Query 016965
Match_columns 379
No_of_seqs 300 out of 1207
Neff 5.9
Searched_HMMs 46136
Date Fri Mar 29 04:25:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016965.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016965hhsearch_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 4E-58 8.6E-63 493.7 9.2 279 42-357 347-628 (1444)
2 TIGR01405 polC_Gram_pos DNA po 100.0 2.4E-43 5.1E-48 393.9 19.1 243 44-323 117-361 (1213)
3 PRK00448 polC DNA polymerase I 100.0 5.9E-40 1.3E-44 370.6 21.4 243 44-323 347-590 (1437)
4 PRK07748 sporulation inhibitor 100.0 1E-37 2.2E-42 289.8 19.3 174 136-318 4-181 (207)
5 KOG0542 Predicted exonuclease 100.0 2.8E-37 6.1E-42 289.6 12.4 219 133-351 53-276 (280)
6 PTZ00315 2'-phosphotransferase 100.0 2E-35 4.4E-40 307.4 24.4 195 133-327 53-265 (582)
7 PRK06722 exonuclease; Provisio 100.0 7.9E-35 1.7E-39 282.2 20.5 171 136-315 5-179 (281)
8 cd06133 ERI-1_3'hExo_like DEDD 100.0 3.3E-33 7.1E-38 249.5 20.4 172 138-314 1-176 (176)
9 TIGR01406 dnaQ_proteo DNA poly 100.0 3.7E-33 8E-38 263.1 21.2 169 137-319 1-174 (225)
10 PRK05711 DNA polymerase III su 100.0 2.9E-33 6.2E-38 266.3 19.4 173 136-322 4-181 (240)
11 PRK09146 DNA polymerase III su 100.0 2.8E-33 6.1E-38 266.1 19.2 174 123-318 39-228 (239)
12 smart00479 EXOIII exonuclease 100.0 4.9E-32 1.1E-36 239.3 22.0 167 137-318 1-168 (169)
13 cd06131 DNA_pol_III_epsilon_Ec 100.0 1.6E-32 3.4E-37 244.6 18.9 162 138-313 1-166 (167)
14 PRK06195 DNA polymerase III su 100.0 2.5E-32 5.4E-37 268.4 22.0 165 137-320 2-167 (309)
15 PRK08517 DNA polymerase III su 100.0 4.5E-32 9.8E-37 260.4 20.5 175 121-318 58-232 (257)
16 PRK06807 DNA polymerase III su 100.0 1.3E-31 2.9E-36 263.7 22.2 164 136-317 8-172 (313)
17 cd06130 DNA_pol_III_epsilon_li 100.0 1.1E-31 2.4E-36 235.5 19.3 154 138-311 1-155 (156)
18 PRK07740 hypothetical protein; 100.0 1.1E-31 2.4E-36 255.8 19.2 177 124-322 52-231 (244)
19 PRK06063 DNA polymerase III su 100.0 8.5E-32 1.8E-36 265.2 18.3 169 136-322 15-184 (313)
20 PRK05168 ribonuclease T; Provi 100.0 1.4E-31 3.1E-36 249.8 18.3 188 122-320 8-204 (211)
21 PRK07942 DNA polymerase III su 100.0 3.1E-31 6.8E-36 250.9 20.3 174 136-319 6-182 (232)
22 PRK06310 DNA polymerase III su 100.0 2.7E-31 5.9E-36 254.0 19.6 168 136-317 7-174 (250)
23 TIGR00573 dnaq exonuclease, DN 100.0 5.3E-31 1.1E-35 246.6 18.8 171 136-321 7-181 (217)
24 PRK09145 DNA polymerase III su 100.0 5.3E-31 1.2E-35 243.6 18.1 163 136-316 29-200 (202)
25 cd06136 TREX1_2 DEDDh 3'-5' ex 100.0 4.5E-31 9.8E-36 239.8 17.0 161 138-312 1-176 (177)
26 PRK07247 DNA polymerase III su 100.0 9.7E-31 2.1E-35 241.8 18.9 162 135-319 4-171 (195)
27 cd06134 RNaseT DEDDh 3'-5' exo 100.0 1E-30 2.2E-35 240.0 18.4 174 137-316 6-188 (189)
28 PRK06309 DNA polymerase III su 100.0 2.4E-30 5.2E-35 244.6 20.0 162 137-317 3-166 (232)
29 PRK07883 hypothetical protein; 100.0 1.6E-30 3.5E-35 273.4 20.4 176 125-322 9-187 (557)
30 TIGR01298 RNaseT ribonuclease 100.0 2.7E-30 5.8E-35 239.4 18.2 178 136-319 8-194 (200)
31 PRK07246 bifunctional ATP-depe 100.0 1E-29 2.3E-34 277.7 19.7 166 136-320 7-173 (820)
32 PRK05601 DNA polymerase III su 100.0 9.5E-29 2.1E-33 245.8 22.2 163 136-314 46-246 (377)
33 cd06138 ExoI_N N-terminal DEDD 100.0 2.9E-29 6.2E-34 228.8 15.4 162 139-310 1-182 (183)
34 PRK08074 bifunctional ATP-depe 100.0 1E-28 2.2E-33 273.3 20.1 168 136-320 3-172 (928)
35 TIGR01407 dinG_rel DnaQ family 100.0 2E-28 4.4E-33 268.9 20.0 166 137-319 1-167 (850)
36 cd06137 DEDDh_RNase DEDDh 3'-5 100.0 4.8E-29 1E-33 223.2 9.8 146 139-311 1-161 (161)
37 PRK07983 exodeoxyribonuclease 100.0 5.2E-28 1.1E-32 227.3 16.7 148 138-316 2-153 (219)
38 cd06127 DEDDh DEDDh 3'-5' exon 100.0 1.5E-27 3.2E-32 205.9 16.8 157 139-311 1-159 (159)
39 COG5018 KapD Inhibitor of the 100.0 1.2E-28 2.5E-33 219.7 7.8 184 136-321 4-189 (210)
40 COG0847 DnaQ DNA polymerase II 99.9 7.9E-27 1.7E-31 220.2 18.1 165 136-316 13-181 (243)
41 cd06144 REX4_like DEDDh 3'-5' 99.9 2.5E-27 5.4E-32 210.0 11.7 149 139-311 1-152 (152)
42 cd06149 ISG20 DEDDh 3'-5' exon 99.9 2.1E-27 4.6E-32 212.0 10.9 147 139-311 1-157 (157)
43 cd06145 REX1_like DEDDh 3'-5' 99.9 6.2E-27 1.3E-31 207.5 11.8 143 139-310 1-149 (150)
44 cd06135 Orn DEDDh 3'-5' exonuc 99.9 1.6E-26 3.4E-31 209.3 14.3 161 138-315 1-170 (173)
45 PF00929 RNase_T: Exonuclease; 99.9 4.7E-28 1E-32 209.1 0.6 162 139-310 1-164 (164)
46 PRK09182 DNA polymerase III su 99.9 1.6E-25 3.5E-30 218.9 16.0 169 136-326 37-210 (294)
47 PRK05359 oligoribonuclease; Pr 99.9 2.1E-24 4.7E-29 197.2 16.9 163 136-317 3-175 (181)
48 PRK11779 sbcB exonuclease I; P 99.9 4.8E-24 1E-28 220.1 17.9 172 136-316 6-197 (476)
49 KOG2249 3'-5' exonuclease [Rep 99.4 8.3E-12 1.8E-16 119.1 12.7 156 137-316 106-265 (280)
50 cd05160 DEDDy_DNA_polB_exo DED 99.3 6.1E-11 1.3E-15 108.8 17.6 138 139-291 2-161 (199)
51 cd06143 PAN2_exo DEDDh 3'-5' e 99.2 1.9E-10 4.1E-15 104.8 12.1 154 136-310 5-173 (174)
52 cd06125 DnaQ_like_exo DnaQ-lik 99.0 4.3E-09 9.4E-14 86.7 11.3 83 139-269 1-83 (96)
53 PHA02570 dexA exonuclease; Pro 98.9 1.6E-08 3.5E-13 94.9 11.7 165 139-316 4-198 (220)
54 COG2925 SbcB Exonuclease I [DN 98.9 2.6E-08 5.6E-13 99.6 12.4 166 136-314 9-198 (475)
55 COG1949 Orn Oligoribonuclease 98.8 2.3E-08 4.9E-13 89.7 10.0 163 135-316 5-177 (184)
56 KOG3242 Oligoribonuclease (3'- 98.8 4.3E-08 9.4E-13 88.7 9.9 164 136-316 26-198 (208)
57 cd05780 DNA_polB_Kod1_like_exo 98.6 1.5E-06 3.3E-11 80.2 15.7 130 137-292 4-156 (195)
58 cd05781 DNA_polB_B3_exo DEDDy 98.5 1.8E-06 3.9E-11 79.5 14.2 120 137-291 4-144 (188)
59 KOG2248 3'-5' exonuclease [Rep 98.5 4.3E-07 9.2E-12 92.1 9.4 156 136-320 216-378 (380)
60 PF13482 RNase_H_2: RNase_H su 98.5 6.9E-07 1.5E-11 79.1 9.2 116 139-293 1-117 (164)
61 cd05782 DNA_polB_like1_exo Unc 98.4 1.2E-05 2.7E-10 75.2 16.1 114 146-292 41-170 (208)
62 cd06139 DNA_polA_I_Ecoli_like_ 98.4 1E-05 2.2E-10 72.9 13.8 145 136-319 5-172 (193)
63 KOG0304 mRNA deadenylase subun 98.2 1E-05 2.3E-10 75.8 11.0 172 137-315 25-237 (239)
64 cd05779 DNA_polB_epsilon_exo D 98.2 0.00011 2.4E-09 68.7 17.1 145 137-292 3-169 (204)
65 PF04857 CAF1: CAF1 family rib 98.2 4.5E-05 9.7E-10 73.7 14.3 172 136-312 22-262 (262)
66 cd05785 DNA_polB_like2_exo Unc 98.1 8.9E-05 1.9E-09 69.4 14.2 122 137-292 10-169 (207)
67 PRK05755 DNA polymerase I; Pro 98.1 4E-05 8.6E-10 85.8 13.1 136 136-317 315-469 (880)
68 smart00481 POLIIIAc DNA polyme 97.9 4E-06 8.7E-11 64.1 1.6 52 45-104 13-64 (67)
69 PF10108 DNA_pol_B_exo2: Predi 97.8 0.00064 1.4E-08 64.0 14.9 130 154-316 7-172 (209)
70 KOG4793 Three prime repair exo 97.7 8.8E-05 1.9E-09 71.7 6.6 173 136-317 13-291 (318)
71 cd05783 DNA_polB_B1_exo DEDDy 97.6 0.0029 6.3E-08 59.2 15.5 136 137-290 6-169 (204)
72 cd05777 DNA_polB_delta_exo DED 97.6 0.0056 1.2E-07 57.9 17.1 135 137-290 8-181 (230)
73 PRK06920 dnaE DNA polymerase I 97.5 3.8E-05 8.1E-10 87.4 1.0 54 44-105 16-69 (1107)
74 PRK07279 dnaE DNA polymerase I 97.5 4.5E-05 9.8E-10 86.0 1.6 54 44-105 15-68 (1034)
75 TIGR03491 RecB family nuclease 97.4 0.0019 4.1E-08 67.4 12.5 123 136-293 284-411 (457)
76 cd05784 DNA_polB_II_exo DEDDy 97.1 0.016 3.5E-07 53.8 14.1 122 137-289 4-150 (193)
77 PF02811 PHP: PHP domain; Int 97.1 0.00019 4.2E-09 63.1 1.0 51 45-103 14-64 (175)
78 PRK07135 dnaE DNA polymerase I 97.0 0.00021 4.5E-09 80.4 1.1 54 44-105 16-69 (973)
79 smart00486 POLBc DNA polymeras 96.9 0.077 1.7E-06 54.0 18.5 161 137-313 4-220 (471)
80 COG3359 Predicted exonuclease 96.9 0.0093 2E-07 57.4 10.8 117 136-292 98-219 (278)
81 PTZ00166 DNA polymerase delta 96.9 0.026 5.6E-07 64.7 16.0 162 137-314 265-483 (1054)
82 cd05778 DNA_polB_zeta_exo inac 96.8 0.088 1.9E-06 50.1 16.8 172 137-316 5-222 (231)
83 PRK09532 DNA polymerase III su 96.8 0.00047 1E-08 77.1 1.4 53 45-105 17-69 (874)
84 PRK05898 dnaE DNA polymerase I 96.8 0.00054 1.2E-08 76.9 1.7 54 44-105 15-68 (971)
85 PRK05672 dnaE2 error-prone DNA 96.4 0.0011 2.3E-08 75.6 1.3 54 44-105 18-71 (1046)
86 PF01612 DNA_pol_A_exo1: 3'-5' 96.4 0.11 2.4E-06 45.6 13.9 91 213-316 65-174 (176)
87 PRK07374 dnaE DNA polymerase I 96.4 0.001 2.2E-08 76.4 1.1 54 44-105 16-69 (1170)
88 COG0587 DnaE DNA polymerase II 96.3 0.0014 3.1E-08 74.7 1.5 54 44-105 17-70 (1139)
89 PRK05762 DNA polymerase II; Re 96.2 0.11 2.3E-06 58.1 15.3 147 137-313 156-348 (786)
90 PRK05673 dnaE DNA polymerase I 96.1 0.0019 4.1E-08 74.2 1.1 54 44-105 15-68 (1135)
91 PF03104 DNA_pol_B_exo1: DNA p 96.1 0.065 1.4E-06 52.2 11.5 130 137-284 158-325 (325)
92 TIGR00594 polc DNA-directed DN 96.0 0.0025 5.5E-08 72.5 1.4 53 45-105 15-67 (1022)
93 PRK06826 dnaE DNA polymerase I 95.7 0.0038 8.3E-08 71.7 1.1 53 45-105 19-71 (1151)
94 PHA02528 43 DNA polymerase; Pr 94.9 1.5 3.2E-05 49.7 18.1 166 137-312 107-323 (881)
95 COG0349 Rnd Ribonuclease D [Tr 94.3 0.7 1.5E-05 47.0 12.6 135 136-319 17-168 (361)
96 PF13017 Maelstrom: piRNA path 94.1 0.18 3.8E-06 47.6 7.5 156 155-315 7-195 (213)
97 cd05776 DNA_polB_alpha_exo ina 93.7 1.2 2.5E-05 42.4 12.3 149 137-291 4-186 (234)
98 cd06146 mut-7_like_exo DEDDy 3 93.6 0.97 2.1E-05 41.6 11.3 142 136-314 22-192 (193)
99 PRK06361 hypothetical protein; 93.6 0.045 9.8E-07 50.7 2.3 53 45-105 8-68 (212)
100 COG5228 POP2 mRNA deadenylase 92.6 0.1 2.2E-06 49.6 3.2 181 137-327 43-263 (299)
101 cd06129 RNaseD_like DEDDy 3'-5 92.5 1.7 3.7E-05 38.6 10.8 132 136-314 13-160 (161)
102 COG0417 PolB DNA polymerase el 92.4 3.1 6.8E-05 46.6 15.0 155 136-313 154-350 (792)
103 cd00007 35EXOc 3'-5' exonuclea 91.7 1.7 3.7E-05 36.7 9.6 67 211-289 40-107 (155)
104 PRK09248 putative hydrolase; V 91.5 0.13 2.9E-06 48.9 2.6 54 45-105 17-77 (246)
105 TIGR00592 pol2 DNA polymerase 91.0 7.7 0.00017 45.5 16.7 145 137-289 505-680 (1172)
106 KOG1798 DNA polymerase epsilon 91.0 2.9 6.2E-05 49.4 12.7 161 136-316 246-453 (2173)
107 cd06141 WRN_exo DEDDy 3'-5' ex 90.1 11 0.00024 33.2 13.6 132 136-314 18-169 (170)
108 PHA02524 43A DNA polymerase su 89.2 3.1 6.8E-05 44.2 10.6 142 137-286 107-281 (498)
109 TIGR01388 rnd ribonuclease D. 88.9 15 0.00033 37.4 15.1 133 136-318 18-167 (367)
110 PRK05761 DNA polymerase I; Rev 88.7 4.4 9.5E-05 45.5 12.0 97 208-310 208-334 (787)
111 PHA03036 DNA polymerase; Provi 88.5 14 0.00029 42.7 15.6 181 135-324 159-399 (1004)
112 COG0613 Predicted metal-depend 85.0 0.59 1.3E-05 45.3 2.3 50 47-104 17-67 (258)
113 PRK10829 ribonuclease D; Provi 84.7 36 0.00079 34.9 15.1 132 136-319 22-172 (373)
114 smart00474 35EXOc 3'-5' exonuc 80.2 23 0.0005 30.3 10.3 90 214-316 64-170 (172)
115 cd06148 Egl_like_exo DEDDy 3'- 79.7 21 0.00045 32.8 10.4 92 216-319 56-179 (197)
116 KOG1275 PAB-dependent poly(A) 79.5 0.78 1.7E-05 51.4 0.9 110 189-316 973-1091(1118)
117 PRK08392 hypothetical protein; 70.1 2.5 5.3E-05 39.5 1.6 56 45-105 12-71 (215)
118 COG0749 PolA DNA polymerase I 69.3 39 0.00084 36.9 10.5 91 213-316 66-179 (593)
119 TIGR00593 pola DNA polymerase 69.2 14 0.00031 42.1 7.6 97 210-318 363-478 (887)
120 cd06142 RNaseD_exo DEDDy 3'-5' 67.7 44 0.00096 29.2 9.1 94 213-319 52-162 (178)
121 PRK00912 ribonuclease P protei 64.6 4.3 9.3E-05 38.4 2.0 50 45-104 14-64 (237)
122 PRK07328 histidinol-phosphatas 56.5 6.1 0.00013 38.1 1.5 60 46-105 17-89 (269)
123 COG1387 HIS2 Histidinol phosph 54.9 8.5 0.00018 36.7 2.2 53 45-105 14-77 (237)
124 PRK07945 hypothetical protein; 54.4 11 0.00025 37.8 3.1 61 45-105 109-175 (335)
125 PHA02563 DNA polymerase; Provi 50.8 92 0.002 34.3 9.5 40 214-254 50-90 (630)
126 KOG0969 DNA polymerase delta, 50.2 8.5 0.00019 42.9 1.5 160 137-314 275-491 (1066)
127 TIGR01856 hisJ_fam histidinol 50.1 8.3 0.00018 36.9 1.3 60 46-105 14-86 (253)
128 cd06140 DNA_polA_I_Bacillus_li 49.9 1.2E+02 0.0026 26.6 8.8 108 136-291 3-112 (178)
129 PRK05588 histidinol-phosphatas 47.1 15 0.00033 35.0 2.6 59 46-105 15-75 (255)
130 PRK08609 hypothetical protein; 35.9 25 0.00055 38.0 2.4 60 46-105 348-413 (570)
131 PRK08123 histidinol-phosphatas 31.4 21 0.00046 34.5 0.9 58 48-105 20-92 (270)
132 PF11074 DUF2779: Domain of un 31.3 1.9E+02 0.0041 25.2 6.7 59 207-272 54-117 (130)
133 cd09018 DEDDy_polA_RNaseD_like 30.9 3.1E+02 0.0068 22.8 9.2 63 217-291 45-109 (150)
134 PRK06740 histidinol-phosphatas 20.2 81 0.0018 31.7 2.6 26 47-72 61-86 (331)
No 1
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=100.00 E-value=4e-58 Score=493.67 Aligned_cols=279 Identities=18% Similarity=0.184 Sum_probs=243.1
Q ss_pred CCccccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCcccccccccccCcccccchhcccCCCCCCcccccccccc
Q 016965 42 DDTIVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFYPDSQKVHHCQMNSFESQFYPFPVENRFQFAPYNM 121 (379)
Q Consensus 42 ~~~~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~~~~~k~~~~~~~g~e~~~y~~~v~d~~~~~~~~~ 121 (379)
.--++.+++++|++|++|||+|||||| |++||+||++|.+++|+|+|.|||+|++ +|+|++ ||++
T Consensus 347 ~mDai~sv~~~vk~A~kwghkaIAITD--------h~~VqafP~~y~~akK~giK~IyG~Ean----lvdD~v---piv~ 411 (1444)
T COG2176 347 QMDAITSVEELVKQAKKWGHKAIAITD--------HGVVQAFPEAYKAAKKYGIKAIYGLEAN----LVDDGV---PIVY 411 (1444)
T ss_pred hhcccCCHHHHHHHHHHcCCceEEEec--------CcchhhchHHHHhhhhcCceEEEeeeee----eccCCC---ceec
Confidence 334677999999999999999999999 8888999999999999999999999999 599999 9999
Q ss_pred CCCCCCCCCCCCCcccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCCh
Q 016965 122 LTPAHPYDFQPQEFQYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQ 201 (379)
Q Consensus 122 ~~~~~~l~~~~q~~~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~ 201 (379)
|+.+..++ +.+|||||+||||| ++..++|||||||++ ++|+++|+|+.||||.. +||.++++|||||+
T Consensus 412 N~~d~~l~-----datyVVfDiETTGL---s~~~d~iIE~aAvKi--kng~iId~f~~Fi~P~~--pl~~~~telTgITd 479 (1444)
T COG2176 412 NPDDQKLD-----DATYVVFDIETTGL---SPVYDEIIEIAAVKI--KNGRIIDKFQFFIKPGR--PLSATITELTGITD 479 (1444)
T ss_pred Cccccccc-----cccEEEEEeecCCc---Ccccchhhhheeeee--eCCcchHHHHHhcCCCC--cCchhhhhccccCH
Confidence 99999998 47999999999998 789999999999999 79999999999999996 49999999999999
Q ss_pred HHHhCCCCHHHHHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCC
Q 016965 202 IQVDRGVTLSEALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCN 280 (379)
Q Consensus 202 ~~V~~Ap~~~eVl~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~-~~~~r 280 (379)
+||.+|+++++||++|.+|+++++||||| ++||+ +||+..+++.|+. ++.+++|||+.++|.++| .++|+
T Consensus 480 eml~~a~~i~~vL~kf~~~~~d~IlVAHN------asFD~-gFl~~~~~k~~~~--~~~~pvIDTL~lar~L~P~~ksh~ 550 (1444)
T COG2176 480 EMLENAPEIEEVLEKFREFIGDSILVAHN------ASFDM-GFLNTNYEKYGLE--PLTNPVIDTLELARALNPEFKSHR 550 (1444)
T ss_pred HHHcCCccHHHHHHHHHHHhcCcEEEecc------Cccch-hHHHHHHHHhCCc--cccCchhhHHHHHHHhChhhhhcc
Confidence 99999999999999999999998766655 49997 9999999998875 378899999999999997 78999
Q ss_pred HHHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHhcCCCcccccccccccccccc--cccCCCCCCCCcccccccccc
Q 016965 281 LKEAVEMAGLAWQGRAHCGLDDAKNTARLLALLMHRGFKFSITNSLMWQTNDGSLT--WNQFPERIFLPPHQLHKQMDL 357 (379)
Q Consensus 281 L~~l~~~~gI~~~g~~HrAL~DA~aTA~Ll~~ll~~~~~~~i~~~l~~~~~~~~~~--~~~~P~~~~~~~~~~~~~~~~ 357 (379)
|+.++++||+.++ +||||.+||.+|++||..+++...+.+++.....-..+.++. -+.+|....-..+-|.-+|.+
T Consensus 551 Lg~l~kk~~v~le-~hHRA~yDaeat~~vf~~f~~~~ke~Gi~~l~eln~~l~~~~~ykr~r~~h~~i~vknq~GlKnL 628 (1444)
T COG2176 551 LGTLCKKLGVELE-RHHRADYDAEATAKVFFVFLKDLKEKGITNLSELNDKLSSEDLYKRLRPKHATIYVKNQVGLKNL 628 (1444)
T ss_pred hHHHHHHhCccHH-HhhhhhhhHHHHHHHHHHHHHHHHHhchhhHHHHhHhhhhhHHHhhccccceEEEEechHhHHHH
Confidence 9999999999995 999999999999999999999988888765544322222222 334455544445555555544
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=2.4e-43 Score=393.86 Aligned_cols=243 Identities=20% Similarity=0.248 Sum_probs=217.5
Q ss_pred ccccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCcccccccccccCcccccchhcccCCCCCCccccccccccCC
Q 016965 44 TIVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFYPDSQKVHHCQMNSFESQFYPFPVENRFQFAPYNMLT 123 (379)
Q Consensus 44 ~~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~~~~~k~~~~~~~g~e~~~y~~~v~d~~~~~~~~~~~ 123 (379)
-++.++.++|++|++|||++||||| |+++|+||+++..+++.+++++||+|.+. ++|.+ ++++|+
T Consensus 117 Dg~~~~~elv~~A~~~Gl~aiAITD--------H~~~~~~~~~~~~~~~~~ikvI~GvE~~~----~~d~~---~~v~n~ 181 (1213)
T TIGR01405 117 DAITSVQEYVKQAKKWGHKAIAITD--------HGVVQAFPEAYKAAKKDGIKIIYGMEANL----VDDRV---PIVYNP 181 (1213)
T ss_pred ccCCCHHHHHHHHHHCCCCEEEEec--------CCCccCHHHHHHHHHhcCCEEEEEEEEEe----ecccc---hhhcCc
Confidence 3455789999999999999999999 77789999999999999999999999984 78877 899999
Q ss_pred CCCCC-CCCCCCcccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChH
Q 016965 124 PAHPY-DFQPQEFQYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQI 202 (379)
Q Consensus 124 ~~~~l-~~~~q~~~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~ 202 (379)
.+.++ + ..+|||||+||||+ ++..++|||||||+++ +|+++++|+++|+|.. +|++.++++||||++
T Consensus 182 ~~~~l~~-----~~~~VVfDiETTGL---~~~~d~IIEIGAVkv~--~g~iid~f~~~V~P~~--~I~~~~~~ltGIT~e 249 (1213)
T TIGR01405 182 DDQKLLD-----DATYVVFDIETTGL---SPQYDEIIEFGAVKVK--NGRIIDKFQFFIKPHE--PLSAFVTELTGITQD 249 (1213)
T ss_pred ccccccc-----CCcEEEEEeEecCC---CCCCCeEEEEEEEEEE--CCeEEEEEEEEECCCC--CCCHHHHHHhCCCHH
Confidence 98888 5 36999999999998 6788999999999996 7899999999999996 599999999999999
Q ss_pred HHhCCCCHHHHHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCH
Q 016965 203 QVDRGVTLSEALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNL 281 (379)
Q Consensus 203 ~V~~Ap~~~eVl~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~-~~~~rL 281 (379)
||++||++.+|+++|++|+++.+ +|+||+.||+ .||+++++++|+. ++.++++||+.+++.+++ .+.++|
T Consensus 250 ~L~~ap~~~evl~~f~~fl~~~i------LVaHNa~FD~-~fL~~~~~r~g~~--~~~~~~IDTl~lar~l~p~~k~~kL 320 (1213)
T TIGR01405 250 MLENAPEIEEVLEKFKEFFKDSI------LVAHNASFDI-GFLNTNFEKVGLE--PLENPVIDTLELARALNPEYKSHRL 320 (1213)
T ss_pred HHhCCCCHHHHHHHHHHHhCCCe------EEEEChHHHH-HHHHHHHHHcCCC--ccCCCEeEHHHHHHHHhccCCCCCH
Confidence 99999999999999999999864 4556669995 9999999999874 255789999999998885 578999
Q ss_pred HHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHhcCCCccc
Q 016965 282 KEAVEMAGLAWQGRAHCGLDDAKNTARLLALLMHRGFKFSIT 323 (379)
Q Consensus 282 ~~l~~~~gI~~~g~~HrAL~DA~aTA~Ll~~ll~~~~~~~i~ 323 (379)
++++++||++.+ ++|||++||.+|++||..|+++..+.++.
T Consensus 321 ~~Lak~lgi~~~-~~HrAl~DA~aTa~I~~~ll~~l~~~~i~ 361 (1213)
T TIGR01405 321 GNICKKLGVDLD-DHHRADYDAEATAKVFKVMVEQLKEKGIT 361 (1213)
T ss_pred HHHHHHcCCCCC-CCcCHHHHHHHHHHHHHHHHHHHHHcCCc
Confidence 999999999986 69999999999999999999887666554
No 3
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=100.00 E-value=5.9e-40 Score=370.58 Aligned_cols=243 Identities=18% Similarity=0.205 Sum_probs=216.9
Q ss_pred ccccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCcccccccccccCcccccchhcccCCCCCCccccccccccCC
Q 016965 44 TIVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFYPDSQKVHHCQMNSFESQFYPFPVENRFQFAPYNMLT 123 (379)
Q Consensus 44 ~~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~~~~~k~~~~~~~g~e~~~y~~~v~d~~~~~~~~~~~ 123 (379)
-++.++.++|++|++|||+|||||| |+++|+||+++.++++.|++++||+|.+. ++|++ +++++.
T Consensus 347 Dg~~~~~elv~~A~~~G~~aIAITD--------H~~v~~~p~a~~~~k~~gikvI~GvE~~~----~~~~~---~iv~~~ 411 (1437)
T PRK00448 347 DAIPSVSELVKRAAKWGHKAIAITD--------HGVVQAFPEAYNAAKKAGIKVIYGVEANL----VDDGV---PIVYNE 411 (1437)
T ss_pred ccCCCHHHHHHHHHHCCCCEEEEec--------CCCCcCHHHHHHHHHhcCCceEeeeeEEE----eccce---eEEecC
Confidence 4566899999999999999999999 88889999999999999999999999994 78876 788888
Q ss_pred CCCCCCCCCCCcccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHH
Q 016965 124 PAHPYDFQPQEFQYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQ 203 (379)
Q Consensus 124 ~~~~l~~~~q~~~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~ 203 (379)
.+.++. ..+|||||+||||+ ++..++|||||||+++ +|.++++|+++|+|.. .++++++++||||++|
T Consensus 412 ~~~~L~-----~~~~VVfDLETTGL---~~~~deIIEIgAV~V~--~G~iie~F~~~V~P~~--~I~~~~~~LTGIT~e~ 479 (1437)
T PRK00448 412 VDRDLK-----DATYVVFDVETTGL---SAVYDEIIEIGAVKIK--NGEIIDKFEFFIKPGH--PLSAFTTELTGITDDM 479 (1437)
T ss_pred Cchhhc-----cCcEEEEEhhhcCC---CCchhhhheeeeEEEe--CCeEeeeEEEEECCCC--CCCHHHHHHhCCCHHH
Confidence 777776 36899999999998 6788999999999995 8999999999999996 5999999999999999
Q ss_pred HhCCCCHHHHHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCHH
Q 016965 204 VDRGVTLSEALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNLK 282 (379)
Q Consensus 204 V~~Ap~~~eVl~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~-~~~~rL~ 282 (379)
|.++|++.+|+++|.+|+++. ++|+|++.||+ .||+..+++.|++. +.+.++|+..+++.+++ .++++|+
T Consensus 480 L~~aps~~EaL~~f~~figg~------vLVAHNa~FD~-~fL~~~l~rlgl~~--l~~~~IDTLelar~l~p~~k~~kL~ 550 (1437)
T PRK00448 480 VKDAPSIEEVLPKFKEFCGDS------ILVAHNASFDV-GFINTNYEKLGLEK--IKNPVIDTLELSRFLYPELKSHRLN 550 (1437)
T ss_pred HcCCCCHHHHHHHHHHHhCCC------EEEEeCccccH-HHHHHHHHHcCCcc--ccccceeHHHHHHHHcCccccccHH
Confidence 999999999999999999985 45677779996 89999999998753 45678999999998886 5688999
Q ss_pred HHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHhcCCCccc
Q 016965 283 EAVEMAGLAWQGRAHCGLDDAKNTARLLALLMHRGFKFSIT 323 (379)
Q Consensus 283 ~l~~~~gI~~~g~~HrAL~DA~aTA~Ll~~ll~~~~~~~i~ 323 (379)
+++++||++.. .+|||++||++||+||.+++++..+.+++
T Consensus 551 ~LAk~lGL~~~-~~HrAl~DA~aTa~lf~~ll~~l~~~gi~ 590 (1437)
T PRK00448 551 TLAKKFGVELE-HHHRADYDAEATAYLLIKFLKDLKEKGIT 590 (1437)
T ss_pred HHHHHcCCCCC-CCcChHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 99999999986 68999999999999999999887665543
No 4
>PRK07748 sporulation inhibitor KapD; Provisional
Probab=100.00 E-value=1e-37 Score=289.80 Aligned_cols=174 Identities=30% Similarity=0.496 Sum_probs=153.2
Q ss_pred ccEEEEEEeeCCCCC-CCCC--CCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHH
Q 016965 136 QYFVVIDFEATCDKD-KNPY--PQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSE 212 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g-~~~~--~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~e 212 (379)
.+|||||+||||+++ .++. .++|||||||+++ +|+++++|++||||...+.|++++++|||||++||++||+|++
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 479999999999864 2332 5899999999996 7788999999999986556999999999999999999999999
Q ss_pred HHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC-CCCCHHHHHHHcCCC
Q 016965 213 ALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG-VRCNLKEAVEMAGLA 291 (379)
Q Consensus 213 Vl~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~-~~~rL~~l~~~~gI~ 291 (379)
|+++|.+|+++. +.+++||++||+ .||+++|+++|+++| +.+.|+|+..+++.+++. ..++|++++++|||+
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 999999999873 346889999996 899999999999876 447899999888888774 468999999999999
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHHhcC
Q 016965 292 WQGRAHCGLDDAKNTARLLALLMHRGF 318 (379)
Q Consensus 292 ~~g~~HrAL~DA~aTA~Ll~~ll~~~~ 318 (379)
..+++|||++||++||+||.+|++++.
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
>KOG0542 consensus Predicted exonuclease [Replication, recombination and repair]
Probab=100.00 E-value=2.8e-37 Score=289.55 Aligned_cols=219 Identities=37% Similarity=0.688 Sum_probs=188.0
Q ss_pred CCcccEEEEEEeeCCCCCCC-CCCCcEEEEceEEEE-cCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCH
Q 016965 133 QEFQYFVVIDFEATCDKDKN-PYPQEIIEFPSVIVS-SVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTL 210 (379)
Q Consensus 133 q~~~~fVV~D~ETTGl~g~~-~~~deIIEIGAV~vd-~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~ 210 (379)
|.+++++++|||+||.++.. ....||||+.||.++ .++++|.++|+.||+|..+|.||++|+.+|||.+++|+.||+|
T Consensus 53 q~fdYLliiDFEaTC~e~~~~~~~~EIIEfP~V~l~~~~~~~Ie~eF~qYVrP~~np~LS~fC~~lTgI~Q~tVD~a~~f 132 (280)
T KOG0542|consen 53 QPFDYLLILDFEATCEEGNKPHYVQEIIEFPAVLLDNTETSIIEDEFHQYVRPVENPRLSDFCTSLTGIQQETVDEAPTF 132 (280)
T ss_pred CccceEEEEeeeeeccccCCCCcchheeecceeEeeccchhhHHHHHHhhcCcccCchHHHHHHHhhCchHhhhccCCCH
Confidence 55779999999999998755 367999999999665 4556666699999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHhhcCCC--CccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC-CCCCHHHHHHH
Q 016965 211 SEALLRHDKWLENKGIK--NTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG-VRCNLKEAVEM 287 (379)
Q Consensus 211 ~eVl~ef~~fl~~~~Lv--~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~-~~~rL~~l~~~ 287 (379)
.+|+.+|..||....+. +.|+++|+||.+||+.||..+|++.+|..|.++++|||+++.|+..+.. .+.++..|+++
T Consensus 133 ~~vl~~f~~Wlr~~~~~~k~~~~Afvtdg~wDl~~~l~~qck~~~i~~P~~f~qwInirk~yk~~y~~~~~t~it~mLe~ 212 (280)
T KOG0542|consen 133 PQVLSEFDSWLRKDSLGDKNGKFAFVTDGDWDLWVFLQYQCKLKNIRIPAFFNQWINIRKIYKNFYNRPAPTNITGMLEH 212 (280)
T ss_pred HHHHHHHHHHHHHhhcccccCceEEEeCchhhHHHHHHHHHHHhcCCCcHHHHHHhHHHHHHHHHhcCccccCHHHHHHH
Confidence 99999999999877654 3689999999999999999999999999999999999999999999876 67899999999
Q ss_pred cCCCCCCCCCCHHHHHHHHHHHHHHHHHhcCCCcccccccccccccccccccCCCCCCCCcccc
Q 016965 288 AGLAWQGRAHCGLDDAKNTARLLALLMHRGFKFSITNSLMWQTNDGSLTWNQFPERIFLPPHQL 351 (379)
Q Consensus 288 ~gI~~~g~~HrAL~DA~aTA~Ll~~ll~~~~~~~i~~~l~~~~~~~~~~~~~~P~~~~~~~~~~ 351 (379)
+||+++|+.|+++|||.++|+|.++|+++|.++.||++-..-+.....-.+++|.-.-.+.|.+
T Consensus 213 ~gL~f~Gr~HsGiDDa~Nia~I~~kM~~dg~~~~In~~~~~~~~q~~~~~~~~~~~~~~~~~~~ 276 (280)
T KOG0542|consen 213 YGLQFEGRAHSGIDDARNIARIAQKMIRDGAEFRINELCDLWERQPLVPNRSWPSEFADAGQIF 276 (280)
T ss_pred hCCcccCCcccCchhHHHHHHHHHHHHhCCcEEEechhhhhcccCcccccccCCcccCCccccc
Confidence 9999999999999999999999999999999999996633222222223555555544444443
No 6
>PTZ00315 2'-phosphotransferase; Provisional
Probab=100.00 E-value=2e-35 Score=307.39 Aligned_cols=195 Identities=38% Similarity=0.617 Sum_probs=163.0
Q ss_pred CCcccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHH
Q 016965 133 QEFQYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSE 212 (379)
Q Consensus 133 q~~~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~e 212 (379)
|.++.||||||||||+++.....+||||||||+|+.++|+++++|++||||..++.|+++|++|||||++||++||+|.+
T Consensus 53 q~~d~~IV~DlETTgl~~~~~~~dEIIEIGaV~Vd~~ng~Ii~~F~~yVkP~~~p~Ls~fct~LTGITqe~V~~Ap~F~e 132 (582)
T PTZ00315 53 QPFDAYVVLDFEATCEADRRIEDAEVIEFPMVLVDARTATPVAEFQRYVRPVKNPVLSRFCTELTGITQSMVSRADPFPV 132 (582)
T ss_pred CCCCeEEEEEEecCCCCCCCCCCCceEEEEEEEEEccCCEEEEEEEEEECCCCCCCCChhHhhhcCcCHHHHhcCCCHHH
Confidence 44679999999999985432346899999999998779999999999999987667999999999999999999999999
Q ss_pred HHHHHHHHHhhcCCC----CccEEEEEcCcchHHHHHHHHHHHcC-CCCCCCCCceeehHHHH-HHhcC-----------
Q 016965 213 ALLRHDKWLENKGIK----NTNFAVVTWSNWDCRVMLESECRFKK-IWKPPYFNRWINLKVPF-HEVFG----------- 275 (379)
Q Consensus 213 Vl~ef~~fl~~~~Lv----~hn~iVVh~~~FDlr~fL~~~~~~~g-i~~P~~~~~~iDt~~l~-r~l~~----------- 275 (379)
|+.+|.+|+++..+. .++++|+||+.||+..||..+|+..+ ..+|..+..|+|+...+ +.+++
T Consensus 133 Vl~ef~~fL~~~~~~e~~~~~~~~vah~g~fDl~~fL~~e~~~~~~~g~p~~f~~widLk~~lar~l~p~~~~~~~~~~~ 212 (582)
T PTZ00315 133 VYCEALQFLAEAGLGDAPPLRSYCVVTCGDWDLKTMLPSQMRVSGQQGTPLSFQRWCNLKKYMSQLGFGNGSGCGGGATP 212 (582)
T ss_pred HHHHHHHHHhccccccccccCceEEEeccHHHHHHHHHHHHHHhhhcCCCcccceEEEhHHHHHHHhCcccccccccccc
Confidence 999999999986432 24688999999998679999998432 12343467899986444 44454
Q ss_pred -CCCCCHHHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHhcCCCccccccc
Q 016965 276 -GVRCNLKEAVEMAGLAWQGRAHCGLDDAKNTARLLALLMHRGFKFSITNSLM 327 (379)
Q Consensus 276 -~~~~rL~~l~~~~gI~~~g~~HrAL~DA~aTA~Ll~~ll~~~~~~~i~~~l~ 327 (379)
.++++|.++++.+||+++|++|||++||++||+||.+|+++|..+.+|..+.
T Consensus 213 ~~~~~~L~~al~~lgL~~eGr~HrAlDDA~ntA~L~~~Ll~~g~~~~~t~~~~ 265 (582)
T PTZ00315 213 PLGPSDMPDMLQMLGLPLQGRHHSGIDDCRNIAAVLCELLRRGLVIDPTFDTA 265 (582)
T ss_pred ccCCcCHHHHHHHCCCCCCCCCcCcHHHHHHHHHHHHHHHHcCCEEEecCCCC
Confidence 2457999999999999999999999999999999999999999987765443
No 7
>PRK06722 exonuclease; Provisional
Probab=100.00 E-value=7.9e-35 Score=282.20 Aligned_cols=171 Identities=26% Similarity=0.400 Sum_probs=146.2
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 215 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ 215 (379)
..||||||||||....+...++|||||||+++..+++++++|+++|||.. +|++++++|||||++||++||+|.+|+.
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 68999999999753223456899999999997333488999999999996 5999999999999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCC-CceeehHHHHHHhcCC---CCCCHHHHHHHcCCC
Q 016965 216 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYF-NRWINLKVPFHEVFGG---VRCNLKEAVEMAGLA 291 (379)
Q Consensus 216 ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~-~~~iDt~~l~r~l~~~---~~~rL~~l~~~~gI~ 291 (379)
+|.+|+++. .+||||+.||+ .||+++|++.|+..|.+. ..|+|+..+++..++. ..++|++++++|||+
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 999999874 36889999995 899999999998876442 4578998776655532 346899999999999
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHHH
Q 016965 292 WQGRAHCGLDDAKNTARLLALLMH 315 (379)
Q Consensus 292 ~~g~~HrAL~DA~aTA~Ll~~ll~ 315 (379)
..|++|||++||++||+||.+|++
T Consensus 156 ~~g~~HrAL~DA~~TA~L~l~l~~ 179 (281)
T PRK06722 156 WEGKQHRALADAENTANILLKAYS 179 (281)
T ss_pred CCCCCcCcHHHHHHHHHHHHHHhc
Confidence 877899999999999999999984
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=3.3e-33 Score=249.47 Aligned_cols=172 Identities=44% Similarity=0.785 Sum_probs=147.5
Q ss_pred EEEEEEeeCCCCCCC--CCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 016965 138 FVVIDFEATCDKDKN--PYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 215 (379)
Q Consensus 138 fVV~D~ETTGl~g~~--~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ 215 (379)
|||||+||||+.+.+ ...++|||||||+++..+++++++|+++|||.....+++.++++||||++|+.++|++++|+.
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 699999999984321 235899999999998555558899999999996446999999999999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCC-CCCCCCceeehHHHHHHhcCC-CCCCHHHHHHHcCCCCC
Q 016965 216 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIW-KPPYFNRWINLKVPFHEVFGG-VRCNLKEAVEMAGLAWQ 293 (379)
Q Consensus 216 ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~-~P~~~~~~iDt~~l~r~l~~~-~~~rL~~l~~~~gI~~~ 293 (379)
+|.+|+++.. +..+|||+.||. .+|..++.+.+.. .|+....|+|++.+++..++. +.++|++++++||++..
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 357899999996 6777777776553 355677899999999999886 47899999999999997
Q ss_pred CCCCCHHHHHHHHHHHHHHHH
Q 016965 294 GRAHCGLDDAKNTARLLALLM 314 (379)
Q Consensus 294 g~~HrAL~DA~aTA~Ll~~ll 314 (379)
+++|+|++||++||+||++|+
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=3.7e-33 Score=263.05 Aligned_cols=169 Identities=19% Similarity=0.144 Sum_probs=144.5
Q ss_pred cEEEEEEeeCCCCCCCCC-CCcEEEEceEEEEcCCCe-EEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHH
Q 016965 137 YFVVIDFEATCDKDKNPY-PQEIIEFPSVIVSSVTGQ-LEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEAL 214 (379)
Q Consensus 137 ~fVV~D~ETTGl~g~~~~-~deIIEIGAV~vd~~~g~-i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl 214 (379)
.+||||+||||+ ++. .++|||||||++. ++. ..++|+++|+|.+ .++++++++||||++||+++|+|.+|+
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 489999999998 454 4899999999986 443 4579999999996 599999999999999999999999999
Q ss_pred HHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCC--CCceeehHHHHHHhcCCCCCCHHHHHHHcCCCC
Q 016965 215 LRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPY--FNRWINLKVPFHEVFGGVRCNLKEAVEMAGLAW 292 (379)
Q Consensus 215 ~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~--~~~~iDt~~l~r~l~~~~~~rL~~l~~~~gI~~ 292 (379)
.+|.+|+++.. +|+||+.||+ .||+.++++.|...+.+ ..+|+||+.+++.+++..+++|+.++++|||+.
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 99999999865 4566779996 99999999988433322 267999999999999877889999999999997
Q ss_pred CC-CCCCHHHHHHHHHHHHHHHHHhcCC
Q 016965 293 QG-RAHCGLDDAKNTARLLALLMHRGFK 319 (379)
Q Consensus 293 ~g-~~HrAL~DA~aTA~Ll~~ll~~~~~ 319 (379)
.+ ..|+|++||++||+||.+|......
T Consensus 147 ~~r~~H~Al~DA~~~a~v~~~l~~~~~~ 174 (225)
T TIGR01406 147 SHRTLHGALLDAHLLAEVYLALTGGQES 174 (225)
T ss_pred CCCCCcCHHHHHHHHHHHHHHHHcCCcc
Confidence 54 3699999999999999999765433
No 10
>PRK05711 DNA polymerase III subunit epsilon; Provisional
Probab=100.00 E-value=2.9e-33 Score=266.25 Aligned_cols=173 Identities=18% Similarity=0.195 Sum_probs=148.6
Q ss_pred ccEEEEEEeeCCCCCCCCC-CCcEEEEceEEEEcCCCeE-EeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPY-PQEIIEFPSVIVSSVTGQL-EACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEA 213 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~-~deIIEIGAV~vd~~~g~i-~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eV 213 (379)
-.|||||+||||+ ++. .++|||||+|++. ++.+ .++|+++|+|.+ .++++++++||||++||.++|+|.+|
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 4799999999998 454 7999999999995 5555 468999999986 59999999999999999999999999
Q ss_pred HHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCC--CCceeehHHHHHHhcCCCCCCHHHHHHHcCCC
Q 016965 214 LLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPY--FNRWINLKVPFHEVFGGVRCNLKEAVEMAGLA 291 (379)
Q Consensus 214 l~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~--~~~~iDt~~l~r~l~~~~~~rL~~l~~~~gI~ 291 (379)
+++|.+|+++.. +|+||+.||+ .||++++++.|..+|.+ ...++||+.+++.+++.++++|+.++++|||+
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 999999999865 4566779996 99999999998666543 34689999999999987778999999999998
Q ss_pred CCC-CCCCHHHHHHHHHHHHHHHHHhcCCCcc
Q 016965 292 WQG-RAHCGLDDAKNTARLLALLMHRGFKFSI 322 (379)
Q Consensus 292 ~~g-~~HrAL~DA~aTA~Ll~~ll~~~~~~~i 322 (379)
..+ ..|+|+.||++||+||.+|......+.+
T Consensus 150 ~~~r~~H~AL~DA~~~A~v~~~l~~~~~~l~~ 181 (240)
T PRK05711 150 NSHRTLHGALLDAEILAEVYLAMTGGQTSLGF 181 (240)
T ss_pred CCCCCCCCHHHHHHHHHHHHHHHHCccccccc
Confidence 753 3699999999999999999866444433
No 11
>PRK09146 DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=2.8e-33 Score=266.13 Aligned_cols=174 Identities=21% Similarity=0.172 Sum_probs=148.6
Q ss_pred CCCCCCCCCCCCcccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeE--EeEEEEeecCCCCCCCCcchhhhcCCC
Q 016965 123 TPAHPYDFQPQEFQYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQL--EACFQTYVRPTCNQLLSDFCKDLTGIQ 200 (379)
Q Consensus 123 ~~~~~l~~~~q~~~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i--~d~F~~~VkP~~~~~Ls~~~~~LTGIT 200 (379)
..++|+.+ ..|||||+||||+ ++..++|||||+|+++ ++.+ .++|+++|+|.+ .++++++.+||||
T Consensus 39 ~~~~~~~~-----~~~vviD~ETTGl---~p~~d~IieIg~v~v~--~~~i~~~~~~~~li~P~~--~i~~~~~~IhGIt 106 (239)
T PRK09146 39 SPDTPLSE-----VPFVALDFETTGL---DAEQDAIVSIGLVPFT--LQRIRCRQARHWVVKPRR--PLEEESVVIHGIT 106 (239)
T ss_pred CCCCCccc-----CCEEEEEeECCCC---CCCCCcEEEEEEEEEE--CCeEeecceEEEEECCCC--CCChhhhhhcCCC
Confidence 37888873 6999999999998 6788999999999996 5655 589999999996 5999999999999
Q ss_pred hHHHhCCCCHHHHHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC----
Q 016965 201 QIQVDRGVTLSEALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG---- 276 (379)
Q Consensus 201 ~~~V~~Ap~~~eVl~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~---- 276 (379)
++||.+||++.+|+.+|.+|+++.+ +|+||++|| +.||++++++.+... +.++++||..+++.+++.
T Consensus 107 ~e~l~~ap~~~evl~~l~~~~~~~~------lVaHna~FD-~~fL~~~l~~~~~~~--~~~~~iDTl~Lar~l~~~~~~~ 177 (239)
T PRK09146 107 HSELQDAPDLERILDELLEALAGKV------VVVHYRRIE-RDFLDQALRNRIGEG--IEFPVIDTMEIEARIQRKQAGG 177 (239)
T ss_pred HHHHhCCCCHHHHHHHHHHHhCCCE------EEEECHHHH-HHHHHHHHHHhcCCC--CCCceechHHHHHHHccccccc
Confidence 9999999999999999999998854 566777999 599999998753221 235689999998887542
Q ss_pred ----------CCCCHHHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHhcC
Q 016965 277 ----------VRCNLKEAVEMAGLAWQGRAHCGLDDAKNTARLLALLMHRGF 318 (379)
Q Consensus 277 ----------~~~rL~~l~~~~gI~~~g~~HrAL~DA~aTA~Ll~~ll~~~~ 318 (379)
.+++|++++++|||+.+ ++|+|++||++||+||.+++++..
T Consensus 178 ~~~~~~~~~~~~~~L~~l~~~~gl~~~-~~H~Al~DA~ata~l~~~~~~~~~ 228 (239)
T PRK09146 178 LWNRLKGKKPESIRLADSRLRYGLPAY-SPHHALTDAIATAELLQAQIAHHF 228 (239)
T ss_pred ccchhccCCCCCCCHHHHHHHcCCCCC-CCCCcHHHHHHHHHHHHHHHHHHc
Confidence 35689999999999985 789999999999999999997754
No 12
>smart00479 EXOIII exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other exonucleases.
Probab=100.00 E-value=4.9e-32 Score=239.31 Aligned_cols=167 Identities=34% Similarity=0.439 Sum_probs=148.3
Q ss_pred cEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHH
Q 016965 137 YFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLR 216 (379)
Q Consensus 137 ~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~e 216 (379)
.||+||+||||+ ++..++|||||+|+++ ++++.++|+++|+|.. .++++++++||||+++|.+++++.+|+.+
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 489999999998 4567999999999997 5568899999999974 69999999999999999999999999999
Q ss_pred HHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCHHHHHHHcCCCCCCC
Q 016965 217 HDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAVEMAGLAWQGR 295 (379)
Q Consensus 217 f~~fl~~~~Lv~hn~iVVh~~-~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~~~~rL~~l~~~~gI~~~g~ 295 (379)
|.+|+++. .+|+||+ .||+ .||+..+.+.|+..|. ..+|+|+..+++..++...++|++++++||++..++
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 99999874 4677887 9996 8999999999987763 356999999998888766889999999999998765
Q ss_pred CCCHHHHHHHHHHHHHHHHHhcC
Q 016965 296 AHCGLDDAKNTARLLALLMHRGF 318 (379)
Q Consensus 296 ~HrAL~DA~aTA~Ll~~ll~~~~ 318 (379)
+|+|++||++|++||.++++++.
T Consensus 146 ~H~A~~Da~~t~~l~~~~~~~~~ 168 (169)
T smart00479 146 AHRALDDARATAKLFKKLVERLL 168 (169)
T ss_pred CcCcHHHHHHHHHHHHHHHHHhh
Confidence 69999999999999999987653
No 13
>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=1.6e-32 Score=244.63 Aligned_cols=162 Identities=21% Similarity=0.219 Sum_probs=140.7
Q ss_pred EEEEEEeeCCCCCCCC-CCCcEEEEceEEEEcCCCeE-EeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 016965 138 FVVIDFEATCDKDKNP-YPQEIIEFPSVIVSSVTGQL-EACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 215 (379)
Q Consensus 138 fVV~D~ETTGl~g~~~-~~deIIEIGAV~vd~~~g~i-~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ 215 (379)
||+||+||||+ ++ ..++|||||||+++ ++.+ .++|+.+|+|.. .++++++++||||++|++++|++.+|+.
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 69999999998 45 56899999999996 4554 469999999996 4999999999999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCC-CCCceeehHHHHHHhcCCCCCCHHHHHHHcCCCCCC
Q 016965 216 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPP-YFNRWINLKVPFHEVFGGVRCNLKEAVEMAGLAWQG 294 (379)
Q Consensus 216 ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~-~~~~~iDt~~l~r~l~~~~~~rL~~l~~~~gI~~~g 294 (379)
+|.+|+++.. +|+||++||+ .||++++++.|+..+. ....|+|+..+++.+++..+++|++++++||++..+
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 9999998853 5677789995 8999999998775432 346799999999988876778999999999999754
Q ss_pred -CCCCHHHHHHHHHHHHHHH
Q 016965 295 -RAHCGLDDAKNTARLLALL 313 (379)
Q Consensus 295 -~~HrAL~DA~aTA~Ll~~l 313 (379)
++|+|++||++||+||.+|
T Consensus 147 ~~~H~Al~Da~~~a~l~~~l 166 (167)
T cd06131 147 RTLHGALLDAELLAEVYLEL 166 (167)
T ss_pred CCCCChHHHHHHHHHHHHHh
Confidence 4799999999999999876
No 14
>PRK06195 DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=2.5e-32 Score=268.36 Aligned_cols=165 Identities=16% Similarity=0.224 Sum_probs=146.5
Q ss_pred cEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHH
Q 016965 137 YFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLR 216 (379)
Q Consensus 137 ~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~e 216 (379)
.|||||+||||. ..++|||||||+++ +|+++++|+++|||.. ..++++++.|||||++||+++|+|.+|+++
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 699999999965 56899999999995 8899999999999984 347889999999999999999999999999
Q ss_pred HHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHcCCCCCCC
Q 016965 217 HDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMAGLAWQGR 295 (379)
Q Consensus 217 f~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~-~~~~rL~~l~~~~gI~~~g~ 295 (379)
|.+|+++. .+|+||++||+ .||+++++++++.+| .++|+||..+++++++ .++++|.+++++||++. +
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 99999875 46777789995 899999999998775 3579999999999887 46789999999999985 5
Q ss_pred CCCHHHHHHHHHHHHHHHHHhcCCC
Q 016965 296 AHCGLDDAKNTARLLALLMHRGFKF 320 (379)
Q Consensus 296 ~HrAL~DA~aTA~Ll~~ll~~~~~~ 320 (379)
+|+|++||++||+||.+|+++....
T Consensus 143 ~H~Al~DA~ata~l~~~l~~~~~~~ 167 (309)
T PRK06195 143 HHDALADAMACSNILLNISKELNSK 167 (309)
T ss_pred ccCCHHHHHHHHHHHHHHHHHhccC
Confidence 8999999999999999999875443
No 15
>PRK08517 DNA polymerase III subunit epsilon; Provisional
Probab=100.00 E-value=4.5e-32 Score=260.43 Aligned_cols=175 Identities=20% Similarity=0.257 Sum_probs=153.9
Q ss_pred cCCCCCCCCCCCCCcccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCC
Q 016965 121 MLTPAHPYDFQPQEFQYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQ 200 (379)
Q Consensus 121 ~~~~~~~l~~~~q~~~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT 200 (379)
.....+|+. ...|||||+||||+ ++..++|||||||+++ +|+++++|+++|+|. .+++.++++||||
T Consensus 58 l~~~~~~~~-----~~~~vv~DiETTG~---~~~~~~IIEIGAv~v~--~g~i~~~f~~~v~p~---~ip~~~~~itGIt 124 (257)
T PRK08517 58 LKTRFTPIK-----DQVFCFVDIETNGS---KPKKHQIIEIGAVKVK--NGEIIDRFESFVKAK---EVPEYITELTGIT 124 (257)
T ss_pred eccCCCCCC-----CCCEEEEEEeCCCC---CCCCCeEEEEEEEEEE--CCEEEEEEEEEECCC---CCChhhhhhcCcC
Confidence 445666766 35999999999988 5677899999999996 789999999999996 4899999999999
Q ss_pred hHHHhCCCCHHHHHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCC
Q 016965 201 QIQVDRGVTLSEALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCN 280 (379)
Q Consensus 201 ~~~V~~Ap~~~eVl~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~~~~r 280 (379)
++||++||++.+|+.+|.+|+++.+ +|+||++||. .||++++++.|... +.++++|+..+++++++..+++
T Consensus 125 ~e~l~~ap~~~evl~~f~~fl~~~v------~VaHNa~FD~-~fL~~~l~r~g~~~--~~~~~ldtl~la~~~~~~~~~~ 195 (257)
T PRK08517 125 YEDLENAPSLKEVLEEFRLFLGDSV------FVAHNVNFDY-NFISRSLEEIGLGP--LLNRKLCTIDLAKRTIESPRYG 195 (257)
T ss_pred HHHHcCCCCHHHHHHHHHHHHCCCe------EEEECHHHHH-HHHHHHHHHcCCCC--CCCCcEehHHHHHHHccCCCCC
Confidence 9999999999999999999998854 5667779995 99999999998753 5678899999999888777889
Q ss_pred HHHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHhcC
Q 016965 281 LKEAVEMAGLAWQGRAHCGLDDAKNTARLLALLMHRGF 318 (379)
Q Consensus 281 L~~l~~~~gI~~~g~~HrAL~DA~aTA~Ll~~ll~~~~ 318 (379)
|+++++++|++.+ ++|||++||++||+||..++.+..
T Consensus 196 L~~L~~~lgi~~~-~~HrAl~DA~ata~ll~~ll~~~~ 232 (257)
T PRK08517 196 LSFLKELLGIEIE-VHHRAYADALAAYEIFKICLLNLP 232 (257)
T ss_pred HHHHHHHcCcCCC-CCCChHHHHHHHHHHHHHHHHHhH
Confidence 9999999999986 789999999999999999997653
No 16
>PRK06807 DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=1.3e-31 Score=263.74 Aligned_cols=164 Identities=26% Similarity=0.328 Sum_probs=148.7
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 215 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ 215 (379)
.+|||||+||||+ ++..++|||||||+++ +|+++++|+++|+|.. .++++++++||||++||.++|+|.+|++
T Consensus 8 ~~~Vv~DlETTGl---~p~~~eIIEIgaV~v~--~g~i~~~f~~lVkP~~--~I~~~a~~ihGIT~e~l~~~~~~~evl~ 80 (313)
T PRK06807 8 LDYVVIDFETTGF---NPYNDKIIQVAAVKYR--NHELVDQFVSYVNPER--PIPDRITSLTGITNYRVSDAPTIEEVLP 80 (313)
T ss_pred CCEEEEEEECCCC---CCCCCeEEEEEEEEEE--CCEEEEEEEEEECcCC--CCCHhhhccCCCCHHHHhCCCCHHHHHH
Confidence 5899999999998 5678999999999996 7899999999999996 5999999999999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHcCCCCCC
Q 016965 216 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMAGLAWQG 294 (379)
Q Consensus 216 ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~-~~~~rL~~l~~~~gI~~~g 294 (379)
+|++|+++. .+|+||++||+ .||.+++.+.|+..| .++++|+..+++.+++ .+.++|++++++||++.
T Consensus 81 ~f~~fl~~~------~lVaHNa~FD~-~fL~~~~~~~gl~~~--~~~~iDtl~la~~~~~~~~~~kL~~L~~~lgi~~-- 149 (313)
T PRK06807 81 LFLAFLHTN------VIVAHNASFDM-RFLKSNVNMLGLPEP--KNKVIDTVFLAKKYMKHAPNHKLETLKRMLGIRL-- 149 (313)
T ss_pred HHHHHHcCC------eEEEEcHHHHH-HHHHHHHHHcCCCCC--CCCEeeHHHHHHHHhCCCCCCCHHHHHHHcCCCC--
Confidence 999999875 46778889996 899999999998765 3569999999998886 46789999999999997
Q ss_pred CCCCHHHHHHHHHHHHHHHHHhc
Q 016965 295 RAHCGLDDAKNTARLLALLMHRG 317 (379)
Q Consensus 295 ~~HrAL~DA~aTA~Ll~~ll~~~ 317 (379)
++|||++||++|++||.++....
T Consensus 150 ~~H~Al~DA~~ta~l~~~l~~~~ 172 (313)
T PRK06807 150 SSHNAFDDCITCAAVYQKCASIE 172 (313)
T ss_pred CCcChHHHHHHHHHHHHHHHHhh
Confidence 68999999999999999998764
No 17
>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=1.1e-31 Score=235.45 Aligned_cols=154 Identities=23% Similarity=0.286 Sum_probs=138.7
Q ss_pred EEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHH
Q 016965 138 FVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRH 217 (379)
Q Consensus 138 fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ef 217 (379)
||+||+||||. ..++|||||||+++ +|+++++|+++|+|.. +++++++++||||+++|.+++++.+|+.+|
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 69999999975 36899999999996 7899999999999996 599999999999999999999999999999
Q ss_pred HHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHcCCCCCCCC
Q 016965 218 DKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMAGLAWQGRA 296 (379)
Q Consensus 218 ~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~-~~~~rL~~l~~~~gI~~~g~~ 296 (379)
.+|+++. .+|+|+++||+ .||++.+++.|+..| ..+++|+..+++.+++ .++++|.+++++||++.. +
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 9999884 45667779995 999999999998765 4579999999998887 467899999999999985 8
Q ss_pred CCHHHHHHHHHHHHH
Q 016965 297 HCGLDDAKNTARLLA 311 (379)
Q Consensus 297 HrAL~DA~aTA~Ll~ 311 (379)
|+|++||++||+||.
T Consensus 141 H~Al~Da~~ta~l~~ 155 (156)
T cd06130 141 HDALEDARACAEILL 155 (156)
T ss_pred cCchHHHHHHHHHHh
Confidence 999999999999985
No 18
>PRK07740 hypothetical protein; Provisional
Probab=99.98 E-value=1.1e-31 Score=255.79 Aligned_cols=177 Identities=25% Similarity=0.281 Sum_probs=150.0
Q ss_pred CCCCCCCCCCCcccEEEEEEeeCCCCCCCCCC-CcEEEEceEEEEcCCCeE-EeEEEEeecCCCCCCCCcchhhhcCCCh
Q 016965 124 PAHPYDFQPQEFQYFVVIDFEATCDKDKNPYP-QEIIEFPSVIVSSVTGQL-EACFQTYVRPTCNQLLSDFCKDLTGIQQ 201 (379)
Q Consensus 124 ~~~~l~~~~q~~~~fVV~D~ETTGl~g~~~~~-deIIEIGAV~vd~~~g~i-~d~F~~~VkP~~~~~Ls~~~~~LTGIT~ 201 (379)
-+.|+. ..+|||||+||||+ ++.. ++|||||||+++ ++.+ .++|+++|+|.. .++++++++||||+
T Consensus 52 ~~~~~~-----~~~~vv~D~ETTGl---~p~~~deIIeIgaV~~~--~~~i~~~~f~~lv~P~~--~i~~~~~~ltGIt~ 119 (244)
T PRK07740 52 LDIPLT-----DLPFVVFDLETTGF---SPQQGDEILSIGAVKTK--GGEVETDTFYSLVKPKR--PIPEHILELTGITA 119 (244)
T ss_pred cCCCcc-----CCCEEEEEEeCCCC---CCCCCCeEEEEEEEEEE--CCEEEEEEEEEEeCcCC--CCChhheeccCCCH
Confidence 345665 24899999999998 4554 899999999996 6776 899999999996 59999999999999
Q ss_pred HHHhCCCCHHHHHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC-CCCC
Q 016965 202 IQVDRGVTLSEALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG-VRCN 280 (379)
Q Consensus 202 ~~V~~Ap~~~eVl~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~-~~~r 280 (379)
++|++||++.+|+.+|.+|+++.+ +|+||+.||. .||+.++.+... .| +..+++|+..+++.+++. +.++
T Consensus 120 e~l~~ap~~~evl~~f~~fi~~~~------lVahna~fD~-~fL~~~~~~~~~-~~-~~~~~iDt~~l~r~l~~~~~~~s 190 (244)
T PRK07740 120 EDVAFAPPLAEVLHRFYAFIGAGV------LVAHHAGHDK-AFLRHALWRTYR-QP-FTHRLIDTMFLTKLLAHERDFPT 190 (244)
T ss_pred HHHhCCCCHHHHHHHHHHHhCCCE------EEEeCHHHHH-HHHHHHHHHhcC-CC-cCCCeechHHHHHHHcCCCCCCC
Confidence 999999999999999999998854 5667779995 899999876532 22 457899999999888764 5789
Q ss_pred HHHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHhcCCCcc
Q 016965 281 LKEAVEMAGLAWQGRAHCGLDDAKNTARLLALLMHRGFKFSI 322 (379)
Q Consensus 281 L~~l~~~~gI~~~g~~HrAL~DA~aTA~Ll~~ll~~~~~~~i 322 (379)
|++++++||++.. .+|+|++||++||+||.+++.+..+.++
T Consensus 191 L~~l~~~~gi~~~-~~H~Al~Da~ata~l~~~ll~~~~~~~~ 231 (244)
T PRK07740 191 LDDALAYYGIPIP-RRHHALGDALMTAKLWAILLVEAQQRGI 231 (244)
T ss_pred HHHHHHHCCcCCC-CCCCcHHHHHHHHHHHHHHHHHHHHcCC
Confidence 9999999999987 4699999999999999999988665543
No 19
>PRK06063 DNA polymerase III subunit epsilon; Provisional
Probab=99.98 E-value=8.5e-32 Score=265.18 Aligned_cols=169 Identities=17% Similarity=0.163 Sum_probs=147.9
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 215 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ 215 (379)
..|||||+||||+ ++..++|||||+|+++ .+|+++++|+++|||.. ++..+.+||||++||.++|+|.++++
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 4899999999998 6778999999999997 47899999999999984 24568999999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHcCCCCCC
Q 016965 216 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMAGLAWQG 294 (379)
Q Consensus 216 ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~-~~~~rL~~l~~~~gI~~~g 294 (379)
+|.+|+++.+ +|+||+.||+ .||++++++.|+..| .+.++||+.+++.+.+ ..+++|++++++||++..
T Consensus 87 ~l~~~l~~~~------lVaHNa~FD~-~fL~~~~~r~g~~~~--~~~~ldTl~lar~~~~~~~~~kL~~l~~~~gi~~~- 156 (313)
T PRK06063 87 EVAELLRGRT------LVAHNVAFDY-SFLAAEAERAGAELP--VDQVMCTVELARRLGLGLPNLRLETLAAHWGVPQQ- 156 (313)
T ss_pred HHHHHcCCCE------EEEeCHHHHH-HHHHHHHHHcCCCCC--CCCEEehHHHHHHhccCCCCCCHHHHHHHcCCCCC-
Confidence 9999998854 5666679995 899999999998776 3468999999988764 578899999999999975
Q ss_pred CCCCHHHHHHHHHHHHHHHHHhcCCCcc
Q 016965 295 RAHCGLDDAKNTARLLALLMHRGFKFSI 322 (379)
Q Consensus 295 ~~HrAL~DA~aTA~Ll~~ll~~~~~~~i 322 (379)
++|+|++||++||+||..++++..+.++
T Consensus 157 ~~H~Al~DA~ata~l~~~ll~~~~~~~~ 184 (313)
T PRK06063 157 RPHDALDDARVLAGILRPSLERARERDV 184 (313)
T ss_pred CCCCcHHHHHHHHHHHHHHHHHHHhcCC
Confidence 7899999999999999999988655443
No 20
>PRK05168 ribonuclease T; Provisional
Probab=99.98 E-value=1.4e-31 Score=249.75 Aligned_cols=188 Identities=20% Similarity=0.193 Sum_probs=149.4
Q ss_pred CCCCCCCCCCCCCcccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcC-CCeE--EeEEEEeecCCCCCCCCcchhhhcC
Q 016965 122 LTPAHPYDFQPQEFQYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSV-TGQL--EACFQTYVRPTCNQLLSDFCKDLTG 198 (379)
Q Consensus 122 ~~~~~~l~~~~q~~~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~-~g~i--~d~F~~~VkP~~~~~Ls~~~~~LTG 198 (379)
|.-..+++ +.++||||+||||+ ++..++|||||||++... +|.+ .++|+++|+|.....++++++++||
T Consensus 8 ~~~~~~~~-----~~~~vv~D~ETTGl---~~~~d~IieIgaV~v~~d~~g~i~~~~~f~~lv~P~~~~~i~~~~~~ihG 79 (211)
T PRK05168 8 NPLKDRFR-----GFLPVVIDVETAGF---NAKTDALLEIAAVTLKMDEQGWLYPDETLHFHVEPFEGANLEPEALAFNG 79 (211)
T ss_pred chHHHHhc-----CCceEEEEeeCCCC---CCCCCEEEEEeEEEEEecCCCcEeccceEEEEECCCCCCCCCHHHHhhcC
Confidence 33445555 35999999999998 667899999999999532 4654 5899999999421259999999999
Q ss_pred CChHH-HhCCCCHHHHHHHHHHHHhhcCC---CCccEEEEEcCcchHHHHHHHHHHHcCCCCCCC-CCceeehHHHHHHh
Q 016965 199 IQQIQ-VDRGVTLSEALLRHDKWLENKGI---KNTNFAVVTWSNWDCRVMLESECRFKKIWKPPY-FNRWINLKVPFHEV 273 (379)
Q Consensus 199 IT~~~-V~~Ap~~~eVl~ef~~fl~~~~L---v~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~-~~~~iDt~~l~r~l 273 (379)
||+++ +++++++.+++.+|.+|+++... .+..++|+|+++||+ .||++++++.|+..+++ ..+++||..+++.+
T Consensus 80 It~e~~~~~~~~~~~~l~~~~~~l~~~~~~~~~~~~~lVaHNa~FD~-~fL~~~~~r~~~~~~~~~~~~~iDt~~lar~~ 158 (211)
T PRK05168 80 IDPDNPLRGAVSEKEALHEIFKMVRKGIKASGCNRAILVAHNAHFDL-SFLMAAAERAGLKRNPFHPFSTFDTATLSGLA 158 (211)
T ss_pred CCchhhhhcCCChHHHHHHHHHHHHHHHHhcccCCceEEEeccHHhH-HHHHHHHHHhCCCCCCCCCCcEeeHHHHHHHH
Confidence 99886 88999999999999999874210 112356777789996 89999999998753222 23689999999988
Q ss_pred cCCCCCCHHHHHHHcCCCCCC-CCCCHHHHHHHHHHHHHHHHHhcCCC
Q 016965 274 FGGVRCNLKEAVEMAGLAWQG-RAHCGLDDAKNTARLLALLMHRGFKF 320 (379)
Q Consensus 274 ~~~~~~rL~~l~~~~gI~~~g-~~HrAL~DA~aTA~Ll~~ll~~~~~~ 320 (379)
++. .+|++++++||++..+ ++|+|++||++||+||.+|+++..+.
T Consensus 159 ~~~--~~L~~l~~~~gl~~~~~~~H~Al~DA~ata~l~~~l~~~~~~~ 204 (211)
T PRK05168 159 LGQ--TVLAKACQAAGIEFDNKEAHSALYDTEKTAELFCEIVNRWKRL 204 (211)
T ss_pred cCC--CCHHHHHHHCCCCCCCCCCCChHHHHHHHHHHHHHHHHHHHHc
Confidence 764 4899999999999642 58999999999999999999876543
No 21
>PRK07942 DNA polymerase III subunit epsilon; Provisional
Probab=99.98 E-value=3.1e-31 Score=250.86 Aligned_cols=174 Identities=20% Similarity=0.129 Sum_probs=146.8
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhC-CCCHHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDR-GVTLSEAL 214 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~-Ap~~~eVl 214 (379)
.+|||||+||||+ ++..++|||||+|+++ .+|+++++|+++|+|.. .|+++++++||||++|+.+ ++++.+|+
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 5899999999998 6778999999999997 45888899999999996 5999999999999999975 89999999
Q ss_pred HHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC--CCCCHHHHHHHcCCCC
Q 016965 215 LRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG--VRCNLKEAVEMAGLAW 292 (379)
Q Consensus 215 ~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~--~~~rL~~l~~~~gI~~ 292 (379)
.+|.+++.+.. .+...+|+||++||+ .||+++++++|+..+ ...+++|+..+.+.+.+. .+++|++++++||++.
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 112456788889995 999999999987542 235689998888766542 3679999999999998
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHhcCC
Q 016965 293 QGRAHCGLDDAKNTARLLALLMHRGFK 319 (379)
Q Consensus 293 ~g~~HrAL~DA~aTA~Ll~~ll~~~~~ 319 (379)
+ ++|+|++||++|++||.+|+++..+
T Consensus 157 ~-~aH~Al~Da~ata~l~~~l~~~~~~ 182 (232)
T PRK07942 157 D-NAHEATADALAAARVAWALARRFPE 182 (232)
T ss_pred C-CCCChHHHHHHHHHHHHHHHHHHHH
Confidence 6 6899999999999999999876553
No 22
>PRK06310 DNA polymerase III subunit epsilon; Validated
Probab=99.98 E-value=2.7e-31 Score=253.96 Aligned_cols=168 Identities=14% Similarity=0.139 Sum_probs=147.7
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 215 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ 215 (379)
..||+||+||||+ ++..++|||||+|+++ .+++.++|+++|+|.. .|++.+..+||||++||+++|++.+|++
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 5899999999998 6778999999999996 5678899999999996 4999999999999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCHHHHHHHcCCCCCCC
Q 016965 216 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAVEMAGLAWQGR 295 (379)
Q Consensus 216 ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~~~~rL~~l~~~~gI~~~g~ 295 (379)
+|.+|+++. .++|+|++.||+ .||..++.+.|++++.....+|||+.+++.+.+..+++|..++++||++.. .
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 999999863 245666779995 999999999998876444689999999886433456899999999999986 6
Q ss_pred CCCHHHHHHHHHHHHHHHHHhc
Q 016965 296 AHCGLDDAKNTARLLALLMHRG 317 (379)
Q Consensus 296 ~HrAL~DA~aTA~Ll~~ll~~~ 317 (379)
+|||++||++|++||..|+++.
T Consensus 153 aH~Al~Da~at~~vl~~l~~~~ 174 (250)
T PRK06310 153 NHRAMKDVEINIKVFKHLCKRF 174 (250)
T ss_pred CcChHHHHHHHHHHHHHHHHhc
Confidence 8999999999999999998764
No 23
>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=5.3e-31 Score=246.58 Aligned_cols=171 Identities=18% Similarity=0.137 Sum_probs=143.8
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 215 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ 215 (379)
.+|||||+||||+ ++..+ |||||||++. .++.+.++|+++|+|.. .+++.+..+||||++||.++|++.+|++
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 5899999999998 56667 9999999975 34566799999999996 5999999999999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC---CCCCCHHHHHHHcCCCC
Q 016965 216 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG---GVRCNLKEAVEMAGLAW 292 (379)
Q Consensus 216 ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~---~~~~rL~~l~~~~gI~~ 292 (379)
+|.+|+++.+ +|+||+.||+ .||++++++.+...| ...+++|++.+++.+++ .++++|.+++++||++.
T Consensus 80 ~~~~~~~~~~------lVaHNa~FD~-~fL~~~~~r~~~~~~-~~~~~~dtl~l~~~~~~~~~~~~~~L~~l~~~~gl~~ 151 (217)
T TIGR00573 80 DFADYIRGAE------LVIHNASFDV-GFLNYEFSKLYKVEP-KTNDVIDTTDTLQYARPEFPGKRNTLDALCKRYEITN 151 (217)
T ss_pred HHHHHhCCCE------EEEeccHHHH-HHHHHHHHHhcCCCC-CccceecHHHHHHHHHHhCCCCCCCHHHHHHHcCCCC
Confidence 9999998754 5667779995 899999998764332 34578999887776654 24679999999999986
Q ss_pred CC-CCCCHHHHHHHHHHHHHHHHHhcCCCc
Q 016965 293 QG-RAHCGLDDAKNTARLLALLMHRGFKFS 321 (379)
Q Consensus 293 ~g-~~HrAL~DA~aTA~Ll~~ll~~~~~~~ 321 (379)
.. ..|+|++||++|++||.+|+.+..+..
T Consensus 152 ~~~~~H~Al~DA~~ta~l~~~l~~~~~~~~ 181 (217)
T TIGR00573 152 SHRALHGALADAFILAKLYLVMTGKQTKYG 181 (217)
T ss_pred CCcccCCHHHHHHHHHHHHHHHHhcchhhc
Confidence 42 579999999999999999998765544
No 24
>PRK09145 DNA polymerase III subunit epsilon; Validated
Probab=99.97 E-value=5.3e-31 Score=243.57 Aligned_cols=163 Identities=21% Similarity=0.254 Sum_probs=137.1
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEE--eEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLE--ACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEA 213 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~--d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eV 213 (379)
..|||||+||||+ ++..++|||||||+++ ++.+. ++|+++|+|.. .++++++++||||++||++||++.+|
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 5899999999998 5678999999999997 45543 78999999995 59999999999999999999999999
Q ss_pred HHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHH-cCCCCCCCCCceeehHHHHHHh----cC--CCCCCHHHHHH
Q 016965 214 LLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRF-KKIWKPPYFNRWINLKVPFHEV----FG--GVRCNLKEAVE 286 (379)
Q Consensus 214 l~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~-~gi~~P~~~~~~iDt~~l~r~l----~~--~~~~rL~~l~~ 286 (379)
+.+|.+|+++.+ +|+|++.||+ .||++++++ .|..+| .+++|+..++... ++ .++++|+++++
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 999999998854 4556669995 999999987 455543 5689998766432 12 23579999999
Q ss_pred HcCCCCCCCCCCHHHHHHHHHHHHHHHHHh
Q 016965 287 MAGLAWQGRAHCGLDDAKNTARLLALLMHR 316 (379)
Q Consensus 287 ~~gI~~~g~~HrAL~DA~aTA~Ll~~ll~~ 316 (379)
+||++.. .+|+|++||++||+||.+|++.
T Consensus 172 ~~gi~~~-~~H~Al~DA~ata~l~~~l~~~ 200 (202)
T PRK09145 172 HLDLPVL-GRHDALNDAIMAALIFLRLRKG 200 (202)
T ss_pred HcCCCCC-CCCCcHHHHHHHHHHHHHHHhc
Confidence 9999986 5799999999999999998753
No 25
>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=4.5e-31 Score=239.81 Aligned_cols=161 Identities=17% Similarity=0.103 Sum_probs=131.8
Q ss_pred EEEEEEeeCCCCCCC-CCCCcEEEEceEEEEcCC---C--------eEEeEEEEeecCCCCCCCCcchhhhcCCChHHHh
Q 016965 138 FVVIDFEATCDKDKN-PYPQEIIEFPSVIVSSVT---G--------QLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVD 205 (379)
Q Consensus 138 fVV~D~ETTGl~g~~-~~~deIIEIGAV~vd~~~---g--------~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~ 205 (379)
|||||+||||+ + +..++|||||||+++... + +++++|+++|||.+ .|++.++.+||||++|+.
T Consensus 1 ~vv~D~ETTGl---~~~~~d~Iiei~av~v~~~~~~~~~~~~~~~~~~~~~~~~lv~P~~--~I~~~a~~IhGIt~e~l~ 75 (177)
T cd06136 1 FVFLDLETTGL---PKHNRPEITELCLVAVHRDHLLNTSRDKPALPRVLDKLSLCFNPGR--AISPGASEITGLSNDLLE 75 (177)
T ss_pred CeEEeeecCCC---CCCCCCceEEEEEEEEecccccccccccccccceeeeeeEEeCCCC--cCChhHHHHhCcCHHHHh
Confidence 79999999998 5 478999999999996211 1 36789999999996 599999999999999999
Q ss_pred CCCCHHH-HHHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCHHH
Q 016965 206 RGVTLSE-ALLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNLKE 283 (379)
Q Consensus 206 ~Ap~~~e-Vl~ef~~fl~~~~Lv~hn~iVVh~~-~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~~~~rL~~ 283 (379)
++|++++ +.+.+.+|++... +..++|+||+ +||+ .||++++++.|+.+| ..+.++|++.+++.+.+ +|++
T Consensus 76 ~~~~~~~~~~~~l~~f~~~~~--~~~~lVaHNa~~FD~-~fL~~~~~r~~~~~~-~~~~~iDtl~l~r~~~~----~L~~ 147 (177)
T cd06136 76 HKAPFDSDTANLIKLFLRRQP--KPICLVAHNGNRFDF-PILRSELERLGTKLP-DDILCVDSLPAFRELDQ----SLGS 147 (177)
T ss_pred cCCCccHHHHHHHHHHHHhcC--CCCEEEEcCCcccCH-HHHHHHHHHcCCCCC-CCCEEEEeHHHHhhhHh----hHHH
Confidence 9998774 5555666665320 1124677787 8996 899999999998876 45678999999988765 8999
Q ss_pred HHHH-cCCCCCCCCCCHHHHHHHHHHHHHH
Q 016965 284 AVEM-AGLAWQGRAHCGLDDAKNTARLLAL 312 (379)
Q Consensus 284 l~~~-~gI~~~g~~HrAL~DA~aTA~Ll~~ 312 (379)
++++ ||++.. ++|||++||.+|+++|.+
T Consensus 148 l~~~~~~~~~~-~~H~A~~Da~at~~v~~~ 176 (177)
T cd06136 148 LYKRLFGQEPK-NSHTAEGDVLALLKCALH 176 (177)
T ss_pred HHHHHhCCCcc-cccchHHHHHHHHHHHhh
Confidence 9985 999985 789999999999999864
No 26
>PRK07247 DNA polymerase III subunit epsilon; Validated
Probab=99.97 E-value=9.7e-31 Score=241.84 Aligned_cols=162 Identities=19% Similarity=0.251 Sum_probs=132.4
Q ss_pred cccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHH
Q 016965 135 FQYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEAL 214 (379)
Q Consensus 135 ~~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl 214 (379)
..+|||||+||||++ ..++|||||||+++ +|+++++|+++|+|.. +++++++++||||++||++||++.+|+
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 358999999999983 36899999999996 7888899999999996 599999999999999999999999999
Q ss_pred HHHHHHHhhcCCCCccEEEEEcCc-chHHHHHHHHHHHcCCCCCCCCCceeehHHHH--HHh--c-CCCCCCHHHHHHHc
Q 016965 215 LRHDKWLENKGIKNTNFAVVTWSN-WDCRVMLESECRFKKIWKPPYFNRWINLKVPF--HEV--F-GGVRCNLKEAVEMA 288 (379)
Q Consensus 215 ~ef~~fl~~~~Lv~hn~iVVh~~~-FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~--r~l--~-~~~~~rL~~l~~~~ 288 (379)
++|.+|+++.++ |+|++. ||+ .||+. .|+..+ ...++|+.... ++. + +.++++|.+++++|
T Consensus 76 ~~f~~f~~~~~l------VaHNa~~fD~-~fL~~----~g~~~~--~~~~idt~~~~~~~~~~~~~~~~~~~L~~La~~~ 142 (195)
T PRK07247 76 AAFKEFVGELPL------IGYNAQKSDL-PILAE----NGLDLS--DQYQVDLYDEAFERRSSDLNGIANLKLQTVADFL 142 (195)
T ss_pred HHHHHHHCCCeE------EEEeCcHhHH-HHHHH----cCCCcC--CCceeehHHHHHHhhccccCCCCCCCHHHHHHhc
Confidence 999999998654 455556 896 89863 465532 22457775332 222 2 34679999999999
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHHhcCC
Q 016965 289 GLAWQGRAHCGLDDAKNTARLLALLMHRGFK 319 (379)
Q Consensus 289 gI~~~g~~HrAL~DA~aTA~Ll~~ll~~~~~ 319 (379)
|++. .+|||++||++||+||.++++.+..
T Consensus 143 gi~~--~~HrAl~DA~~ta~v~~~ll~~~~~ 171 (195)
T PRK07247 143 GIKG--RGHNSLEDARMTARVYESFLESDQN 171 (195)
T ss_pred CCCC--CCcCCHHHHHHHHHHHHHHHhhccc
Confidence 9985 4799999999999999999987644
No 27
>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=1e-30 Score=239.99 Aligned_cols=174 Identities=22% Similarity=0.220 Sum_probs=139.4
Q ss_pred cEEEEEEeeCCCCCCCCCCCcEEEEceEEEEc-CCCe--EEeEEEEeecCCCCCCCCcchhhhcCCChHH-HhCCCCHHH
Q 016965 137 YFVVIDFEATCDKDKNPYPQEIIEFPSVIVSS-VTGQ--LEACFQTYVRPTCNQLLSDFCKDLTGIQQIQ-VDRGVTLSE 212 (379)
Q Consensus 137 ~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~-~~g~--i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~-V~~Ap~~~e 212 (379)
.+||||+||||+ ++..++|||||||++.. ++|. +.++|+++|+|.....++++++++||||++| +.++++..+
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 579999999998 67789999999999962 2454 3689999999931115999999999999986 678888888
Q ss_pred HHHHHHHHHhhcCC---CCccEEEEEcCcchHHHHHHHHHHHcCCC-CCCCCCceeehHHHHHHhcCCCCCCHHHHHHHc
Q 016965 213 ALLRHDKWLENKGI---KNTNFAVVTWSNWDCRVMLESECRFKKIW-KPPYFNRWINLKVPFHEVFGGVRCNLKEAVEMA 288 (379)
Q Consensus 213 Vl~ef~~fl~~~~L---v~hn~iVVh~~~FDlr~fL~~~~~~~gi~-~P~~~~~~iDt~~l~r~l~~~~~~rL~~l~~~~ 288 (379)
++.+|.+|+.+..- .+...+|+||++||+ .||++++++.|+. .|....+++||..+++.+++. .+|++++++|
T Consensus 83 ~~~~~~~~l~~~~~~~~~~~~~lVaHna~FD~-~fL~~~~~~~~~~~~~~~~~~~lDt~~la~~~~~~--~~L~~l~~~~ 159 (189)
T cd06134 83 ALKEIFKPIRKALKAQGCTRAILVGHNAHFDL-GFLNAAVARCKIKRNPFHPFSTFDTATLAGLAYGQ--TVLAKACQAA 159 (189)
T ss_pred HHHHHHHHHHHHHhhcccCCCeEEEecchhhH-HHHHHHHHHhCCCCCCCCCCcEEEHHHHHHHHhCC--CcHHHHHHHC
Confidence 88888888763210 112456778889996 9999999999883 332234689999999988763 4899999999
Q ss_pred CCCCC-CCCCCHHHHHHHHHHHHHHHHHh
Q 016965 289 GLAWQ-GRAHCGLDDAKNTARLLALLMHR 316 (379)
Q Consensus 289 gI~~~-g~~HrAL~DA~aTA~Ll~~ll~~ 316 (379)
||+.. .++|+|++||++||+||.+|+++
T Consensus 160 gi~~~~~~~H~Al~DA~ata~lf~~l~~~ 188 (189)
T cd06134 160 GIEFDNKEAHSALYDTQKTAELFCKIVNR 188 (189)
T ss_pred CCCCCCCCCcChHHHHHHHHHHHHHHHHh
Confidence 99863 36899999999999999999875
No 28
>PRK06309 DNA polymerase III subunit epsilon; Validated
Probab=99.97 E-value=2.4e-30 Score=244.63 Aligned_cols=162 Identities=23% Similarity=0.244 Sum_probs=141.2
Q ss_pred cEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHH
Q 016965 137 YFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLR 216 (379)
Q Consensus 137 ~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~e 216 (379)
++||||+||||+ ++..|+|||||++. +...++|+++|+|+. .|+++++++||||++||+++|+|.+|+++
T Consensus 3 ~~vv~D~ETTGl---~~~~d~IIeig~v~-----~~~~~~f~~lv~P~~--~I~~~a~~IhGIt~e~v~~~p~f~ev~~~ 72 (232)
T PRK06309 3 ALIFYDTETTGT---QIDKDRIIEIAAYN-----GVTSESFQTLVNPEI--PIPAEASKIHGITTDEVADAPKFPEAYQK 72 (232)
T ss_pred cEEEEEeeCCCC---CCCCCEEEEEEEEc-----CccccEEEEEeCCCC--CCChhHHhhcCCCHHHHhCCCCHHHHHHH
Confidence 699999999998 56789999999953 234578999999996 49999999999999999999999999999
Q ss_pred HHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHcCCCCCC
Q 016965 217 HDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMAGLAWQG 294 (379)
Q Consensus 217 f~~fl~~~~Lv~hn~iVVh~-~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~-~~~~rL~~l~~~~gI~~~g 294 (379)
|.+|+++. ..+|+|| +.||+ .||++++++.|+..|. .+++||..+++.+++ ...++|..++++||++..
T Consensus 73 ~~~fi~~~-----~~lVaHN~~~FD~-~~L~~e~~r~g~~~~~--~~~iDt~~l~~~~~~~~~~~~L~~l~~~~~~~~~- 143 (232)
T PRK06309 73 FIEFCGTD-----NILVAHNNDAFDF-PLLRKECRRHGLEPPT--LRTIDSLKWAQKYRPDLPKHNLQYLRQVYGFEEN- 143 (232)
T ss_pred HHHHHcCC-----CEEEEeCCHHHHH-HHHHHHHHHcCCCCCC--CcEEeHHHHHHHHcCCCCCCCHHHHHHHcCCCCC-
Confidence 99999864 2456666 47995 9999999999987653 679999999988776 357899999999999975
Q ss_pred CCCCHHHHHHHHHHHHHHHHHhc
Q 016965 295 RAHCGLDDAKNTARLLALLMHRG 317 (379)
Q Consensus 295 ~~HrAL~DA~aTA~Ll~~ll~~~ 317 (379)
++|||++||.+|++||.+|+++.
T Consensus 144 ~aH~Al~Da~~t~~vl~~l~~~~ 166 (232)
T PRK06309 144 QAHRALDDVITLHRVFSALVGDL 166 (232)
T ss_pred CCCCcHHHHHHHHHHHHHHHHHH
Confidence 78999999999999999999764
No 29
>PRK07883 hypothetical protein; Validated
Probab=99.97 E-value=1.6e-30 Score=273.44 Aligned_cols=176 Identities=23% Similarity=0.230 Sum_probs=155.3
Q ss_pred CCCCCCCCCCcccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHH
Q 016965 125 AHPYDFQPQEFQYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQV 204 (379)
Q Consensus 125 ~~~l~~~~q~~~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V 204 (379)
++|+.+ ..|||||+||||+ ++..++|||||||+++ +|+++++|+++|+|.. .++++++.+||||++||
T Consensus 9 ~~~~~~-----~~~Vv~D~ETTGl---~p~~~~IIEIgaV~v~--~g~iv~~f~~lV~P~~--~i~~~~~~itGIt~e~l 76 (557)
T PRK07883 9 GTPLRD-----VTFVVVDLETTGG---SPAGDAITEIGAVKVR--GGEVLGEFATLVNPGR--PIPPFITVLTGITTAMV 76 (557)
T ss_pred CCCCcC-----CCEEEEEEecCCC---CCCCCeEEEEEEEEEE--CCEEEEEEEEEECCCC--CCChhHHhhcCCCHHHH
Confidence 456653 5999999999998 6778999999999996 7899999999999986 59999999999999999
Q ss_pred hCCCCHHHHHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC---CCCCCH
Q 016965 205 DRGVTLSEALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG---GVRCNL 281 (379)
Q Consensus 205 ~~Ap~~~eVl~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~---~~~~rL 281 (379)
.++|++.+|+.+|.+|+++. ++|+||+.||+ .||+.+|+++|+++| .+.++||..+++.+++ ..+++|
T Consensus 77 ~~ap~~~evl~~f~~fl~~~------~lVaHNa~FD~-~fL~~~~~r~g~~~~--~~~~iDTl~lar~l~~~~~~~~~~L 147 (557)
T PRK07883 77 AGAPPIEEVLPAFLEFARGA------VLVAHNAPFDI-GFLRAAAARCGYPWP--GPPVLCTVRLARRVLPRDEAPNVRL 147 (557)
T ss_pred hCCCCHHHHHHHHHHHhcCC------EEEEeCcHHHH-HHHHHHHHHcCCCCC--CCCcEecHHHHHHhcccCCCCCCCH
Confidence 99999999999999999875 35666779995 999999999999875 3578999999998875 357899
Q ss_pred HHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHhcCCCcc
Q 016965 282 KEAVEMAGLAWQGRAHCGLDDAKNTARLLALLMHRGFKFSI 322 (379)
Q Consensus 282 ~~l~~~~gI~~~g~~HrAL~DA~aTA~Ll~~ll~~~~~~~i 322 (379)
++++++||++.. .+|+|++||++|++||.+++.+..+.++
T Consensus 148 ~~L~~~~gi~~~-~~H~Al~DA~ata~l~~~l~~~~~~~~~ 187 (557)
T PRK07883 148 STLARLFGATTT-PTHRALDDARATVDVLHGLIERLGNLGV 187 (557)
T ss_pred HHHHHHCCcccC-CCCCHHHHHHHHHHHHHHHHHHHHhcCC
Confidence 999999999985 6899999999999999999988766544
No 30
>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=2.7e-30 Score=239.36 Aligned_cols=178 Identities=20% Similarity=0.183 Sum_probs=142.7
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEc-CCCeE--EeEEEEeecCCCCCCCCcchhhhcCCChH-HHhCCCCHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSS-VTGQL--EACFQTYVRPTCNQLLSDFCKDLTGIQQI-QVDRGVTLS 211 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~-~~g~i--~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~-~V~~Ap~~~ 211 (379)
..+||||+||||+ ++..++|||||||++.. .+|.+ .++|+++|+|....+|++++.++||||++ |+.+++++.
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 4899999999998 66789999999999952 24666 36899999984112599999999999976 699999999
Q ss_pred HHHHHHHHHHhhcC---CCCccEEEEEcCcchHHHHHHHHHHHcCCCC-CCCCCceeehHHHHHHhcCCCCCCHHHHHHH
Q 016965 212 EALLRHDKWLENKG---IKNTNFAVVTWSNWDCRVMLESECRFKKIWK-PPYFNRWINLKVPFHEVFGGVRCNLKEAVEM 287 (379)
Q Consensus 212 eVl~ef~~fl~~~~---Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~-P~~~~~~iDt~~l~r~l~~~~~~rL~~l~~~ 287 (379)
+++.++..|+.+.. ..+..++|+||++||+ .||++++++.|... |.....++||..+++.+++. ++|++++++
T Consensus 85 ~~~~~~~~~l~~~~~~~~~~~~~lVaHNa~FD~-~fL~~~~~r~~~~~~~~~~~~~lDTl~lar~~~~~--~~L~~l~~~ 161 (200)
T TIGR01298 85 EALHEIFKVVRKAMKASGCQRAILVGHNANFDL-GFLNAAVERTSLKRNPFHPFSTFDTATLAGLAYGQ--TVLAKACQA 161 (200)
T ss_pred HHHHHHHHHHHHHHHhcccCCCEEEEECchhhH-HHHHHHHHHhCCCCCCCCCCcEEEHHHHHHHHcCc--ccHHHHHHH
Confidence 99999999884221 0123456778889996 89999999988642 21134689999999887753 589999999
Q ss_pred cCCCCC-CCCCCHHHHHHHHHHHHHHHHHhcCC
Q 016965 288 AGLAWQ-GRAHCGLDDAKNTARLLALLMHRGFK 319 (379)
Q Consensus 288 ~gI~~~-g~~HrAL~DA~aTA~Ll~~ll~~~~~ 319 (379)
||++.. .++|||++||++||+||.+|+.+..+
T Consensus 162 ~gi~~~~~~~H~Al~Da~ata~lf~~l~~~~~~ 194 (200)
T TIGR01298 162 AGXDFDSTQAHSALYDTEKTAELFCEIVNRWKR 194 (200)
T ss_pred cCCCccccchhhhHHhHHHHHHHHHHHHHHHHH
Confidence 999863 26899999999999999999988654
No 31
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.97 E-value=1e-29 Score=277.67 Aligned_cols=166 Identities=22% Similarity=0.252 Sum_probs=148.0
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 215 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ 215 (379)
..|||||+||||+ ++ .++|||||||+++ +|+++++|+++|||.. +|+++++.+||||++||++||+|++|++
T Consensus 7 ~~~vvvD~ETTGl---~~-~d~IIeIgaV~v~--~g~i~~~f~~lv~P~~--~i~~~~~~ltGIt~e~l~~ap~~~ev~~ 78 (820)
T PRK07246 7 RKYAVVDLEATGA---GP-NASIIQVGIVIIE--GGEIIDSYTTDVNPHE--PLDEHIKHLTGITDQQLAQAPDFSQVAR 78 (820)
T ss_pred CCEEEEEEecCCc---CC-CCeEEEEEEEEEE--CCEEEEEEEEEeCcCC--CCCHhHhhcCCCCHHHHhcCCCHHHHHH
Confidence 5899999999998 34 4899999999995 8999999999999996 5999999999999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHcCCCCCC
Q 016965 216 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMAGLAWQG 294 (379)
Q Consensus 216 ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~-~~~~rL~~l~~~~gI~~~g 294 (379)
+|.+|+++.+ +|+||++||+ .||++++.+.|+..+ ++++||..+++.+++ ..+++|++++++||++..
T Consensus 79 ~~~~~l~~~~------lVaHN~~FD~-~fL~~~~~~~g~~~~---~~~iDT~~la~~~~p~~~~~~L~~L~~~lgl~~~- 147 (820)
T PRK07246 79 HIYDLIEDCI------FVAHNVKFDA-NLLAEALFLEGYELR---TPRVDTVELAQVFFPTLEKYSLSHLSRELNIDLA- 147 (820)
T ss_pred HHHHHhCCCE------EEEECcHHHH-HHHHHHHHHcCCCCC---CCceeHHHHHHHHhCCCCCCCHHHHHHHcCCCCC-
Confidence 9999999865 4556669995 999999988887643 568999999999887 467999999999999986
Q ss_pred CCCCHHHHHHHHHHHHHHHHHhcCCC
Q 016965 295 RAHCGLDDAKNTARLLALLMHRGFKF 320 (379)
Q Consensus 295 ~~HrAL~DA~aTA~Ll~~ll~~~~~~ 320 (379)
++|+|++||++||+||..|+++...+
T Consensus 148 ~~H~Al~DA~ata~L~~~l~~~l~~l 173 (820)
T PRK07246 148 DAHTAIADARATAELFLKLLQKIESL 173 (820)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHhhc
Confidence 78999999999999999999876554
No 32
>PRK05601 DNA polymerase III subunit epsilon; Validated
Probab=99.96 E-value=9.5e-29 Score=245.84 Aligned_cols=163 Identities=16% Similarity=0.161 Sum_probs=138.2
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 215 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ 215 (379)
..|||||+||||+ ++..++|||||||++. .+|+++++|+++|||.. + +.+ ..|||||++||++||+|.+|++
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 5899999999998 6788999999999996 47899999999999996 3 333 4799999999999999999999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCC-------------------------CCCCCCCceeehHHHH
Q 016965 216 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKI-------------------------WKPPYFNRWINLKVPF 270 (379)
Q Consensus 216 ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi-------------------------~~P~~~~~~iDt~~l~ 270 (379)
+|.+||++.+ +|+||+.||+ .||++++++.+. ...+..+.++||+.+.
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 9999999965 4556669995 999999876411 0112346799999999
Q ss_pred HHhcC-CCCCCHHHHHHHcCCCC----------CCCCCCHH--HHHHHHHHHHHHHH
Q 016965 271 HEVFG-GVRCNLKEAVEMAGLAW----------QGRAHCGL--DDAKNTARLLALLM 314 (379)
Q Consensus 271 r~l~~-~~~~rL~~l~~~~gI~~----------~g~~HrAL--~DA~aTA~Ll~~ll 314 (379)
|++++ .++++|.+++++|||+. . ..|+|| +||+.+++||..+.
T Consensus 191 Rrl~p~l~~~rL~~La~~lGi~~p~~~A~~~Ra~-~p~~~l~~~Da~ll~~l~~~~~ 246 (377)
T PRK05601 191 RRQGVALDDIRIRGVAHTLGLDAPAAEASVERAQ-VPHRQLCREETLLVARLYFALR 246 (377)
T ss_pred HHHcCCCCCCCHHHHHHHhCCCCCchhhhhhhhc-CChhhhhhHHHHHHHHHHHHhh
Confidence 99986 57899999999999987 3 568888 69999999999873
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=2.9e-29 Score=228.83 Aligned_cols=162 Identities=19% Similarity=0.180 Sum_probs=129.9
Q ss_pred EEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhC-CCCHHHHHHHH
Q 016965 139 VVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDR-GVTLSEALLRH 217 (379)
Q Consensus 139 VV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~-Ap~~~eVl~ef 217 (379)
++||+||||+ ++..++|||||+|+++ .++.++++|+++|+|.....+++.+..+||||++||.+ +|++.+++++|
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 5899999998 6778999999999996 34466699999999974224788899999999999999 99999999999
Q ss_pred HHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCCCCC----CCceeehHHHHHHhc--------------CCCC
Q 016965 218 DKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWKPPY----FNRWINLKVPFHEVF--------------GGVR 278 (379)
Q Consensus 218 ~~fl~~~~Lv~hn~iVVh~-~~FDlr~fL~~~~~~~gi~~P~~----~~~~iDt~~l~r~l~--------------~~~~ 278 (379)
.+|+++.. .++|+|| ..||+ .||+++++++++..+.. .+.++|+..+++..+ +.++
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 99996411 2345555 58995 99999999988743211 234578887766543 2346
Q ss_pred CCHHHHHHHcCCCCCCCCCCHHHHHHHHHHHH
Q 016965 279 CNLKEAVEMAGLAWQGRAHCGLDDAKNTARLL 310 (379)
Q Consensus 279 ~rL~~l~~~~gI~~~g~~HrAL~DA~aTA~Ll 310 (379)
++|++++++||++.. ++|||++||++||+|+
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 7899999999999986
No 34
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.96 E-value=1e-28 Score=273.29 Aligned_cols=168 Identities=23% Similarity=0.298 Sum_probs=149.5
Q ss_pred ccEEEEEEeeCCCCCCCCC-CCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPY-PQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEAL 214 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~-~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl 214 (379)
..|||||+||||+ ++. .++|||||||+++ +|+++++|+++|||.. .|+++++++||||++||++||+|.+|+
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 4899999999997 443 4899999999995 8999999999999996 599999999999999999999999999
Q ss_pred HHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHcCCCCC
Q 016965 215 LRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMAGLAWQ 293 (379)
Q Consensus 215 ~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~-~~~~rL~~l~~~~gI~~~ 293 (379)
++|.+|+++.+ +|+||+.||+ .||++++++.|++. ..++++||..+++.+++ ..+++|++++++||++..
T Consensus 76 ~~l~~~l~~~~------~VaHN~~FD~-~fL~~~~~~~g~~~--~~~~~iDt~~la~~~~p~~~~~~L~~l~~~l~i~~~ 146 (928)
T PRK08074 76 PEIVELLEGAY------FVAHNVHFDL-NFLNEELERAGYTE--IHCPKLDTVELARILLPTAESYKLRDLSEELGLEHD 146 (928)
T ss_pred HHHHHHhCCCe------EEEEChHHHH-HHHHHHHHHcCCCC--CCCCeeeHHHHHHHhcCCCCCCCHHHHHHhCCCCCC
Confidence 99999999865 4556669995 89999999999764 45689999999999887 467899999999999985
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHhcCCC
Q 016965 294 GRAHCGLDDAKNTARLLALLMHRGFKF 320 (379)
Q Consensus 294 g~~HrAL~DA~aTA~Ll~~ll~~~~~~ 320 (379)
++|+|++||++||+||.+|+++....
T Consensus 147 -~~H~Al~DA~ata~l~~~l~~~~~~l 172 (928)
T PRK08074 147 -QPHRADSDAEVTAELFLQLLNKLERL 172 (928)
T ss_pred -CCCChHHHHHHHHHHHHHHHHHHHhc
Confidence 89999999999999999999876553
No 35
>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=99.96 E-value=2e-28 Score=268.89 Aligned_cols=166 Identities=25% Similarity=0.251 Sum_probs=148.4
Q ss_pred cEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHH
Q 016965 137 YFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLR 216 (379)
Q Consensus 137 ~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~e 216 (379)
+|||||+||||+ ++..++|||||||+++ +|+++++|+++|+|.. .++++++++||||++||++||+|.+|+.+
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 489999999998 5678999999999995 7899999999999996 59999999999999999999999999999
Q ss_pred HHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHcCCCCCCC
Q 016965 217 HDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMAGLAWQGR 295 (379)
Q Consensus 217 f~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~-~~~~rL~~l~~~~gI~~~g~ 295 (379)
|.+|+++.+ +|+||+.||+ .||++++++.|++. +.++++||..+.+.+++ .++++|.+++++||++.. +
T Consensus 74 l~~~l~~~~------~VahN~~fD~-~fL~~~~~~~g~~~--~~~~~iDt~~l~~~~~p~~~~~~L~~l~~~~gi~~~-~ 143 (850)
T TIGR01407 74 IYDLLEDGI------FVAHNVHFDL-NFLAKALKDCGYEP--LPKPRIDTVELAQIFFPTEESYQLSELSEALGLTHE-N 143 (850)
T ss_pred HHHHhCCCE------EEEeCcHHHH-HHHHHHHHHcCCCC--CCCCeEeHHHHHHHhcCCCCCCCHHHHHHHCCCCCC-C
Confidence 999998754 4556679995 99999999999763 45678999999998887 467899999999999985 7
Q ss_pred CCCHHHHHHHHHHHHHHHHHhcCC
Q 016965 296 AHCGLDDAKNTARLLALLMHRGFK 319 (379)
Q Consensus 296 ~HrAL~DA~aTA~Ll~~ll~~~~~ 319 (379)
+|+|++||++||+||.+++.+..+
T Consensus 144 ~H~Al~DA~ata~l~~~l~~~~~~ 167 (850)
T TIGR01407 144 PHRADSDAQATAELLLLLFEKMEK 167 (850)
T ss_pred CCChHHHHHHHHHHHHHHHHHHHh
Confidence 899999999999999999877544
No 36
>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=99.96 E-value=4.8e-29 Score=223.17 Aligned_cols=146 Identities=20% Similarity=0.269 Sum_probs=122.8
Q ss_pred EEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCH-------H
Q 016965 139 VVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTL-------S 211 (379)
Q Consensus 139 VV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~-------~ 211 (379)
||||+||||+ ++..++|||||||++ ++|+++ |+++|||.. +++++++++||||++||++||++ +
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 6899999998 567899999999999 588876 999999996 59999999999999999999864 5
Q ss_pred HHHHHHHHHHhh-cCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC----CCCCHHHHHH
Q 016965 212 EALLRHDKWLEN-KGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG----VRCNLKEAVE 286 (379)
Q Consensus 212 eVl~ef~~fl~~-~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~----~~~rL~~l~~ 286 (379)
+|+++|++|+++ .++|| |++.||+ .||+.. .++++||..+++.+++. ++++|.++++
T Consensus 72 ~~~~~~~~~i~~~~vlVg------Hn~~fD~-~fL~~~-----------~~~~iDT~~l~~~~~~~~~~~~~~~L~~L~~ 133 (161)
T cd06137 72 AARAALWKFIDPDTILVG------HSLQNDL-DALRMI-----------HTRVVDTAILTREAVKGPLAKRQWSLRTLCR 133 (161)
T ss_pred HHHHHHHHhcCCCcEEEe------ccHHHHH-HHHhCc-----------CCCeeEehhhhhhccCCCcCCCCccHHHHHH
Confidence 899999999987 55444 4559996 899731 23589999999988764 4789999998
Q ss_pred H-cCCCCC--CCCCCHHHHHHHHHHHHH
Q 016965 287 M-AGLAWQ--GRAHCGLDDAKNTARLLA 311 (379)
Q Consensus 287 ~-~gI~~~--g~~HrAL~DA~aTA~Ll~ 311 (379)
+ ||++.. ..+|+|++||++||+||+
T Consensus 134 ~~~~~~~~~~~~~H~A~~DA~at~~l~~ 161 (161)
T cd06137 134 DFLGLKIQGGGEGHDSLEDALAAREVVL 161 (161)
T ss_pred HHCCchhcCCCCCCCcHHHHHHHHHHhC
Confidence 6 798763 257999999999999974
No 37
>PRK07983 exodeoxyribonuclease X; Provisional
Probab=99.96 E-value=5.2e-28 Score=227.35 Aligned_cols=148 Identities=22% Similarity=0.232 Sum_probs=126.6
Q ss_pred EEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHH
Q 016965 138 FVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRH 217 (379)
Q Consensus 138 fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ef 217 (379)
++|||+||||++ .+|||||+|++. +|+++++|+++|||.. .|+++++.+||||++||.++|++.+|+++|
T Consensus 2 ~~vlD~ETTGl~------~~IieIg~v~v~--~~~i~~~~~~lv~P~~--~i~~~~~~ihgIt~e~v~~ap~~~ev~~~~ 71 (219)
T PRK07983 2 LRVIDTETCGLQ------GGIVEIASVDVI--DGKIVNPMSHLVRPDR--PISPQAMAIHRITEAMVADKPWIEDVIPHY 71 (219)
T ss_pred eEEEEEECCCCC------CCCEEEEEEEEE--CCEEEEEEEEEECcCC--CCCHHHhhcCCCCHHHHcCCCCHHHHHHHH
Confidence 789999999983 249999999995 8899999999999996 599999999999999999999999999985
Q ss_pred HHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCHHHHHHHcCCCCC----
Q 016965 218 DKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAVEMAGLAWQ---- 293 (379)
Q Consensus 218 ~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~~~~rL~~l~~~~gI~~~---- 293 (379)
+++. ++|+||+.|| ++||.. ...+|+||..++|++++...++|..++++||++..
T Consensus 72 ---~~~~------~lVaHNa~FD-~~~L~~-----------~~~~~idTl~lar~l~p~~~~~l~~L~~~~~l~~~~~~~ 130 (219)
T PRK07983 72 ---YGSE------WYVAHNASFD-RRVLPE-----------MPGEWICTMKLARRLWPGIKYSNMALYKSRKLNVQTPPG 130 (219)
T ss_pred ---cCCC------EEEEeCcHhh-HHHHhC-----------cCCCcEeHHHHHHHHccCCCCCHHHHHHHcCCCCCCCCC
Confidence 4543 4566677999 489852 23468999999999998655899999999998641
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHh
Q 016965 294 GRAHCGLDDAKNTARLLALLMHR 316 (379)
Q Consensus 294 g~~HrAL~DA~aTA~Ll~~ll~~ 316 (379)
.++|||++||++||+||.++++.
T Consensus 131 ~~aHrAl~Da~ata~ll~~l~~~ 153 (219)
T PRK07983 131 LHHHRALYDCYITAALLIDIMNT 153 (219)
T ss_pred CCCCcHHHHHHHHHHHHHHHHHH
Confidence 36899999999999999999975
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=1.5e-27 Score=205.86 Aligned_cols=157 Identities=27% Similarity=0.322 Sum_probs=137.7
Q ss_pred EEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHHH
Q 016965 139 VVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRHD 218 (379)
Q Consensus 139 VV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ef~ 218 (379)
|+||+||||+ ++..++|||||+|+++. +++++++|+.+|+|.. .++++++.+||||++++.+++++.+++.+|.
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 6899999998 56789999999999983 4688899999999996 5899999999999999999999999999999
Q ss_pred HHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC-CCCCHHHH-HHHcCCCCCCCC
Q 016965 219 KWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG-VRCNLKEA-VEMAGLAWQGRA 296 (379)
Q Consensus 219 ~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~-~~~rL~~l-~~~~gI~~~g~~ 296 (379)
+|+.+. .+|+||+.||. .||++.+.++| .+.....|+|+..+++.+++. +.++|..+ ++.+|++.. ++
T Consensus 75 ~~l~~~------~~v~~n~~fD~-~~l~~~~~~~~--~~~~~~~~iDt~~~~~~~~~~~~~~~l~~~~~~~~~~~~~-~~ 144 (159)
T cd06127 75 EFLGGR------VLVAHNASFDL-RFLNRELRRLG--GPPLPNPWIDTLRLARRLLPGLRSHRLGLLLAERYGIPLE-GA 144 (159)
T ss_pred HHHCCC------EEEEeCcHhhH-HHHHHHHHHhC--CCCCCCCeeEHHHHHHHHcCCCCcCchHHHHHHHcCCCCC-CC
Confidence 999873 46777789995 89999999988 333567899999999998874 56789988 899999874 89
Q ss_pred CCHHHHHHHHHHHHH
Q 016965 297 HCGLDDAKNTARLLA 311 (379)
Q Consensus 297 HrAL~DA~aTA~Ll~ 311 (379)
|+|++||++|++||.
T Consensus 145 H~Al~Da~~t~~l~~ 159 (159)
T cd06127 145 HRALADALATAELLL 159 (159)
T ss_pred CCcHHHHHHHHHHhC
Confidence 999999999999973
No 39
>COG5018 KapD Inhibitor of the KinA pathway to sporulation, predicted exonuclease [General function prediction only]
Probab=99.95 E-value=1.2e-28 Score=219.66 Aligned_cols=184 Identities=32% Similarity=0.487 Sum_probs=161.1
Q ss_pred ccEEEEEEeeCCCCC-CCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHH
Q 016965 136 QYFVVIDFEATCDKD-KNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEAL 214 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g-~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl 214 (379)
...++||+|.|+.+| .++...+||||+|..|+..+.+++|+|++||||..+|.|+.+|..+||||+..|++||-|+.|+
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 478999999999987 4468899999999999877888999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCC-CCHHHHHHHcCCCCC
Q 016965 215 LRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVR-CNLKEAVEMAGLAWQ 293 (379)
Q Consensus 215 ~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~~~-~rL~~l~~~~gI~~~ 293 (379)
++|..||....... +-.+++||++|+ .-|.++|..+++.--++..+..|++..|...++..+ .+|+.+++.+|+.+.
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 EDFIRKLNEHDPRK-NSTWATWGNMDM-KVLKQNCMFNHIPPFPFKGPMVDLSLEYKNVFGDPRLTGLNKALEEYGDSFT 161 (210)
T ss_pred HHHHHHHHhcCccc-CCccccccchhH-HHHHHHHHhcCCCCccccCccchHHHHHHHHhcCCccccHHHHHHHhccccC
Confidence 99999998764321 235889999997 567889999988622356688999999999998654 799999999999999
Q ss_pred CCCCCHHHHHHHHHHHHHHHHHhcCCCc
Q 016965 294 GRAHCGLDDAKNTARLLALLMHRGFKFS 321 (379)
Q Consensus 294 g~~HrAL~DA~aTA~Ll~~ll~~~~~~~ 321 (379)
|++||||+||+++++||..+......+.
T Consensus 162 G~~HraldDArn~~rl~klv~~~~~~~e 189 (210)
T COG5018 162 GTHHRALDDARNAYRLFKLVEQDKQYLE 189 (210)
T ss_pred CchhhhHHHHHHHHHHHHHHcchhhhcc
Confidence 9999999999999999999987765553
No 40
>COG0847 DnaQ DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]
Probab=99.95 E-value=7.9e-27 Score=220.22 Aligned_cols=165 Identities=25% Similarity=0.273 Sum_probs=146.1
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeE-EEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEAC-FQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEAL 214 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~-F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl 214 (379)
..+||||+||||+ ++..++|||||||.+. ++++++. |+++|+|.. .+++++.++||||.+||.++|.|.+++
T Consensus 13 ~~~vv~D~ETtg~---~~~~~~iieIgav~~~--~~~i~~~~~~~~v~P~~--~i~~~~~~i~git~e~l~~~p~~~~v~ 85 (243)
T COG0847 13 TRFVVIDLETTGL---NPKKDRIIEIGAVTLE--DGRIVERSFHTLVNPER--PIPPEIFKIHGITDEMLADAPKFAEVL 85 (243)
T ss_pred CcEEEEecccCCC---CCCCCceEEEEeEEEE--CCeeecceeEEEECCCC--CCChhhhhhcCCCHHHHhcCCCHHHHH
Confidence 3899999999988 6689999999999995 7888755 999999964 499999999999999999999999999
Q ss_pred HHHHHHHhh-cCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC-CCCCHHHHHHHcCCCC
Q 016965 215 LRHDKWLEN-KGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG-VRCNLKEAVEMAGLAW 292 (379)
Q Consensus 215 ~ef~~fl~~-~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~-~~~rL~~l~~~~gI~~ 292 (379)
++|.+|+++ .. +|+|++.||+ .||..++.+.+...+ ...++|+..+.+..++. ..++|+.+++++|++.
T Consensus 86 ~~~~~~i~~~~~------~Vahna~fD~-~fl~~~~~~~~~~~~--~~~~~~t~~~~r~~~~~~~~~~L~~l~~~~gi~~ 156 (243)
T COG0847 86 PEFLDFIGGLRL------LVAHNAAFDV-GFLRVESERLGIEIP--GDPVLDTLALARRHFPGFDRSSLDALAERLGIDR 156 (243)
T ss_pred HHHHHHHCCCCe------EEEEchhhcH-HHHHHHHHHcCCCcc--cCceehHHHHHHHHcCCCccchHHHHHHHcCCCc
Confidence 999999999 54 4556679995 999999999998764 56789999999999886 7899999999999994
Q ss_pred C-CCCCCHHHHHHHHHHHHHHHHHh
Q 016965 293 Q-GRAHCGLDDAKNTARLLALLMHR 316 (379)
Q Consensus 293 ~-g~~HrAL~DA~aTA~Ll~~ll~~ 316 (379)
. ..+|+|+.||.+||.++..+...
T Consensus 157 ~~~~~H~Al~Da~~~a~~~~~~~~~ 181 (243)
T COG0847 157 NPFHPHRALFDALALAELFLLLQTG 181 (243)
T ss_pred CCcCCcchHHHHHHHHHHHHHHHhc
Confidence 2 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=99.95 E-value=2.5e-27 Score=210.05 Aligned_cols=149 Identities=20% Similarity=0.229 Sum_probs=115.6
Q ss_pred EEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHHH
Q 016965 139 VVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRHD 218 (379)
Q Consensus 139 VV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ef~ 218 (379)
||||+||||+ ++. ++++||++|.+...+|.++ |+++|+|.. .++++++.+||||++||++||++.+++++|.
T Consensus 1 v~lD~EttGl---~~~-~~~~~i~~v~~v~~~~~~~--~~~~v~P~~--~i~~~~~~ihGIt~~~v~~a~~~~~~~~~l~ 72 (152)
T cd06144 1 VALDCEMVGV---GPD-GSESALARVSIVNEDGNVV--YDTYVKPQE--PVTDYRTAVSGIRPEHLKDAPDFEEVQKKVA 72 (152)
T ss_pred CEEEEEeecc---cCC-CCEEEEEEEEEEeCCCCEE--EEEEECCCC--CCCcccccCCCCCHHHHcCCCCHHHHHHHHH
Confidence 6899999998 343 3677777664432356554 999999986 5999999999999999999999999999999
Q ss_pred HHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC--CCCCCHHHHHHH-cCCCCCCC
Q 016965 219 KWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG--GVRCNLKEAVEM-AGLAWQGR 295 (379)
Q Consensus 219 ~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~--~~~~rL~~l~~~-~gI~~~g~ 295 (379)
+|+++.+ +|+||+.||+ .||+ +..| .+.++|+..+.+.... .++++|++++++ +|++....
T Consensus 73 ~~l~~~v------lVgHn~~fD~-~~L~-------~~~~--~~~~~dt~~l~~~~~~~~~~~~sL~~l~~~~lgi~~~~~ 136 (152)
T cd06144 73 ELLKGRI------LVGHALKNDL-KVLK-------LDHP--KKLIRDTSKYKPLRKTAKGKSPSLKKLAKQLLGLDIQEG 136 (152)
T ss_pred HHhCCCE------EEEcCcHHHH-HHhc-------CcCC--CccEEEeEEeeccccccCCCChhHHHHHHHHcCcccCCC
Confidence 9998854 4556669996 8996 2233 2357787654332222 467899999997 69986446
Q ss_pred CCCHHHHHHHHHHHHH
Q 016965 296 AHCGLDDAKNTARLLA 311 (379)
Q Consensus 296 ~HrAL~DA~aTA~Ll~ 311 (379)
+|||++||++|++||+
T Consensus 137 ~H~Al~DA~at~~l~~ 152 (152)
T cd06144 137 EHSSVEDARAAMRLYR 152 (152)
T ss_pred CcCcHHHHHHHHHHhC
Confidence 8999999999999984
No 42
>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=99.94 E-value=2.1e-27 Score=212.05 Aligned_cols=147 Identities=20% Similarity=0.241 Sum_probs=118.7
Q ss_pred EEEEEeeCCCCCCCCC--CCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHH
Q 016965 139 VVIDFEATCDKDKNPY--PQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLR 216 (379)
Q Consensus 139 VV~D~ETTGl~g~~~~--~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~e 216 (379)
||||+||||+ ++. .++|++|++|.+ +|+++ |+++|||.. +++++++.+||||++||++||++++|+++
T Consensus 1 v~~D~EttGl---~~~~~~~~i~~i~~v~~---~g~~~--~~~lv~P~~--~i~~~~~~i~GIt~~~l~~a~~~~~v~~~ 70 (157)
T cd06149 1 VAIDCEMVGT---GPGGRESELARCSIVNY---HGDVL--YDKYIRPEG--PVTDYRTRWSGIRRQHLVNATPFAVAQKE 70 (157)
T ss_pred CEEEeEeccc---cCCCCeEEEEEEEEEeC---CCCEE--EEEeECCCC--ccCccceECCCCCHHHHhcCCCHHHHHHH
Confidence 6899999999 343 588999998876 56665 999999996 59999999999999999999999999999
Q ss_pred HHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHH--HHHh--cC-CCCCCHHHHHHHc---
Q 016965 217 HDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVP--FHEV--FG-GVRCNLKEAVEMA--- 288 (379)
Q Consensus 217 f~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l--~r~l--~~-~~~~rL~~l~~~~--- 288 (379)
|.+|+++.++| +|+..||+ .||+.. .| ...++||..+ +++. ++ .++++|+.++++|
T Consensus 71 l~~~l~~~vlV------~Hn~~~D~-~~l~~~-------~~--~~~~~Dt~~l~~~~~~~~~p~~~~~~L~~L~~~~~~~ 134 (157)
T cd06149 71 ILKILKGKVVV------GHAIHNDF-KALKYF-------HP--KHMTRDTSTIPLLNRKAGFPENCRVSLKVLAKRLLHR 134 (157)
T ss_pred HHHHcCCCEEE------EeCcHHHH-HHhccc-------CC--CcCEEECcccccchhhcCCcccCChhHHHHHHHHcCh
Confidence 99999987554 45559997 898733 22 2346788653 4444 44 3568999999999
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHH
Q 016965 289 GLAWQGRAHCGLDDAKNTARLLA 311 (379)
Q Consensus 289 gI~~~g~~HrAL~DA~aTA~Ll~ 311 (379)
+++..++.|||++||++|++||+
T Consensus 135 ~i~~~~~~H~Al~DA~at~~l~~ 157 (157)
T cd06149 135 DIQVGRQGHSSVEDARATMELYK 157 (157)
T ss_pred hhcCCCCCcCcHHHHHHHHHHhC
Confidence 67763467999999999999984
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=6.2e-27 Score=207.49 Aligned_cols=143 Identities=20% Similarity=0.235 Sum_probs=117.3
Q ss_pred EEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCC-CHHHHHHHH
Q 016965 139 VVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGV-TLSEALLRH 217 (379)
Q Consensus 139 VV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap-~~~eVl~ef 217 (379)
|++|+||||+.. . ++|+|||+|.+ +|++ .|+++|||.. +++++++++||||++||++|| ++++|+++|
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---G-LELTRVTVVDE---NGKV--VLDELVKPDG--EIVDYNTRFSGITEEMLENVTTTLEDVQKKL 69 (150)
T ss_pred CEEeeeeeeecC---C-CEEEEEEEEeC---CCCE--EEEEeECCCC--ccchhccCcCCCCHHHhccCCCCHHHHHHHH
Confidence 589999999842 2 99999999987 4555 4999999996 599999999999999999995 999999999
Q ss_pred HHHHh-hcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHc-CCCCC-
Q 016965 218 DKWLE-NKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMA-GLAWQ- 293 (379)
Q Consensus 218 ~~fl~-~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~-~~~~rL~~l~~~~-gI~~~- 293 (379)
.+|++ +.++ |.|++.||+ .||+. ..++++||..+++..++ .++++|++++++| |+...
T Consensus 70 ~~fl~~~~vl------VgHn~~fD~-~fL~~-----------~~~~~iDT~~l~r~~~~~~~~~~L~~L~~~~~~~~i~~ 131 (150)
T cd06145 70 LSLISPDTIL------VGHSLENDL-KALKL-----------IHPRVIDTAILFPHPRGPPYKPSLKNLAKKYLGRDIQQ 131 (150)
T ss_pred HHHhCCCCEE------EEcChHHHH-HHhhc-----------cCCCEEEcHHhccccCCCCCChhHHHHHHHHCCcceeC
Confidence 99997 5554 445559997 89863 12458999999887765 4568999999987 53322
Q ss_pred -CCCCCHHHHHHHHHHHH
Q 016965 294 -GRAHCGLDDAKNTARLL 310 (379)
Q Consensus 294 -g~~HrAL~DA~aTA~Ll 310 (379)
+.+|||++||++|++||
T Consensus 132 ~~~~H~Al~DA~~t~~l~ 149 (150)
T cd06145 132 GEGGHDSVEDARAALELV 149 (150)
T ss_pred CCCCCCcHHHHHHHHHHh
Confidence 35799999999999997
No 44
>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=1.6e-26 Score=209.33 Aligned_cols=161 Identities=16% Similarity=0.161 Sum_probs=123.8
Q ss_pred EEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCC--CCCCcchhhh---cCCChHHHhCCCCHHH
Q 016965 138 FVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCN--QLLSDFCKDL---TGIQQIQVDRGVTLSE 212 (379)
Q Consensus 138 fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~--~~Ls~~~~~L---TGIT~~~V~~Ap~~~e 212 (379)
+|+||+||||+ ++..++|||||||+++...+++.++|+.+|+|... +.+++.+..+ ||||++|+.++|++.+
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 58999999998 67789999999999985556888999999999851 1133455666 5999999999999999
Q ss_pred HHHHHHHHHhhcCCCCccEEEEE-cCcchHHHHHHHHHHHcCCCCCCCCCceeeh---HHHHHHhcCCCCCCHHHHHHHc
Q 016965 213 ALLRHDKWLENKGIKNTNFAVVT-WSNWDCRVMLESECRFKKIWKPPYFNRWINL---KVPFHEVFGGVRCNLKEAVEMA 288 (379)
Q Consensus 213 Vl~ef~~fl~~~~Lv~hn~iVVh-~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt---~~l~r~l~~~~~~rL~~l~~~~ 288 (379)
|+.+|.+|+++..-.+ ..++++ +++||+ .||++++++.|. ++.++.+|+ ..+.+.+++... ++
T Consensus 78 vl~~~~~f~~~~~~~~-~~~lvgh~~~FD~-~fL~~~~~~~~~---~~~~~~~D~~~l~~l~~~l~p~~~--------~~ 144 (173)
T cd06135 78 AEAELLEFIKKYVPKG-KSPLAGNSVHQDR-RFLDKYMPELEE---YLHYRILDVSSIKELARRWYPEIY--------RK 144 (173)
T ss_pred HHHHHHHHHHHhcCCC-CCceeecchhhCH-HHHHHHHHHHhc---cCCcchhhHHHHHHHHHHhCcHhh--------hc
Confidence 9999999998631000 123344 349995 999999998873 245667887 456776665311 15
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHH
Q 016965 289 GLAWQGRAHCGLDDAKNTARLLALLMH 315 (379)
Q Consensus 289 gI~~~g~~HrAL~DA~aTA~Ll~~ll~ 315 (379)
+++. +..|||++||.+|+.++...++
T Consensus 145 ~~~~-~~~HrAl~Da~~~~~~~~~~~~ 170 (173)
T cd06135 145 APKK-KGTHRALDDIRESIAELKYYRE 170 (173)
T ss_pred CCCC-CCCcchHHHHHHHHHHHHHHHH
Confidence 7765 4689999999999999998875
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=99.94 E-value=4.7e-28 Score=209.13 Aligned_cols=162 Identities=27% Similarity=0.361 Sum_probs=126.2
Q ss_pred EEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHHH
Q 016965 139 VVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRHD 218 (379)
Q Consensus 139 VV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ef~ 218 (379)
||||+||||+ ++..++|||||+|+++.....+.+.|+++|+|...+.+++.++++||||.++|++++++.+++.+|.
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 7999999998 4578999999999998544447899999999997445999999999999999999999999999999
Q ss_pred HHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHc-CCCCCCCCCceeehHHHHHHhcC-CCCCCHHHHHHHcCCCCCCCC
Q 016965 219 KWLENKGIKNTNFAVVTWSNWDCRVMLESECRFK-KIWKPPYFNRWINLKVPFHEVFG-GVRCNLKEAVEMAGLAWQGRA 296 (379)
Q Consensus 219 ~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~-gi~~P~~~~~~iDt~~l~r~l~~-~~~~rL~~l~~~~gI~~~g~~ 296 (379)
+|+.+. ..++.|+..||+ .++...+.+. +...| ....++|+..+.+..++ ...++|+.++++||++..+.+
T Consensus 78 ~~~~~~-----~~~v~~n~~fd~-~~l~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~ 150 (164)
T PF00929_consen 78 EFLKKN-----DILVGHNASFDI-GFLRREDKRFLGKPIP-KPNPFIDTLELARALFPNRKKYSLDDLAEYFGIPFDGTA 150 (164)
T ss_dssp HHHHHH-----TEEEETTCCHEE-ESSHHHHHHHHHHHHH-HHHHECEEEEEHHHHHHHHHHHSHHHHHHHTTSSSTSTT
T ss_pred hhhhcc-----cccccccccchh-hHHHHhhhhccccccc-ccchhhhhhHHHHHHhhccccCCHHHHHHHcCCCCCCCC
Confidence 999943 123334458886 7887777765 33222 11234555444443332 123699999999999987667
Q ss_pred CCHHHHHHHHHHHH
Q 016965 297 HCGLDDAKNTARLL 310 (379)
Q Consensus 297 HrAL~DA~aTA~Ll 310 (379)
|+|++||++|++||
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=1.6e-25 Score=218.89 Aligned_cols=169 Identities=21% Similarity=0.204 Sum_probs=127.7
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcC-CC---eEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSV-TG---QLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLS 211 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~-~g---~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~ 211 (379)
..+||||+||||+ ++..++|||||+|+++.. +| ++.++|+++|+|.. .|+++++.|||||++||.+++...
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 4899999999998 678899999999999632 45 45789999999996 599999999999999999998766
Q ss_pred HHHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHh-cCCCCCCHHHHHHHcCC
Q 016965 212 EALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEV-FGGVRCNLKEAVEMAGL 290 (379)
Q Consensus 212 eVl~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l-~~~~~~rL~~l~~~~gI 290 (379)
+++ .+|++.. .++|+||+.|| +.||++.+.... . ..|.++....... .+..+++|++++++||
T Consensus 112 ~~l---~~fl~~~-----~vlVAHNA~FD-~~fL~~~~~~~~-~-----~~~~ct~~~i~~~~~~~~~~kL~~La~~~g- 175 (294)
T PRK09182 112 AAV---DALIAPA-----DLIIAHNAGFD-RPFLERFSPVFA-T-----KPWACSVSEIDWSARGFEGTKLGYLAGQAG- 175 (294)
T ss_pred HHH---HHHhcCC-----CEEEEeCHHHH-HHHHHHHHHhcc-C-----CcccccHHHHhhccccCCCCCHHHHHHHcC-
Confidence 554 5555543 35677888999 599998765432 1 1244443333222 2346789999999999
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHHhcCCCcccccc
Q 016965 291 AWQGRAHCGLDDAKNTARLLALLMHRGFKFSITNSL 326 (379)
Q Consensus 291 ~~~g~~HrAL~DA~aTA~Ll~~ll~~~~~~~i~~~l 326 (379)
+.. .+|||++||++|++||.+++.......+.+.+
T Consensus 176 ~~~-~aHrAl~Da~Ata~ll~~~l~~~~~~~l~~Ll 210 (294)
T PRK09182 176 FFH-EGHRAVDDCQALLELLARPLPETGQPPLAELL 210 (294)
T ss_pred CCC-CCcChHHHHHHHHHHHHHHHhhcCCcCHHHHH
Confidence 443 68999999999999999988765433444333
No 47
>PRK05359 oligoribonuclease; Provisional
Probab=99.92 E-value=2.1e-24 Score=197.23 Aligned_cols=163 Identities=13% Similarity=0.106 Sum_probs=128.4
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeE-EeEEEEeecCCCC--CCCCcchhhhc---CCChHHHhCCCC
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQL-EACFQTYVRPTCN--QLLSDFCKDLT---GIQQIQVDRGVT 209 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i-~d~F~~~VkP~~~--~~Ls~~~~~LT---GIT~~~V~~Ap~ 209 (379)
++|||||+||||| +|..|+|||||||+++. +..+ .+.|+.+|+|... ..++++++.+| |||+++++++|+
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 5899999999998 78899999999999963 3333 4779999999851 12577888887 899999999999
Q ss_pred HHHHHHHHHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCCCCCCCceeeh--H-HHHHHhcCCCCCCHHHHH
Q 016965 210 LSEALLRHDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWKPPYFNRWINL--K-VPFHEVFGGVRCNLKEAV 285 (379)
Q Consensus 210 ~~eVl~ef~~fl~~~~Lv~hn~iVVh~-~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt--~-~l~r~l~~~~~~rL~~l~ 285 (379)
+.+|+.+|++|+++.++ .|+..+|+| ..||+ .||++.+.+.+.. +.++++|+ . .+.++++|. +
T Consensus 79 ~~e~~~~~l~fl~~~~~-~~~~~l~g~~v~FD~-~FL~~~~~~~~~~---l~~~~~Dv~tl~~l~r~~~P~----~---- 145 (181)
T PRK05359 79 EAEAEAQTLEFLKQWVP-AGKSPLCGNSIGQDR-RFLARYMPELEAY---FHYRNLDVSTLKELARRWKPE----I---- 145 (181)
T ss_pred HHHHHHHHHHHHHHhcC-CCCCceeecchhhCH-HHHHHHHHHhccc---CCCcccchhHHHHHHHHhChh----h----
Confidence 99999999999987654 333344554 59995 9999999877654 45677884 4 577777763 2
Q ss_pred HHcCCCCCCCCCCHHHHHHHHHHHHHHHHHhc
Q 016965 286 EMAGLAWQGRAHCGLDDAKNTARLLALLMHRG 317 (379)
Q Consensus 286 ~~~gI~~~g~~HrAL~DA~aTA~Ll~~ll~~~ 317 (379)
.++++.. ..|||++||+++...+..+.+..
T Consensus 146 -~~~~~~~-~~HRal~D~~~s~~~~~~~~~~~ 175 (181)
T PRK05359 146 -LNGFKKQ-GTHRALADIRESIAELKYYREHF 175 (181)
T ss_pred -hhCCCCc-CCcccHHHHHHHHHHHHHHHHHh
Confidence 3588775 57999999999999998887654
No 48
>PRK11779 sbcB exonuclease I; Provisional
Probab=99.92 E-value=4.8e-24 Score=220.14 Aligned_cols=172 Identities=16% Similarity=0.115 Sum_probs=130.7
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhC-CCCHHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDR-GVTLSEAL 214 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~-Ap~~~eVl 214 (379)
.+|||+|+||||+ +|..|+|||||||+++.....+.+.|+.+|+|.....+++.+..+||||++||.+ +.+..+++
T Consensus 6 ~~fvv~D~ETTGL---dP~~DrIIeiAaVrvd~~~~~i~e~~~~~~~P~~~~lp~p~a~~IhGIT~e~l~~~g~~e~e~~ 82 (476)
T PRK11779 6 PTFLWHDYETFGA---NPALDRPAQFAGIRTDADLNIIGEPLVFYCKPADDYLPSPEAVLITGITPQEALEKGLPEAEFA 82 (476)
T ss_pred CcEEEEEEECCCC---CCCCCeeEEEEEEEEeCCCceecceeEEEEcCCcCcCCCHHHHHHhCCCHHHHHhcCCCHHHHH
Confidence 4899999999998 7889999999999997322345578999999985222577899999999999965 66799999
Q ss_pred HHHHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCC---C-CCCCceeehHHHHHHhc--------------C
Q 016965 215 LRHDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWK---P-PYFNRWINLKVPFHEVF--------------G 275 (379)
Q Consensus 215 ~ef~~fl~~~~Lv~hn~iVVh~-~~FDlr~fL~~~~~~~gi~~---P-~~~~~~iDt~~l~r~l~--------------~ 275 (379)
.+|.+|+... ..++|+|+ ..||+ .||+.++.+..+.. . ...+..+|+..+.+..+ |
T Consensus 83 ~~i~~~l~~~----~~~lVGhNni~FD~-eflr~~~~r~~~d~y~~~~~~~n~r~D~LDl~rl~~~lrp~~i~~P~~~~g 157 (476)
T PRK11779 83 ARIHAEFSQP----GTCILGYNNIRFDD-EVTRYIFYRNFYDPYAREWQNGNSRWDLLDVVRACYALRPEGINWPENEDG 157 (476)
T ss_pred HHHHHHHhcC----CCEEEEeCchhhcH-HHHHHHHHhccchHHHHHhcCCCCccCHHHHHHHHHHhccccccCcccccC
Confidence 9999999621 12345554 48995 99999987655421 0 01122345555444332 2
Q ss_pred CCCCCHHHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHh
Q 016965 276 GVRCNLKEAVEMAGLAWQGRAHCGLDDAKNTARLLALLMHR 316 (379)
Q Consensus 276 ~~~~rL~~l~~~~gI~~~g~~HrAL~DA~aTA~Ll~~ll~~ 316 (379)
..+++|++++++|||+.. ++|+|++||++|++|+..+.++
T Consensus 158 ~~s~rLe~L~~~~gI~~~-~AHdALsDa~aT~~la~~l~~~ 197 (476)
T PRK11779 158 LPSFKLEHLTKANGIEHE-NAHDAMSDVYATIAMAKLIKQK 197 (476)
T ss_pred CCCCcHHHHHHHcCCCCC-CCCCcHHHHHHHHHHHHHHHHh
Confidence 356899999999999985 7899999999999999998866
No 49
>KOG2249 consensus 3'-5' exonuclease [Replication, recombination and repair]
Probab=99.35 E-value=8.3e-12 Score=119.09 Aligned_cols=156 Identities=19% Similarity=0.251 Sum_probs=112.2
Q ss_pred cEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHH
Q 016965 137 YFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLR 216 (379)
Q Consensus 137 ~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~e 216 (379)
.+|++|+|+.|. |.+...+..--+.+| + ..|.++ |+.||||+. +++++-+..+||+.+.+.+|.+|+.|-.+
T Consensus 106 r~vAmDCEMVG~-Gp~G~~s~lARvSIV--N-~~G~Vv--yDkyVkP~~--~VtDyRT~vSGIrpehm~~A~pf~~aQ~e 177 (280)
T KOG2249|consen 106 RVVAMDCEMVGV-GPDGRESLLARVSIV--N-YHGHVV--YDKYVKPTE--PVTDYRTRVSGIRPEHMRDAMPFKVAQKE 177 (280)
T ss_pred eEEEEeeeEecc-CCCccceeeeEEEEe--e-ccCcEe--eeeecCCCc--ccccceeeecccCHHHhccCccHHHHHHH
Confidence 699999999997 322223333334333 4 478886 999999996 59999999999999999999999999999
Q ss_pred HHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehH--HHHHHhcC-CCCCCHHHHHH-HcCCCC
Q 016965 217 HDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLK--VPFHEVFG-GVRCNLKEAVE-MAGLAW 292 (379)
Q Consensus 217 f~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~--~l~r~l~~-~~~~rL~~l~~-~~gI~~ 292 (379)
++++|.|.+||||-. .-|+ .-|. +..|.- ..-||. ..+++++. ....+|..|.+ .+|++.
T Consensus 178 v~klL~gRIlVGHaL------hnDl-~~L~-------l~hp~s--~iRDTs~~~pl~k~~~~~~tpSLK~Lt~~~Lg~~I 241 (280)
T KOG2249|consen 178 VLKLLKGRILVGHAL------HNDL-QALK-------LEHPRS--MIRDTSKYPPLMKLLSKKATPSLKKLTEALLGKDI 241 (280)
T ss_pred HHHHHhCCEEecccc------ccHH-HHHh-------hhCchh--hhcccccCchHHHHhhccCCccHHHHHHHHhchhh
Confidence 999999988777643 4454 2232 233321 123553 23344433 44678999886 578765
Q ss_pred CCCCCCHHHHHHHHHHHHHHHHHh
Q 016965 293 QGRAHCGLDDAKNTARLLALLMHR 316 (379)
Q Consensus 293 ~g~~HrAL~DA~aTA~Ll~~ll~~ 316 (379)
..-.|+.+.||.||.+|+.++-.+
T Consensus 242 Q~GeHsSvEDA~AtM~LY~~vk~q 265 (280)
T KOG2249|consen 242 QVGEHSSVEDARATMELYKRVKVQ 265 (280)
T ss_pred hccccCcHHHHHHHHHHHHHHHHH
Confidence 434599999999999999887654
No 50
>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=99.34 E-value=6.1e-11 Score=108.76 Aligned_cols=138 Identities=15% Similarity=0.004 Sum_probs=101.8
Q ss_pred EEEEEeeCCCCC-CCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHH
Q 016965 139 VVIDFEATCDKD-KNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRH 217 (379)
Q Consensus 139 VV~D~ETTGl~g-~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ef 217 (379)
++||+||||+.+ .++..++||+||++.. .+|... .+.....+.. + .+. ||+..+|..+++..+++..|
T Consensus 2 ~~~DIEt~~~~~~p~~~~d~Ii~I~~~~~--~~g~~~-~~~~~~~~~~-~----~~~---~i~~~~v~~~~~E~~lL~~f 70 (199)
T cd05160 2 LSFDIETTPPVGGPEPDRDPIICITYADS--FDGVKV-VFLLKTSTVG-D----DIE---FIDGIEVEYFADEKELLKRF 70 (199)
T ss_pred ccEEEeecCCCCCcCCCCCCEEEEEEEEe--eCCcee-eEEEeecccC-C----cCC---CCCCceEEEeCCHHHHHHHH
Confidence 689999999743 2567899999999887 345543 2333333321 1 111 89999999999999999999
Q ss_pred HHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCC-CC-------------------CCceeehHHHHHHhcCC
Q 016965 218 DKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKP-PY-------------------FNRWINLKVPFHEVFGG 276 (379)
Q Consensus 218 ~~fl~~~~Lv~hn~iVVh~~-~FDlr~fL~~~~~~~gi~~P-~~-------------------~~~~iDt~~l~r~l~~~ 276 (379)
.++++.... .+++.|++ +||+ .||...++.+|+... .. ...++|+..+++..++.
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 999987521 34566666 8997 899999999887651 00 12468999999988888
Q ss_pred CCCCHHHHHHHcCCC
Q 016965 277 VRCNLKEAVEMAGLA 291 (379)
Q Consensus 277 ~~~rL~~l~~~~gI~ 291 (379)
.+++|+.+++.++..
T Consensus 147 ~sy~L~~v~~~~l~~ 161 (199)
T cd05160 147 KSYTLDAVAEELLGE 161 (199)
T ss_pred ccCCHHHHHHHHhCC
Confidence 889999999987754
No 51
>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=99.19 E-value=1.9e-10 Score=104.78 Aligned_cols=154 Identities=20% Similarity=0.245 Sum_probs=107.7
Q ss_pred ccEEEEEEeeCCCCCC-C-----CCCCcEEEEceEEEEc-CCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCC
Q 016965 136 QYFVVIDFEATCDKDK-N-----PYPQEIIEFPSVIVSS-VTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGV 208 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~-~-----~~~deIIEIGAV~vd~-~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap 208 (379)
.+||-+|.|+|++... . ..+.++.-|.+|-.++ .+|+++ +..||+|.. ++.+..++++|||.+++.++.
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 5788888888876310 0 0123455555543110 367765 999999996 599999999999999998875
Q ss_pred ------CHHHHHHHHHHHHh-hcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCH
Q 016965 209 ------TLSEALLRHDKWLE-NKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNL 281 (379)
Q Consensus 209 ------~~~eVl~ef~~fl~-~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~~~~rL 281 (379)
++++|..++.+++. +.+||||.. ..|+ .-| ++..|. ...+||..+|+.- +.+..+|
T Consensus 81 ~~~~~~t~~~v~~~l~~li~~~tILVGHsL------~nDL-~aL-------~l~hp~--~~viDTa~l~~~~-~~r~~sL 143 (174)
T cd06143 81 SSKNLTTLKSAYLKLRLLVDLGCIFVGHGL------AKDF-RVI-------NIQVPK--EQVIDTVELFHLP-GQRKLSL 143 (174)
T ss_pred cccccCCHHHHHHHHHHHcCCCCEEEeccc------hhHH-HHh-------cCcCCC--cceEEcHHhccCC-CCCChhH
Confidence 68999999999995 444444433 6675 333 444442 3579998776531 1235699
Q ss_pred HHHHH-HcCCCCCCCCCCHHHHHHHHHHHH
Q 016965 282 KEAVE-MAGLAWQGRAHCGLDDAKNTARLL 310 (379)
Q Consensus 282 ~~l~~-~~gI~~~g~~HrAL~DA~aTA~Ll 310 (379)
..|++ ++|.......|+.+.||+|+.+|+
T Consensus 144 k~La~~~L~~~IQ~~~HdSvEDArAam~Ly 173 (174)
T cd06143 144 RFLAWYLLGEKIQSETHDSIEDARTALKLY 173 (174)
T ss_pred HHHHHHHcCCcccCCCcCcHHHHHHHHHHh
Confidence 99986 578776655799999999999997
No 52
>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=86.67 Aligned_cols=83 Identities=23% Similarity=0.242 Sum_probs=61.3
Q ss_pred EEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHHH
Q 016965 139 VVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRHD 218 (379)
Q Consensus 139 VV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ef~ 218 (379)
++||+||||+ ++..++|++|++...+ .+. .|. + . |.
T Consensus 1 ~~~DiEt~~~---~~~~~~i~~i~~~~~~--~~~---~~~--~--------~--------------------------f~ 36 (96)
T cd06125 1 IAIDTEATGL---DGAVHEIIEIALADVN--PED---TAV--I--------D--------------------------LK 36 (96)
T ss_pred CEEEEECCCC---CCCCCcEEEEEEEEcc--CCC---EEE--e--------h--------------------------HH
Confidence 4799999998 5688999999987531 111 111 0 0 88
Q ss_pred HHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHH
Q 016965 219 KWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVP 269 (379)
Q Consensus 219 ~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l 269 (379)
+|+++... ...|.|+++||+ .||+++++++|+..|....+++||+.+
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 245667779996 999999999999888667889999865
No 53
>PHA02570 dexA exonuclease; Provisional
Probab=98.89 E-value=1.6e-08 Score=94.88 Aligned_cols=165 Identities=14% Similarity=0.084 Sum_probs=102.8
Q ss_pred EEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhh----------hcCCChH-----H
Q 016965 139 VVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKD----------LTGIQQI-----Q 203 (379)
Q Consensus 139 VV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~----------LTGIT~~-----~ 203 (379)
++||+||.|. .....||+||||.++...| +..+|+.+|..+..-+++..+.. .....|+ -
T Consensus 4 lMIDlETmG~----~p~AaIisIgAV~Fdp~~~-~g~tF~elV~~~~~~k~d~~sq~g~~~~d~~TI~WW~kQS~EAR~~ 78 (220)
T PHA02570 4 FIIDFETFGN----TPDGAVIDLAVIAFEHDPH-NPPTFEELVSRGRRIKFDLKSQKGKRLFDKSTIEWWKNQSPEARKN 78 (220)
T ss_pred EEEEeeccCC----CCCceEEEEEEEEecCCCC-ccccHHHHhhcccccccchhhccCCCccCchHHHHHHhCCHHHHHh
Confidence 7899999985 3568999999999997666 67999999875331122222111 1111121 1
Q ss_pred Hh---CCCCHHHHHHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHc----C--CCCCCCCCceeehHHHHHHh
Q 016965 204 VD---RGVTLSEALLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFK----K--IWKPPYFNRWINLKVPFHEV 273 (379)
Q Consensus 204 V~---~Ap~~~eVl~ef~~fl~~~~Lv~hn~iVVh~~-~FDlr~fL~~~~~~~----g--i~~P~~~~~~iDt~~l~r~l 273 (379)
+. +..++.+++.+|.+||.....-.....+-.+| +||+ .+|..++++. + ++.|+.+..--|++.+....
T Consensus 79 L~~s~~~~~l~~al~~F~~fi~~~~~~~~~~~vWgnG~sFD~-~IL~~a~r~~~~~~~~~~~~Pw~fwN~RDVRT~ie~~ 157 (220)
T PHA02570 79 LKPSDEDVSTYEGHKKFFEYLEANGVDPWKSQGWCRGNSFDF-PILVDVIRDIHNTRDTFKLEPVKFWNQRDVRTAIEAT 157 (220)
T ss_pred ccCCCccccHHHHHHHHHHHHHHcCCCccceeEecCCCccCH-HHHHHHHHHHhcccCcCcCCCeeecCccchHHHHhhh
Confidence 21 35779999999999999754211223444554 8996 9999999987 7 56676555556777766543
Q ss_pred -cCCC----CCCHHHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHh
Q 016965 274 -FGGV----RCNLKEAVEMAGLAWQGRAHCGLDDAKNTARLLALLMHR 316 (379)
Q Consensus 274 -~~~~----~~rL~~l~~~~gI~~~g~~HrAL~DA~aTA~Ll~~ll~~ 316 (379)
+.+. +.+-+. |+-. -+|+|+.||-.-|..+..-.+.
T Consensus 158 ~l~r~~~~cp~~~g~------l~gf-v~H~sihDcakd~lml~y~~ry 198 (220)
T PHA02570 158 LLTRGMTTCPLPKGT------LDGF-VAHDSIHDCAKDILMLIYAKRY 198 (220)
T ss_pred hccCCcccCCCcCcc------ccch-hhcccHHHHHHHHHHHHHHHHH
Confidence 2221 111111 1111 5799999988777655544433
No 54
>COG2925 SbcB Exonuclease I [DNA replication, recombination, and repair]
Probab=98.85 E-value=2.6e-08 Score=99.57 Aligned_cols=166 Identities=17% Similarity=0.176 Sum_probs=127.4
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCC-CcchhhhcCCChHHHh-CCCCHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLL-SDFCKDLTGIQQIQVD-RGVTLSEA 213 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~L-s~~~~~LTGIT~~~V~-~Ap~~~eV 213 (379)
-+|.+.|.||.|. +|..|++-+|++|+-|..=..|.+--..|++|.. .-| .+.+.-|||||..... ++.+..+.
T Consensus 9 ~tF~~yDYETfG~---~Pa~DRPaQFAgiRTD~~~NiIgeP~~fyCkpsd-DyLP~P~a~LITGITPQ~~~~~G~~E~~F 84 (475)
T COG2925 9 PTFLFYDYETFGV---HPALDRPAQFAGIRTDIEFNIIGEPIVFYCKPAD-DYLPQPGAVLITGITPQEAREKGINEAAF 84 (475)
T ss_pred CcEEEEehhhcCC---CcccccchhhheeeccccccccCCCeEEEecCcc-ccCCCCCceeeecCCHHHHHhcCCChHHH
Confidence 4899999999987 7899999999999998654556678899999986 334 4678889999998774 78888888
Q ss_pred HHHHHHHHhhcCCCCccEEEEEc--CcchHHHHHHHHHHHcCCCCCCC------CCceeehHHHHHHhcCC---------
Q 016965 214 LLRHDKWLENKGIKNTNFAVVTW--SNWDCRVMLESECRFKKIWKPPY------FNRWINLKVPFHEVFGG--------- 276 (379)
Q Consensus 214 l~ef~~fl~~~~Lv~hn~iVVh~--~~FDlr~fL~~~~~~~gi~~P~~------~~~~iDt~~l~r~l~~~--------- 276 (379)
..++..-+... +.+++.| ..|| ..+-+..|-|+-++ | + .|+-+|++.+.|..+-+
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 88888777653 4566665 4788 57777777776554 2 2 23446888877765521
Q ss_pred -----CCCCHHHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHH
Q 016965 277 -----VRCNLKEAVEMAGLAWQGRAHCGLDDAKNTARLLALLM 314 (379)
Q Consensus 277 -----~~~rL~~l~~~~gI~~~g~~HrAL~DA~aTA~Ll~~ll 314 (379)
.+.+|+.+.+.-||+. +++|+|+.|++||..+-+...
T Consensus 157 n~dG~pSFkLEhLt~ANgieH-~nAHdAmsDVyATIamAklvk 198 (475)
T COG2925 157 NDDGLPSFKLEHLTKANGIEH-SNAHDAMSDVYATIAMAKLVK 198 (475)
T ss_pred CCCCCcchhhHHHhhcccccc-chhhHHHHHHHHHHHHHHHHH
Confidence 2458999999999998 589999999999987655443
No 55
>COG1949 Orn Oligoribonuclease (3'-5' exoribonuclease) [RNA processing and modification]
Probab=98.83 E-value=2.3e-08 Score=89.71 Aligned_cols=163 Identities=17% Similarity=0.149 Sum_probs=106.0
Q ss_pred cccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeE-EeEEEEeecCCC--CCCCCcchhhhc---CCChHHHhCCC
Q 016965 135 FQYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQL-EACFQTYVRPTC--NQLLSDFCKDLT---GIQQIQVDRGV 208 (379)
Q Consensus 135 ~~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i-~d~F~~~VkP~~--~~~Ls~~~~~LT---GIT~~~V~~Ap 208 (379)
.+++|=||+|+||| ++..++||||++++-|. +-++ .+.+..-|.-.. ...+++.+++.| |+++.-.+...
T Consensus 5 ~~nLiWIDlEMTGL---d~~~drIIEiA~iVTD~-~Lnilaegp~~~Ihq~~e~L~~Mdew~~~~H~~sGL~~rV~~S~~ 80 (184)
T COG1949 5 KNNLIWIDLEMTGL---DPERDRIIEIATIVTDA-NLNILAEGPVIAIHQSDEQLAKMDEWNTETHGRSGLTERVKASTV 80 (184)
T ss_pred CCceEEEeeeeccC---CcCcceEEEEEEEEecC-cccccccCceEEEeCCHHHHHHHHHHHHHccccccHHHHHHHhhc
Confidence 46899999999998 78999999999998873 4444 344444454332 123456667666 57766667888
Q ss_pred CHHHHHHHHHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCCCCCCCceeeh---HHHHHHhcCCCCCCHHHH
Q 016965 209 TLSEALLRHDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWKPPYFNRWINL---KVPFHEVFGGVRCNLKEA 284 (379)
Q Consensus 209 ~~~eVl~ef~~fl~~~~Lv~hn~iVVh~-~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt---~~l~r~l~~~~~~rL~~l 284 (379)
+..+|-.+.++|+..-+-. +...++.| ..-| |.||-+.+-+.-- + +-.+.+|+ ++++++..|. +
T Consensus 81 t~~~aE~~~l~flkkwvp~-~~spicGNSI~qD-RrFl~r~MP~Le~-y--fHYR~lDVSTlKELa~RW~P~-------i 148 (184)
T COG1949 81 TEAEAEAQTLDFLKKWVPK-GVSPICGNSIAQD-RRFLFRYMPKLEA-Y--FHYRYLDVSTLKELARRWNPE-------I 148 (184)
T ss_pred cHHHHHHHHHHHHHHhCCC-CCCCCccchhhHH-HHHHHHHhhhHHH-H--hhhHhhhHHHHHHHHHhhCcH-------h
Confidence 9999999999999877543 22334555 2568 8999876544211 1 23356775 4566665551 1
Q ss_pred HHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHh
Q 016965 285 VEMAGLAWQGRAHCGLDDAKNTARLLALLMHR 316 (379)
Q Consensus 285 ~~~~gI~~~g~~HrAL~DA~aTA~Ll~~ll~~ 316 (379)
..| +..+..|+||+|.+-...=++...+.
T Consensus 149 --~~~-~~K~~~H~Al~DI~ESI~EL~~YR~~ 177 (184)
T COG1949 149 --LAG-FKKGGTHRALDDIRESIAELRYYREH 177 (184)
T ss_pred --hhc-cccccchhHHHHHHHHHHHHHHHHHH
Confidence 123 23356799999987765555554443
No 56
>KOG3242 consensus Oligoribonuclease (3'->5' exoribonuclease) [RNA processing and modification]
Probab=98.77 E-value=4.3e-08 Score=88.75 Aligned_cols=164 Identities=16% Similarity=0.177 Sum_probs=112.9
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCC--CCCCCcchhhhc---CCChHHHhCCCCH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTC--NQLLSDFCKDLT---GIQQIQVDRGVTL 210 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~--~~~Ls~~~~~LT---GIT~~~V~~Ap~~ 210 (379)
.++|=+|+|+||| +-..|.||||++++-|+.=..+.+.+...|+-.. ...+++.|.+-| |+|..-+....++
T Consensus 26 q~lVWiD~EMTGL---dvekd~i~EiacIITD~dL~~~~egpd~vI~~~~evld~MneWc~ehhg~SGLt~kv~~S~~tl 102 (208)
T KOG3242|consen 26 QPLVWIDCEMTGL---DVEKDRIIEIACIITDGDLNPVAEGPDLVIHQPKEVLDKMNEWCIEHHGNSGLTEKVLASKITL 102 (208)
T ss_pred CceEEEeeecccc---ccccceeEEEEEEEecCCccccccCccchhcCCHHHHHHHHHHHHHhccchhHHHHHHHhhccH
Confidence 5899999999999 5688999999998876433334566777777543 234567777766 5787788899999
Q ss_pred HHHHHHHHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCCCCCCCceeeh---HHHHHHhcCCCCCCHHHHHH
Q 016965 211 SEALLRHDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWKPPYFNRWINL---KVPFHEVFGGVRCNLKEAVE 286 (379)
Q Consensus 211 ~eVl~ef~~fl~~~~Lv~hn~iVVh~-~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt---~~l~r~l~~~~~~rL~~l~~ 286 (379)
.+|-.++++|+...+..+ +..++.+ ..-| +.||.+.+-..- .+ +..+.+|+ ..+.++.+|.-.
T Consensus 103 ~~aEnevl~yikk~ip~~-~~~laGNSV~~D-rlFl~k~mPk~~-~~--lhyrivDVStIkeL~~Rw~P~~~-------- 169 (208)
T KOG3242|consen 103 ADAENEVLEYIKKHIPKG-KCPLAGNSVYMD-RLFLKKYMPKLI-KH--LHYRIVDVSTIKELARRWYPDIK-------- 169 (208)
T ss_pred HHHHHHHHHHHHHhCCCC-CCCccCcchhhH-HHHHHHHhHHHH-Hh--cceeeeeHHHHHHHHHHhCchhh--------
Confidence 999999999998876533 3345555 3568 789988765421 11 23467886 567888877311
Q ss_pred HcCCCCCCCCCCHHHHHHHHHHHHHHHHHh
Q 016965 287 MAGLAWQGRAHCGLDDAKNTARLLALLMHR 316 (379)
Q Consensus 287 ~~gI~~~g~~HrAL~DA~aTA~Ll~~ll~~ 316 (379)
.+. |-....|||++|..-...=|+...+.
T Consensus 170 ~~a-PkK~~~HrAldDI~ESI~ELq~Yr~n 198 (208)
T KOG3242|consen 170 ARA-PKKKATHRALDDIRESIKELQYYREN 198 (208)
T ss_pred ccC-cccccccchHHHHHHHHHHHHHHHHH
Confidence 111 22234699999988766556555444
No 57
>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=98.62 E-value=1.5e-06 Score=80.18 Aligned_cols=130 Identities=15% Similarity=0.060 Sum_probs=88.7
Q ss_pred cEEEEEEeeCCCCCC-CCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 016965 137 YFVVIDFEATCDKDK-NPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 215 (379)
Q Consensus 137 ~fVV~D~ETTGl~g~-~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ 215 (379)
..+.||+|||+..|. ++..++||.||.+.. .++.++ .+ ++. +. ..+..-.+..+.+.
T Consensus 4 ~i~~fDIEt~~~~g~p~~~~d~Ii~Is~~~~--~~~~~~-~~----~~~-----~~----------~~v~~~~~E~~lL~ 61 (195)
T cd05780 4 KILSFDIEVLNHEGEPNPEKDPIIMISFADE--GGNKVI-TW----KKF-----DL----------PFVEVVKTEKEMIK 61 (195)
T ss_pred eEEEEEEEecCCCCCCCCCCCcEEEEEEecC--CCceEE-Ee----cCC-----CC----------CeEEEeCCHHHHHH
Confidence 678999999965443 678899999998653 222222 11 121 10 02334567789999
Q ss_pred HHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCCC--------------------CCceeehHHHHHHhc
Q 016965 216 RHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPPY--------------------FNRWINLKVPFHEVF 274 (379)
Q Consensus 216 ef~~fl~~~~Lv~hn~iVVh~~-~FDlr~fL~~~~~~~gi~~P~~--------------------~~~~iDt~~l~r~l~ 274 (379)
+|.+++..... .+++.+|+ +||+ .||..-+..+|+..|.- ....+|+..++++.+
T Consensus 62 ~F~~~i~~~dp---diivgyN~~~FD~-pyL~~R~~~~gi~~~~~r~~~~~~~~~~g~~~~~~i~Gr~~lDl~~~~~~~~ 137 (195)
T cd05780 62 RFIEIVKEKDP---DVIYTYNGDNFDF-PYLKKRAEKLGIELDLGRDGSEIKIQRGGFNNASEIKGRIHVDLYPVARRTL 137 (195)
T ss_pred HHHHHHHHcCC---CEEEecCCCCCcH-HHHHHHHHHhCCCCccccCCCceeEeecceeeeeccCCeEEEeHHHHHHhhC
Confidence 99999987321 23333443 7997 89999899888875420 113679988888877
Q ss_pred CCCCCCHHHHHH-HcCCCC
Q 016965 275 GGVRCNLKEAVE-MAGLAW 292 (379)
Q Consensus 275 ~~~~~rL~~l~~-~~gI~~ 292 (379)
+..+++|+.+++ .+|.+.
T Consensus 138 ~l~sy~L~~v~~~~Lg~~k 156 (195)
T cd05780 138 NLTRYTLERVYEELFGIEK 156 (195)
T ss_pred CCCcCcHHHHHHHHhCCCC
Confidence 788999999876 678764
No 58
>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=98.55 E-value=1.8e-06 Score=79.54 Aligned_cols=120 Identities=15% Similarity=0.133 Sum_probs=86.6
Q ss_pred cEEEEEEeeCCCCCC-CCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 016965 137 YFVVIDFEATCDKDK-NPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 215 (379)
Q Consensus 137 ~fVV~D~ETTGl~g~-~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ 215 (379)
..++||+||++..|. ++..+.||.||++.. +|.+ +.+. ....+..+.|.
T Consensus 4 ~~l~fDIEt~~~~gfp~~~~d~Ii~Is~~~~---~g~~----~~~~-----------------------~~~~~E~~lL~ 53 (188)
T cd05781 4 KTLAFDIEVYSKYGTPNPRRDPIIVISLATS---NGDV----EFIL-----------------------AEGLDDRKIIR 53 (188)
T ss_pred eEEEEEEEecCCCCCCCCCCCCEEEEEEEeC---CCCE----EEEE-----------------------ecCCCHHHHHH
Confidence 689999999965443 678899999998764 3331 1111 12467889999
Q ss_pred HHHHHHhhcCCCCccEEEEEc--CcchHHHHHHHHHHHcCCCCCCC--C----------------CceeehHHHHHHhcC
Q 016965 216 RHDKWLENKGIKNTNFAVVTW--SNWDCRVMLESECRFKKIWKPPY--F----------------NRWINLKVPFHEVFG 275 (379)
Q Consensus 216 ef~~fl~~~~Lv~hn~iVVh~--~~FDlr~fL~~~~~~~gi~~P~~--~----------------~~~iDt~~l~r~l~~ 275 (379)
.|.+++..... . ++++| ..||+ .||..-++++|+..+.- . .-.+|+....++...
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 99999997521 2 34554 37997 89999999988765310 0 016888888888777
Q ss_pred CCCCCHHHHHHHcCCC
Q 016965 276 GVRCNLKEAVEMAGLA 291 (379)
Q Consensus 276 ~~~~rL~~l~~~~gI~ 291 (379)
.++++|+++++.+|+.
T Consensus 129 l~~y~L~~Va~~Lg~~ 144 (188)
T cd05781 129 VKVKTLENVAEYLGVM 144 (188)
T ss_pred CCCCCHHHHHHHHCCC
Confidence 7889999999999974
No 59
>KOG2248 consensus 3'-5' exonuclease [Replication, recombination and repair]
Probab=98.50 E-value=4.3e-07 Score=92.11 Aligned_cols=156 Identities=20% Similarity=0.273 Sum_probs=111.4
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHh-CCCCHHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVD-RGVTLSEAL 214 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~-~Ap~~~eVl 214 (379)
.+++++|+|+...+ ..-++..+++|=+ ++++ -+..||+|.. | +-+..+..+|||.+|++ ...+++++-
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 58999999998763 2378889988765 5665 3899999996 4 88999999999999997 567799999
Q ss_pred HHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC--CCCCHHHHHHH-cCC
Q 016965 215 LRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG--VRCNLKEAVEM-AGL 290 (379)
Q Consensus 215 ~ef~~fl~~~~Lv~hn~iVVh~~-~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~--~~~rL~~l~~~-~gI 290 (379)
.+++.|+... .++|.++ .-|+ .-|+ +.. ..+|||.-+|..-.|. ...+|..+++. +|.
T Consensus 285 ~~l~~~~~~~------TILVGHSLenDL-~aLK-------l~H----~~ViDTa~lf~~~~g~~~~k~sLk~L~~~~L~~ 346 (380)
T KOG2248|consen 285 KELLELISKN------TILVGHSLENDL-KALK-------LDH----PSVIDTAVLFKHPTGPYPFKSSLKNLAKSYLGK 346 (380)
T ss_pred HHHHhhcCcC------cEEEeechhhHH-HHHh-------hhC----CceeeeeEEEecCCCCccchHHHHHHHHHHHHH
Confidence 9999999764 3444443 5575 3332 222 2468987555433332 22358887764 443
Q ss_pred CCC-C-CCCCHHHHHHHHHHHHHHHHHhcCCC
Q 016965 291 AWQ-G-RAHCGLDDAKNTARLLALLMHRGFKF 320 (379)
Q Consensus 291 ~~~-g-~~HrAL~DA~aTA~Ll~~ll~~~~~~ 320 (379)
... + ..|+...||.++.+|+...+..+..+
T Consensus 347 ~Iq~~~~~HdS~eDA~acm~Lv~~k~~~~~~~ 378 (380)
T KOG2248|consen 347 LIQEGVGGHDSVEDALACMKLVKLKIKNSESQ 378 (380)
T ss_pred HHhccCCCCccHHHHHHHHHHHHHHHhccccc
Confidence 222 1 34999999999999999888776554
No 60
>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=98.48 E-value=6.9e-07 Score=79.15 Aligned_cols=116 Identities=16% Similarity=0.117 Sum_probs=60.4
Q ss_pred EEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHHH
Q 016965 139 VVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRHD 218 (379)
Q Consensus 139 VV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ef~ 218 (379)
++||+||||+ ++..+.|.-||++.++..... .|..+.-.. +..++.+.++.
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 5899999998 566788999999988732222 133333221 11234445544
Q ss_pred HHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCHHHHHHHcCCCCC
Q 016965 219 KWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAVEMAGLAWQ 293 (379)
Q Consensus 219 ~fl~~~~Lv~hn~iVVh~-~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~~~~rL~~l~~~~gI~~~ 293 (379)
+++.+. +.++.+| .+||+ .||++.+.+++++. ...++|+...+++... .+++|..+.+.+|+...
T Consensus 52 ~~l~~~-----~~iv~yng~~FD~-p~L~~~~~~~~~~~---~~~~iDl~~~~~~~~~-~~~~Lk~ve~~lg~~~~ 117 (164)
T PF13482_consen 52 ELLDEA-----DNIVTYNGKNFDI-PFLKRRAKRYGLPP---PFNHIDLLKIIKKHFL-ESYSLKNVEKFLGIERR 117 (164)
T ss_dssp HHHHTT-------EEESSTTTTHH-HHHHHHH-HHHH-----GGGEEEHHHHHT-TTS-CCTT--SHHH-------
T ss_pred HHHhcC-----CeEEEEeCcccCH-HHHHHHHHHcCCCc---ccchhhHHHHHHhccC-CCCCHHHHhhhcccccc
Confidence 677664 3345555 58996 99999997777653 4578999887765443 67799999999998763
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=98.41 E-value=1.2e-05 Score=75.19 Aligned_cols=114 Identities=17% Similarity=0.168 Sum_probs=76.4
Q ss_pred CCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHHHHHHhhcC
Q 016965 146 TCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRHDKWLENKG 225 (379)
Q Consensus 146 TGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ef~~fl~~~~ 225 (379)
+|..+..+..++||-||++..+..++.+ .+. .. ...+..+.+.+|.+++....
T Consensus 41 ~~~~~l~~~~~~Iv~Is~~~~~~~~~~~-----~~~--~~--------------------~~~~E~elL~~F~~~i~~~~ 93 (208)
T cd05782 41 SGSDFLPLPFHKVVSISALYRDDDGGFL-----KVR--TL--------------------DGADEKELLEDFFQLIEKKN 93 (208)
T ss_pred cCCCCCccccCceEEEEEEEEecCCCeE-----EEe--ec--------------------CCCCHHHHHHHHHHHHHHhC
Confidence 3443445678999999999875223321 111 10 01234789999999999741
Q ss_pred CCCccEEEEE-cC-cchHHHHHHHHHHHcCCCCCCCC--------------CceeehHHHHHHhcCCCCCCHHHHHHHcC
Q 016965 226 IKNTNFAVVT-WS-NWDCRVMLESECRFKKIWKPPYF--------------NRWINLKVPFHEVFGGVRCNLKEAVEMAG 289 (379)
Q Consensus 226 Lv~hn~iVVh-~~-~FDlr~fL~~~~~~~gi~~P~~~--------------~~~iDt~~l~r~l~~~~~~rL~~l~~~~g 289 (379)
. ++|+ || +||+ .||..-+..+|++.|... .+.+|+..+++......+++|+.+++.+|
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 3455 44 8997 999999999999766332 12689888776533346789999999999
Q ss_pred CCC
Q 016965 290 LAW 292 (379)
Q Consensus 290 I~~ 292 (379)
++-
T Consensus 168 ~~~ 170 (208)
T cd05782 168 IPG 170 (208)
T ss_pred CCC
Confidence 964
No 62
>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=98.36 E-value=1e-05 Score=72.85 Aligned_cols=145 Identities=19% Similarity=0.141 Sum_probs=97.3
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 215 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ 215 (379)
..+++||+||||+ ++..++|+.++... .++. .|..-+++. .. .+++++.+++.
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 5789999999987 45678898887542 2221 222112221 01 14567888999
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCC-CCCHHHHHHHc-CCC--
Q 016965 216 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGV-RCNLKEAVEMA-GLA-- 291 (379)
Q Consensus 216 ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~~-~~rL~~l~~~~-gI~-- 291 (379)
.|.+++++.. ...|+|++.||+ .+|. ++|+..+ +.++||..+++.+.+.. .++|++++++| |..
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 135778889996 6764 5677643 45789988777766654 57999999876 322
Q ss_pred --------------CCC-----CCCCHHHHHHHHHHHHHHHHHhcCC
Q 016965 292 --------------WQG-----RAHCGLDDAKNTARLLALLMHRGFK 319 (379)
Q Consensus 292 --------------~~g-----~~HrAL~DA~aTA~Ll~~ll~~~~~ 319 (379)
+.. ..|.|..||.+|.+|+..|.++..+
T Consensus 126 ~~~~~~~k~~~~~~~~~~~~~~~~~ya~~d~~~~~~l~~~l~~~l~~ 172 (193)
T cd06139 126 SFEDLVGKGKKQITFDQVPLEKAAEYAAEDADITLRLYELLKPKLKE 172 (193)
T ss_pred cHHHHcCCCcCcCCccccCHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 000 1236889999999999999877644
No 63
>KOG0304 consensus mRNA deadenylase subunit [RNA processing and modification]
Probab=98.23 E-value=1e-05 Score=75.79 Aligned_cols=172 Identities=19% Similarity=0.184 Sum_probs=112.1
Q ss_pred cEEEEEEeeCCCCC----C---C-----------CCCCcEEEEceEEEEcCCCeEEe----EEEEeec---CCCCCCCCc
Q 016965 137 YFVVIDFEATCDKD----K---N-----------PYPQEIIEFPSVIVSSVTGQLEA----CFQTYVR---PTCNQLLSD 191 (379)
Q Consensus 137 ~fVV~D~ETTGl~g----~---~-----------~~~deIIEIGAV~vd~~~g~i~d----~F~~~Vk---P~~~~~Ls~ 191 (379)
+||++|.|.-|.-- - + .+.-.+|++|....| .+|++.+ +++.-.+ +.. .--++
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 78888888877511 0 1 123489999999998 5677654 4444333 221 12455
Q ss_pred chhhh---cCCChHHHh-CCCCHHHHHHHHHHHHhhcCCCC-ccEEEEE-cCcchHHHHHHHHHHHcCCCCC--------
Q 016965 192 FCKDL---TGIQQIQVD-RGVTLSEALLRHDKWLENKGIKN-TNFAVVT-WSNWDCRVMLESECRFKKIWKP-------- 257 (379)
Q Consensus 192 ~~~~L---TGIT~~~V~-~Ap~~~eVl~ef~~fl~~~~Lv~-hn~iVVh-~~~FDlr~fL~~~~~~~gi~~P-------- 257 (379)
.++++ +||+-+-.. .+.+.. +|.+.+-...++- .++.+|+ ++..|. ++|-+.+-...++..
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 DSIELLRRSGIDFEKHREEGIDIE----EFAELLMTSGLVLDENVTWVTFHSGYDF-GYLLKILTGKPLPETEEEFFEIV 177 (239)
T ss_pred hhHHHHHHcCcCHHHHHHcCCCHH----HHHHHHHHhhhhccCceEEEEeeccchH-HHHHHHHcCCCCcchHHHHHHHH
Confidence 56655 688887775 577665 3444444444443 3677887 488997 777766654333210
Q ss_pred -CCCCceeehHHHHHHhcCC-CCCCHHHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHH
Q 016965 258 -PYFNRWINLKVPFHEVFGG-VRCNLKEAVEMAGLAWQGRAHCGLDDAKNTARLLALLMH 315 (379)
Q Consensus 258 -~~~~~~iDt~~l~r~l~~~-~~~rL~~l~~~~gI~~~g~~HrAL~DA~aTA~Ll~~ll~ 315 (379)
.++..+.|++-+++..-+. ...+|..+++.+|++..|..|.|-.|++.||..|.+|.+
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 1122455766655543332 245899999999999999999999999999999999864
No 64
>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=98.19 E-value=0.00011 Score=68.73 Aligned_cols=145 Identities=14% Similarity=0.066 Sum_probs=85.9
Q ss_pred cEEEEEEeeCCCCCC--CCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCC-cchhhhcCCChHHHhCCCCHHHH
Q 016965 137 YFVVIDFEATCDKDK--NPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLS-DFCKDLTGIQQIQVDRGVTLSEA 213 (379)
Q Consensus 137 ~fVV~D~ETTGl~g~--~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls-~~~~~LTGIT~~~V~~Ap~~~eV 213 (379)
..++||+||++..++ ++..|.||.|+.+. . .+|..+- ....+.+..+. +. ..+-.+-| .-.+..-.+..+.
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 578999999875442 56789999999764 3 3453220 00011010000 00 00000111 0122335789999
Q ss_pred HHHHHHHHhhcCCCCccEEEEEc--CcchHHHHHHHHHHHcCCCCCC-C---CC----------ceeehHHHHHHhc--C
Q 016965 214 LLRHDKWLENKGIKNTNFAVVTW--SNWDCRVMLESECRFKKIWKPP-Y---FN----------RWINLKVPFHEVF--G 275 (379)
Q Consensus 214 l~ef~~fl~~~~Lv~hn~iVVh~--~~FDlr~fL~~~~~~~gi~~P~-~---~~----------~~iDt~~l~r~l~--~ 275 (379)
|.+|.+|+..... . ++++| .+||+ .||..-++.+|+.... + .. -.+|+..++++.. +
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 2 34444 47997 8999888988876431 0 00 1478887777532 3
Q ss_pred CCCCCHHHHHH-HcCCCC
Q 016965 276 GVRCNLKEAVE-MAGLAW 292 (379)
Q Consensus 276 ~~~~rL~~l~~-~~gI~~ 292 (379)
.++++|+.+++ .+|..-
T Consensus 152 ~~sysLd~Va~~~Lg~~K 169 (204)
T cd05779 152 QGSQGLKAVTKAKLGYDP 169 (204)
T ss_pred CCCccHHHHHHHHhCCCc
Confidence 46889999999 488753
No 65
>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=98.16 E-value=4.5e-05 Score=73.70 Aligned_cols=172 Identities=22% Similarity=0.174 Sum_probs=97.7
Q ss_pred ccEEEEEEeeCCCCCCCC------------------CCCcEEEEceEEEEcCCCeEEe-----EEEEeecCCCCCCCCcc
Q 016965 136 QYFVVIDFEATCDKDKNP------------------YPQEIIEFPSVIVSSVTGQLEA-----CFQTYVRPTCNQLLSDF 192 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~------------------~~deIIEIGAV~vd~~~g~i~d-----~F~~~VkP~~~~~Ls~~ 192 (379)
..||+||+|.||+..... ..-.||++|...+.-.+++... .|..++-|......+..
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 479999999999953222 3468999999999325666543 33333333321111222
Q ss_pred hhh---hcCCChHHH-hCCCCHHHHHHH--HHHHHhhcCCC-----CccEEEEEcCcchHHHHHHHHHHHcCCCCCC---
Q 016965 193 CKD---LTGIQQIQV-DRGVTLSEALLR--HDKWLENKGIK-----NTNFAVVTWSNWDCRVMLESECRFKKIWKPP--- 258 (379)
Q Consensus 193 ~~~---LTGIT~~~V-~~Ap~~~eVl~e--f~~fl~~~~Lv-----~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~--- 258 (379)
+.+ -+|++-+.+ .++.++...-++ ..+.++-+.+. ....+|.|++-+|+ .||-+.+-. ++|.
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-MYLYKKFIG---PLPETLE 177 (262)
T ss_dssp HHHHHHHTT--HHHHHHH-B-HHHHHHHHHHHHHHHTCCCSSHCHCC-SEEEESSTHHHH-HHHHHHHTT---S--SSHH
T ss_pred hHHHHHHcccCHHHHHHhCCCcccccccchhhhhHHHHHHHHHhhccCCcEEEeChHhHH-HHHHHHhcC---CCCCCHH
Confidence 222 257766555 356665443321 11344434332 23567788899997 677665432 3441
Q ss_pred --------CCCceeehHHHHHHhcCCCCCCHHHHHHHcCCCC-----------------------CCC-CCCHHHHHHHH
Q 016965 259 --------YFNRWINLKVPFHEVFGGVRCNLKEAVEMAGLAW-----------------------QGR-AHCGLDDAKNT 306 (379)
Q Consensus 259 --------~~~~~iDt~~l~r~l~~~~~~rL~~l~~~~gI~~-----------------------~g~-~HrAL~DA~aT 306 (379)
++..++||+-++.... ....+|..+.+.++... .+. .|.|-.||+.|
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 1224678876665322 34568999999999764 344 89999999999
Q ss_pred HHHHHH
Q 016965 307 ARLLAL 312 (379)
Q Consensus 307 A~Ll~~ 312 (379)
+.+|.+
T Consensus 257 g~~F~~ 262 (262)
T PF04857_consen 257 GCVFIK 262 (262)
T ss_dssp HHHHHH
T ss_pred HHHHcC
Confidence 999863
No 66
>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=98.08 E-value=8.9e-05 Score=69.43 Aligned_cols=122 Identities=15% Similarity=0.025 Sum_probs=82.5
Q ss_pred cEEEEEEeeCCCCCC-----CCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHH
Q 016965 137 YFVVIDFEATCDKDK-----NPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLS 211 (379)
Q Consensus 137 ~fVV~D~ETTGl~g~-----~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~ 211 (379)
..+.||+||+...+. ++..+.||.||... .++. ... +. ....+..
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 789999999876542 34668999999742 1221 000 10 0257889
Q ss_pred HHHHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCC-------------C---------------CCc
Q 016965 212 EALLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPP-------------Y---------------FNR 262 (379)
Q Consensus 212 eVl~ef~~fl~~~~Lv~hn~iVVh~~-~FDlr~fL~~~~~~~gi~~P~-------------~---------------~~~ 262 (379)
+.|..|++++..... .+++.+|+ .||+ .+|...++++|+..+. . ...
T Consensus 60 ~lL~~f~~~i~~~dP---dii~g~N~~~FD~-pyl~~R~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~i~Gr~ 135 (207)
T cd05785 60 ELLEELVAIIRERDP---DVIEGHNIFRFDL-PYLRRRCRRHGVPLAIGRDGSIPRQRPSRFRFAERLIDYPRYDIPGRH 135 (207)
T ss_pred HHHHHHHHHHHHhCC---CEEeccCCcccCH-HHHHHHHHHhCCCcccccCCCcceEeeccccccccccccceEEecCEE
Confidence 999999999998421 23333444 8997 8999999999887631 0 012
Q ss_pred eeehHHHHHHh----cCCCCCCHHHHHHHcCCCC
Q 016965 263 WINLKVPFHEV----FGGVRCNLKEAVEMAGLAW 292 (379)
Q Consensus 263 ~iDt~~l~r~l----~~~~~~rL~~l~~~~gI~~ 292 (379)
.+|+..++++. +...+++|+++++.||+..
T Consensus 136 ~iDl~~~~~~~~~~~~~l~sysL~~Va~~~g~~~ 169 (207)
T cd05785 136 VIDTYFLVQLFDVSSRDLPSYGLKAVAKHFGLAS 169 (207)
T ss_pred EEEcHHHHHhhcccccCCCCCCHHHHHHHhcccC
Confidence 27888877752 3456899999999998754
No 67
>PRK05755 DNA polymerase I; Provisional
Probab=98.05 E-value=4e-05 Score=85.76 Aligned_cols=136 Identities=21% Similarity=0.176 Sum_probs=95.0
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 215 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ 215 (379)
..+++||+||||+ ++..++|+.|++. . .+|.. .+|.+. +|. .++++
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 4789999999988 5678999998863 3 34421 233221 111 16788
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCHHHHHHHc-CCCC--
Q 016965 216 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAVEMA-GLAW-- 292 (379)
Q Consensus 216 ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~~~~rL~~l~~~~-gI~~-- 292 (379)
.|.+|+++..+ ..|.|++.||+ .||.+ .|+..| ..++||+..+..+.+...++|++++++| |+..
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 24677789996 78863 477653 5689998766655554348999999887 5541
Q ss_pred ----------------CCCCCCHHHHHHHHHHHHHHHHHhc
Q 016965 293 ----------------QGRAHCGLDDAKNTARLLALLMHRG 317 (379)
Q Consensus 293 ----------------~g~~HrAL~DA~aTA~Ll~~ll~~~ 317 (379)
+...|.|..|+.+|.+|+..|.+..
T Consensus 429 ~~~~~gk~~~~~~~ple~~~~YAa~Dv~~~~~L~~~L~~~L 469 (880)
T PRK05755 429 FEEVAGKQLTFAQVDLEEAAEYAAEDADVTLRLHEVLKPKL 469 (880)
T ss_pred hHHhcCCCCCccccCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 0123789999999999999998764
No 68
>smart00481 POLIIIAc DNA polymerase alpha chain like domain. DNA polymerase alpha chain like domain, incl. family of hypothetical proteins
Probab=97.92 E-value=4e-06 Score=64.08 Aligned_cols=52 Identities=10% Similarity=0.098 Sum_probs=47.2
Q ss_pred cccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCcccccccccccCcccccchhcc
Q 016965 45 IVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFYPDSQKVHHCQMNSFESQ 104 (379)
Q Consensus 45 ~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~~~~~k~~~~~~~g~e~~ 104 (379)
+..++.+++++|+++|.++++||| |+.++++++++...++.|+++++|+|..
T Consensus 13 ~~~~~~~~~~~a~~~g~~~v~iTD--------h~~~~~~~~~~~~~~~~gi~~i~G~E~~ 64 (67)
T smart00481 13 GALSPEELVKRAKELGLKAIAITD--------HGNLFGAVEFYKAAKKAGIKPIIGLEAN 64 (67)
T ss_pred ccCCHHHHHHHHHHcCCCEEEEee--------CCcccCHHHHHHHHHHcCCeEEEEEEEE
Confidence 455788999999999999999999 7888899999988888999999999876
No 69
>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=97.83 E-value=0.00064 Score=63.99 Aligned_cols=130 Identities=19% Similarity=0.182 Sum_probs=88.3
Q ss_pred CCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHHHHHHHhhcCCCCccEEE
Q 016965 154 YPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLRHDKWLENKGIKNTNFAV 233 (379)
Q Consensus 154 ~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ef~~fl~~~~Lv~hn~iV 233 (379)
.-.+||.|+++.++ .++.+ +-.++-.+ .-+..+.+.+|.+++.... ..+
T Consensus 7 ~f~kIV~Is~~~~~-~~~~~--~v~s~~~~-----------------------~~~E~~lL~~F~~~~~~~~-----p~L 55 (209)
T PF10108_consen 7 PFHKIVCISVVYAD-DDGQF--KVKSLGGP-----------------------DDDEKELLQDFFDLVEKYN-----PQL 55 (209)
T ss_pred cCCCeEEEEEEEEe-cCCcE--EEEeccCC-----------------------CCCHHHHHHHHHHHHHhCC-----CeE
Confidence 45899999999886 33333 12222111 1236889999999998642 234
Q ss_pred EE-c-CcchHHHHHHHHHHHcCCCCCCCCC---------------ceeehHHHHHHhcC-CCCCCHHHHHHHcCCCCCCC
Q 016965 234 VT-W-SNWDCRVMLESECRFKKIWKPPYFN---------------RWINLKVPFHEVFG-GVRCNLKEAVEMAGLAWQGR 295 (379)
Q Consensus 234 Vh-~-~~FDlr~fL~~~~~~~gi~~P~~~~---------------~~iDt~~l~r~l~~-~~~~rL~~l~~~~gI~~~g~ 295 (379)
|+ | ..||+ .||....-.+|++.|.+.+ +-+||..++.. +| ....+|+.+|..+|||-...
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 44 4 47997 8999888899999875432 23778776543 44 34679999999999985211
Q ss_pred C------------------CCHHHHHHHHHHHHHHHHHh
Q 016965 296 A------------------HCGLDDAKNTARLLALLMHR 316 (379)
Q Consensus 296 ~------------------HrAL~DA~aTA~Ll~~ll~~ 316 (379)
- .--..|+++|+.||.++..-
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 1 11267999999999999754
No 70
>KOG4793 consensus Three prime repair exonuclease [Replication, recombination and repair]
Probab=97.67 E-value=8.8e-05 Score=71.71 Aligned_cols=173 Identities=15% Similarity=0.113 Sum_probs=110.8
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEE-----EcC-------------CCeEEeEEEEeecCCCCCCCCcchhhhc
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIV-----SSV-------------TGQLEACFQTYVRPTCNQLLSDFCKDLT 197 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~v-----d~~-------------~g~i~d~F~~~VkP~~~~~Ls~~~~~LT 197 (379)
.+|+++|+|+||+.+ ...+|-|+...-| +.+ .-++.+.-+-+..|.. ..++...++|
T Consensus 13 ~tf~fldleat~lp~---~~~~iteLcLlav~assle~k~~e~dq~~~~tlp~~Rvl~Klsvl~~p~~--v~~p~aeeit 87 (318)
T KOG4793|consen 13 RTFSFLDLEATGLPG---WIPNITELCLLAVHASSLEGKAREIDQNVSTTLPGSRVLDKLSVLGGPVP--VTRPIAEEIT 87 (318)
T ss_pred eEEEeeeeccccCCc---ccccchhhhHHHHHHHhhcCCccccccCCCccCCccchhhhhhhccCCcC--CcChhhhhhc
Confidence 599999999999954 4556666643322 211 1134566777778875 5788899999
Q ss_pred CCChHHH--hCCCCHHH-HHHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCCCCCceeehH------
Q 016965 198 GIQQIQV--DRGVTLSE-ALLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPPYFNRWINLK------ 267 (379)
Q Consensus 198 GIT~~~V--~~Ap~~~e-Vl~ef~~fl~~~~Lv~hn~iVVh~~-~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~------ 267 (379)
|.++.-+ ..---|+. +.+-+..|+..-. .--+.|+|+| .||+ .+|.+++...|+..|. +....|..
T Consensus 88 gls~~~~~l~rr~~~D~dla~LL~afls~lp--~p~CLVaHng~~~df-pil~qela~lg~~lpq-~lvcvdslpa~~al 163 (318)
T KOG4793|consen 88 GLSQPFLALQRRLAFDKDLAKLLTAFLSRLP--TPGCLVAHNGNEYDF-PILAQELAGLGYSLPQ-DLVCVDSLPALNAL 163 (318)
T ss_pred ccccHHHHHHHHhhhhHHHHHHHHHHHhcCC--CCceEEeecCCcccc-HHHHHHHHhcCccchh-hhcCcchhHHHHHH
Confidence 9999554 33334444 4455667776542 1123455665 5786 8899999988887651 11111211
Q ss_pred -----------------------------------------------------HH-------------HHHhcC------
Q 016965 268 -----------------------------------------------------VP-------------FHEVFG------ 275 (379)
Q Consensus 268 -----------------------------------------------------~l-------------~r~l~~------ 275 (379)
++ .+.+|+
T Consensus 164 d~a~s~~tr~~~~~~~~l~~If~ry~~q~eppa~~~~e~d~~~l~~~fqf~~~ellR~~deqa~pw~~ir~l~~~~~~a~ 243 (318)
T KOG4793|consen 164 DRANSMVTRPEVRRMYSLGSIFLRYVEQREPPAGHVAEGDVNGLLFIFQFRINELLRWSDEQARPWLLIRPLYLARENAK 243 (318)
T ss_pred hhhcCcccCCCCCcccccchHHHhhhcccCCCcceeeecccchhHHHHHHHHHHHHhhHhhcCCCcccccchhhhhhhcc
Confidence 00 011221
Q ss_pred ------CCCCCHHHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHhc
Q 016965 276 ------GVRCNLKEAVEMAGLAWQGRAHCGLDDAKNTARLLALLMHRG 317 (379)
Q Consensus 276 ------~~~~rL~~l~~~~gI~~~g~~HrAL~DA~aTA~Ll~~ll~~~ 317 (379)
...++|..++.++.+...+.+|||+.|...+.++++++--+.
T Consensus 244 ~~~P~p~~vs~le~Lat~~~~~p~l~ahra~~Dv~~~~k~~q~~~idl 291 (318)
T KOG4793|consen 244 SVEPTPKLVSSLEALATYYSLTPELDAHRALSDVLLLSKVFQKLTIDL 291 (318)
T ss_pred ccCCCCccchhHHHHHHHhhcCcccchhhhccccchhhhHHHHhhhhh
Confidence 113578888988888777789999999999999999875443
No 71
>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=97.59 E-value=0.0029 Score=59.16 Aligned_cols=136 Identities=17% Similarity=0.088 Sum_probs=80.3
Q ss_pred cEEEEEEeeCCCC-CCCC--C--CCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHH
Q 016965 137 YFVVIDFEATCDK-DKNP--Y--PQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLS 211 (379)
Q Consensus 137 ~fVV~D~ETTGl~-g~~~--~--~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~ 211 (379)
..++||+||++.. ++-| . .+.||+|+.+ + .+|. ..+ .+++..... ..+... .....+..-.+..
T Consensus 6 rilsfDIE~~~~~~~~fP~~~~~~d~IisI~~~--~-~~~~--~~v-~~~~~~~~~-~~~~~~----~~~~~v~~~~~E~ 74 (204)
T cd05783 6 KRIAIDIEVYTPIKGRIPDPKTAEYPVISVALA--G-SDGL--KRV-LVLKREGVE-GLEGLL----PEGAEVEFFDSEK 74 (204)
T ss_pred eEEEEEEEECCCCCCCCcCCCCCCCeEEEEEEc--C-CCCC--cEE-EEEecCCcc-cccccC----CCCCeEEecCCHH
Confidence 7899999999642 2223 2 3789999875 2 1231 112 222211100 000000 0012244457899
Q ss_pred HHHHHHHHHHhhcCCCCccEEEEEc--CcchHHHHHHHHHHHcCCC---CCCC---------CCceeehHHHHHH-h---
Q 016965 212 EALLRHDKWLENKGIKNTNFAVVTW--SNWDCRVMLESECRFKKIW---KPPY---------FNRWINLKVPFHE-V--- 273 (379)
Q Consensus 212 eVl~ef~~fl~~~~Lv~hn~iVVh~--~~FDlr~fL~~~~~~~gi~---~P~~---------~~~~iDt~~l~r~-l--- 273 (379)
+.|.+|.+++.+. . ++++| .+||+ .||..-++++|+. .|.. ....+|+...++. .
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 45555 47997 8999999999887 2211 1235788765543 1
Q ss_pred --c--CCCCCCHHHHHHHc-CC
Q 016965 274 --F--GGVRCNLKEAVEMA-GL 290 (379)
Q Consensus 274 --~--~~~~~rL~~l~~~~-gI 290 (379)
+ +..+++|+++++.+ |.
T Consensus 148 ~~~~~~~~~~~L~~Va~~~lg~ 169 (204)
T cd05783 148 YAFGNKYREYTLDAVAKALLGE 169 (204)
T ss_pred hhhccccccCcHHHHHHHhcCC
Confidence 2 23688999999866 54
No 72
>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=97.56 E-value=0.0056 Score=57.94 Aligned_cols=135 Identities=15% Similarity=0.116 Sum_probs=86.0
Q ss_pred cEEEEEEeeCCCCC--CCCCCCcEEEEceEEEEcCCCe--EEeEEEEe-ecCCCCCCCCcchhhhcCCChHHHhCCCCHH
Q 016965 137 YFVVIDFEATCDKD--KNPYPQEIIEFPSVIVSSVTGQ--LEACFQTY-VRPTCNQLLSDFCKDLTGIQQIQVDRGVTLS 211 (379)
Q Consensus 137 ~fVV~D~ETTGl~g--~~~~~deIIEIGAV~vd~~~g~--i~d~F~~~-VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~ 211 (379)
..++||+||+...| .+|..|+||.|+.+.-. +|. ...+ ..+ +++.. + ++ ...|..-++..
T Consensus 8 ~~ls~DIE~~s~~g~fP~p~~D~Ii~Is~~~~~--~~~~~~~~~-~~~~l~~~~-~-~~----------~~~v~~~~~E~ 72 (230)
T cd05777 8 RILSFDIECAGRKGVFPEPEKDPVIQIANVVTR--QGEGEPFIR-NIFTLKTCA-P-IV----------GAQVFSFETEE 72 (230)
T ss_pred eEEEEEEEECCCCCCCCCCCCCeEEEEEEEEEe--CCCCCCcee-EEEEeCCCC-C-CC----------CCEEEEECCHH
Confidence 68999999997644 35678999999988542 232 1111 112 22221 1 21 22334457899
Q ss_pred HHHHHHHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCCC-CC------------------------------
Q 016965 212 EALLRHDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWKP-PY------------------------------ 259 (379)
Q Consensus 212 eVl~ef~~fl~~~~Lv~hn~iVVh~-~~FDlr~fL~~~~~~~gi~~P-~~------------------------------ 259 (379)
+.+..|.+++..... .+++.++ -+||+ .+|..-++..|+..- .+
T Consensus 73 eLL~~f~~~i~~~DP---Dii~GyN~~~FDl-~yL~~R~~~l~i~~~~~lgR~~~~~~~~~~~~~~~~~~g~~~~~~~~i 148 (230)
T cd05777 73 ELLLAWRDFVQEVDP---DIITGYNICNFDL-PYLLERAKALKLNTFPFLGRIKNIKSTIKDTTFSSKQMGTRETKEINI 148 (230)
T ss_pred HHHHHHHHHHHhcCC---CEEEEecCCCCCH-HHHHHHHHHhCCccccccccccCCceeEeCCcccccccccccceEEEE
Confidence 999999999987521 3344444 47997 888888888776520 00
Q ss_pred -CCceeehHHHHHHhcCCCCCCHHHHHH-HcCC
Q 016965 260 -FNRWINLKVPFHEVFGGVRCNLKEAVE-MAGL 290 (379)
Q Consensus 260 -~~~~iDt~~l~r~l~~~~~~rL~~l~~-~~gI 290 (379)
..-.+|+...+++.+...+++|+++++ .+|-
T Consensus 149 ~GR~~iD~~~~~~~~~kl~sy~L~~Va~~~Lg~ 181 (230)
T cd05777 149 EGRIQFDLLQVIQRDYKLRSYSLNSVSAHFLGE 181 (230)
T ss_pred cCEEeeeHHHHHHHhcCcccCcHHHHHHHHhCC
Confidence 012357777777777778899999987 4553
No 73
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=97.45 E-value=3.8e-05 Score=87.38 Aligned_cols=54 Identities=7% Similarity=0.027 Sum_probs=49.5
Q ss_pred ccccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCcccccccccccCcccccchhccc
Q 016965 44 TIVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFYPDSQKVHHCQMNSFESQF 105 (379)
Q Consensus 44 ~~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~~~~~k~~~~~~~g~e~~~ 105 (379)
.++..+.++|++|+++|++|+|||| |++..+-++.|.+++++|+|.|.|+|.++
T Consensus 16 dg~~~i~~lv~~A~~~g~~alAlTD--------h~~m~Ga~~F~~~a~~~gIkPIiG~e~~v 69 (1107)
T PRK06920 16 KSACKIDELVVRAKELGYSSLAITD--------ENVMYGVIPFYKACKKHGIHPIIGLTASI 69 (1107)
T ss_pred ccCCCHHHHHHHHHHCCCCEEEEEe--------CChHhHHHHHHHHHHHcCCCEeeeeEEEE
Confidence 4567899999999999999999999 77778999999999999999999999884
No 74
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=97.45 E-value=4.5e-05 Score=86.03 Aligned_cols=54 Identities=11% Similarity=0.020 Sum_probs=49.7
Q ss_pred ccccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCcccccccccccCcccccchhccc
Q 016965 44 TIVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFYPDSQKVHHCQMNSFESQF 105 (379)
Q Consensus 44 ~~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~~~~~k~~~~~~~g~e~~~ 105 (379)
.++..+.++|++|+++|.+|||||| |++..+-++.|.+++|+|+|.|.|+|.++
T Consensus 15 dg~~~i~~lv~~A~~~g~~alAlTD--------~~~m~Ga~~F~~~a~~~gIkPIiG~e~~v 68 (1034)
T PRK07279 15 DSLIDLEKYVERAKELGYQTIGIMD--------KDNLYGAYHFIEGAQKNGLQPILGLELNI 68 (1034)
T ss_pred cccCCHHHHHHHHHHCCCCEEEEEc--------CCccccHHHHHHHHHHcCCcEEEEEEEEE
Confidence 4577889999999999999999999 77778999999999999999999999874
No 75
>TIGR03491 RecB family nuclease, putative, TM0106 family. Members of this uncharacterized protein family are found broadly but sporadically among bacteria. The N-terminal region is homologous to the Cas4 protein of CRISPR systems, although this protein family shows no signs of association with CRISPR repeats.
Probab=97.39 E-value=0.0019 Score=67.36 Aligned_cols=123 Identities=12% Similarity=0.160 Sum_probs=87.0
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 215 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ 215 (379)
...++|||||+ |+..-.--+|++..+ +|...++|..|..... ....+++.
T Consensus 284 ~~~~ffDiEt~------P~~~~~yL~G~~~~~--~~~~~~~~~~fla~~~----------------------~~E~~~~~ 333 (457)
T TIGR03491 284 PGELIFDIESD------PDENLDYLHGFLVVD--KGQENEKYRPFLAEDP----------------------NTEELAWQ 333 (457)
T ss_pred CccEEEEecCC------CCCCCceEEEEEEec--CCCCCcceeeeecCCc----------------------hHHHHHHH
Confidence 46789999998 344556788887653 4433334655553331 23567899
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCC---CCCCceeehHHHHHHhc--CCCCCCHHHHHHHcCC
Q 016965 216 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKP---PYFNRWINLKVPFHEVF--GGVRCNLKEAVEMAGL 290 (379)
Q Consensus 216 ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P---~~~~~~iDt~~l~r~l~--~~~~~rL~~l~~~~gI 290 (379)
+|.+|+.... +..|+||++++ ...|++-+.++|.... .+..+++|+....+..+ |..+++|+.++..+|.
T Consensus 334 ~f~~~l~~~~----~~~i~hY~~~e-~~~l~rla~~~~~~~~~~~~l~~~~vDL~~~vr~~~~~p~~sysLK~v~~~lg~ 408 (457)
T TIGR03491 334 QFLQLLQSYP----DAPIYHYGETE-KDSLRRLAKRYGTPEAEIEELLKRFVDIHTIVRRSWILPIESYSLKSIARWLGF 408 (457)
T ss_pred HHHHHHHHCC----CCeEEeeCHHH-HHHHHHHHHHcCCCHHHHHHHHHHheehHHHHHhhEECCCCCCCHHHHHHHhCc
Confidence 9999998742 45789999999 4899998888876521 12237899987776543 5678999999999999
Q ss_pred CCC
Q 016965 291 AWQ 293 (379)
Q Consensus 291 ~~~ 293 (379)
.+.
T Consensus 409 ~~~ 411 (457)
T TIGR03491 409 EWR 411 (457)
T ss_pred ccC
Confidence 765
No 76
>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=97.10 E-value=0.016 Score=53.78 Aligned_cols=122 Identities=11% Similarity=0.019 Sum_probs=77.7
Q ss_pred cEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHH
Q 016965 137 YFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLR 216 (379)
Q Consensus 137 ~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~e 216 (379)
..+.||+||+|. .+|+.||.. +.+...++ .+=.+.. .. | ..+.--++..+.+..
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 689999999964 289999863 22333321 1111111 11 1 123344688899999
Q ss_pred HHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCCCCCC-----------------------CceeehHHHHHH
Q 016965 217 HDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWKPPYF-----------------------NRWINLKVPFHE 272 (379)
Q Consensus 217 f~~fl~~~~Lv~hn~iVVh~-~~FDlr~fL~~~~~~~gi~~P~~~-----------------------~~~iDt~~l~r~ 272 (379)
|.+++..... ++++.+| ..||+ .+|..-++.+|+..+ +. .-.+|+..+.+.
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 9999987632 2333344 47997 899988888887642 11 015688777765
Q ss_pred -hcCCCCCCHHHHHHHcC
Q 016965 273 -VFGGVRCNLKEAVEMAG 289 (379)
Q Consensus 273 -l~~~~~~rL~~l~~~~g 289 (379)
.++..+++|+++++++.
T Consensus 133 ~~~kl~sy~L~~Va~~~L 150 (193)
T cd05784 133 ATYHFESFSLENVAQELL 150 (193)
T ss_pred ccCCCCcCCHHHHHHHHh
Confidence 56778999999998543
No 77
>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=97.06 E-value=0.00019 Score=63.13 Aligned_cols=51 Identities=12% Similarity=0.207 Sum_probs=46.8
Q ss_pred cccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCcccccccccccCcccccchhc
Q 016965 45 IVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFYPDSQKVHHCQMNSFES 103 (379)
Q Consensus 45 ~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~~~~~k~~~~~~~g~e~ 103 (379)
+..++.++|++|++.|.++||||| |....++|..+...++.+++++.|+|.
T Consensus 14 g~~~~~e~v~~A~~~Gl~~i~iTD--------H~~~~~~~~~~~~~~~~~i~vi~G~E~ 64 (175)
T PF02811_consen 14 GKDSPEEYVEQAKEKGLDAIAITD--------HNNFAGYPDFYKEAKKKGIKVIPGVEI 64 (175)
T ss_dssp SSSSHHHHHHHHHHTTESEEEEEE--------ETTTTTHHHHHHHHHHTTSEEEEEEEE
T ss_pred hcCCHHHHHHHHHHcCCCEEEEcC--------CcccccchHHHHHHHhcCCceEEeEee
Confidence 455889999999999999999999 888889999999899999999999996
No 78
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=97.03 E-value=0.00021 Score=80.42 Aligned_cols=54 Identities=6% Similarity=-0.002 Sum_probs=49.8
Q ss_pred ccccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCcccccccccccCcccccchhccc
Q 016965 44 TIVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFYPDSQKVHHCQMNSFESQF 105 (379)
Q Consensus 44 ~~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~~~~~k~~~~~~~g~e~~~ 105 (379)
.++.+++++|++|+++|.+|||||| |+++.+++++|.++++.|+|.|.|+|.++
T Consensus 16 Dg~~~~~elv~~Ak~~G~~avAITD--------h~~l~G~~~f~~~a~~~gIkpIiG~Ei~~ 69 (973)
T PRK07135 16 SSTIKLDSLIKYAKENNLKTLVLTD--------HNNMFGVPKFYKLCKKNNIKPIIGLDLEV 69 (973)
T ss_pred ccCCCHHHHHHHHHHcCCCEEEEec--------CCcHHhHHHHHHHHHHcCCeEEEeEEEEe
Confidence 3677899999999999999999999 88888999999999999999999999864
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=96.90 E-value=0.077 Score=53.96 Aligned_cols=161 Identities=17% Similarity=0.060 Sum_probs=98.2
Q ss_pred cEEEEEEeeCCCCCCC--CC--CCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHH
Q 016965 137 YFVVIDFEATCDKDKN--PY--PQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSE 212 (379)
Q Consensus 137 ~fVV~D~ETTGl~g~~--~~--~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~e 212 (379)
..++||+||+...+.. +. .++||.|+.+.-+...............|.. .++ |+ .+..-.+..+
T Consensus 4 ~~~~~DIEt~~~~~~~p~~~~~~~~ii~i~~~~~~~~~~~~~~~~~~~~~~~~--~~~-------~~---~~~~~~~E~~ 71 (471)
T smart00486 4 KILSFDIETYTDGGLFPDPLIFEDEIIQISLVINDGDKKGPEERICFTLGTCK--EID-------GV---EVYEFNNEKE 71 (471)
T ss_pred eEEEEEEEECCCCCCCCCCCCCCCeEEEEEEEEEECCCCCCceeEEEEecCcC--CCC-------CC---eEEecCCHHH
Confidence 6899999999763311 22 6899999988775322112222223333332 122 22 2222237888
Q ss_pred HHHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCC----------C---------------------C
Q 016965 213 ALLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPP----------Y---------------------F 260 (379)
Q Consensus 213 Vl~ef~~fl~~~~Lv~hn~iVVh~~-~FDlr~fL~~~~~~~gi~~P~----------~---------------------~ 260 (379)
.+..|.+++..... .+++.|++ .||+ .||...+...++.... . .
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 99999999987532 34555664 6997 8888877766553210 0 0
Q ss_pred CceeehHHHHHHhcCCCCCCHHHHHHHcCC-CCCCCC-------------------CCHHHHHHHHHHHHHHH
Q 016965 261 NRWINLKVPFHEVFGGVRCNLKEAVEMAGL-AWQGRA-------------------HCGLDDAKNTARLLALL 313 (379)
Q Consensus 261 ~~~iDt~~l~r~l~~~~~~rL~~l~~~~gI-~~~g~~-------------------HrAL~DA~aTA~Ll~~l 313 (379)
.-.+|+..+++..++..+++|+.+++.+.- ....-. ..-+.||..+.+|+.++
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 234688888888887778999998876443 111000 01156888888888875
No 80
>COG3359 Predicted exonuclease [DNA replication, recombination, and repair]
Probab=96.90 E-value=0.0093 Score=57.35 Aligned_cols=117 Identities=15% Similarity=0.094 Sum_probs=70.2
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHH-HHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLS-EAL 214 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~-eVl 214 (379)
+++++||+||||| +...+.|+=.|...+. ++. ..||-.. ++ ||.-+ -++
T Consensus 98 e~~~FFDiETTGL---~~ag~~I~~~g~a~~~--~~~------~~Vrq~~---lp----------------~p~~E~avl 147 (278)
T COG3359 98 EDVAFFDIETTGL---DRAGNTITLVGGARGV--DDT------MHVRQHF---LP----------------APEEEVAVL 147 (278)
T ss_pred cceEEEeeecccc---CCCCCeEEEEEEEEcc--Cce------EEEEeec---CC----------------CcchhhHHH
Confidence 5899999999999 3456677766666552 333 2344432 22 22222 244
Q ss_pred HHHHHHHhhcCCCCccEEEEE-c-CcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC--CCCCCHHHHHHHcCC
Q 016965 215 LRHDKWLENKGIKNTNFAVVT-W-SNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG--GVRCNLKEAVEMAGL 290 (379)
Q Consensus 215 ~ef~~fl~~~~Lv~hn~iVVh-~-~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~--~~~~rL~~l~~~~gI 290 (379)
+.|+..... | .+|+ | ..||. .|+++ +.+..+++- +.+.-+|+.-..|++-+ +.+.+|+.+=+.+|+
T Consensus 148 e~fl~~~~~------~-~lvsfNGkaFD~-PfikR-~v~~~~el~-l~~~H~DL~h~~RRlwk~~l~~c~Lk~VEr~LGi 217 (278)
T COG3359 148 ENFLHDPDF------N-MLVSFNGKAFDI-PFIKR-MVRDRLELS-LEFGHFDLYHPSRRLWKHLLPRCGLKTVERILGI 217 (278)
T ss_pred HHHhcCCCc------c-eEEEecCcccCc-HHHHH-HHhcccccC-ccccchhhhhhhhhhhhccCCCCChhhHHHHhCc
Confidence 555443311 3 3555 4 47995 99995 555555542 23445788766666654 246789988888888
Q ss_pred CC
Q 016965 291 AW 292 (379)
Q Consensus 291 ~~ 292 (379)
..
T Consensus 218 ~R 219 (278)
T COG3359 218 RR 219 (278)
T ss_pred cc
Confidence 64
No 81
>PTZ00166 DNA polymerase delta catalytic subunit; Provisional
Probab=96.86 E-value=0.026 Score=64.68 Aligned_cols=162 Identities=17% Similarity=0.116 Sum_probs=99.3
Q ss_pred cEEEEEEeeCCCCC---CCCCCCcEEEEceEEEEcCCCeEEeEEEEee-cCCCCCCCCcchhhhcCCChHHHhCCCCHHH
Q 016965 137 YFVVIDFEATCDKD---KNPYPQEIIEFPSVIVSSVTGQLEACFQTYV-RPTCNQLLSDFCKDLTGIQQIQVDRGVTLSE 212 (379)
Q Consensus 137 ~fVV~D~ETTGl~g---~~~~~deIIEIGAV~vd~~~g~i~d~F~~~V-kP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~e 212 (379)
..+.||+||++..| .++..|.||+|+.+... .|.-.+.+...| -+. .+..+.| ..|..-.+..+
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 68999999998654 24568999999998653 333211121111 111 0111222 33445678999
Q ss_pred HHHHHHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCC-CC--------------------CC----------
Q 016965 213 ALLRHDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWK-PP--------------------YF---------- 260 (379)
Q Consensus 213 Vl~ef~~fl~~~~Lv~hn~iVVh~-~~FDlr~fL~~~~~~~gi~~-P~--------------------~~---------- 260 (379)
.|..|.+|+..... ++++.++ .+||+ .+|..-++..|+.. +. +.
T Consensus 333 LL~~f~~~I~~~DP---DII~GYNi~~FDl-pYL~~Ra~~l~i~~~~~lgR~~~~~~~~~~~~~~~~~~g~~~~~~~~i~ 408 (1054)
T PTZ00166 333 LLLAWAEFVIAVDP---DFLTGYNIINFDL-PYLLNRAKALKLNDFKYLGRIKSTRSVIKDSKFSSKQMGTRESKEINIE 408 (1054)
T ss_pred HHHHHHHHHHhcCC---CEEEecCCcCCcH-HHHHHHHHHhCCCchhhcCcccCCCccccccccccccccccccceeEee
Confidence 99999999987532 3334444 37997 78887777766541 10 00
Q ss_pred -CceeehHHHHHHhcCCCCCCHHHHHHH-cCCCCCC------------CCC-------CHHHHHHHHHHHHHHHH
Q 016965 261 -NRWINLKVPFHEVFGGVRCNLKEAVEM-AGLAWQG------------RAH-------CGLDDAKNTARLLALLM 314 (379)
Q Consensus 261 -~~~iDt~~l~r~l~~~~~~rL~~l~~~-~gI~~~g------------~~H-------rAL~DA~aTA~Ll~~ll 314 (379)
.-.+|+..++++.+...+++|++++.+ +|..... +.+ -.+.||..+.+|+.++.
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 123677778887777889999999984 4532211 111 12678888888888763
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=96.81 E-value=0.088 Score=50.08 Aligned_cols=172 Identities=11% Similarity=-0.043 Sum_probs=103.2
Q ss_pred cEEEEEEeeCCCCC--CCCCCCcEEEEceEEEEcCCCeEE-----eEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCC
Q 016965 137 YFVVIDFEATCDKD--KNPYPQEIIEFPSVIVSSVTGQLE-----ACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVT 209 (379)
Q Consensus 137 ~fVV~D~ETTGl~g--~~~~~deIIEIGAV~vd~~~g~i~-----d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~ 209 (379)
+...||+||.+-.+ .+|..|.|+.|+.+.-+ +.... ...--++.+.... .+.. .....+....|.--++
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 77899999986533 34678999999988543 22211 1122334443210 1100 1112344455667888
Q ss_pred HHHHHHHHHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCCC--C------------------CC--------
Q 016965 210 LSEALLRHDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWKP--P------------------YF-------- 260 (379)
Q Consensus 210 ~~eVl~ef~~fl~~~~Lv~hn~iVVh~-~~FDlr~fL~~~~~~~gi~~P--~------------------~~-------- 260 (379)
..+.+..|.+++..... .+++.++ .+||+ ++|..-++..++..- . +.
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 99999999999987532 3333333 48997 788777766554320 0 00
Q ss_pred ---CceeehHHHHHHhcCCCCCCHHHHHH-HcCCCCCCCCCCHHHHHH------HHHHHHHHHHHh
Q 016965 261 ---NRWINLKVPFHEVFGGVRCNLKEAVE-MAGLAWQGRAHCGLDDAK------NTARLLALLMHR 316 (379)
Q Consensus 261 ---~~~iDt~~l~r~l~~~~~~rL~~l~~-~~gI~~~g~~HrAL~DA~------aTA~Ll~~ll~~ 316 (379)
.-.+|+..+.+..+...+|+|+.++. .+|-....-++..+.+.. ..++++...+++
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 01347777777777788999999997 577644333455666653 445666666655
No 83
>PRK09532 DNA polymerase III subunit alpha; Reviewed
Probab=96.79 E-value=0.00047 Score=77.09 Aligned_cols=53 Identities=4% Similarity=-0.172 Sum_probs=48.1
Q ss_pred cccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCcccccccccccCcccccchhccc
Q 016965 45 IVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFYPDSQKVHHCQMNSFESQF 105 (379)
Q Consensus 45 ~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~~~~~k~~~~~~~g~e~~~ 105 (379)
++.++.++|++|++.|.+|||||| |+++.+.++.+.+.++.|++.|.|+|.++
T Consensus 17 g~~~~~elv~~A~~~G~~aiAiTD--------h~~~~g~~~f~~~~~~~gik~I~G~E~~~ 69 (874)
T PRK09532 17 GASQLPALVDRAIELGMPAIALTD--------HGVMYGAIELLKVCRNKGIKPIIGNEMYV 69 (874)
T ss_pred ccCCHHHHHHHHHHCCCCEEEEec--------CCChhhHHHHHHHHHHcCCeEEEEEEEEe
Confidence 566899999999999999999999 77777888999999999999999999984
No 84
>PRK05898 dnaE DNA polymerase III DnaE; Validated
Probab=96.78 E-value=0.00054 Score=76.95 Aligned_cols=54 Identities=9% Similarity=0.110 Sum_probs=48.6
Q ss_pred ccccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCcccccccccccCcccccchhccc
Q 016965 44 TIVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFYPDSQKVHHCQMNSFESQF 105 (379)
Q Consensus 44 ~~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~~~~~k~~~~~~~g~e~~~ 105 (379)
.++.++.++|++|++.|.+|+|||| |++..+=++.|.+++++|+|.|.|+|.++
T Consensus 15 dg~~~~~~lv~~A~e~g~~alALTD--------~~nl~GaveF~~~ak~~gIkPIiG~e~~v 68 (971)
T PRK05898 15 SSTLSIDDIIKFALDNNQPYVCLTD--------LNNLYGCIEFYDKAKAHNLIPIIGLEIEY 68 (971)
T ss_pred cccCCHHHHHHHHHHCCCCEEEEEe--------CCccccHHHHHHHHHHcCCCEEEEEEEEE
Confidence 3567889999999999999999999 66667888999999999999999999874
No 85
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=96.45 E-value=0.0011 Score=75.58 Aligned_cols=54 Identities=6% Similarity=-0.047 Sum_probs=48.8
Q ss_pred ccccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCcccccccccccCcccccchhccc
Q 016965 44 TIVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFYPDSQKVHHCQMNSFESQF 105 (379)
Q Consensus 44 ~~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~~~~~k~~~~~~~g~e~~~ 105 (379)
.++.+++++|++|++.|++|||||| |++..+.++++.++++.|++.|.|+|.++
T Consensus 18 dg~~~~~elv~~A~~~G~~avAiTD--------h~~l~g~~~f~~~~~~~gIkpI~G~Ei~~ 71 (1046)
T PRK05672 18 DGASHPEELVERAARLGLRALAITD--------ECGLAGVVRAAEAAKELGLRLVIGAELSL 71 (1046)
T ss_pred ccCCCHHHHHHHHHHcCCCEEEEEe--------CCcchhHHHHHHHHHHCCCEEEEEEEEEE
Confidence 3577899999999999999999999 77778899999999999999999999873
No 86
>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=96.45 E-value=0.11 Score=45.57 Aligned_cols=91 Identities=20% Similarity=0.111 Sum_probs=57.5
Q ss_pred HHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC-CCCCHHHHHHHc-C-
Q 016965 213 ALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG-VRCNLKEAVEMA-G- 289 (379)
Q Consensus 213 Vl~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~-~~~rL~~l~~~~-g- 289 (379)
++..+.+++.+..+ ..|.|+..||+ .+|.+. .|+.. ..++|+ .+...+.+. .+++|++++..| |
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 66777777876532 24556779996 677654 66653 346899 555555653 348999998654 6
Q ss_pred CCC--C---CCC-----------CCHHHHHHHHHHHHHHHHHh
Q 016965 290 LAW--Q---GRA-----------HCGLDDAKNTARLLALLMHR 316 (379)
Q Consensus 290 I~~--~---g~~-----------HrAL~DA~aTA~Ll~~ll~~ 316 (379)
++. . ++- .-|-.||..|.+|+..|.++
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 12567999999999988765
No 87
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=96.44 E-value=0.001 Score=76.37 Aligned_cols=54 Identities=6% Similarity=-0.156 Sum_probs=48.3
Q ss_pred ccccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCcccccccccccCcccccchhccc
Q 016965 44 TIVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFYPDSQKVHHCQMNSFESQF 105 (379)
Q Consensus 44 ~~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~~~~~k~~~~~~~g~e~~~ 105 (379)
.++.++.++|++|++.|.+|||||| |++..+.++.|.+.+++|+|.+.|+|.++
T Consensus 16 dg~~~i~elv~~A~~~G~~alAiTD--------h~~l~G~~~f~~~~~~~gIkpIiG~E~~v 69 (1170)
T PRK07374 16 DGASQLPKMVERAKELGMPAIALTD--------HGVMYGAIELLKLCKGKGIKPIIGNEMYV 69 (1170)
T ss_pred hccCCHHHHHHHHHHCCCCEEEEec--------CCchHHHHHHHHHHHHcCCeEEEEeEEEe
Confidence 3567889999999999999999999 66667888999999999999999999984
No 88
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=96.35 E-value=0.0014 Score=74.68 Aligned_cols=54 Identities=9% Similarity=0.065 Sum_probs=47.8
Q ss_pred ccccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCcccccccccccCcccccchhccc
Q 016965 44 TIVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFYPDSQKVHHCQMNSFESQF 105 (379)
Q Consensus 44 ~~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~~~~~k~~~~~~~g~e~~~ 105 (379)
.++.++.++|++|++.|.+|||||| |++..+-.++|.++++.|+|.|.|+|.++
T Consensus 17 dga~~i~~Lv~~A~~~g~~AlaiTD--------~~nl~Gav~Fy~~ak~~gikpIiG~e~~v 70 (1139)
T COG0587 17 DGASKIEELVKKAKELGMPALALTD--------HNNLYGAVEFYKAAKKAGIKPIIGCEAYV 70 (1139)
T ss_pred ccccCHHHHHHHHHHcCCCeEEEec--------CCcceeHHHHHHHHHHcCCeEEeeeEEEE
Confidence 4577899999999999999999999 66667777888889999999999999883
No 89
>PRK05762 DNA polymerase II; Reviewed
Probab=96.23 E-value=0.11 Score=58.05 Aligned_cols=147 Identities=10% Similarity=0.023 Sum_probs=92.7
Q ss_pred cEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHHH
Q 016965 137 YFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALLR 216 (379)
Q Consensus 137 ~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~e 216 (379)
..+.||+||++. .+|++||..-. .+..+ ..|-+.. + .. .+.|..-++..+.+..
T Consensus 156 rvlsfDIE~~~~-------~~i~sI~~~~~--~~~~v-----i~ig~~~-~-~~----------~~~v~~~~sE~~LL~~ 209 (786)
T PRK05762 156 KVVSLDIETSNK-------GELYSIGLEGC--GQRPV-----IMLGPPN-G-EA----------LDFLEYVADEKALLEK 209 (786)
T ss_pred eEEEEEEEEcCC-------CceEEeeecCC--CCCeE-----EEEECCC-C-CC----------cceEEEcCCHHHHHHH
Confidence 789999999842 37888886421 12222 1222221 1 10 1115556789999999
Q ss_pred HHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCCC-------------CCCC----------ceeehHHHHHH
Q 016965 217 HDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWKP-------------PYFN----------RWINLKVPFHE 272 (379)
Q Consensus 217 f~~fl~~~~Lv~hn~iVVh~-~~FDlr~fL~~~~~~~gi~~P-------------~~~~----------~~iDt~~l~r~ 272 (379)
|.+++..... ++++.+| .+||+ .+|..-++.+|+.+. ...+ -.+|+..+.+.
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 9999987532 3344444 47997 899888888887641 1110 25788777776
Q ss_pred hc-CCCCCCHHHHHHHcCCCCCC--CCC-------------------CHHHHHHHHHHHHHHH
Q 016965 273 VF-GGVRCNLKEAVEMAGLAWQG--RAH-------------------CGLDDAKNTARLLALL 313 (379)
Q Consensus 273 l~-~~~~~rL~~l~~~~gI~~~g--~~H-------------------rAL~DA~aTA~Ll~~l 313 (379)
.. ...+++|+.+++++...... ..| -.+.||..|.+|+.++
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 56789999999876543211 110 1378999999998843
No 90
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=96.14 E-value=0.0019 Score=74.17 Aligned_cols=54 Identities=9% Similarity=-0.010 Sum_probs=48.3
Q ss_pred ccccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCcccccccccccCcccccchhccc
Q 016965 44 TIVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFYPDSQKVHHCQMNSFESQF 105 (379)
Q Consensus 44 ~~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~~~~~k~~~~~~~g~e~~~ 105 (379)
.++.++.++|++|++.|.+|||||| |++..+.+++|.++++.|++.|.|+|.++
T Consensus 15 dg~~~i~elv~~A~e~G~~avAiTD--------H~~l~g~~~f~~~a~~~gIkpIiG~Ei~~ 68 (1135)
T PRK05673 15 DGAAKIKPLVKKAAELGMPAVALTD--------HGNLFGAVEFYKAAKGAGIKPIIGCEAYV 68 (1135)
T ss_pred hhcCCHHHHHHHHHHcCCCEEEEEc--------CCccHHHHHHHHHHHHcCCeEEEEEEEEe
Confidence 3567889999999999999999999 66667888999999999999999999874
No 91
>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=96.11 E-value=0.065 Score=52.17 Aligned_cols=130 Identities=15% Similarity=0.059 Sum_probs=81.0
Q ss_pred cEEEEEEeeCCCCCC--CCCCCcEEEEceEEEEcCCCeE---EeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHH
Q 016965 137 YFVVIDFEATCDKDK--NPYPQEIIEFPSVIVSSVTGQL---EACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLS 211 (379)
Q Consensus 137 ~fVV~D~ETTGl~g~--~~~~deIIEIGAV~vd~~~g~i---~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~ 211 (379)
..+.||+||....+. ++..++|+.|+.+..+ .|.- .+...++..+.. ... ...|.--++..
T Consensus 158 ~i~s~DIe~~~~~~~~P~~~~d~I~~Is~~~~~--~~~~~~~~~~~~~~~~~~~---~~~---------~~~v~~~~~E~ 223 (325)
T PF03104_consen 158 RILSFDIETYSNDGKFPDPEKDEIIMISYVVYR--NGSSEPYRRKVFTLGSCDS---IED---------NVEVIYFDSEK 223 (325)
T ss_dssp EEEEEEEEECSSSSSS-TTTTSEEEEEEEEEEE--TTEEETTEEEEEECSCSCC---TTC---------TTEEEEESSHH
T ss_pred ceeEEEEEEccccCCCCCCCCCeEEEEEEEEEe--ccccCCCceEEEEecCCCC---CCC---------CcEEEEECCHH
Confidence 889999999976431 4678999999988764 2211 222333333321 111 34455568899
Q ss_pred HHHHHHHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCC-----CCC--------------------------
Q 016965 212 EALLRHDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWK-----PPY-------------------------- 259 (379)
Q Consensus 212 eVl~ef~~fl~~~~Lv~hn~iVVh~-~~FDlr~fL~~~~~~~gi~~-----P~~-------------------------- 259 (379)
+.|..|++++..... ++++.++ -.||+ .+|..-++..|+.. +..
T Consensus 224 ~lL~~f~~~i~~~dP---Dii~GyN~~~fD~-~yl~~R~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 299 (325)
T PF03104_consen 224 ELLEAFLDIIQEYDP---DIITGYNIDGFDL-PYLIERAKKLGIDMFDLNGRRWSRFGRLKRKKWPSSANGSRKFSRIDI 299 (325)
T ss_dssp HHHHHHHHHHHHHS----SEEEESSTTTTHH-HHHHHHHHHTTTCTHHSTTSTTTEEEEEEEEESEECTCCCTTEEEEEE
T ss_pred HHHHHHHHHHHhcCC---cEEEEecccCCCH-HHHHHHHHHhCccccccccccccceeEEeecccccccCCCcceeEEEE
Confidence 999999999987532 3444444 36997 88888888775442 000
Q ss_pred -CCceeehHHHHHHhcCCCCCCHHHH
Q 016965 260 -FNRWINLKVPFHEVFGGVRCNLKEA 284 (379)
Q Consensus 260 -~~~~iDt~~l~r~l~~~~~~rL~~l 284 (379)
..-.+|+..+++..+...+|+|+++
T Consensus 300 ~Gr~~~D~~~~~~~~~~l~sY~L~~V 325 (325)
T PF03104_consen 300 PGRLVLDLYRLARKDYKLDSYSLDNV 325 (325)
T ss_dssp TTSEEEEHHHHHHHHS--SS-SHHHH
T ss_pred CCChHhHHHHHHHhhCCCCCCCCCCC
Confidence 0023678888888887778888763
No 92
>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=96.02 E-value=0.0025 Score=72.51 Aligned_cols=53 Identities=9% Similarity=0.006 Sum_probs=48.1
Q ss_pred cccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCcccccccccccCcccccchhccc
Q 016965 45 IVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFYPDSQKVHHCQMNSFESQF 105 (379)
Q Consensus 45 ~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~~~~~k~~~~~~~g~e~~~ 105 (379)
++.++.++|++|++.|.++||||| |++..+.++.+.+.++.|++.+.|+|.++
T Consensus 15 g~~~~~elv~~A~~~G~~alAiTD--------H~~l~g~~~f~~~~~~~gIkpI~G~Ei~~ 67 (1022)
T TIGR00594 15 GAAKIKPLVKKAKELGMPALALTD--------HGNMFGAVEFYKACKKAGIKPIIGCEAYV 67 (1022)
T ss_pred ccCCHHHHHHHHHHCCCCEEEEec--------CCCchhHHHHHHHHHHcCCeEEEEEEEEe
Confidence 577899999999999999999999 66667888899989999999999999885
No 93
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=95.70 E-value=0.0038 Score=71.74 Aligned_cols=53 Identities=11% Similarity=0.008 Sum_probs=47.5
Q ss_pred cccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCcccccccccccCcccccchhccc
Q 016965 45 IVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFYPDSQKVHHCQMNSFESQF 105 (379)
Q Consensus 45 ~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~~~~~k~~~~~~~g~e~~~ 105 (379)
++.++.++|++|++.|.+|||||| |++..+.+++|.++++.|++.+.|+|.++
T Consensus 19 g~~~~~elv~~A~e~G~~avAITD--------H~~~~g~~~f~~~a~~~gIkpIiG~Ei~~ 71 (1151)
T PRK06826 19 GSARIKDLIKRAKELGMDSIAITD--------HGVMYGVVDFYKAAKKQGIKPIIGCEVYV 71 (1151)
T ss_pred hcCCHHHHHHHHHHCCCCEEEEec--------CCchHhHHHHHHHHHhCCCEEEEEEEEEe
Confidence 567889999999999999999999 66666788899889999999999999885
No 94
>PHA02528 43 DNA polymerase; Provisional
Probab=94.88 E-value=1.5 Score=49.75 Aligned_cols=166 Identities=13% Similarity=0.026 Sum_probs=90.9
Q ss_pred cEEEEEEeeCCCCC-CCCC--CCcEEEEceEEEEcCCCeEEeEEEEeecCCCCC-CCCcchhhhcCCChHHHhCCCCHHH
Q 016965 137 YFVVIDFEATCDKD-KNPY--PQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQ-LLSDFCKDLTGIQQIQVDRGVTLSE 212 (379)
Q Consensus 137 ~fVV~D~ETTGl~g-~~~~--~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~-~Ls~~~~~LTGIT~~~V~~Ap~~~e 212 (379)
..+.||+||+.-.| .+|. .++||.||.. +. .+. .+..+.-++..+ ........-.-.....+..-++..+
T Consensus 107 rv~s~DIE~~~~~gfP~p~~~~d~IisIsl~--~~-~~~---~~~v~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~sE~e 180 (881)
T PHA02528 107 RIANLDIEVTAEDGFPDPEEAKYEIDAITHY--DS-IDD---RFYVFDLGSVEEWDAKGDEVPQEILDKVVYMPFDTERE 180 (881)
T ss_pred cEEEEEEEECCCCCCCCcccCCCcEEEEEEe--cC-CCC---EEEEEEecCcccccccCCcccccccCCeeEEEcCCHHH
Confidence 78999999986433 2333 6799999972 31 222 222222111000 0000000000011112223578899
Q ss_pred HHHHHHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHH-cCCCC----CCC------------C----------Ccee
Q 016965 213 ALLRHDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRF-KKIWK----PPY------------F----------NRWI 264 (379)
Q Consensus 213 Vl~ef~~fl~~~~Lv~hn~iVVh~-~~FDlr~fL~~~~~~-~gi~~----P~~------------~----------~~~i 264 (379)
.|..|.+|+..... .+++.+| -+||+ .+|..-+++ .|+.. +++ . .-.+
T Consensus 181 LL~~F~~~i~~~DP---DII~GyNi~~FDl-pYL~~Ra~~~lg~~~~~~l~~~~~~~~~~~~~~~g~~~~~~~i~GRv~l 256 (881)
T PHA02528 181 MLLEYINFWEENTP---VIFTGWNVELFDV-PYIINRIKNILGEKTAKRLSPWGKVKERTIENMYGREEIAYDISGISIL 256 (881)
T ss_pred HHHHHHHHHHHhCC---cEEEecCCccCCH-HHHHHHHHHHcCcccccccccccccccccccccccccceeEEEcceEEE
Confidence 99999999976532 2222233 47997 777776664 35331 100 0 0135
Q ss_pred ehHHHHHHh-c-CCCCCCHHHHHHH-cCCCCCCC----------------CCCHHHHHHHHHHHHHH
Q 016965 265 NLKVPFHEV-F-GGVRCNLKEAVEM-AGLAWQGR----------------AHCGLDDAKNTARLLAL 312 (379)
Q Consensus 265 Dt~~l~r~l-~-~~~~~rL~~l~~~-~gI~~~g~----------------~HrAL~DA~aTA~Ll~~ 312 (379)
|+..+++.+ + ...+++|+++++. +|...... .+-.+.||..+.+|+.+
T Consensus 257 D~~dl~k~~~~~~l~SYsLe~VA~~~LG~~K~d~~~~eI~~l~~~d~~~l~~Ynl~Da~Lv~~L~~k 323 (881)
T PHA02528 257 DYLDLYKKFTFTNQPSYRLDYIAEVELGKKKLDYSDGPFKKFRETDHQKYIEYNIIDVELVDRLDDK 323 (881)
T ss_pred eHHHHHHHhhhcccccCCHHHHHHHHhCCCCccCCHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHH
Confidence 666777764 2 3568999999984 88643210 01237899999999987
No 95
>COG0349 Rnd Ribonuclease D [Translation, ribosomal structure and biogenesis]
Probab=94.34 E-value=0.7 Score=47.04 Aligned_cols=135 Identities=14% Similarity=0.152 Sum_probs=81.6
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 215 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ 215 (379)
..+|+||+||.|+ .+++++. +.|-+. +|+ . ..+|+|-. + .. +.++
T Consensus 17 ~~~iAiDTEf~r~---~t~~p~L---cLIQi~--~~e---~-~~lIdpl~-~-~~---------------d~~~------ 61 (361)
T COG0349 17 SKAIAIDTEFMRL---RTYYPRL---CLIQIS--DGE---G-ASLIDPLA-G-IL---------------DLPP------ 61 (361)
T ss_pred CCceEEecccccc---cccCCce---EEEEEe--cCC---C-ceEecccc-c-cc---------------ccch------
Confidence 4699999999987 5555542 233332 222 1 46777763 1 11 2233
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCC-CCCHHHHHH-HcCCCCC
Q 016965 216 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGV-RCNLKEAVE-MAGLAWQ 293 (379)
Q Consensus 216 ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~~-~~rL~~l~~-~~gI~~~ 293 (379)
|...+.+..++ -|.|.++||+ .+|...+ |+. | .+.+||+-. .++.|.. +++|+++++ .+|+..+
T Consensus 62 -l~~Ll~d~~v~----KIfHaa~~DL-~~l~~~~---g~~-p---~plfdTqiA-a~l~g~~~~~gl~~Lv~~ll~v~ld 127 (361)
T COG0349 62 -LVALLADPNVV----KIFHAARFDL-EVLLNLF---GLL-P---TPLFDTQIA-AKLAGFGTSHGLADLVEELLGVELD 127 (361)
T ss_pred -HHHHhcCCcee----eeeccccccH-HHHHHhc---CCC-C---CchhHHHHH-HHHhCCcccccHHHHHHHHhCCccc
Confidence 34445554332 3678899998 5555443 432 2 345788644 4556643 889999996 4677654
Q ss_pred CCC---------------CCHHHHHHHHHHHHHHHHHhcCC
Q 016965 294 GRA---------------HCGLDDAKNTARLLALLMHRGFK 319 (379)
Q Consensus 294 g~~---------------HrAL~DA~aTA~Ll~~ll~~~~~ 319 (379)
..+ --|..|+..+..|+.+|.+...+
T Consensus 128 K~~q~SDW~~RPLs~~Ql~YAa~DV~yL~~l~~~L~~~L~~ 168 (361)
T COG0349 128 KSEQRSDWLARPLSEAQLEYAAADVEYLLPLYDKLTEELAR 168 (361)
T ss_pred ccccccccccCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 211 23678999999998888766443
No 96
>PF13017 Maelstrom: piRNA pathway germ-plasm component
Probab=94.13 E-value=0.18 Score=47.60 Aligned_cols=156 Identities=13% Similarity=0.028 Sum_probs=88.5
Q ss_pred CCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCc------chhhhcCCChHHHhCCC-CHHHHHHHHHHHHhhcCCC
Q 016965 155 PQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSD------FCKDLTGIQQIQVDRGV-TLSEALLRHDKWLENKGIK 227 (379)
Q Consensus 155 ~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~------~~~~LTGIT~~~V~~Ap-~~~eVl~ef~~fl~~~~Lv 227 (379)
.--..|||++++++++| |++.||++|+|+..+ +.- .+.+-|+|...-...+. ++..++.++.+||+.....
T Consensus 7 ~y~PaEiai~~fSL~~G-I~~~~H~~I~Pg~~p-~G~~~~a~~hs~~tH~ip~~~~~~~~~d~~~l~~~l~~fl~~~~~~ 84 (213)
T PF13017_consen 7 EYVPAEIAICKFSLKEG-IIDSFHTFINPGQIP-LGYRYDAQHHSDETHQIPIPPNALGESDYSELYNELLNFLKPNKGG 84 (213)
T ss_pred cEEeEEEEEEEEecCCc-cchhhhcccCCCCCC-cHHHHHHHHhhhhhcCCCCCCcccccCCHHHHHHHHHHHhhhcCCC
Confidence 34578999999999888 789999999999522 321 12344677766555444 7999999999999876432
Q ss_pred CccEEEEEcCc-chH-HHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC----C----CC-CCHHHHHHHcC-------
Q 016965 228 NTNFAVVTWSN-WDC-RVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG----G----VR-CNLKEAVEMAG------- 289 (379)
Q Consensus 228 ~hn~iVVh~~~-FDl-r~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~----~----~~-~rL~~l~~~~g------- 289 (379)
+....|++..+ +.. ...|+.-+...+.... ..+.++..++-.+.. . .. .+..-.-..+.
T Consensus 85 ~~~~~i~~~~~~~~~V~~cl~~La~~a~~~~~---~~v~~~~~lf~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~ 161 (213)
T PF13017_consen 85 EKMPPIFTKRDQIPRVQSCLKWLAKKAGEDND---FKVYDFEYLFFDLKNEKVDYRWDRQDFPSKTIADALFPKDFFEYS 161 (213)
T ss_pred CCcceEEEeHhHHHHHHHHHHHHHHhcCCCcc---eEeecHHHHHHHHHHHHhhcccccccCchHHHHHHHccchhhhcc
Confidence 23334555432 221 2234444444454321 223444444333321 1 11 11111111111
Q ss_pred --CC------CCCCCCCHHHHHHHHHHHHHHHHH
Q 016965 290 --LA------WQGRAHCGLDDAKNTARLLALLMH 315 (379)
Q Consensus 290 --I~------~~g~~HrAL~DA~aTA~Ll~~ll~ 315 (379)
+. .....+.|+..+.-+|..+-..+-
T Consensus 162 ~~~~C~~He~~d~~~~Ca~s~v~r~ay~i~d~~c 195 (213)
T PF13017_consen 162 SNIRCDFHEEIDRSKYCALSTVKRWAYTISDYMC 195 (213)
T ss_pred CCCceeecccCCCcccchhHHHHHHHHHHHHHHH
Confidence 11 112468899999888887776663
No 97
>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=93.73 E-value=1.2 Score=42.44 Aligned_cols=149 Identities=13% Similarity=0.071 Sum_probs=92.2
Q ss_pred cEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcC---C----CeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCC
Q 016965 137 YFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSV---T----GQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVT 209 (379)
Q Consensus 137 ~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~---~----g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~ 209 (379)
+.+.|-+-|.-- ......||+.|+++....- + ......+.++++|......+..-...-.-....|.--++
T Consensus 4 ~v~sls~~T~~n--~k~~~~EI~~iS~~~~~~~~~d~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~v~~~~~ 81 (234)
T cd05776 4 TVMSLSIKTVLN--SKTNKNEIVMISMLVHRNVSLDKPTPPPPFQSHTCTLTRPLGRSPPPDLFEKNAKKKKTKVRIFEN 81 (234)
T ss_pred EEEEEEeEEEec--CcCCcchhheehHHHhcCCCCCCCCCCcccccceEEEEeCCCCCCCCchHHHHHHhcCCcEEEeCC
Confidence 456677777531 1224699999999876310 0 112345677788875211222222332333344666788
Q ss_pred HHHHHHHHHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCC------------CCC-------------CCce
Q 016965 210 LSEALLRHDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWK------------PPY-------------FNRW 263 (379)
Q Consensus 210 ~~eVl~ef~~fl~~~~Lv~hn~iVVh~-~~FDlr~fL~~~~~~~gi~~------------P~~-------------~~~~ 263 (379)
..+.|..|++++..... ++++.|+ .+||+ .+|-.-++..|++. |.. ..-.
T Consensus 82 E~~LL~~f~~~i~~~DP---DiivG~Ni~~fdl-~~L~~R~~~l~i~~ws~iGR~~~~~~~~~~~~~~~~~~~~~~GRl~ 157 (234)
T cd05776 82 ERALLNFFLAKLQKIDP---DVLVGHDLEGFDL-DVLLSRIQELKVPHWSRIGRLKRSVWPKKKGGGKFGERELTAGRLL 157 (234)
T ss_pred HHHHHHHHHHHHhhcCC---CEEEeeccCCCCH-HHHHHHHHHhCCCccccccccccccCccccccccccccccccCchh
Confidence 99999999999987532 3444455 38997 78887777766542 110 0124
Q ss_pred eehHHHHHHhcCCCCCCHHHHHH-HcCCC
Q 016965 264 INLKVPFHEVFGGVRCNLKEAVE-MAGLA 291 (379)
Q Consensus 264 iDt~~l~r~l~~~~~~rL~~l~~-~~gI~ 291 (379)
+|+...++.+....+|+|+++++ .+|..
T Consensus 158 ~D~~~~~k~~~~~~sY~L~~va~~~Lg~~ 186 (234)
T cd05776 158 CDTYLSAKELIRCKSYDLTELSQQVLGIE 186 (234)
T ss_pred hccHHHHHHHhCCCCCChHHHHHHHhCcC
Confidence 67777788877778999999997 67753
No 98
>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=93.64 E-value=0.97 Score=41.64 Aligned_cols=142 Identities=14% Similarity=0.022 Sum_probs=80.8
Q ss_pred ccEEEEEEeeCCCCCC-CCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHH
Q 016965 136 QYFVVIDFEATCDKDK-NPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEAL 214 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~-~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl 214 (379)
...|.||+|+++.... ....-.+|+|+. . +. -.+|.+.. +.. .-.+.+
T Consensus 22 ~~vig~D~Ew~~~~~~~~~~~v~LiQiat-----~-~~-----~~lid~~~---~~~-----------------~~~~~~ 70 (193)
T cd06146 22 GRVVGIDSEWKPSFLGDSDPRVAILQLAT-----E-DE-----VFLLDLLA---LEN-----------------LESEDW 70 (193)
T ss_pred CCEEEEECccCCCccCCCCCCceEEEEec-----C-CC-----EEEEEchh---ccc-----------------cchHHH
Confidence 5889999999866321 124457788862 1 12 23444432 111 002223
Q ss_pred -HHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC-----------CCCCCHH
Q 016965 215 -LRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG-----------GVRCNLK 282 (379)
Q Consensus 215 -~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~-----------~~~~rL~ 282 (379)
+.+.+++.+..+ .-|.|+..+|+ .+|.+.+...+-. +.....++||..+++.+.+ ..+++|.
T Consensus 71 ~~~L~~ll~d~~i----~KVg~~~~~D~-~~L~~~~~~~~~~-~~~~~~v~Dl~~~a~~l~~~~~~~~~~~~~~~~~sL~ 144 (193)
T cd06146 71 DRLLKRLFEDPDV----LKLGFGFKQDL-KALSASYPALKCM-FERVQNVLDLQNLAKELQKSDMGRLKGNLPSKTKGLA 144 (193)
T ss_pred HHHHHHHhCCCCe----eEEEechHHHH-HHHHHhcCccccc-cccCCceEEHHHHHHHHhhccccccccccCcccCCHH
Confidence 334556665421 13556678996 6776544321100 0012458999887776542 2357999
Q ss_pred HHHHHc-CCCCC---------------CCCCCHHHHHHHHHHHHHHHH
Q 016965 283 EAVEMA-GLAWQ---------------GRAHCGLDDAKNTARLLALLM 314 (379)
Q Consensus 283 ~l~~~~-gI~~~---------------g~~HrAL~DA~aTA~Ll~~ll 314 (379)
++++.+ |.+.. .+-+-|..||+.+..|+.+|.
T Consensus 145 ~l~~~~lg~~l~K~~q~SdW~~rpLs~~Qi~YAA~Da~~l~~l~~~L~ 192 (193)
T cd06146 145 DLVQEVLGKPLDKSEQCSNWERRPLREEQILYAALDAYCLLEVFDKLL 192 (193)
T ss_pred HHHHHHhCCCcCcccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 999864 54321 122668999999999998885
No 99
>PRK06361 hypothetical protein; Provisional
Probab=93.55 E-value=0.045 Score=50.74 Aligned_cols=53 Identities=6% Similarity=-0.122 Sum_probs=38.3
Q ss_pred cccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCcccccc--------cccccCcccccchhccc
Q 016965 45 IVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFYP--------DSQKVHHCQMNSFESQF 105 (379)
Q Consensus 45 ~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~~--------~~~k~~~~~~~g~e~~~ 105 (379)
+..++.++|++|.+.|.++|+||||+ ...+....+. ..++.+++++.|+|..+
T Consensus 8 g~~~~~e~v~~A~~~Gl~~i~iTDH~--------~~~~~~~~~~~~~~~~~~~~~~~~i~v~~GiE~~~ 68 (212)
T PRK06361 8 GELIPSELVRRARVLGYRAIAITDHA--------DASNLEEILEKLVRAAEELELYWDIEVIPGVELTH 68 (212)
T ss_pred CCCCHHHHHHHHHHcCCCEEEEecCC--------CCccHHHHHHHHHHHHHHHhhcCCCEEEEEEEEcc
Confidence 45678999999999999999999954 4333332211 12345899999999874
No 100
>COG5228 POP2 mRNA deadenylase subunit [RNA processing and modification]
Probab=92.61 E-value=0.1 Score=49.61 Aligned_cols=181 Identities=20% Similarity=0.190 Sum_probs=106.6
Q ss_pred cEEEEEEeeCCCCCC------------------CCCCCcEEEEceEEEEcCCCeE-----EeEEEEeecCCCCCCCCcch
Q 016965 137 YFVVIDFEATCDKDK------------------NPYPQEIIEFPSVIVSSVTGQL-----EACFQTYVRPTCNQLLSDFC 193 (379)
Q Consensus 137 ~fVV~D~ETTGl~g~------------------~~~~deIIEIGAV~vd~~~g~i-----~d~F~~~VkP~~~~~Ls~~~ 193 (379)
++|.+|.|..|.-.. |.+-=.||++|...-| ++|+- .=.|..-.+|.. .-...++
T Consensus 43 n~vSmdTEFpGvvArPiG~FkSs~dyhYQtlraNVD~LkiIQlGlsLSD-e~GN~P~~~sTWQFNF~F~l~~-dmya~ES 120 (299)
T COG5228 43 NHVSMDTEFPGVVARPIGTFKSSVDYHYQTLRANVDFLKIIQLGLSLSD-ENGNKPNGPSTWQFNFEFDLKK-DMYATES 120 (299)
T ss_pred CceeeccccCceeecccccccccchHHHHHHhcccchhhhhheeeeecc-ccCCCCCCCceeEEEEEecchh-hhcchHH
Confidence 567788887775210 0123479999998887 44432 335666667764 3355566
Q ss_pred hhh---cCCChHHHh-CCCCHHHHHHHHHHHHhhcCCCC-ccEEEEE-cCcchHHHHHHHHHHHcCCCCCCC--------
Q 016965 194 KDL---TGIQQIQVD-RGVTLSEALLRHDKWLENKGIKN-TNFAVVT-WSNWDCRVMLESECRFKKIWKPPY-------- 259 (379)
Q Consensus 194 ~~L---TGIT~~~V~-~Ap~~~eVl~ef~~fl~~~~Lv~-hn~iVVh-~~~FDlr~fL~~~~~~~gi~~P~~-------- 259 (379)
.+| .||+-+.-+ -+.. ..+|-+.+-+++||- ..+.+++ ++..|+ ++|-+.+-.. ++|.-
T Consensus 121 ieLL~ksgIdFkkHe~~GI~----v~eF~elLm~SGLvm~e~VtWitfHsaYDf-gyLikilt~~--plP~~~EdFy~~l 193 (299)
T COG5228 121 IELLRKSGIDFKKHENLGID----VFEFSELLMDSGLVMDESVTWITFHSAYDF-GYLIKILTND--PLPNNKEDFYWWL 193 (299)
T ss_pred HHHHHHcCCChhhHhhcCCC----HHHHHHHHhccCceeccceEEEEeecchhH-HHHHHHHhcC--CCCccHHHHHHHH
Confidence 665 356544332 2333 245666777777653 3455665 478897 7887665432 23311
Q ss_pred ---CCceeehHHHHHHhcCCCCCCHHHHHHHcCCCCCCCCCCHHHHHHHHHHHHHHHHHhcCCCccccccc
Q 016965 260 ---FNRWINLKVPFHEVFGGVRCNLKEAVEMAGLAWQGRAHCGLDDAKNTARLLALLMHRGFKFSITNSLM 327 (379)
Q Consensus 260 ---~~~~iDt~~l~r~l~~~~~~rL~~l~~~~gI~~~g~~HrAL~DA~aTA~Ll~~ll~~~~~~~i~~~l~ 327 (379)
+..+.|+.-+++..... +..|.+...-++|...|..|.|-.||+.||+.|-........-++..++.
T Consensus 194 ~~yfP~fYDik~v~ks~~~~-~KglQei~ndlql~r~g~QhQagsdaLlTa~~ff~~R~~~F~~sig~~ll 263 (299)
T COG5228 194 HQYFPNFYDIKLVYKSVLNN-SKGLQEIKNDLQLQRSGQQHQAGSDALLTADEFFLPRFSIFTTSIGQSLL 263 (299)
T ss_pred HHHCccccchHHHHHhhhhh-hhHHHHhcCcHhhhccchhhhccchhhhhhHHhcchhhheecccccHHHH
Confidence 11223444333322211 12577777778888888899999999999999877655544445544443
No 101
>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=92.50 E-value=1.7 Score=38.56 Aligned_cols=132 Identities=15% Similarity=-0.006 Sum_probs=76.0
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 215 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ 215 (379)
...|.||+|+..... ...+-.+|+|+. .++. -.+|++.. +.. ..+
T Consensus 13 ~~~ig~D~E~~~~~~-~~~~~~liQl~~-----~~~~-----~~l~d~~~---~~~---------------------~~~ 57 (161)
T cd06129 13 GDVIAFDMEWPPGRR-YYGEVALIQLCV-----SEEK-----CYLFDPLS---LSV---------------------DWQ 57 (161)
T ss_pred CCEEEEECCccCCCC-CCCceEEEEEEE-----CCCC-----EEEEeccc---Ccc---------------------CHH
Confidence 578999999996521 112345666643 2122 24454442 211 123
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCHHHHHHHc-CCCCC-
Q 016965 216 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAVEMA-GLAWQ- 293 (379)
Q Consensus 216 ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~~~~rL~~l~~~~-gI~~~- 293 (379)
.+.+++++..+ ..|.|+...|+ ..|.+ ..|+.. ...+||...+..+-+..+.+|.+++++| |+...
T Consensus 58 ~L~~lL~d~~i----~Kvg~~~k~D~-~~L~~---~~gi~~----~~~~D~~~aa~ll~~~~~~~L~~l~~~~lg~~l~K 125 (161)
T cd06129 58 GLKMLLENPSI----VKALHGIEGDL-WKLLR---DFGEKL----QRLFDTTIAANLKGLPERWSLASLVEHFLGKTLDK 125 (161)
T ss_pred HHHHHhCCCCE----EEEEeccHHHH-HHHHH---HcCCCc----ccHhHHHHHHHHhCCCCCchHHHHHHHHhCCCCCc
Confidence 34556665421 23556667885 55532 256653 2347987655533223456999999875 76431
Q ss_pred --------------CCCCCHHHHHHHHHHHHHHHH
Q 016965 294 --------------GRAHCGLDDAKNTARLLALLM 314 (379)
Q Consensus 294 --------------g~~HrAL~DA~aTA~Ll~~ll 314 (379)
.+-|-|..||..+..|+.+|.
T Consensus 126 ~~~~s~W~~rpLt~~qi~YAa~Da~~l~~l~~~l~ 160 (161)
T cd06129 126 SISCADWSYRPLTEDQKLYAAADVYALLIIYTKLR 160 (161)
T ss_pred cceeccCCCCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 123678999999999998874
No 102
>COG0417 PolB DNA polymerase elongation subunit (family B) [DNA replication, recombination, and repair]
Probab=92.44 E-value=3.1 Score=46.62 Aligned_cols=155 Identities=17% Similarity=0.081 Sum_probs=94.9
Q ss_pred ccEEEEEEeeCCCCCCCC--CCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHH
Q 016965 136 QYFVVIDFEATCDKDKNP--YPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEA 213 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~--~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eV 213 (379)
-..++||+||+...+..+ ..+.|+.|+...-. .++.. ..+.. ....|. .|....+-.+.
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 378999999998865443 37888888765432 22221 11111 000111 15566778899
Q ss_pred HHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCC-------------CC----CCceeehHHHHH-Hhc
Q 016965 214 LLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKP-------------PY----FNRWINLKVPFH-EVF 274 (379)
Q Consensus 214 l~ef~~fl~~~~Lv~hn~iVVh~~-~FDlr~fL~~~~~~~gi~~P-------------~~----~~~~iDt~~l~r-~l~ 274 (379)
+..|.+++....- .+++.+++ +||+ .+|..-+.++|++.. .+ ....+|+...++ +.+
T Consensus 215 l~~~~~~i~~~dP---dVIvgyn~~~fd~-pyl~~Ra~~lgi~~~~gr~~~~~~~~~~~~~~~~Gr~~iDl~~~~~~~~~ 290 (792)
T COG0417 215 LERFVELIREYDP---DVIVGYNGDNFDW-PYLAERAERLGIPLRLGRDGSELRVRKSGFSSQVGRLHIDLYPALRRRPL 290 (792)
T ss_pred HHHHHHHHHhcCC---CEEEeccCCcCCh-HHHHHHHHHhCCCccccccccccceeecccccccceEEEecHHHHhhhhc
Confidence 9999999987531 34444454 5995 899999998888653 00 123468877777 466
Q ss_pred CCCCCCHHHHHHHcCCCCC--C------------C-------CCCHHHHHHHHHHHHHHH
Q 016965 275 GGVRCNLKEAVEMAGLAWQ--G------------R-------AHCGLDDAKNTARLLALL 313 (379)
Q Consensus 275 ~~~~~rL~~l~~~~gI~~~--g------------~-------~HrAL~DA~aTA~Ll~~l 313 (379)
...+++|...++.+..... . . ...-+.|+..+.+++.+.
T Consensus 291 ~~~~ysl~~v~~~~l~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~~ 350 (792)
T COG0417 291 NLKSYSLEAVSEALLGEGKREDIPYDSMEEIWPDWADSKLRLLLYNLSDADLVLRILLKN 350 (792)
T ss_pred ccccccHHHHHHHhcccccccccCccchhhccccCccchhHHHHHHHHHHHHHHHHHHHH
Confidence 6778899988765443211 0 0 122377888887776654
No 103
>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=91.70 E-value=1.7 Score=36.71 Aligned_cols=67 Identities=19% Similarity=0.119 Sum_probs=45.6
Q ss_pred HHHHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCC-CCCHHHHHHHcC
Q 016965 211 SEALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGV-RCNLKEAVEMAG 289 (379)
Q Consensus 211 ~eVl~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~~-~~rL~~l~~~~g 289 (379)
.++.+.+.+|+++... ..|+|++.+|+ .+|. ..++..+ ..++||...+..+.+.. +++|++++++|.
T Consensus 40 ~~~~~~l~~~l~~~~~----~~v~~~~k~d~-~~L~----~~~~~~~---~~~~D~~~~ayll~~~~~~~~l~~l~~~~l 107 (155)
T cd00007 40 EEDLEALKELLEDEDI----TKVGHDAKFDL-VVLA----RDGIELP---GNIFDTMLAAYLLNPGEGSHSLDDLAKEYL 107 (155)
T ss_pred HHHHHHHHHHHcCCCC----cEEeccHHHHH-HHHH----HCCCCCC---CCcccHHHHHHHhCCCCCcCCHHHHHHHHc
Confidence 5577778888887531 24667778995 6664 3454433 35789987777666644 579999998873
No 104
>PRK09248 putative hydrolase; Validated
Probab=91.45 E-value=0.13 Score=48.86 Aligned_cols=54 Identities=4% Similarity=-0.025 Sum_probs=37.0
Q ss_pred cccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCccccc-----c--cccccCcccccchhccc
Q 016965 45 IVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFY-----P--DSQKVHHCQMNSFESQF 105 (379)
Q Consensus 45 ~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~-----~--~~~k~~~~~~~g~e~~~ 105 (379)
+..+++++|++|.++|.++|+||||.... ...++.+ . ..++.+++++.|+|..+
T Consensus 17 ~~~~~~e~v~~A~~~G~~~i~iTdH~~~~-------~~~~~~~~~~~~~~~~~~~~~i~il~GiE~~~ 77 (246)
T PRK09248 17 AYSTLHENAAEAKQKGLKLFAITDHGPDM-------PGAPHYWHFGNLRVLPRKVDGVGILRGIEANI 77 (246)
T ss_pred CCCCHHHHHHHHHHCCCCEEEECCCCCCc-------CCCCCHHHHHHHHHHHHhhcCCeEEEEEEecc
Confidence 45578999999999999999999954221 1112111 0 12346899999999864
No 105
>TIGR00592 pol2 DNA polymerase (pol2). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=91.04 E-value=7.7 Score=45.48 Aligned_cols=145 Identities=14% Similarity=0.085 Sum_probs=91.1
Q ss_pred cEEEEEEe--eCCCCCCCCCCCcEEEEceEEEEcCC-----C--eEEeEEEEeecCCCCCCCCc-chhhhcCCChHHHhC
Q 016965 137 YFVVIDFE--ATCDKDKNPYPQEIIEFPSVIVSSVT-----G--QLEACFQTYVRPTCNQLLSD-FCKDLTGIQQIQVDR 206 (379)
Q Consensus 137 ~fVV~D~E--TTGl~g~~~~~deIIEIGAV~vd~~~-----g--~i~d~F~~~VkP~~~~~Ls~-~~~~LTGIT~~~V~~ 206 (379)
+++++||- +.- .+...++||.|..+...... + .....|...++|... .++. +.....|+....|..
T Consensus 505 Pl~vLdFsi~Sly---Psi~~~~nl~iS~~v~~~~~~d~~~~~~~~~~~~~~~~~~~~~-~~p~~~~~~~~~~~~~~L~~ 580 (1172)
T TIGR00592 505 PLVVLDFSMKSLN---PSIIRNEIVSIPDTLHREFALDKPPPEPPYDVHPCVGTRPKDC-SFPLDLKGEFPGKKPSLVED 580 (1172)
T ss_pred CeEEEEeeeEEec---CccccCceEEEEEEEeecccccCCCCCCccceEEEEEEccCCC-CCCchhhhhhhccCCcEEEE
Confidence 47777666 542 24466899999888664100 1 122345566677321 1222 233555777777888
Q ss_pred CCCHHHHHHHHHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCC----------CC---------CCCceeeh
Q 016965 207 GVTLSEALLRHDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWK----------PP---------YFNRWINL 266 (379)
Q Consensus 207 Ap~~~eVl~ef~~fl~~~~Lv~hn~iVVh~-~~FDlr~fL~~~~~~~gi~~----------P~---------~~~~~iDt 266 (379)
-.+..+.+..|++++..... ..+++|+ .+||+ .+|-.-++..+++. |. ...-.+|+
T Consensus 581 ~~sEr~lL~~fl~~~~~~DP---Dii~g~n~~qfdl-kvl~nR~~~l~i~~~~~~Gr~~~~~~~~~~~~~~~~Grl~~D~ 656 (1172)
T TIGR00592 581 LATERALIKKFMAKVKKIDP---DEIVGHDYQQRAL-KVLANRINDLKIPTWSKIGRLRRSPKFGRRFGERTCGRMICDV 656 (1172)
T ss_pred ecCHHHHHHHHHHHHHhcCC---CEEEEEcccCccH-HHHHHHHHHcCCCcccccCccccCCCccccccceECCEEEEEH
Confidence 88999999999999983321 3455555 47997 56666666666542 00 11235788
Q ss_pred HHHHHHhcCCCCCCHHHHHHH-cC
Q 016965 267 KVPFHEVFGGVRCNLKEAVEM-AG 289 (379)
Q Consensus 267 ~~l~r~l~~~~~~rL~~l~~~-~g 289 (379)
...++..+..++++|+.+++. +|
T Consensus 657 ~~~~k~~~~~~sy~L~~v~~~~L~ 680 (1172)
T TIGR00592 657 EISAKELIRCKSYDLSELVQQILK 680 (1172)
T ss_pred HHHHHHHhCcCCCCHHHHHHHHhC
Confidence 888888888889999998874 44
No 106
>KOG1798 consensus DNA polymerase epsilon, catalytic subunit A [Replication, recombination and repair]
Probab=91.02 E-value=2.9 Score=49.39 Aligned_cols=161 Identities=16% Similarity=0.147 Sum_probs=98.6
Q ss_pred ccEEEEEEeeCCCCC--CCCCCCcEEEEceEEEEcCCCeE----------EeEEEEeecCCCCCCCCcchhhhcCCChHH
Q 016965 136 QYFVVIDFEATCDKD--KNPYPQEIIEFPSVIVSSVTGQL----------EACFQTYVRPTCNQLLSDFCKDLTGIQQIQ 203 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g--~~~~~deIIEIGAV~vd~~~g~i----------~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~ 203 (379)
-..++||+|||-+.- .++..|+|.=|.- .+|+. |.+ ++.|+..=||+. .-+|+
T Consensus 246 p~VlAFDIETtKlPLKFPDae~DqIMMISY-MiDGq-GfLItNREiVs~DIedfEYTPKpE~---eG~F~---------- 310 (2173)
T KOG1798|consen 246 PRVLAFDIETTKLPLKFPDAESDQIMMISY-MIDGQ-GFLITNREIVSEDIEDFEYTPKPEY---EGPFC---------- 310 (2173)
T ss_pred ceEEEEeeecccCCCCCCCcccceEEEEEE-EecCc-eEEEechhhhccchhhcccCCcccc---ccceE----------
Confidence 478899999998832 2346789988864 45643 322 234555445543 12221
Q ss_pred HhCCCCHHHHHHHHHHHHhhcCCCCccEEEEEc-Cc-chHHHHHHHHHHHcCCCCCC-CC----------Cce---eehH
Q 016965 204 VDRGVTLSEALLRHDKWLENKGIKNTNFAVVTW-SN-WDCRVMLESECRFKKIWKPP-YF----------NRW---INLK 267 (379)
Q Consensus 204 V~~Ap~~~eVl~ef~~fl~~~~Lv~hn~iVVh~-~~-FDlr~fL~~~~~~~gi~~P~-~~----------~~~---iDt~ 267 (379)
|-+-++....+.+|.+-+...- .-++||+ |. || +.|+++-...+|+..-. +. -++ +|--
T Consensus 311 v~Ne~dEv~Ll~RfFeHiq~~k----P~iivTyNGDFFD-WPFve~Ra~~hGi~m~eEiGF~~D~~gEyks~~c~HmDcf 385 (2173)
T KOG1798|consen 311 VFNEPDEVGLLQRFFEHIQEVK----PTIIVTYNGDFFD-WPFVEARAKIHGISMNEEIGFRRDSQGEYKSPFCIHMDCF 385 (2173)
T ss_pred EecCCcHHHHHHHHHHHHHhcC----CcEEEEecCcccc-chhhHHHHHhcCCCcchhcCceecccccccccceeehhhh
Confidence 3467788899999999988742 2367775 64 79 69999999999987421 10 012 2322
Q ss_pred HHHHH--hcCCCCCCHHHHHH-HcCCCC-------------CCCCCC---HHHHHHHHHHHHHHHHHh
Q 016965 268 VPFHE--VFGGVRCNLKEAVE-MAGLAW-------------QGRAHC---GLDDAKNTARLLALLMHR 316 (379)
Q Consensus 268 ~l~r~--l~~~~~~rL~~l~~-~~gI~~-------------~g~~Hr---AL~DA~aTA~Ll~~ll~~ 316 (379)
.+.++ .+|..+.+|..+.+ ++|-.. +...|- ...||.||..|+.+...-
T Consensus 386 rWVKRDSYLPqGSqgLKAVTkaKLGYdPvEvdPEdM~~~A~EkPQ~lasYSVSDAVATYyLYMkYVhP 453 (2173)
T KOG1798|consen 386 RWVKRDSYLPQGSQGLKAVTKAKLGYDPVEVDPEDMVRMAMEKPQTLASYSVSDAVATYYLYMKYVHP 453 (2173)
T ss_pred hhhhhcccCCCcccchhHHHHHhhCCCcccCCHHHhhhhhhhCchhhhhcchHHHHHHHHHHHHHhhh
Confidence 22222 23556678887764 466321 111233 489999999999877653
No 107
>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=90.09 E-value=11 Score=33.24 Aligned_cols=132 Identities=16% Similarity=0.040 Sum_probs=78.4
Q ss_pred ccEEEEEEeeCCCCC-CCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHH
Q 016965 136 QYFVVIDFEATCDKD-KNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEAL 214 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g-~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl 214 (379)
...|.||+|+++... +....-.+|+|+. .+ ...+|++.. + ....
T Consensus 18 ~~~ig~D~E~~~~~~~~~~~~~~liQl~~-----~~------~~~l~~~~~---~---------------------~~~~ 62 (170)
T cd06141 18 EKVVGFDTEWRPSFRKGKRNKVALLQLAT-----ES------RCLLFQLAH---M---------------------DKLP 62 (170)
T ss_pred CCEEEEeCccCCccCCCCCCCceEEEEec-----CC------cEEEEEhhh---h---------------------hccc
Confidence 588999999997621 0123456777751 11 224444442 1 1112
Q ss_pred HHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC-CCCCHHHHHHHc-CCCC
Q 016965 215 LRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG-VRCNLKEAVEMA-GLAW 292 (379)
Q Consensus 215 ~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~-~~~rL~~l~~~~-gI~~ 292 (379)
+.+.+++.+..+ ..|.|+...|+ .+|.+ ..|+.. ..++|+..++..+.+. ...+|.++++.| |+..
T Consensus 63 ~~l~~ll~~~~i----~kv~~~~k~D~-~~L~~---~~g~~~----~~~~Dl~~aa~ll~~~~~~~~l~~l~~~~l~~~~ 130 (170)
T cd06141 63 PSLKQLLEDPSI----LKVGVGIKGDA-RKLAR---DFGIEV----RGVVDLSHLAKRVGPRRKLVSLARLVEEVLGLPL 130 (170)
T ss_pred HHHHHHhcCCCe----eEEEeeeHHHH-HHHHh---HcCCCC----CCeeeHHHHHHHhCCCcCCccHHHHHHHHcCccc
Confidence 345666765421 13556678886 55532 456653 2358998777665554 346999999875 6543
Q ss_pred C--C---------------CCCCHHHHHHHHHHHHHHHH
Q 016965 293 Q--G---------------RAHCGLDDAKNTARLLALLM 314 (379)
Q Consensus 293 ~--g---------------~~HrAL~DA~aTA~Ll~~ll 314 (379)
. . +-|-|..||..+.+|+..|.
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 0 12568899999999988775
No 108
>PHA02524 43A DNA polymerase subunit A; Provisional
Probab=89.18 E-value=3.1 Score=44.20 Aligned_cols=142 Identities=11% Similarity=-0.034 Sum_probs=77.4
Q ss_pred cEEEEEEeeCCCCCCCC--CCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcc--hhhhcCCChHHHhCCCCHHH
Q 016965 137 YFVVIDFEATCDKDKNP--YPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDF--CKDLTGIQQIQVDRGVTLSE 212 (379)
Q Consensus 137 ~fVV~D~ETTGl~g~~~--~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~--~~~LTGIT~~~V~~Ap~~~e 212 (379)
....||+|+|+.+-..+ ...+|..|.-.... + ..++|..+.=++......+. .....-+..-.+-.-++..+
T Consensus 107 ~~~~~DIEv~~~~fp~~~~a~~~i~~i~~~d~~--~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~~f~sE~e 182 (498)
T PHA02524 107 VIDVVDIEVTAPEFPEPKYAKYEIDMISHVRLH--N--GKKTYYIFDLVKDVGHWDPKKSVLEKYILDNVVYMPFEDEVD 182 (498)
T ss_pred eEEEEEEEecCCCCCChhhcCCceEEEEeeecc--c--CCccEEEEeccccccCCCcccccccccccCCeEEEEeCCHHH
Confidence 78899999997521111 23466666544331 1 12344444311100111111 11111122233456788999
Q ss_pred HHHHHHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHH-HcCCCC----CCCC---------------------Cceee
Q 016965 213 ALLRHDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECR-FKKIWK----PPYF---------------------NRWIN 265 (379)
Q Consensus 213 Vl~ef~~fl~~~~Lv~hn~iVVh~-~~FDlr~fL~~~~~-~~gi~~----P~~~---------------------~~~iD 265 (379)
.|.+|.+|+..... .+++..| .+||+ .+|..-++ ..|+.. +.+. .-.+|
T Consensus 183 LL~~F~~~i~~~DP---DIItGYNi~nFDl-PYL~~Ra~~~lGi~~~~~~~~~Gr~~~~~s~~~~G~~~~~~I~GRv~iD 258 (498)
T PHA02524 183 LLLNYIQLWKANTP---DLVFGWNSEGFDI-PYIITRITNILGEKAANQLSPYGKITSKTITNLYGEKIIYKIHGIALMD 258 (498)
T ss_pred HHHHHHHHHHHhCC---CEEEeCCCcccCH-HHHHHHHHHHhCCccccccccccccccccceeecCceeEEEEeeEEEeE
Confidence 99999999988532 2222233 48997 77776665 356531 1110 02357
Q ss_pred hHHHHHHh--cCCCCCCHHHHHH
Q 016965 266 LKVPFHEV--FGGVRCNLKEAVE 286 (379)
Q Consensus 266 t~~l~r~l--~~~~~~rL~~l~~ 286 (379)
+..++++. ....+++|+++++
T Consensus 259 l~~l~kk~s~~~l~sYsL~~Vs~ 281 (498)
T PHA02524 259 YMDVFKKFSFTPMPDYKLGNVGY 281 (498)
T ss_pred HHHHHHHhhhccCCCCCHHHHHH
Confidence 78888875 5678899999876
No 109
>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=88.87 E-value=15 Score=37.41 Aligned_cols=133 Identities=16% Similarity=0.110 Sum_probs=75.9
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 215 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ 215 (379)
..+|+||+|++...... ..-.+|+|+. .+. ..+|.|-. +.. +.
T Consensus 18 ~~~ia~DtE~~~~~~y~-~~l~LiQia~------~~~-----~~liD~~~---~~~----------------------~~ 60 (367)
T TIGR01388 18 FPFVALDTEFVRERTFW-PQLGLIQVAD------GEQ-----LALIDPLV---IID----------------------WS 60 (367)
T ss_pred CCEEEEeccccCCCCCC-CcceEEEEee------CCe-----EEEEeCCC---ccc----------------------HH
Confidence 47999999998663211 1234555532 111 24666652 110 23
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCC-CCCCHHHHHHHc-CCCCC
Q 016965 216 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGG-VRCNLKEAVEMA-GLAWQ 293 (379)
Q Consensus 216 ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~-~~~rL~~l~~~~-gI~~~ 293 (379)
.|.+++.+..+ ..|+|....|+ .+|. +.+...| ..++||.-.+ .+++. ...+|.++++.| |+...
T Consensus 61 ~L~~lL~d~~i----~KV~h~~k~Dl-~~L~----~~~~~~~---~~~fDtqlAa-~lL~~~~~~~l~~Lv~~~Lg~~l~ 127 (367)
T TIGR01388 61 PLKELLRDESV----VKVLHAASEDL-EVFL----NLFGELP---QPLFDTQIAA-AFCGFGMSMGYAKLVQEVLGVELD 127 (367)
T ss_pred HHHHHHCCCCc----eEEEeecHHHH-HHHH----HHhCCCC---CCcccHHHHH-HHhCCCCCccHHHHHHHHcCCCCC
Confidence 44556665421 24667788896 5654 3333333 3467987544 45553 356999998765 66542
Q ss_pred CC------CC---------CHHHHHHHHHHHHHHHHHhcC
Q 016965 294 GR------AH---------CGLDDAKNTARLLALLMHRGF 318 (379)
Q Consensus 294 g~------~H---------rAL~DA~aTA~Ll~~ll~~~~ 318 (379)
.. .. -|..||.++..|+..|.++..
T Consensus 128 K~~~~sdW~~rPL~~~q~~YAa~Dv~~L~~L~~~L~~~L~ 167 (367)
T TIGR01388 128 KSESRTDWLARPLTDAQLEYAAADVTYLLPLYAKLMERLE 167 (367)
T ss_pred cccccccCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 11 02 378889888888888876543
No 110
>PRK05761 DNA polymerase I; Reviewed
Probab=88.73 E-value=4.4 Score=45.47 Aligned_cols=97 Identities=20% Similarity=0.084 Sum_probs=63.3
Q ss_pred CCHHHHHHHHHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHcCCCCCCCCCc------eeehHHHHHHh----c--
Q 016965 208 VTLSEALLRHDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFKKIWKPPYFNR------WINLKVPFHEV----F-- 274 (379)
Q Consensus 208 p~~~eVl~ef~~fl~~~~Lv~hn~iVVh~-~~FDlr~fL~~~~~~~gi~~P~~~~~------~iDt~~l~r~l----~-- 274 (379)
++..+.|.+|.+|+.... ..|.-| .+||+ .+|..-++++|+....+... .+|+...++.. +
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 788999999999999863 334445 47997 89988888899865322111 15664444321 1
Q ss_pred -C---CCCCCHHHHHH-HcCCCCCCC------------CCCHHHHHHHHHHHH
Q 016965 275 -G---GVRCNLKEAVE-MAGLAWQGR------------AHCGLDDAKNTARLL 310 (379)
Q Consensus 275 -~---~~~~rL~~l~~-~~gI~~~g~------------~HrAL~DA~aTA~Ll 310 (379)
+ .++++|+..++ .+|..-... ..-.+.||..|.+|+
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 1 12679999887 677643100 123489999999984
No 111
>PHA03036 DNA polymerase; Provisional
Probab=88.54 E-value=14 Score=42.67 Aligned_cols=181 Identities=13% Similarity=0.051 Sum_probs=105.1
Q ss_pred cccEEEEEEeeCCCCC--CCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCC---------ChHH
Q 016965 135 FQYFVVIDFEATCDKD--KNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGI---------QQIQ 203 (379)
Q Consensus 135 ~~~fVV~D~ETTGl~g--~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGI---------T~~~ 203 (379)
-..|+.||+|+-. .| .++..+-|+.|+.+-++ +.|. +.--++++....+.-...-...-|. .-..
T Consensus 159 ~~~~lsfDIEC~~-~g~FPs~~~~pvshIs~~~~~-~~~~--~~~~~l~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 234 (1004)
T PHA03036 159 PRSYLFLDIECHF-DKKFPSVFINPVSHISCCYID-LSGK--EKRFTLINEDMLSEDEIEEAVKRGYYEIESLLDMDYSK 234 (1004)
T ss_pred cceeEEEEEEecc-CCCCCCcccCcceEEEEEEEe-cCCC--eeEEEEeccccccccccccceeeeeeccccccccCCce
Confidence 3589999999985 34 34577999999987776 3443 3455677764311011111112222 1111
Q ss_pred HhCCCCHHHHHHHHHHHHhhcCCCCccEEEEEc-CcchHHHHHHHHHHHc---CCCCC----------------------
Q 016965 204 VDRGVTLSEALLRHDKWLENKGIKNTNFAVVTW-SNWDCRVMLESECRFK---KIWKP---------------------- 257 (379)
Q Consensus 204 V~~Ap~~~eVl~ef~~fl~~~~Lv~hn~iVVh~-~~FDlr~fL~~~~~~~---gi~~P---------------------- 257 (379)
+---++..+ +-+|.+++.+... .+++..| .+||+ ..|..-++.. |+.++
T Consensus 235 ~~~~~sE~~-ml~~~~~i~~~d~---D~i~~yNg~nFD~-~Yi~~R~~~L~~~~~~~~~~~~~~~~~~~v~~r~~~s~~~ 309 (1004)
T PHA03036 235 ELILCSEIV-LLRIAKKLLELEF---DYVVTFNGHNFDL-RYISNRLELLTGEKIIFRSPDGKETVHLCIYERNLSSHKG 309 (1004)
T ss_pred eeecCCHHH-HHHHHHHHHhcCC---CEEEeccCCCcch-HHHHHHHHHhccCceeeccCCCcccccceeeccccccccc
Confidence 222355555 5577888876532 3433334 47998 5555554442 11110
Q ss_pred -------------CCCCceeehHHHHHHhcCCCCCCHHHHHHH-cCCC-----CCCCC-C---CHHHHHHHHHHHHHHHH
Q 016965 258 -------------PYFNRWINLKVPFHEVFGGVRCNLKEAVEM-AGLA-----WQGRA-H---CGLDDAKNTARLLALLM 314 (379)
Q Consensus 258 -------------~~~~~~iDt~~l~r~l~~~~~~rL~~l~~~-~gI~-----~~g~~-H---rAL~DA~aTA~Ll~~ll 314 (379)
.-..-++|+..+.++-+.+.+|+|+.+.+. ||.. ...+. + .-..||...+.+|...+
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 001135688889999888899999999986 4330 00000 0 11358889999999999
Q ss_pred HhcCCCcccc
Q 016965 315 HRGFKFSITN 324 (379)
Q Consensus 315 ~~~~~~~i~~ 324 (379)
+-|.-.+|++
T Consensus 390 ~t~ny~~i~~ 399 (1004)
T PHA03036 390 STGNYVTIND 399 (1004)
T ss_pred cccceeeecc
Confidence 8887666665
No 112
>COG0613 Predicted metal-dependent phosphoesterases (PHP family) [General function prediction only]
Probab=85.01 E-value=0.59 Score=45.30 Aligned_cols=50 Identities=4% Similarity=0.001 Sum_probs=42.3
Q ss_pred cCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCccccc-ccccccCcccccchhcc
Q 016965 47 HPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFY-PDSQKVHHCQMNSFESQ 104 (379)
Q Consensus 47 ~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~-~~~~k~~~~~~~g~e~~ 104 (379)
-++.++|++|++-|-..+|||| |-.+..-+++- .++...++..+.|+|-.
T Consensus 17 ~~p~~vv~~A~~~g~~vlAiTD--------Hdt~~g~~~a~~~~~~~l~i~vipG~Ei~ 67 (258)
T COG0613 17 LTPREVVERAKAKGVDVLAITD--------HDTVRGLLEARRAAGLRLGITVIPGIEIS 67 (258)
T ss_pred CCHHHHHHHHHHcCCCEEEECC--------cccccccHHHHHHhhcCCCceeeccEEee
Confidence 3588999999999999999999 77777888885 56666788999898765
No 113
>PRK10829 ribonuclease D; Provisional
Probab=84.65 E-value=36 Score=34.91 Aligned_cols=132 Identities=15% Similarity=0.167 Sum_probs=81.8
Q ss_pred ccEEEEEEeeCCCCCCCCCC--CcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYP--QEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEA 213 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~--deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eV 213 (379)
...|+||+|+.+. ..+. -.+|+|+ ++. -..+|.|-. ++.
T Consensus 22 ~~~lalDtEf~~~---~ty~~~l~LiQl~-------~~~----~~~LiD~l~---~~d---------------------- 62 (373)
T PRK10829 22 FPAIALDTEFVRT---RTYYPQLGLIQLY-------DGE----QLSLIDPLG---ITD---------------------- 62 (373)
T ss_pred CCeEEEecccccC---ccCCCceeEEEEe-------cCC----ceEEEecCC---ccc----------------------
Confidence 5789999999975 2232 3455554 111 125676652 221
Q ss_pred HHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCC-CCCHHHHHH-HcCCC
Q 016965 214 LLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGV-RCNLKEAVE-MAGLA 291 (379)
Q Consensus 214 l~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~~-~~rL~~l~~-~~gI~ 291 (379)
+..|.+.+.+..+ +-|.|.+.+|+ .+|.+ ..|+. | ..++||...+ .+.|.. +.+|..+++ .+|+.
T Consensus 63 ~~~L~~ll~~~~i----vKV~H~~~~Dl-~~l~~---~~g~~-p---~~~fDTqiaa-~~lg~~~~~gl~~Lv~~~lgv~ 129 (373)
T PRK10829 63 WSPFKALLRDPQV----TKFLHAGSEDL-EVFLN---AFGEL-P---QPLIDTQILA-AFCGRPLSCGFASMVEEYTGVT 129 (373)
T ss_pred hHHHHHHHcCCCe----EEEEeChHhHH-HHHHH---HcCCC-c---CCeeeHHHHH-HHcCCCccccHHHHHHHHhCCc
Confidence 1345556666432 13568889997 66643 44653 2 3578996544 566754 679999885 57775
Q ss_pred CCC---------------CCCCHHHHHHHHHHHHHHHHHhcCC
Q 016965 292 WQG---------------RAHCGLDDAKNTARLLALLMHRGFK 319 (379)
Q Consensus 292 ~~g---------------~~HrAL~DA~aTA~Ll~~ll~~~~~ 319 (379)
.+. +-+-|..|+..+..|+..|.++..+
T Consensus 130 ldK~~~~sDW~~RPLs~~ql~YAa~Dv~~L~~l~~~L~~~L~~ 172 (373)
T PRK10829 130 LDKSESRTDWLARPLSERQCEYAAADVFYLLPIAAKLMAETEA 172 (373)
T ss_pred cCcccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 421 1255889999999999998876543
No 114
>smart00474 35EXOc 3'-5' exonuclease. 3\' -5' exonuclease proofreading domain present in DNA polymerase I, Werner syndrome helicase, RNase D and other enzymes
Probab=80.20 E-value=23 Score=30.33 Aligned_cols=90 Identities=20% Similarity=0.168 Sum_probs=54.9
Q ss_pred HHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCC-CCHHHHHHHc-CCC
Q 016965 214 LLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVR-CNLKEAVEMA-GLA 291 (379)
Q Consensus 214 l~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~~~-~rL~~l~~~~-gI~ 291 (379)
+..+.+|+.+... ..++|+..+|+ .+|. +.|+..+ + ++|+.-.+..+.+... ++|.++++.| |+.
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---N-IFDTMLAAYLLLGGPSKHGLATLLKEYLGVE 130 (172)
T ss_pred HHHHHHHhcCCCc----eEEEechHHHH-HHHH----HCCCccc---c-hhHHHHHHHHHcCCCCcCCHHHHHHHHhCCC
Confidence 4556677776421 24667778885 5664 4677653 2 3899766655566443 6999998776 554
Q ss_pred CCC---C-----C---C----CHHHHHHHHHHHHHHHHHh
Q 016965 292 WQG---R-----A---H----CGLDDAKNTARLLALLMHR 316 (379)
Q Consensus 292 ~~g---~-----~---H----rAL~DA~aTA~Ll~~ll~~ 316 (379)
.+. . . . .|..||.++.+|+..|.++
T Consensus 131 ~~~~~~~~~~~~~~l~~~~~~ya~~~a~~~~~L~~~l~~~ 170 (172)
T smart00474 131 LDKEEQKSDWGARPLSEEQLQYAAEDADALLRLYEKLEKE 170 (172)
T ss_pred CCcccCccccccCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 211 0 0 0 2566777777777766543
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=79.67 E-value=21 Score=32.84 Aligned_cols=92 Identities=13% Similarity=-0.038 Sum_probs=53.1
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcC--------CCCCCHHHHHHH
Q 016965 216 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFG--------GVRCNLKEAVEM 287 (379)
Q Consensus 216 ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~--------~~~~rL~~l~~~ 287 (379)
.+.+++++..+ ..|+|+...|+ .+|. +..|+... .+.||...+..+.+ ....+|.+++++
T Consensus 56 ~L~~iLe~~~i----~Kv~h~~k~D~-~~L~---~~~gi~~~----~~fDt~iA~~lL~~~~~~~~~~~~~~~L~~l~~~ 123 (197)
T cd06148 56 GLKDILESKKI----LKVIHDCRRDS-DALY---HQYGIKLN----NVFDTQVADALLQEQETGGFNPDRVISLVQLLDK 123 (197)
T ss_pred HHHHHhcCCCc----cEEEEechhHH-HHHH---HhcCcccc----ceeeHHHHHHHHHHHhcCCccccccccHHHHHHH
Confidence 34455655321 23567778885 5553 34566432 24788644332221 113578888876
Q ss_pred c-CCCCC-----------------C------CCCCHHHHHHHHHHHHHHHHHhcCC
Q 016965 288 A-GLAWQ-----------------G------RAHCGLDDAKNTARLLALLMHRGFK 319 (379)
Q Consensus 288 ~-gI~~~-----------------g------~~HrAL~DA~aTA~Ll~~ll~~~~~ 319 (379)
| |++.. . +-.-|..||..+..|+..|+....+
T Consensus 124 ~l~~~~~k~~~~~~~~~~~~s~W~~RPLt~~ql~YAa~Dv~~Ll~l~~~l~~~l~~ 179 (197)
T cd06148 124 YLYISISLKEDVKKLMREDPKFWALRPLTEDMIRYAALDVLCLLPLYYAMLDALIS 179 (197)
T ss_pred hhCCChHHHHHHHHHHhcCchhhhcCCCCHHHHHHHHHHHHhHHHHHHHHHHHhhh
Confidence 4 54320 1 1245789999999999999877544
No 116
>KOG1275 consensus PAB-dependent poly(A) ribonuclease, subunit PAN2 [Replication, recombination and repair]
Probab=79.53 E-value=0.78 Score=51.39 Aligned_cols=110 Identities=24% Similarity=0.296 Sum_probs=68.1
Q ss_pred CCcchhhhcCCChHHHhCCC------CHHHHHHHHHHHHhhcCCCCccEEEEEcC-cchHHHHHHHHHHHcCCCCCCCCC
Q 016965 189 LSDFCKDLTGIQQIQVDRGV------TLSEALLRHDKWLENKGIKNTNFAVVTWS-NWDCRVMLESECRFKKIWKPPYFN 261 (379)
Q Consensus 189 Ls~~~~~LTGIT~~~V~~Ap------~~~eVl~ef~~fl~~~~Lv~hn~iVVh~~-~FDlr~fL~~~~~~~gi~~P~~~~ 261 (379)
+.+.-++..||...||+--. ++.-++.++. +|-+.+ +++|.|| .-|+ +..+|..| ..
T Consensus 973 VvDYLTqySGI~PGDLDp~~S~K~Lt~lK~~Y~Kl~-~Li~~G-----viFVGHGL~nDF--------rvINi~Vp--~~ 1036 (1118)
T KOG1275|consen 973 VVDYLTQYSGIKPGDLDPTTSEKRLTTLKVLYLKLR-LLIQRG-----VIFVGHGLQNDF--------RVINIHVP--EE 1036 (1118)
T ss_pred HHHHHHHhcCCCccccCCccCcceehhHHHHHHHHH-HHHHcC-----cEEEcccccccc--------eEEEEecC--hh
Confidence 55666778899999986422 2444555543 333332 3455554 4453 23344444 24
Q ss_pred ceeehHHHHHHhcCCCC-CCHHHHHHH-cCCCCCCCCCCHHHHHHHHHHHHHHHHHh
Q 016965 262 RWINLKVPFHEVFGGVR-CNLKEAVEM-AGLAWQGRAHCGLDDAKNTARLLALLMHR 316 (379)
Q Consensus 262 ~~iDt~~l~r~l~~~~~-~rL~~l~~~-~gI~~~g~~HrAL~DA~aTA~Ll~~ll~~ 316 (379)
+.+||..+++ .|..+ .+|..|+.+ +|.......|+.+.||+.+..|+.+.++-
T Consensus 1037 QiiDTv~lf~--~~s~R~LSLrfLa~~lLg~~IQ~~~HDSIeDA~taLkLYk~Yl~l 1091 (1118)
T KOG1275|consen 1037 QIIDTVTLFR--LGSQRMLSLRFLAWELLGETIQMEAHDSIEDARTALKLYKKYLKL 1091 (1118)
T ss_pred hheeeeEEEe--cccccEEEHHHHHHHHhcchhhccccccHHHHHHHHHHHHHHHHH
Confidence 5688866543 34323 388888864 67655546799999999999999988754
No 117
>PRK08392 hypothetical protein; Provisional
Probab=70.07 E-value=2.5 Score=39.50 Aligned_cols=56 Identities=7% Similarity=0.028 Sum_probs=38.0
Q ss_pred cccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCccccc----ccccccCcccccchhccc
Q 016965 45 IVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFY----PDSQKVHHCQMNSFESQF 105 (379)
Q Consensus 45 ~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~----~~~~k~~~~~~~g~e~~~ 105 (379)
+..++.++|+.|.+-|-+.|+||||...- ....++... ...++.+++++.|+|..+
T Consensus 12 ~~~~~~e~v~~A~~~Gl~~i~iTdH~~~~-----~~~~~~~y~~~i~~l~~~~~i~il~GiE~~~ 71 (215)
T PRK08392 12 GIGSVRDNIAEAERKGLRLVGISDHIHYF-----TPSKFNAYINEIRQWGEESEIVVLAGIEANI 71 (215)
T ss_pred CcCCHHHHHHHHHHcCCCEEEEccCCCcc-----chhhHHHHHHHHHHHhhccCceEEEeEEeee
Confidence 45568899999999999999999955331 001233222 123445788889999874
No 118
>COG0749 PolA DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]
Probab=69.28 E-value=39 Score=36.88 Aligned_cols=91 Identities=24% Similarity=0.220 Sum_probs=54.1
Q ss_pred HHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhc-CCCCCCHHHHHHHc-CC
Q 016965 213 ALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVF-GGVRCNLKEAVEMA-GL 290 (379)
Q Consensus 213 Vl~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~-~~~~~rL~~l~~~~-gI 290 (379)
++..+..|+.+... ..+.++..+|+ .+| .++|+. + ....||.-..-.+- +...+.|++++++| +.
T Consensus 66 ~~~~l~~~l~~~~~----~kv~~~~K~d~-~~l----~~~Gi~-~---~~~~DtmlasYll~~~~~~~~~~~l~~r~l~~ 132 (593)
T COG0749 66 VLAALKPLLEDEGI----KKVGQNLKYDY-KVL----ANLGIE-P---GVAFDTMLASYLLNPGAGAHNLDDLAKRYLGL 132 (593)
T ss_pred hHHHHHHHhhCccc----chhccccchhH-HHH----HHcCCc-c---cchHHHHHHHhccCcCcCcCCHHHHHHHhcCC
Confidence 88899999988641 12444558884 444 467754 2 22457753322222 23467899998887 22
Q ss_pred CCC--------CC-------------CCCHHHHHHHHHHHHHHHHHh
Q 016965 291 AWQ--------GR-------------AHCGLDDAKNTARLLALLMHR 316 (379)
Q Consensus 291 ~~~--------g~-------------~HrAL~DA~aTA~Ll~~ll~~ 316 (379)
... |. .-.+-.||.+|.+|...+..+
T Consensus 133 ~~~~~~~i~~kg~~~~~~~~~~~~~~~~y~a~~a~~~~~L~~~l~~~ 179 (593)
T COG0749 133 ETITFEDIAGKGKKQLTFADVKLEKATEYAAEDADATLRLESILEPE 179 (593)
T ss_pred ccchhHHhhccccccCccccchHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 110 00 123567888999888888754
No 119
>TIGR00593 pola DNA polymerase I. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=69.18 E-value=14 Score=42.07 Aligned_cols=97 Identities=13% Similarity=-0.011 Sum_probs=62.4
Q ss_pred HHHHHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCCCCCHHHHHHHc-
Q 016965 210 LSEALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAVEMA- 288 (379)
Q Consensus 210 ~~eVl~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~~~~rL~~l~~~~- 288 (379)
...++..|.+|+.+..+ ..+.|+..||+ .+|. ++|+..+ ..+.||.-...-+-+...++|++++++|
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 45677778888887532 24678889996 6664 6788754 2467887554444444456999998776
Q ss_pred CCCC---C---CC------------CCCHHHHHHHHHHHHHHHHHhcC
Q 016965 289 GLAW---Q---GR------------AHCGLDDAKNTARLLALLMHRGF 318 (379)
Q Consensus 289 gI~~---~---g~------------~HrAL~DA~aTA~Ll~~ll~~~~ 318 (379)
+... . |. ...|..||.+|.+|+..+..+..
T Consensus 431 ~~~~~~~~~~~~~~~~~~~~~~~~~~~ya~~d~~~~~~L~~~l~~~l~ 478 (887)
T TIGR00593 431 VEELILDEKIGGKLAKFAFPPLEEATEYLARRAAATKRLAEELLKELD 478 (887)
T ss_pred CcccccHHHhccCCCCcccccHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3110 0 10 01367789999999988876543
No 120
>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=67.71 E-value=44 Score=29.16 Aligned_cols=94 Identities=17% Similarity=0.115 Sum_probs=54.7
Q ss_pred HHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHc-CCCCCCCCCceeehHHHHHHhcCCCCCCHHHHHHHc-CC
Q 016965 213 ALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFK-KIWKPPYFNRWINLKVPFHEVFGGVRCNLKEAVEMA-GL 290 (379)
Q Consensus 213 Vl~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~-gi~~P~~~~~~iDt~~l~r~l~~~~~~rL~~l~~~~-gI 290 (379)
+...|.+++.+... ..++|+..+|+ ..|. ++ |+. + +.+.|+.-....+-+..+++|+++++.| |+
T Consensus 52 ~~~~l~~ll~~~~i----~kv~~d~K~~~-~~L~----~~~gi~-~---~~~~D~~laayLl~p~~~~~l~~l~~~~l~~ 118 (178)
T cd06142 52 DLSPLKELLADPNI----VKVFHAAREDL-ELLK----RDFGIL-P---QNLFDTQIAARLLGLGDSVGLAALVEELLGV 118 (178)
T ss_pred cHHHHHHHHcCCCc----eEEEeccHHHH-HHHH----HHcCCC-C---CCcccHHHHHHHhCCCccccHHHHHHHHhCC
Confidence 34446667776421 24566677775 4543 44 765 2 2357986444433344446999998865 65
Q ss_pred CCC-----CC---C-------CCHHHHHHHHHHHHHHHHHhcCC
Q 016965 291 AWQ-----GR---A-------HCGLDDAKNTARLLALLMHRGFK 319 (379)
Q Consensus 291 ~~~-----g~---~-------HrAL~DA~aTA~Ll~~ll~~~~~ 319 (379)
... ++ . +.|..||.++.+|+..|.++..+
T Consensus 119 ~~~~~~~~~~w~~~~l~~~~~~yaa~~a~~l~~L~~~l~~~L~e 162 (178)
T cd06142 119 ELDKGEQRSDWSKRPLTDEQLEYAALDVRYLLPLYEKLKEELEE 162 (178)
T ss_pred CCCcccccccCCCCCCCHHHHHHHHHhHHHHHHHHHHHHHHHHH
Confidence 421 00 0 13667788888888888765543
No 121
>PRK00912 ribonuclease P protein component 3; Provisional
Probab=64.56 E-value=4.3 Score=38.42 Aligned_cols=50 Identities=12% Similarity=-0.023 Sum_probs=34.2
Q ss_pred cccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCCccccccccc-ccCcccccchhcc
Q 016965 45 IVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGSWSTFYPDSQ-KVHHCQMNSFESQ 104 (379)
Q Consensus 45 ~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~~p~~~~~~~-k~~~~~~~g~e~~ 104 (379)
+..++.+++++|.+.|-+.|+||| |... +|......+ -.++++..|+|-.
T Consensus 14 ~~~~~~e~i~~A~~~Gl~~i~itd--------H~~~--~~~~~~~~~~~~~i~Il~GiEi~ 64 (237)
T PRK00912 14 GYDTVLRLISEASHLGYSGIALSN--------HSDK--YPESKPELEDLLGFEIFRGVEIV 64 (237)
T ss_pred CcchHHHHHHHHHHCCCCEEEEec--------Cccc--ccchhHHHHHhcCCcEEeeEEEe
Confidence 345788999999999999999999 5432 222111001 1178888899875
No 122
>PRK07328 histidinol-phosphatase; Provisional
Probab=56.49 E-value=6.1 Score=38.12 Aligned_cols=60 Identities=5% Similarity=0.136 Sum_probs=37.3
Q ss_pred ccCchhhhhhhhhcCCceeeeccCCCCC---CCC-CCC----CCCccccccc----ccc-cCcccccchhccc
Q 016965 46 VHPGGDAGESIHQLSSEFVEYSNEFYNN---PTY-QHD----FGSWSTFYPD----SQK-VHHCQMNSFESQF 105 (379)
Q Consensus 46 ~~~~~~~i~~a~~~g~~aiaitd~~~~~---~~~-h~~----~q~~p~~~~~----~~k-~~~~~~~g~e~~~ 105 (379)
..++.++|++|.+-|-+.++||||+-.- |.. +.. ...++.+... .+| .++++..|+|..+
T Consensus 17 ~~~~ee~v~~A~~~Gl~~i~~TdH~~~~~~~~~~~~~~~~~~~~~~~~y~~~i~~l~~~y~~i~Il~GiE~~~ 89 (269)
T PRK07328 17 VGTPEEYVQAARRAGLKEIGFTDHLPMYFLPPEWRDPGLAMRLEELPFYVSEVERLRARFPDLYVRLGIEADY 89 (269)
T ss_pred CCCHHHHHHHHHHCCCCEEEEecCCCCCCcCcccccccccccHHHHHHHHHHHHHHHHHcCCCeEEEEEEecc
Confidence 4468899999999999999999976541 100 000 0112333221 122 3688889999885
No 123
>COG1387 HIS2 Histidinol phosphatase and related hydrolases of the PHP family [Amino acid transport and metabolism / General function prediction only]
Probab=54.90 E-value=8.5 Score=36.75 Aligned_cols=53 Identities=9% Similarity=0.041 Sum_probs=35.7
Q ss_pred cccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCCCC---ccccc----c----cccccCcccccchhccc
Q 016965 45 IVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDFGS---WSTFY----P----DSQKVHHCQMNSFESQF 105 (379)
Q Consensus 45 ~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~q~---~p~~~----~----~~~k~~~~~~~g~e~~~ 105 (379)
+..++.++|++|.+-|.+.++||| |+.... +++.+ . ..+...++++-|+|..+
T Consensus 14 g~~~~~e~~~~A~~~g~~~~~iTd--------H~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~i~~G~E~~~ 77 (237)
T COG1387 14 GEATPEEMVEAAIELGLEYIAITD--------HAPFLRVGLDAELLKYFIEEIRELKKEYDIKILIGIEVDI 77 (237)
T ss_pred CCCCHHHHHHHHHHcCCeEEEEec--------cccccccCCCHHHHHHHHHHHHHHHHhcCceEEEeEEEEe
Confidence 445778899999999999999999 555422 22211 1 12334477778888874
No 124
>PRK07945 hypothetical protein; Provisional
Probab=54.42 E-value=11 Score=37.80 Aligned_cols=61 Identities=7% Similarity=-0.019 Sum_probs=37.7
Q ss_pred cccCchhhhhhhhhcCCceeeeccCCCCCCCCCCC-CCCccccccc----ccc-cCcccccchhccc
Q 016965 45 IVHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHD-FGSWSTFYPD----SQK-VHHCQMNSFESQF 105 (379)
Q Consensus 45 ~~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~-~q~~p~~~~~----~~k-~~~~~~~g~e~~~ 105 (379)
+..++.++|++|.+-|.+.|+||||+-.-+...+. .+.++.++.. .++ .++++..|+|..+
T Consensus 109 g~~~~ee~v~~Ai~~Gl~~i~~TDH~p~~~~~~~~~~~~l~~y~~~i~~l~~ky~~I~Il~GiE~d~ 175 (335)
T PRK07945 109 GGSPIEEMARTAAALGHEYCALTDHSPRLTVANGLSAERLRKQLDVVAELNEELAPFRILTGIEVDI 175 (335)
T ss_pred CCCCHHHHHHHHHHCCCCEEEEeCCCCCccCCCCCCHHHHHHHHHHHHHHHHhcCCceEEEEeEecc
Confidence 55679999999999999999999965441110110 1111212211 122 3588888999875
No 125
>PHA02563 DNA polymerase; Provisional
Probab=50.79 E-value=92 Score=34.35 Aligned_cols=40 Identities=13% Similarity=0.120 Sum_probs=27.5
Q ss_pred HHHHHHHHhhcCCCCccE-EEEEcCcchHHHHHHHHHHHcCC
Q 016965 214 LLRHDKWLENKGIKNTNF-AVVTWSNWDCRVMLESECRFKKI 254 (379)
Q Consensus 214 l~ef~~fl~~~~Lv~hn~-iVVh~~~FDlr~fL~~~~~~~gi 254 (379)
+++|++|+....-..+++ +.+||+.|| ..||-+.+.+++.
T Consensus 50 ~~~f~~~i~~~~~k~~~~~vYfHN~~FD-~~Fil~~L~~~~~ 90 (630)
T PHA02563 50 FDEFLQWIEDTTYKETECIIYFHNLKFD-GSFILKWLLRNGF 90 (630)
T ss_pred HHHHHHHHhhccccccceEEEEecCCcc-HHHHHHHHHhhcc
Confidence 458888888422222333 566889999 5899998887663
No 126
>KOG0969 consensus DNA polymerase delta, catalytic subunit [Replication, recombination and repair]
Probab=50.17 E-value=8.5 Score=42.93 Aligned_cols=160 Identities=20% Similarity=0.149 Sum_probs=89.7
Q ss_pred cEEEEEEeeCCCCCCC--CCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHH
Q 016965 137 YFVVIDFEATCDKDKN--PYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEAL 214 (379)
Q Consensus 137 ~fVV~D~ETTGl~g~~--~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl 214 (379)
....||+|+.|-.|.- +..|.||+|+-+.. .-|+- +-||+-- + .+. ...+|.-.+|-.-...+++|
T Consensus 275 rvlSfDIECagrkg~FPe~~~DPvIQIan~v~--~~Ge~----~pf~rnv-f-~l~----~capI~G~~V~~~~~e~elL 342 (1066)
T KOG0969|consen 275 RVLSFDIECAGRKGVFPEAKIDPVIQIANLVT--LQGEN----EPFVRNV-F-TLK----TCAPIVGSNVHSYETEKELL 342 (1066)
T ss_pred cccceeEEeccCCCCCCccccChHHHHHHHHH--HhcCC----chHHHhh-h-ccc----CcCCCCCceeEEeccHHHHH
Confidence 4567999999876533 46789999987654 12221 1122111 1 122 12466667777666777777
Q ss_pred HHHHHHHhhc---CCCCccEEEEEcCcchHHHHHHHHHHHcCCC-CCCCCC-----c-----------------------
Q 016965 215 LRHDKWLENK---GIKNTNFAVVTWSNWDCRVMLESECRFKKIW-KPPYFN-----R----------------------- 262 (379)
Q Consensus 215 ~ef~~fl~~~---~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~-~P~~~~-----~----------------------- 262 (379)
+.-.+|+.+- ++.|.|+ -+||+ .+|-.-.+-.||+ ||.+.. .
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 7777777653 3334333 37996 5655444555553 342111 0
Q ss_pred ---eeehHHHHHHhcCCCCCCHHHHHHHc-CCCCCCCCCCHH-------------------HHHHHHHHHHHHHH
Q 016965 263 ---WINLKVPFHEVFGGVRCNLKEAVEMA-GLAWQGRAHCGL-------------------DDAKNTARLLALLM 314 (379)
Q Consensus 263 ---~iDt~~l~r~l~~~~~~rL~~l~~~~-gI~~~g~~HrAL-------------------~DA~aTA~Ll~~ll 314 (379)
-+|++....+-|.+++|+|+.+.-+| |-.-++-||+-+ -||+.-.+||.+|+
T Consensus 417 GRlqfDllqvi~Rd~KLrSytLNaVs~hFL~EQKEDV~~siItdLQng~~~TRRRlA~YCLkDAYLPlRLlekLM 491 (1066)
T KOG0969|consen 417 GRLQFDLLQVILRDYKLRSYTLNAVSAHFLGEQKEDVHHSIITDLQNGNEQTRRRLAVYCLKDAYLPLRLLEKLM 491 (1066)
T ss_pred ceeeehHHHHHHHhhhhhhcchhhhHHHhhhhhcccccccchhhhhcCcHHHHHHHHHHHhhhhcchHHHHHHHH
Confidence 13444455555667788888877554 433333456544 45666666666654
No 127
>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=50.12 E-value=8.3 Score=36.88 Aligned_cols=60 Identities=10% Similarity=0.092 Sum_probs=38.3
Q ss_pred ccCchhhhhhhhhcCCceeeeccCCCCCC-CCCCC------CCCccccccc----ccc--cCcccccchhccc
Q 016965 46 VHPGGDAGESIHQLSSEFVEYSNEFYNNP-TYQHD------FGSWSTFYPD----SQK--VHHCQMNSFESQF 105 (379)
Q Consensus 46 ~~~~~~~i~~a~~~g~~aiaitd~~~~~~-~~h~~------~q~~p~~~~~----~~k--~~~~~~~g~e~~~ 105 (379)
..++.++|++|.+-|-+.|+||||+...+ ..... ..++|.+... .+| .++++..|+|..+
T Consensus 14 ~~~~ee~v~~A~~~Gl~~i~~TdH~p~~~~~~~~~~~~~~~~~~~~~Y~~~i~~l~~~y~~~i~I~~GiE~~~ 86 (253)
T TIGR01856 14 TDTLEEVVQEAIQLGFEEICFTEHAPLPFEYPEETALDKMAFSSLPEYFKEINRLKKEYADKLKILIGLEVDY 86 (253)
T ss_pred CCCHHHHHHHHHHcCCCEEEecCCCCcccCCCccccccchhHHHHHHHHHHHHHHHHHhhCCCeEEEEEEecc
Confidence 34678999999999999999999875311 00100 1123333221 122 3688899999985
No 128
>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=49.92 E-value=1.2e+02 Score=26.58 Aligned_cols=108 Identities=17% Similarity=0.094 Sum_probs=60.8
Q ss_pred ccEEEEEEeeCCCCCCCCCCCcEEEEceEEEEcCCCeEEeEEEEeecCCCCCCCCcchhhhcCCChHHHhCCCCHHHHHH
Q 016965 136 QYFVVIDFEATCDKDKNPYPQEIIEFPSVIVSSVTGQLEACFQTYVRPTCNQLLSDFCKDLTGIQQIQVDRGVTLSEALL 215 (379)
Q Consensus 136 ~~fVV~D~ETTGl~g~~~~~deIIEIGAV~vd~~~g~i~d~F~~~VkP~~~~~Ls~~~~~LTGIT~~~V~~Ap~~~eVl~ 215 (379)
...+.+|+|++|. ++...+|+-|+.. . +++ .++|.+.. . + .+..
T Consensus 3 ~~~~~~~~~~~~~---~~~~~~l~~i~l~--~--~~~-----~~~i~~~~--~----------~------------~~~~ 46 (178)
T cd06140 3 ADEVALYVELLGE---NYHTADIIGLALA--N--GGG-----AYYIPLEL--A----------L------------LDLA 46 (178)
T ss_pred CCceEEEEEEcCC---CcceeeEEEEEEE--e--CCc-----EEEEeccc--h----------H------------HHHH
Confidence 3678999999986 4455666544332 1 121 23454321 1 0 1445
Q ss_pred HHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCC-CCCHHHHHHHc-CCC
Q 016965 216 RHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGV-RCNLKEAVEMA-GLA 291 (379)
Q Consensus 216 ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~~-~~rL~~l~~~~-gI~ 291 (379)
.+.+++.+... ..++|+..+|+ .+| .+.|+..+ +.+.||.-...-+-+.. +++|++++++| |..
T Consensus 47 ~l~~~l~~~~~----~ki~~d~K~~~-~~l----~~~gi~~~---~~~fDt~laaYLL~p~~~~~~l~~l~~~yl~~~ 112 (178)
T cd06140 47 ALKEWLEDEKI----PKVGHDAKRAY-VAL----KRHGIELA---GVAFDTMLAAYLLDPTRSSYDLADLAKRYLGRE 112 (178)
T ss_pred HHHHHHhCCCC----ceeccchhHHH-HHH----HHCCCcCC---CcchhHHHHHHHcCCCCCCCCHHHHHHHHcCCC
Confidence 56677776421 24556667774 454 46787764 34578865444333433 37999998775 443
No 129
>PRK05588 histidinol-phosphatase; Provisional
Probab=47.07 E-value=15 Score=35.02 Aligned_cols=59 Identities=7% Similarity=-0.035 Sum_probs=36.4
Q ss_pred ccCchhhhhhhhhcCCceeeeccCCCCCCCCC-CCCCCccccccccccc-Ccccccchhccc
Q 016965 46 VHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQ-HDFGSWSTFYPDSQKV-HHCQMNSFESQF 105 (379)
Q Consensus 46 ~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h-~~~q~~p~~~~~~~k~-~~~~~~g~e~~~ 105 (379)
..++.++|++|.+-|-+.+ ||||+-.-..++ ......+.+....++. ++++..|+|..+
T Consensus 15 ~~~~ee~v~~A~~~Gl~~~-~TdH~~~~~~~~~~~~~~~~~y~~~i~~~~~~~I~~GiE~~~ 75 (255)
T PRK05588 15 KMKIEEAIKKAKENNLGII-ITEHMDLNLPDKNKFCFDVDSYFNKYSKYRNNKLLLGIELGM 75 (255)
T ss_pred ccCHHHHHHHHHHcCCCEE-EeCCCCCCCCCccccccCHHHHHHHHHHHhcCCcceEEEecc
Confidence 3468899999999999988 999763310001 0112334444333332 477888999874
No 130
>PRK08609 hypothetical protein; Provisional
Probab=35.90 E-value=25 Score=37.98 Aligned_cols=60 Identities=7% Similarity=-0.090 Sum_probs=37.3
Q ss_pred ccCchhhhhhhhhcCCceeeeccCCCCCCCCCCCC-CCcccccc---c-ccc-cCcccccchhccc
Q 016965 46 VHPGGDAGESIHQLSSEFVEYSNEFYNNPTYQHDF-GSWSTFYP---D-SQK-VHHCQMNSFESQF 105 (379)
Q Consensus 46 ~~~~~~~i~~a~~~g~~aiaitd~~~~~~~~h~~~-q~~p~~~~---~-~~k-~~~~~~~g~e~~~ 105 (379)
..+..++++.|.+-|-+.|+||||.-..+..++.. ..++..+. . .++ .++++..|+|..+
T Consensus 348 ~~sleemv~~A~~~Gl~~i~iTdH~~~~~~~~~~~~~~l~~~~~ei~~l~~~~~~i~Il~GiEv~i 413 (570)
T PRK08609 348 AFSIEEMVEACIAKGYEYMAITDHSQYLKVANGLTEERLLEQAEEIKALNEKYPEIDILSGIEMDI 413 (570)
T ss_pred CCCHHHHHHHHHHCCCCEEEEeCCCCCccccCCCCHHHHHHHHHHHHHHHHhcCCCeEEEEEEEee
Confidence 34778999999999999999999764322111111 11222211 1 111 3688899999885
No 131
>PRK08123 histidinol-phosphatase; Reviewed
Probab=31.43 E-value=21 Score=34.48 Aligned_cols=58 Identities=10% Similarity=0.008 Sum_probs=36.6
Q ss_pred CchhhhhhhhhcCCceeeeccCCCCC-----CC---CCCC-CCCccccccc----ccc--cCcccccchhccc
Q 016965 48 PGGDAGESIHQLSSEFVEYSNEFYNN-----PT---YQHD-FGSWSTFYPD----SQK--VHHCQMNSFESQF 105 (379)
Q Consensus 48 ~~~~~i~~a~~~g~~aiaitd~~~~~-----~~---~h~~-~q~~p~~~~~----~~k--~~~~~~~g~e~~~ 105 (379)
++.++|++|.+-|-+.|+||||.-.. |. ..+. ..+++.++.. .+| .++++..|+|..+
T Consensus 20 ~~e~~v~~Ai~~Gl~~i~~tdH~p~~~~~~~~~~~~~~~~~~~~~~~Y~~~i~~l~~ky~~~i~i~~GiE~~~ 92 (270)
T PRK08123 20 DLEAYIERAIELGFTEITFTEHAPLPPGFIDPTPRQDSAMAIEQLERYLKELNELKKKYAGQIDIRIGLEVDY 92 (270)
T ss_pred CHHHHHHHHHHcCCcEEEEeccCCCccccCCcccCcccccCHHHHHHHHHHHHHHHHHccCCCeEEEEEEeec
Confidence 46899999999999999999975542 10 0000 0123333321 122 3588888999975
No 132
>PF11074 DUF2779: Domain of unknown function(DUF2779); InterPro: IPR021301 This domain is conserved in bacteria. The function is not known.
Probab=31.28 E-value=1.9e+02 Score=25.20 Aligned_cols=59 Identities=17% Similarity=0.119 Sum_probs=35.1
Q ss_pred CCCHHHHHHHHHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHc-----CCCCCCCCCceeehHHHHHH
Q 016965 207 GVTLSEALLRHDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFK-----KIWKPPYFNRWINLKVPFHE 272 (379)
Q Consensus 207 Ap~~~eVl~ef~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~-----gi~~P~~~~~~iDt~~l~r~ 272 (379)
..+-.+.++.+++.|+... ..+||.+.+|+ +.-|+.-++.. .+. .+..+.+|+..+++.
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-KTRLKELAELFPDYAEKLN--SIIERTVDLLDPFKN 117 (130)
T ss_pred CCchHHHHHHHHHHhhhhc----CeEEEechHHH-HHHHHHHHHHhHHHHHHHH--HHHHHHHHHHHHHhh
Confidence 4566677888888887641 24677778899 57776544431 110 012345677666665
No 133
>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=30.92 E-value=3.1e+02 Score=22.79 Aligned_cols=63 Identities=16% Similarity=-0.007 Sum_probs=36.8
Q ss_pred HHHHHhhcCCCCccEEEEEcCcchHHHHHHHHHHHcCCCCCCCCCceeehHHHHHHhcCCC-CCCHHHHHHHc-CCC
Q 016965 217 HDKWLENKGIKNTNFAVVTWSNWDCRVMLESECRFKKIWKPPYFNRWINLKVPFHEVFGGV-RCNLKEAVEMA-GLA 291 (379)
Q Consensus 217 f~~fl~~~~Lv~hn~iVVh~~~FDlr~fL~~~~~~~gi~~P~~~~~~iDt~~l~r~l~~~~-~~rL~~l~~~~-gI~ 291 (379)
+.+++.+... ..++|+...|+ .+| ++.|+..+ +.+.|+.-.+.-+-+.+ +.+|.+++++| |..
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 5566665421 13455566664 444 45676553 34579876655444543 46999998775 554
No 134
>PRK06740 histidinol-phosphatase; Validated
Probab=20.15 E-value=81 Score=31.69 Aligned_cols=26 Identities=12% Similarity=-0.118 Sum_probs=22.9
Q ss_pred cCchhhhhhhhhcCCceeeeccCCCC
Q 016965 47 HPGGDAGESIHQLSSEFVEYSNEFYN 72 (379)
Q Consensus 47 ~~~~~~i~~a~~~g~~aiaitd~~~~ 72 (379)
....++|++|.+-|-+.|+||||++.
T Consensus 61 ~~~e~yv~~Ai~~G~~~ig~SdH~p~ 86 (331)
T PRK06740 61 KWIDLYLEEALRKGIKEVGIVDHLYR 86 (331)
T ss_pred chHHHHHHHHHHCCCcEEEECCCCCc
Confidence 45789999999999999999998743
Done!