Query psy2399
Match_columns 232
No_of_seqs 191 out of 1838
Neff 7.5
Searched_HMMs 46136
Date Sat Aug 17 00:00:50 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy2399.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/2399hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0143 MetG Methionyl-tRNA sy 100.0 3E-61 6.6E-66 451.3 19.7 211 10-229 3-215 (558)
2 PF09334 tRNA-synt_1g: tRNA sy 100.0 2.7E-58 5.9E-63 419.8 16.7 199 14-220 1-199 (391)
3 PLN02610 probable methionyl-tR 100.0 3.4E-57 7.5E-62 441.6 21.6 211 9-228 14-227 (801)
4 PRK00133 metG methionyl-tRNA s 100.0 1.9E-54 4.2E-59 418.3 20.8 210 12-229 2-211 (673)
5 PRK12268 methionyl-tRNA synthe 100.0 1.8E-52 3.9E-57 397.3 20.4 209 11-228 2-212 (556)
6 TIGR00398 metG methionyl-tRNA 100.0 8.9E-52 1.9E-56 390.5 20.3 200 14-222 1-200 (530)
7 PLN02224 methionine-tRNA ligas 100.0 6.7E-45 1.5E-49 346.7 20.3 189 4-229 61-251 (616)
8 PRK12267 methionyl-tRNA synthe 100.0 5.1E-43 1.1E-47 337.8 19.6 181 12-229 4-186 (648)
9 cd00817 ValRS_core catalytic c 100.0 2.2E-42 4.7E-47 314.8 16.8 176 12-229 1-196 (382)
10 PRK11893 methionyl-tRNA synthe 100.0 6.7E-41 1.5E-45 314.9 19.1 180 12-229 1-184 (511)
11 KOG0436|consensus 100.0 4.9E-40 1.1E-44 292.5 16.3 193 9-231 36-229 (578)
12 PLN02563 aminoacyl-tRNA ligase 100.0 6.4E-40 1.4E-44 324.9 18.1 176 8-220 106-284 (963)
13 TIGR00396 leuS_bact leucyl-tRN 100.0 9.5E-40 2.1E-44 321.8 18.4 176 9-220 26-203 (842)
14 cd00814 MetRS_core catalytic c 100.0 1.9E-39 4E-44 289.1 17.5 156 13-222 1-156 (319)
15 KOG1247|consensus 100.0 5.1E-40 1.1E-44 291.9 9.6 214 8-229 10-227 (567)
16 PRK13208 valS valyl-tRNA synth 100.0 5.2E-39 1.1E-43 316.2 17.1 140 10-155 36-190 (800)
17 PRK00390 leuS leucyl-tRNA synt 100.0 1E-38 2.2E-43 313.6 17.6 172 12-220 32-205 (805)
18 TIGR00422 valS valyl-tRNA synt 100.0 3.8E-38 8.2E-43 312.2 17.3 211 10-229 31-383 (861)
19 COG0495 LeuS Leucyl-tRNA synth 100.0 2.4E-37 5.2E-42 299.1 17.2 181 12-229 34-216 (814)
20 PRK05729 valS valyl-tRNA synth 100.0 5.2E-36 1.1E-40 297.2 18.5 210 11-229 35-385 (874)
21 cd00812 LeuRS_core catalytic c 100.0 1.2E-35 2.6E-40 264.1 15.0 150 13-224 1-152 (314)
22 cd00818 IleRS_core catalytic c 100.0 2.2E-35 4.7E-40 264.9 15.5 157 12-229 1-176 (338)
23 KOG0435|consensus 100.0 2.4E-35 5.3E-40 274.2 7.7 178 7-221 53-232 (876)
24 cd00668 Ile_Leu_Val_MetRS_core 100.0 5.1E-33 1.1E-37 246.9 15.9 150 13-229 1-165 (312)
25 PLN02943 aminoacyl-tRNA ligase 100.0 8E-32 1.7E-36 268.7 17.9 141 10-156 86-244 (958)
26 PRK05743 ileS isoleucyl-tRNA s 100.0 4.3E-32 9.2E-37 269.8 14.2 142 8-155 45-201 (912)
27 TIGR00392 ileS isoleucyl-tRNA 100.0 2E-31 4.4E-36 264.3 13.6 143 8-156 32-193 (861)
28 PRK06039 ileS isoleucyl-tRNA s 100.0 3E-31 6.5E-36 265.4 14.2 141 9-155 38-197 (975)
29 PRK13804 ileS isoleucyl-tRNA s 100.0 4.3E-31 9.3E-36 263.5 14.9 142 8-155 50-209 (961)
30 PF00133 tRNA-synt_1: tRNA syn 100.0 6.3E-31 1.4E-35 251.8 13.2 144 7-156 18-180 (601)
31 PLN02882 aminoacyl-tRNA ligase 100.0 2E-30 4.3E-35 261.9 14.7 141 8-154 34-193 (1159)
32 PLN02843 isoleucyl-tRNA synthe 100.0 2.2E-30 4.8E-35 258.6 14.4 140 11-156 31-186 (974)
33 PTZ00427 isoleucine-tRNA ligas 100.0 2E-30 4.3E-35 261.7 13.7 141 9-155 99-258 (1205)
34 PLN02381 valyl-tRNA synthetase 100.0 2.3E-30 4.9E-35 260.0 13.9 141 9-155 125-284 (1066)
35 TIGR00395 leuS_arch leucyl-tRN 100.0 2.8E-30 6.1E-35 257.4 13.1 140 10-155 23-188 (938)
36 PTZ00419 valyl-tRNA synthetase 100.0 7.1E-30 1.5E-34 256.2 15.0 142 8-155 56-216 (995)
37 PRK14900 valS valyl-tRNA synth 100.0 7E-30 1.5E-34 256.6 13.6 142 9-156 45-205 (1052)
38 COG0525 ValS Valyl-tRNA synthe 100.0 1.3E-28 2.8E-33 238.4 13.6 139 12-156 33-189 (877)
39 COG0060 IleS Isoleucyl-tRNA sy 100.0 7.6E-29 1.6E-33 242.3 11.3 143 7-155 44-204 (933)
40 PLN02959 aminoacyl-tRNA ligase 100.0 2E-28 4.3E-33 246.5 12.3 140 11-156 44-261 (1084)
41 TIGR03447 mycothiol_MshC cyste 99.9 7E-26 1.5E-30 206.4 14.9 127 10-146 35-166 (411)
42 PRK12418 cysteinyl-tRNA synthe 99.9 1.4E-25 2.9E-30 203.4 14.6 125 12-146 10-139 (384)
43 PRK00260 cysS cysteinyl-tRNA s 99.9 1.8E-25 3.9E-30 208.2 14.8 126 11-146 23-149 (463)
44 cd00671 ArgRS_core catalytic c 99.9 2.3E-25 4.9E-30 187.9 13.2 134 13-155 1-134 (212)
45 TIGR00435 cysS cysteinyl-tRNA 99.9 4.5E-25 9.7E-30 205.5 14.7 127 10-146 20-148 (465)
46 cd00674 LysRS_core_class_I cat 99.9 2.1E-25 4.5E-30 200.4 9.6 175 11-221 18-225 (353)
47 PLN02946 cysteine-tRNA ligase 99.9 1.3E-24 2.8E-29 204.5 14.8 125 12-145 81-205 (557)
48 PRK14536 cysS cysteinyl-tRNA s 99.9 4.3E-24 9.4E-29 198.8 15.7 126 12-144 22-157 (490)
49 PRK14535 cysS cysteinyl-tRNA s 99.9 1.7E-23 3.6E-28 198.9 15.5 127 12-145 247-374 (699)
50 PRK12300 leuS leucyl-tRNA synt 99.9 3.7E-24 8E-29 212.9 10.1 124 27-156 1-150 (897)
51 PTZ00399 cysteinyl-tRNA-synthe 99.9 6.9E-23 1.5E-27 197.1 14.9 127 11-146 60-188 (651)
52 PRK14534 cysS cysteinyl-tRNA s 99.9 1.2E-22 2.7E-27 188.4 15.4 127 12-145 20-156 (481)
53 cd00672 CysRS_core catalytic c 99.9 3.4E-23 7.4E-28 174.7 9.8 94 9-109 18-112 (213)
54 PRK01611 argS arginyl-tRNA syn 99.9 8.5E-23 1.9E-27 192.3 11.8 128 10-143 109-237 (507)
55 PF01406 tRNA-synt_1e: tRNA sy 99.9 1.8E-21 3.9E-26 170.2 12.3 126 12-145 7-134 (300)
56 PRK00750 lysK lysyl-tRNA synth 99.9 1.1E-22 2.3E-27 191.4 4.1 174 13-221 24-232 (510)
57 KOG0432|consensus 99.8 5.6E-21 1.2E-25 182.9 11.7 141 10-156 73-232 (995)
58 KOG0433|consensus 99.8 5.6E-20 1.2E-24 173.4 11.7 139 8-156 55-209 (937)
59 COG0215 CysS Cysteinyl-tRNA sy 99.8 1.8E-19 3.8E-24 165.1 13.1 124 13-146 24-149 (464)
60 KOG0434|consensus 99.8 1.6E-19 3.5E-24 169.3 9.6 143 8-156 34-195 (1070)
61 TIGR00467 lysS_arch lysyl-tRNA 99.8 3.5E-20 7.7E-25 173.9 4.8 173 12-220 18-222 (515)
62 cd00802 class_I_aaRS_core cata 99.7 2.3E-17 4.9E-22 130.7 8.8 77 16-97 1-77 (143)
63 KOG2007|consensus 99.7 4.1E-16 9E-21 142.4 12.8 125 13-147 57-188 (586)
64 KOG0437|consensus 99.6 1.4E-15 3E-20 144.1 9.5 141 7-153 39-252 (1080)
65 PF00750 tRNA-synt_1d: tRNA sy 99.6 1.3E-14 2.7E-19 131.3 11.3 132 7-144 15-202 (354)
66 COG0018 ArgS Arginyl-tRNA synt 99.6 1.5E-14 3.2E-19 137.6 11.7 126 9-140 114-292 (577)
67 TIGR00456 argS arginyl-tRNA sy 99.6 1.7E-14 3.7E-19 137.8 12.2 126 11-143 111-290 (566)
68 PRK12451 arginyl-tRNA syntheta 99.6 3.8E-14 8.3E-19 135.2 14.0 126 10-143 111-288 (562)
69 PF01921 tRNA-synt_1f: tRNA sy 99.5 3.4E-16 7.3E-21 140.2 -2.9 171 11-220 22-231 (360)
70 COG1384 LysS Lysyl-tRNA synthe 99.5 4.9E-14 1.1E-18 130.0 6.3 169 12-220 19-226 (521)
71 PLN02286 arginine-tRNA ligase 99.5 3.6E-13 7.8E-18 128.8 11.6 125 10-143 115-292 (576)
72 cd09287 GluRS_non_core catalyt 99.3 2.7E-12 5.9E-17 109.8 7.7 96 15-134 2-97 (240)
73 PRK04156 gltX glutamyl-tRNA sy 99.2 2.3E-11 5.1E-16 115.3 9.3 97 14-134 101-197 (567)
74 TIGR00463 gltX_arch glutamyl-t 99.2 3.2E-11 6.9E-16 114.2 8.3 96 13-134 92-187 (560)
75 cd00807 GlnRS_core catalytic c 99.1 1.4E-10 3E-15 99.1 8.1 94 15-134 2-95 (238)
76 PRK12558 glutamyl-tRNA synthet 99.1 1.6E-10 3.5E-15 107.0 8.8 94 15-134 3-96 (445)
77 PLN03233 putative glutamate-tR 99.1 1.7E-10 3.7E-15 108.3 8.0 95 14-134 11-105 (523)
78 COG0008 GlnS Glutamyl- and glu 99.1 2.3E-10 4.9E-15 106.7 7.7 94 15-134 10-104 (472)
79 PTZ00402 glutamyl-tRNA synthet 99.1 2.7E-10 5.9E-15 108.2 8.2 95 14-134 52-147 (601)
80 TIGR03838 queuosine_YadB gluta 99.1 2.4E-10 5.3E-15 99.7 7.1 93 16-134 2-95 (272)
81 PTZ00437 glutaminyl-tRNA synth 99.0 6E-10 1.3E-14 105.2 8.8 94 15-134 52-145 (574)
82 PRK05710 glutamyl-Q tRNA(Asp) 99.0 4.6E-10 1E-14 99.1 7.5 94 15-134 6-100 (299)
83 PF00749 tRNA-synt_1c: tRNA sy 99.0 5.1E-10 1.1E-14 99.8 7.4 94 15-134 2-96 (314)
84 PLN02907 glutamate-tRNA ligase 99.0 5.3E-10 1.2E-14 109.2 8.0 96 13-134 212-307 (722)
85 TIGR00440 glnS glutaminyl-tRNA 99.0 1.3E-09 2.9E-14 102.5 7.9 94 15-134 1-95 (522)
86 cd00418 GlxRS_core catalytic c 99.0 1.2E-09 2.6E-14 93.1 6.9 90 15-130 2-92 (230)
87 PRK05347 glutaminyl-tRNA synth 99.0 1.5E-09 3.3E-14 102.4 7.9 95 14-134 29-124 (554)
88 TIGR00464 gltX_bact glutamyl-t 98.9 1.9E-09 4.1E-14 101.0 7.7 94 15-134 2-96 (470)
89 PRK12410 glutamylglutaminyl-tR 98.9 2.8E-09 6E-14 98.5 8.3 91 18-134 3-93 (433)
90 PRK14895 gltX glutamyl-tRNA sy 98.9 4.6E-09 1E-13 98.6 9.3 94 15-134 5-99 (513)
91 PRK14703 glutaminyl-tRNA synth 98.9 2.2E-09 4.8E-14 105.1 7.2 95 14-134 31-126 (771)
92 PLN02859 glutamine-tRNA ligase 98.9 5.2E-09 1.1E-13 102.0 8.8 94 15-134 265-358 (788)
93 PRK01406 gltX glutamyl-tRNA sy 98.9 5.6E-09 1.2E-13 98.0 8.6 94 15-134 5-106 (476)
94 PLN02627 glutamyl-tRNA synthet 98.9 8.9E-09 1.9E-13 97.0 9.4 94 15-134 46-148 (535)
95 cd00808 GluRS_core catalytic c 98.9 4.7E-09 1E-13 90.1 6.8 90 15-130 2-100 (239)
96 KOG1147|consensus 98.5 3.1E-07 6.7E-12 85.5 8.6 98 14-137 200-297 (712)
97 KOG4426|consensus 98.4 3.1E-06 6.7E-11 77.4 10.9 130 11-149 187-369 (656)
98 KOG1195|consensus 98.2 7.3E-06 1.6E-10 76.1 10.1 128 10-144 108-287 (567)
99 KOG1148|consensus 97.6 0.00014 3.1E-09 68.7 7.1 95 14-134 248-342 (764)
100 KOG1149|consensus 97.6 0.00022 4.7E-09 65.4 7.8 96 15-134 34-136 (524)
101 PRK12285 tryptophanyl-tRNA syn 96.8 0.011 2.4E-07 54.0 10.3 78 10-105 63-140 (368)
102 PLN02486 aminoacyl-tRNA ligase 96.7 0.024 5.3E-07 52.1 11.7 85 9-110 69-155 (383)
103 COG0180 TrpS Tryptophanyl-tRNA 96.2 0.044 9.6E-07 48.9 10.0 91 12-119 4-98 (314)
104 PRK14714 DNA polymerase II lar 96.2 0.0071 1.5E-07 62.1 5.6 96 115-218 641-739 (1337)
105 PRK12284 tryptophanyl-tRNA syn 95.9 0.038 8.2E-07 51.4 8.5 94 15-126 4-100 (431)
106 COG1656 Uncharacterized conser 95.9 0.013 2.8E-07 47.3 4.4 122 40-180 17-142 (165)
107 TIGR00233 trpS tryptophanyl-tR 95.8 0.044 9.5E-07 49.4 8.3 90 13-119 2-94 (328)
108 PRK08560 tyrosyl-tRNA syntheta 95.7 0.061 1.3E-06 48.4 8.7 82 11-110 28-111 (329)
109 PRK06039 ileS isoleucyl-tRNA s 95.7 0.022 4.8E-07 58.3 6.5 70 114-230 361-430 (975)
110 cd00806 TrpRS_core catalytic c 95.3 0.091 2E-06 46.2 8.3 68 22-105 7-74 (280)
111 PF12773 DZR: Double zinc ribb 94.7 0.031 6.6E-07 35.9 2.7 37 158-194 1-38 (50)
112 PRK04023 DNA polymerase II lar 94.7 0.042 9.2E-07 55.4 4.8 73 122-207 610-683 (1121)
113 PF13240 zinc_ribbon_2: zinc-r 94.7 0.02 4.4E-07 31.0 1.5 21 157-177 1-22 (23)
114 PF01927 Mut7-C: Mut7-C RNAse 94.6 0.16 3.5E-06 40.3 7.1 31 41-78 12-42 (147)
115 PRK14900 valS valyl-tRNA synth 94.3 0.085 1.8E-06 54.5 6.2 69 114-229 330-400 (1052)
116 PTZ00126 tyrosyl-tRNA syntheta 94.3 0.068 1.5E-06 49.2 4.9 80 11-105 64-143 (383)
117 PLN02886 aminoacyl-tRNA ligase 94.3 0.42 9.1E-06 44.1 9.9 83 16-117 49-134 (389)
118 cd00395 Tyr_Trp_RS_core cataly 94.2 0.18 3.9E-06 44.2 7.2 71 22-102 7-80 (273)
119 PF00579 tRNA-synt_1b: tRNA sy 94.1 0.092 2E-06 46.2 5.3 79 11-105 3-83 (292)
120 PRK05912 tyrosyl-tRNA syntheta 94.1 0.19 4.1E-06 46.6 7.4 77 12-104 32-115 (408)
121 TIGR00392 ileS isoleucyl-tRNA 94.0 0.11 2.4E-06 52.6 6.1 41 186-229 407-447 (861)
122 PRK00927 tryptophanyl-tRNA syn 93.6 0.41 8.9E-06 43.2 8.5 66 22-105 9-74 (333)
123 PF13248 zf-ribbon_3: zinc-rib 93.6 0.043 9.4E-07 30.5 1.4 20 157-176 4-24 (26)
124 PRK13354 tyrosyl-tRNA syntheta 93.6 0.24 5.2E-06 46.0 7.0 82 10-103 30-114 (410)
125 PRK12556 tryptophanyl-tRNA syn 93.1 0.65 1.4E-05 41.9 8.9 86 22-124 11-99 (332)
126 PLN02882 aminoacyl-tRNA ligase 92.9 0.097 2.1E-06 54.6 3.8 55 173-230 395-451 (1159)
127 PRK14890 putative Zn-ribbon RN 92.8 0.061 1.3E-06 36.0 1.4 49 139-194 7-57 (59)
128 PRK12283 tryptophanyl-tRNA syn 92.8 0.51 1.1E-05 43.6 8.0 82 16-116 5-90 (398)
129 PTZ00348 tyrosyl-tRNA syntheta 92.8 0.55 1.2E-05 46.3 8.6 85 12-111 31-117 (682)
130 PTZ00419 valyl-tRNA synthetase 92.3 0.27 5.9E-06 50.6 6.0 41 186-229 387-429 (995)
131 cd00805 TyrRS_core catalytic c 92.2 0.16 3.4E-06 44.4 3.7 71 22-102 8-81 (269)
132 PRK12282 tryptophanyl-tRNA syn 91.4 1.2 2.5E-05 40.3 8.4 67 22-105 10-76 (333)
133 PTZ00427 isoleucine-tRNA ligas 91.4 0.45 9.8E-06 49.9 6.5 69 115-230 487-555 (1205)
134 PRK05743 ileS isoleucyl-tRNA s 91.2 0.41 8.9E-06 48.9 5.8 34 186-222 396-431 (912)
135 PRK03824 hypA hydrogenase nick 91.0 0.98 2.1E-05 35.4 6.6 62 84-147 6-78 (135)
136 PRK14714 DNA polymerase II lar 90.8 0.16 3.4E-06 52.6 2.5 37 156-197 668-704 (1337)
137 PRK14559 putative protein seri 90.7 0.18 3.8E-06 49.5 2.6 37 139-179 15-52 (645)
138 TIGR00395 leuS_arch leucyl-tRN 90.7 1.2 2.7E-05 45.6 8.8 43 186-229 428-471 (938)
139 PRK00398 rpoP DNA-directed RNA 90.0 0.22 4.7E-06 31.5 1.8 33 171-203 6-39 (46)
140 PF09862 DUF2089: Protein of u 89.9 0.29 6.3E-06 37.3 2.6 50 171-224 1-50 (113)
141 PRK14559 putative protein seri 89.9 0.27 5.8E-06 48.2 3.1 50 141-196 3-52 (645)
142 PF12773 DZR: Double zinc ribb 89.4 0.27 5.8E-06 31.4 1.9 37 143-181 2-42 (50)
143 PF00133 tRNA-synt_1: tRNA syn 89.3 1.2 2.5E-05 43.5 7.0 69 114-229 333-401 (601)
144 PF10571 UPF0547: Uncharacteri 88.5 0.4 8.7E-06 26.7 1.9 21 157-177 2-23 (26)
145 PF08271 TF_Zn_Ribbon: TFIIB z 88.4 0.24 5.2E-06 30.8 1.1 25 157-181 2-32 (43)
146 TIGR00234 tyrS tyrosyl-tRNA sy 88.4 1.2 2.5E-05 41.0 6.0 40 13-62 30-70 (377)
147 PF01783 Ribosomal_L32p: Ribos 87.9 0.49 1.1E-05 31.3 2.4 27 156-183 27-53 (56)
148 PF05191 ADK_lid: Adenylate ki 87.4 0.19 4.1E-06 30.3 0.2 29 170-198 3-34 (36)
149 smart00659 RPOLCX RNA polymera 87.2 0.59 1.3E-05 29.5 2.3 33 170-202 4-36 (44)
150 COG2888 Predicted Zn-ribbon RN 87.0 0.34 7.3E-06 32.5 1.2 48 139-193 9-58 (61)
151 COG0060 IleS Isoleucyl-tRNA sy 86.9 1.3 2.7E-05 45.3 5.6 41 185-228 400-440 (933)
152 KOG2713|consensus 86.9 4.8 0.0001 35.7 8.5 88 15-117 15-105 (347)
153 PRK05978 hypothetical protein; 86.1 0.49 1.1E-05 37.7 1.9 14 153-166 31-44 (148)
154 PLN02843 isoleucyl-tRNA synthe 85.9 1.5 3.3E-05 45.2 5.8 42 185-229 412-453 (974)
155 COG0162 TyrS Tyrosyl-tRNA synt 85.7 1.2 2.5E-05 41.3 4.5 33 22-63 40-73 (401)
156 cd00350 rubredoxin_like Rubred 85.3 0.65 1.4E-05 27.2 1.7 25 170-195 3-27 (33)
157 PRK06266 transcription initiat 84.5 0.85 1.8E-05 37.5 2.7 47 171-219 120-168 (178)
158 PRK13804 ileS isoleucyl-tRNA s 84.4 1.7 3.6E-05 44.8 5.3 41 185-228 426-473 (961)
159 PF07754 DUF1610: Domain of un 84.4 0.73 1.6E-05 25.2 1.5 20 173-192 3-23 (24)
160 PRK00423 tfb transcription ini 84.0 0.61 1.3E-05 41.6 1.8 33 150-182 6-44 (310)
161 COG5349 Uncharacterized protei 83.7 0.51 1.1E-05 36.2 0.9 28 152-179 18-51 (126)
162 PF03833 PolC_DP2: DNA polymer 83.2 0.36 7.9E-06 48.2 0.0 51 138-197 654-704 (900)
163 PRK03681 hypA hydrogenase nick 82.9 7.7 0.00017 29.4 7.2 79 84-163 6-95 (114)
164 COG1996 RPC10 DNA-directed RNA 82.6 0.88 1.9E-05 29.4 1.6 34 169-202 7-41 (49)
165 TIGR00100 hypA hydrogenase nic 81.6 9 0.0002 29.1 7.2 43 84-126 6-52 (115)
166 TIGR01206 lysW lysine biosynth 81.3 0.92 2E-05 29.9 1.4 20 187-206 24-43 (54)
167 PF03604 DNA_RNApol_7kD: DNA d 81.0 1.5 3.2E-05 25.7 2.0 30 170-199 2-31 (32)
168 PRK12496 hypothetical protein; 80.7 0.93 2E-05 36.8 1.5 29 170-199 129-157 (164)
169 PRK12300 leuS leucyl-tRNA synt 80.6 4 8.7E-05 41.7 6.3 36 186-222 381-417 (897)
170 PRK00420 hypothetical protein; 80.4 1 2.2E-05 34.2 1.6 24 156-179 24-51 (112)
171 PF03833 PolC_DP2: DNA polymer 79.4 0.6 1.3E-05 46.7 0.0 36 156-196 656-691 (900)
172 PRK14529 adenylate kinase; Pro 79.2 5.5 0.00012 33.9 5.9 75 64-146 43-117 (223)
173 PF07191 zinc-ribbons_6: zinc- 79.1 0.64 1.4E-05 32.3 0.1 11 186-196 31-41 (70)
174 KOG2145|consensus 79.0 2.4 5.1E-05 37.7 3.6 33 9-41 81-113 (397)
175 PLN02381 valyl-tRNA synthetase 78.9 3.9 8.4E-05 42.6 5.7 61 114-220 426-486 (1066)
176 COG1592 Rubrerythrin [Energy p 78.9 3.3 7.2E-05 33.7 4.2 43 112-164 116-158 (166)
177 smart00661 RPOL9 RNA polymeras 77.4 1.7 3.8E-05 27.7 1.8 25 170-194 2-29 (52)
178 PF15616 TerY-C: TerY-C metal 77.3 1.5 3.2E-05 34.3 1.6 43 156-200 78-120 (131)
179 PRK12380 hydrogenase nickel in 76.8 16 0.00034 27.6 7.2 43 84-126 6-52 (113)
180 PF07295 DUF1451: Protein of u 76.3 13 0.00029 29.5 6.9 27 170-198 114-143 (146)
181 COG0525 ValS Valyl-tRNA synthe 75.1 5.8 0.00012 40.3 5.5 62 114-222 313-374 (877)
182 TIGR01031 rpmF_bact ribosomal 74.0 1.8 3.9E-05 28.6 1.2 21 157-177 28-48 (55)
183 PF11023 DUF2614: Protein of u 73.9 2.1 4.6E-05 32.4 1.6 31 149-179 63-96 (114)
184 PRK14892 putative transcriptio 73.9 3.7 7.9E-05 30.5 2.9 31 186-219 43-73 (99)
185 PRK00564 hypA hydrogenase nick 73.5 23 0.0005 26.9 7.4 43 84-126 6-52 (117)
186 KOG4718|consensus 73.4 0.96 2.1E-05 38.1 -0.3 79 114-193 135-224 (235)
187 PF07282 OrfB_Zn_ribbon: Putat 73.0 6.5 0.00014 26.6 3.8 15 152-166 25-39 (69)
188 COG0375 HybF Zn finger protein 72.9 16 0.00034 27.9 6.2 79 83-163 5-94 (115)
189 PRK04023 DNA polymerase II lar 72.7 3 6.5E-05 42.7 2.9 37 156-197 627-663 (1121)
190 PRK13130 H/ACA RNA-protein com 72.5 2.6 5.5E-05 28.0 1.6 21 157-178 7-27 (56)
191 cd00729 rubredoxin_SM Rubredox 71.9 2.7 5.9E-05 24.8 1.5 26 170-196 4-29 (34)
192 PRK00464 nrdR transcriptional 71.5 3.6 7.7E-05 33.1 2.5 26 157-182 2-42 (154)
193 PRK12286 rpmF 50S ribosomal pr 71.4 2.5 5.5E-05 28.1 1.4 21 157-177 29-49 (57)
194 COG5270 PUA domain (predicted 70.0 5 0.00011 33.2 3.1 21 128-148 3-23 (202)
195 smart00834 CxxC_CXXC_SSSS Puta 69.6 2 4.4E-05 25.8 0.6 26 170-195 7-36 (41)
196 COG1439 Predicted nucleic acid 69.5 3.3 7.2E-05 34.0 2.0 29 169-200 140-168 (177)
197 COG1198 PriA Primosomal protei 68.6 3.4 7.4E-05 41.2 2.3 45 139-194 435-484 (730)
198 PRK12496 hypothetical protein; 67.9 3.5 7.5E-05 33.4 1.8 22 157-178 129-153 (164)
199 PRK06393 rpoE DNA-directed RNA 67.5 6.6 0.00014 26.8 2.8 42 171-219 8-49 (64)
200 PRK08329 threonine synthase; V 67.3 4.6 0.0001 36.5 2.7 26 170-198 3-28 (347)
201 PRK00564 hypA hydrogenase nick 66.4 3.9 8.4E-05 31.2 1.7 23 171-193 74-96 (117)
202 PRK14890 putative Zn-ribbon RN 66.4 5.5 0.00012 26.7 2.2 31 169-199 8-39 (59)
203 PF05502 Dynactin_p62: Dynacti 66.4 6.9 0.00015 37.2 3.7 39 135-180 22-64 (483)
204 TIGR00595 priA primosomal prot 66.3 11 0.00024 36.0 5.1 20 157-176 242-261 (505)
205 COG4260 Membrane protease subu 66.3 8.3 0.00018 34.1 3.9 86 35-125 136-233 (345)
206 PRK00420 hypothetical protein; 65.4 4.7 0.0001 30.6 2.0 24 141-164 25-49 (112)
207 PRK05580 primosome assembly pr 65.3 4.5 9.7E-05 40.1 2.3 20 157-176 410-429 (679)
208 TIGR00373 conserved hypothetic 65.0 3.8 8.2E-05 32.9 1.5 26 171-196 112-139 (158)
209 PHA00626 hypothetical protein 63.8 4.6 0.0001 26.8 1.4 8 157-164 2-9 (59)
210 COG4640 Predicted membrane pro 63.8 4 8.7E-05 37.6 1.5 25 157-181 3-28 (465)
211 PRK12775 putative trifunctiona 63.0 4.2 9.2E-05 42.1 1.8 46 157-202 798-855 (1006)
212 PRK03824 hypA hydrogenase nick 62.8 8 0.00017 30.2 2.9 9 186-194 108-116 (135)
213 COG1933 Archaeal DNA polymeras 62.6 1.6 3.4E-05 37.5 -1.2 75 121-197 121-195 (253)
214 PF09889 DUF2116: Uncharacteri 62.4 1.4 3E-05 29.6 -1.2 12 155-166 3-14 (59)
215 cd01675 RNR_III Class III ribo 62.4 11 0.00024 36.5 4.3 22 170-194 520-541 (555)
216 COG1645 Uncharacterized Zn-fin 62.3 5.4 0.00012 31.1 1.8 22 141-162 30-51 (131)
217 PF09538 FYDLN_acid: Protein o 62.2 5.3 0.00011 30.1 1.7 28 154-181 8-39 (108)
218 PRK11032 hypothetical protein; 61.5 10 0.00022 30.7 3.3 28 169-198 125-155 (160)
219 PLN02959 aminoacyl-tRNA ligase 60.8 17 0.00037 38.1 5.7 34 186-219 519-552 (1084)
220 cd00730 rubredoxin Rubredoxin; 60.6 7.3 0.00016 25.2 1.9 25 170-194 3-43 (50)
221 PF01155 HypA: Hydrogenase exp 59.7 23 0.00051 26.6 4.9 44 83-126 5-52 (113)
222 TIGR02605 CxxC_CxxC_SSSS putat 59.4 4.7 0.0001 25.7 0.9 26 169-194 6-35 (52)
223 PRK14873 primosome assembly pr 57.9 16 0.00035 36.2 4.7 46 137-194 381-431 (665)
224 TIGR00373 conserved hypothetic 57.7 3.8 8.3E-05 32.9 0.3 37 133-179 103-139 (158)
225 TIGR00375 conserved hypothetic 57.6 7.4 0.00016 35.8 2.2 27 169-196 241-269 (374)
226 PF06750 DiS_P_DiS: Bacterial 56.2 10 0.00022 27.7 2.3 27 169-195 34-68 (92)
227 COG1645 Uncharacterized Zn-fin 56.0 5.2 0.00011 31.2 0.8 11 155-165 28-38 (131)
228 PRK00762 hypA hydrogenase nick 55.6 78 0.0017 24.2 7.3 43 84-126 6-52 (124)
229 PRK02935 hypothetical protein; 55.5 9.6 0.00021 28.6 2.1 32 149-180 64-98 (110)
230 PF14206 Cys_rich_CPCC: Cystei 55.4 2.5 5.4E-05 30.1 -1.0 61 157-219 3-69 (78)
231 cd06259 YdcF-like YdcF-like. Y 55.3 93 0.002 23.8 11.9 102 14-126 3-118 (150)
232 PF07191 zinc-ribbons_6: zinc- 54.8 2.2 4.7E-05 29.7 -1.3 38 142-179 4-41 (70)
233 cd03031 GRX_GRX_like Glutaredo 54.5 24 0.00051 28.0 4.4 28 89-116 19-46 (147)
234 TIGR00640 acid_CoA_mut_C methy 54.2 59 0.0013 25.1 6.5 23 36-63 17-39 (132)
235 PF14446 Prok-RING_1: Prokaryo 53.9 7.5 0.00016 25.6 1.1 25 154-178 4-31 (54)
236 PRK07591 threonine synthase; V 53.6 9.8 0.00021 35.4 2.4 27 170-198 20-46 (421)
237 COG1545 Predicted nucleic-acid 53.5 9.4 0.0002 30.0 1.9 10 171-180 32-41 (140)
238 PF02698 DUF218: DUF218 domain 53.4 65 0.0014 24.9 6.8 103 14-126 5-121 (155)
239 PF09723 Zn-ribbon_8: Zinc rib 53.4 8.8 0.00019 23.6 1.4 25 169-193 6-34 (42)
240 PRK03681 hypA hydrogenase nick 53.3 14 0.00029 28.1 2.7 10 145-154 53-62 (114)
241 smart00531 TFIIE Transcription 53.2 8.5 0.00018 30.4 1.6 16 70-85 18-33 (147)
242 TIGR02487 NrdD anaerobic ribon 51.7 22 0.00047 34.7 4.4 46 158-207 515-562 (579)
243 KOG0909|consensus 51.6 5.3 0.00012 37.3 0.2 47 170-220 196-264 (500)
244 COG0675 Transposase and inacti 51.3 7.9 0.00017 33.8 1.3 29 152-180 306-334 (364)
245 PRK06260 threonine synthase; V 51.2 11 0.00023 34.7 2.2 22 141-162 5-26 (397)
246 PRK10220 hypothetical protein; 51.1 11 0.00025 28.4 1.9 26 157-182 5-34 (111)
247 PRK00432 30S ribosomal protein 51.1 7.8 0.00017 25.0 0.9 8 156-163 21-28 (50)
248 PF04216 FdhE: Protein involve 50.9 5 0.00011 35.3 -0.1 37 141-177 174-220 (290)
249 TIGR03826 YvyF flagellar opero 50.8 15 0.00031 29.0 2.5 44 119-178 60-104 (137)
250 TIGR02098 MJ0042_CXXC MJ0042 f 50.8 8 0.00017 22.9 0.9 11 186-196 26-36 (38)
251 COG2046 MET3 ATP sulfurylase ( 50.8 22 0.00047 32.7 3.9 47 170-231 322-370 (397)
252 COG3357 Predicted transcriptio 50.4 11 0.00025 27.5 1.7 34 170-205 60-94 (97)
253 TIGR00125 cyt_tran_rel cytidyl 50.4 23 0.0005 23.1 3.2 9 25-33 9-17 (66)
254 COG0375 HybF Zn finger protein 50.3 14 0.00029 28.3 2.2 34 170-204 72-106 (115)
255 PF01155 HypA: Hydrogenase exp 50.2 9 0.00019 28.9 1.3 23 171-194 73-95 (113)
256 PF04405 ScdA_N: Domain of Unk 50.2 12 0.00025 24.8 1.7 24 66-89 29-53 (56)
257 COG1405 SUA7 Transcription ini 50.1 8.4 0.00018 34.1 1.2 27 156-182 2-34 (285)
258 COG1867 TRM1 N2,N2-dimethylgua 49.9 17 0.00036 33.4 3.1 23 140-162 241-264 (380)
259 PF05605 zf-Di19: Drought indu 49.8 3.3 7.2E-05 26.8 -1.0 37 156-193 3-39 (54)
260 PRK07111 anaerobic ribonucleos 49.7 24 0.00053 35.4 4.5 36 168-207 680-717 (735)
261 smart00531 TFIIE Transcription 49.7 5.4 0.00012 31.5 -0.0 12 186-197 124-135 (147)
262 PF08274 PhnA_Zn_Ribbon: PhnA 49.0 5.7 0.00012 22.9 0.0 10 185-194 19-28 (30)
263 TIGR03037 anthran_nbaC 3-hydro 49.0 11 0.00024 30.4 1.7 21 135-155 110-130 (159)
264 PRK08270 anaerobic ribonucleos 48.9 25 0.00054 34.8 4.4 26 167-196 625-650 (656)
265 PRK13671 hypothetical protein; 48.4 66 0.0014 28.7 6.6 103 24-137 9-141 (298)
266 PRK05580 primosome assembly pr 48.2 36 0.00078 33.8 5.4 48 137-195 379-431 (679)
267 TIGR02827 RNR_anaer_Bdell anae 47.8 28 0.00061 34.0 4.5 38 167-207 531-570 (586)
268 PRK14873 primosome assembly pr 47.6 13 0.00028 36.8 2.3 40 137-177 390-431 (665)
269 COG1867 TRM1 N2,N2-dimethylgua 46.7 2.8 6.2E-05 38.3 -2.3 49 169-218 241-289 (380)
270 COG2185 Sbm Methylmalonyl-CoA 46.4 65 0.0014 25.6 5.6 69 30-131 24-92 (143)
271 TIGR02443 conserved hypothetic 46.4 12 0.00025 25.2 1.1 15 151-165 4-19 (59)
272 PRK14704 anaerobic ribonucleos 46.2 30 0.00065 34.0 4.5 23 168-194 559-581 (618)
273 COG1326 Uncharacterized archae 46.1 11 0.00023 31.5 1.2 24 156-179 7-41 (201)
274 COG0333 RpmF Ribosomal protein 46.0 14 0.00031 24.6 1.5 21 157-177 29-49 (57)
275 PF09526 DUF2387: Probable met 46.0 12 0.00025 26.1 1.2 14 152-165 4-18 (71)
276 TIGR01384 TFS_arch transcripti 45.6 17 0.00036 26.7 2.1 9 186-194 17-25 (104)
277 smart00504 Ubox Modified RING 45.5 22 0.00048 23.1 2.5 56 157-219 3-63 (63)
278 TIGR00354 polC DNA polymerase, 44.6 13 0.00028 38.1 1.7 21 157-178 627-647 (1095)
279 PF10009 DUF2252: Uncharacteri 44.6 65 0.0014 29.7 6.2 90 23-129 46-153 (385)
280 PF00301 Rubredoxin: Rubredoxi 43.4 11 0.00023 24.1 0.6 10 185-194 34-43 (47)
281 CHL00174 accD acetyl-CoA carbo 43.3 11 0.00023 33.6 0.9 23 171-193 41-65 (296)
282 TIGR03655 anti_R_Lar restricti 43.1 18 0.00038 23.3 1.7 10 157-166 3-12 (53)
283 PRK02261 methylaspartate mutas 43.1 1.6E+02 0.0034 22.9 8.0 34 12-61 4-38 (137)
284 PRK08271 anaerobic ribonucleos 43.0 37 0.0008 33.5 4.5 24 168-194 566-589 (623)
285 PF14369 zf-RING_3: zinc-finge 42.9 19 0.00041 21.3 1.6 11 139-149 2-12 (35)
286 COG1327 Predicted transcriptio 42.7 15 0.00033 29.4 1.5 27 157-183 2-43 (156)
287 COG4640 Predicted membrane pro 42.7 14 0.0003 34.1 1.5 24 170-196 3-26 (465)
288 PF04981 NMD3: NMD3 family ; 42.5 18 0.00038 30.9 2.0 37 158-194 1-44 (236)
289 PRK12380 hydrogenase nickel in 42.5 15 0.00032 27.8 1.4 18 129-146 60-77 (113)
290 PF14803 Nudix_N_2: Nudix N-te 42.4 9.8 0.00021 22.5 0.3 6 187-192 24-29 (34)
291 PHA02942 putative transposase; 42.1 13 0.00029 34.2 1.3 28 151-178 321-352 (383)
292 PRK14715 DNA polymerase II lar 42.0 16 0.00035 38.8 2.0 20 157-177 676-695 (1627)
293 TIGR01610 phage_O_Nterm phage 42.0 43 0.00094 24.2 3.8 31 114-145 60-90 (95)
294 cd07153 Fur_like Ferric uptake 41.9 57 0.0012 24.0 4.6 28 115-143 35-65 (116)
295 COG2260 Predicted Zn-ribbon RN 40.9 17 0.00036 24.3 1.3 20 194-219 32-51 (59)
296 PRK13264 3-hydroxyanthranilate 40.6 17 0.00037 29.9 1.6 21 135-155 116-136 (177)
297 PRK06450 threonine synthase; V 40.5 20 0.00044 32.3 2.2 31 187-220 52-88 (338)
298 PRK11595 DNA utilization prote 40.5 21 0.00046 30.2 2.2 36 142-178 8-44 (227)
299 PF14671 DSPn: Dual specificit 40.2 32 0.0007 27.2 3.0 37 24-65 41-78 (141)
300 cd02070 corrinoid_protein_B12- 40.2 1.7E+02 0.0038 24.0 7.7 80 11-130 82-161 (201)
301 COG1040 ComFC Predicted amidop 40.1 14 0.0003 31.4 1.0 26 156-181 25-51 (225)
302 cd02156 nt_trans nucleotidyl t 40.1 28 0.00061 25.3 2.6 12 22-34 7-18 (105)
303 PRK06386 replication factor A; 40.0 20 0.00044 32.8 2.1 29 154-183 235-263 (358)
304 PRK05638 threonine synthase; V 39.8 22 0.00047 33.3 2.3 24 171-197 4-27 (442)
305 COG5257 GCD11 Translation init 39.8 30 0.00066 31.5 3.1 20 183-202 70-89 (415)
306 PF02150 RNA_POL_M_15KD: RNA p 39.7 16 0.00034 21.7 0.9 11 171-181 4-14 (35)
307 COG2401 ABC-type ATPase fused 39.5 20 0.00043 33.9 2.0 27 171-200 133-159 (593)
308 PF14354 Lar_restr_allev: Rest 39.2 16 0.00034 24.0 1.0 9 157-165 5-13 (61)
309 PF05129 Elf1: Transcription e 39.1 14 0.0003 26.3 0.7 56 155-219 22-77 (81)
310 PRK01103 formamidopyrimidine/5 39.1 53 0.0011 28.6 4.5 35 95-130 179-217 (274)
311 PRK11595 DNA utilization prote 38.8 17 0.00036 30.8 1.3 35 157-194 7-43 (227)
312 PF02591 DUF164: Putative zinc 38.7 14 0.0003 24.1 0.7 10 169-178 47-56 (56)
313 PF09567 RE_MamI: MamI restric 38.6 18 0.00039 31.4 1.5 46 170-222 84-130 (314)
314 COG1592 Rubrerythrin [Energy p 38.6 22 0.00048 28.9 1.9 11 185-195 149-159 (166)
315 PF03698 UPF0180: Uncharacteri 38.0 39 0.00085 24.1 2.9 52 41-92 13-79 (80)
316 smart00653 eIF2B_5 domain pres 38.0 14 0.0003 27.9 0.6 17 70-86 24-40 (110)
317 cd01411 SIR2H SIR2H: Uncharact 37.9 20 0.00043 30.3 1.7 25 170-194 120-145 (225)
318 TIGR01562 FdhE formate dehydro 37.9 25 0.00055 31.4 2.4 36 141-176 186-232 (305)
319 PF13597 NRDD: Anaerobic ribon 37.6 9.2 0.0002 36.9 -0.5 35 169-207 492-528 (546)
320 PF11781 RRN7: RNA polymerase 37.2 15 0.00033 21.9 0.6 8 187-194 27-34 (36)
321 PLN02674 adenylate kinase 37.2 2.7E+02 0.0059 23.9 9.3 127 66-219 76-206 (244)
322 PF11672 DUF3268: Protein of u 36.7 26 0.00057 26.1 1.9 10 157-166 4-13 (102)
323 PRK08197 threonine synthase; V 36.7 25 0.00054 32.3 2.2 27 170-198 9-35 (394)
324 PRK09263 anaerobic ribonucleos 36.7 49 0.0011 33.1 4.4 44 157-204 631-683 (711)
325 PF14149 YhfH: YhfH-like prote 36.7 6.8 0.00015 23.7 -1.0 19 156-174 14-37 (37)
326 TIGR00269 conserved hypothetic 36.6 18 0.0004 26.7 1.1 19 155-174 80-98 (104)
327 PF13453 zf-TFIIB: Transcripti 36.3 33 0.00072 20.7 2.1 12 202-215 27-38 (41)
328 COG3171 Uncharacterized protei 36.2 84 0.0018 23.9 4.5 46 94-139 24-71 (119)
329 cd07973 Spt4 Transcription elo 36.1 51 0.0011 24.4 3.4 10 210-219 55-64 (98)
330 TIGR00686 phnA alkylphosphonat 36.1 18 0.00039 27.3 0.9 26 157-182 4-33 (109)
331 PF01475 FUR: Ferric uptake re 36.0 67 0.0015 23.9 4.2 30 115-145 42-74 (120)
332 KOG2907|consensus 36.0 13 0.00029 28.1 0.3 17 139-155 7-23 (116)
333 PF13717 zinc_ribbon_4: zinc-r 35.7 19 0.00042 21.4 0.9 9 186-194 26-34 (36)
334 PRK03564 formate dehydrogenase 35.7 29 0.00062 31.1 2.3 37 140-176 188-234 (309)
335 PF06792 UPF0261: Uncharacteri 35.4 1.3E+02 0.0029 28.0 6.6 49 36-89 198-252 (403)
336 PRK08579 anaerobic ribonucleos 34.9 59 0.0013 32.1 4.5 25 167-194 567-591 (625)
337 COG1056 NadR Nicotinamide mono 34.8 46 0.001 27.2 3.2 28 26-65 14-41 (172)
338 PF06906 DUF1272: Protein of u 34.6 26 0.00056 23.2 1.4 15 185-199 41-55 (57)
339 PF13597 NRDD: Anaerobic ribon 34.6 30 0.00066 33.4 2.5 21 157-177 493-513 (546)
340 PRK07218 replication factor A; 34.6 27 0.00059 32.6 2.1 30 153-183 295-324 (423)
341 smart00345 HTH_GNTR helix_turn 34.6 73 0.0016 19.8 3.7 26 115-141 34-59 (60)
342 TIGR00308 TRM1 tRNA(guanine-26 34.0 22 0.00048 32.7 1.4 46 56-101 141-196 (374)
343 TIGR00595 priA primosomal prot 33.9 31 0.00067 32.9 2.4 47 137-194 211-262 (505)
344 PRK05654 acetyl-CoA carboxylas 33.7 23 0.00049 31.5 1.4 23 171-193 30-54 (292)
345 PF12387 Peptidase_C74: Pestiv 33.6 23 0.00049 29.0 1.2 24 157-180 164-187 (200)
346 PRK03094 hypothetical protein; 33.6 50 0.0011 23.5 2.9 46 41-91 13-78 (80)
347 cd06545 GH18_3CO4_chitinase Th 33.5 1.4E+02 0.003 25.4 6.2 104 15-132 27-134 (253)
348 PF07394 DUF1501: Protein of u 32.7 1.4E+02 0.0031 27.1 6.5 57 35-101 231-289 (392)
349 PF03033 Glyco_transf_28: Glyc 32.7 61 0.0013 24.2 3.5 26 29-62 9-34 (139)
350 PF13901 DUF4206: Domain of un 32.5 21 0.00046 29.8 0.9 34 157-193 144-180 (202)
351 PF06093 Spt4: Spt4/RpoE2 zinc 32.5 13 0.00028 26.3 -0.3 20 198-219 42-61 (77)
352 PRK15103 paraquat-inducible me 32.4 25 0.00055 32.8 1.5 28 171-198 13-43 (419)
353 TIGR02420 dksA RNA polymerase- 32.3 18 0.00039 27.1 0.4 16 167-183 80-95 (110)
354 KOG3362|consensus 31.5 17 0.00036 28.9 0.1 23 154-178 117-139 (156)
355 PF10007 DUF2250: Uncharacteri 31.5 41 0.0009 24.6 2.2 47 91-138 11-57 (92)
356 cd07377 WHTH_GntR Winged helix 31.4 85 0.0018 20.0 3.7 26 115-141 39-64 (66)
357 PRK01110 rpmF 50S ribosomal pr 31.4 27 0.0006 23.4 1.2 20 157-177 29-48 (60)
358 PRK12267 methionyl-tRNA synthe 30.9 24 0.00051 34.7 1.1 38 64-101 73-117 (648)
359 PF09297 zf-NADH-PPase: NADH p 30.4 19 0.00042 20.6 0.3 7 187-193 23-29 (32)
360 PLN02569 threonine synthase 30.3 38 0.00082 32.2 2.3 28 169-198 50-77 (484)
361 PF12760 Zn_Tnp_IS1595: Transp 30.3 38 0.00083 21.0 1.6 7 186-192 38-44 (46)
362 COG2995 PqiA Uncharacterized p 30.2 22 0.00048 32.9 0.7 31 170-202 222-252 (418)
363 KOG2164|consensus 29.9 57 0.0012 31.2 3.3 64 155-222 186-259 (513)
364 COG0735 Fur Fe2+/Zn2+ uptake r 29.8 97 0.0021 24.3 4.3 21 115-136 55-75 (145)
365 TIGR00515 accD acetyl-CoA carb 29.7 18 0.00038 32.0 0.0 8 212-219 93-100 (285)
366 COG1998 RPS31 Ribosomal protei 29.2 25 0.00055 22.7 0.7 9 155-163 19-27 (51)
367 cd01412 SIRT5_Af1_CobB SIRT5_A 29.1 38 0.00082 28.4 1.9 27 169-195 110-140 (224)
368 TIGR00155 pqiA_fam integral me 29.0 36 0.00079 31.6 1.9 27 171-197 16-45 (403)
369 COG5194 APC11 Component of SCF 29.0 35 0.00075 24.4 1.4 19 153-171 29-47 (88)
370 PF00392 GntR: Bacterial regul 28.7 1.1E+02 0.0024 20.0 3.9 54 87-141 4-63 (64)
371 COG0266 Nei Formamidopyrimidin 28.4 1.5E+02 0.0032 26.2 5.5 79 94-183 178-260 (273)
372 PF02662 FlpD: Methyl-viologen 28.2 1.5E+02 0.0033 22.6 5.0 46 83-129 73-123 (124)
373 COG1908 FrhD Coenzyme F420-red 28.0 1.6E+02 0.0035 22.8 4.9 47 83-130 74-125 (132)
374 COG0846 SIR2 NAD-dependent pro 27.9 40 0.00087 29.2 1.9 22 185-207 146-167 (250)
375 COG3364 Zn-ribbon containing p 27.7 23 0.00049 26.5 0.3 10 142-151 5-14 (112)
376 KOG2879|consensus 27.7 37 0.0008 29.9 1.6 44 153-196 237-287 (298)
377 cd02069 methionine_synthase_B1 27.6 3.6E+02 0.0079 22.5 8.1 81 10-131 87-168 (213)
378 PRK08351 DNA-directed RNA poly 27.6 75 0.0016 21.4 2.8 20 171-195 6-25 (61)
379 PRK09521 exosome complex RNA-b 27.6 31 0.00067 28.3 1.1 34 171-205 152-185 (189)
380 TIGR03844 cysteate_syn cysteat 27.4 47 0.001 30.7 2.4 9 141-149 4-12 (398)
381 PF09082 DUF1922: Domain of un 27.3 14 0.00029 25.6 -0.9 34 171-207 6-40 (68)
382 PF06221 zf-C2HC5: Putative zi 27.2 52 0.0011 21.9 1.9 28 169-196 19-46 (57)
383 PRK12366 replication factor A; 27.2 38 0.00081 33.4 1.8 29 152-181 529-560 (637)
384 cd02072 Glm_B12_BD B12 binding 27.0 2.5E+02 0.0054 21.7 6.0 30 23-64 7-36 (128)
385 PRK08270 anaerobic ribonucleos 27.0 50 0.0011 32.8 2.6 22 156-177 627-648 (656)
386 PF06677 Auto_anti-p27: Sjogre 27.0 32 0.00069 21.2 0.8 11 141-151 19-29 (41)
387 PRK00415 rps27e 30S ribosomal 26.9 34 0.00074 22.9 1.0 28 151-178 7-40 (59)
388 TIGR02370 pyl_corrinoid methyl 26.9 2.9E+02 0.0063 22.6 6.9 39 10-64 83-121 (197)
389 COG4720 Predicted membrane pro 26.8 53 0.0012 27.0 2.3 24 15-38 25-48 (177)
390 COG1571 Predicted DNA-binding 26.7 46 0.001 31.1 2.1 25 157-181 352-380 (421)
391 COG1198 PriA Primosomal protei 26.4 70 0.0015 32.2 3.5 41 137-177 442-484 (730)
392 PRK09875 putative hydrolase; P 26.3 1.6E+02 0.0034 26.1 5.4 12 119-131 223-234 (292)
393 PRK14288 chaperone protein Dna 26.2 1.2E+02 0.0027 27.6 4.9 24 184-207 191-214 (369)
394 TIGR02827 RNR_anaer_Bdell anae 26.2 58 0.0013 31.8 2.8 20 157-176 534-554 (586)
395 PRK03988 translation initiatio 26.1 26 0.00057 27.5 0.4 11 184-194 122-132 (138)
396 PF13824 zf-Mss51: Zinc-finger 26.1 52 0.0011 21.7 1.8 6 158-163 2-7 (55)
397 COG3078 Uncharacterized protei 26.1 60 0.0013 26.0 2.4 29 78-106 124-152 (169)
398 PF10005 DUF2248: Uncharacteri 26.0 43 0.00093 30.4 1.8 22 157-178 1-23 (343)
399 TIGR03070 couple_hipB transcri 26.0 1.6E+02 0.0036 18.0 4.7 22 66-87 3-24 (58)
400 PF12844 HTH_19: Helix-turn-he 25.9 88 0.0019 20.2 3.0 41 68-108 13-60 (64)
401 TIGR00340 zpr1_rel ZPR1-relate 25.9 28 0.00061 28.2 0.5 7 157-163 30-36 (163)
402 PRK14138 NAD-dependent deacety 25.9 23 0.00049 30.4 -0.0 86 119-219 78-175 (244)
403 TIGR01501 MthylAspMutase methy 25.8 2.5E+02 0.0054 21.8 5.9 73 23-131 9-81 (134)
404 PRK04351 hypothetical protein; 25.6 38 0.00083 26.9 1.3 34 167-200 111-147 (149)
405 TIGR02487 NrdD anaerobic ribon 25.5 42 0.00091 32.7 1.8 22 155-176 524-546 (579)
406 PF08784 RPA_C: Replication pr 25.3 64 0.0014 23.4 2.4 50 84-135 48-98 (102)
407 cd02071 MM_CoA_mut_B12_BD meth 25.3 2.4E+02 0.0052 21.0 5.7 30 23-63 7-36 (122)
408 PRK00481 NAD-dependent deacety 25.3 44 0.00096 28.4 1.7 26 170-195 124-152 (242)
409 PF13913 zf-C2HC_2: zinc-finge 25.2 21 0.00046 19.4 -0.2 14 170-183 4-17 (25)
410 COG4320 Uncharacterized protei 25.2 5.3E+02 0.012 23.6 8.8 90 23-131 61-165 (410)
411 PRK09263 anaerobic ribonucleos 25.1 64 0.0014 32.3 3.0 23 155-177 641-668 (711)
412 PF11793 FANCL_C: FANCL C-term 25.0 25 0.00054 24.1 0.1 12 154-165 54-65 (70)
413 KOG3507|consensus 25.0 29 0.00063 23.2 0.4 27 170-196 22-48 (62)
414 COG4352 RPL13 Ribosomal protei 24.9 1.1E+02 0.0023 23.1 3.4 38 94-132 74-111 (113)
415 smart00576 BTP Bromodomain tra 24.8 1.6E+02 0.0034 20.3 4.2 16 34-49 5-20 (77)
416 PF14255 Cys_rich_CPXG: Cystei 24.5 35 0.00077 22.2 0.7 9 157-165 2-10 (52)
417 PHA01976 helix-turn-helix prot 24.4 1.5E+02 0.0032 19.3 3.9 37 70-106 18-61 (67)
418 PRK11827 hypothetical protein; 24.2 39 0.00085 22.7 0.9 23 157-179 10-37 (60)
419 cd01410 SIRT7 SIRT7: Eukaryoti 24.1 41 0.0009 28.0 1.3 36 169-206 96-139 (206)
420 PF04606 Ogr_Delta: Ogr/Delta- 23.8 37 0.00081 21.3 0.7 9 157-165 1-9 (47)
421 PRK07945 hypothetical protein; 23.7 1.2E+02 0.0026 27.3 4.2 30 59-88 287-323 (335)
422 COG2051 RPS27A Ribosomal prote 23.7 34 0.00074 23.5 0.5 28 151-178 15-48 (67)
423 PHA02768 hypothetical protein; 23.6 34 0.00075 22.6 0.5 26 168-193 5-39 (55)
424 PF04368 DUF507: Protein of un 23.6 3.6E+02 0.0079 22.2 6.7 96 26-133 5-117 (183)
425 TIGR00155 pqiA_fam integral me 23.5 46 0.001 30.9 1.6 26 171-198 218-243 (403)
426 PF14338 Mrr_N: Mrr N-terminal 23.5 1.9E+02 0.004 20.5 4.5 70 68-140 7-78 (92)
427 cd07212 Pat_PNPLA9 Patatin-lik 23.5 2.7E+02 0.0059 24.7 6.4 60 30-96 7-70 (312)
428 PF01485 IBR: IBR domain; Int 23.4 45 0.00097 21.5 1.1 33 140-177 19-57 (64)
429 COG4306 Uncharacterized protei 23.4 47 0.001 25.8 1.3 10 170-179 70-79 (160)
430 PRK14526 adenylate kinase; Pro 23.4 85 0.0018 26.2 3.0 43 171-219 125-170 (211)
431 PF04967 HTH_10: HTH DNA bindi 23.4 1.9E+02 0.004 18.8 4.0 30 67-96 23-52 (53)
432 PF09845 DUF2072: Zn-ribbon co 23.3 46 0.001 26.0 1.3 10 142-151 4-13 (131)
433 COG1379 PHP family phosphoeste 23.2 28 0.00061 31.5 0.1 26 170-195 248-275 (403)
434 PF15366 DUF4597: Domain of un 23.2 76 0.0016 21.0 2.0 14 12-27 23-36 (62)
435 PF01873 eIF-5_eIF-2B: Domain 23.2 26 0.00057 27.0 -0.1 18 71-88 38-55 (125)
436 cd02067 B12-binding B12 bindin 23.2 3E+02 0.0066 20.1 7.2 71 24-130 8-78 (119)
437 PF12647 RNHCP: RNHCP domain; 23.1 69 0.0015 23.5 2.1 26 139-164 4-33 (92)
438 COG4068 Uncharacterized protei 23.1 13 0.00027 25.0 -1.6 12 156-167 9-20 (64)
439 TIGR00311 aIF-2beta translatio 22.5 34 0.00075 26.7 0.4 15 71-85 43-57 (133)
440 cd02874 GH18_CFLE_spore_hydrol 22.5 2.2E+02 0.0049 24.8 5.7 47 85-132 88-139 (313)
441 PF04127 DFP: DNA / pantothena 22.5 68 0.0015 26.3 2.2 48 11-64 3-53 (185)
442 KOG4080|consensus 22.4 29 0.00062 28.2 -0.0 19 157-175 95-113 (176)
443 COG1579 Zn-ribbon protein, pos 22.4 72 0.0016 27.5 2.4 10 117-126 175-184 (239)
444 PRK10778 dksA RNA polymerase-b 22.3 35 0.00077 27.2 0.5 14 170-183 113-126 (151)
445 PRK12495 hypothetical protein; 22.2 1.1E+02 0.0023 26.2 3.3 27 137-163 40-66 (226)
446 PTZ00088 adenylate kinase 1; P 22.0 88 0.0019 26.5 2.9 46 65-110 50-98 (229)
447 PF12172 DUF35_N: Rubredoxin-l 22.0 34 0.00075 20.1 0.3 20 171-193 14-33 (37)
448 PF07895 DUF1673: Protein of u 21.9 1E+02 0.0022 25.8 3.2 28 154-181 10-37 (205)
449 PF07818 HCNGP: HCNGP-like pro 21.7 1.3E+02 0.0029 22.0 3.4 23 20-48 2-24 (96)
450 PF00248 Aldo_ket_red: Aldo/ke 21.7 1.5E+02 0.0033 25.1 4.4 49 85-134 81-133 (283)
451 COG2176 PolC DNA polymerase II 21.6 71 0.0015 34.0 2.5 34 157-195 916-949 (1444)
452 PF10137 TIR-like: Predicted n 21.5 1E+02 0.0022 23.7 2.9 27 29-60 4-30 (125)
453 PRK09912 L-glyceraldehyde 3-ph 21.4 1.6E+02 0.0035 26.3 4.6 48 85-133 113-163 (346)
454 TIGR01675 plant-AP plant acid 21.4 3.8E+02 0.0082 22.9 6.6 68 41-135 128-200 (229)
455 PRK11788 tetratricopeptide rep 21.3 59 0.0013 28.8 1.8 22 158-179 357-379 (389)
456 PF11062 DUF2863: Protein of u 21.2 49 0.0011 30.6 1.2 48 112-185 334-381 (398)
457 PRK09462 fur ferric uptake reg 21.1 2E+02 0.0044 22.3 4.6 28 115-143 52-82 (148)
458 PRK07111 anaerobic ribonucleos 21.1 55 0.0012 32.9 1.6 21 156-176 681-701 (735)
459 PLN02945 nicotinamide-nucleoti 21.1 2.4E+02 0.0053 23.9 5.4 22 25-49 32-53 (236)
460 cd04256 AAK_P5CS_ProBA AAK_P5C 21.1 5.4E+02 0.012 22.5 7.8 90 37-133 36-153 (284)
461 COG5012 Predicted cobalamin bi 21.0 2.8E+02 0.0061 23.7 5.6 27 22-60 111-138 (227)
462 PRK07217 replication factor A; 20.9 75 0.0016 28.5 2.3 26 157-183 190-217 (311)
463 PF00975 Thioesterase: Thioest 20.8 52 0.0011 26.8 1.2 37 23-64 64-101 (229)
464 cd02168 NMNAT_Nudix Nicotinami 20.7 1.3E+02 0.0028 24.6 3.5 28 25-64 9-36 (181)
465 KOG2805|consensus 20.7 1.6E+02 0.0034 26.8 4.2 25 36-65 16-42 (377)
466 KOG2824|consensus 20.6 2.4E+02 0.0053 24.9 5.3 35 90-124 151-185 (281)
467 COG3024 Uncharacterized protei 20.6 54 0.0012 22.3 1.0 18 185-202 7-24 (65)
468 PF00325 Crp: Bacterial regula 20.6 1.5E+02 0.0032 17.2 2.7 17 115-132 16-32 (32)
469 COG3286 Uncharacterized protei 20.4 1.4E+02 0.0031 25.0 3.6 87 34-137 87-177 (204)
470 PRK15103 paraquat-inducible me 20.4 57 0.0012 30.4 1.5 24 171-197 224-247 (419)
471 PF00628 PHD: PHD-finger; Int 20.4 51 0.0011 20.5 0.9 21 158-178 2-24 (51)
472 TIGR02642 phage_xxxx uncharact 20.3 1.2E+02 0.0026 25.2 3.2 10 155-164 99-108 (186)
473 PF13719 zinc_ribbon_5: zinc-r 20.3 54 0.0012 19.5 0.9 9 186-194 26-34 (37)
474 TIGR02300 FYDLN_acid conserved 20.3 77 0.0017 24.7 1.9 28 154-181 8-39 (129)
475 PRK13945 formamidopyrimidine-D 20.2 1.4E+02 0.003 26.2 3.8 20 95-114 188-207 (282)
476 PRK14810 formamidopyrimidine-D 20.1 2.7E+02 0.0059 24.2 5.7 37 95-132 178-218 (272)
477 TIGR01510 coaD_prev_kdtB pante 20.1 1.2E+02 0.0026 23.8 3.2 27 25-63 9-35 (155)
No 1
>COG0143 MetG Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3e-61 Score=451.32 Aligned_cols=211 Identities=36% Similarity=0.736 Sum_probs=205.1
Q ss_pred CCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHH
Q psy2399 10 DVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNIS 89 (232)
Q Consensus 10 ~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~ 89 (232)
.+++++||+|+|||||+|||||++++|.||+++||+|++| ++|.|++|+|+||+||+.+|+++|++|++++++++
T Consensus 3 ~~~~~~VTtalpY~Ng~~HlGH~~~~l~ADv~aRy~Rl~G-----~~v~fvtGtDeHGt~I~~~A~~~g~tP~el~d~~~ 77 (558)
T COG0143 3 MMKKILVTTALPYPNGPPHLGHLYTYLAADVYARYLRLRG-----YEVFFLTGTDEHGTKIELKAEKEGITPQELVDKNH 77 (558)
T ss_pred CCCcEEEecCCCCCCCCcchhhHHHHHHHHHHHHHHHhcC-----CeEEEEeccCCCCCHHHHHHHHcCCCHHHHHHHHH
Confidence 3578999999999999999999999999999999999999 99999999999999999999999999999999999
Q ss_pred HHHHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCC
Q psy2399 90 SNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGD 169 (232)
Q Consensus 90 ~~~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~ 169 (232)
+.+++++++|+|++|.|+||+++.|.+.++++|.+|+ ++|+||.++..+|||++|++||+|++|+|+||+|+...++||
T Consensus 78 ~~~~~~~~~l~IsfD~F~rTt~~~h~~~vq~~f~~L~-~~G~I~~~~~~~~Yc~~~e~fl~dr~v~g~cp~cg~~~arGD 156 (558)
T COG0143 78 EEFKELFKALNISFDNFIRTTSPEHKELVQEFFLKLY-ENGDIYLREYEGLYCVSCERFLPDRYVEGTCPKCGGEDARGD 156 (558)
T ss_pred HHHHHHHHHhCCcccccccCCCHHHHHHHHHHHHHHH-HCCCEeccceeeeEcccccccccchheeccCCCcCccccCcc
Confidence 9999999999999999999999999999999999999 999999999999999999999999999999999999999999
Q ss_pred cCccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhhhc--CCCCCCC
Q psy2399 170 FCECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIH--DKRLQPE 229 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~--~~~~~p~ 229 (232)
+||+||+.++|.+|++|+|.+||++||+|+++||||+| ++|+++|++| ++ +.++.|.
T Consensus 157 ~Ce~Cg~~~~P~~l~~p~~~i~g~~p~~r~~~hyFf~L--~~~~~~L~~~-~~~~~~~~~p~ 215 (558)
T COG0143 157 QCENCGRTLDPTELINPVCVISGATPEVREEEHYFFRL--SKFQDKLLEW-YESNPDFIWPA 215 (558)
T ss_pred hhhhccCcCCchhcCCCeeEeeCCCcccccceeEEEEH--HHhHHHHHHH-HHhCccccCCh
Confidence 99999999999999999999999999999999999999 9999999999 64 3566664
No 2
>PF09334 tRNA-synt_1g: tRNA synthetases class I (M); InterPro: IPR015413 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This domain is found in methionyl and leucyl tRNA synthetases. ; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 2D5B_A 1A8H_A 1WOY_A 2D54_A 4DLP_A 2CT8_B 2CSX_A 1MED_A 1PFU_A 1PFW_A ....
Probab=100.00 E-value=2.7e-58 Score=419.79 Aligned_cols=199 Identities=34% Similarity=0.757 Sum_probs=183.9
Q ss_pred EEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy2399 14 IFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRK 93 (232)
Q Consensus 14 ~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~ 93 (232)
|+||+|+|||||+|||||+++++.||+++||+|++| ++|.+++|+|+||++|+.+|+++|++|+++++++++.|+
T Consensus 1 ~~ITt~~pY~Ng~lHlGH~~~~l~ADv~aR~~r~~G-----~~v~~~tGtDehG~~i~~~A~~~g~~p~~~~~~~~~~~~ 75 (391)
T PF09334_consen 1 FYITTPIPYPNGDLHLGHLYPYLAADVLARYLRLRG-----HDVLFVTGTDEHGSKIETAAEKQGIDPEEFCDKYSAKFK 75 (391)
T ss_dssp EEEEEEEEETSSS-BHHHHHHHHHHHHHHHHHHHTT------EEEEEEEEE-SSHHHHHHHHHTTS-HHHHHHHHHHHHH
T ss_pred CEEecCCCCCCCCCCCChhHHHHHHHHHHHHHhhcc-----cceeeEEecchhhHHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence 689999999999999999999999999999999999 999999999999999999999999999999999999999
Q ss_pred HHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCCcCcc
Q psy2399 94 KYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCEC 173 (232)
Q Consensus 94 ~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~ 173 (232)
++|++|||++|.|++|+++.|.+.|+++|.+|+ ++|+||+++..+|||+.|++||+|++|+|+||+|+...++|++||+
T Consensus 76 ~~~~~~~I~~D~F~rTt~~~h~~~v~~i~~~L~-~~G~I~~~~~~~~Yc~~~e~fl~e~~v~g~CP~C~~~~a~g~~Ce~ 154 (391)
T PF09334_consen 76 ELLEALNISYDRFIRTTDDRHKEFVQEIFKRLY-DNGYIYKREYEGWYCPSCERFLPESFVEGTCPYCGSDKARGDQCEN 154 (391)
T ss_dssp HHHHHTT---SEEEETTSHHHHHHHHHHHHHHH-HTTSEEEEEEEEEEETTTTEEE-GGGETCEETTT--SSCTTTEETT
T ss_pred HHHHHcCCCCcceeCCCCHHHHHHHHHHHHHHH-hcCceeecccceeEecCcCcccccceeeccccCcCccccCCCcccC
Confidence 999999999999999999999999999999999 9999999999999999999999999999999999988899999999
Q ss_pred CCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhh
Q psy2399 174 CSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWA 220 (232)
Q Consensus 174 Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~ 220 (232)
||+.+++++|++|+|++||++++++++++|||+| ++|+++|++|+
T Consensus 155 cG~~~~~~~l~~p~~~~~g~~~~~r~e~~~ff~L--~~~~~~L~~~l 199 (391)
T PF09334_consen 155 CGRPLEPEELINPVCKICGSPPEVREEENYFFKL--SKFRDQLREWL 199 (391)
T ss_dssp TSSBEECCCSECEEETTTS-B-EEEEEEEEEE-G--GGGHHHHHHHH
T ss_pred CCCCcccccccCCccccccccCccccceEEEEeh--HHhHHHHHHHH
Confidence 9999999999999999999999999999999999 99999999994
No 3
>PLN02610 probable methionyl-tRNA synthetase
Probab=100.00 E-value=3.4e-57 Score=441.62 Aligned_cols=211 Identities=29% Similarity=0.568 Sum_probs=202.7
Q ss_pred CCCCcEEEEcCCCCCCCcCCchHHHh-HHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHH
Q psy2399 9 KDVRRIFVTTALPYANGELHIGHIME-YIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINN 87 (232)
Q Consensus 9 ~~~~~~~v~~~~P~~nG~lHiGH~~~-~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~ 87 (232)
.++++++||+|+|||||+|||||+++ ++.+|+++||+|++| ++|.|++|+|+||++|+.+|++.|++|++++++
T Consensus 14 ~~~~~~~ITt~~pY~Ng~~HlGH~~~~~l~aDv~aRy~r~~G-----~~v~f~~GtDehG~~i~~~A~~~g~~p~e~~d~ 88 (801)
T PLN02610 14 PGKRNILITSALPYVNNVPHLGNIIGCVLSADVFARYCRLRG-----YNAIYICGTDEYGTATETKALEENCTPKEICDK 88 (801)
T ss_pred CCCCCEEEeCCCCCCCCCcccchhhhhHHHHHHHHHHHHhCC-----CceEecccccCCcHHHHHHHHHcCCCHHHHHHH
Confidence 34578999999999999999999995 788999999999999 999999999999999999999999999999999
Q ss_pred HHHHHHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCC--CCccc
Q psy2399 88 ISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPI--CNAKD 165 (232)
Q Consensus 88 ~~~~~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~--c~~~~ 165 (232)
+++.+++++++|||++|.|++|+++.|.+.|+++|.+|+ ++|+||++++.+|||+.|++||+|++|+|+||. |++.+
T Consensus 89 ~~~~~~~~~~~l~i~~D~f~rT~~~~h~~~vq~~f~~L~-~~G~Iy~~~~~~~yc~~~e~fl~d~~v~G~CP~~~C~~~~ 167 (801)
T PLN02610 89 YHAIHKEVYDWFDISFDKFGRTSTPQQTEICQAIFKKLM-ENNWLSENTMQQLYCDTCQKFLADRLVEGTCPTEGCNYDS 167 (801)
T ss_pred HHHHHHHHHHHcCCccccCccCCCHHHHHHHHHHHHHHH-HCCCEEEeeEEEeecCCCCCCcchHHhcCcCCccccCccc
Confidence 999999999999999999999999999999999999999 999999999999999999999999999999999 99999
Q ss_pred cCCCcCccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhhhcCCCCCC
Q psy2399 166 QYGDFCECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHDKRLQP 228 (232)
Q Consensus 166 ~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~~~~~p 228 (232)
++|++||+||+.++|.+|++|+|++||+++++++++||||+| ++|+++|.+| ++++.++|
T Consensus 168 a~Gd~Ce~Cg~~~~p~eLi~p~c~~~g~~~~~~~~~~~ff~L--s~~~~~L~~~-~~~~~~~~ 227 (801)
T PLN02610 168 ARGDQCEKCGKLLNPTELIDPKCKVCKNTPRIRDTDHLFLEL--PLLKDKLVEY-INETSVAG 227 (801)
T ss_pred cccchhhhccccCChhhhcCCcccCCCCcceEEEcceEEEEh--HHHHHHHHHH-HHhCCCCC
Confidence 999999999999999999999999999999999999999999 9999999999 65433443
No 4
>PRK00133 metG methionyl-tRNA synthetase; Reviewed
Probab=100.00 E-value=1.9e-54 Score=418.28 Aligned_cols=210 Identities=54% Similarity=1.005 Sum_probs=202.4
Q ss_pred CcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHH
Q psy2399 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSN 91 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~ 91 (232)
++++||+|||||||.|||||+++++++|+++||+|++| ++|.+++|+|+||+||+.+|++.|++|.++++++++.
T Consensus 2 ~~~~itt~~py~ng~~HiGH~~~~l~aDv~aR~~r~~G-----~~V~~~~g~D~hG~~i~~~A~~~g~~p~e~~~~~~~~ 76 (673)
T PRK00133 2 RKILVTCALPYANGPIHLGHLVEYIQADIWVRYQRMRG-----HEVLFVCADDAHGTPIMLKAEKEGITPEELIARYHAE 76 (673)
T ss_pred CCEEEeCCCCCCCCcccccchHHHHHHHHHHHHHHhcC-----CeeEEeCccCCCChHHHHHHHHcCCCHHHHHHHHHHH
Confidence 57999999999999999999999999999999999999 9999999999999999999999999999999999999
Q ss_pred HHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCCcC
Q psy2399 92 RKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFC 171 (232)
Q Consensus 92 ~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~C 171 (232)
|++++++|||++|.|++|+++.|.+.++++|.+|+ ++|+||++++.+|||+.|++||+|++|.|+||+|++.+++|++|
T Consensus 77 ~~~~~~~l~i~~d~f~rtt~~~h~~~v~~~~~~L~-~~G~iy~~~~~~~y~~~~~~~l~~~~v~g~cp~C~~~d~~g~~c 155 (673)
T PRK00133 77 HKRDFAGFGISFDNYGSTHSEENRELAQEIYLKLK-ENGYIYEKTIEQLYDPEKGMFLPDRFVKGTCPKCGAEDQYGDNC 155 (673)
T ss_pred HHHHHHHhCCCCCCCccCCcHHHHHHHHHHHHHHH-HCCCEEEeeeEEEEeCCCCCCccchheecccCCCCCcccCCchh
Confidence 99999999999999999999999999999999999 99999999999999999999999999999999999998999999
Q ss_pred ccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhhhcCCCCCCC
Q psy2399 172 ECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHDKRLQPE 229 (232)
Q Consensus 172 e~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~~~~~p~ 229 (232)
|.||+.+++.+|++|+|..||+++|+++++||||+| ++|+++|.+|+.+...|+|.
T Consensus 156 e~cg~~~~~~~l~~~~~~~~g~~~e~~~~~~~f~~l--~~~~~~l~~~~~~~~~~~~~ 211 (673)
T PRK00133 156 EVCGATYSPTELINPKSAISGATPVLKESEHFFFKL--PRFEEFLKEWITRSGELQPN 211 (673)
T ss_pred hhccccCChHhhcCCccccCCCcceEEecceEEEEH--HHHHHHHHHHHhcCCCCCHH
Confidence 999999999999999999999999999999999999 99999999994333456553
No 5
>PRK12268 methionyl-tRNA synthetase; Reviewed
Probab=100.00 E-value=1.8e-52 Score=397.28 Aligned_cols=209 Identities=37% Similarity=0.734 Sum_probs=201.3
Q ss_pred CCcEEEEcCCCCCCCcCCchHHHhH-HHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHH
Q psy2399 11 VRRIFVTTALPYANGELHIGHIMEY-IQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNIS 89 (232)
Q Consensus 11 ~~~~~v~~~~P~~nG~lHiGH~~~~-v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~ 89 (232)
+++++||+|||||||.|||||++++ |.+|+++||+|++| ++|.+++|+|+||++|+.+|++.|+++.++++++.
T Consensus 2 ~~~~~i~~~~py~ng~~HiGH~~~~~~~~D~~~R~~r~~G-----~~v~~~~g~d~~g~~i~~~a~~~g~~~~~~~~~~~ 76 (556)
T PRK12268 2 MMRILITSAWPYANGPLHLGHLAGSGLPADVFARYQRLKG-----NEVLFVSGSDEHGTPIELAAKKEGVTPQELADKYH 76 (556)
T ss_pred CCcEEEecCCCCCCCCccccccccchhHHHHHHHHHHhcC-----CceEecCcCCCcccHHHHHHHHcCCCHHHHHHHHH
Confidence 4679999999999999999999997 99999999999999 99999999999999999999999999999999999
Q ss_pred HHHHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCC
Q psy2399 90 SNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGD 169 (232)
Q Consensus 90 ~~~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~ 169 (232)
+.|++++++|||++|.|++|++++|.+.++++|.+|+ ++|+||++++.+|||+.|++||++++|.|+||.|++.+.+|+
T Consensus 77 ~~~~~~~~~l~i~~d~~~~t~~~~~~~~~~~~~~~L~-~~G~~y~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~G~ 155 (556)
T PRK12268 77 EEHKEDFKKLGISYDLFTRTTSPNHHEVVQEFFLKLY-ENGYIYKKTIEQAYCPSDGRFLPDRYVEGTCPYCGYEGARGD 155 (556)
T ss_pred HHHHHHHHHcCCcCCCCcCCCCHHHHHHHHHHHHHHH-HCCCeEEeeeEEEecCCCCcCcCccceeccCCCCCCcccCCc
Confidence 9999999999999999999999999999999999999 999999999999999999999999999999999998888999
Q ss_pred cCccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhhhcCC-CCCC
Q psy2399 170 FCECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHDK-RLQP 228 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~~-~~~p 228 (232)
+||.||+.+++.+|++|+|..||++++++++++|||+| ++|+++|.++ ++.. +++|
T Consensus 156 ~ce~cg~~~~~~~l~~p~~~~~~~~~e~~~~~qwF~~l--~~~~~~l~~~-~~~~~~~p~ 212 (556)
T PRK12268 156 QCDNCGALLDPTDLINPRSKISGSTPEFRETEHFFLDL--PAFAERLRAW-IESSGDWPP 212 (556)
T ss_pred hhhhccccCChHHhcCCccccCCCcCeEEecceEEEEh--HHHHHHHHHH-HhhccCCCH
Confidence 99999999999999999999999999999999999999 9999999999 6543 4444
No 6
>TIGR00398 metG methionyl-tRNA synthetase. The methionyl-tRNA synthetase (metG) is a class I amino acyl-tRNA ligase. This model appears to recognize the methionyl-tRNA synthetase of every species, including eukaryotic cytosolic and mitochondrial forms. The UPGMA difference tree calculated after search and alignment according to this model shows an unusual deep split between two families of MetG. One family contains forms from the Archaea, yeast cytosol, spirochetes, and E. coli, among others. The other family includes forms from yeast mitochondrion, Synechocystis sp., Bacillus subtilis, the Mycoplasmas, Aquifex aeolicus, and Helicobacter pylori. The E. coli enzyme is homodimeric, although monomeric forms can be prepared that are fully active. Activity of this enzyme in bacteria includes aminoacylation of fMet-tRNA with Met; subsequent formylation of the Met to fMet is catalyzed by a separate enzyme. Note that the protein from Aquifex aeolicus is split into an alpha (large) and beta (sma
Probab=100.00 E-value=8.9e-52 Score=390.52 Aligned_cols=200 Identities=40% Similarity=0.787 Sum_probs=196.8
Q ss_pred EEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy2399 14 IFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRK 93 (232)
Q Consensus 14 ~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~ 93 (232)
++||+|||||||.|||||+++++.+|+++||+|++| ++|.+++|+|+||++|+.+|++.|++|.++++.+.+.|+
T Consensus 1 ~~it~~~P~~ng~lHiGH~~~~~~aDvl~R~~r~~G-----~~V~~v~g~D~~g~~i~~~a~~~g~~~~e~~~~~~~~~~ 75 (530)
T TIGR00398 1 ILITTALPYANGKPHLGHAYTTILADVYARYKRLRG-----YEVLFVCGTDEHGTKIELKAEQEGLTPKELVDKYHEEFK 75 (530)
T ss_pred CEEecCCCCCCCCcccchhHHHHHHHHHHHHHHhcC-----CeEEEecccCCCCcHHHHHHHHcCCCHHHHHHHHHHHHH
Confidence 589999999999999999999999999999999999 999999999999999999999999999999999999999
Q ss_pred HHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCCcCcc
Q psy2399 94 KYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCEC 173 (232)
Q Consensus 94 ~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~ 173 (232)
+++++|||++|.+++|+++.|...++++|.+|. ++|+||++++.+|||+.|++||+|++|+|.||.|++.+++|++||.
T Consensus 76 ~~l~~LgI~~D~~~~t~~~~~~~~v~~~~~~L~-~kG~iY~~~~~v~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~ce~ 154 (530)
T TIGR00398 76 DDWKWLNISFDRFIRTTDEEHKEIVQKIFQKLK-ENGYIYEKEIKQLYCPECEMFLPDRYVEGTCPKCGSEDARGDHCEV 154 (530)
T ss_pred HHHHHhCCCCCCCccCCCHHHHHHHHHHHHHHH-HCCCEEEeeeEEEecCCCCcCCchhhhcCCCCCCCCcccccchhhh
Confidence 999999999999999999999999999999999 9999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhhhc
Q psy2399 174 CSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIH 222 (232)
Q Consensus 174 Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~ 222 (232)
||+.+++.+|++|+|..||.++|+++++||||+| ++|+++|.+| ++
T Consensus 155 cg~~~~~~~l~~p~~~~~~~~~e~~~~~~~f~~l--~~~~~~l~~~-~~ 200 (530)
T TIGR00398 155 CGRHLEPTELINPRCKICGAKPELRDSEHYFFRL--SAFEKELEEW-IR 200 (530)
T ss_pred ccccCCHHHhcCCccccCCCcceEEecceEEEEh--HHHHHHHHHH-HH
Confidence 9999999999999999999999999999999999 9999999999 55
No 7
>PLN02224 methionine-tRNA ligase
Probab=100.00 E-value=6.7e-45 Score=346.66 Aligned_cols=189 Identities=22% Similarity=0.371 Sum_probs=171.7
Q ss_pred CCccCCCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHH
Q psy2399 4 HDSEFKDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKE 83 (232)
Q Consensus 4 ~~~~~~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e 83 (232)
++++...+++|+|++|||||||+|||||+++++++|+++||+|++| ++|.|++|+|+||+||+.+|++.|++|.+
T Consensus 61 ~~~~~~~~~~~~ittp~pY~NG~~HiGHa~~~~~aDviaR~~r~~G-----~~V~fv~G~DehG~kI~~~A~~~g~~p~e 135 (616)
T PLN02224 61 QESTVDEADTFVLTTPLYYVNAPPHMGSAYTTIAADSIARFQRLLG-----KKVIFITGTDEHGEKIATSAAANGRNPPE 135 (616)
T ss_pred cccCCCCCCeEEEeCCCCCCCCCCchhccHHHHHHHHHHHHHHhcC-----CceEEecCcCCcchHHHHHHHHcCCChHH
Confidence 4455566788999999999999999999999999999999999999 99999999999999999999999999999
Q ss_pred HHHHHHHHHHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCc
Q psy2399 84 FINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNA 163 (232)
Q Consensus 84 ~~~~~~~~~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~ 163 (232)
+++++++.+++.+++|||++|.|++|+++.|.+.|+++|.+|+ ++|+||++++.+|||+
T Consensus 136 ~~~~~~~~~~~~~~~l~I~~D~f~rTt~~~h~~~vq~~f~~L~-~~G~Iy~~~~~~~yc~-------------------- 194 (616)
T PLN02224 136 HCDIISQSYRTLWKDLDIAYDKFIRTTDPKHEAIVKEFYARVF-ANGDIYRADYEGLYCV-------------------- 194 (616)
T ss_pred HHHHHHHHHHHHHHHcCCCCCcCeeCCCHHHHHHHHHHHHHHH-HCCCEEEeeeeeeecC--------------------
Confidence 9999999999999999999999999999999999999999999 9999999999999954
Q ss_pred cccCCCcCccCCCCCCCccccC-CcccCCCCccEEEEccceeEecCChhhHHHHHhhhhc-CCCCCCC
Q psy2399 164 KDQYGDFCECCSSIYTPTKLIN-PYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIH-DKRLQPE 229 (232)
Q Consensus 164 ~~~~g~~Ce~Cg~~~~~~~l~~-~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~-~~~~~p~ 229 (232)
.|++++++.+|++ +.|+.||+++++++++||||+| ++|+++|++|+.+ +.+++|+
T Consensus 195 ---------~ce~f~~~~~l~~~~~~~~~~~~~~~~~e~~~ff~L--s~~~~~L~~~~~~~~~~~~p~ 251 (616)
T PLN02224 195 ---------NCEEYKDEKELLENNCCPVHQMPCVARKEDNYFFAL--SKYQKPLEDILAQNPRFVQPS 251 (616)
T ss_pred ---------CCCCCCCHHHHcCCCCCCCCCCcceEEecceEEEEh--HHHHHHHHHHHHhCCCccCCH
Confidence 4555555555553 5788999999999999999999 9999999999432 4578775
No 8
>PRK12267 methionyl-tRNA synthetase; Reviewed
Probab=100.00 E-value=5.1e-43 Score=337.81 Aligned_cols=181 Identities=28% Similarity=0.501 Sum_probs=168.0
Q ss_pred CcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHH
Q psy2399 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSN 91 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~ 91 (232)
++++||+|+|||||++||||+++++++|+++||+|++| ++|.|++|+|+||++|+.+|++.|++|+++++++++.
T Consensus 4 ~~~~it~~~py~ng~~HiGH~~~~~~aDv~~R~~r~~G-----~~v~~~~g~D~~g~~i~~~A~~~g~~~~e~~d~~~~~ 78 (648)
T PRK12267 4 KTFYITTPIYYPNGKPHIGHAYTTIAADALARYKRLQG-----YDVFFLTGTDEHGQKIQQAAEKAGKTPQEYVDEISAG 78 (648)
T ss_pred CCEEEeeCCCCCCCCcccccchHHHHHHHHHHHHHhcC-----CceEeecCCCCcchHHHHHHHHcCCCHHHHHHHHHHH
Confidence 57999999999999999999999999999999999999 9999999999999999999999999999999999999
Q ss_pred HHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCCcC
Q psy2399 92 RKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFC 171 (232)
Q Consensus 92 ~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~C 171 (232)
|+++|++|||++|.|++|+++.|.+.++++|.+|. ++|+||++++.+|||+.|++||+++++
T Consensus 79 fk~~l~~lgI~~D~f~rTt~~~h~~~v~~~~~~L~-~kG~IY~~~~~~~yc~~~~~~l~~~~l----------------- 140 (648)
T PRK12267 79 FKELWKKLDISYDKFIRTTDERHKKVVQKIFEKLY-EQGDIYKGEYEGWYCVSCETFFTESQL----------------- 140 (648)
T ss_pred HHHHHHHcCCCCCCCeeCCCHHHHHHHHHHHHHHH-HCCCEEEeeEEEeecCCCCccCChHHh-----------------
Confidence 99999999999999999999999999999999999 999999999999998888888887764
Q ss_pred ccCCCCCCCccccC-CcccCCCCccEEEEccceeEecCChhhHHHHHhhhhc-CCCCCCC
Q psy2399 172 ECCSSIYTPTKLIN-PYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIH-DKRLQPE 229 (232)
Q Consensus 172 e~Cg~~~~~~~l~~-~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~-~~~~~p~ 229 (232)
++ |+|+.||+++++++++||||+| ++|+++|.+|+-+ +.++.|+
T Consensus 141 ------------~~~~~c~~cg~~~e~~~~~~~f~~l--~~~~~~l~~~~~~~~~~~~p~ 186 (648)
T PRK12267 141 ------------VDGGKCPDCGREVELVKEESYFFRM--SKYQDRLLEYYEENPDFIQPE 186 (648)
T ss_pred ------------ccCCcCCCCCCcCeEEecceEEEEc--HHHHHHHHHHHhhCCcccCCH
Confidence 33 5677788999999999999999 9999999999432 3456665
No 9
>cd00817 ValRS_core catalytic core domain of valyl-tRNA synthetases. Valine amino-acyl tRNA synthetase (ValRS) catalytic core domain. This enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. ValRS has an insertion in the core domain, which is subject to both deletions and rearrangements. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids.
Probab=100.00 E-value=2.2e-42 Score=314.78 Aligned_cols=176 Identities=20% Similarity=0.247 Sum_probs=159.9
Q ss_pred CcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHc---------CCCHH
Q psy2399 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKA---------GMTPK 82 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~---------g~~~~ 82 (232)
++|+|++|||||||.|||||+++++++|+++||+||+| ++|.+++|+|+||+||+..|++. +++++
T Consensus 1 ~~f~i~~~pPy~nG~lHiGH~~~~~~~Dv~~Ry~r~~G-----~~V~~~~G~D~hG~pie~~a~k~~~~~~~~~~~~~~~ 75 (382)
T cd00817 1 PVFVIDTPPPNVTGSLHMGHALNNTIQDIIARYKRMKG-----YNVLWPPGTDHAGIATQVVVEKKLGIEGKTRHDLGRE 75 (382)
T ss_pred CcEEEecCCCCCCCcchHHHHHHHHHHHHHHHHHHhcC-----CcccccCccCCCCChHHHHHHHHhcccccchhcCCHH
Confidence 47999999999999999999999999999999999999 99999999999999999999874 45544
Q ss_pred -------HHHHHHHHHHHHHHhccCCc--CCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccce
Q psy2399 83 -------EFINNISSNRKKYLDGFYIK--FDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRY 153 (232)
Q Consensus 83 -------e~~~~~~~~~~~~l~~lgI~--~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~ 153 (232)
++++++++.+++++++|||+ |+++++|+++.|.+.|+++|.+|+ ++|+||++.++++||+.|+++|++++
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~lgi~~Dw~~~~~T~~~~~~~~v~~~f~~L~-~~G~iy~~~~~~~yc~~~~t~l~~~e 154 (382)
T cd00817 76 EFLEKCWEWKEESGGKIREQLKRLGASVDWSREYFTMDPGLSRAVQEAFVRLY-EKGLIYRDNRLVNWCPKLRTAISDIE 154 (382)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCceeecCCCcCCCCHHHHHHHHHHHHHHH-HCCCEEeeeeEEeecCCcCCCCCcch
Confidence 57899999999999999995 459999999999999999999999 99999999999999999999999988
Q ss_pred eccCCCCCCccccCCCcCccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhhhcC--CCCCCC
Q psy2399 154 IKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHD--KRLQPE 229 (232)
Q Consensus 154 v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~--~~~~p~ 229 (232)
| |..||++++++.++||||+| ++|+++|.++ +++ ..+.|+
T Consensus 155 v---------------------------------c~~cg~~~~~~~~~qwf~~l--~~~~~~l~~~-~~~~~~~~~P~ 196 (382)
T cd00817 155 V---------------------------------CSRSGDVIEPLLKPQWFVKV--KDLAKKALEA-VKEGDIKFVPE 196 (382)
T ss_pred h---------------------------------cccCCCeEEEEecCeeEEeh--HHHHHHHHHH-HhcCCcEEECh
Confidence 7 34478899999999999999 9999999999 654 345554
No 10
>PRK11893 methionyl-tRNA synthetase; Reviewed
Probab=100.00 E-value=6.7e-41 Score=314.87 Aligned_cols=180 Identities=25% Similarity=0.434 Sum_probs=167.5
Q ss_pred CcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHH
Q psy2399 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSN 91 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~ 91 (232)
++++|++|||||||.+||||+++++.+|+++||+|++| ++|.+++|+|+||++|+..|++.|++|.++++++.+.
T Consensus 1 ~~~~i~~~~P~~~g~~HiGh~~~~~~~Dv~~R~~r~~G-----~~v~~v~g~dd~g~~i~~~a~~~g~~~~~~~~~~~~~ 75 (511)
T PRK11893 1 KKFYITTPIYYPNGKPHIGHAYTTLAADVLARFKRLRG-----YDVFFLTGTDEHGQKIQRKAEEAGISPQELADRNSAA 75 (511)
T ss_pred CCEEEecCCCCCCCCcccchhHHHHHHHHHHHHHHhcC-----CcEEecCCCCCCChHHHHHHHHcCCCHHHHHHHHHHH
Confidence 57999999999999999999999999999999999999 9999999999999999999999999999999999999
Q ss_pred HHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCCcC
Q psy2399 92 RKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFC 171 (232)
Q Consensus 92 ~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~C 171 (232)
|+++|++|||++|.|++|+++.|.+.|+++|.+|. ++|++|+++..+|||+.|+++|+++++.
T Consensus 76 ~~~~l~~l~I~~D~~~~t~~~~~~~~v~~~~~~L~-~~G~iY~~~~~~~~~~~~~~~l~~~~l~---------------- 138 (511)
T PRK11893 76 FKRLWEALNISYDDFIRTTDPRHKEAVQEIFQRLL-ANGDIYLGKYEGWYCVRCEEFYTESELI---------------- 138 (511)
T ss_pred HHHHHHHhCCCcCCceeCCCHHHHHHHHHHHHHHH-HCCCEEEeeeeeeccccccccCCHHHhc----------------
Confidence 99999999999999999999999999999999999 9999999999999977777777776643
Q ss_pred ccCCCCCCCccccC--CcccCCCCccEEEEccceeEecCChhhHHHHHhhhhcC--CCCCCC
Q psy2399 172 ECCSSIYTPTKLIN--PYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHD--KRLQPE 229 (232)
Q Consensus 172 e~Cg~~~~~~~l~~--~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~--~~~~p~ 229 (232)
+ |.|..||++++++++++|||+| +.|+++|.++ ++. ..+.|.
T Consensus 139 -------------~~~p~~~~~~~~~~~~~~~~~f~~l--~~~~~~l~~~-~~~~~~~~~p~ 184 (511)
T PRK11893 139 -------------EDGYRCPPTGAPVEWVEEESYFFRL--SKYQDKLLEL-YEANPDFIQPA 184 (511)
T ss_pred -------------CCCCCCCCCCCcceEEecCeEEEEc--HHHHHHHHHH-HHhCCCccCCH
Confidence 3 6699999999999999999999 9999999999 543 455554
No 11
>KOG0436|consensus
Probab=100.00 E-value=4.9e-40 Score=292.48 Aligned_cols=193 Identities=23% Similarity=0.393 Sum_probs=177.2
Q ss_pred CCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHH
Q psy2399 9 KDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNI 88 (232)
Q Consensus 9 ~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~ 88 (232)
...+++++|||+.|||..+||||+++.+++|+++||++.+| ..|.|.+|+|+||++|+.+|+..|.+|.+++|++
T Consensus 36 ~~~~~~~lTTPifYvNAaPHlGhlYS~llaDai~R~q~lkg-----~~v~fsTGTDEHGlKIqtaaatnG~~P~e~cDr~ 110 (578)
T KOG0436|consen 36 DEGETFVLTTPIFYVNAAPHLGHLYSTLLADAIARFQRLKG-----KKVIFSTGTDEHGLKIQTAAATNGRNPPELCDRI 110 (578)
T ss_pred cCCceeEEecceeecCCCcchhHHHHHHHHHHHHHHHhhcC-----CceEeecCCCccchhhhhhHhhcCCChHHHHhhh
Confidence 34468999999999999999999999999999999999999 9999999999999999999999999999999999
Q ss_pred HHHHHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCC
Q psy2399 89 SSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYG 168 (232)
Q Consensus 89 ~~~~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g 168 (232)
++.|.++++.+||.++.|+||++|.|+..|+++|..+. ++|+||++++.+|||++|++|++++.|... |.
T Consensus 111 s~~f~qL~k~~gi~yt~FIRTTdpkH~a~Vqefw~~~~-knG~iy~g~~eGwYcvsdEtf~pEskv~k~-p~-------- 180 (578)
T KOG0436|consen 111 SQSFRQLWKDAGIAYTKFIRTTDPKHEAIVQEFWARVF-KNGDIYRGDYEGWYCVSDETFYPESKVLKN-PC-------- 180 (578)
T ss_pred hHHHHHHHHHhCcchhheeecCCchHHHHHHHHHHHHH-hCCceeeecccceEeccccccCCHHHHhcC-CC--------
Confidence 99999999999999999999999999999999999999 999999999999999999999999998641 11
Q ss_pred CcCccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhhh-cCCCCCCCCC
Q psy2399 169 DFCECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAI-HDKRLQPEIF 231 (232)
Q Consensus 169 ~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~-~~~~~~p~~~ 231 (232)
|. | -+++..+|++++|++|++|||+| |+|+..|.+|+. ++.||+|+.+
T Consensus 181 --~~--g---------k~vsmEsg~~vv~~kE~NY~FrL--Skfqk~l~d~lrkNP~fvqPs~~ 229 (578)
T KOG0436|consen 181 --PP--G---------KVVSMESGNPVVWRKEDNYFFRL--SKFQKPLEDHLRKNPRFVQPSYF 229 (578)
T ss_pred --CC--C---------ceeeeccCCceeEecccceeeeH--HhhhhHHHHHHhcCCCccCchHH
Confidence 11 1 24566789999999999999999 999999999954 3679999864
No 12
>PLN02563 aminoacyl-tRNA ligase
Probab=100.00 E-value=6.4e-40 Score=324.91 Aligned_cols=176 Identities=23% Similarity=0.274 Sum_probs=162.9
Q ss_pred CCCCCcEEEEcCCCCCCCc-CCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHH
Q psy2399 8 FKDVRRIFVTTALPYANGE-LHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFIN 86 (232)
Q Consensus 8 ~~~~~~~~v~~~~P~~nG~-lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~ 86 (232)
++++++|+|+++||||||. |||||+++++++|+++||+||+| ++|.+++|||+||+|++.+|.+.|..|.++++
T Consensus 106 ~~~k~k~~v~~~~PYpnG~~lHiGH~~~y~~~DviaRy~Rm~G-----~~Vl~~~G~D~~GlPiE~~a~~~g~~p~~~~~ 180 (963)
T PLN02563 106 DTSKPKFYVLDMFPYPSGAGLHVGHPEGYTATDILARYKRMQG-----YNVLHPMGWDAFGLPAEQYAIETGTHPKITTL 180 (963)
T ss_pred cCCCCCEEEEeCCCCCCCcccchhhHHHHHHHHHHHHHHHhcC-----CeecccccccccCcHHHHHHHHcCCChHHhHH
Confidence 3456789999999999996 99999999999999999999999 99999999999999999999999999999999
Q ss_pred HHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCcc
Q psy2399 87 NISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAK 164 (232)
Q Consensus 87 ~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~ 164 (232)
++++.++++|++||+ +|+++++|+++.|.++++++|.+|+ ++|+||+++..++|||.
T Consensus 181 ~~i~~~~~q~~~lG~s~DW~r~~~T~dp~y~~~~q~~F~~L~-~~GliY~~~~~v~wcp~-------------------- 239 (963)
T PLN02563 181 KNIARFRSQLKSLGFSYDWDREISTTEPEYYKWTQWIFLQLL-KRGLAYQAEVPVNWCPA-------------------- 239 (963)
T ss_pred HHHHHHHHHHHHhCcEeeCCCCeecCCHHHHHHHHHHHHHHH-HCCCEEeeeeeeeecCC--------------------
Confidence 999999999999997 6678999999999999999999999 99999999999999554
Q ss_pred ccCCCcCccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhh
Q psy2399 165 DQYGDFCECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWA 220 (232)
Q Consensus 165 ~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~ 220 (232)
|+..++++|+++++|..||++++.++++||||+| ++|+++|.++|
T Consensus 240 ---------~~T~La~~Ev~~~~~~~~~~~~~~~~~~q~f~~i--t~ya~~L~~~l 284 (963)
T PLN02563 240 ---------LGTVLANEEVVDGLSERGGHPVIRKPMRQWMLKI--TAYADRLLEDL 284 (963)
T ss_pred ---------cCCCCCHHHhhcCCCcCCCCceEEEecceeEEec--chhHHHHHHhh
Confidence 4555555566677888999999999999999999 99999999994
No 13
>TIGR00396 leuS_bact leucyl-tRNA synthetase, eubacterial and mitochondrial family. The leucyl-tRNA synthetases belong to two families so broadly different that they are represented by separate models. This model includes both eubacterial and mitochondrial leucyl-tRNA synthetases. It generates higher scores for some valyl-tRNA synthetases than for any archaeal or eukaryotic cytosolic leucyl-tRNA synthetase. Note that the enzyme from Aquifex aeolicus is split into alpha and beta chains; neither chain is long enough to score above the trusted cutoff, but the alpha chain scores well above the noise cutoff. The beta chain must be found by a model and search designed for partial length matches.
Probab=100.00 E-value=9.5e-40 Score=321.77 Aligned_cols=176 Identities=24% Similarity=0.316 Sum_probs=164.1
Q ss_pred CCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHH
Q psy2399 9 KDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNI 88 (232)
Q Consensus 9 ~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~ 88 (232)
.++++++|+++||||||.|||||+++++++|+++||+||+| ++|.+++|||+||+||+.+|++.|++|.++++++
T Consensus 26 ~~k~k~~v~~~pPy~nG~lHiGH~~~~~~~Dvi~Ry~rm~G-----~~V~~~~G~D~~Glpie~~a~~~g~~p~~~~~~~ 100 (842)
T TIGR00396 26 SNKPKYYILDMFPYPSGALHMGHVRNYTITDVLSRYYRMKG-----YNVLHPMGWDAFGLPAENAAIKRGIHPAKWTYEN 100 (842)
T ss_pred CCCCCEEEEcCCCCCCCccccchhHHHHHHHHHHHHHHhcC-----CceeccCCcCCCChHHHHHHHHcCCCHHHHHHHH
Confidence 45677999999999999999999999999999999999999 9999999999999999999999999999999999
Q ss_pred HHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCcccc
Q psy2399 89 SSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQ 166 (232)
Q Consensus 89 ~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~ 166 (232)
.+.++++|++||+ +||++++|+++.|.+.++++|.+|+ ++|+||++..+++|||.|+++|++.+|..
T Consensus 101 ~~~~~~~~~~lG~~~Dw~~~~~T~d~~y~~~~~~~F~~L~-~kGliy~~~~~v~wcp~~~t~La~~ev~~---------- 169 (842)
T TIGR00396 101 IANMKKQLQALGFSYDWDREIATCDPEYYKWTQWIFLELF-EKGLAYVKEADVNWCPNDGTVLANEQVDS---------- 169 (842)
T ss_pred HHHHHHHHHHhCCcccCCCCcccCCHHHHHHHHHHHHHHH-HCCCeEeeccceEEeCCCCCCccHHHHhh----------
Confidence 9999999999998 5678999999999999999999999 99999999999999999999999998831
Q ss_pred CCCcCccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhh
Q psy2399 167 YGDFCECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWA 220 (232)
Q Consensus 167 ~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~ 220 (232)
++.|..||.+++.+++++|||+| ++|+++|.++|
T Consensus 170 ------------------~g~~~~~g~~v~~~~~~~~f~~i--~~~~~~l~~~l 203 (842)
T TIGR00396 170 ------------------DGRSWRGGTPVEKKELKQWFLKI--TAYAEELLNDL 203 (842)
T ss_pred ------------------cCccccCCCcceEeecceeEEeh--hhhHHHHHHHH
Confidence 13455677889999999999999 99999999983
No 14
>cd00814 MetRS_core catalytic core domain of methioninyl-tRNA synthetases. Methionine tRNA synthetase (MetRS) catalytic core domain. This class I enzyme aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. MetRS, which consists of the core domain and an anti-codon binding domain, functions as a monomer. However, in some species the anti-codon binding domain is followed by an EMAP domain. In this case, MetRS functions as a homodimer. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. As a result of a deletion event, MetRS has a significantly shorter core domain insertion than IleRS, ValRS, and LeuR. Consequently, the MetRS insertion lacks the editing function.
Probab=100.00 E-value=1.9e-39 Score=289.11 Aligned_cols=156 Identities=31% Similarity=0.591 Sum_probs=149.5
Q ss_pred cEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHH
Q psy2399 13 RIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNR 92 (232)
Q Consensus 13 ~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~ 92 (232)
+++||+|+|||||+|||||+++++++|+++||+|++| ++|.+++|+|+||+||+.+|+++|++|+++++.+.+.|
T Consensus 1 ~~~it~~~Py~ng~~HlGH~~~~~~~Dv~~R~~r~~G-----~~V~~~~g~Dd~g~~i~~~a~~~g~~~~e~~~~~~~~~ 75 (319)
T cd00814 1 KVLITTALPYVNGVPHLGHLYGTVLADVFARYQRLRG-----YDVLFVTGTDEHGTKIEQKAEEEGVTPQELCDKYHEIF 75 (319)
T ss_pred CEEEEeCCCCCCCCcchhhHHHHHHHHHHHHHHHhCC-----CcccccCccCCCCcHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 5899999999999999999999999999999999999 99999999999999999999999999999999999999
Q ss_pred HHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCCcCc
Q psy2399 93 KKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCE 172 (232)
Q Consensus 93 ~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~Ce 172 (232)
+++|++|||++|.|++|+++.|.+.++++|++|. ++|++|+++..++||+.|++||+
T Consensus 76 ~~~l~~LgI~~D~~~~tt~~~~~~~v~~i~~~L~-ekG~iY~~~~~~~yc~~~~~~l~---------------------- 132 (319)
T cd00814 76 KDLFKWLNISFDYFIRTTSPRHKEIVQEFFKKLY-ENGYIYEGEYEGLYCVSCERFLP---------------------- 132 (319)
T ss_pred HHHHHHcCCcCCCCeeCCCHHHHHHHHHHHHHHH-HCCCEEeeeeeeeECCCCCcEee----------------------
Confidence 9999999999999999999899999999999999 99999999999999776666654
Q ss_pred cCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhhhc
Q psy2399 173 CCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIH 222 (232)
Q Consensus 173 ~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~ 222 (232)
|+++++||||+| ++|+++|++| ++
T Consensus 133 -----------------------e~~~~~~~ff~l--~~~~~~l~~~-~~ 156 (319)
T cd00814 133 -----------------------EWREEEHYFFRL--SKFQDRLLEW-LE 156 (319)
T ss_pred -----------------------EEEeeeeEEEEh--HHHHHHHHHH-HH
Confidence 899999999999 9999999999 55
No 15
>KOG1247|consensus
Probab=100.00 E-value=5.1e-40 Score=291.90 Aligned_cols=214 Identities=27% Similarity=0.578 Sum_probs=203.4
Q ss_pred CCCCCcEEEEcCCCCCCCcCCchHHHh-HHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHH
Q psy2399 8 FKDVRRIFVTTALPYANGELHIGHIME-YIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFIN 86 (232)
Q Consensus 8 ~~~~~~~~v~~~~P~~nG~lHiGH~~~-~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~ 86 (232)
..+.+.++|+++.||+|..+|+|++-+ .+.|||+|||-+.+| ++..+++|+|+.|..++..|-+.|++|+++++
T Consensus 10 ~~n~rnilitsalpyvnnvphlgNIIg~vlsAdV~Aryc~~r~-----~~~~yicGTDEYgtatetkaleeg~tP~elcd 84 (567)
T KOG1247|consen 10 APNERNILITSALPYVNNVPHLGNIIGSVLSADVFARYCPLRG-----PNTLYICGTDEYGTATETKALEEGLTPQELCD 84 (567)
T ss_pred CCCccceeeecccceecccccccceeeEEeehhhhcccccCCC-----CceEEeccccccchhhHHHHHHccCCHHHHHH
Confidence 355678999999999999999999995 678999999999999 99999999999999999999999999999999
Q ss_pred HHHHHHHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCcccc
Q psy2399 87 NISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQ 166 (232)
Q Consensus 87 ~~~~~~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~ 166 (232)
+++..++..+++++|++|.|.+|+.+.+.+.+|.+|.+|+ ++|++-+..-.+.||..|++||+|++|+|.||.|+..++
T Consensus 85 Kyh~ihk~vy~Wf~IdfD~fgrtTT~~qT~i~Q~iF~kl~-~ng~~se~tv~qLyC~vc~~fladr~veg~cp~C~yd~A 163 (567)
T KOG1247|consen 85 KYHGIHKVVYDWFKIDFDEFGRTTTKTQTEICQDIFSKLY-DNGYLSEQTVKQLYCEVCDTFLADRFVEGKCPFCGYDDA 163 (567)
T ss_pred hcchhHHHHHHhhcccccccCcccCcchhHHHHHHhhchh-hcCCcccceeeeEEehhhcccccchhhhccCCCCCCccc
Confidence 9999999999999999999999999999999999999999 999999999999999999999999999999999999999
Q ss_pred CCCcCccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhhhcC---CCCCCC
Q psy2399 167 YGDFCECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHD---KRLQPE 229 (232)
Q Consensus 167 ~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~---~~~~p~ 229 (232)
+|++|++||..+.+.+|++|+|.+|...|+.+...|+||.| ++++++|.+|+-++ +.|.++
T Consensus 164 RGDqcd~cG~l~N~~el~~pkc~ic~~~p~~~~t~h~Fl~L--~kl~~~lee~~~~~~~~~~WS~N 227 (567)
T KOG1247|consen 164 RGDQCDKCGKLVNAAELKIPKCKICQAGPVVRQTQHLFLSL--DKLEPRLEEWLRRTLVEGDWSQN 227 (567)
T ss_pred cchhhhhhhhhcCHHHhcCcchheeccCCeeeeeeEEEEEh--HHhHHHHHHHHHhccccCCCccc
Confidence 99999999999999999999999999999999999999999 99999999995432 346554
No 16
>PRK13208 valS valyl-tRNA synthetase; Reviewed
Probab=100.00 E-value=5.2e-39 Score=316.21 Aligned_cols=140 Identities=24% Similarity=0.319 Sum_probs=132.3
Q ss_pred CCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHH-cCCCHH------
Q psy2399 10 DVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEK-AGMTPK------ 82 (232)
Q Consensus 10 ~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~-~g~~~~------ 82 (232)
++++|+|++|||||||.|||||+++++++|+++||+||+| ++|.+++|||+||+||+.+|++ +|++++
T Consensus 36 ~~~~f~i~~ppPy~nG~lHiGH~~~~~~~D~~~R~~r~~G-----~~v~~~~G~D~~Glpie~~~ek~~g~~~~~~~~~~ 110 (800)
T PRK13208 36 RKPVYSIDTPPPTVSGSLHIGHVFSYTHTDFIARYQRMRG-----YNVFFPQGWDDNGLPTERKVEKYYGIRKDDISREE 110 (800)
T ss_pred CCCcEEEecCcCCCCCCccHHHHHhHHHHHHHHHHHHcCC-----CcccCCCCcCCCcchHHHHHHHHhCCCcccCCHHH
Confidence 3577999999999999999999999999999999999999 9999999999999999999998 588876
Q ss_pred ------HHHHHHHHHHHHHHhccCCc--CCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCccccccee
Q psy2399 83 ------EFINNISSNRKKYLDGFYIK--FDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYI 154 (232)
Q Consensus 83 ------e~~~~~~~~~~~~l~~lgI~--~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v 154 (232)
++++++.+.++++|++||++ |+++++|+++.|.+.++++|.+|+ ++|+||++.+.++|||.|+|+|+|.+|
T Consensus 111 f~~~~~~~~~~~~~~~~~~~~~lg~s~Dw~~~~~T~d~~~~~~v~~~f~~L~-~~Gliy~~~~~v~wcp~~~t~Lsd~ev 189 (800)
T PRK13208 111 FIELCRELTDEDEKKFRELWRRLGLSVDWSLEYQTISPEYRRISQKSFLDLY-KKGLIYRAEAPVLWCPRCETAIAQAEV 189 (800)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCeeeccCCCcccCCHHHHHHHHHHHHHHH-HCCCeeecCcccccCCCCCCccchhhh
Confidence 58999999999999999994 558999999999999999999999 999999999999999999999999966
Q ss_pred c
Q psy2399 155 K 155 (232)
Q Consensus 155 ~ 155 (232)
+
T Consensus 190 ~ 190 (800)
T PRK13208 190 E 190 (800)
T ss_pred c
Confidence 3
No 17
>PRK00390 leuS leucyl-tRNA synthetase; Validated
Probab=100.00 E-value=1e-38 Score=313.60 Aligned_cols=172 Identities=25% Similarity=0.331 Sum_probs=161.2
Q ss_pred CcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHH
Q psy2399 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSN 91 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~ 91 (232)
++++|+++||||||.|||||+++++++|+++||+||+| ++|.+++|||+||+||+.+|++.|++|.++++++.+.
T Consensus 32 ~~~~i~~~pPy~nG~lHiGH~~~~~~~Dii~Ry~rm~G-----~~V~~~~G~D~~Glpie~~a~~~g~~~~~~~~~~~~~ 106 (805)
T PRK00390 32 KKYYVLDMFPYPSGGLHMGHVRNYTIGDVIARYKRMQG-----YNVLHPMGWDAFGLPAENAAIKTGTHPAEWTYENIAN 106 (805)
T ss_pred CCEEEEccCCCCCCCcchhhhHHHHHHHHHHHHHHhcC-----CcccccCccCCCCCHHHHHHHHcCCCHHHHHHHHHHH
Confidence 47999999999999999999999999999999999999 9999999999999999999999999999999999999
Q ss_pred HHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCC
Q psy2399 92 RKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGD 169 (232)
Q Consensus 92 ~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~ 169 (232)
++++|++||| +|+++++|+++.|.+.++++|.+|+ ++|+||++...++||+.|+++|++.+|+
T Consensus 107 ~~~~~~~lGi~~Dw~~~~~T~~~~~~~~v~~~f~~L~-~~Gliy~~~~~v~wcp~~~t~La~~ev~-------------- 171 (805)
T PRK00390 107 MKKQLKSLGFSYDWSREIATCDPEYYKWTQWIFLKLY-EKGLAYRKESPVNWCPVDGTVLANEQVI-------------- 171 (805)
T ss_pred HHHHHHHhCCcccCCCCeecCCHHHHHHHHHHHHHHH-HCCCEEEecCEEEecCCcCCCCCHHHhh--------------
Confidence 9999999999 5568999999999999999999999 9999999999999988888888888775
Q ss_pred cCccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhh
Q psy2399 170 FCECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWA 220 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~ 220 (232)
++.|..||.+++.+++++|||+| ++|+++|.++|
T Consensus 172 ---------------~~~~~~~~~~~~~~~~~~~f~~i--~~~~~~L~~~l 205 (805)
T PRK00390 172 ---------------DGRCWRCGAPVEKKELRQWFLKI--TDYADELLDDL 205 (805)
T ss_pred ---------------CCeecccCCeeEEEecceeeEec--chhHHHHHHHH
Confidence 23355677899999999999999 99999999994
No 18
>TIGR00422 valS valyl-tRNA synthetase. The valyl-tRNA synthetase (ValS) is a class I amino acyl-tRNA ligase and is particularly closely related to the isoleucyl tRNA synthetase.
Probab=100.00 E-value=3.8e-38 Score=312.17 Aligned_cols=211 Identities=22% Similarity=0.262 Sum_probs=181.2
Q ss_pred CCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHc----CCCH----
Q psy2399 10 DVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKA----GMTP---- 81 (232)
Q Consensus 10 ~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~----g~~~---- 81 (232)
++++|+|++||||+||.|||||+++++++|+++||+||+| ++|.+++|+|+||+||+.++++. |.++
T Consensus 31 ~~~~f~i~~ppPy~nG~lHiGH~~~~~~~D~~~Ry~rm~G-----~~vl~~~G~D~~Glp~e~~vek~~~~~g~~~~~~~ 105 (861)
T TIGR00422 31 NKPPFCIDIPPPNVTGSLHIGHALNWSIQDIIARYKRMKG-----YNVLWLPGTDHAGIATQVKVEKKLGAEGKTKHDLG 105 (861)
T ss_pred CCCeEEEEeCCCCCCCCCcHHHhHHHHHHHHHHHHHHhcC-----CcccCCCCcCcCCCcHHHHHHHHhcccCCchhhCC
Confidence 4577999999999999999999999999999999999999 99999999999999999998863 5555
Q ss_pred --------HHHHHHHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCccccc
Q psy2399 82 --------KEFINNISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPD 151 (232)
Q Consensus 82 --------~e~~~~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~ 151 (232)
.++++++.+.++++|++||+ +|++.+.|+++.|.+.|+++|.+|+ ++|+||++.+.++|||.|+|+|+|
T Consensus 106 ~e~f~~~~~~~~~~~~~~~~~~~~~lG~s~Dw~r~~~T~d~~~~~~v~~~F~~L~-~~GlIy~~~~~v~wcp~~~t~lsd 184 (861)
T TIGR00422 106 REEFREKIWEWKEESGGTIKNQIKRLGASLDWSRERFTMDEGLSKAVKEAFVRLY-EKGLIYRGEYLVNWDPKLNTAISD 184 (861)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCeeeecCCCcCcCCHHHHHHHHHHHHHHH-HCCCeeecCcccccCCCCCCcchH
Confidence 36789999999999999998 4556677999999999999999999 999999999999999999999999
Q ss_pred ceec----------------------------------------------------------------------------
Q psy2399 152 RYIK---------------------------------------------------------------------------- 155 (232)
Q Consensus 152 ~~v~---------------------------------------------------------------------------- 155 (232)
.+|+
T Consensus 185 ~Ev~~~~~~~~~~~i~f~~~~~~~~~l~vaTtrPeTl~~~~av~V~P~~~ry~~l~g~~~~~P~~~~~ipii~~~~V~~~ 264 (861)
T TIGR00422 185 IEVEYKEVKGKLYYIRYPLANGSKDYLVVATTRPETMFGDTAVAVHPEDERYKHLIGKKVILPLTGRKIPIIADEYVDME 264 (861)
T ss_pred hHhhcccccceEEEEEEEecCCCCCEEEEEeCCcchhhhCeEEEECCCchHHHHhcCCEEEcCCCCCcceeeecCCCCcc
Confidence 8641
Q ss_pred -c-----CCCCCCcc----------------ccCCCcCccCCCC------------------------CCCccccCCccc
Q psy2399 156 -G-----ECPICNAK----------------DQYGDFCECCSSI------------------------YTPTKLINPYSI 189 (232)
Q Consensus 156 -g-----~cp~c~~~----------------~~~g~~Ce~Cg~~------------------------~~~~~l~~~~~~ 189 (232)
| .||.++.. +..|..|++||.+ ..+-+...|.|.
T Consensus 265 ~GTG~V~~~Pah~~~D~~~~~~~~l~~~~~id~~G~~~~~~~~~~G~~~~~ar~~i~~~L~~~g~l~~~~~~~~~~p~~~ 344 (861)
T TIGR00422 265 FGTGAVKVTPAHDFNDYEWGKRHNLEFINILDEDGLLNENAGKYQGLTRFEARKKIVEDLKEEGLLVKIEPHTHNVGTCW 344 (861)
T ss_pred cCCCceEecCCCChHHHHHHHHcCCCccceeCCCCeEcCCCcccCCcCHHHhHHHHHHHHHhCCCeeeeeeeeccCCEeC
Confidence 2 37776543 3567888888875 223344678999
Q ss_pred CCCCccEEEEccceeEecCChhhHHHHHhhhhcCC--CCCCC
Q psy2399 190 LSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHDK--RLQPE 229 (232)
Q Consensus 190 ~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~~--~~~p~ 229 (232)
.||.+++.+.++||||++ +++++++.++ ++++ .+.|+
T Consensus 345 R~g~~ve~~~~~qWFi~~--~~~~~~~~~~-~~~~~i~~~P~ 383 (861)
T TIGR00422 345 RSGTVVEPLLSKQWFVKV--EKLADKALEA-AEEGEIKFVPK 383 (861)
T ss_pred CCCCEEEEEecCcceEec--HHHHHHHHHH-hhcCCeEEECh
Confidence 999999999999999999 9999999999 5432 34554
No 19
>COG0495 LeuS Leucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.4e-37 Score=299.09 Aligned_cols=181 Identities=25% Similarity=0.332 Sum_probs=163.3
Q ss_pred CcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHH
Q psy2399 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSN 91 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~ 91 (232)
++|||+.+.|||||.||+||.|+|+++|+++||+||+| |+|+|.+|||..|+|++..|.+.|.+|..++..+++.
T Consensus 34 ~Kfyvl~mfPYpSG~LHvGH~r~Yti~Dv~aRykRm~G-----yNVL~PMGwdafGlPae~~A~~~~~~P~~wt~~ni~~ 108 (814)
T COG0495 34 EKFYVLVMFPYPSGALHVGHVRNYTIGDVIARYKRMQG-----YNVLHPMGWDAFGLPAENAAIKIGTDPAKWTYYNIAY 108 (814)
T ss_pred CceEEEeCCCCCCCCcccCccccccHHHHHHHHHHhcC-----CeecccCcccccCchHHHHHHHhCCChHHHHHHHHHH
Confidence 59999999999999999999999999999999999999 9999999999999999999999999999999999999
Q ss_pred HHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCC
Q psy2399 92 RKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGD 169 (232)
Q Consensus 92 ~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~ 169 (232)
++++|++||. ||++-+.|+||+|..++|++|.+|+ ++|+||+++..+.|||.+++.|.+.+|
T Consensus 109 ~k~qlk~lG~siDW~Ref~T~Dp~Yyk~~QW~F~kL~-ekGL~y~~~~~VnwcP~d~tvlaneqv--------------- 172 (814)
T COG0495 109 MKKQLKSLGFSIDWRREFATCDPEYYKWIQWQFLKLY-EKGLAYRKEAPVNWCPVDGTVLANEQV--------------- 172 (814)
T ss_pred HHHHHHHhCCccccccceecCCccHHHHHHHHHHHHH-HCCCEEeccccceeCCCcCCcccccee---------------
Confidence 9999999996 7778899999999999999999999 999999999999996666666555544
Q ss_pred cCccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhhhcCCCCCCC
Q psy2399 170 FCECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHDKRLQPE 229 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~~~~~p~ 229 (232)
+++.|..||.+++.++..+|||++ ++|.++|++-|..-.-.+|+
T Consensus 173 --------------~~g~~~r~~~~V~~kel~qw~~ki--t~yae~ll~~l~~l~~~wPE 216 (814)
T COG0495 173 --------------IDGGCWRCGEPVEIKELTQWFFKI--TDYADELLDDLDKLATLWPE 216 (814)
T ss_pred --------------ecCCcccCCCceeEeeeEEEEEEe--chhHHHHHhhhhhhccCCch
Confidence 556677899999999999999999 99999999874332323444
No 20
>PRK05729 valS valyl-tRNA synthetase; Reviewed
Probab=100.00 E-value=5.2e-36 Score=297.17 Aligned_cols=210 Identities=20% Similarity=0.244 Sum_probs=175.8
Q ss_pred CCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHH----cCCCHHH---
Q psy2399 11 VRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEK----AGMTPKE--- 83 (232)
Q Consensus 11 ~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~----~g~~~~e--- 83 (232)
+++|+|++||||+||.|||||+++++++|+++||+||+| ++|.+++|||+||++++.++++ .|+++.+
T Consensus 35 ~~~f~i~~ppP~~~G~lHiGHa~~~~~~D~~~Ry~rm~G-----~~vl~~~G~D~~Gi~~e~~ve~~l~~~g~~~~~~~r 109 (874)
T PRK05729 35 KKPFSIVIPPPNVTGSLHMGHALNNTLQDILIRYKRMQG-----YNTLWLPGTDHAGIATQMVVERQLAAEGKSRHDLGR 109 (874)
T ss_pred CCCEEEecCCCCCCCcchHHHHHHHHHHHHHHHHHHhCC-----CcccCCCCCCccchhhHHHHHHHHHhcCCChHHCCH
Confidence 456999999999999999999999999999999999999 9999999999999998887765 3776654
Q ss_pred ---------HHHHHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccc
Q psy2399 84 ---------FINNISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDR 152 (232)
Q Consensus 84 ---------~~~~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~ 152 (232)
+++++.+.++++|++||+ +|++.+.|+++.|.+.|+++|.+|+ ++|+||++.+.++|||.|+|+|+|.
T Consensus 110 e~f~~~~~~w~~~~~~~~~~~~~~lG~s~Dw~r~~~T~d~~~~~~v~~~F~~L~-~~GlIyr~~~~v~wcp~~~talsd~ 188 (874)
T PRK05729 110 EKFLEKVWEWKEESGGTITNQLRRLGASCDWSRERFTMDEGLSKAVREVFVRLY-EKGLIYRGKRLVNWDPKLQTALSDL 188 (874)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCcceecCCCcccCCHHHHHHHHHHHHHHH-HCCCEeecCcccccCCCCCCcchhh
Confidence 488899999999999998 5667788999999999999999999 9999999999999999999999999
Q ss_pred eec-----c-------------------------------------------------CCCCCCc----------cc---
Q psy2399 153 YIK-----G-------------------------------------------------ECPICNA----------KD--- 165 (232)
Q Consensus 153 ~v~-----g-------------------------------------------------~cp~c~~----------~~--- 165 (232)
+|+ | .||.|+. ..
T Consensus 189 EV~~~~~~~~~~~i~f~~~~~~~~l~vaTtrPeTl~~~~avaV~P~d~ry~~l~g~~~~~P~~~~~ipii~~~~V~~~~G 268 (874)
T PRK05729 189 EVEYKEVKGKLWHIRYPLADGSDYLVVATTRPETMLGDTAVAVNPEDERYKHLIGKTVILPLVGREIPIIADEYVDPEFG 268 (874)
T ss_pred hcccccccceEEEEEEEecCCCcEEEEEeCCcchhhcCeeEeECCCccHHHHhcCCEEECCCCCCeeeEecCccCCCCCC
Confidence 997 1 3777664 11
Q ss_pred ------------------------------cCCCcCccCCCCCC------------------------CccccCCcccCC
Q psy2399 166 ------------------------------QYGDFCECCSSIYT------------------------PTKLINPYSILS 191 (232)
Q Consensus 166 ------------------------------~~g~~Ce~Cg~~~~------------------------~~~l~~~~~~~~ 191 (232)
..|..+++||.+-. +.+...|.|..|
T Consensus 269 TG~V~~~Pah~~~D~~~~~~~~l~~~~~i~~~G~~~~~~~~~~G~~~~~ar~~i~~~L~~~g~l~~~~~~~~~~p~~~R~ 348 (874)
T PRK05729 269 TGAVKITPAHDPNDFEVGKRHNLPMINIMDEDGTINENPGEYQGLDRFEARKAIVADLEELGLLVKIEPHTHSVGHSDRS 348 (874)
T ss_pred CcceEecCCCCHHHHHHHHHcCCCcccccCCCCeEcCCCcccCCCCHHHHHHHHHHHHHhCCCeeeeEEeeccCCeeCCC
Confidence 23334444543211 112346899999
Q ss_pred CCccEEEEccceeEecCChhhHHHHHhhhhcCC--CCCCC
Q psy2399 192 GTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHDK--RLQPE 229 (232)
Q Consensus 192 g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~~--~~~p~ 229 (232)
|.+++.+..+||||++ +++++++.++ ++++ .+.|+
T Consensus 349 ~~~i~~~~~~QWFi~~--~~~~~~~~~~-v~~~~i~~~P~ 385 (874)
T PRK05729 349 GVVIEPYLSDQWFVKM--KPLAKPALEA-VENGEIKFVPE 385 (874)
T ss_pred CceEEEEecCcceEeh--HHHHHHHHHH-HhcCCcEEECh
Confidence 9999999999999999 9999999999 5432 45554
No 21
>cd00812 LeuRS_core catalytic core domain of leucyl-tRNA synthetases. Leucyl tRNA synthetase (LeuRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. In Aquifex aeolicus, the gene encoding LeuRS is split in two, just before the KMSKS motif. Consequently, LeuRS is a heterodimer, which likely superimposes with the LeuRS monomer found in most other organisms. LeuRS has an insertion in the core domain, which is subject to both deletions and rearrangements and thus differs between prokaryotic LeuRS and archaeal/eukaryotic LeuRS. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids.
Probab=100.00 E-value=1.2e-35 Score=264.09 Aligned_cols=150 Identities=26% Similarity=0.382 Sum_probs=142.5
Q ss_pred cEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHH
Q psy2399 13 RIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNR 92 (232)
Q Consensus 13 ~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~ 92 (232)
|++||+|||||||.+||||+++++.+|+++||+|++| ++|.+++|+|+||+||+.+|++.|++|+++++++.+.+
T Consensus 1 k~~it~~~Py~ng~~HiGH~~~~v~~Dv~~R~lr~~G-----~~V~~v~g~Dd~g~~i~~~a~~~g~~~~e~~~~~~~~~ 75 (314)
T cd00812 1 KFYILVMFPYPSGALHVGHVRTYTIGDIIARYKRMQG-----YNVLFPMGFDAFGLPAENAAIKIGRDPEDWTEYNIKKM 75 (314)
T ss_pred CeEEecCCCCCCCCccccchHHHHHHHHHHHHHHHcC-----CCcCCCCCcCCCCCHHHHHHHHcCCCHHHHHHHHHHHH
Confidence 5899999999999999999999999999999999999 99999999999999999999999999999999999999
Q ss_pred HHHHhccCCcCC--ccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCCc
Q psy2399 93 KKYLDGFYIKFD--NWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDF 170 (232)
Q Consensus 93 ~~~l~~lgI~~d--~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~ 170 (232)
+++|++|||++| .+++|++++|.+.++++|.+|+ ++|+||+++..++||
T Consensus 76 ~~~~~~lgi~~d~~~~~~t~~~~~~~~v~~~f~~L~-~~G~iy~~~~~v~~~---------------------------- 126 (314)
T cd00812 76 KEQLKRMGFSYDWRREFTTCDPEYYKFTQWLFLKLY-EKGLAYKKEAPVNWC---------------------------- 126 (314)
T ss_pred HHHHHHhccceecccccccCCHHHHHHHHHHHHHHH-HCCCEEecCceeeee----------------------------
Confidence 999999999877 6789999999999999999999 999999999999993
Q ss_pred CccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhhhcCC
Q psy2399 171 CECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHDK 224 (232)
Q Consensus 171 Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~~ 224 (232)
+.++||||+|+.++|++.|.+| +++.
T Consensus 127 ---------------------------~~~~~~f~~l~~~~~~~~l~~~-l~~~ 152 (314)
T cd00812 127 ---------------------------KLLDQWFLKYSETEWKEKLLKD-LEKL 152 (314)
T ss_pred ---------------------------CccceEEEEcCcHHHHHHHHHH-HHhc
Confidence 7789999999778999999999 5443
No 22
>cd00818 IleRS_core catalytic core domain of isoleucyl-tRNA synthetases. Isoleucine amino-acyl tRNA synthetases (IleRS) catalytic core domain . This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. IleRS has an insertion in the core domain, which is subject to both deletions and rearrangements. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids.
Probab=100.00 E-value=2.2e-35 Score=264.91 Aligned_cols=157 Identities=24% Similarity=0.316 Sum_probs=145.6
Q ss_pred CcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHc-CCCH---------
Q psy2399 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKA-GMTP--------- 81 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~-g~~~--------- 81 (232)
++|+|.+|||||||++||||+++++++|+++||+|++| ++|.+++|+|+||++|+.+|++. |+++
T Consensus 1 ~~f~i~~~pP~vnG~lHiGHa~~~~~~Dvl~Ry~r~~G-----~~V~~~~g~D~hG~~ie~ka~k~lg~~~~~~~~~~~~ 75 (338)
T cd00818 1 PEFVFHDGPPYANGLPHYGHALNKILKDIINRYKTMQG-----YYVPRRPGWDCHGLPIELKVEKELGISGKKDIEKMGI 75 (338)
T ss_pred CCeEEecCCCCCCCCchHHHHHHHHHHHHHHHHHHhcC-----CccCCcCCcCCCCchhHHHHHHHhCCCCCcchhhcCH
Confidence 46999999999999999999999999999999999999 99999999999999999999985 8764
Q ss_pred -------HHHHHHHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccc
Q psy2399 82 -------KEFINNISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDR 152 (232)
Q Consensus 82 -------~e~~~~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~ 152 (232)
+++++++.+.|+++|++||| ++|.+++|++++|.+.++++|.+|+ ++|+||++++.++|
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~~~lgi~~~~~~~~~T~~~~~~~~v~~~f~~L~-~~G~iY~~~~~v~~----------- 143 (338)
T cd00818 76 AEFNAKCREFALRYVDEQEEQFQRLGVWVDWENPYKTMDPEYMESVWWVFKQLH-EKGLLYRGYKVVPW----------- 143 (338)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCceecCCCCeECCCHHHHHHHHHHHHHHH-HCCCEeccCCeeee-----------
Confidence 68999999999999999999 8889999999999999999999999 99999999999988
Q ss_pred eeccCCCCCCccccCCCcCccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhhhcCCCCCCC
Q psy2399 153 YIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHDKRLQPE 229 (232)
Q Consensus 153 ~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~~~~~p~ 229 (232)
++++++++||||+| ++++++|.++ ++...+.|+
T Consensus 144 -----------------------------------------~v~~~~~~qwf~~l--~~~~~~l~~~-~~~~~~~P~ 176 (338)
T cd00818 144 -----------------------------------------PLIYRATPQWFIRV--TKIKDRLLEA-NDKVNWIPE 176 (338)
T ss_pred -----------------------------------------EEEEEecCeEEEEc--HHHHHHHHHH-HhcCcEECH
Confidence 77899999999999 9999999999 554334454
No 23
>KOG0435|consensus
Probab=100.00 E-value=2.4e-35 Score=274.18 Aligned_cols=178 Identities=25% Similarity=0.327 Sum_probs=168.4
Q ss_pred cCCCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHH
Q psy2399 7 EFKDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFIN 86 (232)
Q Consensus 7 ~~~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~ 86 (232)
.++++++ ||+++.|||+|.|||||.|-|+++|+++||.||+| |+|.+.+|||.+|+|.+.+|.+.|++|..+..
T Consensus 53 ~d~sk~K-YiLsMFPYPSG~LHiGHvRVYTIsD~laRf~rm~G-----ynVihPMGWDaFGLPAENAAiergv~P~sWT~ 126 (876)
T KOG0435|consen 53 SDKSKKK-YILSMFPYPSGALHIGHVRVYTISDILARFYRMKG-----YNVIHPMGWDAFGLPAENAAIERGVHPASWTI 126 (876)
T ss_pred cccCCCc-eEEEecCCCCCcccccceEEEEehHHHHHHHHhcC-----ceeecCCcccccCCchhhHHHhcCCCchhhhH
Confidence 3556666 99999999999999999999999999999999999 99999999999999999999999999999999
Q ss_pred HHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCcc
Q psy2399 87 NISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAK 164 (232)
Q Consensus 87 ~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~ 164 (232)
.+++.++++|++||| +||+.++|.+|+|..+.|++|.+|+ ++|++|+.+..+.|||.++|.|++.+|.
T Consensus 127 ~NI~~Mk~Ql~~lg~~FDWdrEiSTC~PdYYKWTQwiFlkLf-e~GLAYq~Ea~VNWDPvD~TVLAnEQVD--------- 196 (876)
T KOG0435|consen 127 NNIAKMKQQLKSLGISFDWDREISTCEPDYYKWTQWIFLKLF-EKGLAYQAEAEVNWDPVDKTVLANEQVD--------- 196 (876)
T ss_pred HHHHHHHHHHHHcCcccccccccccCCcchhHHHHHHHHHHH-HhhhhhccccccccCcccceeecchhhc---------
Confidence 999999999999999 7889999999999999999999999 9999999999999999999999988884
Q ss_pred ccCCCcCccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhhh
Q psy2399 165 DQYGDFCECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAI 221 (232)
Q Consensus 165 ~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~ 221 (232)
.++++..+|+++|.+...+||+++ ++|+++|.+.|.
T Consensus 197 -------------------~~G~SWRSGA~VEkK~LrQWfikt--taYAk~L~d~L~ 232 (876)
T KOG0435|consen 197 -------------------ADGCSWRSGAKVEKKKLRQWFIKT--TAYAKRLLDGLE 232 (876)
T ss_pred -------------------ccCccccccchhhHHHHHHHHhhh--hHHHHHHHHHHH
Confidence 356788999999999999999999 999999999854
No 24
>cd00668 Ile_Leu_Val_MetRS_core catalytic core domain of isoleucyl, leucyl, valyl and methioninyl tRNA synthetases. Catalytic core domain of isoleucyl, leucyl, valyl and methioninyl tRNA synthetases. These class I enzymes are all monomers. However, in some species, MetRS functions as a homodimer, as a result of an additional C-terminal domain. These enzymes aminoacylate the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. Enzymes in this subfamily share an insertion in the core domain, which is subject to both deletions and rearrangements. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids. MetRS has a significantly shorter insertion, which lacks the editing function.
Probab=100.00 E-value=5.1e-33 Score=246.88 Aligned_cols=150 Identities=33% Similarity=0.547 Sum_probs=138.7
Q ss_pred cEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCC-------------
Q psy2399 13 RIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGM------------- 79 (232)
Q Consensus 13 ~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~------------- 79 (232)
+|+|++|||||||.+||||+++++++|+++||+|++| ++|.+++|+|+||+||+.+|++.+.
T Consensus 1 ~~~i~~~pP~~~g~~HiGH~~~~i~~D~i~R~~r~~G-----~~v~~~~g~D~~g~~i~~~a~~~~~~~~~~~~~~~~~~ 75 (312)
T cd00668 1 KFYVTTPPPYANGSLHLGHALTHIIADFIARYKRMRG-----YEVPFLPGWDTHGLPIELKAERKGGRKKKTIWIEEFRE 75 (312)
T ss_pred CEEEecCCCCCCCCcchhHHHHHHHHHHHHHHHHhCC-----CCCCCCCccCCCCHHHHHHHHHhcCcccccccHHHHHH
Confidence 5899999999999999999999999999999999999 9999999999999999999999887
Q ss_pred CHHHHHHHHHHHHHHHHhccCCcCC--ccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccC
Q psy2399 80 TPKEFINNISSNRKKYLDGFYIKFD--NWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGE 157 (232)
Q Consensus 80 ~~~e~~~~~~~~~~~~l~~lgI~~d--~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~ 157 (232)
++.++++++.+.|+++|++|||++| .+++|+++.|.+.++++|.+|. ++|+||++...+
T Consensus 76 ~~~~~~~~~~~~~~~~l~~lgI~~Dw~~~~~T~~~~~~~~v~~~f~~L~-~~G~iY~~~~~v------------------ 136 (312)
T cd00668 76 DPKEFVEEMSGEHKEDFRRLGISYDWSDEYITTEPEYSKAVELIFSRLY-EKGLIYRGTHPV------------------ 136 (312)
T ss_pred HHHHHHHHHHHHHHHHHHHhCccccCCCCeECCCHHHHHHHHHHHHHHH-HCCCEEeeccee------------------
Confidence 8999999999999999999999766 9999999999999999999999 999999987544
Q ss_pred CCCCCccccCCCcCccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhhhcCCCCCCC
Q psy2399 158 CPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHDKRLQPE 229 (232)
Q Consensus 158 cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~~~~~p~ 229 (232)
+.+++|||++ +++++++.++ ++...+.|+
T Consensus 137 ----------------------------------------~~~~~~f~~~--~~l~~~~~~~-~~~~~~~p~ 165 (312)
T cd00668 137 ----------------------------------------RITEQWFFDM--PKFKEKLLKA-LRRGKIVPE 165 (312)
T ss_pred ----------------------------------------EeeeeEEEEc--HHHHHHHHHH-HhcCCcCCh
Confidence 7888999999 9999999999 544435554
No 25
>PLN02943 aminoacyl-tRNA ligase
Probab=99.98 E-value=8e-32 Score=268.67 Aligned_cols=141 Identities=20% Similarity=0.231 Sum_probs=129.7
Q ss_pred CCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHc----CCCHH---
Q psy2399 10 DVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKA----GMTPK--- 82 (232)
Q Consensus 10 ~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~----g~~~~--- 82 (232)
++++|+|+.||||+||.|||||+++++++|+++||+||+| ++|.++.|||+||++++.++++. |+++.
T Consensus 86 ~~~~f~i~~pPP~~tG~lHiGHa~~~~~~D~~~Ry~rm~G-----~~vl~~~G~D~~Gl~~e~~vek~l~~~~~~~~~~~ 160 (958)
T PLN02943 86 GGDPFVIPMPPPNVTGSLHMGHAMFVTLEDIMVRYNRMKG-----RPTLWIPGTDHAGIATQLVVEKMLASEGIKRTDLG 160 (958)
T ss_pred CCCCEEEecCCCCCCCchhHHHHHHHHHHHHHHHHHHhcC-----CeeecCCCCCcccchhHHHHHHHHHHcCCChhhCC
Confidence 4567999999999999999999999999999999999999 99999999999999999988763 65443
Q ss_pred ---------HHHHHHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCccccc
Q psy2399 83 ---------EFINNISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPD 151 (232)
Q Consensus 83 ---------e~~~~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~ 151 (232)
++++++.+.+++++++||+ +|++.+.|+++.|.+.++++|.+|+ ++|+||++.++++|||.|+|.|++
T Consensus 161 re~f~~~~~~~~~~~~~~~~~~~~~lG~s~Dw~~~~~T~d~~~~~~v~~~F~~l~-~~Gliyr~~~~V~wcp~~~Tals~ 239 (958)
T PLN02943 161 RDEFTKRVWEWKEKYGGTITNQIKRLGASCDWSRERFTLDEQLSRAVVEAFVRLH-EKGLIYQGSYMVNWSPNLQTAVSD 239 (958)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHhCcceecCCCcccCCHHHHHHHHHHHHHHH-HCCCEEecCceeccCCCCCCCcCH
Confidence 3567889999999999998 6778999999999999999999999 999999999999999999999999
Q ss_pred ceecc
Q psy2399 152 RYIKG 156 (232)
Q Consensus 152 ~~v~g 156 (232)
.+|+.
T Consensus 240 ~Evey 244 (958)
T PLN02943 240 LEVEY 244 (958)
T ss_pred HHhhc
Confidence 98863
No 26
>PRK05743 ileS isoleucyl-tRNA synthetase; Reviewed
Probab=99.98 E-value=4.3e-32 Score=269.81 Aligned_cols=142 Identities=20% Similarity=0.300 Sum_probs=134.7
Q ss_pred CCCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHc------CCCH
Q psy2399 8 FKDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKA------GMTP 81 (232)
Q Consensus 8 ~~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~------g~~~ 81 (232)
++++++|+|++||||+||.|||||+++++++|+++||+||+| ++|.+++|||+||+||+.+|++. ++++
T Consensus 45 ~~~~~~f~i~~~pPyanG~lHiGHa~~~~~~Dii~Ry~rm~G-----~~v~~~~G~D~~Glpie~~~ek~l~~~~~~~~~ 119 (912)
T PRK05743 45 NKGKPKFILHDGPPYANGDIHIGHALNKILKDIIVKSKTMSG-----FDAPYVPGWDCHGLPIELKVEKKLGKKGKKLSA 119 (912)
T ss_pred cCCCCcEEEeCCCCCCCCCccHHHHHHHHHHHHHHHHHHccC-----CcccCCCCcCCCccHhHHHHHHHcCCccccCCH
Confidence 355677999999999999999999999999999999999999 99999999999999999999884 6777
Q ss_pred HH-------HHHHHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccc
Q psy2399 82 KE-------FINNISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDR 152 (232)
Q Consensus 82 ~e-------~~~~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~ 152 (232)
++ +++++.+.++++|++||+ +|++++.|+++.|.+.++++|.+|+ ++|+||++.++++|||.|+|.|+|.
T Consensus 120 ~~f~~~c~~~~~~~~~~~~~~~~~lG~~~dw~~~~~T~~~~~~~~v~~~f~~l~-~~Gliy~~~~~v~w~p~~~TaLad~ 198 (912)
T PRK05743 120 AEFRKKCREYALEQVDIQREDFKRLGVLGDWDNPYLTMDFKYEANIIRALGKMA-KKGYLYKGLKPVYWCPDCGSALAEA 198 (912)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHhCCcccCCCCcCCCCHHHHHHHHHHHHHHH-HCCCEEecceeEecCCCcCCCchhh
Confidence 75 788889999999999999 8999999999999999999999999 9999999999999999999999999
Q ss_pred eec
Q psy2399 153 YIK 155 (232)
Q Consensus 153 ~v~ 155 (232)
+|+
T Consensus 199 Eve 201 (912)
T PRK05743 199 EVE 201 (912)
T ss_pred Hhh
Confidence 997
No 27
>TIGR00392 ileS isoleucyl-tRNA synthetase. The isoleucyl tRNA synthetase (IleS) is a class I amino acyl-tRNA ligase and is particularly closely related to the valyl tRNA synthetase. This model may recognize IleS from every species, including eukaryotic cytosolic and mitochondrial forms.
Probab=99.97 E-value=2e-31 Score=264.35 Aligned_cols=143 Identities=22% Similarity=0.303 Sum_probs=134.0
Q ss_pred CCCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHc-CCC------
Q psy2399 8 FKDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKA-GMT------ 80 (232)
Q Consensus 8 ~~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~-g~~------ 80 (232)
++++++|+|+.|||||||.|||||+++++++|+++||+||+| ++|.+++|||+||+||+.+|++. |++
T Consensus 32 ~~~~~~f~i~~~pPy~nG~lH~GH~~~~~~~D~~~Ry~rm~G-----~~v~~~~G~D~~Glpie~~~ek~l~~~~~~~~~ 106 (861)
T TIGR00392 32 NKGKPEFIFHDGPPYANGSIHLGHALNKILKDIILRYKTMQG-----FNVTRKPGWDTHGLPIEHKVEKKLGISGKKEIS 106 (861)
T ss_pred cCCCCCeEEecCCCCCCCCccHHHHHHHHHHHHHHHHHHcCC-----CccCCCCCcCCCccHHHHHHHHHhCcccccccc
Confidence 345678999999999999999999999999999999999999 99999999999999999999875 654
Q ss_pred H----------HHHHHHHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcc
Q psy2399 81 P----------KEFINNISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIF 148 (232)
Q Consensus 81 ~----------~e~~~~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~ 148 (232)
+ .++++++.+.++++|++||+ +|++.+.|+++.|.+.++++|.+|+ ++|+||++..+++|||.|+|.
T Consensus 107 ~~~~~~f~~~c~~~~~~~~~~~~~~~~~lG~~~dw~~~y~T~~p~y~~~~~~~f~~l~-~~gliyr~~~~v~w~p~~~T~ 185 (861)
T TIGR00392 107 SLEIEEFREKCREFALKQIEEQREQFQRLGVWGDWENPYKTMDPSYEESQWWLFKEAH-EKGLLYRGLKPVYWSPRCRTA 185 (861)
T ss_pred hhhHHHHHHHHHHHHHHHHHHHHHHHHHhCceecCCCCcCcCCHHHHHHHHHHHHHHH-HCCCEeecceeeecCCCcCCc
Confidence 3 36888999999999999999 8899999999999999999999999 999999999999999999999
Q ss_pred cccceecc
Q psy2399 149 LPDRYIKG 156 (232)
Q Consensus 149 l~~~~v~g 156 (232)
|++.+|+.
T Consensus 186 La~~Ev~~ 193 (861)
T TIGR00392 186 LAEAEVEY 193 (861)
T ss_pred ccHHHHhc
Confidence 99999964
No 28
>PRK06039 ileS isoleucyl-tRNA synthetase; Reviewed
Probab=99.97 E-value=3e-31 Score=265.39 Aligned_cols=141 Identities=22% Similarity=0.265 Sum_probs=133.9
Q ss_pred CCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHH-cCCC-------
Q psy2399 9 KDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEK-AGMT------- 80 (232)
Q Consensus 9 ~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~-~g~~------- 80 (232)
.++++|+++.|||||||.||+||+++++++|+++||+||+| ++|.++.|||+||+||+.++++ +|++
T Consensus 38 ~~~~~f~i~~~PPy~nG~lH~GH~l~~t~kD~i~Ry~rm~G-----~~v~~~~GwD~~GlPie~~vek~l~~~~~~~i~~ 112 (975)
T PRK06039 38 EGGPEFVFYDGPPTANGLPHYGHLLTRTIKDVVPRYKTMKG-----YKVERRAGWDTHGLPVELEVEKELGISGKKDIEE 112 (975)
T ss_pred CCCCCEEEeCCCCCCCCCccHhhhHhhHHHHHHHHHHHhCC-----CcccCcCCcCCCccHHHHHHHHHhCcccccchhh
Confidence 45678999999999999999999999999999999999999 9999999999999999999987 5765
Q ss_pred ---------HHHHHHHHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCccc
Q psy2399 81 ---------PKEFINNISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFL 149 (232)
Q Consensus 81 ---------~~e~~~~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l 149 (232)
+.+++.++.+.+++++++||+ +|++.+.|+++.|.+.++++|.+|+ ++|+||++.+.++|||.|+|.|
T Consensus 113 ~g~~~f~~~c~~~~~~~~~~~~~~~~rlG~~~Dw~~~y~T~d~~y~~~v~~~F~~l~-~kGliyr~~~~v~wcp~~~T~L 191 (975)
T PRK06039 113 YGIEKFNEKCRESVLRYTDEWEEYTERLGRWVDFDNPYKTLDNEYMESVWWALKQLY-DKGLLYKGYRVVPYCPRCETPL 191 (975)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHhCceeecCCCcCcCCHHHHHHHHHHHHHHH-HCCCEEecceeeeecCCCCCCc
Confidence 567899999999999999995 8999999999999999999999999 9999999999999999999999
Q ss_pred ccceec
Q psy2399 150 PDRYIK 155 (232)
Q Consensus 150 ~~~~v~ 155 (232)
++.+|+
T Consensus 192 s~~Ev~ 197 (975)
T PRK06039 192 SNHEVA 197 (975)
T ss_pred cHHHHh
Confidence 999997
No 29
>PRK13804 ileS isoleucyl-tRNA synthetase; Provisional
Probab=99.97 E-value=4.3e-31 Score=263.51 Aligned_cols=142 Identities=20% Similarity=0.304 Sum_probs=130.5
Q ss_pred CCCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHc----CC----
Q psy2399 8 FKDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKA----GM---- 79 (232)
Q Consensus 8 ~~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~----g~---- 79 (232)
++++++|+|++||||+||.|||||++++++.|+++||+||+| ++|.++.|||+||+||+.++++. |.
T Consensus 50 ~~~~~~f~l~dgPPyanG~lHiGHaln~~lkDii~Ry~rm~G-----~~v~~~pGwD~hGlPiE~~vek~~~~~~~~~~~ 124 (961)
T PRK13804 50 AKGRPKFVLHDGPPYANGNIHIGHALNKILKDVIVRSKQMLG-----FDANYVPGWDCHGLPIEWKIEEKYRAKGKNKDE 124 (961)
T ss_pred cCCCCcEEEeCCCCCCCCCccHHHHHHHHHHHHHHHHHHhcC-----CcccCCCCcCCCCcHHHHHHHHhhhhcCCChHh
Confidence 356678999999999999999999999999999999999999 99999999999999999999764 33
Q ss_pred -CH-------HHHHHHHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCccc
Q psy2399 80 -TP-------KEFINNISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFL 149 (232)
Q Consensus 80 -~~-------~e~~~~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l 149 (232)
++ .++++++.+.++++|++||+ +|++.+.|+++.|.+.++++|.+|+ ++|+||++..+++|||.|+|.|
T Consensus 125 ~~~~~f~~~c~~~a~~~i~~~~~~~~rlG~~~Dw~~~y~T~d~~y~~~~~~~F~~l~-~kGliyr~~kpV~Wcp~~~TaL 203 (961)
T PRK13804 125 VPVAEFRKECREYALSWIDVQREEFKRLGVLGDWDNPYTTMDFHAEARIAREFGKFA-AKGQLYRGSKPVMWSVVERTAL 203 (961)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHhCceecCCCCcCcCCHHHHHHHHHHHHHHH-HCCCEEeCCcceecCCCCCCCc
Confidence 23 34677888899999999999 6889999999999999999999999 9999999999999999999999
Q ss_pred ccceec
Q psy2399 150 PDRYIK 155 (232)
Q Consensus 150 ~~~~v~ 155 (232)
+|.+|+
T Consensus 204 a~~Eve 209 (961)
T PRK13804 204 AEAEIE 209 (961)
T ss_pred cchhcc
Confidence 997775
No 30
>PF00133 tRNA-synt_1: tRNA synthetases class I (I, L, M and V); InterPro: IPR002300 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. The class Ia aminoacyl-tRNA synthetases consist of the isoleucyl, methionyl, valyl, leucyl, cysteinyl, and arginyl-tRNA synthetases; the class Ib include the glutamyl and glutaminyl-tRNA synthetases, and the class Ic are the tyrosyl and tryptophanyl-tRNA synthetases [].; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 1OBC_A 2AJH_B 4ARI_A 2AJG_B 4AQ7_D 2AJI_B 4ARC_A 4AS1_A 1QU3_A 1QU2_A ....
Probab=99.97 E-value=6.3e-31 Score=251.81 Aligned_cols=144 Identities=28% Similarity=0.391 Sum_probs=125.4
Q ss_pred cCCCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHc-CC------
Q psy2399 7 EFKDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKA-GM------ 79 (232)
Q Consensus 7 ~~~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~-g~------ 79 (232)
.++++++|+|++||||+||.||+||++++++.|+++||+||+| ++|.++.|+|+||+||+.++++. |.
T Consensus 18 ~~~~~~~f~i~~~PPy~nG~lH~GH~~~~~~~D~i~Ry~rm~G-----~~v~~~~G~D~~Glpie~~vek~l~~~~~~~~ 92 (601)
T PF00133_consen 18 KNKNKPKFFIHDPPPYANGDLHIGHALNKTIKDIIARYKRMQG-----YNVLFPPGWDCHGLPIEAKVEKKLGIKEKKDR 92 (601)
T ss_dssp CTTTSGEEEEEE---BTSSS-BHHHHHHHHHHHHHHHHHHCTT-----SEEEEEEEEB--SHHHHHHHHHHTTTTSHHHC
T ss_pred cCCCCCcEEEEeCCCCCCCcccHHHHHHHHHHHHHHHHHHhCC-----cEeCCCCCcCCCCcchhhhHHHhhcccccccc
Confidence 3566788999999999999999999999999999999999999 99999999999999999999873 43
Q ss_pred ---C-------HHHHHHHHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCc
Q psy2399 80 ---T-------PKEFINNISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNI 147 (232)
Q Consensus 80 ---~-------~~e~~~~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~ 147 (232)
+ +.++++++.+.+++++++||+ +|++.+.|+++.|.+.++++|.+|+ ++|+||++.++++|||.|++
T Consensus 93 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lG~~~Dw~~~y~T~d~~y~~~v~~~F~~l~-~kglIyr~~~pv~w~p~~~t 171 (601)
T PF00133_consen 93 KDLGREEFREECREWAEEFIEEQKEQFKRLGVSIDWDREYFTMDPEYEKFVWWQFKKLY-EKGLIYRGKKPVNWCPSCQT 171 (601)
T ss_dssp SCSTHHHHHHHHHHHHHHHHHHHHHHHHHTT--SECTCEEETTSHHHHHHHHHHHHHHH-HTTSEEEEEEEEEEETTTTE
T ss_pred cccccccchhhhcchhhhhhhhhhhhhhheeeecccCCceEECCccHhHHHHHHHHHHH-hcCcEEeeCCCCCcCccccc
Confidence 1 456788889999999999997 7788999999999999999999999 99999999999999999999
Q ss_pred ccccceecc
Q psy2399 148 FLPDRYIKG 156 (232)
Q Consensus 148 ~l~~~~v~g 156 (232)
.|+|.+|+.
T Consensus 172 ~lsd~Ev~~ 180 (601)
T PF00133_consen 172 ALSDHEVEY 180 (601)
T ss_dssp EE-GGGEEE
T ss_pred chhhhhccc
Confidence 999999863
No 31
>PLN02882 aminoacyl-tRNA ligase
Probab=99.97 E-value=2e-30 Score=261.90 Aligned_cols=141 Identities=21% Similarity=0.251 Sum_probs=130.4
Q ss_pred CCCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHH-cCCC------
Q psy2399 8 FKDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEK-AGMT------ 80 (232)
Q Consensus 8 ~~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~-~g~~------ 80 (232)
++++++|++++||||+||.||+||+++++++|+++||+||+| ++|.+++|||+||+||+..+++ +|++
T Consensus 34 ~~~~~~f~~~dgPPyanG~~HiGH~~~~~ikDii~Ry~rm~G-----~~V~~~~GwD~hGlPiE~~vek~lgi~~~~~i~ 108 (1159)
T PLN02882 34 TEGLPEYIFYDGPPFATGLPHYGHILAGTIKDIVTRYQSMTG-----HHVTRRFGWDCHGLPVEYEIDKKLGIKRRDDVL 108 (1159)
T ss_pred cCCCCCEEEeCCCCCCCCcchhhHHHHHHHHHHHHHHHHcCC-----CcccccCccCCCCcHHHHHHHHHcCCCCccchh
Confidence 345677999999999999999999999999999999999999 9999999999999999999965 5653
Q ss_pred ----------HHHHHHHHHHHHHHHHhccC--CcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcc
Q psy2399 81 ----------PKEFINNISSNRKKYLDGFY--IKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIF 148 (232)
Q Consensus 81 ----------~~e~~~~~~~~~~~~l~~lg--I~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~ 148 (232)
+.+++.++.+.+++++++|| ++||+.++|+++.|.+.++++|.+|+ ++|+||++.+.++|||.|+|.
T Consensus 109 ~~g~~~f~~~c~~~~~~~~~~~~~~~~rlG~~~D~~~~y~T~d~~~~~~v~~~f~~l~-~kGliyr~~~~v~wcp~~~Ta 187 (1159)
T PLN02882 109 KMGIDKYNEECRSIVTRYSKEWEKTVTRTGRWIDFENDYKTMDPKFMESVWWVFKQLF-EKGLVYKGFKVMPYSTACKTP 187 (1159)
T ss_pred hcCHHHHHHHHHHHHHHHHHHHHHHHHHcCcEEECCCCcCcCCHHHHHHHHHHHHHHH-HCCCEEecceeEeecCCCCCC
Confidence 34578889999999999999 59999999999999999999999999 999999999999999999999
Q ss_pred ccccee
Q psy2399 149 LPDRYI 154 (232)
Q Consensus 149 l~~~~v 154 (232)
|++.++
T Consensus 188 Ls~~E~ 193 (1159)
T PLN02882 188 LSNFEA 193 (1159)
T ss_pred cchhhh
Confidence 997555
No 32
>PLN02843 isoleucyl-tRNA synthetase
Probab=99.97 E-value=2.2e-30 Score=258.57 Aligned_cols=140 Identities=21% Similarity=0.359 Sum_probs=129.7
Q ss_pred CCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHc-------CCCHHH
Q psy2399 11 VRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKA-------GMTPKE 83 (232)
Q Consensus 11 ~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~-------g~~~~e 83 (232)
+++|+|++||||+||.|||||+++++++|+++||+||+| ++|.++.|||+||+||+.++++. ++++.+
T Consensus 31 ~~~f~i~~~PPy~nG~lHiGHa~~~~lkDii~Ry~rm~G-----~~v~~~pG~D~hGlpie~~vek~l~~~~~~~~~~~~ 105 (974)
T PLN02843 31 GESFTLHDGPPYANGDLHIGHALNKILKDFINRYQLLQG-----KKVHYVPGWDCHGLPIELKVLQSLDQEARKELTPIK 105 (974)
T ss_pred CCCEEEeCCCCCCCCCcchhHHHHHHHHHHHHHHHHhcC-----CccccCCccCCCCcHHHHHHHHHhchhhhccCCHHH
Confidence 466999999999999999999999999999999999999 99999999999999999998552 345655
Q ss_pred H-------HHHHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCccccccee
Q psy2399 84 F-------INNISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYI 154 (232)
Q Consensus 84 ~-------~~~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v 154 (232)
+ ++++.+.++++|++||+ +|++.+.|+++.|.+.++++|.+|+ ++|+||++.++++|||.|+|.|+|.+|
T Consensus 106 f~~~c~~~~~~~~~~~~~~~~~lG~~~Dw~~~y~T~d~~~~~~v~~~f~~l~-~~GlIyr~~kpV~Wcp~~~Talae~Ev 184 (974)
T PLN02843 106 LRAKAAKFAKKTVDTQRESFKRYGVWGDWENPYLTLDPEYEAAQIEVFGQMF-LNGYIYRGRKPVHWSPSSRTALAEAEL 184 (974)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCCceecCCCCccCCHHHHHHHHHHHHHHH-HCCCEEecceeeeecCCCCCcchHhHh
Confidence 5 66777888999999999 8999999999999999999999999 999999999999999999999999999
Q ss_pred cc
Q psy2399 155 KG 156 (232)
Q Consensus 155 ~g 156 (232)
+-
T Consensus 185 ey 186 (974)
T PLN02843 185 EY 186 (974)
T ss_pred cc
Confidence 74
No 33
>PTZ00427 isoleucine-tRNA ligase, putative; Provisional
Probab=99.97 E-value=2e-30 Score=261.66 Aligned_cols=141 Identities=21% Similarity=0.209 Sum_probs=131.2
Q ss_pred CCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHH-cCC--------
Q psy2399 9 KDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEK-AGM-------- 79 (232)
Q Consensus 9 ~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~-~g~-------- 79 (232)
+++++|++++||||+||.|||||+++++++|+++||+||+| ++|.+++|||+||+||+..+++ +|+
T Consensus 99 ~~~~~Fv~~~gPPyanG~lHiGHal~~tikDii~Ry~rm~G-----~~V~~~~GwD~hGlPiE~~vEk~lg~~~k~~i~~ 173 (1205)
T PTZ00427 99 KNKKAYIFYDGPPFATGLPHYGHLLAGIIKDCVTRYFYQCG-----FSVERKFGWDCHGLPIEYEIEKENNINKKEDILK 173 (1205)
T ss_pred CCCCcEEEecCCCCCCCCcchhHHHHHHHHHHHHHHHHcCC-----CeeccCCccCCCCcHHHHHHHHHhCCCcccchhh
Confidence 45677999999999999999999999999999999999999 9999999999999999999986 342
Q ss_pred -C-------HHHHHHHHHHHHHHHHhccC--CcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCccc
Q psy2399 80 -T-------PKEFINNISSNRKKYLDGFY--IKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFL 149 (232)
Q Consensus 80 -~-------~~e~~~~~~~~~~~~l~~lg--I~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l 149 (232)
. +.++++++.+.+++++++|| ++||+.++|+++.|.+.++++|.+|+ ++|+||++.+.++|||.|+|.|
T Consensus 174 ~g~~~f~e~c~~~~~~~~~~~~~~~~rlG~~iDw~~~y~T~d~~~~~~v~~~f~~L~-ekGlIYr~~k~V~wcp~c~TaL 252 (1205)
T PTZ00427 174 MGIDVYNEKCRGIVLKYSNEWVKTVERIGRWIDFKNDYKTMDKTFMESVWWVFSELY-KNNYVYKSFKVMPYSCKCNTPI 252 (1205)
T ss_pred cCHHHHHHHHHHHHHHHHHHHHHHHHHhCcEEecCCCcCcCCHHHHHHHHHHHHHHH-HCCCEEecceeeccCCCCCCch
Confidence 1 35678888999999999999 69999999999999999999999999 9999999999999999999999
Q ss_pred ccceec
Q psy2399 150 PDRYIK 155 (232)
Q Consensus 150 ~~~~v~ 155 (232)
++.+|.
T Consensus 253 S~~EV~ 258 (1205)
T PTZ00427 253 SNFELN 258 (1205)
T ss_pred hHHHhh
Confidence 999883
No 34
>PLN02381 valyl-tRNA synthetase
Probab=99.97 E-value=2.3e-30 Score=259.99 Aligned_cols=141 Identities=18% Similarity=0.219 Sum_probs=129.7
Q ss_pred CCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHH-----cCCCHH-
Q psy2399 9 KDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEK-----AGMTPK- 82 (232)
Q Consensus 9 ~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~-----~g~~~~- 82 (232)
.++++|+|++||||+||.|||||+++++++|+++||+||+| ++|.+++|||+||++++.++++ .|+++.
T Consensus 125 ~~~~~f~i~~ppPy~nG~lHiGHa~~~ti~Dii~Ry~rm~G-----~~vl~~~G~D~~Glp~e~~vek~l~~~~~~~~~~ 199 (1066)
T PLN02381 125 SSKPPFVIVLPPPNVTGALHIGHALTAAIEDTIIRWKRMSG-----YNALWVPGVDHAGIATQVVVEKKLMRERHLTRHD 199 (1066)
T ss_pred CCCCcEEEEeCCCCCCCCccHHHHHHHHHHHHHHHHHHhCC-----CcccccCCCCCCcChHHHHHHHHhHhhcCCChhh
Confidence 44677999999999999999999999999999999999999 9999999999999999999976 255432
Q ss_pred -----------HHHHHHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCccc
Q psy2399 83 -----------EFINNISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFL 149 (232)
Q Consensus 83 -----------e~~~~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l 149 (232)
++++++.+.+++++++||+ +|++.+.|+++.|.+.|+++|.+|+ ++|+||++.+.++|||.|+|.|
T Consensus 200 ~~re~f~~~~~~~~~~~~~~~~~q~~~lG~s~Dw~~~~~T~d~~~~~~v~~~F~~L~-~~GlIyr~~~~VnWcP~~~TaL 278 (1066)
T PLN02381 200 IGREEFVSEVWKWKDEYGGTILNQLRRLGASLDWSRECFTMDEQRSKAVTEAFVRLY-KEGLIYRDIRLVNWDCTLRTAI 278 (1066)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHhCchhccCCccccCCHHHHHHHHHHHHHHH-HCCCEEeccccccCCCCCCCCc
Confidence 5678889999999999997 6778889999999999999999999 9999999999999999999999
Q ss_pred ccceec
Q psy2399 150 PDRYIK 155 (232)
Q Consensus 150 ~~~~v~ 155 (232)
++.+|+
T Consensus 279 Sd~EVe 284 (1066)
T PLN02381 279 SDVEVD 284 (1066)
T ss_pred cHHHhh
Confidence 999664
No 35
>TIGR00395 leuS_arch leucyl-tRNA synthetase, archaeal and cytosolic family. The leucyl-tRNA synthetases belong to two families so broadly different that they are represented by separate models. This model includes both archaeal and cytosolic eukaryotic leucyl-tRNA synthetases; the eubacterial and mitochondrial forms differ so substantially that some other tRNA ligases score higher by this model than does any eubacterial LeuS.
Probab=99.97 E-value=2.8e-30 Score=257.42 Aligned_cols=140 Identities=20% Similarity=0.285 Sum_probs=130.5
Q ss_pred CCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcC-----------
Q psy2399 10 DVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAG----------- 78 (232)
Q Consensus 10 ~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g----------- 78 (232)
++++|+|+.||||+||.|||||+++++++|+++||+||+| ++|+|++|+|+||+||+..|++..
T Consensus 23 ~~~kf~i~~ppPy~nG~lH~GH~~~~~~~D~~aRy~Rm~G-----~~vl~p~G~d~~G~pi~~~aek~~~~~~~~~~~~~ 97 (938)
T TIGR00395 23 DREKFFLTMAYPYLNGVMHAGHCRTFTIPEVSARFERMKG-----KNVLFPLGFHVTGTPILGLAELIKRRDELTIKNYT 97 (938)
T ss_pred CCCceEEecCCCCCCCCcccchhhhhhHHHHHHHHHHhcC-----CccCCCCccCCCCCchHHHHHHhhhhhhhccccch
Confidence 4678999999999999999999999999999999999999 999999999999999999998721
Q ss_pred -------------CCHHHHHHHHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeecc
Q psy2399 79 -------------MTPKEFINNISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDP 143 (232)
Q Consensus 79 -------------~~~~e~~~~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~ 143 (232)
.+|.++++++...++++|++||+ +|++.+.|+++.|.+.|+++|.+|+ ++|+||++.+.++|||
T Consensus 98 ~~~~i~~~~i~~~~~~~~~~~~~~~~~~~~~~~lG~s~DW~r~~~T~dp~y~~~v~~~f~~L~-e~G~iy~g~~~v~wcp 176 (938)
T TIGR00395 98 EVHAIPREELLKFTDPEYIVEYFSREAESACKSMGYSIDWRRSFKTTDPYYDRFIEWQMNKLK-ELGLIVKGEHPVRYCP 176 (938)
T ss_pred hhccCCHHHHHhhcCHHHHHHHHHHHHHHHHHHhCceEECCCCccCCChhHHHHHHHHHHHHH-HCCCEecCCeeEeecC
Confidence 35677889999999999999998 6777889999999999999999999 9999999999999999
Q ss_pred CCCcccccceec
Q psy2399 144 IKNIFLPDRYIK 155 (232)
Q Consensus 144 ~~~~~l~~~~v~ 155 (232)
.|++.|+|.++.
T Consensus 177 ~~~t~lsd~e~~ 188 (938)
T TIGR00395 177 KDGNPVEDHDLL 188 (938)
T ss_pred CCCCCCchhHhc
Confidence 999999998885
No 36
>PTZ00419 valyl-tRNA synthetase-like protein; Provisional
Probab=99.96 E-value=7.1e-30 Score=256.21 Aligned_cols=142 Identities=18% Similarity=0.222 Sum_probs=130.0
Q ss_pred CCCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHH-----cCCCH-
Q psy2399 8 FKDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEK-----AGMTP- 81 (232)
Q Consensus 8 ~~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~-----~g~~~- 81 (232)
+.++++|+|++|||||||.|||||+++++++|+++||+||+| ++|.+++|||+||++++.++++ .|.++
T Consensus 56 ~~~~~~f~i~~ppP~~~G~lHiGHa~~~~~~D~~~Ry~rm~G-----~~v~~~~G~D~~Gl~~~~~vE~~l~~~~~~~~~ 130 (995)
T PTZ00419 56 LNSGKKFVIVLPPPNVTGYLHIGHALTGAIQDSLIRYHRMKG-----DETLWVPGTDHAGIATQVVVEKKLMKEENKTRH 130 (995)
T ss_pred cCCCCeEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHHhcC-----CcccCCCCCCCCchhhHHHHHHHHHHhcCCChH
Confidence 345678999999999999999999999999999999999999 9999999999999999877655 35443
Q ss_pred -----------HHHHHHHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcc
Q psy2399 82 -----------KEFINNISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIF 148 (232)
Q Consensus 82 -----------~e~~~~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~ 148 (232)
.++++++.+.++++|++||+ +|++.+.|+++.|.+.++++|.+|+ ++|+||++.++++|||.|+|.
T Consensus 131 ~~~~e~f~~~~~~w~~~~~~~~~~~~~~lG~~~DW~~~~~T~d~~~~~~v~~~F~~l~-~~Gliyr~~~~V~wcp~~~Ta 209 (995)
T PTZ00419 131 DLGREEFLKKVWEWKDKHGNNICNQLRRLGSSLDWSREVFTMDEQRSKAVKEAFVRLY-EDGLIYRDTRLVNWCCYLKTA 209 (995)
T ss_pred HcCHHHHHHHHHHHHHHHHHHHHHHHHHhCceeeCCCCcCcCCHHHHHHHHHHHHHHH-HCCCEEecceeeecCCCCCCC
Confidence 35678899999999999997 6668999999999999999999999 999999999999999999999
Q ss_pred cccceec
Q psy2399 149 LPDRYIK 155 (232)
Q Consensus 149 l~~~~v~ 155 (232)
|+|.+|+
T Consensus 210 lsd~EVe 216 (995)
T PTZ00419 210 ISDIEVE 216 (995)
T ss_pred Cchhhcc
Confidence 9999987
No 37
>PRK14900 valS valyl-tRNA synthetase; Provisional
Probab=99.96 E-value=7e-30 Score=256.59 Aligned_cols=142 Identities=17% Similarity=0.172 Sum_probs=129.2
Q ss_pred CCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHH-c----CCCH--
Q psy2399 9 KDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEK-A----GMTP-- 81 (232)
Q Consensus 9 ~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~-~----g~~~-- 81 (232)
.++++|+|+.||||+||.|||||+++++++|+++||+||+| ++|.+++|||+||++++.++++ + |.++
T Consensus 45 ~~~~~f~i~~pPP~~nG~lHiGH~~~~~~~Di~~Ry~rm~G-----~~vl~~~G~D~~Glp~e~~ve~~l~~~~~~~~~~ 119 (1052)
T PRK14900 45 RTRPPFSIVLPPPNVTGSLHLGHALTATLQDVLIRWKRMSG-----FNTLWLPGTDHAGIATQMIVEKELKKTEKKSRHD 119 (1052)
T ss_pred CCCCCEEEecCCCCCCCcchHHHHHhhHHHHHHHHHHHhcC-----CcccCCCCCCccchHHHHHHHHHhhhccCCChhh
Confidence 45677999999999999999999999999999999999999 9999999999999999998875 2 3333
Q ss_pred ----------HHHHHHHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCccc
Q psy2399 82 ----------KEFINNISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFL 149 (232)
Q Consensus 82 ----------~e~~~~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l 149 (232)
.++++++.+.++++|++||+ +|++.+.|+++.|.+.++++|.+|+ ++|+||++...++|||.|+|+|
T Consensus 120 ~~~e~f~~~~~~~~~~~~~~~~~~~~~lG~s~Dw~~~~~T~d~~~~~~v~~~F~~L~-~~Gliyr~~~~v~wcp~~~T~L 198 (1052)
T PRK14900 120 LGREAFLERVWAWKEQYGSRIGEQHKALGASLDWQRERFTMDEGLSRAVREVFVRLH-EEGLIYREKKLINWCPDCRTAL 198 (1052)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHhchheecCCCcCcCCHHHHHHHHHHHHHHH-HCCCEEeccceeccCCCCCCCc
Confidence 23678889999999999997 6677888999999999999999999 9999999999999999999999
Q ss_pred ccceecc
Q psy2399 150 PDRYIKG 156 (232)
Q Consensus 150 ~~~~v~g 156 (232)
+|.+|+.
T Consensus 199 sd~Ev~~ 205 (1052)
T PRK14900 199 SDLEVEH 205 (1052)
T ss_pred cHHHhcc
Confidence 9999863
No 38
>COG0525 ValS Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=1.3e-28 Score=238.43 Aligned_cols=139 Identities=22% Similarity=0.273 Sum_probs=127.8
Q ss_pred CcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHH-c---CCCH------
Q psy2399 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEK-A---GMTP------ 81 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~-~---g~~~------ 81 (232)
++|.|.+||||+||.||||||+++.+.|+++||+||+| ++|.++.|+|++|++++.++++ + |++.
T Consensus 33 ~~f~I~~PPPNVTG~LHmGHAl~~tl~D~l~RykRM~G-----~~vl~~pG~DhAGIaTq~~VEk~l~~~g~~r~d~gRe 107 (877)
T COG0525 33 PPFSIDTPPPNVTGSLHMGHALNYTLQDILARYKRMRG-----YNVLWPPGTDHAGIATQVVVEKQLAAEGITRHDLGRE 107 (877)
T ss_pred CCcEEeCCCCCCCCcccchhhhhHHHHHHHHHHHHcCC-----CeeecCCCCCCCCchHHHHHHHHHHHcCCCccccCHH
Confidence 55999999999999999999999999999999999999 9999999999999999999987 2 5432
Q ss_pred ------HHHHHHHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccce
Q psy2399 82 ------KEFINNISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRY 153 (232)
Q Consensus 82 ------~e~~~~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~ 153 (232)
.++.+++...|+++|++||+ +|++...|+|+.+.+.|+..|.+|+ ++|+||++++.+.|||.|+|.|||.+
T Consensus 108 ~Fl~~~weWk~e~~~~I~~Q~~rLG~S~DWsrE~fTmD~~~s~av~~~Fv~Ly-~~GlIYr~~~lVNWcP~~~TAiSd~E 186 (877)
T COG0525 108 EFLKKCWEWKEESGGTIREQLRRLGVSVDWSRERFTMDPGLSRAVQEAFVRLY-EKGLIYRGERLVNWCPKCRTAISDIE 186 (877)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCCcccccccccCCHHHHHHHHHHHHHHH-HCCceeecCCcccCCCccccchhhhh
Confidence 34577888999999999998 5667889999999999999999999 99999999999999999999999998
Q ss_pred ecc
Q psy2399 154 IKG 156 (232)
Q Consensus 154 v~g 156 (232)
|+-
T Consensus 187 Ve~ 189 (877)
T COG0525 187 VEY 189 (877)
T ss_pred hcc
Confidence 854
No 39
>COG0060 IleS Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=99.96 E-value=7.6e-29 Score=242.25 Aligned_cols=143 Identities=26% Similarity=0.378 Sum_probs=133.4
Q ss_pred cCCCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHH-cCC------
Q psy2399 7 EFKDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEK-AGM------ 79 (232)
Q Consensus 7 ~~~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~-~g~------ 79 (232)
++++++.|++.++|||+||.+|||||.|-++.|++.||..|+| ++|.++.|||+||+||+.++++ +|+
T Consensus 44 ~~~g~~~FvfhDGPPyANG~iHiGHalnKilKDiI~Ry~~m~G-----~~v~~~pGWDcHGLPIE~~vek~lg~~k~~i~ 118 (933)
T COG0060 44 RNKGKPKFVLHDGPPYANGNIHIGHALNKILKDIIVRYKTMQG-----YDVPYVPGWDCHGLPIELKVEKKLGIGKKDIE 118 (933)
T ss_pred HhCCCCcEEEeCCCCCCCCCcchhhhHHHhhhhhhhhhhcccC-----CcCCCCCCCcCCCchHHHHHHHHhCCCcchhh
Confidence 4678899999999999999999999999999999999999999 9999999999999999999877 452
Q ss_pred --C-------HHHHHHHHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcc
Q psy2399 80 --T-------PKEFINNISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIF 148 (232)
Q Consensus 80 --~-------~~e~~~~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~ 148 (232)
. +.+++.++.+.+++++++||+ +|++.+.|+++.|.+.++++|.+++ +||+||++.++++||+.|+|.
T Consensus 119 ~~~~~efr~~Cr~~a~~~v~~q~~~f~RLGv~~Dw~npY~Tmd~~ye~~~~~~f~~~~-~kGllyrg~Kpv~wsp~c~Ta 197 (933)
T COG0060 119 SFGVEEFREKCREFALEQVDEQKEQFKRLGVWGDWENPYKTMDPSYEESVWWAFKELY-EKGLLYRGYKPVPWSPRCETA 197 (933)
T ss_pred hcCHHHHHHHHHHHHHHHHHHHHHHHHhheEeeccCCCeecCCHHHHHHHHHHHHHHH-HCCCeecCCeeeeecCCCCcc
Confidence 2 234577778999999999998 9999999999999999999999999 999999999999999999999
Q ss_pred cccceec
Q psy2399 149 LPDRYIK 155 (232)
Q Consensus 149 l~~~~v~ 155 (232)
|++++|+
T Consensus 198 LAeaEve 204 (933)
T COG0060 198 LAEAEVE 204 (933)
T ss_pred hhhhhhc
Confidence 9999998
No 40
>PLN02959 aminoacyl-tRNA ligase
Probab=99.95 E-value=2e-28 Score=246.52 Aligned_cols=140 Identities=20% Similarity=0.297 Sum_probs=124.1
Q ss_pred CCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHc-------CCC---
Q psy2399 11 VRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKA-------GMT--- 80 (232)
Q Consensus 11 ~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~-------g~~--- 80 (232)
+++|+|+.||||+||.|||||+++++++|+++||+||+| ++|.|++|||+||+||+..|++. |..
T Consensus 44 ~~kf~i~~ppPY~NG~lHiGHa~t~t~~D~i~Rykrm~G-----~~vlfp~G~d~tGlPIe~~aek~~~ei~~~g~~~~~ 118 (1084)
T PLN02959 44 GEKFFGNFPYPYMNGLLHLGHAFSLSKLEFAAAYHRLRG-----ANVLLPFAFHCTGMPIKASADKLAREIQQYGNPPVF 118 (1084)
T ss_pred CCcEEEeCCCCCCCCCcchhhHHHHHHHHHHHHHHHcCC-----CccCCCCCcCCCCccHHHHHHHHHHHHHHcCCCccc
Confidence 467999999999999999999999999999999999999 99999999999999999999763 322
Q ss_pred ----------------------------------------------------------------HHHHHHHHHHHHHHHH
Q psy2399 81 ----------------------------------------------------------------PKEFINNISSNRKKYL 96 (232)
Q Consensus 81 ----------------------------------------------------------------~~e~~~~~~~~~~~~l 96 (232)
|..+++.+...++++|
T Consensus 119 ~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~k~~~k~~~~~~~~~~~~~~~~~~~~i~~f~dp~~~~~yF~~~~~~~~ 198 (1084)
T PLN02959 119 PEEDEDEAAAVAAAKAEAEAAAAPPDKFKGKKSKAVAKSGTQKYQWEIMRSFGLPDSEIAKFQDPYHWLSYFPPLAKEDL 198 (1084)
T ss_pred ccccccccccccccccccccccccHHHHHHHHHHHHHHhCCchHHHHHHhhcCCchhhhhhccCHHHHHHhccHHHHHHH
Confidence 1113333446778999
Q ss_pred hccCC--cCCccccCCC--hhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceecc
Q psy2399 97 DGFYI--KFDNWYSTDS--IENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKG 156 (232)
Q Consensus 97 ~~lgI--~~d~~~~t~~--~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g 156 (232)
++||+ +|++.+.|++ +.|..+|++.|.+|+ ++|+||++.+++.|||.|++.|+|.+++.
T Consensus 199 k~lG~~iDW~r~f~T~d~np~y~~~v~wqf~~L~-ekG~I~~g~rpv~wcp~~~t~ladhe~~~ 261 (1084)
T PLN02959 199 KAFGLGCDWRRSFITTDVNPYYDAFVRWQFRKLK-KKGKIVKDKRYTIYSPLDGQPCADHDRAS 261 (1084)
T ss_pred HHhCceEeCCCCcCCCCCChhHHHHHHHHHHHHH-HCCCEEecCeeeeeCCCCCCCchhhHHhc
Confidence 99997 7888888887 899999999999999 99999999999999999999999998853
No 41
>TIGR03447 mycothiol_MshC cysteine--1-D-myo-inosityl 2-amino-2-deoxy-alpha-D-glucopyranoside ligase. Members of this protein family are MshC, l-cysteine:1-D-myo-inosityl 2-amino-2-deoxy-alpha-D-glucopyranoside ligase, an enzyme that uses ATP to ligate a Cys residue to a mycothiol precursor molecule, in the second to last step in mycothiol biosynthesis. This enzyme shows considerable homology to Cys--tRNA ligases, and many instances are misannotated as such. Mycothiol is found in Mycobacterium tuberculosis, Corynebacterium glutamicum, Streptomyces coelicolor, and various other members of the Actinobacteria. Mycothiol is an analog to glutathione.
Probab=99.94 E-value=7e-26 Score=206.40 Aligned_cols=127 Identities=16% Similarity=0.226 Sum_probs=116.9
Q ss_pred CCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHH
Q psy2399 10 DVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNIS 89 (232)
Q Consensus 10 ~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~ 89 (232)
+.-++|||.|.|| +++||||+|++|.+|+++||+|+.| ++|.|++|+||||+||+.+|++.|++|+++++++.
T Consensus 35 ~~v~~YvCGpTvY--~~~HIGhart~V~~Dvl~R~lr~~G-----~~V~fV~nitD~dDKIi~~A~~~g~t~~ela~~y~ 107 (411)
T TIGR03447 35 PEAGMYVCGITPY--DATHLGHAATYLTFDLVNRVWRDAG-----HRVHYVQNVTDVDDPLFERAERDGVDWRELGTSQI 107 (411)
T ss_pred CcceEEEeCCccC--CCcccccchHHHHHHHHHHHHHhcC-----CceEEeeCCCchhHHHHHHHHHcCCCHHHHHHHHH
Confidence 3455677766655 9999999999999999999999999 99999999999999999999999999999999999
Q ss_pred HHHHHHHhccCC-cCCccccCCChhHHHHHHHHHHHHHhhcCCEEeccc----ceeeccCCC
Q psy2399 90 SNRKKYLDGFYI-KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKI----NQFFDPIKN 146 (232)
Q Consensus 90 ~~~~~~l~~lgI-~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~----~~~~~~~~~ 146 (232)
+.|++++++||| .+|.++++++ +.+.++++|++|. ++|++|++.. .+|||++.-
T Consensus 108 ~~f~~d~~~Lni~~~d~~~RaTe--~i~~ii~~i~~L~-~kG~aY~~~~~~~~~VYFdv~~~ 166 (411)
T TIGR03447 108 DLFREDMEALRVLPPRDYIGAVE--SIDEVIEMVEKLL-AAGAAYEVEGPEYPDVYFSIEAT 166 (411)
T ss_pred HHHHHHHHHcCCCCCCcccCCCC--CHHHHHHHHHHHH-HCCCEEecCCCCcCcEEEeccch
Confidence 999999999998 5899999994 6899999999999 9999999886 799998764
No 42
>PRK12418 cysteinyl-tRNA synthetase; Provisional
Probab=99.93 E-value=1.4e-25 Score=203.42 Aligned_cols=125 Identities=11% Similarity=0.167 Sum_probs=116.8
Q ss_pred CcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHH
Q psy2399 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSN 91 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~ 91 (232)
-++|||.|. |.+++||||+|++|.+|+++||+|++| ++|.+++|+||||+||+.+|++.|++|+++++++.+.
T Consensus 10 v~~YvCGpT--vY~~~HIGh~r~~V~~Dvl~R~lr~~G-----~~V~~V~nitD~ddKIi~~A~~~G~~~~e~a~~~~~~ 82 (384)
T PRK12418 10 ATMYVCGIT--PYDATHLGHAATYLAFDLVNRVWRDAG-----HDVHYVQNVTDVDDPLLERAARDGVDWRDLAEREIAL 82 (384)
T ss_pred eEEEecCCC--CCCCCccchhHHHHHHHHHHHHHHHcC-----CceEEEEecCCcchHHHHHHHHcCCCHHHHHHHHHHH
Confidence 356777655 559999999999999999999999999 9999999999999999999999999999999999999
Q ss_pred HHHHHhccCC-cCCccccCCChhHHHHHHHHHHHHHhhcCCEEeccc----ceeeccCCC
Q psy2399 92 RKKYLDGFYI-KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKI----NQFFDPIKN 146 (232)
Q Consensus 92 ~~~~l~~lgI-~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~----~~~~~~~~~ 146 (232)
|.+++++||| ++|.++++++ +.+.+++++++|. ++|++|+++. .+|||+..-
T Consensus 83 f~~d~~~Lni~~~~~~~raTe--~i~~~~~~i~~L~-~kG~aY~~~~~~~~~VYFdv~~~ 139 (384)
T PRK12418 83 FREDMEALRVLPPRDYVGAVE--SIPEVVELVEKLL-ASGAAYVVDDEEYPDVYFSVDAT 139 (384)
T ss_pred HHHHHHHhCCCCCCccccCCC--CHHHHHHHHHHHH-HCCCEEEeCCCCCccEEEecCch
Confidence 9999999997 8999999995 6999999999999 9999999998 899998774
No 43
>PRK00260 cysS cysteinyl-tRNA synthetase; Validated
Probab=99.93 E-value=1.8e-25 Score=208.22 Aligned_cols=126 Identities=17% Similarity=0.206 Sum_probs=116.8
Q ss_pred CCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHH
Q psy2399 11 VRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISS 90 (232)
Q Consensus 11 ~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~ 90 (232)
..+++|| .|||+|++||||+|++|.+|+++||+|++| ++|.|++|+||+|++|...|++.|++|.++++++.+
T Consensus 23 ~v~~yvc--gPtvy~~~HiGHar~~v~~Dvl~R~lr~~G-----~~V~~v~~~tD~ddki~~~A~~~g~~~~e~~~~~~~ 95 (463)
T PRK00260 23 KVKMYVC--GPTVYDYAHIGHARSFVVFDVLRRYLRYLG-----YKVTYVRNITDIDDKIIKRANEEGESIKELTERYIA 95 (463)
T ss_pred cceEEEe--CCccCCCcccccchhHHHHHHHHHHHHhcC-----CceEEeecCCCCcHHHHHHHHHcCCCHHHHHHHHHH
Confidence 3455666 567889999999999999999999999999 999999999999999999999999999999999999
Q ss_pred HHHHHHhccCC-cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCC
Q psy2399 91 NRKKYLDGFYI-KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKN 146 (232)
Q Consensus 91 ~~~~~l~~lgI-~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~ 146 (232)
.|+++|++||| .+|.+.+++ .|...+++++.+|. ++|++|+++++++||+..-
T Consensus 96 ~f~~~~~~Lgi~~~d~~~r~t--~~~~~~~~~i~~L~-~kG~aY~~~~~Vyfdv~~~ 149 (463)
T PRK00260 96 AFHEDMDALNVLPPDIEPRAT--EHIPEIIELIERLI-DKGHAYEADGDVYFDVRKF 149 (463)
T ss_pred HHHHHHHHcCCCCCCcccccc--ccHHHHHHHHHHHH-HCCCEEEecCeEEEecccc
Confidence 99999999999 678888887 59999999999999 9999999999999998864
No 44
>cd00671 ArgRS_core catalytic core domain of arginyl-tRNA synthetases. Arginyl tRNA synthetase (ArgRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. There are at least three subgroups of ArgRS. One type contains both characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. The second subtype lacks the KMSKS motif; however, it has a lysine N-terminal to the HIGH motif, which serves as the functional counterpart to the second lysine of the KMSKS motif. A third group, which is found primarily in archaea and a few bacteria, lacks both the KMSKS motif and the HIGH loop lysine.
Probab=99.93 E-value=2.3e-25 Score=187.93 Aligned_cols=134 Identities=18% Similarity=0.215 Sum_probs=123.9
Q ss_pred cEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHH
Q psy2399 13 RIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNR 92 (232)
Q Consensus 13 ~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~ 92 (232)
+++|..++|||||+|||||+|+++++|+++|++++.| ++|.++.++||+|.+|...|++.+. +.++++.+.+.+
T Consensus 1 ~v~ve~~spN~~~~~HiGH~R~~vigD~l~R~l~~~G-----~~V~~~~~~~D~G~qi~~~a~~~~~-~~~~~~~~~~~~ 74 (212)
T cd00671 1 KILVEFVSANPTGPLHVGHLRNAIIGDSLARILEFLG-----YDVTREYYINDWGRQIGLLILSLEK-WRKLVEESIKAD 74 (212)
T ss_pred CeEEEecCCCCCCCccccccHHHHHHHHHHHHHHHCC-----CcEEEEeccCCcHHHHHHHHHHHHH-HHHHHHHHHHHH
Confidence 4788999999999999999999999999999999999 9999999999999999999987755 899999999999
Q ss_pred HHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceec
Q psy2399 93 KKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIK 155 (232)
Q Consensus 93 ~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~ 155 (232)
++++++|||.+|.|.++++ +...++++++.|. ++|++|+.++.+|+++.+...+++..+.
T Consensus 75 ~~~~~~L~i~~d~~~~es~--~~~~~~~~i~~L~-~~g~~~~~~g~~~~~~~~~~~~~d~vl~ 134 (212)
T cd00671 75 LETYGRLDVRFDVWFGESS--YLGLMGKVVELLE-ELGLLYEEDGALWLDLTEFGDDKDRVLV 134 (212)
T ss_pred HHHHHHhCCcCceecchhh--hhhHHHHHHHHHH-HCCCEEEeCCcEEEechhhCCCCCeEEE
Confidence 9999999999999999995 4889999999999 9999999999999998776666676665
No 45
>TIGR00435 cysS cysteinyl-tRNA synthetase. This model finds the cysteinyl-tRNA synthetase from most but not from all species. The enzyme from one archaeal species, Archaeoglobus fulgidus, is found but the equivalent enzymes from some other Archaea, including Methanococcus jannaschii, are not found, although biochemical evidence suggests that tRNA(Cys) in these species are charged directly with Cys rather than through a misacylation and correction pathway as for tRNA(Gln).
Probab=99.93 E-value=4.5e-25 Score=205.53 Aligned_cols=127 Identities=17% Similarity=0.165 Sum_probs=116.6
Q ss_pred CCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHH
Q psy2399 10 DVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNIS 89 (232)
Q Consensus 10 ~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~ 89 (232)
++.++|++ .|||+|.+||||+|++|.+|+++||+|++| ++|.+++|+||+|++|+..|++.|++|.++++++.
T Consensus 20 ~~v~~yvc--gptvy~~~HiGhar~~v~~Dvl~R~lr~~G-----~~V~~v~n~tD~ddkIi~~A~~~g~~~~e~a~~~~ 92 (465)
T TIGR00435 20 GKVKMYVC--GPTVYDYCHIGHARTAIVFDVLRRYLRYLG-----YKVQYVQNITDIDDKIIKRARENGESVYEVSERFI 92 (465)
T ss_pred CcceEEEe--cCccCCCcccccchHHHHHHHHHHHHHHcC-----CcEEEEEeeCCccHHHHHHHHHcCCCHHHHHHHHH
Confidence 34455666 558889999999999999999999999999 99999999999999999999999999999999999
Q ss_pred HHHHHHHhccCCcCCcc-ccCCChhHHHHHHHHHHHHHhhcCCEEecc-cceeeccCCC
Q psy2399 90 SNRKKYLDGFYIKFDNW-YSTDSIENIDLVQKIYDTLYNKAKLIINKK-INQFFDPIKN 146 (232)
Q Consensus 90 ~~~~~~l~~lgI~~d~~-~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~-~~~~~~~~~~ 146 (232)
+.|++++++|||++|.+ .+++ .|...+++++++|. ++|++|+.+ +.+|||+.+-
T Consensus 93 ~~f~~dl~~LgI~~d~~~~raT--~hi~~i~~~i~~L~-ekG~aY~~~~g~vyfdv~~~ 148 (465)
T TIGR00435 93 EAYFEDMKALNVLPPDLEPRAT--EHIDEIIEFIEQLI-EKGYAYVSDNGDVYFDVSKF 148 (465)
T ss_pred HHHHHHHHHhCCCCCcCCcccc--ccHHHHHHHHHHHH-HCCCEEEecCCcEEEecccc
Confidence 99999999999998886 4555 79999999999999 999999998 9999998773
No 46
>cd00674 LysRS_core_class_I catalytic core domain of class I lysyl tRNA synthetase. Class I lysyl tRNA synthetase (LysRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. The class I LysRS is found only in archaea and some bacteria and has evolved separately from class II LysRS, as the two do not share structural or sequence similarity.
Probab=99.92 E-value=2.1e-25 Score=200.35 Aligned_cols=175 Identities=18% Similarity=0.242 Sum_probs=142.5
Q ss_pred CCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChh------------------hHHHHH
Q psy2399 11 VRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAH------------------GAAIMI 72 (232)
Q Consensus 11 ~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~------------------G~~i~~ 72 (232)
+.+++|++++ +|||.+||||+++++.+|+++|++|++| ++|.|++|+|+| |.|+..
T Consensus 18 ~~~~~v~tgi-~psG~~HIG~~~e~i~~D~i~R~lr~~G-----~~v~~v~~~Dd~d~lrKvp~~l~~~~~~~~G~pi~~ 91 (353)
T cd00674 18 KEKYVVASGI-SPSGHIHIGNFREVITADLVARALRDLG-----FEVRLIYSWDDYDRLRKVPPNVPESYEQYIGMPLSS 91 (353)
T ss_pred CCeEEEecCC-CCCCCcccCccHHHHHHHHHHHHHHHcC-----CCEEEEEEEcCCCcccccccchhhHHHHhcCccchh
Confidence 3568888888 5999999999999999999999999999 999999999999 889999
Q ss_pred HHHHcCCCHHHHHHHHHHHHHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEE------ec--ccceeeccC
Q psy2399 73 AAEKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLII------NK--KINQFFDPI 144 (232)
Q Consensus 73 ~a~~~g~~~~e~~~~~~~~~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy------~~--~~~~~~~~~ 144 (232)
.++..|+.+ ++++++.+.|++.|+.|||++|.+.+|....+....+.++..|. +++.|. ++ ....||
T Consensus 92 ip~p~g~~~-~~~d~~~~~f~~~l~~lgi~~d~~~~T~~y~~g~~~~~i~~~L~-~~~~I~~i~~~~~~~~~~~~~~--- 166 (353)
T cd00674 92 VPDPFGCCE-SYAEHFERPFEESLEKLGIEVEFISQSQMYKSGLYDENILIALE-KRDEIMAILNEYRGRELQETWY--- 166 (353)
T ss_pred chhhcCCCH-HHHHHHHHHHHHHHHHcCCeeeeeecCCchhhchHHHHHHHHHH-HCChHHHHHHHhcCCccCCCce---
Confidence 999999977 99999999999999999999996666666566688889999999 998873 22 223444
Q ss_pred CCcccccceeccCCCCCCccccCCCcCccCCCCCCCc-------cccCCcccCCCCccEEEEccceeEecCChhhHHHHH
Q psy2399 145 KNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPT-------KLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLR 217 (232)
Q Consensus 145 ~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~-------~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~ 217 (232)
++..+|++||+..++. .-+.++|. ||+..+..-... --|| .|-.||..
T Consensus 167 ---------------------P~~p~c~~cg~~~~~v~~~d~~~~~v~y~c~-cG~~g~~~~~~g-~~KL--~Wr~dW~~ 221 (353)
T cd00674 167 ---------------------PFMPYCEKCGKDTTTVEAYDAKAGTVTYKCE-CGHEETVDIRTG-RGKL--TWRVDWPM 221 (353)
T ss_pred ---------------------eeeeecCCcCcceeEEEEEeCCCCeEEEEcC-CCCEEEEeecCC-Cccc--CCCCCchh
Confidence 5778899999654322 12557885 999988644332 2399 89999999
Q ss_pred hhhh
Q psy2399 218 KWAI 221 (232)
Q Consensus 218 ~~~~ 221 (232)
.|.+
T Consensus 222 rW~~ 225 (353)
T cd00674 222 RWAI 225 (353)
T ss_pred hhhh
Confidence 9943
No 47
>PLN02946 cysteine-tRNA ligase
Probab=99.92 E-value=1.3e-24 Score=204.51 Aligned_cols=125 Identities=14% Similarity=0.114 Sum_probs=115.7
Q ss_pred CcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHH
Q psy2399 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSN 91 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~ 91 (232)
-++|++ .|||.+.+||||+|++|.+|+++||+++.| ++|.|++|+||+|++|+..|++.|++|.++++++.+.
T Consensus 81 v~~Y~C--GpTvYd~~HIGhaR~~V~~Dvl~R~Lr~~G-----y~V~~V~niTDiDDKIi~~A~~~g~~~~ela~~y~~~ 153 (557)
T PLN02946 81 VGMYVC--GVTAYDLSHIGHARVYVTFDVLYRYLKHLG-----YEVRYVRNFTDVDDKIIARANELGEDPISLSRRYCEE 153 (557)
T ss_pred eeEEEe--CCccCCCCccccchhhHHHHHHHHHHHhcC-----CcEEEEECCCCccCHHHHHHHHcCCCHHHHHHHHHHH
Confidence 345555 678889999999999999999999999999 9999999999999999999999999999999999999
Q ss_pred HHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCC
Q psy2399 92 RKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIK 145 (232)
Q Consensus 92 ~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~ 145 (232)
|.+++++|||. +.+++|...+|+..+++++++|. ++|++|+.++.+|||+..
T Consensus 154 f~~d~~~LnI~-~p~~~pratehi~~ii~~i~~Li-~kG~aY~~~g~VYFdv~~ 205 (557)
T PLN02946 154 FLSDMAYLHCL-PPSVEPRVSDHIPQIIDMIKQIL-DNGCAYRVDGDVYFSVDK 205 (557)
T ss_pred HHHHHHHCCCC-CCCeecCcchhHHHHHHHHHHHH-HCCCEEEECCeEEEecCc
Confidence 99999999997 55556666699999999999999 999999999999999886
No 48
>PRK14536 cysS cysteinyl-tRNA synthetase; Provisional
Probab=99.92 E-value=4.3e-24 Score=198.80 Aligned_cols=126 Identities=15% Similarity=0.124 Sum_probs=113.5
Q ss_pred CcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEec----------CCChhhHHHHHHHHHcCCCH
Q psy2399 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFIC----------ADDAHGAAIMIAAEKAGMTP 81 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~----------g~D~~G~~i~~~a~~~g~~~ 81 (232)
.++-+....|||++++||||+|++|.+|+++||+++.| ++|.|++ |+|+||.+|...|++.|++|
T Consensus 22 ~~v~mYvCGpTvy~~~HiGhar~~v~~Dvl~R~l~~~G-----~~V~~v~NiTDv~hl~~~~De~ddKii~~A~~~g~~~ 96 (490)
T PRK14536 22 GHVRLYGCGPTVYNYAHIGNLRTYVFQDTLRRTLHFLG-----YRVTHVMNITDVGHLTDDADSGEDKMVKSAQEHGKSV 96 (490)
T ss_pred CceEEEeeCCccCCCcccchhHHHHHHHHHHHHHHhcC-----CceEEEEeeccccccccCCcCCChHHHHHHHHcCCCH
Confidence 34555555789999999999999999999999999999 9999997 77777999999999999999
Q ss_pred HHHHHHHHHHHHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccC
Q psy2399 82 KEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPI 144 (232)
Q Consensus 82 ~e~~~~~~~~~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~ 144 (232)
.++++++.+.|++++++|||.++.++.+ ..+|...+++++++|. ++|++|+..+.+|||+.
T Consensus 97 ~e~a~~~~~~f~~d~~~Lni~~~~~~~r-at~hi~~ii~~i~~L~-~kG~aY~~~~~vyFdv~ 157 (490)
T PRK14536 97 LEIAAHYTAAFFRDTARLNIERPSIVCN-ATEHIQDMIALIKRLE-ARGHTYCAGGNVYFDIR 157 (490)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCCceecC-cccHHHHHHHHHHHHH-HCCCEEEECCeEEEeCC
Confidence 9999999999999999999988665533 2489999999999999 99999999999999984
No 49
>PRK14535 cysS cysteinyl-tRNA synthetase; Provisional
Probab=99.91 E-value=1.7e-23 Score=198.90 Aligned_cols=127 Identities=13% Similarity=0.085 Sum_probs=115.5
Q ss_pred CcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHH
Q psy2399 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSN 91 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~ 91 (232)
+++-+....|||.+.+||||+|++|.+|+++||+++.| ++|.|++|+||||++|..+|++.|+++.++++++.+.
T Consensus 247 ~~V~mYvCGPTVYd~~HIGHaRt~V~~DVL~R~Lr~~G-----y~V~fV~NiTD~DDKII~~A~e~G~sp~ela~~y~~~ 321 (699)
T PRK14535 247 ENVRMYVCGMTVYDYCHLGHARVMVVFDMIARWLRECG-----YPLTYVRNITDIDDKIIARAAENGETIGELTARFIQA 321 (699)
T ss_pred CceEEEecCCcCCCCCcccchhHHHHHHHHHHHHHHcC-----CceEEEeCCcccchHHHHHHHHcCCCHHHHHHHHHHH
Confidence 44445555778889999999999999999999999999 9999999999999999999999999999999999999
Q ss_pred HHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecc-cceeeccCC
Q psy2399 92 RKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKK-INQFFDPIK 145 (232)
Q Consensus 92 ~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~-~~~~~~~~~ 145 (232)
|.+++++|||..+.+..+ ..+|+..+++++++|. ++|++|++. +.+|||+.+
T Consensus 322 F~~d~~~LnI~~p~~~pr-aTeHI~~ii~lI~~Li-dkG~AYe~~~gsVYFdV~~ 374 (699)
T PRK14535 322 MHEDADALGVLRPDIEPK-ATENIPQMIAMIETLI-QNGKAYPAANGDVYYAVRE 374 (699)
T ss_pred HHHHHHHcCCCCCcEeeC-ccchHHHHHHHHHHHH-HCCCEEEeCCCCEEEeccc
Confidence 999999999988876444 4489999999999999 999999874 589999885
No 50
>PRK12300 leuS leucyl-tRNA synthetase; Reviewed
Probab=99.90 E-value=3.7e-24 Score=212.91 Aligned_cols=124 Identities=22% Similarity=0.311 Sum_probs=115.7
Q ss_pred CCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHc---------------CC---------CHH
Q psy2399 27 LHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKA---------------GM---------TPK 82 (232)
Q Consensus 27 lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~---------------g~---------~~~ 82 (232)
|||||+++++++|+++||+||+| ++|.+++|||+||+||+..|++. |+ +|.
T Consensus 1 lHiGH~~~~t~~D~i~Ry~rm~G-----~~Vl~~~G~d~~GlPie~~ae~~~~~~~~~~~~~~~~~gi~~~~i~~f~~~~ 75 (897)
T PRK12300 1 LHVGHGRTYTIGDVIARYKRMRG-----YNVLFPMAFHVTGTPILGIAERIARGDPETIELYKSLYGIPEEELEKFKDPE 75 (897)
T ss_pred CccchhHHHHHHHHHHHHHHcCC-----CcCCCCCCCCCCCcCHHHHHHHhhccchhHHHHHHHHcCCCHHHHHHhcCHH
Confidence 79999999999999999999999 99999999999999999998753 43 456
Q ss_pred HHHHHHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceecc
Q psy2399 83 EFINNISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKG 156 (232)
Q Consensus 83 e~~~~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g 156 (232)
++++++.+.+++++++||+ +|++.+.|+++.|.+.++++|.+|+ ++|+||++.+.+.|||.|+|.|+|.++..
T Consensus 76 ~~~~~~~~~~~~~~~~lG~~~DW~r~y~T~dp~y~~~v~w~F~~L~-ekGliyrg~~~v~wcp~~~t~lad~e~~~ 150 (897)
T PRK12300 76 YIVEYFSEEAKEDMKRIGYSIDWRREFTTTDPEYSKFIEWQFRKLK-EKGLIVKGSHPVRYCPNDNNPVGDHDLLD 150 (897)
T ss_pred HHHHHhHHHHHHHHHHhCcEEeCCCCeECCChhHHHHHHHHHHHHH-HCCCEecCCEeeeeCCCCCCCchHHHHhc
Confidence 7888999999999999998 7888899999999999999999999 99999999999999999999999998864
No 51
>PTZ00399 cysteinyl-tRNA-synthetase; Provisional
Probab=99.89 E-value=6.9e-23 Score=197.11 Aligned_cols=127 Identities=13% Similarity=0.168 Sum_probs=116.3
Q ss_pred CCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHH-HcCCCCCCceeEEecCCChhhHHHHHHHHHcCCC-HHHHHHHH
Q psy2399 11 VRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQC-MQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMT-PKEFINNI 88 (232)
Q Consensus 11 ~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr-~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~-~~e~~~~~ 88 (232)
.-++|||+|.+| +.+||||||+||.+|+++||++ ..| |+|.|++|+||+|++|+.+|++.|++ +.++++++
T Consensus 60 ~v~~Y~CGPTvY--d~~HiGhart~v~~Dil~R~l~~~~G-----y~V~~v~nitDidDKIi~~A~~~g~~~~~el~~~~ 132 (651)
T PTZ00399 60 QVRWYTCGPTVY--DSSHLGHARTYVTFDIIRRILEDYFG-----YDVFYVMNITDIDDKIIKRAREEKLSIFLELARKW 132 (651)
T ss_pred eeEEEEeCCCcc--CCcccccchHHHHHHHHHHHHHHhcC-----CceEEEeCCCCcchHHHHHHHHhCCCcHHHHHHHH
Confidence 345677765555 9999999999999999999999 899 99999999999999999999999999 99999999
Q ss_pred HHHHHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCC
Q psy2399 89 SSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKN 146 (232)
Q Consensus 89 ~~~~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~ 146 (232)
.+.|.++|++|||..+.++++.. +|...+..++.+|. ++|++|..++.+|||++.=
T Consensus 133 ~~~f~~d~~~Lni~~p~~~~r~t-ehi~~ii~~i~~Li-~~G~aY~~~gsvyFd~~~f 188 (651)
T PTZ00399 133 EKEFFEDMKALNVRPPDVITRVS-EYVPEIVDFIQKII-DNGFAYESNGSVYFDVEAF 188 (651)
T ss_pred HHHHHHHHHHcCCCCCccccCcC-ccHHHHHHHHHHHH-HCCCEEEECCeEEEEchhc
Confidence 99999999999998877766653 89999999999999 9999999999999998764
No 52
>PRK14534 cysS cysteinyl-tRNA synthetase; Provisional
Probab=99.89 E-value=1.2e-22 Score=188.43 Aligned_cols=127 Identities=18% Similarity=0.193 Sum_probs=115.6
Q ss_pred CcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEe---------cCC-ChhhHHHHHHHHHcCCCH
Q psy2399 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFI---------CAD-DAHGAAIMIAAEKAGMTP 81 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~---------~g~-D~~G~~i~~~a~~~g~~~ 81 (232)
.++-+....|||...+||||+|++|.+|+++||++++| ++|.|+ +|+ |+||.+|...|++.|++|
T Consensus 20 ~~v~mY~CGpTVYd~~HiGh~r~~v~~Dvl~R~l~~~G-----~~V~~v~NiTDIghltg~~D~gddKIi~~A~~~g~~~ 94 (481)
T PRK14534 20 SDVKVYACGPTVYNYAHIGNFRTYIFEDLLIKSLRLLK-----YNVNYAMNITDIGHLTGDFDDGEDKVVKAARERGLTV 94 (481)
T ss_pred CceEEEeCCCCCCCCCCccchhHHHHHHHHHHHHHHcC-----CceEEEEeccccccccCCccCCCcHHHHHHHHcCCCH
Confidence 34555666788999999999999999999999999999 999994 555 445899999999999999
Q ss_pred HHHHHHHHHHHHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCC
Q psy2399 82 KEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIK 145 (232)
Q Consensus 82 ~e~~~~~~~~~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~ 145 (232)
.++++++.+.|.+++++|||.++.++++. .+|+..+++++++|. ++|++|+....+|||+.+
T Consensus 95 ~e~a~~~~~~f~~d~~~Lni~~~~~~p~a-tehi~~~i~~i~~L~-~kG~aY~~~~~vyFdv~~ 156 (481)
T PRK14534 95 YEISRFFTEAFFDDCKKLNIVYPDKVLVA-SEYIPIMIEVVKVLE-ENGFTYFVNGNVYFDTSC 156 (481)
T ss_pred HHHHHHHHHHHHHHHHHcCCCCCceecCc-cchHHHHHHHHHHHH-HCCCEEEECCeEEEeccc
Confidence 99999999999999999999999988875 489999999999999 999999999999999887
No 53
>cd00672 CysRS_core catalytic core domain of cysteinyl tRNA synthetase. Cysteinyl tRNA synthetase (CysRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding.
Probab=99.89 E-value=3.4e-23 Score=174.74 Aligned_cols=94 Identities=16% Similarity=0.167 Sum_probs=87.6
Q ss_pred CCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHH
Q psy2399 9 KDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNI 88 (232)
Q Consensus 9 ~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~ 88 (232)
+++.+++++.|. |+|++||||+|++|.+|+++||+|++| ++|.+++|+|+||+||+.+|++.|++|+++++++
T Consensus 18 ~~~~~~y~~gpt--~y~~~HiGH~r~~v~~Dvl~R~lr~~G-----~~V~~~~g~dd~g~ki~~~A~~~g~~p~e~~~~~ 90 (213)
T cd00672 18 PGLVTMYVCGPT--VYDYAHIGHARTYVVFDVLRRYLEDLG-----YKVRYVQNITDIDDKIIKRAREEGLSWKEVADYY 90 (213)
T ss_pred CCCceEEEeCCc--cCCCcccccchhHHHHHHHHHHHHhcC-----CeeEEEeecCCCCCHHHHHHHHcCCCHHHHHHHH
Confidence 355567777655 558999999999999999999999999 9999999999999999999999999999999999
Q ss_pred HHHHHHHHhccCCcC-CccccC
Q psy2399 89 SSNRKKYLDGFYIKF-DNWYST 109 (232)
Q Consensus 89 ~~~~~~~l~~lgI~~-d~~~~t 109 (232)
.+.|++++++|||++ |.|++|
T Consensus 91 ~~~f~~~~~~l~i~~~d~~~rt 112 (213)
T cd00672 91 TKEFFEDMKALNVLPPDVVPRV 112 (213)
T ss_pred HHHHHHHHHHcCCCCCCcceee
Confidence 999999999999998 999999
No 54
>PRK01611 argS arginyl-tRNA synthetase; Reviewed
Probab=99.89 E-value=8.5e-23 Score=192.34 Aligned_cols=128 Identities=16% Similarity=0.223 Sum_probs=120.6
Q ss_pred CCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHH
Q psy2399 10 DVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNIS 89 (232)
Q Consensus 10 ~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~ 89 (232)
.+++++|..++|||||++||||+|+++++|+++|++++.| ++|.++.++||+|.++...+...+..++++++.+.
T Consensus 109 ~~~~v~Ie~~spnp~g~lHiGH~R~~iigD~laR~lr~~G-----~~V~~~~~i~D~G~qi~~~a~~~~~~~~~~~~~~~ 183 (507)
T PRK01611 109 KGKKVVVEYVSANPTGPLHVGHLRSAVIGDALARILEFAG-----YDVTREYYVNDAGTQIGMLIASLELLWRKAVDISL 183 (507)
T ss_pred CCCEEEEEecCCCCCCCCcCCchHHHHHHHHHHHHHHHcC-----CcEEEEeeeCCccHHHHHHHHHHHHHHHHHHHHHH
Confidence 4578999999999999999999999999999999999999 99999999999999999999998888899999999
Q ss_pred HHHHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEE-ecccceeecc
Q psy2399 90 SNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLII-NKKINQFFDP 143 (232)
Q Consensus 90 ~~~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy-~~~~~~~~~~ 143 (232)
+.|+++|++|||.+|.|.++++..+...+++++++|. ++|++| +.++.+|++.
T Consensus 184 ~~~~~~l~~LgI~~D~~~~es~~~~~~~~~~~~~~L~-~~G~~y~~~~Ga~~~~~ 237 (507)
T PRK01611 184 DEIKEDLDRLGVHFDVWFSESELYYNGKVDEVVEDLK-EKGLLYVESDGALWVRL 237 (507)
T ss_pred HHHHHHHHHcCCeeeEEeecCcchhcchHHHHHHHHH-HCCCEEEeeCCcEEEEc
Confidence 9999999999999999999988777889999999999 999999 8788888864
No 55
>PF01406 tRNA-synt_1e: tRNA synthetases class I (C) catalytic domain; InterPro: IPR015803 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Cysteinyl-tRNA synthetase (6.1.1.16 from EC) is an alpha monomer and belongs to class Ia.; GO: 0000166 nucleotide binding, 0004817 cysteine-tRNA ligase activity, 0005524 ATP binding, 0006423 cysteinyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3SP1_B 3TQO_A 3C8Z_B 1LI5_B 1LI7_B 1U0B_B.
Probab=99.86 E-value=1.8e-21 Score=170.15 Aligned_cols=126 Identities=17% Similarity=0.245 Sum_probs=108.3
Q ss_pred CcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHH
Q psy2399 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSN 91 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~ 91 (232)
+++-+.+..|||...+||||+|++|..|++.|+|+..| ++|.++.+++|.+++|..+|++.|+++.++++++.+.
T Consensus 7 ~~v~~Y~CGPTVYd~~HiGhaR~~v~~D~l~R~L~~~g-----~~V~~V~NiTDiDDKii~~A~~~g~~~~ela~~y~~~ 81 (300)
T PF01406_consen 7 GKVRMYVCGPTVYDYAHIGHARTYVFFDVLRRYLEYLG-----YDVTYVMNITDIDDKIIKRAREEGVSPQELARRYEEE 81 (300)
T ss_dssp TEEEEEEEEEBTTS--BHHHHHHHHHHHHHHHHHHHTT------EEEEEEEEB-SSHHHHHHHHHTTS-HHHHHHHHHHH
T ss_pred CeEEEEcCCCCCCCCCCCcceeeeeeHHHHHHHHHHcC-----CeEEEEEeccccchHHHHHHHhccCCHHHHHHHHHHH
Confidence 34444444678889999999999999999999999999 9999999999999999999999999999999999999
Q ss_pred HHHHHhccCC-cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecc-cceeeccCC
Q psy2399 92 RKKYLDGFYI-KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKK-INQFFDPIK 145 (232)
Q Consensus 92 ~~~~l~~lgI-~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~-~~~~~~~~~ 145 (232)
|.++|++||| .++.+.+.+ +|...+.+++++|. ++|++|... +.+|||+..
T Consensus 82 f~~dm~~Lnv~~p~~~prat--e~i~~ii~~i~~Li-~~G~AY~~~~g~VYFdv~~ 134 (300)
T PF01406_consen 82 FFEDMKALNVLPPDHYPRAT--EHIPEIIELIEKLI-DKGHAYESEDGSVYFDVSK 134 (300)
T ss_dssp HHHHHHHTT----SEEEEGG--GGHHHHHHHHHHHH-HTTSEEEETTSEEEE-CCG
T ss_pred HHHHHHHcCCCCCccccchh--ccHHHHHHHHHHHH-HCCCeEEcCCCcEEEeecc
Confidence 9999999999 467888888 79999999999999 999999999 999999864
No 56
>PRK00750 lysK lysyl-tRNA synthetase; Reviewed
Probab=99.86 E-value=1.1e-22 Score=191.42 Aligned_cols=174 Identities=17% Similarity=0.238 Sum_probs=132.1
Q ss_pred cEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhh--------HHH-HHHHHHcCCC---
Q psy2399 13 RIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHG--------AAI-MIAAEKAGMT--- 80 (232)
Q Consensus 13 ~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G--------~~i-~~~a~~~g~~--- 80 (232)
.++|++++ +|||.+||||+++++.+|+++|++|++| ++|.+++|+|+|| .|. +..++..|++
T Consensus 24 ~~~~~~g~-~psG~~HiG~~~e~~~~d~v~r~lr~~G-----~~v~~i~~~Dd~d~lRkvp~~~p~~~~~~~~~G~pl~~ 97 (510)
T PRK00750 24 PVVVETGI-GPSGLPHIGNFREVARTDMVRRALRDLG-----IKTRLIFFSDDMDGLRKVPDNVPNQEMLEEYLGKPLTE 97 (510)
T ss_pred cEEEEeCC-CCCCCcccccccchhhHHHHHHHHHHcC-----CcEEEEEEEecCCcccccCCCCCchHHHHHhcCccccc
Confidence 47777776 7999999999999999999999999999 9999999999997 232 2344444543
Q ss_pred -------HHHHHHHHHHHHHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEe------c--ccceeeccCC
Q psy2399 81 -------PKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIIN------K--KINQFFDPIK 145 (232)
Q Consensus 81 -------~~e~~~~~~~~~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~------~--~~~~~~~~~~ 145 (232)
++++++++.+.+++.|+.|||++|.+.+|.........+.+...|. +++.|.. + ....||
T Consensus 98 ~p~p~G~~~~~~~~~~~~~~~~~~~~gi~~d~~~~t~~y~~g~~~~~i~~~l~-~~~~i~~il~~~~~~~~~~~~~---- 172 (510)
T PRK00750 98 IPDPFGCHESYAEHFNAPLREFLDRFGIEYEFISATECYKSGRYDEAILTALE-NRDEIMEILLPYLGEERQATYS---- 172 (510)
T ss_pred CCCCCCCchHHHHHHHHHHHHHHHHcCCceEEEehhhhhccCchHHHHHHHHH-hHHHHHHHHHHhcCCccCCCee----
Confidence 8999999999999999999999996655554444456666777777 7776632 1 233344
Q ss_pred CcccccceeccCCCCCCccccCCCcCccCCCCCCCcc--------ccCCcccCCCCccEEEEccceeEecCChhhHHHHH
Q psy2399 146 NIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTK--------LINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLR 217 (232)
Q Consensus 146 ~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~--------l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~ 217 (232)
++..+|++||++.+... -+.+.|. ||+..+..-.. ---|| .|-.||-.
T Consensus 173 --------------------P~~pic~~cg~~~~~~~~~~d~~~~~v~y~~~-cG~~~~~~~~~-g~~KL--~Wr~dW~~ 228 (510)
T PRK00750 173 --------------------PFLPICPKCGKVLTTPVISYDAEAGTVTYDCE-CGHEGEVPVTG-GHGKL--QWKVDWPM 228 (510)
T ss_pred --------------------eeeeeCCCCCccceEEEEEEeCCCCEEEEEcC-CCCEEEEecCC-CCccc--CCCCCcHH
Confidence 57788999999987331 2456776 99998865444 22489 89999999
Q ss_pred hhhh
Q psy2399 218 KWAI 221 (232)
Q Consensus 218 ~~~~ 221 (232)
.|.+
T Consensus 229 rW~~ 232 (510)
T PRK00750 229 RWAA 232 (510)
T ss_pred HHHH
Confidence 9943
No 57
>KOG0432|consensus
Probab=99.85 E-value=5.6e-21 Score=182.90 Aligned_cols=141 Identities=20% Similarity=0.203 Sum_probs=128.0
Q ss_pred CCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHc-----CC-----
Q psy2399 10 DVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKA-----GM----- 79 (232)
Q Consensus 10 ~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~-----g~----- 79 (232)
....|+++.|||+++|.||||||.+..+.|+++||.||.| ++|.++.|+|+.|..++..++|. |+
T Consensus 73 ~~~~f~i~~PPPNVTG~LHiGHALt~aiqD~i~R~~rm~G-----~~vlw~PG~DHAGIATQ~VVEK~l~~~~~~~Rh~l 147 (995)
T KOG0432|consen 73 PGGVFVIPLPPPNVTGSLHIGHALTVAIQDALARYNRMHG-----YQVLWVPGTDHAGIATQVVVEKQLAREGGKTRHDL 147 (995)
T ss_pred CCCcceeecCCCCcccccchhHHHHHHHHHHHHHHHHhcC-----CeeeecCCccccchhHHHHHHHHHHHhcCcchhhc
Confidence 4567999999999999999999999999999999999999 99999999999999999999872 22
Q ss_pred CH-------HHHHHHHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccc
Q psy2399 80 TP-------KEFINNISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLP 150 (232)
Q Consensus 80 ~~-------~e~~~~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~ 150 (232)
.. .++.+++...|.++|++||. +|++...|+|+...+.|.+.|.+|+ +.|+||+..+.+.||+...+.+|
T Consensus 148 gRe~F~~~vw~Wk~e~g~~I~~Qlk~lGas~DW~re~fTmD~~~s~AV~eAFvrL~-eeglIyR~~rlVNW~~~L~saiS 226 (995)
T KOG0432|consen 148 GREEFLKEVWEWKEEYGGRIYNQLKRLGASLDWDREAFTMDPKLSRAVTEAFVRLH-EEGLIYRANRLVNWCPALRSAIS 226 (995)
T ss_pred CHHHHHHHHHHHHHHhCccHHHHHHHhcCcccccHhhcccCHHHHHHHHHHHHHHH-hcCceEecCceeeechhHHhhhh
Confidence 22 34566777899999999997 6788889999999999999999999 99999999999999999999999
Q ss_pred cceecc
Q psy2399 151 DRYIKG 156 (232)
Q Consensus 151 ~~~v~g 156 (232)
|.+|+-
T Consensus 227 diEVe~ 232 (995)
T KOG0432|consen 227 DIEVES 232 (995)
T ss_pred hheecc
Confidence 999964
No 58
>KOG0433|consensus
Probab=99.82 E-value=5.6e-20 Score=173.40 Aligned_cols=139 Identities=22% Similarity=0.309 Sum_probs=122.7
Q ss_pred CCCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHH-HHHHH------cCCC
Q psy2399 8 FKDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIM-IAAEK------AGMT 80 (232)
Q Consensus 8 ~~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~-~~a~~------~g~~ 80 (232)
++.+..|++.+ +||.||+||+++.|+.|++.|++-+.| ..+.++.|||+||+||+ .+|-+ ..++
T Consensus 55 ~~q~~~f~L~d----anG~lhlghalnkILkdIinr~~laqg-----~~alyvpGwDchGLPiEs~kalssl~~~~~~~s 125 (937)
T KOG0433|consen 55 DQQRVEFELKD----ANGNLHLGHALNKILKDIINRILLAQG-----KSALYVPGWDCHGLPIESTKALSSLTESEGSRT 125 (937)
T ss_pred hccCceEEEec----cCCCccchHHHHHHHHHHHHHHHHhcC-----ceeccCCCCCcCCCchHHHHHhhhhhhccccCC
Confidence 34445677776 999999999999999999999999999 99999999999999999 45543 2345
Q ss_pred HHH-------HHHHHHHHHHHHHhccCC--cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCccccc
Q psy2399 81 PKE-------FINNISSNRKKYLDGFYI--KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPD 151 (232)
Q Consensus 81 ~~e-------~~~~~~~~~~~~l~~lgI--~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~ 151 (232)
|.| +++.-.+.+++.++++|| +|...+-|.++.|.....++|.+|+ +||+||+...++||+|+..|.|+|
T Consensus 126 ~leiR~~Ar~fA~~AIk~Q~e~F~r~gv~aDW~n~Y~T~~~~ye~aQL~iF~~ly-ekgLvyR~~KPVyWSpSSRTALAE 204 (937)
T KOG0433|consen 126 PLEIRAKARIFADEAIKKQMEAFRRWGVTADWENPYVTKSPSYEAAQLDIFAKLY-EKGLVYRSFKPVYWSPSSRTALAE 204 (937)
T ss_pred cHHHHHHHHHHHHHHHHHHHHHHHHheeeccCCCceeecChHHHHHHHHHHHHHH-hccceeccCCcceecCcchhhhhh
Confidence 554 466667888999999999 8999999999999999999999999 999999999999999999999999
Q ss_pred ceecc
Q psy2399 152 RYIKG 156 (232)
Q Consensus 152 ~~v~g 156 (232)
++++=
T Consensus 205 aELEY 209 (937)
T KOG0433|consen 205 SELEY 209 (937)
T ss_pred hhccC
Confidence 99874
No 59
>COG0215 CysS Cysteinyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=99.81 E-value=1.8e-19 Score=165.07 Aligned_cols=124 Identities=19% Similarity=0.229 Sum_probs=115.8
Q ss_pred cEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHH
Q psy2399 13 RIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNR 92 (232)
Q Consensus 13 ~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~ 92 (232)
+.||| .|||....||||+|++|..|++.|||+..| |.|.|+.+++|.+.||...|.+.|.++.++++++.++|
T Consensus 24 ~mYvC--GpTVYd~~HIGhaRt~V~fDvl~R~L~~~G-----y~V~yV~NiTDIDDKIi~rA~~~g~~~~ev~~~~i~~f 96 (464)
T COG0215 24 KMYVC--GPTVYDYAHIGHARTYVVFDVLRRYLRYLG-----YKVTYVRNITDIDDKIINRAREEGLSIREVAERYIAAF 96 (464)
T ss_pred EEEec--CCccCCccccccCcceehHHHHHHHHHHhC-----CeEEEEeccccccHHHHHHHHHhCCCHHHHHHHHHHHH
Confidence 45555 678889999999999999999999999999 88999999999999999999999999999999999999
Q ss_pred HHHHhccCC-cCCccccCCChhHHHHHHHHHHHHHhhcCCEEec-ccceeeccCCC
Q psy2399 93 KKYLDGFYI-KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINK-KINQFFDPIKN 146 (232)
Q Consensus 93 ~~~l~~lgI-~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~-~~~~~~~~~~~ 146 (232)
.+++++||| .+|...+.+ +|+..+.+++++|. +||++|.. .+.++|++..-
T Consensus 97 ~~D~~aL~v~~p~~~PraT--e~I~~iI~~I~~Li-ekG~AY~~~~G~VYFdv~~f 149 (464)
T COG0215 97 FEDMDALNVLPPDIEPRAT--EHIDEIIEFIEKLI-EKGYAYVADDGDVYFDVSKF 149 (464)
T ss_pred HHHHHHhCCCCCcccCcHh--hCHHHHHHHHHHHH-HCCceEEecCCcEEEecccc
Confidence 999999999 678998988 79999999999999 99999998 68999988754
No 60
>KOG0434|consensus
Probab=99.80 E-value=1.6e-19 Score=169.30 Aligned_cols=143 Identities=22% Similarity=0.226 Sum_probs=130.4
Q ss_pred CCCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHH-cCCC------
Q psy2399 8 FKDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEK-AGMT------ 80 (232)
Q Consensus 8 ~~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~-~g~~------ 80 (232)
-+++++|...++||.++|.+|-||+..-++.|+.-||..+.| +.|...+|||+||+||+...++ +|++
T Consensus 34 sk~rp~ftFyDGPPFATGlPHyGHiLa~TIKDiVtRya~~~G-----~hVeRRFGWD~HGlPVE~eIDKkLgI~g~~dV~ 108 (1070)
T KOG0434|consen 34 SKGRPKFTFYDGPPFATGLPHYGHILASTIKDIVTRYATQTG-----HHVERRFGWDTHGLPVEYEIDKKLGITGRDDVM 108 (1070)
T ss_pred hCCCCceeeccCCccccCCCccchhhhhhHHHHHHHHhhccc-----cceeeecccccCCCccceeechhcCCCCHHHHH
Confidence 466788999999999999999999999999999999999999 9999999999999999988765 5653
Q ss_pred ----------HHHHHHHHHHHHHHHHhccC--CcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcc
Q psy2399 81 ----------PKEFINNISSNRKKYLDGFY--IKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIF 148 (232)
Q Consensus 81 ----------~~e~~~~~~~~~~~~l~~lg--I~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~ 148 (232)
+..++-+|+.+++++..+|| |+||+-+.|+.+.+.+.|+++|.+|+ +||++|++-.-.+||..|.|+
T Consensus 109 kmGI~kYN~ECR~IVmrYssEWe~tv~RlGRWidF~ndYkTmyp~FMESvWwvFkeL~-~kglVYRG~kVMP~STac~TP 187 (1070)
T KOG0434|consen 109 KMGIDKYNNECRKIVMRYSSEWEKTVERLGRWIDFDNDYKTLYPSFMESVWWVFKELH-EKGLVYRGFKVMPYSTACTTP 187 (1070)
T ss_pred HHhHHhHhHHHHHHHHHHHHHHHHHHHhhccceeccCCcceecHHHHHHHHHHHHHHH-hcCceecceeeeccccccCCc
Confidence 34467788899999999999 69999999999999999999999999 999999999999999999999
Q ss_pred cccceecc
Q psy2399 149 LPDRYIKG 156 (232)
Q Consensus 149 l~~~~v~g 156 (232)
||.=+...
T Consensus 188 LSNFEa~Q 195 (1070)
T KOG0434|consen 188 LSNFEAQQ 195 (1070)
T ss_pred ccchhccc
Confidence 98765543
No 61
>TIGR00467 lysS_arch lysyl-tRNA synthetase, archaeal and spirochete. This model represents the lysyl-tRNA synthetases that are class I amino-acyl tRNA synthetases. It includes archaeal and spirochete examples of the enzyme. All other known examples are class IIc amino-acyl tRNA synthetases and seem to form a separate orthologous set.
Probab=99.79 E-value=3.5e-20 Score=173.87 Aligned_cols=173 Identities=18% Similarity=0.213 Sum_probs=128.9
Q ss_pred CcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChh------------------hHHHHHH
Q psy2399 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAH------------------GAAIMIA 73 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~------------------G~~i~~~ 73 (232)
.+++|+++.+ |||.+||||+++.+.+|+++|++|++| .+|.+++++|+| |.|+...
T Consensus 18 ~~~~~~tg~~-psG~~HiG~~~e~~~~d~v~r~~r~~g-----~~~~~i~~~Dd~D~lRKvp~~~p~~~~~ylG~Pl~~v 91 (515)
T TIGR00467 18 NLYTVASGIT-PSGHIHIGNFREVITADAIARALRDSG-----SEARFIYIADNYDPLRKVYPFLPEELETYLGMPLTRI 91 (515)
T ss_pred CeEEEecCCC-CCCCccccchhhhhHHHHHHHHHHHcC-----CCEEEEEEEcCCcccccccccccHHHHHhCCCcceec
Confidence 4688888886 999999999999999999999999999 999999999999 9999999
Q ss_pred HHHcCCCHHHHHHHHHHHHHHHHhccCCcCCccccCCC---hhHHHHHHHHHHHHHhhcCCE---Ee--cccceeeccCC
Q psy2399 74 AEKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDS---IENIDLVQKIYDTLYNKAKLI---IN--KKINQFFDPIK 145 (232)
Q Consensus 74 a~~~g~~~~e~~~~~~~~~~~~l~~lgI~~d~~~~t~~---~~~~~~v~~~~~~L~~~kG~i---y~--~~~~~~~~~~~ 145 (232)
++..|+. +.+++++...+.+.|+.|||+++....|.. -.+.+.+..+++.-. +-.-| |+ .....||
T Consensus 92 pdp~g~~-~s~~~h~~~~~~~~l~~~gi~~e~~s~te~Y~sG~~~~~i~~~L~~~~-~I~~il~~~~~~~~~~~~~---- 165 (515)
T TIGR00467 92 PDPEGCK-TSYAEHFLIPFLESLPVLGINPEFIRASKQYTSGLYASQIKIALDHRK-EISEILNEYRTSKLEENWY---- 165 (515)
T ss_pred CCCCCCc-HHHHHHHHHHHHHHHHHcCCeEEEEEHHHhhhcCChHHHHHHHHHhHH-HHHHHHHHhcCCccCCCce----
Confidence 9999996 999999999999999999998865533321 112222222222111 10000 12 2234455
Q ss_pred CcccccceeccCCCCCCccccCCCcCccCCCCCCCc------cccCCcccCCCCccEEEEccceeEecCChhhHHHHHhh
Q psy2399 146 NIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPT------KLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKW 219 (232)
Q Consensus 146 ~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~------~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~ 219 (232)
++..+|++||++.++. .-+.++|. ||+..+..-...- -|| .|-.||-..|
T Consensus 166 --------------------P~~pic~~cGrv~~~~~~~~~~~~v~Y~c~-cG~~g~~~~~~g~-~KL--~WkvdW~~RW 221 (515)
T TIGR00467 166 --------------------PISVFCENCGRDTTTVNNYDNEYSIEYSCE-CGNQESVDIYTGA-IKL--PWRVDWPARW 221 (515)
T ss_pred --------------------eeeeecCCcCccCceEEEecCCceEEEEcC-CCCEEEEeecCCC-ccc--CCCCCcHhhH
Confidence 5778899999997632 12567786 9999987544322 299 8999999999
Q ss_pred h
Q psy2399 220 A 220 (232)
Q Consensus 220 ~ 220 (232)
.
T Consensus 222 ~ 222 (515)
T TIGR00467 222 K 222 (515)
T ss_pred h
Confidence 4
No 62
>cd00802 class_I_aaRS_core catalytic core domain of class I amino acyl-tRNA synthetase. Class I amino acyl-tRNA synthetase (aaRS) catalytic core domain. These enzymes are mostly monomers which aminoacylate the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding.
Probab=99.72 E-value=2.3e-17 Score=130.71 Aligned_cols=77 Identities=26% Similarity=0.251 Sum_probs=74.2
Q ss_pred EEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Q psy2399 16 VTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKKY 95 (232)
Q Consensus 16 v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~~ 95 (232)
|++++|||||++||||+|+++++|+++|++|++| ++|.+++|+||+|.++...|.+.+++++++++++.+.|+++
T Consensus 1 ~~~~~p~~~~~~HlGh~~~~~~~d~~~r~lr~~G-----~~v~~~~~~dd~~~~~~~~a~~~~~~~~~~~~~~~~~~~~~ 75 (143)
T cd00802 1 TTFSGITPNGYLHIGHLRTIVTFDFLAQAYRKLG-----YKVRCIALIDDAGGLIGDPANKKGENAKAFVERWIERIKED 75 (143)
T ss_pred CEecCCCCCCCccHhHHHHHHHHHHHHHHHHHcC-----CCeEEEeeeCCCchHHHHHHHhcCCCHHHHHHHHHHHHHHH
Confidence 4678899999999999999999999999999999 99999999999999999999999999999999999999998
Q ss_pred Hh
Q psy2399 96 LD 97 (232)
Q Consensus 96 l~ 97 (232)
++
T Consensus 76 ~~ 77 (143)
T cd00802 76 VE 77 (143)
T ss_pred HH
Confidence 87
No 63
>KOG2007|consensus
Probab=99.68 E-value=4.1e-16 Score=142.44 Aligned_cols=125 Identities=16% Similarity=0.156 Sum_probs=108.3
Q ss_pred cEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHH-HcCCCCCCceeEEecCCChhhHHHHHHHHH--cCCCHHHHHH---
Q psy2399 13 RIFVTTALPYANGELHIGHIMEYIQADIWVRFQC-MQQDNGKSRQVYFICADDAHGAAIMIAAEK--AGMTPKEFIN--- 86 (232)
Q Consensus 13 ~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr-~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~--~g~~~~e~~~--- 86 (232)
.+|++ .||++..-||||||+||..||+.|+|+ ..| |+|.|++++.|.+++|...|++ .+..|..+.+
T Consensus 57 ~wY~C--GpTvYD~SHmGHArsYVsfDIlrRiL~dyfg-----y~V~~vmNiTDVDDKII~RAr~~~m~e~~~~l~~~F~ 129 (586)
T KOG2007|consen 57 TWYIC--GPTVYDSSHMGHARSYVSFDILRRILRDYFG-----YDVTFVMNITDVDDKIIKRARKEEMGEKPLSLSERFC 129 (586)
T ss_pred EEEEe--cCcccchhhhhhhhhhhhHHHHHHHHHHHcC-----cceEEEecccchhHHHHHHhhhhhhccchhhHHHHHH
Confidence 44555 678999999999999999999999999 889 9999999999999999999972 3444444433
Q ss_pred HHHHHHHHHHhccCC-cCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCc
Q psy2399 87 NISSNRKKYLDGFYI-KFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNI 147 (232)
Q Consensus 87 ~~~~~~~~~l~~lgI-~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~ 147 (232)
.|.+.|.++|.+|++ .++...|-+ +|...+..+++++. ++|++|..++++|||+..-.
T Consensus 130 ~~e~eF~~DM~~LnvLpPtv~tRVS--eyvp~II~fIqkII-dnG~aY~~dGsVYFdv~kf~ 188 (586)
T KOG2007|consen 130 YYEEEFLQDMAALNVLPPTVQTRVS--EYVPQIIKFIQKII-DNGYAYAVDGSVYFDVDKFP 188 (586)
T ss_pred HHHHHHHHHHHHhCCCCCcccchhh--hchHHHHHHHHHHH-hCCceeeeCCcEEEeccccc
Confidence 567999999999999 677777777 79999999999999 99999999999999987654
No 64
>KOG0437|consensus
Probab=99.62 E-value=1.4e-15 Score=144.09 Aligned_cols=141 Identities=23% Similarity=0.330 Sum_probs=116.1
Q ss_pred cCCCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHc-------CC
Q psy2399 7 EFKDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKA-------GM 79 (232)
Q Consensus 7 ~~~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~-------g~ 79 (232)
..+.+++|+++.|.||.||.||+||+++.--.|+.+-|.|++| ++|+|.+|+.+.|.||...|+++ |.
T Consensus 39 l~~~~~Kff~tfpyPYMNG~LHlGH~FslSK~eFa~~y~rL~G-----k~vLfPfgFHCTGMPI~A~AdKLkrEie~fG~ 113 (1080)
T KOG0437|consen 39 LQKSKPKFFVTFPYPYMNGRLHLGHAFSLSKVEFASGYERLQG-----KNVLFPFGFHCTGMPIKASADKLKREIELFGC 113 (1080)
T ss_pred cccccCceeEeccccccCceeeccceeehhhhHHHHHHHHhcC-----ceEEeecccccCCCccHHhHHHHHHHHHHhCC
Confidence 3566789999999999999999999999999999999999999 99999999999999999999874 22
Q ss_pred CH---H-----------------------------------------------------------HHHHHHHHHHHHHHh
Q psy2399 80 TP---K-----------------------------------------------------------EFINNISSNRKKYLD 97 (232)
Q Consensus 80 ~~---~-----------------------------------------------------------e~~~~~~~~~~~~l~ 97 (232)
+| + .|...+-..-.++|.
T Consensus 114 ppdf~~e~eeEv~eev~~~~~~~~~k~kgKKsk~aaK~g~~kYQw~IM~slGl~deEI~~F~d~~~WL~yFPpLc~~dlk 193 (1080)
T KOG0437|consen 114 PPDFPEEEEEEVEEEVKTEDAIEDVKFKGKKSKAAAKTGGQKYQWEIMESLGLPDEEIKKFADPKHWLYYFPPLCERDLK 193 (1080)
T ss_pred CCCCchhhhhhhhhcccccccccccccccchhhHHHhhcccchhHHHHHHcCCCHHHhhcccChhHHHHhCChHHHHHHH
Confidence 11 0 011111134556778
Q ss_pred ccCC--cCCc-cccCC-ChhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccce
Q psy2399 98 GFYI--KFDN-WYSTD-SIENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRY 153 (232)
Q Consensus 98 ~lgI--~~d~-~~~t~-~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~ 153 (232)
++|. +|.+ |+.|+ +|.|..+|+|.|.+|. +.|.|..+++..-|||.++++.-|..
T Consensus 194 ~~gl~iDWRRSFITTDvNpYyDsFVRWQ~n~L~-~~gkI~fgkRyTIyspkDgQpCmDHD 252 (1080)
T KOG0437|consen 194 RFGLGIDWRRSFITTDVNPYYDSFVRWQFNKLK-EAGKIKFGKRYTIYSPKDGQPCMDHD 252 (1080)
T ss_pred HhCCCcceeeeeeecccchhHHHHHHHHHHHHH-hcCCcccCcceeeecCCCCCcccccc
Confidence 7775 6655 66665 6889999999999999 99999999999999999999976643
No 65
>PF00750 tRNA-synt_1d: tRNA synthetases class I (R); InterPro: IPR015945 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry represents the core region of arginyl-tRNA synthetase (6.1.1.19 from EC), which has been crystallized and preliminary X-ray crystallographic analysis of yeast arginyl-tRNA synthetase-yeast tRNAArg complexes is available []. ; GO: 0000166 nucleotide binding, 0004814 arginine-tRNA ligase activity, 0005524 ATP binding, 0006420 arginyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 2ZUE_A 2ZUF_A 3FNR_A 1IQ0_A 1F7V_A 1F7U_A 1BS2_A 3GDZ_B.
Probab=99.58 E-value=1.3e-14 Score=131.35 Aligned_cols=132 Identities=20% Similarity=0.250 Sum_probs=100.5
Q ss_pred cCCCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHc--------C
Q psy2399 7 EFKDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKA--------G 78 (232)
Q Consensus 7 ~~~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~--------g 78 (232)
..+.+++++|-...|+|+|+|||||+|+.+++|+|+|.++..| ++|.-...++|.|.++...+... .
T Consensus 15 ~~~~~~kv~VE~sSpNp~kplHvGHlR~~iiGd~laril~~~G-----~~V~r~nyigD~G~Q~~~l~~~~~~~~~~~~~ 89 (354)
T PF00750_consen 15 EKGKGKKVVVEFSSPNPTKPLHVGHLRNTIIGDSLARILEAAG-----YDVTRENYIGDWGTQIGLLAASYKKFGDEELL 89 (354)
T ss_dssp -TTTSEEEEEEE---BTTSS-BHHHHHHHHHHHHHHHHHHHTT-----EEEEEEEEEBTTSHHHHHHHHHHHHHHHHHTS
T ss_pred ccCCCCEEEEEecCCCCCCCCcCCcchhhhhhHHHHHHHHHcC-----CeeeeEEEECCCCHHHHHHHHHHHhhhhhhhc
Confidence 3456788999999999999999999999999999999999999 99999999999987766554210 0
Q ss_pred -----------------------C------C------------------HHHHHHH-HHHHHHHHHhccCCcCCccccCC
Q psy2399 79 -----------------------M------T------------------PKEFINN-ISSNRKKYLDGFYIKFDNWYSTD 110 (232)
Q Consensus 79 -----------------------~------~------------------~~e~~~~-~~~~~~~~l~~lgI~~d~~~~t~ 110 (232)
. . ..++... +.+.++++|++++|.+|.+...+
T Consensus 90 ~~~~~~~l~~~Y~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~le~gd~~~~~~~~~~~~~~~k~~l~~l~i~fDv~~~E~ 169 (354)
T PF00750_consen 90 EEDPIKHLEDLYVGANKRDEADEIAEKEPEELEEEAREYLKKLEQGDEEFRELWQKYILEWSKETLQRLYIRFDVWFDES 169 (354)
T ss_dssp HSSCHHHHHHHHHHHHHHHHHTTCSSGCCCCHHHHHHHHHHHHHHCCTTHHHHHHHHHHHHHHHHHHHTT---SEEEEHC
T ss_pred ccccccchhhhhhhhhhhhhhhhhccccccccccccceeeeecccccHHHHHHHHHHHHHHHHHHHHHHHHHhCcCcccc
Confidence 0 0 0011223 56788899999999999998776
Q ss_pred ChhHHHHHHHHHHHHHhhcCCEEecccceeeccC
Q psy2399 111 SIENIDLVQKIYDTLYNKAKLIINKKINQFFDPI 144 (232)
Q Consensus 111 ~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~ 144 (232)
+..+...+..+++.|. ++|++|+.++..|++..
T Consensus 170 Es~~~~~v~~vl~~L~-e~g~~~~~dGa~~i~~~ 202 (354)
T PF00750_consen 170 ESFYSGKVDEVLERLK-EKGLLYESDGALWIDLT 202 (354)
T ss_dssp HHHHTTHHHHHHHHHH-CTTTEEEETTEEEEEGC
T ss_pred hhhhhhHHHHHHHHHH-hCCcEEecCCcEEEech
Confidence 5567888999999999 99999999999988654
No 66
>COG0018 ArgS Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=99.57 E-value=1.5e-14 Score=137.57 Aligned_cols=126 Identities=22% Similarity=0.235 Sum_probs=104.3
Q ss_pred CCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHH--------cC--
Q psy2399 9 KDVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEK--------AG-- 78 (232)
Q Consensus 9 ~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~--------~g-- 78 (232)
..+++++|-...|+|+||+||||+|+.|++|+++|.++..| |+|.-...++|.|.++-..+.. .+
T Consensus 114 ~~~~kV~iE~sSaNptkplHiGHlR~aiiGDsLaril~~~G-----y~V~r~~yvnD~G~Q~~~l~~~~~~~~~e~~~~~ 188 (577)
T COG0018 114 GKGKKVVIEYSSANPTGPLHIGHLRNAIIGDSLARILEFLG-----YDVTRENYVNDWGTQIGMLALSYEKRGREALGLT 188 (577)
T ss_pred CCCCEEEEEEeCCCCCCCcccchhhhhHHHHHHHHHHHHcC-----CCeeEEeeECcHHHHHHHHHHHHHHhccccccCC
Confidence 34579999999999999999999999999999999999999 9999988888888766544311 00
Q ss_pred -------------------CCHH------------------H------HHHHHHHHHHHHHhccCCcCCccccCCChhHH
Q psy2399 79 -------------------MTPK------------------E------FINNISSNRKKYLDGFYIKFDNWYSTDSIENI 115 (232)
Q Consensus 79 -------------------~~~~------------------e------~~~~~~~~~~~~l~~lgI~~d~~~~t~~~~~~ 115 (232)
.++. + +++...+.++++|++|||.+|.|.+.++..+.
T Consensus 189 ~~~~~~lg~~y~~i~~~~~~~~~~~~~~~~~~~~k~e~~d~~~~lw~~~v~~~l~~~k~~l~~l~V~fD~~~~E~e~~~~ 268 (577)
T COG0018 189 PEPDGYLGEYYVKIAKDLEEDPGNDEEEAREEVEKLESGDEEAELWRKFVDLSLEGIKETLDRLGVKFDVYDSEGESFYN 268 (577)
T ss_pred CCcchHHHHHHHHHHHHHHhCcccchHHHHHHHHHHhcCChHHHHHHHHHHHHHHHHHHHHHHhCcccceeeccchhhhc
Confidence 0111 1 45566789999999999999999988877778
Q ss_pred HHHHHHHHHHHhhcCCEEeccccee
Q psy2399 116 DLVQKIYDTLYNKAKLIINKKINQF 140 (232)
Q Consensus 116 ~~v~~~~~~L~~~kG~iy~~~~~~~ 140 (232)
..+..+++.|. ++|++|+.++..+
T Consensus 269 ~~~~~vv~~L~-~~~~~~e~~GA~~ 292 (577)
T COG0018 269 GKVEKVVEDLE-EKGLLYEDDGALV 292 (577)
T ss_pred ccHHHHHHHHH-hcCCEeeeCCeEE
Confidence 89999999999 9999999776663
No 67
>TIGR00456 argS arginyl-tRNA synthetase. This model recognizes arginyl-tRNA synthetase in every completed genome to date. An interesting feature of the alignment of all arginyl-tRNA synthetases is a fairly deep split between two families. One family includes archaeal, eukaryotic and organellar, spirochete, E. coli, and Synechocystis sp. The second, sharing a deletion of about 25 residues in the central region relative to the first, includes Bacillus subtilis, Aquifex aeolicus, the Mycoplasmas and Mycobacteria, and the Gram-negative bacterium Helicobacter pylori.
Probab=99.57 E-value=1.7e-14 Score=137.80 Aligned_cols=126 Identities=20% Similarity=0.240 Sum_probs=102.8
Q ss_pred CCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHH---cCC--------
Q psy2399 11 VRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEK---AGM-------- 79 (232)
Q Consensus 11 ~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~---~g~-------- 79 (232)
+++++|..+.|||+|++||||+|+++++|+++|++++.| ++|.-...+.|.|.++-..+.. .+.
T Consensus 111 ~~~v~ve~~spn~~~~~hiGh~r~~~~gd~l~r~~~~~g-----~~v~r~~yinD~G~Q~~~l~~~~~~~~~~~~~~~~~ 185 (566)
T TIGR00456 111 NKKIIIEFSSANPAGPLHIGHLRNAIIGDSLARILEFLG-----YDVIREYYVNDWGRQFGLLALGVEKFGNEKLNEAVK 185 (566)
T ss_pred CCeEEEEecCCCCCCCCchhhhHHHHHHHHHHHHHHHCC-----CCeeEEeeecchHHHHHHHHHHHHHhCCccccCccc
Confidence 568999999999999999999999999999999999999 9999888888888766554421 100
Q ss_pred -------------------------------------CH------HHHHHHHHHHHHHHHhccCCcCCccccCCChhHHH
Q psy2399 80 -------------------------------------TP------KEFINNISSNRKKYLDGFYIKFDNWYSTDSIENID 116 (232)
Q Consensus 80 -------------------------------------~~------~e~~~~~~~~~~~~l~~lgI~~d~~~~t~~~~~~~ 116 (232)
++ +.+++...+.++++|++|||.+|.|.+.++..+..
T Consensus 186 ~~~~~~~~~Y~~~~~~~~~~~~~~~~~~~~~~~le~~d~~~~~~w~~~~~~~l~~~~~~~~~l~V~fD~~~~E~e~~~~~ 265 (566)
T TIGR00456 186 KPDHGLEGFYVEINKRLEENEELEEEARELFVKLESGDEEAIKLWKRLVEYSLEGIKETLARLNIHFDSFVWEGESVKNG 265 (566)
T ss_pred CChHHHHHHHHHHHHHHhhCccHHHHHHHHHHhccCCCHHHHHHHHHHHHHHHHHHHHHHHHcCCceeeeeccccccccc
Confidence 01 11234455899999999999999998777667778
Q ss_pred HHHHHHHHHHhhcCCEEecccceeecc
Q psy2399 117 LVQKIYDTLYNKAKLIINKKINQFFDP 143 (232)
Q Consensus 117 ~v~~~~~~L~~~kG~iy~~~~~~~~~~ 143 (232)
.+..+++.|. ++|++|++ +..|.+.
T Consensus 266 ~~~~v~~~L~-~~g~~~~~-Ga~~~~~ 290 (566)
T TIGR00456 266 MVPKVLEDLK-EKGLVVED-GALWLDL 290 (566)
T ss_pred cHHHHHHHHH-HCCCEEEc-CCEEEEc
Confidence 8999999999 99999987 8888754
No 68
>PRK12451 arginyl-tRNA synthetase; Reviewed
Probab=99.56 E-value=3.8e-14 Score=135.17 Aligned_cols=126 Identities=11% Similarity=0.058 Sum_probs=101.9
Q ss_pred CCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHH---cCCC------
Q psy2399 10 DVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEK---AGMT------ 80 (232)
Q Consensus 10 ~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~---~g~~------ 80 (232)
++++++|-...|+|+|+|||||+|+.+++|+++|.++..| ++|.-...++|.|.++-..+.. .|..
T Consensus 111 ~~~~v~vE~sSpNp~kplHvGH~R~aiiGd~l~ril~~~G-----~~V~r~nyinD~G~Q~~~l~~~~~~~~~~~~~~~~ 185 (562)
T PRK12451 111 CEKTVVIDYSSPNIAKPFSMGHLRSTMIGNALKHIAEKCG-----YEVVGINYIGDWGTQFGKLITAYKKWGNEAVVKED 185 (562)
T ss_pred CCCEEEEEecCCCCCCCcccchhhhHHHHHHHHHHHHHCC-----CCeEEEeeecCchHHHHHHHHHHHHhCCccccccC
Confidence 3578999999999999999999999999999999999999 9999999999998766655421 1110
Q ss_pred -------------------------------------------HHHHHHHHHHHHHHHHhccCCcCCccccCCChhHHHH
Q psy2399 81 -------------------------------------------PKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDL 117 (232)
Q Consensus 81 -------------------------------------------~~e~~~~~~~~~~~~l~~lgI~~d~~~~t~~~~~~~~ 117 (232)
.+.+++...+.|+++|++|||.||.|...+ .|...
T Consensus 186 ~~~~l~~~Y~~~~~~~~~~~~~~~~~~~~~~~le~gd~~~~~~w~~~~~~~l~~~~~~~~~l~V~fD~~~~es--~~~~~ 263 (562)
T PRK12451 186 PIRELFKLYVQFHEEVKDDEELEEEGRAWFKKLEEGDEEAVELWNWFRHESLKEFSRIYELLGVEFTNFQGEA--FYNDL 263 (562)
T ss_pred chHHHHHHHHHHHHhhccChhHHHHHHHHHHHhhCCCHHHHHHHHHHHHHHHHHHHHHHHHcCCCceeecchH--hhhhh
Confidence 011234445789999999999999665444 56777
Q ss_pred HHHHHHHHHhhcCCEEecccceeecc
Q psy2399 118 VQKIYDTLYNKAKLIINKKINQFFDP 143 (232)
Q Consensus 118 v~~~~~~L~~~kG~iy~~~~~~~~~~ 143 (232)
+..+++.|. ++|++|+.++..|.+.
T Consensus 264 ~~~v~~~L~-~~g~~~e~dGa~~~~~ 288 (562)
T PRK12451 264 MEDFIGILE-EHDLLEESEGALVVNL 288 (562)
T ss_pred HHHHHHHHH-HCCCEEecCCeEEEEe
Confidence 899999999 9999999998888654
No 69
>PF01921 tRNA-synt_1f: tRNA synthetases class I (K); InterPro: IPR002904 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Lysyl-tRNA synthetase (6.1.1.6 from EC) is an alpha 2 homodimer that belong to both class I and class II. In eubacteria and eukaryota lysyl-tRNA synthetases belong to class II in the same family as aspartyl tRNA synthetase. The class Ic lysyl-tRNA synthetase family is present in archaea and in a number of bacterial groups that include the alphaproteobacteria and spirochaetes[]. A refined crystal structures shows that the active site of LysU is shaped to position the substrates for the nucleophilic attack of the lysine carboxylate on the ATP alpha-phosphate. No residues are directly involved in catalysis, but a number of highly conserved amino acids and three metal ions coordinate the substrates and stabilise the pentavalent transition state. A loop close to the catalytic pocket, disordered in the lysine-bound structure, becomes ordered upon adenine binding [].; GO: 0000166 nucleotide binding, 0004824 lysine-tRNA ligase activity, 0005524 ATP binding, 0006430 lysyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IRX_A.
Probab=99.53 E-value=3.4e-16 Score=140.18 Aligned_cols=171 Identities=18% Similarity=0.245 Sum_probs=101.7
Q ss_pred CCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhH--------HHHHHHHHcCCC--
Q psy2399 11 VRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGA--------AIMIAAEKAGMT-- 80 (232)
Q Consensus 11 ~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~--------~i~~~a~~~g~~-- 80 (232)
+..+++-++. +|+|.+|||+++..+.+|+++|-++.+| .+|.+++.+||.+- |-...++-+|++
T Consensus 22 ~~~~v~~sG~-sPSG~~HIGn~rEv~~~~~V~~al~~~g-----~~~r~i~~~DD~D~lRKvP~~~p~~~~~~ylg~Plt 95 (360)
T PF01921_consen 22 KEPYVFASGI-SPSGLPHIGNFREVLRADMVARALRDRG-----KDVRLIYFSDDMDPLRKVPPNVPNPELEKYLGKPLT 95 (360)
T ss_dssp -SEEEEEEEE---SS---HHHHHHHHHHHHHHHHHHTTT------EEEEEEEE-TTSB-----TTS-CC-CCCCTTSBTT
T ss_pred CccEEEecCC-CCCCCcccccccchhhHHHHHHHHHHcC-----CCEEEEEEeecCCcccCCCCCCChHHHHHhcCCccc
Confidence 4555666554 9999999999999999999999999999 99999999999751 111001112321
Q ss_pred --------HHHHHHHHHHHHHHHHhccCCcCCccccCCC---hhH----------HHHHHHHHHHHHhhcCCEEecccce
Q psy2399 81 --------PKEFINNISSNRKKYLDGFYIKFDNWYSTDS---IEN----------IDLVQKIYDTLYNKAKLIINKKINQ 139 (232)
Q Consensus 81 --------~~e~~~~~~~~~~~~l~~lgI~~d~~~~t~~---~~~----------~~~v~~~~~~L~~~kG~iy~~~~~~ 139 (232)
...+++++...+.+.|+.|||+++....|.. -.+ ...+.+++.... .+ .....
T Consensus 96 ~VPdP~G~~~SyaeH~~~~~~~~L~~~gie~e~~s~te~Y~sG~y~~~i~~aL~~~~~I~~Il~~~~-~~-----~~~~~ 169 (360)
T PF01921_consen 96 RVPDPFGCHESYAEHFNAPFEEFLDEFGIEYEFISQTEMYRSGRYDEQIRTALENRDEIREILNEYR-GR-----ERPET 169 (360)
T ss_dssp TSB-TTSSSSCHHHHHHHHHHHHHHTTT---EEEECCCCCCTTTTHHHHCHHHHTHHHHHHHHHHHH-HH-----T--TT
T ss_pred cCCCCCCCCccHHHHHHHHHHHHHHHcCCceEEEeHHHhhhCCchHHHHHHHHHhHHHHHHHHHHhc-Cc-----CCCCC
Confidence 3468999999999999999998865544321 122 233344444443 21 12334
Q ss_pred eeccCCCcccccceeccCCCCCCccccCCCcCccCCCCCCCc--------cccCCcccCCCCccEEEEccceeEecCChh
Q psy2399 140 FFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPT--------KLINPYSILSGTKPIIKSSKHFFFKLSDKR 211 (232)
Q Consensus 140 ~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~--------~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~ 211 (232)
|| ++..+|++||++.+.. .-+.++|..||+..+..-...- -|| .|
T Consensus 170 y~------------------------Pf~piC~~cGri~tt~v~~~d~~~~~v~Y~c~~cG~~g~~~i~~g~-gKL--~W 222 (360)
T PF01921_consen 170 YS------------------------PFLPICEKCGRIDTTEVTEYDPEGGTVTYRCEECGHEGEVDITGGN-GKL--QW 222 (360)
T ss_dssp --------------------------SEEEEETTTEE--EEEEEEE--SSSEEEEE--TTS---EEETTTT--EEE---H
T ss_pred ee------------------------eeeeeccccCCcccceeeEeecCCCEEEEEecCCCCEEEEecCCCc-ccc--cC
Confidence 44 5667899999976532 3367899889999997666543 799 99
Q ss_pred hHHHHHhhh
Q psy2399 212 CIDFLRKWA 220 (232)
Q Consensus 212 ~~~~l~~~~ 220 (232)
-.||...|.
T Consensus 223 kvDW~mRW~ 231 (360)
T PF01921_consen 223 KVDWPMRWA 231 (360)
T ss_dssp HHHHHHHHH
T ss_pred CCcChhhhh
Confidence 999999994
No 70
>COG1384 LysS Lysyl-tRNA synthetase (class I) [Translation, ribosomal structure and biogenesis]
Probab=99.47 E-value=4.9e-14 Score=129.99 Aligned_cols=169 Identities=20% Similarity=0.217 Sum_probs=118.8
Q ss_pred CcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhh--------HHHHHHHH-HcCCC--
Q psy2399 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHG--------AAIMIAAE-KAGMT-- 80 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G--------~~i~~~a~-~~g~~-- 80 (232)
..++|-++. +|+|.+|||++|..+.+|+++|-++.+| .+|.+++-+||++ +|-....+ -+|++
T Consensus 19 ~~~~v~tGi-sPSG~~HIGn~rEv~t~d~V~ralr~~g-----~~~r~I~~~DD~D~lRkvp~~lp~~~~~e~Ylg~Plt 92 (521)
T COG1384 19 DEYVVATGI-SPSGLIHIGNFREVLTADAVRRALRDRG-----DEVRLIYISDDYDPLRKVPRNLPDPEELEQYLGMPLT 92 (521)
T ss_pred CcEEEecCc-CCCCCcccccHHHHHHHHHHHHHHHHcC-----CceEEEEEccCCcccccCCCCCCChHHHHHHcCCccc
Confidence 456666665 9999999999999999999999999999 9999999999985 22212222 24542
Q ss_pred --------HHHHHHHHHHHHHHHHhccCCcCCccccCCCh---hHHH----------HHHHHHHHHHhhcCCEEecccce
Q psy2399 81 --------PKEFINNISSNRKKYLDGFYIKFDNWYSTDSI---ENID----------LVQKIYDTLYNKAKLIINKKINQ 139 (232)
Q Consensus 81 --------~~e~~~~~~~~~~~~l~~lgI~~d~~~~t~~~---~~~~----------~v~~~~~~L~~~kG~iy~~~~~~ 139 (232)
...+++++.+.|.+.|+.|||+++....|... .+.+ .+.+++.+.. .+ .....
T Consensus 93 ~IPdP~G~~~Sya~hf~~~f~~~l~~~Gi~~E~~s~se~Yk~G~~~~~i~~ale~rdeI~~il~~~~-~~-----~~~e~ 166 (521)
T COG1384 93 EIPDPFGCCDSYAEHFLRPFEEFLDEFGIEVEFVSATELYKSGLYDEAIRIALERRDEIMEILNEYR-GR-----ELEED 166 (521)
T ss_pred cCCCCccccchHHHHHHHHHHHHHHhcCCceEEEEhHHhhhcccHHHHHHHHHhhHHHHHHHHHHhc-CC-----cccCC
Confidence 45789999999999999999988765433211 1222 2222222222 11 22445
Q ss_pred eeccCCCcccccceeccCCCCCCccccCCCcCccCCCCCCCc-------cccCCcccCCCCccEEEEccceeEecCChhh
Q psy2399 140 FFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPT-------KLINPYSILSGTKPIIKSSKHFFFKLSDKRC 212 (232)
Q Consensus 140 ~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~-------~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~ 212 (232)
|| ++..+|++||++.+.. .-+.++|. ||+..++--+ ..=-|| +|-
T Consensus 167 ~~------------------------P~~piC~kcGri~~t~v~~~d~~~~v~Y~Ce-~Gh~g~v~ir-~g~~KL--~WR 218 (521)
T COG1384 167 WS------------------------PFMPICEKCGRILTTPVIEWDGEGTVEYRCE-CGHEGEVDIR-GGEGKL--PWR 218 (521)
T ss_pred ce------------------------eccccccccCCcceeEEEEecCCceEEEEec-CCccceeecc-ccCccc--ccC
Confidence 55 6888999999977644 24678897 7998875332 444599 899
Q ss_pred HHHHHhhh
Q psy2399 213 IDFLRKWA 220 (232)
Q Consensus 213 ~~~l~~~~ 220 (232)
.||-..|.
T Consensus 219 vdWp~RW~ 226 (521)
T COG1384 219 VDWPMRWA 226 (521)
T ss_pred cCccchhh
Confidence 99999993
No 71
>PLN02286 arginine-tRNA ligase
Probab=99.46 E-value=3.6e-13 Score=128.82 Aligned_cols=125 Identities=14% Similarity=0.144 Sum_probs=99.5
Q ss_pred CCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHc----CC------
Q psy2399 10 DVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKA----GM------ 79 (232)
Q Consensus 10 ~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~----g~------ 79 (232)
.+++++|-...|+|+|++||||+|+.+++|+|+|.++..| ++|.-...++|.|.++...+... +-
T Consensus 115 ~~~~v~VEfsSpNp~kplHvGHlRsaiiGdsLaril~~~G-----~~V~r~nyinD~G~Qi~~l~~~~~~~~~~~~~~~~ 189 (576)
T PLN02286 115 PVKRAVVDFSSPNIAKEMHVGHLRSTIIGDTLARMLEFSG-----VEVLRRNHVGDWGTQFGMLIEHLFEKFPNWESVSD 189 (576)
T ss_pred CCceEEEEecCCCCCCCCccccccchhhHHHHHHHHHHcC-----CceEEEEeecchHHHHHHHHHHHHHhcCcccccCc
Confidence 3478999999999999999999999999999999999999 99999999999998766555221 10
Q ss_pred -------------------CH------------------------HHHHHHHHHHHHHHHhccCCcCCccccCCChhHHH
Q psy2399 80 -------------------TP------------------------KEFINNISSNRKKYLDGFYIKFDNWYSTDSIENID 116 (232)
Q Consensus 80 -------------------~~------------------------~e~~~~~~~~~~~~l~~lgI~~d~~~~t~~~~~~~ 116 (232)
++ +.+++.....|++++++|||.+|.+ ..+ .|..
T Consensus 190 ~~i~~l~~~Y~~~~~~~~~~~~~~~~~~~~~~~le~gd~~~~~lw~~~~~~~~~~~~~~y~~l~V~fd~~--ges-~y~~ 266 (576)
T PLN02286 190 QAIGDLQEFYKAAKKRFDEDEEFKARAQQAVVRLQGGDPEYRAAWAKICEISRREFEKVYQRLRVELEEK--GES-FYNP 266 (576)
T ss_pred ccHHHHHHHHHHhhhhccCCHHHHHHHHHHHHHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHhCCeeeec--Cch-hhhh
Confidence 00 0122333467889999999999873 322 5777
Q ss_pred HHHHHHHHHHhhcCCEEecccceeecc
Q psy2399 117 LVQKIYDTLYNKAKLIINKKINQFFDP 143 (232)
Q Consensus 117 ~v~~~~~~L~~~kG~iy~~~~~~~~~~ 143 (232)
.+..+++.|. ++|++|+.++..|.+.
T Consensus 267 ~~~~vi~~L~-~~g~~~e~dGa~~v~l 292 (576)
T PLN02286 267 YIPGVIEELE-SKGLVVESDGARVIFV 292 (576)
T ss_pred hHHHHHHHHH-HCCCEEeeCCceEeec
Confidence 7899999999 9999999988888643
No 72
>cd09287 GluRS_non_core catalytic core domain of non-discriminating glutamyl-tRNA synthetase. Non-discriminating Glutamyl-tRNA synthetase (GluRS) cataytic core domain. These enzymes attach Glu to the appropriate tRNA. Like other class I tRNA synthetases, they aminoacylate the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. These enzymes function as monomers. Archaea and most bacteria lack GlnRS. In these organisms, the "non-discriminating" form of GluRS aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu, which is converted to Gln when appropriate by a transamidation enzyme.
Probab=99.34 E-value=2.7e-12 Score=109.80 Aligned_cols=96 Identities=19% Similarity=0.137 Sum_probs=78.5
Q ss_pred EEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q psy2399 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKK 94 (232)
Q Consensus 15 ~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~ 94 (232)
+++-.+|+|||.|||||+++++..++++| + +++.++.-+||.+.+.. .......+.|.+
T Consensus 2 v~~RfaPsPtG~lHiG~~rtal~~~l~Ar-----~-----~~G~~ilRieDtD~~r~-----------~~~~~~~~~i~~ 60 (240)
T cd09287 2 VVMRFAPNPNGPLHLGHARAAILNGEYAK-----M-----YGGKFILRFDDTDPRTK-----------RPDPEAYDMIPE 60 (240)
T ss_pred ceEeCCCCCCCCccHHHHHHHHHHHHHHH-----H-----cCCEEEEeeCcCCCCcc-----------cchHHHHHHHHH
Confidence 46778899999999999999999999999 4 56677777777654421 134455556899
Q ss_pred HHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 95 YLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 95 ~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
+|++||+.||..++.| ++.+..++++.+|. ++|++|.
T Consensus 61 dL~wLGl~~d~~~~qS--~r~~~y~~~~~~Li-~~G~aY~ 97 (240)
T cd09287 61 DLEWLGVKWDEVVIAS--DRIELYYEYARKLI-EMGGAYV 97 (240)
T ss_pred HHHHcCCCCCCccchh--ccHHHHHHHHHHHH-HcCCccc
Confidence 9999999999776766 68889999999999 9999996
No 73
>PRK04156 gltX glutamyl-tRNA synthetase; Provisional
Probab=99.25 E-value=2.3e-11 Score=115.27 Aligned_cols=97 Identities=16% Similarity=0.121 Sum_probs=79.6
Q ss_pred EEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy2399 14 IFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRK 93 (232)
Q Consensus 14 ~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~ 93 (232)
-+++-.+|+|||+||||||+++++.+.+|| . +...++.-+||.+.++ ......+.+.|+
T Consensus 101 ~V~tRFaPsPtG~LHIGharaalln~~~Ar-----~-----~~G~~iLRidDTDpk~-----------~R~~~e~~~~I~ 159 (567)
T PRK04156 101 KVVMRFAPNPSGPLHLGHARAAILNDEYAK-----M-----YGGKFILRFEDTDPRT-----------KRPDPEAYDMIL 159 (567)
T ss_pred eEEEEeCCCCCCCccHHHHHHHHHHHHHHH-----H-----cCCEEEEeEccCCCCc-----------ccchHHHHHHHH
Confidence 477888999999999999999999999999 2 4556666667654322 223445558899
Q ss_pred HHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 94 KYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 94 ~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
++|++||+.||..+.+| .+.+...++..+|. ++|++|.
T Consensus 160 edL~wLGl~wD~~~~qS--dr~~~y~~~a~~Li-~~G~AY~ 197 (567)
T PRK04156 160 EDLKWLGVKWDEVVIQS--DRLEIYYEYARKLI-EMGGAYV 197 (567)
T ss_pred HHHHHcCCCCCCccCcc--cCHHHHHHHHHHHH-HcCCCcc
Confidence 99999999999887777 58899999999999 9999986
No 74
>TIGR00463 gltX_arch glutamyl-tRNA synthetase, archaeal and eukaryotic family. The glutamyl-tRNA synthetases of the eukaryotic cytosol and of the Archaea are more similar to glutaminyl-tRNA synthetases than to bacterial glutamyl-tRNA synthetases. This alignment models just the eukaryotic cytosolic and archaeal forms of the enzyme. In some eukaryotes, the glutamyl-tRNA synthetase is part of a longer, multifunctional aminoacyl-tRNA ligase. In many species, the charging of tRNA(gln) proceeds first through misacylation with Glu and then transamidation. For this reason, glutamyl-tRNA synthetases may act on both tRNA(gln) and tRNA(glu).
Probab=99.21 E-value=3.2e-11 Score=114.22 Aligned_cols=96 Identities=19% Similarity=0.131 Sum_probs=79.7
Q ss_pred cEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHH
Q psy2399 13 RIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNR 92 (232)
Q Consensus 13 ~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~ 92 (232)
.-+++-.+|.|||.||||||+++++.+.+||- +...++.-+||.. |..-...+.+.|
T Consensus 92 ~~vvtRFaPsPtG~LHiGharaalln~~~Ar~----------~~G~~iLRidDTD-------------p~R~~~e~~~~I 148 (560)
T TIGR00463 92 GEVVMRFAPNPSGPLHIGHARAAILNQYFAKK----------YKGKLIIRFDDTD-------------PRRVKPEAYDMI 148 (560)
T ss_pred CeeEEEeCCCCCCCccHHHHHHHHHHHHHHHh----------cCCEEEEEeCcCC-------------cccccHHHHHHH
Confidence 34889999999999999999999999999972 3445555556543 334455688899
Q ss_pred HHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 93 KKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 93 ~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
.++|++|||.||..+++| .|.+...+++.+|. ++|++|.
T Consensus 149 ~edL~wLGi~~d~~~~qS--d~~~~y~~~a~~Li-~~G~AY~ 187 (560)
T TIGR00463 149 LEDLDWLGVKGDEVVYQS--DRIEEYYDYCRKLI-EMGKAYV 187 (560)
T ss_pred HHHHHHcCCCCCcccccc--ccHHHHHHHHHHHH-HcCCcee
Confidence 999999999999888887 58899999999999 9999996
No 75
>cd00807 GlnRS_core catalytic core domain of glutaminyl-tRNA synthetase. Glutaminyl-tRNA synthetase (GlnRS) cataytic core domain. These enzymes attach Gln to the appropriate tRNA. Like other class I tRNA synthetases, they aminoacylate the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. GlnRS contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. These enzymes function as monomers. Archaea and most bacteria lack GlnRS. In these organisms, the "non-discriminating" form of GluRS aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu, which is converted to Gln when appropriate by a transamidation enzyme.
Probab=99.14 E-value=1.4e-10 Score=99.13 Aligned_cols=94 Identities=20% Similarity=0.116 Sum_probs=76.7
Q ss_pred EEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q psy2399 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKK 94 (232)
Q Consensus 15 ~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~ 94 (232)
+++-.+|.|||+|||||+++++++..+||- ..| . ++.-+|| .++......+.+.|.+
T Consensus 2 v~~RFAPsPtG~lHlG~~~~al~~~l~Ar~--~~G-----~---~iLRieD-------------tD~~R~~~~~~~~I~~ 58 (238)
T cd00807 2 VVTRFPPEPNGYLHIGHAKAILLNFGYAKK--YGG-----R---CNLRFDD-------------TNPEKEEEEYVDSIKE 58 (238)
T ss_pred ceEecCCCCCCcccHHHHHHHHHHHHHHHH--hCC-----E---EEEEecC-------------CCCcccchHHHHHHHH
Confidence 567789999999999999999999999984 345 3 3333343 3455667788899999
Q ss_pred HHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 95 YLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 95 ~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
+|++||++||..+..| ++.+..++.+.+|. ++|++|.
T Consensus 59 dL~wlGl~wD~~~~QS--~r~~~Y~~~~~~L~-~~g~aY~ 95 (238)
T cd00807 59 DVKWLGIKPYKVTYAS--DYFDQLYEYAEQLI-KKGKAYV 95 (238)
T ss_pred HHHHcCCCCCCceecc--cCHHHHHHHHHHHH-HcCCeec
Confidence 9999999999665555 57888999999999 9999998
No 76
>PRK12558 glutamyl-tRNA synthetase; Provisional
Probab=99.13 E-value=1.6e-10 Score=106.99 Aligned_cols=94 Identities=17% Similarity=0.177 Sum_probs=76.0
Q ss_pred EEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q psy2399 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKK 94 (232)
Q Consensus 15 ~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~ 94 (232)
+++--+|.|||.|||||+|+++....+||- ..| .|+.-+||.+ ++...+.+.+.|++
T Consensus 3 vr~RFAPSPTG~lHiG~artAL~n~l~Ar~--~gG--------~fiLRIEDTD-------------~~Rs~~~~~~~I~e 59 (445)
T PRK12558 3 VITRFAPSPTGYLHVGNARTALLNWLYARK--HGG--------KFILRIDDTD-------------LERSKQEYADAIAE 59 (445)
T ss_pred eeEEeCCCCCCcccHHHHHHHHHHHHHHHH--hCC--------EEEEEeccCC-------------cccchHHHHHHHHH
Confidence 567778999999999999999999999874 334 4444445433 44556888999999
Q ss_pred HHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 95 YLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 95 ~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
+|++|||+||.+++.++ ..+.+++++++|. ++|++|.
T Consensus 60 ~L~wLGI~~De~y~QSe--r~~~y~~~~e~L~-e~G~AY~ 96 (445)
T PRK12558 60 DLKWLGINWDRTFRQSD--RFDRYDEAAEKLK-AAGRLYP 96 (445)
T ss_pred HHHHcCCCCCccccHHH--HHHHHHHHHHHHH-HCCCEEE
Confidence 99999999999887774 4468899999999 9999985
No 77
>PLN03233 putative glutamate-tRNA ligase; Provisional
Probab=99.11 E-value=1.7e-10 Score=108.35 Aligned_cols=95 Identities=23% Similarity=0.206 Sum_probs=78.8
Q ss_pred EEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy2399 14 IFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRK 93 (232)
Q Consensus 14 ~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~ 93 (232)
-+++--+|.|||.||||||+++++...+||- ..| . ++.=+|| .+|+.-...+.+.|.
T Consensus 11 ~v~tRFAPsPtG~LHiGharaAlln~l~Ar~--~gG-----~---~iLRiED-------------TDp~R~~~e~~~~I~ 67 (523)
T PLN03233 11 QIVTRFPPEPSGYLHIGHAKAALLNDYYARR--YKG-----R---LILRFDD-------------TNPSKEKAEFEESII 67 (523)
T ss_pred eEEEeeCCCCCCcccHHHHHHHHHHHHHHHH--hCC-----E---EEEEECC-------------CCCCccchHHHHHHH
Confidence 4889999999999999999999999999984 345 3 3333344 345666778889999
Q ss_pred HHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 94 KYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 94 ~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
++|++||++||..+.+| .+.+...+...+|. ++|++|.
T Consensus 68 ~dL~WLGl~wD~~~~qS--dr~~~y~~~a~~Li-~~G~AY~ 105 (523)
T PLN03233 68 EDLGKIEIKPDSVSFTS--DYFEPIRCYAIILI-EEGLAYM 105 (523)
T ss_pred HHHHHhCCCCCCCcccc--ccHHHHHHHHHHHH-HcCCeEe
Confidence 99999999999877777 57888999999999 9999996
No 78
>COG0008 GlnS Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=99.09 E-value=2.3e-10 Score=106.68 Aligned_cols=94 Identities=18% Similarity=0.214 Sum_probs=77.7
Q ss_pred EEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q psy2399 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKK 94 (232)
Q Consensus 15 ~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~ 94 (232)
|++--+|.|||.|||||||+.+....+||. ..| .-++-+ || .+|+.-...+.+.|.+
T Consensus 10 v~tRFAPsPtG~LHiG~artAl~N~~~Ar~--~~G-----~fiLRi---ED-------------TD~~R~~~e~~~~I~~ 66 (472)
T COG0008 10 VRTRFAPSPTGYLHIGHARTALLNYLYARK--YGG-----KFILRI---ED-------------TDPERETPEAEDAILE 66 (472)
T ss_pred eEEEECcCCCCccchHHHHHHHHHHHHHHH--hCC-----EEEEEe---cC-------------CCCCCCCHHHHHHHHH
Confidence 889999999999999999999999999984 344 344444 33 3355566778889999
Q ss_pred HHhccCCcCCc-cccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 95 YLDGFYIKFDN-WYSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 95 ~l~~lgI~~d~-~~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
+|++||++||. .++.| ++.+...+...+|. ++|++|.
T Consensus 67 ~L~WLGl~wde~~~~QS--~r~~~Y~~~~~~Li-~~G~AY~ 104 (472)
T COG0008 67 DLEWLGLDWDEGPYYQS--ERFDIYYEYAEKLI-EKGKAYV 104 (472)
T ss_pred HHHhcCCCCCCceeehh--hhHHHHHHHHHHHH-HCCCeEE
Confidence 99999999999 56777 68888999999999 9999986
No 79
>PTZ00402 glutamyl-tRNA synthetase; Provisional
Probab=99.08 E-value=2.7e-10 Score=108.22 Aligned_cols=95 Identities=20% Similarity=0.189 Sum_probs=78.0
Q ss_pred EEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy2399 14 IFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRK 93 (232)
Q Consensus 14 ~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~ 93 (232)
-+++--+|.|||.||||||+++++...+||- ..| .++.=+|| .+|......+.+.|+
T Consensus 52 ~v~tRFAPsPtGyLHIGharaAllN~l~Ar~--~gG--------~~iLRiED-------------TDp~R~~~e~~d~Il 108 (601)
T PTZ00402 52 KVVTRFPPEASGFLHIGHAKAALINSMLADK--YKG--------KLVFRFDD-------------TNPSKEKEHFEQAIL 108 (601)
T ss_pred eeEEeeCCCCCCcccHHHHHHHHHHHHHHHH--hCC--------EEEEEEcC-------------CCCcccCHHHHHHHH
Confidence 4889999999999999999999999999984 344 33333344 346667778899999
Q ss_pred HHHhccCCcCCc-cccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 94 KYLDGFYIKFDN-WYSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 94 ~~l~~lgI~~d~-~~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
++|++||++||. .+.+| .+.+...++..+|. ++|++|.
T Consensus 109 eDL~WLGl~wDe~~~~QS--dr~d~y~e~a~~Li-~~G~AY~ 147 (601)
T PTZ00402 109 DDLATLGVSWDVGPTYSS--DYMDLMYEKAEELI-KKGLAYC 147 (601)
T ss_pred HHHHHCCCCCCCceeecc--ccHHHHHHHHHHHH-HcCCEEE
Confidence 999999999996 55666 57889999999999 9999993
No 80
>TIGR03838 queuosine_YadB glutamyl-queuosine tRNA(Asp) synthetase. This protein resembles a shortened glutamyl-tRNA ligase, but its purpose is to modify tRNA(Asp) at a queuosine position in the anticodon rather than to charge a tRNA with its cognate amino acid.
Probab=99.08 E-value=2.4e-10 Score=99.72 Aligned_cols=93 Identities=18% Similarity=0.229 Sum_probs=72.8
Q ss_pred EEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Q psy2399 16 VTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKKY 95 (232)
Q Consensus 16 v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~~ 95 (232)
++--.|.|||.|||||+++++++..+|| +..| .-++.+ ||. ++......+.+.|.++
T Consensus 2 ~~RFAPSPtG~lHiG~~rtAL~n~l~Ar--~~gG-----~~iLRi---EDt-------------D~~R~~~~~~~~I~~d 58 (272)
T TIGR03838 2 RGRFAPSPSGPLHFGSLVAALGSYLDAR--AHGG-----RWLVRI---EDL-------------DPPREVPGAADDILRT 58 (272)
T ss_pred eeeeCCCCCCcccHHHHHHHHHHHHHHH--HhCC-----EEEEEe---CcC-------------CCCCCChHHHHHHHHH
Confidence 4667899999999999999999999998 4455 333344 432 2344456778889999
Q ss_pred HhccCCcCCcc-ccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 96 LDGFYIKFDNW-YSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 96 l~~lgI~~d~~-~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
|++|||+||.- +..| ++.+...+.+.+|. ++|++|.
T Consensus 59 L~wLGl~wDe~~~~QS--~r~~~Y~~~~~~L~-~~G~aY~ 95 (272)
T TIGR03838 59 LEAYGLHWDGEVVYQS--QRHALYQAALDRLL-AAGLAYP 95 (272)
T ss_pred HHHcCCCCCCCeeeee--CCHHHHHHHHHHHH-HcCCEEe
Confidence 99999999964 3555 57788899999999 9999985
No 81
>PTZ00437 glutaminyl-tRNA synthetase; Provisional
Probab=99.05 E-value=6e-10 Score=105.20 Aligned_cols=94 Identities=17% Similarity=-0.027 Sum_probs=75.7
Q ss_pred EEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q psy2399 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKK 94 (232)
Q Consensus 15 ~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~ 94 (232)
++|--+|.|||.||||||+++++...+||. ..| .++.-+|| .+|......+.+.|.+
T Consensus 52 v~tRFaPsPtG~LHiGharaalln~~~Ar~--~gG--------~~iLRiED-------------TDp~r~~~e~~~~I~~ 108 (574)
T PTZ00437 52 PYFRFPPEPNGFLHIGHAKSMNLNFGSARA--HGG--------KCYLRYDD-------------TNPETEEQVYIDAIME 108 (574)
T ss_pred EEEEeCCCCCCcccHHHHHHHHHHHHHHHH--hCC--------EEEEEECC-------------CCccccChHHHHHHHH
Confidence 788889999999999999999999999984 334 33333444 3466667788999999
Q ss_pred HHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 95 YLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 95 ~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
+|++|||+||..+.++ .|.+...+...+|. ++|++|.
T Consensus 109 dL~wLGi~~D~~~~qS--~y~~~~ye~A~~Li-~~G~AY~ 145 (574)
T PTZ00437 109 MVKWMGWKPDWVTFSS--DYFDQLHEFAVQLI-KDGKAYV 145 (574)
T ss_pred HHHHcCCCCCCCCcCc--hhHHHHHHHHHHHH-HcCCEEE
Confidence 9999999999876665 46666668888999 9999986
No 82
>PRK05710 glutamyl-Q tRNA(Asp) synthetase; Reviewed
Probab=99.05 E-value=4.6e-10 Score=99.12 Aligned_cols=94 Identities=14% Similarity=0.196 Sum_probs=74.2
Q ss_pred EEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q psy2399 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKK 94 (232)
Q Consensus 15 ~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~ 94 (232)
+++--.|.|||.|||||+++++++..+||- ..| .|+.=+|| .++......+.+.|.+
T Consensus 6 v~~RFAPSPTG~LHlG~~rtAL~n~l~Ar~--~~G--------~~iLRiED-------------tD~~R~~~~~~~~I~~ 62 (299)
T PRK05710 6 YIGRFAPSPSGPLHFGSLVAALGSWLDARA--HGG--------RWLLRIED-------------IDPPREVPGAADAILA 62 (299)
T ss_pred eeEEeCcCCCCcccHHHHHHHHHHHHHHHH--cCC--------EEEEEECc-------------CCCCccchHHHHHHHH
Confidence 678889999999999999999999999984 234 33333343 2344556677889999
Q ss_pred HHhccCCcCCc-cccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 95 YLDGFYIKFDN-WYSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 95 ~l~~lgI~~d~-~~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
+|++|||+||. .+..| ++.+..+++..+|. ++|++|.
T Consensus 63 dL~wlGl~wDe~~~~QS--~r~~~Y~~~~~~L~-~~G~aY~ 100 (299)
T PRK05710 63 DLEWLGLHWDGPVLYQS--QRHDAYRAALDRLR-AQGLVYP 100 (299)
T ss_pred HHHHCCCCCCCCceEee--ccHHHHHHHHHHHH-HCCCcee
Confidence 99999999995 44555 57788899999999 9999985
No 83
>PF00749 tRNA-synt_1c: tRNA synthetases class I (E and Q), catalytic domain; InterPro: IPR020058 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Glutamyl-tRNA synthetase (6.1.1.17 from EC) is a class Ic synthetase and shows several similarities with glutaminyl-tRNA synthetase concerning structure and catalytic properties. It is an alpha2 dimer. To date one crystal structure of a glutamyl-tRNA synthetase (Thermus thermophilus) has been solved. The molecule has the form of a bent cylinder and consists of four domains. The N-terminal half (domains 1 and 2) contains the 'Rossman fold' typical for class I synthetases and resembles the corresponding part of Escherichia coli GlnRS, whereas the C-terminal half exhibits a GluRS-specific structure []. ; GO: 0000166 nucleotide binding, 0005524 ATP binding, 0016876 ligase activity, forming aminoacyl-tRNA and related compounds, 0043039 tRNA aminoacylation, 0005737 cytoplasm; PDB: 2HZ7_A 2CFO_A 4A91_A 1NZJ_A 1N78_A 1G59_C 2CV2_A 2CV1_A 2CV0_B 1GLN_A ....
Probab=99.03 E-value=5.1e-10 Score=99.80 Aligned_cols=94 Identities=17% Similarity=0.221 Sum_probs=67.5
Q ss_pred EEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q psy2399 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKK 94 (232)
Q Consensus 15 ~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~ 94 (232)
|++--+|.|||.|||||+++++++..+|| +..| .-++.+ || .++......+.+.|.+
T Consensus 2 v~tRFAPsPtG~lHiG~~r~al~n~~~Ar--~~~G-----~~iLRi---eD-------------tD~~R~~~~~~~~i~~ 58 (314)
T PF00749_consen 2 VRTRFAPSPTGYLHIGHARTALLNYLFAR--KYGG-----KFILRI---ED-------------TDPERCRPEFYDAILE 58 (314)
T ss_dssp -EEEE---SSSS-BHHHHHHHHHHHHHHH--HTTS-----EEEEEE---ET-------------SSTTTCHHHHHHHHHH
T ss_pred eeEeeCCCCCCCcccchhHHHHHHHHHHh--ccCc-----eEEEec---cc-------------cccccchhhHHHHHHh
Confidence 56777899999999999999999999998 4445 344444 33 2344456677888999
Q ss_pred HHhccCCcCC-ccccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 95 YLDGFYIKFD-NWYSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 95 ~l~~lgI~~d-~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
+|++|||.|| ..+..| .+.+..++++++|. ++|++|.
T Consensus 59 ~L~wlGl~~D~~~~~QS--~r~~~Y~~~~~~L~-~~g~aY~ 96 (314)
T PF00749_consen 59 DLRWLGLEWDYGPYYQS--DRLEIYQEAAEKLI-DKGKAYP 96 (314)
T ss_dssp HHHHHT---STCEEEGG--GGHHHHHHHHHHHH-HTTSEEE
T ss_pred heeEEEEecCCeEEeHH--HHHHHHHHHHHHHh-hcCCCcc
Confidence 9999999998 455555 68889999999999 9999986
No 84
>PLN02907 glutamate-tRNA ligase
Probab=99.03 E-value=5.3e-10 Score=109.23 Aligned_cols=96 Identities=21% Similarity=0.225 Sum_probs=79.3
Q ss_pred cEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHH
Q psy2399 13 RIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNR 92 (232)
Q Consensus 13 ~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~ 92 (232)
.-++|--+|.|||.||||||+++++...+|| +..| .++.-+|| .+|..-...+.+.|
T Consensus 212 ~~v~tRFaPsPtG~LHiG~ar~al~n~~~Ar--~~~G--------~~iLR~eD-------------Tdp~r~~~e~~~~I 268 (722)
T PLN02907 212 GKVCTRFPPEPSGYLHIGHAKAALLNQYFAR--RYKG--------KLIVRFDD-------------TNPSKESDEFVENI 268 (722)
T ss_pred CceEEeeCCCCCCcccHHHHHHHHHHHHHHH--HhCC--------EEEEEecC-------------CCCCcCChHHHHHH
Confidence 3488999999999999999999999999998 3445 33333444 33556667888999
Q ss_pred HHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 93 KKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 93 ~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
.++|++||++||..+.+| .+.+...+...+|. ++|++|.
T Consensus 269 ~~dl~wLG~~~d~~~~qS--~r~~~y~~~a~~Li-~~G~aY~ 307 (722)
T PLN02907 269 LKDIETLGIKYDAVTYTS--DYFPQLMEMAEKLI-KEGKAYV 307 (722)
T ss_pred HHHHHHcCCCCCCccccc--ccHHHHHHHHHHHH-HcCCeee
Confidence 999999999999887777 57888999999999 9999996
No 85
>TIGR00440 glnS glutaminyl-tRNA synthetase. This protein is a relatively rare aminoacyl-tRNA synthetase, found in the cytosolic compartment of eukaryotes, in E. coli and a number of other Gram-negative Bacteria, and in Deinococcus radiodurans. In contrast, the pathway to Gln-tRNA in mitochondria, Archaea, Gram-positive Bacteria, and a number of other lineages is by misacylation with Glu followed by transamidation to correct the aminoacylation to Gln. This enzyme is a class I tRNA synthetase (hit by the pfam model tRNA-synt_1c) and is quite closely related to glutamyl-tRNA synthetases.
Probab=98.97 E-value=1.3e-09 Score=102.46 Aligned_cols=94 Identities=18% Similarity=0.130 Sum_probs=73.2
Q ss_pred EEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q psy2399 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKK 94 (232)
Q Consensus 15 ~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~ 94 (232)
+++--+|.|||.||||||+++++...+|| +..| .++.-+|| .+|..-...+.+.|.+
T Consensus 1 V~tRFaPsPtG~LHiG~ar~al~n~~~A~--~~~G--------~~iLRieD-------------Td~~r~~~e~~~~I~~ 57 (522)
T TIGR00440 1 VHTRFPPEPNGYLHIGHAKSICLNFGYAK--YYNG--------TCNLRFDD-------------TNPVKEDPEYVESIKR 57 (522)
T ss_pred CeEecCCCCCCcccHHHHHHHHHHHHHHH--HhCC--------EEEEEEcC-------------CCcccCChHHHHHHHH
Confidence 46778999999999999999999999998 3344 33333444 3355667788899999
Q ss_pred HHhccCCcCCc-cccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 95 YLDGFYIKFDN-WYSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 95 ~l~~lgI~~d~-~~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
+|++||+.||. .+.+| .+.+...+...+|. ++|++|.
T Consensus 58 dL~wLG~~~d~~~~~qS--~~~~~~~~~a~~Li-~~G~AY~ 95 (522)
T TIGR00440 58 DVEWLGFKWEGKIRYSS--DYFDELYRYAEELI-KKGLAYV 95 (522)
T ss_pred HHHHcCCCCCCCceEcc--ccHHHHHHHHHHHH-HcCCEEe
Confidence 99999999964 44555 46676777889999 9999996
No 86
>cd00418 GlxRS_core catalytic core domain of glutamyl-tRNA and glutaminyl-tRNA synthetase. Glutamyl-tRNA synthetase(GluRS)/Glutaminyl-tRNA synthetase (GlnRS) cataytic core domain. These enzymes attach Glu or Gln, respectively, to the appropriate tRNA. Like other class I tRNA synthetases, they aminoacylate the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. These enzymes function as monomers. Archaea, cellular organelles, and some bacteria lack GlnRS. In these cases, the "non-discriminating" form of GluRS aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu, which is converted to Gln when appropriate by a transamidation enzyme. The discriminating form of GluRS differs from GlnRS and the non-discriminating form of GluRS in their C-terminal anti-codon bind
Probab=98.97 E-value=1.2e-09 Score=93.10 Aligned_cols=90 Identities=22% Similarity=0.246 Sum_probs=70.9
Q ss_pred EEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q psy2399 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKK 94 (232)
Q Consensus 15 ~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~ 94 (232)
+++-.+|.|||+|||||++++++...+||- ..| .++.-+||. ++......+.+.|.+
T Consensus 2 v~~RFAPsPtG~lHlG~~r~al~n~l~Ar~--~~G--------~~iLRieDt-------------D~~R~~~~~~~~I~~ 58 (230)
T cd00418 2 VVTRFAPSPTGYLHIGHARTALFNFAFARK--YGG--------KFILRIEDT-------------DPERSRPEYVESILE 58 (230)
T ss_pred ceEEeCCCCCCcccHHHHHHHHHHHHHHHH--cCC--------eEEEEeCcC-------------CCCCCChHHHHHHHH
Confidence 467778999999999999999999999984 344 333334442 344556678889999
Q ss_pred HHhccCCcCCc-cccCCChhHHHHHHHHHHHHHhhcC
Q psy2399 95 YLDGFYIKFDN-WYSTDSIENIDLVQKIYDTLYNKAK 130 (232)
Q Consensus 95 ~l~~lgI~~d~-~~~t~~~~~~~~v~~~~~~L~~~kG 130 (232)
+|++||+.||. .+..| .+.+..++.+.+|. ++|
T Consensus 59 dL~wlGl~wd~~~~~QS--~r~~~y~~~~~~L~-~~g 92 (230)
T cd00418 59 DLKWLGLDWDEGPYRQS--DRFDLYRAYAEELI-KKG 92 (230)
T ss_pred HHHHcCCCCCCCeeehh--cCHHHHHHHHHHHH-HcC
Confidence 99999999997 55555 57788889999999 988
No 87
>PRK05347 glutaminyl-tRNA synthetase; Provisional
Probab=98.96 E-value=1.5e-09 Score=102.39 Aligned_cols=95 Identities=16% Similarity=0.023 Sum_probs=74.0
Q ss_pred EEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy2399 14 IFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRK 93 (232)
Q Consensus 14 ~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~ 93 (232)
-+++--+|.|||.||||||+++++...+||- ..| .++.-+|| .+|......+.+.|.
T Consensus 29 ~v~tRFaPsPtG~LHiG~ar~al~n~~~Ar~--~~G--------~~iLRieD-------------Td~~r~~~e~~~~I~ 85 (554)
T PRK05347 29 RVHTRFPPEPNGYLHIGHAKSICLNFGLAQD--YGG--------KCNLRFDD-------------TNPEKEDQEYVDSIK 85 (554)
T ss_pred ceEEEeCCCCCCcccHHHHHHHHHHHHHHHH--hCC--------EEEEEECC-------------CCCCcCChHHHHHHH
Confidence 4788899999999999999999999999984 344 33333344 345566778889999
Q ss_pred HHHhccCCcCC-ccccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 94 KYLDGFYIKFD-NWYSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 94 ~~l~~lgI~~d-~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
++|++||+.|| ..+.+| .+.+...+...+|. ++|++|.
T Consensus 86 ~dL~wLGi~~d~~~~~qS--~r~~~~y~~a~~Li-~~G~AY~ 124 (554)
T PRK05347 86 EDVRWLGFDWSGELRYAS--DYFDQLYEYAVELI-KKGKAYV 124 (554)
T ss_pred HHHHHcCCCCCCCceeee--cCHHHHHHHHHHHH-HcCCEee
Confidence 99999999995 445555 45666667778999 9999996
No 88
>TIGR00464 gltX_bact glutamyl-tRNA synthetase, bacterial family. The glutamyl-tRNA synthetases of the eukaryotic cytosol and of the Archaea are more similar to glutaminyl-tRNA synthetases than to bacterial glutamyl-tRNA synthetases. This alignment models just the bacterial and mitochondrial forms of the enzyme. In many species, the charging of tRNA(gln) proceeds first through misacylation with Glu and then transamidation. For this reason, glutamyl-tRNA synthetases may act on both tRNA(gln) and tRNA(glu). This model is highly specific. Proteins with positive scores below the trusted cutoff may be fragments rather than full-length sequences.
Probab=98.94 E-value=1.9e-09 Score=100.99 Aligned_cols=94 Identities=19% Similarity=0.210 Sum_probs=73.0
Q ss_pred EEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q psy2399 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKK 94 (232)
Q Consensus 15 ~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~ 94 (232)
+++--+|.|||.|||||+|+++....+|| ...| . |+.-+||. ++......+.+.|.+
T Consensus 2 v~~RfAPsPtG~lHiG~~rtal~n~l~Ar--~~~G-----~---~iLRieDt-------------D~~R~~~~~~~~i~~ 58 (470)
T TIGR00464 2 VRTRFAPSPTGYLHIGGARTALFNYLFAK--HTGG-----E---FILRIEDT-------------DLERNIEEAEEAILE 58 (470)
T ss_pred ceEeeCCCCCCcccHHHHHHHHHHHHHHH--HcCC-----E---EEEEeCcC-------------CCccCChHHHHHHHH
Confidence 46777899999999999999999999998 3344 3 33334442 344556678888999
Q ss_pred HHhccCCcCC-ccccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 95 YLDGFYIKFD-NWYSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 95 ~l~~lgI~~d-~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
+|++|||+|| -.++.| ++.+...++..+|. ++|++|.
T Consensus 59 ~L~wlGl~~de~~~~QS--~r~~~y~~~~~~L~-~~g~aY~ 96 (470)
T TIGR00464 59 GLKWLGISWDEGPYYQS--QRLDIYKKYAKELL-EEGLAYR 96 (470)
T ss_pred HHHHCCCCCCCCeeehh--CCHHHHHHHHHHHH-HcCCEEe
Confidence 9999999999 445555 46677788999999 9999985
No 89
>PRK12410 glutamylglutaminyl-tRNA synthetase; Provisional
Probab=98.93 E-value=2.8e-09 Score=98.49 Aligned_cols=91 Identities=19% Similarity=0.256 Sum_probs=72.1
Q ss_pred cCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHHh
Q psy2399 18 TALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKKYLD 97 (232)
Q Consensus 18 ~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~~l~ 97 (232)
--.|.|||.|||||+|+++....+||- ..| .-++.+ ||. ++......+.+.|.++|+
T Consensus 3 RFAPSPTG~LHiG~artAL~n~l~Ar~--~gG-----~fiLRi---EDT-------------D~~R~~~e~~~~I~~~L~ 59 (433)
T PRK12410 3 RFAPSPTGDMHIGNLRAAIFNYIVAKQ--QNE-----DFLIRI---EDT-------------DKERNIEGKDKEILEILN 59 (433)
T ss_pred ccCCCCCCcccHHHHHHHHHHHHHHHH--cCC-----EEEEEe---CcC-------------CCCcCChHHHHHHHHHHH
Confidence 347899999999999999999999983 444 333333 442 244556677888999999
Q ss_pred ccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 98 GFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 98 ~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
+|||+||..+..| ++.+...++.++|. ++|.+|.
T Consensus 60 WlGl~wDe~y~QS--eR~~~Y~~~a~~Li-~~G~AY~ 93 (433)
T PRK12410 60 LFGISWDKLVYQS--ENLKFHRQMAEKLL-SEKKAFA 93 (433)
T ss_pred HcCCCCCCCeehh--ccHHHHHHHHHHHH-HcCCeee
Confidence 9999999877777 56778889999999 9999984
No 90
>PRK14895 gltX glutamyl-tRNA synthetase; Provisional
Probab=98.92 E-value=4.6e-09 Score=98.64 Aligned_cols=94 Identities=13% Similarity=0.094 Sum_probs=74.2
Q ss_pred EEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q psy2399 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKK 94 (232)
Q Consensus 15 ~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~ 94 (232)
+++--.|.|||.|||||+|+++....+|| +..| .-++.+ ||. ++......+.+.+.+
T Consensus 5 vrtRFAPSPTG~lHiG~artAL~n~l~Ar--~~gG-----~fiLRI---EDT-------------D~~R~~~~~~~~i~~ 61 (513)
T PRK14895 5 VITRFAPSPTGFLHIGSARTALFNYLFAR--HHNG-----KFLLRI---EDT-------------DKERSTKEAVEAIFS 61 (513)
T ss_pred eeEeeCCCCCCCccHHHHHHHHHHHHHHH--HcCC-----EEEEEE---CCC-------------CccccChHHHHHHHH
Confidence 56777899999999999999999999998 4455 344444 332 345566788888999
Q ss_pred HHhccCCcCCc-cccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 95 YLDGFYIKFDN-WYSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 95 ~l~~lgI~~d~-~~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
+|++||++||. .++.| +..+...+...+|. ++|++|.
T Consensus 62 ~L~WLGl~wDe~py~QS--eR~~~Y~~~a~~Li-~~G~AY~ 99 (513)
T PRK14895 62 GLKWLGLDWNGEVIFQS--KRNNLYKEAALKLL-QNGKAYY 99 (513)
T ss_pred HHHHcCCCCCCCceeEe--CcHHHHHHHHHHHH-HcCCeEE
Confidence 99999999993 45555 45678889999999 9999985
No 91
>PRK14703 glutaminyl-tRNA synthetase/YqeY domain fusion protein; Provisional
Probab=98.91 E-value=2.2e-09 Score=105.11 Aligned_cols=95 Identities=19% Similarity=0.115 Sum_probs=76.9
Q ss_pred EEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy2399 14 IFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRK 93 (232)
Q Consensus 14 ~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~ 93 (232)
-++|-.+|.|||.|||||++++++...+||- ..| .++.-+|| .+|..-...+.+.|.
T Consensus 31 ~v~tRFaPsPtG~lHiGhar~alln~~~A~~--~~G--------~~~LR~eD-------------Td~~r~~~e~~~~I~ 87 (771)
T PRK14703 31 RVVTRFPPEPNGYLHIGHAKSILLNFGIARD--YGG--------RCHLRMDD-------------TNPETEDTEYVEAIK 87 (771)
T ss_pred ceEEEeCcCCCCcccHHHHHHHHHHHHHHHH--hCC--------EEEEEeCC-------------CCCCcCChHHHHHHH
Confidence 3889999999999999999999999999983 334 34444444 345566778889999
Q ss_pred HHHhccCCcCCc-cccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 94 KYLDGFYIKFDN-WYSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 94 ~~l~~lgI~~d~-~~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
++|++||++||. .+.+| .+.+...+...+|. ++|++|.
T Consensus 88 ~dl~wLG~~wd~~~~~qS--~~~~~y~~~a~~Li-~~G~aY~ 126 (771)
T PRK14703 88 DDVRWLGFDWGEHLYYAS--DYFERMYAYAEQLI-KMGLAYV 126 (771)
T ss_pred HHHHHcCCCCCCCceEee--cCHHHHHHHHHHHH-HcCCccc
Confidence 999999999985 35566 57888889999999 9999985
No 92
>PLN02859 glutamine-tRNA ligase
Probab=98.89 E-value=5.2e-09 Score=102.02 Aligned_cols=94 Identities=14% Similarity=0.004 Sum_probs=73.1
Q ss_pred EEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q psy2399 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKK 94 (232)
Q Consensus 15 ~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~ 94 (232)
+++..+|.|||.||||||++.++...+||. ..| .++.-+|| .+|..-...+.+.|.+
T Consensus 265 V~tRFaPsPtG~LHiGharaallN~~~Ar~--~~G--------~~~LRieD-------------Tdp~r~~~e~~~~I~e 321 (788)
T PLN02859 265 VYTRFPPEPNGYLHIGHAKAMFVDFGLAKE--RGG--------CCYLRFDD-------------TNPEAEKKEYIDHIEE 321 (788)
T ss_pred eEEEeCCCCCCcccHHHHHHHHHHHHHHHH--hCC--------EEEEEecC-------------CCCCccchHHHHHHHH
Confidence 778889999999999999999999999985 344 33333344 3466667788899999
Q ss_pred HHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 95 YLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 95 ~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
+|++||++||..+.+|+ |.+...+...+|. ++|++|.
T Consensus 322 dL~WLG~~~d~~~~qSd--~f~~~Y~~A~~Li-~~G~AY~ 358 (788)
T PLN02859 322 IVEWMGWEPFKITYTSD--YFQELYELAVELI-RRGHAYV 358 (788)
T ss_pred HHHHcCCCCCCcccccH--hHHHHHHHHHHHH-HcCCeEe
Confidence 99999999987766663 4433444567799 9999986
No 93
>PRK01406 gltX glutamyl-tRNA synthetase; Reviewed
Probab=98.89 E-value=5.6e-09 Score=97.98 Aligned_cols=94 Identities=17% Similarity=0.182 Sum_probs=74.9
Q ss_pred EEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q psy2399 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKK 94 (232)
Q Consensus 15 ~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~ 94 (232)
+++--+|.|||.|||||+|+++....+||- ..| .|+.-+||. ++......+.+.+.+
T Consensus 5 v~~RfAPSPtG~lHiG~~rtal~n~l~Ar~--~~G--------~fiLRieDt-------------D~~R~~~~~~~~i~~ 61 (476)
T PRK01406 5 VRTRFAPSPTGYLHIGGARTALFNWLFARH--HGG--------KFILRIEDT-------------DQERSTEEAEEAILE 61 (476)
T ss_pred eeEEeCCCCCCcccHHHHHHHHHHHHHHHH--cCC--------EEEEEeCcC-------------CCCCCChHHHHHHHH
Confidence 677888999999999999999999999984 344 344434442 345667778889999
Q ss_pred HHhccCCcCCcc--------ccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 95 YLDGFYIKFDNW--------YSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 95 ~l~~lgI~~d~~--------~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
+|++|||+||.- ++.| ++.+...++..+|. ++|++|.
T Consensus 62 ~L~wlGl~~De~p~~~~~gpy~QS--~r~~~y~~~~~~L~-~~g~aY~ 106 (476)
T PRK01406 62 GLKWLGLDWDEGPDGGPYGPYRQS--ERLDIYKEYAEQLL-EEGKAYY 106 (476)
T ss_pred HHHHCCCCCCCCCccCCCCceehh--cCHHHHHHHHHHHH-HcCCeee
Confidence 999999999964 4555 46688889999999 9999985
No 94
>PLN02627 glutamyl-tRNA synthetase
Probab=98.87 E-value=8.9e-09 Score=97.02 Aligned_cols=94 Identities=14% Similarity=0.174 Sum_probs=74.2
Q ss_pred EEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q psy2399 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKK 94 (232)
Q Consensus 15 ~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~ 94 (232)
+++--.|.|||.|||||+|+++....+|| +..| .-++.+ || .++......+.+.|.+
T Consensus 46 vr~RFAPSPTG~LHiG~aRtAL~n~l~Ar--~~gG-----~fiLRI---ED-------------TD~~R~~~e~~~~I~~ 102 (535)
T PLN02627 46 VRVRFAPSPTGNLHVGGARTALFNYLFAR--SKGG-----KFVLRI---ED-------------TDLARSTKESEEAVLR 102 (535)
T ss_pred eEEEeCCCCCCCccHHHHHHHHHHHHHHH--HhCC-----EEEEEe---Cc-------------CCCCCCChHHHHHHHH
Confidence 77777889999999999999999999998 4445 344444 33 2344566778889999
Q ss_pred HHhccCCcCCcc---------ccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 95 YLDGFYIKFDNW---------YSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 95 ~l~~lgI~~d~~---------~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
+|++|||+||.- ++.| ++.+...++..+|. ++|++|.
T Consensus 103 ~L~WLGl~wDegp~~gg~~gpy~QS--eR~~~Y~~~a~~Li-~~G~AY~ 148 (535)
T PLN02627 103 DLKWLGLDWDEGPDVGGEYGPYRQS--ERNAIYKQYAEKLL-ESGHVYP 148 (535)
T ss_pred HHHHcCCCCCcCcccCCCCCCeeee--ccHHHHHHHHHHHH-HcCCeee
Confidence 999999999963 3444 46778889999999 9999985
No 95
>cd00808 GluRS_core catalytic core domain of discriminating glutamyl-tRNA synthetase. Discriminating Glutamyl-tRNA synthetase (GluRS) catalytic core domain . The discriminating form of GluRS is only found in bacteria and cellular organelles. GluRS is a monomer that attaches Glu to the appropriate tRNA. Like other class I tRNA synthetases, GluRS aminoacylates the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding.
Probab=98.86 E-value=4.7e-09 Score=90.07 Aligned_cols=90 Identities=18% Similarity=0.209 Sum_probs=68.5
Q ss_pred EEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q psy2399 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKK 94 (232)
Q Consensus 15 ~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~ 94 (232)
+++--+|.|||.|||||++++++...++|- ..| .++.-+|| .++..-...+.+.+.+
T Consensus 2 v~~RfAPsPtG~LHlG~~~~al~n~l~ar~--~~G--------~~ilRieD-------------td~~r~~~~~~~~i~~ 58 (239)
T cd00808 2 VRTRFAPSPTGFLHIGGARTALFNYLFARK--HGG--------KFILRIED-------------TDQERSVPEAEEAILE 58 (239)
T ss_pred ceEEeCCCCCCcccHHHHHHHHHHHHHHHH--cCC--------eEEEEECc-------------CCCCCCchHHHHHHHH
Confidence 467778999999999999999999999983 334 33333444 2233445677788889
Q ss_pred HHhccCCcCCc---------cccCCChhHHHHHHHHHHHHHhhcC
Q psy2399 95 YLDGFYIKFDN---------WYSTDSIENIDLVQKIYDTLYNKAK 130 (232)
Q Consensus 95 ~l~~lgI~~d~---------~~~t~~~~~~~~v~~~~~~L~~~kG 130 (232)
+|++|||+||. .+..| .+.+...+++.+|. ++|
T Consensus 59 dL~wlGl~~d~~~~~~g~~~~~~QS--~r~~~y~~~~~~L~-~~g 100 (239)
T cd00808 59 ALKWLGLDWDEGPDVGGPYGPYRQS--ERLEIYRKYAEKLL-EKG 100 (239)
T ss_pred HHHHcCCCCCcCCccCCCCCCEeee--CCHHHHHHHHHHHH-HcC
Confidence 99999999998 55555 46778888899999 888
No 96
>KOG1147|consensus
Probab=98.54 E-value=3.1e-07 Score=85.51 Aligned_cols=98 Identities=21% Similarity=0.143 Sum_probs=78.4
Q ss_pred EEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy2399 14 IFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRK 93 (232)
Q Consensus 14 ~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~ 93 (232)
-+|+..||-|+|.||||||...++..-++- + ++-.++.-+|| ..|..-.+++.+.|+
T Consensus 200 kVv~RFPPEpSGyLHIGHAKAALLNqYfa~--~--------~~G~LIvRFDD-------------TNPaKE~~eFe~~Il 256 (712)
T KOG1147|consen 200 KVVTRFPPEPSGYLHIGHAKAALLNQYFAQ--A--------YQGKLIVRFDD-------------TNPAKENEEFEDVIL 256 (712)
T ss_pred ceEEecCCCCCceeehhhHHHHHHHHHHHH--h--------cCceEEEEecC-------------CCcchhhHHHHHHHH
Confidence 477888999999999999998776655543 2 23345555565 357777888999999
Q ss_pred HHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEeccc
Q psy2399 94 KYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKI 137 (232)
Q Consensus 94 ~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~ 137 (232)
+++..|||.+|.+..|| .|-+.+.....+|. +.|.+|..+.
T Consensus 257 eDl~~LgIkpd~~TyTS--DyF~~i~dycv~li-keGKAYvDDT 297 (712)
T KOG1147|consen 257 EDLSLLGIKPDRVTYTS--DYFDEIMDYCVKLI-KEGKAYVDDT 297 (712)
T ss_pred HHHHHhCcCcceeeech--hhHHHHHHHHHHHH-hcCcccccCC
Confidence 99999999999998888 58888889999999 9999997554
No 97
>KOG4426|consensus
Probab=98.39 E-value=3.1e-06 Score=77.35 Aligned_cols=130 Identities=18% Similarity=0.200 Sum_probs=96.2
Q ss_pred CCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhH----HHHHHHHHc----CC---
Q psy2399 11 VRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGA----AIMIAAEKA----GM--- 79 (232)
Q Consensus 11 ~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~----~i~~~a~~~----g~--- 79 (232)
.++.+|....|+.-..+|+||+|+.|++|.++|.+...| ++|+.+.-+.|.|+ -|+...++. ..
T Consensus 187 ~KrvlVDFSSPNIAKeMHVGHLRSTIIGdsl~RllE~~~-----~dVlR~NHvGDWGTQFGMLIahL~dkFPd~l~vsp~ 261 (656)
T KOG4426|consen 187 VKRVLVDFSSPNIAKEMHVGHLRSTIIGDSLCRLLEFSG-----VDVLRRNHVGDWGTQFGMLIAHLFDKFPDYLSVSPP 261 (656)
T ss_pred eeeEEEecCCCcHHHHhhhhhhhhhhHhHHHHHHHHhcC-----cceEeeccccchHHHHHHHHHHHHHhCCchhccCCC
Confidence 478999999999999999999999999999999999999 99998877777654 344333331 11
Q ss_pred -----------------------------------CH------HHHHHHHHHHHHHHHhccCCcCCccccCCChhHHHHH
Q psy2399 80 -----------------------------------TP------KEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLV 118 (232)
Q Consensus 80 -----------------------------------~~------~e~~~~~~~~~~~~l~~lgI~~d~~~~t~~~~~~~~v 118 (232)
+| ..+++--.+.+...+++|.|+...- .+| .|...+
T Consensus 262 IgDLQvFYkeSKkrFD~deeFKkrAyq~VV~LQggdp~~~kAW~~ICdvSr~ef~kvY~rLdi~l~e~-GES--FYq~~m 338 (656)
T KOG4426|consen 262 IGDLQVFYKESKKRFDEDEEFKKRAYQAVVRLQGGDPDIRKAWALICDVSRKEFQKVYNRLDISLKER-GES--FYQDRM 338 (656)
T ss_pred chhHHHHHHHHHhccCcCHHHHHHHHHHeeecccCCChHHHHHHHHHHhhHHHHHHHHHHhcchHhhc-chh--hhhhHH
Confidence 11 1124445578888899999875322 122 688889
Q ss_pred HHHHHHHHhhcCCEEecc-cceeeccCCCccc
Q psy2399 119 QKIYDTLYNKAKLIINKK-INQFFDPIKNIFL 149 (232)
Q Consensus 119 ~~~~~~L~~~kG~iy~~~-~~~~~~~~~~~~l 149 (232)
.++++.|. .+|++.+.+ ..+-|-+.|+.+|
T Consensus 339 ~~vveel~-~kglvee~~Gr~i~f~~g~~IPL 369 (656)
T KOG4426|consen 339 AEVVEELK-SKGLVEEDDGRRIMFPEGCDIPL 369 (656)
T ss_pred HHHHHHHh-cCCceeecCCceEeccCCCCcce
Confidence 99999999 999998876 4556655555544
No 98
>KOG1195|consensus
Probab=98.24 E-value=7.3e-06 Score=76.06 Aligned_cols=128 Identities=18% Similarity=0.178 Sum_probs=95.3
Q ss_pred CCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHH---HcC--------
Q psy2399 10 DVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAE---KAG-------- 78 (232)
Q Consensus 10 ~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~---~~g-------- 78 (232)
+.++++|....|+.+.+.|+||+|+.+++-+++...+..| ++|.-+...-|.|..+-..|. +.|
T Consensus 108 ~~k~iVVefSSPNIAK~FHvGhLRsTiiG~flanl~e~~G-----~~Vtr~NYLGDWGkQFgll~~g~~~~g~e~~L~~~ 182 (567)
T KOG1195|consen 108 SGKKIVVEFSSPNIAKPFHVGHLRSTIIGNFLANLHEALG-----WEVTRVNYLGDWGKQFGLLALGFQLYGDEEELQLN 182 (567)
T ss_pred cCceEEEEecCCCcccccccchhhhhhhhhHhhhhHHhhC-----CceeehhhhhHHHHHhhHHhccHHhhCchhhhccc
Confidence 3588999999999999999999999999999999999999 999987777776643332221 011
Q ss_pred -------------------CCH----HH------------------HHHHHHHHHHHHHhccCCcCCccccCCChhHHHH
Q psy2399 79 -------------------MTP----KE------------------FINNISSNRKKYLDGFYIKFDNWYSTDSIENIDL 117 (232)
Q Consensus 79 -------------------~~~----~e------------------~~~~~~~~~~~~l~~lgI~~d~~~~t~~~~~~~~ 117 (232)
.+. .+ +.+--+....+.+.+|||.||.|...+. .+.+.
T Consensus 183 pI~hL~dvYVk~nk~~~~~~~~~~~are~f~rlE~~d~e~~k~Wqrfr~lsIe~l~~~Y~Rl~v~FD~y~gESq-v~~e~ 261 (567)
T KOG1195|consen 183 PIKHLFDVYVKINKDAEKDPDTAEEAREFFKRLEDGDEEHLKLWQRFRDLSIEKLIKTYNRLNVKFDEYSGESQ-VSNEK 261 (567)
T ss_pred hHHHHHHHHHHhhhhhhhCcchHHHHHHHHHHHhcccHHHHHHHHHhhhhhHHHHHHHHHHhceeeeeccchHH-HHHHH
Confidence 000 01 1111235677788999999999988875 67888
Q ss_pred HHHHHHHHHhhcCCEEecccceeeccC
Q psy2399 118 VQKIYDTLYNKAKLIINKKINQFFDPI 144 (232)
Q Consensus 118 v~~~~~~L~~~kG~iy~~~~~~~~~~~ 144 (232)
.+.+.+.+. .+|++...++..-++..
T Consensus 262 ~~~~~d~~r-s~~l~~e~dG~~vidL~ 287 (567)
T KOG1195|consen 262 MQEALDLLR-SANLTEEIDGTIVIDLS 287 (567)
T ss_pred HHHHHHHHH-hcCCcccCCCcEEEEec
Confidence 999999999 99977666666655443
No 99
>KOG1148|consensus
Probab=97.63 E-value=0.00014 Score=68.75 Aligned_cols=95 Identities=19% Similarity=0.118 Sum_probs=65.8
Q ss_pred EEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHH
Q psy2399 14 IFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRK 93 (232)
Q Consensus 14 ~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~ 93 (232)
-++|..||-|||-|||||+-..-+.=-+|+ ..| -|-++. .|| ..|+.-.++|-..|+
T Consensus 248 kV~TRFPPEPNG~LHIGHaKAInvNFgyAk---~~~------G~cyLR-fDD-------------TNPEkEee~yf~sI~ 304 (764)
T KOG1148|consen 248 KVVTRFPPEPNGILHIGHAKAINVNFGYAK---AHG------GVCYLR-FDD-------------TNPEKEEEEYFESIK 304 (764)
T ss_pred eeEEeCCCCCCceeeecchhheeechhhhh---hhC------CeEEEe-cCC-------------CCcchhhHHHHHHHH
Confidence 388999999999999999975433322333 233 222332 122 358888889999999
Q ss_pred HHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEe
Q psy2399 94 KYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 94 ~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
+.-.+||..+-.. |.+..|-...-++-..|+ ++|++|.
T Consensus 305 e~V~WLG~~P~kv--TysSDyFdqLy~~av~LI-rkG~AYV 342 (764)
T KOG1148|consen 305 EMVAWLGFEPYKV--TYSSDYFDQLYELAVELI-RKGKAYV 342 (764)
T ss_pred HHHHHhCCCceee--ecchhHHHHHHHHHHHHH-hcCceeE
Confidence 9999999976444 433356666666667888 9999985
No 100
>KOG1149|consensus
Probab=97.61 E-value=0.00022 Score=65.43 Aligned_cols=96 Identities=16% Similarity=0.170 Sum_probs=69.6
Q ss_pred EEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q psy2399 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKK 94 (232)
Q Consensus 15 ~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~ 94 (232)
|=+...|.|+|.||||-+|+++..-++|| +..| .-+..+-.+| ...++..-...+.+
T Consensus 34 VRvRFAPSPTGfLHlGgLRTALfNYLfAr--k~gG-----kFiLRiEDTD----------------q~R~v~gs~e~i~~ 90 (524)
T KOG1149|consen 34 VRVRFAPSPTGFLHLGGLRTALFNYLFAR--KKGG-----KFILRIEDTD----------------QKRLIRGSEEAIYE 90 (524)
T ss_pred eEEeecCCCCcceehhhHHHHHHHHHHHH--hcCC-----eEEEEecccc----------------ccccccchHHHHHH
Confidence 44555689999999999999988888887 3334 4555554443 33455556677889
Q ss_pred HHhccCCcCCccccCCC---h----hHHHHHHHHHHHHHhhcCCEEe
Q psy2399 95 YLDGFYIKFDNWYSTDS---I----ENIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 95 ~l~~lgI~~d~~~~t~~---~----~~~~~v~~~~~~L~~~kG~iy~ 134 (232)
+|.++||+||.=.+... | +..+..+...++|. +.|.+|+
T Consensus 91 ~L~w~nl~~DEgP~~gG~~GPY~QS~R~eiY~kyae~Ll-~sG~AYr 136 (524)
T KOG1149|consen 91 DLKWANLDWDEGPGVGGPFGPYEQSERLEIYKKYAEKLL-ESGHAYR 136 (524)
T ss_pred HHHhcCCCcccCCCcCCCCCchhhHHHHHHHHHHHHHHH-hcCCeeE
Confidence 99999999997442221 1 34566778888999 9999996
No 101
>PRK12285 tryptophanyl-tRNA synthetase; Reviewed
Probab=96.83 E-value=0.011 Score=54.02 Aligned_cols=78 Identities=24% Similarity=0.209 Sum_probs=50.0
Q ss_pred CCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHH
Q psy2399 10 DVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNIS 89 (232)
Q Consensus 10 ~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~ 89 (232)
+++++.|.++. -|+|.+||||+. ....+.+++. .| +++.+..+ |.|..- .+ +.+++++. ++.
T Consensus 63 ~~~~~~iytG~-~PSG~lHLGh~~---~~~~~~~lQ~-~g-----~~~~i~Ia-D~ha~~-----~~-~~~~e~~~-~~~ 124 (368)
T PRK12285 63 NGKPFAVYTGF-MPSGPMHIGHKM---VFDELKWHQE-FG-----ANVYIPIA-DDEAYA-----AR-GLSWEETR-EWA 124 (368)
T ss_pred cCCCeEEEEcc-CCCCCccHHHHH---HHHHHHHHHh-cC-----CCEEEEec-chHHHh-----cC-CCCHHHHH-HHH
Confidence 35677777765 778999999964 3445555555 78 78766654 444321 11 45666554 444
Q ss_pred HHHHHHHhccCCcCCc
Q psy2399 90 SNRKKYLDGFYIKFDN 105 (232)
Q Consensus 90 ~~~~~~l~~lgI~~d~ 105 (232)
..+..++.++|++++.
T Consensus 125 ~~~~~~~lA~G~Dp~k 140 (368)
T PRK12285 125 YEYILDLIALGFDPDK 140 (368)
T ss_pred HHHHHHHHHhCCCccc
Confidence 4466788899998874
No 102
>PLN02486 aminoacyl-tRNA ligase
Probab=96.72 E-value=0.024 Score=52.06 Aligned_cols=85 Identities=12% Similarity=0.117 Sum_probs=52.1
Q ss_pred CCCCcEEEEcCCCCCCC-cCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHH
Q psy2399 9 KDVRRIFVTTALPYANG-ELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINN 87 (232)
Q Consensus 9 ~~~~~~~v~~~~P~~nG-~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~ 87 (232)
..+++++|.++. -|+| .+||||+. ....+..+++..| ..+.+.. +|+ +.... .+.+.+++ .+
T Consensus 69 e~~~~~~vYtG~-~PSg~~lHlGHlv---~~~~~~~lQ~~~~-----~~~~I~i-aD~-----e~~~~-~~~~~e~i-~~ 131 (383)
T PLN02486 69 EKGEKFYLYTGR-GPSSEALHLGHLI---PFMFTKYLQDAFK-----VPLVIQL-TDD-----EKFLW-KNLSVEES-QR 131 (383)
T ss_pred hcCCCeEEEeCC-CCCCccccHHHHH---HHHHHHHHHHhCC-----CeEEEEe-cCH-----HHHhh-cCCCHHHH-HH
Confidence 345678888775 8999 59999954 4445554444556 6666553 354 22222 25666554 45
Q ss_pred HHHHHHHHHhccCCcCCc-cccCC
Q psy2399 88 ISSNRKKYLDGFYIKFDN-WYSTD 110 (232)
Q Consensus 88 ~~~~~~~~l~~lgI~~d~-~~~t~ 110 (232)
+.....+++.++|++++. ++...
T Consensus 132 ~~~en~~~iiA~G~dp~kt~I~s~ 155 (383)
T PLN02486 132 LARENAKDIIACGFDVERTFIFSD 155 (383)
T ss_pred HHHHHHHHHHHhCCCCcceEEEec
Confidence 555667777889998864 44433
No 103
>COG0180 TrpS Tryptophanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=96.25 E-value=0.044 Score=48.95 Aligned_cols=91 Identities=12% Similarity=0.224 Sum_probs=55.5
Q ss_pred CcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCc-eeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHH
Q psy2399 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSR-QVYFICADDAHGAAIMIAAEKAGMTPKEFINNISS 90 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~-~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~ 90 (232)
.++.|+++. -|+|.|||||..+++.. +++-..+ + ++. ++=.|.|-..+ .+.++++-..+...
T Consensus 4 ~~~~vlSG~-~PSG~lHLGny~ga~~~----~v~~q~~-----~~~~f-~~IaDlha~t~------~~~~~~~~l~~~~~ 66 (314)
T COG0180 4 KKFRVLSGI-QPSGKLHLGNYLGAIRN----WVLLQEE-----YYECF-FFIADLHAITV------RQDPTEEDLRQATR 66 (314)
T ss_pred CCceEEecC-CCCCCcchhHhHHHHHH----HHHHhcc-----cCceE-EEEecHHHhhc------CCCChHHHHHHHHH
Confidence 445566655 78899999999887543 3333334 3 444 33456654432 22334455666667
Q ss_pred HHHHHHhccCCcCCc---cccCCChhHHHHHH
Q psy2399 91 NRKKYLDGFYIKFDN---WYSTDSIENIDLVQ 119 (232)
Q Consensus 91 ~~~~~l~~lgI~~d~---~~~t~~~~~~~~v~ 119 (232)
....++-++||+++. |..+.-++|.+..+
T Consensus 67 e~~a~~LA~GiDP~k~~if~QS~v~e~~eLa~ 98 (314)
T COG0180 67 EVAADYLAVGLDPEKSTIFLQSEVPEHAELAW 98 (314)
T ss_pred HHHHHHHHhccCccccEEEEccCchHHHHHHH
Confidence 777888899998875 44555566655444
No 104
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=96.24 E-value=0.0071 Score=62.07 Aligned_cols=96 Identities=11% Similarity=0.078 Sum_probs=62.2
Q ss_pred HHHHHHHHHHH---HhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCCcCccCCCCCCCccccCCcccCC
Q psy2399 115 IDLVQKIYDTL---YNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILS 191 (232)
Q Consensus 115 ~~~v~~~~~~L---~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~ 191 (232)
.+.+.+..... . +++-...-+.....||+|++..+. ..||.||+...--..|.+||....+++-....|+-|
T Consensus 641 qR~I~kAa~~a~~~~-d~~G~ieVEV~~rkCPkCG~~t~~----~fCP~CGs~te~vy~CPsCGaev~~des~a~~CP~C 715 (1337)
T PRK14714 641 QRDVAKAAKHAPDMS-DEGGVIEVEVGRRRCPSCGTETYE----NRCPDCGTHTEPVYVCPDCGAEVPPDESGRVECPRC 715 (1337)
T ss_pred cccHHHHHHhhhhcc-ccCCeEEEEEEEEECCCCCCcccc----ccCcccCCcCCCceeCccCCCccCCCccccccCCCC
Confidence 34455555433 2 344455666678899999998764 399999998754557999999776554446689999
Q ss_pred CCccEEEEccceeEecCChhhHHHHHh
Q psy2399 192 GTKPIIKSSKHFFFKLSDKRCIDFLRK 218 (232)
Q Consensus 192 g~~~~~~~~~~~f~~L~~~~~~~~l~~ 218 (232)
|.++.-.... -++|. +.|+..|.+
T Consensus 716 Gtplv~~~~~--~i~~~-~~~~~A~~~ 739 (1337)
T PRK14714 716 DVELTPYQRR--TINVK-EEYRSALEN 739 (1337)
T ss_pred CCcccccceE--EecHH-HHHHHHHHH
Confidence 9887643332 34662 234444443
No 105
>PRK12284 tryptophanyl-tRNA synthetase; Reviewed
Probab=95.95 E-value=0.038 Score=51.38 Aligned_cols=94 Identities=13% Similarity=0.115 Sum_probs=56.9
Q ss_pred EEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q psy2399 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKK 94 (232)
Q Consensus 15 ~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~ 94 (232)
.|.+++ .|+|.|||||..+.+-. ..+.+...| +++.+.. .|-|-.- ...+|+++.+... .+..
T Consensus 4 rvlSGi-qPTG~lHLGNylGaik~--~v~lq~q~~-----~~~~~~I-ADlHAlT-------~~~dp~~lr~~~~-e~aa 66 (431)
T PRK12284 4 RVLTGI-TTTGTPHLGNYAGAIRP--AIAASRQPG-----VESFYFL-ADYHALI-------KCDDPARIQRSTL-EIAA 66 (431)
T ss_pred EEEEEe-cCCCcchHHHHHHHHHH--HHHHHHhCC-----CcEEEEe-echhhcc-------CCCCHHHHHHHHH-HHHH
Confidence 355555 78899999997776543 333444458 7776543 3444432 1246776665544 4678
Q ss_pred HHhccCCcCCc--cccCC-ChhHHHHHHHHHHHHH
Q psy2399 95 YLDGFYIKFDN--WYSTD-SIENIDLVQKIYDTLY 126 (232)
Q Consensus 95 ~l~~lgI~~d~--~~~t~-~~~~~~~v~~~~~~L~ 126 (232)
++-++||+++. ++.-| -++|.+. .|++..+.
T Consensus 67 ~~LA~GlDPek~~if~QSdvpeh~EL-~wiL~~it 100 (431)
T PRK12284 67 TWLAAGLDPERVTFYRQSDIPEIPEL-TWLLTCVA 100 (431)
T ss_pred HHHHhCCCccceEEEECCcchhHHHH-HHHHHhhh
Confidence 88899999874 44455 4555444 44554343
No 106
>COG1656 Uncharacterized conserved protein [Function unknown]
Probab=95.87 E-value=0.013 Score=47.33 Aligned_cols=122 Identities=15% Similarity=0.098 Sum_probs=59.7
Q ss_pred HHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhccCCcCCccccCCChhHHHHHH
Q psy2399 40 IWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQ 119 (232)
Q Consensus 40 vl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~~l~~lgI~~d~~~~t~~~~~~~~v~ 119 (232)
-||||||+.| |++.+.. +..+..|...+.+.|.= +.-+=...+++. ++|+. ..++.++ ...+++.
T Consensus 17 ~LARwLRllG-----ydt~~~~--~~~d~~i~~i~~~e~rI---llTRDr~L~~r~--k~g~~-~i~i~~~--s~~~Ql~ 81 (165)
T COG1656 17 KLARWLRLLG-----YDTVYSS--NESDDEIILIAKKEGRI---LLTRDRELYKRA--KLGIK-AILIRSD--SIEEQLA 81 (165)
T ss_pred HHHHHHHHcC-----Cceeeec--cCCcHHHHHHHhcCCeE---EEeccHHHHHHh--hccCc-eEEEeCC--CHHHHHH
Confidence 3799999999 9999996 22234555555554310 000001111221 34442 2355555 4667777
Q ss_pred HHHHHHHhhcCCEEecccceeeccCCCcc---cccceeccCCCCC-CccccCCCcCccCCCCCCC
Q psy2399 120 KIYDTLYNKAKLIINKKINQFFDPIKNIF---LPDRYIKGECPIC-NAKDQYGDFCECCSSIYTP 180 (232)
Q Consensus 120 ~~~~~L~~~kG~iy~~~~~~~~~~~~~~~---l~~~~v~g~cp~c-~~~~~~g~~Ce~Cg~~~~~ 180 (232)
+++.+|- .++.+..... =||.|+.. ++..+|++.-|-= ......-..|++||++|-+
T Consensus 82 e~~~~~~-l~~~~~~e~~---RCp~CN~~L~~vs~eev~~~Vp~~~~~~~~~f~~C~~CgkiYW~ 142 (165)
T COG1656 82 EFLARLG-LKPRLFPEFS---RCPECNGELEKVSREEVKEKVPEKVYRNYEEFYRCPKCGKIYWK 142 (165)
T ss_pred HHHHHhc-cchhcccccc---cCcccCCEeccCcHHHHhhccchhhhhcccceeECCCCcccccC
Confidence 7877777 5552222122 24444443 3445555444411 0000111237777777654
No 107
>TIGR00233 trpS tryptophanyl-tRNA synthetase. This model represents tryptophanyl-tRNA synthetase. Some members of the family have a pfam00458 domain amino-terminal to the region described by this model.
Probab=95.84 E-value=0.044 Score=49.35 Aligned_cols=90 Identities=16% Similarity=0.249 Sum_probs=51.4
Q ss_pred cEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHH
Q psy2399 13 RIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNR 92 (232)
Q Consensus 13 ~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~ 92 (232)
++.|.++. -|+|.+||||..+.+..-+.. ..| +++.+..+ |.|-.-. . .+-+++.+ ......+
T Consensus 2 ~~~v~~G~-~PTG~~HlG~~l~~~~~~~~~----q~~-----~~~~i~Ia-D~ha~t~----~-~~~~~~~~-~~~~~~~ 64 (328)
T TIGR00233 2 KFRVLTGI-QPSGKMHLGHYLGAIQTKWLQ----QFG-----VELFICIA-DLHAITV----K-DNTDPDAL-RKAREEL 64 (328)
T ss_pred CCEEEEee-CCCcHhHHHHHHHHHHHHHHH----hCC-----CCEEEEee-cchhhcC----C-CCCCHHHH-HHHHHHH
Confidence 34556655 788999999977765543332 568 78766643 3333221 0 11134333 4444555
Q ss_pred HHHHhccCCcCCc--cccCC-ChhHHHHHH
Q psy2399 93 KKYLDGFYIKFDN--WYSTD-SIENIDLVQ 119 (232)
Q Consensus 93 ~~~l~~lgI~~d~--~~~t~-~~~~~~~v~ 119 (232)
..++.++|++++. +++.| -++|.+.++
T Consensus 65 ~~~~lA~GlDp~k~~if~qS~~~e~~el~~ 94 (328)
T TIGR00233 65 AADILAVGLDPKKTFIFLQSDYPEHYELAW 94 (328)
T ss_pred HHHHHHhCcChhheEEEEcCCcHHHHHHHH
Confidence 6777799998874 33444 345555444
No 108
>PRK08560 tyrosyl-tRNA synthetase; Validated
Probab=95.72 E-value=0.061 Score=48.40 Aligned_cols=82 Identities=16% Similarity=0.175 Sum_probs=49.0
Q ss_pred CCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHH
Q psy2399 11 VRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISS 90 (232)
Q Consensus 11 ~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~ 90 (232)
++++.|.++. -|+|.+||||+. ..-.++++++ .| +++.+..+ |.|..-.. ..+++ .+.++..
T Consensus 28 ~~~~~v~~G~-~PTG~lHLG~~~---~~~~~~~lq~-~g-----~~~~i~Ia-D~ha~~~~------~~~~~-~i~~~~~ 89 (329)
T PRK08560 28 KEEPKAYIGF-EPSGKIHLGHLL---TMNKLADLQK-AG-----FKVTVLLA-DWHAYLND------KGDLE-EIRKVAE 89 (329)
T ss_pred CCCCEEEEcc-CCCCcchhhhhH---HHHHHHHHHH-CC-----CeEEEEEc-cchhhcCC------CCCHH-HHHHHHH
Confidence 3555555554 788999999854 3333555555 48 77766543 33332211 13444 4455556
Q ss_pred HHHHHHhccCCcCCc--cccCC
Q psy2399 91 NRKKYLDGFYIKFDN--WYSTD 110 (232)
Q Consensus 91 ~~~~~l~~lgI~~d~--~~~t~ 110 (232)
.+..++.++|++++. ++..+
T Consensus 90 ~~~~~~~A~G~dp~k~~i~~qS 111 (329)
T PRK08560 90 YNKKVFEALGLDPDKTEFVLGS 111 (329)
T ss_pred HHHHHHHHcCCChhheEEEecc
Confidence 788889999998763 44444
No 109
>PRK06039 ileS isoleucyl-tRNA synthetase; Reviewed
Probab=95.72 E-value=0.022 Score=58.31 Aligned_cols=70 Identities=16% Similarity=0.171 Sum_probs=53.3
Q ss_pred HHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCCcCccCCCCCCCccccCCcccCCCC
Q psy2399 114 NIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGT 193 (232)
Q Consensus 114 ~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~ 193 (232)
..+.-..+++.|. ++|++....... -.-|.|..||.
T Consensus 361 v~eA~~~Ii~~L~-~~g~l~~~~~~~-------------------------------------------h~~p~c~R~g~ 396 (975)
T PRK06039 361 VKDADKEIIRDLK-ERGLLFKAETYE-------------------------------------------HSYPHCWRCDT 396 (975)
T ss_pred HHHhhHHHHHHHH-hCCCEeeeeeec-------------------------------------------CCCCEeCCCCC
Confidence 3455667889999 999987654211 12378889999
Q ss_pred ccEEEEccceeEecCChhhHHHHHhhhhcCCCCCCCC
Q psy2399 194 KPIIKSSKHFFFKLSDKRCIDFLRKWAIHDKRLQPEI 230 (232)
Q Consensus 194 ~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~~~~~p~~ 230 (232)
+++.+.++|||+++ +++++++.++ ++.-.+.|+.
T Consensus 397 pv~~~~~~qWFi~~--~~~k~~ll~~-~~~i~~~P~~ 430 (975)
T PRK06039 397 PLIYYATESWFIRV--TKIKDRMLEL-NQKINWYPEH 430 (975)
T ss_pred EEEEEecCeeeEec--HHHHHHHHHh-hCCeEEECcc
Confidence 99999999999999 9999999999 5543355553
No 110
>cd00806 TrpRS_core catalytic core domain of tryptophanyl-tRNA synthetase. Tryptophanyl-tRNA synthetase (TrpRS) catalytic core domain. TrpRS is a homodimer which attaches Tyr to the appropriate tRNA. TrpRS is a class I tRNA synthetases, so it aminoacylates the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains class I characteristic HIGH and KMSKS motifs, which are involved in ATP binding
Probab=95.34 E-value=0.091 Score=46.22 Aligned_cols=68 Identities=18% Similarity=0.358 Sum_probs=42.5
Q ss_pred CCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhccCC
Q psy2399 22 YANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKKYLDGFYI 101 (232)
Q Consensus 22 ~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~~l~~lgI 101 (232)
-|+|.|||||+.+.+.. + +++...| +++.+..+ |.|..-. ...+++ -+.++...+.+++.++|+
T Consensus 7 ~PTG~lHLG~~~~al~~--~-~~lQ~ag-----~~~~~~Ia-D~ha~t~------~~~~~~-~~~~~~~~~~~~~lA~G~ 70 (280)
T cd00806 7 QPSGSLHLGHYLGAFRF--W-VWLQEAG-----YELFFFIA-DLHALTV------KQLDPE-ELRQNTRENAKDYLACGL 70 (280)
T ss_pred CCCchhhHHHHHHHHHH--H-HHHHhCC-----CCEEEEec-chHHHhC------CCCCHH-HHHHHHHHHHHHHHHcCC
Confidence 68899999998874432 2 2223348 78776653 4444321 113454 455566667888889999
Q ss_pred cCCc
Q psy2399 102 KFDN 105 (232)
Q Consensus 102 ~~d~ 105 (232)
+++.
T Consensus 71 dp~k 74 (280)
T cd00806 71 DPEK 74 (280)
T ss_pred Cccc
Confidence 8853
No 111
>PF12773 DZR: Double zinc ribbon
Probab=94.73 E-value=0.031 Score=35.89 Aligned_cols=37 Identities=22% Similarity=0.576 Sum_probs=19.7
Q ss_pred CCCCCccccC-CCcCccCCCCCCCccccCCcccCCCCc
Q psy2399 158 CPICNAKDQY-GDFCECCSSIYTPTKLINPYSILSGTK 194 (232)
Q Consensus 158 cp~c~~~~~~-g~~Ce~Cg~~~~~~~l~~~~~~~~g~~ 194 (232)
||.|+..... ..+|..||..+...+.....|..||..
T Consensus 1 Cp~Cg~~~~~~~~fC~~CG~~l~~~~~~~~~C~~Cg~~ 38 (50)
T PF12773_consen 1 CPHCGTPNPDDAKFCPHCGTPLPPPDQSKKICPNCGAE 38 (50)
T ss_pred CCCcCCcCCccccCChhhcCChhhccCCCCCCcCCcCC
Confidence 5555555333 355666666665333334456666654
No 112
>PRK04023 DNA polymerase II large subunit; Validated
Probab=94.72 E-value=0.042 Score=55.43 Aligned_cols=73 Identities=18% Similarity=0.159 Sum_probs=52.0
Q ss_pred HHHHHhh-cCCEEecccceeeccCCCcccccceeccCCCCCCccccCCCcCccCCCCCCCccccCCcccCCCCccEEEEc
Q psy2399 122 YDTLYNK-AKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGTKPIIKSS 200 (232)
Q Consensus 122 ~~~L~~~-kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~ 200 (232)
+.+-. + +|.+ .-+....+|++|++.. +...||.||+...-...|..||....+ +.|+-||..+.-..
T Consensus 610 i~~A~-~~~g~~-eVEVg~RfCpsCG~~t----~~frCP~CG~~Te~i~fCP~CG~~~~~-----y~CPKCG~El~~~s- 677 (1121)
T PRK04023 610 INKAA-KYKGTI-EVEIGRRKCPSCGKET----FYRRCPFCGTHTEPVYRCPRCGIEVEE-----DECEKCGREPTPYS- 677 (1121)
T ss_pred HHHHH-hcCCce-eecccCccCCCCCCcC----CcccCCCCCCCCCcceeCccccCcCCC-----CcCCCCCCCCCccc-
Confidence 34444 4 5655 4456667999999985 668999999986666789999986543 56999998776333
Q ss_pred cceeEec
Q psy2399 201 KHFFFKL 207 (232)
Q Consensus 201 ~~~f~~L 207 (232)
..-++|
T Consensus 678 -~~~i~l 683 (1121)
T PRK04023 678 -KRKIDL 683 (1121)
T ss_pred -eEEecH
Confidence 333566
No 113
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=94.69 E-value=0.02 Score=31.03 Aligned_cols=21 Identities=33% Similarity=0.822 Sum_probs=12.9
Q ss_pred CCCCCCccccCC-CcCccCCCC
Q psy2399 157 ECPICNAKDQYG-DFCECCSSI 177 (232)
Q Consensus 157 ~cp~c~~~~~~g-~~Ce~Cg~~ 177 (232)
.||.||.+...+ .+|..||..
T Consensus 1 ~Cp~CG~~~~~~~~fC~~CG~~ 22 (23)
T PF13240_consen 1 YCPNCGAEIEDDAKFCPNCGTP 22 (23)
T ss_pred CCcccCCCCCCcCcchhhhCCc
Confidence 377777765444 457666653
No 114
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=94.57 E-value=0.16 Score=40.30 Aligned_cols=31 Identities=16% Similarity=0.193 Sum_probs=23.2
Q ss_pred HHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcC
Q psy2399 41 WVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAG 78 (232)
Q Consensus 41 l~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g 78 (232)
++||||+.| +++.+..+.+| ..|...|.+.+
T Consensus 12 Lar~LR~lG-----~Dt~~~~~~~D--~~il~~A~~e~ 42 (147)
T PF01927_consen 12 LARWLRLLG-----YDTLYSRDIDD--DEILELAREEG 42 (147)
T ss_pred HHHHHHHCC-----CcEEEeCCCCh--HHHHHHhhhCC
Confidence 789999999 99999986654 44555565544
No 115
>PRK14900 valS valyl-tRNA synthetase; Provisional
Probab=94.34 E-value=0.085 Score=54.51 Aligned_cols=69 Identities=14% Similarity=0.058 Sum_probs=52.3
Q ss_pred HHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCCcCccCCCCCCCccccCCcccCCCC
Q psy2399 114 NIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGT 193 (232)
Q Consensus 114 ~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~ 193 (232)
..+.-..+++.|. ++|++...+... ...|.|..||.
T Consensus 330 ~~ear~~Ii~~L~-~~g~l~~~~~~~-------------------------------------------h~~~~c~R~~~ 365 (1052)
T PRK14900 330 RFEARKEVKRLLA-EQGLDRGAKPHV-------------------------------------------LPLGRCQRSAT 365 (1052)
T ss_pred HHHHHHHHHHHHH-hCCCeecceeee-------------------------------------------ccCceeCCCCc
Confidence 3455667888999 999987653211 12377888999
Q ss_pred ccEEEEccceeEecCChhhHHHHHhhhhcC--CCCCCC
Q psy2399 194 KPIIKSSKHFFFKLSDKRCIDFLRKWAIHD--KRLQPE 229 (232)
Q Consensus 194 ~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~--~~~~p~ 229 (232)
+++.+..+||||+| +.+++++.++ ++. ..+.|+
T Consensus 366 ~ie~~~s~qWFi~l--~~~k~~~~~~-v~~~~~~~~P~ 400 (1052)
T PRK14900 366 ILEPLLSDQWYVRI--EPLARPAIEA-VEQGRTRFIPE 400 (1052)
T ss_pred eEEEEeccceeeeh--HHHHHHHHHH-HhcCCcEEECh
Confidence 99999999999999 9999999999 543 345554
No 116
>PTZ00126 tyrosyl-tRNA synthetase; Provisional
Probab=94.31 E-value=0.068 Score=49.17 Aligned_cols=80 Identities=15% Similarity=0.127 Sum_probs=46.9
Q ss_pred CCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHH
Q psy2399 11 VRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISS 90 (232)
Q Consensus 11 ~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~ 90 (232)
+++..|.++. -|+|.+|||| ..+..--+..+ ...| ++|.+..+ |-|..-. .+.|.+++++ .+...
T Consensus 64 ~~~~~v~~G~-~PTG~lHLG~--g~i~~~~~~~l-q~~G-----~~v~~~Ia-D~hA~~~----~~~g~~l~~i-~~~~~ 128 (383)
T PTZ00126 64 KERPICYDGF-EPSGRMHIAQ--GILKAINVNKL-TKAG-----CVFVFWVA-DWFALLN----NKMGGDLEKI-RKVGE 128 (383)
T ss_pred CCCCEEEEEE-CCCCcccccc--hHhHhHHHHHH-HhCC-----CeEEEEEc-cceeecC----CCCCCCHHHH-HHHHH
Confidence 3445555554 6889999999 22222233333 4558 88876653 2222110 1234455554 55666
Q ss_pred HHHHHHhccCCcCCc
Q psy2399 91 NRKKYLDGFYIKFDN 105 (232)
Q Consensus 91 ~~~~~l~~lgI~~d~ 105 (232)
.+...+.++|++++.
T Consensus 129 ~~~~~~~A~GlDp~k 143 (383)
T PTZ00126 129 YFIEVWKAAGMDMDN 143 (383)
T ss_pred HHHHHHHHhCCCccc
Confidence 677889999998764
No 117
>PLN02886 aminoacyl-tRNA ligase
Probab=94.26 E-value=0.42 Score=44.06 Aligned_cols=83 Identities=19% Similarity=0.377 Sum_probs=49.9
Q ss_pred EEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHH
Q psy2399 16 VTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKKY 95 (232)
Q Consensus 16 v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~~ 95 (232)
|.++. -|+|.+||||..+.+ .-+..+++ | +++.+ +=.|.|-..+ .-+++++.+.. ..+..+
T Consensus 49 v~sGi-qPSG~lHLGnylGai--~~~v~lQ~--~-----~~~~~-~IADlHAlt~-------~~~~~~lr~~~-~~~~a~ 109 (389)
T PLN02886 49 VVSGV-QPTGSIHLGNYLGAI--KNWVALQE--T-----YDTFF-CVVDLHAITL-------PHDPRELGKAT-RSTAAI 109 (389)
T ss_pred EEEEE-CCCCccHHHHHHHHH--HHHHHHhc--c-----CCEEE-EEecHHHhhC-------CCCHHHHHHHH-HHHHHH
Confidence 44444 677999999977765 23333333 7 77654 3456655431 23666655444 456788
Q ss_pred HhccCCcCCc---cccCCChhHHHH
Q psy2399 96 LDGFYIKFDN---WYSTDSIENIDL 117 (232)
Q Consensus 96 l~~lgI~~d~---~~~t~~~~~~~~ 117 (232)
+.++|++++. |..+.-++|.+.
T Consensus 110 ~lA~GlDP~ks~if~QS~v~e~~eL 134 (389)
T PLN02886 110 YLACGIDPSKASVFVQSHVPAHAEL 134 (389)
T ss_pred HHHcCcCccceEEEEeCCCchhHHH
Confidence 8899999873 434444555443
No 118
>cd00395 Tyr_Trp_RS_core catalytic core domain of tyrosinyl-tRNA and tryptophanyl-tRNA synthetase. Tyrosinyl-tRNA synthetase (TyrRS)/Tryptophanyl-tRNA synthetase (TrpRS) catalytic core domain. These enzymes attach Tyr or Trp, respectively, to the appropriate tRNA. These class I enzymes are homodimers, which aminoacylate the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the class I characteristic HIGH and KMSKS motifs, which are involved in ATP binding.
Probab=94.25 E-value=0.18 Score=44.25 Aligned_cols=71 Identities=20% Similarity=0.199 Sum_probs=41.3
Q ss_pred CCCC-cCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChh--hHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhc
Q psy2399 22 YANG-ELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAH--GAAIMIAAEKAGMTPKEFINNISSNRKKYLDG 98 (232)
Q Consensus 22 ~~nG-~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~--G~~i~~~a~~~g~~~~e~~~~~~~~~~~~l~~ 98 (232)
-|+| .|||||+.+ -..+.+++ ..| +++.++.|-.+. |.+.-...++.-.++ +.+.++...+.+++.+
T Consensus 7 ~PTg~~lHlGh~~~---l~~~~~lq-~~g-----~~~~~~I~d~~a~~~d~sg~~~~r~~~~~-~~i~~n~~~~~~~~~a 76 (273)
T cd00395 7 DPTADSLHIGHLIG---LLTFRRFQ-HAG-----HRPIFLIGGQTGIIGDPSGKKSERTLNDP-EEVRQNIRRIAAQYLA 76 (273)
T ss_pred cCCCCCccHHHHHH---HHHHHHHH-HCC-----CCEEEEEecCceeeCCCCCccccccCCCH-HHHHHHHHHHHHHHHH
Confidence 5789 699999776 33444444 468 888776652211 111101111122244 4455557788889999
Q ss_pred cCCc
Q psy2399 99 FYIK 102 (232)
Q Consensus 99 lgI~ 102 (232)
+|++
T Consensus 77 ~g~d 80 (273)
T cd00395 77 VGIF 80 (273)
T ss_pred hcCc
Confidence 9997
No 119
>PF00579 tRNA-synt_1b: tRNA synthetases class I (W and Y); InterPro: IPR002305 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. The class Ia aminoacyl-tRNA synthetases consist of the isoleucyl, methionyl, valyl, leucyl, cysteinyl, and arginyl-tRNA synthetases; the class Ib include the glutamyl and glutaminyl-tRNA synthetases, and the class Ic are the tyrosyl and tryptophanyl-tRNA synthetases [].; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 2JAN_A 3P0J_B 3P0I_B 3P0H_B 1YID_C 2A4M_C 1YIA_C 1YI8_C 2EL7_A 3PRH_A ....
Probab=94.15 E-value=0.092 Score=46.19 Aligned_cols=79 Identities=16% Similarity=0.210 Sum_probs=42.8
Q ss_pred CCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHH
Q psy2399 11 VRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISS 90 (232)
Q Consensus 11 ~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~ 90 (232)
++++.|.++. -|+|.+||||+.... .+.++++ .| .+|.++.|-. |..- ..+.+. ..+.+.....
T Consensus 3 ~~~~~~y~G~-~PTg~lHlG~l~~~~---~~~~lq~-~g-----~~~~i~iaD~-~a~~----~~~~~~-~~~~~~~~~~ 66 (292)
T PF00579_consen 3 NKPFRVYTGI-DPTGDLHLGHLVPIM---KLIWLQK-AG-----FKVIILIADL-HALL----GDPSKG-DERKIRSRAE 66 (292)
T ss_dssp HSSEEEEEEE-ESSSS-BHHHHHHHH---HHHHHHH-TT-----SEEEEEEEHH-HHHH----TTTTGS-SHHHHHHHHH
T ss_pred CCCcEEEEeE-CCCCcccchHHHHHH---HHHHHHh-cC-----CccceEecch-hhcc----cCcccc-cHHHHHHHHH
Confidence 4556666655 688999999887653 3333333 88 8888876532 2211 011111 2333333444
Q ss_pred HHHHH--HhccCCcCCc
Q psy2399 91 NRKKY--LDGFYIKFDN 105 (232)
Q Consensus 91 ~~~~~--l~~lgI~~d~ 105 (232)
.+.+. +-++|++++.
T Consensus 67 ~~~~~~~~la~g~d~~k 83 (292)
T PF00579_consen 67 YNINDKAILALGLDPEK 83 (292)
T ss_dssp HHHHHHHHHHTTSHTTT
T ss_pred HHHHHHHHHHhccCccc
Confidence 44444 6689997753
No 120
>PRK05912 tyrosyl-tRNA synthetase; Validated
Probab=94.09 E-value=0.19 Score=46.61 Aligned_cols=77 Identities=18% Similarity=0.252 Sum_probs=44.0
Q ss_pred CcEEEEcCCCCCCCc-CCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCC------ChhhHHHHHHHHHcCCCHHHH
Q psy2399 12 RRIFVTTALPYANGE-LHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICAD------DAHGAAIMIAAEKAGMTPKEF 84 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~-lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~------D~~G~~i~~~a~~~g~~~~e~ 84 (232)
+++.|.++. -|+|+ |||||+.. -..+.+++ ..| +++.++.|- |..|... ++...+. +.
T Consensus 32 ~~~~vy~G~-dPTg~slHlGhlv~---l~~l~~lQ-~~G-----~~~~~ligd~ta~igDpsgk~~----~r~~l~~-e~ 96 (408)
T PRK05912 32 EPLRIYLGF-DPTAPSLHLGHLVP---LLKLRRFQ-DAG-----HKPIALIGGFTGMIGDPSGKSE----TRKLLTR-EQ 96 (408)
T ss_pred CCCEEEEee-cCCCCCccHHhHHH---HHHHHHHH-HCC-----CcEEEEEcCceeEcCCCCCCch----hhccCCH-HH
Confidence 456666655 78895 99999774 34455554 468 787776543 2333221 2223333 34
Q ss_pred HHHHHHHHHHHHhccCCcCC
Q psy2399 85 INNISSNRKKYLDGFYIKFD 104 (232)
Q Consensus 85 ~~~~~~~~~~~l~~lgI~~d 104 (232)
+.++.+.+++++ +.+++++
T Consensus 97 i~~n~~~i~~ql-~~~ld~~ 115 (408)
T PRK05912 97 VAENAETIKEQL-FKFLDFE 115 (408)
T ss_pred HHHHHHHHHHHH-HHhcCcC
Confidence 445556677766 5566654
No 121
>TIGR00392 ileS isoleucyl-tRNA synthetase. The isoleucyl tRNA synthetase (IleS) is a class I amino acyl-tRNA ligase and is particularly closely related to the valyl tRNA synthetase. This model may recognize IleS from every species, including eukaryotic cytosolic and mitochondrial forms.
Probab=94.00 E-value=0.11 Score=52.60 Aligned_cols=41 Identities=24% Similarity=0.327 Sum_probs=34.2
Q ss_pred CcccCCCCccEEEEccceeEecCChhhHHHHHhhhhcCCCCCCC
Q psy2399 186 PYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHDKRLQPE 229 (232)
Q Consensus 186 ~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~~~~~p~ 229 (232)
|.|..||.+++.+.++|||+++ +++++++.++ ++.-.+.|+
T Consensus 407 p~~~R~~~~v~~~~~~QWFi~~--~~~k~~~l~~-~~~i~~~P~ 447 (861)
T TIGR00392 407 PHCWRTKTPVIYRATEQWFIKT--KDIKDQMLEQ-IKKVNWVPE 447 (861)
T ss_pred CccCCCCCEEEEecCccccEEc--HHHHHHHHHH-hCCcEEECc
Confidence 6788899999999999999999 9999999999 553333344
No 122
>PRK00927 tryptophanyl-tRNA synthetase; Reviewed
Probab=93.62 E-value=0.41 Score=43.18 Aligned_cols=66 Identities=21% Similarity=0.379 Sum_probs=40.6
Q ss_pred CCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhccCC
Q psy2399 22 YANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKKYLDGFYI 101 (232)
Q Consensus 22 ~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~~l~~lgI 101 (232)
-|+|.+||||..+.+.. +.+++. + +++.++. .|.|-.-. ..+++++. .+...+..++.++|+
T Consensus 9 ~PTG~lHLG~~~g~~~~--~~~lQ~--~-----~~~~~~I-aD~ha~t~-------~~~~~~i~-~~~~~~~~~~lA~Gl 70 (333)
T PRK00927 9 QPTGKLHLGNYLGAIKN--WVELQD--E-----YECFFCI-ADLHALTV-------PQDPEELR-ENTRELAADYLACGI 70 (333)
T ss_pred CCCccchHHhHHHHHHH--HHHHHh--c-----CCeEEEE-ecHHHHhC-------CCCHHHHH-HHHHHHHHHHHeEcc
Confidence 67899999998877532 333433 3 4666554 34443321 22555444 445567788889999
Q ss_pred cCCc
Q psy2399 102 KFDN 105 (232)
Q Consensus 102 ~~d~ 105 (232)
+++.
T Consensus 71 Dp~k 74 (333)
T PRK00927 71 DPEK 74 (333)
T ss_pred Chhh
Confidence 8863
No 123
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=93.61 E-value=0.043 Score=30.55 Aligned_cols=20 Identities=35% Similarity=0.868 Sum_probs=11.6
Q ss_pred CCCCCCccccC-CCcCccCCC
Q psy2399 157 ECPICNAKDQY-GDFCECCSS 176 (232)
Q Consensus 157 ~cp~c~~~~~~-g~~Ce~Cg~ 176 (232)
.||.|+..... ..+|..||.
T Consensus 4 ~Cp~Cg~~~~~~~~fC~~CG~ 24 (26)
T PF13248_consen 4 FCPNCGAEIDPDAKFCPNCGA 24 (26)
T ss_pred CCcccCCcCCcccccChhhCC
Confidence 57777765322 345666665
No 124
>PRK13354 tyrosyl-tRNA synthetase; Provisional
Probab=93.56 E-value=0.24 Score=46.01 Aligned_cols=82 Identities=11% Similarity=0.081 Sum_probs=45.7
Q ss_pred CCCcEEEEcCCCCCCC-cCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCCh--hhHHHHHHHHHcCCCHHHHHH
Q psy2399 10 DVRRIFVTTALPYANG-ELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDA--HGAAIMIAAEKAGMTPKEFIN 86 (232)
Q Consensus 10 ~~~~~~v~~~~P~~nG-~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~--~G~~i~~~a~~~g~~~~e~~~ 86 (232)
.++++.|.++. -|+| .|||||+... -.+. ++...| +++.++.|-.+ .|.|.-...++...+.+++.
T Consensus 30 ~~~~~~iy~G~-dPT~~sLHlGhlv~l---~~l~-~lq~~G-----~~~~~ligd~ta~igDpsgk~~~R~~l~~e~i~- 98 (410)
T PRK13354 30 EGKPLTLYLGF-DPTAPSLHIGHLVPL---MKLK-RFQDAG-----HRPVILIGGFTGKIGDPSGKSKERKLLTDEQVQ- 98 (410)
T ss_pred cCCCcEEEEcc-cCCCCCcchhhHHHH---HHHH-HHHHcC-----CeEEEEEcccccccCCCCcccccccCCCHHHHH-
Confidence 34566666665 7888 4999995543 3344 445578 88887775443 33332122222344444444
Q ss_pred HHHHHHHHHHhccCCcC
Q psy2399 87 NISSNRKKYLDGFYIKF 103 (232)
Q Consensus 87 ~~~~~~~~~l~~lgI~~ 103 (232)
++...+.+++.+ ++++
T Consensus 99 ~n~~~i~~q~~~-~ld~ 114 (410)
T PRK13354 99 HNAKTYTEQIFK-LFDF 114 (410)
T ss_pred HHHHHHHHHHHH-hcCc
Confidence 445566665554 4444
No 125
>PRK12556 tryptophanyl-tRNA synthetase; Provisional
Probab=93.05 E-value=0.65 Score=41.94 Aligned_cols=86 Identities=14% Similarity=0.214 Sum_probs=48.3
Q ss_pred CCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhccCC
Q psy2399 22 YANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKKYLDGFYI 101 (232)
Q Consensus 22 ~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~~l~~lgI 101 (232)
-|+|.+||||..+.+.. ..+.+...| .++.+.. .|.|-.- . .-+++++.+ +......++-++|+
T Consensus 11 qPTG~~HLGnylga~k~--~~~lq~~~~-----~~~~~~I-ADlHalt-----~--~~~~~~l~~-~~~~~~~~~lA~Gl 74 (332)
T PRK12556 11 KPTGYPHLGNYIGAIKP--ALQMAKNYE-----GKALYFI-ADYHALN-----A--VHDPEQFRS-YTREVAATWLSLGL 74 (332)
T ss_pred CCCCcchHHHHHHHHHH--HHHHHHhcC-----CeEEEEE-echhhcc-----C--CCCHHHHHH-HHHHHHHHHhheee
Confidence 57799999997765443 222333445 5555543 4544431 0 126666544 44456677889999
Q ss_pred cCCc--cccCC-ChhHHHHHHHHHHH
Q psy2399 102 KFDN--WYSTD-SIENIDLVQKIYDT 124 (232)
Q Consensus 102 ~~d~--~~~t~-~~~~~~~v~~~~~~ 124 (232)
+++. ++.-| -++|.+..+ ++..
T Consensus 75 DP~k~~if~qS~v~~~~eL~~-il~~ 99 (332)
T PRK12556 75 DPEDVIFYRQSDVPEIFELAW-ILSC 99 (332)
T ss_pred cccceEEEECCCchHHHHHHH-HHHc
Confidence 9874 33444 355654333 4443
No 126
>PLN02882 aminoacyl-tRNA ligase
Probab=92.91 E-value=0.097 Score=54.58 Aligned_cols=55 Identities=16% Similarity=0.231 Sum_probs=42.9
Q ss_pred cCCCCCCCccccC--CcccCCCCccEEEEccceeEecCChhhHHHHHhhhhcCCCCCCCC
Q psy2399 173 CCSSIYTPTKLIN--PYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHDKRLQPEI 230 (232)
Q Consensus 173 ~Cg~~~~~~~l~~--~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~~~~~p~~ 230 (232)
.+|..+..+++.. |.|..||.+++.+..++||+++ +++++++.+. .+.-.|.|+.
T Consensus 395 ~~g~L~~~~~~~Hsyp~cwR~~tpli~~a~~qWFi~~--~~~k~~~l~~-~~~i~w~P~~ 451 (1159)
T PLN02882 395 AKGRLVKSGSITHSYPFCWRSDTPLIYRAVPSWFVKV--EEIKDRLLEN-NKQTYWVPDY 451 (1159)
T ss_pred HCCCccceeeeecCCCEeeCCCCEEEEEecceeEEEc--HHHHHHHHHh-hCCcEEECCc
Confidence 3455555555554 9999999999999999999999 9999999997 5444455653
No 127
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=92.85 E-value=0.061 Score=36.00 Aligned_cols=49 Identities=18% Similarity=0.078 Sum_probs=36.0
Q ss_pred eeeccCCCccccc--ceeccCCCCCCccccCCCcCccCCCCCCCccccCCcccCCCCc
Q psy2399 139 QFFDPIKNIFLPD--RYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGTK 194 (232)
Q Consensus 139 ~~~~~~~~~~l~~--~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~ 194 (232)
...|.+++..|++ ..++..||.||+.. -.-|+.|.+.- ..++|+.||..
T Consensus 7 ~~~CtSCg~~i~~~~~~~~F~CPnCG~~~--I~RC~~CRk~~-----~~Y~CP~CGF~ 57 (59)
T PRK14890 7 PPKCTSCGIEIAPREKAVKFLCPNCGEVI--IYRCEKCRKQS-----NPYTCPKCGFE 57 (59)
T ss_pred CccccCCCCcccCCCccCEeeCCCCCCee--EeechhHHhcC-----CceECCCCCCc
Confidence 3468899998884 46999999999861 12388888754 45788888853
No 128
>PRK12283 tryptophanyl-tRNA synthetase; Reviewed
Probab=92.84 E-value=0.51 Score=43.57 Aligned_cols=82 Identities=13% Similarity=0.178 Sum_probs=48.3
Q ss_pred EEcCCCCCCCcCCchHHHhHHHHHHHHHHHHH-cCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q psy2399 16 VTTALPYANGELHIGHIMEYIQADIWVRFQCM-QQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKK 94 (232)
Q Consensus 16 v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~-~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~ 94 (232)
|.++. -|+|.+||||..+.+. .|..+ .+ +++. ++=.|.|-.-+ ...+++++. +....+..
T Consensus 5 v~sGi-qPSG~~HLGnylG~ik-----~wv~lq~~-----~~~~-~~IADlHAlt~------~~~d~~~ir-~~~~~~~a 65 (398)
T PRK12283 5 VLSGM-RPTGRLHLGHYHGVLK-----NWVKLQHE-----YECF-FFVADWHALTT------HYETPEVIE-KNVWDMVI 65 (398)
T ss_pred EEEEe-CCCCcchHHHHHHHHH-----HHHHHhcC-----CcEE-EEeecHHHHhC------CCCCHHHHH-HHHHHHHH
Confidence 34433 6789999999888543 44443 36 6654 33455554321 112565554 44455788
Q ss_pred HHhccCCcCCc--cc-cCCChhHHH
Q psy2399 95 YLDGFYIKFDN--WY-STDSIENID 116 (232)
Q Consensus 95 ~l~~lgI~~d~--~~-~t~~~~~~~ 116 (232)
++.++|++++. ++ .+.-++|.+
T Consensus 66 ~~lA~GlDP~k~~if~QS~v~eh~e 90 (398)
T PRK12283 66 DWLAAGVDPAQATLFIQSKVPEHAE 90 (398)
T ss_pred HHHHcCCCccceEEEECCCchHHHH
Confidence 89999998863 33 344455533
No 129
>PTZ00348 tyrosyl-tRNA synthetase; Provisional
Probab=92.81 E-value=0.55 Score=46.32 Aligned_cols=85 Identities=14% Similarity=0.096 Sum_probs=46.7
Q ss_pred CcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHH
Q psy2399 12 RRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSN 91 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~ 91 (232)
+++.|.++. -|||.+||||. ++.=+-.+-+...| +++.+..+ |-|..- ..+.|.+.+++.. ....
T Consensus 31 ~~~rv~sGi-~PTG~lHLGng---~~~aik~~~~~q~g-----~~~~~lIA-D~HAlt----~~~~~~~l~~i~~-~~~~ 95 (682)
T PTZ00348 31 PLIRCYDGF-EPSGRMHIAQG---IFKAVNVNKCTQAG-----CEFVFWVA-DWFALM----NDKVGGELEKIRI-VGRY 95 (682)
T ss_pred CCCEEEEee-CCCCcCeeccH---HHHHHHHHHHHhCC-----CeEEEEEc-chhhhc----CCCCCCCHHHHHH-HHHH
Confidence 445566654 78899999993 22211111123468 78766542 333221 1233444554433 2345
Q ss_pred HHHHHhccCCcCCc--cccCCC
Q psy2399 92 RKKYLDGFYIKFDN--WYSTDS 111 (232)
Q Consensus 92 ~~~~l~~lgI~~d~--~~~t~~ 111 (232)
+.+.+.++|++++. |+..|+
T Consensus 96 ~~~~~lA~GlDpeK~~~~~qSd 117 (682)
T PTZ00348 96 LIEVWKAAGMDMDKVLFLWSSE 117 (682)
T ss_pred HHHHHHHcCCCccceEEEECcH
Confidence 67788999998873 555443
No 130
>PTZ00419 valyl-tRNA synthetase-like protein; Provisional
Probab=92.25 E-value=0.27 Score=50.62 Aligned_cols=41 Identities=12% Similarity=0.108 Sum_probs=34.6
Q ss_pred CcccCCCCccEEEEccceeEecCChhhHHHHHhhhhcC--CCCCCC
Q psy2399 186 PYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHD--KRLQPE 229 (232)
Q Consensus 186 ~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~--~~~~p~ 229 (232)
|.|..||.+++.+.+++||+++ +.+++++.++ +++ -.+.|+
T Consensus 387 p~~~R~~~~ie~~~~~QWFi~~--~~~~~~al~~-v~~~~i~~~P~ 429 (995)
T PTZ00419 387 PRCSRSGDIVEPMLIPQWYVNC--KDMAKRAVEA-VRNGELKIIPS 429 (995)
T ss_pred CEeCCCCCEEEEEecCeeeEec--HHHHHHHHHH-hhcCCeEEECh
Confidence 6778899999999999999999 9999999999 542 256665
No 131
>cd00805 TyrRS_core catalytic core domain of tyrosinyl-tRNA synthetase. Tyrosinyl-tRNA synthetase (TyrRS) catalytic core domain. TyrRS is a homodimer which attaches Tyr to the appropriate tRNA. TyrRS is a class I tRNA synthetases, so it aminoacylates the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formationof the enzyme bound aminoacyl-adenylate. It contains the class I characteristic HIGH and KMSKS motifs, which are involved in ATP binding.
Probab=92.21 E-value=0.16 Score=44.43 Aligned_cols=71 Identities=20% Similarity=0.198 Sum_probs=42.7
Q ss_pred CCCC-cCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChh--hHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhc
Q psy2399 22 YANG-ELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAH--GAAIMIAAEKAGMTPKEFINNISSNRKKYLDG 98 (232)
Q Consensus 22 ~~nG-~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~--G~~i~~~a~~~g~~~~e~~~~~~~~~~~~l~~ 98 (232)
-|+| .+||||..+. -.+.++++. | +++.++.|-.+. |.+.-...++.+.++++ +.++...+.+++.+
T Consensus 8 ~PTg~~lHLG~~~~~---~~~~~lq~~-g-----~~~~ilI~D~~a~~~~~~~~~~~r~~~~~~~-i~~~~~~~~~~~~a 77 (269)
T cd00805 8 DPTAPSLHLGHLVPL---MKLRDFQQA-G-----HEVIVLIGDATAMIGDPSGKSEERKLLDLEL-IRENAKYYKKQLKA 77 (269)
T ss_pred CCCCCcccHHHHHHH---HHHHHHHHC-C-----CeEEEEECCCeeecCCCCCccccccCCCHHH-HHHHHHHHHHHHHH
Confidence 6789 8999997753 356666664 8 888776654321 11211112223355554 45555667888888
Q ss_pred cCCc
Q psy2399 99 FYIK 102 (232)
Q Consensus 99 lgI~ 102 (232)
+|++
T Consensus 78 ~g~~ 81 (269)
T cd00805 78 ILDF 81 (269)
T ss_pred HHcc
Confidence 8875
No 132
>PRK12282 tryptophanyl-tRNA synthetase II; Reviewed
Probab=91.40 E-value=1.2 Score=40.30 Aligned_cols=67 Identities=12% Similarity=0.110 Sum_probs=40.6
Q ss_pred CCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhccCC
Q psy2399 22 YANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKKYLDGFYI 101 (232)
Q Consensus 22 ~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~~l~~lgI 101 (232)
-|+|.+||||..+.+..- +++...| . +. ++=.|.|..-. ...+++++.+ +......++.++|+
T Consensus 10 ~PTG~~HLGn~l~~~~~~---~~lQ~~~-----~-~~-i~IaD~ha~~~------~~~~~~~i~~-~~~~~~~~~lA~G~ 72 (333)
T PRK12282 10 RPTGKLHLGHYVGSLKNR---VALQNEH-----E-QF-VLIADQQALTD------NAKNPEKIRR-NILEVALDYLAVGI 72 (333)
T ss_pred CCCCcchHHHHHHHHHHH---HHHHhCC-----C-EE-EEEccchhHhC------CCCCHHHHHH-HHHHHHHHHHHhCc
Confidence 567999999987754332 2334456 4 53 33366664321 1345665554 44556677889999
Q ss_pred cCCc
Q psy2399 102 KFDN 105 (232)
Q Consensus 102 ~~d~ 105 (232)
+++.
T Consensus 73 dp~k 76 (333)
T PRK12282 73 DPAK 76 (333)
T ss_pred ChhH
Confidence 8873
No 133
>PTZ00427 isoleucine-tRNA ligase, putative; Provisional
Probab=91.40 E-value=0.45 Score=49.90 Aligned_cols=69 Identities=14% Similarity=0.139 Sum_probs=51.7
Q ss_pred HHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCCcCccCCCCCCCccccCCcccCCCCc
Q psy2399 115 IDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGTK 194 (232)
Q Consensus 115 ~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~ 194 (232)
.+.-..+++.|. ++|++...+.... .-|.|..||.+
T Consensus 487 ~dA~~~Ii~~Lk-~~g~L~~~e~~~H-------------------------------------------~yP~cwR~~tp 522 (1205)
T PTZ00427 487 KEADNVIKKKLK-NENRLLSNNTIVH-------------------------------------------SYPFCWRSDTP 522 (1205)
T ss_pred HHhHHHHHHHHH-hCCCeeeeeeeec-------------------------------------------cCCEeCCCCCE
Confidence 445567888999 9999876543211 23778889999
Q ss_pred cEEEEccceeEecCChhhHHHHHhhhhcCCCCCCCC
Q psy2399 195 PIIKSSKHFFFKLSDKRCIDFLRKWAIHDKRLQPEI 230 (232)
Q Consensus 195 ~~~~~~~~~f~~L~~~~~~~~l~~~~~~~~~~~p~~ 230 (232)
++.+..++||+++ +.+++.+.+. .+.-.|.|+.
T Consensus 523 li~~a~~QWFI~~--~~~k~~~l~~-~~~i~w~P~~ 555 (1205)
T PTZ00427 523 LIYRAIPAWFIRV--SNSTNELVKN-NETTYWIPAH 555 (1205)
T ss_pred EEEEecceeEEeC--cHHHHHHHHc-CCccEEeCch
Confidence 9999999999999 8899988887 4444455653
No 134
>PRK05743 ileS isoleucyl-tRNA synthetase; Reviewed
Probab=91.17 E-value=0.41 Score=48.88 Aligned_cols=34 Identities=15% Similarity=0.247 Sum_probs=30.2
Q ss_pred CcccCCCCccEEEEccceeEecCChh--hHHHHHhhhhc
Q psy2399 186 PYSILSGTKPIIKSSKHFFFKLSDKR--CIDFLRKWAIH 222 (232)
Q Consensus 186 ~~~~~~g~~~~~~~~~~~f~~L~~~~--~~~~l~~~~~~ 222 (232)
|.|..||.+++.+.++|||+++ ++ +++.+.+. ++
T Consensus 396 p~~wR~~~pvi~r~~~QWFi~~--~~~~~k~~~l~~-~~ 431 (912)
T PRK05743 396 PHCWRTKKPVIFRATPQWFISM--DKKGLREQALKA-IE 431 (912)
T ss_pred CeecCCCCEEEEEecCcccEeC--ChHHHHHHHHHH-Hc
Confidence 6788899999999999999999 76 99998888 44
No 135
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=90.98 E-value=0.98 Score=35.42 Aligned_cols=62 Identities=8% Similarity=-0.064 Sum_probs=31.6
Q ss_pred HHHHHHHHHHHHHhccCCc----CCccccCCChhHHHHHHHHHHHHHhhcCCEEec-------ccceeeccCCCc
Q psy2399 84 FINNISSNRKKYLDGFYIK----FDNWYSTDSIENIDLVQKIYDTLYNKAKLIINK-------KINQFFDPIKNI 147 (232)
Q Consensus 84 ~~~~~~~~~~~~l~~lgI~----~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~-------~~~~~~~~~~~~ 147 (232)
++....+.+.+..+.-|.. .-..+...+..+.+..+..|..+. +|-+..+ ....|+|..|+.
T Consensus 6 i~~~i~~~v~~~A~~~g~~~V~~V~l~IG~ls~V~pe~L~fafe~l~--~gt~~ega~L~i~~~p~~~~C~~CG~ 78 (135)
T PRK03824 6 LAEAIVRTVIDYAQKEGASKVKALKVVLGELQDVDKEIVEFALNELL--KGTILEGAEIIFEEEEAVLKCRNCGN 78 (135)
T ss_pred HHHHHHHHHHHHHHHcCCchhHhHHhhHhhhhhhhHHHHHHHHHHHH--cCCcccCCEEEEEecceEEECCCCCC
Confidence 3444444444444444441 112333444467778888888765 4444333 235566555553
No 136
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=90.85 E-value=0.16 Score=52.60 Aligned_cols=37 Identities=19% Similarity=0.363 Sum_probs=29.7
Q ss_pred cCCCCCCccccCCCcCccCCCCCCCccccCCcccCCCCccEE
Q psy2399 156 GECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGTKPII 197 (232)
Q Consensus 156 g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~ 197 (232)
-.||.||.... ...|..||....+ .+.|+.||..+..
T Consensus 668 rkCPkCG~~t~-~~fCP~CGs~te~----vy~CPsCGaev~~ 704 (1337)
T PRK14714 668 RRCPSCGTETY-ENRCPDCGTHTEP----VYVCPDCGAEVPP 704 (1337)
T ss_pred EECCCCCCccc-cccCcccCCcCCC----ceeCccCCCccCC
Confidence 48999999874 4699999998754 3589999997653
No 137
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=90.71 E-value=0.18 Score=49.48 Aligned_cols=37 Identities=19% Similarity=0.353 Sum_probs=26.5
Q ss_pred eeeccCCCcccccceeccCCCCCCccccCC-CcCccCCCCCC
Q psy2399 139 QFFDPIKNIFLPDRYIKGECPICNAKDQYG-DFCECCSSIYT 179 (232)
Q Consensus 139 ~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g-~~Ce~Cg~~~~ 179 (232)
.-||+.|++.|.. ..||.||+..+.+ .+|.+||....
T Consensus 15 akFC~~CG~~l~~----~~Cp~CG~~~~~~~~fC~~CG~~~~ 52 (645)
T PRK14559 15 NRFCQKCGTSLTH----KPCPQCGTEVPVDEAHCPNCGAETG 52 (645)
T ss_pred CccccccCCCCCC----CcCCCCCCCCCcccccccccCCccc
Confidence 3478888887753 4688888876555 66888887654
No 138
>TIGR00395 leuS_arch leucyl-tRNA synthetase, archaeal and cytosolic family. The leucyl-tRNA synthetases belong to two families so broadly different that they are represented by separate models. This model includes both archaeal and cytosolic eukaryotic leucyl-tRNA synthetases; the eubacterial and mitochondrial forms differ so substantially that some other tRNA ligases score higher by this model than does any eubacterial LeuS.
Probab=90.67 E-value=1.2 Score=45.58 Aligned_cols=43 Identities=28% Similarity=0.473 Sum_probs=32.3
Q ss_pred CcccCCCCccEEE-EccceeEecCChhhHHHHHhhhhcCCCCCCC
Q psy2399 186 PYSILSGTKPIIK-SSKHFFFKLSDKRCIDFLRKWAIHDKRLQPE 229 (232)
Q Consensus 186 ~~~~~~g~~~~~~-~~~~~f~~L~~~~~~~~l~~~~~~~~~~~p~ 229 (232)
++|..||.+++++ ..+|||++++++++++++.++ ++.-.+.|+
T Consensus 428 ~v~~R~g~~~vv~~~~~QWFi~~~~~~~k~~~~~~-l~~~~~~P~ 471 (938)
T TIGR00395 428 PVICRCGTDCIVKVVEDQWFVKYSDESWKELAHEC-LEGMRIIPE 471 (938)
T ss_pred CcEecCCCeEEEeccCCCCeEEcCcHHHHHHHHHH-HhcCEEeCH
Confidence 4455789999987 999999999333699999999 554444443
No 139
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=90.04 E-value=0.22 Score=31.48 Aligned_cols=33 Identities=12% Similarity=0.165 Sum_probs=21.9
Q ss_pred CccCCCCCCCcccc-CCcccCCCCccEEEEccce
Q psy2399 171 CECCSSIYTPTKLI-NPYSILSGTKPIIKSSKHF 203 (232)
Q Consensus 171 Ce~Cg~~~~~~~l~-~~~~~~~g~~~~~~~~~~~ 203 (232)
|.+||..++..+.. ..+|+.||++.........
T Consensus 6 C~~CG~~~~~~~~~~~~~Cp~CG~~~~~~~~~~~ 39 (46)
T PRK00398 6 CARCGREVELDEYGTGVRCPYCGYRILFKERPPV 39 (46)
T ss_pred CCCCCCEEEECCCCCceECCCCCCeEEEccCCCc
Confidence 67777766544433 6788889988876555543
No 140
>PF09862 DUF2089: Protein of unknown function (DUF2089); InterPro: IPR018658 This family consists of various hypothetical prokaryotic proteins.
Probab=89.88 E-value=0.29 Score=37.27 Aligned_cols=50 Identities=18% Similarity=0.282 Sum_probs=36.7
Q ss_pred CccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhhhcCC
Q psy2399 171 CECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHDK 224 (232)
Q Consensus 171 Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~~ 224 (232)
|+-||..+..+. ..|..||..++=+=+..||..|+ +.-.+++..|+..++
T Consensus 1 CPvCg~~l~vt~---l~C~~C~t~i~G~F~l~~~~~L~-~E~~~Fi~~Fi~~rG 50 (113)
T PF09862_consen 1 CPVCGGELVVTR---LKCPSCGTEIEGEFELPWFARLS-PEQLEFIKLFIKNRG 50 (113)
T ss_pred CCCCCCceEEEE---EEcCCCCCEEEeeeccchhhcCC-HHHHHHHHHHHHhcC
Confidence 444555444444 47999999998888889999997 578888888855444
No 141
>PRK14559 putative protein serine/threonine phosphatase; Provisional
Probab=89.86 E-value=0.27 Score=48.21 Aligned_cols=50 Identities=14% Similarity=0.173 Sum_probs=32.1
Q ss_pred eccCCCcccccceeccCCCCCCccccCCCcCccCCCCCCCccccCCcccCCCCccE
Q psy2399 141 FDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGTKPI 196 (232)
Q Consensus 141 ~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~ 196 (232)
.||.|+...++.- ..|+.||.+-.. ..|.+||..+.+. ...|..||.++.
T Consensus 3 ~Cp~Cg~~n~~~a--kFC~~CG~~l~~-~~Cp~CG~~~~~~---~~fC~~CG~~~~ 52 (645)
T PRK14559 3 ICPQCQFENPNNN--RFCQKCGTSLTH-KPCPQCGTEVPVD---EAHCPNCGAETG 52 (645)
T ss_pred cCCCCCCcCCCCC--ccccccCCCCCC-CcCCCCCCCCCcc---cccccccCCccc
Confidence 4677777665442 368888776432 3588888776554 346888887653
No 142
>PF12773 DZR: Double zinc ribbon
Probab=89.40 E-value=0.27 Score=31.41 Aligned_cols=37 Identities=24% Similarity=0.466 Sum_probs=18.9
Q ss_pred cCCCcccccceeccCCCCCCcccc----CCCcCccCCCCCCCc
Q psy2399 143 PIKNIFLPDRYIKGECPICNAKDQ----YGDFCECCSSIYTPT 181 (232)
Q Consensus 143 ~~~~~~l~~~~v~g~cp~c~~~~~----~g~~Ce~Cg~~~~~~ 181 (232)
+.+++.+++. .-.||.||.+-. ...+|..||..+.+.
T Consensus 2 p~Cg~~~~~~--~~fC~~CG~~l~~~~~~~~~C~~Cg~~~~~~ 42 (50)
T PF12773_consen 2 PHCGTPNPDD--AKFCPHCGTPLPPPDQSKKICPNCGAENPPN 42 (50)
T ss_pred CCcCCcCCcc--ccCChhhcCChhhccCCCCCCcCCcCCCcCC
Confidence 3444444433 335666666544 123577777765443
No 143
>PF00133 tRNA-synt_1: tRNA synthetases class I (I, L, M and V); InterPro: IPR002300 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. The class Ia aminoacyl-tRNA synthetases consist of the isoleucyl, methionyl, valyl, leucyl, cysteinyl, and arginyl-tRNA synthetases; the class Ib include the glutamyl and glutaminyl-tRNA synthetases, and the class Ic are the tyrosyl and tryptophanyl-tRNA synthetases [].; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 1OBC_A 2AJH_B 4ARI_A 2AJG_B 4AQ7_D 2AJI_B 4ARC_A 4AS1_A 1QU3_A 1QU2_A ....
Probab=89.29 E-value=1.2 Score=43.45 Aligned_cols=69 Identities=19% Similarity=0.221 Sum_probs=51.5
Q ss_pred HHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCCcCccCCCCCCCccccCCcccCCCC
Q psy2399 114 NIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGT 193 (232)
Q Consensus 114 ~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~ 193 (232)
..+.-..+++.|. ++|++....... -.-|.|..||.
T Consensus 333 v~~ar~~ii~~L~-~~g~l~~~~~~~-------------------------------------------~~~p~c~R~~~ 368 (601)
T PF00133_consen 333 VFEAREKIIEDLK-EKGLLLKIEEIE-------------------------------------------HSYPHCWRSGT 368 (601)
T ss_dssp HHHHHHHHHHHHH-HTTSEEEEEEEE-------------------------------------------EEEEEETTTSC
T ss_pred eeeccHHHHHHHH-Hhhhhccccccc-------------------------------------------cccceecCCCC
Confidence 3566778899999 999986533211 01256778999
Q ss_pred ccEEEEccceeEecCChhhHHHHHhhhhcCCCCCCC
Q psy2399 194 KPIIKSSKHFFFKLSDKRCIDFLRKWAIHDKRLQPE 229 (232)
Q Consensus 194 ~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~~~~~p~ 229 (232)
+++.+..+|||+++ +.+++.+.+. ++.-.+.|+
T Consensus 369 ~ii~~~~~QWFi~~--~~~k~~~l~~-~~~i~~~P~ 401 (601)
T PF00133_consen 369 PIIPRLTDQWFIKY--DDWKKKALEA-LEKIKFYPE 401 (601)
T ss_dssp BEEEEEEEEEEEEH--HHHHHHHHHH-HHTSEESSS
T ss_pred EEEecccceeEEec--HHhHHHHHhh-cccceEEcc
Confidence 99999999999999 9999999999 554444454
No 144
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=88.45 E-value=0.4 Score=26.73 Aligned_cols=21 Identities=33% Similarity=0.790 Sum_probs=10.9
Q ss_pred CCCCCCccccCC-CcCccCCCC
Q psy2399 157 ECPICNAKDQYG-DFCECCSSI 177 (232)
Q Consensus 157 ~cp~c~~~~~~g-~~Ce~Cg~~ 177 (232)
.||.|++.-... ..|+.||..
T Consensus 2 ~CP~C~~~V~~~~~~Cp~CG~~ 23 (26)
T PF10571_consen 2 TCPECGAEVPESAKFCPHCGYD 23 (26)
T ss_pred cCCCCcCCchhhcCcCCCCCCC
Confidence 467666654332 335555543
No 145
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=88.45 E-value=0.24 Score=30.85 Aligned_cols=25 Identities=28% Similarity=0.902 Sum_probs=13.0
Q ss_pred CCCCCCccc-----cCCC-cCccCCCCCCCc
Q psy2399 157 ECPICNAKD-----QYGD-FCECCSSIYTPT 181 (232)
Q Consensus 157 ~cp~c~~~~-----~~g~-~Ce~Cg~~~~~~ 181 (232)
.||.|++.. ..|. .|..||.++...
T Consensus 2 ~Cp~Cg~~~~~~D~~~g~~vC~~CG~Vl~e~ 32 (43)
T PF08271_consen 2 KCPNCGSKEIVFDPERGELVCPNCGLVLEEN 32 (43)
T ss_dssp SBTTTSSSEEEEETTTTEEEETTT-BBEE-T
T ss_pred CCcCCcCCceEEcCCCCeEECCCCCCEeecc
Confidence 578887753 1232 466666655443
No 146
>TIGR00234 tyrS tyrosyl-tRNA synthetase. This tyrosyl-tRNA synthetase model starts picking up tryptophanyl-tRNA synthetases at scores of 0 and below. The proteins found by this model have a deep split between two groups. One group contains bacterial and organellar eukaryotic examples. The other contains archaeal and cytosolic eukaryotic examples.
Probab=88.41 E-value=1.2 Score=40.99 Aligned_cols=40 Identities=20% Similarity=0.317 Sum_probs=26.3
Q ss_pred cEEEEcCCCCCCC-cCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecC
Q psy2399 13 RIFVTTALPYANG-ELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICA 62 (232)
Q Consensus 13 ~~~v~~~~P~~nG-~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g 62 (232)
++.+.++. -|+| .|||||+.+ .-.+.+++ ..| +++.++.|
T Consensus 30 ~~~vy~G~-dPTg~~lHlGh~v~---l~~l~~lq-~~G-----~~~~ilig 70 (377)
T TIGR00234 30 KIKLYVGF-DPTAPSLHLGHLVP---LLKLRDFQ-QAG-----HEVIVLLG 70 (377)
T ss_pred CCEEEEee-CCCCCCccHHHHHH---HHHHHHHH-HCC-----CcEEEEEe
Confidence 44555544 7889 899999764 33345554 478 88877654
No 147
>PF01783 Ribosomal_L32p: Ribosomal L32p protein family; InterPro: IPR002677 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. Ribosomal protein L32p is part of the 50S ribosomal subunit. This family is found in both prokaryotes and eukaryotes. Ribosomal protein L32 of yeast binds to and regulates the splicing and the translation of the transcript of its own gene [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015934 large ribosomal subunit; PDB: 3PYT_2 3F1F_5 3PYV_2 3D5B_5 3MRZ_2 3D5D_5 3F1H_5 1VSP_Y 3PYR_2 3MS1_2 ....
Probab=87.87 E-value=0.49 Score=31.35 Aligned_cols=27 Identities=22% Similarity=0.635 Sum_probs=20.3
Q ss_pred cCCCCCCccccCCCcCccCCCCCCCccc
Q psy2399 156 GECPICNAKDQYGDFCECCSSIYTPTKL 183 (232)
Q Consensus 156 g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l 183 (232)
..||.||+....--.|.+|| +|...++
T Consensus 27 ~~c~~cg~~~~~H~vc~~cG-~y~~r~v 53 (56)
T PF01783_consen 27 VKCPNCGEPKLPHRVCPSCG-YYKGRQV 53 (56)
T ss_dssp EESSSSSSEESTTSBCTTTB-BSSSSSS
T ss_pred eeeccCCCEecccEeeCCCC-eECCEEE
Confidence 46999999888888899998 4444443
No 148
>PF05191 ADK_lid: Adenylate kinase, active site lid; InterPro: IPR007862 Adenylate kinases (ADK; 2.7.4.3 from EC) are phosphotransferases that catalyse the Mg-dependent reversible conversion of ATP and AMP to two molecules of ADP, an essential reaction for many processes in living cells. In large variants of adenylate kinase, the AMP and ATP substrates are buried in a domain that undergoes conformational changes from an open to a closed state when bound to substrate; the ligand is then contained within a highly specific environment required for catalysis. Adenylate kinase is a 3-domain protein consisting of a large central CORE domain flanked by a LID domain on one side and the AMP-binding NMPbind domain on the other []. The LID domain binds ATP and covers the phosphates at the active site. The substrates first bind the CORE domain, followed by closure of the active site by the LID and NMPbind domains. Comparisons of adenylate kinases have revealed a particular divergence in the active site lid. In some organisms, particularly the Gram-positive bacteria, residues in the lid domain have been mutated to cysteines and these cysteine residues (two CX(n)C motifs) are responsible for the binding of a zinc ion. The bound zinc ion in the lid domain is clearly structurally homologous to Zinc-finger domains. However, it is unclear whether the adenylate kinase lid is a novel zinc-finger DNA/RNA binding domain, or that the lid bound zinc serves a purely structural function [].; GO: 0004017 adenylate kinase activity; PDB: 3BE4_A 2OSB_B 2ORI_A 2EU8_A 3DL0_A 1P3J_A 2QAJ_A 2OO7_A 2P3S_A 3DKV_A ....
Probab=87.40 E-value=0.19 Score=30.31 Aligned_cols=29 Identities=17% Similarity=0.346 Sum_probs=19.9
Q ss_pred cCccCCCCCCCc---cccCCcccCCCCccEEE
Q psy2399 170 FCECCSSIYTPT---KLINPYSILSGTKPIIK 198 (232)
Q Consensus 170 ~Ce~Cg~~~~~~---~l~~~~~~~~g~~~~~~ 198 (232)
.|+.||++|... -..+.+|..||.++..|
T Consensus 3 ~C~~Cg~~Yh~~~~pP~~~~~Cd~cg~~L~qR 34 (36)
T PF05191_consen 3 ICPKCGRIYHIEFNPPKVEGVCDNCGGELVQR 34 (36)
T ss_dssp EETTTTEEEETTTB--SSTTBCTTTTEBEBEE
T ss_pred CcCCCCCccccccCCCCCCCccCCCCCeeEeC
Confidence 377888776432 34678999999876655
No 149
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=87.18 E-value=0.59 Score=29.46 Aligned_cols=33 Identities=12% Similarity=0.081 Sum_probs=25.6
Q ss_pred cCccCCCCCCCccccCCcccCCCCccEEEEccc
Q psy2399 170 FCECCSSIYTPTKLINPYSILSGTKPIIKSSKH 202 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~ 202 (232)
.|.+||..++....-.-+|+.||+.+..++.+.
T Consensus 4 ~C~~Cg~~~~~~~~~~irC~~CG~rIlyK~R~~ 36 (44)
T smart00659 4 ICGECGRENEIKSKDVVRCRECGYRILYKKRTK 36 (44)
T ss_pred ECCCCCCEeecCCCCceECCCCCceEEEEeCCC
Confidence 488888877766555679999999998776655
No 150
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=87.01 E-value=0.34 Score=32.46 Aligned_cols=48 Identities=15% Similarity=0.119 Sum_probs=33.7
Q ss_pred eeeccCCCccc--ccceeccCCCCCCccccCCCcCccCCCCCCCccccCCcccCCCC
Q psy2399 139 QFFDPIKNIFL--PDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGT 193 (232)
Q Consensus 139 ~~~~~~~~~~l--~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~ 193 (232)
...|.+++..| -+..|+..||.||... -.-|..|-+.-. .++|+-||.
T Consensus 9 ~~~CtSCg~~i~p~e~~v~F~CPnCGe~~--I~Rc~~CRk~g~-----~Y~Cp~CGF 58 (61)
T COG2888 9 PPVCTSCGREIAPGETAVKFPCPNCGEVE--IYRCAKCRKLGN-----PYRCPKCGF 58 (61)
T ss_pred CceeccCCCEeccCCceeEeeCCCCCcee--eehhhhHHHcCC-----ceECCCcCc
Confidence 45788899887 4578999999999543 234777766543 367777774
No 151
>COG0060 IleS Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=86.87 E-value=1.3 Score=45.27 Aligned_cols=41 Identities=20% Similarity=0.260 Sum_probs=33.1
Q ss_pred CCcccCCCCccEEEEccceeEecCChhhHHHHHhhhhcCCCCCC
Q psy2399 185 NPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHDKRLQP 228 (232)
Q Consensus 185 ~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~~~~~p 228 (232)
-|.|..|+.|+..|.+++||..+ +.+++++.+- ++.-.+.|
T Consensus 400 YPhcWR~ktPlIyRAt~QWFi~v--~~~r~~~l~~-i~~v~w~P 440 (933)
T COG0060 400 YPHCWRTKTPLIYRATPQWFVSV--DKLRDKMLKE-INKVNWVP 440 (933)
T ss_pred CCcccCCCCeeEEeecchheeEH--HHHHHHHHHH-HhcceEEC
Confidence 37789999999999999999999 9999999955 33333444
No 152
>KOG2713|consensus
Probab=86.86 E-value=4.8 Score=35.70 Aligned_cols=88 Identities=17% Similarity=0.206 Sum_probs=52.2
Q ss_pred EEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q psy2399 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKK 94 (232)
Q Consensus 15 ~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~ 94 (232)
.|.+++ -|+|.+|||+..+.+-..+--.-....| -.|.|. -.|.|-.. ..-+|.++... .-....
T Consensus 15 rvfSGI-QPTG~~HLGNYLGai~~Wv~LQ~~~d~~-----~~~~f~-vvDlHaIT-------vp~dp~~lrq~-~~dm~A 79 (347)
T KOG2713|consen 15 RVFSGI-QPTGIPHLGNYLGAIKPWVQLQNEYDKN-----ILVLFS-VVDLHAIT-------VPQDPAELRQA-THDMAA 79 (347)
T ss_pred eeEecc-CCCCCchhhhhhhhhhHHHHHHHHhcCC-----ceEEEE-Eeeceeec-------CCCChHHHHHH-HHHHHH
Confidence 344444 6789999999999877666554444555 444443 34555432 45566654444 444456
Q ss_pred HHhccCCcCCc---cccCCChhHHHH
Q psy2399 95 YLDGFYIKFDN---WYSTDSIENIDL 117 (232)
Q Consensus 95 ~l~~lgI~~d~---~~~t~~~~~~~~ 117 (232)
.|-+.||++.. |....-++|.+.
T Consensus 80 ~lLAcGIdp~Ks~lF~QS~Vpqh~el 105 (347)
T KOG2713|consen 80 SLLACGIDPEKSSLFVQSDVPQHAEL 105 (347)
T ss_pred HHHHhccCcccceeeeeccchHHHHH
Confidence 67789998764 444444555443
No 153
>PRK05978 hypothetical protein; Provisional
Probab=86.11 E-value=0.49 Score=37.75 Aligned_cols=14 Identities=29% Similarity=0.826 Sum_probs=10.4
Q ss_pred eeccCCCCCCcccc
Q psy2399 153 YIKGECPICNAKDQ 166 (232)
Q Consensus 153 ~v~g~cp~c~~~~~ 166 (232)
-..|+||.|++..-
T Consensus 31 Gl~grCP~CG~G~L 44 (148)
T PRK05978 31 GFRGRCPACGEGKL 44 (148)
T ss_pred HHcCcCCCCCCCcc
Confidence 34679999988654
No 154
>PLN02843 isoleucyl-tRNA synthetase
Probab=85.91 E-value=1.5 Score=45.18 Aligned_cols=42 Identities=14% Similarity=0.267 Sum_probs=34.7
Q ss_pred CCcccCCCCccEEEEccceeEecCChhhHHHHHhhhhcCCCCCCC
Q psy2399 185 NPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHDKRLQPE 229 (232)
Q Consensus 185 ~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~~~~~p~ 229 (232)
-|.|..|+.+++.|..++||+++ +.+++.+.+. ++.-.+.|+
T Consensus 412 yp~cwR~~~pvi~r~t~QWFi~~--~~~k~~al~~-~~~v~~~P~ 453 (974)
T PLN02843 412 YPYDWRTKKPTIFRATEQWFASV--EGFRQAALDA-IDKVKWIPA 453 (974)
T ss_pred CCccCCCCCeEEEEecCceeEeC--HHHHHHHHHH-HhccEEECh
Confidence 37888999999999999999999 9999999998 554444444
No 155
>COG0162 TyrS Tyrosyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=85.73 E-value=1.2 Score=41.32 Aligned_cols=33 Identities=18% Similarity=0.227 Sum_probs=23.2
Q ss_pred CCCC-cCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCC
Q psy2399 22 YANG-ELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICAD 63 (232)
Q Consensus 22 ~~nG-~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~ 63 (232)
=|+| .|||||+-.. -.++| +...| ++|.++.|-
T Consensus 40 DPTa~slHlGhlv~l---~kL~~-fQ~aG-----h~~ivLigd 73 (401)
T COG0162 40 DPTAPSLHLGHLVPL---MKLRR-FQDAG-----HKPIVLIGD 73 (401)
T ss_pred CCCCCccchhhHHHH---HHHHH-HHHCC-----CeEEEEecc
Confidence 5778 8999998753 33444 46678 898877654
No 156
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=85.26 E-value=0.65 Score=27.23 Aligned_cols=25 Identities=20% Similarity=0.401 Sum_probs=18.8
Q ss_pred cCccCCCCCCCccccCCcccCCCCcc
Q psy2399 170 FCECCSSIYTPTKLINPYSILSGTKP 195 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~~~~~~~~g~~~ 195 (232)
+|..||-++++.+ .+.+|+.||.+-
T Consensus 3 ~C~~CGy~y~~~~-~~~~CP~Cg~~~ 27 (33)
T cd00350 3 VCPVCGYIYDGEE-APWVCPVCGAPK 27 (33)
T ss_pred ECCCCCCEECCCc-CCCcCcCCCCcH
Confidence 4888888887654 567999998753
No 157
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=84.49 E-value=0.85 Score=37.49 Aligned_cols=47 Identities=17% Similarity=0.134 Sum_probs=26.3
Q ss_pred CccCCCCCCCcccc--CCcccCCCCccEEEEccceeEecCChhhHHHHHhh
Q psy2399 171 CECCSSIYTPTKLI--NPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKW 219 (232)
Q Consensus 171 Ce~Cg~~~~~~~l~--~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~ 219 (232)
|++|+.-++..+.. +-.|+.||+.++........=.| .+-.+.|.+.
T Consensus 120 Cp~C~~rytf~eA~~~~F~Cp~Cg~~L~~~dn~~~~~~l--~~~I~~l~~~ 168 (178)
T PRK06266 120 CPNCHIRFTFDEAMEYGFRCPQCGEMLEEYDNSELIKEL--KEQIKELEEE 168 (178)
T ss_pred CCCCCcEEeHHHHhhcCCcCCCCCCCCeecccHHHHHHH--HHHHHHHHHH
Confidence 66666666544442 46888888888764444433334 3344444444
No 158
>PRK13804 ileS isoleucyl-tRNA synthetase; Provisional
Probab=84.40 E-value=1.7 Score=44.77 Aligned_cols=41 Identities=20% Similarity=0.279 Sum_probs=32.3
Q ss_pred CCcccCCCCccEEEEccceeEecCChh-------hHHHHHhhhhcCCCCCC
Q psy2399 185 NPYSILSGTKPIIKSSKHFFFKLSDKR-------CIDFLRKWAIHDKRLQP 228 (232)
Q Consensus 185 ~~~~~~~g~~~~~~~~~~~f~~L~~~~-------~~~~l~~~~~~~~~~~p 228 (232)
-|.|..||.+++.+..+|||+++ +. +++.+.+. ++.-.+.|
T Consensus 426 yp~~wR~~~pii~r~t~QWFi~~--~~~~~~~~~~k~~al~~-i~~v~~~P 473 (961)
T PRK13804 426 YPHSWRSKKPVIFRNTPQWFISM--DKDLGDGTTLRSRALDA-IDKTRFVP 473 (961)
T ss_pred CCccCCCCCeEEEeccccccEEc--CCcccchHHHHHHHHHH-HhccEEEC
Confidence 36788899999999999999999 66 88888887 44333444
No 159
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=84.37 E-value=0.73 Score=25.23 Aligned_cols=20 Identities=15% Similarity=0.218 Sum_probs=7.7
Q ss_pred cCCCCCCCcc-ccCCcccCCC
Q psy2399 173 CCSSIYTPTK-LINPYSILSG 192 (232)
Q Consensus 173 ~Cg~~~~~~~-l~~~~~~~~g 192 (232)
.||..+.+.+ -....|+-||
T Consensus 3 sC~~~i~~r~~~v~f~CPnCG 23 (24)
T PF07754_consen 3 SCGRPIAPREQAVPFPCPNCG 23 (24)
T ss_pred cCCCcccCcccCceEeCCCCC
Confidence 3444444333 2333444443
No 160
>PRK00423 tfb transcription initiation factor IIB; Reviewed
Probab=83.99 E-value=0.61 Score=41.60 Aligned_cols=33 Identities=21% Similarity=0.443 Sum_probs=21.7
Q ss_pred ccceeccCCCCCCccc-----cCC-CcCccCCCCCCCcc
Q psy2399 150 PDRYIKGECPICNAKD-----QYG-DFCECCSSIYTPTK 182 (232)
Q Consensus 150 ~~~~v~g~cp~c~~~~-----~~g-~~Ce~Cg~~~~~~~ 182 (232)
.+..-...||.|+... ..| -.|.+||.++...-
T Consensus 6 ~~~~~~~~Cp~Cg~~~iv~d~~~Ge~vC~~CG~Vl~e~~ 44 (310)
T PRK00423 6 LEEEEKLVCPECGSDKLIYDYERGEIVCADCGLVIEENI 44 (310)
T ss_pred hhcccCCcCcCCCCCCeeEECCCCeEeecccCCcccccc
Confidence 4445556799998722 234 45999999887543
No 161
>COG5349 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=83.68 E-value=0.51 Score=36.23 Aligned_cols=28 Identities=32% Similarity=0.784 Sum_probs=18.0
Q ss_pred ceeccCCCCCCccccC------CCcCccCCCCCC
Q psy2399 152 RYIKGECPICNAKDQY------GDFCECCSSIYT 179 (232)
Q Consensus 152 ~~v~g~cp~c~~~~~~------g~~Ce~Cg~~~~ 179 (232)
+-..|+||.||+..-+ .+-|+.||.-+.
T Consensus 18 ~Gl~grCP~CGeGrLF~gFLK~~p~C~aCG~dyg 51 (126)
T COG5349 18 RGLRGRCPRCGEGRLFRGFLKVVPACEACGLDYG 51 (126)
T ss_pred HHhcCCCCCCCCchhhhhhcccCchhhhcccccc
Confidence 3467899999875422 245777776554
No 162
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=83.21 E-value=0.36 Score=48.16 Aligned_cols=51 Identities=14% Similarity=0.141 Sum_probs=0.0
Q ss_pred ceeeccCCCcccccceeccCCCCCCccccCCCcCccCCCCCCCccccCCcccCCCCccEE
Q psy2399 138 NQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGTKPII 197 (232)
Q Consensus 138 ~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~ 197 (232)
....|++|+..- ..-+||.||....--..|..||....+ ..|+.||..+.-
T Consensus 654 ~~r~Cp~Cg~~t----~~~~Cp~CG~~T~~~~~Cp~C~~~~~~-----~~C~~C~~~~~~ 704 (900)
T PF03833_consen 654 GRRRCPKCGKET----FYNRCPECGSHTEPVYVCPDCGIEVEE-----DECPKCGRETTS 704 (900)
T ss_dssp ------------------------------------------------------------
T ss_pred ecccCcccCCcc----hhhcCcccCCccccceeccccccccCc-----cccccccccCcc
Confidence 334556665542 233566666665555556666664433 377777766543
No 163
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=82.90 E-value=7.7 Score=29.42 Aligned_cols=79 Identities=8% Similarity=0.073 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHHhccCCc-CC---ccccCCChhHHHHHHHHHHHHHhhcCC------EEecccceeeccCCCcccccce
Q psy2399 84 FINNISSNRKKYLDGFYIK-FD---NWYSTDSIENIDLVQKIYDTLYNKAKL------IINKKINQFFDPIKNIFLPDRY 153 (232)
Q Consensus 84 ~~~~~~~~~~~~l~~lgI~-~d---~~~~t~~~~~~~~v~~~~~~L~~~kG~------iy~~~~~~~~~~~~~~~l~~~~ 153 (232)
++..+.+...+..++-|.. .. .-+...+---.+..+..|..+. +... .........+|..|+...+...
T Consensus 6 i~~~iv~~v~~~a~~~~~~~V~~V~l~iG~ls~V~p~~L~f~f~~~~-~~t~~egA~L~i~~~p~~~~C~~Cg~~~~~~~ 84 (114)
T PRK03681 6 LCQRALELIEQQAAKHGAKRVTGVWLKIGAFSCVETSSLAFCFDLVC-RGTVAEGCKLHLEEQEAECWCETCQQYVTLLT 84 (114)
T ss_pred HHHHHHHHHHHHHHHcCCCeEEEEEEEEcCccccCHHHHHHHHHHHh-CCCccCCCEEEEEeeCcEEEcccCCCeeecCC
Confidence 4455555555555555542 11 2223333234455666666655 3222 2233345566666665443322
Q ss_pred ec-cCCCCCCc
Q psy2399 154 IK-GECPICNA 163 (232)
Q Consensus 154 v~-g~cp~c~~ 163 (232)
.. ..||.||+
T Consensus 85 ~~~~~CP~Cgs 95 (114)
T PRK03681 85 QRVRRCPQCHG 95 (114)
T ss_pred ccCCcCcCcCC
Confidence 21 33555544
No 164
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=82.55 E-value=0.88 Score=29.36 Aligned_cols=34 Identities=12% Similarity=0.185 Sum_probs=25.2
Q ss_pred CcCccCCCCCC-CccccCCcccCCCCccEEEEccc
Q psy2399 169 DFCECCSSIYT-PTKLINPYSILSGTKPIIKSSKH 202 (232)
Q Consensus 169 ~~Ce~Cg~~~~-~~~l~~~~~~~~g~~~~~~~~~~ 202 (232)
..|-.||+.++ ......-+|+.||+.+.+++...
T Consensus 7 Y~C~~Cg~~~~~~~~~~~irCp~Cg~rIl~K~R~~ 41 (49)
T COG1996 7 YKCARCGREVELDQETRGIRCPYCGSRILVKERPK 41 (49)
T ss_pred EEhhhcCCeeehhhccCceeCCCCCcEEEEeccCC
Confidence 34889998886 33555679999999888766554
No 165
>TIGR00100 hypA hydrogenase nickel insertion protein HypA. In Hpylori, hypA mutant abolished hydrogenase activity and decrease in urease activity. Nickel supplementation in media restored urease activity and partial hydrogenase activity. HypA probably involved in inserting Ni in enzymes.
Probab=81.61 E-value=9 Score=29.05 Aligned_cols=43 Identities=9% Similarity=-0.035 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHhccCCc----CCccccCCChhHHHHHHHHHHHHH
Q psy2399 84 FINNISSNRKKYLDGFYIK----FDNWYSTDSIENIDLVQKIYDTLY 126 (232)
Q Consensus 84 ~~~~~~~~~~~~l~~lgI~----~d~~~~t~~~~~~~~v~~~~~~L~ 126 (232)
++....+...+..+.-|.. ...-+...+---.+..+..|..+.
T Consensus 6 ia~~iv~~v~~~a~~~~~~~V~~V~l~iG~ls~V~p~~L~faf~~~~ 52 (115)
T TIGR00100 6 LAEAMLEIVEEQAEKHQAKKVTRVTLEIGELSCVNPSQLQFAFEVVR 52 (115)
T ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEEEEccccccCHHHHHHHHHHHh
Confidence 3444555555555555542 112223333334556666776665
No 166
>TIGR01206 lysW lysine biosynthesis protein LysW. This very small, poorly characterized protein has been shown essential in Thermus thermophilus for an unusual pathway of Lys biosynthesis from aspartate by way of alpha-aminoadipate (AAA) rather than diaminopimelate. It is found also in Deinococcus radiodurans and Pyrococcus horikoshii, which appear to share the AAA pathway.
Probab=81.35 E-value=0.92 Score=29.92 Aligned_cols=20 Identities=10% Similarity=-0.011 Sum_probs=16.2
Q ss_pred cccCCCCccEEEEccceeEe
Q psy2399 187 YSILSGTKPIIKSSKHFFFK 206 (232)
Q Consensus 187 ~~~~~g~~~~~~~~~~~f~~ 206 (232)
.|..||...++++....-|+
T Consensus 24 ~Cp~CGaeleVv~~~p~~L~ 43 (54)
T TIGR01206 24 ICDECGAELEVVSLDPLRLE 43 (54)
T ss_pred eCCCCCCEEEEEeCCCCEEE
Confidence 79999999999988884333
No 167
>PF03604 DNA_RNApol_7kD: DNA directed RNA polymerase, 7 kDa subunit; InterPro: IPR006591 DNA-dependent RNA polymerase catalyzes the transcription of DNA into RNA using the four ribonucleoside triphosphates as substrates. Each class of RNA polymerase is assembled from 9 to 15 different polypeptides. Rbp10 (RNA polymerase CX) is a domain found in RNA polymerase subunit 10; present in RNA polymerase I, II and III.; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 2PMZ_Z 3HKZ_X 2NVX_L 3S1Q_L 2JA6_L 3S17_L 3HOW_L 3HOV_L 3PO2_L 3HOZ_L ....
Probab=80.98 E-value=1.5 Score=25.72 Aligned_cols=30 Identities=13% Similarity=0.092 Sum_probs=18.1
Q ss_pred cCccCCCCCCCccccCCcccCCCCccEEEE
Q psy2399 170 FCECCSSIYTPTKLINPYSILSGTKPIIKS 199 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~ 199 (232)
.|-+||...+-...-.-+|..||+.+..++
T Consensus 2 ~C~~Cg~~~~~~~~~~irC~~CG~RIlyK~ 31 (32)
T PF03604_consen 2 ICGECGAEVELKPGDPIRCPECGHRILYKK 31 (32)
T ss_dssp BESSSSSSE-BSTSSTSSBSSSS-SEEBE-
T ss_pred CCCcCCCeeEcCCCCcEECCcCCCeEEEec
Confidence 367777776644444458999998876543
No 168
>PRK12496 hypothetical protein; Provisional
Probab=80.66 E-value=0.93 Score=36.75 Aligned_cols=29 Identities=17% Similarity=0.309 Sum_probs=17.2
Q ss_pred cCccCCCCCCCccccCCcccCCCCccEEEE
Q psy2399 170 FCECCSSIYTPTKLINPYSILSGTKPIIKS 199 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~ 199 (232)
.|.+||+.+.... ....|+.||+++..+.
T Consensus 129 ~C~gC~~~~~~~~-~~~~C~~CG~~~~r~~ 157 (164)
T PRK12496 129 VCKGCKKKYPEDY-PDDVCEICGSPVKRKM 157 (164)
T ss_pred ECCCCCccccCCC-CCCcCCCCCChhhhcc
Confidence 3777777664321 2236888887775443
No 169
>PRK12300 leuS leucyl-tRNA synthetase; Reviewed
Probab=80.57 E-value=4 Score=41.74 Aligned_cols=36 Identities=22% Similarity=0.384 Sum_probs=27.5
Q ss_pred CcccCCCCccEEEE-ccceeEecCChhhHHHHHhhhhc
Q psy2399 186 PYSILSGTKPIIKS-SKHFFFKLSDKRCIDFLRKWAIH 222 (232)
Q Consensus 186 ~~~~~~g~~~~~~~-~~~~f~~L~~~~~~~~l~~~~~~ 222 (232)
|.|..||.+++.+. .+|||++++++++++.+.++ ++
T Consensus 381 ~~~~R~~~~~i~~~~~~QWFi~~~~~~~k~~~~~~-~~ 417 (897)
T PRK12300 381 PVYCRCGTECVVKVVKDQWFIDYSDPEWKELAHKA-LD 417 (897)
T ss_pred CcCcCCCCEEEEEecCCceEEEcCcHHHHHHHHHH-Hc
Confidence 44557999999876 49999999433788888888 44
No 170
>PRK00420 hypothetical protein; Validated
Probab=80.43 E-value=1 Score=34.21 Aligned_cols=24 Identities=21% Similarity=0.545 Sum_probs=12.5
Q ss_pred cCCCCCCccccC----CCcCccCCCCCC
Q psy2399 156 GECPICNAKDQY----GDFCECCSSIYT 179 (232)
Q Consensus 156 g~cp~c~~~~~~----g~~Ce~Cg~~~~ 179 (232)
.+||.||.+-.. -.+|+.||..+.
T Consensus 24 ~~CP~Cg~pLf~lk~g~~~Cp~Cg~~~~ 51 (112)
T PRK00420 24 KHCPVCGLPLFELKDGEVVCPVHGKVYI 51 (112)
T ss_pred CCCCCCCCcceecCCCceECCCCCCeee
Confidence 456666654321 134666666544
No 171
>PF03833 PolC_DP2: DNA polymerase II large subunit DP2; InterPro: IPR016033 DP2 is the large subunit of a two-subunit novel archaebacterial replicative DNA polymerase first characterised for Pyrococcus furiosus. The structure of DP2 appears to be organised as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit. This entry represents the N-terminal ~950 residue component of DP2.; GO: 0003887 DNA-directed DNA polymerase activity; PDB: 3O59_X.
Probab=79.40 E-value=0.6 Score=46.70 Aligned_cols=36 Identities=22% Similarity=0.414 Sum_probs=0.0
Q ss_pred cCCCCCCccccCCCcCccCCCCCCCccccCCcccCCCCccE
Q psy2399 156 GECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGTKPI 196 (232)
Q Consensus 156 g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~ 196 (232)
-.||.|+..+ +...|+.||....+ -+.|+.||..+.
T Consensus 656 r~Cp~Cg~~t-~~~~Cp~CG~~T~~----~~~Cp~C~~~~~ 691 (900)
T PF03833_consen 656 RRCPKCGKET-FYNRCPECGSHTEP----VYVCPDCGIEVE 691 (900)
T ss_dssp -----------------------------------------
T ss_pred ccCcccCCcc-hhhcCcccCCcccc----ceeccccccccC
Confidence 3899999985 66779999987654 378999988764
No 172
>PRK14529 adenylate kinase; Provisional
Probab=79.24 E-value=5.5 Score=33.86 Aligned_cols=75 Identities=9% Similarity=0.036 Sum_probs=40.6
Q ss_pred ChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeecc
Q psy2399 64 DAHGAAIMIAAEKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDP 143 (232)
Q Consensus 64 D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~ 143 (232)
+..|..+....++-..-|.+++..+..........-|+-.|-|.||. .+.+.+...|. +.|. .-+...+++.
T Consensus 43 t~lg~~i~~~i~~G~lvpdei~~~lv~~~l~~~~~~g~iLDGfPRt~-----~Qa~~l~~~l~-~~~~--~~~~vi~l~~ 114 (223)
T PRK14529 43 TELGKKAKEYIDRGDLVPDDITIPMILETLKQDGKNGWLLDGFPRNK-----VQAEKLWEALQ-KEGM--KLDYVIEILL 114 (223)
T ss_pred ChHHHHHHHHHhccCcchHHHHHHHHHHHHhccCCCcEEEeCCCCCH-----HHHHHHHHHHH-hcCC--CCCEEEEEEC
Confidence 45677766666555556777766655444333334455667777776 33444455565 5552 2233445554
Q ss_pred CCC
Q psy2399 144 IKN 146 (232)
Q Consensus 144 ~~~ 146 (232)
..+
T Consensus 115 ~~~ 117 (223)
T PRK14529 115 PRE 117 (223)
T ss_pred CHH
Confidence 443
No 173
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=79.09 E-value=0.64 Score=32.30 Aligned_cols=11 Identities=9% Similarity=0.002 Sum_probs=4.2
Q ss_pred CcccCCCCccE
Q psy2399 186 PYSILSGTKPI 196 (232)
Q Consensus 186 ~~~~~~g~~~~ 196 (232)
+.|+.||.+++
T Consensus 31 a~CPdC~~~Le 41 (70)
T PF07191_consen 31 AFCPDCGQPLE 41 (70)
T ss_dssp EE-TTT-SB-E
T ss_pred ccCCCcccHHH
Confidence 45555555554
No 174
>KOG2145|consensus
Probab=79.01 E-value=2.4 Score=37.69 Aligned_cols=33 Identities=15% Similarity=0.387 Sum_probs=25.3
Q ss_pred CCCCcEEEEcCCCCCCCcCCchHHHhHHHHHHH
Q psy2399 9 KDVRRIFVTTALPYANGELHIGHIMEYIQADIW 41 (232)
Q Consensus 9 ~~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl 41 (232)
..+++||+.|+-=--++.+||||+-+++..--+
T Consensus 81 eq~kpFyLYTGRGpSS~smHlGHliPFiftKwl 113 (397)
T KOG2145|consen 81 EQGKPFYLYTGRGPSSESMHLGHLIPFIFTKWL 113 (397)
T ss_pred HcCCceEEEeCCCCCccccccccchhHHHHHHH
Confidence 456889998876556888999999998765433
No 175
>PLN02381 valyl-tRNA synthetase
Probab=78.94 E-value=3.9 Score=42.64 Aligned_cols=61 Identities=11% Similarity=0.003 Sum_probs=47.6
Q ss_pred HHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCCcCccCCCCCCCccccCCcccCCCC
Q psy2399 114 NIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGT 193 (232)
Q Consensus 114 ~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~ 193 (232)
..+.-..+++.|. ++|++...+... ..-|.|..|+.
T Consensus 426 ~~eAr~~Ii~~L~-~~g~l~~~~~~~-------------------------------------------h~~p~c~R~~~ 461 (1066)
T PLN02381 426 RFAAREAVIEALQ-KKGLYRGAKNNE-------------------------------------------MRLGLCSRTND 461 (1066)
T ss_pred HHHHHHHHHHHHH-hCCCEecceeee-------------------------------------------cCCCeeCCCCc
Confidence 4455667889999 999987544211 12367888999
Q ss_pred ccEEEEccceeEecCChhhHHHHHhhh
Q psy2399 194 KPIIKSSKHFFFKLSDKRCIDFLRKWA 220 (232)
Q Consensus 194 ~~~~~~~~~~f~~L~~~~~~~~l~~~~ 220 (232)
+++.+..++||+++ +.+++.+.+.+
T Consensus 462 ~ie~~~~~QWFi~~--~~l~~~al~av 486 (1066)
T PLN02381 462 VVEPMIKPQWFVNC--SSMAKQALDAA 486 (1066)
T ss_pred eEEEeecccceEEc--hHHHHHHHHHH
Confidence 99999999999999 89999998884
No 176
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=78.88 E-value=3.3 Score=33.67 Aligned_cols=43 Identities=16% Similarity=0.313 Sum_probs=25.6
Q ss_pred hhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCcc
Q psy2399 112 IENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAK 164 (232)
Q Consensus 112 ~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~ 164 (232)
..|.......++.+. +|. +|-|+.|+-..-+ +--+.||.|+.+
T Consensus 116 k~H~~~~~~~Le~~~--~~~-------~~vC~vCGy~~~g-e~P~~CPiCga~ 158 (166)
T COG1592 116 KRHAEMFRGLLERLE--EGK-------VWVCPVCGYTHEG-EAPEVCPICGAP 158 (166)
T ss_pred HHHHHHHHHHHHhhh--cCC-------EEEcCCCCCcccC-CCCCcCCCCCCh
Confidence 356666666666664 332 7777666655555 556666666554
No 177
>smart00661 RPOL9 RNA polymerase subunit 9.
Probab=77.42 E-value=1.7 Score=27.65 Aligned_cols=25 Identities=20% Similarity=0.392 Sum_probs=15.1
Q ss_pred cCccCCCCCCCcccc---CCcccCCCCc
Q psy2399 170 FCECCSSIYTPTKLI---NPYSILSGTK 194 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~---~~~~~~~g~~ 194 (232)
+|+.||..+.+.++. -.+|..||..
T Consensus 2 FCp~Cg~~l~~~~~~~~~~~vC~~Cg~~ 29 (52)
T smart00661 2 FCPKCGNMLIPKEGKEKRRFVCRKCGYE 29 (52)
T ss_pred CCCCCCCccccccCCCCCEEECCcCCCe
Confidence 366667666665543 2567777753
No 178
>PF15616 TerY-C: TerY-C metal binding domain
Probab=77.28 E-value=1.5 Score=34.29 Aligned_cols=43 Identities=14% Similarity=0.372 Sum_probs=29.9
Q ss_pred cCCCCCCccccCCCcCccCCCCCCCccccCCcccCCCCccEEEEc
Q psy2399 156 GECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGTKPIIKSS 200 (232)
Q Consensus 156 g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~ 200 (232)
..||+||...+. -.| .||++.=-..-..-.|+.||+.......
T Consensus 78 PgCP~CGn~~~f-a~C-~CGkl~Ci~g~~~~~CPwCg~~g~~~~~ 120 (131)
T PF15616_consen 78 PGCPHCGNQYAF-AVC-GCGKLFCIDGEGEVTCPWCGNEGSFGAG 120 (131)
T ss_pred CCCCCCcChhcE-EEe-cCCCEEEeCCCCCEECCCCCCeeeeccc
Confidence 589999996422 236 8999874322335689999998876554
No 179
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=76.79 E-value=16 Score=27.63 Aligned_cols=43 Identities=7% Similarity=-0.067 Sum_probs=18.9
Q ss_pred HHHHHHHHHHHHHhccCCc----CCccccCCChhHHHHHHHHHHHHH
Q psy2399 84 FINNISSNRKKYLDGFYIK----FDNWYSTDSIENIDLVQKIYDTLY 126 (232)
Q Consensus 84 ~~~~~~~~~~~~l~~lgI~----~d~~~~t~~~~~~~~v~~~~~~L~ 126 (232)
++..+.+...+..++-|.. ...-+...+.--.+..+..|..+.
T Consensus 6 i~~~iv~~v~~~a~~~~~~rV~~V~l~iG~ls~v~pe~L~f~f~~~~ 52 (113)
T PRK12380 6 LCQSAVEIIQRQAEQHDVKRVTAVWLEIGALSCVEESAVRFSFEIVC 52 (113)
T ss_pred HHHHHHHHHHHHHHHhCCCeEEEEEEEEcCccccCHHHHHHHHHHHh
Confidence 3444445454444444431 111222333234455566666554
No 180
>PF07295 DUF1451: Protein of unknown function (DUF1451); InterPro: IPR009912 This family consists of several hypothetical bacterial proteins of around 160 residues in length. Members of this family contain four highly conserved cysteine resides toward the C-terminal region of the protein. The function of this family is unknown.
Probab=76.28 E-value=13 Score=29.48 Aligned_cols=27 Identities=26% Similarity=0.546 Sum_probs=18.7
Q ss_pred cCccCCCCC---CCccccCCcccCCCCccEEE
Q psy2399 170 FCECCSSIY---TPTKLINPYSILSGTKPIIK 198 (232)
Q Consensus 170 ~Ce~Cg~~~---~~~~l~~~~~~~~g~~~~~~ 198 (232)
.|++||... .++.| |.|+.||+.--.|
T Consensus 114 ~C~~Cg~~~~~~~~~~l--~~Cp~C~~~~F~R 143 (146)
T PF07295_consen 114 VCENCGHEVELTHPERL--PPCPKCGHTEFTR 143 (146)
T ss_pred ecccCCCEEEecCCCcC--CCCCCCCCCeeee
Confidence 599999543 45443 8899999876544
No 181
>COG0525 ValS Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=75.12 E-value=5.8 Score=40.30 Aligned_cols=62 Identities=16% Similarity=0.097 Sum_probs=48.3
Q ss_pred HHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCCcCccCCCCCCCccccCCcccCCCC
Q psy2399 114 NIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGT 193 (232)
Q Consensus 114 ~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~ 193 (232)
-.+.-.++.+.|. +.|++.+.+... ..-|.|..||.
T Consensus 313 r~eAR~kIv~~L~-~~GlLvk~e~~~-------------------------------------------h~V~~~~R~g~ 348 (877)
T COG0525 313 RFEARKKIVEDLE-EQGLLVKIEPHK-------------------------------------------HSVGHCERCGT 348 (877)
T ss_pred HHHHHHHHHHHHH-hCCCeEeeeecc-------------------------------------------ccCccccCCCc
Confidence 3456678899999 999998866322 12256677888
Q ss_pred ccEEEEccceeEecCChhhHHHHHhhhhc
Q psy2399 194 KPIIKSSKHFFFKLSDKRCIDFLRKWAIH 222 (232)
Q Consensus 194 ~~~~~~~~~~f~~L~~~~~~~~l~~~~~~ 222 (232)
++|..-.+|||++. ..+++.+.+. .+
T Consensus 349 ~IEp~ls~QWfVk~--~~la~~~l~~-~~ 374 (877)
T COG0525 349 PIEPLLSKQWFVKV--LELAKKALEA-VK 374 (877)
T ss_pred eeeeeecceeeEEh--HhhHHHHHHH-Hh
Confidence 99999999999999 8899998888 54
No 182
>TIGR01031 rpmF_bact ribosomal protein L32. This protein describes bacterial ribosomal protein L32. The noise cutoff is set low enough to include the equivalent protein from mitochondria and chloroplasts. No related proteins from the Archaea nor from the eukaryotic cytosol are detected by this model. This model is a fragment model; the putative L32 of some species shows similarity only toward the N-terminus.
Probab=73.95 E-value=1.8 Score=28.58 Aligned_cols=21 Identities=24% Similarity=0.597 Sum_probs=16.2
Q ss_pred CCCCCCccccCCCcCccCCCC
Q psy2399 157 ECPICNAKDQYGDFCECCSSI 177 (232)
Q Consensus 157 ~cp~c~~~~~~g~~Ce~Cg~~ 177 (232)
.||.||+....--.|..||.+
T Consensus 28 ~C~~cG~~~~~H~vc~~cG~Y 48 (55)
T TIGR01031 28 VCPNCGEFKLPHRVCPSCGYY 48 (55)
T ss_pred ECCCCCCcccCeeECCccCeE
Confidence 588888877777778888854
No 183
>PF11023 DUF2614: Protein of unknown function (DUF2614); InterPro: IPR020912 This entry describes proteins of unknown function, which are thought to be membrane proteins.; GO: 0005887 integral to plasma membrane
Probab=73.95 E-value=2.1 Score=32.43 Aligned_cols=31 Identities=29% Similarity=0.595 Sum_probs=19.1
Q ss_pred cccceeccCCCCCCccc---cCCCcCccCCCCCC
Q psy2399 149 LPDRYIKGECPICNAKD---QYGDFCECCSSIYT 179 (232)
Q Consensus 149 l~~~~v~g~cp~c~~~~---~~g~~Ce~Cg~~~~ 179 (232)
+|-+-|.-.||.|+... ...|.|-.|+++++
T Consensus 63 lStkav~V~CP~C~K~TKmLGr~D~CM~C~~pLT 96 (114)
T PF11023_consen 63 LSTKAVQVECPNCGKQTKMLGRVDACMHCKEPLT 96 (114)
T ss_pred hcccceeeECCCCCChHhhhchhhccCcCCCcCc
Confidence 34444555688887764 23366777777665
No 184
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=73.87 E-value=3.7 Score=30.54 Aligned_cols=31 Identities=6% Similarity=-0.053 Sum_probs=20.7
Q ss_pred CcccCCCCccEEEEccceeEecCChhhHHHHHhh
Q psy2399 186 PYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKW 219 (232)
Q Consensus 186 ~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~ 219 (232)
-.|..||.--. +...++.-++ .-|-+|+-.+
T Consensus 43 ~~C~~CG~y~~-~~V~~l~epI--DVY~~wiD~~ 73 (99)
T PRK14892 43 ITCGNCGLYTE-FEVPSVYDEV--DVYNKFIDLY 73 (99)
T ss_pred EECCCCCCccC-EECCccccch--hhHHHHHHHH
Confidence 45666766544 3566766677 6788888777
No 185
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=73.53 E-value=23 Score=26.91 Aligned_cols=43 Identities=7% Similarity=-0.035 Sum_probs=20.1
Q ss_pred HHHHHHHHHHHHHhccCCc-C---CccccCCChhHHHHHHHHHHHHH
Q psy2399 84 FINNISSNRKKYLDGFYIK-F---DNWYSTDSIENIDLVQKIYDTLY 126 (232)
Q Consensus 84 ~~~~~~~~~~~~l~~lgI~-~---d~~~~t~~~~~~~~v~~~~~~L~ 126 (232)
+++...+...+..++-|.. . ..-+...+---.+..+..|..+.
T Consensus 6 i~~~il~~v~~~a~~~~~~~V~~V~l~IG~ls~V~pe~L~faf~~~~ 52 (117)
T PRK00564 6 VVSSLIALCEEHAKKNQAHKIEKVVVGIGERSGMDKSLFVSAFETFR 52 (117)
T ss_pred HHHHHHHHHHHHHHHcCCCeEEEEEEEEccccCcCHHHHHHHHHHHh
Confidence 4445555555444544441 1 11222333234556666776665
No 186
>KOG4718|consensus
Probab=73.37 E-value=0.96 Score=38.08 Aligned_cols=79 Identities=13% Similarity=0.277 Sum_probs=56.6
Q ss_pred HHHHHHHHHHHHHhhcCCEEecccceeeccCC----Ccccccce--eccCCCCCCccccCCCcCccCCCCCCCccc----
Q psy2399 114 NIDLVQKIYDTLYNKAKLIINKKINQFFDPIK----NIFLPDRY--IKGECPICNAKDQYGDFCECCSSIYTPTKL---- 183 (232)
Q Consensus 114 ~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~----~~~l~~~~--v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l---- 183 (232)
-...++.++.++. +.|++++.++.-.+.+.+ +.+|++.+ -...|..|..---.|--|++||-.+.-..+
T Consensus 135 ~ks~iE~lLqkf~-q~gwf~e~eg~ftl~~ralaELe~YL~s~y~dnlk~Cn~Ch~LvIqg~rCg~c~i~~h~~c~qty~ 213 (235)
T KOG4718|consen 135 KKSRIEELLQKFI-QMGWFMEVEGRFTLGPRALAELEFYLSSNYADNLKNCNLCHCLVIQGIRCGSCNIQYHRGCIQTYL 213 (235)
T ss_pred CHHHHHHHHHHHH-HhchhheecceEEEchHHHHHHHHHHHhhhHHHHHHHhHhHHHhheeeccCcccchhhhHHHHHHh
Confidence 4567889999999 999999988877776654 44666655 456899998877777779999744432211
Q ss_pred -cCCcccCCCC
Q psy2399 184 -INPYSILSGT 193 (232)
Q Consensus 184 -~~~~~~~~g~ 193 (232)
..++|+.||.
T Consensus 214 q~~~~cphc~d 224 (235)
T KOG4718|consen 214 QRRDICPHCGD 224 (235)
T ss_pred cccCcCCchhc
Confidence 2577887764
No 187
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=73.03 E-value=6.5 Score=26.59 Aligned_cols=15 Identities=27% Similarity=0.884 Sum_probs=9.7
Q ss_pred ceeccCCCCCCcccc
Q psy2399 152 RYIKGECPICNAKDQ 166 (232)
Q Consensus 152 ~~v~g~cp~c~~~~~ 166 (232)
.+-..+||.||....
T Consensus 25 ~~TSq~C~~CG~~~~ 39 (69)
T PF07282_consen 25 AYTSQTCPRCGHRNK 39 (69)
T ss_pred CCCccCccCcccccc
Confidence 344567888877654
No 188
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=72.93 E-value=16 Score=27.92 Aligned_cols=79 Identities=10% Similarity=0.022 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHHHhccCCc----CCccccCCChhHHHHHHHHHHHHHhhcCCE-------EecccceeeccCCCccccc
Q psy2399 83 EFINNISSNRKKYLDGFYIK----FDNWYSTDSIENIDLVQKIYDTLYNKAKLI-------INKKINQFFDPIKNIFLPD 151 (232)
Q Consensus 83 e~~~~~~~~~~~~l~~lgI~----~d~~~~t~~~~~~~~v~~~~~~L~~~kG~i-------y~~~~~~~~~~~~~~~l~~ 151 (232)
.+++.+...+.+..+.=|.. .-.-+...+--..+.++..|+.+. +|-+ .+......||..|+.++..
T Consensus 5 Sla~aii~~i~~~A~~~~a~~V~~V~l~IG~ls~v~~~~l~FaFev~~--egT~aega~l~Ie~~p~~~~C~~C~~~~~~ 82 (115)
T COG0375 5 SLAQAIIELIEEQAEKHGAKRVTAVWLEIGELSCVEPEALRFAFEVVA--EGTIAEGAELHIEEEPAECWCLDCGQEVEL 82 (115)
T ss_pred HHHHHHHHHHHHHHHHcCCceEEEEEEEEcceeccCHHHHHHHHHHHh--ccCcccCCEEEEEEeccEEEeccCCCeecc
Confidence 34555555555555555541 111222222245567777787775 3433 2333444555544444333
Q ss_pred ceeccCCCCCCc
Q psy2399 152 RYIKGECPICNA 163 (232)
Q Consensus 152 ~~v~g~cp~c~~ 163 (232)
..-...||.|++
T Consensus 83 e~~~~~CP~C~s 94 (115)
T COG0375 83 EELDYRCPKCGS 94 (115)
T ss_pred hhheeECCCCCC
Confidence 333333444443
No 189
>PRK04023 DNA polymerase II large subunit; Validated
Probab=72.71 E-value=3 Score=42.69 Aligned_cols=37 Identities=16% Similarity=0.298 Sum_probs=27.1
Q ss_pred cCCCCCCccccCCCcCccCCCCCCCccccCCcccCCCCccEE
Q psy2399 156 GECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGTKPII 197 (232)
Q Consensus 156 g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~ 197 (232)
-.||.||... ....|++||.... ...+|+.||.....
T Consensus 627 RfCpsCG~~t-~~frCP~CG~~Te----~i~fCP~CG~~~~~ 663 (1121)
T PRK04023 627 RKCPSCGKET-FYRRCPFCGTHTE----PVYRCPRCGIEVEE 663 (1121)
T ss_pred ccCCCCCCcC-CcccCCCCCCCCC----cceeCccccCcCCC
Confidence 4899999985 5567999998732 23589989877653
No 190
>PRK13130 H/ACA RNA-protein complex component Nop10p; Reviewed
Probab=72.48 E-value=2.6 Score=28.03 Aligned_cols=21 Identities=24% Similarity=0.768 Sum_probs=13.2
Q ss_pred CCCCCCccccCCCcCccCCCCC
Q psy2399 157 ECPICNAKDQYGDFCECCSSIY 178 (232)
Q Consensus 157 ~cp~c~~~~~~g~~Ce~Cg~~~ 178 (232)
.|+.|+...- ...|..||...
T Consensus 7 ~C~~CgvYTL-k~~CP~CG~~t 27 (56)
T PRK13130 7 KCPKCGVYTL-KEICPVCGGKT 27 (56)
T ss_pred ECCCCCCEEc-cccCcCCCCCC
Confidence 5777776653 56677777643
No 191
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=71.87 E-value=2.7 Score=24.80 Aligned_cols=26 Identities=15% Similarity=0.280 Sum_probs=16.3
Q ss_pred cCccCCCCCCCccccCCcccCCCCccE
Q psy2399 170 FCECCSSIYTPTKLINPYSILSGTKPI 196 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~~~~~~~~g~~~~ 196 (232)
.|..||.++...+ ...+|+.||++.+
T Consensus 4 ~C~~CG~i~~g~~-~p~~CP~Cg~~~~ 29 (34)
T cd00729 4 VCPVCGYIHEGEE-APEKCPICGAPKE 29 (34)
T ss_pred ECCCCCCEeECCc-CCCcCcCCCCchH
Confidence 3777777665432 2348888887643
No 192
>PRK00464 nrdR transcriptional regulator NrdR; Validated
Probab=71.48 E-value=3.6 Score=33.09 Aligned_cols=26 Identities=27% Similarity=0.706 Sum_probs=16.6
Q ss_pred CCCCCCccc----------c-----CCCcCccCCCCCCCcc
Q psy2399 157 ECPICNAKD----------Q-----YGDFCECCSSIYTPTK 182 (232)
Q Consensus 157 ~cp~c~~~~----------~-----~g~~Ce~Cg~~~~~~~ 182 (232)
.||+||.++ + .--+|.+||.-++.-+
T Consensus 2 ~cp~c~~~~~~~~~s~~~~~~~~~~~~~~c~~c~~~f~~~e 42 (154)
T PRK00464 2 RCPFCGHPDTRVIDSRPAEDGNAIRRRRECLACGKRFTTFE 42 (154)
T ss_pred cCCCCCCCCCEeEeccccCCCCceeeeeeccccCCcceEeE
Confidence 599999765 1 1156888886665433
No 193
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=71.38 E-value=2.5 Score=28.11 Aligned_cols=21 Identities=29% Similarity=0.727 Sum_probs=16.7
Q ss_pred CCCCCCccccCCCcCccCCCC
Q psy2399 157 ECPICNAKDQYGDFCECCSSI 177 (232)
Q Consensus 157 ~cp~c~~~~~~g~~Ce~Cg~~ 177 (232)
.||.||+....--.|..||.+
T Consensus 29 ~C~~CG~~~~~H~vC~~CG~Y 49 (57)
T PRK12286 29 ECPNCGEPKLPHRVCPSCGYY 49 (57)
T ss_pred ECCCCCCccCCeEECCCCCcC
Confidence 588888888777788888854
No 194
>COG5270 PUA domain (predicted RNA-binding domain) [Translation, ribosomal structure and biogenesis]
Probab=70.00 E-value=5 Score=33.20 Aligned_cols=21 Identities=14% Similarity=0.089 Sum_probs=13.0
Q ss_pred hcCCEEecccceeeccCCCcc
Q psy2399 128 KAKLIINKKINQFFDPIKNIF 148 (232)
Q Consensus 128 ~kG~iy~~~~~~~~~~~~~~~ 148 (232)
+++-.+-+....|||-+|+-+
T Consensus 3 kk~~~~~gk~~iyWCe~cNlP 23 (202)
T COG5270 3 KKMPVVLGKFPIYWCEKCNLP 23 (202)
T ss_pred cccceeecccceeehhhCCCc
Confidence 455666777788884444443
No 195
>smart00834 CxxC_CXXC_SSSS Putative regulatory protein. CxxC_CXXC_SSSS represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=69.60 E-value=2 Score=25.83 Aligned_cols=26 Identities=15% Similarity=0.143 Sum_probs=14.9
Q ss_pred cCccCCCCCCCcc----ccCCcccCCCCcc
Q psy2399 170 FCECCSSIYTPTK----LINPYSILSGTKP 195 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~----l~~~~~~~~g~~~ 195 (232)
.|..||..++... -....|+.||..+
T Consensus 7 ~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~~ 36 (41)
T smart00834 7 RCEDCGHTFEVLQKISDDPLATCPECGGDV 36 (41)
T ss_pred EcCCCCCEEEEEEecCCCCCCCCCCCCCcc
Confidence 4777776553221 2345788888743
No 196
>COG1439 Predicted nucleic acid-binding protein, consists of a PIN domain and a Zn-ribbon module [General function prediction only]
Probab=69.51 E-value=3.3 Score=33.98 Aligned_cols=29 Identities=17% Similarity=0.303 Sum_probs=21.1
Q ss_pred CcCccCCCCCCCccccCCcccCCCCccEEEEc
Q psy2399 169 DFCECCSSIYTPTKLINPYSILSGTKPIIKSS 200 (232)
Q Consensus 169 ~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~ 200 (232)
..|.+|++.+. ..-..|+.||+++..+..
T Consensus 140 ~rC~GC~~~f~---~~~~~Cp~CG~~~~~~~~ 168 (177)
T COG1439 140 LRCHGCKRIFP---EPKDFCPICGSPLKRKRV 168 (177)
T ss_pred EEEecCceecC---CCCCcCCCCCCceEEeee
Confidence 35899999887 233579999998765444
No 197
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=68.63 E-value=3.4 Score=41.18 Aligned_cols=45 Identities=18% Similarity=0.244 Sum_probs=21.9
Q ss_pred eeeccCCCcccccceeccCCCCCCccccC-----CCcCccCCCCCCCccccCCcccCCCCc
Q psy2399 139 QFFDPIKNIFLPDRYIKGECPICNAKDQY-----GDFCECCSSIYTPTKLINPYSILSGTK 194 (232)
Q Consensus 139 ~~~~~~~~~~l~~~~v~g~cp~c~~~~~~-----g~~Ce~Cg~~~~~~~l~~~~~~~~g~~ 194 (232)
...|..|+... .||.|.....+ .-.|--||..- -+--.|+.||+.
T Consensus 435 ~l~C~~Cg~v~-------~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~----~~p~~Cp~Cgs~ 484 (730)
T COG1198 435 LLLCRDCGYIA-------ECPNCDSPLTLHKATGQLRCHYCGYQE----PIPQSCPECGSE 484 (730)
T ss_pred eeecccCCCcc-------cCCCCCcceEEecCCCeeEeCCCCCCC----CCCCCCCCCCCC
Confidence 34455555432 46666543221 23466666541 133456666665
No 198
>PRK12496 hypothetical protein; Provisional
Probab=67.86 E-value=3.5 Score=33.41 Aligned_cols=22 Identities=36% Similarity=0.649 Sum_probs=13.3
Q ss_pred CCCCCCcccc---CCCcCccCCCCC
Q psy2399 157 ECPICNAKDQ---YGDFCECCSSIY 178 (232)
Q Consensus 157 ~cp~c~~~~~---~g~~Ce~Cg~~~ 178 (232)
.|+.|+..-. .++.|+-||..+
T Consensus 129 ~C~gC~~~~~~~~~~~~C~~CG~~~ 153 (164)
T PRK12496 129 VCKGCKKKYPEDYPDDVCEICGSPV 153 (164)
T ss_pred ECCCCCccccCCCCCCcCCCCCChh
Confidence 4777765432 335688888654
No 199
>PRK06393 rpoE DNA-directed RNA polymerase subunit E''; Validated
Probab=67.46 E-value=6.6 Score=26.80 Aligned_cols=42 Identities=12% Similarity=0.157 Sum_probs=27.6
Q ss_pred CccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhh
Q psy2399 171 CECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKW 219 (232)
Q Consensus 171 Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~ 219 (232)
|-+|..+.+ +.+|+.||+.-....-..+..-+ ..-..|+.+|
T Consensus 8 C~~C~~i~~-----~~~Cp~Cgs~~~S~~w~G~v~i~--dPe~S~vAk~ 49 (64)
T PRK06393 8 CKKCKRLTP-----EKTCPVHGDEKTTTEWFGFLIIT--EPEGSAIAKR 49 (64)
T ss_pred HhhCCcccC-----CCcCCCCCCCcCCcCcceEEEEE--CCchhHHHHH
Confidence 777777663 23788888764444445666666 4557788888
No 200
>PRK08329 threonine synthase; Validated
Probab=67.28 E-value=4.6 Score=36.46 Aligned_cols=26 Identities=15% Similarity=0.269 Sum_probs=17.5
Q ss_pred cCccCCCCCCCccccCCcccCCCCccEEE
Q psy2399 170 FCECCSSIYTPTKLINPYSILSGTKPIIK 198 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~ 198 (232)
.|..||+.+.+..+ ++| .||.+.++.
T Consensus 3 ~C~~Cg~~~~~~~~--~~C-~c~~~l~~~ 28 (347)
T PRK08329 3 RCTKCGRTYEEKFK--LRC-DCGGTLLVE 28 (347)
T ss_pred CcCCCCCCcCCCCc--eec-CCCCcEEEE
Confidence 47778877765433 778 588776654
No 201
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=66.38 E-value=3.9 Score=31.20 Aligned_cols=23 Identities=22% Similarity=0.444 Sum_probs=9.3
Q ss_pred CccCCCCCCCccccCCcccCCCC
Q psy2399 171 CECCSSIYTPTKLINPYSILSGT 193 (232)
Q Consensus 171 Ce~Cg~~~~~~~l~~~~~~~~g~ 193 (232)
|..||......+....+|+.||+
T Consensus 74 C~~Cg~~~~~~~~~~~~CP~Cgs 96 (117)
T PRK00564 74 CKDCSHVFKPNALDYGVCEKCHS 96 (117)
T ss_pred hhhCCCccccCCccCCcCcCCCC
Confidence 44444333333322233555554
No 202
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=66.38 E-value=5.5 Score=26.69 Aligned_cols=31 Identities=16% Similarity=0.272 Sum_probs=23.4
Q ss_pred CcCccCCCCCCCcc-ccCCcccCCCCccEEEE
Q psy2399 169 DFCECCSSIYTPTK-LINPYSILSGTKPIIKS 199 (232)
Q Consensus 169 ~~Ce~Cg~~~~~~~-l~~~~~~~~g~~~~~~~ 199 (232)
..|..||..+.+.+ -..-.|+.||....+|-
T Consensus 8 ~~CtSCg~~i~~~~~~~~F~CPnCG~~~I~RC 39 (59)
T PRK14890 8 PKCTSCGIEIAPREKAVKFLCPNCGEVIIYRC 39 (59)
T ss_pred ccccCCCCcccCCCccCEeeCCCCCCeeEeec
Confidence 45888998888776 56678888888766653
No 203
>PF05502 Dynactin_p62: Dynactin p62 family; InterPro: IPR008603 Dynactin is a multi-subunit complex and a required cofactor for most, or all, o f the cellular processes powered by the microtubule-based motor cytoplasmic dyn ein. p62 binds directly to the Arp1 subunit of dynactin [, ].
Probab=66.36 E-value=6.9 Score=37.22 Aligned_cols=39 Identities=23% Similarity=0.454 Sum_probs=21.4
Q ss_pred cccceeeccCCCccccccee---ccCCC-CCCccccCCCcCccCCCCCCC
Q psy2399 135 KKINQFFDPIKNIFLPDRYI---KGECP-ICNAKDQYGDFCECCSSIYTP 180 (232)
Q Consensus 135 ~~~~~~~~~~~~~~l~~~~v---~g~cp-~c~~~~~~g~~Ce~Cg~~~~~ 180 (232)
.+...|||+.|-.-++..++ .-+|. .|- .|+.|...++.
T Consensus 22 ~Ei~~~yCp~CL~~~p~~e~~~~~nrC~r~Cf-------~CP~C~~~L~~ 64 (483)
T PF05502_consen 22 EEIDSYYCPNCLFEVPSSEARSEKNRCSRNCF-------DCPICFSPLSV 64 (483)
T ss_pred cccceeECccccccCChhhheeccceeccccc-------cCCCCCCccee
Confidence 34456666666666665555 22444 442 26677666643
No 204
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=66.34 E-value=11 Score=36.01 Aligned_cols=20 Identities=25% Similarity=0.708 Sum_probs=10.9
Q ss_pred CCCCCCccccCCCcCccCCC
Q psy2399 157 ECPICNAKDQYGDFCECCSS 176 (232)
Q Consensus 157 ~cp~c~~~~~~g~~Ce~Cg~ 176 (232)
.|.+||.....-..|++||.
T Consensus 242 ~Ch~Cg~~~~~~~~Cp~C~s 261 (505)
T TIGR00595 242 RCHYCGYQEPIPKTCPQCGS 261 (505)
T ss_pred EcCCCcCcCCCCCCCCCCCC
Confidence 45555555544455555554
No 205
>COG4260 Membrane protease subunit, stomatin/prohibitin family [Amino acid transport and metabolism]
Probab=66.33 E-value=8.3 Score=34.13 Aligned_cols=86 Identities=14% Similarity=0.139 Sum_probs=47.9
Q ss_pred HHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHH-----HcCCC-------HHHHHHHHHHHHHHHHhccCCc
Q psy2399 35 YIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAE-----KAGMT-------PKEFINNISSNRKKYLDGFYIK 102 (232)
Q Consensus 35 ~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~-----~~g~~-------~~e~~~~~~~~~~~~l~~lgI~ 102 (232)
+-+.|-+.-+...-| . .+|..+--+.+.=+++...|- +.|.+ --++...+.+...++|..+|..
T Consensus 136 ~kvtDpi~fi~~I~g---~-~dvy~v~di~~q~ls~~m~al~tai~q~G~~~~~ltan~~elsk~m~e~Ld~q~~q~Gm~ 211 (345)
T COG4260 136 IKVTDPILFIQQIPG---N-RDVYTVDDINQQYLSEFMGALATAINQSGVRFSFLTANQMELSKYMAEVLDEQWTQYGMA 211 (345)
T ss_pred EEecCHHHHHHhccC---C-CceEEHHHHHHHHHHHHHHHHHHHHHhcCceehhhhhhHHHHHHHHHHHHhHHHHhhCce
Confidence 345666664444444 1 566666433333223222221 23432 2356777778888899999988
Q ss_pred CCccccCCChhHHHHHHHHHHHH
Q psy2399 103 FDNWYSTDSIENIDLVQKIYDTL 125 (232)
Q Consensus 103 ~d~~~~t~~~~~~~~v~~~~~~L 125 (232)
.+.|.-.| ..|.+.++.++..=
T Consensus 212 v~sfqvaS-isypde~Q~lin~r 233 (345)
T COG4260 212 VDSFQVAS-ISYPDESQALINMR 233 (345)
T ss_pred EeeEEEEE-ecCcHHHHHHHHhh
Confidence 77775443 24566666666543
No 206
>PRK00420 hypothetical protein; Validated
Probab=65.38 E-value=4.7 Score=30.63 Aligned_cols=24 Identities=17% Similarity=0.245 Sum_probs=14.8
Q ss_pred eccCCCccccc-ceeccCCCCCCcc
Q psy2399 141 FDPIKNIFLPD-RYIKGECPICNAK 164 (232)
Q Consensus 141 ~~~~~~~~l~~-~~v~g~cp~c~~~ 164 (232)
-||.|+.+|.. ..-.-.||.|+..
T Consensus 25 ~CP~Cg~pLf~lk~g~~~Cp~Cg~~ 49 (112)
T PRK00420 25 HCPVCGLPLFELKDGEVVCPVHGKV 49 (112)
T ss_pred CCCCCCCcceecCCCceECCCCCCe
Confidence 46666666665 5555566666664
No 207
>PRK05580 primosome assembly protein PriA; Validated
Probab=65.29 E-value=4.5 Score=40.06 Aligned_cols=20 Identities=25% Similarity=0.672 Sum_probs=9.4
Q ss_pred CCCCCCccccCCCcCccCCC
Q psy2399 157 ECPICNAKDQYGDFCECCSS 176 (232)
Q Consensus 157 ~cp~c~~~~~~g~~Ce~Cg~ 176 (232)
.|.+||........|..||.
T Consensus 410 ~Ch~Cg~~~~~~~~Cp~Cg~ 429 (679)
T PRK05580 410 RCHHCGYQEPIPKACPECGS 429 (679)
T ss_pred ECCCCcCCCCCCCCCCCCcC
Confidence 35555544444444555543
No 208
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=65.00 E-value=3.8 Score=32.93 Aligned_cols=26 Identities=15% Similarity=0.070 Sum_probs=14.9
Q ss_pred CccCCCCCCCccc--cCCcccCCCCccE
Q psy2399 171 CECCSSIYTPTKL--INPYSILSGTKPI 196 (232)
Q Consensus 171 Ce~Cg~~~~~~~l--~~~~~~~~g~~~~ 196 (232)
|++|+.-++..+. .+-.|+.||++++
T Consensus 112 Cp~c~~r~tf~eA~~~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 112 CPNMCVRFTFNEAMELNFTCPRCGAMLD 139 (158)
T ss_pred CCCCCcEeeHHHHHHcCCcCCCCCCEee
Confidence 5556655544433 2457777777655
No 209
>PHA00626 hypothetical protein
Probab=63.84 E-value=4.6 Score=26.77 Aligned_cols=8 Identities=38% Similarity=1.211 Sum_probs=5.8
Q ss_pred CCCCCCcc
Q psy2399 157 ECPICNAK 164 (232)
Q Consensus 157 ~cp~c~~~ 164 (232)
.||.|++.
T Consensus 2 ~CP~CGS~ 9 (59)
T PHA00626 2 SCPKCGSG 9 (59)
T ss_pred CCCCCCCc
Confidence 48888774
No 210
>COG4640 Predicted membrane protein [Function unknown]
Probab=63.79 E-value=4 Score=37.56 Aligned_cols=25 Identities=28% Similarity=0.635 Sum_probs=17.5
Q ss_pred CCCCCC-ccccCCCcCccCCCCCCCc
Q psy2399 157 ECPICN-AKDQYGDFCECCSSIYTPT 181 (232)
Q Consensus 157 ~cp~c~-~~~~~g~~Ce~Cg~~~~~~ 181 (232)
.||.|| ...+...+|..||+..+..
T Consensus 3 fC~kcG~qk~Ed~~qC~qCG~~~t~~ 28 (465)
T COG4640 3 FCPKCGSQKAEDDVQCTQCGHKFTSR 28 (465)
T ss_pred cccccccccccccccccccCCcCCch
Confidence 588998 4444556688998877643
No 211
>PRK12775 putative trifunctional 2-polyprenylphenol hydroxylase/glutamate synthase subunit beta/ferritin domain-containing protein; Provisional
Probab=63.04 E-value=4.2 Score=42.09 Aligned_cols=46 Identities=15% Similarity=0.251 Sum_probs=34.8
Q ss_pred CCCCCCcccc------------CCCcCccCCCCCCCccccCCcccCCCCccEEEEccc
Q psy2399 157 ECPICNAKDQ------------YGDFCECCSSIYTPTKLINPYSILSGTKPIIKSSKH 202 (232)
Q Consensus 157 ~cp~c~~~~~------------~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~ 202 (232)
+||.|..+-. -..-|+.||+.+.-...--++|+.||.+.+|.+...
T Consensus 798 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 855 (1006)
T PRK12775 798 TCPKCHRPLEGDEEYVCCATSELQWRCDDCGKVSEGFAFPYGMCPACGGKLQALDRRK 855 (1006)
T ss_pred cCcccCCCCCCCceeEEecCcceeeehhhhccccccccCCcCcCcccccchhhhhccC
Confidence 8998876532 224599999998877777789999999988765544
No 212
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=62.79 E-value=8 Score=30.25 Aligned_cols=9 Identities=11% Similarity=0.073 Sum_probs=5.8
Q ss_pred CcccCCCCc
Q psy2399 186 PYSILSGTK 194 (232)
Q Consensus 186 ~~~~~~g~~ 194 (232)
.+|+.||+.
T Consensus 108 ~~CP~Cgs~ 116 (135)
T PRK03824 108 LKCPKCGSR 116 (135)
T ss_pred cCCcCCCCC
Confidence 457777764
No 213
>COG1933 Archaeal DNA polymerase II, large subunit [DNA replication, recombination, and repair]
Probab=62.59 E-value=1.6 Score=37.52 Aligned_cols=75 Identities=9% Similarity=0.083 Sum_probs=57.9
Q ss_pred HHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCCcCccCCCCCCCccccCCcccCCCCccEE
Q psy2399 121 IYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGTKPII 197 (232)
Q Consensus 121 ~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~ 197 (232)
.-.++. .++-+-++.+.+.=|..+++.+.-.++-+.||.|++-..--.-|-.|+..+.-..| .+.|.-||+.+.+
T Consensus 121 m~ek~~-~ql~La~~iRavd~~dva~~v~~~hfLpd~~gn~r~f~rq~~rc~~c~~k~rr~pl-~g~c~kcg~~~~l 195 (253)
T COG1933 121 MEEKVK-RQLDLARRIRAVDEHDVAERVLNSHFIPDLRGNLRSFTRQEFRCVKCNTKFRRPPL-DGKCPICGGKIVL 195 (253)
T ss_pred HHHHHH-HHhhHHHHHHHHHhHHHHHHhhccCCCcchhhhhhhhhhheeehHhhhhhhcCCCc-cccccccCCeEEE
Confidence 334444 45545556677778888999999999999999999987766779999998876665 4889889996653
No 214
>PF09889 DUF2116: Uncharacterized protein containing a Zn-ribbon (DUF2116); InterPro: IPR019216 This entry contains various hypothetical prokaryotic proteins whose functions are unknown. They contain a conserved zinc ribbon motif in the N-terminal part and a predicted transmembrane segment in the C-terminal part.
Probab=62.41 E-value=1.4 Score=29.61 Aligned_cols=12 Identities=25% Similarity=0.805 Sum_probs=7.7
Q ss_pred ccCCCCCCcccc
Q psy2399 155 KGECPICNAKDQ 166 (232)
Q Consensus 155 ~g~cp~c~~~~~ 166 (232)
..+||.||.+.+
T Consensus 3 HkHC~~CG~~Ip 14 (59)
T PF09889_consen 3 HKHCPVCGKPIP 14 (59)
T ss_pred CCcCCcCCCcCC
Confidence 356777776653
No 215
>cd01675 RNR_III Class III ribonucleotide reductase. Ribonucleotide reductase (RNR) catalyzes the reductive synthesis of deoxyribonucleotides from their corresponding ribonucleotides. It provides the precursors necessary for DNA synthesis. RNRs are separated into three classes based on their metallocofactor usage. Class I RNRs, found in eukaryotes, bacteria, and bacteriophage, use a diiron-tyrosyl radical. Class II RNRs, found in bacteria, bacteriophage, algae and archaea, use coenzyme B12 (adenosylcobalamin, AdoCbl). Class III RNRs, found in strict or facultative anaerobic bacteria, bacteriophage, and archaea, use an FeS cluster and S-adenosylmethionine to generate a glycyl radical. Many organisms have more than one class of RNR present in their genomes. All three RNRs have a ten-stranded alpha-beta barrel domain that is structurally similar to the domain of PFL (pyruvate formate lyase). The class III enzyme from phage T4 consists of two subunits, this model covers the larger subunit w
Probab=62.38 E-value=11 Score=36.49 Aligned_cols=22 Identities=18% Similarity=0.188 Sum_probs=11.5
Q ss_pred cCccCCCCCCCccccCCcccCCCCc
Q psy2399 170 FCECCSSIYTPTKLINPYSILSGTK 194 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~~~~~~~~g~~ 194 (232)
.|..||.... -....|+.||+.
T Consensus 520 ~C~~CG~~~~---~~~~~CP~CGs~ 541 (555)
T cd01675 520 ICNDCGYIGE---GEGFKCPKCGSE 541 (555)
T ss_pred cCCCCCCCCc---CCCCCCcCCCCc
Confidence 5666665321 123566777654
No 216
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=62.28 E-value=5.4 Score=31.13 Aligned_cols=22 Identities=23% Similarity=0.286 Sum_probs=12.6
Q ss_pred eccCCCcccccceeccCCCCCC
Q psy2399 141 FDPIKNIFLPDRYIKGECPICN 162 (232)
Q Consensus 141 ~~~~~~~~l~~~~v~g~cp~c~ 162 (232)
-||.|+++|+...-.-.||.|+
T Consensus 30 hCp~Cg~PLF~KdG~v~CPvC~ 51 (131)
T COG1645 30 HCPKCGTPLFRKDGEVFCPVCG 51 (131)
T ss_pred hCcccCCcceeeCCeEECCCCC
Confidence 4677777766644444455544
No 217
>PF09538 FYDLN_acid: Protein of unknown function (FYDLN_acid); InterPro: IPR012644 Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=62.19 E-value=5.3 Score=30.15 Aligned_cols=28 Identities=32% Similarity=0.659 Sum_probs=14.4
Q ss_pred eccCCCCCCccccC---C-CcCccCCCCCCCc
Q psy2399 154 IKGECPICNAKDQY---G-DFCECCSSIYTPT 181 (232)
Q Consensus 154 v~g~cp~c~~~~~~---g-~~Ce~Cg~~~~~~ 181 (232)
.+-.||.||++=-. . -.|+.||..+.+.
T Consensus 8 tKR~Cp~CG~kFYDLnk~PivCP~CG~~~~~~ 39 (108)
T PF09538_consen 8 TKRTCPSCGAKFYDLNKDPIVCPKCGTEFPPE 39 (108)
T ss_pred CcccCCCCcchhccCCCCCccCCCCCCccCcc
Confidence 44567777664100 1 1266666666554
No 218
>PRK11032 hypothetical protein; Provisional
Probab=61.47 E-value=10 Score=30.70 Aligned_cols=28 Identities=29% Similarity=0.490 Sum_probs=19.5
Q ss_pred CcCccCCCCC---CCccccCCcccCCCCccEEE
Q psy2399 169 DFCECCSSIY---TPTKLINPYSILSGTKPIIK 198 (232)
Q Consensus 169 ~~Ce~Cg~~~---~~~~l~~~~~~~~g~~~~~~ 198 (232)
-.|++||... .|+.| |.|+-||+.--.|
T Consensus 125 LvC~~Cg~~~~~~~p~~i--~pCp~C~~~~F~R 155 (160)
T PRK11032 125 LVCEKCHHHLAFYTPEVL--PLCPKCGHDQFQR 155 (160)
T ss_pred EEecCCCCEEEecCCCcC--CCCCCCCCCeeee
Confidence 4599999544 45544 7899999875544
No 219
>PLN02959 aminoacyl-tRNA ligase
Probab=60.85 E-value=17 Score=38.11 Aligned_cols=34 Identities=9% Similarity=0.175 Sum_probs=28.5
Q ss_pred CcccCCCCccEEEEccceeEecCChhhHHHHHhh
Q psy2399 186 PYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKW 219 (232)
Q Consensus 186 ~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~ 219 (232)
|+|..||.+++....+|||++++.+.+++.+.+.
T Consensus 519 pv~~R~g~~~~v~l~~QWFi~~~~~~~k~~a~~~ 552 (1084)
T PLN02959 519 KVMSRSGDECVVALTDQWYLTYGEEEWKKKAEKC 552 (1084)
T ss_pred CeEECCCCEEEEeecCCeeEECCchHHHHHHHHH
Confidence 5667899999999999999999433788888888
No 220
>cd00730 rubredoxin Rubredoxin; nonheme iron binding domains containing a [Fe(SCys)4] center. Rubredoxins are small nonheme iron proteins. The iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc. They are believed to be involved in electron transfer.
Probab=60.59 E-value=7.3 Score=25.18 Aligned_cols=25 Identities=28% Similarity=0.523 Sum_probs=16.9
Q ss_pred cCccCCCCCCCc---------------cc-cCCcccCCCCc
Q psy2399 170 FCECCSSIYTPT---------------KL-INPYSILSGTK 194 (232)
Q Consensus 170 ~Ce~Cg~~~~~~---------------~l-~~~~~~~~g~~ 194 (232)
+|..||-+|+++ +| .+-+|+.||.+
T Consensus 3 ~C~~CgyiYd~~~Gd~~~~i~pGt~f~~Lp~~w~CP~C~a~ 43 (50)
T cd00730 3 ECRICGYIYDPAEGDPDEGIPPGTPFEDLPDDWVCPVCGAG 43 (50)
T ss_pred CCCCCCeEECCCCCCcccCcCCCCCHhHCCCCCCCCCCCCc
Confidence 477788777764 23 35588888864
No 221
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=59.73 E-value=23 Score=26.64 Aligned_cols=44 Identities=9% Similarity=-0.083 Sum_probs=23.1
Q ss_pred HHHHHHHHHHHHHHhccCC----cCCccccCCChhHHHHHHHHHHHHH
Q psy2399 83 EFINNISSNRKKYLDGFYI----KFDNWYSTDSIENIDLVQKIYDTLY 126 (232)
Q Consensus 83 e~~~~~~~~~~~~l~~lgI----~~d~~~~t~~~~~~~~v~~~~~~L~ 126 (232)
.++..+.+...+..++-|. ....-+...+---.+..+..|..+.
T Consensus 5 si~~~iv~~v~~~a~~~~~~kV~~V~l~iG~ls~V~pe~L~f~f~~~~ 52 (113)
T PF01155_consen 5 SIAQSIVEIVEEEAEENGAKKVTKVRLEIGELSGVEPEALRFAFEVLA 52 (113)
T ss_dssp HHHHHHHHHHHHHHHCTT-SEEEEEEEEEETTS---HHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEEEEEEECCcccCCHHHHHHHHHHHh
Confidence 3456666666666666665 1222333444345566777777776
No 222
>TIGR02605 CxxC_CxxC_SSSS putative regulatory protein, FmdB family. This model represents a region of about 50 amino acids found in a number of small proteins in a wide range of bacteria. The region begins usually with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One member of this family is has been noted as a putative regulatory protein, designated FmdB (PubMed:8841393). Most members of this family have a C-terminal region containing highly degenerate sequence, such as SSTSESTKSSGSSGSSGSSESKASGSTEKSTSSTTAAAAV in Mycobacterium tuberculosis and VAVGGSAPAPSPAPRAGGGGGGCCGGGCCG in Streptomyces avermitilis. These low complexity regions, which are not included in the model, resemble low-complexity C-terminal regions of some heterocycle-containing bacteriocin precursors.
Probab=59.40 E-value=4.7 Score=25.75 Aligned_cols=26 Identities=12% Similarity=0.103 Sum_probs=14.3
Q ss_pred CcCccCCCCCCCc----cccCCcccCCCCc
Q psy2399 169 DFCECCSSIYTPT----KLINPYSILSGTK 194 (232)
Q Consensus 169 ~~Ce~Cg~~~~~~----~l~~~~~~~~g~~ 194 (232)
..|.+||..++.. +-....|+.||+.
T Consensus 6 y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~~ 35 (52)
T TIGR02605 6 YRCTACGHRFEVLQKMSDDPLATCPECGGE 35 (52)
T ss_pred EEeCCCCCEeEEEEecCCCCCCCCCCCCCC
Confidence 3477777644321 1122468888873
No 223
>PRK14873 primosome assembly protein PriA; Provisional
Probab=57.89 E-value=16 Score=36.19 Aligned_cols=46 Identities=11% Similarity=0.117 Sum_probs=31.3
Q ss_pred cceeeccCCCcccccceeccCCCCCCccccC-----CCcCccCCCCCCCccccCCcccCCCCc
Q psy2399 137 INQFFDPIKNIFLPDRYIKGECPICNAKDQY-----GDFCECCSSIYTPTKLINPYSILSGTK 194 (232)
Q Consensus 137 ~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~-----g~~Ce~Cg~~~~~~~l~~~~~~~~g~~ 194 (232)
.+...|.+|+... .||.|..+-.+ --.|--||... ...+|+.||+.
T Consensus 381 ap~l~C~~Cg~~~-------~C~~C~~~L~~h~~~~~l~Ch~CG~~~-----~p~~Cp~Cgs~ 431 (665)
T PRK14873 381 VPSLACARCRTPA-------RCRHCTGPLGLPSAGGTPRCRWCGRAA-----PDWRCPRCGSD 431 (665)
T ss_pred CCeeEhhhCcCee-------ECCCCCCceeEecCCCeeECCCCcCCC-----cCccCCCCcCC
Confidence 3555788887764 68888866554 23488888632 35688888876
No 224
>TIGR00373 conserved hypothetical protein TIGR00373. This family of proteins is, so far, restricted to archaeal genomes. The family appears to be distantly related to the N-terminal region of the eukaryotic transcription initiation factor IIE alpha chain.
Probab=57.67 E-value=3.8 Score=32.92 Aligned_cols=37 Identities=11% Similarity=0.130 Sum_probs=21.5
Q ss_pred EecccceeeccCCCcccccceeccCCCCCCccccCCCcCccCCCCCC
Q psy2399 133 INKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYT 179 (232)
Q Consensus 133 y~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~ 179 (232)
+..+...|.||.|+.-.+--++. ..+..|+.||..+.
T Consensus 103 ~e~~~~~Y~Cp~c~~r~tf~eA~----------~~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 103 FETNNMFFICPNMCVRFTFNEAM----------ELNFTCPRCGAMLD 139 (158)
T ss_pred hccCCCeEECCCCCcEeeHHHHH----------HcCCcCCCCCCEee
Confidence 44556667777777544433332 24566777777654
No 225
>TIGR00375 conserved hypothetical protein TIGR00375. The member of this family from Methanococcus jannaschii, MJ0043, is considerably longer and appears to contain an intein N-terminal to the region of homology.
Probab=57.61 E-value=7.4 Score=35.76 Aligned_cols=27 Identities=15% Similarity=0.196 Sum_probs=20.1
Q ss_pred CcCccCCCCCCCcccc--CCcccCCCCccE
Q psy2399 169 DFCECCSSIYTPTKLI--NPYSILSGTKPI 196 (232)
Q Consensus 169 ~~Ce~Cg~~~~~~~l~--~~~~~~~g~~~~ 196 (232)
+.|..|+..+++.+-+ +.+|+ ||.++.
T Consensus 241 ~~c~~C~~~~~~~~~~~~~~~Cp-CG~~i~ 269 (374)
T TIGR00375 241 TACEACGEPAVSEDAETACANCP-CGGRIK 269 (374)
T ss_pred hhhcccCCcCCchhhhhcCCCCC-CCCcce
Confidence 4588898888877643 67899 998843
No 226
>PF06750 DiS_P_DiS: Bacterial Peptidase A24 N-terminal domain; InterPro: IPR010627 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Aspartic endopeptidases 3.4.23. from EC of vertebrate, fungal and retroviral origin have been characterised []. More recently, aspartic endopeptidases associated with the processing of bacterial type 4 prepilin [] and archaean preflagellin have been described [, ]. Structurally, aspartic endopeptidases are bilobal enzymes, each lobe contributing a catalytic Asp residue, with an extended active site cleft localised between the two lobes of the molecule. One lobe has probably evolved from the other through a gene duplication event in the distant past. In modern-day enzymes, although the three-dimensional structures are very similar, the amino acid sequences are more divergent, except for the catalytic site motif, which is very conserved. The presence and position of disulphide bridges are other conserved features of aspartic peptidases. All or most aspartate peptidases are endopeptidases. These enzymes have been assigned into clans (proteins which are evolutionary related), and further sub-divided into families, largely on the basis of their tertiary structure. This domain is found at the N terminus of bacterial aspartic peptidases belonging to MEROPS peptidase family A24 (clan AD), subfamily A24A (type IV prepilin peptidase, IPR000045 from INTERPRO). It's function has not been specifically determined; however some of the family have been characterised as bifunctional [], and this domain may contain the N-methylation activity. The domain consists of an intracellular region between a pair of transmembrane domains. This intracellular region contains an invariant proline and four conserved cysteines. These Cys residues are arranged in a two-pair motif, with the Cys residues of a pair separated (usually) by 2 aa and with each pair separated by 21 largely hydrophilic residues (C-X-X-C...X21...C-X-X-C); they have been shown to be essential to the overall function of the enzyme [, ]. The bifunctional enzyme prepilin peptidase (PilD) from Pseudomonas aeruginosa is a key determinant in both type-IV pilus biogenesis and extracellular protein secretion, in its roles as a leader peptidase and methyl transferase (MTase). It is responsible for endopeptidic cleavage of the unique leader peptides that characterise type-IV pilin precursors, as well as proteins with homologous leader sequences that are essential components of the general secretion pathway found in a variety of Gram-negative pathogens. Following removal of the leader peptides, the same enzyme is responsible for the second posttranslational modification that characterises the type-IV pilins and their homologues, namely N-methylation of the newly exposed N-terminal amino acid residue [].
Probab=56.20 E-value=10 Score=27.66 Aligned_cols=27 Identities=19% Similarity=0.241 Sum_probs=22.4
Q ss_pred CcCccCCCCCCCcccc--------CCcccCCCCcc
Q psy2399 169 DFCECCSSIYTPTKLI--------NPYSILSGTKP 195 (232)
Q Consensus 169 ~~Ce~Cg~~~~~~~l~--------~~~~~~~g~~~ 195 (232)
..|+.|++.+...|++ -++|..|+.+.
T Consensus 34 S~C~~C~~~L~~~~lIPi~S~l~lrGrCr~C~~~I 68 (92)
T PF06750_consen 34 SHCPHCGHPLSWWDLIPILSYLLLRGRCRYCGAPI 68 (92)
T ss_pred CcCcCCCCcCcccccchHHHHHHhCCCCcccCCCC
Confidence 3599999999999886 57999998765
No 227
>COG1645 Uncharacterized Zn-finger containing protein [General function prediction only]
Probab=55.98 E-value=5.2 Score=31.22 Aligned_cols=11 Identities=27% Similarity=0.721 Sum_probs=8.6
Q ss_pred ccCCCCCCccc
Q psy2399 155 KGECPICNAKD 165 (232)
Q Consensus 155 ~g~cp~c~~~~ 165 (232)
..+||.||.+-
T Consensus 28 ~~hCp~Cg~PL 38 (131)
T COG1645 28 AKHCPKCGTPL 38 (131)
T ss_pred HhhCcccCCcc
Confidence 45899998864
No 228
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=55.62 E-value=78 Score=24.25 Aligned_cols=43 Identities=9% Similarity=-0.049 Sum_probs=21.4
Q ss_pred HHHHHHHHHHHHHhccCCc----CCccccCCChhHHHHHHHHHHHHH
Q psy2399 84 FINNISSNRKKYLDGFYIK----FDNWYSTDSIENIDLVQKIYDTLY 126 (232)
Q Consensus 84 ~~~~~~~~~~~~l~~lgI~----~d~~~~t~~~~~~~~v~~~~~~L~ 126 (232)
++....+...+..++-|.. ...-+...+---.+..+..|..+.
T Consensus 6 i~~~il~~v~~~a~~~~~~rV~~V~l~IG~ls~V~pe~L~faf~~~~ 52 (124)
T PRK00762 6 MACEIVEAVIDTAEKNNATEVTEVTLEIGRLTMLNPEQLRFMLDVLA 52 (124)
T ss_pred HHHHHHHHHHHHHHHcCCCeEEEEEEEECCccccCHHHHHHHHHHHh
Confidence 4455555555555555541 222233333344566666776554
No 229
>PRK02935 hypothetical protein; Provisional
Probab=55.48 E-value=9.6 Score=28.59 Aligned_cols=32 Identities=25% Similarity=0.515 Sum_probs=20.3
Q ss_pred cccceeccCCCCCCcccc---CCCcCccCCCCCCC
Q psy2399 149 LPDRYIKGECPICNAKDQ---YGDFCECCSSIYTP 180 (232)
Q Consensus 149 l~~~~v~g~cp~c~~~~~---~g~~Ce~Cg~~~~~ 180 (232)
+|-+-|.-.||.|+.+.- +.|.|-.|+.+++-
T Consensus 64 lStkavqV~CP~C~K~TKmLGrvD~CM~C~~PLTL 98 (110)
T PRK02935 64 LSTKAVQVICPSCEKPTKMLGRVDACMHCNQPLTL 98 (110)
T ss_pred hcccceeeECCCCCchhhhccceeecCcCCCcCCc
Confidence 455666667888877541 33667777776653
No 230
>PF14206 Cys_rich_CPCC: Cysteine-rich CPCC
Probab=55.42 E-value=2.5 Score=30.05 Aligned_cols=61 Identities=18% Similarity=0.298 Sum_probs=38.7
Q ss_pred CCCCCCccccC------CCcCccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhh
Q psy2399 157 ECPICNAKDQY------GDFCECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKW 219 (232)
Q Consensus 157 ~cp~c~~~~~~------g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~ 219 (232)
.||.||...-. -++|+-|+=..+..++.+|-....-+.+.+.+...-|.+. .+-.++++.+
T Consensus 3 ~CPCCg~~Tl~~~~~~~ydIC~VC~WEdD~~q~~~pd~~~G~N~~SL~eAr~ny~~~--GA~e~~~~~~ 69 (78)
T PF14206_consen 3 PCPCCGYYTLEERGEGTYDICPVCFWEDDGVQLRDPDYYGGANHMSLNEARENYKKF--GACEERMLKH 69 (78)
T ss_pred cCCCCCcEEeccCCCcCceECCCCCcccCCccccCCcccCCCCHHHHHHHHHHHHHH--CcccHHHHhh
Confidence 58888876531 4578888877777666666544333344456666666666 6666666666
No 231
>cd06259 YdcF-like YdcF-like. YdcF-like is a large family of mainly bacterial proteins, with a few members found in fungi, plants, and archaea. Escherichia coli YdcF has been shown to bind S-adenosyl-L-methionine (AdoMet), but a biochemical function has not been idenitified. The family also includes Escherichia coli sanA and Salmonella typhimurium sfiX, which are involved in vancomycin resistance; sfiX may also be involved in murein synthesis.
Probab=55.30 E-value=93 Score=23.82 Aligned_cols=102 Identities=11% Similarity=0.001 Sum_probs=62.6
Q ss_pred EEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhh------HHHHHHHHHcCCCHHHH---
Q psy2399 14 IFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHG------AAIMIAAEKAGMTPKEF--- 84 (232)
Q Consensus 14 ~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G------~~i~~~a~~~g~~~~e~--- 84 (232)
++|+.+..+++|.+ ....--.+.-+++.+... ....+++|-.-++ ..+...+.+.|+++..+
T Consensus 3 IvVLG~~~~~~~~~----~~~~~R~~~a~~l~~~~~-----~~~ii~sGg~~~~~~~~ea~~m~~~l~~~gv~~~~I~~e 73 (150)
T cd06259 3 IVVLGGGVNGDGPS----PILAERLDAAAELYRAGP-----APKLIVSGGQGPGEGYSEAEAMARYLIELGVPAEAILLE 73 (150)
T ss_pred EEEeCCccCCCCCC----hHHHHHHHHHHHHHHhCC-----CCEEEEcCCCCCCCCCCHHHHHHHHHHHcCCCHHHeeec
Confidence 57788888888876 222223444444444444 4666667665433 34445556678766554
Q ss_pred -----HHHHHHHHHHHHhccCCcCCccccCCChhHHHHHHHHHHHHH
Q psy2399 85 -----INNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLY 126 (232)
Q Consensus 85 -----~~~~~~~~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~ 126 (232)
.-+.....++.++..|+ ....--+++.|......+|+++.
T Consensus 74 ~~s~~T~ena~~~~~~~~~~~~--~~i~lVTs~~H~~Ra~~~~~~~~ 118 (150)
T cd06259 74 DRSTNTYENARFSAELLRERGI--RSVLLVTSAYHMPRALLIFRKAG 118 (150)
T ss_pred CCCCCHHHHHHHHHHHHHhcCC--CeEEEECCHHHHHHHHHHHHHcC
Confidence 23444555667777777 44444556689999999988887
No 232
>PF07191 zinc-ribbons_6: zinc-ribbons; InterPro: IPR010807 This family consists of several short, hypothetical bacterial proteins of around 70 residues in length. Members of this family 8 highly conserved cysteine residues. The function of the family is unknown.; PDB: 2JRP_A 2JNE_A.
Probab=54.84 E-value=2.2 Score=29.67 Aligned_cols=38 Identities=18% Similarity=0.220 Sum_probs=16.2
Q ss_pred ccCCCcccccceeccCCCCCCccccCCCcCccCCCCCC
Q psy2399 142 DPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYT 179 (232)
Q Consensus 142 ~~~~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~ 179 (232)
||.++..|.-....-+|..|...-..-..|++|+..+.
T Consensus 4 CP~C~~~L~~~~~~~~C~~C~~~~~~~a~CPdC~~~Le 41 (70)
T PF07191_consen 4 CPKCQQELEWQGGHYHCEACQKDYKKEAFCPDCGQPLE 41 (70)
T ss_dssp -SSS-SBEEEETTEEEETTT--EEEEEEE-TTT-SB-E
T ss_pred CCCCCCccEEeCCEEECccccccceecccCCCcccHHH
Confidence 45555555444444456666554333445666666553
No 233
>cd03031 GRX_GRX_like Glutaredoxin (GRX) family, GRX-like domain containing protein subfamily; composed of uncharacterized eukaryotic proteins containing a GRX-like domain having only one conserved cysteine, aligning to the C-terminal cysteine of the CXXC motif of GRXs. This subfamily is predominantly composed of plant proteins. GRX is a glutathione (GSH) dependent reductase, catalyzing the disulfide reduction of target proteins via a redox active CXXC motif using a similar dithiol mechanism employed by TRXs. GRX has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. Proteins containing only the C-terminal cysteine are generally redox inactive.
Probab=54.47 E-value=24 Score=28.04 Aligned_cols=28 Identities=21% Similarity=0.285 Sum_probs=16.4
Q ss_pred HHHHHHHHhccCCcCCccccCCChhHHH
Q psy2399 89 SSNRKKYLDGFYIKFDNWYSTDSIENID 116 (232)
Q Consensus 89 ~~~~~~~l~~lgI~~d~~~~t~~~~~~~ 116 (232)
....++.|+.++|+++..--.+++.+.+
T Consensus 19 C~~ak~iL~~~~V~~~e~DVs~~~~~~~ 46 (147)
T cd03031 19 CNNVRAILESFRVKFDERDVSMDSGFRE 46 (147)
T ss_pred HHHHHHHHHHCCCcEEEEECCCCHHHHH
Confidence 3556777788888776543334444443
No 234
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=54.24 E-value=59 Score=25.12 Aligned_cols=23 Identities=9% Similarity=-0.334 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHcCCCCCCceeEEecCC
Q psy2399 36 IQADIWVRFQCMQQDNGKSRQVYFICAD 63 (232)
Q Consensus 36 v~~Dvl~R~lr~~G~~~~~~~v~~~~g~ 63 (232)
+-+++++++++..| ++|...-+.
T Consensus 17 ~g~~iv~~~l~~~G-----feVi~lg~~ 39 (132)
T TIGR00640 17 RGAKVIATAYADLG-----FDVDVGPLF 39 (132)
T ss_pred HHHHHHHHHHHhCC-----cEEEECCCC
Confidence 45799999999999 999987544
No 235
>PF14446 Prok-RING_1: Prokaryotic RING finger family 1
Probab=53.92 E-value=7.5 Score=25.61 Aligned_cols=25 Identities=28% Similarity=0.606 Sum_probs=14.4
Q ss_pred eccCCCCCCcccc---CCCcCccCCCCC
Q psy2399 154 IKGECPICNAKDQ---YGDFCECCSSIY 178 (232)
Q Consensus 154 v~g~cp~c~~~~~---~g~~Ce~Cg~~~ 178 (232)
....|+.|+.+-. ...+|..||.++
T Consensus 4 ~~~~C~~Cg~~~~~~dDiVvCp~Cgapy 31 (54)
T PF14446_consen 4 EGCKCPVCGKKFKDGDDIVVCPECGAPY 31 (54)
T ss_pred cCccChhhCCcccCCCCEEECCCCCCcc
Confidence 3456777766542 223477777665
No 236
>PRK07591 threonine synthase; Validated
Probab=53.63 E-value=9.8 Score=35.37 Aligned_cols=27 Identities=11% Similarity=0.075 Sum_probs=17.7
Q ss_pred cCccCCCCCCCccccCCcccCCCCccEEE
Q psy2399 170 FCECCSSIYTPTKLINPYSILSGTKPIIK 198 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~ 198 (232)
.|..||+.+.+... .+|+.||..++..
T Consensus 20 ~C~~Cg~~~~~~~~--~~C~~cg~~l~~~ 46 (421)
T PRK07591 20 KCRECGAEYPLGPI--HVCEECFGPLEVA 46 (421)
T ss_pred EeCCCCCcCCCCCC--ccCCCCCCeEEEE
Confidence 47777777766543 7777777766544
No 237
>COG1545 Predicted nucleic-acid-binding protein containing a Zn-ribbon [General function prediction only]
Probab=53.48 E-value=9.4 Score=30.04 Aligned_cols=10 Identities=40% Similarity=1.261 Sum_probs=4.6
Q ss_pred CccCCCCCCC
Q psy2399 171 CECCSSIYTP 180 (232)
Q Consensus 171 Ce~Cg~~~~~ 180 (232)
|.+||+.+-|
T Consensus 32 C~~CG~v~~P 41 (140)
T COG1545 32 CKKCGRVYFP 41 (140)
T ss_pred cCCCCeEEcC
Confidence 4444444443
No 238
>PF02698 DUF218: DUF218 domain; InterPro: IPR003848 This domain of unknown function is found in several uncharacterised proteins.; PDB: 3CA8_A.
Probab=53.45 E-value=65 Score=24.89 Aligned_cols=103 Identities=12% Similarity=0.003 Sum_probs=44.5
Q ss_pred EEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecC-CChh-----hHHHHHHHHHcCCCHHHH---
Q psy2399 14 IFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICA-DDAH-----GAAIMIAAEKAGMTPKEF--- 84 (232)
Q Consensus 14 ~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g-~D~~-----G~~i~~~a~~~g~~~~e~--- 84 (232)
++|+.+.+...|.++-++.... |.-+++.+..- ....+++| .... ...+...+.+.|++...+
T Consensus 5 ivVlG~~~~~~~~~~~~~~~R~---~~a~~L~~~g~-----~~~il~SGg~~~~~~~~ea~~~~~~l~~~gvp~~~I~~e 76 (155)
T PF02698_consen 5 IVVLGSALDPDGQLSPESRERL---DEAARLYKAGY-----APRILFSGGYGHGDGRSEAEAMRDYLIELGVPEERIILE 76 (155)
T ss_dssp EEEES-----------S-HHHH---HHHHHHHH-HH-----T--EEEE--SSTTHTS-HHHHHHHHHHHT---GGGEEEE
T ss_pred EEECCcCccccccccHhHHHHH---HHHHHHHhcCC-----CCeEEECCCCCCCCCCCHHHHHHHHHHhcccchheeEcc
Confidence 4555547777777776655533 55555444322 23444555 4332 244445555667754432
Q ss_pred -----HHHHHHHHHHHHhccCCcCCccccCCChhHHHHHHHHHHHHH
Q psy2399 85 -----INNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLY 126 (232)
Q Consensus 85 -----~~~~~~~~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~ 126 (232)
.-+.....++.++..|+ ...+--+++.|...+..+|+++.
T Consensus 77 ~~s~~T~ena~~~~~~~~~~~~--~~iilVT~~~H~~Ra~~~~~~~~ 121 (155)
T PF02698_consen 77 PKSTNTYENARFSKRLLKERGW--QSIILVTSPYHMRRARMIFRKVG 121 (155)
T ss_dssp ----SHHHHHHHHHHHHHT-SS--S-EEEE--CCCHHHHHHHHHHHH
T ss_pred CCCCCHHHHHHHHHHHHHhhcC--CeEEEECCHHHHHHHHHHHHHhC
Confidence 33444555677777777 34444455588888888888887
No 239
>PF09723 Zn-ribbon_8: Zinc ribbon domain; InterPro: IPR013429 This entry represents a region of about 41 amino acids found in a number of small proteins in a wide range of bacteria. The region usually begins with the initiator Met and contains two CxxC motifs separated by 17 amino acids. One protein in this entry has been noted as a putative regulatory protein, designated FmdB []. Most proteins in this entry have a C-terminal region containing highly degenerate sequence.
Probab=53.36 E-value=8.8 Score=23.62 Aligned_cols=25 Identities=16% Similarity=0.139 Sum_probs=14.9
Q ss_pred CcCccCCCCCCC----ccccCCcccCCCC
Q psy2399 169 DFCECCSSIYTP----TKLINPYSILSGT 193 (232)
Q Consensus 169 ~~Ce~Cg~~~~~----~~l~~~~~~~~g~ 193 (232)
..|++||..++. .+-....|+.||+
T Consensus 6 y~C~~Cg~~fe~~~~~~~~~~~~CP~Cg~ 34 (42)
T PF09723_consen 6 YRCEECGHEFEVLQSISEDDPVPCPECGS 34 (42)
T ss_pred EEeCCCCCEEEEEEEcCCCCCCcCCCCCC
Confidence 347788854431 1223467888887
No 240
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=53.29 E-value=14 Score=28.05 Aligned_cols=10 Identities=0% Similarity=-0.014 Sum_probs=5.3
Q ss_pred CCccccccee
Q psy2399 145 KNIFLPDRYI 154 (232)
Q Consensus 145 ~~~~l~~~~v 154 (232)
.++.+.++.+
T Consensus 53 ~~t~~egA~L 62 (114)
T PRK03681 53 RGTVAEGCKL 62 (114)
T ss_pred CCCccCCCEE
Confidence 3555555544
No 241
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=53.18 E-value=8.5 Score=30.39 Aligned_cols=16 Identities=25% Similarity=0.138 Sum_probs=10.4
Q ss_pred HHHHHHHcCCCHHHHH
Q psy2399 70 IMIAAEKAGMTPKEFI 85 (232)
Q Consensus 70 i~~~a~~~g~~~~e~~ 85 (232)
-+..|+..|++..++.
T Consensus 18 dedLa~~l~i~~n~vR 33 (147)
T smart00531 18 EEDLAELLGIKQKQLR 33 (147)
T ss_pred HHHHHHHhCCCHHHHH
Confidence 3566777888765543
No 242
>TIGR02487 NrdD anaerobic ribonucleoside-triphosphate reductase. This model represents the oxygen-sensitive (anaerobic, class III) ribonucleotide reductase. The mechanism of the enzyme involves a glycine-centered radical, a C-terminal zinc binding site, and a set of conserved active site cysteines and asparagines. This enzyme requires an activating component, NrdG, a radical-SAM domain containing enzyme (TIGR02491). Together the two form an alpha-2/beta-2 heterodimer.
Probab=51.74 E-value=22 Score=34.66 Aligned_cols=46 Identities=15% Similarity=0.132 Sum_probs=24.8
Q ss_pred CCCCCccccCCCcCccCCCCCCCccccCCcccCCCCc-cE-EEEccceeEec
Q psy2399 158 CPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGTK-PI-IKSSKHFFFKL 207 (232)
Q Consensus 158 cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~-~~-~~~~~~~f~~L 207 (232)
|++-.-. ..-+.|..||.. .+...-.|+.||+. .+ ++....|+=++
T Consensus 515 i~Y~~~n-~~~~~C~~CG~~---g~~~~~~CP~Cgs~~~~~~~Rv~GYl~~v 562 (579)
T TIGR02487 515 IGYFGIN-PPVDVCEDCGYT---GEGLNDKCPKCGSHDIEVISRITGYLGPV 562 (579)
T ss_pred CceEEec-cCCccCCCCCCC---CCCCCCcCcCCCCccceehhhhhhhhccc
Confidence 5544333 234668888851 22223578888865 33 45566665444
No 243
>KOG0909|consensus
Probab=51.63 E-value=5.3 Score=37.26 Aligned_cols=47 Identities=19% Similarity=0.412 Sum_probs=33.4
Q ss_pred cCccCC------CCCCCccccCCcccCCCC----------------ccEEEEccceeEecCChhhHHHHHhhh
Q psy2399 170 FCECCS------SIYTPTKLINPYSILSGT----------------KPIIKSSKHFFFKLSDKRCIDFLRKWA 220 (232)
Q Consensus 170 ~Ce~Cg------~~~~~~~l~~~~~~~~g~----------------~~~~~~~~~~f~~L~~~~~~~~l~~~~ 220 (232)
.|..|| ++++|.+|.+-++..||. ..+|-.++|.+= +-|...+..|+
T Consensus 196 ~C~~C~~~~RFPRYNdp~kLLeTRkGRCGEWANCFTllcralg~daR~i~d~tDHVWt----EvYS~~qqRW~ 264 (500)
T KOG0909|consen 196 KCNRCGTETRFPRYNDPIKLLETRKGRCGEWANCFTLLCRALGLDARYIWDRTDHVWT----EVYSNAQQRWV 264 (500)
T ss_pred EecCCCCcccCcccCCHHHHHhhccCccchHHHHHHHHHHHcCCcceEEeecCcchhH----HhhhhhhheeE
Confidence 588888 567888998888888886 235555666433 34778888884
No 244
>COG0675 Transposase and inactivated derivatives [DNA replication, recombination, and repair]
Probab=51.27 E-value=7.9 Score=33.77 Aligned_cols=29 Identities=21% Similarity=0.400 Sum_probs=19.8
Q ss_pred ceeccCCCCCCccccCCCcCccCCCCCCC
Q psy2399 152 RYIKGECPICNAKDQYGDFCECCSSIYTP 180 (232)
Q Consensus 152 ~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~ 180 (232)
.+-+..||.||........|+.||.....
T Consensus 306 ~~tS~~C~~cg~~~~r~~~C~~cg~~~~r 334 (364)
T COG0675 306 YYTSKTCPCCGHLSGRLFKCPRCGFVHDR 334 (364)
T ss_pred CCCcccccccCCccceeEECCCCCCeehh
Confidence 34567899999843344678889876543
No 245
>PRK06260 threonine synthase; Validated
Probab=51.22 E-value=11 Score=34.73 Aligned_cols=22 Identities=18% Similarity=0.025 Sum_probs=9.6
Q ss_pred eccCCCcccccceeccCCCCCC
Q psy2399 141 FDPIKNIFLPDRYIKGECPICN 162 (232)
Q Consensus 141 ~~~~~~~~l~~~~v~g~cp~c~ 162 (232)
.|..|++-.+.....-.||.|+
T Consensus 5 ~C~~cg~~~~~~~~~~~Cp~cg 26 (397)
T PRK06260 5 KCIECGKEYDPDEIIYTCPECG 26 (397)
T ss_pred EECCCCCCCCCCCccccCCCCC
Confidence 3444554444333333444443
No 246
>PRK10220 hypothetical protein; Provisional
Probab=51.15 E-value=11 Score=28.36 Aligned_cols=26 Identities=31% Similarity=0.875 Sum_probs=18.9
Q ss_pred CCCCCCccccCCC----cCccCCCCCCCcc
Q psy2399 157 ECPICNAKDQYGD----FCECCSSIYTPTK 182 (232)
Q Consensus 157 ~cp~c~~~~~~g~----~Ce~Cg~~~~~~~ 182 (232)
.||.|.+.-.|.+ .|+.|+.-.++.+
T Consensus 5 ~CP~C~seytY~d~~~~vCpeC~hEW~~~~ 34 (111)
T PRK10220 5 HCPKCNSEYTYEDNGMYICPECAHEWNDAE 34 (111)
T ss_pred cCCCCCCcceEcCCCeEECCcccCcCCccc
Confidence 5888888766653 5888887776654
No 247
>PRK00432 30S ribosomal protein S27ae; Validated
Probab=51.06 E-value=7.8 Score=25.00 Aligned_cols=8 Identities=38% Similarity=1.028 Sum_probs=4.8
Q ss_pred cCCCCCCc
Q psy2399 156 GECPICNA 163 (232)
Q Consensus 156 g~cp~c~~ 163 (232)
..||.|++
T Consensus 21 ~fCP~Cg~ 28 (50)
T PRK00432 21 KFCPRCGS 28 (50)
T ss_pred CcCcCCCc
Confidence 36666655
No 248
>PF04216 FdhE: Protein involved in formate dehydrogenase formation; InterPro: IPR006452 This family of sequences describe an accessory protein required for the assembly of formate dehydrogenase of certain proteobacteria although not present in the final complex []. The exact nature of the function of FdhE in the assembly of the complex is unknown, but considering the presence of selenocysteine, molybdopterin, iron-sulphur clusters and cytochrome b556, it is likely to be involved in the insertion of cofactors. ; GO: 0005737 cytoplasm; PDB: 2FIY_B.
Probab=50.88 E-value=5 Score=35.32 Aligned_cols=37 Identities=16% Similarity=0.450 Sum_probs=13.1
Q ss_pred eccCCCcccccceec-----c----CCCCCCccccCC-CcCccCCCC
Q psy2399 141 FDPIKNIFLPDRYIK-----G----ECPICNAKDQYG-DFCECCSSI 177 (232)
Q Consensus 141 ~~~~~~~~l~~~~v~-----g----~cp~c~~~~~~g-~~Ce~Cg~~ 177 (232)
+||-|+..=.=+.|. | .|..|+..=.+. ..|..||.-
T Consensus 174 ~CPvCGs~P~~s~l~~~~~~G~R~L~Cs~C~t~W~~~R~~Cp~Cg~~ 220 (290)
T PF04216_consen 174 YCPVCGSPPVLSVLRGGEREGKRYLHCSLCGTEWRFVRIKCPYCGNT 220 (290)
T ss_dssp S-TTT---EEEEEEE------EEEEEETTT--EEE--TTS-TTT---
T ss_pred cCCCCCCcCceEEEecCCCCccEEEEcCCCCCeeeecCCCCcCCCCC
Confidence 788888763222222 2 577776653333 347777753
No 249
>TIGR03826 YvyF flagellar operon protein TIGR03826. This gene is found in flagellar operons of Bacillus-related organisms. Its function has not been determined and an official gene symbol has not been assigned, although the gene is designated yvyF in B. subtilus. A tentative assignment as a regulator is suggested in the NCBI record GI:16080597.
Probab=50.84 E-value=15 Score=29.00 Aligned_cols=44 Identities=16% Similarity=0.330 Sum_probs=30.3
Q ss_pred HHHHHHHHhhcCCEEecccc-eeeccCCCcccccceeccCCCCCCccccCCCcCccCCCCC
Q psy2399 119 QKIYDTLYNKAKLIINKKIN-QFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIY 178 (232)
Q Consensus 119 ~~~~~~L~~~kG~iy~~~~~-~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~ 178 (232)
...+.++. +.|.+.....+ .. -.|..||.+...|-+|++|-.-+
T Consensus 60 ~~~I~~~I-reGRL~~~~~~nl~---------------~~CE~CG~~I~~Gr~C~~C~~~l 104 (137)
T TIGR03826 60 EKLILKFI-REGRLQLKHFPNLG---------------YPCERCGTSIREGRLCDSCAGEL 104 (137)
T ss_pred HHHHHHHH-HcCCeeccCCCCCc---------------CcccccCCcCCCCCccHHHHHHH
Confidence 45677777 77777665432 22 25888888888888888887644
No 250
>TIGR02098 MJ0042_CXXC MJ0042 family finger-like domain. This domain contains a CXXCX(19)CXXC motif suggestive of both zinc fingers and thioredoxin, usually found at the N-terminus of prokaryotic proteins. One partially characterized gene, agmX, is among a large set in Myxococcus whose interruption affects adventurous gliding motility.
Probab=50.78 E-value=8 Score=22.94 Aligned_cols=11 Identities=9% Similarity=-0.333 Sum_probs=7.0
Q ss_pred CcccCCCCccE
Q psy2399 186 PYSILSGTKPI 196 (232)
Q Consensus 186 ~~~~~~g~~~~ 196 (232)
.+|+.||+...
T Consensus 26 v~C~~C~~~~~ 36 (38)
T TIGR02098 26 VRCGKCGHVWY 36 (38)
T ss_pred EECCCCCCEEE
Confidence 46777776544
No 251
>COG2046 MET3 ATP sulfurylase (sulfate adenylyltransferase) [Inorganic ion transport and metabolism]
Probab=50.76 E-value=22 Score=32.72 Aligned_cols=47 Identities=17% Similarity=0.364 Sum_probs=26.0
Q ss_pred cCccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhhhcCC--CCCCCCC
Q psy2399 170 FCECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIHDK--RLQPEIF 231 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~~~--~~~p~~~ 231 (232)
+|..||.+.+. ..|++..+ .+ +.+|-+..++.|++- ..+. |+||+++
T Consensus 322 YC~~c~~~~~~--------~~cph~~~----~~--~~~SGt~lR~~Lr~G-~~PP~~f~RPEV~ 370 (397)
T COG2046 322 YCPKCGQMVST--------KTCPHGDE----HH--LHISGTKLREMLRAG-VKPPEEFSRPEVA 370 (397)
T ss_pred ecccccCCccc--------ccCCCCCc----ce--EEEccHHHHHHHHcC-CCCCcccccHHHH
Confidence 46666665443 24555433 22 344436777777777 5432 7777764
No 252
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=50.44 E-value=11 Score=27.45 Aligned_cols=34 Identities=15% Similarity=0.197 Sum_probs=24.3
Q ss_pred cCccCCCCCCCcccc-CCcccCCCCccEEEEccceeE
Q psy2399 170 FCECCSSIYTPTKLI-NPYSILSGTKPIIKSSKHFFF 205 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~-~~~~~~~g~~~~~~~~~~~f~ 205 (232)
.|-+||-.+.+..+. .-+|+.| +-||.++..+++
T Consensus 60 ~CkkCGfef~~~~ik~pSRCP~C--KSE~Ie~prF~i 94 (97)
T COG3357 60 RCKKCGFEFRDDKIKKPSRCPKC--KSEWIEEPRFVI 94 (97)
T ss_pred hhcccCccccccccCCcccCCcc--hhhcccCCceee
Confidence 388888877776665 4488888 556777777654
No 253
>TIGR00125 cyt_tran_rel cytidyltransferase-related domain. Protein families that contain at least one copy of this domain include citrate lyase ligase, pantoate-beta-alanine ligase, glycerol-3-phosphate cytidyltransferase, ADP-heptose synthase, phosphocholine cytidylyltransferase, lipopolysaccharide core biosynthesis protein KdtB, the bifunctional protein NadR, and a number whose function is unknown. Many of these proteins are known to use CTP or ATP and release pyrophosphate.
Probab=50.37 E-value=23 Score=23.12 Aligned_cols=9 Identities=33% Similarity=0.844 Sum_probs=8.0
Q ss_pred CcCCchHHH
Q psy2399 25 GELHIGHIM 33 (232)
Q Consensus 25 G~lHiGH~~ 33 (232)
+++|.||+.
T Consensus 9 dp~H~GH~~ 17 (66)
T TIGR00125 9 DPFHLGHLD 17 (66)
T ss_pred CCCCHHHHH
Confidence 679999998
No 254
>COG0375 HybF Zn finger protein HypA/HybF (possibly regulating hydrogenase expression) [General function prediction only]
Probab=50.26 E-value=14 Score=28.29 Aligned_cols=34 Identities=15% Similarity=0.147 Sum_probs=22.4
Q ss_pred cCccCCCCCCCccccCCcccCCCCc-cEEEEcccee
Q psy2399 170 FCECCSSIYTPTKLINPYSILSGTK-PIIKSSKHFF 204 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~~~~~~~~g~~-~~~~~~~~~f 204 (232)
.|..|+....+.++. ..|+.||+. +..+.-+.+.
T Consensus 72 ~C~~C~~~~~~e~~~-~~CP~C~s~~~~i~~G~el~ 106 (115)
T COG0375 72 WCLDCGQEVELEELD-YRCPKCGSINLRIIGGDELI 106 (115)
T ss_pred EeccCCCeecchhhe-eECCCCCCCceEEecCCeeE
Confidence 488888888777654 559999854 3445444443
No 255
>PF01155 HypA: Hydrogenase expression/synthesis hypA family; InterPro: IPR000688 Bacterial membrane-bound nickel-dependent hydrogenases requires a number of accessory proteins which are involved in their maturation. The exact role of these proteins is not yet clear, but some seem to be required for the incorporation of the nickel ions []. One of these proteins is generally known as hypA. It is a protein of about 12 to 14 kDa that contains, in its C-terminal region, four conserved cysteines that form a zinc-finger like motif. Escherichia coli has two proteins that belong to this family, hypA and hybF. A homologue, MJ0214, has also been found in a number of archaeal species, including the genome of Methanocaldococcus jannaschii (Methanococcus jannaschii).; GO: 0016151 nickel ion binding, 0006464 protein modification process; PDB: 2KDX_A 3A44_D 3A43_B.
Probab=50.21 E-value=9 Score=28.94 Aligned_cols=23 Identities=17% Similarity=0.391 Sum_probs=9.4
Q ss_pred CccCCCCCCCccccCCcccCCCCc
Q psy2399 171 CECCSSIYTPTKLINPYSILSGTK 194 (232)
Q Consensus 171 Ce~Cg~~~~~~~l~~~~~~~~g~~ 194 (232)
|..||..+++.+.. ..|+.||+.
T Consensus 73 C~~Cg~~~~~~~~~-~~CP~Cgs~ 95 (113)
T PF01155_consen 73 CRDCGHEFEPDEFD-FSCPRCGSP 95 (113)
T ss_dssp ETTTS-EEECHHCC-HH-SSSSSS
T ss_pred CCCCCCEEecCCCC-CCCcCCcCC
Confidence 44444444443332 345555554
No 256
>PF04405 ScdA_N: Domain of Unknown function (DUF542) ; InterPro: IPR007500 This is a domain of unknown function found at the N terminus of genes involved in cell wall development and nitrous oxide protection. ScdA is required for normal cell growth and development; mutants have an increased level of peptidoglycan cross-linking and aberrant cellular morphology suggesting a role for ScdA in cell wall metabolism []. NorA1, NorA2, and YtfE are involved in the nitrous oxide response. NorA1 and NorA2, which are similar to YtfE, are co-transcribed with the membrane-bound nitrous oxide (NO) reductases. The genes appear to be involved in NO protection but their function is unknown [, ].
Probab=50.16 E-value=12 Score=24.75 Aligned_cols=24 Identities=25% Similarity=0.574 Sum_probs=19.6
Q ss_pred hh-HHHHHHHHHcCCCHHHHHHHHH
Q psy2399 66 HG-AAIMIAAEKAGMTPKEFINNIS 89 (232)
Q Consensus 66 ~G-~~i~~~a~~~g~~~~e~~~~~~ 89 (232)
+| .++..++++.|++++++.++..
T Consensus 29 gG~~~L~eA~~~~~ld~~~vl~~L~ 53 (56)
T PF04405_consen 29 GGNRSLEEACEEKGLDPEEVLEELN 53 (56)
T ss_pred CCCchHHHHHHHcCCCHHHHHHHHH
Confidence 44 7889999999999999877654
No 257
>COG1405 SUA7 Transcription initiation factor TFIIIB, Brf1 subunit/Transcription initiation factor TFIIB [Transcription]
Probab=50.11 E-value=8.4 Score=34.10 Aligned_cols=27 Identities=22% Similarity=0.630 Sum_probs=18.0
Q ss_pred cCCCCCCccc-----cCC-CcCccCCCCCCCcc
Q psy2399 156 GECPICNAKD-----QYG-DFCECCSSIYTPTK 182 (232)
Q Consensus 156 g~cp~c~~~~-----~~g-~~Ce~Cg~~~~~~~ 182 (232)
..||.|++.. .+| -.|-+||.+.....
T Consensus 2 ~~CpeCg~~~~~~d~~~ge~VC~~CG~Vi~~~~ 34 (285)
T COG1405 2 MSCPECGSTNIITDYERGEIVCADCGLVLEDSL 34 (285)
T ss_pred CCCCCCCCccceeeccCCeEEeccCCEEecccc
Confidence 4688888761 223 35889998876543
No 258
>COG1867 TRM1 N2,N2-dimethylguanosine tRNA methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=49.90 E-value=17 Score=33.43 Aligned_cols=23 Identities=22% Similarity=0.404 Sum_probs=9.5
Q ss_pred eeccCCC-cccccceeccCCCCCC
Q psy2399 140 FFDPIKN-IFLPDRYIKGECPICN 162 (232)
Q Consensus 140 ~~~~~~~-~~l~~~~v~g~cp~c~ 162 (232)
++|..|+ ......++...||.||
T Consensus 241 ~~c~~cg~~~~~~~~~~~~c~~Cg 264 (380)
T COG1867 241 YHCSRCGEIVGSFREVDEKCPHCG 264 (380)
T ss_pred EEcccccceecccccccccCCccc
Confidence 3444443 2333344444444443
No 259
>PF05605 zf-Di19: Drought induced 19 protein (Di19), zinc-binding; InterPro: IPR008598 This entry consists of several drought induced 19 (Di19) like and RING finger 114 proteins. Di19 has been found to be strongly expressed in both the roots and leaves of Arabidopsis thaliana during progressive drought [], whilst RING finger proteins are thought to play a role in spermatogenesis. The precise function is unknown.
Probab=49.81 E-value=3.3 Score=26.84 Aligned_cols=37 Identities=16% Similarity=0.266 Sum_probs=19.6
Q ss_pred cCCCCCCccccCCCcCccCCCCCCCccccCCcccCCCC
Q psy2399 156 GECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGT 193 (232)
Q Consensus 156 g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~ 193 (232)
-.||+|+..-.....++.|...-.. +-.+.+|++|..
T Consensus 3 f~CP~C~~~~~~~~L~~H~~~~H~~-~~~~v~CPiC~~ 39 (54)
T PF05605_consen 3 FTCPYCGKGFSESSLVEHCEDEHRS-ESKNVVCPICSS 39 (54)
T ss_pred cCCCCCCCccCHHHHHHHHHhHCcC-CCCCccCCCchh
Confidence 3688887743333334433332222 224678998864
No 260
>PRK07111 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=49.75 E-value=24 Score=35.36 Aligned_cols=36 Identities=19% Similarity=0.267 Sum_probs=19.2
Q ss_pred CCcCccCCCCCCCccccCCcccCCCCc-cE-EEEccceeEec
Q psy2399 168 GDFCECCSSIYTPTKLINPYSILSGTK-PI-IKSSKHFFFKL 207 (232)
Q Consensus 168 g~~Ce~Cg~~~~~~~l~~~~~~~~g~~-~~-~~~~~~~f~~L 207 (232)
-+.|..||.... +...|+.||+. .+ ++....|+=++
T Consensus 680 ~~~C~~CG~~~~----~~~~CP~CG~~~~~~~~Ri~GYl~~v 717 (735)
T PRK07111 680 VDRCPVCGYLGV----IEDKCPKCGSTNIQRIRRITGYLGTL 717 (735)
T ss_pred CeecCCCCCCCC----cCccCcCCCCccceeeehhhhhccch
Confidence 456777773211 23577777743 33 46666665333
No 261
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=49.71 E-value=5.4 Score=31.52 Aligned_cols=12 Identities=8% Similarity=-0.283 Sum_probs=6.6
Q ss_pred CcccCCCCccEE
Q psy2399 186 PYSILSGTKPII 197 (232)
Q Consensus 186 ~~~~~~g~~~~~ 197 (232)
-.|+.||..++.
T Consensus 124 f~Cp~Cg~~l~~ 135 (147)
T smart00531 124 FTCPRCGEELEE 135 (147)
T ss_pred EECCCCCCEEEE
Confidence 456666665543
No 262
>PF08274 PhnA_Zn_Ribbon: PhnA Zinc-Ribbon ; InterPro: IPR013987 The PhnA protein family includes the uncharacterised Escherichia coli protein PhnA and its homologues. The E. coli phnA gene is part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage []. The protein is not related to the characterised phosphonoacetate hydrolase designated PhnA []. This entry represents the N-terminal domain of PhnA, which is predicted to form a zinc-ribbon.; PDB: 2AKL_A.
Probab=49.03 E-value=5.7 Score=22.89 Aligned_cols=10 Identities=10% Similarity=-0.134 Sum_probs=5.9
Q ss_pred CCcccCCCCc
Q psy2399 185 NPYSILSGTK 194 (232)
Q Consensus 185 ~~~~~~~g~~ 194 (232)
..+|..||+.
T Consensus 19 ~~vCp~C~~e 28 (30)
T PF08274_consen 19 LLVCPECGHE 28 (30)
T ss_dssp SEEETTTTEE
T ss_pred EEeCCccccc
Confidence 3567777653
No 263
>TIGR03037 anthran_nbaC 3-hydroxyanthranilate 3,4-dioxygenase. Members of this protein family, from both bacteria and eukaryotes, are the enzyme 3-hydroxyanthranilate 3,4-dioxygenase. This enzyme acts on the tryptophan metabolite 3-hydroxyanthranilate and produces 2-amino-3-carboxymuconate semialdehyde, which can rearrange spontaneously to quinolinic acid and feed into nicotinamide biosynthesis, or undergo further enzymatic degradation.
Probab=49.00 E-value=11 Score=30.42 Aligned_cols=21 Identities=19% Similarity=0.044 Sum_probs=15.8
Q ss_pred cccceeeccCCCcccccceec
Q psy2399 135 KKINQFFDPIKNIFLPDRYIK 155 (232)
Q Consensus 135 ~~~~~~~~~~~~~~l~~~~v~ 155 (232)
.+.-.|||+.|+..|.+.++.
T Consensus 110 ~d~~~wyc~~c~~~~~e~~f~ 130 (159)
T TIGR03037 110 LDGFQWFCPQCGHKLHRAEVQ 130 (159)
T ss_pred CcceEEECCCCCCeEEEEEEE
Confidence 345679999999888876654
No 264
>PRK08270 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=48.86 E-value=25 Score=34.82 Aligned_cols=26 Identities=8% Similarity=0.045 Sum_probs=15.8
Q ss_pred CCCcCccCCCCCCCccccCCcccCCCCccE
Q psy2399 167 YGDFCECCSSIYTPTKLINPYSILSGTKPI 196 (232)
Q Consensus 167 ~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~ 196 (232)
.-+.|..||... . ....|+.||++.+
T Consensus 625 ~~~~C~~CG~~~--g--~~~~CP~CG~~~~ 650 (656)
T PRK08270 625 TFSICPKHGYLS--G--EHEFCPKCGEETE 650 (656)
T ss_pred CCcccCCCCCcC--C--CCCCCcCCcCccc
Confidence 345677788531 1 2467888887654
No 265
>PRK13671 hypothetical protein; Provisional
Probab=48.43 E-value=66 Score=28.67 Aligned_cols=103 Identities=17% Similarity=0.106 Sum_probs=55.1
Q ss_pred CCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCCh--hhHHH-------HHHHHHcCCC-----HHHH----H
Q psy2399 24 NGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDA--HGAAI-------MIAAEKAGMT-----PKEF----I 85 (232)
Q Consensus 24 nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~--~G~~i-------~~~a~~~g~~-----~~e~----~ 85 (232)
-.|+|.||++-. ....+..+ . -.|.+++.-+- -|.+. ...|...|.| |..+ +
T Consensus 9 FNP~H~GHl~~~------~~a~~~~~---~-d~vi~vpSg~~~qrg~pa~~~~~~R~~ma~~~G~DLViELP~~~a~~sA 78 (298)
T PRK13671 9 YNPFHNGHIYQI------NYIKNKFP---N-EKIIVILSGKYTQRGEIAVASFEKRKKIALKYGVDKVIKLPFEYATQAA 78 (298)
T ss_pred eCCccHHHHHHH------HHHHHhcC---C-CEEEEEECcCCCCCCCCCCCCHHHHHHHHHHcCCCEEEeccHHHHhhch
Confidence 478999999832 22223333 0 34555432221 12111 1233445665 3333 5
Q ss_pred HHHHHHHHHHHhccCCcCCccccCCCh--hHH----------HHHHHHHHHHHhhcCCEEeccc
Q psy2399 86 NNISSNRKKYLDGFYIKFDNWYSTDSI--ENI----------DLVQKIYDTLYNKAKLIINKKI 137 (232)
Q Consensus 86 ~~~~~~~~~~l~~lgI~~d~~~~t~~~--~~~----------~~v~~~~~~L~~~kG~iy~~~~ 137 (232)
+.+...-...|..+||+.=.|..++.+ ... +..+..+++.. ++|.-|-...
T Consensus 79 e~FA~gaV~lL~~lgvd~l~FGsE~~d~~~l~~~a~~l~~~~~~~~~~l~~~l-~~G~Sy~~a~ 141 (298)
T PRK13671 79 HIFAKGAIKKLNKEKIDKLIFGSESNDIELMYKIANTIKENEEEYNQLLKKNL-KQGYSFPKAS 141 (298)
T ss_pred HHHHHHHHHHHHHcCCCEEEECCCCCCHHHHHHHHHHHHhCcHHHHHHHHHHH-HCCCCHHHHH
Confidence 677888889999999765556665532 111 23334455566 6887665443
No 266
>PRK05580 primosome assembly protein PriA; Validated
Probab=48.25 E-value=36 Score=33.77 Aligned_cols=48 Identities=19% Similarity=0.208 Sum_probs=32.5
Q ss_pred cceeeccCCCcccccceeccCCCCCCccccC-----CCcCccCCCCCCCccccCCcccCCCCcc
Q psy2399 137 INQFFDPIKNIFLPDRYIKGECPICNAKDQY-----GDFCECCSSIYTPTKLINPYSILSGTKP 195 (232)
Q Consensus 137 ~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~-----g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~ 195 (232)
.+...|..|+..+ .||.|..+-.+ .-.|--||.... ....|+.||+..
T Consensus 379 ~~~~~C~~Cg~~~-------~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~----~~~~Cp~Cg~~~ 431 (679)
T PRK05580 379 APFLLCRDCGWVA-------ECPHCDASLTLHRFQRRLRCHHCGYQEP----IPKACPECGSTD 431 (679)
T ss_pred CCceEhhhCcCcc-------CCCCCCCceeEECCCCeEECCCCcCCCC----CCCCCCCCcCCe
Confidence 4556788887653 79999876432 235999997543 345799998863
No 267
>TIGR02827 RNR_anaer_Bdell anaerobic ribonucleoside-triphosphate reductase. Members of this family belong to the class III anaerobic ribonucleoside-triphosphate reductases (RNR). These glycine-radical-containing enzymes are oxygen-sensitive and operate under anaerobic conditions. The genes for this family are pair with genes for an acitivating protein that creates a glycine radical. Members of this family, though related, fall outside the scope of TIGR02487, a functionally equivalent protein set; no genome has members in both familes. Identification as RNR is supported by gene pairing with the activating protein, lack of other anaerobic RNR, and presence of an upstream regulatory element strongly conserved upstream of most RNR operons.
Probab=47.75 E-value=28 Score=33.99 Aligned_cols=38 Identities=11% Similarity=0.108 Sum_probs=22.8
Q ss_pred CCCcCccCCCCCCCccccCCcccCCCCc-cE-EEEccceeEec
Q psy2399 167 YGDFCECCSSIYTPTKLINPYSILSGTK-PI-IKSSKHFFFKL 207 (232)
Q Consensus 167 ~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~-~~-~~~~~~~f~~L 207 (232)
.-++|..||.+. .+ ....|+.||+. ++ ++....|+=+.
T Consensus 531 ~~siC~~CGy~~--g~-~~~~CP~CGs~~~ev~sRv~GYl~~v 570 (586)
T TIGR02827 531 KITICNDCHHID--KR-TLHRCPVCGSANIDYGTRVIGYLKRV 570 (586)
T ss_pred CCeecCCCCCcC--CC-cCCcCcCCCCccceEEEeecceecCc
Confidence 346788888631 11 13678888854 33 56667776554
No 268
>PRK14873 primosome assembly protein PriA; Provisional
Probab=47.62 E-value=13 Score=36.80 Aligned_cols=40 Identities=15% Similarity=-0.074 Sum_probs=26.7
Q ss_pred cceeeccCCCccccc--ceeccCCCCCCccccCCCcCccCCCC
Q psy2399 137 INQFFDPIKNIFLPD--RYIKGECPICNAKDQYGDFCECCSSI 177 (232)
Q Consensus 137 ~~~~~~~~~~~~l~~--~~v~g~cp~c~~~~~~g~~Ce~Cg~~ 177 (232)
+...-|+.|+..|.- ..-.-.|.+||... ....|.+||..
T Consensus 390 g~~~~C~~C~~~L~~h~~~~~l~Ch~CG~~~-~p~~Cp~Cgs~ 431 (665)
T PRK14873 390 RTPARCRHCTGPLGLPSAGGTPRCRWCGRAA-PDWRCPRCGSD 431 (665)
T ss_pred cCeeECCCCCCceeEecCCCeeECCCCcCCC-cCccCCCCcCC
Confidence 555668888877653 22234688888765 46778888864
No 269
>COG1867 TRM1 N2,N2-dimethylguanosine tRNA methyltransferase [Translation, ribosomal structure and biogenesis]
Probab=46.74 E-value=2.8 Score=38.29 Aligned_cols=49 Identities=16% Similarity=0.255 Sum_probs=27.5
Q ss_pred CcCccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHh
Q psy2399 169 DFCECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRK 218 (232)
Q Consensus 169 ~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~ 218 (232)
..|..||.......-.+..|+.||.. ...--+-|--+|.+.+|.+++.+
T Consensus 241 ~~c~~cg~~~~~~~~~~~~c~~Cg~~-~~~~GPlW~GpL~d~~f~e~~l~ 289 (380)
T COG1867 241 YHCSRCGEIVGSFREVDEKCPHCGGK-VHLAGPLWLGPLHDEEFIEEMLE 289 (380)
T ss_pred EEcccccceecccccccccCCccccc-ceeccCcccCcccCHHHHHHHHH
Confidence 45666665444444466777777762 22444455555555556555555
No 270
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=46.42 E-value=65 Score=25.57 Aligned_cols=69 Identities=19% Similarity=0.156 Sum_probs=43.7
Q ss_pred hHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhccCCcCCccccC
Q psy2399 30 GHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKKYLDGFYIKFDNWYST 109 (232)
Q Consensus 30 GH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~~l~~lgI~~d~~~~t 109 (232)
||-+ -+.+++|.++..| ++|.+..... +|+|+++.- +.++-+-.+|+ .
T Consensus 24 gHd~---gakvia~~l~d~G-----feVi~~g~~~---------------tp~e~v~aA---~~~dv~vIgvS------s 71 (143)
T COG2185 24 GHDR---GAKVIARALADAG-----FEVINLGLFQ---------------TPEEAVRAA---VEEDVDVIGVS------S 71 (143)
T ss_pred cccc---chHHHHHHHHhCC-----ceEEecCCcC---------------CHHHHHHHH---HhcCCCEEEEE------e
Confidence 6766 4578889999999 9998876543 455544433 23443444443 2
Q ss_pred CChhHHHHHHHHHHHHHhhcCC
Q psy2399 110 DSIENIDLVQKIYDTLYNKAKL 131 (232)
Q Consensus 110 ~~~~~~~~v~~~~~~L~~~kG~ 131 (232)
.+-.|...+..+.+.|. ++|.
T Consensus 72 l~g~h~~l~~~lve~lr-e~G~ 92 (143)
T COG2185 72 LDGGHLTLVPGLVEALR-EAGV 92 (143)
T ss_pred ccchHHHHHHHHHHHHH-HhCC
Confidence 23467777777778787 7663
No 271
>TIGR02443 conserved hypothetical metal-binding protein. Members of this family are small proteins, about 70 residues in length, with a basic triplet near the N-terminus and a probable metal-binding motif CPXCX(18)CXXC. Members are found in various Proteobacteria.
Probab=46.40 E-value=12 Score=25.17 Aligned_cols=15 Identities=53% Similarity=1.285 Sum_probs=10.6
Q ss_pred cceecc-CCCCCCccc
Q psy2399 151 DRYIKG-ECPICNAKD 165 (232)
Q Consensus 151 ~~~v~g-~cp~c~~~~ 165 (232)
-|||.| .||.|.+-+
T Consensus 4 KRFIAGA~CP~C~~~D 19 (59)
T TIGR02443 4 KRFIAGAVCPACSAQD 19 (59)
T ss_pred ceEeccccCCCCcCcc
Confidence 356766 788887754
No 272
>PRK14704 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=46.22 E-value=30 Score=34.01 Aligned_cols=23 Identities=30% Similarity=0.518 Sum_probs=11.9
Q ss_pred CCcCccCCCCCCCccccCCcccCCCCc
Q psy2399 168 GDFCECCSSIYTPTKLINPYSILSGTK 194 (232)
Q Consensus 168 g~~Ce~Cg~~~~~~~l~~~~~~~~g~~ 194 (232)
-+.|..||. . .+ +...|+.||+.
T Consensus 559 ~~~C~~CGy--~-g~-~~~~CP~CG~~ 581 (618)
T PRK14704 559 VDRCKCCSY--H-GV-IGNECPSCGNE 581 (618)
T ss_pred CeecCCCCC--C-CC-cCccCcCCCCC
Confidence 345666664 1 11 23567777654
No 273
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=46.13 E-value=11 Score=31.49 Aligned_cols=24 Identities=33% Similarity=0.791 Sum_probs=14.3
Q ss_pred cCCCCCCcccc-------CC----CcCccCCCCCC
Q psy2399 156 GECPICNAKDQ-------YG----DFCECCSSIYT 179 (232)
Q Consensus 156 g~cp~c~~~~~-------~g----~~Ce~Cg~~~~ 179 (232)
-.||.|+.... .| ..|++||....
T Consensus 7 ~~Cp~Cg~eev~hEVik~~g~~~lvrC~eCG~V~~ 41 (201)
T COG1326 7 IECPSCGSEEVSHEVIKERGREPLVRCEECGTVHP 41 (201)
T ss_pred EECCCCCcchhhHHHHHhcCCceEEEccCCCcEee
Confidence 35777774332 12 24888888763
No 274
>COG0333 RpmF Ribosomal protein L32 [Translation, ribosomal structure and biogenesis]
Probab=46.00 E-value=14 Score=24.57 Aligned_cols=21 Identities=24% Similarity=0.534 Sum_probs=12.3
Q ss_pred CCCCCCccccCCCcCccCCCC
Q psy2399 157 ECPICNAKDQYGDFCECCSSI 177 (232)
Q Consensus 157 ~cp~c~~~~~~g~~Ce~Cg~~ 177 (232)
.||.||...-..-.|-.||.+
T Consensus 29 ~c~~cG~~~l~Hrvc~~cg~Y 49 (57)
T COG0333 29 VCPNCGEYKLPHRVCLKCGYY 49 (57)
T ss_pred eccCCCCcccCceEcCCCCCc
Confidence 466666655555556666643
No 275
>PF09526 DUF2387: Probable metal-binding protein (DUF2387); InterPro: IPR012658 Members of this family are small proteins, about 70 residues in length, with a basic triplet near the N terminus and a probable metal-binding motif CPXCX(18)CXXC. Members are found in various proteobacteria.
Probab=45.97 E-value=12 Score=26.12 Aligned_cols=14 Identities=57% Similarity=1.260 Sum_probs=10.5
Q ss_pred ceecc-CCCCCCccc
Q psy2399 152 RYIKG-ECPICNAKD 165 (232)
Q Consensus 152 ~~v~g-~cp~c~~~~ 165 (232)
|||.| .||.|.+-+
T Consensus 4 rFIAGa~CP~C~~~D 18 (71)
T PF09526_consen 4 RFIAGAVCPKCQAMD 18 (71)
T ss_pred eEecCccCCCCcCcc
Confidence 56777 799998754
No 276
>TIGR01384 TFS_arch transcription factor S, archaeal. There has been an apparent duplication event in the Halobacteriaceae lineage (Haloarcula, Haloferax, Haloquadratum, Halobacterium and Natromonas). There appears to be a separate duplication in Methanosphaera stadtmanae.
Probab=45.56 E-value=17 Score=26.74 Aligned_cols=9 Identities=11% Similarity=-0.101 Sum_probs=3.9
Q ss_pred CcccCCCCc
Q psy2399 186 PYSILSGTK 194 (232)
Q Consensus 186 ~~~~~~g~~ 194 (232)
.+|..||..
T Consensus 17 ~~C~~C~~~ 25 (104)
T TIGR01384 17 YVCPSCGYE 25 (104)
T ss_pred EECcCCCCc
Confidence 344444443
No 277
>smart00504 Ubox Modified RING finger domain. Modified RING finger domain, without the full complement of Zn2+-binding ligands. Probable involvement in E2-dependent ubiquitination.
Probab=45.46 E-value=22 Score=23.06 Aligned_cols=56 Identities=11% Similarity=0.108 Sum_probs=30.0
Q ss_pred CCCCCCccccCCCcCccCCCCCCCccc-----cCCcccCCCCccEEEEccceeEecCChhhHHHHHhh
Q psy2399 157 ECPICNAKDQYGDFCECCSSIYTPTKL-----INPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKW 219 (232)
Q Consensus 157 ~cp~c~~~~~~g~~Ce~Cg~~~~~~~l-----~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~ 219 (232)
.||.|+..... ...-.||+.+.-.-+ .+..|+.||.+... .-..++ ...+..+.+|
T Consensus 3 ~Cpi~~~~~~~-Pv~~~~G~v~~~~~i~~~~~~~~~cP~~~~~~~~----~~l~~~--~~l~~~i~~~ 63 (63)
T smart00504 3 LCPISLEVMKD-PVILPSGQTYERRAIEKWLLSHGTDPVTGQPLTH----EDLIPN--LALKSAIQEW 63 (63)
T ss_pred CCcCCCCcCCC-CEECCCCCEEeHHHHHHHHHHCCCCCCCcCCCCh----hhceeC--HHHHHHHHhC
Confidence 46666665432 345567766653322 15678877766521 123445 5666666554
No 278
>TIGR00354 polC DNA polymerase, archaeal type II, large subunit. This model represents the large subunit, DP2, of a two subunit novel Archaeal replicative DNA polymerase first characterized for Pyrococcus furiosus. Structure of DP2 appears to be organized as a ~950 residue component separated from a ~300 residue component by a ~150 residue intein. The other subunit, DP1, has sequence similarity to the eukaryotic DNA polymerase delta small subunit.
Probab=44.64 E-value=13 Score=38.09 Aligned_cols=21 Identities=24% Similarity=0.784 Sum_probs=16.5
Q ss_pred CCCCCCccccCCCcCccCCCCC
Q psy2399 157 ECPICNAKDQYGDFCECCSSIY 178 (232)
Q Consensus 157 ~cp~c~~~~~~g~~Ce~Cg~~~ 178 (232)
.||.|+... ....|+.||...
T Consensus 627 KCPkCG~yT-lk~rCP~CG~~T 647 (1095)
T TIGR00354 627 KCPQCGKES-FWLKCPVCGELT 647 (1095)
T ss_pred ECCCCCccc-ccccCCCCCCcc
Confidence 899998875 667788888764
No 279
>PF10009 DUF2252: Uncharacterized protein conserved in bacteria (DUF2252); InterPro: IPR018721 This domain has no known function.
Probab=44.56 E-value=65 Score=29.68 Aligned_cols=90 Identities=21% Similarity=0.320 Sum_probs=57.1
Q ss_pred CCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEE-ecCCChh------------hHHHHHHHHHcCCCHH---HHHH
Q psy2399 23 ANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYF-ICADDAH------------GAAIMIAAEKAGMTPK---EFIN 86 (232)
Q Consensus 23 ~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~-~~g~D~~------------G~~i~~~a~~~g~~~~---e~~~ 86 (232)
..|++|++|+-.|- +.+ .++.| +.-+|+. ...|..+++..|.+.. +.+.
T Consensus 46 icGD~Hl~NFG~~~------------~~~---~~~vFdiNDFDEa~~gp~~wDl~Rla~Si~laa~~~gl~~~~~~~~~~ 110 (385)
T PF10009_consen 46 ICGDAHLENFGAFA------------SPE---GRVVFDINDFDEALPGPFEWDLKRLATSIVLAARENGLSDKDARKAVR 110 (385)
T ss_pred EeccchhhccCccc------------CCC---CCEEecCCCCCcCCcCChHHHHHHHHHHHHHHHHHcCCCHHHHHHHHH
Confidence 46999999988652 211 23332 3333431 4688888898898744 5677
Q ss_pred HHHHHHHHHHhccCCc--CCccccCCChhHHHHHHHHHHHHHhhc
Q psy2399 87 NISSNRKKYLDGFYIK--FDNWYSTDSIENIDLVQKIYDTLYNKA 129 (232)
Q Consensus 87 ~~~~~~~~~l~~lgI~--~d~~~~t~~~~~~~~v~~~~~~L~~~k 129 (232)
.+.+.+.+.|..+.=. .+.|+.+. ......+..++.+.. ++
T Consensus 111 ~~~~~Y~~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~ka~-~r 153 (385)
T PF10009_consen 111 AFLEGYREALADYAGMDPLDVWYFTP-DNASGPVRKALKKAR-KR 153 (385)
T ss_pred HHHHHHHHHHHHhcCCChhhceecCc-hhhHHHHHHHHHHHH-Hh
Confidence 8888888888766552 23454343 356677777777776 54
No 280
>PF00301 Rubredoxin: Rubredoxin; InterPro: IPR004039 Rubredoxin is a low molecular weight iron-containing bacterial protein involved in electron transfer [, ], sometimes replacing ferredoxin as an electron carrier []. The 3-D structures of a number of rubredoxins have been solved [, ]. The fold belongs to the alpha+beta class, with 2 alpha-helices and 2-3 beta-strands. Its active site contains an iron ion which is co-ordinated by the sulphurs of four conserved cysteine residues forming an almost regular tetrahedron. The conserved cysteines reside on two loops, which are the most conserved regions of the protein. In addition, a ring of acidic residues in the proximity of the [Fe(Cys)4] centre is also well-conserved []. ; GO: 0009055 electron carrier activity, 0046872 metal ion binding; PDB: 2RDV_C 1RDV_A 1S24_A 1T9O_B 1B2J_A 1SMW_A 2PVE_B 1BFY_A 1T9P_C 1C09_C ....
Probab=43.45 E-value=11 Score=24.11 Aligned_cols=10 Identities=10% Similarity=0.072 Sum_probs=5.2
Q ss_pred CCcccCCCCc
Q psy2399 185 NPYSILSGTK 194 (232)
Q Consensus 185 ~~~~~~~g~~ 194 (232)
+-+|+.||..
T Consensus 34 ~w~CP~C~a~ 43 (47)
T PF00301_consen 34 DWVCPVCGAP 43 (47)
T ss_dssp T-B-TTTSSB
T ss_pred CCcCcCCCCc
Confidence 4477777754
No 281
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=43.29 E-value=11 Score=33.59 Aligned_cols=23 Identities=22% Similarity=0.303 Sum_probs=10.6
Q ss_pred CccCCCCCCCccccC--CcccCCCC
Q psy2399 171 CECCSSIYTPTKLIN--PYSILSGT 193 (232)
Q Consensus 171 Ce~Cg~~~~~~~l~~--~~~~~~g~ 193 (232)
|++|+..+-..+|.. .+|+.||+
T Consensus 41 c~~C~~~~~~~~l~~~~~vcp~c~~ 65 (296)
T CHL00174 41 CENCYGLNYKKFLKSKMNICEQCGY 65 (296)
T ss_pred CCCccchhhHHHHHHcCCCCCCCCC
Confidence 444554444444421 35555554
No 282
>TIGR03655 anti_R_Lar restriction alleviation protein, Lar family. Restriction alleviation proteins provide a countermeasure to host cell restriction enzyme defense against foreign DNA such as phage or plasmids. This family consists of homologs to the phage antirestriction protein Lar, and most members belong to phage genomes or prophage regions of bacterial genomes.
Probab=43.15 E-value=18 Score=23.35 Aligned_cols=10 Identities=40% Similarity=1.159 Sum_probs=7.0
Q ss_pred CCCCCCcccc
Q psy2399 157 ECPICNAKDQ 166 (232)
Q Consensus 157 ~cp~c~~~~~ 166 (232)
-||.||..+.
T Consensus 3 PCPfCGg~~~ 12 (53)
T TIGR03655 3 PCPFCGGADV 12 (53)
T ss_pred CCCCCCCcce
Confidence 4888887653
No 283
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=43.15 E-value=1.6e+02 Score=22.88 Aligned_cols=34 Identities=15% Similarity=0.198 Sum_probs=23.3
Q ss_pred CcEEEEcCCCCCCCcCC-chHHHhHHHHHHHHHHHHHcCCCCCCceeEEec
Q psy2399 12 RRIFVTTALPYANGELH-IGHIMEYIQADIWVRFQCMQQDNGKSRQVYFIC 61 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~lH-iGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~ 61 (232)
+++++.+ +.|+.| +| ..++++++|..| ++|.++-
T Consensus 4 ~~vl~~~----~~gD~H~lG-------~~iv~~~lr~~G-----~eVi~LG 38 (137)
T PRK02261 4 KTVVLGV----IGADCHAVG-------NKILDRALTEAG-----FEVINLG 38 (137)
T ss_pred CEEEEEe----CCCChhHHH-------HHHHHHHHHHCC-----CEEEECC
Confidence 4455554 447777 33 346778899999 9999873
No 284
>PRK08271 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=42.95 E-value=37 Score=33.45 Aligned_cols=24 Identities=17% Similarity=0.321 Sum_probs=12.3
Q ss_pred CCcCccCCCCCCCccccCCcccCCCCc
Q psy2399 168 GDFCECCSSIYTPTKLINPYSILSGTK 194 (232)
Q Consensus 168 g~~Ce~Cg~~~~~~~l~~~~~~~~g~~ 194 (232)
-+.|..||.... -....|+.||+.
T Consensus 566 ~~iC~~CG~~~~---g~~~~CP~CGs~ 589 (623)
T PRK08271 566 ITICNDCHHIDK---RTGKRCPICGSE 589 (623)
T ss_pred CccCCCCCCcCC---CCCcCCcCCCCc
Confidence 345666665311 123566666643
No 285
>PF14369 zf-RING_3: zinc-finger
Probab=42.93 E-value=19 Score=21.35 Aligned_cols=11 Identities=18% Similarity=0.347 Sum_probs=6.3
Q ss_pred eeeccCCCccc
Q psy2399 139 QFFDPIKNIFL 149 (232)
Q Consensus 139 ~~~~~~~~~~l 149 (232)
.|||=.|++++
T Consensus 2 ~ywCh~C~~~V 12 (35)
T PF14369_consen 2 RYWCHQCNRFV 12 (35)
T ss_pred CEeCccCCCEe
Confidence 35666666554
No 286
>COG1327 Predicted transcriptional regulator, consists of a Zn-ribbon and ATP-cone domains [Transcription]
Probab=42.67 E-value=15 Score=29.39 Aligned_cols=27 Identities=30% Similarity=0.722 Sum_probs=16.2
Q ss_pred CCCCCCccccC---------C------CcCccCCCCCCCccc
Q psy2399 157 ECPICNAKDQY---------G------DFCECCSSIYTPTKL 183 (232)
Q Consensus 157 ~cp~c~~~~~~---------g------~~Ce~Cg~~~~~~~l 183 (232)
.||.|+..+.. | -.|++||.-++..|-
T Consensus 2 ~CPfC~~~~tkViDSR~~edg~aIRRRReC~~C~~RFTTfE~ 43 (156)
T COG1327 2 KCPFCGHEDTKVIDSRPAEEGNAIRRRRECLECGERFTTFER 43 (156)
T ss_pred CCCCCCCCCCeeeecccccccchhhhhhcccccccccchhhe
Confidence 58888765432 1 258888866665443
No 287
>COG4640 Predicted membrane protein [Function unknown]
Probab=42.66 E-value=14 Score=34.14 Aligned_cols=24 Identities=25% Similarity=0.402 Sum_probs=16.9
Q ss_pred cCccCCCCCCCccccCCcccCCCCccE
Q psy2399 170 FCECCSSIYTPTKLINPYSILSGTKPI 196 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~~~~~~~~g~~~~ 196 (232)
.|..||......+.. |+.||++..
T Consensus 3 fC~kcG~qk~Ed~~q---C~qCG~~~t 26 (465)
T COG4640 3 FCPKCGSQKAEDDVQ---CTQCGHKFT 26 (465)
T ss_pred ccccccccccccccc---ccccCCcCC
Confidence 588888766665543 888888654
No 288
>PF04981 NMD3: NMD3 family ; InterPro: IPR007064 The NMD3 protein is involved in nonsense mediated mRNA decay. This N-terminal region contains four conserved CXXC motifs that could be metal binding. NMD3 is involved in export of the 60S ribosomal subunit is mediated by the adapter protein Nmd3p in a Crm1p-dependent pathway [].
Probab=42.53 E-value=18 Score=30.90 Aligned_cols=37 Identities=19% Similarity=0.361 Sum_probs=19.0
Q ss_pred CCCCCccccCC--CcCccCCCCC-----CCccccCCcccCCCCc
Q psy2399 158 CPICNAKDQYG--DFCECCSSIY-----TPTKLINPYSILSGTK 194 (232)
Q Consensus 158 cp~c~~~~~~g--~~Ce~Cg~~~-----~~~~l~~~~~~~~g~~ 194 (232)
||.||.+.... ..|..|=.-- -|..+.=-.|+.||.-
T Consensus 1 C~~CG~~~~~~~~~lC~~C~~~~~~i~ei~~~i~v~~C~~Cg~~ 44 (236)
T PF04981_consen 1 CPRCGREIEPLIDGLCPDCYLKRFDIIEIPDRIEVTICPKCGRY 44 (236)
T ss_pred CCCCCCCCCCcccccChHHhcccCCeeecCCccCceECCCCCCE
Confidence 55555544332 4555554211 1333444688888873
No 289
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=42.49 E-value=15 Score=27.78 Aligned_cols=18 Identities=22% Similarity=-0.129 Sum_probs=8.3
Q ss_pred cCCEEecccceeeccCCC
Q psy2399 129 AKLIINKKINQFFDPIKN 146 (232)
Q Consensus 129 kG~iy~~~~~~~~~~~~~ 146 (232)
.-+.........+|..|+
T Consensus 60 A~L~I~~vp~~~~C~~Cg 77 (113)
T PRK12380 60 CDLHIVYKPAQAWCWDCS 77 (113)
T ss_pred CEEEEEeeCcEEEcccCC
Confidence 334444444555544444
No 290
>PF14803 Nudix_N_2: Nudix N-terminal; PDB: 3CNG_C.
Probab=42.41 E-value=9.8 Score=22.53 Aligned_cols=6 Identities=17% Similarity=0.108 Sum_probs=2.7
Q ss_pred cccCCC
Q psy2399 187 YSILSG 192 (232)
Q Consensus 187 ~~~~~g 192 (232)
+|..||
T Consensus 24 vC~~Cg 29 (34)
T PF14803_consen 24 VCPACG 29 (34)
T ss_dssp EETTTT
T ss_pred ECCCCC
Confidence 444444
No 291
>PHA02942 putative transposase; Provisional
Probab=42.10 E-value=13 Score=34.18 Aligned_cols=28 Identities=25% Similarity=0.424 Sum_probs=15.0
Q ss_pred cceeccCCCCCCcccc----CCCcCccCCCCC
Q psy2399 151 DRYIKGECPICNAKDQ----YGDFCECCSSIY 178 (232)
Q Consensus 151 ~~~v~g~cp~c~~~~~----~g~~Ce~Cg~~~ 178 (232)
..+-+.+||.||.... .-..|+.||...
T Consensus 321 p~yTSq~Cs~CG~~~~~l~~r~f~C~~CG~~~ 352 (383)
T PHA02942 321 PSYSSVSCPKCGHKMVEIAHRYFHCPSCGYEN 352 (383)
T ss_pred CCCCCccCCCCCCccCcCCCCEEECCCCCCEe
Confidence 3345577888876432 113455555543
No 292
>PRK14715 DNA polymerase II large subunit; Provisional
Probab=42.04 E-value=16 Score=38.80 Aligned_cols=20 Identities=25% Similarity=0.763 Sum_probs=11.9
Q ss_pred CCCCCCccccCCCcCccCCCC
Q psy2399 157 ECPICNAKDQYGDFCECCSSI 177 (232)
Q Consensus 157 ~cp~c~~~~~~g~~Ce~Cg~~ 177 (232)
.||.|+... ....|+.||..
T Consensus 676 ~Cp~Cg~~~-~~~~Cp~CG~~ 695 (1627)
T PRK14715 676 KCPKCGKVG-LYHVCPFCGTR 695 (1627)
T ss_pred eCCCCCCcc-ccccCcccCCc
Confidence 677777764 34445555554
No 293
>TIGR01610 phage_O_Nterm phage replication protein O, N-terminal domain. This model represents the N-terminal region of the phage lambda replication protein O and homologous regions of other phage proteins.
Probab=42.02 E-value=43 Score=24.21 Aligned_cols=31 Identities=10% Similarity=0.134 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHhhcCCEEecccceeeccCC
Q psy2399 114 NIDLVQKIYDTLYNKAKLIINKKINQFFDPIK 145 (232)
Q Consensus 114 ~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~ 145 (232)
.+..|.+++.+|. ++|+|.+......++++.
T Consensus 60 sr~tVsr~L~~Le-~~GlI~r~~~~~~~~~n~ 90 (95)
T TIGR01610 60 SRTHVSDAIKSLA-RRRIIFRQGMMGIVGVNT 90 (95)
T ss_pred CHHHHHHHHHHHH-HCCCeeeecCCceeecCC
Confidence 3567899999999 999999888778887654
No 294
>cd07153 Fur_like Ferric uptake regulator(Fur) and related metalloregulatory proteins; typically iron-dependent, DNA-binding repressors and activators. Ferric uptake regulator (Fur) and related metalloregulatory proteins are iron-dependent, DNA-binding repressors and activators mainly involved in iron metabolism. A general model for Fur repression under iron-rich conditions is that activated Fur (a dimer having one Fe2+ coordinated per monomer) binds to specific DNA sequences (Fur boxes) in the promoter region of iron-responsive genes, hindering access of RNA polymerase, and repressing transcription. Positive regulation by Fur can be direct or indirect, as in the Fur repression of an anti-sense regulatory small RNA. Some members sense metal ions other than Fe2+. For example, the zinc uptake regulator (Zur) responds to Zn2+, the manganese uptake regulator (Mur) responds to Mn2+, and the nickel uptake regulator (Nur) responds to Ni2+. Other members sense signals other than metal ions.
Probab=41.92 E-value=57 Score=23.95 Aligned_cols=28 Identities=14% Similarity=0.160 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHhhcCCEEecc---cceeecc
Q psy2399 115 IDLVQKIYDTLYNKAKLIINKK---INQFFDP 143 (232)
Q Consensus 115 ~~~v~~~~~~L~~~kG~iy~~~---~~~~~~~ 143 (232)
...|-..++.|. +.|+|.+-. ...+|+.
T Consensus 35 ~~TVYR~L~~L~-~~Gli~~~~~~~~~~~y~~ 65 (116)
T cd07153 35 LATVYRTLELLE-EAGLVREIELGDGKARYEL 65 (116)
T ss_pred HHHHHHHHHHHH-hCCCEEEEEeCCCceEEEe
Confidence 355678889999 999997642 3356644
No 295
>COG2260 Predicted Zn-ribbon RNA-binding protein [Translation, ribosomal structure and biogenesis]
Probab=40.89 E-value=17 Score=24.32 Aligned_cols=20 Identities=15% Similarity=0.257 Sum_probs=10.7
Q ss_pred ccEEEEccceeEecCChhhHHHHHhh
Q psy2399 194 KPIIKSSKHFFFKLSDKRCIDFLRKW 219 (232)
Q Consensus 194 ~~~~~~~~~~f~~L~~~~~~~~l~~~ 219 (232)
++-..+++.| .+|+-.|..-
T Consensus 32 PprFSPeD~y------~kYR~~lkk~ 51 (59)
T COG2260 32 PPRFSPEDKY------GKYRRELKKR 51 (59)
T ss_pred CCCCCccchH------HHHHHHHHHH
Confidence 4444555544 5666666554
No 296
>PRK13264 3-hydroxyanthranilate 3,4-dioxygenase; Provisional
Probab=40.64 E-value=17 Score=29.89 Aligned_cols=21 Identities=10% Similarity=-0.086 Sum_probs=15.8
Q ss_pred cccceeeccCCCcccccceec
Q psy2399 135 KKINQFFDPIKNIFLPDRYIK 155 (232)
Q Consensus 135 ~~~~~~~~~~~~~~l~~~~v~ 155 (232)
.+.-.|||..|+..|.+.++.
T Consensus 116 ~d~~~wyc~~c~~~~~e~~f~ 136 (177)
T PRK13264 116 LDGFQWYCDECNHKVHEVEVQ 136 (177)
T ss_pred ccceEEECCCCCCeEEEEEEE
Confidence 345679999999988876553
No 297
>PRK06450 threonine synthase; Validated
Probab=40.50 E-value=20 Score=32.32 Aligned_cols=31 Identities=29% Similarity=0.307 Sum_probs=19.6
Q ss_pred cccCCCCccEEEEccceeEecCChh------hHHHHHhhh
Q psy2399 187 YSILSGTKPIIKSSKHFFFKLSDKR------CIDFLRKWA 220 (232)
Q Consensus 187 ~~~~~g~~~~~~~~~~~f~~L~~~~------~~~~l~~~~ 220 (232)
++..-|.+|..+ ..++|||+ +. |+|+....+
T Consensus 52 vslgeG~TPLv~-~~~l~~K~--E~~nPTGSfKDRga~~~ 88 (338)
T PRK06450 52 ISLGEGRTPLIK-KGNIWFKL--DFLNPTGSYKDRGSVTL 88 (338)
T ss_pred CCCCCCCCCcee-cCCEEEEe--cCCCCcCCCHHHHHHHH
Confidence 444456666654 45799999 44 777765553
No 298
>PRK11595 DNA utilization protein GntX; Provisional
Probab=40.48 E-value=21 Score=30.16 Aligned_cols=36 Identities=17% Similarity=0.213 Sum_probs=18.6
Q ss_pred ccCCCcccccceeccCCCCCCccccC-CCcCccCCCCC
Q psy2399 142 DPIKNIFLPDRYIKGECPICNAKDQY-GDFCECCSSIY 178 (232)
Q Consensus 142 ~~~~~~~l~~~~v~g~cp~c~~~~~~-g~~Ce~Cg~~~ 178 (232)
|.-|+..+.... .+.|+.|...-.. ...|..||+..
T Consensus 8 C~~C~~~~~~~~-~~lC~~C~~~l~~~~~~C~~Cg~~~ 44 (227)
T PRK11595 8 CWLCRMPLALSH-WGICSVCSRALRTLKTCCPQCGLPA 44 (227)
T ss_pred CccCCCccCCCC-CcccHHHHhhCCcccCcCccCCCcC
Confidence 556666553221 2356666554322 23477777654
No 299
>PF14671 DSPn: Dual specificity protein phosphatase, N-terminal half; PDB: 1OHD_A 1OHE_A 1OHC_A.
Probab=40.21 E-value=32 Score=27.18 Aligned_cols=37 Identities=8% Similarity=0.258 Sum_probs=18.7
Q ss_pred CCcCCchHHHhHHH-HHHHHHHHHHcCCCCCCceeEEecCCCh
Q psy2399 24 NGELHIGHIMEYIQ-ADIWVRFQCMQQDNGKSRQVYFICADDA 65 (232)
Q Consensus 24 nG~lHiGH~~~~v~-~Dvl~R~lr~~G~~~~~~~v~~~~g~D~ 65 (232)
-|||||||++.+.. -+-+-+--...+ ..|.+-++.|.
T Consensus 41 FGPlnL~~lyrfc~~l~~~L~~~~~~~-----k~iv~yts~d~ 78 (141)
T PF14671_consen 41 FGPLNLAQLYRFCCKLNKKLKSPELKK-----KKIVHYTSSDP 78 (141)
T ss_dssp -----HHHHHHHHHHHHHHHH-GGGTT-----SEEEEEE-S-H
T ss_pred CCCccHHHHHHHHHHHHHHHcCHHhcC-----CeEEEECCCCh
Confidence 59999999998632 222222223467 89999998876
No 300
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=40.20 E-value=1.7e+02 Score=23.95 Aligned_cols=80 Identities=14% Similarity=0.238 Sum_probs=46.3
Q ss_pred CCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHH
Q psy2399 11 VRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISS 90 (232)
Q Consensus 11 ~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~ 90 (232)
++++++.++ .|+.|- +-.-+++.+++..| ++|.+. |. +.+++++++...+
T Consensus 82 ~~~vl~~~~----~gd~H~------lG~~~v~~~l~~~G-----~~vi~l-G~--------------~~p~~~l~~~~~~ 131 (201)
T cd02070 82 KGKVVIGTV----EGDIHD------IGKNLVATMLEANG-----FEVIDL-GR--------------DVPPEEFVEAVKE 131 (201)
T ss_pred CCeEEEEec----CCccch------HHHHHHHHHHHHCC-----CEEEEC-CC--------------CCCHHHHHHHHHH
Confidence 456666653 488883 33456677889999 999665 33 2455555554431
Q ss_pred HHHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcC
Q psy2399 91 NRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAK 130 (232)
Q Consensus 91 ~~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG 130 (232)
..-+-++++ .+...+...+..++..|. +++
T Consensus 132 ---~~~d~v~lS------~~~~~~~~~~~~~i~~lr-~~~ 161 (201)
T cd02070 132 ---HKPDILGLS------ALMTTTMGGMKEVIEALK-EAG 161 (201)
T ss_pred ---cCCCEEEEe------ccccccHHHHHHHHHHHH-HCC
Confidence 122233333 222245667778888887 664
No 301
>COG1040 ComFC Predicted amidophosphoribosyltransferases [General function prediction only]
Probab=40.13 E-value=14 Score=31.41 Aligned_cols=26 Identities=23% Similarity=0.488 Sum_probs=21.0
Q ss_pred cCCCCCCccccCCC-cCccCCCCCCCc
Q psy2399 156 GECPICNAKDQYGD-FCECCSSIYTPT 181 (232)
Q Consensus 156 g~cp~c~~~~~~g~-~Ce~Cg~~~~~~ 181 (232)
+.|+.|.+.-.... .|+.||...+..
T Consensus 25 ~~C~~C~~~~~~~~~~C~~C~~~l~~~ 51 (225)
T COG1040 25 GLCSGCQADLPLIGNLCPLCGLPLSSH 51 (225)
T ss_pred CcChhhhhchhHHHhhhHhhhChhccc
Confidence 89999998776554 599999988765
No 302
>cd02156 nt_trans nucleotidyl transferase superfamily. nt_trans (nucleotidyl transferase) This superfamily includes the class I amino-acyl tRNA synthetases, pantothenate synthetase (PanC), ATP sulfurylase, and the cytidylyltransferases, all of which have a conserved dinucleotide-binding domain.
Probab=40.10 E-value=28 Score=25.34 Aligned_cols=12 Identities=50% Similarity=0.642 Sum_probs=9.9
Q ss_pred CCCCcCCchHHHh
Q psy2399 22 YANGELHIGHIME 34 (232)
Q Consensus 22 ~~nG~lHiGH~~~ 34 (232)
++ |++|+||...
T Consensus 7 ~F-dp~H~GH~~l 18 (105)
T cd02156 7 EP-GYLHIGHAKL 18 (105)
T ss_pred CC-CCCCHHHHHH
Confidence 44 8999999984
No 303
>PRK06386 replication factor A; Reviewed
Probab=40.04 E-value=20 Score=32.75 Aligned_cols=29 Identities=21% Similarity=0.398 Sum_probs=19.5
Q ss_pred eccCCCCCCccccCCCcCccCCCCCCCccc
Q psy2399 154 IKGECPICNAKDQYGDFCECCSSIYTPTKL 183 (232)
Q Consensus 154 v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l 183 (232)
+-.+||.|...-..| +|..||..-...+|
T Consensus 235 li~rCP~C~R~l~~g-~C~~HG~v~~~~dl 263 (358)
T PRK06386 235 IFTKCSVCNKIIEDG-VCKDHPDAPVYLDI 263 (358)
T ss_pred eEecCcCCCeEccCC-cCCCCCCCCCeeEE
Confidence 345888888877654 78888874444444
No 304
>PRK05638 threonine synthase; Validated
Probab=39.83 E-value=22 Score=33.26 Aligned_cols=24 Identities=25% Similarity=0.538 Sum_probs=11.7
Q ss_pred CccCCCCCCCccccCCcccCCCCccEE
Q psy2399 171 CECCSSIYTPTKLINPYSILSGTKPII 197 (232)
Q Consensus 171 Ce~Cg~~~~~~~l~~~~~~~~g~~~~~ 197 (232)
|..||+.+.+... ++| .||..+++
T Consensus 4 C~~Cg~~~~~~~~--~~C-~c~~~l~~ 27 (442)
T PRK05638 4 CPKCGREYNSYIP--PFC-ICGELLEI 27 (442)
T ss_pred eCCCCCCCCCCCc--eec-CCCCcEEE
Confidence 5555555543222 555 45555444
No 305
>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]
Probab=39.78 E-value=30 Score=31.51 Aligned_cols=20 Identities=10% Similarity=0.064 Sum_probs=13.4
Q ss_pred ccCCcccCCCCccEEEEccc
Q psy2399 183 LINPYSILSGTKPIIKSSKH 202 (232)
Q Consensus 183 l~~~~~~~~g~~~~~~~~~~ 202 (232)
..++.|+.||.+.++...-+
T Consensus 70 ~~~~~C~~cg~~~~l~R~VS 89 (415)
T COG5257 70 TTEPKCPNCGAETELVRRVS 89 (415)
T ss_pred ccCCCCCCCCCCccEEEEEE
Confidence 35678888888777655444
No 306
>PF02150 RNA_POL_M_15KD: RNA polymerases M/15 Kd subunit; InterPro: IPR001529 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. In archaebacteria, there is generally a single form of RNA polymerase which also consist of an oligomeric assemblage of 10 to 13 polypeptides. It has recently been shown [], [] that small subunits of about 15 kDa, found in polymerase types I and II, are highly conserved. These proteins contain a probable zinc finger in their N-terminal region and a C-terminal zinc ribbon domain (see IPR001222 from INTERPRO).; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 3H0G_I 3M4O_I 3S14_I 2E2J_I 4A3J_I 3HOZ_I 1TWA_I 3S1Q_I 3S1N_I 1TWG_I ....
Probab=39.74 E-value=16 Score=21.69 Aligned_cols=11 Identities=27% Similarity=0.890 Sum_probs=4.9
Q ss_pred CccCCCCCCCc
Q psy2399 171 CECCSSIYTPT 181 (232)
Q Consensus 171 Ce~Cg~~~~~~ 181 (232)
|..||..+.+.
T Consensus 4 Cp~C~nlL~p~ 14 (35)
T PF02150_consen 4 CPECGNLLYPK 14 (35)
T ss_dssp ETTTTSBEEEE
T ss_pred CCCCCccceEc
Confidence 44444444433
No 307
>COG2401 ABC-type ATPase fused to a predicted acetyltransferase domain [General function prediction only]
Probab=39.47 E-value=20 Score=33.86 Aligned_cols=27 Identities=26% Similarity=0.469 Sum_probs=13.6
Q ss_pred CccCCCCCCCccccCCcccCCCCccEEEEc
Q psy2399 171 CECCSSIYTPTKLINPYSILSGTKPIIKSS 200 (232)
Q Consensus 171 Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~ 200 (232)
|+.||.+..+. ..|.| .||..+.+++.
T Consensus 133 c~~cg~~iean--~kp~c-~cg~~~~~~ei 159 (593)
T COG2401 133 CEKCGTIIEAN--TKPEC-KCGSHVHILEI 159 (593)
T ss_pred cchhchhhhhc--CCccc-CCCCceEEEEe
Confidence 55555554332 23566 46665554443
No 308
>PF14354 Lar_restr_allev: Restriction alleviation protein Lar
Probab=39.16 E-value=16 Score=23.98 Aligned_cols=9 Identities=44% Similarity=1.364 Sum_probs=5.9
Q ss_pred CCCCCCccc
Q psy2399 157 ECPICNAKD 165 (232)
Q Consensus 157 ~cp~c~~~~ 165 (232)
-||.||...
T Consensus 5 PCPFCG~~~ 13 (61)
T PF14354_consen 5 PCPFCGSAD 13 (61)
T ss_pred CCCCCCCcc
Confidence 488886543
No 309
>PF05129 Elf1: Transcription elongation factor Elf1 like; InterPro: IPR007808 This family of uncharacterised, mostly short, proteins contain a putative zinc binding domain with four conserved cysteines.; PDB: 1WII_A.
Probab=39.14 E-value=14 Score=26.35 Aligned_cols=56 Identities=11% Similarity=0.107 Sum_probs=25.5
Q ss_pred ccCCCCCCccccCCCcCccCCCCCCCccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhh
Q psy2399 155 KGECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKW 219 (232)
Q Consensus 155 ~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~ 219 (232)
...||.|+.+. +..|-. -....+..-.|..||..-+.. ...+.=++ .-|.+|+-..
T Consensus 22 ~F~CPfC~~~~-----sV~v~i-dkk~~~~~~~C~~Cg~~~~~~-i~~L~epi--DVY~~wiD~~ 77 (81)
T PF05129_consen 22 VFDCPFCNHEK-----SVSVKI-DKKEGIGILSCRVCGESFQTK-INPLSEPI--DVYSEWIDAC 77 (81)
T ss_dssp ----TTT--SS------EEEEE-ETTTTEEEEEESSS--EEEEE---SS--TT--HHHHHHHHHH
T ss_pred eEcCCcCCCCC-----eEEEEE-EccCCEEEEEecCCCCeEEEc-cCccCccc--chhHHHHHHH
Confidence 45788887432 122211 111233445889998877755 66776777 7788887766
No 310
>PRK01103 formamidopyrimidine/5-formyluracil/ 5-hydroxymethyluracil DNA glycosylase; Validated
Probab=39.08 E-value=53 Score=28.64 Aligned_cols=35 Identities=11% Similarity=-0.029 Sum_probs=18.3
Q ss_pred HHhccCCcCCccccCCChhH----HHHHHHHHHHHHhhcC
Q psy2399 95 YLDGFYIKFDNWYSTDSIEN----IDLVQKIYDTLYNKAK 130 (232)
Q Consensus 95 ~l~~lgI~~d~~~~t~~~~~----~~~v~~~~~~L~~~kG 130 (232)
.|-+.+|++..-..+.++.- ...+..++.... +.|
T Consensus 179 iLf~a~I~P~~~~~~Ls~~~~~~L~~~~~~vl~~ai-~~g 217 (274)
T PRK01103 179 ALFRAGIHPERPAGSLSRAEAERLVDAIKAVLAEAI-EQG 217 (274)
T ss_pred HHHHcCCCccCccccCCHHHHHHHHHHHHHHHHHHH-HcC
Confidence 44566777666655554332 234445555555 444
No 311
>PRK11595 DNA utilization protein GntX; Provisional
Probab=38.77 E-value=17 Score=30.77 Aligned_cols=35 Identities=17% Similarity=0.406 Sum_probs=17.7
Q ss_pred CCCCCCccccCC--CcCccCCCCCCCccccCCcccCCCCc
Q psy2399 157 ECPICNAKDQYG--DFCECCSSIYTPTKLINPYSILSGTK 194 (232)
Q Consensus 157 ~cp~c~~~~~~g--~~Ce~Cg~~~~~~~l~~~~~~~~g~~ 194 (232)
.|..|+...... ..|+.|-..+.. ..+.|..||.+
T Consensus 7 ~C~~C~~~~~~~~~~lC~~C~~~l~~---~~~~C~~Cg~~ 43 (227)
T PRK11595 7 LCWLCRMPLALSHWGICSVCSRALRT---LKTCCPQCGLP 43 (227)
T ss_pred cCccCCCccCCCCCcccHHHHhhCCc---ccCcCccCCCc
Confidence 466666543211 356666554432 13566666654
No 312
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=38.70 E-value=14 Score=24.06 Aligned_cols=10 Identities=40% Similarity=0.966 Sum_probs=7.5
Q ss_pred CcCccCCCCC
Q psy2399 169 DFCECCSSIY 178 (232)
Q Consensus 169 ~~Ce~Cg~~~ 178 (232)
..|++||+++
T Consensus 47 ~~Cp~CgRiL 56 (56)
T PF02591_consen 47 VFCPNCGRIL 56 (56)
T ss_pred EECcCCCccC
Confidence 4588999874
No 313
>PF09567 RE_MamI: MamI restriction endonuclease; InterPro: IPR019067 There are four classes of restriction endonucleases: types I, II,III and IV. All types of enzymes recognise specific short DNA sequences and carry out the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. They differ in their recognition sequence, subunit composition, cleavage position, and cofactor requirements [, ], as summarised below: Type I enzymes (3.1.21.3 from EC) cleave at sites remote from recognition site; require both ATP and S-adenosyl-L-methionine to function; multifunctional protein with both restriction and methylase (2.1.1.72 from EC) activities. Type II enzymes (3.1.21.4 from EC) cleave within or at short specific distances from recognition site; most require magnesium; single function (restriction) enzymes independent of methylase. Type III enzymes (3.1.21.5 from EC) cleave at sites a short distance from recognition site; require ATP (but doesn't hydrolyse it); S-adenosyl-L-methionine stimulates reaction but is not required; exists as part of a complex with a modification methylase methylase (2.1.1.72 from EC). Type IV enzymes target methylated DNA. Type II restriction endonucleases (3.1.21.4 from EC) are components of prokaryotic DNA restriction-modification mechanisms that protect the organism against invading foreign DNA. These site-specific deoxyribonucleases catalyse the endonucleolytic cleavage of DNA to give specific double-stranded fragments with terminal 5'-phosphates. Of the 3000 restriction endonucleases that have been characterised, most are homodimeric or tetrameric enzymes that cleave target DNA at sequence-specific sites close to the recognition site. For homodimeric enzymes, the recognition site is usually a palindromic sequence 4-8 bp in length. Most enzymes require magnesium ions as a cofactor for catalysis. Although they can vary in their mode of recognition, many restriction endonucleases share a similar structural core comprising four beta-strands and one alpha-helix, as well as a similar mechanism of cleavage, suggesting a common ancestral origin []. However, there is still considerable diversity amongst restriction endonucleases [, ]. The target site recognition process triggers large conformational changes of the enzyme and the target DNA, leading to the activation of the catalytic centres. Like other DNA binding proteins, restriction enzymes are capable of non-specific DNA binding as well, which is the prerequisite for efficient target site location by facilitated diffusion. Non-specific binding usually does not involve interactions with the bases but only with the DNA backbone []. This entry includes the MamI restriction endonuclease which recognises and cleaves GATNN^NNATC. ; GO: 0003677 DNA binding, 0009036 Type II site-specific deoxyribonuclease activity, 0009307 DNA restriction-modification system
Probab=38.60 E-value=18 Score=31.42 Aligned_cols=46 Identities=17% Similarity=0.371 Sum_probs=30.1
Q ss_pred cCccCCCCCCCccccCCcccCCCCccEE-EEccceeEecCChhhHHHHHhhhhc
Q psy2399 170 FCECCSSIYTPTKLINPYSILSGTKPII-KSSKHFFFKLSDKRCIDFLRKWAIH 222 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~-~~~~~~f~~L~~~~~~~~l~~~~~~ 222 (232)
.|-+||.....-| -.|+.||+.... ....+|-|.+ .-.+++.++ ++
T Consensus 84 ~C~~CGa~V~~~e---~~Cp~C~StnI~r~DdSkWl~~i---r~d~E~~e~-L~ 130 (314)
T PF09567_consen 84 KCNNCGANVSRLE---ESCPNCGSTNIKRKDDSKWLFGI---RSDDEFEEY-LN 130 (314)
T ss_pred hhccccceeeehh---hcCCCCCcccccccCCcceeccc---ccHHHHHHh-cC
Confidence 4888887665433 457778887664 5566787777 445666776 44
No 314
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=38.58 E-value=22 Score=28.90 Aligned_cols=11 Identities=9% Similarity=0.120 Sum_probs=7.6
Q ss_pred CCcccCCCCcc
Q psy2399 185 NPYSILSGTKP 195 (232)
Q Consensus 185 ~~~~~~~g~~~ 195 (232)
..+|++||++-
T Consensus 149 P~~CPiCga~k 159 (166)
T COG1592 149 PEVCPICGAPK 159 (166)
T ss_pred CCcCCCCCChH
Confidence 35788888753
No 315
>PF03698 UPF0180: Uncharacterised protein family (UPF0180); InterPro: IPR005370 The members of this family are small uncharacterised proteins.
Probab=38.01 E-value=39 Score=24.06 Aligned_cols=52 Identities=12% Similarity=0.150 Sum_probs=30.3
Q ss_pred HHHHHHHcCC------CC---CCceeEEecCCChhhHHHHHHH------HHcCCCHHHHHHHHHHHH
Q psy2399 41 WVRFQCMQQD------NG---KSRQVYFICADDAHGAAIMIAA------EKAGMTPKEFINNISSNR 92 (232)
Q Consensus 41 l~R~lr~~G~------~~---~~~~v~~~~g~D~~G~~i~~~a------~~~g~~~~e~~~~~~~~~ 92 (232)
+..+|+.+|| +. +..++..+.|-|..=.-++... ...|++++|+++...+.+
T Consensus 13 v~~~L~~~GyeVv~l~~~~~~~~~daiVvtG~~~n~mg~~d~~~~~pVInA~G~T~eEI~~~v~~rl 79 (80)
T PF03698_consen 13 VKEALREKGYEVVDLENEQDLQNVDAIVVTGQDTNMMGIQDTSTKVPVINASGLTAEEIVQEVEERL 79 (80)
T ss_pred HHHHHHHCCCEEEecCCccccCCcCEEEEECCCcccccccccccCceEEecCCCCHHHHHHHHHHhh
Confidence 5678899994 00 0134446666665433233222 236899999988876543
No 316
>smart00653 eIF2B_5 domain present in translation initiation factor eIF2B and eIF5.
Probab=38.01 E-value=14 Score=27.93 Aligned_cols=17 Identities=12% Similarity=0.173 Sum_probs=10.2
Q ss_pred HHHHHHHcCCCHHHHHH
Q psy2399 70 IMIAAEKAGMTPKEFIN 86 (232)
Q Consensus 70 i~~~a~~~g~~~~e~~~ 86 (232)
+...|+.++.+|+-+..
T Consensus 24 f~~I~~~L~R~p~hv~k 40 (110)
T smart00653 24 FADIAKALNRPPDHVLK 40 (110)
T ss_pred HHHHHHHHCCCHHHHHH
Confidence 35566677777655543
No 317
>cd01411 SIR2H SIR2H: Uncharacterized prokaryotic Sir2 homologs from several gram positive bacterial species and Fusobacteria; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=37.92 E-value=20 Score=30.34 Aligned_cols=25 Identities=20% Similarity=0.571 Sum_probs=17.1
Q ss_pred cCccCCCCCCCcccc-CCcccCCCCc
Q psy2399 170 FCECCSSIYTPTKLI-NPYSILSGTK 194 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~-~~~~~~~g~~ 194 (232)
+|..|+..+.-.+.. .|+|..||+.
T Consensus 120 ~C~~C~~~~~~~~~~~~p~C~~Cgg~ 145 (225)
T cd01411 120 YCTVCGKTVDWEEYLKSPYHAKCGGV 145 (225)
T ss_pred EeCCCCCccchhhcCCCCCCCCCCCE
Confidence 577787766544433 4899999874
No 318
>TIGR01562 FdhE formate dehydrogenase accessory protein FdhE. The only sequence scoring between trusted and noise is that from Aquifex aeolicus, which shows certain structural differences from the proteobacterial forms in the alignment. However it is notable that A. aeolicus also has a sequence scoring above trusted to the alpha subunit of formate dehydrogenase (TIGR01553).
Probab=37.91 E-value=25 Score=31.39 Aligned_cols=36 Identities=17% Similarity=0.266 Sum_probs=21.5
Q ss_pred eccCCCcccccc----------eeccCCCCCCccccCC-CcCccCCC
Q psy2399 141 FDPIKNIFLPDR----------YIKGECPICNAKDQYG-DFCECCSS 176 (232)
Q Consensus 141 ~~~~~~~~l~~~----------~v~g~cp~c~~~~~~g-~~Ce~Cg~ 176 (232)
+||.|+..=.-+ .---+|..|+..=.+. -.|..||.
T Consensus 186 ~CPvCGs~P~~s~~~~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 232 (305)
T TIGR01562 186 LCPACGSPPVASMVRQGGKETGLRYLSCSLCATEWHYVRVKCSHCEE 232 (305)
T ss_pred cCCCCCChhhhhhhcccCCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 788888852111 1122688887654333 45888885
No 319
>PF13597 NRDD: Anaerobic ribonucleoside-triphosphate reductase; PDB: 1HK8_A 1H78_A 1H7A_A 1H79_A 1H7B_A.
Probab=37.63 E-value=9.2 Score=36.93 Aligned_cols=35 Identities=14% Similarity=0.202 Sum_probs=14.4
Q ss_pred CcCccCCCCCCCccccCCcccCCCCc-cE-EEEccceeEec
Q psy2399 169 DFCECCSSIYTPTKLINPYSILSGTK-PI-IKSSKHFFFKL 207 (232)
Q Consensus 169 ~~Ce~Cg~~~~~~~l~~~~~~~~g~~-~~-~~~~~~~f~~L 207 (232)
+.|.+||..... ...|+.||++ ++ ++....|+=++
T Consensus 492 ~~C~~CG~~~~~----~~~CP~CGs~~~~~~~Rv~GYl~~v 528 (546)
T PF13597_consen 492 DICPDCGYIGGE----GDKCPKCGSENIEVYSRVTGYLRPV 528 (546)
T ss_dssp EEETTT---S------EEE-CCC----EEEEB-SSSS-BTT
T ss_pred ccccCCCcCCCC----CCCCCCCCCcccceEEEeeccccCc
Confidence 456666654321 3467777776 44 56666776655
No 320
>PF11781 RRN7: RNA polymerase I-specific transcription initiation factor Rrn7; InterPro: IPR021752 Rrn7 is a transcription binding factor that associates strongly with both Rrn6 and Rrn11 to form a complex which itself binds the TATA-binding protein and is required for transcription by the core domain of the RNA PolI promoter [],[].
Probab=37.22 E-value=15 Score=21.91 Aligned_cols=8 Identities=25% Similarity=0.409 Sum_probs=4.4
Q ss_pred cccCCCCc
Q psy2399 187 YSILSGTK 194 (232)
Q Consensus 187 ~~~~~g~~ 194 (232)
.|..||+.
T Consensus 27 yC~~cG~~ 34 (36)
T PF11781_consen 27 YCDRCGHQ 34 (36)
T ss_pred EhhhCceE
Confidence 45556654
No 321
>PLN02674 adenylate kinase
Probab=37.19 E-value=2.7e+02 Score=23.93 Aligned_cols=127 Identities=16% Similarity=0.106 Sum_probs=60.2
Q ss_pred hhHHHHHHHHHcCCCHHHHHHHHHHHHHHHHh-ccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccceeeccC
Q psy2399 66 HGAAIMIAAEKAGMTPKEFINNISSNRKKYLD-GFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQFFDPI 144 (232)
Q Consensus 66 ~G~~i~~~a~~~g~~~~e~~~~~~~~~~~~l~-~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~ 144 (232)
.|..+.....+-.+-|.+++..+......... .-|+-.|-|.||.. .++.+-..|. ..|. .-+...+++..
T Consensus 76 ~g~~i~~~~~~G~lvpd~iv~~lv~~~l~~~~~~~g~ilDGfPRt~~-----Qa~~l~~~l~-~~~~--~~d~vi~l~v~ 147 (244)
T PLN02674 76 LGIKAKEAMDKGELVSDDLVVGIIDEAMKKPSCQKGFILDGFPRTVV-----QAQKLDEMLA-KQGA--KIDKVLNFAID 147 (244)
T ss_pred hhHHHHHHHHcCCccCHHHHHHHHHHHHhCcCcCCcEEEeCCCCCHH-----HHHHHHHHHH-hcCC--CCCEEEEEECC
Confidence 45566555553334466666555443332221 23445577777652 2333333344 4442 12233444443
Q ss_pred CCcccccceeccCCCCCCccccCCCcCccCCCCCCCc---cccCCcccCCCCccEEEEccceeEecCChhhHHHHHhh
Q psy2399 145 KNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPT---KLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKW 219 (232)
Q Consensus 145 ~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~---~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~ 219 (232)
.+..+ +| +.|+ -.|..||+.|... ......|..||.+.+.|..++ . +..+.+|..|
T Consensus 148 ~~~l~-~R-l~gR-----------~~~~~~g~~yn~~~~pp~~~~~~~~~g~~L~~R~DD~----~--e~i~~RL~~Y 206 (244)
T PLN02674 148 DAILE-ER-ITGR-----------WIHPSSGRTYHTKFAPPKVPGVDDVTGEPLIQRKDDT----A--AVLKSRLEAF 206 (244)
T ss_pred HHHHH-HH-Hhcc-----------ccccccCCccccccCCCcccCcccccCCccccCCCCC----H--HHHHHHHHHH
Confidence 33222 11 1111 1255555544211 012456778888877777665 3 5666677666
No 322
>PF11672 DUF3268: Protein of unknown function (DUF3268); InterPro: IPR021686 This entry is represented by Listeria phage P100, Gp150. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches.
Probab=36.70 E-value=26 Score=26.12 Aligned_cols=10 Identities=30% Similarity=0.962 Sum_probs=7.1
Q ss_pred CCCCCCcccc
Q psy2399 157 ECPICNAKDQ 166 (232)
Q Consensus 157 ~cp~c~~~~~ 166 (232)
.||+|+.+..
T Consensus 4 ~CpYCg~~~~ 13 (102)
T PF11672_consen 4 ICPYCGGPAE 13 (102)
T ss_pred ccCCCCCeeE
Confidence 5888887653
No 323
>PRK08197 threonine synthase; Validated
Probab=36.67 E-value=25 Score=32.26 Aligned_cols=27 Identities=15% Similarity=0.479 Sum_probs=16.1
Q ss_pred cCccCCCCCCCccccCCcccCCCCccEEE
Q psy2399 170 FCECCSSIYTPTKLINPYSILSGTKPIIK 198 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~ 198 (232)
.|..||+.+.+++. .++| .||.+.+++
T Consensus 9 ~C~~Cg~~~~~~~~-~~~C-~cg~~l~~~ 35 (394)
T PRK08197 9 ECSKCGETYDADQV-HNLC-KCGKPLLVR 35 (394)
T ss_pred EECCCCCCCCCCCc-ceec-CCCCeeEEE
Confidence 46667766665544 3567 577665544
No 324
>PRK09263 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=36.67 E-value=49 Score=33.11 Aligned_cols=44 Identities=9% Similarity=0.097 Sum_probs=25.5
Q ss_pred CCCCCCccccCCCcCccCCCCCCCccc----cCCcccCCCCcc-----EEEEcccee
Q psy2399 157 ECPICNAKDQYGDFCECCSSIYTPTKL----INPYSILSGTKP-----IIKSSKHFF 204 (232)
Q Consensus 157 ~cp~c~~~~~~g~~Ce~Cg~~~~~~~l----~~~~~~~~g~~~-----~~~~~~~~f 204 (232)
.+|+-+-.. .-+.|..||.. .++ ....|+.||+.. .++....|+
T Consensus 631 ~i~Y~~in~-~~~~C~~CG~~---Ge~~~~~~~~~CP~CG~~~~~~~~v~~Ri~GYl 683 (711)
T PRK09263 631 RVGYLGTNT-PIDECYECGFT---GEFECTEKGFTCPKCGNHDPKTVSVTRRTCGYL 683 (711)
T ss_pred CCCeEEeCC-CCcccCCCCCC---ccccCCCCCCcCcCCCCCCCcceeEEEeecccc
Confidence 355544432 34678888851 111 135788888642 467777776
No 325
>PF14149 YhfH: YhfH-like protein
Probab=36.66 E-value=6.8 Score=23.73 Aligned_cols=19 Identities=32% Similarity=0.906 Sum_probs=10.4
Q ss_pred cCCCCCCccc-----cCCCcCccC
Q psy2399 156 GECPICNAKD-----QYGDFCECC 174 (232)
Q Consensus 156 g~cp~c~~~~-----~~g~~Ce~C 174 (232)
..|+.||... .|+..|+.|
T Consensus 14 K~C~~CG~~i~EQ~E~Y~n~C~~C 37 (37)
T PF14149_consen 14 KKCTECGKEIEEQAECYGNECDRC 37 (37)
T ss_pred cccHHHHHHHHHHHHHHhCcCCCC
Confidence 3566666532 355666655
No 326
>TIGR00269 conserved hypothetical protein TIGR00269.
Probab=36.57 E-value=18 Score=26.74 Aligned_cols=19 Identities=26% Similarity=0.829 Sum_probs=13.6
Q ss_pred ccCCCCCCccccCCCcCccC
Q psy2399 155 KGECPICNAKDQYGDFCECC 174 (232)
Q Consensus 155 ~g~cp~c~~~~~~g~~Ce~C 174 (232)
.+.|..||.++ .|+.|--|
T Consensus 80 ~~~C~~CG~ps-s~~iC~~C 98 (104)
T TIGR00269 80 LRRCERCGEPT-SGRICKAC 98 (104)
T ss_pred CCcCCcCcCcC-CccccHhh
Confidence 45788888886 56677666
No 327
>PF13453 zf-TFIIB: Transcription factor zinc-finger
Probab=36.26 E-value=33 Score=20.73 Aligned_cols=12 Identities=8% Similarity=0.199 Sum_probs=5.8
Q ss_pred ceeEecCChhhHHH
Q psy2399 202 HFFFKLSDKRCIDF 215 (232)
Q Consensus 202 ~~f~~L~~~~~~~~ 215 (232)
..+|+. ..|..+
T Consensus 27 G~W~d~--~el~~~ 38 (41)
T PF13453_consen 27 GIWFDA--GELEKL 38 (41)
T ss_pred eEEccH--HHHHHH
Confidence 455555 444433
No 328
>COG3171 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=36.18 E-value=84 Score=23.93 Aligned_cols=46 Identities=9% Similarity=-0.013 Sum_probs=31.0
Q ss_pred HHHhccCCcCC--ccccCCChhHHHHHHHHHHHHHhhcCCEEecccce
Q psy2399 94 KYLDGFYIKFD--NWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQ 139 (232)
Q Consensus 94 ~~l~~lgI~~d--~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~ 139 (232)
.-++.||.++. .--.|+.....+.+..++..++..+|+.|.+....
T Consensus 24 ~EFQeLgF~v~~~~~eg~~ae~~dea~drFidevI~~Ngl~~~G~~~~ 71 (119)
T COG3171 24 GEFQELGFSVQWSFHEGTSAEDVDEAVDRFIDEVIAPNGLAFAGSGYL 71 (119)
T ss_pred HHHHhhheeeEEEecCCccHHHHHHHHHHHHHHHHccCceeEcCCcce
Confidence 34566666443 33345556788899999999993459999876433
No 329
>cd07973 Spt4 Transcription elongation factor Spt4. Spt4 is a transcription elongation factor. Three transcription-elongation factors Spt4, Spt5, and Spt6, are conserved among eukaryotes and are essential for transcription via the modulation of chromatin structure. It is known that Spt4, Spt5, and Spt6 are general transcription-elongation factors, controlling transcription both positively and negatively in important regulatory and developmental roles. Spt4 functions entirely in the context of the Spt4-Spt5 heterodimer and it has been found only as a complex to Spt5 in Yeast and Human. Spt4 is a small protein that has zinc finger at the N-terminus. Spt5 is a large protein that has several interesting structural features of an acidic N-terminus, a single NGN domain, five or six KOW domains, and a set of simple C-termianl repeats. Spt4 binds to Spt5 NGN domain. Unlike Spt5, Spt4 is not essential for viability in yeast, however Spt4 is critical for normal function of the Spt4-Spt5 compl
Probab=36.14 E-value=51 Score=24.38 Aligned_cols=10 Identities=10% Similarity=0.557 Sum_probs=6.3
Q ss_pred hhhHHHHHhh
Q psy2399 210 KRCIDFLRKW 219 (232)
Q Consensus 210 ~~~~~~l~~~ 219 (232)
..-..|+.+|
T Consensus 55 dP~~SwVAk~ 64 (98)
T cd07973 55 DPEKSWVARW 64 (98)
T ss_pred CCchhHHHHH
Confidence 3456677777
No 330
>TIGR00686 phnA alkylphosphonate utilization operon protein PhnA. The protein family includes an uncharacterized member designated phnA in Escherichia coli, part of a large operon associated with alkylphosphonate uptake and carbon-phosphorus bond cleavage. This protein is not related to the characterized phosphonoacetate hydrolase designated PhnA by Kulakova, et al. (2001, 1997).
Probab=36.10 E-value=18 Score=27.27 Aligned_cols=26 Identities=27% Similarity=0.723 Sum_probs=18.0
Q ss_pred CCCCCCccccCC----CcCccCCCCCCCcc
Q psy2399 157 ECPICNAKDQYG----DFCECCSSIYTPTK 182 (232)
Q Consensus 157 ~cp~c~~~~~~g----~~Ce~Cg~~~~~~~ 182 (232)
.||.|.++-.|. ..|+.||.-.++.+
T Consensus 4 ~CP~C~seytY~dg~~~iCpeC~~EW~~~~ 33 (109)
T TIGR00686 4 PCPKCNSEYTYHDGTQLICPSCLYEWNENE 33 (109)
T ss_pred cCCcCCCcceEecCCeeECccccccccccc
Confidence 588888766554 35888887776554
No 331
>PF01475 FUR: Ferric uptake regulator family; InterPro: IPR002481 The Ferric uptake regulator (FUR) family includes metal ion uptake regulator proteins. These are responsible for controlling the intracellular concentration of iron in many bacteria. Although iron is essential for most organisms, high concentrations can be toxic because of the formation of hydroxyl radicals []. FURs can also control zinc homeostasis [] and is the subject of research on the pathogenesis of mycobacteria.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 1MZB_A 2RGV_B 2FE3_B 3F8N_B 3EYY_B 2W57_A 2FU4_A 2O03_A 3MWM_B 2XIG_B ....
Probab=36.02 E-value=67 Score=23.87 Aligned_cols=30 Identities=20% Similarity=0.167 Sum_probs=21.3
Q ss_pred HHHHHHHHHHHHhhcCCEEecc---cceeeccCC
Q psy2399 115 IDLVQKIYDTLYNKAKLIINKK---INQFFDPIK 145 (232)
Q Consensus 115 ~~~v~~~~~~L~~~kG~iy~~~---~~~~~~~~~ 145 (232)
...|-+.++.|. +.|+|.+-. ...+|+...
T Consensus 42 ~~TVYR~L~~L~-e~Gli~~~~~~~~~~~Y~~~~ 74 (120)
T PF01475_consen 42 LATVYRTLDLLE-EAGLIRKIEFGDGESRYELST 74 (120)
T ss_dssp HHHHHHHHHHHH-HTTSEEEEEETTSEEEEEESS
T ss_pred HHHHHHHHHHHH-HCCeEEEEEcCCCcceEeecC
Confidence 456778889999 999997743 445665443
No 332
>KOG2907|consensus
Probab=36.02 E-value=13 Score=28.14 Aligned_cols=17 Identities=12% Similarity=-0.072 Sum_probs=9.9
Q ss_pred eeeccCCCcccccceec
Q psy2399 139 QFFDPIKNIFLPDRYIK 155 (232)
Q Consensus 139 ~~~~~~~~~~l~~~~v~ 155 (232)
.-||..|+..|...-.+
T Consensus 7 ~~FC~~CG~ll~~~~~~ 23 (116)
T KOG2907|consen 7 LDFCSDCGSLLEEPSAQ 23 (116)
T ss_pred cchhhhhhhhccccccc
Confidence 34666777766654443
No 333
>PF13717 zinc_ribbon_4: zinc-ribbon domain
Probab=35.71 E-value=19 Score=21.38 Aligned_cols=9 Identities=11% Similarity=-0.097 Sum_probs=5.4
Q ss_pred CcccCCCCc
Q psy2399 186 PYSILSGTK 194 (232)
Q Consensus 186 ~~~~~~g~~ 194 (232)
-+|..||+.
T Consensus 26 v~C~~C~~~ 34 (36)
T PF13717_consen 26 VRCSKCGHV 34 (36)
T ss_pred EECCCCCCE
Confidence 466777653
No 334
>PRK03564 formate dehydrogenase accessory protein FdhE; Provisional
Probab=35.66 E-value=29 Score=31.12 Aligned_cols=37 Identities=19% Similarity=0.430 Sum_probs=21.5
Q ss_pred eeccCCCcccccce-----ecc----CCCCCCccccCC-CcCccCCC
Q psy2399 140 FFDPIKNIFLPDRY-----IKG----ECPICNAKDQYG-DFCECCSS 176 (232)
Q Consensus 140 ~~~~~~~~~l~~~~-----v~g----~cp~c~~~~~~g-~~Ce~Cg~ 176 (232)
-+||.|+..=.-+. -.| .|+.|+..=.+. -.|..||.
T Consensus 188 ~~CPvCGs~P~~s~v~~~~~~G~RyL~CslC~teW~~~R~~C~~Cg~ 234 (309)
T PRK03564 188 QFCPVCGSMPVSSVVQIGTTQGLRYLHCNLCESEWHVVRVKCSNCEQ 234 (309)
T ss_pred CCCCCCCCcchhheeeccCCCCceEEEcCCCCCcccccCccCCCCCC
Confidence 47888887621111 123 677777654333 45888885
No 335
>PF06792 UPF0261: Uncharacterised protein family (UPF0261); InterPro: IPR008322 The proteins in this entry are functionally uncharacterised.
Probab=35.35 E-value=1.3e+02 Score=27.98 Aligned_cols=49 Identities=14% Similarity=0.068 Sum_probs=39.5
Q ss_pred HHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHH------cCCCHHHHHHHHH
Q psy2399 36 IQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEK------AGMTPKEFINNIS 89 (232)
Q Consensus 36 v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~------~g~~~~e~~~~~~ 89 (232)
-..|.+.+.|+..| |+|...-.+-.-|...+..+++ +.++.-|++++..
T Consensus 198 p~V~~~~~~Le~~G-----~Ev~VFHAtG~GG~aME~Li~~G~~~~VlDlTttEl~d~l~ 252 (403)
T PF06792_consen 198 PCVDAIRERLEEEG-----YEVLVFHATGTGGRAMERLIREGQFDGVLDLTTTELADELF 252 (403)
T ss_pred HHHHHHHHHHHhcC-----CeEEEEcCCCCchHHHHHHHHcCCcEEEEECcHHHHHHHHh
Confidence 35788888999999 9999887777788888888876 3467889988875
No 336
>PRK08579 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=34.94 E-value=59 Score=32.06 Aligned_cols=25 Identities=16% Similarity=0.219 Sum_probs=14.0
Q ss_pred CCCcCccCCCCCCCccccCCcccCCCCc
Q psy2399 167 YGDFCECCSSIYTPTKLINPYSILSGTK 194 (232)
Q Consensus 167 ~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~ 194 (232)
..+.|..||..+.- ....|+.||+.
T Consensus 567 ~~~~C~~CG~~~~g---~~~~CP~CGs~ 591 (625)
T PRK08579 567 AITVCNKCGRSTTG---LYTRCPRCGSE 591 (625)
T ss_pred CCccCCCCCCccCC---CCCcCcCCCCc
Confidence 34567777763311 13577777753
No 337
>COG1056 NadR Nicotinamide mononucleotide adenylyltransferase [Coenzyme metabolism]
Probab=34.85 E-value=46 Score=27.24 Aligned_cols=28 Identities=18% Similarity=0.345 Sum_probs=20.5
Q ss_pred cCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCCh
Q psy2399 26 ELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDA 65 (232)
Q Consensus 26 ~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~ 65 (232)
|+|.||+. ++.+.+.... ++..+.|++.
T Consensus 14 P~H~GHl~------vi~~al~~vD------eliI~iGSa~ 41 (172)
T COG1056 14 PLHTGHLY------VIKRALSKVD------ELIIVIGSAQ 41 (172)
T ss_pred CccHhHHH------HHHHHHHhCC------EEEEEEccCc
Confidence 58999998 4455555544 8888898864
No 338
>PF06906 DUF1272: Protein of unknown function (DUF1272); InterPro: IPR010696 This family consists of several hypothetical bacterial proteins of around 80 residues in length. This family contains a number of conserved cysteine residues and its function is unknown.
Probab=34.65 E-value=26 Score=23.24 Aligned_cols=15 Identities=13% Similarity=0.089 Sum_probs=9.6
Q ss_pred CCcccCCCCccEEEE
Q psy2399 185 NPYSILSGTKPIIKS 199 (232)
Q Consensus 185 ~~~~~~~g~~~~~~~ 199 (232)
..+|+-||...+.|+
T Consensus 41 ~~~CPNCgGelv~RP 55 (57)
T PF06906_consen 41 NGVCPNCGGELVRRP 55 (57)
T ss_pred cCcCcCCCCccccCC
Confidence 566777776666554
No 339
>PF13597 NRDD: Anaerobic ribonucleoside-triphosphate reductase; PDB: 1HK8_A 1H78_A 1H7A_A 1H79_A 1H7B_A.
Probab=34.61 E-value=30 Score=33.39 Aligned_cols=21 Identities=38% Similarity=0.702 Sum_probs=7.6
Q ss_pred CCCCCCccccCCCcCccCCCC
Q psy2399 157 ECPICNAKDQYGDFCECCSSI 177 (232)
Q Consensus 157 ~cp~c~~~~~~g~~Ce~Cg~~ 177 (232)
.|+.||.....++.|+.||..
T Consensus 493 ~C~~CG~~~~~~~~CP~CGs~ 513 (546)
T PF13597_consen 493 ICPDCGYIGGEGDKCPKCGSE 513 (546)
T ss_dssp EETTT---S--EEE-CCC---
T ss_pred cccCCCcCCCCCCCCCCCCCc
Confidence 566666655555567777764
No 340
>PRK07218 replication factor A; Provisional
Probab=34.60 E-value=27 Score=32.65 Aligned_cols=30 Identities=20% Similarity=0.358 Sum_probs=20.2
Q ss_pred eeccCCCCCCccccCCCcCccCCCCCCCccc
Q psy2399 153 YIKGECPICNAKDQYGDFCECCSSIYTPTKL 183 (232)
Q Consensus 153 ~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l 183 (232)
-+..+||.|+..-.. .+|..||..--..+|
T Consensus 295 gli~rCP~C~r~v~~-~~C~~hG~ve~~~dl 324 (423)
T PRK07218 295 GLIERCPECGRVIQK-GQCRSHGAVEGEDDL 324 (423)
T ss_pred cceecCcCccccccC-CcCCCCCCcCCeeee
Confidence 334589999887755 469999976433333
No 341
>smart00345 HTH_GNTR helix_turn_helix gluconate operon transcriptional repressor.
Probab=34.59 E-value=73 Score=19.81 Aligned_cols=26 Identities=15% Similarity=0.124 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHhhcCCEEecccceee
Q psy2399 115 IDLVQKIYDTLYNKAKLIINKKINQFF 141 (232)
Q Consensus 115 ~~~v~~~~~~L~~~kG~iy~~~~~~~~ 141 (232)
...+...+.+|. +.|++....+.+|+
T Consensus 34 ~~tv~~~l~~L~-~~g~i~~~~~~g~~ 59 (60)
T smart00345 34 RTTVREALSRLE-AEGLVQRRPGSGTF 59 (60)
T ss_pred HHHHHHHHHHHH-HCCCEEEecCCeeE
Confidence 467889999999 99999877666654
No 342
>TIGR00308 TRM1 tRNA(guanine-26,N2-N2) methyltransferase. This enzyme is responsible for two methylations of a characteristic guanine of most tRNA molecules. The activity has been demonstrated for eukaryotic and archaeal proteins, which are active when expressed in E. coli, a species that lacks this enzyme. At least one Eubacterium, Aquifex aeolicus, has an ortholog, as do all completed archaeal genomes.
Probab=33.99 E-value=22 Score=32.66 Aligned_cols=46 Identities=17% Similarity=0.158 Sum_probs=24.8
Q ss_pred eeEEecCCChh---hHHHHHHHHHcCCCH------HHHH-HHHHHHHHHHHhccCC
Q psy2399 56 QVYFICADDAH---GAAIMIAAEKAGMTP------KEFI-NNISSNRKKYLDGFYI 101 (232)
Q Consensus 56 ~v~~~~g~D~~---G~~i~~~a~~~g~~~------~e~~-~~~~~~~~~~l~~lgI 101 (232)
.+.+++.||.. |..-+...++.|..| .|.. .-....+.+...+++.
T Consensus 141 glL~vTaTD~~~L~G~~~~~~~rkYga~~~~~~~~~E~glRiLlg~i~r~Aa~~~~ 196 (374)
T TIGR00308 141 GLLLVTATDTSALCGNYPKSCLRKYGANPVKTESCHESALRLLLGFVKRTAAKYEK 196 (374)
T ss_pred CEEEEEecccHHhcCCChHHHHHHhCCcccCCcchHHHHHHHHHHHHHHHHHHcCC
Confidence 47788878753 445555556655322 2332 2234455555566664
No 343
>TIGR00595 priA primosomal protein N'. All proteins in this family for which functions are known are components of the primosome which is involved in replication, repair, and recombination.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=33.87 E-value=31 Score=32.93 Aligned_cols=47 Identities=19% Similarity=0.322 Sum_probs=31.9
Q ss_pred cceeeccCCCcccccceeccCCCCCCccccC-----CCcCccCCCCCCCccccCCcccCCCCc
Q psy2399 137 INQFFDPIKNIFLPDRYIKGECPICNAKDQY-----GDFCECCSSIYTPTKLINPYSILSGTK 194 (232)
Q Consensus 137 ~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~-----g~~Ce~Cg~~~~~~~l~~~~~~~~g~~ 194 (232)
.+...|.+|+..+ .||.|..+..+ .-.|--||.... ....|+.||+.
T Consensus 211 a~~~~C~~Cg~~~-------~C~~C~~~l~~h~~~~~l~Ch~Cg~~~~----~~~~Cp~C~s~ 262 (505)
T TIGR00595 211 SKNLLCRSCGYIL-------CCPNCDVSLTYHKKEGKLRCHYCGYQEP----IPKTCPQCGSE 262 (505)
T ss_pred CCeeEhhhCcCcc-------CCCCCCCceEEecCCCeEEcCCCcCcCC----CCCCCCCCCCC
Confidence 3455788887653 69999855432 245888987543 34589999885
No 344
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=33.68 E-value=23 Score=31.48 Aligned_cols=23 Identities=17% Similarity=0.372 Sum_probs=11.5
Q ss_pred CccCCCCCCCccccC--CcccCCCC
Q psy2399 171 CECCSSIYTPTKLIN--PYSILSGT 193 (232)
Q Consensus 171 Ce~Cg~~~~~~~l~~--~~~~~~g~ 193 (232)
|+.|+..+-..+|.. .+|+.||+
T Consensus 30 c~~c~~~~~~~~l~~~~~vc~~c~~ 54 (292)
T PRK05654 30 CPSCGQVLYRKELEANLNVCPKCGH 54 (292)
T ss_pred CCCccchhhHHHHHhcCCCCCCCCC
Confidence 555555554444421 35555554
No 345
>PF12387 Peptidase_C74: Pestivirus NS2 peptidase; InterPro: IPR022120 The pestivirus NS2 peptidase is responsible for single cleavage between NS2 and NS3 of the Bovine viral diarrhea virus 1 polyprotein, a cleavage that is correlated with cytopathogenicity []. The peptidase is activated by its interaction with 'J-domain protein interacting with viral protein' - Jiv. ; GO: 0003968 RNA-directed RNA polymerase activity, 0004197 cysteine-type endopeptidase activity, 0004252 serine-type endopeptidase activity, 0016817 hydrolase activity, acting on acid anhydrides, 0017111 nucleoside-triphosphatase activity, 0070008 serine-type exopeptidase activity
Probab=33.63 E-value=23 Score=29.02 Aligned_cols=24 Identities=25% Similarity=0.700 Sum_probs=18.7
Q ss_pred CCCCCCccccCCCcCccCCCCCCC
Q psy2399 157 ECPICNAKDQYGDFCECCSSIYTP 180 (232)
Q Consensus 157 ~cp~c~~~~~~g~~Ce~Cg~~~~~ 180 (232)
-|--|......|.-|+.||+.-.|
T Consensus 164 lCtvCe~r~w~g~~CPKCGr~G~p 187 (200)
T PF12387_consen 164 LCTVCEGREWKGGNCPKCGRHGKP 187 (200)
T ss_pred EEeeeecCccCCCCCCcccCCCCC
Confidence 567788888888889999987554
No 346
>PRK03094 hypothetical protein; Provisional
Probab=33.62 E-value=50 Score=23.53 Aligned_cols=46 Identities=15% Similarity=0.185 Sum_probs=28.9
Q ss_pred HHHHHHHcCCCCCCceeE--------------EecCCChhhHHHHHHH------HHcCCCHHHHHHHHHHH
Q psy2399 41 WVRFQCMQQDNGKSRQVY--------------FICADDAHGAAIMIAA------EKAGMTPKEFINNISSN 91 (232)
Q Consensus 41 l~R~lr~~G~~~~~~~v~--------------~~~g~D~~G~~i~~~a------~~~g~~~~e~~~~~~~~ 91 (232)
+..+|+.+| |+|. .+.|-|..=+-++..+ ...|++++|+++...+.
T Consensus 13 i~~~L~~~G-----YeVv~l~~~~~~~~~Da~VitG~d~n~mgi~d~~t~~pVI~A~G~TaeEI~~~ve~r 78 (80)
T PRK03094 13 VQQALKQKG-----YEVVQLRSEQDAQGCDCCVVTGQDSNVMGIADTSTKGSVITASGLTADEICQQVESR 78 (80)
T ss_pred HHHHHHHCC-----CEEEecCcccccCCcCEEEEeCCCcceecccccccCCcEEEcCCCCHHHHHHHHHHh
Confidence 678999999 6664 3444444333333333 23689999988877543
No 347
>cd06545 GH18_3CO4_chitinase The Bacteroides thetaiotaomicron protein represented by pdb structure 3CO4 is an uncharacterized bacterial member of the family 18 glycosyl hydrolases with homologs found in Flavobacterium, Stigmatella, and Pseudomonas.
Probab=33.46 E-value=1.4e+02 Score=25.37 Aligned_cols=104 Identities=14% Similarity=0.094 Sum_probs=49.5
Q ss_pred EEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHH
Q psy2399 15 FVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKK 94 (232)
Q Consensus 15 ~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~ 94 (232)
++...-++++|.+.+.+-..- . +.+.+..+..| .+|....|-...+..... + .++ +..+++.+.+.+
T Consensus 27 ~~~f~~i~~~G~l~~~~~~~~-~-~~~~~~~~~~~-----~kvl~sigg~~~~~~~~~-~----~~~-~~r~~fi~~lv~ 93 (253)
T cd06545 27 NLAFANPDANGTLNANPVRSE-L-NSVVNAAHAHN-----VKILISLAGGSPPEFTAA-L----NDP-AKRKALVDKIIN 93 (253)
T ss_pred EEEEEEECCCCeEEecCcHHH-H-HHHHHHHHhCC-----CEEEEEEcCCCCCcchhh-h----cCH-HHHHHHHHHHHH
Confidence 334445677888877532111 1 22333445568 888877664433321111 0 111 122233333333
Q ss_pred HHhcc---CCcCCccccCC-ChhHHHHHHHHHHHHHhhcCCE
Q psy2399 95 YLDGF---YIKFDNWYSTD-SIENIDLVQKIYDTLYNKAKLI 132 (232)
Q Consensus 95 ~l~~l---gI~~d~~~~t~-~~~~~~~v~~~~~~L~~~kG~i 132 (232)
.++.. ||++|...... ...+..+++++-..|. ..|++
T Consensus 94 ~~~~~~~DGIdiDwE~~~~~~~~~~~fv~~Lr~~l~-~~~~~ 134 (253)
T cd06545 94 YVVSYNLDGIDVDLEGPDVTFGDYLVFIRALYAALK-KEGKL 134 (253)
T ss_pred HHHHhCCCceeEEeeccCccHhHHHHHHHHHHHHHh-hcCcE
Confidence 33333 34444432222 2356677777777776 66654
No 348
>PF07394 DUF1501: Protein of unknown function (DUF1501); InterPro: IPR010869 This family contains a number of hypothetical bacterial proteins of unknown function approximately 400 residues long.
Probab=32.69 E-value=1.4e+02 Score=27.08 Aligned_cols=57 Identities=14% Similarity=-0.015 Sum_probs=40.4
Q ss_pred HHHHHHHHHHHHHcCCCCCCceeEEec--CCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhccCC
Q psy2399 35 YIQADIWVRFQCMQQDNGKSRQVYFIC--ADDAHGAAIMIAAEKAGMTPKEFINNISSNRKKYLDGFYI 101 (232)
Q Consensus 35 ~v~~Dvl~R~lr~~G~~~~~~~v~~~~--g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~~l~~lgI 101 (232)
++..=+++|-+...| .+|.++. |||.|+......+..+ .-.+.-...|.++|+..|+
T Consensus 231 ~~~~~l~a~~~~~~g-----~~v~~V~~gGwDTH~~~~~~~~~ll-----~~L~~alaaf~~dL~~~g~ 289 (392)
T PF07394_consen 231 FGQQLLLARRLIEAG-----VRVVFVSLGGWDTHSNQGNRHARLL-----PELDQALAAFIQDLKERGL 289 (392)
T ss_pred HHHHHHHHHHHhhcC-----CEEEEECCCCccCccccHhHHHHHH-----HHHHHHHHHHHHHHHhcCC
Confidence 455557778777778 8898886 9999986544443332 3355666788888898887
No 349
>PF03033 Glyco_transf_28: Glycosyltransferase family 28 N-terminal domain; InterPro: IPR004276 The biosynthesis of disaccharides, oligosaccharides and polysaccharides involves the action of hundreds of different glycosyltransferases. These enzymes catalyse the transfer of sugar moieties from activated donor molecules to specific acceptor molecules, forming glycosidic bonds. A classification of glycosyltransferases using nucleotide diphospho-sugar, nucleotide monophospho-sugar and sugar phosphates (2.4.1.- from EC) and related proteins into distinct sequence based families has been described []. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. The same three-dimensional fold is expected to occur within each of the families. Because 3-D structures are better conserved than sequences, several of the families defined on the basis of sequence similarities may have similar 3-D structures and therefore form 'clans'. Glycosyltransferase family 28 GT28 from CAZY comprises enzymes with a number of known activities; 1,2-diacylglycerol 3-beta-galactosyltransferase (2.4.1.46 from EC); 1,2-diacylglycerol 3-beta-glucosyltransferase (2.4.1.157 from EC); beta-N-acetylglucosamine transferase (2.4.1 from EC).; GO: 0016758 transferase activity, transferring hexosyl groups, 0005975 carbohydrate metabolic process, 0030259 lipid glycosylation; PDB: 2IYF_B 2YJN_A 2P6P_A 1PNV_A 3H4T_A 3H4I_A 1PN3_B 3IA7_B 1NLM_B 1F0K_B ....
Probab=32.66 E-value=61 Score=24.17 Aligned_cols=26 Identities=15% Similarity=0.276 Sum_probs=20.5
Q ss_pred chHHHhHHHHHHHHHHHHHcCCCCCCceeEEecC
Q psy2399 29 IGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICA 62 (232)
Q Consensus 29 iGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g 62 (232)
-||+.+++ .+++-|+.+| ++|.+...
T Consensus 9 ~Ghv~P~l---ala~~L~~rG-----h~V~~~~~ 34 (139)
T PF03033_consen 9 RGHVYPFL---ALARALRRRG-----HEVRLATP 34 (139)
T ss_dssp HHHHHHHH---HHHHHHHHTT------EEEEEET
T ss_pred hhHHHHHH---HHHHHHhccC-----CeEEEeec
Confidence 59999876 6888999999 99996654
No 350
>PF13901 DUF4206: Domain of unknown function (DUF4206)
Probab=32.49 E-value=21 Score=29.78 Aligned_cols=34 Identities=24% Similarity=0.558 Sum_probs=24.1
Q ss_pred CCCCCCccccCCCcCccCC--CCCCCccc-cCCcccCCCC
Q psy2399 157 ECPICNAKDQYGDFCECCS--SIYTPTKL-INPYSILSGT 193 (232)
Q Consensus 157 ~cp~c~~~~~~g~~Ce~Cg--~~~~~~~l-~~~~~~~~g~ 193 (232)
.|+-|.+ .|..||-|. .++-|.++ .-.+|..|++
T Consensus 144 ~C~lC~~---kGfiCe~C~~~~~IfPF~~~~~~~C~~C~~ 180 (202)
T PF13901_consen 144 SCELCQQ---KGFICEICNSDDIIFPFQIDTTVRCPKCKS 180 (202)
T ss_pred HhHHHHh---CCCCCccCCCCCCCCCCCCCCeeeCCcCcc
Confidence 7888866 578899887 44556666 5567777765
No 351
>PF06093 Spt4: Spt4/RpoE2 zinc finger; InterPro: IPR022800 This entry consists of several eukaryotic transcription elongation Spt4 proteins as well as archaebacterial RpoE2 []. Three transcription-elongation factors Spt4, Spt5, and Spt6 are conserved among eukaryotes and are essential for transcription via the modulation of chromatin structure. Spt4 and Spt5 are tightly associated in a complex, while the physical association of the Spt4-Spt5 complex with Spt6 is considerably weaker. It has been demonstrated that Spt4, Spt5, and Spt6 play roles in transcription elongation in both yeast and humans including a role in activation by Tat. It is known that Spt4, Spt5, and Spt6 are general transcription-elongation factors, controlling transcription both positively and negatively in important regulatory and developmental roles []. RpoE2 is one of 13 subunits in the archaeal RNA polymerase. These proteins contain a C4-type zinc finger, and the structure has been solved in []. The structure reveals that Spt4-Spt5 binding is governed by an acid-dipole interaction between Spt5 and Spt4, and the complex binds to and travels along the elongating RNA polymerase. The Spt4-Spt5 complex is likely to be an ancient, core component of the transcription elongation machinery. ; PDB: 2EXU_A 3H7H_A 3LPE_F 3P8B_A 1RYQ_A 3QQC_E.
Probab=32.49 E-value=13 Score=26.30 Aligned_cols=20 Identities=10% Similarity=0.260 Sum_probs=10.4
Q ss_pred EEccceeEecCChhhHHHHHhh
Q psy2399 198 KSSKHFFFKLSDKRCIDFLRKW 219 (232)
Q Consensus 198 ~~~~~~f~~L~~~~~~~~l~~~ 219 (232)
..-+.+..-+ ..-..|+.+|
T Consensus 42 ~~f~G~i~i~--~P~~SwvAk~ 61 (77)
T PF06093_consen 42 PNFEGMIAIM--DPEKSWVAKW 61 (77)
T ss_dssp SSEEEEEEES---TTT-HHHHH
T ss_pred CCCcCEEEEC--CCchhHHHHh
Confidence 3334455556 4555777777
No 352
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=32.38 E-value=25 Score=32.80 Aligned_cols=28 Identities=18% Similarity=0.360 Sum_probs=18.4
Q ss_pred CccCCCCCCCccccC---CcccCCCCccEEE
Q psy2399 171 CECCSSIYTPTKLIN---PYSILSGTKPIIK 198 (232)
Q Consensus 171 Ce~Cg~~~~~~~l~~---~~~~~~g~~~~~~ 198 (232)
|+.||....-..+.. .+|+.||++...+
T Consensus 13 C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~~~ 43 (419)
T PRK15103 13 CPQCDMLVALPRLEHGQKAACPRCGTTLTVR 43 (419)
T ss_pred CCCCCceeecCCCCCCCeeECCCCCCCCcCC
Confidence 777777765444432 3688898887543
No 353
>TIGR02420 dksA RNA polymerase-binding protein DksA. The model that is the basis for this family describes a small, pleiotropic protein, DksA (DnaK suppressor A), originally named as a multicopy suppressor of temperature sensitivity of dnaKJ mutants. DksA mutants are defective in quorum sensing, virulence, etc. DksA is now understood to bind RNA polymerase directly and modulate its response to small molecules to control the level of transcription of rRNA. Nearly all members of this family are in the Proteobacteria. Whether the closest homologs outside the Proteobacteria function equivalently is unknown. The low value set for the noise cutoff allows identification of possible DksA proteins from outside the proteobacteria. TIGR02419 describes a closely related family of short sequences usually found in prophage regions of proteobacterial genomes or in known phage.
Probab=32.30 E-value=18 Score=27.08 Aligned_cols=16 Identities=38% Similarity=0.904 Sum_probs=11.6
Q ss_pred CCCcCccCCCCCCCccc
Q psy2399 167 YGDFCECCSSIYTPTKL 183 (232)
Q Consensus 167 ~g~~Ce~Cg~~~~~~~l 183 (232)
|| +|+.||......-|
T Consensus 80 yG-~C~~Cge~I~~~RL 95 (110)
T TIGR02420 80 YG-YCEECGEEIGLRRL 95 (110)
T ss_pred CC-chhccCCcccHHHH
Confidence 44 48999988776655
No 354
>KOG3362|consensus
Probab=31.52 E-value=17 Score=28.89 Aligned_cols=23 Identities=26% Similarity=0.908 Sum_probs=16.8
Q ss_pred eccCCCCCCccccCCCcCccCCCCC
Q psy2399 154 IKGECPICNAKDQYGDFCECCSSIY 178 (232)
Q Consensus 154 v~g~cp~c~~~~~~g~~Ce~Cg~~~ 178 (232)
....|..||..+.|. |.+||.-|
T Consensus 117 ~r~fCaVCG~~S~ys--C~~CG~ky 139 (156)
T KOG3362|consen 117 LRKFCAVCGYDSKYS--CVNCGTKY 139 (156)
T ss_pred cchhhhhcCCCchhH--HHhcCCce
Confidence 456899999766544 99999743
No 355
>PF10007 DUF2250: Uncharacterized protein conserved in archaea (DUF2250); InterPro: IPR019254 Members of this family of hypothetical archaeal proteins have no known function.
Probab=31.45 E-value=41 Score=24.57 Aligned_cols=47 Identities=9% Similarity=-0.021 Sum_probs=31.6
Q ss_pred HHHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEecccc
Q psy2399 91 NRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKIN 138 (232)
Q Consensus 91 ~~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~ 138 (232)
.+..-|..+|.++-..+.-.-..-.+.|...+++|. +.|+|.+-.+.
T Consensus 11 ~IL~hl~~~~~Dy~k~ia~~l~~~~~~v~~~l~~Le-~~GLler~~g~ 57 (92)
T PF10007_consen 11 KILQHLKKAGPDYAKSIARRLKIPLEEVREALEKLE-EMGLLERVEGK 57 (92)
T ss_pred HHHHHHHHHCCCcHHHHHHHHCCCHHHHHHHHHHHH-HCCCeEEecCc
Confidence 455666677776554331111134678999999999 99999886644
No 356
>cd07377 WHTH_GntR Winged helix-turn-helix (WHTH) DNA-binding domain of the GntR family of transcriptional regulators. This CD represents the winged HTH DNA-binding domain of the GntR (named after the gluconate operon repressor in Bacillus subtilis) family of bacterial transcriptional regulators and their putative homologs found in eukaryota and archaea. The GntR family has over 6000 members distributed among almost all bacterial species, which is comprised of FadR, HutC, MocR, YtrA, AraR, PlmA, and other subfamilies for the regulation of the most varied biological process. The monomeric proteins of the GntR family are characterized by two function domains: a small highly conserved winged helix-turn-helix prokaryotic DNA binding domain in the N-terminus, and a very diverse regulatory ligand-binding domain in the C-terminus for effector-binding/oligomerization, which provides the basis for the subfamily classifications. Binding of the effector to GntR-like transcriptional regulators is
Probab=31.44 E-value=85 Score=19.95 Aligned_cols=26 Identities=15% Similarity=0.097 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHhhcCCEEecccceee
Q psy2399 115 IDLVQKIYDTLYNKAKLIINKKINQFF 141 (232)
Q Consensus 115 ~~~v~~~~~~L~~~kG~iy~~~~~~~~ 141 (232)
...+...+.+|. ++|+|....+.+|+
T Consensus 39 ~~~v~~~l~~L~-~~G~i~~~~~~~~~ 64 (66)
T cd07377 39 RTTVREALRELE-AEGLVERRPGRGTF 64 (66)
T ss_pred HHHHHHHHHHHH-HCCCEEecCCCeEE
Confidence 567889999999 99999876655554
No 357
>PRK01110 rpmF 50S ribosomal protein L32; Validated
Probab=31.38 E-value=27 Score=23.36 Aligned_cols=20 Identities=0% Similarity=-0.315 Sum_probs=11.9
Q ss_pred CCCCCCccccCCCcCccCCCC
Q psy2399 157 ECPICNAKDQYGDFCECCSSI 177 (232)
Q Consensus 157 ~cp~c~~~~~~g~~Ce~Cg~~ 177 (232)
.||.||.....--.|. ||.+
T Consensus 29 ~c~~cg~~~~pH~vc~-cG~Y 48 (60)
T PRK01110 29 VDKTTGEYHLPHHVSP-KGYY 48 (60)
T ss_pred EcCCCCceeccceecC-Cccc
Confidence 4666666655555566 6643
No 358
>PRK12267 methionyl-tRNA synthetase; Reviewed
Probab=30.88 E-value=24 Score=34.72 Aligned_cols=38 Identities=13% Similarity=-0.026 Sum_probs=17.6
Q ss_pred ChhhHHHHHHHHHcCCCHHHH-------HHHHHHHHHHHHhccCC
Q psy2399 64 DAHGAAIMIAAEKAGMTPKEF-------INNISSNRKKYLDGFYI 101 (232)
Q Consensus 64 D~~G~~i~~~a~~~g~~~~e~-------~~~~~~~~~~~l~~lgI 101 (232)
|..-..+....+++|++...+ -....+.+.+.|..-|.
T Consensus 73 d~~~~~fk~~l~~lgI~~D~f~rTt~~~h~~~v~~~~~~L~~kG~ 117 (648)
T PRK12267 73 DEISAGFKELWKKLDISYDKFIRTTDERHKKVVQKIFEKLYEQGD 117 (648)
T ss_pred HHHHHHHHHHHHHcCCCCCCCeeCCCHHHHHHHHHHHHHHHHCCC
Confidence 444445555555666543221 12333444455555554
No 359
>PF09297 zf-NADH-PPase: NADH pyrophosphatase zinc ribbon domain; InterPro: IPR015376 This domain has a zinc ribbon structure and is often found between two NUDIX domains.; GO: 0016787 hydrolase activity, 0046872 metal ion binding; PDB: 1VK6_A 2GB5_A.
Probab=30.43 E-value=19 Score=20.57 Aligned_cols=7 Identities=14% Similarity=0.002 Sum_probs=3.0
Q ss_pred cccCCCC
Q psy2399 187 YSILSGT 193 (232)
Q Consensus 187 ~~~~~g~ 193 (232)
+|+.||.
T Consensus 23 ~C~~Cg~ 29 (32)
T PF09297_consen 23 RCPSCGH 29 (32)
T ss_dssp EESSSS-
T ss_pred ECCCCcC
Confidence 4555543
No 360
>PLN02569 threonine synthase
Probab=30.30 E-value=38 Score=32.24 Aligned_cols=28 Identities=18% Similarity=0.096 Sum_probs=18.7
Q ss_pred CcCccCCCCCCCccccCCcccCCCCccEEE
Q psy2399 169 DFCECCSSIYTPTKLINPYSILSGTKPIIK 198 (232)
Q Consensus 169 ~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~ 198 (232)
..|..||+.+.++++ .++| .||..++..
T Consensus 50 l~C~~Cg~~y~~~~~-~~~C-~cgg~l~~~ 77 (484)
T PLN02569 50 LECPLTGEKYSLDEV-VYRS-KSGGLLDVR 77 (484)
T ss_pred cEeCCCCCcCCCccc-cccC-CCCCeEEEe
Confidence 457778877776665 3677 577766644
No 361
>PF12760 Zn_Tnp_IS1595: Transposase zinc-ribbon domain; InterPro: IPR024442 This zinc binding domain is found in a range of transposase proteins such as ISSPO8, ISSOD11, ISRSSP2 etc. It may be a zinc-binding beta ribbon domain that could bind DNA.
Probab=30.29 E-value=38 Score=21.04 Aligned_cols=7 Identities=0% Similarity=-0.425 Sum_probs=3.7
Q ss_pred CcccCCC
Q psy2399 186 PYSILSG 192 (232)
Q Consensus 186 ~~~~~~g 192 (232)
.+|..|+
T Consensus 38 ~~C~~C~ 44 (46)
T PF12760_consen 38 YRCKACR 44 (46)
T ss_pred EECCCCC
Confidence 4555554
No 362
>COG2995 PqiA Uncharacterized paraquat-inducible protein A [Function unknown]
Probab=30.19 E-value=22 Score=32.86 Aligned_cols=31 Identities=23% Similarity=0.489 Sum_probs=24.1
Q ss_pred cCccCCCCCCCccccCCcccCCCCccEEEEccc
Q psy2399 170 FCECCSSIYTPTKLINPYSILSGTKPIIKSSKH 202 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~ 202 (232)
.|..|......+ .+++|+.||.+.-.+..++
T Consensus 222 ~C~~C~~~~~~~--~~~~CpRC~~~Ly~rr~~s 252 (418)
T COG2995 222 SCLCCHYILPHD--AEPRCPRCGSKLYVRRRNS 252 (418)
T ss_pred ecccccccCCHh--hCCCCCCCCChhhccChhh
Confidence 388888777665 7899999999998776544
No 363
>KOG2164|consensus
Probab=29.85 E-value=57 Score=31.17 Aligned_cols=64 Identities=14% Similarity=0.146 Sum_probs=44.8
Q ss_pred ccCCCCCCccccCCCcCccCCCCCC----------CccccCCcccCCCCccEEEEccceeEecCChhhHHHHHhhhhc
Q psy2399 155 KGECPICNAKDQYGDFCECCSSIYT----------PTKLINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKWAIH 222 (232)
Q Consensus 155 ~g~cp~c~~~~~~g~~Ce~Cg~~~~----------~~~l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~~~~ 222 (232)
.-.||.|.++...... -.||+++= .....--.|++|...+..+.....++.= ..-++.|..+ .+
T Consensus 186 ~~~CPICL~~~~~p~~-t~CGHiFC~~CiLqy~~~s~~~~~~~CPiC~s~I~~kdl~pv~~e~--~qkke~l~~~-~~ 259 (513)
T KOG2164|consen 186 DMQCPICLEPPSVPVR-TNCGHIFCGPCILQYWNYSAIKGPCSCPICRSTITLKDLLPVFIED--DQKKEELKLH-QD 259 (513)
T ss_pred CCcCCcccCCCCcccc-cccCceeeHHHHHHHHhhhcccCCccCCchhhhccccceeeeeecc--ccccHHHHHH-hc
Confidence 4579999997654322 26898762 2233456899999999888887777766 5667778887 44
No 364
>COG0735 Fur Fe2+/Zn2+ uptake regulation proteins [Inorganic ion transport and metabolism]
Probab=29.81 E-value=97 Score=24.28 Aligned_cols=21 Identities=19% Similarity=0.197 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHhhcCCEEecc
Q psy2399 115 IDLVQKIYDTLYNKAKLIINKK 136 (232)
Q Consensus 115 ~~~v~~~~~~L~~~kG~iy~~~ 136 (232)
...|-..+..|. +.|+|.+-+
T Consensus 55 laTVYr~L~~l~-e~Glv~~~~ 75 (145)
T COG0735 55 LATVYRTLKLLE-EAGLVHRLE 75 (145)
T ss_pred HhHHHHHHHHHH-HCCCEEEEE
Confidence 355677888999 999998754
No 365
>TIGR00515 accD acetyl-CoA carboxylase, carboxyl transferase, beta subunit. The enzyme acetyl-CoA carboxylase contains a biotin carboxyl carrier protein or domain, a biotin carboxylase, and a carboxyl transferase. This model represents the beta chain of the carboxyl transferase for cases in which the architecture of the protein is as in E. coli, in which the carboxyltransferase portion consists of two non-identical subnits, alpha and beta.
Probab=29.71 E-value=18 Score=32.05 Aligned_cols=8 Identities=25% Similarity=0.031 Sum_probs=5.4
Q ss_pred hHHHHHhh
Q psy2399 212 CIDFLRKW 219 (232)
Q Consensus 212 ~~~~l~~~ 219 (232)
|.++|.+.
T Consensus 93 Y~~~l~~~ 100 (285)
T TIGR00515 93 YKDRIAKA 100 (285)
T ss_pred hhHHHHHH
Confidence 67777665
No 366
>COG1998 RPS31 Ribosomal protein S27AE [Translation, ribosomal structure and biogenesis]
Probab=29.21 E-value=25 Score=22.69 Aligned_cols=9 Identities=33% Similarity=0.918 Sum_probs=5.1
Q ss_pred ccCCCCCCc
Q psy2399 155 KGECPICNA 163 (232)
Q Consensus 155 ~g~cp~c~~ 163 (232)
...||.||.
T Consensus 19 ~~~CPrCG~ 27 (51)
T COG1998 19 NRFCPRCGP 27 (51)
T ss_pred cccCCCCCC
Confidence 346676663
No 367
>cd01412 SIRT5_Af1_CobB SIRT5_Af1_CobB: Eukaryotic, archaeal and prokaryotic group (class3) which includes human sirtuin SIRT5, Archaeoglobus fulgidus Sir2-Af1, and E. coli CobB; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. CobB is a bacterial sirtuin that deacetylates acetyl-CoA synthetase at an active site lysine to stimulate its enzymatic activity.
Probab=29.06 E-value=38 Score=28.40 Aligned_cols=27 Identities=15% Similarity=0.118 Sum_probs=16.0
Q ss_pred CcCccCCCCCCCcc----ccCCcccCCCCcc
Q psy2399 169 DFCECCSSIYTPTK----LINPYSILSGTKP 195 (232)
Q Consensus 169 ~~Ce~Cg~~~~~~~----l~~~~~~~~g~~~ 195 (232)
.+|..|+..+...+ -..|+|+.||+.+
T Consensus 110 ~~C~~C~~~~~~~~~~~~~~~p~C~~Cgg~l 140 (224)
T cd01412 110 VRCSSCGYVGENNEEIPEEELPRCPKCGGLL 140 (224)
T ss_pred cccCCCCCCCCcchhhhccCCCCCCCCCCcc
Confidence 34666665554321 1348999998753
No 368
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=28.98 E-value=36 Score=31.57 Aligned_cols=27 Identities=15% Similarity=0.329 Sum_probs=17.9
Q ss_pred CccCCCCCCCcccc---CCcccCCCCccEE
Q psy2399 171 CECCSSIYTPTKLI---NPYSILSGTKPII 197 (232)
Q Consensus 171 Ce~Cg~~~~~~~l~---~~~~~~~g~~~~~ 197 (232)
|+.||..+.-..+. ...|+.||+....
T Consensus 16 C~~Cd~l~~~~~l~~g~~a~CpRCg~~L~~ 45 (403)
T TIGR00155 16 CSQCDMLVALPRIESGQKAACPRCGTTLTV 45 (403)
T ss_pred CCCCCCcccccCCCCCCeeECCCCCCCCcC
Confidence 77777766544443 2468899988754
No 369
>COG5194 APC11 Component of SCF ubiquitin ligase and anaphase-promoting complex [Posttranslational modification, protein turnover, chaperones / Cell division and chromosome partitioning]
Probab=28.96 E-value=35 Score=24.41 Aligned_cols=19 Identities=42% Similarity=0.787 Sum_probs=10.5
Q ss_pred eeccCCCCCCccccCCCcC
Q psy2399 153 YIKGECPICNAKDQYGDFC 171 (232)
Q Consensus 153 ~v~g~cp~c~~~~~~g~~C 171 (232)
-+.|.||.|....+.|++|
T Consensus 29 him~~C~eCq~~~~~~~eC 47 (88)
T COG5194 29 HIMGTCPECQFGMTPGDEC 47 (88)
T ss_pred cccCcCcccccCCCCCCcc
Confidence 3455666665555555555
No 370
>PF00392 GntR: Bacterial regulatory proteins, gntR family; InterPro: IPR000524 Many bacterial transcription regulation proteins bind DNA through a helix-turn-helix (HTH) motif, which can be classified into subfamilies on the basis of sequence similarities. The HTH GntR family has many members distributed among diverse bacterial groups that regulate various biological processes. It was named GntR after the Bacillus subtilis repressor of the gluconate operon []. Family members include GntR, HutC, KorA, NtaR, FadR, ExuR, FarR, DgoR and PhnF. The crystal structure of the FadR protein has been determined []. In general, these proteins contain a DNA-binding HTH domain at the N terminus, and an effector-binding or oligomerisation domain at the C terminus (IPR011711 from INTERPRO). The DNA-binding domain is well conserved in structure for the whole of the GntR family, consisting of a 3-helical bundle core with a small beta-sheet (wing); the GntR winged helix structure is similar to that found in several other transcriptional regulator families. The regions outside the DNA-binding domain are more variable and are consequently used to define GntR subfamilies []. This entry represents the N-terminal DNA-binding domain of the GntR family.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 1HW1_B 1H9T_A 1HW2_A 1H9G_A 1E2X_A 3IHU_A 3C7J_A 2RA5_A 3BY6_C 3IC7_A ....
Probab=28.66 E-value=1.1e+02 Score=19.95 Aligned_cols=54 Identities=13% Similarity=0.012 Sum_probs=33.0
Q ss_pred HHHHHHHHHHhccCCcCCccc-cCCC--h---hHHHHHHHHHHHHHhhcCCEEecccceee
Q psy2399 87 NISSNRKKYLDGFYIKFDNWY-STDS--I---ENIDLVQKIYDTLYNKAKLIINKKINQFF 141 (232)
Q Consensus 87 ~~~~~~~~~l~~lgI~~d~~~-~t~~--~---~~~~~v~~~~~~L~~~kG~iy~~~~~~~~ 141 (232)
+..+.+.+.+..=.+..+... +..+ . -....+.+.+..|. +.|+++...+.++|
T Consensus 4 ~i~~~l~~~I~~g~~~~g~~lps~~~la~~~~vsr~tvr~al~~L~-~~g~i~~~~~~G~~ 63 (64)
T PF00392_consen 4 QIYDQLRQAILSGRLPPGDRLPSERELAERYGVSRTTVREALRRLE-AEGLIERRPGRGTF 63 (64)
T ss_dssp HHHHHHHHHHHTTSS-TTSBE--HHHHHHHHTS-HHHHHHHHHHHH-HTTSEEEETTTEEE
T ss_pred HHHHHHHHHHHcCCCCCCCEeCCHHHHHHHhccCCcHHHHHHHHHH-HCCcEEEECCceEE
Confidence 344455555555455444332 2211 0 13567889999999 99999998887775
No 371
>COG0266 Nei Formamidopyrimidine-DNA glycosylase [DNA replication, recombination, and repair]
Probab=28.43 E-value=1.5e+02 Score=26.17 Aligned_cols=79 Identities=14% Similarity=0.087 Sum_probs=44.3
Q ss_pred HHHhccCCcCCccccCCC-hhH---HHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCC
Q psy2399 94 KYLDGFYIKFDNWYSTDS-IEN---IDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGD 169 (232)
Q Consensus 94 ~~l~~lgI~~d~~~~t~~-~~~---~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~ 169 (232)
+.|=+.||.+..-..+.+ ++. .+.+..++.... ++|-...+.... =+-+.+.|-..-.|-|+ .|.
T Consensus 178 E~Lf~agI~P~~~a~~l~~~~~~~l~~~i~~vl~~ai-~~gGtt~r~~~~-~~g~~G~fq~~l~VYgR---------~Ge 246 (273)
T COG0266 178 EILFRAGIHPARPAGDLSLAQLALLHEAIKDVLADAI-ERGGTTLRDFVN-ADGKPGYFQQELKVYGR---------AGE 246 (273)
T ss_pred HHHHHcCCCcccCccccCHHHHHHHHHHHHHHHHHHH-HhCCCcccceec-cCCCCCccceeEEEecC---------CCC
Confidence 345678888877665543 232 234566777777 666554443322 23334455555566552 455
Q ss_pred cCccCCCCCCCccc
Q psy2399 170 FCECCSSIYTPTKL 183 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l 183 (232)
.|..||.......+
T Consensus 247 pC~~CGt~I~k~~~ 260 (273)
T COG0266 247 PCRRCGTPIEKIKL 260 (273)
T ss_pred CCCccCCEeEEEEE
Confidence 67777776654443
No 372
>PF02662 FlpD: Methyl-viologen-reducing hydrogenase, delta subunit; InterPro: IPR003813 Methyl-viologen-reducing hydrogenase (MVH) is one of the enzymes involved in methanogenesis and coded in the mth-flp-mvh-mrt cluster of methane genes in Methanothermobacter thermautotrophicus (Methanobacterium thermoformicicum) []. No specific functions have been assigned to the delta subunit.; GO: 0015948 methanogenesis, 0055114 oxidation-reduction process
Probab=28.20 E-value=1.5e+02 Score=22.56 Aligned_cols=46 Identities=11% Similarity=0.050 Sum_probs=31.3
Q ss_pred HHHHHHHHHHHHHHhccCCcCCcccc--CCC---hhHHHHHHHHHHHHHhhc
Q psy2399 83 EFINNISSNRKKYLDGFYIKFDNWYS--TDS---IENIDLVQKIYDTLYNKA 129 (232)
Q Consensus 83 e~~~~~~~~~~~~l~~lgI~~d~~~~--t~~---~~~~~~v~~~~~~L~~~k 129 (232)
..+.+-.+..++.|+.+||+.+++.. .+. ....+.+.++.++|. +-
T Consensus 73 ~~a~~Rv~~~k~~L~~~Gi~~eRv~~~~~~~~~~~~fa~~~~~f~~~i~-~l 123 (124)
T PF02662_consen 73 YRAEKRVERLKKLLEELGIEPERVRLYWISAPEGKRFAEIVNEFTERIK-EL 123 (124)
T ss_pred HHHHHHHHHHHHHHHHcCCChhHeEEEEeCcccHHHHHHHHHHHHHHHH-Hc
Confidence 45777788899999999999887432 222 234555666666666 53
No 373
>COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion]
Probab=28.03 E-value=1.6e+02 Score=22.81 Aligned_cols=47 Identities=11% Similarity=0.110 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHHHhccCCcCCc----cccCCC-hhHHHHHHHHHHHHHhhcC
Q psy2399 83 EFINNISSNRKKYLDGFYIKFDN----WYSTDS-IENIDLVQKIYDTLYNKAK 130 (232)
Q Consensus 83 e~~~~~~~~~~~~l~~lgI~~d~----~~~t~~-~~~~~~v~~~~~~L~~~kG 130 (232)
..+++-.+..++.|+.+||+.++ |++.++ ....+.+.++.+++. +-|
T Consensus 74 ~ka~rR~~~lke~l~elgie~eRv~~~wiSa~E~ekf~e~~~efv~~i~-~lG 125 (132)
T COG1908 74 YKAKRRMELLKELLKELGIEPERVRVLWISAAEGEKFAETINEFVERIK-ELG 125 (132)
T ss_pred hHHHHHHHHHHHHHHHhCCCcceEEEEEEehhhHHHHHHHHHHHHHHHH-HhC
Confidence 34566677889999999998876 444443 345677778888887 655
No 374
>COG0846 SIR2 NAD-dependent protein deacetylases, SIR2 family [Transcription]
Probab=27.95 E-value=40 Score=29.24 Aligned_cols=22 Identities=14% Similarity=0.206 Sum_probs=15.2
Q ss_pred CCcccCCCCccEEEEccceeEec
Q psy2399 185 NPYSILSGTKPIIKSSKHFFFKL 207 (232)
Q Consensus 185 ~~~~~~~g~~~~~~~~~~~f~~L 207 (232)
-|+|..||.+ ++|+.--||-..
T Consensus 146 ~p~C~~Cg~~-~lrP~VV~fGE~ 167 (250)
T COG0846 146 IPRCPKCGGP-VLRPDVVWFGEP 167 (250)
T ss_pred CCcCccCCCc-cccCCEEEeCCC
Confidence 4789999886 556666666444
No 375
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=27.74 E-value=23 Score=26.51 Aligned_cols=10 Identities=10% Similarity=-0.147 Sum_probs=4.9
Q ss_pred ccCCCccccc
Q psy2399 142 DPIKNIFLPD 151 (232)
Q Consensus 142 ~~~~~~~l~~ 151 (232)
|.+|+...++
T Consensus 5 CtrCG~vf~~ 14 (112)
T COG3364 5 CTRCGEVFDD 14 (112)
T ss_pred eccccccccc
Confidence 4455554443
No 376
>KOG2879|consensus
Probab=27.65 E-value=37 Score=29.93 Aligned_cols=44 Identities=23% Similarity=0.423 Sum_probs=26.7
Q ss_pred eeccCCCCCCccccCCCcCccCCCCCC-----Cccc--cCCcccCCCCccE
Q psy2399 153 YIKGECPICNAKDQYGDFCECCSSIYT-----PTKL--INPYSILSGTKPI 196 (232)
Q Consensus 153 ~v~g~cp~c~~~~~~g~~Ce~Cg~~~~-----~~~l--~~~~~~~~g~~~~ 196 (232)
.-..+||.||...+--.+--.||+++= ..-+ ..-.|..||++++
T Consensus 237 t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~Ci~ts~~~~asf~Cp~Cg~~~~ 287 (298)
T KOG2879|consen 237 TSDTECPVCGEPPTIPHVIGKCGHIYCYYCIATSRLWDASFTCPLCGENVE 287 (298)
T ss_pred cCCceeeccCCCCCCCeeeccccceeehhhhhhhhcchhhcccCccCCCCc
Confidence 345689999987543333334777652 1111 2368899999887
No 377
>cd02069 methionine_synthase_B12_BD B12 binding domain of methionine synthase. This domain binds methylcobalamin, which it uses as an intermediate methyl carrier from methyltetrahydrofolate (CH3H4folate) to homocysteine (Hcy).
Probab=27.65 E-value=3.6e+02 Score=22.48 Aligned_cols=81 Identities=11% Similarity=0.161 Sum_probs=49.1
Q ss_pred CCCcEEEEcCCCCCCCcCC-chHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHH
Q psy2399 10 DVRRIFVTTALPYANGELH-IGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNI 88 (232)
Q Consensus 10 ~~~~~~v~~~~P~~nG~lH-iGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~ 88 (232)
+..++++.+ +.|+.| || ..+++-+++..| ++|.++- . ..+++++++..
T Consensus 87 ~~~~vvl~t----~~gd~HdiG-------~~iv~~~l~~~G-----~~Vi~LG-~--------------~vp~e~~v~~~ 135 (213)
T cd02069 87 SKGKIVLAT----VKGDVHDIG-------KNLVGVILSNNG-----YEVIDLG-V--------------MVPIEKILEAA 135 (213)
T ss_pred CCCeEEEEe----CCCchhHHH-------HHHHHHHHHhCC-----CEEEECC-C--------------CCCHHHHHHHH
Confidence 445666664 458988 55 456677889999 9998873 2 24566655544
Q ss_pred HHHHHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCC
Q psy2399 89 SSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKL 131 (232)
Q Consensus 89 ~~~~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~ 131 (232)
.+. .-+-++++ .+...+...+..+++.|. ++|.
T Consensus 136 ~~~---~~~~V~lS------~~~~~~~~~~~~~i~~L~-~~~~ 168 (213)
T cd02069 136 KEH---KADIIGLS------GLLVPSLDEMVEVAEEMN-RRGI 168 (213)
T ss_pred HHc---CCCEEEEc------cchhccHHHHHHHHHHHH-hcCC
Confidence 321 11222222 223346677788888888 7765
No 378
>PRK08351 DNA-directed RNA polymerase subunit E''; Validated
Probab=27.64 E-value=75 Score=21.44 Aligned_cols=20 Identities=25% Similarity=0.531 Sum_probs=9.9
Q ss_pred CccCCCCCCCccccCCcccCCCCcc
Q psy2399 171 CECCSSIYTPTKLINPYSILSGTKP 195 (232)
Q Consensus 171 Ce~Cg~~~~~~~l~~~~~~~~g~~~ 195 (232)
|-+|..+.+.+ +|+.||+.-
T Consensus 6 C~~C~~i~~~~-----~CP~Cgs~~ 25 (61)
T PRK08351 6 CRHCHYITTED-----RCPVCGSRD 25 (61)
T ss_pred hhhCCcccCCC-----cCCCCcCCc
Confidence 55555554322 466665543
No 379
>PRK09521 exosome complex RNA-binding protein Csl4; Provisional
Probab=27.63 E-value=31 Score=28.31 Aligned_cols=34 Identities=9% Similarity=0.107 Sum_probs=21.4
Q ss_pred CccCCCCCCCccccCCcccCCCCccEEEEccceeE
Q psy2399 171 CECCSSIYTPTKLINPYSILSGTKPIIKSSKHFFF 205 (232)
Q Consensus 171 Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~~~~~~f~ 205 (232)
|..||....|..-....|..|| ..|.|+..+.|.
T Consensus 152 ~~~~g~~~~~~~~~~~~c~~~~-~~e~rkva~~~~ 185 (189)
T PRK09521 152 CSRCRTPLVKKGENELKCPNCG-NIETRKLSSYYG 185 (189)
T ss_pred ccccCCceEECCCCEEECCCCC-CEEeeccchhhc
Confidence 5566666666554557888888 555566655543
No 380
>TIGR03844 cysteate_syn cysteate synthase. Members of this family are cysteate synthase, an enzyme of alternate pathway to sulfopyruvate, a precursor of coenzyme M.
Probab=27.36 E-value=47 Score=30.70 Aligned_cols=9 Identities=22% Similarity=-0.156 Sum_probs=3.7
Q ss_pred eccCCCccc
Q psy2399 141 FDPIKNIFL 149 (232)
Q Consensus 141 ~~~~~~~~l 149 (232)
.|+.|++-.
T Consensus 4 ~C~~Cg~~~ 12 (398)
T TIGR03844 4 RCPGCGEVL 12 (398)
T ss_pred EeCCCCCcc
Confidence 344444433
No 381
>PF09082 DUF1922: Domain of unknown function (DUF1922); InterPro: IPR015166 Members of this family consist of a beta-sheet region followed by an alpha-helix and an unstructured C terminus. The beta-sheet region contains a CXCX...XCXC sequence with Cys residues located in two proximal loops and pointing towards each other. This precise function of this set of bacterial proteins is, as yet, unknown []. ; PDB: 1GH9_A.
Probab=27.26 E-value=14 Score=25.56 Aligned_cols=34 Identities=12% Similarity=0.286 Sum_probs=16.1
Q ss_pred CccCCCCC-CCccccCCcccCCCCccEEEEccceeEec
Q psy2399 171 CECCSSIY-TPTKLINPYSILSGTKPIIKSSKHFFFKL 207 (232)
Q Consensus 171 Ce~Cg~~~-~~~~l~~~~~~~~g~~~~~~~~~~~f~~L 207 (232)
| +||+.+ +.+.-.--+| .||..+.+++ ..+|-+-
T Consensus 6 C-~Cgr~lya~e~~kTkkC-~CG~~l~vk~-~rIl~~~ 40 (68)
T PF09082_consen 6 C-DCGRYLYAKEGAKTKKC-VCGKTLKVKE-RRILARA 40 (68)
T ss_dssp E-TTS--EEEETT-SEEEE-TTTEEEE--S-SS-BS--
T ss_pred e-cCCCEEEecCCcceeEe-cCCCeeeeee-EEEEEec
Confidence 6 577655 3334445578 8998777544 4455555
No 382
>PF06221 zf-C2HC5: Putative zinc finger motif, C2HC5-type; InterPro: IPR009349 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This zinc finger appears to be common in activating signal cointegrator 1/thyroid receptor interacting protein 4. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus
Probab=27.19 E-value=52 Score=21.87 Aligned_cols=28 Identities=18% Similarity=0.151 Sum_probs=19.8
Q ss_pred CcCccCCCCCCCccccCCcccCCCCccE
Q psy2399 169 DFCECCSSIYTPTKLINPYSILSGTKPI 196 (232)
Q Consensus 169 ~~Ce~Cg~~~~~~~l~~~~~~~~g~~~~ 196 (232)
.-|-+||+++=..+-...-|.-||+++.
T Consensus 19 ~NCl~CGkIiC~~Eg~~~pC~fCg~~l~ 46 (57)
T PF06221_consen 19 PNCLNCGKIICEQEGPLGPCPFCGTPLL 46 (57)
T ss_pred ccccccChhhcccccCcCcCCCCCCccc
Confidence 3488888888666554577888886654
No 383
>PRK12366 replication factor A; Reviewed
Probab=27.18 E-value=38 Score=33.42 Aligned_cols=29 Identities=28% Similarity=0.644 Sum_probs=19.0
Q ss_pred ceeccCCCCCCccccCC---CcCccCCCCCCCc
Q psy2399 152 RYIKGECPICNAKDQYG---DFCECCSSIYTPT 181 (232)
Q Consensus 152 ~~v~g~cp~c~~~~~~g---~~Ce~Cg~~~~~~ 181 (232)
...--.||.|..+-..+ ..|+.||.. .|.
T Consensus 529 ~~~y~aCp~CnkKv~~~~g~~~C~~c~~~-~p~ 560 (637)
T PRK12366 529 KIILYLCPNCRKRVEEVDGEYICEFCGEV-EPN 560 (637)
T ss_pred CEEEecccccCeEeEcCCCcEECCCCCCC-CCc
Confidence 33445788888776544 258888886 443
No 384
>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.
Probab=27.05 E-value=2.5e+02 Score=21.71 Aligned_cols=30 Identities=10% Similarity=-0.077 Sum_probs=20.9
Q ss_pred CCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCC
Q psy2399 23 ANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADD 64 (232)
Q Consensus 23 ~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D 64 (232)
+-|+.| -+-.+++++.++..| ++|... |.|
T Consensus 7 v~gD~H------diGkniv~~~L~~~G-----feVidL-G~~ 36 (128)
T cd02072 7 IGSDCH------AVGNKILDHAFTEAG-----FNVVNL-GVL 36 (128)
T ss_pred eCCchh------HHHHHHHHHHHHHCC-----CEEEEC-CCC
Confidence 446665 133578888999999 999876 444
No 385
>PRK08270 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=27.00 E-value=50 Score=32.75 Aligned_cols=22 Identities=23% Similarity=0.489 Sum_probs=16.6
Q ss_pred cCCCCCCccccCCCcCccCCCC
Q psy2399 156 GECPICNAKDQYGDFCECCSSI 177 (232)
Q Consensus 156 g~cp~c~~~~~~g~~Ce~Cg~~ 177 (232)
..|+.||.....+..|+.||..
T Consensus 627 ~~C~~CG~~~g~~~~CP~CG~~ 648 (656)
T PRK08270 627 SICPKHGYLSGEHEFCPKCGEE 648 (656)
T ss_pred cccCCCCCcCCCCCCCcCCcCc
Confidence 3788898755566789999964
No 386
>PF06677 Auto_anti-p27: Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27); InterPro: IPR009563 The proteins in this entry are functionally uncharacterised and include several proteins that characterise Sjogren's syndrome/scleroderma autoantigen 1 (Autoantigen p27). It is thought that the potential association of anti-p27 with anti-centromere antibodies suggests that autoantigen p27 might play a role in mitosis [].
Probab=26.99 E-value=32 Score=21.24 Aligned_cols=11 Identities=18% Similarity=-0.149 Sum_probs=5.4
Q ss_pred eccCCCccccc
Q psy2399 141 FDPIKNIFLPD 151 (232)
Q Consensus 141 ~~~~~~~~l~~ 151 (232)
.|+.|+++|..
T Consensus 19 ~Cp~C~~PL~~ 29 (41)
T PF06677_consen 19 HCPDCGTPLMR 29 (41)
T ss_pred ccCCCCCeeEE
Confidence 34455555544
No 387
>PRK00415 rps27e 30S ribosomal protein S27e; Reviewed
Probab=26.87 E-value=34 Score=22.93 Aligned_cols=28 Identities=25% Similarity=0.622 Sum_probs=18.8
Q ss_pred cceeccCCCCCCccc------cCCCcCccCCCCC
Q psy2399 151 DRYIKGECPICNAKD------QYGDFCECCSSIY 178 (232)
Q Consensus 151 ~~~v~g~cp~c~~~~------~~g~~Ce~Cg~~~ 178 (232)
..|+.-.||.|+... ..-..|..||+.+
T Consensus 7 S~F~~VkCp~C~n~q~vFsha~t~V~C~~Cg~~L 40 (59)
T PRK00415 7 SRFLKVKCPDCGNEQVVFSHASTVVRCLVCGKTL 40 (59)
T ss_pred CeEEEEECCCCCCeEEEEecCCcEEECcccCCCc
Confidence 356777889887653 2334588888865
No 388
>TIGR02370 pyl_corrinoid methyltransferase cognate corrinoid proteins, Methanosarcina family. This model describes a subfamily of the B12 binding domain (pfam02607, pfam02310) proteins. Members of the seed alignment include corrinoid proteins specific to four different, mutally non-homologous enzymes of the genus Methanosarcina. Three of the four cognate enzymes (trimethylamine, dimethylamine, and monomethylamine methyltransferases) all have the unusual, ribosomally incorporated amino acid pyrrolysine at the active site. All act in systems in which a methyl group is transferred to the corrinoid protein to create methylcobalamin, from which the methyl group is later transferred elsewhere.
Probab=26.85 E-value=2.9e+02 Score=22.62 Aligned_cols=39 Identities=21% Similarity=0.250 Sum_probs=26.7
Q ss_pred CCCcEEEEcCCCCCCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCC
Q psy2399 10 DVRRIFVTTALPYANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADD 64 (232)
Q Consensus 10 ~~~~~~v~~~~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D 64 (232)
.++++++.+ +.|+.|= +-..+++.+++..| ++|.++ |.|
T Consensus 83 ~~~~vv~~t----~~gd~H~------lG~~~v~~~l~~~G-----~~vi~L-G~~ 121 (197)
T TIGR02370 83 VLGKVVCGV----AEGDVHD------IGKNIVVTMLRANG-----FDVIDL-GRD 121 (197)
T ss_pred CCCeEEEEe----CCCchhH------HHHHHHHHHHHhCC-----cEEEEC-CCC
Confidence 345665554 4488883 34566777889999 999987 443
No 389
>COG4720 Predicted membrane protein [Function unknown]
Probab=26.78 E-value=53 Score=26.97 Aligned_cols=24 Identities=21% Similarity=0.348 Sum_probs=18.6
Q ss_pred EEEcCCCCCCCcCCchHHHhHHHH
Q psy2399 15 FVTTALPYANGELHIGHIMEYIQA 38 (232)
Q Consensus 15 ~v~~~~P~~nG~lHiGH~~~~v~~ 38 (232)
++.-|.|.|||.+|+|.+.-++.+
T Consensus 25 ~i~IPtp~~~~~i~L~da~i~las 48 (177)
T COG4720 25 LIRIPTPIPNGFLTLGDAGIALAS 48 (177)
T ss_pred eeEecCCCCCCeeeHHHHHHHHHH
Confidence 566778888899999998755443
No 390
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=26.69 E-value=46 Score=31.10 Aligned_cols=25 Identities=28% Similarity=0.612 Sum_probs=16.9
Q ss_pred CCCCCCccccC----CCcCccCCCCCCCc
Q psy2399 157 ECPICNAKDQY----GDFCECCSSIYTPT 181 (232)
Q Consensus 157 ~cp~c~~~~~~----g~~Ce~Cg~~~~~~ 181 (232)
.||.||..... |.-|..||.-....
T Consensus 352 ~Cp~Cg~~m~S~G~~g~rC~kCg~~~~~~ 380 (421)
T COG1571 352 VCPRCGGRMKSAGRNGFRCKKCGTRARET 380 (421)
T ss_pred CCCccCCchhhcCCCCcccccccccCCcc
Confidence 79999875433 44588888765543
No 391
>COG1198 PriA Primosomal protein N' (replication factor Y) - superfamily II helicase [DNA replication, recombination, and repair]
Probab=26.35 E-value=70 Score=32.17 Aligned_cols=41 Identities=17% Similarity=0.115 Sum_probs=21.8
Q ss_pred cceeeccCCCcccccceec--cCCCCCCccccCCCcCccCCCC
Q psy2399 137 INQFFDPIKNIFLPDRYIK--GECPICNAKDQYGDFCECCSSI 177 (232)
Q Consensus 137 ~~~~~~~~~~~~l~~~~v~--g~cp~c~~~~~~g~~Ce~Cg~~ 177 (232)
+.+.=||.|+.+|.-..-. -.|.+||....--..|++||..
T Consensus 442 g~v~~Cp~Cd~~lt~H~~~~~L~CH~Cg~~~~~p~~Cp~Cgs~ 484 (730)
T COG1198 442 GYIAECPNCDSPLTLHKATGQLRCHYCGYQEPIPQSCPECGSE 484 (730)
T ss_pred CCcccCCCCCcceEEecCCCeeEeCCCCCCCCCCCCCCCCCCC
Confidence 3334466666655443332 2566666655444556666654
No 392
>PRK09875 putative hydrolase; Provisional
Probab=26.29 E-value=1.6e+02 Score=26.06 Aligned_cols=12 Identities=17% Similarity=0.174 Sum_probs=6.2
Q ss_pred HHHHHHHHhhcCC
Q psy2399 119 QKIYDTLYNKAKL 131 (232)
Q Consensus 119 ~~~~~~L~~~kG~ 131 (232)
.+.+..|. +.|+
T Consensus 223 ~~~i~~L~-~~Gy 234 (292)
T PRK09875 223 IAMLHALR-DRGL 234 (292)
T ss_pred HHHHHHHH-hcCC
Confidence 44555555 5553
No 393
>PRK14288 chaperone protein DnaJ; Provisional
Probab=26.18 E-value=1.2e+02 Score=27.61 Aligned_cols=24 Identities=13% Similarity=-0.021 Sum_probs=16.3
Q ss_pred cCCcccCCCCccEEEEccceeEec
Q psy2399 184 INPYSILSGTKPIIKSSKHFFFKL 207 (232)
Q Consensus 184 ~~~~~~~~g~~~~~~~~~~~f~~L 207 (232)
+...|..|......+....+-+++
T Consensus 191 ~~~~C~~C~G~g~v~~~~~l~V~I 214 (369)
T PRK14288 191 IKTPCQACKGKTYILKDEEIDAII 214 (369)
T ss_pred ccccCccCCCcceEEEEEEEEEec
Confidence 456688888877666666665555
No 394
>TIGR02827 RNR_anaer_Bdell anaerobic ribonucleoside-triphosphate reductase. Members of this family belong to the class III anaerobic ribonucleoside-triphosphate reductases (RNR). These glycine-radical-containing enzymes are oxygen-sensitive and operate under anaerobic conditions. The genes for this family are pair with genes for an acitivating protein that creates a glycine radical. Members of this family, though related, fall outside the scope of TIGR02487, a functionally equivalent protein set; no genome has members in both familes. Identification as RNR is supported by gene pairing with the activating protein, lack of other anaerobic RNR, and presence of an upstream regulatory element strongly conserved upstream of most RNR operons.
Probab=26.15 E-value=58 Score=31.85 Aligned_cols=20 Identities=30% Similarity=0.602 Sum_probs=13.9
Q ss_pred CCCCCCccc-cCCCcCccCCC
Q psy2399 157 ECPICNAKD-QYGDFCECCSS 176 (232)
Q Consensus 157 ~cp~c~~~~-~~g~~Ce~Cg~ 176 (232)
.|+.||.-. ..+..|+.||.
T Consensus 534 iC~~CGy~~g~~~~~CP~CGs 554 (586)
T TIGR02827 534 ICNDCHHIDKRTLHRCPVCGS 554 (586)
T ss_pred ecCCCCCcCCCcCCcCcCCCC
Confidence 788888732 12367999986
No 395
>PRK03988 translation initiation factor IF-2 subunit beta; Validated
Probab=26.14 E-value=26 Score=27.54 Aligned_cols=11 Identities=9% Similarity=-0.109 Sum_probs=6.7
Q ss_pred cCCcccCCCCc
Q psy2399 184 INPYSILSGTK 194 (232)
Q Consensus 184 ~~~~~~~~g~~ 194 (232)
.--+|..||+.
T Consensus 122 ~~l~C~ACGa~ 132 (138)
T PRK03988 122 WVLKCEACGAE 132 (138)
T ss_pred EEEEcccCCCC
Confidence 34567777764
No 396
>PF13824 zf-Mss51: Zinc-finger of mitochondrial splicing suppressor 51
Probab=26.14 E-value=52 Score=21.72 Aligned_cols=6 Identities=50% Similarity=1.890 Sum_probs=3.7
Q ss_pred CCCCCc
Q psy2399 158 CPICNA 163 (232)
Q Consensus 158 cp~c~~ 163 (232)
||.|+.
T Consensus 2 Cpv~~~ 7 (55)
T PF13824_consen 2 CPVCKK 7 (55)
T ss_pred CCCCcc
Confidence 666655
No 397
>COG3078 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=26.12 E-value=60 Score=25.95 Aligned_cols=29 Identities=3% Similarity=0.217 Sum_probs=24.3
Q ss_pred CCCHHHHHHHHHHHHHHHHhccCCcCCcc
Q psy2399 78 GMTPKEFINNISSNRKKYLDGFYIKFDNW 106 (232)
Q Consensus 78 g~~~~e~~~~~~~~~~~~l~~lgI~~d~~ 106 (232)
+..-+.|++...+.|-++|+.|||+.|.-
T Consensus 124 s~edQ~~VD~~LDRI~~LMe~LGl~~ddd 152 (169)
T COG3078 124 SAEDQQWVDAKLDRIDELMEKLGLSYDDD 152 (169)
T ss_pred cHHHHHHHHHHHHHHHHHHHHhCCccCCc
Confidence 44567889999999999999999987654
No 398
>PF10005 DUF2248: Uncharacterized protein conserved in bacteria (DUF2248); InterPro: IPR011201 This is a family of uncharacterised bacterial proteins.
Probab=26.02 E-value=43 Score=30.43 Aligned_cols=22 Identities=27% Similarity=0.686 Sum_probs=15.5
Q ss_pred CCCCCCccccCC-CcCccCCCCC
Q psy2399 157 ECPICNAKDQYG-DFCECCSSIY 178 (232)
Q Consensus 157 ~cp~c~~~~~~g-~~Ce~Cg~~~ 178 (232)
+|+.|+..--+. ..|++||..+
T Consensus 1 ~C~~Cg~~v~FeNt~C~~Cg~~L 23 (343)
T PF10005_consen 1 SCPNCGQPVFFENTRCLSCGSAL 23 (343)
T ss_pred CCCCCCCcceeCCCccccCCccc
Confidence 488888765444 4599999765
No 399
>TIGR03070 couple_hipB transcriptional regulator, y4mF family. Members of this family belong to a clade of helix-turn-helix DNA-binding proteins, among the larger family pfam01381 (HTH_3; Helix-turn-helix). Members are similar in sequence to the HipB protein of E. coli. Genes for members of the seed alignment for this protein family were found to be closely linked to genes encoding proteins related to HipA. The HibBA operon appears to have some features in common with toxin-antitoxin post-segregational killing systems.
Probab=26.02 E-value=1.6e+02 Score=17.97 Aligned_cols=22 Identities=14% Similarity=0.243 Sum_probs=11.7
Q ss_pred hhHHHHHHHHHcCCCHHHHHHH
Q psy2399 66 HGAAIMIAAEKAGMTPKEFINN 87 (232)
Q Consensus 66 ~G~~i~~~a~~~g~~~~e~~~~ 87 (232)
.|..+....++.|++..++++.
T Consensus 3 ~~~~l~~~r~~~gltq~~lA~~ 24 (58)
T TIGR03070 3 IGMLVRARRKALGLTQADLADL 24 (58)
T ss_pred HHHHHHHHHHHcCCCHHHHHHH
Confidence 3445555555556665555543
No 400
>PF12844 HTH_19: Helix-turn-helix domain; PDB: 3LIS_B 3LFP_A 2XIU_B 2GZU_B 2XJ3_A 1UTX_A 2XI8_B 3F6W_C 3EUS_B.
Probab=25.91 E-value=88 Score=20.19 Aligned_cols=41 Identities=20% Similarity=0.199 Sum_probs=21.4
Q ss_pred HHHHHHHHHcCCCHHHHHHHH-------HHHHHHHHhccCCcCCcccc
Q psy2399 68 AAIMIAAEKAGMTPKEFINNI-------SSNRKKYLDGFYIKFDNWYS 108 (232)
Q Consensus 68 ~~i~~~a~~~g~~~~e~~~~~-------~~~~~~~l~~lgI~~d~~~~ 108 (232)
......|+..|+++..+..-- ...+.+..+.|||+.+.+..
T Consensus 13 lt~~~~a~~~~i~~~~i~~~e~g~~~~~~~~l~~i~~~~~v~~~~l~~ 60 (64)
T PF12844_consen 13 LTQKDLAEKLGISRSTISKIENGKRKPSVSTLKKIAEALGVSLDELFD 60 (64)
T ss_dssp --HHHHHHHHTS-HHHHHHHHTTSS--BHHHHHHHHHHHTS-HHHHCC
T ss_pred CCHHHHHHHHCcCHHHHHHHHCCCcCCCHHHHHHHHHHhCCCHHHHhc
Confidence 344555566666543332211 25667777888888776643
No 401
>TIGR00340 zpr1_rel ZPR1-related zinc finger protein. A model ZPR1_znf (TIGR00310) has been created to describe the domain shared by this protein and ZPR1.
Probab=25.87 E-value=28 Score=28.18 Aligned_cols=7 Identities=29% Similarity=0.757 Sum_probs=3.0
Q ss_pred CCCCCCc
Q psy2399 157 ECPICNA 163 (232)
Q Consensus 157 ~cp~c~~ 163 (232)
.|+.||.
T Consensus 30 ~C~~CGy 36 (163)
T TIGR00340 30 ICEKCGY 36 (163)
T ss_pred ECCCCCC
Confidence 4444444
No 402
>PRK14138 NAD-dependent deacetylase; Provisional
Probab=25.86 E-value=23 Score=30.44 Aligned_cols=86 Identities=15% Similarity=0.209 Sum_probs=43.9
Q ss_pred HHHHHHHHhhcCC---EEecccceeeccCCCcccccc--eeccCCCCCCccccCCCcCccCCCCCCCccc-------cCC
Q psy2399 119 QKIYDTLYNKAKL---IINKKINQFFDPIKNIFLPDR--YIKGECPICNAKDQYGDFCECCSSIYTPTKL-------INP 186 (232)
Q Consensus 119 ~~~~~~L~~~kG~---iy~~~~~~~~~~~~~~~l~~~--~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l-------~~~ 186 (232)
..++..|. ++|+ |+..+....+- +.-++. ++.|. ..-.+|..|+..++..++ .-|
T Consensus 78 H~ala~L~-~~g~~~~viTQNIDgLh~----~aG~~~VielHG~--------~~~~~C~~C~~~~~~~~~~~~~~~~~~p 144 (244)
T PRK14138 78 HVLLAKLE-EKGLIEAVITQNIDRLHQ----KAGSKKVIELHGN--------VEEYYCVRCGKRYTVEDVIEKLEKSDVP 144 (244)
T ss_pred HHHHHHHH-HcCCceEEEeecccChhh----HcCCCeEEEccCC--------cCeeEECCCCCcccHHHHHHHHhcCCCC
Confidence 56777888 8876 44444443332 111222 22331 223458888877764433 248
Q ss_pred cccCCCCccEEEEccceeEecCChhhHHHHHhh
Q psy2399 187 YSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKW 219 (232)
Q Consensus 187 ~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~ 219 (232)
+|+.||.. +++---+|-..-+....+...++
T Consensus 145 ~Cp~Cgg~--lrP~Vv~FgE~~p~~~~~~~~~~ 175 (244)
T PRK14138 145 RCDDCSGL--IRPNIVFFGEALPQDALREAIRL 175 (244)
T ss_pred CCCCCCCe--ECCCEEECCCcCCHHHHHHHHHH
Confidence 89999864 34444444332112344555555
No 403
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit. This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=25.84 E-value=2.5e+02 Score=21.84 Aligned_cols=73 Identities=14% Similarity=0.051 Sum_probs=43.6
Q ss_pred CCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhccCCc
Q psy2399 23 ANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKKYLDGFYIK 102 (232)
Q Consensus 23 ~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~~l~~lgI~ 102 (232)
+-|+.|- +-..++++.++..| ++|... |.| .+|+++++...+ +.-+..+++
T Consensus 9 v~~D~Hd------iGk~iv~~~l~~~G-----feVi~L-G~~--------------v~~e~~v~aa~~---~~adiVglS 59 (134)
T TIGR01501 9 IGSDCHA------VGNKILDHAFTNAG-----FNVVNL-GVL--------------SPQEEFIKAAIE---TKADAILVS 59 (134)
T ss_pred ecCChhh------HhHHHHHHHHHHCC-----CEEEEC-CCC--------------CCHHHHHHHHHH---cCCCEEEEe
Confidence 4577662 23467888999999 999876 333 456666655442 233444543
Q ss_pred CCccccCCChhHHHHHHHHHHHHHhhcCC
Q psy2399 103 FDNWYSTDSIENIDLVQKIYDTLYNKAKL 131 (232)
Q Consensus 103 ~d~~~~t~~~~~~~~v~~~~~~L~~~kG~ 131 (232)
. .. | .+...+.++.+.|. ++|+
T Consensus 60 ~--l~-~---~~~~~~~~~~~~l~-~~gl 81 (134)
T TIGR01501 60 S--LY-G---HGEIDCKGLRQKCD-EAGL 81 (134)
T ss_pred c--cc-c---cCHHHHHHHHHHHH-HCCC
Confidence 2 11 2 24455666777787 7775
No 404
>PRK04351 hypothetical protein; Provisional
Probab=25.64 E-value=38 Score=26.94 Aligned_cols=34 Identities=15% Similarity=0.108 Sum_probs=22.4
Q ss_pred CCCcCccCCCCCCCc---cccCCcccCCCCccEEEEc
Q psy2399 167 YGDFCECCSSIYTPT---KLINPYSILSGTKPIIKSS 200 (232)
Q Consensus 167 ~g~~Ce~Cg~~~~~~---~l~~~~~~~~g~~~~~~~~ 200 (232)
+-..|.+||..+.-. ....++|..|+..+....+
T Consensus 111 y~Y~C~~Cg~~~~r~Rr~n~~~yrCg~C~g~L~~~~~ 147 (149)
T PRK04351 111 YLYECQSCGQQYLRKRRINTKRYRCGKCRGKLKLINQ 147 (149)
T ss_pred EEEECCCCCCEeeeeeecCCCcEEeCCCCcEeeeccc
Confidence 445688888655322 2245799999998876644
No 405
>TIGR02487 NrdD anaerobic ribonucleoside-triphosphate reductase. This model represents the oxygen-sensitive (anaerobic, class III) ribonucleotide reductase. The mechanism of the enzyme involves a glycine-centered radical, a C-terminal zinc binding site, and a set of conserved active site cysteines and asparagines. This enzyme requires an activating component, NrdG, a radical-SAM domain containing enzyme (TIGR02491). Together the two form an alpha-2/beta-2 heterodimer.
Probab=25.48 E-value=42 Score=32.67 Aligned_cols=22 Identities=27% Similarity=0.465 Sum_probs=14.4
Q ss_pred ccCCCCCCccccCC-CcCccCCC
Q psy2399 155 KGECPICNAKDQYG-DFCECCSS 176 (232)
Q Consensus 155 ~g~cp~c~~~~~~g-~~Ce~Cg~ 176 (232)
...|+.||...... +.|+.||.
T Consensus 524 ~~~C~~CG~~g~~~~~~CP~Cgs 546 (579)
T TIGR02487 524 VDVCEDCGYTGEGLNDKCPKCGS 546 (579)
T ss_pred CccCCCCCCCCCCCCCcCcCCCC
Confidence 34788887644332 57888886
No 406
>PF08784 RPA_C: Replication protein A C terminal; InterPro: IPR014892 This protein corresponds to the C-terminal of the single stranded DNA binding protein RPA (replication protein A). RPA is involved in many DNA metabolic pathways including DNA replication, DNA repair, recombination, cell cycle and DNA damage checkpoints. ; PDB: 1QUQ_C 2PQA_C 3KDF_B 2Z6K_B 2PI2_B 1L1O_E 1DPU_A 1Z1D_A.
Probab=25.32 E-value=64 Score=23.36 Aligned_cols=50 Identities=14% Similarity=0.012 Sum_probs=29.9
Q ss_pred HHHHHHHHHHH-HHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEec
Q psy2399 84 FINNISSNRKK-YLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINK 135 (232)
Q Consensus 84 ~~~~~~~~~~~-~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~ 135 (232)
+.+++.+.+++ .-..-||..+....... .-...|..++..|. +.|+||.-
T Consensus 48 ~~~~Vl~~i~~~~~~~~Gv~v~~I~~~l~-~~~~~v~~al~~L~-~eG~IYsT 98 (102)
T PF08784_consen 48 LQDKVLNFIKQQPNSEEGVHVDEIAQQLG-MSENEVRKALDFLS-NEGHIYST 98 (102)
T ss_dssp HHHHHHHHHHC----TTTEEHHHHHHHST-S-HHHHHHHHHHHH-HTTSEEES
T ss_pred HHHHHHHHHHhcCCCCCcccHHHHHHHhC-cCHHHHHHHHHHHH-hCCeEecc
Confidence 34444444444 33345666665543332 34678999999999 99999963
No 407
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=25.31 E-value=2.4e+02 Score=21.01 Aligned_cols=30 Identities=13% Similarity=-0.061 Sum_probs=21.8
Q ss_pred CCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCC
Q psy2399 23 ANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICAD 63 (232)
Q Consensus 23 ~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~ 63 (232)
+.|+.|- +-.++++.+++..| ++|.+.-..
T Consensus 7 ~~gd~H~------lG~~~~~~~l~~~G-----~~vi~lG~~ 36 (122)
T cd02071 7 PGLDGHD------RGAKVIARALRDAG-----FEVIYTGLR 36 (122)
T ss_pred cCCChhH------HHHHHHHHHHHHCC-----CEEEECCCC
Confidence 4477772 33567788899999 999988543
No 408
>PRK00481 NAD-dependent deacetylase; Provisional
Probab=25.28 E-value=44 Score=28.43 Aligned_cols=26 Identities=19% Similarity=0.359 Sum_probs=15.5
Q ss_pred cCccCCCCCCCcccc---CCcccCCCCcc
Q psy2399 170 FCECCSSIYTPTKLI---NPYSILSGTKP 195 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~---~~~~~~~g~~~ 195 (232)
+|..|+..+...+++ -|.|+.||+.+
T Consensus 124 ~C~~C~~~~~~~~~~~~~~p~C~~Cgg~l 152 (242)
T PRK00481 124 RCTKCGQTYDLDEYLKPEPPRCPKCGGIL 152 (242)
T ss_pred eeCCCCCCcChhhhccCCCCCCCCCCCcc
Confidence 466666655433332 36788898753
No 409
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=25.19 E-value=21 Score=19.35 Aligned_cols=14 Identities=29% Similarity=0.847 Sum_probs=10.1
Q ss_pred cCccCCCCCCCccc
Q psy2399 170 FCECCSSIYTPTKL 183 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l 183 (232)
.|..||+-+.++.|
T Consensus 4 ~C~~CgR~F~~~~l 17 (25)
T PF13913_consen 4 PCPICGRKFNPDRL 17 (25)
T ss_pred cCCCCCCEECHHHH
Confidence 48888888776654
No 410
>COG4320 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.17 E-value=5.3e+02 Score=23.58 Aligned_cols=90 Identities=14% Similarity=0.183 Sum_probs=44.0
Q ss_pred CCCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEE-ecCCChh------------hHHHHHHHHHcCCCHHHHHHHHH
Q psy2399 23 ANGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYF-ICADDAH------------GAAIMIAAEKAGMTPKEFINNIS 89 (232)
Q Consensus 23 ~nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~-~~g~D~~------------G~~i~~~a~~~g~~~~e~~~~~~ 89 (232)
.+|++|+|+.-.+ +|.+| .|.| +..+|+. ++.+..+++..|+. .+-+.++.
T Consensus 61 ~cGD~HLgN~ga~------------~~~~G---~V~f~i~DFDe~~~g~~~~DlvRl~~Sl~~a~Rs~~L~-d~d~~~~~ 124 (410)
T COG4320 61 LCGDAHLGNFGAA------------RNSKG---NVVFKIADFDEGHLGQYIWDLVRLAVSLVLAGRSNGLN-DADIEKAI 124 (410)
T ss_pred Eecccccccchhh------------ccCCC---ceEEEecccchhhccchHHHHHHHHHHHHHHhhccCCC-chhHHHHH
Confidence 4799999997643 33223 4444 4455542 34445555554442 22233344
Q ss_pred HHHHHHHhccCCc--CCccccCCChhHHHHHHHHHHHHHhhcCC
Q psy2399 90 SNRKKYLDGFYIK--FDNWYSTDSIENIDLVQKIYDTLYNKAKL 131 (232)
Q Consensus 90 ~~~~~~l~~lgI~--~d~~~~t~~~~~~~~v~~~~~~L~~~kG~ 131 (232)
+.+.+.+...-.+ --+|+ .+..-...+.+.+..+. ++.+
T Consensus 125 ~~~v~~Y~~Aa~s~G~~r~i--~da~~~givr~~~R~~~-n~~~ 165 (410)
T COG4320 125 KIMVQAYKMAAFSKGEKRFI--LDANTSGIVRKTIRAAN-NKSH 165 (410)
T ss_pred HHHHHHHHHhhccCCccchh--hhhhhhHHHHHHHHHHH-hhhh
Confidence 4444443222221 12232 22234567777888777 5443
No 411
>PRK09263 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=25.13 E-value=64 Score=32.32 Aligned_cols=23 Identities=26% Similarity=0.514 Sum_probs=16.3
Q ss_pred ccCCCCCCccc-----cCCCcCccCCCC
Q psy2399 155 KGECPICNAKD-----QYGDFCECCSSI 177 (232)
Q Consensus 155 ~g~cp~c~~~~-----~~g~~Ce~Cg~~ 177 (232)
...|+.||... ..++.|+.||..
T Consensus 641 ~~~C~~CG~~Ge~~~~~~~~~CP~CG~~ 668 (711)
T PRK09263 641 IDECYECGFTGEFECTEKGFTCPKCGNH 668 (711)
T ss_pred CcccCCCCCCccccCCCCCCcCcCCCCC
Confidence 35899999742 225789999964
No 412
>PF11793 FANCL_C: FANCL C-terminal domain; PDB: 3K1L_A.
Probab=25.04 E-value=25 Score=24.11 Aligned_cols=12 Identities=50% Similarity=1.065 Sum_probs=7.1
Q ss_pred eccCCCCCCccc
Q psy2399 154 IKGECPICNAKD 165 (232)
Q Consensus 154 v~g~cp~c~~~~ 165 (232)
+.|.||+|..+.
T Consensus 54 ~~G~CP~C~~~i 65 (70)
T PF11793_consen 54 IFGECPYCSSPI 65 (70)
T ss_dssp -EEE-TTT-SEE
T ss_pred cccCCcCCCCee
Confidence 678999997753
No 413
>KOG3507|consensus
Probab=24.97 E-value=29 Score=23.24 Aligned_cols=27 Identities=15% Similarity=0.092 Sum_probs=14.9
Q ss_pred cCccCCCCCCCccccCCcccCCCCccE
Q psy2399 170 FCECCSSIYTPTKLINPYSILSGTKPI 196 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~~~~~~~~g~~~~ 196 (232)
+|-.||.-++-.-----+|..||..+-
T Consensus 22 iCgdC~~en~lk~~D~irCReCG~RIl 48 (62)
T KOG3507|consen 22 ICGDCGQENTLKRGDVIRCRECGYRIL 48 (62)
T ss_pred EeccccccccccCCCcEehhhcchHHH
Confidence 466677654322111237888887654
No 414
>COG4352 RPL13 Ribosomal protein L13E [Translation, ribosomal structure and biogenesis]
Probab=24.92 E-value=1.1e+02 Score=23.13 Aligned_cols=38 Identities=16% Similarity=0.176 Sum_probs=30.1
Q ss_pred HHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCE
Q psy2399 94 KYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLI 132 (232)
Q Consensus 94 ~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~i 132 (232)
+....|||..|.--++.+++..+...+.++.|. +++.+
T Consensus 74 ~~AR~LGI~VD~RRr~~~~en~eal~k~ik~ll-~~~~~ 111 (113)
T COG4352 74 RKARTLGIAVDHRRRNRNPENFEALVKRIKELL-EKIIV 111 (113)
T ss_pred HHHHhhCcceehhhccCCHHHHHHHHHHHHHHH-hcCcc
Confidence 344689999999888888888888888888888 76654
No 415
>smart00576 BTP Bromodomain transcription factors and PHD domain containing proteins. subdomain of archael histone-like transcription factors
Probab=24.84 E-value=1.6e+02 Score=20.33 Aligned_cols=16 Identities=0% Similarity=-0.357 Sum_probs=11.4
Q ss_pred hHHHHHHHHHHHHHcC
Q psy2399 34 EYIQADIWVRFQCMQQ 49 (232)
Q Consensus 34 ~~v~~Dvl~R~lr~~G 49 (232)
-.++--++++.++..|
T Consensus 5 ~~ll~~~Vaqil~~~G 20 (77)
T smart00576 5 FALLRIAVAQILESAG 20 (77)
T ss_pred HHHHHHHHHHHHHHcC
Confidence 3455667788888888
No 416
>PF14255 Cys_rich_CPXG: Cysteine-rich CPXCG
Probab=24.45 E-value=35 Score=22.19 Aligned_cols=9 Identities=33% Similarity=1.021 Sum_probs=6.5
Q ss_pred CCCCCCccc
Q psy2399 157 ECPICNAKD 165 (232)
Q Consensus 157 ~cp~c~~~~ 165 (232)
.||+||...
T Consensus 2 ~CPyCge~~ 10 (52)
T PF14255_consen 2 QCPYCGEPI 10 (52)
T ss_pred CCCCCCCee
Confidence 488888754
No 417
>PHA01976 helix-turn-helix protein
Probab=24.41 E-value=1.5e+02 Score=19.30 Aligned_cols=37 Identities=11% Similarity=0.047 Sum_probs=19.9
Q ss_pred HHHHHHHcCCCHHHHHHHH-------HHHHHHHHhccCCcCCcc
Q psy2399 70 IMIAAEKAGMTPKEFINNI-------SSNRKKYLDGFYIKFDNW 106 (232)
Q Consensus 70 i~~~a~~~g~~~~e~~~~~-------~~~~~~~l~~lgI~~d~~ 106 (232)
....|+..|+++..+..-- .+.+.+..+.|||+.+.+
T Consensus 18 ~~~lA~~~gvs~~~v~~~e~g~~~p~~~~l~~ia~~l~v~~~~l 61 (67)
T PHA01976 18 APELSRRAGVRHSLIYDFEADKRLPNLKTLLRLADALGVTLDWL 61 (67)
T ss_pred HHHHHHHhCCCHHHHHHHHcCCCCCCHHHHHHHHHHHCcCHHHH
Confidence 3455555565544433211 244566667777776655
No 418
>PRK11827 hypothetical protein; Provisional
Probab=24.16 E-value=39 Score=22.71 Aligned_cols=23 Identities=30% Similarity=0.720 Sum_probs=12.3
Q ss_pred CCCCCCccccC-----CCcCccCCCCCC
Q psy2399 157 ECPICNAKDQY-----GDFCECCSSIYT 179 (232)
Q Consensus 157 ~cp~c~~~~~~-----g~~Ce~Cg~~~~ 179 (232)
.||.|+.+-.+ .-.|..|+..|.
T Consensus 10 aCP~ckg~L~~~~~~~~Lic~~~~laYP 37 (60)
T PRK11827 10 ACPVCNGKLWYNQEKQELICKLDNLAFP 37 (60)
T ss_pred ECCCCCCcCeEcCCCCeEECCccCeecc
Confidence 47777655322 234666665543
No 419
>cd01410 SIRT7 SIRT7: Eukaryotic and prokaryotic group (class4) which includes human sirtuin SIRT6, SIRT7, and several bacterial homologs; and are members of the SIR2 family of proteins, silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation. Sir2 proteins have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span.
Probab=24.12 E-value=41 Score=28.03 Aligned_cols=36 Identities=17% Similarity=0.317 Sum_probs=20.9
Q ss_pred CcCccCCCCCCCccc--------cCCcccCCCCccEEEEccceeEe
Q psy2399 169 DFCECCSSIYTPTKL--------INPYSILSGTKPIIKSSKHFFFK 206 (232)
Q Consensus 169 ~~Ce~Cg~~~~~~~l--------~~~~~~~~g~~~~~~~~~~~f~~ 206 (232)
.+|..|+..+...+. ..|+|..||+. +|+---||-.
T Consensus 96 ~~C~~C~~~~~~~~~~~~~~~~~~~p~C~~Cgg~--lrP~VV~FgE 139 (206)
T cd01410 96 EVCKSCGPEYVRDDVVETRGDKETGRRCHACGGI--LKDTIVDFGE 139 (206)
T ss_pred ccCCCCCCccchHHHHHHhhcCCCCCcCCCCcCc--cCCcEEECCC
Confidence 346667765543322 24789999875 4555555544
No 420
>PF04606 Ogr_Delta: Ogr/Delta-like zinc finger; InterPro: IPR007684 This entry is represented by Bacteriophage P2, Ogr. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This is a viral family of phage zinc-binding transcriptional activators, which also contains cryptic members in some bacterial genomes []. The P4 phage delta protein contains two such domains attached covalently, while the P2 phage Ogr proteins possess one domain but function as dimers. All the members of this family have the following consensus sequence: C-X(2)-C-X(3)-A-(X)2-R-X(15)-C-X(4)-C-X(3)-F [].; GO: 0006355 regulation of transcription, DNA-dependent
Probab=23.83 E-value=37 Score=21.29 Aligned_cols=9 Identities=44% Similarity=1.228 Sum_probs=6.1
Q ss_pred CCCCCCccc
Q psy2399 157 ECPICNAKD 165 (232)
Q Consensus 157 ~cp~c~~~~ 165 (232)
+||.||++.
T Consensus 1 ~CP~Cg~~a 9 (47)
T PF04606_consen 1 RCPHCGSKA 9 (47)
T ss_pred CcCCCCCee
Confidence 478877754
No 421
>PRK07945 hypothetical protein; Provisional
Probab=23.74 E-value=1.2e+02 Score=27.30 Aligned_cols=30 Identities=30% Similarity=0.365 Sum_probs=14.2
Q ss_pred EecCCChhh-------HHHHHHHHHcCCCHHHHHHHH
Q psy2399 59 FICADDAHG-------AAIMIAAEKAGMTPKEFINNI 88 (232)
Q Consensus 59 ~~~g~D~~G-------~~i~~~a~~~g~~~~e~~~~~ 88 (232)
++.|+|.|. ......+++.|++++.+++..
T Consensus 287 vtigSDAH~p~~v~~~~~~~~~a~~~g~~~~~i~n~~ 323 (335)
T PRK07945 287 FSIDTDAHAPGQLDWLGYGCERAEEAGVPADRIVNTW 323 (335)
T ss_pred EEecCCCCChhhcchHHHHHHHHHHcCCCHHHcccCC
Confidence 466666553 122333344455555554444
No 422
>COG2051 RPS27A Ribosomal protein S27E [Translation, ribosomal structure and biogenesis]
Probab=23.65 E-value=34 Score=23.49 Aligned_cols=28 Identities=21% Similarity=0.617 Sum_probs=17.2
Q ss_pred cceeccCCCCCCcc------ccCCCcCccCCCCC
Q psy2399 151 DRYIKGECPICNAK------DQYGDFCECCSSIY 178 (232)
Q Consensus 151 ~~~v~g~cp~c~~~------~~~g~~Ce~Cg~~~ 178 (232)
.+|+.-.||.|+.. .+.-..|..||+.+
T Consensus 15 s~Fl~VkCpdC~N~q~vFshast~V~C~~CG~~l 48 (67)
T COG2051 15 SRFLRVKCPDCGNEQVVFSHASTVVTCLICGTTL 48 (67)
T ss_pred ceEEEEECCCCCCEEEEeccCceEEEecccccEE
Confidence 35677788888753 22334577777754
No 423
>PHA02768 hypothetical protein; Provisional
Probab=23.63 E-value=34 Score=22.56 Aligned_cols=26 Identities=27% Similarity=0.373 Sum_probs=16.8
Q ss_pred CCcCccCCCCCCCcc-c--------cCCcccCCCC
Q psy2399 168 GDFCECCSSIYTPTK-L--------INPYSILSGT 193 (232)
Q Consensus 168 g~~Ce~Cg~~~~~~~-l--------~~~~~~~~g~ 193 (232)
|..|+.||+.++-.+ | ...+|..||.
T Consensus 5 ~y~C~~CGK~Fs~~~~L~~H~r~H~k~~kc~~C~k 39 (55)
T PHA02768 5 GYECPICGEIYIKRKSMITHLRKHNTNLKLSNCKR 39 (55)
T ss_pred ccCcchhCCeeccHHHHHHHHHhcCCcccCCcccc
Confidence 557999998876432 1 2456666664
No 424
>PF04368 DUF507: Protein of unknown function (DUF507); InterPro: IPR007463 This entry represents a bacterial protein of unknown function.
Probab=23.57 E-value=3.6e+02 Score=22.21 Aligned_cols=96 Identities=19% Similarity=0.154 Sum_probs=51.8
Q ss_pred cCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHc---CCCHHHHHHHHHHHHHHHHhccCCc
Q psy2399 26 ELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKA---GMTPKEFINNISSNRKKYLDGFYIK 102 (232)
Q Consensus 26 ~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~---g~~~~e~~~~~~~~~~~~l~~lgI~ 102 (232)
+.||+++.+.|+.|... .| -|.+.-+....-..+...-... -..-.+-+..+.++....+...+++
T Consensus 5 ~~~i~~IA~kI~~dL~~-----~~------~Ie~~~~~e~~~~~i~~il~e~l~~E~~Lde~areiLe~~~~eie~~~id 73 (183)
T PF04368_consen 5 PEHIPYIANKIAQDLSN-----SG------LIELTDDREALAKDIEEILEEDLKKEEALDEEAREILEENEDEIEFMGID 73 (183)
T ss_pred HHHHHHHHHHHHHHHHh-----CC------CeeecCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhccCC
Confidence 35788888777777654 33 4555433332222222211110 0011223444555555555556664
Q ss_pred CCc--------------cccCCChhHHHHHHHHHHHHHhhcCCEE
Q psy2399 103 FDN--------------WYSTDSIENIDLVQKIYDTLYNKAKLII 133 (232)
Q Consensus 103 ~d~--------------~~~t~~~~~~~~v~~~~~~L~~~kG~iy 133 (232)
... |...+++.+......++..|+ +.++|-
T Consensus 74 ~r~mF~~iKkkLA~e~~~~l~~edr~~~lah~i~~~l~-~~~~i~ 117 (183)
T PF04368_consen 74 YRQMFWMIKKKLAKERGFILNSEDRYNQLAHKILDELW-EEDLID 117 (183)
T ss_pred HHHHHHHHHHHHHHHcCCCCCHHHHHHHHHHHHHHHHh-hCCCee
Confidence 431 333455678888899999999 888874
No 425
>TIGR00155 pqiA_fam integral membrane protein, PqiA family. This family consists of uncharacterized predicted integral membrane proteins found, so far, only in the Proteobacteria. Of two members in E. coli, one is induced by paraquat and is designated PqiA, paraquat-inducible protein A.
Probab=23.53 E-value=46 Score=30.87 Aligned_cols=26 Identities=19% Similarity=0.470 Sum_probs=15.5
Q ss_pred CccCCCCCCCccccCCcccCCCCccEEE
Q psy2399 171 CECCSSIYTPTKLINPYSILSGTKPIIK 198 (232)
Q Consensus 171 Ce~Cg~~~~~~~l~~~~~~~~g~~~~~~ 198 (232)
|+.|+....+. ...+|+.||+....+
T Consensus 218 C~~Cd~~~~~~--~~a~CpRC~~~L~~~ 243 (403)
T TIGR00155 218 CSACHTTILPA--QEPVCPRCSTPLYVR 243 (403)
T ss_pred CCCCCCccCCC--CCcCCcCCCCcccCC
Confidence 66666544433 235788888877543
No 426
>PF14338 Mrr_N: Mrr N-terminal domain
Probab=23.48 E-value=1.9e+02 Score=20.55 Aligned_cols=70 Identities=16% Similarity=0.068 Sum_probs=38.5
Q ss_pred HHHHHHHHHcC--CCHHHHHHHHHHHHHHHHhccCCcCCccccCCChhHHHHHHHHHHHHHhhcCCEEeccccee
Q psy2399 68 AAIMIAAEKAG--MTPKEFINNISSNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDTLYNKAKLIINKKINQF 140 (232)
Q Consensus 68 ~~i~~~a~~~g--~~~~e~~~~~~~~~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~L~~~kG~iy~~~~~~~ 140 (232)
.||......+| .+..++.+.+.+.+.-.-+.+..... .....+.+...+.|....|. ..|+|.+..+.+|
T Consensus 7 ~piL~~L~~~g~~~~~~ei~~~v~~~~~ls~e~~~~~~~--sg~~~~~~~~ri~Wa~~~L~-~aGli~~~~rG~~ 78 (92)
T PF14338_consen 7 PPILEALKDLGGSASRKEIYERVAERFGLSDEERNERLP--SGQGYSRFKNRIRWARSYLK-KAGLIERPKRGIW 78 (92)
T ss_pred HHHHHHHHHcCCCcCHHHHHHHHHHHhCCCHHHHHHHcc--cCCcchhHHHhHHHHHHHHH-HCCCccCCCCCce
Confidence 34555554433 45666666665444222221111110 11122368889999999999 9999976554433
No 427
>cd07212 Pat_PNPLA9 Patatin-like phospholipase domain containing protein 9. PNPLA9 is a Ca-independent phospholipase that catalyzes the hydrolysis of glycerophospholipids at the sn-2 position. PNPLA9 is also known as PLA2G6 (phospholipase A2 group VI) or iPLA2beta. PLA2G6 is stimulated by ATP and inhibited by bromoenol lactone (BEL). In humans, PNPLA9 in expressed ubiquitously and is involved in signal transduction, cell proliferation, and apoptotic cell death. Mutations in human PLA2G6 leads to infantile neuroaxonal dystrophy (INAD) and idiopathic neurodegeneration with brain iron accumulation (NBIA). This family includes PLA2G6 from Homo sapiens and Rattus norvegicus.
Probab=23.45 E-value=2.7e+02 Score=24.69 Aligned_cols=60 Identities=12% Similarity=0.151 Sum_probs=43.6
Q ss_pred hHHHhHHHHHHHHHHHHHcCCCCCCce----eEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Q psy2399 30 GHIMEYIQADIWVRFQCMQQDNGKSRQ----VYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKKYL 96 (232)
Q Consensus 30 GH~~~~v~~Dvl~R~lr~~G~~~~~~~----v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~~l 96 (232)
|=+|+.+..-+|.+..+..| .+ ..++.|+-..|.-....| .|+++++..+.+.+...+.+
T Consensus 7 GG~RGl~~i~vL~~le~~~g-----~~i~~~fD~i~GTStGgiIA~~la--~g~s~~e~~~~y~~~~~~iF 70 (312)
T cd07212 7 GGIRGLVLIQMLIAIEKALG-----RPIRELFDWIAGTSTGGILALALL--HGKSLREARRLYLRMKDRVF 70 (312)
T ss_pred cHHHHHHHHHHHHHHHHHhC-----CCchhhccEEEeeChHHHHHHHHH--cCCCHHHHHHHHHHhhhhhC
Confidence 56788888899999888878 66 678999987775444444 38898888777665444443
No 428
>PF01485 IBR: IBR domain; InterPro: IPR002867 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a cysteine-rich (C6HC) zinc finger domain that is present in Triad1, and which is conserved in other proteins encoded by various eukaryotes. The C6HC consensus pattern is: C-x(4)-C-x(14-30)-C-x(1-4)-C-x(4)-C-x(2)-C-x(4)-H-x(4)-C The C6HC zinc finger motif is the fourth family member of the zinc-binding RING, LIM, and LAP/PHD fingers. Strikingly, in most of the proteins the C6HC domain is flanked by two RING finger structures IPR001841 from INTERPRO. The novel C6HC motif has been called DRIL (double RING finger linked). The strong conservation of the larger tripartite TRIAD (twoRING fingers and DRIL) structure indicates that the three subdomains are functionally linked and identifies a novel class of proteins []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2CT7_A 1WD2_A 2JMO_A 1WIM_A.
Probab=23.44 E-value=45 Score=21.48 Aligned_cols=33 Identities=18% Similarity=0.369 Sum_probs=16.2
Q ss_pred eeccC--CCccccc--ceec--cCCCCCCccccCCCcCccCCCC
Q psy2399 140 FFDPI--KNIFLPD--RYIK--GECPICNAKDQYGDFCECCSSI 177 (232)
Q Consensus 140 ~~~~~--~~~~l~~--~~v~--g~cp~c~~~~~~g~~Ce~Cg~~ 177 (232)
-|||. ++.++.- .... ..|+.|+..- |-.|+..
T Consensus 19 ~~Cp~~~C~~~~~~~~~~~~~~~~C~~C~~~f-----C~~C~~~ 57 (64)
T PF01485_consen 19 RWCPNPDCEYIIEKDDGCNSPIVTCPSCGTEF-----CFKCGEP 57 (64)
T ss_dssp C--TTSST---ECS-SSTTS--CCTTSCCSEE-----CSSSTSE
T ss_pred cCCCCCCCcccEEecCCCCCCeeECCCCCCcC-----ccccCcc
Confidence 37876 7776533 2222 5688886643 7777764
No 429
>COG4306 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=23.44 E-value=47 Score=25.81 Aligned_cols=10 Identities=40% Similarity=1.132 Sum_probs=6.4
Q ss_pred cCccCCCCCC
Q psy2399 170 FCECCSSIYT 179 (232)
Q Consensus 170 ~Ce~Cg~~~~ 179 (232)
+|.+||+.+.
T Consensus 70 fchncgs~fp 79 (160)
T COG4306 70 FCHNCGSRFP 79 (160)
T ss_pred hhhcCCCCCC
Confidence 4777776553
No 430
>PRK14526 adenylate kinase; Provisional
Probab=23.40 E-value=85 Score=26.21 Aligned_cols=43 Identities=9% Similarity=0.182 Sum_probs=26.1
Q ss_pred CccCCCCCCCcc---ccCCcccCCCCccEEEEccceeEecCChhhHHHHHhh
Q psy2399 171 CECCSSIYTPTK---LINPYSILSGTKPIIKSSKHFFFKLSDKRCIDFLRKW 219 (232)
Q Consensus 171 Ce~Cg~~~~~~~---l~~~~~~~~g~~~~~~~~~~~f~~L~~~~~~~~l~~~ 219 (232)
|..||+.|...- -....|..||.....|.-++ - +..+.+|..|
T Consensus 125 ~~~~g~~y~~~~~pp~~~~~~~~~~~~l~~R~DD~----~--e~i~~Rl~~y 170 (211)
T PRK14526 125 CKSCNNIFNIYTLPTKEKGICDVCKGDLYQRKDDK----E--ESLKTRLQEY 170 (211)
T ss_pred ccccCCccccccCCCCccCcCCCCCCeeeccCCCC----H--HHHHHHHHHH
Confidence 666666653211 12457788887777666555 2 5677777776
No 431
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=23.37 E-value=1.9e+02 Score=18.80 Aligned_cols=30 Identities=13% Similarity=0.261 Sum_probs=23.4
Q ss_pred hHHHHHHHHHcCCCHHHHHHHHHHHHHHHH
Q psy2399 67 GAAIMIAAEKAGMTPKEFINNISSNRKKYL 96 (232)
Q Consensus 67 G~~i~~~a~~~g~~~~e~~~~~~~~~~~~l 96 (232)
+..+...|+++|+++..+.++.....++.+
T Consensus 23 ~~tl~elA~~lgis~st~~~~LRrae~kli 52 (53)
T PF04967_consen 23 RITLEELAEELGISKSTVSEHLRRAERKLI 52 (53)
T ss_pred cCCHHHHHHHhCCCHHHHHHHHHHHHHHHh
Confidence 345677889999999998888887776654
No 432
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=23.25 E-value=46 Score=25.99 Aligned_cols=10 Identities=10% Similarity=-0.121 Sum_probs=4.7
Q ss_pred ccCCCccccc
Q psy2399 142 DPIKNIFLPD 151 (232)
Q Consensus 142 ~~~~~~~l~~ 151 (232)
|.+|++...|
T Consensus 4 Ct~Cg~~f~d 13 (131)
T PF09845_consen 4 CTKCGRVFED 13 (131)
T ss_pred cCcCCCCcCC
Confidence 4445554444
No 433
>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]
Probab=23.22 E-value=28 Score=31.50 Aligned_cols=26 Identities=19% Similarity=0.212 Sum_probs=20.1
Q ss_pred cCccCCCCCCCccccC--CcccCCCCcc
Q psy2399 170 FCECCSSIYTPTKLIN--PYSILSGTKP 195 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l~~--~~~~~~g~~~ 195 (232)
.|..|.+.++.++.+. -+|+-||..+
T Consensus 248 AC~rC~t~y~le~A~~~~wrCpkCGg~i 275 (403)
T COG1379 248 ACSRCYTRYSLEEAKSLRWRCPKCGGKI 275 (403)
T ss_pred HHHHhhhccCcchhhhhcccCcccccch
Confidence 3888888888777765 7888888854
No 434
>PF15366 DUF4597: Domain of unknown function (DUF4597)
Probab=23.19 E-value=76 Score=21.00 Aligned_cols=14 Identities=29% Similarity=0.515 Sum_probs=9.0
Q ss_pred CcEEEEcCCCCCCCcC
Q psy2399 12 RRIFVTTALPYANGEL 27 (232)
Q Consensus 12 ~~~~v~~~~P~~nG~l 27 (232)
..++|| ||+|+|..
T Consensus 23 PnIIiT--PPTPTg~~ 36 (62)
T PF15366_consen 23 PNIIIT--PPTPTGMM 36 (62)
T ss_pred CceEec--CCCCCcee
Confidence 445555 67888864
No 435
>PF01873 eIF-5_eIF-2B: Domain found in IF2B/IF5; InterPro: IPR002735 The beta subunit of archaeal and eukaryotic translation initiation factor 2 (IF2beta) and the N-terminal domain of translation initiation factor 5 (IF5) show significant sequence homology []. Archaeal IF2beta contains two independent structural domains: an N-terminal mixed alpha/beta core domain (topological similarity to the common core of ribosomal proteins L23 and L15e), and a C-terminal domain consisting of a zinc-binding C4 finger []. Archaeal IF2beta is a ribosome-dependent GTPase that stimulates the binding of initiator Met-tRNA(i)(Met) to the ribosomes, even in the absence of other factors []. The C-terminal domain of eukaryotic IF5 is involved in the formation of the multi-factor complex (MFC), an important intermediate for the 43S pre-initiation complex assembly []. IF5 interacts directly with IF1, IF2beta and IF3c, which together with IF2-bound Met-tRNA(i)(Met) form the MFC. This entry represents both the N-terminal and zinc-binding domains of IF2, as well as a domain in IF5.; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 2DCU_B 2D74_B 2E9H_A 2G2K_A 1NEE_A 3CW2_L 2QMU_C 3V11_C 2NXU_A 2QN6_C ....
Probab=23.19 E-value=26 Score=27.04 Aligned_cols=18 Identities=6% Similarity=0.156 Sum_probs=9.7
Q ss_pred HHHHHHcCCCHHHHHHHH
Q psy2399 71 MIAAEKAGMTPKEFINNI 88 (232)
Q Consensus 71 ~~~a~~~g~~~~e~~~~~ 88 (232)
...|+.++.+|+-+...+
T Consensus 38 ~dI~~~L~R~p~~~~ky~ 55 (125)
T PF01873_consen 38 VDICKALNRDPEHVLKYF 55 (125)
T ss_dssp HHHHHHHTSSHHHHHHHH
T ss_pred HHHHHHHCCCHHHHHHHH
Confidence 445566666665444433
No 436
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=23.18 E-value=3e+02 Score=20.05 Aligned_cols=71 Identities=18% Similarity=0.186 Sum_probs=39.7
Q ss_pred CCcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhccCCcC
Q psy2399 24 NGELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKKYLDGFYIKF 103 (232)
Q Consensus 24 nG~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~~l~~lgI~~ 103 (232)
-|+.|- +-..+++.+++..| ++|.+.- . ..+++++++...+ ..-+-++|
T Consensus 8 ~~e~H~------lG~~~~~~~l~~~G-----~~V~~lg-~--------------~~~~~~l~~~~~~---~~pdvV~i-- 56 (119)
T cd02067 8 GGDGHD------IGKNIVARALRDAG-----FEVIDLG-V--------------DVPPEEIVEAAKE---EDADAIGL-- 56 (119)
T ss_pred CCchhh------HHHHHHHHHHHHCC-----CEEEECC-C--------------CCCHHHHHHHHHH---cCCCEEEE--
Confidence 366663 33457778899999 9996653 2 2345555444321 11122222
Q ss_pred CccccCCChhHHHHHHHHHHHHHhhcC
Q psy2399 104 DNWYSTDSIENIDLVQKIYDTLYNKAK 130 (232)
Q Consensus 104 d~~~~t~~~~~~~~v~~~~~~L~~~kG 130 (232)
+.+...+...+.++++.|. +.+
T Consensus 57 ----S~~~~~~~~~~~~~i~~l~-~~~ 78 (119)
T cd02067 57 ----SGLLTTHMTLMKEVIEELK-EAG 78 (119)
T ss_pred ----eccccccHHHHHHHHHHHH-HcC
Confidence 2223356677788888887 654
No 437
>PF12647 RNHCP: RNHCP domain; InterPro: IPR024439 This domain is found in uncharacterised bacterial proteins. It is typically between 94 and 143 amino acids in length and has a conserved RNHCP sequence motif.
Probab=23.15 E-value=69 Score=23.46 Aligned_cols=26 Identities=15% Similarity=0.310 Sum_probs=18.1
Q ss_pred eeeccCCCccc----ccceeccCCCCCCcc
Q psy2399 139 QFFDPIKNIFL----PDRYIKGECPICNAK 164 (232)
Q Consensus 139 ~~~~~~~~~~l----~~~~v~g~cp~c~~~ 164 (232)
.|-|..|++.+ ++..-.-+||.|+..
T Consensus 4 ~F~C~~CG~~V~p~~~g~~~RNHCP~CL~S 33 (92)
T PF12647_consen 4 SFTCVHCGLTVSPLAAGSAHRNHCPSCLSS 33 (92)
T ss_pred ccCccccCCCcccCCCCCCccCcCcccccc
Confidence 45677788876 445566688888764
No 438
>COG4068 Uncharacterized protein containing a Zn-ribbon [Function unknown]
Probab=23.11 E-value=13 Score=24.95 Aligned_cols=12 Identities=17% Similarity=0.451 Sum_probs=6.7
Q ss_pred cCCCCCCccccC
Q psy2399 156 GECPICNAKDQY 167 (232)
Q Consensus 156 g~cp~c~~~~~~ 167 (232)
.+|+-|+...+-
T Consensus 9 ~HC~VCg~aIp~ 20 (64)
T COG4068 9 RHCVVCGKAIPP 20 (64)
T ss_pred ccccccCCcCCC
Confidence 456666665543
No 439
>TIGR00311 aIF-2beta translation initiation factor aIF-2, beta subunit, putative.
Probab=22.54 E-value=34 Score=26.72 Aligned_cols=15 Identities=7% Similarity=0.060 Sum_probs=7.9
Q ss_pred HHHHHHcCCCHHHHH
Q psy2399 71 MIAAEKAGMTPKEFI 85 (232)
Q Consensus 71 ~~~a~~~g~~~~e~~ 85 (232)
...|+.++.+|+-+.
T Consensus 43 ~~Ia~~L~R~~~~v~ 57 (133)
T TIGR00311 43 REVAKALNRDEQHLL 57 (133)
T ss_pred HHHHHHHCCCHHHHH
Confidence 445555666554444
No 440
>cd02874 GH18_CFLE_spore_hydrolase Cortical fragment-lytic enzyme (CFLE) is a peptidoglycan hydrolase involved in bacterial endospore germination. CFLE is expressed as an inactive preprotein (called SleB) in the forespore compartment of sporulating cells. SleB translocates across the forespore inner membrane and is deposited as a mature enzyme in the cortex layer of the spore. As part of a sensory mechanism capable of initiating germination, CFLE degrades a spore-specific peptidoglycan constituent called muramic-acid delta-lactam that comprises the outer cortex. CFLE has a C-terminal glycosyl hydrolase family 18 (GH18) catalytic domain as well as two N-terminal LysM peptidoglycan-binding domains. In addition to SleB, this family includes YaaH, YdhD, and YvbX from Bacillus subtilis.
Probab=22.53 E-value=2.2e+02 Score=24.83 Aligned_cols=47 Identities=13% Similarity=0.094 Sum_probs=25.1
Q ss_pred HHHHHHHHHHHHhcc---CCcCCcccc--CCChhHHHHHHHHHHHHHhhcCCE
Q psy2399 85 INNISSNRKKYLDGF---YIKFDNWYS--TDSIENIDLVQKIYDTLYNKAKLI 132 (232)
Q Consensus 85 ~~~~~~~~~~~l~~l---gI~~d~~~~--t~~~~~~~~v~~~~~~L~~~kG~i 132 (232)
.+++.+.+.+.+++. ||++|.... .....+..+++++-..|. .+|++
T Consensus 88 r~~fi~~iv~~l~~~~~DGidiDwE~~~~~d~~~~~~fl~~lr~~l~-~~~~~ 139 (313)
T cd02874 88 RQRLINNILALAKKYGYDGVNIDFENVPPEDREAYTQFLRELSDRLH-PAGYT 139 (313)
T ss_pred HHHHHHHHHHHHHHhCCCcEEEecccCCHHHHHHHHHHHHHHHHHhh-hcCcE
Confidence 344444444444444 344443322 222346777777777777 67754
No 441
>PF04127 DFP: DNA / pantothenate metabolism flavoprotein; InterPro: IPR007085 This entry represents the C-terminal domain found in DNA/pantothenate metabolism flavoproteins, which affects synthesis of DNA and pantothenate metabolism. These proteins contain ATP, phosphopantothenate, and cysteine binding sites. The structure of this domain has been determined in human phosphopantothenoylcysteine (PPC) synthetase [] and as the PPC synthase domain (CoaB) from the Escherichia coli coenzyme A bifunctional protein CoaBC []. This domain adopts a 3-layer alpha/beta/alpha fold with mixed beta-sheets, which topologically resembles a combination of Rossmann-like and ribokinase-like folds. The structure of these proteins predicts a ping pong mechanism with initial formation of an acyladenylate intermediate, followed by release of pyrophosphate and attack by cysteine to form the final products PPC and AMP. ; PDB: 1U7W_A 1U7U_A 1U80_C 1U7Z_A 1P9O_B 2GK4_A.
Probab=22.52 E-value=68 Score=26.34 Aligned_cols=48 Identities=8% Similarity=0.023 Sum_probs=30.5
Q ss_pred CCcEEEEcCCCCC--CCcC-CchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCC
Q psy2399 11 VRRIFVTTALPYA--NGEL-HIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADD 64 (232)
Q Consensus 11 ~~~~~v~~~~P~~--nG~l-HiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D 64 (232)
+++++||.++ |- =.+. =|++..+--.+-.+++.+..+| .+|.++.|--
T Consensus 3 gk~vlITaG~-T~E~iD~VR~ItN~SSG~~G~~lA~~~~~~G-----a~V~li~g~~ 53 (185)
T PF04127_consen 3 GKKVLITAGP-TREPIDPVRFITNRSSGKMGAALAEEAARRG-----AEVTLIHGPS 53 (185)
T ss_dssp T-EEEEEESB--EEESSSSEEEEES--SHHHHHHHHHHHHTT------EEEEEE-TT
T ss_pred CCEEEEECCC-ccccCCCceEecCCCcCHHHHHHHHHHHHCC-----CEEEEEecCc
Confidence 4567777654 21 1111 1677777778999999999999 9999999874
No 442
>KOG4080|consensus
Probab=22.44 E-value=29 Score=28.22 Aligned_cols=19 Identities=26% Similarity=0.863 Sum_probs=14.3
Q ss_pred CCCCCCccccCCCcCccCC
Q psy2399 157 ECPICNAKDQYGDFCECCS 175 (232)
Q Consensus 157 ~cp~c~~~~~~g~~Ce~Cg 175 (232)
+||.||.-...+-.|.-|=
T Consensus 95 ~CP~CGh~k~a~~LC~~Cy 113 (176)
T KOG4080|consen 95 TCPACGHIKPAHTLCDYCY 113 (176)
T ss_pred cCcccCccccccccHHHHH
Confidence 6888888777777777774
No 443
>COG1579 Zn-ribbon protein, possibly nucleic acid-binding [General function prediction only]
Probab=22.42 E-value=72 Score=27.52 Aligned_cols=10 Identities=10% Similarity=0.205 Sum_probs=5.8
Q ss_pred HHHHHHHHHH
Q psy2399 117 LVQKIYDTLY 126 (232)
Q Consensus 117 ~v~~~~~~L~ 126 (232)
.+-.+|.++.
T Consensus 175 ell~~yeri~ 184 (239)
T COG1579 175 ELLSEYERIR 184 (239)
T ss_pred HHHHHHHHHH
Confidence 3445666666
No 444
>PRK10778 dksA RNA polymerase-binding transcription factor; Provisional
Probab=22.26 E-value=35 Score=27.22 Aligned_cols=14 Identities=29% Similarity=0.729 Sum_probs=10.2
Q ss_pred cCccCCCCCCCccc
Q psy2399 170 FCECCSSIYTPTKL 183 (232)
Q Consensus 170 ~Ce~Cg~~~~~~~l 183 (232)
+|+.||......-|
T Consensus 113 ~Ce~CGe~I~~~RL 126 (151)
T PRK10778 113 YCESCGVEIGIRRL 126 (151)
T ss_pred eeccCCCcccHHHH
Confidence 48888887766554
No 445
>PRK12495 hypothetical protein; Provisional
Probab=22.22 E-value=1.1e+02 Score=26.15 Aligned_cols=27 Identities=11% Similarity=0.052 Sum_probs=16.6
Q ss_pred cceeeccCCCcccccceeccCCCCCCc
Q psy2399 137 INQFFDPIKNIFLPDRYIKGECPICNA 163 (232)
Q Consensus 137 ~~~~~~~~~~~~l~~~~v~g~cp~c~~ 163 (232)
-..++|+.|+.+|+...-.-.||.|..
T Consensus 40 msa~hC~~CG~PIpa~pG~~~Cp~CQ~ 66 (226)
T PRK12495 40 MTNAHCDECGDPIFRHDGQEFCPTCQQ 66 (226)
T ss_pred cchhhcccccCcccCCCCeeECCCCCC
Confidence 455689999999983322224555543
No 446
>PTZ00088 adenylate kinase 1; Provisional
Probab=22.03 E-value=88 Score=26.54 Aligned_cols=46 Identities=15% Similarity=0.128 Sum_probs=22.0
Q ss_pred hhhHHHHHHHHHcCCCHHHHHHHHHH-HHHHHHh--ccCCcCCccccCC
Q psy2399 65 AHGAAIMIAAEKAGMTPKEFINNISS-NRKKYLD--GFYIKFDNWYSTD 110 (232)
Q Consensus 65 ~~G~~i~~~a~~~g~~~~e~~~~~~~-~~~~~l~--~lgI~~d~~~~t~ 110 (232)
..|..+...+.+-..-|.+++..... .+.+.+. .-|+-.|-|.+|.
T Consensus 50 ~lg~~i~~~~~~G~lvpd~iv~~lv~~~l~~~~~~~~~g~iLDGfPRt~ 98 (229)
T PTZ00088 50 TIGKEIQKVVTSGNLVPDNLVIAIVKDEIAKVTDDCFKGFILDGFPRNL 98 (229)
T ss_pred hHHHHHHHHHHcCCcCCHHHHHHHHHHHHHhhccccCceEEEecCCCCH
Confidence 34555655555544445555444433 3322111 2344556666665
No 447
>PF12172 DUF35_N: Rubredoxin-like zinc ribbon domain (DUF35_N); InterPro: IPR022002 This domain has no known function and is found in conserved hypothetical archaeal and bacterial proteins. The domain is duplicated in O53566 from SWISSPROT. The structure of a DUF35 representative reveals two long N-terminal helices followed by a rubredoxin-like zinc ribbon domain represented in this family and a C-terminal OB fold domain. Zinc is chelated by the four conserved cysteines in the alignment. ; PDB: 3IRB_A.
Probab=22.01 E-value=34 Score=20.09 Aligned_cols=20 Identities=25% Similarity=0.672 Sum_probs=7.0
Q ss_pred CccCCCCCCCccccCCcccCCCC
Q psy2399 171 CECCSSIYTPTKLINPYSILSGT 193 (232)
Q Consensus 171 Ce~Cg~~~~~~~l~~~~~~~~g~ 193 (232)
|.+||++.-|-. +.|..||+
T Consensus 14 C~~Cg~~~~pPr---~~Cp~C~s 33 (37)
T PF12172_consen 14 CRDCGRVQFPPR---PVCPHCGS 33 (37)
T ss_dssp -TTT--EEES-----SEETTTT-
T ss_pred cCCCCCEecCCC---cCCCCcCc
Confidence 555555543322 45555553
No 448
>PF07895 DUF1673: Protein of unknown function (DUF1673); InterPro: IPR012874 This family contains hypothetical proteins of unknown function found in Methanosarcina acetivorans and Methanosarcina mazei.
Probab=21.87 E-value=1e+02 Score=25.78 Aligned_cols=28 Identities=18% Similarity=0.255 Sum_probs=19.7
Q ss_pred eccCCCCCCccccCCCcCccCCCCCCCc
Q psy2399 154 IKGECPICNAKDQYGDFCECCSSIYTPT 181 (232)
Q Consensus 154 v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~ 181 (232)
.-|+||.|.+..+.-..|..+.....++
T Consensus 10 lMGWCPnaka~e~r~~~~~~~fe~~~~~ 37 (205)
T PF07895_consen 10 LMGWCPNAKALETRRRINPENFEAYNQS 37 (205)
T ss_pred HhCcCcCcCccccccccChHhhcccchh
Confidence 3589999999877556666666655544
No 449
>PF07818 HCNGP: HCNGP-like protein; InterPro: IPR012479 This family comprises sequences bearing significant similarity to the mouse transcriptional regulator protein HCNGP (Q02614 from SWISSPROT). This protein is localised to the nucleus and is thought to be involved in the regulation of beta-2-microglobulin genes.
Probab=21.73 E-value=1.3e+02 Score=21.97 Aligned_cols=23 Identities=13% Similarity=0.099 Sum_probs=11.9
Q ss_pred CCCCCCcCCchHHHhHHHHHHHHHHHHHc
Q psy2399 20 LPYANGELHIGHIMEYIQADIWVRFQCMQ 48 (232)
Q Consensus 20 ~P~~nG~lHiGH~~~~v~~Dvl~R~lr~~ 48 (232)
||-|.|...- .+.+=+++|++++
T Consensus 2 Pp~P~g~~~~------~l~~Ki~~fl~lk 24 (96)
T PF07818_consen 2 PPSPPGSCDP------ELQAKIAKFLELK 24 (96)
T ss_pred cCCCCCCCCH------HHHHHHHHHHHHH
Confidence 4455565442 3455556666543
No 450
>PF00248 Aldo_ket_red: Aldo/keto reductase family; InterPro: IPR023210 The aldo-keto reductase family includes a number of related monomeric NADPH-dependent oxidoreductases, such as aldehyde reductase, aldose reductase, prostaglandin F synthase, xylose reductase, rho crystallin, and many others []. All possess a similar structure, with a beta-alpha-beta fold characteristic of nucleotide binding proteins []. The fold comprises a parallel beta-8/alpha-8-barrel, which contains a novel NADP-binding motif. The binding site is located in a large, deep, elliptical pocket in the C-terminal end of the beta sheet, the substrate being bound in an extended conformation. The hydrophobic nature of the pocket favours aromatic and apolar substrates over highly polar ones []. Binding of the NADPH coenzyme causes a massive conformational change, reorienting a loop, effectively locking the coenzyme in place. This binding is more similar to FAD- than to NAD(P)-binding oxidoreductases []. Some proteins of this entry contain a K+ ion channel beta chain regulatory domain; these are reported to have oxidoreductase activity []. This entry represents the NADP-dependent oxidoreductase domain found in these proteins.; PDB: 1C9W_A 4F40_B 1VBJ_A 1XGD_A 1X97_A 2ACS_A 1EF3_A 2ACU_A 1PWM_A 2NVD_A ....
Probab=21.67 E-value=1.5e+02 Score=25.11 Aligned_cols=49 Identities=18% Similarity=0.202 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHHhccCCcC-Cccc--cCCChh-HHHHHHHHHHHHHhhcCCEEe
Q psy2399 85 INNISSNRKKYLDGFYIKF-DNWY--STDSIE-NIDLVQKIYDTLYNKAKLIIN 134 (232)
Q Consensus 85 ~~~~~~~~~~~l~~lgI~~-d~~~--~t~~~~-~~~~v~~~~~~L~~~kG~iy~ 134 (232)
.+.+.+.+.+.|++||+++ |.+. ...... ....+...+.+|. ++|+|-.
T Consensus 81 ~~~i~~~~~~sL~~L~~d~iDl~~lH~~~~~~~~~~~~~~~l~~l~-~~G~ir~ 133 (283)
T PF00248_consen 81 PDSIRESLERSLERLGTDYIDLLLLHWPDPSEDALEEVWEALEELK-KEGKIRH 133 (283)
T ss_dssp HHHHHHHHHHHHHHHTSSSEEEEEESSSSTTSSHHHHHHHHHHHHH-HTTSEEE
T ss_pred ccccccccccccccccccchhccccccccccccccchhhhhhhhcc-ccccccc
Confidence 3577788899999999954 5433 122222 3778889999999 9999843
No 451
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=21.56 E-value=71 Score=33.95 Aligned_cols=34 Identities=21% Similarity=0.182 Sum_probs=25.0
Q ss_pred CCCCCCccccCCCcCccCCCCCCCccccCCcccCCCCcc
Q psy2399 157 ECPICNAKDQYGDFCECCSSIYTPTKLINPYSILSGTKP 195 (232)
Q Consensus 157 ~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~~~~~~~g~~~ 195 (232)
.||.|.... +-..|+.-+-.+|-+-.|+.||++.
T Consensus 916 ~Cp~Cky~E-----f~~d~svgsGfDLpdK~CPkCg~pl 949 (1444)
T COG2176 916 LCPECKYSE-----FIDDGSVGSGFDLPDKDCPKCGTPL 949 (1444)
T ss_pred cCCCCceee-----eecCCCcCCCCCCCCCCCCcCCCcc
Confidence 799886643 4566677777788888888888874
No 452
>PF10137 TIR-like: Predicted nucleotide-binding protein containing TIR-like domain; InterPro: IPR019302 This entry represents a TIR-like domain found in a family of prokaryotic predicted nucleotide-binding proteins. Their exact function has not, as yet, been defined.
Probab=21.47 E-value=1e+02 Score=23.75 Aligned_cols=27 Identities=19% Similarity=0.019 Sum_probs=22.3
Q ss_pred chHHHhHHHHHHHHHHHHHcCCCCCCceeEEe
Q psy2399 29 IGHIMEYIQADIWVRFQCMQQDNGKSRQVYFI 60 (232)
Q Consensus 29 iGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~ 60 (232)
|||-++.-+++.+.++|+..| .++...
T Consensus 4 Ivhg~~~~~~~~v~~~L~~~~-----~ep~i~ 30 (125)
T PF10137_consen 4 IVHGRDLAAAEAVERFLEKLG-----LEPIIW 30 (125)
T ss_pred EEeCCCHHHHHHHHHHHHhCC-----CceEEe
Confidence 678888889999999999888 776654
No 453
>PRK09912 L-glyceraldehyde 3-phosphate reductase; Provisional
Probab=21.43 E-value=1.6e+02 Score=26.31 Aligned_cols=48 Identities=10% Similarity=0.169 Sum_probs=33.0
Q ss_pred HHHHHHHHHHHHhccCCcC-CccccC--CChhHHHHHHHHHHHHHhhcCCEE
Q psy2399 85 INNISSNRKKYLDGFYIKF-DNWYST--DSIENIDLVQKIYDTLYNKAKLII 133 (232)
Q Consensus 85 ~~~~~~~~~~~l~~lgI~~-d~~~~t--~~~~~~~~v~~~~~~L~~~kG~iy 133 (232)
.+.+.+.+.+.|++||.++ |.+.-- ......+.+.+.+.+|. +.|+|-
T Consensus 113 ~~~i~~~~e~SL~rLg~d~iDl~~lH~~~~~~~~~e~~~al~~l~-~~GkIr 163 (346)
T PRK09912 113 RKYLLASLDQSLKRMGLEYVDIFYSHRVDENTPMEETASALAHAV-QSGKAL 163 (346)
T ss_pred HHHHHHHHHHHHHHHCCCcEEEEEeCCCCCCCCHHHHHHHHHHHH-HcCCee
Confidence 4456788899999999864 544321 11122455678899999 999984
No 454
>TIGR01675 plant-AP plant acid phosphatase. This model explicitly excludes the VSPs which lack the nucleophilc aspartate. The possibility exists, however, that some members of this family may, while containing all of the conserved HAD-superfamily catalytic residues, lack activity and have a function related to the function of the VSPs rather than the acid phosphatases.
Probab=21.40 E-value=3.8e+02 Score=22.89 Aligned_cols=68 Identities=7% Similarity=0.003 Sum_probs=40.6
Q ss_pred HHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHHHHHHHHHHHHHHhccCCc-CCcc-ccCCChhHHHHH
Q psy2399 41 WVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEFINNISSNRKKYLDGFYIK-FDNW-YSTDSIENIDLV 118 (232)
Q Consensus 41 l~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~~~~~~~~~~~~l~~lgI~-~d~~-~~t~~~~~~~~v 118 (232)
+.|.++.+| ..|.+++|=++. ..+...+.|.+.|++ |+.. .++.+......+
T Consensus 128 l~~~l~~~G-----~~Vf~lTGR~e~---------------------~r~~T~~nL~~~G~~~~~~LiLR~~~d~~~~~~ 181 (229)
T TIGR01675 128 LYQKIIELG-----IKIFLLSGRWEE---------------------LRNATLDNLINAGFTGWKHLILRGLEDSNKTVV 181 (229)
T ss_pred HHHHHHHCC-----CEEEEEcCCChH---------------------HHHHHHHHHHHcCCCCcCeeeecCCCCCCchHh
Confidence 667888899 999999887531 122334556678886 5653 344222222222
Q ss_pred ---HHHHHHHHhhcCCEEec
Q psy2399 119 ---QKIYDTLYNKAKLIINK 135 (232)
Q Consensus 119 ---~~~~~~L~~~kG~iy~~ 135 (232)
.....+|. ++|+-...
T Consensus 182 ~yKs~~R~~l~-~~GYrIv~ 200 (229)
T TIGR01675 182 TYKSEVRKSLM-EEGYRIWG 200 (229)
T ss_pred HHHHHHHHHHH-hCCceEEE
Confidence 25667788 77765443
No 455
>PRK11788 tetratricopeptide repeat protein; Provisional
Probab=21.35 E-value=59 Score=28.81 Aligned_cols=22 Identities=23% Similarity=0.451 Sum_probs=12.0
Q ss_pred CCCCCccc-cCCCcCccCCCCCC
Q psy2399 158 CPICNAKD-QYGDFCECCSSIYT 179 (232)
Q Consensus 158 cp~c~~~~-~~g~~Ce~Cg~~~~ 179 (232)
|.+||..+ .....|++||.+-+
T Consensus 357 c~~cg~~~~~~~~~c~~c~~~~~ 379 (389)
T PRK11788 357 CRNCGFTARTLYWHCPSCKAWET 379 (389)
T ss_pred CCCCCCCCccceeECcCCCCccC
Confidence 55555443 23355777776544
No 456
>PF11062 DUF2863: Protein of unknown function (DUF2863); InterPro: IPR021292 This bacterial family of proteins have no known function.
Probab=21.18 E-value=49 Score=30.59 Aligned_cols=48 Identities=21% Similarity=0.270 Sum_probs=33.4
Q ss_pred hhHHHHHHHHHHHHHhhcCCEEecccceeeccCCCcccccceeccCCCCCCccccCCCcCccCCCCCCCccccC
Q psy2399 112 IENIDLVQKIYDTLYNKAKLIINKKINQFFDPIKNIFLPDRYIKGECPICNAKDQYGDFCECCSSIYTPTKLIN 185 (232)
Q Consensus 112 ~~~~~~v~~~~~~L~~~kG~iy~~~~~~~~~~~~~~~l~~~~v~g~cp~c~~~~~~g~~Ce~Cg~~~~~~~l~~ 185 (232)
.+....+.+|...|+ +-|....+....-| --.+||+||.++-|.-.-+
T Consensus 334 ~~~~~~~~~I~a~Lr-e~GV~di~~~~~~f-------------------------~~E~CdDCGaPlypd~~GE 381 (398)
T PF11062_consen 334 DENPDPLEEIEALLR-ECGVTDIRRHAERF-------------------------PPEFCDDCGAPLYPDPEGE 381 (398)
T ss_pred cCCCCcHHHHHHHHH-HcCcHHHHhhhccC-------------------------CchhcccCCCCCCCCCCcc
Confidence 356677888888998 98877665554444 1235999999987764433
No 457
>PRK09462 fur ferric uptake regulator; Provisional
Probab=21.13 E-value=2e+02 Score=22.28 Aligned_cols=28 Identities=11% Similarity=0.252 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHhhcCCEEec---ccceeecc
Q psy2399 115 IDLVQKIYDTLYNKAKLIINK---KINQFFDP 143 (232)
Q Consensus 115 ~~~v~~~~~~L~~~kG~iy~~---~~~~~~~~ 143 (232)
...|-+.+..|. +.|+|.+- ....+|+.
T Consensus 52 ~aTVYR~L~~L~-e~Gli~~~~~~~~~~~y~~ 82 (148)
T PRK09462 52 LATVYRVLNQFD-DAGIVTRHNFEGGKSVFEL 82 (148)
T ss_pred HHHHHHHHHHHH-HCCCEEEEEcCCCcEEEEe
Confidence 355667888999 99999663 34456643
No 458
>PRK07111 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=21.12 E-value=55 Score=32.93 Aligned_cols=21 Identities=33% Similarity=0.811 Sum_probs=16.1
Q ss_pred cCCCCCCccccCCCcCccCCC
Q psy2399 156 GECPICNAKDQYGDFCECCSS 176 (232)
Q Consensus 156 g~cp~c~~~~~~g~~Ce~Cg~ 176 (232)
..|+.||......+.|+.||.
T Consensus 681 ~~C~~CG~~~~~~~~CP~CG~ 701 (735)
T PRK07111 681 DRCPVCGYLGVIEDKCPKCGS 701 (735)
T ss_pred eecCCCCCCCCcCccCcCCCC
Confidence 379999875555578999997
No 459
>PLN02945 nicotinamide-nucleotide adenylyltransferase/nicotinate-nucleotide adenylyltransferase
Probab=21.11 E-value=2.4e+02 Score=23.86 Aligned_cols=22 Identities=5% Similarity=-0.133 Sum_probs=14.7
Q ss_pred CcCCchHHHhHHHHHHHHHHHHHcC
Q psy2399 25 GELHIGHIMEYIQADIWVRFQCMQQ 49 (232)
Q Consensus 25 G~lHiGH~~~~v~~Dvl~R~lr~~G 49 (232)
.|+|.||+. ++......+.+.+
T Consensus 32 dP~H~gHl~---ia~~a~~~l~~d~ 53 (236)
T PLN02945 32 NPPTYMHLR---MFELARDALMSEG 53 (236)
T ss_pred CCCcHHHHH---HHHHHHHHHhhcC
Confidence 689999987 4444445555556
No 460
>cd04256 AAK_P5CS_ProBA AAK_P5CS_ProBA: Glutamate-5-kinase (G5K) domain of the bifunctional delta 1-pyrroline-5-carboxylate synthetase (P5CS), composed of an N-terminal G5K (ProB) and a C-terminal glutamyl 5- phosphate reductase (G5PR, ProA), the first and second enzyme catalyzing proline (and, in mammals, ornithine) biosynthesis. G5K transfers the terminal phosphoryl group of ATP to the gamma-carboxyl group of glutamate, and is subject to feedback allosteric inhibition by proline or ornithine. In plants, proline plays an important role as an osmoprotectant and, in mammals, ornithine biosynthesis is crucial for proper ammonia detoxification, since a G5K mutation has been shown to cause human hyperammonaemia.
Probab=21.10 E-value=5.4e+02 Score=22.49 Aligned_cols=90 Identities=11% Similarity=0.069 Sum_probs=55.4
Q ss_pred HHHHHHHHHHHcCCCCCCceeE-EecCCChhhHHHHHHHHH---------cCC----CHHHHH----------HHHHHHH
Q psy2399 37 QADIWVRFQCMQQDNGKSRQVY-FICADDAHGAAIMIAAEK---------AGM----TPKEFI----------NNISSNR 92 (232)
Q Consensus 37 ~~Dvl~R~lr~~G~~~~~~~v~-~~~g~D~~G~~i~~~a~~---------~g~----~~~e~~----------~~~~~~~ 92 (232)
+++-+++. +..| ++|. ...|.--.|.+....... .|. .|.+.. ......+
T Consensus 36 l~~~i~~l-~~~g-----~~vilVssGAv~~G~~~l~~~~~~~~~~~~~~~g~~~~~~~~~~~~~qa~aa~gq~~L~~~y 109 (284)
T cd04256 36 IVEQVSEL-QSQG-----REVILVTSGAVAFGKQRLRHEILLSSSMRQTLKSGQLKDMPQMELDGRACAAVGQSGLMALY 109 (284)
T ss_pred HHHHHHHH-HHCC-----CEEEEEeeCcHHhChHHhhhccccccchhhhcccccccCCcchhHHHHHHHHcccHHHHHHH
Confidence 34455544 4568 8998 778887788776644321 110 122222 1234677
Q ss_pred HHHHhccCCcCCccccCCC----hhHHHHHHHHHHHHHhhcCCEE
Q psy2399 93 KKYLDGFYIKFDNWYSTDS----IENIDLVQKIYDTLYNKAKLII 133 (232)
Q Consensus 93 ~~~l~~lgI~~d~~~~t~~----~~~~~~v~~~~~~L~~~kG~iy 133 (232)
.+.|..+++..-.+..|.+ ..........+..|. ++|.|-
T Consensus 110 ~~~f~~~~~~~~q~llt~~d~~~~~~~~~~~~~l~~lL-~~g~iP 153 (284)
T cd04256 110 EAMFTQYGITVAQVLVTKPDFYDEQTRRNLNGTLEELL-RLNIIP 153 (284)
T ss_pred HHHHHHcCCcHHHeeeeccccccHHHHHHHHHHHHHHH-HCCCEE
Confidence 7778888987655555543 335567788999999 999863
No 461
>COG5012 Predicted cobalamin binding protein [General function prediction only]
Probab=20.98 E-value=2.8e+02 Score=23.75 Aligned_cols=27 Identities=22% Similarity=0.316 Sum_probs=21.8
Q ss_pred CCCCcCC-chHHHhHHHHHHHHHHHHHcCCCCCCceeEEe
Q psy2399 22 YANGELH-IGHIMEYIQADIWVRFQCMQQDNGKSRQVYFI 60 (232)
Q Consensus 22 ~~nG~lH-iGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~ 60 (232)
+++|+.| ||+ |++.-.++..| ++|.-+
T Consensus 111 tveGDvHdIGk-------~iV~~ml~~aG-----fevidL 138 (227)
T COG5012 111 TVEGDVHDIGK-------NIVATMLEAAG-----FEVIDL 138 (227)
T ss_pred eecccHHHHHH-------HHHHHHHHhCC-----cEEEec
Confidence 5889999 664 77777889999 898865
No 462
>PRK07217 replication factor A; Reviewed
Probab=20.93 E-value=75 Score=28.53 Aligned_cols=26 Identities=23% Similarity=0.382 Sum_probs=19.0
Q ss_pred CCCC--CCccccCCCcCccCCCCCCCccc
Q psy2399 157 ECPI--CNAKDQYGDFCECCSSIYTPTKL 183 (232)
Q Consensus 157 ~cp~--c~~~~~~g~~Ce~Cg~~~~~~~l 183 (232)
+||. |...-.. .+|..||..-...+|
T Consensus 190 rCP~~~C~Rvl~~-g~C~~HG~ve~~~DL 217 (311)
T PRK07217 190 RCPEEDCTRVLQN-GRCSEHGKVEGEFDL 217 (311)
T ss_pred cCCccccCccccC-CCCCCCCCcCCceee
Confidence 8998 8887755 468888876655555
No 463
>PF00975 Thioesterase: Thioesterase domain; InterPro: IPR001031 Thioesterase domains often occur integrated in or associated with peptide synthetases which are involved in the non-ribosomal synthesis of peptide antibiotics []. Thioesterases are required for the addition of the last amino acid to the peptide antibiotic, thereby forming a cyclic antibiotic. Next to the operons encoding these enzymes, in almost all cases, are genes that encode proteins that have similarity to the type II fatty acid thioesterases of vertebrates.; GO: 0016788 hydrolase activity, acting on ester bonds, 0009058 biosynthetic process; PDB: 2RON_A 2K2Q_B 3LCR_B 2HFJ_B 1MNQ_A 1MN6_B 1MNA_B 2HFK_B 2H7Y_B 2H7X_A ....
Probab=20.79 E-value=52 Score=26.79 Aligned_cols=37 Identities=19% Similarity=-0.014 Sum_probs=26.9
Q ss_pred CCCcCC-chHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCC
Q psy2399 23 ANGELH-IGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADD 64 (232)
Q Consensus 23 ~nG~lH-iGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D 64 (232)
|+|+.+ +||-.+-++|=-+||.|..+| ++|..+.=+|
T Consensus 64 ~~gp~~L~G~S~Gg~lA~E~A~~Le~~G-----~~v~~l~liD 101 (229)
T PF00975_consen 64 PEGPYVLAGWSFGGILAFEMARQLEEAG-----EEVSRLILID 101 (229)
T ss_dssp SSSSEEEEEETHHHHHHHHHHHHHHHTT------SESEEEEES
T ss_pred CCCCeeehccCccHHHHHHHHHHHHHhh-----hccCceEEec
Confidence 445555 788888888888888888889 8776555444
No 464
>cd02168 NMNAT_Nudix Nicotinamide/nicotinate mononucleotide adenylyltransferase of bifunctional proteins, also containing a Nudix hydrolase domain. N-terminal NMNAT (Nicotinamide/nicotinate mononucleotide adenylyltransferase) domain of a novel bifunctional enzyme endowed with NMN adenylyltransferase and Nudix hydrolase activities. This domain is highly homologous to the archeal NMN adenyltransferase that catalyzes NAD synthesis from NMN and ATP. NMNAT is an essential enzyme in the biosynthesis of NAD(+) and NADP(+). Nicotinamide-nucleotide adenylyltransferase synthesizes NAD via the salvage pathway, while nicotinate-nucleotide adenylyltransferase synthesizes the immediate precursor of NAD via the de novo pathway. The C-terminal domain of this enzyme shares homology with the archaeal ADP-ribose pyrophosphatase, a member of the 'Nudix' hydrolase family.
Probab=20.73 E-value=1.3e+02 Score=24.57 Aligned_cols=28 Identities=14% Similarity=0.167 Sum_probs=17.3
Q ss_pred CcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCCC
Q psy2399 25 GELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICADD 64 (232)
Q Consensus 25 G~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D 64 (232)
.|+|+||+.- +.+.++..+ +|.++.|..
T Consensus 9 ~P~H~GHl~~------i~~a~~~~~------~vii~i~s~ 36 (181)
T cd02168 9 QPFHNGHLAV------VLIALEKAK------KVIILIGSA 36 (181)
T ss_pred CCCCHHHHHH------HHHHHHHCC------eEEEEeCCC
Confidence 4589999962 233333333 788776664
No 465
>KOG2805|consensus
Probab=20.71 E-value=1.6e+02 Score=26.77 Aligned_cols=25 Identities=16% Similarity=0.242 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHHcCCCCCCceeE--EecCCCh
Q psy2399 36 IQADIWVRFQCMQQDNGKSRQVY--FICADDA 65 (232)
Q Consensus 36 v~~Dvl~R~lr~~G~~~~~~~v~--~~~g~D~ 65 (232)
|=+-+-|+.|+.+| ++|. |.-.||.
T Consensus 16 VDSsVaa~Ll~~~g-----~~v~gv~M~nWd~ 42 (377)
T KOG2805|consen 16 VDSSVAARLLAARG-----YNVTGVFMKNWDS 42 (377)
T ss_pred chHHHHHHHHHhcC-----CCeeEEeeecccc
Confidence 45667889999999 8887 5556654
No 466
>KOG2824|consensus
Probab=20.64 E-value=2.4e+02 Score=24.88 Aligned_cols=35 Identities=17% Similarity=0.219 Sum_probs=24.2
Q ss_pred HHHHHHHhccCCcCCccccCCChhHHHHHHHHHHH
Q psy2399 90 SNRKKYLDGFYIKFDNWYSTDSIENIDLVQKIYDT 124 (232)
Q Consensus 90 ~~~~~~l~~lgI~~d~~~~t~~~~~~~~v~~~~~~ 124 (232)
...+..|+.++|.+|.---.++..|.+..+.++..
T Consensus 151 ~~VR~ilesf~V~v~ERDVSMd~~fr~EL~~~lg~ 185 (281)
T KOG2824|consen 151 NAVRAILESFRVKVDERDVSMDSEFREELQELLGE 185 (281)
T ss_pred HHHHHHHHhCceEEEEecccccHHHHHHHHHHHhc
Confidence 56778889999987765555666677666665544
No 467
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=20.58 E-value=54 Score=22.33 Aligned_cols=18 Identities=6% Similarity=-0.075 Sum_probs=10.6
Q ss_pred CCcccCCCCccEEEEccc
Q psy2399 185 NPYSILSGTKPIIKSSKH 202 (232)
Q Consensus 185 ~~~~~~~g~~~~~~~~~~ 202 (232)
.-.|+.||.+++|.++..
T Consensus 7 ~v~CP~Cgkpv~w~~~s~ 24 (65)
T COG3024 7 TVPCPTCGKPVVWGEESP 24 (65)
T ss_pred cccCCCCCCcccccccCC
Confidence 345666776766655443
No 468
>PF00325 Crp: Bacterial regulatory proteins, crp family; InterPro: IPR001808 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. This family groups together a range of proteins, including anr, crp, clp, cysR, fixK, flp, fnr, fnrN, hlyX and ntcA [, ]. Within this family, the HTH motif is situated towards the C terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 2OZ6_A 1CGP_B 2GZW_C 1O3T_B 3ROU_A 2CGP_A 3RDI_A 1I5Z_A 3IYD_H 3FWE_B ....
Probab=20.55 E-value=1.5e+02 Score=17.22 Aligned_cols=17 Identities=29% Similarity=0.405 Sum_probs=11.4
Q ss_pred HHHHHHHHHHHHhhcCCE
Q psy2399 115 IDLVQKIYDTLYNKAKLI 132 (232)
Q Consensus 115 ~~~v~~~~~~L~~~kG~i 132 (232)
.+.|..++.+|. ++|+|
T Consensus 16 ~ETVSR~l~~l~-~~glI 32 (32)
T PF00325_consen 16 RETVSRILKKLE-RQGLI 32 (32)
T ss_dssp HHHHHHHHHHHH-HTTSE
T ss_pred HHHHHHHHHHHH-HcCCC
Confidence 355667777777 77765
No 469
>COG3286 Uncharacterized protein conserved in archaea [Function unknown]
Probab=20.45 E-value=1.4e+02 Score=24.95 Aligned_cols=87 Identities=9% Similarity=-0.024 Sum_probs=47.6
Q ss_pred hHHHHHHHHHHHHHcCCCCCCceeEEecCCChhhHHHHHHHHHcCCCHHHH---HHHHHHHHHHH-HhccCCcCCccccC
Q psy2399 34 EYIQADIWVRFQCMQQDNGKSRQVYFICADDAHGAAIMIAAEKAGMTPKEF---INNISSNRKKY-LDGFYIKFDNWYST 109 (232)
Q Consensus 34 ~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~D~~G~~i~~~a~~~g~~~~e~---~~~~~~~~~~~-l~~lgI~~d~~~~t 109 (232)
+.|..|+|...|+.+| |.|.+..|+= +.+++.+++ +...++.+.+. ++.++=+.-...-.
T Consensus 87 p~Vp~~vl~daLk~~G-----yrVevr~~~l-----------~T~ap~~ev~E~vreLse~~~E~~~~~lt~~vrklVv~ 150 (204)
T COG3286 87 PNVPPDVLIDALKLLG-----YRVEVRGGEL-----------KTNAPWSEVVELVRELSEVYREARFQPLTRQVRKLVVA 150 (204)
T ss_pred CCCCHHHHHHHHHhCC-----ceEEeeCcee-----------ecCCCHHHHHHHHHHHHHHHHHHHhccccchhhhhhhh
Confidence 3477899999999999 9999988772 233333332 33333333332 11121111111111
Q ss_pred CChhHHHHHHHHHHHHHhhcCCEEeccc
Q psy2399 110 DSIENIDLVQKIYDTLYNKAKLIINKKI 137 (232)
Q Consensus 110 ~~~~~~~~v~~~~~~L~~~kG~iy~~~~ 137 (232)
-+..+..-+.++...+. +.|++-.++.
T Consensus 151 ~S~~~~~~~dd~~eeav-e~Gll~e~E~ 177 (204)
T COG3286 151 VSIVYGLDPDDAAEEAV-ELGLLEEGED 177 (204)
T ss_pred hhhHhCCCHHHHHHHHH-Hhhhhhccch
Confidence 12233334567778888 8888876654
No 470
>PRK15103 paraquat-inducible membrane protein A; Provisional
Probab=20.38 E-value=57 Score=30.43 Aligned_cols=24 Identities=29% Similarity=0.634 Sum_probs=15.2
Q ss_pred CccCCCCCCCccccCCcccCCCCccEE
Q psy2399 171 CECCSSIYTPTKLINPYSILSGTKPII 197 (232)
Q Consensus 171 Ce~Cg~~~~~~~l~~~~~~~~g~~~~~ 197 (232)
|+.|+..... ...+|+.||+....
T Consensus 224 C~~Cd~l~~~---~~a~CpRC~~~L~~ 247 (419)
T PRK15103 224 CSCCTAILPA---DQPVCPRCHTKGYV 247 (419)
T ss_pred CCCCCCCCCC---CCCCCCCCCCcCcC
Confidence 7777765432 23478888887743
No 471
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=20.37 E-value=51 Score=20.45 Aligned_cols=21 Identities=38% Similarity=1.102 Sum_probs=12.1
Q ss_pred CCCCCccccCC--CcCccCCCCC
Q psy2399 158 CPICNAKDQYG--DFCECCSSIY 178 (232)
Q Consensus 158 cp~c~~~~~~g--~~Ce~Cg~~~ 178 (232)
|+.|+.....+ .+|+.|++.+
T Consensus 2 C~vC~~~~~~~~~i~C~~C~~~~ 24 (51)
T PF00628_consen 2 CPVCGQSDDDGDMIQCDSCNRWY 24 (51)
T ss_dssp BTTTTSSCTTSSEEEBSTTSCEE
T ss_pred CcCCCCcCCCCCeEEcCCCChhh
Confidence 56666643333 3588887654
No 472
>TIGR02642 phage_xxxx uncharacterized phage protein. This uncharacterized protein is found in prophage regions of Shewanella oneidensis MR-1, Vibrio vulnificus YJ016, Yersinia pseudotuberculosis IP 32953, and Aeromonas hydrophila ATCC7966. It appears to have regions of sequence similarity to phage lambda antitermination protein Q.
Probab=20.33 E-value=1.2e+02 Score=25.15 Aligned_cols=10 Identities=30% Similarity=0.946 Sum_probs=6.7
Q ss_pred ccCCCCCCcc
Q psy2399 155 KGECPICNAK 164 (232)
Q Consensus 155 ~g~cp~c~~~ 164 (232)
...||.|+..
T Consensus 99 ~~~C~~C~G~ 108 (186)
T TIGR02642 99 SCKCPRCRGT 108 (186)
T ss_pred CCcCCCCCCe
Confidence 5678877554
No 473
>PF13719 zinc_ribbon_5: zinc-ribbon domain
Probab=20.33 E-value=54 Score=19.46 Aligned_cols=9 Identities=11% Similarity=-0.127 Sum_probs=5.4
Q ss_pred CcccCCCCc
Q psy2399 186 PYSILSGTK 194 (232)
Q Consensus 186 ~~~~~~g~~ 194 (232)
-+|..|++.
T Consensus 26 vrC~~C~~~ 34 (37)
T PF13719_consen 26 VRCPKCGHV 34 (37)
T ss_pred EECCCCCcE
Confidence 366666653
No 474
>TIGR02300 FYDLN_acid conserved hypothetical protein TIGR02300. Members of this family are bacterial proteins with a conserved motif [KR]FYDLN, sometimes flanked by a pair of CXXC motifs, followed by a long region of low complexity sequence in which roughly half the residues are Asp and Glu, including multiple runs of five or more acidic residues. The function of members of this family is unknown.
Probab=20.26 E-value=77 Score=24.66 Aligned_cols=28 Identities=18% Similarity=0.235 Sum_probs=14.8
Q ss_pred eccCCCCCCcccc----CCCcCccCCCCCCCc
Q psy2399 154 IKGECPICNAKDQ----YGDFCECCSSIYTPT 181 (232)
Q Consensus 154 v~g~cp~c~~~~~----~g~~Ce~Cg~~~~~~ 181 (232)
.+-.||.||.+=- .-..|..||..+.+.
T Consensus 8 tKr~Cp~cg~kFYDLnk~p~vcP~cg~~~~~~ 39 (129)
T TIGR02300 8 TKRICPNTGSKFYDLNRRPAVSPYTGEQFPPE 39 (129)
T ss_pred ccccCCCcCccccccCCCCccCCCcCCccCcc
Confidence 3446777766421 112466666665544
No 475
>PRK13945 formamidopyrimidine-DNA glycosylase; Provisional
Probab=20.16 E-value=1.4e+02 Score=26.17 Aligned_cols=20 Identities=10% Similarity=-0.320 Sum_probs=12.7
Q ss_pred HHhccCCcCCccccCCChhH
Q psy2399 95 YLDGFYIKFDNWYSTDSIEN 114 (232)
Q Consensus 95 ~l~~lgI~~d~~~~t~~~~~ 114 (232)
.|=+.+|++..-..+.++.-
T Consensus 188 iLf~A~IhP~~~~~~Ls~~~ 207 (282)
T PRK13945 188 SLFKAGIHPTTPAGQLKKKQ 207 (282)
T ss_pred HHHHcCCCccCccccCCHHH
Confidence 45567788777766655443
No 476
>PRK14810 formamidopyrimidine-DNA glycosylase; Provisional
Probab=20.12 E-value=2.7e+02 Score=24.18 Aligned_cols=37 Identities=16% Similarity=-0.018 Sum_probs=19.9
Q ss_pred HHhccCCcCCccccCCChhHH----HHHHHHHHHHHhhcCCE
Q psy2399 95 YLDGFYIKFDNWYSTDSIENI----DLVQKIYDTLYNKAKLI 132 (232)
Q Consensus 95 ~l~~lgI~~d~~~~t~~~~~~----~~v~~~~~~L~~~kG~i 132 (232)
.|-+.||++..-....++.-. ..++.++.... +.|-.
T Consensus 178 iLf~a~i~P~~~~~~l~~~~~~~l~~a~~~vl~~ai-~~gg~ 218 (272)
T PRK14810 178 ALFRAGIRPQRLASSLSRERLRKLHDAIGEVLREAI-ELGGS 218 (272)
T ss_pred HHHHcCCCCCCCcccCCHHHHHHHHHHHHHHHHHHH-HcCCC
Confidence 344566766665555443322 33445677777 65544
No 477
>TIGR01510 coaD_prev_kdtB pantetheine-phosphate adenylyltransferase, bacterial. This model describes pantetheine-phosphate adenylyltransferase, the penultimate enzyme of coenzyme A (CoA) biosynthesis in bacteria. It does not show any strong homology to eukaryotic enzymes of coenzyme A biosynthesis. This protein was previously designated KdtB and postulated (because of cytidyltransferase homology and proximity to kdtA) to be an enzyme of LPS biosynthesis, a cytidyltransferase for 3-deoxy-D-manno-2-octulosonic acid. However, no activity toward that compound was found with either CTP or ATP. The phylogenetic distribution of this enzyme is more consistent with coenzyme A biosynthesis than with LPS biosynthesis.
Probab=20.09 E-value=1.2e+02 Score=23.82 Aligned_cols=27 Identities=15% Similarity=0.154 Sum_probs=16.7
Q ss_pred CcCCchHHHhHHHHHHHHHHHHHcCCCCCCceeEEecCC
Q psy2399 25 GELHIGHIMEYIQADIWVRFQCMQQDNGKSRQVYFICAD 63 (232)
Q Consensus 25 G~lHiGH~~~~v~~Dvl~R~lr~~G~~~~~~~v~~~~g~ 63 (232)
.|+|.||+.- ++..+... .+|.++...
T Consensus 9 dP~H~GHl~l-------~~~a~~~~-----d~v~~~~~~ 35 (155)
T TIGR01510 9 DPVTNGHLDI-------IKRAAALF-----DEVIVAVAK 35 (155)
T ss_pred CCCcHHHHHH-------HHHHHHhC-----CEEEEEEcC
Confidence 5789999983 22223335 577776654
Done!