Query psy8196
Match_columns 230
No_of_seqs 284 out of 1857
Neff 8.2
Searched_HMMs 46136
Date Fri Aug 16 21:02:59 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8196.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8196hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK05711 DNA polymerase III su 100.0 3.1E-57 6.8E-62 379.7 27.2 227 2-230 4-237 (240)
2 TIGR01406 dnaQ_proteo DNA poly 100.0 1.1E-52 2.4E-57 350.1 25.6 218 3-221 1-224 (225)
3 cd06131 DNA_pol_III_epsilon_Ec 100.0 8.8E-39 1.9E-43 254.8 20.6 167 4-170 1-167 (167)
4 TIGR00573 dnaq exonuclease, DN 100.0 5.5E-36 1.2E-40 248.7 22.9 171 2-177 7-181 (217)
5 COG0847 DnaQ DNA polymerase II 100.0 1.1E-35 2.3E-40 250.6 23.8 225 2-230 13-242 (243)
6 PRK09146 DNA polymerase III su 100.0 5.6E-36 1.2E-40 251.5 20.4 166 2-173 47-227 (239)
7 PRK07740 hypothetical protein; 100.0 2.7E-35 5.8E-40 248.3 18.8 166 2-172 59-225 (244)
8 PRK08517 DNA polymerase III su 100.0 9.3E-35 2E-39 246.3 20.2 165 2-174 68-232 (257)
9 PRK07942 DNA polymerase III su 100.0 5.8E-35 1.3E-39 244.7 18.4 169 2-176 6-183 (232)
10 PRK06310 DNA polymerase III su 100.0 1.1E-34 2.4E-39 245.4 20.1 169 2-175 7-176 (250)
11 PRK06807 DNA polymerase III su 100.0 1.3E-34 2.8E-39 251.6 20.3 164 2-173 8-172 (313)
12 PRK05168 ribonuclease T; Provi 100.0 1.1E-34 2.4E-39 239.8 18.3 171 2-175 17-203 (211)
13 TIGR01298 RNaseT ribonuclease 100.0 1.8E-34 3.9E-39 236.7 18.6 168 3-173 9-192 (200)
14 PRK09145 DNA polymerase III su 100.0 3.4E-34 7.4E-39 235.5 20.3 165 3-174 30-202 (202)
15 cd06134 RNaseT DEDDh 3'-5' exo 100.0 2.1E-34 4.6E-39 234.4 18.4 165 3-172 6-188 (189)
16 PRK06309 DNA polymerase III su 100.0 2.4E-34 5.3E-39 241.0 18.8 162 1-172 1-165 (232)
17 PRK07748 sporulation inhibitor 100.0 6.7E-34 1.4E-38 234.6 18.9 169 2-174 4-181 (207)
18 cd06136 TREX1_2 DEDDh 3'-5' ex 100.0 3.5E-34 7.6E-39 230.8 16.6 156 4-168 1-176 (177)
19 smart00479 EXOIII exonuclease 100.0 2.4E-33 5.3E-38 222.8 20.6 165 3-172 1-166 (169)
20 PRK06063 DNA polymerase III su 100.0 6.7E-34 1.5E-38 247.5 18.5 162 2-172 15-178 (313)
21 PRK06195 DNA polymerase III su 100.0 9.1E-34 2E-38 246.8 19.3 161 2-172 1-163 (309)
22 cd06130 DNA_pol_III_epsilon_li 100.0 1.3E-33 2.7E-38 222.2 18.2 155 4-168 1-156 (156)
23 PRK06722 exonuclease; Provisio 100.0 7.1E-33 1.5E-37 236.2 20.9 168 2-171 5-179 (281)
24 PRK05601 DNA polymerase III su 100.0 3E-32 6.5E-37 237.5 19.4 162 2-170 46-246 (377)
25 PRK07883 hypothetical protein; 100.0 2.5E-32 5.4E-37 253.7 20.0 165 2-173 15-182 (557)
26 PRK08074 bifunctional ATP-depe 100.0 2.9E-32 6.2E-37 266.6 20.4 166 2-173 3-169 (928)
27 PRK07247 DNA polymerase III su 100.0 9.2E-32 2E-36 219.4 19.6 159 2-173 5-169 (195)
28 COG2176 PolC DNA polymerase II 100.0 3.3E-33 7.2E-38 265.8 12.0 163 3-172 422-585 (1444)
29 PRK07983 exodeoxyribonuclease 100.0 1.4E-31 3.1E-36 221.9 19.0 149 4-172 2-153 (219)
30 PRK07246 bifunctional ATP-depe 100.0 1E-31 2.2E-36 259.2 20.4 163 2-173 7-170 (820)
31 cd06133 ERI-1_3'hExo_like DEDD 100.0 1.5E-31 3.4E-36 214.2 17.8 165 4-169 1-175 (176)
32 cd06138 ExoI_N N-terminal DEDD 100.0 1.4E-31 3E-36 216.8 16.5 158 5-166 1-182 (183)
33 TIGR01407 dinG_rel DnaQ family 100.0 7.1E-31 1.5E-35 255.4 20.4 163 3-172 1-164 (850)
34 TIGR01405 polC_Gram_pos DNA po 100.0 8.8E-31 1.9E-35 258.4 20.4 163 3-172 191-354 (1213)
35 cd06137 DEDDh_RNase DEDDh 3'-5 100.0 8E-32 1.7E-36 213.9 10.6 147 5-167 1-161 (161)
36 cd06127 DEDDh DEDDh 3'-5' exon 100.0 1.2E-29 2.5E-34 198.2 16.7 157 5-167 1-159 (159)
37 cd06145 REX1_like DEDDh 3'-5' 100.0 2.6E-29 5.6E-34 197.3 12.7 144 5-166 1-149 (150)
38 cd06149 ISG20 DEDDh 3'-5' exon 100.0 2.8E-29 6E-34 198.6 12.2 148 5-167 1-157 (157)
39 cd06144 REX4_like DEDDh 3'-5' 100.0 2E-29 4.3E-34 198.4 11.1 147 5-167 1-152 (152)
40 PRK09182 DNA polymerase III su 100.0 3.6E-28 7.8E-33 209.5 17.9 157 2-172 37-200 (294)
41 PRK11779 sbcB exonuclease I; P 100.0 7.9E-28 1.7E-32 218.6 20.0 172 2-176 6-201 (476)
42 PTZ00315 2'-phosphotransferase 100.0 9.8E-28 2.1E-32 219.8 20.2 172 2-178 56-260 (582)
43 cd06135 Orn DEDDh 3'-5' exonuc 100.0 7.2E-28 1.6E-32 193.4 14.5 153 4-171 1-170 (173)
44 PRK05359 oligoribonuclease; Pr 100.0 1.6E-27 3.4E-32 192.6 16.5 156 1-172 2-174 (181)
45 PRK00448 polC DNA polymerase I 100.0 3E-27 6.6E-32 236.0 18.8 163 3-172 420-583 (1437)
46 PF00929 RNase_T: Exonuclease; 99.9 8.6E-30 1.9E-34 199.4 -1.3 159 5-166 1-164 (164)
47 KOG0542|consensus 99.8 8.6E-19 1.9E-23 144.1 13.2 174 4-179 58-248 (280)
48 COG5018 KapD Inhibitor of the 99.6 7.8E-16 1.7E-20 119.7 7.8 166 4-172 6-184 (210)
49 KOG2249|consensus 99.6 2.3E-14 5E-19 119.0 13.7 152 3-170 106-263 (280)
50 COG2925 SbcB Exonuclease I [DN 99.5 9E-14 1.9E-18 120.6 12.5 172 3-177 10-205 (475)
51 cd05160 DEDDy_DNA_polB_exo DED 99.5 3.6E-13 7.7E-18 110.1 12.3 134 5-147 2-162 (199)
52 cd06143 PAN2_exo DEDDh 3'-5' e 99.5 9.9E-13 2.1E-17 104.6 12.0 116 39-167 50-174 (174)
53 cd06125 DnaQ_like_exo DnaQ-lik 99.3 1.5E-11 3.3E-16 89.3 9.0 80 5-124 1-83 (96)
54 COG1949 Orn Oligoribonuclease 99.2 1.2E-10 2.7E-15 90.3 10.6 150 2-167 6-172 (184)
55 cd06139 DNA_polA_I_Ecoli_like_ 99.2 2.2E-10 4.8E-15 92.5 12.1 140 3-172 6-169 (193)
56 KOG3242|consensus 99.1 9.6E-10 2.1E-14 86.2 9.9 152 2-168 26-194 (208)
57 PF13482 RNase_H_2: RNase_H su 99.1 1.8E-10 3.9E-15 91.1 5.2 131 5-169 1-133 (164)
58 PRK05755 DNA polymerase I; Pro 99.0 5.5E-09 1.2E-13 102.9 13.0 133 3-172 316-468 (880)
59 cd05781 DNA_polB_B3_exo DEDDy 99.0 1.7E-08 3.6E-13 82.1 12.9 116 3-146 4-144 (188)
60 KOG2248|consensus 98.9 8.6E-09 1.9E-13 91.6 9.3 153 3-174 217-376 (380)
61 COG3359 Predicted exonuclease 98.8 7.2E-08 1.6E-12 79.8 12.2 137 3-169 99-238 (278)
62 cd05780 DNA_polB_Kod1_like_exo 98.8 7.7E-08 1.7E-12 78.6 12.1 126 3-148 4-157 (195)
63 PF10108 DNA_pol_B_exo2: Predi 98.8 2.7E-07 5.7E-12 75.8 13.7 106 70-176 36-176 (209)
64 cd05782 DNA_polB_like1_exo Unc 98.8 3.3E-07 7.1E-12 75.7 14.2 113 11-148 43-171 (208)
65 PF01612 DNA_pol_A_exo1: 3'-5' 98.6 4.1E-07 8.8E-12 72.0 10.0 135 2-171 20-173 (176)
66 cd05785 DNA_polB_like2_exo Unc 98.6 5.8E-07 1.3E-11 74.2 10.6 120 2-149 9-171 (207)
67 cd05779 DNA_polB_epsilon_exo D 98.6 2.3E-06 4.9E-11 70.5 14.0 136 3-148 3-170 (204)
68 KOG4793|consensus 98.6 1.1E-07 2.4E-12 79.6 6.1 164 2-168 13-213 (318)
69 cd00007 35EXOc 3'-5' exonuclea 98.4 1.3E-05 2.8E-10 61.7 14.2 64 72-143 40-106 (155)
70 COG0349 Rnd Ribonuclease D [Tr 98.4 8.2E-06 1.8E-10 71.8 13.6 131 3-172 18-165 (361)
71 PHA02570 dexA exonuclease; Pro 98.4 2.3E-06 4.9E-11 70.3 9.2 126 4-131 3-162 (220)
72 PF04857 CAF1: CAF1 family rib 98.3 1.8E-06 3.8E-11 73.8 7.1 164 3-168 23-262 (262)
73 cd05784 DNA_polB_II_exo DEDDy 98.2 3.8E-05 8.3E-10 62.7 12.4 120 3-143 4-149 (193)
74 cd05777 DNA_polB_delta_exo DED 98.2 5.8E-05 1.3E-09 63.2 13.5 130 2-143 7-178 (230)
75 cd06129 RNaseD_like DEDDy 3'-5 98.2 5.1E-05 1.1E-09 59.9 12.2 86 77-170 58-160 (161)
76 KOG0304|consensus 98.1 2.4E-05 5.3E-10 63.8 9.3 168 3-171 25-237 (239)
77 cd06141 WRN_exo DEDDy 3'-5' ex 98.1 6.2E-05 1.3E-09 59.7 10.8 87 76-170 63-169 (170)
78 smart00474 35EXOc 3'-5' exonuc 97.9 0.00089 1.9E-08 52.3 15.3 88 75-171 64-169 (172)
79 cd06146 mut-7_like_exo DEDDy 3 97.8 0.00028 6E-09 57.5 11.3 93 76-170 72-192 (193)
80 PRK10829 ribonuclease D; Provi 97.8 0.00032 7E-09 62.8 11.9 130 3-172 23-169 (373)
81 cd06148 Egl_like_exo DEDDy 3'- 97.8 0.00021 4.6E-09 58.4 9.5 89 76-172 55-176 (197)
82 TIGR01388 rnd ribonuclease D. 97.8 0.00026 5.6E-09 63.4 10.7 128 3-171 19-164 (367)
83 cd06140 DNA_polA_I_Bacillus_li 97.8 0.00037 8.1E-09 55.5 10.6 105 3-146 4-112 (178)
84 cd06142 RNaseD_exo DEDDy 3'-5' 97.8 0.0014 3E-08 51.9 13.9 88 76-171 54-158 (178)
85 cd05783 DNA_polB_B1_exo DEDDy 97.8 0.00034 7.4E-09 57.6 10.5 79 69-147 71-171 (204)
86 TIGR03491 RecB family nuclease 97.7 0.00038 8.2E-09 64.1 11.6 136 4-170 286-428 (457)
87 cd05778 DNA_polB_zeta_exo inac 97.7 0.00086 1.9E-08 56.2 12.0 147 2-149 4-194 (231)
88 PTZ00166 DNA polymerase delta 97.7 0.00057 1.2E-08 68.8 12.5 157 3-169 265-482 (1054)
89 COG0749 PolA DNA polymerase I 97.7 0.00022 4.9E-09 66.7 8.8 130 5-171 25-178 (593)
90 PF03104 DNA_pol_B_exo1: DNA p 97.6 0.00095 2.1E-08 58.1 11.3 128 2-139 157-325 (325)
91 PRK05762 DNA polymerase II; Re 97.5 0.002 4.4E-08 63.1 14.2 146 3-169 156-348 (786)
92 smart00486 POLBc DNA polymeras 97.5 0.0032 6.9E-08 57.4 14.8 158 2-169 3-220 (471)
93 cd09018 DEDDy_polA_RNaseD_like 97.3 0.0058 1.3E-07 46.8 11.9 61 78-146 45-109 (150)
94 cd05776 DNA_polB_alpha_exo ina 97.3 0.0037 8.1E-08 52.5 11.6 128 20-147 21-187 (234)
95 TIGR00593 pola DNA polymerase 96.9 0.0022 4.9E-08 63.5 7.1 94 71-172 363-476 (887)
96 cd06147 Rrp6p_like_exo DEDDy 3 96.5 0.05 1.1E-06 44.0 10.8 61 77-146 68-131 (192)
97 PHA02528 43 DNA polymerase; Pr 96.4 0.057 1.2E-06 53.6 12.7 101 68-168 175-323 (881)
98 COG0417 PolB DNA polymerase el 96.2 0.065 1.4E-06 52.8 11.6 151 2-168 154-349 (792)
99 PHA02524 43A DNA polymerase su 95.9 0.051 1.1E-06 50.4 9.2 76 68-143 177-283 (498)
100 cd06128 DNA_polA_exo DEDDy 3'- 95.9 0.028 6E-07 43.4 6.3 61 78-146 45-109 (151)
101 KOG1798|consensus 95.6 0.45 9.7E-06 49.2 14.4 155 3-170 247-451 (2173)
102 TIGR00592 pol2 DNA polymerase 95.2 0.99 2.1E-05 46.6 16.2 137 5-143 509-678 (1172)
103 KOG1275|consensus 94.6 0.024 5.2E-07 55.2 2.8 118 42-172 965-1091(1118)
104 PHA02563 DNA polymerase; Provi 94.4 0.14 2.9E-06 49.0 7.2 34 74-107 49-89 (630)
105 KOG4793|consensus 93.1 0.1 2.2E-06 44.4 3.5 83 87-172 201-290 (318)
106 PHA03036 DNA polymerase; Provi 92.4 2.3 5E-05 42.9 12.3 168 3-174 161-393 (1004)
107 COG5228 POP2 mRNA deadenylase 91.4 2.5 5.5E-05 35.1 9.5 157 3-170 43-250 (299)
108 PF11074 DUF2779: Domain of un 88.2 1 2.2E-05 34.4 4.6 60 69-128 55-118 (130)
109 KOG0969|consensus 83.8 0.47 1E-05 46.0 1.0 130 3-143 275-445 (1066)
110 PF00843 Arena_nucleocap: Aren 83.8 0.94 2E-05 41.1 2.8 140 5-164 375-529 (533)
111 PF13017 Maelstrom: piRNA path 80.7 3.2 6.8E-05 34.3 4.7 64 20-84 8-80 (213)
112 PRK05761 DNA polymerase I; Rev 79.1 5.7 0.00012 39.4 6.6 98 69-166 208-334 (787)
113 KOG3657|consensus 70.0 3.2 6.8E-05 40.9 2.2 36 84-125 241-276 (1075)
114 KOG0970|consensus 63.1 41 0.0009 34.6 8.3 165 3-170 530-752 (1429)
115 PF09281 Taq-exonuc: Taq polym 59.9 38 0.00083 25.8 5.9 62 99-170 73-135 (138)
116 COG2251 Predicted nuclease (Re 46.2 73 0.0016 29.5 6.5 74 72-148 339-420 (474)
117 PRK14975 bifunctional 3'-5' ex 42.7 1.2E+02 0.0027 28.7 7.9 65 103-172 62-143 (553)
118 PHA03334 putative DNA polymera 35.3 83 0.0018 33.3 5.6 87 20-106 274-368 (1545)
119 COG2433 Uncharacterized conser 34.5 64 0.0014 31.0 4.4 38 129-168 88-125 (652)
120 COG0117 RibD Pyrimidine deamin 33.7 58 0.0012 25.3 3.4 26 11-43 23-48 (146)
121 PF10642 Tom5: Mitochondrial i 33.5 36 0.00078 21.3 1.8 14 201-214 7-20 (49)
122 TIGR00592 pol2 DNA polymerase 29.0 30 0.00065 36.0 1.5 33 69-101 268-304 (1172)
123 PF12096 DUF3572: Protein of u 28.4 1.9E+02 0.0041 20.5 5.0 59 55-132 28-86 (88)
124 PF02375 JmjN: jmjN domain; I 27.4 37 0.0008 19.5 1.1 22 200-221 2-23 (34)
125 PF06631 DUF1154: Protein of u 26.4 1.1E+02 0.0025 18.9 3.2 23 199-221 5-27 (47)
126 PF14056 DUF4250: Domain of un 22.7 65 0.0014 20.7 1.7 15 135-149 22-36 (55)
127 COG4551 Predicted protein tyro 22.2 1.2E+02 0.0025 21.9 3.0 32 72-103 63-94 (109)
No 1
>PRK05711 DNA polymerase III subunit epsilon; Provisional
Probab=100.00 E-value=3.1e-57 Score=379.73 Aligned_cols=227 Identities=52% Similarity=0.876 Sum_probs=200.3
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHh
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNY 81 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~f 81 (230)
|++|+|||||||++|..+++|||||||.+.++.++++.|+.||+|++++++++++|||||++++.++|+|.+++.+|.+|
T Consensus 4 ~r~vvlDtETTGldp~~~drIIEIGaV~v~~~~~~~~~f~~~i~P~~~i~~~a~~VHGIT~e~l~~~p~f~ev~~~f~~f 83 (240)
T PRK05711 4 MRQIVLDTETTGLNQREGHRIIEIGAVELINRRLTGRNFHVYIKPDRLVDPEALAVHGITDEFLADKPTFAEVADEFLDF 83 (240)
T ss_pred CeEEEEEeeCCCcCCCCCCeEEEEEEEEEECCEEeccEEEEEECcCCcCCHHHhhhcCCCHHHHcCCCCHHHHHHHHHHH
Confidence 79999999999999974599999999999999888889999999999999999999999999999999999999999999
Q ss_pred cCCCeEEEEcccccHHHHHHHHHHcCCC--CcccccchHhHHHHHHHHHcCCCCCcHHHHHHHhCCCCCCCCCCCHHHHH
Q psy8196 82 VSNSEIIIHNAAFDVGFLDMELSLLGYS--NFTKYIYRITDTLLMARKIHTGKRNSLDALCDRYNISKIHRTLHGGLLDA 159 (230)
Q Consensus 82 l~~~~lV~hna~FD~~~L~~~l~~~g~~--~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~gi~~~~r~~H~Al~Da 159 (230)
++++++|+||+.||++||++++.++|.+ +...+|. ++||+.++|.++|+.+++|++||++|||+.++|++|+|+.||
T Consensus 84 i~~~~lVaHNa~FD~~fL~~el~r~g~~~~~~~~~~~-~iDTl~lar~~~p~~~~~L~aL~~~~gi~~~~r~~H~AL~DA 162 (240)
T PRK05711 84 IRGAELIIHNAPFDIGFMDYEFALLGRDIPKTNTFCK-VTDTLAMARRMFPGKRNSLDALCKRYGIDNSHRTLHGALLDA 162 (240)
T ss_pred hCCCEEEEEccHHhHHHHHHHHHHhCCCCCcccccCc-eeeHHHHHHHHcCCCCCCHHHHHHHCCCCCCCCCCCCHHHHH
Confidence 9999999999999999999999999843 2223455 999999999999999899999999999999988899999999
Q ss_pred HHHHHHHHHHHcCCCccccccCCCC--C-C-ccccccc-CCCCCCcccCCHHHHHHHHHHHHHhhhcCCCCCccCC
Q psy8196 160 ELLAEVYLAMTRGQSNLNFKPKINN--S-N-NIETKIK-IPNNIPIKLANSNELVQHNMILSKIDKHSNGRCIWKK 230 (230)
Q Consensus 160 ~~~a~v~~~l~~~~~~l~~~~~~~~--~-~-~~~~~~~-~~~~~~~~~~~~~e~~~h~~~~~~~~~~~~~~~~w~~ 230 (230)
++|++||++|+++|.+|.++..... . . ....... .+..++++++|++|+++|++||+.|.| +|++|+|++
T Consensus 163 ~~~A~v~~~l~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~h~~~~~~~~~-~~~~~~w~~ 237 (240)
T PRK05711 163 EILAEVYLAMTGGQTSLGFAMEGETQQQQGEETIQRIVRQRSRLPVVRATDEELAAHEARLDLLDK-KGGSCLWRK 237 (240)
T ss_pred HHHHHHHHHHHCccccccccCCccccccccccccccccccCCcccCCCCCHHHHHHHHHHHHHHHh-hCCCccCcc
Confidence 9999999999999999988644321 1 1 1111222 245677899999999999999999987 588999974
No 2
>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=1.1e-52 Score=350.08 Aligned_cols=218 Identities=48% Similarity=0.772 Sum_probs=190.4
Q ss_pred ceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhc
Q psy8196 3 RHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYV 82 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl 82 (230)
|+|+|||||||++|..|++|||||||.+.++..+++.|+.||+|++++++++++|||||++++.++|+|.+++.+|.+|+
T Consensus 1 r~vvlD~ETTGl~p~~~d~IIEIgav~~~~~~~~~~~f~~~i~P~~~i~~~a~~vhGIt~e~l~~~p~f~ev~~~f~~fi 80 (225)
T TIGR01406 1 RQIILDTETTGLDPKGGHRIVEIGAVELVNRMLTGDNFHVYVNPERDMPAEAAKVHGITDEFLADKPKFKEIADEFLDFI 80 (225)
T ss_pred CEEEEEeeCCCcCCCCCCeEEEEEEEEEECCcEecceEEEEECcCCCCCHHHHhccCCCHHHHhCCCCHHHHHHHHHHHh
Confidence 78999999999999867899999999999888887899999999999999999999999999999999999999999999
Q ss_pred CCCeEEEEcccccHHHHHHHHHHcCC--CCcccccchHhHHHHHHHHHcCCCCCcHHHHHHHhCCCCCCCCCCCHHHHHH
Q psy8196 83 SNSEIIIHNAAFDVGFLDMELSLLGY--SNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRYNISKIHRTLHGGLLDAE 160 (230)
Q Consensus 83 ~~~~lV~hna~FD~~~L~~~l~~~g~--~~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~gi~~~~r~~H~Al~Da~ 160 (230)
+++++|+||+.||++||+.++.++|. +++..++. ++||+.++|.++|+.+++|++||++||++.++|.+|+|+.||+
T Consensus 81 ~~~~lVaHNa~FD~~fL~~el~r~g~~~~~~~~~~~-~iDTl~lar~~~p~~~~~L~~L~~~~gi~~~~r~~H~Al~DA~ 159 (225)
T TIGR01406 81 GGSELVIHNAAFDVGFLNYELERLGPTIKKIGEFCR-VIDTLAMARERFPGQRNSLDALCKRFKVDNSHRTLHGALLDAH 159 (225)
T ss_pred CCCEEEEEecHHHHHHHHHHHHHhCCCCcccccCCC-EEEHHHHHHHHcCCCCCCHHHHHHhcCCCCCCCCCcCHHHHHH
Confidence 99999999999999999999999983 33333344 9999999999999999999999999999998888999999999
Q ss_pred HHHHHHHHHHcCCCccccccCCCC-C-C-ccccccc-CCCCCCcccCCHHHHHHHHHHHHHhhhc
Q psy8196 161 LLAEVYLAMTRGQSNLNFKPKINN-S-N-NIETKIK-IPNNIPIKLANSNELVQHNMILSKIDKH 221 (230)
Q Consensus 161 ~~a~v~~~l~~~~~~l~~~~~~~~-~-~-~~~~~~~-~~~~~~~~~~~~~e~~~h~~~~~~~~~~ 221 (230)
++++||++|++++.++........ . . ....... .+..++++++|++|+++|++||+.|+|+
T Consensus 160 ~~a~v~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~h~~~~~~~~~~ 224 (225)
T TIGR01406 160 LLAEVYLALTGGQESLLELAESNSGEAAKPSKSAEMKLGATLRVLAPREAELQAHEAYLDKLLKK 224 (225)
T ss_pred HHHHHHHHHHcCCcchhhccccccccccccchhcccccCCCCcCCCCCHHHHHHHHHHHHHhhcc
Confidence 999999999999888765432221 1 1 1111122 2456789999999999999999999764
No 3
>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=8.8e-39 Score=254.79 Aligned_cols=167 Identities=60% Similarity=0.980 Sum_probs=150.3
Q ss_pred eEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhcC
Q psy8196 4 HIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYVS 83 (230)
Q Consensus 4 ~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl~ 83 (230)
||+||+||||++|..+++|||||+|.++++.+++..|+.+++|..++++.++++||||++++.++++|.+++.+|.+|++
T Consensus 1 ~v~~D~ETTGl~~~~~~~iieig~v~v~~~~~~~~~~~~~v~P~~~i~~~~~~ihGIt~e~l~~~~~~~~v~~~l~~~l~ 80 (167)
T cd06131 1 QIVLDTETTGLDPREGHRIIEIGCVELINRRLTGNTFHVYINPERDIPEEAFKVHGITDEFLADKPKFAEIADEFLDFIR 80 (167)
T ss_pred CEEEEeeCCCCCCCCCCeEEEEEEEEEECCcEeccEEEEEECCCCCCCHHHHHHhCCCHHHHhcCCCHHHHHHHHHHHHC
Confidence 68999999999984348999999999998877767899999999999999999999999999999999999999999999
Q ss_pred CCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCCCcHHHHHHHhCCCCCCCCCCCHHHHHHHHH
Q psy8196 84 NSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRYNISKIHRTLHGGLLDAELLA 163 (230)
Q Consensus 84 ~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~gi~~~~r~~H~Al~Da~~~a 163 (230)
+..+|+||+.||+.||++++.++|..........++||+.+++.++|+.+++|+++|++||++.+++.+|+|+.||++++
T Consensus 81 ~~~lv~hn~~fD~~~l~~~~~~~~~~~~~~~~~~~idt~~~~~~~~~~~~~~L~~l~~~~~i~~~~~~~H~Al~Da~~~a 160 (167)
T cd06131 81 GAELVIHNASFDVGFLNAELSLLGLGKKIIDFCRVIDTLALARKKFPGKPNSLDALCKRFGIDNSHRTLHGALLDAELLA 160 (167)
T ss_pred CCeEEEeChHHhHHHHHHHHHHhCCCcccccCCCceEhHHHHHHHcCCCCCCHHHHHHHCCCCCCCCCCCChHHHHHHHH
Confidence 99999999999999999999998764322111348999999999999888899999999999987666899999999999
Q ss_pred HHHHHHH
Q psy8196 164 EVYLAMT 170 (230)
Q Consensus 164 ~v~~~l~ 170 (230)
+||+.|+
T Consensus 161 ~l~~~l~ 167 (167)
T cd06131 161 EVYLELT 167 (167)
T ss_pred HHHHHhC
Confidence 9999873
No 4
>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=100.00 E-value=5.5e-36 Score=248.70 Aligned_cols=171 Identities=48% Similarity=0.735 Sum_probs=150.5
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHh
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNY 81 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~f 81 (230)
++||+||+||||++|.. + |||||+|.+.++....+.|+.+|+|.+++++.+..+||||++++.++|+|.+++.+|.+|
T Consensus 7 ~~fvv~D~ETTGl~~~~-~-IIeIgav~v~~~~~~~~~f~~li~P~~~i~~~a~~ihGIt~e~l~~~p~~~ev~~~~~~~ 84 (217)
T TIGR00573 7 DTETTGDNETTGLYAGH-D-IIEIGAVEIINRRITGNKFHTYIKPDRPIDPDAIKIHGITDDMLKDKPDFKEIAEDFADY 84 (217)
T ss_pred cCEEEEEecCCCCCCCC-C-EEEEEEEEEECCCEeeeEEEEEECcCCCCCHHHHhhcCCCHHHHcCCCCHHHHHHHHHHH
Confidence 57999999999999975 6 999999998776555568999999999999999999999999999999999999999999
Q ss_pred cCCCeEEEEcccccHHHHHHHHHHcCCC-CcccccchHhHHHHHHHHHcC---CCCCcHHHHHHHhCCCCCCCCCCCHHH
Q psy8196 82 VSNSEIIIHNAAFDVGFLDMELSLLGYS-NFTKYIYRITDTLLMARKIHT---GKRNSLDALCDRYNISKIHRTLHGGLL 157 (230)
Q Consensus 82 l~~~~lV~hna~FD~~~L~~~l~~~g~~-~~~~~~~~~iDtl~lar~~~p---~~~~~L~~L~~~~gi~~~~r~~H~Al~ 157 (230)
+++..+|+||+.||+.||++++.+++.. +.. ..++||+.+++.++| +.+++|+++|++||++..++.+|+|+.
T Consensus 85 ~~~~~lVaHNa~FD~~fL~~~~~r~~~~~~~~---~~~~dtl~l~~~~~~~~~~~~~~L~~l~~~~gl~~~~~~~H~Al~ 161 (217)
T TIGR00573 85 IRGAELVIHNASFDVGFLNYEFSKLYKVEPKT---NDVIDTTDTLQYARPEFPGKRNTLDALCKRYEITNSHRALHGALA 161 (217)
T ss_pred hCCCEEEEeccHHHHHHHHHHHHHhcCCCCCc---cceecHHHHHHHHHHhCCCCCCCHHHHHHHcCCCCCCcccCCHHH
Confidence 9999999999999999999999987643 222 236788887777664 445699999999999988667999999
Q ss_pred HHHHHHHHHHHHHcCCCccc
Q psy8196 158 DAELLAEVYLAMTRGQSNLN 177 (230)
Q Consensus 158 Da~~~a~v~~~l~~~~~~l~ 177 (230)
||.+|++||.++.++++...
T Consensus 162 DA~~ta~l~~~l~~~~~~~~ 181 (217)
T TIGR00573 162 DAFILAKLYLVMTGKQTKYG 181 (217)
T ss_pred HHHHHHHHHHHHHhcchhhc
Confidence 99999999999999977665
No 5
>COG0847 DnaQ DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]
Probab=100.00 E-value=1.1e-35 Score=250.64 Aligned_cols=225 Identities=33% Similarity=0.528 Sum_probs=185.8
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHh
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNY 81 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~f 81 (230)
+++++||+||||+++.. ++|||||+|.+.++.++.+.|+.|++|++++++++.++||||.+++.++|.|.+++.+|.+|
T Consensus 13 ~~~vv~D~ETtg~~~~~-~~iieIgav~~~~~~i~~~~~~~~v~P~~~i~~~~~~i~git~e~l~~~p~~~~v~~~~~~~ 91 (243)
T COG0847 13 TRFVVIDLETTGLNPKK-DRIIEIGAVTLEDGRIVERSFHTLVNPERPIPPEIFKIHGITDEMLADAPKFAEVLPEFLDF 91 (243)
T ss_pred CcEEEEecccCCCCCCC-CceEEEEeEEEECCeeecceeEEEECCCCCCChhhhhhcCCCHHHHhcCCCHHHHHHHHHHH
Confidence 47899999999999964 99999999999999999878999999999999999999999999999999999999999999
Q ss_pred cCC-CeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCC-CCCcHHHHHHHhCCCCCCCCCCCHHHHH
Q psy8196 82 VSN-SEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTG-KRNSLDALCDRYNISKIHRTLHGGLLDA 159 (230)
Q Consensus 82 l~~-~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~-~~~~L~~L~~~~gi~~~~r~~H~Al~Da 159 (230)
+++ ..+|+||+.||++||+.++.+++.+... ..++||+.+++..+|+ ..++|++||.++|++++.+..|+|+.||
T Consensus 92 i~~~~~~Vahna~fD~~fl~~~~~~~~~~~~~---~~~~~t~~~~r~~~~~~~~~~L~~l~~~~gi~~~~~~~H~Al~Da 168 (243)
T COG0847 92 IGGLRLLVAHNAAFDVGFLRVESERLGIEIPG---DPVLDTLALARRHFPGFDRSSLDALAERLGIDRNPFHPHRALFDA 168 (243)
T ss_pred HCCCCeEEEEchhhcHHHHHHHHHHcCCCccc---CceehHHHHHHHHcCCCccchHHHHHHHcCCCcCCcCCcchHHHH
Confidence 999 9999999999999999999999987542 3489999999999999 7789999999999997755689999999
Q ss_pred HHHHHHHHHHHcC-CCccccccCCC-CCCccccccc-CCCCCCcccCCHHHHHHHHHHHHHhhhcCCCCCccCC
Q psy8196 160 ELLAEVYLAMTRG-QSNLNFKPKIN-NSNNIETKIK-IPNNIPIKLANSNELVQHNMILSKIDKHSNGRCIWKK 230 (230)
Q Consensus 160 ~~~a~v~~~l~~~-~~~l~~~~~~~-~~~~~~~~~~-~~~~~~~~~~~~~e~~~h~~~~~~~~~~~~~~~~w~~ 230 (230)
.+++++|+.++++ ........... .........+ .+...++......+..+|..++..+.+..+.+++|.+
T Consensus 169 ~~~a~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 242 (243)
T COG0847 169 LALAELFLLLQTGLLLKAPLTAILDLDKLAHKALYDTLKTAARLFCGIENELKAHGSWLDALAKELLEKKLWKE 242 (243)
T ss_pred HHHHHHHHHHHhcccccCchhhhccccccchhhhhhhhhcccccccCChhhHHHHHHHHHHHHhhhccchhhcc
Confidence 9999999999986 22221111000 0000111111 1223346678999999999999988776566788863
No 6
>PRK09146 DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=5.6e-36 Score=251.46 Aligned_cols=166 Identities=25% Similarity=0.378 Sum_probs=148.0
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEECCEEe-cceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHH
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQIT-GNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLN 80 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~-~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~ 80 (230)
+.++++|+||||++|.. ++|||||+|.++++.+. ...|+++|+|++++++.+.+|||||++++.++|+|.+++.+|.+
T Consensus 47 ~~~vviD~ETTGl~p~~-d~IieIg~v~v~~~~i~~~~~~~~li~P~~~i~~~~~~IhGIt~e~l~~ap~~~evl~~l~~ 125 (239)
T PRK09146 47 VPFVALDFETTGLDAEQ-DAIVSIGLVPFTLQRIRCRQARHWVVKPRRPLEEESVVIHGITHSELQDAPDLERILDELLE 125 (239)
T ss_pred CCEEEEEeECCCCCCCC-CcEEEEEEEEEECCeEeecceEEEEECCCCCCChhhhhhcCCCHHHHhCCCCHHHHHHHHHH
Confidence 57899999999999985 99999999999988763 46899999999999999999999999999999999999999999
Q ss_pred hcCCCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCC--------------CCCcHHHHHHHhCCC
Q psy8196 81 YVSNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTG--------------KRNSLDALCDRYNIS 146 (230)
Q Consensus 81 fl~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~--------------~~~~L~~L~~~~gi~ 146 (230)
|+++..+|+||+.||++||++++.+.+...+. ..++||+.+++.++|. .+++|+++|++||++
T Consensus 126 ~~~~~~lVaHna~FD~~fL~~~l~~~~~~~~~---~~~iDTl~Lar~l~~~~~~~~~~~~~~~~~~~~~L~~l~~~~gl~ 202 (239)
T PRK09146 126 ALAGKVVVVHYRRIERDFLDQALRNRIGEGIE---FPVIDTMEIEARIQRKQAGGLWNRLKGKKPESIRLADSRLRYGLP 202 (239)
T ss_pred HhCCCEEEEECHHHHHHHHHHHHHHhcCCCCC---CceechHHHHHHHcccccccccchhccCCCCCCCHHHHHHHcCCC
Confidence 99999999999999999999999876443332 2489999999998764 234899999999999
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHcCC
Q psy8196 147 KIHRTLHGGLLDAELLAEVYLAMTRGQ 173 (230)
Q Consensus 147 ~~~r~~H~Al~Da~~~a~v~~~l~~~~ 173 (230)
..+ +|+|+.||.+|++||.++....
T Consensus 203 ~~~--~H~Al~DA~ata~l~~~~~~~~ 227 (239)
T PRK09146 203 AYS--PHHALTDAIATAELLQAQIAHH 227 (239)
T ss_pred CCC--CCCcHHHHHHHHHHHHHHHHHH
Confidence 876 7999999999999999988654
No 7
>PRK07740 hypothetical protein; Provisional
Probab=100.00 E-value=2.7e-35 Score=248.31 Aligned_cols=166 Identities=23% Similarity=0.381 Sum_probs=149.9
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHh
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNY 81 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~f 81 (230)
+++|+||+||||++|..+++|||||+|.++++.++.+.|+.+|+|+.++++.+.++||||++++.++|+|.+++.+|.+|
T Consensus 59 ~~~vv~D~ETTGl~p~~~deIIeIgaV~~~~~~i~~~~f~~lv~P~~~i~~~~~~ltGIt~e~l~~ap~~~evl~~f~~f 138 (244)
T PRK07740 59 LPFVVFDLETTGFSPQQGDEILSIGAVKTKGGEVETDTFYSLVKPKRPIPEHILELTGITAEDVAFAPPLAEVLHRFYAF 138 (244)
T ss_pred CCEEEEEEeCCCCCCCCCCeEEEEEEEEEECCEEEEEEEEEEeCcCCCCChhheeccCCCHHHHhCCCCHHHHHHHHHHH
Confidence 47899999999999976689999999999988774468999999999999999999999999999999999999999999
Q ss_pred cCCCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC-CCcHHHHHHHhCCCCCCCCCCCHHHHHH
Q psy8196 82 VSNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK-RNSLDALCDRYNISKIHRTLHGGLLDAE 160 (230)
Q Consensus 82 l~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~-~~~L~~L~~~~gi~~~~r~~H~Al~Da~ 160 (230)
+++.++|+||+.||..||+.++.+....++. ..++||+.+++.++|.. ..+|+++|++||++..+ .|+|++||.
T Consensus 139 i~~~~lVahna~fD~~fL~~~~~~~~~~~~~---~~~iDt~~l~r~l~~~~~~~sL~~l~~~~gi~~~~--~H~Al~Da~ 213 (244)
T PRK07740 139 IGAGVLVAHHAGHDKAFLRHALWRTYRQPFT---HRLIDTMFLTKLLAHERDFPTLDDALAYYGIPIPR--RHHALGDAL 213 (244)
T ss_pred hCCCEEEEeCHHHHHHHHHHHHHHhcCCCcC---CCeechHHHHHHHcCCCCCCCHHHHHHHCCcCCCC--CCCcHHHHH
Confidence 9999999999999999999998775433333 35899999999999865 56999999999999987 699999999
Q ss_pred HHHHHHHHHHcC
Q psy8196 161 LLAEVYLAMTRG 172 (230)
Q Consensus 161 ~~a~v~~~l~~~ 172 (230)
+|++||.++...
T Consensus 214 ata~l~~~ll~~ 225 (244)
T PRK07740 214 MTAKLWAILLVE 225 (244)
T ss_pred HHHHHHHHHHHH
Confidence 999999999765
No 8
>PRK08517 DNA polymerase III subunit epsilon; Provisional
Probab=100.00 E-value=9.3e-35 Score=246.26 Aligned_cols=165 Identities=24% Similarity=0.354 Sum_probs=151.7
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHh
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNY 81 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~f 81 (230)
++++++|+||||++|.. ++|||||+|.++++.+.+ .|+.+|+|. .+++.++++||||++++.++|++.+++.+|.+|
T Consensus 68 ~~~vv~DiETTG~~~~~-~~IIEIGAv~v~~g~i~~-~f~~~v~p~-~ip~~~~~itGIt~e~l~~ap~~~evl~~f~~f 144 (257)
T PRK08517 68 QVFCFVDIETNGSKPKK-HQIIEIGAVKVKNGEIID-RFESFVKAK-EVPEYITELTGITYEDLENAPSLKEVLEEFRLF 144 (257)
T ss_pred CCEEEEEEeCCCCCCCC-CeEEEEEEEEEECCEEEE-EEEEEECCC-CCChhhhhhcCcCHHHHcCCCCHHHHHHHHHHH
Confidence 47899999999999985 899999999999887764 799999996 789999999999999999999999999999999
Q ss_pred cCCCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCCCcHHHHHHHhCCCCCCCCCCCHHHHHHH
Q psy8196 82 VSNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRYNISKIHRTLHGGLLDAEL 161 (230)
Q Consensus 82 l~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~gi~~~~r~~H~Al~Da~~ 161 (230)
+++..+|+||+.||..||++++.++|.+.+. .+.+||+.+++..+|..+++|++||++||++..+ +|+|+.||.+
T Consensus 145 l~~~v~VaHNa~FD~~fL~~~l~r~g~~~~~---~~~ldtl~la~~~~~~~~~~L~~L~~~lgi~~~~--~HrAl~DA~a 219 (257)
T PRK08517 145 LGDSVFVAHNVNFDYNFISRSLEEIGLGPLL---NRKLCTIDLAKRTIESPRYGLSFLKELLGIEIEV--HHRAYADALA 219 (257)
T ss_pred HCCCeEEEECHHHHHHHHHHHHHHcCCCCCC---CCcEehHHHHHHHccCCCCCHHHHHHHcCcCCCC--CCChHHHHHH
Confidence 9999999999999999999999999987554 2479999999999988888999999999999875 7999999999
Q ss_pred HHHHHHHHHcCCC
Q psy8196 162 LAEVYLAMTRGQS 174 (230)
Q Consensus 162 ~a~v~~~l~~~~~ 174 (230)
|++||..+..+.+
T Consensus 220 ta~ll~~ll~~~~ 232 (257)
T PRK08517 220 AYEIFKICLLNLP 232 (257)
T ss_pred HHHHHHHHHHHhH
Confidence 9999999987654
No 9
>PRK07942 DNA polymerase III subunit epsilon; Provisional
Probab=100.00 E-value=5.8e-35 Score=244.69 Aligned_cols=169 Identities=23% Similarity=0.400 Sum_probs=145.7
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEEC-CEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhC-CCCHHHHHHHHH
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIKN-RQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKN-KLKFSEIVDNFL 79 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~-~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~-~~~~~ev~~~~~ 79 (230)
.++++||+||||++|.. ++|||||+|.+++ +.+. ..|+++++|..++++++++|||||++++.+ ++++.+++.+|.
T Consensus 6 ~~~vv~D~ETTGl~p~~-d~Iieig~v~v~~~g~~~-~~~~~lv~P~~~i~~~a~~IhGIt~e~l~~~g~~~~~vl~e~~ 83 (232)
T PRK07942 6 GPLAAFDLETTGVDPET-ARIVTAALVVVDADGEVV-ESREWLADPGVEIPEEASAVHGITTEYARAHGRPAAEVLAEIA 83 (232)
T ss_pred CcEEEEEeccCCCCCCC-CeeEEEEEEEEeCCCccc-cceEEEECCCCCCCHHHHHHhCCCHHHHHhhCCCHHHHHHHHH
Confidence 46899999999999986 8999999999984 5544 368999999999999999999999999985 678888888888
Q ss_pred Hhc-----CCCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCC--CCCcHHHHHHHhCCCCCCCCC
Q psy8196 80 NYV-----SNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTG--KRNSLDALCDRYNISKIHRTL 152 (230)
Q Consensus 80 ~fl-----~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~--~~~~L~~L~~~~gi~~~~r~~ 152 (230)
+++ ++.++|+||+.||++||++++.++|.+.+.. ..++||+.+++.+.+. .+++|++||++||++..+ +
T Consensus 84 ~~l~~~~~~~~~lVahNa~FD~~fL~~~~~r~~~~~~~~--~~~iDt~~l~~~~~~~~~~~~~L~~l~~~~gi~~~~--a 159 (232)
T PRK07942 84 DALREAWARGVPVVVFNAPYDLTVLDRELRRHGLPSLVP--GPVIDPYVIDKAVDRYRKGKRTLTALCEHYGVRLDN--A 159 (232)
T ss_pred HHHHHHhhcCCEEEEeCcHhhHHHHHHHHHHcCCCCccC--CcEeeHHHHHhhhhcccCCCCCHHHHHHHcCCCCCC--C
Confidence 876 5678999999999999999999999764421 2478999999988764 356999999999999876 7
Q ss_pred CCHHHHHHHHHHHHHHHHcCCCcc
Q psy8196 153 HGGLLDAELLAEVYLAMTRGQSNL 176 (230)
Q Consensus 153 H~Al~Da~~~a~v~~~l~~~~~~l 176 (230)
|+|+.||.+|++||.+|..+.+.+
T Consensus 160 H~Al~Da~ata~l~~~l~~~~~~l 183 (232)
T PRK07942 160 HEATADALAAARVAWALARRFPEL 183 (232)
T ss_pred CChHHHHHHHHHHHHHHHHHHHHh
Confidence 999999999999999998776544
No 10
>PRK06310 DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=1.1e-34 Score=245.40 Aligned_cols=169 Identities=27% Similarity=0.439 Sum_probs=149.1
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHh
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNY 81 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~f 81 (230)
|++|+||+||||++|.. ++|||||+|.++++.+.. .|+.+|+|++++++++.++||||++++.++|+|.+++.+|.+|
T Consensus 7 ~~~v~~D~ETTGl~~~~-d~IIEIa~v~v~~~~~~~-~~~~li~P~~~I~~~a~~ihgIt~e~v~~~p~~~ev~~~~~~f 84 (250)
T PRK06310 7 TEFVCLDCETTGLDVKK-DRIIEFAAIRFTFDEVID-SVEFLINPERVVSAESQRIHHISDAMLRDKPKIAEVFPQIKGF 84 (250)
T ss_pred CcEEEEEEeCCCCCCCC-CeEEEEEEEEEECCeEEE-EEEEEECcCCCCCHhhhhccCcCHHHHhCCCCHHHHHHHHHHH
Confidence 68999999999999986 999999999998776653 7999999999999999999999999999999999999999999
Q ss_pred cCC-CeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCCCcHHHHHHHhCCCCCCCCCCCHHHHHH
Q psy8196 82 VSN-SEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRYNISKIHRTLHGGLLDAE 160 (230)
Q Consensus 82 l~~-~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~gi~~~~r~~H~Al~Da~ 160 (230)
+++ ..+||||+.||+.||+.++.++|.+..... ..++||+.+++.+.+..+++|++||++||++..+ +|+|+.||.
T Consensus 85 l~~~~~lvghn~~FD~~~L~~~~~r~g~~~~~~~-~~~iDtl~lar~~~~~~~~~L~~l~~~~g~~~~~--aH~Al~Da~ 161 (250)
T PRK06310 85 FKEGDYIVGHSVGFDLQVLSQESERIGETFLSKH-YYIIDTLRLAKEYGDSPNNSLEALAVHFNVPYDG--NHRAMKDVE 161 (250)
T ss_pred hCCCCEEEEECHHHHHHHHHHHHHHcCCCccccC-CcEEehHHHHHhcccCCCCCHHHHHHHCCCCCCC--CcChHHHHH
Confidence 987 679999999999999999999998643211 2489999999975333457999999999999775 899999999
Q ss_pred HHHHHHHHHHcCCCc
Q psy8196 161 LLAEVYLAMTRGQSN 175 (230)
Q Consensus 161 ~~a~v~~~l~~~~~~ 175 (230)
+|++||..+..+...
T Consensus 162 at~~vl~~l~~~~~~ 176 (250)
T PRK06310 162 INIKVFKHLCKRFRT 176 (250)
T ss_pred HHHHHHHHHHHhccc
Confidence 999999999876543
No 11
>PRK06807 DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=1.3e-34 Score=251.61 Aligned_cols=164 Identities=26% Similarity=0.441 Sum_probs=150.7
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHh
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNY 81 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~f 81 (230)
+++|+||+||||++|.. ++|||||+|.++++.+.+ .|+.+|+|..++++.++++||||++++.++|+|.+++.+|.+|
T Consensus 8 ~~~Vv~DlETTGl~p~~-~eIIEIgaV~v~~g~i~~-~f~~lVkP~~~I~~~a~~ihGIT~e~l~~~~~~~evl~~f~~f 85 (313)
T PRK06807 8 LDYVVIDFETTGFNPYN-DKIIQVAAVKYRNHELVD-QFVSYVNPERPIPDRITSLTGITNYRVSDAPTIEEVLPLFLAF 85 (313)
T ss_pred CCEEEEEEECCCCCCCC-CeEEEEEEEEEECCEEEE-EEEEEECcCCCCCHhhhccCCCCHHHHhCCCCHHHHHHHHHHH
Confidence 68999999999999985 899999999999887764 7999999999999999999999999999999999999999999
Q ss_pred cCCCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCC-CcHHHHHHHhCCCCCCCCCCCHHHHHH
Q psy8196 82 VSNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKR-NSLDALCDRYNISKIHRTLHGGLLDAE 160 (230)
Q Consensus 82 l~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~-~~L~~L~~~~gi~~~~r~~H~Al~Da~ 160 (230)
+++..+|+||+.||+.||.+++.++|++.+. ..++||+.+++.++|+.+ ++|++||++||++. . +|+|+.||.
T Consensus 86 l~~~~lVaHNa~FD~~fL~~~~~~~gl~~~~---~~~iDtl~la~~~~~~~~~~kL~~L~~~lgi~~-~--~H~Al~DA~ 159 (313)
T PRK06807 86 LHTNVIVAHNASFDMRFLKSNVNMLGLPEPK---NKVIDTVFLAKKYMKHAPNHKLETLKRMLGIRL-S--SHNAFDDCI 159 (313)
T ss_pred HcCCeEEEEcHHHHHHHHHHHHHHcCCCCCC---CCEeeHHHHHHHHhCCCCCCCHHHHHHHcCCCC-C--CcChHHHHH
Confidence 9999999999999999999999999986443 248999999999998654 59999999999998 3 799999999
Q ss_pred HHHHHHHHHHcCC
Q psy8196 161 LLAEVYLAMTRGQ 173 (230)
Q Consensus 161 ~~a~v~~~l~~~~ 173 (230)
+|++||+++....
T Consensus 160 ~ta~l~~~l~~~~ 172 (313)
T PRK06807 160 TCAAVYQKCASIE 172 (313)
T ss_pred HHHHHHHHHHHhh
Confidence 9999999988654
No 12
>PRK05168 ribonuclease T; Provisional
Probab=100.00 E-value=1.1e-34 Score=239.79 Aligned_cols=171 Identities=24% Similarity=0.378 Sum_probs=144.1
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEE---CCEE-ecceeEEEEcC--CCCCChhhHhhcCCCHHH-HhCCCCHHHH
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIK---NRQI-TGNNLHYYINP--GRDSEKSALAIHGLTTKF-LKNKLKFSEI 74 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~---~~~~-~~~~f~~~i~P--~~~i~~~a~~i~Git~e~-l~~~~~~~ev 74 (230)
+.+|+||+||||++|.. ++|||||+|.+. ++.+ ..+.|+.+|+| +..++++++++||||+++ +.+++++.++
T Consensus 17 ~~~vv~D~ETTGl~~~~-d~IieIgaV~v~~d~~g~i~~~~~f~~lv~P~~~~~i~~~~~~ihGIt~e~~~~~~~~~~~~ 95 (211)
T PRK05168 17 FLPVVIDVETAGFNAKT-DALLEIAAVTLKMDEQGWLYPDETLHFHVEPFEGANLEPEALAFNGIDPDNPLRGAVSEKEA 95 (211)
T ss_pred CceEEEEeeCCCCCCCC-CEEEEEeEEEEEecCCCcEeccceEEEEECCCCCCCCCHHHHhhcCCCchhhhhcCCChHHH
Confidence 35799999999999985 999999999987 3433 45689999999 578999999999999986 7889999999
Q ss_pred HHHHHHhcC---------CCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCCCcHHHHHHHhCC
Q psy8196 75 VDNFLNYVS---------NSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRYNI 145 (230)
Q Consensus 75 ~~~~~~fl~---------~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~gi 145 (230)
+.+|.+|+. +.++|+||+.||++||++++.++|+.........++||+.+++.++|. .+|+.+|++||+
T Consensus 96 l~~~~~~l~~~~~~~~~~~~~lVaHNa~FD~~fL~~~~~r~~~~~~~~~~~~~iDt~~lar~~~~~--~~L~~l~~~~gl 173 (211)
T PRK05168 96 LHEIFKMVRKGIKASGCNRAILVAHNAHFDLSFLMAAAERAGLKRNPFHPFSTFDTATLSGLALGQ--TVLAKACQAAGI 173 (211)
T ss_pred HHHHHHHHHHHHHhcccCCceEEEeccHHhHHHHHHHHHHhCCCCCCCCCCcEeeHHHHHHHHcCC--CCHHHHHHHCCC
Confidence 988888774 678999999999999999999998642111111389999999999874 479999999999
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHHcCCCc
Q psy8196 146 SKIHRTLHGGLLDAELLAEVYLAMTRGQSN 175 (230)
Q Consensus 146 ~~~~r~~H~Al~Da~~~a~v~~~l~~~~~~ 175 (230)
+..++..|+|+.||.+|++||.+|+.+...
T Consensus 174 ~~~~~~~H~Al~DA~ata~l~~~l~~~~~~ 203 (211)
T PRK05168 174 EFDNKEAHSALYDTEKTAELFCEIVNRWKR 203 (211)
T ss_pred CCCCCCCCChHHHHHHHHHHHHHHHHHHHH
Confidence 976556899999999999999999876443
No 13
>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=100.00 E-value=1.8e-34 Score=236.73 Aligned_cols=168 Identities=23% Similarity=0.346 Sum_probs=141.0
Q ss_pred ceEEEEecCCCCCCCCCCceEEEEEEEEE---CCEEe-cceeEEEEcC--CCCCChhhHhhcCCCHH-HHhCCCCHHHHH
Q psy8196 3 RHIVLDIETTGLNIIDGHRIIEIGCVEIK---NRQIT-GNNLHYYINP--GRDSEKSALAIHGLTTK-FLKNKLKFSEIV 75 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~~~IieIg~v~~~---~~~~~-~~~f~~~i~P--~~~i~~~a~~i~Git~e-~l~~~~~~~ev~ 75 (230)
.+++||+||||++|.. ++|||||+|.+. ++.+. ..+|+.+++| .+++++++.+|||||++ ++.+++++.+++
T Consensus 9 ~~vv~D~ETTGl~~~~-d~IieIgav~v~~~~~g~i~~~~~f~~~v~p~p~~~i~~~a~~ihGIt~~~~~~~~~~~~~~~ 87 (200)
T TIGR01298 9 LPVVVDVETGGFNAKT-DALLEIAAITLKMDEQGWLFPDTTLHFHVEPFEGANIQPEALEFTGIDLDHPLRGAVSEYEAL 87 (200)
T ss_pred eeEEEEeeCCCCCCCC-CeEEEEEEEEEEEcCCCcEeecceeEEEEcCCCCCCCCHHHHHccCCChhhhhhcCcchHHHH
Confidence 4799999999999975 999999999986 34442 4579999997 47899999999999976 688999999888
Q ss_pred HHHHHhc---------CCCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCCCcHHHHHHHhCCC
Q psy8196 76 DNFLNYV---------SNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRYNIS 146 (230)
Q Consensus 76 ~~~~~fl---------~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~gi~ 146 (230)
.++.+|+ ++.++|+||++||+.||++++.++|..........++||+.+++.++|. .+|+.+|++||++
T Consensus 88 ~~~~~~l~~~~~~~~~~~~~lVaHNa~FD~~fL~~~~~r~~~~~~~~~~~~~lDTl~lar~~~~~--~~L~~l~~~~gi~ 165 (200)
T TIGR01298 88 HEIFKVVRKAMKASGCQRAILVGHNANFDLGFLNAAVERTSLKRNPFHPFSTFDTATLAGLAYGQ--TVLAKACQAAGXD 165 (200)
T ss_pred HHHHHHHHHHHHhcccCCCEEEEECchhhHHHHHHHHHHhCCCCCCCCCCcEEEHHHHHHHHcCc--ccHHHHHHHcCCC
Confidence 8888876 5678999999999999999999998742111112379999999999875 4799999999999
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHcCC
Q psy8196 147 KIHRTLHGGLLDAELLAEVYLAMTRGQ 173 (230)
Q Consensus 147 ~~~r~~H~Al~Da~~~a~v~~~l~~~~ 173 (230)
......|+|++||.+|++||.+|+.+.
T Consensus 166 ~~~~~~H~Al~Da~ata~lf~~l~~~~ 192 (200)
T TIGR01298 166 FDSTQAHSALYDTEKTAELFCEIVNRW 192 (200)
T ss_pred ccccchhhhHHhHHHHHHHHHHHHHHH
Confidence 754458999999999999999998663
No 14
>PRK09145 DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=3.4e-34 Score=235.48 Aligned_cols=165 Identities=22% Similarity=0.368 Sum_probs=143.3
Q ss_pred ceEEEEecCCCCCCCCCCceEEEEEEEEECCEEe-cceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHh
Q psy8196 3 RHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQIT-GNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNY 81 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~-~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~f 81 (230)
++|++|+||||++|.. ++|||||+|.++++.+. +..|+.+|+|...++++++++||||++++.+++++.+++.+|.+|
T Consensus 30 ~~vviD~ETTGl~~~~-d~IieIgaV~~~~~~~~~~~~f~~~i~p~~~i~~~~~~ihGIt~~~l~~~~~~~~vl~~~~~~ 108 (202)
T PRK09145 30 EWVALDCETTGLDPRR-AEIVSIAAVKIRGNRILTSERLELLVRPPQSLSAESIKIHRLRHQDLEDGLSEEEALRQLLAF 108 (202)
T ss_pred CEEEEEeECCCCCCCC-CceEEEEEEEEECCEEeecCceEEEECCCCCCCHhHhhhcCcCHHHHhcCCCHHHHHHHHHHH
Confidence 6899999999999975 89999999999987654 457999999999999999999999999999999999999999999
Q ss_pred cCCCeEEEEcccccHHHHHHHHHHc-CCCCcccccchHhHHHHHHHH----HcCC--CCCcHHHHHHHhCCCCCCCCCCC
Q psy8196 82 VSNSEIIIHNAAFDVGFLDMELSLL-GYSNFTKYIYRITDTLLMARK----IHTG--KRNSLDALCDRYNISKIHRTLHG 154 (230)
Q Consensus 82 l~~~~lV~hna~FD~~~L~~~l~~~-g~~~~~~~~~~~iDtl~lar~----~~p~--~~~~L~~L~~~~gi~~~~r~~H~ 154 (230)
+++.++|+||+.||+.||+.++.+. +.+ ++ ..++|+..+.+. .+|. .+++|+++|++||++..+ .|+
T Consensus 109 i~~~~lv~hn~~fD~~fL~~~~~~~~~~~-~~---~~~id~~~l~~~~~~~~~~~~~~~~~L~~l~~~~gi~~~~--~H~ 182 (202)
T PRK09145 109 IGNRPLVGYYLEFDVAMLNRYVRPLLGIP-LP---NPLIEVSALYYDKKERHLPDAYIDLRFDAILKHLDLPVLG--RHD 182 (202)
T ss_pred HcCCeEEEeCHHHHHHHHHHHHHHhcCCC-CC---CCeeeHHHHHHHHhhccCCCcccCCCHHHHHHHcCCCCCC--CCC
Confidence 9999999999999999999999874 443 22 236788766532 2343 246999999999999865 699
Q ss_pred HHHHHHHHHHHHHHHHcCCC
Q psy8196 155 GLLDAELLAEVYLAMTRGQS 174 (230)
Q Consensus 155 Al~Da~~~a~v~~~l~~~~~ 174 (230)
|+.||.++|+||.+|++||.
T Consensus 183 Al~DA~ata~l~~~l~~~~~ 202 (202)
T PRK09145 183 ALNDAIMAALIFLRLRKGDA 202 (202)
T ss_pred cHHHHHHHHHHHHHHHhcCC
Confidence 99999999999999998873
No 15
>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=100.00 E-value=2.1e-34 Score=234.39 Aligned_cols=165 Identities=22% Similarity=0.387 Sum_probs=135.9
Q ss_pred ceEEEEecCCCCCCCCCCceEEEEEEEEEC---CEE-ecceeEEEEcC--CCCCChhhHhhcCCCHHH-HhCCCCHHHHH
Q psy8196 3 RHIVLDIETTGLNIIDGHRIIEIGCVEIKN---RQI-TGNNLHYYINP--GRDSEKSALAIHGLTTKF-LKNKLKFSEIV 75 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~~~IieIg~v~~~~---~~~-~~~~f~~~i~P--~~~i~~~a~~i~Git~e~-l~~~~~~~ev~ 75 (230)
-+|+||+||||++|.. ++|||||+|.+.+ +.+ ..+.|+.+++| +.++++.++++||||+++ +.+++...+++
T Consensus 6 ~~vv~D~ETTGl~~~~-d~Iieigav~v~~~~~~~i~~~~~f~~lv~P~~~~~i~~~~~~ihGIt~~~~~~~~~~~~~~~ 84 (189)
T cd06134 6 LPVVVDVETGGFNPQT-DALLEIAAVTLEMDEQGNLYPDETFHFHILPFEGANLDPAALEFNGIDPFHPFRFAVDEKEAL 84 (189)
T ss_pred eeEEEEecCCCCCCCC-CeEEEEEEEEEEECCCCceeccceEEEEEcCCCCCCCCHHHHhhcCCCchhhhccccchHHHH
Confidence 3689999999999975 9999999999974 333 34689999999 578999999999999986 66777666666
Q ss_pred HHHHHhcC---------CCeEEEEcccccHHHHHHHHHHcCCC--CcccccchHhHHHHHHHHHcCCCCCcHHHHHHHhC
Q psy8196 76 DNFLNYVS---------NSEIIIHNAAFDVGFLDMELSLLGYS--NFTKYIYRITDTLLMARKIHTGKRNSLDALCDRYN 144 (230)
Q Consensus 76 ~~~~~fl~---------~~~lV~hna~FD~~~L~~~l~~~g~~--~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~g 144 (230)
.+|.+++. +.++|+||+.||+.||++++.++|+. ++.. ..++||+.+++.++|. .+|+++|++||
T Consensus 85 ~~~~~~l~~~~~~~~~~~~~lVaHna~FD~~fL~~~~~~~~~~~~~~~~--~~~lDt~~la~~~~~~--~~L~~l~~~~g 160 (189)
T cd06134 85 KEIFKPIRKALKAQGCTRAILVGHNAHFDLGFLNAAVARCKIKRNPFHP--FSTFDTATLAGLAYGQ--TVLAKACQAAG 160 (189)
T ss_pred HHHHHHHHHHHhhcccCCCeEEEecchhhHHHHHHHHHHhCCCCCCCCC--CcEEEHHHHHHHHhCC--CcHHHHHHHCC
Confidence 66666542 56899999999999999999999973 2211 1379999999999874 47999999999
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHHcC
Q psy8196 145 ISKIHRTLHGGLLDAELLAEVYLAMTRG 172 (230)
Q Consensus 145 i~~~~r~~H~Al~Da~~~a~v~~~l~~~ 172 (230)
++......|+|+.||.+|++||.+|+.+
T Consensus 161 i~~~~~~~H~Al~DA~ata~lf~~l~~~ 188 (189)
T cd06134 161 IEFDNKEAHSALYDTQKTAELFCKIVNR 188 (189)
T ss_pred CCCCCCCCcChHHHHHHHHHHHHHHHHh
Confidence 9965335899999999999999999754
No 16
>PRK06309 DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=2.4e-34 Score=241.04 Aligned_cols=162 Identities=30% Similarity=0.403 Sum_probs=144.8
Q ss_pred CCceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHH
Q psy8196 1 MHRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLN 80 (230)
Q Consensus 1 M~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~ 80 (230)
|.++++||+||||+++.. ++|||||++.. .+...|+.+++|+.++++++++|||||++++.++|+|.+++.+|.+
T Consensus 1 ~~~~vv~D~ETTGl~~~~-d~IIeig~v~~----~~~~~f~~lv~P~~~I~~~a~~IhGIt~e~v~~~p~f~ev~~~~~~ 75 (232)
T PRK06309 1 MPALIFYDTETTGTQIDK-DRIIEIAAYNG----VTSESFQTLVNPEIPIPAEASKIHGITTDEVADAPKFPEAYQKFIE 75 (232)
T ss_pred CCcEEEEEeeCCCCCCCC-CEEEEEEEEcC----ccccEEEEEeCCCCCCChhHHhhcCCCHHHHhCCCCHHHHHHHHHH
Confidence 778999999999999876 99999999632 2235799999999999999999999999999999999999999999
Q ss_pred hcCC-CeEEEEcc-cccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC-CCcHHHHHHHhCCCCCCCCCCCHHH
Q psy8196 81 YVSN-SEIIIHNA-AFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK-RNSLDALCDRYNISKIHRTLHGGLL 157 (230)
Q Consensus 81 fl~~-~~lV~hna-~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~-~~~L~~L~~~~gi~~~~r~~H~Al~ 157 (230)
|+++ ..+|+||+ .||+.||++++.++|++... ..++||+.+++.+.|.. +++|++||++||++..+ +|+|+.
T Consensus 76 fi~~~~~lVaHN~~~FD~~~L~~e~~r~g~~~~~---~~~iDt~~l~~~~~~~~~~~~L~~l~~~~~~~~~~--aH~Al~ 150 (232)
T PRK06309 76 FCGTDNILVAHNNDAFDFPLLRKECRRHGLEPPT---LRTIDSLKWAQKYRPDLPKHNLQYLRQVYGFEENQ--AHRALD 150 (232)
T ss_pred HHcCCCEEEEeCCHHHHHHHHHHHHHHcCCCCCC---CcEEeHHHHHHHHcCCCCCCCHHHHHHHcCCCCCC--CCCcHH
Confidence 9986 47999995 89999999999999987443 24899999999998875 56999999999999765 899999
Q ss_pred HHHHHHHHHHHHHcC
Q psy8196 158 DAELLAEVYLAMTRG 172 (230)
Q Consensus 158 Da~~~a~v~~~l~~~ 172 (230)
||.+|++||.+|..+
T Consensus 151 Da~~t~~vl~~l~~~ 165 (232)
T PRK06309 151 DVITLHRVFSALVGD 165 (232)
T ss_pred HHHHHHHHHHHHHHH
Confidence 999999999999865
No 17
>PRK07748 sporulation inhibitor KapD; Provisional
Probab=100.00 E-value=6.7e-34 Score=234.61 Aligned_cols=169 Identities=18% Similarity=0.237 Sum_probs=145.1
Q ss_pred CceEEEEecCCCCCCCC-----CCceEEEEEEEEECCEEecceeEEEEcCCC--CCChhhHhhcCCCHHHHhCCCCHHHH
Q psy8196 2 HRHIVLDIETTGLNIID-----GHRIIEIGCVEIKNRQITGNNLHYYINPGR--DSEKSALAIHGLTTKFLKNKLKFSEI 74 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~-----~~~IieIg~v~~~~~~~~~~~f~~~i~P~~--~i~~~a~~i~Git~e~l~~~~~~~ev 74 (230)
|++|+||+||||+++.. .++|||||+|.++++.+. ..|+.||+|.. .+++.++++||||++++.++|+|.++
T Consensus 4 ~~~vvlD~EtTg~~~~~~~~~~~~eIIeIGaV~v~~~~i~-~~f~~lV~P~~~~~i~~~~~~ltGIt~~~l~~ap~~~ev 82 (207)
T PRK07748 4 QQFLFLDFEFTMPQHKKKPKGFFPEIIEVGLVSVVGCEVE-DTFSSYVKPKTFPSLTERCKSFLGITQEDVDKGISFEEL 82 (207)
T ss_pred ceEEEEEeecCCcCCCCCCCCCCCceEEEeEEEEecCcCh-hhhcceECCCccCccChhhhhhcCcCHHHHccCCCHHHH
Confidence 78999999999976531 279999999999988766 47999999986 68999999999999999999999999
Q ss_pred HHHHHHhcCC-CeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC-CCcHHHHHHHhCCCCCCCCC
Q psy8196 75 VDNFLNYVSN-SEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK-RNSLDALCDRYNISKIHRTL 152 (230)
Q Consensus 75 ~~~~~~fl~~-~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~-~~~L~~L~~~~gi~~~~r~~ 152 (230)
+.+|.+|+++ ..+++||+.||+.||++++.++|++... . ..++|+..+.+.+++.. .++|+++|++||++..+ .+
T Consensus 83 l~~f~~~~~~~~~~iv~~~~fD~~fL~~~~~~~~~~~~~-~-~~~~dl~~~~~~~~~~~~~~~L~~~~~~~gi~~~~-~~ 159 (207)
T PRK07748 83 VEKLAEYDKRCKPTIVTWGNMDMKVLKHNCEKAGVPFPF-K-GQCRDLSLEYKKFFGERNQTGLWKAIEEYGKEGTG-KH 159 (207)
T ss_pred HHHHHHHhCcCCeEEEEECHHHHHHHHHHHHHcCCCCcc-c-ccceeHHHHHHHHhCcCCCCCHHHHHHHcCCCCCC-CC
Confidence 9999999998 4677788999999999999999976321 1 24788888888877744 46999999999999765 37
Q ss_pred CCHHHHHHHHHHHHHHHHcCCC
Q psy8196 153 HGGLLDAELLAEVYLAMTRGQS 174 (230)
Q Consensus 153 H~Al~Da~~~a~v~~~l~~~~~ 174 (230)
|+|+.||.+|++||.+|.....
T Consensus 160 H~Al~DA~~ta~l~~~l~~~~~ 181 (207)
T PRK07748 160 HCALDDAMTTYNIFKLVEKDKE 181 (207)
T ss_pred cChHHHHHHHHHHHHHHHhCcc
Confidence 9999999999999999986643
No 18
>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=100.00 E-value=3.5e-34 Score=230.82 Aligned_cols=156 Identities=27% Similarity=0.355 Sum_probs=131.2
Q ss_pred eEEEEecCCCCC-CCCCCceEEEEEEEEECCEEe------------cceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCC
Q psy8196 4 HIVLDIETTGLN-IIDGHRIIEIGCVEIKNRQIT------------GNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLK 70 (230)
Q Consensus 4 ~ivlD~ETTGl~-~~~~~~IieIg~v~~~~~~~~------------~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~ 70 (230)
|++||+||||++ +.. ++|||||+|.+.++.+. ...|+++++|++++++.+++|||||++++.++|+
T Consensus 1 ~vv~D~ETTGl~~~~~-d~Iiei~av~v~~~~~~~~~~~~~~~~~~~~~~~~lv~P~~~I~~~a~~IhGIt~e~l~~~~~ 79 (177)
T cd06136 1 FVFLDLETTGLPKHNR-PEITELCLVAVHRDHLLNTSRDKPALPRVLDKLSLCFNPGRAISPGASEITGLSNDLLEHKAP 79 (177)
T ss_pred CeEEeeecCCCCCCCC-CceEEEEEEEEecccccccccccccccceeeeeeEEeCCCCcCChhHHHHhCcCHHHHhcCCC
Confidence 689999999999 454 99999999999865431 1369999999999999999999999999999998
Q ss_pred HHH-HHHHHHHhc---CC-CeEEEEcc-cccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCCCcHHHHHHH-h
Q psy8196 71 FSE-IVDNFLNYV---SN-SEIIIHNA-AFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKRNSLDALCDR-Y 143 (230)
Q Consensus 71 ~~e-v~~~~~~fl---~~-~~lV~hna-~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~-~ 143 (230)
|.+ +.+.+.+|+ .+ ..+|+||+ .||++||++++.++|.+.... ..++||+.+++.+.| +|++||++ |
T Consensus 80 ~~~~~~~~l~~f~~~~~~~~~lVaHNa~~FD~~fL~~~~~r~~~~~~~~--~~~iDtl~l~r~~~~----~L~~l~~~~~ 153 (177)
T cd06136 80 FDSDTANLIKLFLRRQPKPICLVAHNGNRFDFPILRSELERLGTKLPDD--ILCVDSLPAFRELDQ----SLGSLYKRLF 153 (177)
T ss_pred ccHHHHHHHHHHHHhcCCCCEEEEcCCcccCHHHHHHHHHHcCCCCCCC--CEEEEeHHHHhhhHh----hHHHHHHHHh
Confidence 764 445555554 43 47999998 899999999999999864322 236899999999887 89999986 8
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHH
Q psy8196 144 NISKIHRTLHGGLLDAELLAEVYLA 168 (230)
Q Consensus 144 gi~~~~r~~H~Al~Da~~~a~v~~~ 168 (230)
|++..+ +|+|+.||.+|++||++
T Consensus 154 ~~~~~~--~H~A~~Da~at~~v~~~ 176 (177)
T cd06136 154 GQEPKN--SHTAEGDVLALLKCALH 176 (177)
T ss_pred CCCccc--ccchHHHHHHHHHHHhh
Confidence 999876 79999999999999975
No 19
>smart00479 EXOIII exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other exonucleases.
Probab=100.00 E-value=2.4e-33 Score=222.76 Aligned_cols=165 Identities=31% Similarity=0.514 Sum_probs=149.3
Q ss_pred ceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhc
Q psy8196 3 RHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYV 82 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl 82 (230)
.+|+||+||||+++.. ++|||||+|.++++. ....|+.+|+|..++++.++++||||++++.++++|.+++.+|.+|+
T Consensus 1 ~~v~~D~Ettg~~~~~-~~Iieig~v~~~~~~-~~~~f~~~v~p~~~i~~~~~~~~Git~~~l~~~~~~~~~~~~~~~~l 78 (169)
T smart00479 1 TLVVIDCETTGLDPGK-DEIIEIAAVDVDGGR-IIVVFDTYVKPDRPITDYATEIHGITPEMLDDAPTFEEVLEELLEFL 78 (169)
T ss_pred CEEEEEeeCCCCCCCC-CeEEEEEEEEEECCE-eEEEEEEEECCCCCCCHHHHHHhCCCHHHHhCCCCHHHHHHHHHHHh
Confidence 4799999999999975 899999999999887 44579999999999999999999999999999999999999999999
Q ss_pred CCCeEEEEcc-cccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCCCcHHHHHHHhCCCCCCCCCCCHHHHHHH
Q psy8196 83 SNSEIIIHNA-AFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRYNISKIHRTLHGGLLDAEL 161 (230)
Q Consensus 83 ~~~~lV~hna-~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~gi~~~~r~~H~Al~Da~~ 161 (230)
++..+|+||+ .||+.+|+.++.+.|.+.... ..++|++.+++..+|+...+|+.+|++||++..++ +|+|+.||.+
T Consensus 79 ~~~~~v~~n~~~fD~~~L~~~~~~~~~~~~~~--~~~iD~~~~~~~~~~~~~~~L~~l~~~~~~~~~~~-~H~A~~Da~~ 155 (169)
T smart00479 79 KGKILVAGNALNFDLRFLKLEHPRLGIKDPPK--NPVIDTLKLARALNPGRKYSLKKLAERLGLEVIGR-AHRALDDARA 155 (169)
T ss_pred cCCEEEEeCCHHHhHHHHHHHHHHhCCCCCcC--CCeeEHHHHHHHHCCCCCCCHHHHHHHCCCCCCCC-CcCcHHHHHH
Confidence 9999999999 999999999999998753221 23899999999999877779999999999999874 6999999999
Q ss_pred HHHHHHHHHcC
Q psy8196 162 LAEVYLAMTRG 172 (230)
Q Consensus 162 ~a~v~~~l~~~ 172 (230)
+++||..+...
T Consensus 156 t~~l~~~~~~~ 166 (169)
T smart00479 156 TAKLFKKLVER 166 (169)
T ss_pred HHHHHHHHHHH
Confidence 99999998753
No 20
>PRK06063 DNA polymerase III subunit epsilon; Provisional
Probab=100.00 E-value=6.7e-34 Score=247.53 Aligned_cols=162 Identities=24% Similarity=0.409 Sum_probs=143.1
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEEC-CEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHH
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIKN-RQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLN 80 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~-~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~ 80 (230)
..|++||+||||++|.. ++|||||+|.++. +.+. +.|+.+|+|.. ++.++.|||||++++.++|.|.+++.+|.+
T Consensus 15 ~~fvvlD~ETTGl~p~~-d~IIeIgav~v~~~g~i~-~~~~~lv~P~~--~~~~~~IhGIt~e~l~~ap~f~ev~~~l~~ 90 (313)
T PRK06063 15 RGWAVVDVETSGFRPGQ-ARIISLAVLGLDADGNVE-QSVVTLLNPGV--DPGPTHVHGLTAEMLEGQPQFADIAGEVAE 90 (313)
T ss_pred CCEEEEEEECCCCCCCC-CEEEEEEEEEEECCceee-eEEEEEECcCC--CCCCeecCCCCHHHHhCCCCHHHHHHHHHH
Confidence 47899999999999986 9999999999974 4444 57999999975 456789999999999999999999999999
Q ss_pred hcCCCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC-CCcHHHHHHHhCCCCCCCCCCCHHHHH
Q psy8196 81 YVSNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK-RNSLDALCDRYNISKIHRTLHGGLLDA 159 (230)
Q Consensus 81 fl~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~-~~~L~~L~~~~gi~~~~r~~H~Al~Da 159 (230)
|+++.++|+||+.||+.||++++.++|.+... ..++||+.+++.++|.. +++|++||++||++... +|+|+.||
T Consensus 91 ~l~~~~lVaHNa~FD~~fL~~~~~r~g~~~~~---~~~ldTl~lar~~~~~~~~~kL~~l~~~~gi~~~~--~H~Al~DA 165 (313)
T PRK06063 91 LLRGRTLVAHNVAFDYSFLAAEAERAGAELPV---DQVMCTVELARRLGLGLPNLRLETLAAHWGVPQQR--PHDALDDA 165 (313)
T ss_pred HcCCCEEEEeCHHHHHHHHHHHHHHcCCCCCC---CCEEehHHHHHHhccCCCCCCHHHHHHHcCCCCCC--CCCcHHHH
Confidence 99999999999999999999999999976332 23789999999998754 56999999999999765 79999999
Q ss_pred HHHHHHHHHHHcC
Q psy8196 160 ELLAEVYLAMTRG 172 (230)
Q Consensus 160 ~~~a~v~~~l~~~ 172 (230)
.+|++||..++..
T Consensus 166 ~ata~l~~~ll~~ 178 (313)
T PRK06063 166 RVLAGILRPSLER 178 (313)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999888654
No 21
>PRK06195 DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=9.1e-34 Score=246.76 Aligned_cols=161 Identities=23% Similarity=0.402 Sum_probs=145.3
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCC-CCChhhHhhcCCCHHHHhCCCCHHHHHHHHHH
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGR-DSEKSALAIHGLTTKFLKNKLKFSEIVDNFLN 80 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~-~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~ 80 (230)
|+|++||+||||.. +++|||||+|.++++.+.. .|+++|+|.. .+++.+++|||||++++.++|+|.+++.+|.+
T Consensus 1 ~~~vviD~ETTg~~---~d~IieIgav~v~~g~i~~-~f~~lv~P~~~~~~~~~~~IhGIT~e~v~~ap~f~ev~~~~~~ 76 (309)
T PRK06195 1 MNFVAIDFETANEK---RNSPCSIGIVVVKDGEIVE-KVHYLIKPKEMRFMPINIGIHGIRPHMVEDELEFDKIWEKIKH 76 (309)
T ss_pred CcEEEEEEeCCCCC---CCceEEEEEEEEECCEEEE-EEEEEECCCCCCCChhheeccCcCHHHHhCCCCHHHHHHHHHH
Confidence 68999999999853 3899999999999888774 7999999975 57889999999999999999999999999999
Q ss_pred hcCCCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC-CCcHHHHHHHhCCCCCCCCCCCHHHHH
Q psy8196 81 YVSNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK-RNSLDALCDRYNISKIHRTLHGGLLDA 159 (230)
Q Consensus 81 fl~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~-~~~L~~L~~~~gi~~~~r~~H~Al~Da 159 (230)
|+++..+|+||+.||++||++++.+++++.+. ..++||+.+++.++|+. +++|+.||++||++.. .|+|+.||
T Consensus 77 fl~~~~lVaHNa~FD~~fL~~~~~r~~~~~~~---~~~idT~~lar~l~~~~~~~~L~~L~~~~gi~~~---~H~Al~DA 150 (309)
T PRK06195 77 YFNNNLVIAHNASFDISVLRKTLELYNIPMPS---FEYICTMKLAKNFYSNIDNARLNTVNNFLGYEFK---HHDALADA 150 (309)
T ss_pred HhCCCEEEEECcHHHHHHHHHHHHHhCCCCCC---CCEEEHHHHHHHHcCCCCcCCHHHHHHHcCCCCc---ccCCHHHH
Confidence 99999999999999999999999999886443 24899999999999975 5699999999999852 69999999
Q ss_pred HHHHHHHHHHHcC
Q psy8196 160 ELLAEVYLAMTRG 172 (230)
Q Consensus 160 ~~~a~v~~~l~~~ 172 (230)
.+|++||++|...
T Consensus 151 ~ata~l~~~l~~~ 163 (309)
T PRK06195 151 MACSNILLNISKE 163 (309)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999999865
No 22
>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=1.3e-33 Score=222.22 Aligned_cols=155 Identities=26% Similarity=0.393 Sum_probs=141.1
Q ss_pred eEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhcC
Q psy8196 4 HIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYVS 83 (230)
Q Consensus 4 ~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl~ 83 (230)
||++|+||||..+ ++|||||+|.++++++. .+|+.+++|+.+++++++++||||++++.++++|.+++++|.+|++
T Consensus 1 ~v~~D~Ettg~~~---~~ii~ig~v~~~~~~~~-~~~~~~i~p~~~~~~~~~~i~GIt~e~l~~~~~~~~v~~~l~~~l~ 76 (156)
T cd06130 1 FVAIDFETANADR---ASACSIGLVKVRDGQIV-DTFYTLIRPPTRFDPFNIAIHGITPEDVADAPTFPEVWPEIKPFLG 76 (156)
T ss_pred CEEEEEeCCCCCC---CceEEEEEEEEECCEEE-EEEEEEeCcCCCCChhhccccCcCHHHHhcCCCHHHHHHHHHHHhC
Confidence 6899999999663 78999999999988776 4799999999999999999999999999999999999999999999
Q ss_pred CCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC-CCcHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q psy8196 84 NSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK-RNSLDALCDRYNISKIHRTLHGGLLDAELL 162 (230)
Q Consensus 84 ~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~-~~~L~~L~~~~gi~~~~r~~H~Al~Da~~~ 162 (230)
+.++|+||+.||++||++++.++|++..+ ..++||+.+++.++|+. +.+|+.||++||++.. .|+|+.||.++
T Consensus 77 ~~~lv~hn~~fD~~~l~~~~~~~g~~~~~---~~~idt~~~~~~~~~~~~~~~L~~l~~~~g~~~~---~H~Al~Da~~t 150 (156)
T cd06130 77 GSLVVAHNASFDRSVLRAALEAYGLPPPP---YQYLCTVRLARRVWPLLPNHKLNTVAEHLGIELN---HHDALEDARAC 150 (156)
T ss_pred CCEEEEeChHHhHHHHHHHHHHcCCCCCC---CCEEEHHHHHHHHhccCCCCCHHHHHHHcCCCcc---CcCchHHHHHH
Confidence 99999999999999999999999987443 24899999999999874 4599999999999886 69999999999
Q ss_pred HHHHHH
Q psy8196 163 AEVYLA 168 (230)
Q Consensus 163 a~v~~~ 168 (230)
++||++
T Consensus 151 a~l~~~ 156 (156)
T cd06130 151 AEILLA 156 (156)
T ss_pred HHHHhC
Confidence 999963
No 23
>PRK06722 exonuclease; Provisional
Probab=100.00 E-value=7.1e-33 Score=236.25 Aligned_cols=168 Identities=22% Similarity=0.294 Sum_probs=143.3
Q ss_pred CceEEEEecCCCCCCC--CCCceEEEEEEEEECC--EEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHH
Q psy8196 2 HRHIVLDIETTGLNII--DGHRIIEIGCVEIKNR--QITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDN 77 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~--~~~~IieIg~v~~~~~--~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~ 77 (230)
.+++|||+||||.+.. .+++|||||+|.++++ .++ +.|+.||+|..++++.+.++||||++++.++|+|.+++.+
T Consensus 5 ~~~vViD~ETT~~p~~~~~~deIIEIGAVkV~~g~i~Iv-d~F~sLV~P~~~I~~~i~~LTGIT~emV~~AP~f~eVl~e 83 (281)
T PRK06722 5 THFIVFDIERNFRPYKSEDPSEIVDIGAVKIEASTMKVI-GEFSELVKPGARLTRHTTKLTGITKKDLIGVEKFPQIIEK 83 (281)
T ss_pred CEEEEEEeeCCCCCCCCCCCCeEEEEEEEEEECCceeEE-eeEEEEECCCCcCCHhHhhhcCCCHHHHcCCCCHHHHHHH
Confidence 5789999999964321 2379999999999987 555 4799999999999999999999999999999999999999
Q ss_pred HHHhcCCCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCC---CCCcHHHHHHHhCCCCCCCCCCC
Q psy8196 78 FLNYVSNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTG---KRNSLDALCDRYNISKIHRTLHG 154 (230)
Q Consensus 78 ~~~fl~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~---~~~~L~~L~~~~gi~~~~r~~H~ 154 (230)
|.+|+++..+|+||+.||++||++++.++|++.+......++|+..+++..+|. ...+|+.+|++||++..++ +|+
T Consensus 84 f~~fig~~~lvahna~FD~~FL~~~l~~~gi~~p~~~~~~~idl~~la~~~~~~l~~~~~sL~~l~~~lgL~~~g~-~Hr 162 (281)
T PRK06722 84 FIQFIGEDSIFVTWGKEDYRFLSHDCTLHSVECPCMEKERRIDLQKFVFQAYEELFEHTPSLQSAVEQLGLIWEGK-QHR 162 (281)
T ss_pred HHHHHCCCcEEEEEeHHHHHHHHHHHHHcCCCCCcccccchhHHHHHHHHHhhhhccCCCCHHHHHHHCCCCCCCC-CcC
Confidence 999999888999999999999999999999763221112378999888776653 2358999999999998653 899
Q ss_pred HHHHHHHHHHHHHHHHc
Q psy8196 155 GLLDAELLAEVYLAMTR 171 (230)
Q Consensus 155 Al~Da~~~a~v~~~l~~ 171 (230)
|+.||++||+||+.|..
T Consensus 163 AL~DA~~TA~L~l~l~~ 179 (281)
T PRK06722 163 ALADAENTANILLKAYS 179 (281)
T ss_pred cHHHHHHHHHHHHHHhc
Confidence 99999999999999984
No 24
>PRK05601 DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=3e-32 Score=237.46 Aligned_cols=162 Identities=23% Similarity=0.367 Sum_probs=138.7
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEE-CCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHH
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIK-NRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLN 80 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~-~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~ 80 (230)
..||+||+||||++|.. ++|||||+|.+. ++.+. ..|+.+|+|+.++.+ ..|||||++++.++|.|.+++.+|.+
T Consensus 46 ~~fVvlDiETTGLdp~~-drIIeIgAV~i~~~g~iv-e~f~tLVnP~~~~~p--~~LHGIT~e~La~AP~f~eVl~el~~ 121 (377)
T PRK05601 46 APFVAVSIQTSGIHPST-SRLITIDAVTLTADGEEV-EHFHAVLNPGEDPGP--FHLHGLSAEEFAQGKRFSQILKPLDR 121 (377)
T ss_pred CCEEEEEEECCCCCCCC-CeEEEEEEEEEEcCCEEE-EEEEEEECcCCCCCC--ccccCCCHHHHhcCCCHHHHHHHHHH
Confidence 36999999999999986 999999999998 55554 589999999876554 47999999999999999999999999
Q ss_pred hcCCCeEEEEcccccHHHHHHHHHHcCC---------------------------CCcccccchHhHHHHHHHHHcCCC-
Q psy8196 81 YVSNSEIIIHNAAFDVGFLDMELSLLGY---------------------------SNFTKYIYRITDTLLMARKIHTGK- 132 (230)
Q Consensus 81 fl~~~~lV~hna~FD~~~L~~~l~~~g~---------------------------~~~~~~~~~~iDtl~lar~~~p~~- 132 (230)
|+++.++|+||+.||++||++++.++.. .+.. ..++||+.++|+++|..
T Consensus 122 fL~g~vLVaHNA~FD~~FL~~e~~r~~~~a~~~n~~~~r~~~~~~~~~rr~~~g~~p~p---~~~iDTL~LARrl~p~l~ 198 (377)
T PRK05601 122 LIDGRTLILHNAPRTWGFIVSEAKRAMNAAARANRNRNRGNRRGGRGRRRQRVGHIPKP---VVIVDTLATARRQGVALD 198 (377)
T ss_pred HhCCCEEEEECcHHHHHHHHHHHHHhhhhhhhcccccccccccccccccccccCCCCCC---CCEEEhHHHHHHHcCCCC
Confidence 9999999999999999999999977521 1111 24899999999999974
Q ss_pred CCcHHHHHHHhCCCCCC--------CCCCCHH--HHHHHHHHHHHHHH
Q psy8196 133 RNSLDALCDRYNISKIH--------RTLHGGL--LDAELLAEVYLAMT 170 (230)
Q Consensus 133 ~~~L~~L~~~~gi~~~~--------r~~H~Al--~Da~~~a~v~~~l~ 170 (230)
+++|+.||++||++... ...|.|| .||.+++++|..+.
T Consensus 199 ~~rL~~La~~lGi~~p~~~A~~~Ra~~p~~~l~~~Da~ll~~l~~~~~ 246 (377)
T PRK05601 199 DIRIRGVAHTLGLDAPAAEASVERAQVPHRQLCREETLLVARLYFALR 246 (377)
T ss_pred CCCHHHHHHHhCCCCCchhhhhhhhcCChhhhhhHHHHHHHHHHHHhh
Confidence 56999999999999821 2378999 49999999999873
No 25
>PRK07883 hypothetical protein; Validated
Probab=100.00 E-value=2.5e-32 Score=253.72 Aligned_cols=165 Identities=25% Similarity=0.412 Sum_probs=150.8
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHh
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNY 81 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~f 81 (230)
+.+|+||+||||++|.. ++|||||+|.++++.+.+ .|+.+|+|..++++.++++||||++++.++|+|.+++.+|.+|
T Consensus 15 ~~~Vv~D~ETTGl~p~~-~~IIEIgaV~v~~g~iv~-~f~~lV~P~~~i~~~~~~itGIt~e~l~~ap~~~evl~~f~~f 92 (557)
T PRK07883 15 VTFVVVDLETTGGSPAG-DAITEIGAVKVRGGEVLG-EFATLVNPGRPIPPFITVLTGITTAMVAGAPPIEEVLPAFLEF 92 (557)
T ss_pred CCEEEEEEecCCCCCCC-CeEEEEEEEEEECCEEEE-EEEEEECCCCCCChhHHhhcCCCHHHHhCCCCHHHHHHHHHHH
Confidence 57999999999999985 999999999999887764 7999999999999999999999999999999999999999999
Q ss_pred cCCCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcC--C-CCCcHHHHHHHhCCCCCCCCCCCHHHH
Q psy8196 82 VSNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHT--G-KRNSLDALCDRYNISKIHRTLHGGLLD 158 (230)
Q Consensus 82 l~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p--~-~~~~L~~L~~~~gi~~~~r~~H~Al~D 158 (230)
+++..+|+||+.||+.||+.++.++|++... ..++||+.+++.++| + .+++|++||++||++..+ +|+|+.|
T Consensus 93 l~~~~lVaHNa~FD~~fL~~~~~r~g~~~~~---~~~iDTl~lar~l~~~~~~~~~~L~~L~~~~gi~~~~--~H~Al~D 167 (557)
T PRK07883 93 ARGAVLVAHNAPFDIGFLRAAAARCGYPWPG---PPVLCTVRLARRVLPRDEAPNVRLSTLARLFGATTTP--THRALDD 167 (557)
T ss_pred hcCCEEEEeCcHHHHHHHHHHHHHcCCCCCC---CCcEecHHHHHHhcccCCCCCCCHHHHHHHCCcccCC--CCCHHHH
Confidence 9999999999999999999999999987543 247999999999987 3 345999999999999876 6999999
Q ss_pred HHHHHHHHHHHHcCC
Q psy8196 159 AELLAEVYLAMTRGQ 173 (230)
Q Consensus 159 a~~~a~v~~~l~~~~ 173 (230)
|.+|++||.+++.+.
T Consensus 168 A~ata~l~~~l~~~~ 182 (557)
T PRK07883 168 ARATVDVLHGLIERL 182 (557)
T ss_pred HHHHHHHHHHHHHHH
Confidence 999999999987664
No 26
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=2.9e-32 Score=266.63 Aligned_cols=166 Identities=25% Similarity=0.438 Sum_probs=153.6
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHh
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNY 81 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~f 81 (230)
++||++|+||||++|..+++|||||+|.++++++.+ +|+.+|+|.+++++++.++||||++++.++|+|.+++.+|.+|
T Consensus 3 ~~~vvvD~ETTG~~p~~~d~IIeigav~v~~~~i~~-~f~~~v~P~~~i~~~~~~ltGIt~~~l~~ap~f~ev~~~l~~~ 81 (928)
T PRK08074 3 KRFVVVDLETTGNSPKKGDKIIQIAAVVVEDGEILE-RFSSFVNPERPIPPFITELTGISEEMVKQAPLFEDVAPEIVEL 81 (928)
T ss_pred CCEEEEEEeCCCCCCCCCCcEEEEEEEEEECCEEEE-EEEEEECcCCCCCHHHhhcCCCCHHHHhcCCCHHHHHHHHHHH
Confidence 799999999999998766899999999999988874 7999999999999999999999999999999999999999999
Q ss_pred cCCCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC-CCcHHHHHHHhCCCCCCCCCCCHHHHHH
Q psy8196 82 VSNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK-RNSLDALCDRYNISKIHRTLHGGLLDAE 160 (230)
Q Consensus 82 l~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~-~~~L~~L~~~~gi~~~~r~~H~Al~Da~ 160 (230)
++++++|+||+.||+.||++++.+.|.+++. ..++||+.+++.++|.. +++|++||++||++..+ +|+|++||.
T Consensus 82 l~~~~~VaHN~~FD~~fL~~~~~~~g~~~~~---~~~iDt~~la~~~~p~~~~~~L~~l~~~l~i~~~~--~H~Al~DA~ 156 (928)
T PRK08074 82 LEGAYFVAHNVHFDLNFLNEELERAGYTEIH---CPKLDTVELARILLPTAESYKLRDLSEELGLEHDQ--PHRADSDAE 156 (928)
T ss_pred hCCCeEEEEChHHHHHHHHHHHHHcCCCCCC---CCeeeHHHHHHHhcCCCCCCCHHHHHHhCCCCCCC--CCChHHHHH
Confidence 9999999999999999999999999987554 24899999999999964 56999999999999765 899999999
Q ss_pred HHHHHHHHHHcCC
Q psy8196 161 LLAEVYLAMTRGQ 173 (230)
Q Consensus 161 ~~a~v~~~l~~~~ 173 (230)
+|++||.+|+.+.
T Consensus 157 ata~l~~~l~~~~ 169 (928)
T PRK08074 157 VTAELFLQLLNKL 169 (928)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999998763
No 27
>PRK07247 DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=9.2e-32 Score=219.37 Aligned_cols=159 Identities=21% Similarity=0.275 Sum_probs=133.8
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHh
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNY 81 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~f 81 (230)
.++|+||+||||+++. ++|||||+|.++++..+. .|+.|++|..++++.++++||||++++.++|++.+++.+|.+|
T Consensus 5 ~~~vvlD~EtTGl~~~--~eIIeIgaV~v~~g~~~~-~f~~lv~P~~~i~~~~~~lhGIt~~~v~~ap~~~evl~~f~~f 81 (195)
T PRK07247 5 ETYIAFDLEFNTVNGV--SHIIQVSAVKYDDHKEVD-SFDSYVYTDVPLQSFINGLTGITADKIADAPKVEEVLAAFKEF 81 (195)
T ss_pred CeEEEEEeeCCCCCCC--CeEEEEEEEEEECCEEEE-EEEEEECCCCCCCccceecCCCCHHHHhCCCCHHHHHHHHHHH
Confidence 5799999999999864 799999999999887764 7999999999999999999999999999999999999999999
Q ss_pred cCCCeEEEEccc-ccHHHHHHHHHHcCCCCcccccchHhHHHHHH--HHH--cCCC-CCcHHHHHHHhCCCCCCCCCCCH
Q psy8196 82 VSNSEIIIHNAA-FDVGFLDMELSLLGYSNFTKYIYRITDTLLMA--RKI--HTGK-RNSLDALCDRYNISKIHRTLHGG 155 (230)
Q Consensus 82 l~~~~lV~hna~-FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~la--r~~--~p~~-~~~L~~L~~~~gi~~~~r~~H~A 155 (230)
+++..+|+||+. ||+.||+. .|.+.... ..+|++..+ +.. +|+. +++|.+||++||++. . .|+|
T Consensus 82 ~~~~~lVaHNa~~fD~~fL~~----~g~~~~~~---~~idt~~~~~~~~~~~~~~~~~~~L~~La~~~gi~~-~--~HrA 151 (195)
T PRK07247 82 VGELPLIGYNAQKSDLPILAE----NGLDLSDQ---YQVDLYDEAFERRSSDLNGIANLKLQTVADFLGIKG-R--GHNS 151 (195)
T ss_pred HCCCeEEEEeCcHhHHHHHHH----cCCCcCCC---ceeehHHHHHHhhccccCCCCCCCHHHHHHhcCCCC-C--CcCC
Confidence 999999999996 89999863 45543221 134555433 222 4543 569999999999985 2 6999
Q ss_pred HHHHHHHHHHHHHHHcCC
Q psy8196 156 LLDAELLAEVYLAMTRGQ 173 (230)
Q Consensus 156 l~Da~~~a~v~~~l~~~~ 173 (230)
+.||.+|+.||.+++...
T Consensus 152 l~DA~~ta~v~~~ll~~~ 169 (195)
T PRK07247 152 LEDARMTARVYESFLESD 169 (195)
T ss_pred HHHHHHHHHHHHHHHhhc
Confidence 999999999999998663
No 28
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=100.00 E-value=3.3e-33 Score=265.78 Aligned_cols=163 Identities=33% Similarity=0.597 Sum_probs=153.7
Q ss_pred ceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhc
Q psy8196 3 RHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYV 82 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl 82 (230)
.|||||+|||||+|.. +.||||||+.+.++++.+ .|+.+++|.+++|...+++||||+++|.++++..+++.+|.+|+
T Consensus 422 tyVVfDiETTGLs~~~-d~iIE~aAvKikng~iId-~f~~Fi~P~~pl~~~~telTgITdeml~~a~~i~~vL~kf~~~~ 499 (1444)
T COG2176 422 TYVVFDIETTGLSPVY-DEIIEIAAVKIKNGRIID-KFQFFIKPGRPLSATITELTGITDEMLENAPEIEEVLEKFREFI 499 (1444)
T ss_pred cEEEEEeecCCcCccc-chhhhheeeeeeCCcchH-HHHHhcCCCCcCchhhhhccccCHHHHcCCccHHHHHHHHHHHh
Confidence 5899999999999998 999999999999999885 69999999999999999999999999999999999999999999
Q ss_pred CCCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCC-CCCcHHHHHHHhCCCCCCCCCCCHHHHHHH
Q psy8196 83 SNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTG-KRNSLDALCDRYNISKIHRTLHGGLLDAEL 161 (230)
Q Consensus 83 ~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~-~~~~L~~L~~~~gi~~~~r~~H~Al~Da~~ 161 (230)
+++++|+||++||++||+..+.++|++++. .+++|||.+||.++|. ++++|..||++||+..++ +|+|.+||++
T Consensus 500 ~d~IlVAHNasFD~gFl~~~~~k~~~~~~~---~pvIDTL~lar~L~P~~ksh~Lg~l~kk~~v~le~--hHRA~yDaea 574 (1444)
T COG2176 500 GDSILVAHNASFDMGFLNTNYEKYGLEPLT---NPVIDTLELARALNPEFKSHRLGTLCKKLGVELER--HHRADYDAEA 574 (1444)
T ss_pred cCcEEEeccCccchhHHHHHHHHhCCcccc---CchhhHHHHHHHhChhhhhcchHHHHHHhCccHHH--hhhhhhhHHH
Confidence 999999999999999999999999998766 4699999999999985 567999999999999976 8999999999
Q ss_pred HHHHHHHHHcC
Q psy8196 162 LAEVYLAMTRG 172 (230)
Q Consensus 162 ~a~v~~~l~~~ 172 (230)
|++||..|...
T Consensus 575 t~~vf~~f~~~ 585 (1444)
T COG2176 575 TAKVFFVFLKD 585 (1444)
T ss_pred HHHHHHHHHHH
Confidence 99999988754
No 29
>PRK07983 exodeoxyribonuclease X; Provisional
Probab=100.00 E-value=1.4e-31 Score=221.90 Aligned_cols=149 Identities=25% Similarity=0.353 Sum_probs=131.8
Q ss_pred eEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhcC
Q psy8196 4 HIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYVS 83 (230)
Q Consensus 4 ~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl~ 83 (230)
+++||+||||+++ +|||||+|.+.++.++. .|+.+++|++++++.+++|||||++++.++|+|.+++.. |++
T Consensus 2 ~~vlD~ETTGl~~----~IieIg~v~v~~~~i~~-~~~~lv~P~~~i~~~~~~ihgIt~e~v~~ap~~~ev~~~---~~~ 73 (219)
T PRK07983 2 LRVIDTETCGLQG----GIVEIASVDVIDGKIVN-PMSHLVRPDRPISPQAMAIHRITEAMVADKPWIEDVIPH---YYG 73 (219)
T ss_pred eEEEEEECCCCCC----CCEEEEEEEEECCEEEE-EEEEEECcCCCCCHHHhhcCCCCHHHHcCCCCHHHHHHH---HcC
Confidence 7899999999974 49999999999888764 799999999999999999999999999999999999887 567
Q ss_pred CCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCCCcHHHHHHHhCCCCC---CCCCCCHHHHHH
Q psy8196 84 NSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRYNISKI---HRTLHGGLLDAE 160 (230)
Q Consensus 84 ~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~gi~~~---~r~~H~Al~Da~ 160 (230)
+..+|+||+.||++||.. . . ..++||+.++|.++|+.+++|++||++||++.. .+.+|+|+.||.
T Consensus 74 ~~~lVaHNa~FD~~~L~~----~-----~---~~~idTl~lar~l~p~~~~~l~~L~~~~~l~~~~~~~~~aHrAl~Da~ 141 (219)
T PRK07983 74 SEWYVAHNASFDRRVLPE----M-----P---GEWICTMKLARRLWPGIKYSNMALYKSRKLNVQTPPGLHHHRALYDCY 141 (219)
T ss_pred CCEEEEeCcHhhHHHHhC----c-----C---CCcEeHHHHHHHHccCCCCCHHHHHHHcCCCCCCCCCCCCCcHHHHHH
Confidence 889999999999999852 1 1 248999999999999888999999999998752 235899999999
Q ss_pred HHHHHHHHHHcC
Q psy8196 161 LLAEVYLAMTRG 172 (230)
Q Consensus 161 ~~a~v~~~l~~~ 172 (230)
+|+.||..++..
T Consensus 142 ata~ll~~l~~~ 153 (219)
T PRK07983 142 ITAALLIDIMNT 153 (219)
T ss_pred HHHHHHHHHHHH
Confidence 999999999853
No 30
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=100.00 E-value=1e-31 Score=259.24 Aligned_cols=163 Identities=26% Similarity=0.376 Sum_probs=149.6
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHh
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNY 81 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~f 81 (230)
.+||++|+||||+++. ++|||||+|.+.++.+.. .|+.+|+|.+++++.++.+||||++++.++|+|.+++.+|.+|
T Consensus 7 ~~~vvvD~ETTGl~~~--d~IIeIgaV~v~~g~i~~-~f~~lv~P~~~i~~~~~~ltGIt~e~l~~ap~~~ev~~~~~~~ 83 (820)
T PRK07246 7 RKYAVVDLEATGAGPN--ASIIQVGIVIIEGGEIID-SYTTDVNPHEPLDEHIKHLTGITDQQLAQAPDFSQVARHIYDL 83 (820)
T ss_pred CCEEEEEEecCCcCCC--CeEEEEEEEEEECCEEEE-EEEEEeCcCCCCCHhHhhcCCCCHHHHhcCCCHHHHHHHHHHH
Confidence 5799999999999974 899999999999988774 7999999999999999999999999999999999999999999
Q ss_pred cCCCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC-CCcHHHHHHHhCCCCCCCCCCCHHHHHH
Q psy8196 82 VSNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK-RNSLDALCDRYNISKIHRTLHGGLLDAE 160 (230)
Q Consensus 82 l~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~-~~~L~~L~~~~gi~~~~r~~H~Al~Da~ 160 (230)
+++.++|+||+.||+.||++++.+.|.+... +++||+.+++.++|.. +++|++||++||++..+ +|+|+.||.
T Consensus 84 l~~~~lVaHN~~FD~~fL~~~~~~~g~~~~~----~~iDT~~la~~~~p~~~~~~L~~L~~~lgl~~~~--~H~Al~DA~ 157 (820)
T PRK07246 84 IEDCIFVAHNVKFDANLLAEALFLEGYELRT----PRVDTVELAQVFFPTLEKYSLSHLSRELNIDLAD--AHTAIADAR 157 (820)
T ss_pred hCCCEEEEECcHHHHHHHHHHHHHcCCCCCC----CceeHHHHHHHHhCCCCCCCHHHHHHHcCCCCCC--CCCHHHHHH
Confidence 9999999999999999999999888875332 4799999999999964 56999999999999875 799999999
Q ss_pred HHHHHHHHHHcCC
Q psy8196 161 LLAEVYLAMTRGQ 173 (230)
Q Consensus 161 ~~a~v~~~l~~~~ 173 (230)
+|++||..+..+.
T Consensus 158 ata~L~~~l~~~l 170 (820)
T PRK07246 158 ATAELFLKLLQKI 170 (820)
T ss_pred HHHHHHHHHHHHH
Confidence 9999999998664
No 31
>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=1.5e-31 Score=214.15 Aligned_cols=165 Identities=20% Similarity=0.240 Sum_probs=143.1
Q ss_pred eEEEEecCCCCCCCC----CCceEEEEEEEEECCEE-ecceeEEEEcCCC--CCChhhHhhcCCCHHHHhCCCCHHHHHH
Q psy8196 4 HIVLDIETTGLNIID----GHRIIEIGCVEIKNRQI-TGNNLHYYINPGR--DSEKSALAIHGLTTKFLKNKLKFSEIVD 76 (230)
Q Consensus 4 ~ivlD~ETTGl~~~~----~~~IieIg~v~~~~~~~-~~~~f~~~i~P~~--~i~~~a~~i~Git~e~l~~~~~~~ev~~ 76 (230)
||++|+||||+++.. +++|||||+|.++++.. ..+.|+.||+|.. .+++.+.++||||++++.++++|.++++
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 689999999999752 48999999999987653 4458999999987 8999999999999999999999999999
Q ss_pred HHHHhcCCC--eEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC-CCcHHHHHHHhCCCCCCCCCC
Q psy8196 77 NFLNYVSNS--EIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK-RNSLDALCDRYNISKIHRTLH 153 (230)
Q Consensus 77 ~~~~fl~~~--~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~-~~~L~~L~~~~gi~~~~r~~H 153 (230)
+|.+|+++. .+++||+.||..++..++.+.+..........++|+..+++..+|.. ..+|+++|++||++... ..|
T Consensus 81 ~~~~~l~~~~~~~~v~~~~~d~~~l~~~~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~~~~L~~l~~~~gi~~~~-~~H 159 (176)
T cd06133 81 EFLEWLGKNGKYAFVTWGDWDLKDLLQNQCKYKIINLPPFFRQWIDLKKEFAKFYGLKKRTGLSKALEYLGLEFEG-RHH 159 (176)
T ss_pred HHHHHHHhCCCeEEEeecHhhHHHHHHHHHHhcCCCCcccccceEEHHHHHHHHhCCCCCCCHHHHHHHCCCCCCC-CCc
Confidence 999999997 67888889999999888888776421222235899999999999875 67999999999999984 489
Q ss_pred CHHHHHHHHHHHHHHH
Q psy8196 154 GGLLDAELLAEVYLAM 169 (230)
Q Consensus 154 ~Al~Da~~~a~v~~~l 169 (230)
+|+.||+++++||.+|
T Consensus 160 ~Al~DA~~~a~l~~~~ 175 (176)
T cd06133 160 RGLDDARNIARILKRL 175 (176)
T ss_pred CcHHHHHHHHHHHHHh
Confidence 9999999999999987
No 32
>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=99.98 E-value=1.4e-31 Score=216.76 Aligned_cols=158 Identities=21% Similarity=0.231 Sum_probs=132.2
Q ss_pred EEEEecCCCCCCCCCCceEEEEEEEEECC-EEecceeEEEEcCCC--CCChhhHhhcCCCHHHHhC-CCCHHHHHHHHHH
Q psy8196 5 IVLDIETTGLNIIDGHRIIEIGCVEIKNR-QITGNNLHYYINPGR--DSEKSALAIHGLTTKFLKN-KLKFSEIVDNFLN 80 (230)
Q Consensus 5 ivlD~ETTGl~~~~~~~IieIg~v~~~~~-~~~~~~f~~~i~P~~--~i~~~a~~i~Git~e~l~~-~~~~~ev~~~~~~ 80 (230)
++||+||||+++.. ++|||||+|.++++ ... +.|+.+++|.. .+++++..+||||++++.+ ++++.+++.+|.+
T Consensus 1 ~~~D~ETTGl~~~~-d~Iieig~v~v~~~~~~~-~~~~~~v~p~~~~~~~~~a~~ihGIt~e~l~~~~~~~~~~l~~~~~ 78 (183)
T cd06138 1 LFYDYETFGLNPSF-DQILQFAAIRTDENFNEI-EPFNIFCRLPPDVLPSPEALIVTGITPQQLLKEGLSEYEFIAKIHR 78 (183)
T ss_pred CEEEeecCCCCCCC-CceEEEEEEEECCCCCCc-cceeEEEeCCCCCCCCHHHHHHhCCCHHHHHhcCCCHHHHHHHHHH
Confidence 58999999999986 89999999999875 444 57999999864 5788999999999999999 8999999999999
Q ss_pred hcC--CCeEEEEc-ccccHHHHHHHHHHcCCCCccc-c--cchHhHHHHHHHHHc---C----------C-CCCcHHHHH
Q psy8196 81 YVS--NSEIIIHN-AAFDVGFLDMELSLLGYSNFTK-Y--IYRITDTLLMARKIH---T----------G-KRNSLDALC 140 (230)
Q Consensus 81 fl~--~~~lV~hn-a~FD~~~L~~~l~~~g~~~~~~-~--~~~~iDtl~lar~~~---p----------~-~~~~L~~L~ 140 (230)
|+. +..+|+|| +.||+.||++++.+.+.+++.. + ....+||+.+++..+ | + .+++|++||
T Consensus 79 ~~~~~~~~lVahn~~~FD~~fL~~~~~r~~~~~~~~~~~~~~~~~dtl~l~r~~~~~~~~~~~~~~~~~~~~~~~L~~l~ 158 (183)
T cd06138 79 LFNTPGTCIVGYNNIRFDDEFLRFAFYRNLYDPYTWEWKNGNSRWDLLDVVRAYYALRPDGIVWPKNDDGKPSFKLEDLA 158 (183)
T ss_pred HHccCCCcEEeeCchhhHHHHHHHHHHHCCCcccceeccCCccccccHHHHHHHHhhChhhccCccccCCCcchhHHHHH
Confidence 995 46799998 6999999999999998764321 0 012578888887643 4 2 246899999
Q ss_pred HHhCCCCCCCCCCCHHHHHHHHHHHH
Q psy8196 141 DRYNISKIHRTLHGGLLDAELLAEVY 166 (230)
Q Consensus 141 ~~~gi~~~~r~~H~Al~Da~~~a~v~ 166 (230)
++||++..+ +|+|+.||++|++|.
T Consensus 159 ~~~gi~~~~--~H~Al~Da~~ta~l~ 182 (183)
T cd06138 159 QANGIEHSN--AHDALSDVEATIALA 182 (183)
T ss_pred HHCCCCccc--cccHHHHHHHHHHHh
Confidence 999999865 799999999999885
No 33
>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=99.97 E-value=7.1e-31 Score=255.37 Aligned_cols=163 Identities=25% Similarity=0.394 Sum_probs=150.8
Q ss_pred ceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhc
Q psy8196 3 RHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYV 82 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl 82 (230)
+||++|+||||++|.. ++|||||+|.++++++.. .|+.+|+|..++++.+.++||||++++.++|.|.+++.+|.+|+
T Consensus 1 ~~vvvD~ETTG~~~~~-~~IIeig~v~v~~~~i~~-~f~~~v~P~~~i~~~~~~ltGIt~e~l~~ap~~~ev~~~l~~~l 78 (850)
T TIGR01407 1 RYAVVDLETTGTQLSF-DKIIQIGIVVVEDGEIVD-TFHTDVNPNEPIPPFIQELTGISDNMLQQAPYFSQVAQEIYDLL 78 (850)
T ss_pred CEEEEEEECCCCCCCC-CeEEEEEEEEEECCEEEE-EEEEEeCCCCCCChhhhhhcCcCHHHHhCCCCHHHHHHHHHHHh
Confidence 5899999999999885 999999999999888774 79999999999999999999999999999999999999999999
Q ss_pred CCCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC-CCcHHHHHHHhCCCCCCCCCCCHHHHHHH
Q psy8196 83 SNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK-RNSLDALCDRYNISKIHRTLHGGLLDAEL 161 (230)
Q Consensus 83 ~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~-~~~L~~L~~~~gi~~~~r~~H~Al~Da~~ 161 (230)
++.++|+||+.||+.||++++.+.|.+++. ..++||+.+++.++|.. +++|++||++||++..+ +|+|+.||.+
T Consensus 79 ~~~~~VahN~~fD~~fL~~~~~~~g~~~~~---~~~iDt~~l~~~~~p~~~~~~L~~l~~~~gi~~~~--~H~Al~DA~a 153 (850)
T TIGR01407 79 EDGIFVAHNVHFDLNFLAKALKDCGYEPLP---KPRIDTVELAQIFFPTEESYQLSELSEALGLTHEN--PHRADSDAQA 153 (850)
T ss_pred CCCEEEEeCcHHHHHHHHHHHHHcCCCCCC---CCeEeHHHHHHHhcCCCCCCCHHHHHHHCCCCCCC--CCChHHHHHH
Confidence 999999999999999999999999987544 24899999999999964 56999999999999875 8999999999
Q ss_pred HHHHHHHHHcC
Q psy8196 162 LAEVYLAMTRG 172 (230)
Q Consensus 162 ~a~v~~~l~~~ 172 (230)
|++||+++..+
T Consensus 154 ta~l~~~l~~~ 164 (850)
T TIGR01407 154 TAELLLLLFEK 164 (850)
T ss_pred HHHHHHHHHHH
Confidence 99999999765
No 34
>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=99.97 E-value=8.8e-31 Score=258.45 Aligned_cols=163 Identities=29% Similarity=0.532 Sum_probs=151.3
Q ss_pred ceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhc
Q psy8196 3 RHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYV 82 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl 82 (230)
++|+||+||||+++.. ++|||||+|.++++.+.+ .|+.+|+|..++++.++++||||++++.+++++.+++.+|.+|+
T Consensus 191 ~~VVfDiETTGL~~~~-d~IIEIGAVkv~~g~iid-~f~~~V~P~~~I~~~~~~ltGIT~e~L~~ap~~~evl~~f~~fl 268 (1213)
T TIGR01405 191 TYVVFDIETTGLSPQY-DEIIEFGAVKVKNGRIID-KFQFFIKPHEPLSAFVTELTGITQDMLENAPEIEEVLEKFKEFF 268 (1213)
T ss_pred cEEEEEeEecCCCCCC-CeEEEEEEEEEECCeEEE-EEEEEECCCCCCCHHHHHHhCCCHHHHhCCCCHHHHHHHHHHHh
Confidence 6899999999999986 999999999999987764 79999999999999999999999999999999999999999999
Q ss_pred CCCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC-CCcHHHHHHHhCCCCCCCCCCCHHHHHHH
Q psy8196 83 SNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK-RNSLDALCDRYNISKIHRTLHGGLLDAEL 161 (230)
Q Consensus 83 ~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~-~~~L~~L~~~~gi~~~~r~~H~Al~Da~~ 161 (230)
+++++|+||+.||++||++++.++|++++. ..++||+.+++.++|+. .++|++||++||++..+ +|+|+.||.+
T Consensus 269 ~~~iLVaHNa~FD~~fL~~~~~r~g~~~~~---~~~IDTl~lar~l~p~~k~~kL~~Lak~lgi~~~~--~HrAl~DA~a 343 (1213)
T TIGR01405 269 KDSILVAHNASFDIGFLNTNFEKVGLEPLE---NPVIDTLELARALNPEYKSHRLGNICKKLGVDLDD--HHRADYDAEA 343 (1213)
T ss_pred CCCeEEEEChHHHHHHHHHHHHHcCCCccC---CCEeEHHHHHHHHhccCCCCCHHHHHHHcCCCCCC--CcCHHHHHHH
Confidence 999999999999999999999999987544 35899999999999865 56999999999999986 8999999999
Q ss_pred HHHHHHHHHcC
Q psy8196 162 LAEVYLAMTRG 172 (230)
Q Consensus 162 ~a~v~~~l~~~ 172 (230)
|++||..|+..
T Consensus 344 Ta~I~~~ll~~ 354 (1213)
T TIGR01405 344 TAKVFKVMVEQ 354 (1213)
T ss_pred HHHHHHHHHHH
Confidence 99999998744
No 35
>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=99.97 E-value=8e-32 Score=213.94 Aligned_cols=147 Identities=22% Similarity=0.321 Sum_probs=127.9
Q ss_pred EEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCC-------HHHHHHH
Q psy8196 5 IVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLK-------FSEIVDN 77 (230)
Q Consensus 5 ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~-------~~ev~~~ 77 (230)
|+||+||||++|.. ++|||||+|.+.++.+. |+.|++|..+++++.+++||||++++.++|+ |.+++++
T Consensus 1 v~lD~EttGl~~~~-d~ii~Ig~V~v~~g~i~---~~~~v~P~~~i~~~~~~i~GIt~~~l~~a~~~~~~~~~~~~~~~~ 76 (161)
T cd06137 1 VALDCEMVGLADGD-SEVVRISAVDVLTGEVL---IDSLVRPSVRVTDWRTRFSGVTPADLEEAAKAGKTIFGWEAARAA 76 (161)
T ss_pred CEEEeeeeeEcCCC-CEEEEEEEEEcCCCeEE---EeccccCCCCCCccceeccCCCHHHHhhhhhcCCccccHHHHHHH
Confidence 58999999999974 99999999999777654 8899999999999999999999999998875 4589999
Q ss_pred HHHhcCC-CeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC----CCcHHHHHHH-hCCCCCC-C
Q psy8196 78 FLNYVSN-SEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK----RNSLDALCDR-YNISKIH-R 150 (230)
Q Consensus 78 ~~~fl~~-~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~----~~~L~~L~~~-~gi~~~~-r 150 (230)
|.+|+++ .++||||+.||+.||+.. . ..++||+.+++.++|.. +++|+.||++ ||++... .
T Consensus 77 ~~~~i~~~~vlVgHn~~fD~~fL~~~---------~---~~~iDT~~l~~~~~~~~~~~~~~~L~~L~~~~~~~~~~~~~ 144 (161)
T cd06137 77 LWKFIDPDTILVGHSLQNDLDALRMI---------H---TRVVDTAILTREAVKGPLAKRQWSLRTLCRDFLGLKIQGGG 144 (161)
T ss_pred HHHhcCCCcEEEeccHHHHHHHHhCc---------C---CCeeEehhhhhhccCCCcCCCCccHHHHHHHHCCchhcCCC
Confidence 9999998 889999999999999741 1 14899999999999864 5799999997 6887643 3
Q ss_pred CCCCHHHHHHHHHHHHH
Q psy8196 151 TLHGGLLDAELLAEVYL 167 (230)
Q Consensus 151 ~~H~Al~Da~~~a~v~~ 167 (230)
..|+|+.||.+|++||+
T Consensus 145 ~~H~A~~DA~at~~l~~ 161 (161)
T cd06137 145 EGHDSLEDALAAREVVL 161 (161)
T ss_pred CCCCcHHHHHHHHHHhC
Confidence 47999999999999985
No 36
>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=99.97 E-value=1.2e-29 Score=198.18 Aligned_cols=157 Identities=38% Similarity=0.575 Sum_probs=139.4
Q ss_pred EEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhcCC
Q psy8196 5 IVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYVSN 84 (230)
Q Consensus 5 ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl~~ 84 (230)
|++|+||||++|.. ++|||||++.++++......|+.|++|+..+++.+.++|||+++.+.+++++.+++.+|.+|+.+
T Consensus 1 v~~D~Ettg~~~~~-~~iiei~~v~~~~~~~~~~~~~~~i~p~~~~~~~~~~~~gi~~~~~~~~~~~~~~~~~~~~~l~~ 79 (159)
T cd06127 1 VVFDTETTGLDPKK-DRIIEIGAVKVDGGIEIVERFETLVNPGRPIPPEATAIHGITDEMLADAPPFEEVLPEFLEFLGG 79 (159)
T ss_pred CeEEeeCCCcCCCC-CeEEEEEEEEEECCcChhhhhheeeCcCCcCCHhheeccCCCHHHHhcCCCHHHHHHHHHHHHCC
Confidence 58999999999875 89999999999876333457999999999999999999999999999999999999999999999
Q ss_pred CeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCC-CcHHHH-HHHhCCCCCCCCCCCHHHHHHHH
Q psy8196 85 SEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKR-NSLDAL-CDRYNISKIHRTLHGGLLDAELL 162 (230)
Q Consensus 85 ~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~-~~L~~L-~~~~gi~~~~r~~H~Al~Da~~~ 162 (230)
..+|+||+.||..+|++++.++|.+.+. ..++||+.+++.+++..+ .++..+ ++.+|++..+ +|+|+.||.++
T Consensus 80 ~~~v~~n~~fD~~~l~~~~~~~~~~~~~---~~~iDt~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~--~H~Al~Da~~t 154 (159)
T cd06127 80 RVLVAHNASFDLRFLNRELRRLGGPPLP---NPWIDTLRLARRLLPGLRSHRLGLLLAERYGIPLEG--AHRALADALAT 154 (159)
T ss_pred CEEEEeCcHhhHHHHHHHHHHhCCCCCC---CCeeEHHHHHHHHcCCCCcCchHHHHHHHcCCCCCC--CCCcHHHHHHH
Confidence 9999999999999999999998844333 248999999999998654 588888 8999998764 89999999999
Q ss_pred HHHHH
Q psy8196 163 AEVYL 167 (230)
Q Consensus 163 a~v~~ 167 (230)
++||.
T Consensus 155 ~~l~~ 159 (159)
T cd06127 155 AELLL 159 (159)
T ss_pred HHHhC
Confidence 99983
No 37
>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=99.96 E-value=2.6e-29 Score=197.32 Aligned_cols=144 Identities=18% Similarity=0.234 Sum_probs=122.9
Q ss_pred EEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCC-CHHHHHHHHHHhcC
Q psy8196 5 IVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKL-KFSEIVDNFLNYVS 83 (230)
Q Consensus 5 ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~-~~~ev~~~~~~fl~ 83 (230)
+++|+||||+.+. ++|++||+|...+.. .|+.||+|..++++.++++||||++++.++| +|.+++.+|.+|++
T Consensus 1 ~~iD~E~~g~~~g--~ei~~i~~v~~~~~~----~f~~lv~P~~~i~~~~t~itGIt~~~l~~a~~~~~~v~~~~~~fl~ 74 (150)
T cd06145 1 FALDCEMCYTTDG--LELTRVTVVDENGKV----VLDELVKPDGEIVDYNTRFSGITEEMLENVTTTLEDVQKKLLSLIS 74 (150)
T ss_pred CEEeeeeeeecCC--CEEEEEEEEeCCCCE----EEEEeECCCCccchhccCcCCCCHHHhccCCCCHHHHHHHHHHHhC
Confidence 5899999999874 899999999874432 4999999999999999999999999999995 99999999999997
Q ss_pred -CCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC-CCcHHHHHHHh-CCCCCC-CCCCCHHHHH
Q psy8196 84 -NSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK-RNSLDALCDRY-NISKIH-RTLHGGLLDA 159 (230)
Q Consensus 84 -~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~-~~~L~~L~~~~-gi~~~~-r~~H~Al~Da 159 (230)
+.++||||+.||+.||+.. ...++||+.+++.++|.. +++|+.||++| +..... ...|+|+.||
T Consensus 75 ~~~vlVgHn~~fD~~fL~~~------------~~~~iDT~~l~r~~~~~~~~~~L~~L~~~~~~~~i~~~~~~H~Al~DA 142 (150)
T cd06145 75 PDTILVGHSLENDLKALKLI------------HPRVIDTAILFPHPRGPPYKPSLKNLAKKYLGRDIQQGEGGHDSVEDA 142 (150)
T ss_pred CCCEEEEcChHHHHHHhhcc------------CCCEEEcHHhccccCCCCCChhHHHHHHHHCCcceeCCCCCCCcHHHH
Confidence 7899999999999999631 123799999999887644 46999999998 543321 2479999999
Q ss_pred HHHHHHH
Q psy8196 160 ELLAEVY 166 (230)
Q Consensus 160 ~~~a~v~ 166 (230)
.++++||
T Consensus 143 ~~t~~l~ 149 (150)
T cd06145 143 RAALELV 149 (150)
T ss_pred HHHHHHh
Confidence 9999998
No 38
>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=99.96 E-value=2.8e-29 Score=198.57 Aligned_cols=148 Identities=19% Similarity=0.214 Sum_probs=120.9
Q ss_pred EEEEecCCCCCCCC-CCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhcC
Q psy8196 5 IVLDIETTGLNIID-GHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYVS 83 (230)
Q Consensus 5 ivlD~ETTGl~~~~-~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl~ 83 (230)
|+||+||||++|.. .++|++|++|...+ .. .|+.+|+|..+++++.+++||||++++.++|++.+++.+|.+|++
T Consensus 1 v~~D~EttGl~~~~~~~~i~~i~~v~~~g-~~---~~~~lv~P~~~i~~~~~~i~GIt~~~l~~a~~~~~v~~~l~~~l~ 76 (157)
T cd06149 1 VAIDCEMVGTGPGGRESELARCSIVNYHG-DV---LYDKYIRPEGPVTDYRTRWSGIRRQHLVNATPFAVAQKEILKILK 76 (157)
T ss_pred CEEEeEeccccCCCCeEEEEEEEEEeCCC-CE---EEEEeECCCCccCccceECCCCCHHHHhcCCCHHHHHHHHHHHcC
Confidence 58999999999861 16888888887644 33 389999999999999999999999999999999999999999999
Q ss_pred CCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHH--HHHHH--cCCC-CCcHHHHHHHh---CCCCCCCCCCCH
Q psy8196 84 NSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLL--MARKI--HTGK-RNSLDALCDRY---NISKIHRTLHGG 155 (230)
Q Consensus 84 ~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~--lar~~--~p~~-~~~L~~L~~~~---gi~~~~r~~H~A 155 (230)
+.++|+||+.||+.||+.. .++. .++||.. ++++. +|.. +++|+.||++| +++... ..|+|
T Consensus 77 ~~vlV~Hn~~~D~~~l~~~-----~~~~-----~~~Dt~~l~~~~~~~~~p~~~~~~L~~L~~~~~~~~i~~~~-~~H~A 145 (157)
T cd06149 77 GKVVVGHAIHNDFKALKYF-----HPKH-----MTRDTSTIPLLNRKAGFPENCRVSLKVLAKRLLHRDIQVGR-QGHSS 145 (157)
T ss_pred CCEEEEeCcHHHHHHhccc-----CCCc-----CEEECcccccchhhcCCcccCChhHHHHHHHHcChhhcCCC-CCcCc
Confidence 9999999999999999743 1111 2456644 35544 7864 46999999999 666543 37999
Q ss_pred HHHHHHHHHHHH
Q psy8196 156 LLDAELLAEVYL 167 (230)
Q Consensus 156 l~Da~~~a~v~~ 167 (230)
+.||++|+++|.
T Consensus 146 l~DA~at~~l~~ 157 (157)
T cd06149 146 VEDARATMELYK 157 (157)
T ss_pred HHHHHHHHHHhC
Confidence 999999999983
No 39
>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=99.96 E-value=2e-29 Score=198.40 Aligned_cols=147 Identities=21% Similarity=0.271 Sum_probs=118.8
Q ss_pred EEEEecCCCCCCCCCCceEEEEEEEEEC--CEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhc
Q psy8196 5 IVLDIETTGLNIIDGHRIIEIGCVEIKN--RQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYV 82 (230)
Q Consensus 5 ivlD~ETTGl~~~~~~~IieIg~v~~~~--~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl 82 (230)
|++|+||||++|. ++++||+.|.+.+ +.. .|+.|++|..++++.++++||||++++.++|+|.+++.+|.+|+
T Consensus 1 v~lD~EttGl~~~--~~~~~i~~v~~v~~~~~~---~~~~~v~P~~~i~~~~~~ihGIt~~~v~~a~~~~~~~~~l~~~l 75 (152)
T cd06144 1 VALDCEMVGVGPD--GSESALARVSIVNEDGNV---VYDTYVKPQEPVTDYRTAVSGIRPEHLKDAPDFEEVQKKVAELL 75 (152)
T ss_pred CEEEEEeecccCC--CCEEEEEEEEEEeCCCCE---EEEEEECCCCCCCcccccCCCCCHHHHcCCCCHHHHHHHHHHHh
Confidence 5899999999986 4677776554443 222 49999999999999999999999999999999999999999999
Q ss_pred CCCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcC--CCCCcHHHHHHH-hCCCCCCCCCCCHHHHH
Q psy8196 83 SNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHT--GKRNSLDALCDR-YNISKIHRTLHGGLLDA 159 (230)
Q Consensus 83 ~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p--~~~~~L~~L~~~-~gi~~~~r~~H~Al~Da 159 (230)
++.++|+||+.||+.||+. ..+. ..++||+.+.+...+ ..+++|++||++ ||++... ..|+|+.||
T Consensus 76 ~~~vlVgHn~~fD~~~L~~-----~~~~-----~~~~dt~~l~~~~~~~~~~~~sL~~l~~~~lgi~~~~-~~H~Al~DA 144 (152)
T cd06144 76 KGRILVGHALKNDLKVLKL-----DHPK-----KLIRDTSKYKPLRKTAKGKSPSLKKLAKQLLGLDIQE-GEHSSVEDA 144 (152)
T ss_pred CCCEEEEcCcHHHHHHhcC-----cCCC-----ccEEEeEEeeccccccCCCChhHHHHHHHHcCcccCC-CCcCcHHHH
Confidence 9999999999999999962 2221 125677665444433 456799999998 5998753 379999999
Q ss_pred HHHHHHHH
Q psy8196 160 ELLAEVYL 167 (230)
Q Consensus 160 ~~~a~v~~ 167 (230)
.+|++||.
T Consensus 145 ~at~~l~~ 152 (152)
T cd06144 145 RAAMRLYR 152 (152)
T ss_pred HHHHHHhC
Confidence 99999983
No 40
>PRK09182 DNA polymerase III subunit epsilon; Validated
Probab=99.96 E-value=3.6e-28 Score=209.49 Aligned_cols=157 Identities=22% Similarity=0.228 Sum_probs=123.3
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEE---CCEE--ecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHH
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIK---NRQI--TGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVD 76 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~---~~~~--~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~ 76 (230)
+++|+||+||||++|.. ++|||||+|.++ ++.+ ....|+.+++|..++++++++|||||++++.+++...+.
T Consensus 37 ~~~vvlD~ETTGLd~~~-d~IIEIg~V~v~~~~~g~i~~v~~~~~~lv~P~~~I~~~~t~IhGIt~e~v~~~~~~~~~-- 113 (294)
T PRK09182 37 RLGVILDTETTGLDPRK-DEIIEIGMVAFEYDDDGRIGDVLDTFGGLQQPSRPIPPEITRLTGITDEMVAGQTIDPAA-- 113 (294)
T ss_pred CeEEEEEeeCCCCCCCC-CeEEEEEEEEEEecCCCceeeeeeEEEEEeCCCCCCCHHHHHhcCCCHHHHhcCCCcHHH--
Confidence 46899999999999986 999999999997 3332 335799999999999999999999999999999875544
Q ss_pred HHHHhcCCC-eEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCC-CCCcHHHHHHHhCCCCCCCCCCC
Q psy8196 77 NFLNYVSNS-EIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTG-KRNSLDALCDRYNISKIHRTLHG 154 (230)
Q Consensus 77 ~~~~fl~~~-~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~-~~~~L~~L~~~~gi~~~~r~~H~ 154 (230)
+.+|++.+ .+|+||+.||++||++.+....-. .+.|++.......++ .+++|++||.+|| ... .+|+
T Consensus 114 -l~~fl~~~~vlVAHNA~FD~~fL~~~~~~~~~~-------~~~ct~~~i~~~~~~~~~~kL~~La~~~g-~~~--~aHr 182 (294)
T PRK09182 114 -VDALIAPADLIIAHNAGFDRPFLERFSPVFATK-------PWACSVSEIDWSARGFEGTKLGYLAGQAG-FFH--EGHR 182 (294)
T ss_pred -HHHHhcCCCEEEEeCHHHHHHHHHHHHHhccCC-------cccccHHHHhhccccCCCCCHHHHHHHcC-CCC--CCcC
Confidence 45566554 789999999999999876554321 134445443333343 4569999999999 433 3799
Q ss_pred HHHHHHHHHHHHHHHHcC
Q psy8196 155 GLLDAELLAEVYLAMTRG 172 (230)
Q Consensus 155 Al~Da~~~a~v~~~l~~~ 172 (230)
|+.||.+|++|+.+++..
T Consensus 183 Al~Da~Ata~ll~~~l~~ 200 (294)
T PRK09182 183 AVDDCQALLELLARPLPE 200 (294)
T ss_pred hHHHHHHHHHHHHHHHhh
Confidence 999999999999987643
No 41
>PRK11779 sbcB exonuclease I; Provisional
Probab=99.96 E-value=7.9e-28 Score=218.59 Aligned_cols=172 Identities=19% Similarity=0.176 Sum_probs=140.8
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEECCE-EecceeEEEEcCCC--CCChhhHhhcCCCHHHHhCCC-CHHHHHHH
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQ-ITGNNLHYYINPGR--DSEKSALAIHGLTTKFLKNKL-KFSEIVDN 77 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~-~~~~~f~~~i~P~~--~i~~~a~~i~Git~e~l~~~~-~~~ev~~~ 77 (230)
++++++|+||||++|.. ++|||||+|.++++. ..++.|+.|++|.. .+++++..|||||++++.+++ +..+++.+
T Consensus 6 ~~fvv~D~ETTGLdP~~-DrIIeiAaVrvd~~~~~i~e~~~~~~~P~~~~lp~p~a~~IhGIT~e~l~~~g~~e~e~~~~ 84 (476)
T PRK11779 6 PTFLWHDYETFGANPAL-DRPAQFAGIRTDADLNIIGEPLVFYCKPADDYLPSPEAVLITGITPQEALEKGLPEAEFAAR 84 (476)
T ss_pred CcEEEEEEECCCCCCCC-CeeEEEEEEEEeCCCceecceeEEEEcCCcCcCCCHHHHHHhCCCHHHHHhcCCCHHHHHHH
Confidence 68999999999999986 999999999998753 44567999999975 457899999999999997655 78999999
Q ss_pred HHHhcC--CCeEEEEc-ccccHHHHHHHHHHcCCCCc----cccc--chHhHHHHHHHHHcC----------C-CCCcHH
Q psy8196 78 FLNYVS--NSEIIIHN-AAFDVGFLDMELSLLGYSNF----TKYI--YRITDTLLMARKIHT----------G-KRNSLD 137 (230)
Q Consensus 78 ~~~fl~--~~~lV~hn-a~FD~~~L~~~l~~~g~~~~----~~~~--~~~iDtl~lar~~~p----------~-~~~~L~ 137 (230)
|.+|+. +..+|||| +.||..||++.+.+..+.+. ..-+ .+++|++.+++.+.| + .+++|+
T Consensus 85 i~~~l~~~~~~lVGhNni~FD~eflr~~~~r~~~d~y~~~~~~~n~r~D~LDl~rl~~~lrp~~i~~P~~~~g~~s~rLe 164 (476)
T PRK11779 85 IHAEFSQPGTCILGYNNIRFDDEVTRYIFYRNFYDPYAREWQNGNSRWDLLDVVRACYALRPEGINWPENEDGLPSFKLE 164 (476)
T ss_pred HHHHHhcCCCEEEEeCchhhcHHHHHHHHHhccchHHHHHhcCCCCccCHHHHHHHHHHhccccccCcccccCCCCCcHH
Confidence 999995 67799998 58999999999977654422 0001 135666666666433 2 346999
Q ss_pred HHHHHhCCCCCCCCCCCHHHHHHHHHHHHHHHHcCCCcc
Q psy8196 138 ALCDRYNISKIHRTLHGGLLDAELLAEVYLAMTRGQSNL 176 (230)
Q Consensus 138 ~L~~~~gi~~~~r~~H~Al~Da~~~a~v~~~l~~~~~~l 176 (230)
+||++||++..+ +|+|+.||.+|++|+..+..+|+.+
T Consensus 165 ~L~~~~gI~~~~--AHdALsDa~aT~~la~~l~~~qP~l 201 (476)
T PRK11779 165 HLTKANGIEHEN--AHDAMSDVYATIAMAKLIKQKQPKL 201 (476)
T ss_pred HHHHHcCCCCCC--CCCcHHHHHHHHHHHHHHHHhChHH
Confidence 999999999876 8999999999999999999998887
No 42
>PTZ00315 2'-phosphotransferase; Provisional
Probab=99.96 E-value=9.8e-28 Score=219.77 Aligned_cols=172 Identities=15% Similarity=0.208 Sum_probs=142.2
Q ss_pred CceEEEEecCCCCCCC--CCCceEEEEEEEEE--CCEEecceeEEEEcCCC--CCChhhHhhcCCCHHHHhCCCCHHHHH
Q psy8196 2 HRHIVLDIETTGLNII--DGHRIIEIGCVEIK--NRQITGNNLHYYINPGR--DSEKSALAIHGLTTKFLKNKLKFSEIV 75 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~--~~~~IieIg~v~~~--~~~~~~~~f~~~i~P~~--~i~~~a~~i~Git~e~l~~~~~~~ev~ 75 (230)
..||+||+||||+++. ..++|||||+|.++ +++++ ..|+.||+|.. .++++++++||||++++.++|+|.+++
T Consensus 56 d~~IV~DlETTgl~~~~~~~dEIIEIGaV~Vd~~ng~Ii-~~F~~yVkP~~~p~Ls~fct~LTGITqe~V~~Ap~F~eVl 134 (582)
T PTZ00315 56 DAYVVLDFEATCEADRRIEDAEVIEFPMVLVDARTATPV-AEFQRYVRPVKNPVLSRFCTELTGITQSMVSRADPFPVVY 134 (582)
T ss_pred CeEEEEEEecCCCCCCCCCCCceEEEEEEEEEccCCEEE-EEEEEEECCCCCCCCChhHhhhcCcCHHHHhcCCCHHHHH
Confidence 5789999999999864 24799999999997 66666 47999999976 799999999999999999999999999
Q ss_pred HHHHHhcCCC----------eEEEEcccccH-HHHHHHHHH---cCCCCcccccchHhHH-HHHHHHHcCC---------
Q psy8196 76 DNFLNYVSNS----------EIIIHNAAFDV-GFLDMELSL---LGYSNFTKYIYRITDT-LLMARKIHTG--------- 131 (230)
Q Consensus 76 ~~~~~fl~~~----------~lV~hna~FD~-~~L~~~l~~---~g~~~~~~~~~~~iDt-l~lar~~~p~--------- 131 (230)
.+|.+|+++. .+|+||+.||+ .||..++.. .+++... ..++|. ..+++.++|.
T Consensus 135 ~ef~~fL~~~~~~e~~~~~~~~vah~g~fDl~~fL~~e~~~~~~~g~p~~f---~~widLk~~lar~l~p~~~~~~~~~~ 211 (582)
T PTZ00315 135 CEALQFLAEAGLGDAPPLRSYCVVTCGDWDLKTMLPSQMRVSGQQGTPLSF---QRWCNLKKYMSQLGFGNGSGCGGGAT 211 (582)
T ss_pred HHHHHHHhccccccccccCceEEEeccHHHHHHHHHHHHHHhhhcCCCccc---ceEEEhHHHHHHHhCccccccccccc
Confidence 9999999754 48999999999 599998874 4554211 225553 3577777773
Q ss_pred ---CCCcHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHHHHHHcCCCcccc
Q psy8196 132 ---KRNSLDALCDRYNISKIHRTLHGGLLDAELLAEVYLAMTRGQSNLNF 178 (230)
Q Consensus 132 ---~~~~L~~L~~~~gi~~~~r~~H~Al~Da~~~a~v~~~l~~~~~~l~~ 178 (230)
.+++|+++++.+|++..++ .|+|++||+.+|+||.+|+..+.-+..
T Consensus 212 ~~~~~~~L~~al~~lgL~~eGr-~HrAlDDA~ntA~L~~~Ll~~g~~~~~ 260 (582)
T PTZ00315 212 PPLGPSDMPDMLQMLGLPLQGR-HHSGIDDCRNIAAVLCELLRRGLVIDP 260 (582)
T ss_pred cccCCcCHHHHHHHCCCCCCCC-CcCcHHHHHHHHHHHHHHHHcCCEEEe
Confidence 3469999999999998874 899999999999999999977654433
No 43
>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=99.95 E-value=7.2e-28 Score=193.39 Aligned_cols=153 Identities=22% Similarity=0.275 Sum_probs=126.9
Q ss_pred eEEEEecCCCCCCCCCCceEEEEEEEEECCE-EecceeEEEEcCCCCC----ChhhHhhc---CCCHHHHhCCCCHHHHH
Q psy8196 4 HIVLDIETTGLNIIDGHRIIEIGCVEIKNRQ-ITGNNLHYYINPGRDS----EKSALAIH---GLTTKFLKNKLKFSEIV 75 (230)
Q Consensus 4 ~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~-~~~~~f~~~i~P~~~i----~~~a~~i~---Git~e~l~~~~~~~ev~ 75 (230)
++++|+||||++|.. ++|||||+|.++++. .....|+.+++|...+ ++.+..+| ||+++++.++|++.+++
T Consensus 1 lv~iD~ETTGl~p~~-d~IieIgaV~~~~~~~~i~~~f~~~i~p~~~~~~~~~~~~~~ih~~tgIt~~~l~~~~~~~~vl 79 (173)
T cd06135 1 LVWIDLEMTGLDPEK-DRILEIACIITDGDLNIIAEGPELVIHQPDEVLDGMDEWCTEMHTKSGLTERVRASTVTLAQAE 79 (173)
T ss_pred CEEEEEecCCCCCCC-CeeEEEEEEEEeCCCceecCceeEEECCCHHHhhhccHHHHHcccccccHHHHHhCCCCHHHHH
Confidence 479999999999975 999999999998753 3456899999998644 46777886 99999999999999999
Q ss_pred HHHHHhcCC------CeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHH---HHHHHHHcCCCCCcHHHHHHHhCCC
Q psy8196 76 DNFLNYVSN------SEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDT---LLMARKIHTGKRNSLDALCDRYNIS 146 (230)
Q Consensus 76 ~~~~~fl~~------~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDt---l~lar~~~p~~~~~L~~L~~~~gi~ 146 (230)
.+|.+|+++ ..+++||+.||+.||++++.++|.+ +. .+.+|+ +.+++.++|...+ ++++
T Consensus 80 ~~~~~f~~~~~~~~~~~lvgh~~~FD~~fL~~~~~~~~~~-~~---~~~~D~~~l~~l~~~l~p~~~~--------~~~~ 147 (173)
T cd06135 80 AELLEFIKKYVPKGKSPLAGNSVHQDRRFLDKYMPELEEY-LH---YRILDVSSIKELARRWYPEIYR--------KAPK 147 (173)
T ss_pred HHHHHHHHHhcCCCCCceeecchhhCHHHHHHHHHHHhcc-CC---cchhhHHHHHHHHHHhCcHhhh--------cCCC
Confidence 999999975 4688999999999999999998843 22 235676 7799999986542 5666
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHc
Q psy8196 147 KIHRTLHGGLLDAELLAEVYLAMTR 171 (230)
Q Consensus 147 ~~~r~~H~Al~Da~~~a~v~~~l~~ 171 (230)
... .|+|++||.+++.+|..+..
T Consensus 148 ~~~--~HrAl~Da~~~~~~~~~~~~ 170 (173)
T cd06135 148 KKG--THRALDDIRESIAELKYYRE 170 (173)
T ss_pred CCC--CcchHHHHHHHHHHHHHHHH
Confidence 654 79999999999999998764
No 44
>PRK05359 oligoribonuclease; Provisional
Probab=99.95 E-value=1.6e-27 Score=192.57 Aligned_cols=156 Identities=22% Similarity=0.224 Sum_probs=130.6
Q ss_pred CCceEEEEecCCCCCCCCCCceEEEEEEEEECCE-EecceeEEEEcCCCC----CChhhHhhc---CCCHHHHhCCCCHH
Q psy8196 1 MHRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQ-ITGNNLHYYINPGRD----SEKSALAIH---GLTTKFLKNKLKFS 72 (230)
Q Consensus 1 M~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~-~~~~~f~~~i~P~~~----i~~~a~~i~---Git~e~l~~~~~~~ 72 (230)
+.++|++|+||||++|.. ++|||||||.++++. .....|+.+++|... +++.+..+| |||++++.+++++.
T Consensus 2 ~~~~vvlD~ETTGLdp~~-d~IieIgaV~~~~~~~~~~~~~~~~i~~~~~~l~~~~~~~~~ih~~tGIt~~~l~~~~~~~ 80 (181)
T PRK05359 2 EDNLIWIDLEMTGLDPER-DRIIEIATIVTDADLNILAEGPVIAIHQSDEALAAMDEWNTRTHTRSGLIDRVRASTVSEA 80 (181)
T ss_pred CCcEEEEEeecCCCCCCC-CeEEEEEEEEEcCCceEcccceEEEECCCHHHhhccChHHHHhcccccCcHHHHhcCCCHH
Confidence 468999999999999986 999999999998754 344679999999754 588899998 89999999999999
Q ss_pred HHHHHHHHhcC------CCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhH--HH-HHHHHHcCCCCCcHHHHHHHh
Q psy8196 73 EIVDNFLNYVS------NSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITD--TL-LMARKIHTGKRNSLDALCDRY 143 (230)
Q Consensus 73 ev~~~~~~fl~------~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iD--tl-~lar~~~p~~~~~L~~L~~~~ 143 (230)
+++.+|.+|++ ++++++||+.||+.||++++.+++.. +. .+++| |+ .++|.++|.. .+
T Consensus 81 e~~~~~l~fl~~~~~~~~~~l~g~~v~FD~~FL~~~~~~~~~~-l~---~~~~Dv~tl~~l~r~~~P~~---------~~ 147 (181)
T PRK05359 81 EAEAQTLEFLKQWVPAGKSPLCGNSIGQDRRFLARYMPELEAY-FH---YRNLDVSTLKELARRWKPEI---------LN 147 (181)
T ss_pred HHHHHHHHHHHHhcCCCCCceeecchhhCHHHHHHHHHHhccc-CC---CcccchhHHHHHHHHhChhh---------hh
Confidence 99999999995 57899999999999999999887754 22 23445 78 7999999963 35
Q ss_pred CCCCCCCCCCCHHHHHHHHHHHHHHHHcC
Q psy8196 144 NISKIHRTLHGGLLDAELLAEVYLAMTRG 172 (230)
Q Consensus 144 gi~~~~r~~H~Al~Da~~~a~v~~~l~~~ 172 (230)
+++... .|+|+.||..+.+.|..+...
T Consensus 148 ~~~~~~--~HRal~D~~~s~~~~~~~~~~ 174 (181)
T PRK05359 148 GFKKQG--THRALADIRESIAELKYYREH 174 (181)
T ss_pred CCCCcC--CcccHHHHHHHHHHHHHHHHH
Confidence 777665 799999999999998877643
No 45
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=99.95 E-value=3e-27 Score=236.04 Aligned_cols=163 Identities=29% Similarity=0.541 Sum_probs=150.9
Q ss_pred ceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhc
Q psy8196 3 RHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYV 82 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl 82 (230)
++|++|+||||+++.. ++|||||++.++++.+. ..|+.|++|..++++.++++||||++++.+++++.+++..|.+|+
T Consensus 420 ~~VVfDLETTGL~~~~-deIIEIgAV~V~~G~ii-e~F~~~V~P~~~I~~~~~~LTGIT~e~L~~aps~~EaL~~f~~fi 497 (1437)
T PRK00448 420 TYVVFDVETTGLSAVY-DEIIEIGAVKIKNGEII-DKFEFFIKPGHPLSAFTTELTGITDDMVKDAPSIEEVLPKFKEFC 497 (1437)
T ss_pred cEEEEEhhhcCCCCch-hhhheeeeEEEeCCeEe-eeEEEEECCCCCCCHHHHHHhCCCHHHHcCCCCHHHHHHHHHHHh
Confidence 6899999999999986 99999999999988776 479999999999999999999999999999999999999999999
Q ss_pred CCCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC-CCcHHHHHHHhCCCCCCCCCCCHHHHHHH
Q psy8196 83 SNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK-RNSLDALCDRYNISKIHRTLHGGLLDAEL 161 (230)
Q Consensus 83 ~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~-~~~L~~L~~~~gi~~~~r~~H~Al~Da~~ 161 (230)
++..+|+||+.||++||+.++.++|++.+. ..++||+.+++.++|.. +.+|+.||++||++..+ +|+|+.||.+
T Consensus 498 gg~vLVAHNa~FD~~fL~~~l~rlgl~~l~---~~~IDTLelar~l~p~~k~~kL~~LAk~lGL~~~~--~HrAl~DA~a 572 (1437)
T PRK00448 498 GDSILVAHNASFDVGFINTNYEKLGLEKIK---NPVIDTLELSRFLYPELKSHRLNTLAKKFGVELEH--HHRADYDAEA 572 (1437)
T ss_pred CCCEEEEeCccccHHHHHHHHHHcCCcccc---ccceeHHHHHHHHcCccccccHHHHHHHcCCCCCC--CcChHHHHHH
Confidence 999999999999999999999999987544 24899999999999854 56999999999999987 6999999999
Q ss_pred HHHHHHHHHcC
Q psy8196 162 LAEVYLAMTRG 172 (230)
Q Consensus 162 ~a~v~~~l~~~ 172 (230)
|++||.+++..
T Consensus 573 Ta~lf~~ll~~ 583 (1437)
T PRK00448 573 TAYLLIKFLKD 583 (1437)
T ss_pred HHHHHHHHHHH
Confidence 99999999754
No 46
>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=99.95 E-value=8.6e-30 Score=199.42 Aligned_cols=159 Identities=32% Similarity=0.466 Sum_probs=134.7
Q ss_pred EEEEecCCCCCCCCCCceEEEEEEEEECCEE-ecceeEEEEcCCCC--CChhhHhhcCCCHHHHhCCCCHHHHHHHHHHh
Q psy8196 5 IVLDIETTGLNIIDGHRIIEIGCVEIKNRQI-TGNNLHYYINPGRD--SEKSALAIHGLTTKFLKNKLKFSEIVDNFLNY 81 (230)
Q Consensus 5 ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~-~~~~f~~~i~P~~~--i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~f 81 (230)
|+||+||||+++.. ++|||||+|.++++.. ....|+.||+|... +++.+.++||||.+++.+++++.+++.+|.+|
T Consensus 1 v~~D~Ettg~~~~~-~~iieig~v~~~~~~~~~~~~~~~~i~p~~~~~i~~~~~~~~gIt~~~l~~~~~~~~~~~~~~~~ 79 (164)
T PF00929_consen 1 VVFDTETTGLDPRQ-DEIIEIGAVKVDDDENEEVESFNSLIRPEEPPKISPWATKVHGITQEDLEDAPSFEEALDEFEEF 79 (164)
T ss_dssp EEEEEEESSSTTTT-CTEEEEEEEEEETTTTEEEEEEEEEBEHSSHCSSEHHHHHHHHHCHHHHHCHCEHHHHHHHHHHH
T ss_pred cEEEeEcCCCCCCC-CeEEEEEEEEeeCCccccceeeeecccccccccCCHHHeeecCCcccccccCCcHHHHHHhhhhh
Confidence 78999999999965 8999999999998763 33479999999887 99999999999999999999999999999999
Q ss_pred cC-CCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCC-CcHHHHHHHhCCCCCCCCCCCHHHHH
Q psy8196 82 VS-NSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKR-NSLDALCDRYNISKIHRTLHGGLLDA 159 (230)
Q Consensus 82 l~-~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~-~~L~~L~~~~gi~~~~r~~H~Al~Da 159 (230)
+. +..+|+||+.||.+++...+.+.+..+.+.. ..++|++.+.+..++... .+|+.||+.||++...+ +|+|+.||
T Consensus 80 ~~~~~~~v~~n~~fd~~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~-~H~Al~Da 157 (164)
T PF00929_consen 80 LKKNDILVGHNASFDIGFLRREDKRFLGKPIPKP-NPFIDTLELARALFPNRKKYSLDDLAEYFGIPFDGT-AHDALDDA 157 (164)
T ss_dssp HHHHTEEEETTCCHEEESSHHHHHHHHHHHHHHH-HHECEEEEEHHHHHHHHHHHSHHHHHHHTTSSSTST-TTSHHHHH
T ss_pred hhcccccccccccchhhHHHHhhhhccccccccc-chhhhhhHHHHHHhhccccCCHHHHHHHcCCCCCCC-CcChHHHH
Confidence 98 6789999999999999998888742211100 135677777777665443 49999999999999985 89999999
Q ss_pred HHHHHHH
Q psy8196 160 ELLAEVY 166 (230)
Q Consensus 160 ~~~a~v~ 166 (230)
.++++||
T Consensus 158 ~~t~~l~ 164 (164)
T PF00929_consen 158 RATAELF 164 (164)
T ss_dssp HHHHHHH
T ss_pred HHHhCcC
Confidence 9999997
No 47
>KOG0542|consensus
Probab=99.80 E-value=8.6e-19 Score=144.13 Aligned_cols=174 Identities=17% Similarity=0.298 Sum_probs=141.8
Q ss_pred eEEEEecCCCCCC---CCCCceEEEEEEEEECCE--EecceeEEEEcCC--CCCChhhHhhcCCCHHHHhCCCCHHHHHH
Q psy8196 4 HIVLDIETTGLNI---IDGHRIIEIGCVEIKNRQ--ITGNNLHYYINPG--RDSEKSALAIHGLTTKFLKNKLKFSEIVD 76 (230)
Q Consensus 4 ~ivlD~ETTGl~~---~~~~~IieIg~v~~~~~~--~~~~~f~~~i~P~--~~i~~~a~~i~Git~e~l~~~~~~~ev~~ 76 (230)
.+++|+|+|.-+. ..-++|||+.+|.+++.. .....||.||+|. ...+..++.+|||.++.+..+|+|.++++
T Consensus 58 LliiDFEaTC~e~~~~~~~~EIIEfP~V~l~~~~~~~Ie~eF~qYVrP~~np~LS~fC~~lTgI~Q~tVD~a~~f~~vl~ 137 (280)
T KOG0542|consen 58 LLILDFEATCEEGNKPHYVQEIIEFPAVLLDNTETSIIEDEFHQYVRPVENPRLSDFCTSLTGIQQETVDEAPTFPQVLS 137 (280)
T ss_pred EEEEeeeeeccccCCCCcchheeecceeEeeccchhhHHHHHHhhcCcccCchHHHHHHHhhCchHhhhccCCCHHHHHH
Confidence 4899999995442 323799999999887532 2333799999995 57899999999999999999999999999
Q ss_pred HHHHhcCCCe--------EEEEcccccH-HHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCC-CCCcHHHHHHHhCCC
Q psy8196 77 NFLNYVSNSE--------IIIHNAAFDV-GFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTG-KRNSLDALCDRYNIS 146 (230)
Q Consensus 77 ~~~~fl~~~~--------lV~hna~FD~-~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~-~~~~L~~L~~~~gi~ 146 (230)
+|.+|+.... -..-..+.|+ .||..++.+-++..+..+ .++||.-...+..+.. .+.++..+.++||++
T Consensus 138 ~f~~Wlr~~~~~~k~~~~Afvtdg~wDl~~~l~~qck~~~i~~P~~f-~qwInirk~yk~~y~~~~~t~it~mLe~~gL~ 216 (280)
T KOG0542|consen 138 EFDSWLRKDSLGDKNGKFAFVTDGDWDLWVFLQYQCKLKNIRIPAFF-NQWINIRKIYKNFYNRPAPTNITGMLEHYGLQ 216 (280)
T ss_pred HHHHHHHHhhcccccCceEEEeCchhhHHHHHHHHHHHhcCCCcHHH-HHHhHHHHHHHHHhcCccccCHHHHHHHhCCc
Confidence 9999995321 2344556677 678999998887644433 3699988888888766 466999999999999
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHHcCCCccccc
Q psy8196 147 KIHRTLHGGLLDAELLAEVYLAMTRGQSNLNFK 179 (230)
Q Consensus 147 ~~~r~~H~Al~Da~~~a~v~~~l~~~~~~l~~~ 179 (230)
..+| +|++++||.+++++..+|.+-...+.++
T Consensus 217 f~Gr-~HsGiDDa~Nia~I~~kM~~dg~~~~In 248 (280)
T KOG0542|consen 217 FEGR-AHSGIDDARNIARIAQKMIRDGAEFRIN 248 (280)
T ss_pred ccCC-cccCchhHHHHHHHHHHHHhCCcEEEec
Confidence 9997 9999999999999999999988887776
No 48
>COG5018 KapD Inhibitor of the KinA pathway to sporulation, predicted exonuclease [General function prediction only]
Probab=99.63 E-value=7.8e-16 Score=119.70 Aligned_cols=166 Identities=18% Similarity=0.261 Sum_probs=133.4
Q ss_pred eEEEEecCCCCC---CCCCCceEEEEEEEEE--CCEEecceeEEEEcCCC--CCChhhHhhcCCCHHHHhCCCCHHHHHH
Q psy8196 4 HIVLDIETTGLN---IIDGHRIIEIGCVEIK--NRQITGNNLHYYINPGR--DSEKSALAIHGLTTKFLKNKLKFSEIVD 76 (230)
Q Consensus 4 ~ivlD~ETTGl~---~~~~~~IieIg~v~~~--~~~~~~~~f~~~i~P~~--~i~~~a~~i~Git~e~l~~~~~~~ev~~ 76 (230)
.+++|+|.|-.+ +.+..+||||+|..++ +..+. +.|+.||+|.+ ..+..|..++||++..+.++|-|..+++
T Consensus 6 lLIID~EaT~~eG~~~~~e~eiiei~a~lv~~id~~vv-d~F~syVRP~~~P~Lt~~Ckslt~I~Q~~VD~apifs~v~E 84 (210)
T COG5018 6 LLIIDFEATMPEGKYSPQEFEIIEIEAGLVKSIDDEVV-DTFSSYVRPKKFPKLTKRCKSLTKITQKQVDEAPIFSMVFE 84 (210)
T ss_pred EEEEEeeeeccCCCCCchhceeeeehhhHHHHhhHHHH-HHHHHhcCcccCchHHHHHHHhhhhhhhhccccchHHHHHH
Confidence 589999998333 2222799999988765 33444 37999999974 5789999999999999999999999999
Q ss_pred HHHHhcCC-----CeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCC-CcHHHHHHHhCCCCCCC
Q psy8196 77 NFLNYVSN-----SEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKR-NSLDALCDRYNISKIHR 150 (230)
Q Consensus 77 ~~~~fl~~-----~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~-~~L~~L~~~~gi~~~~r 150 (230)
+|..|++. ..-++-.+.+|+..|.+++..+++++.. +-.+.+|.-.-.+..+...+ .+|....+.||....+
T Consensus 85 ~f~r~L~~h~Pr~~~~wa~wG~~Dm~~l~q~~~~~~~~p~~-~kgp~vdl~~~yk~v~~~pr~tgln~ale~~G~sf~G- 162 (210)
T COG5018 85 DFIRKLNEHDPRKNSTWATWGNMDMKVLKQNCMFNHIPPFP-FKGPMVDLSLEYKNVFGDPRLTGLNKALEEYGDSFTG- 162 (210)
T ss_pred HHHHHHHhcCcccCCccccccchhHHHHHHHHHhcCCCCcc-ccCccchHHHHHHHHhcCCccccHHHHHHHhccccCC-
Confidence 99999953 2357778899999999999999987432 22457886666666665444 4999999999999998
Q ss_pred CCCCHHHHHHHHHHHHHHHHcC
Q psy8196 151 TLHGGLLDAELLAEVYLAMTRG 172 (230)
Q Consensus 151 ~~H~Al~Da~~~a~v~~~l~~~ 172 (230)
+.|+|++||..+++++..+..-
T Consensus 163 ~~HraldDArn~~rl~klv~~~ 184 (210)
T COG5018 163 THHRALDDARNAYRLFKLVEQD 184 (210)
T ss_pred chhhhHHHHHHHHHHHHHHcch
Confidence 6999999999999999988754
No 49
>KOG2249|consensus
Probab=99.60 E-value=2.3e-14 Score=119.04 Aligned_cols=152 Identities=19% Similarity=0.232 Sum_probs=117.6
Q ss_pred ceEEEEecCCCCCCCCCCceEEEEEEEEEC--CEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHH
Q psy8196 3 RHIVLDIETTGLNIIDGHRIIEIGCVEIKN--RQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLN 80 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~~~IieIg~v~~~~--~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~ 80 (230)
|+|++|+|..|.-|. .+.-.++-|-+.| +.+ .|+.||+|..++..+.++++||+++.+.++.+|+.+-.++.+
T Consensus 106 r~vAmDCEMVG~Gp~--G~~s~lARvSIVN~~G~V---vyDkyVkP~~~VtDyRT~vSGIrpehm~~A~pf~~aQ~ev~k 180 (280)
T KOG2249|consen 106 RVVAMDCEMVGVGPD--GRESLLARVSIVNYHGHV---VYDKYVKPTEPVTDYRTRVSGIRPEHMRDAMPFKVAQKEVLK 180 (280)
T ss_pred eEEEEeeeEeccCCC--ccceeeeEEEEeeccCcE---eeeeecCCCcccccceeeecccCHHHhccCccHHHHHHHHHH
Confidence 689999999999886 2333344333332 222 499999999999999999999999999999999999999999
Q ss_pred hcCCCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHH--HHH-HcCCCCCcHHHHHHHh-CCCCCCCCCCCHH
Q psy8196 81 YVSNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLM--ARK-IHTGKRNSLDALCDRY-NISKIHRTLHGGL 156 (230)
Q Consensus 81 fl~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~l--ar~-~~p~~~~~L~~L~~~~-gi~~~~r~~H~Al 156 (230)
+|.|.+||||....|+..|.-...+.- +-||-.. .++ +..+...||..|++.+ |++.... .|+..
T Consensus 181 lL~gRIlVGHaLhnDl~~L~l~hp~s~----------iRDTs~~~pl~k~~~~~~tpSLK~Lt~~~Lg~~IQ~G-eHsSv 249 (280)
T KOG2249|consen 181 LLKGRILVGHALHNDLQALKLEHPRSM----------IRDTSKYPPLMKLLSKKATPSLKKLTEALLGKDIQVG-EHSSV 249 (280)
T ss_pred HHhCCEEeccccccHHHHHhhhCchhh----------hcccccCchHHHHhhccCCccHHHHHHHHhchhhhcc-ccCcH
Confidence 999999999999999988864333322 2333221 122 2335567999999886 8877653 69999
Q ss_pred HHHHHHHHHHHHHH
Q psy8196 157 LDAELLAEVYLAMT 170 (230)
Q Consensus 157 ~Da~~~a~v~~~l~ 170 (230)
.||.+++++|..+.
T Consensus 250 EDA~AtM~LY~~vk 263 (280)
T KOG2249|consen 250 EDARATMELYKRVK 263 (280)
T ss_pred HHHHHHHHHHHHHH
Confidence 99999999999865
No 50
>COG2925 SbcB Exonuclease I [DNA replication, recombination, and repair]
Probab=99.54 E-value=9e-14 Score=120.65 Aligned_cols=172 Identities=15% Similarity=0.168 Sum_probs=137.0
Q ss_pred ceEEEEecCCCCCCCCCCceEEEEEEEEEC-CEEecceeEEEEcCCC--CCChhhHhhcCCCHHHHh-CCCCHHHHHHHH
Q psy8196 3 RHIVLDIETTGLNIIDGHRIIEIGCVEIKN-RQITGNNLHYYINPGR--DSEKSALAIHGLTTKFLK-NKLKFSEIVDNF 78 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~~~IieIg~v~~~~-~~~~~~~f~~~i~P~~--~i~~~a~~i~Git~e~l~-~~~~~~ev~~~~ 78 (230)
.+.+.|.||.|.+|.. +|+-++++|..+. -.+.++-...|++|.. -..|++.-|+|||++... .+-+..+....+
T Consensus 10 tF~~yDYETfG~~Pa~-DRPaQFAgiRTD~~~NiIgeP~~fyCkpsdDyLP~P~a~LITGITPQ~~~~~G~~E~~F~~~I 88 (475)
T COG2925 10 TFLFYDYETFGVHPAL-DRPAQFAGIRTDIEFNIIGEPIVFYCKPADDYLPQPGAVLITGITPQEAREKGINEAAFAARI 88 (475)
T ss_pred cEEEEehhhcCCCccc-ccchhhheeeccccccccCCCeEEEecCccccCCCCCceeeecCCHHHHHhcCCChHHHHHHH
Confidence 5799999999999996 9999999999984 3345667888999954 467999999999999887 445677777777
Q ss_pred HHhcC--CCeEEEEcc-cccHHHHHHHHHHcCCCCcc----cccc--hHhHHHHHHHHHcCCC-----------CCcHHH
Q psy8196 79 LNYVS--NSEIIIHNA-AFDVGFLDMELSLLGYSNFT----KYIY--RITDTLLMARKIHTGK-----------RNSLDA 138 (230)
Q Consensus 79 ~~fl~--~~~lV~hna-~FD~~~L~~~l~~~g~~~~~----~~~~--~~iDtl~lar~~~p~~-----------~~~L~~ 138 (230)
...+. +..++|+|. .||-.+.+.-|.|.-++|.. +-+. +.+|.+...+.+-|.. +.+|+.
T Consensus 89 ~~~ls~P~Tcv~GYNniRFDDEvtRy~fyRNF~DPYa~sWqngNSRWDLLD~~RacyALRPeGI~Wp~n~dG~pSFkLEh 168 (475)
T COG2925 89 HAELTQPNTCVLGYNNIRFDDEVTRYIFYRNFYDPYAWSWQNGNSRWDLLDVVRACYALRPEGINWPENDDGLPSFKLEH 168 (475)
T ss_pred HHHhCCCCeeeecccccccchHHHHHHHHHhcCchhhhhhcCCCchhHHHHHHHHHHhcCcccCCCCcCCCCCcchhhHH
Confidence 77553 445899997 99999999888887665321 1112 4678888888776531 248999
Q ss_pred HHHHhCCCCCCCCCCCHHHHHHHHHHHHHHHHcCCCccc
Q psy8196 139 LCDRYNISKIHRTLHGGLLDAELLAEVYLAMTRGQSNLN 177 (230)
Q Consensus 139 L~~~~gi~~~~r~~H~Al~Da~~~a~v~~~l~~~~~~l~ 177 (230)
|.+.-||..+. +|+||+|+.+|..+-.....+|+.|+
T Consensus 169 Lt~ANgieH~n--AHdAmsDVyATIamAklvk~~QPrLf 205 (475)
T COG2925 169 LTKANGIEHSN--AHDAMSDVYATIAMAKLVKTAQPRLF 205 (475)
T ss_pred Hhhccccccch--hhHHHHHHHHHHHHHHHHHhhCcHHH
Confidence 99999999987 89999999999999998888899874
No 51
>cd05160 DEDDy_DNA_polB_exo DEDDy 3'-5' exonuclease domain of family-B DNA polymerases. The 3'-5' exonuclease domain of family-B DNA polymerases. This domain has a fundamental role in reducing polymerase errors and is involved in proofreading activity. Family-B DNA polymerases contain an N-terminal DEDDy DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-A DNA polymerases. This domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. The exonuclease domain of family B polymerase also contains a beta hairpin structure that plays an important role in active site switching in the event of nucleotide misincorporation. Members include Escherichia coli DNA polymerase II, some eubacterial phage DNA polymerases, nuclear replicative
Probab=99.49 E-value=3.6e-13 Score=110.13 Aligned_cols=134 Identities=17% Similarity=0.086 Sum_probs=101.3
Q ss_pred EEEEecCCCC----CCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHH
Q psy8196 5 IVLDIETTGL----NIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLN 80 (230)
Q Consensus 5 ivlD~ETTGl----~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~ 80 (230)
++||+||||. ++.. ++|++||++...++... .+.....+.....+ |++...+...+...+++..|.+
T Consensus 2 ~~~DIEt~~~~~~p~~~~-d~Ii~I~~~~~~~g~~~--~~~~~~~~~~~~~~------~i~~~~v~~~~~E~~lL~~f~~ 72 (199)
T cd05160 2 LSFDIETTPPVGGPEPDR-DPIICITYADSFDGVKV--VFLLKTSTVGDDIE------FIDGIEVEYFADEKELLKRFFD 72 (199)
T ss_pred ccEEEeecCCCCCcCCCC-CCEEEEEEEEeeCCcee--eEEEeecccCCcCC------CCCCceEEEeCCHHHHHHHHHH
Confidence 6899999998 6764 99999999987554332 12222222211111 7888888889999999999999
Q ss_pred hcCC---CeEEEEcc-cccHHHHHHHHHHcCCCCc-cc-----------------cc-chHhHHHHHHHHHcCCCCCcHH
Q psy8196 81 YVSN---SEIIIHNA-AFDVGFLDMELSLLGYSNF-TK-----------------YI-YRITDTLLMARKIHTGKRNSLD 137 (230)
Q Consensus 81 fl~~---~~lV~hna-~FD~~~L~~~l~~~g~~~~-~~-----------------~~-~~~iDtl~lar~~~p~~~~~L~ 137 (230)
++.. ..+|+||+ .||+++|...+.++|++.. .. .+ ..++|++.+++..++..+++|+
T Consensus 73 ~i~~~dpdiivg~N~~~FD~~~L~~R~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~gr~~~D~~~~~r~~~~l~sy~L~ 152 (199)
T cd05160 73 IIREYDPDILTGYNIDDFDLPYLLKRAEALGIKLTDGIYRRSGGEKSSGSTERIAVKGRVVFDLLAAYKRDFKLKSYTLD 152 (199)
T ss_pred HHHhcCCCEEEEeccCCCcHHHHHHHHHHhCCCcccccccccCCCccCCcccceeeeccEeeehHHHHHHhcCcccCCHH
Confidence 9976 36999999 9999999999999887642 00 00 1378999999999986678999
Q ss_pred HHHHHhCCCC
Q psy8196 138 ALCDRYNISK 147 (230)
Q Consensus 138 ~L~~~~gi~~ 147 (230)
.+|+.++...
T Consensus 153 ~v~~~~l~~~ 162 (199)
T cd05160 153 AVAEELLGEG 162 (199)
T ss_pred HHHHHHhCCC
Confidence 9999986553
No 52
>cd06143 PAN2_exo DEDDh 3'-5' exonuclease domain of the eukaryotic exoribonuclease PAN2. PAN2 is the catalytic subunit of poly(A) nuclease (PAN), a Pab1p-dependent 3'-5' exoribonuclease which plays an important role in the posttranscriptional maturation of pre-mRNAs. PAN catalyzes the deadenylation of poly(A) tails, which are initially synthesized to default lengths of 70 to 90, to mRNA-specific lengths of 55 to 71. Pab1p and PAN also play a role in the export and decay of mRNA. PAN2 contains a DEDDh-type DnaQ-like 3'-5' exonuclease domain with three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis.
Probab=99.46 E-value=9.9e-13 Score=104.61 Aligned_cols=116 Identities=16% Similarity=0.122 Sum_probs=92.6
Q ss_pred eeEEEEcCCCCCChhhHhhcCCCHHHHhCCC------CHHHHHHHHHHhcC-CCeEEEEcccccHHHHHHHHHHcCCCCc
Q psy8196 39 NLHYYINPGRDSEKSALAIHGLTTKFLKNKL------KFSEIVDNFLNYVS-NSEIIIHNAAFDVGFLDMELSLLGYSNF 111 (230)
Q Consensus 39 ~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~------~~~ev~~~~~~fl~-~~~lV~hna~FD~~~L~~~l~~~g~~~~ 111 (230)
-+..||+|..+|..+.++++|||++++.++. ++.++..++.+++. +.++|||....|+..|+ +..+
T Consensus 50 llD~~VkP~~~V~DYrT~~SGIt~~~L~~a~~~~~~~t~~~v~~~l~~li~~~tILVGHsL~nDL~aL~-------l~hp 122 (174)
T cd06143 50 FIDDYISTTEPVVDYLTRFSGIKPGDLDPKTSSKNLTTLKSAYLKLRLLVDLGCIFVGHGLAKDFRVIN-------IQVP 122 (174)
T ss_pred EEeeeECCCCCccCcCccccccCHHHcCccccccccCCHHHHHHHHHHHcCCCCEEEeccchhHHHHhc-------CcCC
Confidence 4889999999999999999999999998764 58899999999995 78899999999998774 2111
Q ss_pred ccccchHhHHHHHHHHHcCC-CCCcHHHHHHHh-CCCCCCCCCCCHHHHHHHHHHHHH
Q psy8196 112 TKYIYRITDTLLMARKIHTG-KRNSLDALCDRY-NISKIHRTLHGGLLDAELLAEVYL 167 (230)
Q Consensus 112 ~~~~~~~iDtl~lar~~~p~-~~~~L~~L~~~~-gi~~~~r~~H~Al~Da~~~a~v~~ 167 (230)
. ..++||..+.. .|. .+.+|..||++| |.+... ..|+...||.+++++|.
T Consensus 123 ~---~~viDTa~l~~--~~~~r~~sLk~La~~~L~~~IQ~-~~HdSvEDArAam~Ly~ 174 (174)
T cd06143 123 K---EQVIDTVELFH--LPGQRKLSLRFLAWYLLGEKIQS-ETHDSIEDARTALKLYR 174 (174)
T ss_pred C---cceEEcHHhcc--CCCCCChhHHHHHHHHcCCcccC-CCcCcHHHHHHHHHHhC
Confidence 1 23889975432 233 345999999887 666654 47999999999999983
No 53
>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=99.30 E-value=1.5e-11 Score=89.26 Aligned_cols=80 Identities=26% Similarity=0.355 Sum_probs=59.3
Q ss_pred EEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhcCC
Q psy8196 5 IVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYVSN 84 (230)
Q Consensus 5 ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl~~ 84 (230)
++||+||||+++.. ++|++|++....+ ++.|+.. |.+|+++
T Consensus 1 ~~~DiEt~~~~~~~-~~i~~i~~~~~~~----~~~~~~~----------------------------------f~~~l~~ 41 (96)
T cd06125 1 IAIDTEATGLDGAV-HEIIEIALADVNP----EDTAVID----------------------------------LKDILRD 41 (96)
T ss_pred CEEEEECCCCCCCC-CcEEEEEEEEccC----CCEEEeh----------------------------------HHHHHhh
Confidence 57999999999986 9999999886421 1223211 6667755
Q ss_pred ---CeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHH
Q psy8196 85 ---SEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLM 124 (230)
Q Consensus 85 ---~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~l 124 (230)
..+|+||+.||+.||++++.+++.+..... ..++||+.+
T Consensus 42 ~~~~v~V~hn~~fD~~fL~~~~~~~~~~~p~~~-~~~lDT~~l 83 (96)
T cd06125 42 KPLAILVGHNGSFDLPFLNNRCAELGLKYPLLA-GSWIDTIKL 83 (96)
T ss_pred CCCCEEEEeCcHHhHHHHHHHHHHcCCCCCCcC-CcEEEehHH
Confidence 468999999999999999999987632211 248999876
No 54
>COG1949 Orn Oligoribonuclease (3'-5' exoribonuclease) [RNA processing and modification]
Probab=99.23 E-value=1.2e-10 Score=90.34 Aligned_cols=150 Identities=23% Similarity=0.213 Sum_probs=98.2
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEECCE-EecceeEEEEcCC----CCCChhhHhhc---CCCHHHHhCCCCHHH
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQ-ITGNNLHYYINPG----RDSEKSALAIH---GLTTKFLKNKLKFSE 73 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~-~~~~~f~~~i~P~----~~i~~~a~~i~---Git~e~l~~~~~~~e 73 (230)
.+.|.+|+|.|||+|.. ++||||+++..+.+. +....+...|... ..+++++++.| |++..-....-+.++
T Consensus 6 ~nLiWIDlEMTGLd~~~-drIIEiA~iVTD~~Lnilaegp~~~Ihq~~e~L~~Mdew~~~~H~~sGL~~rV~~S~~t~~~ 84 (184)
T COG1949 6 NNLIWIDLEMTGLDPER-DRIIEIATIVTDANLNILAEGPVIAIHQSDEQLAKMDEWNTETHGRSGLTERVKASTVTEAE 84 (184)
T ss_pred CceEEEeeeeccCCcCc-ceEEEEEEEEecCcccccccCceEEEeCCHHHHHHHHHHHHHccccccHHHHHHHhhccHHH
Confidence 36799999999999996 999999999988543 2333444444332 35778888887 677766667778888
Q ss_pred HHHHHHHhcC------CCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHH---HHHHHHHcCCCCCcHHHHHHHhC
Q psy8196 74 IVDNFLNYVS------NSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDT---LLMARKIHTGKRNSLDALCDRYN 144 (230)
Q Consensus 74 v~~~~~~fl~------~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDt---l~lar~~~p~~~~~L~~L~~~~g 144 (230)
+-.+.++|++ .+++.|....-|..||.+++.++-- .+..+.+|+ ..+|++..|.- ..|
T Consensus 85 aE~~~l~flkkwvp~~~spicGNSI~qDRrFl~r~MP~Le~----yfHYR~lDVSTlKELa~RW~P~i---------~~~ 151 (184)
T COG1949 85 AEAQTLDFLKKWVPKGVSPICGNSIAQDRRFLFRYMPKLEA----YFHYRYLDVSTLKELARRWNPEI---------LAG 151 (184)
T ss_pred HHHHHHHHHHHhCCCCCCCCccchhhHHHHHHHHHhhhHHH----HhhhHhhhHHHHHHHHHhhCcHh---------hhc
Confidence 8777777763 2345555559999999888776531 122245554 33444444421 113
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHH
Q psy8196 145 ISKIHRTLHGGLLDAELLAEVYL 167 (230)
Q Consensus 145 i~~~~r~~H~Al~Da~~~a~v~~ 167 (230)
.. .+..|.||+|..-...=+.
T Consensus 152 ~~--K~~~H~Al~DI~ESI~EL~ 172 (184)
T COG1949 152 FK--KGGTHRALDDIRESIAELR 172 (184)
T ss_pred cc--cccchhHHHHHHHHHHHHH
Confidence 22 2348999999987655443
No 55
>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=99.21 E-value=2.2e-10 Score=92.53 Aligned_cols=140 Identities=19% Similarity=0.240 Sum_probs=97.9
Q ss_pred ceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhc
Q psy8196 3 RHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYV 82 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl 82 (230)
+.+++|+||||+++.. ++|+.++...- ++ ..++..+.+.. . .+++...+++..|.+++
T Consensus 6 ~~~a~d~e~~~~~~~~-~~i~~l~~~~~-~~----~~~~~~~~~~~-~---------------~~~~~~~~~~~~l~~~l 63 (193)
T cd06139 6 KVFAFDTETTSLDPMQ-AELVGISFAVE-PG----EAYYIPLGHDY-G---------------GEQLPREEVLAALKPLL 63 (193)
T ss_pred CeEEEEeecCCCCcCC-CeEEEEEEEcC-CC----CEEEEecCCCc-c---------------ccCCCHHHHHHHHHHHH
Confidence 4689999999999865 78888876522 11 13332222210 0 13456778888899999
Q ss_pred CCC--eEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC-CCcHHHHHHHh-CCCC-----------
Q psy8196 83 SNS--EIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK-RNSLDALCDRY-NISK----------- 147 (230)
Q Consensus 83 ~~~--~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~-~~~L~~L~~~~-gi~~----------- 147 (230)
.+. .+|+||++||+.+|. +.|++.. ..++||+.+++.+.|+. +++|++++++| |...
T Consensus 64 ~~~~~~~v~hn~k~d~~~l~----~~gi~~~----~~~~Dt~l~a~ll~p~~~~~~l~~l~~~~l~~~~~~~~~~~~k~~ 135 (193)
T cd06139 64 EDPSIKKVGQNLKFDLHVLA----NHGIELR----GPAFDTMLASYLLNPGRRRHGLDDLAERYLGHKTISFEDLVGKGK 135 (193)
T ss_pred hCCCCcEEeeccHHHHHHHH----HCCCCCC----CCcccHHHHHHHhCCCCCCCCHHHHHHHHhCCCCccHHHHcCCCc
Confidence 765 589999999999985 4565422 24799999999999987 67999999997 4320
Q ss_pred -----CCC----CCCCHHHHHHHHHHHHHHHHcC
Q psy8196 148 -----IHR----TLHGGLLDAELLAEVYLAMTRG 172 (230)
Q Consensus 148 -----~~r----~~H~Al~Da~~~a~v~~~l~~~ 172 (230)
... ..|.|..|+..+.++|..|...
T Consensus 136 ~~~~~~~~~~~~~~~ya~~d~~~~~~l~~~l~~~ 169 (193)
T cd06139 136 KQITFDQVPLEKAAEYAAEDADITLRLYELLKPK 169 (193)
T ss_pred CcCCccccCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 000 1235788899999999888754
No 56
>KOG3242|consensus
Probab=99.08 E-value=9.6e-10 Score=86.21 Aligned_cols=152 Identities=24% Similarity=0.311 Sum_probs=106.1
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEECCEE-ecceeEEEEcCC----CCCChhhHhhc---CCCHHHHhCCCCHHH
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQI-TGNNLHYYINPG----RDSEKSALAIH---GLTTKFLKNKLKFSE 73 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~-~~~~f~~~i~P~----~~i~~~a~~i~---Git~e~l~~~~~~~e 73 (230)
.+.|.+|+|.|||+... ++|+||+|+..+++.- ....+...|+-. ..+++++..-| |+|..-+...-+.++
T Consensus 26 q~lVWiD~EMTGLdvek-d~i~EiacIITD~dL~~~~egpd~vI~~~~evld~MneWc~ehhg~SGLt~kv~~S~~tl~~ 104 (208)
T KOG3242|consen 26 QPLVWIDCEMTGLDVEK-DRIIEIACIITDGDLNPVAEGPDLVIHQPKEVLDKMNEWCIEHHGNSGLTEKVLASKITLAD 104 (208)
T ss_pred CceEEEeeecccccccc-ceeEEEEEEEecCCccccccCccchhcCCHHHHHHHHHHHHHhccchhHHHHHHHhhccHHH
Confidence 46799999999999886 9999999998876432 223466666543 35788888876 688888888899999
Q ss_pred HHHHHHHhcC-----CCeEEEEcc-cccHHHHHHHHHHcCCCCcccccchHhH---HHHHHHHHcCCCCCcHHHHHHHhC
Q psy8196 74 IVDNFLNYVS-----NSEIIIHNA-AFDVGFLDMELSLLGYSNFTKYIYRITD---TLLMARKIHTGKRNSLDALCDRYN 144 (230)
Q Consensus 74 v~~~~~~fl~-----~~~lV~hna-~FD~~~L~~~l~~~g~~~~~~~~~~~iD---tl~lar~~~p~~~~~L~~L~~~~g 144 (230)
+-.++++|++ +...++-|. -.|..||..++..+-- .+. .+++| ...++++++|... ++
T Consensus 105 aEnevl~yikk~ip~~~~~laGNSV~~DrlFl~k~mPk~~~-~lh---yrivDVStIkeL~~Rw~P~~~--------~~- 171 (208)
T KOG3242|consen 105 AENEVLEYIKKHIPKGKCPLAGNSVYMDRLFLKKYMPKLIK-HLH---YRIVDVSTIKELARRWYPDIK--------AR- 171 (208)
T ss_pred HHHHHHHHHHHhCCCCCCCccCcchhhHHHHHHHHhHHHHH-hcc---eeeeeHHHHHHHHHHhCchhh--------cc-
Confidence 9999999984 334566665 8899999999877531 111 23444 3566777777432 11
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHH
Q psy8196 145 ISKIHRTLHGGLLDAELLAEVYLA 168 (230)
Q Consensus 145 i~~~~r~~H~Al~Da~~~a~v~~~ 168 (230)
-|.. ...|+|++|..-...=+..
T Consensus 172 aPkK-~~~HrAldDI~ESI~ELq~ 194 (208)
T KOG3242|consen 172 APKK-KATHRALDDIRESIKELQY 194 (208)
T ss_pred Cccc-ccccchHHHHHHHHHHHHH
Confidence 1111 1379999999876655443
No 57
>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=99.07 E-value=1.8e-10 Score=91.13 Aligned_cols=131 Identities=21% Similarity=0.321 Sum_probs=69.2
Q ss_pred EEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhcCC
Q psy8196 5 IVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYVSN 84 (230)
Q Consensus 5 ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl~~ 84 (230)
++||+||||++|.. +.|+-||++..+++... .|..+..++ +.-.+.+.++.+++.+
T Consensus 1 l~~DIET~Gl~~~~-~~i~liG~~~~~~~~~~--~~~~~~~~~---------------------~~ee~~~~~~~~~l~~ 56 (164)
T PF13482_consen 1 LFFDIETTGLSPDN-DTIYLIGVADFDDDEII--TFIQWFAED---------------------PDEEEIILEFFELLDE 56 (164)
T ss_dssp --EEEEESS-GG-G----EEEEEEE-ETTTTE---EEEE-GGG---------------------HHHHHHHHH--HHHHT
T ss_pred CcEEecCCCCCCCC-CCEEEEEEEEeCCCceE--EeeHhhccC---------------------cHHHHHHHHHHHHHhc
Confidence 58999999999976 78999999988764332 144444322 1112233333355544
Q ss_pred -CeEEEEcc-cccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCCCcHHHHHHHhCCCCCCCCCCCHHHHHHHH
Q psy8196 85 -SEIIIHNA-AFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRYNISKIHRTLHGGLLDAELL 162 (230)
Q Consensus 85 -~~lV~hna-~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~gi~~~~r~~H~Al~Da~~~ 162 (230)
..+|+||. .||+++|++.+.+++++.. ...+|++..+++... .+.+|..+++.+|+.... --.+...+
T Consensus 57 ~~~iv~yng~~FD~p~L~~~~~~~~~~~~----~~~iDl~~~~~~~~~-~~~~Lk~ve~~lg~~~~~-----~~~~G~~~ 126 (164)
T PF13482_consen 57 ADNIVTYNGKNFDIPFLKRRAKRYGLPPP----FNHIDLLKIIKKHFL-ESYSLKNVEKFLGIERRD-----DDISGSES 126 (164)
T ss_dssp T--EEESSTTTTHHHHHHHHH-HHHH--G----GGEEEHHHHHT-TTS-CCTT--SHHH----------------HHHHH
T ss_pred CCeEEEEeCcccCHHHHHHHHHHcCCCcc----cchhhHHHHHHhccC-CCCCHHHHhhhccccccc-----CCCCHHHH
Confidence 56899997 9999999999988877641 247899999987665 556999999999998863 11455556
Q ss_pred HHHHHHH
Q psy8196 163 AEVYLAM 169 (230)
Q Consensus 163 a~v~~~l 169 (230)
..+|.+.
T Consensus 127 ~~~~~~~ 133 (164)
T PF13482_consen 127 VKLYKEY 133 (164)
T ss_dssp HHHHH--
T ss_pred HHHHHHH
Confidence 6667653
No 58
>PRK05755 DNA polymerase I; Provisional
Probab=98.98 E-value=5.5e-09 Score=102.88 Aligned_cols=133 Identities=20% Similarity=0.267 Sum_probs=97.9
Q ss_pred ceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhc
Q psy8196 3 RHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYV 82 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl 82 (230)
.++++||||+|+++.. ++|+.|++. ..++ -.+|+++.. + + .+++..|.+++
T Consensus 316 ~~~a~DtEt~~l~~~~-~~i~~i~ls-~~~g------~~~~ip~~~-----------i--------~--~~~l~~l~~~L 366 (880)
T PRK05755 316 GLFAFDTETTSLDPMQ-AELVGLSFA-VEPG------EAAYIPLDQ-----------L--------D--REVLAALKPLL 366 (880)
T ss_pred CeEEEEeccCCCCccc-ccEEEEEEE-eCCC------cEEEEeccc-----------c--------c--HHHHHHHHHHH
Confidence 4689999999999875 889988863 2221 123443321 1 1 15778888888
Q ss_pred CCCe--EEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCCCcHHHHHHHh-CCCCC----------C
Q psy8196 83 SNSE--IIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRY-NISKI----------H 149 (230)
Q Consensus 83 ~~~~--lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~-gi~~~----------~ 149 (230)
.+.. +|+||++||+.+|.+ .|++.. ..++||+.+++.++|+..++|++|+++| |+... .
T Consensus 367 ~d~~v~kV~HNakfDl~~L~~----~gi~~~----~~~~DT~iAa~Ll~~~~~~~L~~L~~~ylg~~~~~~~~~~gk~~~ 438 (880)
T PRK05755 367 EDPAIKKVGQNLKYDLHVLAR----YGIELR----GIAFDTMLASYLLDPGRRHGLDSLAERYLGHKTISFEEVAGKQLT 438 (880)
T ss_pred hCCCCcEEEeccHhHHHHHHh----CCCCcC----CCcccHHHHHHHcCCCCCCCHHHHHHHHhCCCccchHHhcCCCCC
Confidence 7754 799999999999873 466432 2489999999999997668999999998 55520 0
Q ss_pred C-------CCCCHHHHHHHHHHHHHHHHcC
Q psy8196 150 R-------TLHGGLLDAELLAEVYLAMTRG 172 (230)
Q Consensus 150 r-------~~H~Al~Da~~~a~v~~~l~~~ 172 (230)
+ ..|-|..|+..+.++|..|...
T Consensus 439 ~~~~ple~~~~YAa~Dv~~~~~L~~~L~~~ 468 (880)
T PRK05755 439 FAQVDLEEAAEYAAEDADVTLRLHEVLKPK 468 (880)
T ss_pred ccccCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 0 1367999999999999998764
No 59
>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=98.96 E-value=1.7e-08 Score=82.12 Aligned_cols=116 Identities=22% Similarity=0.280 Sum_probs=84.5
Q ss_pred ceEEEEecCC---CC-CCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHH
Q psy8196 3 RHIVLDIETT---GL-NIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNF 78 (230)
Q Consensus 3 ~~ivlD~ETT---Gl-~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~ 78 (230)
+.++||+||+ |+ ++.. ++|+.||+...++. ..++.. ......+++..|
T Consensus 4 ~~l~fDIEt~~~~gfp~~~~-d~Ii~Is~~~~~g~------~~~~~~---------------------~~~~E~~lL~~F 55 (188)
T cd05781 4 KTLAFDIEVYSKYGTPNPRR-DPIIVISLATSNGD------VEFILA---------------------EGLDDRKIIREF 55 (188)
T ss_pred eEEEEEEEecCCCCCCCCCC-CCEEEEEEEeCCCC------EEEEEe---------------------cCCCHHHHHHHH
Confidence 6789999998 54 4554 89999998764332 111111 124568899999
Q ss_pred HHhcCC---CeEEEEcc-cccHHHHHHHHHHcCCCCc-cccc----------------chHhHHHHHHHHHcCCCCCcHH
Q psy8196 79 LNYVSN---SEIIIHNA-AFDVGFLDMELSLLGYSNF-TKYI----------------YRITDTLLMARKIHTGKRNSLD 137 (230)
Q Consensus 79 ~~fl~~---~~lV~hna-~FD~~~L~~~l~~~g~~~~-~~~~----------------~~~iDtl~lar~~~p~~~~~L~ 137 (230)
.+++.. ..+++||. .||+++|..-+.++|++.. .... ...+|.+...+...+..+++|+
T Consensus 56 ~~~i~~~dPd~i~gyN~~~FDlpyl~~Ra~~~gi~~~~gr~~~~~~~~~~~~~~~i~Gr~~iDl~~~~~~~~~l~~y~L~ 135 (188)
T cd05781 56 VKYVKEYDPDIIVGYNSNAFDWPYLVERARVLGVKLDVGRRGGSEPSTGVYGHYSITGRLNVDLYDFAEEIPEVKVKTLE 135 (188)
T ss_pred HHHHHHcCCCEEEecCCCcCcHHHHHHHHHHhCCCcccccCCCcccccCCcceEeeeeEEEEEhHHHHHhhCCCCCCCHH
Confidence 999864 35899998 9999999998888886521 0000 0268989988888776678999
Q ss_pred HHHHHhCCC
Q psy8196 138 ALCDRYNIS 146 (230)
Q Consensus 138 ~L~~~~gi~ 146 (230)
++|+.+|+.
T Consensus 136 ~Va~~Lg~~ 144 (188)
T cd05781 136 NVAEYLGVM 144 (188)
T ss_pred HHHHHHCCC
Confidence 999999875
No 60
>KOG2248|consensus
Probab=98.89 E-value=8.6e-09 Score=91.59 Aligned_cols=153 Identities=18% Similarity=0.241 Sum_probs=115.1
Q ss_pred ceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCC-CHHHHHHHHHHh
Q psy8196 3 RHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKL-KFSEIVDNFLNY 81 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~-~~~ev~~~~~~f 81 (230)
+.+++|+|...... |-++..+++|.++... -+..+|.|..+|-...+++.|||.+++.+.+ ...++-.++..|
T Consensus 217 ~i~AlDCEm~~te~--g~el~RVt~VD~~~~v----i~D~fVkP~~~VvDy~T~~SGIT~~~~e~~t~tl~dvq~~l~~~ 290 (380)
T KOG2248|consen 217 NIFALDCEMVVTEN--GLELTRVTAVDRDGKV----ILDTFVKPNKPVVDYNTRYSGITEEDLENSTITLEDVQKELLEL 290 (380)
T ss_pred CeEEEEeeeeeecc--ceeeEEeeeeeccCcE----EeEEeecCCCcccccccccccccHHHHhcCccCHHHHHHHHHhh
Confidence 46899999875544 3578889988876643 3788999999999999999999999999766 889999999999
Q ss_pred cC-CCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCC--CCCcHHHHHHHh-C--CCCCCCCCCCH
Q psy8196 82 VS-NSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTG--KRNSLDALCDRY-N--ISKIHRTLHGG 155 (230)
Q Consensus 82 l~-~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~--~~~~L~~L~~~~-g--i~~~~r~~H~A 155 (230)
+. +.++|||...-|+..|+. . ...++||..+..-..+. .+.+|..||+.| | |.. .-.-|++
T Consensus 291 ~~~~TILVGHSLenDL~aLKl-----~-------H~~ViDTa~lf~~~~g~~~~k~sLk~L~~~~L~~~Iq~-~~~~HdS 357 (380)
T KOG2248|consen 291 ISKNTILVGHSLENDLKALKL-----D-------HPSVIDTAVLFKHPTGPYPFKSSLKNLAKSYLGKLIQE-GVGGHDS 357 (380)
T ss_pred cCcCcEEEeechhhHHHHHhh-----h-------CCceeeeeEEEecCCCCccchHHHHHHHHHHHHHHHhc-cCCCCcc
Confidence 96 556899999999988852 1 12388986332222221 233799999887 3 442 2235999
Q ss_pred HHHHHHHHHHHHHHHcCCC
Q psy8196 156 LLDAELLAEVYLAMTRGQS 174 (230)
Q Consensus 156 l~Da~~~a~v~~~l~~~~~ 174 (230)
..||.++.+++....+...
T Consensus 358 ~eDA~acm~Lv~~k~~~~~ 376 (380)
T KOG2248|consen 358 VEDALACMKLVKLKIKNSE 376 (380)
T ss_pred HHHHHHHHHHHHHHHhccc
Confidence 9999999999998765543
No 61
>COG3359 Predicted exonuclease [DNA replication, recombination, and repair]
Probab=98.83 E-value=7.2e-08 Score=79.83 Aligned_cols=137 Identities=20% Similarity=0.232 Sum_probs=91.7
Q ss_pred ceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhc
Q psy8196 3 RHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYV 82 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl 82 (230)
++++||+||||+++. |+.|+=+|.....++...-++. ..-.|+ ....+++.|+...
T Consensus 99 ~~~FFDiETTGL~~a-g~~I~~~g~a~~~~~~~~Vrq~-~lp~p~----------------------~E~avle~fl~~~ 154 (278)
T COG3359 99 DVAFFDIETTGLDRA-GNTITLVGGARGVDDTMHVRQH-FLPAPE----------------------EEVAVLENFLHDP 154 (278)
T ss_pred ceEEEeeeccccCCC-CCeEEEEEEEEccCceEEEEee-cCCCcc----------------------hhhHHHHHHhcCC
Confidence 578999999999994 6888888877766654432211 111111 1234667766666
Q ss_pred CCCeEEEEcc-cccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC--CCcHHHHHHHhCCCCCCCCCCCHHHHH
Q psy8196 83 SNSEIIIHNA-AFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK--RNSLDALCDRYNISKIHRTLHGGLLDA 159 (230)
Q Consensus 83 ~~~~lV~hna-~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~--~~~L~~L~~~~gi~~~~r~~H~Al~Da 159 (230)
.-..+|.+|+ .||.+|+++ +.+..++....++ -+|.+..+|.+.... +-+|..+-+.+|+..+.. .--.|+
T Consensus 155 ~~~~lvsfNGkaFD~PfikR-~v~~~~el~l~~~--H~DL~h~~RRlwk~~l~~c~Lk~VEr~LGi~R~ed---tdG~~~ 228 (278)
T COG3359 155 DFNMLVSFNGKAFDIPFIKR-MVRDRLELSLEFG--HFDLYHPSRRLWKHLLPRCGLKTVERILGIRREED---TDGYDG 228 (278)
T ss_pred CcceEEEecCcccCcHHHHH-HHhcccccCcccc--chhhhhhhhhhhhccCCCCChhhHHHHhCcccccc---CCCcch
Confidence 5557999998 999999994 6666666433333 589999999987432 348999999999987642 111556
Q ss_pred HHHHHHHHHH
Q psy8196 160 ELLAEVYLAM 169 (230)
Q Consensus 160 ~~~a~v~~~l 169 (230)
-.+.+.|++-
T Consensus 229 p~lyr~~~~~ 238 (278)
T COG3359 229 PELYRLYRRY 238 (278)
T ss_pred HHHHHHHHHc
Confidence 6666666653
No 62
>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=98.82 E-value=7.7e-08 Score=78.60 Aligned_cols=126 Identities=21% Similarity=0.269 Sum_probs=86.1
Q ss_pred ceEEEEecCC---CC-CCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHH
Q psy8196 3 RHIVLDIETT---GL-NIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNF 78 (230)
Q Consensus 3 ~~ivlD~ETT---Gl-~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~ 78 (230)
+.+.||+||+ |+ ++.. ++|+.||++...++.+. ...+.. . ..+..-....+++..|
T Consensus 4 ~i~~fDIEt~~~~g~p~~~~-d~Ii~Is~~~~~~~~~~------~~~~~~---~----------~~v~~~~~E~~lL~~F 63 (195)
T cd05780 4 KILSFDIEVLNHEGEPNPEK-DPIIMISFADEGGNKVI------TWKKFD---L----------PFVEVVKTEKEMIKRF 63 (195)
T ss_pred eEEEEEEEecCCCCCCCCCC-CcEEEEEEecCCCceEE------EecCCC---C----------CeEEEeCCHHHHHHHH
Confidence 5789999998 65 4554 99999998763222111 111110 0 0122234558899999
Q ss_pred HHhcCC---CeEEEEcc-cccHHHHHHHHHHcCCC-Cccc-----------------cc-chHhHHHHHHHHHcCCCCCc
Q psy8196 79 LNYVSN---SEIIIHNA-AFDVGFLDMELSLLGYS-NFTK-----------------YI-YRITDTLLMARKIHTGKRNS 135 (230)
Q Consensus 79 ~~fl~~---~~lV~hna-~FD~~~L~~~l~~~g~~-~~~~-----------------~~-~~~iDtl~lar~~~p~~~~~ 135 (230)
.+++.. ..+++||. .||+++|...+.++|++ ++.. +. ...+|++..+++.....+++
T Consensus 64 ~~~i~~~dpdiivgyN~~~FD~pyL~~R~~~~gi~~~~~r~~~~~~~~~~g~~~~~~i~Gr~~lDl~~~~~~~~~l~sy~ 143 (195)
T cd05780 64 IEIVKEKDPDVIYTYNGDNFDFPYLKKRAEKLGIELDLGRDGSEIKIQRGGFNNASEIKGRIHVDLYPVARRTLNLTRYT 143 (195)
T ss_pred HHHHHHcCCCEEEecCCCCCcHHHHHHHHHHhCCCCccccCCCceeEeecceeeeeccCCeEEEeHHHHHHhhCCCCcCc
Confidence 999874 46999998 89999999988888876 2110 00 13789999999877767789
Q ss_pred HHHHHHH-hCCCCC
Q psy8196 136 LDALCDR-YNISKI 148 (230)
Q Consensus 136 L~~L~~~-~gi~~~ 148 (230)
|+++|+. +|.+..
T Consensus 144 L~~v~~~~Lg~~k~ 157 (195)
T cd05780 144 LERVYEELFGIEKE 157 (195)
T ss_pred HHHHHHHHhCCCCC
Confidence 9999985 577644
No 63
>PF10108 DNA_pol_B_exo2: Predicted 3'-5' exonuclease related to the exonuclease domain of PolB; InterPro: IPR019288 This entry represents various prokaryotic 3'-5' exonucleases and hypothetical proteins.
Probab=98.77 E-value=2.7e-07 Score=75.79 Aligned_cols=106 Identities=22% Similarity=0.244 Sum_probs=76.4
Q ss_pred CHHHHHHHHHHhcCCC--eEEEEcc-cccHHHHHHHHHHcCCCCccc--------------ccchHhHHHHHHHHHcCCC
Q psy8196 70 KFSEIVDNFLNYVSNS--EIIIHNA-AFDVGFLDMELSLLGYSNFTK--------------YIYRITDTLLMARKIHTGK 132 (230)
Q Consensus 70 ~~~ev~~~~~~fl~~~--~lV~hna-~FD~~~L~~~l~~~g~~~~~~--------------~~~~~iDtl~lar~~~p~~ 132 (230)
..++++.+|.+++... .+|+||+ .||+++|..-.-.+|++.+.. +....+|+|.+....-+..
T Consensus 36 ~E~~lL~~F~~~~~~~~p~LVs~NG~~FDlP~L~~Ral~~gi~~p~~~~~~~k~WenY~~Ry~~~H~DLmd~l~~~g~~~ 115 (209)
T PF10108_consen 36 DEKELLQDFFDLVEKYNPQLVSFNGRGFDLPVLCRRALIHGISAPRYLDIGNKPWENYRNRYSERHLDLMDLLSFYGAKA 115 (209)
T ss_pred CHHHHHHHHHHHHHhCCCeEEecCCccCCHHHHHHHHHHhCCCCchhhhcCCCCccccccccCcccccHHHHHhccCccc
Confidence 3578999999999643 5999998 999999988888888763221 1123688887644333334
Q ss_pred CCcHHHHHHHhCCCCCCCCCCCH------------------HHHHHHHHHHHHHHHcCCCcc
Q psy8196 133 RNSLDALCDRYNISKIHRTLHGG------------------LLDAELLAEVYLAMTRGQSNL 176 (230)
Q Consensus 133 ~~~L~~L~~~~gi~~~~r~~H~A------------------l~Da~~~a~v~~~l~~~~~~l 176 (230)
..+|+.||.-+|||... ..+++ ..|+.+|+.||+++..-...+
T Consensus 116 ~~sLd~la~~lgiPgK~-~idGs~V~~~y~~g~i~~I~~YCe~DVl~T~~lylR~~~~~G~l 176 (209)
T PF10108_consen 116 RTSLDELAALLGIPGKD-DIDGSQVAELYQEGDIDEIREYCEKDVLNTYLLYLRFELLRGRL 176 (209)
T ss_pred cCCHHHHHHHcCCCCCC-CCCHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHhhCCC
Confidence 55999999999999743 34443 579999999999877443333
No 64
>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=98.76 E-value=3.3e-07 Score=75.69 Aligned_cols=113 Identities=19% Similarity=0.232 Sum_probs=76.7
Q ss_pred CCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhcCC--CeEE
Q psy8196 11 TTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYVSN--SEII 88 (230)
Q Consensus 11 TTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl~~--~~lV 88 (230)
++|+++.. ++||-||++..++.. ..+...-.+ .....+++..|.+++.. ..+|
T Consensus 43 ~~~l~~~~-~~Iv~Is~~~~~~~~---~~~~~~~~~---------------------~~~E~elL~~F~~~i~~~~p~lv 97 (208)
T cd05782 43 SDFLPLPF-HKVVSISALYRDDDG---GFLKVRTLD---------------------GADEKELLEDFFQLIEKKNPRLV 97 (208)
T ss_pred CCCCcccc-CceEEEEEEEEecCC---CeEEEeecC---------------------CCCHHHHHHHHHHHHHHhCCEEE
Confidence 44555554 899999999874211 112111000 12347899999999864 4699
Q ss_pred EEcc-cccHHHHHHHHHHcCCCCccc-------------ccchHhHHHHHHHHHcCCCCCcHHHHHHHhCCCCC
Q psy8196 89 IHNA-AFDVGFLDMELSLLGYSNFTK-------------YIYRITDTLLMARKIHTGKRNSLDALCDRYNISKI 148 (230)
Q Consensus 89 ~hna-~FD~~~L~~~l~~~g~~~~~~-------------~~~~~iDtl~lar~~~p~~~~~L~~L~~~~gi~~~ 148 (230)
+||+ .||+++|..-+..+|++.... +....+|++.+.+......+.+|+.+|+.+|++..
T Consensus 98 ~yNg~~FDlP~L~~Ra~~~gi~~p~~~~~~~~~~~y~~r~~~~h~DL~~~~~~~~~~~~~~L~~va~~lG~~~K 171 (208)
T cd05782 98 SFNGRGFDLPVLHLRALIHGVSAPAYFDLGNKDWNYRNRYSERHLDLMDLLAFYGARARASLDLLAKLLGIPGK 171 (208)
T ss_pred ecCCCcCCHHHHHHHHHHhCCCCccccCcccchhhccCcCCCCcccHHHHHhccCccCCCCHHHHHHHhCCCCC
Confidence 9999 999999999888999852211 11237899988765544456699999999999653
No 65
>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=98.60 E-value=4.1e-07 Score=72.04 Aligned_cols=135 Identities=23% Similarity=0.305 Sum_probs=84.0
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHh
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNY 81 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~f 81 (230)
.+.++||+||+|+++.. . -..+..+.+..+ ...+++.|-.... .. +...+.++
T Consensus 20 ~~~~a~D~E~~~~~~~~-~-~~~~~~iq~~~~-----~~~~i~~~~~~~~-----------------~~---~~~~l~~l 72 (176)
T PF01612_consen 20 AKVLAFDTETTGLDPYS-Y-NPKIALIQLATG-----EGCYIIDPIDLGD-----------------NW---ILDALKEL 72 (176)
T ss_dssp TSEEEEEEEEETSTSTT-S-SEEEEEEEEEES-----CEEEEECGTTSTT-----------------TT---HHHHHHHH
T ss_pred CCeEEEEEEECCCCccc-c-CCeEEEEEEecC-----CCceeeeeccccc-----------------cc---hHHHHHHH
Confidence 35799999999998842 1 112233333221 2233333321100 01 56666677
Q ss_pred cCCC--eEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCCCcHHHHHHHh-C-CCCCCC----CCC
Q psy8196 82 VSNS--EIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRY-N-ISKIHR----TLH 153 (230)
Q Consensus 82 l~~~--~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~-g-i~~~~r----~~H 153 (230)
+.+. ..|+||++||..+|.+. .|+... .++||+.+++.+.|..+.+|++|+..| | ++.+.. ...
T Consensus 73 l~~~~i~kv~~n~~~D~~~L~~~---~~i~~~-----~~~D~~l~~~~l~~~~~~~L~~L~~~~l~~~~~~~~~~~~~~~ 144 (176)
T PF01612_consen 73 LEDPNIIKVGHNAKFDLKWLYRS---FGIDLK-----NVFDTMLAAYLLDPTRSYSLKDLAEEYLGNIDLDKKEQMSDWR 144 (176)
T ss_dssp HTTTTSEEEESSHHHHHHHHHHH---HTS--S-----SEEEHHHHHHHTTTSTTSSHHHHHHHHHSEEE-GHCCTTSSTT
T ss_pred HhCCCccEEEEEEechHHHHHHH---hccccC-----CccchhhhhhcccccccccHHHHHHHHhhhccCcHHHhhccCC
Confidence 7644 58999999999998754 565432 378998888888887778999999887 5 332110 111
Q ss_pred --C---------HHHHHHHHHHHHHHHHc
Q psy8196 154 --G---------GLLDAELLAEVYLAMTR 171 (230)
Q Consensus 154 --~---------Al~Da~~~a~v~~~l~~ 171 (230)
+ |-.||..+.++|..|..
T Consensus 145 ~~~~l~~~~~~YAa~D~~~~~~l~~~l~~ 173 (176)
T PF01612_consen 145 KARPLSEEQIEYAAQDAVVTFRLYEKLKP 173 (176)
T ss_dssp TSSS-HHHHHHHHHHHHHTHHHHHHHHHH
T ss_pred cCCCChHHHHHHHHHHHHHHHHHHHHHHH
Confidence 2 56699999999988764
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=98.58 E-value=5.8e-07 Score=74.16 Aligned_cols=120 Identities=18% Similarity=0.254 Sum_probs=82.1
Q ss_pred CceEEEEecCCCCC--------CCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHH
Q psy8196 2 HRHIVLDIETTGLN--------IIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSE 73 (230)
Q Consensus 2 ~~~ivlD~ETTGl~--------~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~e 73 (230)
.+.+.||+||++.. +. +++|+.||+..-.+ +...+.. ..++..+
T Consensus 9 lkilsfDIE~~~~~~~~~p~p~~~-~d~Ii~Is~~~~~~-------~~~~~~~--------------------~~~~E~~ 60 (207)
T cd05785 9 LRRLQLDIETYSLPGFFFSNPDRG-DDRIIIVALRDNRG-------WEEVLHA--------------------EDAAEKE 60 (207)
T ss_pred ceEEEEEEEecCCCCccCCCCCCC-CCeEEEEecccCCC-------ceeeecc--------------------CCCCHHH
Confidence 36799999996532 23 37999999752211 1111111 1366788
Q ss_pred HHHHHHHhcCC---CeEEEEcc-cccHHHHHHHHHHcCCCC-ccc----------------------c---c-chHhHHH
Q psy8196 74 IVDNFLNYVSN---SEIIIHNA-AFDVGFLDMELSLLGYSN-FTK----------------------Y---I-YRITDTL 122 (230)
Q Consensus 74 v~~~~~~fl~~---~~lV~hna-~FD~~~L~~~l~~~g~~~-~~~----------------------~---~-~~~iDtl 122 (230)
++..|.+++.. ..+++||. .||+++|...+.++|++. +.. . . ..++|++
T Consensus 61 lL~~f~~~i~~~dPdii~g~N~~~FD~pyl~~R~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~i~Gr~~iDl~ 140 (207)
T cd05785 61 LLEELVAIIRERDPDVIEGHNIFRFDLPYLRRRCRRHGVPLAIGRDGSIPRQRPSRFRFAERLIDYPRYDIPGRHVIDTY 140 (207)
T ss_pred HHHHHHHHHHHhCCCEEeccCCcccCHHHHHHHHHHhCCCcccccCCCcceEeeccccccccccccceEEecCEEEEEcH
Confidence 99999999965 46889999 999999999999988763 100 0 0 1248999
Q ss_pred HHHHHH----cCCCCCcHHHHHHHhCCCCCC
Q psy8196 123 LMARKI----HTGKRNSLDALCDRYNISKIH 149 (230)
Q Consensus 123 ~lar~~----~p~~~~~L~~L~~~~gi~~~~ 149 (230)
.+.++. +...+++|+++|+.||+....
T Consensus 141 ~~~~~~~~~~~~l~sysL~~Va~~~g~~~~~ 171 (207)
T cd05785 141 FLVQLFDVSSRDLPSYGLKAVAKHFGLASPD 171 (207)
T ss_pred HHHHhhcccccCCCCCCHHHHHHHhcccCCC
Confidence 888763 233467999999999886543
No 67
>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=98.58 E-value=2.3e-06 Score=70.47 Aligned_cols=136 Identities=18% Similarity=0.209 Sum_probs=84.2
Q ss_pred ceEEEEecCCCC-----CCCCCCceEEEEEEEEECCEEe-ccee-----EE-EEcCCCCCChhhHhhcCCCHHHHhCCCC
Q psy8196 3 RHIVLDIETTGL-----NIIDGHRIIEIGCVEIKNRQIT-GNNL-----HY-YINPGRDSEKSALAIHGLTTKFLKNKLK 70 (230)
Q Consensus 3 ~~ivlD~ETTGl-----~~~~~~~IieIg~v~~~~~~~~-~~~f-----~~-~i~P~~~i~~~a~~i~Git~e~l~~~~~ 70 (230)
+.+.||+||.+. +|. .+.||.|+++.-..+... .+.. +. ...|..++ .|. -.+.....
T Consensus 3 rilafDIE~~~~~~~fP~~~-~D~Ii~IS~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~-------~~~--~~v~~~~~ 72 (204)
T cd05779 3 RVLAFDIETTKLPLKFPDAE-TDQIMMISYMIDGQGYLIVNREIVSEDIEDFEYTPKPEY-------EGP--FKVFNEPD 72 (204)
T ss_pred eEEEEEEEecCCCCCCcCCC-CCeEEEEEEEEecCCEEEecccccccccccccccCCCCC-------CCc--eEEecCCC
Confidence 678999999752 344 399999998864333211 0000 00 00011111 110 01112356
Q ss_pred HHHHHHHHHHhcCCC---eEEEEcc-cccHHHHHHHHHHcCCCCc---cc-------c---cchHhHHHHHHHHHc--CC
Q psy8196 71 FSEIVDNFLNYVSNS---EIIIHNA-AFDVGFLDMELSLLGYSNF---TK-------Y---IYRITDTLLMARKIH--TG 131 (230)
Q Consensus 71 ~~ev~~~~~~fl~~~---~lV~hna-~FD~~~L~~~l~~~g~~~~---~~-------~---~~~~iDtl~lar~~~--p~ 131 (230)
..+++.+|.+++... .+++||. .||+++|..-..++|++.. .. + -...+|.+...++.. +.
T Consensus 73 E~~lL~~f~~~i~~~~Pd~i~gyN~~~FD~pyl~~R~~~~~~~~~~~~g~~~~~~~~~~~~gr~~iDl~~~~~~~~~l~~ 152 (204)
T cd05779 73 EKALLQRFFEHIREVKPHIIVTYNGDFFDWPFVEARAAIHGLSMEEEIGFRKDSEGEYKSRYIIHMDCFRWVKRDSYLPQ 152 (204)
T ss_pred HHHHHHHHHHHHHHhCCCEEEecCccccCHHHHHHHHHHhCCCchhhhCeEecCCCeEEeccEEEEEhHHHHHHhhcCCC
Confidence 788999999999654 5899999 9999999988888887522 00 0 012588888877642 34
Q ss_pred CCCcHHHHHHH-hCCCCC
Q psy8196 132 KRNSLDALCDR-YNISKI 148 (230)
Q Consensus 132 ~~~~L~~L~~~-~gi~~~ 148 (230)
.+.+|+++|+. +|....
T Consensus 153 ~sysLd~Va~~~Lg~~K~ 170 (204)
T cd05779 153 GSQGLKAVTKAKLGYDPV 170 (204)
T ss_pred CCccHHHHHHHHhCCCcC
Confidence 56799999996 677554
No 68
>KOG4793|consensus
Probab=98.57 E-value=1.1e-07 Score=79.59 Aligned_cols=164 Identities=23% Similarity=0.268 Sum_probs=109.3
Q ss_pred CceEEEEecCCCCCCCCCCceEEEEEEEEE-----CC-EE-------------ecceeEEEEcCCCCCChhhHhhcCCCH
Q psy8196 2 HRHIVLDIETTGLNIIDGHRIIEIGCVEIK-----NR-QI-------------TGNNLHYYINPGRDSEKSALAIHGLTT 62 (230)
Q Consensus 2 ~~~ivlD~ETTGl~~~~~~~IieIg~v~~~-----~~-~~-------------~~~~f~~~i~P~~~i~~~a~~i~Git~ 62 (230)
..++++|.|+||++... ..|.|++...+. +- +. +....+....|.....+.+.+|+|+++
T Consensus 13 ~tf~fldleat~lp~~~-~~iteLcLlav~assle~k~~e~dq~~~~tlp~~Rvl~Klsvl~~p~~v~~p~aeeitgls~ 91 (318)
T KOG4793|consen 13 RTFSFLDLEATGLPGWI-PNITELCLLAVHASSLEGKAREIDQNVSTTLPGSRVLDKLSVLGGPVPVTRPIAEEITGLSQ 91 (318)
T ss_pred eEEEeeeeccccCCccc-ccchhhhHHHHHHHhhcCCccccccCCCccCCccchhhhhhhccCCcCCcChhhhhhccccc
Confidence 35799999999998765 678887754331 11 00 011355666788888999999999999
Q ss_pred HHHh--CCCCHHH-HHHHHHHhcCCC----eEEEEcc-cccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHc-----
Q psy8196 63 KFLK--NKLKFSE-IVDNFLNYVSNS----EIIIHNA-AFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIH----- 129 (230)
Q Consensus 63 e~l~--~~~~~~e-v~~~~~~fl~~~----~lV~hna-~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~----- 129 (230)
+++. ....|+. +.+-+..|+..- -+|+||. .||+..|.++++..|+..+... ..+|++.+-+.+.
T Consensus 92 ~~~~l~rr~~~D~dla~LL~afls~lp~p~CLVaHng~~~dfpil~qela~lg~~lpq~l--vcvdslpa~~ald~a~s~ 169 (318)
T KOG4793|consen 92 PFLALQRRLAFDKDLAKLLTAFLSRLPTPGCLVAHNGNEYDFPILAQELAGLGYSLPQDL--VCVDSLPALNALDRANSM 169 (318)
T ss_pred HHHHHHHHhhhhHHHHHHHHHHHhcCCCCceEEeecCCccccHHHHHHHHhcCccchhhh--cCcchhHHHHHHhhhcCc
Confidence 8876 3334554 444455577543 3899999 9999999999999998754432 1457666655542
Q ss_pred ---CC-C-CCcHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHHHH
Q psy8196 130 ---TG-K-RNSLDALCDRYNISKIHRTLHGGLLDAELLAEVYLA 168 (230)
Q Consensus 130 ---p~-~-~~~L~~L~~~~gi~~~~r~~H~Al~Da~~~a~v~~~ 168 (230)
|. . .++|..+..+|--.++.-..|.|..|...+.-++..
T Consensus 170 ~tr~~~~~~~~l~~If~ry~~q~eppa~~~~e~d~~~l~~~fqf 213 (318)
T KOG4793|consen 170 VTRPEVRRMYSLGSIFLRYVEQREPPAGHVAEGDVNGLLFIFQF 213 (318)
T ss_pred ccCCCCCcccccchHHHhhhcccCCCcceeeecccchhHHHHHH
Confidence 21 2 248888888884443333467777776665555543
No 69
>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=98.43 E-value=1.3e-05 Score=61.69 Aligned_cols=64 Identities=28% Similarity=0.381 Sum_probs=49.9
Q ss_pred HHHHHHHHHhcCCCe--EEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC-CCcHHHHHHHh
Q psy8196 72 SEIVDNFLNYVSNSE--IIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK-RNSLDALCDRY 143 (230)
Q Consensus 72 ~ev~~~~~~fl~~~~--lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~-~~~L~~L~~~~ 143 (230)
..+.+.+.+++.+.. +|+||++||+.+|.+ .+.... ..++||+.+++.+.|.. +++|++++++|
T Consensus 40 ~~~~~~l~~~l~~~~~~~v~~~~k~d~~~L~~----~~~~~~----~~~~D~~~~ayll~~~~~~~~l~~l~~~~ 106 (155)
T cd00007 40 EEDLEALKELLEDEDITKVGHDAKFDLVVLAR----DGIELP----GNIFDTMLAAYLLNPGEGSHSLDDLAKEY 106 (155)
T ss_pred HHHHHHHHHHHcCCCCcEEeccHHHHHHHHHH----CCCCCC----CCcccHHHHHHHhCCCCCcCCHHHHHHHH
Confidence 456677788887653 899999999999853 333211 24799999999999977 67999999998
No 70
>COG0349 Rnd Ribonuclease D [Translation, ribosomal structure and biogenesis]
Probab=98.40 E-value=8.2e-06 Score=71.84 Aligned_cols=131 Identities=21% Similarity=0.248 Sum_probs=88.6
Q ss_pred ceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhc
Q psy8196 3 RHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYV 82 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl 82 (230)
.+|.+||||.|..+.. ++ +|.|.+.++ .. ...|+|-..+ .+.++|.. .+
T Consensus 18 ~~iAiDTEf~r~~t~~-p~---LcLIQi~~~----e~-~~lIdpl~~~---------------~d~~~l~~-------Ll 66 (361)
T COG0349 18 KAIAIDTEFMRLRTYY-PR---LCLIQISDG----EG-ASLIDPLAGI---------------LDLPPLVA-------LL 66 (361)
T ss_pred CceEEecccccccccC-Cc---eEEEEEecC----CC-ceEecccccc---------------cccchHHH-------Hh
Confidence 4799999999999886 54 555555442 22 5567765321 12234433 33
Q ss_pred CCC--eEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCCCcHHHHHHHh-CCCCCC--C-------
Q psy8196 83 SNS--EIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRY-NISKIH--R------- 150 (230)
Q Consensus 83 ~~~--~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~-gi~~~~--r------- 150 (230)
.+. .-|-|++.||+.+|.+.| |+-+. +++||..+++..--+.+++|++||++| |+..+. .
T Consensus 67 ~d~~v~KIfHaa~~DL~~l~~~~---g~~p~-----plfdTqiAa~l~g~~~~~gl~~Lv~~ll~v~ldK~~q~SDW~~R 138 (361)
T COG0349 67 ADPNVVKIFHAARFDLEVLLNLF---GLLPT-----PLFDTQIAAKLAGFGTSHGLADLVEELLGVELDKSEQRSDWLAR 138 (361)
T ss_pred cCCceeeeeccccccHHHHHHhc---CCCCC-----chhHHHHHHHHhCCcccccHHHHHHHHhCCcccccccccccccC
Confidence 333 359999999999987544 44322 489999999887545588999999887 665443 1
Q ss_pred -----CCCCHHHHHHHHHHHHHHHHcC
Q psy8196 151 -----TLHGGLLDAELLAEVYLAMTRG 172 (230)
Q Consensus 151 -----~~H~Al~Da~~~a~v~~~l~~~ 172 (230)
..-=|..|+..+..+|.+|...
T Consensus 139 PLs~~Ql~YAa~DV~yL~~l~~~L~~~ 165 (361)
T COG0349 139 PLSEAQLEYAAADVEYLLPLYDKLTEE 165 (361)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 1233889999999999998754
No 71
>PHA02570 dexA exonuclease; Provisional
Probab=98.39 E-value=2.3e-06 Score=70.31 Aligned_cols=126 Identities=17% Similarity=0.206 Sum_probs=78.1
Q ss_pred eEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcC------------C-CCCChhhHhhc-CCCHH---HHh
Q psy8196 4 HIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINP------------G-RDSEKSALAIH-GLTTK---FLK 66 (230)
Q Consensus 4 ~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P------------~-~~i~~~a~~i~-Git~e---~l~ 66 (230)
-+++|+||.|..|. ..|++||+|.++...-.+..|+.+|+. . +.++...+.-. .=+.| .|.
T Consensus 3 dlMIDlETmG~~p~--AaIisIgAV~Fdp~~~~g~tF~elV~~~~~~k~d~~sq~g~~~~d~~TI~WW~kQS~EAR~~L~ 80 (220)
T PHA02570 3 DFIIDFETFGNTPD--GAVIDLAVIAFEHDPHNPPTFEELVSRGRRIKFDLKSQKGKRLFDKSTIEWWKNQSPEARKNLK 80 (220)
T ss_pred eEEEEeeccCCCCC--ceEEEEEEEEecCCCCccccHHHHhhcccccccchhhccCCCccCchHHHHHHhCCHHHHHhcc
Confidence 47899999999987 799999999998532234456655542 1 22222222211 11111 121
Q ss_pred ---CCCCHHHHHHHHHHhcCC-------CeEEEEcccccHHHHHHHHHHc----C--CC-CcccccchHhHHHHHHHHHc
Q psy8196 67 ---NKLKFSEIVDNFLNYVSN-------SEIIIHNAAFDVGFLDMELSLL----G--YS-NFTKYIYRITDTLLMARKIH 129 (230)
Q Consensus 67 ---~~~~~~ev~~~~~~fl~~-------~~lV~hna~FD~~~L~~~l~~~----g--~~-~~~~~~~~~iDtl~lar~~~ 129 (230)
+..+..+++.+|.+|+.. ..+.+-.++||...|...++++ + .+ |+.....+-+-|+.-++.+.
T Consensus 81 ~s~~~~~l~~al~~F~~fi~~~~~~~~~~~vWgnG~sFD~~IL~~a~r~~~~~~~~~~~~Pw~fwN~RDVRT~ie~~~l~ 160 (220)
T PHA02570 81 PSDEDVSTYEGHKKFFEYLEANGVDPWKSQGWCRGNSFDFPILVDVIRDIHNTRDTFKLEPVKFWNQRDVRTAIEATLLT 160 (220)
T ss_pred CCCccccHHHHHHHHHHHHHHcCCCccceeEecCCCccCHHHHHHHHHHHhcccCcCcCCCeeecCccchHHHHhhhhcc
Confidence 235788999999999952 1256666799999999999888 6 34 33322234566666665554
Q ss_pred CC
Q psy8196 130 TG 131 (230)
Q Consensus 130 p~ 131 (230)
.+
T Consensus 161 r~ 162 (220)
T PHA02570 161 RG 162 (220)
T ss_pred CC
Confidence 44
No 72
>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=98.30 E-value=1.8e-06 Score=73.80 Aligned_cols=164 Identities=23% Similarity=0.358 Sum_probs=94.5
Q ss_pred ceEEEEecCCCCCCCC--------------------CCceEEEEEEEE-E-CCEEe----cceeEEEEcCC-CC-CChhh
Q psy8196 3 RHIVLDIETTGLNIID--------------------GHRIIEIGCVEI-K-NRQIT----GNNLHYYINPG-RD-SEKSA 54 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~--------------------~~~IieIg~v~~-~-~~~~~----~~~f~~~i~P~-~~-i~~~a 54 (230)
.+|++|+|.||+.... .-.|+++|...+ + ++... ...|..++-|. +. .+..+
T Consensus 23 ~fvaiD~EftGl~~~~~~~~~~t~~~rY~~~r~~v~~~~iiQ~Glt~f~~~~~~~~~~~~~~~~nf~~f~~~~~~~~~~s 102 (262)
T PF04857_consen 23 DFVAIDTEFTGLVSKPPRSRFDTPEERYEKLRANVETFQIIQFGLTLFHDEDGNIPSSYNVWPFNFYLFPLDRDFSQASS 102 (262)
T ss_dssp SEEEEEEEES-S-SSS-SHCSSHHHHHHHHHHHHHTTBEEEEEEEEEETTTTSEEECCEEEEEEEBSTTSTTTCEEEHHH
T ss_pred CEEEEEeeccccccCCCccccccHHHHHHHHHHhhcccccceeeEEEeecccccCCceeEEEEeeeeccccccceecchh
Confidence 5899999999997532 157999999988 3 22222 12333342232 22 23333
Q ss_pred H---hhcCCCHHHHh-CCCCHHHHHH-----HHHHh---c---CC--CeEEEEcccccHHHHHHHHHHcCCCCc-c----
Q psy8196 55 L---AIHGLTTKFLK-NKLKFSEIVD-----NFLNY---V---SN--SEIIIHNAAFDVGFLDMELSLLGYSNF-T---- 112 (230)
Q Consensus 55 ~---~i~Git~e~l~-~~~~~~ev~~-----~~~~f---l---~~--~~lV~hna~FD~~~L~~~l~~~g~~~~-~---- 112 (230)
. .-||+.-+.+. ++-++....+ +...+ + .+ .++|+||+-+|+.+|-+.|.. .+|.. .
T Consensus 103 l~FL~~~gfDFn~~~~~GI~y~~~~ee~~~~~~~g~~~v~~~~~~~~~p~Vghn~~~Dl~~l~~~f~~-~LP~t~~eF~~ 181 (262)
T PF04857_consen 103 LQFLRKNGFDFNKWFRDGIPYLSFAEEEKARELLGFSGVIDALKSSKKPIVGHNGLYDLMYLYKKFIG-PLPETLEEFKE 181 (262)
T ss_dssp HHHHHHTT--HHHHHHH-B-HHHHHHHHHHHHHHHTCCCSSHCHCC-SEEEESSTHHHHHHHHHHHTT-S--SSHHHHHH
T ss_pred HHHHHHcccCHHHHHHhCCCcccccccchhhhhHHHHHHHHHhhccCCcEEEeChHhHHHHHHHHhcC-CCCCCHHHHHH
Confidence 3 33677765543 4444443332 22222 1 12 579999999999998766544 34311 0
Q ss_pred ---cccchHhHHHHHHHHHcCCCCCcHHHHHHHhCCCC-----------------------CCCCCCCHHHHHHHHHHHH
Q psy8196 113 ---KYIYRITDTLLMARKIHTGKRNSLDALCDRYNISK-----------------------IHRTLHGGLLDAELLAEVY 166 (230)
Q Consensus 113 ---~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~gi~~-----------------------~~r~~H~Al~Da~~~a~v~ 166 (230)
.+-..++||-.++.... ....+|+.|++.+++.. .++..|.|=.||.+|+.||
T Consensus 182 ~~~~~FP~i~DtK~la~~~~-~~~~~L~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~HeAGyDA~mTg~~F 260 (262)
T PF04857_consen 182 LLRELFPRIYDTKYLAEECP-GKSTSLQELAEELGIRRNPSSISSPEGFPSYDEEKNNFPMFGEKAHEAGYDAYMTGCVF 260 (262)
T ss_dssp HHHHHSSSEEEHHHHHTSTT-TS-SSHHHHHHHTTSTT----EEE-TTS-------------SS-TTSHHHHHHHHHHHH
T ss_pred HHHHHCcccccHHHHHHhcc-ccccCHHHHHHHhCCCccccccccccccccccccccccccCCCCCCCcchHHHHHHHHH
Confidence 00013677766665443 34559999999999876 4445999999999999998
Q ss_pred HH
Q psy8196 167 LA 168 (230)
Q Consensus 167 ~~ 168 (230)
.+
T Consensus 261 ~~ 262 (262)
T PF04857_consen 261 IK 262 (262)
T ss_dssp HH
T ss_pred cC
Confidence 74
No 73
>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=98.20 E-value=3.8e-05 Score=62.65 Aligned_cols=120 Identities=15% Similarity=0.117 Sum_probs=77.8
Q ss_pred ceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhc
Q psy8196 3 RHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYV 82 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl 82 (230)
+.+.||+||+|. .+|+.||......+ ..-.+-.+.. .. |. .+.--+...+++..|.+++
T Consensus 4 ~~~~fDIE~~~~-----~~i~~i~~~~~~~~-----~i~~~~~~~~-~~-------~~---~v~~~~~E~~lL~~f~~~i 62 (193)
T cd05784 4 KVVSLDIETSMD-----GELYSIGLYGEGQE-----RVLMVGDPED-DA-------PD---NIEWFADEKSLLLALIAWF 62 (193)
T ss_pred cEEEEEeecCCC-----CCEEEEEeecCCCC-----EEEEECCCCC-CC-------CC---EEEEECCHHHHHHHHHHHH
Confidence 678999999864 36888887432111 1111111111 00 10 1112256688999999988
Q ss_pred CCC---eEEEEcc-cccHHHHHHHHHHcCCCC-ccc-------------------ccc-hHhHHHHHHHH-HcCCCCCcH
Q psy8196 83 SNS---EIIIHNA-AFDVGFLDMELSLLGYSN-FTK-------------------YIY-RITDTLLMARK-IHTGKRNSL 136 (230)
Q Consensus 83 ~~~---~lV~hna-~FD~~~L~~~l~~~g~~~-~~~-------------------~~~-~~iDtl~lar~-~~p~~~~~L 136 (230)
... .+++||. .||+++|..-+.++|++. +.. ... .++|++...+. .++-.+++|
T Consensus 63 ~~~dPDvi~g~N~~~FD~~yl~~R~~~~~i~~~~gR~~~~~~~~~~g~~~~~~~~i~GR~~~D~~~~~k~~~~kl~sy~L 142 (193)
T cd05784 63 AQYDPDIIIGWNVINFDLRLLQRRAEAHGLPLRLGRGGSPLNWRQSGKPGQGFLSLPGRVVLDGIDALKTATYHFESFSL 142 (193)
T ss_pred HhhCCCEEEECCCcCcCHHHHHHHHHHhCCCcccccCCCccccccCCcCCcceEEEeeEEEEEhHHHHHHccCCCCcCCH
Confidence 654 5999999 999999999898888763 110 111 26888888876 466667899
Q ss_pred HHHHHHh
Q psy8196 137 DALCDRY 143 (230)
Q Consensus 137 ~~L~~~~ 143 (230)
+++|+.+
T Consensus 143 ~~Va~~~ 149 (193)
T cd05784 143 ENVAQEL 149 (193)
T ss_pred HHHHHHH
Confidence 9999976
No 74
>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=98.18 E-value=5.8e-05 Score=63.21 Aligned_cols=130 Identities=17% Similarity=0.142 Sum_probs=84.6
Q ss_pred CceEEEEecCCCC-----CCCCCCceEEEEEEEEECCE--EecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHH
Q psy8196 2 HRHIVLDIETTGL-----NIIDGHRIIEIGCVEIKNRQ--ITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEI 74 (230)
Q Consensus 2 ~~~ivlD~ETTGl-----~~~~~~~IieIg~v~~~~~~--~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev 74 (230)
.+.+.||+||+.. +|.. ++|+.|+++.-.++. ...+ .-..+++...++ | ..+..-+...++
T Consensus 7 l~~ls~DIE~~s~~g~fP~p~~-D~Ii~Is~~~~~~~~~~~~~~-~~~~l~~~~~~~-------~---~~v~~~~~E~eL 74 (230)
T cd05777 7 LRILSFDIECAGRKGVFPEPEK-DPVIQIANVVTRQGEGEPFIR-NIFTLKTCAPIV-------G---AQVFSFETEEEL 74 (230)
T ss_pred ceEEEEEEEECCCCCCCCCCCC-CeEEEEEEEEEeCCCCCCcee-EEEEeCCCCCCC-------C---CEEEEECCHHHH
Confidence 3678999999732 4554 899999998654332 1111 111223221111 1 111223567889
Q ss_pred HHHHHHhcCC---CeEEEEcc-cccHHHHHHHHHHcCCCCccc------------------------------cc-chHh
Q psy8196 75 VDNFLNYVSN---SEIIIHNA-AFDVGFLDMELSLLGYSNFTK------------------------------YI-YRIT 119 (230)
Q Consensus 75 ~~~~~~fl~~---~~lV~hna-~FD~~~L~~~l~~~g~~~~~~------------------------------~~-~~~i 119 (230)
+..|.+++.. ..++|||. .||+++|..-+.++|++.+.. +. ..++
T Consensus 75 L~~f~~~i~~~DPDii~GyN~~~FDl~yL~~R~~~l~i~~~~~lgR~~~~~~~~~~~~~~~~~~g~~~~~~~~i~GR~~i 154 (230)
T cd05777 75 LLAWRDFVQEVDPDIITGYNICNFDLPYLLERAKALKLNTFPFLGRIKNIKSTIKDTTFSSKQMGTRETKEINIEGRIQF 154 (230)
T ss_pred HHHHHHHHHhcCCCEEEEecCCCCCHHHHHHHHHHhCCccccccccccCCceeEeCCcccccccccccceEEEEcCEEee
Confidence 9999998864 46999998 999999988888877652100 00 1357
Q ss_pred HHHHHHHHHcCCCCCcHHHHHHHh
Q psy8196 120 DTLLMARKIHTGKRNSLDALCDRY 143 (230)
Q Consensus 120 Dtl~lar~~~p~~~~~L~~L~~~~ 143 (230)
|+....+..+.-.+++|+++|+.+
T Consensus 155 D~~~~~~~~~kl~sy~L~~Va~~~ 178 (230)
T cd05777 155 DLLQVIQRDYKLRSYSLNSVSAHF 178 (230)
T ss_pred eHHHHHHHhcCcccCcHHHHHHHH
Confidence 899888887766677999999866
No 75
>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=98.16 E-value=5.1e-05 Score=59.93 Aligned_cols=86 Identities=20% Similarity=0.110 Sum_probs=64.0
Q ss_pred HHHHhcCCC--eEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCCCcHHHHHHHh-CCCCCC----
Q psy8196 77 NFLNYVSNS--EIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRY-NISKIH---- 149 (230)
Q Consensus 77 ~~~~fl~~~--~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~-gi~~~~---- 149 (230)
.+.+++.+. ..|+|+++.|...|.+ .+|+... .++|+..+++.+.|..+.+|++++++| |+..+.
T Consensus 58 ~L~~lL~d~~i~Kvg~~~k~D~~~L~~---~~gi~~~-----~~~D~~~aa~ll~~~~~~~L~~l~~~~lg~~l~K~~~~ 129 (161)
T cd06129 58 GLKMLLENPSIVKALHGIEGDLWKLLR---DFGEKLQ-----RLFDTTIAANLKGLPERWSLASLVEHFLGKTLDKSISC 129 (161)
T ss_pred HHHHHhCCCCEEEEEeccHHHHHHHHH---HcCCCcc-----cHhHHHHHHHHhCCCCCchHHHHHHHHhCCCCCcccee
Confidence 344566654 3599999999988743 2565321 379999999999887567999999997 765422
Q ss_pred -----C-----CCCCHHHHHHHHHHHHHHHH
Q psy8196 150 -----R-----TLHGGLLDAELLAEVYLAMT 170 (230)
Q Consensus 150 -----r-----~~H~Al~Da~~~a~v~~~l~ 170 (230)
| ..|=|..||..+..||.+|.
T Consensus 130 s~W~~rpLt~~qi~YAa~Da~~l~~l~~~l~ 160 (161)
T cd06129 130 ADWSYRPLTEDQKLYAAADVYALLIIYTKLR 160 (161)
T ss_pred ccCCCCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 1 35679999999999999875
No 76
>KOG0304|consensus
Probab=98.11 E-value=2.4e-05 Score=63.84 Aligned_cols=168 Identities=15% Similarity=0.243 Sum_probs=107.2
Q ss_pred ceEEEEecCCCCC--CC------------------CCCceEEEEEEEEEC--CEEe----cceeEEE-EcCCCC-C---C
Q psy8196 3 RHIVLDIETTGLN--II------------------DGHRIIEIGCVEIKN--RQIT----GNNLHYY-INPGRD-S---E 51 (230)
Q Consensus 3 ~~ivlD~ETTGl~--~~------------------~~~~IieIg~v~~~~--~~~~----~~~f~~~-i~P~~~-i---~ 51 (230)
++|++|||..|.= |. ..-.+|++|.-..+. +.++ .-.|+.- .++.++ . |
T Consensus 25 ~~IamDTEFPGvv~rp~~~f~s~~d~~Y~~lk~NVd~lklIQlGlTlsd~~Gn~p~~g~~tWqfNF~dF~~~~D~~a~~S 104 (239)
T KOG0304|consen 25 PYIAMDTEFPGVVARPIGTFRSSDDYHYQTLKCNVDNLKLIQLGLTLSDEKGNLPDCGTDTWQFNFSDFNLEKDMYAQDS 104 (239)
T ss_pred CeeEecCcCCceeeecCccccCChHHHHHHHHhchhhhhhhheeeeeeccCCCCCCCCCceeEEecccCCchhhccchhh
Confidence 5799999987652 10 014799999988873 2231 1133333 333332 2 3
Q ss_pred hhhHhhcCCCHHHHhCC-CCHHHHHHHHHH---hcCCC-eEEEEcccccHHHHHHHHHHcCCCCcc--------cccchH
Q psy8196 52 KSALAIHGLTTKFLKNK-LKFSEIVDNFLN---YVSNS-EIIIHNAAFDVGFLDMELSLLGYSNFT--------KYIYRI 118 (230)
Q Consensus 52 ~~a~~i~Git~e~l~~~-~~~~ev~~~~~~---fl~~~-~lV~hna~FD~~~L~~~l~~~g~~~~~--------~~~~~~ 118 (230)
-+-.+-+||.-+...+. -.-.+..+.+.. -+.+. ..|...+.+|.++|-+-+..-.+|... .+...+
T Consensus 105 IElLr~~Gidf~K~~e~GI~~~~F~ellm~sg~v~~~~V~WvTFhs~YDfgYLlK~Lt~~~LP~~~~eF~~~v~~~fp~v 184 (239)
T KOG0304|consen 105 IELLRRSGIDFEKHREEGIDIEEFAELLMTSGLVLDENVTWVTFHSGYDFGYLLKILTGKPLPETEEEFFEIVRQLFPFV 184 (239)
T ss_pred HHHHHHcCcCHHHHHHcCCCHHHHHHHHHHhhhhccCceEEEEeeccchHHHHHHHHcCCCCcchHHHHHHHHHHHcchh
Confidence 34445689998877744 233333333333 22334 478999999999998877776665211 111236
Q ss_pred hHHHHHHHHHcC-CCCCcHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHHHHHHc
Q psy8196 119 TDTLLMARKIHT-GKRNSLDALCDRYNISKIHRTLHGGLLDAELLAEVYLAMTR 171 (230)
Q Consensus 119 iDtl~lar~~~p-~~~~~L~~L~~~~gi~~~~r~~H~Al~Da~~~a~v~~~l~~ 171 (230)
.|+-.+++.-.. ....+|+.+|..+++..-+ ..|.|=+|+++|+.+|.+|..
T Consensus 185 YDiK~l~~~c~~~~l~~GL~~lA~~L~~~RvG-~~HqAGSDSlLT~~~F~kl~~ 237 (239)
T KOG0304|consen 185 YDVKYLMKFCEGLSLKGGLQRLADLLGLKRVG-IAHQAGSDSLLTARVFFKLKE 237 (239)
T ss_pred hhHHHHHHhhhhhhhhcCHHHHHHHhCCCeee-cccccCcHHHHHHHHHHHHHh
Confidence 777666654432 2344899999999999987 499999999999999999863
No 77
>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=98.06 E-value=6.2e-05 Score=59.72 Aligned_cols=87 Identities=15% Similarity=0.116 Sum_probs=64.4
Q ss_pred HHHHHhcCCC--eEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC-CCcHHHHHHHh-CCCCC--C
Q psy8196 76 DNFLNYVSNS--EIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK-RNSLDALCDRY-NISKI--H 149 (230)
Q Consensus 76 ~~~~~fl~~~--~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~-~~~L~~L~~~~-gi~~~--~ 149 (230)
..|.+++.+. ..|+|++++|+..|.+ .+|+.. . .++|++.+++.+.|.. ..+|.++++.| |+... .
T Consensus 63 ~~l~~ll~~~~i~kv~~~~k~D~~~L~~---~~g~~~-~----~~~Dl~~aa~ll~~~~~~~~l~~l~~~~l~~~~~k~k 134 (170)
T cd06141 63 PSLKQLLEDPSILKVGVGIKGDARKLAR---DFGIEV-R----GVVDLSHLAKRVGPRRKLVSLARLVEEVLGLPLSKPK 134 (170)
T ss_pred HHHHHHhcCCCeeEEEeeeHHHHHHHHh---HcCCCC-C----CeeeHHHHHHHhCCCcCCccHHHHHHHHcCcccCCCC
Confidence 3455666544 3699999999988743 456542 1 2689999999999874 36999999997 65443 1
Q ss_pred ---------C-----CCCCHHHHHHHHHHHHHHHH
Q psy8196 150 ---------R-----TLHGGLLDAELLAEVYLAMT 170 (230)
Q Consensus 150 ---------r-----~~H~Al~Da~~~a~v~~~l~ 170 (230)
| ..|=|..||..+.+||..|.
T Consensus 135 ~~~~s~W~~rpLt~~qi~YAa~Da~~~~~l~~~l~ 169 (170)
T cd06141 135 KVRCSNWEARPLSKEQILYAATDAYASLELYRKLL 169 (170)
T ss_pred CcccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 1 35679999999999999875
No 78
>smart00474 35EXOc 3'-5' exonuclease. 3\' -5' exonuclease proofreading domain present in DNA polymerase I, Werner syndrome helicase, RNase D and other enzymes
Probab=97.93 E-value=0.00089 Score=52.29 Aligned_cols=88 Identities=24% Similarity=0.319 Sum_probs=59.7
Q ss_pred HHHHHHhcCCC--eEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCC-CcHHHHHHHh-CCCCCC-
Q psy8196 75 VDNFLNYVSNS--EIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKR-NSLDALCDRY-NISKIH- 149 (230)
Q Consensus 75 ~~~~~~fl~~~--~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~-~~L~~L~~~~-gi~~~~- 149 (230)
...+.+++.+. ..|+||+++|+.+|. ++|+... . ++||+.+++.+.|+.+ ++|+.+++.| |...+.
T Consensus 64 ~~~l~~~l~~~~~~kv~~d~k~~~~~L~----~~gi~~~----~-~~D~~laayll~p~~~~~~l~~l~~~~l~~~~~~~ 134 (172)
T smart00474 64 LEILKDLLEDETITKVGHNAKFDLHVLA----RFGIELE----N-IFDTMLAAYLLLGGPSKHGLATLLKEYLGVELDKE 134 (172)
T ss_pred HHHHHHHhcCCCceEEEechHHHHHHHH----HCCCccc----c-hhHHHHHHHHHcCCCCcCCHHHHHHHHhCCCCCcc
Confidence 44566677643 489999999998885 3666422 2 5999999999999765 6999999998 554221
Q ss_pred --------CC-CC----CHHHHHHHHHHHHHHHHc
Q psy8196 150 --------RT-LH----GGLLDAELLAEVYLAMTR 171 (230)
Q Consensus 150 --------r~-~H----~Al~Da~~~a~v~~~l~~ 171 (230)
+. .. -|..||..+.++|..+..
T Consensus 135 ~~~~~~~~~~l~~~~~~ya~~~a~~~~~L~~~l~~ 169 (172)
T smart00474 135 EQKSDWGARPLSEEQLQYAAEDADALLRLYEKLEK 169 (172)
T ss_pred cCccccccCCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 00 01 155566667777766543
No 79
>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=97.85 E-value=0.00028 Score=57.53 Aligned_cols=93 Identities=17% Similarity=0.167 Sum_probs=62.7
Q ss_pred HHHHHhcCCC--eEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcC-----------CCCCcHHHHHHH
Q psy8196 76 DNFLNYVSNS--EIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHT-----------GKRNSLDALCDR 142 (230)
Q Consensus 76 ~~~~~fl~~~--~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p-----------~~~~~L~~L~~~ 142 (230)
..+.+++.+. ..|+|++.+|..+|.+.+...+.. ... ...++|+..+++.+.. ....+|.+||++
T Consensus 72 ~~L~~ll~d~~i~KVg~~~~~D~~~L~~~~~~~~~~-~~~-~~~v~Dl~~~a~~l~~~~~~~~~~~~~~~~~sL~~l~~~ 149 (193)
T cd06146 72 RLLKRLFEDPDVLKLGFGFKQDLKALSASYPALKCM-FER-VQNVLDLQNLAKELQKSDMGRLKGNLPSKTKGLADLVQE 149 (193)
T ss_pred HHHHHHhCCCCeeEEEechHHHHHHHHHhcCccccc-ccc-CCceEEHHHHHHHHhhccccccccccCcccCCHHHHHHH
Confidence 3455566554 359999999999997654432110 001 1248999999887643 234599999998
Q ss_pred h-CCCCCC---------C-----CCCCHHHHHHHHHHHHHHHH
Q psy8196 143 Y-NISKIH---------R-----TLHGGLLDAELLAEVYLAMT 170 (230)
Q Consensus 143 ~-gi~~~~---------r-----~~H~Al~Da~~~a~v~~~l~ 170 (230)
+ |.+.+. | ..+=|..||..+..||.+|.
T Consensus 150 ~lg~~l~K~~q~SdW~~rpLs~~Qi~YAA~Da~~l~~l~~~L~ 192 (193)
T cd06146 150 VLGKPLDKSEQCSNWERRPLREEQILYAALDAYCLLEVFDKLL 192 (193)
T ss_pred HhCCCcCcccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 7 544321 1 35669999999999999886
No 80
>PRK10829 ribonuclease D; Provisional
Probab=97.80 E-value=0.00032 Score=62.80 Aligned_cols=130 Identities=14% Similarity=0.136 Sum_probs=85.4
Q ss_pred ceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhc
Q psy8196 3 RHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYV 82 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl 82 (230)
..++||||+.+..... + .+|.|-+..+ .-.+.|+|-.. . -++.|.+++
T Consensus 23 ~~lalDtEf~~~~ty~-~---~l~LiQl~~~-----~~~~LiD~l~~----------------------~-d~~~L~~ll 70 (373)
T PRK10829 23 PAIALDTEFVRTRTYY-P---QLGLIQLYDG-----EQLSLIDPLGI----------------------T-DWSPFKALL 70 (373)
T ss_pred CeEEEecccccCccCC-C---ceeEEEEecC-----CceEEEecCCc----------------------c-chHHHHHHH
Confidence 5789999998876543 2 1333333221 12346666421 0 133455566
Q ss_pred CCCe--EEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCCCcHHHHHHHh-CCCCCC---------C
Q psy8196 83 SNSE--IIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRY-NISKIH---------R 150 (230)
Q Consensus 83 ~~~~--lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~-gi~~~~---------r 150 (230)
.+.. .|.|++.+|+.+|.+ .+|+.+. .++||..+++.+.-+.+.+|.+|++.| |+..+. |
T Consensus 71 ~~~~ivKV~H~~~~Dl~~l~~---~~g~~p~-----~~fDTqiaa~~lg~~~~~gl~~Lv~~~lgv~ldK~~~~sDW~~R 142 (373)
T PRK10829 71 RDPQVTKFLHAGSEDLEVFLN---AFGELPQ-----PLIDTQILAAFCGRPLSCGFASMVEEYTGVTLDKSESRTDWLAR 142 (373)
T ss_pred cCCCeEEEEeChHhHHHHHHH---HcCCCcC-----CeeeHHHHHHHcCCCccccHHHHHHHHhCCccCcccccCCCCCC
Confidence 5554 479999999999854 4565432 389999999877544567999999886 765432 1
Q ss_pred -----CCCCHHHHHHHHHHHHHHHHcC
Q psy8196 151 -----TLHGGLLDAELLAEVYLAMTRG 172 (230)
Q Consensus 151 -----~~H~Al~Da~~~a~v~~~l~~~ 172 (230)
..+=|..|+..+..+|..|...
T Consensus 143 PLs~~ql~YAa~Dv~~L~~l~~~L~~~ 169 (373)
T PRK10829 143 PLSERQCEYAAADVFYLLPIAAKLMAE 169 (373)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 2455899999999999987643
No 81
>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=97.77 E-value=0.00021 Score=58.38 Aligned_cols=89 Identities=24% Similarity=0.247 Sum_probs=62.1
Q ss_pred HHHHHhcCCC--eEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCC--------CcHHHHHHHh-C
Q psy8196 76 DNFLNYVSNS--EIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKR--------NSLDALCDRY-N 144 (230)
Q Consensus 76 ~~~~~fl~~~--~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~--------~~L~~L~~~~-g 144 (230)
..+.+++.+. ..|+|++++|..+|. ..+|+... .++||+.+++.+.|... .+|++++++| |
T Consensus 55 ~~L~~iLe~~~i~Kv~h~~k~D~~~L~---~~~gi~~~-----~~fDt~iA~~lL~~~~~~~~~~~~~~~L~~l~~~~l~ 126 (197)
T cd06148 55 NGLKDILESKKILKVIHDCRRDSDALY---HQYGIKLN-----NVFDTQVADALLQEQETGGFNPDRVISLVQLLDKYLY 126 (197)
T ss_pred HHHHHHhcCCCccEEEEechhHHHHHH---HhcCcccc-----ceeeHHHHHHHHHHHhcCCccccccccHHHHHHHhhC
Confidence 4455566543 359999999998874 35565422 26899999998876432 5899999987 6
Q ss_pred CCCC-----------------CC-----CCCCHHHHHHHHHHHHHHHHcC
Q psy8196 145 ISKI-----------------HR-----TLHGGLLDAELLAEVYLAMTRG 172 (230)
Q Consensus 145 i~~~-----------------~r-----~~H~Al~Da~~~a~v~~~l~~~ 172 (230)
++.+ .| ...=|..||..+..+|..|...
T Consensus 127 ~~~~k~~~~~~~~~~~~s~W~~RPLt~~ql~YAa~Dv~~Ll~l~~~l~~~ 176 (197)
T cd06148 127 ISISLKEDVKKLMREDPKFWALRPLTEDMIRYAALDVLCLLPLYYAMLDA 176 (197)
T ss_pred CChHHHHHHHHHHhcCchhhhcCCCCHHHHHHHHHHHHhHHHHHHHHHHH
Confidence 5431 12 2345788999999999988765
No 82
>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=97.77 E-value=0.00026 Score=63.42 Aligned_cols=128 Identities=16% Similarity=0.090 Sum_probs=82.8
Q ss_pred ceEEEEecCCCCCCCCC-CceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHh
Q psy8196 3 RHIVLDIETTGLNIIDG-HRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNY 81 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~-~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~f 81 (230)
.+|+||||+.+.....+ -.+|+|+. + .-.++|+|-.. ..+..|.++
T Consensus 19 ~~ia~DtE~~~~~~y~~~l~LiQia~----~------~~~~liD~~~~-----------------------~~~~~L~~l 65 (367)
T TIGR01388 19 PFVALDTEFVRERTFWPQLGLIQVAD----G------EQLALIDPLVI-----------------------IDWSPLKEL 65 (367)
T ss_pred CEEEEeccccCCCCCCCcceEEEEee----C------CeEEEEeCCCc-----------------------ccHHHHHHH
Confidence 47899999987765431 23444441 1 13346666321 013345556
Q ss_pred cCCC--eEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCCCcHHHHHHHh-CCCCCC---------
Q psy8196 82 VSNS--EIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRY-NISKIH--------- 149 (230)
Q Consensus 82 l~~~--~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~-gi~~~~--------- 149 (230)
+.+. ..|+|++++|+.+|.+. .+.. . ..++||+.+++.+.|+.+.+|..|++.| |+..+.
T Consensus 66 L~d~~i~KV~h~~k~Dl~~L~~~---~~~~-~----~~~fDtqlAa~lL~~~~~~~l~~Lv~~~Lg~~l~K~~~~sdW~~ 137 (367)
T TIGR01388 66 LRDESVVKVLHAASEDLEVFLNL---FGEL-P----QPLFDTQIAAAFCGFGMSMGYAKLVQEVLGVELDKSESRTDWLA 137 (367)
T ss_pred HCCCCceEEEeecHHHHHHHHHH---hCCC-C----CCcccHHHHHHHhCCCCCccHHHHHHHHcCCCCCcccccccCCC
Confidence 6543 36999999999988532 2221 1 2379999999999987777999999887 654332
Q ss_pred CC-----CCCHHHHHHHHHHHHHHHHc
Q psy8196 150 RT-----LHGGLLDAELLAEVYLAMTR 171 (230)
Q Consensus 150 r~-----~H~Al~Da~~~a~v~~~l~~ 171 (230)
|. .+=|..|+..+..+|..|..
T Consensus 138 rPL~~~q~~YAa~Dv~~L~~L~~~L~~ 164 (367)
T TIGR01388 138 RPLTDAQLEYAAADVTYLLPLYAKLME 164 (367)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHH
Confidence 10 11278889999999988864
No 83
>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=97.76 E-value=0.00037 Score=55.48 Aligned_cols=105 Identities=20% Similarity=0.211 Sum_probs=71.1
Q ss_pred ceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhc
Q psy8196 3 RHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYV 82 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl 82 (230)
+.+.+|+|++|.++.. .+++.++... ++ + .+|+.+... + ...+.+.+++
T Consensus 4 ~~~~~~~~~~~~~~~~-~~l~~i~l~~--~~----~--~~~i~~~~~---------------------~-~~~~~l~~~l 52 (178)
T cd06140 4 DEVALYVELLGENYHT-ADIIGLALAN--GG----G--AYYIPLELA---------------------L-LDLAALKEWL 52 (178)
T ss_pred CceEEEEEEcCCCcce-eeEEEEEEEe--CC----c--EEEEeccch---------------------H-HHHHHHHHHH
Confidence 5688999999999864 6666555432 21 1 235543210 0 1344456677
Q ss_pred CCC--eEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCC-CcHHHHHHHh-CCC
Q psy8196 83 SNS--EIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKR-NSLDALCDRY-NIS 146 (230)
Q Consensus 83 ~~~--~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~-~~L~~L~~~~-gi~ 146 (230)
.+. ..++||+++|+.+|. ++|+.... .++||+.+++.+.|+.+ +++++++++| +..
T Consensus 53 ~~~~~~ki~~d~K~~~~~l~----~~gi~~~~----~~fDt~laaYLL~p~~~~~~l~~l~~~yl~~~ 112 (178)
T cd06140 53 EDEKIPKVGHDAKRAYVALK----RHGIELAG----VAFDTMLAAYLLDPTRSSYDLADLAKRYLGRE 112 (178)
T ss_pred hCCCCceeccchhHHHHHHH----HCCCcCCC----cchhHHHHHHHcCCCCCCCCHHHHHHHHcCCC
Confidence 653 479999999998874 56764222 37999999999999874 7999999987 443
No 84
>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=97.76 E-value=0.0014 Score=51.92 Aligned_cols=88 Identities=19% Similarity=0.243 Sum_probs=60.3
Q ss_pred HHHHHhcCCC--eEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCCCcHHHHHHHh-CCCCCC-CC
Q psy8196 76 DNFLNYVSNS--EIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRY-NISKIH-RT 151 (230)
Q Consensus 76 ~~~~~fl~~~--~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~-gi~~~~-r~ 151 (230)
..|.+++.+. ..|+||+++|+..|.+ .+|+. .. .++|++.+++.+.|+.+++|++++++| |..... ..
T Consensus 54 ~~l~~ll~~~~i~kv~~d~K~~~~~L~~---~~gi~-~~----~~~D~~laayLl~p~~~~~l~~l~~~~l~~~~~~~~~ 125 (178)
T cd06142 54 SPLKELLADPNIVKVFHAAREDLELLKR---DFGIL-PQ----NLFDTQIAARLLGLGDSVGLAALVEELLGVELDKGEQ 125 (178)
T ss_pred HHHHHHHcCCCceEEEeccHHHHHHHHH---HcCCC-CC----CcccHHHHHHHhCCCccccHHHHHHHHhCCCCCcccc
Confidence 3455566543 4799999999988752 22665 22 378999999999997667999999987 554111 00
Q ss_pred C-------------CCHHHHHHHHHHHHHHHHc
Q psy8196 152 L-------------HGGLLDAELLAEVYLAMTR 171 (230)
Q Consensus 152 ~-------------H~Al~Da~~~a~v~~~l~~ 171 (230)
. +-|..||..+.++|..+..
T Consensus 126 ~~~w~~~~l~~~~~~yaa~~a~~l~~L~~~l~~ 158 (178)
T cd06142 126 RSDWSKRPLTDEQLEYAALDVRYLLPLYEKLKE 158 (178)
T ss_pred cccCCCCCCCHHHHHHHHHhHHHHHHHHHHHHH
Confidence 0 1256677778888887764
No 85
>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=97.76 E-value=0.00034 Score=57.56 Aligned_cols=79 Identities=16% Similarity=0.158 Sum_probs=54.7
Q ss_pred CCHHHHHHHHHHhcCCC-eEEEEcc-cccHHHHHHHHHHcCCCC----cc------cc-cchHhHHHHHHHH-H-----c
Q psy8196 69 LKFSEIVDNFLNYVSNS-EIIIHNA-AFDVGFLDMELSLLGYSN----FT------KY-IYRITDTLLMARK-I-----H 129 (230)
Q Consensus 69 ~~~~ev~~~~~~fl~~~-~lV~hna-~FD~~~L~~~l~~~g~~~----~~------~~-~~~~iDtl~lar~-~-----~ 129 (230)
...++++..|.+++.+. .+|+||. .||+++|..-+.++|++. .. .. ....+|.+...+. . +
T Consensus 71 ~~E~~lL~~F~~~i~~~~~iig~N~~~FDlpyl~~R~~~~gi~~~~~~~~~~~~~~~~~g~~~iDl~~~~~~~~~~~~~~ 150 (204)
T cd05783 71 DSEKELIREAFKIISEYPIVLTFNGDNFDLPYLYNRALKLGIPKEEIPIYLKRDYATLKHGIHIDLYKFFSNRAIQVYAF 150 (204)
T ss_pred CCHHHHHHHHHHHHhcCCEEEEeCCCCcCHHHHHHHHHHhCCChhhCceeecCCceeccCcEEeECHHHhhccchhhhhh
Confidence 56689999999999754 5899999 999999999999988761 10 00 1125677665432 1 1
Q ss_pred --CCCCCcHHHHHHHh-CCCC
Q psy8196 130 --TGKRNSLDALCDRY-NISK 147 (230)
Q Consensus 130 --p~~~~~L~~L~~~~-gi~~ 147 (230)
+-.+.+|+++|+.+ |...
T Consensus 151 ~~~~~~~~L~~Va~~~lg~~K 171 (204)
T cd05783 151 GNKYREYTLDAVAKALLGEGK 171 (204)
T ss_pred ccccccCcHHHHHHHhcCCCc
Confidence 22466999999977 5443
No 86
>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=97.74 E-value=0.00038 Score=64.12 Aligned_cols=136 Identities=12% Similarity=0.078 Sum_probs=91.1
Q ss_pred eEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhcC
Q psy8196 4 HIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYVS 83 (230)
Q Consensus 4 ~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl~ 83 (230)
.++||+||+ |.. .-..-+|++..+++..+ ..|+-+...+. ....+++.+|.+|+.
T Consensus 286 ~~ffDiEt~---P~~-~~~yL~G~~~~~~~~~~-~~~~~fla~~~--------------------~~E~~~~~~f~~~l~ 340 (457)
T TIGR03491 286 ELIFDIESD---PDE-NLDYLHGFLVVDKGQEN-EKYRPFLAEDP--------------------NTEELAWQQFLQLLQ 340 (457)
T ss_pred cEEEEecCC---CCC-CCceEEEEEEecCCCCC-cceeeeecCCc--------------------hHHHHHHHHHHHHHH
Confidence 478999998 443 56788999776554322 13666665432 223557777877775
Q ss_pred C---CeEEEEcccccHHHHHHHHHHcCCCC--cccccchHhHHHHHHHHH--cCCCCCcHHHHHHHhCCCCCCCCCCCHH
Q psy8196 84 N---SEIIIHNAAFDVGFLDMELSLLGYSN--FTKYIYRITDTLLMARKI--HTGKRNSLDALCDRYNISKIHRTLHGGL 156 (230)
Q Consensus 84 ~---~~lV~hna~FD~~~L~~~l~~~g~~~--~~~~~~~~iDtl~lar~~--~p~~~~~L~~L~~~~gi~~~~r~~H~Al 156 (230)
. ..++.+| .|....|++...++|.+. +..+...++|.....+.. +|..++||..++..+|..... ..
T Consensus 341 ~~~~~~i~hY~-~~e~~~l~rla~~~~~~~~~~~~l~~~~vDL~~~vr~~~~~p~~sysLK~v~~~lg~~~~~-----~~ 414 (457)
T TIGR03491 341 SYPDAPIYHYG-ETEKDSLRRLAKRYGTPEAEIEELLKRFVDIHTIVRRSWILPIESYSLKSIARWLGFEWRQ-----KE 414 (457)
T ss_pred HCCCCeEEeeC-HHHHHHHHHHHHHcCCCHHHHHHHHHHheehHHHHHhhEECCCCCCCHHHHHHHhCcccCC-----CC
Confidence 3 3466666 899999999999998762 222223578988887764 577788999999999997653 12
Q ss_pred HHHHHHHHHHHHHH
Q psy8196 157 LDAELLAEVYLAMT 170 (230)
Q Consensus 157 ~Da~~~a~v~~~l~ 170 (230)
.|...+...|..+.
T Consensus 415 ~~G~~ai~~y~~~~ 428 (457)
T TIGR03491 415 ASGAKSLLWYRQWK 428 (457)
T ss_pred CCHHHHHHHHHHHH
Confidence 34445566666654
No 87
>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=97.68 E-value=0.00086 Score=56.24 Aligned_cols=147 Identities=10% Similarity=-0.010 Sum_probs=88.0
Q ss_pred CceEEEEecCCC-----CCCCCCCceEEEEEEEEECCEEecc----eeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHH
Q psy8196 2 HRHIVLDIETTG-----LNIIDGHRIIEIGCVEIKNRQITGN----NLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFS 72 (230)
Q Consensus 2 ~~~ivlD~ETTG-----l~~~~~~~IieIg~v~~~~~~~~~~----~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ 72 (230)
++.+.+|+|+.+ .+|.. |.|+.|+.+.-.+...... ....++.+.......-.....+....+.--+...
T Consensus 4 l~~ls~dI~~~s~~~~~Pdp~~-D~I~~I~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~v~~~~~E~ 82 (231)
T cd05778 4 LTILSLEVHVNTRGDLLPDPEF-DPISAIFYCIDDDVSPFILDANKVGVIIVDELKSNASNGRIRSGLSGIPVEVVESEL 82 (231)
T ss_pred eEEEEEEEEECCCCCCCcCCCC-CCeeEEEEEEecCCCcccccccceeEEEEcCccchhhhhccccCCCCCeEEEeCCHH
Confidence 356889999863 23554 8999999885544433221 1223343332100000001122222233346678
Q ss_pred HHHHHHHHhcC---CCeEEEEcc-cccHHHHHHHHHHcCCCCc----------------------c-------cccc-hH
Q psy8196 73 EIVDNFLNYVS---NSEIIIHNA-AFDVGFLDMELSLLGYSNF----------------------T-------KYIY-RI 118 (230)
Q Consensus 73 ev~~~~~~fl~---~~~lV~hna-~FD~~~L~~~l~~~g~~~~----------------------~-------~~~~-~~ 118 (230)
+.+..|.+++. ...++|||. .||+++|-.-+..++++.+ . .... .+
T Consensus 83 ~LL~~f~~~i~~~DPDii~GyNi~~fd~~YL~~Ra~~l~~~~~~~~lgR~~~~~~~~~~~~~~~~g~~~~~~~~i~GRi~ 162 (231)
T cd05778 83 ELFEELIDLVRRFDPDILSGYEIQRSSWGYLIERAAALGIDDLLDEISRVPSDSNGKFGDRDDEWGYTHTSGIKIVGRHI 162 (231)
T ss_pred HHHHHHHHHHHHhCCCEEEEeccccCcHHHHHHHHHHhCCcchhhhccCCCCCCcccccccccccccccCCceEEeeEEE
Confidence 88988888874 456999999 9999999777766554321 0 0011 25
Q ss_pred hHHHHHHHHHcCCCCCcHHHHHHHh-CCCCCC
Q psy8196 119 TDTLLMARKIHTGKRNSLDALCDRY-NISKIH 149 (230)
Q Consensus 119 iDtl~lar~~~p~~~~~L~~L~~~~-gi~~~~ 149 (230)
+|+..+.+..+.-.+++|+++|..+ |.....
T Consensus 163 lD~~~~~r~~~kl~sYsL~~V~~~~L~~~k~~ 194 (231)
T cd05778 163 LNVWRLMRSELALTNYTLENVVYHVLHQRIPL 194 (231)
T ss_pred eEhHHHHHHHcCcccCCHHHHHHHHhCCCCCC
Confidence 6888888887777788999999865 654443
No 88
>PTZ00166 DNA polymerase delta catalytic subunit; Provisional
Probab=97.67 E-value=0.00057 Score=68.77 Aligned_cols=157 Identities=17% Similarity=0.126 Sum_probs=96.3
Q ss_pred ceEEEEecCCCC-----CCCCCCceEEEEEEEEECCEEec--ceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHH
Q psy8196 3 RHIVLDIETTGL-----NIIDGHRIIEIGCVEIKNRQITG--NNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIV 75 (230)
Q Consensus 3 ~~ivlD~ETTGl-----~~~~~~~IieIg~v~~~~~~~~~--~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~ 75 (230)
+.+.||+||.+. +....+.||+|+++....+.... ..+.+-+++..++ .| ..+..-+...+.+
T Consensus 265 rilSfDIE~~~~~g~~FP~~~~D~IIqIs~~~~~~g~~~~~~~r~vftl~~c~~i-------~g---~~V~~f~sE~eLL 334 (1054)
T PTZ00166 265 RILSFDIECIKLKGLGFPEAENDPVIQISSVVTNQGDEEEPLTKFIFTLKECASI-------AG---ANVLSFETEKELL 334 (1054)
T ss_pred EEEEEEEEECCCCCCCCCCCCCCcEEEEEEEEeeCCCccCCcceEEEecCccccC-------CC---ceEEEeCCHHHHH
Confidence 678999999753 21124899999998665432211 1111112221111 11 1122235668899
Q ss_pred HHHHHhcC---CCeEEEEcc-cccHHHHHHHHHHcCCCCcc------------------------------ccc-chHhH
Q psy8196 76 DNFLNYVS---NSEIIIHNA-AFDVGFLDMELSLLGYSNFT------------------------------KYI-YRITD 120 (230)
Q Consensus 76 ~~~~~fl~---~~~lV~hna-~FD~~~L~~~l~~~g~~~~~------------------------------~~~-~~~iD 120 (230)
..|.+|+. ...++|||. .||+++|-.-+..+|++.+. .+. ..++|
T Consensus 335 ~~f~~~I~~~DPDII~GYNi~~FDlpYL~~Ra~~l~i~~~~~lgR~~~~~~~~~~~~~~~~~~g~~~~~~~~i~GR~~iD 414 (1054)
T PTZ00166 335 LAWAEFVIAVDPDFLTGYNIINFDLPYLLNRAKALKLNDFKYLGRIKSTRSVIKDSKFSSKQMGTRESKEINIEGRIQFD 414 (1054)
T ss_pred HHHHHHHHhcCCCEEEecCCcCCcHHHHHHHHHHhCCCchhhcCcccCCCccccccccccccccccccceeEeeeEEEEE
Confidence 99888885 356999998 99999998777776544110 000 13689
Q ss_pred HHHHHHHHcCCCCCcHHHHHHHh-CCCCCCC------------------CCCCHHHHHHHHHHHHHHH
Q psy8196 121 TLLMARKIHTGKRNSLDALCDRY-NISKIHR------------------TLHGGLLDAELLAEVYLAM 169 (230)
Q Consensus 121 tl~lar~~~p~~~~~L~~L~~~~-gi~~~~r------------------~~H~Al~Da~~~a~v~~~l 169 (230)
++.+.+..+.-.+++|++++..| |.....- -+.=.+.||.++.+++.++
T Consensus 415 l~~~~~~~~kl~sYsL~~Vs~~~Lg~~K~dv~~~~i~~~~~~~~~~~~~l~~Y~l~Da~L~~~L~~kl 482 (1054)
T PTZ00166 415 VMDLIRRDYKLKSYSLNYVSFEFLKEQKEDVHYSIISDLQNGSPETRRRIAVYCLKDAILPLRLLDKL 482 (1054)
T ss_pred HHHHHHHhcCcCcCCHHHHHHHHhCCCCCCCCHHHHHHHHhcChhhHHHHHHHHHHHHHHHHHHHHHH
Confidence 99998888777778999999976 5433210 0111356777787777765
No 89
>COG0749 PolA DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]
Probab=97.66 E-value=0.00022 Score=66.73 Aligned_cols=130 Identities=18% Similarity=0.213 Sum_probs=89.8
Q ss_pred EEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhcCC
Q psy8196 5 IVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYVSN 84 (230)
Q Consensus 5 ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl~~ 84 (230)
+.+|+||+|+++.. ..++.+++..-. +.+++.+.-. +..-++...+..|+.+
T Consensus 25 ~a~~~et~~l~~~~-~~lvg~s~~~~~------~~~yi~~~~~---------------------~~~~~~~~~l~~~l~~ 76 (593)
T COG0749 25 IAFDTETDGLDPHG-ADLVGLSVASEE------EAAYIPLLHG---------------------PEQLNVLAALKPLLED 76 (593)
T ss_pred ceeeccccccCccc-CCeeEEEeeccc------cceeEeeccc---------------------hhhhhhHHHHHHHhhC
Confidence 78999999999964 788877765432 2344433211 1112277788889876
Q ss_pred Ce--EEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC-CCcHHHHHHHh-CCCCCCC----------
Q psy8196 85 SE--IIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK-RNSLDALCDRY-NISKIHR---------- 150 (230)
Q Consensus 85 ~~--lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~-~~~L~~L~~~~-gi~~~~r---------- 150 (230)
.. .|+||.+||..+|. ++|+. . + ...||+.++|.+.|+. .++++.|+++| +......
T Consensus 77 ~~~~kv~~~~K~d~~~l~----~~Gi~-~---~-~~~DtmlasYll~~~~~~~~~~~l~~r~l~~~~~~~~~i~~kg~~~ 147 (593)
T COG0749 77 EGIKKVGQNLKYDYKVLA----NLGIE-P---G-VAFDTMLASYLLNPGAGAHNLDDLAKRYLGLETITFEDIAGKGKKQ 147 (593)
T ss_pred cccchhccccchhHHHHH----HcCCc-c---c-chHHHHHHHhccCcCcCcCCHHHHHHHhcCCccchhHHhhcccccc
Confidence 54 89999999998874 67742 1 2 3889999999999987 57999999999 3222110
Q ss_pred --C--------CCCHHHHHHHHHHHHHHHHc
Q psy8196 151 --T--------LHGGLLDAELLAEVYLAMTR 171 (230)
Q Consensus 151 --~--------~H~Al~Da~~~a~v~~~l~~ 171 (230)
. .--+-.||..+.+++..+..
T Consensus 148 ~~~~~~~~~~~~~y~a~~a~~~~~L~~~l~~ 178 (593)
T COG0749 148 LTFADVKLEKATEYAAEDADATLRLESILEP 178 (593)
T ss_pred CccccchHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 0 12355788888888888774
No 90
>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=97.58 E-value=0.00095 Score=58.09 Aligned_cols=128 Identities=23% Similarity=0.195 Sum_probs=79.1
Q ss_pred CceEEEEecCCCCC-----CCCCCceEEEEEEEEECCEEe-cceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHH
Q psy8196 2 HRHIVLDIETTGLN-----IIDGHRIIEIGCVEIKNRQIT-GNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIV 75 (230)
Q Consensus 2 ~~~ivlD~ETTGl~-----~~~~~~IieIg~v~~~~~~~~-~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~ 75 (230)
.+.+.||+||..-. +. .++|+.|+++....+... .......+.+...... ...+.-.+...+++
T Consensus 157 l~i~s~DIe~~~~~~~~P~~~-~d~I~~Is~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~v~~~~~E~~lL 226 (325)
T PF03104_consen 157 LRILSFDIETYSNDGKFPDPE-KDEIIMISYVVYRNGSSEPYRRKVFTLGSCDSIED---------NVEVIYFDSEKELL 226 (325)
T ss_dssp SEEEEEEEEECSSSSSS-TTT-TSEEEEEEEEEEETTEEETTEEEEEECSCSCCTTC---------TTEEEEESSHHHHH
T ss_pred cceeEEEEEEccccCCCCCCC-CCeEEEEEEEEEeccccCCCceEEEEecCCCCCCC---------CcEEEEECCHHHHH
Confidence 36789999997543 33 389999999876553221 1112222333222111 11222235668899
Q ss_pred HHHHHhcC---CCeEEEEcc-cccHHHHHHHHHHcCCCC-------c------------------ccc-----c-chHhH
Q psy8196 76 DNFLNYVS---NSEIIIHNA-AFDVGFLDMELSLLGYSN-------F------------------TKY-----I-YRITD 120 (230)
Q Consensus 76 ~~~~~fl~---~~~lV~hna-~FD~~~L~~~l~~~g~~~-------~------------------~~~-----~-~~~iD 120 (230)
..|.+++. ...++|||. .||+++|..-+..+|+.. + ... . ..++|
T Consensus 227 ~~f~~~i~~~dPDii~GyN~~~fD~~yl~~R~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Gr~~~D 306 (325)
T PF03104_consen 227 EAFLDIIQEYDPDIITGYNIDGFDLPYLIERAKKLGIDMFDLNGRRWSRFGRLKRKKWPSSANGSRKFSRIDIPGRLVLD 306 (325)
T ss_dssp HHHHHHHHHHS-SEEEESSTTTTHHHHHHHHHHHTTTCTHHSTTSTTTEEEEEEEEESEECTCCCTTEEEEEETTSEEEE
T ss_pred HHHHHHHHhcCCcEEEEecccCCCHHHHHHHHHHhCccccccccccccceeEEeecccccccCCCcceeEEEECCChHhH
Confidence 99998874 457999999 899999998888885431 1 000 0 13689
Q ss_pred HHHHHHHHcCCCCCcHHHH
Q psy8196 121 TLLMARKIHTGKRNSLDAL 139 (230)
Q Consensus 121 tl~lar~~~p~~~~~L~~L 139 (230)
+..++++.+.-.+++|+++
T Consensus 307 ~~~~~~~~~~l~sY~L~~V 325 (325)
T PF03104_consen 307 LYRLARKDYKLDSYSLDNV 325 (325)
T ss_dssp HHHHHHHHS--SS-SHHHH
T ss_pred HHHHHHhhCCCCCCCCCCC
Confidence 9999999987777788864
No 91
>PRK05762 DNA polymerase II; Reviewed
Probab=97.54 E-value=0.002 Score=63.15 Aligned_cols=146 Identities=18% Similarity=0.191 Sum_probs=92.3
Q ss_pred ceEEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhc
Q psy8196 3 RHIVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYV 82 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl 82 (230)
+.+.||+||++- .+|..||+....++ .-+.+.+.... ..+.+...+...+++..|.+++
T Consensus 156 rvlsfDIE~~~~-----~~i~sI~~~~~~~~------~vi~ig~~~~~----------~~~~v~~~~sE~~LL~~F~~~i 214 (786)
T PRK05762 156 KVVSLDIETSNK-----GELYSIGLEGCGQR------PVIMLGPPNGE----------ALDFLEYVADEKALLEKFNAWF 214 (786)
T ss_pred eEEEEEEEEcCC-----CceEEeeecCCCCC------eEEEEECCCCC----------CcceEEEcCCHHHHHHHHHHHH
Confidence 678999999852 35777776421111 11222222111 0111334467788999999998
Q ss_pred CC---CeEEEEcc-cccHHHHHHHHHHcCCCCc-------------c---c-----cc-chHhHHHHHHHHHc-CCCCCc
Q psy8196 83 SN---SEIIIHNA-AFDVGFLDMELSLLGYSNF-------------T---K-----YI-YRITDTLLMARKIH-TGKRNS 135 (230)
Q Consensus 83 ~~---~~lV~hna-~FD~~~L~~~l~~~g~~~~-------------~---~-----~~-~~~iDtl~lar~~~-p~~~~~ 135 (230)
.. ..+++||. .||+++|..-+..+|++.. . . .. ..++|++...+... ...+++
T Consensus 215 ~~~DPDIIvGyNi~~FDlpyL~~Ra~~lgi~~~~GR~~~~~~~~~~~~~~~~~~~~i~GRv~lDl~~~~k~~~~~l~sys 294 (786)
T PRK05762 215 AEHDPDVIIGWNVVQFDLRLLQERAERYGIPLRLGRDGSELEWREHPFRSGYGFASVPGRLVLDGIDALKSATWVFDSFS 294 (786)
T ss_pred HhcCCCEEEEeCCCCCcHHHHHHHHHHhCCCcccCcCCCccccccCCCCCCcceEEEeeEEEEEHHHHHHHhhccCCCCC
Confidence 64 46999998 9999999988888887510 0 0 00 12689999988865 556779
Q ss_pred HHHHHHHhCCCCCC-CCCC-------------------CHHHHHHHHHHHHHHH
Q psy8196 136 LDALCDRYNISKIH-RTLH-------------------GGLLDAELLAEVYLAM 169 (230)
Q Consensus 136 L~~L~~~~gi~~~~-r~~H-------------------~Al~Da~~~a~v~~~l 169 (230)
|+.+|+.+...... ...| =.+.||.++.+++.++
T Consensus 295 L~~Va~~~Lg~~K~~~d~~~~~~eI~~~~~~~~~~l~~Y~l~Da~lt~~L~~kl 348 (786)
T PRK05762 295 LEYVSQRLLGEGKAIDDPYDRMDEIDRRFAEDKPALARYNLKDCELVTRIFEKT 348 (786)
T ss_pred HHHHHHHHhCCCeeccCccccHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHh
Confidence 99999987433221 0111 1467889999888843
No 92
>smart00486 POLBc DNA polymerase type-B family. DNA polymerase alpha, delta, epsilon and zeta chain (eukaryota), DNA polymerases in archaea, DNA polymerase II in e. coli, mitochondrial DNA polymerases and and virus DNA polymerases
Probab=97.54 E-value=0.0032 Score=57.36 Aligned_cols=158 Identities=16% Similarity=0.156 Sum_probs=98.3
Q ss_pred CceEEEEecCCCCC---CCC---CCceEEEEEEEEECCEEecc-eeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHH
Q psy8196 2 HRHIVLDIETTGLN---IID---GHRIIEIGCVEIKNRQITGN-NLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEI 74 (230)
Q Consensus 2 ~~~ivlD~ETTGl~---~~~---~~~IieIg~v~~~~~~~~~~-~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev 74 (230)
.+.++||+||+... |.. .+.|+.|+.+..++...... .......+...++. + .+.......+.
T Consensus 3 ~~~~~~DIEt~~~~~~~p~~~~~~~~ii~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~---~~~~~~~E~~l 72 (471)
T smart00486 3 LKILSFDIETYTDGGLFPDPLIFEDEIIQISLVINDGDKKGPEERICFTLGTCKEIDG-------V---EVYEFNNEKEL 72 (471)
T ss_pred ceEEEEEEEECCCCCCCCCCCCCCCeEEEEEEEEEECCCCCCceeEEEEecCcCCCCC-------C---eEEecCCHHHH
Confidence 36789999997542 221 37999999988776432111 12222334332221 1 11222356788
Q ss_pred HHHHHHhcCC---CeEEEEcc-cccHHHHHHHHHHcCCCCcc------c------------------------ccchHhH
Q psy8196 75 VDNFLNYVSN---SEIIIHNA-AFDVGFLDMELSLLGYSNFT------K------------------------YIYRITD 120 (230)
Q Consensus 75 ~~~~~~fl~~---~~lV~hna-~FD~~~L~~~l~~~g~~~~~------~------------------------~~~~~iD 120 (230)
+..|.+++.. ..+++||. .||+.+|...+.+++++... . .....+|
T Consensus 73 L~~f~~~i~~~dpdii~g~N~~~FD~~~i~~R~~~~~~~~~~~i~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~D 152 (471)
T smart00486 73 LKAFLEFIKKYDPDIIYGHNISNFDLPYIISRLEKLKIKPLSFIGRLKNIIDIKRKKPLFGSKSFGKTIKVKIKGRLVID 152 (471)
T ss_pred HHHHHHHHHHhCCCEEEeecCCCCCHHHHHHHHHHcCCCCHHHcCcCCCCCCcccccCccccccccccceeEeccEEEEE
Confidence 8888888753 46999999 79999998888777654210 0 0123689
Q ss_pred HHHHHHHHcCCCCCcHHHHHHHhCC-CCCCCC------------------CCCHHHHHHHHHHHHHHH
Q psy8196 121 TLLMARKIHTGKRNSLDALCDRYNI-SKIHRT------------------LHGGLLDAELLAEVYLAM 169 (230)
Q Consensus 121 tl~lar~~~p~~~~~L~~L~~~~gi-~~~~r~------------------~H~Al~Da~~~a~v~~~l 169 (230)
++...+..+.-.+.+|+.+++.+.- ....-. ..-.+.|+.++.+++.++
T Consensus 153 l~~~~~~~~kl~~~~L~~va~~~l~~~k~d~~~~~i~~~~~~~~~~~~~~~~Y~~~D~~l~~~l~~~l 220 (471)
T smart00486 153 LYNLYKNKLKLPSYKLDTVAEYLLGKEKDDLPYKDIPELYNLNYKLRDELLEYCIQDAVLTLKLFNKL 220 (471)
T ss_pred hHHHHHHHhCcccCCHHHHHHHHhCCCCCCCCHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999998887666799999988633 221100 111245888888888875
No 93
>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=97.35 E-value=0.0058 Score=46.79 Aligned_cols=61 Identities=20% Similarity=0.159 Sum_probs=45.3
Q ss_pred HHHhcCC--CeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC-CCcHHHHHHHh-CCC
Q psy8196 78 FLNYVSN--SEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK-RNSLDALCDRY-NIS 146 (230)
Q Consensus 78 ~~~fl~~--~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~-~~~L~~L~~~~-gi~ 146 (230)
+.+++.+ ...|+||+++|..+|. +.|.... ..++||+.+++.+.|+. +.+|+.|+++| +..
T Consensus 45 l~~~l~~~~~~kv~~d~K~~~~~L~----~~~~~~~----~~~~D~~laayLl~p~~~~~~l~~l~~~~l~~~ 109 (150)
T cd09018 45 LKPLLEDEKALKVGQNLKYDRGILL----NYFIELR----GIAFDTMLEAYILNSVAGRWDMDSLVERWLGHK 109 (150)
T ss_pred HHHHhcCCCCceeeecHHHHHHHHH----HcCCccC----CcchhHHHHHHHhCCCCCCCCHHHHHHHHhCCC
Confidence 4456654 3479999999998874 4454322 24799999999999975 56999999987 554
No 94
>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=97.34 E-value=0.0037 Score=52.47 Aligned_cols=128 Identities=15% Similarity=0.147 Sum_probs=81.1
Q ss_pred CceEEEEEEEEECCE---E-----ecceeEEEEcCCCC-C-ChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhcCC---Ce
Q psy8196 20 HRIIEIGCVEIKNRQ---I-----TGNNLHYYINPGRD-S-EKSALAIHGLTTKFLKNKLKFSEIVDNFLNYVSN---SE 86 (230)
Q Consensus 20 ~~IieIg~v~~~~~~---~-----~~~~f~~~i~P~~~-i-~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl~~---~~ 86 (230)
.+|+.|+++...+-. . ....+...++|... . +..-...-.-....+.--+...+.+..|.+++.. ..
T Consensus 21 ~EI~~iS~~~~~~~~~d~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~v~~~~~E~~LL~~f~~~i~~~DPDi 100 (234)
T cd05776 21 NEIVMISMLVHRNVSLDKPTPPPPFQSHTCTLTRPLGRSPPPDLFEKNAKKKKTKVRIFENERALLNFFLAKLQKIDPDV 100 (234)
T ss_pred chhheehHHHhcCCCCCCCCCCcccccceEEEEeCCCCCCCCchHHHHHHhcCCcEEEeCCHHHHHHHHHHHHhhcCCCE
Confidence 789999988765311 1 11134445555432 2 2221111111122234446778899999998854 46
Q ss_pred EEEEcc-cccHHHHHHHHHHcCCCCcc---c--------------------ccc-hHhHHHHHHHHHcCCCCCcHHHHHH
Q psy8196 87 IIIHNA-AFDVGFLDMELSLLGYSNFT---K--------------------YIY-RITDTLLMARKIHTGKRNSLDALCD 141 (230)
Q Consensus 87 lV~hna-~FD~~~L~~~l~~~g~~~~~---~--------------------~~~-~~iDtl~lar~~~p~~~~~L~~L~~ 141 (230)
++|||. .||+.+|-+-+..+|++.+. . .+. .++|+...++.+..-.+++|+++|+
T Consensus 101 ivG~Ni~~fdl~~L~~R~~~l~i~~ws~iGR~~~~~~~~~~~~~~~~~~~~~~GRl~~D~~~~~k~~~~~~sY~L~~va~ 180 (234)
T cd05776 101 LVGHDLEGFDLDVLLSRIQELKVPHWSRIGRLKRSVWPKKKGGGKFGERELTAGRLLCDTYLSAKELIRCKSYDLTELSQ 180 (234)
T ss_pred EEeeccCCCCHHHHHHHHHHhCCCccccccccccccCccccccccccccccccCchhhccHHHHHHHhCCCCCChHHHHH
Confidence 899999 99999998888877765211 0 111 2689999999988777889999998
Q ss_pred H-hCCCC
Q psy8196 142 R-YNISK 147 (230)
Q Consensus 142 ~-~gi~~ 147 (230)
. +|...
T Consensus 181 ~~Lg~~k 187 (234)
T cd05776 181 QVLGIER 187 (234)
T ss_pred HHhCcCc
Confidence 5 56533
No 95
>TIGR00593 pola DNA polymerase I. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=96.93 E-value=0.0022 Score=63.47 Aligned_cols=94 Identities=21% Similarity=0.145 Sum_probs=67.5
Q ss_pred HHHHHHHHHHhcCCC--eEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCCCcHHHHHHHh-CCCC
Q psy8196 71 FSEIVDNFLNYVSNS--EIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRY-NISK 147 (230)
Q Consensus 71 ~~ev~~~~~~fl~~~--~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~-gi~~ 147 (230)
...+.+.|..++.+. ..|+||++||+.+|. ++|+.... .++||+.+++.+.|+.+++|++++++| +...
T Consensus 363 ~~~~~~~l~~~l~~~~~~~v~~n~K~d~~~l~----~~gi~~~~----~~~Dt~la~yll~~~~~~~l~~la~~yl~~~~ 434 (887)
T TIGR00593 363 TILTDDKFARWLLNEQIKKIGHDAKFLMHLLK----REGIELGG----VIFDTMLAAYLLDPAQVSTLDTLARRYLVEEL 434 (887)
T ss_pred hHHHHHHHHHHHhCCCCcEEEeeHHHHHHHHH----hCCCCCCC----cchhHHHHHHHcCCCCCCCHHHHHHHHcCccc
Confidence 345667777888764 489999999998874 67765332 378999999999998778999999998 3210
Q ss_pred ---C---CCC----------C-CCHHHHHHHHHHHHHHHHcC
Q psy8196 148 ---I---HRT----------L-HGGLLDAELLAEVYLAMTRG 172 (230)
Q Consensus 148 ---~---~r~----------~-H~Al~Da~~~a~v~~~l~~~ 172 (230)
. +.. . .-|..|+..+.++|..+...
T Consensus 435 ~~~~~~~~~~~~~~~~~~~~~~~ya~~d~~~~~~L~~~l~~~ 476 (887)
T TIGR00593 435 ILDEKIGGKLAKFAFPPLEEATEYLARRAAATKRLAEELLKE 476 (887)
T ss_pred ccHHHhccCCCCcccccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 0 000 0 12567888889998887654
No 96
>cd06147 Rrp6p_like_exo DEDDy 3'-5' exonuclease domain of yeast Rrp6p, human polymyositis/scleroderma autoantigen 100kDa, and similar proteins. Yeast Rrp6p and its human homolog, the polymyositis/scleroderma autoantigen 100kDa (PM/Scl-100), are exosome-associated proteins involved in the degradation and processing of precursors to stable RNAs. Both proteins contain a DEDDy-type DnaQ-like 3'-5' exonuclease domain possessing three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. The motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. PM/Scl-100, an autoantigen present in the nucleolar compartment of the cell, reacts with autoantibodies produced by about 50% of patients with polymyositis-scleroderma overlap syndrome.
Probab=96.45 E-value=0.05 Score=43.97 Aligned_cols=61 Identities=25% Similarity=0.279 Sum_probs=45.4
Q ss_pred HHHHhcCC--CeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCCCcHHHHHHHh-CCC
Q psy8196 77 NFLNYVSN--SEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRY-NIS 146 (230)
Q Consensus 77 ~~~~fl~~--~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~-gi~ 146 (230)
.|.+++.+ ...|+|+++.|+..|.+ +.|+... . ++|++.++|.+.|+ +.+|+.|+++| +..
T Consensus 68 ~L~~~L~~~~i~kv~~d~K~~~~~L~~---~~gi~~~----~-~fD~~laaYLL~p~-~~~l~~l~~~yl~~~ 131 (192)
T cd06147 68 ILNEVFTDPNILKVFHGADSDIIWLQR---DFGLYVV----N-LFDTGQAARVLNLP-RHSLAYLLQKYCNVD 131 (192)
T ss_pred HHHHHhcCCCceEEEechHHHHHHHHH---HhCCCcC----c-hHHHHHHHHHhCCC-cccHHHHHHHHhCCC
Confidence 35556654 45799999999887642 5566422 2 39999999999998 67999999998 443
No 97
>PHA02528 43 DNA polymerase; Provisional
Probab=96.41 E-value=0.057 Score=53.63 Aligned_cols=101 Identities=20% Similarity=0.208 Sum_probs=66.2
Q ss_pred CCCHHHHHHHHHHhcCC---CeEEEEcc-cccHHHHHHHHHH-cCCC------Cccc------------------ccc-h
Q psy8196 68 KLKFSEIVDNFLNYVSN---SEIIIHNA-AFDVGFLDMELSL-LGYS------NFTK------------------YIY-R 117 (230)
Q Consensus 68 ~~~~~ev~~~~~~fl~~---~~lV~hna-~FD~~~L~~~l~~-~g~~------~~~~------------------~~~-~ 117 (230)
-+...+.+..|.+|+.. ..++|||. .||+++|..-+.+ +|.. ++.. ... .
T Consensus 175 ~~sE~eLL~~F~~~i~~~DPDII~GyNi~~FDlpYL~~Ra~~~lg~~~~~~l~~~~~~~~~~~~~~~g~~~~~~~i~GRv 254 (881)
T PHA02528 175 FDTEREMLLEYINFWEENTPVIFTGWNVELFDVPYIINRIKNILGEKTAKRLSPWGKVKERTIENMYGREEIAYDISGIS 254 (881)
T ss_pred cCCHHHHHHHHHHHHHHhCCcEEEecCCccCCHHHHHHHHHHHcCcccccccccccccccccccccccccceeEEEcceE
Confidence 35678899999999853 46899998 9999999777764 3422 0100 011 1
Q ss_pred HhHHHHHHHHH-cC-CCCCcHHHHHHH-hCCCCCCC---------------CCCCHHHHHHHHHHHHHH
Q psy8196 118 ITDTLLMARKI-HT-GKRNSLDALCDR-YNISKIHR---------------TLHGGLLDAELLAEVYLA 168 (230)
Q Consensus 118 ~iDtl~lar~~-~p-~~~~~L~~L~~~-~gi~~~~r---------------~~H~Al~Da~~~a~v~~~ 168 (230)
++|.+.+.+.. +. -.+++|+++|+. +|.....- -++=.+.||.++.+++.+
T Consensus 255 ~lD~~dl~k~~~~~~l~SYsLe~VA~~~LG~~K~d~~~~eI~~l~~~d~~~l~~Ynl~Da~Lv~~L~~k 323 (881)
T PHA02528 255 ILDYLDLYKKFTFTNQPSYRLDYIAEVELGKKKLDYSDGPFKKFRETDHQKYIEYNIIDVELVDRLDDK 323 (881)
T ss_pred EEeHHHHHHHhhhcccccCCHHHHHHHHhCCCCccCCHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHH
Confidence 56777777764 32 346699999996 67654321 123346788888888866
No 98
>COG0417 PolB DNA polymerase elongation subunit (family B) [DNA replication, recombination, and repair]
Probab=96.15 E-value=0.065 Score=52.81 Aligned_cols=151 Identities=21% Similarity=0.198 Sum_probs=90.5
Q ss_pred CceEEEEecCCCCC---CC-CCCceEEEEEEEEECCEEecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHHHHH
Q psy8196 2 HRHIVLDIETTGLN---II-DGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEIVDN 77 (230)
Q Consensus 2 ~~~ivlD~ETTGl~---~~-~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev~~~ 77 (230)
++.++||+||.+.. +. ..+.++.|+...-..+... ..+..-..++. . +.....-.+++..
T Consensus 154 l~~la~DiE~~~~~~~~~~~~~d~~~~i~~~~~~~~~~~-~~~~~~~~~~~------------~---v~~~~~e~e~l~~ 217 (792)
T COG0417 154 LRVLAFDIETLSEPGKFPDGEKDPIIMISYAIEAEGGLI-EVFIYTSGEGF------------S---VEVVISEAELLER 217 (792)
T ss_pred ceEEEEEEEEecCCCCCCCccCCceEEEEEEeccCCCcc-ccccccCCCCc------------e---eEEecCHHHHHHH
Confidence 46799999997543 21 1256666665544332111 00000000000 0 2222455789999
Q ss_pred HHHhcC---CCeEEEEcc-cccHHHHHHHHHHcCCCCc------------cccc----chHhHHHHHHH-HHcCCCCCcH
Q psy8196 78 FLNYVS---NSEIIIHNA-AFDVGFLDMELSLLGYSNF------------TKYI----YRITDTLLMAR-KIHTGKRNSL 136 (230)
Q Consensus 78 ~~~fl~---~~~lV~hna-~FD~~~L~~~l~~~g~~~~------------~~~~----~~~iDtl~lar-~~~p~~~~~L 136 (230)
|.+++. ..++++||. .||+++|..-+.++|++.. ..++ ...+|.....+ +.....+++|
T Consensus 218 ~~~~i~~~dPdVIvgyn~~~fd~pyl~~Ra~~lgi~~~~gr~~~~~~~~~~~~~~~~Gr~~iDl~~~~~~~~~~~~~ysl 297 (792)
T COG0417 218 FVELIREYDPDVIVGYNGDNFDWPYLAERAERLGIPLRLGRDGSELRVRKSGFSSQVGRLHIDLYPALRRRPLNLKSYSL 297 (792)
T ss_pred HHHHHHhcCCCEEEeccCCcCChHHHHHHHHHhCCCccccccccccceeecccccccceEEEecHHHHhhhhcccccccH
Confidence 999884 346899999 6999999999888887633 0001 13578877777 4666667799
Q ss_pred HHHHHHhCCCCC--------------------CCCCCCHHHHHHHHHHHHHH
Q psy8196 137 DALCDRYNISKI--------------------HRTLHGGLLDAELLAEVYLA 168 (230)
Q Consensus 137 ~~L~~~~gi~~~--------------------~r~~H~Al~Da~~~a~v~~~ 168 (230)
++.++.+..... .+.+..-+.|+.++.+++.+
T Consensus 298 ~~v~~~~l~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~l~~~~~~~ 349 (792)
T COG0417 298 EAVSEALLGEGKREDIPYDSMEEIWPDWADSKLRLLLYNLSDADLVLRILLK 349 (792)
T ss_pred HHHHHHhcccccccccCccchhhccccCccchhHHHHHHHHHHHHHHHHHHH
Confidence 999877743222 11134457788887777765
No 99
>PHA02524 43A DNA polymerase subunit A; Provisional
Probab=95.93 E-value=0.051 Score=50.41 Aligned_cols=76 Identities=14% Similarity=0.162 Sum_probs=53.5
Q ss_pred CCCHHHHHHHHHHhcCC---CeEEEEcc-cccHHHHHHHHHH-cCCC------Ccc-----------------cccc-hH
Q psy8196 68 KLKFSEIVDNFLNYVSN---SEIIIHNA-AFDVGFLDMELSL-LGYS------NFT-----------------KYIY-RI 118 (230)
Q Consensus 68 ~~~~~ev~~~~~~fl~~---~~lV~hna-~FD~~~L~~~l~~-~g~~------~~~-----------------~~~~-~~ 118 (230)
-+...+++.+|.+|+.. ..++|||. .||+++|..-..+ +|.. ++. .... .+
T Consensus 177 f~sE~eLL~~F~~~i~~~DPDIItGYNi~nFDlPYL~~Ra~~~lGi~~~~~~~~~Gr~~~~~s~~~~G~~~~~~I~GRv~ 256 (498)
T PHA02524 177 FEDEVDLLLNYIQLWKANTPDLVFGWNSEGFDIPYIITRITNILGEKAANQLSPYGKITSKTITNLYGEKIIYKIHGIAL 256 (498)
T ss_pred eCCHHHHHHHHHHHHHHhCCCEEEeCCCcccCHHHHHHHHHHHhCCccccccccccccccccceeecCceeEEEEeeEEE
Confidence 36778999999999965 56899999 9999999776643 5542 010 0011 25
Q ss_pred hHHHHHHHHH--cCCCCCcHHHHHHHh
Q psy8196 119 TDTLLMARKI--HTGKRNSLDALCDRY 143 (230)
Q Consensus 119 iDtl~lar~~--~p~~~~~L~~L~~~~ 143 (230)
+|.+.+.++. ..-.+++|+.+++.+
T Consensus 257 iDl~~l~kk~s~~~l~sYsL~~Vs~~~ 283 (498)
T PHA02524 257 MDYMDVFKKFSFTPMPDYKLGNVGYRE 283 (498)
T ss_pred eEHHHHHHHhhhccCCCCCHHHHHHHh
Confidence 7888888875 344567999998754
No 100
>cd06128 DNA_polA_exo DEDDy 3'-5' exonuclease domain of family-A DNA polymerases. The 3'-5' exonuclease domain of family-A DNA polymerases has a fundamental role in reducing polymerase errors and is involved in proofreading activity. Family-A DNA polymerases contain a DnaQ-like exonuclease domain in the same polypeptide chain as the polymerase domain, similar to family-B DNA polymerases. The exonuclease domain contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, which are clustered around the active site and contain four invariant acidic residues that serve as ligands for the two metal ions required for catalysis. The Klenow fragment (KF) of Escherichia coli Pol I, the Thermus aquaticus (Taq) Pol I, and Bacillus stearothermophilus (BF) Pol I are examples of family-A DNA polymerases. They are involved in nucleotide excision repair and in the processing of Okazaki fragments that are generated during lagging strand synthesis. The N-terminal domains of BF Pol I and Taq Po
Probab=95.87 E-value=0.028 Score=43.43 Aligned_cols=61 Identities=18% Similarity=0.194 Sum_probs=45.7
Q ss_pred HHHhcCCC--eEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCC-CcHHHHHHHh-CCC
Q psy8196 78 FLNYVSNS--EIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKR-NSLDALCDRY-NIS 146 (230)
Q Consensus 78 ~~~fl~~~--~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~-~~L~~L~~~~-gi~ 146 (230)
|.+|+.+. ..++||+++++.+| .+.|+.... .++|++.++|.+.|..+ .++++++++| ++.
T Consensus 45 l~~~l~~~~~~ki~~d~K~~~~~l----~~~gi~l~~----~~fD~~LAaYLL~p~~~~~~l~~la~~yl~~~ 109 (151)
T cd06128 45 LKPLLEDEKALKVGQNLKYDRVIL----ANYGIELRG----IAFDTMLEAYLLDPVAGRHDMDSLAERWLKEK 109 (151)
T ss_pred HHHHHcCCCCCEEeeehHHHHHHH----HHCCCCCCC----cchhHHHHHHHcCCCCCCCCHHHHHHHHcCCC
Confidence 55566543 47999998888775 467765322 36899999999999764 5999999998 443
No 101
>KOG1798|consensus
Probab=95.56 E-value=0.45 Score=49.16 Aligned_cols=155 Identities=19% Similarity=0.296 Sum_probs=93.4
Q ss_pred ceEEEEecCCCCCCC----CCCceEEEEEEEEEC-------CEEecc---eeEEEEcCCCCCChhhHhhcCCCHHHHhCC
Q psy8196 3 RHIVLDIETTGLNII----DGHRIIEIGCVEIKN-------RQITGN---NLHYYINPGRDSEKSALAIHGLTTKFLKNK 68 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~----~~~~IieIg~v~~~~-------~~~~~~---~f~~~i~P~~~i~~~a~~i~Git~e~l~~~ 68 (230)
+.++||+|||-++-. .-|+|.-|... +++ ++++++ .|++--+|+.+ +-+. +.+.
T Consensus 247 ~VlAFDIETtKlPLKFPDae~DqIMMISYM-iDGqGfLItNREiVs~DIedfEYTPKpE~e---G~F~--------v~Ne 314 (2173)
T KOG1798|consen 247 RVLAFDIETTKLPLKFPDAESDQIMMISYM-IDGQGFLITNREIVSEDIEDFEYTPKPEYE---GPFC--------VFNE 314 (2173)
T ss_pred eEEEEeeecccCCCCCCCcccceEEEEEEE-ecCceEEEechhhhccchhhcccCCccccc---cceE--------EecC
Confidence 568999999977522 12677777643 232 222111 22222222210 0111 1233
Q ss_pred CCHHHHHHHHHHhcC---CCeEEEEcc-cccHHHHHHHHHHcCCCC--------------cccccchHhHHHHHHHH--H
Q psy8196 69 LKFSEIVDNFLNYVS---NSEIIIHNA-AFDVGFLDMELSLLGYSN--------------FTKYIYRITDTLLMARK--I 128 (230)
Q Consensus 69 ~~~~ev~~~~~~fl~---~~~lV~hna-~FD~~~L~~~l~~~g~~~--------------~~~~~~~~iDtl~lar~--~ 128 (230)
+....++.+|.+-+. ...+|.+|+ =||++|+.+-...+|+.. ...+|. .+|.....++ .
T Consensus 315 ~dEv~Ll~RfFeHiq~~kP~iivTyNGDFFDWPFve~Ra~~hGi~m~eEiGF~~D~~gEyks~~c~-HmDcfrWVKRDSY 393 (2173)
T KOG1798|consen 315 PDEVGLLQRFFEHIQEVKPTIIVTYNGDFFDWPFVEARAKIHGISMNEEIGFRRDSQGEYKSPFCI-HMDCFRWVKRDSY 393 (2173)
T ss_pred CcHHHHHHHHHHHHHhcCCcEEEEecCccccchhhHHHHHhcCCCcchhcCceeccccccccccee-ehhhhhhhhhccc
Confidence 555677888877664 446899999 679999999888888651 123443 5677666654 4
Q ss_pred cCCCCCcHHHHHHH-hCCCCCC---------------CCCCCHHHHHHHHHHHHHHHH
Q psy8196 129 HTGKRNSLDALCDR-YNISKIH---------------RTLHGGLLDAELLAEVYLAMT 170 (230)
Q Consensus 129 ~p~~~~~L~~L~~~-~gi~~~~---------------r~~H~Al~Da~~~a~v~~~l~ 170 (230)
.|..+.+|.++.+. +|.+.-. +-+-=..+||.+|.-+|++..
T Consensus 394 LPqGSqgLKAVTkaKLGYdPvEvdPEdM~~~A~EkPQ~lasYSVSDAVATYyLYMkYV 451 (2173)
T KOG1798|consen 394 LPQGSQGLKAVTKAKLGYDPVEVDPEDMVRMAMEKPQTLASYSVSDAVATYYLYMKYV 451 (2173)
T ss_pred CCCcccchhHHHHHhhCCCcccCCHHHhhhhhhhCchhhhhcchHHHHHHHHHHHHHh
Confidence 57777788888754 5654321 124456789999999998864
No 102
>TIGR00592 pol2 DNA polymerase (pol2). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=95.21 E-value=0.99 Score=46.57 Aligned_cols=137 Identities=15% Similarity=0.128 Sum_probs=86.1
Q ss_pred EEEEecCCCCCCC-CCCceEEEEEEEEECCEE--------ecceeEEEEcCC-CCCCh-hhHhhcCCCHHHHhCCCCHHH
Q psy8196 5 IVLDIETTGLNII-DGHRIIEIGCVEIKNRQI--------TGNNLHYYINPG-RDSEK-SALAIHGLTTKFLKNKLKFSE 73 (230)
Q Consensus 5 ivlD~ETTGl~~~-~~~~IieIg~v~~~~~~~--------~~~~f~~~i~P~-~~i~~-~a~~i~Git~e~l~~~~~~~e 73 (230)
+-|++| .+.|. ....++.|+++...+... ....+....+|. ...|. ......|+....+..-...++
T Consensus 509 LdFsi~--SlyPsi~~~~nl~iS~~v~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~~~L~~~~sEr~ 586 (1172)
T TIGR00592 509 LDFSMK--SLNPSIIRNEIVSIPDTLHREFALDKPPPEPPYDVHPCVGTRPKDCSFPLDLKGEFPGKKPSLVEDLATERA 586 (1172)
T ss_pred EEeeeE--EecCccccCceEEEEEEEeecccccCCCCCCccceEEEEEEccCCCCCCchhhhhhhccCCcEEEEecCHHH
Confidence 334556 34443 126788888886654211 001222333442 11221 122344555555666677888
Q ss_pred HHHHHHHhcC---CCeEEEEcc-cccHHHHHHHHHHcCCCCccc-----------------ccc-hHhHHHHHHHHHcCC
Q psy8196 74 IVDNFLNYVS---NSEIIIHNA-AFDVGFLDMELSLLGYSNFTK-----------------YIY-RITDTLLMARKIHTG 131 (230)
Q Consensus 74 v~~~~~~fl~---~~~lV~hna-~FD~~~L~~~l~~~g~~~~~~-----------------~~~-~~iDtl~lar~~~p~ 131 (230)
.+..|++++. ...+++||. .||+.+|-+-+.+++++.+.. .+. .++|+...++..+.-
T Consensus 587 lL~~fl~~~~~~DPDii~g~n~~qfdlkvl~nR~~~l~i~~~~~~Gr~~~~~~~~~~~~~~~~Grl~~D~~~~~k~~~~~ 666 (1172)
T TIGR00592 587 LIKKFMAKVKKIDPDEIVGHDYQQRALKVLANRINDLKIPTWSKIGRLRRSPKFGRRFGERTCGRMICDVEISAKELIRC 666 (1172)
T ss_pred HHHHHHHHHHhcCCCEEEEEcccCccHHHHHHHHHHcCCCcccccCccccCCCccccccceECCEEEEEHHHHHHHHhCc
Confidence 9999999885 346899999 999999988888777763221 111 267899999988877
Q ss_pred CCCcHHHHHHHh
Q psy8196 132 KRNSLDALCDRY 143 (230)
Q Consensus 132 ~~~~L~~L~~~~ 143 (230)
.+++|+.+|+.+
T Consensus 667 ~sy~L~~v~~~~ 678 (1172)
T TIGR00592 667 KSYDLSELVQQI 678 (1172)
T ss_pred CCCCHHHHHHHH
Confidence 788999999876
No 103
>KOG1275|consensus
Probab=94.64 E-value=0.024 Score=55.23 Aligned_cols=118 Identities=14% Similarity=0.119 Sum_probs=82.5
Q ss_pred EEEcCCCCCChhhHhhcCCCHHHHhCC------CCHHHHHHHHHHhc-CCCeEEEEcccccHHHHHHHHHHcCCCCcccc
Q psy8196 42 YYINPGRDSEKSALAIHGLTTKFLKNK------LKFSEIVDNFLNYV-SNSEIIIHNAAFDVGFLDMELSLLGYSNFTKY 114 (230)
Q Consensus 42 ~~i~P~~~i~~~a~~i~Git~e~l~~~------~~~~ev~~~~~~fl-~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~ 114 (230)
-||--+..+..+-++..||-+.+|... -+..-++.++.=.+ .|.++|||...-|...+|- ..+ .
T Consensus 965 DYv~T~d~VvDYLTqySGI~PGDLDp~~S~K~Lt~lK~~Y~Kl~~Li~~GviFVGHGL~nDFrvINi-----~Vp--~-- 1035 (1118)
T KOG1275|consen 965 DYVSTDDKVVDYLTQYSGIKPGDLDPTTSEKRLTTLKVLYLKLRLLIQRGVIFVGHGLQNDFRVINI-----HVP--E-- 1035 (1118)
T ss_pred ceecchhHHHHHHHHhcCCCccccCCccCcceehhHHHHHHHHHHHHHcCcEEEcccccccceEEEE-----ecC--h--
Confidence 344445577888889999999998743 24555666665555 5778999999999877641 111 1
Q ss_pred cchHhHHHHHHHHHcCCCCC-cHHHHHHHh-CCCCCCCCCCCHHHHHHHHHHHHHHHHcC
Q psy8196 115 IYRITDTLLMARKIHTGKRN-SLDALCDRY-NISKIHRTLHGGLLDAELLAEVYLAMTRG 172 (230)
Q Consensus 115 ~~~~iDtl~lar~~~p~~~~-~L~~L~~~~-gi~~~~r~~H~Al~Da~~~a~v~~~l~~~ 172 (230)
.+++||+.+.+. |.++. +|.-|+..+ |-.... +.|+...||..+..+|.+...-
T Consensus 1036 -~QiiDTv~lf~~--~s~R~LSLrfLa~~lLg~~IQ~-~~HDSIeDA~taLkLYk~Yl~l 1091 (1118)
T KOG1275|consen 1036 -EQIIDTVTLFRL--GSQRMLSLRFLAWELLGETIQM-EAHDSIEDARTALKLYKKYLKL 1091 (1118)
T ss_pred -hhheeeeEEEec--ccccEEEHHHHHHHHhcchhhc-cccccHHHHHHHHHHHHHHHHH
Confidence 248898754332 33344 999999886 554444 5899999999999999887643
No 104
>PHA02563 DNA polymerase; Provisional
Probab=94.39 E-value=0.14 Score=49.04 Aligned_cols=34 Identities=32% Similarity=0.452 Sum_probs=27.7
Q ss_pred HHHHHHHhcC-------CCeEEEEcccccHHHHHHHHHHcC
Q psy8196 74 IVDNFLNYVS-------NSEIIIHNAAFDVGFLDMELSLLG 107 (230)
Q Consensus 74 v~~~~~~fl~-------~~~lV~hna~FD~~~L~~~l~~~g 107 (230)
.+++|.+|+. +..+..||..||..||-..+.+.+
T Consensus 49 ~~~~f~~~i~~~~~k~~~~~vYfHN~~FD~~Fil~~L~~~~ 89 (630)
T PHA02563 49 SFDEFLQWIEDTTYKETECIIYFHNLKFDGSFILKWLLRNG 89 (630)
T ss_pred cHHHHHHHHhhccccccceEEEEecCCccHHHHHHHHHhhc
Confidence 3557777776 456899999999999999888866
No 105
>KOG4793|consensus
Probab=93.12 E-value=0.1 Score=44.37 Aligned_cols=83 Identities=24% Similarity=0.208 Sum_probs=62.0
Q ss_pred EEEEcc-cccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHH----cC--CCCCcHHHHHHHhCCCCCCCCCCCHHHHH
Q psy8196 87 IIIHNA-AFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKI----HT--GKRNSLDALCDRYNISKIHRTLHGGLLDA 159 (230)
Q Consensus 87 lV~hna-~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~----~p--~~~~~L~~L~~~~gi~~~~r~~H~Al~Da 159 (230)
.+.||+ .|+..|..++|-|.+.+....+ ..++.|-.+++- .| ...++++.|+.+|....+. .+|+|+.|+
T Consensus 201 e~d~~~l~~~fqf~~~ellR~~deqa~pw--~~ir~l~~~~~~a~~~~P~p~~vs~le~Lat~~~~~p~l-~ahra~~Dv 277 (318)
T KOG4793|consen 201 EGDVNGLLFIFQFRINELLRWSDEQARPW--LLIRPLYLARENAKSVEPTPKLVSSLEALATYYSLTPEL-DAHRALSDV 277 (318)
T ss_pred ecccchhHHHHHHHHHHHHhhHhhcCCCc--ccccchhhhhhhccccCCCCccchhHHHHHHHhhcCccc-chhhhcccc
Confidence 467777 8999999999988875522221 256666665543 44 4456999999999877765 599999999
Q ss_pred HHHHHHHHHHHcC
Q psy8196 160 ELLAEVYLAMTRG 172 (230)
Q Consensus 160 ~~~a~v~~~l~~~ 172 (230)
.++.+++.++.-+
T Consensus 278 ~~~~k~~q~~~id 290 (318)
T KOG4793|consen 278 LLLSKVFQKLTID 290 (318)
T ss_pred chhhhHHHHhhhh
Confidence 9999999987744
No 106
>PHA03036 DNA polymerase; Provisional
Probab=92.43 E-value=2.3 Score=42.90 Aligned_cols=168 Identities=16% Similarity=0.142 Sum_probs=94.1
Q ss_pred ceEEEEecCC--CC-C-CCCCCceEEEEEEEEECCEEecceeEEEEcCCCCCC--hhhHhhcCC---------CHHHHhC
Q psy8196 3 RHIVLDIETT--GL-N-IIDGHRIIEIGCVEIKNRQITGNNLHYYINPGRDSE--KSALAIHGL---------TTKFLKN 67 (230)
Q Consensus 3 ~~ivlD~ETT--Gl-~-~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~~i~--~~a~~i~Gi---------t~e~l~~ 67 (230)
++++||+|+- |- + +.. +.|+.|+++.++...- +.-..+++.+...+ +.-..+-|. .-....-
T Consensus 161 ~~lsfDIEC~~~g~FPs~~~-~pvshIs~~~~~~~~~--~~~~~l~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 237 (1004)
T PHA03036 161 SYLFLDIECHFDKKFPSVFI-NPVSHISCCYIDLSGK--EKRFTLINEDMLSEDEIEEAVKRGYYEIESLLDMDYSKELI 237 (1004)
T ss_pred eeEEEEEEeccCCCCCCccc-CcceEEEEEEEecCCC--eeEEEEeccccccccccccceeeeeeccccccccCCceeee
Confidence 5899999986 31 1 233 7999999866653221 12334555432111 111111122 1111111
Q ss_pred CCCHHHHHHHHHHhcC---CCeEEEEcc-cccHHHHHHHHHHcCCC-----------C---------c------------
Q psy8196 68 KLKFSEIVDNFLNYVS---NSEIIIHNA-AFDVGFLDMELSLLGYS-----------N---------F------------ 111 (230)
Q Consensus 68 ~~~~~ev~~~~~~fl~---~~~lV~hna-~FD~~~L~~~l~~~g~~-----------~---------~------------ 111 (230)
-++..+++ .+.+++. -..++++|. .||++.|..-+..+... + +
T Consensus 238 ~~sE~~ml-~~~~~i~~~d~D~i~~yNg~nFD~~Yi~~R~~~L~~~~~~~~~~~~~~~~~~~v~~r~~~s~~~~gg~~~~ 316 (1004)
T PHA03036 238 LCSEIVLL-RIAKKLLELEFDYVVTFNGHNFDLRYISNRLELLTGEKIIFRSPDGKETVHLCIYERNLSSHKGVGGVANT 316 (1004)
T ss_pred cCCHHHHH-HHHHHHHhcCCCEEEeccCCCcchHHHHHHHHHhccCceeeccCCCcccccceeeccccccccccCccccc
Confidence 24445544 5566664 345899999 99999998777665220 0 0
Q ss_pred ----cccc-chHhHHHHHHHHHcCCCCCcHHHHHHH-hCC-----CCCCCC---CCCHHHHHHHHHHHHHHHHcCCC
Q psy8196 112 ----TKYI-YRITDTLLMARKIHTGKRNSLDALCDR-YNI-----SKIHRT---LHGGLLDAELLAEVYLAMTRGQS 174 (230)
Q Consensus 112 ----~~~~-~~~iDtl~lar~~~p~~~~~L~~L~~~-~gi-----~~~~r~---~H~Al~Da~~~a~v~~~l~~~~~ 174 (230)
.... ..++|.+...++-+.-.+++|+++++. |+. ...... .-+--.|+...+.+|-+..+-..
T Consensus 317 t~~i~~~~G~i~fDLy~~i~k~~~L~sYkL~~Vsk~~f~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~f~~vl~t~n 393 (1004)
T PHA03036 317 TYHINNNNGTIFFDLYTFIQKTEKLDSYKLDSISKNAFNCNAKVLSENNNEVTFIGDNTTDAKGKASIFSEVLSTGN 393 (1004)
T ss_pred eEEecccCCeEEEEhHHHHhhhcCcccccHHHHHHHhhccceeeeecCCceeEEccCcccccccchhhhhhhhcccc
Confidence 0000 236899999999998888999999988 433 000000 11122577778888887765443
No 107
>COG5228 POP2 mRNA deadenylase subunit [RNA processing and modification]
Probab=91.39 E-value=2.5 Score=35.10 Aligned_cols=157 Identities=18% Similarity=0.224 Sum_probs=93.0
Q ss_pred ceEEEEecCCCCCCCC-C-------------------CceEEEEEEEEE--CCEEe---cceeEEEEcCCCCC-ChhhHh
Q psy8196 3 RHIVLDIETTGLNIID-G-------------------HRIIEIGCVEIK--NRQIT---GNNLHYYINPGRDS-EKSALA 56 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~-~-------------------~~IieIg~v~~~--~~~~~---~~~f~~~i~P~~~i-~~~a~~ 56 (230)
++|.+|||..|.-... | -.||++|...-+ ++.+. .-.|+.-.+|+.++ .++..+
T Consensus 43 n~vSmdTEFpGvvArPiG~FkSs~dyhYQtlraNVD~LkiIQlGlsLSDe~GN~P~~~sTWQFNF~F~l~~dmya~ESie 122 (299)
T COG5228 43 NHVSMDTEFPGVVARPIGTFKSSVDYHYQTLRANVDFLKIIQLGLSLSDENGNKPNGPSTWQFNFEFDLKKDMYATESIE 122 (299)
T ss_pred CceeeccccCceeecccccccccchHHHHHHhcccchhhhhheeeeeccccCCCCCCCceeEEEEEecchhhhcchHHHH
Confidence 4588999988762110 0 378999987665 23332 23677777886553 344443
Q ss_pred h---cCCCHHHHhCCC-CHHHHHHHHHHhc-------CCC-eEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHH
Q psy8196 57 I---HGLTTKFLKNKL-KFSEIVDNFLNYV-------SNS-EIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLM 124 (230)
Q Consensus 57 i---~Git~e~l~~~~-~~~ev~~~~~~fl-------~~~-~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~l 124 (230)
+ .||.-+.-.+-. .. .+|.+.+ .+. +.|.+.+.+|+++|-+.+....+|.- .=|-..+
T Consensus 123 LL~ksgIdFkkHe~~GI~v----~eF~elLm~SGLvm~e~VtWitfHsaYDfgyLikilt~~plP~~------~EdFy~~ 192 (299)
T COG5228 123 LLRKSGIDFKKHENLGIDV----FEFSELLMDSGLVMDESVTWITFHSAYDFGYLIKILTNDPLPNN------KEDFYWW 192 (299)
T ss_pred HHHHcCCChhhHhhcCCCH----HHHHHHHhccCceeccceEEEEeecchhHHHHHHHHhcCCCCcc------HHHHHHH
Confidence 3 566654433221 11 2233322 223 36888889999999877666554411 1233333
Q ss_pred HHHHcCCC-------------CCcHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHHHHHH
Q psy8196 125 ARKIHTGK-------------RNSLDALCDRYNISKIHRTLHGGLLDAELLAEVYLAMT 170 (230)
Q Consensus 125 ar~~~p~~-------------~~~L~~L~~~~gi~~~~r~~H~Al~Da~~~a~v~~~l~ 170 (230)
-..++|.. +..|.+...-+++..++ ..|.|-.||.+|++.|....
T Consensus 193 l~~yfP~fYDik~v~ks~~~~~KglQei~ndlql~r~g-~QhQagsdaLlTa~~ff~~R 250 (299)
T COG5228 193 LHQYFPNFYDIKLVYKSVLNNSKGLQEIKNDLQLQRSG-QQHQAGSDALLTADEFFLPR 250 (299)
T ss_pred HHHHCccccchHHHHHhhhhhhhHHHHhcCcHhhhccc-hhhhccchhhhhhHHhcchh
Confidence 33344421 23567777777777776 58999999999999987643
No 108
>PF11074 DUF2779: Domain of unknown function(DUF2779); InterPro: IPR021301 This domain is conserved in bacteria. The function is not known.
Probab=88.21 E-value=1 Score=34.36 Aligned_cols=60 Identities=18% Similarity=0.267 Sum_probs=39.4
Q ss_pred CCHHHHHHHHHHhcCC--CeEEEEcccccHHHHHHHHHHcC-C-CCcccccchHhHHHHHHHHH
Q psy8196 69 LKFSEIVDNFLNYVSN--SEIIIHNAAFDVGFLDMELSLLG-Y-SNFTKYIYRITDTLLMARKI 128 (230)
Q Consensus 69 ~~~~ev~~~~~~fl~~--~~lV~hna~FD~~~L~~~l~~~g-~-~~~~~~~~~~iDtl~lar~~ 128 (230)
.+-.+.++.|.+.++. ..+|++|.+|....|+......- + ..+..+..+++|.+...+..
T Consensus 55 DPr~~~~~~L~~~i~~~~g~ivvyN~sfE~~rL~ela~~~p~~~~~l~~I~~r~vDL~~~f~~~ 118 (130)
T PF11074_consen 55 DPRRELIEALIKAIGSIYGSIVVYNKSFEKTRLKELAELFPDYAEKLNSIIERTVDLLDPFKNH 118 (130)
T ss_pred CchHHHHHHHHHHhhhhcCeEEEechHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHhhC
Confidence 4567788888888864 46999999999998865444321 0 01122223578887777764
No 109
>KOG0969|consensus
Probab=83.81 E-value=0.47 Score=46.01 Aligned_cols=130 Identities=19% Similarity=0.189 Sum_probs=68.6
Q ss_pred ceEEEEecCCCCCCC----CCCceEEEEEEEEECCE--EecceeEEEEcCCCCCChhhHhhcCCCHHHHhCCCCHHHH--
Q psy8196 3 RHIVLDIETTGLNII----DGHRIIEIGCVEIKNRQ--ITGNNLHYYINPGRDSEKSALAIHGLTTKFLKNKLKFSEI-- 74 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~----~~~~IieIg~v~~~~~~--~~~~~f~~~i~P~~~i~~~a~~i~Git~e~l~~~~~~~ev-- 74 (230)
|.+.||+|+.|-.+. .-+.+|+|+-+...-+. +--+..+ -++|-. +|....+.......++
T Consensus 275 rvlSfDIECagrkg~FPe~~~DPvIQIan~v~~~Ge~~pf~rnvf-~l~~ca----------pI~G~~V~~~~~e~elL~ 343 (1066)
T KOG0969|consen 275 RVLSFDIECAGRKGVFPEAKIDPVIQIANLVTLQGENEPFVRNVF-TLKTCA----------PIVGSNVHSYETEKELLE 343 (1066)
T ss_pred cccceeEEeccCCCCCCccccChHHHHHHHHHHhcCCchHHHhhh-cccCcC----------CCCCceeEEeccHHHHHH
Confidence 567899999865422 12678888754432211 1000000 011111 1222222222233444
Q ss_pred -HHHHHHhcCCCeEEEEcc-cccHHHHHHHHHHcCCCCcc------cccc-------------------------hHhHH
Q psy8196 75 -VDNFLNYVSNSEIIIHNA-AFDVGFLDMELSLLGYSNFT------KYIY-------------------------RITDT 121 (230)
Q Consensus 75 -~~~~~~fl~~~~lV~hna-~FD~~~L~~~l~~~g~~~~~------~~~~-------------------------~~iDt 121 (230)
|..|..-+....++|+|. .||+..|-.-.+.+|++.++ .... -.+|.
T Consensus 344 ~W~~firevDPDvI~GYNi~nFDiPYll~RA~~L~Ie~Fp~LGRikn~~s~irDttfSSkq~GtRetK~v~I~GRlqfDl 423 (1066)
T KOG0969|consen 344 SWRKFIREVDPDVIIGYNICNFDIPYLLNRAKTLGIENFPYLGRIKNSRSVIRDSTFSSKQYGTRETKEVNIDGRLQFDL 423 (1066)
T ss_pred HHHHHHHhcCCCeEecccccccccceecChHhhcCcccccccceecccceeeeccccchhhcCcccceEEeecceeeehH
Confidence 445555556678999999 99998875544555554221 1011 12455
Q ss_pred HHHHHHHcCCCCCcHHHHHHHh
Q psy8196 122 LLMARKIHTGKRNSLDALCDRY 143 (230)
Q Consensus 122 l~lar~~~p~~~~~L~~L~~~~ 143 (230)
+....+=|.-++++|.+++.+|
T Consensus 424 lqvi~Rd~KLrSytLNaVs~hF 445 (1066)
T KOG0969|consen 424 LQVILRDYKLRSYTLNAVSAHF 445 (1066)
T ss_pred HHHHHHhhhhhhcchhhhHHHh
Confidence 5555555556678999999888
No 110
>PF00843 Arena_nucleocap: Arenavirus nucleocapsid protein; InterPro: IPR000229 Arenaviruses are single stranded RNA viruses. The arenavirus S RNAs that have been characterised include conserved terminal sequences, an ambisense arrangement of the coding regions for the precursor glycoprotein (GPC) and nucleocapsid (N) proteins and an intergenic region capable of forming a base-paired "hairpin" structure. The mature glycoproteins that result are G1 and G2 and the N protein []. This family represents the nucleocapsid protein that encapsulates the viral ssRNA [].; GO: 0019013 viral nucleocapsid; PDB: 3MX5_A 3MX2_C 3MWT_C 3Q7C_A 3MWP_B 3Q7B_A 3T5Q_E 3T5N_A 3R3L_B.
Probab=83.77 E-value=0.94 Score=41.14 Aligned_cols=140 Identities=18% Similarity=0.288 Sum_probs=70.8
Q ss_pred EEEEecCCCCCCCCCCceEEEEEEEEECCEEecceeEEEEcCCC--CCChhhHhhcCCCHHHHhCCCCHHHHHHHHHHhc
Q psy8196 5 IVLDIETTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYYINPGR--DSEKSALAIHGLTTKFLKNKLKFSEIVDNFLNYV 82 (230)
Q Consensus 5 ivlD~ETTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~i~P~~--~i~~~a~~i~Git~e~l~~~~~~~ev~~~~~~fl 82 (230)
..+|+|.. | ...+|++...-..+ .-.|+|=.|.. ..-..+.--|||-..+|.++.+ -..+.++..+
T Consensus 375 tWiDIEG~---p---~DPVElAiyQP~sg----~YiHcyR~P~D~K~FK~~SKysHGillkDl~~aqP--GL~S~vi~~L 442 (533)
T PF00843_consen 375 TWIDIEGP---P---NDPVELAIYQPSSG----NYIHCYREPHDEKQFKNQSKYSHGILLKDLENAQP--GLTSAVIELL 442 (533)
T ss_dssp EEEEEESE---T---TSESEEEEEETTTT----EEEEEE---S-HHHHHHHHHHTT-B-GGGCTTB-T--THHHHHHHHS
T ss_pred eeEecCCC---C---CCCeEEEEeccCCC----cEEEEecCCcchhhhcccccccccccHHHHhhhcc--chHHHHHHhC
Confidence 67899944 2 35789998765443 35778888853 2334555679999999987754 4666777778
Q ss_pred CCCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCC---CCCcHHHHHHHh-CCCC--CC-------
Q psy8196 83 SNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTG---KRNSLDALCDRY-NISK--IH------- 149 (230)
Q Consensus 83 ~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~---~~~~L~~L~~~~-gi~~--~~------- 149 (230)
...-++.--++-|+.-| |.-+|...+. ++|...-+-..--. -..+...||+.. ||-. ..
T Consensus 443 P~~MVlT~QGsDDIrkL---ld~hGRrDiK-----lvDV~lt~eqaR~FEd~VWd~f~~LC~~H~GvVv~KKKkg~~~~~ 514 (533)
T PF00843_consen 443 PKNMVLTCQGSDDIRKL---LDMHGRRDIK-----LVDVKLTSEQARKFEDQVWDRFGHLCKKHTGVVVKKKKKGKKPES 514 (533)
T ss_dssp -TT-EEEESSHHHHHHH---HHCTT-TTSE-----EEE----HHHHTTTHHHHHHHHGGG---B-S-EEE--SSSS-EEE
T ss_pred CcCcEEEeeChHHHHHH---HHhcCCCcce-----EEEeecCHHHHHHHHHHHHHHHHHHHHhcCceEEecccCCCCCCC
Confidence 76666666666687544 6677765443 56643332221111 011445566665 4321 11
Q ss_pred CCCCCHHHHHHHHHH
Q psy8196 150 RTLHGGLLDAELLAE 164 (230)
Q Consensus 150 r~~H~Al~Da~~~a~ 164 (230)
.++|.||.||.+--.
T Consensus 515 t~PHCALlDCiMf~a 529 (533)
T PF00843_consen 515 TNPHCALLDCIMFEA 529 (533)
T ss_dssp -----HHHHHHHHHH
T ss_pred CCchHHHHHHHHHHh
Confidence 148999999987543
No 111
>PF13017 Maelstrom: piRNA pathway germ-plasm component
Probab=80.72 E-value=3.2 Score=34.34 Aligned_cols=64 Identities=20% Similarity=0.280 Sum_probs=45.6
Q ss_pred CceEEEEEEEEE-CCEEecceeEEEEcCCCCCChhh-------HhhcCCCHHHHhCCC-CHHHHHHHHHHhcCC
Q psy8196 20 HRIIEIGCVEIK-NRQITGNNLHYYINPGRDSEKSA-------LAIHGLTTKFLKNKL-KFSEIVDNFLNYVSN 84 (230)
Q Consensus 20 ~~IieIg~v~~~-~~~~~~~~f~~~i~P~~~i~~~a-------~~i~Git~e~l~~~~-~~~ev~~~~~~fl~~ 84 (230)
.-+.|||++++. ..++. ..||.+|+|+..+...+ ...|+|..+-...+. .+..++.++.+|++.
T Consensus 8 y~PaEiai~~fSL~~GI~-~~~H~~I~Pg~~p~G~~~~a~~hs~~tH~ip~~~~~~~~~d~~~l~~~l~~fl~~ 80 (213)
T PF13017_consen 8 YVPAEIAICKFSLKEGII-DSFHTFINPGQIPLGYRYDAQHHSDETHQIPIPPNALGESDYSELYNELLNFLKP 80 (213)
T ss_pred EEeEEEEEEEEecCCccc-hhhhcccCCCCCCcHHHHHHHHhhhhhcCCCCCCcccccCCHHHHHHHHHHHhhh
Confidence 578899999997 33344 47999999985443322 345777766444444 799999999999953
No 112
>PRK05761 DNA polymerase I; Reviewed
Probab=79.11 E-value=5.7 Score=39.37 Aligned_cols=98 Identities=17% Similarity=0.172 Sum_probs=61.5
Q ss_pred CCHHHHHHHHHHhcCC-CeEEEEcc-cccHHHHHHHHHHcCCCCcc--ccc-c-h-HhHHHHHHHHH----------cCC
Q psy8196 69 LKFSEIVDNFLNYVSN-SEIIIHNA-AFDVGFLDMELSLLGYSNFT--KYI-Y-R-ITDTLLMARKI----------HTG 131 (230)
Q Consensus 69 ~~~~ev~~~~~~fl~~-~~lV~hna-~FD~~~L~~~l~~~g~~~~~--~~~-~-~-~iDtl~lar~~----------~p~ 131 (230)
+...+++..|.+|+.. .+.|++|. .||+++|..-..++|++... ... . . .+|........ ...
T Consensus 208 ~~E~eLL~~f~~~i~~~dPdi~yN~~~FDlPYL~~Ra~~lgi~~~~~~~~~~~~~~~iDl~~~~~~~~~~~y~~~~~~~~ 287 (787)
T PRK05761 208 DSEKELLAELFDIILEYPPVVTFNGDNFDLPYLYNRALKLGIPKEEIPIEPGRAGIHIDLYKFFQNKAVRSYAFYGKYRH 287 (787)
T ss_pred CCHHHHHHHHHHHHHhcCCEEEEcCCcchHHHHHHHHHHhCCCchhcccccCCCceEEechhheeecceeeeeccceeec
Confidence 5568899999999965 45778999 99999999888889976320 000 0 0 14443332211 111
Q ss_pred CCCcHHHHHHH-hCCCCCCC-----------CCCCHHHHHHHHHHHH
Q psy8196 132 KRNSLDALCDR-YNISKIHR-----------TLHGGLLDAELLAEVY 166 (230)
Q Consensus 132 ~~~~L~~L~~~-~gi~~~~r-----------~~H~Al~Da~~~a~v~ 166 (230)
.+.+|+.+++. +|...... -+.=.+.||.++.++.
T Consensus 288 ~~ysL~~Va~~~Lg~~K~~~~~~i~~~~~~~l~~Y~l~Da~l~~~L~ 334 (787)
T PRK05761 288 REARLDAVGRALLGISKVELETNISELDLEELAEYNFRDAEITLKLT 334 (787)
T ss_pred ccCChHHHHHHHhCCCcccccccccccCHHHHHHHHHHHHHHHHHHH
Confidence 24689999985 46654321 0223567888888874
No 113
>KOG3657|consensus
Probab=69.99 E-value=3.2 Score=40.85 Aligned_cols=36 Identities=28% Similarity=0.391 Sum_probs=25.3
Q ss_pred CCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHH
Q psy8196 84 NSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMA 125 (230)
Q Consensus 84 ~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~la 125 (230)
+..+||||.+||+.-++.++...|- . .+++|||.+.
T Consensus 241 e~liVGHNVsfDRaRirEeY~i~~S---k---~rFlDTMSlH 276 (1075)
T KOG3657|consen 241 EQLIVGHNVSFDRARIREEYNINGS---K---IRFLDTMSLH 276 (1075)
T ss_pred CceEEeccccchHHHHHHHHhcccc---c---eeeeechhhh
Confidence 4568999999999999877653331 1 2477877654
No 114
>KOG0970|consensus
Probab=63.06 E-value=41 Score=34.63 Aligned_cols=165 Identities=21% Similarity=0.272 Sum_probs=92.6
Q ss_pred ceEEEEecCCCCCCCC-CCceEEEEEEEEECCEE--------ecceeEEEEcCCCCCChhhHh-hc--CCCHHHHhCCCC
Q psy8196 3 RHIVLDIETTGLNIID-GHRIIEIGCVEIKNRQI--------TGNNLHYYINPGRDSEKSALA-IH--GLTTKFLKNKLK 70 (230)
Q Consensus 3 ~~ivlD~ETTGl~~~~-~~~IieIg~v~~~~~~~--------~~~~f~~~i~P~~~i~~~a~~-i~--Git~e~l~~~~~ 70 (230)
....|-++|+ +++.. ..+||.|++....+..+ ..+.|...++|...+-|...+ +- ..+. +.-..+
T Consensus 530 ~llsL~i~T~-~N~k~~~~Eiv~is~l~~~~~~id~p~p~~~~~~~~c~l~rP~~~~fP~g~~ela~~k~~~--v~~~~s 606 (1429)
T KOG0970|consen 530 TLLSLNIRTS-MNPKQNKNEIVMISMLCFHNFSIDKPAPAPAFPRHFCVLTRPPGTSFPLGLKELAKQKLSK--VVLHNS 606 (1429)
T ss_pred eEEEeeeeeh-hccccchhhhhhhhhhhcccccccCCCCCCcccCcceeEecCCCCcCCchHHHHHHhccCc--eEEecC
Confidence 4456666665 33322 26788777665543211 224677778886543333222 10 1111 222345
Q ss_pred HHHHHHHHHHhcC---CCeEEEEcc-cccHHHHHHHHHHcCCCCccc-----------------------ccch-HhHHH
Q psy8196 71 FSEIVDNFLNYVS---NSEIIIHNA-AFDVGFLDMELSLLGYSNFTK-----------------------YIYR-ITDTL 122 (230)
Q Consensus 71 ~~ev~~~~~~fl~---~~~lV~hna-~FD~~~L~~~l~~~g~~~~~~-----------------------~~~~-~iDtl 122 (230)
....+..|..-+. ...+|+||. .|++.+|-..+..+.+|.|+. .+.+ +-|+-
T Consensus 607 ErALLs~fla~~~~~dpD~iVgHn~~~~~l~VLl~R~~~~Kip~WS~IgRLrrS~~~kfg~~s~~~e~~~~aGRl~CD~~ 686 (1429)
T KOG0970|consen 607 ERALLSHFLAMLNKEDPDVIVGHNIQGFYLDVLLSRLHALKIPNWSSIGRLRRSWPPKFGRSSSFGEFFIIAGRLMCDLN 686 (1429)
T ss_pred HHHHHHHHHHHhhccCCCEEEEeccccchHHHHHHHHHHhcCcchhhhhhhhhccccccCCcccccccccccceEEeehH
Confidence 5667777777664 346899995 999999966665555542210 1112 34666
Q ss_pred HHHHHHcCCCCCcHHHHHHHh-CCCCCC---------C--C------CCCHHHHHHHHHHHHHHHH
Q psy8196 123 LMARKIHTGKRNSLDALCDRY-NISKIH---------R--T------LHGGLLDAELLAEVYLAMT 170 (230)
Q Consensus 123 ~lar~~~p~~~~~L~~L~~~~-gi~~~~---------r--~------~H~Al~Da~~~a~v~~~l~ 170 (230)
..++.+.+-++++|..|++.. +.+... . . ......|+...++|+.++.
T Consensus 687 ~~a~~lik~~S~~LseL~q~~l~~eR~~i~~~~i~~~y~~s~~L~~ll~~~~~d~~~~l~i~~~l~ 752 (1429)
T KOG0970|consen 687 LAARELIKAQSYSLSELSQQILKEERKEINANEIPKMYEDSKSLTYLLEHTITDAELILQIMFRLN 752 (1429)
T ss_pred HHHHhhhccccccHHHHHHHHHhhhcccCCHhHhhhhccChHHHHHHHHHHhHHHHHHHHHHHHhc
Confidence 677888887888999999775 331110 0 0 1234567888888887764
No 115
>PF09281 Taq-exonuc: Taq polymerase, exonuclease; InterPro: IPR015361 This domain is found in prokaryotic Taq DNA polymerase (thermostable), where it assumes a ribonuclease H-like motif. The domain confers 5'-3' exonuclease activity to the polymerase []. ; GO: 0001882 nucleoside binding, 0003887 DNA-directed DNA polymerase activity, 0006260 DNA replication, 0006281 DNA repair; PDB: 4DF4_A 3T3F_A 1QSY_A 3OJS_A 3PO5_A 3OJU_A 1QTM_A 1QSS_A 3PY8_A 4DFJ_A ....
Probab=59.90 E-value=38 Score=25.80 Aligned_cols=62 Identities=18% Similarity=0.105 Sum_probs=37.4
Q ss_pred HHHHHHHcCCCCcccccchHhHHHHHHHHHcCCCCCcHHHHHHHh-CCCCCCCCCCCHHHHHHHHHHHHHHHH
Q psy8196 99 LDMELSLLGYSNFTKYIYRITDTLLMARKIHTGKRNSLDALCDRY-NISKIHRTLHGGLLDAELLAEVYLAMT 170 (230)
Q Consensus 99 L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~~~~L~~L~~~~-gi~~~~r~~H~Al~Da~~~a~v~~~l~ 170 (230)
|-..+.+.|..-.+ --|.|.+||.+.|... +...+++|| |-+-. -+|-.-|.++++++..|.
T Consensus 73 LAv~a~~~G~~v~P-----GDDPlLlAYLlDPsNt-~p~~varRY~~~~W~----~dA~~RA~~t~~L~~~L~ 135 (138)
T PF09281_consen 73 LAVHALREGVVVEP-----GDDPLLLAYLLDPSNT-NPEGVARRYLGGEWP----EDAATRALATARLLRALP 135 (138)
T ss_dssp HHHHHHHTT----B--------HHHHHHHH-TT---SHHHHHHHH-TS-------SSHHHHHHHHHHHHHHHH
T ss_pred HHHHHHhcCcccCC-----CCCcchhhhhcCccCC-ChHHHHHHhcCCCCC----ccHHHHHHHHHHHHHHhh
Confidence 33345677764222 3599999999999643 689999999 44443 457778888888887764
No 116
>COG2251 Predicted nuclease (RecB family) [General function prediction only]
Probab=46.19 E-value=73 Score=29.48 Aligned_cols=74 Identities=20% Similarity=0.244 Sum_probs=50.1
Q ss_pred HHHHHHHHHhcC---CCeEEEEcccccH-HHHHHHHHHcCCCCc--ccccchHhHHHHHHHHH--cCCCCCcHHHHHHHh
Q psy8196 72 SEIVDNFLNYVS---NSEIIIHNAAFDV-GFLDMELSLLGYSNF--TKYIYRITDTLLMARKI--HTGKRNSLDALCDRY 143 (230)
Q Consensus 72 ~ev~~~~~~fl~---~~~lV~hna~FD~-~~L~~~l~~~g~~~~--~~~~~~~iDtl~lar~~--~p~~~~~L~~L~~~~ 143 (230)
..++.+|+.++. ..--+-|.+.++. .+| -+.+|.+.- +.+...++|...+.++. .|..+++|..|+..+
T Consensus 339 ~~~~~efl~~v~~~yp~~~~YH~~~ye~~~rL---~klyg~~~~~v~~~l~~~vDi~~lvr~~v~~p~es~sLK~la~~l 415 (474)
T COG2251 339 RKALQEFLGIVVRQYPEATIYHYAPYEKTRRL---VKLYGVPQNQVSPVLDSLVDIYALVRSSVVVPVESYSLKALAPYL 415 (474)
T ss_pred HHHHHHHHhhhheecCCCCccccCchhhhchh---heeeccCcchhhHHHHHHhHHHHHHHhccccCccchhHHHhhhhh
Confidence 368888888876 2235666668877 333 346676532 22333467877777765 478889999999999
Q ss_pred CCCCC
Q psy8196 144 NISKI 148 (230)
Q Consensus 144 gi~~~ 148 (230)
|....
T Consensus 416 G~~wr 420 (474)
T COG2251 416 GFQWR 420 (474)
T ss_pred CCCcc
Confidence 98654
No 117
>PRK14975 bifunctional 3'-5' exonuclease/DNA polymerase; Provisional
Probab=42.68 E-value=1.2e+02 Score=28.70 Aligned_cols=65 Identities=23% Similarity=0.214 Sum_probs=44.7
Q ss_pred HHHcCCCCcccccchHhHHHHHHHHHcCCC---CCcHHHHHHHh-CCCCCC---C-----C-----CCCHHHHHHHHHHH
Q psy8196 103 LSLLGYSNFTKYIYRITDTLLMARKIHTGK---RNSLDALCDRY-NISKIH---R-----T-----LHGGLLDAELLAEV 165 (230)
Q Consensus 103 l~~~g~~~~~~~~~~~iDtl~lar~~~p~~---~~~L~~L~~~~-gi~~~~---r-----~-----~H~Al~Da~~~a~v 165 (230)
+.+.|+.+. .++||+..++.+.++. +.+++.++++| ++.... + . ..=|..|+..+.++
T Consensus 62 L~~~Gv~~~-----~~fDT~LAa~lL~~~~~~~~~~l~~la~~~l~~~l~k~~~~sdw~rpls~~q~~YAa~Dv~~l~~L 136 (553)
T PRK14975 62 LLAAGVRVE-----RCHDLMLASQLLLGSEGRAGSSLSAAAARALGEGLDKPPQTSALSDPPDEEQLLYAAADADVLLEL 136 (553)
T ss_pred HHHCCCccC-----CCchHHHHHHHcCCCCCcCCCCHHHHHHHHhCCCCCChhhhccccccchHHHHHHHHHHhHHHHHH
Confidence 456676432 2789999999999876 67999999886 544321 1 0 11266677888888
Q ss_pred HHHHHcC
Q psy8196 166 YLAMTRG 172 (230)
Q Consensus 166 ~~~l~~~ 172 (230)
|..+...
T Consensus 137 ~~~L~~q 143 (553)
T PRK14975 137 YAVLADQ 143 (553)
T ss_pred HHHHHHH
Confidence 8877654
No 118
>PHA03334 putative DNA polymerase catalytic subunit; Provisional
Probab=35.27 E-value=83 Score=33.28 Aligned_cols=87 Identities=20% Similarity=0.175 Sum_probs=49.8
Q ss_pred CceEEEEEEEEEC--CEEecceeEEEEcCCCCCChhhHhhc----CCCHHHHhCCCCHHHHHHHHHHhcCCC--eEEEEc
Q psy8196 20 HRIIEIGCVEIKN--RQITGNNLHYYINPGRDSEKSALAIH----GLTTKFLKNKLKFSEIVDNFLNYVSNS--EIIIHN 91 (230)
Q Consensus 20 ~~IieIg~v~~~~--~~~~~~~f~~~i~P~~~i~~~a~~i~----Git~e~l~~~~~~~ev~~~~~~fl~~~--~lV~hn 91 (230)
++|++|+.|.... .+.+++..++|.|-..--.++-...- -.|.-.+......-+++-+|+.-++.. +|..+|
T Consensus 274 ~eitsislv~~~~~~~~~~~~~r~v~yn~~~~~~~~p~~~~~~~~~~t~~~~~~c~~e~~~l~~fl~~~~~~v~vlyv~n 353 (1545)
T PHA03334 274 GEITSISLVYCTTKPKGPKKKKRYVFYNAALVEGPEPLHLDSSYDVVTRIEFVACADELEMLLAFLNRLRKSVNVLYVYN 353 (1545)
T ss_pred cceeEEEEEEeccccccccccceEEEEchhhcCCCCcccccccccceeeeEEEEeccHHHHHHHHHHHHHhhccEEEEec
Confidence 6899999887653 23344456666664321111111110 011222333344556777777777663 589999
Q ss_pred ccccHHHHHHHHHHc
Q psy8196 92 AAFDVGFLDMELSLL 106 (230)
Q Consensus 92 a~FD~~~L~~~l~~~ 106 (230)
+.||+..+..-+..+
T Consensus 354 ~~fdv~vi~~rl~~y 368 (1545)
T PHA03334 354 AEFDVQVIQSRLNYY 368 (1545)
T ss_pred ccccHHHHHHHHHHh
Confidence 999999987655443
No 119
>COG2433 Uncharacterized conserved protein [Function unknown]
Probab=34.46 E-value=64 Score=30.96 Aligned_cols=38 Identities=21% Similarity=0.077 Sum_probs=30.9
Q ss_pred cCCCCCcHHHHHHHhCCCCCCCCCCCHHHHHHHHHHHHHH
Q psy8196 129 HTGKRNSLDALCDRYNISKIHRTLHGGLLDAELLAEVYLA 168 (230)
Q Consensus 129 ~p~~~~~L~~L~~~~gi~~~~r~~H~Al~Da~~~a~v~~~ 168 (230)
.|+...+|..|+++||++..+ .-+....|.+||.+-..
T Consensus 88 ~~g~~~sL~~lArr~G~~~~~--~~~P~eeA~~~A~LA~~ 125 (652)
T COG2433 88 RPGEQESLWELARRHGIRVNG--KLNPYEEAYACARLASK 125 (652)
T ss_pred CCCCcchHHHHHHHhCCCCCC--CCChHHHHHHHHHHHhc
Confidence 356677999999999999985 57888889888876554
No 120
>COG0117 RibD Pyrimidine deaminase [Coenzyme metabolism]
Probab=33.74 E-value=58 Score=25.31 Aligned_cols=26 Identities=38% Similarity=0.599 Sum_probs=20.6
Q ss_pred CCCCCCCCCCceEEEEEEEEECCEEecceeEEE
Q psy8196 11 TTGLNIIDGHRIIEIGCVEIKNRQITGNNLHYY 43 (230)
Q Consensus 11 TTGl~~~~~~~IieIg~v~~~~~~~~~~~f~~~ 43 (230)
+|..+|. +|||.++++++.+..||..
T Consensus 23 ~T~pNP~-------VG~VIV~~~~Ivg~G~h~~ 48 (146)
T COG0117 23 TTSPNPS-------VGCVIVKDGEIVGEGYHEK 48 (146)
T ss_pred cCCCCCc-------eeEEEEECCEEEeeeecCC
Confidence 5555564 9999999999998888754
No 121
>PF10642 Tom5: Mitochondrial import receptor subunit or translocase; InterPro: IPR019603 This entry represents a short family of yeast proteins. Tom5 is one of three very small translocases of the mitochondrial outer membrane. Tom5 links mitochondrial preprotein receptors to the general import pore []. Although Tom5 has allegedly been identified in vertebrates this could not be confirmed.
Probab=33.46 E-value=36 Score=21.32 Aligned_cols=14 Identities=7% Similarity=0.052 Sum_probs=11.9
Q ss_pred ccCCHHHHHHHHHH
Q psy8196 201 KLANSNELVQHNMI 214 (230)
Q Consensus 201 ~~~~~~e~~~h~~~ 214 (230)
-.+|+||+++|++.
T Consensus 7 ~qpS~eE~k~~e~~ 20 (49)
T PF10642_consen 7 PQPSEEEIKAAEAQ 20 (49)
T ss_pred CCCCHHHHHHHHHH
Confidence 35799999999985
No 122
>TIGR00592 pol2 DNA polymerase (pol2). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=29.04 E-value=30 Score=36.00 Aligned_cols=33 Identities=18% Similarity=0.294 Sum_probs=24.7
Q ss_pred CCHHHHHHHHHHhcCC---CeEEEEcc-cccHHHHHH
Q psy8196 69 LKFSEIVDNFLNYVSN---SEIIIHNA-AFDVGFLDM 101 (230)
Q Consensus 69 ~~~~ev~~~~~~fl~~---~~lV~hna-~FD~~~L~~ 101 (230)
+...+.+..|.+++.+ ..++++|. .||+..+..
T Consensus 268 ~~E~~~L~~f~~~i~~~dpdii~gYNi~~FD~pyl~~ 304 (1172)
T TIGR00592 268 SEEISMIKRFWDVIDQEDTDVEITVNGDNFDLVYLAD 304 (1172)
T ss_pred cchHHHHhhHHHHHhhcCcchhcccccccCccceecC
Confidence 5567778888887753 35899998 999987643
No 123
>PF12096 DUF3572: Protein of unknown function (DUF3572); InterPro: IPR021955 This family of proteins is functionally uncharacterised. This protein is found in bacteria. Proteins in this family are about 100 amino acids in length.
Probab=28.44 E-value=1.9e+02 Score=20.45 Aligned_cols=59 Identities=20% Similarity=0.266 Sum_probs=41.3
Q ss_pred HhhcCCCHHHHhCCCCHHHHHHHHHHhcCCCeEEEEcccccHHHHHHHHHHcCCCCcccccchHhHHHHHHHHHcCCC
Q psy8196 55 LAIHGLTTKFLKNKLKFSEIVDNFLNYVSNSEIIIHNAAFDVGFLDMELSLLGYSNFTKYIYRITDTLLMARKIHTGK 132 (230)
Q Consensus 55 ~~i~Git~e~l~~~~~~~ev~~~~~~fl~~~~lV~hna~FD~~~L~~~l~~~g~~~~~~~~~~~iDtl~lar~~~p~~ 132 (230)
...+|+++++|+....-.+.+..+++|+-. |-..|...+...|+++ .....||...|+.
T Consensus 28 La~TG~~p~~LR~~a~dp~FL~~VLdFl~~----------de~~l~af~~a~~~~p---------~~v~~Ar~~L~g~ 86 (88)
T PF12096_consen 28 LALTGLSPDDLRAAAGDPAFLAAVLDFLLM----------DEAWLLAFCDAAGIPP---------EAVAAARQALPGG 86 (88)
T ss_pred HHHhCCCHHHHHHHccChHHHHHHHHHHHc----------chHHHHHHHHHcCcCh---------hHHHHHHHHCCCC
Confidence 467899999999777667777777888753 4556666677777653 3356677777653
No 124
>PF02375 JmjN: jmjN domain; InterPro: IPR003349 Jumonji protein is required for neural tube formation in mice [].There is evidence of domain swapping within the jumonji family of transcription factors []. This domain is often associated with JmjC (see IPR003347 from INTERPRO).; PDB: 2XML_A 2W2I_C 3DXT_A 3DXU_A 2OX0_B 2OQ6_B 2WWJ_A 2Q8D_A 3PDQ_A 2YBK_A ....
Probab=27.36 E-value=37 Score=19.48 Aligned_cols=22 Identities=14% Similarity=0.161 Sum_probs=15.6
Q ss_pred cccCCHHHHHHHHHHHHHhhhc
Q psy8196 200 IKLANSNELVQHNMILSKIDKH 221 (230)
Q Consensus 200 ~~~~~~~e~~~h~~~~~~~~~~ 221 (230)
+.++|.+|-+.=.+|+++|.+.
T Consensus 2 vf~Pt~eEF~dp~~yi~~i~~~ 23 (34)
T PF02375_consen 2 VFYPTMEEFKDPIKYISSIEPE 23 (34)
T ss_dssp EE---HHHHS-HHHHHHHHHHT
T ss_pred cccCCHHHHhCHHHHHHHHHHH
Confidence 5789999999999999999764
No 125
>PF06631 DUF1154: Protein of unknown function (DUF1154); InterPro: IPR009535 This entry represents group a 1-phosphatidylinositol-4,5-bisphosphate phosphodiesterase beta conserved site.; GO: 0004435 phosphatidylinositol phospholipase C activity, 0005509 calcium ion binding, 0006629 lipid metabolic process
Probab=26.43 E-value=1.1e+02 Score=18.91 Aligned_cols=23 Identities=22% Similarity=0.312 Sum_probs=18.5
Q ss_pred CcccCCHHHHHHHHHHHHHhhhc
Q psy8196 199 PIKLANSNELVQHNMILSKIDKH 221 (230)
Q Consensus 199 ~~~~~~~~e~~~h~~~~~~~~~~ 221 (230)
.+-.+|-|+|..|.+|+..+.+.
T Consensus 5 ~~~pi~le~Lk~~K~y~Kl~KKq 27 (47)
T PF06631_consen 5 KVEPITLEELKQHKAYVKLLKKQ 27 (47)
T ss_pred cCCCCCHHHHHHhHHHHHHHHHH
Confidence 34567999999999999887653
No 126
>PF14056 DUF4250: Domain of unknown function (DUF4250)
Probab=22.67 E-value=65 Score=20.68 Aligned_cols=15 Identities=53% Similarity=0.860 Sum_probs=13.2
Q ss_pred cHHHHHHHhCCCCCC
Q psy8196 135 SLDALCDRYNISKIH 149 (230)
Q Consensus 135 ~L~~L~~~~gi~~~~ 149 (230)
+|++||..|+++...
T Consensus 22 sLd~Lc~~~~id~~~ 36 (55)
T PF14056_consen 22 SLDELCYDYDIDKEE 36 (55)
T ss_pred CHHHHHHHhCCCHHH
Confidence 899999999998753
No 127
>COG4551 Predicted protein tyrosine phosphatase [General function prediction only]
Probab=22.19 E-value=1.2e+02 Score=21.88 Aligned_cols=32 Identities=16% Similarity=0.284 Sum_probs=25.7
Q ss_pred HHHHHHHHHhcCCCeEEEEcccccHHHHHHHH
Q psy8196 72 SEIVDNFLNYVSNSEIIIHNAAFDVGFLDMEL 103 (230)
Q Consensus 72 ~ev~~~~~~fl~~~~lV~hna~FD~~~L~~~l 103 (230)
....+.|..|+++..+|+-..+-|..|+.-++
T Consensus 63 qkL~krf~~~lk~kRviCLDIPDdy~yMq~eL 94 (109)
T COG4551 63 QKLQKRFKASLKGKRVICLDIPDDYEYMQPEL 94 (109)
T ss_pred HHHHHHhhHHhcCCeEEEEeCCchHhhcCHHH
Confidence 34567888999999999999998888775443
Done!