Query 017267
Match_columns 374
No_of_seqs 339 out of 1304
Neff 6.1
Searched_HMMs 46136
Date Fri Mar 29 07:04:32 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017267.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017267hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG2176 PolC DNA polymerase II 100.0 2.3E-50 5E-55 432.2 12.4 233 38-288 344-597 (1444)
2 TIGR01405 polC_Gram_pos DNA po 100.0 1.4E-39 3.1E-44 362.5 24.4 230 38-284 112-362 (1213)
3 KOG0542 Predicted exonuclease 100.0 4.5E-39 9.7E-44 300.1 14.8 195 91-285 51-250 (280)
4 PRK07748 sporulation inhibitor 100.0 8.6E-38 1.9E-42 289.6 19.1 174 96-278 4-181 (207)
5 PTZ00315 2'-phosphotransferase 100.0 6.6E-37 1.4E-41 317.3 25.2 200 90-289 50-267 (582)
6 PRK00448 polC DNA polymerase I 100.0 6E-37 1.3E-41 345.2 21.8 228 38-283 342-590 (1437)
7 PRK06722 exonuclease; Provisio 100.0 2.9E-35 6.2E-40 284.3 20.6 171 96-275 5-179 (281)
8 cd06133 ERI-1_3'hExo_like DEDD 100.0 8.2E-34 1.8E-38 253.1 20.1 172 98-274 1-176 (176)
9 TIGR01406 dnaQ_proteo DNA poly 100.0 5E-33 1.1E-37 261.4 21.0 168 97-278 1-173 (225)
10 PRK05711 DNA polymerase III su 100.0 8.1E-33 1.8E-37 262.4 21.1 172 96-281 4-180 (240)
11 cd06131 DNA_pol_III_epsilon_Ec 100.0 2.2E-32 4.8E-37 243.3 20.3 162 98-273 1-166 (167)
12 smart00479 EXOIII exonuclease 100.0 3.9E-32 8.4E-37 239.8 21.5 167 97-278 1-168 (169)
13 PRK06195 DNA polymerase III su 100.0 6.7E-32 1.4E-36 264.7 22.6 164 97-279 2-166 (309)
14 PRK06807 DNA polymerase III su 100.0 5.9E-32 1.3E-36 265.4 21.7 166 94-277 6-172 (313)
15 cd06130 DNA_pol_III_epsilon_li 100.0 1.6E-31 3.4E-36 234.3 19.2 154 98-271 1-155 (156)
16 PRK08517 DNA polymerase III su 100.0 1.6E-31 3.5E-36 255.9 20.8 164 96-277 68-231 (257)
17 PRK06063 DNA polymerase III su 100.0 2.4E-31 5.1E-36 261.3 20.1 167 96-280 15-182 (313)
18 PRK07942 DNA polymerase III su 100.0 6.2E-31 1.3E-35 248.2 20.0 173 96-278 6-181 (232)
19 PRK05168 ribonuclease T; Provi 100.0 8E-31 1.7E-35 244.1 20.3 177 96-278 17-202 (211)
20 PRK09146 DNA polymerase III su 100.0 9.4E-31 2E-35 248.1 20.9 166 95-278 46-228 (239)
21 PRK06310 DNA polymerase III su 100.0 1.5E-30 3.2E-35 248.3 21.9 168 96-277 7-174 (250)
22 PRK07740 hypothetical protein; 100.0 1E-30 2.2E-35 248.5 20.2 168 96-280 59-229 (244)
23 PRK07247 DNA polymerase III su 100.0 2.3E-30 5.1E-35 238.5 20.1 161 95-278 4-170 (195)
24 TIGR00573 dnaq exonuclease, DN 100.0 3.6E-30 7.8E-35 240.4 21.4 171 96-281 7-181 (217)
25 cd06134 RNaseT DEDDh 3'-5' exo 100.0 2.9E-30 6.3E-35 236.4 20.4 174 97-276 6-188 (189)
26 cd06136 TREX1_2 DEDDh 3'-5' ex 100.0 1.2E-30 2.5E-35 236.5 17.0 162 98-272 1-176 (177)
27 PRK09145 DNA polymerase III su 100.0 2.3E-30 5E-35 238.8 19.2 162 96-275 29-199 (202)
28 COG5018 KapD Inhibitor of the 100.0 1E-31 2.3E-36 237.6 8.6 197 96-297 4-202 (210)
29 TIGR01298 RNaseT ribonuclease 100.0 5.7E-30 1.2E-34 236.5 19.4 177 96-278 8-193 (200)
30 PRK06309 DNA polymerase III su 100.0 5.7E-30 1.2E-34 241.5 19.7 163 96-277 2-166 (232)
31 PRK07883 hypothetical protein; 100.0 1.5E-29 3.3E-34 265.4 21.5 169 96-281 15-186 (557)
32 PRK07246 bifunctional ATP-depe 100.0 5.8E-29 1.3E-33 271.2 20.9 164 96-278 7-171 (820)
33 cd06138 ExoI_N N-terminal DEDD 100.0 9.1E-29 2E-33 225.0 16.9 162 99-270 1-182 (183)
34 PRK05601 DNA polymerase III su 100.0 5.9E-28 1.3E-32 239.2 22.4 164 96-274 46-246 (377)
35 PRK08074 bifunctional ATP-depe 100.0 2.8E-28 6E-33 269.2 21.3 166 96-278 3-170 (928)
36 TIGR01407 dinG_rel DnaQ family 100.0 1.2E-27 2.7E-32 262.2 21.4 164 97-277 1-165 (850)
37 PRK07983 exodeoxyribonuclease 100.0 1.8E-27 4E-32 223.0 18.3 159 98-288 2-164 (219)
38 cd06127 DEDDh DEDDh 3'-5' exon 100.0 2E-27 4.3E-32 205.0 16.7 156 99-270 1-158 (159)
39 cd06137 DEDDh_RNase DEDDh 3'-5 99.9 5.3E-28 1.1E-32 215.9 10.8 147 99-271 1-161 (161)
40 COG0847 DnaQ DNA polymerase II 99.9 2.2E-26 4.8E-31 216.8 19.2 166 96-276 13-181 (243)
41 cd06144 REX4_like DEDDh 3'-5' 99.9 1.3E-26 2.7E-31 205.0 13.2 149 99-271 1-152 (152)
42 cd06135 Orn DEDDh 3'-5' exonuc 99.9 4.2E-26 9.1E-31 206.0 15.6 161 98-275 1-170 (173)
43 cd06145 REX1_like DEDDh 3'-5' 99.9 2.9E-26 6.2E-31 202.7 13.0 143 99-270 1-149 (150)
44 cd06149 ISG20 DEDDh 3'-5' exon 99.9 6.9E-26 1.5E-30 201.8 12.6 149 99-271 1-157 (157)
45 PF00929 RNase_T: Exonuclease; 99.9 1.4E-26 2.9E-31 200.0 7.4 162 99-270 1-164 (164)
46 PRK09182 DNA polymerase III su 99.9 6.3E-25 1.4E-29 214.1 18.0 171 96-288 37-212 (294)
47 PRK05359 oligoribonuclease; Pr 99.9 1.4E-23 3E-28 191.3 17.1 163 96-277 3-175 (181)
48 PRK11779 sbcB exonuclease I; P 99.9 5.1E-23 1.1E-27 211.9 19.9 171 96-276 6-197 (476)
49 KOG2249 3'-5' exonuclease [Rep 99.4 1.5E-12 3.2E-17 123.6 12.7 158 96-277 105-266 (280)
50 PF06839 zf-GRF: GRF zinc fing 99.3 4.9E-13 1.1E-17 95.3 2.3 44 326-372 1-44 (45)
51 cd05160 DEDDy_DNA_polB_exo DED 99.3 9.2E-11 2E-15 107.4 17.7 138 99-251 2-161 (199)
52 cd06143 PAN2_exo DEDDh 3'-5' e 99.3 1.3E-10 2.8E-15 105.4 14.0 154 96-270 5-173 (174)
53 PHA02570 dexA exonuclease; Pro 99.0 2.8E-09 6E-14 99.5 12.4 164 98-273 3-195 (220)
54 cd06125 DnaQ_like_exo DnaQ-lik 99.0 4.3E-09 9.4E-14 86.4 11.2 94 99-269 1-94 (96)
55 COG2925 SbcB Exonuclease I [DN 98.9 9.7E-09 2.1E-13 102.0 12.0 164 96-272 9-196 (475)
56 COG1949 Orn Oligoribonuclease 98.8 1E-08 2.2E-13 91.4 7.5 152 95-267 5-168 (184)
57 cd05781 DNA_polB_B3_exo DEDDy 98.7 5.3E-07 1.2E-11 82.8 14.7 120 97-251 4-144 (188)
58 KOG3242 Oligoribonuclease (3'- 98.7 1.2E-07 2.6E-12 85.3 9.7 156 96-268 26-190 (208)
59 KOG2248 3'-5' exonuclease [Rep 98.7 9.5E-08 2.1E-12 96.4 9.8 156 96-280 216-378 (380)
60 cd05780 DNA_polB_Kod1_like_exo 98.6 1.1E-06 2.3E-11 81.0 15.6 130 97-252 4-156 (195)
61 cd05782 DNA_polB_like1_exo Unc 98.5 4.5E-06 9.7E-11 77.9 16.6 114 106-252 41-170 (208)
62 PF13482 RNase_H_2: RNase_H su 98.5 5.4E-07 1.2E-11 79.7 9.6 116 99-253 1-117 (164)
63 cd06139 DNA_polA_I_Ecoli_like_ 98.3 1.6E-05 3.5E-10 71.4 13.9 145 96-279 5-172 (193)
64 PF04857 CAF1: CAF1 family rib 98.2 4.2E-05 9.2E-10 73.7 14.6 172 96-272 22-262 (262)
65 cd05779 DNA_polB_epsilon_exo D 98.2 0.00013 2.8E-09 68.1 16.9 144 97-251 3-168 (204)
66 KOG0304 mRNA deadenylase subun 98.1 3E-05 6.5E-10 72.4 11.0 172 97-275 25-237 (239)
67 PF10108 DNA_pol_B_exo2: Predi 98.1 0.00013 2.9E-09 68.3 15.2 130 114-276 7-172 (209)
68 PRK05755 DNA polymerase I; Pro 98.1 3.3E-05 7.2E-10 86.1 13.2 136 96-277 315-469 (880)
69 cd05785 DNA_polB_like2_exo Unc 98.0 0.00024 5.1E-09 66.3 15.6 121 97-252 10-169 (207)
70 KOG1956 DNA topoisomerase III 98.0 3.5E-06 7.6E-11 88.5 2.6 42 324-370 717-758 (758)
71 cd05777 DNA_polB_delta_exo DED 97.8 0.0022 4.7E-08 60.6 18.1 136 97-250 8-181 (230)
72 cd05783 DNA_polB_B1_exo DEDDy 97.7 0.0017 3.7E-08 60.5 15.4 136 97-250 6-169 (204)
73 smart00481 POLIIIAc DNA polyme 97.5 5E-05 1.1E-09 57.8 2.4 31 39-69 8-38 (67)
74 PRK06920 dnaE DNA polymerase I 97.4 8.6E-05 1.9E-09 84.2 2.7 45 38-82 11-70 (1107)
75 KOG4793 Three prime repair exo 97.3 0.00092 2E-08 64.5 8.3 171 94-273 11-214 (318)
76 COG3359 Predicted exonuclease 97.3 0.0038 8.2E-08 59.7 12.0 117 96-252 98-219 (278)
77 PRK07279 dnaE DNA polymerase I 97.2 0.00016 3.6E-09 81.3 2.5 45 38-82 10-69 (1034)
78 cd05784 DNA_polB_II_exo DEDDy 97.2 0.013 2.9E-07 54.1 14.2 121 97-248 4-149 (193)
79 smart00486 POLBc DNA polymeras 97.1 0.043 9.3E-07 55.7 18.3 161 97-273 4-220 (471)
80 PTZ00166 DNA polymerase delta 96.9 0.022 4.8E-07 65.0 16.1 162 97-274 265-483 (1054)
81 TIGR03491 RecB family nuclease 96.9 0.0086 1.9E-07 62.3 11.2 123 96-253 284-411 (457)
82 cd05778 DNA_polB_zeta_exo inac 96.8 0.099 2.1E-06 49.6 16.9 172 97-276 5-222 (231)
83 PRK05898 dnaE DNA polymerase I 96.7 0.00085 1.8E-08 75.1 2.6 45 38-82 10-69 (971)
84 PRK07135 dnaE DNA polymerase I 96.6 0.0012 2.6E-08 74.3 2.5 43 39-81 12-69 (973)
85 COG0587 DnaE DNA polymerase II 96.4 0.0016 3.4E-08 74.1 2.5 47 38-84 12-73 (1139)
86 PRK09532 DNA polymerase III su 96.4 0.0016 3.5E-08 72.7 2.3 44 39-82 12-70 (874)
87 PF03104 DNA_pol_B_exo1: DNA p 96.3 0.034 7.4E-07 54.0 10.9 131 96-244 157-325 (325)
88 PF01612 DNA_pol_A_exo1: 3'-5' 96.3 0.16 3.6E-06 44.3 13.9 91 173-276 65-174 (176)
89 PRK07374 dnaE DNA polymerase I 96.2 0.0024 5.3E-08 73.1 2.3 45 38-82 11-70 (1170)
90 PRK05762 DNA polymerase II; Re 96.2 0.13 2.7E-06 57.3 15.5 147 97-273 156-348 (786)
91 PRK05672 dnaE2 error-prone DNA 96.0 0.0034 7.3E-08 71.4 2.3 45 38-82 13-72 (1046)
92 PF02811 PHP: PHP domain; Int 95.9 0.0039 8.5E-08 54.7 1.8 29 41-69 11-39 (175)
93 PHA02528 43 DNA polymerase; Pr 95.8 0.81 1.8E-05 51.6 19.6 220 34-272 52-323 (881)
94 PRK05673 dnaE DNA polymerase I 95.7 0.0049 1.1E-07 70.7 2.1 45 38-82 10-69 (1135)
95 TIGR00594 polc DNA-directed DN 95.7 0.0059 1.3E-07 69.4 2.4 45 38-82 9-68 (1022)
96 PRK06826 dnaE DNA polymerase I 95.4 0.0081 1.8E-07 68.9 2.2 45 38-82 13-72 (1151)
97 PF13017 Maelstrom: piRNA path 95.1 0.14 3E-06 48.1 9.4 156 116-276 8-196 (213)
98 KOG1798 DNA polymerase epsilon 95.1 0.25 5.4E-06 57.3 12.6 160 96-275 246-452 (2173)
99 PHA02524 43A DNA polymerase su 94.4 0.75 1.6E-05 48.6 13.5 193 34-247 52-282 (498)
100 COG5228 POP2 mRNA deadenylase 94.1 0.053 1.1E-06 51.2 3.7 182 97-289 43-265 (299)
101 cd05776 DNA_polB_alpha_exo ina 93.9 1.1 2.4E-05 42.5 12.5 147 98-250 5-185 (234)
102 PHA03036 DNA polymerase; Provi 93.9 1.4 2.9E-05 50.2 14.9 179 96-284 160-399 (1004)
103 PRK06361 hypothetical protein; 93.9 0.041 8.9E-07 50.9 2.6 30 43-72 7-36 (212)
104 TIGR00592 pol2 DNA polymerase 93.6 3.4 7.4E-05 48.2 18.0 143 98-248 506-678 (1172)
105 cd06146 mut-7_like_exo DEDDy 3 93.3 1.5 3.2E-05 40.3 11.9 141 96-275 22-193 (193)
106 COG0417 PolB DNA polymerase el 92.8 2.1 4.5E-05 47.8 14.3 131 96-249 154-305 (792)
107 COG0349 Rnd Ribonuclease D [Tr 92.7 2.2 4.8E-05 43.3 12.9 133 96-277 17-166 (361)
108 cd00007 35EXOc 3'-5' exonuclea 92.7 1.2 2.5E-05 37.7 9.6 66 171-248 40-106 (155)
109 cd06141 WRN_exo DEDDy 3'-5' ex 92.2 3.1 6.8E-05 36.7 12.2 132 96-274 18-169 (170)
110 PRK05761 DNA polymerase I; Rev 91.9 1.5 3.3E-05 48.9 11.7 97 168-270 208-334 (787)
111 KOG1275 PAB-dependent poly(A) 89.2 0.12 2.7E-06 57.2 0.3 111 148-276 972-1091(1118)
112 PRK09248 putative hydrolase; V 88.0 0.38 8.2E-06 45.6 2.7 29 42-70 15-43 (246)
113 smart00474 35EXOc 3'-5' exonuc 86.7 7.5 0.00016 33.4 10.0 90 174-276 64-170 (172)
114 KOG4793 Three prime repair exo 83.1 1.6 3.4E-05 42.7 4.2 162 100-276 114-290 (318)
115 cd06148 Egl_like_exo DEDDy 3'- 80.7 21 0.00044 32.8 10.7 93 175-279 55-179 (197)
116 cd06129 RNaseD_like DEDDy 3'-5 78.8 6.9 0.00015 34.5 6.6 87 175-274 57-160 (161)
117 PRK10829 ribonuclease D; Provi 77.8 16 0.00034 37.4 9.7 90 176-278 65-171 (373)
118 PRK00912 ribonuclease P protei 76.7 1.8 4E-05 40.8 2.4 30 42-71 12-41 (237)
119 KOG0969 DNA polymerase delta, 76.1 2.4 5.1E-05 46.8 3.3 146 97-260 275-458 (1066)
120 TIGR00593 pola DNA polymerase 75.7 8.6 0.00019 43.6 7.8 95 170-276 363-476 (887)
121 TIGR01388 rnd ribonuclease D. 71.9 33 0.00071 34.8 10.3 89 176-277 61-166 (367)
122 cd06142 RNaseD_exo DEDDy 3'-5' 68.9 57 0.0012 28.4 10.0 92 173-278 52-161 (178)
123 COG0613 Predicted metal-depend 68.2 4 8.7E-05 39.4 2.6 31 43-73 14-44 (258)
124 COG1387 HIS2 Histidinol phosph 68.1 3.8 8.3E-05 39.0 2.4 31 43-73 13-43 (237)
125 PRK07945 hypothetical protein; 65.2 5 0.00011 40.2 2.7 32 38-71 105-136 (335)
126 PRK07328 histidinol-phosphatas 65.1 5 0.00011 38.6 2.6 30 42-71 14-43 (269)
127 PRK08392 hypothetical protein; 63.2 5.9 0.00013 36.8 2.6 29 43-71 11-39 (215)
128 TIGR01856 hisJ_fam histidinol 61.3 6.7 0.00015 37.4 2.7 29 43-71 12-40 (253)
129 cd06140 DNA_polA_I_Bacillus_li 59.0 73 0.0016 27.9 8.9 66 173-251 44-112 (178)
130 COG0749 PolA DNA polymerase I 51.0 1.5E+02 0.0032 32.4 10.9 90 173-276 66-179 (593)
131 cd09018 DEDDy_polA_RNaseD_like 50.6 1.5E+02 0.0032 24.8 9.4 63 177-251 45-109 (150)
132 PF01396 zf-C4_Topoisom: Topoi 47.6 15 0.00033 25.1 2.0 28 338-372 11-38 (39)
133 PRK08609 hypothetical protein; 38.7 23 0.00051 38.1 2.7 29 43-71 346-374 (570)
134 PHA02563 DNA polymerase; Provi 38.3 1.6E+02 0.0034 32.5 8.8 40 174-214 50-90 (630)
135 PRK08123 histidinol-phosphatas 35.7 29 0.00062 33.4 2.6 26 46-71 19-44 (270)
136 PRK06740 histidinol-phosphatas 35.5 26 0.00057 35.0 2.3 28 42-69 57-84 (331)
137 PF06373 CART: Cocaine and amp 35.5 12 0.00026 29.3 -0.1 36 323-368 34-69 (73)
138 PRK05588 histidinol-phosphatas 35.0 28 0.00062 33.0 2.4 28 43-71 13-40 (255)
139 PF11074 DUF2779: Domain of un 30.3 2.1E+02 0.0045 24.8 6.8 57 167-232 54-117 (130)
140 PF05325 DUF730: Protein of un 27.6 47 0.001 27.6 2.1 50 315-370 15-65 (122)
141 cd06147 Rrp6p_like_exo DEDDy 3 24.6 2.7E+02 0.0058 24.9 6.8 63 175-250 67-130 (192)
142 PF11079 YqhG: Bacterial prote 22.0 51 0.0011 32.2 1.5 71 99-184 124-195 (260)
143 PRK06319 DNA topoisomerase I/S 22.0 56 0.0012 37.1 2.1 35 327-371 698-732 (860)
144 TIGR01056 topB DNA topoisomera 21.6 55 0.0012 36.0 1.9 39 327-371 613-653 (660)
No 1
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=100.00 E-value=2.3e-50 Score=432.18 Aligned_cols=233 Identities=19% Similarity=0.207 Sum_probs=210.2
Q ss_pred cccCCCCCCChhhHHHHHHhcCCcceeecccC---------------CCCcccccccccccc---c--CCCCCCCCCCcc
Q 017267 38 ELKDDTIVHPGGDAGESIHQLSSEFVEYSNEF---------------YNNPTYQHDFGSWST---F--YPDSQKPQEFQY 97 (374)
Q Consensus 38 ~~~~~~~~~~~~~~~~~a~~~g~~a~aitd~~---------------~~k~~y~~e~~~~~~---~--~~~~~~~~~~~~ 97 (374)
..|.|||+.++++||++|++|||+|||||||| ++|+|||+|+|++++ + ++.+..+. ..+
T Consensus 344 kMS~mDai~sv~~~vk~A~kwghkaIAITDh~~VqafP~~y~~akK~giK~IyG~EanlvdD~vpiv~N~~d~~l~-dat 422 (1444)
T COG2176 344 KMSQMDAITSVEELVKQAKKWGHKAIAITDHGVVQAFPEAYKAAKKYGIKAIYGLEANLVDDGVPIVYNPDDQKLD-DAT 422 (1444)
T ss_pred chhhhcccCCHHHHHHHHHHcCCceEEEecCcchhhchHHHHhhhhcCceEEEeeeeeeccCCCceecCccccccc-ccc
Confidence 67999999999999999999999999999999 688999999999864 3 33333333 368
Q ss_pred EEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHH
Q 017267 98 FVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRH 177 (374)
Q Consensus 98 ~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ef 177 (374)
|||||+||||+ ++..++|||||||++ ++|+++|+|+.||+|.. | ||.++++|||||++||.+|+++++||++|
T Consensus 423 yVVfDiETTGL---s~~~d~iIE~aAvKi--kng~iId~f~~Fi~P~~-p-l~~~~telTgITdeml~~a~~i~~vL~kf 495 (1444)
T COG2176 423 YVVFDIETTGL---SPVYDEIIEIAAVKI--KNGRIIDKFQFFIKPGR-P-LSATITELTGITDEMLENAPEIEEVLEKF 495 (1444)
T ss_pred EEEEEeecCCc---Ccccchhhhheeeee--eCCcchHHHHHhcCCCC-c-CchhhhhccccCHHHHcCCccHHHHHHHH
Confidence 99999999996 789999999999999 79999999999999995 5 99999999999999999999999999999
Q ss_pred HHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHcCCCCCCCC
Q 017267 178 DKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMAGLAWQGRA 256 (374)
Q Consensus 178 ~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~-~~~~~L~~l~~~lgI~~~g~~ 256 (374)
.+|+++++ .|+||++||+ +||+..++++++. ++.+++|||+.+.+.+++ .++|+|+.+|++|++.++ +|
T Consensus 496 ~~~~~d~I------lVAHNasFD~-gFl~~~~~k~~~~--~~~~pvIDTL~lar~L~P~~ksh~Lg~l~kk~~v~le-~h 565 (1444)
T COG2176 496 REFIGDSI------LVAHNASFDM-GFLNTNYEKYGLE--PLTNPVIDTLELARALNPEFKSHRLGTLCKKLGVELE-RH 565 (1444)
T ss_pred HHHhcCcE------EEeccCccch-hHHHHHHHHhCCc--cccCchhhHHHHHHHhChhhhhcchHHHHHHhCccHH-Hh
Confidence 99999975 4677889998 9999999998876 367899999999999984 789999999999999995 89
Q ss_pred CcHHHHHHHHHHHHHHHHHccCcccccccccc
Q 017267 257 HCGLDDAKNTARLLALLMHRGFKFSITNSLMW 288 (374)
Q Consensus 257 HrALdDA~atA~l~~~ll~~g~~~~i~~~l~~ 288 (374)
|||.+||++||+||..|++...+.+|+.+...
T Consensus 566 HRA~yDaeat~~vf~~f~~~~ke~Gi~~l~el 597 (1444)
T COG2176 566 HRADYDAEATAKVFFVFLKDLKEKGITNLSEL 597 (1444)
T ss_pred hhhhhhHHHHHHHHHHHHHHHHHhchhhHHHH
Confidence 99999999999999999999888888876544
No 2
>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=100.00 E-value=1.4e-39 Score=362.50 Aligned_cols=230 Identities=20% Similarity=0.226 Sum_probs=200.1
Q ss_pred cccCCCCCCChhhHHHHHHhcCCcceeecccC---------------CCCccccccccccccc-----CCCCCCCCCCcc
Q 017267 38 ELKDDTIVHPGGDAGESIHQLSSEFVEYSNEF---------------YNNPTYQHDFGSWSTF-----YPDSQKPQEFQY 97 (374)
Q Consensus 38 ~~~~~~~~~~~~~~~~~a~~~g~~a~aitd~~---------------~~k~~y~~e~~~~~~~-----~~~~~~~~~~~~ 97 (374)
..|.+||+.+++++|++|++|||++||||||+ ++|+|||+|++.+.+. +..+..+-...+
T Consensus 112 ~~S~~Dg~~~~~elv~~A~~~Gl~aiAITDH~~~~~~~~~~~~~~~~~ikvI~GvE~~~~~d~~~~v~n~~~~~l~~~~~ 191 (1213)
T TIGR01405 112 KMSQMDAITSVQEYVKQAKKWGHKAIAITDHGVVQAFPEAYKAAKKDGIKIIYGMEANLVDDRVPIVYNPDDQKLLDDAT 191 (1213)
T ss_pred cCcccccCCCHHHHHHHHHHCCCCEEEEecCCCccCHHHHHHHHHhcCCEEEEEEEEEeecccchhhcCccccccccCCc
Confidence 56889999999999999999999999999999 5889999999987542 222223312358
Q ss_pred EEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHH
Q 017267 98 FVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRH 177 (374)
Q Consensus 98 ~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ef 177 (374)
|||||+||||+ ++..++|||||||+++ +|+++++|++||+|.. .|+++++++||||++||++++++++|+++|
T Consensus 192 ~VVfDiETTGL---~~~~d~IIEIGAVkv~--~g~iid~f~~~V~P~~--~I~~~~~~ltGIT~e~L~~ap~~~evl~~f 264 (1213)
T TIGR01405 192 YVVFDIETTGL---SPQYDEIIEFGAVKVK--NGRIIDKFQFFIKPHE--PLSAFVTELTGITQDMLENAPEIEEVLEKF 264 (1213)
T ss_pred EEEEEeEecCC---CCCCCeEEEEEEEEEE--CCeEEEEEEEEECCCC--CCCHHHHHHhCCCHHHHhCCCCHHHHHHHH
Confidence 99999999997 5678999999999995 7899999999999985 599999999999999999999999999999
Q ss_pred HHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhc-CCCCCCHHHHHHHcCCCCCCCC
Q 017267 178 DKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVF-GGVRCNLKEAVEMAGLAWQGRA 256 (374)
Q Consensus 178 ~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~-~~~~~~L~~l~~~lgI~~~g~~ 256 (374)
.+|+++. ++|+||+.||+ .||+.+++++|+.. +.++++||+.+++.++ +.++++|++++++||++.+ .+
T Consensus 265 ~~fl~~~------iLVaHNa~FD~-~fL~~~~~r~g~~~--~~~~~IDTl~lar~l~p~~k~~kL~~Lak~lgi~~~-~~ 334 (1213)
T TIGR01405 265 KEFFKDS------ILVAHNASFDI-GFLNTNFEKVGLEP--LENPVIDTLELARALNPEYKSHRLGNICKKLGVDLD-DH 334 (1213)
T ss_pred HHHhCCC------eEEEEChHHHH-HHHHHHHHHcCCCc--cCCCEeEHHHHHHHHhccCCCCCHHHHHHHcCCCCC-CC
Confidence 9999875 35778899997 89999999998853 4578999999998887 4578999999999999987 59
Q ss_pred CcHHHHHHHHHHHHHHHHHccCcccccc
Q 017267 257 HCGLDDAKNTARLLALLMHRGFKFSITN 284 (374)
Q Consensus 257 HrALdDA~atA~l~~~ll~~g~~~~i~~ 284 (374)
|||++||.+|++||.+|+++..+..+..
T Consensus 335 HrAl~DA~aTa~I~~~ll~~l~~~~i~~ 362 (1213)
T TIGR01405 335 HRADYDAEATAKVFKVMVEQLKEKGITN 362 (1213)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHcCCcc
Confidence 9999999999999999998876665544
No 3
>KOG0542 consensus Predicted exonuclease [Replication, recombination and repair]
Probab=100.00 E-value=4.5e-39 Score=300.08 Aligned_cols=195 Identities=41% Similarity=0.779 Sum_probs=179.1
Q ss_pred CCCCCccEEEEEEeeCCCCCCC-CCCCceEEEceEEEE-cCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCC
Q 017267 91 KPQEFQYFVVIDFEATCDKDKN-PYPQEIIEFPSVIVS-SVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGV 168 (374)
Q Consensus 91 ~~~~~~~~VVfDlETTGl~~~~-~~~deIIEIGAVkvd-~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap 168 (374)
..+.+++++++|||+||.++.. -+..||||++||.+| .++++|.++|+.||+|..+|.||++|++||||.|++|+.||
T Consensus 51 ~~q~fdYLliiDFEaTC~e~~~~~~~~EIIEfP~V~l~~~~~~~Ie~eF~qYVrP~~np~LS~fC~~lTgI~Q~tVD~a~ 130 (280)
T KOG0542|consen 51 LSQPFDYLLILDFEATCEEGNKPHYVQEIIEFPAVLLDNTETSIIEDEFHQYVRPVENPRLSDFCTSLTGIQQETVDEAP 130 (280)
T ss_pred ccCccceEEEEeeeeeccccCCCCcchheeecceeEeeccchhhHHHHHHhhcCcccCchHHHHHHHhhCchHhhhccCC
Confidence 3467899999999999998655 367999999999665 34566666999999999999999999999999999999999
Q ss_pred CHHHHHHHHHHHHhhcCCC--CccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC-CCCCHHHHH
Q 017267 169 TLSEALLRHDKWLENKGIK--NTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG-VRCNLKEAV 245 (374)
Q Consensus 169 ~~~eVl~ef~~fl~~~~l~--~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~-~~~~L~~l~ 245 (374)
+|.+|+.+|..|+....+. ++++++|+||+|||+.||+.+|++.+|..|.++++|||+++.|+..+.. .+.++..|+
T Consensus 131 ~f~~vl~~f~~Wlr~~~~~~k~~~~Afvtdg~wDl~~~l~~qck~~~i~~P~~f~qwInirk~yk~~y~~~~~t~it~mL 210 (280)
T KOG0542|consen 131 TFPQVLSEFDSWLRKDSLGDKNGKFAFVTDGDWDLWVFLQYQCKLKNIRIPAFFNQWINIRKIYKNFYNRPAPTNITGML 210 (280)
T ss_pred CHHHHHHHHHHHHHHhhcccccCceEEEeCchhhHHHHHHHHHHHhcCCCcHHHHHHhHHHHHHHHHhcCccccCHHHHH
Confidence 9999999999999987654 3789999999999999999999999999999999999999999999876 588999999
Q ss_pred HHcCCCCCCCCCcHHHHHHHHHHHHHHHHHccCccccccc
Q 017267 246 EMAGLAWQGRAHCGLDDAKNTARLLALLMHRGFKFSITNS 285 (374)
Q Consensus 246 ~~lgI~~~g~~HrALdDA~atA~l~~~ll~~g~~~~i~~~ 285 (374)
+++|++++|++|+++|||+++|+|..+|+++|.++.||++
T Consensus 211 e~~gL~f~Gr~HsGiDDa~Nia~I~~kM~~dg~~~~In~~ 250 (280)
T KOG0542|consen 211 EHYGLQFEGRAHSGIDDARNIARIAQKMIRDGAEFRINEL 250 (280)
T ss_pred HHhCCcccCCcccCchhHHHHHHHHHHHHhCCcEEEechh
Confidence 9999999999999999999999999999999999999964
No 4
>PRK07748 sporulation inhibitor KapD; Provisional
Probab=100.00 E-value=8.6e-38 Score=289.62 Aligned_cols=174 Identities=30% Similarity=0.509 Sum_probs=152.7
Q ss_pred ccEEEEEEeeCCCCC-CCC--CCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHH
Q 017267 96 QYFVVIDFEATCDKD-KNP--YPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSE 172 (374)
Q Consensus 96 ~~~VVfDlETTGl~~-~~~--~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~e 172 (374)
.+|||||+||||+++ .++ ..+||||||||+|+ +|+++++|++||||...+.|+++++++||||++||++||+|++
T Consensus 4 ~~~vvlD~EtTg~~~~~~~~~~~~eIIeIGaV~v~--~~~i~~~f~~lV~P~~~~~i~~~~~~ltGIt~~~l~~ap~~~e 81 (207)
T PRK07748 4 QQFLFLDFEFTMPQHKKKPKGFFPEIIEVGLVSVV--GCEVEDTFSSYVKPKTFPSLTERCKSFLGITQEDVDKGISFEE 81 (207)
T ss_pred ceEEEEEeecCCcCCCCCCCCCCCceEEEeEEEEe--cCcChhhhcceECCCccCccChhhhhhcCcCHHHHccCCCHHH
Confidence 469999999999864 233 25899999999995 7789999999999986556999999999999999999999999
Q ss_pred HHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC-CCCCHHHHHHHcCCC
Q 017267 173 ALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG-VRCNLKEAVEMAGLA 251 (374)
Q Consensus 173 Vl~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~-~~~~L~~l~~~lgI~ 251 (374)
|+++|.+|+++. +.+++||++||+ .||+++|+++|++.| +.+.|+|+..+++.+++. ..++|++++++|||+
T Consensus 82 vl~~f~~~~~~~-----~~~iv~~~~fD~-~fL~~~~~~~~~~~~-~~~~~~dl~~~~~~~~~~~~~~~L~~~~~~~gi~ 154 (207)
T PRK07748 82 LVEKLAEYDKRC-----KPTIVTWGNMDM-KVLKHNCEKAGVPFP-FKGQCRDLSLEYKKFFGERNQTGLWKAIEEYGKE 154 (207)
T ss_pred HHHHHHHHhCcC-----CeEEEEECHHHH-HHHHHHHHHcCCCCc-ccccceeHHHHHHHHhCcCCCCCHHHHHHHcCCC
Confidence 999999999863 246889999997 899999999999876 347899999888877763 468999999999999
Q ss_pred CCCCCCcHHHHHHHHHHHHHHHHHccC
Q 017267 252 WQGRAHCGLDDAKNTARLLALLMHRGF 278 (374)
Q Consensus 252 ~~g~~HrALdDA~atA~l~~~ll~~g~ 278 (374)
..+++|||++||++||+||.+|++++.
T Consensus 155 ~~~~~H~Al~DA~~ta~l~~~l~~~~~ 181 (207)
T PRK07748 155 GTGKHHCALDDAMTTYNIFKLVEKDKE 181 (207)
T ss_pred CCCCCcChHHHHHHHHHHHHHHHhCcc
Confidence 877899999999999999999998864
No 5
>PTZ00315 2'-phosphotransferase; Provisional
Probab=100.00 E-value=6.6e-37 Score=317.31 Aligned_cols=200 Identities=38% Similarity=0.603 Sum_probs=167.9
Q ss_pred CCCCCCccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCC
Q 017267 90 QKPQEFQYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVT 169 (374)
Q Consensus 90 ~~~~~~~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~ 169 (374)
...|.++.||||||||||++......+||||||||+||.++|+|+++|++||||..+|.|+++|++|||||++||++||+
T Consensus 50 ~~~q~~d~~IV~DlETTgl~~~~~~~dEIIEIGaV~Vd~~ng~Ii~~F~~yVkP~~~p~Ls~fct~LTGITqe~V~~Ap~ 129 (582)
T PTZ00315 50 IAPQPFDAYVVLDFEATCEADRRIEDAEVIEFPMVLVDARTATPVAEFQRYVRPVKNPVLSRFCTELTGITQSMVSRADP 129 (582)
T ss_pred cccCCCCeEEEEEEecCCCCCCCCCCCceEEEEEEEEEccCCEEEEEEEEEECCCCCCCCChhHhhhcCcCHHHHhcCCC
Confidence 34556789999999999975322346899999999998779999999999999987777999999999999999999999
Q ss_pred HHHHHHHHHHHHhhcCCC----CccEEEEEcCcchHHHHHHHHHHHcC-CCCCCCCCceeehHHHHHH-hcC--------
Q 017267 170 LSEALLRHDKWLENKGIK----NTNFAVVTWSNWDCRVMLESECRFKK-IWKPPYFNRWINLKVPFHE-VFG-------- 235 (374)
Q Consensus 170 ~~eVl~ef~~fl~~~~l~----~~n~~vv~~g~fDl~~fL~~~~~~~g-i~~P~~~~~~iDt~~l~~~-~~~-------- 235 (374)
|.+|+++|.+|+++..+. .++++|+||++||+..||..+|+..+ ...|..+..|+|++..+.. +++
T Consensus 130 F~eVl~ef~~fL~~~~~~e~~~~~~~~vah~g~fDl~~fL~~e~~~~~~~g~p~~f~~widLk~~lar~l~p~~~~~~~~ 209 (582)
T PTZ00315 130 FPVVYCEALQFLAEAGLGDAPPLRSYCVVTCGDWDLKTMLPSQMRVSGQQGTPLSFQRWCNLKKYMSQLGFGNGSGCGGG 209 (582)
T ss_pred HHHHHHHHHHHHhccccccccccCceEEEeccHHHHHHHHHHHHHHhhhcCCCcccceEEEhHHHHHHHhCccccccccc
Confidence 999999999999986432 24678999999998679999998532 1334346789998655543 343
Q ss_pred ----CCCCCHHHHHHHcCCCCCCCCCcHHHHHHHHHHHHHHHHHccCccccccccccc
Q 017267 236 ----GVRCNLKEAVEMAGLAWQGRAHCGLDDAKNTARLLALLMHRGFKFSITNSLMWQ 289 (374)
Q Consensus 236 ----~~~~~L~~l~~~lgI~~~g~~HrALdDA~atA~l~~~ll~~g~~~~i~~~l~~~ 289 (374)
.++++|.+|++.+||+++|++|||++||++||+||.+|+++|+.+.+|..+.-.
T Consensus 210 ~~~~~~~~~L~~al~~lgL~~eGr~HrAlDDA~ntA~L~~~Ll~~g~~~~~t~~~~~~ 267 (582)
T PTZ00315 210 ATPPLGPSDMPDMLQMLGLPLQGRHHSGIDDCRNIAAVLCELLRRGLVIDPTFDTAPF 267 (582)
T ss_pred cccccCCcCHHHHHHHCCCCCCCCCcCcHHHHHHHHHHHHHHHHcCCEEEecCCCChh
Confidence 245899999999999999999999999999999999999999999999866543
No 6
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=100.00 E-value=6e-37 Score=345.25 Aligned_cols=228 Identities=18% Similarity=0.163 Sum_probs=198.4
Q ss_pred cccCCCCCCChhhHHHHHHhcCCcceeecccC---------------CCCccccccccccccc-----CCCCCCCCCCcc
Q 017267 38 ELKDDTIVHPGGDAGESIHQLSSEFVEYSNEF---------------YNNPTYQHDFGSWSTF-----YPDSQKPQEFQY 97 (374)
Q Consensus 38 ~~~~~~~~~~~~~~~~~a~~~g~~a~aitd~~---------------~~k~~y~~e~~~~~~~-----~~~~~~~~~~~~ 97 (374)
..|.|||+.+++++|++|++|||+|||||||+ ++|+|||+|++.+.+- +.+...+. ...
T Consensus 342 ~~S~~Dg~~~~~elv~~A~~~G~~aIAITDH~~v~~~p~a~~~~k~~gikvI~GvE~~~~~~~~~iv~~~~~~~L~-~~~ 420 (1437)
T PRK00448 342 KMSTMDAIPSVSELVKRAAKWGHKAIAITDHGVVQAFPEAYNAAKKAGIKVIYGVEANLVDDGVPIVYNEVDRDLK-DAT 420 (1437)
T ss_pred cCcccccCCCHHHHHHHHHHCCCCEEEEecCCCCcCHHHHHHHHHhcCCceEeeeeEEEeccceeEEecCCchhhc-cCc
Confidence 57899999999999999999999999999999 6889999999986432 22222222 257
Q ss_pred EEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHH
Q 017267 98 FVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRH 177 (374)
Q Consensus 98 ~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ef 177 (374)
|||||+||||+ ++..++|||||||+++ +|+++++|++||+|.. .++++++++||||++||.+++++.+|+++|
T Consensus 421 ~VVfDLETTGL---~~~~deIIEIgAV~V~--~G~iie~F~~~V~P~~--~I~~~~~~LTGIT~e~L~~aps~~EaL~~f 493 (1437)
T PRK00448 421 YVVFDVETTGL---SAVYDEIIEIGAVKIK--NGEIIDKFEFFIKPGH--PLSAFTTELTGITDDMVKDAPSIEEVLPKF 493 (1437)
T ss_pred EEEEEhhhcCC---CCchhhhheeeeEEEe--CCeEeeeEEEEECCCC--CCCHHHHHHhCCCHHHHcCCCCHHHHHHHH
Confidence 99999999997 5678999999999995 8999999999999985 599999999999999999999999999999
Q ss_pred HHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHcCCCCCCCC
Q 017267 178 DKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMAGLAWQGRA 256 (374)
Q Consensus 178 ~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~-~~~~~L~~l~~~lgI~~~g~~ 256 (374)
.+|+++. ++|+||+.||+ .||+.++++.|++. +.+.++|+..+++.+++ .++++|++++++||++.. .+
T Consensus 494 ~~figg~------vLVAHNa~FD~-~fL~~~l~rlgl~~--l~~~~IDTLelar~l~p~~k~~kL~~LAk~lGL~~~-~~ 563 (1437)
T PRK00448 494 KEFCGDS------ILVAHNASFDV-GFINTNYEKLGLEK--IKNPVIDTLELSRFLYPELKSHRLNTLAKKFGVELE-HH 563 (1437)
T ss_pred HHHhCCC------EEEEeCccccH-HHHHHHHHHcCCcc--ccccceeHHHHHHHHcCccccccHHHHHHHcCCCCC-CC
Confidence 9999875 46788899997 89999999998864 35689999999888774 568999999999999986 58
Q ss_pred CcHHHHHHHHHHHHHHHHHccCccccc
Q 017267 257 HCGLDDAKNTARLLALLMHRGFKFSIT 283 (374)
Q Consensus 257 HrALdDA~atA~l~~~ll~~g~~~~i~ 283 (374)
|||++||.+||+||.+|+++..+..+.
T Consensus 564 HrAl~DA~aTa~lf~~ll~~l~~~gi~ 590 (1437)
T PRK00448 564 HRADYDAEATAYLLIKFLKDLKEKGIT 590 (1437)
T ss_pred cChHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 999999999999999999887655444
No 7
>PRK06722 exonuclease; Provisional
Probab=100.00 E-value=2.9e-35 Score=284.25 Aligned_cols=171 Identities=26% Similarity=0.400 Sum_probs=146.0
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 175 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ 175 (374)
..|||||+||||.+..+...++|||||||+|+..+++++++|++||||.. .|++++++|||||++||++||+|++|+.
T Consensus 5 ~~~vViD~ETT~~p~~~~~~deIIEIGAVkV~~g~i~Ivd~F~sLV~P~~--~I~~~i~~LTGIT~emV~~AP~f~eVl~ 82 (281)
T PRK06722 5 THFIVFDIERNFRPYKSEDPSEIVDIGAVKIEASTMKVIGEFSELVKPGA--RLTRHTTKLTGITKKDLIGVEKFPQIIE 82 (281)
T ss_pred CEEEEEEeeCCCCCCCCCCCCeEEEEEEEEEECCceeEEeeEEEEECCCC--cCCHhHhhhcCCCHHHHcCCCCHHHHHH
Confidence 68999999999754323456899999999996323488999999999985 5999999999999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCC-CceeehHHHHHHhcCC---CCCCHHHHHHHcCCC
Q 017267 176 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYF-NRWINLKVPFHEVFGG---VRCNLKEAVEMAGLA 251 (374)
Q Consensus 176 ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~-~~~iDt~~l~~~~~~~---~~~~L~~l~~~lgI~ 251 (374)
+|.+|+++. .+|+||+.||+ .||..+|+++|++.|.+. ..|+|+..++...++. ..++|++++++|||+
T Consensus 83 ef~~fig~~------~lvahna~FD~-~FL~~~l~~~gi~~p~~~~~~~idl~~la~~~~~~l~~~~~sL~~l~~~lgL~ 155 (281)
T PRK06722 83 KFIQFIGED------SIFVTWGKEDY-RFLSHDCTLHSVECPCMEKERRIDLQKFVFQAYEELFEHTPSLQSAVEQLGLI 155 (281)
T ss_pred HHHHHHCCC------cEEEEEeHHHH-HHHHHHHHHcCCCCCcccccchhHHHHHHHHHhhhhccCCCCHHHHHHHCCCC
Confidence 999999864 36889999996 899999999999876432 4579998776544421 347899999999999
Q ss_pred CCCCCCcHHHHHHHHHHHHHHHHH
Q 017267 252 WQGRAHCGLDDAKNTARLLALLMH 275 (374)
Q Consensus 252 ~~g~~HrALdDA~atA~l~~~ll~ 275 (374)
+.|++|||++||++||+||.+|++
T Consensus 156 ~~g~~HrAL~DA~~TA~L~l~l~~ 179 (281)
T PRK06722 156 WEGKQHRALADAENTANILLKAYS 179 (281)
T ss_pred CCCCCcCcHHHHHHHHHHHHHHhc
Confidence 888899999999999999999984
No 8
>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=100.00 E-value=8.2e-34 Score=253.10 Aligned_cols=172 Identities=44% Similarity=0.785 Sum_probs=147.4
Q ss_pred EEEEEEeeCCCCCCC--CCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 017267 98 FVVIDFEATCDKDKN--PYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 175 (374)
Q Consensus 98 ~VVfDlETTGl~~~~--~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ 175 (374)
|||||+||||++..+ ...++|||||||+++..+++++++|++||||...+.++++++++||||+++|++++++++|+.
T Consensus 1 ~vv~D~Ettg~~~~~~~~~~~~IieIgav~v~~~~~~~~~~f~~~i~P~~~~~i~~~~~~i~gIt~e~l~~~~~~~~vl~ 80 (176)
T cd06133 1 YLVIDFEATCWEGNSKPDYPNEIIEIGAVLVDVKTKEIIDTFSSYVKPVINPKLSDFCTELTGITQEDVDNAPSFPEVLK 80 (176)
T ss_pred CEEEEeeccccCCCCCCCCCcceEEEEEEEEEcCCCeEEeeeeeeECCCcCCchhHHHHHhcCcCHHHHhcCCCHHHHHH
Confidence 799999999985321 235899999999998655568999999999996446999999999999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCC-CCCCCCceeehHHHHHHhcCC-CCCCHHHHHHHcCCCCC
Q 017267 176 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIW-KPPYFNRWINLKVPFHEVFGG-VRCNLKEAVEMAGLAWQ 253 (374)
Q Consensus 176 ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~-~P~~~~~~iDt~~l~~~~~~~-~~~~L~~l~~~lgI~~~ 253 (374)
+|.+|+++.. +..++||+.||. .+|..++.+.+.. .|++..+|+|++.+++..++. +.++|++++++||++..
T Consensus 81 ~~~~~l~~~~----~~~~v~~~~~d~-~~l~~~~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~~~~L~~l~~~~gi~~~ 155 (176)
T cd06133 81 EFLEWLGKNG----KYAFVTWGDWDL-KDLLQNQCKYKIINLPPFFRQWIDLKKEFAKFYGLKKRTGLSKALEYLGLEFE 155 (176)
T ss_pred HHHHHHHhCC----CeEEEeecHhhH-HHHHHHHHHhcCCCCcccccceEEHHHHHHHHhCCCCCCCHHHHHHHCCCCCC
Confidence 9999999852 247899999996 6777777776654 345678999999999988875 48999999999999987
Q ss_pred CCCCcHHHHHHHHHHHHHHHH
Q 017267 254 GRAHCGLDDAKNTARLLALLM 274 (374)
Q Consensus 254 g~~HrALdDA~atA~l~~~ll 274 (374)
+++|+||+||++||+||.+|+
T Consensus 156 ~~~H~Al~DA~~~a~l~~~~~ 176 (176)
T cd06133 156 GRHHRGLDDARNIARILKRLL 176 (176)
T ss_pred CCCcCcHHHHHHHHHHHHHhC
Confidence 789999999999999999874
No 9
>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=100.00 E-value=5e-33 Score=261.43 Aligned_cols=168 Identities=20% Similarity=0.150 Sum_probs=144.3
Q ss_pred cEEEEEEeeCCCCCCCCC-CCceEEEceEEEEcCCCe-EEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHH
Q 017267 97 YFVVIDFEATCDKDKNPY-PQEIIEFPSVIVSSVTGQ-LEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEAL 174 (374)
Q Consensus 97 ~~VVfDlETTGl~~~~~~-~deIIEIGAVkvd~~~G~-iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl 174 (374)
.+||||+||||+ ++. .++|||||||+++ ++. ..++|++||+|.. .++++++++||||++||+++|+|++|+
T Consensus 1 r~vvlD~ETTGl---~p~~~d~IIEIgav~~~--~~~~~~~~f~~~i~P~~--~i~~~a~~vhGIt~e~l~~~p~f~ev~ 73 (225)
T TIGR01406 1 RQIILDTETTGL---DPKGGHRIVEIGAVELV--NRMLTGDNFHVYVNPER--DMPAEAAKVHGITDEFLADKPKFKEIA 73 (225)
T ss_pred CEEEEEeeCCCc---CCCCCCeEEEEEEEEEE--CCcEecceEEEEECcCC--CCCHHHHhccCCCHHHHhCCCCHHHHH
Confidence 489999999997 444 4899999999985 443 4589999999986 599999999999999999999999999
Q ss_pred HHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCC--CCCceeehHHHHHHhcCCCCCCHHHHHHHcCCCC
Q 017267 175 LRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPP--YFNRWINLKVPFHEVFGGVRCNLKEAVEMAGLAW 252 (374)
Q Consensus 175 ~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~--~~~~~iDt~~l~~~~~~~~~~~L~~l~~~lgI~~ 252 (374)
.+|.+|+++.. +|+||+.||+ .||+.+++++|...+. ..++|+||..+++..++..+++|+.++++|||+.
T Consensus 74 ~~f~~fi~~~~------lVaHNa~FD~-~fL~~el~r~g~~~~~~~~~~~~iDTl~lar~~~p~~~~~L~~L~~~~gi~~ 146 (225)
T TIGR01406 74 DEFLDFIGGSE------LVIHNAAFDV-GFLNYELERLGPTIKKIGEFCRVIDTLAMARERFPGQRNSLDALCKRFKVDN 146 (225)
T ss_pred HHHHHHhCCCE------EEEEecHHHH-HHHHHHHHHhCCCCcccccCCCEEEHHHHHHHHcCCCCCCHHHHHHhcCCCC
Confidence 99999998864 5778999997 8999999999843322 2368999999999888777899999999999997
Q ss_pred CCC-CCcHHHHHHHHHHHHHHHHHccC
Q 017267 253 QGR-AHCGLDDAKNTARLLALLMHRGF 278 (374)
Q Consensus 253 ~g~-~HrALdDA~atA~l~~~ll~~g~ 278 (374)
.++ +|+|++||++||+||.+|.....
T Consensus 147 ~~r~~H~Al~DA~~~a~v~~~l~~~~~ 173 (225)
T TIGR01406 147 SHRTLHGALLDAHLLAEVYLALTGGQE 173 (225)
T ss_pred CCCCCcCHHHHHHHHHHHHHHHHcCCc
Confidence 643 69999999999999999976543
No 10
>PRK05711 DNA polymerase III subunit epsilon; Provisional
Probab=100.00 E-value=8.1e-33 Score=262.35 Aligned_cols=172 Identities=19% Similarity=0.204 Sum_probs=148.1
Q ss_pred ccEEEEEEeeCCCCCCCCC-CCceEEEceEEEEcCCCeE-EEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPY-PQEIIEFPSVIVSSVTGQL-EACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEA 173 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~-~deIIEIGAVkvd~~~G~i-idsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eV 173 (374)
..|||||+||||+ ++. .++|||||||+++ ++.+ .++|++||+|.. .++++++++||||++||.++|+|++|
T Consensus 4 ~r~vvlDtETTGl---dp~~~drIIEIGaV~v~--~~~~~~~~f~~~i~P~~--~i~~~a~~VHGIT~e~l~~~p~f~ev 76 (240)
T PRK05711 4 MRQIVLDTETTGL---NQREGHRIIEIGAVELI--NRRLTGRNFHVYIKPDR--LVDPEALAVHGITDEFLADKPTFAEV 76 (240)
T ss_pred CeEEEEEeeCCCc---CCCCCCeEEEEEEEEEE--CCEEeccEEEEEECcCC--cCCHHHhhhcCCCHHHHcCCCCHHHH
Confidence 4699999999997 444 7899999999995 5555 468999999986 59999999999999999999999999
Q ss_pred HHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCC--CCceeehHHHHHHhcCCCCCCHHHHHHHcCCC
Q 017267 174 LLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPY--FNRWINLKVPFHEVFGGVRCNLKEAVEMAGLA 251 (374)
Q Consensus 174 l~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~--~~~~iDt~~l~~~~~~~~~~~L~~l~~~lgI~ 251 (374)
+.+|.+|+++.. .|+||+.||+ .||+.++++.|..+|.+ ..+++||..+++.+++..+++|+.+|++|||+
T Consensus 77 ~~~f~~fi~~~~------lVaHNa~FD~-~fL~~el~r~g~~~~~~~~~~~~iDTl~lar~~~p~~~~~L~aL~~~~gi~ 149 (240)
T PRK05711 77 ADEFLDFIRGAE------LIIHNAPFDI-GFMDYEFALLGRDIPKTNTFCKVTDTLAMARRMFPGKRNSLDALCKRYGID 149 (240)
T ss_pred HHHHHHHhCCCE------EEEEccHHhH-HHHHHHHHHhCCCCCcccccCceeeHHHHHHHHcCCCCCCHHHHHHHCCCC
Confidence 999999998864 4788999997 89999999998666543 35799999999988877778999999999998
Q ss_pred CCCC-CCcHHHHHHHHHHHHHHHHHccCccc
Q 017267 252 WQGR-AHCGLDDAKNTARLLALLMHRGFKFS 281 (374)
Q Consensus 252 ~~g~-~HrALdDA~atA~l~~~ll~~g~~~~ 281 (374)
..++ .|+||.||++||+||.+|+.....+.
T Consensus 150 ~~~r~~H~AL~DA~~~A~v~~~l~~~~~~l~ 180 (240)
T PRK05711 150 NSHRTLHGALLDAEILAEVYLAMTGGQTSLG 180 (240)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHCcccccc
Confidence 7543 59999999999999999986644443
No 11
>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=100.00 E-value=2.2e-32 Score=243.34 Aligned_cols=162 Identities=21% Similarity=0.219 Sum_probs=140.7
Q ss_pred EEEEEEeeCCCCCCCC-CCCceEEEceEEEEcCCCeE-EEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 017267 98 FVVIDFEATCDKDKNP-YPQEIIEFPSVIVSSVTGQL-EACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 175 (374)
Q Consensus 98 ~VVfDlETTGl~~~~~-~~deIIEIGAVkvd~~~G~i-idsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ 175 (374)
||+||+||||+ ++ ..++|||||||+++ ++.+ .++|+++|+|.. .++++++++||||++||++++++.+|+.
T Consensus 1 ~v~~D~ETTGl---~~~~~~~iieig~v~v~--~~~~~~~~~~~~v~P~~--~i~~~~~~ihGIt~e~l~~~~~~~~v~~ 73 (167)
T cd06131 1 QIVLDTETTGL---DPREGHRIIEIGCVELI--NRRLTGNTFHVYINPER--DIPEEAFKVHGITDEFLADKPKFAEIAD 73 (167)
T ss_pred CEEEEeeCCCC---CCCCCCeEEEEEEEEEE--CCcEeccEEEEEECCCC--CCCHHHHHHhCCCHHHHhcCCCHHHHHH
Confidence 69999999997 44 56899999999996 4554 469999999986 4999999999999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCC-CCCceeehHHHHHHhcCCCCCCHHHHHHHcCCCCCC
Q 017267 176 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPP-YFNRWINLKVPFHEVFGGVRCNLKEAVEMAGLAWQG 254 (374)
Q Consensus 176 ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~-~~~~~iDt~~l~~~~~~~~~~~L~~l~~~lgI~~~g 254 (374)
+|.+|+++.. +|+||++||+ .||+++++++|+..+. ....|+||..+++.+++..+++|++++++||++.++
T Consensus 74 ~l~~~l~~~~------lv~hn~~fD~-~~l~~~~~~~~~~~~~~~~~~~idt~~~~~~~~~~~~~~L~~l~~~~~i~~~~ 146 (167)
T cd06131 74 EFLDFIRGAE------LVIHNASFDV-GFLNAELSLLGLGKKIIDFCRVIDTLALARKKFPGKPNSLDALCKRFGIDNSH 146 (167)
T ss_pred HHHHHHCCCe------EEEeChHHhH-HHHHHHHHHhCCCcccccCCCceEhHHHHHHHcCCCCCCHHHHHHHCCCCCCC
Confidence 9999998753 5788999996 8999999998876442 336899999988888765678999999999999764
Q ss_pred -CCCcHHHHHHHHHHHHHHH
Q 017267 255 -RAHCGLDDAKNTARLLALL 273 (374)
Q Consensus 255 -~~HrALdDA~atA~l~~~l 273 (374)
++|+|++||++||+||.+|
T Consensus 147 ~~~H~Al~Da~~~a~l~~~l 166 (167)
T cd06131 147 RTLHGALLDAELLAEVYLEL 166 (167)
T ss_pred CCCCChHHHHHHHHHHHHHh
Confidence 4799999999999999876
No 12
>smart00479 EXOIII exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other exonucleases.
Probab=100.00 E-value=3.9e-32 Score=239.79 Aligned_cols=167 Identities=34% Similarity=0.439 Sum_probs=147.6
Q ss_pred cEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHH
Q 017267 97 YFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLR 176 (374)
Q Consensus 97 ~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~e 176 (374)
.||+||+||||+ ++..++|||||||+++ +++++++|+++|+|.. .++++++++||||+++|.+++++.+|+.+
T Consensus 1 ~~v~~D~Ettg~---~~~~~~Iieig~v~~~--~~~~~~~f~~~v~p~~--~i~~~~~~~~Git~~~l~~~~~~~~~~~~ 73 (169)
T smart00479 1 TLVVIDCETTGL---DPGKDEIIEIAAVDVD--GGRIIVVFDTYVKPDR--PITDYATEIHGITPEMLDDAPTFEEVLEE 73 (169)
T ss_pred CEEEEEeeCCCC---CCCCCeEEEEEEEEEE--CCEeEEEEEEEECCCC--CCCHHHHHHhCCCHHHHhCCCCHHHHHHH
Confidence 489999999997 4557899999999997 4568899999999963 69999999999999999999999999999
Q ss_pred HHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCHHHHHHHcCCCCCCC
Q 017267 177 HDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAVEMAGLAWQGR 255 (374)
Q Consensus 177 f~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~~~~~L~~l~~~lgI~~~g~ 255 (374)
|.+|+++. .+|+||+ .||+ .||+.++.+.|+..|. ..+|+|+..+++..++..+++|++++++||++..++
T Consensus 74 ~~~~l~~~------~~v~~n~~~fD~-~~L~~~~~~~~~~~~~-~~~~iD~~~~~~~~~~~~~~~L~~l~~~~~~~~~~~ 145 (169)
T smart00479 74 LLEFLKGK------ILVAGNALNFDL-RFLKLEHPRLGIKDPP-KNPVIDTLKLARALNPGRKYSLKKLAERLGLEVIGR 145 (169)
T ss_pred HHHHhcCC------EEEEeCCHHHhH-HHHHHHHHHhCCCCCc-CCCeeEHHHHHHHHCCCCCCCHHHHHHHCCCCCCCC
Confidence 99999875 3578888 9997 8999999999988763 357999999988877656899999999999998765
Q ss_pred CCcHHHHHHHHHHHHHHHHHccC
Q 017267 256 AHCGLDDAKNTARLLALLMHRGF 278 (374)
Q Consensus 256 ~HrALdDA~atA~l~~~ll~~g~ 278 (374)
+|+|++||++|++||.+|++++.
T Consensus 146 ~H~A~~Da~~t~~l~~~~~~~~~ 168 (169)
T smart00479 146 AHRALDDARATAKLFKKLVERLL 168 (169)
T ss_pred CcCcHHHHHHHHHHHHHHHHHhh
Confidence 69999999999999999987653
No 13
>PRK06195 DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=6.7e-32 Score=264.70 Aligned_cols=164 Identities=16% Similarity=0.232 Sum_probs=146.3
Q ss_pred cEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHH
Q 017267 97 YFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLR 176 (374)
Q Consensus 97 ~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~e 176 (374)
.|||||+||||. ..++|||||||+++ +|+++++|++||||.. ..+++++++|||||++||+++|+|.+|+++
T Consensus 2 ~~vviD~ETTg~-----~~d~IieIgav~v~--~g~i~~~f~~lv~P~~-~~~~~~~~~IhGIT~e~v~~ap~f~ev~~~ 73 (309)
T PRK06195 2 NFVAIDFETANE-----KRNSPCSIGIVVVK--DGEIVEKVHYLIKPKE-MRFMPINIGIHGIRPHMVEDELEFDKIWEK 73 (309)
T ss_pred cEEEEEEeCCCC-----CCCceEEEEEEEEE--CCEEEEEEEEEECCCC-CCCChhheeccCcCHHHHhCCCCHHHHHHH
Confidence 599999999974 46899999999995 8999999999999985 347889999999999999999999999999
Q ss_pred HHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHcCCCCCCC
Q 017267 177 HDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMAGLAWQGR 255 (374)
Q Consensus 177 f~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~-~~~~~L~~l~~~lgI~~~g~ 255 (374)
|.+|+++. .+|+||+.||+ .||+++++++++..| .+.|+||..+++.+++ .++++|.+++++||+++ +
T Consensus 74 ~~~fl~~~------~lVaHNa~FD~-~fL~~~~~r~~~~~~--~~~~idT~~lar~l~~~~~~~~L~~L~~~~gi~~--~ 142 (309)
T PRK06195 74 IKHYFNNN------LVIAHNASFDI-SVLRKTLELYNIPMP--SFEYICTMKLAKNFYSNIDNARLNTVNNFLGYEF--K 142 (309)
T ss_pred HHHHhCCC------EEEEECcHHHH-HHHHHHHHHhCCCCC--CCCEEEHHHHHHHHcCCCCcCCHHHHHHHcCCCC--c
Confidence 99999874 46889999997 899999999998876 3589999999998885 46899999999999985 5
Q ss_pred CCcHHHHHHHHHHHHHHHHHccCc
Q 017267 256 AHCGLDDAKNTARLLALLMHRGFK 279 (374)
Q Consensus 256 ~HrALdDA~atA~l~~~ll~~g~~ 279 (374)
+|+|++||++||+||.+|+++...
T Consensus 143 ~H~Al~DA~ata~l~~~l~~~~~~ 166 (309)
T PRK06195 143 HHDALADAMACSNILLNISKELNS 166 (309)
T ss_pred ccCCHHHHHHHHHHHHHHHHHhcc
Confidence 899999999999999999987543
No 14
>PRK06807 DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=5.9e-32 Score=265.45 Aligned_cols=166 Identities=25% Similarity=0.311 Sum_probs=149.6
Q ss_pred CCccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHH
Q 017267 94 EFQYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEA 173 (374)
Q Consensus 94 ~~~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eV 173 (374)
..+.|||||+||||+ ++..++|||||||+++ +|+++++|+++|+|.. .++++++++||||++||.++++|.+|
T Consensus 6 ~~~~~Vv~DlETTGl---~p~~~eIIEIgaV~v~--~g~i~~~f~~lVkP~~--~I~~~a~~ihGIT~e~l~~~~~~~ev 78 (313)
T PRK06807 6 LPLDYVVIDFETTGF---NPYNDKIIQVAAVKYR--NHELVDQFVSYVNPER--PIPDRITSLTGITNYRVSDAPTIEEV 78 (313)
T ss_pred CCCCEEEEEEECCCC---CCCCCeEEEEEEEEEE--CCEEEEEEEEEECcCC--CCCHhhhccCCCCHHHHhCCCCHHHH
Confidence 456899999999997 5678999999999996 7899999999999996 49999999999999999999999999
Q ss_pred HHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHcCCCC
Q 017267 174 LLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMAGLAW 252 (374)
Q Consensus 174 l~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~-~~~~~L~~l~~~lgI~~ 252 (374)
+++|.+|+++. .+|+||+.||+ .||.++|.++|+..| .+++|||..+++.+++ .+.++|++++++|||+.
T Consensus 79 l~~f~~fl~~~------~lVaHNa~FD~-~fL~~~~~~~gl~~~--~~~~iDtl~la~~~~~~~~~~kL~~L~~~lgi~~ 149 (313)
T PRK06807 79 LPLFLAFLHTN------VIVAHNASFDM-RFLKSNVNMLGLPEP--KNKVIDTVFLAKKYMKHAPNHKLETLKRMLGIRL 149 (313)
T ss_pred HHHHHHHHcCC------eEEEEcHHHHH-HHHHHHHHHcCCCCC--CCCEeeHHHHHHHHhCCCCCCCHHHHHHHcCCCC
Confidence 99999999875 36889999997 899999999998765 4579999999888775 46789999999999997
Q ss_pred CCCCCcHHHHHHHHHHHHHHHHHcc
Q 017267 253 QGRAHCGLDDAKNTARLLALLMHRG 277 (374)
Q Consensus 253 ~g~~HrALdDA~atA~l~~~ll~~g 277 (374)
++|||++||++|++||.+++...
T Consensus 150 --~~H~Al~DA~~ta~l~~~l~~~~ 172 (313)
T PRK06807 150 --SSHNAFDDCITCAAVYQKCASIE 172 (313)
T ss_pred --CCcChHHHHHHHHHHHHHHHHhh
Confidence 68999999999999999998755
No 15
>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=100.00 E-value=1.6e-31 Score=234.26 Aligned_cols=154 Identities=23% Similarity=0.286 Sum_probs=138.6
Q ss_pred EEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHH
Q 017267 98 FVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRH 177 (374)
Q Consensus 98 ~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ef 177 (374)
||+||+||||. ..++|||||||+++ +|+++++|+.+|+|.. .++++++++||||+++|.+++++.+|+.+|
T Consensus 1 ~v~~D~Ettg~-----~~~~ii~ig~v~~~--~~~~~~~~~~~i~p~~--~~~~~~~~i~GIt~e~l~~~~~~~~v~~~l 71 (156)
T cd06130 1 FVAIDFETANA-----DRASACSIGLVKVR--DGQIVDTFYTLIRPPT--RFDPFNIAIHGITPEDVADAPTFPEVWPEI 71 (156)
T ss_pred CEEEEEeCCCC-----CCCceEEEEEEEEE--CCEEEEEEEEEeCcCC--CCChhhccccCcCHHHHhcCCCHHHHHHHH
Confidence 69999999984 36899999999996 7899999999999996 599999999999999999999999999999
Q ss_pred HHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHcCCCCCCCC
Q 017267 178 DKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMAGLAWQGRA 256 (374)
Q Consensus 178 ~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~-~~~~~L~~l~~~lgI~~~g~~ 256 (374)
.+|+++. .+|+||++||+ .||+++++++|+..| ...++|+..+++..++ .++++|..++++||++.. +
T Consensus 72 ~~~l~~~------~lv~hn~~fD~-~~l~~~~~~~g~~~~--~~~~idt~~~~~~~~~~~~~~~L~~l~~~~g~~~~--~ 140 (156)
T cd06130 72 KPFLGGS------LVVAHNASFDR-SVLRAALEAYGLPPP--PYQYLCTVRLARRVWPLLPNHKLNTVAEHLGIELN--H 140 (156)
T ss_pred HHHhCCC------EEEEeChHHhH-HHHHHHHHHcCCCCC--CCCEEEHHHHHHHHhccCCCCCHHHHHHHcCCCcc--C
Confidence 9999874 45677889996 999999999999876 3589999999988875 467999999999999985 8
Q ss_pred CcHHHHHHHHHHHHH
Q 017267 257 HCGLDDAKNTARLLA 271 (374)
Q Consensus 257 HrALdDA~atA~l~~ 271 (374)
|+|++||++||+||.
T Consensus 141 H~Al~Da~~ta~l~~ 155 (156)
T cd06130 141 HDALEDARACAEILL 155 (156)
T ss_pred cCchHHHHHHHHHHh
Confidence 999999999999985
No 16
>PRK08517 DNA polymerase III subunit epsilon; Provisional
Probab=99.98 E-value=1.6e-31 Score=255.87 Aligned_cols=164 Identities=20% Similarity=0.284 Sum_probs=147.5
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 175 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ 175 (374)
..|||||+||||+ .+..++|||||||+++ +|+++++|+++|+|. .++++++++||||++||.++|++.+|+.
T Consensus 68 ~~~vv~DiETTG~---~~~~~~IIEIGAv~v~--~g~i~~~f~~~v~p~---~ip~~~~~itGIt~e~l~~ap~~~evl~ 139 (257)
T PRK08517 68 QVFCFVDIETNGS---KPKKHQIIEIGAVKVK--NGEIIDRFESFVKAK---EVPEYITELTGITYEDLENAPSLKEVLE 139 (257)
T ss_pred CCEEEEEEeCCCC---CCCCCeEEEEEEEEEE--CCEEEEEEEEEECCC---CCChhhhhhcCcCHHHHcCCCCHHHHHH
Confidence 4799999999996 4567899999999995 789999999999996 3899999999999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCHHHHHHHcCCCCCCC
Q 017267 176 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAVEMAGLAWQGR 255 (374)
Q Consensus 176 ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~~~~~L~~l~~~lgI~~~g~ 255 (374)
+|.+|+++. +.|+||++||+ .||+.++++.|+.. +.++++||..+++.++...+++|+.+++++|++.+ +
T Consensus 140 ~f~~fl~~~------v~VaHNa~FD~-~fL~~~l~r~g~~~--~~~~~ldtl~la~~~~~~~~~~L~~L~~~lgi~~~-~ 209 (257)
T PRK08517 140 EFRLFLGDS------VFVAHNVNFDY-NFISRSLEEIGLGP--LLNRKLCTIDLAKRTIESPRYGLSFLKELLGIEIE-V 209 (257)
T ss_pred HHHHHHCCC------eEEEECHHHHH-HHHHHHHHHcCCCC--CCCCcEehHHHHHHHccCCCCCHHHHHHHcCcCCC-C
Confidence 999999875 35778899996 89999999998764 45789999999988877778999999999999986 7
Q ss_pred CCcHHHHHHHHHHHHHHHHHcc
Q 017267 256 AHCGLDDAKNTARLLALLMHRG 277 (374)
Q Consensus 256 ~HrALdDA~atA~l~~~ll~~g 277 (374)
+|||++||.+||+||.+++++.
T Consensus 210 ~HrAl~DA~ata~ll~~ll~~~ 231 (257)
T PRK08517 210 HHRAYADALAAYEIFKICLLNL 231 (257)
T ss_pred CCChHHHHHHHHHHHHHHHHHh
Confidence 8999999999999999999765
No 17
>PRK06063 DNA polymerase III subunit epsilon; Provisional
Probab=99.98 E-value=2.4e-31 Score=261.32 Aligned_cols=167 Identities=18% Similarity=0.177 Sum_probs=146.8
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 175 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ 175 (374)
..|||||+||||+ ++..++|||||||+++ .+|+++++|++||||.. ++..+.+||||++||.++|+|++++.
T Consensus 15 ~~fvvlD~ETTGl---~p~~d~IIeIgav~v~-~~g~i~~~~~~lv~P~~----~~~~~~IhGIt~e~l~~ap~f~ev~~ 86 (313)
T PRK06063 15 RGWAVVDVETSGF---RPGQARIISLAVLGLD-ADGNVEQSVVTLLNPGV----DPGPTHVHGLTAEMLEGQPQFADIAG 86 (313)
T ss_pred CCEEEEEEECCCC---CCCCCEEEEEEEEEEE-CCceeeeEEEEEECcCC----CCCCeecCCCCHHHHhCCCCHHHHHH
Confidence 5799999999997 5677999999999997 47899999999999974 24568899999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhc-CCCCCCHHHHHHHcCCCCCC
Q 017267 176 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVF-GGVRCNLKEAVEMAGLAWQG 254 (374)
Q Consensus 176 ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~-~~~~~~L~~l~~~lgI~~~g 254 (374)
+|.+|+++. .+|+||+.||+ .||+.+++++|+..| .+.++||..+++.++ +..+++|++++++|||+..
T Consensus 87 ~l~~~l~~~------~lVaHNa~FD~-~fL~~~~~r~g~~~~--~~~~ldTl~lar~~~~~~~~~kL~~l~~~~gi~~~- 156 (313)
T PRK06063 87 EVAELLRGR------TLVAHNVAFDY-SFLAAEAERAGAELP--VDQVMCTVELARRLGLGLPNLRLETLAAHWGVPQQ- 156 (313)
T ss_pred HHHHHcCCC------EEEEeCHHHHH-HHHHHHHHHcCCCCC--CCCEEehHHHHHHhccCCCCCCHHHHHHHcCCCCC-
Confidence 999999875 46788899996 899999999998876 357999999998775 4568999999999999975
Q ss_pred CCCcHHHHHHHHHHHHHHHHHccCcc
Q 017267 255 RAHCGLDDAKNTARLLALLMHRGFKF 280 (374)
Q Consensus 255 ~~HrALdDA~atA~l~~~ll~~g~~~ 280 (374)
++|||++||++||+||.+++++..+.
T Consensus 157 ~~H~Al~DA~ata~l~~~ll~~~~~~ 182 (313)
T PRK06063 157 RPHDALDDARVLAGILRPSLERARER 182 (313)
T ss_pred CCCCcHHHHHHHHHHHHHHHHHHHhc
Confidence 78999999999999999998775443
No 18
>PRK07942 DNA polymerase III subunit epsilon; Provisional
Probab=99.97 E-value=6.2e-31 Score=248.19 Aligned_cols=173 Identities=20% Similarity=0.133 Sum_probs=145.9
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhC-CCCHHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDR-GVTLSEAL 174 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~-ap~~~eVl 174 (374)
..|||||+||||+ ++..++|||||+|+++ .+|+++++|++||+|.. .|+++++++||||++|+.+ ++++++|+
T Consensus 6 ~~~vv~D~ETTGl---~p~~d~Iieig~v~v~-~~g~~~~~~~~lv~P~~--~i~~~a~~IhGIt~e~l~~~g~~~~~vl 79 (232)
T PRK07942 6 GPLAAFDLETTGV---DPETARIVTAALVVVD-ADGEVVESREWLADPGV--EIPEEASAVHGITTEYARAHGRPAAEVL 79 (232)
T ss_pred CcEEEEEeccCCC---CCCCCeeEEEEEEEEe-CCCccccceEEEECCCC--CCCHHHHHHhCCCHHHHHhhCCCHHHHH
Confidence 4799999999997 5677999999999997 45888999999999986 4999999999999999975 89999999
Q ss_pred HHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC--CCCCCHHHHHHHcCCCC
Q 017267 175 LRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG--GVRCNLKEAVEMAGLAW 252 (374)
Q Consensus 175 ~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~--~~~~~L~~l~~~lgI~~ 252 (374)
.+|.+++.+.. .+...+|+||+.||+ .||+.+++++|+..+ ...+++|+..+.+.+.. ..+++|++++++|||+.
T Consensus 80 ~e~~~~l~~~~-~~~~~lVahNa~FD~-~fL~~~~~r~~~~~~-~~~~~iDt~~l~~~~~~~~~~~~~L~~l~~~~gi~~ 156 (232)
T PRK07942 80 AEIADALREAW-ARGVPVVVFNAPYDL-TVLDRELRRHGLPSL-VPGPVIDPYVIDKAVDRYRKGKRTLTALCEHYGVRL 156 (232)
T ss_pred HHHHHHHHHHh-hcCCEEEEeCcHhhH-HHHHHHHHHcCCCCc-cCCcEeeHHHHHhhhhcccCCCCCHHHHHHHcCCCC
Confidence 99999986421 112356889999996 899999999987642 23578999887776543 24689999999999998
Q ss_pred CCCCCcHHHHHHHHHHHHHHHHHccC
Q 017267 253 QGRAHCGLDDAKNTARLLALLMHRGF 278 (374)
Q Consensus 253 ~g~~HrALdDA~atA~l~~~ll~~g~ 278 (374)
. .+|+|++||++||+||.+|+++..
T Consensus 157 ~-~aH~Al~Da~ata~l~~~l~~~~~ 181 (232)
T PRK07942 157 D-NAHEATADALAAARVAWALARRFP 181 (232)
T ss_pred C-CCCChHHHHHHHHHHHHHHHHHHH
Confidence 6 589999999999999999987654
No 19
>PRK05168 ribonuclease T; Provisional
Probab=99.97 E-value=8e-31 Score=244.10 Aligned_cols=177 Identities=21% Similarity=0.209 Sum_probs=144.7
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcC-CCeE--EEEEEEeecCCCCCCCCcchhhhcCCChHH-HhCCCCHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSV-TGQL--EACFQTYVRPTCNQLLSDFCKDLTGIQQIQ-VDRGVTLS 171 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~-~G~i--idsF~~lVkP~~~p~Is~~~~~LTGIt~e~-v~~ap~~~ 171 (374)
.++||||+||||+ ++..++|||||||+|... +|.+ .++|+++|+|.....|+++++++||||+++ +++++++.
T Consensus 17 ~~~vv~D~ETTGl---~~~~d~IieIgaV~v~~d~~g~i~~~~~f~~lv~P~~~~~i~~~~~~ihGIt~e~~~~~~~~~~ 93 (211)
T PRK05168 17 FLPVVIDVETAGF---NAKTDALLEIAAVTLKMDEQGWLYPDETLHFHVEPFEGANLEPEALAFNGIDPDNPLRGAVSEK 93 (211)
T ss_pred CceEEEEeeCCCC---CCCCCEEEEEeEEEEEecCCCcEeccceEEEEECCCCCCCCCHHHHhhcCCCchhhhhcCCChH
Confidence 4799999999997 567799999999999522 4654 589999999953235999999999999886 88999999
Q ss_pred HHHHHHHHHHhhcCC---CCccEEEEEcCcchHHHHHHHHHHHcCCCCCCC-CCceeehHHHHHHhcCCCCCCHHHHHHH
Q 017267 172 EALLRHDKWLENKGI---KNTNFAVVTWSNWDCRVMLESECRFKKIWKPPY-FNRWINLKVPFHEVFGGVRCNLKEAVEM 247 (374)
Q Consensus 172 eVl~ef~~fl~~~~l---~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~-~~~~iDt~~l~~~~~~~~~~~L~~l~~~ 247 (374)
+++.+|.+|+.+... .+..+.|+||++||+ .||+.+++++|+..+++ ..+++||..+++.+++. .+|+.++++
T Consensus 94 ~~l~~~~~~l~~~~~~~~~~~~~lVaHNa~FD~-~fL~~~~~r~~~~~~~~~~~~~iDt~~lar~~~~~--~~L~~l~~~ 170 (211)
T PRK05168 94 EALHEIFKMVRKGIKASGCNRAILVAHNAHFDL-SFLMAAAERAGLKRNPFHPFSTFDTATLSGLALGQ--TVLAKACQA 170 (211)
T ss_pred HHHHHHHHHHHHHHHhcccCCceEEEeccHHhH-HHHHHHHHHhCCCCCCCCCCcEeeHHHHHHHHcCC--CCHHHHHHH
Confidence 999999999974210 112356788899997 89999999998753222 23689999999887763 589999999
Q ss_pred cCCCCCC-CCCcHHHHHHHHHHHHHHHHHccC
Q 017267 248 AGLAWQG-RAHCGLDDAKNTARLLALLMHRGF 278 (374)
Q Consensus 248 lgI~~~g-~~HrALdDA~atA~l~~~ll~~g~ 278 (374)
+|+++++ .+|+|++||.+||+||.+|+++..
T Consensus 171 ~gl~~~~~~~H~Al~DA~ata~l~~~l~~~~~ 202 (211)
T PRK05168 171 AGIEFDNKEAHSALYDTEKTAELFCEIVNRWK 202 (211)
T ss_pred CCCCCCCCCCCChHHHHHHHHHHHHHHHHHHH
Confidence 9999753 589999999999999999998754
No 20
>PRK09146 DNA polymerase III subunit epsilon; Validated
Probab=99.97 E-value=9.4e-31 Score=248.13 Aligned_cols=166 Identities=20% Similarity=0.145 Sum_probs=142.6
Q ss_pred CccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeE--EEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHH
Q 017267 95 FQYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQL--EACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSE 172 (374)
Q Consensus 95 ~~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~i--idsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~e 172 (374)
...|||||+||||+ ++..++|||||+|+++ ++++ .++|+++|+|.. .|+++++++||||++||.++|+|++
T Consensus 46 ~~~~vviD~ETTGl---~p~~d~IieIg~v~v~--~~~i~~~~~~~~li~P~~--~i~~~~~~IhGIt~e~l~~ap~~~e 118 (239)
T PRK09146 46 EVPFVALDFETTGL---DAEQDAIVSIGLVPFT--LQRIRCRQARHWVVKPRR--PLEEESVVIHGITHSELQDAPDLER 118 (239)
T ss_pred cCCEEEEEeECCCC---CCCCCcEEEEEEEEEE--CCeEeecceEEEEECCCC--CCChhhhhhcCCCHHHHhCCCCHHH
Confidence 35799999999997 5678999999999995 5665 589999999996 4999999999999999999999999
Q ss_pred HHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHc-CCCCCCCCCceeehHHHHHHhcCC--------------C
Q 017267 173 ALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFK-KIWKPPYFNRWINLKVPFHEVFGG--------------V 237 (374)
Q Consensus 173 Vl~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~-gi~~P~~~~~~iDt~~l~~~~~~~--------------~ 237 (374)
|+.+|.+|+++. ..|+||+.||. .||++++++. +... .+++|||..+++.+++. .
T Consensus 119 vl~~l~~~~~~~------~lVaHna~FD~-~fL~~~l~~~~~~~~---~~~~iDTl~Lar~l~~~~~~~~~~~~~~~~~~ 188 (239)
T PRK09146 119 ILDELLEALAGK------VVVVHYRRIER-DFLDQALRNRIGEGI---EFPVIDTMEIEARIQRKQAGGLWNRLKGKKPE 188 (239)
T ss_pred HHHHHHHHhCCC------EEEEECHHHHH-HHHHHHHHHhcCCCC---CCceechHHHHHHHcccccccccchhccCCCC
Confidence 999999999875 35788899996 9999999875 3332 35799999998876421 3
Q ss_pred CCCHHHHHHHcCCCCCCCCCcHHHHHHHHHHHHHHHHHccC
Q 017267 238 RCNLKEAVEMAGLAWQGRAHCGLDDAKNTARLLALLMHRGF 278 (374)
Q Consensus 238 ~~~L~~l~~~lgI~~~g~~HrALdDA~atA~l~~~ll~~g~ 278 (374)
+++|++++++|||+.. .+|+|++||.+||+||.+++++..
T Consensus 189 ~~~L~~l~~~~gl~~~-~~H~Al~DA~ata~l~~~~~~~~~ 228 (239)
T PRK09146 189 SIRLADSRLRYGLPAY-SPHHALTDAIATAELLQAQIAHHF 228 (239)
T ss_pred CCCHHHHHHHcCCCCC-CCCCcHHHHHHHHHHHHHHHHHHc
Confidence 5789999999999975 689999999999999999997764
No 21
>PRK06310 DNA polymerase III subunit epsilon; Validated
Probab=99.97 E-value=1.5e-30 Score=248.28 Aligned_cols=168 Identities=14% Similarity=0.139 Sum_probs=147.5
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 175 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ 175 (374)
..||+||+||||+ ++..++|||||+|+++ .++++++|+++|+|.. .|+++++++||||++||+++|+|.+|++
T Consensus 7 ~~~v~~D~ETTGl---~~~~d~IIEIa~v~v~--~~~~~~~~~~li~P~~--~I~~~a~~ihgIt~e~v~~~p~~~ev~~ 79 (250)
T PRK06310 7 TEFVCLDCETTGL---DVKKDRIIEFAAIRFT--FDEVIDSVEFLINPER--VVSAESQRIHHISDAMLRDKPKIAEVFP 79 (250)
T ss_pred CcEEEEEEeCCCC---CCCCCeEEEEEEEEEE--CCeEEEEEEEEECcCC--CCCHhhhhccCcCHHHHhCCCCHHHHHH
Confidence 5799999999997 5677999999999996 5678899999999996 4999999999999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCHHHHHHHcCCCCCCC
Q 017267 176 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAVEMAGLAWQGR 255 (374)
Q Consensus 176 ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~~~~~L~~l~~~lgI~~~g~ 255 (374)
+|.+|+++. .++|+||++||+ .||.+++++.|++.+.....+|||+.+++.+.+..+++|..++++||++.. .
T Consensus 80 ~~~~fl~~~-----~~lvghn~~FD~-~~L~~~~~r~g~~~~~~~~~~iDtl~lar~~~~~~~~~L~~l~~~~g~~~~-~ 152 (250)
T PRK06310 80 QIKGFFKEG-----DYIVGHSVGFDL-QVLSQESERIGETFLSKHYYIIDTLRLAKEYGDSPNNSLEALAVHFNVPYD-G 152 (250)
T ss_pred HHHHHhCCC-----CEEEEECHHHHH-HHHHHHHHHcCCCccccCCcEEehHHHHHhcccCCCCCHHHHHHHCCCCCC-C
Confidence 999999763 246778889996 899999999999876434689999998886544457899999999999986 5
Q ss_pred CCcHHHHHHHHHHHHHHHHHcc
Q 017267 256 AHCGLDDAKNTARLLALLMHRG 277 (374)
Q Consensus 256 ~HrALdDA~atA~l~~~ll~~g 277 (374)
+|||++||.+|++||.+|+++.
T Consensus 153 aH~Al~Da~at~~vl~~l~~~~ 174 (250)
T PRK06310 153 NHRAMKDVEINIKVFKHLCKRF 174 (250)
T ss_pred CcChHHHHHHHHHHHHHHHHhc
Confidence 8999999999999999998754
No 22
>PRK07740 hypothetical protein; Provisional
Probab=99.97 E-value=1e-30 Score=248.50 Aligned_cols=168 Identities=24% Similarity=0.286 Sum_probs=144.2
Q ss_pred ccEEEEEEeeCCCCCCCCCC-CceEEEceEEEEcCCCeE-EEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYP-QEIIEFPSVIVSSVTGQL-EACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEA 173 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~-deIIEIGAVkvd~~~G~i-idsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eV 173 (374)
..|||||+||||+ ++.. ++|||||||+++ ++++ .++|+++|+|.. .++++++++||||+++|+++|++.+|
T Consensus 59 ~~~vv~D~ETTGl---~p~~~deIIeIgaV~~~--~~~i~~~~f~~lv~P~~--~i~~~~~~ltGIt~e~l~~ap~~~ev 131 (244)
T PRK07740 59 LPFVVFDLETTGF---SPQQGDEILSIGAVKTK--GGEVETDTFYSLVKPKR--PIPEHILELTGITAEDVAFAPPLAEV 131 (244)
T ss_pred CCEEEEEEeCCCC---CCCCCCeEEEEEEEEEE--CCEEEEEEEEEEeCcCC--CCChhheeccCCCHHHHhCCCCHHHH
Confidence 3799999999997 4444 899999999996 6777 899999999985 49999999999999999999999999
Q ss_pred HHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC-CCCCHHHHHHHcCCCC
Q 017267 174 LLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG-VRCNLKEAVEMAGLAW 252 (374)
Q Consensus 174 l~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~-~~~~L~~l~~~lgI~~ 252 (374)
+.+|.+|+++. .+|+||+.||. .||+.++.+... . ++..+++||..+++.+++. +.++|++++++|||+.
T Consensus 132 l~~f~~fi~~~------~lVahna~fD~-~fL~~~~~~~~~-~-~~~~~~iDt~~l~r~l~~~~~~~sL~~l~~~~gi~~ 202 (244)
T PRK07740 132 LHRFYAFIGAG------VLVAHHAGHDK-AFLRHALWRTYR-Q-PFTHRLIDTMFLTKLLAHERDFPTLDDALAYYGIPI 202 (244)
T ss_pred HHHHHHHhCCC------EEEEeCHHHHH-HHHHHHHHHhcC-C-CcCCCeechHHHHHHHcCCCCCCCHHHHHHHCCcCC
Confidence 99999999875 35778899996 899998876532 2 2457899999998877753 5789999999999998
Q ss_pred CCCCCcHHHHHHHHHHHHHHHHHccCcc
Q 017267 253 QGRAHCGLDDAKNTARLLALLMHRGFKF 280 (374)
Q Consensus 253 ~g~~HrALdDA~atA~l~~~ll~~g~~~ 280 (374)
.+ +|+|++||++||+||.+++.+..+.
T Consensus 203 ~~-~H~Al~Da~ata~l~~~ll~~~~~~ 229 (244)
T PRK07740 203 PR-RHHALGDALMTAKLWAILLVEAQQR 229 (244)
T ss_pred CC-CCCcHHHHHHHHHHHHHHHHHHHHc
Confidence 74 6999999999999999998775443
No 23
>PRK07247 DNA polymerase III subunit epsilon; Validated
Probab=99.97 E-value=2.3e-30 Score=238.53 Aligned_cols=161 Identities=19% Similarity=0.232 Sum_probs=132.8
Q ss_pred CccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHH
Q 017267 95 FQYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEAL 174 (374)
Q Consensus 95 ~~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl 174 (374)
..+|||||+||||++ ..++|||||||+++ +|+++++|++||+|.. +++++++++||||++||++||++.+|+
T Consensus 4 ~~~~vvlD~EtTGl~----~~~eIIeIgaV~v~--~g~~~~~f~~lv~P~~--~i~~~~~~lhGIt~~~v~~ap~~~evl 75 (195)
T PRK07247 4 LETYIAFDLEFNTVN----GVSHIIQVSAVKYD--DHKEVDSFDSYVYTDV--PLQSFINGLTGITADKIADAPKVEEVL 75 (195)
T ss_pred CCeEEEEEeeCCCCC----CCCeEEEEEEEEEE--CCEEEEEEEEEECCCC--CCCccceecCCCCHHHHhCCCCHHHHH
Confidence 468999999999973 35899999999995 7888999999999985 499999999999999999999999999
Q ss_pred HHHHHHHhhcCCCCccEEEEEcCc-chHHHHHHHHHHHcCCCCCCCCCceeehHHHH--HHh---cCCCCCCHHHHHHHc
Q 017267 175 LRHDKWLENKGIKNTNFAVVTWSN-WDCRVMLESECRFKKIWKPPYFNRWINLKVPF--HEV---FGGVRCNLKEAVEMA 248 (374)
Q Consensus 175 ~ef~~fl~~~~l~~~n~~vv~~g~-fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~--~~~---~~~~~~~L~~l~~~l 248 (374)
++|.+|+++.. .|+||+. ||+ .||+. .|+..+ ...++|+.... ++. .+.++++|.+++++|
T Consensus 76 ~~f~~f~~~~~------lVaHNa~~fD~-~fL~~----~g~~~~--~~~~idt~~~~~~~~~~~~~~~~~~~L~~La~~~ 142 (195)
T PRK07247 76 AAFKEFVGELP------LIGYNAQKSDL-PILAE----NGLDLS--DQYQVDLYDEAFERRSSDLNGIANLKLQTVADFL 142 (195)
T ss_pred HHHHHHHCCCe------EEEEeCcHhHH-HHHHH----cCCCcC--CCceeehHHHHHHhhccccCCCCCCCHHHHHHhc
Confidence 99999998764 4667776 897 88864 465543 22467775332 221 134679999999999
Q ss_pred CCCCCCCCCcHHHHHHHHHHHHHHHHHccC
Q 017267 249 GLAWQGRAHCGLDDAKNTARLLALLMHRGF 278 (374)
Q Consensus 249 gI~~~g~~HrALdDA~atA~l~~~ll~~g~ 278 (374)
||+. .+|||++||++||.||.+|++.+.
T Consensus 143 gi~~--~~HrAl~DA~~ta~v~~~ll~~~~ 170 (195)
T PRK07247 143 GIKG--RGHNSLEDARMTARVYESFLESDQ 170 (195)
T ss_pred CCCC--CCcCCHHHHHHHHHHHHHHHhhcc
Confidence 9985 579999999999999999998765
No 24
>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=99.97 E-value=3.6e-30 Score=240.40 Aligned_cols=171 Identities=18% Similarity=0.131 Sum_probs=143.6
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 175 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ 175 (374)
.+|||||+||||+ ++..+ |||||||+++ .++.++++|+++|+|.. .++++++++||||++||.++|+|++|++
T Consensus 7 ~~fvv~D~ETTGl---~~~~~-IIeIgav~v~-~~~~~~~~f~~li~P~~--~i~~~a~~ihGIt~e~l~~~p~~~ev~~ 79 (217)
T TIGR00573 7 DTETTGDNETTGL---YAGHD-IIEIGAVEII-NRRITGNKFHTYIKPDR--PIDPDAIKIHGITDDMLKDKPDFKEIAE 79 (217)
T ss_pred cCEEEEEecCCCC---CCCCC-EEEEEEEEEE-CCCEeeeEEEEEECcCC--CCCHHHHhhcCCCHHHHcCCCCHHHHHH
Confidence 5799999999997 45566 9999999975 34567799999999985 5999999999999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC---CCCCCHHHHHHHcCCCC
Q 017267 176 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG---GVRCNLKEAVEMAGLAW 252 (374)
Q Consensus 176 ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~---~~~~~L~~l~~~lgI~~ 252 (374)
+|.+|+++. .+|+||+.||+ .||+.++++.+...| ....++|++.+++.+++ ..+++|..++++||++.
T Consensus 80 ~~~~~~~~~------~lVaHNa~FD~-~fL~~~~~r~~~~~~-~~~~~~dtl~l~~~~~~~~~~~~~~L~~l~~~~gl~~ 151 (217)
T TIGR00573 80 DFADYIRGA------ELVIHNASFDV-GFLNYEFSKLYKVEP-KTNDVIDTTDTLQYARPEFPGKRNTLDALCKRYEITN 151 (217)
T ss_pred HHHHHhCCC------EEEEeccHHHH-HHHHHHHHHhcCCCC-CccceecHHHHHHHHHHhCCCCCCCHHHHHHHcCCCC
Confidence 999999874 36788899996 899999998765432 34578999887765543 34679999999999986
Q ss_pred CC-CCCcHHHHHHHHHHHHHHHHHccCccc
Q 017267 253 QG-RAHCGLDDAKNTARLLALLMHRGFKFS 281 (374)
Q Consensus 253 ~g-~~HrALdDA~atA~l~~~ll~~g~~~~ 281 (374)
.. .+|+|++||++||+||.+|+.+..+..
T Consensus 152 ~~~~~H~Al~DA~~ta~l~~~l~~~~~~~~ 181 (217)
T TIGR00573 152 SHRALHGALADAFILAKLYLVMTGKQTKYG 181 (217)
T ss_pred CCcccCCHHHHHHHHHHHHHHHHhcchhhc
Confidence 42 479999999999999999998765544
No 25
>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=99.97 E-value=2.9e-30 Score=236.36 Aligned_cols=174 Identities=22% Similarity=0.232 Sum_probs=140.2
Q ss_pred cEEEEEEeeCCCCCCCCCCCceEEEceEEEEc-CCCeE--EEEEEEeecCCCCCCCCcchhhhcCCChHH-HhCCCCHHH
Q 017267 97 YFVVIDFEATCDKDKNPYPQEIIEFPSVIVSS-VTGQL--EACFQTYVRPTCNQLLSDFCKDLTGIQQIQ-VDRGVTLSE 172 (374)
Q Consensus 97 ~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~-~~G~i--idsF~~lVkP~~~p~Is~~~~~LTGIt~e~-v~~ap~~~e 172 (374)
.+||||+||||+ ++..++|||||||+|+. .+|.+ +++|+++|+|.....|+++++++||||++| +.+++...+
T Consensus 6 ~~vv~D~ETTGl---~~~~d~Iieigav~v~~~~~~~i~~~~~f~~lv~P~~~~~i~~~~~~ihGIt~~~~~~~~~~~~~ 82 (189)
T cd06134 6 LPVVVDVETGGF---NPQTDALLEIAAVTLEMDEQGNLYPDETFHFHILPFEGANLDPAALEFNGIDPFHPFRFAVDEKE 82 (189)
T ss_pred eeEEEEecCCCC---CCCCCeEEEEEEEEEEECCCCceeccceEEEEEcCCCCCCCCHHHHhhcCCCchhhhccccchHH
Confidence 479999999997 56789999999999952 24543 689999999942125999999999999986 678888888
Q ss_pred HHHHHHHHHhhcC---CCCccEEEEEcCcchHHHHHHHHHHHcCCC-CCCCCCceeehHHHHHHhcCCCCCCHHHHHHHc
Q 017267 173 ALLRHDKWLENKG---IKNTNFAVVTWSNWDCRVMLESECRFKKIW-KPPYFNRWINLKVPFHEVFGGVRCNLKEAVEMA 248 (374)
Q Consensus 173 Vl~ef~~fl~~~~---l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~-~P~~~~~~iDt~~l~~~~~~~~~~~L~~l~~~l 248 (374)
++.+|.+|+.+.. ..+...+|+||++||+ .||+++++++|+. .|....+++||..+.+.+++ .++|++++++|
T Consensus 83 ~~~~~~~~l~~~~~~~~~~~~~lVaHna~FD~-~fL~~~~~~~~~~~~~~~~~~~lDt~~la~~~~~--~~~L~~l~~~~ 159 (189)
T cd06134 83 ALKEIFKPIRKALKAQGCTRAILVGHNAHFDL-GFLNAAVARCKIKRNPFHPFSTFDTATLAGLAYG--QTVLAKACQAA 159 (189)
T ss_pred HHHHHHHHHHHHHhhcccCCCeEEEecchhhH-HHHHHHHHHhCCCCCCCCCCcEEEHHHHHHHHhC--CCcHHHHHHHC
Confidence 8888888876421 0112457888999997 9999999999983 32222468999999988876 46899999999
Q ss_pred CCCCC-CCCCcHHHHHHHHHHHHHHHHHc
Q 017267 249 GLAWQ-GRAHCGLDDAKNTARLLALLMHR 276 (374)
Q Consensus 249 gI~~~-g~~HrALdDA~atA~l~~~ll~~ 276 (374)
||+++ .++|+|++||++||+||.+|+++
T Consensus 160 gi~~~~~~~H~Al~DA~ata~lf~~l~~~ 188 (189)
T cd06134 160 GIEFDNKEAHSALYDTQKTAELFCKIVNR 188 (189)
T ss_pred CCCCCCCCCcChHHHHHHHHHHHHHHHHh
Confidence 99874 36899999999999999999875
No 26
>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=99.97 E-value=1.2e-30 Score=236.54 Aligned_cols=162 Identities=17% Similarity=0.104 Sum_probs=132.0
Q ss_pred EEEEEEeeCCCCCCCCCCCceEEEceEEEEcCC---C--------eEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhC
Q 017267 98 FVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVT---G--------QLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDR 166 (374)
Q Consensus 98 ~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~---G--------~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ 166 (374)
|||||+||||++. +..++|||||||+|+... + +++++|+++|||.. .|+++++++||||++||.+
T Consensus 1 ~vv~D~ETTGl~~--~~~d~Iiei~av~v~~~~~~~~~~~~~~~~~~~~~~~~lv~P~~--~I~~~a~~IhGIt~e~l~~ 76 (177)
T cd06136 1 FVFLDLETTGLPK--HNRPEITELCLVAVHRDHLLNTSRDKPALPRVLDKLSLCFNPGR--AISPGASEITGLSNDLLEH 76 (177)
T ss_pred CeEEeeecCCCCC--CCCCceEEEEEEEEecccccccccccccccceeeeeeEEeCCCC--cCChhHHHHhCcCHHHHhc
Confidence 7999999999731 467999999999996210 1 36789999999985 5999999999999999999
Q ss_pred CCCHHH-HHHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCHHHH
Q 017267 167 GVTLSE-ALLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNLKEA 244 (374)
Q Consensus 167 ap~~~e-Vl~ef~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~~~~~L~~l 244 (374)
+|++++ +++.+.+|++... +...+|+||+ .||+ .||+++++++|+.+| ....++||..+++.+.+ +|+++
T Consensus 77 ~~~~~~~~~~~l~~f~~~~~--~~~~lVaHNa~~FD~-~fL~~~~~r~~~~~~-~~~~~iDtl~l~r~~~~----~L~~l 148 (177)
T cd06136 77 KAPFDSDTANLIKLFLRRQP--KPICLVAHNGNRFDF-PILRSELERLGTKLP-DDILCVDSLPAFRELDQ----SLGSL 148 (177)
T ss_pred CCCccHHHHHHHHHHHHhcC--CCCEEEEcCCcccCH-HHHHHHHHHcCCCCC-CCCEEEEeHHHHhhhHh----hHHHH
Confidence 998874 5666767775321 1124678888 8997 899999999998876 34578999998887664 89999
Q ss_pred HHH-cCCCCCCCCCcHHHHHHHHHHHHHH
Q 017267 245 VEM-AGLAWQGRAHCGLDDAKNTARLLAL 272 (374)
Q Consensus 245 ~~~-lgI~~~g~~HrALdDA~atA~l~~~ 272 (374)
+++ ||++.. .+|||++||.+|++||.+
T Consensus 149 ~~~~~~~~~~-~~H~A~~Da~at~~v~~~ 176 (177)
T cd06136 149 YKRLFGQEPK-NSHTAEGDVLALLKCALH 176 (177)
T ss_pred HHHHhCCCcc-cccchHHHHHHHHHHHhh
Confidence 985 899975 689999999999999874
No 27
>PRK09145 DNA polymerase III subunit epsilon; Validated
Probab=99.97 E-value=2.3e-30 Score=238.80 Aligned_cols=162 Identities=21% Similarity=0.262 Sum_probs=136.7
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEE--EEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLE--ACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEA 173 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~ii--dsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eV 173 (374)
..|||||+||||+ ++..++|||||||+++ +++++ ++|+++|+|.. .++++++++||||++||++++++++|
T Consensus 29 ~~~vviD~ETTGl---~~~~d~IieIgaV~~~--~~~~~~~~~f~~~i~p~~--~i~~~~~~ihGIt~~~l~~~~~~~~v 101 (202)
T PRK09145 29 DEWVALDCETTGL---DPRRAEIVSIAAVKIR--GNRILTSERLELLVRPPQ--SLSAESIKIHRLRHQDLEDGLSEEEA 101 (202)
T ss_pred CCEEEEEeECCCC---CCCCCceEEEEEEEEE--CCEEeecCceEEEECCCC--CCCHhHhhhcCcCHHHHhcCCCHHHH
Confidence 4799999999997 4667999999999996 45553 68999999985 59999999999999999999999999
Q ss_pred HHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHH-cCCCCCCCCCceeehHHHHHHh----c-C-CCCCCHHHHHH
Q 017267 174 LLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRF-KKIWKPPYFNRWINLKVPFHEV----F-G-GVRCNLKEAVE 246 (374)
Q Consensus 174 l~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~-~gi~~P~~~~~~iDt~~l~~~~----~-~-~~~~~L~~l~~ 246 (374)
+.+|.+|+++.. +|+||+.||+ .||+.++++ .+..+| ..++|+..++... + + .++++|+++++
T Consensus 102 l~~~~~~i~~~~------lv~hn~~fD~-~fL~~~~~~~~~~~~~---~~~id~~~l~~~~~~~~~~~~~~~~~L~~l~~ 171 (202)
T PRK09145 102 LRQLLAFIGNRP------LVGYYLEFDV-AMLNRYVRPLLGIPLP---NPLIEVSALYYDKKERHLPDAYIDLRFDAILK 171 (202)
T ss_pred HHHHHHHHcCCe------EEEeCHHHHH-HHHHHHHHHhcCCCCC---CCeeeHHHHHHHHhhccCCCcccCCCHHHHHH
Confidence 999999998753 4667789996 899999987 455543 5789998766432 1 1 23589999999
Q ss_pred HcCCCCCCCCCcHHHHHHHHHHHHHHHHH
Q 017267 247 MAGLAWQGRAHCGLDDAKNTARLLALLMH 275 (374)
Q Consensus 247 ~lgI~~~g~~HrALdDA~atA~l~~~ll~ 275 (374)
+||++.. .+|+|++||++||+||.+|++
T Consensus 172 ~~gi~~~-~~H~Al~DA~ata~l~~~l~~ 199 (202)
T PRK09145 172 HLDLPVL-GRHDALNDAIMAALIFLRLRK 199 (202)
T ss_pred HcCCCCC-CCCCcHHHHHHHHHHHHHHHh
Confidence 9999986 579999999999999999875
No 28
>COG5018 KapD Inhibitor of the KinA pathway to sporulation, predicted exonuclease [General function prediction only]
Probab=99.97 E-value=1e-31 Score=237.63 Aligned_cols=197 Identities=31% Similarity=0.450 Sum_probs=168.3
Q ss_pred ccEEEEEEeeCCCCCC-CCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHH
Q 017267 96 QYFVVIDFEATCDKDK-NPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEAL 174 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~-~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl 174 (374)
...++||+|+|+.+|+ ++...|||||+|.+|+..+.+++|+|++||||..+|.++.+|..+|||+|..|+.||-|..|+
T Consensus 4 ~~lLIID~EaT~~eG~~~~~e~eiiei~a~lv~~id~~vvd~F~syVRP~~~P~Lt~~Ckslt~I~Q~~VD~apifs~v~ 83 (210)
T COG5018 4 NSLLIIDFEATMPEGKYSPQEFEIIEIEAGLVKSIDDEVVDTFSSYVRPKKFPKLTKRCKSLTKITQKQVDEAPIFSMVF 83 (210)
T ss_pred ceEEEEEeeeeccCCCCCchhceeeeehhhHHHHhhHHHHHHHHHhcCcccCchHHHHHHHhhhhhhhhccccchHHHHH
Confidence 4689999999999875 457899999999999877889999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCC-CCHHHHHHHcCCCCC
Q 017267 175 LRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVR-CNLKEAVEMAGLAWQ 253 (374)
Q Consensus 175 ~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~~~-~~L~~l~~~lgI~~~ 253 (374)
++|..||....-. .+-++++||++|| ..|.++|..+++..-++..+.+|++..|...++..+ .+|..+++++|..++
T Consensus 84 E~f~r~L~~h~Pr-~~~~wa~wG~~Dm-~~l~q~~~~~~~~p~~~kgp~vdl~~~yk~v~~~pr~tgln~ale~~G~sf~ 161 (210)
T COG5018 84 EDFIRKLNEHDPR-KNSTWATWGNMDM-KVLKQNCMFNHIPPFPFKGPMVDLSLEYKNVFGDPRLTGLNKALEEYGDSFT 161 (210)
T ss_pred HHHHHHHHhcCcc-cCCccccccchhH-HHHHHHHHhcCCCCccccCccchHHHHHHHHhcCCccccHHHHHHHhccccC
Confidence 9999999875422 2225889999998 567788999988722345689999999999998765 799999999999999
Q ss_pred CCCCcHHHHHHHHHHHHHHHHHccCcccccccccccccCCCCcc
Q 017267 254 GRAHCGLDDAKNTARLLALLMHRGFKFSITNSLMWQTNDGSLTW 297 (374)
Q Consensus 254 g~~HrALdDA~atA~l~~~ll~~g~~~~i~~~l~~~~~~~~~~~ 297 (374)
|.+|||||||+++++||..+......+..+. +| ..++...|
T Consensus 162 G~~HraldDArn~~rl~klv~~~~~~~e~~~--~~-~~~e~~~~ 202 (210)
T COG5018 162 GTHHRALDDARNAYRLFKLVEQDKQYLEKPK--PP-TIGERIDL 202 (210)
T ss_pred CchhhhHHHHHHHHHHHHHHcchhhhccCCC--CC-cccccccc
Confidence 9999999999999999999988877776554 33 33555544
No 29
>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=99.97 E-value=5.7e-30 Score=236.55 Aligned_cols=177 Identities=20% Similarity=0.184 Sum_probs=142.8
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEc-CCCeE--EEEEEEeecCCCCCCCCcchhhhcCCChH-HHhCCCCHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSS-VTGQL--EACFQTYVRPTCNQLLSDFCKDLTGIQQI-QVDRGVTLS 171 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~-~~G~i--idsF~~lVkP~~~p~Is~~~~~LTGIt~e-~v~~ap~~~ 171 (374)
..+||||+||||+ ++..++|||||||+|.. .+|++ .++|+++|+|.....|++++.++||||++ |+.+++++.
T Consensus 8 ~~~vv~D~ETTGl---~~~~d~IieIgav~v~~~~~g~i~~~~~f~~~v~p~p~~~i~~~a~~ihGIt~~~~~~~~~~~~ 84 (200)
T TIGR01298 8 YLPVVVDVETGGF---NAKTDALLEIAAITLKMDEQGWLFPDTTLHFHVEPFEGANIQPEALEFTGIDLDHPLRGAVSEY 84 (200)
T ss_pred CeeEEEEeeCCCC---CCCCCeEEEEEEEEEEEcCCCcEeecceeEEEEcCCCCCCCCHHHHHccCCChhhhhhcCcchH
Confidence 4699999999997 56779999999999952 25666 36899999984223599999999999976 699999999
Q ss_pred HHHHHHHHHHhhcC---CCCccEEEEEcCcchHHHHHHHHHHHcCCCC-CCCCCceeehHHHHHHhcCCCCCCHHHHHHH
Q 017267 172 EALLRHDKWLENKG---IKNTNFAVVTWSNWDCRVMLESECRFKKIWK-PPYFNRWINLKVPFHEVFGGVRCNLKEAVEM 247 (374)
Q Consensus 172 eVl~ef~~fl~~~~---l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~-P~~~~~~iDt~~l~~~~~~~~~~~L~~l~~~ 247 (374)
++++++.+|+.+.. ..+...+|+||++||+ .||+.++++.|+.. |.....++||..+++.+++ .++|+.++++
T Consensus 85 ~~~~~~~~~l~~~~~~~~~~~~~lVaHNa~FD~-~fL~~~~~r~~~~~~~~~~~~~lDTl~lar~~~~--~~~L~~l~~~ 161 (200)
T TIGR01298 85 EALHEIFKVVRKAMKASGCQRAILVGHNANFDL-GFLNAAVERTSLKRNPFHPFSTFDTATLAGLAYG--QTVLAKACQA 161 (200)
T ss_pred HHHHHHHHHHHHHHHhcccCCCEEEEECchhhH-HHHHHHHHHhCCCCCCCCCCcEEEHHHHHHHHcC--cccHHHHHHH
Confidence 99999999885321 1123457889999997 89999999988742 2112469999999987775 4689999999
Q ss_pred cCCCCC-CCCCcHHHHHHHHHHHHHHHHHccC
Q 017267 248 AGLAWQ-GRAHCGLDDAKNTARLLALLMHRGF 278 (374)
Q Consensus 248 lgI~~~-g~~HrALdDA~atA~l~~~ll~~g~ 278 (374)
|||+.. .++|||++||++||+||.+|+++..
T Consensus 162 ~gi~~~~~~~H~Al~Da~ata~lf~~l~~~~~ 193 (200)
T TIGR01298 162 AGXDFDSTQAHSALYDTEKTAELFCEIVNRWK 193 (200)
T ss_pred cCCCccccchhhhHHhHHHHHHHHHHHHHHHH
Confidence 999864 3689999999999999999998754
No 30
>PRK06309 DNA polymerase III subunit epsilon; Validated
Probab=99.97 E-value=5.7e-30 Score=241.48 Aligned_cols=163 Identities=23% Similarity=0.250 Sum_probs=141.0
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 175 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ 175 (374)
.++||||+||||+ ++..|+|||||++ + +...++|+++|+|.. .|+++++++||||++||+++|+|.+|++
T Consensus 2 ~~~vv~D~ETTGl---~~~~d~IIeig~v--~---~~~~~~f~~lv~P~~--~I~~~a~~IhGIt~e~v~~~p~f~ev~~ 71 (232)
T PRK06309 2 PALIFYDTETTGT---QIDKDRIIEIAAY--N---GVTSESFQTLVNPEI--PIPAEASKIHGITTDEVADAPKFPEAYQ 71 (232)
T ss_pred CcEEEEEeeCCCC---CCCCCEEEEEEEE--c---CccccEEEEEeCCCC--CCChhHHhhcCCCHHHHhCCCCHHHHHH
Confidence 3699999999997 4677999999995 3 234578999999986 4999999999999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHcCCCCC
Q 017267 176 RHDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMAGLAWQ 253 (374)
Q Consensus 176 ef~~fl~~~~l~~~n~~vv~~-g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~-~~~~~L~~l~~~lgI~~~ 253 (374)
+|.+|+++. .++|+|| +.||+ .||++++++.|+..|. +.++||..+++.+++ ..+++|..++++||++..
T Consensus 72 ~~~~fi~~~-----~~lVaHN~~~FD~-~~L~~e~~r~g~~~~~--~~~iDt~~l~~~~~~~~~~~~L~~l~~~~~~~~~ 143 (232)
T PRK06309 72 KFIEFCGTD-----NILVAHNNDAFDF-PLLRKECRRHGLEPPT--LRTIDSLKWAQKYRPDLPKHNLQYLRQVYGFEEN 143 (232)
T ss_pred HHHHHHcCC-----CEEEEeCCHHHHH-HHHHHHHHHcCCCCCC--CcEEeHHHHHHHHcCCCCCCCHHHHHHHcCCCCC
Confidence 999999854 2356777 48996 8999999999998753 689999999987765 357899999999999875
Q ss_pred CCCCcHHHHHHHHHHHHHHHHHcc
Q 017267 254 GRAHCGLDDAKNTARLLALLMHRG 277 (374)
Q Consensus 254 g~~HrALdDA~atA~l~~~ll~~g 277 (374)
.+|||++||.+|++||.+|+++.
T Consensus 144 -~aH~Al~Da~~t~~vl~~l~~~~ 166 (232)
T PRK06309 144 -QAHRALDDVITLHRVFSALVGDL 166 (232)
T ss_pred -CCCCcHHHHHHHHHHHHHHHHHH
Confidence 68999999999999999999764
No 31
>PRK07883 hypothetical protein; Validated
Probab=99.97 E-value=1.5e-29 Score=265.43 Aligned_cols=169 Identities=24% Similarity=0.227 Sum_probs=150.5
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 175 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ 175 (374)
..|||||+||||+ ++..++|||||||+++ +|+++++|+++|+|.. .++++++++||||++||.++++|++|+.
T Consensus 15 ~~~Vv~D~ETTGl---~p~~~~IIEIgaV~v~--~g~iv~~f~~lV~P~~--~i~~~~~~itGIt~e~l~~ap~~~evl~ 87 (557)
T PRK07883 15 VTFVVVDLETTGG---SPAGDAITEIGAVKVR--GGEVLGEFATLVNPGR--PIPPFITVLTGITTAMVAGAPPIEEVLP 87 (557)
T ss_pred CCEEEEEEecCCC---CCCCCeEEEEEEEEEE--CCEEEEEEEEEECCCC--CCChhHHhhcCCCHHHHhCCCCHHHHHH
Confidence 5799999999997 5677999999999995 7899999999999985 5999999999999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC---CCCCCHHHHHHHcCCCC
Q 017267 176 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG---GVRCNLKEAVEMAGLAW 252 (374)
Q Consensus 176 ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~---~~~~~L~~l~~~lgI~~ 252 (374)
+|.+|+++. .+|+||+.||+ .||+.+|+++|+++| .+.|+||..+++.+++ ..+++|++++++||++.
T Consensus 88 ~f~~fl~~~------~lVaHNa~FD~-~fL~~~~~r~g~~~~--~~~~iDTl~lar~l~~~~~~~~~~L~~L~~~~gi~~ 158 (557)
T PRK07883 88 AFLEFARGA------VLVAHNAPFDI-GFLRAAAARCGYPWP--GPPVLCTVRLARRVLPRDEAPNVRLSTLARLFGATT 158 (557)
T ss_pred HHHHHhcCC------EEEEeCcHHHH-HHHHHHHHHcCCCCC--CCCcEecHHHHHHhcccCCCCCCCHHHHHHHCCccc
Confidence 999999864 35678899996 899999999999875 3579999999888774 45789999999999997
Q ss_pred CCCCCcHHHHHHHHHHHHHHHHHccCccc
Q 017267 253 QGRAHCGLDDAKNTARLLALLMHRGFKFS 281 (374)
Q Consensus 253 ~g~~HrALdDA~atA~l~~~ll~~g~~~~ 281 (374)
+ .+|+|++||++||+||.+++++....+
T Consensus 159 ~-~~H~Al~DA~ata~l~~~l~~~~~~~~ 186 (557)
T PRK07883 159 T-PTHRALDDARATVDVLHGLIERLGNLG 186 (557)
T ss_pred C-CCCCHHHHHHHHHHHHHHHHHHHHhcC
Confidence 6 579999999999999999998765443
No 32
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.96 E-value=5.8e-29 Score=271.16 Aligned_cols=164 Identities=22% Similarity=0.259 Sum_probs=146.5
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 175 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ 175 (374)
..|||||+||||++ + .++|||||||+++ +|+++++|+++|||.. .|+++++++||||++||++||+|++|++
T Consensus 7 ~~~vvvD~ETTGl~---~-~d~IIeIgaV~v~--~g~i~~~f~~lv~P~~--~i~~~~~~ltGIt~e~l~~ap~~~ev~~ 78 (820)
T PRK07246 7 RKYAVVDLEATGAG---P-NASIIQVGIVIIE--GGEIIDSYTTDVNPHE--PLDEHIKHLTGITDQQLAQAPDFSQVAR 78 (820)
T ss_pred CCEEEEEEecCCcC---C-CCeEEEEEEEEEE--CCEEEEEEEEEeCcCC--CCCHhHhhcCCCCHHHHhcCCCHHHHHH
Confidence 57999999999973 3 4899999999994 8999999999999985 5999999999999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHcCCCCCC
Q 017267 176 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMAGLAWQG 254 (374)
Q Consensus 176 ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~-~~~~~L~~l~~~lgI~~~g 254 (374)
+|.+|+++. .+|+||++||+ .||++++++.|++.+ ++++||..+++.+++ ..+++|++++++||++..
T Consensus 79 ~~~~~l~~~------~lVaHN~~FD~-~fL~~~~~~~g~~~~---~~~iDT~~la~~~~p~~~~~~L~~L~~~lgl~~~- 147 (820)
T PRK07246 79 HIYDLIEDC------IFVAHNVKFDA-NLLAEALFLEGYELR---TPRVDTVELAQVFFPTLEKYSLSHLSRELNIDLA- 147 (820)
T ss_pred HHHHHhCCC------EEEEECcHHHH-HHHHHHHHHcCCCCC---CCceeHHHHHHHHhCCCCCCCHHHHHHHcCCCCC-
Confidence 999999875 35778899997 899999988887653 578999999988886 468999999999999976
Q ss_pred CCCcHHHHHHHHHHHHHHHHHccC
Q 017267 255 RAHCGLDDAKNTARLLALLMHRGF 278 (374)
Q Consensus 255 ~~HrALdDA~atA~l~~~ll~~g~ 278 (374)
++|||++||++||+||.+|+++..
T Consensus 148 ~~H~Al~DA~ata~L~~~l~~~l~ 171 (820)
T PRK07246 148 DAHTAIADARATAELFLKLLQKIE 171 (820)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHh
Confidence 689999999999999999997753
No 33
>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=99.96 E-value=9.1e-29 Score=225.02 Aligned_cols=162 Identities=19% Similarity=0.180 Sum_probs=130.7
Q ss_pred EEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhC-CCCHHHHHHHH
Q 017267 99 VVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDR-GVTLSEALLRH 177 (374)
Q Consensus 99 VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~-ap~~~eVl~ef 177 (374)
++||+||||+ ++..++|||||||+++ .++.++++|+++|+|.....+++.+..+||||++||.+ ++++.+++++|
T Consensus 1 ~~~D~ETTGl---~~~~d~Iieig~v~v~-~~~~~~~~~~~~v~p~~~~~~~~~a~~ihGIt~e~l~~~~~~~~~~l~~~ 76 (183)
T cd06138 1 LFYDYETFGL---NPSFDQILQFAAIRTD-ENFNEIEPFNIFCRLPPDVLPSPEALIVTGITPQQLLKEGLSEYEFIAKI 76 (183)
T ss_pred CEEEeecCCC---CCCCCceEEEEEEEEC-CCCCCccceeEEEeCCCCCCCCHHHHHHhCCCHHHHHhcCCCHHHHHHHH
Confidence 5899999997 5678999999999996 34566799999999974224788899999999999998 99999999999
Q ss_pred HHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCCCCC----CCceeehHHHHHHhc--------------CCCC
Q 017267 178 DKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWKPPY----FNRWINLKVPFHEVF--------------GGVR 238 (374)
Q Consensus 178 ~~fl~~~~l~~~n~~vv~~-g~fDl~~fL~~~~~~~gi~~P~~----~~~~iDt~~l~~~~~--------------~~~~ 238 (374)
.+|+++.. .+.|+|| ..||+ .||+.++++.++..+.. .+.++|+..+++..+ +.++
T Consensus 77 ~~~~~~~~----~~lVahn~~~FD~-~fL~~~~~r~~~~~~~~~~~~~~~~~dtl~l~r~~~~~~~~~~~~~~~~~~~~~ 151 (183)
T cd06138 77 HRLFNTPG----TCIVGYNNIRFDD-EFLRFAFYRNLYDPYTWEWKNGNSRWDLLDVVRAYYALRPDGIVWPKNDDGKPS 151 (183)
T ss_pred HHHHccCC----CcEEeeCchhhHH-HHHHHHHHHCCCcccceeccCCccccccHHHHHHHHhhChhhccCccccCCCcc
Confidence 99997421 2356676 58996 89999999998754311 235688887666432 2346
Q ss_pred CCHHHHHHHcCCCCCCCCCcHHHHHHHHHHHH
Q 017267 239 CNLKEAVEMAGLAWQGRAHCGLDDAKNTARLL 270 (374)
Q Consensus 239 ~~L~~l~~~lgI~~~g~~HrALdDA~atA~l~ 270 (374)
++|++++++|||+.. ++|||++||++||+|+
T Consensus 152 ~~L~~l~~~~gi~~~-~~H~Al~Da~~ta~l~ 182 (183)
T cd06138 152 FKLEDLAQANGIEHS-NAHDALSDVEATIALA 182 (183)
T ss_pred hhHHHHHHHCCCCcc-ccccHHHHHHHHHHHh
Confidence 889999999999985 6899999999999875
No 34
>PRK05601 DNA polymerase III subunit epsilon; Validated
Probab=99.96 E-value=5.9e-28 Score=239.20 Aligned_cols=164 Identities=15% Similarity=0.152 Sum_probs=138.0
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 175 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ 175 (374)
..||||||||||+ ++..++|||||||+++ .+|+++++|++||||.. + +.+ ..|||||++||.+||+|++|++
T Consensus 46 ~~fVvlDiETTGL---dp~~drIIeIgAV~i~-~~g~ive~f~tLVnP~~-~-~~p--~~LHGIT~e~La~AP~f~eVl~ 117 (377)
T PRK05601 46 APFVAVSIQTSGI---HPSTSRLITIDAVTLT-ADGEEVEHFHAVLNPGE-D-PGP--FHLHGLSAEEFAQGKRFSQILK 117 (377)
T ss_pred CCEEEEEEECCCC---CCCCCeEEEEEEEEEE-cCCEEEEEEEEEECcCC-C-CCC--ccccCCCHHHHhcCCCHHHHHH
Confidence 4799999999997 6788999999999996 47899999999999986 3 333 3799999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCC-------------------------CCCCCCCceeehHHHH
Q 017267 176 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKI-------------------------WKPPYFNRWINLKVPF 230 (374)
Q Consensus 176 ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi-------------------------~~P~~~~~~iDt~~l~ 230 (374)
+|.+||++.+ +|+||+.||+ +||..++++.+. ...+..+.++||+.+.
T Consensus 118 el~~fL~g~v------LVaHNA~FD~-~FL~~e~~r~~~~a~~~n~~~~r~~~~~~~~~rr~~~g~~p~p~~~iDTL~LA 190 (377)
T PRK05601 118 PLDRLIDGRT------LILHNAPRTW-GFIVSEAKRAMNAAARANRNRNRGNRRGGRGRRRQRVGHIPKPVVIVDTLATA 190 (377)
T ss_pred HHHHHhCCCE------EEEECcHHHH-HHHHHHHHHhhhhhhhcccccccccccccccccccccCCCCCCCCEEEhHHHH
Confidence 9999999864 5788899997 999999877421 1112346899999999
Q ss_pred HHhcC-CCCCCHHHHHHHcCCCCC---------CCCCcHH--HHHHHHHHHHHHHH
Q 017267 231 HEVFG-GVRCNLKEAVEMAGLAWQ---------GRAHCGL--DDAKNTARLLALLM 274 (374)
Q Consensus 231 ~~~~~-~~~~~L~~l~~~lgI~~~---------g~~HrAL--dDA~atA~l~~~ll 274 (374)
++++. .++++|.+++++|||+.. ...|+|| +||+.+++||.++.
T Consensus 191 Rrl~p~l~~~rL~~La~~lGi~~p~~~A~~~Ra~~p~~~l~~~Da~ll~~l~~~~~ 246 (377)
T PRK05601 191 RRQGVALDDIRIRGVAHTLGLDAPAAEASVERAQVPHRQLCREETLLVARLYFALR 246 (377)
T ss_pred HHHcCCCCCCCHHHHHHHhCCCCCchhhhhhhhcCChhhhhhHHHHHHHHHHHHhh
Confidence 98874 578999999999999871 1458888 69999999999873
No 35
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.96 E-value=2.8e-28 Score=269.23 Aligned_cols=166 Identities=23% Similarity=0.307 Sum_probs=147.9
Q ss_pred ccEEEEEEeeCCCCCCCCC-CCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPY-PQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEAL 174 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~-~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl 174 (374)
+.|||||+||||. ++. .++|||||||+++ +|+++++|+++|||.. .|+++++++||||++||++||+|++|+
T Consensus 3 ~~~vvvD~ETTG~---~p~~~d~IIeigav~v~--~~~i~~~f~~~v~P~~--~i~~~~~~ltGIt~~~l~~ap~f~ev~ 75 (928)
T PRK08074 3 KRFVVVDLETTGN---SPKKGDKIIQIAAVVVE--DGEILERFSSFVNPER--PIPPFITELTGISEEMVKQAPLFEDVA 75 (928)
T ss_pred CCEEEEEEeCCCC---CCCCCCcEEEEEEEEEE--CCEEEEEEEEEECcCC--CCCHHHhhcCCCCHHHHhcCCCHHHHH
Confidence 5799999999996 333 4899999999994 8999999999999985 599999999999999999999999999
Q ss_pred HHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHcCCCCC
Q 017267 175 LRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMAGLAWQ 253 (374)
Q Consensus 175 ~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~-~~~~~L~~l~~~lgI~~~ 253 (374)
++|.+|+++. .+|+||+.||+ .||+.++++.|++.+ .+++|||..+.+.+++ ..+++|.+++++|||+..
T Consensus 76 ~~l~~~l~~~------~~VaHN~~FD~-~fL~~~~~~~g~~~~--~~~~iDt~~la~~~~p~~~~~~L~~l~~~l~i~~~ 146 (928)
T PRK08074 76 PEIVELLEGA------YFVAHNVHFDL-NFLNEELERAGYTEI--HCPKLDTVELARILLPTAESYKLRDLSEELGLEHD 146 (928)
T ss_pred HHHHHHhCCC------eEEEEChHHHH-HHHHHHHHHcCCCCC--CCCeeeHHHHHHHhcCCCCCCCHHHHHHhCCCCCC
Confidence 9999999875 35778889996 899999999998643 5689999999988875 468999999999999975
Q ss_pred CCCCcHHHHHHHHHHHHHHHHHccC
Q 017267 254 GRAHCGLDDAKNTARLLALLMHRGF 278 (374)
Q Consensus 254 g~~HrALdDA~atA~l~~~ll~~g~ 278 (374)
++|+|++||++||+||.+|+++..
T Consensus 147 -~~H~Al~DA~ata~l~~~l~~~~~ 170 (928)
T PRK08074 147 -QPHRADSDAEVTAELFLQLLNKLE 170 (928)
T ss_pred -CCCChHHHHHHHHHHHHHHHHHHH
Confidence 789999999999999999988654
No 36
>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=99.95 E-value=1.2e-27 Score=262.22 Aligned_cols=164 Identities=24% Similarity=0.266 Sum_probs=146.7
Q ss_pred cEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHH
Q 017267 97 YFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLR 176 (374)
Q Consensus 97 ~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~e 176 (374)
+|||||+||||+ ++..++|||||||+++ +|+++++|+++|+|.. .|+++++++||||++||+++|+|++|+++
T Consensus 1 ~~vvvD~ETTG~---~~~~~~IIeig~v~v~--~~~i~~~f~~~v~P~~--~i~~~~~~ltGIt~e~l~~ap~~~ev~~~ 73 (850)
T TIGR01407 1 RYAVVDLETTGT---QLSFDKIIQIGIVVVE--DGEIVDTFHTDVNPNE--PIPPFIQELTGISDNMLQQAPYFSQVAQE 73 (850)
T ss_pred CEEEEEEECCCC---CCCCCeEEEEEEEEEE--CCEEEEEEEEEeCCCC--CCChhhhhhcCcCHHHHhCCCCHHHHHHH
Confidence 489999999997 4567999999999995 7899999999999985 59999999999999999999999999999
Q ss_pred HHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHcCCCCCCC
Q 017267 177 HDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMAGLAWQGR 255 (374)
Q Consensus 177 f~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~-~~~~~L~~l~~~lgI~~~g~ 255 (374)
|.+|+++. +.|+||+.||+ .||+.++++.|++. +.+.++||..+.+.+++ .++++|.+++++||++.. +
T Consensus 74 l~~~l~~~------~~VahN~~fD~-~fL~~~~~~~g~~~--~~~~~iDt~~l~~~~~p~~~~~~L~~l~~~~gi~~~-~ 143 (850)
T TIGR01407 74 IYDLLEDG------IFVAHNVHFDL-NFLAKALKDCGYEP--LPKPRIDTVELAQIFFPTEESYQLSELSEALGLTHE-N 143 (850)
T ss_pred HHHHhCCC------EEEEeCcHHHH-HHHHHHHHHcCCCC--CCCCeEeHHHHHHHhcCCCCCCCHHHHHHHCCCCCC-C
Confidence 99999865 35778889996 99999999999864 34689999999888875 467999999999999986 6
Q ss_pred CCcHHHHHHHHHHHHHHHHHcc
Q 017267 256 AHCGLDDAKNTARLLALLMHRG 277 (374)
Q Consensus 256 ~HrALdDA~atA~l~~~ll~~g 277 (374)
+|+|++||++||+||.+|+++.
T Consensus 144 ~H~Al~DA~ata~l~~~l~~~~ 165 (850)
T TIGR01407 144 PHRADSDAQATAELLLLLFEKM 165 (850)
T ss_pred CCChHHHHHHHHHHHHHHHHHH
Confidence 8999999999999999998764
No 37
>PRK07983 exodeoxyribonuclease X; Provisional
Probab=99.95 E-value=1.8e-27 Score=222.98 Aligned_cols=159 Identities=20% Similarity=0.197 Sum_probs=131.3
Q ss_pred EEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHH
Q 017267 98 FVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRH 177 (374)
Q Consensus 98 ~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ef 177 (374)
++|||+||||++ .+|||||+|+| .+|+++++|++||+|.. .|+++++++||||++||.++|++.+|+++|
T Consensus 2 ~~vlD~ETTGl~------~~IieIg~v~v--~~~~i~~~~~~lv~P~~--~i~~~~~~ihgIt~e~v~~ap~~~ev~~~~ 71 (219)
T PRK07983 2 LRVIDTETCGLQ------GGIVEIASVDV--IDGKIVNPMSHLVRPDR--PISPQAMAIHRITEAMVADKPWIEDVIPHY 71 (219)
T ss_pred eEEEEEECCCCC------CCCEEEEEEEE--ECCEEEEEEEEEECcCC--CCCHHHhhcCCCCHHHHcCCCCHHHHHHHH
Confidence 799999999973 24999999999 48999999999999996 499999999999999999999999999985
Q ss_pred HHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCHHHHHHHcCCCCC----
Q 017267 178 DKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAVEMAGLAWQ---- 253 (374)
Q Consensus 178 ~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~~~~~L~~l~~~lgI~~~---- 253 (374)
+++ .++|+||+.||. +||.. ...+||||..+++.+++..+++|..+++++|++..
T Consensus 72 ---~~~------~~lVaHNa~FD~-~~L~~-----------~~~~~idTl~lar~l~p~~~~~l~~L~~~~~l~~~~~~~ 130 (219)
T PRK07983 72 ---YGS------EWYVAHNASFDR-RVLPE-----------MPGEWICTMKLARRLWPGIKYSNMALYKSRKLNVQTPPG 130 (219)
T ss_pred ---cCC------CEEEEeCcHhhH-HHHhC-----------cCCCcEeHHHHHHHHccCCCCCHHHHHHHcCCCCCCCCC
Confidence 443 356788999996 88842 13579999999999887555999999999998642
Q ss_pred CCCCcHHHHHHHHHHHHHHHHHccCcccccccccc
Q 017267 254 GRAHCGLDDAKNTARLLALLMHRGFKFSITNSLMW 288 (374)
Q Consensus 254 g~~HrALdDA~atA~l~~~ll~~g~~~~i~~~l~~ 288 (374)
..+|||++||++||+||.+|++... .++.+++.+
T Consensus 131 ~~aHrAl~Da~ata~ll~~l~~~~~-~~~~~l~~~ 164 (219)
T PRK07983 131 LHHHRALYDCYITAALLIDIMNTSG-WTAEEMADI 164 (219)
T ss_pred CCCCcHHHHHHHHHHHHHHHHHHcC-CCHHHHHHH
Confidence 3689999999999999999996532 234444443
No 38
>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=99.95 E-value=2e-27 Score=205.02 Aligned_cols=156 Identities=28% Similarity=0.319 Sum_probs=136.4
Q ss_pred EEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHHH
Q 017267 99 VVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRHD 178 (374)
Q Consensus 99 VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ef~ 178 (374)
|+||+||||+ .+..++|||||+|+++. +++++++|+.+|+|.. .++++++++|||+++++.+++++.+++.+|.
T Consensus 1 v~~D~Ettg~---~~~~~~iiei~~v~~~~-~~~~~~~~~~~i~p~~--~~~~~~~~~~gi~~~~~~~~~~~~~~~~~~~ 74 (159)
T cd06127 1 VVFDTETTGL---DPKKDRIIEIGAVKVDG-GIEIVERFETLVNPGR--PIPPEATAIHGITDEMLADAPPFEEVLPEFL 74 (159)
T ss_pred CeEEeeCCCc---CCCCCeEEEEEEEEEEC-CcChhhhhheeeCcCC--cCCHhheeccCCCHHHHhcCCCHHHHHHHHH
Confidence 6899999997 45789999999999983 4688999999999996 4899999999999999999999999999999
Q ss_pred HHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC-CCCCHHHH-HHHcCCCCCCCC
Q 017267 179 KWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG-VRCNLKEA-VEMAGLAWQGRA 256 (374)
Q Consensus 179 ~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~-~~~~L~~l-~~~lgI~~~g~~ 256 (374)
+|+++. .+|+||+.||+ .||++.+.+++. +.....|+|++.+++.+++. +.++|..+ +++++++.. ++
T Consensus 75 ~~l~~~------~~v~~n~~fD~-~~l~~~~~~~~~--~~~~~~~iDt~~~~~~~~~~~~~~~l~~~~~~~~~~~~~-~~ 144 (159)
T cd06127 75 EFLGGR------VLVAHNASFDL-RFLNRELRRLGG--PPLPNPWIDTLRLARRLLPGLRSHRLGLLLAERYGIPLE-GA 144 (159)
T ss_pred HHHCCC------EEEEeCcHhhH-HHHHHHHHHhCC--CCCCCCeeEHHHHHHHHcCCCCcCchHHHHHHHcCCCCC-CC
Confidence 999873 46778889996 899999999883 33457899999999988864 46889988 899999764 78
Q ss_pred CcHHHHHHHHHHHH
Q 017267 257 HCGLDDAKNTARLL 270 (374)
Q Consensus 257 HrALdDA~atA~l~ 270 (374)
|+|++||++|++||
T Consensus 145 H~Al~Da~~t~~l~ 158 (159)
T cd06127 145 HRALADALATAELL 158 (159)
T ss_pred CCcHHHHHHHHHHh
Confidence 99999999999987
No 39
>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=99.95 E-value=5.3e-28 Score=215.90 Aligned_cols=147 Identities=20% Similarity=0.275 Sum_probs=122.7
Q ss_pred EEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCH-------H
Q 017267 99 VVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTL-------S 171 (374)
Q Consensus 99 VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~-------~ 171 (374)
||||+||||+ ++..++|||||||++ ++|+++ |++||||.. .++++++++||||++||+++|++ +
T Consensus 1 v~lD~EttGl---~~~~d~ii~Ig~V~v--~~g~i~--~~~~v~P~~--~i~~~~~~i~GIt~~~l~~a~~~~~~~~~~~ 71 (161)
T cd06137 1 VALDCEMVGL---ADGDSEVVRISAVDV--LTGEVL--IDSLVRPSV--RVTDWRTRFSGVTPADLEEAAKAGKTIFGWE 71 (161)
T ss_pred CEEEeeeeeE---cCCCCEEEEEEEEEc--CCCeEE--EeccccCCC--CCCccceeccCCCHHHHhhhhhcCCccccHH
Confidence 6899999997 566899999999999 588886 999999985 59999999999999999998764 5
Q ss_pred HHHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC----CCCCHHHHHHH
Q 017267 172 EALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG----VRCNLKEAVEM 247 (374)
Q Consensus 172 eVl~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~----~~~~L~~l~~~ 247 (374)
+|+++|.+|+++. .++|+|++.||+ .||+.. .++|+||..+++.+++. .+++|++++++
T Consensus 72 ~~~~~~~~~i~~~-----~vlVgHn~~fD~-~fL~~~-----------~~~~iDT~~l~~~~~~~~~~~~~~~L~~L~~~ 134 (161)
T cd06137 72 AARAALWKFIDPD-----TILVGHSLQNDL-DALRMI-----------HTRVVDTAILTREAVKGPLAKRQWSLRTLCRD 134 (161)
T ss_pred HHHHHHHHhcCCC-----cEEEeccHHHHH-HHHhCc-----------CCCeeEehhhhhhccCCCcCCCCccHHHHHHH
Confidence 8999999999872 135667789997 898631 23699999999887753 47999999986
Q ss_pred -cCCCCC--CCCCcHHHHHHHHHHHHH
Q 017267 248 -AGLAWQ--GRAHCGLDDAKNTARLLA 271 (374)
Q Consensus 248 -lgI~~~--g~~HrALdDA~atA~l~~ 271 (374)
||++.. ..+|+|++||++||+||+
T Consensus 135 ~~~~~~~~~~~~H~A~~DA~at~~l~~ 161 (161)
T cd06137 135 FLGLKIQGGGEGHDSLEDALAAREVVL 161 (161)
T ss_pred HCCchhcCCCCCCCcHHHHHHHHHHhC
Confidence 698763 257999999999999874
No 40
>COG0847 DnaQ DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]
Probab=99.95 E-value=2.2e-26 Score=216.82 Aligned_cols=166 Identities=25% Similarity=0.275 Sum_probs=146.9
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEE-EEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEAC-FQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEAL 174 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iids-F~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl 174 (374)
..+||||+||||+ ++..++|||||||.+ .++++++. |+++|+|.. + +++++.++||||.+||.++|.|.+|+
T Consensus 13 ~~~vv~D~ETtg~---~~~~~~iieIgav~~--~~~~i~~~~~~~~v~P~~-~-i~~~~~~i~git~e~l~~~p~~~~v~ 85 (243)
T COG0847 13 TRFVVIDLETTGL---NPKKDRIIEIGAVTL--EDGRIVERSFHTLVNPER-P-IPPEIFKIHGITDEMLADAPKFAEVL 85 (243)
T ss_pred CcEEEEecccCCC---CCCCCceEEEEeEEE--ECCeeecceeEEEECCCC-C-CChhhhhhcCCCHHHHhcCCCHHHHH
Confidence 4799999999997 567899999999999 47888755 999999964 4 99999999999999999999999999
Q ss_pred HHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC-CCCCHHHHHHHcCCCCC
Q 017267 175 LRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG-VRCNLKEAVEMAGLAWQ 253 (374)
Q Consensus 175 ~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~-~~~~L~~l~~~lgI~~~ 253 (374)
++|.+|+++. ..+|+||+.||+ .||..++.+++...+ ...++|+..+.+..++. ..++|+.+++++||+..
T Consensus 86 ~~~~~~i~~~-----~~~Vahna~fD~-~fl~~~~~~~~~~~~--~~~~~~t~~~~r~~~~~~~~~~L~~l~~~~gi~~~ 157 (243)
T COG0847 86 PEFLDFIGGL-----RLLVAHNAAFDV-GFLRVESERLGIEIP--GDPVLDTLALARRHFPGFDRSSLDALAERLGIDRN 157 (243)
T ss_pred HHHHHHHCCC-----CeEEEEchhhcH-HHHHHHHHHcCCCcc--cCceehHHHHHHHHcCCCccchHHHHHHHcCCCcC
Confidence 9999999983 236788899997 999999999998865 56899999999988866 78999999999999843
Q ss_pred -CCCCcHHHHHHHHHHHHHHHHHc
Q 017267 254 -GRAHCGLDDAKNTARLLALLMHR 276 (374)
Q Consensus 254 -g~~HrALdDA~atA~l~~~ll~~ 276 (374)
..+|+|+.||.+||.+|.++...
T Consensus 158 ~~~~H~Al~Da~~~a~~~~~~~~~ 181 (243)
T COG0847 158 PFHPHRALFDALALAELFLLLQTG 181 (243)
T ss_pred CcCCcchHHHHHHHHHHHHHHHhc
Confidence 25699999999999999999885
No 41
>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=99.94 E-value=1.3e-26 Score=205.05 Aligned_cols=149 Identities=20% Similarity=0.238 Sum_probs=116.6
Q ss_pred EEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHHH
Q 017267 99 VVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRHD 178 (374)
Q Consensus 99 VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ef~ 178 (374)
||||+||||++ +. ++++||++|.+...+|+++ |++||+|.. .++++++++||||++||++||+|.+|+++|.
T Consensus 1 v~lD~EttGl~---~~-~~~~~i~~v~~v~~~~~~~--~~~~v~P~~--~i~~~~~~ihGIt~~~v~~a~~~~~~~~~l~ 72 (152)
T cd06144 1 VALDCEMVGVG---PD-GSESALARVSIVNEDGNVV--YDTYVKPQE--PVTDYRTAVSGIRPEHLKDAPDFEEVQKKVA 72 (152)
T ss_pred CEEEEEeeccc---CC-CCEEEEEEEEEEeCCCCEE--EEEEECCCC--CCCcccccCCCCCHHHHcCCCCHHHHHHHHH
Confidence 68999999973 33 3677777664432456654 999999985 4999999999999999999999999999999
Q ss_pred HHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC--CCCCCHHHHHHH-cCCCCCCC
Q 017267 179 KWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG--GVRCNLKEAVEM-AGLAWQGR 255 (374)
Q Consensus 179 ~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~--~~~~~L~~l~~~-lgI~~~g~ 255 (374)
+|+++. .+|+||+.||+ .||+ +..| .+.++|+..+...... .++++|++++++ +|++....
T Consensus 73 ~~l~~~------vlVgHn~~fD~-~~L~-------~~~~--~~~~~dt~~l~~~~~~~~~~~~sL~~l~~~~lgi~~~~~ 136 (152)
T cd06144 73 ELLKGR------ILVGHALKNDL-KVLK-------LDHP--KKLIRDTSKYKPLRKTAKGKSPSLKKLAKQLLGLDIQEG 136 (152)
T ss_pred HHhCCC------EEEEcCcHHHH-HHhc-------CcCC--CccEEEeEEeeccccccCCCChhHHHHHHHHcCcccCCC
Confidence 999875 35678889997 8886 2333 2467887654332222 467999999997 59987546
Q ss_pred CCcHHHHHHHHHHHHH
Q 017267 256 AHCGLDDAKNTARLLA 271 (374)
Q Consensus 256 ~HrALdDA~atA~l~~ 271 (374)
+|||++||++|++||+
T Consensus 137 ~H~Al~DA~at~~l~~ 152 (152)
T cd06144 137 EHSSVEDARAAMRLYR 152 (152)
T ss_pred CcCcHHHHHHHHHHhC
Confidence 8999999999999874
No 42
>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=99.94 E-value=4.2e-26 Score=206.01 Aligned_cols=161 Identities=15% Similarity=0.149 Sum_probs=122.9
Q ss_pred EEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCC--CCCCcchhhh---cCCChHHHhCCCCHHH
Q 017267 98 FVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCN--QLLSDFCKDL---TGIQQIQVDRGVTLSE 172 (374)
Q Consensus 98 ~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~--p~Is~~~~~L---TGIt~e~v~~ap~~~e 172 (374)
+|+||+||||+ +|..++|||||||+++...+++.++|+++|+|... +.+++++.++ ||||++|+.++|++.+
T Consensus 1 lv~iD~ETTGl---~p~~d~IieIgaV~~~~~~~~i~~~f~~~i~p~~~~~~~~~~~~~~ih~~tgIt~~~l~~~~~~~~ 77 (173)
T cd06135 1 LVWIDLEMTGL---DPEKDRILEIACIITDGDLNIIAEGPELVIHQPDEVLDGMDEWCTEMHTKSGLTERVRASTVTLAQ 77 (173)
T ss_pred CEEEEEecCCC---CCCCCeeEEEEEEEEeCCCceecCceeEEECCCHHHhhhccHHHHHcccccccHHHHHhCCCCHHH
Confidence 58999999997 56789999999999986567888999999999851 1234555666 5999999999999999
Q ss_pred HHHHHHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCCCCCCCceeehH---HHHHHhcCCCCCCHHHHHHHc
Q 017267 173 ALLRHDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWKPPYFNRWINLK---VPFHEVFGGVRCNLKEAVEMA 248 (374)
Q Consensus 173 Vl~ef~~fl~~~~l~~~n~~vv~~-g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~---~l~~~~~~~~~~~L~~l~~~l 248 (374)
|+.+|.+|+++..-. ....+++| .+||+ .||+.++++.|. ++.++.+|+. .+.+.+++. +. ++
T Consensus 78 vl~~~~~f~~~~~~~-~~~~lvgh~~~FD~-~fL~~~~~~~~~---~~~~~~~D~~~l~~l~~~l~p~----~~----~~ 144 (173)
T cd06135 78 AEAELLEFIKKYVPK-GKSPLAGNSVHQDR-RFLDKYMPELEE---YLHYRILDVSSIKELARRWYPE----IY----RK 144 (173)
T ss_pred HHHHHHHHHHHhcCC-CCCceeecchhhCH-HHHHHHHHHHhc---cCCcchhhHHHHHHHHHHhCcH----hh----hc
Confidence 999999999863100 11234554 59997 899999998873 2456778984 455555542 11 15
Q ss_pred CCCCCCCCCcHHHHHHHHHHHHHHHHH
Q 017267 249 GLAWQGRAHCGLDDAKNTARLLALLMH 275 (374)
Q Consensus 249 gI~~~g~~HrALdDA~atA~l~~~ll~ 275 (374)
++.. +.+||||+||.+|+.+|...++
T Consensus 145 ~~~~-~~~HrAl~Da~~~~~~~~~~~~ 170 (173)
T cd06135 145 APKK-KGTHRALDDIRESIAELKYYRE 170 (173)
T ss_pred CCCC-CCCcchHHHHHHHHHHHHHHHH
Confidence 6654 4689999999999999998775
No 43
>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=99.94 E-value=2.9e-26 Score=202.69 Aligned_cols=143 Identities=20% Similarity=0.240 Sum_probs=117.7
Q ss_pred EEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCC-CHHHHHHHH
Q 017267 99 VVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGV-TLSEALLRH 177 (374)
Q Consensus 99 VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap-~~~eVl~ef 177 (374)
|++|+||||... .+||+||++|.+ +|++ .|++||||.. .++++++++||||++||.++| ++++|+++|
T Consensus 1 ~~iD~E~~g~~~----g~ei~~i~~v~~---~~~~--~f~~lv~P~~--~i~~~~t~itGIt~~~l~~a~~~~~~v~~~~ 69 (150)
T cd06145 1 FALDCEMCYTTD----GLELTRVTVVDE---NGKV--VLDELVKPDG--EIVDYNTRFSGITEEMLENVTTTLEDVQKKL 69 (150)
T ss_pred CEEeeeeeeecC----CCEEEEEEEEeC---CCCE--EEEEeECCCC--ccchhccCcCCCCHHHhccCCCCHHHHHHHH
Confidence 589999999742 299999999976 4555 4999999985 599999999999999999985 999999999
Q ss_pred HHHHh-hcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHc-CCCCC-
Q 017267 178 DKWLE-NKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMA-GLAWQ- 253 (374)
Q Consensus 178 ~~fl~-~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~-~~~~~L~~l~~~l-gI~~~- 253 (374)
.+|++ +. .+|.||++||+ .||+.. .++++||..+++..++ .++++|+.++++| ++...
T Consensus 70 ~~fl~~~~------vlVgHn~~fD~-~fL~~~-----------~~~~iDT~~l~r~~~~~~~~~~L~~L~~~~~~~~i~~ 131 (150)
T cd06145 70 LSLISPDT------ILVGHSLENDL-KALKLI-----------HPRVIDTAILFPHPRGPPYKPSLKNLAKKYLGRDIQQ 131 (150)
T ss_pred HHHhCCCC------EEEEcChHHHH-HHhhcc-----------CCCEEEcHHhccccCCCCCChhHHHHHHHHCCcceeC
Confidence 99997 43 35667789998 898631 2468999998887664 3468999999887 54332
Q ss_pred -CCCCcHHHHHHHHHHHH
Q 017267 254 -GRAHCGLDDAKNTARLL 270 (374)
Q Consensus 254 -g~~HrALdDA~atA~l~ 270 (374)
+.+|||++||++|++||
T Consensus 132 ~~~~H~Al~DA~~t~~l~ 149 (150)
T cd06145 132 GEGGHDSVEDARAALELV 149 (150)
T ss_pred CCCCCCcHHHHHHHHHHh
Confidence 36899999999999987
No 44
>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=99.93 E-value=6.9e-26 Score=201.76 Aligned_cols=149 Identities=20% Similarity=0.220 Sum_probs=118.9
Q ss_pred EEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHHH
Q 017267 99 VVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRHD 178 (374)
Q Consensus 99 VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ef~ 178 (374)
||||+||||+... ...++|++|++|.+ +|+++ |++||||.. +++++++++||||++||++||++++|+++|.
T Consensus 1 v~~D~EttGl~~~-~~~~~i~~i~~v~~---~g~~~--~~~lv~P~~--~i~~~~~~i~GIt~~~l~~a~~~~~v~~~l~ 72 (157)
T cd06149 1 VAIDCEMVGTGPG-GRESELARCSIVNY---HGDVL--YDKYIRPEG--PVTDYRTRWSGIRRQHLVNATPFAVAQKEIL 72 (157)
T ss_pred CEEEeEeccccCC-CCeEEEEEEEEEeC---CCCEE--EEEeECCCC--ccCccceECCCCCHHHHhcCCCHHHHHHHHH
Confidence 6899999997411 12588999988875 57775 999999985 5999999999999999999999999999999
Q ss_pred HHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHH--HHHh--cC-CCCCCHHHHHHHc---CC
Q 017267 179 KWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVP--FHEV--FG-GVRCNLKEAVEMA---GL 250 (374)
Q Consensus 179 ~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l--~~~~--~~-~~~~~L~~l~~~l---gI 250 (374)
+|+++.+ .|+|+..||+ .||+.. .| ...++||..+ +++. ++ .++++|+.++++| +|
T Consensus 73 ~~l~~~v------lV~Hn~~~D~-~~l~~~-------~~--~~~~~Dt~~l~~~~~~~~~p~~~~~~L~~L~~~~~~~~i 136 (157)
T cd06149 73 KILKGKV------VVGHAIHNDF-KALKYF-------HP--KHMTRDTSTIPLLNRKAGFPENCRVSLKVLAKRLLHRDI 136 (157)
T ss_pred HHcCCCE------EEEeCcHHHH-HHhccc-------CC--CcCEEECcccccchhhcCCcccCChhHHHHHHHHcChhh
Confidence 9998764 5677789998 788632 22 2357888654 4443 33 3569999999999 67
Q ss_pred CCCCCCCcHHHHHHHHHHHHH
Q 017267 251 AWQGRAHCGLDDAKNTARLLA 271 (374)
Q Consensus 251 ~~~g~~HrALdDA~atA~l~~ 271 (374)
+..++.|||++||++||+||.
T Consensus 137 ~~~~~~H~Al~DA~at~~l~~ 157 (157)
T cd06149 137 QVGRQGHSSVEDARATMELYK 157 (157)
T ss_pred cCCCCCcCcHHHHHHHHHHhC
Confidence 654467999999999999873
No 45
>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=99.93 E-value=1.4e-26 Score=200.02 Aligned_cols=162 Identities=27% Similarity=0.357 Sum_probs=127.0
Q ss_pred EEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHHH
Q 017267 99 VVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRHD 178 (374)
Q Consensus 99 VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ef~ 178 (374)
||||+||||+ ++..++|||||+|+++....++.++|++||+|...+.++++++++||||+++|++++++.+++.+|.
T Consensus 1 v~~D~Ettg~---~~~~~~iieig~v~~~~~~~~~~~~~~~~i~p~~~~~i~~~~~~~~gIt~~~l~~~~~~~~~~~~~~ 77 (164)
T PF00929_consen 1 VVFDTETTGL---DPRQDEIIEIGAVKVDDDENEEVESFNSLIRPEEPPKISPWATKVHGITQEDLEDAPSFEEALDEFE 77 (164)
T ss_dssp EEEEEEESSS---TTTTCTEEEEEEEEEETTTTEEEEEEEEEBEHSSHCSSEHHHHHHHHHCHHHHHCHCEHHHHHHHHH
T ss_pred cEEEeEcCCC---CCCCCeEEEEEEEEeeCCccccceeeeecccccccccCCHHHeeecCCcccccccCCcHHHHHHhhh
Confidence 7999999997 4467999999999998544447889999999997546999999999999999999999999999999
Q ss_pred HHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHc-CCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHcCCCCCCCC
Q 017267 179 KWLENKGIKNTNFAVVTWSNWDCRVMLESECRFK-KIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMAGLAWQGRA 256 (374)
Q Consensus 179 ~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~-gi~~P~~~~~~iDt~~l~~~~~~-~~~~~L~~l~~~lgI~~~g~~ 256 (374)
+|+.+.. .++.||+.||+ .++...+.+. +...| ....++|+..+.+..++ ...++|+.++++|+++..+.+
T Consensus 78 ~~~~~~~-----~~v~~n~~fd~-~~l~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~ 150 (164)
T PF00929_consen 78 EFLKKND-----ILVGHNASFDI-GFLRREDKRFLGKPIP-KPNPFIDTLELARALFPNRKKYSLDDLAEYFGIPFDGTA 150 (164)
T ss_dssp HHHHHHT-----EEEETTCCHEE-ESSHHHHHHHHHHHHH-HHHHECEEEEEHHHHHHHHHHHSHHHHHHHTTSSSTSTT
T ss_pred hhhhccc-----ccccccccchh-hHHHHhhhhccccccc-ccchhhhhhHHHHHHhhccccCCHHHHHHHcCCCCCCCC
Confidence 9999532 23444578997 7888888776 33332 11235555433333322 123799999999999987668
Q ss_pred CcHHHHHHHHHHHH
Q 017267 257 HCGLDDAKNTARLL 270 (374)
Q Consensus 257 HrALdDA~atA~l~ 270 (374)
|+|++||++|++||
T Consensus 151 H~Al~Da~~t~~l~ 164 (164)
T PF00929_consen 151 HDALDDARATAELF 164 (164)
T ss_dssp TSHHHHHHHHHHHH
T ss_pred cChHHHHHHHhCcC
Confidence 99999999999987
No 46
>PRK09182 DNA polymerase III subunit epsilon; Validated
Probab=99.93 E-value=6.3e-25 Score=214.07 Aligned_cols=171 Identities=20% Similarity=0.192 Sum_probs=130.5
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcC-CC---eEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSV-TG---QLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLS 171 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~-~G---~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~ 171 (374)
..+||||+||||+ ++..++|||||+|+++.. +| +++++|++||+|.. .|+++++++||||++||.+++...
T Consensus 37 ~~~vvlD~ETTGL---d~~~d~IIEIg~V~v~~~~~g~i~~v~~~~~~lv~P~~--~I~~~~t~IhGIt~e~v~~~~~~~ 111 (294)
T PRK09182 37 RLGVILDTETTGL---DPRKDEIIEIGMVAFEYDDDGRIGDVLDTFGGLQQPSR--PIPPEITRLTGITDEMVAGQTIDP 111 (294)
T ss_pred CeEEEEEeeCCCC---CCCCCeEEEEEEEEEEecCCCceeeeeeEEEEEeCCCC--CCCHHHHHhcCCCHHHHhcCCCcH
Confidence 5799999999997 567899999999999632 45 45789999999985 499999999999999999988765
Q ss_pred HHHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHh-cCCCCCCHHHHHHHcCC
Q 017267 172 EALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEV-FGGVRCNLKEAVEMAGL 250 (374)
Q Consensus 172 eVl~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~-~~~~~~~L~~l~~~lgI 250 (374)
+++ .+|++.. .++|+||+.||. .||++.+....- ..|.++....... .+..+++|+.++++||.
T Consensus 112 ~~l---~~fl~~~-----~vlVAHNA~FD~-~fL~~~~~~~~~------~~~~ct~~~i~~~~~~~~~~kL~~La~~~g~ 176 (294)
T PRK09182 112 AAV---DALIAPA-----DLIIAHNAGFDR-PFLERFSPVFAT------KPWACSVSEIDWSARGFEGTKLGYLAGQAGF 176 (294)
T ss_pred HHH---HHHhcCC-----CEEEEeCHHHHH-HHHHHHHHhccC------CcccccHHHHhhccccCCCCCHHHHHHHcCC
Confidence 554 5555543 356889999995 999887654321 2355554433322 23467999999999994
Q ss_pred CCCCCCCcHHHHHHHHHHHHHHHHHccCcccccccccc
Q 017267 251 AWQGRAHCGLDDAKNTARLLALLMHRGFKFSITNSLMW 288 (374)
Q Consensus 251 ~~~g~~HrALdDA~atA~l~~~ll~~g~~~~i~~~l~~ 288 (374)
.. .+|||++||.+|++||.+++.......+.+++..
T Consensus 177 -~~-~aHrAl~Da~Ata~ll~~~l~~~~~~~l~~Ll~~ 212 (294)
T PRK09182 177 -FH-EGHRAVDDCQALLELLARPLPETGQPPLAELLEA 212 (294)
T ss_pred -CC-CCcChHHHHHHHHHHHHHHHhhcCCcCHHHHHHH
Confidence 33 6899999999999999988876555555555554
No 47
>PRK05359 oligoribonuclease; Provisional
Probab=99.91 E-value=1.4e-23 Score=191.30 Aligned_cols=163 Identities=13% Similarity=0.084 Sum_probs=125.8
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEE-EEEEEeecCCCC--CCCCcchhhhc---CCChHHHhCCCC
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLE-ACFQTYVRPTCN--QLLSDFCKDLT---GIQQIQVDRGVT 169 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~ii-dsF~~lVkP~~~--p~Is~~~~~LT---GIt~e~v~~ap~ 169 (374)
+.|||||+||||+ +|..++|||||||+++. +..++ +.|+.+|+|... ..++++++.+| |||+++++++++
T Consensus 3 ~~~vvlD~ETTGL---dp~~d~IieIgaV~~~~-~~~~~~~~~~~~i~~~~~~l~~~~~~~~~ih~~tGIt~~~l~~~~~ 78 (181)
T PRK05359 3 DNLIWIDLEMTGL---DPERDRIIEIATIVTDA-DLNILAEGPVIAIHQSDEALAAMDEWNTRTHTRSGLIDRVRASTVS 78 (181)
T ss_pred CcEEEEEeecCCC---CCCCCeEEEEEEEEEcC-CceEcccceEEEECCCHHHhhccChHHHHhcccccCcHHHHhcCCC
Confidence 5799999999997 67889999999999962 33444 679999999852 12577888886 899999999999
Q ss_pred HHHHHHHHHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCCCCCCCceeeh--H-HHHHHhcCCCCCCHHHHH
Q 017267 170 LSEALLRHDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWKPPYFNRWINL--K-VPFHEVFGGVRCNLKEAV 245 (374)
Q Consensus 170 ~~eVl~ef~~fl~~~~l~~~n~~vv~~-g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt--~-~l~~~~~~~~~~~L~~l~ 245 (374)
+.+|+.+|++|+++... .++..+|+| ..||+ .||++.+.+.+..+ .++++|+ . .+++.+++. +
T Consensus 79 ~~e~~~~~l~fl~~~~~-~~~~~l~g~~v~FD~-~FL~~~~~~~~~~l---~~~~~Dv~tl~~l~r~~~P~----~---- 145 (181)
T PRK05359 79 EAEAEAQTLEFLKQWVP-AGKSPLCGNSIGQDR-RFLARYMPELEAYF---HYRNLDVSTLKELARRWKPE----I---- 145 (181)
T ss_pred HHHHHHHHHHHHHHhcC-CCCCceeecchhhCH-HHHHHHHHHhcccC---CCcccchhHHHHHHHHhChh----h----
Confidence 99999999999987654 233345665 59996 89999998776543 4678884 3 456665542 2
Q ss_pred HHcCCCCCCCCCcHHHHHHHHHHHHHHHHHcc
Q 017267 246 EMAGLAWQGRAHCGLDDAKNTARLLALLMHRG 277 (374)
Q Consensus 246 ~~lgI~~~g~~HrALdDA~atA~l~~~ll~~g 277 (374)
+++++.. ..|||++|++.+.+.+....+..
T Consensus 146 -~~~~~~~-~~HRal~D~~~s~~~~~~~~~~~ 175 (181)
T PRK05359 146 -LNGFKKQ-GTHRALADIRESIAELKYYREHF 175 (181)
T ss_pred -hhCCCCc-CCcccHHHHHHHHHHHHHHHHHh
Confidence 3577765 57999999999999888776543
No 48
>PRK11779 sbcB exonuclease I; Provisional
Probab=99.90 E-value=5.1e-23 Score=211.91 Aligned_cols=171 Identities=16% Similarity=0.119 Sum_probs=130.7
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCC-eEEEEEEEeecCCCCCCCCcchhhhcCCChHHHh-CCCCHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTG-QLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVD-RGVTLSEA 173 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G-~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~-~ap~~~eV 173 (374)
.+|||||+||||+ +|..|+|||||||+++. ++ .+.+.|+.+|+|.....+++.+..+||||++||. .+.+..++
T Consensus 6 ~~fvv~D~ETTGL---dP~~DrIIeiAaVrvd~-~~~~i~e~~~~~~~P~~~~lp~p~a~~IhGIT~e~l~~~g~~e~e~ 81 (476)
T PRK11779 6 PTFLWHDYETFGA---NPALDRPAQFAGIRTDA-DLNIIGEPLVFYCKPADDYLPSPEAVLITGITPQEALEKGLPEAEF 81 (476)
T ss_pred CcEEEEEEECCCC---CCCCCeeEEEEEEEEeC-CCceecceeEEEEcCCcCcCCCHHHHHHhCCCHHHHHhcCCCHHHH
Confidence 4799999999997 67889999999999973 43 4457899999998532357789999999999996 46689999
Q ss_pred HHHHHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCC---C-CCCCceeehHHHHHHhc--------------
Q 017267 174 LLRHDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWK---P-PYFNRWINLKVPFHEVF-------------- 234 (374)
Q Consensus 174 l~ef~~fl~~~~l~~~n~~vv~~-g~fDl~~fL~~~~~~~gi~~---P-~~~~~~iDt~~l~~~~~-------------- 234 (374)
+.+|.+|+... ..++|.|| ..||+ .||+..+.+..+.. . ...+..+|+..+.+..+
T Consensus 82 ~~~i~~~l~~~----~~~lVGhNni~FD~-eflr~~~~r~~~d~y~~~~~~~n~r~D~LDl~rl~~~lrp~~i~~P~~~~ 156 (476)
T PRK11779 82 AARIHAEFSQP----GTCILGYNNIRFDD-EVTRYIFYRNFYDPYAREWQNGNSRWDLLDVVRACYALRPEGINWPENED 156 (476)
T ss_pred HHHHHHHHhcC----CCEEEEeCchhhcH-HHHHHHHHhccchHHHHHhcCCCCccCHHHHHHHHHHhccccccCccccc
Confidence 99999999621 12455565 58997 89999987765431 0 01123345555444222
Q ss_pred CCCCCCHHHHHHHcCCCCCCCCCcHHHHHHHHHHHHHHHHHc
Q 017267 235 GGVRCNLKEAVEMAGLAWQGRAHCGLDDAKNTARLLALLMHR 276 (374)
Q Consensus 235 ~~~~~~L~~l~~~lgI~~~g~~HrALdDA~atA~l~~~ll~~ 276 (374)
|..+++|+.+++++||+.. ++|+|++||++|++|+.+|.++
T Consensus 157 g~~s~rLe~L~~~~gI~~~-~AHdALsDa~aT~~la~~l~~~ 197 (476)
T PRK11779 157 GLPSFKLEHLTKANGIEHE-NAHDAMSDVYATIAMAKLIKQK 197 (476)
T ss_pred CCCCCcHHHHHHHcCCCCC-CCCCcHHHHHHHHHHHHHHHHh
Confidence 2356999999999999975 7899999999999999988866
No 49
>KOG2249 consensus 3'-5' exonuclease [Replication, recombination and repair]
Probab=99.43 E-value=1.5e-12 Score=123.56 Aligned_cols=158 Identities=19% Similarity=0.243 Sum_probs=114.9
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 175 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ 175 (374)
..+|++|+|+.|... ....+..--+..| + ..|.++ |+.||+|.. +++++.|.++||+.+.+.+|.+|+.|-.
T Consensus 105 ~r~vAmDCEMVG~Gp-~G~~s~lARvSIV--N-~~G~Vv--yDkyVkP~~--~VtDyRT~vSGIrpehm~~A~pf~~aQ~ 176 (280)
T KOG2249|consen 105 TRVVAMDCEMVGVGP-DGRESLLARVSIV--N-YHGHVV--YDKYVKPTE--PVTDYRTRVSGIRPEHMRDAMPFKVAQK 176 (280)
T ss_pred ceEEEEeeeEeccCC-CccceeeeEEEEe--e-ccCcEe--eeeecCCCc--ccccceeeecccCHHHhccCccHHHHHH
Confidence 369999999999621 1234545455334 4 478886 999999996 5999999999999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHH--HHHHhc-CCCCCCHHHHHH-HcCCC
Q 017267 176 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKV--PFHEVF-GGVRCNLKEAVE-MAGLA 251 (374)
Q Consensus 176 ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~--l~~~~~-~~~~~~L~~l~~-~lgI~ 251 (374)
+++++|.+.+||||.+ .-|+ .-| ++..|. ....||.. .+..++ .....+|..|.+ .||++
T Consensus 177 ev~klL~gRIlVGHaL------hnDl-~~L-------~l~hp~--s~iRDTs~~~pl~k~~~~~~tpSLK~Lt~~~Lg~~ 240 (280)
T KOG2249|consen 177 EVLKLLKGRILVGHAL------HNDL-QAL-------KLEHPR--SMIRDTSKYPPLMKLLSKKATPSLKKLTEALLGKD 240 (280)
T ss_pred HHHHHHhCCEEecccc------ccHH-HHH-------hhhCch--hhhcccccCchHHHHhhccCCccHHHHHHHHhchh
Confidence 9999999986655531 3354 223 345552 23457643 333333 334789999985 56887
Q ss_pred CCCCCCcHHHHHHHHHHHHHHHHHcc
Q 017267 252 WQGRAHCGLDDAKNTARLLALLMHRG 277 (374)
Q Consensus 252 ~~g~~HrALdDA~atA~l~~~ll~~g 277 (374)
..-..|+.+.||++|++||.++-.+.
T Consensus 241 IQ~GeHsSvEDA~AtM~LY~~vk~qw 266 (280)
T KOG2249|consen 241 IQVGEHSSVEDARATMELYKRVKVQW 266 (280)
T ss_pred hhccccCcHHHHHHHHHHHHHHHHHH
Confidence 65345999999999999999876543
No 50
>PF06839 zf-GRF: GRF zinc finger; InterPro: IPR010666 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. This presumed zinc-binding domain is found in a variety of DNA-binding proteins. It seems likely that this domain is involved in nucleic acid binding. It is named GRF after three conserved residues in the centre of the alignment of the domain. This zinc finger may be related to IPR000380 from INTERPRO. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding
Probab=99.33 E-value=4.9e-13 Score=95.33 Aligned_cols=44 Identities=34% Similarity=0.901 Sum_probs=40.1
Q ss_pred ceecCCCCCCccccccCCCCCCCCcccCCCCcccCCCccCcccccCC
Q 017267 326 PSCFCGVKSSKGMVRKPGPKQGSVFFGCGNWTVTRGARCHFFEWAFT 372 (374)
Q Consensus 326 ~~c~cg~~~~~~~v~k~Gpn~Gr~fy~C~~~~~~~~~~c~~f~W~~~ 372 (374)
|.|.||..+.++|++|.|+|+||.||+|+++.. +.|+||+|.|+
T Consensus 1 p~C~Cg~~~~~~~s~k~~~N~GR~Fy~C~~~~~---~~C~fF~W~De 44 (45)
T PF06839_consen 1 PKCPCGEPAVRRTSKKTGPNPGRRFYKCPNYKD---KGCNFFQWEDE 44 (45)
T ss_pred CCCCCCCEeEEEEEeCCCCCCCCcceECCCCCC---CCcCCEEeccC
Confidence 579999999999999999999999999988533 78999999997
No 51
>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=99.33 E-value=9.2e-11 Score=107.39 Aligned_cols=138 Identities=15% Similarity=0.011 Sum_probs=101.4
Q ss_pred EEEEEeeCCCCCC-CCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHH
Q 017267 99 VVIDFEATCDKDK-NPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRH 177 (374)
Q Consensus 99 VVfDlETTGl~~~-~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ef 177 (374)
++||+||||..+. ++..++||+||++.. .+|+.. .+.....+.. +.++ ||+..+|...++..++|.+|
T Consensus 2 ~~~DIEt~~~~~~p~~~~d~Ii~I~~~~~--~~g~~~-~~~~~~~~~~-~~~~-------~i~~~~v~~~~~E~~lL~~f 70 (199)
T cd05160 2 LSFDIETTPPVGGPEPDRDPIICITYADS--FDGVKV-VFLLKTSTVG-DDIE-------FIDGIEVEYFADEKELLKRF 70 (199)
T ss_pred ccEEEeecCCCCCcCCCCCCEEEEEEEEe--eCCcee-eEEEeecccC-CcCC-------CCCCceEEEeCCHHHHHHHH
Confidence 6899999997431 456899999999887 355543 2333333321 1111 88999999999999999999
Q ss_pred HHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCC-CC-------------------CCceeehHHHHHHhcCC
Q 017267 178 DKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKP-PY-------------------FNRWINLKVPFHEVFGG 236 (374)
Q Consensus 178 ~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~P-~~-------------------~~~~iDt~~l~~~~~~~ 236 (374)
.++++.... .+++.||+ +||+ .||...++.+|++.. .. ...++|+..+++..+..
T Consensus 71 ~~~i~~~dp---diivg~N~~~FD~-~~L~~R~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~gr~~~D~~~~~r~~~~l 146 (199)
T cd05160 71 FDIIREYDP---DILTGYNIDDFDL-PYLLKRAEALGIKLTDGIYRRSGGEKSSGSTERIAVKGRVVFDLLAAYKRDFKL 146 (199)
T ss_pred HHHHHhcCC---CEEEEeccCCCcH-HHHHHHHHHhCCCcccccccccCCCccCCcccceeeeccEeeehHHHHHHhcCc
Confidence 999997421 24556677 8998 899999999988751 00 12468999888887777
Q ss_pred CCCCHHHHHHHcCCC
Q 017267 237 VRCNLKEAVEMAGLA 251 (374)
Q Consensus 237 ~~~~L~~l~~~lgI~ 251 (374)
.+++|++++++++..
T Consensus 147 ~sy~L~~v~~~~l~~ 161 (199)
T cd05160 147 KSYTLDAVAEELLGE 161 (199)
T ss_pred ccCCHHHHHHHHhCC
Confidence 889999999877654
No 52
>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=99.25 E-value=1.3e-10 Score=105.36 Aligned_cols=154 Identities=21% Similarity=0.231 Sum_probs=107.3
Q ss_pred ccEEEEEEeeCCCCC-CC-----CCCCceEEEceEEEEc-CCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCC
Q 017267 96 QYFVVIDFEATCDKD-KN-----PYPQEIIEFPSVIVSS-VTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGV 168 (374)
Q Consensus 96 ~~~VVfDlETTGl~~-~~-----~~~deIIEIGAVkvd~-~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap 168 (374)
.+||-+|.|+++... +. +...++.-|.+|-.++ .+|+++ +..||+|.. ++.++.|+.+|||.+++.++.
T Consensus 5 ~e~v~~~~~~~~~~~~g~~~~~~~~~~~LaRVsiVd~~~~~~g~vl--lD~~VkP~~--~V~DYrT~~SGIt~~~L~~a~ 80 (174)
T cd06143 5 AEFVKLKPEETEIRSDGTKSTIRPSQMSLARVSVVRGEGELEGVPF--IDDYISTTE--PVVDYLTRFSGIKPGDLDPKT 80 (174)
T ss_pred eeEEEecchhceecCCCcEeeeccCCceeEEEEEEcCCCCcCCCEE--EeeeECCCC--CccCcCccccccCHHHcCccc
Confidence 357777777766531 00 1123566665553111 367775 899999985 499999999999999998765
Q ss_pred ------CHHHHHHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCH
Q 017267 169 ------TLSEALLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNL 241 (374)
Q Consensus 169 ------~~~eVl~ef~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~~~~~L 241 (374)
++++|..++.+++... .+||.|+ ..|+ . ..++..|. ...+||..+|+.- ...+.+|
T Consensus 81 ~~~~~~t~~~v~~~l~~li~~~------tILVGHsL~nDL-~-------aL~l~hp~--~~viDTa~l~~~~-~~r~~sL 143 (174)
T cd06143 81 SSKNLTTLKSAYLKLRLLVDLG------CIFVGHGLAKDF-R-------VINIQVPK--EQVIDTVELFHLP-GQRKLSL 143 (174)
T ss_pred cccccCCHHHHHHHHHHHcCCC------CEEEeccchhHH-H-------HhcCcCCC--cceEEcHHhccCC-CCCChhH
Confidence 6899999999998632 2445554 5676 2 33566552 4689998776532 2236899
Q ss_pred HHHHH-HcCCCCCCCCCcHHHHHHHHHHHH
Q 017267 242 KEAVE-MAGLAWQGRAHCGLDDAKNTARLL 270 (374)
Q Consensus 242 ~~l~~-~lgI~~~g~~HrALdDA~atA~l~ 270 (374)
..|++ ++|...+...|+.++||+++.+||
T Consensus 144 k~La~~~L~~~IQ~~~HdSvEDArAam~Ly 173 (174)
T cd06143 144 RFLAWYLLGEKIQSETHDSIEDARTALKLY 173 (174)
T ss_pred HHHHHHHcCCcccCCCcCcHHHHHHHHHHh
Confidence 99985 558777655799999999999987
No 53
>PHA02570 dexA exonuclease; Provisional
Probab=99.03 E-value=2.8e-09 Score=99.51 Aligned_cols=164 Identities=17% Similarity=0.153 Sum_probs=104.6
Q ss_pred EEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCC----------CCcchhhhcCCChHH----
Q 017267 98 FVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQL----------LSDFCKDLTGIQQIQ---- 163 (374)
Q Consensus 98 ~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~----------Is~~~~~LTGIt~e~---- 163 (374)
=++||+||.|. .....||+||||.+|+..| +..+|+.+|.....-+ ..+..|-.+...|..
T Consensus 3 dlMIDlETmG~----~p~AaIisIgAV~Fdp~~~-~g~tF~elV~~~~~~k~d~~sq~g~~~~d~~TI~WW~kQS~EAR~ 77 (220)
T PHA02570 3 DFIIDFETFGN----TPDGAVIDLAVIAFEHDPH-NPPTFEELVSRGRRIKFDLKSQKGKRLFDKSTIEWWKNQSPEARK 77 (220)
T ss_pred eEEEEeeccCC----CCCceEEEEEEEEecCCCC-ccccHHHHhhcccccccchhhccCCCccCchHHHHHHhCCHHHHH
Confidence 37899999984 4678999999999997666 6889998886422111 112223333333321
Q ss_pred -Hh---CCCCHHHHHHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHc----C--CCCCCCCCceeehHHHHHH
Q 017267 164 -VD---RGVTLSEALLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFK----K--IWKPPYFNRWINLKVPFHE 232 (374)
Q Consensus 164 -v~---~ap~~~eVl~ef~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~----g--i~~P~~~~~~iDt~~l~~~ 232 (374)
+. +..++.+++.+|.+||.....--+...+..+| +||+ .+|+..+++. + +..|+.++.-.|++.+...
T Consensus 78 ~L~~s~~~~~l~~al~~F~~fi~~~~~~~~~~~vWgnG~sFD~-~IL~~a~r~~~~~~~~~~~~Pw~fwN~RDVRT~ie~ 156 (220)
T PHA02570 78 NLKPSDEDVSTYEGHKKFFEYLEANGVDPWKSQGWCRGNSFDF-PILVDVIRDIHNTRDTFKLEPVKFWNQRDVRTAIEA 156 (220)
T ss_pred hccCCCccccHHHHHHHHHHHHHHcCCCccceeEecCCCccCH-HHHHHHHHHHhcccCcCcCCCeeecCccchHHHHhh
Confidence 22 35789999999999999764211223455665 8997 9999999887 7 5677666667788887664
Q ss_pred hc-CCC--CCCHHHHHHHcCCCCCC-CCCcHHHHHHHHHHHHHHH
Q 017267 233 VF-GGV--RCNLKEAVEMAGLAWQG-RAHCGLDDAKNTARLLALL 273 (374)
Q Consensus 233 ~~-~~~--~~~L~~l~~~lgI~~~g-~~HrALdDA~atA~l~~~l 273 (374)
.+ ... ..-|- -|. ++| .+|+|+.|+-.-|..+..-
T Consensus 157 ~~l~r~~~~cp~~-----~g~-l~gfv~H~sihDcakd~lml~y~ 195 (220)
T PHA02570 157 TLLTRGMTTCPLP-----KGT-LDGFVAHDSIHDCAKDILMLIYA 195 (220)
T ss_pred hhccCCcccCCCc-----Ccc-ccchhhcccHHHHHHHHHHHHHH
Confidence 32 211 00000 011 122 5799999987776555443
No 54
>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=99.00 E-value=4.3e-09 Score=86.36 Aligned_cols=94 Identities=26% Similarity=0.276 Sum_probs=70.0
Q ss_pred EEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHHH
Q 017267 99 VVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRHD 178 (374)
Q Consensus 99 VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ef~ 178 (374)
++||+||||+ .+..++|++|++...+ ++. .| +.. |.
T Consensus 1 ~~~DiEt~~~---~~~~~~i~~i~~~~~~--~~~---~~---~~~---------------------------------f~ 36 (96)
T cd06125 1 IAIDTEATGL---DGAVHEIIEIALADVN--PED---TA---VID---------------------------------LK 36 (96)
T ss_pred CEEEEECCCC---CCCCCcEEEEEEEEcc--CCC---EE---Eeh---------------------------------HH
Confidence 4799999997 4578999999887531 121 11 100 88
Q ss_pred HHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCHHHHHHHcCCCCCCCCCc
Q 017267 179 KWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAVEMAGLAWQGRAHC 258 (374)
Q Consensus 179 ~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~~~~~L~~l~~~lgI~~~g~~Hr 258 (374)
+|+++... ...|.||++||+ .||+++|++++++.|....+++||+.+
T Consensus 37 ~~l~~~~~---~v~V~hn~~fD~-~fL~~~~~~~~~~~p~~~~~~lDT~~l----------------------------- 83 (96)
T cd06125 37 DILRDKPL---AILVGHNGSFDL-PFLNNRCAELGLKYPLLAGSWIDTIKL----------------------------- 83 (96)
T ss_pred HHHhhCCC---CEEEEeCcHHhH-HHHHHHHHHcCCCCCCcCCcEEEehHH-----------------------------
Confidence 88887431 235666779997 899999999999888667899999865
Q ss_pred HHHHHHHHHHH
Q 017267 259 GLDDAKNTARL 269 (374)
Q Consensus 259 ALdDA~atA~l 269 (374)
|+.||+.++.|
T Consensus 84 ~~~~~~~~~~~ 94 (96)
T cd06125 84 AADDVENTLQI 94 (96)
T ss_pred hhhhHHHHHHh
Confidence 88888888765
No 55
>COG2925 SbcB Exonuclease I [DNA replication, recombination, and repair]
Probab=98.92 E-value=9.7e-09 Score=102.02 Aligned_cols=164 Identities=17% Similarity=0.186 Sum_probs=125.0
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCC-CcchhhhcCCChHHHh-CCCCHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLL-SDFCKDLTGIQQIQVD-RGVTLSEA 173 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~I-s~~~~~LTGIt~e~v~-~ap~~~eV 173 (374)
-+|.+.|.||.|. .|..|++.+|++|+-|..=..|.+-...|++|... -+ .+.+.-+||||+.... +|.+..+.
T Consensus 9 ~tF~~yDYETfG~---~Pa~DRPaQFAgiRTD~~~NiIgeP~~fyCkpsdD-yLP~P~a~LITGITPQ~~~~~G~~E~~F 84 (475)
T COG2925 9 PTFLFYDYETFGV---HPALDRPAQFAGIRTDIEFNIIGEPIVFYCKPADD-YLPQPGAVLITGITPQEAREKGINEAAF 84 (475)
T ss_pred CcEEEEehhhcCC---CcccccchhhheeeccccccccCCCeEEEecCccc-cCCCCCceeeecCCHHHHHhcCCChHHH
Confidence 4799999999996 68899999999999985445567789999999863 24 4678889999999885 79999999
Q ss_pred HHHHHHHHhhcCCCCccEEEEEc--CcchHHHHHHHHHHHcCCCCCCCC------CceeehHHHHHHhcCC---------
Q 017267 174 LLRHDKWLENKGIKNTNFAVVTW--SNWDCRVMLESECRFKKIWKPPYF------NRWINLKVPFHEVFGG--------- 236 (374)
Q Consensus 174 l~ef~~fl~~~~l~~~n~~vv~~--g~fDl~~fL~~~~~~~gi~~P~~~------~~~iDt~~l~~~~~~~--------- 236 (374)
..++..-+... +.+++.+ .+|| ..+-+..|-|+=++ | +. |+-+|++.+.+..+-+
T Consensus 85 ~~~I~~~ls~P-----~Tcv~GYNniRFD-DEvtRy~fyRNF~D-P-Ya~sWqngNSRWDLLD~~RacyALRPeGI~Wp~ 156 (475)
T COG2925 85 AARIHAELTQP-----NTCVLGYNNIRFD-DEVTRYIFYRNFYD-P-YAWSWQNGNSRWDLLDVVRACYALRPEGINWPE 156 (475)
T ss_pred HHHHHHHhCCC-----Ceeeecccccccc-hHHHHHHHHHhcCc-h-hhhhhcCCCchhHHHHHHHHHHhcCcccCCCCc
Confidence 99988777653 3455553 4898 47777777776554 2 22 3446777777655421
Q ss_pred -----CCCCHHHHHHHcCCCCCCCCCcHHHHHHHHHHHHHH
Q 017267 237 -----VRCNLKEAVEMAGLAWQGRAHCGLDDAKNTARLLAL 272 (374)
Q Consensus 237 -----~~~~L~~l~~~lgI~~~g~~HrALdDA~atA~l~~~ 272 (374)
.+.+|+.+.+.-||+. +++|+|+.|+++|..+-..
T Consensus 157 n~dG~pSFkLEhLt~ANgieH-~nAHdAmsDVyATIamAkl 196 (475)
T COG2925 157 NDDGLPSFKLEHLTKANGIEH-SNAHDAMSDVYATIAMAKL 196 (475)
T ss_pred CCCCCcchhhHHHhhcccccc-chhhHHHHHHHHHHHHHHH
Confidence 2578999999999986 4899999999999765443
No 56
>COG1949 Orn Oligoribonuclease (3'-5' exoribonuclease) [RNA processing and modification]
Probab=98.82 E-value=1e-08 Score=91.38 Aligned_cols=152 Identities=18% Similarity=0.175 Sum_probs=99.1
Q ss_pred CccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeE-EEEEEEeecCCC--CCCCCcchhhhc---CCChHHHhCCC
Q 017267 95 FQYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQL-EACFQTYVRPTC--NQLLSDFCKDLT---GIQQIQVDRGV 168 (374)
Q Consensus 95 ~~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~i-idsF~~lVkP~~--~p~Is~~~~~LT---GIt~e~v~~ap 168 (374)
.+++|=||+|+||+ ++..++||||++++-| .+.++ .+-+..-|.-.. .....+.+++.| |+++.-.....
T Consensus 5 ~~nLiWIDlEMTGL---d~~~drIIEiA~iVTD-~~Lnilaegp~~~Ihq~~e~L~~Mdew~~~~H~~sGL~~rV~~S~~ 80 (184)
T COG1949 5 KNNLIWIDLEMTGL---DPERDRIIEIATIVTD-ANLNILAEGPVIAIHQSDEQLAKMDEWNTETHGRSGLTERVKASTV 80 (184)
T ss_pred CCceEEEeeeeccC---CcCcceEEEEEEEEec-CcccccccCceEEEeCCHHHHHHHHHHHHHccccccHHHHHHHhhc
Confidence 46799999999997 6789999999999998 35555 344444454322 122456677765 67777777899
Q ss_pred CHHHHHHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCHHHHHHH
Q 017267 169 TLSEALLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAVEM 247 (374)
Q Consensus 169 ~~~eVl~ef~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~~~~~L~~l~~~ 247 (374)
+..+|-.+.++|++..+-.+ ..-++.|+ .-| |.||.+.+-+.-- .+-.+++|+. +|.+++++
T Consensus 81 t~~~aE~~~l~flkkwvp~~-~spicGNSI~qD-RrFl~r~MP~Le~---yfHYR~lDVS------------TlKELa~R 143 (184)
T COG1949 81 TEAEAEAQTLDFLKKWVPKG-VSPICGNSIAQD-RRFLFRYMPKLEA---YFHYRYLDVS------------TLKELARR 143 (184)
T ss_pred cHHHHHHHHHHHHHHhCCCC-CCCCccchhhHH-HHHHHHHhhhHHH---HhhhHhhhHH------------HHHHHHHh
Confidence 99999999999999875442 22355563 458 7899876533210 1123566653 23333333
Q ss_pred cCC-----CCCCCCCcHHHHHHHHH
Q 017267 248 AGL-----AWQGRAHCGLDDAKNTA 267 (374)
Q Consensus 248 lgI-----~~~g~~HrALdDA~atA 267 (374)
+.- ...+..|+||+|.+--.
T Consensus 144 W~P~i~~~~~K~~~H~Al~DI~ESI 168 (184)
T COG1949 144 WNPEILAGFKKGGTHRALDDIRESI 168 (184)
T ss_pred hCcHhhhccccccchhHHHHHHHHH
Confidence 321 22346799999987643
No 57
>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=98.68 E-value=5.3e-07 Score=82.80 Aligned_cols=120 Identities=17% Similarity=0.142 Sum_probs=85.9
Q ss_pred cEEEEEEeeCCCCCC-CCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 017267 97 YFVVIDFEATCDKDK-NPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 175 (374)
Q Consensus 97 ~~VVfDlETTGl~~~-~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ 175 (374)
..+.||+||++..+. ++..+.||.||++.. +|.+. .+. ....+..+.|.
T Consensus 4 ~~l~fDIEt~~~~gfp~~~~d~Ii~Is~~~~---~g~~~----~~~-----------------------~~~~~E~~lL~ 53 (188)
T cd05781 4 KTLAFDIEVYSKYGTPNPRRDPIIVISLATS---NGDVE----FIL-----------------------AEGLDDRKIIR 53 (188)
T ss_pred eEEEEEEEecCCCCCCCCCCCCEEEEEEEeC---CCCEE----EEE-----------------------ecCCCHHHHHH
Confidence 478999999965442 467799999998764 33310 110 12357889999
Q ss_pred HHHHHHhhcCCCCccEEEEEc-C-cchHHHHHHHHHHHcCCCCCCC--C----------------CceeehHHHHHHhcC
Q 017267 176 RHDKWLENKGIKNTNFAVVTW-S-NWDCRVMLESECRFKKIWKPPY--F----------------NRWINLKVPFHEVFG 235 (374)
Q Consensus 176 ef~~fl~~~~l~~~n~~vv~~-g-~fDl~~fL~~~~~~~gi~~P~~--~----------------~~~iDt~~l~~~~~~ 235 (374)
+|.+++..... . ++++| + .||+ .||..-++++|+..+.- . ...+|+...++....
T Consensus 54 ~F~~~i~~~dP---d-~i~gyN~~~FDl-pyl~~Ra~~~gi~~~~gr~~~~~~~~~~~~~~~i~Gr~~iDl~~~~~~~~~ 128 (188)
T cd05781 54 EFVKYVKEYDP---D-IIVGYNSNAFDW-PYLVERARVLGVKLDVGRRGGSEPSTGVYGHYSITGRLNVDLYDFAEEIPE 128 (188)
T ss_pred HHHHHHHHcCC---C-EEEecCCCcCcH-HHHHHHHHHhCCCcccccCCCcccccCCcceEeeeeEEEEEhHHHHHhhCC
Confidence 99999998521 1 45565 3 7998 89999999999875310 0 016888888887777
Q ss_pred CCCCCHHHHHHHcCCC
Q 017267 236 GVRCNLKEAVEMAGLA 251 (374)
Q Consensus 236 ~~~~~L~~l~~~lgI~ 251 (374)
.++++|+++++++|+.
T Consensus 129 l~~y~L~~Va~~Lg~~ 144 (188)
T cd05781 129 VKVKTLENVAEYLGVM 144 (188)
T ss_pred CCCCCHHHHHHHHCCC
Confidence 7889999999999874
No 58
>KOG3242 consensus Oligoribonuclease (3'->5' exoribonuclease) [RNA processing and modification]
Probab=98.67 E-value=1.2e-07 Score=85.35 Aligned_cols=156 Identities=16% Similarity=0.178 Sum_probs=104.7
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCC--CCCCCcchhhhc---CCChHHHhCCCCH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTC--NQLLSDFCKDLT---GIQQIQVDRGVTL 170 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~--~p~Is~~~~~LT---GIt~e~v~~ap~~ 170 (374)
..+|=+|+|+||++ -..+.||||++++-|+.=..+.+-+...|+-.. ....++.|.+-| |+|..-+....++
T Consensus 26 q~lVWiD~EMTGLd---vekd~i~EiacIITD~dL~~~~egpd~vI~~~~evld~MneWc~ehhg~SGLt~kv~~S~~tl 102 (208)
T KOG3242|consen 26 QPLVWIDCEMTGLD---VEKDRIIEIACIITDGDLNPVAEGPDLVIHQPKEVLDKMNEWCIEHHGNSGLTEKVLASKITL 102 (208)
T ss_pred CceEEEeeeccccc---cccceeEEEEEEEecCCccccccCccchhcCCHHHHHHHHHHHHHhccchhHHHHHHHhhccH
Confidence 57899999999984 578999999999987533344566777776543 123567787776 5788788899999
Q ss_pred HHHHHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCCCCCceeehH---HHHHHhcCCCCCCHHHHHH
Q 017267 171 SEALLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPPYFNRWINLK---VPFHEVFGGVRCNLKEAVE 246 (374)
Q Consensus 171 ~eVl~ef~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~---~l~~~~~~~~~~~L~~l~~ 246 (374)
++|-.++++|++.....+. ..++.|+ --| +.||.+.+-..--- +..+.||+. .+.++.++. ..
T Consensus 103 ~~aEnevl~yikk~ip~~~-~~laGNSV~~D-rlFl~k~mPk~~~~---lhyrivDVStIkeL~~Rw~P~--------~~ 169 (208)
T KOG3242|consen 103 ADAENEVLEYIKKHIPKGK-CPLAGNSVYMD-RLFLKKYMPKLIKH---LHYRIVDVSTIKELARRWYPD--------IK 169 (208)
T ss_pred HHHHHHHHHHHHHhCCCCC-CCccCcchhhH-HHHHHHHhHHHHHh---cceeeeeHHHHHHHHHHhCch--------hh
Confidence 9999999999998765432 3455554 458 68998776432111 234778863 345555441 01
Q ss_pred HcCCCCCCCCCcHHHHHHHHHH
Q 017267 247 MAGLAWQGRAHCGLDDAKNTAR 268 (374)
Q Consensus 247 ~lgI~~~g~~HrALdDA~atA~ 268 (374)
.+. |-....|||++|.+--..
T Consensus 170 ~~a-PkK~~~HrAldDI~ESI~ 190 (208)
T KOG3242|consen 170 ARA-PKKKATHRALDDIRESIK 190 (208)
T ss_pred ccC-cccccccchHHHHHHHHH
Confidence 111 112246999999876543
No 59
>KOG2248 consensus 3'-5' exonuclease [Replication, recombination and repair]
Probab=98.66 E-value=9.5e-08 Score=96.40 Aligned_cols=156 Identities=21% Similarity=0.289 Sum_probs=114.3
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHh-CCCCHHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVD-RGVTLSEAL 174 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~-~ap~~~eVl 174 (374)
...+++|+|+...+ ..-|+..+++|=+ ++++ -+..||+|.. | |-++.++.+|||++|+. ...+++++-
T Consensus 216 ~~i~AlDCEm~~te----~g~el~RVt~VD~---~~~v--i~D~fVkP~~-~-VvDy~T~~SGIT~~~~e~~t~tl~dvq 284 (380)
T KOG2248|consen 216 PNIFALDCEMVVTE----NGLELTRVTAVDR---DGKV--ILDTFVKPNK-P-VVDYNTRYSGITEEDLENSTITLEDVQ 284 (380)
T ss_pred CCeEEEEeeeeeec----cceeeEEeeeeec---cCcE--EeEEeecCCC-c-ccccccccccccHHHHhcCccCHHHHH
Confidence 47999999999753 2278899988854 5666 4889999985 5 88999999999999997 577899999
Q ss_pred HHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC--CCCCHHHHHHHc-CC
Q 017267 175 LRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG--VRCNLKEAVEMA-GL 250 (374)
Q Consensus 175 ~ef~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~--~~~~L~~l~~~l-gI 250 (374)
.+++.|+... .++|.|+ +-|+ .-|+ +..| .+|||..+|..-.+. .+.+|..|++.+ |.
T Consensus 285 ~~l~~~~~~~------TILVGHSLenDL-~aLK-------l~H~----~ViDTa~lf~~~~g~~~~k~sLk~L~~~~L~~ 346 (380)
T KOG2248|consen 285 KELLELISKN------TILVGHSLENDL-KALK-------LDHP----SVIDTAVLFKHPTGPYPFKSSLKNLAKSYLGK 346 (380)
T ss_pred HHHHhhcCcC------cEEEeechhhHH-HHHh-------hhCC----ceeeeeEEEecCCCCccchHHHHHHHHHHHHH
Confidence 9999999865 3566654 5676 3332 3333 689998666443442 245688888644 54
Q ss_pred CCC-C-CCCcHHHHHHHHHHHHHHHHHccCcc
Q 017267 251 AWQ-G-RAHCGLDDAKNTARLLALLMHRGFKF 280 (374)
Q Consensus 251 ~~~-g-~~HrALdDA~atA~l~~~ll~~g~~~ 280 (374)
..+ + ..|+...||.++.+|+...++.+..+
T Consensus 347 ~Iq~~~~~HdS~eDA~acm~Lv~~k~~~~~~~ 378 (380)
T KOG2248|consen 347 LIQEGVGGHDSVEDALACMKLVKLKIKNSESQ 378 (380)
T ss_pred HHhccCCCCccHHHHHHHHHHHHHHHhccccc
Confidence 433 1 34999999999999998877766544
No 60
>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=98.65 E-value=1.1e-06 Score=80.98 Aligned_cols=130 Identities=15% Similarity=0.068 Sum_probs=86.9
Q ss_pred cEEEEEEeeCCCCCC-CCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 017267 97 YFVVIDFEATCDKDK-NPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 175 (374)
Q Consensus 97 ~~VVfDlETTGl~~~-~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ 175 (374)
..+.||+|||+..+. ++..++||.||.+.. ..+.++ .+ ++.. . + .+..-.+..+.|.
T Consensus 4 ~i~~fDIEt~~~~g~p~~~~d~Ii~Is~~~~--~~~~~~-~~----~~~~-~---~-----------~v~~~~~E~~lL~ 61 (195)
T cd05780 4 KILSFDIEVLNHEGEPNPEKDPIIMISFADE--GGNKVI-TW----KKFD-L---P-----------FVEVVKTEKEMIK 61 (195)
T ss_pred eEEEEEEEecCCCCCCCCCCCcEEEEEEecC--CCceEE-Ee----cCCC-C---C-----------eEEEeCCHHHHHH
Confidence 478999999965443 567899999998653 223332 11 1211 0 0 2223456689999
Q ss_pred HHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCCC--------------------CCceeehHHHHHHhc
Q 017267 176 RHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPPY--------------------FNRWINLKVPFHEVF 234 (374)
Q Consensus 176 ef~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~P~~--------------------~~~~iDt~~l~~~~~ 234 (374)
+|.+++.... -.+++.+|+ .||+ .||..-+..+|++.|.- ....+|+..+++..+
T Consensus 62 ~F~~~i~~~d---pdiivgyN~~~FD~-pyL~~R~~~~gi~~~~~r~~~~~~~~~~g~~~~~~i~Gr~~lDl~~~~~~~~ 137 (195)
T cd05780 62 RFIEIVKEKD---PDVIYTYNGDNFDF-PYLKKRAEKLGIELDLGRDGSEIKIQRGGFNNASEIKGRIHVDLYPVARRTL 137 (195)
T ss_pred HHHHHHHHcC---CCEEEecCCCCCcH-HHHHHHHHHhCCCCccccCCCceeEeecceeeeeccCCeEEEeHHHHHHhhC
Confidence 9999999732 123333344 7998 89999999999875410 123689988888877
Q ss_pred CCCCCCHHHHHH-HcCCCC
Q 017267 235 GGVRCNLKEAVE-MAGLAW 252 (374)
Q Consensus 235 ~~~~~~L~~l~~-~lgI~~ 252 (374)
...+++|+++++ .+|.+-
T Consensus 138 ~l~sy~L~~v~~~~Lg~~k 156 (195)
T cd05780 138 NLTRYTLERVYEELFGIEK 156 (195)
T ss_pred CCCcCcHHHHHHHHhCCCC
Confidence 788999999886 667753
No 61
>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=98.54 E-value=4.5e-06 Score=77.91 Aligned_cols=114 Identities=18% Similarity=0.212 Sum_probs=76.5
Q ss_pred CCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHHHHHHhhcC
Q 017267 106 TCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRHDKWLENKG 185 (374)
Q Consensus 106 TGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ef~~fl~~~~ 185 (374)
+|..++.+..++||-||++..+..++.+ . +. .. . ..+..+.+.+|.+++....
T Consensus 41 ~~~~~l~~~~~~Iv~Is~~~~~~~~~~~----~--~~-~~-~-------------------~~~E~elL~~F~~~i~~~~ 93 (208)
T cd05782 41 SGSDFLPLPFHKVVSISALYRDDDGGFL----K--VR-TL-D-------------------GADEKELLEDFFQLIEKKN 93 (208)
T ss_pred cCCCCCccccCceEEEEEEEEecCCCeE----E--Ee-ec-C-------------------CCCHHHHHHHHHHHHHHhC
Confidence 3433344567899999999875323321 1 11 10 0 1123789999999999841
Q ss_pred CCCccEEEEE-cC-cchHHHHHHHHHHHcCCCCCCCCC--------------ceeehHHHHHHhcCCCCCCHHHHHHHcC
Q 017267 186 IKNTNFAVVT-WS-NWDCRVMLESECRFKKIWKPPYFN--------------RWINLKVPFHEVFGGVRCNLKEAVEMAG 249 (374)
Q Consensus 186 l~~~n~~vv~-~g-~fDl~~fL~~~~~~~gi~~P~~~~--------------~~iDt~~l~~~~~~~~~~~L~~l~~~lg 249 (374)
. ++++ || .||+ .||..-+..+|++.|..+. +.+|+..+++......+++|+.+++.+|
T Consensus 94 ----p-~lv~yNg~~FDl-P~L~~Ra~~~gi~~p~~~~~~~~~~~y~~r~~~~h~DL~~~~~~~~~~~~~~L~~va~~lG 167 (208)
T cd05782 94 ----P-RLVSFNGRGFDL-PVLHLRALIHGVSAPAYFDLGNKDWNYRNRYSERHLDLMDLLAFYGARARASLDLLAKLLG 167 (208)
T ss_pred ----C-EEEecCCCcCCH-HHHHHHHHHhCCCCccccCcccchhhccCcCCCCcccHHHHHhccCccCCCCHHHHHHHhC
Confidence 2 3555 55 8998 8999999999998764321 2688888776533346899999999999
Q ss_pred CCC
Q 017267 250 LAW 252 (374)
Q Consensus 250 I~~ 252 (374)
++-
T Consensus 168 ~~~ 170 (208)
T cd05782 168 IPG 170 (208)
T ss_pred CCC
Confidence 953
No 62
>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=98.52 E-value=5.4e-07 Score=79.68 Aligned_cols=116 Identities=16% Similarity=0.112 Sum_probs=60.7
Q ss_pred EEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHHH
Q 017267 99 VVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRHD 178 (374)
Q Consensus 99 VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ef~ 178 (374)
++||+||||+ ++..+.|.-||++.++..... .|..+.-.. +.-++.+.++.
T Consensus 1 l~~DIET~Gl---~~~~~~i~liG~~~~~~~~~~---~~~~~~~~~-----------------------~~ee~~~~~~~ 51 (164)
T PF13482_consen 1 LFFDIETTGL---SPDNDTIYLIGVADFDDDEII---TFIQWFAED-----------------------PDEEEIILEFF 51 (164)
T ss_dssp --EEEEESS----GG-G---EEEEEEE-ETTTTE----EEEE-GGG-----------------------HHHHHHHHH--
T ss_pred CcEEecCCCC---CCCCCCEEEEEEEEeCCCceE---EeeHhhccC-----------------------cHHHHHHHHHH
Confidence 5899999997 566788999999988632222 133333221 11244444544
Q ss_pred HHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCHHHHHHHcCCCCC
Q 017267 179 KWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAVEMAGLAWQ 253 (374)
Q Consensus 179 ~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~~~~~L~~l~~~lgI~~~ 253 (374)
+++.+.. .++..|+ .||+ .||++.+.+++++. ...++|+...++.... .+++|+.+++.+|+...
T Consensus 52 ~~l~~~~-----~iv~yng~~FD~-p~L~~~~~~~~~~~---~~~~iDl~~~~~~~~~-~~~~Lk~ve~~lg~~~~ 117 (164)
T PF13482_consen 52 ELLDEAD-----NIVTYNGKNFDI-PFLKRRAKRYGLPP---PFNHIDLLKIIKKHFL-ESYSLKNVEKFLGIERR 117 (164)
T ss_dssp HHHHTT-------EEESSTTTTHH-HHHHHHH-HHHH-----GGGEEEHHHHHT-TTS-CCTT--SHHH-------
T ss_pred HHHhcCC-----eEEEEeCcccCH-HHHHHHHHHcCCCc---ccchhhHHHHHHhccC-CCCCHHHHhhhcccccc
Confidence 6776642 3445564 8997 99999997777664 4579999887765433 67899999999998763
No 63
>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=98.31 E-value=1.6e-05 Score=71.41 Aligned_cols=145 Identities=19% Similarity=0.141 Sum_probs=95.5
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 175 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ 175 (374)
..+++||+||||+ .+..++|+.++... ..++ .|..-+++. .. .+++.+++++.
T Consensus 5 ~~~~a~d~e~~~~---~~~~~~i~~l~~~~---~~~~---~~~~~~~~~---~~---------------~~~~~~~~~~~ 57 (193)
T cd06139 5 AKVFAFDTETTSL---DPMQAELVGISFAV---EPGE---AYYIPLGHD---YG---------------GEQLPREEVLA 57 (193)
T ss_pred CCeEEEEeecCCC---CcCCCeEEEEEEEc---CCCC---EEEEecCCC---cc---------------ccCCCHHHHHH
Confidence 3589999999986 35567888876542 2232 232112221 01 14567889999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCC-CCCHHHHHHHc-CCC--
Q 017267 176 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGV-RCNLKEAVEMA-GLA-- 251 (374)
Q Consensus 176 ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~~-~~~L~~l~~~l-gI~-- 251 (374)
+|.+|+++.. ...|+||+.||+ .+|. +.|+..+ +.++||..+...+.+.. +++|+.+++.| +..
T Consensus 58 ~l~~~l~~~~----~~~v~hn~k~d~-~~l~----~~gi~~~---~~~~Dt~l~a~ll~p~~~~~~l~~l~~~~l~~~~~ 125 (193)
T cd06139 58 ALKPLLEDPS----IKKVGQNLKFDL-HVLA----NHGIELR---GPAFDTMLASYLLNPGRRRHGLDDLAERYLGHKTI 125 (193)
T ss_pred HHHHHHhCCC----CcEEeeccHHHH-HHHH----HCCCCCC---CCcccHHHHHHHhCCCCCCCCHHHHHHHHhCCCCc
Confidence 9999998752 135778899997 6764 4677653 46899987666555544 57999998876 332
Q ss_pred --------------CCC-----CCCcHHHHHHHHHHHHHHHHHccCc
Q 017267 252 --------------WQG-----RAHCGLDDAKNTARLLALLMHRGFK 279 (374)
Q Consensus 252 --------------~~g-----~~HrALdDA~atA~l~~~ll~~g~~ 279 (374)
+.. ..|.|..||.++.+|+..|.++..+
T Consensus 126 ~~~~~~~k~~~~~~~~~~~~~~~~~ya~~d~~~~~~l~~~l~~~l~~ 172 (193)
T cd06139 126 SFEDLVGKGKKQITFDQVPLEKAAEYAAEDADITLRLYELLKPKLKE 172 (193)
T ss_pred cHHHHcCCCcCcCCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 000 1246899999999999988876544
No 64
>PF04857 CAF1: CAF1 family ribonuclease; InterPro: IPR006941 CAF1 is an RNase of the DEDD superfamily, and a subunit of the Ccr4-Not complex that mediates 3' to 5' mRNA deadenylation. The major pathways of mRNA turnover in eukaryotes initiate with shortening of the poly(A) tail. CAF1 P39008 from SWISSPROT encodes a critical component of the major cytoplasmic deadenylase in yeast. Caf1p is required for normal mRNA deadenylation in vivo and localises to the cytoplasm. Caf1p copurifies with a Ccr4p-dependent poly(A)-specific exonuclease activity. Some members of this family contain a single-stranded nucleic acid binding domain, R3H.; GO: 0005634 nucleus; PDB: 3D45_B 1UG8_A 2D5R_A 2A1S_C 2A1R_A 2FC6_A 1UOC_A 3G10_A 2P51_A 3G0Z_A.
Probab=98.18 E-value=4.2e-05 Score=73.66 Aligned_cols=172 Identities=22% Similarity=0.175 Sum_probs=99.6
Q ss_pred ccEEEEEEeeCCCCCCCC------------------CCCceEEEceEEEEcCCCeEE-----EEEEEeecCCCCCCCCcc
Q 017267 96 QYFVVIDFEATCDKDKNP------------------YPQEIIEFPSVIVSSVTGQLE-----ACFQTYVRPTCNQLLSDF 152 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~------------------~~deIIEIGAVkvd~~~G~ii-----dsF~~lVkP~~~p~Is~~ 152 (374)
..||+||+|.||+....+ ..-.||+||...+...+++.. ..|..++-|......+..
T Consensus 22 ~~fvaiD~EftGl~~~~~~~~~~t~~~rY~~~r~~v~~~~iiQ~Glt~f~~~~~~~~~~~~~~~~nf~~f~~~~~~~~~~ 101 (262)
T PF04857_consen 22 ADFVAIDTEFTGLVSKPPRSRFDTPEERYEKLRANVETFQIIQFGLTLFHDEDGNIPSSYNVWPFNFYLFPLDRDFSQAS 101 (262)
T ss_dssp SSEEEEEEEES-S-SSS-SHCSSHHHHHHHHHHHHHTTBEEEEEEEEEETTTTSEEECCEEEEEEEBSTTSTTTCEEEHH
T ss_pred CCEEEEEeeccccccCCCccccccHHHHHHHHHHhhcccccceeeEEEeecccccCCceeEEEEeeeeccccccceecch
Confidence 369999999999863221 345899999999922567653 344444444321111122
Q ss_pred h---hhhcCCChHHH-hCCCCHHHHHHH--HHHHHhhcCC-----CCccEEEEEcCcchHHHHHHHHHHHcCCCCCC---
Q 017267 153 C---KDLTGIQQIQV-DRGVTLSEALLR--HDKWLENKGI-----KNTNFAVVTWSNWDCRVMLESECRFKKIWKPP--- 218 (374)
Q Consensus 153 ~---~~LTGIt~e~v-~~ap~~~eVl~e--f~~fl~~~~l-----~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~--- 218 (374)
+ ..-+|++-+.+ .+|.++...-++ ..+.++-+.+ ..+..+|.||+-+|+ .+|-+.+- | ++|.
T Consensus 102 sl~FL~~~gfDFn~~~~~GI~y~~~~ee~~~~~~~g~~~v~~~~~~~~~p~Vghn~~~Dl-~~l~~~f~--~-~LP~t~~ 177 (262)
T PF04857_consen 102 SLQFLRKNGFDFNKWFRDGIPYLSFAEEEKARELLGFSGVIDALKSSKKPIVGHNGLYDL-MYLYKKFI--G-PLPETLE 177 (262)
T ss_dssp HHHHHHHTT--HHHHHHH-B-HHHHHHHHHHHHHHHTCCCSSHCHCC-SEEEESSTHHHH-HHHHHHHT--T-S--SSHH
T ss_pred hHHHHHHcccCHHHHHHhCCCcccccccchhhhhHHHHHHHHHhhccCCcEEEeChHhHH-HHHHHHhc--C-CCCCCHH
Confidence 2 12367776665 467665544421 1144444332 223567778899998 67765542 3 4442
Q ss_pred --------CCCceeehHHHHHHhcCCCCCCHHHHHHHcCCCC-----------------------CCC-CCcHHHHHHHH
Q 017267 219 --------YFNRWINLKVPFHEVFGGVRCNLKEAVEMAGLAW-----------------------QGR-AHCGLDDAKNT 266 (374)
Q Consensus 219 --------~~~~~iDt~~l~~~~~~~~~~~L~~l~~~lgI~~-----------------------~g~-~HrALdDA~at 266 (374)
++..++||+-++.... ....+|+.+.+.+++.. .+. .|.|=.||..|
T Consensus 178 eF~~~~~~~FP~i~DtK~la~~~~-~~~~~L~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~HeAGyDA~mT 256 (262)
T PF04857_consen 178 EFKELLRELFPRIYDTKYLAEECP-GKSTSLQELAEELGIRRNPSSISSPEGFPSYDEEKNNFPMFGEKAHEAGYDAYMT 256 (262)
T ss_dssp HHHHHHHHHSSSEEEHHHHHTSTT-TS-SSHHHHHHHTTSTT----EEE-TTS-------------SS-TTSHHHHHHHH
T ss_pred HHHHHHHHHCcccccHHHHHHhcc-ccccCHHHHHHHhCCCccccccccccccccccccccccccCCCCCCCcchHHHHH
Confidence 1235788876664322 34578999999999764 344 89999999999
Q ss_pred HHHHHH
Q 017267 267 ARLLAL 272 (374)
Q Consensus 267 A~l~~~ 272 (374)
+.+|.+
T Consensus 257 g~~F~~ 262 (262)
T PF04857_consen 257 GCVFIK 262 (262)
T ss_dssp HHHHHH
T ss_pred HHHHcC
Confidence 999874
No 65
>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=98.16 E-value=0.00013 Score=68.07 Aligned_cols=144 Identities=14% Similarity=0.073 Sum_probs=85.3
Q ss_pred cEEEEEEeeCCCCCC--CCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCc-chhhhcCCChHHHhCCCCHHHH
Q 017267 97 YFVVIDFEATCDKDK--NPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSD-FCKDLTGIQQIQVDRGVTLSEA 173 (374)
Q Consensus 97 ~~VVfDlETTGl~~~--~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~-~~~~LTGIt~e~v~~ap~~~eV 173 (374)
..+.||+||.+.+++ ++..|.||.|+.+. + .+|..+- ....+.+..+. +.. .+-.+-| .-.+..-.+..+.
T Consensus 3 rilafDIE~~~~~~~fP~~~~D~Ii~IS~~~-~-~~g~~~~-~~~~~~~~~~~-~~~~~~~~~~~--~~~v~~~~~E~~l 76 (204)
T cd05779 3 RVLAFDIETTKLPLKFPDAETDQIMMISYMI-D-GQGYLIV-NREIVSEDIED-FEYTPKPEYEG--PFKVFNEPDEKAL 76 (204)
T ss_pred eEEEEEEEecCCCCCCcCCCCCeEEEEEEEE-e-cCCEEEe-ccccccccccc-ccccCCCCCCC--ceEEecCCCHHHH
Confidence 478999999875443 45779999999775 3 3454320 00111110000 000 0000001 0112234678999
Q ss_pred HHHHHHHHhhcCCCCccEEEEEc-C-cchHHHHHHHHHHHcCCCCCC-C---CC----------ceeehHHHHHHhc--C
Q 017267 174 LLRHDKWLENKGIKNTNFAVVTW-S-NWDCRVMLESECRFKKIWKPP-Y---FN----------RWINLKVPFHEVF--G 235 (374)
Q Consensus 174 l~ef~~fl~~~~l~~~n~~vv~~-g-~fDl~~fL~~~~~~~gi~~P~-~---~~----------~~iDt~~l~~~~~--~ 235 (374)
|.+|.+|+..... . ++++| + +||+ .||.+-++.+|+.... + .. -.+|+..++++.. .
T Consensus 77 L~~f~~~i~~~~P---d-~i~gyN~~~FD~-pyl~~R~~~~~~~~~~~~g~~~~~~~~~~~~gr~~iDl~~~~~~~~~l~ 151 (204)
T cd05779 77 LQRFFEHIREVKP---H-IIVTYNGDFFDW-PFVEARAAIHGLSMEEEIGFRKDSEGEYKSRYIIHMDCFRWVKRDSYLP 151 (204)
T ss_pred HHHHHHHHHHhCC---C-EEEecCccccCH-HHHHHHHHHhCCCchhhhCeEecCCCeEEeccEEEEEhHHHHHHhhcCC
Confidence 9999999998531 1 34554 3 7998 8999999999986431 1 01 1478887776532 3
Q ss_pred CCCCCHHHHHHH-cCCC
Q 017267 236 GVRCNLKEAVEM-AGLA 251 (374)
Q Consensus 236 ~~~~~L~~l~~~-lgI~ 251 (374)
.++++|+.++++ +|..
T Consensus 152 ~~sysLd~Va~~~Lg~~ 168 (204)
T cd05779 152 QGSQGLKAVTKAKLGYD 168 (204)
T ss_pred CCCccHHHHHHHHhCCC
Confidence 458999999994 7864
No 66
>KOG0304 consensus mRNA deadenylase subunit [RNA processing and modification]
Probab=98.09 E-value=3e-05 Score=72.39 Aligned_cols=172 Identities=20% Similarity=0.200 Sum_probs=112.4
Q ss_pred cEEEEEEeeCCCCC----C---C-----------CCCCceEEEceEEEEcCCCeEEE----EEEEeec---CCCCCCCCc
Q 017267 97 YFVVIDFEATCDKD----K---N-----------PYPQEIIEFPSVIVSSVTGQLEA----CFQTYVR---PTCNQLLSD 151 (374)
Q Consensus 97 ~~VVfDlETTGl~~----~---~-----------~~~deIIEIGAVkvd~~~G~iid----sF~~lVk---P~~~p~Is~ 151 (374)
.||++|.|.-|.-. - + -..-.+|++|....| .+|++-+ +.+.-.+ +.. .--++
T Consensus 25 ~~IamDTEFPGvv~rp~~~f~s~~d~~Y~~lk~NVd~lklIQlGlTlsd-~~Gn~p~~g~~tWqfNF~dF~~~~-D~~a~ 102 (239)
T KOG0304|consen 25 PYIAMDTEFPGVVARPIGTFRSSDDYHYQTLKCNVDNLKLIQLGLTLSD-EKGNLPDCGTDTWQFNFSDFNLEK-DMYAQ 102 (239)
T ss_pred CeeEecCcCCceeeecCccccCChHHHHHHHHhchhhhhhhheeeeeec-cCCCCCCCCCceeEEecccCCchh-hccch
Confidence 58999999877510 0 0 023479999999998 6777754 4444433 322 12344
Q ss_pred chhhh---cCCChHHHh-CCCCHHHHHHHHHHHHhhcCCC-CccEEEEE-cCcchHHHHHHHHHHHcCCCCC--------
Q 017267 152 FCKDL---TGIQQIQVD-RGVTLSEALLRHDKWLENKGIK-NTNFAVVT-WSNWDCRVMLESECRFKKIWKP-------- 217 (374)
Q Consensus 152 ~~~~L---TGIt~e~v~-~ap~~~eVl~ef~~fl~~~~l~-~~n~~vv~-~g~fDl~~fL~~~~~~~gi~~P-------- 217 (374)
.+.++ +||+-+... .+...++ |.+.+-..+++ ..++.+|+ ++.+|. ++|-+-+....++-.
T Consensus 103 ~SIElLr~~Gidf~K~~e~GI~~~~----F~ellm~sg~v~~~~V~WvTFhs~YDf-gYLlK~Lt~~~LP~~~~eF~~~v 177 (239)
T KOG0304|consen 103 DSIELLRRSGIDFEKHREEGIDIEE----FAELLMTSGLVLDENVTWVTFHSGYDF-GYLLKILTGKPLPETEEEFFEIV 177 (239)
T ss_pred hhHHHHHHcCcCHHHHHHcCCCHHH----HHHHHHHhhhhccCceEEEEeeccchH-HHHHHHHcCCCCcchHHHHHHHH
Confidence 44444 689888775 5776664 33333344433 34666777 688897 788776654433211
Q ss_pred -CCCCceeehHHHHHHhcCC-CCCCHHHHHHHcCCCCCCCCCcHHHHHHHHHHHHHHHHH
Q 017267 218 -PYFNRWINLKVPFHEVFGG-VRCNLKEAVEMAGLAWQGRAHCGLDDAKNTARLLALLMH 275 (374)
Q Consensus 218 -~~~~~~iDt~~l~~~~~~~-~~~~L~~l~~~lgI~~~g~~HrALdDA~atA~l~~~ll~ 275 (374)
.++..+.|++.+++..-+. ...+|..+++.+++.-.|..|.|=.|+..||.+|.+|.+
T Consensus 178 ~~~fp~vYDiK~l~~~c~~~~l~~GL~~lA~~L~~~RvG~~HqAGSDSlLT~~~F~kl~~ 237 (239)
T KOG0304|consen 178 RQLFPFVYDVKYLMKFCEGLSLKGGLQRLADLLGLKRVGIAHQAGSDSLLTARVFFKLKE 237 (239)
T ss_pred HHHcchhhhHHHHHHhhhhhhhhcCHHHHHHHhCCCeeecccccCcHHHHHHHHHHHHHh
Confidence 0123456777666544332 257899999999999889999999999999999999865
No 67
>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=98.09 E-value=0.00013 Score=68.28 Aligned_cols=130 Identities=19% Similarity=0.184 Sum_probs=89.4
Q ss_pred CCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHHHHHHhhcCCCCccEEE
Q 017267 114 YPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRHDKWLENKGIKNTNFAV 193 (374)
Q Consensus 114 ~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ef~~fl~~~~l~~~n~~v 193 (374)
.-.+||-|+++.++ .++++ +..++-.+. ....+.+.+|.++++... ..+
T Consensus 7 ~f~kIV~Is~~~~~-~~~~~--~v~s~~~~~-----------------------~~E~~lL~~F~~~~~~~~-----p~L 55 (209)
T PF10108_consen 7 PFHKIVCISVVYAD-DDGQF--KVKSLGGPD-----------------------DDEKELLQDFFDLVEKYN-----PQL 55 (209)
T ss_pred cCCCeEEEEEEEEe-cCCcE--EEEeccCCC-----------------------CCHHHHHHHHHHHHHhCC-----CeE
Confidence 45799999999886 34443 222221111 136889999999998642 234
Q ss_pred EE-cC-cchHHHHHHHHHHHcCCCCCCCCC---------------ceeehHHHHHHhcC-CCCCCHHHHHHHcCCCCCCC
Q 017267 194 VT-WS-NWDCRVMLESECRFKKIWKPPYFN---------------RWINLKVPFHEVFG-GVRCNLKEAVEMAGLAWQGR 255 (374)
Q Consensus 194 v~-~g-~fDl~~fL~~~~~~~gi~~P~~~~---------------~~iDt~~l~~~~~~-~~~~~L~~l~~~lgI~~~g~ 255 (374)
|+ || .||+ .+|..-.-.+|+..|.+++ +-+||..++.. ++ ....+|+.+|..+|||-...
T Consensus 56 Vs~NG~~FDl-P~L~~Ral~~gi~~p~~~~~~~k~WenY~~Ry~~~H~DLmd~l~~-~g~~~~~sLd~la~~lgiPgK~~ 133 (209)
T PF10108_consen 56 VSFNGRGFDL-PVLCRRALIHGISAPRYLDIGNKPWENYRNRYSERHLDLMDLLSF-YGAKARTSLDELAALLGIPGKDD 133 (209)
T ss_pred EecCCccCCH-HHHHHHHHHhCCCCchhhhcCCCCccccccccCcccccHHHHHhc-cCccccCCHHHHHHHcCCCCCCC
Confidence 54 55 7998 8999888899999886431 23777766543 33 34789999999999984211
Q ss_pred ------------------CCcHHHHHHHHHHHHHHHHHc
Q 017267 256 ------------------AHCGLDDAKNTARLLALLMHR 276 (374)
Q Consensus 256 ------------------~HrALdDA~atA~l~~~ll~~ 276 (374)
+.--..|+.+|+.||+++..-
T Consensus 134 idGs~V~~~y~~g~i~~I~~YCe~DVl~T~~lylR~~~~ 172 (209)
T PF10108_consen 134 IDGSQVAELYQEGDIDEIREYCEKDVLNTYLLYLRFELL 172 (209)
T ss_pred CCHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 011267999999999998753
No 68
>PRK05755 DNA polymerase I; Provisional
Probab=98.08 E-value=3.3e-05 Score=86.14 Aligned_cols=136 Identities=21% Similarity=0.176 Sum_probs=94.0
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 175 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ 175 (374)
..+++||+||||+ ++..++|+.|+.. + .+|.. .+|.+. +|. .++++
T Consensus 315 ~~~~a~DtEt~~l---~~~~~~i~~i~ls-~--~~g~~-----~~ip~~-------------~i~----------~~~l~ 360 (880)
T PRK05755 315 AGLFAFDTETTSL---DPMQAELVGLSFA-V--EPGEA-----AYIPLD-------------QLD----------REVLA 360 (880)
T ss_pred cCeEEEEeccCCC---CcccccEEEEEEE-e--CCCcE-----EEEecc-------------ccc----------HHHHH
Confidence 4689999999996 4678889998753 3 34431 233221 111 16888
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCHHHHHHHc-CCCC--
Q 017267 176 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAVEMA-GLAW-- 252 (374)
Q Consensus 176 ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~~~~~L~~l~~~l-gI~~-- 252 (374)
.|.+|+++..+ ..|.||+.||+ .||.. .|+..+ ..++||+.....+.+...++|+.++++| |+..
T Consensus 361 ~l~~~L~d~~v----~kV~HNakfDl-~~L~~----~gi~~~---~~~~DT~iAa~Ll~~~~~~~L~~L~~~ylg~~~~~ 428 (880)
T PRK05755 361 ALKPLLEDPAI----KKVGQNLKYDL-HVLAR----YGIELR---GIAFDTMLASYLLDPGRRHGLDSLAERYLGHKTIS 428 (880)
T ss_pred HHHHHHhCCCC----cEEEeccHhHH-HHHHh----CCCCcC---CCcccHHHHHHHcCCCCCCCHHHHHHHHhCCCccc
Confidence 89999998542 24788899997 78763 577653 5689998655544443348999999887 5542
Q ss_pred ----------------CCCCCcHHHHHHHHHHHHHHHHHcc
Q 017267 253 ----------------QGRAHCGLDDAKNTARLLALLMHRG 277 (374)
Q Consensus 253 ----------------~g~~HrALdDA~atA~l~~~ll~~g 277 (374)
+...|.|..|+..|++|+.+|.++.
T Consensus 429 ~~~~~gk~~~~~~~ple~~~~YAa~Dv~~~~~L~~~L~~~L 469 (880)
T PRK05755 429 FEEVAGKQLTFAQVDLEEAAEYAAEDADVTLRLHEVLKPKL 469 (880)
T ss_pred hHHhcCCCCCccccCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 0124789999999999999888753
No 69
>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=98.02 E-value=0.00024 Score=66.35 Aligned_cols=121 Identities=15% Similarity=0.043 Sum_probs=81.5
Q ss_pred cEEEEEEeeCCCCCC-----CCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHH
Q 017267 97 YFVVIDFEATCDKDK-----NPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLS 171 (374)
Q Consensus 97 ~~VVfDlETTGl~~~-----~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~ 171 (374)
..+.||+||+...+. ++..++||.||... .++. ... +. ....+..
T Consensus 10 kilsfDIE~~~~~~~~~p~p~~~~d~Ii~Is~~~---~~~~-----~~~--------~~--------------~~~~~E~ 59 (207)
T cd05785 10 RRLQLDIETYSLPGFFFSNPDRGDDRIIIVALRD---NRGW-----EEV--------LH--------------AEDAAEK 59 (207)
T ss_pred eEEEEEEEecCCCCccCCCCCCCCCeEEEEeccc---CCCc-----eee--------ec--------------cCCCCHH
Confidence 588999999886542 23568999998752 1221 000 00 0157789
Q ss_pred HHHHHHHHHHhhcCCCCccEEEEE-cC-cchHHHHHHHHHHHcCCCCCC-------------C---------------CC
Q 017267 172 EALLRHDKWLENKGIKNTNFAVVT-WS-NWDCRVMLESECRFKKIWKPP-------------Y---------------FN 221 (374)
Q Consensus 172 eVl~ef~~fl~~~~l~~~n~~vv~-~g-~fDl~~fL~~~~~~~gi~~P~-------------~---------------~~ 221 (374)
+.|.+|.+++..... . +|++ |+ .||+ .+|..-++++|++.+. + ..
T Consensus 60 ~lL~~f~~~i~~~dP---d-ii~g~N~~~FD~-pyl~~R~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~i~Gr 134 (207)
T cd05785 60 ELLEELVAIIRERDP---D-VIEGHNIFRFDL-PYLRRRCRRHGVPLAIGRDGSIPRQRPSRFRFAERLIDYPRYDIPGR 134 (207)
T ss_pred HHHHHHHHHHHHhCC---C-EEeccCCcccCH-HHHHHHHHHhCCCcccccCCCcceEeeccccccccccccceEEecCE
Confidence 999999999998421 2 3444 45 7998 8999999999987630 0 01
Q ss_pred ceeehHHHHHHh----cCCCCCCHHHHHHHcCCCC
Q 017267 222 RWINLKVPFHEV----FGGVRCNLKEAVEMAGLAW 252 (374)
Q Consensus 222 ~~iDt~~l~~~~----~~~~~~~L~~l~~~lgI~~ 252 (374)
..+|+..++++. +...+++|+++++++|+.-
T Consensus 135 ~~iDl~~~~~~~~~~~~~l~sysL~~Va~~~g~~~ 169 (207)
T cd05785 135 HVIDTYFLVQLFDVSSRDLPSYGLKAVAKHFGLAS 169 (207)
T ss_pred EEEEcHHHHHhhcccccCCCCCCHHHHHHHhcccC
Confidence 227887777652 3456899999999998743
No 70
>KOG1956 consensus DNA topoisomerase III alpha [Replication, recombination and repair]
Probab=97.97 E-value=3.5e-06 Score=88.49 Aligned_cols=42 Identities=33% Similarity=0.837 Sum_probs=37.6
Q ss_pred ccceecCCCCCCccccccCCCCCCCCcccCCCCcccCCCccCccccc
Q 017267 324 YHPSCFCGVKSSKGMVRKPGPKQGSVFFGCGNWTVTRGARCHFFEWA 370 (374)
Q Consensus 324 ~~~~c~cg~~~~~~~v~k~Gpn~Gr~fy~C~~~~~~~~~~c~~f~W~ 370 (374)
..+.|+|+.++..++|+|.|||.||.||.|.. . ++|+||.|+
T Consensus 717 ~~~~c~c~~ra~~l~v~k~~~nrGR~f~sc~~----~-k~c~ff~w~ 758 (758)
T KOG1956|consen 717 EEVTCGCGTRAVKLLVAKTEPNRGRKFYSCLP----E-KSCNFFAWE 758 (758)
T ss_pred cccccCCcchhhhhhhhccCccCCCCCcccCC----C-CCcceEeeC
Confidence 46799999999999999999999999999943 2 569999996
No 71
>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=97.79 E-value=0.0022 Score=60.56 Aligned_cols=136 Identities=15% Similarity=0.079 Sum_probs=85.1
Q ss_pred cEEEEEEeeCCCCCC--CCCCCceEEEceEEEEcCCCe--EEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHH
Q 017267 97 YFVVIDFEATCDKDK--NPYPQEIIEFPSVIVSSVTGQ--LEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSE 172 (374)
Q Consensus 97 ~~VVfDlETTGl~~~--~~~~deIIEIGAVkvd~~~G~--iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~e 172 (374)
..+.||+||+...+. +|..|+||.|+.+.-. +|. ...+.-..+++.. + ++ ...|..-.+..+
T Consensus 8 ~~ls~DIE~~s~~g~fP~p~~D~Ii~Is~~~~~--~~~~~~~~~~~~~l~~~~-~-~~----------~~~v~~~~~E~e 73 (230)
T cd05777 8 RILSFDIECAGRKGVFPEPEKDPVIQIANVVTR--QGEGEPFIRNIFTLKTCA-P-IV----------GAQVFSFETEEE 73 (230)
T ss_pred eEEEEEEEECCCCCCCCCCCCCeEEEEEEEEEe--CCCCCCceeEEEEeCCCC-C-CC----------CCEEEEECCHHH
Confidence 578999999976543 3567999999988642 332 2122111123221 1 21 122333467899
Q ss_pred HHHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCC-CC--------------------C----------
Q 017267 173 ALLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKP-PY--------------------F---------- 220 (374)
Q Consensus 173 Vl~ef~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~P-~~--------------------~---------- 220 (374)
.|.+|.+++.... -.+++.+|+ .||+ .+|..-++.+|+... .+ .
T Consensus 74 LL~~f~~~i~~~D---PDii~GyN~~~FDl-~yL~~R~~~l~i~~~~~lgR~~~~~~~~~~~~~~~~~~g~~~~~~~~i~ 149 (230)
T cd05777 74 LLLAWRDFVQEVD---PDIITGYNICNFDL-PYLLERAKALKLNTFPFLGRIKNIKSTIKDTTFSSKQMGTRETKEINIE 149 (230)
T ss_pred HHHHHHHHHHhcC---CCEEEEecCCCCCH-HHHHHHHHHhCCccccccccccCCceeEeCCcccccccccccceEEEEc
Confidence 9999999999742 133344454 7998 899888888877621 00 0
Q ss_pred -CceeehHHHHHHhcCCCCCCHHHHHH-HcCC
Q 017267 221 -NRWINLKVPFHEVFGGVRCNLKEAVE-MAGL 250 (374)
Q Consensus 221 -~~~iDt~~l~~~~~~~~~~~L~~l~~-~lgI 250 (374)
.-.+|+...++..+...+++|+++++ .+|.
T Consensus 150 GR~~iD~~~~~~~~~kl~sy~L~~Va~~~Lg~ 181 (230)
T cd05777 150 GRIQFDLLQVIQRDYKLRSYSLNSVSAHFLGE 181 (230)
T ss_pred CEEeeeHHHHHHHhcCcccCcHHHHHHHHhCC
Confidence 12357777777666777899999997 4453
No 72
>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=97.69 E-value=0.0017 Score=60.49 Aligned_cols=136 Identities=18% Similarity=0.129 Sum_probs=79.9
Q ss_pred cEEEEEEeeCCCC-CCCCC----CCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHH
Q 017267 97 YFVVIDFEATCDK-DKNPY----PQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLS 171 (374)
Q Consensus 97 ~~VVfDlETTGl~-~~~~~----~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~ 171 (374)
..+.||+||+... +..|. .++||.|+.+ + .+|. ..+-.+=++.. ...+.... ....+..-.+..
T Consensus 6 rilsfDIE~~~~~~~~fP~~~~~~d~IisI~~~--~-~~~~--~~v~~~~~~~~-~~~~~~~~-----~~~~v~~~~~E~ 74 (204)
T cd05783 6 KRIAIDIEVYTPIKGRIPDPKTAEYPVISVALA--G-SDGL--KRVLVLKREGV-EGLEGLLP-----EGAEVEFFDSEK 74 (204)
T ss_pred eEEEEEEEECCCCCCCCcCCCCCCCeEEEEEEc--C-CCCC--cEEEEEecCCc-ccccccCC-----CCCeEEecCCHH
Confidence 5889999999643 32332 3789999875 2 2231 12211111111 00000000 011133336789
Q ss_pred HHHHHHHHHHhhcCCCCccEEEEEc-C-cchHHHHHHHHHHHcCCC---CCCC---------CCceeehHHHHHH-h---
Q 017267 172 EALLRHDKWLENKGIKNTNFAVVTW-S-NWDCRVMLESECRFKKIW---KPPY---------FNRWINLKVPFHE-V--- 233 (374)
Q Consensus 172 eVl~ef~~fl~~~~l~~~n~~vv~~-g-~fDl~~fL~~~~~~~gi~---~P~~---------~~~~iDt~~l~~~-~--- 233 (374)
+.|.+|.+|+.+. . ++++| + +||+ .+|..-++++|+. .|.. ....+|+...++. .
T Consensus 75 ~lL~~F~~~i~~~-----~-~iig~N~~~FDl-pyl~~R~~~~gi~~~~~~~~~~~~~~~~~g~~~iDl~~~~~~~~~~~ 147 (204)
T cd05783 75 ELIREAFKIISEY-----P-IVLTFNGDNFDL-PYLYNRALKLGIPKEEIPIYLKRDYATLKHGIHIDLYKFFSNRAIQV 147 (204)
T ss_pred HHHHHHHHHHhcC-----C-EEEEeCCCCcCH-HHHHHHHHHhCCChhhCceeecCCceeccCcEEeECHHHhhccchhh
Confidence 9999999999864 2 45565 3 7998 8999999999987 2211 1235788765542 1
Q ss_pred --c--CCCCCCHHHHHHHc-CC
Q 017267 234 --F--GGVRCNLKEAVEMA-GL 250 (374)
Q Consensus 234 --~--~~~~~~L~~l~~~l-gI 250 (374)
+ ...+++|+++++++ |.
T Consensus 148 ~~~~~~~~~~~L~~Va~~~lg~ 169 (204)
T cd05783 148 YAFGNKYREYTLDAVAKALLGE 169 (204)
T ss_pred hhhccccccCcHHHHHHHhcCC
Confidence 2 23689999999866 54
No 73
>smart00481 POLIIIAc DNA polymerase alpha chain like domain. DNA polymerase alpha chain like domain, incl. family of hypothetical proteins
Probab=97.54 E-value=5e-05 Score=57.77 Aligned_cols=31 Identities=3% Similarity=-0.137 Sum_probs=28.4
Q ss_pred ccCCCCCCChhhHHHHHHhcCCcceeecccC
Q 017267 39 LKDDTIVHPGGDAGESIHQLSSEFVEYSNEF 69 (374)
Q Consensus 39 ~~~~~~~~~~~~~~~~a~~~g~~a~aitd~~ 69 (374)
.|..||..++.+++++|+++|.++++||||+
T Consensus 8 ~S~~~~~~~~~~~~~~a~~~g~~~v~iTDh~ 38 (67)
T smart00481 8 YSLLDGALSPEELVKRAKELGLKAIAITDHG 38 (67)
T ss_pred CccccccCCHHHHHHHHHHcCCCEEEEeeCC
Confidence 3456888999999999999999999999999
No 74
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=97.38 E-value=8.6e-05 Score=84.22 Aligned_cols=45 Identities=7% Similarity=-0.110 Sum_probs=41.7
Q ss_pred cccCCCCCCChhhHHHHHHhcCCcceeecccC---------------CCCcccccccccc
Q 017267 38 ELKDDTIVHPGGDAGESIHQLSSEFVEYSNEF---------------YNNPTYQHDFGSW 82 (374)
Q Consensus 38 ~~~~~~~~~~~~~~~~~a~~~g~~a~aitd~~---------------~~k~~y~~e~~~~ 82 (374)
+.|=.||+..++++|++|+++|++|+|||||| ++|||.|+|+|+.
T Consensus 11 ~ySlLdg~~~i~~lv~~A~~~g~~alAlTDh~~m~Ga~~F~~~a~~~gIkPIiG~e~~v~ 70 (1107)
T PRK06920 11 VFSLLKSACKIDELVVRAKELGYSSLAITDENVMYGVIPFYKACKKHGIHPIIGLTASIF 70 (1107)
T ss_pred ccchhccCCCHHHHHHHHHHCCCCEEEEEeCChHhHHHHHHHHHHHcCCCEeeeeEEEEe
Confidence 55678999999999999999999999999999 7999999999874
No 75
>KOG4793 consensus Three prime repair exonuclease [Replication, recombination and repair]
Probab=97.31 E-value=0.00092 Score=64.46 Aligned_cols=171 Identities=12% Similarity=0.072 Sum_probs=108.8
Q ss_pred CCccEEEEEEeeCCCCCCCCCCCceEEEceE-----EEEcC------C-------CeEEEEEEEeecCCCCCCCCcchhh
Q 017267 94 EFQYFVVIDFEATCDKDKNPYPQEIIEFPSV-----IVSSV------T-------GQLEACFQTYVRPTCNQLLSDFCKD 155 (374)
Q Consensus 94 ~~~~~VVfDlETTGl~~~~~~~deIIEIGAV-----kvd~~------~-------G~iidsF~~lVkP~~~p~Is~~~~~ 155 (374)
...+|+++|+|+||+++ ...+|-|+-.. .++.+ + -++.+..+-++-|.. ..++...+
T Consensus 11 r~~tf~fldleat~lp~---~~~~iteLcLlav~assle~k~~e~dq~~~~tlp~~Rvl~Klsvl~~p~~--v~~p~aee 85 (318)
T KOG4793|consen 11 RLRTFSFLDLEATGLPG---WIPNITELCLLAVHASSLEGKAREIDQNVSTTLPGSRVLDKLSVLGGPVP--VTRPIAEE 85 (318)
T ss_pred ceeEEEeeeeccccCCc---ccccchhhhHHHHHHHhhcCCccccccCCCccCCccchhhhhhhccCCcC--CcChhhhh
Confidence 45789999999999864 34456665322 22211 1 144566777777874 57888899
Q ss_pred hcCCChHHHh--CCCCHH-HHHHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCCCCCceeehHHHHH
Q 017267 156 LTGIQQIQVD--RGVTLS-EALLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPPYFNRWINLKVPFH 231 (374)
Q Consensus 156 LTGIt~e~v~--~ap~~~-eVl~ef~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~ 231 (374)
+||+++.-+. ...-|. ++.+-+..|+..-. .--..|+||| .||+ .+|.++++..|+..|. .-..+|+...++
T Consensus 86 itgls~~~~~l~rr~~~D~dla~LL~afls~lp--~p~CLVaHng~~~df-pil~qela~lg~~lpq-~lvcvdslpa~~ 161 (318)
T KOG4793|consen 86 ITGLSQPFLALQRRLAFDKDLAKLLTAFLSRLP--TPGCLVAHNGNEYDF-PILAQELAGLGYSLPQ-DLVCVDSLPALN 161 (318)
T ss_pred hcccccHHHHHHHHhhhhHHHHHHHHHHHhcCC--CCceEEeecCCcccc-HHHHHHHHhcCccchh-hhcCcchhHHHH
Confidence 9999997653 333344 45555667777532 2234567776 6897 8999999999998863 234567766555
Q ss_pred HhcC----------CCCCCHHHHHHHcCCC-CCCCCCcHHHHHHHHHHHHHHH
Q 017267 232 EVFG----------GVRCNLKEAVEMAGLA-WQGRAHCGLDDAKNTARLLALL 273 (374)
Q Consensus 232 ~~~~----------~~~~~L~~l~~~lgI~-~~g~~HrALdDA~atA~l~~~l 273 (374)
.+-. .+.++|..+-.+|=-. .....|.|..|.-.+.-+|+..
T Consensus 162 ald~a~s~~tr~~~~~~~~l~~If~ry~~q~eppa~~~~e~d~~~l~~~fqf~ 214 (318)
T KOG4793|consen 162 ALDRANSMVTRPEVRRMYSLGSIFLRYVEQREPPAGHVAEGDVNGLLFIFQFR 214 (318)
T ss_pred HHhhhcCcccCCCCCcccccchHHHhhhcccCCCcceeeecccchhHHHHHHH
Confidence 4321 1246788777655222 1223588888877776666543
No 76
>COG3359 Predicted exonuclease [DNA replication, recombination, and repair]
Probab=97.28 E-value=0.0038 Score=59.65 Aligned_cols=117 Identities=16% Similarity=0.109 Sum_probs=70.7
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCH-HHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTL-SEAL 174 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~-~eVl 174 (374)
+++++||+||||+. ...+.|+=+|...+ .++.+ +||... ++ +|.- .-|+
T Consensus 98 e~~~FFDiETTGL~---~ag~~I~~~g~a~~--~~~~~------~Vrq~~---lp----------------~p~~E~avl 147 (278)
T COG3359 98 EDVAFFDIETTGLD---RAGNTITLVGGARG--VDDTM------HVRQHF---LP----------------APEEEVAVL 147 (278)
T ss_pred cceEEEeeeccccC---CCCCeEEEEEEEEc--cCceE------EEEeec---CC----------------CcchhhHHH
Confidence 57999999999984 35566776666655 23333 244432 11 1111 2245
Q ss_pred HHHHHHHhhcCCCCccEEEEE-cC-cchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC--CCCCCHHHHHHHcCC
Q 017267 175 LRHDKWLENKGIKNTNFAVVT-WS-NWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG--GVRCNLKEAVEMAGL 250 (374)
Q Consensus 175 ~ef~~fl~~~~l~~~n~~vv~-~g-~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~--~~~~~L~~l~~~lgI 250 (374)
+.|+.-. + -+ .+|+ || .||. .|+++ +.+..+++. +.+.-+|+....|++-+ +.+.+|+++-+.+||
T Consensus 148 e~fl~~~-~-----~~-~lvsfNGkaFD~-PfikR-~v~~~~el~-l~~~H~DL~h~~RRlwk~~l~~c~Lk~VEr~LGi 217 (278)
T COG3359 148 ENFLHDP-D-----FN-MLVSFNGKAFDI-PFIKR-MVRDRLELS-LEFGHFDLYHPSRRLWKHLLPRCGLKTVERILGI 217 (278)
T ss_pred HHHhcCC-C-----cc-eEEEecCcccCc-HHHHH-HHhcccccC-ccccchhhhhhhhhhhhccCCCCChhhHHHHhCc
Confidence 5554433 1 12 3555 65 8996 99995 555556542 34566888666665543 346899999998888
Q ss_pred CC
Q 017267 251 AW 252 (374)
Q Consensus 251 ~~ 252 (374)
.-
T Consensus 218 ~R 219 (278)
T COG3359 218 RR 219 (278)
T ss_pred cc
Confidence 54
No 77
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=97.21 E-value=0.00016 Score=81.33 Aligned_cols=45 Identities=7% Similarity=-0.084 Sum_probs=41.2
Q ss_pred cccCCCCCCChhhHHHHHHhcCCcceeecccC---------------CCCcccccccccc
Q 017267 38 ELKDDTIVHPGGDAGESIHQLSSEFVEYSNEF---------------YNNPTYQHDFGSW 82 (374)
Q Consensus 38 ~~~~~~~~~~~~~~~~~a~~~g~~a~aitd~~---------------~~k~~y~~e~~~~ 82 (374)
+.|=.||+..++++|++|+++|++|+|||||| +||||+|+|+|+.
T Consensus 10 ~YSlldg~~~i~~lv~~A~~~g~~alAlTD~~~m~Ga~~F~~~a~~~gIkPIiG~e~~v~ 69 (1034)
T PRK07279 10 VYSFMDSLIDLEKYVERAKELGYQTIGIMDKDNLYGAYHFIEGAQKNGLQPILGLELNIF 69 (1034)
T ss_pred CCccccccCCHHHHHHHHHHCCCCEEEEEcCCccccHHHHHHHHHHcCCcEEEEEEEEEe
Confidence 45678999999999999999999999999998 7999999999863
No 78
>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=97.15 E-value=0.013 Score=54.09 Aligned_cols=121 Identities=11% Similarity=0.034 Sum_probs=76.5
Q ss_pred cEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHH
Q 017267 97 YFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLR 176 (374)
Q Consensus 97 ~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~e 176 (374)
..+.||+||++. .+|+.||-. +.....++ .+=.+.. .. | ..+.--++..+.|.+
T Consensus 4 ~~~~fDIE~~~~-------~~i~~i~~~--~~~~~~i~----~~~~~~~---~~-------~---~~v~~~~~E~~lL~~ 57 (193)
T cd05784 4 KVVSLDIETSMD-------GELYSIGLY--GEGQERVL----MVGDPED---DA-------P---DNIEWFADEKSLLLA 57 (193)
T ss_pred cEEEEEeecCCC-------CCEEEEEee--cCCCCEEE----EECCCCC---CC-------C---CEEEEECCHHHHHHH
Confidence 478999999973 288888763 32333332 1111111 10 1 112233577889999
Q ss_pred HHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCCCC-----------------------CceeehHHHHHH
Q 017267 177 HDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPPYF-----------------------NRWINLKVPFHE 232 (374)
Q Consensus 177 f~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~P~~~-----------------------~~~iDt~~l~~~ 232 (374)
|.+++..... .+++.+|+ .||+ .+|..-++.+|+..+ +. .-.+|+..+.+.
T Consensus 58 f~~~i~~~dP---Dvi~g~N~~~FD~-~yl~~R~~~~~i~~~-~gR~~~~~~~~~~g~~~~~~~~i~GR~~~D~~~~~k~ 132 (193)
T cd05784 58 LIAWFAQYDP---DIIIGWNVINFDL-RLLQRRAEAHGLPLR-LGRGGSPLNWRQSGKPGQGFLSLPGRVVLDGIDALKT 132 (193)
T ss_pred HHHHHHhhCC---CEEEECCCcCcCH-HHHHHHHHHhCCCcc-cccCCCccccccCCcCCcceEEEeeEEEEEhHHHHHH
Confidence 9999997521 23333444 7998 899999999888742 11 115788777765
Q ss_pred -hcCCCCCCHHHHHHHc
Q 017267 233 -VFGGVRCNLKEAVEMA 248 (374)
Q Consensus 233 -~~~~~~~~L~~l~~~l 248 (374)
.+...+|+|+++++++
T Consensus 133 ~~~kl~sy~L~~Va~~~ 149 (193)
T cd05784 133 ATYHFESFSLENVAQEL 149 (193)
T ss_pred ccCCCCcCCHHHHHHHH
Confidence 4677899999999855
No 79
>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=97.07 E-value=0.043 Score=55.74 Aligned_cols=161 Identities=17% Similarity=0.059 Sum_probs=98.6
Q ss_pred cEEEEEEeeCCCCCCCC--C--CCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHH
Q 017267 97 YFVVIDFEATCDKDKNP--Y--PQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSE 172 (374)
Q Consensus 97 ~~VVfDlETTGl~~~~~--~--~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~e 172 (374)
..++||+||+...+..| . .++||.|+.+.-+...............+.. .+ .++ .+..-....+
T Consensus 4 ~~~~~DIEt~~~~~~~p~~~~~~~~ii~i~~~~~~~~~~~~~~~~~~~~~~~~--~~-------~~~---~~~~~~~E~~ 71 (471)
T smart00486 4 KILSFDIETYTDGGLFPDPLIFEDEIIQISLVINDGDKKGPEERICFTLGTCK--EI-------DGV---EVYEFNNEKE 71 (471)
T ss_pred eEEEEEEEECCCCCCCCCCCCCCCeEEEEEEEEEECCCCCCceeEEEEecCcC--CC-------CCC---eEEecCCHHH
Confidence 57899999997643222 2 6899999988765322112222223333432 12 221 2222237788
Q ss_pred HHHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCC----------C---------------------C
Q 017267 173 ALLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPP----------Y---------------------F 220 (374)
Q Consensus 173 Vl~ef~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~P~----------~---------------------~ 220 (374)
.+.+|.+++..... .+++.+|+ .||+ .+|...+...++.... . .
T Consensus 72 lL~~f~~~i~~~dp---dii~g~N~~~FD~-~~i~~R~~~~~~~~~~~i~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~g 147 (471)
T smart00486 72 LLKAFLEFIKKYDP---DIIYGHNISNFDL-PYIISRLEKLKIKPLSFIGRLKNIIDIKRKKPLFGSKSFGKTIKVKIKG 147 (471)
T ss_pred HHHHHHHHHHHhCC---CEEEeecCCCCCH-HHHHHHHHHcCCCCHHHcCcCCCCCCcccccCccccccccccceeEecc
Confidence 99999999987531 34555665 6997 8888888776663320 0 0
Q ss_pred CceeehHHHHHHhcCCCCCCHHHHHHHcCC-CCCCCC-------------------CcHHHHHHHHHHHHHHH
Q 017267 221 NRWINLKVPFHEVFGGVRCNLKEAVEMAGL-AWQGRA-------------------HCGLDDAKNTARLLALL 273 (374)
Q Consensus 221 ~~~iDt~~l~~~~~~~~~~~L~~l~~~lgI-~~~g~~-------------------HrALdDA~atA~l~~~l 273 (374)
.-.+|+..+++..+...+++|+.+++++.- ....-. .--+.||..+.+|+.++
T Consensus 148 ~~~~Dl~~~~~~~~kl~~~~L~~va~~~l~~~k~d~~~~~i~~~~~~~~~~~~~~~~Y~~~D~~l~~~l~~~l 220 (471)
T smart00486 148 RLVIDLYNLYKNKLKLPSYKLDTVAEYLLGKEKDDLPYKDIPELYNLNYKLRDELLEYCIQDAVLTLKLFNKL 220 (471)
T ss_pred EEEEEhHHHHHHHhCcccCCHHHHHHHHhCCCCCCCCHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 234688888887777778999999876532 111000 11156888998888885
No 80
>PTZ00166 DNA polymerase delta catalytic subunit; Provisional
Probab=96.93 E-value=0.022 Score=65.05 Aligned_cols=162 Identities=17% Similarity=0.093 Sum_probs=98.8
Q ss_pred cEEEEEEeeCCCCC-CC--CCCCceEEEceEEEEcCCCeEEEEEEEe-ecCCCCCCCCcchhhhcCCChHHHhCCCCHHH
Q 017267 97 YFVVIDFEATCDKD-KN--PYPQEIIEFPSVIVSSVTGQLEACFQTY-VRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSE 172 (374)
Q Consensus 97 ~~VVfDlETTGl~~-~~--~~~deIIEIGAVkvd~~~G~iidsF~~l-VkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~e 172 (374)
..+.||+||++.++ +. +..|+||+|+.+... .|.-.+.+... +-+. .+..+.| ..|..-.+..+
T Consensus 265 rilSfDIE~~~~~g~~FP~~~~D~IIqIs~~~~~--~g~~~~~~~r~vftl~-------~c~~i~g---~~V~~f~sE~e 332 (1054)
T PTZ00166 265 RILSFDIECIKLKGLGFPEAENDPVIQISSVVTN--QGDEEEPLTKFIFTLK-------ECASIAG---ANVLSFETEKE 332 (1054)
T ss_pred EEEEEEEEECCCCCCCCCCCCCCcEEEEEEEEee--CCCccCCcceEEEecC-------ccccCCC---ceEEEeCCHHH
Confidence 48899999997654 22 467999999998653 34321112111 1111 0111112 23444567899
Q ss_pred HHHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCC-CC--------------------CC----------
Q 017267 173 ALLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWK-PP--------------------YF---------- 220 (374)
Q Consensus 173 Vl~ef~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~-P~--------------------~~---------- 220 (374)
.|.+|.+|+.... -.+++.+|. +||+ .+|..-++..|+.. +. +.
T Consensus 333 LL~~f~~~I~~~D---PDII~GYNi~~FDl-pYL~~Ra~~l~i~~~~~lgR~~~~~~~~~~~~~~~~~~g~~~~~~~~i~ 408 (1054)
T PTZ00166 333 LLLAWAEFVIAVD---PDFLTGYNIINFDL-PYLLNRAKALKLNDFKYLGRIKSTRSVIKDSKFSSKQMGTRESKEINIE 408 (1054)
T ss_pred HHHHHHHHHHhcC---CCEEEecCCcCCcH-HHHHHHHHHhCCCchhhcCcccCCCccccccccccccccccccceeEee
Confidence 9999999998743 233333343 7997 88888888877651 10 00
Q ss_pred -CceeehHHHHHHhcCCCCCCHHHHHHHc-CCCCCCCCC-------------------cHHHHHHHHHHHHHHHH
Q 017267 221 -NRWINLKVPFHEVFGGVRCNLKEAVEMA-GLAWQGRAH-------------------CGLDDAKNTARLLALLM 274 (374)
Q Consensus 221 -~~~iDt~~l~~~~~~~~~~~L~~l~~~l-gI~~~g~~H-------------------rALdDA~atA~l~~~ll 274 (374)
.-.+|+..+++..+.+.+|+|++++.++ |..-+.-+| -.+.||+.+.+|+.+|.
T Consensus 409 GR~~iDl~~~~~~~~kl~sYsL~~Vs~~~Lg~~K~dv~~~~i~~~~~~~~~~~~~l~~Y~l~Da~L~~~L~~kl~ 483 (1054)
T PTZ00166 409 GRIQFDVMDLIRRDYKLKSYSLNYVSFEFLKEQKEDVHYSIISDLQNGSPETRRRIAVYCLKDAILPLRLLDKLL 483 (1054)
T ss_pred eEEEEEHHHHHHHhcCcCcCCHHHHHHHHhCCCCCCCCHHHHHHHHhcChhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 1236787777777777899999999854 533211111 12678888888888774
No 81
>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=96.86 E-value=0.0086 Score=62.29 Aligned_cols=123 Identities=11% Similarity=0.117 Sum_probs=85.4
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 175 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ 175 (374)
...++|||||+- ...-.-.+|++..+ +|...+.|..|+-... ....+++.
T Consensus 284 ~~~~ffDiEt~P------~~~~~yL~G~~~~~--~~~~~~~~~~fla~~~----------------------~~E~~~~~ 333 (457)
T TIGR03491 284 PGELIFDIESDP------DENLDYLHGFLVVD--KGQENEKYRPFLAEDP----------------------NTEELAWQ 333 (457)
T ss_pred CccEEEEecCCC------CCCCceEEEEEEec--CCCCCcceeeeecCCc----------------------hHHHHHHH
Confidence 457889999992 34456678887664 3433334665553321 12467899
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCC---CCCCceeehHHHHHHhc--CCCCCCHHHHHHHcCC
Q 017267 176 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKP---PYFNRWINLKVPFHEVF--GGVRCNLKEAVEMAGL 250 (374)
Q Consensus 176 ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P---~~~~~~iDt~~l~~~~~--~~~~~~L~~l~~~lgI 250 (374)
+|.+|+.... +..|+|++.+.. ..|++-+++++.... .+..+++|+....+..+ +..+++|+.++..+|.
T Consensus 334 ~f~~~l~~~~----~~~i~hY~~~e~-~~l~rla~~~~~~~~~~~~l~~~~vDL~~~vr~~~~~p~~sysLK~v~~~lg~ 408 (457)
T TIGR03491 334 QFLQLLQSYP----DAPIYHYGETEK-DSLRRLAKRYGTPEAEIEELLKRFVDIHTIVRRSWILPIESYSLKSIARWLGF 408 (457)
T ss_pred HHHHHHHHCC----CCeEEeeCHHHH-HHHHHHHHHcCCCHHHHHHHHHHheehHHHHHhhEECCCCCCCHHHHHHHhCc
Confidence 9999998742 345789888885 889999998887521 12247899987766543 5668999999999999
Q ss_pred CCC
Q 017267 251 AWQ 253 (374)
Q Consensus 251 ~~~ 253 (374)
.+.
T Consensus 409 ~~~ 411 (457)
T TIGR03491 409 EWR 411 (457)
T ss_pred ccC
Confidence 775
No 82
>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=96.79 E-value=0.099 Score=49.56 Aligned_cols=172 Identities=11% Similarity=-0.047 Sum_probs=102.0
Q ss_pred cEEEEEEeeCCCCCC--CCCCCceEEEceEEEEcCCCeEEE-----EEEEeecCCCCCCCCcchhhhcCCChHHHhCCCC
Q 017267 97 YFVVIDFEATCDKDK--NPYPQEIIEFPSVIVSSVTGQLEA-----CFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVT 169 (374)
Q Consensus 97 ~~VVfDlETTGl~~~--~~~~deIIEIGAVkvd~~~G~iid-----sF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~ 169 (374)
+...||+|+.+-.++ +|..|.||.|..++-+ +..... ..--++.+.... .... .....+....|.--++
T Consensus 5 ~~ls~dI~~~s~~~~~Pdp~~D~I~~I~~~~~~--~~~~~~~~~~~~~~l~~~~~~~~-~~~~-~~~~~~~~~~v~~~~~ 80 (231)
T cd05778 5 TILSLEVHVNTRGDLLPDPEFDPISAIFYCIDD--DVSPFILDANKVGVIIVDELKSN-ASNG-RIRSGLSGIPVEVVES 80 (231)
T ss_pred EEEEEEEEECCCCCCCcCCCCCCeeEEEEEEec--CCCcccccccceeEEEEcCccch-hhhh-ccccCCCCCeEEEeCC
Confidence 578899999865443 3567999999988543 222211 122334333210 1100 1112334445666778
Q ss_pred HHHHHHHHHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCCC--C------------------CC--------
Q 017267 170 LSEALLRHDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWKP--P------------------YF-------- 220 (374)
Q Consensus 170 ~~eVl~ef~~fl~~~~l~~~n~~vv~~-g~fDl~~fL~~~~~~~gi~~P--~------------------~~-------- 220 (374)
..+.+.+|.+++..... .+++.+| .+||+ .+|..-++..++..- . +.
T Consensus 81 E~~LL~~f~~~i~~~DP---Dii~GyNi~~fd~-~YL~~Ra~~l~~~~~~~~lgR~~~~~~~~~~~~~~~~g~~~~~~~~ 156 (231)
T cd05778 81 ELELFEELIDLVRRFDP---DILSGYEIQRSSW-GYLIERAAALGIDDLLDEISRVPSDSNGKFGDRDDEWGYTHTSGIK 156 (231)
T ss_pred HHHHHHHHHHHHHHhCC---CEEEEeccccCcH-HHHHHHHHHhCCcchhhhccCCCCCCcccccccccccccccCCceE
Confidence 89999999999997531 2233333 38997 788888877665420 0 00
Q ss_pred ---CceeehHHHHHHhcCCCCCCHHHHHH-HcCCCCCCCCCcHHHHHH------HHHHHHHHHHHc
Q 017267 221 ---NRWINLKVPFHEVFGGVRCNLKEAVE-MAGLAWQGRAHCGLDDAK------NTARLLALLMHR 276 (374)
Q Consensus 221 ---~~~iDt~~l~~~~~~~~~~~L~~l~~-~lgI~~~g~~HrALdDA~------atA~l~~~ll~~ 276 (374)
.-.+|+..+++..+...+|+|+.++. .||-..+.-+|..+.+.. ...+++...+++
T Consensus 157 i~GRi~lD~~~~~r~~~kl~sYsL~~V~~~~L~~~k~~~~~~~i~~~~~~~~~~~r~~v~~Y~l~d 222 (231)
T cd05778 157 IVGRHILNVWRLMRSELALTNYTLENVVYHVLHQRIPLYSNKTLTEWYKSGSASERWRVLEYYLKR 222 (231)
T ss_pred EeeEEEeEhHHHHHHHcCcccCCHHHHHHHHhCCCCCCCCHHHHHHHHHcCCHhHhHHHHHHHHHH
Confidence 01257777777767778999999997 556654433566666653 445566666554
No 83
>PRK05898 dnaE DNA polymerase III DnaE; Validated
Probab=96.71 E-value=0.00085 Score=75.10 Aligned_cols=45 Identities=7% Similarity=-0.162 Sum_probs=40.7
Q ss_pred cccCCCCCCChhhHHHHHHhcCCcceeecccC---------------CCCcccccccccc
Q 017267 38 ELKDDTIVHPGGDAGESIHQLSSEFVEYSNEF---------------YNNPTYQHDFGSW 82 (374)
Q Consensus 38 ~~~~~~~~~~~~~~~~~a~~~g~~a~aitd~~---------------~~k~~y~~e~~~~ 82 (374)
+.|=.||...++++|++|++.|++|+|||||| ++|||.|+|+++-
T Consensus 10 ~YSlLdg~~~~~~lv~~A~e~g~~alALTD~~nl~GaveF~~~ak~~gIkPIiG~e~~v~ 69 (971)
T PRK05898 10 HYSLLSSTLSIDDIIKFALDNNQPYVCLTDLNNLYGCIEFYDKAKAHNLIPIIGLEIEYQ 69 (971)
T ss_pred ccccccccCCHHHHHHHHHHCCCCEEEEEeCCccccHHHHHHHHHHcCCCEEEEEEEEEc
Confidence 34557999999999999999999999999999 7999999999863
No 84
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=96.56 E-value=0.0012 Score=74.25 Aligned_cols=43 Identities=5% Similarity=-0.149 Sum_probs=40.0
Q ss_pred ccCCCCCCChhhHHHHHHhcCCcceeecccC---------------CCCccccccccc
Q 017267 39 LKDDTIVHPGGDAGESIHQLSSEFVEYSNEF---------------YNNPTYQHDFGS 81 (374)
Q Consensus 39 ~~~~~~~~~~~~~~~~a~~~g~~a~aitd~~---------------~~k~~y~~e~~~ 81 (374)
.|-+||+.+++++|++|+++|.+|+|||||+ ++|||.|+|++.
T Consensus 12 ySlLDg~~~~~elv~~Ak~~G~~avAITDh~~l~G~~~f~~~a~~~gIkpIiG~Ei~~ 69 (973)
T PRK07135 12 YSFLSSTIKLDSLIKYAKENNLKTLVLTDHNNMFGVPKFYKLCKKNNIKPIIGLDLEV 69 (973)
T ss_pred CcccccCCCHHHHHHHHHHcCCCEEEEecCCcHHhHHHHHHHHHHcCCeEEEeEEEEe
Confidence 4667999999999999999999999999999 689999999976
No 85
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=96.44 E-value=0.0016 Score=74.13 Aligned_cols=47 Identities=6% Similarity=-0.147 Sum_probs=42.3
Q ss_pred cccCCCCCCChhhHHHHHHhcCCcceeecccC---------------CCCcccccccccccc
Q 017267 38 ELKDDTIVHPGGDAGESIHQLSSEFVEYSNEF---------------YNNPTYQHDFGSWST 84 (374)
Q Consensus 38 ~~~~~~~~~~~~~~~~~a~~~g~~a~aitd~~---------------~~k~~y~~e~~~~~~ 84 (374)
+.|=.||+++++++|++|++.|++|+|||||+ ++|||.|+|+|+...
T Consensus 12 ~YS~Ldga~~i~~Lv~~A~~~g~~AlaiTD~~nl~Gav~Fy~~ak~~gikpIiG~e~~v~~~ 73 (1139)
T COG0587 12 EYSLLDGASKIEELVKKAKELGMPALALTDHNNLYGAVEFYKAAKKAGIKPIIGCEAYVANG 73 (1139)
T ss_pred ccchhccccCHHHHHHHHHHcCCCeEEEecCCcceeHHHHHHHHHHcCCeEEeeeEEEEecc
Confidence 34568999999999999999999999999999 799999999987644
No 86
>PRK09532 DNA polymerase III subunit alpha; Reviewed
Probab=96.40 E-value=0.0016 Score=72.68 Aligned_cols=44 Identities=5% Similarity=-0.164 Sum_probs=40.3
Q ss_pred ccCCCCCCChhhHHHHHHhcCCcceeecccC---------------CCCcccccccccc
Q 017267 39 LKDDTIVHPGGDAGESIHQLSSEFVEYSNEF---------------YNNPTYQHDFGSW 82 (374)
Q Consensus 39 ~~~~~~~~~~~~~~~~a~~~g~~a~aitd~~---------------~~k~~y~~e~~~~ 82 (374)
.|=.||..+++++|++|++.|++|||||||+ ++|||.|+|+++.
T Consensus 12 ySlLdg~~~~~elv~~A~~~G~~aiAiTDh~~~~g~~~f~~~~~~~gik~I~G~E~~~~ 70 (874)
T PRK09532 12 YSLLDGASQLPALVDRAIELGMPAIALTDHGVMYGAIELLKVCRNKGIKPIIGNEMYVI 70 (874)
T ss_pred CchhhccCCHHHHHHHHHHCCCCEEEEecCCChhhHHHHHHHHHHcCCeEEEEEEEEec
Confidence 4567899999999999999999999999999 6899999999864
No 87
>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=96.33 E-value=0.034 Score=54.02 Aligned_cols=131 Identities=15% Similarity=0.047 Sum_probs=81.5
Q ss_pred ccEEEEEEeeCCCCCC--CCCCCceEEEceEEEEcCCCe---EEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCH
Q 017267 96 QYFVVIDFEATCDKDK--NPYPQEIIEFPSVIVSSVTGQ---LEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTL 170 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~--~~~~deIIEIGAVkvd~~~G~---iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~ 170 (374)
-..+.||+||....+. ++..++|+.|+.+.-+ .|. ..+.+.++..+.. ... ...|.--.+.
T Consensus 157 l~i~s~DIe~~~~~~~~P~~~~d~I~~Is~~~~~--~~~~~~~~~~~~~~~~~~~---~~~---------~~~v~~~~~E 222 (325)
T PF03104_consen 157 LRILSFDIETYSNDGKFPDPEKDEIIMISYVVYR--NGSSEPYRRKVFTLGSCDS---IED---------NVEVIYFDSE 222 (325)
T ss_dssp SEEEEEEEEECSSSSSS-TTTTSEEEEEEEEEEE--TTEEETTEEEEEECSCSCC---TTC---------TTEEEEESSH
T ss_pred cceeEEEEEEccccCCCCCCCCCeEEEEEEEEEe--ccccCCCceEEEEecCCCC---CCC---------CcEEEEECCH
Confidence 3689999999986532 3567999999988763 221 1223334443331 111 3334445778
Q ss_pred HHHHHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCC-----CC-------------------------
Q 017267 171 SEALLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKP-----PY------------------------- 219 (374)
Q Consensus 171 ~eVl~ef~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~P-----~~------------------------- 219 (374)
.+.|..|.+++..... .+++.+|. .||+ .+|..-++..|++.. ..
T Consensus 223 ~~lL~~f~~~i~~~dP---Dii~GyN~~~fD~-~yl~~R~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 298 (325)
T PF03104_consen 223 KELLEAFLDIIQEYDP---DIITGYNIDGFDL-PYLIERAKKLGIDMFDLNGRRWSRFGRLKRKKWPSSANGSRKFSRID 298 (325)
T ss_dssp HHHHHHHHHHHHHHS----SEEEESSTTTTHH-HHHHHHHHHTTTCTHHSTTSTTTEEEEEEEEESEECTCCCTTEEEEE
T ss_pred HHHHHHHHHHHHhcCC---cEEEEecccCCCH-HHHHHHHHHhCccccccccccccceeEEeecccccccCCCcceeEEE
Confidence 9999999999997531 23333444 7998 889888888865420 00
Q ss_pred --CCceeehHHHHHHhcCCCCCCHHHH
Q 017267 220 --FNRWINLKVPFHEVFGGVRCNLKEA 244 (374)
Q Consensus 220 --~~~~iDt~~l~~~~~~~~~~~L~~l 244 (374)
..-.+|+..+++..+...+|+|+++
T Consensus 299 ~~Gr~~~D~~~~~~~~~~l~sY~L~~V 325 (325)
T PF03104_consen 299 IPGRLVLDLYRLARKDYKLDSYSLDNV 325 (325)
T ss_dssp ETTSEEEEHHHHHHHHS--SS-SHHHH
T ss_pred ECCChHhHHHHHHHhhCCCCCCCCCCC
Confidence 0124688888888887778888864
No 88
>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=96.26 E-value=0.16 Score=44.34 Aligned_cols=91 Identities=20% Similarity=0.119 Sum_probs=58.8
Q ss_pred HHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCC-CCCHHHHHHHc-C-
Q 017267 173 ALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGV-RCNLKEAVEMA-G- 249 (374)
Q Consensus 173 Vl~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~~-~~~L~~l~~~l-g- 249 (374)
++..+.+++++..+ ..|.|+..||+ .+|... .|+.. ..++|+ .+...+.+.. +++|++++..+ |
T Consensus 65 ~~~~l~~ll~~~~i----~kv~~n~~~D~-~~L~~~---~~i~~----~~~~D~-~l~~~~l~~~~~~~L~~L~~~~l~~ 131 (176)
T PF01612_consen 65 ILDALKELLEDPNI----IKVGHNAKFDL-KWLYRS---FGIDL----KNVFDT-MLAAYLLDPTRSYSLKDLAEEYLGN 131 (176)
T ss_dssp HHHHHHHHHTTTTS----EEEESSHHHHH-HHHHHH---HTS------SSEEEH-HHHHHHTTTSTTSSHHHHHHHHHSE
T ss_pred hHHHHHHHHhCCCc----cEEEEEEechH-HHHHHH---hcccc----CCccch-hhhhhcccccccccHHHHHHHHhhh
Confidence 67777788886532 24566789997 666544 67764 368899 5666555543 38999998655 6
Q ss_pred CCC--C---CCC-----------CcHHHHHHHHHHHHHHHHHc
Q 017267 250 LAW--Q---GRA-----------HCGLDDAKNTARLLALLMHR 276 (374)
Q Consensus 250 I~~--~---g~~-----------HrALdDA~atA~l~~~ll~~ 276 (374)
+.. . ++- .-|-.||..|.+|+..|.++
T Consensus 132 ~~~~~~~~~~~~~~~~~l~~~~~~YAa~D~~~~~~l~~~l~~~ 174 (176)
T PF01612_consen 132 IDLDKKEQMSDWRKARPLSEEQIEYAAQDAVVTFRLYEKLKPQ 174 (176)
T ss_dssp EE-GHCCTTSSTTTSSS-HHHHHHHHHHHHHTHHHHHHHHHHH
T ss_pred ccCcHHHhhccCCcCCCChHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 322 1 111 22667999999999988764
No 89
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=96.19 E-value=0.0024 Score=73.15 Aligned_cols=45 Identities=7% Similarity=-0.104 Sum_probs=41.0
Q ss_pred cccCCCCCCChhhHHHHHHhcCCcceeecccC---------------CCCcccccccccc
Q 017267 38 ELKDDTIVHPGGDAGESIHQLSSEFVEYSNEF---------------YNNPTYQHDFGSW 82 (374)
Q Consensus 38 ~~~~~~~~~~~~~~~~~a~~~g~~a~aitd~~---------------~~k~~y~~e~~~~ 82 (374)
+.|=.||...++++|++|++.|++|+|||||+ ++|||.|+|+|+.
T Consensus 11 ~ySlLdg~~~i~elv~~A~~~G~~alAiTDh~~l~G~~~f~~~~~~~gIkpIiG~E~~v~ 70 (1170)
T PRK07374 11 DYSLLDGASQLPKMVERAKELGMPAIALTDHGVMYGAIELLKLCKGKGIKPIIGNEMYVI 70 (1170)
T ss_pred cCchhhccCCHHHHHHHHHHCCCCEEEEecCCchHHHHHHHHHHHHcCCeEEEEeEEEec
Confidence 45668999999999999999999999999999 6899999999864
No 90
>PRK05762 DNA polymerase II; Reviewed
Probab=96.18 E-value=0.13 Score=57.29 Aligned_cols=147 Identities=10% Similarity=0.013 Sum_probs=91.2
Q ss_pred cEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHH
Q 017267 97 YFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLR 176 (374)
Q Consensus 97 ~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~e 176 (374)
..+.||+||++. .+|+.||..-. .+..++ .|.+.. + . ..+.+..-++..+.|.+
T Consensus 156 rvlsfDIE~~~~-------~~i~sI~~~~~--~~~~vi-----~ig~~~-~-~----------~~~~v~~~~sE~~LL~~ 209 (786)
T PRK05762 156 KVVSLDIETSNK-------GELYSIGLEGC--GQRPVI-----MLGPPN-G-E----------ALDFLEYVADEKALLEK 209 (786)
T ss_pred eEEEEEEEEcCC-------CceEEeeecCC--CCCeEE-----EEECCC-C-C----------CcceEEEcCCHHHHHHH
Confidence 589999999962 36888876411 122221 122221 1 1 01114445688999999
Q ss_pred HHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCC-------------CCC----------CceeehHHHHHH
Q 017267 177 HDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKP-------------PYF----------NRWINLKVPFHE 232 (374)
Q Consensus 177 f~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~P-------------~~~----------~~~iDt~~l~~~ 232 (374)
|.+|+..... .+++.+|+ +||+ .+|.+-++.+|+.+. ... .-.+|+..+.+.
T Consensus 210 F~~~i~~~DP---DIIvGyNi~~FDl-pyL~~Ra~~lgi~~~~GR~~~~~~~~~~~~~~~~~~~~i~GRv~lDl~~~~k~ 285 (786)
T PRK05762 210 FNAWFAEHDP---DVIIGWNVVQFDL-RLLQERAERYGIPLRLGRDGSELEWREHPFRSGYGFASVPGRLVLDGIDALKS 285 (786)
T ss_pred HHHHHHhcCC---CEEEEeCCCCCcH-HHHHHHHHHhCCCcccCcCCCccccccCCCCCCcceEEEeeEEEEEHHHHHHH
Confidence 9999998531 23333343 7998 899998999988642 000 015788877776
Q ss_pred hc-CCCCCCHHHHHHHcCCCCCCCCC---------------------cHHHHHHHHHHHHHHH
Q 017267 233 VF-GGVRCNLKEAVEMAGLAWQGRAH---------------------CGLDDAKNTARLLALL 273 (374)
Q Consensus 233 ~~-~~~~~~L~~l~~~lgI~~~g~~H---------------------rALdDA~atA~l~~~l 273 (374)
.. ...+++|+.+++++.......++ -.+.||..|.+|+.++
T Consensus 286 ~~~~l~sysL~~Va~~~Lg~~K~~~d~~~~~~eI~~~~~~~~~~l~~Y~l~Da~lt~~L~~kl 348 (786)
T PRK05762 286 ATWVFDSFSLEYVSQRLLGEGKAIDDPYDRMDEIDRRFAEDKPALARYNLKDCELVTRIFEKT 348 (786)
T ss_pred hhccCCCCCHHHHHHHHhCCCeeccCccccHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHh
Confidence 55 66789999999876543211101 1378999999998843
No 91
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=96.01 E-value=0.0034 Score=71.40 Aligned_cols=45 Identities=7% Similarity=-0.120 Sum_probs=40.4
Q ss_pred cccCCCCCCChhhHHHHHHhcCCcceeecccC---------------CCCcccccccccc
Q 017267 38 ELKDDTIVHPGGDAGESIHQLSSEFVEYSNEF---------------YNNPTYQHDFGSW 82 (374)
Q Consensus 38 ~~~~~~~~~~~~~~~~~a~~~g~~a~aitd~~---------------~~k~~y~~e~~~~ 82 (374)
+.|=+||+.+++++|++|++.|++|+|||||+ ++|||.|+|++..
T Consensus 13 ~ySlLdg~~~~~elv~~A~~~G~~avAiTDh~~l~g~~~f~~~~~~~gIkpI~G~Ei~~~ 72 (1046)
T PRK05672 13 NFSFLDGASHPEELVERAARLGLRALAITDECGLAGVVRAAEAAKELGLRLVIGAELSLG 72 (1046)
T ss_pred cCcccccCCCHHHHHHHHHHcCCCEEEEEeCCcchhHHHHHHHHHHCCCEEEEEEEEEEe
Confidence 45667899999999999999999999999998 6899999998863
No 92
>PF02811 PHP: PHP domain; InterPro: IPR004013 The PHP (Polymerase and Histidinol Phosphatase) domain is a putative phosphoesterase domain. This family is often associated with an N-terminal region IPR003141 from INTERPRO.; GO: 0003824 catalytic activity; PDB: 2WJE_A 3QY8_A 2WJD_A 2WJF_A 1PB0_B 1M68_A 1M65_A 3E38_B 2W9M_A 3E0F_A ....
Probab=95.90 E-value=0.0039 Score=54.67 Aligned_cols=29 Identities=3% Similarity=-0.147 Sum_probs=27.1
Q ss_pred CCCCCCChhhHHHHHHhcCCcceeecccC
Q 017267 41 DDTIVHPGGDAGESIHQLSSEFVEYSNEF 69 (374)
Q Consensus 41 ~~~~~~~~~~~~~~a~~~g~~a~aitd~~ 69 (374)
=.||..++++++++|++.|.++||||||.
T Consensus 11 ~~dg~~~~~e~v~~A~~~Gl~~i~iTDH~ 39 (175)
T PF02811_consen 11 ILDGKDSPEEYVEQAKEKGLDAIAITDHN 39 (175)
T ss_dssp SSTSSSSHHHHHHHHHHTTESEEEEEEET
T ss_pred chhhcCCHHHHHHHHHHcCCCEEEEcCCc
Confidence 46888999999999999999999999996
No 93
>PHA02528 43 DNA polymerase; Provisional
Probab=95.78 E-value=0.81 Score=51.58 Aligned_cols=220 Identities=12% Similarity=0.048 Sum_probs=117.0
Q ss_pred CCcccccCCCCCCChhhHHHHHHhcCCcceeecccCCCCcccccccccccccCCCCCCCCCCccEEEEEEeeCCCCC-CC
Q 017267 34 GNSVELKDDTIVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFYPDSQKPQEFQYFVVIDFEATCDKD-KN 112 (374)
Q Consensus 34 ~~~~~~~~~~~~~~~~~~~~~a~~~g~~a~aitd~~~~k~~y~~e~~~~~~~~~~~~~~~~~~~~VVfDlETTGl~~-~~ 112 (374)
|.++.-..-+.......++++.++-|.++. .-+.+-.+.+.|. +. .++.. .... -..+.||+||+...+ .+
T Consensus 52 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~merfi~~~~~~~--~~-~~~~~---~~p~-lrv~s~DIE~~~~~gfP~ 123 (881)
T PHA02528 52 GKNCRPKKFDSMRDARKWMKRMKDVGFEAL-GMDDFKLQYISDT--YP-GEIKY---DRSK-IRIANLDIEVTAEDGFPD 123 (881)
T ss_pred CCEEeEEECCCHHHHHHHHHHHHhcCCcee-ehhHHhhhhhhhh--cC-CCCCC---CCCC-ccEEEEEEEECCCCCCCC
Confidence 344445555666677788888888877766 2222223333322 10 12211 1122 258999999986433 12
Q ss_pred CC--CCceEEEceEEEEcCCCeEEEEEEEeecCCCCC-CCCcchhhhcCCChHHHhCCCCHHHHHHHHHHHHhhcCCCCc
Q 017267 113 PY--PQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQ-LLSDFCKDLTGIQQIQVDRGVTLSEALLRHDKWLENKGIKNT 189 (374)
Q Consensus 113 ~~--~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p-~Is~~~~~LTGIt~e~v~~ap~~~eVl~ef~~fl~~~~l~~~ 189 (374)
|. .++||.||. .+. .+. .+..+.-+...+ ..........-.....+..-.+..+.|.+|.+|+.....
T Consensus 124 p~~~~d~IisIsl--~~~-~~~---~~~v~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~sE~eLL~~F~~~i~~~DP--- 194 (881)
T PHA02528 124 PEEAKYEIDAITH--YDS-IDD---RFYVFDLGSVEEWDAKGDEVPQEILDKVVYMPFDTEREMLLEYINFWEENTP--- 194 (881)
T ss_pred cccCCCcEEEEEE--ecC-CCC---EEEEEEecCcccccccCCcccccccCCeeEEEcCCHHHHHHHHHHHHHHhCC---
Confidence 33 569999986 232 222 222232111000 000000000001111122246788999999999987421
Q ss_pred cEEEEEc--CcchHHHHHHHHHHH-cCCCC----CCC------------C----------CceeehHHHHHHh-c-CCCC
Q 017267 190 NFAVVTW--SNWDCRVMLESECRF-KKIWK----PPY------------F----------NRWINLKVPFHEV-F-GGVR 238 (374)
Q Consensus 190 n~~vv~~--g~fDl~~fL~~~~~~-~gi~~----P~~------------~----------~~~iDt~~l~~~~-~-~~~~ 238 (374)
. +|+.| -+||+ .+|.+-+++ .|+.. +++ . .-.+|+..+++.+ + ...+
T Consensus 195 D-II~GyNi~~FDl-pYL~~Ra~~~lg~~~~~~l~~~~~~~~~~~~~~~g~~~~~~~i~GRv~lD~~dl~k~~~~~~l~S 272 (881)
T PHA02528 195 V-IFTGWNVELFDV-PYIINRIKNILGEKTAKRLSPWGKVKERTIENMYGREEIAYDISGISILDYLDLYKKFTFTNQPS 272 (881)
T ss_pred c-EEEecCCccCCH-HHHHHHHHHHcCcccccccccccccccccccccccccceeEEEcceEEEeHHHHHHHhhhccccc
Confidence 2 34444 37998 788777774 45431 100 0 0135666677653 2 4568
Q ss_pred CCHHHHHHH-cCCCCCCC----------------CCcHHHHHHHHHHHHHH
Q 017267 239 CNLKEAVEM-AGLAWQGR----------------AHCGLDDAKNTARLLAL 272 (374)
Q Consensus 239 ~~L~~l~~~-lgI~~~g~----------------~HrALdDA~atA~l~~~ 272 (374)
++|++++++ ||..-..- .+-.+.||+.+.+|+.+
T Consensus 273 YsLe~VA~~~LG~~K~d~~~~eI~~l~~~d~~~l~~Ynl~Da~Lv~~L~~k 323 (881)
T PHA02528 273 YRLDYIAEVELGKKKLDYSDGPFKKFRETDHQKYIEYNIIDVELVDRLDDK 323 (881)
T ss_pred CCHHHHHHHHhCCCCccCCHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHH
Confidence 999999985 77643210 02237899999999887
No 94
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=95.74 E-value=0.0049 Score=70.66 Aligned_cols=45 Identities=9% Similarity=-0.198 Sum_probs=40.5
Q ss_pred cccCCCCCCChhhHHHHHHhcCCcceeecccC---------------CCCcccccccccc
Q 017267 38 ELKDDTIVHPGGDAGESIHQLSSEFVEYSNEF---------------YNNPTYQHDFGSW 82 (374)
Q Consensus 38 ~~~~~~~~~~~~~~~~~a~~~g~~a~aitd~~---------------~~k~~y~~e~~~~ 82 (374)
+.|=.||...++++|++|++.|.+|+|||||+ ++|||.|+|++..
T Consensus 10 ~ySlLdg~~~i~elv~~A~e~G~~avAiTDH~~l~g~~~f~~~a~~~gIkpIiG~Ei~~~ 69 (1135)
T PRK05673 10 EYSLLDGAAKIKPLVKKAAELGMPAVALTDHGNLFGAVEFYKAAKGAGIKPIIGCEAYVA 69 (1135)
T ss_pred cCchhhhcCCHHHHHHHHHHcCCCEEEEEcCCccHHHHHHHHHHHHcCCeEEEEEEEEec
Confidence 45667999999999999999999999999998 6899999998764
No 95
>TIGR00594 polc DNA-directed DNA polymerase III (polc). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.67 E-value=0.0059 Score=69.37 Aligned_cols=45 Identities=4% Similarity=-0.206 Sum_probs=39.9
Q ss_pred cccCCCCCCChhhHHHHHHhcCCcceeecccC---------------CCCcccccccccc
Q 017267 38 ELKDDTIVHPGGDAGESIHQLSSEFVEYSNEF---------------YNNPTYQHDFGSW 82 (374)
Q Consensus 38 ~~~~~~~~~~~~~~~~~a~~~g~~a~aitd~~---------------~~k~~y~~e~~~~ 82 (374)
+.|-.||..+++++|++|++.|.+++|||||+ ++|||.|+|++..
T Consensus 9 ~yS~Ldg~~~~~elv~~A~~~G~~alAiTDH~~l~g~~~f~~~~~~~gIkpI~G~Ei~~~ 68 (1022)
T TIGR00594 9 DYSLLDGAAKIKPLVKKAKELGMPALALTDHGNMFGAVEFYKACKKAGIKPIIGCEAYVA 68 (1022)
T ss_pred cCccccccCCHHHHHHHHHHCCCCEEEEecCCCchhHHHHHHHHHHcCCeEEEEEEEEee
Confidence 45667899999999999999999999999998 6889999998753
No 96
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=95.38 E-value=0.0081 Score=68.91 Aligned_cols=45 Identities=9% Similarity=-0.139 Sum_probs=39.9
Q ss_pred cccCCCCCCChhhHHHHHHhcCCcceeecccC---------------CCCcccccccccc
Q 017267 38 ELKDDTIVHPGGDAGESIHQLSSEFVEYSNEF---------------YNNPTYQHDFGSW 82 (374)
Q Consensus 38 ~~~~~~~~~~~~~~~~~a~~~g~~a~aitd~~---------------~~k~~y~~e~~~~ 82 (374)
+.|-.||...++++|++|++.|.++||||||+ ++|||.|+|++..
T Consensus 13 ~yS~ldg~~~~~elv~~A~e~G~~avAITDH~~~~g~~~f~~~a~~~gIkpIiG~Ei~~~ 72 (1151)
T PRK06826 13 EYSLLDGSARIKDLIKRAKELGMDSIAITDHGVMYGVVDFYKAAKKQGIKPIIGCEVYVA 72 (1151)
T ss_pred cCChhhhcCCHHHHHHHHHHCCCCEEEEecCCchHhHHHHHHHHHhCCCEEEEEEEEEec
Confidence 45667899999999999999999999999998 5788999998754
No 97
>PF13017 Maelstrom: piRNA pathway germ-plasm component
Probab=95.15 E-value=0.14 Score=48.13 Aligned_cols=156 Identities=14% Similarity=0.055 Sum_probs=91.4
Q ss_pred CceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCC------cchhhhcCCChHHHhCCC-CHHHHHHHHHHHHhhcCCCC
Q 017267 116 QEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLS------DFCKDLTGIQQIQVDRGV-TLSEALLRHDKWLENKGIKN 188 (374)
Q Consensus 116 deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is------~~~~~LTGIt~e~v~~ap-~~~eVl~ef~~fl~~~~l~~ 188 (374)
--.+|||+++++.++| |++.|+++|+|...+ +- ..+.+-|+|..+-...+. .+..++.++.+||+.....+
T Consensus 8 y~PaEiai~~fSL~~G-I~~~~H~~I~Pg~~p-~G~~~~a~~hs~~tH~ip~~~~~~~~~d~~~l~~~l~~fl~~~~~~~ 85 (213)
T PF13017_consen 8 YVPAEIAICKFSLKEG-IIDSFHTFINPGQIP-LGYRYDAQHHSDETHQIPIPPNALGESDYSELYNELLNFLKPNKGGE 85 (213)
T ss_pred EEeEEEEEEEEecCCc-cchhhhcccCCCCCC-cHHHHHHHHhhhhhcCCCCCCcccccCCHHHHHHHHHHHhhhcCCCC
Confidence 3468999999999888 889999999998522 32 112334677766555555 69999999999999864322
Q ss_pred ccEEEEEcC-cchH-HHHHHHHHHHcCCCCCCCCCceeehHHHHHHhc----CC----CCCCHHHHH-HHcC--------
Q 017267 189 TNFAVVTWS-NWDC-RVMLESECRFKKIWKPPYFNRWINLKVPFHEVF----GG----VRCNLKEAV-EMAG-------- 249 (374)
Q Consensus 189 ~n~~vv~~g-~fDl-~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~----~~----~~~~L~~l~-~~lg-------- 249 (374)
....|++.. ..+. ...|+.-+...+.... ..+.++..++-.+. .. ...-+...+ ..+.
T Consensus 86 ~~~~i~~~~~~~~~V~~cl~~La~~a~~~~~---~~v~~~~~lf~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~~ 162 (213)
T PF13017_consen 86 KMPPIFTKRDQIPRVQSCLKWLAKKAGEDND---FKVYDFEYLFFDLKNEKVDYRWDRQDFPSKTIADALFPKDFFEYSS 162 (213)
T ss_pred CcceEEEeHhHHHHHHHHHHHHHHhcCCCcc---eEeecHHHHHHHHHHHHhhcccccccCchHHHHHHHccchhhhccC
Confidence 333455543 3332 2355555555555432 23445544443222 11 111112222 1111
Q ss_pred -CC------CCCCCCcHHHHHHHHHHHHHHHHHc
Q 017267 250 -LA------WQGRAHCGLDDAKNTARLLALLMHR 276 (374)
Q Consensus 250 -I~------~~g~~HrALdDA~atA~l~~~ll~~ 276 (374)
+. .....++|+..+..+|..+...+-+
T Consensus 163 ~~~C~~He~~d~~~~Ca~s~v~r~ay~i~d~~c~ 196 (213)
T PF13017_consen 163 NIRCDFHEEIDRSKYCALSTVKRWAYTISDYMCR 196 (213)
T ss_pred CCceeecccCCCcccchhHHHHHHHHHHHHHHHH
Confidence 11 1224699999999999887776643
No 98
>KOG1798 consensus DNA polymerase epsilon, catalytic subunit A [Replication, recombination and repair]
Probab=95.11 E-value=0.25 Score=57.33 Aligned_cols=160 Identities=18% Similarity=0.138 Sum_probs=96.3
Q ss_pred ccEEEEEEeeCCCCCCCC--CCCceEEEceEEEEcCCCeEE----------EEEEEeecCCCCCCCCcchhhhcCCChHH
Q 017267 96 QYFVVIDFEATCDKDKNP--YPQEIIEFPSVIVSSVTGQLE----------ACFQTYVRPTCNQLLSDFCKDLTGIQQIQ 163 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~--~~deIIEIGAVkvd~~~G~ii----------dsF~~lVkP~~~p~Is~~~~~LTGIt~e~ 163 (374)
-..++||+|||-++=..| ..|+|.=|. ++||++ |-+| +.|+.-=||+. .-+| -
T Consensus 246 p~VlAFDIETtKlPLKFPDae~DqIMMIS-YMiDGq-GfLItNREiVs~DIedfEYTPKpE~---eG~F----------~ 310 (2173)
T KOG1798|consen 246 PRVLAFDIETTKLPLKFPDAESDQIMMIS-YMIDGQ-GFLITNREIVSEDIEDFEYTPKPEY---EGPF----------C 310 (2173)
T ss_pred ceEEEEeeecccCCCCCCCcccceEEEEE-EEecCc-eEEEechhhhccchhhcccCCcccc---ccce----------E
Confidence 368899999998763333 568898885 456753 3332 23333333332 1111 1
Q ss_pred HhCCCCHHHHHHHHHHHHhhcCCCCccEEEEE-cCc-chHHHHHHHHHHHcCCCCCC-----------CCCcee---ehH
Q 017267 164 VDRGVTLSEALLRHDKWLENKGIKNTNFAVVT-WSN-WDCRVMLESECRFKKIWKPP-----------YFNRWI---NLK 227 (374)
Q Consensus 164 v~~ap~~~eVl~ef~~fl~~~~l~~~n~~vv~-~g~-fDl~~fL~~~~~~~gi~~P~-----------~~~~~i---Dt~ 227 (374)
|-+.+.....|.+|.+-+... +.-++|| ||+ || +.|+.+-+..+|+..-. +..++. |.-
T Consensus 311 v~Ne~dEv~Ll~RfFeHiq~~----kP~iivTyNGDFFD-WPFve~Ra~~hGi~m~eEiGF~~D~~gEyks~~c~HmDcf 385 (2173)
T KOG1798|consen 311 VFNEPDEVGLLQRFFEHIQEV----KPTIIVTYNGDFFD-WPFVEARAKIHGISMNEEIGFRRDSQGEYKSPFCIHMDCF 385 (2173)
T ss_pred EecCCcHHHHHHHHHHHHHhc----CCcEEEEecCcccc-chhhHHHHHhcCCCcchhcCceecccccccccceeehhhh
Confidence 335677888999998888763 2336677 676 59 69999999999987521 111222 222
Q ss_pred HHHHH--hcCCCCCCHHHHHH-HcCCCC-------------CCCCC---cHHHHHHHHHHHHHHHHH
Q 017267 228 VPFHE--VFGGVRCNLKEAVE-MAGLAW-------------QGRAH---CGLDDAKNTARLLALLMH 275 (374)
Q Consensus 228 ~l~~~--~~~~~~~~L~~l~~-~lgI~~-------------~g~~H---rALdDA~atA~l~~~ll~ 275 (374)
.+.++ +++..+++|..+.+ +||... +...| -...||.+|-.||++-..
T Consensus 386 rWVKRDSYLPqGSqgLKAVTkaKLGYdPvEvdPEdM~~~A~EkPQ~lasYSVSDAVATYyLYMkYVh 452 (2173)
T KOG1798|consen 386 RWVKRDSYLPQGSQGLKAVTKAKLGYDPVEVDPEDMVRMAMEKPQTLASYSVSDAVATYYLYMKYVH 452 (2173)
T ss_pred hhhhhcccCCCcccchhHHHHHhhCCCcccCCHHHhhhhhhhCchhhhhcchHHHHHHHHHHHHHhh
Confidence 22221 23445778888764 566532 11123 348999999999987654
No 99
>PHA02524 43A DNA polymerase subunit A; Provisional
Probab=94.42 E-value=0.75 Score=48.57 Aligned_cols=193 Identities=12% Similarity=0.028 Sum_probs=107.9
Q ss_pred CCcccccCCCCCCChhhHHHHHHhcCCcceeecccC--CCCcccccccccccccCCCCCCCCCCccEEEEEEeeCCCCCC
Q 017267 34 GNSVELKDDTIVHPGGDAGESIHQLSSEFVEYSNEF--YNNPTYQHDFGSWSTFYPDSQKPQEFQYFVVIDFEATCDKDK 111 (374)
Q Consensus 34 ~~~~~~~~~~~~~~~~~~~~~a~~~g~~a~aitd~~--~~k~~y~~e~~~~~~~~~~~~~~~~~~~~VVfDlETTGl~~~ 111 (374)
|.+..-.+.+++.++.+++++-+..|.++.+-+|=. .|--.|+.| +..|. .. -....||+|+|+.+
T Consensus 52 ~~~~~~~~f~~~~~a~~~~~~~~~~~~~~~g~~~~~~~yi~~~y~~~------~~~d~---~~-i~~~~~DIEv~~~~-- 119 (498)
T PHA02524 52 GRFCVPKKHENIWEAKQWIKRMEEVGMDAMGMDDYGISYISDTYRGV------IDFDR---DD-VVIDVVDIEVTAPE-- 119 (498)
T ss_pred CccccccCCCCHHHHHHHHHHHhhcChhhccchHHHHHHHHHhcCCc------cccch---hh-ceEEEEEEEecCCC--
Confidence 455677888999999999999888888876554432 111122222 11111 11 25788999998752
Q ss_pred CC----CCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhh-cC-CChHHHhCCCCHHHHHHHHHHHHhhcC
Q 017267 112 NP----YPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDL-TG-IQQIQVDRGVTLSEALLRHDKWLENKG 185 (374)
Q Consensus 112 ~~----~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~L-TG-It~e~v~~ap~~~eVl~ef~~fl~~~~ 185 (374)
.| -.-+|..|.-.-. .+ ..++|..+.=+.......+....+ -+ +..-.+-.=++..+.|.+|.+|+....
T Consensus 120 fp~~~~a~~~i~~i~~~d~--~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~~f~sE~eLL~~F~~~i~~~D 195 (498)
T PHA02524 120 FPEPKYAKYEIDMISHVRL--HN--GKKTYYIFDLVKDVGHWDPKKSVLEKYILDNVVYMPFEDEVDLLLNYIQLWKANT 195 (498)
T ss_pred CCChhhcCCceEEEEeeec--cc--CCccEEEEeccccccCCCcccccccccccCCeEEEEeCCHHHHHHHHHHHHHHhC
Confidence 33 2345665533322 21 134455553111001111111111 01 222233456788999999999999842
Q ss_pred CCCccEEEEEc--CcchHHHHHHHHHHH-cCCCC----CCCC---------------------CceeehHHHHHHh--cC
Q 017267 186 IKNTNFAVVTW--SNWDCRVMLESECRF-KKIWK----PPYF---------------------NRWINLKVPFHEV--FG 235 (374)
Q Consensus 186 l~~~n~~vv~~--g~fDl~~fL~~~~~~-~gi~~----P~~~---------------------~~~iDt~~l~~~~--~~ 235 (374)
. . +|.+| .+||+ .+|..-+++ .|+.. .++. .-.+|+..+++.. ..
T Consensus 196 P---D-IItGYNi~nFDl-PYL~~Ra~~~lGi~~~~~~~~~Gr~~~~~s~~~~G~~~~~~I~GRv~iDl~~l~kk~s~~~ 270 (498)
T PHA02524 196 P---D-LVFGWNSEGFDI-PYIITRITNILGEKAANQLSPYGKITSKTITNLYGEKIIYKIHGIALMDYMDVFKKFSFTP 270 (498)
T ss_pred C---C-EEEeCCCcccCH-HHHHHHHHHHhCCccccccccccccccccceeecCceeEEEEeeEEEeEHHHHHHHhhhcc
Confidence 1 2 34444 38998 788777754 66531 1110 0136777888764 46
Q ss_pred CCCCCHHHHHHH
Q 017267 236 GVRCNLKEAVEM 247 (374)
Q Consensus 236 ~~~~~L~~l~~~ 247 (374)
.++++|++++++
T Consensus 271 l~sYsL~~Vs~~ 282 (498)
T PHA02524 271 MPDYKLGNVGYR 282 (498)
T ss_pred CCCCCHHHHHHH
Confidence 788999999863
No 100
>COG5228 POP2 mRNA deadenylase subunit [RNA processing and modification]
Probab=94.07 E-value=0.053 Score=51.19 Aligned_cols=182 Identities=21% Similarity=0.204 Sum_probs=111.2
Q ss_pred cEEEEEEeeCCCCCCCC-------------------CCCceEEEceEEEEcCCCeE-----EEEEEEeecCCCCCCCCcc
Q 017267 97 YFVVIDFEATCDKDKNP-------------------YPQEIIEFPSVIVSSVTGQL-----EACFQTYVRPTCNQLLSDF 152 (374)
Q Consensus 97 ~~VVfDlETTGl~~~~~-------------------~~deIIEIGAVkvd~~~G~i-----idsF~~lVkP~~~p~Is~~ 152 (374)
.+|.+|.|..|.-- .| ..=.||++|..+-| ++|+- .=.|..-.+|.. .-...+
T Consensus 43 n~vSmdTEFpGvvA-rPiG~FkSs~dyhYQtlraNVD~LkiIQlGlsLSD-e~GN~P~~~sTWQFNF~F~l~~-dmya~E 119 (299)
T COG5228 43 NHVSMDTEFPGVVA-RPIGTFKSSVDYHYQTLRANVDFLKIIQLGLSLSD-ENGNKPNGPSTWQFNFEFDLKK-DMYATE 119 (299)
T ss_pred CceeeccccCceee-cccccccccchHHHHHHhcccchhhhhheeeeecc-ccCCCCCCCceeEEEEEecchh-hhcchH
Confidence 57888888887521 11 22379999999887 45542 235666667764 224455
Q ss_pred hhhh---cCCChHHHhC-CCCHHHHHHHHHHHHhhcCCCC-ccEEEEE-cCcchHHHHHHHHHHHcCCCCCC--------
Q 017267 153 CKDL---TGIQQIQVDR-GVTLSEALLRHDKWLENKGIKN-TNFAVVT-WSNWDCRVMLESECRFKKIWKPP-------- 218 (374)
Q Consensus 153 ~~~L---TGIt~e~v~~-ap~~~eVl~ef~~fl~~~~l~~-~n~~vv~-~g~fDl~~fL~~~~~~~gi~~P~-------- 218 (374)
+.+| .||+-+.-++ +... .+|-+.+-+++|+- ..+.+++ |+.+|+ ++|-+.+.. .++|.
T Consensus 120 SieLL~ksgIdFkkHe~~GI~v----~eF~elLm~SGLvm~e~VtWitfHsaYDf-gyLikilt~--~plP~~~EdFy~~ 192 (299)
T COG5228 120 SIELLRKSGIDFKKHENLGIDV----FEFSELLMDSGLVMDESVTWITFHSAYDF-GYLIKILTN--DPLPNNKEDFYWW 192 (299)
T ss_pred HHHHHHHcCCChhhHhhcCCCH----HHHHHHHhccCceeccceEEEEeecchhH-HHHHHHHhc--CCCCccHHHHHHH
Confidence 5554 4666554432 3332 35666666776643 3444555 577897 788766543 33331
Q ss_pred ---CCCceeehHHHHHHhcCCCCCCHHHHHHHcCCCCCCCCCcHHHHHHHHHHHHHHHHHccCccccccccccc
Q 017267 219 ---YFNRWINLKVPFHEVFGGVRCNLKEAVEMAGLAWQGRAHCGLDDAKNTARLLALLMHRGFKFSITNSLMWQ 289 (374)
Q Consensus 219 ---~~~~~iDt~~l~~~~~~~~~~~L~~l~~~lgI~~~g~~HrALdDA~atA~l~~~ll~~g~~~~i~~~l~~~ 289 (374)
++..+.|+.-+++..... +-.|.+...-+++...|..|.|-.||..||+.|-........-+|..+|..+
T Consensus 193 l~~yfP~fYDik~v~ks~~~~-~KglQei~ndlql~r~g~QhQagsdaLlTa~~ff~~R~~~F~~sig~~ll~~ 265 (299)
T COG5228 193 LHQYFPNFYDIKLVYKSVLNN-SKGLQEIKNDLQLQRSGQQHQAGSDALLTADEFFLPRFSIFTTSIGQSLLML 265 (299)
T ss_pred HHHHCccccchHHHHHhhhhh-hhHHHHhcCcHhhhccchhhhccchhhhhhHHhcchhhheecccccHHHHHH
Confidence 112344554444333211 2357777777888777889999999999999988766666666666666553
No 101
>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=93.93 E-value=1.1 Score=42.49 Aligned_cols=147 Identities=14% Similarity=0.078 Sum_probs=90.0
Q ss_pred EEEEEEeeCCCCCCCCCCCceEEEceEEEEcC--CC-----eEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCH
Q 017267 98 FVVIDFEATCDKDKNPYPQEIIEFPSVIVSSV--TG-----QLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTL 170 (374)
Q Consensus 98 ~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~--~G-----~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~ 170 (374)
.+.|=+=|.--. .....||+.|+++....- ++ .....+-++++|......+..-...-......|.--.+.
T Consensus 5 v~sls~~T~~n~--k~~~~EI~~iS~~~~~~~~~d~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~v~~~~~E 82 (234)
T cd05776 5 VMSLSIKTVLNS--KTNKNEIVMISMLVHRNVSLDKPTPPPPFQSHTCTLTRPLGRSPPPDLFEKNAKKKKTKVRIFENE 82 (234)
T ss_pred EEEEEeEEEecC--cCCcchhheehHHHhcCCCCCCCCCCcccccceEEEEeCCCCCCCCchHHHHHHhcCCcEEEeCCH
Confidence 455666665321 123589999999876311 11 123466777888752112222222222233345567788
Q ss_pred HHHHHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCC------------CCC-------------CCcee
Q 017267 171 SEALLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWK------------PPY-------------FNRWI 224 (374)
Q Consensus 171 ~eVl~ef~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~------------P~~-------------~~~~i 224 (374)
.+.|..|.+++.... -.+++.||. .||+ .+|-.-++..|++. |.. ..-.+
T Consensus 83 ~~LL~~f~~~i~~~D---PDiivG~Ni~~fdl-~~L~~R~~~l~i~~ws~iGR~~~~~~~~~~~~~~~~~~~~~~GRl~~ 158 (234)
T cd05776 83 RALLNFFLAKLQKID---PDVLVGHDLEGFDL-DVLLSRIQELKVPHWSRIGRLKRSVWPKKKGGGKFGERELTAGRLLC 158 (234)
T ss_pred HHHHHHHHHHHhhcC---CCEEEeeccCCCCH-HHHHHHHHHhCCCccccccccccccCccccccccccccccccCchhh
Confidence 999999999998753 233444453 7998 78888888877752 100 01135
Q ss_pred ehHHHHHHhcCCCCCCHHHHHH-HcCC
Q 017267 225 NLKVPFHEVFGGVRCNLKEAVE-MAGL 250 (374)
Q Consensus 225 Dt~~l~~~~~~~~~~~L~~l~~-~lgI 250 (374)
|+...++.+....+|+|+++++ .+|.
T Consensus 159 D~~~~~k~~~~~~sY~L~~va~~~Lg~ 185 (234)
T cd05776 159 DTYLSAKELIRCKSYDLTELSQQVLGI 185 (234)
T ss_pred ccHHHHHHHhCCCCCChHHHHHHHhCc
Confidence 7777777776777899999997 6675
No 102
>PHA03036 DNA polymerase; Provisional
Probab=93.90 E-value=1.4 Score=50.24 Aligned_cols=179 Identities=13% Similarity=0.034 Sum_probs=106.6
Q ss_pred ccEEEEEEeeCCCCCCC--CCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCC---------hHHH
Q 017267 96 QYFVVIDFEATCDKDKN--PYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQ---------QIQV 164 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~--~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt---------~e~v 164 (374)
..|+.||+|.-. ++.. +..+.|+.|+...++ ..|. +.--++++....+.-...-..+-|.+ -...
T Consensus 160 ~~~lsfDIEC~~-~g~FPs~~~~pvshIs~~~~~-~~~~--~~~~~l~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 235 (1004)
T PHA03036 160 RSYLFLDIECHF-DKKFPSVFINPVSHISCCYID-LSGK--EKRFTLINEDMLSEDEIEEAVKRGYYEIESLLDMDYSKE 235 (1004)
T ss_pred ceeEEEEEEecc-CCCCCCcccCcceEEEEEEEe-cCCC--eeEEEEeccccccccccccceeeeeeccccccccCCcee
Confidence 479999999985 4433 467999999987777 4443 23456677643111111112222221 1111
Q ss_pred hCCCCHHHHHHHHHHHHhhcCCCCccEEEEE-cC-cchHHHHHHHHHHHcCC---CCC----------------------
Q 017267 165 DRGVTLSEALLRHDKWLENKGIKNTNFAVVT-WS-NWDCRVMLESECRFKKI---WKP---------------------- 217 (374)
Q Consensus 165 ~~ap~~~eVl~ef~~fl~~~~l~~~n~~vv~-~g-~fDl~~fL~~~~~~~gi---~~P---------------------- 217 (374)
---.+..+ +-+|.+++..... . +|++ |+ +||+ .+|..-++.... .++
T Consensus 236 ~~~~sE~~-ml~~~~~i~~~d~---D-~i~~yNg~nFD~-~Yi~~R~~~L~~~~~~~~~~~~~~~~~~~v~~r~~~s~~~ 309 (1004)
T PHA03036 236 LILCSEIV-LLRIAKKLLELEF---D-YVVTFNGHNFDL-RYISNRLELLTGEKIIFRSPDGKETVHLCIYERNLSSHKG 309 (1004)
T ss_pred eecCCHHH-HHHHHHHHHhcCC---C-EEEeccCCCcch-HHHHHHHHHhccCceeeccCCCcccccceeeccccccccc
Confidence 11234444 5678888876532 3 3445 54 8998 667666665421 100
Q ss_pred ------------C-CCCceeehHHHHHHhcCCCCCCHHHHHHH-cCCC-----CCCCC-C---cHHHHHHHHHHHHHHHH
Q 017267 218 ------------P-YFNRWINLKVPFHEVFGGVRCNLKEAVEM-AGLA-----WQGRA-H---CGLDDAKNTARLLALLM 274 (374)
Q Consensus 218 ------------~-~~~~~iDt~~l~~~~~~~~~~~L~~l~~~-lgI~-----~~g~~-H---rALdDA~atA~l~~~ll 274 (374)
. ...-++|+..+.++-+.+++|+|+++++. |+.. ..... + .-..||...+.||.+.+
T Consensus 310 ~gg~~~~t~~i~~~~G~i~fDLy~~i~k~~~L~sYkL~~Vsk~~f~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~f~~vl 389 (1004)
T PHA03036 310 VGGVANTTYHINNNNGTIFFDLYTFIQKTEKLDSYKLDSISKNAFNCNAKVLSENNNEVTFIGDNTTDAKGKASIFSEVL 389 (1004)
T ss_pred cCccccceEEecccCCeEEEEhHHHHhhhcCcccccHHHHHHHhhccceeeeecCCceeEEccCcccccccchhhhhhhh
Confidence 0 00124688888888888889999999987 3330 00000 0 11368999999999999
Q ss_pred HccCcccccc
Q 017267 275 HRGFKFSITN 284 (374)
Q Consensus 275 ~~g~~~~i~~ 284 (374)
+-|--.+|++
T Consensus 390 ~t~ny~~i~~ 399 (1004)
T PHA03036 390 STGNYVTIND 399 (1004)
T ss_pred cccceeeecc
Confidence 9988888887
No 103
>PRK06361 hypothetical protein; Provisional
Probab=93.87 E-value=0.041 Score=50.88 Aligned_cols=30 Identities=3% Similarity=-0.139 Sum_probs=27.6
Q ss_pred CCCCChhhHHHHHHhcCCcceeecccCCCC
Q 017267 43 TIVHPGGDAGESIHQLSSEFVEYSNEFYNN 72 (374)
Q Consensus 43 ~~~~~~~~~~~~a~~~g~~a~aitd~~~~k 72 (374)
||..++++++++|.+.|.++|+||||+...
T Consensus 7 dg~~~~~e~v~~A~~~Gl~~i~iTDH~~~~ 36 (212)
T PRK06361 7 DGELIPSELVRRARVLGYRAIAITDHADAS 36 (212)
T ss_pred CCCCCHHHHHHHHHHcCCCEEEEecCCCCc
Confidence 588899999999999999999999999654
No 104
>TIGR00592 pol2 DNA polymerase (pol2). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=93.62 E-value=3.4 Score=48.17 Aligned_cols=143 Identities=14% Similarity=0.100 Sum_probs=89.6
Q ss_pred EEEEE--EeeCCCCCCCCCCCceEEEceEEEEcCC-----C--eEEEEEEEeecCCCCCCCCc-chhhhcCCChHHHhCC
Q 017267 98 FVVID--FEATCDKDKNPYPQEIIEFPSVIVSSVT-----G--QLEACFQTYVRPTCNQLLSD-FCKDLTGIQQIQVDRG 167 (374)
Q Consensus 98 ~VVfD--lETTGl~~~~~~~deIIEIGAVkvd~~~-----G--~iidsF~~lVkP~~~p~Is~-~~~~LTGIt~e~v~~a 167 (374)
++++| +|+.-. +...++||.|..+..+..+ + .....|...++|... .++. +.....|+....|..-
T Consensus 506 l~vLdFsi~SlyP---si~~~~nl~iS~~v~~~~~~d~~~~~~~~~~~~~~~~~~~~~-~~p~~~~~~~~~~~~~~L~~~ 581 (1172)
T TIGR00592 506 LVVLDFSMKSLNP---SIIRNEIVSIPDTLHREFALDKPPPEPPYDVHPCVGTRPKDC-SFPLDLKGEFPGKKPSLVEDL 581 (1172)
T ss_pred eEEEEeeeEEecC---ccccCceEEEEEEEeecccccCCCCCCccceEEEEEEccCCC-CCCchhhhhhhccCCcEEEEe
Confidence 55554 454321 3456899999888764100 1 122355566677321 1222 2334567777777788
Q ss_pred CCHHHHHHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCC----------CCC---------CCceeehH
Q 017267 168 VTLSEALLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWK----------PPY---------FNRWINLK 227 (374)
Q Consensus 168 p~~~eVl~ef~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~----------P~~---------~~~~iDt~ 227 (374)
.+-.+.+..|++++.... -..++.+|. +||+ .+|-.-+...+++. +.+ ..-.+|+.
T Consensus 582 ~sEr~lL~~fl~~~~~~D---PDii~g~n~~qfdl-kvl~nR~~~l~i~~~~~~Gr~~~~~~~~~~~~~~~~Grl~~D~~ 657 (1172)
T TIGR00592 582 ATERALIKKFMAKVKKID---PDEIVGHDYQQRAL-KVLANRINDLKIPTWSKIGRLRRSPKFGRRFGERTCGRMICDVE 657 (1172)
T ss_pred cCHHHHHHHHHHHHHhcC---CCEEEEEcccCccH-HHHHHHHHHcCCCcccccCccccCCCccccccceECCEEEEEHH
Confidence 889999999999998432 123556664 8998 56666677776653 000 11247888
Q ss_pred HHHHHhcCCCCCCHHHHHHHc
Q 017267 228 VPFHEVFGGVRCNLKEAVEMA 248 (374)
Q Consensus 228 ~l~~~~~~~~~~~L~~l~~~l 248 (374)
..++..+...+|+|+++++++
T Consensus 658 ~~~k~~~~~~sy~L~~v~~~~ 678 (1172)
T TIGR00592 658 ISAKELIRCKSYDLSELVQQI 678 (1172)
T ss_pred HHHHHHhCcCCCCHHHHHHHH
Confidence 888888877899999999754
No 105
>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=93.31 E-value=1.5 Score=40.27 Aligned_cols=141 Identities=14% Similarity=0.049 Sum_probs=80.5
Q ss_pred ccEEEEEEeeCCCCCC-CCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHH
Q 017267 96 QYFVVIDFEATCDKDK-NPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEAL 174 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~-~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl 174 (374)
...|.||+|++..... ....-.+|+|+. . +. -.+|++.. +.. -+ .+.+
T Consensus 22 ~~vig~D~Ew~~~~~~~~~~~v~LiQiat-----~-~~-----~~lid~~~---~~~----------------~~-~~~~ 70 (193)
T cd06146 22 GRVVGIDSEWKPSFLGDSDPRVAILQLAT-----E-DE-----VFLLDLLA---LEN----------------LE-SEDW 70 (193)
T ss_pred CCEEEEECccCCCccCCCCCCceEEEEec-----C-CC-----EEEEEchh---ccc----------------cc-hHHH
Confidence 4689999999865321 123457788752 1 11 22344332 111 01 2223
Q ss_pred -HHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCC--CCCCCceeehHHHHHHhcC-----------CCCCC
Q 017267 175 -LRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWK--PPYFNRWINLKVPFHEVFG-----------GVRCN 240 (374)
Q Consensus 175 -~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~--P~~~~~~iDt~~l~~~~~~-----------~~~~~ 240 (374)
+.+.+++.+..+ .-|.|+..+|+ .+|.+.+ |+.. +.....++||..++..+.. ...++
T Consensus 71 ~~~L~~ll~d~~i----~KVg~~~~~D~-~~L~~~~---~~~~~~~~~~~~v~Dl~~~a~~l~~~~~~~~~~~~~~~~~s 142 (193)
T cd06146 71 DRLLKRLFEDPDV----LKLGFGFKQDL-KALSASY---PALKCMFERVQNVLDLQNLAKELQKSDMGRLKGNLPSKTKG 142 (193)
T ss_pred HHHHHHHhCCCCe----eEEEechHHHH-HHHHHhc---CccccccccCCceEEHHHHHHHHhhccccccccccCcccCC
Confidence 334556665422 12556678897 6776543 3321 0012579999887765532 23579
Q ss_pred HHHHHHHc-CCCCC---------C------CCCcHHHHHHHHHHHHHHHHH
Q 017267 241 LKEAVEMA-GLAWQ---------G------RAHCGLDDAKNTARLLALLMH 275 (374)
Q Consensus 241 L~~l~~~l-gI~~~---------g------~~HrALdDA~atA~l~~~ll~ 275 (374)
|..+++.+ |.++. . +-+-|..||..+..||.+|.+
T Consensus 143 L~~l~~~~lg~~l~K~~q~SdW~~rpLs~~Qi~YAA~Da~~l~~l~~~L~~ 193 (193)
T cd06146 143 LADLVQEVLGKPLDKSEQCSNWERRPLREEQILYAALDAYCLLEVFDKLLE 193 (193)
T ss_pred HHHHHHHHhCCCcCcccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHhC
Confidence 99999765 54321 1 126789999999999998863
No 106
>COG0417 PolB DNA polymerase elongation subunit (family B) [DNA replication, recombination, and repair]
Probab=92.82 E-value=2.1 Score=47.83 Aligned_cols=131 Identities=17% Similarity=0.099 Sum_probs=83.0
Q ss_pred ccEEEEEEeeCCCCCCCC--CCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHH
Q 017267 96 QYFVVIDFEATCDKDKNP--YPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEA 173 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~--~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eV 173 (374)
-..++||+||....+..+ ..+.|+.|+...-. .++.+ ..+.. +...|. .+....+-.+.
T Consensus 154 l~~la~DiE~~~~~~~~~~~~~d~~~~i~~~~~~-~~~~~-------~~~~~--------~~~~~~---~v~~~~~e~e~ 214 (792)
T COG0417 154 LRVLAFDIETLSEPGKFPDGEKDPIIMISYAIEA-EGGLI-------EVFIY--------TSGEGF---SVEVVISEAEL 214 (792)
T ss_pred ceEEEEEEEEecCCCCCCCccCCceEEEEEEecc-CCCcc-------ccccc--------cCCCCc---eeEEecCHHHH
Confidence 368999999998865444 36888888655431 22222 11111 000110 15556678899
Q ss_pred HHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCC-------------CC----CCceeehHHHHH-Hhc
Q 017267 174 LLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKP-------------PY----FNRWINLKVPFH-EVF 234 (374)
Q Consensus 174 l~ef~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~P-------------~~----~~~~iDt~~l~~-~~~ 234 (374)
+.+|.+++.... ..+++..|+ +||+ .+|..-+.+.|++.. .+ ....+|+...++ +.+
T Consensus 215 l~~~~~~i~~~d---PdVIvgyn~~~fd~-pyl~~Ra~~lgi~~~~gr~~~~~~~~~~~~~~~~Gr~~iDl~~~~~~~~~ 290 (792)
T COG0417 215 LERFVELIREYD---PDVIVGYNGDNFDW-PYLAERAERLGIPLRLGRDGSELRVRKSGFSSQVGRLHIDLYPALRRRPL 290 (792)
T ss_pred HHHHHHHHHhcC---CCEEEeccCCcCCh-HHHHHHHHHhCCCccccccccccceeecccccccceEEEecHHHHhhhhc
Confidence 999999998753 223333455 5996 899999999998763 00 123578877777 466
Q ss_pred CCCCCCHHHHHHHcC
Q 017267 235 GGVRCNLKEAVEMAG 249 (374)
Q Consensus 235 ~~~~~~L~~l~~~lg 249 (374)
....++|..+++.+.
T Consensus 291 ~~~~ysl~~v~~~~l 305 (792)
T COG0417 291 NLKSYSLEAVSEALL 305 (792)
T ss_pred ccccccHHHHHHHhc
Confidence 667899999876554
No 107
>COG0349 Rnd Ribonuclease D [Translation, ribosomal structure and biogenesis]
Probab=92.69 E-value=2.2 Score=43.27 Aligned_cols=133 Identities=13% Similarity=0.084 Sum_probs=79.5
Q ss_pred ccEEEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 017267 96 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 175 (374)
Q Consensus 96 ~~~VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ 175 (374)
..+|.||+||.+. +++.++..=| =| .+|+ . -.+|+|-. + +. +.++
T Consensus 17 ~~~iAiDTEf~r~---~t~~p~LcLI---Qi--~~~e---~-~~lIdpl~-~-~~---------------d~~~------ 61 (361)
T COG0349 17 SKAIAIDTEFMRL---RTYYPRLCLI---QI--SDGE---G-ASLIDPLA-G-IL---------------DLPP------ 61 (361)
T ss_pred CCceEEecccccc---cccCCceEEE---EE--ecCC---C-ceEecccc-c-cc---------------ccch------
Confidence 4589999999986 4555543322 22 1222 1 45677753 1 11 1223
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCC-CCCHHHHHHH-cCCCCC
Q 017267 176 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGV-RCNLKEAVEM-AGLAWQ 253 (374)
Q Consensus 176 ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~~-~~~L~~l~~~-lgI~~~ 253 (374)
|...+.+..++ -|.|.++||+ .+|... .|+.. .+.+||+ +...+.|.. +++|+++++. +|+..+
T Consensus 62 -l~~Ll~d~~v~----KIfHaa~~DL-~~l~~~---~g~~p----~plfdTq-iAa~l~g~~~~~gl~~Lv~~ll~v~ld 127 (361)
T COG0349 62 -LVALLADPNVV----KIFHAARFDL-EVLLNL---FGLLP----TPLFDTQ-IAAKLAGFGTSHGLADLVEELLGVELD 127 (361)
T ss_pred -HHHHhcCCcee----eeeccccccH-HHHHHh---cCCCC----CchhHHH-HHHHHhCCcccccHHHHHHHHhCCccc
Confidence 33334443321 2678899998 455433 35432 3578996 455555543 8999999964 588764
Q ss_pred CCC---------------CcHHHHHHHHHHHHHHHHHcc
Q 017267 254 GRA---------------HCGLDDAKNTARLLALLMHRG 277 (374)
Q Consensus 254 g~~---------------HrALdDA~atA~l~~~ll~~g 277 (374)
-.+ --|..|+..+..|+.+|.++.
T Consensus 128 K~~q~SDW~~RPLs~~Ql~YAa~DV~yL~~l~~~L~~~L 166 (361)
T COG0349 128 KSEQRSDWLARPLSEAQLEYAAADVEYLLPLYDKLTEEL 166 (361)
T ss_pred ccccccccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 211 236889999999998887653
No 108
>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=92.68 E-value=1.2 Score=37.72 Aligned_cols=66 Identities=20% Similarity=0.143 Sum_probs=44.8
Q ss_pred HHHHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCC-CCCHHHHHHHc
Q 017267 171 SEALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGV-RCNLKEAVEMA 248 (374)
Q Consensus 171 ~eVl~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~~-~~~L~~l~~~l 248 (374)
.++++.|.+|+++..+ ..|+|++.+|+ .+|. ..++..+ ..++||......+.+.. +++|+.++++|
T Consensus 40 ~~~~~~l~~~l~~~~~----~~v~~~~k~d~-~~L~----~~~~~~~---~~~~D~~~~ayll~~~~~~~~l~~l~~~~ 106 (155)
T cd00007 40 EEDLEALKELLEDEDI----TKVGHDAKFDL-VVLA----RDGIELP---GNIFDTMLAAYLLNPGEGSHSLDDLAKEY 106 (155)
T ss_pred HHHHHHHHHHHcCCCC----cEEeccHHHHH-HHHH----HCCCCCC---CCcccHHHHHHHhCCCCCcCCHHHHHHHH
Confidence 5677788899986532 24677889996 6664 3444443 45789976665554544 57999999887
No 109
>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=92.23 E-value=3.1 Score=36.67 Aligned_cols=132 Identities=17% Similarity=0.053 Sum_probs=78.2
Q ss_pred ccEEEEEEeeCCCCC-CCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHH
Q 017267 96 QYFVVIDFEATCDKD-KNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEAL 174 (374)
Q Consensus 96 ~~~VVfDlETTGl~~-~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl 174 (374)
...|.||+|++.... .....-.+|+|+ . .+ .-.+|++.. + ....
T Consensus 18 ~~~ig~D~E~~~~~~~~~~~~~~liQl~---~--~~------~~~l~~~~~---~---------------------~~~~ 62 (170)
T cd06141 18 EKVVGFDTEWRPSFRKGKRNKVALLQLA---T--ES------RCLLFQLAH---M---------------------DKLP 62 (170)
T ss_pred CCEEEEeCccCCccCCCCCCCceEEEEe---c--CC------cEEEEEhhh---h---------------------hccc
Confidence 468999999997521 011345577775 1 11 223344432 1 1122
Q ss_pred HHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC-CCCCHHHHHHHc-CCCC
Q 017267 175 LRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG-VRCNLKEAVEMA-GLAW 252 (374)
Q Consensus 175 ~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~-~~~~L~~l~~~l-gI~~ 252 (374)
+.|.+++.+..+ ..+.|+...|+ .+|. +.+|+.. ..++|+...+..+.+. ...+|..+++.+ |+..
T Consensus 63 ~~l~~ll~~~~i----~kv~~~~k~D~-~~L~---~~~g~~~----~~~~Dl~~aa~ll~~~~~~~~l~~l~~~~l~~~~ 130 (170)
T cd06141 63 PSLKQLLEDPSI----LKVGVGIKGDA-RKLA---RDFGIEV----RGVVDLSHLAKRVGPRRKLVSLARLVEEVLGLPL 130 (170)
T ss_pred HHHHHHhcCCCe----eEEEeeeHHHH-HHHH---hHcCCCC----CCeeeHHHHHHHhCCCcCCccHHHHHHHHcCccc
Confidence 345666765422 13556678886 5553 2456653 3468998766554443 346999999876 6543
Q ss_pred C-----------C------CCCcHHHHHHHHHHHHHHHH
Q 017267 253 Q-----------G------RAHCGLDDAKNTARLLALLM 274 (374)
Q Consensus 253 ~-----------g------~~HrALdDA~atA~l~~~ll 274 (374)
. . +-|-|-.||..+.+|+.+|.
T Consensus 131 ~k~k~~~~s~W~~rpLt~~qi~YAa~Da~~~~~l~~~l~ 169 (170)
T cd06141 131 SKPKKVRCSNWEARPLSKEQILYAATDAYASLELYRKLL 169 (170)
T ss_pred CCCCCcccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 2 1 12678999999999998875
No 110
>PRK05761 DNA polymerase I; Reviewed
Probab=91.86 E-value=1.5 Score=48.94 Aligned_cols=97 Identities=19% Similarity=0.058 Sum_probs=63.6
Q ss_pred CCHHHHHHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCCCCCc------eeehHHHHHHh-------
Q 017267 168 VTLSEALLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPPYFNR------WINLKVPFHEV------- 233 (374)
Q Consensus 168 p~~~eVl~ef~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~P~~~~~------~iDt~~l~~~~------- 233 (374)
.+..+.|.+|.+|+.... ..|.-|+ +||+ .+|..-++++|++...+... .+|+...+...
T Consensus 208 ~~E~eLL~~f~~~i~~~d-----Pdi~yN~~~FDl-PYL~~Ra~~lgi~~~~~~~~~~~~~~~iDl~~~~~~~~~~~y~~ 281 (787)
T PRK05761 208 DSEKELLAELFDIILEYP-----PVVTFNGDNFDL-PYLYNRALKLGIPKEEIPIEPGRAGIHIDLYKFFQNKAVRSYAF 281 (787)
T ss_pred CCHHHHHHHHHHHHHhcC-----CEEEEcCCcchH-HHHHHHHHHhCCCchhcccccCCCceEEechhheeecceeeeec
Confidence 678999999999999863 2334454 7998 89999999999875422111 26664444311
Q ss_pred ---cCCCCCCHHHHHH-HcCCCCCCC------------CCcHHHHHHHHHHHH
Q 017267 234 ---FGGVRCNLKEAVE-MAGLAWQGR------------AHCGLDDAKNTARLL 270 (374)
Q Consensus 234 ---~~~~~~~L~~l~~-~lgI~~~g~------------~HrALdDA~atA~l~ 270 (374)
+..++++|+.+++ .+|..-... ..-.+.||+.|.+|+
T Consensus 282 ~~~~~~~~ysL~~Va~~~Lg~~K~~~~~~i~~~~~~~l~~Y~l~Da~l~~~L~ 334 (787)
T PRK05761 282 YGKYRHREARLDAVGRALLGISKVELETNISELDLEELAEYNFRDAEITLKLT 334 (787)
T ss_pred cceeecccCChHHHHHHHhCCCcccccccccccCHHHHHHHHHHHHHHHHHHH
Confidence 1123689999987 667643110 123589999999874
No 111
>KOG1275 consensus PAB-dependent poly(A) ribonuclease, subunit PAN2 [Replication, recombination and repair]
Probab=89.21 E-value=0.12 Score=57.15 Aligned_cols=111 Identities=22% Similarity=0.265 Sum_probs=72.4
Q ss_pred CCCcchhhhcCCChHHHhCC------CCHHHHHHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCCCC
Q 017267 148 LLSDFCKDLTGIQQIQVDRG------VTLSEALLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPPYF 220 (374)
Q Consensus 148 ~Is~~~~~LTGIt~e~v~~a------p~~~eVl~ef~~fl~~~~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~P~~~ 220 (374)
++.++-|+..||.+.||+.. -++.-++.++.=.+ +.+ +++|.|| +-|+ +-.++..| .
T Consensus 972 ~VvDYLTqySGI~PGDLDp~~S~K~Lt~lK~~Y~Kl~~Li-~~G-----viFVGHGL~nDF--------rvINi~Vp--~ 1035 (1118)
T KOG1275|consen 972 KVVDYLTQYSGIKPGDLDPTTSEKRLTTLKVLYLKLRLLI-QRG-----VIFVGHGLQNDF--------RVINIHVP--E 1035 (1118)
T ss_pred HHHHHHHHhcCCCccccCCccCcceehhHHHHHHHHHHHH-HcC-----cEEEcccccccc--------eEEEEecC--h
Confidence 46677788899999999632 23455566655444 332 3567665 4454 22345554 3
Q ss_pred CceeehHHHHHHhcCC-CCCCHHHHHHH-cCCCCCCCCCcHHHHHHHHHHHHHHHHHc
Q 017267 221 NRWINLKVPFHEVFGG-VRCNLKEAVEM-AGLAWQGRAHCGLDDAKNTARLLALLMHR 276 (374)
Q Consensus 221 ~~~iDt~~l~~~~~~~-~~~~L~~l~~~-lgI~~~g~~HrALdDA~atA~l~~~ll~~ 276 (374)
...+||..+|+ .|. +--+|..|+.+ +|-..+..+|+.+.||+.+.+||.+-++-
T Consensus 1036 ~QiiDTv~lf~--~~s~R~LSLrfLa~~lLg~~IQ~~~HDSIeDA~taLkLYk~Yl~l 1091 (1118)
T KOG1275|consen 1036 EQIIDTVTLFR--LGSQRMLSLRFLAWELLGETIQMEAHDSIEDARTALKLYKKYLKL 1091 (1118)
T ss_pred hhheeeeEEEe--cccccEEEHHHHHHHHhcchhhccccccHHHHHHHHHHHHHHHHH
Confidence 46889876553 232 23589998854 47665556899999999999998877643
No 112
>PRK09248 putative hydrolase; Validated
Probab=87.99 E-value=0.38 Score=45.62 Aligned_cols=29 Identities=3% Similarity=-0.087 Sum_probs=26.8
Q ss_pred CCCCCChhhHHHHHHhcCCcceeecccCC
Q 017267 42 DTIVHPGGDAGESIHQLSSEFVEYSNEFY 70 (374)
Q Consensus 42 ~~~~~~~~~~~~~a~~~g~~a~aitd~~~ 70 (374)
-+|..++++++++|.++|.++++||||..
T Consensus 15 ~~~~~~~~e~v~~A~~~G~~~i~iTdH~~ 43 (246)
T PRK09248 15 GHAYSTLHENAAEAKQKGLKLFAITDHGP 43 (246)
T ss_pred CCCCCCHHHHHHHHHHCCCCEEEECCCCC
Confidence 37888999999999999999999999984
No 113
>smart00474 35EXOc 3'-5' exonuclease. 3\' -5' exonuclease proofreading domain present in DNA polymerase I, Werner syndrome helicase, RNase D and other enzymes
Probab=86.65 E-value=7.5 Score=33.35 Aligned_cols=90 Identities=19% Similarity=0.155 Sum_probs=54.6
Q ss_pred HHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCC-CCHHHHHHHc-CCC
Q 017267 174 LLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVR-CNLKEAVEMA-GLA 251 (374)
Q Consensus 174 l~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~~~-~~L~~l~~~l-gI~ 251 (374)
+..+.+|+.+..+ ..++|+..+|+ .+|. ++|+..+ .++||...+..+.+..+ ++|+.+++.| ++.
T Consensus 64 ~~~l~~~l~~~~~----~kv~~d~k~~~-~~L~----~~gi~~~----~~~D~~laayll~p~~~~~~l~~l~~~~l~~~ 130 (172)
T smart00474 64 LEILKDLLEDETI----TKVGHNAKFDL-HVLA----RFGIELE----NIFDTMLAAYLLLGGPSKHGLATLLKEYLGVE 130 (172)
T ss_pred HHHHHHHhcCCCc----eEEEechHHHH-HHHH----HCCCccc----chhHHHHHHHHHcCCCCcCCHHHHHHHHhCCC
Confidence 4556677776422 24677888886 5664 3687753 24899755544444333 6999998775 554
Q ss_pred CCC---C-----C---C----cHHHHHHHHHHHHHHHHHc
Q 017267 252 WQG---R-----A---H----CGLDDAKNTARLLALLMHR 276 (374)
Q Consensus 252 ~~g---~-----~---H----rALdDA~atA~l~~~ll~~ 276 (374)
.+. . . . -|..||.++.+|+..|.++
T Consensus 131 ~~~~~~~~~~~~~~l~~~~~~ya~~~a~~~~~L~~~l~~~ 170 (172)
T smart00474 131 LDKEEQKSDWGARPLSEEQLQYAAEDADALLRLYEKLEKE 170 (172)
T ss_pred CCcccCccccccCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 211 0 0 1 2566777777777766553
No 114
>KOG4793 consensus Three prime repair exonuclease [Replication, recombination and repair]
Probab=83.14 E-value=1.6 Score=42.69 Aligned_cols=162 Identities=10% Similarity=-0.064 Sum_probs=100.7
Q ss_pred EEEEeeCC---CCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCC--CHHHHH
Q 017267 100 VIDFEATC---DKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGV--TLSEAL 174 (374)
Q Consensus 100 VfDlETTG---l~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap--~~~eVl 174 (374)
+=|++|+| .. ...+.+++|-+.-+ ..+. ...++++|.++. ++....-.+ +++|+..++ .-.+..
T Consensus 114 ls~lp~p~CLVaH---ng~~~dfpil~qel--a~lg-~~lpq~lvcvds---lpa~~ald~--a~s~~tr~~~~~~~~l~ 182 (318)
T KOG4793|consen 114 LSRLPTPGCLVAH---NGNEYDFPILAQEL--AGLG-YSLPQDLVCVDS---LPALNALDR--ANSMVTRPEVRRMYSLG 182 (318)
T ss_pred HhcCCCCceEEee---cCCccccHHHHHHH--HhcC-ccchhhhcCcch---hHHHHHHhh--hcCcccCCCCCcccccc
Confidence 34777777 32 23466778877655 2332 467899999985 443221111 566665433 334444
Q ss_pred HHHHHHHhhc-CCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCCCCCceeehHHHHH------HhcC--CCCCCHHHH
Q 017267 175 LRHDKWLENK-GIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPPYFNRWINLKVPFH------EVFG--GVRCNLKEA 244 (374)
Q Consensus 175 ~ef~~fl~~~-~l~~~n~~vv~~g-~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~------~~~~--~~~~~L~~l 244 (374)
.-|..+.+.+ .-.+|+.-+.+++ .|++ .|..+++-+-+-+.+ .+|.-++.+|. ..++ ...++|..+
T Consensus 183 ~If~ry~~q~eppa~~~~e~d~~~l~~~f-qf~~~ellR~~deqa---~pw~~ir~l~~~~~~a~~~~P~p~~vs~le~L 258 (318)
T KOG4793|consen 183 SIFLRYVEQREPPAGHVAEGDVNGLLFIF-QFRINELLRWSDEQA---RPWLLIRPLYLARENAKSVEPTPKLVSSLEAL 258 (318)
T ss_pred hHHHhhhcccCCCcceeeecccchhHHHH-HHHHHHHHhhHhhcC---CCcccccchhhhhhhccccCCCCccchhHHHH
Confidence 5566666663 2334554444554 5786 788888888665543 23554444442 1122 124789999
Q ss_pred HHHcCCCCCCCCCcHHHHHHHHHHHHHHHHHc
Q 017267 245 VEMAGLAWQGRAHCGLDDAKNTARLLALLMHR 276 (374)
Q Consensus 245 ~~~lgI~~~g~~HrALdDA~atA~l~~~ll~~ 276 (374)
+.++....++.+|||+.|...+.++++++-.+
T Consensus 259 at~~~~~p~l~ahra~~Dv~~~~k~~q~~~id 290 (318)
T KOG4793|consen 259 ATYYSLTPELDAHRALSDVLLLSKVFQKLTID 290 (318)
T ss_pred HHHhhcCcccchhhhccccchhhhHHHHhhhh
Confidence 99998877778999999999999999986543
No 115
>cd06148 Egl_like_exo DEDDy 3'-5' exonuclease domain of Drosophila Egalitarian (Egl) and similar proteins. The Egalitarian (Egl) protein subfamily is composed of Drosophila Egl and similar proteins. Egl is a component of an mRNA-binding complex which is required for oocyte specification. Egl 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. The 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 conservation of this subfamily throughout eukaryotes suggests that its members may be part of ancient RNA processing complexes that are likely to participate in the regulated processing of specific mRNAs. Some members of this subfamily do not have a completely conserved YX(3)D pattern at the ExoIII motif.
Probab=80.75 E-value=21 Score=32.75 Aligned_cols=93 Identities=14% Similarity=-0.031 Sum_probs=54.8
Q ss_pred HHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC--------CCCCCHHHHHH
Q 017267 175 LRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG--------GVRCNLKEAVE 246 (374)
Q Consensus 175 ~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~--------~~~~~L~~l~~ 246 (374)
..+.+++++..+ .-|.|++..|+ .+|. ..+|+.. ..+.||...+..+.. ....+|..+++
T Consensus 55 ~~L~~iLe~~~i----~Kv~h~~k~D~-~~L~---~~~gi~~----~~~fDt~iA~~lL~~~~~~~~~~~~~~~L~~l~~ 122 (197)
T cd06148 55 NGLKDILESKKI----LKVIHDCRRDS-DALY---HQYGIKL----NNVFDTQVADALLQEQETGGFNPDRVISLVQLLD 122 (197)
T ss_pred HHHHHHhcCCCc----cEEEEechhHH-HHHH---HhcCccc----cceeeHHHHHHHHHHHhcCCccccccccHHHHHH
Confidence 334455655422 13567788886 5553 3557653 245898644332211 11357888887
Q ss_pred Hc-CCCCC-----------------C------CCCcHHHHHHHHHHHHHHHHHccCc
Q 017267 247 MA-GLAWQ-----------------G------RAHCGLDDAKNTARLLALLMHRGFK 279 (374)
Q Consensus 247 ~l-gI~~~-----------------g------~~HrALdDA~atA~l~~~ll~~g~~ 279 (374)
+| |++.. - +-+-|..||..+..|+..|+....+
T Consensus 123 ~~l~~~~~k~~~~~~~~~~~~s~W~~RPLt~~ql~YAa~Dv~~Ll~l~~~l~~~l~~ 179 (197)
T cd06148 123 KYLYISISLKEDVKKLMREDPKFWALRPLTEDMIRYAALDVLCLLPLYYAMLDALIS 179 (197)
T ss_pred HhhCCChHHHHHHHHHHhcCchhhhcCCCCHHHHHHHHHHHHhHHHHHHHHHHHhhh
Confidence 64 55321 0 1256789999999999999876543
No 116
>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=78.75 E-value=6.9 Score=34.52 Aligned_cols=87 Identities=17% Similarity=0.030 Sum_probs=54.5
Q ss_pred HHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC-CCCCHHHHHHHc-CCCC
Q 017267 175 LRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG-VRCNLKEAVEMA-GLAW 252 (374)
Q Consensus 175 ~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~-~~~~L~~l~~~l-gI~~ 252 (374)
+.+.+++++..+ ..|.|+...|+ ..|.+ .+|+.. ...+||...+. +.+. .+.+|..+++++ |+..
T Consensus 57 ~~L~~lL~d~~i----~Kvg~~~k~D~-~~L~~---~~gi~~----~~~~D~~~aa~-ll~~~~~~~L~~l~~~~lg~~l 123 (161)
T cd06129 57 QGLKMLLENPSI----VKALHGIEGDL-WKLLR---DFGEKL----QRLFDTTIAAN-LKGLPERWSLASLVEHFLGKTL 123 (161)
T ss_pred HHHHHHhCCCCE----EEEEeccHHHH-HHHHH---HcCCCc----ccHhHHHHHHH-HhCCCCCchHHHHHHHHhCCCC
Confidence 344556665421 12556677886 45532 356653 24589976554 3443 357999999875 7643
Q ss_pred C---------------CCCCcHHHHHHHHHHHHHHHH
Q 017267 253 Q---------------GRAHCGLDDAKNTARLLALLM 274 (374)
Q Consensus 253 ~---------------g~~HrALdDA~atA~l~~~ll 274 (374)
+ .+-|-|..||..+..||.+|.
T Consensus 124 ~K~~~~s~W~~rpLt~~qi~YAa~Da~~l~~l~~~l~ 160 (161)
T cd06129 124 DKSISCADWSYRPLTEDQKLYAAADVYALLIIYTKLR 160 (161)
T ss_pred CccceeccCCCCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 1 123778999999999998874
No 117
>PRK10829 ribonuclease D; Provisional
Probab=77.77 E-value=16 Score=37.39 Aligned_cols=90 Identities=13% Similarity=0.131 Sum_probs=59.3
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCC-CCCHHHHHH-HcCCCCC
Q 017267 176 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGV-RCNLKEAVE-MAGLAWQ 253 (374)
Q Consensus 176 ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~~-~~~L~~l~~-~lgI~~~ 253 (374)
.|.+++.+..+ .-|.|.+.+|+ .+|.+ ..|+.. .+++||.. ...+.|.. +.+|..+++ .+|+.++
T Consensus 65 ~L~~ll~~~~i----vKV~H~~~~Dl-~~l~~---~~g~~p----~~~fDTqi-aa~~lg~~~~~gl~~Lv~~~lgv~ld 131 (373)
T PRK10829 65 PFKALLRDPQV----TKFLHAGSEDL-EVFLN---AFGELP----QPLIDTQI-LAAFCGRPLSCGFASMVEEYTGVTLD 131 (373)
T ss_pred HHHHHHcCCCe----EEEEeChHhHH-HHHHH---HcCCCc----CCeeeHHH-HHHHcCCCccccHHHHHHHHhCCccC
Confidence 35555666432 12567889998 56643 456642 46899964 44566654 689999885 5587542
Q ss_pred C---------------CCCcHHHHHHHHHHHHHHHHHccC
Q 017267 254 G---------------RAHCGLDDAKNTARLLALLMHRGF 278 (374)
Q Consensus 254 g---------------~~HrALdDA~atA~l~~~ll~~g~ 278 (374)
- +-+-|..|+..+..|+.+|.++..
T Consensus 132 K~~~~sDW~~RPLs~~ql~YAa~Dv~~L~~l~~~L~~~L~ 171 (373)
T PRK10829 132 KSESRTDWLARPLSERQCEYAAADVFYLLPIAAKLMAETE 171 (373)
T ss_pred cccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1 125689999999999998876543
No 118
>PRK00912 ribonuclease P protein component 3; Provisional
Probab=76.69 E-value=1.8 Score=40.82 Aligned_cols=30 Identities=10% Similarity=-0.182 Sum_probs=27.0
Q ss_pred CCCCCChhhHHHHHHhcCCcceeecccCCC
Q 017267 42 DTIVHPGGDAGESIHQLSSEFVEYSNEFYN 71 (374)
Q Consensus 42 ~~~~~~~~~~~~~a~~~g~~a~aitd~~~~ 71 (374)
.||-.++.+++++|.+-|.+.|+||||...
T Consensus 12 ~d~~~~~~e~i~~A~~~Gl~~i~itdH~~~ 41 (237)
T PRK00912 12 PDGYDTVLRLISEASHLGYSGIALSNHSDK 41 (237)
T ss_pred CCCcchHHHHHHHHHHCCCCEEEEecCccc
Confidence 457889999999999999999999999853
No 119
>KOG0969 consensus DNA polymerase delta, catalytic subunit [Replication, recombination and repair]
Probab=76.10 E-value=2.4 Score=46.83 Aligned_cols=146 Identities=18% Similarity=0.152 Sum_probs=84.3
Q ss_pred cEEEEEEeeCCCCCCCC--CCCceEEEceEEEEcCCCeEEEEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHH
Q 017267 97 YFVVIDFEATCDKDKNP--YPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEAL 174 (374)
Q Consensus 97 ~~VVfDlETTGl~~~~~--~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~~p~Is~~~~~LTGIt~e~v~~ap~~~eVl 174 (374)
....||+|+.|-.+..| ..|.||+|+-+.. .-|+- +-||+-.. .+.+ -++|.-.+|-.-..-+++|
T Consensus 275 rvlSfDIECagrkg~FPe~~~DPvIQIan~v~--~~Ge~----~pf~rnvf--~l~~----capI~G~~V~~~~~e~elL 342 (1066)
T KOG0969|consen 275 RVLSFDIECAGRKGVFPEAKIDPVIQIANLVT--LQGEN----EPFVRNVF--TLKT----CAPIVGSNVHSYETEKELL 342 (1066)
T ss_pred cccceeEEeccCCCCCCccccChHHHHHHHHH--HhcCC----chHHHhhh--cccC----cCCCCCceeEEeccHHHHH
Confidence 46789999999766544 5689999987754 23321 11222111 1211 2456666676666677777
Q ss_pred HHHHHHHhh---cCCCCccEEEEEcCcchHHHHHHHHHHHcCCC-CCCCC---C--c-----------------------
Q 017267 175 LRHDKWLEN---KGIKNTNFAVVTWSNWDCRVMLESECRFKKIW-KPPYF---N--R----------------------- 222 (374)
Q Consensus 175 ~ef~~fl~~---~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~-~P~~~---~--~----------------------- 222 (374)
+.-.+|+.+ +++.|.|+ -+||+ .+|-.-++..|++ +|.+. + .
T Consensus 343 ~~W~~firevDPDvI~GYNi-----~nFDi-PYll~RA~~L~Ie~Fp~LGRikn~~s~irDttfSSkq~GtRetK~v~I~ 416 (1066)
T KOG0969|consen 343 ESWRKFIREVDPDVIIGYNI-----CNFDI-PYLLNRAKTLGIENFPYLGRIKNSRSVIRDSTFSSKQYGTRETKEVNID 416 (1066)
T ss_pred HHHHHHHHhcCCCeEecccc-----ccccc-ceecChHhhcCcccccccceecccceeeeccccchhhcCcccceEEeec
Confidence 777777775 23333332 37997 6665555666664 33111 0 0
Q ss_pred ---eeehHHHHHHhcCCCCCCHHHHHHHc-CCCCCCCCCcHH
Q 017267 223 ---WINLKVPFHEVFGGVRCNLKEAVEMA-GLAWQGRAHCGL 260 (374)
Q Consensus 223 ---~iDt~~l~~~~~~~~~~~L~~l~~~l-gI~~~g~~HrAL 260 (374)
.+|+.....+-|.+++|+|+.+..+| +=.-++.||+-+
T Consensus 417 GRlqfDllqvi~Rd~KLrSytLNaVs~hFL~EQKEDV~~siI 458 (1066)
T KOG0969|consen 417 GRLQFDLLQVILRDYKLRSYTLNAVSAHFLGEQKEDVHHSII 458 (1066)
T ss_pred ceeeehHHHHHHHhhhhhhcchhhhHHHhhhhhcccccccch
Confidence 13444445555667789999988766 333344567654
No 120
>TIGR00593 pola DNA polymerase I. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=75.73 E-value=8.6 Score=43.62 Aligned_cols=95 Identities=14% Similarity=0.020 Sum_probs=60.7
Q ss_pred HHHHHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCHHHHHHHc-
Q 017267 170 LSEALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAVEMA- 248 (374)
Q Consensus 170 ~~eVl~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~~~~~L~~l~~~l- 248 (374)
...++..|..|+++..+ ..+.||..||+ .+|. ++|+..+ ..+.||.-....+-+..+++|+.++++|
T Consensus 363 ~~~~~~~l~~~l~~~~~----~~v~~n~K~d~-~~l~----~~gi~~~---~~~~Dt~la~yll~~~~~~~l~~la~~yl 430 (887)
T TIGR00593 363 TILTDDKFARWLLNEQI----KKIGHDAKFLM-HLLK----REGIELG---GVIFDTMLAAYLLDPAQVSTLDTLARRYL 430 (887)
T ss_pred hHHHHHHHHHHHhCCCC----cEEEeeHHHHH-HHHH----hCCCCCC---CcchhHHHHHHHcCCCCCCCHHHHHHHHc
Confidence 55677888889987532 24778899997 6664 6788764 3468986433333333456999998765
Q ss_pred CCCC---C---CC------------CCcHHHHHHHHHHHHHHHHHc
Q 017267 249 GLAW---Q---GR------------AHCGLDDAKNTARLLALLMHR 276 (374)
Q Consensus 249 gI~~---~---g~------------~HrALdDA~atA~l~~~ll~~ 276 (374)
+... . +. ...|..||.+|.+|+..|..+
T Consensus 431 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ya~~d~~~~~~L~~~l~~~ 476 (887)
T TIGR00593 431 VEELILDEKIGGKLAKFAFPPLEEATEYLARRAAATKRLAEELLKE 476 (887)
T ss_pred CcccccHHHhccCCCCcccccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3210 0 10 024677888898888877654
No 121
>TIGR01388 rnd ribonuclease D. This model describes ribonuclease D, a 3'-exonuclease shown to act on tRNA both in vitro and when overexpressed in vivo. Trusted members of this family are restricted to the Proteobacteria; Aquifex, Mycobacterial, and eukaryotic homologs are not full-length homologs. Ribonuclease D is not essential in E. coli and is deleterious when overexpressed. Its precise biological role is still unknown.
Probab=71.89 E-value=33 Score=34.82 Aligned_cols=89 Identities=15% Similarity=0.091 Sum_probs=54.1
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC-CCCCHHHHHHHc-CCCCC
Q 017267 176 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG-VRCNLKEAVEMA-GLAWQ 253 (374)
Q Consensus 176 ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~-~~~~L~~l~~~l-gI~~~ 253 (374)
.|.+++.+..+ ..|.|++..|+ .+|. +.+...| ..++||.. ...+++. ...+|..+++.| |+...
T Consensus 61 ~L~~lL~d~~i----~KV~h~~k~Dl-~~L~----~~~~~~~---~~~fDtql-Aa~lL~~~~~~~l~~Lv~~~Lg~~l~ 127 (367)
T TIGR01388 61 PLKELLRDESV----VKVLHAASEDL-EVFL----NLFGELP---QPLFDTQI-AAAFCGFGMSMGYAKLVQEVLGVELD 127 (367)
T ss_pred HHHHHHCCCCc----eEEEeecHHHH-HHHH----HHhCCCC---CCcccHHH-HHHHhCCCCCccHHHHHHHHcCCCCC
Confidence 45556665421 23667788897 5654 3333333 35789974 4344553 357999998765 66542
Q ss_pred CCC------C---------cHHHHHHHHHHHHHHHHHcc
Q 017267 254 GRA------H---------CGLDDAKNTARLLALLMHRG 277 (374)
Q Consensus 254 g~~------H---------rALdDA~atA~l~~~ll~~g 277 (374)
..+ . -|..||..+..|+..|.++.
T Consensus 128 K~~~~sdW~~rPL~~~q~~YAa~Dv~~L~~L~~~L~~~L 166 (367)
T TIGR01388 128 KSESRTDWLARPLTDAQLEYAAADVTYLLPLYAKLMERL 166 (367)
T ss_pred cccccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 110 2 37889999998888886543
No 122
>cd06142 RNaseD_exo DEDDy 3'-5' exonuclease domain of Ribonuclease D and similar proteins. Ribonuclease (RNase) D is a bacterial enzyme involved in the maturation of small stable RNAs and the 3' maturation of tRNA. 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. In vivo, RNase D only becomes essential upon removal of other ribonucleases. Eukaryotic RNase D homologs include yeast Rrp6p, human PM/Scl-100, and the Drosophila melanogaster egalitarian protein.
Probab=68.86 E-value=57 Score=28.37 Aligned_cols=92 Identities=18% Similarity=0.184 Sum_probs=54.1
Q ss_pred HHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHc-CCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHc-C
Q 017267 173 ALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFK-KIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMA-G 249 (374)
Q Consensus 173 Vl~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~-gi~~P~~~~~~iDt~~l~~~~~~-~~~~~L~~l~~~l-g 249 (374)
+...|.+++.+..+ ..++|+..+|+ ..|. ++ |+. + +.+.|+.- ...+++ ..+++|+++++.+ +
T Consensus 52 ~~~~l~~ll~~~~i----~kv~~d~K~~~-~~L~----~~~gi~-~---~~~~D~~l-aayLl~p~~~~~l~~l~~~~l~ 117 (178)
T cd06142 52 DLSPLKELLADPNI----VKVFHAAREDL-ELLK----RDFGIL-P---QNLFDTQI-AARLLGLGDSVGLAALVEELLG 117 (178)
T ss_pred cHHHHHHHHcCCCc----eEEEeccHHHH-HHHH----HHcCCC-C---CCcccHHH-HHHHhCCCccccHHHHHHHHhC
Confidence 34446677776421 23566778886 4553 33 776 2 34689964 444443 3346999998764 6
Q ss_pred CCCC-----CC---C-------CcHHHHHHHHHHHHHHHHHccC
Q 017267 250 LAWQ-----GR---A-------HCGLDDAKNTARLLALLMHRGF 278 (374)
Q Consensus 250 I~~~-----g~---~-------HrALdDA~atA~l~~~ll~~g~ 278 (374)
+... +. . +.|..||.++.+|+..|.++..
T Consensus 118 ~~~~~~~~~~~w~~~~l~~~~~~yaa~~a~~l~~L~~~l~~~L~ 161 (178)
T cd06142 118 VELDKGEQRSDWSKRPLTDEQLEYAALDVRYLLPLYEKLKEELE 161 (178)
T ss_pred CCCCcccccccCCCCCCCHHHHHHHHHhHHHHHHHHHHHHHHHH
Confidence 5421 00 0 1366778888888887766543
No 123
>COG0613 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]
Probab=68.15 E-value=4 Score=39.40 Aligned_cols=31 Identities=3% Similarity=-0.151 Sum_probs=27.6
Q ss_pred CCCCChhhHHHHHHhcCCcceeecccCCCCc
Q 017267 43 TIVHPGGDAGESIHQLSSEFVEYSNEFYNNP 73 (374)
Q Consensus 43 ~~~~~~~~~~~~a~~~g~~a~aitd~~~~k~ 73 (374)
||+-++.+++++|++-|...+|||||--+..
T Consensus 14 dg~~~p~~vv~~A~~~g~~vlAiTDHdt~~g 44 (258)
T COG0613 14 DGGLTPREVVERAKAKGVDVLAITDHDTVRG 44 (258)
T ss_pred CCCCCHHHHHHHHHHcCCCEEEECCcccccc
Confidence 5677799999999999999999999996654
No 124
>COG1387 HIS2 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]
Probab=68.06 E-value=3.8 Score=38.96 Aligned_cols=31 Identities=10% Similarity=-0.022 Sum_probs=28.3
Q ss_pred CCCCChhhHHHHHHhcCCcceeecccCCCCc
Q 017267 43 TIVHPGGDAGESIHQLSSEFVEYSNEFYNNP 73 (374)
Q Consensus 43 ~~~~~~~~~~~~a~~~g~~a~aitd~~~~k~ 73 (374)
||..++.+++++|.+-|.+.+++|||+...+
T Consensus 13 dg~~~~~e~~~~A~~~g~~~~~iTdH~~~~~ 43 (237)
T COG1387 13 DGEATPEEMVEAAIELGLEYIAITDHAPFLR 43 (237)
T ss_pred cCCCCHHHHHHHHHHcCCeEEEEeccccccc
Confidence 8899999999999999999999999996543
No 125
>PRK07945 hypothetical protein; Provisional
Probab=65.15 E-value=5 Score=40.20 Aligned_cols=32 Identities=9% Similarity=0.111 Sum_probs=28.7
Q ss_pred cccCCCCCCChhhHHHHHHhcCCcceeecccCCC
Q 017267 38 ELKDDTIVHPGGDAGESIHQLSSEFVEYSNEFYN 71 (374)
Q Consensus 38 ~~~~~~~~~~~~~~~~~a~~~g~~a~aitd~~~~ 71 (374)
..| ||..+++++|++|.+-|.+.+++|||+..
T Consensus 105 ~~S--dg~~~~ee~v~~Ai~~Gl~~i~~TDH~p~ 136 (335)
T PRK07945 105 DWS--DGGSPIEEMARTAAALGHEYCALTDHSPR 136 (335)
T ss_pred CCC--CCCCCHHHHHHHHHHCCCCEEEEeCCCCC
Confidence 456 58999999999999999999999999854
No 126
>PRK07328 histidinol-phosphatase; Provisional
Probab=65.07 E-value=5 Score=38.58 Aligned_cols=30 Identities=3% Similarity=0.031 Sum_probs=27.1
Q ss_pred CCCCCChhhHHHHHHhcCCcceeecccCCC
Q 017267 42 DTIVHPGGDAGESIHQLSSEFVEYSNEFYN 71 (374)
Q Consensus 42 ~~~~~~~~~~~~~a~~~g~~a~aitd~~~~ 71 (374)
.||..+++++|++|.+-|.+.++||||+..
T Consensus 14 ~~~~~~~ee~v~~A~~~Gl~~i~~TdH~~~ 43 (269)
T PRK07328 14 GHAVGTPEEYVQAARRAGLKEIGFTDHLPM 43 (269)
T ss_pred CCCCCCHHHHHHHHHHCCCCEEEEecCCCC
Confidence 367778999999999999999999999864
No 127
>PRK08392 hypothetical protein; Provisional
Probab=63.19 E-value=5.9 Score=36.83 Aligned_cols=29 Identities=10% Similarity=-0.030 Sum_probs=26.5
Q ss_pred CCCCChhhHHHHHHhcCCcceeecccCCC
Q 017267 43 TIVHPGGDAGESIHQLSSEFVEYSNEFYN 71 (374)
Q Consensus 43 ~~~~~~~~~~~~a~~~g~~a~aitd~~~~ 71 (374)
||...++++++.|.+-|-+.++||||...
T Consensus 11 d~~~~~~e~v~~A~~~Gl~~i~iTdH~~~ 39 (215)
T PRK08392 11 DGIGSVRDNIAEAERKGLRLVGISDHIHY 39 (215)
T ss_pred CCcCCHHHHHHHHHHcCCCEEEEccCCCc
Confidence 47888999999999999999999999954
No 128
>TIGR01856 hisJ_fam histidinol phosphate phosphatase HisJ family. This model represents the histidinol phosphate phosphatase HisJ of Bacillus subtilis, and related proteins from a number of species within a larger family of phosphatases in the PHP hydrolase family. HisJ catalyzes the penultimate step of histidine biosynthesis but shows no homology to the functionally equivalent sequence in E. coli, a domain of the bifunctional HisB protein. Note, however, that many species have two members and that Clostridium perfringens, predicted not to make histidine, has five members of this family; this family is designated subfamily rather than equivalog to indicate that members may not all act as HisJ.
Probab=61.26 E-value=6.7 Score=37.38 Aligned_cols=29 Identities=10% Similarity=-0.083 Sum_probs=26.8
Q ss_pred CCCCChhhHHHHHHhcCCcceeecccCCC
Q 017267 43 TIVHPGGDAGESIHQLSSEFVEYSNEFYN 71 (374)
Q Consensus 43 ~~~~~~~~~~~~a~~~g~~a~aitd~~~~ 71 (374)
||..+++++|++|.+-|-+.|+||||+..
T Consensus 12 d~~~~~ee~v~~A~~~Gl~~i~~TdH~p~ 40 (253)
T TIGR01856 12 HGTDTLEEVVQEAIQLGFEEICFTEHAPL 40 (253)
T ss_pred CCCCCHHHHHHHHHHcCCCEEEecCCCCc
Confidence 67788999999999999999999999964
No 129
>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=59.00 E-value=73 Score=27.90 Aligned_cols=66 Identities=17% Similarity=0.114 Sum_probs=40.0
Q ss_pred HHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhc-CCC-CCCHHHHHHHc-C
Q 017267 173 ALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVF-GGV-RCNLKEAVEMA-G 249 (374)
Q Consensus 173 Vl~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~-~~~-~~~L~~l~~~l-g 249 (374)
+...|.+|+++..+ ..+.|+..+|+ .+| .+.|+..+ ..+.||.- ...+. +.. +++|++++++| +
T Consensus 44 ~~~~l~~~l~~~~~----~ki~~d~K~~~-~~l----~~~gi~~~---~~~fDt~l-aaYLL~p~~~~~~l~~l~~~yl~ 110 (178)
T cd06140 44 DLAALKEWLEDEKI----PKVGHDAKRAY-VAL----KRHGIELA---GVAFDTML-AAYLLDPTRSSYDLADLAKRYLG 110 (178)
T ss_pred HHHHHHHHHhCCCC----ceeccchhHHH-HHH----HHCCCcCC---CcchhHHH-HHHHcCCCCCCCCHHHHHHHHcC
Confidence 45556777776421 13566677775 454 46788764 34689864 44444 333 37999998765 5
Q ss_pred CC
Q 017267 250 LA 251 (374)
Q Consensus 250 I~ 251 (374)
+.
T Consensus 111 ~~ 112 (178)
T cd06140 111 RE 112 (178)
T ss_pred CC
Confidence 44
No 130
>COG0749 PolA DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]
Probab=51.04 E-value=1.5e+02 Score=32.40 Aligned_cols=90 Identities=24% Similarity=0.234 Sum_probs=55.0
Q ss_pred HHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhc--CCCCCCHHHHHHHc-C
Q 017267 173 ALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVF--GGVRCNLKEAVEMA-G 249 (374)
Q Consensus 173 Vl~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~--~~~~~~L~~l~~~l-g 249 (374)
++..+..|+.+... ..+.++..+|+ .+| .++|+. + ....||. ++.-+. +...+.|+++++++ +
T Consensus 66 ~~~~l~~~l~~~~~----~kv~~~~K~d~-~~l----~~~Gi~-~---~~~~Dtm-lasYll~~~~~~~~~~~l~~r~l~ 131 (593)
T COG0749 66 VLAALKPLLEDEGI----KKVGQNLKYDY-KVL----ANLGIE-P---GVAFDTM-LASYLLNPGAGAHNLDDLAKRYLG 131 (593)
T ss_pred hHHHHHHHhhCccc----chhccccchhH-HHH----HHcCCc-c---cchHHHH-HHHhccCcCcCcCCHHHHHHHhcC
Confidence 88999999998642 13456678886 444 467754 2 2456875 333333 33468899988877 3
Q ss_pred CCCC--------CC-------------CCcHHHHHHHHHHHHHHHHHc
Q 017267 250 LAWQ--------GR-------------AHCGLDDAKNTARLLALLMHR 276 (374)
Q Consensus 250 I~~~--------g~-------------~HrALdDA~atA~l~~~ll~~ 276 (374)
.... +. .-.+-.||.+|.+++..|..+
T Consensus 132 ~~~~~~~~i~~kg~~~~~~~~~~~~~~~~y~a~~a~~~~~L~~~l~~~ 179 (593)
T COG0749 132 LETITFEDIAGKGKKQLTFADVKLEKATEYAAEDADATLRLESILEPE 179 (593)
T ss_pred CccchhHHhhccccccCccccchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 2211 00 123457888888887777643
No 131
>cd09018 DEDDy_polA_RNaseD_like_exo DEDDy 3'-5' exonuclease domain of family-A DNA polymerases, RNase D, WRN, and similar proteins. DEDDy 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. They contain four invariant acidic residues in three conserved sequence motifs termed ExoI, ExoII and ExoIII. DEDDy exonucleases are classified as such because of the presence of a specific YX(3)D pattern at ExoIII. The four conserved acidic residues serve as ligands for the two metal ions required for catalysis. This family of DEDDy exonucleases includes the proofreading domains of family A DNA polymerases, as well as RNases such as RNase D and yeast Rrp6p. The Egalitarian (Egl) and Bacillus-like DNA Polymerase I subfamilies do not possess a completely conserved YX(3)D pattern at the ExoIII motif. In addition, the Bacillus-like DNA polymerase I subfamily has inactive 3'-5' exonucle
Probab=50.63 E-value=1.5e+02 Score=24.76 Aligned_cols=63 Identities=16% Similarity=-0.007 Sum_probs=36.4
Q ss_pred HHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCC-CCCHHHHHHHc-CCC
Q 017267 177 HDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGV-RCNLKEAVEMA-GLA 251 (374)
Q Consensus 177 f~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~~-~~~L~~l~~~l-gI~ 251 (374)
+.+++++..+ ..++++...|+ .+| .+.|+..+ ..+.||.-.+..+-+.+ +.+|+.+++.| ++.
T Consensus 45 l~~~l~~~~~----~kv~~d~K~~~-~~L----~~~~~~~~---~~~~D~~laayLl~p~~~~~~l~~l~~~~l~~~ 109 (150)
T cd09018 45 LKPLLEDEKA----LKVGQNLKYDR-GIL----LNYFIELR---GIAFDTMLEAYILNSVAGRWDMDSLVERWLGHK 109 (150)
T ss_pred HHHHhcCCCC----ceeeecHHHHH-HHH----HHcCCccC---CcchhHHHHHHHhCCCCCCCCHHHHHHHHhCCC
Confidence 5566765422 13455666675 444 45676653 35689875443333433 46899998775 554
No 132
>PF01396 zf-C4_Topoisom: Topoisomerase DNA binding C4 zinc finger; InterPro: IPR013498 DNA topoisomerases regulate the number of topological links between two DNA strands (i.e. change the number of superhelical turns) by catalysing transient single- or double-strand breaks, crossing the strands through one another, then resealing the breaks []. These enzymes have several functions: to remove DNA supercoils during transcription and DNA replication; for strand breakage during recombination; for chromosome condensation; and to disentangle intertwined DNA during mitosis [, ]. DNA topoisomerases are divided into two classes: type I enzymes (5.99.1.2 from EC; topoisomerases I, III and V) break single-strand DNA, and type II enzymes (5.99.1.3 from EC; topoisomerases II, IV and VI) break double-strand DNA []. Type I topoisomerases are ATP-independent enzymes (except for reverse gyrase), and can be subdivided according to their structure and reaction mechanisms: type IA (bacterial and archaeal topoisomerase I, topoisomerase III and reverse gyrase) and type IB (eukaryotic topoisomerase I and topoisomerase V). These enzymes are primarily responsible for relaxing positively and/or negatively supercoiled DNA, except for reverse gyrase, which can introduce positive supercoils into DNA. This entry represents the zinc-finger domain found in type IA topoisomerases, including bacterial and archaeal topoisomerase I and III enzymes, and in eukaryotic topoisomerase III enzymes. Escherichia coli topoisomerase I proteins contain five copies of a zinc-ribbon-like domain at their C terminus, two of which have lost their cysteine residues and are therefore probably not able to bind zinc []. This domain is still considered to be a member of the zinc-ribbon superfamily despite not being able to bind zinc. More information about this protein can be found at Protein of the Month: DNA Topoisomerase [].; GO: 0003677 DNA binding, 0003916 DNA topoisomerase activity, 0006265 DNA topological change, 0005694 chromosome
Probab=47.63 E-value=15 Score=25.15 Aligned_cols=28 Identities=36% Similarity=0.770 Sum_probs=18.9
Q ss_pred ccccCCCCCCCCcccCCCCcccCCCccCcccccCC
Q 017267 338 MVRKPGPKQGSVFFGCGNWTVTRGARCHFFEWAFT 372 (374)
Q Consensus 338 ~v~k~Gpn~Gr~fy~C~~~~~~~~~~c~~f~W~~~ 372 (374)
+|.|.|.. | .||+|.++ ..|.|..|..+
T Consensus 11 lv~r~~k~-g-~F~~Cs~y-----P~C~~~~~~~~ 38 (39)
T PF01396_consen 11 LVLRRGKK-G-KFLGCSNY-----PECKYTEPLPK 38 (39)
T ss_pred eEEEECCC-C-CEEECCCC-----CCcCCeEeCCC
Confidence 34444443 3 99999654 46999999764
No 133
>PRK08609 hypothetical protein; Provisional
Probab=38.73 E-value=23 Score=38.12 Aligned_cols=29 Identities=7% Similarity=-0.058 Sum_probs=26.6
Q ss_pred CCCCChhhHHHHHHhcCCcceeecccCCC
Q 017267 43 TIVHPGGDAGESIHQLSSEFVEYSNEFYN 71 (374)
Q Consensus 43 ~~~~~~~~~~~~a~~~g~~a~aitd~~~~ 71 (374)
||..+++++++.|.+-|.+.|++|||...
T Consensus 346 Dg~~sleemv~~A~~~Gl~~i~iTdH~~~ 374 (570)
T PRK08609 346 DGAFSIEEMVEACIAKGYEYMAITDHSQY 374 (570)
T ss_pred CCCCCHHHHHHHHHHCCCCEEEEeCCCCC
Confidence 68888999999999999999999999853
No 134
>PHA02563 DNA polymerase; Provisional
Probab=38.25 E-value=1.6e+02 Score=32.48 Aligned_cols=40 Identities=13% Similarity=0.111 Sum_probs=26.6
Q ss_pred HHHHHHHHhhcCCCCccE-EEEEcCcchHHHHHHHHHHHcCC
Q 017267 174 LLRHDKWLENKGIKNTNF-AVVTWSNWDCRVMLESECRFKKI 214 (374)
Q Consensus 174 l~ef~~fl~~~~l~~~n~-~vv~~g~fDl~~fL~~~~~~~gi 214 (374)
+.+|++|+....-..+++ +.+||+.||. .||-+.+.+++.
T Consensus 50 ~~~f~~~i~~~~~k~~~~~vYfHN~~FD~-~Fil~~L~~~~~ 90 (630)
T PHA02563 50 FDEFLQWIEDTTYKETECIIYFHNLKFDG-SFILKWLLRNGF 90 (630)
T ss_pred HHHHHHHHhhccccccceEEEEecCCccH-HHHHHHHHhhcc
Confidence 348888887311122222 4578999995 899998887664
No 135
>PRK08123 histidinol-phosphatase; Reviewed
Probab=35.70 E-value=29 Score=33.43 Aligned_cols=26 Identities=8% Similarity=-0.129 Sum_probs=23.6
Q ss_pred CChhhHHHHHHhcCCcceeecccCCC
Q 017267 46 HPGGDAGESIHQLSSEFVEYSNEFYN 71 (374)
Q Consensus 46 ~~~~~~~~~a~~~g~~a~aitd~~~~ 71 (374)
..++++|++|.+-|-+.|++|||...
T Consensus 19 ~~~e~~v~~Ai~~Gl~~i~~tdH~p~ 44 (270)
T PRK08123 19 DDLEAYIERAIELGFTEITFTEHAPL 44 (270)
T ss_pred CCHHHHHHHHHHcCCcEEEEeccCCC
Confidence 46799999999999999999999864
No 136
>PRK06740 histidinol-phosphatase; Validated
Probab=35.47 E-value=26 Score=35.05 Aligned_cols=28 Identities=7% Similarity=-0.243 Sum_probs=26.0
Q ss_pred CCCCCChhhHHHHHHhcCCcceeecccC
Q 017267 42 DTIVHPGGDAGESIHQLSSEFVEYSNEF 69 (374)
Q Consensus 42 ~~~~~~~~~~~~~a~~~g~~a~aitd~~ 69 (374)
-||....+++|++|.+-|-+.++||||+
T Consensus 57 ~~~~~~~e~yv~~Ai~~G~~~ig~SdH~ 84 (331)
T PRK06740 57 PYTTKWIDLYLEEALRKGIKEVGIVDHL 84 (331)
T ss_pred CCccchHHHHHHHHHHCCCcEEEECCCC
Confidence 4677789999999999999999999999
No 137
>PF06373 CART: Cocaine and amphetamine regulated transcript protein (CART); InterPro: IPR009106 The cocaine and amphetamine regulated transcript (CART) is a brain-localised peptide that acts as a satiety factor in appetite regulation. CART was found to inhibit both normal and starvation-induced feeding, and completely blocks the feeding response induced by neuropeptide Y. CART is regulated by leptin in the hypothalamus, and can be transcriptionally induced after cocaine or amphetamine administration []. Posttranslational processing of CART produces an N-terminal CART peptide and a C-terminal CART peptide. The C-terminal CART peptide has been isolated from the hypothalamus, nucleus accumbens, and the anterior pituitary lobe in rats. C-terminal CART is the biologically active part of the molecule affecting food intake. The structure of C-terminal CART consists of a disulphide-bound fold containing a beta-hairpin and two adjacent disulphide bridges [].; GO: 0000186 activation of MAPKK activity, 0001678 cellular glucose homeostasis, 0007186 G-protein coupled receptor protein signaling pathway, 0008343 adult feeding behavior, 0009267 cellular response to starvation, 0032099 negative regulation of appetite, 0005615 extracellular space; PDB: 1HY9_A.
Probab=35.45 E-value=12 Score=29.30 Aligned_cols=36 Identities=36% Similarity=0.832 Sum_probs=15.7
Q ss_pred CccceecCCCCCCccccccCCCCCCCCcccCCCCcccCCCccCccc
Q 017267 323 QYHPSCFCGVKSSKGMVRKPGPKQGSVFFGCGNWTVTRGARCHFFE 368 (374)
Q Consensus 323 ~~~~~c~cg~~~~~~~v~k~Gpn~Gr~fy~C~~~~~~~~~~c~~f~ 368 (374)
|..|+|.=|...-. +.||.-||.= .| ++++.|+||+
T Consensus 34 g~vP~Cd~GE~CAv----rkG~RIGklC-dC-----~rG~~CN~fl 69 (73)
T PF06373_consen 34 GQVPSCDVGEQCAV----RKGPRIGKLC-DC-----PRGTSCNFFL 69 (73)
T ss_dssp ----B--SSS-SEE----E-SSSEEE---B-------TT--B-TTT
T ss_pred CcCCCCCCCchhhh----cccccccccc-CC-----CCCCchhhhH
Confidence 45577777765433 6789889862 45 5899999996
No 138
>PRK05588 histidinol-phosphatase; Provisional
Probab=35.01 E-value=28 Score=32.99 Aligned_cols=28 Identities=4% Similarity=-0.120 Sum_probs=25.3
Q ss_pred CCCCChhhHHHHHHhcCCcceeecccCCC
Q 017267 43 TIVHPGGDAGESIHQLSSEFVEYSNEFYN 71 (374)
Q Consensus 43 ~~~~~~~~~~~~a~~~g~~a~aitd~~~~ 71 (374)
+|..+++++|++|.+-|-+.+ +|||+..
T Consensus 13 ~~~~~~ee~v~~A~~~Gl~~~-~TdH~~~ 40 (255)
T PRK05588 13 DSKMKIEEAIKKAKENNLGII-ITEHMDL 40 (255)
T ss_pred CcccCHHHHHHHHHHcCCCEE-EeCCCCC
Confidence 777889999999999999988 9999854
No 139
>PF11074 DUF2779: Domain of unknown function(DUF2779); InterPro: IPR021301 This domain is conserved in bacteria. The function is not known.
Probab=30.27 E-value=2.1e+02 Score=24.84 Aligned_cols=57 Identities=18% Similarity=0.147 Sum_probs=36.1
Q ss_pred CCCHHHHHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCC-------CCCceeehHHHHHH
Q 017267 167 GVTLSEALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPP-------YFNRWINLKVPFHE 232 (374)
Q Consensus 167 ap~~~eVl~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~-------~~~~~iDt~~l~~~ 232 (374)
..+-.+.+..|.+-|+... ..+||.|..|. +..|+.-++. +|. +..+.+|+..+++.
T Consensus 54 ~DPr~~~~~~L~~~i~~~~----g~ivvyN~sfE-~~rL~ela~~----~p~~~~~l~~I~~r~vDL~~~f~~ 117 (130)
T PF11074_consen 54 EDPRRELIEALIKAIGSIY----GSIVVYNKSFE-KTRLKELAEL----FPDYAEKLNSIIERTVDLLDPFKN 117 (130)
T ss_pred CCchHHHHHHHHHHhhhhc----CeEEEechHHH-HHHHHHHHHH----hHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4566778888888887651 24677777798 4777665544 221 12356677777765
No 140
>PF05325 DUF730: Protein of unknown function (DUF730); InterPro: IPR007989 This family consists of several uncharacterised Arabidopsis thaliana proteins of unknown function.
Probab=27.61 E-value=47 Score=27.64 Aligned_cols=50 Identities=22% Similarity=0.425 Sum_probs=30.8
Q ss_pred ccccCcccCccceecCCCCCCccccccCCCCCCCCcccCCCC-cccCCCccCccccc
Q 017267 315 MDLQNSIFQYHPSCFCGVKSSKGMVRKPGPKQGSVFFGCGNW-TVTRGARCHFFEWA 370 (374)
Q Consensus 315 ~~~~~~~~~~~~~c~cg~~~~~~~v~k~Gpn~Gr~fy~C~~~-~~~~~~~c~~f~W~ 370 (374)
++..+| +-|.|+..-...|. .+--..|+.||.|+-- ....+.+|+|=.|-
T Consensus 15 rdkgv~-----ie~dcnakvvvats-~dpvts~klyfscpyeisdg~g~~~gfkrww 65 (122)
T PF05325_consen 15 RDKGVP-----IECDCNAKVVVATS-RDPVTSGKLYFSCPYEISDGPGRGCGFKRWW 65 (122)
T ss_pred cCCCcc-----eeccCCceEEEEec-cCCcccceeeecCccccccCCCCCccceeEE
Confidence 344555 57888765444332 3334679999999532 22246789998884
No 141
>cd06147 Rrp6p_like_exo DEDDy 3'-5' exonuclease domain of yeast Rrp6p, human polymyositis/scleroderma autoantigen 100kDa, and similar proteins. Yeast Rrp6p and its human homolog, the polymyositis/scleroderma autoantigen 100kDa (PM/Scl-100), are exosome-associated proteins involved in the degradation and processing of precursors to stable RNAs. Both proteins contain 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. The 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. PM/Scl-100, an autoantigen present in the nucleolar compartment of the cell, reacts with autoantibodies produced by about 50% of patients with polymyositis-scleroderma overlap syndrome.
Probab=24.61 E-value=2.7e+02 Score=24.92 Aligned_cols=63 Identities=11% Similarity=0.031 Sum_probs=35.0
Q ss_pred HHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCHHHHHHHc-CC
Q 017267 175 LRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAVEMA-GL 250 (374)
Q Consensus 175 ~ef~~fl~~~~l~~~n~~vv~~g~fDl~~fL~~~~~~~gi~~P~~~~~~iDt~~l~~~~~~~~~~~L~~l~~~l-gI 250 (374)
..|.+|+.+..+ ..++|+...|+ ..|.. ++|+..+ .. +|+.-....+-+. +++|+.+++.| +.
T Consensus 67 ~~L~~~L~~~~i----~kv~~d~K~~~-~~L~~---~~gi~~~---~~-fD~~laaYLL~p~-~~~l~~l~~~yl~~ 130 (192)
T cd06147 67 HILNEVFTDPNI----LKVFHGADSDI-IWLQR---DFGLYVV---NL-FDTGQAARVLNLP-RHSLAYLLQKYCNV 130 (192)
T ss_pred HHHHHHhcCCCc----eEEEechHHHH-HHHHH---HhCCCcC---ch-HHHHHHHHHhCCC-cccHHHHHHHHhCC
Confidence 346667765421 23555666664 34321 6687753 23 8886444333333 46899998776 44
No 142
>PF11079 YqhG: Bacterial protein YqhG of unknown function; InterPro: IPR024562 This family of putative proteins appears to be restricted to Firmicutes. Their function is not known.
Probab=22.04 E-value=51 Score=32.15 Aligned_cols=71 Identities=21% Similarity=0.400 Sum_probs=52.3
Q ss_pred EEEEEeeCCCCCCCCCCCceEEEceEEEEcCCCeEEEEEEEeecCCC-CCCCCcchhhhcCCChHHHhCCCCHHHHHHHH
Q 017267 99 VVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTC-NQLLSDFCKDLTGIQQIQVDRGVTLSEALLRH 177 (374)
Q Consensus 99 VVfDlETTGl~~~~~~~deIIEIGAVkvd~~~G~iidsF~~lVkP~~-~p~Is~~~~~LTGIt~e~v~~ap~~~eVl~ef 177 (374)
|-+-++-.|. -..|++..+|.-++ +|+|++.|+..+.... .|+||+.+--++- ..++..++..+
T Consensus 124 vN~KVsy~cD----~KkDel~SlGi~Li---~G~ive~F~~~L~~~~LtpkiPdy~ftlsp--------~i~~~sa~~rl 188 (260)
T PF11079_consen 124 VNVKVSYQCD----RKKDELLSLGINLI---SGQIVENFHERLQGRQLTPKIPDYCFTLSP--------IIKPKSALKRL 188 (260)
T ss_pred EeEEEEEeec----cchHHHhhheeecc---CCcchhhHHHHHhcCCCCCCCCcceeecCC--------cCCHHHHHHHH
Confidence 3366677763 36799999999887 8999999999998764 3556666554443 23578899999
Q ss_pred HHHHhhc
Q 017267 178 DKWLENK 184 (374)
Q Consensus 178 ~~fl~~~ 184 (374)
..+|.+.
T Consensus 189 E~~l~~~ 195 (260)
T PF11079_consen 189 EQYLEQY 195 (260)
T ss_pred HHHHHHH
Confidence 8888874
No 143
>PRK06319 DNA topoisomerase I/SWI domain fusion protein; Validated
Probab=21.96 E-value=56 Score=37.10 Aligned_cols=35 Identities=14% Similarity=0.488 Sum_probs=21.5
Q ss_pred eecCCCCCCccccccCCCCCCCCcccCCCCcccCCCccCcccccC
Q 017267 327 SCFCGVKSSKGMVRKPGPKQGSVFFGCGNWTVTRGARCHFFEWAF 371 (374)
Q Consensus 327 ~c~cg~~~~~~~v~k~Gpn~Gr~fy~C~~~~~~~~~~c~~f~W~~ 371 (374)
-|.||.. ++.+.|. .|+.||+|.++ ..|.|..|.-
T Consensus 698 ~~~C~g~----l~~r~gr-~G~~f~~Cs~y-----p~C~~~~~~~ 732 (860)
T PRK06319 698 AIGCTGH----IVKRRSR-FNKMFYSCSEY-----PACSVIGNSI 732 (860)
T ss_pred CcCCCCc----EEEEecC-CCCeeeccCCC-----CCCceeeccC
Confidence 3447642 3334443 47789999765 4699886654
No 144
>TIGR01056 topB DNA topoisomerase III, bacteria and conjugative plasmid. This model describes topoisomerase III from bacteria and its equivalents encoded on plasmids. The gene is designated topB if found in the bacterial chromosome, traE on conjugative plasmid RP4, etc. These enzymes are involved in the control of DNA topology. DNA topoisomerase III belongs to the type I topoisomerases, which are ATP-independent.
Probab=21.59 E-value=55 Score=35.98 Aligned_cols=39 Identities=15% Similarity=0.271 Sum_probs=24.0
Q ss_pred eecCCCCCCccccccCCCCCCCCcccCCCCcccCC--CccCcccccC
Q 017267 327 SCFCGVKSSKGMVRKPGPKQGSVFFGCGNWTVTRG--ARCHFFEWAF 371 (374)
Q Consensus 327 ~c~cg~~~~~~~v~k~Gpn~Gr~fy~C~~~~~~~~--~~c~~f~W~~ 371 (374)
.|-||... + .+.|.+ |+ |.+|.++..-++ .+|+|=.|.+
T Consensus 613 ~cpcg~~l---~-~~~~~~-g~-f~~c~~~p~C~~~~~~c~~~~~~~ 653 (660)
T TIGR01056 613 PVSCGGIA---K-CPAKDN-GR-LIDCKKFPECTEYGNGCEFTIPKK 653 (660)
T ss_pred cCCCCCce---e-eeecCC-Ce-eecCCCCCCccCcCCCCeEEccHH
Confidence 35577433 2 344443 54 999988744333 6899998864
Done!