Query 017922
Match_columns 364
No_of_seqs 261 out of 1359
Neff 5.8
Searched_HMMs 46136
Date Fri Mar 29 04:35:54 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017922.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017922hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd06145 REX1_like DEDDh 3'-5' 100.0 5.8E-37 1.3E-41 270.1 15.9 148 7-155 1-149 (150)
2 cd06137 DEDDh_RNase DEDDh 3'-5 100.0 2.5E-36 5.5E-41 268.6 13.2 148 7-156 1-161 (161)
3 cd06149 ISG20 DEDDh 3'-5' exon 100.0 3.2E-35 7E-40 261.0 15.6 148 7-156 1-157 (157)
4 cd06143 PAN2_exo DEDDh 3'-5' e 100.0 1.4E-33 3E-38 254.3 14.3 146 7-155 1-173 (174)
5 KOG2249 3'-5' exonuclease [Rep 100.0 1.9E-33 4E-38 264.6 14.4 150 5-158 106-262 (280)
6 cd06144 REX4_like DEDDh 3'-5' 100.0 5.4E-33 1.2E-37 244.9 14.7 146 7-156 1-152 (152)
7 PRK05711 DNA polymerase III su 100.0 4.4E-31 9.5E-36 249.9 19.1 156 2-161 2-175 (240)
8 TIGR01406 dnaQ_proteo DNA poly 100.0 3.3E-30 7.2E-35 241.6 17.7 152 5-160 1-170 (225)
9 KOG2248 3'-5' exonuclease [Rep 100.0 9E-31 2E-35 260.9 13.4 163 2-165 214-378 (380)
10 PRK09146 DNA polymerase III su 100.0 1.4E-29 3E-34 239.5 17.4 157 3-165 46-230 (239)
11 PRK07740 hypothetical protein; 100.0 3.1E-29 6.7E-34 237.7 18.3 158 3-166 58-230 (244)
12 PRK07247 DNA polymerase III su 100.0 5.6E-29 1.2E-33 228.9 18.3 157 3-167 4-174 (195)
13 PRK06310 DNA polymerase III su 100.0 5.5E-29 1.2E-33 236.8 18.2 155 2-161 5-173 (250)
14 PRK06309 DNA polymerase III su 100.0 6.5E-29 1.4E-33 233.5 17.0 153 4-161 2-165 (232)
15 cd06131 DNA_pol_III_epsilon_Ec 100.0 6.2E-29 1.3E-33 220.1 15.4 149 6-158 1-166 (167)
16 PRK06063 DNA polymerase III su 100.0 1.8E-28 3.9E-33 240.3 17.6 157 3-167 14-184 (313)
17 PRK06807 DNA polymerase III su 100.0 2.1E-28 4.5E-33 239.8 17.6 153 3-162 7-172 (313)
18 PRK08517 DNA polymerase III su 100.0 5.5E-28 1.2E-32 230.9 19.2 154 3-163 67-232 (257)
19 TIGR00573 dnaq exonuclease, DN 100.0 2.6E-28 5.6E-33 227.0 16.5 157 3-164 6-179 (217)
20 PRK07983 exodeoxyribonuclease 100.0 4.5E-28 9.7E-33 226.5 18.1 147 6-161 2-153 (219)
21 PRK07942 DNA polymerase III su 100.0 2.9E-28 6.2E-33 229.3 16.3 157 3-163 5-181 (232)
22 PRK09145 DNA polymerase III su 100.0 6.5E-28 1.4E-32 221.6 17.9 152 3-160 28-199 (202)
23 smart00479 EXOIII exonuclease 100.0 7.3E-28 1.6E-32 211.2 16.3 153 5-162 1-167 (169)
24 cd06130 DNA_pol_III_epsilon_li 100.0 4.5E-28 9.7E-33 211.2 14.8 142 6-156 1-155 (156)
25 PRK07748 sporulation inhibitor 100.0 8E-28 1.7E-32 222.1 16.7 157 1-162 1-180 (207)
26 cd06136 TREX1_2 DEDDh 3'-5' ex 100.0 2E-28 4.4E-33 221.1 12.0 144 6-157 1-176 (177)
27 PRK06195 DNA polymerase III su 100.0 1.1E-27 2.5E-32 234.0 17.1 149 5-162 2-164 (309)
28 COG2176 PolC DNA polymerase II 99.9 4.8E-28 1E-32 261.1 10.1 160 3-168 420-592 (1444)
29 TIGR01298 RNaseT ribonuclease 99.9 7E-27 1.5E-31 215.3 15.7 155 3-162 7-192 (200)
30 PRK07883 hypothetical protein; 99.9 1.9E-26 4.2E-31 241.3 20.5 159 3-167 14-187 (557)
31 PRK07246 bifunctional ATP-depe 99.9 9.9E-27 2.2E-31 252.8 19.0 154 3-163 6-171 (820)
32 cd06134 RNaseT DEDDh 3'-5' exo 99.9 7.1E-27 1.5E-31 213.2 15.0 153 4-161 5-188 (189)
33 PRK05168 ribonuclease T; Provi 99.9 1.3E-26 2.8E-31 215.2 15.4 154 4-162 17-201 (211)
34 PRK06722 exonuclease; Provisio 99.9 3.8E-26 8.3E-31 220.5 17.7 154 2-160 3-179 (281)
35 PRK05601 DNA polymerase III su 99.9 5.6E-26 1.2E-30 225.1 17.1 154 3-161 45-248 (377)
36 PRK08074 bifunctional ATP-depe 99.9 7.9E-26 1.7E-30 248.8 19.0 156 3-164 2-171 (928)
37 TIGR01407 dinG_rel DnaQ family 99.9 1.2E-25 2.6E-30 245.5 18.9 153 5-163 1-166 (850)
38 TIGR01405 polC_Gram_pos DNA po 99.9 2.2E-25 4.8E-30 248.6 17.1 158 3-166 189-359 (1213)
39 cd06133 ERI-1_3'hExo_like DEDD 99.9 3.1E-25 6.8E-30 196.6 13.8 148 6-158 1-175 (176)
40 COG0847 DnaQ DNA polymerase II 99.9 5E-25 1.1E-29 206.6 15.8 154 4-161 13-181 (243)
41 cd06127 DEDDh DEDDh 3'-5' exon 99.9 8.4E-25 1.8E-29 187.3 14.6 144 7-155 1-158 (159)
42 cd06138 ExoI_N N-terminal DEDD 99.9 3.8E-25 8.3E-30 200.5 13.0 144 7-155 1-182 (183)
43 PRK09182 DNA polymerase III su 99.9 2.7E-24 5.8E-29 209.2 15.7 150 4-162 37-201 (294)
44 PF00929 RNase_T: Exonuclease; 99.9 7.4E-26 1.6E-30 194.0 -0.9 145 7-155 1-164 (164)
45 PRK11779 sbcB exonuclease I; P 99.9 3E-22 6.5E-27 205.7 16.3 157 1-161 3-197 (476)
46 PRK05359 oligoribonuclease; Pr 99.9 5.7E-22 1.2E-26 180.3 14.7 145 3-161 2-174 (181)
47 cd06135 Orn DEDDh 3'-5' exonuc 99.9 2.2E-22 4.7E-27 181.2 10.8 142 6-160 1-170 (173)
48 PRK00448 polC DNA polymerase I 99.9 3.4E-22 7.4E-27 225.8 14.1 158 3-166 418-588 (1437)
49 PTZ00315 2'-phosphotransferase 99.9 2.1E-21 4.6E-26 201.9 17.6 157 4-165 56-258 (582)
50 KOG1275 PAB-dependent poly(A) 99.6 1.9E-16 4.2E-21 168.2 7.3 179 2-191 908-1113(1118)
51 COG1949 Orn Oligoribonuclease 99.3 2.9E-11 6.4E-16 107.7 9.9 146 3-162 5-178 (184)
52 cd05160 DEDDy_DNA_polB_exo DED 99.2 1.5E-10 3.3E-15 105.4 11.3 121 6-134 1-162 (199)
53 COG5018 KapD Inhibitor of the 99.1 1.1E-10 2.4E-15 104.6 6.2 155 1-159 1-182 (210)
54 KOG3242 Oligoribonuclease (3'- 99.1 3E-10 6.5E-15 102.2 8.5 147 4-163 26-200 (208)
55 KOG0542 Predicted exonuclease 99.1 4.9E-10 1.1E-14 106.0 9.5 159 5-168 57-248 (280)
56 cd06139 DNA_polA_I_Ecoli_like_ 99.0 8.4E-09 1.8E-13 92.3 14.8 143 2-162 3-170 (193)
57 COG2925 SbcB Exonuclease I [DN 99.0 2.8E-09 6.1E-14 105.9 10.1 152 3-158 8-197 (475)
58 PF01612 DNA_pol_A_exo1: 3'-5' 98.7 3.9E-07 8.5E-12 79.9 13.9 133 3-160 19-173 (176)
59 PRK05755 DNA polymerase I; Pro 98.6 3E-07 6.4E-12 101.9 13.9 134 3-161 314-468 (880)
60 cd06125 DnaQ_like_exo DnaQ-lik 98.6 1.3E-07 2.9E-12 77.4 7.9 59 7-101 1-62 (96)
61 cd05780 DNA_polB_Kod1_like_exo 98.5 1.3E-06 2.8E-11 80.2 12.3 115 5-135 4-156 (195)
62 cd06146 mut-7_like_exo DEDDy 3 98.5 1.4E-06 3E-11 80.0 12.4 133 2-159 20-192 (193)
63 cd00007 35EXOc 3'-5' exonuclea 98.3 4.9E-05 1.1E-09 64.6 15.0 104 6-135 2-111 (155)
64 cd05781 DNA_polB_B3_exo DEDDy 98.2 1.4E-05 3.1E-10 73.2 11.4 106 4-134 3-144 (188)
65 PF04857 CAF1: CAF1 family rib 98.2 8E-06 1.7E-10 78.4 9.7 151 4-157 22-262 (262)
66 PF13482 RNase_H_2: RNase_H su 98.2 4.7E-06 1E-10 73.3 7.4 126 7-162 1-137 (164)
67 cd06141 WRN_exo DEDDy 3'-5' ex 98.1 3.5E-05 7.5E-10 68.4 11.1 128 3-159 17-169 (170)
68 cd06129 RNaseD_like DEDDy 3'-5 98.1 6.6E-05 1.4E-09 66.6 12.1 84 75-158 58-159 (161)
69 PRK10829 ribonuclease D; Provi 97.9 0.00029 6.2E-09 71.4 13.9 132 2-163 20-171 (373)
70 cd05779 DNA_polB_epsilon_exo D 97.8 0.0005 1.1E-08 64.0 14.4 128 4-134 2-168 (204)
71 cd05785 DNA_polB_like2_exo Unc 97.7 0.00021 4.5E-09 66.6 9.8 106 4-134 9-168 (207)
72 COG0349 Rnd Ribonuclease D [Tr 97.7 0.00042 9.1E-09 69.6 12.4 133 4-162 17-166 (361)
73 cd05784 DNA_polB_II_exo DEDDy 97.6 0.0013 2.9E-08 60.7 12.7 113 5-134 4-153 (193)
74 smart00474 35EXOc 3'-5' exonuc 97.6 0.0053 1.2E-07 53.1 15.7 87 73-159 64-168 (172)
75 TIGR01388 rnd ribonuclease D. 97.5 0.0013 2.9E-08 66.3 13.1 130 3-162 17-166 (367)
76 cd06142 RNaseD_exo DEDDy 3'-5' 97.5 0.0042 9E-08 54.8 14.6 129 5-161 13-159 (178)
77 cd05777 DNA_polB_delta_exo DED 97.5 0.0023 4.9E-08 60.3 13.6 121 4-135 7-183 (230)
78 cd06148 Egl_like_exo DEDDy 3'- 97.5 0.00074 1.6E-08 62.1 9.7 89 74-162 55-177 (197)
79 cd05783 DNA_polB_B1_exo DEDDy 97.2 0.0052 1.1E-07 57.1 11.5 125 4-134 5-170 (204)
80 KOG0304 mRNA deadenylase subun 96.9 0.0063 1.4E-07 57.2 9.6 153 4-159 24-236 (239)
81 cd05782 DNA_polB_like1_exo Unc 96.9 0.007 1.5E-07 56.4 9.8 66 68-134 77-169 (208)
82 PF10108 DNA_pol_B_exo2: Predi 96.8 0.011 2.3E-07 55.6 10.6 92 68-160 36-171 (209)
83 cd05778 DNA_polB_zeta_exo inac 96.7 0.05 1.1E-06 51.5 14.1 141 5-148 5-203 (231)
84 cd06140 DNA_polA_I_Bacillus_li 96.7 0.052 1.1E-06 48.1 13.5 106 3-135 2-113 (178)
85 PF00076 RRM_1: RNA recognitio 96.6 0.0019 4E-08 47.8 3.0 60 182-242 1-63 (70)
86 COG0749 PolA DNA polymerase I 96.6 0.013 2.7E-07 62.6 9.9 132 7-162 25-180 (593)
87 COG3359 Predicted exonuclease 96.5 0.036 7.8E-07 53.2 11.6 129 2-157 96-237 (278)
88 KOG4793 Three prime repair exo 96.2 0.008 1.7E-07 58.2 5.5 155 4-160 13-216 (318)
89 PHA02528 43 DNA polymerase; Pr 96.2 0.055 1.2E-06 60.6 12.8 150 4-157 106-323 (881)
90 PRK05762 DNA polymerase II; Re 96.2 0.075 1.6E-06 58.8 13.6 136 5-158 156-348 (786)
91 smart00486 POLBc DNA polymeras 96.1 0.076 1.7E-06 53.6 12.6 145 3-158 2-220 (471)
92 PTZ00166 DNA polymerase delta 96.1 0.086 1.9E-06 60.2 14.1 147 4-159 264-483 (1054)
93 cd05776 DNA_polB_alpha_exo ina 96.1 0.041 8.8E-07 52.1 9.6 131 5-136 4-188 (234)
94 PF14259 RRM_6: RNA recognitio 96.0 0.015 3.2E-07 43.6 5.1 58 183-241 2-62 (70)
95 cd09018 DEDDy_polA_RNaseD_like 95.4 0.27 5.8E-06 41.8 11.4 60 76-135 45-110 (150)
96 cd06147 Rrp6p_like_exo DEDDy 3 95.3 0.35 7.6E-06 43.8 12.4 102 5-134 25-131 (192)
97 PF03104 DNA_pol_B_exo1: DNA p 95.0 0.088 1.9E-06 50.9 7.8 85 4-99 157-255 (325)
98 PHA02570 dexA exonuclease; Pro 94.8 0.15 3.4E-06 48.1 8.6 93 7-100 4-125 (220)
99 TIGR00593 pola DNA polymerase 94.7 0.17 3.7E-06 56.8 10.3 94 68-161 362-476 (887)
100 smart00362 RRM_2 RNA recogniti 94.7 0.051 1.1E-06 39.1 4.2 61 182-242 2-63 (72)
101 PLN03134 glycine-rich RNA-bind 94.6 0.055 1.2E-06 47.6 4.9 61 180-241 35-99 (144)
102 TIGR00592 pol2 DNA polymerase 93.8 1.3 2.9E-05 51.3 15.1 104 53-157 569-721 (1172)
103 cd00590 RRM RRM (RNA recogniti 93.7 0.14 3E-06 36.9 4.8 60 182-242 2-64 (74)
104 smart00360 RRM RNA recognition 93.2 0.22 4.8E-06 35.4 5.1 58 185-242 2-62 (71)
105 KOG0114 Predicted RNA-binding 93.2 0.13 2.9E-06 43.5 4.2 63 181-243 20-82 (124)
106 TIGR01659 sex-lethal sex-letha 93.0 0.096 2.1E-06 52.6 3.9 61 181-242 195-259 (346)
107 TIGR01659 sex-lethal sex-letha 92.2 0.19 4.1E-06 50.6 4.6 64 179-243 107-174 (346)
108 TIGR01661 ELAV_HUD_SF ELAV/HuD 92.0 0.19 4.1E-06 49.3 4.5 61 181-242 5-69 (352)
109 KOG0144 RNA-binding protein CU 92.0 0.15 3.2E-06 52.4 3.6 64 177-241 32-99 (510)
110 TIGR01661 ELAV_HUD_SF ELAV/HuD 91.9 0.2 4.3E-06 49.1 4.5 67 182-252 272-342 (352)
111 KOG1798 DNA polymerase epsilon 90.5 2.6 5.5E-05 49.6 11.7 149 4-159 246-451 (2173)
112 PLN03120 nucleic acid binding 90.0 0.38 8.3E-06 46.6 4.2 60 181-242 6-66 (260)
113 KOG0107 Alternative splicing f 89.6 0.25 5.4E-06 45.3 2.5 59 180-242 11-71 (195)
114 COG0417 PolB DNA polymerase el 89.5 4.3 9.3E-05 45.3 12.5 119 3-135 153-309 (792)
115 KOG3657 Mitochondrial DNA poly 88.6 0.67 1.4E-05 51.2 5.3 79 81-159 239-380 (1075)
116 TIGR01622 SF-CC1 splicing fact 88.6 0.58 1.3E-05 47.8 4.6 62 180-241 187-251 (457)
117 TIGR01628 PABP-1234 polyadenyl 88.4 0.48 1E-05 50.0 4.1 61 181-242 287-350 (562)
118 TIGR03491 RecB family nuclease 88.1 6.6 0.00014 40.9 12.1 84 69-160 328-429 (457)
119 TIGR01648 hnRNP-R-Q heterogene 88.0 0.53 1.1E-05 50.6 4.0 63 180-243 59-124 (578)
120 TIGR01628 PABP-1234 polyadenyl 88.0 0.54 1.2E-05 49.6 4.1 62 181-242 2-66 (562)
121 TIGR01642 U2AF_lg U2 snRNP aux 87.5 0.62 1.3E-05 48.2 4.1 63 180-243 296-362 (509)
122 TIGR01645 half-pint poly-U bin 87.2 0.75 1.6E-05 49.7 4.6 63 180-242 205-270 (612)
123 PLN03213 repressor of silencin 86.9 0.59 1.3E-05 49.0 3.5 61 180-242 11-74 (759)
124 TIGR01645 half-pint poly-U bin 86.2 0.89 1.9E-05 49.1 4.5 63 179-242 107-173 (612)
125 TIGR01642 U2AF_lg U2 snRNP aux 86.0 0.4 8.6E-06 49.6 1.7 61 179-241 175-245 (509)
126 KOG0969 DNA polymerase delta, 85.8 0.29 6.3E-06 53.6 0.7 133 2-145 272-458 (1066)
127 PRK05761 DNA polymerase I; Rev 83.5 6.4 0.00014 44.0 9.8 88 68-155 209-334 (787)
128 TIGR01649 hnRNP-L_PTB hnRNP-L/ 83.1 1.8 3.9E-05 45.2 5.1 67 181-249 396-467 (481)
129 TIGR01648 hnRNP-R-Q heterogene 82.5 1.1 2.5E-05 48.1 3.4 57 181-242 235-293 (578)
130 KOG4211 Splicing factor hnRNP- 82.2 1.4 3.1E-05 46.0 3.8 55 182-238 13-69 (510)
131 PHA02524 43A DNA polymerase su 82.0 4.9 0.00011 42.6 7.7 146 5-155 107-321 (498)
132 KOG0533 RRM motif-containing p 80.7 2.4 5.1E-05 40.9 4.5 74 181-258 85-161 (243)
133 PF13893 RRM_5: RNA recognitio 80.5 2.2 4.7E-05 30.6 3.3 26 218-243 21-46 (56)
134 TIGR01649 hnRNP-L_PTB hnRNP-L/ 79.8 2.4 5.2E-05 44.2 4.6 61 181-243 98-159 (481)
135 KOG0117 Heterogeneous nuclear 79.5 2.5 5.4E-05 43.9 4.4 71 180-252 84-157 (506)
136 PLN03121 nucleic acid binding 78.6 3.1 6.7E-05 40.0 4.5 64 181-246 7-71 (243)
137 KOG0122 Translation initiation 77.8 2.8 6E-05 40.4 3.9 62 179-241 189-254 (270)
138 smart00361 RRM_1 RNA recogniti 77.7 6.1 0.00013 29.9 5.2 26 217-242 36-61 (70)
139 COG0724 RNA-binding proteins ( 77.4 3 6.5E-05 37.3 4.0 62 180-242 116-181 (306)
140 cd06128 DNA_polA_exo DEDDy 3'- 76.6 8.5 0.00018 33.0 6.5 59 76-134 45-109 (151)
141 KOG0105 Alternative splicing f 76.6 1.6 3.4E-05 40.6 1.9 59 181-239 8-66 (241)
142 TIGR01622 SF-CC1 splicing fact 76.3 3.5 7.5E-05 42.1 4.5 61 180-241 90-153 (457)
143 COG5228 POP2 mRNA deadenylase 72.2 14 0.0003 35.4 6.9 160 4-167 42-258 (299)
144 PF11544 Spc42p: Spindle pole 71.3 5.1 0.00011 31.9 3.3 37 322-358 4-40 (76)
145 KOG0125 Ataxin 2-binding prote 70.5 2.7 5.8E-05 42.1 2.0 60 181-242 98-160 (376)
146 KOG0108 mRNA cleavage and poly 69.7 5.8 0.00013 41.3 4.3 70 180-253 19-92 (435)
147 KOG1457 RNA binding protein (c 69.5 8.4 0.00018 36.9 4.9 64 179-242 34-101 (284)
148 KOG0123 Polyadenylate-binding 69.1 4.7 0.0001 41.0 3.4 96 143-246 45-143 (369)
149 PF03467 Smg4_UPF3: Smg-4/UPF3 66.9 5.1 0.00011 36.5 2.9 71 179-249 7-86 (176)
150 PF08777 RRM_3: RNA binding mo 66.4 6.2 0.00014 32.9 3.1 54 185-241 7-60 (105)
151 KOG0144 RNA-binding protein CU 64.8 4.8 0.0001 41.7 2.5 63 181-243 126-190 (510)
152 PF00843 Arena_nucleocap: Aren 62.9 10 0.00022 39.6 4.4 140 2-150 370-526 (533)
153 KOG0146 RNA-binding protein ET 62.2 8.4 0.00018 37.8 3.5 63 181-243 21-85 (371)
154 KOG1457 RNA binding protein (c 59.4 6.7 0.00015 37.6 2.3 62 181-243 212-273 (284)
155 KOG4211 Splicing factor hnRNP- 59.1 10 0.00022 39.9 3.6 54 182-239 106-166 (510)
156 KOG4212 RNA-binding protein hn 57.9 10 0.00022 39.6 3.4 60 182-242 47-110 (608)
157 KOG3990 Uncharacterized conser 57.8 6.2 0.00013 38.2 1.7 29 324-352 233-261 (305)
158 KOG4206 Spliceosomal protein s 56.5 11 0.00024 35.7 3.2 62 181-243 11-77 (221)
159 PHA02563 DNA polymerase; Provi 55.1 26 0.00057 38.3 6.2 68 2-100 10-83 (630)
160 KOG0110 RNA-binding protein (R 54.4 7.3 0.00016 42.5 1.8 98 142-239 567-676 (725)
161 KOG0121 Nuclear cap-binding pr 53.1 12 0.00027 33.0 2.7 67 181-247 38-107 (153)
162 KOG0117 Heterogeneous nuclear 52.5 9.8 0.00021 39.7 2.3 67 182-257 262-329 (506)
163 COG5509 Uncharacterized small 51.4 9.4 0.0002 29.1 1.5 19 323-341 39-57 (65)
164 PF13017 Maelstrom: piRNA path 51.2 18 0.00039 33.8 3.7 60 22-81 9-79 (213)
165 KOG4307 RNA binding protein RB 50.8 16 0.00034 40.2 3.6 59 182-242 870-933 (944)
166 PF08112 ATP-synt_E_2: ATP syn 49.2 15 0.00033 27.2 2.2 17 339-355 6-22 (56)
167 KOG0147 Transcriptional coacti 49.1 33 0.00071 36.6 5.5 74 181-258 280-356 (549)
168 KOG1548 Transcription elongati 48.3 19 0.00041 36.5 3.5 62 181-243 136-208 (382)
169 KOG0970 DNA polymerase alpha, 48.0 70 0.0015 37.3 8.1 124 5-134 530-711 (1429)
170 KOG4253 Tryptophan-rich basic 47.3 29 0.00063 31.4 4.2 34 321-358 49-84 (175)
171 PRK14975 bifunctional 3'-5' ex 46.8 67 0.0015 34.3 7.6 58 105-162 72-144 (553)
172 KOG0145 RNA-binding protein EL 46.8 13 0.00028 36.4 2.0 63 181-243 129-194 (360)
173 KOG0110 RNA-binding protein (R 45.2 34 0.00073 37.6 5.0 67 181-251 387-454 (725)
174 PF10309 DUF2414: Protein of u 45.1 22 0.00048 27.2 2.7 42 190-238 15-62 (62)
175 KOG0131 Splicing factor 3b, su 44.6 25 0.00054 32.8 3.4 100 142-243 58-164 (203)
176 PF05266 DUF724: Protein of un 43.0 32 0.00069 31.9 4.0 40 318-357 105-151 (190)
177 PF04201 TPD52: Tumour protein 41.7 29 0.00062 31.6 3.3 35 325-359 31-65 (162)
178 KOG4207 Predicted splicing fac 40.3 20 0.00043 34.1 2.2 62 181-242 15-79 (256)
179 KOG0145 RNA-binding protein EL 39.2 37 0.0008 33.4 3.8 92 181-276 43-144 (360)
180 KOG4307 RNA binding protein RB 39.2 18 0.00039 39.8 1.9 54 182-236 5-58 (944)
181 KOG0148 Apoptosis-promoting RN 39.1 46 0.00099 32.9 4.5 67 181-253 166-232 (321)
182 PRK14887 KEOPS complex Pcc1-li 38.9 1.7E+02 0.0036 23.6 7.0 47 219-268 6-52 (84)
183 PRK04325 hypothetical protein; 38.2 32 0.00069 27.0 2.7 51 301-357 7-57 (74)
184 KOG2591 c-Mpl binding protein, 35.6 29 0.00063 37.3 2.7 59 182-242 178-236 (684)
185 PF06810 Phage_GP20: Phage min 35.4 40 0.00086 30.2 3.2 38 322-359 26-66 (155)
186 PRK00846 hypothetical protein; 34.7 37 0.00081 27.1 2.6 52 300-357 10-61 (77)
187 KOG0132 RNA polymerase II C-te 34.1 54 0.0012 36.6 4.5 67 181-256 423-489 (894)
188 KOG0130 RNA-binding protein RB 31.7 43 0.00093 29.9 2.7 60 182-242 75-138 (170)
189 KOG4010 Coiled-coil protein TP 31.7 51 0.0011 30.7 3.3 33 326-358 47-79 (208)
190 PF04102 SlyX: SlyX; InterPro 31.7 34 0.00073 26.4 1.9 34 324-357 19-52 (69)
191 KOG0127 Nucleolar protein fibr 31.3 55 0.0012 35.2 3.9 67 181-250 119-187 (678)
192 KOG0149 Predicted RNA-binding 31.1 41 0.00089 32.4 2.7 64 179-243 12-83 (247)
193 KOG0123 Polyadenylate-binding 30.6 68 0.0015 32.7 4.4 71 182-252 170-245 (369)
194 KOG0113 U1 small nuclear ribon 30.1 55 0.0012 32.7 3.4 64 179-243 101-168 (335)
195 PF08776 VASP_tetra: VASP tetr 29.7 91 0.002 21.9 3.5 22 324-358 4-25 (40)
196 KOG4660 Protein Mei2, essentia 28.9 31 0.00067 36.8 1.6 61 181-243 77-137 (549)
197 KOG0153 Predicted RNA-binding 28.6 45 0.00098 33.8 2.6 59 179-240 228-286 (377)
198 PRK00736 hypothetical protein; 28.4 59 0.0013 25.1 2.7 34 323-356 19-52 (68)
199 PRK00295 hypothetical protein; 27.9 61 0.0013 25.0 2.8 34 324-357 20-53 (68)
200 PF04420 CHD5: CHD5-like prote 27.7 95 0.0021 27.8 4.4 18 322-343 46-63 (161)
201 PF09341 Pcc1: Transcription f 27.3 1.6E+02 0.0034 22.6 5.0 38 219-257 3-40 (76)
202 PRK04406 hypothetical protein; 27.1 62 0.0013 25.5 2.7 49 303-357 11-59 (75)
203 KOG0109 RNA-binding protein LA 26.5 40 0.00086 33.6 1.8 57 181-242 4-60 (346)
204 PHA03036 DNA polymerase; Provi 26.0 3.5E+02 0.0077 31.4 9.3 96 3-99 159-273 (1004)
205 PF11932 DUF3450: Protein of u 26.0 84 0.0018 29.9 3.9 50 311-360 44-93 (251)
206 PF04859 DUF641: Plant protein 25.8 63 0.0014 28.3 2.7 34 322-355 93-126 (131)
207 PRK02793 phi X174 lysis protei 25.1 65 0.0014 25.1 2.4 34 324-357 23-56 (72)
208 PF13334 DUF4094: Domain of un 24.4 52 0.0011 27.2 1.9 20 338-357 74-93 (95)
209 PF05529 Bap31: B-cell recepto 24.3 63 0.0014 29.4 2.6 33 319-351 157-189 (192)
210 KOG0127 Nucleolar protein fibr 23.4 80 0.0017 34.1 3.4 59 181-240 7-69 (678)
211 PF04977 DivIC: Septum formati 23.0 96 0.0021 23.5 3.1 34 323-356 17-50 (80)
212 PF07576 BRAP2: BRCA1-associat 21.3 1.8E+02 0.0038 24.6 4.5 79 186-277 19-101 (110)
213 KOG0240 Kinesin (SMY1 subfamil 21.3 85 0.0019 33.9 3.1 35 320-354 418-452 (607)
214 PRK10698 phage shock protein P 20.6 1.3E+02 0.0028 28.4 4.0 42 320-361 96-137 (222)
215 PF11608 Limkain-b1: Limkain b 20.1 1.1E+02 0.0024 25.1 2.9 58 182-251 5-69 (90)
No 1
>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=100.00 E-value=5.8e-37 Score=270.09 Aligned_cols=148 Identities=48% Similarity=0.751 Sum_probs=136.2
Q ss_pred EEEEEeccCCCCCcccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhcCCCEE
Q 017922 7 YAVDCEMVLCEDGSEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLSNGTIL 86 (364)
Q Consensus 7 ValD~ETTGl~~g~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~~~~iL 86 (364)
|+|||||||+..+ ++|++|++|+.+|.++|++||+|..+|+++++++||||++||+++|.++.+|+++|++|++++++|
T Consensus 1 ~~iD~E~~g~~~g-~ei~~i~~v~~~~~~~f~~lv~P~~~i~~~~t~itGIt~~~l~~a~~~~~~v~~~~~~fl~~~~vl 79 (150)
T cd06145 1 FALDCEMCYTTDG-LELTRVTVVDENGKVVLDELVKPDGEIVDYNTRFSGITEEMLENVTTTLEDVQKKLLSLISPDTIL 79 (150)
T ss_pred CEEeeeeeeecCC-CEEEEEEEEeCCCCEEEEEeECCCCccchhccCcCCCCHHHhccCCCCHHHHHHHHHHHhCCCCEE
Confidence 6899999999988 789999999999999999999999999999999999999999999548999999999999448999
Q ss_pred EEechhhHHHHHcccCCCccchHHHhhhhcC-CCCccHHHHHHHHhCCccCCCCCCCChHHHHHHHHHHH
Q 017922 87 VGHSLNNDLEVLKLDHPRVIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDASAAMKLV 155 (364)
Q Consensus 87 VGHn~~fDl~fL~~~~~~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~Ata~L~ 155 (364)
||||+.||++||+..+++++||+.|++..++ ..+|+|+.||+.|+|+.++.++.+|+|++||++|++||
T Consensus 80 VgHn~~fD~~fL~~~~~~~iDT~~l~r~~~~~~~~~~L~~L~~~~~~~~i~~~~~~H~Al~DA~~t~~l~ 149 (150)
T cd06145 80 VGHSLENDLKALKLIHPRVIDTAILFPHPRGPPYKPSLKNLAKKYLGRDIQQGEGGHDSVEDARAALELV 149 (150)
T ss_pred EEcChHHHHHHhhccCCCEEEcHHhccccCCCCCChhHHHHHHHHCCcceeCCCCCCCcHHHHHHHHHHh
Confidence 9999999999999999999999999998776 56799999998888987764235899999999999998
No 2
>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=100.00 E-value=2.5e-36 Score=268.61 Aligned_cols=148 Identities=41% Similarity=0.636 Sum_probs=135.6
Q ss_pred EEEEEeccCCCCCcccEEEEEEEEc-CCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCC-------HHHHHHHHHH
Q 017922 7 YAVDCEMVLCEDGSEGLVRLCVVDR-NLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCS-------LAEIQKRMKK 78 (364)
Q Consensus 7 ValD~ETTGl~~g~~~Ii~V~vVd~-~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~-------~~eV~~el~~ 78 (364)
|||||||||+++..++|++|++|+. +|+++|++||+|..+|+++++.+||||++||+++| + |.+++++|++
T Consensus 1 v~lD~EttGl~~~~d~ii~Ig~V~v~~g~i~~~~~v~P~~~i~~~~~~i~GIt~~~l~~a~-~~~~~~~~~~~~~~~~~~ 79 (161)
T cd06137 1 VALDCEMVGLADGDSEVVRISAVDVLTGEVLIDSLVRPSVRVTDWRTRFSGVTPADLEEAA-KAGKTIFGWEAARAALWK 79 (161)
T ss_pred CEEEeeeeeEcCCCCEEEEEEEEEcCCCeEEEeccccCCCCCCccceeccCCCHHHHhhhh-hcCCccccHHHHHHHHHH
Confidence 6899999999987788999999998 88989999999999999999999999999999987 4 4699999999
Q ss_pred hhcCC-CEEEEechhhHHHHHcccCCCccchHHHhhhhcC-C---CCccHHHHHHHHhCCccCCCCCCCChHHHHHHHHH
Q 017922 79 LLSNG-TILVGHSLNNDLEVLKLDHPRVIDTSLIFKYVDE-Y---RRPSLYNLCKSVLGYEIRKKGTPHNCLDDASAAMK 153 (364)
Q Consensus 79 fl~~~-~iLVGHn~~fDl~fL~~~~~~vIDT~~L~r~~~~-~---~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~Ata~ 153 (364)
|+ ++ ++|||||+.||++||+..+++++||+.|++...+ . .+++|+.||+.+||++++.+..+|+|++||+||++
T Consensus 80 ~i-~~~~vlVgHn~~fD~~fL~~~~~~~iDT~~l~~~~~~~~~~~~~~~L~~L~~~~~~~~~~~~~~~H~A~~DA~at~~ 158 (161)
T cd06137 80 FI-DPDTILVGHSLQNDLDALRMIHTRVVDTAILTREAVKGPLAKRQWSLRTLCRDFLGLKIQGGGEGHDSLEDALAARE 158 (161)
T ss_pred hc-CCCcEEEeccHHHHHHHHhCcCCCeeEehhhhhhccCCCcCCCCccHHHHHHHHCCchhcCCCCCCCcHHHHHHHHH
Confidence 99 65 9999999999999999998899999999999877 3 68999999988899998752357999999999999
Q ss_pred HHH
Q 017922 154 LVL 156 (364)
Q Consensus 154 L~~ 156 (364)
||+
T Consensus 159 l~~ 161 (161)
T cd06137 159 VVL 161 (161)
T ss_pred HhC
Confidence 984
No 3
>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=100.00 E-value=3.2e-35 Score=260.97 Aligned_cols=148 Identities=36% Similarity=0.539 Sum_probs=132.9
Q ss_pred EEEEEeccCCCCC--cccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhcCCC
Q 017922 7 YAVDCEMVLCEDG--SEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLSNGT 84 (364)
Q Consensus 7 ValD~ETTGl~~g--~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~~~~ 84 (364)
|||||||||++++ ..+|++|++|+.+|.++|++||+|..+|+++++.+||||++||+++| ++++|+++|++|+ +++
T Consensus 1 v~~D~EttGl~~~~~~~~i~~i~~v~~~g~~~~~~lv~P~~~i~~~~~~i~GIt~~~l~~a~-~~~~v~~~l~~~l-~~~ 78 (157)
T cd06149 1 VAIDCEMVGTGPGGRESELARCSIVNYHGDVLYDKYIRPEGPVTDYRTRWSGIRRQHLVNAT-PFAVAQKEILKIL-KGK 78 (157)
T ss_pred CEEEeEeccccCCCCeEEEEEEEEEeCCCCEEEEEeECCCCccCccceECCCCCHHHHhcCC-CHHHHHHHHHHHc-CCC
Confidence 6899999999976 36899999999999999999999999999999999999999999999 9999999999999 899
Q ss_pred EEEEechhhHHHHHcccCCC--ccchHHH--hhhh--cC-CCCccHHHHHHHHhCCccCCCCCCCChHHHHHHHHHHHH
Q 017922 85 ILVGHSLNNDLEVLKLDHPR--VIDTSLI--FKYV--DE-YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDASAAMKLVL 156 (364)
Q Consensus 85 iLVGHn~~fDl~fL~~~~~~--vIDT~~L--~r~~--~~-~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~Ata~L~~ 156 (364)
+|||||+.||++||+..++. ++||+.+ ++.. +| ..+|+|+.||++++|..++.++.+|+|++||+||++||.
T Consensus 79 vlV~Hn~~~D~~~l~~~~~~~~~~Dt~~l~~~~~~~~~p~~~~~~L~~L~~~~~~~~i~~~~~~H~Al~DA~at~~l~~ 157 (157)
T cd06149 79 VVVGHAIHNDFKALKYFHPKHMTRDTSTIPLLNRKAGFPENCRVSLKVLAKRLLHRDIQVGRQGHSSVEDARATMELYK 157 (157)
T ss_pred EEEEeCcHHHHHHhcccCCCcCEEECcccccchhhcCCcccCChhHHHHHHHHcChhhcCCCCCcCcHHHHHHHHHHhC
Confidence 99999999999999998775 7899875 4433 45 577999999988887777754457999999999999983
No 4
>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=100.00 E-value=1.4e-33 Score=254.25 Aligned_cols=146 Identities=32% Similarity=0.505 Sum_probs=132.3
Q ss_pred EEEEEeccCCCC--------Ccc--------cEEEEEEEE----cCCcEEEEEEEcCCCcccccccccCCCChhhhcCCC
Q 017922 7 YAVDCEMVLCED--------GSE--------GLVRLCVVD----RNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVT 66 (364)
Q Consensus 7 ValD~ETTGl~~--------g~~--------~Ii~V~vVd----~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap 66 (364)
|||||||+|+.+ |.. ++++|++|| .+|+++||.||+|..+|.||+|+++|||+++|.+++
T Consensus 1 ~a~d~e~v~~~~~~~~~~~~g~~~~~~~~~~~LaRVsiVd~~~~~~g~vllD~~VkP~~~V~DYrT~~SGIt~~~L~~a~ 80 (174)
T cd06143 1 VAIDAEFVKLKPEETEIRSDGTKSTIRPSQMSLARVSVVRGEGELEGVPFIDDYISTTEPVVDYLTRFSGIKPGDLDPKT 80 (174)
T ss_pred CceeeeEEEecchhceecCCCcEeeeccCCceeEEEEEEcCCCCcCCCEEEeeeECCCCCccCcCccccccCHHHcCccc
Confidence 578999988765 444 699999999 689999999999999999999999999999999875
Q ss_pred -----CCHHHHHHHHHHhhcCCCEEEEechhhHHHHHcccCC--CccchHHHhhhhcCCCCccHHHHHHHHhCCccCCCC
Q 017922 67 -----CSLAEIQKRMKKLLSNGTILVGHSLNNDLEVLKLDHP--RVIDTSLIFKYVDEYRRPSLYNLCKSVLGYEIRKKG 139 (364)
Q Consensus 67 -----~~~~eV~~el~~fl~~~~iLVGHn~~fDl~fL~~~~~--~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~~~ 139 (364)
.++.+++.+++++++.++|||||++.+||.+|++.|| +++||+.+|+... .+++||+.||+.+||.+||.+
T Consensus 81 ~~~~~~t~~~v~~~l~~li~~~tILVGHsL~nDL~aL~l~hp~~~viDTa~l~~~~~-~r~~sLk~La~~~L~~~IQ~~- 158 (174)
T cd06143 81 SSKNLTTLKSAYLKLRLLVDLGCIFVGHGLAKDFRVINIQVPKEQVIDTVELFHLPG-QRKLSLRFLAWYLLGEKIQSE- 158 (174)
T ss_pred cccccCCHHHHHHHHHHHcCCCCEEEeccchhHHHHhcCcCCCcceEEcHHhccCCC-CCChhHHHHHHHHcCCcccCC-
Confidence 3699999999999988999999999999999999987 6999999987543 458999999999999999974
Q ss_pred CCCChHHHHHHHHHHH
Q 017922 140 TPHNCLDDASAAMKLV 155 (364)
Q Consensus 140 ~~H~Al~DA~Ata~L~ 155 (364)
.|++++||+|||+||
T Consensus 159 -~HdSvEDArAam~Ly 173 (174)
T cd06143 159 -THDSIEDARTALKLY 173 (174)
T ss_pred -CcCcHHHHHHHHHHh
Confidence 799999999999998
No 5
>KOG2249 consensus 3'-5' exonuclease [Replication, recombination and repair]
Probab=100.00 E-value=1.9e-33 Score=264.59 Aligned_cols=150 Identities=37% Similarity=0.592 Sum_probs=138.8
Q ss_pred cEEEEEEeccCCCCC--cccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhcC
Q 017922 5 IMYAVDCEMVLCEDG--SEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLSN 82 (364)
Q Consensus 5 ~~ValD~ETTGl~~g--~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~~ 82 (364)
++||+||||+|+.++ .+.+++|+|||..|.++||.||+|..+|.||+|+++||+++.+.+|. +|..|+.++++|| .
T Consensus 106 r~vAmDCEMVG~Gp~G~~s~lARvSIVN~~G~VvyDkyVkP~~~VtDyRT~vSGIrpehm~~A~-pf~~aQ~ev~klL-~ 183 (280)
T KOG2249|consen 106 RVVAMDCEMVGVGPDGRESLLARVSIVNYHGHVVYDKYVKPTEPVTDYRTRVSGIRPEHMRDAM-PFKVAQKEVLKLL-K 183 (280)
T ss_pred eEEEEeeeEeccCCCccceeeeEEEEeeccCcEeeeeecCCCcccccceeeecccCHHHhccCc-cHHHHHHHHHHHH-h
Confidence 599999999999864 34799999999999999999999999999999999999999999999 9999999999999 9
Q ss_pred CCEEEEechhhHHHHHcccCCC--ccchHHHhhhhc--C-CCCccHHHHHHHHhCCccCCCCCCCChHHHHHHHHHHHHH
Q 017922 83 GTILVGHSLNNDLEVLKLDHPR--VIDTSLIFKYVD--E-YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDASAAMKLVLA 157 (364)
Q Consensus 83 ~~iLVGHn~~fDl~fL~~~~~~--vIDT~~L~r~~~--~-~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~Ata~L~~~ 157 (364)
|+|||||.+++||.+|...||+ +.||+....... . ..++||+.|++.+||++||.| .|++++||+|||+||..
T Consensus 184 gRIlVGHaLhnDl~~L~l~hp~s~iRDTs~~~pl~k~~~~~~tpSLK~Lt~~~Lg~~IQ~G--eHsSvEDA~AtM~LY~~ 261 (280)
T KOG2249|consen 184 GRILVGHALHNDLQALKLEHPRSMIRDTSKYPPLMKLLSKKATPSLKKLTEALLGKDIQVG--EHSSVEDARATMELYKR 261 (280)
T ss_pred CCEEeccccccHHHHHhhhCchhhhcccccCchHHHHhhccCCccHHHHHHHHhchhhhcc--ccCcHHHHHHHHHHHHH
Confidence 9999999999999999999997 799998655443 3 789999999999999999974 69999999999999975
Q ss_pred H
Q 017922 158 I 158 (364)
Q Consensus 158 ~ 158 (364)
.
T Consensus 262 v 262 (280)
T KOG2249|consen 262 V 262 (280)
T ss_pred H
Confidence 4
No 6
>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=100.00 E-value=5.4e-33 Score=244.86 Aligned_cols=146 Identities=41% Similarity=0.680 Sum_probs=130.4
Q ss_pred EEEEEeccCCCCCc--ccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhcCCC
Q 017922 7 YAVDCEMVLCEDGS--EGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLSNGT 84 (364)
Q Consensus 7 ValD~ETTGl~~g~--~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~~~~ 84 (364)
|+|||||||+++.. .+|++|++++.+|.++|++||+|+.+++++++.+||||++||+++| +|.+++++|.+|+ +++
T Consensus 1 v~lD~EttGl~~~~~~~~i~~v~~v~~~~~~~~~~~v~P~~~i~~~~~~ihGIt~~~v~~a~-~~~~~~~~l~~~l-~~~ 78 (152)
T cd06144 1 VALDCEMVGVGPDGSESALARVSIVNEDGNVVYDTYVKPQEPVTDYRTAVSGIRPEHLKDAP-DFEEVQKKVAELL-KGR 78 (152)
T ss_pred CEEEEEeecccCCCCEEEEEEEEEEeCCCCEEEEEEECCCCCCCcccccCCCCCHHHHcCCC-CHHHHHHHHHHHh-CCC
Confidence 68999999999762 4788899999999989999999999999999999999999999999 9999999999999 789
Q ss_pred EEEEechhhHHHHHcccCCC--ccchHHHhhhhcC--CCCccHHHHHHHHhCCccCCCCCCCChHHHHHHHHHHHH
Q 017922 85 ILVGHSLNNDLEVLKLDHPR--VIDTSLIFKYVDE--YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDASAAMKLVL 156 (364)
Q Consensus 85 iLVGHn~~fDl~fL~~~~~~--vIDT~~L~r~~~~--~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~Ata~L~~ 156 (364)
+|||||+.||++||+..+++ ++||..+.....+ ..+|+|..||+.+||++++. .+|+|++||++|++||.
T Consensus 79 vlVgHn~~fD~~~L~~~~~~~~~~dt~~l~~~~~~~~~~~~sL~~l~~~~lgi~~~~--~~H~Al~DA~at~~l~~ 152 (152)
T cd06144 79 ILVGHALKNDLKVLKLDHPKKLIRDTSKYKPLRKTAKGKSPSLKKLAKQLLGLDIQE--GEHSSVEDARAAMRLYR 152 (152)
T ss_pred EEEEcCcHHHHHHhcCcCCCccEEEeEEeeccccccCCCChhHHHHHHHHcCcccCC--CCcCcHHHHHHHHHHhC
Confidence 99999999999999987764 7899887655443 47899999997778998863 37999999999999983
No 7
>PRK05711 DNA polymerase III subunit epsilon; Provisional
Probab=99.97 E-value=4.4e-31 Score=249.93 Aligned_cols=156 Identities=21% Similarity=0.280 Sum_probs=136.4
Q ss_pred CCCcEEEEEEeccCCCCC-cccEEEEEEEEc-CCcE---EEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHH
Q 017922 2 TSNIMYAVDCEMVLCEDG-SEGLVRLCVVDR-NLKV---TIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRM 76 (364)
Q Consensus 2 ~~~~~ValD~ETTGl~~g-~~~Ii~V~vVd~-~G~v---i~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el 76 (364)
...+||+||+||||+++. .++|++|++|.. ++.+ .|++||+|+++|++.++.+||||++||+++| +|.+|+++|
T Consensus 2 ~~~r~vvlDtETTGldp~~~drIIEIGaV~v~~~~~~~~~f~~~i~P~~~i~~~a~~VHGIT~e~l~~~p-~f~ev~~~f 80 (240)
T PRK05711 2 AIMRQIVLDTETTGLNQREGHRIIEIGAVELINRRLTGRNFHVYIKPDRLVDPEALAVHGITDEFLADKP-TFAEVADEF 80 (240)
T ss_pred CCCeEEEEEeeCCCcCCCCCCeEEEEEEEEEECCEEeccEEEEEECcCCcCCHHHhhhcCCCHHHHcCCC-CHHHHHHHH
Confidence 456899999999999976 568999999976 3332 4899999999999999999999999999999 999999999
Q ss_pred HHhhcCCCEEEEechhhHHHHHccc-------C------CCccchHHHhhhhcCCCCccHHHHHHHHhCCccCCCCCCCC
Q 017922 77 KKLLSNGTILVGHSLNNDLEVLKLD-------H------PRVIDTSLIFKYVDEYRRPSLYNLCKSVLGYEIRKKGTPHN 143 (364)
Q Consensus 77 ~~fl~~~~iLVGHn~~fDl~fL~~~-------~------~~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~~~~~H~ 143 (364)
.+|+ ++.+|||||+.||++||+.. . ..++||..+++..+|..+++|+.|| ++||++... ...|+
T Consensus 81 ~~fi-~~~~lVaHNa~FD~~fL~~el~r~g~~~~~~~~~~~~iDTl~lar~~~p~~~~~L~aL~-~~~gi~~~~-r~~H~ 157 (240)
T PRK05711 81 LDFI-RGAELIIHNAPFDIGFMDYEFALLGRDIPKTNTFCKVTDTLAMARRMFPGKRNSLDALC-KRYGIDNSH-RTLHG 157 (240)
T ss_pred HHHh-CCCEEEEEccHHhHHHHHHHHHHhCCCCCcccccCceeeHHHHHHHHcCCCCCCHHHHH-HHCCCCCCC-CCCCC
Confidence 9999 89999999999999999863 1 2479999999999887788999999 677988643 34699
Q ss_pred hHHHHHHHHHHHHHHHHh
Q 017922 144 CLDDASAAMKLVLAIIER 161 (364)
Q Consensus 144 Al~DA~Ata~L~~~~le~ 161 (364)
|+.||++|++||++++..
T Consensus 158 AL~DA~~~A~v~~~l~~~ 175 (240)
T PRK05711 158 ALLDAEILAEVYLAMTGG 175 (240)
T ss_pred HHHHHHHHHHHHHHHHCc
Confidence 999999999999988743
No 8
>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=99.97 E-value=3.3e-30 Score=241.60 Aligned_cols=152 Identities=24% Similarity=0.269 Sum_probs=133.3
Q ss_pred cEEEEEEeccCCCCCc-ccEEEEEEEEc-CCc---EEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHh
Q 017922 5 IMYAVDCEMVLCEDGS-EGLVRLCVVDR-NLK---VTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKL 79 (364)
Q Consensus 5 ~~ValD~ETTGl~~g~-~~Ii~V~vVd~-~G~---vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~f 79 (364)
++|+||+||||+++.. ++|++|++|.. ++. ..|+.||+|+++|+++++.+||||++||+++| +|.+|+.+|.+|
T Consensus 1 r~vvlD~ETTGl~p~~~d~IIEIgav~~~~~~~~~~~f~~~i~P~~~i~~~a~~vhGIt~e~l~~~p-~f~ev~~~f~~f 79 (225)
T TIGR01406 1 RQIILDTETTGLDPKGGHRIVEIGAVELVNRMLTGDNFHVYVNPERDMPAEAAKVHGITDEFLADKP-KFKEIADEFLDF 79 (225)
T ss_pred CEEEEEeeCCCcCCCCCCeEEEEEEEEEECCcEecceEEEEECcCCCCCHHHHhccCCCHHHHhCCC-CHHHHHHHHHHH
Confidence 4899999999999865 68999999865 332 25999999999999999999999999999999 999999999999
Q ss_pred hcCCCEEEEechhhHHHHHccc-------C------CCccchHHHhhhhcCCCCccHHHHHHHHhCCccCCCCCCCChHH
Q 017922 80 LSNGTILVGHSLNNDLEVLKLD-------H------PRVIDTSLIFKYVDEYRRPSLYNLCKSVLGYEIRKKGTPHNCLD 146 (364)
Q Consensus 80 l~~~~iLVGHn~~fDl~fL~~~-------~------~~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~ 146 (364)
+ ++.+|||||+.||++||+.. . .+++||..+++..+|..+++|+.|| ++||++... ...|+|+.
T Consensus 80 i-~~~~lVaHNa~FD~~fL~~el~r~g~~~~~~~~~~~~iDTl~lar~~~p~~~~~L~~L~-~~~gi~~~~-r~~H~Al~ 156 (225)
T TIGR01406 80 I-GGSELVIHNAAFDVGFLNYELERLGPTIKKIGEFCRVIDTLAMARERFPGQRNSLDALC-KRFKVDNSH-RTLHGALL 156 (225)
T ss_pred h-CCCEEEEEecHHHHHHHHHHHHHhCCCCcccccCCCEEEHHHHHHHHcCCCCCCHHHHH-HhcCCCCCC-CCCcCHHH
Confidence 9 89999999999999999852 1 2489999999999887789999999 667998753 24799999
Q ss_pred HHHHHHHHHHHHHH
Q 017922 147 DASAAMKLVLAIIE 160 (364)
Q Consensus 147 DA~Ata~L~~~~le 160 (364)
||++|++||.++..
T Consensus 157 DA~~~a~v~~~l~~ 170 (225)
T TIGR01406 157 DAHLLAEVYLALTG 170 (225)
T ss_pred HHHHHHHHHHHHHc
Confidence 99999999998764
No 9
>KOG2248 consensus 3'-5' exonuclease [Replication, recombination and repair]
Probab=99.97 E-value=9e-31 Score=260.94 Aligned_cols=163 Identities=46% Similarity=0.674 Sum_probs=152.1
Q ss_pred CCCcEEEEEEeccCCCCCcccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhc
Q 017922 2 TSNIMYAVDCEMVLCEDGSEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLS 81 (364)
Q Consensus 2 ~~~~~ValD~ETTGl~~g~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~ 81 (364)
.+.+++|+||||+.+..| .+++||++||.+++++||.||+|..+|.||+|+++|||++|++++++++.+|+.+|+.|++
T Consensus 214 ~~~~i~AlDCEm~~te~g-~el~RVt~VD~~~~vi~D~fVkP~~~VvDy~T~~SGIT~~~~e~~t~tl~dvq~~l~~~~~ 292 (380)
T KOG2248|consen 214 KSPNIFALDCEMVVTENG-LELTRVTAVDRDGKVILDTFVKPNKPVVDYNTRYSGITEEDLENSTITLEDVQKELLELIS 292 (380)
T ss_pred CCCCeEEEEeeeeeeccc-eeeEEeeeeeccCcEEeEEeecCCCcccccccccccccHHHHhcCccCHHHHHHHHHhhcC
Confidence 457899999999999999 7899999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCEEEEechhhHHHHHcccCCCccchHHHhhhhcC--CCCccHHHHHHHHhCCccCCCCCCCChHHHHHHHHHHHHHHH
Q 017922 82 NGTILVGHSLNNDLEVLKLDHPRVIDTSLIFKYVDE--YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDASAAMKLVLAII 159 (364)
Q Consensus 82 ~~~iLVGHn~~fDl~fL~~~~~~vIDT~~L~r~~~~--~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~Ata~L~~~~l 159 (364)
.++|||||++++||++|+..|+.+|||+.+|.+..+ ....+|+.||+.+||..+|++...|++.+||.||++|+...+
T Consensus 293 ~~TILVGHSLenDL~aLKl~H~~ViDTa~lf~~~~g~~~~k~sLk~L~~~~L~~~Iq~~~~~HdS~eDA~acm~Lv~~k~ 372 (380)
T KOG2248|consen 293 KNTILVGHSLENDLKALKLDHPSVIDTAVLFKHPTGPYPFKSSLKNLAKSYLGKLIQEGVGGHDSVEDALACMKLVKLKI 372 (380)
T ss_pred cCcEEEeechhhHHHHHhhhCCceeeeeEEEecCCCCccchHHHHHHHHHHHHHHHhccCCCCccHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999998877 467789999999999999954457999999999999999888
Q ss_pred HhcccC
Q 017922 160 ERRVDN 165 (364)
Q Consensus 160 e~g~~~ 165 (364)
..+...
T Consensus 373 ~~~~~~ 378 (380)
T KOG2248|consen 373 KNSESQ 378 (380)
T ss_pred hccccc
Confidence 776543
No 10
>PRK09146 DNA polymerase III subunit epsilon; Validated
Probab=99.97 E-value=1.4e-29 Score=239.50 Aligned_cols=157 Identities=23% Similarity=0.269 Sum_probs=136.8
Q ss_pred CCcEEEEEEeccCCCCCcccEEEEEEEEcCC-cE----EEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHH
Q 017922 3 SNIMYAVDCEMVLCEDGSEGLVRLCVVDRNL-KV----TIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMK 77 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~~Ii~V~vVd~~G-~v----i~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~ 77 (364)
...|++||+||||+++..++|++|++|..++ .+ .|++||+|+.+|+..++.+||||+++|.++| +|.+|+.+|.
T Consensus 46 ~~~~vviD~ETTGl~p~~d~IieIg~v~v~~~~i~~~~~~~~li~P~~~i~~~~~~IhGIt~e~l~~ap-~~~evl~~l~ 124 (239)
T PRK09146 46 EVPFVALDFETTGLDAEQDAIVSIGLVPFTLQRIRCRQARHWVVKPRRPLEEESVVIHGITHSELQDAP-DLERILDELL 124 (239)
T ss_pred cCCEEEEEeECCCCCCCCCcEEEEEEEEEECCeEeecceEEEEECCCCCCChhhhhhcCCCHHHHhCCC-CHHHHHHHHH
Confidence 4589999999999998888999999998743 32 4789999999999999999999999999999 9999999999
Q ss_pred HhhcCCCEEEEechhhHHHHHcccC---------CCccchHHHhhhhcC-C-------------CCccHHHHHHHHhCCc
Q 017922 78 KLLSNGTILVGHSLNNDLEVLKLDH---------PRVIDTSLIFKYVDE-Y-------------RRPSLYNLCKSVLGYE 134 (364)
Q Consensus 78 ~fl~~~~iLVGHn~~fDl~fL~~~~---------~~vIDT~~L~r~~~~-~-------------~~~sL~~L~k~~Lgi~ 134 (364)
+|+ ++.++||||+.||++||+... ..+|||..|++...+ . .+++|.++| .++|++
T Consensus 125 ~~~-~~~~lVaHna~FD~~fL~~~l~~~~~~~~~~~~iDTl~Lar~l~~~~~~~~~~~~~~~~~~~~~L~~l~-~~~gl~ 202 (239)
T PRK09146 125 EAL-AGKVVVVHYRRIERDFLDQALRNRIGEGIEFPVIDTMEIEARIQRKQAGGLWNRLKGKKPESIRLADSR-LRYGLP 202 (239)
T ss_pred HHh-CCCEEEEECHHHHHHHHHHHHHHhcCCCCCCceechHHHHHHHcccccccccchhccCCCCCCCHHHHH-HHcCCC
Confidence 999 889999999999999998731 248999999987643 1 567999999 677998
Q ss_pred cCCCCCCCChHHHHHHHHHHHHHHHHhcccC
Q 017922 135 IRKKGTPHNCLDDASAAMKLVLAIIERRVDN 165 (364)
Q Consensus 135 i~~~~~~H~Al~DA~Ata~L~~~~le~g~~~ 165 (364)
... +|+|++||.+|++||..++.+..+.
T Consensus 203 ~~~---~H~Al~DA~ata~l~~~~~~~~~~~ 230 (239)
T PRK09146 203 AYS---PHHALTDAIATAELLQAQIAHHFSP 230 (239)
T ss_pred CCC---CCCcHHHHHHHHHHHHHHHHHHcCC
Confidence 753 8999999999999999998766443
No 11
>PRK07740 hypothetical protein; Provisional
Probab=99.96 E-value=3.1e-29 Score=237.66 Aligned_cols=158 Identities=23% Similarity=0.323 Sum_probs=139.0
Q ss_pred CCcEEEEEEeccCCCCCc-ccEEEEEEEEcCCcEE----EEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHH
Q 017922 3 SNIMYAVDCEMVLCEDGS-EGLVRLCVVDRNLKVT----IDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMK 77 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~-~~Ii~V~vVd~~G~vi----~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~ 77 (364)
..+||+|||||||+++.. ++|++|++|..++..+ |++||+|..+|+++++.+||||+++|+++| ++.+|+.+|.
T Consensus 58 ~~~~vv~D~ETTGl~p~~~deIIeIgaV~~~~~~i~~~~f~~lv~P~~~i~~~~~~ltGIt~e~l~~ap-~~~evl~~f~ 136 (244)
T PRK07740 58 DLPFVVFDLETTGFSPQQGDEILSIGAVKTKGGEVETDTFYSLVKPKRPIPEHILELTGITAEDVAFAP-PLAEVLHRFY 136 (244)
T ss_pred CCCEEEEEEeCCCCCCCCCCeEEEEEEEEEECCEEEEEEEEEEeCcCCCCChhheeccCCCHHHHhCCC-CHHHHHHHHH
Confidence 457999999999999865 6899999998754433 788999999999999999999999999999 9999999999
Q ss_pred HhhcCCCEEEEechhhHHHHHccc---------CCCccchHHHhhhhcC-CCCccHHHHHHHHhCCccCCCCCCCChHHH
Q 017922 78 KLLSNGTILVGHSLNNDLEVLKLD---------HPRVIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRKKGTPHNCLDD 147 (364)
Q Consensus 78 ~fl~~~~iLVGHn~~fDl~fL~~~---------~~~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~D 147 (364)
+|+ ++.+|||||+.||+.||+.. ..+++||..+++...+ ..+++|++|| .++|++... +|+|++|
T Consensus 137 ~fi-~~~~lVahna~fD~~fL~~~~~~~~~~~~~~~~iDt~~l~r~l~~~~~~~sL~~l~-~~~gi~~~~---~H~Al~D 211 (244)
T PRK07740 137 AFI-GAGVLVAHHAGHDKAFLRHALWRTYRQPFTHRLIDTMFLTKLLAHERDFPTLDDAL-AYYGIPIPR---RHHALGD 211 (244)
T ss_pred HHh-CCCEEEEeCHHHHHHHHHHHHHHhcCCCcCCCeechHHHHHHHcCCCCCCCHHHHH-HHCCcCCCC---CCCcHHH
Confidence 999 89999999999999999763 1358999999998877 5689999999 788999863 7999999
Q ss_pred HHHHHHHHHHHHHhcccCC
Q 017922 148 ASAAMKLVLAIIERRVDNA 166 (364)
Q Consensus 148 A~Ata~L~~~~le~g~~~~ 166 (364)
|++|++||.+++..-.+.+
T Consensus 212 a~ata~l~~~ll~~~~~~~ 230 (244)
T PRK07740 212 ALMTAKLWAILLVEAQQRG 230 (244)
T ss_pred HHHHHHHHHHHHHHHHHcC
Confidence 9999999999987654433
No 12
>PRK07247 DNA polymerase III subunit epsilon; Validated
Probab=99.96 E-value=5.6e-29 Score=228.86 Aligned_cols=157 Identities=19% Similarity=0.277 Sum_probs=132.0
Q ss_pred CCcEEEEEEeccCCCCCcccEEEEEEEEc-CCcE--EEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHh
Q 017922 3 SNIMYAVDCEMVLCEDGSEGLVRLCVVDR-NLKV--TIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKL 79 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~~Ii~V~vVd~-~G~v--i~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~f 79 (364)
...||+|||||||+++ .++|++|++|.. .|.+ .|++||+|..+|+++++.+||||++||+++| ++.+|+++|.+|
T Consensus 4 ~~~~vvlD~EtTGl~~-~~eIIeIgaV~v~~g~~~~~f~~lv~P~~~i~~~~~~lhGIt~~~v~~ap-~~~evl~~f~~f 81 (195)
T PRK07247 4 LETYIAFDLEFNTVNG-VSHIIQVSAVKYDDHKEVDSFDSYVYTDVPLQSFINGLTGITADKIADAP-KVEEVLAAFKEF 81 (195)
T ss_pred CCeEEEEEeeCCCCCC-CCeEEEEEEEEEECCEEEEEEEEEECCCCCCCccceecCCCCHHHHhCCC-CHHHHHHHHHHH
Confidence 3589999999999985 457999999987 5543 4999999999999999999999999999999 999999999999
Q ss_pred hcCCCEEEEechh-hHHHHHcccC-----CCccchHHHh--hhh--cC-CCCccHHHHHHHHhCCccCCCCCCCChHHHH
Q 017922 80 LSNGTILVGHSLN-NDLEVLKLDH-----PRVIDTSLIF--KYV--DE-YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDA 148 (364)
Q Consensus 80 l~~~~iLVGHn~~-fDl~fL~~~~-----~~vIDT~~L~--r~~--~~-~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA 148 (364)
+ ++.++||||+. ||+.||+... +..+||.... +.. .+ ..+|+|..|| ++||++.. +|+|++||
T Consensus 82 ~-~~~~lVaHNa~~fD~~fL~~~g~~~~~~~~idt~~~~~~~~~~~~~~~~~~~L~~La-~~~gi~~~----~HrAl~DA 155 (195)
T PRK07247 82 V-GELPLIGYNAQKSDLPILAENGLDLSDQYQVDLYDEAFERRSSDLNGIANLKLQTVA-DFLGIKGR----GHNSLEDA 155 (195)
T ss_pred H-CCCeEEEEeCcHhHHHHHHHcCCCcCCCceeehHHHHHHhhccccCCCCCCCHHHHH-HhcCCCCC----CcCCHHHH
Confidence 9 89999999997 8999998642 2357776443 222 22 5789999999 78899852 79999999
Q ss_pred HHHHHHHHHHHHhcccCCC
Q 017922 149 SAAMKLVLAIIERRVDNAV 167 (364)
Q Consensus 149 ~Ata~L~~~~le~g~~~~i 167 (364)
++|+.||.++++.+.....
T Consensus 156 ~~ta~v~~~ll~~~~~~~~ 174 (195)
T PRK07247 156 RMTARVYESFLESDQNKEY 174 (195)
T ss_pred HHHHHHHHHHHhhccchhh
Confidence 9999999999987764433
No 13
>PRK06310 DNA polymerase III subunit epsilon; Validated
Probab=99.96 E-value=5.5e-29 Score=236.76 Aligned_cols=155 Identities=21% Similarity=0.331 Sum_probs=136.1
Q ss_pred CCCcEEEEEEeccCCCCCcccEEEEEEEEcCCcE---EEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHH
Q 017922 2 TSNIMYAVDCEMVLCEDGSEGLVRLCVVDRNLKV---TIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKK 78 (364)
Q Consensus 2 ~~~~~ValD~ETTGl~~g~~~Ii~V~vVd~~G~v---i~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~ 78 (364)
....||+|||||||+++..++|++|++|..++.. .|+.||+|+.+|+..++.+||||++||+++| +|.+|+++|.+
T Consensus 5 ~~~~~v~~D~ETTGl~~~~d~IIEIa~v~v~~~~~~~~~~~li~P~~~I~~~a~~ihgIt~e~v~~~p-~~~ev~~~~~~ 83 (250)
T PRK06310 5 KDTEFVCLDCETTGLDVKKDRIIEFAAIRFTFDEVIDSVEFLINPERVVSAESQRIHHISDAMLRDKP-KIAEVFPQIKG 83 (250)
T ss_pred cCCcEEEEEEeCCCCCCCCCeEEEEEEEEEECCeEEEEEEEEECcCCCCCHhhhhccCcCHHHHhCCC-CHHHHHHHHHH
Confidence 4568999999999999888899999999875432 3888999999999999999999999999999 99999999999
Q ss_pred hhcCCCEEEEechhhHHHHHcccC-----------CCccchHHHhhhhcCCCCccHHHHHHHHhCCccCCCCCCCChHHH
Q 017922 79 LLSNGTILVGHSLNNDLEVLKLDH-----------PRVIDTSLIFKYVDEYRRPSLYNLCKSVLGYEIRKKGTPHNCLDD 147 (364)
Q Consensus 79 fl~~~~iLVGHn~~fDl~fL~~~~-----------~~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~D 147 (364)
|++++.+|||||+.||+.||+... .++|||..+++...+..+++|..|| .++|++... +|+|++|
T Consensus 84 fl~~~~~lvghn~~FD~~~L~~~~~r~g~~~~~~~~~~iDtl~lar~~~~~~~~~L~~l~-~~~g~~~~~---aH~Al~D 159 (250)
T PRK06310 84 FFKEGDYIVGHSVGFDLQVLSQESERIGETFLSKHYYIIDTLRLAKEYGDSPNNSLEALA-VHFNVPYDG---NHRAMKD 159 (250)
T ss_pred HhCCCCEEEEECHHHHHHHHHHHHHHcCCCccccCCcEEehHHHHHhcccCCCCCHHHHH-HHCCCCCCC---CcChHHH
Confidence 995459999999999999998631 3479999999975446679999999 777998753 8999999
Q ss_pred HHHHHHHHHHHHHh
Q 017922 148 ASAAMKLVLAIIER 161 (364)
Q Consensus 148 A~Ata~L~~~~le~ 161 (364)
|.+|++||.+++++
T Consensus 160 a~at~~vl~~l~~~ 173 (250)
T PRK06310 160 VEINIKVFKHLCKR 173 (250)
T ss_pred HHHHHHHHHHHHHh
Confidence 99999999998864
No 14
>PRK06309 DNA polymerase III subunit epsilon; Validated
Probab=99.96 E-value=6.5e-29 Score=233.51 Aligned_cols=153 Identities=20% Similarity=0.303 Sum_probs=135.8
Q ss_pred CcEEEEEEeccCCCCCcccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhcCC
Q 017922 4 NIMYAVDCEMVLCEDGSEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLSNG 83 (364)
Q Consensus 4 ~~~ValD~ETTGl~~g~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~~~ 83 (364)
..+|+||+||||+++..++|++|++++......|+.||+|+.+|+..++.+||||++||+++| +|.+|+++|.+|++++
T Consensus 2 ~~~vv~D~ETTGl~~~~d~IIeig~v~~~~~~~f~~lv~P~~~I~~~a~~IhGIt~e~v~~~p-~f~ev~~~~~~fi~~~ 80 (232)
T PRK06309 2 PALIFYDTETTGTQIDKDRIIEIAAYNGVTSESFQTLVNPEIPIPAEASKIHGITTDEVADAP-KFPEAYQKFIEFCGTD 80 (232)
T ss_pred CcEEEEEeeCCCCCCCCCEEEEEEEEcCccccEEEEEeCCCCCCChhHHhhcCCCHHHHhCCC-CHHHHHHHHHHHHcCC
Confidence 359999999999998888999999997654557999999999999999999999999999999 9999999999999556
Q ss_pred CEEEEec-hhhHHHHHcccC---------CCccchHHHhhhhcC-CCCccHHHHHHHHhCCccCCCCCCCChHHHHHHHH
Q 017922 84 TILVGHS-LNNDLEVLKLDH---------PRVIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDASAAM 152 (364)
Q Consensus 84 ~iLVGHn-~~fDl~fL~~~~---------~~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~Ata 152 (364)
.+||||| +.||+.||+... .+++||..+++..++ ..+++|..|| .++|++.. .+|+|++||.+|+
T Consensus 81 ~~lVaHN~~~FD~~~L~~e~~r~g~~~~~~~~iDt~~l~~~~~~~~~~~~L~~l~-~~~~~~~~---~aH~Al~Da~~t~ 156 (232)
T PRK06309 81 NILVAHNNDAFDFPLLRKECRRHGLEPPTLRTIDSLKWAQKYRPDLPKHNLQYLR-QVYGFEEN---QAHRALDDVITLH 156 (232)
T ss_pred CEEEEeCCHHHHHHHHHHHHHHcCCCCCCCcEEeHHHHHHHHcCCCCCCCHHHHH-HHcCCCCC---CCCCcHHHHHHHH
Confidence 8999999 589999998632 247999999998877 5689999999 77798865 3899999999999
Q ss_pred HHHHHHHHh
Q 017922 153 KLVLAIIER 161 (364)
Q Consensus 153 ~L~~~~le~ 161 (364)
+||.+++.+
T Consensus 157 ~vl~~l~~~ 165 (232)
T PRK06309 157 RVFSALVGD 165 (232)
T ss_pred HHHHHHHHH
Confidence 999998854
No 15
>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=99.96 E-value=6.2e-29 Score=220.05 Aligned_cols=149 Identities=23% Similarity=0.320 Sum_probs=129.6
Q ss_pred EEEEEEeccCCCC-CcccEEEEEEEEc-CCcE---EEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhh
Q 017922 6 MYAVDCEMVLCED-GSEGLVRLCVVDR-NLKV---TIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLL 80 (364)
Q Consensus 6 ~ValD~ETTGl~~-g~~~Ii~V~vVd~-~G~v---i~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl 80 (364)
||+||+||||+++ ..++|++|++|.. ++.+ .|+.||+|..++++..+.+||||+++++++| ++.+|+++|.+|+
T Consensus 1 ~v~~D~ETTGl~~~~~~~iieig~v~v~~~~~~~~~~~~~v~P~~~i~~~~~~ihGIt~e~l~~~~-~~~~v~~~l~~~l 79 (167)
T cd06131 1 QIVLDTETTGLDPREGHRIIEIGCVELINRRLTGNTFHVYINPERDIPEEAFKVHGITDEFLADKP-KFAEIADEFLDFI 79 (167)
T ss_pred CEEEEeeCCCCCCCCCCeEEEEEEEEEECCcEeccEEEEEECCCCCCCHHHHHHhCCCHHHHhcCC-CHHHHHHHHHHHH
Confidence 6899999999997 5568999998865 3332 5889999999999999999999999999999 9999999999999
Q ss_pred cCCCEEEEechhhHHHHHcccC------------CCccchHHHhhhhcCCCCccHHHHHHHHhCCccCCCCCCCChHHHH
Q 017922 81 SNGTILVGHSLNNDLEVLKLDH------------PRVIDTSLIFKYVDEYRRPSLYNLCKSVLGYEIRKKGTPHNCLDDA 148 (364)
Q Consensus 81 ~~~~iLVGHn~~fDl~fL~~~~------------~~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA 148 (364)
++.++||||+.||+.||+... ..++||..+++..++..+++|.++| +++|++... ..+|+|+.||
T Consensus 80 -~~~~lv~hn~~fD~~~l~~~~~~~~~~~~~~~~~~~idt~~~~~~~~~~~~~~L~~l~-~~~~i~~~~-~~~H~Al~Da 156 (167)
T cd06131 80 -RGAELVIHNASFDVGFLNAELSLLGLGKKIIDFCRVIDTLALARKKFPGKPNSLDALC-KRFGIDNSH-RTLHGALLDA 156 (167)
T ss_pred -CCCeEEEeChHHhHHHHHHHHHHhCCCcccccCCCceEhHHHHHHHcCCCCCCHHHHH-HHCCCCCCC-CCCCChHHHH
Confidence 889999999999999997631 1379999999988876778999999 778998753 2479999999
Q ss_pred HHHHHHHHHH
Q 017922 149 SAAMKLVLAI 158 (364)
Q Consensus 149 ~Ata~L~~~~ 158 (364)
++|++||..+
T Consensus 157 ~~~a~l~~~l 166 (167)
T cd06131 157 ELLAEVYLEL 166 (167)
T ss_pred HHHHHHHHHh
Confidence 9999999764
No 16
>PRK06063 DNA polymerase III subunit epsilon; Provisional
Probab=99.96 E-value=1.8e-28 Score=240.25 Aligned_cols=157 Identities=25% Similarity=0.329 Sum_probs=136.8
Q ss_pred CCcEEEEEEeccCCCCCcccEEEEEEEEc--CCcEE--EEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHH
Q 017922 3 SNIMYAVDCEMVLCEDGSEGLVRLCVVDR--NLKVT--IDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKK 78 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~~Ii~V~vVd~--~G~vi--~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~ 78 (364)
+.+||+||+||||++++.++|++|++|.. +|.+. |++||+|..+ ...+.|||||++||.++| +|.+++++|.+
T Consensus 14 ~~~fvvlD~ETTGl~p~~d~IIeIgav~v~~~g~i~~~~~~lv~P~~~--~~~~~IhGIt~e~l~~ap-~f~ev~~~l~~ 90 (313)
T PRK06063 14 PRGWAVVDVETSGFRPGQARIISLAVLGLDADGNVEQSVVTLLNPGVD--PGPTHVHGLTAEMLEGQP-QFADIAGEVAE 90 (313)
T ss_pred CCCEEEEEEECCCCCCCCCEEEEEEEEEEECCceeeeEEEEEECcCCC--CCCeecCCCCHHHHhCCC-CHHHHHHHHHH
Confidence 46899999999999998889999999865 56653 8899999753 567999999999999999 99999999999
Q ss_pred hhcCCCEEEEechhhHHHHHcccC---------CCccchHHHhhhhcC-CCCccHHHHHHHHhCCccCCCCCCCChHHHH
Q 017922 79 LLSNGTILVGHSLNNDLEVLKLDH---------PRVIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDA 148 (364)
Q Consensus 79 fl~~~~iLVGHn~~fDl~fL~~~~---------~~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA 148 (364)
|+ ++.+|||||+.||++||+... ..++||..+++.+.+ ..+++|.+|| .+||++.. .+|+|++||
T Consensus 91 ~l-~~~~lVaHNa~FD~~fL~~~~~r~g~~~~~~~~ldTl~lar~~~~~~~~~kL~~l~-~~~gi~~~---~~H~Al~DA 165 (313)
T PRK06063 91 LL-RGRTLVAHNVAFDYSFLAAEAERAGAELPVDQVMCTVELARRLGLGLPNLRLETLA-AHWGVPQQ---RPHDALDDA 165 (313)
T ss_pred Hc-CCCEEEEeCHHHHHHHHHHHHHHcCCCCCCCCEEehHHHHHHhccCCCCCCHHHHH-HHcCCCCC---CCCCcHHHH
Confidence 99 899999999999999998642 237999999998876 7899999999 78899865 389999999
Q ss_pred HHHHHHHHHHHHhcccCCC
Q 017922 149 SAAMKLVLAIIERRVDNAV 167 (364)
Q Consensus 149 ~Ata~L~~~~le~g~~~~i 167 (364)
++|++||..++++....++
T Consensus 166 ~ata~l~~~ll~~~~~~~~ 184 (313)
T PRK06063 166 RVLAGILRPSLERARERDV 184 (313)
T ss_pred HHHHHHHHHHHHHHHhcCC
Confidence 9999999998877654444
No 17
>PRK06807 DNA polymerase III subunit epsilon; Validated
Probab=99.96 E-value=2.1e-28 Score=239.77 Aligned_cols=153 Identities=20% Similarity=0.295 Sum_probs=137.8
Q ss_pred CCcEEEEEEeccCCCCCcccEEEEEEEEc-CCcEE--EEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHh
Q 017922 3 SNIMYAVDCEMVLCEDGSEGLVRLCVVDR-NLKVT--IDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKL 79 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~~Ii~V~vVd~-~G~vi--~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~f 79 (364)
+.+||+||+||||+++..++|++|++|.. +|.++ |++||+|..+|+++++++||||++||.++| +|.+|+++|.+|
T Consensus 7 ~~~~Vv~DlETTGl~p~~~eIIEIgaV~v~~g~i~~~f~~lVkP~~~I~~~a~~ihGIT~e~l~~~~-~~~evl~~f~~f 85 (313)
T PRK06807 7 PLDYVVIDFETTGFNPYNDKIIQVAAVKYRNHELVDQFVSYVNPERPIPDRITSLTGITNYRVSDAP-TIEEVLPLFLAF 85 (313)
T ss_pred CCCEEEEEEECCCCCCCCCeEEEEEEEEEECCEEEEEEEEEECcCCCCCHhhhccCCCCHHHHhCCC-CHHHHHHHHHHH
Confidence 67899999999999988789999999987 55543 888999999999999999999999999999 999999999999
Q ss_pred hcCCCEEEEechhhHHHHHcccC---------CCccchHHHhhhhcC-CCCccHHHHHHHHhCCccCCCCCCCChHHHHH
Q 017922 80 LSNGTILVGHSLNNDLEVLKLDH---------PRVIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDAS 149 (364)
Q Consensus 80 l~~~~iLVGHn~~fDl~fL~~~~---------~~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~ 149 (364)
+ ++.+|||||+.||+.||+... ..+|||..+++..++ ..+++|..|| ++||++. + +|+|+.||+
T Consensus 86 l-~~~~lVaHNa~FD~~fL~~~~~~~gl~~~~~~~iDtl~la~~~~~~~~~~kL~~L~-~~lgi~~-~---~H~Al~DA~ 159 (313)
T PRK06807 86 L-HTNVIVAHNASFDMRFLKSNVNMLGLPEPKNKVIDTVFLAKKYMKHAPNHKLETLK-RMLGIRL-S---SHNAFDDCI 159 (313)
T ss_pred H-cCCeEEEEcHHHHHHHHHHHHHHcCCCCCCCCEeeHHHHHHHHhCCCCCCCHHHHH-HHcCCCC-C---CcChHHHHH
Confidence 9 889999999999999998631 237999999998887 6788999999 8889998 3 799999999
Q ss_pred HHHHHHHHHHHhc
Q 017922 150 AAMKLVLAIIERR 162 (364)
Q Consensus 150 Ata~L~~~~le~g 162 (364)
+|++||+.++...
T Consensus 160 ~ta~l~~~l~~~~ 172 (313)
T PRK06807 160 TCAAVYQKCASIE 172 (313)
T ss_pred HHHHHHHHHHHhh
Confidence 9999999888654
No 18
>PRK08517 DNA polymerase III subunit epsilon; Provisional
Probab=99.96 E-value=5.5e-28 Score=230.91 Aligned_cols=154 Identities=25% Similarity=0.327 Sum_probs=137.0
Q ss_pred CCcEEEEEEeccCCCCCcccEEEEEEEEc-CCcEE--EEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHh
Q 017922 3 SNIMYAVDCEMVLCEDGSEGLVRLCVVDR-NLKVT--IDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKL 79 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~~Ii~V~vVd~-~G~vi--~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~f 79 (364)
...||+||+||||+++..++|++|++|.. +|.++ |++||+|. +||.+++.+||||++|+.++| ++.+|+.+|.+|
T Consensus 67 ~~~~vv~DiETTG~~~~~~~IIEIGAv~v~~g~i~~~f~~~v~p~-~ip~~~~~itGIt~e~l~~ap-~~~evl~~f~~f 144 (257)
T PRK08517 67 DQVFCFVDIETNGSKPKKHQIIEIGAVKVKNGEIIDRFESFVKAK-EVPEYITELTGITYEDLENAP-SLKEVLEEFRLF 144 (257)
T ss_pred CCCEEEEEEeCCCCCCCCCeEEEEEEEEEECCEEEEEEEEEECCC-CCChhhhhhcCcCHHHHcCCC-CHHHHHHHHHHH
Confidence 46799999999999988778999999987 55543 88999997 899999999999999999999 999999999999
Q ss_pred hcCCCEEEEechhhHHHHHccc---------CCCccchHHHhhhhcCCCCccHHHHHHHHhCCccCCCCCCCChHHHHHH
Q 017922 80 LSNGTILVGHSLNNDLEVLKLD---------HPRVIDTSLIFKYVDEYRRPSLYNLCKSVLGYEIRKKGTPHNCLDDASA 150 (364)
Q Consensus 80 l~~~~iLVGHn~~fDl~fL~~~---------~~~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~A 150 (364)
+ ++.++||||+.||++||+.. ..+.+||..+++...+..+++|+.|| +++|++.. .+|+|+.||.+
T Consensus 145 l-~~~v~VaHNa~FD~~fL~~~l~r~g~~~~~~~~ldtl~la~~~~~~~~~~L~~L~-~~lgi~~~---~~HrAl~DA~a 219 (257)
T PRK08517 145 L-GDSVFVAHNVNFDYNFISRSLEEIGLGPLLNRKLCTIDLAKRTIESPRYGLSFLK-ELLGIEIE---VHHRAYADALA 219 (257)
T ss_pred H-CCCeEEEECHHHHHHHHHHHHHHcCCCCCCCCcEehHHHHHHHccCCCCCHHHHH-HHcCcCCC---CCCChHHHHHH
Confidence 9 89999999999999999753 23479999999988777789999999 78899975 38999999999
Q ss_pred HHHHHHHHHHhcc
Q 017922 151 AMKLVLAIIERRV 163 (364)
Q Consensus 151 ta~L~~~~le~g~ 163 (364)
|++||..++.+.+
T Consensus 220 ta~ll~~ll~~~~ 232 (257)
T PRK08517 220 AYEIFKICLLNLP 232 (257)
T ss_pred HHHHHHHHHHHhH
Confidence 9999999886543
No 19
>TIGR00573 dnaq exonuclease, DNA polymerase III, epsilon subunit family. All proteins in this family for which functions are known are components of the DNA polymerase III complex (epsilon subunit). There is, however, an outgroup that includes paralogs in some gamma-proteobacteria and the n-terminal region of DinG from some low GC gram positive bacteria. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.96 E-value=2.6e-28 Score=227.04 Aligned_cols=157 Identities=23% Similarity=0.318 Sum_probs=134.9
Q ss_pred CCcEEEEEEeccCCCCCcccEEEEEEEEc-CCc---EEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHH
Q 017922 3 SNIMYAVDCEMVLCEDGSEGLVRLCVVDR-NLK---VTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKK 78 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~~Ii~V~vVd~-~G~---vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~ 78 (364)
...||+||+||||+++..+ |++|++|.. ++. ..|++||+|..+|+++++.+||||++||.++| +|.+|+++|.+
T Consensus 6 ~~~fvv~D~ETTGl~~~~~-IIeIgav~v~~~~~~~~~f~~li~P~~~i~~~a~~ihGIt~e~l~~~p-~~~ev~~~~~~ 83 (217)
T TIGR00573 6 LDTETTGDNETTGLYAGHD-IIEIGAVEIINRRITGNKFHTYIKPDRPIDPDAIKIHGITDDMLKDKP-DFKEIAEDFAD 83 (217)
T ss_pred ecCEEEEEecCCCCCCCCC-EEEEEEEEEECCCEeeeEEEEEECcCCCCCHHHHhhcCCCHHHHcCCC-CHHHHHHHHHH
Confidence 4589999999999998877 999999983 443 25889999999999999999999999999999 99999999999
Q ss_pred hhcCCCEEEEechhhHHHHHcccC----------CCccchHHHhhhhcC---CCCccHHHHHHHHhCCccCCCCCCCChH
Q 017922 79 LLSNGTILVGHSLNNDLEVLKLDH----------PRVIDTSLIFKYVDE---YRRPSLYNLCKSVLGYEIRKKGTPHNCL 145 (364)
Q Consensus 79 fl~~~~iLVGHn~~fDl~fL~~~~----------~~vIDT~~L~r~~~~---~~~~sL~~L~k~~Lgi~i~~~~~~H~Al 145 (364)
|+ ++.++||||+.||+.||+... .+++||..+++..++ ..+++|..|| .++|++... ..+|+|+
T Consensus 84 ~~-~~~~lVaHNa~FD~~fL~~~~~r~~~~~~~~~~~~dtl~l~~~~~~~~~~~~~~L~~l~-~~~gl~~~~-~~~H~Al 160 (217)
T TIGR00573 84 YI-RGAELVIHNASFDVGFLNYEFSKLYKVEPKTNDVIDTTDTLQYARPEFPGKRNTLDALC-KRYEITNSH-RALHGAL 160 (217)
T ss_pred Hh-CCCEEEEeccHHHHHHHHHHHHHhcCCCCCccceecHHHHHHHHHHhCCCCCCCHHHHH-HHcCCCCCC-cccCCHH
Confidence 99 889999999999999998642 136899888887655 3578999999 777988642 2489999
Q ss_pred HHHHHHHHHHHHHHHhccc
Q 017922 146 DDASAAMKLVLAIIERRVD 164 (364)
Q Consensus 146 ~DA~Ata~L~~~~le~g~~ 164 (364)
.||++|++||..++.+..+
T Consensus 161 ~DA~~ta~l~~~l~~~~~~ 179 (217)
T TIGR00573 161 ADAFILAKLYLVMTGKQTK 179 (217)
T ss_pred HHHHHHHHHHHHHHhcchh
Confidence 9999999999998876543
No 20
>PRK07983 exodeoxyribonuclease X; Provisional
Probab=99.96 E-value=4.5e-28 Score=226.55 Aligned_cols=147 Identities=18% Similarity=0.196 Sum_probs=128.4
Q ss_pred EEEEEEeccCCCCCcccEEEEEEEEc-CCcEE--EEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhcC
Q 017922 6 MYAVDCEMVLCEDGSEGLVRLCVVDR-NLKVT--IDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLSN 82 (364)
Q Consensus 6 ~ValD~ETTGl~~g~~~Ii~V~vVd~-~G~vi--~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~~ 82 (364)
+++||+||||+++ .|++|++|+. +|.++ |++||+|+.+|+..++.+||||++||+++| +|.++++. |+ +
T Consensus 2 ~~vlD~ETTGl~~---~IieIg~v~v~~~~i~~~~~~lv~P~~~i~~~~~~ihgIt~e~v~~ap-~~~ev~~~---~~-~ 73 (219)
T PRK07983 2 LRVIDTETCGLQG---GIVEIASVDVIDGKIVNPMSHLVRPDRPISPQAMAIHRITEAMVADKP-WIEDVIPH---YY-G 73 (219)
T ss_pred eEEEEEECCCCCC---CCEEEEEEEEECCEEEEEEEEEECcCCCCCHHHhhcCCCCHHHHcCCC-CHHHHHHH---Hc-C
Confidence 8999999999974 3999999876 56654 889999999999999999999999999999 99999876 56 8
Q ss_pred CCEEEEechhhHHHHHcccCCCccchHHHhhhhcCCCCccHHHHHHHHhCCccC--CCCCCCChHHHHHHHHHHHHHHHH
Q 017922 83 GTILVGHSLNNDLEVLKLDHPRVIDTSLIFKYVDEYRRPSLYNLCKSVLGYEIR--KKGTPHNCLDDASAAMKLVLAIIE 160 (364)
Q Consensus 83 ~~iLVGHn~~fDl~fL~~~~~~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~--~~~~~H~Al~DA~Ata~L~~~~le 160 (364)
+.+|||||+.||++||......+|||..++|.++|...++|..|| .++|++.. ....+|+|+.||.+|++||.++++
T Consensus 74 ~~~lVaHNa~FD~~~L~~~~~~~idTl~lar~l~p~~~~~l~~L~-~~~~l~~~~~~~~~aHrAl~Da~ata~ll~~l~~ 152 (219)
T PRK07983 74 SEWYVAHNASFDRRVLPEMPGEWICTMKLARRLWPGIKYSNMALY-KSRKLNVQTPPGLHHHRALYDCYITAALLIDIMN 152 (219)
T ss_pred CCEEEEeCcHhhHHHHhCcCCCcEeHHHHHHHHccCCCCCHHHHH-HHcCCCCCCCCCCCCCcHHHHHHHHHHHHHHHHH
Confidence 899999999999999987666799999999999884459999999 77888652 112489999999999999999886
Q ss_pred h
Q 017922 161 R 161 (364)
Q Consensus 161 ~ 161 (364)
.
T Consensus 153 ~ 153 (219)
T PRK07983 153 T 153 (219)
T ss_pred H
Confidence 4
No 21
>PRK07942 DNA polymerase III subunit epsilon; Provisional
Probab=99.96 E-value=2.9e-28 Score=229.32 Aligned_cols=157 Identities=24% Similarity=0.277 Sum_probs=133.0
Q ss_pred CCcEEEEEEeccCCCCCcccEEEEEEEEcC--CcEE--EEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHH
Q 017922 3 SNIMYAVDCEMVLCEDGSEGLVRLCVVDRN--LKVT--IDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKK 78 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~~Ii~V~vVd~~--G~vi--~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~ 78 (364)
..+||+||+||||+++..++|++|++|..+ |.++ +++||+|..+||++++.+||||++|+.+.+.++++++.+|..
T Consensus 5 ~~~~vv~D~ETTGl~p~~d~Iieig~v~v~~~g~~~~~~~~lv~P~~~i~~~a~~IhGIt~e~l~~~g~~~~~vl~e~~~ 84 (232)
T PRK07942 5 PGPLAAFDLETTGVDPETARIVTAALVVVDADGEVVESREWLADPGVEIPEEASAVHGITTEYARAHGRPAAEVLAEIAD 84 (232)
T ss_pred cCcEEEEEeccCCCCCCCCeeEEEEEEEEeCCCccccceEEEECCCCCCCHHHHHHhCCCHHHHHhhCCCHHHHHHHHHH
Confidence 468999999999999888899999998764 7654 788999999999999999999999998744478888888877
Q ss_pred hh----cCCCEEEEechhhHHHHHcccC----------CCccchHHHhhhhcC--CCCccHHHHHHHHhCCccCCCCCCC
Q 017922 79 LL----SNGTILVGHSLNNDLEVLKLDH----------PRVIDTSLIFKYVDE--YRRPSLYNLCKSVLGYEIRKKGTPH 142 (364)
Q Consensus 79 fl----~~~~iLVGHn~~fDl~fL~~~~----------~~vIDT~~L~r~~~~--~~~~sL~~L~k~~Lgi~i~~~~~~H 142 (364)
++ .++.+|||||+.||++||+... ..++||..|.+...+ ..+++|.+|| .+||++..+ +|
T Consensus 85 ~l~~~~~~~~~lVahNa~FD~~fL~~~~~r~~~~~~~~~~~iDt~~l~~~~~~~~~~~~~L~~l~-~~~gi~~~~---aH 160 (232)
T PRK07942 85 ALREAWARGVPVVVFNAPYDLTVLDRELRRHGLPSLVPGPVIDPYVIDKAVDRYRKGKRTLTALC-EHYGVRLDN---AH 160 (232)
T ss_pred HHHHHhhcCCEEEEeCcHhhHHHHHHHHHHcCCCCccCCcEeeHHHHHhhhhcccCCCCCHHHHH-HHcCCCCCC---CC
Confidence 66 3688999999999999998632 137999999987655 3578999999 778999763 89
Q ss_pred ChHHHHHHHHHHHHHHHHhcc
Q 017922 143 NCLDDASAAMKLVLAIIERRV 163 (364)
Q Consensus 143 ~Al~DA~Ata~L~~~~le~g~ 163 (364)
+|++||.||++||+.++++-+
T Consensus 161 ~Al~Da~ata~l~~~l~~~~~ 181 (232)
T PRK07942 161 EATADALAAARVAWALARRFP 181 (232)
T ss_pred ChHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999886544
No 22
>PRK09145 DNA polymerase III subunit epsilon; Validated
Probab=99.96 E-value=6.5e-28 Score=221.62 Aligned_cols=152 Identities=20% Similarity=0.258 Sum_probs=130.6
Q ss_pred CCcEEEEEEeccCCCCCcccEEEEEEEEcCCc-E----EEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHH
Q 017922 3 SNIMYAVDCEMVLCEDGSEGLVRLCVVDRNLK-V----TIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMK 77 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~~Ii~V~vVd~~G~-v----i~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~ 77 (364)
+..||+||+||||+++..++|++|++|..++. + .|+.||+|..+++++++.+||||++||.++| ++.+|+++|.
T Consensus 28 ~~~~vviD~ETTGl~~~~d~IieIgaV~~~~~~~~~~~~f~~~i~p~~~i~~~~~~ihGIt~~~l~~~~-~~~~vl~~~~ 106 (202)
T PRK09145 28 PDEWVALDCETTGLDPRRAEIVSIAAVKIRGNRILTSERLELLVRPPQSLSAESIKIHRLRHQDLEDGL-SEEEALRQLL 106 (202)
T ss_pred CCCEEEEEeECCCCCCCCCceEEEEEEEEECCEEeecCceEEEECCCCCCCHhHhhhcCcCHHHHhcCC-CHHHHHHHHH
Confidence 35899999999999987778999999987543 2 3789999999999999999999999999999 9999999999
Q ss_pred HhhcCCCEEEEechhhHHHHHcccC---------CCccchHHHhhhh----cC--CCCccHHHHHHHHhCCccCCCCCCC
Q 017922 78 KLLSNGTILVGHSLNNDLEVLKLDH---------PRVIDTSLIFKYV----DE--YRRPSLYNLCKSVLGYEIRKKGTPH 142 (364)
Q Consensus 78 ~fl~~~~iLVGHn~~fDl~fL~~~~---------~~vIDT~~L~r~~----~~--~~~~sL~~L~k~~Lgi~i~~~~~~H 142 (364)
+|+ ++.++||||+.||+.||+... .+++|++.++... .+ ..+++|.+|| +++|++.. .+|
T Consensus 107 ~~i-~~~~lv~hn~~fD~~fL~~~~~~~~~~~~~~~~id~~~l~~~~~~~~~~~~~~~~~L~~l~-~~~gi~~~---~~H 181 (202)
T PRK09145 107 AFI-GNRPLVGYYLEFDVAMLNRYVRPLLGIPLPNPLIEVSALYYDKKERHLPDAYIDLRFDAIL-KHLDLPVL---GRH 181 (202)
T ss_pred HHH-cCCeEEEeCHHHHHHHHHHHHHHhcCCCCCCCeeeHHHHHHHHhhccCCCcccCCCHHHHH-HHcCCCCC---CCC
Confidence 999 899999999999999997531 2379998876432 12 3468999999 77899875 379
Q ss_pred ChHHHHHHHHHHHHHHHH
Q 017922 143 NCLDDASAAMKLVLAIIE 160 (364)
Q Consensus 143 ~Al~DA~Ata~L~~~~le 160 (364)
+|++||++|++||+++++
T Consensus 182 ~Al~DA~ata~l~~~l~~ 199 (202)
T PRK09145 182 DALNDAIMAALIFLRLRK 199 (202)
T ss_pred CcHHHHHHHHHHHHHHHh
Confidence 999999999999998764
No 23
>smart00479 EXOIII exonuclease domain in DNA-polymerase alpha and epsilon chain, ribonuclease T and other exonucleases.
Probab=99.96 E-value=7.3e-28 Score=211.22 Aligned_cols=153 Identities=35% Similarity=0.560 Sum_probs=134.7
Q ss_pred cEEEEEEeccCCCCCcccEEEEEEEEcCC---cEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhc
Q 017922 5 IMYAVDCEMVLCEDGSEGLVRLCVVDRNL---KVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLS 81 (364)
Q Consensus 5 ~~ValD~ETTGl~~g~~~Ii~V~vVd~~G---~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~ 81 (364)
.||+|||||||++++..+|++|++|..++ ...|+.||+|..+|+++++.+||||++++.+++ ++.+|+.+|.+|+
T Consensus 1 ~~v~~D~Ettg~~~~~~~Iieig~v~~~~~~~~~~f~~~v~p~~~i~~~~~~~~Git~~~l~~~~-~~~~~~~~~~~~l- 78 (169)
T smart00479 1 TLVVIDCETTGLDPGKDEIIEIAAVDVDGGRIIVVFDTYVKPDRPITDYATEIHGITPEMLDDAP-TFEEVLEELLEFL- 78 (169)
T ss_pred CEEEEEeeCCCCCCCCCeEEEEEEEEEECCEeEEEEEEEECCCCCCCHHHHHHhCCCHHHHhCCC-CHHHHHHHHHHHh-
Confidence 38999999999998877899999998754 345999999999999999999999999999998 9999999999999
Q ss_pred CCCEEEEech-hhHHHHHcccCC----------CccchHHHhhhhcCCCCccHHHHHHHHhCCccCCCCCCCChHHHHHH
Q 017922 82 NGTILVGHSL-NNDLEVLKLDHP----------RVIDTSLIFKYVDEYRRPSLYNLCKSVLGYEIRKKGTPHNCLDDASA 150 (364)
Q Consensus 82 ~~~iLVGHn~-~fDl~fL~~~~~----------~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~A 150 (364)
++.++||||. .||+.+|+..+. +++||..+++...+..+++|..|| .++|++... ..|+|++||++
T Consensus 79 ~~~~~v~~n~~~fD~~~L~~~~~~~~~~~~~~~~~iD~~~~~~~~~~~~~~~L~~l~-~~~~~~~~~--~~H~A~~Da~~ 155 (169)
T smart00479 79 KGKILVAGNALNFDLRFLKLEHPRLGIKDPPKNPVIDTLKLARALNPGRKYSLKKLA-ERLGLEVIG--RAHRALDDARA 155 (169)
T ss_pred cCCEEEEeCCHHHhHHHHHHHHHHhCCCCCcCCCeeEHHHHHHHHCCCCCCCHHHHH-HHCCCCCCC--CCcCcHHHHHH
Confidence 7888888988 999999987321 279999999988875599999999 777988763 25999999999
Q ss_pred HHHHHHHHHHhc
Q 017922 151 AMKLVLAIIERR 162 (364)
Q Consensus 151 ta~L~~~~le~g 162 (364)
|++||.++++..
T Consensus 156 t~~l~~~~~~~~ 167 (169)
T smart00479 156 TAKLFKKLVERL 167 (169)
T ss_pred HHHHHHHHHHHh
Confidence 999999887654
No 24
>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=99.96 E-value=4.5e-28 Score=211.18 Aligned_cols=142 Identities=23% Similarity=0.378 Sum_probs=126.0
Q ss_pred EEEEEEeccCCCCCcccEEEEEEEEc-CCcE--EEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhcC
Q 017922 6 MYAVDCEMVLCEDGSEGLVRLCVVDR-NLKV--TIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLSN 82 (364)
Q Consensus 6 ~ValD~ETTGl~~g~~~Ii~V~vVd~-~G~v--i~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~~ 82 (364)
||+|||||||.. .++|++|++|.. .|++ .|+.||+|+.+++++++.+||||+++|.+++ ++.+++++|.+|+ +
T Consensus 1 ~v~~D~Ettg~~--~~~ii~ig~v~~~~~~~~~~~~~~i~p~~~~~~~~~~i~GIt~e~l~~~~-~~~~v~~~l~~~l-~ 76 (156)
T cd06130 1 FVAIDFETANAD--RASACSIGLVKVRDGQIVDTFYTLIRPPTRFDPFNIAIHGITPEDVADAP-TFPEVWPEIKPFL-G 76 (156)
T ss_pred CEEEEEeCCCCC--CCceEEEEEEEEECCEEEEEEEEEeCcCCCCChhhccccCcCHHHHhcCC-CHHHHHHHHHHHh-C
Confidence 699999999865 347999999987 4544 3789999999999999999999999999999 8999999999999 7
Q ss_pred CCEEEEechhhHHHHHccc-------C--CCccchHHHhhhhcC-CCCccHHHHHHHHhCCccCCCCCCCChHHHHHHHH
Q 017922 83 GTILVGHSLNNDLEVLKLD-------H--PRVIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDASAAM 152 (364)
Q Consensus 83 ~~iLVGHn~~fDl~fL~~~-------~--~~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~Ata 152 (364)
+.++||||+.||+.||+.. . ..++||..+++..++ ..+++|..|| +++|++.. +|+|++||++|+
T Consensus 77 ~~~lv~hn~~fD~~~l~~~~~~~g~~~~~~~~idt~~~~~~~~~~~~~~~L~~l~-~~~g~~~~----~H~Al~Da~~ta 151 (156)
T cd06130 77 GSLVVAHNASFDRSVLRAALEAYGLPPPPYQYLCTVRLARRVWPLLPNHKLNTVA-EHLGIELN----HHDALEDARACA 151 (156)
T ss_pred CCEEEEeChHHhHHHHHHHHHHcCCCCCCCCEEEHHHHHHHHhccCCCCCHHHHH-HHcCCCcc----CcCchHHHHHHH
Confidence 8999999999999999753 1 237999999999887 6889999999 67899875 699999999999
Q ss_pred HHHH
Q 017922 153 KLVL 156 (364)
Q Consensus 153 ~L~~ 156 (364)
+||+
T Consensus 152 ~l~~ 155 (156)
T cd06130 152 EILL 155 (156)
T ss_pred HHHh
Confidence 9986
No 25
>PRK07748 sporulation inhibitor KapD; Provisional
Probab=99.95 E-value=8e-28 Score=222.13 Aligned_cols=157 Identities=20% Similarity=0.263 Sum_probs=132.3
Q ss_pred CCCCcEEEEEEeccCCCCC------cccEEEEEEEEc-CCcE--EEEEEEcCCC--cccccccccCCCChhhhcCCCCCH
Q 017922 1 MTSNIMYAVDCEMVLCEDG------SEGLVRLCVVDR-NLKV--TIDELVKPEK--AVADYRSEITGLTADDLVGVTCSL 69 (364)
Q Consensus 1 m~~~~~ValD~ETTGl~~g------~~~Ii~V~vVd~-~G~v--i~d~lVkP~~--~I~d~~t~itGIT~e~L~~ap~~~ 69 (364)
|+...||+||+||||+++. .++|++|++|.. +|.+ .|++||+|.. +|+++++.+||||++||.++| +|
T Consensus 1 ~~~~~~vvlD~EtTg~~~~~~~~~~~~eIIeIGaV~v~~~~i~~~f~~lV~P~~~~~i~~~~~~ltGIt~~~l~~ap-~~ 79 (207)
T PRK07748 1 MDEQQFLFLDFEFTMPQHKKKPKGFFPEIIEVGLVSVVGCEVEDTFSSYVKPKTFPSLTERCKSFLGITQEDVDKGI-SF 79 (207)
T ss_pred CCcceEEEEEeecCCcCCCCCCCCCCCceEEEeEEEEecCcChhhhcceECCCccCccChhhhhhcCcCHHHHccCC-CH
Confidence 6778999999999997643 257999999987 4543 3999999987 799999999999999999999 99
Q ss_pred HHHHHHHHHhhcCC-CEEEEechhhHHHHHcccC----------CCccchHHHhhhhcC-CCCccHHHHHHHHhCCccCC
Q 017922 70 AEIQKRMKKLLSNG-TILVGHSLNNDLEVLKLDH----------PRVIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRK 137 (364)
Q Consensus 70 ~eV~~el~~fl~~~-~iLVGHn~~fDl~fL~~~~----------~~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~ 137 (364)
.+|+++|.+|+ ++ ..+|+||..||++||+... ..++|+..+++..++ ...++|.++| .++|++..
T Consensus 80 ~evl~~f~~~~-~~~~~~iv~~~~fD~~fL~~~~~~~~~~~~~~~~~~dl~~~~~~~~~~~~~~~L~~~~-~~~gi~~~- 156 (207)
T PRK07748 80 EELVEKLAEYD-KRCKPTIVTWGNMDMKVLKHNCEKAGVPFPFKGQCRDLSLEYKKFFGERNQTGLWKAI-EEYGKEGT- 156 (207)
T ss_pred HHHHHHHHHHh-CcCCeEEEEECHHHHHHHHHHHHHcCCCCcccccceeHHHHHHHHhCcCCCCCHHHHH-HHcCCCCC-
Confidence 99999999999 55 5566677899999997631 237889988887776 5679999999 77899964
Q ss_pred CCCCCChHHHHHHHHHHHHHHHHhc
Q 017922 138 KGTPHNCLDDASAAMKLVLAIIERR 162 (364)
Q Consensus 138 ~~~~H~Al~DA~Ata~L~~~~le~g 162 (364)
+.+|+|++||++|++||.++++++
T Consensus 157 -~~~H~Al~DA~~ta~l~~~l~~~~ 180 (207)
T PRK07748 157 -GKHHCALDDAMTTYNIFKLVEKDK 180 (207)
T ss_pred -CCCcChHHHHHHHHHHHHHHHhCc
Confidence 247999999999999999988765
No 26
>cd06136 TREX1_2 DEDDh 3'-5' exonuclease domain of three prime repair exonuclease (TREX)1, TREX2, and similar proteins. Three prime repair exonuclease (TREX)1 and TREX2 are closely related DEDDh-type DnaQ-like 3'-5' exonucleases. They contain three conserved sequence motifs known as ExoI, II, and III, with a specific Hx(4)D conserved pattern at ExoIII. These motifs contain four conserved acidic residues that participate in coordination of divalent metal ions required for catalysis. Both proteins play a role in the metabolism and clearance of DNA. TREX1 is the major 3'-5' exonuclease activity detected in mammalian cells. Mutations in the human TREX1 gene can cause Aicardi-Goutieres syndrome (AGS), which is characterized by perturbed innate immunity and presents itself as a severe neurological disease. TREX1 degrades ssDNA generated by aberrant replication intermediates to prevent checkpoint activation and autoimmune disease. There are distinct structural differences between TREX1 and TRE
Probab=99.95 E-value=2e-28 Score=221.12 Aligned_cols=144 Identities=26% Similarity=0.337 Sum_probs=120.3
Q ss_pred EEEEEEeccCCC-CCcccEEEEEEEEcCCc--------------E--EEEEEEcCCCcccccccccCCCChhhhcCCCCC
Q 017922 6 MYAVDCEMVLCE-DGSEGLVRLCVVDRNLK--------------V--TIDELVKPEKAVADYRSEITGLTADDLVGVTCS 68 (364)
Q Consensus 6 ~ValD~ETTGl~-~g~~~Ii~V~vVd~~G~--------------v--i~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~ 68 (364)
||+||+||||++ +..++|++|++|...+. + .|++||+|+++||+.++.+||||++|+.++| +
T Consensus 1 ~vv~D~ETTGl~~~~~d~Iiei~av~v~~~~~~~~~~~~~~~~~~~~~~~~lv~P~~~I~~~a~~IhGIt~e~l~~~~-~ 79 (177)
T cd06136 1 FVFLDLETTGLPKHNRPEITELCLVAVHRDHLLNTSRDKPALPRVLDKLSLCFNPGRAISPGASEITGLSNDLLEHKA-P 79 (177)
T ss_pred CeEEeeecCCCCCCCCCceEEEEEEEEecccccccccccccccceeeeeeEEeCCCCcCChhHHHHhCcCHHHHhcCC-C
Confidence 689999999999 56778999999986321 1 3789999999999999999999999999999 7
Q ss_pred HH-HHHHHHHHhh---cCCCEEEEech-hhHHHHHcccC----------CCccchHHHhhhhcCCCCccHHHHHHHHhCC
Q 017922 69 LA-EIQKRMKKLL---SNGTILVGHSL-NNDLEVLKLDH----------PRVIDTSLIFKYVDEYRRPSLYNLCKSVLGY 133 (364)
Q Consensus 69 ~~-eV~~el~~fl---~~~~iLVGHn~-~fDl~fL~~~~----------~~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi 133 (364)
+. ++++.|.+|+ .++.+|||||+ .||++||+... ..++||+.+++.+.+ +|.+||+.+||+
T Consensus 80 ~~~~~~~~l~~f~~~~~~~~~lVaHNa~~FD~~fL~~~~~r~~~~~~~~~~~iDtl~l~r~~~~----~L~~l~~~~~~~ 155 (177)
T cd06136 80 FDSDTANLIKLFLRRQPKPICLVAHNGNRFDFPILRSELERLGTKLPDDILCVDSLPAFRELDQ----SLGSLYKRLFGQ 155 (177)
T ss_pred ccHHHHHHHHHHHHhcCCCCEEEEcCCcccCHHHHHHHHHHcCCCCCCCCEEEEeHHHHhhhHh----hHHHHHHHHhCC
Confidence 76 3566666665 23569999998 89999997632 135899999998764 999999777899
Q ss_pred ccCCCCCCCChHHHHHHHHHHHHH
Q 017922 134 EIRKKGTPHNCLDDASAAMKLVLA 157 (364)
Q Consensus 134 ~i~~~~~~H~Al~DA~Ata~L~~~ 157 (364)
+..+ +|+|++||.||+++|++
T Consensus 156 ~~~~---~H~A~~Da~at~~v~~~ 176 (177)
T cd06136 156 EPKN---SHTAEGDVLALLKCALH 176 (177)
T ss_pred Cccc---ccchHHHHHHHHHHHhh
Confidence 9764 79999999999999975
No 27
>PRK06195 DNA polymerase III subunit epsilon; Validated
Probab=99.95 E-value=1.1e-27 Score=233.98 Aligned_cols=149 Identities=21% Similarity=0.298 Sum_probs=130.9
Q ss_pred cEEEEEEeccCCCCCcccEEEEEEEEc-CCcEE--EEEEEcCCC-cccccccccCCCChhhhcCCCCCHHHHHHHHHHhh
Q 017922 5 IMYAVDCEMVLCEDGSEGLVRLCVVDR-NLKVT--IDELVKPEK-AVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLL 80 (364)
Q Consensus 5 ~~ValD~ETTGl~~g~~~Ii~V~vVd~-~G~vi--~d~lVkP~~-~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl 80 (364)
+||+||+||||.. .++|++|++|.. +|.++ |++||+|.. .+++..+.|||||++||+++| +|.+|+++|.+|+
T Consensus 2 ~~vviD~ETTg~~--~d~IieIgav~v~~g~i~~~f~~lv~P~~~~~~~~~~~IhGIT~e~v~~ap-~f~ev~~~~~~fl 78 (309)
T PRK06195 2 NFVAIDFETANEK--RNSPCSIGIVVVKDGEIVEKVHYLIKPKEMRFMPINIGIHGIRPHMVEDEL-EFDKIWEKIKHYF 78 (309)
T ss_pred cEEEEEEeCCCCC--CCceEEEEEEEEECCEEEEEEEEEECCCCCCCChhheeccCcCHHHHhCCC-CHHHHHHHHHHHh
Confidence 6999999999753 457999999987 56544 889999985 578889999999999999999 9999999999999
Q ss_pred cCCCEEEEechhhHHHHHcccC---------CCccchHHHhhhhcC-CCCccHHHHHHHHhCCccCCCCCCCChHHHHHH
Q 017922 81 SNGTILVGHSLNNDLEVLKLDH---------PRVIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDASA 150 (364)
Q Consensus 81 ~~~~iLVGHn~~fDl~fL~~~~---------~~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~A 150 (364)
++.+|||||+.||++||+... ..++||..+++.+++ ..+++|..|| .+||++.. +|+|++||++
T Consensus 79 -~~~~lVaHNa~FD~~fL~~~~~r~~~~~~~~~~idT~~lar~l~~~~~~~~L~~L~-~~~gi~~~----~H~Al~DA~a 152 (309)
T PRK06195 79 -NNNLVIAHNASFDISVLRKTLELYNIPMPSFEYICTMKLAKNFYSNIDNARLNTVN-NFLGYEFK----HHDALADAMA 152 (309)
T ss_pred -CCCEEEEECcHHHHHHHHHHHHHhCCCCCCCCEEEHHHHHHHHcCCCCcCCHHHHH-HHcCCCCc----ccCCHHHHHH
Confidence 899999999999999997631 247999999999887 6789999999 77898853 7999999999
Q ss_pred HHHHHHHHHHhc
Q 017922 151 AMKLVLAIIERR 162 (364)
Q Consensus 151 ta~L~~~~le~g 162 (364)
|++||+.++++.
T Consensus 153 ta~l~~~l~~~~ 164 (309)
T PRK06195 153 CSNILLNISKEL 164 (309)
T ss_pred HHHHHHHHHHHh
Confidence 999999988754
No 28
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=99.95 E-value=4.8e-28 Score=261.07 Aligned_cols=160 Identities=21% Similarity=0.368 Sum_probs=146.3
Q ss_pred CCcEEEEEEeccCCCCCcccEEEEEEEEc-CCcEE--EEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHh
Q 017922 3 SNIMYAVDCEMVLCEDGSEGLVRLCVVDR-NLKVT--IDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKL 79 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~~Ii~V~vVd~-~G~vi--~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~f 79 (364)
...||+||+||||+++..++|+++++|.. +|+++ |+.|++|.+|++...|.+||||++||++++ ++.+|+.+|.+|
T Consensus 420 datyVVfDiETTGLs~~~d~iIE~aAvKikng~iId~f~~Fi~P~~pl~~~~telTgITdeml~~a~-~i~~vL~kf~~~ 498 (1444)
T COG2176 420 DATYVVFDIETTGLSPVYDEIIEIAAVKIKNGRIIDKFQFFIKPGRPLSATITELTGITDEMLENAP-EIEEVLEKFREF 498 (1444)
T ss_pred cccEEEEEeecCCcCcccchhhhheeeeeeCCcchHHHHHhcCCCCcCchhhhhccccCHHHHcCCc-cHHHHHHHHHHH
Confidence 45799999999999999999999999987 77766 888999999999999999999999999999 999999999999
Q ss_pred hcCCCEEEEechhhHHHHHcccC---------CCccchHHHhhhhcC-CCCccHHHHHHHHhCCccCCCCCCCChHHHHH
Q 017922 80 LSNGTILVGHSLNNDLEVLKLDH---------PRVIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDAS 149 (364)
Q Consensus 80 l~~~~iLVGHn~~fDl~fL~~~~---------~~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~ 149 (364)
+ +++||||||++||++||+... ..+|||+.|+|.++| .++|+|..|| .-||+.+.. +|||..||.
T Consensus 499 ~-~d~IlVAHNasFD~gFl~~~~~k~~~~~~~~pvIDTL~lar~L~P~~ksh~Lg~l~-kk~~v~le~---hHRA~yDae 573 (1444)
T COG2176 499 I-GDSILVAHNASFDMGFLNTNYEKYGLEPLTNPVIDTLELARALNPEFKSHRLGTLC-KKLGVELER---HHRADYDAE 573 (1444)
T ss_pred h-cCcEEEeccCccchhHHHHHHHHhCCccccCchhhHHHHHHHhChhhhhcchHHHH-HHhCccHHH---hhhhhhhHH
Confidence 9 999999999999999999742 248999999999998 9999999999 556999964 899999999
Q ss_pred HHHHHHHHHHHhcccCCCC
Q 017922 150 AAMKLVLAIIERRVDNAVP 168 (364)
Q Consensus 150 Ata~L~~~~le~g~~~~i~ 168 (364)
||+.||..+++.-...++.
T Consensus 574 at~~vf~~f~~~~ke~Gi~ 592 (1444)
T COG2176 574 ATAKVFFVFLKDLKEKGIT 592 (1444)
T ss_pred HHHHHHHHHHHHHHHhchh
Confidence 9999999999877666654
No 29
>TIGR01298 RNaseT ribonuclease T. in gamma-subdivision Proteobacteria such as Escherichia coli and Xylella fastidiosa. Ribonuclease T is homologous to the DNA polymerase III alpha chain. It can liberate AMP from the common C-C-A terminus of uncharged tRNA. It appears also to be involved in RNA maturation. It also acts as a 3' to 5' single-strand DNA-specific exonuclease; it is distinctive for its ability to remove residues near a double-stranded stem. Ribonuclease T is a high copy suppressor in E. coli of a uv-repair defect caused by deletion of three other single-stranded DNA exonucleases.
Probab=99.95 E-value=7e-27 Score=215.29 Aligned_cols=155 Identities=24% Similarity=0.318 Sum_probs=128.3
Q ss_pred CCcEEEEEEeccCCCCCcccEEEEEEEEc----CCcE----EEEEEEcC--CCcccccccccCCCChh-hhcCCCCCHHH
Q 017922 3 SNIMYAVDCEMVLCEDGSEGLVRLCVVDR----NLKV----TIDELVKP--EKAVADYRSEITGLTAD-DLVGVTCSLAE 71 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~~Ii~V~vVd~----~G~v----i~d~lVkP--~~~I~d~~t~itGIT~e-~L~~ap~~~~e 71 (364)
.-.+|+||+||||+++..++|++|++|.. .|.+ .|+++|+| ..+|+..++.+||||++ |+.+++ ++++
T Consensus 7 ~~~~vv~D~ETTGl~~~~d~IieIgav~v~~~~~g~i~~~~~f~~~v~p~p~~~i~~~a~~ihGIt~~~~~~~~~-~~~~ 85 (200)
T TIGR01298 7 GYLPVVVDVETGGFNAKTDALLEIAAITLKMDEQGWLFPDTTLHFHVEPFEGANIQPEALEFTGIDLDHPLRGAV-SEYE 85 (200)
T ss_pred CCeeEEEEeeCCCCCCCCCeEEEEEEEEEEEcCCCcEeecceeEEEEcCCCCCCCCHHHHHccCCChhhhhhcCc-chHH
Confidence 34689999999999987778999999864 3443 38899997 47999999999999976 699998 8888
Q ss_pred HHHHHHHhh--------cCCCEEEEechhhHHHHHcccC--------C----CccchHHHhhhhcCCCCccHHHHHHHHh
Q 017922 72 IQKRMKKLL--------SNGTILVGHSLNNDLEVLKLDH--------P----RVIDTSLIFKYVDEYRRPSLYNLCKSVL 131 (364)
Q Consensus 72 V~~el~~fl--------~~~~iLVGHn~~fDl~fL~~~~--------~----~vIDT~~L~r~~~~~~~~sL~~L~k~~L 131 (364)
++.++..++ .++.+|||||+.||++||+... + .++||..|++..++ .++|..|| +++
T Consensus 86 ~~~~~~~~l~~~~~~~~~~~~~lVaHNa~FD~~fL~~~~~r~~~~~~~~~~~~~lDTl~lar~~~~--~~~L~~l~-~~~ 162 (200)
T TIGR01298 86 ALHEIFKVVRKAMKASGCQRAILVGHNANFDLGFLNAAVERTSLKRNPFHPFSTFDTATLAGLAYG--QTVLAKAC-QAA 162 (200)
T ss_pred HHHHHHHHHHHHHHhcccCCCEEEEECchhhHHHHHHHHHHhCCCCCCCCCCcEEEHHHHHHHHcC--cccHHHHH-HHc
Confidence 888877776 2678999999999999998631 1 27999999998764 46899999 678
Q ss_pred CCccCCCCCCCChHHHHHHHHHHHHHHHHhc
Q 017922 132 GYEIRKKGTPHNCLDDASAAMKLVLAIIERR 162 (364)
Q Consensus 132 gi~i~~~~~~H~Al~DA~Ata~L~~~~le~g 162 (364)
|++... ..+|+|++||.+|++||..++.+.
T Consensus 163 gi~~~~-~~~H~Al~Da~ata~lf~~l~~~~ 192 (200)
T TIGR01298 163 GXDFDS-TQAHSALYDTEKTAELFCEIVNRW 192 (200)
T ss_pred CCCccc-cchhhhHHhHHHHHHHHHHHHHHH
Confidence 998642 248999999999999999988654
No 30
>PRK07883 hypothetical protein; Validated
Probab=99.95 E-value=1.9e-26 Score=241.28 Aligned_cols=159 Identities=23% Similarity=0.332 Sum_probs=141.2
Q ss_pred CCcEEEEEEeccCCCCCcccEEEEEEEEc-CCcEE--EEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHh
Q 017922 3 SNIMYAVDCEMVLCEDGSEGLVRLCVVDR-NLKVT--IDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKL 79 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~~Ii~V~vVd~-~G~vi--~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~f 79 (364)
...||+||+||||+++..++|++|++|.. .|.++ |++||+|..+|+++++.+||||++||.++| ++.+++.+|.+|
T Consensus 14 ~~~~Vv~D~ETTGl~p~~~~IIEIgaV~v~~g~iv~~f~~lV~P~~~i~~~~~~itGIt~e~l~~ap-~~~evl~~f~~f 92 (557)
T PRK07883 14 DVTFVVVDLETTGGSPAGDAITEIGAVKVRGGEVLGEFATLVNPGRPIPPFITVLTGITTAMVAGAP-PIEEVLPAFLEF 92 (557)
T ss_pred CCCEEEEEEecCCCCCCCCeEEEEEEEEEECCEEEEEEEEEECCCCCCChhHHhhcCCCHHHHhCCC-CHHHHHHHHHHH
Confidence 46899999999999988789999999987 55554 889999999999999999999999999999 999999999999
Q ss_pred hcCCCEEEEechhhHHHHHccc-------C--CCccchHHHhhhhcC---CCCccHHHHHHHHhCCccCCCCCCCChHHH
Q 017922 80 LSNGTILVGHSLNNDLEVLKLD-------H--PRVIDTSLIFKYVDE---YRRPSLYNLCKSVLGYEIRKKGTPHNCLDD 147 (364)
Q Consensus 80 l~~~~iLVGHn~~fDl~fL~~~-------~--~~vIDT~~L~r~~~~---~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~D 147 (364)
+ ++.++||||+.||+.||+.. . ..++||..+++.+.+ ..+++|.+|| .++|++..+ +|+|++|
T Consensus 93 l-~~~~lVaHNa~FD~~fL~~~~~r~g~~~~~~~~iDTl~lar~l~~~~~~~~~~L~~L~-~~~gi~~~~---~H~Al~D 167 (557)
T PRK07883 93 A-RGAVLVAHNAPFDIGFLRAAAARCGYPWPGPPVLCTVRLARRVLPRDEAPNVRLSTLA-RLFGATTTP---THRALDD 167 (557)
T ss_pred h-cCCEEEEeCcHHHHHHHHHHHHHcCCCCCCCCcEecHHHHHHhcccCCCCCCCHHHHH-HHCCcccCC---CCCHHHH
Confidence 9 88999999999999999863 1 247999999998765 5789999999 788999763 7999999
Q ss_pred HHHHHHHHHHHHHhcccCCC
Q 017922 148 ASAAMKLVLAIIERRVDNAV 167 (364)
Q Consensus 148 A~Ata~L~~~~le~g~~~~i 167 (364)
|.+|++||..+++.....++
T Consensus 168 A~ata~l~~~l~~~~~~~~~ 187 (557)
T PRK07883 168 ARATVDVLHGLIERLGNLGV 187 (557)
T ss_pred HHHHHHHHHHHHHHHHhcCC
Confidence 99999999999877655444
No 31
>PRK07246 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.95 E-value=9.9e-27 Score=252.82 Aligned_cols=154 Identities=18% Similarity=0.277 Sum_probs=137.4
Q ss_pred CCcEEEEEEeccCCCCCcccEEEEEEEEc-CCcEE--EEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHh
Q 017922 3 SNIMYAVDCEMVLCEDGSEGLVRLCVVDR-NLKVT--IDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKL 79 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~~Ii~V~vVd~-~G~vi--~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~f 79 (364)
...||+||+||||+++. ++|++|++|.. +|.++ |++||+|..+||++++.+||||++||+++| +|++|+++|.+|
T Consensus 6 ~~~~vvvD~ETTGl~~~-d~IIeIgaV~v~~g~i~~~f~~lv~P~~~i~~~~~~ltGIt~e~l~~ap-~~~ev~~~~~~~ 83 (820)
T PRK07246 6 LRKYAVVDLEATGAGPN-ASIIQVGIVIIEGGEIIDSYTTDVNPHEPLDEHIKHLTGITDQQLAQAP-DFSQVARHIYDL 83 (820)
T ss_pred CCCEEEEEEecCCcCCC-CeEEEEEEEEEECCEEEEEEEEEeCcCCCCCHhHhhcCCCCHHHHhcCC-CHHHHHHHHHHH
Confidence 46899999999999864 68999999987 55543 888999999999999999999999999999 999999999999
Q ss_pred hcCCCEEEEechhhHHHHHccc-----C---CCccchHHHhhhhcC-CCCccHHHHHHHHhCCccCCCCCCCChHHHHHH
Q 017922 80 LSNGTILVGHSLNNDLEVLKLD-----H---PRVIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDASA 150 (364)
Q Consensus 80 l~~~~iLVGHn~~fDl~fL~~~-----~---~~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~A 150 (364)
+ +++++||||+.||+.||+.. . ..++||..|++..+| ..+|+|.+|| .+||++... +|+|++||++
T Consensus 84 l-~~~~lVaHN~~FD~~fL~~~~~~~g~~~~~~~iDT~~la~~~~p~~~~~~L~~L~-~~lgl~~~~---~H~Al~DA~a 158 (820)
T PRK07246 84 I-EDCIFVAHNVKFDANLLAEALFLEGYELRTPRVDTVELAQVFFPTLEKYSLSHLS-RELNIDLAD---AHTAIADARA 158 (820)
T ss_pred h-CCCEEEEECcHHHHHHHHHHHHHcCCCCCCCceeHHHHHHHHhCCCCCCCHHHHH-HHcCCCCCC---CCCHHHHHHH
Confidence 9 89999999999999999763 1 247999999999988 6789999999 778999753 7999999999
Q ss_pred HHHHHHHHHHhcc
Q 017922 151 AMKLVLAIIERRV 163 (364)
Q Consensus 151 ta~L~~~~le~g~ 163 (364)
|++||..++.+..
T Consensus 159 ta~L~~~l~~~l~ 171 (820)
T PRK07246 159 TAELFLKLLQKIE 171 (820)
T ss_pred HHHHHHHHHHHHh
Confidence 9999999887654
No 32
>cd06134 RNaseT DEDDh 3'-5' exonuclease domain of RNase T. RNase T is a DEDDh-type DnaQ-like 3'-5' exoribonuclease E implicated in the 3' maturation of small stable RNAs and 23srRNA, and in the end turnover of tRNA. It contains three conserved sequence motifs termed ExoI, ExoII and ExoIII, with a specific Hx(4)D conserved pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic residues that serve as ligands for the two metal ions required for catalysis. RNase T is related to the proofreading domain of DNA polymerase III. Despite its important role, RNase T is mainly found only in gammaproteobacteria. It is speculated that it might have originated from DNA polymerase III at the time the gamma division of proteobacteria diverged from other bacteria. RNase T is a homodimer with the catalytic residues of one monomer contacting a large basic patch on the other monomer to form a functional active site.
Probab=99.95 E-value=7.1e-27 Score=213.24 Aligned_cols=153 Identities=22% Similarity=0.264 Sum_probs=122.3
Q ss_pred CcEEEEEEeccCCCCCcccEEEEEEEEc----CCcE----EEEEEEcC--CCcccccccccCCCChhh-hcCCCCCHHHH
Q 017922 4 NIMYAVDCEMVLCEDGSEGLVRLCVVDR----NLKV----TIDELVKP--EKAVADYRSEITGLTADD-LVGVTCSLAEI 72 (364)
Q Consensus 4 ~~~ValD~ETTGl~~g~~~Ii~V~vVd~----~G~v----i~d~lVkP--~~~I~d~~t~itGIT~e~-L~~ap~~~~eV 72 (364)
-.+|+||+||||+++..++|++|++|.. +|.+ .|++||+| +.+|++.++.+||||+++ +.+++ ...++
T Consensus 5 ~~~vv~D~ETTGl~~~~d~Iieigav~v~~~~~~~i~~~~~f~~lv~P~~~~~i~~~~~~ihGIt~~~~~~~~~-~~~~~ 83 (189)
T cd06134 5 FLPVVVDVETGGFNPQTDALLEIAAVTLEMDEQGNLYPDETFHFHILPFEGANLDPAALEFNGIDPFHPFRFAV-DEKEA 83 (189)
T ss_pred ceeEEEEecCCCCCCCCCeEEEEEEEEEEECCCCceeccceEEEEEcCCCCCCCCHHHHhhcCCCchhhhcccc-chHHH
Confidence 3579999999999988788999999975 2432 59999999 579999999999999987 55555 55555
Q ss_pred HHHHHHh----hc----CCCEEEEechhhHHHHHcccC-----------C-CccchHHHhhhhcCCCCccHHHHHHHHhC
Q 017922 73 QKRMKKL----LS----NGTILVGHSLNNDLEVLKLDH-----------P-RVIDTSLIFKYVDEYRRPSLYNLCKSVLG 132 (364)
Q Consensus 73 ~~el~~f----l~----~~~iLVGHn~~fDl~fL~~~~-----------~-~vIDT~~L~r~~~~~~~~sL~~L~k~~Lg 132 (364)
+.++.++ +. ++.+|||||+.||+.||+... + +++||..|++..++ .++|..+| .++|
T Consensus 84 ~~~~~~~l~~~~~~~~~~~~~lVaHna~FD~~fL~~~~~~~~~~~~~~~~~~~lDt~~la~~~~~--~~~L~~l~-~~~g 160 (189)
T cd06134 84 LKEIFKPIRKALKAQGCTRAILVGHNAHFDLGFLNAAVARCKIKRNPFHPFSTFDTATLAGLAYG--QTVLAKAC-QAAG 160 (189)
T ss_pred HHHHHHHHHHHHhhcccCCCeEEEecchhhHHHHHHHHHHhCCCCCCCCCCcEEEHHHHHHHHhC--CCcHHHHH-HHCC
Confidence 5555544 42 378999999999999998631 1 36999999998875 46899999 6779
Q ss_pred CccCCCCCCCChHHHHHHHHHHHHHHHHh
Q 017922 133 YEIRKKGTPHNCLDDASAAMKLVLAIIER 161 (364)
Q Consensus 133 i~i~~~~~~H~Al~DA~Ata~L~~~~le~ 161 (364)
+++.. ..+|+|+.||.+|++||.+++++
T Consensus 161 i~~~~-~~~H~Al~DA~ata~lf~~l~~~ 188 (189)
T cd06134 161 IEFDN-KEAHSALYDTQKTAELFCKIVNR 188 (189)
T ss_pred CCCCC-CCCcChHHHHHHHHHHHHHHHHh
Confidence 98742 24899999999999999988753
No 33
>PRK05168 ribonuclease T; Provisional
Probab=99.94 E-value=1.3e-26 Score=215.19 Aligned_cols=154 Identities=23% Similarity=0.309 Sum_probs=128.8
Q ss_pred CcEEEEEEeccCCCCCcccEEEEEEEEc----CCcE----EEEEEEcC--CCcccccccccCCCChhh-hcCCCCCHHHH
Q 017922 4 NIMYAVDCEMVLCEDGSEGLVRLCVVDR----NLKV----TIDELVKP--EKAVADYRSEITGLTADD-LVGVTCSLAEI 72 (364)
Q Consensus 4 ~~~ValD~ETTGl~~g~~~Ii~V~vVd~----~G~v----i~d~lVkP--~~~I~d~~t~itGIT~e~-L~~ap~~~~eV 72 (364)
..+|+||+||||+++..++|++|++|.. +|.+ .|++||+| ..+|+.+++.+||||+++ +.+++ ++.++
T Consensus 17 ~~~vv~D~ETTGl~~~~d~IieIgaV~v~~d~~g~i~~~~~f~~lv~P~~~~~i~~~~~~ihGIt~e~~~~~~~-~~~~~ 95 (211)
T PRK05168 17 FLPVVIDVETAGFNAKTDALLEIAAVTLKMDEQGWLYPDETLHFHVEPFEGANLEPEALAFNGIDPDNPLRGAV-SEKEA 95 (211)
T ss_pred CceEEEEeeCCCCCCCCCEEEEEeEEEEEecCCCcEeccceEEEEECCCCCCCCCHHHHhhcCCCchhhhhcCC-ChHHH
Confidence 4689999999999988788999999965 3542 48999999 578999999999999986 78888 88888
Q ss_pred HHHHHHhhc--------CCCEEEEechhhHHHHHcccC-----------C-CccchHHHhhhhcCCCCccHHHHHHHHhC
Q 017922 73 QKRMKKLLS--------NGTILVGHSLNNDLEVLKLDH-----------P-RVIDTSLIFKYVDEYRRPSLYNLCKSVLG 132 (364)
Q Consensus 73 ~~el~~fl~--------~~~iLVGHn~~fDl~fL~~~~-----------~-~vIDT~~L~r~~~~~~~~sL~~L~k~~Lg 132 (364)
+.++.+++. ++.++||||+.||+.||+... + +++||..|++..++ .++|..+| .++|
T Consensus 96 l~~~~~~l~~~~~~~~~~~~~lVaHNa~FD~~fL~~~~~r~~~~~~~~~~~~~iDt~~lar~~~~--~~~L~~l~-~~~g 172 (211)
T PRK05168 96 LHEIFKMVRKGIKASGCNRAILVAHNAHFDLSFLMAAAERAGLKRNPFHPFSTFDTATLSGLALG--QTVLAKAC-QAAG 172 (211)
T ss_pred HHHHHHHHHHHHHhcccCCceEEEeccHHhHHHHHHHHHHhCCCCCCCCCCcEeeHHHHHHHHcC--CCCHHHHH-HHCC
Confidence 888887763 378999999999999998631 1 47999999998865 45899999 6789
Q ss_pred CccCCCCCCCChHHHHHHHHHHHHHHHHhc
Q 017922 133 YEIRKKGTPHNCLDDASAAMKLVLAIIERR 162 (364)
Q Consensus 133 i~i~~~~~~H~Al~DA~Ata~L~~~~le~g 162 (364)
+++.. ..+|+|++||.+|++||.+++++.
T Consensus 173 l~~~~-~~~H~Al~DA~ata~l~~~l~~~~ 201 (211)
T PRK05168 173 IEFDN-KEAHSALYDTEKTAELFCEIVNRW 201 (211)
T ss_pred CCCCC-CCCCChHHHHHHHHHHHHHHHHHH
Confidence 98752 248999999999999999988654
No 34
>PRK06722 exonuclease; Provisional
Probab=99.94 E-value=3.8e-26 Score=220.49 Aligned_cols=154 Identities=25% Similarity=0.331 Sum_probs=128.3
Q ss_pred CCCcEEEEEEeccCCCC---CcccEEEEEEEEc-CC--cEE--EEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHH
Q 017922 2 TSNIMYAVDCEMVLCED---GSEGLVRLCVVDR-NL--KVT--IDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQ 73 (364)
Q Consensus 2 ~~~~~ValD~ETTGl~~---g~~~Ii~V~vVd~-~G--~vi--~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~ 73 (364)
+...|||||+||||... ..++|++|++|.. +| .++ |++||+|..+|+++++.+||||++||.++| +|.+|+
T Consensus 3 ~~~~~vViD~ETT~~p~~~~~~deIIEIGAVkV~~g~i~Ivd~F~sLV~P~~~I~~~i~~LTGIT~emV~~AP-~f~eVl 81 (281)
T PRK06722 3 NATHFIVFDIERNFRPYKSEDPSEIVDIGAVKIEASTMKVIGEFSELVKPGARLTRHTTKLTGITKKDLIGVE-KFPQII 81 (281)
T ss_pred CCCEEEEEEeeCCCCCCCCCCCCeEEEEEEEEEECCceeEEeeEEEEECCCCcCCHhHhhhcCCCHHHHcCCC-CHHHHH
Confidence 35789999999995431 1258999999987 34 444 999999999999999999999999999999 999999
Q ss_pred HHHHHhhcCCCEEEEechhhHHHHHccc-------CC-----CccchHHHhhhhcC---CCCccHHHHHHHHhCCccCCC
Q 017922 74 KRMKKLLSNGTILVGHSLNNDLEVLKLD-------HP-----RVIDTSLIFKYVDE---YRRPSLYNLCKSVLGYEIRKK 138 (364)
Q Consensus 74 ~el~~fl~~~~iLVGHn~~fDl~fL~~~-------~~-----~vIDT~~L~r~~~~---~~~~sL~~L~k~~Lgi~i~~~ 138 (364)
.+|.+|+ ++.++|+||..||++||+.. .| +++|+..+++..++ ...++|..|| +++|++..
T Consensus 82 ~ef~~fi-g~~~lvahna~FD~~FL~~~l~~~gi~~p~~~~~~~idl~~la~~~~~~l~~~~~sL~~l~-~~lgL~~~-- 157 (281)
T PRK06722 82 EKFIQFI-GEDSIFVTWGKEDYRFLSHDCTLHSVECPCMEKERRIDLQKFVFQAYEELFEHTPSLQSAV-EQLGLIWE-- 157 (281)
T ss_pred HHHHHHH-CCCcEEEEEeHHHHHHHHHHHHHcCCCCCcccccchhHHHHHHHHHhhhhccCCCCHHHHH-HHCCCCCC--
Confidence 9999999 77778888889999999873 12 14888887765443 3567999999 88899975
Q ss_pred CCCCChHHHHHHHHHHHHHHHH
Q 017922 139 GTPHNCLDDASAAMKLVLAIIE 160 (364)
Q Consensus 139 ~~~H~Al~DA~Ata~L~~~~le 160 (364)
+.+|+|++||++|+.||+.++.
T Consensus 158 g~~HrAL~DA~~TA~L~l~l~~ 179 (281)
T PRK06722 158 GKQHRALADAENTANILLKAYS 179 (281)
T ss_pred CCCcCcHHHHHHHHHHHHHHhc
Confidence 3489999999999999998874
No 35
>PRK05601 DNA polymerase III subunit epsilon; Validated
Probab=99.94 E-value=5.6e-26 Score=225.05 Aligned_cols=154 Identities=15% Similarity=0.239 Sum_probs=131.3
Q ss_pred CCcEEEEEEeccCCCCCcccEEEEEEEEc--CCcE--EEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHH
Q 017922 3 SNIMYAVDCEMVLCEDGSEGLVRLCVVDR--NLKV--TIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKK 78 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~~Ii~V~vVd~--~G~v--i~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~ 78 (364)
...||+||+||||+++..++|++|++|.. +|.+ .|++||+|..++.. ..|||||++||+++| +|.+|+++|.+
T Consensus 45 ~~~fVvlDiETTGLdp~~drIIeIgAV~i~~~g~ive~f~tLVnP~~~~~p--~~LHGIT~e~La~AP-~f~eVl~el~~ 121 (377)
T PRK05601 45 AAPFVAVSIQTSGIHPSTSRLITIDAVTLTADGEEVEHFHAVLNPGEDPGP--FHLHGLSAEEFAQGK-RFSQILKPLDR 121 (377)
T ss_pred CCCEEEEEEECCCCCCCCCeEEEEEEEEEEcCCEEEEEEEEEECcCCCCCC--ccccCCCHHHHhcCC-CHHHHHHHHHH
Confidence 35799999999999998889999999865 5654 49999999986554 479999999999999 99999999999
Q ss_pred hhcCCCEEEEechhhHHHHHcccC------------------------------------CCccchHHHhhhhcC-CCCc
Q 017922 79 LLSNGTILVGHSLNNDLEVLKLDH------------------------------------PRVIDTSLIFKYVDE-YRRP 121 (364)
Q Consensus 79 fl~~~~iLVGHn~~fDl~fL~~~~------------------------------------~~vIDT~~L~r~~~~-~~~~ 121 (364)
|+ ++.+|||||+.||++||.... ..+|||+.|+|..++ ..+|
T Consensus 122 fL-~g~vLVaHNA~FD~~FL~~e~~r~~~~a~~~n~~~~r~~~~~~~~~rr~~~g~~p~p~~~iDTL~LARrl~p~l~~~ 200 (377)
T PRK05601 122 LI-DGRTLILHNAPRTWGFIVSEAKRAMNAAARANRNRNRGNRRGGRGRRRQRVGHIPKPVVIVDTLATARRQGVALDDI 200 (377)
T ss_pred Hh-CCCEEEEECcHHHHHHHHHHHHHhhhhhhhcccccccccccccccccccccCCCCCCCCEEEhHHHHHHHcCCCCCC
Confidence 99 899999999999999997631 137999999999988 7899
Q ss_pred cHHHHHHHHhCCccCC-------CCCCCChH--HHHHHHHHHHHHHHHh
Q 017922 122 SLYNLCKSVLGYEIRK-------KGTPHNCL--DDASAAMKLVLAIIER 161 (364)
Q Consensus 122 sL~~L~k~~Lgi~i~~-------~~~~H~Al--~DA~Ata~L~~~~le~ 161 (364)
+|..|| .+||++... ....|+++ +||+.+++||....+.
T Consensus 201 rL~~La-~~lGi~~p~~~A~~~Ra~~p~~~l~~~Da~ll~~l~~~~~~~ 248 (377)
T PRK05601 201 RIRGVA-HTLGLDAPAAEASVERAQVPHRQLCREETLLVARLYFALRAS 248 (377)
T ss_pred CHHHHH-HHhCCCCCchhhhhhhhcCChhhhhhHHHHHHHHHHHHhhcc
Confidence 999999 778999821 12368888 6999999999876433
No 36
>PRK08074 bifunctional ATP-dependent DNA helicase/DNA polymerase III subunit epsilon; Validated
Probab=99.94 E-value=7.9e-26 Score=248.83 Aligned_cols=156 Identities=21% Similarity=0.335 Sum_probs=139.0
Q ss_pred CCcEEEEEEeccCCCCCc-ccEEEEEEEEc-CCcEE--EEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHH
Q 017922 3 SNIMYAVDCEMVLCEDGS-EGLVRLCVVDR-NLKVT--IDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKK 78 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~-~~Ii~V~vVd~-~G~vi--~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~ 78 (364)
...||+||+||||+++.. ++|++|++|.. +|+++ |++||+|..+||++++.+||||++||+++| +|.+|+.+|.+
T Consensus 2 ~~~~vvvD~ETTG~~p~~~d~IIeigav~v~~~~i~~~f~~~v~P~~~i~~~~~~ltGIt~~~l~~ap-~f~ev~~~l~~ 80 (928)
T PRK08074 2 SKRFVVVDLETTGNSPKKGDKIIQIAAVVVEDGEILERFSSFVNPERPIPPFITELTGISEEMVKQAP-LFEDVAPEIVE 80 (928)
T ss_pred CCCEEEEEEeCCCCCCCCCCcEEEEEEEEEECCEEEEEEEEEECcCCCCCHHHhhcCCCCHHHHhcCC-CHHHHHHHHHH
Confidence 457999999999998654 68999999987 56554 889999999999999999999999999999 99999999999
Q ss_pred hhcCCCEEEEechhhHHHHHccc-----C----CCccchHHHhhhhcC-CCCccHHHHHHHHhCCccCCCCCCCChHHHH
Q 017922 79 LLSNGTILVGHSLNNDLEVLKLD-----H----PRVIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDA 148 (364)
Q Consensus 79 fl~~~~iLVGHn~~fDl~fL~~~-----~----~~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA 148 (364)
|+ +++++||||+.||+.||+.. . ..+|||..|++..+| ..+|+|.+|| ++||++.. .+|+|+.||
T Consensus 81 ~l-~~~~~VaHN~~FD~~fL~~~~~~~g~~~~~~~~iDt~~la~~~~p~~~~~~L~~l~-~~l~i~~~---~~H~Al~DA 155 (928)
T PRK08074 81 LL-EGAYFVAHNVHFDLNFLNEELERAGYTEIHCPKLDTVELARILLPTAESYKLRDLS-EELGLEHD---QPHRADSDA 155 (928)
T ss_pred Hh-CCCeEEEEChHHHHHHHHHHHHHcCCCCCCCCeeeHHHHHHHhcCCCCCCCHHHHH-HhCCCCCC---CCCChHHHH
Confidence 99 89999999999999999863 1 247999999999888 7899999999 77899875 489999999
Q ss_pred HHHHHHHHHHHHhccc
Q 017922 149 SAAMKLVLAIIERRVD 164 (364)
Q Consensus 149 ~Ata~L~~~~le~g~~ 164 (364)
++|++||.+++.+...
T Consensus 156 ~ata~l~~~l~~~~~~ 171 (928)
T PRK08074 156 EVTAELFLQLLNKLER 171 (928)
T ss_pred HHHHHHHHHHHHHHHh
Confidence 9999999999876543
No 37
>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=99.93 E-value=1.2e-25 Score=245.48 Aligned_cols=153 Identities=22% Similarity=0.299 Sum_probs=138.0
Q ss_pred cEEEEEEeccCCCCCcccEEEEEEEEc-CCcEE--EEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhc
Q 017922 5 IMYAVDCEMVLCEDGSEGLVRLCVVDR-NLKVT--IDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLS 81 (364)
Q Consensus 5 ~~ValD~ETTGl~~g~~~Ii~V~vVd~-~G~vi--~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~ 81 (364)
+||+||+||||+++..++|++|++|.. +|+++ |++||+|..+||++++.+||||++||.++| +|.+|+.+|.+|+
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 RYAVVDLETTGTQLSFDKIIQIGIVVVEDGEIVDTFHTDVNPNEPIPPFIQELTGISDNMLQQAP-YFSQVAQEIYDLL- 78 (850)
T ss_pred CEEEEEEECCCCCCCCCeEEEEEEEEEECCEEEEEEEEEeCCCCCCChhhhhhcCcCHHHHhCCC-CHHHHHHHHHHHh-
Confidence 489999999999988889999999987 56654 899999999999999999999999999999 9999999999999
Q ss_pred CCCEEEEechhhHHHHHccc-----C----CCccchHHHhhhhcC-CCCccHHHHHHHHhCCccCCCCCCCChHHHHHHH
Q 017922 82 NGTILVGHSLNNDLEVLKLD-----H----PRVIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDASAA 151 (364)
Q Consensus 82 ~~~iLVGHn~~fDl~fL~~~-----~----~~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~At 151 (364)
+++++||||+.||+.||+.. . ..++||..+++..+| ..+++|.+|| +++|++.. .+|+|++||.+|
T Consensus 79 ~~~~~VahN~~fD~~fL~~~~~~~g~~~~~~~~iDt~~l~~~~~p~~~~~~L~~l~-~~~gi~~~---~~H~Al~DA~at 154 (850)
T TIGR01407 79 EDGIFVAHNVHFDLNFLAKALKDCGYEPLPKPRIDTVELAQIFFPTEESYQLSELS-EALGLTHE---NPHRADSDAQAT 154 (850)
T ss_pred CCCEEEEeCcHHHHHHHHHHHHHcCCCCCCCCeEeHHHHHHHhcCCCCCCCHHHHH-HHCCCCCC---CCCChHHHHHHH
Confidence 89999999999999999863 1 137999999999988 7899999999 77899875 389999999999
Q ss_pred HHHHHHHHHhcc
Q 017922 152 MKLVLAIIERRV 163 (364)
Q Consensus 152 a~L~~~~le~g~ 163 (364)
++||++++.+-.
T Consensus 155 a~l~~~l~~~~~ 166 (850)
T TIGR01407 155 AELLLLLFEKME 166 (850)
T ss_pred HHHHHHHHHHHH
Confidence 999999876543
No 38
>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=99.93 E-value=2.2e-25 Score=248.64 Aligned_cols=158 Identities=23% Similarity=0.395 Sum_probs=141.7
Q ss_pred CCcEEEEEEeccCCCCCcccEEEEEEEEc-CCcEE--EEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHh
Q 017922 3 SNIMYAVDCEMVLCEDGSEGLVRLCVVDR-NLKVT--IDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKL 79 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~~Ii~V~vVd~-~G~vi--~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~f 79 (364)
...||+||+||||+++..++|++|++|.. +|.++ |++||+|..+|+++++.+||||++||+++| ++.+|+++|.+|
T Consensus 189 ~~~~VVfDiETTGL~~~~d~IIEIGAVkv~~g~iid~f~~~V~P~~~I~~~~~~ltGIT~e~L~~ap-~~~evl~~f~~f 267 (1213)
T TIGR01405 189 DATYVVFDIETTGLSPQYDEIIEFGAVKVKNGRIIDKFQFFIKPHEPLSAFVTELTGITQDMLENAP-EIEEVLEKFKEF 267 (1213)
T ss_pred CCcEEEEEeEecCCCCCCCeEEEEEEEEEECCeEEEEEEEEECCCCCCCHHHHHHhCCCHHHHhCCC-CHHHHHHHHHHH
Confidence 45899999999999998889999999987 56554 899999999999999999999999999999 999999999999
Q ss_pred hcCCCEEEEechhhHHHHHccc---------CCCccchHHHhhhhcC-CCCccHHHHHHHHhCCccCCCCCCCChHHHHH
Q 017922 80 LSNGTILVGHSLNNDLEVLKLD---------HPRVIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDAS 149 (364)
Q Consensus 80 l~~~~iLVGHn~~fDl~fL~~~---------~~~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~ 149 (364)
+ ++++|||||+.||+.||+.. ...++||+.+++.+.| ..+++|..|| .++|++... +|+|+.||.
T Consensus 268 l-~~~iLVaHNa~FD~~fL~~~~~r~g~~~~~~~~IDTl~lar~l~p~~k~~kL~~La-k~lgi~~~~---~HrAl~DA~ 342 (1213)
T TIGR01405 268 F-KDSILVAHNASFDIGFLNTNFEKVGLEPLENPVIDTLELARALNPEYKSHRLGNIC-KKLGVDLDD---HHRADYDAE 342 (1213)
T ss_pred h-CCCeEEEEChHHHHHHHHHHHHHcCCCccCCCEeEHHHHHHHHhccCCCCCHHHHH-HHcCCCCCC---CcCHHHHHH
Confidence 9 89999999999999999863 1247999999999987 7899999999 667999864 899999999
Q ss_pred HHHHHHHHHHHhcccCC
Q 017922 150 AAMKLVLAIIERRVDNA 166 (364)
Q Consensus 150 Ata~L~~~~le~g~~~~ 166 (364)
+|++||..+++...+.+
T Consensus 343 aTa~I~~~ll~~l~~~~ 359 (1213)
T TIGR01405 343 ATAKVFKVMVEQLKEKG 359 (1213)
T ss_pred HHHHHHHHHHHHHHHcC
Confidence 99999999887654443
No 39
>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=99.93 E-value=3.1e-25 Score=196.63 Aligned_cols=148 Identities=25% Similarity=0.309 Sum_probs=126.4
Q ss_pred EEEEEEeccCCCCCc-----ccEEEEEEEEc--CCc---EEEEEEEcCCC--cccccccccCCCChhhhcCCCCCHHHHH
Q 017922 6 MYAVDCEMVLCEDGS-----EGLVRLCVVDR--NLK---VTIDELVKPEK--AVADYRSEITGLTADDLVGVTCSLAEIQ 73 (364)
Q Consensus 6 ~ValD~ETTGl~~g~-----~~Ii~V~vVd~--~G~---vi~d~lVkP~~--~I~d~~t~itGIT~e~L~~ap~~~~eV~ 73 (364)
||+||+||||+++.. ++|++|++|.. ++. ..|++||+|.. +|+++++.+||||++++.++| ++.+|+
T Consensus 1 ~vv~D~Ettg~~~~~~~~~~~~IieIgav~v~~~~~~~~~~f~~~i~P~~~~~i~~~~~~i~gIt~e~l~~~~-~~~~vl 79 (176)
T cd06133 1 YLVIDFEATCWEGNSKPDYPNEIIEIGAVLVDVKTKEIIDTFSSYVKPVINPKLSDFCTELTGITQEDVDNAP-SFPEVL 79 (176)
T ss_pred CEEEEeeccccCCCCCCCCCcceEEEEEEEEEcCCCeEEeeeeeeECCCcCCchhHHHHHhcCcCHHHHhcCC-CHHHHH
Confidence 699999999999764 68999999865 332 24999999998 999999999999999999998 999999
Q ss_pred HHHHHhhcCCC--EEEEechhhHHHHHccc------------CCCccchHHHhhhhcC-CCCccHHHHHHHHhCCccCCC
Q 017922 74 KRMKKLLSNGT--ILVGHSLNNDLEVLKLD------------HPRVIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRKK 138 (364)
Q Consensus 74 ~el~~fl~~~~--iLVGHn~~fDl~fL~~~------------~~~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~~ 138 (364)
++|.+|+ ++. .+++|+..||+++|... ..+++|+..+++...+ ..+++|.+|| .+||++..
T Consensus 80 ~~~~~~l-~~~~~~~~v~~~~~d~~~l~~~~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~~~~L~~l~-~~~gi~~~-- 155 (176)
T cd06133 80 KEFLEWL-GKNGKYAFVTWGDWDLKDLLQNQCKYKIINLPPFFRQWIDLKKEFAKFYGLKKRTGLSKAL-EYLGLEFE-- 155 (176)
T ss_pred HHHHHHH-HhCCCeEEEeecHhhHHHHHHHHHHhcCCCCcccccceEEHHHHHHHHhCCCCCCCHHHHH-HHCCCCCC--
Confidence 9999999 565 56666679999877542 1247999999999888 5699999999 88899986
Q ss_pred CCCCChHHHHHHHHHHHHHH
Q 017922 139 GTPHNCLDDASAAMKLVLAI 158 (364)
Q Consensus 139 ~~~H~Al~DA~Ata~L~~~~ 158 (364)
+..|+|+.||++|++||.++
T Consensus 156 ~~~H~Al~DA~~~a~l~~~~ 175 (176)
T cd06133 156 GRHHRGLDDARNIARILKRL 175 (176)
T ss_pred CCCcCcHHHHHHHHHHHHHh
Confidence 35899999999999999875
No 40
>COG0847 DnaQ DNA polymerase III, epsilon subunit and related 3'-5' exonucleases [DNA replication, recombination, and repair]
Probab=99.93 E-value=5e-25 Score=206.56 Aligned_cols=154 Identities=23% Similarity=0.318 Sum_probs=136.2
Q ss_pred CcEEEEEEeccCCCCCcccEEEEEEEEc-CCcEE---EEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHh
Q 017922 4 NIMYAVDCEMVLCEDGSEGLVRLCVVDR-NLKVT---IDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKL 79 (364)
Q Consensus 4 ~~~ValD~ETTGl~~g~~~Ii~V~vVd~-~G~vi---~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~f 79 (364)
..+|+||+||||+++..++|++|++|.. ++.++ |+.||+|+.+|+++++++||||.+||.++| .|.++++++.+|
T Consensus 13 ~~~vv~D~ETtg~~~~~~~iieIgav~~~~~~i~~~~~~~~v~P~~~i~~~~~~i~git~e~l~~~p-~~~~v~~~~~~~ 91 (243)
T COG0847 13 TRFVVIDLETTGLNPKKDRIIEIGAVTLEDGRIVERSFHTLVNPERPIPPEIFKIHGITDEMLADAP-KFAEVLPEFLDF 91 (243)
T ss_pred CcEEEEecccCCCCCCCCceEEEEeEEEECCeeecceeEEEECCCCCCChhhhhhcCCCHHHHhcCC-CHHHHHHHHHHH
Confidence 3789999999999986778999999987 45333 889999999999999999999999999999 999999999999
Q ss_pred hcCC-CEEEEechhhHHHHHcccC---------CCccchHHHhhhhcCC-CCccHHHHHHHHhCCccCCCCCCCChHHHH
Q 017922 80 LSNG-TILVGHSLNNDLEVLKLDH---------PRVIDTSLIFKYVDEY-RRPSLYNLCKSVLGYEIRKKGTPHNCLDDA 148 (364)
Q Consensus 80 l~~~-~iLVGHn~~fDl~fL~~~~---------~~vIDT~~L~r~~~~~-~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA 148 (364)
+ .+ .++||||+.||+.||+... ..++||..+.+..++. ..++|+.|| .++|++.. ....|+|+.||
T Consensus 92 i-~~~~~~Vahna~fD~~fl~~~~~~~~~~~~~~~~~~t~~~~r~~~~~~~~~~L~~l~-~~~gi~~~-~~~~H~Al~Da 168 (243)
T COG0847 92 I-GGLRLLVAHNAAFDVGFLRVESERLGIEIPGDPVLDTLALARRHFPGFDRSSLDALA-ERLGIDRN-PFHPHRALFDA 168 (243)
T ss_pred H-CCCCeEEEEchhhcHHHHHHHHHHcCCCcccCceehHHHHHHHHcCCCccchHHHHH-HHcCCCcC-CcCCcchHHHH
Confidence 9 66 9999999999999998631 2478999999999985 899999999 68899954 23479999999
Q ss_pred HHHHHHHHHHHHh
Q 017922 149 SAAMKLVLAIIER 161 (364)
Q Consensus 149 ~Ata~L~~~~le~ 161 (364)
.+++.+|..+..+
T Consensus 169 ~~~a~~~~~~~~~ 181 (243)
T COG0847 169 LALAELFLLLQTG 181 (243)
T ss_pred HHHHHHHHHHHhc
Confidence 9999999988864
No 41
>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=99.92 E-value=8.4e-25 Score=187.29 Aligned_cols=144 Identities=22% Similarity=0.312 Sum_probs=126.9
Q ss_pred EEEEEeccCCCCCcccEEEEEEEEcCC--c--EEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhcC
Q 017922 7 YAVDCEMVLCEDGSEGLVRLCVVDRNL--K--VTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLSN 82 (364)
Q Consensus 7 ValD~ETTGl~~g~~~Ii~V~vVd~~G--~--vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~~ 82 (364)
|+|||||||+++...+|++|+++..++ + ..|+.||+|+.+++++.+.+||||++++.+++ ++.+++.+|.+++ .
T Consensus 1 v~~D~Ettg~~~~~~~iiei~~v~~~~~~~~~~~~~~~i~p~~~~~~~~~~~~gi~~~~~~~~~-~~~~~~~~~~~~l-~ 78 (159)
T cd06127 1 VVFDTETTGLDPKKDRIIEIGAVKVDGGIEIVERFETLVNPGRPIPPEATAIHGITDEMLADAP-PFEEVLPEFLEFL-G 78 (159)
T ss_pred CeEEeeCCCcCCCCCeEEEEEEEEEECCcChhhhhheeeCcCCcCCHhheeccCCCHHHHhcCC-CHHHHHHHHHHHH-C
Confidence 589999999998777899999998743 2 35899999999999999999999999999999 9999999999999 7
Q ss_pred CCEEEEechhhHHHHHccc---------CCCccchHHHhhhhcC-CCCccHHHHHHHHhCCccCCCCCCCChHHHHHHHH
Q 017922 83 GTILVGHSLNNDLEVLKLD---------HPRVIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDASAAM 152 (364)
Q Consensus 83 ~~iLVGHn~~fDl~fL~~~---------~~~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~Ata 152 (364)
+.++||||+.||+.+|+.. ...++||..+++...+ ...++|..+...++|++.. .+|+|+.||++|+
T Consensus 79 ~~~~v~~n~~fD~~~l~~~~~~~~~~~~~~~~iDt~~~~~~~~~~~~~~~l~~~~~~~~~~~~~---~~H~Al~Da~~t~ 155 (159)
T cd06127 79 GRVLVAHNASFDLRFLNRELRRLGGPPLPNPWIDTLRLARRLLPGLRSHRLGLLLAERYGIPLE---GAHRALADALATA 155 (159)
T ss_pred CCEEEEeCcHhhHHHHHHHHHHhCCCCCCCCeeEHHHHHHHHcCCCCcCchHHHHHHHcCCCCC---CCCCcHHHHHHHH
Confidence 7999999999999999864 2247999999999888 6788999983377788764 4899999999999
Q ss_pred HHH
Q 017922 153 KLV 155 (364)
Q Consensus 153 ~L~ 155 (364)
+||
T Consensus 156 ~l~ 158 (159)
T cd06127 156 ELL 158 (159)
T ss_pred HHh
Confidence 998
No 42
>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=99.92 E-value=3.8e-25 Score=200.49 Aligned_cols=144 Identities=18% Similarity=0.204 Sum_probs=118.8
Q ss_pred EEEEEeccCCCCCcccEEEEEEEEcCC--cE--EEEEEEcCCC--cccccccccCCCChhhhcC-CCCCHHHHHHHHHHh
Q 017922 7 YAVDCEMVLCEDGSEGLVRLCVVDRNL--KV--TIDELVKPEK--AVADYRSEITGLTADDLVG-VTCSLAEIQKRMKKL 79 (364)
Q Consensus 7 ValD~ETTGl~~g~~~Ii~V~vVd~~G--~v--i~d~lVkP~~--~I~d~~t~itGIT~e~L~~-ap~~~~eV~~el~~f 79 (364)
++||+||||+++..++|++|++|..++ .+ .|++||+|.. +++...+.+||||++||.+ +| ++.+++++|..|
T Consensus 1 ~~~D~ETTGl~~~~d~Iieig~v~v~~~~~~~~~~~~~v~p~~~~~~~~~a~~ihGIt~e~l~~~~~-~~~~~l~~~~~~ 79 (183)
T cd06138 1 LFYDYETFGLNPSFDQILQFAAIRTDENFNEIEPFNIFCRLPPDVLPSPEALIVTGITPQQLLKEGL-SEYEFIAKIHRL 79 (183)
T ss_pred CEEEeecCCCCCCCCceEEEEEEEECCCCCCccceeEEEeCCCCCCCCHHHHHHhCCCHHHHHhcCC-CHHHHHHHHHHH
Confidence 479999999998888999999997643 33 3889999874 6777899999999999999 78 999999999999
Q ss_pred hc-CCCEEEEec-hhhHHHHHcccCC---------------CccchHHHhhhhc---C-----------CCCccHHHHHH
Q 017922 80 LS-NGTILVGHS-LNNDLEVLKLDHP---------------RVIDTSLIFKYVD---E-----------YRRPSLYNLCK 128 (364)
Q Consensus 80 l~-~~~iLVGHn-~~fDl~fL~~~~~---------------~vIDT~~L~r~~~---~-----------~~~~sL~~L~k 128 (364)
+. ++.++|||| +.||++||+..+. .++||..+++... + ..+++|.+||
T Consensus 80 ~~~~~~~lVahn~~~FD~~fL~~~~~r~~~~~~~~~~~~~~~~~dtl~l~r~~~~~~~~~~~~~~~~~~~~~~~L~~l~- 158 (183)
T cd06138 80 FNTPGTCIVGYNNIRFDDEFLRFAFYRNLYDPYTWEWKNGNSRWDLLDVVRAYYALRPDGIVWPKNDDGKPSFKLEDLA- 158 (183)
T ss_pred HccCCCcEEeeCchhhHHHHHHHHHHHCCCcccceeccCCccccccHHHHHHHHhhChhhccCccccCCCcchhHHHHH-
Confidence 95 367999997 8999999986321 2478887776532 1 2478899999
Q ss_pred HHhCCccCCCCCCCChHHHHHHHHHHH
Q 017922 129 SVLGYEIRKKGTPHNCLDDASAAMKLV 155 (364)
Q Consensus 129 ~~Lgi~i~~~~~~H~Al~DA~Ata~L~ 155 (364)
.++|++.. .+|+|+.||++|++|.
T Consensus 159 ~~~gi~~~---~~H~Al~Da~~ta~l~ 182 (183)
T cd06138 159 QANGIEHS---NAHDALSDVEATIALA 182 (183)
T ss_pred HHCCCCcc---ccccHHHHHHHHHHHh
Confidence 67899985 3899999999999985
No 43
>PRK09182 DNA polymerase III subunit epsilon; Validated
Probab=99.92 E-value=2.7e-24 Score=209.19 Aligned_cols=150 Identities=16% Similarity=0.268 Sum_probs=121.8
Q ss_pred CcEEEEEEeccCCCCCcccEEEEEEEEc----CCcE-----EEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHH
Q 017922 4 NIMYAVDCEMVLCEDGSEGLVRLCVVDR----NLKV-----TIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQK 74 (364)
Q Consensus 4 ~~~ValD~ETTGl~~g~~~Ii~V~vVd~----~G~v-----i~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~ 74 (364)
..+|+||+||||+++..++|++|++|.. +|.+ .|+.||+|..+|+..++.+||||++||.++| ... +
T Consensus 37 ~~~vvlD~ETTGLd~~~d~IIEIg~V~v~~~~~g~i~~v~~~~~~lv~P~~~I~~~~t~IhGIt~e~v~~~~-~~~---~ 112 (294)
T PRK09182 37 RLGVILDTETTGLDPRKDEIIEIGMVAFEYDDDGRIGDVLDTFGGLQQPSRPIPPEITRLTGITDEMVAGQT-IDP---A 112 (294)
T ss_pred CeEEEEEeeCCCCCCCCCeEEEEEEEEEEecCCCceeeeeeEEEEEeCCCCCCCHHHHHhcCCCHHHHhcCC-CcH---H
Confidence 4689999999999998889999999865 3542 3889999999999999999999999999999 432 3
Q ss_pred HHHHhhcCCCEEEEechhhHHHHHcccCC-----CccchHHHhhhhcC-CCCccHHHHHHHHhCCccCCCCCCCChHHHH
Q 017922 75 RMKKLLSNGTILVGHSLNNDLEVLKLDHP-----RVIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDA 148 (364)
Q Consensus 75 el~~fl~~~~iLVGHn~~fDl~fL~~~~~-----~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA 148 (364)
.|.+|+....+|||||+.||+.||+...+ .+.||........+ ..+++|.+|| .++|. .. .+|+|+.||
T Consensus 113 ~l~~fl~~~~vlVAHNA~FD~~fL~~~~~~~~~~~~~ct~~~i~~~~~~~~~~kL~~La-~~~g~-~~---~aHrAl~Da 187 (294)
T PRK09182 113 AVDALIAPADLIIAHNAGFDRPFLERFSPVFATKPWACSVSEIDWSARGFEGTKLGYLA-GQAGF-FH---EGHRAVDDC 187 (294)
T ss_pred HHHHHhcCCCEEEEeCHHHHHHHHHHHHHhccCCcccccHHHHhhccccCCCCCHHHHH-HHcCC-CC---CCcChHHHH
Confidence 56777855679999999999999987432 36787765554333 5789999999 67783 32 379999999
Q ss_pred HHHHHHHHHHHHhc
Q 017922 149 SAAMKLVLAIIERR 162 (364)
Q Consensus 149 ~Ata~L~~~~le~g 162 (364)
.||++||...+...
T Consensus 188 ~Ata~ll~~~l~~~ 201 (294)
T PRK09182 188 QALLELLARPLPET 201 (294)
T ss_pred HHHHHHHHHHHhhc
Confidence 99999999877543
No 44
>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=99.90 E-value=7.4e-26 Score=194.00 Aligned_cols=145 Identities=25% Similarity=0.419 Sum_probs=123.2
Q ss_pred EEEEEeccCCCCCcccEEEEEEEEcC-C----cEEEEEEEcCCCc--ccccccccCCCChhhhcCCCCCHHHHHHHHHHh
Q 017922 7 YAVDCEMVLCEDGSEGLVRLCVVDRN-L----KVTIDELVKPEKA--VADYRSEITGLTADDLVGVTCSLAEIQKRMKKL 79 (364)
Q Consensus 7 ValD~ETTGl~~g~~~Ii~V~vVd~~-G----~vi~d~lVkP~~~--I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~f 79 (364)
|+|||||||+++...+|++|++|..+ + ...|++||+|..+ |+++++.+||||.++|.+++ ++.+++.+|.+|
T Consensus 1 v~~D~Ettg~~~~~~~iieig~v~~~~~~~~~~~~~~~~i~p~~~~~i~~~~~~~~gIt~~~l~~~~-~~~~~~~~~~~~ 79 (164)
T PF00929_consen 1 VVFDTETTGLDPRQDEIIEIGAVKVDDDENEEVESFNSLIRPEEPPKISPWATKVHGITQEDLEDAP-SFEEALDEFEEF 79 (164)
T ss_dssp EEEEEEESSSTTTTCTEEEEEEEEEETTTTEEEEEEEEEBEHSSHCSSEHHHHHHHHHCHHHHHCHC-EHHHHHHHHHHH
T ss_pred cEEEeEcCCCCCCCCeEEEEEEEEeeCCccccceeeeecccccccccCCHHHeeecCCcccccccCC-cHHHHHHhhhhh
Confidence 78999999999877789999998762 2 2469999999998 99999999999999999999 999999999999
Q ss_pred hcCCCEEEEechhhHHHHHccc--------CC---CccchHHHhhhhcC-CCCccHHHHHHHHhCCccCCCCCCCChHHH
Q 017922 80 LSNGTILVGHSLNNDLEVLKLD--------HP---RVIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRKKGTPHNCLDD 147 (364)
Q Consensus 80 l~~~~iLVGHn~~fDl~fL~~~--------~~---~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~D 147 (364)
+.++.++||||+.||..+|... ++ .++||..+.+...+ ...++|+.|| .++|++... .+|+|++|
T Consensus 80 ~~~~~~~v~~n~~fd~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~-~~~~~~~~~--~~H~Al~D 156 (164)
T PF00929_consen 80 LKKNDILVGHNASFDIGFLRREDKRFLGKPIPKPNPFIDTLELARALFPNRKKYSLDDLA-EYFGIPFDG--TAHDALDD 156 (164)
T ss_dssp HHHHTEEEETTCCHEEESSHHHHHHHHHHHHHHHHHECEEEEEHHHHHHHHHHHSHHHHH-HHTTSSSTS--TTTSHHHH
T ss_pred hhcccccccccccchhhHHHHhhhhcccccccccchhhhhhHHHHHHhhccccCCHHHHH-HHcCCCCCC--CCcChHHH
Confidence 9668999999999998777542 23 36788777776655 4458999999 777888764 27999999
Q ss_pred HHHHHHHH
Q 017922 148 ASAAMKLV 155 (364)
Q Consensus 148 A~Ata~L~ 155 (364)
|++|++||
T Consensus 157 a~~t~~l~ 164 (164)
T PF00929_consen 157 ARATAELF 164 (164)
T ss_dssp HHHHHHHH
T ss_pred HHHHhCcC
Confidence 99999987
No 45
>PRK11779 sbcB exonuclease I; Provisional
Probab=99.88 E-value=3e-22 Score=205.75 Aligned_cols=157 Identities=17% Similarity=0.182 Sum_probs=127.0
Q ss_pred CCCCcEEEEEEeccCCCCCcccEEEEEEEEcCC--cE---EEEEEEcCCCc--ccccccccCCCChhhhcCCCCCHHHHH
Q 017922 1 MTSNIMYAVDCEMVLCEDGSEGLVRLCVVDRNL--KV---TIDELVKPEKA--VADYRSEITGLTADDLVGVTCSLAEIQ 73 (364)
Q Consensus 1 m~~~~~ValD~ETTGl~~g~~~Ii~V~vVd~~G--~v---i~d~lVkP~~~--I~d~~t~itGIT~e~L~~ap~~~~eV~ 73 (364)
|+...||++|+||||+++..++|++|++|..++ .+ .++.||+|..+ +++.++.+||||++|+.++|.+..++.
T Consensus 3 ~~~~~fvv~D~ETTGLdP~~DrIIeiAaVrvd~~~~~i~e~~~~~~~P~~~~lp~p~a~~IhGIT~e~l~~~g~~e~e~~ 82 (476)
T PRK11779 3 KMQPTFLWHDYETFGANPALDRPAQFAGIRTDADLNIIGEPLVFYCKPADDYLPSPEAVLITGITPQEALEKGLPEAEFA 82 (476)
T ss_pred CCCCcEEEEEEECCCCCCCCCeeEEEEEEEEeCCCceecceeEEEEcCCcCcCCCHHHHHHhCCCHHHHHhcCCCHHHHH
Confidence 356789999999999999888999999997633 23 38899999863 456789999999999998887899999
Q ss_pred HHHHHhhc-CCCEEEEec-hhhHHHHHcccCC------------------CccchHHHhhhhc------C-----CCCcc
Q 017922 74 KRMKKLLS-NGTILVGHS-LNNDLEVLKLDHP------------------RVIDTSLIFKYVD------E-----YRRPS 122 (364)
Q Consensus 74 ~el~~fl~-~~~iLVGHn-~~fDl~fL~~~~~------------------~vIDT~~L~r~~~------~-----~~~~s 122 (364)
.+|.+|++ +++++|||| ++||..||+..+. .++|+++++.... | ..+++
T Consensus 83 ~~i~~~l~~~~~~lVGhNni~FD~eflr~~~~r~~~d~y~~~~~~~n~r~D~LDl~rl~~~lrp~~i~~P~~~~g~~s~r 162 (476)
T PRK11779 83 ARIHAEFSQPGTCILGYNNIRFDDEVTRYIFYRNFYDPYAREWQNGNSRWDLLDVVRACYALRPEGINWPENEDGLPSFK 162 (476)
T ss_pred HHHHHHHhcCCCEEEEeCchhhcHHHHHHHHHhccchHHHHHhcCCCCccCHHHHHHHHHHhccccccCcccccCCCCCc
Confidence 99999994 489999997 7999999976321 1356666554432 2 26799
Q ss_pred HHHHHHHHhCCccCCCCCCCChHHHHHHHHHHHHHHHHh
Q 017922 123 LYNLCKSVLGYEIRKKGTPHNCLDDASAAMKLVLAIIER 161 (364)
Q Consensus 123 L~~L~k~~Lgi~i~~~~~~H~Al~DA~Ata~L~~~~le~ 161 (364)
|.+|| ..+|++..+ +|+|+.||.||++|+..+.++
T Consensus 163 Le~L~-~~~gI~~~~---AHdALsDa~aT~~la~~l~~~ 197 (476)
T PRK11779 163 LEHLT-KANGIEHEN---AHDAMSDVYATIAMAKLIKQK 197 (476)
T ss_pred HHHHH-HHcCCCCCC---CCCcHHHHHHHHHHHHHHHHh
Confidence 99999 677998753 899999999999999887754
No 46
>PRK05359 oligoribonuclease; Provisional
Probab=99.88 E-value=5.7e-22 Score=180.26 Aligned_cols=145 Identities=15% Similarity=0.200 Sum_probs=117.9
Q ss_pred CCcEEEEEEeccCCCCCcccEEEEEEEEcCCc--EE---EEEEEcCCCc----ccccccccC---CCChhhhcCCCCCHH
Q 017922 3 SNIMYAVDCEMVLCEDGSEGLVRLCVVDRNLK--VT---IDELVKPEKA----VADYRSEIT---GLTADDLVGVTCSLA 70 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~~Ii~V~vVd~~G~--vi---~d~lVkP~~~----I~d~~t~it---GIT~e~L~~ap~~~~ 70 (364)
..+||+|||||||+++..++|++|++|..++. ++ |+.+|+|... ++++.+.+| |||+++++++| ++.
T Consensus 2 ~~~~vvlD~ETTGLdp~~d~IieIgaV~~~~~~~~~~~~~~~~i~~~~~~l~~~~~~~~~ih~~tGIt~~~l~~~~-~~~ 80 (181)
T PRK05359 2 EDNLIWIDLEMTGLDPERDRIIEIATIVTDADLNILAEGPVIAIHQSDEALAAMDEWNTRTHTRSGLIDRVRASTV-SEA 80 (181)
T ss_pred CCcEEEEEeecCCCCCCCCeEEEEEEEEEcCCceEcccceEEEECCCHHHhhccChHHHHhcccccCcHHHHhcCC-CHH
Confidence 46899999999999998889999999976542 22 8889999865 467788887 89999999999 999
Q ss_pred HHHHHHHHhhc-----CCCEEEEechhhHHHHHcccC--------CCccc--hH-HHhhhhcCCCCccHHHHHHHHhCCc
Q 017922 71 EIQKRMKKLLS-----NGTILVGHSLNNDLEVLKLDH--------PRVID--TS-LIFKYVDEYRRPSLYNLCKSVLGYE 134 (364)
Q Consensus 71 eV~~el~~fl~-----~~~iLVGHn~~fDl~fL~~~~--------~~vID--T~-~L~r~~~~~~~~sL~~L~k~~Lgi~ 134 (364)
+++.+|++|+. .+.+|||||+.||+.||+... .+++| |. .|++.++|. + +++++
T Consensus 81 e~~~~~l~fl~~~~~~~~~~l~g~~v~FD~~FL~~~~~~~~~~l~~~~~Dv~tl~~l~r~~~P~----~------~~~~~ 150 (181)
T PRK05359 81 EAEAQTLEFLKQWVPAGKSPLCGNSIGQDRRFLARYMPELEAYFHYRNLDVSTLKELARRWKPE----I------LNGFK 150 (181)
T ss_pred HHHHHHHHHHHHhcCCCCCceeecchhhCHHHHHHHHHHhcccCCCcccchhHHHHHHHHhChh----h------hhCCC
Confidence 99999999995 368999999999999998752 34677 55 577877661 1 23554
Q ss_pred cCCCCCCCChHHHHHHHHHHHHHHHHh
Q 017922 135 IRKKGTPHNCLDDASAAMKLVLAIIER 161 (364)
Q Consensus 135 i~~~~~~H~Al~DA~Ata~L~~~~le~ 161 (364)
.. ..|||++||+++.++|.++.+.
T Consensus 151 ~~---~~HRal~D~~~s~~~~~~~~~~ 174 (181)
T PRK05359 151 KQ---GTHRALADIRESIAELKYYREH 174 (181)
T ss_pred Cc---CCcccHHHHHHHHHHHHHHHHH
Confidence 43 3799999999999999887653
No 47
>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=99.88 E-value=2.2e-22 Score=181.21 Aligned_cols=142 Identities=15% Similarity=0.205 Sum_probs=112.6
Q ss_pred EEEEEEeccCCCCCcccEEEEEEEEcCCc--E---EEEEEEcCCCccc----cccccc---CCCChhhhcCCCCCHHHHH
Q 017922 6 MYAVDCEMVLCEDGSEGLVRLCVVDRNLK--V---TIDELVKPEKAVA----DYRSEI---TGLTADDLVGVTCSLAEIQ 73 (364)
Q Consensus 6 ~ValD~ETTGl~~g~~~Ii~V~vVd~~G~--v---i~d~lVkP~~~I~----d~~t~i---tGIT~e~L~~ap~~~~eV~ 73 (364)
+++||+||||+++..++|++|++|..++. . .|+.+|+|..+++ ++...+ ||||++++.++| ++.+++
T Consensus 1 lv~iD~ETTGl~p~~d~IieIgaV~~~~~~~~i~~~f~~~i~p~~~~~~~~~~~~~~ih~~tgIt~~~l~~~~-~~~~vl 79 (173)
T cd06135 1 LVWIDLEMTGLDPEKDRILEIACIITDGDLNIIAEGPELVIHQPDEVLDGMDEWCTEMHTKSGLTERVRASTV-TLAQAE 79 (173)
T ss_pred CEEEEEecCCCCCCCCeeEEEEEEEEeCCCceecCceeEEECCCHHHhhhccHHHHHcccccccHHHHHhCCC-CHHHHH
Confidence 58999999999987778999999977542 2 3899999998665 344555 599999999999 999999
Q ss_pred HHHHHhhcC-----CCEEEEechhhHHHHHcccC--------CCccch---HHHhhhhcCCCCccHHHHHHHHhCCccCC
Q 017922 74 KRMKKLLSN-----GTILVGHSLNNDLEVLKLDH--------PRVIDT---SLIFKYVDEYRRPSLYNLCKSVLGYEIRK 137 (364)
Q Consensus 74 ~el~~fl~~-----~~iLVGHn~~fDl~fL~~~~--------~~vIDT---~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~ 137 (364)
.+|.+|+.+ ..++||||+.||+.||+... .+.+|| ..|++.++|..+ + ++++.
T Consensus 80 ~~~~~f~~~~~~~~~~~lvgh~~~FD~~fL~~~~~~~~~~~~~~~~D~~~l~~l~~~l~p~~~-~--------~~~~~-- 148 (173)
T cd06135 80 AELLEFIKKYVPKGKSPLAGNSVHQDRRFLDKYMPELEEYLHYRILDVSSIKELARRWYPEIY-R--------KAPKK-- 148 (173)
T ss_pred HHHHHHHHHhcCCCCCceeecchhhCHHHHHHHHHHHhccCCcchhhHHHHHHHHHHhCcHhh-h--------cCCCC--
Confidence 999999943 36999999999999998742 346887 457777665111 1 34443
Q ss_pred CCCCCChHHHHHHHHHHHHHHHH
Q 017922 138 KGTPHNCLDDASAAMKLVLAIIE 160 (364)
Q Consensus 138 ~~~~H~Al~DA~Ata~L~~~~le 160 (364)
+.+|+|++||++|+.+|.++++
T Consensus 149 -~~~HrAl~Da~~~~~~~~~~~~ 170 (173)
T cd06135 149 -KGTHRALDDIRESIAELKYYRE 170 (173)
T ss_pred -CCCcchHHHHHHHHHHHHHHHH
Confidence 2489999999999999998874
No 48
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=99.87 E-value=3.4e-22 Score=225.81 Aligned_cols=158 Identities=20% Similarity=0.331 Sum_probs=139.9
Q ss_pred CCcEEEEEEeccCCCCCcccEEEEEEEEc-CCcEE--EEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHh
Q 017922 3 SNIMYAVDCEMVLCEDGSEGLVRLCVVDR-NLKVT--IDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKL 79 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~~Ii~V~vVd~-~G~vi--~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~f 79 (364)
...||++|+||||+++..++|++|++|.. +|.++ |+.||+|..+++++++.+||||++|+.+++ ++.+|+++|.+|
T Consensus 418 ~~~~VVfDLETTGL~~~~deIIEIgAV~V~~G~iie~F~~~V~P~~~I~~~~~~LTGIT~e~L~~ap-s~~EaL~~f~~f 496 (1437)
T PRK00448 418 DATYVVFDVETTGLSAVYDEIIEIGAVKIKNGEIIDKFEFFIKPGHPLSAFTTELTGITDDMVKDAP-SIEEVLPKFKEF 496 (1437)
T ss_pred cCcEEEEEhhhcCCCCchhhhheeeeEEEeCCeEeeeEEEEECCCCCCCHHHHHHhCCCHHHHcCCC-CHHHHHHHHHHH
Confidence 45799999999999988889999999876 56654 899999999999999999999999999999 999999999999
Q ss_pred hcCCCEEEEechhhHHHHHccc-----C----CCccchHHHhhhhcC-CCCccHHHHHHHHhCCccCCCCCCCChHHHHH
Q 017922 80 LSNGTILVGHSLNNDLEVLKLD-----H----PRVIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDAS 149 (364)
Q Consensus 80 l~~~~iLVGHn~~fDl~fL~~~-----~----~~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~ 149 (364)
+ ++.+|||||+.||+.||+.. . ..++||..+++..++ ..+++|..|| +++|++... +|+|+.||.
T Consensus 497 i-gg~vLVAHNa~FD~~fL~~~l~rlgl~~l~~~~IDTLelar~l~p~~k~~kL~~LA-k~lGL~~~~---~HrAl~DA~ 571 (1437)
T PRK00448 497 C-GDSILVAHNASFDVGFINTNYEKLGLEKIKNPVIDTLELSRFLYPELKSHRLNTLA-KKFGVELEH---HHRADYDAE 571 (1437)
T ss_pred h-CCCEEEEeCccccHHHHHHHHHHcCCccccccceeHHHHHHHHcCccccccHHHHH-HHcCCCCCC---CcChHHHHH
Confidence 9 89999999999999999642 1 247999999999887 7899999999 667999863 799999999
Q ss_pred HHHHHHHHHHHhcccCC
Q 017922 150 AAMKLVLAIIERRVDNA 166 (364)
Q Consensus 150 Ata~L~~~~le~g~~~~ 166 (364)
+|++||.++++...+.+
T Consensus 572 aTa~lf~~ll~~l~~~g 588 (1437)
T PRK00448 572 ATAYLLIKFLKDLKEKG 588 (1437)
T ss_pred HHHHHHHHHHHHHHHcC
Confidence 99999999987654433
No 49
>PTZ00315 2'-phosphotransferase; Provisional
Probab=99.87 E-value=2.1e-21 Score=201.86 Aligned_cols=157 Identities=15% Similarity=0.217 Sum_probs=128.2
Q ss_pred CcEEEEEEeccCCCCC---cccEEEEEEEEc---CCcEE--EEEEEcCCC--cccccccccCCCChhhhcCCCCCHHHHH
Q 017922 4 NIMYAVDCEMVLCEDG---SEGLVRLCVVDR---NLKVT--IDELVKPEK--AVADYRSEITGLTADDLVGVTCSLAEIQ 73 (364)
Q Consensus 4 ~~~ValD~ETTGl~~g---~~~Ii~V~vVd~---~G~vi--~d~lVkP~~--~I~d~~t~itGIT~e~L~~ap~~~~eV~ 73 (364)
..||+||+||||.++. .++||+|++|.. +|+++ |++||+|.. +|+.+++.+||||++||.++| +|.+|+
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 DAYVVLDFEATCEADRRIEDAEVIEFPMVLVDARTATPVAEFQRYVRPVKNPVLSRFCTELTGITQSMVSRAD-PFPVVY 134 (582)
T ss_pred CeEEEEEEecCCCCCCCCCCCceEEEEEEEEEccCCEEEEEEEEEECCCCCCCCChhHhhhcCcCHHHHhcCC-CHHHHH
Confidence 5799999999998753 358999999875 56544 889999987 799999999999999999999 999999
Q ss_pred HHHHHhhcCCC----------EEEEechhhHHH-HHccc------------CCCccchH-HHhhhhcC------------
Q 017922 74 KRMKKLLSNGT----------ILVGHSLNNDLE-VLKLD------------HPRVIDTS-LIFKYVDE------------ 117 (364)
Q Consensus 74 ~el~~fl~~~~----------iLVGHn~~fDl~-fL~~~------------~~~vIDT~-~L~r~~~~------------ 117 (364)
.+|.+|+ ++. .+|+||..||+. ||... +..++|.. .+++..++
T Consensus 135 ~ef~~fL-~~~~~~e~~~~~~~~vah~g~fDl~~fL~~e~~~~~~~g~p~~f~~widLk~~lar~l~p~~~~~~~~~~~~ 213 (582)
T PTZ00315 135 CEALQFL-AEAGLGDAPPLRSYCVVTCGDWDLKTMLPSQMRVSGQQGTPLSFQRWCNLKKYMSQLGFGNGSGCGGGATPP 213 (582)
T ss_pred HHHHHHH-hccccccccccCceEEEeccHHHHHHHHHHHHHHhhhcCCCcccceEEEhHHHHHHHhCccccccccccccc
Confidence 9999999 443 699999999995 88431 12356643 44554443
Q ss_pred CCCccHHHHHHHHhCCccCCCCCCCChHHHHHHHHHHHHHHHHhcccC
Q 017922 118 YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDASAAMKLVLAIIERRVDN 165 (364)
Q Consensus 118 ~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~Ata~L~~~~le~g~~~ 165 (364)
..+++|.+++ .++|+++. |.+|+|++||++|++||.++++.|.-.
T Consensus 214 ~~~~~L~~al-~~lgL~~e--Gr~HrAlDDA~ntA~L~~~Ll~~g~~~ 258 (582)
T PTZ00315 214 LGPSDMPDML-QMLGLPLQ--GRHHSGIDDCRNIAAVLCELLRRGLVI 258 (582)
T ss_pred cCCcCHHHHH-HHCCCCCC--CCCcCcHHHHHHHHHHHHHHHHcCCEE
Confidence 3568999999 78899976 458999999999999999999988643
No 50
>KOG1275 consensus PAB-dependent poly(A) ribonuclease, subunit PAN2 [Replication, recombination and repair]
Probab=99.64 E-value=1.9e-16 Score=168.22 Aligned_cols=179 Identities=27% Similarity=0.448 Sum_probs=148.9
Q ss_pred CCCcEEEEEEeccCCCC--------Cc--------ccEEEEEEEEcCC----cEEEEEEEcCCCcccccccccCCCChhh
Q 017922 2 TSNIMYAVDCEMVLCED--------GS--------EGLVRLCVVDRNL----KVTIDELVKPEKAVADYRSEITGLTADD 61 (364)
Q Consensus 2 ~~~~~ValD~ETTGl~~--------g~--------~~Ii~V~vVd~~G----~vi~d~lVkP~~~I~d~~t~itGIT~e~ 61 (364)
.++.+|+||-|++.+.. |. -+++||++|+.+| -...|.||--...|.||.|+++||-+.|
T Consensus 908 k~g~LVgiDAEFVtLq~Ee~Eir~DG~~stIkP~~msvARiScvRGeGp~eGiPFiDDYv~T~d~VvDYLTqySGI~PGD 987 (1118)
T KOG1275|consen 908 KSGDLVGIDAEFVTLQTEELEIRSDGKTSTIKPSRMSVARISCVRGEGPNEGIPFIDDYVSTDDKVVDYLTQYSGIKPGD 987 (1118)
T ss_pred CCCceeeeehhheecchHHhccccCCceeEeccccceeEEEEEEcccCCCCCCccccceecchhHHHHHHHHhcCCCccc
Confidence 45789999999998742 22 1689999999864 4558899999999999999999999999
Q ss_pred hcCCC-----CCHHHHHHHHHHhhcCCCEEEEechhhHHHHHcccCCC--ccchHHHhhhhcCCCCccHHHHHHHHhCCc
Q 017922 62 LVGVT-----CSLAEIQKRMKKLLSNGTILVGHSLNNDLEVLKLDHPR--VIDTSLIFKYVDEYRRPSLYNLCKSVLGYE 134 (364)
Q Consensus 62 L~~ap-----~~~~eV~~el~~fl~~~~iLVGHn~~fDl~fL~~~~~~--vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~ 134 (364)
|.... +++.-+..++.=++.-|.++|||.+.+|+++|++.-|+ ++||+.||+.-. .+..||+.|++.+||..
T Consensus 988 LDp~~S~K~Lt~lK~~Y~Kl~~Li~~GviFVGHGL~nDFrvINi~Vp~~QiiDTv~lf~~~s-~R~LSLrfLa~~lLg~~ 1066 (1118)
T KOG1275|consen 988 LDPTTSEKRLTTLKVLYLKLRLLIQRGVIFVGHGLQNDFRVINIHVPEEQIIDTVTLFRLGS-QRMLSLRFLAWELLGET 1066 (1118)
T ss_pred cCCccCcceehhHHHHHHHHHHHHHcCcEEEcccccccceEEEEecChhhheeeeEEEeccc-ccEEEHHHHHHHHhcch
Confidence 98654 36788999999999999999999999999999998775 899999988654 47789999999999999
Q ss_pred cCCCCCCCChHHHHHHHHHHHHHHHHhcccCCCCCcccchhHHHHHhhhcCCCCCCC
Q 017922 135 IRKKGTPHNCLDDASAAMKLVLAIIERRVDNAVPLLQEDVAETERARLFLHRIPTKV 191 (364)
Q Consensus 135 i~~~~~~H~Al~DA~Ata~L~~~~le~g~~~~i~~~~~~~~e~~~~~l~~~~iP~~l 191 (364)
||. ..||+++||+.++.||.++++-. ..+.++..+..++..+-|..+
T Consensus 1067 IQ~--~~HDSIeDA~taLkLYk~Yl~lk--------eq~~~~~~l~niye~gr~~q~ 1113 (1118)
T KOG1275|consen 1067 IQM--EAHDSIEDARTALKLYKKYLKLK--------EQGKLESELRNIYECGRPNQF 1113 (1118)
T ss_pred hhc--cccccHHHHHHHHHHHHHHHHHH--------HhhHHHHHHHHHhhcCccccC
Confidence 996 48999999999999999998632 233446666667766666654
No 51
>COG1949 Orn Oligoribonuclease (3'-5' exoribonuclease) [RNA processing and modification]
Probab=99.26 E-value=2.9e-11 Score=107.66 Aligned_cols=146 Identities=22% Similarity=0.268 Sum_probs=102.7
Q ss_pred CCcEEEEEEeccCCCCCcccEEEEEEEE--cCCcEE---EEEEEcCC----CcccccccccC---CCChhhhcCCCCCHH
Q 017922 3 SNIMYAVDCEMVLCEDGSEGLVRLCVVD--RNLKVT---IDELVKPE----KAVADYRSEIT---GLTADDLVGVTCSLA 70 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~~Ii~V~vVd--~~G~vi---~d~lVkP~----~~I~d~~t~it---GIT~e~L~~ap~~~~ 70 (364)
..++|.|||||||++++.+.|++|+.+- .+.+++ .+.-|.-. ..+.+|+++.| |++..-.+... +..
T Consensus 5 ~~nLiWIDlEMTGLd~~~drIIEiA~iVTD~~Lnilaegp~~~Ihq~~e~L~~Mdew~~~~H~~sGL~~rV~~S~~-t~~ 83 (184)
T COG1949 5 KNNLIWIDLEMTGLDPERDRIIEIATIVTDANLNILAEGPVIAIHQSDEQLAKMDEWNTETHGRSGLTERVKASTV-TEA 83 (184)
T ss_pred CCceEEEeeeeccCCcCcceEEEEEEEEecCcccccccCceEEEeCCHHHHHHHHHHHHHccccccHHHHHHHhhc-cHH
Confidence 4689999999999999999999998764 444443 33344432 24567777776 67776666665 899
Q ss_pred HHHHHHHHhhc-----CCCEEEEechhhHHHHHccc--------CCCccchHHHhhhhcCCCCccHHHHHHHHhCCccCC
Q 017922 71 EIQKRMKKLLS-----NGTILVGHSLNNDLEVLKLD--------HPRVIDTSLIFKYVDEYRRPSLYNLCKSVLGYEIRK 137 (364)
Q Consensus 71 eV~~el~~fl~-----~~~iLVGHn~~fDl~fL~~~--------~~~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~ 137 (364)
++-.++++|+. +-+++-|.++.-|.+||... |.|.||++ +|++||+++ .-++..
T Consensus 84 ~aE~~~l~flkkwvp~~~spicGNSI~qDRrFl~r~MP~Le~yfHYR~lDVS------------TlKELa~RW-~P~i~~ 150 (184)
T COG1949 84 EAEAQTLDFLKKWVPKGVSPICGNSIAQDRRFLFRYMPKLEAYFHYRYLDVS------------TLKELARRW-NPEILA 150 (184)
T ss_pred HHHHHHHHHHHHhCCCCCCCCccchhhHHHHHHHHHhhhHHHHhhhHhhhHH------------HHHHHHHhh-CcHhhh
Confidence 98888888883 34789999999999999875 44567766 344444333 112211
Q ss_pred ---CCCCCChHHHHHHHHHHHHHHHHhc
Q 017922 138 ---KGTPHNCLDDASAAMKLVLAIIERR 162 (364)
Q Consensus 138 ---~~~~H~Al~DA~Ata~L~~~~le~g 162 (364)
.+..|.|++|.+-+..=+.++.++.
T Consensus 151 ~~~K~~~H~Al~DI~ESI~EL~~YR~~f 178 (184)
T COG1949 151 GFKKGGTHRALDDIRESIAELRYYREHF 178 (184)
T ss_pred ccccccchhHHHHHHHHHHHHHHHHHHh
Confidence 1458999999998877777776544
No 52
>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=99.19 E-value=1.5e-10 Score=105.44 Aligned_cols=121 Identities=17% Similarity=0.125 Sum_probs=94.3
Q ss_pred EEEEEEeccCC----CCCcccEEEEEEEEc-CCcEE-EEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHh
Q 017922 6 MYAVDCEMVLC----EDGSEGLVRLCVVDR-NLKVT-IDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKL 79 (364)
Q Consensus 6 ~ValD~ETTGl----~~g~~~Ii~V~vVd~-~G~vi-~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~f 79 (364)
+++||+||+|. ++..++|++|+++.. +|... +.....|.... .. ||+..++...+ +..+++..|.++
T Consensus 1 v~~~DIEt~~~~~~p~~~~d~Ii~I~~~~~~~g~~~~~~~~~~~~~~~---~~---~i~~~~v~~~~-~E~~lL~~f~~~ 73 (199)
T cd05160 1 VLSFDIETTPPVGGPEPDRDPIICITYADSFDGVKVVFLLKTSTVGDD---IE---FIDGIEVEYFA-DEKELLKRFFDI 73 (199)
T ss_pred CccEEEeecCCCCCcCCCCCCEEEEEEEEeeCCceeeEEEeecccCCc---CC---CCCCceEEEeC-CHHHHHHHHHHH
Confidence 47899999998 666779999999986 77643 22222332211 11 89999999999 999999999999
Q ss_pred hcCC---CEEEEech-hhHHHHHccc-------C-----------------------CC-ccchHHHhhhhcCCCCccHH
Q 017922 80 LSNG---TILVGHSL-NNDLEVLKLD-------H-----------------------PR-VIDTSLIFKYVDEYRRPSLY 124 (364)
Q Consensus 80 l~~~---~iLVGHn~-~fDl~fL~~~-------~-----------------------~~-vIDT~~L~r~~~~~~~~sL~ 124 (364)
+ +. .++||||+ .||+.+|... . .+ ++|+..+++...+..+|+|+
T Consensus 74 i-~~~dpdiivg~N~~~FD~~~L~~R~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~gr~~~D~~~~~r~~~~l~sy~L~ 152 (199)
T cd05160 74 I-REYDPDILTGYNIDDFDLPYLLKRAEALGIKLTDGIYRRSGGEKSSGSTERIAVKGRVVFDLLAAYKRDFKLKSYTLD 152 (199)
T ss_pred H-HhcCCCEEEEeccCCCcHHHHHHHHHHhCCCcccccccccCCCccCCcccceeeeccEeeehHHHHHHhcCcccCCHH
Confidence 9 44 59999999 8999999641 1 11 58999999887778899999
Q ss_pred HHHHHHhCCc
Q 017922 125 NLCKSVLGYE 134 (364)
Q Consensus 125 ~L~k~~Lgi~ 134 (364)
.+|+.+||..
T Consensus 153 ~v~~~~l~~~ 162 (199)
T cd05160 153 AVAEELLGEG 162 (199)
T ss_pred HHHHHHhCCC
Confidence 9998888764
No 53
>COG5018 KapD Inhibitor of the KinA pathway to sporulation, predicted exonuclease [General function prediction only]
Probab=99.11 E-value=1.1e-10 Score=104.64 Aligned_cols=155 Identities=25% Similarity=0.305 Sum_probs=119.5
Q ss_pred CCCCcEEEEEEeccCCCCC----cccEEEEEE--EEc-CCcEE--EEEEEcCCC--cccccccccCCCChhhhcCCCCCH
Q 017922 1 MTSNIMYAVDCEMVLCEDG----SEGLVRLCV--VDR-NLKVT--IDELVKPEK--AVADYRSEITGLTADDLVGVTCSL 69 (364)
Q Consensus 1 m~~~~~ValD~ETTGl~~g----~~~Ii~V~v--Vd~-~G~vi--~d~lVkP~~--~I~d~~t~itGIT~e~L~~ap~~~ 69 (364)
|....+++||+|.|--+.+ ..+|++|.+ |+. +-+++ |++||+|.. ...++...+||||...|..|| -|
T Consensus 1 ~~~~~lLIID~EaT~~eG~~~~~e~eiiei~a~lv~~id~~vvd~F~syVRP~~~P~Lt~~Ckslt~I~Q~~VD~ap-if 79 (210)
T COG5018 1 MTTNSLLIIDFEATMPEGKYSPQEFEIIEIEAGLVKSIDDEVVDTFSSYVRPKKFPKLTKRCKSLTKITQKQVDEAP-IF 79 (210)
T ss_pred CCCceEEEEEeeeeccCCCCCchhceeeeehhhHHHHhhHHHHHHHHHhcCcccCchHHHHHHHhhhhhhhhccccc-hH
Confidence 5567799999999954321 237888865 443 44433 889999986 568899999999999999999 99
Q ss_pred HHHHHHHHHhhcCCCEE----EEechhhHHHHHccc----C-C------CccchHHHhhhhcC-CCCccHHHHHHHHhCC
Q 017922 70 AEIQKRMKKLLSNGTIL----VGHSLNNDLEVLKLD----H-P------RVIDTSLIFKYVDE-YRRPSLYNLCKSVLGY 133 (364)
Q Consensus 70 ~eV~~el~~fl~~~~iL----VGHn~~fDl~fL~~~----~-~------~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi 133 (364)
+.|+++|..++.+.++= .+-.-+.|++.|.+. + + ..+|...-|...++ .+.-+|.... +.+|.
T Consensus 80 s~v~E~f~r~L~~h~Pr~~~~wa~wG~~Dm~~l~q~~~~~~~~p~~~kgp~vdl~~~yk~v~~~pr~tgln~al-e~~G~ 158 (210)
T COG5018 80 SMVFEDFIRKLNEHDPRKNSTWATWGNMDMKVLKQNCMFNHIPPFPFKGPMVDLSLEYKNVFGDPRLTGLNKAL-EEYGD 158 (210)
T ss_pred HHHHHHHHHHHHhcCcccCCccccccchhHHHHHHHHHhcCCCCccccCccchHHHHHHHHhcCCccccHHHHH-HHhcc
Confidence 99999999999654332 333446899999762 1 1 25898888888887 5557899888 77799
Q ss_pred ccCCCCCCCChHHHHHHHHHHHHHHH
Q 017922 134 EIRKKGTPHNCLDDASAAMKLVLAII 159 (364)
Q Consensus 134 ~i~~~~~~H~Al~DA~Ata~L~~~~l 159 (364)
.++ |..|+|++||+.+++||....
T Consensus 159 sf~--G~~HraldDArn~~rl~klv~ 182 (210)
T COG5018 159 SFT--GTHHRALDDARNAYRLFKLVE 182 (210)
T ss_pred ccC--CchhhhHHHHHHHHHHHHHHc
Confidence 988 579999999999999997554
No 54
>KOG3242 consensus Oligoribonuclease (3'->5' exoribonuclease) [RNA processing and modification]
Probab=99.09 E-value=3e-10 Score=102.19 Aligned_cols=147 Identities=22% Similarity=0.271 Sum_probs=105.6
Q ss_pred CcEEEEEEeccCCCCCcccEEEEEEEEcCC--cEE---EEEEEcCCC----ccccccccc---CCCChhhhcCCCCCHHH
Q 017922 4 NIMYAVDCEMVLCEDGSEGLVRLCVVDRNL--KVT---IDELVKPEK----AVADYRSEI---TGLTADDLVGVTCSLAE 71 (364)
Q Consensus 4 ~~~ValD~ETTGl~~g~~~Ii~V~vVd~~G--~vi---~d~lVkP~~----~I~d~~t~i---tGIT~e~L~~ap~~~~e 71 (364)
.++|.|||||||++-..+.|++|+.+--+| ..+ ++..|+-+. .+.+|...- +|+|..-++..- ++++
T Consensus 26 q~lVWiD~EMTGLdvekd~i~EiacIITD~dL~~~~egpd~vI~~~~evld~MneWc~ehhg~SGLt~kv~~S~~-tl~~ 104 (208)
T KOG3242|consen 26 QPLVWIDCEMTGLDVEKDRIIEIACIITDGDLNPVAEGPDLVIHQPKEVLDKMNEWCIEHHGNSGLTEKVLASKI-TLAD 104 (208)
T ss_pred CceEEEeeeccccccccceeEEEEEEEecCCccccccCccchhcCCHHHHHHHHHHHHHhccchhHHHHHHHhhc-cHHH
Confidence 579999999999998888999998775444 332 677777554 344454443 588998888887 9999
Q ss_pred HHHHHHHhhc-----CCCEEEEechhhHHHHHccc--------CCCccchHHHhhhhcCCCCccHHHHHHHHhCCccC--
Q 017922 72 IQKRMKKLLS-----NGTILVGHSLNNDLEVLKLD--------HPRVIDTSLIFKYVDEYRRPSLYNLCKSVLGYEIR-- 136 (364)
Q Consensus 72 V~~el~~fl~-----~~~iLVGHn~~fDl~fL~~~--------~~~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~-- 136 (364)
+-.++++|+. +..+|-|.++.-|..||... |.|+||++. .+.||++++-....
T Consensus 105 aEnevl~yikk~ip~~~~~laGNSV~~DrlFl~k~mPk~~~~lhyrivDVSt------------IkeL~~Rw~P~~~~~a 172 (208)
T KOG3242|consen 105 AENEVLEYIKKHIPKGKCPLAGNSVYMDRLFLKKYMPKLIKHLHYRIVDVST------------IKELARRWYPDIKARA 172 (208)
T ss_pred HHHHHHHHHHHhCCCCCCCccCcchhhHHHHHHHHhHHHHHhcceeeeeHHH------------HHHHHHHhCchhhccC
Confidence 9999999882 45788899999999999874 456788774 33344443221111
Q ss_pred -CCCCCCChHHHHHHHHHHHHHHHHhcc
Q 017922 137 -KKGTPHNCLDDASAAMKLVLAIIERRV 163 (364)
Q Consensus 137 -~~~~~H~Al~DA~Ata~L~~~~le~g~ 163 (364)
.....|+|++|.+-+..=+.++.+.-+
T Consensus 173 PkK~~~HrAldDI~ESI~ELq~Yr~nif 200 (208)
T KOG3242|consen 173 PKKKATHRALDDIRESIKELQYYRENIF 200 (208)
T ss_pred cccccccchHHHHHHHHHHHHHHHHHhc
Confidence 012479999999998877777765544
No 55
>KOG0542 consensus Predicted exonuclease [Replication, recombination and repair]
Probab=99.08 E-value=4.9e-10 Score=106.04 Aligned_cols=159 Identities=16% Similarity=0.286 Sum_probs=121.6
Q ss_pred cEEEEEEeccCCCCCc----ccEEEEEEEEc----CCcE--EEEEEEcCCC--cccccccccCCCChhhhcCCCCCHHHH
Q 017922 5 IMYAVDCEMVLCEDGS----EGLVRLCVVDR----NLKV--TIDELVKPEK--AVADYRSEITGLTADDLVGVTCSLAEI 72 (364)
Q Consensus 5 ~~ValD~ETTGl~~g~----~~Ii~V~vVd~----~G~v--i~d~lVkP~~--~I~d~~t~itGIT~e~L~~ap~~~~eV 72 (364)
-+++||+|+|.-+.+. .+||+.-+|-. ++.+ .|++||+|.. ..++|.+.+|||..++|..+| +|.+|
T Consensus 57 YLliiDFEaTC~e~~~~~~~~EIIEfP~V~l~~~~~~~Ie~eF~qYVrP~~np~LS~fC~~lTgI~Q~tVD~a~-~f~~v 135 (280)
T KOG0542|consen 57 YLLILDFEATCEEGNKPHYVQEIIEFPAVLLDNTETSIIEDEFHQYVRPVENPRLSDFCTSLTGIQQETVDEAP-TFPQV 135 (280)
T ss_pred eEEEEeeeeeccccCCCCcchheeecceeEeeccchhhHHHHHHhhcCcccCchHHHHHHHhhCchHhhhccCC-CHHHH
Confidence 4689999999876443 38999887732 3332 4899999974 678999999999999999999 99999
Q ss_pred HHHHHHhhcCC--------CEEEEechhhHHH-HHccc-------CC----CccchHHHhhhhcCC-CCccHHHHHHHHh
Q 017922 73 QKRMKKLLSNG--------TILVGHSLNNDLE-VLKLD-------HP----RVIDTSLIFKYVDEY-RRPSLYNLCKSVL 131 (364)
Q Consensus 73 ~~el~~fl~~~--------~iLVGHn~~fDl~-fL~~~-------~~----~vIDT~~L~r~~~~~-~~~sL~~L~k~~L 131 (364)
+++|..++... .-+|- .-..||. ||... .| .+||.-..|+..+.. ..-++..+. +++
T Consensus 136 l~~f~~Wlr~~~~~~k~~~~Afvt-dg~wDl~~~l~~qck~~~i~~P~~f~qwInirk~yk~~y~~~~~t~it~mL-e~~ 213 (280)
T KOG0542|consen 136 LSEFDSWLRKDSLGDKNGKFAFVT-DGDWDLWVFLQYQCKLKNIRIPAFFNQWINIRKIYKNFYNRPAPTNITGML-EHY 213 (280)
T ss_pred HHHHHHHHHHhhcccccCceEEEe-CchhhHHHHHHHHHHHhcCCCcHHHHHHhHHHHHHHHHhcCccccCHHHHH-HHh
Confidence 99999988321 12222 2345664 44332 22 379998888887663 577888888 888
Q ss_pred CCccCCCCCCCChHHHHHHHHHHHHHHHHhcccCCCC
Q 017922 132 GYEIRKKGTPHNCLDDASAAMKLVLAIIERRVDNAVP 168 (364)
Q Consensus 132 gi~i~~~~~~H~Al~DA~Ata~L~~~~le~g~~~~i~ 168 (364)
|+++. |..|+.++||+.++.+..+++..|....+.
T Consensus 214 gL~f~--Gr~HsGiDDa~Nia~I~~kM~~dg~~~~In 248 (280)
T KOG0542|consen 214 GLQFE--GRAHSGIDDARNIARIAQKMIRDGAEFRIN 248 (280)
T ss_pred CCccc--CCcccCchhHHHHHHHHHHHHhCCcEEEec
Confidence 99998 579999999999999999999888766553
No 56
>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=99.02 E-value=8.4e-09 Score=92.33 Aligned_cols=143 Identities=20% Similarity=0.203 Sum_probs=101.1
Q ss_pred CCCcEEEEEEeccCCCCCcccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhc
Q 017922 2 TSNIMYAVDCEMVLCEDGSEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLS 81 (364)
Q Consensus 2 ~~~~~ValD~ETTGl~~g~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~ 81 (364)
+...++++|+|++|+.+....|+.+++....+...| + | +.+ +.+ .+.+ ++.++...|.+++.
T Consensus 3 ~~~~~~a~d~e~~~~~~~~~~i~~l~~~~~~~~~~~---~-~---~~~--~~~--------~~~~-~~~~~~~~l~~~l~ 64 (193)
T cd06139 3 EKAKVFAFDTETTSLDPMQAELVGISFAVEPGEAYY---I-P---LGH--DYG--------GEQL-PREEVLAALKPLLE 64 (193)
T ss_pred ccCCeEEEEeecCCCCcCCCeEEEEEEEcCCCCEEE---E-e---cCC--Ccc--------ccCC-CHHHHHHHHHHHHh
Confidence 346789999999999875667888888765554322 1 1 111 011 1334 78889999999994
Q ss_pred CC-CEEEEechhhHHHHHcccC----CCccchHHHhhhhcCCC-CccHHHHHHHHhCCccCC---------------C--
Q 017922 82 NG-TILVGHSLNNDLEVLKLDH----PRVIDTSLIFKYVDEYR-RPSLYNLCKSVLGYEIRK---------------K-- 138 (364)
Q Consensus 82 ~~-~iLVGHn~~fDl~fL~~~~----~~vIDT~~L~r~~~~~~-~~sL~~L~k~~Lgi~i~~---------------~-- 138 (364)
+. ..+||||+.||+.+|.... ..+.||..+++.+.|.. +++|.+|+++++|..... .
T Consensus 65 ~~~~~~v~hn~k~d~~~l~~~gi~~~~~~~Dt~l~a~ll~p~~~~~~l~~l~~~~l~~~~~~~~~~~~k~~~~~~~~~~~ 144 (193)
T cd06139 65 DPSIKKVGQNLKFDLHVLANHGIELRGPAFDTMLASYLLNPGRRRHGLDDLAERYLGHKTISFEDLVGKGKKQITFDQVP 144 (193)
T ss_pred CCCCcEEeeccHHHHHHHHHCCCCCCCCcccHHHHHHHhCCCCCCCCHHHHHHHHhCCCCccHHHHcCCCcCcCCccccC
Confidence 33 3799999999999997532 24799999999988843 679999999998765110 0
Q ss_pred --CCCCChHHHHHHHHHHHHHHHHhc
Q 017922 139 --GTPHNCLDDASAAMKLVLAIIERR 162 (364)
Q Consensus 139 --~~~H~Al~DA~Ata~L~~~~le~g 162 (364)
...|.|..||.++..|+..+.+.-
T Consensus 145 ~~~~~~ya~~d~~~~~~l~~~l~~~l 170 (193)
T cd06139 145 LEKAAEYAAEDADITLRLYELLKPKL 170 (193)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 012458889999999998776543
No 57
>COG2925 SbcB Exonuclease I [DNA replication, recombination, and repair]
Probab=98.96 E-value=2.8e-09 Score=105.90 Aligned_cols=152 Identities=17% Similarity=0.179 Sum_probs=116.3
Q ss_pred CCcEEEEEEeccCCCCCcccEEEEEEEEc--CCcEE---EEEEEcCCCcc--cccccccCCCChhhhcCCCCCHHHHHHH
Q 017922 3 SNIMYAVDCEMVLCEDGSEGLVRLCVVDR--NLKVT---IDELVKPEKAV--ADYRSEITGLTADDLVGVTCSLAEIQKR 75 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~~Ii~V~vVd~--~G~vi---~d~lVkP~~~I--~d~~t~itGIT~e~L~~ap~~~~eV~~e 75 (364)
...|+..|.||.|.++..++..+++.|.- +-+++ ...|++|.... .+...-||||||+.....+++-.+....
T Consensus 8 ~~tF~~yDYETfG~~Pa~DRPaQFAgiRTD~~~NiIgeP~~fyCkpsdDyLP~P~a~LITGITPQ~~~~~G~~E~~F~~~ 87 (475)
T COG2925 8 QPTFLFYDYETFGVHPALDRPAQFAGIRTDIEFNIIGEPIVFYCKPADDYLPQPGAVLITGITPQEAREKGINEAAFAAR 87 (475)
T ss_pred CCcEEEEehhhcCCCcccccchhhheeeccccccccCCCeEEEecCccccCCCCCceeeecCCHHHHHhcCCChHHHHHH
Confidence 35799999999999999999999988854 33333 66789997643 2368899999999999998888888888
Q ss_pred HHH-hhcCCCEEEEec-hhhHHHHHcccC----------------CC--ccchHHHhhhhcC-----------CCCccHH
Q 017922 76 MKK-LLSNGTILVGHS-LNNDLEVLKLDH----------------PR--VIDTSLIFKYVDE-----------YRRPSLY 124 (364)
Q Consensus 76 l~~-fl~~~~iLVGHn-~~fDl~fL~~~~----------------~~--vIDT~~L~r~~~~-----------~~~~sL~ 124 (364)
|.. |...++.+||+| ++||=.+-+..+ .| ++|.++..-.+.| ..+.+|.
T Consensus 88 I~~~ls~P~Tcv~GYNniRFDDEvtRy~fyRNF~DPYa~sWqngNSRWDLLD~~RacyALRPeGI~Wp~n~dG~pSFkLE 167 (475)
T COG2925 88 IHAELTQPNTCVLGYNNIRFDDEVTRYIFYRNFYDPYAWSWQNGNSRWDLLDVVRACYALRPEGINWPENDDGLPSFKLE 167 (475)
T ss_pred HHHHhCCCCeeeecccccccchHHHHHHHHHhcCchhhhhhcCCCchhHHHHHHHHHHhcCcccCCCCcCCCCCcchhhH
Confidence 875 555899999995 899988877521 11 3666665444332 4578899
Q ss_pred HHHHHHhCCccCCCCCCCChHHHHHHHHHHHHHH
Q 017922 125 NLCKSVLGYEIRKKGTPHNCLDDASAAMKLVLAI 158 (364)
Q Consensus 125 ~L~k~~Lgi~i~~~~~~H~Al~DA~Ata~L~~~~ 158 (364)
+|. .--|+...+ +|+|+.|++||..+....
T Consensus 168 hLt-~ANgieH~n---AHdAmsDVyATIamAklv 197 (475)
T COG2925 168 HLT-KANGIEHSN---AHDAMSDVYATIAMAKLV 197 (475)
T ss_pred HHh-hccccccch---hhHHHHHHHHHHHHHHHH
Confidence 999 555877654 899999999999887543
No 58
>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=98.70 E-value=3.9e-07 Score=79.91 Aligned_cols=133 Identities=23% Similarity=0.236 Sum_probs=83.1
Q ss_pred CCcEEEEEEeccCCCC--CcccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhh
Q 017922 3 SNIMYAVDCEMVLCED--GSEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLL 80 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~--g~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl 80 (364)
..++++||+||+++.. ....++-|.+-..++.. ++.|-.. .. . . +...|.+++
T Consensus 19 ~~~~~a~D~E~~~~~~~~~~~~~~~iq~~~~~~~~----i~~~~~~-----------~~-----~--~---~~~~l~~ll 73 (176)
T PF01612_consen 19 NAKVLAFDTETTGLDPYSYNPKIALIQLATGEGCY----IIDPIDL-----------GD-----N--W---ILDALKELL 73 (176)
T ss_dssp TTSEEEEEEEEETSTSTTSSEEEEEEEEEESCEEE----EECGTTS-----------TT-----T--T---HHHHHHHHH
T ss_pred CCCeEEEEEEECCCCccccCCeEEEEEEecCCCce----eeeeccc-----------cc-----c--c---hHHHHHHHH
Confidence 3569999999999986 33334444444442221 2222110 00 0 0 666777777
Q ss_pred c-CCCEEEEechhhHHHHHccc----CCCccchHHHhhhhcCCCCccHHHHHHHHhC-CccCCC---CC-C---------
Q 017922 81 S-NGTILVGHSLNNDLEVLKLD----HPRVIDTSLIFKYVDEYRRPSLYNLCKSVLG-YEIRKK---GT-P--------- 141 (364)
Q Consensus 81 ~-~~~iLVGHn~~fDl~fL~~~----~~~vIDT~~L~r~~~~~~~~sL~~L~k~~Lg-i~i~~~---~~-~--------- 141 (364)
. .+.+.||||+.||+.+|... ...++||...+....+..+++|++|+..++| .+...+ +. .
T Consensus 74 ~~~~i~kv~~n~~~D~~~L~~~~~i~~~~~~D~~l~~~~l~~~~~~~L~~L~~~~l~~~~~~~~~~~~~~~~~~~l~~~~ 153 (176)
T PF01612_consen 74 EDPNIIKVGHNAKFDLKWLYRSFGIDLKNVFDTMLAAYLLDPTRSYSLKDLAEEYLGNIDLDKKEQMSDWRKARPLSEEQ 153 (176)
T ss_dssp TTTTSEEEESSHHHHHHHHHHHHTS--SSEEEHHHHHHHTTTSTTSSHHHHHHHHHSEEE-GHCCTTSSTTTSSS-HHHH
T ss_pred hCCCccEEEEEEechHHHHHHHhccccCCccchhhhhhcccccccccHHHHHHHHhhhccCcHHHhhccCCcCCCChHHH
Confidence 3 35689999999999999873 3468999444444444445999999999999 443211 11 1
Q ss_pred -CChHHHHHHHHHHHHHHHH
Q 017922 142 -HNCLDDASAAMKLVLAIIE 160 (364)
Q Consensus 142 -H~Al~DA~Ata~L~~~~le 160 (364)
.-|..||.++.+||..+..
T Consensus 154 ~~YAa~D~~~~~~l~~~l~~ 173 (176)
T PF01612_consen 154 IEYAAQDAVVTFRLYEKLKP 173 (176)
T ss_dssp HHHHHHHHHTHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 1256799999999876653
No 59
>PRK05755 DNA polymerase I; Provisional
Probab=98.64 E-value=3e-07 Score=101.91 Aligned_cols=134 Identities=23% Similarity=0.244 Sum_probs=97.7
Q ss_pred CCcEEEEEEeccCCCCCcccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhcC
Q 017922 3 SNIMYAVDCEMVLCEDGSEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLSN 82 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~~ 82 (364)
...+++||+||+|+++....|+.|++-..+|... ||.+ +++ + . ++++.|.+++..
T Consensus 314 ~~~~~a~DtEt~~l~~~~~~i~~i~ls~~~g~~~---~ip~-----------~~i--------~--~-~~l~~l~~~L~d 368 (880)
T PRK05755 314 AAGLFAFDTETTSLDPMQAELVGLSFAVEPGEAA---YIPL-----------DQL--------D--R-EVLAALKPLLED 368 (880)
T ss_pred ccCeEEEEeccCCCCcccccEEEEEEEeCCCcEE---EEec-----------ccc--------c--H-HHHHHHHHHHhC
Confidence 3578999999999987777788888755555422 2221 111 1 1 577888888844
Q ss_pred CC-EEEEechhhHHHHHcccC----CCccchHHHhhhhcCCCCccHHHHHHHHhCCccCC-------C---------CCC
Q 017922 83 GT-ILVGHSLNNDLEVLKLDH----PRVIDTSLIFKYVDEYRRPSLYNLCKSVLGYEIRK-------K---------GTP 141 (364)
Q Consensus 83 ~~-iLVGHn~~fDl~fL~~~~----~~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~-------~---------~~~ 141 (364)
.. ++||||+.||+.+|.... .+++||..++..+.+...++|+.|+++|+|...-. + ...
T Consensus 369 ~~v~kV~HNakfDl~~L~~~gi~~~~~~~DT~iAa~Ll~~~~~~~L~~L~~~ylg~~~~~~~~~~gk~~~~~~~ple~~~ 448 (880)
T PRK05755 369 PAIKKVGQNLKYDLHVLARYGIELRGIAFDTMLASYLLDPGRRHGLDSLAERYLGHKTISFEEVAGKQLTFAQVDLEEAA 448 (880)
T ss_pred CCCcEEEeccHhHHHHHHhCCCCcCCCcccHHHHHHHcCCCCCCCHHHHHHHHhCCCccchHHhcCCCCCccccCHHHHH
Confidence 33 489999999999997532 34899999888888733599999999998877310 0 023
Q ss_pred CChHHHHHHHHHHHHHHHHh
Q 017922 142 HNCLDDASAAMKLVLAIIER 161 (364)
Q Consensus 142 H~Al~DA~Ata~L~~~~le~ 161 (364)
|.|..|+.+++.||..+.+.
T Consensus 449 ~YAa~Dv~~~~~L~~~L~~~ 468 (880)
T PRK05755 449 EYAAEDADVTLRLHEVLKPK 468 (880)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 78999999999999887765
No 60
>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=98.63 E-value=1.3e-07 Score=77.43 Aligned_cols=59 Identities=25% Similarity=0.382 Sum_probs=45.2
Q ss_pred EEEEEeccCCCCCcccEEEEEEEEcC-CcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhcCC--
Q 017922 7 YAVDCEMVLCEDGSEGLVRLCVVDRN-LKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLSNG-- 83 (364)
Q Consensus 7 ValD~ETTGl~~g~~~Ii~V~vVd~~-G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~~~-- 83 (364)
++||+||||+++...+|+.|++.+.. +...+ .+ |.+++.+.
T Consensus 1 ~~~DiEt~~~~~~~~~i~~i~~~~~~~~~~~~----~~--------------------------------f~~~l~~~~~ 44 (96)
T cd06125 1 IAIDTEATGLDGAVHEIIEIALADVNPEDTAV----ID--------------------------------LKDILRDKPL 44 (96)
T ss_pred CEEEEECCCCCCCCCcEEEEEEEEccCCCEEE----eh--------------------------------HHHHHhhCCC
Confidence 58999999999888889999999873 44221 11 66677333
Q ss_pred CEEEEechhhHHHHHccc
Q 017922 84 TILVGHSLNNDLEVLKLD 101 (364)
Q Consensus 84 ~iLVGHn~~fDl~fL~~~ 101 (364)
.++||||+.||+.||+..
T Consensus 45 ~v~V~hn~~fD~~fL~~~ 62 (96)
T cd06125 45 AILVGHNGSFDLPFLNNR 62 (96)
T ss_pred CEEEEeCcHHhHHHHHHH
Confidence 599999999999999764
No 61
>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=98.52 E-value=1.3e-06 Score=80.18 Aligned_cols=115 Identities=16% Similarity=0.149 Sum_probs=82.3
Q ss_pred cEEEEEEecc---CC-CCCcccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhh
Q 017922 5 IMYAVDCEMV---LC-EDGSEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLL 80 (364)
Q Consensus 5 ~~ValD~ETT---Gl-~~g~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl 80 (364)
++++||+||+ |. ++..+.|+.|+++...+..++. + .+.. ...+.... +-.+++.+|.+++
T Consensus 4 ~i~~fDIEt~~~~g~p~~~~d~Ii~Is~~~~~~~~~~~-~-~~~~-------------~~~v~~~~-~E~~lL~~F~~~i 67 (195)
T cd05780 4 KILSFDIEVLNHEGEPNPEKDPIIMISFADEGGNKVIT-W-KKFD-------------LPFVEVVK-TEKEMIKRFIEIV 67 (195)
T ss_pred eEEEEEEEecCCCCCCCCCCCcEEEEEEecCCCceEEE-e-cCCC-------------CCeEEEeC-CHHHHHHHHHHHH
Confidence 6899999998 44 4555789999998865543321 1 1110 01233334 6778999999999
Q ss_pred cC--CCEEEEechh-hHHHHHccc-------CC-----------------------C-ccchHHHhhhhcCCCCccHHHH
Q 017922 81 SN--GTILVGHSLN-NDLEVLKLD-------HP-----------------------R-VIDTSLIFKYVDEYRRPSLYNL 126 (364)
Q Consensus 81 ~~--~~iLVGHn~~-fDl~fL~~~-------~~-----------------------~-vIDT~~L~r~~~~~~~~sL~~L 126 (364)
.. -.++||||.. ||+.+|... .+ + .+|+..+++......+|+|+.+
T Consensus 68 ~~~dpdiivgyN~~~FD~pyL~~R~~~~gi~~~~~r~~~~~~~~~~g~~~~~~i~Gr~~lDl~~~~~~~~~l~sy~L~~v 147 (195)
T cd05780 68 KEKDPDVIYTYNGDNFDFPYLKKRAEKLGIELDLGRDGSEIKIQRGGFNNASEIKGRIHVDLYPVARRTLNLTRYTLERV 147 (195)
T ss_pred HHcCCCEEEecCCCCCcHHHHHHHHHHhCCCCccccCCCceeEeecceeeeeccCCeEEEeHHHHHHhhCCCCcCcHHHH
Confidence 54 5799999974 999999541 11 1 5888888887666789999999
Q ss_pred HHHHhCCcc
Q 017922 127 CKSVLGYEI 135 (364)
Q Consensus 127 ~k~~Lgi~i 135 (364)
|+.+||.+-
T Consensus 148 ~~~~Lg~~k 156 (195)
T cd05780 148 YEELFGIEK 156 (195)
T ss_pred HHHHhCCCC
Confidence 999999874
No 62
>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=98.52 E-value=1.4e-06 Score=80.05 Aligned_cols=133 Identities=18% Similarity=0.235 Sum_probs=87.5
Q ss_pred CCCcEEEEEEeccCCCC----CcccEEEEEEEEcCCcE-EEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHH
Q 017922 2 TSNIMYAVDCEMVLCED----GSEGLVRLCVVDRNLKV-TIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRM 76 (364)
Q Consensus 2 ~~~~~ValD~ETTGl~~----g~~~Ii~V~vVd~~G~v-i~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el 76 (364)
....+|+||+|.+.... +.-++++|+. .+.+ ++|.+ . +.. . +-..+.+.|
T Consensus 20 ~~~~vig~D~Ew~~~~~~~~~~~v~LiQiat---~~~~~lid~~-~--------------~~~----~---~~~~~~~~L 74 (193)
T cd06146 20 EAGRVVGIDSEWKPSFLGDSDPRVAILQLAT---EDEVFLLDLL-A--------------LEN----L---ESEDWDRLL 74 (193)
T ss_pred ccCCEEEEECccCCCccCCCCCCceEEEEec---CCCEEEEEch-h--------------ccc----c---chHHHHHHH
Confidence 45689999999986642 2225666662 2222 22221 1 110 0 122344556
Q ss_pred HHhhcCC-CEEEEechhhHHHHHcccC----------CCccchHHHhhhhcC-----------CCCccHHHHHHHHhCCc
Q 017922 77 KKLLSNG-TILVGHSLNNDLEVLKLDH----------PRVIDTSLIFKYVDE-----------YRRPSLYNLCKSVLGYE 134 (364)
Q Consensus 77 ~~fl~~~-~iLVGHn~~fDl~fL~~~~----------~~vIDT~~L~r~~~~-----------~~~~sL~~L~k~~Lgi~ 134 (364)
.+++... -+.|||++.+|+.+|...+ ..++||..++..+.. ...+||..||+.+||.+
T Consensus 75 ~~ll~d~~i~KVg~~~~~D~~~L~~~~~~~~~~~~~~~~v~Dl~~~a~~l~~~~~~~~~~~~~~~~~sL~~l~~~~lg~~ 154 (193)
T cd06146 75 KRLFEDPDVLKLGFGFKQDLKALSASYPALKCMFERVQNVLDLQNLAKELQKSDMGRLKGNLPSKTKGLADLVQEVLGKP 154 (193)
T ss_pred HHHhCCCCeeEEEechHHHHHHHHHhcCccccccccCCceEEHHHHHHHHhhccccccccccCcccCCHHHHHHHHhCCC
Confidence 7777443 4569999999999998643 258999998886542 25789999999999988
Q ss_pred cCCCC-------------CCCChHHHHHHHHHHHHHHH
Q 017922 135 IRKKG-------------TPHNCLDDASAAMKLVLAII 159 (364)
Q Consensus 135 i~~~~-------------~~H~Al~DA~Ata~L~~~~l 159 (364)
+.... .-+-|..||.++..||.++.
T Consensus 155 l~K~~q~SdW~~rpLs~~Qi~YAA~Da~~l~~l~~~L~ 192 (193)
T cd06146 155 LDKSEQCSNWERRPLREEQILYAALDAYCLLEVFDKLL 192 (193)
T ss_pred cCcccccCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHh
Confidence 76420 12557899999999998765
No 63
>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=98.25 E-value=4.9e-05 Score=64.64 Aligned_cols=104 Identities=28% Similarity=0.255 Sum_probs=70.7
Q ss_pred EEEEEEeccCCCCCcccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhcCC-C
Q 017922 6 MYAVDCEMVLCEDGSEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLSNG-T 84 (364)
Q Consensus 6 ~ValD~ETTGl~~g~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~~~-~ 84 (364)
++++|+|+.+..+....|..+++... +...| +... .. ...+.+.|.+++... .
T Consensus 2 ~l~~d~e~~~~~~~~~~i~~~~l~~~-~~~~~---i~~~----~~------------------~~~~~~~l~~~l~~~~~ 55 (155)
T cd00007 2 EVAFDTETTGLNYHRGKLVGIQIATA-GEAAY---IPDE----LE------------------LEEDLEALKELLEDEDI 55 (155)
T ss_pred ceEEEEecCCCCcCCCeEEEEEEEEC-CcEEE---EEcC----CC------------------HHHHHHHHHHHHcCCCC
Confidence 68999998876632334665555543 32222 2110 00 145667788888433 4
Q ss_pred EEEEechhhHHHHHcccC----CCccchHHHhhhhcCCC-CccHHHHHHHHhCCcc
Q 017922 85 ILVGHSLNNDLEVLKLDH----PRVIDTSLIFKYVDEYR-RPSLYNLCKSVLGYEI 135 (364)
Q Consensus 85 iLVGHn~~fDl~fL~~~~----~~vIDT~~L~r~~~~~~-~~sL~~L~k~~Lgi~i 135 (364)
.+||||+.||+.+|.... ..++||..++..+.|.. +++|+.|++++++..+
T Consensus 56 ~~v~~~~k~d~~~L~~~~~~~~~~~~D~~~~ayll~~~~~~~~l~~l~~~~l~~~~ 111 (155)
T cd00007 56 TKVGHDAKFDLVVLARDGIELPGNIFDTMLAAYLLNPGEGSHSLDDLAKEYLGIEL 111 (155)
T ss_pred cEEeccHHHHHHHHHHCCCCCCCCcccHHHHHHHhCCCCCcCCHHHHHHHHcCCCC
Confidence 599999999999997532 24799999999988844 6799999999988774
No 64
>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=98.21 E-value=1.4e-05 Score=73.16 Aligned_cols=106 Identities=19% Similarity=0.137 Sum_probs=77.5
Q ss_pred CcEEEEEEecc---CC-CCCcccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHh
Q 017922 4 NIMYAVDCEMV---LC-EDGSEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKL 79 (364)
Q Consensus 4 ~~~ValD~ETT---Gl-~~g~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~f 79 (364)
-++++||+||+ |+ +++.+.|+.|++...+|.+.+-. .... +-.+++..|.++
T Consensus 3 l~~l~fDIEt~~~~gfp~~~~d~Ii~Is~~~~~g~~~~~~-----------------------~~~~-~E~~lL~~F~~~ 58 (188)
T cd05781 3 LKTLAFDIEVYSKYGTPNPRRDPIIVISLATSNGDVEFIL-----------------------AEGL-DDRKIIREFVKY 58 (188)
T ss_pred ceEEEEEEEecCCCCCCCCCCCCEEEEEEEeCCCCEEEEE-----------------------ecCC-CHHHHHHHHHHH
Confidence 36899999999 44 45567899999988777632110 0123 778999999999
Q ss_pred hcCC--CEEEEech-hhHHHHHccc-------C---------C------------C-ccchHHHhhhhcCCCCccHHHHH
Q 017922 80 LSNG--TILVGHSL-NNDLEVLKLD-------H---------P------------R-VIDTSLIFKYVDEYRRPSLYNLC 127 (364)
Q Consensus 80 l~~~--~iLVGHn~-~fDl~fL~~~-------~---------~------------~-vIDT~~L~r~~~~~~~~sL~~L~ 127 (364)
+..- .+++|||. .||+.+|... . + + .+|...+.+......+++|+.+|
T Consensus 59 i~~~dPd~i~gyN~~~FDlpyl~~Ra~~~gi~~~~gr~~~~~~~~~~~~~~~i~Gr~~iDl~~~~~~~~~l~~y~L~~Va 138 (188)
T cd05781 59 VKEYDPDIIVGYNSNAFDWPYLVERARVLGVKLDVGRRGGSEPSTGVYGHYSITGRLNVDLYDFAEEIPEVKVKTLENVA 138 (188)
T ss_pred HHHcCCCEEEecCCCcCcHHHHHHHHHHhCCCcccccCCCcccccCCcceEeeeeEEEEEhHHHHHhhCCCCCCCHHHHH
Confidence 9544 68999996 5999998541 0 0 0 57888777776667899999999
Q ss_pred HHHhCCc
Q 017922 128 KSVLGYE 134 (364)
Q Consensus 128 k~~Lgi~ 134 (364)
.+||..
T Consensus 139 -~~Lg~~ 144 (188)
T cd05781 139 -EYLGVM 144 (188)
T ss_pred -HHHCCC
Confidence 578864
No 65
>PF04857 CAF1: CAF1 family ribonuclease; InterPro: IPR006941 CAF1 is an RNase of the DEDD superfamily, and a subunit of the Ccr4-Not complex that mediates 3' to 5' mRNA deadenylation. The major pathways of mRNA turnover in eukaryotes initiate with shortening of the poly(A) tail. CAF1 P39008 from SWISSPROT encodes a critical component of the major cytoplasmic deadenylase in yeast. Caf1p is required for normal mRNA deadenylation in vivo and localises to the cytoplasm. Caf1p copurifies with a Ccr4p-dependent poly(A)-specific exonuclease activity. Some members of this family contain a single-stranded nucleic acid binding domain, R3H.; GO: 0005634 nucleus; PDB: 3D45_B 1UG8_A 2D5R_A 2A1S_C 2A1R_A 2FC6_A 1UOC_A 3G10_A 2P51_A 3G0Z_A.
Probab=98.19 E-value=8e-06 Score=78.40 Aligned_cols=151 Identities=17% Similarity=0.122 Sum_probs=90.5
Q ss_pred CcEEEEEEeccCCCCCc---------------------ccEEEEEEEEc---CCcEE-------EEEEEcCCCc-ccccc
Q 017922 4 NIMYAVDCEMVLCEDGS---------------------EGLVRLCVVDR---NLKVT-------IDELVKPEKA-VADYR 51 (364)
Q Consensus 4 ~~~ValD~ETTGl~~g~---------------------~~Ii~V~vVd~---~G~vi-------~d~lVkP~~~-I~d~~ 51 (364)
..|||||+|+||+.... -.|+++++.-. ++... |.-++-|... .. ..
T Consensus 22 ~~fvaiD~EftGl~~~~~~~~~~t~~~rY~~~r~~v~~~~iiQ~Glt~f~~~~~~~~~~~~~~~~nf~~f~~~~~~~-~~ 100 (262)
T PF04857_consen 22 ADFVAIDTEFTGLVSKPPRSRFDTPEERYEKLRANVETFQIIQFGLTLFHDEDGNIPSSYNVWPFNFYLFPLDRDFS-QA 100 (262)
T ss_dssp SSEEEEEEEES-S-SSS-SHCSSHHHHHHHHHHHHHTTBEEEEEEEEEETTTTSEEECCEEEEEEEBSTTSTTTCEE-EH
T ss_pred CCEEEEEeeccccccCCCccccccHHHHHHHHHHhhcccccceeeEEEeecccccCCceeEEEEeeeecccccccee-cc
Confidence 47999999999985211 14888776544 44432 1122222221 11 11
Q ss_pred c-----ccCCCChhhhcCCCCCHHHHHH-----HH------H-HhhcCCCEEEEechhhHHHHHcc--------------
Q 017922 52 S-----EITGLTADDLVGVTCSLAEIQK-----RM------K-KLLSNGTILVGHSLNNDLEVLKL-------------- 100 (364)
Q Consensus 52 t-----~itGIT~e~L~~ap~~~~eV~~-----el------~-~fl~~~~iLVGHn~~fDl~fL~~-------------- 100 (364)
. .-+|+.-..+...++++....+ ++ . .......+|||||.-+|+.+|-.
T Consensus 101 ~sl~FL~~~gfDFn~~~~~GI~y~~~~ee~~~~~~~g~~~v~~~~~~~~~p~Vghn~~~Dl~~l~~~f~~~LP~t~~eF~ 180 (262)
T PF04857_consen 101 SSLQFLRKNGFDFNKWFRDGIPYLSFAEEEKARELLGFSGVIDALKSSKKPIVGHNGLYDLMYLYKKFIGPLPETLEEFK 180 (262)
T ss_dssp HHHHHHHHTT--HHHHHHH-B-HHHHHHHHHHHHHHHTCCCSSHCHCC-SEEEESSTHHHHHHHHHHHTTS--SSHHHHH
T ss_pred hhHHHHHHcccCHHHHHHhCCCcccccccchhhhhHHHHHHHHHhhccCCcEEEeChHhHHHHHHHHhcCCCCCCHHHHH
Confidence 1 2267777777666655544332 11 1 22245589999999999998743
Q ss_pred -----cCCCccchHHHhhhhcCCCCccHHHHHHHHhCCcc----------------------CCCCCCCChHHHHHHHHH
Q 017922 101 -----DHPRVIDTSLIFKYVDEYRRPSLYNLCKSVLGYEI----------------------RKKGTPHNCLDDASAAMK 153 (364)
Q Consensus 101 -----~~~~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i----------------------~~~~~~H~Al~DA~Ata~ 153 (364)
.+|.++||-.|+.... ....+|..|+ ..++..- ..+...|.|--||.+|+.
T Consensus 181 ~~~~~~FP~i~DtK~la~~~~-~~~~~L~~l~-~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~HeAGyDA~mTg~ 258 (262)
T PF04857_consen 181 ELLRELFPRIYDTKYLAEECP-GKSTSLQELA-EELGIRRNPSSISSPEGFPSYDEEKNNFPMFGEKAHEAGYDAYMTGC 258 (262)
T ss_dssp HHHHHHSSSEEEHHHHHTSTT-TS-SSHHHHH-HHTTSTT----EEE-TTS-------------SS-TTSHHHHHHHHHH
T ss_pred HHHHHHCcccccHHHHHHhcc-ccccCHHHHH-HHhCCCccccccccccccccccccccccccCCCCCCCcchHHHHHHH
Confidence 2577899999988665 3677899999 7777653 122348999999999999
Q ss_pred HHHH
Q 017922 154 LVLA 157 (364)
Q Consensus 154 L~~~ 157 (364)
+|.+
T Consensus 259 ~F~~ 262 (262)
T PF04857_consen 259 VFIK 262 (262)
T ss_dssp HHHH
T ss_pred HHcC
Confidence 9863
No 66
>PF13482 RNase_H_2: RNase_H superfamily; PDB: 1TKD_A 1TK5_A 2AJQ_F 1T8E_A 1T7P_A 1SKR_A 1X9W_A 1TK8_A 1TK0_A 1SL2_A ....
Probab=98.18 E-value=4.7e-06 Score=73.31 Aligned_cols=126 Identities=22% Similarity=0.127 Sum_probs=63.5
Q ss_pred EEEEEeccCCCCCcccEEEEEEEEc-CCcEE-EEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhcCCC
Q 017922 7 YAVDCEMVLCEDGSEGLVRLCVVDR-NLKVT-IDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLSNGT 84 (364)
Q Consensus 7 ValD~ETTGl~~g~~~Ii~V~vVd~-~G~vi-~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~~~~ 84 (364)
+.||+||||+.+....+.-|+++.. +++.. |..+..+.. .-.+...++.+++.+..
T Consensus 1 l~~DIET~Gl~~~~~~i~liG~~~~~~~~~~~~~~~~~~~~----------------------~ee~~~~~~~~~l~~~~ 58 (164)
T PF13482_consen 1 LFFDIETTGLSPDNDTIYLIGVADFDDDEIITFIQWFAEDP----------------------DEEEIILEFFELLDEAD 58 (164)
T ss_dssp --EEEEESS-GG-G---EEEEEEE-ETTTTE-EEEE-GGGH----------------------HHHHHHHH--HHHHTT-
T ss_pred CcEEecCCCCCCCCCCEEEEEEEEeCCCceEEeeHhhccCc----------------------HHHHHHHHHHHHHhcCC
Confidence 5799999999987777888888865 33322 444432221 11222223225665889
Q ss_pred EEEEec-hhhHHHHHcccC--------CCccchHHHhhhhcCCCCccHHHHHHHHhCCccCCCCCCCChHHHHHHHHHHH
Q 017922 85 ILVGHS-LNNDLEVLKLDH--------PRVIDTSLIFKYVDEYRRPSLYNLCKSVLGYEIRKKGTPHNCLDDASAAMKLV 155 (364)
Q Consensus 85 iLVGHn-~~fDl~fL~~~~--------~~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~Ata~L~ 155 (364)
.+|+|| .+||+.+|+... ...+|+..+.+.... .+++|+.++ .+||+.... --.+-..+..+|
T Consensus 59 ~iv~yng~~FD~p~L~~~~~~~~~~~~~~~iDl~~~~~~~~~-~~~~Lk~ve-~~lg~~~~~------~~~~G~~~~~~~ 130 (164)
T PF13482_consen 59 NIVTYNGKNFDIPFLKRRAKRYGLPPPFNHIDLLKIIKKHFL-ESYSLKNVE-KFLGIERRD------DDISGSESVKLY 130 (164)
T ss_dssp -EEESSTTTTHHHHHHHHH-HHHH--GGGEEEHHHHHT-TTS-CCTT--SHH-H-----------------HHHHHHHHH
T ss_pred eEEEEeCcccCHHHHHHHHHHcCCCcccchhhHHHHHHhccC-CCCCHHHHh-hhccccccc------CCCCHHHHHHHH
Confidence 999999 589999998732 136898888866544 788999999 668887641 223444566667
Q ss_pred HHHHHhc
Q 017922 156 LAIIERR 162 (364)
Q Consensus 156 ~~~le~g 162 (364)
..++..+
T Consensus 131 ~~~~~~~ 137 (164)
T PF13482_consen 131 KEYLETG 137 (164)
T ss_dssp H---TTG
T ss_pred HHHHhcC
Confidence 7666444
No 67
>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=98.09 E-value=3.5e-05 Score=68.38 Aligned_cols=128 Identities=23% Similarity=0.257 Sum_probs=85.3
Q ss_pred CCcEEEEEEeccCCCC----CcccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHH
Q 017922 3 SNIMYAVDCEMVLCED----GSEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKK 78 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~----g~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~ 78 (364)
...+|+||+|.++... +.-++++|+ ..+.+ .+|.+... .. +.+.|.+
T Consensus 17 ~~~~ig~D~E~~~~~~~~~~~~~~liQl~---~~~~~---~l~~~~~~----------------~~-------~~~~l~~ 67 (170)
T cd06141 17 KEKVVGFDTEWRPSFRKGKRNKVALLQLA---TESRC---LLFQLAHM----------------DK-------LPPSLKQ 67 (170)
T ss_pred CCCEEEEeCccCCccCCCCCCCceEEEEe---cCCcE---EEEEhhhh----------------hc-------ccHHHHH
Confidence 5689999999998754 222466666 11221 12222211 11 1134556
Q ss_pred hhc-CCCEEEEechhhHHHHHcccC----CCccchHHHhhhhcCC-CCccHHHHHHHHhCCccC--CC------------
Q 017922 79 LLS-NGTILVGHSLNNDLEVLKLDH----PRVIDTSLIFKYVDEY-RRPSLYNLCKSVLGYEIR--KK------------ 138 (364)
Q Consensus 79 fl~-~~~iLVGHn~~fDl~fL~~~~----~~vIDT~~L~r~~~~~-~~~sL~~L~k~~Lgi~i~--~~------------ 138 (364)
++. .+.+.|||++.+|+.+|...+ ..++||..++..+.+. ...+|..||..++|..+. ..
T Consensus 68 ll~~~~i~kv~~~~k~D~~~L~~~~g~~~~~~~Dl~~aa~ll~~~~~~~~l~~l~~~~l~~~~~k~k~~~~s~W~~rpLt 147 (170)
T cd06141 68 LLEDPSILKVGVGIKGDARKLARDFGIEVRGVVDLSHLAKRVGPRRKLVSLARLVEEVLGLPLSKPKKVRCSNWEARPLS 147 (170)
T ss_pred HhcCCCeeEEEeeeHHHHHHHHhHcCCCCCCeeeHHHHHHHhCCCcCCccHHHHHHHHcCcccCCCCCcccCCCCCCCCC
Confidence 663 335679999999999997432 3479999999888773 457999999999999876 21
Q ss_pred -CCCCChHHHHHHHHHHHHHHH
Q 017922 139 -GTPHNCLDDASAAMKLVLAII 159 (364)
Q Consensus 139 -~~~H~Al~DA~Ata~L~~~~l 159 (364)
..-|-|..||..+..||..+.
T Consensus 148 ~~qi~YAa~Da~~~~~l~~~l~ 169 (170)
T cd06141 148 KEQILYAATDAYASLELYRKLL 169 (170)
T ss_pred HHHHHHHHHHHHHHHHHHHHHh
Confidence 023568899999999987653
No 68
>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=98.06 E-value=6.6e-05 Score=66.60 Aligned_cols=84 Identities=25% Similarity=0.255 Sum_probs=61.8
Q ss_pred HHHHhhcC-CCEEEEechhhHHHHHccc----CCCccchHHHhhhhcCCCCccHHHHHHHHhCCccCCC-----------
Q 017922 75 RMKKLLSN-GTILVGHSLNNDLEVLKLD----HPRVIDTSLIFKYVDEYRRPSLYNLCKSVLGYEIRKK----------- 138 (364)
Q Consensus 75 el~~fl~~-~~iLVGHn~~fDl~fL~~~----~~~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~~----------- 138 (364)
.|.+++.. +.+.|||++..|+..|... ...++||...+..+.+..+.+|..|+.+++|..+.+.
T Consensus 58 ~L~~lL~d~~i~Kvg~~~k~D~~~L~~~~gi~~~~~~D~~~aa~ll~~~~~~~L~~l~~~~lg~~l~K~~~~s~W~~rpL 137 (161)
T cd06129 58 GLKMLLENPSIVKALHGIEGDLWKLLRDFGEKLQRLFDTTIAANLKGLPERWSLASLVEHFLGKTLDKSISCADWSYRPL 137 (161)
T ss_pred HHHHHhCCCCEEEEEeccHHHHHHHHHHcCCCcccHhHHHHHHHHhCCCCCchHHHHHHHHhCCCCCccceeccCCCCCC
Confidence 34455632 3356999999999998652 2347999998887765456799999999999876431
Q ss_pred --CCCCChHHHHHHHHHHHHHH
Q 017922 139 --GTPHNCLDDASAAMKLVLAI 158 (364)
Q Consensus 139 --~~~H~Al~DA~Ata~L~~~~ 158 (364)
..-|-|..||.++..||.++
T Consensus 138 t~~qi~YAa~Da~~l~~l~~~l 159 (161)
T cd06129 138 TEDQKLYAAADVYALLIIYTKL 159 (161)
T ss_pred CHHHHHHHHHHHHHHHHHHHHH
Confidence 12356789999999998765
No 69
>PRK10829 ribonuclease D; Provisional
Probab=97.85 E-value=0.00029 Score=71.35 Aligned_cols=132 Identities=18% Similarity=0.215 Sum_probs=86.7
Q ss_pred CCCcEEEEEEeccCCCCCcc--cEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHh
Q 017922 2 TSNIMYAVDCEMVLCEDGSE--GLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKL 79 (364)
Q Consensus 2 ~~~~~ValD~ETTGl~~g~~--~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~f 79 (364)
....+++||+|+.....-.. .+++|+ +|..+ .+|.|-. +.+ ...|.++
T Consensus 20 ~~~~~lalDtEf~~~~ty~~~l~LiQl~----~~~~~--~LiD~l~-~~d-----------------------~~~L~~l 69 (373)
T PRK10829 20 RAFPAIALDTEFVRTRTYYPQLGLIQLY----DGEQL--SLIDPLG-ITD-----------------------WSPFKAL 69 (373)
T ss_pred hcCCeEEEecccccCccCCCceeEEEEe----cCCce--EEEecCC-ccc-----------------------hHHHHHH
Confidence 35679999999998654222 344444 33322 3455531 111 1335566
Q ss_pred hcCCCEE-EEechhhHHHHHccc---C-CCccchHHHhhhhcCCCCccHHHHHHHHhCCccCCCC-------------CC
Q 017922 80 LSNGTIL-VGHSLNNDLEVLKLD---H-PRVIDTSLIFKYVDEYRRPSLYNLCKSVLGYEIRKKG-------------TP 141 (364)
Q Consensus 80 l~~~~iL-VGHn~~fDl~fL~~~---~-~~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~~~-------------~~ 141 (364)
+....++ |+|++.+|+.+|... . ..++||...++.+....+.+|..|++.+||+.+.++. .-
T Consensus 70 l~~~~ivKV~H~~~~Dl~~l~~~~g~~p~~~fDTqiaa~~lg~~~~~gl~~Lv~~~lgv~ldK~~~~sDW~~RPLs~~ql 149 (373)
T PRK10829 70 LRDPQVTKFLHAGSEDLEVFLNAFGELPQPLIDTQILAAFCGRPLSCGFASMVEEYTGVTLDKSESRTDWLARPLSERQC 149 (373)
T ss_pred HcCCCeEEEEeChHhHHHHHHHHcCCCcCCeeeHHHHHHHcCCCccccHHHHHHHHhCCccCcccccCCCCCCCCCHHHH
Confidence 6444554 899999999998543 2 3589998777665434578999999999999876531 12
Q ss_pred CChHHHHHHHHHHHHHHHHhcc
Q 017922 142 HNCLDDASAAMKLVLAIIERRV 163 (364)
Q Consensus 142 H~Al~DA~Ata~L~~~~le~g~ 163 (364)
+-|..|+.....||..+...-.
T Consensus 150 ~YAa~Dv~~L~~l~~~L~~~L~ 171 (373)
T PRK10829 150 EYAAADVFYLLPIAAKLMAETE 171 (373)
T ss_pred HHHHHHHHHHHHHHHHHHHHHH
Confidence 4478999999999988765443
No 70
>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=97.84 E-value=0.0005 Score=64.02 Aligned_cols=128 Identities=16% Similarity=0.148 Sum_probs=77.1
Q ss_pred CcEEEEEEeccCC-----CCCcccEEEEEEEEc-CCcEEE-EEEEcCCCcccccc--cccCCCChhhhcCCCCCHHHHHH
Q 017922 4 NIMYAVDCEMVLC-----EDGSEGLVRLCVVDR-NLKVTI-DELVKPEKAVADYR--SEITGLTADDLVGVTCSLAEIQK 74 (364)
Q Consensus 4 ~~~ValD~ETTGl-----~~g~~~Ii~V~vVd~-~G~vi~-d~lVkP~~~I~d~~--t~itGIT~e~L~~ap~~~~eV~~ 74 (364)
-++++||+||.+. ++..+.|+.|+++.. .|..+. ..++.+...--.+. -.+.|. -.+.... +-.+++.
T Consensus 2 lrilafDIE~~~~~~~fP~~~~D~Ii~IS~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~v~~~~-~E~~lL~ 78 (204)
T cd05779 2 PRVLAFDIETTKLPLKFPDAETDQIMMISYMIDGQGYLIVNREIVSEDIEDFEYTPKPEYEGP--FKVFNEP-DEKALLQ 78 (204)
T ss_pred ceEEEEEEEecCCCCCCcCCCCCeEEEEEEEEecCCEEEecccccccccccccccCCCCCCCc--eEEecCC-CHHHHHH
Confidence 4689999999863 244568999999865 453221 11111100000000 011110 0112234 6788999
Q ss_pred HHHHhhcCC--CEEEEech-hhHHHHHccc---C----C-----------------C-ccchHHHhhhhc--CCCCccHH
Q 017922 75 RMKKLLSNG--TILVGHSL-NNDLEVLKLD---H----P-----------------R-VIDTSLIFKYVD--EYRRPSLY 124 (364)
Q Consensus 75 el~~fl~~~--~iLVGHn~-~fDl~fL~~~---~----~-----------------~-vIDT~~L~r~~~--~~~~~sL~ 124 (364)
+|.+++..- .+++|||. .||+.+|... + . + .+|...+.+... +..+++|+
T Consensus 79 ~f~~~i~~~~Pd~i~gyN~~~FD~pyl~~R~~~~~~~~~~~~g~~~~~~~~~~~~gr~~iDl~~~~~~~~~l~~~sysLd 158 (204)
T cd05779 79 RFFEHIREVKPHIIVTYNGDFFDWPFVEARAAIHGLSMEEEIGFRKDSEGEYKSRYIIHMDCFRWVKRDSYLPQGSQGLK 158 (204)
T ss_pred HHHHHHHHhCCCEEEecCccccCHHHHHHHHHHhCCCchhhhCeEecCCCeEEeccEEEEEhHHHHHHhhcCCCCCccHH
Confidence 999999543 49999997 5999998541 0 0 0 478777777532 24689999
Q ss_pred HHHHHHhCCc
Q 017922 125 NLCKSVLGYE 134 (364)
Q Consensus 125 ~L~k~~Lgi~ 134 (364)
.+|+.+||..
T Consensus 159 ~Va~~~Lg~~ 168 (204)
T cd05779 159 AVTKAKLGYD 168 (204)
T ss_pred HHHHHHhCCC
Confidence 9998889874
No 71
>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=97.72 E-value=0.00021 Score=66.61 Aligned_cols=106 Identities=16% Similarity=0.245 Sum_probs=73.0
Q ss_pred CcEEEEEEeccCCC--------CCcccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHH
Q 017922 4 NIMYAVDCEMVLCE--------DGSEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKR 75 (364)
Q Consensus 4 ~~~ValD~ETTGl~--------~g~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~e 75 (364)
-++++||+||.+.. +..+.|+.|++.+..|... ++.. ... +-.+++..
T Consensus 9 lkilsfDIE~~~~~~~~~p~p~~~~d~Ii~Is~~~~~~~~~---~~~~--------------------~~~-~E~~lL~~ 64 (207)
T cd05785 9 LRRLQLDIETYSLPGFFFSNPDRGDDRIIIVALRDNRGWEE---VLHA--------------------EDA-AEKELLEE 64 (207)
T ss_pred ceEEEEEEEecCCCCccCCCCCCCCCeEEEEecccCCCcee---eecc--------------------CCC-CHHHHHHH
Confidence 37899999997632 2335799999876655211 1110 134 78899999
Q ss_pred HHHhhcCC--CEEEEech-hhHHHHHccc-------CC-------------------------------C-ccchHHHhh
Q 017922 76 MKKLLSNG--TILVGHSL-NNDLEVLKLD-------HP-------------------------------R-VIDTSLIFK 113 (364)
Q Consensus 76 l~~fl~~~--~iLVGHn~-~fDl~fL~~~-------~~-------------------------------~-vIDT~~L~r 113 (364)
|.+++..- .+|||||+ .||+.+|... .+ + ++|+..+.+
T Consensus 65 f~~~i~~~dPdii~g~N~~~FD~pyl~~R~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~~~~~i~Gr~~iDl~~~~~ 144 (207)
T cd05785 65 LVAIIRERDPDVIEGHNIFRFDLPYLRRRCRRHGVPLAIGRDGSIPRQRPSRFRFAERLIDYPRYDIPGRHVIDTYFLVQ 144 (207)
T ss_pred HHHHHHHhCCCEEeccCCcccCHHHHHHHHHHhCCCcccccCCCcceEeeccccccccccccceEEecCEEEEEcHHHHH
Confidence 99999543 79999999 8999998530 10 1 278888777
Q ss_pred hh----cCCCCccHHHHHHHHhCCc
Q 017922 114 YV----DEYRRPSLYNLCKSVLGYE 134 (364)
Q Consensus 114 ~~----~~~~~~sL~~L~k~~Lgi~ 134 (364)
.. ....+|+|+.+| .++|..
T Consensus 145 ~~~~~~~~l~sysL~~Va-~~~g~~ 168 (207)
T cd05785 145 LFDVSSRDLPSYGLKAVA-KHFGLA 168 (207)
T ss_pred hhcccccCCCCCCHHHHH-HHhccc
Confidence 53 225789999999 556653
No 72
>COG0349 Rnd Ribonuclease D [Translation, ribosomal structure and biogenesis]
Probab=97.72 E-value=0.00042 Score=69.56 Aligned_cols=133 Identities=20% Similarity=0.214 Sum_probs=89.6
Q ss_pred CcEEEEEEeccCCCCCcccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhcCC
Q 017922 4 NIMYAVDCEMVLCEDGSEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLSNG 83 (364)
Q Consensus 4 ~~~ValD~ETTGl~~g~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~~~ 83 (364)
..+|+||+||.|+.+-...++=|-+-+.++ ..+|.|-.++. +.+ +|..++. +.+
T Consensus 17 ~~~iAiDTEf~r~~t~~p~LcLIQi~~~e~----~~lIdpl~~~~---------------d~~-~l~~Ll~------d~~ 70 (361)
T COG0349 17 SKAIAIDTEFMRLRTYYPRLCLIQISDGEG----ASLIDPLAGIL---------------DLP-PLVALLA------DPN 70 (361)
T ss_pred CCceEEecccccccccCCceEEEEEecCCC----ceEeccccccc---------------ccc-hHHHHhc------CCc
Confidence 469999999999986655544444445555 35666654322 223 3333321 234
Q ss_pred CEEEEechhhHHHHHcccC---C-CccchHHHhhhhcCCCCccHHHHHHHHhCCccCCCCC----CCC---------hHH
Q 017922 84 TILVGHSLNNDLEVLKLDH---P-RVIDTSLIFKYVDEYRRPSLYNLCKSVLGYEIRKKGT----PHN---------CLD 146 (364)
Q Consensus 84 ~iLVGHn~~fDl~fL~~~~---~-~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~~~~----~H~---------Al~ 146 (364)
-+=|-|+++||+.+|...+ | .++||...++...-+.+++|++||++++|+++.++.+ .++ |..
T Consensus 71 v~KIfHaa~~DL~~l~~~~g~~p~plfdTqiAa~l~g~~~~~gl~~Lv~~ll~v~ldK~~q~SDW~~RPLs~~Ql~YAa~ 150 (361)
T COG0349 71 VVKIFHAARFDLEVLLNLFGLLPTPLFDTQIAAKLAGFGTSHGLADLVEELLGVELDKSEQRSDWLARPLSEAQLEYAAA 150 (361)
T ss_pred eeeeeccccccHHHHHHhcCCCCCchhHHHHHHHHhCCcccccHHHHHHHHhCCcccccccccccccCCCCHHHHHHHHH
Confidence 4458899999999998753 3 4899998888765444999999999999999986311 122 467
Q ss_pred HHHHHHHHHHHHHHhc
Q 017922 147 DASAAMKLVLAIIERR 162 (364)
Q Consensus 147 DA~Ata~L~~~~le~g 162 (364)
|+.-...||..+.+.-
T Consensus 151 DV~yL~~l~~~L~~~L 166 (361)
T COG0349 151 DVEYLLPLYDKLTEEL 166 (361)
T ss_pred HHHHHHHHHHHHHHHH
Confidence 7777888887766543
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=97.58 E-value=0.0013 Score=60.66 Aligned_cols=113 Identities=18% Similarity=0.182 Sum_probs=74.5
Q ss_pred cEEEEEEeccCCCCCcccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhcCC-
Q 017922 5 IMYAVDCEMVLCEDGSEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLSNG- 83 (364)
Q Consensus 5 ~~ValD~ETTGl~~g~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~~~- 83 (364)
++++||+||+|-. .|..|+..+...+.++ .+=.+. +.. |. .+.-.+ +-.+++..|.+++..-
T Consensus 4 ~~~~fDIE~~~~~----~i~~i~~~~~~~~~i~-~~~~~~-~~~-------~~---~v~~~~-~E~~lL~~f~~~i~~~d 66 (193)
T cd05784 4 KVVSLDIETSMDG----ELYSIGLYGEGQERVL-MVGDPE-DDA-------PD---NIEWFA-DEKSLLLALIAWFAQYD 66 (193)
T ss_pred cEEEEEeecCCCC----CEEEEEeecCCCCEEE-EECCCC-CCC-------CC---EEEEEC-CHHHHHHHHHHHHHhhC
Confidence 6899999998643 6888888775333222 111111 111 11 122334 6778999999998544
Q ss_pred -CEEEEechh-hHHHHHcc-------cCC-------------------------C-ccchHHHhhh-hcCCCCccHHHHH
Q 017922 84 -TILVGHSLN-NDLEVLKL-------DHP-------------------------R-VIDTSLIFKY-VDEYRRPSLYNLC 127 (364)
Q Consensus 84 -~iLVGHn~~-fDl~fL~~-------~~~-------------------------~-vIDT~~L~r~-~~~~~~~sL~~L~ 127 (364)
.+++|||.. ||+.+|.. .++ + ++|+..+.+. .+...+|+|+++|
T Consensus 67 PDvi~g~N~~~FD~~yl~~R~~~~~i~~~~gR~~~~~~~~~~g~~~~~~~~i~GR~~~D~~~~~k~~~~kl~sy~L~~Va 146 (193)
T cd05784 67 PDIIIGWNVINFDLRLLQRRAEAHGLPLRLGRGGSPLNWRQSGKPGQGFLSLPGRVVLDGIDALKTATYHFESFSLENVA 146 (193)
T ss_pred CCEEEECCCcCcCHHHHHHHHHHhCCCcccccCCCccccccCCcCCcceEEEeeEEEEEhHHHHHHccCCCCcCCHHHHH
Confidence 589999985 89999853 110 1 4788777765 3457899999999
Q ss_pred HHHhCCc
Q 017922 128 KSVLGYE 134 (364)
Q Consensus 128 k~~Lgi~ 134 (364)
+.+||..
T Consensus 147 ~~~Lg~~ 153 (193)
T cd05784 147 QELLGEG 153 (193)
T ss_pred HHHhCCC
Confidence 9899864
No 74
>smart00474 35EXOc 3'-5' exonuclease. 3\' -5' exonuclease proofreading domain present in DNA polymerase I, Werner syndrome helicase, RNase D and other enzymes
Probab=97.56 E-value=0.0053 Score=53.07 Aligned_cols=87 Identities=28% Similarity=0.315 Sum_probs=58.6
Q ss_pred HHHHHHhhc-CCCEEEEechhhHHHHHcc---cCCCccchHHHhhhhcC-CCCccHHHHHHHHhCCccCC--CC----CC
Q 017922 73 QKRMKKLLS-NGTILVGHSLNNDLEVLKL---DHPRVIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRK--KG----TP 141 (364)
Q Consensus 73 ~~el~~fl~-~~~iLVGHn~~fDl~fL~~---~~~~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~--~~----~~ 141 (364)
...|.+++. .+...||||+.+|+.+|+. ..+.+.||...+..+.| ...++|..++..++|..+.. +. ..
T Consensus 64 ~~~l~~~l~~~~~~kv~~d~k~~~~~L~~~gi~~~~~~D~~laayll~p~~~~~~l~~l~~~~l~~~~~~~~~~~~~~~~ 143 (172)
T smart00474 64 LEILKDLLEDETITKVGHNAKFDLHVLARFGIELENIFDTMLAAYLLLGGPSKHGLATLLKEYLGVELDKEEQKSDWGAR 143 (172)
T ss_pred HHHHHHHhcCCCceEEEechHHHHHHHHHCCCcccchhHHHHHHHHHcCCCCcCCHHHHHHHHhCCCCCcccCccccccC
Confidence 344566663 3456899999999999964 22346999988887777 44379999999999887532 00 00
Q ss_pred ---C----ChHHHHHHHHHHHHHHH
Q 017922 142 ---H----NCLDDASAAMKLVLAII 159 (364)
Q Consensus 142 ---H----~Al~DA~Ata~L~~~~l 159 (364)
. -|..||.++..|+..+.
T Consensus 144 ~l~~~~~~ya~~~a~~~~~L~~~l~ 168 (172)
T smart00474 144 PLSEEQLQYAAEDADALLRLYEKLE 168 (172)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHHH
Confidence 0 15566777777765544
No 75
>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=97.53 E-value=0.0013 Score=66.34 Aligned_cols=130 Identities=23% Similarity=0.256 Sum_probs=83.6
Q ss_pred CCcEEEEEEeccCCCCCcc--cEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhh
Q 017922 3 SNIMYAVDCEMVLCEDGSE--GLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLL 80 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~--~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl 80 (364)
...+|+||+|++....-.. .+++|+ ++..+ .+|.|-.. . . ...|.+++
T Consensus 17 ~~~~ia~DtE~~~~~~y~~~l~LiQia----~~~~~--~liD~~~~-~-------------------~----~~~L~~lL 66 (367)
T TIGR01388 17 TFPFVALDTEFVRERTFWPQLGLIQVA----DGEQL--ALIDPLVI-I-------------------D----WSPLKELL 66 (367)
T ss_pred cCCEEEEeccccCCCCCCCcceEEEEe----eCCeE--EEEeCCCc-c-------------------c----HHHHHHHH
Confidence 4679999999987653222 344444 23322 35555211 0 0 12344455
Q ss_pred c-CCCEEEEechhhHHHHHccc---CC-CccchHHHhhhhcCCCCccHHHHHHHHhCCccCCCCC----CC---------
Q 017922 81 S-NGTILVGHSLNNDLEVLKLD---HP-RVIDTSLIFKYVDEYRRPSLYNLCKSVLGYEIRKKGT----PH--------- 142 (364)
Q Consensus 81 ~-~~~iLVGHn~~fDl~fL~~~---~~-~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~~~~----~H--------- 142 (364)
. .+.+.|+|++.+|+.+|... .+ .++||...+..+.+..+++|..|++.|||+.+..+.. ..
T Consensus 67 ~d~~i~KV~h~~k~Dl~~L~~~~~~~~~~~fDtqlAa~lL~~~~~~~l~~Lv~~~Lg~~l~K~~~~sdW~~rPL~~~q~~ 146 (367)
T TIGR01388 67 RDESVVKVLHAASEDLEVFLNLFGELPQPLFDTQIAAAFCGFGMSMGYAKLVQEVLGVELDKSESRTDWLARPLTDAQLE 146 (367)
T ss_pred CCCCceEEEeecHHHHHHHHHHhCCCCCCcccHHHHHHHhCCCCCccHHHHHHHHcCCCCCcccccccCCCCCCCHHHHH
Confidence 3 34457999999999999753 22 4799988777776545679999999999998764210 02
Q ss_pred ChHHHHHHHHHHHHHHHHhc
Q 017922 143 NCLDDASAAMKLVLAIIERR 162 (364)
Q Consensus 143 ~Al~DA~Ata~L~~~~le~g 162 (364)
-|..||.++..||..+.+.-
T Consensus 147 YAa~Dv~~L~~L~~~L~~~L 166 (367)
T TIGR01388 147 YAAADVTYLLPLYAKLMERL 166 (367)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 27788888888887765443
No 76
>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=97.51 E-value=0.0042 Score=54.80 Aligned_cols=129 Identities=24% Similarity=0.252 Sum_probs=80.2
Q ss_pred cEEEEEEeccCCCCCcccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhc-CC
Q 017922 5 IMYAVDCEMVLCEDGSEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLS-NG 83 (364)
Q Consensus 5 ~~ValD~ETTGl~~g~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~-~~ 83 (364)
..+++|+|+.+..+....+..+++... +.+. ||.+. .+ . +...|.+++. .+
T Consensus 13 ~~l~~~~e~~~~~~~~~~~~~i~l~~~-~~~~---~i~~~----------------~~-~-------~~~~l~~ll~~~~ 64 (178)
T cd06142 13 GVIAVDTEFMRLNTYYPRLCLIQISTG-GEVY---LIDPL----------------AI-G-------DLSPLKELLADPN 64 (178)
T ss_pred CeEEEECCccCCCcCCCceEEEEEeeC-CCEE---EEeCC----------------Cc-c-------cHHHHHHHHcCCC
Confidence 489999998766543344655555443 3222 22211 00 0 2334555663 34
Q ss_pred CEEEEechhhHHHHHccc----CCCccchHHHhhhhcCCCCccHHHHHHHHhCCccCCCC---C---C-------CChHH
Q 017922 84 TILVGHSLNNDLEVLKLD----HPRVIDTSLIFKYVDEYRRPSLYNLCKSVLGYEIRKKG---T---P-------HNCLD 146 (364)
Q Consensus 84 ~iLVGHn~~fDl~fL~~~----~~~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~~~---~---~-------H~Al~ 146 (364)
...||||+.+|+.+|... ...+.||...+..+.|..+++|..|+++|+|..+.... . + +.+..
T Consensus 65 i~kv~~d~K~~~~~L~~~~gi~~~~~~D~~laayLl~p~~~~~l~~l~~~~l~~~~~~~~~~~~w~~~~l~~~~~~yaa~ 144 (178)
T cd06142 65 IVKVFHAAREDLELLKRDFGILPQNLFDTQIAARLLGLGDSVGLAALVEELLGVELDKGEQRSDWSKRPLTDEQLEYAAL 144 (178)
T ss_pred ceEEEeccHHHHHHHHHHcCCCCCCcccHHHHHHHhCCCccccHHHHHHHHhCCCCCcccccccCCCCCCCHHHHHHHHH
Confidence 678999999999999543 23468998777777774456999999999988732110 0 0 12667
Q ss_pred HHHHHHHHHHHHHHh
Q 017922 147 DASAAMKLVLAIIER 161 (364)
Q Consensus 147 DA~Ata~L~~~~le~ 161 (364)
||.++..|+..+.+.
T Consensus 145 ~a~~l~~L~~~l~~~ 159 (178)
T cd06142 145 DVRYLLPLYEKLKEE 159 (178)
T ss_pred hHHHHHHHHHHHHHH
Confidence 788888888766543
No 77
>cd05777 DNA_polB_delta_exo DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase delta, a family-B DNA polymerase. The 3'-5' exonuclease domain of eukaryotic DNA polymerase delta. DNA polymerase delta is a family-B DNA polymerase with a catalytic subunit that contains a DEDDy-type DnaQ-like 3'-5' exonuclease domain. It is one of the three DNA-dependent type B DNA polymerases (alpha and epsilon are the other two) that have been identified as essential for nuclear DNA replication in eukaryotes. DNA polymerase delta is the enzyme responsible for both elongation and maturation of Okazaki fragments on the lagging strand. It is also implicated in mismatch repair (MMR) and base excision repair (BER). The catalytic subunit displays both polymerase and 3'-5' exonuclease activities. The exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, with a specific YX(3)D pattern at ExoIII. These motifs are clustered around the active site and contain four conserved acidic
Probab=97.50 E-value=0.0023 Score=60.28 Aligned_cols=121 Identities=17% Similarity=0.182 Sum_probs=79.3
Q ss_pred CcEEEEEEeccCC-----CCCcccEEEEEEEEc-CCc--EEEEE-E-EcCCCcccccccccCCCChhhhcCCCCCHHHHH
Q 017922 4 NIMYAVDCEMVLC-----EDGSEGLVRLCVVDR-NLK--VTIDE-L-VKPEKAVADYRSEITGLTADDLVGVTCSLAEIQ 73 (364)
Q Consensus 4 ~~~ValD~ETTGl-----~~g~~~Ii~V~vVd~-~G~--vi~d~-l-VkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~ 73 (364)
-++++||+||..- ++..+.|+.|+++.. +|. ..... + +++..+++ | ..+...+ +-.+.+
T Consensus 7 l~~ls~DIE~~s~~g~fP~p~~D~Ii~Is~~~~~~~~~~~~~~~~~~l~~~~~~~-------~---~~v~~~~-~E~eLL 75 (230)
T cd05777 7 LRILSFDIECAGRKGVFPEPEKDPVIQIANVVTRQGEGEPFIRNIFTLKTCAPIV-------G---AQVFSFE-TEEELL 75 (230)
T ss_pred ceEEEEEEEECCCCCCCCCCCCCeEEEEEEEEEeCCCCCCceeEEEEeCCCCCCC-------C---CEEEEEC-CHHHHH
Confidence 3689999999853 345568999998854 443 11111 1 23332222 1 1223344 778899
Q ss_pred HHHHHhhcC--CCEEEEechh-hHHHHHcc-------c----C------C-------------------------C-ccc
Q 017922 74 KRMKKLLSN--GTILVGHSLN-NDLEVLKL-------D----H------P-------------------------R-VID 107 (364)
Q Consensus 74 ~el~~fl~~--~~iLVGHn~~-fDl~fL~~-------~----~------~-------------------------~-vID 107 (364)
..|.+++.. -.+++|||+. ||+.+|.. . . + + ++|
T Consensus 76 ~~f~~~i~~~DPDii~GyN~~~FDl~yL~~R~~~l~i~~~~~lgR~~~~~~~~~~~~~~~~~~g~~~~~~~~i~GR~~iD 155 (230)
T cd05777 76 LAWRDFVQEVDPDIITGYNICNFDLPYLLERAKALKLNTFPFLGRIKNIKSTIKDTTFSSKQMGTRETKEINIEGRIQFD 155 (230)
T ss_pred HHHHHHHHhcCCCEEEEecCCCCCHHHHHHHHHHhCCccccccccccCCceeEeCCcccccccccccceEEEEcCEEeee
Confidence 999998843 2699999975 89998842 0 0 0 0 367
Q ss_pred hHHHhhhhcCCCCccHHHHHHHHhCCcc
Q 017922 108 TSLIFKYVDEYRRPSLYNLCKSVLGYEI 135 (364)
Q Consensus 108 T~~L~r~~~~~~~~sL~~L~k~~Lgi~i 135 (364)
+..+++......+|+|+++|+.+||..-
T Consensus 156 ~~~~~~~~~kl~sy~L~~Va~~~Lg~~k 183 (230)
T cd05777 156 LLQVIQRDYKLRSYSLNSVSAHFLGEQK 183 (230)
T ss_pred HHHHHHHhcCcccCcHHHHHHHHhCCCC
Confidence 7777766555789999999999998654
No 78
>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=97.47 E-value=0.00074 Score=62.10 Aligned_cols=89 Identities=22% Similarity=0.192 Sum_probs=59.3
Q ss_pred HHHHHhhcC-CCEEEEechhhHHHHHcc----cCCCccchHHHhhhhcC--------CCCccHHHHHHHHhCCccCC---
Q 017922 74 KRMKKLLSN-GTILVGHSLNNDLEVLKL----DHPRVIDTSLIFKYVDE--------YRRPSLYNLCKSVLGYEIRK--- 137 (364)
Q Consensus 74 ~el~~fl~~-~~iLVGHn~~fDl~fL~~----~~~~vIDT~~L~r~~~~--------~~~~sL~~L~k~~Lgi~i~~--- 137 (364)
..|.+++.. +.+.|||++.+|+.+|.. ....+.||...+..+.+ ....+|..+++.+||+++..
T Consensus 55 ~~L~~iLe~~~i~Kv~h~~k~D~~~L~~~~gi~~~~~fDt~iA~~lL~~~~~~~~~~~~~~~L~~l~~~~l~~~~~k~~~ 134 (197)
T cd06148 55 NGLKDILESKKILKVIHDCRRDSDALYHQYGIKLNNVFDTQVADALLQEQETGGFNPDRVISLVQLLDKYLYISISLKED 134 (197)
T ss_pred HHHHHHhcCCCccEEEEechhHHHHHHHhcCccccceeeHHHHHHHHHHHhcCCccccccccHHHHHHHhhCCChHHHHH
Confidence 345555533 345699999999999942 22347999876555433 12369999999999887621
Q ss_pred ---------C---------CCCCChHHHHHHHHHHHHHHHHhc
Q 017922 138 ---------K---------GTPHNCLDDASAAMKLVLAIIERR 162 (364)
Q Consensus 138 ---------~---------~~~H~Al~DA~Ata~L~~~~le~g 162 (364)
. ..-.-|..||..+..||..++..-
T Consensus 135 ~~~~~~~~~s~W~~RPLt~~ql~YAa~Dv~~Ll~l~~~l~~~l 177 (197)
T cd06148 135 VKKLMREDPKFWALRPLTEDMIRYAALDVLCLLPLYYAMLDAL 177 (197)
T ss_pred HHHHHhcCchhhhcCCCCHHHHHHHHHHHHhHHHHHHHHHHHh
Confidence 0 012446789999999988776543
No 79
>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=97.15 E-value=0.0052 Score=57.15 Aligned_cols=125 Identities=19% Similarity=0.127 Sum_probs=75.4
Q ss_pred CcEEEEEEeccCCC----CCc----ccEEEEEEEEcCCcEEEEEEEcC-CCcccccccccCCCChhhhcCCCCCHHHHHH
Q 017922 4 NIMYAVDCEMVLCE----DGS----EGLVRLCVVDRNLKVTIDELVKP-EKAVADYRSEITGLTADDLVGVTCSLAEIQK 74 (364)
Q Consensus 4 ~~~ValD~ETTGl~----~g~----~~Ii~V~vVd~~G~vi~d~lVkP-~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~ 74 (364)
-++++||+||+.-. |.. +.|+.|++...+|...+ .+++. .....+.-. .-| ..+.... +-.+++.
T Consensus 5 lrilsfDIE~~~~~~~~fP~~~~~~d~IisI~~~~~~~~~~v-~~~~~~~~~~~~~~~-~~~---~~v~~~~-~E~~lL~ 78 (204)
T cd05783 5 LKRIAIDIEVYTPIKGRIPDPKTAEYPVISVALAGSDGLKRV-LVLKREGVEGLEGLL-PEG---AEVEFFD-SEKELIR 78 (204)
T ss_pred ceEEEEEEEECCCCCCCCcCCCCCCCeEEEEEEcCCCCCcEE-EEEecCCcccccccC-CCC---CeEEecC-CHHHHHH
Confidence 37899999998421 221 47999998754443211 11221 111000000 001 1133334 7789999
Q ss_pred HHHHhhcCCCEEEEech-hhHHHHHccc-----CC------------------CccchHHHhhh-h-----c--CCCCcc
Q 017922 75 RMKKLLSNGTILVGHSL-NNDLEVLKLD-----HP------------------RVIDTSLIFKY-V-----D--EYRRPS 122 (364)
Q Consensus 75 el~~fl~~~~iLVGHn~-~fDl~fL~~~-----~~------------------~vIDT~~L~r~-~-----~--~~~~~s 122 (364)
+|.+++..-.++||||. .||+.+|... .+ ..+|....+.. . + ...+++
T Consensus 79 ~F~~~i~~~~~iig~N~~~FDlpyl~~R~~~~gi~~~~~~~~~~~~~~~~~g~~~iDl~~~~~~~~~~~~~~~~~~~~~~ 158 (204)
T cd05783 79 EAFKIISEYPIVLTFNGDNFDLPYLYNRALKLGIPKEEIPIYLKRDYATLKHGIHIDLYKFFSNRAIQVYAFGNKYREYT 158 (204)
T ss_pred HHHHHHhcCCEEEEeCCCCcCHHHHHHHHHHhCCChhhCceeecCCceeccCcEEeECHHHhhccchhhhhhccccccCc
Confidence 99999987789999997 5999998641 11 13677665443 1 1 247999
Q ss_pred HHHHHHHHhCCc
Q 017922 123 LYNLCKSVLGYE 134 (364)
Q Consensus 123 L~~L~k~~Lgi~ 134 (364)
|+.+|+.+||..
T Consensus 159 L~~Va~~~lg~~ 170 (204)
T cd05783 159 LDAVAKALLGEG 170 (204)
T ss_pred HHHHHHHhcCCC
Confidence 999998888864
No 80
>KOG0304 consensus mRNA deadenylase subunit [RNA processing and modification]
Probab=96.91 E-value=0.0063 Score=57.24 Aligned_cols=153 Identities=18% Similarity=0.194 Sum_probs=104.5
Q ss_pred CcEEEEEEeccCCC---CCc----------------c--cEEEEEEE--EcCCcE------EEEEE---EcCCCccc-cc
Q 017922 4 NIMYAVDCEMVLCE---DGS----------------E--GLVRLCVV--DRNLKV------TIDEL---VKPEKAVA-DY 50 (364)
Q Consensus 4 ~~~ValD~ETTGl~---~g~----------------~--~Ii~V~vV--d~~G~v------i~d~l---VkP~~~I~-d~ 50 (364)
-+|||+|+|..|+= .++ + .||++++. |.+|+. +|+-= .++...+- +.
T Consensus 24 y~~IamDTEFPGvv~rp~~~f~s~~d~~Y~~lk~NVd~lklIQlGlTlsd~~Gn~p~~g~~tWqfNF~dF~~~~D~~a~~ 103 (239)
T KOG0304|consen 24 YPYIAMDTEFPGVVARPIGTFRSSDDYHYQTLKCNVDNLKLIQLGLTLSDEKGNLPDCGTDTWQFNFSDFNLEKDMYAQD 103 (239)
T ss_pred CCeeEecCcCCceeeecCccccCChHHHHHHHHhchhhhhhhheeeeeeccCCCCCCCCCceeEEecccCCchhhccchh
Confidence 47999999999961 111 0 47887654 655542 44432 23333221 11
Q ss_pred ---ccccCCCChhhhcCCCCCHHHHHHHHH---HhhcCCCEEEEechhhHHHHHcc--------------------cCCC
Q 017922 51 ---RSEITGLTADDLVGVTCSLAEIQKRMK---KLLSNGTILVGHSLNNDLEVLKL--------------------DHPR 104 (364)
Q Consensus 51 ---~t~itGIT~e~L~~ap~~~~eV~~el~---~fl~~~~iLVGHn~~fDl~fL~~--------------------~~~~ 104 (364)
.-+-+||.-+-....++...+..+.+. -.++++-.+|-.+..+|++.|=. ..|.
T Consensus 104 SIElLr~~Gidf~K~~e~GI~~~~F~ellm~sg~v~~~~V~WvTFhs~YDfgYLlK~Lt~~~LP~~~~eF~~~v~~~fp~ 183 (239)
T KOG0304|consen 104 SIELLRRSGIDFEKHREEGIDIEEFAELLMTSGLVLDENVTWVTFHSGYDFGYLLKILTGKPLPETEEEFFEIVRQLFPF 183 (239)
T ss_pred hHHHHHHcCcCHHHHHHcCCCHHHHHHHHHHhhhhccCceEEEEeeccchHHHHHHHHcCCCCcchHHHHHHHHHHHcch
Confidence 224478888888877766554444443 34456778998888999988732 1456
Q ss_pred ccchHHHhhhhcC-CCCccHHHHHHHHhCCccCCCCCCCChHHHHHHHHHHHHHHH
Q 017922 105 VIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDASAAMKLVLAII 159 (364)
Q Consensus 105 vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~Ata~L~~~~l 159 (364)
+.|+-.|++...+ ....+|..|| +.||++-- |..|.|-.|+..|+..|.++.
T Consensus 184 vYDiK~l~~~c~~~~l~~GL~~lA-~~L~~~Rv--G~~HqAGSDSlLT~~~F~kl~ 236 (239)
T KOG0304|consen 184 VYDVKYLMKFCEGLSLKGGLQRLA-DLLGLKRV--GIAHQAGSDSLLTARVFFKLK 236 (239)
T ss_pred hhhHHHHHHhhhhhhhhcCHHHHH-HHhCCCee--ecccccCcHHHHHHHHHHHHH
Confidence 7888888887765 5678999999 88898864 578999999999999998764
No 81
>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=96.89 E-value=0.007 Score=56.40 Aligned_cols=66 Identities=27% Similarity=0.343 Sum_probs=49.7
Q ss_pred CHHHHHHHHHHhhcC-CCEEEEech-hhHHHHHccc-------CC------------------CccchHHHhhhhcCCCC
Q 017922 68 SLAEIQKRMKKLLSN-GTILVGHSL-NNDLEVLKLD-------HP------------------RVIDTSLIFKYVDEYRR 120 (364)
Q Consensus 68 ~~~eV~~el~~fl~~-~~iLVGHn~-~fDl~fL~~~-------~~------------------~vIDT~~L~r~~~~~~~ 120 (364)
+-.+++..|.+++.. +.+|||||. .||+.+|... .| +.+|+..+.+......+
T Consensus 77 ~E~elL~~F~~~i~~~~p~lv~yNg~~FDlP~L~~Ra~~~gi~~p~~~~~~~~~~~y~~r~~~~h~DL~~~~~~~~~~~~ 156 (208)
T cd05782 77 DEKELLEDFFQLIEKKNPRLVSFNGRGFDLPVLHLRALIHGVSAPAYFDLGNKDWNYRNRYSERHLDLMDLLAFYGARAR 156 (208)
T ss_pred CHHHHHHHHHHHHHHhCCEEEecCCCcCCHHHHHHHHHHhCCCCccccCcccchhhccCcCCCCcccHHHHHhccCccCC
Confidence 457899999999965 678999997 6999999751 11 15777777654333579
Q ss_pred ccHHHHHHHHhCCc
Q 017922 121 PSLYNLCKSVLGYE 134 (364)
Q Consensus 121 ~sL~~L~k~~Lgi~ 134 (364)
++|+.+| .+||++
T Consensus 157 ~~L~~va-~~lG~~ 169 (208)
T cd05782 157 ASLDLLA-KLLGIP 169 (208)
T ss_pred CCHHHHH-HHhCCC
Confidence 9999999 688985
No 82
>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=96.85 E-value=0.011 Score=55.56 Aligned_cols=92 Identities=23% Similarity=0.253 Sum_probs=65.4
Q ss_pred CHHHHHHHHHHhhcC-CCEEEEech-hhHHHHHccc-------CCC-------------------ccchHHHhhhhcCCC
Q 017922 68 SLAEIQKRMKKLLSN-GTILVGHSL-NNDLEVLKLD-------HPR-------------------VIDTSLIFKYVDEYR 119 (364)
Q Consensus 68 ~~~eV~~el~~fl~~-~~iLVGHn~-~fDl~fL~~~-------~~~-------------------vIDT~~L~r~~~~~~ 119 (364)
+-.+++..|.+++.+ ...||+||. .||+.+|... .|. -+|++.+.....+..
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 467899999999954 347999995 6999999641 111 266666544333356
Q ss_pred CccHHHHHHHHhCCccCCC----------------CCCCChHHHHHHHHHHHHHHHH
Q 017922 120 RPSLYNLCKSVLGYEIRKK----------------GTPHNCLDDASAAMKLVLAIIE 160 (364)
Q Consensus 120 ~~sL~~L~k~~Lgi~i~~~----------------~~~H~Al~DA~Ata~L~~~~le 160 (364)
+.||+.|| ..+|+|-..+ ..+.-+..|+.+|+.||+++.-
T Consensus 116 ~~sLd~la-~~lgiPgK~~idGs~V~~~y~~g~i~~I~~YCe~DVl~T~~lylR~~~ 171 (209)
T PF10108_consen 116 RTSLDELA-ALLGIPGKDDIDGSQVAELYQEGDIDEIREYCEKDVLNTYLLYLRFEL 171 (209)
T ss_pred cCCHHHHH-HHcCCCCCCCCCHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 88999999 8899984321 0124457899999999998753
No 83
>cd05778 DNA_polB_zeta_exo inactive DEDDy 3'-5' exonuclease domain of eukaryotic DNA polymerase zeta, a family-B DNA polymerase. The 3'-5' exonuclease domain of eukaryotic DNA polymerase zeta. DNA polymerase zeta is a family-B DNA polymerase which is distantly related to DNA polymerase delta. It plays a major role in translesion replication and the production of either spontaneous or induced mutations. In addition, DNA polymerase zeta also appears to be involved in somatic hypermutability in B lymphocytes, an important element for the production of high affinity antibodies in response to an antigen. The catalytic subunit contains both polymerase and 3'-5' exonuclease domains, but only exhibits polymerase activity. The DnaQ-like 3'-5' exonuclease domain contains three sequence motifs termed ExoI, ExoII and ExoIII, without the four conserved acidic residues that are crucial for metal binding and catalysis.
Probab=96.70 E-value=0.05 Score=51.47 Aligned_cols=141 Identities=14% Similarity=0.116 Sum_probs=85.3
Q ss_pred cEEEEEEeccCC-----CCCcccEEEEEEEEc-CCcEE-E------EEEEcCCCcccccccccCCCChhhhcCCCCCHHH
Q 017922 5 IMYAVDCEMVLC-----EDGSEGLVRLCVVDR-NLKVT-I------DELVKPEKAVADYRSEITGLTADDLVGVTCSLAE 71 (364)
Q Consensus 5 ~~ValD~ETTGl-----~~g~~~Ii~V~vVd~-~G~vi-~------d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~e 71 (364)
.++++|+|+.+- +|..+.|+.|+.+-. +.... . --++.+...-........++....+.-.+ +-.+
T Consensus 5 ~~ls~dI~~~s~~~~~Pdp~~D~I~~I~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~v~~~~-~E~~ 83 (231)
T cd05778 5 TILSLEVHVNTRGDLLPDPEFDPISAIFYCIDDDVSPFILDANKVGVIIVDELKSNASNGRIRSGLSGIPVEVVE-SELE 83 (231)
T ss_pred EEEEEEEEECCCCCCCcCCCCCCeeEEEEEEecCCCcccccccceeEEEEcCccchhhhhccccCCCCCeEEEeC-CHHH
Confidence 578999998753 244468999987643 22211 1 12233333111111112233333444455 6778
Q ss_pred HHHHHHHhhc--CCCEEEEech-hhHHHHHccc------------------------------CC-----------C-cc
Q 017922 72 IQKRMKKLLS--NGTILVGHSL-NNDLEVLKLD------------------------------HP-----------R-VI 106 (364)
Q Consensus 72 V~~el~~fl~--~~~iLVGHn~-~fDl~fL~~~------------------------------~~-----------~-vI 106 (364)
.+.+|.+++. .-.|++|||+ .||+.+|-.. .. | ++
T Consensus 84 LL~~f~~~i~~~DPDii~GyNi~~fd~~YL~~Ra~~l~~~~~~~~lgR~~~~~~~~~~~~~~~~g~~~~~~~~i~GRi~l 163 (231)
T cd05778 84 LFEELIDLVRRFDPDILSGYEIQRSSWGYLIERAAALGIDDLLDEISRVPSDSNGKFGDRDDEWGYTHTSGIKIVGRHIL 163 (231)
T ss_pred HHHHHHHHHHHhCCCEEEEeccccCcHHHHHHHHHHhCCcchhhhccCCCCCCcccccccccccccccCCceEEeeEEEe
Confidence 8888887774 3489999998 5899887320 00 0 36
Q ss_pred chHHHhhhhcCCCCccHHHHHHHHhCCccCCCCCCCChHHHH
Q 017922 107 DTSLIFKYVDEYRRPSLYNLCKSVLGYEIRKKGTPHNCLDDA 148 (364)
Q Consensus 107 DT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA 148 (364)
|+..+.+......+|+|..+|..+||..... -.|..+.+.
T Consensus 164 D~~~~~r~~~kl~sYsL~~V~~~~L~~~k~~--~~~~~i~~~ 203 (231)
T cd05778 164 NVWRLMRSELALTNYTLENVVYHVLHQRIPL--YSNKTLTEW 203 (231)
T ss_pred EhHHHHHHHcCcccCCHHHHHHHHhCCCCCC--CCHHHHHHH
Confidence 7777777665578999999999999987653 345555554
No 84
>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=96.69 E-value=0.052 Score=48.10 Aligned_cols=106 Identities=22% Similarity=0.171 Sum_probs=72.8
Q ss_pred CCcEEEEEEeccCCCCCcccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhc-
Q 017922 3 SNIMYAVDCEMVLCEDGSEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLS- 81 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~g~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~- 81 (364)
..+.++||+|++|.++....++.|++-..+ ... ||.+... + .+...|.+++.
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~l~~i~l~~~~-~~~---~i~~~~~----------~-------------~~~~~l~~~l~~ 54 (178)
T cd06140 2 LADEVALYVELLGENYHTADIIGLALANGG-GAY---YIPLELA----------L-------------LDLAALKEWLED 54 (178)
T ss_pred CCCceEEEEEEcCCCcceeeEEEEEEEeCC-cEE---EEeccch----------H-------------HHHHHHHHHHhC
Confidence 356789999999998755667777766543 222 3332211 0 13444566663
Q ss_pred CCCEEEEechhhHHHHHccc---CC-CccchHHHhhhhcCC-CCccHHHHHHHHhCCcc
Q 017922 82 NGTILVGHSLNNDLEVLKLD---HP-RVIDTSLIFKYVDEY-RRPSLYNLCKSVLGYEI 135 (364)
Q Consensus 82 ~~~iLVGHn~~fDl~fL~~~---~~-~vIDT~~L~r~~~~~-~~~sL~~L~k~~Lgi~i 135 (364)
.+...|+||+.+|+.+|... .+ .+.||...+..+.|. .+++|.+|+++|+|.++
T Consensus 55 ~~~~ki~~d~K~~~~~l~~~gi~~~~~~fDt~laaYLL~p~~~~~~l~~l~~~yl~~~~ 113 (178)
T cd06140 55 EKIPKVGHDAKRAYVALKRHGIELAGVAFDTMLAAYLLDPTRSSYDLADLAKRYLGREL 113 (178)
T ss_pred CCCceeccchhHHHHHHHHCCCcCCCcchhHHHHHHHcCCCCCCCCHHHHHHHHcCCCC
Confidence 33568999999999999642 22 358999888888883 44799999999998874
No 85
>PF00076 RRM_1: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); InterPro: IPR000504 Many eukaryotic proteins containing one or more copies of a putative RNA-binding domain of about 90 amino acids are known to bind single-stranded RNAs [, , ]. The largest group of single strand RNA-binding proteins is the eukaryotic RNA recognition motif (RRM) family that contains an eight amino acid RNP-1 consensus sequence [, ]. RRM proteins have a variety of RNA binding preferences and functions, and include heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing (SR, U2AF, Sxl), protein components of small nuclear ribonucleoproteins (U1 and U2 snRNPs), and proteins that regulate RNA stability and translation (PABP, La, Hu) [, , ]. The RRM in heterodimeric splicing factor U2 snRNP auxiliary factor (U2AF) appears to have two RRM-like domains with specialised features for protein recognition []. The motif also appears in a few single stranded DNA binding proteins. The typical RRM consists of four anti-parallel beta-strands and two alpha-helices arranged in a beta-alpha-beta-beta-alpha-beta fold with side chains that stack with RNA bases. Specificity of RNA binding is determined by multiple contacts with surrounding amino acids. A third helix is present during RNA binding in some cases []. The RRM is reviewed in a number of publications [, , ].; GO: 0003676 nucleic acid binding; PDB: 2RNE_A 2DGO_A 2DO4_A 1YTY_B 2VOO_B 2VOP_A 2VON_B 1ZH5_B 2VOD_A 1S79_A ....
Probab=96.60 E-value=0.0019 Score=47.81 Aligned_cols=60 Identities=27% Similarity=0.374 Sum_probs=46.3
Q ss_pred hhcCCCCCCCCHHHhcccCCCCceee---eccccccCCCceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 182 LFLHRIPTKVPSEELHGVIPGDFTIE---AKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 182 l~~~~iP~~l~~eel~~~~~~~~~i~---~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
+++.+||++++.++|..+|...-.+. +... ..+...+.|+|+|.+.++|..|.+.++|..
T Consensus 1 l~v~nlp~~~t~~~l~~~f~~~g~i~~~~~~~~-~~~~~~~~a~V~F~~~~~a~~a~~~l~g~~ 63 (70)
T PF00076_consen 1 LYVGNLPPDVTEEELRDFFSQFGKIESIKVMRN-SSGKSKGYAFVEFESEEDAEKALEELNGKK 63 (70)
T ss_dssp EEEESETTTSSHHHHHHHHHTTSTEEEEEEEEE-TTSSEEEEEEEEESSHHHHHHHHHHHTTEE
T ss_pred cEEcCCCCcCCHHHHHHHHHHhhhccccccccc-ccccccceEEEEEcCHHHHHHHHHHcCCCE
Confidence 35678999999999999987755552 2222 212348899999999999999999999854
No 86
>COG0749 PolA DNA polymerase I - 3'-5' exonuclease and polymerase domains [DNA replication, recombination, and repair]
Probab=96.55 E-value=0.013 Score=62.59 Aligned_cols=132 Identities=25% Similarity=0.283 Sum_probs=90.2
Q ss_pred EEEEEeccCCCCCcccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhcC-CCE
Q 017922 7 YAVDCEMVLCEDGSEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLSN-GTI 85 (364)
Q Consensus 7 ValD~ETTGl~~g~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~~-~~i 85 (364)
+++|+||+|+++-...++.+++...+ +..| | | -.|+ + ..-++...+..++.. +..
T Consensus 25 ~a~~~et~~l~~~~~~lvg~s~~~~~-~~~y---i-~---------~~~~---------~-~~~~~~~~l~~~l~~~~~~ 80 (593)
T COG0749 25 IAFDTETDGLDPHGADLVGLSVASEE-EAAY---I-P---------LLHG---------P-EQLNVLAALKPLLEDEGIK 80 (593)
T ss_pred ceeeccccccCcccCCeeEEEeeccc-ccee---E-e---------eccc---------h-hhhhhHHHHHHHhhCcccc
Confidence 89999999999855567777665544 2111 1 1 1111 1 122277777888732 346
Q ss_pred EEEechhhHHHHHcccC---CCccchHHHhhhhcC-CCCccHHHHHHHHhCCccCCC------CC-------------CC
Q 017922 86 LVGHSLNNDLEVLKLDH---PRVIDTSLIFKYVDE-YRRPSLYNLCKSVLGYEIRKK------GT-------------PH 142 (364)
Q Consensus 86 LVGHn~~fDl~fL~~~~---~~vIDT~~L~r~~~~-~~~~sL~~L~k~~Lgi~i~~~------~~-------------~H 142 (364)
.||||+.+|+.+|.... +...||+..+-.+.| ...+.++.|+++|++.....- +. .-
T Consensus 81 kv~~~~K~d~~~l~~~Gi~~~~~~DtmlasYll~~~~~~~~~~~l~~r~l~~~~~~~~~i~~kg~~~~~~~~~~~~~~~~ 160 (593)
T COG0749 81 KVGQNLKYDYKVLANLGIEPGVAFDTMLASYLLNPGAGAHNLDDLAKRYLGLETITFEDIAGKGKKQLTFADVKLEKATE 160 (593)
T ss_pred hhccccchhHHHHHHcCCcccchHHHHHHHhccCcCcCcCCHHHHHHHhcCCccchhHHhhccccccCccccchHHHHHH
Confidence 99999999999998754 346788877777766 668999999999988765320 00 12
Q ss_pred ChHHHHHHHHHHHHHHHHhc
Q 017922 143 NCLDDASAAMKLVLAIIERR 162 (364)
Q Consensus 143 ~Al~DA~Ata~L~~~~le~g 162 (364)
.+..||.++.+|+..+....
T Consensus 161 y~a~~a~~~~~L~~~l~~~l 180 (593)
T COG0749 161 YAAEDADATLRLESILEPEL 180 (593)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 45689999999998776433
No 87
>COG3359 Predicted exonuclease [DNA replication, recombination, and repair]
Probab=96.50 E-value=0.036 Score=53.20 Aligned_cols=129 Identities=12% Similarity=0.035 Sum_probs=81.3
Q ss_pred CCCcEEEEEEeccCCCCCcccEEEEEEEEc-CCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhh
Q 017922 2 TSNIMYAVDCEMVLCEDGSEGLVRLCVVDR-NLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLL 80 (364)
Q Consensus 2 ~~~~~ValD~ETTGl~~g~~~Ii~V~vVd~-~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl 80 (364)
..++++.||+||||++.....|+-++.-.. ++......+.-| +|-.-..|.+.|+...
T Consensus 96 ~~e~~~FFDiETTGL~~ag~~I~~~g~a~~~~~~~~Vrq~~lp---------------------~p~~E~avle~fl~~~ 154 (278)
T COG3359 96 EAEDVAFFDIETTGLDRAGNTITLVGGARGVDDTMHVRQHFLP---------------------APEEEVAVLENFLHDP 154 (278)
T ss_pred cccceEEEeeeccccCCCCCeEEEEEEEEccCceEEEEeecCC---------------------CcchhhHHHHHHhcCC
Confidence 456799999999999974444555555554 444333333333 2211224666777666
Q ss_pred cCCCEEEEec-hhhHHHHHcc---c-CCC-----ccchHHHhhhhcC--CCCccHHHHHHHHhCCccCCCCCCCChHHHH
Q 017922 81 SNGTILVGHS-LNNDLEVLKL---D-HPR-----VIDTSLIFKYVDE--YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDA 148 (364)
Q Consensus 81 ~~~~iLVGHn-~~fDl~fL~~---~-~~~-----vIDT~~L~r~~~~--~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA 148 (364)
..+.||-+| ..||..|++. . .+. =+|.....|.++. ...-+|+.+= ++||+.-.. --.-.|+
T Consensus 155 -~~~~lvsfNGkaFD~PfikR~v~~~~el~l~~~H~DL~h~~RRlwk~~l~~c~Lk~VE-r~LGi~R~e----dtdG~~~ 228 (278)
T COG3359 155 -DFNMLVSFNGKAFDIPFIKRMVRDRLELSLEFGHFDLYHPSRRLWKHLLPRCGLKTVE-RILGIRREE----DTDGYDG 228 (278)
T ss_pred -CcceEEEecCcccCcHHHHHHHhcccccCccccchhhhhhhhhhhhccCCCCChhhHH-HHhCccccc----cCCCcch
Confidence 777999997 6799999982 1 111 2787777887765 6788899987 488987643 1223344
Q ss_pred HHHHHHHHH
Q 017922 149 SAAMKLVLA 157 (364)
Q Consensus 149 ~Ata~L~~~ 157 (364)
.....+|++
T Consensus 229 p~lyr~~~~ 237 (278)
T COG3359 229 PELYRLYRR 237 (278)
T ss_pred HHHHHHHHH
Confidence 455555543
No 88
>KOG4793 consensus Three prime repair exonuclease [Replication, recombination and repair]
Probab=96.21 E-value=0.008 Score=58.23 Aligned_cols=155 Identities=19% Similarity=0.178 Sum_probs=102.1
Q ss_pred CcEEEEEEeccCCCCCcccEEEEEEEEc-----CCc---------------EE---EEEEEcCCCcccccccccCCCChh
Q 017922 4 NIMYAVDCEMVLCEDGSEGLVRLCVVDR-----NLK---------------VT---IDELVKPEKAVADYRSEITGLTAD 60 (364)
Q Consensus 4 ~~~ValD~ETTGl~~g~~~Ii~V~vVd~-----~G~---------------vi---~d~lVkP~~~I~d~~t~itGIT~e 60 (364)
..++++|.|+||+......|.++++.++ +|. .+ +..++.|.........+|||++..
T Consensus 13 ~tf~fldleat~lp~~~~~iteLcLlav~assle~k~~e~dq~~~~tlp~~Rvl~Klsvl~~p~~v~~p~aeeitgls~~ 92 (318)
T KOG4793|consen 13 RTFSFLDLEATGLPGWIPNITELCLLAVHASSLEGKAREIDQNVSTTLPGSRVLDKLSVLGGPVPVTRPIAEEITGLSQP 92 (318)
T ss_pred eEEEeeeeccccCCcccccchhhhHHHHHHHhhcCCccccccCCCccCCccchhhhhhhccCCcCCcChhhhhhcccccH
Confidence 3689999999999876667888887653 332 12 334677877777788899999986
Q ss_pred hhcCCC-CCH-HHHHHHHHHhhc---CCCEEEEech-hhHHHHHccc-------CCC---ccchHHHhhhh--------c
Q 017922 61 DLVGVT-CSL-AEIQKRMKKLLS---NGTILVGHSL-NNDLEVLKLD-------HPR---VIDTSLIFKYV--------D 116 (364)
Q Consensus 61 ~L~~ap-~~~-~eV~~el~~fl~---~~~iLVGHn~-~fDl~fL~~~-------~~~---vIDT~~L~r~~--------~ 116 (364)
-+.-.. .-| .++.+-|..|+. .---||+||- .||+..|.+. .++ .+|+...++.. .
T Consensus 93 ~~~l~rr~~~D~dla~LL~afls~lp~p~CLVaHng~~~dfpil~qela~lg~~lpq~lvcvdslpa~~ald~a~s~~tr 172 (318)
T KOG4793|consen 93 FLALQRRLAFDKDLAKLLTAFLSRLPTPGCLVAHNGNEYDFPILAQELAGLGYSLPQDLVCVDSLPALNALDRANSMVTR 172 (318)
T ss_pred HHHHHHHhhhhHHHHHHHHHHHhcCCCCceEEeecCCccccHHHHHHHHhcCccchhhhcCcchhHHHHHHhhhcCcccC
Confidence 655332 012 245555556662 2245899985 5788777763 232 46766655432 1
Q ss_pred C--CCCccHHHHHHHHhCCccCCCCCCCChHHHHHHHHHHHHHHHH
Q 017922 117 E--YRRPSLYNLCKSVLGYEIRKKGTPHNCLDDASAAMKLVLAIIE 160 (364)
Q Consensus 117 ~--~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~Ata~L~~~~le 160 (364)
+ .+.|+|..+-.+|++-.-. ...|.+..|.-+..-.|.+...
T Consensus 173 ~~~~~~~~l~~If~ry~~q~ep--pa~~~~e~d~~~l~~~fqf~~~ 216 (318)
T KOG4793|consen 173 PEVRRMYSLGSIFLRYVEQREP--PAGHVAEGDVNGLLFIFQFRIN 216 (318)
T ss_pred CCCCcccccchHHHhhhcccCC--CcceeeecccchhHHHHHHHHH
Confidence 2 5689999988777665322 2479999988887777765543
No 89
>PHA02528 43 DNA polymerase; Provisional
Probab=96.19 E-value=0.055 Score=60.59 Aligned_cols=150 Identities=10% Similarity=-0.038 Sum_probs=89.1
Q ss_pred CcEEEEEEeccCC----CCC--cccEEEEEEEEcCCcEEEEEEEcCCCc---ccccc--cccCCCChhhhcCCCCCHHHH
Q 017922 4 NIMYAVDCEMVLC----EDG--SEGLVRLCVVDRNLKVTIDELVKPEKA---VADYR--SEITGLTADDLVGVTCSLAEI 72 (364)
Q Consensus 4 ~~~ValD~ETTGl----~~g--~~~Ii~V~vVd~~G~vi~d~lVkP~~~---I~d~~--t~itGIT~e~L~~ap~~~~eV 72 (364)
-++++||+||+.- ++. .+.|+.|++.+..+..++=..+....+ ..+.. ....++ .+...+ +-.+.
T Consensus 106 lrv~s~DIE~~~~~gfP~p~~~~d~IisIsl~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~v---~~~~~~-sE~eL 181 (881)
T PHA02528 106 IRIANLDIEVTAEDGFPDPEEAKYEIDAITHYDSIDDRFYVFDLGSVEEWDAKGDEVPQEILDKV---VYMPFD-TEREM 181 (881)
T ss_pred ccEEEEEEEECCCCCCCCcccCCCcEEEEEEecCCCCEEEEEEecCcccccccCCcccccccCCe---eEEEcC-CHHHH
Confidence 4789999999752 122 347999999877655322222211000 00000 000111 111234 67789
Q ss_pred HHHHHHhhc--CCCEEEEech-hhHHHHHccc---C---------C-------------------------C-ccchHHH
Q 017922 73 QKRMKKLLS--NGTILVGHSL-NNDLEVLKLD---H---------P-------------------------R-VIDTSLI 111 (364)
Q Consensus 73 ~~el~~fl~--~~~iLVGHn~-~fDl~fL~~~---~---------~-------------------------~-vIDT~~L 111 (364)
+..|.+++. .-.|++|||+ .||+.+|... . . + ++|...+
T Consensus 182 L~~F~~~i~~~DPDII~GyNi~~FDlpYL~~Ra~~~lg~~~~~~l~~~~~~~~~~~~~~~g~~~~~~~i~GRv~lD~~dl 261 (881)
T PHA02528 182 LLEYINFWEENTPVIFTGWNVELFDVPYIINRIKNILGEKTAKRLSPWGKVKERTIENMYGREEIAYDISGISILDYLDL 261 (881)
T ss_pred HHHHHHHHHHhCCcEEEecCCccCCHHHHHHHHHHHcCcccccccccccccccccccccccccceeEEEcceEEEeHHHH
Confidence 999999883 2379999997 5899987420 0 0 0 2555566
Q ss_pred hhhh-c-CCCCccHHHHHHHHhCCccCCC--------------CCCCChHHHHHHHHHHHHH
Q 017922 112 FKYV-D-EYRRPSLYNLCKSVLGYEIRKK--------------GTPHNCLDDASAAMKLVLA 157 (364)
Q Consensus 112 ~r~~-~-~~~~~sL~~L~k~~Lgi~i~~~--------------~~~H~Al~DA~Ata~L~~~ 157 (364)
++.. + ...+|+|+.+|..+||..-..- .-.+-++.||..+.+|+.+
T Consensus 262 ~k~~~~~~l~SYsLe~VA~~~LG~~K~d~~~~eI~~l~~~d~~~l~~Ynl~Da~Lv~~L~~k 323 (881)
T PHA02528 262 YKKFTFTNQPSYRLDYIAEVELGKKKLDYSDGPFKKFRETDHQKYIEYNIIDVELVDRLDDK 323 (881)
T ss_pred HHHhhhcccccCCHHHHHHHHhCCCCccCCHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHH
Confidence 6653 2 2679999999988998754320 0123357899999999876
No 90
>PRK05762 DNA polymerase II; Reviewed
Probab=96.15 E-value=0.075 Score=58.84 Aligned_cols=136 Identities=19% Similarity=0.243 Sum_probs=87.7
Q ss_pred cEEEEEEeccCCCCCcccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhcCC-
Q 017922 5 IMYAVDCEMVLCEDGSEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLSNG- 83 (364)
Q Consensus 5 ~~ValD~ETTGl~~g~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~~~- 83 (364)
++++||+||..- .+|..|++.......++ .|.+..+.+ .+.+...+ +-.+++..|.+++..-
T Consensus 156 rvlsfDIE~~~~----~~i~sI~~~~~~~~~vi--~ig~~~~~~----------~~~v~~~~-sE~~LL~~F~~~i~~~D 218 (786)
T PRK05762 156 KVVSLDIETSNK----GELYSIGLEGCGQRPVI--MLGPPNGEA----------LDFLEYVA-DEKALLEKFNAWFAEHD 218 (786)
T ss_pred eEEEEEEEEcCC----CceEEeeecCCCCCeEE--EEECCCCCC----------cceEEEcC-CHHHHHHHHHHHHHhcC
Confidence 789999999752 25777887643222111 122222110 11144455 7888999999998542
Q ss_pred -CEEEEechh-hHHHHHccc---------------------CC------------C-ccchHHHhhhhc-CCCCccHHHH
Q 017922 84 -TILVGHSLN-NDLEVLKLD---------------------HP------------R-VIDTSLIFKYVD-EYRRPSLYNL 126 (364)
Q Consensus 84 -~iLVGHn~~-fDl~fL~~~---------------------~~------------~-vIDT~~L~r~~~-~~~~~sL~~L 126 (364)
.|+||||+. ||+.+|... .+ + ++|+..+.+... ...+|+|+.+
T Consensus 219 PDIIvGyNi~~FDlpyL~~Ra~~lgi~~~~GR~~~~~~~~~~~~~~~~~~~~i~GRv~lDl~~~~k~~~~~l~sysL~~V 298 (786)
T PRK05762 219 PDVIIGWNVVQFDLRLLQERAERYGIPLRLGRDGSELEWREHPFRSGYGFASVPGRLVLDGIDALKSATWVFDSFSLEYV 298 (786)
T ss_pred CCEEEEeCCCCCcHHHHHHHHHHhCCCcccCcCCCccccccCCCCCCcceEEEeeEEEEEHHHHHHHhhccCCCCCHHHH
Confidence 699999974 999998530 01 0 478887777654 4689999999
Q ss_pred HHHHhCCccCCCCCC-------------------CChHHHHHHHHHHHHHH
Q 017922 127 CKSVLGYEIRKKGTP-------------------HNCLDDASAAMKLVLAI 158 (364)
Q Consensus 127 ~k~~Lgi~i~~~~~~-------------------H~Al~DA~Ata~L~~~~ 158 (364)
|+.+||..-... .. .-++.||..|..||.++
T Consensus 299 a~~~Lg~~K~~~-d~~~~~~eI~~~~~~~~~~l~~Y~l~Da~lt~~L~~kl 348 (786)
T PRK05762 299 SQRLLGEGKAID-DPYDRMDEIDRRFAEDKPALARYNLKDCELVTRIFEKT 348 (786)
T ss_pred HHHHhCCCeecc-CccccHHHHHHHHhhhHHHHHHHHHHHHHHHHHHHHHh
Confidence 999988643210 01 12578999999998743
No 91
>smart00486 POLBc DNA polymerase type-B family. DNA polymerase alpha, delta, epsilon and zeta chain (eukaryota), DNA polymerases in archaea, DNA polymerase II in e. coli, mitochondrial DNA polymerases and and virus DNA polymerases
Probab=96.14 E-value=0.076 Score=53.61 Aligned_cols=145 Identities=19% Similarity=0.221 Sum_probs=90.3
Q ss_pred CCcEEEEEEeccCCC---C--C--cccEEEEEEEEcCCcE-----EEEEEEcCCCcccccccccCCCChhhhcCCCCCHH
Q 017922 3 SNIMYAVDCEMVLCE---D--G--SEGLVRLCVVDRNLKV-----TIDELVKPEKAVADYRSEITGLTADDLVGVTCSLA 70 (364)
Q Consensus 3 ~~~~ValD~ETTGl~---~--g--~~~Ii~V~vVd~~G~v-----i~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~ 70 (364)
+..+++||+||+... | . .+.|+.|+.+...+.. .......|...+. |+. +..-. +-.
T Consensus 2 ~~~~~~~DIEt~~~~~~~p~~~~~~~~ii~i~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~~~---~~~~~-~E~ 70 (471)
T smart00486 2 PLKILSFDIETYTDGGLFPDPLIFEDEIIQISLVINDGDKKGPEERICFTLGTCKEID-------GVE---VYEFN-NEK 70 (471)
T ss_pred CceEEEEEEEECCCCCCCCCCCCCCCeEEEEEEEEEECCCCCCceeEEEEecCcCCCC-------CCe---EEecC-CHH
Confidence 357899999998643 1 1 3579999888653321 1112223433322 222 22223 556
Q ss_pred HHHHHHHHhhcC--CCEEEEechh-hHHHHHccc--------C---------------------------------CC-c
Q 017922 71 EIQKRMKKLLSN--GTILVGHSLN-NDLEVLKLD--------H---------------------------------PR-V 105 (364)
Q Consensus 71 eV~~el~~fl~~--~~iLVGHn~~-fDl~fL~~~--------~---------------------------------~~-v 105 (364)
+.+..|.+++.. ..+++|||.. ||+.+|... . .+ .
T Consensus 71 ~lL~~f~~~i~~~dpdii~g~N~~~FD~~~i~~R~~~~~~~~~~~i~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~ 150 (471)
T smart00486 71 ELLKAFLEFIKKYDPDIIYGHNISNFDLPYIISRLEKLKIKPLSFIGRLKNIIDIKRKKPLFGSKSFGKTIKVKIKGRLV 150 (471)
T ss_pred HHHHHHHHHHHHhCCCEEEeecCCCCCHHHHHHHHHHcCCCCHHHcCcCCCCCCcccccCccccccccccceeEeccEEE
Confidence 788888887743 3599999985 999988531 0 01 3
Q ss_pred cchHHHhhhhcCCCCccHHHHHHHHhCCccCCC-----------C------CCCChHHHHHHHHHHHHHH
Q 017922 106 IDTSLIFKYVDEYRRPSLYNLCKSVLGYEIRKK-----------G------TPHNCLDDASAAMKLVLAI 158 (364)
Q Consensus 106 IDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~~-----------~------~~H~Al~DA~Ata~L~~~~ 158 (364)
+|+..+++......+++|+.++..+||..-..- + ...-++.||.++.+|+.++
T Consensus 151 ~Dl~~~~~~~~kl~~~~L~~va~~~l~~~k~d~~~~~i~~~~~~~~~~~~~~~~Y~~~D~~l~~~l~~~l 220 (471)
T smart00486 151 IDLYNLYKNKLKLPSYKLDTVAEYLLGKEKDDLPYKDIPELYNLNYKLRDELLEYCIQDAVLTLKLFNKL 220 (471)
T ss_pred EEhHHHHHHHhCcccCCHHHHHHHHhCCCCCCCCHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 778887777766789999999988888432210 0 0122367899999988775
No 92
>PTZ00166 DNA polymerase delta catalytic subunit; Provisional
Probab=96.12 E-value=0.086 Score=60.21 Aligned_cols=147 Identities=16% Similarity=0.213 Sum_probs=91.8
Q ss_pred CcEEEEEEeccCCC------CCcccEEEEEEE-EcCCcE---EEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHH
Q 017922 4 NIMYAVDCEMVLCE------DGSEGLVRLCVV-DRNLKV---TIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQ 73 (364)
Q Consensus 4 ~~~ValD~ETTGl~------~g~~~Ii~V~vV-d~~G~v---i~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~ 73 (364)
-++++||+||++.. +..+.|++|+.+ ...|.. ....++-+.. ...+.| ..+..-+ +-.+.+
T Consensus 264 lrilSfDIE~~~~~g~~FP~~~~D~IIqIs~~~~~~g~~~~~~~r~vftl~~-----c~~i~g---~~V~~f~-sE~eLL 334 (1054)
T PTZ00166 264 LRILSFDIECIKLKGLGFPEAENDPVIQISSVVTNQGDEEEPLTKFIFTLKE-----CASIAG---ANVLSFE-TEKELL 334 (1054)
T ss_pred cEEEEEEEEECCCCCCCCCCCCCCcEEEEEEEEeeCCCccCCcceEEEecCc-----cccCCC---ceEEEeC-CHHHHH
Confidence 36899999998642 234689999986 334432 1122222211 111122 1233334 677888
Q ss_pred HHHHHhhc--CCCEEEEech-hhHHHHHcc-------c----------CC-------------------------C-ccc
Q 017922 74 KRMKKLLS--NGTILVGHSL-NNDLEVLKL-------D----------HP-------------------------R-VID 107 (364)
Q Consensus 74 ~el~~fl~--~~~iLVGHn~-~fDl~fL~~-------~----------~~-------------------------~-vID 107 (364)
..|.+|+. .-.|++|||+ .||+.+|-. . .+ + ++|
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 88888773 3589999998 489988732 0 00 1 367
Q ss_pred hHHHhhhhcCCCCccHHHHHHHHhCCccCCC----------CC-------CCChHHHHHHHHHHHHHHH
Q 017922 108 TSLIFKYVDEYRRPSLYNLCKSVLGYEIRKK----------GT-------PHNCLDDASAAMKLVLAII 159 (364)
Q Consensus 108 T~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~~----------~~-------~H~Al~DA~Ata~L~~~~l 159 (364)
+..+++......+|+|+.++..+||.....- +. ..-++.||..+.+|+.++.
T Consensus 415 l~~~~~~~~kl~sYsL~~Vs~~~Lg~~K~dv~~~~i~~~~~~~~~~~~~l~~Y~l~Da~L~~~L~~kl~ 483 (1054)
T PTZ00166 415 VMDLIRRDYKLKSYSLNYVSFEFLKEQKEDVHYSIISDLQNGSPETRRRIAVYCLKDAILPLRLLDKLL 483 (1054)
T ss_pred HHHHHHHhcCcCcCCHHHHHHHHhCCCCCCCCHHHHHHHHhcChhhHHHHHHHHHHHHHHHHHHHHHHh
Confidence 7777776655789999999998998653210 11 1234689999998887653
No 93
>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=96.07 E-value=0.041 Score=52.07 Aligned_cols=131 Identities=21% Similarity=0.236 Sum_probs=81.8
Q ss_pred cEEEEEEeccCCCC-CcccEEEEEEEEc-----CCc-------EEEEEEEcCCCc--ccccccccCCCChhhhcCCCCCH
Q 017922 5 IMYAVDCEMVLCED-GSEGLVRLCVVDR-----NLK-------VTIDELVKPEKA--VADYRSEITGLTADDLVGVTCSL 69 (364)
Q Consensus 5 ~~ValD~ETTGl~~-g~~~Ii~V~vVd~-----~G~-------vi~d~lVkP~~~--I~d~~t~itGIT~e~L~~ap~~~ 69 (364)
.+++|-+=|+--.. ...+|+.|+++-. ++. ..+-++++|... .|......-.-....+.-.+ +-
T Consensus 4 ~v~sls~~T~~n~k~~~~EI~~iS~~~~~~~~~d~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~~~v~~~~-~E 82 (234)
T cd05776 4 TVMSLSIKTVLNSKTNKNEIVMISMLVHRNVSLDKPTPPPPFQSHTCTLTRPLGRSPPPDLFEKNAKKKKTKVRIFE-NE 82 (234)
T ss_pred EEEEEEeEEEecCcCCcchhheehHHHhcCCCCCCCCCCcccccceEEEEeCCCCCCCCchHHHHHHhcCCcEEEeC-CH
Confidence 45666666654332 3468999988632 221 113456677543 22222222111222234444 66
Q ss_pred HHHHHHHHHhhc--CCCEEEEech-hhHHHHHcc-------c------------CC----------------C-ccchHH
Q 017922 70 AEIQKRMKKLLS--NGTILVGHSL-NNDLEVLKL-------D------------HP----------------R-VIDTSL 110 (364)
Q Consensus 70 ~eV~~el~~fl~--~~~iLVGHn~-~fDl~fL~~-------~------------~~----------------~-vIDT~~ 110 (364)
.+.+..|..++. .-.|+||||+ .||+.+|-. . .| | ++|+..
T Consensus 83 ~~LL~~f~~~i~~~DPDiivG~Ni~~fdl~~L~~R~~~l~i~~ws~iGR~~~~~~~~~~~~~~~~~~~~~~GRl~~D~~~ 162 (234)
T cd05776 83 RALLNFFLAKLQKIDPDVLVGHDLEGFDLDVLLSRIQELKVPHWSRIGRLKRSVWPKKKGGGKFGERELTAGRLLCDTYL 162 (234)
T ss_pred HHHHHHHHHHHhhcCCCEEEeeccCCCCHHHHHHHHHHhCCCccccccccccccCccccccccccccccccCchhhccHH
Confidence 788888888884 3489999999 799998842 0 00 1 478888
Q ss_pred HhhhhcCCCCccHHHHHHHHhCCccC
Q 017922 111 IFKYVDEYRRPSLYNLCKSVLGYEIR 136 (364)
Q Consensus 111 L~r~~~~~~~~sL~~L~k~~Lgi~i~ 136 (364)
+++......+|+|.++|..+||..-.
T Consensus 163 ~~k~~~~~~sY~L~~va~~~Lg~~k~ 188 (234)
T cd05776 163 SAKELIRCKSYDLTELSQQVLGIERQ 188 (234)
T ss_pred HHHHHhCCCCCChHHHHHHHhCcCcc
Confidence 88877668899999999999998543
No 94
>PF14259 RRM_6: RNA recognition motif (a.k.a. RRM, RBD, or RNP domain); PDB: 2DNN_A 1WI6_A 2EVZ_A 2ADC_A 1QM9_A 2KG1_A 2HGN_A 1U2F_A 2G4B_A 2HZC_A ....
Probab=96.00 E-value=0.015 Score=43.64 Aligned_cols=58 Identities=24% Similarity=0.376 Sum_probs=42.8
Q ss_pred hcCCCCCCCCHHHhcccCCCCceee-ec--cccccCCCceeEEEEeCCHHHHHHHHHhhcCC
Q 017922 183 FLHRIPTKVPSEELHGVIPGDFTIE-AK--AVKRIRGDNYAAFAIFSSPQEANQAFENVKGN 241 (364)
Q Consensus 183 ~~~~iP~~l~~eel~~~~~~~~~i~-~~--~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~ 241 (364)
+..+||+.++.++|..+|.....+. +. ..+. .-..+.|+|.|.|.++|..|.+.+.|.
T Consensus 2 ~i~nlp~~~~~~~l~~~f~~~g~v~~v~~~~~~~-~~~~~~a~v~f~~~~~a~~al~~~~~~ 62 (70)
T PF14259_consen 2 YISNLPPSTTEEDLRNFFSRFGPVEKVRLIKNKD-GQSRGFAFVEFSSEEDAKRALELLNGK 62 (70)
T ss_dssp EEESSTTT--HHHHHHHCTTSSBEEEEEEEESTT-SSEEEEEEEEESSHHHHHHHHHHHTTE
T ss_pred EEeCCCCCCCHHHHHHHHHhcCCcceEEEEeeec-cccCCEEEEEeCCHHHHHHHHHHCCCc
Confidence 5678999999999999998865553 22 2222 233889999999999999999998643
No 95
>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=95.43 E-value=0.27 Score=41.79 Aligned_cols=60 Identities=25% Similarity=0.261 Sum_probs=45.5
Q ss_pred HHHhhc-CCCEEEEechhhHHHHHccc---C-CCccchHHHhhhhcCCC-CccHHHHHHHHhCCcc
Q 017922 76 MKKLLS-NGTILVGHSLNNDLEVLKLD---H-PRVIDTSLIFKYVDEYR-RPSLYNLCKSVLGYEI 135 (364)
Q Consensus 76 l~~fl~-~~~iLVGHn~~fDl~fL~~~---~-~~vIDT~~L~r~~~~~~-~~sL~~L~k~~Lgi~i 135 (364)
|.+++. .+...||||+..|+.+|... . ..+.||...+..+.|.. +.+|..|+++++|.++
T Consensus 45 l~~~l~~~~~~kv~~d~K~~~~~L~~~~~~~~~~~~D~~laayLl~p~~~~~~l~~l~~~~l~~~~ 110 (150)
T cd09018 45 LKPLLEDEKALKVGQNLKYDRGILLNYFIELRGIAFDTMLEAYILNSVAGRWDMDSLVERWLGHKL 110 (150)
T ss_pred HHHHhcCCCCceeeecHHHHHHHHHHcCCccCCcchhHHHHHHHhCCCCCCCCHHHHHHHHhCCCc
Confidence 445553 34668999999999999642 2 23689999988888743 5699999999988773
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=95.31 E-value=0.35 Score=43.78 Aligned_cols=102 Identities=18% Similarity=0.082 Sum_probs=65.2
Q ss_pred cEEEEEEeccCCCCCcccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhc-CC
Q 017922 5 IMYAVDCEMVLCEDGSEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLS-NG 83 (364)
Q Consensus 5 ~~ValD~ETTGl~~g~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~-~~ 83 (364)
..+++|+|+....+-...++.+++...++ . | ||.+ +. .......|.+++. .+
T Consensus 25 ~~l~~~~e~~~~~~~~~~~~~l~l~~~~~-~-~--~i~~------------------l~-----~~~~~~~L~~~L~~~~ 77 (192)
T cd06147 25 KEIAVDLEHHSYRSYLGFTCLMQISTREE-D-Y--IVDT------------------LK-----LRDDMHILNEVFTDPN 77 (192)
T ss_pred CeEEEEeEecCCccCCCceEEEEEecCCC-c-E--EEEe------------------cc-----cccchHHHHHHhcCCC
Confidence 47889998765443233566666664443 2 1 2221 01 1112233555663 34
Q ss_pred CEEEEechhhHHHHHc-cc---CCCccchHHHhhhhcCCCCccHHHHHHHHhCCc
Q 017922 84 TILVGHSLNNDLEVLK-LD---HPRVIDTSLIFKYVDEYRRPSLYNLCKSVLGYE 134 (364)
Q Consensus 84 ~iLVGHn~~fDl~fL~-~~---~~~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~ 134 (364)
...|||++..|+..|+ .. ...+.||...+..+.|. +++|..|+++|||..
T Consensus 78 i~kv~~d~K~~~~~L~~~~gi~~~~~fD~~laaYLL~p~-~~~l~~l~~~yl~~~ 131 (192)
T cd06147 78 ILKVFHGADSDIIWLQRDFGLYVVNLFDTGQAARVLNLP-RHSLAYLLQKYCNVD 131 (192)
T ss_pred ceEEEechHHHHHHHHHHhCCCcCchHHHHHHHHHhCCC-cccHHHHHHHHhCCC
Confidence 6789999999999996 21 22248999988888876 579999999998876
No 97
>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=94.96 E-value=0.088 Score=50.87 Aligned_cols=85 Identities=16% Similarity=0.224 Sum_probs=54.4
Q ss_pred CcEEEEEEeccCCC-----CCcccEEEEEEE-EcCC-----cEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHH
Q 017922 4 NIMYAVDCEMVLCE-----DGSEGLVRLCVV-DRNL-----KVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEI 72 (364)
Q Consensus 4 ~~~ValD~ETTGl~-----~g~~~Ii~V~vV-d~~G-----~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV 72 (364)
-.+++||+||.... +..++|+.|+++ ...| ...+-++..+. .+.+ ...+.-.+ +-.++
T Consensus 157 l~i~s~DIe~~~~~~~~P~~~~d~I~~Is~~~~~~~~~~~~~~~~~~~~~~~-~~~~---------~~~v~~~~-~E~~l 225 (325)
T PF03104_consen 157 LRILSFDIETYSNDGKFPDPEKDEIIMISYVVYRNGSSEPYRRKVFTLGSCD-SIED---------NVEVIYFD-SEKEL 225 (325)
T ss_dssp SEEEEEEEEECSSSSSS-TTTTSEEEEEEEEEEETTEEETTEEEEEECSCSC-CTTC---------TTEEEEES-SHHHH
T ss_pred cceeEEEEEEccccCCCCCCCCCeEEEEEEEEEeccccCCCceEEEEecCCC-CCCC---------CcEEEEEC-CHHHH
Confidence 46899999999764 344689999965 3232 22222333332 2221 33344445 77888
Q ss_pred HHHHHHhhc--CCCEEEEechh-hHHHHHc
Q 017922 73 QKRMKKLLS--NGTILVGHSLN-NDLEVLK 99 (364)
Q Consensus 73 ~~el~~fl~--~~~iLVGHn~~-fDl~fL~ 99 (364)
+..|.+++. .-.+++|||+. ||+.+|-
T Consensus 226 L~~f~~~i~~~dPDii~GyN~~~fD~~yl~ 255 (325)
T PF03104_consen 226 LEAFLDIIQEYDPDIITGYNIDGFDLPYLI 255 (325)
T ss_dssp HHHHHHHHHHHS-SEEEESSTTTTHHHHHH
T ss_pred HHHHHHHHHhcCCcEEEEecccCCCHHHHH
Confidence 888888774 34699999986 9999984
No 98
>PHA02570 dexA exonuclease; Provisional
Probab=94.80 E-value=0.15 Score=48.12 Aligned_cols=93 Identities=17% Similarity=0.135 Sum_probs=55.8
Q ss_pred EEEEEeccCCCCCcccEEEEEEEEc--C-Cc-EEEEEEEcCCCcc------------ccc--ccccCCCChh---hhcC-
Q 017922 7 YAVDCEMVLCEDGSEGLVRLCVVDR--N-LK-VTIDELVKPEKAV------------ADY--RSEITGLTAD---DLVG- 64 (364)
Q Consensus 7 ValD~ETTGl~~g~~~Ii~V~vVd~--~-G~-vi~d~lVkP~~~I------------~d~--~t~itGIT~e---~L~~- 64 (364)
+.||+||-|..++. .|++|++|-+ + |. ..|+.+|.....+ ++. +..+-.-++| -|..
T Consensus 4 lMIDlETmG~~p~A-aIisIgAV~Fdp~~~~g~tF~elV~~~~~~k~d~~sq~g~~~~d~~TI~WW~kQS~EAR~~L~~s 82 (220)
T PHA02570 4 FIIDFETFGNTPDG-AVIDLAVIAFEHDPHNPPTFEELVSRGRRIKFDLKSQKGKRLFDKSTIEWWKNQSPEARKNLKPS 82 (220)
T ss_pred EEEEeeccCCCCCc-eEEEEEEEEecCCCCccccHHHHhhcccccccchhhccCCCccCchHHHHHHhCCHHHHHhccCC
Confidence 68999999988764 6999999944 2 21 1255555432111 111 1111111111 1111
Q ss_pred -CCCCHHHHHHHHHHhhcCCC------EEEEechhhHHHHHcc
Q 017922 65 -VTCSLAEIQKRMKKLLSNGT------ILVGHSLNNDLEVLKL 100 (364)
Q Consensus 65 -ap~~~~eV~~el~~fl~~~~------iLVGHn~~fDl~fL~~ 100 (364)
..+++.+++.+|.+||.... .+-|-+.+||...|+.
T Consensus 83 ~~~~~l~~al~~F~~fi~~~~~~~~~~~vWgnG~sFD~~IL~~ 125 (220)
T PHA02570 83 DEDVSTYEGHKKFFEYLEANGVDPWKSQGWCRGNSFDFPILVD 125 (220)
T ss_pred CccccHHHHHHHHHHHHHHcCCCccceeEecCCCccCHHHHHH
Confidence 12479999999999996433 3668889999999953
No 99
>TIGR00593 pola DNA polymerase I. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=94.75 E-value=0.17 Score=56.84 Aligned_cols=94 Identities=18% Similarity=0.157 Sum_probs=67.5
Q ss_pred CHHHHHHHHHHhhcCC-CEEEEechhhHHHHHccc---C-CCccchHHHhhhhcCCCCccHHHHHHHHhCCccCC-----
Q 017922 68 SLAEIQKRMKKLLSNG-TILVGHSLNNDLEVLKLD---H-PRVIDTSLIFKYVDEYRRPSLYNLCKSVLGYEIRK----- 137 (364)
Q Consensus 68 ~~~eV~~el~~fl~~~-~iLVGHn~~fDl~fL~~~---~-~~vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~----- 137 (364)
+...+...|..++... ...||||+.||+.+|... . ..+.||...+..+.|...++|++|+.+|++..+..
T Consensus 362 ~~~~~~~~l~~~l~~~~~~~v~~n~K~d~~~l~~~gi~~~~~~~Dt~la~yll~~~~~~~l~~la~~yl~~~~~~~~~~~ 441 (887)
T TIGR00593 362 LTILTDDKFARWLLNEQIKKIGHDAKFLMHLLKREGIELGGVIFDTMLAAYLLDPAQVSTLDTLARRYLVEELILDEKIG 441 (887)
T ss_pred hhHHHHHHHHHHHhCCCCcEEEeeHHHHHHHHHhCCCCCCCcchhHHHHHHHcCCCCCCCHHHHHHHHcCcccccHHHhc
Confidence 4556777788888432 458999999999999753 1 24689999888888744569999999998865211
Q ss_pred C-CCC----------CChHHHHHHHHHHHHHHHHh
Q 017922 138 K-GTP----------HNCLDDASAAMKLVLAIIER 161 (364)
Q Consensus 138 ~-~~~----------H~Al~DA~Ata~L~~~~le~ 161 (364)
+ +.. ..|..||.+++.||..+...
T Consensus 442 ~~~~~~~~~~~~~~~~ya~~d~~~~~~L~~~l~~~ 476 (887)
T TIGR00593 442 GKLAKFAFPPLEEATEYLARRAAATKRLAEELLKE 476 (887)
T ss_pred cCCCCcccccHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 0 000 13678899999999877654
No 100
>smart00362 RRM_2 RNA recognition motif.
Probab=94.74 E-value=0.051 Score=39.06 Aligned_cols=61 Identities=30% Similarity=0.413 Sum_probs=43.9
Q ss_pred hhcCCCCCCCCHHHhcccCCCCceee-eccccccCCCceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 182 LFLHRIPTKVPSEELHGVIPGDFTIE-AKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 182 l~~~~iP~~l~~eel~~~~~~~~~i~-~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
++..++|..++.++|.++|...-.+. +.-........+.+.|.|.+.++|..|.+.++|..
T Consensus 2 v~i~~l~~~~~~~~l~~~~~~~g~v~~~~~~~~~~~~~~~~~v~f~~~~~a~~a~~~~~~~~ 63 (72)
T smart00362 2 LFVGNLPPDVTEEDLKELFSKFGPIESVKIPKDTGKSKGFAFVEFESEEDAEKAIEALNGTK 63 (72)
T ss_pred EEEcCCCCcCCHHHHHHHHHhcCCEEEEEEecCCCCCCceEEEEeCCHHHHHHHHHHhCCcE
Confidence 45678999999999998886644332 22111112346799999999999999999988743
No 101
>PLN03134 glycine-rich RNA-binding protein 4; Provisional
Probab=94.64 E-value=0.055 Score=47.63 Aligned_cols=61 Identities=13% Similarity=0.131 Sum_probs=47.7
Q ss_pred HhhhcCCCCCCCCHHHhcccCCCCceee---ec-cccccCCCceeEEEEeCCHHHHHHHHHhhcCC
Q 017922 180 ARLFLHRIPTKVPSEELHGVIPGDFTIE---AK-AVKRIRGDNYAAFAIFSSPQEANQAFENVKGN 241 (364)
Q Consensus 180 ~~l~~~~iP~~l~~eel~~~~~~~~~i~---~~-~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~ 241 (364)
.++++..||..++.++|..+|...-.|. +. ....+ -..++|.|+|.+.++|..|.+.|++.
T Consensus 35 ~~lfVgnL~~~~te~~L~~~F~~~G~I~~v~i~~d~~tg-~~kGfaFV~F~~~e~A~~Al~~lng~ 99 (144)
T PLN03134 35 TKLFIGGLSWGTDDASLRDAFAHFGDVVDAKVIVDRETG-RSRGFGFVNFNDEGAATAAISEMDGK 99 (144)
T ss_pred CEEEEeCCCCCCCHHHHHHHHhcCCCeEEEEEEecCCCC-CcceEEEEEECCHHHHHHHHHHcCCC
Confidence 3699999999999999999997744442 22 22221 23679999999999999999999875
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=93.77 E-value=1.3 Score=51.29 Aligned_cols=104 Identities=17% Similarity=0.199 Sum_probs=72.4
Q ss_pred ccCCCChhhhcCCCCCHHHHHHHHHHhhc--CCCEEEEech-hhHHHHHccc----------------------------
Q 017922 53 EITGLTADDLVGVTCSLAEIQKRMKKLLS--NGTILVGHSL-NNDLEVLKLD---------------------------- 101 (364)
Q Consensus 53 ~itGIT~e~L~~ap~~~~eV~~el~~fl~--~~~iLVGHn~-~fDl~fL~~~---------------------------- 101 (364)
..-|+.+..|..-. +-.+.+..++.++. .-.+++|||+ .||+.+|-..
T Consensus 569 ~~~~~~~~~L~~~~-sEr~lL~~fl~~~~~~DPDii~g~n~~qfdlkvl~nR~~~l~i~~~~~~Gr~~~~~~~~~~~~~~ 647 (1172)
T TIGR00592 569 EFPGKKPSLVEDLA-TERALIKKFMAKVKKIDPDEIVGHDYQQRALKVLANRINDLKIPTWSKIGRLRRSPKFGRRFGER 647 (1172)
T ss_pred hhhccCCcEEEEec-CHHHHHHHHHHHHHhcCCCEEEEEcccCccHHHHHHHHHHcCCCcccccCccccCCCccccccce
Confidence 44566666666666 77788888888886 6789999997 5899887430
Q ss_pred -CCC-ccchHHHhhhhcCCCCccHHHHHHHHhCCccCCC----------------CCCCChHHHHHHHHHHHHH
Q 017922 102 -HPR-VIDTSLIFKYVDEYRRPSLYNLCKSVLGYEIRKK----------------GTPHNCLDDASAAMKLVLA 157 (364)
Q Consensus 102 -~~~-vIDT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~~----------------~~~H~Al~DA~Ata~L~~~ 157 (364)
..+ ++|+..+++......+|+|..+|+.+||.+-..- .-.+.++.||..+++|+.+
T Consensus 648 ~~Grl~~D~~~~~k~~~~~~sy~L~~v~~~~L~~~k~~~~~~~i~~~~~~~~~~~~~~~y~~~Da~l~~~L~~~ 721 (1172)
T TIGR00592 648 TCGRMICDVEISAKELIRCKSYDLSELVQQILKTERKVIPIDNINNMYSESSSLTYLLEHTWKDAMFILQIMCE 721 (1172)
T ss_pred ECCEEEEEHHHHHHHHhCcCCCCHHHHHHHHhCCCCcccCHHHHHHHHhCcHHHHHHHHHHHHHHHHHHHHHHH
Confidence 111 4788888877766789999999999998643210 0012356778887777753
No 103
>cd00590 RRM RRM (RNA recognition motif), also known as RBD (RNA binding domain) or RNP (ribonucleoprotein domain), is a highly abundant domain in eukaryotes found in proteins involved in post-transcriptional gene expression processes including mRNA and rRNA processing, RNA export, and RNA stability. This domain is 90 amino acids in length and consists of a four-stranded beta-sheet packed against two alpha-helices. RRM usually interacts with ssRNA, but is also known to interact with ssDNA as well as proteins. RRM binds a variable number of nucleotides, ranging from two to eight. The active site includes three aromatic side-chains located within the conserved RNP1 and RNP2 motifs of the domain. The RRM domain is found in a variety heterogeneous nuclear ribonucleoproteins (hnRNPs), proteins implicated in regulation of alternative splicing, and protein components of small nuclear ribonucleoproteins (snRNPs).
Probab=93.71 E-value=0.14 Score=36.89 Aligned_cols=60 Identities=25% Similarity=0.384 Sum_probs=44.5
Q ss_pred hhcCCCCCCCCHHHhcccCCCCceee---eccccccCCCceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 182 LFLHRIPTKVPSEELHGVIPGDFTIE---AKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 182 l~~~~iP~~l~~eel~~~~~~~~~i~---~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
++..++|+.++.+++..+|...-.+. +..... ....+.|+|.|.|.++|..|.+.+++..
T Consensus 2 i~i~~l~~~~~~~~i~~~~~~~g~i~~~~~~~~~~-~~~~~~~~v~f~s~~~a~~a~~~~~~~~ 64 (74)
T cd00590 2 LFVGNLPPDVTEEDLRELFSKFGKVESVRIVRDKD-TKSKGFAFVEFEDEEDAEKALEALNGKE 64 (74)
T ss_pred EEEeCCCCccCHHHHHHHHHhcCCEEEEEEeeCCC-CCcceEEEEEECCHHHHHHHHHHhCCCe
Confidence 45678999999999888886533332 222222 1347899999999999999999998875
No 104
>smart00360 RRM RNA recognition motif.
Probab=93.21 E-value=0.22 Score=35.39 Aligned_cols=58 Identities=28% Similarity=0.334 Sum_probs=41.2
Q ss_pred CCCCCCCCHHHhcccCCCCceee---eccccccCCCceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 185 HRIPTKVPSEELHGVIPGDFTIE---AKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 185 ~~iP~~l~~eel~~~~~~~~~i~---~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
.++|..++.++|..+|...-.+. +...+......+.|.|.|.+.++|..|.+.+.+..
T Consensus 2 ~~l~~~~~~~~l~~~f~~~g~v~~~~i~~~~~~~~~~~~a~v~f~~~~~a~~a~~~~~~~~ 62 (71)
T smart00360 2 GNLPPDVTEEELRELFSKFGKIESVRLVRDKDTGKSKGFAFVEFESEEDAEKALEALNGKE 62 (71)
T ss_pred CCCCcccCHHHHHHHHHhhCCEeEEEEEeCCCCCCCCceEEEEeCCHHHHHHHHHHcCCCe
Confidence 46789999999998886543332 22222112236799999999999999999888554
No 105
>KOG0114 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=93.18 E-value=0.13 Score=43.50 Aligned_cols=63 Identities=21% Similarity=0.343 Sum_probs=51.1
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceeeeccccccCCCceeEEEEeCCHHHHHHHHHhhcCCcc
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIEAKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQS 243 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~~ 243 (364)
-|+...||..++++|.=++|.+.-+|...-.-.-.+..|+|.|++.+...|..|.+.|.|..-
T Consensus 20 iLyirNLp~~ITseemydlFGkyg~IrQIRiG~~k~TrGTAFVVYedi~dAk~A~dhlsg~n~ 82 (124)
T KOG0114|consen 20 ILYIRNLPFKITSEEMYDLFGKYGTIRQIRIGNTKETRGTAFVVYEDIFDAKKACDHLSGYNV 82 (124)
T ss_pred eEEEecCCccccHHHHHHHhhcccceEEEEecCccCcCceEEEEehHhhhHHHHHHHhccccc
Confidence 389999999999999999999977775321111135578999999999999999999998763
No 106
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=93.03 E-value=0.096 Score=52.64 Aligned_cols=61 Identities=20% Similarity=0.287 Sum_probs=47.8
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceee---eccccccCCC-ceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIE---AKAVKRIRGD-NYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~---~~~~~~~~g~-~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
++++..||..++.++|..+|...-.|. +...+. .|. .++|+|+|.+.++|..|.+.|.+..
T Consensus 195 ~lfV~nLp~~vtee~L~~~F~~fG~V~~v~i~~d~~-tg~~kG~aFV~F~~~e~A~~Ai~~lng~~ 259 (346)
T TIGR01659 195 NLYVTNLPRTITDDQLDTIFGKYGQIVQKNILRDKL-TGTPRGVAFVRFNKREEAQEAISALNNVI 259 (346)
T ss_pred eeEEeCCCCcccHHHHHHHHHhcCCEEEEEEeecCC-CCccceEEEEEECCHHHHHHHHHHhCCCc
Confidence 589999999999999999997644443 222222 232 5799999999999999999999764
No 107
>TIGR01659 sex-lethal sex-lethal family splicing factor. This model describes the sex-lethal family of splicing factors found in Dipteran insects. The sex-lethal phenotype, however, may be limited to the Melanogasters and closely related species. In Drosophila the protein acts as an inhibitor of splicing. This subfamily is most closely related to the ELAV/HUD subfamily of splicing factors (TIGR01661).
Probab=92.17 E-value=0.19 Score=50.59 Aligned_cols=64 Identities=20% Similarity=0.232 Sum_probs=49.1
Q ss_pred HHhhhcCCCCCCCCHHHhcccCCCCceee-ec---cccccCCCceeEEEEeCCHHHHHHHHHhhcCCcc
Q 017922 179 RARLFLHRIPTKVPSEELHGVIPGDFTIE-AK---AVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQS 243 (364)
Q Consensus 179 ~~~l~~~~iP~~l~~eel~~~~~~~~~i~-~~---~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~~ 243 (364)
-..|++..||..+++++|..+|...-.|. ++ ....+ -..++|.|+|.+.++|..|.+.|+|..-
T Consensus 107 ~~~LfVgnLp~~~te~~L~~lF~~~G~V~~v~i~~d~~tg-~srGyaFVeF~~~e~A~~Ai~~LnG~~l 174 (346)
T TIGR01659 107 GTNLIVNYLPQDMTDRELYALFRTIGPINTCRIMRDYKTG-YSFGYAFVDFGSEADSQRAIKNLNGITV 174 (346)
T ss_pred CcEEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCC-ccCcEEEEEEccHHHHHHHHHHcCCCcc
Confidence 34699999999999999999998744442 22 22222 1367999999999999999999987554
No 108
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=92.03 E-value=0.19 Score=49.27 Aligned_cols=61 Identities=23% Similarity=0.374 Sum_probs=48.2
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceee-ec--cccccCC-CceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIE-AK--AVKRIRG-DNYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~-~~--~~~~~~g-~~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
.+++..||..++.++|..+|..--.|. ++ ..+. .| ..++|+|.|.+.++|..|.+.|.|..
T Consensus 5 ~l~V~nLp~~~~e~~l~~~F~~~G~i~~v~i~~d~~-~g~s~g~afV~f~~~~~A~~Ai~~l~g~~ 69 (352)
T TIGR01661 5 NLIVNYLPQTMTQEEIRSLFTSIGEIESCKLVRDKV-TGQSLGYGFVNYVRPEDAEKAVNSLNGLR 69 (352)
T ss_pred EEEEeCCCCCCCHHHHHHHHHccCCEEEEEEEEcCC-CCccceEEEEEECcHHHHHHHHhhcccEE
Confidence 588999999999999999998754542 22 2222 23 37899999999999999999998854
No 109
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=91.95 E-value=0.15 Score=52.37 Aligned_cols=64 Identities=17% Similarity=0.308 Sum_probs=50.1
Q ss_pred HHHHhhhcCCCCCCCCHHHhcccCCCCcee-e---eccccccCCCceeEEEEeCCHHHHHHHHHhhcCC
Q 017922 177 TERARLFLHRIPTKVPSEELHGVIPGDFTI-E---AKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGN 241 (364)
Q Consensus 177 ~~~~~l~~~~iP~~l~~eel~~~~~~~~~i-~---~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~ 241 (364)
....+|++..||..|++.+|..+|.+.-.+ | +++... +-..+||.|.|.+.++|++|..-|--.
T Consensus 32 ~~~vKlfVgqIprt~sE~dlr~lFe~yg~V~einl~kDk~t-~~s~gcCFv~~~trk~a~~a~~Alhn~ 99 (510)
T KOG0144|consen 32 GSAVKLFVGQIPRTASEKDLRELFEKYGNVYEINLIKDKST-GQSKGCCFVKYYTRKEADEAINALHNQ 99 (510)
T ss_pred chhhhheeccCCccccHHHHHHHHHHhCceeEEEeeccccc-CcccceEEEEeccHHHHHHHHHHhhcc
Confidence 456689999999999999999999775544 3 333333 234889999999999999999988543
No 110
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor. These proteins contain 3 RNA-recognition motifs (rrm: pfam00076).
Probab=91.94 E-value=0.2 Score=49.12 Aligned_cols=67 Identities=12% Similarity=0.084 Sum_probs=51.8
Q ss_pred hhcCCCCCCCCHHHhcccCCCCceee---ec-cccccCCCceeEEEEeCCHHHHHHHHHhhcCCccCCCCCCcce
Q 017922 182 LFLHRIPTKVPSEELHGVIPGDFTIE---AK-AVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQSKDSYGRPQK 252 (364)
Q Consensus 182 l~~~~iP~~l~~eel~~~~~~~~~i~---~~-~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~~~d~~g~~qk 252 (364)
+++..||..++.++|..+|...-.|+ +. .... ....|++.|.|.|.++|..|...|+|..- .||+.+
T Consensus 272 lfV~NL~~~~~e~~L~~~F~~fG~v~~v~i~~d~~t-~~skG~aFV~F~~~~~A~~Ai~~lnG~~~---~gr~i~ 342 (352)
T TIGR01661 272 IFVYNLSPDTDETVLWQLFGPFGAVQNVKIIRDLTT-NQCKGYGFVSMTNYDEAAMAILSLNGYTL---GNRVLQ 342 (352)
T ss_pred EEEeCCCCCCCHHHHHHHHHhCCCeEEEEEeEcCCC-CCccceEEEEECCHHHHHHHHHHhCCCEE---CCeEEE
Confidence 89999999999999999998654553 21 2222 23478999999999999999999999663 466554
No 111
>KOG1798 consensus DNA polymerase epsilon, catalytic subunit A [Replication, recombination and repair]
Probab=90.54 E-value=2.6 Score=49.56 Aligned_cols=149 Identities=16% Similarity=0.193 Sum_probs=89.6
Q ss_pred CcEEEEEEeccCCC---C--CcccEEEEEE-EEcCCcEEEEE-EEcCC------CcccccccccCCCChhhhcCCCCCHH
Q 017922 4 NIMYAVDCEMVLCE---D--GSEGLVRLCV-VDRNLKVTIDE-LVKPE------KAVADYRSEITGLTADDLVGVTCSLA 70 (364)
Q Consensus 4 ~~~ValD~ETTGl~---~--g~~~Ii~V~v-Vd~~G~vi~d~-lVkP~------~~I~d~~t~itGIT~e~L~~ap~~~~ 70 (364)
..+.|||+|||-+. | ..++|.-|+. ||+.|..+.+. +|--+ .|-|+|.-.++ +-+.| .-.
T Consensus 246 p~VlAFDIETtKlPLKFPDae~DqIMMISYMiDGqGfLItNREiVs~DIedfEYTPKpE~eG~F~------v~Ne~-dEv 318 (2173)
T KOG1798|consen 246 PRVLAFDIETTKLPLKFPDAESDQIMMISYMIDGQGFLITNREIVSEDIEDFEYTPKPEYEGPFC------VFNEP-DEV 318 (2173)
T ss_pred ceEEEEeeecccCCCCCCCcccceEEEEEEEecCceEEEechhhhccchhhcccCCccccccceE------EecCC-cHH
Confidence 36889999999874 2 2357888875 57777644331 11110 11111111111 22334 455
Q ss_pred HHHHHHHHhhc--CCCEEEEechh-hHHHHHccc---CC-------------------CccchHHHhhhh-----cCCCC
Q 017922 71 EIQKRMKKLLS--NGTILVGHSLN-NDLEVLKLD---HP-------------------RVIDTSLIFKYV-----DEYRR 120 (364)
Q Consensus 71 eV~~el~~fl~--~~~iLVGHn~~-fDl~fL~~~---~~-------------------~vIDT~~L~r~~-----~~~~~ 120 (364)
.++.++.+-+. .-+|+|-+|-. ||..|+... |. +...-+.-|+.. .|..+
T Consensus 319 ~Ll~RfFeHiq~~kP~iivTyNGDFFDWPFve~Ra~~hGi~m~eEiGF~~D~~gEyks~~c~HmDcfrWVKRDSYLPqGS 398 (2173)
T KOG1798|consen 319 GLLQRFFEHIQEVKPTIIVTYNGDFFDWPFVEARAKIHGISMNEEIGFRRDSQGEYKSPFCIHMDCFRWVKRDSYLPQGS 398 (2173)
T ss_pred HHHHHHHHHHHhcCCcEEEEecCccccchhhHHHHHhcCCCcchhcCceecccccccccceeehhhhhhhhhcccCCCcc
Confidence 66666665552 45899999876 699999751 11 011122233332 23689
Q ss_pred ccHHHHHHHHhCCccCC-C-------------CCCCChHHHHHHHHHHHHHHH
Q 017922 121 PSLYNLCKSVLGYEIRK-K-------------GTPHNCLDDASAAMKLVLAII 159 (364)
Q Consensus 121 ~sL~~L~k~~Lgi~i~~-~-------------~~~H~Al~DA~Ata~L~~~~l 159 (364)
++|++..+.-||++--. . .-+--++.||.||.-||.+++
T Consensus 399 qgLKAVTkaKLGYdPvEvdPEdM~~~A~EkPQ~lasYSVSDAVATYyLYMkYV 451 (2173)
T KOG1798|consen 399 QGLKAVTKAKLGYDPVEVDPEDMVRMAMEKPQTLASYSVSDAVATYYLYMKYV 451 (2173)
T ss_pred cchhHHHHHhhCCCcccCCHHHhhhhhhhCchhhhhcchHHHHHHHHHHHHHh
Confidence 99999999999986211 0 123467899999999999887
No 112
>PLN03120 nucleic acid binding protein; Provisional
Probab=89.98 E-value=0.38 Score=46.62 Aligned_cols=60 Identities=17% Similarity=0.228 Sum_probs=45.4
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceeeecc-ccccCCCceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIEAKA-VKRIRGDNYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~~~~-~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
.+++.+||+..+.++|..+|...-.|+-.. ... +...++|+|+|.+++.|..|.. |.|..
T Consensus 6 tVfVgNLs~~tTE~dLrefFS~~G~I~~V~I~~d-~~~~GfAFVtF~d~eaAe~All-LnG~~ 66 (260)
T PLN03120 6 TVKVSNVSLKATERDIKEFFSFSGDIEYVEMQSE-NERSQIAYVTFKDPQGAETALL-LSGAT 66 (260)
T ss_pred EEEEeCCCCCCCHHHHHHHHHhcCCeEEEEEeec-CCCCCEEEEEeCcHHHHHHHHH-hcCCe
Confidence 578999999999999999998755664211 111 1124699999999999999994 88754
No 113
>KOG0107 consensus Alternative splicing factor SRp20/9G8 (RRM superfamily) [RNA processing and modification]
Probab=89.64 E-value=0.25 Score=45.33 Aligned_cols=59 Identities=17% Similarity=0.272 Sum_probs=49.1
Q ss_pred HhhhcCCCCCCCCHHHhcccCCCCcee--eeccccccCCCceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 180 ARLFLHRIPTKVPSEELHGVIPGDFTI--EAKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 180 ~~l~~~~iP~~l~~eel~~~~~~~~~i--~~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
.++++..|++..+..||+..|...-.+ .|+.-++ -++|.|+|.++-+|.+|..-|+|..
T Consensus 11 ~kVYVGnL~~~a~k~eLE~~F~~yG~lrsvWvArnP----PGfAFVEFed~RDA~DAvr~LDG~~ 71 (195)
T KOG0107|consen 11 TKVYVGNLGSRATKRELERAFSKYGPLRSVWVARNP----PGFAFVEFEDPRDAEDAVRYLDGKD 71 (195)
T ss_pred ceEEeccCCCCcchHHHHHHHHhcCcceeEEEeecC----CCceEEeccCcccHHHHHhhcCCcc
Confidence 468999999999999999999875555 4554433 2599999999999999999999976
No 114
>COG0417 PolB DNA polymerase elongation subunit (family B) [DNA replication, recombination, and repair]
Probab=89.51 E-value=4.3 Score=45.28 Aligned_cols=119 Identities=17% Similarity=0.102 Sum_probs=74.1
Q ss_pred CCcEEEEEEeccCCCC-----CcccEEEEEEEEc-CCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHH
Q 017922 3 SNIMYAVDCEMVLCED-----GSEGLVRLCVVDR-NLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRM 76 (364)
Q Consensus 3 ~~~~ValD~ETTGl~~-----g~~~Ii~V~vVd~-~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el 76 (364)
+-.+++||+|+.+... ..+.++.|+.... .+... ..+. .+...|.. +.... +-.+++..|
T Consensus 153 ~l~~la~DiE~~~~~~~~~~~~~d~~~~i~~~~~~~~~~~----~~~~------~~~~~~~~---v~~~~-~e~e~l~~~ 218 (792)
T COG0417 153 PLRVLAFDIETLSEPGKFPDGEKDPIIMISYAIEAEGGLI----EVFI------YTSGEGFS---VEVVI-SEAELLERF 218 (792)
T ss_pred CceEEEEEEEEecCCCCCCCccCCceEEEEEEeccCCCcc----cccc------ccCCCCce---eEEec-CHHHHHHHH
Confidence 4578999999997642 2345666666654 22212 1110 11111111 33343 667788888
Q ss_pred HHhhc--CCCEEEEechh-hHHHHHccc-------C--------------------C-CccchHHHhhh-hcCCCCccHH
Q 017922 77 KKLLS--NGTILVGHSLN-NDLEVLKLD-------H--------------------P-RVIDTSLIFKY-VDEYRRPSLY 124 (364)
Q Consensus 77 ~~fl~--~~~iLVGHn~~-fDl~fL~~~-------~--------------------~-~vIDT~~L~r~-~~~~~~~sL~ 124 (364)
..++. ...|+||||.. ||+.+|... . . ..+|...+++. .....+++|.
T Consensus 219 ~~~i~~~dPdVIvgyn~~~fd~pyl~~Ra~~lgi~~~~gr~~~~~~~~~~~~~~~~Gr~~iDl~~~~~~~~~~~~~ysl~ 298 (792)
T COG0417 219 VELIREYDPDVIVGYNGDNFDWPYLAERAERLGIPLRLGRDGSELRVRKSGFSSQVGRLHIDLYPALRRRPLNLKSYSLE 298 (792)
T ss_pred HHHHHhcCCCEEEeccCCcCChHHHHHHHHHhCCCccccccccccceeecccccccceEEEecHHHHhhhhcccccccHH
Confidence 87773 45799999997 999999641 0 1 14777777773 4447899999
Q ss_pred HHHHHHhCCcc
Q 017922 125 NLCKSVLGYEI 135 (364)
Q Consensus 125 ~L~k~~Lgi~i 135 (364)
..+..+|+..-
T Consensus 299 ~v~~~~l~~~k 309 (792)
T COG0417 299 AVSEALLGEGK 309 (792)
T ss_pred HHHHHhccccc
Confidence 99878877654
No 115
>KOG3657 consensus Mitochondrial DNA polymerase gamma, catalytic subunit [Replication, recombination and repair]
Probab=88.65 E-value=0.67 Score=51.25 Aligned_cols=79 Identities=22% Similarity=0.333 Sum_probs=52.1
Q ss_pred cCCCEEEEechhhHHHHHcccC------CCccchHHHhhhhc----------------------------------C---
Q 017922 81 SNGTILVGHSLNNDLEVLKLDH------PRVIDTSLIFKYVD----------------------------------E--- 117 (364)
Q Consensus 81 ~~~~iLVGHn~~fDl~fL~~~~------~~vIDT~~L~r~~~----------------------------------~--- 117 (364)
+.+.++||||+.||..-++-.. -+++||+.|.-..+ |
T Consensus 239 ~ke~liVGHNVsfDRaRirEeY~i~~Sk~rFlDTMSlHia~~Gm~S~Qrplw~ka~k~k~a~~d~~~~ps~~d~~~pWL~ 318 (1075)
T KOG3657|consen 239 GKEQLIVGHNVSFDRARIREEYNINGSKIRFLDTMSLHIAMSGMCSRQRPLWFKARKAKSAMYDSETNPSISDYDNPWLG 318 (1075)
T ss_pred CCCceEEeccccchHHHHHHHHhccccceeeeechhhhhhhhccccccchhHhhhhhhhhhhhhcccCCchhhhhhhhhh
Confidence 3789999999999999887632 24789876521110 0
Q ss_pred -CCCccHHHHHHHHhCCc-cCCC-------CC-----------CCChHHHHHHHHHHHHHHH
Q 017922 118 -YRRPSLYNLCKSVLGYE-IRKK-------GT-----------PHNCLDDASAAMKLVLAII 159 (364)
Q Consensus 118 -~~~~sL~~L~k~~Lgi~-i~~~-------~~-----------~H~Al~DA~Ata~L~~~~l 159 (364)
-.-.||.++++-++|++ +... +. ---+..|..||.++|..+.
T Consensus 319 ~SS~NSL~dVhk~~c~~~~LdKt~Rd~Fvs~~~e~Ire~fq~L~~YCA~Dv~aThqVf~~lf 380 (1075)
T KOG3657|consen 319 RSSLNSLVDVHKFHCGIDALDKTPRDSFVSGTKEQIRENFQPLMNYCARDVIATHQVFFRLF 380 (1075)
T ss_pred hhhhHHHHHHHHhhCCCCccccchHHhhhcCcHHHHHHHHHHHHHHHhhhhHHHHHHHHHHh
Confidence 12367888898888988 3321 00 0123478999999987654
No 116
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=88.55 E-value=0.58 Score=47.77 Aligned_cols=62 Identities=19% Similarity=0.262 Sum_probs=47.6
Q ss_pred HhhhcCCCCCCCCHHHhcccCCCCceee-ec--cccccCCCceeEEEEeCCHHHHHHHHHhhcCC
Q 017922 180 ARLFLHRIPTKVPSEELHGVIPGDFTIE-AK--AVKRIRGDNYAAFAIFSSPQEANQAFENVKGN 241 (364)
Q Consensus 180 ~~l~~~~iP~~l~~eel~~~~~~~~~i~-~~--~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~ 241 (364)
.++++.+||..++.++|..+|...-.|. +. ....+.-..++|+|.|.+.++|..|.+.|+|.
T Consensus 187 ~~l~v~nl~~~~te~~l~~~f~~~G~i~~v~~~~d~~~g~~~g~afV~f~~~e~A~~A~~~l~g~ 251 (457)
T TIGR01622 187 LKLYVGNLHFNITEQELRQIFEPFGDIEDVQLHRDPETGRSKGFGFIQFHDAEEAKEALEVMNGF 251 (457)
T ss_pred CEEEEcCCCCCCCHHHHHHHHHhcCCeEEEEEEEcCCCCccceEEEEEECCHHHHHHHHHhcCCc
Confidence 3589999999999999999997655553 22 11221123679999999999999999999983
No 117
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=88.43 E-value=0.48 Score=49.98 Aligned_cols=61 Identities=26% Similarity=0.359 Sum_probs=47.0
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceee-ec--cccccCCCceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIE-AK--AVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~-~~--~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
.+++..||..++.++|..+|...-.|. ++ ....| -..++++|+|.|.++|..|++.+.|..
T Consensus 287 ~l~V~nl~~~~~~~~L~~~F~~~G~i~~~~i~~d~~g-~~~g~gfV~f~~~~~A~~A~~~~~g~~ 350 (562)
T TIGR01628 287 NLYVKNLDDTVTDEKLRELFSECGEITSAKVMLDEKG-VSRGFGFVCFSNPEEANRAVTEMHGRM 350 (562)
T ss_pred EEEEeCCCCccCHHHHHHHHHhcCCeEEEEEEECCCC-CcCCeEEEEeCCHHHHHHHHHHhcCCe
Confidence 378899999999999999998754553 22 22221 226799999999999999999998854
No 118
>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=88.09 E-value=6.6 Score=40.85 Aligned_cols=84 Identities=14% Similarity=0.103 Sum_probs=54.4
Q ss_pred HHHHHHHHHHhhc--CCCEEEEechhhHHHHHccc---CC-----------CccchHHHhhhh--cCCCCccHHHHHHHH
Q 017922 69 LAEIQKRMKKLLS--NGTILVGHSLNNDLEVLKLD---HP-----------RVIDTSLIFKYV--DEYRRPSLYNLCKSV 130 (364)
Q Consensus 69 ~~eV~~el~~fl~--~~~iLVGHn~~fDl~fL~~~---~~-----------~vIDT~~L~r~~--~~~~~~sL~~L~k~~ 130 (364)
-.+++.+|.+|+. .+..++.+| .|...+|+.. ++ +++|...+.+.. .|..+|||+.++ .+
T Consensus 328 E~~~~~~f~~~l~~~~~~~i~hY~-~~e~~~l~rla~~~~~~~~~~~~l~~~~vDL~~~vr~~~~~p~~sysLK~v~-~~ 405 (457)
T TIGR03491 328 EELAWQQFLQLLQSYPDAPIYHYG-ETEKDSLRRLAKRYGTPEAEIEELLKRFVDIHTIVRRSWILPIESYSLKSIA-RW 405 (457)
T ss_pred HHHHHHHHHHHHHHCCCCeEEeeC-HHHHHHHHHHHHHcCCCHHHHHHHHHHheehHHHHHhhEECCCCCCCHHHHH-HH
Confidence 3456666666664 455788888 7888888752 11 357766555543 347889999999 88
Q ss_pred hCCccCCCCCCCChHHHHHHHHHHHHHHHH
Q 017922 131 LGYEIRKKGTPHNCLDDASAAMKLVLAIIE 160 (364)
Q Consensus 131 Lgi~i~~~~~~H~Al~DA~Ata~L~~~~le 160 (364)
+|.+... ...|...++..|..++.
T Consensus 406 lg~~~~~------~~~~G~~ai~~y~~~~~ 429 (457)
T TIGR03491 406 LGFEWRQ------KEASGAKSLLWYRQWKK 429 (457)
T ss_pred hCcccCC------CCCCHHHHHHHHHHHHH
Confidence 8988652 23344455666766654
No 119
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=87.97 E-value=0.53 Score=50.58 Aligned_cols=63 Identities=19% Similarity=0.218 Sum_probs=49.3
Q ss_pred HhhhcCCCCCCCCHHHhcccCCCCceee-ec--cccccCCCceeEEEEeCCHHHHHHHHHhhcCCcc
Q 017922 180 ARLFLHRIPTKVPSEELHGVIPGDFTIE-AK--AVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQS 243 (364)
Q Consensus 180 ~~l~~~~iP~~l~~eel~~~~~~~~~i~-~~--~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~~ 243 (364)
+++++..||..+++++|..+|...-.|. ++ -...| ...+.|+|.|.+.+.|..|++.|++..-
T Consensus 59 ~~lFVgnLp~~~tEd~L~~~F~~~G~I~~vrl~~D~sG-~sRGfaFV~F~~~e~A~~Ai~~lng~~i 124 (578)
T TIGR01648 59 CEVFVGKIPRDLYEDELVPLFEKAGPIYELRLMMDFSG-QNRGYAFVTFCGKEEAKEAVKLLNNYEI 124 (578)
T ss_pred CEEEeCCCCCCCCHHHHHHHHHhhCCEEEEEEEECCCC-CccceEEEEeCCHHHHHHHHHHcCCCee
Confidence 4699999999999999999998744442 22 12222 2367999999999999999999998754
No 120
>TIGR01628 PABP-1234 polyadenylate binding protein, human types 1, 2, 3, 4 family. There are four paralogs in Homo sapiens which are expressed in testis, platelets, broadly expressed, or of unknown tissue range.
Probab=87.96 E-value=0.54 Score=49.65 Aligned_cols=62 Identities=15% Similarity=0.193 Sum_probs=47.1
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceee-ec--cccccCCCceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIE-AK--AVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~-~~--~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
.+++..||+.++.++|..+|...-.|. +. .....+...+.|+|.|.+.++|..|++.+.+..
T Consensus 2 sl~VgnLp~~vte~~L~~~F~~~G~v~~v~v~~d~~t~~s~G~afV~F~~~~~A~~Al~~ln~~~ 66 (562)
T TIGR01628 2 SLYVGDLDPDVTEAKLYDLFKPFGPVLSVRVCRDSVTRRSLGYGYVNFQNPADAERALETMNFKR 66 (562)
T ss_pred eEEEeCCCCCCCHHHHHHHHHhcCCEEEEEEEecCCCCCcceEEEEEECCHHHHHHHHHHhCCCE
Confidence 478899999999999999997654443 22 112112236799999999999999999998763
No 121
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=87.53 E-value=0.62 Score=48.21 Aligned_cols=63 Identities=13% Similarity=0.285 Sum_probs=48.3
Q ss_pred HhhhcCCCCCCCCHHHhcccCCCCceee----eccccccCCCceeEEEEeCCHHHHHHHHHhhcCCcc
Q 017922 180 ARLFLHRIPTKVPSEELHGVIPGDFTIE----AKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQS 243 (364)
Q Consensus 180 ~~l~~~~iP~~l~~eel~~~~~~~~~i~----~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~~ 243 (364)
.+|++..||..++.++|..+|...-.|. ++....| ...|.|+|+|.+.+.|..|++.|.|..-
T Consensus 296 ~~l~v~nlp~~~~~~~l~~~f~~~G~i~~~~~~~~~~~g-~~~g~afv~f~~~~~a~~A~~~l~g~~~ 362 (509)
T TIGR01642 296 DRIYIGNLPLYLGEDQIKELLESFGDLKAFNLIKDIATG-LSKGYAFCEYKDPSVTDVAIAALNGKDT 362 (509)
T ss_pred CEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEEecCCCC-CcCeEEEEEECCHHHHHHHHHHcCCCEE
Confidence 3699999999999999999987644443 1222222 2367999999999999999999987653
No 122
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=87.18 E-value=0.75 Score=49.70 Aligned_cols=63 Identities=13% Similarity=0.182 Sum_probs=49.2
Q ss_pred HhhhcCCCCCCCCHHHhcccCCCCceee---eccccccCCCceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 180 ARLFLHRIPTKVPSEELHGVIPGDFTIE---AKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 180 ~~l~~~~iP~~l~~eel~~~~~~~~~i~---~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
.++++.+||+.++.++|..+|...-.|. +.....++...|+++|.|.+.+.|.+|.+.++|..
T Consensus 205 ~rLfVgnLp~~vteedLk~lFs~FG~I~svrl~~D~~tgksKGfGFVeFe~~e~A~kAI~amNg~e 270 (612)
T TIGR01645 205 NRIYVASVHPDLSETDIKSVFEAFGEIVKCQLARAPTGRGHKGYGFIEYNNLQSQSEAIASMNLFD 270 (612)
T ss_pred ceEEeecCCCCCCHHHHHHHHhhcCCeeEEEEEecCCCCCcCCeEEEEECCHHHHHHHHHHhCCCe
Confidence 4699999999999999999997644442 32222222347899999999999999999999764
No 123
>PLN03213 repressor of silencing 3; Provisional
Probab=86.92 E-value=0.59 Score=48.96 Aligned_cols=61 Identities=21% Similarity=0.309 Sum_probs=49.0
Q ss_pred HhhhcCCCCCCCCHHHhcccCCCCceee-eccccccCCCceeEEEEeCCH--HHHHHHHHhhcCCc
Q 017922 180 ARLFLHRIPTKVPSEELHGVIPGDFTIE-AKAVKRIRGDNYAAFAIFSSP--QEANQAFENVKGNQ 242 (364)
Q Consensus 180 ~~l~~~~iP~~l~~eel~~~~~~~~~i~-~~~~~~~~g~~~~~~~~f~s~--~~~~~af~~l~g~~ 242 (364)
.++|+.+|+..++.++|..+|...-.+. +.-+ +..| .++++|.|.++ +++.+||+.|+|..
T Consensus 11 MRIYVGNLSydVTEDDLravFSeFGsVkdVEIp-RETG-RGFAFVEMssdddaEeeKAISaLNGAE 74 (759)
T PLN03213 11 VRLHVGGLGESVGRDDLLKIFSPMGTVDAVEFV-RTKG-RSFAYIDFSPSSTNSLTKLFSTYNGCV 74 (759)
T ss_pred eEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEe-cccC-CceEEEEecCCcHHHHHHHHHHhcCCe
Confidence 4799999999999999999998755553 2222 3245 78999999988 78999999998876
No 124
>TIGR01645 half-pint poly-U binding splicing factor, half-pint family. In the case of PUF60 (GP|6176532), in complex with p54, and in the presence of U2AF, facilitates association of U2 snRNP with pre-mRNA.
Probab=86.15 E-value=0.89 Score=49.14 Aligned_cols=63 Identities=16% Similarity=0.216 Sum_probs=49.0
Q ss_pred HHhhhcCCCCCCCCHHHhcccCCCCceee-ec---cccccCCCceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 179 RARLFLHRIPTKVPSEELHGVIPGDFTIE-AK---AVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 179 ~~~l~~~~iP~~l~~eel~~~~~~~~~i~-~~---~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
.+++++.+||..++.++|..+|...-.|. +. ....| ...++|+|+|.+.+.|..|.+.++|..
T Consensus 107 ~~rLfVGnLp~~~tEe~Lr~lF~~fG~I~sV~I~~D~~Tg-kskGfAFVeF~s~e~A~~Ai~~lnG~~ 173 (612)
T TIGR01645 107 MCRVYVGSISFELREDTIRRAFDPFGPIKSINMSWDPATG-KHKGFAFVEYEVPEAAQLALEQMNGQM 173 (612)
T ss_pred CCEEEEcCCCCCCCHHHHHHHHHccCCEEEEEEeecCCCC-CcCCeEEEEeCcHHHHHHHHHhcCCeE
Confidence 34689999999999999999998754552 22 12222 237899999999999999999998754
No 125
>TIGR01642 U2AF_lg U2 snRNP auxilliary factor, large subunit, splicing factor. Members of this subfamily are found in plants, metazoa and fungi.
Probab=85.95 E-value=0.4 Score=49.62 Aligned_cols=61 Identities=20% Similarity=0.259 Sum_probs=42.8
Q ss_pred HHhhhcCCCCCCCCHHHhcccCCCCcee----------eeccccccCCCceeEEEEeCCHHHHHHHHHhhcCC
Q 017922 179 RARLFLHRIPTKVPSEELHGVIPGDFTI----------EAKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGN 241 (364)
Q Consensus 179 ~~~l~~~~iP~~l~~eel~~~~~~~~~i----------~~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~ 241 (364)
..+|++..||..++.++|..+|...... .+..... ....++|+|+|.|+++|..|+ .|+|.
T Consensus 175 ~r~lyVgnLp~~~t~~~l~~~F~~~~~~~~~~~~~~~~~v~~~~~-~~~kg~afVeF~~~e~A~~Al-~l~g~ 245 (509)
T TIGR01642 175 ARRLYVGGIPPEFVEEAVVDFFNDLMIATGYHKAEDGKHVSSVNI-NKEKNFAFLEFRTVEEATFAM-ALDSI 245 (509)
T ss_pred ccEEEEeCCCCCCCHHHHHHHHHHHHHhcCCCCCCCCCceEEEEE-CCCCCEEEEEeCCHHHHhhhh-cCCCe
Confidence 3469999999999999999998642100 0111111 223468999999999999999 47664
No 126
>KOG0969 consensus DNA polymerase delta, catalytic subunit [Replication, recombination and repair]
Probab=85.83 E-value=0.29 Score=53.62 Aligned_cols=133 Identities=14% Similarity=0.176 Sum_probs=74.7
Q ss_pred CCCcEEEEEEeccCCCC-----CcccEEEEE-EEEcCC--cEEE-EEE-EcCCCcccccccccCCCChhhhcCCCCCHHH
Q 017922 2 TSNIMYAVDCEMVLCED-----GSEGLVRLC-VVDRNL--KVTI-DEL-VKPEKAVADYRSEITGLTADDLVGVTCSLAE 71 (364)
Q Consensus 2 ~~~~~ValD~ETTGl~~-----g~~~Ii~V~-vVd~~G--~vi~-d~l-VkP~~~I~d~~t~itGIT~e~L~~ap~~~~e 71 (364)
-|-.+..||+|+.|... ..+-+++|+ +|...| ...+ +.+ ++|-.+|+.-..-. -++. . .+-+
T Consensus 272 APlrvlSfDIECagrkg~FPe~~~DPvIQIan~v~~~Ge~~pf~rnvf~l~~capI~G~~V~~-~~~e------~-elL~ 343 (1066)
T KOG0969|consen 272 APLRVLSFDIECAGRKGVFPEAKIDPVIQIANLVTLQGENEPFVRNVFTLKTCAPIVGSNVHS-YETE------K-ELLE 343 (1066)
T ss_pred ccccccceeEEeccCCCCCCccccChHHHHHHHHHHhcCCchHHHhhhcccCcCCCCCceeEE-eccH------H-HHHH
Confidence 45678899999999753 223566665 333333 3222 122 24444544321111 1121 1 3445
Q ss_pred HHHHHHHhhcCCCEEEEech-hhHHHHHc-------cc-CC----------C-------------------------ccc
Q 017922 72 IQKRMKKLLSNGTILVGHSL-NNDLEVLK-------LD-HP----------R-------------------------VID 107 (364)
Q Consensus 72 V~~el~~fl~~~~iLVGHn~-~fDl~fL~-------~~-~~----------~-------------------------vID 107 (364)
.|..|..-+ .-.+++|+|+ .||+-.|= +. +| . .+|
T Consensus 344 ~W~~firev-DPDvI~GYNi~nFDiPYll~RA~~L~Ie~Fp~LGRikn~~s~irDttfSSkq~GtRetK~v~I~GRlqfD 422 (1066)
T KOG0969|consen 344 SWRKFIREV-DPDVIIGYNICNFDIPYLLNRAKTLGIENFPYLGRIKNSRSVIRDSTFSSKQYGTRETKEVNIDGRLQFD 422 (1066)
T ss_pred HHHHHHHhc-CCCeEecccccccccceecChHhhcCcccccccceecccceeeeccccchhhcCcccceEEeecceeeeh
Confidence 666777777 6789999998 58886552 10 11 0 144
Q ss_pred hHHHhhhhcCCCCccHHHHHHHHhCCccCCCCCCCChH
Q 017922 108 TSLIFKYVDEYRRPSLYNLCKSVLGYEIRKKGTPHNCL 145 (364)
Q Consensus 108 T~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~~~~~H~Al 145 (364)
.+..-.+-+..++|+|..++..|||..-+ +.+|+.+
T Consensus 423 llqvi~Rd~KLrSytLNaVs~hFL~EQKE--DV~~siI 458 (1066)
T KOG0969|consen 423 LLQVILRDYKLRSYTLNAVSAHFLGEQKE--DVHHSII 458 (1066)
T ss_pred HHHHHHHhhhhhhcchhhhHHHhhhhhcc--cccccch
Confidence 44443433446899999999999987654 3456544
No 127
>PRK05761 DNA polymerase I; Reviewed
Probab=83.49 E-value=6.4 Score=43.97 Aligned_cols=88 Identities=22% Similarity=0.170 Sum_probs=60.9
Q ss_pred CHHHHHHHHHHhhcCCCEEEEech-hhHHHHHccc-----C-----CC-------ccchHHHhhhh-------cC---CC
Q 017922 68 SLAEIQKRMKKLLSNGTILVGHSL-NNDLEVLKLD-----H-----PR-------VIDTSLIFKYV-------DE---YR 119 (364)
Q Consensus 68 ~~~eV~~el~~fl~~~~iLVGHn~-~fDl~fL~~~-----~-----~~-------vIDT~~L~r~~-------~~---~~ 119 (364)
+-.+++..|.+|+..-.+.|++|. +||+..|... . ++ -+|....+... .+ ..
T Consensus 209 ~E~eLL~~f~~~i~~~dPdi~yN~~~FDlPYL~~Ra~~lgi~~~~~~~~~~~~~~~iDl~~~~~~~~~~~y~~~~~~~~~ 288 (787)
T PRK05761 209 SEKELLAELFDIILEYPPVVTFNGDNFDLPYLYNRALKLGIPKEEIPIEPGRAGIHIDLYKFFQNKAVRSYAFYGKYRHR 288 (787)
T ss_pred CHHHHHHHHHHHHHhcCCEEEEcCCcchHHHHHHHHHHhCCCchhcccccCCCceEEechhheeecceeeeeccceeecc
Confidence 788999999999988889999997 4999998541 1 11 15554444321 11 23
Q ss_pred CccHHHHHHHHhCCccCC-------C---CCCCChHHHHHHHHHHH
Q 017922 120 RPSLYNLCKSVLGYEIRK-------K---GTPHNCLDDASAAMKLV 155 (364)
Q Consensus 120 ~~sL~~L~k~~Lgi~i~~-------~---~~~H~Al~DA~Ata~L~ 155 (364)
+++|+..++.+||..-.+ . .-..-++.||..|..|+
T Consensus 289 ~ysL~~Va~~~Lg~~K~~~~~~i~~~~~~~l~~Y~l~Da~l~~~L~ 334 (787)
T PRK05761 289 EARLDAVGRALLGISKVELETNISELDLEELAEYNFRDAEITLKLT 334 (787)
T ss_pred cCChHHHHHHHhCCCcccccccccccCHHHHHHHHHHHHHHHHHHH
Confidence 799999998899875311 0 01235789999999984
No 128
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=83.14 E-value=1.8 Score=45.19 Aligned_cols=67 Identities=18% Similarity=0.246 Sum_probs=51.6
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCce--e---eeccccccCCCceeEEEEeCCHHHHHHHHHhhcCCccCCCCCC
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFT--I---EAKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQSKDSYGR 249 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~--i---~~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~~~d~~g~ 249 (364)
.|++..||..++.++|.++|...-. + .+.+.+ ++..+++.|.|.|.++|..|...|.|..-.+..|.
T Consensus 396 ~L~v~NLp~~~tee~L~~lF~~~G~~~i~~ik~~~~~--~~~~~~gfVeF~~~e~A~~Al~~ln~~~l~~~~~~ 467 (481)
T TIGR01649 396 TLHLSNIPLSVSEEDLKELFAENGVHKVKKFKFFPKD--NERSKMGLLEWESVEDAVEALIALNHHQLNEPNGS 467 (481)
T ss_pred EEEEecCCCCCCHHHHHHHHHhcCCccceEEEEecCC--CCcceeEEEEcCCHHHHHHHHHHhcCCccCCCCCC
Confidence 4778899999999999999976443 2 222222 23457899999999999999999999887666555
No 129
>TIGR01648 hnRNP-R-Q heterogeneous nuclear ribonucleoprotein R, Q family. Sequences in this subfamily include the human heterogeneous nuclear ribonucleoproteins (hnRNP) R, Q and APOBEC-1 complementation factor (aka APOBEC-1 stimulating protein). These proteins contain three RNA recognition domains (rrm: pfam00076) and a somewhat variable C-terminal domain.
Probab=82.54 E-value=1.1 Score=48.08 Aligned_cols=57 Identities=25% Similarity=0.377 Sum_probs=45.6
Q ss_pred hhhcCCCCCCCCHHHhcccCCCC--ceeeeccccccCCCceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGD--FTIEAKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~--~~i~~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
.|++..||..++.++|.++|... -.|+ ..+..+ .+++|.|.|.++|.+|++.|+|..
T Consensus 235 ~LfVgNL~~~~tee~L~~~F~~f~~G~I~--rV~~~r---gfAFVeF~s~e~A~kAi~~lnG~~ 293 (578)
T TIGR01648 235 ILYVRNLMTTTTEEIIEKSFSEFKPGKVE--RVKKIR---DYAFVHFEDREDAVKAMDELNGKE 293 (578)
T ss_pred EEEEeCCCCCCCHHHHHHHHHhcCCCceE--EEEeec---CeEEEEeCCHHHHHHHHHHhCCCE
Confidence 48999999999999999999874 2443 222223 389999999999999999998864
No 130
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=82.17 E-value=1.4 Score=45.98 Aligned_cols=55 Identities=20% Similarity=0.346 Sum_probs=44.8
Q ss_pred hhcCCCCCCCCHHHhcccCCCCceee-eccccccCCC-ceeEEEEeCCHHHHHHHHHhh
Q 017922 182 LFLHRIPTKVPSEELHGVIPGDFTIE-AKAVKRIRGD-NYAAFAIFSSPQEANQAFENV 238 (364)
Q Consensus 182 l~~~~iP~~l~~eel~~~~~~~~~i~-~~~~~~~~g~-~~~~~~~f~s~~~~~~af~~l 238 (364)
+++.+||+.-+.+||..+|.. ++|+ ++.++. +|. .+-|.|+|.|.+++++|.++=
T Consensus 13 vr~rGLPwsat~~ei~~Ff~~-~~I~~~~~~r~-~Gr~sGeA~Ve~~seedv~~Alkkd 69 (510)
T KOG4211|consen 13 VRLRGLPWSATEKEILDFFSN-CGIENLEIPRR-NGRPSGEAYVEFTSEEDVEKALKKD 69 (510)
T ss_pred EEecCCCccccHHHHHHHHhc-CceeEEEEecc-CCCcCcceEEEeechHHHHHHHHhh
Confidence 567799999999999999876 7776 444554 344 789999999999999998763
No 131
>PHA02524 43A DNA polymerase subunit A; Provisional
Probab=81.97 E-value=4.9 Score=42.58 Aligned_cols=146 Identities=16% Similarity=0.115 Sum_probs=85.9
Q ss_pred cEEEEEEeccCCC-CC----cccEEEEEEEEc-CCc---EEEEEE--Ec---CCCcccccccccCCCChhhhcCCCCCHH
Q 017922 5 IMYAVDCEMVLCE-DG----SEGLVRLCVVDR-NLK---VTIDEL--VK---PEKAVADYRSEITGLTADDLVGVTCSLA 70 (364)
Q Consensus 5 ~~ValD~ETTGl~-~g----~~~Ii~V~vVd~-~G~---vi~d~l--Vk---P~~~I~d~~t~itGIT~e~L~~ap~~~~ 70 (364)
++..||+|.|+-. |. ..+|..|+..|. ++. .+|+.+ +. |...+...-+ +..-.+..-+ +-.
T Consensus 107 ~~~~~DIEv~~~~fp~~~~a~~~i~~i~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~v~v~~f~-sE~ 181 (498)
T PHA02524 107 VIDVVDIEVTAPEFPEPKYAKYEIDMISHVRLHNGKKTYYIFDLVKDVGHWDPKKSVLEKYI----LDNVVYMPFE-DEV 181 (498)
T ss_pred eEEEEEEEecCCCCCChhhcCCceEEEEeeecccCCccEEEEeccccccCCCcccccccccc----cCCeEEEEeC-CHH
Confidence 5789999997642 11 126888888775 232 234333 11 1111110000 1111222334 678
Q ss_pred HHHHHHHHhhcC--CCEEEEech-hhHHHHHcc--------c-------CC---------------------C-ccchHH
Q 017922 71 EIQKRMKKLLSN--GTILVGHSL-NNDLEVLKL--------D-------HP---------------------R-VIDTSL 110 (364)
Q Consensus 71 eV~~el~~fl~~--~~iLVGHn~-~fDl~fL~~--------~-------~~---------------------~-vIDT~~ 110 (364)
+++.++.+|+.. -.|++|||+ +||+.+|-. . .. + ++|...
T Consensus 182 eLL~~F~~~i~~~DPDIItGYNi~nFDlPYL~~Ra~~~lGi~~~~~~~~~Gr~~~~~s~~~~G~~~~~~I~GRv~iDl~~ 261 (498)
T PHA02524 182 DLLLNYIQLWKANTPDLVFGWNSEGFDIPYIITRITNILGEKAANQLSPYGKITSKTITNLYGEKIIYKIHGIALMDYMD 261 (498)
T ss_pred HHHHHHHHHHHHhCCCEEEeCCCcccCHHHHHHHHHHHhCCccccccccccccccccceeecCceeEEEEeeEEEeEHHH
Confidence 899999999944 389999997 599987631 0 00 0 367778
Q ss_pred Hhhhh--cCCCCccHHHHHHHHhCCccCCC-------------CCCCChHHHHHHHHHHH
Q 017922 111 IFKYV--DEYRRPSLYNLCKSVLGYEIRKK-------------GTPHNCLDDASAAMKLV 155 (364)
Q Consensus 111 L~r~~--~~~~~~sL~~L~k~~Lgi~i~~~-------------~~~H~Al~DA~Ata~L~ 155 (364)
+++.. ....+|+|+.++..+||..--.. .-++-++.||..+..|+
T Consensus 262 l~kk~s~~~l~sYsL~~Vs~~~Lg~~K~d~~~~I~~l~~~d~~rla~YclkDa~L~~~L~ 321 (498)
T PHA02524 262 VFKKFSFTPMPDYKLGNVGYREVKADKLDYEGPINKFRKADHQRYVDYCVRDTDIILLID 321 (498)
T ss_pred HHHHhhhccCCCCCHHHHHHHhcCCccccchhhHHHHhcCchHHHHHHHHHHHHHHHHHH
Confidence 88765 33789999999977777543210 01123578999987766
No 132
>KOG0533 consensus RRM motif-containing protein [RNA processing and modification]
Probab=80.68 E-value=2.4 Score=40.85 Aligned_cols=74 Identities=20% Similarity=0.242 Sum_probs=57.0
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceeeec--cccccCCC-ceeEEEEeCCHHHHHHHHHhhcCCccCCCCCCcceEEEEe
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIEAK--AVKRIRGD-NYAAFAIFSSPQEANQAFENVKGNQSKDSYGRPQKLVEFQ 257 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~~~--~~~~~~g~-~~~~~~~f~s~~~~~~af~~l~g~~~~d~~g~~qk~v~~~ 257 (364)
++.+..||..+..++|..+|...-.+.-. .-.+ .|. .++|.|+|.-.++|..|.+.++| ..-+|++-|...+.
T Consensus 85 ~v~v~NL~~~V~~~Dl~eLF~~~~~~~r~~vhy~~-~G~s~Gta~v~~~r~~DA~~avk~~~g---v~ldG~~mk~~~i~ 160 (243)
T KOG0533|consen 85 KVNVSNLPYGVIDADLKELFAEFGELKRVAVHYDR-AGRSLGTADVSFNRRDDAERAVKKYNG---VALDGRPMKIEIIS 160 (243)
T ss_pred eeeeecCCcCcchHHHHHHHHHhccceEEeeccCC-CCCCCccceeeecchHhHHHHHHHhcC---cccCCceeeeEEec
Confidence 57788899999999999999774344322 2233 343 89999999999999999999999 67789997765554
Q ss_pred c
Q 017922 258 S 258 (364)
Q Consensus 258 ~ 258 (364)
.
T Consensus 161 ~ 161 (243)
T KOG0533|consen 161 S 161 (243)
T ss_pred C
Confidence 3
No 133
>PF13893 RRM_5: RNA recognition motif. (a.k.a. RRM, RBD, or RNP domain); PDB: 2PE8_A 2PEH_A 2D9O_A 1A9N_D 2DIT_A 3S6E_A 2LQ5_A 1SJQ_A 2AD9_A 1X4D_A ....
Probab=80.49 E-value=2.2 Score=30.61 Aligned_cols=26 Identities=35% Similarity=0.455 Sum_probs=23.6
Q ss_pred ceeEEEEeCCHHHHHHHHHhhcCCcc
Q 017922 218 NYAAFAIFSSPQEANQAFENVKGNQS 243 (364)
Q Consensus 218 ~~~~~~~f~s~~~~~~af~~l~g~~~ 243 (364)
.++|.|+|.|.++|..|.+.|+|..-
T Consensus 21 ~~~a~V~f~~~~~A~~a~~~l~~~~~ 46 (56)
T PF13893_consen 21 RGFAFVEFASVEDAQKAIEQLNGRQF 46 (56)
T ss_dssp TTEEEEEESSHHHHHHHHHHHTTSEE
T ss_pred CCEEEEEECCHHHHHHHHHHhCCCEE
Confidence 47999999999999999999988763
No 134
>TIGR01649 hnRNP-L_PTB hnRNP-L/PTB/hephaestus splicing factor family. Included in this family of heterogeneous ribonucleoproteins are PTB (polypyrimidine tract binding protein ) and hnRNP-L. These proteins contain four RNA recognition motifs (rrm: pfam00067).
Probab=79.83 E-value=2.4 Score=44.23 Aligned_cols=61 Identities=13% Similarity=0.139 Sum_probs=46.9
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceee-eccccccCCCceeEEEEeCCHHHHHHHHHhhcCCcc
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIE-AKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQS 243 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~-~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~~ 243 (364)
.++...+|..++.++|..+|...-.|. ++-.+. ++ .++|.|.|.+.+.|..|.+.|+|..-
T Consensus 98 ~v~v~nl~~~vt~~~L~~~F~~~G~V~~v~i~~~-~~-~~~afVef~~~~~A~~A~~~Lng~~i 159 (481)
T TIGR01649 98 RVIVENPMYPITLDVLYQIFNPYGKVLRIVTFTK-NN-VFQALVEFESVNSAQHAKAALNGADI 159 (481)
T ss_pred EEEEcCCCCCCCHHHHHHHHhccCCEEEEEEEec-CC-ceEEEEEECCHHHHHHHHHHhcCCcc
Confidence 467788899999999999998755553 222222 12 35799999999999999999999864
No 135
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=79.54 E-value=2.5 Score=43.89 Aligned_cols=71 Identities=24% Similarity=0.361 Sum_probs=54.5
Q ss_pred HhhhcCCCCCCCCHHHhcccCCCCcee-eeccc-cccCCC-ceeEEEEeCCHHHHHHHHHhhcCCccCCCCCCcce
Q 017922 180 ARLFLHRIPTKVPSEELHGVIPGDFTI-EAKAV-KRIRGD-NYAAFAIFSSPQEANQAFENVKGNQSKDSYGRPQK 252 (364)
Q Consensus 180 ~~l~~~~iP~~l~~eel~~~~~~~~~i-~~~~~-~~~~g~-~~~~~~~f~s~~~~~~af~~l~g~~~~d~~g~~qk 252 (364)
+..++.+||.++-++||--||.+.-.| |+.-. .+..|. .+-|.|+|.+.++|.+|.+.|+...-. .|++.+
T Consensus 84 ~EVfvGkIPrD~~EdeLvplfEkiG~I~elRLMmD~~sG~nRGYAFVtf~~Ke~Aq~Aik~lnn~Eir--~GK~ig 157 (506)
T KOG0117|consen 84 CEVFVGKIPRDVFEDELVPLFEKIGKIYELRLMMDPFSGDNRGYAFVTFCTKEEAQEAIKELNNYEIR--PGKLLG 157 (506)
T ss_pred ceEEecCCCccccchhhHHHHHhccceeeEEEeecccCCCCcceEEEEeecHHHHHHHHHHhhCcccc--CCCEeE
Confidence 358899999999999999998775555 33321 223344 679999999999999999999987654 676665
No 136
>PLN03121 nucleic acid binding protein; Provisional
Probab=78.58 E-value=3.1 Score=40.05 Aligned_cols=64 Identities=13% Similarity=0.159 Sum_probs=47.8
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceee-eccccccCCCceeEEEEeCCHHHHHHHHHhhcCCccCCC
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIE-AKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQSKDS 246 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~-~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~~~d~ 246 (364)
.+++..|++..++++|..+|...-.|+ +.-... ++..++++|+|.+++.+..|. .|.|..-.|.
T Consensus 7 TV~V~NLS~~tTE~dLrefFS~~G~I~~V~I~~D-~et~gfAfVtF~d~~aaetAl-lLnGa~l~d~ 71 (243)
T PLN03121 7 TAEVTNLSPKATEKDVYDFFSHCGAIEHVEIIRS-GEYACTAYVTFKDAYALETAV-LLSGATIVDQ 71 (243)
T ss_pred EEEEecCCCCCCHHHHHHHHHhcCCeEEEEEecC-CCcceEEEEEECCHHHHHHHH-hcCCCeeCCc
Confidence 367889999999999999998755664 221222 122369999999999999998 7888776543
No 137
>KOG0122 consensus Translation initiation factor 3, subunit g (eIF-3g) [Translation, ribosomal structure and biogenesis]
Probab=77.80 E-value=2.8 Score=40.44 Aligned_cols=62 Identities=19% Similarity=0.227 Sum_probs=45.8
Q ss_pred HHhhhcCCCCCCCCHHHhcccCCCCcee---eeccccccCCC-ceeEEEEeCCHHHHHHHHHhhcCC
Q 017922 179 RARLFLHRIPTKVPSEELHGVIPGDFTI---EAKAVKRIRGD-NYAAFAIFSSPQEANQAFENVKGN 241 (364)
Q Consensus 179 ~~~l~~~~iP~~l~~eel~~~~~~~~~i---~~~~~~~~~g~-~~~~~~~f~s~~~~~~af~~l~g~ 241 (364)
.+.+++..||-+.+..+|..||-..-.| -+.-.+. .|. .|+|+|.|.|.+.|..|.+.|+|.
T Consensus 189 ~~tvRvtNLsed~~E~dL~eLf~~fg~i~rvylardK~-TG~~kGFAFVtF~sRddA~rAI~~LnG~ 254 (270)
T KOG0122|consen 189 EATVRVTNLSEDMREDDLEELFRPFGPITRVYLARDKE-TGLSKGFAFVTFESRDDAARAIADLNGY 254 (270)
T ss_pred cceeEEecCccccChhHHHHHhhccCccceeEEEEccc-cCcccceEEEEEecHHHHHHHHHHccCc
Confidence 3457788889999998888887543333 2222222 344 789999999999999999999985
No 138
>smart00361 RRM_1 RNA recognition motif.
Probab=77.69 E-value=6.1 Score=29.86 Aligned_cols=26 Identities=15% Similarity=0.350 Sum_probs=23.6
Q ss_pred CceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 217 DNYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 217 ~~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
..+.+.|.|.+.++|..|.+.|+|..
T Consensus 36 ~rG~~fV~f~~~~dA~~A~~~l~g~~ 61 (70)
T smart00361 36 KRGNVYITFERSEDAARAIVDLNGRY 61 (70)
T ss_pred CcEEEEEEECCHHHHHHHHHHhCCCE
Confidence 46789999999999999999999974
No 139
>COG0724 RNA-binding proteins (RRM domain) [General function prediction only]
Probab=77.39 E-value=3 Score=37.27 Aligned_cols=62 Identities=24% Similarity=0.353 Sum_probs=48.8
Q ss_pred HhhhcCCCCCCCCHHHhcccCCCCcee---eeccccccCCC-ceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 180 ARLFLHRIPTKVPSEELHGVIPGDFTI---EAKAVKRIRGD-NYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 180 ~~l~~~~iP~~l~~eel~~~~~~~~~i---~~~~~~~~~g~-~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
..+++..||..++.++|..+|.....+ .+.-.+ ..|. .+.+.|+|.+.+.|..|.+.+.|..
T Consensus 116 ~~l~v~nL~~~~~~~~l~~~F~~~g~~~~~~~~~d~-~~~~~~g~~~v~f~~~~~~~~a~~~~~~~~ 181 (306)
T COG0724 116 NTLFVGNLPYDVTEEDLRELFKKFGPVKRVRLVRDR-ETGKSRGFAFVEFESEESAEKAIEELNGKE 181 (306)
T ss_pred ceEEEeCCCCCCCHHHHHHHHHhcCceeEEEeeecc-ccCccCceEEEEecCHHHHHHHHHHcCCCe
Confidence 468999999999999999999876554 222222 2333 7899999999999999999999444
No 140
>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=76.62 E-value=8.5 Score=33.00 Aligned_cols=59 Identities=24% Similarity=0.218 Sum_probs=43.1
Q ss_pred HHHhhc-CCCEEEEechhhHHHHHccc---CC-CccchHHHhhhhcCCCC-ccHHHHHHHHhCCc
Q 017922 76 MKKLLS-NGTILVGHSLNNDLEVLKLD---HP-RVIDTSLIFKYVDEYRR-PSLYNLCKSVLGYE 134 (364)
Q Consensus 76 l~~fl~-~~~iLVGHn~~fDl~fL~~~---~~-~vIDT~~L~r~~~~~~~-~sL~~L~k~~Lgi~ 134 (364)
|.+++. .+...++||+.+++.+|+.. .+ .+.||...+-.+.|..+ .+|.+|+++||+..
T Consensus 45 l~~~l~~~~~~ki~~d~K~~~~~l~~~gi~l~~~~fD~~LAaYLL~p~~~~~~l~~la~~yl~~~ 109 (151)
T cd06128 45 LKPLLEDEKALKVGQNLKYDRVILANYGIELRGIAFDTMLEAYLLDPVAGRHDMDSLAERWLKEK 109 (151)
T ss_pred HHHHHcCCCCCEEeeehHHHHHHHHHCCCCCCCcchhHHHHHHHcCCCCCCCCHHHHHHHHcCCC
Confidence 555663 23458999999999999542 22 35899987777787332 59999999998876
No 141
>KOG0105 consensus Alternative splicing factor ASF/SF2 (RRM superfamily) [RNA processing and modification]
Probab=76.56 E-value=1.6 Score=40.62 Aligned_cols=59 Identities=20% Similarity=0.329 Sum_probs=45.1
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceeeeccccccCCCceeEEEEeCCHHHHHHHHHhhc
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIEAKAVKRIRGDNYAAFAIFSSPQEANQAFENVK 239 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~ 239 (364)
++++..||+++...||+++|.+.-.|....-|.-.|--..|.|+|.++-.|+.|...-+
T Consensus 8 ~iyvGNLP~diRekeieDlFyKyg~i~~ieLK~r~g~ppfafVeFEd~RDAeDAiygRd 66 (241)
T KOG0105|consen 8 RIYVGNLPGDIREKEIEDLFYKYGRIREIELKNRPGPPPFAFVEFEDPRDAEDAIYGRD 66 (241)
T ss_pred eEEecCCCcchhhccHHHHHhhhcceEEEEeccCCCCCCeeEEEecCccchhhhhhccc
Confidence 57889999999999999999987666422222214556799999999999999875433
No 142
>TIGR01622 SF-CC1 splicing factor, CC1-like family. A homologous gene from Plasmodium falciparum was identified in the course of the analysis of that genome at TIGR and was included in the model.
Probab=76.30 E-value=3.5 Score=42.11 Aligned_cols=61 Identities=15% Similarity=0.238 Sum_probs=45.0
Q ss_pred HhhhcCCCCCCCCHHHhcccCCCCceee-ecccc-ccCC-CceeEEEEeCCHHHHHHHHHhhcCC
Q 017922 180 ARLFLHRIPTKVPSEELHGVIPGDFTIE-AKAVK-RIRG-DNYAAFAIFSSPQEANQAFENVKGN 241 (364)
Q Consensus 180 ~~l~~~~iP~~l~~eel~~~~~~~~~i~-~~~~~-~~~g-~~~~~~~~f~s~~~~~~af~~l~g~ 241 (364)
..+++..||..++.++|..+|...-.|. +.-.. +..| ..+.|+|.|.+.+.|.+|.. |.|.
T Consensus 90 ~~l~V~nlp~~~~~~~l~~~F~~~G~v~~v~i~~d~~~~~skg~afVeF~~~e~A~~Al~-l~g~ 153 (457)
T TIGR01622 90 RTVFVLQLALKARERDLYEFFSKVGKVRDVQCIKDRNSRRSKGVAYVEFYDVESVIKALA-LTGQ 153 (457)
T ss_pred cEEEEeCCCCCCCHHHHHHHHHhcCCeeEEEEeecCCCCCcceEEEEEECCHHHHHHHHH-hCCC
Confidence 3599999999999999999997654442 22111 1122 37899999999999999985 5554
No 143
>COG5228 POP2 mRNA deadenylase subunit [RNA processing and modification]
Probab=72.21 E-value=14 Score=35.45 Aligned_cols=160 Identities=14% Similarity=0.132 Sum_probs=89.3
Q ss_pred CcEEEEEEeccCCCC---Cc----------------c--cEEEEEEE--EcCCcE-----E--EEEEEcCCCcccc-c--
Q 017922 4 NIMYAVDCEMVLCED---GS----------------E--GLVRLCVV--DRNLKV-----T--IDELVKPEKAVAD-Y-- 50 (364)
Q Consensus 4 ~~~ValD~ETTGl~~---g~----------------~--~Ii~V~vV--d~~G~v-----i--~d~lVkP~~~I~d-~-- 50 (364)
-++|.+|+|..|.-. |. + .|+++++- |.+|+. . |+.-.+|...+-. .
T Consensus 42 Yn~vSmdTEFpGvvArPiG~FkSs~dyhYQtlraNVD~LkiIQlGlsLSDe~GN~P~~~sTWQFNF~F~l~~dmya~ESi 121 (299)
T COG5228 42 YNHVSMDTEFPGVVARPIGTFKSSVDYHYQTLRANVDFLKIIQLGLSLSDENGNKPNGPSTWQFNFEFDLKKDMYATESI 121 (299)
T ss_pred CCceeeccccCceeecccccccccchHHHHHHhcccchhhhhheeeeeccccCCCCCCCceeEEEEEecchhhhcchHHH
Confidence 468999999999621 10 1 36776654 666652 2 4445667665421 1
Q ss_pred -ccccCCCChhhhcCCCCCHHHHHHHHHH---hhcCCCEEEEechhhHHHHHccc-----C---------------CCcc
Q 017922 51 -RSEITGLTADDLVGVTCSLAEIQKRMKK---LLSNGTILVGHSLNNDLEVLKLD-----H---------------PRVI 106 (364)
Q Consensus 51 -~t~itGIT~e~L~~ap~~~~eV~~el~~---fl~~~~iLVGHn~~fDl~fL~~~-----~---------------~~vI 106 (364)
.-.-+||.-+.=++.+....|..+-|.. .+++.-++|-++..+|+++|=.. . |...
T Consensus 122 eLL~ksgIdFkkHe~~GI~v~eF~elLm~SGLvm~e~VtWitfHsaYDfgyLikilt~~plP~~~EdFy~~l~~yfP~fY 201 (299)
T COG5228 122 ELLRKSGIDFKKHENLGIDVFEFSELLMDSGLVMDESVTWITFHSAYDFGYLIKILTNDPLPNNKEDFYWWLHQYFPNFY 201 (299)
T ss_pred HHHHHcCCChhhHhhcCCCHHHHHHHHhccCceeccceEEEEeecchhHHHHHHHHhcCCCCccHHHHHHHHHHHCcccc
Confidence 1123677766666655444444443332 33466788988999999988431 1 2233
Q ss_pred chHHHhhhhcCCCCccHHHHHHHHhCCccCCCCCCCChHHHHHHHHHHHHHHHHhcccCCC
Q 017922 107 DTSLIFKYVDEYRRPSLYNLCKSVLGYEIRKKGTPHNCLDDASAAMKLVLAIIERRVDNAV 167 (364)
Q Consensus 107 DT~~L~r~~~~~~~~sL~~L~k~~Lgi~i~~~~~~H~Al~DA~Ata~L~~~~le~g~~~~i 167 (364)
|.-.+++... ..+-.|.++. .-|++ +..|..|.|-.||..|+..|..-...-+...+
T Consensus 202 Dik~v~ks~~-~~~KglQei~-ndlql--~r~g~QhQagsdaLlTa~~ff~~R~~~F~~si 258 (299)
T COG5228 202 DIKLVYKSVL-NNSKGLQEIK-NDLQL--QRSGQQHQAGSDALLTADEFFLPRFSIFTTSI 258 (299)
T ss_pred chHHHHHhhh-hhhhHHHHhc-CcHhh--hccchhhhccchhhhhhHHhcchhhheecccc
Confidence 3333333221 1233455554 22233 22356899999999999988654444444433
No 144
>PF11544 Spc42p: Spindle pole body component Spc42p; InterPro: IPR021611 Spc42p is a 42kDa component of the S.cerevisiae spindle body that localises to the electron dense central region of the SPB. Spc42p is a phosphoprotein which forms a polymeric layer at the periphery of the SPB central plaque. This functions during SPB duplication and also facilitates the attachment of the SPB to the nuclear membrane. ; PDB: 2Q6Q_B.
Probab=71.28 E-value=5.1 Score=31.87 Aligned_cols=37 Identities=22% Similarity=0.355 Sum_probs=31.3
Q ss_pred HHHHHHHHHHhhhccccchhhhhhhHHHHHHHHHHHh
Q 017922 322 LKVIERLKRELREKDFQISMQDKNISDLKKKVAEMKD 358 (364)
Q Consensus 322 ~k~ie~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 358 (364)
+++=..|+.+|..|+-||-.+-.+|.+|+.||.++..
T Consensus 4 i~qNk~L~~kL~~K~eEI~rLn~lv~sLR~KLiKYt~ 40 (76)
T PF11544_consen 4 IKQNKELKKKLNDKQEEIDRLNILVGSLRGKLIKYTE 40 (76)
T ss_dssp --HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455679999999999999999999999999988754
No 145
>KOG0125 consensus Ataxin 2-binding protein (RRM superfamily) [General function prediction only]
Probab=70.51 E-value=2.7 Score=42.11 Aligned_cols=60 Identities=22% Similarity=0.345 Sum_probs=49.6
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCcee---eeccccccCCCceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTI---EAKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i---~~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
+|.+..||.....-+|..||.+.-.| ||...+ ||..|+..|+|.+++.|+.|=+.|-|..
T Consensus 98 RLhVSNIPFrFRdpDL~aMF~kfG~VldVEIIfNE--RGSKGFGFVTmen~~dadRARa~LHgt~ 160 (376)
T KOG0125|consen 98 RLHVSNIPFRFRDPDLRAMFEKFGKVLDVEIIFNE--RGSKGFGFVTMENPADADRARAELHGTV 160 (376)
T ss_pred eeEeecCCccccCccHHHHHHhhCceeeEEEEecc--CCCCccceEEecChhhHHHHHHHhhcce
Confidence 68899999999999999998774444 343444 5788899999999999999999998865
No 146
>KOG0108 consensus mRNA cleavage and polyadenylation factor I complex, subunit RNA15 [RNA processing and modification]
Probab=69.68 E-value=5.8 Score=41.34 Aligned_cols=70 Identities=21% Similarity=0.369 Sum_probs=53.8
Q ss_pred HhhhcCCCCCCCCHHHhcccCCCCcee---eeccccccCCC-ceeEEEEeCCHHHHHHHHHhhcCCccCCCCCCcceE
Q 017922 180 ARLFLHRIPTKVPSEELHGVIPGDFTI---EAKAVKRIRGD-NYAAFAIFSSPQEANQAFENVKGNQSKDSYGRPQKL 253 (364)
Q Consensus 180 ~~l~~~~iP~~l~~eel~~~~~~~~~i---~~~~~~~~~g~-~~~~~~~f~s~~~~~~af~~l~g~~~~d~~g~~qk~ 253 (364)
...++.+||..+++++|..+|.+.-.+ ..+-.+. .|. .|.+.+.|.+.+.+..|.++|.|.. ..||+-|.
T Consensus 19 ~~v~vgnip~~~se~~l~~~~~~~g~v~s~~~v~D~~-tG~~~G~~f~~~~~~~~~~~a~~~lNg~~---~~gr~l~v 92 (435)
T KOG0108|consen 19 SSVFVGNIPYEGSEEQLLSIFSGVGPVLSFRLVYDRE-TGKPKGFGFCEFTDEETAERAIRNLNGAE---FNGRKLRV 92 (435)
T ss_pred cceEecCCCCcccHHHHHHHHhccCccceeeeccccc-CCCcCceeeEecCchhhHHHHHHhcCCcc---cCCceEEe
Confidence 457889999999999999999875544 3333344 333 7899999999999999999999864 56666553
No 147
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=69.50 E-value=8.4 Score=36.91 Aligned_cols=64 Identities=27% Similarity=0.258 Sum_probs=50.2
Q ss_pred HHhhhcCCCCCCCCHHHhcccCC---CCceeeec-cccccCCCceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 179 RARLFLHRIPTKVPSEELHGVIP---GDFTIEAK-AVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 179 ~~~l~~~~iP~~l~~eel~~~~~---~~~~i~~~-~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
.+.|++.+||.++..-||--||- +..+..+| .++.++-+.-.+.++|.|-+.|..|-..|+|-.
T Consensus 34 VRTLFVSGLP~DvKpREiynLFR~f~GYEgslLK~Tsk~~~~~~pvaFatF~s~q~A~aamnaLNGvr 101 (284)
T KOG1457|consen 34 VRTLFVSGLPNDVKPREIYNLFRRFHGYEGSLLKYTSKGDQVCKPVAFATFTSHQFALAAMNALNGVR 101 (284)
T ss_pred cceeeeccCCcccCHHHHHHHhccCCCccceeeeeccCCCccccceEEEEecchHHHHHHHHHhcCee
Confidence 55699999999999999887764 44455566 344444456788999999999999999999854
No 148
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=69.08 E-value=4.7 Score=41.03 Aligned_cols=96 Identities=17% Similarity=0.174 Sum_probs=63.7
Q ss_pred ChHHHHHHHHHHHHHHHHhcccCCCCCcccchhHHHHHhhhcCCCCCCCCHHHhcccCCCCcee---eeccccccCCCce
Q 017922 143 NCLDDASAAMKLVLAIIERRVDNAVPLLQEDVAETERARLFLHRIPTKVPSEELHGVIPGDFTI---EAKAVKRIRGDNY 219 (364)
Q Consensus 143 ~Al~DA~Ata~L~~~~le~g~~~~i~~~~~~~~e~~~~~l~~~~iP~~l~~eel~~~~~~~~~i---~~~~~~~~~g~~~ 219 (364)
...+||..++.=+-.-.-+|....+-.++.+. ..++...+++.++...|.+.|..--.| -+...+. |..|
T Consensus 45 ~~~~da~~A~~~~n~~~~~~~~~rim~s~rd~-----~~~~i~nl~~~~~~~~~~d~f~~~g~ilS~kv~~~~~--g~kg 117 (369)
T KOG0123|consen 45 QQPADAERALDTMNFDVLKGKPIRIMWSQRDP-----SLVFIKNLDESIDNKSLYDTFSEFGNILSCKVATDEN--GSKG 117 (369)
T ss_pred CCHHHHHHHHHHcCCcccCCcEEEeehhccCC-----ceeeecCCCcccCcHHHHHHHHhhcCeeEEEEEEcCC--Ccee
Confidence 34678877777654433344333332222111 117888899999999999888764444 2333333 4666
Q ss_pred eEEEEeCCHHHHHHHHHhhcCCccCCC
Q 017922 220 AAFAIFSSPQEANQAFENVKGNQSKDS 246 (364)
Q Consensus 220 ~~~~~f~s~~~~~~af~~l~g~~~~d~ 246 (364)
. .|.|.|.++|+.|.+.+.|..-.|.
T Consensus 118 ~-FV~f~~e~~a~~ai~~~ng~ll~~k 143 (369)
T KOG0123|consen 118 Y-FVQFESEESAKKAIEKLNGMLLNGK 143 (369)
T ss_pred e-EEEeCCHHHHHHHHHHhcCcccCCC
Confidence 6 9999999999999999999886554
No 149
>PF03467 Smg4_UPF3: Smg-4/UPF3 family; InterPro: IPR005120 Nonsense-mediated mRNA decay (NMD) is a surveillance mechanism by which eukaryotic cells detect and degrade transcripts containing premature termination codons. Three 'up-frameshift' proteins, UPF1, UPF2 and UPF3, are essential for this process in organisms ranging from yeast, human to plants []. Exon junction complexes (EJCs) are deposited ~24 nucleotides upstream of exon-exon junctions after splicing. Translation causes displacement of the EJCs, however, premature translation termination upstream of one or more EJCs triggers the recruitment of UPF1, UPF2 and UPF3 and activates the NMD pathway [, ]. This family contains UPF3. The crystal structure of the complex between human UPF2 and UPF3b, which are, respectively, a MIF4G (middle portion of eIF4G) domain and an RNP domain (ribonucleoprotein-type RNA-binding domain) has been determined to 1.95A. The protein-protein interface is mediated by highly conserved charged residues in UPF2 and UPF3b and involves the beta-sheet surface of the UPF3b ribonucleoprotein (RNP) domain, which is generally used by these domains to bind nucleic acids. In UPF3b the RNP domain does not bind RNA, whereas the UPF2 construct and the complex do. It is clear that some RNP domains have evolved for specific protein-protein interactions rather than as nucleic acid binding modules [].; PDB: 1UW4_A 2L08_A.
Probab=66.86 E-value=5.1 Score=36.51 Aligned_cols=71 Identities=18% Similarity=0.351 Sum_probs=44.2
Q ss_pred HHhhhcCCCCCCCCHHHhcc----cCCCC---ceeee-ccccc-cCCCceeEEEEeCCHHHHHHHHHhhcCCccCCCCCC
Q 017922 179 RARLFLHRIPTKVPSEELHG----VIPGD---FTIEA-KAVKR-IRGDNYAAFAIFSSPQEANQAFENVKGNQSKDSYGR 249 (364)
Q Consensus 179 ~~~l~~~~iP~~l~~eel~~----~~~~~---~~i~~-~~~~~-~~g~~~~~~~~f~s~~~~~~af~~l~g~~~~d~~g~ 249 (364)
..++-+.+|||+++.+++.. .+++. ....- .+... ..+.+.-|++.|.+.+.+..=.+.++|..=.|+-|.
T Consensus 7 ~~KvVIR~LPP~LteeeF~~~i~~~l~~~~~w~y~~g~~~~~~~~~~~~SRaYi~F~~~~~~~~F~~~~~g~~F~D~kg~ 86 (176)
T PF03467_consen 7 GTKVVIRRLPPNLTEEEFWEQISPWLPDEWDWYYFQGKYGKKSFKPPTYSRAYINFKNPEDLLEFRDRFDGHVFVDSKGN 86 (176)
T ss_dssp --EEEEEEE-TTS-HHHHCCCCSS--SSE---EEEEEEES-SSSTTS--EEEEEEESSCHHHHHHHHHCTTEEEE-TTS-
T ss_pred CceEEEeCCCCCCCHHHHHHHhhhhcccccceEEEecCCCCccCCCCcceEEEEEeCCHHHHHHHHHhcCCcEEECCCCC
Confidence 33677888999999999887 34443 12221 11111 245688899999999999988899999887777765
No 150
>PF08777 RRM_3: RNA binding motif; InterPro: IPR014886 This domain is found in protein La which functions as an RNA chaperone during RNA polymerase III transcription, and can also stimulate translation initiation. It contains a five stranded beta sheet which forms an atypical RNA recognition motif []. ; PDB: 1OWX_A.
Probab=66.37 E-value=6.2 Score=32.93 Aligned_cols=54 Identities=15% Similarity=0.231 Sum_probs=33.5
Q ss_pred CCCCCCCCHHHhcccCCCCceeeeccccccCCCceeEEEEeCCHHHHHHHHHhhcCC
Q 017922 185 HRIPTKVPSEELHGVIPGDFTIEAKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGN 241 (364)
Q Consensus 185 ~~iP~~l~~eel~~~~~~~~~i~~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~ 241 (364)
.+++..++-++|...|.....|..+.-.+| -..++|.|++++.|..|.+.+.-.
T Consensus 7 ~g~~~~~~re~iK~~f~~~g~V~yVD~~~G---~~~g~VRf~~~~~A~~a~~~~~~~ 60 (105)
T PF08777_consen 7 SGLGEPTSREDIKEAFSQFGEVAYVDFSRG---DTEGYVRFKTPEAAQKALEKLKEA 60 (105)
T ss_dssp EE--SS--HHHHHHHT-SS--EEEEE--TT----SEEEEEESS---HHHHHHHHHHT
T ss_pred ecCCCCcCHHHHHHHHHhcCCcceEEecCC---CCEEEEEECCcchHHHHHHHHHhc
Confidence 345677778899999988777766665553 348999999999999999998876
No 151
>KOG0144 consensus RNA-binding protein CUGBP1/BRUNO (RRM superfamily) [RNA processing and modification]
Probab=64.85 E-value=4.8 Score=41.72 Aligned_cols=63 Identities=22% Similarity=0.259 Sum_probs=50.4
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceeeecccccc--CCCceeEEEEeCCHHHHHHHHHhhcCCcc
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIEAKAVKRI--RGDNYAAFAIFSSPQEANQAFENVKGNQS 243 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~~~~~~~~--~g~~~~~~~~f~s~~~~~~af~~l~g~~~ 243 (364)
+|++.-++...++.|++.+|...-.||---.-++ +-..||++|.|.+.+-|.-|.+.|.|.++
T Consensus 126 KLFvg~lsK~~te~evr~iFs~fG~Ied~~ilrd~~~~sRGcaFV~fstke~A~~Aika~ng~~t 190 (510)
T KOG0144|consen 126 KLFVGMLSKQCTENEVREIFSRFGHIEDCYILRDPDGLSRGCAFVKFSTKEMAVAAIKALNGTQT 190 (510)
T ss_pred hhhhhhccccccHHHHHHHHHhhCccchhhheecccccccceeEEEEehHHHHHHHHHhhcccee
Confidence 6899999999999999999988666763222221 23477999999999999999999999775
No 152
>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=62.88 E-value=10 Score=39.55 Aligned_cols=140 Identities=21% Similarity=0.253 Sum_probs=77.3
Q ss_pred CCCcEEEEEEeccCCCCCcccEEEEEEEEcCCcEEEEEEEcCCC--cccccccccCCCChhhhcCCCCCHHHHHHHHHHh
Q 017922 2 TSNIMYAVDCEMVLCEDGSEGLVRLCVVDRNLKVTIDELVKPEK--AVADYRSEITGLTADDLVGVTCSLAEIQKRMKKL 79 (364)
Q Consensus 2 ~~~~~ValD~ETTGl~~g~~~Ii~V~vVd~~G~vi~d~lVkP~~--~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~f 79 (364)
.|+.-..||+|-.-.+ -+++++.-.+..-.++.|=.|.. .+.+...--|||--.||.++. | -+...+.+.
T Consensus 370 dp~~ttWiDIEG~p~D-----PVElAiyQP~sg~YiHcyR~P~D~K~FK~~SKysHGillkDl~~aq-P--GL~S~vi~~ 441 (533)
T PF00843_consen 370 DPNATTWIDIEGPPND-----PVELAIYQPSSGNYIHCYREPHDEKQFKNQSKYSHGILLKDLENAQ-P--GLTSAVIEL 441 (533)
T ss_dssp -TTS-EEEEEESETTS-----ESEEEEEETTTTEEEEEE---S-HHHHHHHHHHTT-B-GGGCTTB--T--THHHHHHHH
T ss_pred CCCCCeeEecCCCCCC-----CeEEEEeccCCCcEEEEecCCcchhhhcccccccccccHHHHhhhc-c--chHHHHHHh
Confidence 3566788999975332 57899998744447788888864 566667788999999999987 3 466778888
Q ss_pred hcCCCEEEEechhhHHHHHcccCCC----ccchHHH---hhhhcCCCCccHHHHHHHHhCCccCCC--------CCCCCh
Q 017922 80 LSNGTILVGHSLNNDLEVLKLDHPR----VIDTSLI---FKYVDEYRRPSLYNLCKSVLGYEIRKK--------GTPHNC 144 (364)
Q Consensus 80 l~~~~iLVGHn~~fDl~fL~~~~~~----vIDT~~L---~r~~~~~~~~sL~~L~k~~Lgi~i~~~--------~~~H~A 144 (364)
+..+-||-+... -|++-|-..|.| +||...- +|.+-..-+-.-..||+.+-|+-+... ..+|-|
T Consensus 442 LP~~MVlT~QGs-DDIrkLld~hGRrDiKlvDV~lt~eqaR~FEd~VWd~f~~LC~~H~GvVv~KKKkg~~~~~t~PHCA 520 (533)
T PF00843_consen 442 LPKNMVLTCQGS-DDIRKLLDMHGRRDIKLVDVKLTSEQARKFEDQVWDRFGHLCKKHTGVVVKKKKKGKKPESTNPHCA 520 (533)
T ss_dssp S-TT-EEEESSH-HHHHHHHHCTT-TTSEEEE----HHHHTTTHHHHHHHHGGG---B-S-EEE--SSSS-EEE-----H
T ss_pred CCcCcEEEeeCh-HHHHHHHHhcCCCcceEEEeecCHHHHHHHHHHHHHHHHHHHHhcCceEEecccCCCCCCCCCchHH
Confidence 866777777765 466655555544 6885432 222211234566789999988876531 137999
Q ss_pred HHHHHH
Q 017922 145 LDDASA 150 (364)
Q Consensus 145 l~DA~A 150 (364)
|-|+.+
T Consensus 521 LlDCiM 526 (533)
T PF00843_consen 521 LLDCIM 526 (533)
T ss_dssp HHHHHH
T ss_pred HHHHHH
Confidence 999876
No 153
>KOG0146 consensus RNA-binding protein ETR-3 (RRM superfamily) [RNA processing and modification]
Probab=62.24 E-value=8.4 Score=37.81 Aligned_cols=63 Identities=25% Similarity=0.322 Sum_probs=45.3
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceeeecccccc-C-CCceeEEEEeCCHHHHHHHHHhhcCCcc
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIEAKAVKRI-R-GDNYAAFAIFSSPQEANQAFENVKGNQS 243 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~~~~~~~~-~-g~~~~~~~~f~s~~~~~~af~~l~g~~~ 243 (364)
+|++.-|-..-+++|..++|.-.-.|+....-+| - ...||+.|.|.|-.||..|.+.|-|.++
T Consensus 21 klfvgml~kqq~e~dvrrlf~pfG~~~e~tvlrg~dg~sKGCAFVKf~s~~eAqaAI~aLHgSqT 85 (371)
T KOG0146|consen 21 KLFVGMLNKQQSEDDVRRLFQPFGNIEECTVLRGPDGNSKGCAFVKFSSHAEAQAAINALHGSQT 85 (371)
T ss_pred hhhhhhhcccccHHHHHHHhcccCCcceeEEecCCCCCCCCceEEEeccchHHHHHHHHhccccc
Confidence 4555555555567777777765455655444443 2 2378999999999999999999999875
No 154
>KOG1457 consensus RNA binding protein (contains RRM repeats) [General function prediction only]
Probab=59.39 E-value=6.7 Score=37.57 Aligned_cols=62 Identities=23% Similarity=0.363 Sum_probs=47.9
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceeeeccccccCCCceeEEEEeCCHHHHHHHHHhhcCCcc
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIEAKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQS 243 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~~ 243 (364)
.|++..+-++.++++|..+|......++--.+. +|+.--+.+.|.+.+.|.+|...|+|-+-
T Consensus 212 tlfianl~~~~~ed~l~~~~~~~~gf~~l~~~~-~~g~~vaf~~~~~~~~at~am~~lqg~~~ 273 (284)
T KOG1457|consen 212 TLFIANLGPNCTEDELKQLLSRYPGFHILKIRA-RGGMPVAFADFEEIEQATDAMNHLQGNLL 273 (284)
T ss_pred hHhhhccCCCCCHHHHHHHHHhCCCceEEEEec-CCCcceEeecHHHHHHHHHHHHHhhccee
Confidence 588999999999999998875543333222233 57777888999999999999999999874
No 155
>KOG4211 consensus Splicing factor hnRNP-F and related RNA-binding proteins [RNA processing and modification]
Probab=59.14 E-value=10 Score=39.93 Aligned_cols=54 Identities=24% Similarity=0.330 Sum_probs=41.2
Q ss_pred hhcCCCCCCCCHHHhcccCCCCceeeeccc-------cccCCCceeEEEEeCCHHHHHHHHHhhc
Q 017922 182 LFLHRIPTKVPSEELHGVIPGDFTIEAKAV-------KRIRGDNYAAFAIFSSPQEANQAFENVK 239 (364)
Q Consensus 182 l~~~~iP~~l~~eel~~~~~~~~~i~~~~~-------~~~~g~~~~~~~~f~s~~~~~~af~~l~ 239 (364)
.++.+||...++++|.++|.+ +++++. .+++ ..+-|.|.|.|++.|++|...-.
T Consensus 106 VRLRGLPfscte~dI~~FFaG---L~Iv~~gi~l~~d~rgR-~tGEAfVqF~sqe~ae~Al~rhr 166 (510)
T KOG4211|consen 106 VRLRGLPFSCTEEDIVEFFAG---LEIVPDGILLPMDQRGR-PTGEAFVQFESQESAEIALGRHR 166 (510)
T ss_pred EEecCCCccCcHHHHHHHhcC---CcccccceeeeccCCCC-cccceEEEecCHHHHHHHHHHHH
Confidence 456789999999999999987 333322 2333 48899999999999999975543
No 156
>KOG4212 consensus RNA-binding protein hnRNP-M [RNA processing and modification]
Probab=57.91 E-value=10 Score=39.56 Aligned_cols=60 Identities=17% Similarity=0.228 Sum_probs=43.9
Q ss_pred hhcCCCCCCCCHHHhcccCCC----CceeeeccccccCCCceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 182 LFLHRIPTKVPSEELHGVIPG----DFTIEAKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 182 l~~~~iP~~l~~eel~~~~~~----~~~i~~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
.+...||-+..-++|.+||-+ -.++++-....| ...+|++|+|++++-+.+|.+.|+...
T Consensus 47 vfItNIpyd~rWqdLKdLvrekvGev~yveLl~D~~G-K~rGcavVEFk~~E~~qKa~E~lnk~~ 110 (608)
T KOG4212|consen 47 VFITNIPYDYRWQDLKDLVREKVGEVEYVELLFDESG-KARGCAVVEFKDPENVQKALEKLNKYE 110 (608)
T ss_pred EEEecCcchhhhHhHHHHHHHhcCceEeeeeecccCC-CcCCceEEEeeCHHHHHHHHHHhhhcc
Confidence 678889998888888877643 234443333332 236799999999999999999998653
No 157
>KOG3990 consensus Uncharacterized conserved protein [Function unknown]
Probab=57.76 E-value=6.2 Score=38.24 Aligned_cols=29 Identities=48% Similarity=0.571 Sum_probs=25.9
Q ss_pred HHHHHHHHhhhccccchhhhhhhHHHHHH
Q 017922 324 VIERLKRELREKDFQISMQDKNISDLKKK 352 (364)
Q Consensus 324 ~ie~~~~~~~~~~~~~~~~~~~~~~~~~~ 352 (364)
||-+||.-|.+||..|.--||-||+||-+
T Consensus 233 eia~Lkk~L~qkdq~ileKdkqisnLKad 261 (305)
T KOG3990|consen 233 EIARLKKLLHQKDQLILEKDKQISNLKAD 261 (305)
T ss_pred HHHHHHHHHhhhHHHHHhhhhhhhccCcc
Confidence 67888888999999999999999999876
No 158
>KOG4206 consensus Spliceosomal protein snRNP-U1A/U2B [RNA processing and modification]
Probab=56.54 E-value=11 Score=35.74 Aligned_cols=62 Identities=19% Similarity=0.312 Sum_probs=46.8
Q ss_pred hhhcCCCCCCCCHHHhcc----cCCCCce-eeeccccccCCCceeEEEEeCCHHHHHHHHHhhcCCcc
Q 017922 181 RLFLHRIPTKVPSEELHG----VIPGDFT-IEAKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQS 243 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~----~~~~~~~-i~~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~~ 243 (364)
.+++..|+-.+..+||.+ ||+-.-. ++|...+. ..-.|.|+|+|.+.+.|-.|-..|+|---
T Consensus 11 TlYInnLnekI~~~elkrsL~~LFsqfG~ildI~a~kt-~KmRGQA~VvFk~~~~As~A~r~l~gfpF 77 (221)
T KOG4206|consen 11 TLYINNLNEKIKKDELKRSLYLLFSQFGKILDISAFKT-PKMRGQAFVVFKETEAASAALRALQGFPF 77 (221)
T ss_pred eEeehhccccccHHHHHHHHHHHHHhhCCeEEEEecCC-CCccCceEEEecChhHHHHHHHHhcCCcc
Confidence 467777778888888776 7765443 35665554 34467999999999999999999998754
No 159
>PHA02563 DNA polymerase; Provisional
Probab=55.11 E-value=26 Score=38.27 Aligned_cols=68 Identities=10% Similarity=0.065 Sum_probs=40.7
Q ss_pred CCCcEEEEEEeccCCCCCcccEEEEEEEEcCCcEEEEEEEcCCCcccccccccCCCChhhhcCCCCCHHHHHHHHHHhhc
Q 017922 2 TSNIMYAVDCEMVLCEDGSEGLVRLCVVDRNLKVTIDELVKPEKAVADYRSEITGLTADDLVGVTCSLAEIQKRMKKLLS 81 (364)
Q Consensus 2 ~~~~~ValD~ETTGl~~g~~~Ii~V~vVd~~G~vi~d~lVkP~~~I~d~~t~itGIT~e~L~~ap~~~~eV~~el~~fl~ 81 (364)
++..+++.|+||++.+.... ....++. +|. .+.+|.- .+..+++++++.
T Consensus 10 ~~~~~~~~DfET~t~~~~~~-~~~~~~~--d~~-~~~s~~~---------------------------~~~~~~f~~~i~ 58 (630)
T PHA02563 10 KPRKILACDFETTTINKDCR-RWFWGEI--DVE-DFPSYYG---------------------------GNSFDEFLQWIE 58 (630)
T ss_pred ccceEEEEEEEecccCCcce-eeeeeEe--ccc-eeceeec---------------------------cccHHHHHHHHh
Confidence 35789999999998754322 2222333 333 2222211 112346666662
Q ss_pred ------CCCEEEEechhhHHHHHcc
Q 017922 82 ------NGTILVGHSLNNDLEVLKL 100 (364)
Q Consensus 82 ------~~~iLVGHn~~fDl~fL~~ 100 (364)
...++-.||..||..||-.
T Consensus 59 ~~~~k~~~~~vYfHN~~FD~~Fil~ 83 (630)
T PHA02563 59 DTTYKETECIIYFHNLKFDGSFILK 83 (630)
T ss_pred hccccccceEEEEecCCccHHHHHH
Confidence 2678889999999999965
No 160
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=54.41 E-value=7.3 Score=42.54 Aligned_cols=98 Identities=16% Similarity=0.258 Sum_probs=63.1
Q ss_pred CChHHHHHHHHHHHHHHHHhcccCCCCCcc--------cchh-HHHHHhhhcCCCCCCCCHHHhcccCCCCceee-ec-c
Q 017922 142 HNCLDDASAAMKLVLAIIERRVDNAVPLLQ--------EDVA-ETERARLFLHRIPTKVPSEELHGVIPGDFTIE-AK-A 210 (364)
Q Consensus 142 H~Al~DA~Ata~L~~~~le~g~~~~i~~~~--------~~~~-e~~~~~l~~~~iP~~l~~eel~~~~~~~~~i~-~~-~ 210 (364)
-+..+||.++++.+..-.-.|..-.+.++. .... .....++.+..||...+..|+..+|...-.+- +. |
T Consensus 567 F~~~e~A~~a~k~lqgtvldGH~l~lk~S~~k~~~~~gK~~~~kk~~tKIlVRNipFeAt~rEVr~LF~aFGqlksvRlP 646 (725)
T KOG0110|consen 567 FAKPESAQAALKALQGTVLDGHKLELKISENKPASTVGKKKSKKKKGTKILVRNIPFEATKREVRKLFTAFGQLKSVRLP 646 (725)
T ss_pred ecCHHHHHHHHHHhcCceecCceEEEEeccCccccccccccccccccceeeeeccchHHHHHHHHHHHhcccceeeeccc
Confidence 456789999887654111122211111111 0000 11134788899999999999999998743442 22 3
Q ss_pred ccccCCC-ceeEEEEeCCHHHHHHHHHhhc
Q 017922 211 VKRIRGD-NYAAFAIFSSPQEANQAFENVK 239 (364)
Q Consensus 211 ~~~~~g~-~~~~~~~f~s~~~~~~af~~l~ 239 (364)
.+.++|. +|+|.|.|.|+++|.-||+.|-
T Consensus 647 KK~~k~a~rGF~Fv~f~t~~ea~nA~~al~ 676 (725)
T KOG0110|consen 647 KKIGKGAHRGFGFVDFLTPREAKNAFDALG 676 (725)
T ss_pred hhhcchhhccceeeeccCcHHHHHHHHhhc
Confidence 3445666 8899999999999999999986
No 161
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=53.09 E-value=12 Score=32.99 Aligned_cols=67 Identities=13% Similarity=0.206 Sum_probs=50.3
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceee--ecccccc-CCCceeEEEEeCCHHHHHHHHHhhcCCccCCCC
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIE--AKAVKRI-RGDNYAAFAIFSSPQEANQAFENVKGNQSKDSY 247 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~--~~~~~~~-~g~~~~~~~~f~s~~~~~~af~~l~g~~~~d~~ 247 (364)
.+++..|....++|+|-.||+..-.|. +-.-.+. ..--++|.|+|-+.++|+.|...|.|...-|..
T Consensus 38 tvyVgNlSfyttEEqiyELFs~cG~irriiMGLdr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ 107 (153)
T KOG0121|consen 38 TVYVGNLSFYTTEEQIYELFSKCGDIRRIIMGLDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRP 107 (153)
T ss_pred eEEEeeeeeeecHHHHHHHHHhccchheeEeccccCCcCccceEEEEEecchhHHHHHHHhccCcccccc
Confidence 388888888999999999998754542 2121221 233679999999999999999999998765543
No 162
>KOG0117 consensus Heterogeneous nuclear ribonucleoprotein R (RRM superfamily) [RNA processing and modification]
Probab=52.50 E-value=9.8 Score=39.66 Aligned_cols=67 Identities=19% Similarity=0.300 Sum_probs=50.8
Q ss_pred hhcCCCCCCCCHHHhcccCCCCceee-eccccccCCCceeEEEEeCCHHHHHHHHHhhcCCccCCCCCCcceEEEEe
Q 017922 182 LFLHRIPTKVPSEELHGVIPGDFTIE-AKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQSKDSYGRPQKLVEFQ 257 (364)
Q Consensus 182 l~~~~iP~~l~~eel~~~~~~~~~i~-~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~~~d~~g~~qk~v~~~ 257 (364)
|++..||..++.|.|.++|...-.++ +|-.+ -.+.|-|.+.+.|.+|.++++|.. -.|.+.-.++-|
T Consensus 262 LYVRNL~~~tTeE~lk~~F~~~G~veRVkk~r------DYaFVHf~eR~davkAm~~~ngke---ldG~~iEvtLAK 329 (506)
T KOG0117|consen 262 LYVRNLMESTTEETLKKLFNEFGKVERVKKPR------DYAFVHFAEREDAVKAMKETNGKE---LDGSPIEVTLAK 329 (506)
T ss_pred eeeeccchhhhHHHHHHHHHhccceEEeeccc------ceeEEeecchHHHHHHHHHhcCce---ecCceEEEEecC
Confidence 99999999999999999998865665 43332 278899999999999999998864 334444433333
No 163
>COG5509 Uncharacterized small protein containing a coiled-coil domain [Function unknown]
Probab=51.41 E-value=9.4 Score=29.10 Aligned_cols=19 Identities=47% Similarity=0.448 Sum_probs=15.5
Q ss_pred HHHHHHHHHhhhccccchh
Q 017922 323 KVIERLKRELREKDFQISM 341 (364)
Q Consensus 323 k~ie~~~~~~~~~~~~~~~ 341 (364)
-||||||.||..|+.-=|+
T Consensus 39 ~EIeRlkAe~~kK~~srsA 57 (65)
T COG5509 39 AEIERLKAELAKKKASRSA 57 (65)
T ss_pred HHHHHHHHHHHhhhccHHH
Confidence 5999999999998765444
No 164
>PF13017 Maelstrom: piRNA pathway germ-plasm component
Probab=51.15 E-value=18 Score=33.84 Aligned_cols=60 Identities=10% Similarity=0.165 Sum_probs=43.6
Q ss_pred cEEEEEEEEc---CCcE-EEEEEEcCCCcccccc-------cccCCCChhhhcCCCCCHHHHHHHHHHhhc
Q 017922 22 GLVRLCVVDR---NLKV-TIDELVKPEKAVADYR-------SEITGLTADDLVGVTCSLAEIQKRMKKLLS 81 (364)
Q Consensus 22 ~Ii~V~vVd~---~G~v-i~d~lVkP~~~I~d~~-------t~itGIT~e~L~~ap~~~~eV~~el~~fl~ 81 (364)
-.+||+++.. +|.+ .|+++|+|+..+..++ ..-|+|...-.+.....+..++.+|..||.
T Consensus 9 ~PaEiai~~fSL~~GI~~~~H~~I~Pg~~p~G~~~~a~~hs~~tH~ip~~~~~~~~~d~~~l~~~l~~fl~ 79 (213)
T PF13017_consen 9 VPAEIAICKFSLKEGIIDSFHTFINPGQIPLGYRYDAQHHSDETHQIPIPPNALGESDYSELYNELLNFLK 79 (213)
T ss_pred EeEEEEEEEEecCCccchhhhcccCCCCCCcHHHHHHHHhhhhhcCCCCCCcccccCCHHHHHHHHHHHhh
Confidence 4678888875 4532 4999999997554443 355888776555555579999999999994
No 165
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=50.80 E-value=16 Score=40.20 Aligned_cols=59 Identities=19% Similarity=0.209 Sum_probs=42.2
Q ss_pred hhcCCCCCCCCHHHhcccCCCCcee----eeccccccCCC-ceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 182 LFLHRIPTKVPSEELHGVIPGDFTI----EAKAVKRIRGD-NYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 182 l~~~~iP~~l~~eel~~~~~~~~~i----~~~~~~~~~g~-~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
+.....|..++.+||-++|.+...+ -++-.. .|. ++-|-|-|.|.+||.-||..|.++.
T Consensus 870 ~~~~n~Pf~v~l~dI~~FF~dY~~~p~sI~~r~nd--~G~pTGe~mvAfes~~eAr~A~~dl~~~~ 933 (944)
T KOG4307|consen 870 LSCNNFPFDVTLEDIVEFFNDYEPDPNSIRIRRND--DGVPTGECMVAFESQEEARRASMDLDGQK 933 (944)
T ss_pred EEecCCCccccHHHHHHHhcccccCCCceeEeecC--CCCcccceeEeecCHHHHHhhhhccccCc
Confidence 3344568888888888888764322 222212 344 7899999999999999999998764
No 166
>PF08112 ATP-synt_E_2: ATP synthase epsilon subunit; InterPro: IPR012508 ATPases (or ATP synthases) are membrane-bound enzyme complexes/ion transporters that combine ATP synthesis and/or hydrolysis with the transport of protons across a membrane. ATPases can harness the energy from a proton gradient, using the flux of ions across the membrane via the ATPase proton channel to drive the synthesis of ATP. Some ATPases work in reverse, using the energy from the hydrolysis of ATP to create a proton gradient. There are different types of ATPases, which can differ in function (ATP synthesis and/or hydrolysis), structure (e.g., F-, V- and A-ATPases, which contain rotary motors) and in the type of ions they transport [, ]. The different types include: F-ATPases (F1F0-ATPases), which are found in mitochondria, chloroplasts and bacterial plasma membranes where they are the prime producers of ATP, using the proton gradient generated by oxidative phosphorylation (mitochondria) or photosynthesis (chloroplasts). V-ATPases (V1V0-ATPases), which are primarily found in eukaryotic vacuoles and catalyse ATP hydrolysis to transport solutes and lower pH in organelles. A-ATPases (A1A0-ATPases), which are found in Archaea and function like F-ATPases (though with respect to their structure and some inhibitor responses, A-ATPases are more closely related to the V-ATPases). P-ATPases (E1E2-ATPases), which are found in bacteria and in eukaryotic plasma membranes and organelles, and function to transport a variety of different ions across membranes. E-ATPases, which are cell-surface enzymes that hydrolyse a range of NTPs, including extracellular ATP. A-ATPases (or A1A0-ATPase) (3.6.3.14 from EC) are found exclusively in Archaea and display a close resemblance in structure and subunit composition with V-ATPases, although their function in both ATP synthesis and ATP hydrolysis is closer to that of F-ATPases []. A-ATPases are composed of two linked complexes: the A1 complex consisting of seven subunits contains the catalytic core that synthesizes/hydrolyses ATP, while the A0 complex consisting of at least two subunits forms the membrane-spanning pore []. The rotary motor in A-ATPases is composed of only two subunits, the stator subunit I and the rotor subunit C []. A-ATPases may have arisen as an adaptation to the different cellular needs and the more extreme environmental conditions faced by Archaeal species. The epsilon subunit is the smallest (7 kDa) of those found in the A1 complex. Unlike the A, B and C subunits, the epsilon subunit does not have a homologous counterpart in F- or V-ATPases []. More information about this protein can be found at Protein of the Month: ATP Synthases [].; GO: 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0042626 ATPase activity, coupled to transmembrane movement of substances, 0015986 ATP synthesis coupled proton transport, 0033178 proton-transporting two-sector ATPase complex, catalytic domain
Probab=49.17 E-value=15 Score=27.23 Aligned_cols=17 Identities=53% Similarity=0.434 Sum_probs=15.3
Q ss_pred chhhhhhhHHHHHHHHH
Q 017922 339 ISMQDKNISDLKKKVAE 355 (364)
Q Consensus 339 ~~~~~~~~~~~~~~~~~ 355 (364)
-|+.|+-|+.||.||++
T Consensus 6 ~~~~d~yI~~Lk~kLd~ 22 (56)
T PF08112_consen 6 KSTIDKYISILKSKLDE 22 (56)
T ss_pred hhhHHHHHHHHHHHHHH
Confidence 37889999999999998
No 167
>KOG0147 consensus Transcriptional coactivator CAPER (RRM superfamily) [Transcription]
Probab=49.15 E-value=33 Score=36.62 Aligned_cols=74 Identities=23% Similarity=0.354 Sum_probs=58.2
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceeeeccccc--cCCC-ceeEEEEeCCHHHHHHHHHhhcCCccCCCCCCcceEEEEe
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIEAKAVKR--IRGD-NYAAFAIFSSPQEANQAFENVKGNQSKDSYGRPQKLVEFQ 257 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~~~~~~~--~~g~-~~~~~~~f~s~~~~~~af~~l~g~~~~d~~g~~qk~v~~~ 257 (364)
+|++..|=.+++.+.+..+|--.-.|+...... ..|. .++..++|.+.+.|..|.++|.| -+=.||+.| |.+.
T Consensus 280 rl~vgnLHfNite~~lr~ifepfg~Ie~v~l~~d~~tG~skgfGfi~f~~~~~ar~a~e~lng---felAGr~ik-V~~v 355 (549)
T KOG0147|consen 280 RLYVGNLHFNITEDMLRGIFEPFGKIENVQLTKDSETGRSKGFGFITFVNKEDARKALEQLNG---FELAGRLIK-VSVV 355 (549)
T ss_pred hhhhcccccCchHHHHhhhccCcccceeeeeccccccccccCcceEEEecHHHHHHHHHHhcc---ceecCceEE-EEEe
Confidence 377888889999999999987767887554321 1233 67888999999999999999999 677899999 6654
Q ss_pred c
Q 017922 258 S 258 (364)
Q Consensus 258 ~ 258 (364)
.
T Consensus 356 ~ 356 (549)
T KOG0147|consen 356 T 356 (549)
T ss_pred e
Confidence 3
No 168
>KOG1548 consensus Transcription elongation factor TAT-SF1 [Transcription]
Probab=48.33 E-value=19 Score=36.49 Aligned_cols=62 Identities=11% Similarity=0.252 Sum_probs=44.8
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceeeecccc----------ccCCC-ceeEEEEeCCHHHHHHHHHhhcCCcc
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIEAKAVK----------RIRGD-NYAAFAIFSSPQEANQAFENVKGNQS 243 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~~~~~~----------~~~g~-~~~~~~~f~s~~~~~~af~~l~g~~~ 243 (364)
..|+.+||.+++.+|+..+|++ +.|....+. ..+|. .|-++++|--.+-|++|+.-|.+..-
T Consensus 136 ~VYVsgLP~DiT~dE~~~~~sK-cGiI~~d~~t~epk~KlYrd~~G~lKGDaLc~y~K~ESVeLA~~ilDe~~~ 208 (382)
T KOG1548|consen 136 SVYVSGLPLDITVDEFAEVMSK-CGIIMRDPQTGEPKVKLYRDNQGKLKGDALCCYIKRESVELAIKILDEDEL 208 (382)
T ss_pred eEEecCCCCcccHHHHHHHHHh-cceEeccCCCCCeeEEEEecCCCCccCceEEEeecccHHHHHHHHhCcccc
Confidence 4899999999999999999876 544332221 11344 56677777777888899998887653
No 169
>KOG0970 consensus DNA polymerase alpha, catalytic subunit [Replication, recombination and repair]
Probab=47.97 E-value=70 Score=37.34 Aligned_cols=124 Identities=16% Similarity=0.202 Sum_probs=72.1
Q ss_pred cEEEEEEeccCCCC-CcccEEEEEEEEcC--------Cc----EEEEEEEcCCCccccc------ccccCCCChhhhcCC
Q 017922 5 IMYAVDCEMVLCED-GSEGLVRLCVVDRN--------LK----VTIDELVKPEKAVADY------RSEITGLTADDLVGV 65 (364)
Q Consensus 5 ~~ValD~ETTGl~~-g~~~Ii~V~vVd~~--------G~----vi~d~lVkP~~~I~d~------~t~itGIT~e~L~~a 65 (364)
.+.+|-++|.--.. ...+|+.|++.-.. +. .-+..+++|...+-++ ....++ +.-.
T Consensus 530 ~llsL~i~T~~N~k~~~~Eiv~is~l~~~~~~id~p~p~~~~~~~~c~l~rP~~~~fP~g~~ela~~k~~~-----v~~~ 604 (1429)
T KOG0970|consen 530 TLLSLNIRTSMNPKQNKNEIVMISMLCFHNFSIDKPAPAPAFPRHFCVLTRPPGTSFPLGLKELAKQKLSK-----VVLH 604 (1429)
T ss_pred eEEEeeeeehhccccchhhhhhhhhhhcccccccCCCCCCcccCcceeEecCCCCcCCchHHHHHHhccCc-----eEEe
Confidence 56677777775432 23478888775321 11 1366789998655443 111112 1111
Q ss_pred CCCHHHHHHHHHHhhc--CCCEEEEec-hhhHHHHHcc------------------cC-----------------CCc-c
Q 017922 66 TCSLAEIQKRMKKLLS--NGTILVGHS-LNNDLEVLKL------------------DH-----------------PRV-I 106 (364)
Q Consensus 66 p~~~~eV~~el~~fl~--~~~iLVGHn-~~fDl~fL~~------------------~~-----------------~~v-I 106 (364)
. +-...+..|+..+. +-.++|||| ..|+|.+|-. .. .|+ -
T Consensus 605 ~-sErALLs~fla~~~~~dpD~iVgHn~~~~~l~VLl~R~~~~Kip~WS~IgRLrrS~~~kfg~~s~~~e~~~~aGRl~C 683 (1429)
T KOG0970|consen 605 N-SERALLSHFLAMLNKEDPDVIVGHNIQGFYLDVLLSRLHALKIPNWSSIGRLRRSWPPKFGRSSSFGEFFIIAGRLMC 683 (1429)
T ss_pred c-CHHHHHHHHHHHhhccCCCEEEEeccccchHHHHHHHHHHhcCcchhhhhhhhhccccccCCcccccccccccceEEe
Confidence 1 33455666666553 458999999 6799998821 00 112 3
Q ss_pred chHHHhhhhcCCCCccHHHHHHHHhCCc
Q 017922 107 DTSLIFKYVDEYRRPSLYNLCKSVLGYE 134 (364)
Q Consensus 107 DT~~L~r~~~~~~~~sL~~L~k~~Lgi~ 134 (364)
|+-..++.+.+..+|+|.+|++..|+.+
T Consensus 684 D~~~~a~~lik~~S~~LseL~q~~l~~e 711 (1429)
T KOG0970|consen 684 DLNLAARELIKAQSYSLSELSQQILKEE 711 (1429)
T ss_pred ehHHHHHhhhccccccHHHHHHHHHhhh
Confidence 4433344444468999999999998873
No 170
>KOG4253 consensus Tryptophan-rich basic nuclear protein [General function prediction only]
Probab=47.29 E-value=29 Score=31.44 Aligned_cols=34 Identities=29% Similarity=0.531 Sum_probs=26.6
Q ss_pred hHHHHHHHHHHhhhccccchhhhhhh--HHHHHHHHHHHh
Q 017922 321 HLKVIERLKRELREKDFQISMQDKNI--SDLKKKVAEMKD 358 (364)
Q Consensus 321 h~k~ie~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~ 358 (364)
-.+||-.+||+|++ |||||+-- +.|.||+++|-+
T Consensus 49 ~~~ei~dmKqelna----vs~qD~fAkwaRlnRKi~kl~~ 84 (175)
T KOG4253|consen 49 KVAEIQDMKQELNA----VSMQDNFAKWARLNRKINKLDK 84 (175)
T ss_pred HHHHHHHHHHHHhh----hhhHHHHHHHHHHHHHHHHHHH
Confidence 46789999999986 89999864 567788877754
No 171
>PRK14975 bifunctional 3'-5' exonuclease/DNA polymerase; Provisional
Probab=46.82 E-value=67 Score=34.35 Aligned_cols=58 Identities=17% Similarity=0.129 Sum_probs=40.5
Q ss_pred ccchHHHhhhhcCCC---CccHHHHHHHHhCCccCCCCCC------------CChHHHHHHHHHHHHHHHHhc
Q 017922 105 VIDTSLIFKYVDEYR---RPSLYNLCKSVLGYEIRKKGTP------------HNCLDDASAAMKLVLAIIERR 162 (364)
Q Consensus 105 vIDT~~L~r~~~~~~---~~sL~~L~k~~Lgi~i~~~~~~------------H~Al~DA~Ata~L~~~~le~g 162 (364)
+.||...+..+.+.. +.+|..|+..++++.+...... .-|..|+..+..||..+.+..
T Consensus 72 ~fDT~LAa~lL~~~~~~~~~~l~~la~~~l~~~l~k~~~~sdw~rpls~~q~~YAa~Dv~~l~~L~~~L~~qL 144 (553)
T PRK14975 72 CHDLMLASQLLLGSEGRAGSSLSAAAARALGEGLDKPPQTSALSDPPDEEQLLYAAADADVLLELYAVLADQL 144 (553)
T ss_pred CchHHHHHHHcCCCCCcCCCCHHHHHHHHhCCCCCChhhhccccccchHHHHHHHHHHhHHHHHHHHHHHHHH
Confidence 678887777776633 6899999999998886431101 136677888888887766543
No 172
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=46.75 E-value=13 Score=36.44 Aligned_cols=63 Identities=21% Similarity=0.352 Sum_probs=47.2
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceeeec--cccccCCC-ceeEEEEeCCHHHHHHHHHhhcCCcc
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIEAK--AVKRIRGD-NYAAFAIFSSPQEANQAFENVKGNQS 243 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~~~--~~~~~~g~-~~~~~~~f~s~~~~~~af~~l~g~~~ 243 (364)
.|++.+||...+..|++.+|.-.-.|.-- -+..+.|- .+-..+.|.-..||+.|...|.|..-
T Consensus 129 NLYvSGlPktMtqkelE~iFs~fGrIItSRiL~dqvtg~srGVgFiRFDKr~EAe~AIk~lNG~~P 194 (360)
T KOG0145|consen 129 NLYVSGLPKTMTQKELEQIFSPFGRIITSRILVDQVTGLSRGVGFIRFDKRIEAEEAIKGLNGQKP 194 (360)
T ss_pred ceEEecCCccchHHHHHHHHHHhhhhhhhhhhhhcccceecceeEEEecchhHHHHHHHhccCCCC
Confidence 49999999999999999999764444210 01111232 56789999999999999999999763
No 173
>KOG0110 consensus RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=45.22 E-value=34 Score=37.64 Aligned_cols=67 Identities=22% Similarity=0.190 Sum_probs=52.9
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceeeec-cccccCCCceeEEEEeCCHHHHHHHHHhhcCCccCCCCCCcc
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIEAK-AVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQSKDSYGRPQ 251 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~~~-~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~~~d~~g~~q 251 (364)
.+....+|.+..++++..+|.....|.-. -+.. | ..++|.|..+.+|++||+.|.....++..+++-
T Consensus 387 vil~kNlpa~t~~~elt~~F~~fG~i~rvllp~~--G--~~aiv~fl~p~eAr~Afrklaysr~k~~plyle 454 (725)
T KOG0110|consen 387 VILVKNLPAGTLSEELTEAFLRFGEIGRVLLPPG--G--TGAIVEFLNPLEARKAFRKLAYSRFKSAPLYLE 454 (725)
T ss_pred eeeeccCccccccHHHHHHhhcccccceeecCcc--c--ceeeeeecCccchHHHHHHhchhhhccCccccc
Confidence 37788899999999999888776666522 2222 2 469999999999999999999999888877543
No 174
>PF10309 DUF2414: Protein of unknown function (DUF2414); InterPro: IPR019416 This entry contains proteins that have no known function.
Probab=45.14 E-value=22 Score=27.16 Aligned_cols=42 Identities=14% Similarity=0.260 Sum_probs=29.3
Q ss_pred CCCHHHhcccCCCC------ceeeeccccccCCCceeEEEEeCCHHHHHHHHHhh
Q 017922 190 KVPSEELHGVIPGD------FTIEAKAVKRIRGDNYAAFAIFSSPQEANQAFENV 238 (364)
Q Consensus 190 ~l~~eel~~~~~~~------~~i~~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l 238 (364)
.++.+++..+|.+. ..|||-.. .||.|+|.|.+.|..|+..|
T Consensus 15 ~lsT~dI~~y~~~y~~~~~~~~IEWIdD-------tScNvvf~d~~~A~~AL~~L 62 (62)
T PF10309_consen 15 ELSTDDIKAYFSEYFDEEGPFRIEWIDD-------TSCNVVFKDEETAARALVAL 62 (62)
T ss_pred CCCHHHHHHHHHHhcccCCCceEEEecC-------CcEEEEECCHHHHHHHHHcC
Confidence 45666666555443 35555322 48999999999999999765
No 175
>KOG0131 consensus Splicing factor 3b, subunit 4 [RNA processing and modification]
Probab=44.61 E-value=25 Score=32.76 Aligned_cols=100 Identities=13% Similarity=0.163 Sum_probs=66.8
Q ss_pred CChHHHHHHHHHHHHHHHHhcccCCCCCcccchhH---HHHHhhhcCCCCCCCCHHHhcccCCCCceeeeccc----ccc
Q 017922 142 HNCLDDASAAMKLVLAIIERRVDNAVPLLQEDVAE---TERARLFLHRIPTKVPSEELHGVIPGDFTIEAKAV----KRI 214 (364)
Q Consensus 142 H~Al~DA~Ata~L~~~~le~g~~~~i~~~~~~~~e---~~~~~l~~~~iP~~l~~eel~~~~~~~~~i~~~~~----~~~ 214 (364)
-..-+||.-+..++. ++ +.....|.++...... ..-+++++..+-+.+.+..|.+.|+..-.|...|. ..+
T Consensus 58 f~~eedadYAikiln-~V-kLYgrpIrv~kas~~~~nl~vganlfvgNLd~~vDe~~L~dtFsafG~l~~~P~i~rd~~t 135 (203)
T KOG0131|consen 58 FRTEEDADYAIKILN-MV-KLYGRPIRVNKASAHQKNLDVGANLFVGNLDPEVDEKLLYDTFSAFGVLISPPKIMRDPDT 135 (203)
T ss_pred EechhhhHHHHHHHH-HH-HhcCceeEEEecccccccccccccccccccCcchhHHHHHHHHHhccccccCCcccccccC
Confidence 355789999999886 44 4444444433221111 11246888888888888889999988555543221 121
Q ss_pred CCCceeEEEEeCCHHHHHHHHHhhcCCcc
Q 017922 215 RGDNYAAFAIFSSPQEANQAFENVKGNQS 243 (364)
Q Consensus 215 ~g~~~~~~~~f~s~~~~~~af~~l~g~~~ 243 (364)
+...+++++.|.|-+.+..|...+.|...
T Consensus 136 g~~~~~g~i~~~sfeasd~ai~s~ngq~l 164 (203)
T KOG0131|consen 136 GNPKGFGFINYASFEASDAAIGSMNGQYL 164 (203)
T ss_pred CCCCCCeEEechhHHHHHHHHHHhccchh
Confidence 23367999999999999999999998753
No 176
>PF05266 DUF724: Protein of unknown function (DUF724); InterPro: IPR007930 This family contains several uncharacterised proteins found exclusively in Arabidopsis thaliana.
Probab=42.97 E-value=32 Score=31.88 Aligned_cols=40 Identities=25% Similarity=0.434 Sum_probs=21.5
Q ss_pred hhhhHHHHHHHHHHhhhc-------cccchhhhhhhHHHHHHHHHHH
Q 017922 318 CEDHLKVIERLKRELREK-------DFQISMQDKNISDLKKKVAEMK 357 (364)
Q Consensus 318 ~~~h~k~ie~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~ 357 (364)
...++.+.+.+.+++.++ +.+|..+...|..|++..+.|+
T Consensus 105 ~~~~~e~~k~le~~~~~~~~~~~~~e~~i~~Le~ki~el~~~~~~~~ 151 (190)
T PF05266_consen 105 QEKLLEERKKLEKKIEEKEAELKELESEIKELEMKILELQRQAAKLK 151 (190)
T ss_pred HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 444455555555554444 5666666666666666544444
No 177
>PF04201 TPD52: Tumour protein D52 family; InterPro: IPR007327 The hD52 gene was originally identified through its elevated expression level in human breast carcinoma. Cloning of D52 homologues from other species has indicated that D52 may play roles in calcium-mediated signal transduction and cell proliferation. Two human homologues of hD52, hD53 and hD54, have also been identified, demonstrating the existence of a novel gene/protein family []. These proteins have an N-terminal coiled-coil that allows members to form homo- and heterodimers with each other [].
Probab=41.70 E-value=29 Score=31.56 Aligned_cols=35 Identities=23% Similarity=0.338 Sum_probs=25.7
Q ss_pred HHHHHHHhhhccccchhhhhhhHHHHHHHHHHHhh
Q 017922 325 IERLKRELREKDFQISMQDKNISDLKKKVAEMKDQ 359 (364)
Q Consensus 325 ie~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 359 (364)
=|+|+++|.+-+-||.+|...+....+...++|++
T Consensus 31 ~eeLr~EL~KvEeEI~TLrqvL~aKer~~~eLKrk 65 (162)
T PF04201_consen 31 REELRSELAKVEEEIQTLRQVLAAKERHCAELKRK 65 (162)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 46788888888888888888777766666666543
No 178
>KOG4207 consensus Predicted splicing factor, SR protein superfamily [RNA processing and modification]
Probab=40.33 E-value=20 Score=34.07 Aligned_cols=62 Identities=18% Similarity=0.280 Sum_probs=44.0
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCcee-eec-ccccc-CCCceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTI-EAK-AVKRI-RGDNYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i-~~~-~~~~~-~g~~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
.|.+-.|-...+.+.|..+|.+.-.+ +|- |-.+- +-..++|+|-|+...+|++|.+.++|..
T Consensus 15 SLkVdNLTyRTspd~LrrvFekYG~vgDVyIPrdr~Tr~sRgFaFVrf~~k~daedA~damDG~~ 79 (256)
T KOG4207|consen 15 SLKVDNLTYRTSPDDLRRVFEKYGRVGDVYIPRDRYTRQSRGFAFVRFHDKRDAEDALDAMDGAV 79 (256)
T ss_pred eEEecceeccCCHHHHHHHHHHhCcccceecccccccccccceeEEEeeecchHHHHHHhhccee
Confidence 46666777777888899888654333 111 21111 2337899999999999999999999875
No 179
>KOG0145 consensus RNA-binding protein ELAV/HU (RRM superfamily) [RNA processing and modification]
Probab=39.24 E-value=37 Score=33.37 Aligned_cols=92 Identities=23% Similarity=0.333 Sum_probs=58.2
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceee---eccccccCCC-ceeEEEEeCCHHHHHHHHHhhcCCccCCCCCCcceEEEE
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIE---AKAVKRIRGD-NYAAFAIFSSPQEANQAFENVKGNQSKDSYGRPQKLVEF 256 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~---~~~~~~~~g~-~~~~~~~f~s~~~~~~af~~l~g~~~~d~~g~~qk~v~~ 256 (364)
.|-+.-+|.+.+.+|+..+|..---|| +.-.+- .|. -+-..|-+-++++|++|.+.|.|-.--.+ ..|.-+-
T Consensus 43 NLIvNYLPQ~MTqdE~rSLF~SiGeiEScKLvRDKi-tGqSLGYGFVNYv~p~DAe~AintlNGLrLQ~K---TIKVSyA 118 (360)
T KOG0145|consen 43 NLIVNYLPQNMTQDELRSLFGSIGEIESCKLVRDKI-TGQSLGYGFVNYVRPKDAEKAINTLNGLRLQNK---TIKVSYA 118 (360)
T ss_pred eeeeeecccccCHHHHHHHhhcccceeeeeeeeccc-cccccccceeeecChHHHHHHHhhhcceeeccc---eEEEEec
Confidence 366778999999999999998644444 222222 343 55667889999999999999988532111 1222222
Q ss_pred ecCCCCe--EEEEE----EeeccCCC
Q 017922 257 QSNAGII--ASLYV----RKMVCDEP 276 (364)
Q Consensus 257 ~~~~g~~--~~~~v----rkm~~~~~ 276 (364)
++++-.+ +++|| +-|++.|.
T Consensus 119 RPSs~~Ik~aNLYvSGlPktMtqkel 144 (360)
T KOG0145|consen 119 RPSSDSIKDANLYVSGLPKTMTQKEL 144 (360)
T ss_pred cCChhhhcccceEEecCCccchHHHH
Confidence 3333322 57777 45666664
No 180
>KOG4307 consensus RNA binding protein RBM12/SWAN [General function prediction only]
Probab=39.18 E-value=18 Score=39.76 Aligned_cols=54 Identities=24% Similarity=0.414 Sum_probs=42.4
Q ss_pred hhcCCCCCCCCHHHhcccCCCCceeeeccccccCCCceeEEEEeCCHHHHHHHHH
Q 017922 182 LFLHRIPTKVPSEELHGVIPGDFTIEAKAVKRIRGDNYAAFAIFSSPQEANQAFE 236 (364)
Q Consensus 182 l~~~~iP~~l~~eel~~~~~~~~~i~~~~~~~~~g~~~~~~~~f~s~~~~~~af~ 236 (364)
+++..||.....-+|.-+|++ .+|-.....-+.|..+-|.|.|+|+++|.+|.-
T Consensus 5 IRLqnLP~tAga~DIR~FFSG-L~IPdGgVHIIGGe~GeaFI~FsTDeDARlaM~ 58 (944)
T KOG4307|consen 5 IRLQNLPMTAGASDIRTFFSG-LKIPDGGVHIIGGEEGEAFIGFSTDEDARLAMT 58 (944)
T ss_pred EEecCCcccccchHHHHhhcc-cccCCCceEEecccccceEEEecccchhhhhhh
Confidence 456788988888999999998 444333344446889999999999999999864
No 181
>KOG0148 consensus Apoptosis-promoting RNA-binding protein TIA-1/TIAR (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=39.14 E-value=46 Score=32.87 Aligned_cols=67 Identities=15% Similarity=0.197 Sum_probs=50.9
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceeeeccccccCCCceeEEEEeCCHHHHHHHHHhhcCCccCCCCCCcceE
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIEAKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQSKDSYGRPQKL 253 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~~~d~~g~~qk~ 253 (364)
..+..+|++.++++++++.|+-.-.|-.+-.-+ ..+-+.|.|.+.+.|..|.-.+.+.. --|.+-|+
T Consensus 166 sVY~G~I~~~lte~~mr~~Fs~fG~I~EVRvFk---~qGYaFVrF~tkEaAahAIv~mNnte---i~G~~VkC 232 (321)
T KOG0148|consen 166 SVYVGNIASGLTEDLMRQTFSPFGPIQEVRVFK---DQGYAFVRFETKEAAAHAIVQMNNTE---IGGQLVRC 232 (321)
T ss_pred eEEeCCcCccccHHHHHHhcccCCcceEEEEec---ccceEEEEecchhhHHHHHHHhcCce---eCceEEEE
Confidence 588999999999999999998766774333222 23489999999999999999887754 34554444
No 182
>PRK14887 KEOPS complex Pcc1-like subunit; Provisional
Probab=38.94 E-value=1.7e+02 Score=23.56 Aligned_cols=47 Identities=11% Similarity=0.168 Sum_probs=37.1
Q ss_pred eeEEEEeCCHHHHHHHHHhhcCCccCCCCCCcceEEEEecCCCCeEEEEE
Q 017922 219 YAAFAIFSSPQEANQAFENVKGNQSKDSYGRPQKLVEFQSNAGIIASLYV 268 (364)
Q Consensus 219 ~~~~~~f~s~~~~~~af~~l~g~~~~d~~g~~qk~v~~~~~~g~~~~~~v 268 (364)
....+.|.|++.|.-+++.|.-.......+|.+..+.+. |.+..|.+
T Consensus 6 ~~lei~f~s~~~A~iiy~sl~~E~~~~~~~rs~~~~~~~---~~~l~i~i 52 (84)
T PRK14887 6 FTLEFEFETEERARIIYRSVLPEHGDSQGERSKADLSLD---GNTIVITI 52 (84)
T ss_pred EEEEEEECCHHHHHHHHHHhCcCcccCCcCceEEEEEEe---CCEEEEEE
Confidence 577899999999999999999888777778888887754 55444444
No 183
>PRK04325 hypothetical protein; Provisional
Probab=38.22 E-value=32 Score=27.02 Aligned_cols=51 Identities=12% Similarity=0.124 Sum_probs=35.4
Q ss_pred chhhhhHHhhhhccccchhhhHHHHHHHHHHhhhccccchhhhhhhHHHHHHHHHHH
Q 017922 301 IKWINEEEKIADTNQCKCEDHLKVIERLKRELREKDFQISMQDKNISDLKKKVAEMK 357 (364)
Q Consensus 301 ~~~~~~~~~~~~~~~~~~~~h~k~ie~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 357 (364)
+++.+++..+.-.+|. .-||.||+.+.+-..+|..+.+-+..|..++.++.
T Consensus 7 ~e~Ri~~LE~klAfQE------~tIe~LN~vv~~Qq~~I~~L~~ql~~L~~rl~~~~ 57 (74)
T PRK04325 7 MEDRITELEIQLAFQE------DLIDGLNATVARQQQTLDLLQAQLRLLYQQMRDAN 57 (74)
T ss_pred HHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4444665555555552 24889999988877778777777777777777654
No 184
>KOG2591 consensus c-Mpl binding protein, contains La domain [Signal transduction mechanisms]
Probab=35.59 E-value=29 Score=37.26 Aligned_cols=59 Identities=20% Similarity=0.356 Sum_probs=41.3
Q ss_pred hhcCCCCCCCCHHHhcccCCCCceeeeccccccCCCceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 182 LFLHRIPTKVPSEELHGVIPGDFTIEAKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 182 l~~~~iP~~l~~eel~~~~~~~~~i~~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
+.+.-||...+.|++..||.+....-+-.-+- +..-.|+|+|.|+.+|.+||.-|+-..
T Consensus 178 vilREIpettp~e~Vk~lf~~encPk~iscef--a~N~nWyITfesd~DAQqAykylreev 236 (684)
T KOG2591|consen 178 VILREIPETTPIEVVKALFKGENCPKVISCEF--AHNDNWYITFESDTDAQQAYKYLREEV 236 (684)
T ss_pred EEEeecCCCChHHHHHHHhccCCCCCceeeee--eecCceEEEeecchhHHHHHHHHHHHH
Confidence 44556899999999999997733321110011 223479999999999999999886543
No 185
>PF06810 Phage_GP20: Phage minor structural protein GP20; InterPro: IPR009636 This family consists of several phage minor structural protein Gp20 sequences and prophage sequences of around 180 residues in length. The function of this family is unknown.; GO: 0005198 structural molecule activity
Probab=35.36 E-value=40 Score=30.18 Aligned_cols=38 Identities=32% Similarity=0.441 Sum_probs=31.5
Q ss_pred HHHHHHHHHHhhhccccchhhhh---hhHHHHHHHHHHHhh
Q 017922 322 LKVIERLKRELREKDFQISMQDK---NISDLKKKVAEMKDQ 359 (364)
Q Consensus 322 ~k~ie~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~ 359 (364)
-.|+..|+.||.+|+-+|..|.+ -+.+|++++++++..
T Consensus 26 ~~e~~~~k~ql~~~d~~i~~Lk~~~~d~eeLk~~i~~lq~~ 66 (155)
T PF06810_consen 26 KEERDNLKTQLKEADKQIKDLKKSAKDNEELKKQIEELQAK 66 (155)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHH
Confidence 45888899999999999998888 788888888887654
No 186
>PRK00846 hypothetical protein; Provisional
Probab=34.69 E-value=37 Score=27.09 Aligned_cols=52 Identities=12% Similarity=0.088 Sum_probs=34.3
Q ss_pred cchhhhhHHhhhhccccchhhhHHHHHHHHHHhhhccccchhhhhhhHHHHHHHHHHH
Q 017922 300 NIKWINEEEKIADTNQCKCEDHLKVIERLKRELREKDFQISMQDKNISDLKKKVAEMK 357 (364)
Q Consensus 300 ~~~~~~~~~~~~~~~~~~~~~h~k~ie~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 357 (364)
.++.-+++..+.-.+|.+ =||.||+.+.+-..+|..+..-+.-|+.++.+|.
T Consensus 10 ~le~Ri~~LE~rlAfQe~------tIe~LN~~v~~qq~~I~~L~~ql~~L~~rL~~~~ 61 (77)
T PRK00846 10 ALEARLVELETRLSFQEQ------ALTELSEALADARLTGARNAELIRHLLEDLGKVR 61 (77)
T ss_pred hHHHHHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 455556655555555532 3888999887766667766666666776766665
No 187
>KOG0132 consensus RNA polymerase II C-terminal domain-binding protein RA4, contains RPR and RRM domains [RNA processing and modification; Transcription]
Probab=34.10 E-value=54 Score=36.62 Aligned_cols=67 Identities=18% Similarity=0.227 Sum_probs=50.1
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceeeeccccccCCCceeEEEEeCCHHHHHHHHHhhcCCccCCCCCCcceEEEE
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIEAKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQSKDSYGRPQKLVEF 256 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~~~d~~g~~qk~v~~ 256 (364)
.||+.+||.++...+|..+|-..-.|+-. .- .+.++||+|+-...++|++|..+|. ..+-.+|+|.+
T Consensus 423 TLwvG~i~k~v~e~dL~~~feefGeiqSi--~l-i~~R~cAfI~M~~RqdA~kalqkl~------n~kv~~k~Iki 489 (894)
T KOG0132|consen 423 TLWVGGIPKNVTEQDLANLFEEFGEIQSI--IL-IPPRGCAFIKMVRRQDAEKALQKLS------NVKVADKTIKI 489 (894)
T ss_pred eeeeccccchhhHHHHHHHHHhcccceeE--ee-ccCCceeEEEEeehhHHHHHHHHHh------cccccceeeEE
Confidence 49999999999999999998764444311 11 3445699999999999999999888 44556677744
No 188
>KOG0130 consensus RNA-binding protein RBM8/Tsunagi (RRM superfamily) [General function prediction only]
Probab=31.71 E-value=43 Score=29.92 Aligned_cols=60 Identities=18% Similarity=0.317 Sum_probs=42.6
Q ss_pred hhcCCCCCCCCHHHhcccCCCCcee---eeccccccCCC-ceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 182 LFLHRIPTKVPSEELHGVIPGDFTI---EAKAVKRIRGD-NYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 182 l~~~~iP~~l~~eel~~~~~~~~~i---~~~~~~~~~g~-~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
+++.++-.-.+.++++..|.+.-.| ++.-.++ .|- .+-|+|++.+-.+|+.|.+.++|..
T Consensus 75 i~VtgvHeEatEedi~d~F~dyGeiKNihLNLDRR-tGy~KGYaLvEYet~keAq~A~~~~Ng~~ 138 (170)
T KOG0130|consen 75 IFVTGVHEEATEEDIHDKFADYGEIKNIHLNLDRR-TGYVKGYALVEYETLKEAQAAIDALNGAE 138 (170)
T ss_pred EEEeccCcchhHHHHHHHHhhcccccceeeccccc-cccccceeeeehHhHHHHHHHHHhccchh
Confidence 4555666666788898888763333 3433344 233 6789999999999999999998764
No 189
>KOG4010 consensus Coiled-coil protein TPD52 [General function prediction only]
Probab=31.69 E-value=51 Score=30.72 Aligned_cols=33 Identities=24% Similarity=0.356 Sum_probs=23.1
Q ss_pred HHHHHHhhhccccchhhhhhhHHHHHHHHHHHh
Q 017922 326 ERLKRELREKDFQISMQDKNISDLKKKVAEMKD 358 (364)
Q Consensus 326 e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 358 (364)
|+|+++|.+=+-||++|...++...|...|+|.
T Consensus 47 eelr~EL~kvEeEI~TLrqVLaAKerH~~ELKR 79 (208)
T KOG4010|consen 47 EELRTELAKVEEEIVTLRQVLAAKERHAAELKR 79 (208)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467777777777777777777766666666554
No 190
>PF04102 SlyX: SlyX; InterPro: IPR007236 The SlyX protein has no known function. It is short, less than 80 amino acids, and its gene is found close to the slyD gene. The SlyX protein has a conserved PPH(Y/W) motif at its C terminus. The protein may be a coiled-coil structure.; PDB: 3EFG_A.
Probab=31.67 E-value=34 Score=26.36 Aligned_cols=34 Identities=24% Similarity=0.405 Sum_probs=23.5
Q ss_pred HHHHHHHHhhhccccchhhhhhhHHHHHHHHHHH
Q 017922 324 VIERLKRELREKDFQISMQDKNISDLKKKVAEMK 357 (364)
Q Consensus 324 ~ie~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 357 (364)
-||.||+.+.+-.-+|..|...+..|..|+.++.
T Consensus 19 ~ie~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~ 52 (69)
T PF04102_consen 19 TIEELNDVVTEQQRQIDRLQRQLRLLRERLRELE 52 (69)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHT-----
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhc
Confidence 4888999888877778888888888887777765
No 191
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=31.28 E-value=55 Score=35.24 Aligned_cols=67 Identities=28% Similarity=0.428 Sum_probs=50.0
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCc-eeeeccccccCCC-ceeEEEEeCCHHHHHHHHHhhcCCccCCCCCCc
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDF-TIEAKAVKRIRGD-NYAAFAIFSSPQEANQAFENVKGNQSKDSYGRP 250 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~-~i~~~~~~~~~g~-~~~~~~~f~s~~~~~~af~~l~g~~~~d~~g~~ 250 (364)
+|-...+|......+|.-+|+.-- ..+++-++++-|. -|++.|.|....+|..|.+.++|.. -.|||
T Consensus 119 rLIIRNLPf~~k~~dLk~vFs~~G~V~Ei~IP~k~dgklcGFaFV~fk~~~dA~~Al~~~N~~~---i~gR~ 187 (678)
T KOG0127|consen 119 RLIIRNLPFKCKKPDLKNVFSNFGKVVEIVIPRKKDGKLCGFAFVQFKEKKDAEKALEFFNGNK---IDGRP 187 (678)
T ss_pred eEEeecCCcccCcHHHHHHHhhcceEEEEEcccCCCCCccceEEEEEeeHHHHHHHHHhccCce---ecCce
Confidence 566778899998889999988744 4466644443333 6999999999999999999887753 34554
No 192
>KOG0149 consensus Predicted RNA-binding protein SEB4 (RRM superfamily) [General function prediction only]
Probab=31.14 E-value=41 Score=32.43 Aligned_cols=64 Identities=17% Similarity=0.239 Sum_probs=46.9
Q ss_pred HHhhhcCCCCCCCCHHHhcccCCCCceee---eccccccCCC-ceeEEEEeCCHHHHHHHHHh----hcCCcc
Q 017922 179 RARLFLHRIPTKVPSEELHGVIPGDFTIE---AKAVKRIRGD-NYAAFAIFSSPQEANQAFEN----VKGNQS 243 (364)
Q Consensus 179 ~~~l~~~~iP~~l~~eel~~~~~~~~~i~---~~~~~~~~g~-~~~~~~~f~s~~~~~~af~~----l~g~~~ 243 (364)
.-|+++.+||...+.+.|.++|..---|. +...+. .|. .|-..|+|.+.+.|..|-.. ++|+.+
T Consensus 12 ~TKifVggL~w~T~~~~l~~yFeqfGeI~eavvitd~~-t~rskGyGfVTf~d~~aa~rAc~dp~piIdGR~a 83 (247)
T KOG0149|consen 12 FTKIFVGGLAWETHKETLRRYFEQFGEIVEAVVITDKN-TGRSKGYGFVTFRDAEAATRACKDPNPIIDGRKA 83 (247)
T ss_pred EEEEEEcCcccccchHHHHHHHHHhCceEEEEEEeccC-CccccceeeEEeecHHHHHHHhcCCCCccccccc
Confidence 34789999999999999999987644553 222232 233 67789999999999999875 456554
No 193
>KOG0123 consensus Polyadenylate-binding protein (RRM superfamily) [RNA processing and modification; Translation, ribosomal structure and biogenesis]
Probab=30.62 E-value=68 Score=32.72 Aligned_cols=71 Identities=24% Similarity=0.374 Sum_probs=53.2
Q ss_pred hhcCCCCCCCCHHHhcccCCCCceee-e-ccccccCCCceeEEEEeCCHHHHHHHHHhhcCCccCCC---CCCcce
Q 017922 182 LFLHRIPTKVPSEELHGVIPGDFTIE-A-KAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQSKDS---YGRPQK 252 (364)
Q Consensus 182 l~~~~iP~~l~~eel~~~~~~~~~i~-~-~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~~~d~---~g~~qk 252 (364)
++....+.+.+.++|..+|+.-..|. + ..........++.+|.|.+++.|..|++.+.|....|+ .|+.||
T Consensus 170 v~vk~~~~~~~~~~l~~~f~~~g~i~s~~v~~~~~g~~~~~gfv~f~~~e~a~~av~~l~~~~~~~~~~~V~~aqk 245 (369)
T KOG0123|consen 170 VYVKNLEEDSTDEELKDLFSAYGSITSVAVMRDSIGKSKGFGFVNFENPEDAKKAVETLNGKIFGDKELYVGRAQK 245 (369)
T ss_pred hheeccccccchHHHHHhhcccCcceEEEEeecCCCCCCCccceeecChhHHHHHHHhccCCcCCccceeeccccc
Confidence 55666778888889999988766553 1 12222112578999999999999999999999998765 677777
No 194
>KOG0113 consensus U1 small nuclear ribonucleoprotein (RRM superfamily) [RNA processing and modification]
Probab=30.14 E-value=55 Score=32.69 Aligned_cols=64 Identities=17% Similarity=0.212 Sum_probs=50.0
Q ss_pred HHhhhcCCCCCCCCHHHhcccCCCCcee---eeccccccCCC-ceeEEEEeCCHHHHHHHHHhhcCCcc
Q 017922 179 RARLFLHRIPTKVPSEELHGVIPGDFTI---EAKAVKRIRGD-NYAAFAIFSSPQEANQAFENVKGNQS 243 (364)
Q Consensus 179 ~~~l~~~~iP~~l~~eel~~~~~~~~~i---~~~~~~~~~g~-~~~~~~~f~s~~~~~~af~~l~g~~~ 243 (364)
...|++.+|+-+.++..|...|...-.| .++..+. .|. .+-|+|+|...-+...||+...|..-
T Consensus 101 y~TLFv~RLnydT~EskLrreF~~YG~IkrirlV~d~v-TgkskGYAFIeye~erdm~~AYK~adG~~I 168 (335)
T KOG0113|consen 101 YKTLFVARLNYDTSESKLRREFEKYGPIKRIRLVRDKV-TGKSKGYAFIEYEHERDMKAAYKDADGIKI 168 (335)
T ss_pred cceeeeeeccccccHHHHHHHHHhcCcceeEEEeeecc-cCCccceEEEEeccHHHHHHHHHhccCcee
Confidence 3469999999999999999888765555 3444433 333 77999999999999999998887653
No 195
>PF08776 VASP_tetra: VASP tetramerisation domain; InterPro: IPR014885 Vasodilator-stimulated phosphoprotein (VASP) is an actin cytoskeletal regulatory protein. This region corresponds to the tetramerisation domain which forms a right handed alpha helical coiled coil structure []. ; PDB: 1USE_A 1USD_A.
Probab=29.69 E-value=91 Score=21.93 Aligned_cols=22 Identities=32% Similarity=0.646 Sum_probs=12.9
Q ss_pred HHHHHHHHhhhccccchhhhhhhHHHHHHHHHHHh
Q 017922 324 VIERLKRELREKDFQISMQDKNISDLKKKVAEMKD 358 (364)
Q Consensus 324 ~ie~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 358 (364)
+.|++||+ |+.+..+.+++||+
T Consensus 4 dle~~KqE-------------IL~EvrkEl~K~K~ 25 (40)
T PF08776_consen 4 DLERLKQE-------------ILEEVRKELQKVKE 25 (40)
T ss_dssp HHHHHHHH-------------HHHHHHHHHHHHHH
T ss_pred hHHHHHHH-------------HHHHHHHHHHHHHH
Confidence 56777776 34455555555554
No 196
>KOG4660 consensus Protein Mei2, essential for commitment to meiosis, and related proteins [Cell cycle control, cell division, chromosome partitioning]
Probab=28.87 E-value=31 Score=36.84 Aligned_cols=61 Identities=15% Similarity=0.278 Sum_probs=47.4
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceeeeccccccCCCceeEEEEeCCHHHHHHHHHhhcCCcc
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIEAKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQS 243 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~~ 243 (364)
.|.+-.+|+.++.++|.++|...- ||+..+.-....+.+.|.|=+.-.|..|++.|.+...
T Consensus 77 ~L~v~nl~~~Vsn~~L~~~f~~yG--eir~ir~t~~~~~~~~v~FyDvR~A~~Alk~l~~~~~ 137 (549)
T KOG4660|consen 77 TLVVFNLPRSVSNDTLLRIFGAYG--EIREIRETPNKRGIVFVEFYDVRDAERALKALNRREI 137 (549)
T ss_pred eEEEEecCCcCCHHHHHHHHHhhc--chhhhhcccccCceEEEEEeehHhHHHHHHHHHHHHh
Confidence 388889999999999999988633 4443332233457999999999999999999987653
No 197
>KOG0153 consensus Predicted RNA-binding protein (RRM superfamily) [General function prediction only]
Probab=28.64 E-value=45 Score=33.84 Aligned_cols=59 Identities=17% Similarity=0.233 Sum_probs=43.8
Q ss_pred HHhhhcCCCCCCCCHHHhcccCCCCceeeeccccccCCCceeEEEEeCCHHHHHHHHHhhcC
Q 017922 179 RARLFLHRIPTKVPSEELHGVIPGDFTIEAKAVKRIRGDNYAAFAIFSSPQEANQAFENVKG 240 (364)
Q Consensus 179 ~~~l~~~~iP~~l~~eel~~~~~~~~~i~~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g 240 (364)
...|++.++-..++..+|.+.|-..--|+-.-+..++| ||.|.|.|...|++|-+.+-.
T Consensus 228 I~tLyIg~l~d~v~e~dIrdhFyqyGeirsi~~~~~~~---CAFv~ftTR~aAE~Aae~~~n 286 (377)
T KOG0153|consen 228 IKTLYIGGLNDEVLEQDIRDHFYQYGEIRSIRILPRKG---CAFVTFTTREAAEKAAEKSFN 286 (377)
T ss_pred eeEEEecccccchhHHHHHHHHhhcCCeeeEEeecccc---cceeeehhhHHHHHHHHhhcc
Confidence 44689999988999999998886544444222233233 999999999999999887654
No 198
>PRK00736 hypothetical protein; Provisional
Probab=28.42 E-value=59 Score=25.08 Aligned_cols=34 Identities=24% Similarity=0.341 Sum_probs=21.9
Q ss_pred HHHHHHHHHhhhccccchhhhhhhHHHHHHHHHH
Q 017922 323 KVIERLKRELREKDFQISMQDKNISDLKKKVAEM 356 (364)
Q Consensus 323 k~ie~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 356 (364)
.-||.||+.+.+-.-+|..+.+-+.-|..++.++
T Consensus 19 ~tie~Ln~~v~~Qq~~i~~L~~ql~~L~~rl~~~ 52 (68)
T PRK00736 19 KTIEELSDQLAEQWKTVEQMRKKLDALTERFLSL 52 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3588888887766666666655555555555554
No 199
>PRK00295 hypothetical protein; Provisional
Probab=27.95 E-value=61 Score=24.99 Aligned_cols=34 Identities=26% Similarity=0.268 Sum_probs=24.5
Q ss_pred HHHHHHHHhhhccccchhhhhhhHHHHHHHHHHH
Q 017922 324 VIERLKRELREKDFQISMQDKNISDLKKKVAEMK 357 (364)
Q Consensus 324 ~ie~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 357 (364)
-||.||+.+.+-.-+|..|.+-+..|..++.++.
T Consensus 20 tie~Ln~~v~~Qq~~I~~L~~ql~~L~~rl~~~~ 53 (68)
T PRK00295 20 TIQALNDVLVEQQRVIERLQLQMAALIKRQEEMV 53 (68)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 4788888877766677777777777777666654
No 200
>PF04420 CHD5: CHD5-like protein; InterPro: IPR007514 Members of this family are probably coiled-coil proteins that are similar to the CHD5 (Congenital heart disease 5) protein. The exact molecular function of these eukaryotic proteins is unknown.; PDB: 3SJA_H 3SJC_D 3SJB_D 3ZS8_D 3VLC_E.
Probab=27.69 E-value=95 Score=27.76 Aligned_cols=18 Identities=61% Similarity=0.639 Sum_probs=9.9
Q ss_pred HHHHHHHHHHhhhccccchhhh
Q 017922 322 LKVIERLKRELREKDFQISMQD 343 (364)
Q Consensus 322 ~k~ie~~~~~~~~~~~~~~~~~ 343 (364)
.+||.+|++|++. ||+||
T Consensus 46 ~~Ei~~l~~E~~~----iS~qD 63 (161)
T PF04420_consen 46 RKEILQLKRELNA----ISAQD 63 (161)
T ss_dssp HHHHHHHHHHHTT----S-TTT
T ss_pred HHHHHHHHHHHHc----CCcHH
Confidence 3566666666543 56555
No 201
>PF09341 Pcc1: Transcription factor Pcc1; InterPro: IPR015419 Pcc1 is a proposed transcription factor involved in the expression of genes regulated by alpha-factor and galactose; component of the EKC/KEOPS protein complex with Kae1, Gon7, Bud32, and Cgi121; related to human cancer-testis antigens [].; PDB: 2BNR_C 2P5W_C 3KLA_C 2F54_C 2P5E_C 2F53_C 3ENO_E 3ENC_B.
Probab=27.33 E-value=1.6e+02 Score=22.64 Aligned_cols=38 Identities=13% Similarity=0.209 Sum_probs=29.5
Q ss_pred eeEEEEeCCHHHHHHHHHhhcCCccCCCCCCcceEEEEe
Q 017922 219 YAAFAIFSSPQEANQAFENVKGNQSKDSYGRPQKLVEFQ 257 (364)
Q Consensus 219 ~~~~~~f~s~~~~~~af~~l~g~~~~d~~g~~qk~v~~~ 257 (364)
.+..+.|.|+++|.-+++.|.-. ...+.++-.+.+.+.
T Consensus 3 ~~l~i~f~s~~~A~ii~~sL~~d-~e~~~~~~~~~~~~~ 40 (76)
T PF09341_consen 3 FTLEIPFESEEKAEIIYRSLKPD-KELKPSRVKRELSVD 40 (76)
T ss_dssp EEEEEE-SSHHHHHHHHHHHHHH-HH-SS-SSEEEEEEE
T ss_pred EEEEEEeCCHHHHHHHHHHhCCC-CCCCCCcEEEEEEEe
Confidence 46789999999999999999988 666667777877765
No 202
>PRK04406 hypothetical protein; Provisional
Probab=27.09 E-value=62 Score=25.53 Aligned_cols=49 Identities=18% Similarity=0.156 Sum_probs=30.3
Q ss_pred hhhhHHhhhhccccchhhhHHHHHHHHHHhhhccccchhhhhhhHHHHHHHHHHH
Q 017922 303 WINEEEKIADTNQCKCEDHLKVIERLKRELREKDFQISMQDKNISDLKKKVAEMK 357 (364)
Q Consensus 303 ~~~~~~~~~~~~~~~~~~h~k~ie~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 357 (364)
.-+.+..+.-.+|. .-||.||+.+.+-.-+|..+.+-+..|..++.++.
T Consensus 11 ~Ri~~LE~~lAfQE------~tIe~LN~~v~~Qq~~I~~L~~ql~~L~~rl~~~~ 59 (75)
T PRK04406 11 ERINDLECQLAFQE------QTIEELNDALSQQQLLITKMQDQMKYVVGKVKNMD 59 (75)
T ss_pred HHHHHHHHHHHHHH------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 33444444444442 24888888877766677666666666666666543
No 203
>KOG0109 consensus RNA-binding protein LARK, contains RRM and retroviral-type Zn-finger domains [RNA processing and modification; General function prediction only]
Probab=26.50 E-value=40 Score=33.59 Aligned_cols=57 Identities=16% Similarity=0.228 Sum_probs=42.7
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCceeeeccccccCCCceeEEEEeCCHHHHHHHHHhhcCCc
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTIEAKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQ 242 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i~~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~ 242 (364)
+|+++.+|....+.||..||....++..=..= .+|++++++ +.+.+..|..||.|..
T Consensus 4 KLFIGNLp~~~~~~elr~lFe~ygkVlECDIv---KNYgFVHiE--dktaaedairNLhgYt 60 (346)
T KOG0109|consen 4 KLFIGNLPREATEQELRSLFEQYGKVLECDIV---KNYGFVHIE--DKTAAEDAIRNLHGYT 60 (346)
T ss_pred chhccCCCcccchHHHHHHHHhhCceEeeeee---cccceEEee--cccccHHHHhhcccce
Confidence 68899999999999999999875554321111 246777775 6667889999998864
No 204
>PHA03036 DNA polymerase; Provisional
Probab=26.03 E-value=3.5e+02 Score=31.44 Aligned_cols=96 Identities=17% Similarity=0.087 Sum_probs=50.7
Q ss_pred CCcEEEEEEeccCCC----CCcccEEEEE--EEEcCCcEEEEEEEcCCCcccc--cccccCCC---Ch-hhhcCCC----
Q 017922 3 SNIMYAVDCEMVLCE----DGSEGLVRLC--VVDRNLKVTIDELVKPEKAVAD--YRSEITGL---TA-DDLVGVT---- 66 (364)
Q Consensus 3 ~~~~ValD~ETTGl~----~g~~~Ii~V~--vVd~~G~vi~d~lVkP~~~I~d--~~t~itGI---T~-e~L~~ap---- 66 (364)
|..|+.||+|+-... +..+-|..|+ .++..|...-=+|++.+-.... ....+-|. .+ .++....
T Consensus 159 ~~~~lsfDIEC~~~g~FPs~~~~pvshIs~~~~~~~~~~~~~~l~n~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 238 (1004)
T PHA03036 159 PRSYLFLDIECHFDKKFPSVFINPVSHISCCYIDLSGKEKRFTLINEDMLSEDEIEEAVKRGYYEIESLLDMDYSKELIL 238 (1004)
T ss_pred cceeEEEEEEeccCCCCCCcccCcceEEEEEEEecCCCeeEEEEeccccccccccccceeeeeeccccccccCCceeeec
Confidence 457999999998421 1224566666 5676776554567776432211 11222222 11 1112221
Q ss_pred CCHHHHHHHHHHhhc--CCCEEEEechh-hHHHHHc
Q 017922 67 CSLAEIQKRMKKLLS--NGTILVGHSLN-NDLEVLK 99 (364)
Q Consensus 67 ~~~~eV~~el~~fl~--~~~iLVGHn~~-fDl~fL~ 99 (364)
++-.+++ .+.+++. .-.+++|+|.+ ||+.-|.
T Consensus 239 ~sE~~ml-~~~~~i~~~d~D~i~~yNg~nFD~~Yi~ 273 (1004)
T PHA03036 239 CSEIVLL-RIAKKLLELEFDYVVTFNGHNFDLRYIS 273 (1004)
T ss_pred CCHHHHH-HHHHHHHhcCCCEEEeccCCCcchHHHH
Confidence 1334444 4444442 34799999974 8998764
No 205
>PF11932 DUF3450: Protein of unknown function (DUF3450); InterPro: IPR016866 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. However, they are found in an operon along with components of a TonB transport system (typified by Vibrio cholerae TonB2 [], and are predicted to be localized to the periplasmic space. Caution: the low-complexity nature of these sequences produces spurious BLAST hits to chromosome segregation ATPases (which are much longer in length and contain canonical Walker motifs). Accordingly, some members are misidentified as such.
Probab=26.00 E-value=84 Score=29.86 Aligned_cols=50 Identities=14% Similarity=0.243 Sum_probs=34.8
Q ss_pred hhccccchhhhHHHHHHHHHHhhhccccchhhhhhhHHHHHHHHHHHhhh
Q 017922 311 ADTNQCKCEDHLKVIERLKRELREKDFQISMQDKNISDLKKKVAEMKDQK 360 (364)
Q Consensus 311 ~~~~~~~~~~h~k~ie~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 360 (364)
++.-..+......||+.|++++..-..++..+.+.++++..++++++++.
T Consensus 44 id~~~~e~~~L~~e~~~l~~e~e~L~~~~~~l~~~v~~q~~el~~L~~qi 93 (251)
T PF11932_consen 44 IDQWDDEKQELLAEYRQLEREIENLEVYNEQLERQVASQEQELASLEQQI 93 (251)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33344456677888888888877777777777777777777777766554
No 206
>PF04859 DUF641: Plant protein of unknown function (DUF641); InterPro: IPR006943 This conserved region is found in a number of plant proteins of unknown function.
Probab=25.80 E-value=63 Score=28.33 Aligned_cols=34 Identities=26% Similarity=0.421 Sum_probs=23.4
Q ss_pred HHHHHHHHHHhhhccccchhhhhhhHHHHHHHHH
Q 017922 322 LKVIERLKRELREKDFQISMQDKNISDLKKKVAE 355 (364)
Q Consensus 322 ~k~ie~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 355 (364)
=.-+++|+.+++.||-||..|..-+.++.+.-..
T Consensus 93 E~~~~kLe~e~~~Kdsei~~Lr~~L~~~~~~n~~ 126 (131)
T PF04859_consen 93 EIVVKKLEAELRAKDSEIDRLREKLDELNRANKS 126 (131)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 3456789999999999987665555555544433
No 207
>PRK02793 phi X174 lysis protein; Provisional
Probab=25.09 E-value=65 Score=25.15 Aligned_cols=34 Identities=15% Similarity=0.291 Sum_probs=24.6
Q ss_pred HHHHHHHHhhhccccchhhhhhhHHHHHHHHHHH
Q 017922 324 VIERLKRELREKDFQISMQDKNISDLKKKVAEMK 357 (364)
Q Consensus 324 ~ie~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 357 (364)
-||.||+.+.+-.-+|..+..-+..|..++.++.
T Consensus 23 tIe~Ln~~v~~Qq~~I~~L~~~l~~L~~rl~~~~ 56 (72)
T PRK02793 23 TIEELNVTVTAHEMEMAKLRDHLRLLTEKLKASQ 56 (72)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhc
Confidence 4888888887777777777777777776666654
No 208
>PF13334 DUF4094: Domain of unknown function (DUF4094)
Probab=24.43 E-value=52 Score=27.18 Aligned_cols=20 Identities=35% Similarity=0.456 Sum_probs=16.9
Q ss_pred cchhhhhhhHHHHHHHHHHH
Q 017922 338 QISMQDKNISDLKKKVAEMK 357 (364)
Q Consensus 338 ~~~~~~~~~~~~~~~~~~~~ 357 (364)
-|+.|||=|++|.|+|.--+
T Consensus 74 aIq~LdKtIS~LEMELAaAR 93 (95)
T PF13334_consen 74 AIQSLDKTISSLEMELAAAR 93 (95)
T ss_pred HHHHHHHHHHHHHHHHHHHh
Confidence 46799999999999998743
No 209
>PF05529 Bap31: B-cell receptor-associated protein 31-like ; InterPro: IPR008417 Bap31 is a polytopic integral protein of the endoplasmic reticulum membrane and a substrate of caspase-8. Bap31 is cleaved within its cytosolic domain, generating pro-apoptotic p20 Bap31 [].; GO: 0006886 intracellular protein transport, 0005783 endoplasmic reticulum, 0016021 integral to membrane
Probab=24.32 E-value=63 Score=29.38 Aligned_cols=33 Identities=33% Similarity=0.448 Sum_probs=23.5
Q ss_pred hhhHHHHHHHHHHhhhccccchhhhhhhHHHHH
Q 017922 319 EDHLKVIERLKRELREKDFQISMQDKNISDLKK 351 (364)
Q Consensus 319 ~~h~k~ie~~~~~~~~~~~~~~~~~~~~~~~~~ 351 (364)
....+||+.||++|.+++-++.++-|=+..|.+
T Consensus 157 ~~~~~ei~~lk~el~~~~~~~~~LkkQ~~~l~~ 189 (192)
T PF05529_consen 157 KKLSEEIEKLKKELEKKEKEIEALKKQSEGLQK 189 (192)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 345689999999999877776666555555544
No 210
>KOG0127 consensus Nucleolar protein fibrillarin NOP77 (RRM superfamily) [RNA processing and modification]
Probab=23.36 E-value=80 Score=34.09 Aligned_cols=59 Identities=17% Similarity=0.243 Sum_probs=45.6
Q ss_pred hhhcCCCCCCCCHHHhcccCCCCcee---eeccccccCCC-ceeEEEEeCCHHHHHHHHHhhcC
Q 017922 181 RLFLHRIPTKVPSEELHGVIPGDFTI---EAKAVKRIRGD-NYAAFAIFSSPQEANQAFENVKG 240 (364)
Q Consensus 181 ~l~~~~iP~~l~~eel~~~~~~~~~i---~~~~~~~~~g~-~~~~~~~f~s~~~~~~af~~l~g 240 (364)
.|++.+||...+.++|..+|+.--.| -++.. +|.+. .|...|+|+=-+.++.|+..+.+
T Consensus 7 TlfV~~lp~~~~~~qL~e~FS~vGPik~~~vVt~-~gs~~~RGfgfVtFam~ED~qrA~~e~~~ 69 (678)
T KOG0127|consen 7 TLFVSRLPFSSTGEQLEEFFSYVGPIKHAVVVTN-KGSSEKRGFGFVTFAMEEDVQRALAETEQ 69 (678)
T ss_pred eEEEecCCCccchhHHHHhhhcccCcceeEEecC-CCcccccCccceeeehHhHHHHHHHHhhc
Confidence 58889999999999999999864444 22222 22322 77899999999999999998877
No 211
>PF04977 DivIC: Septum formation initiator; InterPro: IPR007060 DivIC, from the spore-forming, Gram-positive bacterium Bacillus subtilis, is necessary for both vegetative and sporulation septum formation []. These proteins are mainly composed of an N-terminal coiled-coil. DivIB, DivIC and FtsL inter-depend on each other for stabilisation and localisation. The latter two form a heterodimer. DivIC is always centre cell but the other two associate with it during septation [].; GO: 0007049 cell cycle
Probab=23.04 E-value=96 Score=23.46 Aligned_cols=34 Identities=21% Similarity=0.299 Sum_probs=25.5
Q ss_pred HHHHHHHHHhhhccccchhhhhhhHHHHHHHHHH
Q 017922 323 KVIERLKRELREKDFQISMQDKNISDLKKKVAEM 356 (364)
Q Consensus 323 k~ie~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 356 (364)
..+..+++++.+-.-+|..+.+-+.+|+.+++.+
T Consensus 17 ~~~~~~~~ei~~l~~~i~~l~~e~~~L~~ei~~l 50 (80)
T PF04977_consen 17 SRYYQLNQEIAELQKEIEELKKENEELKEEIERL 50 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 3456777777777777777888888888887776
No 212
>PF07576 BRAP2: BRCA1-associated protein 2; InterPro: IPR011422 These proteins include BRCA1-associated protein 2 (BRAP2), which binds nuclear localisation signals (NLSs) in vitro and in yeast two-hybrid screening []. These proteins share a region of sequence similarity at their N terminus. They also have IPR001607 from INTERPRO at the C terminus.
Probab=21.28 E-value=1.8e+02 Score=24.62 Aligned_cols=79 Identities=18% Similarity=0.362 Sum_probs=48.8
Q ss_pred CCCCCC-CHHHhcccCCCCc--eee-eccccccCCCceeEEEEeCCHHHHHHHHHhhcCCccCCCCCCcceEEEEecCCC
Q 017922 186 RIPTKV-PSEELHGVIPGDF--TIE-AKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQSKDSYGRPQKLVEFQSNAG 261 (364)
Q Consensus 186 ~iP~~l-~~eel~~~~~~~~--~i~-~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~~~d~~g~~qk~v~~~~~~g 261 (364)
..|+.+ +...|. .|.+.. .|+ ++-.+.+....|.+++.|.|.+.|..=+.+.+|..=. +-.|.= +
T Consensus 19 ~vp~~~~~~d~l~-~f~~~~~~~i~~~riird~~pnrymVLikF~~~~~Ad~Fy~~fNGk~Fn--slEpE~--------C 87 (110)
T PF07576_consen 19 AVPPYMTPSDFLL-FFGAPFREDIEHIRIIRDGTPNRYMVLIKFRDQESADEFYEEFNGKPFN--SLEPET--------C 87 (110)
T ss_pred EeCcccccHHHHH-HhhhcccccEEEEEEeeCCCCceEEEEEEECCHHHHHHHHHHhCCCccC--CCCCce--------e
Confidence 345555 445554 333322 222 2333555678999999999999999999999887531 112222 1
Q ss_pred CeEEEEEEeeccCCCC
Q 017922 262 IIASLYVRKMVCDEPS 277 (364)
Q Consensus 262 ~~~~~~vrkm~~~~~~ 277 (364)
--+||++.....+.
T Consensus 88 --hvvfV~~Ve~~~~~ 101 (110)
T PF07576_consen 88 --HVVFVKSVEFTSSA 101 (110)
T ss_pred --EEEEEEEEEEEccc
Confidence 14588888777763
No 213
>KOG0240 consensus Kinesin (SMY1 subfamily) [Cytoskeleton]
Probab=21.25 E-value=85 Score=33.92 Aligned_cols=35 Identities=31% Similarity=0.336 Sum_probs=29.4
Q ss_pred hhHHHHHHHHHHhhhccccchhhhhhhHHHHHHHH
Q 017922 320 DHLKVIERLKRELREKDFQISMQDKNISDLKKKVA 354 (364)
Q Consensus 320 ~h~k~ie~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 354 (364)
---++|+.|-|||-++|+||.+|-+...+|+.++.
T Consensus 418 ~~~e~~~~L~qqlD~kd~~~n~~sqL~~~lk~q~~ 452 (607)
T KOG0240|consen 418 ILTERIESLYQQLDQKDDQINKQSQLMEKLKEQLL 452 (607)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34578999999999999999999888888876653
No 214
>PRK10698 phage shock protein PspA; Provisional
Probab=20.63 E-value=1.3e+02 Score=28.36 Aligned_cols=42 Identities=21% Similarity=0.353 Sum_probs=36.1
Q ss_pred hhHHHHHHHHHHhhhccccchhhhhhhHHHHHHHHHHHhhhh
Q 017922 320 DHLKVIERLKRELREKDFQISMQDKNISDLKKKVAEMKDQKS 361 (364)
Q Consensus 320 ~h~k~ie~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 361 (364)
.|...|..|+.++.+-.-.+..+-.-+..|+.|++++|.++.
T Consensus 96 ~~~~~~~~l~~~~~~~~~~~~~L~~~l~~L~~ki~eak~k~~ 137 (222)
T PRK10698 96 KLTDLIATLEHEVTLVDETLARMKKEIGELENKLSETRARQQ 137 (222)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 467889999999998888899999999999999999887764
No 215
>PF11608 Limkain-b1: Limkain b1; InterPro: IPR024582 This entry represents a conserved domain found in limkain b1, which is a novel human autoantigen, localised to a subset of ABCD3 and PXF marked peroxisomes. Limkain b1 may be a relatively common target of human autoantibodies reactive to cytoplasmic vesicle-like structures [].; PDB: 2DIU_A.
Probab=20.15 E-value=1.1e+02 Score=25.14 Aligned_cols=58 Identities=17% Similarity=0.373 Sum_probs=33.8
Q ss_pred hhcCCCCCCCCHHHhc----ccCCCCc---eeeeccccccCCCceeEEEEeCCHHHHHHHHHhhcCCccCCCCCCcc
Q 017922 182 LFLHRIPTKVPSEELH----GVIPGDF---TIEAKAVKRIRGDNYAAFAIFSSPQEANQAFENVKGNQSKDSYGRPQ 251 (364)
Q Consensus 182 l~~~~iP~~l~~eel~----~~~~~~~---~i~~~~~~~~~g~~~~~~~~f~s~~~~~~af~~l~g~~~~d~~g~~q 251 (364)
|+++.||.+.+..-+. +| .+|+ .+.+ . .++|.+.|.|.+.|+-|-.+++| +|-.|+-.
T Consensus 5 L~V~NLP~~~d~~~I~~RL~qL-sdNCGGkVl~v------~--~~tAilrF~~~~~A~RA~KRmeg---EdVfG~kI 69 (90)
T PF11608_consen 5 LYVSNLPTNKDPSSIKNRLRQL-SDNCGGKVLSV------S--GGTAILRFPNQEFAERAQKRMEG---EDVFGNKI 69 (90)
T ss_dssp EEEES--TTS-HHHHHHHHHHH-HHTTT--EEE----------TT-EEEEESSHHHHHHHHHHHTT-----SSSS--
T ss_pred EEEecCCCCCCHHHHHHHHHHH-hhccCCEEEEE------e--CCEEEEEeCCHHHHHHHHHhhcc---cccccceE
Confidence 5667778877655533 33 2223 2232 1 26999999999999999999987 57777643
Done!