pred eEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceE-EEEecCCCcccCCccchhhhcccCCCCC
Q 000430 553 TVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHF-TVVRKLDGGIFPMGFNKEATDRNSKAGS 631 (1517)
Q Consensus 553 ~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f-~~~r~~~~~~fp~~f~~~~~~~~~~~g~ 631 (1517)
|.+.||+||+.-.+...++|+.|+++...+..+. . ..| ++++ |... .|.. ...+ ..+..
T Consensus 1 r~vvlD~ETTGl~p~~~d~IIEIgav~~~~~~~~----~---------~~f~~~i~-P~~~-i~~~-a~~v---hGIt~- 60 (225)
T TIGR01406 1 RQIILDTETTGLDPKGGHRIVEIGAVELVNRMLT----G---------DNFHVYVN-PERD-MPAE-AAKV---HGITD- 60 (225)
T ss_pred CEEEEEeeCCCcCCCCCCeEEEEEEEEEECCcEe----c---------ceEEEEEC-cCCC-CCHH-HHhc---cCCCH-
Confidence 5688999999644444478999998754432110 0 123 3343 4322 2211 1111 00000
Q ss_pred ceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCC
Q 000430 632 NVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGA 711 (1517)
Q Consensus 632 ~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~ 711 (1517)
..+.-.+...+.+..|++++.. .++||||. .||+.+|-.-+..++... +. + ..+
T Consensus 61 e~l~~~p~f~ev~~~f~~fi~~---~~lVaHNa-~FD~~fL~~el~r~g~~~------~~--------~----~~~---- 114 (225)
T TIGR01406 61 EFLADKPKFKEIADEFLDFIGG---SELVIHNA-AFDVGFLNYELERLGPTI------KK--------I----GEF---- 114 (225)
T ss_pred HHHhCCCCHHHHHHHHHHHhCC---CEEEEEec-HHHHHHHHHHHHHhCCCC------cc--------c----ccC----
Confidence 0111224677899999999865 57899998 699999998766655210 00 0 000
Q ss_pred CCCceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHHHh
Q 000430 712 SPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMELMF 791 (1517)
Q Consensus 712 ~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L~~ 791 (1517)
.+ ++|++..++..++..+|+|+++|+.+ |.....-. ..-.+.||.++.+|+.
T Consensus 115 ---------~~-~iDTl~lar~~~p~~~~~L~~L~~~~-gi~~~~r~-----------------~H~Al~DA~~~a~v~~ 166 (225)
T TIGR01406 115 ---------CR-VIDTLAMARERFPGQRNSLDALCKRF-KVDNSHRT-----------------LHGALLDAHLLAEVYL 166 (225)
T ss_pred ---------CC-EEEHHHHHHHHcCCCCCCHHHHHHhc-CCCCCCCC-----------------CcCHHHHHHHHHHHHH
Confidence 11 58998888888877889999999975 43211000 0123578888888875
Q ss_pred hc
Q 000430 792 HL 793 (1517)
Q Consensus 792 kl 793 (1517)
++
T Consensus 167 ~l 168 (225)
T TIGR01406 167 AL 168 (225)
T ss_pred HH
Confidence 53
No 50
>cd06131 DNA_pol_III_epsilon_Ecoli_like DEDDh 3'-5' exonuclease domain of the epsilon subunit of Escherichia coli DNA polymerase III and similar proteins. This subfamily is composed of the epsilon subunit of Escherichia coli DNA polymerase III (Pol III) and similar proteins. Pol III is the main DNA replicating enzyme in bacteria, functioning as the chromosomal replicase. It is a holoenzyme complex of ten different subunits, three of which (alpha, epsilon, and theta) compose the catalytic core. The Pol III epsilon subunit, encoded by the dnaQ gene, is a DEDDh-type 3'-5' exonuclease which is responsible for the proofreading activity of the polymerase, increasing the fidelity of DNA synthesis. It contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. The epsilon
Probab=97.46 E-value=0.0027 Score=68.08 Aligned_cols=164 Identities=16% Similarity=0.117 Sum_probs=95.2
Q ss_pred EEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceE-EEEecCCCcccCCccchhhhcccCCCCCce
Q 000430 555 TAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHF-TVVRKLDGGIFPMGFNKEATDRNSKAGSNV 633 (1517)
Q Consensus 555 lS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f-~~~r~~~~~~fp~~f~~~~~~~~~~~g~~v 633 (1517)
+.||+||+..+++..++|+.|+++.-.+..+ .. ..| ++++ |.. .+|.. ...+ ..+. ...
T Consensus 2 v~~D~ETTGl~~~~~~~iieig~v~v~~~~~----~~---------~~~~~~v~-P~~-~i~~~-~~~i---hGIt-~e~ 61 (167)
T cd06131 2 IVLDTETTGLDPREGHRIIEIGCVELINRRL----TG---------NTFHVYIN-PER-DIPEE-AFKV---HGIT-DEF 61 (167)
T ss_pred EEEEeeCCCCCCCCCCeEEEEEEEEEECCcE----ec---------cEEEEEEC-CCC-CCCHH-HHHH---hCCC-HHH
Confidence 5799999976554457899999875433221 11 123 3444 332 23221 1111 0000 011
Q ss_pred EeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCCC
Q 000430 634 LCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGASP 713 (1517)
Q Consensus 634 ~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~ 713 (1517)
+.-.+...+.+..|.+++.. .++||||+ .||+.+|.+-+..+++... | +
T Consensus 62 l~~~~~~~~v~~~l~~~l~~---~~lv~hn~-~fD~~~l~~~~~~~~~~~~-~-----------~--------------- 110 (167)
T cd06131 62 LADKPKFAEIADEFLDFIRG---AELVIHNA-SFDVGFLNAELSLLGLGKK-I-----------I--------------- 110 (167)
T ss_pred HhcCCCHHHHHHHHHHHHCC---CeEEEeCh-HHhHHHHHHHHHHhCCCcc-c-----------c---------------
Confidence 12224578899999998765 56899998 6999999887777654320 0 0
Q ss_pred CceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHHHhhc
Q 000430 714 GIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMELMFHL 793 (1517)
Q Consensus 714 ~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L~~kl 793 (1517)
. -...+|+...++......+++|+++++++ |.....-. ....+.||..+.+|+.+|
T Consensus 111 -----~-~~~~idt~~~~~~~~~~~~~~L~~l~~~~-~i~~~~~~-----------------~H~Al~Da~~~a~l~~~l 166 (167)
T cd06131 111 -----D-FCRVIDTLALARKKFPGKPNSLDALCKRF-GIDNSHRT-----------------LHGALLDAELLAEVYLEL 166 (167)
T ss_pred -----c-CCCceEhHHHHHHHcCCCCCCHHHHHHHC-CCCCCCCC-----------------CCChHHHHHHHHHHHHHh
Confidence 0 01137777667766656789999999975 43211000 112457888888888654
No 51
>PRK06807 DNA polymerase III subunit epsilon; Validated
Probab=97.33 E-value=0.004 Score=74.03 Aligned_cols=161 Identities=16% Similarity=0.229 Sum_probs=98.5
Q ss_pred CceEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCCC
Q 000430 551 PVTVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKAG 630 (1517)
Q Consensus 551 pL~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~g 630 (1517)
|..++.||+||+.-.+. .++|+.|+++...+..+ ...|...-+|... .|.. ...+ ..+..
T Consensus 7 ~~~~Vv~DlETTGl~p~-~~eIIEIgaV~v~~g~i--------------~~~f~~lVkP~~~-I~~~-a~~i---hGIT~ 66 (313)
T PRK06807 7 PLDYVVIDFETTGFNPY-NDKIIQVAAVKYRNHEL--------------VDQFVSYVNPERP-IPDR-ITSL---TGITN 66 (313)
T ss_pred CCCEEEEEEECCCCCCC-CCeEEEEEEEEEECCEE--------------EEEEEEEECcCCC-CCHh-hhcc---CCCCH
Confidence 45789999999843332 47899999877653322 1223333334432 2211 1111 00000
Q ss_pred CceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCC
Q 000430 631 SNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSG 710 (1517)
Q Consensus 631 ~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~ 710 (1517)
..+ .-.+...+.|..|+.++. -+++||||+ .||+.+|.+-+..++++. ..
T Consensus 67 e~l-~~~~~~~evl~~f~~fl~---~~~lVaHNa-~FD~~fL~~~~~~~gl~~---~~---------------------- 116 (313)
T PRK06807 67 YRV-SDAPTIEEVLPLFLAFLH---TNVIVAHNA-SFDMRFLKSNVNMLGLPE---PK---------------------- 116 (313)
T ss_pred HHH-hCCCCHHHHHHHHHHHHc---CCeEEEEcH-HHHHHHHHHHHHHcCCCC---CC----------------------
Confidence 011 122468899999999986 467999998 899999999988877653 00
Q ss_pred CCCCceeeecceEEeecHHHHhhccc-cCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHH
Q 000430 711 ASPGIMSCIAGRLLCDTFLCSRDLLR-EVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMEL 789 (1517)
Q Consensus 711 ~~~~~~~~i~GRlv~D~~~~~k~~~k-~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L 789 (1517)
.. .+|+...++.+.+ ..+++|++++.+ +|... .. .-.+.||+.++.|
T Consensus 117 ----------~~-~iDtl~la~~~~~~~~~~kL~~L~~~-lgi~~---~~-----------------H~Al~DA~~ta~l 164 (313)
T PRK06807 117 ----------NK-VIDTVFLAKKYMKHAPNHKLETLKRM-LGIRL---SS-----------------HNAFDDCITCAAV 164 (313)
T ss_pred ----------CC-EeeHHHHHHHHhCCCCCCCHHHHHHH-cCCCC---CC-----------------cChHHHHHHHHHH
Confidence 01 4687766766654 689999999875 55432 11 1135788888888
Q ss_pred Hhhc
Q 000430 790 MFHL 793 (1517)
Q Consensus 790 ~~kl 793 (1517)
+.++
T Consensus 165 ~~~l 168 (313)
T PRK06807 165 YQKC 168 (313)
T ss_pred HHHH
Confidence 7664
No 52
>PRK08517 DNA polymerase III subunit epsilon; Provisional
Probab=97.30 E-value=0.0038 Score=72.24 Aligned_cols=162 Identities=17% Similarity=0.199 Sum_probs=99.9
Q ss_pred CCCceEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceE-EEEecCCCcccCCccchhhhcccC
Q 000430 549 VPPVTVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHF-TVVRKLDGGIFPMGFNKEATDRNS 627 (1517)
Q Consensus 549 ~PpL~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f-~~~r~~~~~~fp~~f~~~~~~~~~ 627 (1517)
+=..+.+.||+||+...+. .++|+.|+++...+..+. ..| .++.++ ..|. +...+ ..
T Consensus 65 ~~~~~~vv~DiETTG~~~~-~~~IIEIGAv~v~~g~i~--------------~~f~~~v~p~---~ip~-~~~~i---tG 122 (257)
T PRK08517 65 IKDQVFCFVDIETNGSKPK-KHQIIEIGAVKVKNGEII--------------DRFESFVKAK---EVPE-YITEL---TG 122 (257)
T ss_pred CCCCCEEEEEEeCCCCCCC-CCeEEEEEEEEEECCEEE--------------EEEEEEECCC---CCCh-hhhhh---cC
Confidence 4456889999999966544 358999998877543221 122 344332 1221 11111 00
Q ss_pred CCCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccc
Q 000430 628 KAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIF 707 (1517)
Q Consensus 628 ~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~f 707 (1517)
+....+ .-.+...+.|..|..++.. +++||||+ +||+.+|-+-+..++.+. |.
T Consensus 123 It~e~l-~~ap~~~evl~~f~~fl~~---~v~VaHNa-~FD~~fL~~~l~r~g~~~--~~-------------------- 175 (257)
T PRK08517 123 ITYEDL-ENAPSLKEVLEEFRLFLGD---SVFVAHNV-NFDYNFISRSLEEIGLGP--LL-------------------- 175 (257)
T ss_pred cCHHHH-cCCCCHHHHHHHHHHHHCC---CeEEEECH-HHHHHHHHHHHHHcCCCC--CC--------------------
Confidence 000011 2235789999999999864 78999999 899999988777766543 10
Q ss_pred cCCCCCCceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHH
Q 000430 708 GSGASPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSM 787 (1517)
Q Consensus 708 g~~~~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~ 787 (1517)
.+ .+|+...++..+...+|+|.+++.. +|..... . .-.+.||..+.
T Consensus 176 -------------~~-~ldtl~la~~~~~~~~~~L~~L~~~-lgi~~~~--~-----------------HrAl~DA~ata 221 (257)
T PRK08517 176 -------------NR-KLCTIDLAKRTIESPRYGLSFLKEL-LGIEIEV--H-----------------HRAYADALAAY 221 (257)
T ss_pred -------------CC-cEehHHHHHHHccCCCCCHHHHHHH-cCcCCCC--C-----------------CChHHHHHHHH
Confidence 01 2466666777778889999999884 5643211 0 12356888888
Q ss_pred HHHhhc
Q 000430 788 ELMFHL 793 (1517)
Q Consensus 788 ~L~~kl 793 (1517)
+|+.++
T Consensus 222 ~ll~~l 227 (257)
T PRK08517 222 EIFKIC 227 (257)
T ss_pred HHHHHH
Confidence 777654
No 53
>cd06136 TREX1_2 DEDDh 3'-5' exonuclease domain of three prime repair exonuclease (TREX)1, TREX2, and similar proteins. Three prime repair exonuclease (TREX)1 and TREX2 are closely related DEDDh-type DnaQ-like 3'-5' exonucleases. They contain three conserved sequence motifs known as ExoI, II, and III, with a specific Hx(4)D conserved pattern at ExoIII. These motifs contain four conserved acidic residues that participate in coordination of divalent metal ions required for catalysis. Both proteins play a role in the metabolism and clearance of DNA. TREX1 is the major 3'-5' exonuclease activity detected in mammalian cells. Mutations in the human TREX1 gene can cause Aicardi-Goutieres syndrome (AGS), which is characterized by perturbed innate immunity and presents itself as a severe neurological disease. TREX1 degrades ssDNA generated by aberrant replication intermediates to prevent checkpoint activation and autoimmune disease. There are distinct structural differences between TREX1 and TRE
Probab=97.25 E-value=0.0063 Score=66.54 Aligned_cols=93 Identities=24% Similarity=0.258 Sum_probs=60.7
Q ss_pred HHHHHHHHHHHhcC-CCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCCCCceeeec
Q 000430 642 ALLNRLMIELYKLD-SDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGASPGIMSCIA 720 (1517)
Q Consensus 642 eLL~~Fl~~I~~~D-PDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~~~~~~i~ 720 (1517)
++...|..++...+ +.+|||||+..||+++|-+-+..++++. | .
T Consensus 83 ~~~~~l~~f~~~~~~~~~lVaHNa~~FD~~fL~~~~~r~~~~~--------------~---------------------~ 127 (177)
T cd06136 83 DTANLIKLFLRRQPKPICLVAHNGNRFDFPILRSELERLGTKL--------------P---------------------D 127 (177)
T ss_pred HHHHHHHHHHHhcCCCCEEEEcCCcccCHHHHHHHHHHcCCCC--------------C---------------------C
Confidence 34455555555544 5699999998999999999888776542 0 0
Q ss_pred ceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHHHhh
Q 000430 721 GRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMELMFH 792 (1517)
Q Consensus 721 GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L~~k 792 (1517)
....+|++..++.+.+ +|++++..++|....+ ..-.+.||..+++++.+
T Consensus 128 ~~~~iDtl~l~r~~~~----~L~~l~~~~~~~~~~~-------------------~H~A~~Da~at~~v~~~ 176 (177)
T cd06136 128 DILCVDSLPAFRELDQ----SLGSLYKRLFGQEPKN-------------------SHTAEGDVLALLKCALH 176 (177)
T ss_pred CCEEEEeHHHHhhhHh----hHHHHHHHHhCCCccc-------------------ccchHHHHHHHHHHHhh
Confidence 1123588777776554 8999998877643211 11235678777777654
No 54
>PRK07883 hypothetical protein; Validated
Probab=97.13 E-value=0.0071 Score=77.23 Aligned_cols=163 Identities=20% Similarity=0.230 Sum_probs=101.2
Q ss_pred CCCceEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceE-EEEecCCCcccCCccchhhhcccC
Q 000430 549 VPPVTVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHF-TVVRKLDGGIFPMGFNKEATDRNS 627 (1517)
Q Consensus 549 ~PpL~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f-~~~r~~~~~~fp~~f~~~~~~~~~ 627 (1517)
+-..+.+.||+||+...+. .++|+.|+++...+..+ ...| ++++ |... .|.. ...+ +.
T Consensus 12 ~~~~~~Vv~D~ETTGl~p~-~~~IIEIgaV~v~~g~i--------------v~~f~~lV~-P~~~-i~~~-~~~i---tG 70 (557)
T PRK07883 12 LRDVTFVVVDLETTGGSPA-GDAITEIGAVKVRGGEV--------------LGEFATLVN-PGRP-IPPF-ITVL---TG 70 (557)
T ss_pred CcCCCEEEEEEecCCCCCC-CCeEEEEEEEEEECCEE--------------EEEEEEEEC-CCCC-CChh-HHhh---cC
Confidence 3346899999999964443 47999999987754322 1223 2343 3322 2211 1111 10
Q ss_pred CCCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccc
Q 000430 628 KAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIF 707 (1517)
Q Consensus 628 ~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~f 707 (1517)
+.... +.-.+.+.+.|..|..++. .+++||||. .||+++|.+-+..++++. .
T Consensus 71 It~e~-l~~ap~~~evl~~f~~fl~---~~~lVaHNa-~FD~~fL~~~~~r~g~~~---~-------------------- 122 (557)
T PRK07883 71 ITTAM-VAGAPPIEEVLPAFLEFAR---GAVLVAHNA-PFDIGFLRAAAARCGYPW---P-------------------- 122 (557)
T ss_pred CCHHH-HhCCCCHHHHHHHHHHHhc---CCEEEEeCc-HHHHHHHHHHHHHcCCCC---C--------------------
Confidence 11011 1223578899999999986 489999998 799999999988877653 0
Q ss_pred cCCCCCCceeeecceEEeecHHHHhhcc---ccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHH
Q 000430 708 GSGASPGIMSCIAGRLLCDTFLCSRDLL---REVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAW 784 (1517)
Q Consensus 708 g~~~~~~~~~~i~GRlv~D~~~~~k~~~---k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~ 784 (1517)
....+|++..++.++ ...+|+|+++++. +|..... ..-.+.||.
T Consensus 123 -------------~~~~iDTl~lar~l~~~~~~~~~~L~~L~~~-~gi~~~~-------------------~H~Al~DA~ 169 (557)
T PRK07883 123 -------------GPPVLCTVRLARRVLPRDEAPNVRLSTLARL-FGATTTP-------------------THRALDDAR 169 (557)
T ss_pred -------------CCCcEecHHHHHHhcccCCCCCCCHHHHHHH-CCcccCC-------------------CCCHHHHHH
Confidence 001367777666655 3689999999984 5543111 012467888
Q ss_pred HHHHHHhhc
Q 000430 785 LSMELMFHL 793 (1517)
Q Consensus 785 L~~~L~~kl 793 (1517)
.+++|+.++
T Consensus 170 ata~l~~~l 178 (557)
T PRK07883 170 ATVDVLHGL 178 (557)
T ss_pred HHHHHHHHH
Confidence 888887664
No 55
>smart00479 EXOIII exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other exonucleases.
Probab=97.11 E-value=0.01 Score=63.21 Aligned_cols=161 Identities=22% Similarity=0.177 Sum_probs=97.2
Q ss_pred EEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceE-EEEecCCCcccCCccchhhhcccCCCCCc
Q 000430 554 VTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHF-TVVRKLDGGIFPMGFNKEATDRNSKAGSN 632 (1517)
Q Consensus 554 vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f-~~~r~~~~~~fp~~f~~~~~~~~~~~g~~ 632 (1517)
++.||+||+..... .++|+.|+++...+..+ . ..| .++++ ...+-| +...+ +.+....
T Consensus 2 ~v~~D~Ettg~~~~-~~~Iieig~v~~~~~~~-----~---------~~f~~~v~p-~~~i~~--~~~~~---~Git~~~ 60 (169)
T smart00479 2 LVVIDCETTGLDPG-KDEIIEIAAVDVDGGRI-----I---------VVFDTYVKP-DRPITD--YATEI---HGITPEM 60 (169)
T ss_pred EEEEEeeCCCCCCC-CCeEEEEEEEEEECCEe-----E---------EEEEEEECC-CCCCCH--HHHHH---hCCCHHH
Confidence 68899999865443 57899999987655321 0 112 34443 211111 11111 0000001
Q ss_pred eEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCC
Q 000430 633 VLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGAS 712 (1517)
Q Consensus 633 v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~ 712 (1517)
+ .-...+.+.+..|..++.. .+++|||...||+.+|..-+..++++.+.|
T Consensus 61 l-~~~~~~~~~~~~~~~~l~~---~~~v~~n~~~fD~~~L~~~~~~~~~~~~~~-------------------------- 110 (169)
T smart00479 61 L-DDAPTFEEVLEELLEFLKG---KILVAGNALNFDLRFLKLEHPRLGIKDPPK-------------------------- 110 (169)
T ss_pred H-hCCCCHHHHHHHHHHHhcC---CEEEEeCCHHHhHHHHHHHHHHhCCCCCcC--------------------------
Confidence 1 1235688899999998865 578999999999999998888776553100
Q ss_pred CCceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHHHhh
Q 000430 713 PGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMELMFH 792 (1517)
Q Consensus 713 ~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L~~k 792 (1517)
.+ .+|+...++......+++|+++++.+....... ...++.||..+++|+.+
T Consensus 111 --------~~-~iD~~~~~~~~~~~~~~~L~~l~~~~~~~~~~~-------------------~H~A~~Da~~t~~l~~~ 162 (169)
T smart00479 111 --------NP-VIDTLKLARALNPGRKYSLKKLAERLGLEVIGR-------------------AHRALDDARATAKLFKK 162 (169)
T ss_pred --------CC-eeEHHHHHHHHCCCCCCCHHHHHHHCCCCCCCC-------------------CcCcHHHHHHHHHHHHH
Confidence 11 467766666555555999999998764322111 12346788888888765
Q ss_pred c
Q 000430 793 L 793 (1517)
Q Consensus 793 l 793 (1517)
+
T Consensus 163 ~ 163 (169)
T smart00479 163 L 163 (169)
T ss_pred H
Confidence 4
No 56
>PRK07740 hypothetical protein; Provisional
Probab=97.09 E-value=0.0072 Score=69.52 Aligned_cols=167 Identities=19% Similarity=0.190 Sum_probs=98.3
Q ss_pred CCCCceEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccC
Q 000430 548 EVPPVTVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNS 627 (1517)
Q Consensus 548 ~~PpL~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~ 627 (1517)
++-.++++.||+||+.-.+...++|+.|+++...+..+ ... ...++++| .. ..|. +...+ ..
T Consensus 55 ~~~~~~~vv~D~ETTGl~p~~~deIIeIgaV~~~~~~i----~~~--------~f~~lv~P-~~-~i~~-~~~~l---tG 116 (244)
T PRK07740 55 PLTDLPFVVFDLETTGFSPQQGDEILSIGAVKTKGGEV----ETD--------TFYSLVKP-KR-PIPE-HILEL---TG 116 (244)
T ss_pred CccCCCEEEEEEeCCCCCCCCCCeEEEEEEEEEECCEE----EEE--------EEEEEeCc-CC-CCCh-hheec---cC
Confidence 45668899999999854444447999999987654321 010 22344543 32 2221 11111 10
Q ss_pred CCCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccc
Q 000430 628 KAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIF 707 (1517)
Q Consensus 628 ~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~f 707 (1517)
+.... +.-.+...+.|..|+.++.. +++||||+ .||+.+|.+-+.... +. | |
T Consensus 117 It~e~-l~~ap~~~evl~~f~~fi~~---~~lVahna-~fD~~fL~~~~~~~~---------~~------~--------~ 168 (244)
T PRK07740 117 ITAED-VAFAPPLAEVLHRFYAFIGA---GVLVAHHA-GHDKAFLRHALWRTY---------RQ------P--------F 168 (244)
T ss_pred CCHHH-HhCCCCHHHHHHHHHHHhCC---CEEEEeCH-HHHHHHHHHHHHHhc---------CC------C--------c
Confidence 11011 12235788999999998754 79999997 799999876332211 00 0 0
Q ss_pred cCCCCCCceeeecceEEeecHHHHhhccc-cCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHH
Q 000430 708 GSGASPGIMSCIAGRLLCDTFLCSRDLLR-EVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLS 786 (1517)
Q Consensus 708 g~~~~~~~~~~i~GRlv~D~~~~~k~~~k-~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~ 786 (1517)
..-++|+...++.+.+ ..+++|++++.. +|.....- ...+.||..+
T Consensus 169 -------------~~~~iDt~~l~r~l~~~~~~~sL~~l~~~-~gi~~~~~-------------------H~Al~Da~at 215 (244)
T PRK07740 169 -------------THRLIDTMFLTKLLAHERDFPTLDDALAY-YGIPIPRR-------------------HHALGDALMT 215 (244)
T ss_pred -------------CCCeechHHHHHHHcCCCCCCCHHHHHHH-CCcCCCCC-------------------CCcHHHHHHH
Confidence 1125788777766554 468999999975 55432110 1346788888
Q ss_pred HHHHhhc
Q 000430 787 MELMFHL 793 (1517)
Q Consensus 787 ~~L~~kl 793 (1517)
++|+.++
T Consensus 216 a~l~~~l 222 (244)
T PRK07740 216 AKLWAIL 222 (244)
T ss_pred HHHHHHH
Confidence 8887664
No 57
>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=97.04 E-value=0.00057 Score=85.25 Aligned_cols=33 Identities=39% Similarity=0.588 Sum_probs=24.6
Q ss_pred CCCCCceeeecccccccceEEEeeccCcchhHHH
Q 000430 889 PAYAGGLVLEPKKGLYDKYILLLDFNSLYPSIIQ 922 (1517)
Q Consensus 889 ~~Y~GGlVleP~~Gly~~~V~~LDF~SLYPSII~ 922 (1517)
..|.||.+-.-.+|.+. .|..+|++|||||+|.
T Consensus 204 ~s~~GGr~~~~~~~~~~-~i~~yDvnSLYP~~m~ 236 (459)
T PF03175_consen 204 KSYYGGRCEVFKPGIKN-KIYYYDVNSLYPSAMK 236 (459)
T ss_dssp EEE-GGGB-TEEEESE----EEEEETTHHHHHHH
T ss_pred hhcCCceeeeeeccccc-ceeeeeccCCcHHHHh
Confidence 47999999666777776 6999999999999988
No 58
>PRK06310 DNA polymerase III subunit epsilon; Validated
Probab=97.02 E-value=0.016 Score=67.01 Aligned_cols=142 Identities=15% Similarity=0.171 Sum_probs=84.6
Q ss_pred ceEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCCCC
Q 000430 552 VTVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKAGS 631 (1517)
Q Consensus 552 L~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~g~ 631 (1517)
.+++.||+||+.-... .++|+.|+++......+ ...|...-+|.. ..|.. +..-+.+...
T Consensus 7 ~~~v~~D~ETTGl~~~-~d~IIEIa~v~v~~~~~--------------~~~~~~li~P~~-~I~~~----a~~ihgIt~e 66 (250)
T PRK06310 7 TEFVCLDCETTGLDVK-KDRIIEFAAIRFTFDEV--------------IDSVEFLINPER-VVSAE----SQRIHHISDA 66 (250)
T ss_pred CcEEEEEEeCCCCCCC-CCeEEEEEEEEEECCeE--------------EEEEEEEECcCC-CCCHh----hhhccCcCHH
Confidence 5789999999964332 37899998876543211 012222223332 12211 1000001000
Q ss_pred ceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCC
Q 000430 632 NVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGA 711 (1517)
Q Consensus 632 ~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~ 711 (1517)
.| .-.+...+++..|.+++.. .+++||||+ .||+++|..-+..++++. +..
T Consensus 67 ~v-~~~p~~~ev~~~~~~fl~~--~~~lvghn~-~FD~~~L~~~~~r~g~~~--~~~----------------------- 117 (250)
T PRK06310 67 ML-RDKPKIAEVFPQIKGFFKE--GDYIVGHSV-GFDLQVLSQESERIGETF--LSK----------------------- 117 (250)
T ss_pred HH-hCCCCHHHHHHHHHHHhCC--CCEEEEECH-HHHHHHHHHHHHHcCCCc--ccc-----------------------
Confidence 11 1225678899999998853 489999997 599999998887776653 100
Q ss_pred CCCceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCC
Q 000430 712 SPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNK 752 (1517)
Q Consensus 712 ~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~ 752 (1517)
..-.+|+...++.+....+|+|..+++.+ |.
T Consensus 118 ---------~~~~iDtl~lar~~~~~~~~~L~~l~~~~-g~ 148 (250)
T PRK06310 118 ---------HYYIIDTLRLAKEYGDSPNNSLEALAVHF-NV 148 (250)
T ss_pred ---------CCcEEehHHHHHhcccCCCCCHHHHHHHC-CC
Confidence 01146777777765556789999999865 53
No 59
>PRK07942 DNA polymerase III subunit epsilon; Provisional
Probab=96.96 E-value=0.023 Score=64.92 Aligned_cols=146 Identities=16% Similarity=0.168 Sum_probs=83.8
Q ss_pred CCCceEEEEEeeecCCCCCCcccEEEEEEEEeec-ccccCccccccccCCCccceE-EEEecCCCcccCCccchhhhccc
Q 000430 549 VPPVTVTAINLKTVFNKRQDVNEIVSASVVCCHK-AKIDTPMLASEWKKPGMLSHF-TVVRKLDGGIFPMGFNKEATDRN 626 (1517)
Q Consensus 549 ~PpL~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~-~~id~~~~~~~~~~~~~~~~f-~~~r~~~~~~fp~~f~~~~~~~~ 626 (1517)
+...+++.||+||+.-++. .++|+.|+++.... ..+ . ..| .+++| . ...|.. ...+ .
T Consensus 3 ~~~~~~vv~D~ETTGl~p~-~d~Iieig~v~v~~~g~~----~----------~~~~~lv~P-~-~~i~~~-a~~I---h 61 (232)
T PRK07942 3 WHPGPLAAFDLETTGVDPE-TARIVTAALVVVDADGEV----V----------ESREWLADP-G-VEIPEE-ASAV---H 61 (232)
T ss_pred cccCcEEEEEeccCCCCCC-CCeeEEEEEEEEeCCCcc----c----------cceEEEECC-C-CCCCHH-HHHH---h
Confidence 4567889999999954443 36899988876542 211 0 123 34443 3 223321 1111 1
Q ss_pred CCCCCceEeecccHHHHHHHHHHHHHhc--CCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCc
Q 000430 627 SKAGSNVLCCESSERALLNRLMIELYKL--DSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGR 704 (1517)
Q Consensus 627 ~~~g~~v~~~~~nEreLL~~Fl~~I~~~--DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~ 704 (1517)
.+....+...-..+.+.|..|..+|... +-.++||||. .||+.+|.+=+..++++. +
T Consensus 62 GIt~e~l~~~g~~~~~vl~e~~~~l~~~~~~~~~lVahNa-~FD~~fL~~~~~r~~~~~--~------------------ 120 (232)
T PRK07942 62 GITTEYARAHGRPAAEVLAEIADALREAWARGVPVVVFNA-PYDLTVLDRELRRHGLPS--L------------------ 120 (232)
T ss_pred CCCHHHHHhhCCCHHHHHHHHHHHHHHHhhcCCEEEEeCc-HhhHHHHHHHHHHcCCCC--c------------------
Confidence 0100001000123567899999988753 4679999998 699999987666665442 1
Q ss_pred ccccCCCCCCceeeecceEEeecHHHHhhcc--ccCCCCHHHHHHHhcCC
Q 000430 705 TIFGSGASPGIMSCIAGRLLCDTFLCSRDLL--REVSYSLTQLAKTQLNK 752 (1517)
Q Consensus 705 ~~fg~~~~~~~~~~i~GRlv~D~~~~~k~~~--k~~SYsL~~va~~~Lg~ 752 (1517)
....++|++...+.+. +..+++|+++|++ +|.
T Consensus 121 ---------------~~~~~iDt~~l~~~~~~~~~~~~~L~~l~~~-~gi 154 (232)
T PRK07942 121 ---------------VPGPVIDPYVIDKAVDRYRKGKRTLTALCEH-YGV 154 (232)
T ss_pred ---------------cCCcEeeHHHHHhhhhcccCCCCCHHHHHHH-cCC
Confidence 0111357665555432 2357999999987 454
No 60
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=96.89 E-value=0.014 Score=78.96 Aligned_cols=138 Identities=22% Similarity=0.243 Sum_probs=87.1
Q ss_pred eEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceE-EEEecCCCcccCCccchhhhcccCCCCC
Q 000430 553 TVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHF-TVVRKLDGGIFPMGFNKEATDRNSKAGS 631 (1517)
Q Consensus 553 ~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f-~~~r~~~~~~fp~~f~~~~~~~~~~~g~ 631 (1517)
+++.||+||+...+.+.++|+.|+++...+..+. ..| ++++ |.. ..|. +...+. .+...
T Consensus 4 ~~vvvD~ETTG~~p~~~d~IIeigav~v~~~~i~--------------~~f~~~v~-P~~-~i~~-~~~~lt---GIt~~ 63 (928)
T PRK08074 4 RFVVVDLETTGNSPKKGDKIIQIAAVVVEDGEIL--------------ERFSSFVN-PER-PIPP-FITELT---GISEE 63 (928)
T ss_pred CEEEEEEeCCCCCCCCCCcEEEEEEEEEECCEEE--------------EEEEEEEC-cCC-CCCH-HHhhcC---CCCHH
Confidence 4789999999765544579999999877544321 223 3444 332 2332 111110 01101
Q ss_pred ceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCC
Q 000430 632 NVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGA 711 (1517)
Q Consensus 632 ~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~ 711 (1517)
.+ .-.+...+.+..|..++. ..++||||+ .||+++|-+-+...|++. +.
T Consensus 64 ~l-~~ap~f~ev~~~l~~~l~---~~~~VaHN~-~FD~~fL~~~~~~~g~~~--~~------------------------ 112 (928)
T PRK08074 64 MV-KQAPLFEDVAPEIVELLE---GAYFVAHNV-HFDLNFLNEELERAGYTE--IH------------------------ 112 (928)
T ss_pred HH-hcCCCHHHHHHHHHHHhC---CCeEEEECh-HHHHHHHHHHHHHcCCCC--CC------------------------
Confidence 11 122467889999999985 579999997 699999988777766542 10
Q ss_pred CCCceeeecceEEeecHHHHhhccc-cCCCCHHHHHHHhcCC
Q 000430 712 SPGIMSCIAGRLLCDTFLCSRDLLR-EVSYSLTQLAKTQLNK 752 (1517)
Q Consensus 712 ~~~~~~~i~GRlv~D~~~~~k~~~k-~~SYsL~~va~~~Lg~ 752 (1517)
++ .+|+...++.+++ ..+|+|.+||.. ||.
T Consensus 113 ---------~~-~iDt~~la~~~~p~~~~~~L~~l~~~-l~i 143 (928)
T PRK08074 113 ---------CP-KLDTVELARILLPTAESYKLRDLSEE-LGL 143 (928)
T ss_pred ---------CC-eeeHHHHHHHhcCCCCCCCHHHHHHh-CCC
Confidence 11 4788777776654 689999999997 453
No 61
>PRK06309 DNA polymerase III subunit epsilon; Validated
Probab=96.86 E-value=0.021 Score=65.17 Aligned_cols=99 Identities=12% Similarity=0.075 Sum_probs=68.6
Q ss_pred cccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCCCCce
Q 000430 637 ESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGASPGIM 716 (1517)
Q Consensus 637 ~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~~~~ 716 (1517)
.+...+.+..|++++. +.+++||||+..||+++|.+-+..++++. ..
T Consensus 63 ~p~f~ev~~~~~~fi~--~~~~lVaHN~~~FD~~~L~~e~~r~g~~~--~~----------------------------- 109 (232)
T PRK06309 63 APKFPEAYQKFIEFCG--TDNILVAHNNDAFDFPLLRKECRRHGLEP--PT----------------------------- 109 (232)
T ss_pred CCCHHHHHHHHHHHHc--CCCEEEEeCCHHHHHHHHHHHHHHcCCCC--CC-----------------------------
Confidence 3567889999999985 34799999998999999998877776653 00
Q ss_pred eeecceEEeecHHHHhhccc-cCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHHHhhc
Q 000430 717 SCIAGRLLCDTFLCSRDLLR-EVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMELMFHL 793 (1517)
Q Consensus 717 ~~i~GRlv~D~~~~~k~~~k-~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L~~kl 793 (1517)
.-.+|+..+++.+.. ..+++|..+++.+ |.... . +.-.+.||+.+++|+.++
T Consensus 110 -----~~~iDt~~l~~~~~~~~~~~~L~~l~~~~-~~~~~--~-----------------aH~Al~Da~~t~~vl~~l 162 (232)
T PRK06309 110 -----LRTIDSLKWAQKYRPDLPKHNLQYLRQVY-GFEEN--Q-----------------AHRALDDVITLHRVFSAL 162 (232)
T ss_pred -----CcEEeHHHHHHHHcCCCCCCCHHHHHHHc-CCCCC--C-----------------CCCcHHHHHHHHHHHHHH
Confidence 013677777766543 5689999999876 42211 0 112357888888887664
No 62
>PRK05601 DNA polymerase III subunit epsilon; Validated
Probab=96.79 E-value=0.038 Score=66.53 Aligned_cols=194 Identities=14% Similarity=0.130 Sum_probs=106.7
Q ss_pred CCCCceEEEEEeeecCCCCCCcccEEEEEEEEee-cccccCccccccccCCCccceEEEEecCCCcccCC---ccchhhh
Q 000430 548 EVPPVTVTAINLKTVFNKRQDVNEIVSASVVCCH-KAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPM---GFNKEAT 623 (1517)
Q Consensus 548 ~~PpL~vlS~dIeT~~n~~~~~~EI~~iS~~~~~-~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~---~f~~~~~ 623 (1517)
+++....++|||||+--++. .++|+.|+++... +..+. . ...+++.+. ..+.|. |+..+.
T Consensus 42 ~~~~~~fVvlDiETTGLdp~-~drIIeIgAV~i~~~g~iv-----e--------~f~tLVnP~-~~~~p~~LHGIT~e~- 105 (377)
T PRK05601 42 AIEAAPFVAVSIQTSGIHPS-TSRLITIDAVTLTADGEEV-----E--------HFHAVLNPG-EDPGPFHLHGLSAEE- 105 (377)
T ss_pred CCCCCCEEEEEEECCCCCCC-CCeEEEEEEEEEEcCCEEE-----E--------EEEEEECcC-CCCCCccccCCCHHH-
Confidence 45667899999999965443 4789999887654 33221 1 223455442 222221 111111
Q ss_pred cccCCCCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCC--ccccc-cccccCCCccc
Q 000430 624 DRNSKAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSS--MWSKI-GRLKRSEMPKL 700 (1517)
Q Consensus 624 ~~~~~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~--~wsri-GRlkr~~~p~~ 700 (1517)
+.-.++-.++|..|..+|.. .++|+||.. |||.||.+-++.+..... -++++ |+.++...
T Consensus 106 ----------La~AP~f~eVl~el~~fL~g---~vLVaHNA~-FD~~FL~~e~~r~~~~a~~~n~~~~r~~~~~~~~--- 168 (377)
T PRK05601 106 ----------FAQGKRFSQILKPLDRLIDG---RTLILHNAP-RTWGFIVSEAKRAMNAAARANRNRNRGNRRGGRG--- 168 (377)
T ss_pred ----------HhcCCCHHHHHHHHHHHhCC---CEEEEECcH-HHHHHHHHHHHHhhhhhhhccccccccccccccc---
Confidence 11124567899999999974 489999975 999999887665432210 01111 00000000
Q ss_pred ccCcccccCCCCCCceeeecceEEeecHHHHhhcc-ccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHH--HH
Q 000430 701 RKGRTIFGSGASPGIMSCIAGRLLCDTFLCSRDLL-REVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMEL--IE 777 (1517)
Q Consensus 701 ~~~~~~fg~~~~~~~~~~i~GRlv~D~~~~~k~~~-k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l--~~ 777 (1517)
.....++. .... --++|+...+|.+. .+.+|+|.+||.+ +|....+ .. . +.++... -+
T Consensus 169 -~rr~~~g~-------~p~p-~~~iDTL~LARrl~p~l~~~rL~~La~~-lGi~~p~---~~-A-----~~~Ra~~p~~~ 229 (377)
T PRK05601 169 -RRRQRVGH-------IPKP-VVIVDTLATARRQGVALDDIRIRGVAHT-LGLDAPA---AE-A-----SVERAQVPHRQ 229 (377)
T ss_pred -ccccccCC-------CCCC-CCEEEhHHHHHHHcCCCCCCCHHHHHHH-hCCCCCc---hh-h-----hhhhhcCChhh
Confidence 00000110 0111 23689988888776 4799999999997 4543211 10 0 0011111 12
Q ss_pred HHHHhHHHHHHHHhhc
Q 000430 778 YGETDAWLSMELMFHL 793 (1517)
Q Consensus 778 y~~~DA~L~~~L~~kl 793 (1517)
.+..||.++.+|+.++
T Consensus 230 l~~~Da~ll~~l~~~~ 245 (377)
T PRK05601 230 LCREETLLVARLYFAL 245 (377)
T ss_pred hhhHHHHHHHHHHHHh
Confidence 3557999999999764
No 63
>PRK06063 DNA polymerase III subunit epsilon; Provisional
Probab=96.74 E-value=0.041 Score=65.67 Aligned_cols=140 Identities=17% Similarity=0.126 Sum_probs=83.9
Q ss_pred CCCceEEEEEeeecCCCCCCcccEEEEEEEEee-cccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccC
Q 000430 549 VPPVTVTAINLKTVFNKRQDVNEIVSASVVCCH-KAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNS 627 (1517)
Q Consensus 549 ~PpL~vlS~dIeT~~n~~~~~~EI~~iS~~~~~-~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~ 627 (1517)
..|...+.||+||+--.+. .++|+.|+++... +..+ .. ...+++++ .....+.. + ..
T Consensus 12 ~~~~~fvvlD~ETTGl~p~-~d~IIeIgav~v~~~g~i-----~~--------~~~~lv~P-~~~~~~~~----I---hG 69 (313)
T PRK06063 12 HYPRGWAVVDVETSGFRPG-QARIISLAVLGLDADGNV-----EQ--------SVVTLLNP-GVDPGPTH----V---HG 69 (313)
T ss_pred CCCCCEEEEEEECCCCCCC-CCEEEEEEEEEEECCcee-----ee--------EEEEEECc-CCCCCCee----c---CC
Confidence 3457899999999954433 3689999987654 2221 00 12344543 21122211 1 00
Q ss_pred CCCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccc
Q 000430 628 KAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIF 707 (1517)
Q Consensus 628 ~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~f 707 (1517)
+....+ .-.+.-.+++..|..++. -+++||||+ .||+.+|.+-+..++++. |.
T Consensus 70 It~e~l-~~ap~f~ev~~~l~~~l~---~~~lVaHNa-~FD~~fL~~~~~r~g~~~--------------~~-------- 122 (313)
T PRK06063 70 LTAEML-EGQPQFADIAGEVAELLR---GRTLVAHNV-AFDYSFLAAEAERAGAEL--------------PV-------- 122 (313)
T ss_pred CCHHHH-hCCCCHHHHHHHHHHHcC---CCEEEEeCH-HHHHHHHHHHHHHcCCCC--------------CC--------
Confidence 000011 122456788888888874 489999997 799999988766655432 10
Q ss_pred cCCCCCCceeeecceEEeecHHHHhhcc-ccCCCCHHHHHHHhcCC
Q 000430 708 GSGASPGIMSCIAGRLLCDTFLCSRDLL-REVSYSLTQLAKTQLNK 752 (1517)
Q Consensus 708 g~~~~~~~~~~i~GRlv~D~~~~~k~~~-k~~SYsL~~va~~~Lg~ 752 (1517)
. ..+|++..++.+. ...+|+|.++|++ +|.
T Consensus 123 -------------~-~~ldTl~lar~~~~~~~~~kL~~l~~~-~gi 153 (313)
T PRK06063 123 -------------D-QVMCTVELARRLGLGLPNLRLETLAAH-WGV 153 (313)
T ss_pred -------------C-CEEehHHHHHHhccCCCCCCHHHHHHH-cCC
Confidence 0 1356766666653 5789999999986 454
No 64
>TIGR00573 dnaq exonuclease, DNA polymerase III, epsilon subunit family. All proteins in this family for which functions are known are components of the DNA polymerase III complex (epsilon subunit). There is, however, an outgroup that includes paralogs in some gamma-proteobacteria and the n-terminal region of DinG from some low GC gram positive bacteria. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.69 E-value=0.028 Score=63.47 Aligned_cols=103 Identities=15% Similarity=0.052 Sum_probs=58.7
Q ss_pred ceEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCCCC
Q 000430 552 VTVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKAGS 631 (1517)
Q Consensus 552 L~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~g~ 631 (1517)
.+.+.||+||+...+.+ + |+.|+++...+... ... ...++++ |... +|.. ...+ ..+...
T Consensus 7 ~~fvv~D~ETTGl~~~~-~-IIeIgav~v~~~~~----~~~--------~f~~li~-P~~~-i~~~-a~~i---hGIt~e 66 (217)
T TIGR00573 7 DTETTGDNETTGLYAGH-D-IIEIGAVEIINRRI----TGN--------KFHTYIK-PDRP-IDPD-AIKI---HGITDD 66 (217)
T ss_pred cCEEEEEecCCCCCCCC-C-EEEEEEEEEECCCE----eee--------EEEEEEC-cCCC-CCHH-HHhh---cCCCHH
Confidence 56789999999655433 4 88888876322111 000 1123444 3322 2211 0111 001000
Q ss_pred ceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHc
Q 000430 632 NVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVC 679 (1517)
Q Consensus 632 ~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~l 679 (1517)
.+ .-.+...+++..|..++. .+++||||+ .||+.+|.+-+..+
T Consensus 67 ~l-~~~p~~~ev~~~~~~~~~---~~~lVaHNa-~FD~~fL~~~~~r~ 109 (217)
T TIGR00573 67 ML-KDKPDFKEIAEDFADYIR---GAELVIHNA-SFDVGFLNYEFSKL 109 (217)
T ss_pred HH-cCCCCHHHHHHHHHHHhC---CCEEEEecc-HHHHHHHHHHHHHh
Confidence 11 122467789999999885 379999997 79999998876654
No 65
>cd06134 RNaseT DEDDh 3'-5' exonuclease domain of RNase T. RNase T is a DEDDh-type DnaQ-like 3'-5' exoribonuclease E implicated in the 3' maturation of small stable RNAs and 23srRNA, and in the end turnover of tRNA. It contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. RNase T is related to the proofreading domain of DNA polymerase III. Despite its important role, RNase T is mainly found only in gammaproteobacteria. It is speculated that it might have originated from DNA polymerase III at the time the gamma division of proteobacteria diverged from other bacteria. RNase T is a homodimer with the catalytic residues of one monomer contacting a large basic patch on the other monomer to form a functional active site.
Probab=96.69 E-value=0.043 Score=60.71 Aligned_cols=173 Identities=14% Similarity=0.140 Sum_probs=92.5
Q ss_pred EEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCCCCce
Q 000430 554 VTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKAGSNV 633 (1517)
Q Consensus 554 vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~g~~v 633 (1517)
-++||+||+...++ .++|++|+++...+.. ++-+.. . -...+++.|+.+..+|.. ...+ ..+.....
T Consensus 7 ~vv~D~ETTGl~~~-~d~Iieigav~v~~~~-~~~i~~-----~--~~f~~lv~P~~~~~i~~~-~~~i---hGIt~~~~ 73 (189)
T cd06134 7 PVVVDVETGGFNPQ-TDALLEIAAVTLEMDE-QGNLYP-----D--ETFHFHILPFEGANLDPA-ALEF---NGIDPFHP 73 (189)
T ss_pred eEEEEecCCCCCCC-CCeEEEEEEEEEEECC-CCceec-----c--ceEEEEEcCCCCCCCCHH-HHhh---cCCCchhh
Confidence 36899999965443 4789999887654211 000000 0 022345665444434421 1111 11100000
Q ss_pred EeecccHHHHHHHHHHHHHhc------CCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccc
Q 000430 634 LCCESSERALLNRLMIELYKL------DSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIF 707 (1517)
Q Consensus 634 ~~~~~nEreLL~~Fl~~I~~~------DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~f 707 (1517)
..--..+.+-|..|+.+|.+. +=.++||||. .||+.+|-+=++.+++....|.
T Consensus 74 ~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~lVaHna-~FD~~fL~~~~~~~~~~~~~~~-------------------- 132 (189)
T cd06134 74 FRFAVDEKEALKEIFKPIRKALKAQGCTRAILVGHNA-HFDLGFLNAAVARCKIKRNPFH-------------------- 132 (189)
T ss_pred hccccchHHHHHHHHHHHHHHHhhcccCCCeEEEecc-hhhHHHHHHHHHHhCCCCCCCC--------------------
Confidence 011123455666666666543 1258999998 6999999988777776310010
Q ss_pred cCCCCCCceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHH
Q 000430 708 GSGASPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSM 787 (1517)
Q Consensus 708 g~~~~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~ 787 (1517)
..+ .+|+...++.+. .+++|+++|.. +|.....-. ..-.+.||..+.
T Consensus 133 ------------~~~-~lDt~~la~~~~--~~~~L~~l~~~-~gi~~~~~~-----------------~H~Al~DA~ata 179 (189)
T cd06134 133 ------------PFS-TFDTATLAGLAY--GQTVLAKACQA-AGIEFDNKE-----------------AHSALYDTQKTA 179 (189)
T ss_pred ------------CCc-EEEHHHHHHHHh--CCCcHHHHHHH-CCCCCCCCC-----------------CcChHHHHHHHH
Confidence 011 478887777654 35789999886 453211000 012357888888
Q ss_pred HHHhhc
Q 000430 788 ELMFHL 793 (1517)
Q Consensus 788 ~L~~kl 793 (1517)
+|+.++
T Consensus 180 ~lf~~l 185 (189)
T cd06134 180 ELFCKI 185 (189)
T ss_pred HHHHHH
Confidence 887654
No 66
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type. The N-terminal region of about 200 amino acids is rich in low-complexity sequence, poorly alignable, and not included n this model.
Probab=96.53 E-value=0.055 Score=74.42 Aligned_cols=140 Identities=18% Similarity=0.183 Sum_probs=89.4
Q ss_pred ceEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCCCC
Q 000430 552 VTVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKAGS 631 (1517)
Q Consensus 552 L~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~g~ 631 (1517)
-+++.||+||+.-.+. .++|+.|+++...+..+ . . ...++++ |.. ..|.. ...+ ..+...
T Consensus 190 ~~~VVfDiETTGL~~~-~d~IIEIGAVkv~~g~i----i-d--------~f~~~V~-P~~-~I~~~-~~~l---tGIT~e 249 (1213)
T TIGR01405 190 ATYVVFDIETTGLSPQ-YDEIIEFGAVKVKNGRI----I-D--------KFQFFIK-PHE-PLSAF-VTEL---TGITQD 249 (1213)
T ss_pred CcEEEEEeEecCCCCC-CCeEEEEEEEEEECCeE----E-E--------EEEEEEC-CCC-CCCHH-HHHH---hCCCHH
Confidence 4899999999965443 47899988877654322 0 0 1123444 332 22221 1111 111100
Q ss_pred ceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCC
Q 000430 632 NVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGA 711 (1517)
Q Consensus 632 ~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~ 711 (1517)
.+ .-.++..+.|..|+.++. ..++|||| ..||+++|.+.+..++++. |.
T Consensus 250 ~L-~~ap~~~evl~~f~~fl~---~~iLVaHN-a~FD~~fL~~~~~r~g~~~--~~------------------------ 298 (1213)
T TIGR01405 250 ML-ENAPEIEEVLEKFKEFFK---DSILVAHN-ASFDIGFLNTNFEKVGLEP--LE------------------------ 298 (1213)
T ss_pred HH-hCCCCHHHHHHHHHHHhC---CCeEEEEC-hHHHHHHHHHHHHHcCCCc--cC------------------------
Confidence 11 123578999999999986 47999999 7899999999988877653 21
Q ss_pred CCCceeeecceEEeecHHHHhhcc-ccCCCCHHHHHHHhcCCC
Q 000430 712 SPGIMSCIAGRLLCDTFLCSRDLL-REVSYSLTQLAKTQLNKD 753 (1517)
Q Consensus 712 ~~~~~~~i~GRlv~D~~~~~k~~~-k~~SYsL~~va~~~Lg~~ 753 (1517)
.-.+|+...++.+. ...+|+|++||++ +|..
T Consensus 299 ----------~~~IDTl~lar~l~p~~k~~kL~~Lak~-lgi~ 330 (1213)
T TIGR01405 299 ----------NPVIDTLELARALNPEYKSHRLGNICKK-LGVD 330 (1213)
T ss_pred ----------CCEeEHHHHHHHHhccCCCCCHHHHHHH-cCCC
Confidence 01478877777665 3689999999997 4654
No 67
>PRK05168 ribonuclease T; Provisional
Probab=96.53 E-value=0.079 Score=59.69 Aligned_cols=146 Identities=17% Similarity=0.144 Sum_probs=83.7
Q ss_pred CCCceEEEEEeeecCCCCCCcccEEEEEEEEeec---ccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcc
Q 000430 549 VPPVTVTAINLKTVFNKRQDVNEIVSASVVCCHK---AKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDR 625 (1517)
Q Consensus 549 ~PpL~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~---~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~ 625 (1517)
.-.+++++||+||+.-.+. .++|+.|+++.... ..+. ... ...++++|+.+...|.. ...+
T Consensus 14 ~~~~~~vv~D~ETTGl~~~-~d~IieIgaV~v~~d~~g~i~---~~~--------~f~~lv~P~~~~~i~~~-~~~i--- 77 (211)
T PRK05168 14 FRGFLPVVIDVETAGFNAK-TDALLEIAAVTLKMDEQGWLY---PDE--------TLHFHVEPFEGANLEPE-ALAF--- 77 (211)
T ss_pred hcCCceEEEEeeCCCCCCC-CCEEEEEeEEEEEecCCCcEe---ccc--------eEEEEECCCCCCCCCHH-HHhh---
Confidence 3457889999999954443 47899998876542 1110 000 22346665444434321 1111
Q ss_pred cCCCCCc---eEeecccHHHHHHHHHHHHHhc------CCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCC
Q 000430 626 NSKAGSN---VLCCESSERALLNRLMIELYKL------DSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSE 696 (1517)
Q Consensus 626 ~~~~g~~---v~~~~~nEreLL~~Fl~~I~~~------DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~ 696 (1517)
.|.. .+.-...+.+.|..|+.++.+. +=.++||||+ .||+.+|-+-+..+++.. . .
T Consensus 78 ---hGIt~e~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~lVaHNa-~FD~~fL~~~~~r~~~~~---~--------~ 142 (211)
T PRK05168 78 ---NGIDPDNPLRGAVSEKEALHEIFKMVRKGIKASGCNRAILVAHNA-HFDLSFLMAAAERAGLKR---N--------P 142 (211)
T ss_pred ---cCCCchhhhhcCCChHHHHHHHHHHHHHHHHhcccCCceEEEecc-HHhHHHHHHHHHHhCCCC---C--------C
Confidence 1111 0111134566677777777542 1268999998 699999988887766431 0 0
Q ss_pred CcccccCcccccCCCCCCceeeecceEEeecHHHHhhccccCCCCHHHHHHHh
Q 000430 697 MPKLRKGRTIFGSGASPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQ 749 (1517)
Q Consensus 697 ~p~~~~~~~~fg~~~~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~ 749 (1517)
++. -+ ++|+...++.++. .++|..+++.+
T Consensus 143 ~~~---------------------~~-~iDt~~lar~~~~--~~~L~~l~~~~ 171 (211)
T PRK05168 143 FHP---------------------FS-TFDTATLSGLALG--QTVLAKACQAA 171 (211)
T ss_pred CCC---------------------Cc-EeeHHHHHHHHcC--CCCHHHHHHHC
Confidence 000 01 5788877776543 46899998863
No 68
>cd06138 ExoI_N N-terminal DEDDh 3'-5' exonuclease domain of Escherichia coli exonuclease I and similar proteins. This subfamily is composed of the N-terminal domain of Escherichia coli exonuclease I (ExoI) and similar proteins. ExoI is a monomeric enzyme that hydrolyzes single stranded DNA in the 3' to 5' direction. It plays a role in DNA recombination and repair. It primarily functions in repairing frameshift mutations. The N-terminal domain of ExoI is a DEDDh-type DnaQ-like 3'-5 exonuclease containing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. The ExoI structure is unique among DnaQ family enzymes in that there is a large distance between the two metal ions required for catalysis and the catalytic histidine is oriented away from the active site.
Probab=96.50 E-value=0.018 Score=63.26 Aligned_cols=109 Identities=11% Similarity=-0.007 Sum_probs=61.4
Q ss_pred EEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCCCCceEe
Q 000430 556 AINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKAGSNVLC 635 (1517)
Q Consensus 556 S~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~g~~v~~ 635 (1517)
-||+||+.-+.. .++|++|+++...+... .. . ...++++++.+...+.. ...+ +.+....+..
T Consensus 2 ~~D~ETTGl~~~-~d~Iieig~v~v~~~~~---~~-~--------~~~~~v~p~~~~~~~~~-a~~i---hGIt~e~l~~ 64 (183)
T cd06138 2 FYDYETFGLNPS-FDQILQFAAIRTDENFN---EI-E--------PFNIFCRLPPDVLPSPE-ALIV---TGITPQQLLK 64 (183)
T ss_pred EEEeecCCCCCC-CCceEEEEEEEECCCCC---Cc-c--------ceeEEEeCCCCCCCCHH-HHHH---hCCCHHHHHh
Confidence 489999843332 36899999876543211 00 0 11234444333222211 1111 1110011111
Q ss_pred ecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCC
Q 000430 636 CESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVP 682 (1517)
Q Consensus 636 ~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~ 682 (1517)
...++.++|..|+.++.+ ...++||||...||+.+|..=+..++.+
T Consensus 65 ~~~~~~~~l~~~~~~~~~-~~~~lVahn~~~FD~~fL~~~~~r~~~~ 110 (183)
T cd06138 65 EGLSEYEFIAKIHRLFNT-PGTCIVGYNNIRFDDEFLRFAFYRNLYD 110 (183)
T ss_pred cCCCHHHHHHHHHHHHcc-CCCcEEeeCchhhHHHHHHHHHHHCCCc
Confidence 124678899999999975 3468999998899999997766666654
No 69
>cd06130 DNA_pol_III_epsilon_like an uncharacterized bacterial subgroup of the DEDDh 3'-5' exonuclease domain family with similarity to the epsilon subunit of DNA polymerase III. This subfamily is composed of uncharacterized bacterial proteins with similarity to the epsilon subunit of DNA polymerase III (Pol III), a multisubunit polymerase which is the main DNA replicating enzyme in bacteria, functioning as the chromosomal replicase. The Pol III holoenzyme is a complex of ten different subunits, three of which (alpha, epsilon, and theta) compose the catalytic core. The Pol III epsilon subunit, encoded by the dnaQ gene, is a DEDDh-type 3'-5' exonuclease which is responsible for the proofreading activity of the polymerase, increasing the fidelity of DNA synthesis. It contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that ser
Probab=96.40 E-value=0.032 Score=58.92 Aligned_cols=133 Identities=20% Similarity=0.192 Sum_probs=79.5
Q ss_pred EEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceE-EEEecCCCcccCCccchhhhcccCCCCCce
Q 000430 555 TAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHF-TVVRKLDGGIFPMGFNKEATDRNSKAGSNV 633 (1517)
Q Consensus 555 lS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f-~~~r~~~~~~fp~~f~~~~~~~~~~~g~~v 633 (1517)
+.+|+||+-+. .++|++|+++......+ ...| .+++ |.. ..|.. ...+ ..+....+
T Consensus 2 v~~D~Ettg~~---~~~ii~ig~v~~~~~~~--------------~~~~~~~i~-p~~-~~~~~-~~~i---~GIt~e~l 58 (156)
T cd06130 2 VAIDFETANAD---RASACSIGLVKVRDGQI--------------VDTFYTLIR-PPT-RFDPF-NIAI---HGITPEDV 58 (156)
T ss_pred EEEEEeCCCCC---CCceEEEEEEEEECCEE--------------EEEEEEEeC-cCC-CCChh-hccc---cCcCHHHH
Confidence 57999998543 46899999987654322 0123 3333 332 12211 1111 00000001
Q ss_pred EeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCCC
Q 000430 634 LCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGASP 713 (1517)
Q Consensus 634 ~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~ 713 (1517)
.-.+...+.+..|.+++.. ++++|||+ .||+.+|.+-+..+|++. . +
T Consensus 59 -~~~~~~~~v~~~l~~~l~~---~~lv~hn~-~fD~~~l~~~~~~~g~~~---~----------~--------------- 105 (156)
T cd06130 59 -ADAPTFPEVWPEIKPFLGG---SLVVAHNA-SFDRSVLRAALEAYGLPP---P----------P--------------- 105 (156)
T ss_pred -hcCCCHHHHHHHHHHHhCC---CEEEEeCh-HHhHHHHHHHHHHcCCCC---C----------C---------------
Confidence 1123466888999999875 79999998 799999988888776552 0 0
Q ss_pred CceeeecceEEeecHHHHhhccc-cCCCCHHHHHHHhcCC
Q 000430 714 GIMSCIAGRLLCDTFLCSRDLLR-EVSYSLTQLAKTQLNK 752 (1517)
Q Consensus 714 ~~~~~i~GRlv~D~~~~~k~~~k-~~SYsL~~va~~~Lg~ 752 (1517)
. ..+|++..++..++ ..+|+|..+++. +|.
T Consensus 106 -------~-~~idt~~~~~~~~~~~~~~~L~~l~~~-~g~ 136 (156)
T cd06130 106 -------Y-QYLCTVRLARRVWPLLPNHKLNTVAEH-LGI 136 (156)
T ss_pred -------C-CEEEHHHHHHHHhccCCCCCHHHHHHH-cCC
Confidence 0 03577666665554 588999999996 454
No 70
>PRK06195 DNA polymerase III subunit epsilon; Validated
Probab=96.39 E-value=0.031 Score=66.52 Aligned_cols=135 Identities=16% Similarity=0.191 Sum_probs=82.4
Q ss_pred eEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCCCCc
Q 000430 553 TVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKAGSN 632 (1517)
Q Consensus 553 ~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~g~~ 632 (1517)
+.+.||+||+ +. ..++|+.|+++...+..+. . ...++++|.. ..++. ++..+ ..+....
T Consensus 2 ~~vviD~ETT-g~--~~d~IieIgav~v~~g~i~-----~--------~f~~lv~P~~-~~~~~-~~~~I---hGIT~e~ 60 (309)
T PRK06195 2 NFVAIDFETA-NE--KRNSPCSIGIVVVKDGEIV-----E--------KVHYLIKPKE-MRFMP-INIGI---HGIRPHM 60 (309)
T ss_pred cEEEEEEeCC-CC--CCCceEEEEEEEEECCEEE-----E--------EEEEEECCCC-CCCCh-hheec---cCcCHHH
Confidence 5789999998 33 2478999988776544321 0 2234555432 21211 11111 0011011
Q ss_pred eEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCC
Q 000430 633 VLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGAS 712 (1517)
Q Consensus 633 v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~ 712 (1517)
| .-.+...+++..|..++.. +++||||. .||+.+|..-+..++++. |.
T Consensus 61 v-~~ap~f~ev~~~~~~fl~~---~~lVaHNa-~FD~~fL~~~~~r~~~~~--------------~~------------- 108 (309)
T PRK06195 61 V-EDELEFDKIWEKIKHYFNN---NLVIAHNA-SFDISVLRKTLELYNIPM--------------PS------------- 108 (309)
T ss_pred H-hCCCCHHHHHHHHHHHhCC---CEEEEECc-HHHHHHHHHHHHHhCCCC--------------CC-------------
Confidence 1 1124567789999998853 89999998 699999987666655442 10
Q ss_pred CCceeeecceEEeecHHHHhhccc-cCCCCHHHHHHHh
Q 000430 713 PGIMSCIAGRLLCDTFLCSRDLLR-EVSYSLTQLAKTQ 749 (1517)
Q Consensus 713 ~~~~~~i~GRlv~D~~~~~k~~~k-~~SYsL~~va~~~ 749 (1517)
. -.+|++..++.+++ ..+|+|.++++++
T Consensus 109 --------~-~~idT~~lar~l~~~~~~~~L~~L~~~~ 137 (309)
T PRK06195 109 --------F-EYICTMKLAKNFYSNIDNARLNTVNNFL 137 (309)
T ss_pred --------C-CEEEHHHHHHHHcCCCCcCCHHHHHHHc
Confidence 0 13688777777664 5899999999974
No 71
>TIGR01407 dinG_rel DnaQ family exonuclease/DinG family helicase, putative. This model represents a family of proteins in Gram-positive bacteria. The N-terminal region of about 200 amino acids resembles the epsilon subunit of E. coli DNA polymerase III and the homologous region of the Gram-positive type DNA polymerase III alpha subunit. The epsilon subunit contains an exonuclease domain. The remainder of this protein family resembles a predicted ATP-dependent helicase, the DNA damage-inducible protein DinG of E. coli.
Probab=96.30 E-value=0.055 Score=72.83 Aligned_cols=139 Identities=19% Similarity=0.241 Sum_probs=85.6
Q ss_pred eEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCCCCc
Q 000430 553 TVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKAGSN 632 (1517)
Q Consensus 553 ~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~g~~ 632 (1517)
+.+.||+||+..++. .++|+.|+++...+..+ ...|+..-+|.. ..|.. ...+. .+....
T Consensus 1 ~~vvvD~ETTG~~~~-~~~IIeig~v~v~~~~i--------------~~~f~~~v~P~~-~i~~~-~~~lt---GIt~e~ 60 (850)
T TIGR01407 1 RYAVVDLETTGTQLS-FDKIIQIGIVVVEDGEI--------------VDTFHTDVNPNE-PIPPF-IQELT---GISDNM 60 (850)
T ss_pred CEEEEEEECCCCCCC-CCeEEEEEEEEEECCEE--------------EEEEEEEeCCCC-CCChh-hhhhc---CcCHHH
Confidence 367899999976543 48999999887654332 123333333332 22211 11110 000001
Q ss_pred eEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCC
Q 000430 633 VLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGAS 712 (1517)
Q Consensus 633 v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~ 712 (1517)
+ .-.+...+.+..|.+++. ..++||||+ +||+++|.+-+..+|++. |.
T Consensus 61 l-~~ap~~~ev~~~l~~~l~---~~~~VahN~-~fD~~fL~~~~~~~g~~~--~~------------------------- 108 (850)
T TIGR01407 61 L-QQAPYFSQVAQEIYDLLE---DGIFVAHNV-HFDLNFLAKALKDCGYEP--LP------------------------- 108 (850)
T ss_pred H-hCCCCHHHHHHHHHHHhC---CCEEEEeCc-HHHHHHHHHHHHHcCCCC--CC-------------------------
Confidence 1 123567889999999874 479999997 699999998887766553 10
Q ss_pred CCceeeecceEEeecHHHHhhccc-cCCCCHHHHHHHhcCCC
Q 000430 713 PGIMSCIAGRLLCDTFLCSRDLLR-EVSYSLTQLAKTQLNKD 753 (1517)
Q Consensus 713 ~~~~~~i~GRlv~D~~~~~k~~~k-~~SYsL~~va~~~Lg~~ 753 (1517)
+ ..+|+...++.++. ..+|+|.++|.+ +|..
T Consensus 109 --------~-~~iDt~~l~~~~~p~~~~~~L~~l~~~-~gi~ 140 (850)
T TIGR01407 109 --------K-PRIDTVELAQIFFPTEESYQLSELSEA-LGLT 140 (850)
T ss_pred --------C-CeEeHHHHHHHhcCCCCCCCHHHHHHH-CCCC
Confidence 0 13677766665554 579999999987 5543
No 72
>PRK07748 sporulation inhibitor KapD; Provisional
Probab=96.13 E-value=0.11 Score=58.31 Aligned_cols=168 Identities=13% Similarity=0.085 Sum_probs=94.5
Q ss_pred CceEEEEEeeecCCCCC-----CcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcc
Q 000430 551 PVTVTAINLKTVFNKRQ-----DVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDR 625 (1517)
Q Consensus 551 pL~vlS~dIeT~~n~~~-----~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~ 625 (1517)
+.+++.||+||+.+... ..+||+.|+++...+..+. . ...++++|.....+| .++..+.
T Consensus 3 ~~~~vvlD~EtTg~~~~~~~~~~~~eIIeIGaV~v~~~~i~-----~--------~f~~lV~P~~~~~i~-~~~~~lt-- 66 (207)
T PRK07748 3 EQQFLFLDFEFTMPQHKKKPKGFFPEIIEVGLVSVVGCEVE-----D--------TFSSYVKPKTFPSLT-ERCKSFL-- 66 (207)
T ss_pred cceEEEEEeecCCcCCCCCCCCCCCceEEEeEEEEecCcCh-----h--------hhcceECCCccCccC-hhhhhhc--
Confidence 46789999999854321 1368999998876544321 1 112345543211122 1122111
Q ss_pred cCCCCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcc
Q 000430 626 NSKAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRT 705 (1517)
Q Consensus 626 ~~~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~ 705 (1517)
.+....+ .-.++..+.|..|..++... +.+|++ |. +||+.+|.+-+..++++.+ |
T Consensus 67 -GIt~~~l-~~ap~~~evl~~f~~~~~~~-~~~iv~-~~-~fD~~fL~~~~~~~~~~~~-~------------------- 121 (207)
T PRK07748 67 -GITQEDV-DKGISFEELVEKLAEYDKRC-KPTIVT-WG-NMDMKVLKHNCEKAGVPFP-F------------------- 121 (207)
T ss_pred -CcCHHHH-ccCCCHHHHHHHHHHHhCcC-CeEEEE-EC-HHHHHHHHHHHHHcCCCCc-c-------------------
Confidence 1111112 12356788999999998642 235555 43 7999999988887776531 0
Q ss_pred cccCCCCCCceeeecceEEeecHHHHhhccc-cCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHH
Q 000430 706 IFGSGASPGIMSCIAGRLLCDTFLCSRDLLR-EVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAW 784 (1517)
Q Consensus 706 ~fg~~~~~~~~~~i~GRlv~D~~~~~k~~~k-~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~ 784 (1517)
-+..+|+....+.... ..+++|+++++. +|..... .+ ...+.||.
T Consensus 122 ---------------~~~~~dl~~~~~~~~~~~~~~~L~~~~~~-~gi~~~~-~~-----------------H~Al~DA~ 167 (207)
T PRK07748 122 ---------------KGQCRDLSLEYKKFFGERNQTGLWKAIEE-YGKEGTG-KH-----------------HCALDDAM 167 (207)
T ss_pred ---------------cccceeHHHHHHHHhCcCCCCCHHHHHHH-cCCCCCC-CC-----------------cChHHHHH
Confidence 0113566555554443 356899998875 3432100 00 12467888
Q ss_pred HHHHHHhhc
Q 000430 785 LSMELMFHL 793 (1517)
Q Consensus 785 L~~~L~~kl 793 (1517)
.+.+|+.++
T Consensus 168 ~ta~l~~~l 176 (207)
T PRK07748 168 TTYNIFKLV 176 (207)
T ss_pred HHHHHHHHH
Confidence 888888764
No 73
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=95.92 E-value=0.092 Score=70.24 Aligned_cols=137 Identities=16% Similarity=0.155 Sum_probs=83.0
Q ss_pred ceEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceE-EEEecCCCcccCCccchhhhcccCCCC
Q 000430 552 VTVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHF-TVVRKLDGGIFPMGFNKEATDRNSKAG 630 (1517)
Q Consensus 552 L~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f-~~~r~~~~~~fp~~f~~~~~~~~~~~g 630 (1517)
-+.+.||+||+...+ .++|+.|+++...+..+. ..| ++++ |. ...|.. ...+ ..+..
T Consensus 7 ~~~vvvD~ETTGl~~--~d~IIeIgaV~v~~g~i~--------------~~f~~lv~-P~-~~i~~~-~~~l---tGIt~ 64 (820)
T PRK07246 7 RKYAVVDLEATGAGP--NASIIQVGIVIIEGGEII--------------DSYTTDVN-PH-EPLDEH-IKHL---TGITD 64 (820)
T ss_pred CCEEEEEEecCCcCC--CCeEEEEEEEEEECCEEE--------------EEEEEEeC-cC-CCCCHh-Hhhc---CCCCH
Confidence 468899999996543 379999998876544321 223 3444 33 222211 1111 00110
Q ss_pred CceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCC
Q 000430 631 SNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSG 710 (1517)
Q Consensus 631 ~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~ 710 (1517)
..+ .-.+...+.+..|..++. -.++||||+ .||+.+|..-+...+.+. +
T Consensus 65 e~l-~~ap~~~ev~~~~~~~l~---~~~lVaHN~-~FD~~fL~~~~~~~g~~~--------------~------------ 113 (820)
T PRK07246 65 QQL-AQAPDFSQVARHIYDLIE---DCIFVAHNV-KFDANLLAEALFLEGYEL--------------R------------ 113 (820)
T ss_pred HHH-hcCCCHHHHHHHHHHHhC---CCEEEEECc-HHHHHHHHHHHHHcCCCC--------------C------------
Confidence 111 123567889999998876 389999998 699999966544333321 0
Q ss_pred CCCCceeeecceEEeecHHHHhhccc-cCCCCHHHHHHHhcCCC
Q 000430 711 ASPGIMSCIAGRLLCDTFLCSRDLLR-EVSYSLTQLAKTQLNKD 753 (1517)
Q Consensus 711 ~~~~~~~~i~GRlv~D~~~~~k~~~k-~~SYsL~~va~~~Lg~~ 753 (1517)
. ..+|+...++.+++ ..+|+|+++|.. +|..
T Consensus 114 ----------~-~~iDT~~la~~~~p~~~~~~L~~L~~~-lgl~ 145 (820)
T PRK07246 114 ----------T-PRVDTVELAQVFFPTLEKYSLSHLSRE-LNID 145 (820)
T ss_pred ----------C-CceeHHHHHHHHhCCCCCCCHHHHHHH-cCCC
Confidence 0 02677777776664 579999999986 5643
No 74
>cd06144 REX4_like DEDDh 3'-5' exonuclease domain of RNA exonuclease 4, XPMC2, Interferon Stimulated Gene product of 20 kDa, and similar proteins. This subfamily is composed of RNA exonuclease 4 (REX4 or Rex4p), XPMC2, Interferon (IFN) Stimulated Gene product of 20 kDa (ISG20), and similar proteins. REX4 is involved in pre-rRNA processing. It controls the ratio between the two forms of 5.8S rRNA in yeast. XPMC2 is a Xenopus gene which was identified through its ability to correct a mitotic defect in fission yeast. The human homolog of XPMC2 (hPMC2) may be involved in angiotensin II-induced adrenal cell cycle progression and cell proliferation. ISG20 is an IFN-induced antiviral exonuclease with a strong preference for single-stranded RNA and minor activity towards single-stranded DNA. These proteins are DEDDh-type DnaQ-like 3'-5' exonucleases containing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clus
Probab=95.88 E-value=0.029 Score=59.76 Aligned_cols=32 Identities=28% Similarity=0.384 Sum_probs=26.9
Q ss_pred cccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHH
Q 000430 637 ESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVL 672 (1517)
Q Consensus 637 ~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yL 672 (1517)
.++..+.+..|..++. ..++||||+ +||+.+|
T Consensus 61 a~~~~~~~~~l~~~l~---~~vlVgHn~-~fD~~~L 92 (152)
T cd06144 61 APDFEEVQKKVAELLK---GRILVGHAL-KNDLKVL 92 (152)
T ss_pred CCCHHHHHHHHHHHhC---CCEEEEcCc-HHHHHHh
Confidence 3567889999999985 389999999 6999887
No 75
>TIGR03491 RecB family nuclease, putative, TM0106 family. Members of this uncharacterized protein family are found broadly but sporadically among bacteria. The N-terminal region is homologous to the Cas4 protein of CRISPR systems, although this protein family shows no signs of association with CRISPR repeats.
Probab=95.84 E-value=0.037 Score=69.28 Aligned_cols=120 Identities=18% Similarity=0.182 Sum_probs=89.0
Q ss_pred ccHHHHHHHHHHHHHhcCCC-EEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCCCCce
Q 000430 638 SSERALLNRLMIELYKLDSD-VLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGASPGIM 716 (1517)
Q Consensus 638 ~nEreLL~~Fl~~I~~~DPD-VIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~~~~ 716 (1517)
.+|++.+..|+++++.+ |+ -|+.|| +|-.++|.+.+..++++...+..
T Consensus 326 ~~E~~~~~~f~~~l~~~-~~~~i~hY~--~~e~~~l~rla~~~~~~~~~~~~---------------------------- 374 (457)
T TIGR03491 326 NTEELAWQQFLQLLQSY-PDAPIYHYG--ETEKDSLRRLAKRYGTPEAEIEE---------------------------- 374 (457)
T ss_pred hHHHHHHHHHHHHHHHC-CCCeEEeeC--HHHHHHHHHHHHHcCCCHHHHHH----------------------------
Confidence 47999999999999987 87 688999 57799999999988876311111
Q ss_pred eeecceEEeecHHHHhhc--cccCCCCHHHHHHHhcCCCCC--ccChhhHHHHHhc----c-h-hHHHHHHHHHHhHHHH
Q 000430 717 SCIAGRLLCDTFLCSRDL--LREVSYSLTQLAKTQLNKDRK--EVGPHDVLKMFQT----L-E-SLMELIEYGETDAWLS 786 (1517)
Q Consensus 717 ~~i~GRlv~D~~~~~k~~--~k~~SYsL~~va~~~Lg~~k~--di~~~eI~~~~~~----~-~-~l~~l~~y~~~DA~L~ 786 (1517)
.+. -.+|++..++.. +...||+|++|+.. ||.++. ..++.+....|.. + + .+..|+.||..|+..+
T Consensus 375 -l~~--~~vDL~~~vr~~~~~p~~sysLK~v~~~-lg~~~~~~~~~G~~ai~~y~~~~~~~~~~~l~~l~~YN~dD~~At 450 (457)
T TIGR03491 375 -LLK--RFVDIHTIVRRSWILPIESYSLKSIARW-LGFEWRQKEASGAKSLLWYRQWKKTGDRRLLERILRYNEDDCRAT 450 (457)
T ss_pred -HHH--HheehHHHHHhhEECCCCCCCHHHHHHH-hCcccCCCCCCHHHHHHHHHHHHHhCCHHHHHHHHHHhHHHHHHH
Confidence 011 258999887764 35789999999885 576544 3777777666642 2 2 3668999999999999
Q ss_pred HHHHhh
Q 000430 787 MELMFH 792 (1517)
Q Consensus 787 ~~L~~k 792 (1517)
..|...
T Consensus 451 ~~l~~w 456 (457)
T TIGR03491 451 WIVADW 456 (457)
T ss_pred HHHHHh
Confidence 988654
No 76
>PRK09145 DNA polymerase III subunit epsilon; Validated
Probab=95.70 E-value=0.24 Score=55.32 Aligned_cols=105 Identities=21% Similarity=0.192 Sum_probs=63.0
Q ss_pred CCceEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceE-EEEecCCCcccCCccchhhhcccCC
Q 000430 550 PPVTVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHF-TVVRKLDGGIFPMGFNKEATDRNSK 628 (1517)
Q Consensus 550 PpL~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f-~~~r~~~~~~fp~~f~~~~~~~~~~ 628 (1517)
.+-+++.+|+||+..... .++|+.|+++...+..+. .. ..| .++++ ... .| .+...+. .+
T Consensus 27 ~~~~~vviD~ETTGl~~~-~d~IieIgaV~~~~~~~~---~~---------~~f~~~i~p-~~~-i~-~~~~~ih---GI 87 (202)
T PRK09145 27 PPDEWVALDCETTGLDPR-RAEIVSIAAVKIRGNRIL---TS---------ERLELLVRP-PQS-LS-AESIKIH---RL 87 (202)
T ss_pred CCCCEEEEEeECCCCCCC-CCceEEEEEEEEECCEEe---ec---------CceEEEECC-CCC-CC-HhHhhhc---Cc
Confidence 445899999999954443 368999998876543220 00 112 34443 221 21 1111110 00
Q ss_pred CCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHH
Q 000430 629 AGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQV 678 (1517)
Q Consensus 629 ~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~ 678 (1517)
....+ .-.+.+.+.+..|+.++.. .+++|||. .||+.+|..-+..
T Consensus 88 t~~~l-~~~~~~~~vl~~~~~~i~~---~~lv~hn~-~fD~~fL~~~~~~ 132 (202)
T PRK09145 88 RHQDL-EDGLSEEEALRQLLAFIGN---RPLVGYYL-EFDVAMLNRYVRP 132 (202)
T ss_pred CHHHH-hcCCCHHHHHHHHHHHHcC---CeEEEeCH-HHHHHHHHHHHHH
Confidence 00111 1235688999999999863 68999996 6999999887765
No 77
>cd06127 DEDDh DEDDh 3'-5' exonuclease domain family. DEDDh exonucleases, part of the DnaQ-like (or DEDD) exonuclease superfamily, catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. These proteins contain four invariant acidic residues in three conserved sequence motifs termed ExoI, ExoII and ExoIII. DEDDh exonucleases are classified as such because of the presence of specific Hx(4)D conserved pattern at the ExoIII motif. The four conserved acidic residues are clustered around the active site and serve as ligands for the two metal ions required for catalysis. Most DEDDh exonucleases are the proofreading subunits (epsilon) or domains of bacterial DNA polymerase III, the main replicating enzyme in bacteria, which functions as the chromosomal replicase. Other members include other DNA and RNA exonucleases such as RNase T, Oligoribonuclease, and RNA exonuclease (REX), among others.
Probab=95.70 E-value=0.13 Score=53.33 Aligned_cols=102 Identities=20% Similarity=0.193 Sum_probs=59.5
Q ss_pred EEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCCCCceE
Q 000430 555 TAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKAGSNVL 634 (1517)
Q Consensus 555 lS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~g~~v~ 634 (1517)
+.+|+||+...+ ..++|+.|+++..... +. +.. ....++++ ...+.|. ...+ +.... ..+
T Consensus 1 v~~D~Ettg~~~-~~~~iiei~~v~~~~~-~~---~~~--------~~~~~i~p-~~~~~~~--~~~~---~gi~~-~~~ 60 (159)
T cd06127 1 VVFDTETTGLDP-KKDRIIEIGAVKVDGG-IE---IVE--------RFETLVNP-GRPIPPE--ATAI---HGITD-EML 60 (159)
T ss_pred CeEEeeCCCcCC-CCCeEEEEEEEEEECC-cC---hhh--------hhheeeCc-CCcCCHh--heec---cCCCH-HHH
Confidence 358999986544 3588999998877543 10 000 11123333 2222211 1111 00000 001
Q ss_pred eecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcC
Q 000430 635 CCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCR 680 (1517)
Q Consensus 635 ~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lk 680 (1517)
.-.....+.+..|..++.. ++++|||+ .||+.+|...+..++
T Consensus 61 ~~~~~~~~~~~~~~~~l~~---~~~v~~n~-~fD~~~l~~~~~~~~ 102 (159)
T cd06127 61 ADAPPFEEVLPEFLEFLGG---RVLVAHNA-SFDLRFLNRELRRLG 102 (159)
T ss_pred hcCCCHHHHHHHHHHHHCC---CEEEEeCc-HhhHHHHHHHHHHhC
Confidence 1123566888999888876 89999999 899999999888766
No 78
>TIGR01298 RNaseT ribonuclease T. in gamma-subdivision Proteobacteria such as Escherichia coli and Xylella fastidiosa. Ribonuclease T is homologous to the DNA polymerase III alpha chain. It can liberate AMP from the common C-C-A terminus of uncharged tRNA. It appears also to be involved in RNA maturation. It also acts as a 3' to 5' single-strand DNA-specific exonuclease; it is distinctive for its ability to remove residues near a double-stranded stem. Ribonuclease T is a high copy suppressor in E. coli of a uv-repair defect caused by deletion of three other single-stranded DNA exonucleases.
Probab=95.57 E-value=0.38 Score=53.86 Aligned_cols=174 Identities=16% Similarity=0.124 Sum_probs=88.9
Q ss_pred ceEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceE-EEEecCCCcccCCccchhhhcccCCCC
Q 000430 552 VTVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHF-TVVRKLDGGIFPMGFNKEATDRNSKAG 630 (1517)
Q Consensus 552 L~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f-~~~r~~~~~~fp~~f~~~~~~~~~~~g 630 (1517)
+.-+.||+||+...+. .++|+.|+++...... .+-+.. ...| +++.+..+...|.. ...+ ..+..
T Consensus 8 ~~~vv~D~ETTGl~~~-~d~IieIgav~v~~~~-~g~i~~--------~~~f~~~v~p~p~~~i~~~-a~~i---hGIt~ 73 (200)
T TIGR01298 8 YLPVVVDVETGGFNAK-TDALLEIAAITLKMDE-QGWLFP--------DTTLHFHVEPFEGANIQPE-ALEF---TGIDL 73 (200)
T ss_pred CeeEEEEeeCCCCCCC-CCeEEEEEEEEEEEcC-CCcEee--------cceeEEEEcCCCCCCCCHH-HHHc---cCCCh
Confidence 4557999999954443 4789999887653210 000000 0113 34444333333321 0111 00000
Q ss_pred CceEeecccHHHHHHHHHHHHHhc------CCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCc
Q 000430 631 SNVLCCESSERALLNRLMIELYKL------DSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGR 704 (1517)
Q Consensus 631 ~~v~~~~~nEreLL~~Fl~~I~~~------DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~ 704 (1517)
...+.-...+.+.+..|+.++.+. +-.++||||+. ||+.+|-+=+..++... . |
T Consensus 74 ~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~lVaHNa~-FD~~fL~~~~~r~~~~~---~----------~------ 133 (200)
T TIGR01298 74 DHPLRGAVSEYEALHEIFKVVRKAMKASGCQRAILVGHNAN-FDLGFLNAAVERTSLKR---N----------P------ 133 (200)
T ss_pred hhhhhcCcchHHHHHHHHHHHHHHHHhcccCCCEEEEECch-hhHHHHHHHHHHhCCCC---C----------C------
Confidence 000111134555666666666422 33689999985 99999987666555321 0 0
Q ss_pred ccccCCCCCCceeeecceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHH
Q 000430 705 TIFGSGASPGIMSCIAGRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAW 784 (1517)
Q Consensus 705 ~~fg~~~~~~~~~~i~GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~ 784 (1517)
+. .. -.+|+...++..+ .+++|..+|+. +|....... ..-.+.||.
T Consensus 134 --~~-----------~~-~~lDTl~lar~~~--~~~~L~~l~~~-~gi~~~~~~-----------------~H~Al~Da~ 179 (200)
T TIGR01298 134 --FH-----------PF-STFDTATLAGLAY--GQTVLAKACQA-AGXDFDSTQ-----------------AHSALYDTE 179 (200)
T ss_pred --CC-----------CC-cEEEHHHHHHHHc--CcccHHHHHHH-cCCCccccc-----------------hhhhHHhHH
Confidence 00 00 1578887777554 45789999985 443210000 112357888
Q ss_pred HHHHHHhhc
Q 000430 785 LSMELMFHL 793 (1517)
Q Consensus 785 L~~~L~~kl 793 (1517)
.+.+|+.++
T Consensus 180 ata~lf~~l 188 (200)
T TIGR01298 180 KTAELFCEI 188 (200)
T ss_pred HHHHHHHHH
Confidence 888777553
No 79
>KOG1798 consensus DNA polymerase epsilon, catalytic subunit A [Replication, recombination and repair]
Probab=95.49 E-value=0.21 Score=67.14 Aligned_cols=107 Identities=17% Similarity=0.312 Sum_probs=87.9
Q ss_pred hhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEeeccceeeecCcccHHHHHHHHHHHHHHH
Q 000430 989 LTANSMYGCLGFSNSRFYAKPLAELITQQGREILRSTVDLVQNNLNLEVIYGDTDSIMIHSGIDDIAKAKAIAGKVIQEV 1068 (1517)
Q Consensus 989 l~aNS~YG~lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~~~g~~VIYGDTDSimI~~~~~~~~ea~~ig~~i~~~V 1068 (1517)
++.+.++-.+-...|.++++.+...+...=+........-++. .|+.|||.|-+=|-|+++..+.+.|+...+.+.+.+
T Consensus 1759 ~iv~~l~~Wl~spss~L~dpaL~~~vh~lmkK~fl~L~~e~~r-lGa~iIyA~~nkili~T~K~~~e~A~~y~e~l~ksi 1837 (2173)
T KOG1798|consen 1759 LIVQHLSRWLRSPSSKLHDPALHRHVHVLMKKLFLQLLAELRR-LGAIIIYADFNKILINTGKFSVEAAKAYSEYLLKSI 1837 (2173)
T ss_pred HHHHHHHHHHcCCcccccCHHHHHHHHHHHHHHHHHHHHHHHh-cCCeEEEecCCEEEEecCCCCHHHHHHHHHHHHHhh
Confidence 3446667777778899999999999887777776666666664 899999999999999999999999999999998888
Q ss_pred hcc--cceeEEeeeeeeeeeeeeccceeeE
Q 000430 1069 NKK--YKCLEIDLDGLYKRMLLLKKKKYAA 1096 (1517)
Q Consensus 1069 n~~--~~~leLE~E~vy~~~lLl~KKrYa~ 1096 (1517)
... |..|.|.+-.-|..+++..+-+|-|
T Consensus 1838 ~t~~~f~~l~i~~~r~wd~llwmD~~n~~g 1867 (2173)
T KOG1798|consen 1838 STLPVFHLLDINPVRYWDSLLWMDAHNYGG 1867 (2173)
T ss_pred hcccchhheeccHHHHHHHHhhhccccccc
Confidence 654 4568888888888899988887444
No 80
>cd06149 ISG20 DEDDh 3'-5' exonuclease domain of Interferon Stimulated Gene product of 20 kDa, and similar proteins. Interferon (IFN) Stimulated Gene product of 20 kDa (ISG20) is an IFN-induced antiviral exonuclease with a strong preference for single-stranded RNA and minor activity towards single-stranded DNA. It was also independently identified by its response to estrogen and was called HEM45 (human estrogen regulated transcript). ISG20 is a DEDDh-type DnaQ-like 3'-5' exonuclease containing three conserved sequence motifs termed ExoI, ExoII and ExoIII with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. ISG20 may be a major effector of innate immunity against pathogens including viruses, bacteria, and parasites. It is located in promyelocytic leukemia (PML) nuclear bodies, sites for oncogenic DNA viral transcription and repli
Probab=95.39 E-value=0.057 Score=58.04 Aligned_cols=32 Identities=25% Similarity=0.305 Sum_probs=25.9
Q ss_pred ccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHH
Q 000430 638 SSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLL 673 (1517)
Q Consensus 638 ~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl 673 (1517)
++-.+.+..|+.++. -.|+||||+ .||+.+|-
T Consensus 62 ~~~~~v~~~l~~~l~---~~vlV~Hn~-~~D~~~l~ 93 (157)
T cd06149 62 TPFAVAQKEILKILK---GKVVVGHAI-HNDFKALK 93 (157)
T ss_pred CCHHHHHHHHHHHcC---CCEEEEeCc-HHHHHHhc
Confidence 456789999999885 379999997 68998774
No 81
>COG0847 DnaQ DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]
Probab=95.31 E-value=0.2 Score=57.20 Aligned_cols=164 Identities=22% Similarity=0.222 Sum_probs=100.8
Q ss_pred ceEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceE-EEEecCCCcccCCccchhhhcccCCCC
Q 000430 552 VTVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHF-TVVRKLDGGIFPMGFNKEATDRNSKAG 630 (1517)
Q Consensus 552 L~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f-~~~r~~~~~~fp~~f~~~~~~~~~~~g 630 (1517)
.+...||+||+.-.. ..+.|+.|+++...+..+.. ..| +++.| + ...|..- ..+ ..+.+
T Consensus 13 ~~~vv~D~ETtg~~~-~~~~iieIgav~~~~~~i~~-------------~~~~~~v~P-~-~~i~~~~-~~i---~git~ 72 (243)
T COG0847 13 TRFVVIDLETTGLNP-KKDRIIEIGAVTLEDGRIVE-------------RSFHTLVNP-E-RPIPPEI-FKI---HGITD 72 (243)
T ss_pred CcEEEEecccCCCCC-CCCceEEEEeEEEECCeeec-------------ceeEEEECC-C-CCCChhh-hhh---cCCCH
Confidence 788999999984333 35889999998877654421 112 34443 3 2222110 000 00110
Q ss_pred CceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCC
Q 000430 631 SNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSG 710 (1517)
Q Consensus 631 ~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~ 710 (1517)
.. +.-.+.=.+.+..|..++... .++|+|| ..||+.+|..++..++++. -
T Consensus 73 e~-l~~~p~~~~v~~~~~~~i~~~--~~~Vahn-a~fD~~fl~~~~~~~~~~~---~----------------------- 122 (243)
T COG0847 73 EM-LADAPKFAEVLPEFLDFIGGL--RLLVAHN-AAFDVGFLRVESERLGIEI---P----------------------- 122 (243)
T ss_pred HH-HhcCCCHHHHHHHHHHHHCCC--CeEEEEc-hhhcHHHHHHHHHHcCCCc---c-----------------------
Confidence 01 101122377888888887755 9999999 7899999999999887663 0
Q ss_pred CCCCceeeecceEEeecHHHHhhcccc-CCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHH-HHHhHHHHHH
Q 000430 711 ASPGIMSCIAGRLLCDTFLCSRDLLRE-VSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEY-GETDAWLSME 788 (1517)
Q Consensus 711 ~~~~~~~~i~GRlv~D~~~~~k~~~k~-~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y-~~~DA~L~~~ 788 (1517)
+-.++|++..+++.+.- .+++|+.+|. .+|..+. .... | .+.||..+..
T Consensus 123 ----------~~~~~~t~~~~r~~~~~~~~~~L~~l~~-~~gi~~~-~~~~-----------------H~Al~Da~~~a~ 173 (243)
T COG0847 123 ----------GDPVLDTLALARRHFPGFDRSSLDALAE-RLGIDRN-PFHP-----------------HRALFDALALAE 173 (243)
T ss_pred ----------cCceehHHHHHHHHcCCCccchHHHHHH-HcCCCcC-CcCC-----------------cchHHHHHHHHH
Confidence 22245666667766665 8999999999 6665532 1110 2 4567777777
Q ss_pred HHhhcc
Q 000430 789 LMFHLS 794 (1517)
Q Consensus 789 L~~kl~ 794 (1517)
++.+++
T Consensus 174 ~~~~~~ 179 (243)
T COG0847 174 LFLLLQ 179 (243)
T ss_pred HHHHHH
Confidence 766554
No 82
>PRK09146 DNA polymerase III subunit epsilon; Validated
Probab=95.26 E-value=0.25 Score=56.81 Aligned_cols=107 Identities=18% Similarity=0.118 Sum_probs=63.3
Q ss_pred CCCceEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceE-EEEecCCCcccCCccchhhhcccC
Q 000430 549 VPPVTVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHF-TVVRKLDGGIFPMGFNKEATDRNS 627 (1517)
Q Consensus 549 ~PpL~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f-~~~r~~~~~~fp~~f~~~~~~~~~ 627 (1517)
+=..+++.||+||+.-+.. .++|+.|+++...+..+. .. ..| .+++ |+. .+|.. ...+ ..
T Consensus 44 ~~~~~~vviD~ETTGl~p~-~d~IieIg~v~v~~~~i~---~~---------~~~~~li~-P~~-~i~~~-~~~I---hG 104 (239)
T PRK09146 44 LSEVPFVALDFETTGLDAE-QDAIVSIGLVPFTLQRIR---CR---------QARHWVVK-PRR-PLEEE-SVVI---HG 104 (239)
T ss_pred cccCCEEEEEeECCCCCCC-CCcEEEEEEEEEECCeEe---ec---------ceEEEEEC-CCC-CCChh-hhhh---cC
Confidence 3467899999999953333 478999998776543321 00 112 3333 332 22211 1111 00
Q ss_pred CCCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHc
Q 000430 628 KAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVC 679 (1517)
Q Consensus 628 ~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~l 679 (1517)
+....+ .-.++..+.+..|+.++. .+++||||. .||+.+|.+-+..+
T Consensus 105 It~e~l-~~ap~~~evl~~l~~~~~---~~~lVaHna-~FD~~fL~~~l~~~ 151 (239)
T PRK09146 105 ITHSEL-QDAPDLERILDELLEALA---GKVVVVHYR-RIERDFLDQALRNR 151 (239)
T ss_pred CCHHHH-hCCCCHHHHHHHHHHHhC---CCEEEEECH-HHHHHHHHHHHHHh
Confidence 111111 122467889999999874 489999996 69999998877653
No 83
>PF01612 DNA_pol_A_exo1: 3'-5' exonuclease; InterPro: IPR002562 This domain is responsible for the 3'-5' exonuclease proofreading activity of Escherichia coli DNA polymerase I (polI) and other enzymes, it catalyses the hydrolysis of unpaired or mismatched nucleotides. This domain consists of the amino-terminal half of the Klenow fragment in E. coli polI it is also found in the Werner syndrome helicase (WRN), focus forming activity 1 protein (FFA-1) and ribonuclease D (RNase D) [].; GO: 0003676 nucleic acid binding, 0008408 3'-5' exonuclease activity, 0006139 nucleobase-containing compound metabolic process, 0005622 intracellular; PDB: 2HBK_A 2HBJ_A 2HBM_A 2HBL_A 2FC0_A 2FBY_A 2FBX_A 2FBT_A 2FBV_A 1YT3_A ....
Probab=95.12 E-value=0.03 Score=59.81 Aligned_cols=105 Identities=30% Similarity=0.368 Sum_probs=66.6
Q ss_pred HHHHHHHHHHhcCCCE-EEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCCCCceeeecc
Q 000430 643 LLNRLMIELYKLDSDV-LVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGASPGIMSCIAG 721 (1517)
Q Consensus 643 LL~~Fl~~I~~~DPDV-IvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~~~~~~i~G 721 (1517)
++..+..++. ||+| .||||+ .||+.+|.+. +++.. +
T Consensus 65 ~~~~l~~ll~--~~~i~kv~~n~-~~D~~~L~~~---~~i~~-------------------------------------~ 101 (176)
T PF01612_consen 65 ILDALKELLE--DPNIIKVGHNA-KFDLKWLYRS---FGIDL-------------------------------------K 101 (176)
T ss_dssp HHHHHHHHHT--TTTSEEEESSH-HHHHHHHHHH---HTS---------------------------------------S
T ss_pred hHHHHHHHHh--CCCccEEEEEE-echHHHHHHH---hcccc-------------------------------------C
Confidence 3344444444 6774 899999 4899998876 33321 1
Q ss_pred eEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHh-cchhHHHHHHHHHHhHHHHHHHHhhc
Q 000430 722 RLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQ-TLESLMELIEYGETDAWLSMELMFHL 793 (1517)
Q Consensus 722 Rlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~-~~~~l~~l~~y~~~DA~L~~~L~~kl 793 (1517)
. ++|+.....-+-...+++|++++..+|| +.+.+..+...-|. ..+.....+.|+..||+.+++|+.+|
T Consensus 102 ~-~~D~~l~~~~l~~~~~~~L~~L~~~~l~--~~~~~~~~~~~~~~~~~~l~~~~~~YAa~D~~~~~~l~~~l 171 (176)
T PF01612_consen 102 N-VFDTMLAAYLLDPTRSYSLKDLAEEYLG--NIDLDKKEQMSDWRKARPLSEEQIEYAAQDAVVTFRLYEKL 171 (176)
T ss_dssp S-EEEHHHHHHHTTTSTTSSHHHHHHHHHS--EEE-GHCCTTSSTTTSSS-HHHHHHHHHHHHHTHHHHHHHH
T ss_pred C-ccchhhhhhcccccccccHHHHHHHHhh--hccCcHHHhhccCCcCCCChHHHHHHHHHHHHHHHHHHHHH
Confidence 1 3677433333223344999999999999 33333344444454 44445577899999999999998775
No 84
>cd06133 ERI-1_3'hExo_like DEDDh 3'-5' exonuclease domain of Caenorhabditis elegans ERI-1, human 3' exonuclease, and similar proteins. This subfamily is composed of Caenorhabditis elegans ERI-1, human 3' exonuclease (3'hExo), Drosophila exonuclease snipper (snp), and similar proteins from eukaryotes and bacteria. These are DEDDh-type DnaQ-like 3'-5' exonucleases containing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. ERI-1 has been implicated in the degradation of small interfering RNAs (RNAi). 3'hExo participates in the degradation of histone mRNAs. Snp is a non-essential exonuclease that efficiently degrades structured RNA and DNA substrates as long as there is a minimum of 2 nucleotides in the 3' overhang to initiate degradation. Snp is not a functional ho
Probab=94.86 E-value=0.65 Score=49.97 Aligned_cols=168 Identities=15% Similarity=0.096 Sum_probs=93.9
Q ss_pred EEEEeeecCCCCC----CcccEEEEEEEEeecccccCccccccccCCCccceE-EEEecCCCcccCCccchhhhcccCCC
Q 000430 555 TAINLKTVFNKRQ----DVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHF-TVVRKLDGGIFPMGFNKEATDRNSKA 629 (1517)
Q Consensus 555 lS~dIeT~~n~~~----~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f-~~~r~~~~~~fp~~f~~~~~~~~~~~ 629 (1517)
+.||+||+..... ..++|+.|+++....... .. ...| ++++|..+...|. .+.+-+.+.
T Consensus 2 vv~D~Ettg~~~~~~~~~~~~IieIgav~v~~~~~---~~---------~~~f~~~i~P~~~~~i~~----~~~~i~gIt 65 (176)
T cd06133 2 LVIDFEATCWEGNSKPDYPNEIIEIGAVLVDVKTK---EI---------IDTFSSYVKPVINPKLSD----FCTELTGIT 65 (176)
T ss_pred EEEEeeccccCCCCCCCCCcceEEEEEEEEEcCCC---eE---------EeeeeeeECCCcCCchhH----HHHHhcCcC
Confidence 6799999965432 357999999876543211 00 1222 4555443222221 111111111
Q ss_pred CCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccC
Q 000430 630 GSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGS 709 (1517)
Q Consensus 630 g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~ 709 (1517)
... +.-.+...+.|..|..++....+.++++|+ .||+.+|.+.+...+... .|.+
T Consensus 66 ~e~-l~~~~~~~~vl~~~~~~l~~~~~~~~v~~~--~~d~~~l~~~~~~~~~~~-------------~~~~--------- 120 (176)
T cd06133 66 QED-VDNAPSFPEVLKEFLEWLGKNGKYAFVTWG--DWDLKDLLQNQCKYKIIN-------------LPPF--------- 120 (176)
T ss_pred HHH-HhcCCCHHHHHHHHHHHHHhCCCeEEEeec--HhhHHHHHHHHHHhcCCC-------------Cccc---------
Confidence 111 112257889999999999875445666664 799999988777655431 0000
Q ss_pred CCCCCceeeecceEEeecHHHHhhcccc-CCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHH
Q 000430 710 GASPGIMSCIAGRLLCDTFLCSRDLLRE-VSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSME 788 (1517)
Q Consensus 710 ~~~~~~~~~i~GRlv~D~~~~~k~~~k~-~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~ 788 (1517)
..-.+|+....+..... .+++|.+++..+ |..... .. .-.+.||..+.+
T Consensus 121 -----------~~~~~D~~~~~~~~~~~~~~~~L~~l~~~~-gi~~~~-~~-----------------H~Al~DA~~~a~ 170 (176)
T cd06133 121 -----------FRQWIDLKKEFAKFYGLKKRTGLSKALEYL-GLEFEG-RH-----------------HRGLDDARNIAR 170 (176)
T ss_pred -----------ccceEEHHHHHHHHhCCCCCCCHHHHHHHC-CCCCCC-CC-----------------cCcHHHHHHHHH
Confidence 11136776655554433 699999999764 543210 00 023578888888
Q ss_pred HHhhc
Q 000430 789 LMFHL 793 (1517)
Q Consensus 789 L~~kl 793 (1517)
|+.++
T Consensus 171 l~~~~ 175 (176)
T cd06133 171 ILKRL 175 (176)
T ss_pred HHHHh
Confidence 87664
No 85
>cd06145 REX1_like DEDDh 3'-5' exonuclease domain of RNA exonuclease 1, -3 and similar eukaryotic proteins. This subfamily is composed of RNA exonuclease 1 (REX1 or Rex1p), REX3 (or Rex3p), and similar eukaryotic proteins. In yeast, REX1 and REX3 are required for 5S rRNA and MRP (mitochondrial RNA processing) RNA maturation, respectively. They are DEDDh-type DnaQ-like 3'-5' exonucleases containing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. REX1 is the major exonuclease responsible for pre-tRNA trail trimming and may also be involved in nuclear CCA turnover. REX proteins function in the processing and maturation of many RNA species, similar to the function of Escherichia coli RNase T.
Probab=94.70 E-value=0.082 Score=56.35 Aligned_cols=66 Identities=26% Similarity=0.278 Sum_probs=47.7
Q ss_pred cHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCCCCceee
Q 000430 639 SERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGASPGIMSC 718 (1517)
Q Consensus 639 nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~~~~~~ 718 (1517)
.+.+.+..|+.++.. =.+|||||+. ||+.+|-. ..
T Consensus 61 ~~~~v~~~~~~fl~~--~~vlVgHn~~-fD~~fL~~-------~~----------------------------------- 95 (150)
T cd06145 61 TLEDVQKKLLSLISP--DTILVGHSLE-NDLKALKL-------IH----------------------------------- 95 (150)
T ss_pred CHHHHHHHHHHHhCC--CCEEEEcChH-HHHHHhhc-------cC-----------------------------------
Confidence 789999999999951 1599999995 99998731 00
Q ss_pred ecceEEeecHHHHhhcc-ccCCCCHHHHHHHhcCC
Q 000430 719 IAGRLLCDTFLCSRDLL-REVSYSLTQLAKTQLNK 752 (1517)
Q Consensus 719 i~GRlv~D~~~~~k~~~-k~~SYsL~~va~~~Lg~ 752 (1517)
.+ ++|+...++... ...+|+|+.+|+.+++.
T Consensus 96 --~~-~iDT~~l~r~~~~~~~~~~L~~L~~~~~~~ 127 (150)
T cd06145 96 --PR-VIDTAILFPHPRGPPYKPSLKNLAKKYLGR 127 (150)
T ss_pred --CC-EEEcHHhccccCCCCCChhHHHHHHHHCCc
Confidence 00 367665555433 34689999999999874
No 86
>cd06137 DEDDh_RNase DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonucleases PAN2, RNA exonuclease (REX)-1,-3, and -4, ISG20, and similar proteins. This group is composed of eukaryotic exoribonucleases that include PAN2, RNA exonuclease 1 (REX1 or Rex1p), REX3 (Rex3p), REX4 (or Rex4p), ISG20, and similar proteins. They are DEDDh-type DnaQ-like 3'-5' exonucleases containing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. PAN2 is the catalytic subunit of poly(A) nuclease (PAN), a Pab1p-dependent 3'-5' exoribonuclease which plays an important role in the posttranscriptional maturation of pre-mRNAs. REX proteins are required for the processing and maturation of many RNA species, and ISG20 is an interferon-induced antiviral exonuclease with a strong prefere
Probab=94.69 E-value=0.077 Score=57.16 Aligned_cols=64 Identities=27% Similarity=0.329 Sum_probs=44.2
Q ss_pred HHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCCCCceeeec
Q 000430 641 RALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGASPGIMSCIA 720 (1517)
Q Consensus 641 reLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~~~~~~i~ 720 (1517)
.+.+..|++++.. =.+|||||+. ||+.+|-. .. +
T Consensus 71 ~~~~~~~~~~i~~--~~vlVgHn~~-fD~~fL~~-------~~--------------~---------------------- 104 (161)
T cd06137 71 EAARAALWKFIDP--DTILVGHSLQ-NDLDALRM-------IH--------------T---------------------- 104 (161)
T ss_pred HHHHHHHHHhcCC--CcEEEeccHH-HHHHHHhC-------cC--------------C----------------------
Confidence 4677788887752 1699999995 99988731 00 0
Q ss_pred ceEEeecHHHHhhcccc----CCCCHHHHHHHhcCC
Q 000430 721 GRLLCDTFLCSRDLLRE----VSYSLTQLAKTQLNK 752 (1517)
Q Consensus 721 GRlv~D~~~~~k~~~k~----~SYsL~~va~~~Lg~ 752 (1517)
-++|+...++..... .+|+|.++|+.+||.
T Consensus 105 --~~iDT~~l~~~~~~~~~~~~~~~L~~L~~~~~~~ 138 (161)
T cd06137 105 --RVVDTAILTREAVKGPLAKRQWSLRTLCRDFLGL 138 (161)
T ss_pred --CeeEehhhhhhccCCCcCCCCccHHHHHHHHCCc
Confidence 035666666554432 689999999999884
No 87
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=94.50 E-value=0.16 Score=67.50 Aligned_cols=140 Identities=19% Similarity=0.165 Sum_probs=88.0
Q ss_pred CCCCceEEEEEeeecCCCCCCcccEEEEEEEEeeccc-ccCccccccccCCCccceEEEEecCCCcccCCccchhhhccc
Q 000430 548 EVPPVTVTAINLKTVFNKRQDVNEIVSASVVCCHKAK-IDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRN 626 (1517)
Q Consensus 548 ~~PpL~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~-id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~ 626 (1517)
.+-.-+-+-|||||+.=++. -++|+.++++..++.. ||+- ...-+|. ...|. +--++..
T Consensus 417 ~l~datyVVfDiETTGLs~~-~d~iIE~aAvKikng~iId~f---------------~~Fi~P~-~pl~~-~~telTg-- 476 (1444)
T COG2176 417 KLDDATYVVFDIETTGLSPV-YDEIIEIAAVKIKNGRIIDKF---------------QFFIKPG-RPLSA-TITELTG-- 476 (1444)
T ss_pred ccccccEEEEEeecCCcCcc-cchhhhheeeeeeCCcchHHH---------------HHhcCCC-CcCch-hhhhccc--
Confidence 34456778899999954333 4777777666655544 3321 0001111 11111 1111100
Q ss_pred CCCCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCccc
Q 000430 627 SKAGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTI 706 (1517)
Q Consensus 627 ~~~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~ 706 (1517)
+..-. +.-.....+.|..|.+++.. +|+|.|| .+||++||-.+...+++.. |.
T Consensus 477 -ITdem-l~~a~~i~~vL~kf~~~~~d---~IlVAHN-asFD~gFl~~~~~k~~~~~--~~------------------- 529 (1444)
T COG2176 477 -ITDEM-LENAPEIEEVLEKFREFIGD---SILVAHN-ASFDMGFLNTNYEKYGLEP--LT------------------- 529 (1444)
T ss_pred -cCHHH-HcCCccHHHHHHHHHHHhcC---cEEEecc-CccchhHHHHHHHHhCCcc--cc-------------------
Confidence 00001 12234678889999988865 8999999 7899999999999877664 21
Q ss_pred ccCCCCCCceeeecceEEeecHHHHhhcc-ccCCCCHHHHHHHh
Q 000430 707 FGSGASPGIMSCIAGRLLCDTFLCSRDLL-REVSYSLTQLAKTQ 749 (1517)
Q Consensus 707 fg~~~~~~~~~~i~GRlv~D~~~~~k~~~-k~~SYsL~~va~~~ 749 (1517)
.-++|+...+|.+. ..+||+|.++|+.+
T Consensus 530 ---------------~pvIDTL~lar~L~P~~ksh~Lg~l~kk~ 558 (1444)
T COG2176 530 ---------------NPVIDTLELARALNPEFKSHRLGTLCKKL 558 (1444)
T ss_pred ---------------CchhhHHHHHHHhChhhhhcchHHHHHHh
Confidence 11589999999887 57999999999864
No 88
>PRK07247 DNA polymerase III subunit epsilon; Validated
Probab=94.48 E-value=0.58 Score=52.28 Aligned_cols=97 Identities=20% Similarity=0.113 Sum_probs=56.5
Q ss_pred ceEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCCCC
Q 000430 552 VTVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKAGS 631 (1517)
Q Consensus 552 L~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~g~ 631 (1517)
-+.+.||+||+.-.. .++|+.|+++-..+..+.. ..-+++++ .. ..|. +...+ ..+...
T Consensus 5 ~~~vvlD~EtTGl~~--~~eIIeIgaV~v~~g~~~~-------------~f~~lv~P-~~-~i~~-~~~~l---hGIt~~ 63 (195)
T PRK07247 5 ETYIAFDLEFNTVNG--VSHIIQVSAVKYDDHKEVD-------------SFDSYVYT-DV-PLQS-FINGL---TGITAD 63 (195)
T ss_pred CeEEEEEeeCCCCCC--CCeEEEEEEEEEECCEEEE-------------EEEEEECC-CC-CCCc-cceec---CCCCHH
Confidence 477899999874332 4789999988765443210 11133432 21 1111 11111 001101
Q ss_pred ceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHH
Q 000430 632 NVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLL 673 (1517)
Q Consensus 632 ~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl 673 (1517)
.+ .-.+.-.+.|..|+.++.. .++||||...||+.+|.
T Consensus 64 ~v-~~ap~~~evl~~f~~f~~~---~~lVaHNa~~fD~~fL~ 101 (195)
T PRK07247 64 KI-ADAPKVEEVLAAFKEFVGE---LPLIGYNAQKSDLPILA 101 (195)
T ss_pred HH-hCCCCHHHHHHHHHHHHCC---CeEEEEeCcHhHHHHHH
Confidence 11 1225678899999999854 57999999999999873
No 89
>PRK06722 exonuclease; Provisional
Probab=93.42 E-value=1.7 Score=51.20 Aligned_cols=108 Identities=12% Similarity=0.143 Sum_probs=64.0
Q ss_pred eEEEEEeeecCCCC--CCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCCC
Q 000430 553 TVTAINLKTVFNKR--QDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKAG 630 (1517)
Q Consensus 553 ~vlS~dIeT~~n~~--~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~g 630 (1517)
+++.||+||++.+. ...++|+.|+++...+..+ .+. . ..-++++| . ...| .|+..+. .+..
T Consensus 6 ~~vViD~ETT~~p~~~~~~deIIEIGAVkV~~g~i--~Iv-d--------~F~sLV~P-~-~~I~-~~i~~LT---GIT~ 68 (281)
T PRK06722 6 HFIVFDIERNFRPYKSEDPSEIVDIGAVKIEASTM--KVI-G--------EFSELVKP-G-ARLT-RHTTKLT---GITK 68 (281)
T ss_pred EEEEEEeeCCCCCCCCCCCCeEEEEEEEEEECCce--eEE-e--------eEEEEECC-C-CcCC-HhHhhhc---CCCH
Confidence 57899999986442 2347899999877654321 000 0 12245554 2 2222 2333221 1111
Q ss_pred CceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCC
Q 000430 631 SNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVP 682 (1517)
Q Consensus 631 ~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~ 682 (1517)
..| .-.+.-.+.+..|..++.. +.+++||. .||+.+|.+=+..++++
T Consensus 69 emV-~~AP~f~eVl~ef~~fig~---~~lvahna-~FD~~FL~~~l~~~gi~ 115 (281)
T PRK06722 69 KDL-IGVEKFPQIIEKFIQFIGE---DSIFVTWG-KEDYRFLSHDCTLHSVE 115 (281)
T ss_pred HHH-cCCCCHHHHHHHHHHHHCC---CcEEEEEe-HHHHHHHHHHHHHcCCC
Confidence 112 2235677899999999963 45666775 79999999988777765
No 90
>PRK11779 sbcB exonuclease I; Provisional
Probab=91.09 E-value=1.2 Score=56.22 Aligned_cols=113 Identities=11% Similarity=-0.001 Sum_probs=61.5
Q ss_pred CCceEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEE-EEecCCCcccCCccchhhhcccCC
Q 000430 550 PPVTVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFT-VVRKLDGGIFPMGFNKEATDRNSK 628 (1517)
Q Consensus 550 PpL~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~-~~r~~~~~~fp~~f~~~~~~~~~~ 628 (1517)
-..+.+.||+||+.-++. .++|+.|+++......+ ... ..|. ++++ .....|......+ ..+
T Consensus 4 ~~~~fvv~D~ETTGLdP~-~DrIIeiAaVrvd~~~~---~i~---------e~~~~~~~P-~~~~lp~p~a~~I---hGI 66 (476)
T PRK11779 4 MQPTFLWHDYETFGANPA-LDRPAQFAGIRTDADLN---IIG---------EPLVFYCKP-ADDYLPSPEAVLI---TGI 66 (476)
T ss_pred CCCcEEEEEEECCCCCCC-CCeeEEEEEEEEeCCCc---eec---------ceeEEEEcC-CcCcCCCHHHHHH---hCC
Confidence 356789999999965443 46888877765433211 000 1122 2332 2211121111111 000
Q ss_pred CCCceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcC
Q 000430 629 AGSNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCR 680 (1517)
Q Consensus 629 ~g~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lk 680 (1517)
....+..--.+|.+.+..|..++.. ...++||||...||+.+|.+-+....
T Consensus 67 T~e~l~~~g~~e~e~~~~i~~~l~~-~~~~lVGhNni~FD~eflr~~~~r~~ 117 (476)
T PRK11779 67 TPQEALEKGLPEAEFAARIHAEFSQ-PGTCILGYNNIRFDDEVTRYIFYRNF 117 (476)
T ss_pred CHHHHHhcCCCHHHHHHHHHHHHhc-CCCEEEEeCchhhcHHHHHHHHHhcc
Confidence 0001111112588899999988863 23689999999999999988765433
No 91
>PRK05359 oligoribonuclease; Provisional
Probab=90.34 E-value=1.4 Score=48.65 Aligned_cols=110 Identities=16% Similarity=0.143 Sum_probs=60.6
Q ss_pred eEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceE-EEEecCCCcccC--CccchhhhcccCCC
Q 000430 553 TVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHF-TVVRKLDGGIFP--MGFNKEATDRNSKA 629 (1517)
Q Consensus 553 ~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f-~~~r~~~~~~fp--~~f~~~~~~~~~~~ 629 (1517)
+++.||+||+.-++. .++|+.|+++...+..+. .. ..| .+++++. ...+ ..+...+ ....
T Consensus 4 ~~vvlD~ETTGLdp~-~d~IieIgaV~~~~~~~~---~~---------~~~~~~i~~~~-~~l~~~~~~~~~i---h~~t 66 (181)
T PRK05359 4 NLIWIDLEMTGLDPE-RDRIIEIATIVTDADLNI---LA---------EGPVIAIHQSD-EALAAMDEWNTRT---HTRS 66 (181)
T ss_pred cEEEEEeecCCCCCC-CCeEEEEEEEEEcCCceE---cc---------cceEEEECCCH-HHhhccChHHHHh---cccc
Confidence 578999999954443 478999998865432210 00 112 2233221 1100 0111111 0001
Q ss_pred CC--ceEeecccHHHHHHHHHHHHHhcC---CCEEEccccCcccHHHHHHHHHHcC
Q 000430 630 GS--NVLCCESSERALLNRLMIELYKLD---SDVLVGHNISGFDLDVLLHRAQVCR 680 (1517)
Q Consensus 630 g~--~v~~~~~nEreLL~~Fl~~I~~~D---PDVIvGhNi~~FDL~yLl~Ra~~lk 680 (1517)
|. ..+.-..++.+.+..|++++...- -.+|+|||+ .||+.+|-+-+..++
T Consensus 67 GIt~~~l~~~~~~~e~~~~~l~fl~~~~~~~~~~l~g~~v-~FD~~FL~~~~~~~~ 121 (181)
T PRK05359 67 GLIDRVRASTVSEAEAEAQTLEFLKQWVPAGKSPLCGNSI-GQDRRFLARYMPELE 121 (181)
T ss_pred cCcHHHHhcCCCHHHHHHHHHHHHHHhcCCCCCceeecch-hhCHHHHHHHHHHhc
Confidence 10 111122468899999999997532 246789886 699999998876544
No 92
>cd06135 Orn DEDDh 3'-5' exonuclease domain of oligoribonuclease and similar proteins. Oligoribonuclease (Orn) is a DEDDh-type DnaQ-like 3'-5' exoribonuclease that is responsible for degrading small oligoribonucleotides to mononucleotides. It contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. Orn is essential for Escherichia coli survival. The human homolog, also called Sfn (small fragment nuclease), is able to hydrolyze short single-stranded RNA and DNA oligomers. It plays a role in cellular nucleotide recycling.
Probab=90.18 E-value=1.2 Score=48.53 Aligned_cols=110 Identities=12% Similarity=0.064 Sum_probs=60.4
Q ss_pred EEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceE-EEEecCCCcccC-C-ccchhhhcccCCCCC
Q 000430 555 TAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHF-TVVRKLDGGIFP-M-GFNKEATDRNSKAGS 631 (1517)
Q Consensus 555 lS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f-~~~r~~~~~~fp-~-~f~~~~~~~~~~~g~ 631 (1517)
+.||+||+...+. .++|+.|+++...+..+. .. ..| .++++ ...+-+ . .+...+-.-..+...
T Consensus 2 v~iD~ETTGl~p~-~d~IieIgaV~~~~~~~~---i~---------~~f~~~i~p-~~~~~~~~~~~~~~ih~~tgIt~~ 67 (173)
T cd06135 2 VWIDLEMTGLDPE-KDRILEIACIITDGDLNI---IA---------EGPELVIHQ-PDEVLDGMDEWCTEMHTKSGLTER 67 (173)
T ss_pred EEEEEecCCCCCC-CCeeEEEEEEEEeCCCce---ec---------CceeEEECC-CHHHhhhccHHHHHcccccccHHH
Confidence 6799999965543 478999999876543210 01 112 23332 211110 0 111111000000000
Q ss_pred ceEeecccHHHHHHHHHHHHHhc---CCCEEEccccCcccHHHHHHHHHHcC
Q 000430 632 NVLCCESSERALLNRLMIELYKL---DSDVLVGHNISGFDLDVLLHRAQVCR 680 (1517)
Q Consensus 632 ~v~~~~~nEreLL~~Fl~~I~~~---DPDVIvGhNi~~FDL~yLl~Ra~~lk 680 (1517)
. +.-.+.+.+.|..|..++... +-.+|+|||. .||+.+|.+=+..++
T Consensus 68 ~-l~~~~~~~~vl~~~~~f~~~~~~~~~~~lvgh~~-~FD~~fL~~~~~~~~ 117 (173)
T cd06135 68 V-RASTVTLAQAEAELLEFIKKYVPKGKSPLAGNSV-HQDRRFLDKYMPELE 117 (173)
T ss_pred H-HhCCCCHHHHHHHHHHHHHHhcCCCCCceeecch-hhCHHHHHHHHHHHh
Confidence 1 112356889999999999863 4457888885 799999988665544
No 93
>cd06125 DnaQ_like_exo DnaQ-like (or DEDD) 3'-5' exonuclease domain superfamily. The DnaQ-like exonuclease superfamily is a structurally conserved group of 3'-5' exonucleases, which catalyze the excision of nucleoside monophosphates at the DNA or RNA termini in the 3'-5' direction. It is also called the DEDD superfamily, after the four invariant acidic residues present in the catalytic site of its members. The superfamily consists of DNA- and RNA-processing enzymes such as the proofreading domains of DNA polymerases, other DNA exonucleases, RNase D, RNase T, Oligoribonuclease and RNA exonucleases (REX). The DnaQ-like exonuclease domain contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, which are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. The conservation patterns of the three motifs may vary among different subfamilies. DnaQ-like exonucleases are classified as DEDDy
Probab=90.11 E-value=0.32 Score=47.96 Aligned_cols=35 Identities=34% Similarity=0.339 Sum_probs=31.5
Q ss_pred HHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCC
Q 000430 647 LMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVP 682 (1517)
Q Consensus 647 Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~ 682 (1517)
|..+++...|.++||||. .||+++|.+++..++++
T Consensus 35 f~~~l~~~~~~v~V~hn~-~fD~~fL~~~~~~~~~~ 69 (96)
T cd06125 35 LKDILRDKPLAILVGHNG-SFDLPFLNNRCAELGLK 69 (96)
T ss_pred HHHHHhhCCCCEEEEeCc-HHhHHHHHHHHHHcCCC
Confidence 788888888899999999 89999999999988765
No 94
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=88.65 E-value=3.5 Score=58.26 Aligned_cols=138 Identities=20% Similarity=0.190 Sum_probs=82.4
Q ss_pred ceEEEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceE-EEEecCCCcccCCccchhhhcccCCCC
Q 000430 552 VTVTAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHF-TVVRKLDGGIFPMGFNKEATDRNSKAG 630 (1517)
Q Consensus 552 L~vlS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f-~~~r~~~~~~fp~~f~~~~~~~~~~~g 630 (1517)
-+.+.||+||+.-+.. .++|+.|+++...+..+ . ..| ++++ |.. ..|. +...+. .+..
T Consensus 419 ~~~VVfDLETTGL~~~-~deIIEIgAV~V~~G~i-----i---------e~F~~~V~-P~~-~I~~-~~~~LT---GIT~ 477 (1437)
T PRK00448 419 ATYVVFDVETTGLSAV-YDEIIEIGAVKIKNGEI-----I---------DKFEFFIK-PGH-PLSA-FTTELT---GITD 477 (1437)
T ss_pred CcEEEEEhhhcCCCCc-hhhhheeeeEEEeCCeE-----e---------eeEEEEEC-CCC-CCCH-HHHHHh---CCCH
Confidence 4689999999844333 36788887765543321 0 112 2333 332 2221 111110 0000
Q ss_pred CceEeecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCC
Q 000430 631 SNVLCCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSG 710 (1517)
Q Consensus 631 ~~v~~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~ 710 (1517)
.. +.-..+..+.|..|.+++.. .++++||. .||+++|.+.+..++++. |..
T Consensus 478 e~-L~~aps~~EaL~~f~~figg---~vLVAHNa-~FD~~fL~~~l~rlgl~~--l~~---------------------- 528 (1437)
T PRK00448 478 DM-VKDAPSIEEVLPKFKEFCGD---SILVAHNA-SFDVGFINTNYEKLGLEK--IKN---------------------- 528 (1437)
T ss_pred HH-HcCCCCHHHHHHHHHHHhCC---CEEEEeCc-cccHHHHHHHHHHcCCcc--ccc----------------------
Confidence 01 11224678899999998754 79999999 799999999888877653 110
Q ss_pred CCCCceeeecceEEeecHHHHhhcc-ccCCCCHHHHHHHhcCC
Q 000430 711 ASPGIMSCIAGRLLCDTFLCSRDLL-REVSYSLTQLAKTQLNK 752 (1517)
Q Consensus 711 ~~~~~~~~i~GRlv~D~~~~~k~~~-k~~SYsL~~va~~~Lg~ 752 (1517)
..+|+...++.+. ...+++|.++|+. +|.
T Consensus 529 ------------~~IDTLelar~l~p~~k~~kL~~LAk~-lGL 558 (1437)
T PRK00448 529 ------------PVIDTLELSRFLYPELKSHRLNTLAKK-FGV 558 (1437)
T ss_pred ------------cceeHHHHHHHHcCccccccHHHHHHH-cCC
Confidence 0256655555554 3689999999986 453
No 95
>PRK09182 DNA polymerase III subunit epsilon; Validated
Probab=86.42 E-value=2.8 Score=49.87 Aligned_cols=32 Identities=13% Similarity=0.018 Sum_probs=24.1
Q ss_pred CCCceEEEEEeeecCCCCCCcccEEEEEEEEee
Q 000430 549 VPPVTVTAINLKTVFNKRQDVNEIVSASVVCCH 581 (1517)
Q Consensus 549 ~PpL~vlS~dIeT~~n~~~~~~EI~~iS~~~~~ 581 (1517)
.++-+++.||+||+.-++. .++|+.|+++...
T Consensus 34 ~~~~~~vvlD~ETTGLd~~-~d~IIEIg~V~v~ 65 (294)
T PRK09182 34 EFVRLGVILDTETTGLDPR-KDEIIEIGMVAFE 65 (294)
T ss_pred CCCCeEEEEEeeCCCCCCC-CCeEEEEEEEEEE
Confidence 4667899999999954433 4789999887654
No 96
>cd06146 mut-7_like_exo DEDDy 3'-5' exonuclease domain of Caenorhabditis elegans mut-7 and similar proteins. The mut-7 subfamily is composed of Caenorhabditis elegans mut-7 and similar proteins found in plants and metazoans. Mut-7 is implicated in posttranscriptional gene silencing. It contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing three conserved sequence motifs, termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis.
Probab=86.41 E-value=1.8 Score=48.12 Aligned_cols=67 Identities=19% Similarity=0.210 Sum_probs=44.1
Q ss_pred EeecHHHHhhcc-----------ccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHHHhh
Q 000430 724 LCDTFLCSRDLL-----------REVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMELMFH 792 (1517)
Q Consensus 724 v~D~~~~~k~~~-----------k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L~~k 792 (1517)
++|+...++.+. ....++|..++..+||.. ++-..=..-|...+--..-+.|+..||+..+.|+.+
T Consensus 114 v~Dl~~~a~~l~~~~~~~~~~~~~~~~~sL~~l~~~~lg~~---l~K~~q~SdW~~rpLs~~Qi~YAA~Da~~l~~l~~~ 190 (193)
T cd06146 114 VLDLQNLAKELQKSDMGRLKGNLPSKTKGLADLVQEVLGKP---LDKSEQCSNWERRPLREEQILYAALDAYCLLEVFDK 190 (193)
T ss_pred eEEHHHHHHHHhhccccccccccCcccCCHHHHHHHHhCCC---cCcccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
Confidence 578766555432 146799999999999853 111111123543332235679999999999999987
Q ss_pred c
Q 000430 793 L 793 (1517)
Q Consensus 793 l 793 (1517)
|
T Consensus 191 L 191 (193)
T cd06146 191 L 191 (193)
T ss_pred H
Confidence 6
No 97
>PHA03144 helicase-primase primase subunit; Provisional
Probab=84.45 E-value=73 Score=42.15 Aligned_cols=228 Identities=14% Similarity=0.179 Sum_probs=140.6
Q ss_pred eeecccccccceEEEeeccCcchhHHHHhCccccccccCCCCCcccCCCCCccCCcHHHHHHHHHHHHHHHHHHhhcchh
Q 000430 896 VLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVERSPDGLVPHLPSSKTTGVLPELLKNLVQRRRMVKTWMKTASGL 975 (1517)
Q Consensus 896 VleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~d~~v~~~p~~~~~GilP~iL~~Ll~~R~~vK~~mK~~~~~ 975 (1517)
++++-.=+-.-+++-|||+.++|++..+.- |+ . . -|.+.+.+| ++..+
T Consensus 401 il~~P~~i~~~wlAKFDFSaFfptLy~al~--p~---------------h------~-RL~~~v~aR------~r~~~-- 448 (746)
T PHA03144 401 ILDHPAVIGGVWLAKFDFSAFFPTLYLALF--PG---------------H------E-RLARAVRAR------ARREK-- 448 (746)
T ss_pred ccCCCceecceeEEEeechhhHHHHHHHhC--CC---------------c------h-hHHHHHHHH------hcccC--
Confidence 344433333346899999999999999872 21 0 1 133444444 22211
Q ss_pred HHHhhHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEeeccceeeecCccc--
Q 000430 976 KIQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAELITQQGREILRSTVDLVQNNLNLEVIYGDTDSIMIHSGIDD-- 1053 (1517)
Q Consensus 976 ~~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~~~g~~VIYGDTDSimI~~~~~~-- 1053 (1517)
-.||-.+-+++|-|-. -++....+|-..+..|-...-+.+. ..|+-|==..-|+.|=-++...
T Consensus 449 ---------pwlK~aLv~f~GgL~h-----~~p~~yr~ii~i~N~Is~~vE~~A~-~~~FAiCtYvkDGfWG~f~~~~~~ 513 (746)
T PHA03144 449 ---------PWLKAALVSFFGGLQH-----ICPAAYRALIALANAVSRALERAAN-AVGFAVCTYVKDGFWGVLGVDPQD 513 (746)
T ss_pred ---------chHHHHHHHHhhhhhh-----cCHHHHHHHHHHHHHHHHHHHHHHh-hcCeeEEeecCCceEEeccCCccc
Confidence 2477777888887754 5778888888888888777666665 4888888788899886555331
Q ss_pred ------HHHHHHH---HHHHHHHHhcc----c---ceeEEeeeeeeeeeeeeccceeeEEEeeecCCccceeEEEeeeee
Q 000430 1054 ------IAKAKAI---AGKVIQEVNKK----Y---KCLEIDLDGLYKRMLLLKKKKYAAVKVQFKDGMPYEVIERKGLDM 1117 (1517)
Q Consensus 1054 ------~~ea~~i---g~~i~~~Vn~~----~---~~leLE~E~vy~~~lLl~KKrYa~l~~~~~dG~~~~~~e~KGle~ 1117 (1517)
...+..+ ++....++-.. + ..+.|.+||+|...++..-..|=-.+- .++. -.+-|+-.
T Consensus 514 ~~~~~a~~~ae~lR~ace~aA~~~L~~~GL~~~~~~~l~LRlEGvyThAvsW~~~~yWLwN~--~~~~----~~~vGFP~ 587 (746)
T PHA03144 514 AVSADALAAAERARAACQAAAEAVLADMGLLLPEGAPLHLRLEGLYTHAVSWSQHGYWLWNR--RTDT----EDFVGFPL 587 (746)
T ss_pred ccccchhhHHHHHHHHHHHHHHHHHHhcCCCCCCCCCceEEEeEEeeeeeeecCcceeeccC--CCCc----cceeeccC
Confidence 1122222 22211111111 1 257889999999999999999865431 1222 34679965
Q ss_pred eeCchhHhHHHHHHHHHH-HHhccCCHHHHHHHHHHHHHHHHHHHhcCCCCccceEEeecc
Q 000430 1118 VRRDWSLLSKEVGDFCLS-QILSERSCEDVVESIHNSLMKVQEDMRSGQVALEKYVITKTL 1177 (1517)
Q Consensus 1118 vRRD~c~l~k~~~~~vl~-~IL~~~~~e~~~~~i~~~l~~~~~~l~~g~v~l~~lvItk~L 1177 (1517)
|...+..+|+....+|. .+-...+.+++.+..++.+..++..--..+.+.+-...+...
T Consensus 588 -Rs~~a~~ak~aL~~lL~~~~~~~~~~~~~~~~a~~~cd~lv~~AF~~R~D~~fWs~~~~~ 647 (746)
T PHA03144 588 -RSAAARAAKAALRALLRAAVADSADAETLRQAAREACDRLVLEAFARRLDAEFWSVPTPI 647 (746)
T ss_pred -chHHHHHHHHHHHHHHHHhcCChhhHHHHHHHHHHHHHHHHHHHHhhcCCCCeeecCCCc
Confidence 66666667776666664 222334455666677777777776666677776666665333
No 98
>cd06139 DNA_polA_I_Ecoli_like_exo DEDDy 3'-5' exonuclease domain of Escherichia coli DNA polymerase I and similar bacterial family-A DNA polymerases. Escherichia coli-like Polymerase I (Pol I), a subgroup of family-A DNA polymerases, contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain in the same polypeptide chain as the polymerase domain. The exonuclease domain contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. The 3'-5' exonuclease domain of DNA polymerases has a fundamental role in reducing polymerase errors and is involved in proofreading activity. E. coli DNA Pol I is involved in genome replication but is not the main replicating enzyme. It is also implicated in DNA repair.
Probab=83.86 E-value=5.2 Score=43.55 Aligned_cols=108 Identities=28% Similarity=0.293 Sum_probs=67.6
Q ss_pred cHHHHHHHHHHHHHhcCCC-EEEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCCCCcee
Q 000430 639 SERALLNRLMIELYKLDSD-VLVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGASPGIMS 717 (1517)
Q Consensus 639 nEreLL~~Fl~~I~~~DPD-VIvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~~~~~ 717 (1517)
+....+..|..++.. .+ .+||||+ .||+.+|.+ ++++.
T Consensus 51 ~~~~~~~~l~~~l~~--~~~~~v~hn~-k~d~~~l~~----~gi~~---------------------------------- 89 (193)
T cd06139 51 PREEVLAALKPLLED--PSIKKVGQNL-KFDLHVLAN----HGIEL---------------------------------- 89 (193)
T ss_pred CHHHHHHHHHHHHhC--CCCcEEeecc-HHHHHHHHH----CCCCC----------------------------------
Confidence 356677777777764 34 6899999 699988742 23221
Q ss_pred eecceEEeecHHHHhhccccC-CCCHHHHHHHhcCCCCCccChhhHHHH------HhcchhHHHHHHHHHHhHHHHHHHH
Q 000430 718 CIAGRLLCDTFLCSRDLLREV-SYSLTQLAKTQLNKDRKEVGPHDVLKM------FQTLESLMELIEYGETDAWLSMELM 790 (1517)
Q Consensus 718 ~i~GRlv~D~~~~~k~~~k~~-SYsL~~va~~~Lg~~k~di~~~eI~~~------~~~~~~l~~l~~y~~~DA~L~~~L~ 790 (1517)
.|+ ++|+...+.-+-... +++|.++++.+|+.+.. ..+++... |. ...+.....|+..|+.++++|+
T Consensus 90 --~~~-~~Dt~l~a~ll~p~~~~~~l~~l~~~~l~~~~~--~~~~~~~k~~~~~~~~-~~~~~~~~~ya~~d~~~~~~l~ 163 (193)
T cd06139 90 --RGP-AFDTMLASYLLNPGRRRHGLDDLAERYLGHKTI--SFEDLVGKGKKQITFD-QVPLEKAAEYAAEDADITLRLY 163 (193)
T ss_pred --CCC-cccHHHHHHHhCCCCCCCCHHHHHHHHhCCCCc--cHHHHcCCCcCcCCcc-ccCHHHHHHHHHHHHHHHHHHH
Confidence 122 377776666544444 78999999999986532 11211110 11 1113456778999999999888
Q ss_pred hhc
Q 000430 791 FHL 793 (1517)
Q Consensus 791 ~kl 793 (1517)
.++
T Consensus 164 ~~l 166 (193)
T cd06139 164 ELL 166 (193)
T ss_pred HHH
Confidence 765
No 99
>PHA03181 helicase-primase primase subunit; Provisional
Probab=82.32 E-value=1e+02 Score=40.79 Aligned_cols=225 Identities=12% Similarity=0.101 Sum_probs=143.3
Q ss_pred eeecccccccceEEEeeccCcchhHHHHhCccccccccCCCCCcccCCCCCccCCcHHHHHHHHHHHHHHHHHHhhcchh
Q 000430 896 VLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVERSPDGLVPHLPSSKTTGVLPELLKNLVQRRRMVKTWMKTASGL 975 (1517)
Q Consensus 896 VleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~d~~v~~~p~~~~~GilP~iL~~Ll~~R~~vK~~mK~~~~~ 975 (1517)
++++-.=+-.-.++-+||+.++|++..+.- |+ . .-|++.+.+| ++...
T Consensus 410 il~~P~~i~~~~~AkFDFSaFfptLylaLf--P~---------------h-------~rL~~~v~aR------~rre~-- 457 (764)
T PHA03181 410 IFREPTLIENAAIAKFDFSAFFATLYLGLF--PC---------------H-------SRLRDAVKAR------LRREK-- 457 (764)
T ss_pred ccCCCceeccceEEEeechhhHHHHHHHHC--CC---------------c-------HHHHHHHHHH------hcccC--
Confidence 354444444457999999999999988643 21 0 1144444333 22211
Q ss_pred HHHhhHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEeeccceeeecCcc---
Q 000430 976 KIQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAELITQQGREILRSTVDLVQNNLNLEVIYGDTDSIMIHSGID--- 1052 (1517)
Q Consensus 976 ~~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~~~g~~VIYGDTDSimI~~~~~--- 1052 (1517)
--||..+-+++|-|-. -++....+|-..+-.|-...-+.+.+ .|+-|==..-|+.|=-++..
T Consensus 458 ---------~wLK~aLv~f~G~Lkh-----~~p~~y~aii~i~N~Is~~vE~~A~~-~~FAiCtYvkDGfWG~F~~~~~~ 522 (764)
T PHA03181 458 ---------DWLKRPIVEFGGLLKH-----FREDVYKAIIGIGNHISLEVEATAST-LMFAPCTYVKDGMWGTFIDKANN 522 (764)
T ss_pred ---------chHHHHHHHHhhhhhh-----cCHHHHHHHHHHHHHHHHHHHHHHhh-cCeeEEeecCCceEEeccccccc
Confidence 2477778888887754 57788889999998887777766754 78888777889887554432
Q ss_pred ----c--HHHHH-HH---HHHHH----HHHhcccc---eeEEeeeeeeeeeeeeccceeeEEEeeecCCccceeEEEeee
Q 000430 1053 ----D--IAKAK-AI---AGKVI----QEVNKKYK---CLEIDLDGLYKRMLLLKKKKYAAVKVQFKDGMPYEVIERKGL 1115 (1517)
Q Consensus 1053 ----~--~~ea~-~i---g~~i~----~~Vn~~~~---~leLE~E~vy~~~lLl~KKrYa~l~~~~~dG~~~~~~e~KGl 1115 (1517)
+ ...+. .+ ++... ..+--.++ .+.|.+||+|...++..-..|=-.+- ..+. -.+-|+
T Consensus 523 ~~~~~~~~~~a~~~lR~ac~~aA~~~l~~~GL~~p~~~~l~LRlEGvYThAvsW~~n~yWLwN~--~~~~----~~~vGF 596 (764)
T PHA03181 523 VIVSPEGNENIFETLRVACNESANRLATSIGLRFPDGINLQMRLEGVYTHAMSWNANCYWLWNR--NTRE----SDFVGF 596 (764)
T ss_pred ccccchhhHHHHHHHHHHHHHHHHHHHHhcCCCCCCCCCceEEEeEEeeeeeeecCcceeeccC--CCCC----cceeec
Confidence 1 11222 11 22211 12211222 57889999999999999988855431 1222 234798
Q ss_pred eeeeCchhHhHHHHHHHHHHHHhccCC----HHHHHHHHHHHHHHHHHHHhcCCCCccceEEe
Q 000430 1116 DMVRRDWSLLSKEVGDFCLSQILSERS----CEDVVESIHNSLMKVQEDMRSGQVALEKYVIT 1174 (1517)
Q Consensus 1116 e~vRRD~c~l~k~~~~~vl~~IL~~~~----~e~~~~~i~~~l~~~~~~l~~g~v~l~~lvIt 1174 (1517)
.-|...+.-+|+....+|..|....+ .+.+.+..++.+.+++..--..+.+.+-...+
T Consensus 597 -P~r~~~~~~ak~~Ls~lL~~i~~~~~~~~~l~~~~~~a~~~cd~Lv~~AF~~R~D~~fWS~~ 658 (764)
T PHA03181 597 -PKQPEFATHAKEALSTLLEEICLCNDTDESLLTIQEKVQKVFEELLYMAFKKRGDASFWSCP 658 (764)
T ss_pred -CCCcHHHHHHHHHHHHHHHHHHhccCCcccHHHHHHHHHHHHHHHHHHHHhhcCCCCeeecC
Confidence 46667888888888888888776544 44566667777777776666666666666555
No 100
>cd00007 35EXOc 3'-5' exonuclease. The 35EXOc domain is responsible for the 3'-5' exonuclease proofreading activity of prokaryotic DNA polymerase I (pol I) and other enzymes, it catalyses the hydrolysis of unpaired or mismatched nucleotides. This domain consists of the amino-terminal half of the Klenow fragment in E. coli pol I. 35EXOc is also found in the Werner syndrome helicase (WRN), focus forming activity 1 protein (FFA-1) and ribonuclease D (RNase D).
Probab=80.29 E-value=8.1 Score=39.93 Aligned_cols=68 Identities=28% Similarity=0.190 Sum_probs=43.0
Q ss_pred EeecHHHHhhccccC-CCCHHHHHHHhcCCCCCccChhhHHHH---HhcchhHHHHHHHHHHhHHHHHHHHhhc
Q 000430 724 LCDTFLCSRDLLREV-SYSLTQLAKTQLNKDRKEVGPHDVLKM---FQTLESLMELIEYGETDAWLSMELMFHL 793 (1517)
Q Consensus 724 v~D~~~~~k~~~k~~-SYsL~~va~~~Lg~~k~di~~~eI~~~---~~~~~~l~~l~~y~~~DA~L~~~L~~kl 793 (1517)
++|+...+..+-... +++|+++++.+|+... ....++... +...........|...|+.++++|..++
T Consensus 80 ~~D~~~~ayll~~~~~~~~l~~l~~~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~y~~~da~~~~~l~~~l 151 (155)
T cd00007 80 IFDTMLAAYLLNPGEGSHSLDDLAKEYLGIEL--DKDEQIYGKGAKTFARPLSEELLEYAAEDADALLRLYEKL 151 (155)
T ss_pred cccHHHHHHHhCCCCCcCCHHHHHHHHcCCCC--ccHHHHhcCCCCccccCCHHHHHHHHHHhHHHHHHHHHHH
Confidence 478877776655544 7899999999998642 111222111 0011124467789999999988887654
No 101
>PRK07983 exodeoxyribonuclease X; Provisional
Probab=78.51 E-value=18 Score=41.29 Aligned_cols=54 Identities=17% Similarity=0.217 Sum_probs=32.4
Q ss_pred eecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHHHhhc
Q 000430 725 CDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMELMFHL 793 (1517)
Q Consensus 725 ~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L~~kl 793 (1517)
+|++..+|.+++...|+|..++..+ |... ... .. . -+.-.+.||+.+..|+.++
T Consensus 97 idTl~lar~l~p~~~~~l~~L~~~~-~l~~-~~~-~~----~--------~aHrAl~Da~ata~ll~~l 150 (219)
T PRK07983 97 ICTMKLARRLWPGIKYSNMALYKSR-KLNV-QTP-PG----L--------HHHRALYDCYITAALLIDI 150 (219)
T ss_pred EeHHHHHHHHccCCCCCHHHHHHHc-CCCC-CCC-CC----C--------CCCcHHHHHHHHHHHHHHH
Confidence 6788888887765569999998754 4221 000 00 0 0112457888888887654
No 102
>PTZ00315 2'-phosphotransferase; Provisional
Probab=78.48 E-value=45 Score=43.29 Aligned_cols=107 Identities=16% Similarity=0.171 Sum_probs=63.5
Q ss_pred ceEEEEEeeecCCCCC--CcccEEEEEEEEee--cccccCccccccccCCCccceE-EEEecCCCcccCCccchhhhccc
Q 000430 552 VTVTAINLKTVFNKRQ--DVNEIVSASVVCCH--KAKIDTPMLASEWKKPGMLSHF-TVVRKLDGGIFPMGFNKEATDRN 626 (1517)
Q Consensus 552 L~vlS~dIeT~~n~~~--~~~EI~~iS~~~~~--~~~id~~~~~~~~~~~~~~~~f-~~~r~~~~~~fp~~f~~~~~~~~ 626 (1517)
-+++.||+||+..... ..+||+.|+++... +..+ ...| ++|+|.....+| .|+..+..
T Consensus 56 d~~IV~DlETTgl~~~~~~~dEIIEIGaV~Vd~~ng~I--------------i~~F~~yVkP~~~p~Ls-~fct~LTG-- 118 (582)
T PTZ00315 56 DAYVVLDFEATCEADRRIEDAEVIEFPMVLVDARTATP--------------VAEFQRYVRPVKNPVLS-RFCTELTG-- 118 (582)
T ss_pred CeEEEEEEecCCCCCCCCCCCceEEEEEEEEEccCCEE--------------EEEEEEEECCCCCCCCC-hhHhhhcC--
Confidence 6889999999854321 24799999998864 2222 1223 456543211222 23333311
Q ss_pred CCCCCceEeecccHHHHHHHHHHHHHhcCC-------CEEEccccCcccHH-HHHHHHHH
Q 000430 627 SKAGSNVLCCESSERALLNRLMIELYKLDS-------DVLVGHNISGFDLD-VLLHRAQV 678 (1517)
Q Consensus 627 ~~~g~~v~~~~~nEreLL~~Fl~~I~~~DP-------DVIvGhNi~~FDL~-yLl~Ra~~ 678 (1517)
+....| .-.++-.+.+..|..++..... .++++||+ .||+. +|..-++.
T Consensus 119 -ITqe~V-~~Ap~F~eVl~ef~~fL~~~~~~e~~~~~~~~vah~g-~fDl~~fL~~e~~~ 175 (582)
T PTZ00315 119 -ITQSMV-SRADPFPVVYCEALQFLAEAGLGDAPPLRSYCVVTCG-DWDLKTMLPSQMRV 175 (582)
T ss_pred -cCHHHH-hcCCCHHHHHHHHHHHHhccccccccccCceEEEecc-HHHHHHHHHHHHHH
Confidence 111112 2235667899999999987641 47899997 69985 56555553
No 103
>PRK05755 DNA polymerase I; Provisional
Probab=73.63 E-value=11 Score=51.51 Aligned_cols=103 Identities=28% Similarity=0.274 Sum_probs=66.2
Q ss_pred HHHHHHHHHHHhcCCCE-EEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCCCCceeeec
Q 000430 642 ALLNRLMIELYKLDSDV-LVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGASPGIMSCIA 720 (1517)
Q Consensus 642 eLL~~Fl~~I~~~DPDV-IvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~~~~~~i~ 720 (1517)
..+..|..++. |+++ +||||. .||+.+|.+ ++++. .
T Consensus 357 ~~l~~l~~~L~--d~~v~kV~HNa-kfDl~~L~~----~gi~~------------------------------------~ 393 (880)
T PRK05755 357 EVLAALKPLLE--DPAIKKVGQNL-KYDLHVLAR----YGIEL------------------------------------R 393 (880)
T ss_pred HHHHHHHHHHh--CCCCcEEEecc-HhHHHHHHh----CCCCc------------------------------------C
Confidence 56667777776 4665 799999 699999873 34331 1
Q ss_pred ceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcc-----hhHHHHHHHHHHhHHHHHHHHhhc
Q 000430 721 GRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTL-----ESLMELIEYGETDAWLSMELMFHL 793 (1517)
Q Consensus 721 GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~-----~~l~~l~~y~~~DA~L~~~L~~kl 793 (1517)
|+ ++|+...+.-+....+|+|+++++.++|.... ...+ .|... -.+.....|+..|+.++++|+.++
T Consensus 394 ~~-~~DT~iAa~Ll~~~~~~~L~~L~~~ylg~~~~--~~~~---~~gk~~~~~~~ple~~~~YAa~Dv~~~~~L~~~L 465 (880)
T PRK05755 394 GI-AFDTMLASYLLDPGRRHGLDSLAERYLGHKTI--SFEE---VAGKQLTFAQVDLEEAAEYAAEDADVTLRLHEVL 465 (880)
T ss_pred CC-cccHHHHHHHcCCCCCCCHHHHHHHHhCCCcc--chHH---hcCCCCCccccCHHHHHHHHHHHHHHHHHHHHHH
Confidence 11 36777665544433359999999999986521 1111 11110 112356789999999999998765
No 104
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=69.45 E-value=4.7 Score=44.59 Aligned_cols=49 Identities=24% Similarity=0.592 Sum_probs=33.2
Q ss_pred eeeCCCCCCccccCCcccccccccCCCCCCCcccccccccccCCCCCCccccCCCCHHHHHHHHHHHHHHH
Q 000430 1324 ILSCPSCSSTFDCPAVCSSICMSVSEKPSKPETEYNFWRTLRCPKCPEEVEAGRISPGMIANQVKRQADGF 1394 (1517)
Q Consensus 1324 ~~~C~~C~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~i~nql~~~ir~~ 1394 (1517)
.+.||.|+..+.|.-... .+..||.|+.... .+....+++.|+..|...
T Consensus 117 ~Y~Cp~C~~rytf~eA~~--------------------~~F~Cp~Cg~~L~--~~dn~~~~~~l~~~I~~l 165 (178)
T PRK06266 117 FFFCPNCHIRFTFDEAME--------------------YGFRCPQCGEMLE--EYDNSELIKELKEQIKEL 165 (178)
T ss_pred EEECCCCCcEEeHHHHhh--------------------cCCcCCCCCCCCe--ecccHHHHHHHHHHHHHH
Confidence 488999999998864331 1688999998533 123355667777766554
No 105
>smart00474 35EXOc 3'-5' exonuclease. 3\' -5' exonuclease proofreading domain present in DNA polymerase I, Werner syndrome helicase, RNase D and other enzymes
Probab=68.38 E-value=18 Score=38.20 Aligned_cols=66 Identities=23% Similarity=0.164 Sum_probs=41.4
Q ss_pred eecHHHHhhccccC-CCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHHHhhc
Q 000430 725 CDTFLCSRDLLREV-SYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMELMFHL 793 (1517)
Q Consensus 725 ~D~~~~~k~~~k~~-SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L~~kl 793 (1517)
+|+...+.-+.... +++|..++..+|+....++... . .|...+.....+.|+..||+.+++|+.++
T Consensus 101 ~D~~laayll~p~~~~~~l~~l~~~~l~~~~~~~~~~--~-~~~~~~l~~~~~~ya~~~a~~~~~L~~~l 167 (172)
T smart00474 101 FDTMLAAYLLLGGPSKHGLATLLKEYLGVELDKEEQK--S-DWGARPLSEEQLQYAAEDADALLRLYEKL 167 (172)
T ss_pred hHHHHHHHHHcCCCCcCCHHHHHHHHhCCCCCcccCc--c-ccccCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 78876666443333 3799999999998652211111 1 12222224567789999999998887654
No 106
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=67.14 E-value=4.3 Score=34.77 Aligned_cols=28 Identities=21% Similarity=0.571 Sum_probs=20.5
Q ss_pred eeeCCCCCCccccCCcccccccccCCCCCCCcccccccccccCCCCCCc
Q 000430 1324 ILSCPSCSSTFDCPAVCSSICMSVSEKPSKPETEYNFWRTLRCPKCPEE 1372 (1517)
Q Consensus 1324 ~~~C~~C~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~ 1372 (1517)
.++|++||..+.+..-. ....||.|+..
T Consensus 3 ~y~C~~CG~~~~~~~~~---------------------~~~~Cp~CG~~ 30 (46)
T PRK00398 3 EYKCARCGREVELDEYG---------------------TGVRCPYCGYR 30 (46)
T ss_pred EEECCCCCCEEEECCCC---------------------CceECCCCCCe
Confidence 58999999998764211 14689999873
No 107
>PF00929 RNase_T: Exonuclease; InterPro: IPR013520 This entry includes a variety of exonuclease proteins, such as ribonuclease T [] and the epsilon subunit of DNA polymerase III. Ribonuclease T is responsible for the end-turnover of tRNA,and removes the terminal AMP residue from uncharged tRNA. DNA polymerase III is a complex, multichain enzyme responsible for most of the replicative synthesis in bacteria, and also exhibits 3' to 5' exonuclease activity.; PDB: 3CM6_A 3CM5_A 3CG7_A 1ZBU_B 1ZBH_A 1W0H_A 3NGY_C 2IS3_B 3NH1_C 3NH2_F ....
Probab=66.83 E-value=5 Score=41.56 Aligned_cols=104 Identities=19% Similarity=0.141 Sum_probs=57.3
Q ss_pred EEEEeeecCCCCCCcccEEEEEEEEeecccccCccccccccCCCccceEEEEecCCCcccCCccchhhhcccCCCCCceE
Q 000430 555 TAINLKTVFNKRQDVNEIVSASVVCCHKAKIDTPMLASEWKKPGMLSHFTVVRKLDGGIFPMGFNKEATDRNSKAGSNVL 634 (1517)
Q Consensus 555 lS~dIeT~~n~~~~~~EI~~iS~~~~~~~~id~~~~~~~~~~~~~~~~f~~~r~~~~~~fp~~f~~~~~~~~~~~g~~v~ 634 (1517)
+.||+||+.... ..++|+.|+++....... ... ...-+++++......+.. ...+.. +.. ..+
T Consensus 1 v~~D~Ettg~~~-~~~~iieig~v~~~~~~~---~~~--------~~~~~~i~p~~~~~i~~~-~~~~~g---It~-~~l 63 (164)
T PF00929_consen 1 VVFDTETTGLDP-RQDEIIEIGAVKVDDDEN---EEV--------ESFNSLIRPEEPPKISPW-ATKVHG---ITQ-EDL 63 (164)
T ss_dssp EEEEEEESSSTT-TTCTEEEEEEEEEETTTT---EEE--------EEEEEEBEHSSHCSSEHH-HHHHHH---HCH-HHH
T ss_pred cEEEeEcCCCCC-CCCeEEEEEEEEeeCCcc---ccc--------eeeeecccccccccCCHH-HeeecC---Ccc-ccc
Confidence 468999996544 358899999987765431 000 012244554332111111 111100 000 001
Q ss_pred eecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHH
Q 000430 635 CCESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQV 678 (1517)
Q Consensus 635 ~~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~ 678 (1517)
.-.....+.+..|.+++... .+++||| ..||+..|..=+..
T Consensus 64 ~~~~~~~~~~~~~~~~~~~~--~~~v~~n-~~fd~~~l~~~~~~ 104 (164)
T PF00929_consen 64 EDAPSFEEALDEFEEFLKKN--DILVGHN-ASFDIGFLRREDKR 104 (164)
T ss_dssp HCHCEHHHHHHHHHHHHHHH--TEEEETT-CCHEEESSHHHHHH
T ss_pred ccCCcHHHHHHhhhhhhhcc--ccccccc-ccchhhHHHHhhhh
Confidence 11234566888899998854 8999999 78998777554443
No 108
>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=65.70 E-value=5.1 Score=43.43 Aligned_cols=47 Identities=15% Similarity=0.453 Sum_probs=31.9
Q ss_pred eeeCCCCCCccccCCcccccccccCCCCCCCcccccccccccCCCCCCccccCCCCHHHHHHHHHHHHH
Q 000430 1324 ILSCPSCSSTFDCPAVCSSICMSVSEKPSKPETEYNFWRTLRCPKCPEEVEAGRISPGMIANQVKRQAD 1392 (1517)
Q Consensus 1324 ~~~C~~C~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~i~nql~~~ir 1392 (1517)
.+.||.|+..+.|.-++. .+..||.|+.... .+...-+.+.|+..|.
T Consensus 109 ~Y~Cp~c~~r~tf~eA~~--------------------~~F~Cp~Cg~~L~--~~dn~~~i~~l~~~i~ 155 (158)
T TIGR00373 109 FFICPNMCVRFTFNEAME--------------------LNFTCPRCGAMLD--YLDNSEAIEKLEEQIK 155 (158)
T ss_pred eEECCCCCcEeeHHHHHH--------------------cCCcCCCCCCEee--eccCHHHHHHHHHHHH
Confidence 488999999998865442 1678999998532 1233456666666654
No 109
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=63.22 E-value=4.8 Score=33.11 Aligned_cols=32 Identities=38% Similarity=0.943 Sum_probs=20.9
Q ss_pred eeeCCCCCCccccCCcccccccccCCCCCCCcccccccccccCCCCCC
Q 000430 1324 ILSCPSCSSTFDCPAVCSSICMSVSEKPSKPETEYNFWRTLRCPKCPE 1371 (1517)
Q Consensus 1324 ~~~C~~C~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~ 1371 (1517)
.++||+|++.|..+.-. +. +. ...++|++|++
T Consensus 2 ~i~CP~C~~~f~v~~~~------l~------~~----~~~vrC~~C~~ 33 (37)
T PF13719_consen 2 IITCPNCQTRFRVPDDK------LP------AG----GRKVRCPKCGH 33 (37)
T ss_pred EEECCCCCceEEcCHHH------cc------cC----CcEEECCCCCc
Confidence 47899999998765321 10 00 01589999987
No 110
>PF09986 DUF2225: Uncharacterized protein conserved in bacteria (DUF2225); InterPro: IPR018708 This conserved bacterial family has no known function.
Probab=62.56 E-value=8.5 Score=43.77 Aligned_cols=84 Identities=17% Similarity=0.275 Sum_probs=44.3
Q ss_pred eeeCCCCCCccccCCccccccc------ccCCCCCCCcccccccccccCCCCCCccccCCCCHHHHHHHHHHHHHHHHHh
Q 000430 1324 ILSCPSCSSTFDCPAVCSSICM------SVSEKPSKPETEYNFWRTLRCPKCPEEVEAGRISPGMIANQVKRQADGFVSM 1397 (1517)
Q Consensus 1324 ~~~C~~C~~~~~~~g~~~~~~~------~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~i~nql~~~ir~~i~~ 1397 (1517)
+++||-|+++|.-.-|..+... ...+...+ .-..++.-..||+|+.......++ .|...-...|+..|..
T Consensus 5 ~~~CPvC~~~F~~~~vrs~~~r~~~~d~D~~~~Y~~--vnP~~Y~V~vCP~CgyA~~~~~F~--~l~~~~~~~i~~~i~~ 80 (214)
T PF09986_consen 5 KITCPVCGKEFKTKKVRSGKIRVIRRDSDFCPRYKG--VNPLFYEVWVCPHCGYAAFEEDFE--KLSPEQKEKIKENISS 80 (214)
T ss_pred ceECCCCCCeeeeeEEEcCCceEeeecCCCccccCC--CCCeeeeEEECCCCCCcccccccc--cCCHHHHHHHHHHHHh
Confidence 4789999999987766543221 11111111 111244558899999964322122 3444444555655555
Q ss_pred hhceeeeeCCccCCCcccc
Q 000430 1398 YYKGLMMCDDETCKYTTCS 1416 (1517)
Q Consensus 1398 yy~~~~~Cdd~~C~~~tr~ 1416 (1517)
=..+- .-++.||..
T Consensus 81 ~~~~~-----~~~~~Rt~~ 94 (214)
T PF09986_consen 81 RWKPR-----DFSGERTLE 94 (214)
T ss_pred hcccC-----CCCCCCCHH
Confidence 44443 245566653
No 111
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=62.09 E-value=4.8 Score=32.93 Aligned_cols=14 Identities=29% Similarity=0.954 Sum_probs=11.8
Q ss_pred eeeCCCCCCccccC
Q 000430 1324 ILSCPSCSSTFDCP 1337 (1517)
Q Consensus 1324 ~~~C~~C~~~~~~~ 1337 (1517)
.+.||+|++.|.++
T Consensus 2 ~~~CP~C~~~~~v~ 15 (38)
T TIGR02098 2 RIQCPNCKTSFRVV 15 (38)
T ss_pred EEECCCCCCEEEeC
Confidence 57899999998765
No 112
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=61.56 E-value=5.3 Score=35.78 Aligned_cols=30 Identities=20% Similarity=0.575 Sum_probs=22.0
Q ss_pred eeeCCCCCCccccCCcccccccccCCCCCCCcccccccccccCCCCCCc
Q 000430 1324 ILSCPSCSSTFDCPAVCSSICMSVSEKPSKPETEYNFWRTLRCPKCPEE 1372 (1517)
Q Consensus 1324 ~~~C~~C~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~ 1372 (1517)
.+.||.||.++.+++.... ..+.|+.|+..
T Consensus 2 ~~~CP~CG~~iev~~~~~G-------------------eiV~Cp~CGae 31 (54)
T TIGR01206 2 QFECPDCGAEIELENPELG-------------------ELVICDECGAE 31 (54)
T ss_pred ccCCCCCCCEEecCCCccC-------------------CEEeCCCCCCE
Confidence 5789999999877654321 14789999984
No 113
>PRK10829 ribonuclease D; Provisional
Probab=61.48 E-value=16 Score=45.04 Aligned_cols=103 Identities=17% Similarity=0.152 Sum_probs=65.3
Q ss_pred HHHHHHHHHhcCCCEE-EccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCCCCceeeecce
Q 000430 644 LNRLMIELYKLDSDVL-VGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGASPGIMSCIAGR 722 (1517)
Q Consensus 644 L~~Fl~~I~~~DPDVI-vGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~~~~~~i~GR 722 (1517)
+..|...+. ||+|+ |+|+. .+|+.+|.+. +|+. | +
T Consensus 63 ~~~L~~ll~--~~~ivKV~H~~-~~Dl~~l~~~---~g~~---------------p-----------------------~ 98 (373)
T PRK10829 63 WSPFKALLR--DPQVTKFLHAG-SEDLEVFLNA---FGEL---------------P-----------------------Q 98 (373)
T ss_pred hHHHHHHHc--CCCeEEEEeCh-HhHHHHHHHH---cCCC---------------c-----------------------C
Confidence 344444443 68887 89997 4899998552 2221 1 1
Q ss_pred EEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHHHhhc
Q 000430 723 LLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMELMFHL 793 (1517)
Q Consensus 723 lv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L~~kl 793 (1517)
-++|+...++-+-...+.+|..|++++||.. ++-++-..-|...+--..-+.|+..|+...+.|+.+|
T Consensus 99 ~~fDTqiaa~~lg~~~~~gl~~Lv~~~lgv~---ldK~~~~sDW~~RPLs~~ql~YAa~Dv~~L~~l~~~L 166 (373)
T PRK10829 99 PLIDTQILAAFCGRPLSCGFASMVEEYTGVT---LDKSESRTDWLARPLSERQCEYAAADVFYLLPIAAKL 166 (373)
T ss_pred CeeeHHHHHHHcCCCccccHHHHHHHHhCCc---cCcccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 1578877776543344789999999999964 1111112234433322356799999999999988765
No 114
>PHA03140 helicase-primase primase subunit; Provisional
Probab=60.62 E-value=4.8e+02 Score=35.00 Aligned_cols=226 Identities=15% Similarity=0.144 Sum_probs=136.2
Q ss_pred eeecccccccceEEEeeccCcchhHHHHhCccccccccCCCCCcccCCCCCccCCcHHHHHHHHHHHHHHHHHHhhcchh
Q 000430 896 VLEPKKGLYDKYILLLDFNSLYPSIIQEYNICFTTVERSPDGLVPHLPSSKTTGVLPELLKNLVQRRRMVKTWMKTASGL 975 (1517)
Q Consensus 896 VleP~~Gly~~~V~~LDF~SLYPSII~~~NIc~tTv~~~~d~~v~~~p~~~~~GilP~iL~~Ll~~R~~vK~~mK~~~~~ 975 (1517)
++++-.=+-.-+++-|||+.++|+|..+.- |+ -.-|.+.+..| ++...
T Consensus 408 il~~P~~i~~~wlAKFDFSaFfptLY~alf--P~----------------------h~rL~r~v~aR------~rre~-- 455 (772)
T PHA03140 408 ILDSPVCVRDLWLAKFDFSAFFPTIYCALF--PE----------------------HARLARIIRAR------RRRGR-- 455 (772)
T ss_pred ccCCCceeccceEEEeechhhHHHHHHHHC--cC----------------------cHHHHHHHHHH------hccCC--
Confidence 455544444456889999999999988653 21 01255555444 22111
Q ss_pred HHHhhHHHHHHHhhhhhcccccccccccccCCHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEeeccceeeecCcc---
Q 000430 976 KIQQLDIQQQALKLTANSMYGCLGFSNSRFYAKPLAELITQQGREILRSTVDLVQNNLNLEVIYGDTDSIMIHSGID--- 1052 (1517)
Q Consensus 976 ~~~~~d~rQ~AlKl~aNS~YG~lG~~~srfy~~~lA~~IT~~GR~iL~~t~~~ve~~~g~~VIYGDTDSimI~~~~~--- 1052 (1517)
--||-.+-+++|-|-. -+++...+|-..+-.|-...-+.+.+ .|+-|==..-|+.|=-++..
T Consensus 456 ---------p~LK~aLv~f~GgLrh-----~~p~~y~aii~i~N~Is~~vE~~A~~-~~FAiCtYvKDGFWG~F~~~~~~ 520 (772)
T PHA03140 456 ---------PCLKPALVTFFGGLRH-----IHPPAYKAIIALANAISACVERAANE-RNFAICTYVKDGFWGAFGDLVPG 520 (772)
T ss_pred ---------chHHHHHHHHhhhhhh-----cCHHHHHHHHHHHHHHHHHHHHHHhh-cCeeEEeeccCceeEeccccccc
Confidence 2367777888887754 56788888988888887776666654 78887777889887554432
Q ss_pred ----c--HHHHHHH---HHHHHH-HHh----ccc---ceeEEeeeeeeeeeeeeccceeeEEEeeecCCccceeEEEeee
Q 000430 1053 ----D--IAKAKAI---AGKVIQ-EVN----KKY---KCLEIDLDGLYKRMLLLKKKKYAAVKVQFKDGMPYEVIERKGL 1115 (1517)
Q Consensus 1053 ----~--~~ea~~i---g~~i~~-~Vn----~~~---~~leLE~E~vy~~~lLl~KKrYa~l~~~~~dG~~~~~~e~KGl 1115 (1517)
+ ...+..+ ++.... .+. -.+ ..+.|.+||+|...++..-..|=-.+. ..++. -.+-|+
T Consensus 521 ~~~~~~~~~~a~~lR~ace~aA~~~L~~~~GL~~~~~~~l~LRlEGvyThAvsW~~~~yWLwN~--~~~~~---~~~vGF 595 (772)
T PHA03140 521 AVSRDAARAAALALRDDCERAVEAVLRDDLGLRPAEGAEPHLRFEGVFTHAVSWCTTGYWLWNA--TTGES---EHLVGV 595 (772)
T ss_pred ccccchhhhHHHHHHHHHHHHHHHHHHHhcCcCCCCCCCceEEEeEEeeeeeeecCcceeeccc--CCCCc---cceeec
Confidence 1 1222222 222221 222 112 257888999999999999888854431 13321 134788
Q ss_pred eeeeCchhHhHHHHHHHHHHHHhccCC-HHH--------------HHHHHHHHHHHHHHHHhcCCCCccceEEe
Q 000430 1116 DMVRRDWSLLSKEVGDFCLSQILSERS-CED--------------VVESIHNSLMKVQEDMRSGQVALEKYVIT 1174 (1517)
Q Consensus 1116 e~vRRD~c~l~k~~~~~vl~~IL~~~~-~e~--------------~~~~i~~~l~~~~~~l~~g~v~l~~lvIt 1174 (1517)
- -|...+.-+|+....+|-..-...+ .++ +++..++...++...--..+.+.+-...+
T Consensus 596 P-~rs~a~~~ak~~l~~lL~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~a~~acd~Lv~~AF~~R~D~~fWS~~ 668 (772)
T PHA03140 596 P-CRSEAARDAKESLAGLLCRAVAIRERLYASTWTVSNYITWPGDTVAAAAAACDALVHAAFERRGDVRYWSAT 668 (772)
T ss_pred c-CccHHHHHHHHHHHHHHHhccCcchhhhhccccccccccchHHHHHHHHHHHHHHHHHHHhccCCCCeeecC
Confidence 4 5666677777777666611111111 122 66667777777776666666666666555
No 115
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=60.17 E-value=6.8 Score=32.28 Aligned_cols=14 Identities=29% Similarity=0.774 Sum_probs=11.4
Q ss_pred ceeeCCCCCCcccc
Q 000430 1323 LILSCPSCSSTFDC 1336 (1517)
Q Consensus 1323 l~~~C~~C~~~~~~ 1336 (1517)
..++|+.||+.|..
T Consensus 4 Y~y~C~~Cg~~fe~ 17 (41)
T smart00834 4 YEYRCEDCGHTFEV 17 (41)
T ss_pred EEEEcCCCCCEEEE
Confidence 46899999998764
No 116
>PF14353 CpXC: CpXC protein
Probab=55.53 E-value=5.9 Score=41.16 Aligned_cols=15 Identities=27% Similarity=0.902 Sum_probs=12.3
Q ss_pred eeeCCCCCCccccCC
Q 000430 1324 ILSCPSCSSTFDCPA 1338 (1517)
Q Consensus 1324 ~~~C~~C~~~~~~~g 1338 (1517)
.++||+|++.+.+.-
T Consensus 1 ~itCP~C~~~~~~~v 15 (128)
T PF14353_consen 1 EITCPHCGHEFEFEV 15 (128)
T ss_pred CcCCCCCCCeeEEEE
Confidence 378999999988764
No 117
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=55.37 E-value=8.2 Score=31.63 Aligned_cols=32 Identities=31% Similarity=0.844 Sum_probs=21.0
Q ss_pred eeeCCCCCCccccCCcccccccccCCCCCCCcccccccccccCCCCCC
Q 000430 1324 ILSCPSCSSTFDCPAVCSSICMSVSEKPSKPETEYNFWRTLRCPKCPE 1371 (1517)
Q Consensus 1324 ~~~C~~C~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~ 1371 (1517)
.++||+|++.|.++.-. +++. ...++|++|++
T Consensus 2 ~i~Cp~C~~~y~i~d~~------ip~~----------g~~v~C~~C~~ 33 (36)
T PF13717_consen 2 IITCPNCQAKYEIDDEK------IPPK----------GRKVRCSKCGH 33 (36)
T ss_pred EEECCCCCCEEeCCHHH------CCCC----------CcEEECCCCCC
Confidence 47899999998765221 1100 01589999987
No 118
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=51.35 E-value=12 Score=31.72 Aligned_cols=14 Identities=21% Similarity=0.705 Sum_probs=11.3
Q ss_pred ceeeCCCCCCcccc
Q 000430 1323 LILSCPSCSSTFDC 1336 (1517)
Q Consensus 1323 l~~~C~~C~~~~~~ 1336 (1517)
..++|+.||+.|..
T Consensus 4 Yey~C~~Cg~~fe~ 17 (42)
T PF09723_consen 4 YEYRCEECGHEFEV 17 (42)
T ss_pred EEEEeCCCCCEEEE
Confidence 46899999998753
No 119
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=48.23 E-value=11 Score=38.44 Aligned_cols=11 Identities=45% Similarity=1.168 Sum_probs=9.3
Q ss_pred eeeCCCCCCcc
Q 000430 1324 ILSCPSCSSTF 1334 (1517)
Q Consensus 1324 ~~~C~~C~~~~ 1334 (1517)
+-+||+||+.|
T Consensus 9 KR~Cp~CG~kF 19 (108)
T PF09538_consen 9 KRTCPSCGAKF 19 (108)
T ss_pred cccCCCCcchh
Confidence 45799999988
No 120
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=46.16 E-value=18 Score=32.44 Aligned_cols=15 Identities=20% Similarity=0.481 Sum_probs=12.9
Q ss_pred ceeeeeCCccCCCcccc
Q 000430 1400 KGLMMCDDETCKYTTCS 1416 (1517)
Q Consensus 1400 ~~~~~Cdd~~C~~~tr~ 1416 (1517)
..|+.| |.||+.||.
T Consensus 2 ~~Wi~C--P~CgnKTR~ 16 (55)
T PF14205_consen 2 SEWILC--PICGNKTRL 16 (55)
T ss_pred CeEEEC--CCCCCccce
Confidence 479999 599999984
No 121
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=44.82 E-value=15 Score=37.63 Aligned_cols=16 Identities=25% Similarity=0.497 Sum_probs=12.8
Q ss_pred CCceeeCCCCCCcccc
Q 000430 1321 EPLILSCPSCSSTFDC 1336 (1517)
Q Consensus 1321 ~~l~~~C~~C~~~~~~ 1336 (1517)
.|..++|+.|++.+..
T Consensus 67 vp~~~~C~~Cg~~~~~ 82 (113)
T PRK12380 67 KPAQAWCWDCSQVVEI 82 (113)
T ss_pred eCcEEEcccCCCEEec
Confidence 4778999999987754
No 122
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=44.37 E-value=10 Score=40.50 Aligned_cols=35 Identities=29% Similarity=0.692 Sum_probs=23.2
Q ss_pred ceeeCCCCCCccccCCcccccccccCCCCCCCcccccccccccCCCCCCc
Q 000430 1323 LILSCPSCSSTFDCPAVCSSICMSVSEKPSKPETEYNFWRTLRCPKCPEE 1372 (1517)
Q Consensus 1323 l~~~C~~C~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~ 1372 (1517)
..+.||.|+..+.|.-+....+ + + ..+.||.|+..
T Consensus 98 ~~Y~Cp~C~~~y~~~ea~~~~d------~---~------~~f~Cp~Cg~~ 132 (147)
T smart00531 98 AYYKCPNCQSKYTFLEANQLLD------M---D------GTFTCPRCGEE 132 (147)
T ss_pred cEEECcCCCCEeeHHHHHHhcC------C---C------CcEECCCCCCE
Confidence 3589999999998754432210 0 0 13899999984
No 123
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=44.03 E-value=19 Score=31.00 Aligned_cols=27 Identities=22% Similarity=0.556 Sum_probs=19.6
Q ss_pred eeeCCCCCCccccCCcccccccccCCCCCCCcccccccccccCCCCCCc
Q 000430 1324 ILSCPSCSSTFDCPAVCSSICMSVSEKPSKPETEYNFWRTLRCPKCPEE 1372 (1517)
Q Consensus 1324 ~~~C~~C~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~ 1372 (1517)
.+.|..||+++.... ...++||.|++.
T Consensus 2 ~Y~C~~Cg~~~~~~~----------------------~~~irC~~CG~r 28 (44)
T smart00659 2 IYICGECGRENEIKS----------------------KDVVRCRECGYR 28 (44)
T ss_pred EEECCCCCCEeecCC----------------------CCceECCCCCce
Confidence 478999999875430 016899999983
No 124
>TIGR00593 pola DNA polymerase I. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=43.71 E-value=43 Score=45.88 Aligned_cols=105 Identities=21% Similarity=0.207 Sum_probs=63.0
Q ss_pred HHHHHHHHHHHhcCCCE-EEccccCcccHHHHHHHHHHcCCCCCccccccccccCCCcccccCcccccCCCCCCceeeec
Q 000430 642 ALLNRLMIELYKLDSDV-LVGHNISGFDLDVLLHRAQVCRVPSSMWSKIGRLKRSEMPKLRKGRTIFGSGASPGIMSCIA 720 (1517)
Q Consensus 642 eLL~~Fl~~I~~~DPDV-IvGhNi~~FDL~yLl~Ra~~lkI~~~~wsriGRlkr~~~p~~~~~~~~fg~~~~~~~~~~i~ 720 (1517)
..+..|..++. ||.+ ++|||+ .||+.+|. .+|+.. .
T Consensus 365 ~~~~~l~~~l~--~~~~~~v~~n~-K~d~~~l~----~~gi~~------------------------------------~ 401 (887)
T TIGR00593 365 LTDDKFARWLL--NEQIKKIGHDA-KFLMHLLK----REGIEL------------------------------------G 401 (887)
T ss_pred HHHHHHHHHHh--CCCCcEEEeeH-HHHHHHHH----hCCCCC------------------------------------C
Confidence 34444555555 5554 689998 47887764 245442 1
Q ss_pred ceEEeecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHH---HHhcchhHHHHHHHHHHhHHHHHHHHhhc
Q 000430 721 GRLLCDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLK---MFQTLESLMELIEYGETDAWLSMELMFHL 793 (1517)
Q Consensus 721 GRlv~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~---~~~~~~~l~~l~~y~~~DA~L~~~L~~kl 793 (1517)
| .+.|++..+.-+-...+.+|++++..+|+.+... ..++.. .|. ...+..+..|+..|+.++++|+.++
T Consensus 402 ~-~~~Dt~la~yll~~~~~~~l~~la~~yl~~~~~~--~~~~~~~~~~~~-~~~~~~~~~ya~~d~~~~~~L~~~l 473 (887)
T TIGR00593 402 G-VIFDTMLAAYLLDPAQVSTLDTLARRYLVEELIL--DEKIGGKLAKFA-FPPLEEATEYLARRAAATKRLAEEL 473 (887)
T ss_pred C-cchhHHHHHHHcCCCCCCCHHHHHHHHcCccccc--HHHhccCCCCcc-cccHHHHHHHHHHHHHHHHHHHHHH
Confidence 2 2467776655443334469999999999864321 111110 011 1124467789999999999987654
No 125
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=43.64 E-value=16 Score=37.73 Aligned_cols=16 Identities=38% Similarity=0.741 Sum_probs=12.6
Q ss_pred CCceeeCCCCCCcccc
Q 000430 1321 EPLILSCPSCSSTFDC 1336 (1517)
Q Consensus 1321 ~~l~~~C~~C~~~~~~ 1336 (1517)
.|..+.|..||..+..
T Consensus 68 vp~~~~C~~Cg~~~~~ 83 (117)
T PRK00564 68 EKVELECKDCSHVFKP 83 (117)
T ss_pred cCCEEEhhhCCCcccc
Confidence 4678999999977644
No 126
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=43.46 E-value=17 Score=31.74 Aligned_cols=14 Identities=21% Similarity=0.738 Sum_probs=11.4
Q ss_pred ceeeCCCCCCcccc
Q 000430 1323 LILSCPSCSSTFDC 1336 (1517)
Q Consensus 1323 l~~~C~~C~~~~~~ 1336 (1517)
..++|+.||+.|..
T Consensus 4 Yey~C~~Cg~~fe~ 17 (52)
T TIGR02605 4 YEYRCTACGHRFEV 17 (52)
T ss_pred EEEEeCCCCCEeEE
Confidence 46899999998764
No 127
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=43.33 E-value=17 Score=37.42 Aligned_cols=16 Identities=31% Similarity=0.663 Sum_probs=12.7
Q ss_pred CCceeeCCCCCCcccc
Q 000430 1321 EPLILSCPSCSSTFDC 1336 (1517)
Q Consensus 1321 ~~l~~~C~~C~~~~~~ 1336 (1517)
.|..+.|+.|++.+..
T Consensus 67 ~p~~~~C~~Cg~~~~~ 82 (115)
T TIGR00100 67 EPVECECEDCSEEVSP 82 (115)
T ss_pred eCcEEEcccCCCEEec
Confidence 4678999999987754
No 128
>cd06129 RNaseD_like DEDDy 3'-5' exonuclease domain of RNase D, WRN, and similar proteins. The RNase D-like group is composed of RNase D, WRN, and similar proteins. They contain a DEDDy-type, DnaQ-like, 3'-5' exonuclease domain that contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. RNase D is involved in the 3'-end processing of tRNA precursors. RNase D-like proteins in eukaryotes include yeast Rrp6p, human PM/Scl-100 and Drosophila melanogaster egalitarian (Egl) protein. WRN is a unique DNA helicase possessing exonuclease activity. Mutation in the WRN gene is implicated in Werner syndrome, a disease associated with premature aging and increased predisposition to cancer. Yeast Rrp6p and the human Polymyositis/scleroderma autoantigen 100kDa (PM/Scl-100) are exosome-
Probab=41.80 E-value=24 Score=37.91 Aligned_cols=67 Identities=15% Similarity=0.060 Sum_probs=44.9
Q ss_pred eecHHHHhhccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHHHhhcc
Q 000430 725 CDTFLCSRDLLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMELMFHLS 794 (1517)
Q Consensus 725 ~D~~~~~k~~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L~~kl~ 794 (1517)
+|+...+..+-...+++|..++.++||..- +-..-..-|...+--..-+.|+..||+..+.|+.+|.
T Consensus 94 ~D~~~aa~ll~~~~~~~L~~l~~~~lg~~l---~K~~~~s~W~~rpLt~~qi~YAa~Da~~l~~l~~~l~ 160 (161)
T cd06129 94 FDTTIAANLKGLPERWSLASLVEHFLGKTL---DKSISCADWSYRPLTEDQKLYAAADVYALLIIYTKLR 160 (161)
T ss_pred hHHHHHHHHhCCCCCchHHHHHHHHhCCCC---CccceeccCCCCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 677766654433357899999999998642 2111123355433224678999999999999998763
No 129
>cd06143 PAN2_exo DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonuclease PAN2. PAN2 is the catalytic subunit of poly(A) nuclease (PAN), a Pab1p-dependent 3'-5' exoribonuclease which plays an important role in the posttranscriptional maturation of pre-mRNAs. PAN catalyzes the deadenylation of poly(A) tails, which are initially synthesized to default lengths of 70 to 90, to mRNA-specific lengths of 55 to 71. Pab1p and PAN also play a role in the export and decay of mRNA. PAN2 contains a DEDDh-type DnaQ-like 3'-5' exonuclease domain with three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis.
Probab=41.71 E-value=78 Score=35.14 Aligned_cols=35 Identities=23% Similarity=0.111 Sum_probs=25.1
Q ss_pred CCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHHH
Q 000430 738 VSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMELM 790 (1517)
Q Consensus 738 ~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L~ 790 (1517)
+.++|..+|+.+||.+-..- + .-++.||..+++|+
T Consensus 139 r~~sLk~La~~~L~~~IQ~~-----------~-------HdSvEDArAam~Ly 173 (174)
T cd06143 139 RKLSLRFLAWYLLGEKIQSE-----------T-------HDSIEDARTALKLY 173 (174)
T ss_pred CChhHHHHHHHHcCCcccCC-----------C-------cCcHHHHHHHHHHh
Confidence 46899999999999763321 0 12467888888886
No 130
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=41.50 E-value=18 Score=37.14 Aligned_cols=15 Identities=13% Similarity=0.337 Sum_probs=12.0
Q ss_pred CCceeeCCCCCCccc
Q 000430 1321 EPLILSCPSCSSTFD 1335 (1517)
Q Consensus 1321 ~~l~~~C~~C~~~~~ 1335 (1517)
.|..+.|+.|++.++
T Consensus 67 ~p~~~~C~~Cg~~~~ 81 (114)
T PRK03681 67 QEAECWCETCQQYVT 81 (114)
T ss_pred eCcEEEcccCCCeee
Confidence 477899999997664
No 131
>PHA02952 EEV maturation protein; Provisional
Probab=40.13 E-value=52 Score=42.95 Aligned_cols=39 Identities=26% Similarity=0.209 Sum_probs=33.5
Q ss_pred ccHHHHHHHHHHHHHh----cCCCEEEccccCcccHHHHHHHHH
Q 000430 638 SSERALLNRLMIELYK----LDSDVLVGHNISGFDLDVLLHRAQ 677 (1517)
Q Consensus 638 ~nEreLL~~Fl~~I~~----~DPDVIvGhNi~~FDL~yLl~Ra~ 677 (1517)
++ +.|+..|+.+|.+ .+-=+++||=..-||+|.|..+.-
T Consensus 252 ~s-k~li~~FL~Wl~e~~~n~~ti~LvGy~Ss~FD~pLL~~~wp 294 (648)
T PHA02952 252 DS-KKLILDFLKWLKEVMTNTSTIILVGYLSSFFDFPLLKAYWP 294 (648)
T ss_pred CH-HHHHHHHHHHHHHHhcCCceEEEEEhhhhhcchHHHHhhcc
Confidence 44 9999999999988 666789999999999999888743
No 132
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=39.71 E-value=10 Score=38.87 Aligned_cols=16 Identities=25% Similarity=0.625 Sum_probs=10.9
Q ss_pred CCceeeCCCCCCcccc
Q 000430 1321 EPLILSCPSCSSTFDC 1336 (1517)
Q Consensus 1321 ~~l~~~C~~C~~~~~~ 1336 (1517)
.|..++|..|+++|..
T Consensus 67 ~p~~~~C~~Cg~~~~~ 82 (113)
T PF01155_consen 67 VPARARCRDCGHEFEP 82 (113)
T ss_dssp E--EEEETTTS-EEEC
T ss_pred cCCcEECCCCCCEEec
Confidence 4778999999998854
No 133
>cd06141 WRN_exo DEDDy 3'-5' exonuclease domain of WRN and similar proteins. WRN is a unique RecQ DNA helicase exhibiting an exonuclease activity. It contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. Mutations in the WRN gene cause Werner syndrome, an autosomal recessive disorder associated with premature aging and increased susceptibility to cancer and type II diabetes. WRN interacts with key proteins involved in DNA replication, recombination, and repair. It is believed to maintain genomic stability and life span by participating in DNA processes. WRN is stimulated by Ku70/80, an important regulator of genomic stability.
Probab=37.73 E-value=41 Score=36.16 Aligned_cols=68 Identities=22% Similarity=0.153 Sum_probs=44.3
Q ss_pred eecHHHHhhcccc-CCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHHHhhc
Q 000430 725 CDTFLCSRDLLRE-VSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMELMFHL 793 (1517)
Q Consensus 725 ~D~~~~~k~~~k~-~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L~~kl 793 (1517)
+|+...+..+-.. .+.+|.+++..+||..-.. +-..-..-|...+--..-+.|+..||++.+.|+.+|
T Consensus 100 ~Dl~~aa~ll~~~~~~~~l~~l~~~~l~~~~~k-~k~~~~s~W~~rpLt~~qi~YAa~Da~~~~~l~~~l 168 (170)
T cd06141 100 VDLSHLAKRVGPRRKLVSLARLVEEVLGLPLSK-PKKVRCSNWEARPLSKEQILYAATDAYASLELYRKL 168 (170)
T ss_pred eeHHHHHHHhCCCcCCccHHHHHHHHcCcccCC-CCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence 7888776655433 3479999999999864211 011112335543322345799999999999999876
No 134
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=36.52 E-value=26 Score=37.09 Aligned_cols=18 Identities=22% Similarity=0.654 Sum_probs=14.5
Q ss_pred CCceeeCCCCCCccccCC
Q 000430 1321 EPLILSCPSCSSTFDCPA 1338 (1517)
Q Consensus 1321 ~~l~~~C~~C~~~~~~~g 1338 (1517)
.|..+.|+.||..+.+..
T Consensus 67 ~p~~~~C~~CG~~~~~~~ 84 (135)
T PRK03824 67 EEAVLKCRNCGNEWSLKE 84 (135)
T ss_pred cceEEECCCCCCEEeccc
Confidence 467799999999887753
No 135
>PF03337 Pox_F12L: Poxvirus F12L protein; InterPro: IPR005005 The vaccinia virus F12L gene encodes a 65 kDa protein that is expressed late during infection and is important for plaque formation, EEV production and virulence. The F12L protein is located on intracellular enveloped virus (IEV) particles, but is absent from immature virions, intracellular mature virus and cell-associated enveloped virus. F12L shows co-localization with endosomal compartments and microtubules and appears to play a role in the the transport of IEV particles to the cell surface on microtubules [].; GO: 0016032 viral reproduction
Probab=36.36 E-value=85 Score=41.16 Aligned_cols=41 Identities=27% Similarity=0.253 Sum_probs=33.0
Q ss_pred ccHHHHHHHHHHHHHh-cC----CCEEEccccCcccHHHHHHHHHH
Q 000430 638 SSERALLNRLMIELYK-LD----SDVLVGHNISGFDLDVLLHRAQV 678 (1517)
Q Consensus 638 ~nEreLL~~Fl~~I~~-~D----PDVIvGhNi~~FDL~yLl~Ra~~ 678 (1517)
++=+.|+..|+.+|.+ .. -=+|+||=..-||+|.|..++-.
T Consensus 252 ~s~~~li~~FL~Wl~e~~~~n~~ti~LvGy~ss~FD~pLLra~wp~ 297 (651)
T PF03337_consen 252 DSNKALISDFLKWLRECIMKNIRTIILVGYFSSFFDFPLLRAYWPK 297 (651)
T ss_pred CCchHHHHHHHHHHHHHHhccCceEEEeehhhhhhccHHHHhhccc
Confidence 4566799999999988 43 34789999999999999887544
No 136
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=33.45 E-value=27 Score=26.80 Aligned_cols=9 Identities=33% Similarity=1.250 Sum_probs=7.4
Q ss_pred eCCCCCCcc
Q 000430 1326 SCPSCSSTF 1334 (1517)
Q Consensus 1326 ~C~~C~~~~ 1334 (1517)
+||.|+++.
T Consensus 2 ~CP~C~~~V 10 (26)
T PF10571_consen 2 TCPECGAEV 10 (26)
T ss_pred cCCCCcCCc
Confidence 599999875
No 137
>PRK05978 hypothetical protein; Provisional
Probab=31.54 E-value=26 Score=37.81 Aligned_cols=31 Identities=23% Similarity=0.445 Sum_probs=23.8
Q ss_pred CceeeCCCCCCccccCCcccccccccCCCCCCCcccccccccccCCCCCCc
Q 000430 1322 PLILSCPSCSSTFDCPAVCSSICMSVSEKPSKPETEYNFWRTLRCPKCPEE 1372 (1517)
Q Consensus 1322 ~l~~~C~~C~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~ 1372 (1517)
-|..+||+||+--.|.|.... .-.|++|+.+
T Consensus 31 Gl~grCP~CG~G~LF~g~Lkv--------------------~~~C~~CG~~ 61 (148)
T PRK05978 31 GFRGRCPACGEGKLFRAFLKP--------------------VDHCAACGED 61 (148)
T ss_pred HHcCcCCCCCCCccccccccc--------------------CCCccccCCc
Confidence 377899999998878766542 2469999985
No 138
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=30.19 E-value=28 Score=25.91 Aligned_cols=9 Identities=33% Similarity=1.184 Sum_probs=7.2
Q ss_pred eCCCCCCcc
Q 000430 1326 SCPSCSSTF 1334 (1517)
Q Consensus 1326 ~C~~C~~~~ 1334 (1517)
.||+||+++
T Consensus 1 ~Cp~CG~~~ 9 (23)
T PF13240_consen 1 YCPNCGAEI 9 (23)
T ss_pred CCcccCCCC
Confidence 389999876
No 139
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=30.15 E-value=31 Score=36.09 Aligned_cols=11 Identities=36% Similarity=0.700 Sum_probs=9.2
Q ss_pred eeeCCCCCCcc
Q 000430 1324 ILSCPSCSSTF 1334 (1517)
Q Consensus 1324 ~~~C~~C~~~~ 1334 (1517)
+-.||+||+.|
T Consensus 9 Kr~Cp~cg~kF 19 (129)
T TIGR02300 9 KRICPNTGSKF 19 (129)
T ss_pred cccCCCcCccc
Confidence 45799999987
No 140
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=29.32 E-value=27 Score=26.56 Aligned_cols=10 Identities=30% Similarity=1.129 Sum_probs=7.8
Q ss_pred eeCCCCCCcc
Q 000430 1325 LSCPSCSSTF 1334 (1517)
Q Consensus 1325 ~~C~~C~~~~ 1334 (1517)
..||+||+.+
T Consensus 3 ~~Cp~Cg~~~ 12 (26)
T PF13248_consen 3 MFCPNCGAEI 12 (26)
T ss_pred CCCcccCCcC
Confidence 5799999854
No 141
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=29.27 E-value=85 Score=43.91 Aligned_cols=65 Identities=23% Similarity=0.576 Sum_probs=0.0
Q ss_pred eeeCCCCCCccccCCcccccccccCCCCCCCcccccccccccCCCCCCccccCCCCHHHHHHHHHHHHHHHHHhhhceee
Q 000430 1324 ILSCPSCSSTFDCPAVCSSICMSVSEKPSKPETEYNFWRTLRCPKCPEEVEAGRISPGMIANQVKRQADGFVSMYYKGLM 1403 (1517)
Q Consensus 1324 ~~~C~~C~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~~~~~~~~~~i~nql~~~ir~~i~~yy~~~~ 1403 (1517)
.++||+||+... ...||+|+. .. ..-+
T Consensus 667 ~rkCPkCG~~t~---------------------------~~fCP~CGs-----~t---------------------e~vy 693 (1337)
T PRK14714 667 RRRCPSCGTETY---------------------------ENRCPDCGT-----HT---------------------EPVY 693 (1337)
T ss_pred EEECCCCCCccc---------------------------cccCcccCC-----cC---------------------CCce
Q ss_pred eeCCccCCCcccccceeeeccCcCCCCCCCCCCc----ceeeEeeechHHHHHH
Q 000430 1404 MCDDETCKYTTCSLNLRLIGDAERGTVCPNYPRC----NGRLVRKYTEADLYKQ 1453 (1517)
Q Consensus 1404 ~Cdd~~C~~~tr~~~~r~~~~~~~~~~C~~~~~C----~g~m~~~ys~~~ly~q 1453 (1517)
.|- .||..+-. ..+. ...||. | ......+.+-+++|.+
T Consensus 694 ~CP--sCGaev~~------des~-a~~CP~---CGtplv~~~~~~i~~~~~~~~ 735 (1337)
T PRK14714 694 VCP--DCGAEVPP------DESG-RVECPR---CDVELTPYQRRTINVKEEYRS 735 (1337)
T ss_pred eCc--cCCCccCC------Cccc-cccCCC---CCCcccccceEEecHHHHHHH
No 142
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=27.96 E-value=34 Score=35.30 Aligned_cols=10 Identities=50% Similarity=1.301 Sum_probs=8.2
Q ss_pred cccCCCCCCc
Q 000430 1363 TLRCPKCPEE 1372 (1517)
Q Consensus 1363 ~~~C~~C~~~ 1372 (1517)
.+.|++|+..
T Consensus 12 ~l~C~~C~t~ 21 (113)
T PF09862_consen 12 RLKCPSCGTE 21 (113)
T ss_pred EEEcCCCCCE
Confidence 5789999885
No 143
>KOG2249 consensus 3'-5' exonuclease [Replication, recombination and repair]
Probab=25.92 E-value=3.5e+02 Score=32.05 Aligned_cols=42 Identities=31% Similarity=0.327 Sum_probs=29.4
Q ss_pred ccccCCCCHHHHHHHhcCCCCCccChhhHHHHHhcchhHHHHHHHHHHhHHHHHHHHhhc
Q 000430 734 LLREVSYSLTQLAKTQLNKDRKEVGPHDVLKMFQTLESLMELIEYGETDAWLSMELMFHL 793 (1517)
Q Consensus 734 ~~k~~SYsL~~va~~~Lg~~k~di~~~eI~~~~~~~~~l~~l~~y~~~DA~L~~~L~~kl 793 (1517)
+.+..+-||..|++.+||.+-. .+. .-+..||..+++|+...
T Consensus 221 ~~~~~tpSLK~Lt~~~Lg~~IQ------------~Ge------HsSvEDA~AtM~LY~~v 262 (280)
T KOG2249|consen 221 LSKKATPSLKKLTEALLGKDIQ------------VGE------HSSVEDARATMELYKRV 262 (280)
T ss_pred hhccCCccHHHHHHHHhchhhh------------ccc------cCcHHHHHHHHHHHHHH
Confidence 3556788999999999996411 011 12468999999998653
No 144
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=25.27 E-value=41 Score=30.81 Aligned_cols=15 Identities=20% Similarity=0.558 Sum_probs=11.2
Q ss_pred ceeeCCCCCCccccC
Q 000430 1323 LILSCPSCSSTFDCP 1337 (1517)
Q Consensus 1323 l~~~C~~C~~~~~~~ 1337 (1517)
..|.||+||.....+
T Consensus 26 v~F~CPnCGe~~I~R 40 (61)
T COG2888 26 VKFPCPNCGEVEIYR 40 (61)
T ss_pred eEeeCCCCCceeeeh
Confidence 468999999766543
No 145
>COG4888 Uncharacterized Zn ribbon-containing protein [General function prediction only]
Probab=25.10 E-value=16 Score=36.50 Aligned_cols=14 Identities=29% Similarity=0.778 Sum_probs=11.1
Q ss_pred CceeeCCCCCCccc
Q 000430 1322 PLILSCPSCSSTFD 1335 (1517)
Q Consensus 1322 ~l~~~C~~C~~~~~ 1335 (1517)
+-+|+||.|+++..
T Consensus 20 ~k~FtCp~Cghe~v 33 (104)
T COG4888 20 PKTFTCPRCGHEKV 33 (104)
T ss_pred CceEecCccCCeee
Confidence 34699999999864
No 146
>PRK10144 formate-dependent nitrite reductase complex subunit NrfF; Provisional
Probab=24.83 E-value=61 Score=34.11 Aligned_cols=32 Identities=28% Similarity=0.507 Sum_probs=19.0
Q ss_pred cccCCCCCCccccCCCCHHHHHHHHHHHHHHHHH
Q 000430 1363 TLRCPKCPEEVEAGRISPGMIANQVKRQADGFVS 1396 (1517)
Q Consensus 1363 ~~~C~~C~~~~~~~~~~~~~i~nql~~~ir~~i~ 1396 (1517)
.++|+.|.++... -|.+.|+..+...||+.|.
T Consensus 40 ~LRC~vCqnqsia--dSna~iA~dmR~~Vr~~i~ 71 (126)
T PRK10144 40 QLRCPQCQNQNLL--ESNAPVAVSMRHQVYSMVA 71 (126)
T ss_pred cCCCCCCCCCChh--hcCCHHHHHHHHHHHHHHH
Confidence 4566666664321 1345677777777777664
No 147
>TIGR03147 cyt_nit_nrfF cytochrome c nitrite reductase, accessory protein NrfF.
Probab=24.82 E-value=60 Score=34.14 Aligned_cols=32 Identities=28% Similarity=0.550 Sum_probs=18.9
Q ss_pred cccCCCCCCccccCCCCHHHHHHHHHHHHHHHHH
Q 000430 1363 TLRCPKCPEEVEAGRISPGMIANQVKRQADGFVS 1396 (1517)
Q Consensus 1363 ~~~C~~C~~~~~~~~~~~~~i~nql~~~ir~~i~ 1396 (1517)
.++|+.|.++... -|.+.|+..+...||+.|.
T Consensus 40 ~LRC~vCqnqsia--dS~a~iA~dmR~~Vr~~i~ 71 (126)
T TIGR03147 40 SLRCPQCQNQNLV--ESNSPIAYDLRHEVYSMVN 71 (126)
T ss_pred hCCCCCCCCCChh--hcCCHHHHHHHHHHHHHHH
Confidence 3666666654321 1345677777777777664
No 148
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=23.94 E-value=29 Score=34.98 Aligned_cols=34 Identities=24% Similarity=0.500 Sum_probs=19.7
Q ss_pred cccCCCCCCccccCCCCHHHHHHHHHHHHH---HHHHhhhceee
Q 000430 1363 TLRCPKCPEEVEAGRISPGMIANQVKRQAD---GFVSMYYKGLM 1403 (1517)
Q Consensus 1363 ~~~C~~C~~~~~~~~~~~~~i~nql~~~ir---~~i~~yy~~~~ 1403 (1517)
...|++|+..-.. -+|.|...|. .+|..|++|-+
T Consensus 42 h~~C~~CG~y~~~-------~V~~l~epIDVY~~wiD~~~eg~i 78 (99)
T PRK14892 42 IITCGNCGLYTEF-------EVPSVYDEVDVYNKFIDLYLEGKI 78 (99)
T ss_pred eEECCCCCCccCE-------ECCccccchhhHHHHHHHHHhcCC
Confidence 4789999984321 2334444332 56777777754
No 149
>KOG4793 consensus Three prime repair exonuclease [Replication, recombination and repair]
Probab=23.85 E-value=68 Score=37.65 Aligned_cols=46 Identities=20% Similarity=0.243 Sum_probs=35.7
Q ss_pred ecccHHHHHHHHHHHHHhcCCCEEEccccCcccHHHHHHHHHHcCCCC
Q 000430 636 CESSERALLNRLMIELYKLDSDVLVGHNISGFDLDVLLHRAQVCRVPS 683 (1517)
Q Consensus 636 ~~~nEreLL~~Fl~~I~~~DPDVIvGhNi~~FDL~yLl~Ra~~lkI~~ 683 (1517)
+..+=..||..|+..+- -|=-+|.||.++||||+|.+-+..+|+..
T Consensus 102 ~D~dla~LL~afls~lp--~p~CLVaHng~~~dfpil~qela~lg~~l 147 (318)
T KOG4793|consen 102 FDKDLAKLLTAFLSRLP--TPGCLVAHNGNEYDFPILAQELAGLGYSL 147 (318)
T ss_pred hhHHHHHHHHHHHhcCC--CCceEEeecCCccccHHHHHHHHhcCccc
Confidence 33445566666666543 58889999999999999999999888765
No 150
>COG0615 TagD Cytidylyltransferase [Cell envelope biogenesis, outer membrane / Lipid metabolism]
Probab=23.80 E-value=1e+02 Score=33.14 Aligned_cols=34 Identities=21% Similarity=0.251 Sum_probs=28.9
Q ss_pred HHHHHhcCCCEEE-ccccCcccHHHHHHHHHHcCCC
Q 000430 648 MIELYKLDSDVLV-GHNISGFDLDVLLHRAQVCRVP 682 (1517)
Q Consensus 648 l~~I~~~DPDVIv-GhNi~~FDL~yLl~Ra~~lkI~ 682 (1517)
+..|.+++||||+ |++.. ||...|...+...|+.
T Consensus 79 ~~~i~~~k~Div~lG~D~~-~d~~~l~~~~~k~G~~ 113 (140)
T COG0615 79 FEDIEEYKPDIVVLGDDQK-FDEDDLKYELVKRGLF 113 (140)
T ss_pred hHHHHHhCCCEEEECCCCc-CChHHHHHHHHHcCCe
Confidence 6788999999988 88877 9999999999886554
No 151
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=23.77 E-value=54 Score=35.32 Aligned_cols=16 Identities=25% Similarity=0.636 Sum_probs=12.8
Q ss_pred CceeeCCCCCCccccC
Q 000430 1322 PLILSCPSCSSTFDCP 1337 (1517)
Q Consensus 1322 ~l~~~C~~C~~~~~~~ 1337 (1517)
+-++.|-+||+...|.
T Consensus 110 ~G~l~C~~Cg~~~~~~ 125 (146)
T PF07295_consen 110 PGTLVCENCGHEVELT 125 (146)
T ss_pred CceEecccCCCEEEec
Confidence 4469999999988763
No 152
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=23.62 E-value=57 Score=36.19 Aligned_cols=29 Identities=28% Similarity=0.824 Sum_probs=21.7
Q ss_pred eeCCCCCCccccCCcccccccccCCCCCCCcccccccccccCCCCCCcc
Q 000430 1325 LSCPSCSSTFDCPAVCSSICMSVSEKPSKPETEYNFWRTLRCPKCPEEV 1373 (1517)
Q Consensus 1325 ~~C~~C~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~~~ 1373 (1517)
+.||.|...+.|.-.+. .+..||.|+...
T Consensus 114 y~C~~~~~r~sfdeA~~--------------------~~F~Cp~Cg~~L 142 (176)
T COG1675 114 YVCPNCHVKYSFDEAME--------------------LGFTCPKCGEDL 142 (176)
T ss_pred eeCCCCCCcccHHHHHH--------------------hCCCCCCCCchh
Confidence 78999998887754332 368899999853
No 153
>PHA03242 envelope glycoprotein M; Provisional
Probab=23.31 E-value=82 Score=39.45 Aligned_cols=38 Identities=29% Similarity=0.426 Sum_probs=23.6
Q ss_pred hhHHHHHHHHHHHHHcCCCccCC------------CccccccccCCccccc
Q 000430 19 ASARAEALERLKALRRGGRRSGD------------SVGYNIKLENPIYDTV 57 (1517)
Q Consensus 19 k~~r~~ALe~LK~~r~ggk~~~~------------~~~yeV~e~~~VYdeV 57 (1517)
+.-|+.|=.+||+.| +|.+... .+.+|-++.|.|||+|
T Consensus 363 ~~~~~~~~~~~~r~r-~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~iYd~v 412 (428)
T PHA03242 363 RDARHRARSYIRRVR-SSMRNSREAPYAGESDVGRDDDYASTDGEPIYDEV 412 (428)
T ss_pred HHHHHHHHHHHHHhh-CcCCCCccccccccccccccccccccCCCcccccc
Confidence 344677778888888 4444211 2234556678888888
No 154
>KOG3657 consensus Mitochondrial DNA polymerase gamma, catalytic subunit [Replication, recombination and repair]
Probab=23.08 E-value=1.3e+02 Score=40.24 Aligned_cols=56 Identities=25% Similarity=0.362 Sum_probs=36.9
Q ss_pred CCHHHHHHHhcCCCCCccChhhHHHHHhcc------hhHHHHHHHHHHhHHHHHHHHhhcccchhHH
Q 000430 740 YSLTQLAKTQLNKDRKEVGPHDVLKMFQTL------ESLMELIEYGETDAWLSMELMFHLSVLPLTR 800 (1517)
Q Consensus 740 YsL~~va~~~Lg~~k~di~~~eI~~~~~~~------~~l~~l~~y~~~DA~L~~~L~~kl~ilpL~~ 800 (1517)
-||.+|++.+.|....+=.+ ...|.++ +.+..|+.||..|++++.++++++ +|+..
T Consensus 323 NSL~dVhk~~c~~~~LdKt~---Rd~Fvs~~~e~Ire~fq~L~~YCA~Dv~aThqVf~~l--fP~Fl 384 (1075)
T KOG3657|consen 323 NSLVDVHKFHCGIDALDKTP---RDSFVSGTKEQIRENFQPLMNYCARDVIATHQVFFRL--FPLFL 384 (1075)
T ss_pred HHHHHHHHhhCCCCccccch---HHhhhcCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHH--hHHHH
Confidence 46888999888865333222 2223221 235579999999999999999864 45543
No 155
>cd06140 DNA_polA_I_Bacillus_like_exo inactive DEDDy 3'-5' exonuclease domain of Bacillus stearothermophilus DNA polymerase I and similar family-A DNA polymerases. Bacillus stearothermophilus-like Polymerase I (Pol I), a subgroup of the family-A DNA polymerases, contains an inactive DnaQ-like 3'-5' exonuclease domain in the same polypeptide chain as the polymerase region. The exonuclease-like domain of these proteins possess the same fold as the Klenow fragment (KF) of Escherichia coli Pol I, but does not contain the four critical metal-binding residues necessary for activity. The function of this domain is unknown. It might act as a spacer between the polymerase and the 5'-3' exonuclease domains. Some members of this subgroup, such as those from Bacillus sphaericus and Thermus aquaticus, are thermostable DNA polymerases.
Probab=23.04 E-value=3.8e+02 Score=28.81 Aligned_cols=67 Identities=27% Similarity=0.189 Sum_probs=40.2
Q ss_pred EeecHHHHhhccccC-CCCHHHHHHHhcCCCCCccChhhHHHH---HhcchhHHHHHHHHHHhHHHHHHHHhhc
Q 000430 724 LCDTFLCSRDLLREV-SYSLTQLAKTQLNKDRKEVGPHDVLKM---FQTLESLMELIEYGETDAWLSMELMFHL 793 (1517)
Q Consensus 724 v~D~~~~~k~~~k~~-SYsL~~va~~~Lg~~k~di~~~eI~~~---~~~~~~l~~l~~y~~~DA~L~~~L~~kl 793 (1517)
++|+...+.-+-+.. +++|.+++..+|+..-... .++... +. .........|...|+.++.+|...+
T Consensus 82 ~fDt~laaYLL~p~~~~~~l~~l~~~yl~~~~~~~--~~~~~~~~~~~-~~~~~~~~~y~~~~a~~l~~l~~~l 152 (178)
T cd06140 82 AFDTMLAAYLLDPTRSSYDLADLAKRYLGRELPSD--EEVYGKGAKFA-VPDEEVLAEHLARKAAAIARLAPKL 152 (178)
T ss_pred chhHHHHHHHcCCCCCCCCHHHHHHHHcCCCCcch--HHhcCCCCCcc-cCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 478877766554433 5899999999998642111 111100 11 1123456678888888888776543
No 156
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=21.51 E-value=60 Score=33.92 Aligned_cols=16 Identities=19% Similarity=0.414 Sum_probs=12.4
Q ss_pred CCceeeCCCCCCccccC
Q 000430 1321 EPLILSCPSCSSTFDCP 1337 (1517)
Q Consensus 1321 ~~l~~~C~~C~~~~~~~ 1337 (1517)
.|..+.| .|+..+...
T Consensus 67 vp~~~~C-~Cg~~~~~~ 82 (124)
T PRK00762 67 IPVEIEC-ECGYEGVVD 82 (124)
T ss_pred cCeeEEe-eCcCccccc
Confidence 4778999 999887553
No 157
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=20.76 E-value=60 Score=28.75 Aligned_cols=28 Identities=25% Similarity=0.624 Sum_probs=19.3
Q ss_pred ceeeCCCCCCccccCCcccccccccCCCCCCCcccccccccccCCCCCC
Q 000430 1323 LILSCPSCSSTFDCPAVCSSICMSVSEKPSKPETEYNFWRTLRCPKCPE 1371 (1517)
Q Consensus 1323 l~~~C~~C~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~C~~C~~ 1371 (1517)
....|..||..+... . ...+.+||.|+.
T Consensus 5 ~~Y~C~~Cg~~~~~~--~-------------------~~~~irCp~Cg~ 32 (49)
T COG1996 5 MEYKCARCGREVELD--Q-------------------ETRGIRCPYCGS 32 (49)
T ss_pred EEEEhhhcCCeeehh--h-------------------ccCceeCCCCCc
Confidence 457899999987210 0 012789999987
No 158
>TIGR03830 CxxCG_CxxCG_HTH putative zinc finger/helix-turn-helix protein, YgiT family. This model describes a family of predicted regulatory proteins with a conserved zinc finger/HTH architecture. The amino-terminal region contains a novel domain, featuring two CXXC motifs and occuring in a number of small bacterial proteins as well as in the present family. The carboxyl-terminal region consists of a helix-turn-helix domain, modeled by pfam01381. The predicted function is DNA binding and transcriptional regulation.
Probab=20.46 E-value=1e+02 Score=31.57 Aligned_cols=29 Identities=24% Similarity=0.472 Sum_probs=17.9
Q ss_pred cccCCCCCCccccCCCCHHHHHHHHHHHHHHHHH
Q 000430 1363 TLRCPKCPEEVEAGRISPGMIANQVKRQADGFVS 1396 (1517)
Q Consensus 1363 ~~~C~~C~~~~~~~~~~~~~i~nql~~~ir~~i~ 1396 (1517)
+..|+.|+.. .+++ .....+..++..+..
T Consensus 31 ~~~C~~CGe~----~~~~-e~~~~~~~~i~~~~~ 59 (127)
T TIGR03830 31 GWYCPACGEE----LLDP-EESKRNSAALADFYR 59 (127)
T ss_pred eeECCCCCCE----EEcH-HHHHHHHHHHHHHHH
Confidence 6789999883 3343 345566666655543
No 159
>COG5216 Uncharacterized conserved protein [Function unknown]
Probab=20.30 E-value=48 Score=30.14 Aligned_cols=14 Identities=29% Similarity=0.994 Sum_probs=10.9
Q ss_pred CceeeCCCCCCcccc
Q 000430 1322 PLILSCPSCSSTFDC 1336 (1517)
Q Consensus 1322 ~l~~~C~~C~~~~~~ 1336 (1517)
-|++.|| ||-.|..
T Consensus 20 ~ftyPCP-CGDRFeI 33 (67)
T COG5216 20 TFTYPCP-CGDRFEI 33 (67)
T ss_pred eEEecCC-CCCEeEE
Confidence 4789998 9988753
Done!