Query 041441
Match_columns 310
No_of_seqs 155 out of 1427
Neff 5.4
Searched_HMMs 46136
Date Fri Mar 29 07:06:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041441.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041441hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02734 glycyl-tRNA synthetas 100.0 6E-118 1E-122 914.2 17.3 309 1-309 122-430 (684)
2 TIGR00389 glyS_dimeric glycyl- 100.0 5E-111 1E-115 850.1 16.8 281 1-309 50-331 (551)
3 COG0423 GRS1 Glycyl-tRNA synth 100.0 2E-108 3E-113 815.9 16.6 283 1-309 53-337 (558)
4 KOG2298 Glycyl-tRNA synthetase 100.0 8E-108 2E-112 799.1 9.5 306 1-309 59-364 (599)
5 PRK14894 glycyl-tRNA synthetas 100.0 1.7E-95 4E-100 724.9 14.3 222 1-309 53-279 (539)
6 PRK04173 glycyl-tRNA synthetas 100.0 5.2E-74 1.1E-78 572.3 14.8 239 6-308 57-300 (456)
7 cd00774 GlyRS-like_core Glycyl 100.0 1.1E-50 2.3E-55 376.4 9.8 188 114-304 65-254 (254)
8 COG0441 ThrS Threonyl-tRNA syn 100.0 6E-35 1.3E-39 298.0 8.3 193 5-294 236-429 (589)
9 KOG1637 Threonyl-tRNA syntheta 100.0 1.2E-34 2.6E-39 284.5 8.4 192 5-293 208-400 (560)
10 cd00771 ThrRS_core Threonyl-tR 100.0 6.7E-32 1.5E-36 255.9 15.2 195 5-295 46-241 (298)
11 PLN02908 threonyl-tRNA synthet 100.0 3E-32 6.5E-37 283.9 11.9 194 5-297 337-531 (686)
12 PRK14799 thrS threonyl-tRNA sy 100.0 1.8E-32 3.8E-37 279.1 9.5 195 5-294 184-380 (545)
13 PF00587 tRNA-synt_2b: tRNA sy 100.0 2.6E-31 5.6E-36 231.8 7.9 155 5-286 16-171 (173)
14 PLN02837 threonine-tRNA ligase 100.0 6.7E-31 1.4E-35 270.9 9.9 195 5-294 263-458 (614)
15 PRK12444 threonyl-tRNA synthet 100.0 5.3E-30 1.2E-34 264.9 11.1 193 5-294 290-483 (639)
16 PRK03991 threonyl-tRNA synthet 100.0 1.5E-28 3.2E-33 253.4 10.0 198 5-308 243-444 (613)
17 PRK12305 thrS threonyl-tRNA sy 99.9 5.2E-28 1.1E-32 246.9 12.0 195 5-294 222-418 (575)
18 TIGR00418 thrS threonyl-tRNA s 99.9 1E-27 2.3E-32 243.9 11.2 205 4-304 215-427 (563)
19 cd00670 Gly_His_Pro_Ser_Thr_tR 99.9 1.2E-27 2.6E-32 215.8 8.9 189 4-308 17-207 (235)
20 cd00770 SerRS_core Seryl-tRNA 99.9 6.3E-27 1.4E-31 222.1 11.4 171 5-306 68-244 (297)
21 PRK00413 thrS threonyl-tRNA sy 99.9 3.3E-24 7.2E-29 221.1 12.8 193 5-292 286-479 (638)
22 TIGR00414 serS seryl-tRNA synt 99.9 6E-24 1.3E-28 210.7 8.8 171 5-306 189-365 (418)
23 cd00778 ProRS_core_arch_euk Pr 99.9 2.3E-23 5.1E-28 194.2 10.0 172 5-300 48-223 (261)
24 cd00779 ProRS_core_prok Prolyl 99.9 1.5E-22 3.3E-27 188.1 10.6 170 5-301 47-217 (255)
25 PRK08661 prolyl-tRNA synthetas 99.9 4.3E-22 9.4E-27 200.3 10.1 173 5-306 60-235 (477)
26 PRK05431 seryl-tRNA synthetase 99.9 3.1E-22 6.8E-27 198.9 7.9 171 5-306 187-363 (425)
27 PRK12325 prolyl-tRNA synthetas 99.9 5.9E-22 1.3E-26 197.3 7.3 186 5-284 63-278 (439)
28 TIGR00408 proS_fam_I prolyl-tR 99.8 9.6E-21 2.1E-25 190.4 9.1 168 5-296 54-225 (472)
29 PLN02678 seryl-tRNA synthetase 99.8 2.8E-20 6E-25 185.9 10.6 170 5-302 190-366 (448)
30 PLN02320 seryl-tRNA synthetase 99.8 9.1E-20 2E-24 183.9 10.0 109 148-302 308-422 (502)
31 cd00772 ProRS_core Prolyl-tRNA 99.8 9.3E-19 2E-23 163.9 12.3 127 127-299 93-222 (264)
32 PRK00960 seryl-tRNA synthetase 99.8 5.5E-19 1.2E-23 179.0 9.8 201 5-301 240-454 (517)
33 PRK09194 prolyl-tRNA synthetas 99.7 1.7E-17 3.7E-22 170.0 13.2 164 5-297 63-226 (565)
34 TIGR00409 proS_fam_II prolyl-t 99.7 2.9E-16 6.3E-21 161.3 12.9 167 5-301 63-229 (568)
35 TIGR00415 serS_MJ seryl-tRNA s 99.5 1.2E-13 2.6E-18 139.6 10.0 185 6-286 241-434 (520)
36 COG0442 ProS Prolyl-tRNA synth 99.3 3.3E-12 7.3E-17 129.4 10.5 164 5-297 63-227 (500)
37 cd00774 GlyRS-like_core Glycyl 99.3 2.4E-13 5.1E-18 126.6 -1.7 73 236-308 147-219 (254)
38 cd00768 class_II_aaRS-like_cor 99.3 6.2E-11 1.3E-15 103.8 13.0 131 126-305 51-184 (211)
39 CHL00201 syh histidine-tRNA sy 99.2 1.7E-10 3.7E-15 115.0 11.9 121 4-213 33-155 (430)
40 COG0172 SerS Seryl-tRNA synthe 99.2 2.4E-10 5.3E-15 113.8 11.7 167 5-302 190-362 (429)
41 PRK09537 pylS pyrolysyl-tRNA s 99.0 1.2E-09 2.6E-14 108.8 11.0 104 127-292 257-360 (417)
42 cd00773 HisRS-like_core Class 98.9 4.6E-09 1E-13 97.6 8.5 160 127-303 57-234 (261)
43 KOG2324 Prolyl-tRNA synthetase 98.7 1.8E-08 4E-13 98.1 6.8 44 148-192 130-173 (457)
44 KOG2509 Seryl-tRNA synthetase 98.7 7.9E-09 1.7E-13 102.5 4.2 173 2-303 198-376 (455)
45 TIGR00443 hisZ_biosyn_reg ATP 98.6 3.1E-07 6.8E-12 87.9 9.8 91 127-229 62-152 (314)
46 TIGR02367 PylS pyrrolysyl-tRNA 98.5 7.9E-07 1.7E-11 89.2 12.2 59 127-190 293-351 (453)
47 TIGR00442 hisS histidyl-tRNA s 98.5 2.5E-07 5.4E-12 90.7 8.5 91 127-229 72-162 (397)
48 PRK00037 hisS histidyl-tRNA sy 98.5 1.9E-07 4.2E-12 91.8 7.2 59 127-193 76-134 (412)
49 PRK07080 hypothetical protein; 98.1 8.1E-06 1.8E-10 78.8 7.6 156 6-277 64-225 (317)
50 PLN02530 histidine-tRNA ligase 97.7 7.2E-05 1.5E-09 76.1 7.2 78 127-212 139-216 (487)
51 PRK12420 histidyl-tRNA synthet 97.7 0.00026 5.7E-09 70.5 10.6 88 127-228 75-162 (423)
52 COG0124 HisS Histidyl-tRNA syn 97.6 0.00025 5.4E-09 71.5 9.4 91 127-229 76-166 (429)
53 PTZ00326 phenylalanyl-tRNA syn 97.6 0.00032 7E-09 71.7 10.0 114 127-295 327-445 (494)
54 PF01409 tRNA-synt_2d: tRNA sy 97.5 0.00036 7.8E-09 65.4 8.6 116 121-295 72-194 (247)
55 PRK04172 pheS phenylalanyl-tRN 97.4 0.0009 1.9E-08 68.3 10.6 108 128-295 329-437 (489)
56 TIGR00470 sepS O-phosphoseryl- 97.3 0.0011 2.3E-08 67.6 9.2 112 127-295 182-300 (533)
57 PRK12292 hisZ ATP phosphoribos 97.2 0.00098 2.1E-08 65.9 7.4 93 125-229 71-163 (391)
58 TIGR00468 pheS phenylalanyl-tR 96.8 0.0089 1.9E-07 57.3 9.9 111 126-296 127-240 (294)
59 PF13393 tRNA-synt_His: Histid 96.6 0.0043 9.2E-08 58.8 6.2 90 127-229 64-154 (311)
60 PRK12295 hisZ ATP phosphoribos 96.6 0.0082 1.8E-07 59.4 8.3 87 127-229 59-145 (373)
61 PLN02972 Histidyl-tRNA synthet 96.6 0.0035 7.7E-08 67.2 5.9 90 126-229 394-483 (763)
62 PRK12421 ATP phosphoribosyltra 96.4 0.011 2.3E-07 58.8 7.7 91 126-229 76-166 (392)
63 PRK00488 pheS phenylalanyl-tRN 96.0 0.056 1.2E-06 53.1 10.2 51 127-187 164-215 (339)
64 PRK12293 hisZ ATP phosphoribos 95.9 0.0064 1.4E-07 57.9 3.4 81 113-212 58-138 (281)
65 PLN02853 Probable phenylalanyl 95.8 0.052 1.1E-06 55.7 9.6 111 127-295 317-430 (492)
66 COG0016 PheS Phenylalanyl-tRNA 95.5 0.076 1.7E-06 52.1 9.2 150 86-295 118-282 (335)
67 cd00669 Asp_Lys_Asn_RS_core As 95.5 0.0083 1.8E-07 56.8 2.3 50 125-187 48-99 (269)
68 PRK09350 poxB regulator PoxA; 95.1 0.0089 1.9E-07 57.5 1.3 50 125-187 57-108 (306)
69 PRK06462 asparagine synthetase 95.1 0.047 1E-06 53.3 6.2 158 125-298 82-265 (335)
70 KOG4163 Prolyl-tRNA synthetase 92.2 0.053 1.1E-06 54.9 0.7 86 126-213 158-244 (551)
71 cd00496 PheRS_alpha_core Pheny 91.9 2.1 4.5E-05 39.0 10.8 53 127-188 59-111 (218)
72 PLN02788 phenylalanine-tRNA sy 90.9 1.2 2.7E-05 44.8 8.8 117 127-295 128-246 (402)
73 cd00777 AspRS_core Asp tRNA sy 90.2 0.15 3.3E-06 48.6 1.7 30 156-188 71-100 (280)
74 PRK06253 O-phosphoseryl-tRNA s 88.8 3.5 7.7E-05 42.9 10.4 41 126-168 182-222 (529)
75 COG3705 HisZ ATP phosphoribosy 88.0 0.58 1.3E-05 47.0 4.1 99 115-229 62-160 (390)
76 PRK12820 bifunctional aspartyl 87.4 0.21 4.6E-06 53.5 0.6 51 136-193 210-261 (706)
77 TIGR00459 aspS_bact aspartyl-t 87.0 0.33 7.2E-06 51.0 1.8 48 136-190 192-240 (583)
78 PRK00484 lysS lysyl-tRNA synth 85.8 0.4 8.7E-06 49.3 1.6 55 125-190 219-274 (491)
79 PLN02903 aminoacyl-tRNA ligase 84.5 0.49 1.1E-05 50.4 1.6 48 136-190 258-306 (652)
80 PRK06266 transcription initiat 84.5 0.68 1.5E-05 41.5 2.3 15 94-108 134-148 (178)
81 cd00776 AsxRS_core Asx tRNA sy 84.1 0.5 1.1E-05 45.8 1.3 52 126-188 70-121 (322)
82 PRK00476 aspS aspartyl-tRNA sy 83.7 0.55 1.2E-05 49.4 1.5 48 136-190 195-243 (588)
83 PRK12445 lysyl-tRNA synthetase 83.5 0.56 1.2E-05 48.5 1.5 52 126-188 232-283 (505)
84 TIGR02098 MJ0042_CXXC MJ0042 f 83.4 0.35 7.5E-06 32.1 -0.0 15 35-49 2-16 (38)
85 PF00152 tRNA-synt_2: tRNA syn 83.2 0.67 1.4E-05 44.8 1.8 57 125-191 72-129 (335)
86 TIGR00462 genX lysyl-tRNA synt 83.2 0.41 9E-06 46.1 0.4 30 156-188 75-104 (304)
87 PF14353 CpXC: CpXC protein 83.1 0.83 1.8E-05 38.1 2.2 66 36-133 2-70 (128)
88 PTZ00385 lysyl-tRNA synthetase 83.0 0.62 1.3E-05 49.7 1.6 30 156-188 303-332 (659)
89 KOG1936 Histidyl-tRNA syntheta 82.1 1.7 3.7E-05 44.3 4.2 108 127-262 128-236 (518)
90 KOG2411 Aspartyl-tRNA syntheta 81.9 1.5 3.2E-05 45.5 3.7 74 127-213 227-300 (628)
91 TIGR00373 conserved hypothetic 81.6 0.89 1.9E-05 39.9 1.8 14 94-107 126-139 (158)
92 cd00775 LysRS_core Lys_tRNA sy 81.4 0.76 1.7E-05 44.7 1.5 29 156-187 78-106 (329)
93 TIGR00499 lysS_bact lysyl-tRNA 81.3 0.68 1.5E-05 47.7 1.1 52 125-187 219-270 (496)
94 PLN02850 aspartate-tRNA ligase 81.1 0.69 1.5E-05 48.1 1.1 53 125-189 270-325 (530)
95 PTZ00417 lysine-tRNA ligase; P 80.8 0.85 1.8E-05 48.0 1.7 50 125-187 300-351 (585)
96 PLN02502 lysyl-tRNA synthetase 79.8 0.83 1.8E-05 47.8 1.2 55 125-190 276-331 (553)
97 PF09524 Phg_2220_C: Conserved 79.6 0.95 2.1E-05 35.3 1.2 41 81-144 30-70 (74)
98 COG2269 Truncated, possibly in 79.2 1.5 3.2E-05 42.6 2.6 57 116-184 56-116 (322)
99 PRK03932 asnC asparaginyl-tRNA 78.0 1.2 2.5E-05 45.3 1.6 53 126-191 188-243 (450)
100 COG0173 AspS Aspartyl-tRNA syn 75.9 1 2.3E-05 47.0 0.6 119 128-284 190-311 (585)
101 TIGR00458 aspS_arch aspartyl-t 75.4 1.5 3.2E-05 44.3 1.5 55 126-191 179-235 (428)
102 PRK00398 rpoP DNA-directed RNA 75.1 1.3 2.9E-05 30.7 0.8 15 35-49 3-17 (46)
103 PRK05159 aspC aspartyl-tRNA sy 73.5 1.7 3.8E-05 43.9 1.5 55 126-190 182-237 (437)
104 PRK02983 lysS lysyl-tRNA synth 73.0 1.6 3.5E-05 49.2 1.2 53 126-189 818-870 (1094)
105 smart00834 CxxC_CXXC_SSSS Puta 72.3 2.1 4.6E-05 28.3 1.3 16 34-49 4-19 (41)
106 COG1190 LysU Lysyl-tRNA synthe 71.6 1.5 3.1E-05 45.4 0.4 67 127-214 229-298 (502)
107 smart00531 TFIIE Transcription 70.8 2.1 4.5E-05 37.0 1.1 15 34-48 98-112 (147)
108 PLN02221 asparaginyl-tRNA synt 70.2 2.4 5.1E-05 44.7 1.6 52 126-190 307-361 (572)
109 PF09538 FYDLN_acid: Protein o 69.9 1.7 3.8E-05 36.1 0.5 13 94-106 24-36 (108)
110 PLN02603 asparaginyl-tRNA synt 68.6 2.6 5.6E-05 44.3 1.5 31 156-190 323-356 (565)
111 TIGR00457 asnS asparaginyl-tRN 67.9 2.7 5.8E-05 42.9 1.4 54 126-190 191-245 (453)
112 PF12677 DUF3797: Domain of un 67.3 4.1 8.8E-05 29.4 1.8 15 90-105 8-22 (49)
113 TIGR02220 phg_TIGR02220 phage 66.9 2.3 4.9E-05 33.4 0.5 35 81-137 33-67 (77)
114 KOG2683 Sirtuin 4 and related 66.6 10 0.00022 36.2 4.8 68 92-162 206-283 (305)
115 COG3357 Predicted transcriptio 66.5 3 6.5E-05 33.9 1.1 16 97-112 77-92 (97)
116 PLN02532 asparagine-tRNA synth 65.6 3.2 7E-05 44.2 1.5 52 126-190 370-424 (633)
117 PRK03824 hypA hydrogenase nick 65.4 3.8 8.1E-05 35.1 1.6 15 34-48 69-83 (135)
118 PTZ00401 aspartyl-tRNA synthet 65.3 2.9 6.3E-05 43.8 1.1 52 126-189 259-313 (550)
119 TIGR02605 CxxC_CxxC_SSSS putat 63.6 4.2 9.1E-05 28.6 1.3 13 36-48 6-18 (52)
120 cd00729 rubredoxin_SM Rubredox 60.3 6.9 0.00015 25.8 1.8 14 35-48 2-15 (34)
121 PRK09616 pheT phenylalanyl-tRN 59.8 7.8 0.00017 40.4 3.1 45 121-168 408-452 (552)
122 PRK12294 hisZ ATP phosphoribos 59.0 14 0.00031 35.1 4.5 51 124-189 59-109 (272)
123 TIGR00354 polC DNA polymerase, 58.3 2.5 5.5E-05 46.8 -0.8 88 26-172 1003-1090(1095)
124 PTZ00425 asparagine-tRNA ligas 57.4 5.9 0.00013 41.9 1.7 31 156-190 345-378 (586)
125 TIGR00469 pheS_mito phenylalan 56.8 72 0.0016 33.0 9.3 52 127-185 107-161 (460)
126 PF13240 zinc_ribbon_2: zinc-r 55.8 7.8 0.00017 23.4 1.4 14 98-111 1-14 (23)
127 PF13913 zf-C2HC_2: zinc-finge 54.2 6.2 0.00013 24.2 0.8 17 34-50 1-17 (25)
128 smart00659 RPOLCX RNA polymera 53.0 9.4 0.0002 26.7 1.6 11 95-105 18-28 (44)
129 TIGR02300 FYDLN_acid conserved 52.7 6.2 0.00013 33.9 0.8 12 94-105 24-35 (129)
130 COG1908 FrhD Coenzyme F420-red 51.9 16 0.00034 31.4 3.1 36 236-271 72-107 (132)
131 cd00769 PheRS_beta_core Phenyl 49.5 7.8 0.00017 34.5 1.0 45 121-167 47-91 (198)
132 PRK14714 DNA polymerase II lar 48.3 3.7 8E-05 46.8 -1.6 86 26-170 1244-1329(1337)
133 PF13248 zf-ribbon_3: zinc-rib 47.9 12 0.00027 22.9 1.4 11 97-107 3-13 (26)
134 PF01155 HypA: Hydrogenase exp 46.8 8.4 0.00018 31.9 0.7 16 34-49 69-84 (113)
135 PRK14715 DNA polymerase II lar 46.7 4.2 9.2E-05 46.6 -1.4 86 25-170 1532-1617(1627)
136 PF02662 FlpD: Methyl-viologen 46.5 23 0.0005 29.7 3.3 35 237-271 72-106 (124)
137 COG1996 RPC10 DNA-directed RNA 44.9 11 0.00024 27.2 0.9 10 95-104 23-32 (49)
138 KOG3623 Homeobox transcription 44.7 9.6 0.00021 41.4 0.9 20 36-55 282-301 (1007)
139 COG1675 TFA1 Transcription ini 44.0 16 0.00035 32.9 2.1 15 93-107 129-143 (176)
140 TIGR01206 lysW lysine biosynth 43.2 8.3 0.00018 28.3 0.1 11 35-45 2-12 (54)
141 PF10825 DUF2752: Protein of u 42.7 5.2 0.00011 28.8 -1.0 10 95-104 8-17 (52)
142 PF06906 DUF1272: Protein of u 42.2 13 0.00028 27.6 1.0 12 96-107 41-52 (57)
143 TIGR01405 polC_Gram_pos DNA po 42.2 16 0.00034 41.9 2.2 27 98-125 710-736 (1213)
144 PF09723 Zn-ribbon_8: Zinc rib 41.7 15 0.00033 25.1 1.2 10 95-104 25-34 (42)
145 cd00350 rubredoxin_like Rubred 41.5 22 0.00047 23.1 1.9 11 36-46 2-12 (33)
146 PF14205 Cys_rich_KTR: Cystein 39.5 15 0.00032 27.1 0.9 23 93-115 25-48 (55)
147 PRK00564 hypA hydrogenase nick 38.7 20 0.00043 29.9 1.7 13 33-45 69-81 (117)
148 PRK08579 anaerobic ribonucleos 38.5 8.1 0.00018 41.2 -0.8 15 29-43 562-576 (625)
149 TIGR00375 conserved hypothetic 37.5 18 0.0004 36.2 1.6 14 93-107 256-269 (374)
150 KOG2462 C2H2-type Zn-finger pr 36.8 27 0.00059 33.7 2.5 32 128-166 196-227 (279)
151 PRK12380 hydrogenase nickel in 36.7 25 0.00055 29.1 2.0 13 33-45 68-80 (113)
152 PF09845 DUF2072: Zn-ribbon co 35.8 21 0.00047 30.8 1.5 10 37-46 3-12 (131)
153 TIGR00051 acyl-CoA thioester h 34.6 61 0.0013 25.2 3.9 37 222-258 2-39 (117)
154 PRK04023 DNA polymerase II lar 34.2 17 0.00038 40.8 0.9 21 26-46 1028-1048(1121)
155 PRK00418 DNA gyrase inhibitor; 33.9 26 0.00057 26.5 1.5 10 96-105 6-15 (62)
156 COG3024 Uncharacterized protei 33.8 26 0.00055 26.8 1.4 10 96-105 7-16 (65)
157 TIGR00100 hypA hydrogenase nic 33.7 32 0.00069 28.6 2.2 10 96-105 86-95 (115)
158 KOG1885 Lysyl-tRNA synthetase 33.5 9.5 0.00021 39.5 -1.2 18 156-173 295-313 (560)
159 PF04423 Rad50_zn_hook: Rad50 32.4 19 0.00041 25.7 0.6 10 98-107 22-31 (54)
160 PF11023 DUF2614: Protein of u 32.0 32 0.0007 29.0 1.9 22 21-43 56-77 (114)
161 COG3364 Zn-ribbon containing p 31.5 21 0.00044 29.8 0.7 10 36-45 3-12 (112)
162 PRK08222 hydrogenase 4 subunit 31.2 46 0.00099 29.7 2.9 28 27-54 106-133 (181)
163 KOG1234 ABC (ATP binding casse 30.9 53 0.0011 32.4 3.4 56 70-168 15-70 (363)
164 PRK00448 polC DNA polymerase I 30.9 31 0.00066 40.4 2.1 27 98-125 935-961 (1437)
165 COG0661 AarF Predicted unusual 30.6 54 0.0012 34.2 3.7 61 67-170 88-148 (517)
166 COG1379 PHP family phosphoeste 30.3 17 0.00037 36.1 0.0 13 93-105 262-274 (403)
167 KOG0599 Phosphorylase kinase g 29.5 22 0.00048 35.0 0.6 22 115-136 168-195 (411)
168 TIGR00471 pheT_arch phenylalan 29.3 33 0.00071 35.8 1.9 41 122-165 411-451 (551)
169 PRK03681 hypA hydrogenase nick 29.2 38 0.00083 28.1 1.9 12 34-45 69-80 (114)
170 COG1110 Reverse gyrase [DNA re 28.8 24 0.00051 39.9 0.8 21 95-115 7-27 (1187)
171 PRK06260 threonine synthase; V 28.5 31 0.00068 34.2 1.5 11 36-46 4-14 (397)
172 PF07754 DUF1610: Domain of un 27.0 28 0.00062 21.5 0.6 7 97-103 17-23 (24)
173 PRK12286 rpmF 50S ribosomal pr 26.2 51 0.0011 24.3 1.9 17 27-43 19-35 (57)
174 COG3813 Uncharacterized protei 25.8 30 0.00064 27.2 0.6 13 95-107 40-52 (84)
175 PF09889 DUF2116: Uncharacteri 25.7 36 0.00077 25.4 1.0 10 98-107 5-14 (59)
176 cd01675 RNR_III Class III ribo 25.3 29 0.00062 36.4 0.6 7 126-132 549-555 (555)
177 TIGR01054 rgy reverse gyrase. 25.1 33 0.00072 39.3 1.1 19 95-113 6-24 (1171)
178 PF01927 Mut7-C: Mut7-C RNAse 24.9 55 0.0012 28.1 2.2 24 84-107 70-102 (147)
179 PRK14138 NAD-dependent deacety 24.9 45 0.00098 31.1 1.8 17 97-116 144-160 (244)
180 PF02591 DUF164: Putative zinc 24.3 48 0.001 23.7 1.5 21 84-104 33-54 (56)
181 PF13597 NRDD: Anaerobic ribon 24.3 28 0.00061 36.4 0.3 10 124-133 519-528 (546)
182 TIGR00515 accD acetyl-CoA carb 23.7 59 0.0013 31.4 2.4 10 34-43 25-34 (285)
183 cd01407 SIR2-fam SIR2 family o 23.7 52 0.0011 29.8 1.9 10 96-105 133-142 (218)
184 CHL00174 accD acetyl-CoA carbo 23.3 57 0.0012 31.8 2.2 25 93-117 54-80 (296)
185 PF02146 SIR2: Sir2 family; I 23.0 59 0.0013 28.4 2.1 15 36-50 106-120 (178)
186 COG1885 Uncharacterized protei 22.8 41 0.00089 28.1 1.0 59 98-162 51-112 (115)
187 PRK05654 acetyl-CoA carboxylas 22.6 59 0.0013 31.5 2.1 10 34-43 26-35 (292)
188 PRK14892 putative transcriptio 22.2 63 0.0014 26.5 1.9 12 32-43 18-29 (99)
189 PRK00762 hypA hydrogenase nick 21.5 56 0.0012 27.5 1.6 8 97-104 93-100 (124)
190 KOG0978 E3 ubiquitin ligase in 21.5 95 0.0021 33.8 3.6 11 97-107 679-689 (698)
191 PF11210 DUF2996: Protein of u 21.1 1.9E+02 0.0042 24.6 4.7 44 242-288 14-57 (119)
192 PRK07111 anaerobic ribonucleos 21.0 41 0.00088 36.7 0.7 8 125-132 709-716 (735)
193 COG1933 Archaeal DNA polymeras 21.0 27 0.0006 33.1 -0.5 24 26-49 158-181 (253)
194 COG0824 FcbC Predicted thioest 20.7 1.3E+02 0.0027 25.4 3.6 38 221-258 9-47 (137)
195 PHA03082 DNA-dependent RNA pol 20.7 25 0.00055 26.3 -0.6 17 95-111 3-19 (63)
196 cd01413 SIR2_Af2 SIR2_Af2: Arc 20.5 83 0.0018 28.8 2.6 9 97-105 137-145 (222)
197 PF05864 Chordopox_RPO7: Chord 20.3 26 0.00056 26.3 -0.6 17 95-111 3-19 (63)
198 COG1326 Uncharacterized archae 20.1 94 0.002 28.7 2.8 38 9-51 5-46 (201)
No 1
>PLN02734 glycyl-tRNA synthetase
Probab=100.00 E-value=5.7e-118 Score=914.20 Aligned_cols=309 Identities=81% Similarity=1.317 Sum_probs=299.7
Q ss_pred CeeecCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhc
Q 041441 1 HFLLKENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMM 80 (310)
Q Consensus 1 ~fv~~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (310)
|||++++|+|||||||||+.||+|||||++|+|+||+|++||+|||||||||+.+++.+.++.+++++.+++++.+++.+
T Consensus 122 ~fv~~e~mleid~~~i~p~~V~kASGHvd~F~D~mv~~~~~~~~~RADhlie~~~~~~~~~~~~~~~~~~~e~~~~~~~~ 201 (684)
T PLN02734 122 HFVLEENMLEVECPCVTPEVVLKASGHVDKFTDLMVKDEKTGTCFRADHLLKDFCEEKLEKDLTISAEKAAELKDVLAVL 201 (684)
T ss_pred HHhccCCeeEeeccccCCHhHeeecCCcccccceeeEcCCCCcEecchHHHHHHHHhhhccccccchHHHHHHHHHHHhh
Confidence 89999999999999999999999999999999999999999999999999999987665543456777889999999999
Q ss_pred cCCCHHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeec
Q 041441 81 DDLSVEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQI 160 (310)
Q Consensus 81 ~~~~~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqi 160 (310)
++++.+||.++|++|+|+||.||++||+|++|||||+|+|||+++.+||||||||||||+||||+++++|+|||||+|||
T Consensus 202 d~~~~~el~~~i~~~~ik~P~~g~~l~~~~~FNLMF~T~IGp~~~~~~YLRPETAQGiFvnFk~l~~~~~~klPF~~AQI 281 (684)
T PLN02734 202 DDLSAEELGAKIKEYGIKAPDTKNPLSDPYPFNLMFQTSIGPSGLSVGYMRPETAQGIFVNFRDLYYYNGGKLPFAAAQI 281 (684)
T ss_pred cCCCHHHHHHHHHHcCCCCCCCCCCCCCCeecccceeecccCcCCccceecccccchheeeHHHHHHhcCCCCCeeeeec
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHH
Q 041441 161 GQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETI 240 (310)
Q Consensus 161 Gk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~ 240 (310)
|++||||||||+||+|||||||||+|+||+|++.+|++|..|.|+.+++|++..|..+.+.++||+++|+++|+|+|+|+
T Consensus 282 Gk~FRNEIsPR~gl~R~REF~qaEiE~Fv~P~~k~h~~f~~v~~~~l~l~~~~~q~~~~~~~~~t~~eAv~~gii~ne~l 361 (684)
T PLN02734 282 GQAFRNEISPRQGLLRVREFTLAEIEHFVDPEDKSHPKFSEVADLEFLLFPREEQLGGQKAKPMRLGEAVSKGIVNNETL 361 (684)
T ss_pred cHhhhcccCcccceeeechhhhhhhheecCcccccccchhhhhhhhhhcccHhhhhccCCcccccHHHHHHcCccchHHH
Confidence 99999999999999999999999999999999999999999999999999999998887778999999999999999999
Q ss_pred HHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCCCeEEEeehccCcchhhhhhhcc
Q 041441 241 GYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYGWIECVGIADRSAYDLRAHTVI 309 (310)
Q Consensus 241 ~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~Gw~E~~gia~R~~yDL~~H~~~ 309 (310)
+||++++++||.++||++++||||||+++||||||.+|||+||+|+|||+||+||||||||||++|+++
T Consensus 362 ~Y~~~r~~~fl~~iGi~~~~lRfRqh~~~EmAHYA~dcwD~E~~~~~GWiE~vG~AdRs~yDL~~H~~~ 430 (684)
T PLN02734 362 GYFIGRTYLFLTKLGIDKERLRFRQHLANEMAHYAADCWDAEIECSYGWIECVGIADRSAYDLKAHSDK 430 (684)
T ss_pred HHHHHHHHHHHHHcCCCHHHeeecccCcHHHhhhhhccEeEEEecCCCcEEEEEeccccccchHHHHHh
Confidence 999999999999999999999999999999999999999999999999999999999999999999975
No 2
>TIGR00389 glyS_dimeric glycyl-tRNA synthetase, dimeric type. This model describes a glycyl-tRNA synthetase distinct from the two alpha and two beta chains of the tetrameric E. coli glycyl-tRNA synthetase. This enzyme is a homodimeric class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes His, Ser, Pro, and this set of glycyl-tRNA synthetases.
Probab=100.00 E-value=5.1e-111 Score=850.09 Aligned_cols=281 Identities=53% Similarity=0.876 Sum_probs=269.5
Q ss_pred CeeecCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhc
Q 041441 1 HFLLKENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMM 80 (310)
Q Consensus 1 ~fv~~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (310)
|||++++|+|||||+|||+.||+|||||++|+|+||+|++||+|||||||+|+.+++. +
T Consensus 50 ~~v~~~~~~ei~~~~i~~~~v~~aSGh~~~F~D~mv~~~~~~~~~RaD~l~e~~~~~~---------------------~ 108 (551)
T TIGR00389 50 FFIKNERVLEIDTPIITPEEVLKASGHVDNFTDWMVDCKSCKERFRADHLIEEKLGKR---------------------L 108 (551)
T ss_pred HHHhcCCceEeeccccCCHHHHHhcCCccccCCceeecCCCCCEecchHHHHHHhhhh---------------------c
Confidence 6899999999999999999999999999999999999999999999999999876321 3
Q ss_pred cCCCHHHHHHHHHHhCCCCCCCCCC-CCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeee
Q 041441 81 DDLSVEELGAKIKEYGITAPDTKNP-LSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQ 159 (310)
Q Consensus 81 ~~~~~~~~~~~i~~~~i~cP~~g~~-l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAq 159 (310)
++++.++|.++|++++|+||+||++ ||+|++|||||+|+|||+++..+|||||||||||+||||+++++|+|||||+||
T Consensus 109 ~~~~~~~~~~~i~~~~i~~p~~g~~~~~~~~~FNLMF~t~iGp~~~~~~yLRPETAQGiFvnFk~l~~~~~~klPfgiaQ 188 (551)
T TIGR00389 109 WGFSGPELNEVMEKYDINCPNCGGENLTEVRSFNLMFQTEIGVVGKRKGYLRPETAQGIFINFKRLLQFFRRKLPFGVAQ 188 (551)
T ss_pred ccCCHHHHHHHHHHcCCCCCCCCCCCCCCccccccceeeccCCCCCcccccccccchhhHHhHHHHHHhcCCCCCeeehh
Confidence 5889999999999999999999997 999999999999999999999999999999999999999999999999999999
Q ss_pred cccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHH
Q 041441 160 IGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNET 239 (310)
Q Consensus 160 iGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~ 239 (310)
||++||||||||+||+|+|||||||+|+||+|++.+|+.|..+.|+.+++|++..| ..++++|+++|+|+|+|
T Consensus 189 iGk~fRNEIsPr~~l~R~REF~q~EiE~F~~p~~~~~~~f~~~~~~~~~l~~~~~~-------~~~~~eav~~g~i~n~~ 261 (551)
T TIGR00389 189 IGKSFRNEISPRNGLFRVREFEQAEIEFFVHPLDKSHPKFEEVKQDILPLLPRQMQ-------ESGIGEAVESGMIENET 261 (551)
T ss_pred hhHhhhcccCcccceEEeehhhhchhheecCcccccchhhHHHHHHHHhhccchhh-------hccHHHHHHhcccchHH
Confidence 99999999999999999999999999999999888899999999999999998655 33499999999999999
Q ss_pred HHHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCCCeEEEeehccCcchhhhhhhcc
Q 041441 240 IGYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYGWIECVGIADRSAYDLRAHTVI 309 (310)
Q Consensus 240 ~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~Gw~E~~gia~R~~yDL~~H~~~ 309 (310)
++||++++.+||.++||++++||||||.++||||||.+|||+||+|+|||+||+||||||||||++|+++
T Consensus 262 ~~y~~~~~~~fl~~~Gi~~~~lrfrqh~~~e~AHYa~~~~D~e~~~~~Gw~E~~G~a~R~~yDL~~H~~~ 331 (551)
T TIGR00389 262 LGYFIARVKQFLLEIGINPDKLRFRQHDKNEMAHYAKDCWDFEFLTPYGWIECVGIADRGDYDLTQHSKF 331 (551)
T ss_pred HHHHHHHHHHHHHHhCCCHHHeeecccCcHHHhhhccccEeEEEecCCCcEEEEEeccccccChHHHHHh
Confidence 9999999999999999999999999999999999999999999999999999999999999999999975
No 3
>COG0423 GRS1 Glycyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.5e-108 Score=815.94 Aligned_cols=283 Identities=52% Similarity=0.875 Sum_probs=269.4
Q ss_pred Ceeec-CCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhh
Q 041441 1 HFLLK-ENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAM 79 (310)
Q Consensus 1 ~fv~~-e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (310)
|||++ ++++|||||+|||++||+|||||++|+||||+|++||++||||||+|+.+.+..
T Consensus 53 ~fV~~~e~~~eIdtpii~p~~V~kASGHvd~FsDplv~c~~c~~~yRADHLiEe~l~~~~-------------------- 112 (558)
T COG0423 53 SFVTEREDVVEIDTPIILPEEVWKASGHVDKFSDPLVECKKCGERYRADHLIEEYLGKDG-------------------- 112 (558)
T ss_pred HHeeccCCeEEecccccCcHHHhhhcCcccccccceeeccccchhhhhhHHHHHHhhhcc--------------------
Confidence 68887 999999999999999999999999999999999999999999999998864321
Q ss_pred ccCCCHHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeee
Q 041441 80 MDDLSVEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQ 159 (310)
Q Consensus 80 ~~~~~~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAq 159 (310)
...++++++.++|++++|+||.||+++.+|++|||||+|+|||.+++.+|||||||||||+||||+++++|+|||||+||
T Consensus 113 ~~~~~~~e~~~ii~~~~ir~p~~g~~l~~v~~FNLMF~T~IGp~~~~~~YLRPETAQGiFvnFk~l~~~~r~klPFgiaQ 192 (558)
T COG0423 113 HGNMSPEELTEIIREYDIRCPECGGELNEVREFNLMFKTTIGPVEDSLGYLRPETAQGIFVNFKNLLEFARNKLPFGIAQ 192 (558)
T ss_pred cccCCHHHHHHHHHHcCCcCCCcCCccCCcceeeeEEEeeecCCCCcceeecccccchhhhhhHHHHHHhccCCCeEEEe
Confidence 12379999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHH
Q 041441 160 IGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNET 239 (310)
Q Consensus 160 iGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~ 239 (310)
|||+|||||||||||+|+|||||||+|+||+|++..||.|+.|++..+++|+...|..+.+ ++|+++|++.|+|
T Consensus 193 IGKsfRNEISPr~gl~R~REF~QaEiE~Fv~P~~k~~p~f~~v~~~~l~l~~~~~q~~~~~------~EAv~~g~~~n~~ 266 (558)
T COG0423 193 IGKSFRNEISPRNGLFRTREFEQAEIEFFVDPEEKEHPKFNEVKDEKLPLLPREAQEEGTE------EEAVEEGIVENET 266 (558)
T ss_pred echhhccccCcccceeehhhhhhhheeeEECCCcccCcchhhhhhhhcccccHHHhhhhhh------hhhhhcceeechh
Confidence 9999999999999999999999999999999999999999999999999999987764422 8999999999999
Q ss_pred HHHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcC-CCeEEEeehccCcchhhhhhhcc
Q 041441 240 IGYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECS-YGWIECVGIADRSAYDLRAHTVI 309 (310)
Q Consensus 240 ~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~-~Gw~E~~gia~R~~yDL~~H~~~ 309 (310)
++||++++..||.++||++++||||||+++||||||.+|||+||+|+ +||+||+||||||||||++|+++
T Consensus 267 ~~y~~~~~~~fl~~lGI~~e~lRfrqh~~~E~AHYa~~twD~E~~~~~~gWiE~~GiAdRtdYDL~~H~k~ 337 (558)
T COG0423 267 LAYFIARTKFFLEDLGIDPEKLRFRQHLPEELAHYSKDTWDAEYKFPFGGWIELVGIADRTDYDLSRHSKF 337 (558)
T ss_pred HHHHHHHHHHHHHHcCCCHHHhhhhhcChHHHhhhhhcceeEEEecCCCceEEEEEeecccccchhhhhhh
Confidence 99999999999999999999999999999999999999999999999 78999999999999999999984
No 4
>KOG2298 consensus Glycyl-tRNA synthetase and related class II tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=8.5e-108 Score=799.07 Aligned_cols=306 Identities=63% Similarity=1.019 Sum_probs=297.7
Q ss_pred CeeecCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhc
Q 041441 1 HFLLKENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMM 80 (310)
Q Consensus 1 ~fv~~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 80 (310)
|||++|+|+|||||++||++|+|||||||+|+|+||++.++|+|||||||+++. ++++. .+.+++.+++++.+++.+
T Consensus 59 hFilEE~MlEvdct~ltP~~VlkaSGHVdkF~D~mvkD~ktGecfRADHLvk~~-~~rl~--~~~~~~~~~e~e~iLa~~ 135 (599)
T KOG2298|consen 59 HFILEEDMLEVDCTMLTPEPVLKASGHVDKFADWMVKDEKTGECFRADHLVKDA-EERLK--KKASAEVKAEMEKILAKL 135 (599)
T ss_pred HHhhhhcceeeccCcCCcHHHhhcccchhhhhHHHhcCccccceehhhHHHHHH-HHhhh--cccchHHHHHHHHHHHHh
Confidence 899999999999999999999999999999999999999999999999999999 44443 356788899999999999
Q ss_pred cCCCHHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeec
Q 041441 81 DDLSVEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQI 160 (310)
Q Consensus 81 ~~~~~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqi 160 (310)
|++|.+||.++|.+|||++|.+|++|++|++|||||+|+|||+|..+||||||||||+|+|||++++++++||||+.|||
T Consensus 136 d~~s~~el~~~~~kyni~sP~tgn~Ls~p~~FNLMF~T~IGpsG~~kgyLRPETAQG~FlNFkrlle~N~~KlPFA~Aqi 215 (599)
T KOG2298|consen 136 DGYSGQELGELISKYNIKSPVTGNDLSEPRQFNLMFETQIGPSGGLKGYLRPETAQGQFLNFKRLLEFNQGKLPFASAQI 215 (599)
T ss_pred cCCChHHHHHHHHhccCCCCCcCCCcCCCcccceeccccccCCCCcccccCccccccccccHHHHHHhcCCCCcchHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHH
Q 041441 161 GQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETI 240 (310)
Q Consensus 161 Gk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~ 240 (310)
|++||||||||+||+|||||||+|+|+||+|..++|++|..|.++.+.++++..|..|....+|.+++|+.+|+++|+++
T Consensus 216 G~~fRNEISpRsGLlRvrEF~maEIEHFvdP~~K~h~kF~~V~~~~l~l~~~~~q~~g~~a~~~~lgEaV~kg~V~netl 295 (599)
T KOG2298|consen 216 GKSFRNEISPRSGLLRVREFTMAEIEHFVDPLLKSHPKFSLVAAEKLRLFPRDKQLSGQSAQKVALGEAVAKGTVNNETL 295 (599)
T ss_pred chHhhhccCcccCceeEEEeehHHhhccCCCCCCCChhhhhhhhhhhhhcchhhhhccchhhHhHHHHHHHhhccccchh
Confidence 99999999999999999999999999999999999999999999999999999998877799999999999999999999
Q ss_pred HHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCCCeEEEeehccCcchhhhhhhcc
Q 041441 241 GYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYGWIECVGIADRSAYDLRAHTVI 309 (310)
Q Consensus 241 ~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~Gw~E~~gia~R~~yDL~~H~~~ 309 (310)
+|+++++++||.++||+.++||||||+.+||||||.+|||.|++++|||+||||||||++|||++|+++
T Consensus 296 Gyfi~Ri~~fL~~lGid~~rlRFRqH~~nEMAHYA~DCWDaEi~tSYGWIEcVG~ADRs~yDL~~Hs~~ 364 (599)
T KOG2298|consen 296 GYFIGRIYLFLNKLGIDKERLRFRQHMANEMAHYAFDCWDAEIKTSYGWIECVGCADRAAYDLSTHSRA 364 (599)
T ss_pred HHHHHHHHHHHHHhCcchhhcchHHHhhhhhhhhhccccchhhhhccCcEEEeeccchhheeeecCccc
Confidence 999999999999999999999999999999999999999999999999999999999999999999864
No 5
>PRK14894 glycyl-tRNA synthetase; Provisional
Probab=100.00 E-value=1.7e-95 Score=724.91 Aligned_cols=222 Identities=36% Similarity=0.595 Sum_probs=213.5
Q ss_pred Ceee-cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhh
Q 041441 1 HFLL-KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAM 79 (310)
Q Consensus 1 ~fv~-~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (310)
|||. +++|+|||||||||+.||+||||+++|+|+||+|++||++||||||+
T Consensus 53 ~~v~~~~~~~~id~~il~~~~v~~aSGH~~~F~DpmV~CkkCk~ryRaD~Li---------------------------- 104 (539)
T PRK14894 53 TNVYERDDMEGLDAAILMNRLVWKYSGHEETFNDPLVDCRDCKMRWRADHIQ---------------------------- 104 (539)
T ss_pred HHeeccCCEEEeeccccCCHhHeeeccCCCCCCCceeECCCCCccccCccce----------------------------
Confidence 5786 99999999999999999999999999999999999999999999972
Q ss_pred ccCCCHHHHHHHHHHhCCCCCCCCC-CCCCCcccceeeeeeeccCCC--CceecCCCchhhHHHHHhhhhhhccCCCCce
Q 041441 80 MDDLSVEELGAKIKEYGITAPDTKN-PLSDPYPFNLMFQTSVGPSGL--TAAYVRPETAPGIFVNFKDLYYNNGNKLPFA 156 (310)
Q Consensus 80 ~~~~~~~~~~~~i~~~~i~cP~~g~-~l~~~~~FNLMF~t~iGp~~~--~~~yLRPETAQgif~nFk~~l~s~r~kLPf~ 156 (310)
++||+||+ +||+|++|||||+|+|||+++ +.+|||||||||||+||+|+++++|+|||||
T Consensus 105 -----------------ikCP~CGs~dLTe~~~FNLMF~T~iGp~~~~~~~~yLRPETAQGiFvnFk~ll~~~~~klPFg 167 (539)
T PRK14894 105 -----------------GVCPNCGSRDLTEPRPFNMMFRTQIGPVADSDSFAYLRPETAQGIFVNFANVLATSARKLPFG 167 (539)
T ss_pred -----------------eeCCCCCCcCCCcceeccccceeccccCCCcCcceeeCcccchHHHHHHHHHHHhcCCCCCee
Confidence 37999994 899999999999999999987 5799999999999999999999999999999
Q ss_pred eeecccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccC
Q 041441 157 AAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVN 236 (310)
Q Consensus 157 iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~ 236 (310)
+|||||+||||||||+||+|+|||||||+|+||+|++.
T Consensus 168 iaQIGk~FRNEIsPr~~l~R~REF~q~EiE~Fv~P~~~------------------------------------------ 205 (539)
T PRK14894 168 IAQVGKAFRNEINPRNFLFRVREFEQMEIEYFVMPGTD------------------------------------------ 205 (539)
T ss_pred EEeeeccccCccCCCCceeecccchhheEEEEeCCCch------------------------------------------
Confidence 99999999999999999999999999999999999873
Q ss_pred hHHHHHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcC-CCeEEEeehccCcchhhhhhhcc
Q 041441 237 NETIGYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECS-YGWIECVGIADRSAYDLRAHTVI 309 (310)
Q Consensus 237 ~e~~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~-~Gw~E~~gia~R~~yDL~~H~~~ 309 (310)
++|++||++++.+||.++||++++||||+|.++|+||||.+|||+||++| |||+||+||||||||||++|+++
T Consensus 206 ~~~~~y~~~~~~~fl~~iGi~~~~lrfr~h~~~ElAHYa~~~~D~e~~~p~~Gw~E~~Gia~RtdyDL~~H~~~ 279 (539)
T PRK14894 206 EEWHQRWLEARLAWWEQIGIPRSRITIYDVPPDELAHYSKRTFDLMYDYPNIGVQEIEGIANRTDYDLGSHSKD 279 (539)
T ss_pred HHHHHHHHHHHHHHHHHhCCCHHHeeeeecCcHHhhhhhhccEEEEEECCCCCeEEEEEeecccccCHHHHhhh
Confidence 68999999999999999999999999999999999999999999999997 79999999999999999999983
No 6
>PRK04173 glycyl-tRNA synthetase; Provisional
Probab=100.00 E-value=5.2e-74 Score=572.34 Aligned_cols=239 Identities=44% Similarity=0.737 Sum_probs=224.0
Q ss_pred CCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCCH
Q 041441 6 ENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLSV 85 (310)
Q Consensus 6 e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (310)
+||+||+||+|+|.+||+|||||++|+|+||+|++|+++|||||++++.++++.+ + +.
T Consensus 57 ~~~~ev~tp~i~~~~l~~~SGH~~~f~d~m~~~~~~~~~~r~d~~~~~~~~~~~~---------------------~-~~ 114 (456)
T PRK04173 57 EDVVGIDSPIIMPPEVWEASGHVDNFSDPLVECKKCKKRYRADHLIEELGIDAEG---------------------L-SN 114 (456)
T ss_pred CCEEEEeccccCCHHHHhhcCCccccCCceeEeCCCCCEeechhhhHHHhhhhcc---------------------c-cH
Confidence 8999999999999999999999999999999999999999999999876543221 1 45
Q ss_pred HHHHHHHHHhCCCCCCCCCC-CCCCcccceeeeeeecc--CCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccc
Q 041441 86 EELGAKIKEYGITAPDTKNP-LSDPYPFNLMFQTSVGP--SGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQ 162 (310)
Q Consensus 86 ~~~~~~i~~~~i~cP~~g~~-l~~~~~FNLMF~t~iGp--~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk 162 (310)
+++.+++..++++||+||++ |++|++|||||+|.||| .++.++|||||||||||+||++.++|||++||||+||+|+
T Consensus 115 ~~~~~~~~~~~m~cp~~~~~~~~~~~~f~l~f~~~~g~~~~~~~~~~lRpetaqg~~~~f~~~~~syr~dLPlr~aq~g~ 194 (456)
T PRK04173 115 EELKELIRENDIKCPECGGENWTEVRQFNLMFKTFIGPVEDSKSLGYLRPETAQGIFVNFKNVLRTARKKLPFGIAQIGK 194 (456)
T ss_pred HHHHHHHHHhCCCCCCCCCCCCcCccchhhceeecccCccCCCcceeeccccchhHHHHHHHHHHhccccCCeeeeEEch
Confidence 68888899999999999987 99999999999999999 4567899999999999999999999999999999999999
Q ss_pred ccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHH
Q 041441 163 AFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGY 242 (310)
Q Consensus 163 ~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y 242 (310)
|||||+||++||+|||||||+|+|+||+|+|. ++++.+
T Consensus 195 ~~RnE~s~~~gL~RvReF~q~e~hiF~~peq~------------------------------------------~~e~~~ 232 (456)
T PRK04173 195 SFRNEITPRNFIFRTREFEQMELEFFVKPGTD------------------------------------------NEWFAY 232 (456)
T ss_pred hHhCccCCCCCceeeceeeeeEEEEEECcChH------------------------------------------HHHHHH
Confidence 99999999999999999999999999999996 467889
Q ss_pred HHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCCC--eEEEeehccCcchhhhhhhc
Q 041441 243 FIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYG--WIECVGIADRSAYDLRAHTV 308 (310)
Q Consensus 243 ~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~G--w~E~~gia~R~~yDL~~H~~ 308 (310)
|++.+..||..+|+++.++|++.+.++|++||+..|||+++.++.| |.|+.|+++|++|||.+|++
T Consensus 233 ~l~~~~~~l~~lG~~~~~~~~s~~~~~e~~~ys~~~wd~e~~~~~g~~~~e~~g~~~~~dydL~~~~~ 300 (456)
T PRK04173 233 WIELRKNWLLDLGIDPENLRFREHLPEELAHYSKATWDIEYKFPFGRFWGELEGIANRTDYDLSRHSK 300 (456)
T ss_pred HHHHHHHHHHHcCCCccceEEEecCcchhhccHHHHHhHHHhCCCCCcEEEEeeeeccchhhcccchh
Confidence 9999999999999999999999999999999999999999999998 99999999999999999974
No 7
>cd00774 GlyRS-like_core Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP binding and hydrolysis. This alignment contains only sequences from the GlyRS form which homodimerizes. The heterotetramer glyQ is in a different family of class II aaRS. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. This domain is also found at the N-terminus of the accessory subunit of mitochondrial polymerase gamma (Pol gamma b). Pol gamma b stimulates processive DNA synthesis and is functional as a homodimer, which can associate with the catalytic subunit Pol gamma alpha to form a heterotrimer. Despite significant both structural and sequence similarity with Gly
Probab=100.00 E-value=1.1e-50 Score=376.42 Aligned_cols=188 Identities=51% Similarity=0.752 Sum_probs=177.2
Q ss_pred eeeeeeeccCC--CCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeCC
Q 041441 114 LMFQTSVGPSG--LTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDP 191 (310)
Q Consensus 114 LMF~t~iGp~~--~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P 191 (310)
+||+|.+||.+ +...||||||+||||++|++.+.+++++|||++||||+|||||+||++||+|+|||||+|+|+||+|
T Consensus 65 ~mf~~~~g~~d~~~~~~~Lrp~~~~~~~~~~~~~~~~~~~~lP~~~~qig~~fR~E~~~~~gl~R~ReF~q~d~~~f~~~ 144 (254)
T cd00774 65 LMFKTSIGPVESGGNLGYLRPETAQGIFVNFKNLLEFNRRKLPFGVAQIGKSFRNEISPRNGLFRVREFTQAEIEFFVDP 144 (254)
T ss_pred HHheeeecccCCCCcccccCCcccchHHHHHHHHHHHhCCCCCchhhhhchhhccccCcccceeeeccchhhheeeeECC
Confidence 89999999953 4579999999999999999999999889999999999999999999999999999999999999999
Q ss_pred CCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHHHHHHHHHHHHHcCCCCCCCceeeccCCcc
Q 041441 192 KDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYFIGRVYLFLSRLGIDQDHLRFRQHLANEM 271 (310)
Q Consensus 192 ~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~ 271 (310)
+|. .+++..+.+....+|.++.+ ..+.++++..++.+.++++++||+||.+....|++.+||+++++|+++|.++|+
T Consensus 145 ~~~-~e~~~~v~~~~~~~l~~~G~--~~~~~r~~~~~~~e~a~ya~~~~d~~~~~~~~w~e~~Gi~~~~~~~l~~~~~e~ 221 (254)
T cd00774 145 EKS-HPWFDYWADQRLKWLPKFAQ--SPENLRLTDHEKEELAHYANETLDYFYAFPHGFLELEGIANRGDRFLQHHPNES 221 (254)
T ss_pred CCc-hHHHHHHHHHHHHHHHHcCC--CccceEEEecccHhhhhhhHHHHHHHHHHhhhHHHHcCCCcchhHHHhCChhhh
Confidence 998 79999999999999998632 124688889999999999999999999999999999999999999999999999
Q ss_pred ccccCceeeEEEEcCCCeEEEeehccCcchhhh
Q 041441 272 AHYAADCWDAEIECSYGWIECVGIADRSAYDLR 304 (310)
Q Consensus 272 AhYg~k~~D~e~~~~~Gw~E~~gia~R~~yDL~ 304 (310)
|||+..|||++++++.||+|++|+|||++|||+
T Consensus 222 a~y~~~~~d~~~~~~~~~~E~~g~~dR~~~dLl 254 (254)
T cd00774 222 AHYASDCWDAEKLYVPGWIEVSGGADRTDYDLL 254 (254)
T ss_pred hchHHhccCcceeeCCceEEEeeeechHHhhcC
Confidence 999999999999999999999999999999995
No 8
>COG0441 ThrS Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6e-35 Score=298.03 Aligned_cols=193 Identities=21% Similarity=0.299 Sum_probs=167.2
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
..|+.+|.||+|+...+|+.|||+++|.+.|+....-+
T Consensus 236 ~~Gy~~V~TP~~~~~~l~~~SGH~~~y~e~mf~~~~~~------------------------------------------ 273 (589)
T COG0441 236 SYGYQEVKTPVLADLELWELSGHWDNYKEDMFLTESDD------------------------------------------ 273 (589)
T ss_pred hcCceEecCCeeeecccchhccchhhccccceeeccCC------------------------------------------
Confidence 46899999999999999999999999999999655432
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAF 164 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~f 164 (310)
++|.++.+||.+ ++..|++.++||| +||++++|+|.||
T Consensus 274 --------~~~~lKpmNCpg---------------------------------h~~ifk~~~~SYR-~LP~r~~E~g~v~ 311 (589)
T COG0441 274 --------REYALKPMNCPG---------------------------------HILIFKSGLRSYR-ELPLRLAEFGYVY 311 (589)
T ss_pred --------hhheeeeccCHh---------------------------------HHHHHhcCCccee-ccchhhhhcceee
Confidence 235555555544 8889999999999 8999999999999
Q ss_pred ccccCC-CCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHHH
Q 041441 165 RNEISP-RQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYF 243 (310)
Q Consensus 165 RNEiSp-r~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~ 243 (310)
|||.|| ++||+|||+|||+|+|+||+|+|+ .+||.++.+++..+|..+ |++.+++.++.++ +-+.+++.|+++
T Consensus 312 R~E~SGal~GL~RvR~ftqdDaHifc~~dQi-~~E~~~~~~~i~~v~~~f----g~~~y~~~ls~r~-k~ig~d~~W~~a 385 (589)
T COG0441 312 RYEKSGALHGLMRVRGFTQDDAHIFCTPDQI-KDEFKGILELILEVYKDF----GFTDYEVKLSTRP-KFIGSDEMWDKA 385 (589)
T ss_pred cccCcchhhccccccceeecccceeccHHHH-HHHHHHHHHHHHHHHHhc----CCceEEEEEecCC-cccCChhhhHHH
Confidence 999999 999999999999999999999999 799999999999999664 4444444454445 667777999999
Q ss_pred HHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCCCeEEEee
Q 041441 244 IGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYGWIECVG 294 (310)
Q Consensus 244 ~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~Gw~E~~g 294 (310)
.+.+..+|+.+|+++ ...+|++|||||| +|+.+++++|..+.+|
T Consensus 386 ~~~l~~al~~~~~~~------~~~~G~~aFyGPK-id~~v~Dalgr~~q~~ 429 (589)
T COG0441 386 EAALREALKEIGVEY------VEEPGEGAFYGPK-IDFQVKDALGREWQLG 429 (589)
T ss_pred HHHHHHHHHhhCcee------eecCCceEEECcc-cceEEEeccCcceecc
Confidence 999999999999998 7789999999999 9999999998776554
No 9
>KOG1637 consensus Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.2e-34 Score=284.46 Aligned_cols=192 Identities=19% Similarity=0.212 Sum_probs=166.6
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
+.|+-||-||.|-+.++|++||||++|.|.|+.-...+
T Consensus 208 ~rGf~EVitPniy~~~LWe~SGHwqnY~enmF~~e~ek------------------------------------------ 245 (560)
T KOG1637|consen 208 KRGFTEVITPNIYNKKLWETSGHWQNYSENMFKFEVEK------------------------------------------ 245 (560)
T ss_pred hcCCceecCcchhhhhhhhhccchhhhhhhceeeeech------------------------------------------
Confidence 45899999999999999999999999999999644422
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAF 164 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~f 164 (310)
.++++|.+||.+ +=+.|+..-+||| +||+|+|.+|-.|
T Consensus 246 --------e~~~LKPMNCPg---------------------------------HcLmf~~r~rS~r-eLPlR~aDFg~LH 283 (560)
T KOG1637|consen 246 --------EEFALKPMNCPG---------------------------------HCLMFAHRDRSYR-ELPLRFADFGVLH 283 (560)
T ss_pred --------hhhccCccCCCc---------------------------------cccccccCCccHh-hCCccccCcceee
Confidence 236666666656 4446888899999 8999999999999
Q ss_pred ccccCC-CCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHHH
Q 041441 165 RNEISP-RQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYF 243 (310)
Q Consensus 165 RNEiSp-r~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~ 243 (310)
|||+|| +.||+|||+|.|+|+||||+|+|+ .+|++.+.++...+|.-+ | -..++.++++|++-+++-+.|+.+
T Consensus 284 RnE~SGaLsGLTRvRrFqQDDaHIFCt~~Qi-~~Eik~~l~fl~~vY~~f----g-f~f~l~lSTRPe~~lG~l~~Wd~A 357 (560)
T KOG1637|consen 284 RNEASGALSGLTRVRRFQQDDAHIFCTPDQV-KEEIKGCLDFLDYVYGVF----G-FTFKLNLSTRPEKFLGDLETWDEA 357 (560)
T ss_pred eccccccccccceeeeecccCceEEecCccH-HHHHHHHHHHHHHHHHhc----c-ccceeEeccChHHhccCHHHHHHH
Confidence 999998 999999999999999999999999 799999999999999853 2 257788888999444444999999
Q ss_pred HHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCCCeEEEe
Q 041441 244 IGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYGWIECV 293 (310)
Q Consensus 244 ~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~Gw~E~~ 293 (310)
+..+..+|.+.|-|. ...+|++|||||| +|+.+.+..|..+.+
T Consensus 358 E~~L~~al~e~g~pw------~lN~GDGAFYGPK-IDi~l~Dal~r~hQc 400 (560)
T KOG1637|consen 358 EFKLEEALNESGEPW------VLNPGDGAFYGPK-IDITLDDALGRKHQC 400 (560)
T ss_pred HHHHHHHHHHhCCCc------eecCCCcccccce-eeeEhhhhcCcccce
Confidence 999999999999997 9999999999999 999999998865544
No 10
>cd00771 ThrRS_core Threonyl-tRNA synthetase (ThrRS) class II core catalytic domain. ThrRS is a homodimer. It is responsible for the attachment of threonine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain.
Probab=99.98 E-value=6.7e-32 Score=255.90 Aligned_cols=195 Identities=22% Similarity=0.256 Sum_probs=170.1
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
..|+.+|.||+|.+.+||++|||++.|.|.|+.....
T Consensus 46 ~~Gy~ev~tP~l~~~~l~~~sg~~~~~~~~my~~~~~------------------------------------------- 82 (298)
T cd00771 46 KRGYQEVETPIIYNKELWETSGHWDHYRENMFPFEEE------------------------------------------- 82 (298)
T ss_pred HcCCEEEECCeecCHHHHhhCCCccccccCceEeccC-------------------------------------------
Confidence 5689999999999999999999999999999853211
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAF 164 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~f 164 (310)
| ..-+|||++++++...|++...+|+ +||++++|+|+||
T Consensus 83 ------------------~----------------------~~l~LRP~~~~~~~~~~~~~~~s~~-~LPlr~~~~g~vf 121 (298)
T cd00771 83 ------------------D----------------------EEYGLKPMNCPGHCLIFKSKPRSYR-DLPLRLAEFGTVH 121 (298)
T ss_pred ------------------C----------------------ceEEEcccCCHHHHHHHHhhccchh-hCCeEEEEecCcc
Confidence 0 1468999999999999999888998 8999999999999
Q ss_pred ccccCC-CCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHHH
Q 041441 165 RNEISP-RQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYF 243 (310)
Q Consensus 165 RNEiSp-r~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~ 243 (310)
|+|.++ ++||+|+|||+|.|+|+||+|++. ..++.++.++...+|... |...+.+.++.++++...+.+.|.-.
T Consensus 122 R~E~~~~~~Gl~R~reF~q~e~~i~~~~e~~-~~e~~e~l~~~~~~l~~l----gl~~~~i~l~~~~~~~~~d~e~W~~a 196 (298)
T cd00771 122 RYEQSGALHGLTRVRGFTQDDAHIFCTPDQI-KEEIKGVLDLIKEVYSDF----GFFDYKVELSTRPEKFIGSDEVWEKA 196 (298)
T ss_pred cCCCCCCCCCccccccEEECCEEEEeCCcch-HHHHHHHHHHHHHHHHHc----CCCcEEEEEEcChhHhcCCHHHHHHH
Confidence 999997 999999999999999999999886 578888999999898875 33445666666666667777999999
Q ss_pred HHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCCCeEEEeeh
Q 041441 244 IGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYGWIECVGI 295 (310)
Q Consensus 244 ~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~Gw~E~~gi 295 (310)
+..+++++...|+++ ++.+||+|||||| +|+.+.++.|+...+|-
T Consensus 197 ~~~l~e~l~~~~~~~------~~~~g~~afygpk-id~~~~d~~gr~~q~~t 241 (298)
T cd00771 197 EAALREALEEIGLPY------EINEGEGAFYGPK-IDFHVKDALGREWQCST 241 (298)
T ss_pred HHHHHHHHHhCCCCc------eECCCCcccccce-EEEEEEeCCCCeeecce
Confidence 999999999999997 8999999999999 99999999998777654
No 11
>PLN02908 threonyl-tRNA synthetase
Probab=99.97 E-value=3e-32 Score=283.95 Aligned_cols=194 Identities=19% Similarity=0.212 Sum_probs=168.0
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
+.|+.+|.||+|.+.++|++|||+++|.|.|+.-.
T Consensus 337 ~~G~~ev~tP~l~~~~l~~~sGh~~~~~~~mf~~~--------------------------------------------- 371 (686)
T PLN02908 337 ERGYDEVITPNIYNMDLWETSGHAAHYKENMFVFE--------------------------------------------- 371 (686)
T ss_pred HcCCEEEECCccccHHHHhhcCCccccchhccEEe---------------------------------------------
Confidence 56899999999999999999999999999887310
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAF 164 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~f 164 (310)
.++ ...+|||++++++...|++..+||| +||+++||+|+||
T Consensus 372 -----------------~~~---------------------~~~~Lrp~~~~~~~~~~~~~~~s~r-~LPlr~~~~g~~f 412 (686)
T PLN02908 372 -----------------IEK---------------------QEFGLKPMNCPGHCLMFAHRVRSYR-ELPLRLADFGVLH 412 (686)
T ss_pred -----------------cCC---------------------eeEEEcCCCcHHHHHHHhccccChh-hCCHhHEEeeccc
Confidence 011 2478999999999999999999999 8999999999999
Q ss_pred ccccCC-CCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHHH
Q 041441 165 RNEISP-RQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYF 243 (310)
Q Consensus 165 RNEiSp-r~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~ 243 (310)
|||.|| ++||+|||||+|+|+|+||+|+|. .+++..+.++...+|..+ |. ++.+.+++++++.+.+.+.|+-+
T Consensus 413 R~E~~~~l~Gl~RvReF~q~d~~if~~~~q~-~~e~~~~l~~~~~v~~~l----G~-~~~~~ls~r~~~~~g~~~~w~~a 486 (686)
T PLN02908 413 RNELSGALTGLTRVRRFQQDDAHIFCREDQI-KDEVKGVLDFLDYVYEVF----GF-TYELKLSTRPEKYLGDLETWDKA 486 (686)
T ss_pred cCCCCcCCcCccccccEEEeeEEEEcCHHHH-HHHHHHHHHHHHHHHHHC----CC-cEEEEEeCCccccCCCHHHHHHH
Confidence 999999 899999999999999999999998 689999999999999775 33 57788888885555555999999
Q ss_pred HHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCCCeEEEeehcc
Q 041441 244 IGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYGWIECVGIAD 297 (310)
Q Consensus 244 ~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~Gw~E~~gia~ 297 (310)
++.+..+|.++|.+. ++.++++|||||+ +|+++.+++|- ++.|+.
T Consensus 487 e~~l~~~ld~~~~~~------~~~~g~~afygpk-id~~~~d~l~r--~~~~~t 531 (686)
T PLN02908 487 EAALTEALNAFGKPW------QLNEGDGAFYGPK-IDITVSDALKR--KFQCAT 531 (686)
T ss_pred HHHHHHHHHHcCCCc------EECCCceeecccc-eEEEEEeccCC--Eeeccc
Confidence 999999999999995 7789999999999 99999986654 444444
No 12
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=99.97 E-value=1.8e-32 Score=279.08 Aligned_cols=195 Identities=19% Similarity=0.179 Sum_probs=171.3
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
+.|+.+|+||+|....+|++|||+++|.|.|+.-.+
T Consensus 184 ~~Gy~eV~TP~i~~~eL~k~SGh~~~y~~~mf~~~~-------------------------------------------- 219 (545)
T PRK14799 184 SMGYQEVYTSHVFKTDIWKISGHYTLYRDKLIVFNM-------------------------------------------- 219 (545)
T ss_pred HcCCeEEECCccchHHHHhhccccccchhhcceeec--------------------------------------------
Confidence 679999999999999999999999999999873211
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAF 164 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~f 164 (310)
++ ..-+|||..+.++...|++..+||| +||++++|+|+||
T Consensus 220 ------------------~~---------------------e~~~LrPm~cp~~~~~~~~~~~Syr-dLPlR~~e~g~vf 259 (545)
T PRK14799 220 ------------------EG---------------------DEYGVKPMNCPAHILIYKSKPRTYR-DLPIRFSEFGHVY 259 (545)
T ss_pred ------------------cC---------------------ceEEeccCCCHHHHHHHhccccChh-hCCHhhEEeccee
Confidence 01 1467899999999999999999999 8999999999999
Q ss_pred ccccCC-CCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccc-cceEEEecccccccccChHHHHH
Q 041441 165 RNEISP-RQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQ-SAKKIRLGEAVSRGIVNNETIGY 242 (310)
Q Consensus 165 RNEiSp-r~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~-~~~~~s~~~a~~~~~i~~e~~~y 242 (310)
|||.|+ ++||+|||||+|+|+|+||+|+|. .+++..+.+++..+|..+ |.. ..+.+.+++++++.+++++.|+.
T Consensus 260 R~E~sg~l~GL~RvReF~Q~DaHif~~~~q~-~~E~~~~l~~i~~vy~~f---G~~~~~~~i~ls~Rpe~~~G~~~~wdk 335 (545)
T PRK14799 260 RWEKKGELYGLLRVRGFVQDDGHIFLREDQL-REEIKMLISKTVEVWHKF---GFKDDDIKPYLSTRPDESIGSDELWEK 335 (545)
T ss_pred cCCCCCCccccccceeEEEcccEEEeCHHHH-HHHHHHHHHHHHHHHHHh---CCCcccEEEEEEcChhhhcCCHHHHHH
Confidence 999999 899999999999999999999998 589999999999999986 443 24777777788777888899999
Q ss_pred HHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCCCeEEEee
Q 041441 243 FIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYGWIECVG 294 (310)
Q Consensus 243 ~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~Gw~E~~g 294 (310)
+...+...|.++|+++ +..++++|||||+ +|+++.++.|....++
T Consensus 336 a~~~l~~~L~~~gl~~------~~~~g~gafygpk-iD~~v~dalgr~~q~~ 380 (545)
T PRK14799 336 ATNALISALQESGLKF------GIKEKEGAFYGPK-IDFEIRDSLGRWWQLS 380 (545)
T ss_pred HHHHHHHHHHHcCCCe------EEecceeccccCc-cceEehhhcCchhhhh
Confidence 9999999999999997 6788999999999 8999999888665544
No 13
>PF00587 tRNA-synt_2b: tRNA synthetase class II core domain (G, H, P, S and T) This Prosite entry contains all class II enzymes. seryl tRNA synthetase structure; InterPro: IPR002314 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 includes the glycine, histidine, proline, threonine and serine tRNA synthetases.; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 3UH0_A 3UGT_C 3UGQ_A 1B76_B 1GGM_B 1ATI_A 1ADY_C 1ADJ_C 2I4O_A 2I4M_B ....
Probab=99.97 E-value=2.6e-31 Score=231.84 Aligned_cols=155 Identities=32% Similarity=0.524 Sum_probs=137.7
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
+.|+.+|++|+|+|.+||++|||+++|.|.|+.|+.+++
T Consensus 16 ~~G~~ev~~P~l~~~~~~~~sg~~~~~~~~~~~~~~~~~----------------------------------------- 54 (173)
T PF00587_consen 16 KFGFQEVDTPILIPSEVWEKSGHWDNFSDEMFKVKDRGD----------------------------------------- 54 (173)
T ss_dssp HTTEEEEB--SEEEHHHHHHHSHHHHHGGGSEEEEETTT-----------------------------------------
T ss_pred hcCCEEEECCeEEehHHhhhccccccccCCeeeeeeccc-----------------------------------------
Confidence 679999999999999999999999999999998877652
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhh-ccCCCCceeeecccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYN-NGNKLPFAAAQIGQA 163 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s-~r~kLPf~iAqiGk~ 163 (310)
..-+|||+++++++..|++...+ ++ +||++++|+|+|
T Consensus 55 -----------------------------------------~~~~L~pt~~~~~~~~~~~~~~~~~~-~LP~~~~~~g~~ 92 (173)
T PF00587_consen 55 -----------------------------------------EEYCLRPTSEPGIYSLFKNEIRSSYR-DLPLKLYQIGTC 92 (173)
T ss_dssp -----------------------------------------EEEEE-SSSHHHHHHHHHHHEEBHGG-GSSEEEEEEEEE
T ss_pred -----------------------------------------ccEEeccccccceeeeecceeeeccc-cCCeEEeecccc
Confidence 02389999999999999999998 66 899999999999
Q ss_pred cccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHHH
Q 041441 164 FRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYF 243 (310)
Q Consensus 164 fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~ 243 (310)
||||.+|.+||+|+|||+|.|+|+||+|++. .++.+.|
T Consensus 93 fR~E~~~~~gl~R~reF~~~e~~~f~~~~~~------------------------------------------~~~~~~~ 130 (173)
T PF00587_consen 93 FRNEARPTRGLFRLREFTMDEMHIFCTPEQS------------------------------------------EEEFEEL 130 (173)
T ss_dssp EBSSSSSBSTTTS-SEEEEEEEEEEESSHHH------------------------------------------HHHHHHH
T ss_pred cccccccccccceeeEeeeeceEEEeCCccc------------------------------------------HHHHHHH
Confidence 9999999999999999999999999999553 4667788
Q ss_pred HHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcC
Q 041441 244 IGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECS 286 (310)
Q Consensus 244 ~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~ 286 (310)
++....++.++|| +.+|++....+++++|+..+||+|+++|
T Consensus 131 ~~~~~~i~~~lgl--~~~~~~~~~~~~~~~~~~~~~d~e~~~~ 171 (173)
T PF00587_consen 131 LELYKEILEKLGL--EPYRIVLSSSGELGAYAKYEFDIEAWFP 171 (173)
T ss_dssp HHHHHHHHHHTTS--GCEEEEEEETCTSCTTSSEEEEEEEEET
T ss_pred HHHHHHHHHHcCC--ceEEEEEcCCCccCCCHHHcccHHHhCc
Confidence 8899999999999 6689999999999999999999999876
No 14
>PLN02837 threonine-tRNA ligase
Probab=99.97 E-value=6.7e-31 Score=270.94 Aligned_cols=195 Identities=19% Similarity=0.229 Sum_probs=165.5
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
+.|+.+|-||+|++..+|++|||+++|.|.|+.-..-..
T Consensus 263 ~~G~~~v~tP~l~~~~l~~~sGh~~~~~~~mf~~~~~~~----------------------------------------- 301 (614)
T PLN02837 263 EHGYDLLYTPHVAKADLWKTSGHLDFYKENMYDQMDIED----------------------------------------- 301 (614)
T ss_pred HCCCEEEECCccCCHHHHhhcCCcccchhhcccccCCCC-----------------------------------------
Confidence 468999999999999999999999999999995321000
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAF 164 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~f 164 (310)
..|.++ |=.+-++...|++..+||| +||++++|+|+||
T Consensus 302 --------~~y~l~---------------------------------p~~~p~~~~~~~~~~~Syr-dLPlr~~~~~~~~ 339 (614)
T PLN02837 302 --------ELYQLR---------------------------------PMNCPYHILVYKRKLHSYR-DLPIRVAELGTVY 339 (614)
T ss_pred --------ceEEEC---------------------------------CCCcHHHHHHHhCccCChh-HCCHhhEeecccc
Confidence 113333 3333357778999999999 9999999999999
Q ss_pred ccccCC-CCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHHH
Q 041441 165 RNEISP-RQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYF 243 (310)
Q Consensus 165 RNEiSp-r~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~ 243 (310)
|+|+|| ++||+|||||+|+|+|+||+|+|. ..++..+.++...+|..+ |.....+.+++.+++.+++++.|+.+
T Consensus 340 R~E~~g~~~GL~RvreF~~~e~h~f~~~~q~-~~e~~~~l~~~~~~~~~l----g~~~~~~~~~t~~~~~~g~~~~w~~~ 414 (614)
T PLN02837 340 RYELSGSLHGLFRVRGFTQDDAHIFCLEDQI-KDEIRGVLDLTEEILKQF----GFSKYEINLSTRPEKSVGSDDIWEKA 414 (614)
T ss_pred cCCCCCCCcCcccccceEECeEEEEeCHHHH-HHHHHHHHHHHHHHHHHc----CCCeEEEEecCCchhccCCHHHHHHH
Confidence 999997 999999999999999999999997 689999999999998763 45556777777788888888999999
Q ss_pred HHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCCCeEEEee
Q 041441 244 IGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYGWIECVG 294 (310)
Q Consensus 244 ~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~Gw~E~~g 294 (310)
...+.++|.+.|+++ ...+|++|||||| +|+.+.+..|....+|
T Consensus 415 ~~~l~~~l~~~~~~~------~~~~g~~afygpk-id~~~~d~~gr~~q~~ 458 (614)
T PLN02837 415 TTALRDALDDKGWEY------KVDEGGGAFYGPK-IDLKIEDALGRKWQCS 458 (614)
T ss_pred HHHHHHHHHHcCCCc------eeCCCcccccCcc-eeeEeeccCCceeeec
Confidence 999999999999997 7889999999999 7999999988776554
No 15
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=99.96 E-value=5.3e-30 Score=264.88 Aligned_cols=193 Identities=21% Similarity=0.287 Sum_probs=169.4
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
+.|+.+|.||+|.+.++|+.|||++.|.+-|+.- +
T Consensus 290 ~~G~~~v~tP~l~~~~l~~~sG~~~~~~~emy~~-d-------------------------------------------- 324 (639)
T PRK12444 290 EYNYQEVRTPFMMNQELWERSGHWDHYKDNMYFS-E-------------------------------------------- 324 (639)
T ss_pred HcCCEEEECCccCCHHHHhhcCChhhhhhhcCee-c--------------------------------------------
Confidence 5699999999999999999999999998877721 0
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAF 164 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~f 164 (310)
-|+ ..-+|||++..++...|++.+.||+ +||++++|+|+||
T Consensus 325 -----------------~~~---------------------~~~~LrP~~~~~~~~~~~~~~~sy~-~LP~r~~~~g~~f 365 (639)
T PRK12444 325 -----------------VDN---------------------KSFALKPMNCPGHMLMFKNKLHSYR-ELPIRMCEFGQVH 365 (639)
T ss_pred -----------------CCC---------------------cEEEEccCCCHHHHHHHhCcccChh-hCCceeEEecccc
Confidence 001 2456999999999999999999999 7999999999999
Q ss_pred ccccCC-CCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHHH
Q 041441 165 RNEISP-RQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYF 243 (310)
Q Consensus 165 RNEiSp-r~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~ 243 (310)
|+|.|| ++||+|+|||+|.|+|+||+|+|. ..++..+.++...+|..+ |. ++.+.+++++++.+++++.|+.|
T Consensus 366 R~E~~~~~~Gl~R~reF~q~d~~~f~~~~~~-~~e~~~~~~~~~~i~~~l----gl-~~~~~~~~r~~~~~G~~e~~~~~ 439 (639)
T PRK12444 366 RHEFSGALNGLLRVRTFCQDDAHLFVTPDQI-EDEIKSVMAQIDYVYKTF----GF-EYEVELSTRPEDSMGDDELWEQA 439 (639)
T ss_pred CCCCCcCCcCcceeeeeEEccEEEECCHHHH-HHHHHHHHHHHHHHHHHc----CC-cEEEEEECCccccCCCHHHHHHH
Confidence 999998 999999999999999999999996 688889999999999775 33 46788888888999999999999
Q ss_pred HHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCCCeEEEee
Q 041441 244 IGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYGWIECVG 294 (310)
Q Consensus 244 ~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~Gw~E~~g 294 (310)
...+.++|..+|+++ .+.++++|||||+ ||+.+.+..|....+|
T Consensus 440 ~~~l~~~l~~~~~~y------~~~~~~ga~Y~~~-~e~~~~~~~~~~~~~~ 483 (639)
T PRK12444 440 EASLENVLQSLNYKY------RLNEGDGAFYGPK-IDFHIKDALNRSHQCG 483 (639)
T ss_pred HHHHHHHHHHcCCCc------eeccCCcccccce-EEEEeecCCCChhccc
Confidence 999999999999997 8899999999998 9999988777655443
No 16
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=99.95 E-value=1.5e-28 Score=253.43 Aligned_cols=198 Identities=14% Similarity=0.175 Sum_probs=162.1
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
+.|+.+|.||+|.+..+|+.|||+++|.|-|+.-..+
T Consensus 243 ~~G~~~V~tP~~~~~~~~~~sgh~~~f~e~my~v~~~------------------------------------------- 279 (613)
T PRK03991 243 ELGAMPVETPIMYDLSHPAIREHADKFGERQYRVKSD------------------------------------------- 279 (613)
T ss_pred HCCCEEEECCeecChhHHhhcccccccchhceEecCC-------------------------------------------
Confidence 5689999999999999999999999999988732110
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccc-c
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQ-A 163 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk-~ 163 (310)
+...||||.+++|+|..|++...||| +||++++|+|+ |
T Consensus 280 ----------------------------------------~e~l~Lrp~~c~~~~~~~~~~~~Syr-dLPlr~~e~~~~~ 318 (613)
T PRK03991 280 ----------------------------------------KKDLMLRFAACFGQFLMLKDMTISYK-NLPLKMYELSTYS 318 (613)
T ss_pred ----------------------------------------CceEEEecCCCHHHHHHHhCCcCchh-hCChhhheecchh
Confidence 12479999999999999999999999 89999999999 9
Q ss_pred cccccCC-CCccccccccccccceeeeCC-CCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHH
Q 041441 164 FRNEISP-RQGFSRVREFTLAEIEHFVDP-KDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIG 241 (310)
Q Consensus 164 fRNEiSp-r~GL~RvREFtQ~E~e~F~~P-~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~ 241 (310)
||||.|| .+||+|||+|||+|+|+||+| +|. .+++..+.++...+|..+ |.+ +.+.++. ..+.|+
T Consensus 319 fR~E~~g~l~GL~RvReF~~~D~h~f~~~~eqa-~~e~~~~l~~~~~i~~~l----Gl~-~~~~~~~-------t~df~~ 385 (613)
T PRK03991 319 FRLEQRGELVGLKRLRAFTMPDMHTLCKDMEQA-MEEFEKQYEMILETGEDL----GRD-YEVAIRF-------TEDFYE 385 (613)
T ss_pred eeCCCCCCCcCcccccceEeeeEEEEECCHHHH-HHHHHHHHHHHHHHHHHc----CCC-eEEEecC-------HHHHhh
Confidence 9999999 699999999999999999996 887 689999999999999874 333 3333322 146676
Q ss_pred HHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCCCeEEEeehccCc-chhhhhhhc
Q 041441 242 YFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYGWIECVGIADRS-AYDLRAHTV 308 (310)
Q Consensus 242 y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~Gw~E~~gia~R~-~yDL~~H~~ 308 (310)
...+.+.+++..+|+++ ..+..++++|||||+ +|+.+.+++|.. ++.+| .+|++.|+.
T Consensus 386 ~~~~~l~~~l~~~g~~~----~~~~~~g~~~~yg~k-ie~~~~d~~gr~----~q~~T~qld~~~~~~ 444 (613)
T PRK03991 386 ENKDWIVELVKREGKPV----LLEILPERKHYWVLK-VEFAFIDSLGRP----IENPTVQIDVENAER 444 (613)
T ss_pred hHHHHHHHHHHHcCCCE----EecccCCccccCcCc-EEEEEeCCCCCE----EEEeeeecCcccchh
Confidence 66777899999999996 123368999999999 999999999853 44445 666665543
No 17
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=99.95 E-value=5.2e-28 Score=246.85 Aligned_cols=195 Identities=21% Similarity=0.297 Sum_probs=164.2
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
+.|+.+|.||+|.+.+||++|||++.|.+.|+.-..
T Consensus 222 ~~Gy~ev~tP~le~~~l~~~sg~~~~~~~~my~~~d-------------------------------------------- 257 (575)
T PRK12305 222 KRGYEFVYTPHIGKSDLWKTSGHLDNYKENMFPPME-------------------------------------------- 257 (575)
T ss_pred HcCCEEEECCccCCHHHHhhcCCcccchhhcccccc--------------------------------------------
Confidence 679999999999999999999999999998883110
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAF 164 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~f 164 (310)
.++ ...+|||+|++++...|++...+|+ +||++++|+|+||
T Consensus 258 -----------------~~~---------------------~~~~LRP~~~~~~~~~~~~~~~s~~-~lP~r~~~~g~~f 298 (575)
T PRK12305 258 -----------------IDE---------------------EEYYLKPMNCPGHILIYKSRLRSYR-DLPLRLAEFGTVY 298 (575)
T ss_pred -----------------cCC---------------------ceEEEecCCCHHHHHHHhcccCChh-hCCHhhEEecccc
Confidence 011 2578999999999999999988998 7999999999999
Q ss_pred ccccCC-CCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccC-hHHHHH
Q 041441 165 RNEISP-RQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVN-NETIGY 242 (310)
Q Consensus 165 RNEiSp-r~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~-~e~~~y 242 (310)
|+|.++ ++||.|+|||+|+|+|+||+|++. .+++.++.++...+|..+ |...+.+.+++++.+++++ ++.|+.
T Consensus 299 R~E~~~~~~Gl~R~reF~q~~~~if~~~~~~-~~e~~e~i~l~~~~~~~l----gl~~~~i~l~~r~~~~~~g~~~~~~~ 373 (575)
T PRK12305 299 RYEKSGVLHGLTRVRGFTQDDAHIFCTPDQI-EDEILKVLDFVLELLKDF----GFKDYYLELSTREPEKYVGDDEVWEK 373 (575)
T ss_pred cCCCCCCCcCcccccCeEEcceEEEeCHHHH-HHHHHHHHHHHHHHHHHc----CCCeEEEEEeCCChhhccCCHHHHHH
Confidence 999995 999999999999999999999997 578899999999999875 3343555555554255544 488988
Q ss_pred HHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCCCeEEEee
Q 041441 243 FIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYGWIECVG 294 (310)
Q Consensus 243 ~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~Gw~E~~g 294 (310)
+...+...|...|+++ +..++++|||||+ +|+++.+..|-...+|
T Consensus 374 ~~~~l~~~l~~~g~~~------~~~~~~~~~y~~~-~~~~~~d~~g~~~~~~ 418 (575)
T PRK12305 374 ATEALREALEELGLEY------VEDPGGAAFYGPK-IDVQIKDALGREWQMS 418 (575)
T ss_pred HHHHHHHHHHhcCCCc------EecCCCccccccc-EEEEeeccCCCceecc
Confidence 8999999999999998 7899999999999 9999998887654444
No 18
>TIGR00418 thrS threonyl-tRNA synthetase. This model represents the threonyl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. Note that B. subtilis has closely related isozymes thrS and thrZ. The N-terminal regions are quite dissimilar between archaeal and eubacterial forms, while some eukaryotic forms are missing sequence there altogether..
Probab=99.95 E-value=1e-27 Score=243.91 Aligned_cols=205 Identities=21% Similarity=0.276 Sum_probs=172.8
Q ss_pred ecCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCC
Q 041441 4 LKENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDL 83 (310)
Q Consensus 4 ~~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (310)
.+.|+.+|.||+|.+.++|+.|||++.|.+-|+.=.+
T Consensus 215 ~~~G~~ev~tP~l~~~~l~~~sg~~~~~~~emy~~~d------------------------------------------- 251 (563)
T TIGR00418 215 IKYGYMEVETPIMYDLELWEISGHWDNYKERMFPFTE------------------------------------------- 251 (563)
T ss_pred HHcCCEEEECCccCCHHHHHhcCCcccchhhcceecc-------------------------------------------
Confidence 3679999999999999999999999999998873111
Q ss_pred CHHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccc
Q 041441 84 SVEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQA 163 (310)
Q Consensus 84 ~~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~ 163 (310)
.++ ...+||||++++++..|.+...+|+ +||++++|+|++
T Consensus 252 ------------------~~~---------------------~~~~LrP~~~~~i~~~~~~~~~s~~-~lP~rl~~~g~~ 291 (563)
T TIGR00418 252 ------------------LDN---------------------REFMLKPMNCPGHFLIFKSSLRSYR-DLPLRIAELGYS 291 (563)
T ss_pred ------------------CCC---------------------ceEEEecCCCHHHHHHHhCcCCChH-HCCceeeEeccc
Confidence 011 3578999999999999999988998 899999999999
Q ss_pred cccccCC-CCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccc--eEEEecccccccccChHHH
Q 041441 164 FRNEISP-RQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSA--KKIRLGEAVSRGIVNNETI 240 (310)
Q Consensus 164 fRNEiSp-r~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~--~~~s~~~a~~~~~i~~e~~ 240 (310)
||+|.+| ++||+|+|||+|.|+|+||.|++. ..++..+.++...+|..+ |... +.++.++ +++.+..+..|
T Consensus 292 fR~E~~g~~~Gl~R~reF~q~~~~~~~~~~~~-~~e~~~~i~~~~~~~~~l----gl~~~~~~l~~~~-~~~~~~~~~~~ 365 (563)
T TIGR00418 292 HRYEQSGELHGLMRVRGFTQDDAHIFCTEDQI-KEEFKNQFRLIQKVYSDF----GFSFDKYELSTRD-PEDFIGEDELW 365 (563)
T ss_pred cCCCCCcCCcCcccccceEEeeeEEEcCHHHH-HHHHHHHHHHHHHHHHHc----CCCeEEEEEeCCC-hhhhcCCHHHH
Confidence 9999999 899999999999999999998886 578889999999999774 3343 4455433 34567777889
Q ss_pred HHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCCCe-EEEee----hccCcchhhh
Q 041441 241 GYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYGW-IECVG----IADRSAYDLR 304 (310)
Q Consensus 241 ~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~Gw-~E~~g----ia~R~~yDL~ 304 (310)
+.+.+.+..+|.++|+++ ++.++++|+|+++ +|+++.+..|. .+|.+ +...+.||+.
T Consensus 366 ~~~~~~~~~~l~~~~i~~------~~~~~~g~~y~~~-~~f~~~~~lg~~~~~~t~q~~~~~g~ryd~~ 427 (563)
T TIGR00418 366 EKAEAALEEALKELGVPY------EIDPGRGAFYGPK-IDFAFKDALGREWQCATVQLDFELPERFDLT 427 (563)
T ss_pred HHHHHHHHHHHHhCCCce------EEcCCCcceecce-EEEEeecCCCCceeeceeeeccCCHhhcCCE
Confidence 999999999999999997 7888999999998 99999888774 44444 6788999986
No 19
>cd00670 Gly_His_Pro_Ser_Thr_tRS_core Gly_His_Pro_Ser_Thr_tRNA synthetase class II core domain. This domain is the core catalytic domain of tRNA synthetases of the subgroup containing glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases. It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. These enzymes belong to class II aminoacyl-tRNA synthetases (aaRS) based upon their structure and the presence of three characteristic sequence motifs in the core domain. This domain is also found at the C-terminus of eukaryotic GCN2 protein kinase and at the N-terminus of the ATP phosphoribosyltransferase accessory subunit, HisZ and the accessory subunit of mitochondrial polymerase gamma (Pol gamma b) . Most class II tRNA synthetases are dimers, with this subgroup consisting of mostly homodimers. These enzymes attach a specific amino acid to the 3' OH group of ribose of the appropriate tRNA.
Probab=99.94 E-value=1.2e-27 Score=215.78 Aligned_cols=189 Identities=21% Similarity=0.218 Sum_probs=146.7
Q ss_pred ecCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCC
Q 041441 4 LKENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDL 83 (310)
Q Consensus 4 ~~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (310)
.+.|+.+|++|+|.+.+||++|||++.|.+.|+.+..++..
T Consensus 17 ~~~G~~ei~~P~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------------------------------------- 57 (235)
T cd00670 17 AEYGYQEILFPFLAPTVLFFKGGHLDGYRKEMYTFEDKGRE--------------------------------------- 57 (235)
T ss_pred HHcCCEEEECCeEcCHHHHhhcCCcccchhhcCeeccCccc---------------------------------------
Confidence 36789999999999999999999999999999987664410
Q ss_pred CHHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccc
Q 041441 84 SVEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQA 163 (310)
Q Consensus 84 ~~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~ 163 (310)
..+...+|||+++++++..|++...+|+ +||++++|+|+|
T Consensus 58 ---------------------------------------~~~~~~~LrP~~~~~i~~~~~~~~~~~~-~lP~r~~~~g~~ 97 (235)
T cd00670 58 ---------------------------------------LRDTDLVLRPAACEPIYQIFSGEILSYR-ALPLRLDQIGPC 97 (235)
T ss_pred ---------------------------------------ccCCeEEEecCCCHHHHHHHhccCccch-hcCeeeeeeccc
Confidence 0123579999999999999999888886 899999999999
Q ss_pred cccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHHH
Q 041441 164 FRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYF 243 (310)
Q Consensus 164 fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~ 243 (310)
||+|.++++|+.|+|||+|.|+|+|++|++. .+.+.++.++...++... +. ++.+.++++...+..++
T Consensus 98 fR~E~~~~~gl~R~reF~q~e~~~~~~~~~~-~~~~~e~~~~~~~~l~~l----gl-~~~i~~~~~~~~~~~~~------ 165 (235)
T cd00670 98 FRHEPSGRRGLMRVREFRQVEYVVFGEPEEA-EEERREWLELAEEIAREL----GL-PVRVVVADDPFFGRGGK------ 165 (235)
T ss_pred ccCCCCCCCCChhheeeeeceEEEEcCHHHH-HHHHHHHHHHHHHHHHHc----CC-cEEEEEccChhhccCCc------
Confidence 9999999999999999999999999999865 344445555555544432 11 24444443333332222
Q ss_pred HHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCC--CeEEEeehccCcchhhhhhhc
Q 041441 244 IGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSY--GWIECVGIADRSAYDLRAHTV 308 (310)
Q Consensus 244 ~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~--Gw~E~~gia~R~~yDL~~H~~ 308 (310)
+ +.|+|+..++|+++.++. +|.++.+++.++++|+..|..
T Consensus 166 ------------------------~-~~~~~~~~~~d~e~~~~~~g~~~~i~~~~~~~~~~~~~~~~ 207 (235)
T cd00670 166 ------------------------R-GLDAGRETVVEFELLLPLPGRAKETAVGSANVHLDHFGASF 207 (235)
T ss_pred ------------------------c-ccccccCCceEEEEEecCCCCceeeeEEEeecchhhhhccE
Confidence 2 334566666999999998 899999999999999987753
No 20
>cd00770 SerRS_core Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. SerRS synthetase is a homodimer.
Probab=99.94 E-value=6.3e-27 Score=222.12 Aligned_cols=171 Identities=21% Similarity=0.303 Sum_probs=147.2
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
+.|+.+|.+|.|.|.++|++|||++.|.|-|+.-..
T Consensus 68 ~~G~~ev~~P~l~~~~l~~~sg~~~~~~~~~f~v~~-------------------------------------------- 103 (297)
T cd00770 68 KRGFTPVIPPFLVRKEVMEGTGQLPKFDEQLYKVEG-------------------------------------------- 103 (297)
T ss_pred HCCCEEEECcccccHHHHhhcCcCccChhcccEecC--------------------------------------------
Confidence 568999999999999999999999999998874211
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAF 164 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~f 164 (310)
..-+|||=....+...|++...||+ +||++++|+|+||
T Consensus 104 -----------------------------------------~~~~L~pt~e~~~~~l~~~~~~s~~-~LPlr~~~~~~~f 141 (297)
T cd00770 104 -----------------------------------------EDLYLIATAEVPLAALHRDEILEEE-ELPLKYAGYSPCF 141 (297)
T ss_pred -----------------------------------------CCEEEeecCCHHHHHHHhcccCCHh-hCCchheecChhH
Confidence 0234555555567777888888998 8999999999999
Q ss_pred ccccCCC----CccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHH
Q 041441 165 RNEISPR----QGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETI 240 (310)
Q Consensus 165 RNEiSpr----~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~ 240 (310)
|+|++|+ +||+|+|||+|.|+++||+|+|. .+++
T Consensus 142 R~E~~~~g~~~~GL~R~reF~~~e~~~f~~~e~~------------------------------------------~~~~ 179 (297)
T cd00770 142 RKEAGSAGRDTRGLFRVHQFEKVEQFVFTKPEES------------------------------------------WEEL 179 (297)
T ss_pred hCccccCCCCCCCceEEEeeeeeeEEEEECchHH------------------------------------------HHHH
Confidence 9999975 99999999999999999999775 3455
Q ss_pred HHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCC--CeEEEeehccCcchhhhhh
Q 041441 241 GYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSY--GWIECVGIADRSAYDLRAH 306 (310)
Q Consensus 241 ~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~--Gw~E~~gia~R~~yDL~~H 306 (310)
+.++.....+++++|+++ |......+|+++++.+++|+|+..|. +|.|+.+|+++|||++++|
T Consensus 180 ~~~l~~~~~i~~~lgl~~---~~~~~~~~dl~~~~~~~~d~e~~~p~~~~~~e~~s~s~~~d~~s~r~ 244 (297)
T cd00770 180 EELISNAEEILQELGLPY---RVVNICTGDLGFAAAKKYDIEAWMPGQGKYREISSCSNCTDFQARRL 244 (297)
T ss_pred HHHHHHHHHHHHHcCCcE---EEEEccCccccCchhhheeeheecCCCCCeEEEEEccCccChhhhhc
Confidence 667777888999999994 77888899999999999999998875 7999999999999999887
No 21
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=99.91 E-value=3.3e-24 Score=221.07 Aligned_cols=193 Identities=21% Similarity=0.295 Sum_probs=163.1
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
+-|+.+|+||+|.+.++|+.|||++.|.+.|+.-.+.
T Consensus 286 ~~Gy~ei~tP~le~~~l~~~~g~~~~~~~~my~~~d~------------------------------------------- 322 (638)
T PRK00413 286 KAGYQEVKTPQILDRELWETSGHWDHYRENMFPTTES------------------------------------------- 322 (638)
T ss_pred HCCCEEEECCeeCCHHHHHhcCChhhhhhccceeecC-------------------------------------------
Confidence 5799999999999999999999999999988842211
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAF 164 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~f 164 (310)
++ ..-.|||+|++++...|.+..++|+ +||++++++|.||
T Consensus 323 ------------------~~---------------------~~~~LRP~~~~~~~r~~~~~~~s~~-~lP~r~~~~g~~f 362 (638)
T PRK00413 323 ------------------DG---------------------EEYALKPMNCPGHVQIYKQGLRSYR-DLPLRLAEFGTVH 362 (638)
T ss_pred ------------------CC---------------------cEEEEecCCcHHHHHHHhCcCCChh-hCCceeeeccCee
Confidence 11 2578999999999989999888888 7999999999999
Q ss_pred ccccCC-CCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHHH
Q 041441 165 RNEISP-RQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYF 243 (310)
Q Consensus 165 RNEiSp-r~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~ 243 (310)
|+|.++ ++||.|+|||+|.|+|+||.+++. .+++.++.++...+|..+ |.+.+.+.+++++.+.++.++.|+.+
T Consensus 363 R~E~~~~~~Gl~R~reF~q~~~~~~g~~~~~-~~e~~eii~l~~~~~~~l----g~~~~~i~l~~r~~~~~g~~~~~~~~ 437 (638)
T PRK00413 363 RYEPSGALHGLMRVRGFTQDDAHIFCTPEQI-EEEVKKVIDLILDVYKDF----GFEDYEVKLSTRPEKRIGSDEMWDKA 437 (638)
T ss_pred cCCCCCCCcCcceeeeeEEeeEEEEcCHHHH-HHHHHHHHHHHHHHHHHc----CCceEEEEEecCCcccCCCHHHHHHH
Confidence 999996 899999999999999999999886 467788999999888774 44556677777666666677889999
Q ss_pred HHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCCCeEEE
Q 041441 244 IGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYGWIEC 292 (310)
Q Consensus 244 ~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~Gw~E~ 292 (310)
...+.+.|.+.|+++ +..+++.|+|||+ +|+.+.+..|-...
T Consensus 438 ~~~l~~~l~~~g~~~------~~~~~~~~~~~~~-~~~~~~~~~~~~~~ 479 (638)
T PRK00413 438 EAALKEALDELGLDY------EIAPGEGAFYGPK-IDFQLKDALGREWQ 479 (638)
T ss_pred HHHHHHHHHHcCCCc------eecCCccccccce-EEEEeecCCCCeEE
Confidence 999999999999997 5578999999998 78888777765443
No 22
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=99.90 E-value=6e-24 Score=210.68 Aligned_cols=171 Identities=19% Similarity=0.316 Sum_probs=143.3
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
+.|+.+|-+|.|.+..+|++|||+.+|.+-|+....
T Consensus 189 ~~G~~~v~~P~lv~~~~~~~~G~~~~f~~~~y~i~~-------------------------------------------- 224 (418)
T TIGR00414 189 KNGYQEIYPPYLVNEESLDGTGQLPKFEEDIFKLED-------------------------------------------- 224 (418)
T ss_pred HcCCEEEeCCccccHHHHhhcCccccccccceEecC--------------------------------------------
Confidence 568999999999999999999999999998884211
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAF 164 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~f 164 (310)
. .-||+|=.-..+...|++...+|+ +||++++|+|+||
T Consensus 225 -------------------~----------------------~~~L~pTsE~~~~~~~~~~i~s~~-~LPlr~~~~s~~F 262 (418)
T TIGR00414 225 -------------------T----------------------DLYLIPTAEVPLTNLHRNEILEEE-ELPIKYTAHSPCF 262 (418)
T ss_pred -------------------C----------------------CEEEEeCCcHHHHHHHhCcCCChH-hCCeeEEEEcccc
Confidence 0 125555333445556888888898 8999999999999
Q ss_pred ccccCCC----CccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHH
Q 041441 165 RNEISPR----QGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETI 240 (310)
Q Consensus 165 RNEiSpr----~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~ 240 (310)
|+|++|+ +||+|||||+|.|+++||+|++. .+++
T Consensus 263 R~E~g~~G~~t~GL~Rv~qF~k~E~~~f~~~e~s------------------------------------------~~~~ 300 (418)
T TIGR00414 263 RSEAGSYGKDTKGLIRVHQFNKVELVKFCKPEES------------------------------------------AEEL 300 (418)
T ss_pred cCCCCccCCCCCccccccceeeeeEEEEcCHHHH------------------------------------------HHHH
Confidence 9999863 69999999999999999999875 2445
Q ss_pred HHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCC--CeEEEeehccCcchhhhhh
Q 041441 241 GYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSY--GWIECVGIADRSAYDLRAH 306 (310)
Q Consensus 241 ~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~--Gw~E~~gia~R~~yDL~~H 306 (310)
+..+.....+++++|||+ |......+|+.+++.+++|+|+.+|. +|.|+.++++.+||+.+++
T Consensus 301 ~~~~~~~~~i~~~Lglp~---r~v~~~t~dlg~~a~~~ydiE~w~p~~~~~~ev~s~sn~~d~qsrr~ 365 (418)
T TIGR00414 301 EEMTSDAEQILQELELPY---RVVNLCSGDLGFSAAKKYDLEVWMPGQNTYREISSCSNCTDFQARRL 365 (418)
T ss_pred HHHHHHHHHHHHHcCCce---EEEecCccccccCHhhhhhHHHhCCCcCceEEEEEEcCcchHhHHhC
Confidence 566677788999999995 55567889999999999999999887 8999999999999998876
No 23
>cd00778 ProRS_core_arch_euk Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. This subfamily contains the core domain of ProRS from archaea, the cytoplasm of eukaryotes and some bacteria.
Probab=99.89 E-value=2.3e-23 Score=194.20 Aligned_cols=172 Identities=19% Similarity=0.164 Sum_probs=136.6
Q ss_pred cCCeEEeecCccCChhhh-hhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCC
Q 041441 5 KENMLEVRSPCVTPEVVL-KASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDL 83 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~-~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (310)
+-|+.+|.+|+|.+.++| +.|||+++|.|.|+..++.+..
T Consensus 48 ~~G~~ev~~P~l~~~~~~~~~sg~~~~f~~~~f~~~~~~~~--------------------------------------- 88 (261)
T cd00778 48 ETGHENVYFPLLIPESELEKEKEHIEGFAPEVAWVTHGGLE--------------------------------------- 88 (261)
T ss_pred HcCCEEEECCccccHHHhhhhhcchhhcCcceEEEEecCCc---------------------------------------
Confidence 568999999999999998 5799999999999976654310
Q ss_pred CHHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccc
Q 041441 84 SVEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQA 163 (310)
Q Consensus 84 ~~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~ 163 (310)
..+..-+|||....++...|++...||| +||++++|+|+|
T Consensus 89 ---------------------------------------~~~~~~~L~Pt~e~~~~~~~~~~i~s~r-~LPlr~~~~~~~ 128 (261)
T cd00778 89 ---------------------------------------ELEEPLALRPTSETAIYPMFSKWIRSYR-DLPLKINQWVNV 128 (261)
T ss_pred ---------------------------------------ccCCcEEEcCCCCHHHHHHHHhhccchh-hcCHHHHhhhhh
Confidence 0012478999999999999999999997 799999999999
Q ss_pred cccccCCCCccccccccccccce-eeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHH
Q 041441 164 FRNEISPRQGFSRVREFTLAEIE-HFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGY 242 (310)
Q Consensus 164 fRNEiSpr~GL~RvREFtQ~E~e-~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y 242 (310)
||+|.+|++||+|+|||+|.|+| +||+|+|. ..++. .
T Consensus 129 fR~E~~~~~Gl~R~reF~~~d~h~~~~~~e~~-~~~~~-----------------------------------------~ 166 (261)
T cd00778 129 FRWETKTTRPFLRTREFLWQEGHTAHATEEEA-EEEVL-----------------------------------------Q 166 (261)
T ss_pred ccCCCCCCCceeEeeeeeeeceeeccCCHHHH-HHHHH-----------------------------------------H
Confidence 99999999999999999999999 59999886 23322 2
Q ss_pred HHHHHHHHHHHc-CCCCCCCceeeccCCccccccCceeeEEEEcCCC-eEEEeehccCcc
Q 041441 243 FIGRVYLFLSRL-GIDQDHLRFRQHLANEMAHYAADCWDAEIECSYG-WIECVGIADRSA 300 (310)
Q Consensus 243 ~~~~~~~~l~~~-Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~G-w~E~~gia~R~~ 300 (310)
-......+++++ |+|+ |.-....+|+.+-+.+|||+++..|.| +.||..+.+-++
T Consensus 167 ~~~~~~~i~~~llgl~~---~~~~~~~~d~~~~a~~~~~ie~~~p~~~~~ev~s~~~l~~ 223 (261)
T cd00778 167 ILDLYKEFYEDLLAIPV---VKGRKTEWEKFAGADYTYTIEAMMPDGRALQSGTSHNLGQ 223 (261)
T ss_pred HHHHHHHHHHHhCCCeE---EEecCCccccCCCCccceEEEEEeeCCCEEEEEecccccc
Confidence 234455677777 9984 444455678888888999999998886 456666655444
No 24
>cd00779 ProRS_core_prok Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. This subfamily contains the core domain of ProRS from prokaryotes and from the mitochondria of eukaryotes.
Probab=99.88 E-value=1.5e-22 Score=188.13 Aligned_cols=170 Identities=19% Similarity=0.189 Sum_probs=137.1
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
+.|+.+|.+|+|.+.++|+.|||++.|.|.|+.+.+.+
T Consensus 47 ~~G~~ei~~P~l~~~~~~~~sg~~~~~~~emy~~~d~~------------------------------------------ 84 (255)
T cd00779 47 KIGAQEILMPILQPAELWKESGRWDAYGPELLRLKDRH------------------------------------------ 84 (255)
T ss_pred HcCCEEEECCccCCHHHHHhcCCccccCcccEEEecCC------------------------------------------
Confidence 45899999999999999999999999999999754422
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAF 164 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~f 164 (310)
+ ..-+|||+.-..+..-+++.+.+++ +||++++|+|+||
T Consensus 85 -------------------~---------------------~~l~LrPt~e~~~t~~~~~~i~s~~-~LPlr~~~~~~~F 123 (255)
T cd00779 85 -------------------G---------------------KEFLLGPTHEEVITDLVANEIKSYK-QLPLNLYQIQTKF 123 (255)
T ss_pred -------------------C---------------------CeEEEecCCcHHHHHHHHhccccHh-hCCHHHHhCccee
Confidence 1 1357888877778878888888887 8999999999999
Q ss_pred ccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHHHH
Q 041441 165 RNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYFI 244 (310)
Q Consensus 165 RNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~~ 244 (310)
|+|.+|+.||+|+|||+|.|+|+||.|+.. +++.++...
T Consensus 124 R~E~~~~~Gl~R~reF~q~e~~~~~~~~~~-----------------------------------------a~~~~~~i~ 162 (255)
T cd00779 124 RDEIRPRFGLMRGREFLMKDAYSFDIDEES-----------------------------------------LEETYEKMY 162 (255)
T ss_pred cCCCCCCCceeeeeeEeHhhheeccCCHHH-----------------------------------------HHHHHHHHH
Confidence 999999999999999999999999997532 123344455
Q ss_pred HHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCC-CeEEEeehccCcch
Q 041441 245 GRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSY-GWIECVGIADRSAY 301 (310)
Q Consensus 245 ~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~-Gw~E~~gia~R~~y 301 (310)
.....+|+++||++ +...-..|.+.....+++|+|...|- ++.|+..+.+=|||
T Consensus 163 ~~~~~il~~Lgl~~---~~~~~~~~~~gg~~s~~~~~e~~~~~~~~~e~~s~~~lg~~ 217 (255)
T cd00779 163 QAYSRIFKRLGLPF---VKVEADSGAIGGSLSHEFHVLSPLKITKGIEVGHIFQLGTK 217 (255)
T ss_pred HHHHHHHHHcCCcE---EEEEecCCCCCCcccEEEEEEEecCCCCeEEEEeeeecchh
Confidence 56678899999975 22223468888878888999988754 68899888887765
No 25
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=99.86 E-value=4.3e-22 Score=200.28 Aligned_cols=173 Identities=19% Similarity=0.147 Sum_probs=137.7
Q ss_pred cCCeEEeecCccCChhhhh-hcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCC
Q 041441 5 KENMLEVRSPCVTPEVVLK-ASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDL 83 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~-aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (310)
+.|+.+|.+|+|.|.++|+ .|||++.|.+.|+..++++..
T Consensus 60 ~~G~~ev~~P~l~~~~~~~~~~~h~~~f~~e~~~v~~~~~~--------------------------------------- 100 (477)
T PRK08661 60 ETGHENVYFPLLIPESLLEKEKEHVEGFAPEVAWVTHGGGE--------------------------------------- 100 (477)
T ss_pred HcCCEEEECCccCCHHHHhhhcCchhhcccccEEEEccCCC---------------------------------------
Confidence 5689999999999999995 499999999999977665410
Q ss_pred CHHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccc
Q 041441 84 SVEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQA 163 (310)
Q Consensus 84 ~~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~ 163 (310)
. .+...+|||...++|+..|++.+.||| +||++++|+|+|
T Consensus 101 ---------------------~------------------~~e~l~LrPtsE~~i~~~~~~~i~Syr-dLPlrl~q~~~v 140 (477)
T PRK08661 101 ---------------------K------------------LEEKLALRPTSETIIYPMYKKWIQSYR-DLPLLYNQWVNV 140 (477)
T ss_pred ---------------------c------------------cCceEEEecCCcHHHHHHHHhhhcchh-hcCHHHhcccce
Confidence 0 012578999999999999999999998 899999999999
Q ss_pred cccccCCCCcccccccccccccee-eeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHH
Q 041441 164 FRNEISPRQGFSRVREFTLAEIEH-FVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGY 242 (310)
Q Consensus 164 fRNEiSpr~GL~RvREFtQ~E~e~-F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y 242 (310)
||+|.+ .+||+|+|||+|.|+|+ ||+|+|. .. ....
T Consensus 141 fR~E~~-~rgl~R~rEF~~~E~h~~~~~~eea-~~-----------------------------------------e~~~ 177 (477)
T PRK08661 141 VRWETK-TRPFLRTREFLWQEGHTAHATEEEA-EE-----------------------------------------ETLE 177 (477)
T ss_pred eeCCCC-CCCcceeeeEEEcceeeeeCCHHHH-HH-----------------------------------------HHHH
Confidence 999999 55999999999999997 7888775 12 2233
Q ss_pred HHHHHHHHH-HHcCCCCCCCceeeccCCccccccCceeeEEEEcCCCeEEEeehccCcchhhhhh
Q 041441 243 FIGRVYLFL-SRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYGWIECVGIADRSAYDLRAH 306 (310)
Q Consensus 243 ~~~~~~~~l-~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~Gw~E~~gia~R~~yDL~~H 306 (310)
.+.....++ ..+|||. +.-.....|..+++..|||+++..+.||...+| |.++|.++
T Consensus 178 ~l~~y~~i~~~~Lglp~---~~~~~~~~ekf~ga~~~~~ie~~~~dgr~~q~g----t~~~Lg~~ 235 (477)
T PRK08661 178 MLEIYKEFFEDYLAIPV---IIGKKTEWEKFAGADYTYTIEAMMPDGKALQAG----TSHYLGQN 235 (477)
T ss_pred HHHHHHHHHHHhcCCeE---EEEecChHHhhCCCcceeEEEEEeCCCCEEEEE----Eecccccc
Confidence 444555667 7789985 333334557888899999999999999988888 44455443
No 26
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=99.86 E-value=3.1e-22 Score=198.85 Aligned_cols=171 Identities=19% Similarity=0.319 Sum_probs=145.3
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
+.|+.+|-+|.|++.++|++|||+.+|.|-|+.-. +
T Consensus 187 ~~G~~ev~~P~lv~~~~~~~~G~~~~f~~~ly~i~--~------------------------------------------ 222 (425)
T PRK05431 187 EHGYTEVIPPYLVNEESMYGTGQLPKFEEDLYKIE--D------------------------------------------ 222 (425)
T ss_pred hcCCEEEeccccccHHHHhhcCccccchhhceEec--C------------------------------------------
Confidence 56899999999999999999999999998877311 0
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAF 164 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~f 164 (310)
..-||+|=..+.+...|++...||+ +||++++|+|+||
T Consensus 223 -----------------------------------------~~~~L~pTsE~~l~~l~~~~~~s~~-dLPlr~~~~s~~f 260 (425)
T PRK05431 223 -----------------------------------------DDLYLIPTAEVPLTNLHRDEILDEE-ELPLKYTAYSPCF 260 (425)
T ss_pred -----------------------------------------CCEEEEeCCcHHHHHHHhcccCCHH-hCCeeEEEEcCEe
Confidence 1245666556677778888888999 8999999999999
Q ss_pred ccccCC----CCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHH
Q 041441 165 RNEISP----RQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETI 240 (310)
Q Consensus 165 RNEiSp----r~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~ 240 (310)
|+|++| +.||+|||||++.|+|+||+|+|. .+++
T Consensus 261 R~Eag~~g~~~~GL~Rv~qF~k~E~~~f~~~e~s------------------------------------------~~~~ 298 (425)
T PRK05431 261 RSEAGSAGRDTRGLIRVHQFDKVELVKFTKPEDS------------------------------------------YAEL 298 (425)
T ss_pred cCCCCcCCCCCCceeeeeeeeeeeEEEEECHHHH------------------------------------------HHHH
Confidence 999976 599999999999999999999774 2445
Q ss_pred HHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcC--CCeEEEeehccCcchhhhhh
Q 041441 241 GYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECS--YGWIECVGIADRSAYDLRAH 306 (310)
Q Consensus 241 ~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~--~Gw~E~~gia~R~~yDL~~H 306 (310)
+..+.....+++++|+|+ |......+++.+.+.+++|+|+..| -+|.|+..+++.+||.-.++
T Consensus 299 ~~~l~~~~~i~~~Lglpy---r~v~~~s~dlg~~a~~~~DiE~w~p~~~~~~ev~s~snc~d~qsrr~ 363 (425)
T PRK05431 299 EELTANAEEILQKLELPY---RVVLLCTGDLGFSAAKTYDLEVWLPSQNTYREISSCSNCTDFQARRA 363 (425)
T ss_pred HHHHHHHHHHHHHcCCcE---EEEEcCCcccCCchHheecHHHhCcccCCeeEEEEecCccchhhhhc
Confidence 566677788999999995 6666889999999999999999997 47999999999999986654
No 27
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=99.85 E-value=5.9e-22 Score=197.31 Aligned_cols=186 Identities=17% Similarity=0.204 Sum_probs=136.3
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
+-|+.+|.+|+|.|.++|+.|||++.|.|-|+.-++.+
T Consensus 63 ~~G~~ev~~P~l~~~~l~~~sg~~~~~~~emf~~~d~~------------------------------------------ 100 (439)
T PRK12325 63 RAGAIEILMPTIQPADLWRESGRYDAYGKEMLRIKDRH------------------------------------------ 100 (439)
T ss_pred HcCCEEEECCccccHHHHhhcCCccccchhheEEecCC------------------------------------------
Confidence 56899999999999999999999999999998432210
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAF 164 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~f 164 (310)
+ ..-+|||.....+...|++..+||| +||++++|+|++|
T Consensus 101 -------------------~---------------------~~~~L~Pt~e~~~~~~~~~~~~syr-dLPlrl~q~~~~f 139 (439)
T PRK12325 101 -------------------D---------------------REMLYGPTNEEMITDIFRSYVKSYK-DLPLNLYHIQWKF 139 (439)
T ss_pred -------------------C---------------------CEEEEcCCCcHHHHHHHHHHhhhch-hhchHheEecCEe
Confidence 1 1456888888889999999999999 7999999999999
Q ss_pred ccccCCCCccccccccccccceeeeCC-CCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccc---------
Q 041441 165 RNEISPRQGFSRVREFTLAEIEHFVDP-KDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGI--------- 234 (310)
Q Consensus 165 RNEiSpr~GL~RvREFtQ~E~e~F~~P-~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~--------- 234 (310)
|+|.+|++||+|+|||+|+|+|+||.+ ++. ..++..+.++...+|..+ +...+.+.++..+-.|-
T Consensus 140 R~E~~~~~GL~R~reF~~~D~h~f~~~~~~a-~~~~~~~~~~~~~i~~~l----gl~~~~v~~~~~~~gg~~s~ef~~~~ 214 (439)
T PRK12325 140 RDEIRPRFGVMRGREFLMKDAYSFDLDEEGA-RHSYNRMFVAYLRTFARL----GLKAIPMRADTGPIGGDLSHEFIILA 214 (439)
T ss_pred cCCCCCCCCccccceEeEeccEEEeCCHHHH-HHHHHHHHHHHHHHHHHc----CCceEEEEEccCCCCCCcceeeEeec
Confidence 999999999999999999999999765 444 567888888888877653 32322222222221110
Q ss_pred -------------------cChHHHHHHHHHHHHHHHHcCCCCCCCceeeccCCccccc-cCceeeEEEE
Q 041441 235 -------------------VNNETIGYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHY-AADCWDAEIE 284 (310)
Q Consensus 235 -------------------i~~e~~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhY-g~k~~D~e~~ 284 (310)
++.+.|+- ..+..+|.+.++.+. .....+++.||| +|+ .|++..
T Consensus 215 ~~Ge~~~~~c~~~~~~~~~~~~~~~~~--~~l~~~l~~~~~~~~---~~~~~~~~~~~~~~~~-~~~~~~ 278 (439)
T PRK12325 215 ETGESTVFYDKDFLDLLVPGEDIDFDV--ADLQPIVDEWTSLYA---ATEEMHDEAAFAAVPE-ERRLSA 278 (439)
T ss_pred CCCCceEEEcCCchhhccCCCcccCCH--HHHHHHHhhhccccc---chhhhhccCCCCcCCC-cceeec
Confidence 12233443 677778877665431 123456788999 888 566544
No 28
>TIGR00408 proS_fam_I prolyl-tRNA synthetase, family I. Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent families. This family includes the archaeal enzyme, the Pro-specific domain of a human multifunctional tRNA ligase, and the enzyme from the spirochete Borrelia burgdorferi. The other family includes enzymes from Escherichia coli, Bacillus subtilis, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae.
Probab=99.83 E-value=9.6e-21 Score=190.39 Aligned_cols=168 Identities=20% Similarity=0.192 Sum_probs=132.6
Q ss_pred cCCeEEeecCccCChhhhhh-cCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCC
Q 041441 5 KENMLEVRSPCVTPEVVLKA-SGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDL 83 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~a-SGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (310)
+-|+.+|.+|+|.|.++|+. +||++.|.+.|+.-++.|.
T Consensus 54 ~~G~~ev~~P~l~~~~~~~~~~~h~~~f~~e~f~v~~~g~---------------------------------------- 93 (472)
T TIGR00408 54 EIGHEEVYFPMLIPESELAKEKDHIKGFEPEVYWITHGGL---------------------------------------- 93 (472)
T ss_pred HcCCEEEECCccCCHHHHHhhcchhhhcchhcEEEecCCC----------------------------------------
Confidence 45899999999999999997 5699999999985443321
Q ss_pred CHHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccc
Q 041441 84 SVEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQA 163 (310)
Q Consensus 84 ~~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~ 163 (310)
.+ .+..-+|||.....|...|++...||| +||++++|+|++
T Consensus 94 --------------------~~------------------~~e~l~LrPt~e~~i~~~~~~~i~S~r-dLPlr~~q~~~v 134 (472)
T TIGR00408 94 --------------------SK------------------LDEPLALRPTSETAMYPMFKKWVKSYT-DLPLKINQWVNV 134 (472)
T ss_pred --------------------Cc------------------cCCcEEEeCCCcHHHHHHHhccccChh-hcCHHHhheeee
Confidence 00 012578999999999999999999998 999999999999
Q ss_pred cccccCCCCccccccccccccce-eeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHH
Q 041441 164 FRNEISPRQGFSRVREFTLAEIE-HFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGY 242 (310)
Q Consensus 164 fRNEiSpr~GL~RvREFtQ~E~e-~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y 242 (310)
||+|.+|++||+|+|||+|+|+| +||+|+|.. +....
T Consensus 135 fR~E~~~~~gl~R~rEF~~~e~h~~~~~~e~a~------------------------------------------~e~~~ 172 (472)
T TIGR00408 135 FRYETKHTRPFLRTREFTWQEAHTAHATAEEAE------------------------------------------EQVLR 172 (472)
T ss_pred ecCCCCCCCCcceeeeeehhhhhhhhCCHHHHH------------------------------------------HHHHH
Confidence 99999999999999999999999 799998851 23344
Q ss_pred HHHHHHHHHH-HcCCCCCCCceeeccCCccccccCceeeEEEEcCCC-eEEEeehc
Q 041441 243 FIGRVYLFLS-RLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYG-WIECVGIA 296 (310)
Q Consensus 243 ~~~~~~~~l~-~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~G-w~E~~gia 296 (310)
++.....++. .+|||.... ...+.|...++..+||+++..+.| +.|+..+.
T Consensus 173 ~l~~y~~i~~~~lglp~~~~---~~~~~ek~~ga~~~~~~e~~~~dgr~~q~~t~~ 225 (472)
T TIGR00408 173 ALDIYKEFIENSLAIPYFVG---RKPEWEKFAGAEYTWAFETIMPDGRTLQIATSH 225 (472)
T ss_pred HHHHHHHHHHhccCCeEEEE---ecCchhhcCCccceEEEeEEEcCCCEEEEeeee
Confidence 5556677786 899985332 233457777888999999998888 45555443
No 29
>PLN02678 seryl-tRNA synthetase
Probab=99.82 E-value=2.8e-20 Score=185.91 Aligned_cols=170 Identities=18% Similarity=0.261 Sum_probs=134.7
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
+.|+.+|-+|.|++.++|++|||+.+|.|-|+.....++
T Consensus 190 ~~Gy~~V~~P~lv~~~~~~~sG~~~~f~e~my~i~~~~~----------------------------------------- 228 (448)
T PLN02678 190 KRGYTPLQTPFFMRKDVMAKCAQLAQFDEELYKVTGEGD----------------------------------------- 228 (448)
T ss_pred HcCCEEEECcccccHHHHhhcCCcccchhcCceecCCCC-----------------------------------------
Confidence 569999999999999999999999999999986532211
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCch-hhHHHHHhhhhhhccCCCCceeeecccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETA-PGIFVNFKDLYYNNGNKLPFAAAQIGQA 163 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETA-Qgif~nFk~~l~s~r~kLPf~iAqiGk~ 163 (310)
..||.| || +.+.-.+.....+++ +||++++++|.|
T Consensus 229 ------------------------------------------~~yLi~-TaE~~l~~~h~~~~~s~~-eLPlr~~~~s~c 264 (448)
T PLN02678 229 ------------------------------------------DKYLIA-TSEQPLCAYHRGDWIDPK-ELPIRYAGYSTC 264 (448)
T ss_pred ------------------------------------------ceeeec-ccccccChHHhcccCCHH-hCCceeEEeccc
Confidence 012222 11 011111233455677 899999999999
Q ss_pred cccccC--C--CCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHH
Q 041441 164 FRNEIS--P--RQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNET 239 (310)
Q Consensus 164 fRNEiS--p--r~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~ 239 (310)
||+|.+ | .+||+|||+|+|.|+-.||+|++.. +.++
T Consensus 265 fR~Eags~G~~~~GL~RvhqF~KvE~f~~~~pe~~~----------------------------------------s~~~ 304 (448)
T PLN02678 265 FRKEAGSHGRDTLGIFRVHQFEKVEQFCITSPNGNE----------------------------------------SWEM 304 (448)
T ss_pred cccccccCCCcCCcceEEEEEEEEEEEEEECCCchh----------------------------------------HHHH
Confidence 999998 3 7999999999999999999998721 1345
Q ss_pred HHHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCC--CeEEEeehccCcchh
Q 041441 240 IGYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSY--GWIECVGIADRSAYD 302 (310)
Q Consensus 240 ~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~--Gw~E~~gia~R~~yD 302 (310)
++--+.....+|.++|||+ |.-....|++.+=+.+++|+|+++|- +|.||..++|=+||-
T Consensus 305 ~e~~l~~~~~i~~~L~lpy---rvv~~~sgdlg~~a~~~yDiE~W~P~~~~y~EvsS~Snc~D~Q 366 (448)
T PLN02678 305 HEEMLKNSEDFYQSLGIPY---QVVSIVSGALNDAAAKKYDLEAWFPASKTYRELVSCSNCTDYQ 366 (448)
T ss_pred HHHHHHHHHHHHHHcCCCe---EEEeecccccCCchhhceeeEeeccccCCceEEeeecccccHh
Confidence 5556667788899999995 77788999999999999999999976 899999999999985
No 30
>PLN02320 seryl-tRNA synthetase
Probab=99.80 E-value=9.1e-20 Score=183.89 Aligned_cols=109 Identities=17% Similarity=0.230 Sum_probs=96.0
Q ss_pred hccCCCCceeeecccccccccC--C--CCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceE
Q 041441 148 NNGNKLPFAAAQIGQAFRNEIS--P--RQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKK 223 (310)
Q Consensus 148 s~r~kLPf~iAqiGk~fRNEiS--p--r~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~ 223 (310)
+|+ +||++++.+|.|||+|.+ | .+||+|||+|++.|+++||+|+|. .
T Consensus 308 s~~-dLPlRy~~~s~cFR~EAgs~G~d~rGL~RvhQF~KvE~~if~~peqs-~--------------------------- 358 (502)
T PLN02320 308 LES-ALPLKYVAFSHCFRTEAGAAGAATRGLYRVHQFSKVEMFVICRPEES-E--------------------------- 358 (502)
T ss_pred CHh-hCCceeEEeccccccccccCCCcCCCceeeeeeecccEEEEECHHHH-H---------------------------
Confidence 677 899999999999999999 5 799999999999999999999986 2
Q ss_pred EEecccccccccChHHHHHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCC--CeEEEeehccCcch
Q 041441 224 IRLGEAVSRGIVNNETIGYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSY--GWIECVGIADRSAY 301 (310)
Q Consensus 224 ~s~~~a~~~~~i~~e~~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~--Gw~E~~gia~R~~y 301 (310)
+.++.-+.....+|+++||++ |......||+.|=+.+++|||+++|- .|.||..++|=+||
T Consensus 359 --------------~e~e~ll~~~e~i~~~LgLpy---rvv~l~tgDLg~~a~kkyDiEvW~P~~~~y~EvsS~SNc~Df 421 (502)
T PLN02320 359 --------------SFHEELIQIEEDLFTSLGLHF---KTLDMATADLGAPAYRKFDIEAWMPGLGRYGEISSASNCTDY 421 (502)
T ss_pred --------------HHHHHHHHHHHHHHHHcCCCe---EEEEecCCccchhhhheEEEEEEecCCCcEEEEeeecchhhH
Confidence 233344556677899999996 77788899999999999999999977 89999999999998
Q ss_pred h
Q 041441 302 D 302 (310)
Q Consensus 302 D 302 (310)
-
T Consensus 422 Q 422 (502)
T PLN02320 422 Q 422 (502)
T ss_pred h
Confidence 5
No 31
>cd00772 ProRS_core Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain.
Probab=99.78 E-value=9.3e-19 Score=163.90 Aligned_cols=127 Identities=21% Similarity=0.156 Sum_probs=99.3
Q ss_pred ceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceee-eCCCCCCccchhhhhhh
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHF-VDPKDKSHPKFSEVKNL 205 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F-~~P~q~~~~e~~~v~d~ 205 (310)
.-+|||.....+...|++...+|+ +||++++|+|.|||+|.+|+.||+|+|||+|.|+|+| |+|++.. .+
T Consensus 93 ~l~LrPt~e~~~~~~~~~~i~s~~-~LPlrl~~~~~~fR~E~r~~~Gl~R~reF~~~e~~~~~~~~e~a~-~e------- 163 (264)
T cd00772 93 DFALRPTLEENIGEIAAKFIKSWK-DLPQHLNQIGNKFRDEIRPRFGFLRAREFIMKDGHSAHADAEEAD-EE------- 163 (264)
T ss_pred eEEECCCCCHHHHHHHHhhhhhhh-ccCeeEEEEeCeEeCcCCCCCCcceeeEEEEeeeEEecCCHHHHH-HH-------
Confidence 468999999999988999888998 8999999999999999999999999999999999999 7887751 22
Q ss_pred hhhcchhhhhhccccceEEEecccccccccChHHHHHHHHHHHHHHHHcC-CCCCCCceeeccCCccccccCceeeEEEE
Q 041441 206 EFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYFIGRVYLFLSRLG-IDQDHLRFRQHLANEMAHYAADCWDAEIE 284 (310)
Q Consensus 206 ~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~~~~~~~~l~~~G-i~~~~lrfr~~~~~E~AhYg~k~~D~e~~ 284 (310)
..--+....++++++| +|+ |......+|+-+=|.++.|+|+.
T Consensus 164 ----------------------------------~~~~~~~~~~i~~~l~~lp~---~~~~~~~~d~~~g~~~~~d~e~~ 206 (264)
T cd00772 164 ----------------------------------FLNMLSAYAEIARDLAAIDF---IEGEADEGAKFAGASKSREFEAL 206 (264)
T ss_pred ----------------------------------HHHHHHHHHHHHHhcCCccE---EEEEcCCCccccCCcCCEEEEEE
Confidence 2222344567788899 775 55566667755667789999999
Q ss_pred cCCC-eEEEeehccCc
Q 041441 285 CSYG-WIECVGIADRS 299 (310)
Q Consensus 285 ~~~G-w~E~~gia~R~ 299 (310)
.|.| +.+++..++=+
T Consensus 207 ~p~~~~~~~~~~~~~~ 222 (264)
T cd00772 207 MEDGKAKQAETGHIFG 222 (264)
T ss_pred CCCCCEeEEEeeeecc
Confidence 9966 44444444433
No 32
>PRK00960 seryl-tRNA synthetase; Provisional
Probab=99.78 E-value=5.5e-19 Score=179.01 Aligned_cols=201 Identities=17% Similarity=0.196 Sum_probs=141.0
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
+.|+.+|-+|.|+|.++|++|||+++|.+.|+.....+. ..|.. ++... . +...+
T Consensus 240 k~Gyeev~~P~Li~~ell~ksGhl~~F~e~my~V~~~~~--d~e~~-~~~~~-~---------------------l~~T~ 294 (517)
T PRK00960 240 PLGFDECLFPKLIPLEVMYKMRYLEGLPEGMYYVCPPKR--DPEYF-EEFVD-E---------------------MMVKK 294 (517)
T ss_pred hcCCeEEECCcccCHHHHhhcCCccCChhhceEeecccc--ccccc-cchhh-h---------------------ccccc
Confidence 359999999999999999999999999999997643221 00100 00000 0 00000
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeee-cccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQ-IGQA 163 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAq-iGk~ 163 (310)
+- |.. .| +..+ .+....|||=++-++|..|.+...+++ +||+++++ .|.|
T Consensus 295 ---------Ev----pl~--~~----------~~~L---~~~~yvLrPa~Cp~~y~~~~~~ils~r-dLPLrl~e~sG~c 345 (517)
T PRK00960 295 ---------EV----PIE--KL----------KEKL---RDPGYVLAPAQCEPFYQFFQGETVDVD-ELPIKFFDRSGWT 345 (517)
T ss_pred ---------cc----ccc--cc----------cccc---ccccccccccCcHHHHHHHhCCcCChh-hCCHHHhhccCCc
Confidence 00 100 00 0000 112457888888999999999999999 89999999 7899
Q ss_pred cccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHHH
Q 041441 164 FRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYF 243 (310)
Q Consensus 164 fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~ 243 (310)
||+|....+||+|||+|+|.|+|+||+|+|.. +..+.+
T Consensus 346 FR~EsGs~~GL~RV~eF~kvE~h~f~tpEqs~------------------------------------------ee~e~l 383 (517)
T PRK00960 346 YRWEGGGAHGLERVNEFHRIEIVWLGTPEQVE------------------------------------------EIRDEL 383 (517)
T ss_pred eeCCCCCCCCCcccceeEEEEEEEEeCHHHHH------------------------------------------HHHHHH
Confidence 99994349999999999999999999999862 233445
Q ss_pred HHHHHHHHHHcCCC-CC-------CCceeeccCCccccccCceeeEEEEcCC-----CeEEEeehccCcch
Q 041441 244 IGRVYLFLSRLGID-QD-------HLRFRQHLANEMAHYAADCWDAEIECSY-----GWIECVGIADRSAY 301 (310)
Q Consensus 244 ~~~~~~~l~~~Gi~-~~-------~lrfr~~~~~E~AhYg~k~~D~e~~~~~-----Gw~E~~gia~R~~y 301 (310)
+.....+++++|++ +- -++-+....+++.|=|.++.|+|...|+ .|.||..+.+-+||
T Consensus 384 l~~~e~i~~~LgLp~~r~v~~DPFf~~~~k~~~~d~~f~~~~tydiE~wmP~~~~~gk~~ev~S~S~hgd~ 454 (517)
T PRK00960 384 LKYAHILAEKLDLEYWREVGDDPFYLEGRGLEDRGIEFPDVPKYEMELWLPYRGDERKWVAVTSANVHGTH 454 (517)
T ss_pred HHHHHHHHHHcCCCceEEecccccccccCccccccccCccccceeEEEEecCccCCCCEEEEEeeeeccch
Confidence 55567788999999 30 0112224455778888899999999982 58999999887765
No 33
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=99.73 E-value=1.7e-17 Score=170.04 Aligned_cols=164 Identities=22% Similarity=0.253 Sum_probs=125.9
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
+-|+.+|.+|+|.|.++|+.|||++.|.+-|+.-+.-
T Consensus 63 ~~G~~ei~~P~l~~~~l~~~sg~~~~~~~emf~~~d~------------------------------------------- 99 (565)
T PRK09194 63 KIGAQEVLMPALQPAELWQESGRWEEYGPELLRLKDR------------------------------------------- 99 (565)
T ss_pred HcCCEEEECcccCcHHHHhhcCCccccchhceEEecC-------------------------------------------
Confidence 5689999999999999999999999999887732110
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAF 164 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~f 164 (310)
++..-+|||+....+...+++.+.||+ +||++++|+|.+|
T Consensus 100 ---------------------------------------~~~~l~LrPt~e~~~~~~~~~~~~s~~-~LP~r~yqi~~~f 139 (565)
T PRK09194 100 ---------------------------------------HGRDFVLGPTHEEVITDLVRNEIKSYK-QLPLNLYQIQTKF 139 (565)
T ss_pred ---------------------------------------CCCEEEECCCChHHHHHHHHhhhhhcc-cCCeEEEEeeCCc
Confidence 012468999888888888888888998 7999999999999
Q ss_pred ccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHHHH
Q 041441 165 RNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYFI 244 (310)
Q Consensus 165 RNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~~ 244 (310)
|+|++|+.||+|+|||+|.|+|+|+.++... +....--.
T Consensus 140 R~E~rp~~Gl~R~reF~q~d~~~f~~~~~~a-----------------------------------------~~~~~~~~ 178 (565)
T PRK09194 140 RDEIRPRFGLMRGREFIMKDAYSFHADEESL-----------------------------------------DETYDAMY 178 (565)
T ss_pred cCCCCCCCcccccccEEEeeEEEEcCChHHH-----------------------------------------HHHHHHHH
Confidence 9999999999999999999999999875431 11111122
Q ss_pred HHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCCCeEEEeehcc
Q 041441 245 GRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYGWIECVGIAD 297 (310)
Q Consensus 245 ~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~Gw~E~~gia~ 297 (310)
....++++++||++ +...-..|.+-..+.+ -+.+.++-|..|++.|.+
T Consensus 179 ~~~~~i~~~lgl~~---~~~~~~~g~~gg~~s~--e~~~~~~~g~~~~~~c~~ 226 (565)
T PRK09194 179 QAYSRIFDRLGLDF---RAVEADSGAIGGSASH--EFMVLADSGEDTIVYSDE 226 (565)
T ss_pred HHHHHHHHHhCCcc---EEEEcccccCCCceeE--EEEEecCCCceEEEEeCC
Confidence 34466788999964 4444455555544444 358888999999977664
No 34
>TIGR00409 proS_fam_II prolyl-tRNA synthetase, family II. Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent groups. This group includes enzymes from Escherichia coli, Bacillus subtilis, Aquifex aeolicus, the spirochete Treponema pallidum, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae. The other group includes the Pro-specific domain of a human multifunctional tRNA ligase and the prolyl-tRNA synthetases from the Archaea, the Mycoplasmas, and the spirochete Borrelia burgdorferi.
Probab=99.67 E-value=2.9e-16 Score=161.35 Aligned_cols=167 Identities=23% Similarity=0.277 Sum_probs=126.2
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
+-|+.+|.+|+|.|.++|+.|||++.|.+-|+.-++-
T Consensus 63 ~~G~~ei~~P~l~~~el~~~sg~~~~~~~emf~~~dr------------------------------------------- 99 (568)
T TIGR00409 63 KDGAIEVLLPALQPAELWQESGRWDTYGPELLRLKDR------------------------------------------- 99 (568)
T ss_pred HcCCEEEECCccchHHHHhhcCCCCccchhcEEEecC-------------------------------------------
Confidence 5689999999999999999999999999887742110
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAF 164 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~f 164 (310)
++ ..-+|||.....+-..+++.+.||+ +||++++|+|++|
T Consensus 100 ------------------~~---------------------~~l~LrPT~Ee~~t~~~~~~i~syr-~LPlrlyqi~~~f 139 (568)
T TIGR00409 100 ------------------KG---------------------REFVLGPTHEEVITDLARNEIKSYK-QLPLNLYQIQTKF 139 (568)
T ss_pred ------------------CC---------------------CEEEEcCCCcHHHHHHHHHHHhhcc-ccCeEEEEeeCEe
Confidence 01 2468899877777777888888997 7999999999999
Q ss_pred ccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHHHH
Q 041441 165 RNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYFI 244 (310)
Q Consensus 165 RNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~~ 244 (310)
|+|+.|+.||+|+|||+|.|++.|+.++... ++.+.--.
T Consensus 140 R~E~rpr~Gl~R~REF~~~d~~~f~~~~~~a-----------------------------------------~~e~~~~~ 178 (568)
T TIGR00409 140 RDEIRPRFGLMRGREFIMKDAYSFHSDEESL-----------------------------------------DATYQKMY 178 (568)
T ss_pred eCCCCCCCCccccccEEEEEEEEEeCChHHH-----------------------------------------HHHHHHHH
Confidence 9999999999999999999999999975431 11112222
Q ss_pred HHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCCCeEEEeehccCcch
Q 041441 245 GRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYGWIECVGIADRSAY 301 (310)
Q Consensus 245 ~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~Gw~E~~gia~R~~y 301 (310)
....++++++||++ +-.+-..|.+--.+...+|++ .+.|-.|++.+. -++|
T Consensus 179 ~~y~~if~~LgL~~---~~v~~~~g~~gg~~s~ef~~~--~~~ge~~i~~c~-~~~y 229 (568)
T TIGR00409 179 QAYSNIFSRLGLDF---RPVQADSGAIGGSASHEFMVL--AESGEDTIVYSD-ESDY 229 (568)
T ss_pred HHHHHHHHHhCCcc---eEEEeccccCCCccceEEeEe--cCCCceEEEEec-Cccc
Confidence 34467789999974 333445666655555555555 678889988876 4554
No 35
>TIGR00415 serS_MJ seryl-tRNA synthetase, Methanococcus jannaschii family. The seryl-tRNA synthetases from a few of the Archaea, represented by this model, are very different from the set of mutually more closely related seryl-tRNA synthetases from Eubacteria, Eukaryotes, and other Archaea. Although distantly homologous, the present set differs enough not to be recognized by the pfam model tRNA-synt_2b that recognizes the remainder of seryl-tRNA synthetases among oither class II amino-acyl tRNA synthetases.
Probab=99.48 E-value=1.2e-13 Score=139.56 Aligned_cols=185 Identities=15% Similarity=0.160 Sum_probs=127.4
Q ss_pred CCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCCH
Q 041441 6 ENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLSV 85 (310)
Q Consensus 6 e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 85 (310)
-|+.+|-.|.|.|.++|..+||+.+|.+-|+.....+ +.+.+.+.+...... ..
T Consensus 241 ~Gy~ev~fP~LIp~e~l~k~ghl~gF~~e~y~Vt~~~---~d~d~~~~f~~~~~~----------------------~~- 294 (520)
T TIGR00415 241 IGFQECLFPKLIPLDIMNKMRYLEGLPEGMYYCCAPK---RDPELFEEFKNELII----------------------KK- 294 (520)
T ss_pred cCCeEEeCCcEecHHHHcccCCCCCCchhheEEecCC---CCcchhhcccccccc----------------------cc-
Confidence 4999999999999999999999999999999654333 111121211100000 00
Q ss_pred HHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeee-ccccc
Q 041441 86 EELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQ-IGQAF 164 (310)
Q Consensus 86 ~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAq-iGk~f 164 (310)
.-|. . .| + +.......+|||=.++.++..|..-..+++ +||++++| .|.||
T Consensus 295 ------------eipi--~---------~L-~---~~le~~~~vL~PTSE~ply~~~a~~Ils~~-dLPlk~~~~s~~CF 346 (520)
T TIGR00415 295 ------------EIPI--D---------KL-K---NGIKDPGYVIAPAQCEPFYQFFEGEVIDAE-DKPIKFFDRSGWTY 346 (520)
T ss_pred ------------cccc--c---------cc-c---ccccCCceEEeCccHHHHHHHHhccccChh-hCCeeEEEEecCeE
Confidence 0010 0 00 0 000222467999999999988888887888 79999999 66899
Q ss_pred ccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHHHH
Q 041441 165 RNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYFI 244 (310)
Q Consensus 165 RNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~~ 244 (310)
|+|.++-.||+|++||++-|++.+++|++. .+..+.|+
T Consensus 347 R~EaGstrGL~RvhEF~kvE~v~~~tpEea------------------------------------------~e~~e~ml 384 (520)
T TIGR00415 347 RWEAGGAKGLDRVHEFLRVECVWIAEPEET------------------------------------------EEIRDKTL 384 (520)
T ss_pred eCCCCCCCCCceeeEEEEEEEEEEeCHHHH------------------------------------------HHHHHHHH
Confidence 999987899999999999999999999875 24455667
Q ss_pred HHHHHHHHHcCCCCCCC--------ceeeccCCccccccCceeeEEEEcC
Q 041441 245 GRVYLFLSRLGIDQDHL--------RFRQHLANEMAHYAADCWDAEIECS 286 (310)
Q Consensus 245 ~~~~~~l~~~Gi~~~~l--------rfr~~~~~E~AhYg~k~~D~e~~~~ 286 (310)
+....+++++||++... +-+....+++-|-|.+++|+++..|
T Consensus 385 e~~~~~l~~L~Lpyrv~~adDPFf~~g~k~~~~dl~F~~a~KyDlevwiP 434 (520)
T TIGR00415 385 ELAEDAADELDLEWWTEVGDDPFYLEGRKKEDRGIEFPDVPKYEMRLSLP 434 (520)
T ss_pred HHHHHHHHHcCCCeEEeecCCcccccccCcccccccCcccceEEEEEEEc
Confidence 77778889999976211 1111113445677777788887663
No 36
>COG0442 ProS Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=99.35 E-value=3.3e-12 Score=129.39 Aligned_cols=164 Identities=22% Similarity=0.267 Sum_probs=118.9
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
+-|..||==|.|.|..+|+-||||+.|.+-|+.-++.|++
T Consensus 63 ~~G~~Evl~P~L~p~eLwkEs~r~~~f~~El~~v~drg~~---------------------------------------- 102 (500)
T COG0442 63 KIGAQEVLFPTLIPAELWKESGRWEGFGPELFRVKDRGDR---------------------------------------- 102 (500)
T ss_pred hcCceEEechhcCHHHHHHHhChhhhcchhhEEEEccCCc----------------------------------------
Confidence 3478899999999999999999999999988865554420
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAF 164 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~f 164 (310)
++ -+|||. ||+ |.-.|++-++||+ +||+.+.||..+|
T Consensus 103 ---------~l-----------------------~L~PTs--------Ee~--it~~~~~~i~SYk-dLPl~lYQi~~kf 139 (500)
T COG0442 103 ---------PL-----------------------ALRPTS--------EEV--ITDMFRKWIRSYK-DLPLKLYQIQSKF 139 (500)
T ss_pred ---------ee-----------------------eeCCCc--------HHH--HHHHHHHHhhhhh-hCCcceeeeeeEE
Confidence 01 123333 222 5556788889999 8999999999999
Q ss_pred ccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHHHH
Q 041441 165 RNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYFI 244 (310)
Q Consensus 165 RNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~~ 244 (310)
|.|+.||.||+|.|||++-|+|-|..-...-...+ ++.++-|
T Consensus 140 RdE~rpr~gllR~REF~mkdaySfh~~~e~a~~~y-------------------------------------~~~~~~Y- 181 (500)
T COG0442 140 RDEKRPRFGLLRGREFLMKDAYSFHADEEDAEETY-------------------------------------EKMLDAY- 181 (500)
T ss_pred eccccCCCCccchheeeecccccccCCHHHHHHHH-------------------------------------HHHHHHH-
Confidence 99999999999999999999999975433200000 1222222
Q ss_pred HHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcC-CCeEEEeehcc
Q 041441 245 GRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECS-YGWIECVGIAD 297 (310)
Q Consensus 245 ~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~-~Gw~E~~gia~ 297 (310)
.+++..+|+. |+...+.+++==|..++-|++..| -|=..+..+.+
T Consensus 182 ---~~if~~i~l~-----~~~~~ad~g~~Gg~~S~eF~~l~pd~ge~qi~ts~~ 227 (500)
T COG0442 182 ---SRIFLRLPLI-----FGPVPADEGFIGGSYSHEFEALMPDGGEDQIATSHH 227 (500)
T ss_pred ---HHHHHhCCce-----EEeecccCCCCCCccceEEEEEccCCCccEEEEecc
Confidence 3344557766 477788888888888999999994 56666655543
No 37
>cd00774 GlyRS-like_core Glycyl-tRNA synthetase (GlyRS)-like class II core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes. It is responsible for the attachment of glycine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP binding and hydrolysis. This alignment contains only sequences from the GlyRS form which homodimerizes. The heterotetramer glyQ is in a different family of class II aaRS. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. This domain is also found at the N-terminus of the accessory subunit of mitochondrial polymerase gamma (Pol gamma b). Pol gamma b stimulates processive DNA synthesis and is functional as a homodimer, which can associate with the catalytic subunit Pol gamma alpha to form a heterotrimer. Despite significant both structural and sequence similarity with Gly
Probab=99.29 E-value=2.4e-13 Score=126.56 Aligned_cols=73 Identities=26% Similarity=0.434 Sum_probs=70.6
Q ss_pred ChHHHHHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCCCeEEEeehccCcchhhhhhhc
Q 041441 236 NNETIGYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYGWIECVGIADRSAYDLRAHTV 308 (310)
Q Consensus 236 ~~e~~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~Gw~E~~gia~R~~yDL~~H~~ 308 (310)
.++++++|.+....||.++|++++++|++++.+.|+|||+.+|||+++.+++||.|++||++|++|||+.|++
T Consensus 147 ~~e~~~~v~~~~~~~l~~~G~~~~~~r~~~~~~~e~a~ya~~~~d~~~~~~~~w~e~~Gi~~~~~~~l~~~~~ 219 (254)
T cd00774 147 SHPWFDYWADQRLKWLPKFAQSPENLRLTDHEKEELAHYANETLDYFYAFPHGFLELEGIANRGDRFLQHHPN 219 (254)
T ss_pred chHHHHHHHHHHHHHHHHcCCCccceEEEecccHhhhhhhHHHHHHHHHHhhhHHHHcCCCcchhHHHhCChh
Confidence 4589999999999999999999999999999999999999999999999999999999999999999999975
No 38
>cd00768 class_II_aaRS-like_core Class II tRNA amino-acyl synthetase-like catalytic core domain. Class II amino acyl-tRNA synthetases (aaRS) share a common fold and generally attach an amino acid to the 3' OH of ribose of the appropriate tRNA. PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. These enzymes are usually homodimers. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. The substrate specificity of this reaction is further determined by additional domains. Intererestingly, this domain is also found is asparagine synthase A (AsnA), in the accessory subunit of mitochondrial polymerase gamma and in the bacterial ATP phosphoribosyltransferase regulatory subunit HisZ.
Probab=99.28 E-value=6.2e-11 Score=103.80 Aligned_cols=131 Identities=30% Similarity=0.395 Sum_probs=93.7
Q ss_pred CceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhh
Q 041441 126 TAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNL 205 (310)
Q Consensus 126 ~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~ 205 (310)
...+|||....++..++++.+ +.+|++++|+|+|||+|.++.. +.|++||+|.+++++..+.+..
T Consensus 51 ~~~~LR~s~~~~l~~~~~~n~----~~~~~~lfeig~vfr~e~~~~~-~~~~~ef~~l~~~~~g~~~~~~---------- 115 (211)
T cd00768 51 EDLYLRPTLEPGLVRLFVSHI----RKLPLRLAEIGPAFRNEGGRRG-LRRVREFTQLEGEVFGEDGEEA---------- 115 (211)
T ss_pred CEEEECCCCcHHHHHHHHhhc----ccCCEEEEEEcceeecCCCccc-cccceeEEEcCEEEEcCCchhH----------
Confidence 367999999999998887765 4799999999999999987533 7899999999999999775420
Q ss_pred hhhcchhhhhhccccceEEEecccccccccChHHHHHHHHHHHHHHHHcCCCCCCCceeeccCCcc--ccccCceeeEEE
Q 041441 206 EFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYFIGRVYLFLSRLGIDQDHLRFRQHLANEM--AHYAADCWDAEI 283 (310)
Q Consensus 206 ~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~--AhYg~k~~D~e~ 283 (310)
..+....+.+..+|.++|++. .++|....+... +|.|+. .|+.+
T Consensus 116 --------------------------------~~~~~~~~~~~~~l~~lg~~~-~~~~~~~~~~~~~~~~~g~~-~~i~~ 161 (211)
T cd00768 116 --------------------------------SEFEELIELTEELLRALGIKL-DIVFVEKTPGEFSPGGAGPG-FEIEV 161 (211)
T ss_pred --------------------------------HHHHHHHHHHHHHHHHcCCCc-ceEEEecCchhhccccCCce-EEEEE
Confidence 112234566777888899742 244542222222 366666 89998
Q ss_pred EcCC-CeEEEeehccCcchhhhh
Q 041441 284 ECSY-GWIECVGIADRSAYDLRA 305 (310)
Q Consensus 284 ~~~~-Gw~E~~gia~R~~yDL~~ 305 (310)
.++. .|.|+..+..+....+++
T Consensus 162 ~~~~~~~~eig~~g~~~~~~~~~ 184 (211)
T cd00768 162 DHPEGRGLEIGSGGYRQDEQARA 184 (211)
T ss_pred EccCCCeEEEeeceeecCchhHh
Confidence 7654 367888888776655553
No 39
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=99.17 E-value=1.7e-10 Score=115.01 Aligned_cols=121 Identities=22% Similarity=0.282 Sum_probs=89.3
Q ss_pred ecCCeEEeecCccCChhhhhhc-C-CCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhcc
Q 041441 4 LKENMLEVRSPCVTPEVVLKAS-G-HVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMD 81 (310)
Q Consensus 4 ~~e~~~evdt~ii~~~~V~~aS-G-Hv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (310)
.+-|+.+|+||+|-..++|.+| | |++...+.|+.=.+
T Consensus 33 ~~~Gy~~I~TP~~E~~e~~~~~~G~~~~~~~~~my~~~d----------------------------------------- 71 (430)
T CHL00201 33 SLANYSEIRTPIFENSSLYDRGIGETTDIVNKEMYRFTD----------------------------------------- 71 (430)
T ss_pred HHcCCeeecCcccchHHHHhcccCCcccccccceEEEEc-----------------------------------------
Confidence 3679999999999999999886 5 88877777763111
Q ss_pred CCCHHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeecc
Q 041441 82 DLSVEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIG 161 (310)
Q Consensus 82 ~~~~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiG 161 (310)
+ ++ ...-||||-.-++--.|.....+++ .+|++++++|
T Consensus 72 ------------------~--~g---------------------~~l~LRpd~T~~iaR~~~~~~~~~~-~~p~R~~y~g 109 (430)
T CHL00201 72 ------------------R--SN---------------------RDITLRPEGTAGIVRAFIENKMDYH-SNLQRLWYSG 109 (430)
T ss_pred ------------------C--CC---------------------CEEEeCCCCcHHHHHHHHHcccccc-CCCeEEEEEc
Confidence 1 01 2457999977777655555444555 7999999999
Q ss_pred cccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhh
Q 041441 162 QAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPRE 213 (310)
Q Consensus 162 k~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~ 213 (310)
.|||+|.+.. | |.|||+|+++|+|+.+++.. + .+|..+...+|...
T Consensus 110 ~vfR~e~~q~-G--R~Ref~Q~g~EiiG~~~~~a-D--~Evi~l~~~~l~~l 155 (430)
T CHL00201 110 PMFRYERPQS-G--RQRQFHQLGIEFIGSIDARA-D--TEVIHLAMQIFNEL 155 (430)
T ss_pred ceecCCCCcC-C--ccceeEEeceEEECCCChhh-H--HHHHHHHHHHHHHc
Confidence 9999997543 4 99999999999999987752 2 35666666666553
No 40
>COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=99.15 E-value=2.4e-10 Score=113.83 Aligned_cols=167 Identities=20% Similarity=0.310 Sum_probs=134.3
Q ss_pred cCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCC
Q 041441 5 KENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLS 84 (310)
Q Consensus 5 ~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 84 (310)
+.|+.++-.|.|.+.++.-.+|.+.+|.|-|++|...+ .
T Consensus 190 ~~Gf~e~~~P~lv~~e~m~gtgqlpkf~e~~y~v~~~~------~----------------------------------- 228 (429)
T COG0172 190 KHGFTEVLPPYLVNLESMFGTGQLPKFEEDLYKVEDPD------L----------------------------------- 228 (429)
T ss_pred HcCceEeeCceeecHHHhhccCCCCCCcccceEecCCC------E-----------------------------------
Confidence 78999999999999999999999999999999876641 1
Q ss_pred HHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccc
Q 041441 85 VEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAF 164 (310)
Q Consensus 85 ~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~f 164 (310)
||-| ||---+.||-+.--....+||+.++-..-||
T Consensus 229 --------------------------------------------~Lip-TaEvpl~~l~~~Eil~~~~LP~k~~~~S~cF 263 (429)
T COG0172 229 --------------------------------------------YLIP-TAEVPLTNLHRDEILDEEDLPIKYTAYSPCF 263 (429)
T ss_pred --------------------------------------------EEEe-cchhhhHHhhcccccccccCCeeeEEEChhh
Confidence 1111 1111233444432233458999999999999
Q ss_pred ccccCC----CCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHH
Q 041441 165 RNEISP----RQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETI 240 (310)
Q Consensus 165 RNEiSp----r~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~ 240 (310)
|.|... -.||+||-+|+.=|+-.||.|++.. +.+
T Consensus 264 R~EAGs~GrdtrGliRvHQF~KVE~v~~~~Pe~S~------------------------------------------~~~ 301 (429)
T COG0172 264 RSEAGSAGKDTRGLIRVHQFDKVELVVITKPEESE------------------------------------------EEL 301 (429)
T ss_pred hcccccccccccceeeeeeeeeEEEEEEeCcchhH------------------------------------------HHH
Confidence 999875 6999999999999999999999962 233
Q ss_pred HHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCC--CeEEEeehccCcchh
Q 041441 241 GYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSY--GWIECVGIADRSAYD 302 (310)
Q Consensus 241 ~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~--Gw~E~~gia~R~~yD 302 (310)
+.-++...++|++|++|| |.-....|++-|=+.|++|+|+..|. -+-|+..++|=+||-
T Consensus 302 E~m~~~ae~il~~LeLPy---Rvv~lctGDlgf~a~kkYDlEvWlP~q~~yrEisScSnc~DfQ 362 (429)
T COG0172 302 EEMLGNAEEVLQELELPY---RVVNLCTGDLGFSAAKKYDLEVWLPGQNKYREISSCSNCTDFQ 362 (429)
T ss_pred HHHHHHHHHHHHHhCCCc---eEeeeccCCcCCcccCceeEEEEecCCCCceeeeeeeccccHH
Confidence 344555678899999998 66667789999999999999999998 799999999999885
No 41
>PRK09537 pylS pyrolysyl-tRNA synthetase; Reviewed
Probab=99.04 E-value=1.2e-09 Score=108.82 Aligned_cols=104 Identities=23% Similarity=0.298 Sum_probs=75.7
Q ss_pred ceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhh
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLE 206 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~ 206 (310)
..||||..+.+++-.. .....+. ++|++++++|+|||+|.++ -.++|||+|.++.+. +.
T Consensus 257 el~LRpsLtPsLlr~l-a~n~k~~-~~P~RIFEIG~VFR~E~~g---~~hlrEf~Ql~~~ii---Gs------------- 315 (417)
T PRK09537 257 NFCLRPMLAPGLYNYL-RKLDRIL-PDPIKIFEIGPCYRKESDG---KEHLEEFTMVNFCQM---GS------------- 315 (417)
T ss_pred ceEehhhhHHHHHHHH-Hhhhhcc-cCCeeEEEEeceEecCCCC---CCCcceEEEEEEEEe---CC-------------
Confidence 4799999999987533 2223334 6899999999999999644 337999999998865 11
Q ss_pred hhcchhhhhhccccceEEEecccccccccChHHHHHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcC
Q 041441 207 FLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECS 286 (310)
Q Consensus 207 ~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~ 286 (310)
+..|+-.++.+..+|.++||++ ....++.++||+. .||.
T Consensus 316 ------------------------------~~~f~dL~~lleeLL~~LGI~f------~i~s~~~fi~GR~-adI~---- 354 (417)
T PRK09537 316 ------------------------------GCTRENLENIIDDFLKHLGIDY------EIIGDNCMVYGDT-IDIM---- 354 (417)
T ss_pred ------------------------------chHHHHHHHHHHHHHHHCCCCc------EEecCCcceecCe-EEEE----
Confidence 1223344567888999999974 3446789999988 4554
Q ss_pred CCeEEE
Q 041441 287 YGWIEC 292 (310)
Q Consensus 287 ~Gw~E~ 292 (310)
.||.|+
T Consensus 355 ~g~~el 360 (417)
T PRK09537 355 HGDLEL 360 (417)
T ss_pred eCCEEE
Confidence 678776
No 42
>cd00773 HisRS-like_core Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. This domain is also found at the C-terminus of eukaryotic GCN2 protein kinase and at the N-terminus of the ATP phosphoribosyltransferase accessory subunit, HisZ. HisZ along with HisG catalyze the first reaction in histidine biosynthesis. HisZ is found only in a subset of bacteria and differs from HisRS in lacking a C-terminal anti-codon binding domain.
Probab=98.90 E-value=4.6e-09 Score=97.55 Aligned_cols=160 Identities=20% Similarity=0.216 Sum_probs=98.7
Q ss_pred ceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhh
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLE 206 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~ 206 (310)
...|||+....+.-.+.+...+ + ++|++++++|+|||+|.++ ..|.|||+|.++|+|+..+.. .+ .++..+.
T Consensus 57 ~l~LRpd~T~~iaR~~a~~~~~-~-~~p~k~~y~g~vfR~e~~~---~g~~re~~Q~g~Eiig~~~~~--~d-aE~i~l~ 128 (261)
T cd00773 57 DLALRPDLTAPVARAVAENLLS-L-PLPLKLYYIGPVFRYERPQ---KGRYREFYQVGVEIIGSDSPL--AD-AEVIALA 128 (261)
T ss_pred EEEeCCCCcHHHHHHHHhcCcc-C-CCCeEEEEEcCEEecCCCC---CCCccceEEeceeeeCCCChH--HH-HHHHHHH
Confidence 5789999988887555544333 3 6999999999999999765 348999999999999986553 22 3566666
Q ss_pred hhcchhhhhhccccceEEEeccc-ccccccCh-----------------HHHHHHHHHHHHHHHHcCCCCCCCceeeccC
Q 041441 207 FLMFPREEQMSAQSAKKIRLGEA-VSRGIVNN-----------------ETIGYFIGRVYLFLSRLGIDQDHLRFRQHLA 268 (310)
Q Consensus 207 ~~~~~~~~q~~~~~~~~~s~~~a-~~~~~i~~-----------------e~~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~ 268 (310)
..++... +.+.+.+.++++ .-+++++. +.++. +..+..+|.+.|+. +.+.|---..
T Consensus 129 ~~~l~~l----g~~~~~i~l~~~~i~~~l~~~~~~~~~~~~~l~~~l~~~~l~~-l~~l~~~l~~~~~~-~~i~~d~~~~ 202 (261)
T cd00773 129 VEILEAL----GLKDFQIKINHRGILDGIAGLLEDREEYIERLIDKLDKEALAH-LEKLLDYLEALGVD-IKYSIDLSLV 202 (261)
T ss_pred HHHHHHc----CCCceEEEECCHHHHHHHhhccCCCHHHHHHHHHHhhHHHHHH-HHHHHHHHHHcCCC-ceEEEcCccc
Confidence 6666653 234466666655 22222221 11111 34567788888863 3455554445
Q ss_pred CccccccCceeeEEEEcCCCeEEEeehccCcchhh
Q 041441 269 NEMAHYAADCWDAEIECSYGWIECVGIADRSAYDL 303 (310)
Q Consensus 269 ~E~AhYg~k~~D~e~~~~~Gw~E~~gia~R~~yDL 303 (310)
..+.+|. . +=+++..+-. .--.-||.=|-||-
T Consensus 203 r~~~YYt-G-~vF~~~~~~~-~~~~~i~~GGRYD~ 234 (261)
T cd00773 203 RGLDYYT-G-IVFEAVADGL-GAQGSIAGGGRYDG 234 (261)
T ss_pred cCCcccC-c-eEEEEEECCC-CccCeEeeccCHHH
Confidence 5566773 3 4455543321 01133666677773
No 43
>KOG2324 consensus Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=98.73 E-value=1.8e-08 Score=98.13 Aligned_cols=44 Identities=36% Similarity=0.650 Sum_probs=40.6
Q ss_pred hccCCCCceeeecccccccccCCCCccccccccccccceeeeCCC
Q 041441 148 NNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPK 192 (310)
Q Consensus 148 s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~ 192 (310)
||+ +||+++.|||+-||.|+.||.||+|-|||-|-|+.-|-..+
T Consensus 130 syk-qlPi~vYQigrKfRDElrpRfGLlRgREFlMKDmYsFd~~~ 173 (457)
T KOG2324|consen 130 SYK-QLPIRVYQIGRKFRDELRPRFGLLRGREFLMKDMYSFDSDE 173 (457)
T ss_pred ccc-cCcEEeeeechhhhhccCccccchhhHHHHHhhhhcccCCH
Confidence 566 89999999999999999999999999999999999997543
No 44
>KOG2509 consensus Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=98.73 E-value=7.9e-09 Score=102.47 Aligned_cols=173 Identities=23% Similarity=0.308 Sum_probs=133.0
Q ss_pred eeecCCeEEeecCccCChhhhhhcCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhcc
Q 041441 2 FLLKENMLEVRSPCVTPEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMD 81 (310)
Q Consensus 2 fv~~e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 81 (310)
|+..-|+.-|-+|.||+.+|..+-|-..+|.+.++.-...+ |+. .+.
T Consensus 198 ~l~~kGy~pl~~P~i~rkeVm~~cg~~~~~d~~~~y~ld~~-----~~~-------~Li--------------------- 244 (455)
T KOG2509|consen 198 FLNAKGYTPLTTPDILRKEVMQKCGQLPRFDEEQYYVLDGG-----DEK-------YLI--------------------- 244 (455)
T ss_pred HHHHcCCccccCchhhhHHHHHHhccCcCCCcceEEeecCC-----ccc-------eeE---------------------
Confidence 56688999999999999999999999999999999766554 110 000
Q ss_pred CCCHHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeecc
Q 041441 82 DLSVEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIG 161 (310)
Q Consensus 82 ~~~~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiG 161 (310)
+.+.. |- .||.|=|| +. ...||+.++-+.
T Consensus 245 aTaE~-------------pl-------------------------Aa~~~~e~-----------~~--~~~lPiK~vg~S 273 (455)
T KOG2509|consen 245 ATAEQ-------------PL-------------------------AAYHRDEW-----------LE--EDQLPIKYVGVS 273 (455)
T ss_pred eeccc-------------hh-------------------------hhhhcccc-----------cc--cccCceeeeehh
Confidence 00000 10 12222221 21 148999999999
Q ss_pred cccccccC--C--CCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccCh
Q 041441 162 QAFRNEIS--P--RQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNN 237 (310)
Q Consensus 162 k~fRNEiS--p--r~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~ 237 (310)
+|||-|.. | -.||+||-+|+--|.=..|.|++. -
T Consensus 274 ~CfR~EaGs~G~d~~GlyRVHqF~KVE~Fvit~Pe~S------------------------------------------~ 311 (455)
T KOG2509|consen 274 RCFRAEAGSHGKDTKGLYRVHQFEKVEQFVITGPEDS------------------------------------------W 311 (455)
T ss_pred HHHHHHhhhcccccccceeeeeeeeeEEEEecCcchh------------------------------------------H
Confidence 99999994 3 489999999999999888999884 2
Q ss_pred HHHHHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCC--CeEEEeehccCcchhh
Q 041441 238 ETIGYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSY--GWIECVGIADRSAYDL 303 (310)
Q Consensus 238 e~~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~--Gw~E~~gia~R~~yDL 303 (310)
+.+++.+..-..|+++||||+ |.-...++|+-+=|.+-.|||.++|. -|.|++.++|=|||-=
T Consensus 312 ~~~eEmi~~~eef~qsLgip~---rvl~m~S~eLg~aAakKyDiEAWmPgrg~ygEl~ScSNCTDyQS 376 (455)
T KOG2509|consen 312 EMLEEMINNQEEFYQSLGLPY---RVLNMPSGELGAAAAKKYDIEAWMPGRGAYGELVSCSNCTDYQS 376 (455)
T ss_pred HHHHHHHHHHHHHHHHhCCce---eEecCCchhhCcHHHhhcchhhhcCcccccccccccccchhHHH
Confidence 455666777788999999997 66677889988877777999999987 6999999999999963
No 45
>TIGR00443 hisZ_biosyn_reg ATP phosphoribosyltransferase, regulatory subunit. Apparant second copies of histidyl-tRNA synthetase, found in Bacillus subtilis, Synechocystis sp., Aquifex aeolicus, and others, are in fact a regulatory subunit of ATP phosphoribosyltransferase, and usually encoded by a gene adjacent to that encoding the catalytic subunit.
Probab=98.56 E-value=3.1e-07 Score=87.85 Aligned_cols=91 Identities=26% Similarity=0.288 Sum_probs=65.1
Q ss_pred ceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhh
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLE 206 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~ 206 (310)
..-||||-...+--.+.+.++ ++ ++|++++.+|.|||+|.+ |.-|.|||+|..+|+|..+++. .+ .++..+.
T Consensus 62 ~l~LRpD~T~~iaR~~~~~~~-~~-~~p~r~~y~g~VfR~~~~---~~gr~re~~Q~g~Eiig~~~~~--ad-aEvi~l~ 133 (314)
T TIGR00443 62 VLGLRPDMTTPIARAVSTRLR-DR-PLPLRLCYAGNVFRTNES---GAGRSREFTQAGVELIGAGGPA--AD-AEVIALL 133 (314)
T ss_pred EEeecCcCcHHHHHHHHHhcc-cC-CCCeEEEEeceEeecCCC---cCCCcccccccceEEeCCCCch--hH-HHHHHHH
Confidence 466999866665544444332 33 699999999999999974 3559999999999999987774 23 4677777
Q ss_pred hhcchhhhhhccccceEEEeccc
Q 041441 207 FLMFPREEQMSAQSAKKIRLGEA 229 (310)
Q Consensus 207 ~~~~~~~~q~~~~~~~~~s~~~a 229 (310)
..++... +.+.+.+.++.+
T Consensus 134 ~~~l~~l----g~~~~~i~l~~~ 152 (314)
T TIGR00443 134 IEALKAL----GLKDFKIELGHV 152 (314)
T ss_pred HHHHHHc----CCCCeEEEeCcH
Confidence 7777664 234566777654
No 46
>TIGR02367 PylS pyrrolysyl-tRNA synthetase. PylS is the archaeal enzyme responsible for charging the pyrrolysine tRNA, PylT, by ligating a free molecule of pyrrolysine. Pyrrolysine is encoded at an in-frame UAG (amber) at least in several corrinoid-dependent methyltransferases of the archaeal genera Methanosarcina and Methanococcoides, such as trimethylamine methyltransferase.
Probab=98.54 E-value=7.9e-07 Score=89.23 Aligned_cols=59 Identities=22% Similarity=0.387 Sum_probs=43.9
Q ss_pred ceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeC
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVD 190 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~ 190 (310)
..+|||+...+++-...+.. .. ..+|++++++|+|||+|... . -|+|||+|.++++.-.
T Consensus 293 ~lvLRPdLTPsLaR~La~N~-~~-l~~PqKIFEIGkVFR~E~~~-~--thlREF~QL~~eIaG~ 351 (453)
T TIGR02367 293 NFCLRPMLAPNLYNYLRKLD-RA-LPDPIKIFEIGPCYRKESDG-K--EHLEEFTMLNFCQMGS 351 (453)
T ss_pred ceEecccCHHHHHHHHHHhh-hh-ccCCeeEEEEcCeEecCCCC-C--CCcCeEEEEEEEEECC
Confidence 46899999988774332221 11 26899999999999999543 2 3799999999998743
No 47
>TIGR00442 hisS histidyl-tRNA synthetase. This model finds a histidyl-tRNA synthetase in every completed genome. Apparent second copies from Bacillus subtilis, Synechocystis sp., and Aquifex aeolicus are slightly shorter, more closely related to each other than to other hisS proteins, and actually serve as regulatory subunits for an enzyme of histidine biosynthesis. They were excluded from the seed alignment and score much lower than do single copy histidyl-tRNA synthetases of other genomes not included in the seed alignment. These putative second copies of HisS score below the trusted cutoff. The regulatory protein kinase GCN2 of Saccharomyces cerevisiae (YDR283c), and related proteins from other species designated eIF-2 alpha kinase, have a domain closely related to histidyl-tRNA synthetase that may serve to detect and respond to uncharged tRNA(his), an indicator of amino acid starvation; these regulatory proteins are not orthologous and so score below the noise cutoff.
Probab=98.53 E-value=2.5e-07 Score=90.70 Aligned_cols=91 Identities=18% Similarity=0.174 Sum_probs=63.6
Q ss_pred ceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhh
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLE 206 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~ 206 (310)
..-|||++.-.+--.+.+.. .++ ++|++++++|+|||+|.++. -|.|||+|.++|+|..++.. .+ .++..+.
T Consensus 72 ~l~LRpD~T~~iaR~~~~~~-~~~-~~p~r~~y~g~vfR~e~~~~---gr~ref~Q~g~eiig~~~~~--~d-~E~i~l~ 143 (397)
T TIGR00442 72 SLTLRPEGTAPVARAVIENK-LLL-PKPFKLYYIGPMFRYERPQK---GRYRQFHQFGVEVIGSDSPL--AD-AEIIALA 143 (397)
T ss_pred EEeecCCCcHHHHHHHHhcc-ccc-CCCeEEEEEcCeecCCCCCC---CcccceEEcCeeeeCCCCHH--HH-HHHHHHH
Confidence 56799998877764443322 233 79999999999999995533 38999999999999988653 22 3466666
Q ss_pred hhcchhhhhhccccceEEEeccc
Q 041441 207 FLMFPREEQMSAQSAKKIRLGEA 229 (310)
Q Consensus 207 ~~~~~~~~q~~~~~~~~~s~~~a 229 (310)
..++... + .+.+.+.++++
T Consensus 144 ~e~l~~l---g-~~~~~i~i~~~ 162 (397)
T TIGR00442 144 AEILKEL---G-IKDFTLEINSL 162 (397)
T ss_pred HHHHHHc---C-CCceEEEecCc
Confidence 6666553 2 23466777655
No 48
>PRK00037 hisS histidyl-tRNA synthetase; Reviewed
Probab=98.52 E-value=1.9e-07 Score=91.82 Aligned_cols=59 Identities=25% Similarity=0.370 Sum_probs=44.8
Q ss_pred ceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeCCCC
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKD 193 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q 193 (310)
..-|||++.-.+--.+.+ ++ .+|++++++|++||+|.++. | |.|||+|.++|+|..++.
T Consensus 76 ~l~LRpd~T~~~ar~~~~----~~-~~p~r~~~~g~vfR~e~~~~-g--r~ref~Q~g~ei~g~~~~ 134 (412)
T PRK00037 76 SLTLRPEGTAPVVRAVIE----HK-LQPFKLYYIGPMFRYERPQK-G--RYRQFHQFGVEVIGSDSP 134 (412)
T ss_pred EEEecCCCcHHHHHHHHh----CC-CCCeEEEEEcCccccCCCCC-C--cccceEEcCeeeeCCCCc
Confidence 567999944434423332 22 39999999999999996543 3 999999999999998865
No 49
>PRK07080 hypothetical protein; Validated
Probab=98.10 E-value=8.1e-06 Score=78.79 Aligned_cols=156 Identities=16% Similarity=0.166 Sum_probs=105.2
Q ss_pred CCeEEeecCccCChhhhhhcCCCCCCCCCcee-eccCCceeccch--hhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccC
Q 041441 6 ENMLEVRSPCVTPEVVLKASGHVEKLTDQMVK-DEKTGTFYRADQ--LLKDFCNEKLREDVRLSLEQAAELRRTLAMMDD 82 (310)
Q Consensus 6 e~~~evdt~ii~~~~V~~aSGHv~~F~D~mv~-c~~~~~~~RaD~--l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 82 (310)
.+.-++.=|-+||.++|+.|||+.+|+..|.. |.-|+. +.+| |+++.. .
T Consensus 64 ~~~e~~~FPpl~~~~~~ek~~Y~ksFP~l~~~V~~~~g~--~~e~~~ll~~~~-----------------------~--- 115 (317)
T PRK07080 64 QGAEVLRFPPVMSRAEFERSGYLKSFPQLAGTVHSFCGN--EAEHRRLLACLD-----------------------R--- 115 (317)
T ss_pred cCCceeeCCCCCCHHHHHhcChhhhCcccceeecCCCCC--CHHHHHHHHHHH-----------------------h---
Confidence 35778889999999999999999999999984 344442 1122 222111 0
Q ss_pred CCHHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCC---ceeee
Q 041441 83 LSVEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLP---FAAAQ 159 (310)
Q Consensus 83 ~~~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLP---f~iAq 159 (310)
.+...+. ++.| ..-|.|=++-.+|..+.+. +-|| ..+--
T Consensus 116 --~~~~~~~-----l~~~--------------------------~~vL~pAaCyP~Yp~l~~~-----g~lp~~g~~~dv 157 (317)
T PRK07080 116 --GEDWTES-----QKPT--------------------------DVVLTPAACYPVYPVLARR-----GALPADGRLVDV 157 (317)
T ss_pred --cCchhhh-----cCCC--------------------------cceecccccccchhhhccC-----cccCCCCcEEEe
Confidence 0001111 1211 3567777777788644421 1233 56677
Q ss_pred cccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccccccChHH
Q 041441 160 IGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNET 239 (310)
Q Consensus 160 iGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~ 239 (310)
.|.|||||.| +++-|+.+|.|=|.-+.=+|+++ .+.
T Consensus 158 ~g~CFR~E~s--~dl~Rl~~F~mrE~V~iGt~e~v------------------------------------------~~~ 193 (317)
T PRK07080 158 ASYCFRHEPS--LDPARMQLFRMREYVRIGTPEQI------------------------------------------VAF 193 (317)
T ss_pred eeeeeccCCC--CCcHHHhheeeeEEEEecCHHHH------------------------------------------HHH
Confidence 8999999986 68999999999999999999875 244
Q ss_pred HHHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCc
Q 041441 240 IGYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAAD 277 (310)
Q Consensus 240 ~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k 277 (310)
-+.|+.+...+++.+|++. .+....-.||+..
T Consensus 194 r~~w~e~~~~l~~~LgL~~------~ve~AnDPFF~~~ 225 (317)
T PRK07080 194 RQSWIERGTAMADALGLPV------EIDLANDPFFGRG 225 (317)
T ss_pred HHHHHHHHHHHHHHhCCce------eEeecCCcccccc
Confidence 4567777788888899886 5555566777754
No 50
>PLN02530 histidine-tRNA ligase
Probab=97.72 E-value=7.2e-05 Score=76.13 Aligned_cols=78 Identities=24% Similarity=0.259 Sum_probs=52.9
Q ss_pred ceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhh
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLE 206 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~ 206 (310)
..-||||-.-++--.+..... ...+|++++.+|.|||+|. |..| |.|||+|..+|+|..+...... +|+.+.
T Consensus 139 ~l~LRpD~T~~iaR~~~~~~~--~~~~P~r~~y~g~vfR~e~-~q~g--r~REf~Q~giEiiG~~~~~aDa---Evi~l~ 210 (487)
T PLN02530 139 RVALRPELTPSLARLVLQKGK--SLSLPLKWFAIGQCWRYER-MTRG--RRREHYQWNMDIIGVPGVEAEA---ELLAAI 210 (487)
T ss_pred EEecCCCCcHHHHHHHHhccc--ccCCCeEEEEEcCEEcCcC-CCCC--CccceEEcCeeEeCCCCcchhH---HHHHHH
Confidence 567999966656533333221 1259999999999999997 4444 8999999999999987653222 344444
Q ss_pred hhcchh
Q 041441 207 FLMFPR 212 (310)
Q Consensus 207 ~~~~~~ 212 (310)
...+..
T Consensus 211 ~~~l~~ 216 (487)
T PLN02530 211 VTFFKR 216 (487)
T ss_pred HHHHHH
Confidence 444433
No 51
>PRK12420 histidyl-tRNA synthetase; Provisional
Probab=97.69 E-value=0.00026 Score=70.50 Aligned_cols=88 Identities=23% Similarity=0.346 Sum_probs=56.3
Q ss_pred ceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhh
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLE 206 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~ 206 (310)
..-||||-.-.+- .+... ..+..+|++++.+|+|||+|.. ..| |.|||.|..+|+|-.+.... =.+|..+.
T Consensus 75 ~l~LRpD~T~~ia-R~va~--~~~~~~p~r~~y~g~vfR~~~~-~~g--r~rE~~Q~g~EiiG~~~~~a---daEvi~la 145 (423)
T PRK12420 75 DLALRYDLTIPFA-KVVAM--NPNIRLPFKRYEIGKVFRDGPI-KQG--RFREFIQCDVDIVGVESVMA---EAELMSMA 145 (423)
T ss_pred eecccccccHHHH-HHHHh--CcCCCCCeeEEEEcceECCCCC-CCC--ccceeEECCeeeECCCCCcc---cHHHHHHH
Confidence 4568888554332 12111 1123689999999999999863 334 89999999999998765431 14566666
Q ss_pred hhcchhhhhhccccceEEEecc
Q 041441 207 FLMFPREEQMSAQSAKKIRLGE 228 (310)
Q Consensus 207 ~~~~~~~~q~~~~~~~~~s~~~ 228 (310)
...+... +. .+.|.++.
T Consensus 146 ~~~l~~l---g~--~~~i~l~~ 162 (423)
T PRK12420 146 FELFRRL---NL--EVTIQYNN 162 (423)
T ss_pred HHHHHHC---CC--CEEEEEcC
Confidence 6666553 22 35566643
No 52
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=97.63 E-value=0.00025 Score=71.47 Aligned_cols=91 Identities=19% Similarity=0.222 Sum_probs=63.3
Q ss_pred ceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhh
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLE 206 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~ 206 (310)
..=||||-.-++---+.... ... ..|++...+|.+||+|. |..| |-|||.|.++|+|=.++=. .=.+|+.+.
T Consensus 76 ~laLRpe~Tapv~R~~~en~-~~~-~~p~k~yy~g~vfRyEr-PQ~G--R~RqF~Q~g~E~iG~~~~~---~DAEvi~l~ 147 (429)
T COG0124 76 SLALRPELTAPVARAVAENK-LDL-PKPLKLYYFGPVFRYER-PQKG--RYRQFYQFGVEVIGSDSPD---ADAEVIALA 147 (429)
T ss_pred EEEecccCcHHHHHHHHhcc-ccc-cCCeeEEEecceecCCC-CCCC--CceeeEEcCeEEeCCCCcc---cCHHHHHHH
Confidence 56699998877764443322 222 38999999999999995 4566 9999999999999876522 113567777
Q ss_pred hhcchhhhhhccccceEEEeccc
Q 041441 207 FLMFPREEQMSAQSAKKIRLGEA 229 (310)
Q Consensus 207 ~~~~~~~~q~~~~~~~~~s~~~a 229 (310)
..+|.+. |. ..+.+.+...
T Consensus 148 ~~~l~~l---Gi-~~~~l~iN~~ 166 (429)
T COG0124 148 VEILEAL---GI-GGFTLEINSR 166 (429)
T ss_pred HHHHHHc---CC-CcEEEEEcCc
Confidence 7777664 33 3366666544
No 53
>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional
Probab=97.61 E-value=0.00032 Score=71.69 Aligned_cols=114 Identities=22% Similarity=0.227 Sum_probs=70.1
Q ss_pred ceecCCCchhhHHHHHhhhhhhc---cCCCCceeeecccccccccCCCCccccccccccccceeeeCCCCCCccchhhhh
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNN---GNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVK 203 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~---r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~ 203 (310)
..-|||.|.-...-...+..+.+ ....|+++..+|+|||||- +-. .|.+||.|.|..+.-..-.
T Consensus 327 ~~vLRtHtTa~~aR~l~~~~~~~~~~~~~~P~k~fsigrVfR~d~-~Da--tH~~eFhQ~Eg~vi~~~~s---------- 393 (494)
T PTZ00326 327 KNILRTHTTAVSARMLYKLAQEYKKTGPFKPKKYFSIDRVFRNET-LDA--THLAEFHQVEGFVIDRNLT---------- 393 (494)
T ss_pred cccccCCCCHHHHHHHHhhccccccccCCCCceEEecCCEecCCC-CCC--CcCceeEEEEEEEEeCCCC----------
Confidence 35799999876553333222211 1124999999999999994 222 2679999999987632210
Q ss_pred hhhhhcchhhhhhccccceEEEecccccccccChHHHHHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEE
Q 041441 204 NLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEI 283 (310)
Q Consensus 204 d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~ 283 (310)
.+--++.+..++.++|+ .++||+ |.==.|=-|- +.+.+
T Consensus 394 ------------------------------------~~~L~~~l~~f~~~lG~--~~~Rfr---P~yfPfTEPS-~Ev~v 431 (494)
T PTZ00326 394 ------------------------------------LGDLIGTIREFFRRIGI--TKLRFK---PAFNPYTEPS-MEIFG 431 (494)
T ss_pred ------------------------------------HHHHHHHHHHHHHhcCC--CceEEe---cCCCCCCCCe-eEEEE
Confidence 01123456778888988 578887 2222222333 55555
Q ss_pred EcC-CC-eEEEeeh
Q 041441 284 ECS-YG-WIECVGI 295 (310)
Q Consensus 284 ~~~-~G-w~E~~gi 295 (310)
..+ .| |+|+.|+
T Consensus 432 ~~~~~gkWIEIgg~ 445 (494)
T PTZ00326 432 YHPGLKKWVEVGNS 445 (494)
T ss_pred EecCCCcEEEEeCc
Confidence 443 35 9999875
No 54
>PF01409 tRNA-synt_2d: tRNA synthetases class II core domain (F); InterPro: IPR002319 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. Phenylalanyl-tRNA synthetase (6.1.1.20 from EC) is an alpha2/beta2 tetramer composed of 2 subunits that belongs to class IIc. In eubacteria, a small subunit (pheS gene) can be designated as beta (E. coli) or alpha subunit (nomenclature adopted in InterPro). Reciprocally the large subunit (pheT gene) can be designated as alpha (E. coli) or beta (see IPR004531 from INTERPRO and IPR004532 from INTERPRO). In all other kingdoms the two subunits have equivalent length in eukaryota, and can be identified by specific signatures. The enzyme from Thermus thermophilus has an alpha 2 beta 2 type quaternary structure and is one of the most complicated members of the synthetase family. Identification of phenylalanyl-tRNA synthetase as a member of class II aaRSs was based only on sequence alignment of the small alpha-subunit with other synthetases [].; GO: 0000049 tRNA binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0043039 tRNA aminoacylation, 0005737 cytoplasm; PDB: 3TUP_A 3HFV_A 3CMQ_A 3TEG_A 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B ....
Probab=97.54 E-value=0.00036 Score=65.40 Aligned_cols=116 Identities=28% Similarity=0.429 Sum_probs=78.6
Q ss_pred ccCC--CCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeCCCCCCccc
Q 041441 121 GPSG--LTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPK 198 (310)
Q Consensus 121 Gp~~--~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e 198 (310)
+|.+ +....||+-|.-+..-.. +.+...|+++.++|+|||+|-...++ +.+|.|.|.= -|+++-.
T Consensus 72 ~p~~~~~~~~vLRThts~~~~~~l-----~~~~~~p~kif~iG~VyR~D~~D~th---~~~f~Qleg~-~~~~~~~---- 138 (247)
T PF01409_consen 72 NPYSAEEDYSVLRTHTSPGQLRTL-----NKHRPPPIKIFEIGKVYRRDEIDATH---LPEFHQLEGL-VVDKNVT---- 138 (247)
T ss_dssp SSSBCECSSEEE-SSTHHHHHHHH-----TTTSHSSEEEEEEEEEESSSCSBSSB---ESEEEEEEEE-EEETTE-----
T ss_pred ccccccchhhhhhhhhhHHHHHHH-----HHhcCCCeEEEecCceEecCCccccc---CccceeEeeE-EEecccc----
Confidence 4555 677899999998877432 33347999999999999999766544 3489999984 3443211
Q ss_pred hhhhhhhhhhcchhhhhhccccceEEEecccccccccChHHHHHHHHHHHHHHHHc-CCCCCCCceeeccCCccccccCc
Q 041441 199 FSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYFIGRVYLFLSRL-GIDQDHLRFRQHLANEMAHYAAD 277 (310)
Q Consensus 199 ~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~~~~~~~~l~~~-Gi~~~~lrfr~~~~~E~AhYg~k 277 (310)
+.--.+.+..++..+ |.+ -++||+. ..-.|+-|.
T Consensus 139 -----------------------------------------f~~Lk~~l~~l~~~lfG~~-~~~r~~p---s~fPftePs 173 (247)
T PF01409_consen 139 -----------------------------------------FEDLKGTLEELLKELFGID-VKVRFRP---SYFPFTEPS 173 (247)
T ss_dssp -----------------------------------------HHHHHHHHHHHHHHHHTTT-EEEEEEE---CEETTEEEE
T ss_pred -----------------------------------------hhHHHHHHHHHHHHHhhcc-cceEeec---CCCCcccCC
Confidence 111234566777888 887 4577764 566778777
Q ss_pred eeeEEEEc----CCCeEEEeeh
Q 041441 278 CWDAEIEC----SYGWIECVGI 295 (310)
Q Consensus 278 ~~D~e~~~----~~Gw~E~~gi 295 (310)
..+.+.. ..||+|+.|+
T Consensus 174 -~e~~i~~~~~~~~~wiEvgg~ 194 (247)
T PF01409_consen 174 -READIYCGVCKGGGWIEVGGC 194 (247)
T ss_dssp -EEEEEEEECTTTTCEEEEEEE
T ss_pred -eEEEEEEeeccCCCceEEeec
Confidence 5555554 5699999764
No 55
>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional
Probab=97.44 E-value=0.0009 Score=68.26 Aligned_cols=108 Identities=21% Similarity=0.294 Sum_probs=72.6
Q ss_pred eecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhhh
Q 041441 128 AYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEF 207 (310)
Q Consensus 128 ~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~ 207 (310)
.-|||+|.-++.-.... ++..|+++.++|+|||||--.. + |+|||.|.++.+.=.+ .+
T Consensus 329 ~~LR~~~T~~~~r~l~~-----~~~~p~rlFeiGrVFR~e~~d~-~--~l~Ef~ql~~~i~G~~--~~------------ 386 (489)
T PRK04172 329 LVLRTHTTALSARYLAS-----RPEPPQKYFSIGRVFRPDTIDA-T--HLPEFYQLEGIVMGED--VS------------ 386 (489)
T ss_pred cccccCChHHHHHHHHh-----cCCCCeEEEEecceEcCCCCCc-c--cCCchheEEEEEEeCC--CC------------
Confidence 47999999877643332 3368999999999999985321 1 2489999998887542 10
Q ss_pred hcchhhhhhccccceEEEecccccccccChHHHHHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEc-C
Q 041441 208 LMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIEC-S 286 (310)
Q Consensus 208 ~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~-~ 286 (310)
+..-.+.+..++.++|++ +++|+ +..-.|+.|. ..+.+.- .
T Consensus 387 --------------------------------f~elkg~l~~ll~~lGi~--~~~~~---~~~~p~~~P~-~~~~i~~~g 428 (489)
T PRK04172 387 --------------------------------FRDLLGILKEFYKRLGFE--EVKFR---PAYFPFTEPS-VEVEVYHEG 428 (489)
T ss_pred --------------------------------HHHHHHHHHHHHHHhCCc--eEEEc---CCcCCCCCCe-EEEEEEECC
Confidence 112345677788889985 35653 3455566665 6666654 5
Q ss_pred CCeEEEeeh
Q 041441 287 YGWIECVGI 295 (310)
Q Consensus 287 ~Gw~E~~gi 295 (310)
.||.|+.++
T Consensus 429 ~~w~eiG~~ 437 (489)
T PRK04172 429 LGWVELGGA 437 (489)
T ss_pred CCeEEEEec
Confidence 689998654
No 56
>TIGR00470 sepS O-phosphoseryl-tRNA(Cys) synthetase. This family of archaeal proteins resembles known phenylalanyl-tRNA synthetase alpha chains. Recently, it was shown to act in a proposed pathway of tRNA(Cys) indirect aminoacylation, resulting in Cys biosynthesis from O-phosphoserine, in certain archaea. It charges tRNA(Cys) with O-phosphoserine. The pscS gene product converts the phosphoserine to Cys.
Probab=97.31 E-value=0.0011 Score=67.57 Aligned_cols=112 Identities=24% Similarity=0.387 Sum_probs=73.9
Q ss_pred ceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCC-CCccccccccccccceeeeCCCCCCccchhhhhhh
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISP-RQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNL 205 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSp-r~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~ 205 (310)
..-||+-|.-|.+.-...+. .+.++|+++.++|+|||||.+. . .++++|.|.|.-+ +++ +.+
T Consensus 182 ~~lLRTHTTpgqirtL~~L~--~~~~~PiRIFsIGRVfRrD~~~Da---THl~eFhQlEGLV-Vde-dVS---------- 244 (533)
T TIGR00470 182 TLTLRSHMTSGWFITLSSII--DKRKLPLKLFSIDRCFRREQREDR---SHLMTYHSASCVV-VDE-EVS---------- 244 (533)
T ss_pred CcccccCChhHHHHHHHHHh--hcCCCCeEEEeeeeEEecCCCCCC---ccCceeeeEEEEE-ECC-CCC----------
Confidence 46789999888886444432 2447999999999999999532 2 2378899988543 222 221
Q ss_pred hhhcchhhhhhccccceEEEecccccccccChHHHHHHHHHHHHHHHHcCCCCCCCceeeccCCcc--ccccCceeeEEE
Q 041441 206 EFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYFIGRVYLFLSRLGIDQDHLRFRQHLANEM--AHYAADCWDAEI 283 (310)
Q Consensus 206 ~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~--AhYg~k~~D~e~ 283 (310)
++--.+.+..+|..+|. .++|||- .|- +.|=|-+= +|+
T Consensus 245 ----------------------------------f~DLKgvLe~LLr~LG~--~~vRFRP---sekrskyYFPFTE-aEV 284 (533)
T TIGR00470 245 ----------------------------------VDDGKAVAEGLLAQFGF--TKFRFRP---DEKKSKYYIPETQ-TEV 284 (533)
T ss_pred ----------------------------------HHHHHHHHHHHHHHhCC--ceEEecc---CcCCCCCcCCCce-EEE
Confidence 12234567778888986 6788883 332 44666633 665
Q ss_pred EcCC----CeEEEeeh
Q 041441 284 ECSY----GWIECVGI 295 (310)
Q Consensus 284 ~~~~----Gw~E~~gi 295 (310)
.-.. ||.|+.|+
T Consensus 285 dV~~~k~~gWiEIgG~ 300 (533)
T TIGR00470 285 YAYHPKLGEWIEVATF 300 (533)
T ss_pred EEEccCCCceEEEEec
Confidence 5434 89999876
No 57
>PRK12292 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=97.18 E-value=0.00098 Score=65.90 Aligned_cols=93 Identities=20% Similarity=0.214 Sum_probs=62.9
Q ss_pred CCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhh
Q 041441 125 LTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKN 204 (310)
Q Consensus 125 ~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d 204 (310)
+...-||||-.-.+--.+.+.+ .+...|++++.+|.|||+|. .+.-|.|||+|..+|+|-.++.. .+ .+|..
T Consensus 71 g~~l~LRpD~T~~iaR~~a~~~--~~~~~p~r~~y~g~vfR~~~---~~~gr~ref~Q~g~EiiG~~~~~--aD-aEvi~ 142 (391)
T PRK12292 71 GRTLGLRPDMTAQIARIAATRL--ANRPGPLRLCYAGNVFRAQE---RGLGRSREFLQSGVELIGDAGLE--AD-AEVIL 142 (391)
T ss_pred CCEEEECCCCcHHHHHHHHHhc--cCCCCCeEEEeeceeeecCC---CcCCCccchhccceEEeCCCCch--HH-HHHHH
Confidence 3468899997776653333221 13368999999999999994 33348999999999999866543 22 35666
Q ss_pred hhhhcchhhhhhccccceEEEeccc
Q 041441 205 LEFLMFPREEQMSAQSAKKIRLGEA 229 (310)
Q Consensus 205 ~~~~~~~~~~q~~~~~~~~~s~~~a 229 (310)
+...++... + .+.+.+.++.+
T Consensus 143 l~~~~l~~l---g-l~~~~i~i~~~ 163 (391)
T PRK12292 143 LLLEALKAL---G-LPNFTLDLGHV 163 (391)
T ss_pred HHHHHHHHc---C-CCCeEEEeccH
Confidence 666666553 2 23466666554
No 58
>TIGR00468 pheS phenylalanyl-tRNA synthetase, alpha subunit. Most phenylalanyl-tRNA synthetases are heterodimeric, with 2 alpha (pheS) and 2 beta (pheT) subunits. This model describes the alpha subunit, which shows some similarity to class II aminoacyl-tRNA ligases. Mitochondrial phenylalanyl-tRNA synthetase is a single polypeptide chain, active as a monomer, and similar to this chain rather than to the beta chain, but excluded from this model. An interesting feature of the alignment of all sequences captured by this model is a deep split between non-spirochete bacterial examples and all other examples; supporting this split is a relative deletion of about 50 residues in the former set between two motifs well conserved throughout the alignment.
Probab=96.79 E-value=0.0089 Score=57.28 Aligned_cols=111 Identities=22% Similarity=0.362 Sum_probs=70.5
Q ss_pred CceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccC-CCCccccccccccccceeeeCCCCCCccchhhhhh
Q 041441 126 TAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEIS-PRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKN 204 (310)
Q Consensus 126 ~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiS-pr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d 204 (310)
...+|||.|.-|+.-.-. .+.+ .|+++.++|+|||++-. ..| +.||.|.++-+ ++ +..+
T Consensus 127 d~~vLRtsl~p~ll~~l~----~N~~-~pirlFEiGrVfr~d~~d~~~----~pef~ql~gl~-~~-~~~~--------- 186 (294)
T TIGR00468 127 DRLLLRTHTTAVQLRTME----ENEK-PPIRIFSPGRVFRNDTVDATH----LPEFHQVEGLV-ID-KNVS--------- 186 (294)
T ss_pred CCcceecccHHHHHHHHH----hcCC-CCceEEEecceEEcCCCCCcc----CChhhEEEEEE-EC-CCCC---------
Confidence 368999999998874333 2332 89999999999999853 233 34888888662 22 1110
Q ss_pred hhhhcchhhhhhccccceEEEecccccccccChHHHHHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEE
Q 041441 205 LEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIE 284 (310)
Q Consensus 205 ~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~ 284 (310)
+.--.+.+..++..+|++ ..+||+. ....|+-|. ..+.+.
T Consensus 187 -----------------------------------f~dLKg~le~ll~~l~~~-~~~~~~~---~~~p~~~Ps-~e~~i~ 226 (294)
T TIGR00468 187 -----------------------------------FTNLKGFLEEFLKKMFGE-TEIRFRP---SYFPFTEPS-AEIDVY 226 (294)
T ss_pred -----------------------------------HHHHHHHHHHHHHHhCCC-cceeecc---CCCCCCCCC-EEEEEE
Confidence 112345677788889987 5677753 455555444 334333
Q ss_pred c--CCCeEEEeehc
Q 041441 285 C--SYGWIECVGIA 296 (310)
Q Consensus 285 ~--~~Gw~E~~gia 296 (310)
. .-||.|+.++-
T Consensus 227 ~~~g~~w~eiG~~G 240 (294)
T TIGR00468 227 CWEGKTWLEVLGAG 240 (294)
T ss_pred EeCCCccEEEEEec
Confidence 2 33899987653
No 59
>PF13393 tRNA-synt_His: Histidyl-tRNA synthetase; PDB: 3HRI_E 3HRK_A 3LC0_A 1Z7N_A 1Z7M_D 3NET_A 1H4V_B 3OD1_A 4E51_B 3RAC_A ....
Probab=96.60 E-value=0.0043 Score=58.75 Aligned_cols=90 Identities=21% Similarity=0.149 Sum_probs=59.1
Q ss_pred ceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhh
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLE 206 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~ 206 (310)
..-|||+..-.+--...+... ...|.+++.+|.+||++..+. -|.|||+|..+|++=.+.-. .=.+++.+.
T Consensus 64 ~l~LR~D~T~~iaR~~a~~~~---~~~~~r~~y~g~vfR~~~~~~---g~~re~~Q~g~Eiig~~~~~---~daEvi~l~ 134 (311)
T PF13393_consen 64 VLALRPDLTVPIARYVARNLN---LPRPKRYYYIGPVFRYERPGK---GRPREFYQCGFEIIGSSSLE---ADAEVIKLA 134 (311)
T ss_dssp EEEE-SSSHHHHHHHHHHCCG---SSSSEEEEEEEEEEEEETTTT---TBESEEEEEEEEEESSSSHH---HHHHHHHHH
T ss_pred EeccCCCCcHHHHHHHHHhcC---cCCCceEEEEcceeeccccCC---CCCceeEEEEEEEECCCCHH---HHHHHHHHH
Confidence 567999988876643333221 479999999999999995442 39999999999999766332 122455555
Q ss_pred hhcch-hhhhhccccceEEEeccc
Q 041441 207 FLMFP-REEQMSAQSAKKIRLGEA 229 (310)
Q Consensus 207 ~~~~~-~~~q~~~~~~~~~s~~~a 229 (310)
..++. .. +.+.+.+.++..
T Consensus 135 ~e~l~~~l----~~~~~~i~i~h~ 154 (311)
T PF13393_consen 135 DEILDREL----GLENFTIRINHT 154 (311)
T ss_dssp HHHHHHHH----TTTSEEEEEEEH
T ss_pred HHHHHhhc----CCCCcEEEEcCc
Confidence 55554 32 234556666543
No 60
>PRK12295 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=96.59 E-value=0.0082 Score=59.44 Aligned_cols=87 Identities=23% Similarity=0.312 Sum_probs=56.1
Q ss_pred ceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhh
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLE 206 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~ 206 (310)
..-||||-.-.|--.+... +...|++++.+|.|||+| .| |.|||+|..+|+|=.++... . =.+|..+.
T Consensus 59 ~l~LRpD~T~piaR~~~~~----~~~~p~R~~Y~g~VfR~~----~g--r~rEf~Q~GvEiiG~~~~~~-a-DaEvi~l~ 126 (373)
T PRK12295 59 ELCLRPDFTIPVCRRHIAT----AGGEPARYAYLGEVFRQR----RD--RASEFLQAGIESFGRADPAA-A-DAEVLALA 126 (373)
T ss_pred EEeeCCCCcHHHHHHHHHc----CCCCCeEEEEEccEEECC----CC--CCCcceEeeEEeeCCCCCcc-c-hHHHHHHH
Confidence 5789999665555322221 247899999999999999 23 78999999999996443221 1 12455555
Q ss_pred hhcchhhhhhccccceEEEeccc
Q 041441 207 FLMFPREEQMSAQSAKKIRLGEA 229 (310)
Q Consensus 207 ~~~~~~~~q~~~~~~~~~s~~~a 229 (310)
...+... +...+.+.++++
T Consensus 127 ~~~L~~l----gl~~~~i~ig~~ 145 (373)
T PRK12295 127 LEALAAL----GPGDLEVRLGDV 145 (373)
T ss_pred HHHHHHc----CCCceEEEeCCH
Confidence 5555542 223566666544
No 61
>PLN02972 Histidyl-tRNA synthetase
Probab=96.57 E-value=0.0035 Score=67.18 Aligned_cols=90 Identities=18% Similarity=0.202 Sum_probs=58.2
Q ss_pred CceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhh
Q 041441 126 TAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNL 205 (310)
Q Consensus 126 ~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~ 205 (310)
...-||||-.=.+- |.+-.+. ..|++..++|+|||+|. |..| |.|||.|.++|++=..+.. .+ =.+|..+
T Consensus 394 r~LaLRPDlTvPiA----R~vA~n~-~~p~KrYyiG~VFR~e~-pqkG--R~REF~Q~G~EIIG~~~~~-~a-DAEVI~L 463 (763)
T PLN02972 394 ELCSLRYDLTVPFA----RYVAMNG-ITSFKRYQIAKVYRRDN-PSKG--RYREFYQCDFDIAGVYEPM-GP-DFEIIKV 463 (763)
T ss_pred CEEEeCCCChHHHH----HHHHhCC-CCcceEEEeccEEecCC-CCCC--CCccceEEeEEEEcCCCcc-hh-hHHHHHH
Confidence 46789999665443 3332333 46999999999999997 4555 8999999999999753222 01 1245555
Q ss_pred hhhcchhhhhhccccceEEEeccc
Q 041441 206 EFLMFPREEQMSAQSAKKIRLGEA 229 (310)
Q Consensus 206 ~~~~~~~~~q~~~~~~~~~s~~~a 229 (310)
...++... + ...+.|.++.+
T Consensus 464 a~E~L~~L---G-i~df~I~INh~ 483 (763)
T PLN02972 464 LTELLDEL---D-IGTYEVKLNHR 483 (763)
T ss_pred HHHHHHhC---C-CCceEEEeCCH
Confidence 55555543 2 23456666544
No 62
>PRK12421 ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=96.38 E-value=0.011 Score=58.84 Aligned_cols=91 Identities=13% Similarity=0.017 Sum_probs=59.7
Q ss_pred CceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhh
Q 041441 126 TAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNL 205 (310)
Q Consensus 126 ~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~ 205 (310)
...=||||-.-+|--...+.. +...|++++.+|.|||++. |..| |.|||+|..+|+|=.+.-.. =.+|..+
T Consensus 76 ~~l~LRpD~T~~iaR~~a~~~---~~~~p~R~~Y~g~VfR~~~-~~~g--r~rEf~Q~GvEiiG~~~~~a---DaEvi~l 146 (392)
T PRK12421 76 RLMGVRADITPQVARIDAHLL---NREGVARLCYAGSVLHTLP-QGLF--GSRTPLQLGAELYGHAGIEA---DLEIIRL 146 (392)
T ss_pred cEEEECCcCCHHHHHHHHhhc---CCCCceEEEEeeeEEEcCC-CcCC--CcCccceeceEEeCCCCchh---HHHHHHH
Confidence 456799997776663222221 2368999999999999986 3444 99999999999996543321 1245555
Q ss_pred hhhcchhhhhhccccceEEEeccc
Q 041441 206 EFLMFPREEQMSAQSAKKIRLGEA 229 (310)
Q Consensus 206 ~~~~~~~~~q~~~~~~~~~s~~~a 229 (310)
....+... |.+.+.+.++.+
T Consensus 147 ~~e~l~~l----gi~~~~l~ig~~ 166 (392)
T PRK12421 147 MLGLLRNA----GVPALHLDLGHV 166 (392)
T ss_pred HHHHHHHc----CCCCeEEEeCCH
Confidence 55555543 223466777655
No 63
>PRK00488 pheS phenylalanyl-tRNA synthetase subunit alpha; Validated
Probab=95.95 E-value=0.056 Score=53.15 Aligned_cols=51 Identities=20% Similarity=0.219 Sum_probs=38.1
Q ss_pred ceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccccccc-CCCCcccccccccccccee
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEI-SPRQGFSRVREFTLAEIEH 187 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEi-Spr~GL~RvREFtQ~E~e~ 187 (310)
...||+-|.-+..- .+.. .++|+++.++|+|||++- ...| ..+|.|.|.=+
T Consensus 164 ~~lLRThTSp~qir----~L~~--~~~Pirif~~G~VyR~D~~DatH----~~~FhQleglv 215 (339)
T PRK00488 164 GLLLRTHTSPVQIR----TMEK--QKPPIRIIAPGRVYRNDSDDATH----SPMFHQVEGLV 215 (339)
T ss_pred CceeeccCcHHHHH----HHHh--cCCCeEEEEeeeEEEcCCCCccc----CcceeeEEEEE
Confidence 46789999887542 2222 479999999999999995 4455 67799988644
No 64
>PRK12293 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=95.91 E-value=0.0064 Score=57.89 Aligned_cols=81 Identities=14% Similarity=0.043 Sum_probs=52.3
Q ss_pred ceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeCCC
Q 041441 113 NLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPK 192 (310)
Q Consensus 113 NLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~ 192 (310)
+-||+..= + ++...-||||-.-.|--.+.+.+ .+..+|++++.+|+|||+|. |||+|..+|++=.++
T Consensus 58 ~~~y~~~D-~-~g~~l~LRpD~T~~iaR~~a~~~--~~~~~p~r~~Y~g~vfR~~~---------rEf~Q~GvEliG~~~ 124 (281)
T PRK12293 58 KELIRFSD-E-KNHQISLRADSTLDVVRIVTKRL--GRSTEHKKWFYIQPVFRYPS---------NEIYQIGAELIGEED 124 (281)
T ss_pred hceEEEEC-C-CCCEEEECCcCCHHHHHHHHHhc--ccCCCceeEEEeccEEecCC---------CcccccCeEeeCCCC
Confidence 34555432 2 23477899996665553232211 12368999999999999983 899999999996543
Q ss_pred CCCccchhhhhhhhhhcchh
Q 041441 193 DKSHPKFSEVKNLEFLMFPR 212 (310)
Q Consensus 193 q~~~~e~~~v~d~~~~~~~~ 212 (310)
- .+|..+....+.+
T Consensus 125 ~------~Evi~la~~~l~~ 138 (281)
T PRK12293 125 L------SEILNIAAEIFEE 138 (281)
T ss_pred H------HHHHHHHHHHHHH
Confidence 2 2455555554444
No 65
>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain
Probab=95.81 E-value=0.052 Score=55.75 Aligned_cols=111 Identities=24% Similarity=0.238 Sum_probs=69.3
Q ss_pred ceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccccccc-CCCCccccccccccccceeeeCCCCCCccchhhhhhh
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEI-SPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNL 205 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEi-Spr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~ 205 (310)
..-||.-|.-...-....+. .+..-|+++.-+|+|||||- .+.|- -||.|.|.=+- +. ..
T Consensus 317 ~~vLRTHTTa~s~r~L~~~~--~~~~~p~k~fsigrVfR~d~iDatH~----~eFhQ~EG~vv-d~-~~----------- 377 (492)
T PLN02853 317 KNLLRTHTTAVSSRMLYKLA--QKGFKPKRYFSIDRVFRNEAVDRTHL----AEFHQVEGLVC-DR-GL----------- 377 (492)
T ss_pred ccccCCCCCHHHHHHHHHhh--ccCCCCcEEEeccceecCCCCCcccC----ccceeEEEEEE-eC-CC-----------
Confidence 45788888765442222211 12248999999999999994 56653 57999886543 11 11
Q ss_pred hhhcchhhhhhccccceEEEecccccccccChHHHHHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEc
Q 041441 206 EFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIEC 285 (310)
Q Consensus 206 ~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~ 285 (310)
.++--++.+..|+.++|+ ..+||+- .==.|=-|- +.+++..
T Consensus 378 ---------------------------------t~~~L~g~l~~f~~~lg~--~~~RfrP---~yfPfTEPS-~Ei~v~~ 418 (492)
T PLN02853 378 ---------------------------------TLGDLIGVLEDFFSRLGM--TKLRFKP---AYNPYTEPS-MEIFSYH 418 (492)
T ss_pred ---------------------------------CHHHHHHHHHHHHHHcCC--ceEEEec---CCCCCCCCe-EEEEEEe
Confidence 122244667888888887 6788873 233333343 5565544
Q ss_pred -CCC-eEEEeeh
Q 041441 286 -SYG-WIECVGI 295 (310)
Q Consensus 286 -~~G-w~E~~gi 295 (310)
..| |+|+.|+
T Consensus 419 ~~~gkWiEi~g~ 430 (492)
T PLN02853 419 EGLKKWVEVGNS 430 (492)
T ss_pred cCCCCEEEEecC
Confidence 346 9999886
No 66
>COG0016 PheS Phenylalanyl-tRNA synthetase alpha subunit [Translation, ribosomal structure and biogenesis]
Probab=95.52 E-value=0.076 Score=52.14 Aligned_cols=150 Identities=21% Similarity=0.328 Sum_probs=88.3
Q ss_pred HHHHHHHHHhCCCCCCCCCCC-CCCcccceeeeeeeccCCC--Cce---------ecCCCchhhHHHHHhhhhhhccCCC
Q 041441 86 EELGAKIKEYGITAPDTKNPL-SDPYPFNLMFQTSVGPSGL--TAA---------YVRPETAPGIFVNFKDLYYNNGNKL 153 (310)
Q Consensus 86 ~~~~~~i~~~~i~cP~~g~~l-~~~~~FNLMF~t~iGp~~~--~~~---------yLRPETAQgif~nFk~~l~s~r~kL 153 (310)
+++.++..+.|..-. -|..+ ++-.+|-.+|..+==|.-+ .+- -||--|.+--- |.+.... +-
T Consensus 118 e~i~~iF~~mGF~~~-~gp~IE~d~~NFDaLn~P~dHPARdmqDTFy~~~~~~~~lLRTHTs~vq~----R~l~~~~-~~ 191 (335)
T COG0016 118 EEIEDIFLGMGFTEV-EGPEIETDFYNFDALNIPQDHPARDMQDTFYLKDDREKLLLRTHTSPVQA----RTLAENA-KI 191 (335)
T ss_pred HHHHHHHHHcCceec-cCCcccccccchhhhcCCCCCCcccccceEEEcCCCCceeecccCcHhhH----HHHHhCC-CC
Confidence 455555555554322 12222 5667788888777666422 234 45555554211 2222222 34
Q ss_pred Cceeeecccccccc-cCCCCccccccccccccceeeeCCCCCCccchhhhhhhhhhcchhhhhhccccceEEEecccccc
Q 041441 154 PFAAAQIGQAFRNE-ISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEAVSR 232 (310)
Q Consensus 154 Pf~iAqiGk~fRNE-iSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a~~~ 232 (310)
|+++.-+|+||||+ ....|.. +|.|.|. +-++.+-.
T Consensus 192 P~k~~~~grvyR~D~~DaTHs~----~FhQiEG-lvvd~~~s-------------------------------------- 228 (335)
T COG0016 192 PIKIFSPGRVYRNDTVDATHSP----EFHQIEG-LVVDKNIS-------------------------------------- 228 (335)
T ss_pred CceEecccceecCCCCCcccch----heeeeEE-EEEeCCcc--------------------------------------
Confidence 99999999999999 5567654 5888887 33333221
Q ss_pred cccChHHHHHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcC--CCeEEEeeh
Q 041441 233 GIVNNETIGYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECS--YGWIECVGI 295 (310)
Q Consensus 233 ~~i~~e~~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~--~Gw~E~~gi 295 (310)
+.--...+..|+.+++-....+|||- .==.|=-|- +++++..+ -||.|+.|+
T Consensus 229 -------~~~Lkg~L~~f~~~~fg~~~~vRfrp---syFPFTEPS-~Evdv~~~~~~~WlEi~G~ 282 (335)
T COG0016 229 -------FADLKGTLEEFAKKFFGEDVKVRFRP---SYFPFTEPS-AEVDVYCPGCGGWLEILGC 282 (335)
T ss_pred -------HHHHHHHHHHHHHHhcCCCcceEeec---CCCCCCCCe-EEEEEEEcCCCCEEEEecc
Confidence 11223457788888875545788873 233344454 77777765 569999996
No 67
>cd00669 Asp_Lys_Asn_RS_core Asp_Lys_Asn_tRNA synthetase class II core domain. This domain is the core catalytic domain of class II aminoacyl-tRNA synthetases of the subgroup containing aspartyl, lysyl, and asparaginyl tRNA synthetases. It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. Nearly all class II tRNA synthetases are dimers and enzymes in this subgroup are homodimers. These enzymes attach a specific amino acid to the 3' OH group of ribose of the appropriate tRNA.
Probab=95.48 E-value=0.0083 Score=56.84 Aligned_cols=50 Identities=32% Similarity=0.456 Sum_probs=35.8
Q ss_pred CCceecC--CCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCcccccccccccccee
Q 041441 125 LTAAYVR--PETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEH 187 (310)
Q Consensus 125 ~~~~yLR--PETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~ 187 (310)
+...||| ||..- ++.+-+. +. ++.|||+|||+| ++.+ -|++||||.|++.
T Consensus 48 g~~~~L~~Spql~~------~~~~~~~---~~-~vf~i~~~fR~e-~~~~--~hl~EF~~le~e~ 99 (269)
T cd00669 48 GLDYYLRISPQLFK------KRLMVGG---LD-RVFEINRNFRNE-DLRA--RHQPEFTMMDLEM 99 (269)
T ss_pred CCcEEeecCHHHHH------HHHHhcC---CC-cEEEEecceeCC-CCCC--CcccceeEEEEEE
Confidence 4679999 86432 2222221 11 899999999999 6644 4899999999984
No 68
>PRK09350 poxB regulator PoxA; Provisional
Probab=95.13 E-value=0.0089 Score=57.54 Aligned_cols=50 Identities=28% Similarity=0.288 Sum_probs=37.3
Q ss_pred CCceecC--CCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCcccccccccccccee
Q 041441 125 LTAAYVR--PETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEH 187 (310)
Q Consensus 125 ~~~~yLR--PETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~ 187 (310)
+...||| ||-+ .++++-+. +. ++.|+|+|||||-| .+ -+.+||||.|++.
T Consensus 57 ~~~~~L~~SPe~~------~kr~la~~---~~-rvf~i~~~FR~e~~-~~--~H~~EFt~lE~y~ 108 (306)
T PRK09350 57 GKTLWLMTSPEYH------MKRLLAAG---SG-PIFQICKSFRNEEA-GR--YHNPEFTMLEWYR 108 (306)
T ss_pred CcceEEecCHHHH------HHHHhhcc---cc-ceEEecceeecCCC-CC--CCCcHHHhhhhhh
Confidence 3578999 9765 45544322 33 99999999999987 33 5788999999973
No 69
>PRK06462 asparagine synthetase A; Reviewed
Probab=95.05 E-value=0.047 Score=53.25 Aligned_cols=158 Identities=17% Similarity=0.118 Sum_probs=82.8
Q ss_pred CCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccce-eeeCCCCCCccchhhhh
Q 041441 125 LTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIE-HFVDPKDKSHPKFSEVK 203 (310)
Q Consensus 125 ~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e-~F~~P~q~~~~e~~~v~ 203 (310)
+.++||++.. .+ +|+++-..- =+|.|||+|||||-|...+--..-||||.|++ .|.+=++ -...+.
T Consensus 82 ~~~~yL~~Sp---ql--~k~ll~~g~----~rVfeI~p~FR~E~~~~~~~rHl~EFtmlE~e~~~~d~~d----lm~~~e 148 (335)
T PRK06462 82 GVEYYLADSM---IL--HKQLALRML----GKIFYLSPNFRLEPVDKDTGRHLYEFTQLDIEIEGADLDE----VMDLIE 148 (335)
T ss_pred CCceeeccCH---HH--HHHHHHhhc----CcEEEEeccccCCCCCCCCCCCCCchheeeehhhcCCHHH----HHHHHH
Confidence 3578997632 22 477665332 37999999999998754223457899999998 4433222 222233
Q ss_pred hhhhhcch----hhhh-h--cc-------ccceEEEeccccc--ccc-cChHHHHHHHHHHHHHHHHcCCCCCCCceeec
Q 041441 204 NLEFLMFP----REEQ-M--SA-------QSAKKIRLGEAVS--RGI-VNNETIGYFIGRVYLFLSRLGIDQDHLRFRQH 266 (310)
Q Consensus 204 d~~~~~~~----~~~q-~--~~-------~~~~~~s~~~a~~--~~~-i~~e~~~y~~~~~~~~l~~~Gi~~~~lrfr~~ 266 (310)
+++..++. .... . .+ ..-.+||..+|.+ +.. ++.+..+.....-..+|.+.= ++.-|-.+
T Consensus 149 ~lv~~i~~~~~~~~~~~i~~~~~~~~~~~~p~~rit~~eA~~~l~~~~~~~~~~~~l~~~~E~~l~~~~---~~p~fi~~ 225 (335)
T PRK06462 149 DLIKYLVKELLEEHEDELEFFGRDLPHLKRPFKRITHKEAVEILNEEGCRGIDLEELGSEGEKSLSEHF---EEPFWIID 225 (335)
T ss_pred HHHHHHHHHHHhhhHHHHHhcCCccccCCCCCeEEEHHHHHHHHHhcCCCcchHHHHhHHHHHHHHHHh---CCCEEEEC
Confidence 33322221 1100 0 01 1235678888754 211 112222222222333343211 22245555
Q ss_pred cCCc-cccccCc-------eeeEEEEcCCCeEEEeehccC
Q 041441 267 LANE-MAHYAAD-------CWDAEIECSYGWIECVGIADR 298 (310)
Q Consensus 267 ~~~E-~AhYg~k-------~~D~e~~~~~Gw~E~~gia~R 298 (310)
-|-+ .+||... +-.+++..+.|+.|++|=+-|
T Consensus 226 yP~~~~pfy~~~~~~~~~~~~rFdL~~~~g~gEl~~g~er 265 (335)
T PRK06462 226 IPKGSREFYDREDPERPGVLRNYDLLLPEGYGEAVSGGER 265 (335)
T ss_pred CChhhCCcccccCCCCCCEEEEEEEEeeCCCcEEeeeEEE
Confidence 5656 8999852 114555557799999887655
No 70
>KOG4163 consensus Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=92.15 E-value=0.053 Score=54.87 Aligned_cols=86 Identities=20% Similarity=0.312 Sum_probs=72.9
Q ss_pred CceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCcccccccccccccee-eeCCCCCCccchhhhhh
Q 041441 126 TAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEH-FVDPKDKSHPKFSEVKN 204 (310)
Q Consensus 126 ~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~-F~~P~q~~~~e~~~v~d 204 (310)
.+.-.||=.--=||-.|..-.+|+| +||+.+-|--.|-|-|....+=.+|.|||-=-|.|- |.+|+.. .+|...++|
T Consensus 158 epiaiRPTSETvmyp~yakWi~ShR-DLPlkLNQW~nVvRWEfk~p~PFlRtrEFLWQEGHTAfat~~eA-~eEvlqiLd 235 (551)
T KOG4163|consen 158 EPIAIRPTSETVMYPYYAKWIQSHR-DLPLKLNQWCNVVRWEFKHPQPFLRTREFLWQEGHTAFATPEEA-EEEVLQILD 235 (551)
T ss_pred cceeeccCccceecHHHHHHHHhhc-cCchhhhhhhhheeeeccCCCcchhhhHHHHhcCcchhCCHhHH-HHHHHHHHH
Confidence 3677888555567888999999999 999999999999999999878889999998888885 7788887 688888999
Q ss_pred hhhhcchhh
Q 041441 205 LEFLMFPRE 213 (310)
Q Consensus 205 ~~~~~~~~~ 213 (310)
+...+|...
T Consensus 236 lYa~vy~el 244 (551)
T KOG4163|consen 236 LYARVYEEL 244 (551)
T ss_pred HHHHHHHhh
Confidence 888877653
No 71
>cd00496 PheRS_alpha_core Phenylalanyl-tRNA synthetase (PheRS) alpha chain catalytic core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. PheRS is an alpha-2/ beta-2 tetramer.
Probab=91.92 E-value=2.1 Score=39.02 Aligned_cols=53 Identities=21% Similarity=0.156 Sum_probs=38.1
Q ss_pred ceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceee
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHF 188 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F 188 (310)
..+|||.+..|+.- .+..+ ..|+++.|+|+|||++-+.... ++||++..+-+-
T Consensus 59 ~~~LR~sLlp~LL~----~l~~N--~~~~~lFEiG~Vf~~~~~~~~~---~~E~~~l~~~~~ 111 (218)
T cd00496 59 RLLLRTHTSAVQAR----ALAKL--KPPIRIFSIGRVYRNDEIDATH---LPEFHQIEGLVV 111 (218)
T ss_pred eEEEeccCcHHHHH----HHHhc--CCCeeEEEEcCeEECCCCCCCc---CCccEEEEEEEE
Confidence 58999999999983 23333 5899999999999997533211 348887775543
No 72
>PLN02788 phenylalanine-tRNA synthetase
Probab=90.88 E-value=1.2 Score=44.83 Aligned_cols=117 Identities=14% Similarity=0.163 Sum_probs=71.1
Q ss_pred ceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccc-cCCCCccccccccccccceeeeCCCCCCccchhhhhhh
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNE-ISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNL 205 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNE-iSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~ 205 (310)
..-||.-|.-+..--+.+ ..| ++--.|+||||+ |...|.- +|.|+|.=.--++++.. .+
T Consensus 128 ~~lLRTHTSa~q~~~l~~-------~~~-~~~~~g~VyRrD~iD~tH~p----~FhQ~EG~~v~~~~~~~-~~------- 187 (402)
T PLN02788 128 QTVLRCHTSAHQAELLRA-------GHT-HFLVTGDVYRRDSIDATHYP----VFHQMEGVRVFSPEEWE-AS------- 187 (402)
T ss_pred CccccCCCcHHHHHHHHh-------CCC-cEEEEeeEeecCCCCcccCc----cceeEEEEEEecccccc-cc-------
Confidence 356777777655432222 224 899999999999 4667753 59999976665554421 00
Q ss_pred hhhcchhhhhhccccceEEEecccccccccChHHHHHHHHHHHHHHHHc-CCCCCCCceeeccCCccccccCceeeEEEE
Q 041441 206 EFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYFIGRVYLFLSRL-GIDQDHLRFRQHLANEMAHYAADCWDAEIE 284 (310)
Q Consensus 206 ~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~~~~~~~~l~~~-Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~ 284 (310)
+.+...+ ..+.-.+.+..++..+ |+ .++||+. ..-.|.-|. +.+++.
T Consensus 188 ------------~~~~~~~--------------~~~dLKg~Le~l~~~lfg~--~~~r~~~---s~fPft~Ps-~e~dI~ 235 (402)
T PLN02788 188 ------------GLDGTDL--------------AAEDLKKTLEGLARHLFGD--VEMRWVD---AYFPFTNPS-FELEIF 235 (402)
T ss_pred ------------ccccccc--------------CHHHHHHHHHHHHHHhcCC--CceEEec---CCCCCCCCC-eEEEEE
Confidence 0000011 1222344566667777 87 3677753 455677776 777777
Q ss_pred cCCCeEEEeeh
Q 041441 285 CSYGWIECVGI 295 (310)
Q Consensus 285 ~~~Gw~E~~gi 295 (310)
..-+|.|+.|+
T Consensus 236 ~~g~WlEvlG~ 246 (402)
T PLN02788 236 FKGEWLEVLGC 246 (402)
T ss_pred ECCEEEEEeeE
Confidence 65569999974
No 73
>cd00777 AspRS_core Asp tRNA synthetase (aspRS) class II core domain. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. AspRS is a homodimer, which attaches a specific amino acid to the 3' OH group of ribose of the appropriate tRNA. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. AspRS in this family differ from those found in the AsxRS family by a GAD insert in the core domain.
Probab=90.18 E-value=0.15 Score=48.55 Aligned_cols=30 Identities=37% Similarity=0.382 Sum_probs=24.7
Q ss_pred eeeecccccccccCCCCccccccccccccceee
Q 041441 156 AAAQIGQAFRNEISPRQGFSRVREFTLAEIEHF 188 (310)
Q Consensus 156 ~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F 188 (310)
++.|||++||||-+... |-+||||.|+|.=
T Consensus 71 ~v~~i~~~fR~e~~~~~---r~~Ef~~~e~e~~ 100 (280)
T cd00777 71 RYFQIARCFRDEDLRAD---RQPEFTQIDIEMS 100 (280)
T ss_pred cEEEeccceeCCCCCCC---ccceeEEeEeeec
Confidence 69999999999987532 5569999999953
No 74
>PRK06253 O-phosphoseryl-tRNA synthetase; Reviewed
Probab=88.81 E-value=3.5 Score=42.94 Aligned_cols=41 Identities=24% Similarity=0.425 Sum_probs=34.0
Q ss_pred CceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccccccc
Q 041441 126 TAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEI 168 (310)
Q Consensus 126 ~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEi 168 (310)
+..+|||-+.-|++.+-.+.+. |+..|+++.|+|+|||++-
T Consensus 182 ~~svLRtSLlPGLL~tLs~Nl~--Rg~~piRLFEIGRVFr~d~ 222 (529)
T PRK06253 182 SRLTLRSHMTSGWFITLSSLLE--KRPLPIKLFSIDRCFRREQ 222 (529)
T ss_pred ccCccccchHHHHHHHHHHHHh--CCCCCEEEEEEeeEEecCC
Confidence 4689999999999987766654 4579999999999998753
No 75
>COG3705 HisZ ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]
Probab=88.04 E-value=0.58 Score=46.95 Aligned_cols=99 Identities=24% Similarity=0.282 Sum_probs=65.3
Q ss_pred eeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeCCCCC
Q 041441 115 MFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDK 194 (310)
Q Consensus 115 MF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~ 194 (310)
||++. ...++ ..-||||-.--|=- ...++.. ..|.|++=.|+|||.. .+++| |-.||+|.=+|.+=++.-.
T Consensus 62 ~f~l~-d~~g~-~l~LRpD~T~pVaR---~~~~~~~-~~P~Rl~Y~G~Vfr~~-~~~~g--~~~Ef~QaGiEllG~~~~~ 132 (390)
T COG3705 62 LFKLE-DETGG-RLGLRPDFTIPVAR---IHATLLA-GTPLRLSYAGKVFRAR-EGRHG--RRAEFLQAGIELLGDDSAA 132 (390)
T ss_pred heEEe-cCCCC-eEEecccccHHHHH---HHHHhcC-CCCceeeecchhhhcc-hhccC--cccchhhhhhHHhCCCcch
Confidence 45543 34444 48999994433332 2223334 4999999999999999 77777 7779999999999985443
Q ss_pred CccchhhhhhhhhhcchhhhhhccccceEEEeccc
Q 041441 195 SHPKFSEVKNLEFLMFPREEQMSAQSAKKIRLGEA 229 (310)
Q Consensus 195 ~~~e~~~v~d~~~~~~~~~~q~~~~~~~~~s~~~a 229 (310)
.. .+|..+...++.. .+....+|.++++
T Consensus 133 --AD-aEvi~la~~~L~~----~gl~~~~l~LG~~ 160 (390)
T COG3705 133 --AD-AEVIALALAALKA----LGLADLKLELGHA 160 (390)
T ss_pred --hh-HHHHHHHHHHHHH----cCCcCeEEEeccH
Confidence 22 2355555555544 3356788888765
No 76
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=87.36 E-value=0.21 Score=53.54 Aligned_cols=51 Identities=31% Similarity=0.396 Sum_probs=34.6
Q ss_pred hhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccce-eeeCCCC
Q 041441 136 PGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIE-HFVDPKD 193 (310)
Q Consensus 136 Qgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e-~F~~P~q 193 (310)
|.--. |++.+-... + =++.|||+|||+|-+... |-=||||.|+| -|++-++
T Consensus 210 qSPQl-ykq~lm~~G--~-~rvfqI~~~FR~E~~~t~---r~pEFT~LE~E~af~d~~d 261 (706)
T PRK12820 210 QSPQL-FKQLLMIAG--F-ERYFQLARCFRDEDLRPN---RQPEFTQLDIEASFIDEEF 261 (706)
T ss_pred CCHHH-HHHHHHhcc--C-CcEEEEechhcCCCCCCC---cCccccccceeeccCCHHH
Confidence 55443 777653221 1 269999999999987522 45799999999 6665433
No 77
>TIGR00459 aspS_bact aspartyl-tRNA synthetase, bacterial type. In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_bact, represents aspartyl-tRNA synthetases from the Bacteria and from mitochondria. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn). This model generates very low scores for the archaeal type of aspS and for asnS; scores between the trusted and noise cutoffs represent fragmentary sequences.
Probab=87.02 E-value=0.33 Score=51.04 Aligned_cols=48 Identities=31% Similarity=0.416 Sum_probs=32.5
Q ss_pred hhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccce-eeeC
Q 041441 136 PGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIE-HFVD 190 (310)
Q Consensus 136 Qgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e-~F~~ 190 (310)
|.--. |++.+-... + =++.|||+|||||-+... |--||||.|+| -|++
T Consensus 192 qSpQl-ykq~l~v~G--~-ervfqI~~~FR~E~~~t~---r~pEFT~le~E~af~d 240 (583)
T TIGR00459 192 QSPQL-FKQLLMVSG--V-DRYYQIARCFRDEDLRAD---RQPEFTQIDMEMSFMT 240 (583)
T ss_pred CCHHH-HHHHHHhcc--c-CcEEEEcceeeCCCCCCC---CCcccCcceeeecCCC
Confidence 44442 666443222 2 269999999999987532 44799999999 5654
No 78
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=85.83 E-value=0.4 Score=49.31 Aligned_cols=55 Identities=31% Similarity=0.433 Sum_probs=36.7
Q ss_pred CCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCcccccccccccccee-eeC
Q 041441 125 LTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEH-FVD 190 (310)
Q Consensus 125 ~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~-F~~ 190 (310)
+...||| ++.-.| -|+++-+.- =++.|||+|||||-+.. -+.=||||.|+|. |++
T Consensus 219 ~~~~yL~--~Spql~--lk~l~v~g~----~rVfei~~~FR~E~~~~---rH~pEFt~lE~e~a~~d 274 (491)
T PRK00484 219 DIDLYLR--IAPELY--LKRLIVGGF----ERVYEIGRNFRNEGIDT---RHNPEFTMLEFYQAYAD 274 (491)
T ss_pred CCceEec--cCHHHH--HHHHHhccC----CcEEEEecceecCCCCC---CcCCceEEEEEEEecCC
Confidence 3568987 232233 344443221 26999999999997753 6778999999984 443
No 79
>PLN02903 aminoacyl-tRNA ligase
Probab=84.55 E-value=0.49 Score=50.42 Aligned_cols=48 Identities=29% Similarity=0.386 Sum_probs=32.7
Q ss_pred hhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccce-eeeC
Q 041441 136 PGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIE-HFVD 190 (310)
Q Consensus 136 Qgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e-~F~~ 190 (310)
|.--. |++.+-... + =++.|||+|||+|-+... |--||||.|+| -|++
T Consensus 258 qSPQl-ykQ~Lm~~G--~-~RvFqIa~~FR~E~~~t~---RhpEFTqLE~E~sf~d 306 (652)
T PLN02903 258 QSPQL-FKQMLMVSG--F-DRYYQIARCFRDEDLRAD---RQPEFTQLDMELAFTP 306 (652)
T ss_pred CCHHH-HHHHHHhcc--C-CcEEEEehhhccCCCCCC---cccceeeeeeeecCCC
Confidence 44443 666543222 1 269999999999977522 44799999999 4554
No 80
>PRK06266 transcription initiation factor E subunit alpha; Validated
Probab=84.52 E-value=0.68 Score=41.50 Aligned_cols=15 Identities=33% Similarity=0.702 Sum_probs=11.9
Q ss_pred HhCCCCCCCCCCCCC
Q 041441 94 EYGITAPDTKNPLSD 108 (310)
Q Consensus 94 ~~~i~cP~~g~~l~~ 108 (310)
+++..||.||+.|.+
T Consensus 134 ~~~F~Cp~Cg~~L~~ 148 (178)
T PRK06266 134 EYGFRCPQCGEMLEE 148 (178)
T ss_pred hcCCcCCCCCCCCee
Confidence 478899999997653
No 81
>cd00776 AsxRS_core Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as a subgroup of AspRS. AsnRS and AspRS are homodimers, which attach either asparagine or aspartate to the 3'OH group of ribose of the appropriate tRNA. While archaea lack asnRS, they possess a non-discriminating aspRS, which can mischarge Asp-tRNA with Asn. Subsequently, a tRNA-dependent aspartate amidotransferase converts the bound aspartate to asparagine. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate.
Probab=84.11 E-value=0.5 Score=45.83 Aligned_cols=52 Identities=25% Similarity=0.207 Sum_probs=34.4
Q ss_pred CceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceee
Q 041441 126 TAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHF 188 (310)
Q Consensus 126 ~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F 188 (310)
.++||+. ..-..=+.++-... ++.|||+|||||-|- +---+-||||.|+|.-
T Consensus 70 ~~~yL~~----Spql~lk~l~~~~~-----~vf~i~~~FR~E~~~--~~rHl~EFtmlE~e~~ 121 (322)
T cd00776 70 KPAYLAQ----SPQLYKEMLIAALE-----RVYEIGPVFRAEKSN--TRRHLSEFWMLEAEMA 121 (322)
T ss_pred CcceecC----CHHHHHHHHHHhhh-----hhEEeccccccCCCC--cCCCcceeeccceeee
Confidence 5788873 22222344443322 689999999999653 2235789999999954
No 82
>PRK00476 aspS aspartyl-tRNA synthetase; Validated
Probab=83.68 E-value=0.55 Score=49.43 Aligned_cols=48 Identities=35% Similarity=0.398 Sum_probs=31.3
Q ss_pred hhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccce-eeeC
Q 041441 136 PGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIE-HFVD 190 (310)
Q Consensus 136 Qgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e-~F~~ 190 (310)
|.-- .|++.+-... + =++.|||+|||+|-|-.. |--||||.|+| -|++
T Consensus 195 qSpq-l~kq~l~~~g--~-~rvfqi~~~FR~E~~~~~---r~~EFt~le~e~af~~ 243 (588)
T PRK00476 195 QSPQ-LFKQLLMVAG--F-DRYYQIARCFRDEDLRAD---RQPEFTQIDIEMSFVT 243 (588)
T ss_pred CCHH-HHHHHHHhcc--c-CceEEEeceeecCCCCCC---cCcccccceeeecCCC
Confidence 4444 2666443222 2 269999999999986311 33399999999 5654
No 83
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=83.47 E-value=0.56 Score=48.47 Aligned_cols=52 Identities=25% Similarity=0.292 Sum_probs=35.0
Q ss_pred CceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceee
Q 041441 126 TAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHF 188 (310)
Q Consensus 126 ~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F 188 (310)
...|||=-+ -.| -|+++-..- =++.|||++||||-+. --..=||||.|++.=
T Consensus 232 ~~~yL~~Sp--ELy--lKrlivgG~----~rVfeIg~~FRnE~~~---~rH~pEFTmlE~y~a 283 (505)
T PRK12445 232 LDMYLRIAP--ELY--LKRLVVGGF----ERVFEINRNFRNEGIS---VRHNPEFTMMELYMA 283 (505)
T ss_pred cceeeecCH--HHH--HHHHHhccC----CcEEEEehhccCCCCC---CCcCcccceeeeeee
Confidence 468987433 122 355443221 2699999999999763 356779999999964
No 84
>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=83.42 E-value=0.35 Score=32.11 Aligned_cols=15 Identities=13% Similarity=0.135 Sum_probs=12.9
Q ss_pred ceeeccCCceeccch
Q 041441 35 MVKDEKTGTFYRADQ 49 (310)
Q Consensus 35 mv~c~~~~~~~RaD~ 49 (310)
.+.|..|+..||.|.
T Consensus 2 ~~~CP~C~~~~~v~~ 16 (38)
T TIGR02098 2 RIQCPNCKTSFRVVD 16 (38)
T ss_pred EEECCCCCCEEEeCH
Confidence 478999999998775
No 85
>PF00152 tRNA-synt_2: tRNA synthetases class II (D, K and N) ; InterPro: IPR004364 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 includes the asparagine, aspartic acid and lysine tRNA synthetases.; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 1N9W_B 1BBU_A 1BBW_A 4EX5_B 3E9I_A 3E9H_C 3A74_C 1NNH_A 3M4P_C 3M4Q_B ....
Probab=83.21 E-value=0.67 Score=44.75 Aligned_cols=57 Identities=32% Similarity=0.318 Sum_probs=35.0
Q ss_pred CCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCcccccccccccccee-eeCC
Q 041441 125 LTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEH-FVDP 191 (310)
Q Consensus 125 ~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~-F~~P 191 (310)
+.++||+.---.. -+.++.+.- =+|.|||+|||||-| ++-.=+-||||.|+|. |++-
T Consensus 72 ~~~~~L~~Spql~----~k~ll~~g~----~~vf~i~~~FR~E~~--~~~rHl~EFtmLE~e~a~~~~ 129 (335)
T PF00152_consen 72 GEPAYLTQSPQLY----LKRLLAAGL----ERVFEIGPCFRNEES--RTRRHLPEFTMLEWEMAFADY 129 (335)
T ss_dssp TEEEEE-SSSHHH----HHHHHHTTH----SEEEEEEEEE-BSSS--CBTTBSSEEEEEEEEEETSSH
T ss_pred ccceecCcChHHH----Hhhhccccc----hhhhheecceeccCc--ccccchhhhhhhhhccccCcH
Confidence 3578898754332 223333311 269999999999977 2222357999999998 4443
No 86
>TIGR00462 genX lysyl-tRNA synthetase-like protein GenX. Many Gram-negative bacteria have a protein closely homologous to the C-terminal region of lysyl-tRNA synthetase (LysS). Multiple sequence alignment of these proteins with the homologous regions of collected LysS proteins shows that these proteins form a distinct set rather than just similar truncations of LysS. The protein is termed GenX after its designation in E. coli. Interestingly, genX often is located near a homolog of lysine-2,3-aminomutase. Its function is unknown.
Probab=83.19 E-value=0.41 Score=46.05 Aligned_cols=30 Identities=30% Similarity=0.206 Sum_probs=24.8
Q ss_pred eeeecccccccccCCCCccccccccccccceee
Q 041441 156 AAAQIGQAFRNEISPRQGFSRVREFTLAEIEHF 188 (310)
Q Consensus 156 ~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F 188 (310)
+|.|||+|||||-|. --.+=||||.|++..
T Consensus 75 rVfeigp~FRaE~~~---~rHl~EFtmLE~e~~ 104 (304)
T TIGR00462 75 PIFQICKVFRNGERG---RRHNPEFTMLEWYRP 104 (304)
T ss_pred CEEEEcCceeCCCCC---CCcccHHHhHHHHHH
Confidence 699999999999884 245679999999743
No 87
>PF14353 CpXC: CpXC protein
Probab=83.14 E-value=0.83 Score=38.14 Aligned_cols=66 Identities=18% Similarity=0.281 Sum_probs=37.7
Q ss_pred eeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCCHHHHHHHHHH---hCCCCCCCCCCCCCCccc
Q 041441 36 VKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLSVEELGAKIKE---YGITAPDTKNPLSDPYPF 112 (310)
Q Consensus 36 v~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~---~~i~cP~~g~~l~~~~~F 112 (310)
+.|..||..|.++--- .++.....+|.+.|.+ +-..||.||....-..+|
T Consensus 2 itCP~C~~~~~~~v~~---------------------------~I~~~~~p~l~e~il~g~l~~~~CP~Cg~~~~~~~p~ 54 (128)
T PF14353_consen 2 ITCPHCGHEFEFEVWT---------------------------SINADEDPELKEKILDGSLFSFTCPSCGHKFRLEYPL 54 (128)
T ss_pred cCCCCCCCeeEEEEEe---------------------------EEcCcCCHHHHHHHHcCCcCEEECCCCCCceecCCCE
Confidence 5799999998877631 0222222344444443 234899999853332222
Q ss_pred ceeeeeeeccCCCCceecCCC
Q 041441 113 NLMFQTSVGPSGLTAAYVRPE 133 (310)
Q Consensus 113 NLMF~t~iGp~~~~~~yLRPE 133 (310)
.+.-|...-..|+.|+
T Consensus 55 -----lY~D~~~~~~i~~~P~ 70 (128)
T PF14353_consen 55 -----LYHDPEKKFMIYYFPD 70 (128)
T ss_pred -----EEEcCCCCEEEEEcCC
Confidence 1345555556788888
No 88
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=82.99 E-value=0.62 Score=49.68 Aligned_cols=30 Identities=40% Similarity=0.453 Sum_probs=25.4
Q ss_pred eeeecccccccccCCCCccccccccccccceee
Q 041441 156 AAAQIGQAFRNEISPRQGFSRVREFTLAEIEHF 188 (310)
Q Consensus 156 ~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F 188 (310)
++.|||++||||-+.+ -..=||||.|+|.-
T Consensus 303 rVyeIg~~FRnE~~~~---rH~pEFTmlE~y~a 332 (659)
T PTZ00385 303 RIYEIGKVFRNEDADR---SHNPEFTSCEFYAA 332 (659)
T ss_pred CEEEEeceecCCCCCC---Cccccccceeeeee
Confidence 6999999999998763 46789999999943
No 89
>KOG1936 consensus Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=82.05 E-value=1.7 Score=44.33 Aligned_cols=108 Identities=16% Similarity=0.222 Sum_probs=68.1
Q ss_pred ceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCC-CCccccccccccccceeeeCCCCCCccchhhhhhh
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISP-RQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNL 205 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSp-r~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~ 205 (310)
.-=|||+..- -|.|.+-.+ +---+--.+|+++||..--. -.| |.|||.|.|.-|-=.=++. -|+ .++...
T Consensus 128 l~SLRYDLTV----PfARylAmN-ki~sikRy~iAkVyRRd~P~mtrG--R~REFYQcDFDIAG~~d~M-~pd-aE~lki 198 (518)
T KOG1936|consen 128 LCSLRYDLTV----PFARYLAMN-KITSIKRYHIAKVYRRDQPAMTRG--RYREFYQCDFDIAGQFDPM-IPD-AECLKI 198 (518)
T ss_pred EEEeeccccc----HHHHHHHHc-ccccceeeeEEEEEeccCchhhch--hhhhhhccCccccccCCCC-Cch-HHHHHH
Confidence 4568998764 466655554 35667789999999998543 566 9999999998886543333 222 234455
Q ss_pred hhhcchhhhhhccccceEEEecccccccccChHHHHHHHHHHHHHHHHcCCCCCCCc
Q 041441 206 EFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYFIGRVYLFLSRLGIDQDHLR 262 (310)
Q Consensus 206 ~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~~~~~~~~l~~~Gi~~~~lr 262 (310)
+..+++.. +.+ .+.+++..+ ..+...++..|+|.+.+|
T Consensus 199 v~e~L~~l---~Ig-d~~iKvNhR---------------kiLdgmf~v~GVp~~~fr 236 (518)
T KOG1936|consen 199 VVEILSRL---GIG-DYGIKVNHR---------------KILDGMFAVCGVPEDKFR 236 (518)
T ss_pred HHHHHhhc---Ccc-ceEEEecHH---------------HHHHHHHHHhCCCHHHhh
Confidence 55566654 223 455566321 234455667777776655
No 90
>KOG2411 consensus Aspartyl-tRNA synthetase, mitochondrial [Translation, ribosomal structure and biogenesis]
Probab=81.86 E-value=1.5 Score=45.49 Aligned_cols=74 Identities=23% Similarity=0.326 Sum_probs=53.1
Q ss_pred ceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeeeCCCCCCccchhhhhhhh
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVKNLE 206 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~d~~ 206 (310)
..|-=|..-| +||+++=..+- =++.||.+|||.|-+- --|--||||-|+|.=..+.. +-.+-+.|+.
T Consensus 227 ~FYaLpQSPQ----QfKQlLMvsGi---drYyQiARCfRDEdlR---~DRQPEFTQvD~EMsF~~~~---dim~liEdll 293 (628)
T KOG2411|consen 227 KFYALPQSPQ----QFKQLLMVSGI---DRYYQIARCFRDEDLR---ADRQPEFTQVDMEMSFTDQE---DIMKLIEDLL 293 (628)
T ss_pred ceeecCCCHH----HHHHHHHHhch---hhHHhHHhhhcccccC---cccCCcceeeeeEEeccCHH---HHHHHHHHHH
Confidence 4677776666 79998876552 2689999999999652 13567999999998666532 3345677788
Q ss_pred hhcchhh
Q 041441 207 FLMFPRE 213 (310)
Q Consensus 207 ~~~~~~~ 213 (310)
..+++.+
T Consensus 294 ~~~ws~~ 300 (628)
T KOG2411|consen 294 RYVWSED 300 (628)
T ss_pred HHhchhh
Confidence 8777764
No 91
>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=81.62 E-value=0.89 Score=39.92 Aligned_cols=14 Identities=29% Similarity=0.370 Sum_probs=11.0
Q ss_pred HhCCCCCCCCCCCC
Q 041441 94 EYGITAPDTKNPLS 107 (310)
Q Consensus 94 ~~~i~cP~~g~~l~ 107 (310)
+++..||.||+.|.
T Consensus 126 ~~~F~Cp~Cg~~L~ 139 (158)
T TIGR00373 126 ELNFTCPRCGAMLD 139 (158)
T ss_pred HcCCcCCCCCCEee
Confidence 36889999998643
No 92
>cd00775 LysRS_core Lys_tRNA synthetase (LysRS) class II core domain. Class II LysRS is a dimer which attaches a lysine to the 3' OH group of ribose of the appropriate tRNA. Its assignment to class II aaRS is based upon its structure and the presence of three characteristic sequence motifs in the core domain. It is found in eukaryotes as well as some prokaryotes and archaea. However, LysRS belongs to class I aaRS's in some prokaryotes and archaea. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate.
Probab=81.43 E-value=0.76 Score=44.72 Aligned_cols=29 Identities=34% Similarity=0.428 Sum_probs=24.6
Q ss_pred eeeecccccccccCCCCcccccccccccccee
Q 041441 156 AAAQIGQAFRNEISPRQGFSRVREFTLAEIEH 187 (310)
Q Consensus 156 ~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~ 187 (310)
+|.|||+|||+|-|.. -.+=||||.|+|.
T Consensus 78 ~vf~i~~~FR~E~~~~---rHl~EFt~le~e~ 106 (329)
T cd00775 78 RVYEIGRNFRNEGIDL---THNPEFTMIEFYE 106 (329)
T ss_pred cEEEEeccccCCCCCC---CCCCceEEEEEee
Confidence 6999999999998752 4577999999983
No 93
>TIGR00499 lysS_bact lysyl-tRNA synthetase, eukaryotic and non-spirochete bacterial. This model represents the lysyl-tRNA synthetases that are class II amino-acyl tRNA synthetases. It includes all eukaryotic and most bacterial examples of the enzyme, but not archaeal or spirochete forms.
Probab=81.29 E-value=0.68 Score=47.73 Aligned_cols=52 Identities=27% Similarity=0.338 Sum_probs=34.7
Q ss_pred CCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCcccccccccccccee
Q 041441 125 LTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEH 187 (310)
Q Consensus 125 ~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~ 187 (310)
+...|||--+ -.| -|+++-..- =++.|||++||||-|.. -..=||||.|++.
T Consensus 219 ~~~~yLriSp--ELy--lKrlivgG~----~rVfeIg~~FRnE~~~~---rH~pEFTmlE~y~ 270 (496)
T TIGR00499 219 DMDLYLRIAP--ELY--LKRLIVGGF----EKVYEIGRNFRNEGVDT---THNPEFTMIEFYQ 270 (496)
T ss_pred CCceEEecCH--HHH--HHHHHhCCC----CceEEEecceecCCCCC---cccchhheeehhh
Confidence 3578998432 122 344443221 26999999999997742 5567999999974
No 94
>PLN02850 aspartate-tRNA ligase
Probab=81.05 E-value=0.69 Score=48.09 Aligned_cols=53 Identities=25% Similarity=0.254 Sum_probs=36.6
Q ss_pred CCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccC-C-CCcccccccccccccee-ee
Q 041441 125 LTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEIS-P-RQGFSRVREFTLAEIEH-FV 189 (310)
Q Consensus 125 ~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiS-p-r~GL~RvREFtQ~E~e~-F~ 189 (310)
+.++||+ |..-. |+..+-... + =++.|||.|||||-| . || +-||||.|+|. |.
T Consensus 270 ~~~~~L~----qSpql-~kq~li~~g--~-~rVfeIgp~FRaE~s~t~RH----l~EFt~Le~Em~~~ 325 (530)
T PLN02850 270 GQPACLA----QSPQL-HKQMAICGD--F-RRVFEIGPVFRAEDSFTHRH----LCEFTGLDLEMEIK 325 (530)
T ss_pred CcceecC----CCHHH-HHHHHHHhc--C-CceEEEecccccCCCCCCcc----chhhccchhhhhhh
Confidence 3678986 44443 555433221 2 179999999999986 3 65 78999999994 54
No 95
>PTZ00417 lysine-tRNA ligase; Provisional
Probab=80.76 E-value=0.85 Score=48.04 Aligned_cols=50 Identities=30% Similarity=0.329 Sum_probs=35.1
Q ss_pred CCceecC--CCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCcccccccccccccee
Q 041441 125 LTAAYVR--PETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEH 187 (310)
Q Consensus 125 ~~~~yLR--PETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~ 187 (310)
+...||| ||.. -|+++-.. + =++.|||++||||-+.. ...=||||.|++.
T Consensus 300 d~~lYLriSpEL~------lKrLlvgG---~-~rVfeIgp~FRnE~~~~---rHnpEFTmlE~y~ 351 (585)
T PTZ00417 300 DLDLYLRIATELP------LKMLIVGG---I-DKVYEIGKVFRNEGIDN---THNPEFTSCEFYW 351 (585)
T ss_pred CcceEEeecHHHH------HHHHHHhC---C-CCEEEEcccccCCCCCC---Cccceeeeeeeee
Confidence 3468999 6533 34544221 2 26999999999997653 4567999999995
No 96
>PLN02502 lysyl-tRNA synthetase
Probab=79.78 E-value=0.83 Score=47.80 Aligned_cols=55 Identities=29% Similarity=0.328 Sum_probs=36.5
Q ss_pred CCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccce-eeeC
Q 041441 125 LTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIE-HFVD 190 (310)
Q Consensus 125 ~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e-~F~~ 190 (310)
+...|||=-. -.| -|+++-..- =++.|||++||||-+.. -..=||||.|++ -|.+
T Consensus 276 ~~~~yL~~Sp--el~--lK~L~v~g~----~rVfeIg~~FRnE~~~~---rH~pEFtmlE~y~a~~d 331 (553)
T PLN02502 276 NMDLYLRIAT--ELH--LKRLVVGGF----ERVYEIGRQFRNEGIST---RHNPEFTTCEFYQAYAD 331 (553)
T ss_pred CcceeeecCH--HHH--HHHHHHhcc----CCEEEEcCeeeCCCCCC---ccccceeehhhhhhcCC
Confidence 4578997321 122 345443321 26999999999997652 677899999997 4543
No 97
>PF09524 Phg_2220_C: Conserved phage C-terminus (Phg_2220_C); InterPro: IPR011741 This entry is represented by the C-terminal domain of Bacteriophage r1t, Orf11. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This entry represents the conserved C-terminal domain of a family of proteins found exclusively in bacteriophage and in bacterial prophage regions. The functions of this domain and the proteins containing it are unknown.
Probab=79.62 E-value=0.95 Score=35.27 Aligned_cols=41 Identities=22% Similarity=0.408 Sum_probs=25.9
Q ss_pred cCCCHHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhh
Q 041441 81 DDLSVEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKD 144 (310)
Q Consensus 81 ~~~~~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~ 144 (310)
|+++.+++..+|.. +|- +|.. .....-||||||-=| .+|..
T Consensus 30 eG~t~edf~~VID~---k~~----~W~~--------------~~~m~~YLRP~TLF~--~kFe~ 70 (74)
T PF09524_consen 30 EGYTLEDFKKVIDN---KVA----EWKG--------------DPKMEKYLRPETLFG--SKFES 70 (74)
T ss_pred CCCCHHHHHHHHHH---HHH----HHCC--------------CHHHHHhcCchhhhH--HhHHH
Confidence 58999999988855 221 2210 012468999999766 45543
No 98
>COG2269 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=79.19 E-value=1.5 Score=42.57 Aligned_cols=57 Identities=30% Similarity=0.550 Sum_probs=40.4
Q ss_pred eeee-eccCCC--CceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCC-CCcccccccccccc
Q 041441 116 FQTS-VGPSGL--TAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISP-RQGFSRVREFTLAE 184 (310)
Q Consensus 116 F~t~-iGp~~~--~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSp-r~GL~RvREFtQ~E 184 (310)
|+|. +||.+. .+-||.+.-- | .-|+++-..-+ .|.|+|+||||+=-| +|- -||||-|
T Consensus 56 F~Te~~~~~~~~~~~l~L~TSPE---y-~mKrLLAag~~----~ifql~kvfRN~E~G~~H~----PEFTMLE 116 (322)
T COG2269 56 FETEFLGPGGAKGKPLWLHTSPE---Y-HMKRLLAAGSG----PIFQLGKVFRNEEMGRLHN----PEFTMLE 116 (322)
T ss_pred eeeEEeccCccccceeeeecCcH---H-HHHHHHHccCC----cchhhhHHHhcccccccCC----CceeEee
Confidence 5664 588766 6789975321 2 46888865543 689999999998654 554 5899976
No 99
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=78.04 E-value=1.2 Score=45.34 Aligned_cols=53 Identities=30% Similarity=0.403 Sum_probs=35.0
Q ss_pred CceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccC-C-CCcccccccccccccee-eeCC
Q 041441 126 TAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEIS-P-RQGFSRVREFTLAEIEH-FVDP 191 (310)
Q Consensus 126 ~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiS-p-r~GL~RvREFtQ~E~e~-F~~P 191 (310)
.++||+.-. | -|++.+-. . + =++.|||+|||||-| . || +=||||.|+|. |.+-
T Consensus 188 ~~~~L~~Sp-q----l~lq~l~~-g--~-~rVf~i~~~FR~E~~~t~rH----l~EFt~lE~e~~~~~~ 243 (450)
T PRK03932 188 KEAYLTVSG-Q----LYAEAYAM-A--L-GKVYTFGPTFRAENSNTRRH----LAEFWMIEPEMAFADL 243 (450)
T ss_pred CCcccccCH-H----HHHHHHHh-c--c-CCeEEeeeccccCCCCCccc----cccccccceEEeccCH
Confidence 578887543 2 24444432 1 2 369999999999976 3 33 46999999994 4543
No 100
>COG0173 AspS Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=75.89 E-value=1 Score=47.01 Aligned_cols=119 Identities=27% Similarity=0.382 Sum_probs=71.1
Q ss_pred eecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccC-C-CCcccccccccccccee-eeCCCCCCccchhhhhh
Q 041441 128 AYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEIS-P-RQGFSRVREFTLAEIEH-FVDPKDKSHPKFSEVKN 204 (310)
Q Consensus 128 ~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiS-p-r~GL~RvREFtQ~E~e~-F~~P~q~~~~e~~~v~d 204 (310)
-|-=|-.-| .||++|=-.+-+ ++.||.+|||.|=. . |+ -||||-|+|. ||+.+++ +.-+.+
T Consensus 190 FYALPQSPQ----lfKQLLMvsGfd---RYyQIarCFRDEDlRaDRQ-----PEFTQiD~EmSF~~~edv----~~~~E~ 253 (585)
T COG0173 190 FYALPQSPQ----LFKQLLMVAGFD---RYYQIARCFRDEDLRADRQ-----PEFTQIDLEMSFVDEEDV----MELIEK 253 (585)
T ss_pred eeecCCCHH----HHHHHHHHhccc---ceeeeeeeecccccccccC-----CcceeEeEEeecCCHHHH----HHHHHH
Confidence 555554444 589988655532 79999999999954 2 55 6999999996 7776543 334445
Q ss_pred hhhhcchhhhhhccccceEEEecccccccccChHHHHHHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEE
Q 041441 205 LEFLMFPREEQMSAQSAKKIRLGEAVSRGIVNNETIGYFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIE 284 (310)
Q Consensus 205 ~~~~~~~~~~q~~~~~~~~~s~~~a~~~~~i~~e~~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~ 284 (310)
+...++... .+ +++.. + =.-+-| .+++.+.|-+.--+||--.. -+..-+-++ .++.+-
T Consensus 254 l~~~vf~~~---~~---i~l~~--p-------FprmtY-----~eAm~~YGSDKPDlRf~lel-~dvt~~~~~-~~F~vF 311 (585)
T COG0173 254 LLRYVFKEV---KG---IELKT--P-------FPRMTY-----AEAMRRYGSDKPDLRFPLEL-IDVTDLFKD-SEFKVF 311 (585)
T ss_pred HHHHHHHHh---cC---CccCC--C-------cccccH-----HHHHHHhCCCCCcccCCcee-hhHHHHhcC-CCccee
Confidence 555555432 11 11111 1 011223 24567788888888885433 355555555 555543
No 101
>TIGR00458 aspS_arch aspartyl-tRNA synthetase, archaeal type. In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_arch, represents aspartyl-tRNA synthetases from the eukaryotic cytosol and from the Archaea. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn).
Probab=75.45 E-value=1.5 Score=44.34 Aligned_cols=55 Identities=24% Similarity=0.309 Sum_probs=35.7
Q ss_pred CceecCCCchhhHHHHHhhh-hhhccCCCCceeeecccccccccCCCCccccccccccccce-eeeCC
Q 041441 126 TAAYVRPETAPGIFVNFKDL-YYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIE-HFVDP 191 (310)
Q Consensus 126 ~~~yLRPETAQgif~nFk~~-l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e-~F~~P 191 (310)
.++||+ |..-. |+.. +-+. + =++.|||+|||||-|..+ --+=||||.|+| -|.+-
T Consensus 179 ~~~yL~----~Spql-~~q~li~~g---~-~rVf~i~~~FR~E~~~t~--rHl~EFt~lE~e~a~~~~ 235 (428)
T TIGR00458 179 REAFLG----QSPQL-YKQQLMAAG---F-ERVYEIGPIFRAEEHNTH--RHLNEATSIDIEMAFEDH 235 (428)
T ss_pred CcEEEC----cCHHH-HHHHHHhcc---c-CcEEEEecccccCCCCCc--cchheeeEeeeeeccCCH
Confidence 578986 33333 4543 3332 1 279999999999987421 124699999999 45544
No 102
>PRK00398 rpoP DNA-directed RNA polymerase subunit P; Provisional
Probab=75.10 E-value=1.3 Score=30.73 Aligned_cols=15 Identities=20% Similarity=0.138 Sum_probs=11.1
Q ss_pred ceeeccCCceeccch
Q 041441 35 MVKDEKTGTFYRADQ 49 (310)
Q Consensus 35 mv~c~~~~~~~RaD~ 49 (310)
.+.|..||..+..|.
T Consensus 3 ~y~C~~CG~~~~~~~ 17 (46)
T PRK00398 3 EYKCARCGREVELDE 17 (46)
T ss_pred EEECCCCCCEEEECC
Confidence 578999998765543
No 103
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=73.48 E-value=1.7 Score=43.88 Aligned_cols=55 Identities=25% Similarity=0.474 Sum_probs=35.8
Q ss_pred CceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCcccccccccccccee-eeC
Q 041441 126 TAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEH-FVD 190 (310)
Q Consensus 126 ~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~-F~~ 190 (310)
.+.||+. ..-. |++.+-... + =++.|||+|||||-+..+ -=.=||||.|+|. |.+
T Consensus 182 ~~~~L~~----Spql-~~q~l~~~g--~-~rVf~i~~~FR~E~~~t~--rHl~EFt~lE~e~a~~~ 237 (437)
T PRK05159 182 KEAYLAQ----SPQL-YKQMMVGAG--F-ERVFEIGPVFRAEEHNTS--RHLNEYTSIDVEMGFID 237 (437)
T ss_pred CceEecC----CHHH-HHHHHHhcC--C-CcEEEEeceeeCCCCCCc--ccchhhheeeeeeeecc
Confidence 5788864 3332 455443221 1 269999999999987521 1146999999994 665
No 104
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=73.02 E-value=1.6 Score=49.15 Aligned_cols=53 Identities=26% Similarity=0.357 Sum_probs=34.8
Q ss_pred CceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeee
Q 041441 126 TAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFV 189 (310)
Q Consensus 126 ~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~ 189 (310)
...|||--+ -.| -|+++-.. + =++.|||++||||-+.. -..=||||.|++.-.
T Consensus 818 ~~~yLriSP--ELy--lKrLivgG---~-erVFEIg~~FRnE~~~~---rHnpEFTmLE~y~a~ 870 (1094)
T PRK02983 818 MDLYLRIAP--ELY--LKRLCVGG---V-ERVFELGRNFRNEGVDA---THNPEFTLLEAYQAH 870 (1094)
T ss_pred ccchhhcCh--HHH--HHHHHhcc---c-CceEEEcceecCCCCCC---Cccccccchhhhhhc
Confidence 467887321 122 35544221 1 26999999999997752 467799999998654
No 105
>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=72.34 E-value=2.1 Score=28.34 Aligned_cols=16 Identities=19% Similarity=0.142 Sum_probs=11.5
Q ss_pred CceeeccCCceeccch
Q 041441 34 QMVKDEKTGTFYRADQ 49 (310)
Q Consensus 34 ~mv~c~~~~~~~RaD~ 49 (310)
..+.|.+||..|...+
T Consensus 4 Y~y~C~~Cg~~fe~~~ 19 (41)
T smart00834 4 YEYRCEDCGHTFEVLQ 19 (41)
T ss_pred EEEEcCCCCCEEEEEE
Confidence 3468999998875443
No 106
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=71.61 E-value=1.5 Score=45.39 Aligned_cols=67 Identities=27% Similarity=0.474 Sum_probs=41.4
Q ss_pred ceecC--CCchhhHHHHHhhhhhhccCCCCceeeecccccccc-cCCCCccccccccccccceeeeCCCCCCccchhhhh
Q 041441 127 AAYVR--PETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNE-ISPRQGFSRVREFTLAEIEHFVDPKDKSHPKFSEVK 203 (310)
Q Consensus 127 ~~yLR--PETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNE-iSpr~GL~RvREFtQ~E~e~F~~P~q~~~~e~~~v~ 203 (310)
.-||| || .| -|+++-. =+ =++.|||++|||| +|.+|- -|||+.|+..=. .-+..+.
T Consensus 229 dlyLRIApE----Ly--LKRliVG---G~-erVfEIgr~FRNEGid~tHN----PEFTmlE~Y~AY-------aDy~D~m 287 (502)
T COG1190 229 DLYLRIAPE----LY--LKRLIVG---GF-ERVFEIGRNFRNEGIDTTHN----PEFTMLEFYQAY-------ADYEDLM 287 (502)
T ss_pred ceEEeeccH----HH--HHHHHhc---Cc-hhheeeccccccCCCccccC----cchhhHHHHHHH-------hHHHHHH
Confidence 57887 55 34 3555432 12 2799999999999 666776 489998865432 2244455
Q ss_pred hhhhhcchhhh
Q 041441 204 NLEFLMFPREE 214 (310)
Q Consensus 204 d~~~~~~~~~~ 214 (310)
++...+.....
T Consensus 288 ~ltE~Li~~~a 298 (502)
T COG1190 288 DLTEELIKELA 298 (502)
T ss_pred HHHHHHHHHHH
Confidence 55555554433
No 107
>smart00531 TFIIE Transcription initiation factor IIE.
Probab=70.78 E-value=2.1 Score=36.97 Aligned_cols=15 Identities=13% Similarity=-0.069 Sum_probs=10.2
Q ss_pred CceeeccCCceeccc
Q 041441 34 QMVKDEKTGTFYRAD 48 (310)
Q Consensus 34 ~mv~c~~~~~~~RaD 48 (310)
..+.|+.|+.+|-++
T Consensus 98 ~~Y~Cp~C~~~y~~~ 112 (147)
T smart00531 98 AYYKCPNCQSKYTFL 112 (147)
T ss_pred cEEECcCCCCEeeHH
Confidence 356688888777543
No 108
>PLN02221 asparaginyl-tRNA synthetase
Probab=70.17 E-value=2.4 Score=44.69 Aligned_cols=52 Identities=29% Similarity=0.366 Sum_probs=36.1
Q ss_pred CceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccC--CCCcccccccccccccee-eeC
Q 041441 126 TAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEIS--PRQGFSRVREFTLAEIEH-FVD 190 (310)
Q Consensus 126 ~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiS--pr~GL~RvREFtQ~E~e~-F~~ 190 (310)
.++||. |..-. |+..+-.. | =++.+||.+||+|-| +|| +=||||.|+|. |++
T Consensus 307 ~~ayLt----qS~QL-y~e~~~~~---l-~rVfeIgP~FRAE~s~T~RH----L~EFtmlE~Emaf~d 361 (572)
T PLN02221 307 RQAFLT----VSGQL-QVETYACA---L-SSVYTFGPTFRAENSHTSRH----LAEFWMVEPEIAFAD 361 (572)
T ss_pred CCeeec----cCHHH-HHHHHHHh---c-CCeEEEccceecCCCCCCcc----cccccceeeeeecCC
Confidence 478884 44443 66654322 1 169999999999987 355 67999999995 543
No 109
>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=69.89 E-value=1.7 Score=36.06 Aligned_cols=13 Identities=15% Similarity=0.253 Sum_probs=9.8
Q ss_pred HhCCCCCCCCCCC
Q 041441 94 EYGITAPDTKNPL 106 (310)
Q Consensus 94 ~~~i~cP~~g~~l 106 (310)
+-.|.||.||..+
T Consensus 24 k~PivCP~CG~~~ 36 (108)
T PF09538_consen 24 KDPIVCPKCGTEF 36 (108)
T ss_pred CCCccCCCCCCcc
Confidence 3567899999853
No 110
>PLN02603 asparaginyl-tRNA synthetase
Probab=68.59 E-value=2.6 Score=44.33 Aligned_cols=31 Identities=39% Similarity=0.550 Sum_probs=25.8
Q ss_pred eeeecccccccccC--CCCcccccccccccccee-eeC
Q 041441 156 AAAQIGQAFRNEIS--PRQGFSRVREFTLAEIEH-FVD 190 (310)
Q Consensus 156 ~iAqiGk~fRNEiS--pr~GL~RvREFtQ~E~e~-F~~ 190 (310)
++.+||.+||+|-| +|| +=||||.|+|. |++
T Consensus 323 rVy~igp~FRaE~s~T~RH----L~EF~mlE~E~af~d 356 (565)
T PLN02603 323 DVYTFGPTFRAENSNTSRH----LAEFWMIEPELAFAD 356 (565)
T ss_pred ceEEEecceeCCCCCCccc----cccceeeeeeeecCC
Confidence 58999999999988 354 46999999997 654
No 111
>TIGR00457 asnS asparaginyl-tRNA synthetase. In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, asnS, represents asparaginyl-tRNA synthetases from the three domains of life. Some species lack this enzyme and charge tRNA(asn) by misacylation with Asp, followed by transamidation of Asp to Asn.
Probab=67.86 E-value=2.7 Score=42.87 Aligned_cols=54 Identities=26% Similarity=0.358 Sum_probs=35.3
Q ss_pred CceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccce-eeeC
Q 041441 126 TAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIE-HFVD 190 (310)
Q Consensus 126 ~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e-~F~~ 190 (310)
..+||+--. | -|+..+-+. + =++.|||+|||||-|..+ -=+=||||.|+| -|++
T Consensus 191 ~~~yL~~Sp-q----l~lq~l~~g---~-~rVf~i~~~FR~E~~~t~--rHl~EFt~le~e~~~~~ 245 (453)
T TIGR00457 191 KEAYLTVSG-Q----LYLETYALA---L-SKVYTFGPTFRAEKSNTS--RHLSEFWMIEPEMAFAN 245 (453)
T ss_pred CccccccCH-H----HHHHHHhhc---c-cCceEeeeccccCCCCCC--cCcchhccceeeeecCC
Confidence 567887543 2 255554321 2 268999999999977421 113599999999 5665
No 112
>PF12677 DUF3797: Domain of unknown function (DUF3797); InterPro: IPR024256 This presumed domain is functionally uncharacterised. This domain family is found in bacteria and viruses, and is approximately 50 amino acids in length. There is a conserved CGN sequence motif.
Probab=67.28 E-value=4.1 Score=29.38 Aligned_cols=15 Identities=20% Similarity=0.306 Sum_probs=11.0
Q ss_pred HHHHHhCCCCCCCCCC
Q 041441 90 AKIKEYGITAPDTKNP 105 (310)
Q Consensus 90 ~~i~~~~i~cP~~g~~ 105 (310)
.++.+|+ .||+||++
T Consensus 8 ~L~~kY~-~Cp~CGN~ 22 (49)
T PF12677_consen 8 KLSNKYC-KCPKCGND 22 (49)
T ss_pred chhhhhc-cCcccCCc
Confidence 3455665 89999985
No 113
>TIGR02220 phg_TIGR02220 phage conserved hypothetical protein, C-terminal domain. This model represents the conserved C-terminal domain of a family of proteins found exclusively in bacteriophage and in bacterial prophage regions. The functions of this domain and the proteins containing it are unknown.
Probab=66.86 E-value=2.3 Score=33.39 Aligned_cols=35 Identities=23% Similarity=0.394 Sum_probs=23.0
Q ss_pred cCCCHHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhh
Q 041441 81 DDLSVEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPG 137 (310)
Q Consensus 81 ~~~~~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQg 137 (310)
++++.+++..+|.. +|+ .|. | ....-||||+|-=|
T Consensus 33 eg~~~~dfk~VId~---k~~----~W~-------------~--~~~~~YLRP~TLF~ 67 (77)
T TIGR02220 33 EGYTLEDFKKVIDN---KVS----EWL-------------G--TEFEKYLRPKTLFG 67 (77)
T ss_pred cCCCHHHHHHHHHH---HHH----HHc-------------C--chHHHhcCchhccC
Confidence 58899999888843 343 231 1 12468999999544
No 114
>KOG2683 consensus Sirtuin 4 and related class II sirtuins (SIR2 family) [Chromatin structure and dynamics; Transcription]
Probab=66.59 E-value=10 Score=36.22 Aligned_cols=68 Identities=16% Similarity=0.231 Sum_probs=45.1
Q ss_pred HHHhCC-CCCCCCCCCCCCcccceeeeeeecc---------CCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeecc
Q 041441 92 IKEYGI-TAPDTKNPLSDPYPFNLMFQTSVGP---------SGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIG 161 (310)
Q Consensus 92 i~~~~i-~cP~~g~~l~~~~~FNLMF~t~iGp---------~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiG 161 (310)
++-+.| .|++|||.|.+-.-| |.-.|-+ ..+..++|-==|.=-+|.-|.=+.+..-+++|++|--||
T Consensus 206 e~gF~IPeC~~CgG~lKpdV~f---FGdnvn~dkv~~~~~~v~e~dg~LvlGsSL~v~Sg~r~i~~a~~~k~pi~IvNIG 282 (305)
T KOG2683|consen 206 EEGFQIPECEKCGGLLKPDVTF---FGDNVNKDKVTFCMEKVKECDGFLVLGSSLMVLSGFRFIRHAHEKKKPIAIVNIG 282 (305)
T ss_pred hhcccCCcccccCCccCCceEE---ecCCCChHHHHHHHHHHhccCceEEechhHHHHHHHHHHHHHHhhcCcEEEEecC
Confidence 455666 799999976533222 3222222 122356666666667888888888877789999999998
Q ss_pred c
Q 041441 162 Q 162 (310)
Q Consensus 162 k 162 (310)
-
T Consensus 283 p 283 (305)
T KOG2683|consen 283 P 283 (305)
T ss_pred C
Confidence 5
No 115
>COG3357 Predicted transcriptional regulator containing an HTH domain fused to a Zn-ribbon [Transcription]
Probab=66.50 E-value=3 Score=33.91 Aligned_cols=16 Identities=19% Similarity=0.260 Sum_probs=11.8
Q ss_pred CCCCCCCCCCCCCccc
Q 041441 97 ITAPDTKNPLSDPYPF 112 (310)
Q Consensus 97 i~cP~~g~~l~~~~~F 112 (310)
-+||.|.++|-++-.|
T Consensus 77 SRCP~CKSE~Ie~prF 92 (97)
T COG3357 77 SRCPKCKSEWIEEPRF 92 (97)
T ss_pred ccCCcchhhcccCCce
Confidence 3899999987655444
No 116
>PLN02532 asparagine-tRNA synthetase
Probab=65.59 E-value=3.2 Score=44.20 Aligned_cols=52 Identities=21% Similarity=0.299 Sum_probs=35.5
Q ss_pred CceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCC--CCcccccccccccccee-eeC
Q 041441 126 TAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISP--RQGFSRVREFTLAEIEH-FVD 190 (310)
Q Consensus 126 ~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSp--r~GL~RvREFtQ~E~e~-F~~ 190 (310)
..+||+- ..-. |+..+-. -| =++.+||.+||+|-|- || +=||||.|+|. |++
T Consensus 370 ~~ayLtq----S~QL-ylE~~~~---gl-~rVYeIgP~FRAE~s~T~RH----L~EFtmlE~Emaf~d 424 (633)
T PLN02532 370 RPTYLTV----SGRL-HLESYAC---AL-GNVYTFGPRFRADRIDSARH----LAEMWMVEVEMAFSE 424 (633)
T ss_pred CCeeecc----CHHH-HHHHHHH---hc-CceEEEccceecCCCCCCcc----cccccceeeeehhcC
Confidence 4788863 3332 5554332 12 2699999999999874 44 67999999995 553
No 117
>PRK03824 hypA hydrogenase nickel incorporation protein; Provisional
Probab=65.40 E-value=3.8 Score=35.11 Aligned_cols=15 Identities=13% Similarity=0.231 Sum_probs=12.0
Q ss_pred CceeeccCCceeccc
Q 041441 34 QMVKDEKTGTFYRAD 48 (310)
Q Consensus 34 ~mv~c~~~~~~~RaD 48 (310)
....|..||..|-.+
T Consensus 69 ~~~~C~~CG~~~~~~ 83 (135)
T PRK03824 69 AVLKCRNCGNEWSLK 83 (135)
T ss_pred eEEECCCCCCEEecc
Confidence 678899999877554
No 118
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=65.27 E-value=2.9 Score=43.82 Aligned_cols=52 Identities=23% Similarity=0.376 Sum_probs=36.9
Q ss_pred CceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCC--CCcccccccccccccee-ee
Q 041441 126 TAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISP--RQGFSRVREFTLAEIEH-FV 189 (310)
Q Consensus 126 ~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSp--r~GL~RvREFtQ~E~e~-F~ 189 (310)
..+||+ |..-. ||+.+-... + =++.|||.|||+|-|. || +=||||.|+|+ |.
T Consensus 259 ~~~~L~----qSpql-~kq~li~~g--~-~rVfeI~p~FRaE~s~T~RH----l~EFt~Le~E~~~~ 313 (550)
T PTZ00401 259 RFAYLA----QSPQL-YKQMVLQGD--V-PRVFEVGPVFRSENSNTHRH----LTEFVGLDVEMRIN 313 (550)
T ss_pred CCeecC----CCHHH-HHHHHHhcC--C-CCEEEEeCeEeCCCCCCCCC----ccchhhhhhhhHhc
Confidence 578884 44443 677765331 1 2699999999999874 33 46999999986 54
No 119
>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=63.65 E-value=4.2 Score=28.59 Aligned_cols=13 Identities=8% Similarity=0.056 Sum_probs=10.2
Q ss_pred eeeccCCceeccc
Q 041441 36 VKDEKTGTFYRAD 48 (310)
Q Consensus 36 v~c~~~~~~~RaD 48 (310)
+.|.+||..|...
T Consensus 6 y~C~~Cg~~fe~~ 18 (52)
T TIGR02605 6 YRCTACGHRFEVL 18 (52)
T ss_pred EEeCCCCCEeEEE
Confidence 5799999887644
No 120
>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=60.27 E-value=6.9 Score=25.77 Aligned_cols=14 Identities=7% Similarity=-0.033 Sum_probs=9.7
Q ss_pred ceeeccCCceeccc
Q 041441 35 MVKDEKTGTFYRAD 48 (310)
Q Consensus 35 mv~c~~~~~~~RaD 48 (310)
+..|..||..++.+
T Consensus 2 ~~~C~~CG~i~~g~ 15 (34)
T cd00729 2 VWVCPVCGYIHEGE 15 (34)
T ss_pred eEECCCCCCEeECC
Confidence 35799999766543
No 121
>PRK09616 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed
Probab=59.84 E-value=7.8 Score=40.37 Aligned_cols=45 Identities=16% Similarity=0.180 Sum_probs=36.4
Q ss_pred ccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeeccccccccc
Q 041441 121 GPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEI 168 (310)
Q Consensus 121 Gp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEi 168 (310)
-|.+..-.+|||-+..|++-+-.+.. |+..|+++.|+|+||+++-
T Consensus 408 NPls~e~svLRtsLlpgLL~~~~~N~---~~~~~~~lFEiG~Vf~~~~ 452 (552)
T PRK09616 408 NPISEDYTVVRTSLLPSLLEFLSNNK---HREYPQKIFEIGDVVLIDE 452 (552)
T ss_pred CCCccchheEeccchHHHHHHHHhcc---CCCCCeeEEEeeEEEecCC
Confidence 56666789999999999997665544 4578999999999998753
No 122
>PRK12294 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=59.01 E-value=14 Score=35.14 Aligned_cols=51 Identities=16% Similarity=0.154 Sum_probs=36.9
Q ss_pred CCCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCCccccccccccccceeee
Q 041441 124 GLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQGFSRVREFTLAEIEHFV 189 (310)
Q Consensus 124 ~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~GL~RvREFtQ~E~e~F~ 189 (310)
++...=|||+-.-.|= |...++. .-|.+++-+|+|||++ |+|+|+-+|++=
T Consensus 59 ~Gr~laLRpD~T~~iA----R~~a~~~-~~~~Rl~Y~g~VfR~~----------~~~~Q~GvEliG 109 (272)
T PRK12294 59 EHQIYALRNDFTDQLL----RYYSMYP-TAATKVAYAGLIIRNN----------EAAVQVGIENYA 109 (272)
T ss_pred CCCEEEEcCCCCHHHH----HHHHhcC-CCCceEEEeccEeccC----------CCcceeceEEEC
Confidence 4567899999765444 2222222 3467999999999998 348999999995
No 123
>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=58.31 E-value=2.5 Score=46.79 Aligned_cols=88 Identities=24% Similarity=0.227 Sum_probs=55.4
Q ss_pred CCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCCHHHHHHHHHHhCCCCCCCCCC
Q 041441 26 GHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLSVEELGAKIKEYGITAPDTKNP 105 (310)
Q Consensus 26 GHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~i~cP~~g~~ 105 (310)
|-+-.|+-.=|.|.+|+..||===| .=+||.||+
T Consensus 1003 GNLRaFsrQ~fRC~kC~~kYRR~PL---------------------------------------------~G~C~kCGg- 1036 (1095)
T TIGR00354 1003 GNLRAFSRQEVRCTKCNTKYRRIPL---------------------------------------------VGKCLKCGN- 1036 (1095)
T ss_pred hhHhhhhccceeecccCCccccCCC---------------------------------------------CCcccccCC-
Confidence 7777888888999999998872221 128999999
Q ss_pred CCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCCCC
Q 041441 106 LSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISPRQ 172 (310)
Q Consensus 106 l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSpr~ 172 (310)
||.....-|.+.. || +||+-+--.|.- -.+.+++|=+---+|-..|-||.+...
T Consensus 1037 -------~lilTV~~GsV~K---Yl--~~s~~la~~Y~v-~~Y~kqRie~l~~~I~slF~~~~~kq~ 1090 (1095)
T TIGR00354 1037 -------NLTLTVSKGSVMK---YL--ELSKFLAENYNV-SSYTKQRLMILEQGINSMFENGTSKQV 1090 (1095)
T ss_pred -------eEEEEEecchhHh---hH--HHHHHHHHHcCc-hHHHHHHHHHHHHHHHHhhcccccccc
Confidence 5667666666543 55 566666655542 233343444444455556666655433
No 124
>PTZ00425 asparagine-tRNA ligase; Provisional
Probab=57.45 E-value=5.9 Score=41.91 Aligned_cols=31 Identities=39% Similarity=0.547 Sum_probs=25.2
Q ss_pred eeeecccccccccC--CCCcccccccccccccee-eeC
Q 041441 156 AAAQIGQAFRNEIS--PRQGFSRVREFTLAEIEH-FVD 190 (310)
Q Consensus 156 ~iAqiGk~fRNEiS--pr~GL~RvREFtQ~E~e~-F~~ 190 (310)
++.|||.|||+|-| +|| +-||||.|+|. |.+
T Consensus 345 rVf~i~p~FRaE~s~t~RH----L~EFt~lE~E~af~d 378 (586)
T PTZ00425 345 DVYTFGPTFRAENSHTSRH----LAEFWMIEPEIAFAD 378 (586)
T ss_pred CEEEEeceEeCCCCCCCCC----CcccceEEEEEecCC
Confidence 68999999999987 244 46999999995 554
No 125
>TIGR00469 pheS_mito phenylalanyl-tRNA synthetase, mitochondrial. Unlike all other known phenylalanyl-tRNA synthetases, the mitochondrial form demonstrated from yeast is monomeric. It is similar to but longer than the alpha subunit (PheS) of the alpha 2 beta 2 form found in Bacteria, Archaea, and eukaryotes, and shares the characteristic motifs of class II aminoacyl-tRNA ligases. This alignment models the experimental example from Saccharomyces cerevisiae (designated MSF1) and its orthologs from other eukaryotic species.
Probab=56.83 E-value=72 Score=33.00 Aligned_cols=52 Identities=13% Similarity=0.077 Sum_probs=35.6
Q ss_pred ceecCCCchhhHHHHHhhhhhhccCCCCce--eeecccccccc-cCCCCccccccccccccc
Q 041441 127 AAYVRPETAPGIFVNFKDLYYNNGNKLPFA--AAQIGQAFRNE-ISPRQGFSRVREFTLAEI 185 (310)
Q Consensus 127 ~~yLRPETAQgif~nFk~~l~s~r~kLPf~--iAqiGk~fRNE-iSpr~GL~RvREFtQ~E~ 185 (310)
..-||.-|.-+.---+++.... ..|+. +--.|+|||++ |...|-- .|.|+|.
T Consensus 107 ~~lLRTHTSa~q~~~~~~~~~~---~~~~~~~~i~~G~VYRrD~iDatH~p----~FHQ~EG 161 (460)
T TIGR00469 107 QHLLRAHTSAHELECFQGGLDD---SDNIKSGFLISADVYRRDEIDKTHYP----VFHQADG 161 (460)
T ss_pred CceeCCCCcHHHHHHHHhcccc---CCCcceeeEeecceeeCCCCccccCc----cceeeEE
Confidence 4678888887766545443211 25777 88899999998 5666653 3888884
No 126
>PF13240 zinc_ribbon_2: zinc-ribbon domain
Probab=55.81 E-value=7.8 Score=23.44 Aligned_cols=14 Identities=14% Similarity=0.245 Sum_probs=8.2
Q ss_pred CCCCCCCCCCCCcc
Q 041441 98 TAPDTKNPLSDPYP 111 (310)
Q Consensus 98 ~cP~~g~~l~~~~~ 111 (310)
.||+||.++.+--.
T Consensus 1 ~Cp~CG~~~~~~~~ 14 (23)
T PF13240_consen 1 YCPNCGAEIEDDAK 14 (23)
T ss_pred CCcccCCCCCCcCc
Confidence 37777776554433
No 127
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=54.22 E-value=6.2 Score=24.19 Aligned_cols=17 Identities=24% Similarity=0.393 Sum_probs=14.9
Q ss_pred CceeeccCCceeccchh
Q 041441 34 QMVKDEKTGTFYRADQL 50 (310)
Q Consensus 34 ~mv~c~~~~~~~RaD~l 50 (310)
+|+.|..||..|..|.|
T Consensus 1 ~l~~C~~CgR~F~~~~l 17 (25)
T PF13913_consen 1 ELVPCPICGRKFNPDRL 17 (25)
T ss_pred CCCcCCCCCCEECHHHH
Confidence 58899999999988876
No 128
>smart00659 RPOLCX RNA polymerase subunit CX. present in RNA polymerase I, II and III
Probab=53.03 E-value=9.4 Score=26.70 Aligned_cols=11 Identities=0% Similarity=-0.142 Sum_probs=8.6
Q ss_pred hCCCCCCCCCC
Q 041441 95 YGITAPDTKNP 105 (310)
Q Consensus 95 ~~i~cP~~g~~ 105 (310)
..|+||.||..
T Consensus 18 ~~irC~~CG~r 28 (44)
T smart00659 18 DVVRCRECGYR 28 (44)
T ss_pred CceECCCCCce
Confidence 45799999973
No 129
>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=52.68 E-value=6.2 Score=33.92 Aligned_cols=12 Identities=17% Similarity=0.119 Sum_probs=9.3
Q ss_pred HhCCCCCCCCCC
Q 041441 94 EYGITAPDTKNP 105 (310)
Q Consensus 94 ~~~i~cP~~g~~ 105 (310)
+-.|.||.||..
T Consensus 24 k~p~vcP~cg~~ 35 (129)
T TIGR02300 24 RRPAVSPYTGEQ 35 (129)
T ss_pred CCCccCCCcCCc
Confidence 356799999984
No 130
>COG1908 FrhD Coenzyme F420-reducing hydrogenase, delta subunit [Energy production and conversion]
Probab=51.85 E-value=16 Score=31.37 Aligned_cols=36 Identities=22% Similarity=0.165 Sum_probs=29.5
Q ss_pred ChHHHHHHHHHHHHHHHHcCCCCCCCceeeccCCcc
Q 041441 236 NNETIGYFIGRVYLFLSRLGIDQDHLRFRQHLANEM 271 (310)
Q Consensus 236 ~~e~~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~ 271 (310)
+|..|..=+..+++.|.++||.++++|+.++...|+
T Consensus 72 GN~ka~rR~~~lke~l~elgie~eRv~~~wiSa~E~ 107 (132)
T COG1908 72 GNYKAKRRMELLKELLKELGIEPERVRVLWISAAEG 107 (132)
T ss_pred cchHHHHHHHHHHHHHHHhCCCcceEEEEEEehhhH
Confidence 345555556788999999999999999999988874
No 131
>cd00769 PheRS_beta_core Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. PheRS is an alpha-2/ beta-2 tetramer. While the alpha chain contains a catalytic core domain, the beta chain has a non-catalytic core domain.
Probab=49.54 E-value=7.8 Score=34.48 Aligned_cols=45 Identities=20% Similarity=0.369 Sum_probs=34.1
Q ss_pred ccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccc
Q 041441 121 GPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNE 167 (310)
Q Consensus 121 Gp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNE 167 (310)
=|.+..-.+|||-...|++..-...+ .|+..|+++.|+|++|...
T Consensus 47 NPis~e~~~lR~sLlp~LL~~~~~N~--~~~~~~~~lFEiG~vf~~~ 91 (198)
T cd00769 47 NPLSEEYSVLRTSLLPGLLDALARNL--NRKNKPLRLFEIGRVFLKD 91 (198)
T ss_pred CCCchhHHHHHHHHHHHHHHHHHHHh--cCCCCCEeEEEeEeEEecC
Confidence 35556679999999999996555443 2445899999999999653
No 132
>PRK14714 DNA polymerase II large subunit; Provisional
Probab=48.33 E-value=3.7 Score=46.77 Aligned_cols=86 Identities=19% Similarity=0.266 Sum_probs=54.0
Q ss_pred CCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCCHHHHHHHHHHhCCCCCCCCCC
Q 041441 26 GHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLSVEELGAKIKEYGITAPDTKNP 105 (310)
Q Consensus 26 GHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~i~cP~~g~~ 105 (310)
|-+-.|+-.=+.|.+||..||===| .=+||.|||
T Consensus 1244 GNLraFsrQ~~RC~kC~~kyRR~PL---------------------------------------------~G~C~kCGg- 1277 (1337)
T PRK14714 1244 GNLRAFSRQEFRCLKCGTKYRRMPL---------------------------------------------AGKCRKCGG- 1277 (1337)
T ss_pred hhhhhhhccceeecccCcccccCCC---------------------------------------------CCcccccCC-
Confidence 7777888889999999999872111 128999999
Q ss_pred CCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCC
Q 041441 106 LSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISP 170 (310)
Q Consensus 106 l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSp 170 (310)
|+.+...-|.+. -|| +||+.+--.|.- -.+.+++|=+---+|-..|-|+.+.
T Consensus 1278 -------~iilTv~~Gsv~---KYl--~~a~~~~~~y~~-~~Y~~qRl~~l~~~i~s~F~~~~~k 1329 (1337)
T PRK14714 1278 -------RIILTVHEGSVE---KYL--DTAKMVATEYNV-REYTKQRLEVLDRDIESLFENDKNK 1329 (1337)
T ss_pred -------eEEEEEecchHH---HHH--HHHHHHHHHcCc-hHHHHHHHHHHHHHHHHhhcccccc
Confidence 566666666654 365 566666655543 2334444444444555556665544
No 133
>PF13248 zf-ribbon_3: zinc-ribbon domain
Probab=47.86 E-value=12 Score=22.94 Aligned_cols=11 Identities=9% Similarity=0.350 Sum_probs=7.3
Q ss_pred CCCCCCCCCCC
Q 041441 97 ITAPDTKNPLS 107 (310)
Q Consensus 97 i~cP~~g~~l~ 107 (310)
+.||+||..+.
T Consensus 3 ~~Cp~Cg~~~~ 13 (26)
T PF13248_consen 3 MFCPNCGAEID 13 (26)
T ss_pred CCCcccCCcCC
Confidence 46888877543
No 134
>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=46.81 E-value=8.4 Score=31.85 Aligned_cols=16 Identities=13% Similarity=0.266 Sum_probs=10.1
Q ss_pred CceeeccCCceeccch
Q 041441 34 QMVKDEKTGTFYRADQ 49 (310)
Q Consensus 34 ~mv~c~~~~~~~RaD~ 49 (310)
..+.|..||..|..+.
T Consensus 69 ~~~~C~~Cg~~~~~~~ 84 (113)
T PF01155_consen 69 ARARCRDCGHEFEPDE 84 (113)
T ss_dssp -EEEETTTS-EEECHH
T ss_pred CcEECCCCCCEEecCC
Confidence 4577999998775443
No 135
>PRK14715 DNA polymerase II large subunit; Provisional
Probab=46.73 E-value=4.2 Score=46.58 Aligned_cols=86 Identities=20% Similarity=0.260 Sum_probs=55.1
Q ss_pred cCCCCCCCCCceeeccCCceeccchhhHHHHhhhhhhhhhhhHHHHHHHHHHhhhccCCCHHHHHHHHHHhCCCCCCCCC
Q 041441 25 SGHVEKLTDQMVKDEKTGTFYRADQLLKDFCNEKLREDVRLSLEQAAELRRTLAMMDDLSVEELGAKIKEYGITAPDTKN 104 (310)
Q Consensus 25 SGHv~~F~D~mv~c~~~~~~~RaD~l~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~i~cP~~g~ 104 (310)
-|-+-.|+-.-+.| +||..||==-| .=+||.||+
T Consensus 1532 ~GNLRaFsrQ~~RC-kC~~kyRR~PL---------------------------------------------~G~C~kCGg 1565 (1627)
T PRK14715 1532 IGNLRAFSRQEFRC-KCGAKYRRVPL---------------------------------------------KGKCPKCGS 1565 (1627)
T ss_pred hhhhhhhhccceee-cCCCccccCCC---------------------------------------------CCcCcccCC
Confidence 37788899999999 99998872222 128999999
Q ss_pred CCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccccccCC
Q 041441 105 PLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRNEISP 170 (310)
Q Consensus 105 ~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRNEiSp 170 (310)
||.....-|.+. -|| +||+-+-..|.- ..+.+++|-+---.|-..|-|+.+-
T Consensus 1566 --------~~ilTV~kGsv~---KYl--~~a~~~~~~y~v-~~Y~~qRl~~~~~~i~slF~~~~~k 1617 (1627)
T PRK14715 1566 --------KLILTVSKGAVE---KYM--PVAKMMAEKYNV-NDYTKQRLCIIKEGIKSLFENDKRK 1617 (1627)
T ss_pred --------eEEEEEecchHH---HHH--HHHHHHHHHcCc-hHHHHHHHHHHHHHHHHhhcccccc
Confidence 566666666654 365 567766655543 3344444544444555666665543
No 136
>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=46.49 E-value=23 Score=29.75 Aligned_cols=35 Identities=26% Similarity=0.258 Sum_probs=27.7
Q ss_pred hHHHHHHHHHHHHHHHHcCCCCCCCceeeccCCcc
Q 041441 237 NETIGYFIGRVYLFLSRLGIDQDHLRFRQHLANEM 271 (310)
Q Consensus 237 ~e~~~y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~ 271 (310)
|.+-..=.+.+++.|+++||+++++++......|.
T Consensus 72 n~~a~~Rv~~~k~~L~~~Gi~~eRv~~~~~~~~~~ 106 (124)
T PF02662_consen 72 NYRAEKRVERLKKLLEELGIEPERVRLYWISAPEG 106 (124)
T ss_pred hHHHHHHHHHHHHHHHHcCCChhHeEEEEeCcccH
Confidence 44444445678889999999999999999877764
No 137
>COG1996 RPC10 DNA-directed RNA polymerase, subunit RPC10 (contains C4-type Zn-finger) [Transcription]
Probab=44.89 E-value=11 Score=27.20 Aligned_cols=10 Identities=30% Similarity=0.441 Sum_probs=8.4
Q ss_pred hCCCCCCCCC
Q 041441 95 YGITAPDTKN 104 (310)
Q Consensus 95 ~~i~cP~~g~ 104 (310)
-+|+||.||.
T Consensus 23 ~~irCp~Cg~ 32 (49)
T COG1996 23 RGIRCPYCGS 32 (49)
T ss_pred CceeCCCCCc
Confidence 5679999986
No 138
>KOG3623 consensus Homeobox transcription factor SIP1 [Transcription]
Probab=44.71 E-value=9.6 Score=41.40 Aligned_cols=20 Identities=20% Similarity=0.313 Sum_probs=17.3
Q ss_pred eeeccCCceeccchhhHHHH
Q 041441 36 VKDEKTGTFYRADQLLKDFC 55 (310)
Q Consensus 36 v~c~~~~~~~RaD~l~e~~~ 55 (310)
++|+.||+-|.--|=|++++
T Consensus 282 FKCtECgKAFKfKHHLKEHl 301 (1007)
T KOG3623|consen 282 FKCTECGKAFKFKHHLKEHL 301 (1007)
T ss_pred ccccccchhhhhHHHHHhhh
Confidence 58999999999988877775
No 139
>COG1675 TFA1 Transcription initiation factor IIE, alpha subunit [Transcription]
Probab=44.04 E-value=16 Score=32.93 Aligned_cols=15 Identities=33% Similarity=0.527 Sum_probs=11.2
Q ss_pred HHhCCCCCCCCCCCC
Q 041441 93 KEYGITAPDTKNPLS 107 (310)
Q Consensus 93 ~~~~i~cP~~g~~l~ 107 (310)
-.++.+||.||+.|.
T Consensus 129 ~~~~F~Cp~Cg~~L~ 143 (176)
T COG1675 129 MELGFTCPKCGEDLE 143 (176)
T ss_pred HHhCCCCCCCCchhh
Confidence 356789999998653
No 140
>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=43.19 E-value=8.3 Score=28.28 Aligned_cols=11 Identities=9% Similarity=-0.022 Sum_probs=9.0
Q ss_pred ceeeccCCcee
Q 041441 35 MVKDEKTGTFY 45 (310)
Q Consensus 35 mv~c~~~~~~~ 45 (310)
|++|..||..+
T Consensus 2 ~~~CP~CG~~i 12 (54)
T TIGR01206 2 QFECPDCGAEI 12 (54)
T ss_pred ccCCCCCCCEE
Confidence 67899999755
No 141
>PF10825 DUF2752: Protein of unknown function (DUF2752); InterPro: IPR021215 This family is conserved in bacteria. Many members are annotated as being putative membrane proteins.
Probab=42.71 E-value=5.2 Score=28.81 Aligned_cols=10 Identities=30% Similarity=0.441 Sum_probs=8.6
Q ss_pred hCCCCCCCCC
Q 041441 95 YGITAPDTKN 104 (310)
Q Consensus 95 ~~i~cP~~g~ 104 (310)
.++.||.||.
T Consensus 8 tG~~CPgCG~ 17 (52)
T PF10825_consen 8 TGIPCPGCGM 17 (52)
T ss_pred hCCCCCCCcH
Confidence 6899999993
No 142
>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=42.24 E-value=13 Score=27.63 Aligned_cols=12 Identities=17% Similarity=0.210 Sum_probs=9.7
Q ss_pred CCCCCCCCCCCC
Q 041441 96 GITAPDTKNPLS 107 (310)
Q Consensus 96 ~i~cP~~g~~l~ 107 (310)
+-.||||||+|.
T Consensus 41 ~~~CPNCgGelv 52 (57)
T PF06906_consen 41 NGVCPNCGGELV 52 (57)
T ss_pred cCcCcCCCCccc
Confidence 458999999864
No 143
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type. The N-terminal region of about 200 amino acids is rich in low-complexity sequence, poorly alignable, and not included n this model.
Probab=42.18 E-value=16 Score=41.94 Aligned_cols=27 Identities=26% Similarity=0.361 Sum_probs=18.0
Q ss_pred CCCCCCCCCCCCcccceeeeeeeccCCC
Q 041441 98 TAPDTKNPLSDPYPFNLMFQTSVGPSGL 125 (310)
Q Consensus 98 ~cP~~g~~l~~~~~FNLMF~t~iGp~~~ 125 (310)
+||+||..+. ---+||.|.|.+||.+.
T Consensus 710 ~cp~c~~~~~-~dg~~L~FErFLn~er~ 736 (1213)
T TIGR01405 710 DCPKCGAPLK-KDGQDIPFETFLGFKGD 736 (1213)
T ss_pred cCcccccccc-ccCCCceeeeccCCCCC
Confidence 4666654322 12389999999999644
No 144
>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=41.72 E-value=15 Score=25.08 Aligned_cols=10 Identities=10% Similarity=0.298 Sum_probs=8.0
Q ss_pred hCCCCCCCCC
Q 041441 95 YGITAPDTKN 104 (310)
Q Consensus 95 ~~i~cP~~g~ 104 (310)
-.+.||.||+
T Consensus 25 ~~~~CP~Cg~ 34 (42)
T PF09723_consen 25 DPVPCPECGS 34 (42)
T ss_pred CCCcCCCCCC
Confidence 3458999998
No 145
>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=41.53 E-value=22 Score=23.06 Aligned_cols=11 Identities=18% Similarity=0.138 Sum_probs=8.0
Q ss_pred eeeccCCceec
Q 041441 36 VKDEKTGTFYR 46 (310)
Q Consensus 36 v~c~~~~~~~R 46 (310)
..|..||-.|.
T Consensus 2 ~~C~~CGy~y~ 12 (33)
T cd00350 2 YVCPVCGYIYD 12 (33)
T ss_pred EECCCCCCEEC
Confidence 46889996654
No 146
>PF14205 Cys_rich_KTR: Cysteine-rich KTR
Probab=39.47 E-value=15 Score=27.15 Aligned_cols=23 Identities=22% Similarity=0.404 Sum_probs=16.0
Q ss_pred HHhCCCCCCCCCC-CCCCccccee
Q 041441 93 KEYGITAPDTKNP-LSDPYPFNLM 115 (310)
Q Consensus 93 ~~~~i~cP~~g~~-l~~~~~FNLM 115 (310)
+.+.+-||.|..+ +=++.+||+-
T Consensus 25 kNfPlyCpKCK~EtlI~v~~~~i~ 48 (55)
T PF14205_consen 25 KNFPLYCPKCKQETLIDVKQLKIT 48 (55)
T ss_pred ccccccCCCCCceEEEEeeccEEE
Confidence 5577899999764 5566666653
No 147
>PRK00564 hypA hydrogenase nickel incorporation protein; Provisional
Probab=38.71 E-value=20 Score=29.91 Aligned_cols=13 Identities=0% Similarity=0.087 Sum_probs=9.0
Q ss_pred CCceeeccCCcee
Q 041441 33 DQMVKDEKTGTFY 45 (310)
Q Consensus 33 D~mv~c~~~~~~~ 45 (310)
...+.|..||..|
T Consensus 69 p~~~~C~~Cg~~~ 81 (117)
T PRK00564 69 KVELECKDCSHVF 81 (117)
T ss_pred CCEEEhhhCCCcc
Confidence 3567799998543
No 148
>PRK08579 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=38.54 E-value=8.1 Score=41.17 Aligned_cols=15 Identities=20% Similarity=0.113 Sum_probs=9.3
Q ss_pred CCCCCCceeeccCCc
Q 041441 29 EKLTDQMVKDEKTGT 43 (310)
Q Consensus 29 ~~F~D~mv~c~~~~~ 43 (310)
-.++-++-.|..||.
T Consensus 562 ~~inp~~~~C~~CG~ 576 (625)
T PRK08579 562 WSYTPAITVCNKCGR 576 (625)
T ss_pred EEeCCCCccCCCCCC
Confidence 445556666777774
No 149
>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=37.51 E-value=18 Score=36.20 Aligned_cols=14 Identities=7% Similarity=0.133 Sum_probs=10.3
Q ss_pred HHhCCCCCCCCCCCC
Q 041441 93 KEYGITAPDTKNPLS 107 (310)
Q Consensus 93 ~~~~i~cP~~g~~l~ 107 (310)
.+++.+|| ||+.++
T Consensus 256 ~~~~~~Cp-CG~~i~ 269 (374)
T TIGR00375 256 ETACANCP-CGGRIK 269 (374)
T ss_pred hhcCCCCC-CCCcce
Confidence 34678999 999543
No 150
>KOG2462 consensus C2H2-type Zn-finger protein [Transcription]
Probab=36.81 E-value=27 Score=33.70 Aligned_cols=32 Identities=28% Similarity=0.534 Sum_probs=25.0
Q ss_pred eecCCCchhhHHHHHhhhhhhccCCCCceeeeccccccc
Q 041441 128 AYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFRN 166 (310)
Q Consensus 128 ~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fRN 166 (310)
+|=||=.-||++ |+--++=||.-+--||+|-.
T Consensus 196 aFSRPWLLQGHi-------RTHTGEKPF~C~hC~kAFAD 227 (279)
T KOG2462|consen 196 AFSRPWLLQGHI-------RTHTGEKPFSCPHCGKAFAD 227 (279)
T ss_pred cccchHHhhccc-------ccccCCCCccCCcccchhcc
Confidence 666888888887 55445789999999999854
No 151
>PRK12380 hydrogenase nickel incorporation protein HybF; Provisional
Probab=36.74 E-value=25 Score=29.11 Aligned_cols=13 Identities=0% Similarity=-0.340 Sum_probs=9.1
Q ss_pred CCceeeccCCcee
Q 041441 33 DQMVKDEKTGTFY 45 (310)
Q Consensus 33 D~mv~c~~~~~~~ 45 (310)
...+.|..||..|
T Consensus 68 p~~~~C~~Cg~~~ 80 (113)
T PRK12380 68 PAQAWCWDCSQVV 80 (113)
T ss_pred CcEEEcccCCCEE
Confidence 3567799998654
No 152
>PF09845 DUF2072: Zn-ribbon containing protein (DUF2072); InterPro: IPR018645 This archaeal Zinc-ribbon containing proteins have no known function.
Probab=35.79 E-value=21 Score=30.75 Aligned_cols=10 Identities=20% Similarity=0.431 Sum_probs=8.2
Q ss_pred eeccCCceec
Q 041441 37 KDEKTGTFYR 46 (310)
Q Consensus 37 ~c~~~~~~~R 46 (310)
.|++||+.|.
T Consensus 3 ~Ct~Cg~~f~ 12 (131)
T PF09845_consen 3 QCTKCGRVFE 12 (131)
T ss_pred ccCcCCCCcC
Confidence 6999998774
No 153
>TIGR00051 acyl-CoA thioester hydrolase, YbgC/YbaW family. This model describes a subset of related acyl-CoA thioesterases that include several at least partially characterized proteins. YbgC is an acyl-CoA thioesterase associated with the Tol-Pal system. YbaW is part of the FadM regulon.
Probab=34.64 E-value=61 Score=25.16 Aligned_cols=37 Identities=24% Similarity=0.355 Sum_probs=28.0
Q ss_pred eEEEecccccccccCh-HHHHHHHHHHHHHHHHcCCCC
Q 041441 222 KKIRLGEAVSRGIVNN-ETIGYFIGRVYLFLSRLGIDQ 258 (310)
Q Consensus 222 ~~~s~~~a~~~~~i~~-e~~~y~~~~~~~~l~~~Gi~~ 258 (310)
+++..+|....|.+.+ ..+.|.......++.++|+++
T Consensus 2 ~~V~~~d~D~~G~v~~~~y~~~~~~a~~~~~~~~g~~~ 39 (117)
T TIGR00051 2 VRVYYEDTDAQGIVYHANYLRYCERARTEFLRSLGFPQ 39 (117)
T ss_pred EEEEEeccCCCcEEEehHHHHHHHHHHHHHHHHcCCCH
Confidence 3455566677788888 677777778888999999875
No 154
>PRK04023 DNA polymerase II large subunit; Validated
Probab=34.17 E-value=17 Score=40.76 Aligned_cols=21 Identities=29% Similarity=0.510 Sum_probs=18.8
Q ss_pred CCCCCCCCCceeeccCCceec
Q 041441 26 GHVEKLTDQMVKDEKTGTFYR 46 (310)
Q Consensus 26 GHv~~F~D~mv~c~~~~~~~R 46 (310)
|-+-.|+-.=+.|.+||..||
T Consensus 1028 GNLRaFsrQ~fRC~kC~~kYR 1048 (1121)
T PRK04023 1028 GNLRAFSRQEFRCTKCGAKYR 1048 (1121)
T ss_pred hhhhhhcccceeecccCcccc
Confidence 777888889999999999887
No 155
>PRK00418 DNA gyrase inhibitor; Reviewed
Probab=33.93 E-value=26 Score=26.45 Aligned_cols=10 Identities=20% Similarity=0.581 Sum_probs=8.2
Q ss_pred CCCCCCCCCC
Q 041441 96 GITAPDTKNP 105 (310)
Q Consensus 96 ~i~cP~~g~~ 105 (310)
.++||.||..
T Consensus 6 ~v~CP~C~k~ 15 (62)
T PRK00418 6 TVNCPTCGKP 15 (62)
T ss_pred cccCCCCCCc
Confidence 4689999985
No 156
>COG3024 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=33.85 E-value=26 Score=26.76 Aligned_cols=10 Identities=20% Similarity=0.567 Sum_probs=7.9
Q ss_pred CCCCCCCCCC
Q 041441 96 GITAPDTKNP 105 (310)
Q Consensus 96 ~i~cP~~g~~ 105 (310)
-++||.||.+
T Consensus 7 ~v~CP~Cgkp 16 (65)
T COG3024 7 TVPCPTCGKP 16 (65)
T ss_pred cccCCCCCCc
Confidence 4589999964
No 157
>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=33.69 E-value=32 Score=28.57 Aligned_cols=10 Identities=10% Similarity=0.042 Sum_probs=7.8
Q ss_pred CCCCCCCCCC
Q 041441 96 GITAPDTKNP 105 (310)
Q Consensus 96 ~i~cP~~g~~ 105 (310)
...||.||+.
T Consensus 86 ~~~CP~Cgs~ 95 (115)
T TIGR00100 86 LYRCPKCHGI 95 (115)
T ss_pred CccCcCCcCC
Confidence 4579999973
No 158
>KOG1885 consensus Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=33.47 E-value=9.5 Score=39.48 Aligned_cols=18 Identities=39% Similarity=0.623 Sum_probs=13.9
Q ss_pred eeeecccccccc-cCCCCc
Q 041441 156 AAAQIGQAFRNE-ISPRQG 173 (310)
Q Consensus 156 ~iAqiGk~fRNE-iSpr~G 173 (310)
++.|||+.|||| |+-.|-
T Consensus 295 rVYEIGr~FRNEGIDlTHN 313 (560)
T KOG1885|consen 295 RVYEIGRQFRNEGIDLTHN 313 (560)
T ss_pred HHHHHHHHhhhcCcccccC
Confidence 588999999999 554443
No 159
>PF04423 Rad50_zn_hook: Rad50 zinc hook motif; InterPro: IPR007517 The Mre11 complex (Mre11 Rad50 Nbs1) is central to chromosomal maintenance and functions in homologous recombination, telomere maintenance and sister chromatid association. The Rad50 coiled-coil region contains a dimer interface at the apex of the coiled coils in which pairs of conserved Cys-X-X-Cys motifs form interlocking hooks that bind one Zn ion. This alignment includes the zinc hook motif and a short stretch of coiled-coil on either side.; GO: 0004518 nuclease activity, 0005524 ATP binding, 0008270 zinc ion binding, 0006281 DNA repair; PDB: 1L8D_B.
Probab=32.42 E-value=19 Score=25.66 Aligned_cols=10 Identities=30% Similarity=0.481 Sum_probs=5.0
Q ss_pred CCCCCCCCCC
Q 041441 98 TAPDTKNPLS 107 (310)
Q Consensus 98 ~cP~~g~~l~ 107 (310)
.||.||.+|+
T Consensus 22 ~CPlC~r~l~ 31 (54)
T PF04423_consen 22 CCPLCGRPLD 31 (54)
T ss_dssp E-TTT--EE-
T ss_pred cCCCCCCCCC
Confidence 8999998655
No 160
>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=32.03 E-value=32 Score=28.98 Aligned_cols=22 Identities=18% Similarity=0.092 Sum_probs=13.8
Q ss_pred hhhhcCCCCCCCCCceeeccCCc
Q 041441 21 VLKASGHVEKLTDQMVKDEKTGT 43 (310)
Q Consensus 21 V~~aSGHv~~F~D~mv~c~~~~~ 43 (310)
|+--.|-+. -.=.+|+|..|++
T Consensus 56 VYfwIGmlS-tkav~V~CP~C~K 77 (114)
T PF11023_consen 56 VYFWIGMLS-TKAVQVECPNCGK 77 (114)
T ss_pred HHHHhhhhc-ccceeeECCCCCC
Confidence 344444442 2448899999985
No 161
>COG3364 Zn-ribbon containing protein [General function prediction only]
Probab=31.52 E-value=21 Score=29.78 Aligned_cols=10 Identities=10% Similarity=0.338 Sum_probs=7.9
Q ss_pred eeeccCCcee
Q 041441 36 VKDEKTGTFY 45 (310)
Q Consensus 36 v~c~~~~~~~ 45 (310)
=.|.+||++|
T Consensus 3 H~CtrCG~vf 12 (112)
T COG3364 3 HQCTRCGEVF 12 (112)
T ss_pred ceeccccccc
Confidence 3599999876
No 162
>PRK08222 hydrogenase 4 subunit H; Validated
Probab=31.25 E-value=46 Score=29.68 Aligned_cols=28 Identities=4% Similarity=-0.033 Sum_probs=21.0
Q ss_pred CCCCCCCCceeeccCCceeccchhhHHH
Q 041441 27 HVEKLTDQMVKDEKTGTFYRADQLLKDF 54 (310)
Q Consensus 27 Hv~~F~D~mv~c~~~~~~~RaD~l~e~~ 54 (310)
.+......++.|..||+.|-+-++++-.
T Consensus 106 l~~~~~~~~~~C~~Cg~~f~~~k~i~~~ 133 (181)
T PRK08222 106 LYTRATFHLQRCSRCERPFAPQKTVALA 133 (181)
T ss_pred hheecccccCcCcccCCccCcHhHHHHH
Confidence 3444566799999999999877776643
No 163
>KOG1234 consensus ABC (ATP binding cassette) 1 protein [General function prediction only]
Probab=30.90 E-value=53 Score=32.44 Aligned_cols=56 Identities=25% Similarity=0.319 Sum_probs=43.1
Q ss_pred HHHHHHHhhhccCCCHHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhhhhc
Q 041441 70 AAELRRTLAMMDDLSVEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLYYNN 149 (310)
Q Consensus 70 ~~~~~~~~~~~~~~~~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l~s~ 149 (310)
.+-++.+...++-|...+|...+.+ .||+ |.+..+.++
T Consensus 15 ~qi~erVrqsAd~MP~~Ql~~vm~~------~lG~------------------------------------nW~~Kf~~f 52 (363)
T KOG1234|consen 15 GQILERVRQSADFMPPKQLEPVMWG------ELGG------------------------------------NWAQKFSSF 52 (363)
T ss_pred HHHHHHhcCccccCChhhhhHHHhh------hhch------------------------------------hHHHHHHhh
Confidence 3445667777888888888777644 4777 677777777
Q ss_pred cCCCCceeeeccccccccc
Q 041441 150 GNKLPFAAAQIGQAFRNEI 168 (310)
Q Consensus 150 r~kLPf~iAqiGk~fRNEi 168 (310)
- +-||+-|.||.+||-..
T Consensus 53 d-~~P~AaASIGQVHrArl 70 (363)
T KOG1234|consen 53 D-DGPFAAASIGQVHRARL 70 (363)
T ss_pred c-cCccccccHHHHHHHHh
Confidence 7 89999999999999764
No 164
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=30.89 E-value=31 Score=40.41 Aligned_cols=27 Identities=22% Similarity=0.300 Sum_probs=18.9
Q ss_pred CCCCCCCCCCCCcccceeeeeeeccCCC
Q 041441 98 TAPDTKNPLSDPYPFNLMFQTSVGPSGL 125 (310)
Q Consensus 98 ~cP~~g~~l~~~~~FNLMF~t~iGp~~~ 125 (310)
+||+||..+. --.+||.|.|.+||.+.
T Consensus 935 ~Cp~Cg~~~~-kdg~~l~FErFL~~~r~ 961 (1437)
T PRK00448 935 DCPKCGTKLK-KDGHDIPFETFLGFKGD 961 (1437)
T ss_pred cCcccccccc-ccCCCceeeeccCCCCC
Confidence 4666665322 23589999999999754
No 165
>COG0661 AarF Predicted unusual protein kinase [General function prediction only]
Probab=30.56 E-value=54 Score=34.22 Aligned_cols=61 Identities=28% Similarity=0.372 Sum_probs=44.1
Q ss_pred HHHHHHHHHHhhhccCCCHHHHHHHHHHhCCCCCCCCCCCCCCcccceeeeeeeccCCCCceecCCCchhhHHHHHhhhh
Q 041441 67 LEQAAELRRTLAMMDDLSVEELGAKIKEYGITAPDTKNPLSDPYPFNLMFQTSVGPSGLTAAYVRPETAPGIFVNFKDLY 146 (310)
Q Consensus 67 ~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~i~cP~~g~~l~~~~~FNLMF~t~iGp~~~~~~yLRPETAQgif~nFk~~l 146 (310)
++-.+++..++.++..++.+++..+|++ ++|.+ .+ -+|..|.
T Consensus 88 ~e~~~eL~~LQD~vpp~~~~~~~~iie~------eLG~~-----------------ie------------e~F~eF~--- 129 (517)
T COG0661 88 PEYAEELAKLQDRVPPFPFEEAERIIEE------ELGRP-----------------IE------------ELFSEFE--- 129 (517)
T ss_pred HHHHHHHHHhhcCCCCCCHHHHHHHHHH------HhCCC-----------------HH------------HHHHHcC---
Confidence 4445677778888888999999888876 23332 12 2565443
Q ss_pred hhccCCCCceeeecccccccccCC
Q 041441 147 YNNGNKLPFAAAQIGQAFRNEISP 170 (310)
Q Consensus 147 ~s~r~kLPf~iAqiGk~fRNEiSp 170 (310)
+-|++.|.||.|||=+...
T Consensus 130 -----~~PiAsASIaQVH~A~L~s 148 (517)
T COG0661 130 -----PEPIASASIAQVHRAVLKS 148 (517)
T ss_pred -----CCchhhhhHhhheeEEecC
Confidence 4899999999999999753
No 166
>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]
Probab=30.28 E-value=17 Score=36.12 Aligned_cols=13 Identities=15% Similarity=0.187 Sum_probs=10.3
Q ss_pred HHhCCCCCCCCCC
Q 041441 93 KEYGITAPDTKNP 105 (310)
Q Consensus 93 ~~~~i~cP~~g~~ 105 (310)
+.++-+||+||+.
T Consensus 262 ~~~~wrCpkCGg~ 274 (403)
T COG1379 262 KSLRWRCPKCGGK 274 (403)
T ss_pred hhhcccCcccccc
Confidence 4567799999983
No 167
>KOG0599 consensus Phosphorylase kinase gamma subunit [Carbohydrate transport and metabolism]
Probab=29.53 E-value=22 Score=34.98 Aligned_cols=22 Identities=32% Similarity=0.511 Sum_probs=16.8
Q ss_pred eeeeeeccCCC------CceecCCCchh
Q 041441 115 MFQTSVGPSGL------TAAYVRPETAP 136 (310)
Q Consensus 115 MF~t~iGp~~~------~~~yLRPETAQ 136 (310)
=|.|++-|.+. .+|||.|||-.
T Consensus 168 GFa~~l~~GekLrelCGTPgYLAPEtik 195 (411)
T KOG0599|consen 168 GFACQLEPGEKLRELCGTPGYLAPETIK 195 (411)
T ss_pred ceeeccCCchhHHHhcCCCcccChhhee
Confidence 37888888643 68999999943
No 168
>TIGR00471 pheT_arch phenylalanyl-tRNA synthetase, beta subunit. Every known example of the phenylalanyl-tRNA synthetase, except the monomeric form of mitochondrial, is an alpha 2 beta 2 heterotetramer. The beta subunits break into two subfamilies that are considerably different in sequence, length, and pattern of gaps. This model represents the subfamily that includes the beta subunit from eukaryotic cytosol, the Archaea, and spirochetes.
Probab=29.26 E-value=33 Score=35.83 Aligned_cols=41 Identities=24% Similarity=0.402 Sum_probs=32.9
Q ss_pred cCCCCceecCCCchhhHHHHHhhhhhhccCCCCceeeecccccc
Q 041441 122 PSGLTAAYVRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQAFR 165 (310)
Q Consensus 122 p~~~~~~yLRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk~fR 165 (310)
|.+..-.+|||-...|+...=.+.+ |+..|+++.|+|++|.
T Consensus 411 Pis~e~s~lR~SLlp~LL~~~~~N~---~~~~~~~lFEiG~Vf~ 451 (551)
T TIGR00471 411 PKTLEYTIVRTSLLPGLLETLSENK---HHELPQKIFEIGDVVV 451 (551)
T ss_pred CCchhhhHhHhhhHHHHHHHHHhcc---cCCCCeeEEEEEEEEE
Confidence 5555679999999999996544443 5589999999999994
No 169
>PRK03681 hypA hydrogenase nickel incorporation protein; Validated
Probab=29.18 E-value=38 Score=28.08 Aligned_cols=12 Identities=8% Similarity=-0.072 Sum_probs=8.4
Q ss_pred CceeeccCCcee
Q 041441 34 QMVKDEKTGTFY 45 (310)
Q Consensus 34 ~mv~c~~~~~~~ 45 (310)
....|..||..|
T Consensus 69 ~~~~C~~Cg~~~ 80 (114)
T PRK03681 69 AECWCETCQQYV 80 (114)
T ss_pred cEEEcccCCCee
Confidence 456799998643
No 170
>COG1110 Reverse gyrase [DNA replication, recombination, and repair]
Probab=28.76 E-value=24 Score=39.93 Aligned_cols=21 Identities=19% Similarity=0.298 Sum_probs=17.1
Q ss_pred hCCCCCCCCCCCCCCccccee
Q 041441 95 YGITAPDTKNPLSDPYPFNLM 115 (310)
Q Consensus 95 ~~i~cP~~g~~l~~~~~FNLM 115 (310)
|.-.||||||++|+-|-.|-.
T Consensus 7 Y~~~CpNCGG~isseRL~~gl 27 (1187)
T COG1110 7 YGSSCPNCGGDISSERLEKGL 27 (1187)
T ss_pred hhccCCCCCCcCcHHHHhcCC
Confidence 666899999999988877654
No 171
>PRK06260 threonine synthase; Validated
Probab=28.50 E-value=31 Score=34.20 Aligned_cols=11 Identities=27% Similarity=0.307 Sum_probs=8.4
Q ss_pred eeeccCCceec
Q 041441 36 VKDEKTGTFYR 46 (310)
Q Consensus 36 v~c~~~~~~~R 46 (310)
+.|..||..|-
T Consensus 4 ~~C~~cg~~~~ 14 (397)
T PRK06260 4 LKCIECGKEYD 14 (397)
T ss_pred EEECCCCCCCC
Confidence 67999997653
No 172
>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=27.03 E-value=28 Score=21.49 Aligned_cols=7 Identities=14% Similarity=0.468 Sum_probs=5.9
Q ss_pred CCCCCCC
Q 041441 97 ITAPDTK 103 (310)
Q Consensus 97 i~cP~~g 103 (310)
..||+||
T Consensus 17 f~CPnCG 23 (24)
T PF07754_consen 17 FPCPNCG 23 (24)
T ss_pred EeCCCCC
Confidence 3899998
No 173
>PRK12286 rpmF 50S ribosomal protein L32; Reviewed
Probab=26.25 E-value=51 Score=24.28 Aligned_cols=17 Identities=18% Similarity=0.247 Sum_probs=12.2
Q ss_pred CCCCCCCCceeeccCCc
Q 041441 27 HVEKLTDQMVKDEKTGT 43 (310)
Q Consensus 27 Hv~~F~D~mv~c~~~~~ 43 (310)
|..-..-.++.|..||+
T Consensus 19 h~~l~~~~l~~C~~CG~ 35 (57)
T PRK12286 19 HFKLKAPGLVECPNCGE 35 (57)
T ss_pred cccccCCcceECCCCCC
Confidence 44455677888999985
No 174
>COG3813 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.81 E-value=30 Score=27.19 Aligned_cols=13 Identities=15% Similarity=0.115 Sum_probs=9.7
Q ss_pred hCCCCCCCCCCCC
Q 041441 95 YGITAPDTKNPLS 107 (310)
Q Consensus 95 ~~i~cP~~g~~l~ 107 (310)
..-.||+|||+|.
T Consensus 40 l~g~CPnCGGelv 52 (84)
T COG3813 40 LHGLCPNCGGELV 52 (84)
T ss_pred hcCcCCCCCchhh
Confidence 4447999999754
No 175
>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=25.71 E-value=36 Score=25.43 Aligned_cols=10 Identities=20% Similarity=0.497 Sum_probs=7.8
Q ss_pred CCCCCCCCCC
Q 041441 98 TAPDTKNPLS 107 (310)
Q Consensus 98 ~cP~~g~~l~ 107 (310)
.||+||.++.
T Consensus 5 HC~~CG~~Ip 14 (59)
T PF09889_consen 5 HCPVCGKPIP 14 (59)
T ss_pred cCCcCCCcCC
Confidence 6999998654
No 176
>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=25.28 E-value=29 Score=36.40 Aligned_cols=7 Identities=29% Similarity=0.795 Sum_probs=5.6
Q ss_pred CceecCC
Q 041441 126 TAAYVRP 132 (310)
Q Consensus 126 ~~~yLRP 132 (310)
-.|||||
T Consensus 549 v~GYl~~ 555 (555)
T cd01675 549 ITGYLGP 555 (555)
T ss_pred eeeecCC
Confidence 4699987
No 177
>TIGR01054 rgy reverse gyrase. Generally, these gyrases are encoded as a single polypeptide. An exception was found in Methanopyrus kandleri, where enzyme is split within the topoisomerase domain, yielding a heterodimer of gene products designated RgyB and RgyA.
Probab=25.08 E-value=33 Score=39.28 Aligned_cols=19 Identities=16% Similarity=0.186 Sum_probs=15.0
Q ss_pred hCCCCCCCCCCCCCCcccc
Q 041441 95 YGITAPDTKNPLSDPYPFN 113 (310)
Q Consensus 95 ~~i~cP~~g~~l~~~~~FN 113 (310)
|.-.|||||++++..|--|
T Consensus 6 y~~~CPnCgg~i~~~rl~~ 24 (1171)
T TIGR01054 6 YSNLCPNCGGEISSERLEK 24 (1171)
T ss_pred hcCCCCCCCCccchhHhhc
Confidence 5558999999988777655
No 178
>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=24.89 E-value=55 Score=28.06 Aligned_cols=24 Identities=25% Similarity=0.619 Sum_probs=17.9
Q ss_pred CHHHHHHHHHHhCC---------CCCCCCCCCC
Q 041441 84 SVEELGAKIKEYGI---------TAPDTKNPLS 107 (310)
Q Consensus 84 ~~~~~~~~i~~~~i---------~cP~~g~~l~ 107 (310)
..+++.++++.+++ +||.|++.|.
T Consensus 70 ~~~QL~ev~~~~~l~~~~~~~~sRC~~CN~~L~ 102 (147)
T PF01927_consen 70 PEEQLREVLERFGLKLRLDPIFSRCPKCNGPLR 102 (147)
T ss_pred HHHHHHHHHHHcCCccccCCCCCccCCCCcEee
Confidence 45678888887775 7999988654
No 179
>PRK14138 NAD-dependent deacetylase; Provisional
Probab=24.86 E-value=45 Score=31.08 Aligned_cols=17 Identities=18% Similarity=0.141 Sum_probs=11.1
Q ss_pred CCCCCCCCCCCCCcccceee
Q 041441 97 ITAPDTKNPLSDPYPFNLMF 116 (310)
Q Consensus 97 i~cP~~g~~l~~~~~FNLMF 116 (310)
.+||.||+. .||-=+||
T Consensus 144 p~Cp~Cgg~---lrP~Vv~F 160 (244)
T PRK14138 144 PRCDDCSGL---IRPNIVFF 160 (244)
T ss_pred CCCCCCCCe---ECCCEEEC
Confidence 489999873 44444455
No 180
>PF02591 DUF164: Putative zinc ribbon domain; InterPro: IPR003743 This entry describes proteins of unknown function.
Probab=24.30 E-value=48 Score=23.74 Aligned_cols=21 Identities=19% Similarity=0.200 Sum_probs=13.6
Q ss_pred CHHHHHHHHHHhC-CCCCCCCC
Q 041441 84 SVEELGAKIKEYG-ITAPDTKN 104 (310)
Q Consensus 84 ~~~~~~~~i~~~~-i~cP~~g~ 104 (310)
+++.+.++..... +.||+||.
T Consensus 33 ~~~~~~~i~~~~~i~~Cp~CgR 54 (56)
T PF02591_consen 33 PPQELNEIRKGDEIVFCPNCGR 54 (56)
T ss_pred CHHHHHHHHcCCCeEECcCCCc
Confidence 5566666644433 48999986
No 181
>PF13597 NRDD: Anaerobic ribonucleoside-triphosphate reductase; PDB: 1HK8_A 1H78_A 1H7A_A 1H79_A 1H7B_A.
Probab=24.26 E-value=28 Score=36.42 Aligned_cols=10 Identities=30% Similarity=0.644 Sum_probs=5.7
Q ss_pred CCCceecCCC
Q 041441 124 GLTAAYVRPE 133 (310)
Q Consensus 124 ~~~~~yLRPE 133 (310)
..-.|||||-
T Consensus 519 ~Rv~GYl~~v 528 (546)
T PF13597_consen 519 SRVTGYLRPV 528 (546)
T ss_dssp B-SSSS-BTT
T ss_pred EEeeccccCc
Confidence 3457999974
No 182
>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=23.74 E-value=59 Score=31.41 Aligned_cols=10 Identities=30% Similarity=0.212 Sum_probs=8.5
Q ss_pred CceeeccCCc
Q 041441 34 QMVKDEKTGT 43 (310)
Q Consensus 34 ~mv~c~~~~~ 43 (310)
..++|.+|++
T Consensus 25 ~~~~c~~c~~ 34 (285)
T TIGR00515 25 VWTKCPKCGQ 34 (285)
T ss_pred CeeECCCCcc
Confidence 5789999996
No 183
>cd01407 SIR2-fam SIR2 family of proteins includes silent information regulator 2 (Sir2) enzymes which catalyze NAD+-dependent protein/histone deacetylation, where the acetyl group from the lysine epsilon-amino group is transferred to the ADP-ribose moiety of NAD+, producing nicotinamide and the novel metabolite O-acetyl-ADP-ribose. Sir2 proteins, also known as sirtuins, are found in all eukaryotes and many archaea and prokaryotes and have been shown to regulate gene silencing, DNA repair, metabolic enzymes, and life span. The most-studied function, gene silencing, involves the inactivation of chromosome domains containing key regulatory genes by packaging them into a specialized chromatin structure that is inaccessible to DNA-binding proteins. The oligomerization state of Sir2 appears to be organism-dependent, sometimes occurring as a monomer and sometimes as a multimer.
Probab=23.67 E-value=52 Score=29.83 Aligned_cols=10 Identities=10% Similarity=-0.031 Sum_probs=7.8
Q ss_pred CCCCCCCCCC
Q 041441 96 GITAPDTKNP 105 (310)
Q Consensus 96 ~i~cP~~g~~ 105 (310)
..+||.||+.
T Consensus 133 ~p~C~~Cg~~ 142 (218)
T cd01407 133 VPRCPKCGGL 142 (218)
T ss_pred CCcCCCCCCc
Confidence 3589999985
No 184
>CHL00174 accD acetyl-CoA carboxylase beta subunit; Reviewed
Probab=23.32 E-value=57 Score=31.79 Aligned_cols=25 Identities=12% Similarity=0.056 Sum_probs=15.0
Q ss_pred HHhCCCCCCCCCC--CCCCcccceeee
Q 041441 93 KEYGITAPDTKNP--LSDPYPFNLMFQ 117 (310)
Q Consensus 93 ~~~~i~cP~~g~~--l~~~~~FNLMF~ 117 (310)
+++.-.||.||.+ ++.-...+++|.
T Consensus 54 ~~~~~vcp~c~~h~rltAreRI~~L~D 80 (296)
T CHL00174 54 KSKMNICEQCGYHLKMSSSDRIELLID 80 (296)
T ss_pred HHcCCCCCCCCCCcCCCHHHHHHHHcc
Confidence 4455689999965 343344555553
No 185
>PF02146 SIR2: Sir2 family; InterPro: IPR003000 These sequences represent the Sirtuin (Sir2-related) family of NAD+-dependent deacetylases. This family of enzymes is broadly conserved from bacteria to humans. In yeast, Sir2 proteins form complexes with other proteins to silence chromatin by accessing histones and deacetylating them. Sir2 proteins have been proposed to play a role in silencing, chromosome stability and ageing []. The bacterial enzyme CobB, an homologue of Sir2, is a phosphoribosyltransferase []. An in vitro ADP ribosyltransferase activity has also been associated with human members of this family []. Sir2-like enzymes employ NAD+ as a cosubstrate in deacetylation reactions [] and catalyse a reaction in which the cleavage of NAD(+)and histone and/or protein deacetylation are coupled to the formation of O-acetyl-ADP-ribose, a novel metabolite. The dependence of the reaction on both NAD(+) and the generation of this potential second messenger offers new clues to understanding the function and regulation of nuclear, cytoplasmic and mitochondrial Sir2-like enzymes []. Silent Information Regulator protein of Saccharomyces cerevisiae (Sir2) is one of several factors critical for silencing at least three loci. Among them, it is unique because it silences the rDNA as well as the mating type loci and telomeres []. Sir2 interacts in a complex with itself and with Sir3 and Sir4, two proteins that are able to interact with nucleosomes. In addition Sir2 also interacts with ubiquitination factors and/or complexes []. Homologues of Sir2 share a core domain including the GAG and NID motifs and a putative C4 Zinc finger. The regions containing these three conserved motifs are individually essential for Sir2 silencing function, as are the four cysteins []. In addition, the conserved residues HG next to the putative Zn finger have been shown to be essential for the ADP ribosyltransferase activity []. ; GO: 0008270 zinc ion binding, 0070403 NAD+ binding, 0006476 protein deacetylation; PDB: 1S5P_A 3PKI_E 3PKJ_F 3K35_A 1ICI_A 1M2K_A 1M2G_A 1M2N_B 1M2H_A 1M2J_A ....
Probab=22.96 E-value=59 Score=28.39 Aligned_cols=15 Identities=20% Similarity=0.452 Sum_probs=11.1
Q ss_pred eeeccCCceeccchh
Q 041441 36 VKDEKTGTFYRADQL 50 (310)
Q Consensus 36 v~c~~~~~~~RaD~l 50 (310)
+.|.+|++.|..+.+
T Consensus 106 ~~C~~C~~~~~~~~~ 120 (178)
T PF02146_consen 106 LRCSKCGKEYDREDI 120 (178)
T ss_dssp EEETTTSBEEEGHHH
T ss_pred eeecCCCccccchhh
Confidence 469999998765544
No 186
>COG1885 Uncharacterized protein conserved in archaea [Function unknown]
Probab=22.80 E-value=41 Score=28.11 Aligned_cols=59 Identities=15% Similarity=0.237 Sum_probs=29.3
Q ss_pred CCCCCCCCCCCCcccceeeeee-eccCCCCcee--cCCCchhhHHHHHhhhhhhccCCCCceeeeccc
Q 041441 98 TAPDTKNPLSDPYPFNLMFQTS-VGPSGLTAAY--VRPETAPGIFVNFKDLYYNNGNKLPFAAAQIGQ 162 (310)
Q Consensus 98 ~cP~~g~~l~~~~~FNLMF~t~-iGp~~~~~~y--LRPETAQgif~nFk~~l~s~r~kLPf~iAqiGk 162 (310)
.||.||.++...+- .=.|. +|-.-..+.| =+||-|+-|=. +. .=+..+ +.|+.+-++-.
T Consensus 51 ~CP~Cg~~~e~~fv---va~~aLVgl~l~mkVFNaes~EHA~RIAK-~e-IGk~L~-~iPL~vveV~e 112 (115)
T COG1885 51 SCPKCGEPFESAFV---VANTALVGLILSMKVFNAESDEHAERIAK-AE-IGKALK-DIPLEVVEVTE 112 (115)
T ss_pred cCCCCCCccceeEE---EecceeEEEEEEEEEecCCCHHHHHHHHH-HH-HhhHhh-cCCceEEEEEe
Confidence 79999987654321 00000 0111011111 26888887752 21 122344 78988877643
No 187
>PRK05654 acetyl-CoA carboxylase subunit beta; Validated
Probab=22.61 E-value=59 Score=31.48 Aligned_cols=10 Identities=20% Similarity=0.106 Sum_probs=8.4
Q ss_pred CceeeccCCc
Q 041441 34 QMVKDEKTGT 43 (310)
Q Consensus 34 ~mv~c~~~~~ 43 (310)
..++|.+|++
T Consensus 26 ~~~~c~~c~~ 35 (292)
T PRK05654 26 LWTKCPSCGQ 35 (292)
T ss_pred CeeECCCccc
Confidence 4889999995
No 188
>PRK14892 putative transcription elongation factor Elf1; Provisional
Probab=22.17 E-value=63 Score=26.49 Aligned_cols=12 Identities=8% Similarity=0.238 Sum_probs=9.7
Q ss_pred CCCceeeccCCc
Q 041441 32 TDQMVKDEKTGT 43 (310)
Q Consensus 32 ~D~mv~c~~~~~ 43 (310)
.+.++.|..||+
T Consensus 18 lpt~f~CP~Cge 29 (99)
T PRK14892 18 LPKIFECPRCGK 29 (99)
T ss_pred CCcEeECCCCCC
Confidence 467899999994
No 189
>PRK00762 hypA hydrogenase nickel incorporation protein; Provisional
Probab=21.55 E-value=56 Score=27.47 Aligned_cols=8 Identities=38% Similarity=0.472 Sum_probs=6.8
Q ss_pred CCCCCCCC
Q 041441 97 ITAPDTKN 104 (310)
Q Consensus 97 i~cP~~g~ 104 (310)
..||.||+
T Consensus 93 ~~CP~Cgs 100 (124)
T PRK00762 93 IECPVCGN 100 (124)
T ss_pred CcCcCCCC
Confidence 57999996
No 190
>KOG0978 consensus E3 ubiquitin ligase involved in syntaxin degradation [Posttranslational modification, protein turnover, chaperones]
Probab=21.50 E-value=95 Score=33.77 Aligned_cols=11 Identities=9% Similarity=0.274 Sum_probs=8.5
Q ss_pred CCCCCCCCCCC
Q 041441 97 ITAPDTKNPLS 107 (310)
Q Consensus 97 i~cP~~g~~l~ 107 (310)
=+||.||.+|+
T Consensus 679 RKCP~Cn~aFg 689 (698)
T KOG0978|consen 679 RKCPKCNAAFG 689 (698)
T ss_pred CCCCCCCCCCC
Confidence 38999987654
No 191
>PF11210 DUF2996: Protein of unknown function (DUF2996); InterPro: IPR021374 This family of proteins has no known function.
Probab=21.14 E-value=1.9e+02 Score=24.60 Aligned_cols=44 Identities=23% Similarity=0.385 Sum_probs=37.0
Q ss_pred HHHHHHHHHHHHcCCCCCCCceeeccCCccccccCceeeEEEEcCCC
Q 041441 242 YFIGRVYLFLSRLGIDQDHLRFRQHLANEMAHYAADCWDAEIECSYG 288 (310)
Q Consensus 242 y~~~~~~~~l~~~Gi~~~~lrfr~~~~~E~AhYg~k~~D~e~~~~~G 288 (310)
.++=.+.+.|.+-|+..-.|.|.+ +.++=-|..||.++-.++-|
T Consensus 14 d~lPaL~~~l~~~Gi~d~~L~f~~---~~~pi~g~~CW~v~G~~~~~ 57 (119)
T PF11210_consen 14 DFLPALKKALEKEGISDVELSFEK---NKRPIVGGPCWQVIGSWPKG 57 (119)
T ss_pred hhhHHHHHHHHHcCCCcceEEecc---CCccccCCcceEEEEEecCC
Confidence 356678999999999999999986 67788889999999877766
No 192
>PRK07111 anaerobic ribonucleoside triphosphate reductase; Provisional
Probab=20.97 E-value=41 Score=36.66 Aligned_cols=8 Identities=13% Similarity=0.293 Sum_probs=6.1
Q ss_pred CCceecCC
Q 041441 125 LTAAYVRP 132 (310)
Q Consensus 125 ~~~~yLRP 132 (310)
.-.|||||
T Consensus 709 Ri~GYl~~ 716 (735)
T PRK07111 709 RITGYLGT 716 (735)
T ss_pred hhhhhccc
Confidence 34799987
No 193
>COG1933 Archaeal DNA polymerase II, large subunit [DNA replication, recombination, and repair]
Probab=20.96 E-value=27 Score=33.11 Aligned_cols=24 Identities=25% Similarity=0.325 Sum_probs=15.9
Q ss_pred CCCCCCCCCceeeccCCceeccch
Q 041441 26 GHVEKLTDQMVKDEKTGTFYRADQ 49 (310)
Q Consensus 26 GHv~~F~D~mv~c~~~~~~~RaD~ 49 (310)
|-...|.=.-|.|.+|++.||-=.
T Consensus 158 gn~r~f~rq~~rc~~c~~k~rr~p 181 (253)
T COG1933 158 GNLRSFTRQEFRCVKCNTKFRRPP 181 (253)
T ss_pred hhhhhhhhheeehHhhhhhhcCCC
Confidence 555666667777888877666433
No 194
>COG0824 FcbC Predicted thioesterase [General function prediction only]
Probab=20.69 E-value=1.3e+02 Score=25.38 Aligned_cols=38 Identities=29% Similarity=0.420 Sum_probs=30.7
Q ss_pred ceEEEecccccccccCh-HHHHHHHHHHHHHHHHcCCCC
Q 041441 221 AKKIRLGEAVSRGIVNN-ETIGYFIGRVYLFLSRLGIDQ 258 (310)
Q Consensus 221 ~~~~s~~~a~~~~~i~~-e~~~y~~~~~~~~l~~~Gi~~ 258 (310)
++.+...|-...|++.| -.+.|++..+..||+.+|+++
T Consensus 9 ~~~V~~~d~D~~GhV~~a~Yl~~fE~ar~~~l~~~g~~~ 47 (137)
T COG0824 9 PIRVRYEDTDAMGHVNNANYLVFFEEARTEFLRALGFDY 47 (137)
T ss_pred EEEEEhhhcCcccEEecchHHHHHHHHHHHHHHHcCCCH
Confidence 34455556677888888 788889999999999999997
No 195
>PHA03082 DNA-dependent RNA polymerase subunit; Provisional
Probab=20.67 E-value=25 Score=26.32 Aligned_cols=17 Identities=12% Similarity=0.184 Sum_probs=13.8
Q ss_pred hCCCCCCCCCCCCCCcc
Q 041441 95 YGITAPDTKNPLSDPYP 111 (310)
Q Consensus 95 ~~i~cP~~g~~l~~~~~ 111 (310)
+.+.|..||.++|+.|-
T Consensus 3 f~lVCsTCGrDlSeeRy 19 (63)
T PHA03082 3 FQLVCSTCGRDLSEERY 19 (63)
T ss_pred eeeeecccCcchhHHHH
Confidence 56789999999997764
No 196
>cd01413 SIR2_Af2 SIR2_Af2: Archaeal and prokaryotic group which includes Archaeoglobus fulgidus Sir2-Af2, Sulfolobus solfataricus ssSir2, 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. The Sir2 homolog from the archaea Sulfolobus solftaricus deacetylates the non-specific DNA protein Alba to mediate transcription repression.
Probab=20.52 E-value=83 Score=28.78 Aligned_cols=9 Identities=11% Similarity=0.077 Sum_probs=7.3
Q ss_pred CCCCCCCCC
Q 041441 97 ITAPDTKNP 105 (310)
Q Consensus 97 i~cP~~g~~ 105 (310)
.+||.||+.
T Consensus 137 p~C~~Cgg~ 145 (222)
T cd01413 137 PRCPKCGGI 145 (222)
T ss_pred CcCCCCCCc
Confidence 489999874
No 197
>PF05864 Chordopox_RPO7: Chordopoxvirus DNA-directed RNA polymerase 7 kDa polypeptide (RPO7); InterPro: IPR008448 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. This family consists of several Chordopoxvirus DNA-directed RNA polymerase 7 kDa polypeptide sequences. DNA-dependent RNA polymerase catalyses the transcription of DNA into RNA [].; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent
Probab=20.34 E-value=26 Score=26.26 Aligned_cols=17 Identities=12% Similarity=0.184 Sum_probs=13.8
Q ss_pred hCCCCCCCCCCCCCCcc
Q 041441 95 YGITAPDTKNPLSDPYP 111 (310)
Q Consensus 95 ~~i~cP~~g~~l~~~~~ 111 (310)
+.+.|..||.++|+.|-
T Consensus 3 f~lvCSTCGrDlSeeRy 19 (63)
T PF05864_consen 3 FQLVCSTCGRDLSEERY 19 (63)
T ss_pred eeeeecccCCcchHHHH
Confidence 56789999999998764
No 198
>COG1326 Uncharacterized archaeal Zn-finger protein [General function prediction only]
Probab=20.10 E-value=94 Score=28.68 Aligned_cols=38 Identities=24% Similarity=0.323 Sum_probs=26.1
Q ss_pred EEeecCccC----ChhhhhhcCCCCCCCCCceeeccCCceeccchhh
Q 041441 9 LEVRSPCVT----PEVVLKASGHVEKLTDQMVKDEKTGTFYRADQLL 51 (310)
Q Consensus 9 ~evdt~ii~----~~~V~~aSGHv~~F~D~mv~c~~~~~~~RaD~l~ 51 (310)
..+.||+=. +.+|.++=| .++|+.|..||..++|=...
T Consensus 5 iy~~Cp~Cg~eev~hEVik~~g-----~~~lvrC~eCG~V~~~~i~~ 46 (201)
T COG1326 5 IYIECPSCGSEEVSHEVIKERG-----REPLVRCEECGTVHPAIIKT 46 (201)
T ss_pred EEEECCCCCcchhhHHHHHhcC-----CceEEEccCCCcEeeceeec
Confidence 345666655 446677733 34999999999999874443
Done!