Query gi|254780317|ref|YP_003064730.1| phenylalanyl-tRNA synthetase, alpha subunit [Candidatus Liberibacter asiaticus str. psy62]
Match_columns 366
No_of_seqs 211 out of 1842
Neff 5.6
Searched_HMMs 39220
Date Sun May 29 16:17:32 2011
Command /home/congqian_1/programs/hhpred/hhsearch -i 254780317.hhm -d /home/congqian_1/database/cdd/Cdd.hhm
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK00488 pheS phenylalanyl-tRN 100.0 0 0 1053.3 35.5 336 8-351 1-338 (338)
2 COG0016 PheS Phenylalanyl-tRNA 100.0 0 0 926.3 31.3 329 8-350 3-335 (335)
3 pfam01409 tRNA-synt_2d tRNA sy 100.0 0 0 772.7 22.9 241 98-351 1-243 (243)
4 PRK04172 pheS phenylalanyl-tRN 100.0 0 0 757.2 18.0 258 76-351 207-500 (501)
5 PTZ00326 phenylalanyl-tRNA syn 100.0 0 0 718.5 21.5 256 76-346 204-504 (505)
6 cd00496 PheRS_alpha_core Pheny 100.0 0 0 701.4 19.9 217 116-346 1-218 (218)
7 TIGR00468 pheS phenylalanyl-tR 100.0 0 0 591.5 20.9 305 45-352 2-361 (362)
8 KOG2784 consensus 100.0 0 0 488.9 11.8 314 3-348 118-473 (483)
9 TIGR00469 pheS_mito phenylalan 100.0 0 0 428.0 13.4 238 112-366 38-374 (460)
10 KOG2783 consensus 100.0 0 0 383.6 13.4 235 111-366 67-353 (436)
11 PRK06253 O-phosphoseryl-tRNA s 100.0 0 0 358.0 15.8 246 69-342 10-341 (527)
12 TIGR00470 sepS O-phosphoseryl- 100.0 2E-31 5E-36 250.8 16.7 258 60-341 12-359 (558)
13 COG2024 Phenylalanyl-tRNA synt 100.0 1E-27 2.5E-32 223.7 12.8 231 97-341 30-349 (536)
14 pfam02912 Phe_tRNA-synt_N Amin 99.4 6.5E-13 1.7E-17 115.4 9.4 73 23-95 1-73 (73)
15 PRK09616 pheT phenylalanyl-tRN 99.3 3.2E-10 8.2E-15 95.7 16.7 201 97-328 340-545 (546)
16 PRK00476 aspS aspartyl-tRNA sy 99.3 2.9E-10 7.4E-15 96.0 13.7 89 114-225 141-238 (587)
17 cd00777 AspRS_core Asp tRNA sy 99.2 3.5E-10 9E-15 95.4 12.8 202 119-340 5-272 (280)
18 PRK00629 pheT phenylalanyl-tRN 99.2 5.6E-09 1.4E-13 86.6 16.1 218 98-366 468-702 (786)
19 cd00768 class_II_aaRS-like_cor 99.2 1.8E-09 4.5E-14 90.3 13.5 191 118-327 2-211 (211)
20 PRK12820 bifunctional aspartyl 99.1 6.4E-09 1.6E-13 86.2 14.8 108 92-226 138-253 (706)
21 cd00776 AsxRS_core Asx tRNA sy 99.1 1.3E-09 3.3E-14 91.2 9.4 224 91-340 5-314 (322)
22 PRK03932 asnC asparaginyl-tRNA 99.0 5.7E-09 1.5E-13 86.6 11.9 120 117-249 137-270 (462)
23 PRK09350 lysyl-tRNA synthetase 99.0 3.3E-09 8.4E-14 88.3 10.6 120 114-250 15-140 (325)
24 PRK00484 lysS lysyl-tRNA synth 99.0 4.1E-09 1E-13 87.6 11.1 112 117-248 173-288 (491)
25 CHL00192 syfB phenylalanyl-tRN 99.0 2.3E-08 5.9E-13 82.1 14.6 217 98-366 379-618 (702)
26 pfam00152 tRNA-synt_2 tRNA syn 99.0 3.6E-09 9.3E-14 88.0 10.4 134 92-249 4-140 (341)
27 PRK02983 lysS lysyl-tRNA synth 99.0 2.8E-08 7.1E-13 81.6 13.3 107 92-226 757-873 (1099)
28 PRK05159 aspC aspartyl-tRNA sy 99.0 1.9E-08 4.9E-13 82.7 11.7 192 117-340 139-422 (434)
29 cd00669 Asp_Lys_Asn_RS_core As 98.9 1.7E-08 4.3E-13 83.1 10.7 112 119-249 5-119 (269)
30 cd00775 LysRS_core Lys_tRNA sy 98.8 3.1E-08 7.8E-13 81.2 9.6 109 116-249 9-126 (329)
31 cd00769 PheRS_beta_core Phenyl 98.8 2.4E-07 6.1E-12 74.7 13.3 181 117-326 1-197 (198)
32 PRK12445 lysyl-tRNA synthetase 98.8 5.5E-08 1.4E-12 79.4 9.2 115 115-248 184-301 (505)
33 COG0072 PheT Phenylalanyl-tRNA 98.6 1.4E-06 3.5E-11 69.2 12.5 224 96-366 332-568 (650)
34 PRK06462 asparagine synthetase 98.6 2.5E-07 6.3E-12 74.6 8.6 115 115-248 29-149 (332)
35 PRK09537 pylS pyrolysyl-tRNA s 98.6 4E-07 1E-11 73.1 8.9 195 115-340 206-406 (420)
36 KOG1885 consensus 98.5 4.4E-07 1.1E-11 72.8 6.5 141 117-278 227-372 (560)
37 TIGR00471 pheT_arch phenylalan 98.2 1.2E-05 3.1E-10 62.3 9.2 231 65-326 348-603 (605)
38 cd00670 Gly_His_Pro_Ser_Thr_tR 98.1 0.0006 1.5E-08 49.9 15.1 194 119-329 6-232 (235)
39 PRK12292 hisZ ATP phosphoribos 98.0 0.00014 3.7E-09 54.4 11.3 112 113-230 15-131 (388)
40 cd00779 ProRS_core_prok Prolyl 98.0 0.0006 1.5E-08 49.8 14.2 197 115-328 31-249 (255)
41 pfam00587 tRNA-synt_2b tRNA sy 98.0 0.00013 3.4E-09 54.7 10.5 125 119-250 3-140 (170)
42 TIGR02367 PylS pyrrolysyl-tRNA 97.8 5.8E-05 1.5E-09 57.3 6.1 193 116-339 240-438 (453)
43 PRK12295 hisZ ATP phosphoribos 97.8 0.00089 2.3E-08 48.6 11.6 104 118-230 7-112 (373)
44 cd00773 HisRS-like_core Class 97.7 0.00095 2.4E-08 48.4 11.5 106 119-231 6-116 (261)
45 PRK12421 ATP phosphoribosyltra 97.7 0.0015 3.8E-08 47.0 11.9 110 113-228 19-132 (391)
46 PRK12420 histidyl-tRNA synthet 97.6 0.0012 3.1E-08 47.7 10.4 112 115-231 18-133 (421)
47 PRK00037 hisS histidyl-tRNA sy 97.6 0.00062 1.6E-08 49.8 8.9 116 111-231 14-137 (417)
48 COG0124 HisS Histidyl-tRNA syn 97.6 0.0017 4.3E-08 46.6 11.1 112 113-231 16-135 (429)
49 TIGR00472 pheT_bact phenylalan 97.6 0.0026 6.6E-08 45.2 11.7 220 112-366 510-764 (848)
50 CHL00201 syh histidine-tRNA sy 97.5 0.0016 4.1E-08 46.8 9.7 112 114-231 17-136 (424)
51 PRK12293 hisZ ATP phosphoribos 97.4 0.0027 6.9E-08 45.1 10.3 123 109-248 13-139 (281)
52 PRK05431 seryl-tRNA synthetase 97.4 0.021 5.3E-07 38.6 15.6 186 121-329 176-391 (422)
53 cd00770 SerRS_core Seryl-tRNA 97.1 0.005 1.3E-07 43.2 9.0 199 108-330 44-275 (297)
54 COG2269 Truncated, possibly in 97.1 0.0031 7.8E-08 44.7 7.9 103 117-231 18-123 (322)
55 COG1190 LysU Lysyl-tRNA synthe 97.1 0.0016 4.2E-08 46.6 6.0 136 114-266 179-317 (502)
56 TIGR00459 aspS_bact aspartyl-t 96.8 0.00058 1.5E-08 49.9 2.1 89 248-339 496-613 (653)
57 TIGR00462 genX lysyl-tRNA synt 96.7 0.0079 2E-07 41.7 7.1 204 118-341 24-323 (330)
58 COG0173 AspS Aspartyl-tRNA syn 96.6 0.0035 8.9E-08 44.3 4.8 87 249-340 434-550 (585)
59 KOG1936 consensus 96.5 0.045 1.1E-06 36.2 9.7 126 96-229 55-184 (518)
60 KOG1035 consensus 96.0 0.19 4.9E-06 31.6 11.9 210 46-316 848-1086(1351)
61 COG0423 GRS1 Glycyl-tRNA synth 95.9 0.02 5E-07 38.8 5.5 112 176-298 159-324 (558)
62 TIGR00389 glyS_dimeric glycyl- 95.8 0.0089 2.3E-07 41.3 3.1 116 176-298 183-359 (606)
63 cd00771 ThrRS_core Threonyl-tR 95.5 0.18 4.6E-06 31.8 9.0 136 115-258 30-179 (298)
64 PRK04173 glycyl-tRNA synthetas 95.2 0.12 3.1E-06 33.0 7.5 143 177-331 162-336 (460)
65 cd00778 ProRS_core_arch_euk Pr 95.1 0.38 9.7E-06 29.4 11.2 199 115-333 32-260 (261)
66 KOG0556 consensus 95.1 0.0083 2.1E-07 41.5 1.2 46 296-341 460-522 (533)
67 KOG2472 consensus 95.1 0.33 8.3E-06 29.9 9.2 201 84-325 365-575 (578)
68 TIGR00442 hisS histidyl-tRNA s 95.0 0.31 7.8E-06 30.1 9.0 145 109-258 12-167 (446)
69 COG0173 AspS Aspartyl-tRNA syn 95.0 0.36 9.1E-06 29.6 9.3 133 91-250 122-260 (585)
70 cd00772 ProRS_core Prolyl-tRNA 95.0 0.42 1.1E-05 29.1 10.2 221 95-328 12-258 (264)
71 COG0172 SerS Seryl-tRNA synthe 94.7 0.49 1.3E-05 28.6 15.5 118 123-248 182-315 (429)
72 COG0017 AsnS Aspartyl/asparagi 94.5 0.022 5.5E-07 38.5 1.9 202 117-340 136-423 (435)
73 COG0441 ThrS Threonyl-tRNA syn 94.1 0.43 1.1E-05 29.0 7.9 140 118-264 223-377 (589)
74 PRK01584 alanyl-tRNA synthetas 94.1 0.041 1.1E-06 36.4 2.7 57 286-345 194-250 (593)
75 PRK00960 seryl-tRNA synthetase 93.6 0.35 8.9E-06 29.7 6.7 148 190-363 326-500 (516)
76 TIGR00457 asnS asparaginyl-tRN 92.8 0.042 1.1E-06 36.3 1.0 103 113-225 140-259 (495)
77 cd00673 AlaRS_core Alanyl-tRNA 92.4 0.13 3.2E-06 32.9 3.1 178 119-334 2-232 (232)
78 COG3705 HisZ ATP phosphoribosy 92.3 0.29 7.5E-06 30.2 4.9 108 117-231 19-129 (390)
79 PRK13902 alaS lanyl-tRNA synth 91.5 1.4 3.6E-05 25.2 8.9 13 125-137 449-461 (898)
80 COG1190 LysU Lysyl-tRNA synthe 91.1 0.11 2.9E-06 33.2 1.7 22 319-340 471-492 (502)
81 PRK12305 thrS threonyl-tRNA sy 90.4 1.8 4.5E-05 24.5 7.5 130 115-258 208-358 (576)
82 PRK00252 alaS alanyl-tRNA synt 90.0 0.36 9.3E-06 29.5 3.4 16 232-248 593-608 (864)
83 pfam11802 CENP-K Centromere-as 88.9 2.3 5.8E-05 23.7 7.2 25 119-143 213-237 (273)
84 TIGR00458 aspS_arch aspartyl-t 88.8 0.19 4.7E-06 31.7 1.2 220 89-340 134-454 (466)
85 PRK03772 threonyl-tRNA synthet 88.0 2.6 6.6E-05 23.3 9.9 126 115-258 271-420 (642)
86 KOG2298 consensus 87.3 0.44 1.1E-05 28.9 2.4 114 174-298 179-351 (599)
87 KOG2411 consensus 86.1 3 7.6E-05 22.8 6.1 92 113-224 176-274 (628)
88 PRK00413 thrS threonyl-tRNA sy 84.0 4 0.0001 21.9 9.6 140 115-264 268-422 (639)
89 TIGR00499 lysS_bact lysyl-tRNA 83.3 1.1 2.8E-05 26.1 2.8 137 91-248 170-307 (538)
90 PRK03991 threonyl-tRNA synthet 81.2 5 0.00013 21.2 6.2 134 117-259 229-378 (613)
91 KOG0554 consensus 80.4 0.96 2.4E-05 26.5 1.7 112 121-248 138-256 (446)
92 PRK13696 hypothetical protein; 80.2 5.3 0.00013 21.0 5.4 62 14-75 8-70 (72)
93 KOG2509 consensus 77.3 6.6 0.00017 20.3 15.1 100 177-281 241-373 (455)
94 cd03347 eu_PheOH Eukaryotic ph 76.5 2.8 7.2E-05 23.0 3.1 36 41-76 39-82 (306)
95 COG1107 Archaea-specific RecJ- 75.8 5.4 0.00014 21.0 4.4 17 296-312 627-643 (715)
96 PRK09405 aceE pyruvate dehydro 75.6 6.2 0.00016 20.5 4.7 97 234-331 662-777 (886)
97 pfam08549 SWI-SNF_Ssr4 Fungal 74.7 7.6 0.00019 19.9 5.5 43 39-81 320-383 (669)
98 PRK12325 prolyl-tRNA synthetas 73.2 8.2 0.00021 19.6 6.4 99 116-229 48-164 (438)
99 TIGR02086 IPMI_arch 3-isopropy 72.9 4.2 0.00011 21.7 3.3 97 179-331 28-148 (431)
100 PRK13411 molecular chaperone D 72.4 8.6 0.00022 19.5 9.5 12 118-129 340-351 (655)
101 pfam03904 DUF334 Domain of unk 71.6 8.9 0.00023 19.4 9.7 53 44-96 97-150 (229)
102 cd00774 GlyRS-like_core Glycyl 70.6 9.3 0.00024 19.2 8.7 58 177-234 80-148 (254)
103 TIGR00443 hisS_second histidyl 70.4 6.9 0.00018 20.2 3.9 118 107-231 9-132 (414)
104 PRK05183 hscA chaperone protei 69.9 9.6 0.00025 19.1 10.0 18 292-310 403-420 (621)
105 TIGR01270 Trp_5_monoox tryptop 69.4 4.2 0.00011 21.7 2.6 61 194-272 406-470 (499)
106 PRK04483 threonyl-tRNA synthet 69.3 9.9 0.00025 19.0 10.3 129 115-258 271-420 (634)
107 KOG4799 consensus 68.8 2.4 6.1E-05 23.5 1.3 34 255-289 110-145 (182)
108 KOG0347 consensus 62.9 5.5 0.00014 20.9 2.2 53 193-245 310-369 (731)
109 PRK13012 2-oxoacid dehydrogena 62.8 13 0.00033 18.2 4.7 99 232-331 671-789 (898)
110 pfam05061 Pox_A11 Poxvirus A11 62.6 13 0.00033 18.1 4.1 11 240-250 165-175 (309)
111 PRK00290 dnaK molecular chaper 62.3 13 0.00034 18.1 9.8 15 123-137 151-165 (631)
112 PRK12444 threonyl-tRNA synthet 62.3 13 0.00034 18.1 11.9 129 115-261 274-423 (639)
113 PRK00409 recombination and DNA 61.9 13 0.00034 18.0 9.2 35 4-38 516-551 (780)
114 TIGR01069 mutS2 MutS2 family p 58.4 15 0.00039 17.6 8.5 80 2-84 549-629 (834)
115 pfam01411 tRNA-synt_2c tRNA sy 57.1 1.5 3.8E-05 25.0 -1.5 35 303-337 197-237 (545)
116 pfam04415 DUF515 Protein of un 56.5 16 0.00042 17.4 7.2 127 15-143 87-225 (416)
117 pfam00351 Biopterin_H Biopteri 53.9 18 0.00046 17.1 4.3 22 55-76 61-82 (309)
118 PRK01433 hscA chaperone protei 50.3 20 0.00052 16.7 10.0 18 113-130 316-333 (595)
119 TIGR00777 ahpD alkylhydroperox 49.1 6.9 0.00018 20.2 0.8 48 254-315 99-152 (178)
120 CHL00094 dnaK heat shock prote 48.3 22 0.00056 16.5 9.4 10 120-129 343-352 (622)
121 pfam08968 DUF1885 Domain of un 45.5 24 0.00061 16.2 4.1 65 230-326 13-79 (128)
122 PTZ00117 malate dehydrogenase; 45.2 21 0.00053 16.6 2.8 17 327-343 291-307 (313)
123 pfam02906 Fe_hyd_lg_C Iron onl 44.1 21 0.00052 16.7 2.6 112 119-243 35-166 (286)
124 PRK13414 flagellar biosynthesi 42.9 26 0.00066 16.0 3.0 64 23-86 138-207 (209)
125 KOG0129 consensus 42.6 20 0.00052 16.8 2.4 165 104-282 256-464 (520)
126 COG1364 ArgJ N-acetylglutamate 41.4 8.1 0.00021 19.7 0.2 26 109-134 117-142 (404)
127 PRK12831 putative oxidoreducta 40.7 7.5 0.00019 19.9 -0.1 38 117-154 189-234 (464)
128 TIGR02898 spore_YhcN_YlaJ spor 40.7 7.3 0.00019 20.0 -0.1 100 28-132 84-183 (185)
129 TIGR02349 DnaJ_bact chaperone 40.4 19 0.00048 17.0 1.9 21 273-293 214-241 (386)
130 PRK05388 argJ bifunctional orn 39.8 9.3 0.00024 19.2 0.3 33 109-150 116-148 (404)
131 KOG1494 consensus 39.3 28 0.00071 15.7 2.7 40 214-253 231-276 (345)
132 pfam01960 ArgJ ArgJ family. Me 39.3 9.4 0.00024 19.2 0.2 38 109-155 100-138 (387)
133 pfam07851 TMPIT TMPIT-like pro 39.2 30 0.00075 15.6 6.5 58 4-61 6-68 (330)
134 cd02152 OAT Ornithine acetyltr 38.3 11 0.00028 18.7 0.4 38 109-155 103-141 (390)
135 TIGR02905 spore_yutH spore coa 37.9 9.4 0.00024 19.2 0.1 14 215-228 106-119 (325)
136 KOG2786 consensus 37.8 12 0.0003 18.5 0.6 28 111-148 200-227 (431)
137 PRK05425 asparagine synthetase 37.3 30 0.00075 15.6 2.5 48 201-248 95-146 (327)
138 TIGR00418 thrS threonyl-tRNA s 36.9 32 0.00081 15.3 3.0 100 122-227 219-329 (595)
139 PRK00153 hypothetical protein; 36.4 10 0.00026 19.0 0.0 43 1-49 3-45 (107)
140 cd00645 AsnA Asparagine synthe 36.3 32 0.00082 15.3 2.6 49 200-248 83-135 (309)
141 PRK12779 putative bifunctional 36.3 19 0.00049 16.9 1.5 110 217-352 253-370 (944)
142 PRK11546 zraP zinc resistance 36.3 33 0.00083 15.2 9.2 52 29-81 57-108 (139)
143 TIGR01661 ELAV_HUD_SF ELAV/HuD 36.2 15 0.00037 17.8 0.8 20 116-135 110-129 (436)
144 COG4981 Enoyl reductase domain 36.1 21 0.00053 16.7 1.6 126 15-160 265-401 (717)
145 COG2098 Uncharacterized protei 36.1 33 0.00084 15.2 3.1 59 216-276 22-88 (116)
146 KOG0018 consensus 36.1 33 0.00084 15.2 10.6 10 201-210 1039-1048(1141)
147 pfam11324 DUF3126 Protein of u 35.3 34 0.00086 15.1 3.2 31 240-274 4-34 (63)
148 KOG3226 consensus 35.1 10 0.00027 18.9 -0.1 27 200-226 339-374 (508)
149 TIGR01389 recQ ATP-dependent D 34.9 11 0.00028 18.7 0.0 40 4-45 63-104 (607)
150 pfam07798 DUF1640 Protein of u 34.6 35 0.00088 15.1 8.9 11 44-54 59-69 (177)
151 pfam10805 DUF2730 Protein of u 34.5 35 0.00088 15.0 3.7 41 16-56 52-92 (106)
152 KOG0729 consensus 34.3 24 0.0006 16.3 1.6 14 122-135 117-130 (435)
153 PRK12928 lipoyl synthase; Prov 34.0 28 0.00071 15.7 2.0 176 119-347 25-235 (290)
154 KOG2344 consensus 34.0 35 0.0009 15.0 6.8 18 108-125 379-396 (623)
155 COG4734 ArdA Antirestriction p 33.7 9.7 0.00025 19.1 -0.4 29 258-292 38-69 (193)
156 TIGR03112 6_pyr_pter_rel 6-pyr 33.6 36 0.00091 14.9 4.3 54 212-272 19-77 (113)
157 PTZ00213 asparagine synthetase 33.2 36 0.00093 14.9 2.8 49 200-248 94-146 (350)
158 KOG4191 consensus 32.9 19 0.00049 16.9 1.0 38 132-169 168-221 (516)
159 pfam09227 DUF1962 Domain of un 32.9 32 0.00081 15.3 2.1 17 283-299 35-51 (64)
160 PRK09469 glnA glutamine synthe 31.3 29 0.00074 15.6 1.7 34 119-154 106-141 (469)
161 PRK07574 formate dehydrogenase 30.7 16 0.00042 17.4 0.3 11 125-135 60-70 (385)
162 KOG4321 consensus 30.7 40 0.001 14.6 2.4 63 152-214 38-130 (279)
163 PRK05481 lipoyl synthase; Prov 30.0 41 0.001 14.5 3.1 32 121-152 251-283 (289)
164 COG5490 Uncharacterized conser 29.1 42 0.0011 14.4 8.6 13 26-38 101-113 (158)
165 TIGR01851 argC_other N-acetyl- 29.0 25 0.00064 16.1 1.0 14 213-226 182-195 (314)
166 PRK09194 prolyl-tRNA synthetas 28.5 37 0.00095 14.8 1.9 22 115-136 171-192 (570)
167 KOG2008 consensus 28.4 43 0.0011 14.3 7.8 26 113-138 152-177 (426)
168 PRK00133 metG methionyl-tRNA s 28.3 43 0.0011 14.3 4.5 50 292-342 285-355 (666)
169 KOG3861 consensus 28.1 44 0.0011 14.3 2.7 62 210-272 112-199 (438)
170 pfam03822 NAF NAF domain. 27.9 44 0.0011 14.3 2.8 27 111-137 34-60 (61)
171 pfam11805 DUF3326 Protein of u 27.7 12 0.00031 18.3 -0.7 17 234-250 186-202 (339)
172 PRK00578 prfB peptide chain re 27.7 45 0.0011 14.3 8.5 58 180-242 209-294 (367)
173 KOG2270 consensus 27.4 41 0.0011 14.5 1.9 29 128-160 144-172 (520)
174 PRK01544 bifunctional N5-gluta 27.1 46 0.0012 14.2 2.5 60 9-69 3-65 (503)
175 TIGR00513 accA acetyl-CoA carb 27.0 14 0.00036 17.9 -0.5 105 178-334 109-229 (329)
176 COG1379 PHP family phosphoeste 26.7 18 0.00046 17.1 -0.0 72 219-301 205-293 (403)
177 cd07062 Peptidase_S66_mccF_lik 26.7 46 0.0012 14.1 2.3 45 119-166 17-61 (308)
178 KOG4712 consensus 26.5 47 0.0012 14.1 6.6 99 59-166 897-1005(1335)
179 PRK12810 gltD glutamate syntha 26.1 22 0.00056 16.5 0.3 50 93-145 161-219 (472)
180 pfam01696 Adeno_E1B_55K Adenov 25.6 12 0.00031 18.3 -1.0 69 119-207 21-105 (387)
181 PTZ00009 heat shock 70 kDa pro 25.4 49 0.0012 14.0 8.0 12 118-129 345-356 (657)
182 cd07963 Anticodon_Ia_Cys Antic 25.3 49 0.0012 14.0 2.3 25 121-146 130-154 (156)
183 smart00874 B5 tRNA synthetase 25.3 42 0.0011 14.5 1.6 17 122-138 21-37 (71)
184 pfam04344 CheZ Chemotaxis phos 25.2 49 0.0012 14.0 9.3 14 121-134 192-205 (205)
185 COG0320 LipA Lipoate synthase 24.7 42 0.0011 14.5 1.5 180 116-348 32-245 (306)
186 TIGR01088 aroQ 3-dehydroquinat 24.6 50 0.0013 13.9 2.7 106 119-232 23-130 (144)
187 cd03345 eu_TyrOH Eukaryotic ty 24.5 50 0.0013 13.9 3.0 200 55-339 60-265 (298)
188 PRK10751 molybdopterin-guanine 24.5 50 0.0013 13.9 2.0 38 119-164 16-53 (170)
189 pfam11015 DUF2853 Protein of u 24.4 36 0.00092 14.9 1.2 23 20-42 35-57 (102)
190 pfam07083 DUF1351 Protein of u 24.3 51 0.0013 13.8 7.8 49 5-53 18-66 (220)
191 pfam07927 YcfA YcfA-like prote 24.1 37 0.00094 14.9 1.2 38 123-163 2-44 (58)
192 KOG0804 consensus 23.6 52 0.0013 13.7 8.9 19 9-27 347-365 (493)
193 COG2609 AceE Pyruvate dehydrog 23.5 53 0.0013 13.7 5.4 108 228-336 656-783 (887)
194 KOG0426 consensus 23.1 20 0.0005 16.8 -0.4 15 219-233 33-47 (165)
195 PRK07080 hypothetical protein; 22.6 55 0.0014 13.6 2.4 142 111-268 40-225 (318)
196 COG3167 PilO Tfp pilus assembl 22.1 56 0.0014 13.5 7.5 46 4-52 51-96 (211)
197 TIGR01020 rpsE_arch ribosomal 21.9 43 0.0011 14.3 1.2 30 286-321 156-185 (220)
198 KOG3820 consensus 21.9 56 0.0014 13.5 2.9 202 113-341 154-392 (461)
199 TIGR01382 PfpI intracellular p 21.7 52 0.0013 13.7 1.6 88 145-248 73-188 (189)
200 TIGR01969 minD_arch cell divis 21.5 45 0.0012 14.2 1.2 15 225-239 32-46 (258)
201 TIGR00838 argH argininosuccina 21.5 57 0.0015 13.5 4.2 40 37-77 31-70 (469)
202 TIGR02956 TMAO_torS TMAO reduc 21.5 57 0.0015 13.5 5.6 194 53-268 446-734 (1052)
203 TIGR02622 CDP_4_6_dhtase CDP-g 21.5 45 0.0012 14.2 1.2 114 125-248 20-172 (361)
204 TIGR00614 recQ_fam ATP-depende 21.2 58 0.0015 13.4 2.1 52 3-59 61-114 (497)
205 TIGR01340 aconitase_mito aconi 21.2 35 0.00089 15.0 0.6 13 296-308 134-146 (761)
206 KOG3595 consensus 21.1 58 0.0015 13.4 9.2 65 62-131 784-848 (1395)
207 cd02410 archeal_CPSF_KH The ar 21.0 59 0.0015 13.4 2.7 70 273-352 70-144 (145)
208 cd00179 SynN Syntaxin N-termin 21.0 59 0.0015 13.4 4.0 27 29-55 44-70 (151)
209 pfam08006 DUF1700 Protein of u 20.8 59 0.0015 13.4 5.6 36 41-79 3-38 (181)
210 TIGR01772 MDH_euk_gproteo mala 20.7 40 0.001 14.6 0.8 19 232-250 263-282 (379)
211 COG0514 RecQ Superfamily II DN 20.6 28 0.0007 15.8 -0.1 33 4-36 67-101 (590)
212 pfam01075 Glyco_transf_9 Glyco 20.6 18 0.00046 17.1 -1.0 57 226-287 188-247 (249)
213 TIGR02279 PaaC-3OHAcCoADH 3-hy 20.6 32 0.00082 15.3 0.3 67 177-261 178-262 (508)
214 KOG3878 consensus 20.5 26 0.00067 15.9 -0.2 33 179-211 266-306 (469)
215 TIGR01622 SF-CC1 splicing fact 20.4 60 0.0015 13.3 1.8 33 102-134 225-261 (531)
216 TIGR03545 conserved hypothetic 20.4 60 0.0015 13.3 10.1 84 4-88 166-256 (554)
217 PRK11408 hypothetical protein; 20.2 53 0.0013 13.7 1.3 19 213-231 48-69 (219)
No 1
>PRK00488 pheS phenylalanyl-tRNA synthetase subunit alpha; Validated
Probab=100.00 E-value=0 Score=1053.26 Aligned_cols=336 Identities=48% Similarity=0.909 Sum_probs=329.4
Q ss_pred HHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 99999999999999850699899999999980864068999876158998899999999999999999999999999985
Q gi|254780317|r 8 EDEVERIRSSLYNSIASVTDMDSLNAIRVATLGRKGSISSLLKDLKNLDSQQVSARGAILNQLKVDISGKISARKDFIRN 87 (366)
Q Consensus 8 ~eeI~~L~~e~~~~I~~a~~~~eLe~lrv~~LGKKG~Lt~llK~Lk~Ls~EeKk~~Gk~iNelK~~Ie~~i~~kk~~L~~ 87 (366)
|++|++|+++++++|++|+|+++|+++|++||||||.||.++|+||++|+|+||++|+.+|++|+.|++++++++++|+.
T Consensus 1 MedL~~L~~ea~~~I~~a~~~~eLe~lR~~yLGKKG~Lt~llk~Lk~L~~EEKk~~Gk~iNelK~~Ie~~i~~k~~~l~~ 80 (338)
T PRK00488 1 MEDLEELVEQALAAIAAASDLKALEALRVKYLGKKGELTELLKGLGKLPPEERKAAGALINEAKQAVQEALNARKAELEA 80 (338)
T ss_pred CHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 93699999999999986899999999999994960699999987636999999999999999999999999999999999
Q ss_pred HHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEE
Q ss_conf 67666765431000001123212267423899999999999987398762372341588988861898877331633127
Q gi|254780317|r 88 QLIFEQISSQSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTF 167 (366)
Q Consensus 88 ~~~~~kl~~E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTF 167 (366)
+++++++++|++|||||+ ++...|++||||+++++|++||.+|||+|++|||||+|||||||||+|+|||||||||||
T Consensus 81 ~~~~~~L~~E~iDvTlP~--~~~~~G~~HPit~~~~ei~~iF~~~Gf~v~~GpeiE~~~~NFdaLn~P~~HPAR~~~DTF 158 (338)
T PRK00488 81 AELNARLAAETIDVTLPG--RRIELGGLHPLTRTIERIEDIFVGLGFEVAEGPEIEDDYYNFEALNIPKDHPARDMQDTF 158 (338)
T ss_pred HHHHHHHHCCCCCCCCCC--CCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCCEEEHHHHHHHHCCCCCCCCCCCCCEE
T ss_conf 999877553246337878--888876647699999999999998697696188310045468875699788543646628
Q ss_pred EEECCCCCCCCCCCCCCCCHHHHHHHHCCCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHH
Q ss_conf 750566655632244676305555430363122541057647454-4213781002005786178668999889999999
Q gi|254780317|r 168 FVPGIAGGKHKLLRTHTSPVQIRVMESQDLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCK 246 (366)
Q Consensus 168 yl~~~~~~~~~lLRthTS~vQiR~m~~~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~ 246 (366)
|++ +++|||||||+||||+|++++||+|+||||||||+|+ ||||+|||||+|||+||++|||+||||+|+.|++
T Consensus 159 y~~-----~~~lLRTHTS~~qir~m~~~~pp~~~i~~GrvyR~d~~DatH~~~FhQ~Egl~vd~~it~~~Lk~~l~~f~~ 233 (338)
T PRK00488 159 YID-----DRLLLRTHTSPVQIRTMEKQKPPIRIIAPGRVYRNDSDDATHSPMFHQVEGLVVDKNISFADLKGTLEDFLK 233 (338)
T ss_pred EEC-----CCCEECCCCCHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCCCEEEEEEEEEEEECCCCHHHHHHHHHHHHH
T ss_conf 976-----871343568788899997269986999526631589998753504664005897178879999999999999
Q ss_pred HHCCCCCCEEEEEECCCCCCCCCCEEEEEEECCCCE-EEECCCCCEEEEECCCCCCHHHHHHCCCCCCCEEEEEEECCHH
Q ss_conf 970888662645423889852661036787505880-4224688348984575638889985698800037996313446
Q gi|254780317|r 247 SFFEVSSLQMRFRPSFFPFTEPSFEVDVRCSFSDGI-IKFDEGTEWMEILGCGMVDPRVLRGVGIDPDIYQGFAWGMGLD 325 (366)
Q Consensus 247 ~~fg~~~~~~r~rp~~fPftePs~Evdv~~~~~~~~-~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~~~g~AfG~G~e 325 (366)
.+|| +++++|||||||||||||+||||+|..|+|+ |++||+++||||+||||||||||+++||||++|+|||||||||
T Consensus 234 ~~fg-~~~~~R~rpsyFPFtEPs~Evdi~~~~~~g~gc~~~~~~~WlEi~G~Gmv~p~Vl~~~gid~~~~~G~AfG~Gie 312 (338)
T PRK00488 234 AFFG-EDLKIRFRPSYFPFTEPSAEVDVSCFNCKGKGCRVCKNTGWLEVLGCGMVHPNVLRNVGIDPEEYSGFAFGMGIE 312 (338)
T ss_pred HHCC-CCCEEEECCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCCEEEECCCCCCCHHHHHHCCCCCCCCEEEEEEECHH
T ss_conf 9728-766477547889999985347887314577665447899638973766678899986699955275998751588
Q ss_pred HHHHHHCCCCCHHHHHHCCHHHHHHC
Q ss_conf 99799738970587663588888744
Q gi|254780317|r 326 RIAMLKYGMPDVREFFGADVRWIEHY 351 (366)
Q Consensus 326 Rlaml~~gi~diR~~~~~d~rfl~qf 351 (366)
|+||+||||+|||+||+||+|||+||
T Consensus 313 R~aMl~~gi~DiR~~~~~D~rfl~QF 338 (338)
T PRK00488 313 RLAMLRYGINDLRDFFENDLRFLKQF 338 (338)
T ss_pred HHHHHHCCCCHHHHHHHCCHHHHHCC
T ss_conf 99999809966898873668788449
No 2
>COG0016 PheS Phenylalanyl-tRNA synthetase alpha subunit [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=0 Score=926.28 Aligned_cols=329 Identities=47% Similarity=0.861 Sum_probs=315.2
Q ss_pred HHHHHHHHHHHHHHHHHCCCH-HHHHHHHHHHCCCCHHHHHHHHHHCCCCH-HHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 999999999999998506998-99999999980864068999876158998-8999999999999999999999999999
Q gi|254780317|r 8 EDEVERIRSSLYNSIASVTDM-DSLNAIRVATLGRKGSISSLLKDLKNLDS-QQVSARGAILNQLKVDISGKISARKDFI 85 (366)
Q Consensus 8 ~eeI~~L~~e~~~~I~~a~~~-~eLe~lrv~~LGKKG~Lt~llK~Lk~Ls~-EeKk~~Gk~iNelK~~Ie~~i~~kk~~L 85 (366)
+..+.++.+++..+++.+++. ..|+++|++||||||.|+.++|.+|+++. |+||.+|+.+|.+|+.++.++.+++.++
T Consensus 3 ~~~l~~l~~~~~~~i~~~~~~~~~L~~~~~~~lgk~g~l~~~~k~l~~~~~~eer~~~g~~in~~~~~~~~~~~~~~~~l 82 (335)
T COG0016 3 MIALGRLAKKGIAAIELASDLLKALEELKVKYLGKKGVLTDLLKKLGKLSPLEERKEVGALINELKKEVEDAITELTPEL 82 (335)
T ss_pred HHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHCCCCCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 67999999998899886203799999999985276410699998724587366522320447766799999999988999
Q ss_pred HHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCC
Q ss_conf 85676667654310000011232122674238999999999999873987623723415889888618988773316331
Q gi|254780317|r 86 RNQLIFEQISSQSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHD 165 (366)
Q Consensus 86 ~~~~~~~kl~~E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqD 165 (366)
..+..++++.++++|||+| +++...|++||+++++++|++||.+|||++++||+||+|||||||||+|+|||||||||
T Consensus 83 ~~~~~~~~l~~e~~dv~lp--~~~~~~G~~Hpl~~~~e~i~~iF~~mGF~~~~gp~IE~d~~NFDaLn~P~dHPARdmqD 160 (335)
T COG0016 83 EAAGLWERLAFEKIDVTLP--GRRIYPGSLHPLTQTIEEIEDIFLGMGFTEVEGPEIETDFYNFDALNIPQDHPARDMQD 160 (335)
T ss_pred HHHHHHHHHHCCCCCCCCC--CCCCCCCCCCHHHHHHHHHHHHHHHCCCEECCCCCCCCCCCCHHHHCCCCCCCCCCCCC
T ss_conf 9878988622157775788--86677898670899999999999974966645882132022524324999998412444
Q ss_pred EEEEECCCCCCCCCCCCCCCCHHHHHHHHCCC-EEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCCCCHHHHHHHHHH
Q ss_conf 27750566655632244676305555430363-122541057647454-4213781002005786178668999889999
Q gi|254780317|r 166 TFFVPGIAGGKHKLLRTHTSPVQIRVMESQDL-PIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDSATIANLRWVLES 243 (366)
Q Consensus 166 TFyl~~~~~~~~~lLRthTS~vQiR~m~~~~p-P~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~ 243 (366)
|||+++..+ +.|||||||+||+|+|.++++ |+|+||||||||+|+ ||||+|||||+||||||+|+||+||||+|+.
T Consensus 161 TFy~~~~~~--~~lLRTHTs~vq~R~l~~~~~~P~k~~~~grvyR~D~~DaTHs~~FhQiEGlvvd~~~s~~~Lkg~L~~ 238 (335)
T COG0016 161 TFYLKDDRE--KLLLRTHTSPVQARTLAENAKIPIKIFSPGRVYRNDTVDATHSPEFHQIEGLVVDKNISFADLKGTLEE 238 (335)
T ss_pred EEEECCCCC--CEEECCCCCHHHHHHHHHCCCCCCEEECCCCEECCCCCCCCCCHHEEEEEEEEEECCCCHHHHHHHHHH
T ss_conf 378768877--300236682765999984799991584566341178877642610133678999589569999999999
Q ss_pred HHHHHCCCCCCEEEEEECCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCCCCCCEEEEEEECC
Q ss_conf 99997088866264542388985266103678750588042246883489845756388899856988000379963134
Q gi|254780317|r 244 FCKSFFEVSSLQMRFRPSFFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGIDPDIYQGFAWGMG 323 (366)
Q Consensus 244 ~~~~~fg~~~~~~r~rp~~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~~~g~AfG~G 323 (366)
|++++|| .++++|||||||||||||+||||+|..| ++||||+||||||||||+++||||+.|+|||||||
T Consensus 239 f~~~~fg-~~~~vRfrpsyFPFTEPS~Evdv~~~~~---------~~WlEi~G~Gmv~P~VL~~~G~~~~~~~GfAfGlG 308 (335)
T COG0016 239 FAKKFFG-EDVKVRFRPSYFPFTEPSAEVDVYCPGC---------GGWLEILGCGMVHPNVLEAVGIDPEEYSGFAFGLG 308 (335)
T ss_pred HHHHHCC-CCCCEEEECCCCCCCCCEEEEEEEECCC---------CCEEEEECCCCCCHHHHHHCCCCCCCCEEEEEEEC
T ss_conf 9999637-7763576068789899717899997687---------86899835654578889745999876058887404
Q ss_pred HHHHHHHHCCCCCHHHHHHCCHHHHHH
Q ss_conf 469979973897058766358888874
Q gi|254780317|r 324 LDRIAMLKYGMPDVREFFGADVRWIEH 350 (366)
Q Consensus 324 ~eRlaml~~gi~diR~~~~~d~rfl~q 350 (366)
|||||||+|||+|||+||+||+|||+|
T Consensus 309 lERlAMLkygI~DIR~l~~~D~rfl~q 335 (335)
T COG0016 309 LERLAMLKYGIPDIRDLYENDLRFLRQ 335 (335)
T ss_pred HHHHHHHHHCCCHHHHHHHCCCHHHCC
T ss_conf 889999982980799987465133229
No 3
>pfam01409 tRNA-synt_2d tRNA synthetases class II core domain (F). Other tRNA synthetase sub-families are too dissimilar to be included. This family includes only phenylalanyl-tRNA synthetases. This is the core catalytic domain.
Probab=100.00 E-value=0 Score=772.74 Aligned_cols=241 Identities=51% Similarity=0.970 Sum_probs=231.6
Q ss_pred HCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCC
Q ss_conf 10000011232122674238999999999999873987623723415889888618988773316331277505666556
Q gi|254780317|r 98 SVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKH 177 (366)
Q Consensus 98 ~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~ 177 (366)
++||||| +++...|++||+++++++|++||.+|||++++||||||+||||||||+|+||||||||||||+++...+++
T Consensus 1 ~~Dvtlp--~~~~~~G~~HPi~~~~~~i~~~f~~~GF~~~~g~eves~~~NFDaLn~P~dHPaR~~~DTfy~~~~~~~~~ 78 (243)
T pfam01409 1 PYDVTLP--GRRIEPGGLHPLTRVLEEIRDIFLSMGFEEVEGPEVESDFYNFDALNIPQDHPARDMQDTFYLKKPLKARR 78 (243)
T ss_pred CCCCCCC--CCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHHCCCCCCCCCCCCCEEEECCCCCCCC
T ss_conf 9663168--98988998585999999999999877986876983564277777557898898767676034336666768
Q ss_pred CCCCCCCCCHHHHHH-HHCCCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHCCCCCCE
Q ss_conf 322446763055554-30363122541057647454-4213781002005786178668999889999999970888662
Q gi|254780317|r 178 KLLRTHTSPVQIRVM-ESQDLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSFFEVSSLQ 255 (366)
Q Consensus 178 ~lLRthTS~vQiR~m-~~~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~fg~~~~~ 255 (366)
+|||||||++|+|+| ++++||+|+||||||||||+ ||||+|+|||+||++||++|||+||||+|+.|++++|| .+++
T Consensus 79 ~vLRtHTS~~q~r~l~~~~~~p~r~~~~grvyR~d~~DatH~~~FhQ~Eg~vvd~~it~~~Lk~~l~~~~~~lfg-~~~~ 157 (243)
T pfam01409 79 LLLRTHTTPVQARTLAEKNKPPIKIFSIGRVFRRDQVDATHLPEFHQVEGLVVDENVSFADLKGVLEEFLRKFFG-FEVK 157 (243)
T ss_pred EEECCCCCHHHHHHHHHCCCCCEEEECCCEEEECCCCCCCCCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHHCC-CCCE
T ss_conf 657687988999999742799848981431332588984315310575578965777899999999999999739-9737
Q ss_pred EEEEECCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCCCCCCEEEEEEECCHHHHHHHHCCCC
Q ss_conf 64542388985266103678750588042246883489845756388899856988000379963134469979973897
Q gi|254780317|r 256 MRFRPSFFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGIDPDIYQGFAWGMGLDRIAMLKYGMP 335 (366)
Q Consensus 256 ~r~rp~~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~~~g~AfG~G~eRlaml~~gi~ 335 (366)
+||||+||||||||+||||+| |++++||||+|||||||+||+++||| ++|+|||||+||||||||+|||+
T Consensus 158 ~R~rp~yFPFTePS~Evdv~~---------~~~~~WlEi~G~Gmv~p~vl~~~gid-~~~~g~AfG~GlERlaMl~~gi~ 227 (243)
T pfam01409 158 VRFRPSYFPFTEPSAEVDVYC---------CKGGGWIEIGGAGMVHPNVLEAVGID-EDYPGFAFGLGVERLAMLKYGID 227 (243)
T ss_pred EEECCCCCCCCCCCCEEEEEE---------ECCCCEEEEEECCCCCHHHHHHCCCC-CCCEEEEEEECHHHHHHHHCCCC
T ss_conf 986788699999861799999---------64997258750366678899866989-89769998534889999982997
Q ss_pred CHHHHHHCCHHHHHHC
Q ss_conf 0587663588888744
Q gi|254780317|r 336 DVREFFGADVRWIEHY 351 (366)
Q Consensus 336 diR~~~~~d~rfl~qf 351 (366)
|||+||+||+|||+||
T Consensus 228 DIR~~~~~D~rfL~qf 243 (243)
T pfam01409 228 DIRDLYENDLRFLRQF 243 (243)
T ss_pred HHHHHHHCCHHHHHCC
T ss_conf 7898762676677549
No 4
>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional
Probab=100.00 E-value=0 Score=757.19 Aligned_cols=258 Identities=35% Similarity=0.691 Sum_probs=230.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCC
Q ss_conf 99999999998567666765431000001123212267423899999999999987398762372341588988861898
Q gi|254780317|r 76 GKISARKDFIRNQLIFEQISSQSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFP 155 (366)
Q Consensus 76 ~~i~~kk~~L~~~~~~~kl~~E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP 155 (366)
+.+.+...++.....|+......+|++.| +.+...|++||+++++++|++||.+|||++++||+||++||||||||+|
T Consensus 207 ~~it~LT~EmL~SGsWK~~~FK~Yn~~a~--~~~~~~g~~Hp~~~~~~~~r~i~~~mGF~e~~g~~ve~~fwNfdaLf~P 284 (501)
T PRK04172 207 EEITQLTPELLKSGEWKEKEFRPYNIKAP--PPKIYPGKKHPYREFIEEVRDILVEMGFEEVKGPIVETEFWNFDALFQP 284 (501)
T ss_pred HHHHHCCHHHHCCCCCCCCCCCCCCCCCC--CCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCEECCCCCHHHHCCC
T ss_conf 21300789885488523377660556788--8778988748899999999999997897685366101000033430589
Q ss_pred CCCCCCCCCCEEEEECCC----------------------------------CCCCCCCCCCCCCHHHHHHHH-CCCEEE
Q ss_conf 877331633127750566----------------------------------655632244676305555430-363122
Q gi|254780317|r 156 DDHPARQMHDTFFVPGIA----------------------------------GGKHKLLRTHTSPVQIRVMES-QDLPIK 200 (366)
Q Consensus 156 ~~HPARdmqDTFyl~~~~----------------------------------~~~~~lLRthTS~vQiR~m~~-~~pP~~ 200 (366)
|||||||||||||++++. .+.++|||||||+||||+|.+ .+||+|
T Consensus 285 q~HPARd~~Dtf~l~~~~~~~lp~~~~~~Vk~~HE~Gg~~gS~Gw~y~w~~~~~~~~~lRthtt~~~~r~l~~~~~~p~~ 364 (501)
T PRK04172 285 QDHPAREMQDTFYLKYPSKGELPEELVERVKEVHEHGGDTGSRGWGYKWDEDIAKRLVLRTHTTALSARYLAERPEPPGK 364 (501)
T ss_pred CCCCCCCCCCEEEECCCCCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHCCCCCCCHHHHHHHHHCCCCCEE
T ss_conf 89985554453786576545573788988999874277678877677778556643010436746679999746899835
Q ss_pred EEECCCCCCCCC-CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCEEEEEEECC
Q ss_conf 541057647454-4213781002005786178668999889999999970888662645423889852661036787505
Q gi|254780317|r 201 VIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSFFEVSSLQMRFRPSFFPFTEPSFEVDVRCSFS 279 (366)
Q Consensus 201 ~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~fg~~~~~~r~rp~~fPftePs~Evdv~~~~~ 279 (366)
+||||||||||+ ||||+|+|||+||+|||+||||+||||+|+.|++.+ |.. ++||||+||||||||+|||++|.
T Consensus 365 ~f~~~rvfR~e~~d~tH~~~F~Q~eg~v~~~~~~~~~L~g~l~~f~~~~-g~~--~~rfrp~yfPftEPs~E~~~~~~-- 439 (501)
T PRK04172 365 YFSIGRVFRPETIDATHLPEFYQLEGIVMGEDVSFRHLLGILKEFYKRL-GFE--EVKFRPAYFPFTEPSVEVEVYHP-- 439 (501)
T ss_pred EECCCCEEECCCCCCCCCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHH-CCC--CEEECCCCCCCCCCCEEEEEEEC--
T ss_conf 7356505426888865441332224899848887999999999999985-886--07867998998998278999957--
Q ss_pred CCEEEECCCCCEEEEECCCCCCHHHHHHCCCCCCCEEEEEEECCHHHHHHHHCCCCCHHHHHHCCHHHHHHC
Q ss_conf 880422468834898457563888998569880003799631344699799738970587663588888744
Q gi|254780317|r 280 DGIIKFDEGTEWMEILGCGMVDPRVLRGVGIDPDIYQGFAWGMGLDRIAMLKYGMPDVREFFGADVRWIEHY 351 (366)
Q Consensus 280 ~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~~~g~AfG~G~eRlaml~~gi~diR~~~~~d~rfl~qf 351 (366)
+.|||||+||||+||+||+++||| |+++||||||||+||++|||+|||+||+||+||||.-
T Consensus 440 --------~~~WiE~~g~G~~~pevl~~~g~~---~~~~a~G~g~eR~am~~~gi~diR~l~~~d~~~lr~~ 500 (501)
T PRK04172 440 --------GLGWVELGGAGIFRPEVTEPLGID---VPVLAWGIGIDRLAMLRLGLDDIRDLYSSDIEWLRET 500 (501)
T ss_pred --------CCCEEEEECCCCCCHHHHHHCCCC---CCEEEEEECHHHHHHHHHCCHHHHHHHHCCHHHHHCC
T ss_conf --------998699826757888999755999---8747875159999999829808888850547887129
No 5
>PTZ00326 phenylalanyl-tRNA synthetase; Provisional
Probab=100.00 E-value=0 Score=718.52 Aligned_cols=256 Identities=31% Similarity=0.593 Sum_probs=222.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCC-EEECHHHHHHHHCC
Q ss_conf 99999999998567666765431000001123212267423899999999999987398762372-34158898886189
Q gi|254780317|r 76 GKISARKDFIRNQLIFEQISSQSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEGS-DIETDYYNFAALNF 154 (366)
Q Consensus 76 ~~i~~kk~~L~~~~~~~kl~~E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGP-EIEtd~~NFdaLNi 154 (366)
..+.+...++.....|++....++|++.| +.+...|++||+++++++|++||.+|||+++++| .||++||||||||+
T Consensus 204 k~itdLT~EmL~SGsWK~~~FK~YNv~a~--g~~~~~g~~hp~~~~~~~~r~if~~mGF~E~~~~~~ves~fwNfDaLf~ 281 (505)
T PTZ00326 204 KQITDLTIEMLKDGSWKEAEFKKYNFNAS--GKKVSMGNLHPLLKVRQEFREIFMEMGFEEMPTNRWVESSFWNFDALFI 281 (505)
T ss_pred HHHHHCCHHHHCCCCCCCCCCCCCCCCCC--CCCCCCCCCCHHHHHHHHHHHHHHHCCCEECCCCCEEEECCCCCHHHCC
T ss_conf 32421799885288633266643410698--8888877668899999999999997797676689713313213111048
Q ss_pred CCCCCCCCCCCEEEEECCC----------------------------------CCCCCCCCCCCCCHHHHHHHH---C--
Q ss_conf 8877331633127750566----------------------------------655632244676305555430---3--
Q gi|254780317|r 155 PDDHPARQMHDTFFVPGIA----------------------------------GGKHKLLRTHTSPVQIRVMES---Q-- 195 (366)
Q Consensus 155 P~~HPARdmqDTFyl~~~~----------------------------------~~~~~lLRthTS~vQiR~m~~---~-- 195 (366)
||||||||||||||++++. .+.++|||||||+||+|+|.+ +
T Consensus 282 Pq~HPARd~~DTF~l~~p~~~~~~~~~~~~~Vk~vHe~G~~gs~Gw~y~W~~~~a~~~~LRthTt~vs~r~l~~~~~~~~ 361 (505)
T PTZ00326 282 PQQHPARDLQDTFFLSKPETSKFLDAEYVERVKAVHSGGGYGSIGWQYNWKLEEARKNVLRTHTTAVSARMLYKLAQQYQ 361 (505)
T ss_pred CCCCCCCCCCCEEEECCCCCCCCCCHHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHCCCCCCCCHHHHHHHHHHHHCCC
T ss_conf 98998665233477447542456878999988888506887888767787977875206365775376999998754046
Q ss_pred ----CCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCC
Q ss_conf ----63122541057647454-4213781002005786178668999889999999970888662645423889852661
Q gi|254780317|r 196 ----DLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSFFEVSSLQMRFRPSFFPFTEPSF 270 (366)
Q Consensus 196 ----~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~fg~~~~~~r~rp~~fPftePs~ 270 (366)
-+|.|+||+|||||||+ ||||+|+|||+||++||+||||+||||+|+.|++.+ |.. ++|||||||||||||+
T Consensus 362 ~~~~~~P~k~fsi~rv~R~e~~d~th~~~f~Q~eg~~~~~~~~~~~l~~~l~~f~~~~-g~~--~~rfrp~yfpftePs~ 438 (505)
T PTZ00326 362 KGKGFKPKKYFSIDRVFRNETLDATHLAEFHQVEGVVIDRNLSLGDLMGTLREFFRRI-GIS--KLRFKPAFNPYTEPSM 438 (505)
T ss_pred CCCCCCCCEEEECCCEEECCCCCCCCCCEEEEEEEEEECCCCCHHHHHHHHHHHHHHH-CCC--CEEECCCCCCCCCCCE
T ss_conf 5568898147523726415777765340455435789648888999999999999984-987--5786888889899827
Q ss_pred EEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCCCCCCEEEEEEECCHHHHHHHHCCCCCHHHHHHCCHH
Q ss_conf 0367875058804224688348984575638889985698800037996313446997997389705876635888
Q gi|254780317|r 271 EVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGIDPDIYQGFAWGMGLDRIAMLKYGMPDVREFFGADVR 346 (366)
Q Consensus 271 Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~~~g~AfG~G~eRlaml~~gi~diR~~~~~d~r 346 (366)
||++.+.. .++||||+|||||||+||+++|||+ .|+||||||||||+||++|||+|||+||++|+.
T Consensus 439 e~~~~~~~---------~~~w~Ei~g~Gm~~p~vl~~~g~~~-~~~~~a~G~g~eR~am~~~gi~dir~l~~~~~d 504 (505)
T PTZ00326 439 EIFGYHPQ---------LKKWVEVGNSGLFRPEMLRPMGFPE-DVTVIAWGLSLERPTMIKYGISNIRDLFGPKVD 504 (505)
T ss_pred EEEEEECC---------CCCEEEEECCCCCCHHHHHHCCCCC-CCEEEEEEECHHHHHHHHHCCCHHHHHHCCCCC
T ss_conf 89997078---------8847998266575878873259599-984899862388999998398578897456789
No 6
>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=100.00 E-value=0 Score=701.38 Aligned_cols=217 Identities=56% Similarity=1.020 Sum_probs=209.4
Q ss_pred CHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHHC
Q ss_conf 38999999999999873987623723415889888618988773316331277505666556322446763055554303
Q gi|254780317|r 116 HPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVMESQ 195 (366)
Q Consensus 116 HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m~~~ 195 (366)
|||++++++|++||.+|||++++|||||++|||||+||+|+||||||||||||+++ ..+.|||||||++|+|+|+++
T Consensus 1 Hpl~~~~~~i~~~f~~~GF~~~~gp~ie~~~~NFD~Ln~P~dHPaR~~~DTfy~~~---~~~~lLRtHTS~~q~r~l~~~ 77 (218)
T cd00496 1 HPLNKVIEEIEDIFVSMGFTEVEGPEVETDFYNFDALNIPQDHPARDMQDTFYIND---PARLLLRTHTSAVQARALAKL 77 (218)
T ss_pred CCHHHHHHHHHHHHHHCCCEEECCCCCCCCHHHHHHHCCCCCCCCCCCCCEEEECC---CCCCEECCCCCHHHHHHHHHC
T ss_conf 94789999999999877986822895123103045338598875537243278637---766021578756679999745
Q ss_pred CCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCEEEE
Q ss_conf 63122541057647454-42137810020057861786689998899999999708886626454238898526610367
Q gi|254780317|r 196 DLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSFFEVSSLQMRFRPSFFPFTEPSFEVDV 274 (366)
Q Consensus 196 ~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~fg~~~~~~r~rp~~fPftePs~Evdv 274 (366)
+||+|+||||||||||+ ||||+|+|||+||++|++++|++|||++|+.|++++|| +++++||||+||||||||+||||
T Consensus 78 ~~p~~~~~~G~VyR~D~iDatH~~~FhQ~Eg~~v~~~~~~~~Lk~~l~~~~~~lfg-~~~~~r~rp~yFPFTePS~Evdv 156 (218)
T cd00496 78 KPPIRIFSIGRVYRNDEIDATHLPEFHQIEGLVVDKGLTFADLKGTLEEFAKELFG-PITKVRFRPSYFPFTEPSFEVDV 156 (218)
T ss_pred CCCCEEEECCCEEECCCCCCCCCCEEEEEEEEEEECCCCHHHHHHHHHHHHHHHCC-CCCEEEECCCCCCCCCCCEEEEE
T ss_conf 89817994250465388984315312576379995651199999999999999738-76645367788999998269999
Q ss_pred EEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCCCCCCEEEEEEECCHHHHHHHHCCCCCHHHHHHCCHH
Q ss_conf 875058804224688348984575638889985698800037996313446997997389705876635888
Q gi|254780317|r 275 RCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGIDPDIYQGFAWGMGLDRIAMLKYGMPDVREFFGADVR 346 (366)
Q Consensus 275 ~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~~~g~AfG~G~eRlaml~~gi~diR~~~~~d~r 346 (366)
+|..|+ +||||+||||+||+||+++|+| +.|+|||||+|||||||++|||+|||+||+||+|
T Consensus 157 ~~~~~~---------~WlEv~G~G~v~p~vL~~~G~d-~~~~g~AfG~GlERlaMl~~gI~DIR~~~~~D~R 218 (218)
T cd00496 157 YCPGCL---------GWLEILGCGMVRPEVLENAGID-EEYSGFAFGIGLERLAMLKYGIPDIRLFYSNDLR 218 (218)
T ss_pred EECCCC---------CCEEEECCCCCCHHHHHHCCCC-CCCEEEEEEECHHHHHHHHCCCCHHHHHHHCCCC
T ss_conf 965878---------7148850465488999866979-9988999852588999998399768887516889
No 7
>TIGR00468 pheS phenylalanyl-tRNA synthetase, alpha subunit; InterPro: IPR004529 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; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . 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 . This family 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 family. ; GO: 0000166 nucleotide binding, 0004826 phenylalanine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006432 phenylalanyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=100.00 E-value=0 Score=591.49 Aligned_cols=305 Identities=43% Similarity=0.842 Sum_probs=289.7
Q ss_pred HHHHHHHHCCCCHHH--HHHHHHHHHHHH------HHHHHHHHHHHHHHH--HHHHHHHHHHHHCCCCCCCCCCCCCCCC
Q ss_conf 899987615899889--999999999999------999999999999998--5676667654310000011232122674
Q gi|254780317|r 45 ISSLLKDLKNLDSQQ--VSARGAILNQLK------VDISGKISARKDFIR--NQLIFEQISSQSVDVSLPVFSSPCHRGR 114 (366)
Q Consensus 45 Lt~llK~Lk~Ls~Ee--Kk~~Gk~iNelK------~~Ie~~i~~kk~~L~--~~~~~~kl~~E~iDVTLP~~~~~~~~G~ 114 (366)
++.+++.++.++.++ |+..|+..|+.| ..++..+..++..+. ....++++..+.+|+++| +.+...|+
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~--~~~~~~g~ 79 (362)
T TIGR00468 2 LKDLLKGLGKLSKEEELKPALGALANEVKEFLKKGIELEDELTKLKPELLDLEAGLWKKLKFEPYDVTLP--GKPIYPGG 79 (362)
T ss_pred CHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCEEEC--CCCCCCCC
T ss_conf 2124444311313577777788777767887512267888888766778777765554310122111104--43114553
Q ss_pred CCHHHHHHHHHHHHHHHCCCEEECCCE-EECHHHHHHHHCCCCCCCCCCCCCEEEEECCC--------------------
Q ss_conf 238999999999999873987623723-41588988861898877331633127750566--------------------
Q gi|254780317|r 115 IHPVTQVIDEVTCIFMDMGFALEEGSD-IETDYYNFAALNFPDDHPARQMHDTFFVPGIA-------------------- 173 (366)
Q Consensus 115 ~HPItqvi~eI~~IF~~lGF~v~eGPE-IEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~-------------------- 173 (366)
.||+++++++++++|.+|||++..||+ ||++|||||+||+|++||||++|||||++.+.
T Consensus 80 ~~p~~~~~~~~~~~~~~~g~~~~~g~~~~~~~~~~f~~l~~p~~hp~r~~~d~f~~~~p~~~~~~~~~~~~~~~~~~~~~ 159 (362)
T TIGR00468 80 LHPLTRVIDEIRDIFLGLGFTEEKGPEYVETDFWNFDALNLPQDHPARDLQDTFYLKDPLTGDLPPELVSDVKDAHETGG 159 (362)
T ss_pred CHHHHHHHHHHHHHHHHHCCEEECCCCEECCCCCCCHHHCCCCCCCCCCCCCEEEECCCCCCCCCHHHHHHHHHHHHHCC
T ss_conf 10578999999998765033010473101111001011127754543112330331374200032246776777665202
Q ss_pred --------------CCCCCCCCCCCCC---HHHHHHHHCC----CEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCC
Q ss_conf --------------6556322446763---0555543036----3122541057647454-4213781002005786178
Q gi|254780317|r 174 --------------GGKHKLLRTHTSP---VQIRVMESQD----LPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDS 231 (366)
Q Consensus 174 --------------~~~~~lLRthTS~---vQiR~m~~~~----pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~ 231 (366)
.....+||||||+ +|+|+|..++ ||+|++|+|||||+|+ |+||+|+|||+||+++|++
T Consensus 160 ~~g~~gw~~~~~~~~~~~~~lrt~~~~~~~~~~~~~~~~~~~~~pp~~~~~~~~~~r~~~~d~~h~~~f~~~~g~~~~~~ 239 (362)
T TIGR00468 160 ATGSRGWRYEWDEDLARRLLLRTHTTASSAVQLRTLEENPKAKNPPIRIFCPGRVFRRDTVDATHLPEFHQLEGLVVDKN 239 (362)
T ss_pred CCCCCCCCCCCCHHHHHHHHHHHCCCHHHHHHHHHHHHHHCCCCCCEEEEECCHHHCCCCCCCCCCCHHHHEEEEEEECC
T ss_conf 12232445444555665555431132135666666654101378862576410111023333101410221002354156
Q ss_pred CCHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCCC
Q ss_conf 66899988999999997088866264542388985266103678750588042246883489845756388899856988
Q gi|254780317|r 232 ATIANLRWVLESFCKSFFEVSSLQMRFRPSFFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGID 311 (366)
Q Consensus 232 i~~~~lk~~l~~~~~~~fg~~~~~~r~rp~~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d 311 (366)
+++.+|+|+++.|++++|| ++.++||||+||||||||+|+|++|+.|+..|++|++++|+|++||||+||+|+++.|++
T Consensus 240 ~~~~~l~g~~~~~~~~~~~-~~~~~~~~p~~fp~t~p~~e~~~~~~~c~~gc~~c~~~~W~e~~g~g~~~p~~~~~~g~~ 318 (362)
T TIGR00468 240 VSFTNLKGLLEEFLKKLFG-EDTEVRFRPSYFPFTEPSAEVDVYCPECGKGCSVCKGTGWLELLGAGIFRPEVLEPLGID 318 (362)
T ss_pred CCHHHHHHHHHHHHHHHCC-CCCCEEEECCCCCCCCCCCCEEEEEHHHCCCCHHHCCCCEEEEECCCCCCHHHHHHCCCC
T ss_conf 6467889999999997413-221202310336655555302442000013100101465035404553242355423787
Q ss_pred CCCEEEEEEECCHHHHHHHHCCCCCHHHHHHCCHH--HHHHCC
Q ss_conf 00037996313446997997389705876635888--887448
Q gi|254780317|r 312 PDIYQGFAWGMGLDRIAMLKYGMPDVREFFGADVR--WIEHYG 352 (366)
Q Consensus 312 ~~~~~g~AfG~G~eRlaml~~gi~diR~~~~~d~r--fl~qf~ 352 (366)
++.|+|+|||+|+||+||++||++|||.||.+|++ ||+||.
T Consensus 319 ~~~~~~~~~g~g~~r~~~~~~~~~d~r~~~~~~~~~~~l~~~~ 361 (362)
T TIGR00468 319 PEEYPGLAWGLGIERLAMLKYGLDDLRDLYENDLGDDFLRQFP 361 (362)
T ss_pred CCCCEEEEECCCHHHHHHHHHCHHHHHHHHCCCCCHHHHHCCC
T ss_conf 3101134321240124454513356888640332012332048
No 8
>KOG2784 consensus
Probab=100.00 E-value=0 Score=488.94 Aligned_cols=314 Identities=28% Similarity=0.530 Sum_probs=245.4
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 46899999999999999998506998999999999808640689998761589988999999999999999999999999
Q gi|254780317|r 3 ECNVFEDEVERIRSSLYNSIASVTDMDSLNAIRVATLGRKGSISSLLKDLKNLDSQQVSARGAILNQLKVDISGKISARK 82 (366)
Q Consensus 3 e~n~m~eeI~~L~~e~~~~I~~a~~~~eLe~lrv~~LGKKG~Lt~llK~Lk~Ls~EeKk~~Gk~iNelK~~Ie~~i~~kk 82 (366)
+++.+.|+..+..++.+..- .+..+++++|..- +|+ -..++......-|.+.-.+.++-.+++...
T Consensus 118 ~v~~itD~v~~~l~~ik~g~---~~ake~~dlkKrK-----Li~--~~~~~~f~v~KGp~Fst~l~k~eTdLT~em---- 183 (483)
T KOG2784 118 DVDSITDEVRNQLQQIKRGS---ADAKEVEDLKKRK-----LIS--EVKIKVFSVTKGPNFSTSLTKLETDLTSEM---- 183 (483)
T ss_pred CHHHHHHHHHHHHHHHHCCC---CHHHHHHHHHHHH-----HHC--CCEEEEEEEECCCCCCCHHHHHHHHCCHHH----
T ss_conf 10355388999999987276---1477888777654-----420--120589997138765433777764325988----
Q ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCC-EEECCCEEECHHHHHHHHCCCCCCCCC
Q ss_conf 9998567666765431000001123212267423899999999999987398-762372341588988861898877331
Q gi|254780317|r 83 DFIRNQLIFEQISSQSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGF-ALEEGSDIETDYYNFAALNFPDDHPAR 161 (366)
Q Consensus 83 ~~L~~~~~~~kl~~E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF-~v~eGPEIEtd~~NFdaLNiP~~HPAR 161 (366)
.....|+.+....+....- |.++..|++||+.+|++|+++||.+||| +++....||+.|||||||++||+||||
T Consensus 184 ---i~~gsw~dl~FK~YNF~a~--G~~p~~G~lHPLmKvR~eFRqiF~emGFsEMptn~yVEssFWNFDALfqPQqHpAR 258 (483)
T KOG2784 184 ---IASGSWKDLKFKPYNFNAE--GVPPSSGHLHPLMKVREEFRQIFFEMGFSEMPTNNYVESSFWNFDALFQPQQHPAR 258 (483)
T ss_pred ---HCCCCHHHCCCCCCCCCCC--CCCCCCCCCCHHHHHHHHHHHHHHHCCCCCCCCCCCHHHCCCCCHHHCCCCCCCCC
T ss_conf ---6058533156764675467--89997776554888899999999980623066544011024453000475558753
Q ss_pred CCCCEEEEECCC----------------------------------CCCCCCCCCCCCCHHHHHHHH--CC--CEEEEEE
Q ss_conf 633127750566----------------------------------655632244676305555430--36--3122541
Q gi|254780317|r 162 QMHDTFFVPGIA----------------------------------GGKHKLLRTHTSPVQIRVMES--QD--LPIKVIV 203 (366)
Q Consensus 162 dmqDTFyl~~~~----------------------------------~~~~~lLRthTS~vQiR~m~~--~~--pP~~~~~ 203 (366)
|.|||||+.+++ +..++|||||||+|+.|.+.. .+ .|.|.||
T Consensus 259 DahDTFfl~~Pa~s~~~p~dY~~rVk~vH~~G~ygs~GY~y~wk~eEaqKnvLRTHTTavSArmLy~LAk~~f~p~K~FS 338 (483)
T KOG2784 259 DAHDTFFLKDPATSTKFPEDYLERVKAVHEQGGYGSIGYRYNWKLEEAQKNVLRTHTTAVSARMLYRLAKKGFKPAKYFS 338 (483)
T ss_pred CCCCCEEECCHHHCCCCCHHHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCC
T ss_conf 33452476371330369899999999887168867765678889899987777650477649999999747998511010
Q ss_pred CCCCCCCCC-CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCEEEEEEECCCCE
Q ss_conf 057647454-4213781002005786178668999889999999970888662645423889852661036787505880
Q gi|254780317|r 204 PGKTYRRDS-DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSFFEVSSLQMRFRPSFFPFTEPSFEVDVRCSFSDGI 282 (366)
Q Consensus 204 ~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~fg~~~~~~r~rp~~fPftePs~Evdv~~~~~~~~ 282 (366)
++|||||++ ||||..+||||||+++|+++|++||.|+|..|...+ |. ..+||+|.|.||||||+|+-.++
T Consensus 339 IDrVFRNEtvDaTHLAEFHQVEGviad~gltLgdLig~l~~ff~~l-g~--tnlrfKPaynpYtepsmeif~yh------ 409 (483)
T KOG2784 339 IDRVFRNETVDATHLAEFHQVEGVIADKGLTLGDLIGILMEFFTKL-GA--TNLRFKPAYNPYTEPSMEIFSYH------ 409 (483)
T ss_pred HHHHHHCCCCCHHHHHHHHHHCEEEECCCCCHHHHHHHHHHHHHCC-CC--CCCCCCCCCCCCCCCEEEEEEEC------
T ss_conf 4134403432057787776320365137876999999999997326-87--66422699898888635787740------
Q ss_pred EEECCCCCEEEEECCCCCCHHHHHHCCCCCCCEEEEEEECCHHHHHHHHCCCCCHHHHHHC--CHHHH
Q ss_conf 4224688348984575638889985698800037996313446997997389705876635--88888
Q gi|254780317|r 283 IKFDEGTEWMEILGCGMVDPRVLRGVGIDPDIYQGFAWGMGLDRIAMLKYGMPDVREFFGA--DVRWI 348 (366)
Q Consensus 283 ~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~~~g~AfG~G~eRlaml~~gi~diR~~~~~--d~rfl 348 (366)
.....|+|++.+||+||+.|.++|+ |...+..|||+.+||.+||+|||.+||.+... |+.++
T Consensus 410 ---~gl~kwvEvgnSg~frPeml~pMGL-p~Dv~vl~~glslErptmIkyg~~nir~l~ghkv~L~~~ 473 (483)
T KOG2784 410 ---HGLFKWVEVGNSGMFRPEMLLPMGL-PMDVVVLAWGLSLERPTMIKYGIQNIRWLKGHKVDLVAL 473 (483)
T ss_pred ---CCCCEEEEECCCCCCCHHHHHCCCC-CCCCEEEEECCCCCCCHHHHHHHCCHHHHHCCCEEEEEE
T ss_conf ---5651489976888878767605689-865323330443568613655210067762564368972
No 9
>TIGR00469 pheS_mito phenylalanyl-tRNA synthetase; InterPro: IPR004530 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; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . 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 . This family describes the mitochondrial phenylalanyl-tRNA synthetases. 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.; GO: 0000166 nucleotide binding, 0004826 phenylalanine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006432 phenylalanyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=100.00 E-value=0 Score=427.98 Aligned_cols=238 Identities=34% Similarity=0.673 Sum_probs=207.9
Q ss_pred CCCCCHHHHHHHHHHHHHHHCC--------CEEECC--CEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCC
Q ss_conf 6742389999999999998739--------876237--234158898886189887733163312775056665563224
Q gi|254780317|r 112 RGRIHPVTQVIDEVTCIFMDMG--------FALEEG--SDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLR 181 (366)
Q Consensus 112 ~G~~HPItqvi~eI~~IF~~lG--------F~v~eG--PEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLR 181 (366)
.-.-||++.+++.|+..|.+.- |+|.+. | |-|---|||.|-+|+|||+|+..||+|| ++..|||
T Consensus 38 L~~~HP~~I~R~~I~~~l~~~~~nqrGnP~F~~y~~~~P-VVT~~~NFD~L~~P~DH~~R~KSD~YYI-----N~~HLLR 111 (460)
T TIGR00469 38 LKEDHPLSILRDLIVKKLYSVDRNQRGNPLFKVYDNFKP-VVTVQENFDSLLIPKDHVSRSKSDTYYI-----NETHLLR 111 (460)
T ss_pred CCCCCCHHHHHHHHHHHHHHHHCCCCCCCCEEHCCCCCC-EEEECCCCCCCCCCCCCCCCCCCCEEEE-----CCCHHHH
T ss_conf 123576467788999876322103568851111005797-4732013311278887788754541330-----3300333
Q ss_pred CCCCCHHHHHHHHC---CCEE--EEEECCCCCCCCC-CCCCCCCCCCCCEEEE---------------------------
Q ss_conf 46763055554303---6312--2541057647454-4213781002005786---------------------------
Q gi|254780317|r 182 THTSPVQIRVMESQ---DLPI--KVIVPGKTYRRDS-DSTHSPMFHQIEGLVV--------------------------- 228 (366)
Q Consensus 182 thTS~vQiR~m~~~---~pP~--~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v--------------------------- 228 (366)
||||+-|+..+.+. .--| -....|.|||||+ |.||+|+|||+||-.|
T Consensus 112 ~HT~AH~~E~~~~~~~~sdniksGFL~~~~VYRRDEID~THYPVFHQ~~Ga~~~~~TK~~~~~~~P~y~E~~~E~~~~~~ 191 (460)
T TIGR00469 112 AHTSAHELELISKILDDSDNIKSGFLVVADVYRRDEIDKTHYPVFHQADGAAVRKVTKDDLFVKEPGYLEKIREDIRQVL 191 (460)
T ss_pred HCCCHHHHHHHHCCCCCCCCCCCCEEEEEEEEECCCCCCCCCCCEECCCCCEEHHHHHHHHCCCCCCHHHHHHHHHHHHH
T ss_conf 30213454544222353211121206874344123456878870142676212100234430468740124566678885
Q ss_pred ------------CCC------------------C--CHHHHHHHHHHHHHHHCCC--------------CCCEEEEEECC
Q ss_conf ------------178------------------6--6899988999999997088--------------86626454238
Q gi|254780317|r 229 ------------SDS------------------A--TIANLRWVLESFCKSFFEV--------------SSLQMRFRPSF 262 (366)
Q Consensus 229 ------------~~~------------------i--~~~~lk~~l~~~~~~~fg~--------------~~~~~r~rp~~ 262 (366)
+.+ | .=.+||..|..+++.+||+ +++|+||--+|
T Consensus 192 ~~~nkenvK~~~~~~~~~~K~N~Pkqey~~~~~V~L~~~~lK~~~~~~~~~~F~~~IssmiknkanntPkelK~RW~~~Y 271 (460)
T TIGR00469 192 ALLNKENVKLILDDDSIPLKENSPKQEYASDLEVDLMEQELKRVLVLLVKDLFNKKISSMIKNKANNTPKELKVRWVDAY 271 (460)
T ss_pred HCCCCCCEEEEECCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHCCCCCCCEEEEEECC
T ss_conf 10032640588468875688888514455578899888777899998888641603467764320377420015575033
Q ss_pred CCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCCCCCCEEEEEEECCHHHHHHHHCCCCCHHHHHH
Q ss_conf 89852661036787505880422468834898457563888998569880003799631344699799738970587663
Q gi|254780317|r 263 FPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGIDPDIYQGFAWGMGLDRIAMLKYGMPDVREFFG 342 (366)
Q Consensus 263 fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~~~g~AfG~G~eRlaml~~gi~diR~~~~ 342 (366)
||||.||-|+.|+| ++.|+||+|||+++-+||.-+|+.+..--|||||+|||||||+.+.|||||+||+
T Consensus 272 FP~T~PSWE~E~y~-----------~~~WLE~~GCG~~R~~~L~R~G~~~SetIGyAFG~GL~R~AM~LF~IPDIRLlWS 340 (460)
T TIGR00469 272 FPFTAPSWELEVYF-----------KDEWLELLGCGLIRQDVLLRAGVKQSETIGYAFGLGLDRLAMLLFDIPDIRLLWS 340 (460)
T ss_pred CCCCCCCCEEEEEE-----------CCCEEEEECCCHHHHHHHHHCCCCCCCCCCEEECCCHHHHHHHHHCCCCEEEEEE
T ss_conf 88988840589888-----------3765565155146778988458973332200001008899988734886156620
Q ss_pred CCHHHHHHCC---------CCCC-CCCCCCCCCC
Q ss_conf 5888887448---------9844-6884145889
Q gi|254780317|r 343 ADVRWIEHYG---------FSPL-DIPPLFSRLA 366 (366)
Q Consensus 343 ~d~rfl~qf~---------~~~~-~~~~~~~~~~ 366 (366)
+|-||++||- |-|. ..|-+++|+|
T Consensus 341 ~D~~F~~QFS~~dlh~~~~yKP~S~~P~~~~D~~ 374 (460)
T TIGR00469 341 RDERFLRQFSKKDLHLLTKYKPISKYPQSFRDLA 374 (460)
T ss_pred CCCCHHHHHCCHHHHCCCCCCCCCCCCCCCCHHH
T ss_conf 4530233311102321567686457887402053
No 10
>KOG2783 consensus
Probab=100.00 E-value=0 Score=383.63 Aligned_cols=235 Identities=36% Similarity=0.750 Sum_probs=207.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHHCC---CEEECC-CEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCC
Q ss_conf 26742389999999999998739---876237-23415889888618988773316331277505666556322446763
Q gi|254780317|r 111 HRGRIHPVTQVIDEVTCIFMDMG---FALEEG-SDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSP 186 (366)
Q Consensus 111 ~~G~~HPItqvi~eI~~IF~~lG---F~v~eG-PEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~ 186 (366)
..-..|||....+.|.+.|..-+ |++.+. +-|+|-+-|||.|.+|++||+|...||+|++ ...+||+|||+
T Consensus 67 h~~~~hplg~lr~~i~~~f~~~~~~~fs~~~~~spvvt~~qnfdsl~~p~dh~sr~ksdtyy~n-----~~~~lr~htsa 141 (436)
T KOG2783 67 HQKESHPLGILRQRIEDYFYKTYRNLFSIFENESPVVTTYQNFDSLLFPADHVSRSKSDTYYVN-----HTHCLRAHTSA 141 (436)
T ss_pred HHHCCCCHHHHHHHHHHHHHHHHCCCCHHCCCCCCEEEHHHHCCCCCCCCCCCCCCCCCCEEEC-----CEEEEHHCCHH
T ss_conf 5440584467999877789886235310046788602355414444574235556767741421-----23321113505
Q ss_pred HHHHHHHHCCCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCCC-------------------C-------------
Q ss_conf 05555430363122541057647454-42137810020057861786-------------------6-------------
Q gi|254780317|r 187 VQIRVMESQDLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDSA-------------------T------------- 233 (366)
Q Consensus 187 vQiR~m~~~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i-------------------~------------- 233 (366)
.|.--+.... ......|.|||+|+ |+||+|.|||+||..+-..+ +
T Consensus 142 hq~e~~~~~~--~~flv~~DVyrrdeidsthypvfhq~eg~~~~s~~~l~~~~~d~~~ve~~~~~s~~~~~~~~kq~~~t 219 (436)
T KOG2783 142 HQHELFQKGL--DGFLVTGDVYRRDEIDSTHYPVFHQMEGVRLWSKDELFGKKPDGKNVAELFSGSSATLRSPNKQEKHT 219 (436)
T ss_pred HHHHHHHHCC--CCCCEEEEEEEECCCCCCCCCEECCCCCEEEEECCHHHCCCCCCCCEECCCCCCCCCCCCCCCCCCCH
T ss_conf 3799997315--46623433453000023025100355330577312120256663010036444654002642345206
Q ss_pred -------HHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHH
Q ss_conf -------8999889999999970888662645423889852661036787505880422468834898457563888998
Q gi|254780317|r 234 -------IANLRWVLESFCKSFFEVSSLQMRFRPSFFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLR 306 (366)
Q Consensus 234 -------~~~lk~~l~~~~~~~fg~~~~~~r~rp~~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~ 306 (366)
=-|||.+|+.+++.+|| ..+++||--.|||||.||.|+.|.+ ++.|+|++|||++...+|.
T Consensus 220 ~e~~~~~~~~lk~~l~~L~~~Lf~-~~~~~rwV~~yfpft~ps~eleI~~-----------~~~wlevlgcgvi~~~il~ 287 (436)
T KOG2783 220 LEATKLAEQHLKQTLEGLCDELFG-KEVEYRWVDAYFPFTHPSWELEIYF-----------KGEWLEVLGCGVMRQRLLK 287 (436)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCC-CHHHEEHEEEECCCCCCCEEEEEEE-----------CCCCHHHHCCCHHHHHHHH
T ss_conf 889999999999999889998626-0441101105766689875899996-----------5876765155056778875
Q ss_pred HCCCCCCCEEEEEEECCHHHHHHHHCCCCCHHHHHHCCHHHHHHCC-------CCCCC-CCCCCCCCC
Q ss_conf 5698800037996313446997997389705876635888887448-------98446-884145889
Q gi|254780317|r 307 GVGIDPDIYQGFAWGMGLDRIAMLKYGMPDVREFFGADVRWIEHYG-------FSPLD-IPPLFSRLA 366 (366)
Q Consensus 307 ~~g~d~~~~~g~AfG~G~eRlaml~~gi~diR~~~~~d~rfl~qf~-------~~~~~-~~~~~~~~~ 366 (366)
.+|+. .+-|||||||+|||||+.|+|+|||+||+.|-|||+||. |-|.+ +|+||+|+|
T Consensus 288 ~ag~~--~~igwafglgLerLAMll~~IpDiRlfWs~DeRFlkqF~~g~I~~~FKp~SkYP~c~~DiS 353 (436)
T KOG2783 288 RAGLN--NYIGWAFGLGLERLAMLLFDIPDIRLFWSFDERFLKQFSPGKIEPKFKPYSKYPPCYKDIS 353 (436)
T ss_pred HCCCC--CEEEEEEECCHHHHHHHHHCCCCHHEEECCCHHHHHHCCCCCCCCCCCCCCCCCCCCCCEE
T ss_conf 20411--0034565046788888873676221011222677873185546646565455897524416
No 11
>PRK06253 O-phosphoseryl-tRNA synthetase; Reviewed
Probab=100.00 E-value=0 Score=357.97 Aligned_cols=246 Identities=24% Similarity=0.408 Sum_probs=186.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECH---
Q ss_conf 99999999999999999856766676543100000112321226742389999999999998739876237234158---
Q gi|254780317|r 69 QLKVDISGKISARKDFIRNQLIFEQISSQSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETD--- 145 (366)
Q Consensus 69 elK~~Ie~~i~~kk~~L~~~~~~~kl~~E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd--- 145 (366)
.++++.+.+-.+-+..+.... ++---| ......|+.||+..+|++++++|.+|||+.+-+|-|.++
T Consensus 10 ~a~~DFe~AW~~g~~~i~~~~---------~~~~YP--r~~~~~gk~HPv~~tI~~lReayL~mGF~E~~nPiiv~e~~v 78 (527)
T PRK06253 10 LAKKDFEKAWHEGKKLIKPPG---------LNERYP--RLKYEFGKAHPVFDTIQRLREAYLRMGFEEMMNPVIVDEKDI 78 (527)
T ss_pred HHHHHHHHHHHHCCCCCCCCC---------CCCCCC--CCCCCCCCCCCHHHHHHHHHHHHHHCCHHHHHCCEECCHHHH
T ss_conf 987538999872766226788---------444587--647666887837999999999999708487628522345888
Q ss_pred HHHH---------------------------------HHHCCCCCCCCCCCCCEEEE--E----CC--------------
Q ss_conf 8988---------------------------------86189887733163312775--0----56--------------
Q gi|254780317|r 146 YYNF---------------------------------AALNFPDDHPARQMHDTFFV--P----GI-------------- 172 (366)
Q Consensus 146 ~~NF---------------------------------daLNiP~~HPARdmqDTFyl--~----~~-------------- 172 (366)
|++| +.+.-+.+++++.+++||.. + ..
T Consensus 79 ~~qFg~eA~avlDr~FYLagLPrP~vGis~e~~~~i~~~~~~~~~~~~e~lr~~lh~ykkg~idGdDLv~ei~~~l~v~d 158 (527)
T PRK06253 79 YKQFGPEAMAVLDRCFYLAGLPRPNVGISDERIAQIEEILGDLSEEEKEKLREILHAYKKGEIDGDDLVLEISNALEVSD 158 (527)
T ss_pred HHHCCHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHCCCCCCCCHHHHHHHHHCCCCC
T ss_conf 87408488988766644247898875622677999998617887677899999988752677664154788876406675
Q ss_pred ------------------CCCCCCCCCCCCCCH---HHHHHHH-CCCEEEEEECCCCCCCCC--CCCCCCCCCCCCEEEE
Q ss_conf ------------------665563224467630---5555430-363122541057647454--4213781002005786
Q gi|254780317|r 173 ------------------AGGKHKLLRTHTSPV---QIRVMES-QDLPIKVIVPGKTYRRDS--DSTHSPMFHQIEGLVV 228 (366)
Q Consensus 173 ------------------~~~~~~lLRthTS~v---QiR~m~~-~~pP~~~~~~GrvyR~d~--D~tH~~~FhQ~egl~v 228 (366)
..+.+.+||||||+. ++..|.+ .++|+|+||++|||||++ |++|++.|||.+|+++
T Consensus 159 ~~~~~~ld~VFPEfkeL~p~s~~~tLRSHmTsgwfitL~~l~~k~~~P~klFSIDRcFRrEq~eD~~hL~~yhsascvv~ 238 (527)
T PRK06253 159 AMVVKILDEVFPEFKELKPESSRLTLRSHMTSGWFITLSALWERKPLPFKLFSIDRCFRREQKEDASRLMTYHSASCVVA 238 (527)
T ss_pred CHHHHHHHHHCHHHHHCCCCCCCCEEHHCCCCHHHHHHHHHHHCCCCCEEEEEEEHEEECHHHCCHHHHHHHHEEEEEEE
T ss_conf 13435466545455522554445341001030278879999726799836874101022000024556345443226997
Q ss_pred CCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEEC------CCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCH
Q ss_conf 178668999889999999970888662645423------88985266103678750588042246883489845756388
Q gi|254780317|r 229 SDSATIANLRWVLESFCKSFFEVSSLQMRFRPS------FFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDP 302 (366)
Q Consensus 229 ~~~i~~~~lk~~l~~~~~~~fg~~~~~~r~rp~------~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p 302 (366)
++++|+.|+|++++.|+++| |-+ ++||||+ |+|+|+ .||.+++ .+..||+||+|+||++|
T Consensus 239 ~edVn~d~gkav~~~lL~~f-GF~--~frFrPdek~skYY~P~Tq--tEVy~yh---------p~~~gWvEvatfGIysP 304 (527)
T PRK06253 239 GEDVTVDDGKAVAEGLLSQF-GFT--NFRFRPDEKRSKYYTPDTQ--TEVYAYH---------PKLDGWVEVATFGIYSP 304 (527)
T ss_pred CCCCCHHHHHHHHHHHHHHH-CCC--EEEECCCCCCCCCCCCCCC--EEEEEEC---------CCCCCEEEEECCCCCCH
T ss_conf 59866777799999999970-975--3784344235665378863--2799963---------66786289731425675
Q ss_pred HHHHHCCCCCCCEEEEEEECCHHHHHHHHCCCCCHHHHHH
Q ss_conf 8998569880003799631344699799738970587663
Q gi|254780317|r 303 RVLRGVGIDPDIYQGFAWGMGLDRIAMLKYGMPDVREFFG 342 (366)
Q Consensus 303 ~vl~~~g~d~~~~~g~AfG~G~eRlaml~~gi~diR~~~~ 342 (366)
.||++.||+..+ +|||||+||||||+||.+|||.+.-
T Consensus 305 ~aL~~ygI~~PV---mnlGlGvERLAMI~~~~~DiR~l~y 341 (527)
T PRK06253 305 TALAEYGIDVPV---MNLGLGVERLAMILHNAEDVREMVY 341 (527)
T ss_pred HHHHHCCCCCCE---EECCCCHHHHHHHHCCCHHHHHHHC
T ss_conf 445431999742---2001118999999818277887633
No 12
>TIGR00470 sepS O-phosphoseryl-tRNA(Cys) synthetase; InterPro: IPR005246 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; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . All known phenylalanyl-tRNA synthetases, excepting a monomeric mitochondrial form, have an alpha 2 beta 2 heterotetrameric structure. This family of archaeal proteins resembles known phenylalanyl-tRNA synthetase alpha chains but is longer and of unknown function; more generally, it resembles class 2 aminoacyl tRNA ligases. .
Probab=100.00 E-value=2e-31 Score=250.78 Aligned_cols=258 Identities=24% Similarity=0.449 Sum_probs=204.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECC
Q ss_conf 99999999999999999999999999856766676543100000112321226742389999999999998739876237
Q gi|254780317|r 60 VSARGAILNQLKVDISGKISARKDFIRNQLIFEQISSQSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEG 139 (366)
Q Consensus 60 Kk~~Gk~iNelK~~Ie~~i~~kk~~L~~~~~~~kl~~E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eG 139 (366)
|=.+-+.+.-+..+.|.|=.+.++.|... ..|-.-| .-.+.-|+-|||-.||++|++-..+|||+.+=+
T Consensus 12 rfdikK~~eLaekDFE~AW~e~~~~l~~~---------h~d~~YP--Rl~f~~GK~Hpl~~TI~rlReAYLr~GFsE~vN 80 (558)
T TIGR00470 12 RFDIKKVLELAEKDFEAAWKESKELLKEK---------HIDEKYP--RLKFEFGKEHPLFETIERLREAYLRLGFSEMVN 80 (558)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHCC---------CCCCCCC--CCCCCCCCCCCHHHHHHHHHHHHHHCCCEECCC
T ss_conf 24679999975656899989867876227---------8665687--245545888756899999999986468313007
Q ss_pred CEEECHHHHHHHHCCCCCCCCCCCCC-EEEEECCC---------------------------------------------
Q ss_conf 23415889888618988773316331-27750566---------------------------------------------
Q gi|254780317|r 140 SDIETDYYNFAALNFPDDHPARQMHD-TFFVPGIA--------------------------------------------- 173 (366)
Q Consensus 140 PEIEtd~~NFdaLNiP~~HPARdmqD-TFyl~~~~--------------------------------------------- 173 (366)
|-|-+|-|-.- -+.+.=|| --| -|||....
T Consensus 81 Plivde~hiyk--QFGpEA~A--VLDRCFYLagLPrPdvGlg~eki~~Ie~~gid~~deK~E~L~Evfh~YKKG~idGDD 156 (558)
T TIGR00470 81 PLIVDEVHIYK--QFGPEALA--VLDRCFYLAGLPRPDVGLGAEKIRIIEDLGIDVSDEKKERLKEVFHRYKKGEIDGDD 156 (558)
T ss_pred CEEECCEEEEE--CCCCCHHH--HHHHHHHHCCCCCCCCCCCCHHHHHHHHCCCCCCCCCCHHHHHHHHHCCCCCCCCCH
T ss_conf 74653513520--37860357--753666625787886355602778888707742101340357886314676667541
Q ss_pred --------------------------------CCCCCCCCCC-CCCHHH--H-HHHHCCCEEEEEECCCCCCCCC--CCC
Q ss_conf --------------------------------6556322446-763055--5-5430363122541057647454--421
Q gi|254780317|r 174 --------------------------------GGKHKLLRTH-TSPVQI--R-VMESQDLPIKVIVPGKTYRRDS--DST 215 (366)
Q Consensus 174 --------------------------------~~~~~lLRth-TS~vQi--R-~m~~~~pP~~~~~~GrvyR~d~--D~t 215 (366)
.+..+-||+| ||+.-| - ...+.+.|+|.||++||||||. |+|
T Consensus 157 Lv~eia~aL~V~~~~glkvLe~vFPEfkdLKP~S~tlTLRSHMTsGWFItLs~i~dk~~lPlKLFSIDRCFRREQ~ED~s 236 (558)
T TIGR00470 157 LVYEIAEALDVEDETGLKVLEEVFPEFKDLKPVSSTLTLRSHMTSGWFITLSSIADKLKLPLKLFSIDRCFRREQKEDAS 236 (558)
T ss_pred HHHHHHHHHCCCCCCHHHHHHHHCCCHHCCCCCCCCCCCHHHCCCHHHHHHHHHHHHCCCCCEEECCCCCCCCCCCCCCC
T ss_conf 88888766256751102133330864001688655432001010027888987875158971122003231446643531
Q ss_pred CCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEEC------CCCCCCCCCEEEEEEECCCCEEEECCCC
Q ss_conf 3781002005786178668999889999999970888662645423------8898526610367875058804224688
Q gi|254780317|r 216 HSPMFHQIEGLVVSDSATIANLRWVLESFCKSFFEVSSLQMRFRPS------FFPFTEPSFEVDVRCSFSDGIIKFDEGT 289 (366)
Q Consensus 216 H~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~fg~~~~~~r~rp~------~fPftePs~Evdv~~~~~~~~~~~~~~~ 289 (366)
|+..+|---|++||+++++.|.|.+-+.++.+| |-. +.||||+ |-|=|. .||..+++.-.|.. ..-.+
T Consensus 237 hLmtYhSASCVvVdeevsvDdGKaVAEgLL~qf-GF~--~FrFrpDEKkSKYYiP~TQ--TEVyAyHPkL~Gss-tkysd 310 (558)
T TIGR00470 237 HLMTYHSASCVVVDEEVSVDDGKAVAEGLLEQF-GFE--KFRFRPDEKKSKYYIPDTQ--TEVYAYHPKLKGSS-TKYSD 310 (558)
T ss_pred CCCCEEEEEEEEECCCCCCCCCHHHHHHHHHHH-CCC--CCCCCCCCCCCCCCCCCCC--CEEEEECCCCCCCC-CCCCC
T ss_conf 001134546678577124364268899999870-854--4750576464543578885--05677626456664-41047
Q ss_pred CEEEEECCCCCCHHHHHHCCCCCCCEEEEEEECCHHHHHHHHCCCCCHHHHH
Q ss_conf 3489845756388899856988000379963134469979973897058766
Q gi|254780317|r 290 EWMEILGCGMVDPRVLRGVGIDPDIYQGFAWGMGLDRIAMLKYGMPDVREFF 341 (366)
Q Consensus 290 ~WiEi~g~Gm~~p~vl~~~g~d~~~~~g~AfG~G~eRlaml~~gi~diR~~~ 341 (366)
+||||+..|+..|-.|...|||-++ +..|+|+|||||+.||-+|+|.+.
T Consensus 311 eWiEvATFG~YSPiALa~Y~Id~pV---MNLGlGVERlAMIlygy~DVR~MV 359 (558)
T TIGR00470 311 EWIEVATFGVYSPIALAKYDIDVPV---MNLGLGVERLAMILYGYEDVRKMV 359 (558)
T ss_pred CCEEEEECCCCHHHHHHHCCCCCCE---EECCCHHHHHHHHHHCHHHHHHCC
T ss_conf 6479874343104677416849652---225631876787781403343226
No 13
>COG2024 Phenylalanyl-tRNA synthetase alpha subunit (archaeal type) [Translation, ribosomal structure and biogenesis]
Probab=99.95 E-value=1e-27 Score=223.68 Aligned_cols=231 Identities=26% Similarity=0.462 Sum_probs=183.4
Q ss_pred HHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECC----
Q ss_conf 3100000112321226742389999999999998739876237234158898886189887733163312775056----
Q gi|254780317|r 97 QSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGI---- 172 (366)
Q Consensus 97 E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~---- 172 (366)
..+|--.| ......|+.||+-.+|+++++-..+|||+.+-.|-|-++-+-.--. .+.-+|- .---||+...
T Consensus 30 p~~~~~YP--Rl~f~~Gk~Hpl~~TIq~lReAYLr~GF~EmvNPlivde~evykQF--GpEA~AV-LDRCFYLagLPrPd 104 (536)
T COG2024 30 PHLDERYP--RLKFETGKPHPLYETIQRLREAYLRMGFSEMVNPLIVDEEEVYKQF--GPEALAV-LDRCFYLAGLPRPD 104 (536)
T ss_pred CCCCCCCC--CCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCCCCCHHHHHHHH--CHHHHHH-HHHHHHHCCCCCCC
T ss_conf 98311377--4333459967189999999999997568976385115789999874--8378899-98888862799988
Q ss_pred -------------------------------------------------------------------------CCCCCCC
Q ss_conf -------------------------------------------------------------------------6655632
Q gi|254780317|r 173 -------------------------------------------------------------------------AGGKHKL 179 (366)
Q Consensus 173 -------------------------------------------------------------------------~~~~~~l 179 (366)
..+..+-
T Consensus 105 VGlg~eki~~i~~i~~d~~de~~e~lrevlh~YKKG~idGDdLv~eIa~aL~v~d~~~~~vle~vFPEfk~Lkp~s~tlT 184 (536)
T COG2024 105 VGLGAEKIEQIEEIGIDEPDEKVERLREVLHAYKKGEIDGDDLVHEIAEALEVDDGTGLRVLEEVFPEFKDLKPESSTLT 184 (536)
T ss_pred CCCCHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHCCCCCCCHHHHHHHHHHCCCCCHHHHHHHHHCHHHHHCCCCCCCEE
T ss_conf 67567889999985278853667999999998753788741437999987346750588999986748763577777505
Q ss_pred CCCC-CCCHHH---HHHHHCCCEEEEEECCCCCCCCC--CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHCCCCC
Q ss_conf 2446-763055---55430363122541057647454--42137810020057861786689998899999999708886
Q gi|254780317|r 180 LRTH-TSPVQI---RVMESQDLPIKVIVPGKTYRRDS--DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSFFEVSS 253 (366)
Q Consensus 180 LRth-TS~vQi---R~m~~~~pP~~~~~~GrvyR~d~--D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~fg~~~ 253 (366)
||+| ||+.-| ..+.+.+||++.||++|||||+. |++|+..+|...+++||+++|+.|-|.+-+.++++| |-+
T Consensus 185 LRSHMTsGWFItLs~i~~r~~~PlklFSIDRCFRREQ~ED~shLmtYhSASCVvvde~vtvD~GKaVAEglL~qf-GFe- 262 (536)
T COG2024 185 LRSHMTSGWFITLSEILKREDPPLKLFSIDRCFRREQREDASHLMTYHSASCVVVDEDVTVDDGKAVAEGLLRQF-GFE- 262 (536)
T ss_pred HHHHCCCCEEEEHHHHHHCCCCCCEEEEHHHHHHHHHHCCHHHHHHHCCCEEEEECCCCCCCCCHHHHHHHHHHH-CCC-
T ss_conf 666334310135798872348984164256776655310156664320340799758644354389999999971-940-
Q ss_pred CEEEEEEC------CCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCCCCCCEEEEEEECCHHHH
Q ss_conf 62645423------889852661036787505880422468834898457563888998569880003799631344699
Q gi|254780317|r 254 LQMRFRPS------FFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGIDPDIYQGFAWGMGLDRI 327 (366)
Q Consensus 254 ~~~r~rp~------~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~~~g~AfG~G~eRl 327 (366)
+.||||. |-|=|. .||..+++...|... .-..|||||...|+..|-.|...|||-+ .+..|+|+|||
T Consensus 263 -~F~FrpDEK~SKYYvP~TQ--TEVyAyHPkL~gs~~-kysdgWiEiATFGlYSP~ALaeY~Id~p---VMNLGlGVERl 335 (536)
T COG2024 263 -KFRFRPDEKKSKYYVPGTQ--TEVYAYHPKLVGSIE-KYSDGWIEIATFGLYSPIALAEYGIDYP---VMNLGLGVERL 335 (536)
T ss_pred -CEEECCCCCCCCCCCCCCC--CEEEEECCCCCCCCC-CCCCCCEEEEEECCCCHHHHHHCCCCCC---EEECCHHHHHH
T ss_conf -0354662003553479963--047774540036521-2588708999603567277987299970---12032208999
Q ss_pred HHHHCCCCCHHHHH
Q ss_conf 79973897058766
Q gi|254780317|r 328 AMLKYGMPDVREFF 341 (366)
Q Consensus 328 aml~~gi~diR~~~ 341 (366)
||+.||++|+|.+.
T Consensus 336 aMIl~g~~DVR~mv 349 (536)
T COG2024 336 AMILHGADDVRSMV 349 (536)
T ss_pred HHHHHCCHHHHHHH
T ss_conf 99981744776651
No 14
>pfam02912 Phe_tRNA-synt_N Aminoacyl tRNA synthetase class II, N-terminal domain.
Probab=99.45 E-value=6.5e-13 Score=115.38 Aligned_cols=73 Identities=29% Similarity=0.517 Sum_probs=69.6
Q ss_pred HHCCCHHHHHHHHHHHCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 5069989999999998086406899987615899889999999999999999999999999998567666765
Q gi|254780317|r 23 ASVTDMDSLNAIRVATLGRKGSISSLLKDLKNLDSQQVSARGAILNQLKVDISGKISARKDFIRNQLIFEQIS 95 (366)
Q Consensus 23 ~~a~~~~eLe~lrv~~LGKKG~Lt~llK~Lk~Ls~EeKk~~Gk~iNelK~~Ie~~i~~kk~~L~~~~~~~kl~ 95 (366)
++|+|+++|+++|++||||||.|+.++++|+++|+|+||++|+.+|++|+.|+.+|++++..|+..+++.+++
T Consensus 1 a~a~dl~~Le~~r~~~lGKkG~l~~~~k~l~~l~~eekk~~G~~iN~~K~~i~~~~~~k~~~l~~~el~~kLa 73 (73)
T pfam02912 1 AAASDLKALEAIRVKYLGKKGPLTELLKGLGKLSPEERPKVGALINEAKEAVEEALEEKKAALEEAELNARLA 73 (73)
T ss_pred CCCCCHHHHHHHHHHHHCCHHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC
T ss_conf 9999999999999999275159999999770699999999899999999999999999999999999986419
No 15
>PRK09616 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed
Probab=99.32 E-value=3.2e-10 Score=95.70 Aligned_cols=201 Identities=19% Similarity=0.339 Sum_probs=149.8
Q ss_pred HHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCC-EEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCC
Q ss_conf 31000001123212267423899999999999987398-76237234158898886189887733163312775056665
Q gi|254780317|r 97 QSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGF-ALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGG 175 (366)
Q Consensus 97 E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF-~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~ 175 (366)
+++..++|. ....|..+|..+..+.+++++.++|| ++...+.+.. -+.++.++.|.+ |..-+.++-..
T Consensus 340 d~Ip~~~p~---~~~~~~~~~~~~~~~~ir~~L~~~G~~Evitysf~s~-~~~~~~~~~~~~-------~~v~l~NPis~ 408 (546)
T PRK09616 340 NNLEPELPK---IFTIGRLHPIEELSRAIRDLMVGLGFQEVMNFTLTSE-EVLFEKMNLEED-------DPVEVLNPISE 408 (546)
T ss_pred CCCCCCCCC---CCCCCCCCHHHHHHHHHHHHHHHCCCCEEEECCCCCH-HHHHHHHCCCCC-------CEEEECCCCCH
T ss_conf 228754676---5457889989999999999999689612762256898-999876168868-------74896488745
Q ss_pred CCCCCCCCCCCHHHHHHHH---CCCEEEEEECCCCCCCCCCC-CCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHCCC
Q ss_conf 5632244676305555430---36312254105764745442-1378100200578617866899988999999997088
Q gi|254780317|r 176 KHKLLRTHTSPVQIRVMES---QDLPIKVIVPGKTYRRDSDS-THSPMFHQIEGLVVSDSATIANLRWVLESFCKSFFEV 251 (366)
Q Consensus 176 ~~~lLRthTS~vQiR~m~~---~~pP~~~~~~GrvyR~d~D~-tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~fg~ 251 (366)
+..+|||.--|.=++++.. ++-++|+|=.|+||..+... +...+--.+-|++.++.+.|-|+||.++.+++.+ |
T Consensus 409 e~s~mRtsLlp~LL~~~~~N~~r~~~~~lFEiG~Vf~~~~~~~~~~~e~~~la~~~~g~~~dF~d~Kg~ve~ll~~l-~- 486 (546)
T PRK09616 409 DYTVLRTSLLPSLLEFLSINKHREYPQKIFEIGDVVLIDESTETGTKTERKLAAAIAHSGATFTEIKSVVKALLREL-G- 486 (546)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEECEEECCCCCCCCCCCCCEEEEEEECCCCCHHHHHHHHHHHHHHC-C-
T ss_conf 67777755389999999984668998459974055804886555640023799999799779999999999999984-9-
Q ss_pred CCCEEEEEECCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCCCCCCEEEEEEECCHHHHH
Q ss_conf 86626454238898526610367875058804224688348984575638889985698800037996313446997
Q gi|254780317|r 252 SSLQMRFRPSFFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGIDPDIYQGFAWGMGLDRIA 328 (366)
Q Consensus 252 ~~~~~r~rp~~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~~~g~AfG~G~eRla 328 (366)
+++.++++--|+-.|+--.+|.+ +| -.||-.|.+||.|+++.+++.+. |+|=+-+|.|.
T Consensus 487 --~~~~~~~~~~~~~hPgrsA~I~~---~g----------~~iG~iG~LHP~v~~~~~i~~~v---~~fEldld~L~ 545 (546)
T PRK09616 487 --IEYEVEESEHPSFIPGRCADILV---NG----------KEIGVIGEIHPEVLENFGLEVPV---VAFEIDLEALL 545 (546)
T ss_pred --CCEEEEECCCCCCCCCCEEEEEE---CC----------EEEEEEEEECHHHHHHCCCCCCE---EEEEEEHHHHC
T ss_conf --95599427888778997699999---99----------79999999999999975979986---99999957840
No 16
>PRK00476 aspS aspartyl-tRNA synthetase; Validated
Probab=99.26 E-value=2.9e-10 Score=96.02 Aligned_cols=89 Identities=19% Similarity=0.308 Sum_probs=60.0
Q ss_pred CCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCC-------CCCEEEEECCCCCCCCCCCCCCCC
Q ss_conf 4238999999999999873987623723415889888618988773316-------331277505666556322446763
Q gi|254780317|r 114 RIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQ-------MHDTFFVPGIAGGKHKLLRTHTSP 186 (366)
Q Consensus 114 ~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARd-------mqDTFyl~~~~~~~~~lLRthTS~ 186 (366)
..--=++++..|+++|.+.||..++-|-+- =+.|.. ||+ -+..|| -|+ -||
T Consensus 141 ~fr~Rs~i~~~iR~fl~~~gFiEVeTPiL~--------~s~~eG--A~~F~vpsr~~~~~fy----------aL~--qSP 198 (587)
T PRK00476 141 NLKLRSKVTSAIRNFLDDNGFLEIETPILT--------KSTPEG--ARDYLVPSRVHPGKFY----------ALP--QSP 198 (587)
T ss_pred HHHHHHHHHHHHHHHHHHCCCCEECCCCCC--------CCCCCC--CCCCCCCCCCCCCCEE----------CCC--CCH
T ss_conf 999999999999999997597400475432--------568666--6443013105788551----------356--797
Q ss_pred HHHHHHH-HCCCEEEEEECCCCCCCCC-CCCCCCCCCCCCE
Q ss_conf 0555543-0363122541057647454-4213781002005
Q gi|254780317|r 187 VQIRVME-SQDLPIKVIVPGKTYRRDS-DSTHSPMFHQIEG 225 (366)
Q Consensus 187 vQiR~m~-~~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~eg 225 (366)
=+-..|. -... =|++-+|||||+|. +++|.|+|.|+|.
T Consensus 199 QLykq~L~vgG~-erVyeig~~FRnE~~~t~r~pEFt~lE~ 238 (587)
T PRK00476 199 QLFKQLLMVAGF-DRYYQIARCFRDEDLRADRQPEFTQIDI 238 (587)
T ss_pred HHHHHHHHHCCC-CEEEEECCCCCCCCCCCCCCCHHHEEEH
T ss_conf 999999885175-5279964312388887666823423111
No 17
>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=99.23 E-value=3.5e-10 Score=95.41 Aligned_cols=202 Identities=22% Similarity=0.314 Sum_probs=115.2
Q ss_pred HHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHH-HHHHHCCC
Q ss_conf 99999999999873987623723415889888618988773316331277505666556322446763055-55430363
Q gi|254780317|r 119 TQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQI-RVMESQDL 197 (366)
Q Consensus 119 tqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQi-R~m~~~~p 197 (366)
++++..|+++|.+-||-.++-|-+.. +.|.. |++ |.+... ...+....-+|||--- +.+....
T Consensus 5 s~i~~~iR~ff~~~gflEV~TPiL~~--------~~~eg--a~~----f~~~~~-~~~~~~~~L~~Spel~~k~l~~~g- 68 (280)
T cd00777 5 SRVIKAIRNFLDEQGFVEIETPILTK--------STPEG--ARD----FLVPSR-LHPGKFYALPQSPQLFKQLLMVSG- 68 (280)
T ss_pred HHHHHHHHHHHHHCCCEEEECCCCCC--------CCCCC--CCC----CEECCC-CCCCCCCCCCCCHHHHHHHHHHCC-
T ss_conf 99999999999988989987981068--------78776--766----442441-688760368879899999998568-
Q ss_pred EEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHH----CCCCCCEE----------------
Q ss_conf 122541057647454-421378100200578617866899988999999997----08886626----------------
Q gi|254780317|r 198 PIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSF----FEVSSLQM---------------- 256 (366)
Q Consensus 198 P~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~----fg~~~~~~---------------- 256 (366)
--||+.+|+|||++. +++|.|+|.++|-=+... +..++...++.+++++ ++. +.+.
T Consensus 69 ~~rvf~i~~~FR~E~~~~~h~~EFtmLE~e~~~~--~~~d~m~~~E~li~~i~~~~~~~-~~~~~~~rity~ea~~~~g~ 145 (280)
T cd00777 69 FDRYFQIARCFRDEDLRADRQPEFTQIDIEMSFV--DQEDIMSLIEGLLKYVFKEVLGV-ELTTPFPRMTYAEAMERYGF 145 (280)
T ss_pred CCCCEEEECEECCCCCCCCCCHHHHHHHHHCCCC--CHHHHHHHHHHHHHHHHHHHHCC-CCCCCCCEEEHHHHHHHHCC
T ss_conf 7775798451747888876634776234422688--89999999999999999998198-77999757768899998689
Q ss_pred ------------------EEEECCCCCCCCCCEEEEEEECCC-CEEEE---CCCCCEEEEECCCC--CCHHHH----HHC
Q ss_conf ------------------454238898526610367875058-80422---46883489845756--388899----856
Q gi|254780317|r 257 ------------------RFRPSFFPFTEPSFEVDVRCSFSD-GIIKF---DEGTEWMEILGCGM--VDPRVL----RGV 308 (366)
Q Consensus 257 ------------------r~rp~~fPftePs~Evdv~~~~~~-~~~~~---~~~~~WiEi~g~Gm--~~p~vl----~~~ 308 (366)
++-...+||+-|..+. ..+.... +.+.. .---..+||.|++. .+|.++ +..
T Consensus 146 ~~~~~~d~~~~~~~~~~~~~~~~~~pf~~p~~~~-~~~~~~~p~~~~~~~fdl~~~G~El~nG~~r~~d~~~~~~~~~~~ 224 (280)
T cd00777 146 KFLWIVDFPLFEWDEEEGRLVSAHHPFTAPKEED-LDLLEKDPEDARAQAYDLVLNGVELGGGSIRIHDPDIQEKVFEIL 224 (280)
T ss_pred CCCCCCCCCCCCCCHHHCCCCCCCCCCCCCCHHH-HHHHHCCCHHHHHHHHCCCCCCEEECCCCCEECCHHHHHHHHHHC
T ss_conf 7331135753346244255222207734782441-677633802456777413568644235310227999999999985
Q ss_pred CCCCCC-------------E---EEEEEECCHHHHHHHHCCCCCHHHH
Q ss_conf 988000-------------3---7996313446997997389705876
Q gi|254780317|r 309 GIDPDI-------------Y---QGFAWGMGLDRIAMLKYGMPDVREF 340 (366)
Q Consensus 309 g~d~~~-------------~---~g~AfG~G~eRlaml~~gi~diR~~ 340 (366)
|++++. | ..-.||||+|||.|+..|.++||+-
T Consensus 225 ~~~~~~~~~~~~~~l~a~~~G~pP~~G~glGiDRLvm~l~g~~~Irdv 272 (280)
T cd00777 225 GLSEEEAEEKFGFLLEAFKYGAPPHGGIALGLDRLVMLLTGSESIRDV 272 (280)
T ss_pred CCCHHHHHHHHHHHHHHHHCCCCCCCEEEHHHHHHHHHHHCCCCHHEE
T ss_conf 989667788899999997669998743515899999999289828707
No 18
>PRK00629 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed
Probab=99.16 E-value=5.6e-09 Score=86.63 Aligned_cols=218 Identities=13% Similarity=0.190 Sum_probs=155.4
Q ss_pred HCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCC-EEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCC
Q ss_conf 1000001123212267423899999999999987398-762372341588988861898877331633127750566655
Q gi|254780317|r 98 SVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGF-ALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGK 176 (366)
Q Consensus 98 ~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF-~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~ 176 (366)
++..++| ..+...|...+..+..+.+++++.++|| ++...+.+-.++. +.++.++ ++.-+.++-..+
T Consensus 468 nIp~~~~--~~~~~~~~~~~~~~~~~~ir~~L~~~Gf~EvitySf~s~~~~--~~~~~~~--------~~v~l~NPls~e 535 (786)
T PRK00629 468 NIPSTPP--EAKLPAGELTEAQKRRRRVRRALAARGYQEAITYSFVSPEVA--DLFGLGE--------DALKLLNPISSE 535 (786)
T ss_pred CCCCCCC--CCCCCCCCCCHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHH--HHHCCCC--------CCEEECCCCCCH
T ss_conf 3777577--655578889989999999999999789842413666797999--8627887--------756853754212
Q ss_pred CCCCCCCCCCHHHHHHHHC----CCEEEEEECCCCCCCCCCCCCCCCCCCCCEEEEC-----------CCCCHHHHHHHH
Q ss_conf 6322446763055554303----6312254105764745442137810020057861-----------786689998899
Q gi|254780317|r 177 HKLLRTHTSPVQIRVMESQ----DLPIKVIVPGKTYRRDSDSTHSPMFHQIEGLVVS-----------DSATIANLRWVL 241 (366)
Q Consensus 177 ~~lLRthTS~vQiR~m~~~----~pP~~~~~~GrvyR~d~D~tH~~~FhQ~egl~v~-----------~~i~~~~lk~~l 241 (366)
...|||.--|.=+.++..| .+.+++|=.|+||..+.. +-..+-|++.+ +.++|-++||.+
T Consensus 536 ~s~lR~SLlp~LL~~~~~N~~r~~~~i~lFEiG~vf~~~~~-----E~~~La~~~~G~~~~~~w~~~~~~~dffdlKg~v 610 (786)
T PRK00629 536 LSVMRTSLLPGLLEALAYNQNRKNKDVALFEIGLVFLPGPR-----EPLHLAGVLTGLRLNESWGGKGRPVDFFDAKGDL 610 (786)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEEEEEECCCCC-----HHEEEEEEEECCCCCCCCCCCCCCCCHHHHHHHH
T ss_conf 68888877999999899886279987679987543899984-----4659999998987766656667646899999999
Q ss_pred HHHHHHHCCCCCCEEEEEECCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCCCCCCEEEEEEE
Q ss_conf 99999970888662645423889852661036787505880422468834898457563888998569880003799631
Q gi|254780317|r 242 ESFCKSFFEVSSLQMRFRPSFFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGIDPDIYQGFAWG 321 (366)
Q Consensus 242 ~~~~~~~fg~~~~~~r~rp~~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~~~g~AfG 321 (366)
+.++..+ |.. .+.++.++-.|+-.|+--.+|.+ + + -.||-.|.+||++++..+++.++ |+|-
T Consensus 611 e~ll~~l-gi~-~~~~~~~~~~~~~hPgrsA~I~~---~--------~--~~IG~iG~lhP~i~~~~~i~~~v---~~~E 672 (786)
T PRK00629 611 EALLGAL-GLL-ADVEFVPAEHPALHPGRSAAIYL---G--------G--KVIGFIGQLHPEVLKKYDLPGRT---YVFE 672 (786)
T ss_pred HHHHHHC-CCC-CCEEEECCCCCCCCCCCEEEEEE---C--------C--EEEEEEEEECHHHHHHCCCCCCE---EEEE
T ss_conf 9999973-998-43588117887767875799999---9--------9--89999999989999973979988---9999
Q ss_pred CCHHHHHHHHCCCCCHHHHHHCCHHHHHHCCCCCC-CCCCCCCCCC
Q ss_conf 34469979973897058766358888874489844-6884145889
Q gi|254780317|r 322 MGLDRIAMLKYGMPDVREFFGADVRWIEHYGFSPL-DIPPLFSRLA 366 (366)
Q Consensus 322 ~G~eRlaml~~gi~diR~~~~~d~rfl~qf~~~~~-~~~~~~~~~~ 366 (366)
+-+++|...+.. ...|.|+ .+|++.||+|
T Consensus 673 i~l~~l~~~~~~----------------~~~~~~~skfP~v~RDla 702 (786)
T PRK00629 673 LDLDALLERKKK----------------KPPAKPISKFPAVRRDIA 702 (786)
T ss_pred EEHHHHHHHHHC----------------CCCCCCCCCCCCCCEEEE
T ss_conf 998994431304----------------776788898997024699
No 19
>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=99.16 E-value=1.8e-09 Score=90.30 Aligned_cols=191 Identities=16% Similarity=0.242 Sum_probs=130.8
Q ss_pred HHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHH--C
Q ss_conf 99999999999987398762372341588988861898877331633127750566655632244676305555430--3
Q gi|254780317|r 118 VTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVMES--Q 195 (366)
Q Consensus 118 Itqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m~~--~ 195 (366)
..++.+.+++.+.+.||+.+.-|.+...---..+=. +|. ++ +.++- ..+++..||+...+.-.+.+.+ .
T Consensus 2 r~~ie~~~r~~~~~~G~~ev~~P~l~~~~~~~~sg~----~~~-~~-~~~~~---~~~~~~~L~pt~e~~~~~~~~~~~~ 72 (211)
T cd00768 2 RSKIEQKLRRFMAELGFQEVETPIVEREPLLEKAGH----EPK-DL-LPVGA---ENEEDLYLRPTLEPGLVRLFVSHIR 72 (211)
T ss_pred HHHHHHHHHHHHHHCCCEEEECCEECCHHHHHHCCC----CHH-HH-HHHCC---CCCCEEEEECCCCHHHHHHHHHHHH
T ss_conf 789999999999986998999983427999975067----622-23-01104---6797699951684999999752476
Q ss_pred CCEEEEEECCCCCCCCC-CC--CCCCCCCCCCEEEECCCC----CHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCC
Q ss_conf 63122541057647454-42--137810020057861786----689998899999999708886626454238898526
Q gi|254780317|r 196 DLPIKVIVPGKTYRRDS-DS--THSPMFHQIEGLVVSDSA----TIANLRWVLESFCKSFFEVSSLQMRFRPSFFPFTEP 268 (366)
Q Consensus 196 ~pP~~~~~~GrvyR~d~-D~--tH~~~FhQ~egl~v~~~i----~~~~lk~~l~~~~~~~fg~~~~~~r~rp~~fPfteP 268 (366)
+.|+|+...|+|||+|. .+ .|.++|+|+|+.++...- .+..+....+.+++.+ |.....++....--.+.-+
T Consensus 73 dLP~r~~~~~~~fR~E~~~~Gl~RvreF~~~e~~~f~~~~~~~~~~~~~~~~~~~i~~~l-gl~~~~~~~~~~~~~~~~~ 151 (211)
T cd00768 73 KLPLRLAEIGPAFRNEGGRRGLRRVREFTQLEGEVFGEDGEEASEFEELIELTEELLRAL-GIKLDIVFVEKTPGEFSPG 151 (211)
T ss_pred HCCHHHHEECCEECCCCCCCCCCCCCCEEEEEEEEEECCHHHHHHHHHHHHHHHHHHHHC-CCCCCEEEEEECCCCCCCC
T ss_conf 577786432005605788888446046889847999884888999999999999999974-9988869999778676664
Q ss_pred --CCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCCC---C-----CCEEEEEEECCHHHH
Q ss_conf --6103678750588042246883489845756388899856988---0-----003799631344699
Q gi|254780317|r 269 --SFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGID---P-----DIYQGFAWGMGLDRI 327 (366)
Q Consensus 269 --s~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d---~-----~~~~g~AfG~G~eRl 327 (366)
+.-.||..+.+. ++|+||+.|+.....--+..+|. . -.++ ..||+|++||
T Consensus 152 ~a~~~~Die~~~p~--------~~~~Ev~s~~~~~d~qsr~~~i~y~~~dg~~~~~~~-~~~gl~v~Rl 211 (211)
T cd00768 152 GAGPGFEIEVDHPE--------GRGLEIGSGGYRQDEQARAADLYFLDEALEYRYPPT-IGFGLGLERL 211 (211)
T ss_pred CCEEEEEEEEECCC--------CCEEEEECEECCCCHHHHHCCCEEECCCCCEEEEEE-EECEECCCCC
T ss_conf 52354557898378--------979999354616778788469899999999987556-3032413669
No 20
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=99.12 E-value=6.4e-09 Score=86.20 Aligned_cols=108 Identities=16% Similarity=0.248 Sum_probs=71.5
Q ss_pred HHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCC-------C
Q ss_conf 676543100000112321226742389999999999998739876237234158898886189887733163-------3
Q gi|254780317|r 92 EQISSQSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQM-------H 164 (366)
Q Consensus 92 ~kl~~E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdm-------q 164 (366)
.++....+|+--| ...-.+--=++++..|+++|.+.||..++-|-+-. -.|+. |||. .
T Consensus 138 ~RLkyRyLDLRr~-----~~~~~~~~Rskv~~~iR~~l~~~gF~EVETP~L~~--------stpEG--ArdflvPsr~~~ 202 (706)
T PRK12820 138 LRLQYRYLDIRRP-----AMQDHLAKRHRIIKCARDFLDSRGFLEIETPILTK--------STPEG--ARDYLVPSRIHP 202 (706)
T ss_pred HHHHHHHHHHCCH-----HHHHHHHHHHHHHHHHHHHHHHCCCEEEECCEECC--------CCCCC--CCCCCCCEECCC
T ss_conf 8766567764799-----89999999999999999999877988966870445--------67532--457500244588
Q ss_pred CEEEEECCCCCCCCCCCCCCCCHHHHHHHHCCCEEEEEECCCCCCCCC-CCCCCCCCCCCCEE
Q ss_conf 127750566655632244676305555430363122541057647454-42137810020057
Q gi|254780317|r 165 DTFFVPGIAGGKHKLLRTHTSPVQIRVMESQDLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGL 226 (366)
Q Consensus 165 DTFyl~~~~~~~~~lLRthTS~vQiR~m~~~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl 226 (366)
-.||- |+ -||=+-..|.--.-==|++-+|||||.|. +++|.|+|.|+|.=
T Consensus 203 ~~fya----------Lp--QSPQlyKQlLMvgG~dRyFqIarcFRdEd~r~dRqPEFTqlDiE 253 (706)
T PRK12820 203 KEFYA----------LP--QSPQLFKQLLMIAGFERYFQLARCFRDEDLRPNRQPEFTQLDIE 253 (706)
T ss_pred CCEEC----------CC--CCHHHHHHHHHHCCCCEEEEEEEEECCCCCCCCCCCCEEEEEEE
T ss_conf 76500----------56--68299999998628661799600112899998879834068742
No 21
>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=99.06 E-value=1.3e-09 Score=91.24 Aligned_cols=224 Identities=19% Similarity=0.300 Sum_probs=119.0
Q ss_pred HHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEE
Q ss_conf 66765431000001123212267423899999999999987398762372341588988861898877331633127750
Q gi|254780317|r 91 FEQISSQSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVP 170 (366)
Q Consensus 91 ~~kl~~E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~ 170 (366)
..++..-.+|+--| ...-.+--=++++..|+++|.+-||..++-|-+-.. .+ ..+.+..-+=|.
T Consensus 5 e~r~~~R~Ldlr~~-----~~~~~l~~Rs~i~~~iR~fl~~~gF~EVeTP~L~~~--------~~--eg~a~~f~~~~~- 68 (322)
T cd00776 5 ETLLDNRHLDLRTP-----KVQAIFRIRSEVLRAFREFLRENGFTEVHTPKITST--------DT--EGGAELFKVSYF- 68 (322)
T ss_pred HHHHCCCCEECCCH-----HHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCC--------CC--CCCCCCCCCCCC-
T ss_conf 88761641242898-----799999999999999999999889999979840078--------89--865466762105-
Q ss_pred CCCCCCCCCCCCCCCCHHHHHHHHCCCEEEEEECCCCCCCCC-CCC-CCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHH
Q ss_conf 566655632244676305555430363122541057647454-421-378100200578617866899988999999997
Q gi|254780317|r 171 GIAGGKHKLLRTHTSPVQIRVMESQDLPIKVIVPGKTYRRDS-DST-HSPMFHQIEGLVVSDSATIANLRWVLESFCKSF 248 (366)
Q Consensus 171 ~~~~~~~~lLRthTS~vQiR~m~~~~pP~~~~~~GrvyR~d~-D~t-H~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~ 248 (366)
+...-|| +||=.-.-|..... -||+.+|||||+|. |++ |.|+|.|+| +...-.-++.++...++.+++.+
T Consensus 69 ----~~~~yL~--~Spel~Kqlli~G~-~rVfei~~~FR~E~~~t~rH~pEFTmlE-~e~af~~d~~d~m~~~E~li~~i 140 (322)
T cd00776 69 ----GKPAYLA--QSPQLYKEMLIAAL-ERVYEIGPVFRAEKSNTRRHLSEFWMLE-AEMAFIEDYNEVMDLIEELIKYI 140 (322)
T ss_pred ----CCCEEEC--CCHHHHHHHHHCCC-CCEEEECCEEECCCCCCCCCHHHHHHHH-HHHHHHCCHHHHHHHHHHHHHHH
T ss_conf ----8760015--48588999975342-4438872614079998753478887652-55523328999999999999999
Q ss_pred CCCCCCE-----------------EEEEECC--CCCCC-------------CCCEEEEE--------------------E
Q ss_conf 0888662-----------------6454238--89852-------------66103678--------------------7
Q gi|254780317|r 249 FEVSSLQ-----------------MRFRPSF--FPFTE-------------PSFEVDVR--------------------C 276 (366)
Q Consensus 249 fg~~~~~-----------------~r~rp~~--fPfte-------------Ps~Evdv~--------------------~ 276 (366)
+.. +. ..+.+.+ ..|+| +....|+. +
T Consensus 141 ~~~--v~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~ea~~~l~~~~~~~~~~~~~dl~~~~e~~l~~~~~~~p~fv~d~ 218 (322)
T cd00776 141 FKR--VLERCAKELELVNQLNRELLKPLEPFPRITYDEAIELLREKGVEEEVKWGEDLSTEHERLLGEIVKGDPVFVTDY 218 (322)
T ss_pred HHH--HHHHHHHHHHHHHHCCCCCCCCCCCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHHCCCCEEEECC
T ss_conf 999--986526788998751211002479964241999999998569966877666337699999999965898899797
Q ss_pred ECCCCE--EEECCC------------CCEEEEECCC--CCCHHHH----HHCCCCCCCE------------EEEEEECCH
Q ss_conf 505880--422468------------8348984575--6388899----8569880003------------799631344
Q gi|254780317|r 277 SFSDGI--IKFDEG------------TEWMEILGCG--MVDPRVL----RGVGIDPDIY------------QGFAWGMGL 324 (366)
Q Consensus 277 ~~~~~~--~~~~~~------------~~WiEi~g~G--m~~p~vl----~~~g~d~~~~------------~g~AfG~G~ 324 (366)
+.+... ++.+.. .||.||+|+. .-+|+++ +..|++++.+ ..-.||+|+
T Consensus 219 P~~~~pfy~~~~~~~~~~~~rfel~~~G~~El~~g~~r~~d~~~l~~r~~~~g~~~~~~~~yl~al~~G~PP~gG~glGi 298 (322)
T cd00776 219 PKEIKPFYMKPDDDNPETVESFDLLMPGVGEIVGGSQRIHDYDELEERIKEHGLDPESFEWYLDLRKYGMPPHGGFGLGL 298 (322)
T ss_pred HHHCCCCCCCCCCCCHHHHHHHHEECCCCEEECCHHHHHCCHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCEEEEHH
T ss_conf 44219765886688545545420012892786776664089999999999859997899999999766999972454389
Q ss_pred HHHHHHHCCCCCHHHH
Q ss_conf 6997997389705876
Q gi|254780317|r 325 DRIAMLKYGMPDVREF 340 (366)
Q Consensus 325 eRlaml~~gi~diR~~ 340 (366)
|||+|+..|.++||+-
T Consensus 299 DRLvmll~g~~~Irdv 314 (322)
T cd00776 299 ERLVMWLLGLDNIREA 314 (322)
T ss_pred HHHHHHHCCCCCHHHE
T ss_conf 9999998299727605
No 22
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=99.04 E-value=5.7e-09 Score=86.56 Aligned_cols=120 Identities=20% Similarity=0.263 Sum_probs=73.4
Q ss_pred HHHHHHHHHHHHHHHCCCEEECCCEEECH--------HHH--HHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCC
Q ss_conf 89999999999998739876237234158--------898--88618988773316331277505666556322446763
Q gi|254780317|r 117 PVTQVIDEVTCIFMDMGFALEEGSDIETD--------YYN--FAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSP 186 (366)
Q Consensus 117 PItqvi~eI~~IF~~lGF~v~eGPEIEtd--------~~N--FdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~ 186 (366)
-=++++..|+++|.+.||..++-|-+-.. |.. =++.+.|...|.-..+--||- .+.-|| .||
T Consensus 137 ~RS~i~~~iR~~l~~~~F~EVeTP~L~~~~~eGaa~~F~v~~~~~~~~~~~~~~~~~~~~yf~------~~~yL~--~Sp 208 (462)
T PRK03932 137 VRNTLAQAIHEFFQENGFVWVHTPIITASDCEGAGELFRVTTLDLENLPRTDGKVDFSKDFFG------KEAFLT--VSG 208 (462)
T ss_pred HHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCEEECCCCCCCCCCCCCCCCCHHHHCC------CCCCCC--CCH
T ss_conf 999999999999976796799788653568764557404214543445433444331145427------762026--576
Q ss_pred HHH--HHHHHCCCEEEEEECCCCCCCCC-CCC-CCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHC
Q ss_conf 055--55430363122541057647454-421-3781002005786178668999889999999970
Q gi|254780317|r 187 VQI--RVMESQDLPIKVIVPGKTYRRDS-DST-HSPMFHQIEGLVVSDSATIANLRWVLESFCKSFF 249 (366)
Q Consensus 187 vQi--R~m~~~~pP~~~~~~GrvyR~d~-D~t-H~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~f 249 (366)
|. ..|.. .. =|++.+|||||+|. |++ |.|+|.|+|.=+.-. +..|+..+++.++++++
T Consensus 209 -qLylq~li~-G~-erVfeIg~~FRnE~~~t~RH~pEFT~lE~e~a~~--d~~d~m~l~E~li~~i~ 270 (462)
T PRK03932 209 -QLYAEAYAM-AL-SKVYTFGPTFRAENSNTRRHLAEFWMIEPEMAFA--DLEDNMDLAEDMLKYVI 270 (462)
T ss_pred -HHHHHHHHH-HC-CCEEEEEHHHHHCCCCCCCCCCCCEEEEEEEECC--CHHHHHHHHHHHHHHHH
T ss_conf -899999875-20-6489973323205677544543002555311006--89999999999999999
No 23
>PRK09350 lysyl-tRNA synthetase; Provisional
Probab=99.04 E-value=3.3e-09 Score=88.33 Aligned_cols=120 Identities=15% Similarity=0.231 Sum_probs=75.1
Q ss_pred CCCHHHHHHHHHHHHHHHCCCEEECCCEEECH---HHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHH-
Q ss_conf 42389999999999998739876237234158---89888618988773316331277505666556322446763055-
Q gi|254780317|r 114 RIHPVTQVIDEVTCIFMDMGFALEEGSDIETD---YYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQI- 189 (366)
Q Consensus 114 ~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd---~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQi- 189 (366)
.+--=++++..|+++|.+-||-.++-|-+-.. --+-+..-+.---|.|.-.-.||| ++||=+-
T Consensus 15 ~l~~Rs~i~~~iR~ff~~~gFlEVeTP~L~~~t~~~~~~~~f~~~~~~~~~~~~~~~yL-------------~~SPql~~ 81 (325)
T PRK09350 15 NLLKRAAIIAEIRRFFADRGVLEVETPAMSQATVTDIHLVPFETRFVGPGHSQGKTLWL-------------MTSPEYHM 81 (325)
T ss_pred HHHHHHHHHHHHHHHHHHCCCEEEECCCCCCCCCCCCCCCCEEEECCCCCCCCCCCEEE-------------ECCHHHHH
T ss_conf 99999999999999999889689779842577887646762221025655456766455-------------07919999
Q ss_pred -HHHHHCCCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHCC
Q ss_conf -55430363122541057647454-42137810020057861786689998899999999708
Q gi|254780317|r 190 -RVMESQDLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSFFE 250 (366)
Q Consensus 190 -R~m~~~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~fg 250 (366)
|.|.. . =-|++.+|+|||.+. ++.|.|+|.|+|.-... .++.++...++.++++++.
T Consensus 82 k~l~~~-G-~~rvfqI~~~FR~E~~~~~H~pEFtmlE~~~~~--~d~~d~m~~~e~ll~~~~~ 140 (325)
T PRK09350 82 KRLLAA-G-SGPIFQLCRSFRNEEAGRYHNPEFTMLEWYRPH--YDMYRLMNEVDDLLQQVLD 140 (325)
T ss_pred HHHHHC-C-CCCEEEEEHHHCCCCCCCCCCCHHHHHHHHHHC--CCHHHHHHHHHHHHHHHHC
T ss_conf 999866-7-885589611322899987657377888999815--4899999999999999974
No 24
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=99.04 E-value=4.1e-09 Score=87.61 Aligned_cols=112 Identities=21% Similarity=0.345 Sum_probs=71.0
Q ss_pred HHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHH---HHHH
Q ss_conf 8999999999999873987623723415889888618988773316331277505666556322446763055---5543
Q gi|254780317|r 117 PVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQI---RVME 193 (366)
Q Consensus 117 PItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQi---R~m~ 193 (366)
-=++++..|+++|.+.||-.++-|-+.+ +|..--||.-- |.+ + .-+.+.-||. || |. |.|-
T Consensus 173 ~Rs~ii~~iR~~l~~~gF~EVeTPiL~~---------~~gGA~ArpF~-t~~-n--~l~~~~yL~~--SP-qLylk~l~v 236 (491)
T PRK00484 173 KRSKIISAIRRFLDNRGFLEVETPMLQP---------IPGGAAARPFI-THH-N--ALDIDLYLRI--AP-ELYLKRLIV 236 (491)
T ss_pred HHHHHHHHHHHHHHHCCEEEEECCCCCC---------CCCCCCCCCCC-CCC-C--CCCCCEEECC--CH-HHHHHHHHH
T ss_conf 9999999999999867689986787766---------68875667655-644-5--6685544206--87-898777876
Q ss_pred HCCCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHH
Q ss_conf 0363122541057647454-421378100200578617866899988999999997
Q gi|254780317|r 194 SQDLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSF 248 (366)
Q Consensus 194 ~~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~ 248 (366)
. +. =|++-+|||||+|. |++|.|+|.|+|.=+.-. +..++....+.+++++
T Consensus 237 g-G~-ervfeI~r~FR~E~~~~rH~pEFT~lE~e~af~--d~~dvm~l~E~li~~v 288 (491)
T PRK00484 237 G-GF-ERVFEIGRNFRNEGIDTRHNPEFTMIEFYQAYA--DYNDMMDLTEELIRHL 288 (491)
T ss_pred C-CC-HHHEEHHHHHHCCCCCCCCCCCEEEEEEEEECC--CHHHHHHHHHHHHHHH
T ss_conf 2-72-022224876625755434184010213677247--9999999999999999
No 25
>CHL00192 syfB phenylalanyl-tRNA synthetase beta chain; Provisional
Probab=99.03 E-value=2.3e-08 Score=82.14 Aligned_cols=217 Identities=15% Similarity=0.238 Sum_probs=140.0
Q ss_pred HCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCC-EEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCC
Q ss_conf 1000001123212267423899999999999987398-762372341588988861898877331633127750566655
Q gi|254780317|r 98 SVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGF-ALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGK 176 (366)
Q Consensus 98 ~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF-~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~ 176 (366)
++..++|. . ...|..++..+..+.+++++.++|| ++...+.+..+.. . .+..-+.++-..+
T Consensus 379 nI~~~~p~--~-~~~~~~~~~~~~~~~lr~~L~~~Gf~E~itysf~s~~~~------------~---~~~v~l~NPis~e 440 (702)
T CHL00192 379 NFISKLPL--I-QFDGRLSFLRNFIDKIRSLLRNLGLTELVHYSLVKSYTY------------Y---KGEIKLYNPLLQD 440 (702)
T ss_pred CCCCCCCC--C-CCCCCCCHHHHHHHHHHHHHHHCCCCEEEEECCCCHHHC------------C---CCCEEECCCCCHH
T ss_conf 36555787--5-467888988999999999999689834775314684445------------6---7728970875243
Q ss_pred CCCCCCCCCCHHHHHHHHC----CCEEEEEECCCCCCCCCCCCCCCCCCCCCEEEEC------------CCCCHHHHHHH
Q ss_conf 6322446763055554303----6312254105764745442137810020057861------------78668999889
Q gi|254780317|r 177 HKLLRTHTSPVQIRVMESQ----DLPIKVIVPGKTYRRDSDSTHSPMFHQIEGLVVS------------DSATIANLRWV 240 (366)
Q Consensus 177 ~~lLRthTS~vQiR~m~~~----~pP~~~~~~GrvyR~d~D~tH~~~FhQ~egl~v~------------~~i~~~~lk~~ 240 (366)
..+|||---|.=+.++..| ...+++|=+|+||..+.+.. ++-.++=|++++ +.+.|-++||.
T Consensus 441 ~s~LR~sLlpgLL~~~~~N~~r~~~~i~lFEiG~vf~~~~~~~--~e~~~l~~~~~~g~~~~~~w~~~~~~~dFfd~Kg~ 518 (702)
T CHL00192 441 YSTLRSSLLPGLILAQQYNLKQSNQTIEGFEIGHVFRDNTEKI--FETLHLAGGIGGGLDIRSSWSEKAQSLNWYEAKGI 518 (702)
T ss_pred HHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEECCCCCCCCCC--CCHHEEEEEEECCCCCCCCCCCCCCCCCHHHHHHH
T ss_conf 7888887799999999861535997742897645526887886--21122999998188665444566776789999999
Q ss_pred HHHHHHHHCCCCCCEEEEEE-----CCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCCCCCCE
Q ss_conf 99999997088866264542-----3889852661036787505880422468834898457563888998569880003
Q gi|254780317|r 241 LESFCKSFFEVSSLQMRFRP-----SFFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGIDPDIY 315 (366)
Q Consensus 241 l~~~~~~~fg~~~~~~r~rp-----~~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~~ 315 (366)
++.++..+ |. ...+.. .-.+|-.|+--.+|.+ ++ -.||-.|.+||.|++..+++.++
T Consensus 519 ve~ll~~l-~~---~~~~~~~~~~~~~~~~~hPg~sA~I~~-----------~~--~~iG~iG~lhP~v~~~~~l~~~v- 580 (702)
T CHL00192 519 VEEFFQRL-NL---PIVWKKIDSLDQRNKFLHPGRSAEIIY-----------NN--ENIGIFGQLHPLLASNLGLNTST- 580 (702)
T ss_pred HHHHHHHH-CC---CCCCEEECCCCCCCCCCCCCCEEEEEE-----------CC--EEEEEEEEECHHHHHHCCCCCCE-
T ss_conf 99999981-89---842002014555423348775489999-----------99--79999999879999873999977-
Q ss_pred EEEEEECCHHHHHHHHCCCCCHHHHHHCCHHHHHHCCCCCC-CCCCCCCCCC
Q ss_conf 79963134469979973897058766358888874489844-6884145889
Q gi|254780317|r 316 QGFAWGMGLDRIAMLKYGMPDVREFFGADVRWIEHYGFSPL-DIPPLFSRLA 366 (366)
Q Consensus 316 ~g~AfG~G~eRlaml~~gi~diR~~~~~d~rfl~qf~~~~~-~~~~~~~~~~ 366 (366)
|+|-+-++.|....-... .....|.|+ .+|.+.||||
T Consensus 581 --~~~Eidl~~l~~~~~~~~------------~~~~~~~~~skfP~v~RDla 618 (702)
T CHL00192 581 --YLFEFDLEKLQASIEQLN------------YLNYIIQPYSKYPSITRDLS 618 (702)
T ss_pred --EEEEEEHHHHHHHHHHCC------------CCCCCCCCCCCCCCCCEEEE
T ss_conf --999999799432344304------------46665677899997006899
No 26
>pfam00152 tRNA-synt_2 tRNA synthetases class II (D, K and N).
Probab=99.03 E-value=3.6e-09 Score=88.01 Aligned_cols=134 Identities=17% Similarity=0.250 Sum_probs=82.4
Q ss_pred HHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEEC
Q ss_conf 67654310000011232122674238999999999999873987623723415889888618988773316331277505
Q gi|254780317|r 92 EQISSQSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPG 171 (366)
Q Consensus 92 ~kl~~E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~ 171 (366)
.++..-.+|+.-|. ..--+.-=++++..|+++|.+-||..++-|-+... +-.-.| +-|-+..
T Consensus 4 ~r~~~R~ldlr~~~-----~~~~l~~Rs~i~~~iR~ff~~~~f~EV~TP~L~~~---------~~e~~a----~~F~~~~ 65 (341)
T pfam00152 4 TRLKYRYLDLRRPK-----MQANLKLRSKIIRAIREFLDERGFLEVETPILTKS---------TPEGGA----RDFLVPK 65 (341)
T ss_pred HHHCCEEEEECCHH-----HHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCC---------CCCCCC----CEEEECC
T ss_conf 32247013414866-----89999999999999999999889899879820055---------898777----6645026
Q ss_pred CCCCCCCCCCCCCCCHHHHH-HHHCCCEEEEEECCCCCCCCC--CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHH
Q ss_conf 66655632244676305555-430363122541057647454--421378100200578617866899988999999997
Q gi|254780317|r 172 IAGGKHKLLRTHTSPVQIRV-MESQDLPIKVIVPGKTYRRDS--DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSF 248 (366)
Q Consensus 172 ~~~~~~~lLRthTS~vQiR~-m~~~~pP~~~~~~GrvyR~d~--D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~ 248 (366)
.. ++..-| +|||=.-.- |.... --||+.+|+|||++. +.+|.|+|.++|.-++.. ++.++...++.+++++
T Consensus 66 ~~-~~~~yL--~~Spel~~k~ll~~g-~~rVfei~~~FR~E~~~t~rH~~EFtmlE~y~a~~--d~~d~m~~~E~li~~i 139 (341)
T pfam00152 66 FY-AKEAYL--PQSPQLYKQLLMVAG-FDRVFQIAPCFRDEDLRTDRHPPEFTQLDLEMSFV--DYEDVMDLTEDLIKYV 139 (341)
T ss_pred CC-CCCEEE--CCCHHHHHHHHHHCC-CCCCEEEECHHCCCCCCCCCCCHHHHHHHHHHHCC--CHHHHHHHHHHHHHHH
T ss_conf 78-982340--548899999998658-87637972320279898865507788776755359--9999999999999999
Q ss_pred C
Q ss_conf 0
Q gi|254780317|r 249 F 249 (366)
Q Consensus 249 f 249 (366)
+
T Consensus 140 ~ 140 (341)
T pfam00152 140 F 140 (341)
T ss_pred H
T ss_conf 9
No 27
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=98.98 E-value=2.8e-08 Score=81.56 Aligned_cols=107 Identities=20% Similarity=0.367 Sum_probs=67.5
Q ss_pred HHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCC-------CC
Q ss_conf 67654310000011232122674238999999999999873987623723415889888618988773316-------33
Q gi|254780317|r 92 EQISSQSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQ-------MH 164 (366)
Q Consensus 92 ~kl~~E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARd-------mq 164 (366)
.++..-.+|+-. ++-..-..--=++++..|++.|.+.||-++|-|-+.+ ++----||+ ..
T Consensus 757 ~RlR~RYLDLr~----npe~r~~~~~RS~Vi~aiR~~L~~~GFlEVETPiLq~---------~~GGA~ARPFlThsna~d 823 (1099)
T PRK02983 757 ARVRARYLDLAV----NPEARDLIRARSAVLRAVRETLVAKGFLEVETPILQQ---------IHGGANARPFLTHINAYD 823 (1099)
T ss_pred HHHHHHHHHCCC----CHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCC---------CCCCCCCCCCCCCCCCCC
T ss_conf 755645565158----9899999999999999999999878988955754677---------888756785301033678
Q ss_pred CEEEEECCCCCCCCCCCCCCCCHHH--HHHHHCCCEEEEEECCCCCCCCC-CCCCCCCCCCCCEE
Q ss_conf 1277505666556322446763055--55430363122541057647454-42137810020057
Q gi|254780317|r 165 DTFFVPGIAGGKHKLLRTHTSPVQI--RVMESQDLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGL 226 (366)
Q Consensus 165 DTFyl~~~~~~~~~lLRthTS~vQi--R~m~~~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl 226 (366)
-.||+ ..||=+- |.|-.. . =|++-+|||||||. |++|.|+|.|+|--
T Consensus 824 ~~~YL-------------riAPELflKRLmVGG-f-eRVFEI~RcFRNEglradHnPEFTmLE~Y 873 (1099)
T PRK02983 824 LDLYL-------------RIAPELYLKRLCVGG-V-ERVFELGRAFRNEGVDFSHNPEFTLLEAY 873 (1099)
T ss_pred CCCEE-------------ECCHHHHHHHHHHCC-C-CCCEEECCCCCCCCCCCCCCCCHHHHHHH
T ss_conf 66145-------------148089999998648-6-31134325446799998749407999999
No 28
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=98.95 E-value=1.9e-08 Score=82.73 Aligned_cols=192 Identities=22% Similarity=0.314 Sum_probs=105.7
Q ss_pred HHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHHCC
Q ss_conf 89999999999998739876237234158898886189887733163312775056665563224467630555543036
Q gi|254780317|r 117 PVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVMESQD 196 (366)
Q Consensus 117 PItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m~~~~ 196 (366)
-=++++..|+++|.+.||..++-|-+-. +.++. |++..-+-|++ ...-||. ||=.-.-+.-..
T Consensus 139 ~Rs~i~~~iR~fl~~~gF~EVeTP~l~~--------~~~eG--ga~~f~~~~~~-----~~~yL~~--Spqly~q~li~~ 201 (434)
T PRK05159 139 IRSEVLRAFREFLYEEGFTEIFTPKIVA--------TGTEG--GTELFPVKYFE-----KEAFLAQ--SPQLYKQMMMAA 201 (434)
T ss_pred HHHHHHHHHHHHHHHCCCEEEECCCCCC--------CCCCC--CCCCCCEEECC-----CEEEECC--CCHHHHHHHHHC
T ss_conf 9999999999999877919997874325--------67887--55658613127-----5334146--837999998763
Q ss_pred CEEEEEECCCCCCCCC-CCC-CCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHCCC----C---------CC---EEEE
Q ss_conf 3122541057647454-421-378100200578617866899988999999997088----8---------66---2645
Q gi|254780317|r 197 LPIKVIVPGKTYRRDS-DST-HSPMFHQIEGLVVSDSATIANLRWVLESFCKSFFEV----S---------SL---QMRF 258 (366)
Q Consensus 197 pP~~~~~~GrvyR~d~-D~t-H~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~fg~----~---------~~---~~r~ 258 (366)
.==|++.+|+|||+|. |++ |.|+|.|+|.-+.- .+..++...++.++++++.. . +. +..|
T Consensus 202 G~~rvfeI~~~FR~E~~~t~RH~pEFT~lE~e~af--~d~~d~m~~~E~li~~i~~~v~~~~~~~~~~~~~~~~~~~~~~ 279 (434)
T PRK05159 202 GFERVFEIGPAFRAEEHNTTRHLNEAISIDVEMGF--IDEEDVMDLLENLLKYVYEDVAENCEKELELLGIELPVPETPI 279 (434)
T ss_pred CCCCEEEECCCEECCCCCCCCCHHHHHHHHHHHCC--CCHHHHHHHHHHHHHHHHHHHHHHCHHHHHHCCCCCCCCCCCC
T ss_conf 56855996601023658754453567656666310--6899999999999999999998656477863586556679986
Q ss_pred --------------------------------------------E---E-CCCCC-CCCCCE-------EEEEEECCCCE
Q ss_conf --------------------------------------------4---2-38898-526610-------36787505880
Q gi|254780317|r 259 --------------------------------------------R---P-SFFPF-TEPSFE-------VDVRCSFSDGI 282 (366)
Q Consensus 259 --------------------------------------------r---p-~~fPf-tePs~E-------vdv~~~~~~~~ 282 (366)
- | +--|| |-|.-+ +|+.
T Consensus 280 ~rit~~eai~~l~~~~~~~~~g~dl~~~~e~~l~~~~~~~~~~fI~d~P~~~~pfy~~~~~~~~~~~~~fdl~------- 352 (434)
T PRK05159 280 PRITYDEAIEILKSKGVEISWGDDLDTEGERLLGKYVKESDFYFITDWPTEIRPFYTMPYEDDPEITKSFDLM------- 352 (434)
T ss_pred CEEEHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHHCCCCCEEEECCCHHCCCCCCCCCCCCCCEEEEEEEE-------
T ss_conf 4778999999998519987855553789999999984758988998997000865467778883200143267-------
Q ss_pred EEECCCCCEEEEECCCC--CCHHHH----HHCCCCCCCEE------------EEEEECCHHHHHHHHCCCCCHHHH
Q ss_conf 42246883489845756--388899----85698800037------------996313446997997389705876
Q gi|254780317|r 283 IKFDEGTEWMEILGCGM--VDPRVL----RGVGIDPDIYQ------------GFAWGMGLDRIAMLKYGMPDVREF 340 (366)
Q Consensus 283 ~~~~~~~~WiEi~g~Gm--~~p~vl----~~~g~d~~~~~------------g~AfG~G~eRlaml~~gi~diR~~ 340 (366)
+ .|+ ||+|+.. -+|+++ +..|+|++.+. --.||+|+|||+|+..|.++||+-
T Consensus 353 ---~--~G~-Ei~~G~~r~~d~~~l~~~~~~~g~~~~~~~~yl~al~yG~PP~gG~glGiDRLvm~l~g~~sIrdv 422 (434)
T PRK05159 353 ---Y--RGL-EITSGAQRIHDYDMLVESIKEKGLNPESFEFYLEAFKYGMPPHAGWGLGLERLTMKLLGLENVREA 422 (434)
T ss_pred ---E--CCE-EEEEEEEECCCHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCEEEEHHHHHHHHHCCCCCHHEE
T ss_conf ---7--669-984310111789999999997498989999999996679998755878799999998199966548
No 29
>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=98.93 E-value=1.7e-08 Score=83.12 Aligned_cols=112 Identities=19% Similarity=0.240 Sum_probs=72.6
Q ss_pred HHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHH--HHHHHCC
Q ss_conf 99999999999873987623723415889888618988773316331277505666556322446763055--5543036
Q gi|254780317|r 119 TQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQI--RVMESQD 196 (366)
Q Consensus 119 tqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQi--R~m~~~~ 196 (366)
++++..|+++|.+-||..++-|-+.+. +..-.| +.|-+.....+...-| +|||=-- |.|...
T Consensus 5 s~i~~~iR~ff~~~~f~EV~TP~l~~~---------~~~~~~----~~f~~~~~~~~~~~~L--~~Spel~~k~ll~~g- 68 (269)
T cd00669 5 SKIIKAIRDFMDDRGFLEVETPMLQKI---------TGGAGA----RPFLVKYNALGLDYYL--RISPQLFKKRLMVGG- 68 (269)
T ss_pred HHHHHHHHHHHHHCCCEEEECCEEECC---------CCCCCC----CEEEEECCCCCCEEEE--CCCHHHHHHHHHHCC-
T ss_conf 999999999999889899879853057---------898767----4257313789940773--438899999998658-
Q ss_pred CEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHC
Q ss_conf 3122541057647454-4213781002005786178668999889999999970
Q gi|254780317|r 197 LPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSFF 249 (366)
Q Consensus 197 pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~f 249 (366)
--||+.+|+|||.+. ++.|.|+|.++|-=+..- ++.++...++.++++++
T Consensus 69 -~~~if~i~~~FR~e~~~~rH~~EFtmlE~y~~~~--d~~~~m~~~e~li~~~~ 119 (269)
T cd00669 69 -LDRVFEINRNFRNEDLRARHQPEFTMMDLEMAFA--DYEDVIELTERLVRHLA 119 (269)
T ss_pred -CCCEEEEECCCCCCCCCCCCCHHHHHHHHHCCCC--CHHHHHHHHHHHHHHHH
T ss_conf -8867998462107898655434877578751489--99999999999999999
No 30
>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=98.85 E-value=3.1e-08 Score=81.22 Aligned_cols=109 Identities=18% Similarity=0.237 Sum_probs=71.9
Q ss_pred CHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCC-------CCCEEEEECCCCCCCCCCCCCCCCHH
Q ss_conf 38999999999999873987623723415889888618988773316-------33127750566655632244676305
Q gi|254780317|r 116 HPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQ-------MHDTFFVPGIAGGKHKLLRTHTSPVQ 188 (366)
Q Consensus 116 HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARd-------mqDTFyl~~~~~~~~~lLRthTS~vQ 188 (366)
.-=++++.-|+++|.+-||..++-|-+-+. |..--||. .-..+|| +|||=+
T Consensus 9 ~~Rs~i~~~iR~ff~~~gF~Ev~TPiL~~~---------~~g~~~~~f~~~~~~~~~~~yL-------------~qSpQl 66 (329)
T cd00775 9 IVRSKIISYIRKFLDDRGFLEVETPMLQPI---------AGGAAARPFITHHNALDMDLYL-------------RIAPEL 66 (329)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEECCCCCCC---------CCCCCCCCEEECCCCCCCCCCC-------------CCCHHH
T ss_conf 999999999999999889889979865566---------8875675313224467867230-------------689899
Q ss_pred HHHH-HHCCCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHC
Q ss_conf 5554-30363122541057647454-4213781002005786178668999889999999970
Q gi|254780317|r 189 IRVM-ESQDLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSFF 249 (366)
Q Consensus 189 iR~m-~~~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~f 249 (366)
-.-+ ..... =|++.+|+|||.+. ++.|.|+|.|+|-=+.. +++.++...++.++++++
T Consensus 67 ~~q~l~~~g~-~rvfqI~p~FR~E~~~~rHl~EFtmle~E~~f--~d~~dvm~~~E~li~~i~ 126 (329)
T cd00775 67 YLKRLIVGGF-ERVYEIGRNFRNEGIDLTHNPEFTMIEFYEAY--ADYNDMMDLTEDLFSGLV 126 (329)
T ss_pred HHHHHHHCCC-CCEEEEEECCCCCCCCCCCCCHHHHHHHHHHC--CCHHHHHHHHHHHHHHHH
T ss_conf 9999985677-76799810224799997747345634577744--799999999999999999
No 31
>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=98.81 E-value=2.4e-07 Score=74.72 Aligned_cols=181 Identities=13% Similarity=0.253 Sum_probs=127.1
Q ss_pred HHHHHHHHHHHHHHHCCC-EEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHHC
Q ss_conf 899999999999987398-7623723415889888618988773316331277505666556322446763055554303
Q gi|254780317|r 117 PVTQVIDEVTCIFMDMGF-ALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVMESQ 195 (366)
Q Consensus 117 PItqvi~eI~~IF~~lGF-~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m~~~ 195 (366)
|..+..+.|++++.++|| ++...+-+..+... .++.|. .+..-+.++-..+..+|||.--|.=+.++..+
T Consensus 1 p~~~l~~~ir~~L~~~Gf~Ev~t~s~~~~~~~~--~~~~~~-------~~~i~l~NPls~e~~~lR~sLlp~LL~~~~~N 71 (198)
T cd00769 1 PLQKLERKLRRLLAGLGFQEVITYSLTSPEEAE--LFDGGL-------DEAVELSNPLSEEYSVLRTSLLPGLLDALARN 71 (198)
T ss_pred CHHHHHHHHHHHHHHCCCCEEEECCCCCHHHHH--HHCCCC-------CCEEEEECCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf 967999999999997897141306768989998--724887-------87389708865668898887799999999865
Q ss_pred ----CCEEEEEECCCCCCCCCCCCCCCCCCCCCEEEECC-----------CCCHHHHHHHHHHHHHHHCCCCCCEEEEEE
Q ss_conf ----63122541057647454421378100200578617-----------866899988999999997088866264542
Q gi|254780317|r 196 ----DLPIKVIVPGKTYRRDSDSTHSPMFHQIEGLVVSD-----------SATIANLRWVLESFCKSFFEVSSLQMRFRP 260 (366)
Q Consensus 196 ----~pP~~~~~~GrvyR~d~D~tH~~~FhQ~egl~v~~-----------~i~~~~lk~~l~~~~~~~fg~~~~~~r~rp 260 (366)
..++++|=+|+||..+.+.. -+-..+-|++.+. ..+|-++||.++.++..+ |. +....+.+
T Consensus 72 ~~r~~~~~~lFEiG~vy~~~~~~~--~E~~~l~~~~~g~~~~~~~~~~~~~~df~~lKg~v~~ll~~l-~~-~~~~~~~~ 147 (198)
T cd00769 72 LNRKNKPLRLFEIGRVFLKDEDGP--EEEEHLAALLSGNREPESWQGKGRPVDFYDAKGILEALLRAL-GI-IVEFELEE 147 (198)
T ss_pred CCCCCCCCEEEEEEEEEECCCCCC--CCCEEEEEEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHHHH-CC-CCEEEEEC
T ss_conf 056777732899763896688876--423057888866777556455777679999999999999980-99-85189920
Q ss_pred CCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCCCCCCEEEEEEECCHHH
Q ss_conf 388985266103678750588042246883489845756388899856988000379963134469
Q gi|254780317|r 261 SFFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGIDPDIYQGFAWGMGLDR 326 (366)
Q Consensus 261 ~~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~~~g~AfG~G~eR 326 (366)
+--|+-.|+--.+|.+ + + -.||-.|.+||++++..||+.++ ++|=+-+|.
T Consensus 148 ~~~~~~hpg~sa~I~~---~--------~--~~iG~iG~l~p~il~~~~i~~~v---~~~Ei~ld~ 197 (198)
T cd00769 148 LDADLFHPGRSAKIYV---N--------G--EVIGFIGELHPEVLKEFDLKEPV---YAFELDLDA 197 (198)
T ss_pred CCCCCCCCCCEEEEEE---C--------C--EEEEEEEEECHHHHHHCCCCCCE---EEEEEECCC
T ss_conf 7876655686699999---9--------9--89999999999999975989977---999997335
No 32
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=98.78 E-value=5.5e-08 Score=79.36 Aligned_cols=115 Identities=19% Similarity=0.293 Sum_probs=72.4
Q ss_pred CCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHH--HHH
Q ss_conf 238999999999999873987623723415889888618988773316331277505666556322446763055--554
Q gi|254780317|r 115 IHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQI--RVM 192 (366)
Q Consensus 115 ~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQi--R~m 192 (366)
.--=++++..|+++|.+.||-.++-|-+. .+|..--||+ |-......+...-||- ||=+- |.|
T Consensus 184 ~~~Rs~ii~~iR~~l~~~gF~EVeTPil~---------~~~gGa~Arp----f~t~~~~~~~~~yL~q--SPQLykk~Lm 248 (505)
T PRK12445 184 FVVRSKILAAIRQFMVARGFMEVETPMMQ---------VIPGGASARP----FITHHNALDLDMYLRI--APELYLKRLV 248 (505)
T ss_pred HHHHHHHHHHHHHHHHHCCCEEEECCCCC---------CCCCCCCCCE----EEECCCCCCCCEEECC--CCHHHHHHHH
T ss_conf 99999999999999997793899788755---------5458766610----3304667886743416--9399999998
Q ss_pred HHCCCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHH
Q ss_conf 30363122541057647454-421378100200578617866899988999999997
Q gi|254780317|r 193 ESQDLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSF 248 (366)
Q Consensus 193 ~~~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~ 248 (366)
-. +. =|++-+|||||+|. +++|.|+|.|+|.=+.- ++..|+....+.+++++
T Consensus 249 vg-Gf-dRvfeI~r~FRnE~~~~~H~PEFT~lE~e~af--~d~~dvm~l~E~li~~i 301 (505)
T PRK12445 249 VG-GF-ERVFEINRNFRNEGISVRHNPEFTMMELYMAY--ADYHDLIELTESLFRTL 301 (505)
T ss_pred HC-CC-CCEEEHHHHHHCCCCCCCCCHHHHHHHHHHHC--CCHHHHHHHHHHHHHHH
T ss_conf 57-97-44576278760788886654445435687632--78989999999999999
No 33
>COG0072 PheT Phenylalanyl-tRNA synthetase beta subunit [Translation, ribosomal structure and biogenesis]
Probab=98.63 E-value=1.4e-06 Score=69.18 Aligned_cols=224 Identities=15% Similarity=0.232 Sum_probs=144.8
Q ss_pred HHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCC
Q ss_conf 43100000112321226742389999999999998739876237234158898886189887733163312775056665
Q gi|254780317|r 96 SQSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGG 175 (366)
Q Consensus 96 ~E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~ 175 (366)
-+.+.-++|... ....|..++.++..+.++++...+||+.+-.--.-+...++......++ +.-+.++-..
T Consensus 332 y~ni~~~~p~~~-~~~~~~~~~~~~~~r~vr~~l~~~G~~Evitysl~s~e~~~~~~~~~~~--------~~~l~NPiS~ 402 (650)
T COG0072 332 YNNIPPELPSAF-TIGRGGLTPLQKFRRKVRRALVGLGFQEVITYSLTSPEEAKLFGLENDE--------ALELANPISE 402 (650)
T ss_pred CCCCCCCCCCCC-CCCCCCCCHHHHHHHHHHHHHHHCCCEEEEEECCCCHHHHHHHCCCCCC--------CEEECCCCCC
T ss_conf 144887587654-4566665667899999999998589759986125898999974237775--------2685686762
Q ss_pred CCCCCCCCCCCHHHHHHH---HCCCE-EEEEECCCCCCCCCCCCC-------CCCCCCCCEEEECC-CCCHHHHHHHHHH
Q ss_conf 563224467630555543---03631-225410576474544213-------78100200578617-8668999889999
Q gi|254780317|r 176 KHKLLRTHTSPVQIRVME---SQDLP-IKVIVPGKTYRRDSDSTH-------SPMFHQIEGLVVSD-SATIANLRWVLES 243 (366)
Q Consensus 176 ~~~lLRthTS~vQiR~m~---~~~pP-~~~~~~GrvyR~d~D~tH-------~~~FhQ~egl~v~~-~i~~~~lk~~l~~ 243 (366)
+...|||--=|.=+.++. +++-| +++|-+|+||..|.++.. ...=.+.++-|-+. .++|.++|+.++.
T Consensus 403 e~s~mR~sLlp~LL~~~~~N~~r~~~~~~iFEiG~v~~~~~~~~~~~~~~~~l~~g~~~~~~w~~~~~v~f~d~Kg~ve~ 482 (650)
T COG0072 403 EYSVLRTSLLPGLLEALSYNKNRKNPDVRIFEIGDVFVKDEEAERETRHLAGLAAGLAGEESWQGKRPVDFYDAKGDLEA 482 (650)
T ss_pred CHHHHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEEEEECCCCCCCHHHHHHHHHHCCCCCCCCCCCCCCCHHHHHHHHHH
T ss_conf 38888877788899999987533688646886674570588653202789998744464333455676469999999999
Q ss_pred HHHHHCCCCCCEEEEEECCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCCCCCCEEEEEEECC
Q ss_conf 99997088866264542388985266103678750588042246883489845756388899856988000379963134
Q gi|254780317|r 244 FCKSFFEVSSLQMRFRPSFFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGIDPDIYQGFAWGMG 323 (366)
Q Consensus 244 ~~~~~fg~~~~~~r~rp~~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~~~g~AfG~G 323 (366)
+++.+ | +.+.|++.-.|.=.|+---.|.+ + + ..||--|.+||+|+++.++.-.. ++|-+-
T Consensus 483 ll~~l-g---~~~~~~~~~~~~~hpgrsA~I~~-----------~-~-~~iG~iGeiHP~vl~~~dl~~~~---~~fEi~ 542 (650)
T COG0072 483 LLEAL-G---VEYEFEPAEHPAFHPGRSAAIYL-----------N-K-EVIGFIGELHPEVLKEFDLPGPV---YVFEID 542 (650)
T ss_pred HHHHC-C---CCCEEEECCCCCCCCCCCEEEEE-----------C-C-EEEEEEEEECHHHHHHCCCCCCC---EEEEEE
T ss_conf 99972-9---97278405567513686079999-----------9-9-88899888769999875998881---899971
Q ss_pred HHHHHHHHCCCCCHHHHHHCCHHHHHHCCCCCC-CCCCCCCCCC
Q ss_conf 469979973897058766358888874489844-6884145889
Q gi|254780317|r 324 LDRIAMLKYGMPDVREFFGADVRWIEHYGFSPL-DIPPLFSRLA 366 (366)
Q Consensus 324 ~eRlaml~~gi~diR~~~~~d~rfl~qf~~~~~-~~~~~~~~~~ 366 (366)
++ .+...-. . .+.|+ -+|.+.|||+
T Consensus 543 l~-------------~l~~~~~---~--~~~~~s~~pa~~RDia 568 (650)
T COG0072 543 LD-------------ALLKRKK---P--AYKPISKFPAVRRDIA 568 (650)
T ss_pred HH-------------HHCCCCC---C--CCCCCCCCCCCCCEEE
T ss_conf 34-------------4244446---5--6788898985433069
No 34
>PRK06462 asparagine synthetase A; Reviewed
Probab=98.63 E-value=2.5e-07 Score=74.61 Aligned_cols=115 Identities=17% Similarity=0.113 Sum_probs=68.4
Q ss_pred CCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHH--HH
Q ss_conf 2389999999999998739876237234158898886189887733163312775056665563224467630555--54
Q gi|254780317|r 115 IHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIR--VM 192 (366)
Q Consensus 115 ~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR--~m 192 (366)
.-.=++++..|+++|.+-||..++-|-+.+ ..-+..+-|..-+ +-|+ +.+.-|| +|| |.. .|
T Consensus 29 friRs~i~~~iR~f~~~~gF~EV~TPiL~~-------~~~~~~~~~~~~~-~~~~-----~~~~~L~--~Sp-ql~lk~l 92 (332)
T PRK06462 29 LKIQSSILRYTREFLDGRGFVEVLPPIISP-------STDPLMGDAKPAS-IDFY-----GVEYYLA--DSM-IFHKQLM 92 (332)
T ss_pred HHHHHHHHHHHHHHHHHCCCEEEECCCCCC-------CCCCCCCCCCCCE-EECC-----CCCEEEC--CCH-HHHHHHH
T ss_conf 999999999999999888999987972367-------7887667760105-8448-----9863314--586-9999999
Q ss_pred HHCCCEEEEEECCCCCCCCC-CC---CCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHH
Q ss_conf 30363122541057647454-42---1378100200578617866899988999999997
Q gi|254780317|r 193 ESQDLPIKVIVPGKTYRRDS-DS---THSPMFHQIEGLVVSDSATIANLRWVLESFCKSF 248 (366)
Q Consensus 193 ~~~~pP~~~~~~GrvyR~d~-D~---tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~ 248 (366)
..... =||+.+|+|||+|. |+ +|.|+|.++|.=+.. .++.+++..++.+++.+
T Consensus 93 i~~g~-~rVfeIg~~FR~E~~d~~t~rHlpEFt~lE~y~a~--~d~~d~m~~~E~li~~i 149 (332)
T PRK06462 93 LRLLK-GKVFYLSPNFRLEPVDKDTGRHLYEFTQLDIEIEG--ADLEEVMSLAEDLIKYL 149 (332)
T ss_pred HHCCC-CCEEEECCHHHCCCCCCCCCCCCHHHHHHHHHHHH--CCHHHHHHHHHHHHHHH
T ss_conf 86389-97799745231687776777654577765587873--89999999999999999
No 35
>PRK09537 pylS pyrolysyl-tRNA synthetase; Reviewed
Probab=98.59 E-value=4e-07 Score=73.05 Aligned_cols=195 Identities=23% Similarity=0.360 Sum_probs=132.3
Q ss_pred CCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHH---HH
Q ss_conf 238999999999999873987623723415889888618988773316331277505666556322446763055---55
Q gi|254780317|r 115 IHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQI---RV 191 (366)
Q Consensus 115 ~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQi---R~ 191 (366)
-|-+-+...+|..+|..-||-....|-.---.| -+.+-|-.|.- -..--|+++ ++..||.--.|--- |-
T Consensus 206 e~ylgkler~it~ffvdrgfleikspilip~ey-iermgid~d~e--lskQiFrvd-----~n~CLRPMLAPnLYnylrk 277 (420)
T PRK09537 206 EDYLGKLERDITKFFVDRGFLEIKSPILIPAEY-IERMGIDNDTE--LSKQIFRVD-----KNFCLRPMLAPNLYNYLRK 277 (420)
T ss_pred HHHHHHHHHHHHHHHHCCCCEEECCCEECCHHH-HHHHCCCCHHH--HHHHHEEEC-----CCCCCCCCCCHHHHHHHHH
T ss_conf 887767788889985414513514850421999-99857886056--554516743-----4533241014269999999
Q ss_pred HHH-CCCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCC
Q ss_conf 430-363122541057647454-421378100200578617866899988999999997088866264542388985266
Q gi|254780317|r 192 MES-QDLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSFFEVSSLQMRFRPSFFPFTEPS 269 (366)
Q Consensus 192 m~~-~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~fg~~~~~~r~rp~~fPftePs 269 (366)
+.. ...|||+|-+|-|||.+. -+.|..+|.-+-..-.+.+.+=.+|...+..|+.++ |. +.++ .--|
T Consensus 278 L~R~lpdPIrIFEIGpCyRKESdG~~HLeEFTMlNfcqmgsgctrenle~~i~efl~~l-gI-dfei---------v~ds 346 (420)
T PRK09537 278 LDRALPDPIKIFEIGPCYRKESDGKEHLEEFTMVNFCQMGSGCTRENLEALITEFLNHL-GI-DFEI---------VGDS 346 (420)
T ss_pred HHHHCCCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHC-CC-EEEE---------ECCC
T ss_conf 98616887158862043034441067887777776886448986788999999999861-97-2798---------4252
Q ss_pred CEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHH-HHCCCCCCCEEEEEEECCHHHHHHHHCCCCCHHHH
Q ss_conf 103678750588042246883489845756388899-85698800037996313446997997389705876
Q gi|254780317|r 270 FEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVL-RGVGIDPDIYQGFAWGMGLDRIAMLKYGMPDVREF 340 (366)
Q Consensus 270 ~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl-~~~g~d~~~~~g~AfG~G~eRlaml~~gi~diR~~ 340 (366)
|..-+....+-+ |=+| +++|.|-|--| +.-||+.. |-| .|+|+|||.|+++|-.+||..
T Consensus 347 ------cmVYGdT~DvMh--gDlE-LsSavvGP~pLDr~Wgi~kP-WiG--aGFGLERLLkV~hg~~nikra 406 (420)
T PRK09537 347 ------CMVYGDTLDIMH--GDLE-LSSAVVGPIPLDREWGIDKP-WIG--AGFGLERLLKVMHGFKNIKRA 406 (420)
T ss_pred ------EEEECCHHHHHC--CCHH-HCCCCCCCCCCCCCCCCCCC-CCC--CCHHHHHHHHHHHCCHHHHHH
T ss_conf ------068532256542--6401-10354477445655576676-202--333099999998353667777
No 36
>KOG1885 consensus
Probab=98.47 E-value=4.4e-07 Score=72.77 Aligned_cols=141 Identities=18% Similarity=0.238 Sum_probs=82.2
Q ss_pred HHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHHCC
Q ss_conf 89999999999998739876237234158898886189887733163312775056665563224467630555543036
Q gi|254780317|r 117 PVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVMESQD 196 (366)
Q Consensus 117 PItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m~~~~ 196 (366)
.=.++|..|+.+|-+.||-.+|-| .||.- +.-.+.--|--...+.+.++-||--+--- ...|.-.
T Consensus 227 ~RakII~~iRkfld~rgFlEVETP----------mmn~i---aGGA~AkPFIT~hndldm~LylRiAPEL~-lK~LvVG- 291 (560)
T KOG1885 227 IRAKIISYIRKFLDSRGFLEVETP----------MMNMI---AGGATAKPFITHHNDLDMDLYLRIAPELY-LKMLVVG- 291 (560)
T ss_pred HHHHHHHHHHHHHHHCCCEEECCH----------HHCCC---CCCCCCCCEEECCCCCCCCEEEEECHHHH-HHHHHHC-
T ss_conf 999999999998654495684446----------55254---68632576043145567551456365999-9989860-
Q ss_pred CEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHH----HCCCCCCEEEEEECCCCCCCCCCE
Q ss_conf 3122541057647454-42137810020057861786689998899999999----708886626454238898526610
Q gi|254780317|r 197 LPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKS----FFEVSSLQMRFRPSFFPFTEPSFE 271 (366)
Q Consensus 197 pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~----~fg~~~~~~r~rp~~fPftePs~E 271 (366)
.==|+.-+||+|||+- |.||-|+|.-+|.-..-- .+.||+.+-+.+++. +.| ..++-+-|. |-++|..|
T Consensus 292 GldrVYEIGr~FRNEGIDlTHNPEFTTcEfY~AYa--dy~dlm~~TE~l~s~mv~~i~G--~~~i~y~p~--~~~~~~~e 365 (560)
T KOG1885 292 GLDRVYEIGRQFRNEGIDLTHNPEFTTCEFYMAYA--DYEDLMDMTEELLSGMVKNITG--SYKITYHPN--GPEEPELE 365 (560)
T ss_pred CHHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHCC--CEEEEECCC--CCCCCCEE
T ss_conf 17899998787630576654587742189999875--3888999999999999996037--436752688--98887436
Q ss_pred EEEEEEC
Q ss_conf 3678750
Q gi|254780317|r 272 VDVRCSF 278 (366)
Q Consensus 272 vdv~~~~ 278 (366)
+|.+-++
T Consensus 366 ldf~~pf 372 (560)
T KOG1885 366 LDFTRPF 372 (560)
T ss_pred EECCCCE
T ss_conf 6236872
No 37
>TIGR00471 pheT_arch phenylalanyl-tRNA synthetase, beta subunit; InterPro: IPR004531 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; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . 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 (see IPR002319 from INTERPRO). Reciprocally the large subunit (pheT gene) can be designated as alpha (E. coli) or beta. 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 . This family describes the beta subunit. The beta subunits break into two subfamilies that are considerably different in sequence, length, and pattern of gaps (see also IPR004532 from INTERPRO). This family represents the subfamily that includes the beta subunit from eukaryotic cytosol, the archaea, and spirochetes.; GO: 0000166 nucleotide binding, 0004826 phenylalanine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006432 phenylalanyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=98.23 E-value=1.2e-05 Score=62.27 Aligned_cols=231 Identities=19% Similarity=0.310 Sum_probs=156.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCC--HHHHHHHHHHHHHHHCCCEEECCCEE
Q ss_conf 9999999999999999999998567666765431000001123212267423--89999999999998739876237234
Q gi|254780317|r 65 AILNQLKVDISGKISARKDFIRNQLIFEQISSQSVDVSLPVFSSPCHRGRIH--PVTQVIDEVTCIFMDMGFALEEGSDI 142 (366)
Q Consensus 65 k~iNelK~~Ie~~i~~kk~~L~~~~~~~kl~~E~iDVTLP~~~~~~~~G~~H--PItqvi~eI~~IF~~lGF~v~eGPEI 142 (366)
-.+=.-+.+|--+++- ++..+...-+. ++.--+| .-.+.|..| |++++.+-|+.|+.+|||+++=.--+
T Consensus 348 v~IP~YR~DIlHE~D~----~EdvAigyG~~--~~~pE~P---~~~t~g~~~Plp~~~~~~~~R~~mvG~GF~EVi~l~L 418 (605)
T TIGR00471 348 VVIPAYRVDILHEVDV----IEDVAIGYGYN--NIEPELP---KILTIGRLKPLPLEKVSDIIREIMVGLGFQEVISLTL 418 (605)
T ss_pred ECCCCCCCCHHHHHHH----HHHHHHHHHHH--CCCCCCC---CHHHHHCCCCCCHHHHHHHHHHHHHCCCHHHHHHCCC
T ss_conf 7178976402100317----77778873221--0687777---1222210488877788757654220470434241004
Q ss_pred ECHHHHHHHHCCCCCCCCCCCCCEEEEE--CCCCCCCCCCCCCCCCHHHHHHH---HCCCEEEEEECCCCCCCCCC----
Q ss_conf 1588988861898877331633127750--56665563224467630555543---03631225410576474544----
Q gi|254780317|r 143 ETDYYNFAALNFPDDHPARQMHDTFFVP--GIAGGKHKLLRTHTSPVQIRVME---SQDLPIKVIVPGKTYRRDSD---- 213 (366)
Q Consensus 143 Etd~~NFdaLNiP~~HPARdmqDTFyl~--~~~~~~~~lLRthTS~vQiR~m~---~~~pP~~~~~~GrvyR~d~D---- 213 (366)
-++--+|+-|++-.+- +--|++ ++...+..++||===|.=..++. ++..|.+||=+|.|==+|.+
T Consensus 419 ~s~~~~~~~mR~~d~~------~k~~v~V~~P~t~e~~~~R~SlLP~LLe~~~~Nk~~~lP~KiFE~GDVV~~d~~~erk 492 (605)
T TIGR00471 419 TSEEVLFKRMRIEDNN------FKLAVKVANPLTLEYTIVRTSLLPGLLETLSENKHHELPQKIFEIGDVVVKDDDSERK 492 (605)
T ss_pred CCHHHHHHHHCCCCCC------CHHHHHHCCCCCCCHHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEEEEEEECCCHHHH
T ss_conf 7806999980757887------2003331178762333776562236788886514899882078874388828720122
Q ss_pred CCCCCCCCCCCEEEECCC----------CCHHHHHHHHHHHHHHHCCCCCCEEEEEEC-CCCCCCCC--CEEEEEEECCC
Q ss_conf 213781002005786178----------668999889999999970888662645423-88985266--10367875058
Q gi|254780317|r 214 STHSPMFHQIEGLVVSDS----------ATIANLRWVLESFCKSFFEVSSLQMRFRPS-FFPFTEPS--FEVDVRCSFSD 280 (366)
Q Consensus 214 ~tH~~~FhQ~egl~v~~~----------i~~~~lk~~l~~~~~~~fg~~~~~~r~rp~-~fPftePs--~Evdv~~~~~~ 280 (366)
++.+-+|..+=+++.+.. ++|..-+|..+..++++ | ++++.+++ =-|+==+| |+|-+.
T Consensus 493 ~~~~r~~~~lA~~~~~~~eiiqGllGki~~F~eI~S~v~~~~~~L-~---~e~~~~e~D~~~~fi~GR~A~I~~~----- 563 (605)
T TIGR00471 493 ETRSRVVTKLAVLITHSEEIIQGLLGKIANFNEIKSIVAALLREL-G---IEYEIEESDEHPSFIEGRGAKIVIE----- 563 (605)
T ss_pred HHCCEEEEEEEEEEECCHHHHHHHHHHHCCCHHHHHHHHHHHHHC-C---CCEEEECCCCCCCCCCCCEEEEEEC-----
T ss_conf 305625556787762761433435532013024788999999963-9---8379831788613116710489841-----
Q ss_pred CEEEECCCCCEEEEE-CCCCCCHHHHHHCCCCCCCEEEEEEECCHHH
Q ss_conf 804224688348984-5756388899856988000379963134469
Q gi|254780317|r 281 GIIKFDEGTEWMEIL-GCGMVDPRVLRGVGIDPDIYQGFAWGMGLDR 326 (366)
Q Consensus 281 ~~~~~~~~~~WiEi~-g~Gm~~p~vl~~~g~d~~~~~g~AfG~G~eR 326 (366)
|+ .+..--.|| +-|-|||+||.|.++. |-.-||=+-++.
T Consensus 564 GK----~GaeP~~IGG~FGe~HPEV~~NF~l~---~Pvs~fE~~~~~ 603 (605)
T TIGR00471 564 GK----EGAEPKAIGGVFGEIHPEVLTNFELE---FPVSAFEVNIEV 603 (605)
T ss_pred CC----CCCCCCCCCCCCCCEECCEECCCCCC---EEEEEEEEEEHH
T ss_conf 65----78883325740231422056278832---016999985012
No 38
>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=98.07 E-value=0.0006 Score=49.87 Aligned_cols=194 Identities=11% Similarity=0.073 Sum_probs=113.7
Q ss_pred HHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCC---CCCCCCCCCCCCCHHHHHH---
Q ss_conf 9999999999987398762372341588988861898877331633127750566---6556322446763055554---
Q gi|254780317|r 119 TQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIA---GGKHKLLRTHTSPVQIRVM--- 192 (366)
Q Consensus 119 tqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~---~~~~~lLRthTS~vQiR~m--- 192 (366)
..+++-+.+.+.+.||+.+.-|.+-..-.=+.. .|-..-..+-|.+++.. .+++..||. ||-+-+-.|
T Consensus 6 ~aL~~~~~~~~~~~G~~~v~~P~l~~~~~~~~s-----g~~~~f~~~~y~v~~~~~~~~~~~~~L~P-TsE~~~~~~~~~ 79 (235)
T cd00670 6 RALERFLDDRMAEYGYQEILFPFLAPTVLFFKG-----GHLDGYRKEMYTFEDKGRELRDTDLVLRP-AACEPIYQIFSG 79 (235)
T ss_pred HHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHC-----CCCCCCCCCEEEEECCCCCCCCCCEEEEE-CCCHHHHHHHHC
T ss_conf 999999999999869989989855789999223-----86754520528982377666787389930-786999999948
Q ss_pred ---HHCCCEEEEEECCCCCCCCC-CC---CCCCCCCCCCEEEECCCC----CHHHHHHHHHHHHHHHCCCCCCEEEEEEC
Q ss_conf ---30363122541057647454-42---137810020057861786----68999889999999970888662645423
Q gi|254780317|r 193 ---ESQDLPIKVIVPGKTYRRDS-DS---THSPMFHQIEGLVVSDSA----TIANLRWVLESFCKSFFEVSSLQMRFRPS 261 (366)
Q Consensus 193 ---~~~~pP~~~~~~GrvyR~d~-D~---tH~~~FhQ~egl~v~~~i----~~~~lk~~l~~~~~~~fg~~~~~~r~rp~ 261 (366)
...+.|+|+...+.|||+|. ++ ...++|+|+|+.++...= .+..+....+.+++.| |. ...+-.-++
T Consensus 80 ~i~s~~dLPlr~~~~s~~fR~E~~~~~Gl~Rv~eF~k~E~~~~~~~e~~~~~~~~~~~~~~~i~~~L-~l-~y~v~~~~~ 157 (235)
T cd00670 80 EILSYRALPLRLDQIGPCFRHEPSGRRGLMRVREFRQVEYVVFGEPEEAEEERREWLELAEEIAREL-GL-PVRVVVADD 157 (235)
T ss_pred CCCCHHHCCEEEEEECCEECCCCCCCCCCEEEEEEEEEEEEEEECHHHHHHHHHHHHHHHHHHHHHC-CC-CEEEEECCC
T ss_conf 3287687995454456533367899999836789998507999688999999999999999999986-99-779997586
Q ss_pred ----------CCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCCCC------CCEEEEEEECCHH
Q ss_conf ----------889852661036787505880422468834898457563888998569880------0037996313446
Q gi|254780317|r 262 ----------FFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGIDP------DIYQGFAWGMGLD 325 (366)
Q Consensus 262 ----------~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~------~~~~g~AfG~G~e 325 (366)
.|+..+... |+..+..+ .++|.|+..|....-.--+..+|+- ..++.-.-+++++
T Consensus 158 ~d~g~~~~~~~~~~a~~~~--d~E~~~p~-------~~~~~e~~s~S~~~~~q~r~~~~~~~~~~~~~~ht~~~s~~a~~ 228 (235)
T cd00670 158 PFFGRGGKRGLDAGRETVV--EFELLLPL-------PGRAKETAVGSANVHLDHFGASFKIDEDGGGRAHTGCGGAGGEE 228 (235)
T ss_pred CCCCCCCCCCCCCCCCCCE--EEEEEECC-------CCCEEEEEEEEECCCHHHCCCCCEEECCCCCEEEEECCCCCHHH
T ss_conf 1337664100025655564--69999778-------99467899930257844430253014699968999726328899
Q ss_pred HHHH
Q ss_conf 9979
Q gi|254780317|r 326 RIAM 329 (366)
Q Consensus 326 Rlam 329 (366)
|+..
T Consensus 229 R~l~ 232 (235)
T cd00670 229 RLVL 232 (235)
T ss_pred HHHH
T ss_conf 9999
No 39
>PRK12292 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=98.03 E-value=0.00014 Score=54.41 Aligned_cols=112 Identities=16% Similarity=0.205 Sum_probs=80.3
Q ss_pred CCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHH
Q ss_conf 74238999999999999873987623723415889888618988773316331277505666556322446763055554
Q gi|254780317|r 113 GRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVM 192 (366)
Q Consensus 113 G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m 192 (366)
....-...+.+.+.++|.+-||+.++-|-+|. .|.+.---.+... ..+|-+-+...+..+.||.--|+-=+|..
T Consensus 15 ~e~~~~~~i~~~~~~~f~~~Gy~~I~tP~lE~----~e~f~~~~g~~~~--~~~~~f~D~~~Gr~l~LRpD~T~~iaR~~ 88 (388)
T PRK12292 15 EEARKIEEIRRRLLDVFRLWGYEEVITPTLEY----LDTLLTGGGADLD--LRTFKLVDQLSGRTLGLRPDMTPQIARIA 88 (388)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCEEEECCCCCC----HHHHCCCCCCCCC--HHEEEEEECCCCCEEEECCCCCHHHHHHH
T ss_conf 99999999999999999987996735766062----9885445775021--10489982699978985687719999999
Q ss_pred H----HCCCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECC
Q ss_conf 3----0363122541057647454-421378100200578617
Q gi|254780317|r 193 E----SQDLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSD 230 (366)
Q Consensus 193 ~----~~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~ 230 (366)
. +...|+|.+..|.|||.+. -.-++-+|||+..=+++.
T Consensus 89 ~~~~~~~~~p~r~~Y~g~vfR~e~pq~Gr~REf~Q~G~EiiG~ 131 (388)
T PRK12292 89 ATRLANRPGPLRLCYAGNVFRAQPRGLGRSREFLQSGVELIGD 131 (388)
T ss_pred HHHHHCCCCCEEEEEEEEEEEECCCCCCCCCEEEECCEEEECC
T ss_conf 9731046787689985226870589899610234257553178
No 40
>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=98.01 E-value=0.0006 Score=49.85 Aligned_cols=197 Identities=13% Similarity=0.137 Sum_probs=112.1
Q ss_pred CCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCC-CCCCCHHH---H
Q ss_conf 2389999999999998739876237234158898886189887733163312775056665563224-46763055---5
Q gi|254780317|r 115 IHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLR-THTSPVQI---R 190 (366)
Q Consensus 115 ~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLR-thTS~vQi---R 190 (366)
......+++-|++.+.+.|++.+.=|-+-.. +.. .-..|=.--..+-|.+.+.. +++.+|| ||..++.- .
T Consensus 31 ~~i~~~i~~~i~~~~~~~G~~ev~~P~l~~~----~l~-~~sg~~~~f~~emf~v~d~~-~~~~~L~PT~E~~~~~~~~~ 104 (255)
T cd00779 31 LRVLKKIENIIREEMNKIGAQEILMPILQPA----ELW-KESGRWDAYGPELLRLKDRH-GKEFLLGPTHEEVITDLVAN 104 (255)
T ss_pred HHHHHHHHHHHHHHHHHCCCEEEECCCCCCH----HHH-HHHCCCCCCCCCEEEEECCC-CCEEEECCCCHHHHHHHHHH
T ss_conf 9999999999999999859989976534738----887-44253013687315445378-87773168874889999986
Q ss_pred HHHH-CCCEEEEEECCCCCCCCCCCC----CCCCCCCCCEEEECCCC-----CHHHHHHHHHHHHHHHCCCCCCEEEEEE
Q ss_conf 5430-363122541057647454421----37810020057861786-----6899988999999997088866264542
Q gi|254780317|r 191 VMES-QDLPIKVIVPGKTYRRDSDST----HSPMFHQIEGLVVSDSA-----TIANLRWVLESFCKSFFEVSSLQMRFRP 260 (366)
Q Consensus 191 ~m~~-~~pP~~~~~~GrvyR~d~D~t----H~~~FhQ~egl~v~~~i-----~~~~lk~~l~~~~~~~fg~~~~~~r~rp 260 (366)
.+.+ .+.|+++...|.|||+|.-.+ ...+|.|.|+-..+.+- +........+.+++. +|..-+.+..-+
T Consensus 105 ~i~SyrdLPl~~~q~~~~fR~E~r~~~GllR~rEF~~~d~hsf~~~~e~a~~~~~~~~~~y~~i~~~-Lglp~~~v~~~~ 183 (255)
T cd00779 105 EIKSYKQLPLNLYQIQTKFRDEIRPRFGLMRGREFLMKDAYSFDIDEESLEETYEKMYQAYSRIFKR-LGLPFVKVEADS 183 (255)
T ss_pred HCCCHHHCCEEEECCCCEECCCCCCCCCCCEEEEEEEEHHHCCCCCHHHHHHHHHHHHHHHHHHHHH-CCCCEEEEECCC
T ss_conf 5036122574541353354256678866324313770022035699899999999999999999998-399879985476
Q ss_pred CCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCC---CCC-----CEEEEEEECCHHHHH
Q ss_conf 38898526610367875058804224688348984575638889985698---800-----037996313446997
Q gi|254780317|r 261 SFFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGI---DPD-----IYQGFAWGMGLDRIA 328 (366)
Q Consensus 261 ~~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~---d~~-----~~~g~AfG~G~eRla 328 (366)
..+.+ .-|-|.++.+... .++++||+-|--.--+--+++++ |.+ .+.| -||+||+|+.
T Consensus 184 g~~g~-~~s~ef~~~~~l~--------~~~~lEvg~~~~lG~~~s~~~~i~y~d~dg~~~~~~m~-s~Gi~i~R~i 249 (255)
T cd00779 184 GAIGG-SLSHEFHVLSPLK--------ITKGIEVGHIFQLGTKYSKALGATFLDENGKPKPLEMG-CYGIGVSRLL 249 (255)
T ss_pred CCCCC-CCCEEEEEEECCC--------CCCEEEEEEEECCCCHHHHHCCCEEECCCCCEEEEEEE-CCCCHHHHHH
T ss_conf 67788-7457999982477--------77568997455056255785599999999998846970-6504898888
No 41
>pfam00587 tRNA-synt_2b tRNA synthetase class II core domain (G, H, P, S and T). Other tRNA synthetase sub-families are too dissimilar to be included. This domain is the core catalytic domain of tRNA synthetases and includes glycyl, histidyl, prolyl, seryl and threonyl tRNA synthetases.
Probab=97.99 E-value=0.00013 Score=54.67 Aligned_cols=125 Identities=15% Similarity=0.243 Sum_probs=85.7
Q ss_pred HHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHH----
Q ss_conf 9999999999987398762372341588988861898877331633127750566655632244676305555430----
Q gi|254780317|r 119 TQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVMES---- 194 (366)
Q Consensus 119 tqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m~~---- 194 (366)
..+++.+.++|...||+.+.-|-++.. +.+.. ..|=..-..+.|-+.+. .++.+.||.-+++.-+|...+
T Consensus 3 ~~l~~~~~~~~~~~G~~~i~tP~l~~~----~~~~~-sg~~~~~~~~my~~~d~-~~~~l~Lrp~~~~~~~~~~~~~~~~ 76 (170)
T pfam00587 3 NALENFIRDLFKRYGYQEVDTPILEPK----ELWEG-SGHWDDYFDEMYRFKDR-GGEELYLRPTAEVGITRLFKNEILS 76 (170)
T ss_pred HHHHHHHHHHHHHCCCEEEECCEEEEH----HHHHH-CCCCCCCHHHEEEEECC-CCCEEEEECCCCHHHHHHHHHHCCC
T ss_conf 999999999999859989999917567----89834-47765575312567358-9976887325745888998862003
Q ss_pred -CCCEEEEEECCCCCCCCC-CC---CCCCCCCCCCEEEECCC----CCHHHHHHHHHHHHHHHCC
Q ss_conf -363122541057647454-42---13781002005786178----6689998899999999708
Q gi|254780317|r 195 -QDLPIKVIVPGKTYRRDS-DS---THSPMFHQIEGLVVSDS----ATIANLRWVLESFCKSFFE 250 (366)
Q Consensus 195 -~~pP~~~~~~GrvyR~d~-D~---tH~~~FhQ~egl~v~~~----i~~~~lk~~l~~~~~~~fg 250 (366)
.+.|+|+...|+|||+|. +. ...++|+|+|.-+++.. -..+.+......+++.+ |
T Consensus 77 ~~~lP~r~~~~~~~fR~E~~~~~Gl~R~reF~q~d~~~~~~~e~s~~~~~e~~~~~~~~~~~l-g 140 (170)
T pfam00587 77 YRDLPLKLYQIGPCFRYEARPRRGLGRVREFTQVDAEIFGTPEQSEEEDEELLKLAEEILQDL-G 140 (170)
T ss_pred CCCCCCEEECCCCCCCCCCCCCCCCCEEEEEEEECEEEEECCCHHHHHHHHHHHHHHHHHHHC-C
T ss_conf 235860133065300677776667743678898047999670042999999999999999987-9
No 42
>TIGR02367 PylS pyrrolysyl-tRNA synthetase; InterPro: IPR012739 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, e.g. trimethylamine methyltransferase. .
Probab=97.81 E-value=5.8e-05 Score=57.26 Aligned_cols=193 Identities=23% Similarity=0.359 Sum_probs=133.7
Q ss_pred CHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHH-
Q ss_conf 3899999999999987398762372341588988861898877331633127750566655632244676305555430-
Q gi|254780317|r 116 HPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVMES- 194 (366)
Q Consensus 116 HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m~~- 194 (366)
.-+-+...+|..+|..-||-....|-+---.| -+.+-|-.|- -=...-|-+ +++..||.--.|.--.++.+
T Consensus 240 ~ylGkler~it~ffvdrGfleiksPiliP~ey-~ermGi~ndt--elskqifrv-----dkn~ClrPmlaP~lynylrkl 311 (453)
T TIGR02367 240 DYLGKLEREITKFFVDRGFLEIKSPILIPLEY-VERMGIDNDT--ELSKQIFRV-----DKNLCLRPMLAPTLYNYLRKL 311 (453)
T ss_pred HHHHHHHHHHHHHHHHCCEEEECCCCCCCHHH-HHHCCCCCCH--HHHHHHHHH-----HHHHHCCCCHHHHHHHHHHHH
T ss_conf 67546766676665312402323631010568-8650776402--566666644-----100101210005689999998
Q ss_pred --C-CCEEEEEECCCCCCCCCC-CCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCC
Q ss_conf --3-631225410576474544-213781002005786178668999889999999970888662645423889852661
Q gi|254780317|r 195 --Q-DLPIKVIVPGKTYRRDSD-STHSPMFHQIEGLVVSDSATIANLRWVLESFCKSFFEVSSLQMRFRPSFFPFTEPSF 270 (366)
Q Consensus 195 --~-~pP~~~~~~GrvyR~d~D-~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~fg~~~~~~r~rp~~fPftePs~ 270 (366)
- +-||++|-+|-|||.+.| .-|.-+|.-+..--++.+-|-.+|-.++..|+.++ +. | .. .+--|
T Consensus 312 dr~lP~Pik~fe~GPCyrkesdGkehleeftm~nfCqmGsGCtrenle~~i~~fl~~l-~i-d--f~-------ivGds- 379 (453)
T TIGR02367 312 DRILPDPIKVFEVGPCYRKESDGKEHLEEFTMLNFCQMGSGCTRENLEALIKEFLDYL-EI-D--FK-------IVGDS- 379 (453)
T ss_pred HHHCCCCEEEEEECCCCCCCCCCHHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHH-CC-C--EE-------EECCE-
T ss_conf 7537896479860675243565335666666555431478732677999999988761-54-2--47-------85242-
Q ss_pred EEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHH-HHCCCCCCCEEEEEEECCHHHHHHHHCCCCCHHH
Q ss_conf 03678750588042246883489845756388899-8569880003799631344699799738970587
Q gi|254780317|r 271 EVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVL-RGVGIDPDIYQGFAWGMGLDRIAMLKYGMPDVRE 339 (366)
Q Consensus 271 Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl-~~~g~d~~~~~g~AfG~G~eRlaml~~gi~diR~ 339 (366)
|..-+....+-. |=+|+- +.+|-|--| +.-|||.. |- ..|+|+|||.-++|+..+|+-
T Consensus 380 -----CmvyGdtld~mh--Gdlels-savvGP~~ldreWGidkP-Wi--GaGfGlerllkv~h~fknikr 438 (453)
T TIGR02367 380 -----CMVYGDTLDVMH--GDLELS-SAVVGPVSLDREWGIDKP-WI--GAGFGLERLLKVKHDFKNIKR 438 (453)
T ss_pred -----EEEECCHHEEEE--CCHHHC-CEEECCCCCCCCCCCCCC-CC--CCCHHHHHHHHHHHHHHHHHH
T ss_conf -----465335010001--320000-002236322301378887-21--253236788877632345545
No 43
>PRK12295 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=97.76 E-value=0.00089 Score=48.59 Aligned_cols=104 Identities=13% Similarity=0.144 Sum_probs=73.7
Q ss_pred HHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHH-HHHC-
Q ss_conf 99999999999987398762372341588988861898877331633127750566655632244676305555-4303-
Q gi|254780317|r 118 VTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRV-MESQ- 195 (366)
Q Consensus 118 Itqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~-m~~~- 195 (366)
...+.+.|.+.|.+-||+.++-|-+|.-- .+ .......-. .-+|-+.+. .+..+.||.--|+--+|. +.++
T Consensus 7 ~~~~~~~i~~~f~~~Gy~~I~tP~lE~~d----~~-~~~~Ge~~~-~~~y~f~D~-~g~~l~LRpDlT~piaR~~~~~~~ 79 (373)
T PRK12295 7 SAALAEALLASFEAAGAVRVDPPILQPAE----PF-LDLSGEDIR-RRIFVTSDE-NGEELCLRPDFTIPVCRRHLASNA 79 (373)
T ss_pred HHHHHHHHHHHHHHCCCEEECCCCCCCHH----HH-CCCCCCHHH-EEEEEEECC-CCCEEEEECCCCHHHHHHHHHHCC
T ss_conf 99999999999998699685687604177----64-143563311-004889989-989899817888999999998389
Q ss_pred CCEEEEEECCCCCCCCCCCCCCCCCCCCCEEEECC
Q ss_conf 63122541057647454421378100200578617
Q gi|254780317|r 196 DLPIKVIVPGKTYRRDSDSTHSPMFHQIEGLVVSD 230 (366)
Q Consensus 196 ~pP~~~~~~GrvyR~d~D~tH~~~FhQ~egl~v~~ 230 (366)
+.|.|..+.|.|||+... .+-+|+|+..=+++.
T Consensus 80 ~~p~R~~Y~G~VfR~q~g--r~rEf~Q~GvEiiG~ 112 (373)
T PRK12295 80 GEPARYSYLGEVFRQRRD--RASEFLQAGIESFGR 112 (373)
T ss_pred CCCEEEEEECCEEECCCC--CCCCEEEEEEEEECC
T ss_conf 998007877332245799--988516701578578
No 44
>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=97.74 E-value=0.00095 Score=48.40 Aligned_cols=106 Identities=15% Similarity=0.229 Sum_probs=75.1
Q ss_pred HHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHH----
Q ss_conf 9999999999987398762372341588988861898877331633127750566655632244676305555430----
Q gi|254780317|r 119 TQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVMES---- 194 (366)
Q Consensus 119 tqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m~~---- 194 (366)
..+.+.+.++|.+-||+.++-|-+|.- |.+.--...- -...+|-+.+. .+..+.||.-.|+--+|.+..
T Consensus 6 ~~i~~~l~~~f~~~Gy~~I~~P~lE~~----d~~~~~~~~~--~~~~~~~f~D~-~g~~l~LRpD~T~~iaR~~~~~~~~ 78 (261)
T cd00773 6 RYIEDTLREVFERYGYEEIDTPVFEYT----ELFLRKSGDE--VSKEMYRFKDK-GGRDLALRPDLTAPVARAVAENLLS 78 (261)
T ss_pred HHHHHHHHHHHHHCCCEEEECCCCCCH----HHHCCCCCCC--CHHCEEEEECC-CCCEEEECCCCCHHHHHHHHHHHCC
T ss_conf 999999999999869978667764527----6752446531--02116999979-9998976786627999999974153
Q ss_pred CCCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCC
Q ss_conf 363122541057647454-4213781002005786178
Q gi|254780317|r 195 QDLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDS 231 (366)
Q Consensus 195 ~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~ 231 (366)
...|+|..+.|.|||.+. ...+.-+|+|+..=+++.+
T Consensus 79 ~~~p~r~~Y~g~VfR~~~~~~g~~rE~~Q~G~EiiG~~ 116 (261)
T cd00773 79 LPLPLKLYYIGPVFRYERPQKGRYREFYQVGVEIIGSD 116 (261)
T ss_pred CCCCEEEEEECCEEEECCCCCCCCCCCCCEEEEEECCC
T ss_conf 78885899973189976899998443221469997289
No 45
>PRK12421 ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=97.69 E-value=0.0015 Score=46.99 Aligned_cols=110 Identities=14% Similarity=0.102 Sum_probs=79.7
Q ss_pred CCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHH
Q ss_conf 74238999999999999873987623723415889888618988773316331277505666556322446763055554
Q gi|254780317|r 113 GRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVM 192 (366)
Q Consensus 113 G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m 192 (366)
.-..-...+++.+.++|.+-||+.++-|-+|. .|.|..--.+- - ...||-+.+...+..+.||.--|+-=+|..
T Consensus 19 ~ea~~~~~l~~~l~~~f~~~Gy~~V~tP~lE~----~e~l~~~~g~~-~-~~~~f~~~D~~sGr~l~LRpD~T~~vARi~ 92 (391)
T PRK12421 19 EEAQKIERLRRRLLDLFASRGYQLVMPPFIEY----LESLLTGAGQD-L-DLQTFKLIDQLSGRLMGVRADITPQVARID 92 (391)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCEEEECCCCCC----HHHHCCCCCCC-C-CEEEEEEEECCCCCEEEECCCCCHHHHHHH
T ss_conf 99999999999999999986997621676072----87856566873-4-147999961799978655653206889999
Q ss_pred H---HCCCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEE
Q ss_conf 3---0363122541057647454-4213781002005786
Q gi|254780317|r 193 E---SQDLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVV 228 (366)
Q Consensus 193 ~---~~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v 228 (366)
. +.+.|.|..+.|.|||.+. -.-.+-+|+|+..=++
T Consensus 93 a~~~~~~~p~Rl~Y~G~V~R~~~~~~gr~Ref~Q~G~Eli 132 (391)
T PRK12421 93 AHLLNREGVARYCYAGSVLHTLPQGLNASRAPLQLGAELY 132 (391)
T ss_pred HHHCCCCCCEEEEEECEEEECCCCCCCCCCCCEECCEEEE
T ss_conf 8740468865799965177516888887665215058985
No 46
>PRK12420 histidyl-tRNA synthetase; Provisional
Probab=97.61 E-value=0.0012 Score=47.67 Aligned_cols=112 Identities=14% Similarity=0.165 Sum_probs=78.9
Q ss_pred CCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHH
Q ss_conf 23899999999999987398762372341588988861898877331633127750566655632244676305555430
Q gi|254780317|r 115 IHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVMES 194 (366)
Q Consensus 115 ~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m~~ 194 (366)
..-...+.+.++++|...||+..+-|-+|. .|.+.---..-.--....|-+.+. .+..+.||.--|+--+|+...
T Consensus 18 ~~~~~~i~~~~~~~~~~~Gy~~I~tP~~E~----~elf~~~~g~~~~i~kemy~f~D~-~gr~l~LRPe~Ta~iaR~~a~ 92 (421)
T PRK12420 18 QVLRNKIKRACEDTFERYGCKPLETPTLNM----YELMSYKYGGGDEILKEIYTLQDQ-GKRDLALRYDLTIPFAKVVAM 92 (421)
T ss_pred HHHHHHHHHHHHHHHHHCCCEEEECCCCCH----HHHHCCCCCCCCHHHHHEEEEECC-CCCEEEECCCCCHHHHHHHHH
T ss_conf 999999999999999985994724765011----876424478844224110788818-998798567765899999997
Q ss_pred C---CCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCC
Q ss_conf 3---63122541057647454-4213781002005786178
Q gi|254780317|r 195 Q---DLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDS 231 (366)
Q Consensus 195 ~---~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~ 231 (366)
+ ..|+|.++.|.|||.+. -+-++-+|||+..=+++.+
T Consensus 93 ~~~~~~P~k~~y~g~vfR~erpq~GR~ReF~Q~GvEiiG~~ 133 (421)
T PRK12420 93 NPNIRLPFKRYEIGKVFRDGPIKQGRFREFIQCDVDIVGVE 133 (421)
T ss_pred CCCCCCCEEEEEECCEEECCCCCCCCCCEEEECCEEEECCC
T ss_conf 75777874588876778538987885551343575420788
No 47
>PRK00037 hisS histidyl-tRNA synthetase; Reviewed
Probab=97.61 E-value=0.00062 Score=49.77 Aligned_cols=116 Identities=16% Similarity=0.182 Sum_probs=75.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCC-CCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHH
Q ss_conf 2674238999999999999873987623723415889888618988-773316331277505666556322446763055
Q gi|254780317|r 111 HRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPD-DHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQI 189 (366)
Q Consensus 111 ~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~-~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQi 189 (366)
.+-...-...+.+.++++|.+-||+.++.|-+|. +|.+.--- .|...-....|-+.+. .+..+.||.--|+-=+
T Consensus 14 lP~~~~~~~~i~~~i~~~~~~~Gy~~I~tP~lE~----~d~~~~~~g~~~d~~~k~~y~f~D~-~g~~l~LRpD~T~~ia 88 (417)
T PRK00037 14 LPEESAKWQYVEDTIREVFERYGFSEIRTPIFEY----TELFKRKIGESTDIVEKEMYTFQDK-GGRSLTLRPEGTAPVV 88 (417)
T ss_pred CHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCH----HHHHCCCCCCCCCHHHHHEEEEECC-CCCEEEECCCCCHHHH
T ss_conf 9889999999999999999985995857752150----9886245776322013320567759-9988985677672999
Q ss_pred HHHHH------CCCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCC
Q ss_conf 55430------363122541057647454-4213781002005786178
Q gi|254780317|r 190 RVMES------QDLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDS 231 (366)
Q Consensus 190 R~m~~------~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~ 231 (366)
|...+ .+.|+|....|.|||+|. -+-..-+|+|+..=+++..
T Consensus 89 R~~~~~~~~~~~~~P~r~~y~g~vfR~e~p~~GR~REf~Q~g~eiiG~~ 137 (417)
T PRK00037 89 RAVIENKLYNELPKPFKLYYIGPMFRYERPQKGRYRQFHQFGVEVIGSD 137 (417)
T ss_pred HHHHHHHHHCCCCCCEEEEEECCEEECCCCCCCCCCCEEECCHHHHCCC
T ss_conf 9999721010688765899872466047898876352456352774664
No 48
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=97.61 E-value=0.0017 Score=46.61 Aligned_cols=112 Identities=14% Similarity=0.219 Sum_probs=80.3
Q ss_pred CCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHC--CCCCCCCCCCCCEEE-EECCCCCCCCCCCCCCCCHHH
Q ss_conf 74238999999999999873987623723415889888618--988773316331277-505666556322446763055
Q gi|254780317|r 113 GRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALN--FPDDHPARQMHDTFF-VPGIAGGKHKLLRTHTSPVQI 189 (366)
Q Consensus 113 G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLN--iP~~HPARdmqDTFy-l~~~~~~~~~lLRthTS~vQi 189 (366)
.-...-..+.+.++++|.+.||+..+-|-+|. .+.+. .++. ++-.+-..| +.+ ..+..+-||.--|+--+
T Consensus 16 ~d~~~~~~i~~~~~~v~~~yGf~eI~TPifE~----telf~r~~Ge~--td~v~kemY~F~D-kggr~laLRpe~Tapv~ 88 (429)
T COG0124 16 EDMALREYIESTIRKVFESYGFSEIRTPIFEY----TELFARKSGEE--TDVVEKEMYTFKD-KGGRSLALRPELTAPVA 88 (429)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCEECCCCCCCC----HHHHHHCCCCC--CCCCCCCEEEEEE-CCCCEEEECCCCCHHHH
T ss_conf 77899999999999999980997655755111----66762016974--3333210289994-89988984466749999
Q ss_pred HHHHHC----CCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCC
Q ss_conf 554303----63122541057647454-4213781002005786178
Q gi|254780317|r 190 RVMESQ----DLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDS 231 (366)
Q Consensus 190 R~m~~~----~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~ 231 (366)
|+...| +.|+|.++.|.|||.|. -+-..-+|||+..=+++..
T Consensus 89 R~~~en~~~~~~p~k~yy~g~vfRyErPQ~GR~RqF~Q~g~E~iG~~ 135 (429)
T COG0124 89 RAVAENKLDLPKPLKLYYFGPVFRYERPQKGRYRQFYQFGVEVIGSD 135 (429)
T ss_pred HHHHHCCCCCCCCEEEEEECCEECCCCCCCCCCEEEEECCEEEECCC
T ss_conf 99995622036872599833562378888887503687676776799
No 49
>TIGR00472 pheT_bact phenylalanyl-tRNA synthetase, beta subunit; InterPro: IPR004532 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; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . 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 (see IPR002319 from INTERPRO). Reciprocally the large subunit (pheT gene) can be designated as alpha (E. coli) or beta. 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 . This family describes the beta subunit. The beta subunits break into two subfamilies that are considerably different in sequence, length, and pattern of gaps (see also IPR004531 from INTERPRO). This family represents the subfamily that includes the beta subunit from bacteria other than spirochetes, as well as a chloroplast-encoded form from Porphyra purpurea. The chloroplast-derived sequence is considerably shorter at the N-terminal.; GO: 0000166 nucleotide binding, 0004826 phenylalanine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006432 phenylalanyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=97.58 E-value=0.0026 Score=45.22 Aligned_cols=220 Identities=14% Similarity=0.244 Sum_probs=144.5
Q ss_pred CCCCCHHHH-HHH---HHHHHHHHCCC-EEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCC
Q ss_conf 674238999-999---99999987398-7623723415889888618988773316331277505666556322446763
Q gi|254780317|r 112 RGRIHPVTQ-VID---EVTCIFMDMGF-ALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSP 186 (366)
Q Consensus 112 ~G~~HPItq-vi~---eI~~IF~~lGF-~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~ 186 (366)
....|...+ ..+ ++++++..+|| ++.+..-+..+ +.+.+|.|..-+- .+-+-|.++-..+..+|||=..+
T Consensus 510 ~~~~~~~~~~~~~~~~~~~~~l~~~G~~E~itYsl~~~~--~~~~~~~~~~~~~---~~~~~i~NP~s~e~~~lR~sL~~ 584 (848)
T TIGR00472 510 KNNKNNENQLLLKFLKKLRKLLVGLGLNEVITYSLVSKE--KLEKFNFPKLENL---DELVEIKNPLSEERSVLRTSLLP 584 (848)
T ss_pred CCCCCCCHHHHHHHHHHHHHHHHHCCCCEEEEECCCCHH--HHHHHCCCCCCCC---HHEEEECCCCCHHHHHHHHHHHH
T ss_conf 244442045788999999999984898577730138879--9987168777861---01045158983547887664468
Q ss_pred HHHHHHHH----CCCEEEEEECCCCCCCCCC---CCCCCCCCCCCEE---EE-------------CCCCCHHHHHHHHHH
Q ss_conf 05555430----3631225410576474544---2137810020057---86-------------178668999889999
Q gi|254780317|r 187 VQIRVMES----QDLPIKVIVPGKTYRRDSD---STHSPMFHQIEGL---VV-------------SDSATIANLRWVLES 243 (366)
Q Consensus 187 vQiR~m~~----~~pP~~~~~~GrvyR~d~D---~tH~~~FhQ~egl---~v-------------~~~i~~~~lk~~l~~ 243 (366)
.=++++.. ..+-+++|=.|+||-++.+ + -.-.+-|-.-| +- ...++|.++||.++.
T Consensus 585 sLL~~~~~N~~r~~~~~~lFE~G~~f~~~~~AR~e-~~~~~~e~~~La~~~~G~~~~~~w~~~~~~~~~df~~~Kg~ve~ 663 (848)
T TIGR00472 585 SLLEVLAYNQNRKNKDVKLFEIGKVFAKDGKARGE-EDEAVKEQLRLAILISGEKEPSSWNSKKKEEKVDFYDLKGIVES 663 (848)
T ss_pred HHHHHHHHHHHCCCCCEEEEEEEEEECCCCCCCCC-HHHHHHHHHHHEEEEECCCCCCCCCCCCCCCCCCHHHHHHHHHH
T ss_conf 89999999986389715899887642688533575-01212344311002404456666600157665678899999999
Q ss_pred HHHHHCCCCCCEE-----EEEECCCCCCCCCCEEEEEEECCCCEEEECCCCC-EEEEECCCCCCHHHHHHCCCCCCCEEE
Q ss_conf 9999708886626-----4542388985266103678750588042246883-489845756388899856988000379
Q gi|254780317|r 244 FCKSFFEVSSLQM-----RFRPSFFPFTEPSFEVDVRCSFSDGIIKFDEGTE-WMEILGCGMVDPRVLRGVGIDPDIYQG 317 (366)
Q Consensus 244 ~~~~~fg~~~~~~-----r~rp~~fPftePs~Evdv~~~~~~~~~~~~~~~~-WiEi~g~Gm~~p~vl~~~g~d~~~~~g 317 (366)
++..+ |-.+... .+.-+-.+.=.|+.-.+|.. + =--||=-|.|||++++..+++.+.
T Consensus 664 ~L~~l-~~~~~~~~~~~~~~~~~~~~~~hP~~~a~i~~-------------~~~~~~G~iG~~hp~~~~~~~l~~~~--- 726 (848)
T TIGR00472 664 LLELL-GLSESAAYEVLDFKEAAENEELHPGQSAEIYL-------------KSGKLIGFIGEVHPEIAKEYDLKEPT--- 726 (848)
T ss_pred HHHHH-CCCCCCHHHHHHHHHHCCCCCCCCCCEEEEEE-------------ECCEEEEEEEEECHHHHHHHCCCCCE---
T ss_conf 99970-86555302222113330565568873279998-------------26828999998855899750798635---
Q ss_pred EEEECCHHHHHHHHCCCCCHHHHHHCCHHHHHHCCCCCC-CCCCCCCCCC
Q ss_conf 963134469979973897058766358888874489844-6884145889
Q gi|254780317|r 318 FAWGMGLDRIAMLKYGMPDVREFFGADVRWIEHYGFSPL-DIPPLFSRLA 366 (366)
Q Consensus 318 ~AfG~G~eRlaml~~gi~diR~~~~~d~rfl~qf~~~~~-~~~~~~~~~~ 366 (366)
|-|=+=++++.-. +...-||..+ |.|+ .+|.+.||||
T Consensus 727 ~~~El~l~~l~~~----------~~~~~~~~~~--~~~~s~~P~~~RDi~ 764 (848)
T TIGR00472 727 FVAELDLDRLLES----------LKKSRKLVPK--YRPISKFPAVTRDIS 764 (848)
T ss_pred EEEEEEHHHHHHH----------HHHHCCEEEE--EECCCCCCCCCCCEE
T ss_conf 9998727888865----------2242211456--532677885202288
No 50
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=97.49 E-value=0.0016 Score=46.76 Aligned_cols=112 Identities=13% Similarity=0.135 Sum_probs=77.7
Q ss_pred CCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCC--CCCCEEEEECCCCCCCCCCCCCCCCHHHHH
Q ss_conf 423899999999999987398762372341588988861898877331--633127750566655632244676305555
Q gi|254780317|r 114 RIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPAR--QMHDTFFVPGIAGGKHKLLRTHTSPVQIRV 191 (366)
Q Consensus 114 ~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPAR--dmqDTFyl~~~~~~~~~lLRthTS~vQiR~ 191 (366)
-..-...+.+.++++|.+-||+.++.|-+|. +|.|.- ...+.- -....|-+.+. .+..+.||.--|+-=+|+
T Consensus 17 e~~~~~~i~~~i~~~f~~~Gf~~I~TP~lE~----~e~~~~-~~g~~~d~i~k~~y~f~D~-~g~~l~LRpD~T~piaR~ 90 (424)
T CHL00201 17 EIEYWQFIHEKAATLLKLANYQEIRTPIFEN----TELFDR-GIGEETDIVNKEMYRFFDR-GNRSITLRPEGTASIVRA 90 (424)
T ss_pred HHHHHHHHHHHHHHHHHHCCCEEEECCCCCC----HHHHCC-CCCCCCHHHHHHHEEEECC-CCCEEEECCCCHHHHHHH
T ss_conf 9999999999999999985992504754041----988623-5787420566653254559-998888678770999999
Q ss_pred HHHC-----CCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCC
Q ss_conf 4303-----63122541057647454-4213781002005786178
Q gi|254780317|r 192 MESQ-----DLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDS 231 (366)
Q Consensus 192 m~~~-----~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~ 231 (366)
+..+ ..|+|....|.|||.|. ..-+.-+|+|+..=+|+..
T Consensus 91 ~~~~~~~~~~~P~r~~y~g~vfR~e~pq~GR~REF~Q~gvEiiG~~ 136 (424)
T CHL00201 91 FIENRMAYHMRPQRLWYSGPMFRYERPQSGRQRQFHQLGIEFIGSS 136 (424)
T ss_pred HHHCCCCCCCCCEEEEEECCEEECCCCCCCCCCHHHHCCEEEECCC
T ss_conf 9974765579987899875478058987886421041462000689
No 51
>PRK12293 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=97.44 E-value=0.0027 Score=45.06 Aligned_cols=123 Identities=10% Similarity=0.095 Sum_probs=83.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHH
Q ss_conf 12267423899999999999987398762372341588988861898877331633127750566655632244676305
Q gi|254780317|r 109 PCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQ 188 (366)
Q Consensus 109 ~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQ 188 (366)
.....-.+-...+.+.++++|.+-||+.+.-|-+|-. +.+- +-... +-|=+.+. .+..+.||+--|+-=
T Consensus 13 D~~p~~~~~~~~Ie~~~~~~f~~~Gy~eI~TP~~E~~----e~~~---~~~~k---emy~f~D~-~gr~l~LRPd~Ta~i 81 (281)
T PRK12293 13 LYFGKSAKLKRDIENVASEILYKEGFEEIVTPSFSYH----QHLS---VADEK---ELLRFSDE-KNHEISLRADSTVDV 81 (281)
T ss_pred CCCHHHHHHHHHHHHHHHHHHHHCCCEEEECCCEEEE----ECCC---CCCCC---EEEEEECC-CCCEEEECCCCCHHH
T ss_conf 6681999999999999999999859948537856864----4346---65630---17999879-998799778887899
Q ss_pred HHHHHH----CCCEEEEEECCCCCCCCCCCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHH
Q ss_conf 555430----363122541057647454421378100200578617866899988999999997
Q gi|254780317|r 189 IRVMES----QDLPIKVIVPGKTYRRDSDSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSF 248 (366)
Q Consensus 189 iR~m~~----~~pP~~~~~~GrvyR~d~D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~ 248 (366)
+|+..+ ..+|+|.+..|.|||.+. -+|||+-.=+|+.. +.+....+...+++.+
T Consensus 82 aR~v~~~l~~~~~p~rl~Y~g~vFRye~-----rEf~Q~GvEliG~~-s~~Evi~la~~~l~~l 139 (281)
T PRK12293 82 VRIITKRLGRSTEHKKWFYIQPVFRYPT-----TEIYQIGAEIIGES-DLSKVLNIAAEIFNEL 139 (281)
T ss_pred HHHHHHCCCCCCCCEEEEEECCEEECCC-----CCCEEECEEEECCC-CHHHHHHHHHHHHHHC
T ss_conf 9999965544689757998756353467-----77468474887799-9999999999999976
No 52
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=97.38 E-value=0.021 Score=38.61 Aligned_cols=186 Identities=16% Similarity=0.248 Sum_probs=111.6
Q ss_pred HHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHH------HH
Q ss_conf 999999999873987623723415889888618988773316331277505666556322446763055554------30
Q gi|254780317|r 121 VIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVM------ES 194 (366)
Q Consensus 121 vi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m------~~ 194 (366)
.++-..|...+-||+.+.-|.+-...--+..=..|+. ..|.|-+++ +++-| .-||-|.+-.| ..
T Consensus 176 Li~f~ld~~~~~Gy~~v~~P~lv~~~~~~gtGqlPkf-----e~~~Y~i~~----~dl~L-i~TAEvpL~~~~~~eil~~ 245 (422)
T PRK05431 176 LIQFMLDLHTEEGYTEVIPPYLVNEESMYGTGQLPKF-----EEDLFKIED----DDLYL-IPTAEVPLTNLHRDEILDE 245 (422)
T ss_pred HHHHHHHHHHHCCCEEEECHHHHHHHHHHHHCCCCCC-----HHHHHHHCC----CCEEE-ECCCCCCHHHHHHCCCCCH
T ss_conf 9999999999879979967376367887445379744-----877541058----87176-0565321233440113365
Q ss_pred CCCEEEEEECCCCCCCCC-----CC---CCCCCCCCCCEEEECCC-CC---HHHHHHHHHHHHHHHCCCCCCEEEEEECC
Q ss_conf 363122541057647454-----42---13781002005786178-66---89998899999999708886626454238
Q gi|254780317|r 195 QDLPIKVIVPGKTYRRDS-----DS---THSPMFHQIEGLVVSDS-AT---IANLRWVLESFCKSFFEVSSLQMRFRPSF 262 (366)
Q Consensus 195 ~~pP~~~~~~GrvyR~d~-----D~---tH~~~FhQ~egl~v~~~-i~---~~~lk~~l~~~~~~~fg~~~~~~r~rp~~ 262 (366)
.+.|+|+++.-.|||+|. |. -+.|+|+-||=+++-+- =| +..|...-+.+++.+ ++-||--.
T Consensus 246 ~~LPik~~~~S~CFR~EAGs~GkdtrGl~RvHQF~KVE~f~~~~pe~S~~~~e~~~~~~e~i~~~L------~lpyrvv~ 319 (422)
T PRK05431 246 EELPIKYTAYSPCFRSEAGSAGRDTRGLIRQHQFDKVELVKFTKPEDSYAELEELTGNAEEILQKL------ELPYRVVL 319 (422)
T ss_pred HHCCHHHEEECCHHHHCCCCCCCCCCCCEEEEEECEEEEEEECCHHHHHHHHHHHHHHHHHHHHHC------CCCCCCCC
T ss_conf 439844527883653031336755676124430000343353586779999999999999999875------98502356
Q ss_pred CCCCCC----CCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCC---CCCCEEEEEE-----ECCHHHHHH
Q ss_conf 898526----610367875058804224688348984575638889985698---8000379963-----134469979
Q gi|254780317|r 263 FPFTEP----SFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGI---DPDIYQGFAW-----GMGLDRIAM 329 (366)
Q Consensus 263 fPfteP----s~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~---d~~~~~g~Af-----G~G~eRlam 329 (366)
-|=-+= +--.|+.+|..+ ...|.||.-|....-=--+..+| |.+.-++|+. |+-+.|+..
T Consensus 320 ~~sgdlg~~a~~~yDiE~W~P~-------~~~y~EvsS~Snc~d~QsrRl~iry~~~~~~~~~~htlNgt~~A~~R~l~ 391 (422)
T PRK05431 320 LCTGDMGFSAAKTYDLEVWLPG-------QNTYREISSCSNCTDFQARRANIRYRDEDGKPELVHTLNGSGLAVGRTLV 391 (422)
T ss_pred CCCCCCCHHHHHHEEEEEEECC-------CCCEEEEEEECCCCHHHHHHCCCEEECCCCCEEEEEECCCCHHHHHHHHH
T ss_conf 7876557665654545787156-------68545240001501488753026551799986640431151218878999
No 53
>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=97.15 E-value=0.005 Score=43.16 Aligned_cols=199 Identities=16% Similarity=0.180 Sum_probs=109.1
Q ss_pred CCCCCCCC-CHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCC
Q ss_conf 21226742-38999999999999873987623723415889888618988773316331277505666556322446763
Q gi|254780317|r 108 SPCHRGRI-HPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSP 186 (366)
Q Consensus 108 ~~~~~G~~-HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~ 186 (366)
-....|.. .--...++-+.+...+-||+.+.-|.+-..--=..+=..|. ...|.|-+++ ++.-|.. |+-
T Consensus 44 f~~l~g~ga~Le~AL~~f~~d~~~~~Gy~eV~tP~iv~~~~~~~sG~~~~-----~~e~~y~i~~----~~~~Li~-tae 113 (297)
T cd00770 44 FYYLKGDGALLERALINFALDFLTKRGFTPVIPPFLVRKEVMEGTGQLPK-----FDEQLYKVEG----EDLYLIA-TAE 113 (297)
T ss_pred EEEECCHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCHHHHHHHHCCCCC-----CHHHHHCCCC----HHHHHHH-CCC
T ss_conf 79988889999999999999999987998998853013899854357876-----3565210355----0555544-056
Q ss_pred HHHHH------HHHCCCEEEEEECCCCCCCCCCC----C----CCCCCCCCCEEEECCCC----CHHHHHHHHHHHHHHH
Q ss_conf 05555------43036312254105764745442----1----37810020057861786----6899988999999997
Q gi|254780317|r 187 VQIRV------MESQDLPIKVIVPGKTYRRDSDS----T----HSPMFHQIEGLVVSDSA----TIANLRWVLESFCKSF 248 (366)
Q Consensus 187 vQiR~------m~~~~pP~~~~~~GrvyR~d~D~----t----H~~~FhQ~egl~v~~~i----~~~~lk~~l~~~~~~~ 248 (366)
+.+-. +...+.|+|+.+.|+|||+|..+ + +.++|+|+|.+++-+.= -+..+....+.+++.+
T Consensus 114 ~~l~~~~~~~~~~~~dLPlr~~~~s~cfR~Eags~G~d~~GL~RvhqF~kvE~~~~c~pe~s~~~~e~~~~~~e~~l~~L 193 (297)
T cd00770 114 VPLAALHRDEILEEEELPLKYAGYSPCFRKEAGSAGRDTRGLFRVHQFEKVEQFVFTKPEESWEELEELISNAEEILQEL 193 (297)
T ss_pred CCEEEEEEEEECCHHHCCCCEEECCCHHHHCCCCCCCCCCCEEEEEECCEEEEEEECCHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 66223442003177558865022463413203777755554578872110037761687889999999999999999981
Q ss_pred CCCCCCEEEEEECCC-----CCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCC---CC--CC----
Q ss_conf 088866264542388-----98526610367875058804224688348984575638889985698---80--00----
Q gi|254780317|r 249 FEVSSLQMRFRPSFF-----PFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGI---DP--DI---- 314 (366)
Q Consensus 249 fg~~~~~~r~rp~~f-----PftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~---d~--~~---- 314 (366)
| +-||--.- .+. -+-..||..|..+ .+.|.||.-|-...-=--+-.+| |. .+
T Consensus 194 -~-----lpyrvv~~~tgdlg~~-a~~~~DiE~W~P~-------~~~y~EvsS~Snc~DfQarRl~iry~~~~~~~~~~~ 259 (297)
T cd00770 194 -G-----LPYRVVNICTGDLGFA-AAKKYDIEAWMPG-------QGKYREISSCSNCTDFQARRLNIRYRDKKDGKKQYV 259 (297)
T ss_pred -C-----CCEEEECCCCCCCCCC-HHHEEEEEEEEHH-------HCCEEEEEECCCCHHHHHHHCCCEEECCCCCCEEEE
T ss_conf -5-----5014501246555732-2220765631054-------197688613154000666523677734899952654
Q ss_pred EEEEEEECCHHHHHHH
Q ss_conf 3799631344699799
Q gi|254780317|r 315 YQGFAWGMGLDRIAML 330 (366)
Q Consensus 315 ~~g~AfG~G~eRlaml 330 (366)
++--+=++.++|+.-.
T Consensus 260 htlngt~~A~~R~l~a 275 (297)
T cd00770 260 HTLNGTALATPRTIVA 275 (297)
T ss_pred EEECCCCCHHHHHHHH
T ss_conf 8813632088889999
No 54
>COG2269 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=97.14 E-value=0.0031 Score=44.69 Aligned_cols=103 Identities=22% Similarity=0.266 Sum_probs=69.1
Q ss_pred HHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHH--HHHHH
Q ss_conf 8999999999999873987623723415889888618988773316331277505666556322446763055--55430
Q gi|254780317|r 117 PVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQI--RVMES 194 (366)
Q Consensus 117 PItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQi--R~m~~ 194 (366)
-=.+++.+|+.+|..-||..+|-|-.-. .|-.-+-=...-|=|+.+..+ +...|--||||--. |.+..
T Consensus 18 ~Ra~i~~~iR~FF~erg~lEVeTp~Ls~---------a~vtd~hL~~F~Te~~~~~~~-~~~~l~L~TSPEy~mKrLLAa 87 (322)
T COG2269 18 KRAAIIAAIRRFFAERGVLEVETPALSV---------APVTDIHLHPFETEFLGPGGA-KGKPLWLHTSPEYHMKRLLAA 87 (322)
T ss_pred HHHHHHHHHHHHHHHCCCEEECCHHHHC---------CCCCCCCEEEEEEEEECCCCC-CCCEEEEECCCHHHHHHHHHC
T ss_conf 8999999999999876925853367650---------789864234456676546766-653036656807778999975
Q ss_pred CCCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCC
Q ss_conf 363122541057647454-4213781002005786178
Q gi|254780317|r 195 QDLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDS 231 (366)
Q Consensus 195 ~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~ 231 (366)
.. -+++++|+||||.+ -+.|-|+|+-+|=--|+.+
T Consensus 88 g~--~~ifql~kvfRN~E~G~~H~PEFTMLEWYrv~~d 123 (322)
T COG2269 88 GS--GPIFQLGKVFRNEEMGRLHNPEFTMLEWYRVGCD 123 (322)
T ss_pred CC--CCCHHHHHHHHCCCCCCCCCCCEEEEEEECCCCC
T ss_conf 48--8601454777263325667984367651006785
No 55
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=97.08 E-value=0.0016 Score=46.65 Aligned_cols=136 Identities=18% Similarity=0.227 Sum_probs=74.4
Q ss_pred CCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHH
Q ss_conf 42389999999999998739876237234158898886189887733163312775056665563224467630555543
Q gi|254780317|r 114 RIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVME 193 (366)
Q Consensus 114 ~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m~ 193 (366)
...--++++..|+.+|-.-||-.+|.|-..+-.=-=.|.=+--+|=|=|+ .+-||--+-=.==|.+
T Consensus 179 ~f~~Rs~ii~~iR~fl~~~gFlEVETP~lq~i~GGA~ArPF~ThhNald~-------------dlyLRIApELyLKRli- 244 (502)
T COG1190 179 TFIKRSKIIRAIREFLDDRGFLEVETPMLQPIPGGAAARPFITHHNALDM-------------DLYLRIAPELYLKRLI- 244 (502)
T ss_pred HHHHHHHHHHHHHHHHHHCCCEEECCCCCCCCCCCCCCCCCEEEECCCCC-------------CEEEEECCHHHHHHHH-
T ss_conf 99999999999999998779758416000355787322650122023677-------------5687624189999887-
Q ss_pred HCCCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEE--ECCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCC
Q ss_conf 0363122541057647454-421378100200578--617866899988999999997088866264542388985
Q gi|254780317|r 194 SQDLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLV--VSDSATIANLRWVLESFCKSFFEVSSLQMRFRPSFFPFT 266 (366)
Q Consensus 194 ~~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~--v~~~i~~~~lk~~l~~~~~~~fg~~~~~~r~rp~~fPft 266 (366)
-... =||+-+||+|||+- |.||.|+|.-+|.-. .|.+--|.--.+.+..+++.+.| +.++-+...-+-|.
T Consensus 245 VGG~-erVfEIgr~FRNEGid~tHNPEFTmlE~Y~AYaDy~D~m~ltE~Li~~~a~~v~g--t~~v~y~~~~id~~ 317 (502)
T COG1190 245 VGGF-ERVFEIGRNFRNEGIDTTHNPEFTMLEFYQAYADYEDLMDLTEELIKELAKEVNG--TTKVTYGGQEIDFS 317 (502)
T ss_pred HCCC-HHHEEECCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCC--CEEEEECCEEEECC
T ss_conf 5372-1422305520037876664842356899999857999999999999999999549--73787899767548
No 56
>TIGR00459 aspS_bact aspartyl-tRNA synthetase; InterPro: IPR004524 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; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Aspartyl tRNA synthetase 6.1.1.12 from EC is an alpha2 dimer that belongs to class IIb. Structural analysis combined with mutagenesis and enzymology data on the yeast enzyme point to a tRNA binding process that starts by a recognition event between the tRNA anticodon loop and the synthetase anticodon binding module . This family 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). ; GO: 0000166 nucleotide binding, 0004815 aspartate-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006422 aspartyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=96.84 E-value=0.00058 Score=49.94 Aligned_cols=89 Identities=28% Similarity=0.405 Sum_probs=37.6
Q ss_pred HCCCCCCEEEEEECCCCCCCCCCEEEEEEECCCCEEEECCC----CCEEEEECCCC------CCHHHHH-HCCCCCCC--
Q ss_conf 70888662645423889852661036787505880422468----83489845756------3888998-56988000--
Q gi|254780317|r 248 FFEVSSLQMRFRPSFFPFTEPSFEVDVRCSFSDGIIKFDEG----TEWMEILGCGM------VDPRVLR-GVGIDPDI-- 314 (366)
Q Consensus 248 ~fg~~~~~~r~rp~~fPftePs~Evdv~~~~~~~~~~~~~~----~~WiEi~g~Gm------~~p~vl~-~~g~d~~~-- 314 (366)
+|+.+.-+-||-....|||.|--+=-.........|..... +| .||||.-+ |=-.|++ ..||||+.
T Consensus 496 ~fE~d~~E~~~~a~HHpFT~Pk~~~~~~lE~~p~~a~a~aYDlVlNG-~ElGGGSiRIh~~~~Q~~~F~d~Lgid~eea~ 574 (653)
T TIGR00459 496 LFEKDEEEGRLVAAHHPFTMPKPEDLEDLETAPEEALAEAYDLVLNG-VELGGGSIRIHDPEVQEKVFEDILGIDPEEAR 574 (653)
T ss_pred CCCCCCCCCCEEEECCCCCCCCCCCHHHHHCCHHHHHHHCCCEEEEE-EEECCCEEEECCHHHHHHHHHHHHCCCHHHHH
T ss_conf 56677652755840578898751227877407455412028768830-69887104642878999999876288989987
Q ss_pred ----------------EEEEEEECCHHHHHHHHCCCCCHHH
Q ss_conf ----------------3799631344699799738970587
Q gi|254780317|r 315 ----------------YQGFAWGMGLDRIAMLKYGMPDVRE 339 (366)
Q Consensus 315 ----------------~~g~AfG~G~eRlaml~~gi~diR~ 339 (366)
.-| ||+|+|||.||.-+-+.||+
T Consensus 575 EkFGFLLeA~~yGaPPHgG--~A~GlDRL~Mll~~~~nIRD 613 (653)
T TIGR00459 575 EKFGFLLEAFKYGAPPHGG--LALGLDRLVMLLTGTDNIRD 613 (653)
T ss_pred HHHHHHHHHHHCCCCCCHH--HHHHHHHHHHHHCCCCCCCE
T ss_conf 7635687587357685101--55558999999808997220
No 57
>TIGR00462 genX lysyl-tRNA synthetase homolog GenX; InterPro: IPR004525 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; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . This entry represents lysyl-tRNA synthetases from bacteria, as well as other related proteins. Escherichia coli, Haemophilus influenzae, and Aquifex aeolicus each 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, so they appear to be orthologous. The protein is termed PoxA or GenX after its designation in E. coli. Its function is unknown.; GO: 0000166 nucleotide binding, 0004824 lysine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006430 lysyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=96.72 E-value=0.0079 Score=41.66 Aligned_cols=204 Identities=21% Similarity=0.367 Sum_probs=118.7
Q ss_pred HHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHH-H-HHHHHC
Q ss_conf 99999999999987398762372341588988861898877331633127750566655632244676305-5-554303
Q gi|254780317|r 118 VTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQ-I-RVMESQ 195 (366)
Q Consensus 118 Itqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQ-i-R~m~~~ 195 (366)
-..++.+|+.+|.+-|+..++.| +=+++-|-|.=-.| -.|=++.+.. +.+..+=-||||=- . |.|...
T Consensus 24 Ra~~i~~iR~FF~e~G~~EV~TP-~l~~~~~~D~~l~p--------~~~~~l~~g~-~~~~~~WL~TSPEY~MK~LL~~~ 93 (330)
T TIGR00462 24 RAKIIAEIRKFFKERGLLEVETP-LLSDFPVTDLHLEP--------FKTEFLEPGG-EQNKVLWLSTSPEYHMKRLLSAG 93 (330)
T ss_pred HHHHHHHHHHHHHHCCCEEECCC-CHHCCCCCCEEEEE--------EEEEEECCCC-CCCCEECCCCCCCHHHHHHHHHC
T ss_conf 99999999998861784253263-01015644302213--------6888842665-33331211458727899998621
Q ss_pred CCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHCCCC----------------------
Q ss_conf 63122541057647454-4213781002005786178668999889999999970888----------------------
Q gi|254780317|r 196 DLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSFFEVS---------------------- 252 (366)
Q Consensus 196 ~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~fg~~---------------------- 252 (366)
+-| ||-+-|||||++ -..|-|+||=+|=--++-+ +--|.--++.++..+|+.+
T Consensus 94 ~~~--iFQi~k~FRN~E~G~~H~~EF~MLEWY~~~~d--~~~Li~E~~~LL~~~ld~~~~E~l~~~~~F~~y~g~d~l~~ 169 (330)
T TIGR00462 94 KGP--IFQITKVFRNEEAGRLHNPEFTMLEWYRPHYD--MLRLINEVDDLLQQLLDCPEAESLSYQEAFKRYLGLDPLSA 169 (330)
T ss_pred CCC--EEEEEEHHHHCCCCCCCCCCCCHHHHHHHHHH--HHHHHHHHHHHHHHHHCCCCCCEECHHHHHHHHHCCCCCCH
T ss_conf 786--23100001000246757753100111211023--89999999999999728863000018999999844798730
Q ss_pred ----------------------------------CCE--EE-EEECC---CCCCCCCC-EEEEE---E-----ECCCCEE
Q ss_conf ----------------------------------662--64-54238---89852661-03678---7-----5058804
Q gi|254780317|r 253 ----------------------------------SLQ--MR-FRPSF---FPFTEPSF-EVDVR---C-----SFSDGII 283 (366)
Q Consensus 253 ----------------------------------~~~--~r-~rp~~---fPftePs~-Evdv~---~-----~~~~~~~ 283 (366)
.|+ += =||.+ ||=+.-|. .|--. + ..-.|
T Consensus 170 e~s~l~E~~~k~~~~~~~~~~ED~~TLl~~~F~~~VE~~~G~~rP~~~~~FP~~~aaLA~v~~eD~~~AERFE~y~KG-- 247 (330)
T TIGR00462 170 EKSELKELAEKKDLDNVAEEDEDRDTLLQLLFIEVVEPQIGKERPTFVYHFPERQAALAQVSTEDNRVAERFELYYKG-- 247 (330)
T ss_pred HHHHHHHHHHHCCCHHHHCCCCCHHHHHHHHHHHHHHHCCCCCCCEEEEECCHHHHHHHCCCCCCCCCCHHEEHHHHH--
T ss_conf 257899999854732332034447999999998764010377787578807045555520451336320010010010--
Q ss_pred EECCCCCEEEEECCCCC---------------------CHHHHHHCCC-CCCCEEEEEEECCHHHHHHHHCCCCCHHHHH
Q ss_conf 22468834898457563---------------------8889985698-8000379963134469979973897058766
Q gi|254780317|r 284 KFDEGTEWMEILGCGMV---------------------DPRVLRGVGI-DPDIYQGFAWGMGLDRIAMLKYGMPDVREFF 341 (366)
Q Consensus 284 ~~~~~~~WiEi~g~Gm~---------------------~p~vl~~~g~-d~~~~~g~AfG~G~eRlaml~~gi~diR~~~ 341 (366)
+-=-+||-|...+-=+ +.+.+++.-. =|+ -+|.| +|||||.||..|...|-.-+
T Consensus 248 -iELANGf~E~t~a~E~r~R~E~~~~kR~~~~~P~~~~D~~~i~A~~~GMP~-csGva--LGiDRL~~l~Lg~E~l~~~~ 323 (330)
T TIGR00462 248 -IELANGFHELTDAEEQRKRFERDNKKRAKRELPTLPIDEDFIKALEDGMPD-CSGVA--LGIDRLVMLALGKEELVEVI 323 (330)
T ss_pred -HHHCCCCCCCCCHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHCCCCC-CCCHH--HHHHHHHHHHHCCHHHHHHH
T ss_conf -000277532258488998876887778862589851459999998547874-14402--55789999870732688899
No 58
>COG0173 AspS Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=96.64 E-value=0.0035 Score=44.26 Aligned_cols=87 Identities=29% Similarity=0.376 Sum_probs=53.4
Q ss_pred CCCCCCEEEEEECCCCCCCCCCEEEEEEE----CCCCE--EEECCCCCEEEEECCCC--CC----HHHHHHCCCCCCC--
Q ss_conf 08886626454238898526610367875----05880--42246883489845756--38----8899856988000--
Q gi|254780317|r 249 FEVSSLQMRFRPSFFPFTEPSFEVDVRCS----FSDGI--IKFDEGTEWMEILGCGM--VD----PRVLRGVGIDPDI-- 314 (366)
Q Consensus 249 fg~~~~~~r~rp~~fPftePs~Evdv~~~----~~~~~--~~~~~~~~WiEi~g~Gm--~~----p~vl~~~g~d~~~-- 314 (366)
|+.++-+-||-+...|||-|--|...... .|.+. --||- | .||+|..+ -+ -.|++..|++++.
T Consensus 434 fE~~ee~~~~~a~HHPFT~P~~~~~~~l~~~p~~~~a~aYDlVlN--G-~ElggGSiRIh~~eiQ~~vF~~lg~~~eea~ 510 (585)
T COG0173 434 FEWDEEEGRYVAAHHPFTMPKPEDLELLEADPESVRARAYDLVLN--G-YELGGGSIRIHDPEIQEKVFEILGISPEEAE 510 (585)
T ss_pred CCCCCCCCCEECCCCCCCCCCCCCHHHHHCCHHHHHHHHCCEEEC--C-EEECCCEEEECCHHHHHHHHHHCCCCHHHHH
T ss_conf 677534586740448878998442445416977764532567760--2-7513543640788999999998199989999
Q ss_pred ----------------EEEEEEECCHHHHHHHHCCCCCHHHH
Q ss_conf ----------------37996313446997997389705876
Q gi|254780317|r 315 ----------------YQGFAWGMGLDRIAMLKYGMPDVREF 340 (366)
Q Consensus 315 ----------------~~g~AfG~G~eRlaml~~gi~diR~~ 340 (366)
.-|+|| |+|||+||.-|-+.||+-
T Consensus 511 ekFGFll~Af~yGaPPHgGiA~--GlDRlvmll~g~~sIReV 550 (585)
T COG0173 511 EKFGFLLEAFKYGAPPHGGIAF--GLDRLVMLLTGAESIRDV 550 (585)
T ss_pred HHHHHHHHHHHCCCCCCCCEEC--CHHHHHHHHCCCCCHHHE
T ss_conf 8877899997658999762424--599999998289744421
No 59
>KOG1936 consensus
Probab=96.50 E-value=0.045 Score=36.15 Aligned_cols=126 Identities=14% Similarity=0.106 Sum_probs=81.7
Q ss_pred HHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCC
Q ss_conf 43100000112321226742389999999999998739876237234158898886189887733163312775056665
Q gi|254780317|r 96 SQSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGG 175 (366)
Q Consensus 96 ~E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~ 175 (366)
..++++..|-=.+...+-.---=..+.+.|..+|...|.+..+-|--|.. .+.+-++- +..+-.|==..+.+
T Consensus 55 ~~k~~lKtPKGTrD~~p~qm~lRe~if~~i~~vFkrhGa~~iDTPVFElk-----eiL~gKYG---EdskLiYdlkDQGG 126 (518)
T KOG1936 55 KKKFSLKTPKGTRDFSPEQMALREKIFSTIKEVFKRHGAETIDTPVFELK-----EILTGKYG---EDSKLIYDLKDQGG 126 (518)
T ss_pred CCCEEECCCCCCCCCCHHHHHHHHHHHHHHHHHHHHCCCEECCCCCHHHH-----HHHHHHCC---CCCCEEEEHHHCCC
T ss_conf 76232069998776888888999999999999999719744466004599-----99866405---53230675232488
Q ss_pred CCCCCCCCCCCHHHHHHHHCC-CEEEEEECCCCCCCCC-C--CCCCCCCCCCCEEEEC
Q ss_conf 563224467630555543036-3122541057647454-4--2137810020057861
Q gi|254780317|r 176 KHKLLRTHTSPVQIRVMESQD-LPIKVIVPGKTYRRDS-D--STHSPMFHQIEGLVVS 229 (366)
Q Consensus 176 ~~~lLRthTS~vQiR~m~~~~-pP~~~~~~GrvyR~d~-D--~tH~~~FhQ~egl~v~ 229 (366)
+-.-||---|.--+|++..|+ --++-.-+++|||||. - .-++-+|.|.+.=+++
T Consensus 127 El~SLRYDLTVPfARylAmNki~sikRy~iAkVyRRd~P~mtrGR~REFYQcDFDIAG 184 (518)
T KOG1936 127 ELCSLRYDLTVPFARYLAMNKITSIKRYHIAKVYRRDQPAMTRGRYREFYQCDFDIAG 184 (518)
T ss_pred CEEEEECCCCCHHHHHHHHCCCCCCEEEEEEEEEECCCCHHHCHHHHHHHCCCCCCCC
T ss_conf 5887413566479999987145521104678787506814423024556506752126
No 60
>KOG1035 consensus
Probab=96.00 E-value=0.19 Score=31.57 Aligned_cols=210 Identities=17% Similarity=0.146 Sum_probs=116.3
Q ss_pred HHHHHHHCCCCHHHHHHHHHHHHH---------HHHHHHHHHHHHHHHHHHHHHHHHHHH-------HHCCCCCCCCCCC
Q ss_conf 999876158998899999999999---------999999999999999985676667654-------3100000112321
Q gi|254780317|r 46 SSLLKDLKNLDSQQVSARGAILNQ---------LKVDISGKISARKDFIRNQLIFEQISS-------QSVDVSLPVFSSP 109 (366)
Q Consensus 46 t~llK~Lk~Ls~EeKk~~Gk~iNe---------lK~~Ie~~i~~kk~~L~~~~~~~kl~~-------E~iDVTLP~~~~~ 109 (366)
..+...|=+=++.+||.+-+++|. +....+-.+.+..........+..+.. ...|.+.-. -..
T Consensus 848 ~slI~~Ll~hdP~kRPtA~eLL~s~llppe~~el~~~~~h~~~~~~~k~~~~~~~~~~~q~~~~~~n~~yd~~~~~-~~~ 926 (1351)
T KOG1035 848 ASLIRWLLSHDPSKRPTATELLNSELLPPEESELLVFLQHLYIEQLGKAYKNLLQLIFEQEVLEVLNHQYDLDRLS-YIQ 926 (1351)
T ss_pred HHHHHHHHCCCCCCCCCHHHHHHCCCCCCCCHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHCCCCCCCCCC-CCC
T ss_conf 9999998458975597889996245789541279999999999888998755556778875266524543466423-212
Q ss_pred CCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCC-CCHH
Q ss_conf 226742389999999999998739876237234158898886189887733163312775056665563224467-6305
Q gi|254780317|r 110 CHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHT-SPVQ 188 (366)
Q Consensus 110 ~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthT-S~vQ 188 (366)
...-.---...|.++++.||..-|+...+.| |-+-..++-|... +...|=||. ..|+
T Consensus 927 ~~~~~~~l~~~v~e~~~~ifr~Hga~~l~tp------------------p~~~~~~~~~~~~----~~v~~ld~sG~~v~ 984 (1351)
T KOG1035 927 YTEINNELREYVVEEVVKIFRKHGAIELETP------------------PLSLRNACAYFSR----KAVELLDHSGDVVE 984 (1351)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHCCEECCCC------------------CCCCCCCCCHHCC----CEEEEECCCCCEEE
T ss_conf 1145789999999999999998243021678------------------6553345420015----40354427997899
Q ss_pred ---------HHHHHHCC-CEEEEEECCCCCCCCCCCCCCCCCCCCCEEEECCCCCH--HHHHHHHHHHHHHHCCCCCCEE
Q ss_conf ---------55543036-31225410576474544213781002005786178668--9998899999999708886626
Q gi|254780317|r 189 ---------IRVMESQD-LPIKVIVPGKTYRRDSDSTHSPMFHQIEGLVVSDSATI--ANLRWVLESFCKSFFEVSSLQM 256 (366)
Q Consensus 189 ---------iR~m~~~~-pP~~~~~~GrvyR~d~D~tH~~~FhQ~egl~v~~~i~~--~~lk~~l~~~~~~~fg~~~~~~ 256 (366)
+|+.-.|. --+|=+|++||||+..+. |-.++-+++.=+|+...++ |.+..++..++.+.|...+..
T Consensus 985 Lp~DLr~pfar~vs~N~~~~~Kry~i~rVyr~~~~~-hP~~~~ec~fDii~~t~sl~~AE~L~vi~Ei~~~~l~~~n~~- 1062 (1351)
T KOG1035 985 LPYDLRLPFARYVSRNSVLSFKRYCISRVYRPAIHN-HPKECLECDFDIIGPTTSLTEAELLKVIVEITTEILHEGNCD- 1062 (1351)
T ss_pred EECCCCCHHHHHHHHCHHHHHHHHHHHEEECCCCCC-CCCCCCCEEEEEECCCCCCCHHHHHHHHHHHHHHHHCCCCEE-
T ss_conf 630012467788660528887776232034463458-984010015667558777407899999999999986057536-
Q ss_pred EEEECCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCCCCCCEE
Q ss_conf 454238898526610367875058804224688348984575638889985698800037
Q gi|254780317|r 257 RFRPSFFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGIDPDIYQ 316 (366)
Q Consensus 257 r~rp~~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~~~ 316 (366)
=.++-++.=-.++..|||+.+++.
T Consensus 1063 ------------------------------------i~lnH~~LL~Ai~~~~~i~~~~r~ 1086 (1351)
T KOG1035 1063 ------------------------------------IHLNHADLLEAILSHCGIPKDQRR 1086 (1351)
T ss_pred ------------------------------------EEECHHHHHHHHHHHCCCCHHHHH
T ss_conf ------------------------------------995769999999997499888999
No 61
>COG0423 GRS1 Glycyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=95.94 E-value=0.02 Score=38.80 Aligned_cols=112 Identities=22% Similarity=0.284 Sum_probs=66.5
Q ss_pred CCCCCCCCCCCHHH----HHHH--HCCCEEEEEECCCCCCCC-C---CCCCCCCCCCCCEE-EECCCC------------
Q ss_conf 56322446763055----5543--036312254105764745-4---42137810020057-861786------------
Q gi|254780317|r 176 KHKLLRTHTSPVQI----RVME--SQDLPIKVIVPGKTYRRD-S---DSTHSPMFHQIEGL-VVSDSA------------ 232 (366)
Q Consensus 176 ~~~lLRthTS~vQi----R~m~--~~~pP~~~~~~GrvyR~d-~---D~tH~~~FhQ~egl-~v~~~i------------ 232 (366)
...-||.-|--.+- |.++ +++.|+-+..+||.|||+ + ---.+-+|.|+|-= -|+.+-
T Consensus 159 ~~~YLRPETAQGiFvnFk~l~~~~r~klPFgiaQIGKsfRNEISPr~gl~R~REF~QaEiE~Fv~P~~k~~p~f~~v~~~ 238 (558)
T COG0423 159 SLGYLRPETAQGIFVNFKNLLEFARNKLPFGIAQIGKSFRNEISPRNGLFRTREFEQAEIEFFVDPEEKEHPKFNEVKDE 238 (558)
T ss_pred CCEEECCCCCCHHHHHHHHHHHHHCCCCCEEEEEECHHHCCCCCCCCCEEEHHHHHHHEEEEEECCCCCCCCCHHHHHHH
T ss_conf 63245651002121536999997536898488862310146527665366512343120135887775568633333210
Q ss_pred ---------------------------CHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCC----CEEEEEEECCCC
Q ss_conf ---------------------------6899988999999997088866264542388985266----103678750588
Q gi|254780317|r 233 ---------------------------TIANLRWVLESFCKSFFEVSSLQMRFRPSFFPFTEPS----FEVDVRCSFSDG 281 (366)
Q Consensus 233 ---------------------------~~~~lk~~l~~~~~~~fg~~~~~~r~rp~~fPftePs----~Evdv~~~~~~~ 281 (366)
+++=.......|+..+ |.+.-++|||-+ +=.|-+ --.|+...
T Consensus 239 ~l~l~~~~~q~~~~~~EAv~~g~~~n~~~~y~~~~~~~fl~~l-GI~~e~lRfrqh--~~~E~AHYa~~twD~E~~---- 311 (558)
T COG0423 239 KLPLLPREAQEEGTEEEAVEEGIVENETLAYFIARTKFFLEDL-GIDPEKLRFRQH--LPEELAHYSKDTWDAEYK---- 311 (558)
T ss_pred HCCCCCHHHHHHHHHHHHHHCCEECCHHHHHHHHHHHHHHHHH-CCCHHHHHHHHC--CHHHHHHHHHCCEEEEEE----
T ss_conf 0246647776410034554415450443899999999999980-999898066523--908776654402327996----
Q ss_pred EEEECCCCCEEEEECCC
Q ss_conf 04224688348984575
Q gi|254780317|r 282 IIKFDEGTEWMEILGCG 298 (366)
Q Consensus 282 ~~~~~~~~~WiEi~g~G 298 (366)
....||+|+-||-
T Consensus 312 ----~~~~gWiE~~GiA 324 (558)
T COG0423 312 ----FPFGGWIELVGIA 324 (558)
T ss_pred ----CCCCCEEEEEEEE
T ss_conf ----3788669999861
No 62
>TIGR00389 glyS_dimeric glycyl-tRNA synthetase; InterPro: IPR002315 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; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . In eubacteria, glycyl-tRNA synthetase (6.1.1.14 from EC) is an alpha2/beta2 tetramer composed of 2 different subunits , , . In some eubacteria, in archaea and eukaryota, glycyl-tRNA synthetase is an alpha2 dimer, this family. It belongs to class IIc and is one of the most complex synthetases. What is most interesting is the lack of similarity between the two types: divergence at the sequence level is so great that it is impossible to infer descent from common genes. The alpha (see IPR002310 from INTERPRO) and beta subunits (see IPR002311 from INTERPRO) also lack significant sequence similarity. However, they are translated from a single mRNA , and a single chain glycyl-tRNA synthetase from Chlamydia trachomatis has been found to have significant similarity with both domains, suggesting divergence from a single polypeptide chain . The sequence and crystal structure of the homodimeric glycyl-tRNA synthetase from Thermus thermophilus, shows that each monomer consists of an active site strongly resembling that of the aspartyl and seryl enzymes, a C-terminal anticodon recognition domain of 100 residues and a third domain unusually inserted between motifs 1 and 2 almost certainly interacting with the acceptor arm of tRNA(Gly). The C-terminal domain has a novel five-stranded parallel-antiparallel beta-sheet structure with three surrounding helices. The active site residues most probably responsible for substrate recognition, in particular in the Gly binding pocket, can be identified by inference from aspartyl-tRNA synthetase due to the conserved nature of the class II active site , .; GO: 0000166 nucleotide binding, 0004820 glycine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006426 glycyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=95.75 E-value=0.0089 Score=41.31 Aligned_cols=116 Identities=23% Similarity=0.335 Sum_probs=67.5
Q ss_pred CCCCCCCCCCCHHH----HHHH--HCCCEEEEEECCCCCCCC-C---CCCCCCCCCCCCEE-------------------
Q ss_conf 56322446763055----5543--036312254105764745-4---42137810020057-------------------
Q gi|254780317|r 176 KHKLLRTHTSPVQI----RVME--SQDLPIKVIVPGKTYRRD-S---DSTHSPMFHQIEGL------------------- 226 (366)
Q Consensus 176 ~~~lLRthTS~vQi----R~m~--~~~pP~~~~~~GrvyR~d-~---D~tH~~~FhQ~egl------------------- 226 (366)
...=||.=|-=.|= |.++ +++-|+-+.++||-|||| + =--...+|.|.|-=
T Consensus 183 ~~gYLRPETAQG~FinFk~LL~~~r~klPFgvAQiGKSfRNEIsPr~gl~R~REF~QaE~E~FV~P~~k~h~~F~~~~~~ 262 (606)
T TIGR00389 183 RKGYLRPETAQGIFINFKRLLQFFRNKLPFGVAQIGKSFRNEISPRQGLIRLREFEQAEIEFFVDPEDKSHPKFEEVKQE 262 (606)
T ss_pred CEEECCCHHCCCCCHHHHHHHHHHCCCCCEEEEEECCEEECCCCCCCCEEEECHHHHHHHHHCCCCCCCCCCCHHHHHHC
T ss_conf 22414760104751216899997458996489974413604003898757103154466874259600167200145405
Q ss_pred ---------------------------EECCCC----CHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCEEEEE
Q ss_conf ---------------------------861786----6899988999999997088866264542388985266103678
Q gi|254780317|r 227 ---------------------------VVSDSA----TIANLRWVLESFCKSFFEVSSLQMRFRPSFFPFTEPSFEVDVR 275 (366)
Q Consensus 227 ---------------------------~v~~~i----~~~~lk~~l~~~~~~~fg~~~~~~r~rp~~fPftePs~Evdv~ 275 (366)
.|.++| +++=-.+....|+-.+--.+.-++|||-+- +.|+-=+
T Consensus 263 ~~~Llp~~R~~~E~g~~~~~v~~t~gEAVe~G~i~ne~L~YFia~~~~FL~~igkI~~dklRFrqH~------~~E~AHY 336 (606)
T TIGR00389 263 VVPLLPAERQMQESGESEKPVKMTIGEAVEKGIIENETLAYFIALVKRFLLEIGKINPDKLRFRQHL------KNEMAHY 336 (606)
T ss_pred CCCCCCCCCCCHHCCCCCCHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHCCCCHHHHHHHHCC------CHHHHHH
T ss_conf 0013676454000157640544417888634652100689999999999986527887885233136------0045565
Q ss_pred EECC-CCEEEECCCCCEEEEECCC
Q ss_conf 7505-8804224688348984575
Q gi|254780317|r 276 CSFS-DGIIKFDEGTEWMEILGCG 298 (366)
Q Consensus 276 ~~~~-~~~~~~~~~~~WiEi~g~G 298 (366)
...| ++..... .=||+|+-||-
T Consensus 337 A~dcwD~E~~t~-~yGwiE~~GiA 359 (606)
T TIGR00389 337 AKDCWDAEILTS-RYGWIEVVGIA 359 (606)
T ss_pred HHHHEEEEEECC-CCCCEEEEEEE
T ss_conf 553623556657-98738998740
No 63
>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=95.50 E-value=0.18 Score=31.76 Aligned_cols=136 Identities=15% Similarity=0.153 Sum_probs=86.9
Q ss_pred CCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHH
Q ss_conf 23899999999999987398762372341588988861898877331633127750566655632244676305555430
Q gi|254780317|r 115 IHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVMES 194 (366)
Q Consensus 115 ~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m~~ 194 (366)
......+.+-+++.....||+.+..|.|-+. .|----.|=..-.-|-|.++. .++...||.=+-|.++-...+
T Consensus 30 ~~i~~~L~~~ir~~~~~~Gy~eV~tP~i~~~-----~Lw~~SGH~~~y~e~mf~~~~--~~~~~~LkPmnCp~h~~i~~~ 102 (298)
T cd00771 30 AIIRNELEDFLRELQRKRGYQEVETPIIYNK-----ELWETSGHWDHYRENMFPFEE--EDEEYGLKPMNCPGHCLIFKS 102 (298)
T ss_pred HHHHHHHHHHHHHHHHHCCCEEEECCCCCCH-----HHHHHCCCCCCCCCCEEEEEE--CCCCEEEECCCCHHHHHHHHC
T ss_conf 9999999999999999869989988612665-----567547763113685688886--254168850686889999863
Q ss_pred C-----CCEEEEEECCCCCCCCC-CCCC----CCCCCCCCEEEECCC--C--CHHHHHHHHHHHHHHHCCCCCCEEEE
Q ss_conf 3-----63122541057647454-4213----781002005786178--6--68999889999999970888662645
Q gi|254780317|r 195 Q-----DLPIKVIVPGKTYRRDS-DSTH----SPMFHQIEGLVVSDS--A--TIANLRWVLESFCKSFFEVSSLQMRF 258 (366)
Q Consensus 195 ~-----~pP~~~~~~GrvyR~d~-D~tH----~~~FhQ~egl~v~~~--i--~~~~lk~~l~~~~~~~fg~~~~~~r~ 258 (366)
. +.|+|+.-.|.|||+|. -+.| ...|+|-|+-+.-.. + .+......+...++. ||-.+.++++
T Consensus 103 ~~~SYrdLPlR~~E~g~~~R~E~sG~L~GL~RvR~FtqdDaHiFc~~eQ~~~E~~~~~~~~~~vy~~-fG~~~~~~~l 179 (298)
T cd00771 103 KPRSYRDLPLRLAEFGTVHRYEQSGALHGLTRVRGFTQDDAHIFCTPDQIKEEIKGVLDLIKEVYSD-FGFFDYKVEL 179 (298)
T ss_pred CCCCHHHCCHHHHCCCCEECCCCCCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHHHHHHHHHHHHH-HCCCCCEEEE
T ss_conf 5567343467652075055476776755744555674576324416889999999999999999998-2887324899
No 64
>PRK04173 glycyl-tRNA synthetase; Provisional
Probab=95.25 E-value=0.12 Score=32.98 Aligned_cols=143 Identities=22% Similarity=0.280 Sum_probs=80.7
Q ss_pred CCCCCCCCCCHHH----HHHH--HCCCEEEEEECCCCCCCCCCCC----CCCCCCCCCEEE-ECCCC---CHHHHHHHHH
Q ss_conf 6322446763055----5543--0363122541057647454421----378100200578-61786---6899988999
Q gi|254780317|r 177 HKLLRTHTSPVQI----RVME--SQDLPIKVIVPGKTYRRDSDST----HSPMFHQIEGLV-VSDSA---TIANLRWVLE 242 (366)
Q Consensus 177 ~~lLRthTS~vQi----R~m~--~~~pP~~~~~~GrvyR~d~D~t----H~~~FhQ~egl~-v~~~i---~~~~lk~~l~ 242 (366)
..-||.-|--... +.++ ..+.|+.+.-+||+|||+--+- .+-+|.|+|--+ ++.+- .++--++-..
T Consensus 162 ~~YLRPETAQGiFvnFk~v~~~~r~KlPFgiaQIGKaFRNEIsPr~~lfR~REFeQmEiE~F~~P~~~~e~~~yw~~~~~ 241 (460)
T PRK04173 162 LGYLRPETAQGIFVNFKNVLRTARKKLPFGIAQIGKSFRNEITPRNFIFRTREFEQMELEFFVKPGTDEEWFAYWIALRK 241 (460)
T ss_pred CEEECHHHHHHHHHHHHHHHHHCCCCCCEEEEECCCCCCCCCCCCCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHH
T ss_conf 02316044104566119999971778880431004001243065545122345555243310586745899999999999
Q ss_pred HHHHHHCCCCCCEEEEEECCCCCCCC----CCEEEEEEECCCCEEEECCCCCEEEEECCCCC---CHH-HHHHCCCC---
Q ss_conf 99999708886626454238898526----61036787505880422468834898457563---888-99856988---
Q gi|254780317|r 243 SFCKSFFEVSSLQMRFRPSFFPFTEP----SFEVDVRCSFSDGIIKFDEGTEWMEILGCGMV---DPR-VLRGVGID--- 311 (366)
Q Consensus 243 ~~~~~~fg~~~~~~r~rp~~fPfteP----s~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~---~p~-vl~~~g~d--- 311 (366)
.|+.. .|...-++|||.+ +=.|= +.-.|+.+.. ..||+|+.|+--= +-. --+..|-|
T Consensus 242 ~fl~~-lGi~~~~lR~r~h--~~~elAHYa~~~~D~E~~~---------~~Gw~E~~Gia~RtdyDL~~H~~~Sg~~L~~ 309 (460)
T PRK04173 242 NFLLD-LGIDPENLRFREH--LPEELAHYSKATWDIEYKF---------PFGWGELEGIANRTDYDLSRHSKHSGEDLSY 309 (460)
T ss_pred HHHHH-CCCCHHHEEEEEC--CCHHHCCCCHHHEEEEEEC---------CCCEEEEEEECCCCHHHHHHHHHHCCCCEEE
T ss_conf 99998-3998899478630--6134200022005589945---------8982887664064210278898744887179
Q ss_pred -----CCCE--EEEEEECCHHHHHHHH
Q ss_conf -----0003--7996313446997997
Q gi|254780317|r 312 -----PDIY--QGFAWGMGLDRIAMLK 331 (366)
Q Consensus 312 -----~~~~--~g~AfG~G~eRlaml~ 331 (366)
.++| ...-=.+||+|+..-.
T Consensus 310 ~d~~~~~k~iPhVIEpS~GvdR~~la~ 336 (460)
T PRK04173 310 FDQETGEKYIPYVIEPSFGLDRLFLAF 336 (460)
T ss_pred EECCCCCEECCEEEEECCCCCHHHHHH
T ss_conf 822558561340564046710899999
No 65
>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=95.12 E-value=0.38 Score=29.39 Aligned_cols=199 Identities=13% Similarity=0.141 Sum_probs=101.0
Q ss_pred CCHHHHHHHHHHHHHHHCCCEEECCCEE--ECHHHH-HHHHCCCCCCCCCCCCCEEEEECC---CCCCCCCCCCCCCCHH
Q ss_conf 2389999999999998739876237234--158898-886189887733163312775056---6655632244676305
Q gi|254780317|r 115 IHPVTQVIDEVTCIFMDMGFALEEGSDI--ETDYYN-FAALNFPDDHPARQMHDTFFVPGI---AGGKHKLLRTHTSPVQ 188 (366)
Q Consensus 115 ~HPItqvi~eI~~IF~~lGF~v~eGPEI--Etd~~N-FdaLNiP~~HPARdmqDTFyl~~~---~~~~~~lLRthTS~vQ 188 (366)
.-.+..+.+-+++...+.||+.+.-|-+ ++.||. - .|-.---.+-|++... ..++...||.-.-++-
T Consensus 32 ~~i~~~l~~~~r~~~~~~G~~ev~~P~l~~~~~~~k~s-------gh~~~y~~emf~v~~~g~~~~d~~y~LkPmne~~~ 104 (261)
T cd00778 32 YAIWENIQKILDKEIKETGHENVYFPLLIPESELEKEK-------EHIEGFAPEVAWVTHGGLEELEEPLALRPTSETAI 104 (261)
T ss_pred HHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHH-------CHHHCCCCCCEEEECCCCCCCCCCCCCCCCCHHHH
T ss_conf 99999999999999998699699883327889999742-------81430576533552168520135603478886999
Q ss_pred HHHH----HH-CCCEEEEEECCCCCCCCCCCCCC----CCCCCCCEEEECC--C---CCHHHHHHHHHHHHHHHCCCCCC
Q ss_conf 5554----30-36312254105764745442137----8100200578617--8---66899988999999997088866
Q gi|254780317|r 189 IRVM----ES-QDLPIKVIVPGKTYRRDSDSTHS----PMFHQIEGLVVSD--S---ATIANLRWVLESFCKSFFEVSSL 254 (366)
Q Consensus 189 iR~m----~~-~~pP~~~~~~GrvyR~d~D~tH~----~~FhQ~egl~v~~--~---i~~~~lk~~l~~~~~~~fg~~~~ 254 (366)
.... .+ .+.|+|+.-.|.|||+|.-++|. -+|+|-|+--++- + -++.....+...++..+.+.. +
T Consensus 105 ~~i~~~~~~SYRdLPlrl~q~g~~~R~E~s~~~gL~RvReF~~dDahs~~~t~eq~~~e~~~~~~~y~~i~~~l~~~~-~ 183 (261)
T cd00778 105 YPMFSKWIRSYRDLPLKINQWVNVFRWETKTTRPFLRTREFLWQEGHTAHATEEEAEEEVLQILDLYKEFYEDLLAIP-V 183 (261)
T ss_pred HHHHHHHHCCCCCCCHHHHHCCCEECCCCCCCCCCCEEEEEEEECCCCCCCCHHHHHHHHHHHHHHHHHHHHHHCCEE-E
T ss_conf 999973505402278255530422437788887653254252342336558999999999999999999999847815-7
Q ss_pred EEEEEEC--CCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCC---CCC-----CEEEEEEECCH
Q ss_conf 2645423--8898526610367875058804224688348984575638889985698---800-----03799631344
Q gi|254780317|r 255 QMRFRPS--FFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGI---DPD-----IYQGFAWGMGL 324 (366)
Q Consensus 255 ~~r~rp~--~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~---d~~-----~~~g~AfG~G~ 324 (366)
.+--+|. -|+=..-+-.+|+.+ +.++-+|++.+--+.-+--+..++ |++ .++| -||+|
T Consensus 184 ~~~~~~~~dk~~Ga~y~~~id~~~----------~dgr~~q~gti~~l~~~~s~~f~l~y~~~dg~~~~phr~-~~G~~- 251 (261)
T cd00778 184 VKGRKTEWEKFAGADYTYTIEAMM----------PDGRALQSGTSHNLGQNFSKAFDIKYQDKDGQKEYVHQT-SWGIS- 251 (261)
T ss_pred EEECCCHHCCCCCCCCCEEEEEEC----------CCCCEEEEEHHHHCCCCHHHHCCCEEECCCCCCCCCEEE-EEEHH-
T ss_conf 860565211167851000147874----------788704675102027653563798999999998085574-12499-
Q ss_pred HHHHHHHCC
Q ss_conf 699799738
Q gi|254780317|r 325 DRIAMLKYG 333 (366)
Q Consensus 325 eRlaml~~g 333 (366)
||+..+.-.
T Consensus 252 eR~ig~lI~ 260 (261)
T cd00778 252 TRLIGAIIM 260 (261)
T ss_pred HHHHHHHHC
T ss_conf 899889734
No 66
>KOG0556 consensus
Probab=95.12 E-value=0.0083 Score=41.51 Aligned_cols=46 Identities=35% Similarity=0.713 Sum_probs=35.0
Q ss_pred CCCCC-CHHHH----HHCCCCCCCEEEE------------EEECCHHHHHHHHCCCCCHHHHH
Q ss_conf 57563-88899----8569880003799------------63134469979973897058766
Q gi|254780317|r 296 GCGMV-DPRVL----RGVGIDPDIYQGF------------AWGMGLDRIAMLKYGMPDVREFF 341 (366)
Q Consensus 296 g~Gm~-~p~vl----~~~g~d~~~~~g~------------AfG~G~eRlaml~~gi~diR~~~ 341 (366)
||--+ .|++| +.+||||...++| .+|+|+||+.|+-.|++|||..-
T Consensus 460 GAQRIhdpe~L~era~~hGid~~~i~~YidsFryG~PPHaGgGIGLERvvmlyl~L~nIR~~S 522 (533)
T KOG0556 460 GAQRIHDPELLVERAKEHGIDPSKISTYIDSFRYGAPPHAGGGIGLERVVMLYLGLNNIRKTS 522 (533)
T ss_pred CCCCCCCHHHHHHHHHHCCCCHHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHCCCCCHHHC
T ss_conf 430037889999999973988789998888740589987787515999999981677500102
No 67
>KOG2472 consensus
Probab=95.06 E-value=0.33 Score=29.88 Aligned_cols=201 Identities=16% Similarity=0.195 Sum_probs=120.0
Q ss_pred HHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCC-
Q ss_conf 9985676667654310000011232122674238999999999999873987623723415889888618988773316-
Q gi|254780317|r 84 FIRNQLIFEQISSQSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQ- 162 (366)
Q Consensus 84 ~L~~~~~~~kl~~E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARd- 162 (366)
..+..++..... .+--|||+. ...|+.-|+++..|.++.-...+||+.+- +|...---+ |.
T Consensus 365 I~ED~aIAyGyN--Ni~~~lP~~---~~~~~~~plNkl~d~lR~e~a~ag~~E~l---------~~~LcS~de----~~~ 426 (578)
T KOG2472 365 IVEDAAIAYGYN--NIQMTLPAS---NTIAKPFPLNKLTDILRIEVAAAGFTEAL---------TFTLCSRDE----NVI 426 (578)
T ss_pred HHHHHHHHHCCC--CCCCCCCCH---HCCCCCCCHHHHHHHHHHHHHHHHHHHHE---------EEEEECCCC----CCC
T ss_conf 566777772415--401147503---20147445478889999999885156531---------001333655----776
Q ss_pred -CCCEEEEECCCCCCCCCCCCCCCCHHHHHHHH---CCCEEEEEECCCCCCCCC--CCCCCCCCCCCCEEEECCCCCHHH
Q ss_conf -33127750566655632244676305555430---363122541057647454--421378100200578617866899
Q gi|254780317|r 163 -MHDTFFVPGIAGGKHKLLRTHTSPVQIRVMES---QDLPIKVIVPGKTYRRDS--DSTHSPMFHQIEGLVVSDSATIAN 236 (366)
Q Consensus 163 -mqDTFyl~~~~~~~~~lLRthTS~vQiR~m~~---~~pP~~~~~~GrvyR~d~--D~tH~~~FhQ~egl~v~~~i~~~~ 236 (366)
..----+.++-..+=.+.||---|.-..+... .+.|+|+|-++.|-=.|. |.--+..=| +-.++++++-.|--
T Consensus 427 d~~~AV~l~NPkt~efqv~RtsLlPGllKTv~~N~~~~lP~klFEisDvv~~D~~~e~ga~N~R~-l~A~y~g~~~gfE~ 505 (578)
T KOG2472 427 DGDKAVHLGNPKTLEFQVVRTSLLPGLLKTVASNRKMPLPIKLFEISDVVFKDSSTEVGARNERH-LAAVYCGKTSGFEI 505 (578)
T ss_pred CCCCCEEECCCCCEEEEEEHHHHCHHHHHHHHHCCCCCCCEEEEEEEEEEEECCCCCCCCCCHHE-EEEEECCCCCCHHH
T ss_conf 64430584598734543202430238899888604798763588751079851654014424000-00000278864899
Q ss_pred HHHHHHHHHHHHCCCCCCEEEEE---ECCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCCCCC
Q ss_conf 98899999999708886626454---238898526610367875058804224688348984575638889985698800
Q gi|254780317|r 237 LRWVLESFCKSFFEVSSLQMRFR---PSFFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGIDPD 313 (366)
Q Consensus 237 lk~~l~~~~~~~fg~~~~~~r~r---p~~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~~ 313 (366)
..|.|..+++.=+.. + ..-.. -+|||=-. +.|-+ +=.-||--|.+||+|+.+.++.
T Consensus 506 i~Glld~~l~~~~~~-~-~Y~i~~~~~~yfpgr~--A~v~~---------------~g~~iG~~GvlhPev~~~F~l~-- 564 (578)
T KOG2472 506 IHGLLDQLLNVPPIR-D-SYYIEADEDPYFPGRC--AKVIV---------------EGKVIGKIGVLHPEVLTKFELT-- 564 (578)
T ss_pred HHHHHHHHHCCCCCC-C-CEEEECCCCCCCCCCC--EEEEE---------------CCCEEEEECCCCHHHHHHCCCC--
T ss_conf 987999984477655-5-0578447687678861--37897---------------2715532101489998525888--
Q ss_pred CEEEEEEECCHH
Q ss_conf 037996313446
Q gi|254780317|r 314 IYQGFAWGMGLD 325 (366)
Q Consensus 314 ~~~g~AfG~G~e 325 (366)
|-.=|+-+-+|
T Consensus 565 -~~~s~~Ei~ie 575 (578)
T KOG2472 565 -YPCSAVEIDIE 575 (578)
T ss_pred -CCCCEEEEEEE
T ss_conf -75413796207
No 68
>TIGR00442 hisS histidyl-tRNA synthetase; InterPro: IPR015807 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; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Histidyl-tRNA synthetase (6.1.1.21 from EC) is an alpha2 dimer that belongs to class IIa. Every completed genome includes a histidyl-tRNA synthetase. 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 not demonstrated to act as histidyl-tRNA synthetases (see IPR004517 from INTERPRO). 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, but these regulatory proteins are not orthologous.; GO: 0000166 nucleotide binding, 0004821 histidine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006427 histidyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=95.05 E-value=0.31 Score=30.07 Aligned_cols=145 Identities=11% Similarity=0.176 Sum_probs=100.4
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHH
Q ss_conf 12267423899999999999987398762372341588988861898877331633127750566655632244676305
Q gi|254780317|r 109 PCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQ 188 (366)
Q Consensus 109 ~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQ 188 (366)
....+..---..+...++.+|.+.||....-|-.|.. +.+--.-.-.+-..+.-.|.-....+...-||...|..-
T Consensus 12 d~~p~~~~~~~~~~~~~~~~~~~~g~~~~~~P~~e~~----~~~~~~~~~~~~~~~~~~y~f~d~~~~~~~lrp~~t~~~ 87 (446)
T TIGR00442 12 DWLPGELVYRQWIEAKLRSVLESYGYSEIRTPIFEYT----ELFARGIGKSGDEVEKELYTFKDKGGRDLALRPELTAPV 87 (446)
T ss_pred CCCCHHHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHH----HHHHHHCCCCHHHHHHHHEEEECCCCCEEEECCCHHHHH
T ss_conf 0254157899999999999997517720012114445----666530253013344443012127884144222003689
Q ss_pred HHHHHH----C--CCEEEEEECCCCCCCCC-C-CCCCCCCCCCCEEEECCCC--CHHHHHHHHHHHHHHHCCCCC-CEEE
Q ss_conf 555430----3--63122541057647454-4-2137810020057861786--689998899999999708886-6264
Q gi|254780317|r 189 IRVMES----Q--DLPIKVIVPGKTYRRDS-D-STHSPMFHQIEGLVVSDSA--TIANLRWVLESFCKSFFEVSS-LQMR 257 (366)
Q Consensus 189 iR~m~~----~--~pP~~~~~~GrvyR~d~-D-~tH~~~FhQ~egl~v~~~i--~~~~lk~~l~~~~~~~fg~~~-~~~r 257 (366)
+|.... . ..|+|..+.|.|||.+. . +-...+|||+..=+++..- .-++........++.+ |.++ ..+.
T Consensus 88 ~r~~~~~~~~~~~~~p~~~~~~g~~~r~e~p~~~gr~r~f~~~~~~~~G~~~~~~~~~~~~~~~~~~~~~-g~~~~~~~~ 166 (446)
T TIGR00442 88 VRLVAENKLLLPANKPLRLYYIGPVFRYERPQLKGRYREFWQFGCEVIGSESPLADAEVLSLAVEGLKAL-GLEGHFKLK 166 (446)
T ss_pred HHHHHHHHHHCCCCCCEEEEEEECHHHCCCHHHHCCHHHHHHCCEEEECCCCCHHHHHHHHHHHHHHHHH-CCCCEEEEE
T ss_conf 9999875431046764243232010102241230101133211504643665203689999999989860-766327887
Q ss_pred E
Q ss_conf 5
Q gi|254780317|r 258 F 258 (366)
Q Consensus 258 ~ 258 (366)
+
T Consensus 167 ~ 167 (446)
T TIGR00442 167 L 167 (446)
T ss_pred E
T ss_conf 4
No 69
>COG0173 AspS Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=95.01 E-value=0.36 Score=29.59 Aligned_cols=133 Identities=16% Similarity=0.217 Sum_probs=84.6
Q ss_pred HHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCC-----CCCCCCCC
Q ss_conf 6676543100000112321226742389999999999998739876237234158898886189887-----73316331
Q gi|254780317|r 91 FEQISSQSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDD-----HPARQMHD 165 (366)
Q Consensus 91 ~~kl~~E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~-----HPARdmqD 165 (366)
..+|+-..+|+--|. -.-.+--=++++..|++.|-..||...|-|-+-- -+|+. -|+|--..
T Consensus 122 e~RLkYRyLDLRR~~-----m~~~l~lR~kv~~~iR~~ld~~gF~EiETPiLtk--------STPEGARDfLVPSRv~~G 188 (585)
T COG0173 122 EIRLKYRYLDLRRPE-----MQKNLKLRSKVTKAIRNFLDDQGFLEIETPILTK--------STPEGARDFLVPSRVHPG 188 (585)
T ss_pred HHHHHHHHHHHCCHH-----HHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCC--------CCCCCCCCCCCCCCCCCC
T ss_conf 220244555636888-----9999999999999999977654985734674146--------798655443013455899
Q ss_pred EEEEECCCCCCCCCCCCCCCCHHHHHHHHCCCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHH
Q ss_conf 27750566655632244676305555430363122541057647454-42137810020057861786689998899999
Q gi|254780317|r 166 TFFVPGIAGGKHKLLRTHTSPVQIRVMESQDLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDSATIANLRWVLESF 244 (366)
Q Consensus 166 TFyl~~~~~~~~~lLRthTS~vQiR~m~~~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~ 244 (366)
.||-= --||-|-..|.--..==|++-+-||||-|+ -|-..|+|.|++-=+ .= ++=.|...+.+.+
T Consensus 189 ~FYAL------------PQSPQlfKQLLMvsGfdRYyQIarCFRDEDlRaDRQPEFTQiD~Em-SF-~~~edv~~~~E~l 254 (585)
T COG0173 189 KFYAL------------PQSPQLFKQLLMVAGFDRYYQIARCFRDEDLRADRQPEFTQIDLEM-SF-VDEEDVMELIEKL 254 (585)
T ss_pred CEEEC------------CCCHHHHHHHHHHHCCCCEEEEEEEECCCCCCCCCCCCCEEEEEEE-EC-CCHHHHHHHHHHH
T ss_conf 65306------------8887999999988053300235654046644444687533676776-43-8899999999999
Q ss_pred HHHHCC
Q ss_conf 999708
Q gi|254780317|r 245 CKSFFE 250 (366)
Q Consensus 245 ~~~~fg 250 (366)
++.+|.
T Consensus 255 ~~~vf~ 260 (585)
T COG0173 255 LRYVFK 260 (585)
T ss_pred HHHHHH
T ss_conf 999999
No 70
>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=94.98 E-value=0.42 Score=29.10 Aligned_cols=221 Identities=15% Similarity=0.167 Sum_probs=118.1
Q ss_pred HHHHCCCCCCCCCCCCC-CCCCCHHHHHHHHHHHHHHHCCCEEECCCEEEC-HHHHHHHHCCCCCCCCCCCCCEEEEECC
Q ss_conf 54310000011232122-674238999999999999873987623723415-8898886189887733163312775056
Q gi|254780317|r 95 SSQSVDVSLPVFSSPCH-RGRIHPVTQVIDEVTCIFMDMGFALEEGSDIET-DYYNFAALNFPDDHPARQMHDTFFVPGI 172 (366)
Q Consensus 95 ~~E~iDVTLP~~~~~~~-~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEt-d~~NFdaLNiP~~HPARdmqDTFyl~~~ 172 (366)
++|-+|-+ |+.|-... +=+.-.+.++.+-|++.+.++|++.+.=|-+-. +.|. .-..|-.--.-.-|++.+.
T Consensus 12 ~a~l~d~~-~~~G~~~~lP~G~~i~~ki~~~i~~e~~~~G~qev~~P~l~p~~lw~-----ksgr~~~~~~~e~~~~~~~ 85 (264)
T cd00772 12 KAELADQG-PGRGIINFLPLAKAILDKIENVLDKMFKEHGAQNALFPFFILASFLE-----KEAEHDEGFSKELAVFKDA 85 (264)
T ss_pred HHCCEECC-CCCCEEEECHHHHHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHH-----HCCCHHHCCCCCEEEEEEC
T ss_conf 63542048-98875888905999999999999999998299498125679989999-----7698444378523799734
Q ss_pred CC---CCCCCCC-CCCCCHHH---HHHHH-CCCEEEEEECCCCCCCCCCCCC----CCCCCCCCEEEECCC-----CCHH
Q ss_conf 66---5563224-46763055---55430-3631225410576474544213----781002005786178-----6689
Q gi|254780317|r 173 AG---GKHKLLR-THTSPVQI---RVMES-QDLPIKVIVPGKTYRRDSDSTH----SPMFHQIEGLVVSDS-----ATIA 235 (366)
Q Consensus 173 ~~---~~~~lLR-thTS~vQi---R~m~~-~~pP~~~~~~GrvyR~d~D~tH----~~~FhQ~egl~v~~~-----i~~~ 235 (366)
.. .++.+|| ||...+.- ..+.+ .+.|+++.-+|.|||.|.-.+| .-+|.|-|+--.+.+ -+..
T Consensus 86 ~~~~~e~~~~L~PT~Ee~~~~~~~~~i~SyrdLPl~lyQ~~~~fR~E~r~r~GllR~REFlmkDahsf~~t~e~a~~~y~ 165 (264)
T cd00772 86 GDEELEEDFALRPTLEENIGEIAAKFIKSWKDLPQHLNQIGNKFRDEIRPRFGFLRAREFIMKDGHSAHADAEEADEEFL 165 (264)
T ss_pred CCCCCCCCCCCCCCCCHHHHHHHHHHCCCHHHCCHHHHHHHHHHHCCCCCCCCCHHHEEEEEEEEEECCCCHHHHHHHHH
T ss_conf 87421235201677868999999864076655797787655786057885543323204341103532599999999999
Q ss_pred HHHHHHHHHHHHHCCCCCCEEEEEEC--CCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHH-----C
Q ss_conf 99889999999970888662645423--8898526610367875058804224688348984575638889985-----6
Q gi|254780317|r 236 NLRWVLESFCKSFFEVSSLQMRFRPS--FFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRG-----V 308 (366)
Q Consensus 236 ~lk~~l~~~~~~~fg~~~~~~r~rp~--~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~-----~ 308 (366)
.....-..+++.+.... +..--+++ -|+=-.=|-|+++-+. .|++ ++.+=--++|.|.--+.-+.. -
T Consensus 166 ~~~~~Y~~if~~lg~lp-~~~~~~~~g~kf~Ga~~s~ef~~~~~--~G~~---~~~ev~H~f~~g~~~s~~~~~~f~~~d 239 (264)
T cd00772 166 NMLSAYAEIARDLAAID-FIEGEADEGAKFAGASKSREFEALME--DGKA---KQAETGHIFGEGFARAFDLKAKFLDKD 239 (264)
T ss_pred HHHHHHHHHHHHHCCCC-CEEEECCCCCCCCCCEEEEEEEEECC--CCCC---CEEEEEEECCCCCCEECCCCCEEECCC
T ss_conf 99999999999966985-16764477885688501689999878--8871---364468881578501225665788899
Q ss_pred CCCCCCEEEEEEECCHHHHH
Q ss_conf 98800037996313446997
Q gi|254780317|r 309 GIDPDIYQGFAWGMGLDRIA 328 (366)
Q Consensus 309 g~d~~~~~g~AfG~G~eRla 328 (366)
|-..-.|+| -||+||+|+.
T Consensus 240 g~~~~v~m~-syGIgitRli 258 (264)
T cd00772 240 GKEKFFEMG-CWGIGISRFI 258 (264)
T ss_pred CCEEEEEEC-CCCCHHHHHH
T ss_conf 998225803-6778177444
No 71
>COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=94.67 E-value=0.49 Score=28.56 Aligned_cols=118 Identities=18% Similarity=0.227 Sum_probs=77.7
Q ss_pred HHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHH----HHHHHCCCE
Q ss_conf 9999999873987623723415889888618988773316331277505666556322446763055----554303631
Q gi|254780317|r 123 DEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQI----RVMESQDLP 198 (366)
Q Consensus 123 ~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQi----R~m~~~~pP 198 (366)
+-+.+.-...||+.+.-|-+-...--|..=..|+ -..|.|++++. +-.|.-|..-|+.- ..+.....|
T Consensus 182 ~f~ld~~~~~Gf~e~~~P~lv~~e~m~gtgqlpk-----f~e~~y~v~~~---~~~LipTaEvpl~~l~~~Eil~~~~LP 253 (429)
T COG0172 182 QFMLDLHTKHGFTEVLPPYLVNLESMFGTGQLPK-----FEEDLYKVEDP---DLYLIPTAEVPLTNLHRDEILDEEDLP 253 (429)
T ss_pred HHHHHHHHHCCCEEEECCEEECHHHHHCCCCCCC-----CCCCCEEECCC---CEEEEECCHHHHHHHHCCCCCCCCCCC
T ss_conf 9999999876965865760605988622378988-----80121584589---879970202156786516201521278
Q ss_pred EEEEECCCCCCCCCCC----C----CCCCCCCCCEEEECC-CCCH---HHHHHHHHHHHHHH
Q ss_conf 2254105764745442----1----378100200578617-8668---99988999999997
Q gi|254780317|r 199 IKVIVPGKTYRRDSDS----T----HSPMFHQIEGLVVSD-SATI---ANLRWVLESFCKSF 248 (366)
Q Consensus 199 ~~~~~~GrvyR~d~D~----t----H~~~FhQ~egl~v~~-~i~~---~~lk~~l~~~~~~~ 248 (366)
+++.+..-|||++.-+ | ..|+||-||-+++-+ .=|. -.|.+.-+.+++.+
T Consensus 254 ~k~~~~S~cFR~EAGs~GrdtrGliRvHQF~KVE~v~~~~Pe~S~~~~E~m~~~ae~il~~L 315 (429)
T COG0172 254 IKYTAYSPCFRSEAGSAGKDTRGLIRVHQFDKVELVVITKPEESEEELEEMLGNAEEVLQEL 315 (429)
T ss_pred EEEEEECHHHHCCCCCCCCCCCCEEEEEEEEEEEEEEEECCCHHHHHHHHHHHHHHHHHHHH
T ss_conf 02678772542145656643553014664355899997070116999999999999999970
No 72
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=94.46 E-value=0.022 Score=38.48 Aligned_cols=202 Identities=20% Similarity=0.296 Sum_probs=111.2
Q ss_pred HHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHH--HHHH
Q ss_conf 89999999999998739876237234158898886189887733163312775056665563224467630555--5430
Q gi|254780317|r 117 PVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIR--VMES 194 (366)
Q Consensus 117 PItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR--~m~~ 194 (366)
.=+.+..-++++|.+-||..+.-|-|-+. -.+ -..+.|-++--. ...- =|-+.|.. +|..
T Consensus 136 irs~i~~a~~eff~~~gF~eV~tP~i~~~--------~~E-----Gg~elF~v~yf~--~~a~---LtqS~QLyke~~~~ 197 (435)
T COG0017 136 IRSSILRAIREFFYENGFTEVHTPIITAS--------ATE-----GGGELFKVDYFD--KEAY---LTQSPQLYKEALAA 197 (435)
T ss_pred HHHHHHHHHHHHHHHCCCEEECCCEEECC--------CCC-----CCCEEEEEEECC--CCEE---EECCHHHHHHHHHH
T ss_conf 99999999999997589589659468534--------789-----985057775068--5667---71478899999999
Q ss_pred CCCEEEEEECCCCCCCCC--CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHC--------------CCCCCEEEE
Q ss_conf 363122541057647454--4213781002005786178668999889999999970--------------888662645
Q gi|254780317|r 195 QDLPIKVIVPGKTYRRDS--DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSFF--------------EVSSLQMRF 258 (366)
Q Consensus 195 ~~pP~~~~~~GrvyR~d~--D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~f--------------g~~~~~~r~ 258 (366)
. =-|++.+|-+||-|. -.-|+.+|.++|.=+..-+ +.|+...++.+++++| |.....+.-
T Consensus 198 a--l~rVf~igP~FRAE~s~T~RHL~EF~~ld~Emaf~~--~~d~m~l~E~~i~~i~~~v~e~~~~el~~l~~~~~~l~~ 273 (435)
T COG0017 198 A--LERVFTIGPTFRAEKSNTRRHLSEFWMLDPEMAFAD--LNDVMDLAEELIKYLFKKVLEECADELEFLGRDNSELKR 273 (435)
T ss_pred H--HCCEEEECCCEECCCCCCCCHHHHHHEECCEECCCC--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHCC
T ss_conf 8--576489567255477897003666733021113676--888999999999999999999718988876146111034
Q ss_pred EE-CCCC-----------------CCCCCCEE--------------E---EEEECCCCE---EEECCCC-----------
Q ss_conf 42-3889-----------------85266103--------------6---787505880---4224688-----------
Q gi|254780317|r 259 RP-SFFP-----------------FTEPSFEV--------------D---VRCSFSDGI---IKFDEGT----------- 289 (366)
Q Consensus 259 rp-~~fP-----------------ftePs~Ev--------------d---v~~~~~~~~---~~~~~~~----------- 289 (366)
.+ .-|| +.+.+-+. + |.-.-+.-+ .+.+...
T Consensus 274 ~~~~pf~ritY~eAieiL~~~~~e~~~~GdDl~~e~Er~l~e~~~~~~vfv~~yP~~~kpFYm~~~~d~p~~~~~~Dll~ 353 (435)
T COG0017 274 PESAPFPRITYKEAIEILEEKGFEKVEWGDDLGTEHERYLGEEYFKPPVFVTNYPKEIKPFYMRPDPDNPGTVASFDLLA 353 (435)
T ss_pred CCCCCCCEEEHHHHHHHHHHCCCCCCCCCCCCCCHHHHHHHHHHCCCCEEEEECCCCCCCCCCCCCCCCCCEEEEEEEEC
T ss_conf 44689637779999999986477656777756889999999875799499981764446650333799887699876524
Q ss_pred CE-EEEECCCCC--CHHHH----HHCCCCCCCEEEE------------EEECCHHHHHHHHCCCCCHHHH
Q ss_conf 34-898457563--88899----8569880003799------------6313446997997389705876
Q gi|254780317|r 290 EW-MEILGCGMV--DPRVL----RGVGIDPDIYQGF------------AWGMGLDRIAMLKYGMPDVREF 340 (366)
Q Consensus 290 ~W-iEi~g~Gm~--~p~vl----~~~g~d~~~~~g~------------AfG~G~eRlaml~~gi~diR~~ 340 (366)
.+ .||.|+|+= +.++| +..|+||+.|.-| .||||+|||.|-..|+++||+-
T Consensus 354 p~~gEIigGsqRe~~~d~L~~ri~~~gl~~e~~~wYld~~kyG~~PHaGfGlG~ERlv~~i~gl~nIRea 423 (435)
T COG0017 354 PGGGEIIGGSQREHDYDLLVERIKEKGLDPESYEWYLDLRKYGMPPHAGFGLGLERLVMYILGLDNIREA 423 (435)
T ss_pred CCCEEEECCEECCCCHHHHHHHHHHCCCCHHHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHCCCCCEEC
T ss_conf 7870560362304309999999998099968818999998738999860033799999999488832012
No 73
>COG0441 ThrS Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=94.08 E-value=0.43 Score=28.96 Aligned_cols=140 Identities=18% Similarity=0.251 Sum_probs=87.5
Q ss_pred HHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHHC--
Q ss_conf 999999999999873987623723415889888618988773316331277505666556322446763055554303--
Q gi|254780317|r 118 VTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVMESQ-- 195 (366)
Q Consensus 118 Itqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m~~~-- 195 (366)
-+.+.+-++..-.+.||+.+..|.+-+. .|-....|=..--.|.|..... +....||.=+.|.++....+.
T Consensus 223 r~~le~y~~~~~~~~Gy~~V~TP~~~~~-----~l~~~SGH~~~y~e~mf~~~~~--~~~~~lKpmNCpgh~~ifk~~~~ 295 (589)
T COG0441 223 RNLLEDYVRTKLRSYGYQEVKTPVLADL-----ELWELSGHWDNYKEDMFLTESD--DREYALKPMNCPGHILIFKSGLR 295 (589)
T ss_pred HHHHHHHHHHHHHHCCCEEECCCEEEEC-----CCCHHCCCHHHCCCCCEEECCC--CHHHEEEECCCHHHHHHHHCCCC
T ss_conf 9999999998987558527128736300-----0010112045513660662137--72330641078768999853786
Q ss_pred ---CCEEEEEECCCCCCCCC-CCCCC----CCCCCCCEEEECC-CCCHHHHHHHHHHHHH--HHCCCCC--CEEEEEECC
Q ss_conf ---63122541057647454-42137----8100200578617-8668999889999999--9708886--626454238
Q gi|254780317|r 196 ---DLPIKVIVPGKTYRRDS-DSTHS----PMFHQIEGLVVSD-SATIANLRWVLESFCK--SFFEVSS--LQMRFRPSF 262 (366)
Q Consensus 196 ---~pP~~~~~~GrvyR~d~-D~tH~----~~FhQ~egl~v~~-~i~~~~lk~~l~~~~~--~~fg~~~--~~~r~rp~~ 262 (366)
..|+|+.-.|.|||++. -+.|- -.|+|=++-+.-+ +=-....+++++.... ..||-.+ ++.++||.|
T Consensus 296 SYR~LP~r~~E~g~v~R~E~SGal~GL~RvR~ftqdD~Hifc~~dQi~~E~~~~~~~i~~v~~~fg~~~y~~~ls~r~k~ 375 (589)
T COG0441 296 SYRELPLRLAEFGYVYRYEKSGALHGLMRVRGFTQDDAHIFCTPDQIKDEFKGILELILEVYKDFGFTDYEVKLSTRPKF 375 (589)
T ss_pred CEECCCHHHHHCCEEECCCCCCHHHCCCCCCCEEECCCCEECCHHHHHHHHHHHHHHHHHHHHHCCCCEEEEEEECCCCC
T ss_conf 11004404331442211567642222400113224562014046788999999999999999846975379999647764
Q ss_pred CC
Q ss_conf 89
Q gi|254780317|r 263 FP 264 (366)
Q Consensus 263 fP 264 (366)
++
T Consensus 376 ig 377 (589)
T COG0441 376 IG 377 (589)
T ss_pred CC
T ss_conf 68
No 74
>PRK01584 alanyl-tRNA synthetase; Provisional
Probab=94.06 E-value=0.041 Score=36.42 Aligned_cols=57 Identities=16% Similarity=0.175 Sum_probs=27.3
Q ss_pred CCCCCEEEEECCCCCCHHHHHHCCCCCCCEEEEEEECCHHHHHHHHCCCCCHHHHHHCCH
Q ss_conf 468834898457563888998569880003799631344699799738970587663588
Q gi|254780317|r 286 DEGTEWMEILGCGMVDPRVLRGVGIDPDIYQGFAWGMGLDRIAMLKYGMPDVREFFGADV 345 (366)
Q Consensus 286 ~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~~~g~AfG~G~eRlaml~~gi~diR~~~~~d~ 345 (366)
|..++|+||...=-..=+-.....+.|=--...--||||||+|++..|.++. |+.|+
T Consensus 194 ~d~~r~lEIWNlVFmqy~r~~~G~~~pLp~k~VDTGmGLERi~~vlQg~~sn---YdtD~ 250 (593)
T PRK01584 194 CSCGKYFEIWNNVFMQYNKDEDGNYEELKRKCVDTGMGIERTIAFLQGKSSV---YDTDA 250 (593)
T ss_pred CCCCCEEEEEEEEEECEEECCCCCEEECCCCCCCCCCCHHHHHHHHCCCCCC---CCCCC
T ss_conf 8888769986541135212699972168877403686899999998299974---20311
No 75
>PRK00960 seryl-tRNA synthetase; Provisional
Probab=93.57 E-value=0.35 Score=29.65 Aligned_cols=148 Identities=19% Similarity=0.362 Sum_probs=85.7
Q ss_pred HHHHHCCCEEEEE-ECCCCCCCCCCCCC----CCCCCCCCEEEECCCCCHHHHHHHHHHHHHHHCCCCCCEEE-EE----
Q ss_conf 5543036312254-10576474544213----78100200578617866899988999999997088866264-54----
Q gi|254780317|r 190 RVMESQDLPIKVI-VPGKTYRRDSDSTH----SPMFHQIEGLVVSDSATIANLRWVLESFCKSFFEVSSLQMR-FR---- 259 (366)
Q Consensus 190 R~m~~~~pP~~~~-~~GrvyR~d~D~tH----~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~fg~~~~~~r-~r---- 259 (366)
.++-....|+++| ..|-.||-+.-..| -.+||.+|.+|++.-= +..-..-+..-+.+.|. +.+.+. +|
T Consensus 326 e~v~~d~lPik~FDrSGwtyRwE~GG~~GleRV~EF~RiE~VW~gtpe-~ve~~r~~~~~y~~~~a-e~LdLE~w~ev~d 403 (516)
T PRK00960 326 ELVDVDELPIKFFDKSGWTYRWEGGGAKGLDRVNEFLRIECVWMGTPE-FVEEVRDDTLKYAHILA-EKLDLEYWTEVGD 403 (516)
T ss_pred CCCCCCCCCEEEEECCCCEEEECCCCCCCHHHHHHHHEEEEEEECCHH-HHHHHHHHHHHHHHHHH-HHHCHHHHEEECC
T ss_conf 725655586578855886264047874323555010147778846889-99999888999999988-7743244223056
Q ss_pred -EC------------CCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCCC----CCCEEEEEEEC
Q ss_conf -23------------88985266103678750588042246883489845756388899856988----00037996313
Q gi|254780317|r 260 -PS------------FFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGID----PDIYQGFAWGM 322 (366)
Q Consensus 260 -p~------------~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d----~~~~~g~AfG~ 322 (366)
|= =||= -|+.|+...-+..+ ....|+|+..+-+---.-.+-.+|. -+.|||. -|+
T Consensus 404 dPfylegr~~e~r~iE~p~-vp~ye~~~~LP~~~------~e~k~v~v~s~nVhG~hf~eGF~VK~~~g~~~WtGC-tG~ 475 (516)
T PRK00960 404 DPFYLEGRKLEDRGIEFPD-VPKYEMRLWLPHIK------EERKGVAVTSANIHGTHFVEGFNVKDYKGRKLWTGC-TGV 475 (516)
T ss_pred CCHHHCCCCCCCCCCCCCC-CCCEEEEEECCCCC------CCCCEEEEEEEEECCCCCCCCCCCEECCCCEEECCC-CCC
T ss_conf 7503225654455643688-88546799657647------767726888863147535676522003587311377-644
Q ss_pred CHHHHHHHHCCCCCHHHHHHCCHHHHHHCCCCCCCCCCCCC
Q ss_conf 44699799738970587663588888744898446884145
Q gi|254780317|r 323 GLDRIAMLKYGMPDVREFFGADVRWIEHYGFSPLDIPPLFS 363 (366)
Q Consensus 323 G~eRlaml~~gi~diR~~~~~d~rfl~qf~~~~~~~~~~~~ 363 (366)
||+|-++ -||.|.||.|-|-|-..+
T Consensus 476 GL~RWv~----------------gFLAQ~Gfd~~~WPe~i~ 500 (516)
T PRK00960 476 GLTRWVI----------------GFLAQKGFDPDNWPEEIR 500 (516)
T ss_pred CHHHHHH----------------HHHHHCCCCCCCCCHHHH
T ss_conf 5789999----------------999870798121649999
No 76
>TIGR00457 asnS asparaginyl-tRNA synthetase; InterPro: IPR004522 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; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . AsparaginyltRNA synthetase (6.1.1.22 from EC) is an alpha2 dimer that belongs to class IIb. There is a striking similarity between asparaginyl-tRNA synthetases and archaeal/eukaryotic type aspartyl-tRNA synthetases (IPR004523 from INTERPRO) and a striking divergence of bacterial type aspartyl-tRNA synthetases (IPR004524 from INTERPRO). This family, 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.; GO: 0000166 nucleotide binding, 0004816 asparagine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006421 asparaginyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=92.79 E-value=0.042 Score=36.35 Aligned_cols=103 Identities=22% Similarity=0.302 Sum_probs=66.6
Q ss_pred CCCCHHHHHHH----HHHHHHHHCCCEEECCCEEECH--------H--HHHHHHCCCCCCCCCCCCCEEEEECCCCCCCC
Q ss_conf 74238999999----9999998739876237234158--------8--98886189887733163312775056665563
Q gi|254780317|r 113 GRIHPVTQVID----EVTCIFMDMGFALEEGSDIETD--------Y--YNFAALNFPDDHPARQMHDTFFVPGIAGGKHK 178 (366)
Q Consensus 113 G~~HPItqvi~----eI~~IF~~lGF~v~eGPEIEtd--------~--~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~ 178 (366)
-.+|=|.+|+. .|.++|.+=||..+.-|-|.+. | ---|.=|+|.+.-.=|-.++||=+ ..
T Consensus 140 ~~~~AvmrvR~~l~~ai~~yF~~~gF~~V~~PilT~~d~EGAGElF~v~TLdl~~lp~~~g~~df~~~fFgk------~a 213 (495)
T TIGR00457 140 NTLGAVMRVRNALSQAIHEYFQKNGFVKVSPPILTSNDCEGAGELFKVSTLDLEKLPRNDGKIDFSKDFFGK------EA 213 (495)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCCEEECCCEEECCCCCCCCCCCEEEEHHHHCCCCCCCCCCCCCCCCCC------EE
T ss_conf 887789999999999999876047867868863113688887543322003242153326888763024886------01
Q ss_pred CCCCCCCCHHHHHHHHCCC-EEEEEECCCCCCCCC--CCCCCCCCCCCCE
Q ss_conf 2244676305555430363-122541057647454--4213781002005
Q gi|254780317|r 179 LLRTHTSPVQIRVMESQDL-PIKVIVPGKTYRRDS--DSTHSPMFHQIEG 225 (366)
Q Consensus 179 lLRthTS~vQiR~m~~~~p-P~~~~~~GrvyR~d~--D~tH~~~FhQ~eg 225 (366)
=| |-+.|.. +|..-. =-+|++.|=+||=|- =.-|+-+|-=||-
T Consensus 214 yL---TVSGQL~-~E~~A~AL~kvyTfGPTFRAEkS~T~RHLsEFWMiEP 259 (495)
T TIGR00457 214 YL---TVSGQLY-AEAYALALSKVYTFGPTFRAEKSNTSRHLSEFWMIEP 259 (495)
T ss_pred EE---EECCHHH-HHHHHHHHCCCEECCCCEECCCCCCCCCHHHHHHHHH
T ss_conf 23---3022789-9999997478144587400428648701112210112
No 77
>cd00673 AlaRS_core Alanyl-tRNA synthetase (AlaRS) class II core catalytic domain. AlaRS is a homodimer. It is responsible for the attachment of alanine 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 predicted structure and the presence of three characteristic sequence motifs.
Probab=92.39 E-value=0.13 Score=32.86 Aligned_cols=178 Identities=16% Similarity=0.222 Sum_probs=85.4
Q ss_pred HHHHHHHHHHHHHCCCEEEC-CCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHH-HHHH-C
Q ss_conf 99999999999873987623-7234158898886189887733163312775056665563224467630555-5430-3
Q gi|254780317|r 119 TQVIDEVTCIFMDMGFALEE-GSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIR-VMES-Q 195 (366)
Q Consensus 119 tqvi~eI~~IF~~lGF~v~e-GPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR-~m~~-~ 195 (366)
.++++...++|.+-|..++. .|-| |.+.| |.++ |--+=+|-. +... .
T Consensus 2 ~eiR~~Fl~fF~~~gH~~vpssslv------------p~~Dp------tllF------------tnAGM~~Fkp~flG~~ 51 (232)
T cd00673 2 SEIRETFLSFFEKKGHTRVPSSPVV------------PRDDP------TLLF------------TNAGMNQFKPIFLGEV 51 (232)
T ss_pred HHHHHHHHHHHHHCCCEECCCCCCC------------CCCCC------CEEE------------EECCHHHHHHHHCCCC
T ss_conf 6899999999987898882787722------------38999------5014------------4114688899867788
Q ss_pred CCE-EEEEECCCCCCCCC------CCCCCCCCCCCCEEEECCCCCHHH-----HHHHHHHHHHHHCCCCCCEEEEEECCC
Q ss_conf 631-22541057647454------421378100200578617866899-----988999999997088866264542388
Q gi|254780317|r 196 DLP-IKVIVPGKTYRRDS------DSTHSPMFHQIEGLVVSDSATIAN-----LRWVLESFCKSFFEVSSLQMRFRPSFF 263 (366)
Q Consensus 196 ~pP-~~~~~~GrvyR~d~------D~tH~~~FhQ~egl~v~~~i~~~~-----lk~~l~~~~~~~fg~~~~~~r~rp~~f 263 (366)
+|| -|++++-+|.|--. |+.|. .|.++=| |-||+| .....-.|+...+|.+ +-|+.-++|
T Consensus 52 ~p~~~r~~~~QkCiR~~di~nvG~t~rH~-TfFEMLG-----nfSFGdYfK~eaI~~awe~lt~~~~l~--~~rlyvTv~ 123 (232)
T cd00673 52 PPPANRLVNSQKCIRAGDIDNVGKTGRHH-TFFEMLG-----NFSFGDYFKEEAIAFAWELLTEVLGLP--KDRLYVSVF 123 (232)
T ss_pred CCCCCCCEEEEECCCCCCCCCCCCCCCCC-HHHHCCC-----CCCHHHHHHHHHHHHHHHHHHHHCCCC--CCCCEEEEE
T ss_conf 99987510000123657832467777640-2333044-----420314589999999999875123768--562426674
Q ss_pred ----------------------CCC--------------CCCCEEEEEEECCCC--EEEECCCCCEEEEECCCCCCHHHH
Q ss_conf ----------------------985--------------266103678750588--042246883489845756388899
Q gi|254780317|r 264 ----------------------PFT--------------EPSFEVDVRCSFSDG--IIKFDEGTEWMEILGCGMVDPRVL 305 (366)
Q Consensus 264 ----------------------Pft--------------ePs~Evdv~~~~~~~--~~~~~~~~~WiEi~g~Gm~~p~vl 305 (366)
+++ -|..|+-+.-....+ ....|...+||||...=-+-=+-.
T Consensus 124 ~~Dde~~~~~~~~~gi~~~~i~~~~~~dNfW~~G~~GPcGPcsEI~yd~g~~~~~~~~~~~~~~r~lEiwNlVFmqy~r~ 203 (232)
T cd00673 124 EGDDEEEAIWWWKIGLPGIRIERIGFKDNFWEMGGNGPCGPCSEIFYDRGEERDAASLPNEDDDRYLEIWNLVFMQYNRD 203 (232)
T ss_pred CCCHHHHHHHHHHCCCCHHHEEECCCCCCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCEEEEEEEEEEEEEEC
T ss_conf 69779999999741998898346677666786999879987677897577777886577888998899867313752006
Q ss_pred HHCCCCCCCEEEEEEECCHHHHHHHHCCC
Q ss_conf 85698800037996313446997997389
Q gi|254780317|r 306 RGVGIDPDIYQGFAWGMGLDRIAMLKYGM 334 (366)
Q Consensus 306 ~~~g~d~~~~~g~AfG~G~eRlaml~~gi 334 (366)
...-+.|=.-...--|||+||+||+..|+
T Consensus 204 ~dg~l~~Lp~k~IDTGmGlERl~~vlQgv 232 (232)
T cd00673 204 ADGTYRPLPKKIVDTGMGLERLVWVLQGV 232 (232)
T ss_pred CCCCCCCCCCCEECCCCCHHHHHHHHCCC
T ss_conf 99976508998141683799999998379
No 78
>COG3705 HisZ ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]
Probab=92.33 E-value=0.29 Score=30.19 Aligned_cols=108 Identities=19% Similarity=0.219 Sum_probs=70.0
Q ss_pred HHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCC-CCCHHHHHHHH-
Q ss_conf 8999999999999873987623723415889888618988773316331277505666556322446-76305555430-
Q gi|254780317|r 117 PVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTH-TSPVQIRVMES- 194 (366)
Q Consensus 117 PItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRth-TS~vQiR~m~~- 194 (366)
-...+.+++.+.|..-||+-++-|-+|- -|.|.---.|=.| +-+|=+.+. .+..++||.- |.||-=.+-..
T Consensus 19 ~~~~i~~~l~~~f~~~Gy~~v~tP~lE~----~d~~l~~~g~~l~--~~~f~l~d~-~g~~l~LRpD~T~pVaR~~~~~~ 91 (390)
T COG3705 19 RKEEIRDQLLALFRAWGYERVETPTLEP----ADPLLDGAGEDLR--RRLFKLEDE-TGGRLGLRPDFTIPVARIHATLL 91 (390)
T ss_pred HHHHHHHHHHHHHHHHCCCCCCCCCCCH----HHHHHHCCCHHHH--HHHEEEECC-CCCEEEECCCCCHHHHHHHHHHC
T ss_conf 4799999999999980874046631340----2665402225555--220687657-89768835433089999999823
Q ss_pred CCCEEEEEECCCCCCCCCCCCCCC-CCCCCCEEEECCC
Q ss_conf 363122541057647454421378-1002005786178
Q gi|254780317|r 195 QDLPIKVIVPGKTYRRDSDSTHSP-MFHQIEGLVVSDS 231 (366)
Q Consensus 195 ~~pP~~~~~~GrvyR~d~D~tH~~-~FhQ~egl~v~~~ 231 (366)
..-|.|.-.-|+|||..+..--.. +|.|+--=.++.+
T Consensus 92 ~~~P~Rl~Y~G~Vfr~~~~~~g~~~Ef~QaGiEllG~~ 129 (390)
T COG3705 92 AGTPLRLSYAGKVFRAREGRHGRRAEFLQAGIELLGDD 129 (390)
T ss_pred CCCCCEEEECCHHHHCCHHCCCCCCCHHHHHHHHHCCC
T ss_conf 78871466401454020102676420455336773787
No 79
>PRK13902 alaS lanyl-tRNA synthetase; Provisional
Probab=91.54 E-value=1.4 Score=25.22 Aligned_cols=13 Identities=31% Similarity=0.309 Sum_probs=6.4
Q ss_pred HHHHHHHCCCEEE
Q ss_conf 9999987398762
Q gi|254780317|r 125 VTCIFMDMGFALE 137 (366)
Q Consensus 125 I~~IF~~lGF~v~ 137 (366)
+.+|-.+.|++|-
T Consensus 449 t~eia~e~gi~vD 461 (898)
T PRK13902 449 VKEIAKKKGVEVE 461 (898)
T ss_pred HHHHHHHCCCCCC
T ss_conf 9999998298014
No 80
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=91.08 E-value=0.11 Score=33.18 Aligned_cols=22 Identities=36% Similarity=0.797 Sum_probs=19.9
Q ss_pred EEECCHHHHHHHHCCCCCHHHH
Q ss_conf 6313446997997389705876
Q gi|254780317|r 319 AWGMGLDRIAMLKYGMPDVREF 340 (366)
Q Consensus 319 AfG~G~eRlaml~~gi~diR~~ 340 (366)
.||||||||+||.-+-+-||+-
T Consensus 471 G~GiGIDRLvMllT~~~sIRdV 492 (502)
T COG1190 471 GLGIGIDRLVMLLTNSPSIRDV 492 (502)
T ss_pred CCCCCHHHHHHHHCCCCCHHHE
T ss_conf 7512577777777399855422
No 81
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=90.42 E-value=1.8 Score=24.49 Aligned_cols=130 Identities=14% Similarity=0.210 Sum_probs=73.0
Q ss_pred CCHHHHHHHHHHHHHHHCCCEEECCCEEEC-------HHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCH
Q ss_conf 238999999999999873987623723415-------8898886189887733163312775056665563224467630
Q gi|254780317|r 115 IHPVTQVIDEVTCIFMDMGFALEEGSDIET-------DYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPV 187 (366)
Q Consensus 115 ~HPItqvi~eI~~IF~~lGF~v~eGPEIEt-------d~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~v 187 (366)
......+.+-+++.....||+.+.-|.|-+ ..|..=.=|+ --++-+ .++...|+.=+-|.
T Consensus 208 ~~i~~~le~~~r~~~~~~Gy~eV~TP~i~~~~Lw~~SGH~~~Y~e~M---------f~~~~~----~~e~~~lKPMNCP~ 274 (576)
T PRK12305 208 MIIKNAIRKFILELDRKYGFDEVLTPHFGEKKLYKTSGHLDHYKDDM---------FKPLKI----ENEELIPRPMTCPH 274 (576)
T ss_pred HHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHCCCHHHHHHHC---------CCCEEC----CCCEEEECCCCCHH
T ss_conf 89999999999999998699898464214288997666465566425---------730631----56416535778632
Q ss_pred HHHHHH----H-CCCEEEEEECCCCCCCCC-CCCC----CCCCCCCCEEE-ECCCC---CHHHHHHHHHHHHHHHCCCCC
Q ss_conf 555543----0-363122541057647454-4213----78100200578-61786---689998899999999708886
Q gi|254780317|r 188 QIRVME----S-QDLPIKVIVPGKTYRRDS-DSTH----SPMFHQIEGLV-VSDSA---TIANLRWVLESFCKSFFEVSS 253 (366)
Q Consensus 188 QiR~m~----~-~~pP~~~~~~GrvyR~d~-D~tH----~~~FhQ~egl~-v~~~i---~~~~lk~~l~~~~~~~fg~~~ 253 (366)
.+-.-. + ...|+|+.=.|.|||++. -+.| .-.|+|=++-+ +..+= .+..+...+...++ .||-++
T Consensus 275 H~~if~~~~rSYRdLPlR~aEfg~~~R~E~SG~L~GL~RvR~FtqDDAHIFct~dQi~~Ei~~~l~~i~~vy~-~fGf~~ 353 (576)
T PRK12305 275 HIILYSNELRSYRDLPIRLSEQSRLYRYEKSGALTGLERVRAMDLTEGHIFVRKDQIESEVKHLFKMIQEALS-IFKIKI 353 (576)
T ss_pred HHHHHHCCCCCHHHCCHHHHCCCCEECCCCCCCCCCCCCCCCCCCCCCCEEECHHHHHHHHHHHHHHHHHHHH-HCCCCC
T ss_conf 6777642775444324220004435447888655575546688768712120899999999999999999998-539873
Q ss_pred CEEEE
Q ss_conf 62645
Q gi|254780317|r 254 LQMRF 258 (366)
Q Consensus 254 ~~~r~ 258 (366)
..+++
T Consensus 354 ~~~~l 358 (576)
T PRK12305 354 FYISL 358 (576)
T ss_pred CEEEE
T ss_conf 15899
No 82
>PRK00252 alaS alanyl-tRNA synthetase; Reviewed
Probab=89.96 E-value=0.36 Score=29.52 Aligned_cols=16 Identities=31% Similarity=0.283 Sum_probs=6.5
Q ss_pred CCHHHHHHHHHHHHHHH
Q ss_conf 66899988999999997
Q gi|254780317|r 232 ATIANLRWVLESFCKSF 248 (366)
Q Consensus 232 i~~~~lk~~l~~~~~~~ 248 (366)
+|-.+|+.+ +..+...
T Consensus 593 lt~eel~~i-E~~vN~~ 608 (864)
T PRK00252 593 LTPEELRQV-EDLVNEQ 608 (864)
T ss_pred CCHHHHHHH-HHHHHHH
T ss_conf 999999999-9999999
No 83
>pfam11802 CENP-K Centromere-associated protein K. CENP-K is one of seven new CENP-A-nucleosome distal (CAD) centromere components (the others being CENP-L, CENP-O, CENP-P, CENP-Q, CENP-R and CENP-S) that are identified as assembling on the CENP-A nucleosome associated complex, NAC. The CENP-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival despite continued centromere-derived mitotic checkpoint signalling. CENP-K is centromere-associated through its interaction with one or more components of the CENP-A NAC.
Probab=88.90 E-value=2.3 Score=23.70 Aligned_cols=25 Identities=8% Similarity=0.121 Sum_probs=16.5
Q ss_pred HHHHHHHHHHHHHCCCEEECCCEEE
Q ss_conf 9999999999987398762372341
Q gi|254780317|r 119 TQVIDEVTCIFMDMGFALEEGSDIE 143 (366)
Q Consensus 119 tqvi~eI~~IF~~lGF~v~eGPEIE 143 (366)
-.++.+|.++..+-++.+...|.|.
T Consensus 213 litL~EilE~LiN~~~d~PhdPYv~ 237 (273)
T pfam11802 213 LITLHEILEILINRLMDTPHDPYVK 237 (273)
T ss_pred HHHHHHHHHHHHHCCCCCCCCCCEE
T ss_conf 2109999999986066899999443
No 84
>TIGR00458 aspS_arch aspartyl-tRNA synthetase; InterPro: IPR004523 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; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Aspartyl tRNA synthetase 6.1.1.12 from EC is an alpha2 dimer that belongs to class IIb. Structural analysis combined with mutagenesis and enzymology data on the yeast enzyme point to a tRNA binding process that starts by a recognition event between the tRNA anticodon loop and the synthetase anticodon binding module . This family 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). ; GO: 0000166 nucleotide binding, 0004815 aspartate-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006422 aspartyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=88.76 E-value=0.19 Score=31.65 Aligned_cols=220 Identities=17% Similarity=0.282 Sum_probs=112.1
Q ss_pred HHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEE
Q ss_conf 76667654310000011232122674238999999999999873987623723415889888618988773316331277
Q gi|254780317|r 89 LIFEQISSQSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFF 168 (366)
Q Consensus 89 ~~~~kl~~E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFy 168 (366)
.+..+|....+|+--| ....=-..=++++.-++.++..-||..+..|-+-..-- -=.-+...-=|
T Consensus 134 ~ldTRLd~R~~DLR~~-----~~~AIF~I~~~~~~~vR~~L~~~~F~Ev~TPKlv~~~t----------EGGt~lF~i~Y 198 (466)
T TIGR00458 134 NLDTRLDARFLDLRRP-----KVQAIFRIRSEVLESVREFLAEEGFIEVHTPKLVASAT----------EGGTELFPITY 198 (466)
T ss_pred EECCCHHHHHHHCCCC-----CHHHHHHHHHHHHHHHHHHHHHCCCEEEECCCEEECCC----------CCCCCCCEEEE
T ss_conf 3001110001102565-----40212556899999999987308825630762142166----------88853320122
Q ss_pred EECCCCCCCCCCCCCCCCHHHH-HHHHCCCEEEEEECCCCCCCCCCCC--CCCCCCCCCEE-------------------
Q ss_conf 5056665563224467630555-5430363122541057647454421--37810020057-------------------
Q gi|254780317|r 169 VPGIAGGKHKLLRTHTSPVQIR-VMESQDLPIKVIVPGKTYRRDSDST--HSPMFHQIEGL------------------- 226 (366)
Q Consensus 169 l~~~~~~~~~lLRthTS~vQiR-~m~~~~pP~~~~~~GrvyR~d~D~t--H~~~FhQ~egl------------------- 226 (366)
++.. -.| --||=--+ .|-..+. =|++-+|=|||-|...| |..++-.++-=
T Consensus 199 F~~~----AfL---~QSPQlyKQ~l~~~g~-~rVyEI~PiFRAE~~nT~RHl~E~~siDiE~~F~dhy~~v~d~L~~lv~ 270 (466)
T TIGR00458 199 FERE----AFL---GQSPQLYKQVLMAAGL-ERVYEIGPIFRAEEHNTRRHLNEAISIDIEMAFEDHYEDVMDILEELVV 270 (466)
T ss_pred ECCC----CCC---CCCCHHHHHHHHHCCC-CCEEEECCEEECCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 1230----001---3570356687765265-2035505522056665214554444422444427537899999999999
Q ss_pred ------------------------------------------------------EECCCCCHHHHHHHHHHHHHHHCC--
Q ss_conf ------------------------------------------------------861786689998899999999708--
Q gi|254780317|r 227 ------------------------------------------------------VVSDSATIANLRWVLESFCKSFFE-- 250 (366)
Q Consensus 227 ------------------------------------------------------~v~~~i~~~~lk~~l~~~~~~~fg-- 250 (366)
--++|+|-...|.+= .+++.-.+
T Consensus 271 ~~~~dv~~~~~~e~el~r~~~~~~~~~le~P~~~~~Rl~Y~Ea~e~~~~~G~ei~~gEDLs~~a~K~~G-~l~re~~~g~ 349 (466)
T TIGR00458 271 RVFEDVAEKCAKEIELVRKELETLEVKLEVPEEKFERLTYDEAIEIANAKGKEIKWGEDLSTEAEKALG-KLVREEMDGL 349 (466)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCCCEECCCCCCCCCCCCHHHHHHHHHCCCCCCCCCCCCHHHHHHHH-HHHHHHHCCC
T ss_conf 999999988788899998752102313248887555322077899998659715554665435788764-7887742761
Q ss_pred --CCC-CEEEEEECCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEE-CCCCCCHH-----HHHHCCCCCCC--E----
Q ss_conf --886-626454238898526610367875058804224688348984-57563888-----99856988000--3----
Q gi|254780317|r 251 --VSS-LQMRFRPSFFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEIL-GCGMVDPR-----VLRGVGIDPDI--Y---- 315 (366)
Q Consensus 251 --~~~-~~~r~rp~~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~-g~Gm~~p~-----vl~~~g~d~~~--~---- 315 (366)
.-+ --.-.||=| |=|.-|-+=.. |.. ..=--+|+||. ||-=||-- -++.-|+.|+. +
T Consensus 350 yfI~d~wP~ei~PFY---~MPd~E~~P~~--s~~---fDl~~~~~Ei~SGA~RiH~~dlL~E~iK~~Gl~P~dp~~~~Yl 421 (466)
T TIGR00458 350 YFITDKWPTEIRPFY---TMPDDEDNPEI--SKS---FDLMYRDLEISSGAQRIHLYDLLVEKIKAKGLNPEDPGFKDYL 421 (466)
T ss_pred EEEEECCCCCCCCCC---CCCCCCCCCCC--CHH---HHHHHCCCHHCCHHHHHHHHHHHHHHHHHCCCCCCCCCHHHHH
T ss_conf 687405876467621---38886567860--014---4433311011000345445888899998458898853368787
Q ss_pred EE--------EEEECCHHHHHHHHCCCCCHHHH
Q ss_conf 79--------96313446997997389705876
Q gi|254780317|r 316 QG--------FAWGMGLDRIAMLKYGMPDVREF 340 (366)
Q Consensus 316 ~g--------~AfG~G~eRlaml~~gi~diR~~ 340 (366)
.| -.||+|.||+.|...+..+||.-
T Consensus 422 ~aF~YG~PPHAGwGlG~eR~~M~~~~lkNiR~~ 454 (466)
T TIGR00458 422 EAFKYGMPPHAGWGLGAERLVMVLLGLKNIREA 454 (466)
T ss_pred HHCCCCCCCCCCCCCHHHHHHHHHHCCHHHHHH
T ss_conf 330478478887641067888877401011220
No 85
>PRK03772 threonyl-tRNA synthetase; Validated
Probab=87.95 E-value=2.6 Score=23.27 Aligned_cols=126 Identities=13% Similarity=0.227 Sum_probs=76.9
Q ss_pred CCHHHHHHHHHHHHHHHCCCEEECCCEEEC----------HHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCC
Q ss_conf 238999999999999873987623723415----------8898886189887733163312775056665563224467
Q gi|254780317|r 115 IHPVTQVIDEVTCIFMDMGFALEEGSDIET----------DYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHT 184 (366)
Q Consensus 115 ~HPItqvi~eI~~IF~~lGF~v~eGPEIEt----------d~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthT 184 (366)
-.....+.+-+++....-||+.+..|.|-. ++|. |.++.+. . .++...|+.-+
T Consensus 271 ~~i~~~le~~~r~~~~~~Gy~eV~TP~i~~~~Lw~~SGH~~~Y~-e~Mf~~~---------------~-e~~ey~lKPMN 333 (642)
T PRK03772 271 WTIFRELEVFVRSKLKEYQYQEVKGPFMMDRVLWEKTGHWDNYA-DAMFTTS---------------S-ENREYAIKPMN 333 (642)
T ss_pred HHHHHHHHHHHHHHHHHCCCEEEECCHHCCHHHHHHCCHHHHHH-CCCCCCC---------------C-CHHHHCCCCCC
T ss_conf 89999999999999998698598554321377887344476641-0342234---------------2-01443046778
Q ss_pred CCHHHHHHHH-----CCCEEEEEECCCCCCCCC-CCCC----CCCCCCCCEEEE--CCCC--CHHHHHHHHHHHHHHHCC
Q ss_conf 6305555430-----363122541057647454-4213----781002005786--1786--689998899999999708
Q gi|254780317|r 185 SPVQIRVMES-----QDLPIKVIVPGKTYRRDS-DSTH----SPMFHQIEGLVV--SDSA--TIANLRWVLESFCKSFFE 250 (366)
Q Consensus 185 S~vQiR~m~~-----~~pP~~~~~~GrvyR~d~-D~tH----~~~FhQ~egl~v--~~~i--~~~~lk~~l~~~~~~~fg 250 (366)
-|.-+-.-.+ ...|+|+.-.|.|||++. -+.| .-.|+|=++=+- ...| -+......+...++. ||
T Consensus 334 CP~H~~iy~~~~rSYRdLPlR~aEfg~~~R~E~SG~L~GL~RVR~FtqdDaHIFC~~dQi~~Ei~~~l~~~~~vy~~-fG 412 (642)
T PRK03772 334 CPGHVQIFNQGLKSYRDLPLRMAEFGSCHRNEPSGSLHGLMRVRGFTQDDAHIFCTEEQIRDEVNSCIKMVYDMYST-FG 412 (642)
T ss_pred CHHHHHHHHCCCCCHHHCCHHHHHHHHHHCCCCCCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHHHHHHHHHHHHH-CC
T ss_conf 73488998616643443654555411343166665534745688998788435537899999999999999999997-39
Q ss_pred CCCCEEEE
Q ss_conf 88662645
Q gi|254780317|r 251 VSSLQMRF 258 (366)
Q Consensus 251 ~~~~~~r~ 258 (366)
-++..+++
T Consensus 413 f~~~~~~L 420 (642)
T PRK03772 413 FEKIVVKL 420 (642)
T ss_pred CCEEEEEE
T ss_conf 86389996
No 86
>KOG2298 consensus
Probab=87.34 E-value=0.44 Score=28.92 Aligned_cols=114 Identities=24% Similarity=0.397 Sum_probs=70.0
Q ss_pred CCCCCCCCCCCCCHHH----HHHHH--CCCEEEEEECCCCCCCCC-CCC---CCCCCCCCCE--E---------------
Q ss_conf 6556322446763055----55430--363122541057647454-421---3781002005--7---------------
Q gi|254780317|r 174 GGKHKLLRTHTSPVQI----RVMES--QDLPIKVIVPGKTYRRDS-DST---HSPMFHQIEG--L--------------- 226 (366)
Q Consensus 174 ~~~~~lLRthTS~vQi----R~m~~--~~pP~~~~~~GrvyR~d~-D~t---H~~~FhQ~eg--l--------------- 226 (366)
+.-+.-||.-|--.|- |.++= .+.|+..-++|+.|||+- .+. |-.+|.+.|- +
T Consensus 179 G~~kgyLRPETAQG~FlNFkrlle~N~~KlPFA~AqiG~~fRNEISpRsGLlRvrEF~maEIEHFvdP~~K~h~kF~~V~ 258 (599)
T KOG2298 179 GGLKGYLRPETAQGQFLNFKRLLEFNQGKLPFASAQIGKSFRNEISPRSGLLRVREFTMAEIEHFVDPLLKSHPKFSLVA 258 (599)
T ss_pred CCCCCCCCCCCCCCCCCCHHHHHHHCCCCCCCHHHHHCHHHHHCCCCCCCCEEEEEEEHHHHHCCCCCCCCCCHHHHHHH
T ss_conf 78554327400123101489998752887763488746576513375557436787546776534897777873666554
Q ss_pred -------------------------EECC----CCCHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCEEEE---
Q ss_conf -------------------------8617----86689998899999999708886626454238898526610367---
Q gi|254780317|r 227 -------------------------VVSD----SATIANLRWVLESFCKSFFEVSSLQMRFRPSFFPFTEPSFEVDV--- 274 (366)
Q Consensus 227 -------------------------~v~~----~i~~~~lk~~l~~~~~~~fg~~~~~~r~rp~~fPftePs~Evdv--- 274 (366)
.|.+ |-|++-..|-+..|+-.+ |.+.-++|||-+. +-||--
T Consensus 259 ~~~l~l~~~~~q~~g~~a~~~~lgEaV~kg~V~netlGyfi~Ri~~fL~~l-Gid~~rlRFRqH~------~nEMAHYA~ 331 (599)
T KOG2298 259 AEKLRLFPRDKQLSGQSAQKVALGEAVAKGTVNNETLGYFIGRIYLFLNKL-GIDKERLRFRQHM------ANEMAHYAF 331 (599)
T ss_pred HHHHHHCCHHHHHCCCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHH-CCCHHHCCHHHHH------HHHHHHHHC
T ss_conf 315542332344346505674798998760445303678899999999984-7655321067776------533333301
Q ss_pred EEECCCCEEEECCCCCEEEEECCC
Q ss_conf 875058804224688348984575
Q gi|254780317|r 275 RCSFSDGIIKFDEGTEWMEILGCG 298 (366)
Q Consensus 275 ~~~~~~~~~~~~~~~~WiEi~g~G 298 (366)
-||-..-+|+ -||||.-||-
T Consensus 332 DCWDaEi~tS----YGWIEcVG~A 351 (599)
T KOG2298 332 DCWDAEIKTS----YGWIECVGCA 351 (599)
T ss_pred CCCCHHHHHC----CCCEEEEECC
T ss_conf 5322324210----2757874104
No 87
>KOG2411 consensus
Probab=86.07 E-value=3 Score=22.84 Aligned_cols=92 Identities=17% Similarity=0.329 Sum_probs=46.2
Q ss_pred CCCCHHHHHHHHHHHHHHHC-CCEEECCCEEECHHHHHHHHCCCCC-----CCCCCCCCEEEEECCCCCCCCCCCCCCCC
Q ss_conf 74238999999999999873-9876237234158898886189887-----73316331277505666556322446763
Q gi|254780317|r 113 GRIHPVTQVIDEVTCIFMDM-GFALEEGSDIETDYYNFAALNFPDD-----HPARQMHDTFFVPGIAGGKHKLLRTHTSP 186 (366)
Q Consensus 113 G~~HPItqvi~eI~~IF~~l-GF~v~eGPEIEtd~~NFdaLNiP~~-----HPARdmqDTFyl~~~~~~~~~lLRthTS~ 186 (366)
-.+---+++..+|+.+|... ||..+|-|-+ |- -+|.. -|+|..--.||-= --||
T Consensus 176 ~nLrlRS~~v~~iR~yl~n~~GFvevETPtL------Fk--rTPgGA~EFvVPtr~~~g~FYaL------------pQSP 235 (628)
T KOG2411 176 NNLRLRSNVVKKIRRYLNNRHGFVEVETPTL------FK--RTPGGAREFVVPTRTPRGKFYAL------------PQSP 235 (628)
T ss_pred HHHHHHHHHHHHHHHHHHHHCCEEECCCCCH------HC--CCCCCCCEEECCCCCCCCCEEEC------------CCCH
T ss_conf 7899999999999999861047355157202------01--48886412322367898855536------------8898
Q ss_pred HHHHHHHHCCCEEEEEECCCCCCCCC-CCCCCCCCCCCC
Q ss_conf 05555430363122541057647454-421378100200
Q gi|254780317|r 187 VQIRVMESQDLPIKVIVPGKTYRRDS-DSTHSPMFHQIE 224 (366)
Q Consensus 187 vQiR~m~~~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~e 224 (366)
-|-..|.--..=-|++-+.||||-|. -+-.-|+|.|++
T Consensus 236 QQfKQlLMvsGidrYyQiARCfRDEdlR~DRQPEFTQvD 274 (628)
T KOG2411 236 QQFKQLLMVSGIDRYYQIARCFRDEDLRADRQPEFTQVD 274 (628)
T ss_pred HHHHHHHHHHCHHHHHHHHHHHCCCCCCCCCCCCCEEEE
T ss_conf 999999987230367767766413456765687643544
No 88
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=84.02 E-value=4 Score=21.91 Aligned_cols=140 Identities=16% Similarity=0.229 Sum_probs=76.7
Q ss_pred CCHHHHHHHHHHHHHHHCCCEEECCCEEECH-HHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHH
Q ss_conf 2389999999999998739876237234158-898886189887733163312775056665563224467630555543
Q gi|254780317|r 115 IHPVTQVIDEVTCIFMDMGFALEEGSDIETD-YYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVME 193 (366)
Q Consensus 115 ~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd-~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m~ 193 (366)
-.....+.+-+++.....||+.+..|.|-.. .|- --.|=.-- .|..|......++...|+.-+-|..+-.-.
T Consensus 268 ~~i~~~le~~~r~~~~~~Gy~eV~TP~i~~~~Lw~------~SGHw~~Y-~e~Mf~~~~~~~~~~~lKPMNCP~H~~if~ 340 (639)
T PRK00413 268 WIIRNELEDYMRRRHLKAGYQEVNTPHILDRSLWE------TSGHWDHY-RENMFPTMSDDGEDYALKPMNCPGHILIFK 340 (639)
T ss_pred HHHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHH------HCCCHHHH-CCCCCCCEECCCCEEEECCCCCCCHHHHHH
T ss_conf 99999999999999998698598364134688996------54742232-254223240152103204668700335644
Q ss_pred H-----CCCEEEEEECCCCCCCCC-CCCC----CCCCCCCCEEEEC--CCC--CHHHHHHHHHHHHHHHCCCCCCEEEEE
Q ss_conf 0-----363122541057647454-4213----7810020057861--786--689998899999999708886626454
Q gi|254780317|r 194 S-----QDLPIKVIVPGKTYRRDS-DSTH----SPMFHQIEGLVVS--DSA--TIANLRWVLESFCKSFFEVSSLQMRFR 259 (366)
Q Consensus 194 ~-----~~pP~~~~~~GrvyR~d~-D~tH----~~~FhQ~egl~v~--~~i--~~~~lk~~l~~~~~~~fg~~~~~~r~r 259 (366)
+ ...|+|+.-.|.|||+|. -+.| .-.|+|=++=+-- ..| -+.+....+...++. ||-++ .+++
T Consensus 341 ~~~~SYRdLPlR~aEfg~~~R~E~SG~L~GL~RvR~FtqdDaHIFc~~dQi~~Ei~~~l~~~~~vy~~-fGf~~--~~~~ 417 (639)
T PRK00413 341 SGLRSYRELPLRLAEFGTVHRYEKSGALHGLMRVRGFTQDDAHIFCTPEQIKDELLSVLDLILSVYKD-FGLTD--YYLE 417 (639)
T ss_pred CCCCCHHHCCHHHHHHHHHHCCCCCCCCCCEEEEEEEECCCCEEECCHHHHHHHHHHHHHHHHHHHHH-CCCCE--EEEE
T ss_conf 35535554755666411320567787445642330000158413247899999999999999999997-49980--3899
Q ss_pred ECCCC
Q ss_conf 23889
Q gi|254780317|r 260 PSFFP 264 (366)
Q Consensus 260 p~~fP 264 (366)
-|.-|
T Consensus 418 lStrp 422 (639)
T PRK00413 418 LSTRP 422 (639)
T ss_pred EECCC
T ss_conf 96475
No 89
>TIGR00499 lysS_bact lysyl-tRNA synthetase; InterPro: IPR002313 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; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Lysyl-tRNA synthetase (6.1.1.6 from EC) is an alpha 2 homodimer that belong to both class I and class II. In eubacteria and eukaryota lysyl-tRNA synthetases belong to class II in the same family as aspartyl tRNA synthetase. The class Ic lysyl-tRNA synthetase family is present in archaea and some eubacteria . Moreover in some eubacteria there is a gene X, which is similar to a part of lysyl-tRNA synthetase from class II. Lysyl-tRNA synthetase is duplicated in some species with, for example in E. coli, as a constitutive gene (lysS) and an induced one (lysU). No residues are directly involved in catalysis, but a number of highly conserved amino acids and three metal ions coordinate the substrates and stabilise the pentavalent transition state. Lysine is activated by being attached to the alpha-phosphate of AMP before being transferred to the cognate tRNA. The refined crystal structures give "snapshots" of the active site corresponding to key steps in the aminoacylation reaction and provide the structural framework for understanding the mechanism of lysine activation. The active site of LysU is shaped to position the substrates for the nucleophilic attack of the lysine carboxylate on the ATP alpha-phosphate. No residues are directly involved in catalysis, but a number of highly conserved amino acids and three metal ions coordinate the substrates and stabilise the pentavalent transition state. A loop close to the catalytic pocket, disordered in the lysine-bound structure, becomes ordered upon adenine binding .; GO: 0000166 nucleotide binding, 0004824 lysine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006430 lysyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=83.28 E-value=1.1 Score=26.06 Aligned_cols=137 Identities=20% Similarity=0.213 Sum_probs=82.7
Q ss_pred HHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEE
Q ss_conf 66765431000001123212267423899999999999987398762372341588988861898877331633127750
Q gi|254780317|r 91 FEQISSQSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVP 170 (366)
Q Consensus 91 ~~kl~~E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~ 170 (366)
..+.....+|+..- +...-..-.-++++.-++.++..-||-.++.|-+...--.-.|--+-.+|-|-++.
T Consensus 170 e~~~~~~~~d~~~n----~~~~~~~~~~~~~~~~~~~~~~~~g~~e~e~p~~~~~~gg~~~~pf~~~~n~~~~~------ 239 (538)
T TIGR00499 170 ETRYRQRYLDLIVN----PDSRDTFLKRSKIIAAIRRFLDDRGFLEVETPLLQVIPGGANARPFITHHNALDLD------ 239 (538)
T ss_pred HHHHHHHHHHHHCC----CHHHHHHHHHHHHHHHHHHHHHHCCCEEECCCHHHCCCCCCCCCCCEECCCCCCCC------
T ss_conf 67777655433105----02466778899999999998762484221131010126765446501002322442------
Q ss_pred CCCCCCCCCCCCCCCCHHHHHHHHCCCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHH
Q ss_conf 566655632244676305555430363122541057647454-421378100200578617866899988999999997
Q gi|254780317|r 171 GIAGGKHKLLRTHTSPVQIRVMESQDLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSF 248 (366)
Q Consensus 171 ~~~~~~~~lLRthTS~vQiR~m~~~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~ 248 (366)
.-||--..-.--|.+.. .--+++-.||+||++- |.+|.|+|..+|-...-.+ +.++....+.+++.+
T Consensus 240 -------~~~~~~~e~~l~~l~~g--g~~~~~e~g~~f~neg~~~~hnpef~~~e~y~~~~~--~~~~~~~~~~l~~~~ 307 (538)
T TIGR00499 240 -------LYLRIAPELYLKRLVVG--GLEKVYEIGRNFRNEGVDTTHNPEFTSLEFYQAYAD--YEDLLDLTENLFKFL 307 (538)
T ss_pred -------HHHHHHHHHHHHHHHHC--CHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHH--HHHHHHHHHHHHHHH
T ss_conf -------12112257788777640--136778764333104665445753024556776510--889999899999999
No 90
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=81.24 E-value=5 Score=21.18 Aligned_cols=134 Identities=13% Similarity=0.139 Sum_probs=79.8
Q ss_pred HHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHH--
Q ss_conf 899999999999987398762372341588988861898877331633127750566655632244676305555430--
Q gi|254780317|r 117 PVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVMES-- 194 (366)
Q Consensus 117 PItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m~~-- 194 (366)
....+.+-+++...+.|+..+++|.+=+- .|---..|-++-- |-.|.-. ..++...||.-.-+.|+..+..
T Consensus 229 i~~lle~Yv~~~~~~~G~~eV~TP~m~d~-----~~~~~sgH~~~f~-e~my~~~-~d~~~~~LrpmnCpgh~~i~~~~~ 301 (613)
T PRK03991 229 MKDLLEDYVYNLVKELGAMPVETPNMYDL-----SHPAIREHADKFG-ERQYRVK-SDKKDLMLRFAACFGQFAMLKDMT 301 (613)
T ss_pred HHHHHHHHHHHHHHHCCCEEEECCCEEEC-----CCCHHHHHHHHHC-CCCEEEE-CCCHHHCCCCCCCCCCEEEECCCC
T ss_conf 99999999999998639668457616405-----5402556887611-1342563-276332304457863123510244
Q ss_pred ---CCCEEEEEECCCC-CCCCC-CCCCC----CCCCCCCEEEECCC---C--CHHHHHHHHHHHHHHHCCCCCCEEEEE
Q ss_conf ---3631225410576-47454-42137----81002005786178---6--689998899999999708886626454
Q gi|254780317|r 195 ---QDLPIKVIVPGKT-YRRDS-DSTHS----PMFHQIEGLVVSDS---A--TIANLRWVLESFCKSFFEVSSLQMRFR 259 (366)
Q Consensus 195 ---~~pP~~~~~~Grv-yR~d~-D~tH~----~~FhQ~egl~v~~~---i--~~~~lk~~l~~~~~~~fg~~~~~~r~r 259 (366)
+..|+|+.-.|+| ||+|. -+.|- -.|+|=++=+.=++ + -+.++...+...++. ||. +..+.+|
T Consensus 302 ~SYRdLPlRl~E~g~~syR~E~SG~L~GL~RVR~FTqdDaHIFC~~~dQi~~E~~~~~~li~~v~~~-fG~-~y~~~~r 378 (613)
T PRK03991 302 ISYKNLPLKMYELSDYSFRLEQRGELVGLKRLRAFTMPDMHTLCKDMDEAMEEFEKQHKLILETGRD-LGR-DYEVAFR 378 (613)
T ss_pred CCHHHCCHHHHHHCCCEEECCCCCCEECEEEEECCCCCCCEECCCCHHHHHHHHHHHHHHHHHHHHH-CCC-CEEEEEC
T ss_conf 5743264677652242021256774444013323566861131687789999999999999999986-397-6379970
No 91
>KOG0554 consensus
Probab=80.44 E-value=0.96 Score=26.45 Aligned_cols=112 Identities=19% Similarity=0.270 Sum_probs=60.8
Q ss_pred HHHHHHHHHHHCCCEEECCCEEECH-----HHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHHC
Q ss_conf 9999999998739876237234158-----89888618988773316331277505666556322446763055554303
Q gi|254780317|r 121 VIDEVTCIFMDMGFALEEGSDIETD-----YYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVMESQ 195 (366)
Q Consensus 121 vi~eI~~IF~~lGF~v~eGPEIEtd-----~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m~~~ 195 (366)
+.-.+.++|.+-+|..+.-|-|.+. ---|+.--. . |++-.||= ...-| |-.+-.+..+|...
T Consensus 138 ~~~a~h~ffq~~~F~~i~tPiiTtnDCEGaGE~F~Vtt~--~----d~~~~fFg------rp~fL-TVSgQLhlEa~a~a 204 (446)
T KOG0554 138 LAFATHSFFQSHDFTYINTPIITTNDCEGAGEVFQVTTL--T----DYSKDFFG------RPAFL-TVSGQLHLEAMACA 204 (446)
T ss_pred HHHHHHHHHHHCCCEEECCCEEECCCCCCCCCEEEEEEC--C----CCCCCCCC------CCEEE-EEECEEHHHHHHHH
T ss_conf 999999999875946733867634577787405898746--8----65433148------85079-97132159988755
Q ss_pred CCEEEEEECCCCCCCCC--CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHH
Q ss_conf 63122541057647454--421378100200578617866899988999999997
Q gi|254780317|r 196 DLPIKVIVPGKTYRRDS--DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSF 248 (366)
Q Consensus 196 ~pP~~~~~~GrvyR~d~--D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~ 248 (366)
- -|+...|-+||-|. -+.|+.+|+-+|.=+.=-+ ++.|+..+++..++++
T Consensus 205 L--srvyt~gP~FRAE~s~t~rHLaEFwmlE~E~af~~-sl~d~~~~~e~~~k~m 256 (446)
T KOG0554 205 L--SRVYTFGPTFRAENSHTSRHLAEFWMLEAELAFAE-SLDDLMSCAEAYIKHM 256 (446)
T ss_pred H--CCEEEECCCEECCCCCCHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHH
T ss_conf 2--32376166132267875467765652427887888-8888889999999999
No 92
>PRK13696 hypothetical protein; Provisional
Probab=80.16 E-value=5.3 Score=21.04 Aligned_cols=62 Identities=16% Similarity=0.295 Sum_probs=42.9
Q ss_pred HHHHHHHHHHHCCCHHHHHHHHHHHC-CCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH
Q ss_conf 99999999850699899999999980-864068999876158998899999999999999999
Q gi|254780317|r 14 IRSSLYNSIASVTDMDSLNAIRVATL-GRKGSISSLLKDLKNLDSQQVSARGAILNQLKVDIS 75 (366)
Q Consensus 14 L~~e~~~~I~~a~~~~eLe~lrv~~L-GKKG~Lt~llK~Lk~Ls~EeKk~~Gk~iNelK~~Ie 75 (366)
|-+++...|...+...+.-++-.+++ .|+|.+..+++.+|.++.|+-.++-+.+-+++...+
T Consensus 8 IsddvY~~L~~iKg~kSFSEvI~eLi~~kk~nl~~l~~~fG~~~~ee~~~l~ke~~e~~~~~~ 70 (72)
T PRK13696 8 ISDDVYEELLSIKGDKSFSEVIRELIEPKKRNLDELMKAFGILSEEEVEKLKKELKEVEERFD 70 (72)
T ss_pred ECHHHHHHHHHHHCCCCHHHHHHHHHHHHHCCHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHH
T ss_conf 329999999988576749999999998700459999999814889999999999999999875
No 93
>KOG2509 consensus
Probab=77.29 E-value=6.6 Score=20.34 Aligned_cols=100 Identities=24% Similarity=0.429 Sum_probs=62.7
Q ss_pred CCCCCCCCCCHHH----HHHHHCCCEEEEEECCCCCCCCC-----CCC---CCCCCCCCCEEEECC-CCC---HHHHHHH
Q ss_conf 6322446763055----55430363122541057647454-----421---378100200578617-866---8999889
Q gi|254780317|r 177 HKLLRTHTSPVQI----RVMESQDLPIKVIVPGKTYRRDS-----DST---HSPMFHQIEGLVVSD-SAT---IANLRWV 240 (366)
Q Consensus 177 ~~lLRthTS~vQi----R~m~~~~pP~~~~~~GrvyR~d~-----D~t---H~~~FhQ~egl~v~~-~i~---~~~lk~~ 240 (366)
..|--|---|.-. +.+.....|+|+++.-+|||.++ |+. .-|+|.-||-+++-. .-| |..++..
T Consensus 241 ~~LiaTaE~plAa~~~~e~~~~~~lPiK~vg~S~CfR~EaGs~G~d~~GlyRVHqF~KVE~Fvit~Pe~S~~~~eEmi~~ 320 (455)
T KOG2509 241 KYLIATAEQPLAAYHRDEWLEEDQLPIKYVGVSRCFRAEAGSHGKDTKGLYRVHQFEKVEQFVITGPEDSWEMLEEMINN 320 (455)
T ss_pred CEEEEECCCHHHHHHCCCCCCCCCCCEEEEEHHHHHHHHHHHCCCCCCCCEEEEEEEEEEEEEECCCCHHHHHHHHHHHH
T ss_conf 22676211106665036403611276013430378887760046545551466520025788865853569999999999
Q ss_pred HHHHHHHHCCCCCCEEEEE--E---------------CCCCCCCCCCEEEEEEECCCC
Q ss_conf 9999999708886626454--2---------------388985266103678750588
Q gi|254780317|r 241 LESFCKSFFEVSSLQMRFR--P---------------SFFPFTEPSFEVDVRCSFSDG 281 (366)
Q Consensus 241 l~~~~~~~fg~~~~~~r~r--p---------------~~fPftePs~Evdv~~~~~~~ 281 (366)
-+.|+..+ | +..|.- | ++||.-.-=-|+ ++|.+|.-
T Consensus 321 ~eef~qsL-g---ip~rvl~m~S~eLg~aAakKyDiEAWmPgrg~ygEl-~ScSNCTD 373 (455)
T KOG2509 321 QEEFYQSL-G---LPYRVLNMPSGELGAAAAKKYDIEAWMPGRGAYGEL-VSCSNCTD 373 (455)
T ss_pred HHHHHHHH-C---CCEEEECCCCHHHCCHHHHHCCHHHHCCCCCCCCCC-CCCCCCHH
T ss_conf 99999980-9---960673477423376777512666526765532330-10146525
No 94
>cd03347 eu_PheOH Eukaryotic phenylalanine-4-hydroxylase (eu_PheOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes prokaryotic phenylalanine-4-hydroxylase (pro_PheOH), eukaryotic tyrosine hydroxylase (TyrOH) and eukaryotic tryptophan hydroxylase (TrpOH). PheOH catalyzes the first and rate-limiting step in the metabolism of the amino acid L-phenylalanine (L-Phe), the hydroxylation of L-Phe to L-tyrosine (L-Tyr). It uses (6R)-L-erythro-5,6,7,8-tetrahydrobiopterin (BH4) as the physiological electron donor. The catalytic activity of the tetrameric enzyme is tightly regulated by the binding of L-Phe and BH4 as well as by phosphorylation. Mutations in the human enzyme are linked to a severe variant of phenylketonuria.
Probab=76.47 E-value=2.8 Score=23.00 Aligned_cols=36 Identities=14% Similarity=0.289 Sum_probs=21.9
Q ss_pred CCHHHHHHHHHHC--------CCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf 6406899987615--------89988999999999999999999
Q gi|254780317|r 41 RKGSISSLLKDLK--------NLDSQQVSARGAILNQLKVDISG 76 (366)
Q Consensus 41 KKG~Lt~llK~Lk--------~Ls~EeKk~~Gk~iNelK~~Ie~ 76 (366)
|...|+.+-.+-+ ....+|.+..|...++|+..-..
T Consensus 39 RR~~ia~iA~~yk~G~pIP~veYT~~E~~tW~~V~~~L~~l~~~ 82 (306)
T cd03347 39 RRKEFADIAYNYKHGQPIPRVEYTEEEKKTWGTVFRELKSLYPT 82 (306)
T ss_pred HHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHH
T ss_conf 99999999875779998877265889999999999999998787
No 95
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=75.81 E-value=5.4 Score=20.97 Aligned_cols=17 Identities=35% Similarity=0.534 Sum_probs=8.9
Q ss_pred CCCCCCHHHHHHCCCCC
Q ss_conf 57563888998569880
Q gi|254780317|r 296 GCGMVDPRVLRGVGIDP 312 (366)
Q Consensus 296 g~Gm~~p~vl~~~g~d~ 312 (366)
-||.+|--.-+..|-||
T Consensus 627 ~~g~~HD~~~q~~g~~p 643 (715)
T COG1107 627 LSGEVHDRLVQKYGEDP 643 (715)
T ss_pred CCHHHHHHHHHHCCCCC
T ss_conf 42266533443047775
No 96
>PRK09405 aceE pyruvate dehydrogenase subunit E1; Reviewed
Probab=75.65 E-value=6.2 Score=20.52 Aligned_cols=97 Identities=15% Similarity=0.380 Sum_probs=68.6
Q ss_pred HH-HHHHHHHHHHHHHCCCCCCEEEE-EECC-CCCCCCCCEEEEEEECCCCEEEECC---CCCEEEEECCCCCCHHHHHH
Q ss_conf 89-99889999999970888662645-4238-8985266103678750588042246---88348984575638889985
Q gi|254780317|r 234 IA-NLRWVLESFCKSFFEVSSLQMRF-RPSF-FPFTEPSFEVDVRCSFSDGIIKFDE---GTEWMEILGCGMVDPRVLRG 307 (366)
Q Consensus 234 ~~-~lk~~l~~~~~~~fg~~~~~~r~-rp~~-fPftePs~Evdv~~~~~~~~~~~~~---~~~WiEi~g~Gm~~p~vl~~ 307 (366)
|+ .|-.++..=++.|++..+ .+=+ ---| =+|..|.+--++.-.++.|..+... ...=+-++|+|-+-++|+++
T Consensus 662 fayElavIv~~gl~rMy~~~e-dvfYYiT~~NEny~~P~~P~g~eegIikG~Y~~~~~~~~~~~vqLlgSG~il~evl~A 740 (886)
T PRK09405 662 FAYEVAVIVQDGLRRMYGEQE-NVFYYITVMNENYVQPAMPEGAEEGIIKGMYKLETGEGGKGKVQLLGSGTILREVIEA 740 (886)
T ss_pred HHHHHHHHHHHHHHHHHCCCC-CEEEEEECCCCCCCCCCCCCCHHHHHHHCEEECCCCCCCCCCEEEEECHHHHHHHHHH
T ss_conf 788999999999999953887-6499997467656686789862887863204423367889617999354989999999
Q ss_pred C-------CCCCCCEEEEEE------ECCHHHHHHHH
Q ss_conf 6-------988000379963------13446997997
Q gi|254780317|r 308 V-------GIDPDIYQGFAW------GMGLDRIAMLK 331 (366)
Q Consensus 308 ~-------g~d~~~~~g~Af------G~G~eRlaml~ 331 (366)
+ ||+.++||.--| |+-+||-.||-
T Consensus 741 a~~L~~d~gV~adVWSvTS~~ELrRd~~~~eR~N~L~ 777 (886)
T PRK09405 741 AEILAKDYGVAADVWSVTSFNELARDGQDVERWNMLH 777 (886)
T ss_pred HHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHHHHCC
T ss_conf 9999883198621895488899999899999997039
No 97
>pfam08549 SWI-SNF_Ssr4 Fungal domain of unknown function (DUF1750). This is a fungal domain of unknown function.
Probab=74.68 E-value=7.6 Score=19.87 Aligned_cols=43 Identities=23% Similarity=0.361 Sum_probs=26.7
Q ss_pred CCCCHHHHHHHHH---------------------HCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 0864068999876---------------------158998899999999999999999999999
Q gi|254780317|r 39 LGRKGSISSLLKD---------------------LKNLDSQQVSARGAILNQLKVDISGKISAR 81 (366)
Q Consensus 39 LGKKG~Lt~llK~---------------------Lk~Ls~EeKk~~Gk~iNelK~~Ie~~i~~k 81 (366)
||+||+|..|.++ .++|+++.-.+|.+.+++--.++++.|+.-
T Consensus 320 LGrkGELesLT~G~FdAP~~~~~~~~~~~p~~~~~gklep~kAeeF~~RV~~kva~~~aEIEkm 383 (669)
T pfam08549 320 LGRKGELESLTAGFFDAPVGPSTGDSDHGPEKPQATKLEPEVADEFADRVAKKVADMTAEIEKL 383 (669)
T ss_pred CCCCCCHHHHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 6633213232122213777777665556776544455687789999999999888889999999
No 98
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=73.16 E-value=8.2 Score=19.61 Aligned_cols=99 Identities=13% Similarity=0.159 Sum_probs=59.5
Q ss_pred CHHHHHHHHHHHHHHHCCCEEECCCEEECH-------HH-HH-HHHCCCCCCCCCCCCCEEEEECCCCCCCCCCC-CCCC
Q ss_conf 389999999999998739876237234158-------89-88-86189887733163312775056665563224-4676
Q gi|254780317|r 116 HPVTQVIDEVTCIFMDMGFALEEGSDIETD-------YY-NF-AALNFPDDHPARQMHDTFFVPGIAGGKHKLLR-THTS 185 (366)
Q Consensus 116 HPItqvi~eI~~IF~~lGF~v~eGPEIEtd-------~~-NF-daLNiP~~HPARdmqDTFyl~~~~~~~~~lLR-thTS 185 (366)
-.+.++.+-+++-+...||+.+.-|.|-.. .| || |-+ |.+.+.. +...+|+ ||+-
T Consensus 48 ~i~~~le~~ir~e~~~~G~~eV~tP~l~~~~Lw~~SGh~~~y~~~m--------------f~~~d~~-~~~~~l~Pmnc~ 112 (438)
T PRK12325 48 KVLKKIENIVREEQNRAGAIEILMPTIQPADLWRESGRYDAYGKEM--------------LRIKDRH-DREMLYGPTNEE 112 (438)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEECCCCCCHHHHHHHCCHHHHHHHH--------------CEEECCC-CCEECCCCCCCH
T ss_conf 9999999999999997499799877658778998628764555742--------------1213477-774313899849
Q ss_pred CHH-H--HHHHH-CCCEEEEEECCCCCCCCCCCC----CCCCCCCCCEEEEC
Q ss_conf 305-5--55430-363122541057647454421----37810020057861
Q gi|254780317|r 186 PVQ-I--RVMES-QDLPIKVIVPGKTYRRDSDST----HSPMFHQIEGLVVS 229 (366)
Q Consensus 186 ~vQ-i--R~m~~-~~pP~~~~~~GrvyR~d~D~t----H~~~FhQ~egl~v~ 229 (366)
.+. | ..+.+ .+.|+|+.-+|.+||+|.-.. ..-+|+|-|+-..+
T Consensus 113 ~~~~i~~~~~~SYRdLPlrl~q~g~~~R~E~sp~~GLlRvReF~m~Dah~F~ 164 (438)
T PRK12325 113 MITDIFRSYVKSYKDLPLNLYHIQWKFRDEIRPRFGVMRGREFLMKDAYSFD 164 (438)
T ss_pred HHHHHHHHCCCCHHHCCHHHHHHHHEECCCCCCCCCCCEEEEEECCCHHHCC
T ss_conf 9999997403426542578876444011202676441012233304154324
No 99
>TIGR02086 IPMI_arch 3-isopropylmalate dehydratase, large subunit; InterPro: IPR011826 3-isopropylmalate dehydratase (or isopropylmalate isomerase; 4.2.1.33 from EC) catalyses the stereo-specific isomerisation of 2-isopropylmalate and 3-isopropylmalate, via the formation of 2-isopropylmaleate. This enzyme performs the second step in the biosynthesis of leucine, and is present in most prokaryotes and many fungal species. The prokaryotic enzyme is a heterodimer composed of a large (LeuC) and small (LeuD) subunit, while the fungal form is a monomeric enzyme. Both forms of isopropylmalate are related and are part of the larger aconitase family . Aconitases are mostly monomeric proteins which share four domains in common and contain a single, labile [4Fe-4S] cluster. Three structural domains (1, 2 and 3) are tightly packed around the iron-sulphur cluster, while a fourth domain (4) forms a deep active-site cleft. The prokaryotic enzyme is encoded by two adjacent genes, leuC and leuD, corresponding to aconitase domains 1-3 and 4 respectively , . LeuC does not bind an iron-sulphur cluster. It is thought that some prokaryotic isopropylamalate dehydrogenases can also function as homoaconitase 4.2.1.36 from EC, converting cis-homoaconitate to homoisocitric acid in lysine biosynthesis . Homoaconitase has been identified in higher fungi (mitochondria) and several archaea and one thermophilic species of bacteria, Thermus thermophilus . This entry represents the large subunit of 3-isopropylmalate dehydratase (LeuC), as well as homoaconitase enzymes, from prokaryotes. Homoaconitase, aconitase and 3-isopropylmalate dehydratase have similar overall structures and domain organisation . All are dehydratases that bind a [4Fe-4S]-cluster. Information about related proteins can be found at Protein of the Month: Aconitase .; GO: 0003861 3-isopropylmalate dehydratase activity, 0051539 4 iron 4 sulfur cluster binding, 0009098 leucine biosynthetic process.
Probab=72.88 E-value=4.2 Score=21.73 Aligned_cols=97 Identities=26% Similarity=0.404 Sum_probs=65.7
Q ss_pred CCCCC--CCCHHHHHHHH---CCCEEEEEECCCCCCCCCCCCCCCCCCCCCEEEECCC-----CCHHHHHHHHHHHHHHH
Q ss_conf 22446--76305555430---3631225410576474544213781002005786178-----66899988999999997
Q gi|254780317|r 179 LLRTH--TSPVQIRVMES---QDLPIKVIVPGKTYRRDSDSTHSPMFHQIEGLVVSDS-----ATIANLRWVLESFCKSF 248 (366)
Q Consensus 179 lLRth--TS~vQiR~m~~---~~pP~~~~~~GrvyR~d~D~tH~~~FhQ~egl~v~~~-----i~~~~lk~~l~~~~~~~ 248 (366)
|-=+| |+|.-||+|+. +.-|.+.+.|-|+| +++|++ +-.|++...+..|.|++
T Consensus 28 ~am~hDGt~p~~i~~l~~~g~rGG~~~v~~p~k~v-----------------~~fDH~~P~~~v~~A~~Q~~~REF~K~~ 90 (431)
T TIGR02086 28 LAMAHDGTGPLAIKALRELGERGGMAKVEDPEKIV-----------------IVFDHVVPAPTVEAAELQKEIREFAKRH 90 (431)
T ss_pred EEEEECCCHHHHHHHHHHHHHCCCCCCCCCCCEEE-----------------EEEECCCCCCCHHHHHHHHHHHHHHHHC
T ss_conf 99996487178999999997347867664686489-----------------9982688996567788778999888766
Q ss_pred CCCCCCEEEEEECCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCCCCCC--------------
Q ss_conf 088866264542388985266103678750588042246883489845756388899856988000--------------
Q gi|254780317|r 249 FEVSSLQMRFRPSFFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGIDPDI-------------- 314 (366)
Q Consensus 249 fg~~~~~~r~rp~~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~-------------- 314 (366)
|.++ ||- .|.|+.|.-+++..-..|-.
T Consensus 91 -gI~~--------f~~------------------------------~g~GIcHQ~L~E~Gya~PG~vvvG~DSHT~T~GA 131 (431)
T TIGR02086 91 -GIKV--------FFD------------------------------VGEGICHQVLVEKGYAEPGMVVVGADSHTCTSGA 131 (431)
T ss_pred -CCCE--------EEE------------------------------CCCEEEEEEEEECCCCCCCEEEEECCCCCCHHHC
T ss_conf -8705--------998------------------------------7980277886530624776189952677400000
Q ss_pred EEEEEEECCHHHHHHHH
Q ss_conf 37996313446997997
Q gi|254780317|r 315 YQGFAWGMGLDRIAMLK 331 (366)
Q Consensus 315 ~~g~AfG~G~eRlaml~ 331 (366)
...||+|||=.=+||..
T Consensus 132 ~GAFA~GmGATDvA~a~ 148 (431)
T TIGR02086 132 LGAFATGMGATDVAIAL 148 (431)
T ss_pred HHHEEECCCHHHHHHHH
T ss_conf 02304257868999999
No 100
>PRK13411 molecular chaperone DnaK; Provisional
Probab=72.41 E-value=8.6 Score=19.49 Aligned_cols=12 Identities=17% Similarity=0.443 Sum_probs=5.0
Q ss_pred HHHHHHHHHHHH
Q ss_conf 999999999999
Q gi|254780317|r 118 VTQVIDEVTCIF 129 (366)
Q Consensus 118 Itqvi~eI~~IF 129 (366)
+-.|++.|.++|
T Consensus 340 IP~Vq~~v~~~F 351 (655)
T PRK13411 340 IPAVQEAIQQFF 351 (655)
T ss_pred CHHHHHHHHHHH
T ss_conf 579999999982
No 101
>pfam03904 DUF334 Domain of unknown function (DUF334). Staphylococcus aureus plasmid proteins with no characterized function.
Probab=71.64 E-value=8.9 Score=19.37 Aligned_cols=53 Identities=13% Similarity=0.112 Sum_probs=40.0
Q ss_pred HHHHHHHHHCCCCHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 6899987615899889-9999999999999999999999999985676667654
Q gi|254780317|r 44 SISSLLKDLKNLDSQQ-VSARGAILNQLKVDISGKISARKDFIRNQLIFEQISS 96 (366)
Q Consensus 44 ~Lt~llK~Lk~Ls~Ee-Kk~~Gk~iNelK~~Ie~~i~~kk~~L~~~~~~~kl~~ 96 (366)
.+.-+.+.|+.++.++ +-++|+.+|.++++.+..+.+-++.-+..+.-.+.-.
T Consensus 97 fv~~L~~kLk~Vdtdei~~~~~kdiy~vr~en~~mlqEVkqsHEhyqkrQK~lf 150 (229)
T pfam03904 97 FVDLLQEKLKHVDAEDIEDELGKDIYGVREEIDRMLQEVKQSHEHYQKRQKQLF 150 (229)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 999999988415779999999888998999999999999999998999999999
No 102
>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=70.64 E-value=9.3 Score=19.22 Aligned_cols=58 Identities=24% Similarity=0.283 Sum_probs=38.6
Q ss_pred CCCCCCCCCCHHH----HHHH--HCCCEEEEEECCCCCCCCC-CC---CCCCCCCCCCEEE-ECCCCCH
Q ss_conf 6322446763055----5543--0363122541057647454-42---1378100200578-6178668
Q gi|254780317|r 177 HKLLRTHTSPVQI----RVME--SQDLPIKVIVPGKTYRRDS-DS---THSPMFHQIEGLV-VSDSATI 234 (366)
Q Consensus 177 ~~lLRthTS~vQi----R~m~--~~~pP~~~~~~GrvyR~d~-D~---tH~~~FhQ~egl~-v~~~i~~ 234 (366)
..-||.-|--..- +.++ +.+.|+-+.-+||+|||+- -. -.+-+|.|+|--+ |+.+-+.
T Consensus 80 ~~yLRPETAQGifvnFk~~~~~~r~kLPFGiaQIGk~FRNEIsPr~~l~R~REF~q~EiE~F~~P~~~~ 148 (254)
T cd00774 80 LGYLRPETAQGIFVNFKNLLEFNRRKLPFGVAQIGKSFRNEISPRNGLFRVREFTQAEIEFFVDPEKSH 148 (254)
T ss_pred CEEECHHHHHHHHHHHHHHHHHCCCCCCEEEEEEEECCCCCCCCCCCCCCHHCHHHHEEEEEECCCCCH
T ss_conf 035363453477987899999648888844565420226734777675400000212578885798642
No 103
>TIGR00443 hisS_second histidyl-tRNA synthetase 2, putative; InterPro: IPR004517 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; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Histidyl-tRNA synthetase (6.1.1.21 from EC) is an alpha2 dimer that belongs to class IIa (see IPR004516 from INTERPRO). Every completed genome includes a histidyl-tRNA synthetase. Apparent second copies from Bacillus subtilis, Synechocystis spp., and Aquifex aeolicus are slightly shorter, more closely related to each other than to other hisS proteins, and not demonstrated to act as histidyl-tRNA synthetases. 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, but these regulatory proteins are not orthologous. An unusual feature is that this putative second HisS is shorter at the C-terminus. It shows greater similarity to archaeal HisS than to other bacterial HisS. There is reason by analogy to suspect this second HisS may have a function other than (or in addition to) ligating His to its tRNA: the protein kinase DGCN2 of Drosophila has a C-terminal domain related to HisS that appears to detect uncharged tRNA(his), an indicator of amino acid starvation, and respond by phosphorylating eIF-2alpha.; GO: 0000105 histidine biosynthetic process, 0005737 cytoplasm.
Probab=70.36 E-value=6.9 Score=20.18 Aligned_cols=118 Identities=17% Similarity=0.166 Sum_probs=81.9
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCC
Q ss_conf 32122674238999999999999873987623723415889888618988773316331277505666556322446763
Q gi|254780317|r 107 SSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSP 186 (366)
Q Consensus 107 ~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~ 186 (366)
.+....+......++.+.+.++|...||+...-|.+| ||.+-.+... -..+..+-+.+........||...++
T Consensus 9 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~--~~~~~~~~~~-----~~~~~~~~~~d~~~~~~~~l~~~~~~ 81 (414)
T TIGR00443 9 ERDLLPGEYELKKKINKKLTDLFDKWGYQFIETSTLE--WYDTLGLGGA-----IGAKELIKLLDSGTGGTLGLRPDLTG 81 (414)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHCCHHHCCCCCC--HHHHHHHCCC-----CCHHHHHEEECCCCCCCEEECCCCHH
T ss_conf 0344456777888998899999986140121013221--1233321011-----00002100000345540211222014
Q ss_pred HHHH----HHHHCCCEEEEEECCCCCCCCCCCCC--CCCCCCCCEEEECCC
Q ss_conf 0555----54303631225410576474544213--781002005786178
Q gi|254780317|r 187 VQIR----VMESQDLPIKVIVPGKTYRRDSDSTH--SPMFHQIEGLVVSDS 231 (366)
Q Consensus 187 vQiR----~m~~~~pP~~~~~~GrvyR~d~D~tH--~~~FhQ~egl~v~~~ 231 (366)
--+| .+.+++.|.|+...++|||.+....| ..+|.|.---.++.+
T Consensus 82 ~~~~~~~~~~~~~~~p~~~~~~~~~~~~~p~~~~g~~~~~~~~g~~l~~~~ 132 (414)
T TIGR00443 82 PIARAAVSKLLDNGLPERVGYFANVFRLPPEGYGGRGFEFLQAGVELLGDG 132 (414)
T ss_pred HHHHHHHHHHHHCCCCHHHHHHHHHHCCCCCCCCCCCCHHHHHHHHHHCCC
T ss_conf 688999988762366113322211102675334565412344202321034
No 104
>PRK05183 hscA chaperone protein HscA; Provisional
Probab=69.93 E-value=9.6 Score=19.11 Aligned_cols=18 Identities=33% Similarity=0.676 Sum_probs=8.3
Q ss_pred EEEECCCCCCHHHHHHCCC
Q ss_conf 8984575638889985698
Q gi|254780317|r 292 MEILGCGMVDPRVLRGVGI 310 (366)
Q Consensus 292 iEi~g~Gm~~p~vl~~~g~ 310 (366)
||.+| |.+.|-+-||--|
T Consensus 403 IEt~g-G~~~~iI~RNt~I 420 (621)
T PRK05183 403 LETMG-GLVEKIIPRNTTI 420 (621)
T ss_pred EEECC-CEEEEEEECCCCC
T ss_conf 68629-7699987279835
No 105
>TIGR01270 Trp_5_monoox tryptophan 5-monooxygenase; InterPro: IPR005963 Tryptophan 5-monooxygenase (1.14.16.4 from EC) is a member of the family of tetrameric, biopterin-dependent aromatic amino acid hydroxylases found in metazoans. It is closely related to tetrameric phenylalanine-4-hydroxylase and tyrosine 3-monooxygenase, and more distantly related to the monomeric phenylalanine-4-hydroxylase found in some Gram-negative bacteria. It is the rate-limiting enzyme in the biosynthesis of serotonin in the central nervous system and catalyzes the first step of the synthesis of melatonin in the pineal gland . L-tryptophan + tetrahydropteridine + O2 = 5-hydroxy-L-tryptophan + dihydropteridine + H2O ; GO: 0004510 tryptophan 5-monooxygenase activity, 0042427 serotonin biosynthetic process.
Probab=69.39 E-value=4.2 Score=21.74 Aligned_cols=61 Identities=26% Similarity=0.400 Sum_probs=40.5
Q ss_pred HCCCEEEEEECCCCCCCCC-CCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHHHHH---CCCCCCEEEEEECCCCCCCCC
Q ss_conf 0363122541057647454-421378100200578617866899988999999997---088866264542388985266
Q gi|254780317|r 194 SQDLPIKVIVPGKTYRRDS-DSTHSPMFHQIEGLVVSDSATIANLRWVLESFCKSF---FEVSSLQMRFRPSFFPFTEPS 269 (366)
Q Consensus 194 ~~~pP~~~~~~GrvyR~d~-D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~---fg~~~~~~r~rp~~fPftePs 269 (366)
..+.-|+=|-|-+|-.-|. --|-=-.+.-- -||-|-|.-|..|++.+ ||. .|.|||+ |
T Consensus 406 ~~~a~ik~FdP~~v~~qECLiTtFQ~aYF~t--------~sFEeA~~~mR~F~~~ikRPF~V---------~YNPYT~-S 467 (499)
T TIGR01270 406 SGKAKIKPFDPEKVCEQECLITTFQNAYFYT--------ESFEEAKEKMREFTKTIKRPFGV---------RYNPYTE-S 467 (499)
T ss_pred CCCCEEEECCCCCEECCCCCEEEECCEEEEE--------CCHHHHHHHHHHHHHHCCCCCCC---------CCCCCCC-E
T ss_conf 4575365158740001340154303414640--------77699999999999736888752---------1078654-0
Q ss_pred CEE
Q ss_conf 103
Q gi|254780317|r 270 FEV 272 (366)
Q Consensus 270 ~Ev 272 (366)
+||
T Consensus 468 vev 470 (499)
T TIGR01270 468 VEV 470 (499)
T ss_pred EHH
T ss_conf 131
No 106
>PRK04483 threonyl-tRNA synthetase; Validated
Probab=69.30 E-value=9.9 Score=19.02 Aligned_cols=129 Identities=15% Similarity=0.195 Sum_probs=76.6
Q ss_pred CCHHHHHHHHHHHHHHHCCCEEECCCEEEC-------HHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCH
Q ss_conf 238999999999999873987623723415-------8898886189887733163312775056665563224467630
Q gi|254780317|r 115 IHPVTQVIDEVTCIFMDMGFALEEGSDIET-------DYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPV 187 (366)
Q Consensus 115 ~HPItqvi~eI~~IF~~lGF~v~eGPEIEt-------d~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~v 187 (366)
......+.+-+++....-||+.+..|.|-+ ..|..=.=|+- +-.. .+....|+.-+-|.
T Consensus 271 ~~i~~~le~~~r~~~~~~Gy~eV~tP~i~~~~Lw~~SGH~~~Y~e~Mf-------------~~~~-~~~~~~lKPMNCP~ 336 (634)
T PRK04483 271 WSLWQVVEQYMRKVYRDSGYGEVRCPQILDVSLWQKSGHWDNYQDAMF-------------FTES-EKRTYAVKPMNCPG 336 (634)
T ss_pred HHHHHHHHHHHHHHHHHCCCEEEECCEECCHHHHHHCCCHHHHHHCCC-------------EECC-CCCEEEECCCCCHH
T ss_conf 999999999999999982995998862513778762561645530371-------------3425-54035515768564
Q ss_pred HHHHHHH-----CCCEEEEEECCCCCCCCC-CCCC----CCCCCCCCEEEE--CCCC--CHHHHHHHHHHHHHHHCCCCC
Q ss_conf 5555430-----363122541057647454-4213----781002005786--1786--689998899999999708886
Q gi|254780317|r 188 QIRVMES-----QDLPIKVIVPGKTYRRDS-DSTH----SPMFHQIEGLVV--SDSA--TIANLRWVLESFCKSFFEVSS 253 (366)
Q Consensus 188 QiR~m~~-----~~pP~~~~~~GrvyR~d~-D~tH----~~~FhQ~egl~v--~~~i--~~~~lk~~l~~~~~~~fg~~~ 253 (366)
.+-.-.+ ...|+|+.-.|.|||++. -+.| --.|+|=++-+- ...| -+......+...++. ||-++
T Consensus 337 H~~if~~~~rSYRdLPlR~aE~g~~~R~E~SG~L~GL~RvR~FtqdDaHIFc~~dQi~~Ei~~~l~~~~~vy~~-fGf~~ 415 (634)
T PRK04483 337 HVQVFNQGLHSYRDLPIRYGEFGACHRNEPSGALHGILRVRGFTQDDGHVFCLESQIEAEVTAFHQQALAVYTA-FGFDD 415 (634)
T ss_pred HHHHHHCCCCCHHHCCHHHHHCCCEEECCCCCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHHHHHHHHHHHHH-CCCCE
T ss_conf 87998717744443436655433022056776545745688998898335638999999999999999999986-39953
Q ss_pred CEEEE
Q ss_conf 62645
Q gi|254780317|r 254 LQMRF 258 (366)
Q Consensus 254 ~~~r~ 258 (366)
..+++
T Consensus 416 ~~~~l 420 (634)
T PRK04483 416 IQIKI 420 (634)
T ss_pred EEEEE
T ss_conf 89996
No 107
>KOG4799 consensus
Probab=68.81 E-value=2.4 Score=23.54 Aligned_cols=34 Identities=26% Similarity=0.398 Sum_probs=26.4
Q ss_pred EEEEEECCCCCCCCCCEEEEE--EECCCCEEEECCCC
Q ss_conf 264542388985266103678--75058804224688
Q gi|254780317|r 255 QMRFRPSFFPFTEPSFEVDVR--CSFSDGIIKFDEGT 289 (366)
Q Consensus 255 ~~r~rp~~fPftePs~Evdv~--~~~~~~~~~~~~~~ 289 (366)
-+|+||.-||..||..+ ||+ |..|.|+|-|-++.
T Consensus 110 LI~~~pv~fp~gePte~-di~~t~Lk~ngec~V~~dL 145 (182)
T KOG4799 110 LIRLRPVEFPGGEPTED-DISSTSLKPNGECEVIQDL 145 (182)
T ss_pred EEEEEEECCCCCCCCHH-HHHHHHCCCCCCEEEEECC
T ss_conf 15766521578887045-5555430567518999535
No 108
>KOG0347 consensus
Probab=62.86 E-value=5.5 Score=20.88 Aligned_cols=53 Identities=25% Similarity=0.374 Sum_probs=43.2
Q ss_pred HHCCCEEEEEECCCCCCCC-CCCCCCCCCCCCCEEEECCC------CCHHHHHHHHHHHH
Q ss_conf 3036312254105764745-44213781002005786178------66899988999999
Q gi|254780317|r 193 ESQDLPIKVIVPGKTYRRD-SDSTHSPMFHQIEGLVVSDS------ATIANLRWVLESFC 245 (366)
Q Consensus 193 ~~~~pP~~~~~~GrvyR~d-~D~tH~~~FhQ~egl~v~~~------i~~~~lk~~l~~~~ 245 (366)
.++.|.|-+-.|||.+--= .+.||.-.|-++-+||+|+- -.|+.|-..|+.+-
T Consensus 310 L~~~p~IVVATPGRlweli~e~n~~l~~~k~vkcLVlDEaDRmvekghF~Els~lL~~L~ 369 (731)
T KOG0347 310 LNQRPDIVVATPGRLWELIEEDNTHLGNFKKVKCLVLDEADRMVEKGHFEELSKLLKHLN 369 (731)
T ss_pred HHCCCCEEEECCHHHHHHHHHHHHHHHHHHHCEEEEECCHHHHHHHCCHHHHHHHHHHHH
T ss_conf 852998799366289999975106664233240788734777755110999999999860
No 109
>PRK13012 2-oxoacid dehydrogenase subunit E1; Provisional
Probab=62.80 E-value=13 Score=18.16 Aligned_cols=99 Identities=16% Similarity=0.384 Sum_probs=68.3
Q ss_pred CCHH-HHHHHHHHHHHHHCCCCCCEEEE-EECC-CCCCCCCCEEEEEEECCCCEEEECC----CCCEEEEECCCCCCHHH
Q ss_conf 6689-99889999999970888662645-4238-8985266103678750588042246----88348984575638889
Q gi|254780317|r 232 ATIA-NLRWVLESFCKSFFEVSSLQMRF-RPSF-FPFTEPSFEVDVRCSFSDGIIKFDE----GTEWMEILGCGMVDPRV 304 (366)
Q Consensus 232 i~~~-~lk~~l~~~~~~~fg~~~~~~r~-rp~~-fPftePs~Evdv~~~~~~~~~~~~~----~~~WiEi~g~Gm~~p~v 304 (366)
-+|+ .|--++..=++.|++... .+=+ -.-| =+|..|.+--++.-.++.|..+... ...=+-++|+|-+-++|
T Consensus 671 PafaYElavIv~~Gl~rMy~~~e-dvfYYiTv~NENY~qPamPeg~eeGIiKGmY~~~~~~~~~~~~VqLLGSG~Il~ev 749 (898)
T PRK13012 671 PAFAYELAVIVDDGMRRMYEEQE-DVFYYLTVMNENYAQPALPEGAEEGILKGMYRLRAAAAAEAPRVQLLGSGAILREV 749 (898)
T ss_pred CHHHHHHHHHHHHHHHHHHHCCC-CEEEEEEECCCCCCCCCCCCCCHHHHHHCCEECCCCCCCCCCEEEEEECHHHHHHH
T ss_conf 53366669999999999985798-67999840464665868899747768631044233677899538999256999999
Q ss_pred HHH-------CCCCCCCEEEEEE------ECCHHHHHHHH
Q ss_conf 985-------6988000379963------13446997997
Q gi|254780317|r 305 LRG-------VGIDPDIYQGFAW------GMGLDRIAMLK 331 (366)
Q Consensus 305 l~~-------~g~d~~~~~g~Af------G~G~eRlaml~ 331 (366)
+++ .||+.++||.--| |+-+||-.||-
T Consensus 750 i~AaeiL~~d~gV~adVWSvTSf~ELrRda~~~eR~N~Lh 789 (898)
T PRK13012 750 LAAARLLADDWGVDADVWSVTSFTELRRDGLAAERANLLG 789 (898)
T ss_pred HHHHHHHHHHHCCCCEEEECCCHHHHHHHHHHHHHHHHCC
T ss_conf 9999999984298620672488899998799999998409
No 110
>pfam05061 Pox_A11 Poxvirus A11 Protein. Family of conserved Chordopoxvirinae A11 family proteins. Conserved region spans entire protein in the majority of family members.
Probab=62.60 E-value=13 Score=18.13 Aligned_cols=11 Identities=36% Similarity=0.652 Sum_probs=6.7
Q ss_pred HHHHHHHHHCC
Q ss_conf 99999999708
Q gi|254780317|r 240 VLESFCKSFFE 250 (366)
Q Consensus 240 ~l~~~~~~~fg 250 (366)
-|..|.+-+||
T Consensus 165 NL~nFTkiLFg 175 (309)
T pfam05061 165 NLDNFTKILFG 175 (309)
T ss_pred CHHHHHHHHHC
T ss_conf 48889999816
No 111
>PRK00290 dnaK molecular chaperone DnaK; Provisional
Probab=62.32 E-value=13 Score=18.10 Aligned_cols=15 Identities=7% Similarity=-0.141 Sum_probs=7.1
Q ss_pred HHHHHHHHHCCCEEE
Q ss_conf 999999987398762
Q gi|254780317|r 123 DEVTCIFMDMGFALE 137 (366)
Q Consensus 123 ~eI~~IF~~lGF~v~ 137 (366)
+.+++--.--||.|.
T Consensus 151 qAtk~Aa~iAGL~Vl 165 (631)
T PRK00290 151 QATKDAGKIAGLEVL 165 (631)
T ss_pred HHHHHHHHHCCCCEE
T ss_conf 999999997599657
No 112
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=62.27 E-value=13 Score=18.09 Aligned_cols=129 Identities=12% Similarity=0.158 Sum_probs=75.7
Q ss_pred CCHHHHHHHHHHHHHHHCCCEEECCCEEE-------CHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCH
Q ss_conf 23899999999999987398762372341-------58898886189887733163312775056665563224467630
Q gi|254780317|r 115 IHPVTQVIDEVTCIFMDMGFALEEGSDIE-------TDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPV 187 (366)
Q Consensus 115 ~HPItqvi~eI~~IF~~lGF~v~eGPEIE-------td~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~v 187 (366)
......+.+-+++.-...||+.+..|.|- |..|..=.=| .|+.. ..++...|+.-+-|.
T Consensus 274 ~~i~~~le~~~r~~~~~~GY~eV~TP~i~~~~Lw~~SGH~~~Y~e~-------------Mf~~~-~d~~~~~lKPMNCP~ 339 (639)
T PRK12444 274 QIIRNELEAFLREIQKEYNYQEVRTPFMMNQELWERSGHWGHYKDN-------------MYFSE-VDNKSFALKPMNCPG 339 (639)
T ss_pred HHHHHHHHHHHHHHHHHCCCEEECCCEEEHHHHHHHCCHHHHHHHC-------------CCCCC-CCCCEEECCCCCCHH
T ss_conf 6999999999999999839878228666215687616604333302-------------75545-454033126768588
Q ss_pred HHHHHHH-----CCCEEEEEECCCCCCCCC-CCCC----CCCCCCCCEEEE-CCC-C--CHHHHHHHHHHHHHHHCCCCC
Q ss_conf 5555430-----363122541057647454-4213----781002005786-178-6--689998899999999708886
Q gi|254780317|r 188 QIRVMES-----QDLPIKVIVPGKTYRRDS-DSTH----SPMFHQIEGLVV-SDS-A--TIANLRWVLESFCKSFFEVSS 253 (366)
Q Consensus 188 QiR~m~~-----~~pP~~~~~~GrvyR~d~-D~tH----~~~FhQ~egl~v-~~~-i--~~~~lk~~l~~~~~~~fg~~~ 253 (366)
.+-.-.+ ...|+|+.-.|.|||+|. -+.| --.|+|=++-+- -.+ | .+.++...+...++. ||-
T Consensus 340 H~~if~~~~rSYRdLPlR~aEfg~vhR~E~SG~L~GL~RVR~FtqDDAHIFct~dQi~~Ei~~~~~~~~~vy~~-fGf-- 416 (639)
T PRK12444 340 HMLMFKNKLHSYRELPIRMCEFGQVHRHEFSGALNGLLRVRTFCQDDAHLFVTPEQIEDEIKSVMAQIDYVYKT-FGF-- 416 (639)
T ss_pred HHHHHHCCCCCHHHCCHHHHHCCCEECCCCCCCCCCCCCCCCCCCCCCEEECCHHHHHHHHHHHHHHHHHHHHH-CCC--
T ss_conf 99998605621443652224336463377876645767788998798246538899999999999999999974-797--
Q ss_pred CEEEEEEC
Q ss_conf 62645423
Q gi|254780317|r 254 LQMRFRPS 261 (366)
Q Consensus 254 ~~~r~rp~ 261 (366)
+.+++-|
T Consensus 417 -~~~~~LS 423 (639)
T PRK12444 417 -EYEVELS 423 (639)
T ss_pred -EEEEEEC
T ss_conf -2999816
No 113
>PRK00409 recombination and DNA strand exchange inhibitor protein; Reviewed
Probab=61.90 E-value=13 Score=18.05 Aligned_cols=35 Identities=9% Similarity=0.111 Sum_probs=15.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHCC-CHHHHHHHHHHH
Q ss_conf 68999999999999999985069-989999999998
Q gi|254780317|r 4 CNVFEDEVERIRSSLYNSIASVT-DMDSLNAIRVAT 38 (366)
Q Consensus 4 ~n~m~eeI~~L~~e~~~~I~~a~-~~~eLe~lrv~~ 38 (366)
++.+.+++++.+.++.+....+. ...+++.++.++
T Consensus 516 ~~~li~~l~~~~~~~e~~~~~~~~~~~e~~~~~~~l 551 (780)
T PRK00409 516 LNELIASLEELERELEEKAEEAEKLLKEAEKLKEEL 551 (780)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 999999999999999999999999999999999999
No 114
>TIGR01069 mutS2 MutS2 family protein; InterPro: IPR005747 Mismatch repair contributes to the overall fidelity of DNA replication and is essential for combating the adverse effects of damage to the genome. It involves the correction of mismatched base pairs that have been missed by the proofreading element of the DNA polymerase complex. The post-replicative Mismatch Repair System (MMRS) of Escherichia coli involves MutS (Mutator S), MutL and MutH proteins, and acts to correct point mutations or small insertion/deletion loops produced during DNA replication . MutS and MutL are involved in preventing recombination between partially homologous DNA sequences. The assembly of MMRS is initiated by MutS, which recognises and binds to mispaired nucleotides and allows further action of MutL and MutH to eliminate a portion of newly synthesized DNA strand containing the mispaired base . MutS can also collaborate with methyltransferases in the repair of O(6)-methylguanine damage, which would otherwise pair with thymine during replication to create an O(6)mG:T mismatch . MutS exists as a dimer, where the two monomers have different conformations and form a heterodimer at the structural level . Only one monomer recognises the mismatch specifically and has ADP bound. Non-specific major groove DNA-binding domains from both monomers embrace the DNA in a clamp-like structure. Mismatch binding induces ATP uptake and a conformational change in the MutS protein, resulting in a clamp that translocates on DNA. MutS is a modular protein with a complex structure , and is composed of: N-terminal mismatch-recognition domain, which is similar in structure to tRNA endonuclease. Connector domain, which is similar in structure to Holliday junction resolvase ruvC. Core domain, which is composed of two separate subdomains that join together to form a helical bundle; from within the core domain, two helices act as levers that extend towards (but do not touch) the DNA. Clamp domain, which is inserted between the two subdomains of the core domain at the top of the lever helices; the clamp domain has a beta-sheet structure. ATPase domain (connected to the core domain), which has a classical Walker A motif. HTH (helix-turn-helix) domain, which is involved in dimer contacts. Homologues of MutS have been found in many species including eukaryotes (MSH 1, 2, 3, 4, 5, and 6 proteins), archaea and bacteria, and together these proteins have been grouped into the MutS family. Although many of these proteins have similar activities to the E. coli MutS, there is significant diversity of function among the MutS family members. This diversity is even seen within species, where many species encode multiple MutS homologues with distinct functions . Inter-species homologues may have arisen through frequent ancient horizontal gene transfer of MutS (and MutL) from bacteria to archaea and eukaryotes via endosymbiotic ancestors of mitochondria and chloroplasts . This entry represents a family of MutS proteins.; GO: 0003684 damaged DNA binding, 0005524 ATP binding, 0045005 maintenance of fidelity during DNA-dependent DNA replication.
Probab=58.42 E-value=15 Score=17.63 Aligned_cols=80 Identities=16% Similarity=0.197 Sum_probs=47.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHHHHCCC-HHHHHHHHHHHCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 84689999999999999999850699-89999999998086406899987615899889999999999999999999999
Q gi|254780317|r 2 TECNVFEDEVERIRSSLYNSIASVTD-MDSLNAIRVATLGRKGSISSLLKDLKNLDSQQVSARGAILNQLKVDISGKISA 80 (366)
Q Consensus 2 se~n~m~eeI~~L~~e~~~~I~~a~~-~~eLe~lrv~~LGKKG~Lt~llK~Lk~Ls~EeKk~~Gk~iNelK~~Ie~~i~~ 80 (366)
.++|.|++.+.+.+.+.++..+...+ +.++|..+.+..- ....+...-+++-.+.-+++-+.++.+++++++.+.+
T Consensus 549 e~~n~~ie~L~~~~k~~~~~~~~~e~~lkE~E~~~~e~~~---~~~~l~~~~~~~~~~~~~e~~e~l~~~~~E~e~~~~~ 625 (834)
T TIGR01069 549 EEINELIEKLSEKEKELEEKKEELEKLLKELEKLKKELEQ---EIEELKERERNLKKELEKEAQEALKALKKEVEEIIRE 625 (834)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 6899999847999999999999899999998999999999---9999999987778999999999999999999999999
Q ss_pred HHHH
Q ss_conf 9999
Q gi|254780317|r 81 RKDF 84 (366)
Q Consensus 81 kk~~ 84 (366)
.+..
T Consensus 626 ~~~~ 629 (834)
T TIGR01069 626 LKEK 629 (834)
T ss_pred HHCC
T ss_conf 7415
No 115
>pfam01411 tRNA-synt_2c tRNA synthetases class II (A). Other tRNA synthetase sub-families are too dissimilar to be included. This family includes only alanyl-tRNA synthetases.
Probab=57.12 E-value=1.5 Score=25.02 Aligned_cols=35 Identities=20% Similarity=0.283 Sum_probs=22.9
Q ss_pred HHHHHCCCCCCC-E-----EEEEEECCHHHHHHHHCCCCCH
Q ss_conf 899856988000-3-----7996313446997997389705
Q gi|254780317|r 303 RVLRGVGIDPDI-Y-----QGFAWGMGLDRIAMLKYGMPDV 337 (366)
Q Consensus 303 ~vl~~~g~d~~~-~-----~g~AfG~G~eRlaml~~gi~di 337 (366)
.|+...+.+++. + ...-.|||+||+|++..|.++.
T Consensus 197 lVF~q~~~~~~g~~~~Lp~~~iDtGmGlER~~~vlq~~~~~ 237 (545)
T pfam01411 197 LVFMQFNRESDGTLKPLPKKSIDTGMGLERLVAVLQNVRSN 237 (545)
T ss_pred HHHHHHCCCCCCCCCCCCCCHHHHCCCCHHHHHHHHCCHHH
T ss_conf 99999587667874406620233067537789998373888
No 116
>pfam04415 DUF515 Protein of unknown function (DUF515). Family of hypothetical Archaeal proteins.
Probab=56.46 E-value=16 Score=17.41 Aligned_cols=127 Identities=18% Similarity=0.232 Sum_probs=50.4
Q ss_pred HHHHHHHHHHCCCHHHHHHHHHHHCCCCHHHHHH---HHHHCCCCHHH-HHHHHHHH-----HHHHHHHHHHHHHHHHHH
Q ss_conf 9999999850699899999999980864068999---87615899889-99999999-----999999999999999999
Q gi|254780317|r 15 RSSLYNSIASVTDMDSLNAIRVATLGRKGSISSL---LKDLKNLDSQQ-VSARGAIL-----NQLKVDISGKISARKDFI 85 (366)
Q Consensus 15 ~~e~~~~I~~a~~~~eLe~lrv~~LGKKG~Lt~l---lK~Lk~Ls~Ee-Kk~~Gk~i-----NelK~~Ie~~i~~kk~~L 85 (366)
+..+.++|.+|++.++++.+-++-.--|-.=... +++.|.-...+ |-.||..+ .++|.++.+.+++..+.+
T Consensus 87 K~~~inkI~~AkSiEEin~Idv~~~~~q~e~~~~~~~lk~~K~q~in~Ik~~fg~ll~~~l~~el~~ki~~~~n~Ll~~v 166 (416)
T pfam04415 87 KQAYINKIQAANNIEEINSIDVVGICEQLEEAKKYKELKQYKNQAINQIKDAFGPLLSLSLPDELKRKITATLNSLLKQV 166 (416)
T ss_pred HHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHHHH
T ss_conf 89999998852699998640021066678889999999999999999999876677614221889988899999999875
Q ss_pred HHHHHHHHHHHHHCCCCCC-CCCC--CCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEE
Q ss_conf 8567666765431000001-1232--12267423899999999999987398762372341
Q gi|254780317|r 86 RNQLIFEQISSQSVDVSLP-VFSS--PCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIE 143 (366)
Q Consensus 86 ~~~~~~~kl~~E~iDVTLP-~~~~--~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIE 143 (366)
..+........-.+|-+|- +... --..|+.-.+ +.+|+..|-..+++.+.-.=.||
T Consensus 167 d~a~~~~ev~~~~~~~yL~~lwk~yYlk~~~~k~i~--Tk~eak~ii~~~~~~eL~~yki~ 225 (416)
T pfam04415 167 DSAKTIDEVLEISPDKYLLSLWKYYYLEKNGESVFM--TKDEAKKIISQVDLSELKEYKVT 225 (416)
T ss_pred HHHHHHHHHHHCCCCHHHHHCCHHHEEECCCCCEEE--EHHHHHHHHHHCCHHHHHHCCCC
T ss_conf 233206777644830776630323134328711166--69999999603489999624002
No 117
>pfam00351 Biopterin_H Biopterin-dependent aromatic amino acid hydroxylase. This family includes phenylalanine-4-hydroxylase, the phenylketonuria disease protein.
Probab=53.91 E-value=18 Score=17.13 Aligned_cols=22 Identities=14% Similarity=0.290 Sum_probs=16.5
Q ss_pred CCHHHHHHHHHHHHHHHHHHHH
Q ss_conf 9988999999999999999999
Q gi|254780317|r 55 LDSQQVSARGAILNQLKVDISG 76 (366)
Q Consensus 55 Ls~EeKk~~Gk~iNelK~~Ie~ 76 (366)
.+.+|.+..|...++++.-...
T Consensus 61 YT~~E~~tW~~V~~~L~~l~~~ 82 (309)
T pfam00351 61 YTEEEIKTWGTVFKTLKKLYPT 82 (309)
T ss_pred CCHHHHHHHHHHHHHHHHHHHH
T ss_conf 5989999999999999999776
No 118
>PRK01433 hscA chaperone protein HscA; Provisional
Probab=50.31 E-value=20 Score=16.73 Aligned_cols=18 Identities=22% Similarity=0.305 Sum_probs=11.1
Q ss_pred CCCCHHHHHHHHHHHHHH
Q ss_conf 742389999999999998
Q gi|254780317|r 113 GRIHPVTQVIDEVTCIFM 130 (366)
Q Consensus 113 G~~HPItqvi~eI~~IF~ 130 (366)
|.--=+-.+.+.+.++|.
T Consensus 316 GGsTRiP~Vq~~l~~~Fg 333 (595)
T PRK01433 316 GGATRIPLIKDELYKAFK 333 (595)
T ss_pred CCCCCCHHHHHHHHHHHC
T ss_conf 785545899999999858
No 119
>TIGR00777 ahpD alkylhydroperoxidase, AhpD family; InterPro: IPR004674 Members of this family are alkylhydroperoxidases, which catalyze the reduction of peroxides to their corresponding alcohols via oxidation of cysteine residues. In these alkylhydroperoxidases, the cysteines are located in a conserved -CXXC- motif located towards the COOH terminus. In Mycobacterium tuberculosis, two non-homologous alkylhydroperoxidases, AhpD and AhpC, are found in the same operon.; GO: 0004601 peroxidase activity.
Probab=49.10 E-value=6.9 Score=20.19 Aligned_cols=48 Identities=23% Similarity=0.430 Sum_probs=31.0
Q ss_pred CEEEEEECCCCCCCCC---CEEEEEEECCCCEEEECCCCCEEEEECCCCC---CHHHHHHCCCCCCCE
Q ss_conf 6264542388985266---1036787505880422468834898457563---888998569880003
Q gi|254780317|r 254 LQMRFRPSFFPFTEPS---FEVDVRCSFSDGIIKFDEGTEWMEILGCGMV---DPRVLRGVGIDPDIY 315 (366)
Q Consensus 254 ~~~r~rp~~fPftePs---~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~---~p~vl~~~g~d~~~~ 315 (366)
+.-|+|=. =--.|+ +..|.+|+-.. =|=||||- |..+||..|+|++.-
T Consensus 99 Lr~gLRmN--~ianpG~~kv~feLwsfAVS------------AINGCg~CLdsHE~~LR~~GVdre~I 152 (178)
T TIGR00777 99 LRAGLRMN--VIANPGVRKVDFELWSFAVS------------AINGCGACLDSHEADLRKAGVDREAI 152 (178)
T ss_pred CCCCCCCC--CCCCCCCCCCCCHHHHHHHH------------HHCCCCCHHHHHHHHHHHCCCCHHHH
T ss_conf 78753100--00268898644015335432------------22001300366788760069988899
No 120
>CHL00094 dnaK heat shock protein 70
Probab=48.26 E-value=22 Score=16.52 Aligned_cols=10 Identities=10% Similarity=0.311 Sum_probs=4.4
Q ss_pred HHHHHHHHHH
Q ss_conf 9999999999
Q gi|254780317|r 120 QVIDEVTCIF 129 (366)
Q Consensus 120 qvi~eI~~IF 129 (366)
.|++.+.++|
T Consensus 343 ~V~~~l~~~f 352 (622)
T CHL00094 343 AIQELVKSLL 352 (622)
T ss_pred HHHHHHHHHH
T ss_conf 8999999985
No 121
>pfam08968 DUF1885 Domain of unknown function (DUF1885). This domain is found in a set of hypothetical proteins produced by bacteria of the Bacillus genus.
Probab=45.54 E-value=24 Score=16.23 Aligned_cols=65 Identities=18% Similarity=0.344 Sum_probs=45.5
Q ss_pred CCCCHHHHHHHHHHHHHHH--CCCCCCEEEEEECCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHH
Q ss_conf 7866899988999999997--08886626454238898526610367875058804224688348984575638889985
Q gi|254780317|r 230 DSATIANLRWVLESFCKSF--FEVSSLQMRFRPSFFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRG 307 (366)
Q Consensus 230 ~~i~~~~lk~~l~~~~~~~--fg~~~~~~r~rp~~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~ 307 (366)
+.+|+.++|..++++.... =| +.+.+-+--+-||||- + ....+|+.+-|-
T Consensus 13 ~tvt~e~vKqll~~Y~~~t~kTG-~Ql~w~Y~~aAFPY~i---~--------------~~~d~~l~L~~~---------- 64 (128)
T pfam08968 13 QTVTIEDVKQLLEYYKTITSKTG-DQIGWAYEQAAFPYEI---R--------------DTSQSTLYLQSD---------- 64 (128)
T ss_pred CEEEHHHHHHHHHHHHHHHHHHH-HHCCCHHHCCCCCEEE---E--------------ECCCCEEEECCC----------
T ss_conf 14009999999999999997544-0206033404686689---9--------------637868998047----------
Q ss_pred CCCCCCCEEEEEEECCHHH
Q ss_conf 6988000379963134469
Q gi|254780317|r 308 VGIDPDIYQGFAWGMGLDR 326 (366)
Q Consensus 308 ~g~d~~~~~g~AfG~G~eR 326 (366)
++.|.+.++|.|.|+
T Consensus 65 ----~~rY~~I~vgVg~e~ 79 (128)
T pfam08968 65 ----HDRYNGIYIGVGTEG 79 (128)
T ss_pred ----CCCEEEEEEEECCCC
T ss_conf ----875505999635678
No 122
>PTZ00117 malate dehydrogenase; Provisional
Probab=45.21 E-value=21 Score=16.65 Aligned_cols=17 Identities=6% Similarity=0.157 Sum_probs=7.4
Q ss_pred HHHHHCCCCCHHHHHHC
Q ss_conf 97997389705876635
Q gi|254780317|r 327 IAMLKYGMPDVREFFGA 343 (366)
Q Consensus 327 laml~~gi~diR~~~~~ 343 (366)
...++..++.||...+-
T Consensus 291 ~~~l~~S~~~ik~~i~~ 307 (313)
T PTZ00117 291 QSLYSKSIASVQNLTQK 307 (313)
T ss_pred HHHHHHHHHHHHHHHHH
T ss_conf 99999999999999999
No 123
>pfam02906 Fe_hyd_lg_C Iron only hydrogenase large subunit, C-terminal domain.
Probab=44.07 E-value=21 Score=16.71 Aligned_cols=112 Identities=15% Similarity=0.141 Sum_probs=59.9
Q ss_pred HHHHHHHHHHHHHCCCEEE----CCCEEECH--HHHHHH-HCCCCCCCCCCCCCEEEEECC--------CC-CCCC--CC
Q ss_conf 9999999999987398762----37234158--898886-189887733163312775056--------66-5563--22
Q gi|254780317|r 119 TQVIDEVTCIFMDMGFALE----EGSDIETD--YYNFAA-LNFPDDHPARQMHDTFFVPGI--------AG-GKHK--LL 180 (366)
Q Consensus 119 tqvi~eI~~IF~~lGF~v~----eGPEIEtd--~~NFda-LNiP~~HPARdmqDTFyl~~~--------~~-~~~~--lL 180 (366)
..+..++...|..|||..+ -|-++-+. -.-|.. +.- .+....+... +. -+.+ .|
T Consensus 35 ~~~~~kl~~aLk~lGf~~V~d~a~gad~~~~~~~~E~~~~~~~--------~~~~P~isS~CP~~V~~iEk~~PeLi~~l 106 (286)
T pfam02906 35 GTVTGKLVAALRKLGFDYVFDTAFGADLTIMEEASEFLERLKK--------GEKLPMFTSCCPAWVKYVEKYYPELLPNL 106 (286)
T ss_pred HHHHHHHHHHHHHCCCCEEEECHHHHHHHHHHHHHHHHHHHHC--------CCCCCEEECCCHHHHHHHHHHCHHHCCCC
T ss_conf 0578999999998599899984788999999999999999855--------99975485379899999998675434887
Q ss_pred CCCCCCHHH--HHHHHCCCEEEEEECCCCCCCCCCCCCCCCCCCCCEEEECCCCCHHHHHHHHHH
Q ss_conf 446763055--554303631225410576474544213781002005786178668999889999
Q gi|254780317|r 181 RTHTSPVQI--RVMESQDLPIKVIVPGKTYRRDSDSTHSPMFHQIEGLVVSDSATIANLRWVLES 243 (366)
Q Consensus 181 RthTS~vQi--R~m~~~~pP~~~~~~GrvyR~d~D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~ 243 (366)
-+--||+|+ +.+++..|-++++++|=|+-+-..+.+. .|.. .||--+|+.+|...|+.
T Consensus 107 s~v~SPm~~~g~l~K~~~~~i~~V~I~PC~aKK~Ea~r~-~~~~----~VD~VLT~~El~~~l~~ 166 (286)
T pfam02906 107 STCKSPMQMFGALIKTDPEDIFVVSIMPCTAKKFEAARP-EMKG----DVDAVLTTRELAAMIKE 166 (286)
T ss_pred CCCCCHHHHHHHHHCCCCCCEEEEEEECCCCHHHHHCCC-CCCC----CCCEEEEHHHHHHHHHH
T ss_conf 888898999999961589977999995560047675083-0147----65299768999999998
No 124
>PRK13414 flagellar biosynthesis protein FliZ; Provisional
Probab=42.88 E-value=26 Score=15.97 Aligned_cols=64 Identities=16% Similarity=0.367 Sum_probs=30.2
Q ss_pred HHCCCHHHHHHHHHHH-----CCCCHHHHHHHHHH-CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 5069989999999998-----08640689998761-5899889999999999999999999999999998
Q gi|254780317|r 23 ASVTDMDSLNAIRVAT-----LGRKGSISSLLKDL-KNLDSQQVSARGAILNQLKVDISGKISARKDFIR 86 (366)
Q Consensus 23 ~~a~~~~eLe~lrv~~-----LGKKG~Lt~llK~L-k~Ls~EeKk~~Gk~iNelK~~Ie~~i~~kk~~L~ 86 (366)
.++++.++|++++-+. .+++....+.++.+ .+--.++-+--|-..-++..+|+..+.+++..|.
T Consensus 138 kEik~~EELenlk~~l~kiks~~~~~SFksIF~KiL~knkK~~~~~~~~ey~~lEn~IEtSLK~KQDRLK 207 (209)
T PRK13414 138 KEIKSEEELENLKFRLSKIKSSAKKDSFKSIFKKILRKNKKEEIPFDGNEYAKLENDIETSLKSKQDRLK 207 (209)
T ss_pred HHHCCHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf 9852265554356218864462320469999999988553447998821799998887766552676763
No 125
>KOG0129 consensus
Probab=42.62 E-value=20 Score=16.76 Aligned_cols=165 Identities=18% Similarity=0.246 Sum_probs=92.7
Q ss_pred CCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCC----------
Q ss_conf 1123212267423899999999999987398762372341588988861898877331633127750566----------
Q gi|254780317|r 104 PVFSSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIA---------- 173 (366)
Q Consensus 104 P~~~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~---------- 173 (366)
|...+++..|.+ |--...++|...|...|=..+|+|- --|+.. .-+|-=++---|.+=..+
T Consensus 256 ~~~S~KVFvGGl-p~dise~~i~~~F~~FGs~~VdWP~----k~~~~~----~~ppkGs~~YvflvFe~E~sV~~Ll~aC 326 (520)
T KOG0129 256 PRYSRKVFVGGL-PWDITEAQINASFGQFGSVKVDWPG----KANSRG----RAPPKGSYGYVFLVFEDERSVQSLLSAC 326 (520)
T ss_pred CCCCCCEEECCC-CCCCCHHHHHHHCCCCCCEEEECCC----CCCCCC----CCCCCCCCCEEEEEECCHHHHHHHHHHH
T ss_conf 421234020589-9662589998633265305760787----756556----6888886217999861248899999998
Q ss_pred --CCCCCCC----CCCCC-CHHHH---------HHHHCCC--EEEEEECCCCCCCCC-CCCCCC---CCCCCCEEEECCC
Q ss_conf --6556322----44676-30555---------5430363--122541057647454-421378---1002005786178
Q gi|254780317|r 174 --GGKHKLL----RTHTS-PVQIR---------VMESQDL--PIKVIVPGKTYRRDS-DSTHSP---MFHQIEGLVVSDS 231 (366)
Q Consensus 174 --~~~~~lL----RthTS-~vQiR---------~m~~~~p--P~~~~~~GrvyR~d~-D~tH~~---~FhQ~egl~v~~~ 231 (366)
...+..+ +|-.+ .|||| .|..+.| |-|.|-.|-|=|.=+ -..+.. .|--|...=||.|
T Consensus 327 ~~~~~~~yf~vss~~~k~k~VQIrPW~laDs~fv~d~sq~lDprrTVFVGgvprpl~A~eLA~imd~lyGgV~yaGIDtD 406 (520)
T KOG0129 327 SEGEGNYYFKVSSPTIKDKEVQIRPWVLADSDFVLDHNQPIDPRRTVFVGGLPRPLTAEELAMIMEDLFGGVLYVGIDTD 406 (520)
T ss_pred HHCCCCEEEEEECCCCCCCCEEEEEEEECCCHHHHCCCCCCCCCCEEEECCCCCCCHHHHHHHHHHHHCCCEEEEEECCC
T ss_conf 62356458998357667762157765741530432578767875038867778742599999999874384689874467
Q ss_pred -----------CCHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCC-CCCCEEEEEEECCCCE
Q ss_conf -----------66899988999999997088866264542388985-2661036787505880
Q gi|254780317|r 232 -----------ATIANLRWVLESFCKSFFEVSSLQMRFRPSFFPFT-EPSFEVDVRCSFSDGI 282 (366)
Q Consensus 232 -----------i~~~~lk~~l~~~~~~~fg~~~~~~r~rp~~fPft-ePs~Evdv~~~~~~~~ 282 (366)
|||.+-...+..+-..|......+++=|---=||. | |..|..|+|.
T Consensus 407 ~k~KYPkGaGRVtFsnqqsYi~AIsarFvql~h~d~~KRVEIkPYv~e-----Dq~CdeC~g~ 464 (520)
T KOG0129 407 PKLKYPKGAGRVTFSNQQAYIKAISARFVQLDHTDIDKRVEIKPYVME-----DQLCDECGGR 464 (520)
T ss_pred CCCCCCCCCCEEEECCCHHHHHHHHHHEEEEECCCCCEEEEECCEECC-----CCCHHHCCCC
T ss_conf 345887776135660418899997531388750554404653342314-----5330210580
No 126
>COG1364 ArgJ N-acetylglutamate synthase (N-acetylornithine aminotransferase) [Amino acid transport and metabolism]
Probab=41.43 E-value=8.1 Score=19.67 Aligned_cols=26 Identities=15% Similarity=0.321 Sum_probs=19.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHCCC
Q ss_conf 12267423899999999999987398
Q gi|254780317|r 109 PCHRGRIHPVTQVIDEVTCIFMDMGF 134 (366)
Q Consensus 109 ~~~~G~~HPItqvi~eI~~IF~~lGF 134 (366)
-.-+|..-|+.+++.-|..+..+++.
T Consensus 117 TGVIG~~Lpmdki~~gi~~~~~~l~~ 142 (404)
T COG1364 117 TGVIGERLPMDKILAGIEKLVSDLGS 142 (404)
T ss_pred CCCCCCCCCHHHHHHHHHHHHHHCCC
T ss_conf 44238737879999748998754157
No 127
>PRK12831 putative oxidoreductase; Provisional
Probab=40.73 E-value=7.5 Score=19.92 Aligned_cols=38 Identities=16% Similarity=0.215 Sum_probs=24.8
Q ss_pred HHHHHHHHHHHHHHHCCCEEECCCEEECHH--------HHHHHHCC
Q ss_conf 899999999999987398762372341588--------98886189
Q gi|254780317|r 117 PVTQVIDEVTCIFMDMGFALEEGSDIETDY--------YNFAALNF 154 (366)
Q Consensus 117 PItqvi~eI~~IF~~lGF~v~eGPEIEtd~--------~NFdaLNi 154 (366)
|-..++++-.+...++|.++..+-+|-.|. ..|||..+
T Consensus 189 pk~~vl~~ei~~l~~~GV~~~~n~~vG~dis~~~L~~~~~yDAV~l 234 (464)
T PRK12831 189 PKETVVKKEIENIKKLGVKIETNVIVGRTVTIDELLEEEGFDAVFI 234 (464)
T ss_pred CHHHHHHHHHHHHHHCCCEEEECCCCCCCCCHHHHHHCCCCCEEEE
T ss_conf 6789999999999852938991574278767999963569988999
No 128
>TIGR02898 spore_YhcN_YlaJ sporulation lipoprotein, YhcN/YlaJ family; InterPro: IPR014247 This entry contains YhcN and YlaJ, which are predicted lipoproteins that have been detected as spore proteins but not vegetative proteins in Bacillus subtilis. Both appear to be expressed under control of the RNA polymerase sigma-G factor. The YlaJ-like members of this family have a low-complexity, strongly acidic, 40-residue C-terminal domain. .
Probab=40.73 E-value=7.3 Score=20.01 Aligned_cols=100 Identities=15% Similarity=0.279 Sum_probs=57.9
Q ss_pred HHHHHHHHHHHCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCC
Q ss_conf 89999999998086406899987615899889999999999999999999999999998567666765431000001123
Q gi|254780317|r 28 MDSLNAIRVATLGRKGSISSLLKDLKNLDSQQVSARGAILNQLKVDISGKISARKDFIRNQLIFEQISSQSVDVSLPVFS 107 (366)
Q Consensus 28 ~~eLe~lrv~~LGKKG~Lt~llK~Lk~Ls~EeKk~~Gk~iNelK~~Ie~~i~~kk~~L~~~~~~~kl~~E~iDVTLP~~~ 107 (366)
.++++...+-..|+.-.+.--+..=.+-....-..-|+..+++|..|.+.+.+.-..+......+. ...+|-.- ..+
T Consensus 84 ~~gvk~A~vvi~g~~A~VGv~~~~~~ennGnnsqsG~~~~~~lK~~vA~~vk~tD~~i~nVyV~ad--pD~veR~~-~~~ 160 (185)
T TIGR02898 84 VKGVKDATVVITGNRAYVGVDLTNGVENNGNNSQSGGKVTDELKEKVAETVKSTDKRIKNVYVSAD--PDTVERIR-EYG 160 (185)
T ss_pred CCCCCEEEEEEECCEEEEEEEEECCCCCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCEEEEEEC--CCHHHHHH-HHH
T ss_conf 788621148874681589887414766565533357504478899999865300337872689728--62889999-987
Q ss_pred CCCCCCCCCHHHHHHHHHHHHHHHC
Q ss_conf 2122674238999999999999873
Q gi|254780317|r 108 SPCHRGRIHPVTQVIDEVTCIFMDM 132 (366)
Q Consensus 108 ~~~~~G~~HPItqvi~eI~~IF~~l 132 (366)
..+..| |||+-..+||.+||.++
T Consensus 161 ~~I~~G--~P~~gf~dE~~~~~~Rv 183 (185)
T TIGR02898 161 KGIKEG--RPVEGFLDELAEIVRRV 183 (185)
T ss_pred HHHHCC--CCCCHHHHHHHHHHHCC
T ss_conf 562179--67117888999986315
No 129
>TIGR02349 DnaJ_bact chaperone protein DnaJ; InterPro: IPR012724 Molecular chaperones are a diverse family of proteins that function to protect proteins in the intracellular milieu from irreversible aggregation during synthesis and in times of cellular stress. The bacterial molecular chaperone DnaK is an enzyme that couples cycles of ATP binding, hydrolysis, and ADP release by an N-terminal ATP-hydrolizing domain to cycles of sequestration and release of unfolded proteins by a C-terminal substrate binding domain. Dimeric GrpE is the co-chaperone for DnaK, and acts as a nucleotide exchange factor, stimulating the rate of ADP release 5000-fold . DnaK is itself a weak ATPase; ATP hydrolysis by DnaK is stimulated by its interaction with another co-chaperone, DnaJ. Thus the co-chaperones DnaJ and GrpE are capable of tightly regulating the nucleotide-bound and substrate-bound state of DnaK in ways that are necessary for the normal housekeeping functions and stress-related functions of the DnaK molecular chaperone cycle. Besides stimulating the ATPase activity of DnaK through its J-domain, DnaJ also associates with unfolded polypeptide chains and prevents their aggregation . Thus, DnaK and DnaJ may bind to one and the same polypeptide chain to form a ternary complex. The formation of a ternary complex may result in cis-interaction of the J-domain of DnaJ with the ATPase domain of DnaK. An unfolded polypeptide may enter the chaperone cycle by associating first either with ATP-liganded DnaK or with DnaJ. DnaK interacts with both the backbone and side chains of a peptide substrate; it thus shows binding polarity and admits only L-peptide segments. In contrast, DnaJ has been shown to bind both L- and D-peptides and is assumed to interact only with the side chains of the substrate. DnaJ comprises a 70-residue N-terminal domain (the J-domain); a 30-residue glycine-rich region (the G-domain); a central domain containing 4 repeats of a CxxCxGxG motif (the CRR-domain); and a 120-170 residue C-terminal region. The J- and CRR-domains are found in many prokaryotic and eukaryotic proteins , either together or separately. This entry mostly consists of bacterial forms of DnaJ. The three components of the DnaK-DnaJ-GrpE system are typically encoded by consecutive genes. DnaJ homologues occur in many genomes, typically not encoded near DnaK and GrpE-like genes. Most such proteins are not included in this family, though some chloroplast homologues are included; GO: 0005524 ATP binding, 0051082 unfolded protein binding, 0006457 protein folding, 0009408 response to heat.
Probab=40.42 E-value=19 Score=17.02 Aligned_cols=21 Identities=14% Similarity=0.238 Sum_probs=10.6
Q ss_pred EEEEECCCCE-------EEECCCCCEEE
Q ss_conf 6787505880-------42246883489
Q gi|254780317|r 273 DVRCSFSDGI-------IKFDEGTEWME 293 (366)
Q Consensus 273 dv~~~~~~~~-------~~~~~~~~WiE 293 (366)
-..|+.|+|. |..|++.||++
T Consensus 214 ~~tC~~C~G~G~ii~~~C~~C~G~G~~~ 241 (386)
T TIGR02349 214 QQTCPTCGGEGKIIKEPCSTCKGKGRVK 241 (386)
T ss_pred EEECCCCCCEEEEEECCCCCCCCCEEEE
T ss_conf 5877885842389633689988740698
No 130
>PRK05388 argJ bifunctional ornithine acetyltransferase/N-acetylglutamate synthase protein; Validated
Probab=39.82 E-value=9.3 Score=19.23 Aligned_cols=33 Identities=9% Similarity=0.159 Sum_probs=24.1
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHH
Q ss_conf 122674238999999999999873987623723415889888
Q gi|254780317|r 109 PCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFA 150 (366)
Q Consensus 109 ~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFd 150 (366)
-.-.|..=|+.+++.-|.....+|+- +.|.+|-
T Consensus 116 TGVIG~~lp~~ki~~~i~~~~~~l~~---------~~~~~aA 148 (404)
T PRK05388 116 TGVIGEPLPMDKILAGLPAAVAALSE---------DGWEDAA 148 (404)
T ss_pred CCEECCCCCHHHHHHHHHHHHHHCCC---------CCHHHHH
T ss_conf 43016618889999867988865597---------4689999
No 131
>KOG1494 consensus
Probab=39.34 E-value=28 Score=15.74 Aligned_cols=40 Identities=13% Similarity=-0.006 Sum_probs=22.2
Q ss_pred CCCCCCCCCCCEEEECCC-----CCHHHH-HHHHHHHHHHHCCCCC
Q ss_conf 213781002005786178-----668999-8899999999708886
Q gi|254780317|r 214 STHSPMFHQIEGLVVSDS-----ATIANL-RWVLESFCKSFFEVSS 253 (366)
Q Consensus 214 ~tH~~~FhQ~egl~v~~~-----i~~~~l-k~~l~~~~~~~fg~~~ 253 (366)
-||-.+|---|-+-...+ +||+.- -.+...+++.+-|.++
T Consensus 231 Lt~RiQ~gGtEVV~AKaGaGSATLSMAyAga~fa~s~lrgl~G~~~ 276 (345)
T KOG1494 231 LTHRIQNGGTEVVKAKAGAGSATLSMAYAGAKFADSLLRGLNGDED 276 (345)
T ss_pred HHHHHHHCCCEEEEECCCCCCHHHHHHHHHHHHHHHHHHHHCCCCC
T ss_conf 9998871773677703687841356787889999999997279987
No 132
>pfam01960 ArgJ ArgJ family. Members of the ArgJ family catalyse the first EC:2.3.1.1 and fifth steps EC:2.3.1.35 in arginine biosynthesis.
Probab=39.28 E-value=9.4 Score=19.19 Aligned_cols=38 Identities=11% Similarity=0.156 Sum_probs=25.0
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHH-HHCCC
Q ss_conf 122674238999999999999873987623723415889888-61898
Q gi|254780317|r 109 PCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFA-ALNFP 155 (366)
Q Consensus 109 ~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFd-aLNiP 155 (366)
-.-.|..=|+.+++.-|.....+++- +.|..|- |.-+-
T Consensus 100 TGVIG~~lp~~~i~~~i~~~~~~l~~---------~~~~~aA~AImTT 138 (387)
T pfam01960 100 TGVIGEPLPMEKIRAGIPALVAALSA---------DGWEDAARAIMTT 138 (387)
T ss_pred CCEECCCCCHHHHHHHHHHHHHHCCC---------CCHHHHHHHHHCC
T ss_conf 53126628889999878999875483---------4489999877425
No 133
>pfam07851 TMPIT TMPIT-like protein. A number of members of this family are annotated as being transmembrane proteins induced by tumour necrosis factor alpha, but no literature was found to support this.
Probab=39.24 E-value=30 Score=15.56 Aligned_cols=58 Identities=14% Similarity=0.279 Sum_probs=23.8
Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCC-HHHHHHHHHHCC----CCHHHHH
Q ss_conf 689999999999999999850699899999999980864-068999876158----9988999
Q gi|254780317|r 4 CNVFEDEVERIRSSLYNSIASVTDMDSLNAIRVATLGRK-GSISSLLKDLKN----LDSQQVS 61 (366)
Q Consensus 4 ~n~m~eeI~~L~~e~~~~I~~a~~~~eLe~lrv~~LGKK-G~Lt~llK~Lk~----Ls~EeKk 61 (366)
-+.++++-+++++....=+....+...+++-..+-+.+. -.+..+.++|+. +++|+++
T Consensus 6 W~el~~e~~~Lee~hk~Y~~Kleel~~~Q~~c~~~i~~q~krl~~l~~slk~l~~~~~~E~~~ 68 (330)
T pfam07851 6 WKELEKEFQQLQETHRLYKQKLEEVEKLQEQCTSAIARQRKRLKQLIVSLKKLKKSLTPEDSE 68 (330)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHH
T ss_conf 999999999999999999999999999999999899999999999999999736479977899
No 134
>cd02152 OAT Ornithine acetyltransferase (OAT) family; also referred to as ArgJ. OAT catalyzes the first and fifth steps in arginine biosynthesis, coupling acetylation of glutamate with deacetylation of N-acetylornithine, which allows recycling of the acetyl group in the arginine biosynthetic pathway. Members of this family may experience feedback inhibition by L-arginine. The active enzyme is a heterotetramer of two alpha and two beta chains, where the alpha and beta chains are the result of autocatalytic cleavage. OATs found in the clavulanic acid biosynthesis gene cluster catalyze the fifth step only, and may utilize acetyl acceptors other than glutamate.
Probab=38.31 E-value=11 Score=18.75 Aligned_cols=38 Identities=13% Similarity=0.163 Sum_probs=25.3
Q ss_pred CCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHH-HHCCC
Q ss_conf 122674238999999999999873987623723415889888-61898
Q gi|254780317|r 109 PCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFA-ALNFP 155 (366)
Q Consensus 109 ~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFd-aLNiP 155 (366)
-.-.|-.=|+.+++.-|.....+|+ +++|.+|- |.-+-
T Consensus 103 TGVIG~~Lp~~~i~~~i~~l~~~l~---------~~~~~~aA~AImTT 141 (390)
T cd02152 103 TGVIGEPLPMDKIRAGIPELVASLS---------EDGWEAAARAIMTT 141 (390)
T ss_pred CCEECCCCCHHHHHHHHHHHHHHCC---------CCCHHHHHHHHHCC
T ss_conf 4311661888999987999987568---------74689999877514
No 135
>TIGR02905 spore_yutH spore coat protein YutH; InterPro: IPR014254 This entry, represented by the Bacillus subtilis protein YutH, is found only in the family Bacillaceae, part of the endospore-forming group within the Firmicutes. YutH has been shown to be involved in spore coat assmebly . Proteins in this entry are homologous to CotS (IPR014255 from INTERPRO)..
Probab=37.90 E-value=9.4 Score=19.19 Aligned_cols=14 Identities=14% Similarity=0.088 Sum_probs=7.1
Q ss_pred CCCCCCCCCCEEEE
Q ss_conf 13781002005786
Q gi|254780317|r 215 THSPMFHQIEGLVV 228 (366)
Q Consensus 215 tH~~~FhQ~egl~v 228 (366)
.|+..||+---.++
T Consensus 106 r~LA~fH~~Gr~~~ 119 (325)
T TIGR02905 106 RELATFHKRGRQYP 119 (325)
T ss_pred HHHHHHHHCCCCCC
T ss_conf 89999986016786
No 136
>KOG2786 consensus
Probab=37.84 E-value=12 Score=18.45 Aligned_cols=28 Identities=29% Similarity=0.599 Sum_probs=21.5
Q ss_pred CCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHH
Q ss_conf 26742389999999999998739876237234158898
Q gi|254780317|r 111 HRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYN 148 (366)
Q Consensus 111 ~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~N 148 (366)
..|-+||-.-++ |||-+-+.| ||+|-|-
T Consensus 200 GaGMI~PNmATl---------LG~ivTDap-iesda~r 227 (431)
T KOG2786 200 GAGMIHPNMATL---------LGVIVTDAP-IESDAWR 227 (431)
T ss_pred CCCCCCCCHHHH---------HHEEECCCC-CCHHHHH
T ss_conf 576448467766---------310321674-3078999
No 137
>PRK05425 asparagine synthetase AsnA; Provisional
Probab=37.33 E-value=30 Score=15.56 Aligned_cols=48 Identities=21% Similarity=0.268 Sum_probs=36.3
Q ss_pred EEECCCCCCCCC--CCCCCCCCCCCCE-EEE-CCCCCHHHHHHHHHHHHHHH
Q ss_conf 541057647454--4213781002005-786-17866899988999999997
Q gi|254780317|r 201 VIVPGKTYRRDS--DSTHSPMFHQIEG-LVV-SDSATIANLRWVLESFCKSF 248 (366)
Q Consensus 201 ~~~~GrvyR~d~--D~tH~~~FhQ~eg-l~v-~~~i~~~~lk~~l~~~~~~~ 248 (366)
+.+-=+..|+|+ |.+||.-.-|-+= .+| .++-|+.-||.+...+++.+
T Consensus 95 lyTdMnAiR~DE~ldn~HSiyVDQWDWEkvI~~edRnl~~LK~tV~~Iy~~i 146 (327)
T PRK05425 95 LYTDMNAIRPDEDLDNTHSVYVDQWDWEKVIDKEERNLDFLKETVNKIYKAI 146 (327)
T ss_pred ECCCCCCCCCCCCCCCCEEEEECCCCHHHHCCHHHCCHHHHHHHHHHHHHHH
T ss_conf 2016762546755687601898400364536853267899999999999999
No 138
>TIGR00418 thrS threonyl-tRNA synthetase; InterPro: IPR002320 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; these synthetases are further divided into three subclasses, a, b and c, according to sequence homology. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases . Threonyl-tRNA synthetase (6.1.1.3 from EC) exists as a monomer and belongs to class IIa. The enzyme from Escherichia coli represses the translation of its own mRNA. The crystal structure of the complex between tRNA(Thr) and ThrRS show structural features that reveal novel strategies for providing specificity in tRNA selection. These include an amino-terminal domain containing a novel protein fold that makes minor groove contacts with the tRNA acceptor stem. The enzyme induces a large deformation of the anticodon loop, resulting in an interaction between two adjacent anticodon bases, which accounts for their prominent role in tRNA identity and translational regulation. A zinc ion found in the active site is implicated in amino acid recognition/discrimination . The zinc ion may act to ensure that only amino acids that possess a hydroxyl group attached to the beta-position are activated .; GO: 0004829 threonine-tRNA ligase activity, 0005524 ATP binding, 0006412 translation, 0006435 threonyl-tRNA aminoacylation, 0005737 cytoplasm.
Probab=36.91 E-value=32 Score=15.31 Aligned_cols=100 Identities=19% Similarity=0.197 Sum_probs=64.5
Q ss_pred HHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHHC-----C
Q ss_conf 99999999873987623723415889888618988773316331277505666556322446763055554303-----6
Q gi|254780317|r 122 IDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVMESQ-----D 196 (366)
Q Consensus 122 i~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m~~~-----~ 196 (366)
-+-+++--...||..+.+|.+=+.. |--=-.|=.+-- |..|.-....+....||.=|=|.++....+. +
T Consensus 219 edf~~~~~~~~Gy~~V~TP~m~~~~-----l~~~sGH~~~Y~-e~Mf~~~~~~~~~~~LkPMnCpgH~~i~k~~~~SYR~ 292 (595)
T TIGR00418 219 EDFVREKQIKRGYEEVETPIMYDSE-----LWEISGHWDHYK-ERMFPFTEEDNQEFMLKPMNCPGHILIFKSSLRSYRD 292 (595)
T ss_pred HHHHHHHHHHCCCCCCCCCEECCCC-----CHHHHHHHHHCC-CCCCCCEEECCCCCCCCCCCCHHHHHHHCCCCCCHHH
T ss_conf 9999999987588641574121565-----424530545034-2354010103530334567754453300177777323
Q ss_pred CEEEEEECC-CCCCCCC-CCCCC----CCCCCCCEEE
Q ss_conf 312254105-7647454-42137----8100200578
Q gi|254780317|r 197 LPIKVIVPG-KTYRRDS-DSTHS----PMFHQIEGLV 227 (366)
Q Consensus 197 pP~~~~~~G-rvyR~d~-D~tH~----~~FhQ~egl~ 227 (366)
.|+|+-=-| -|||+|. =+-|- --|.|-|-=.
T Consensus 293 LP~R~aE~g~~~hR~E~sG~L~GL~RvR~FT~dDaHi 329 (595)
T TIGR00418 293 LPLRIAELGTTVHRYEKSGALHGLKRVRGFTQDDAHI 329 (595)
T ss_pred CCCHHHHCCCEEEEEECCCCCCHHHHHHHCCCCCCCE
T ss_conf 3503433186047884254210101644306998524
No 139
>PRK00153 hypothetical protein; Validated
Probab=36.40 E-value=10 Score=18.99 Aligned_cols=43 Identities=9% Similarity=0.190 Sum_probs=22.6
Q ss_pred CCCHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCHHHHHHH
Q ss_conf 9846899999999999999998506998999999999808640689998
Q gi|254780317|r 1 MTECNVFEDEVERIRSSLYNSIASVTDMDSLNAIRVATLGRKGSISSLL 49 (366)
Q Consensus 1 Mse~n~m~eeI~~L~~e~~~~I~~a~~~~eLe~lrv~~LGKKG~Lt~ll 49 (366)
|.+.+.|+.+.++++++..+. .++|++..++.-...|.++-.+
T Consensus 3 m~nm~~mmkqaq~mq~~~~~~------q~el~~~~v~~~sg~glV~V~~ 45 (107)
T PRK00153 3 MGNMANLMKQAQQMQEKMQKM------QEELANKEVTGTAGGGLVTVTM 45 (107)
T ss_pred CCCHHHHHHHHHHHHHHHHHH------HHHHHCCEEEEEECCCEEEEEE
T ss_conf 435999999999999999999------9998375899998798599999
No 140
>cd00645 AsnA Asparagine synthetase (aspartate-ammonia ligase) (AsnA) catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. AsnA is a homodimeric enzyme which is structurally similiar to the catalytic core domain of class II aminoacyl-tRNA synthetases. Ammonia-dependent AsnA is not homologous to the glutamine-dependent asparagine synthetase AsnB.
Probab=36.34 E-value=32 Score=15.29 Aligned_cols=49 Identities=18% Similarity=0.238 Sum_probs=37.1
Q ss_pred EEEECCCCCCCCC--CCCCCCCCCCCCE-EEE-CCCCCHHHHHHHHHHHHHHH
Q ss_conf 2541057647454--4213781002005-786-17866899988999999997
Q gi|254780317|r 200 KVIVPGKTYRRDS--DSTHSPMFHQIEG-LVV-SDSATIANLRWVLESFCKSF 248 (366)
Q Consensus 200 ~~~~~GrvyR~d~--D~tH~~~FhQ~eg-l~v-~~~i~~~~lk~~l~~~~~~~ 248 (366)
-+.+-=+..|+|+ |.+||.-.-|-+= .+| .++-|+.-||.+...+++.+
T Consensus 83 GlytdMnAiR~DE~ldn~HSiyVDQWDWEkvI~~~dRnl~~Lk~tV~~Iy~~i 135 (309)
T cd00645 83 GLYTDMNAIRPDEDLDNIHSIYVDQWDWEKVISKGERNLETLKETVNKIYKAI 135 (309)
T ss_pred EECCCCCCCCCCCCCCCCCEEEECCCCHHHHCCHHHCCHHHHHHHHHHHHHHH
T ss_conf 30127762557755687612898500353427852258999999999999999
No 141
>PRK12779 putative bifunctional glutamate synthase subunit beta/2-polyprenylphenol hydroxylase; Provisional
Probab=36.30 E-value=19 Score=16.90 Aligned_cols=110 Identities=24% Similarity=0.389 Sum_probs=66.4
Q ss_pred CCCCCCCCEEEE--CCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEE
Q ss_conf 781002005786--178668999889999999970888662645423889852661036787505880422468834898
Q gi|254780317|r 217 SPMFHQIEGLVV--SDSATIANLRWVLESFCKSFFEVSSLQMRFRPSFFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEI 294 (366)
Q Consensus 217 ~~~FhQ~egl~v--~~~i~~~~lk~~l~~~~~~~fg~~~~~~r~rp~~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi 294 (366)
.|+=.|+||.++ ++.|+.+.|+..+....+.. + .+..-++.+-.-|-.. +.+.=+-|
T Consensus 253 CPQE~QCEg~C~~~~~pVaIG~LERFvaD~~r~~-~-~~~~~~~~~~~~P~~~-------------------~~~~kVAV 311 (944)
T PRK12779 253 CPQELQCQGVCTHTKRPIEIGQLEWYLPEHEKLV-N-PNANERFAGRISPWAA-------------------AVKPPIAV 311 (944)
T ss_pred CCCHHHHHHCCCCCCCCCEECHHHHHHHHHHHHH-C-CCHHHHHCCCCCCCCC-------------------CCCCCEEE
T ss_conf 9873458544577985413024677776688763-8-3223430345676554-------------------67986799
Q ss_pred ECCC---CCCHHHHHHCCCCCCCEEEEEEECCHHHHHHHHCCCCCHHHHH---HCCHHHHHHCC
Q ss_conf 4575---6388899856988000379963134469979973897058766---35888887448
Q gi|254780317|r 295 LGCG---MVDPRVLRGVGIDPDIYQGFAWGMGLDRIAMLKYGMPDVREFF---GADVRWIEHYG 352 (366)
Q Consensus 295 ~g~G---m~~p~vl~~~g~d~~~~~g~AfG~G~eRlaml~~gi~diR~~~---~~d~rfl~qf~ 352 (366)
-|+| +---..|+..|++..+|-.+.=--| ||+||||.-|+=- ..++..|+..|
T Consensus 312 IGsGPAGLs~A~~Lar~Gy~VTVFEalh~~GG-----vL~YGIPeFRLPK~IV~~EI~~l~~lG 370 (944)
T PRK12779 312 VGSGPSGLINAYLLAVEGFPVTIFEAFHDLGG-----VLRYGIPEFRLPNQLIDDVVEKIKLLG 370 (944)
T ss_pred ECCCHHHHHHHHHHHHCCCCEEEEECCCCCCC-----EEEECCCCCCCCHHHHHHHHHHHHHCC
T ss_conf 88576899999999977993399944787885-----589558766687899999999999678
No 142
>PRK11546 zraP zinc resistance protein; Provisional
Probab=36.27 E-value=33 Score=15.24 Aligned_cols=52 Identities=17% Similarity=0.244 Sum_probs=33.3
Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 99999999980864068999876158998899999999999999999999999
Q gi|254780317|r 29 DSLNAIRVATLGRKGSISSLLKDLKNLDSQQVSARGAILNQLKVDISGKISAR 81 (366)
Q Consensus 29 ~eLe~lrv~~LGKKG~Lt~llK~Lk~Ls~EeKk~~Gk~iNelK~~Ie~~i~~k 81 (366)
++..++|.+...|.+++..|+..= +-+.+.-+++-+++..|++.+-+.--.+
T Consensus 57 ~eTa~LRqqL~aKr~ElNALL~at-~PD~~kI~avakEis~LR~kl~e~rv~~ 108 (139)
T PRK11546 57 AQTSALRQQLVSKRYEYNALLTAN-PPDSSKINAVAKEMETLRQSLDEQRVKR 108 (139)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCC-CCCHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 999999999999899999998069-9779999999999999999999999999
No 143
>TIGR01661 ELAV_HUD_SF ELAV/HuD family splicing factor; InterPro: IPR006548 These sequences represent the ELAV/HuD subfamily of splicing factors found in metazoa. HuD stands for the human paraneoplastic encephalomyelitis antigen D of which there are 4 variants in human . ELAV stands for the Drosophila Embryonic lethal abnormalvisual protein . ELAV-like splicing factors are also known in human as HuB (ELAV-like protein 2), HuC (ELAV-like protein 3, Paraneoplastic cerebellar degeneration-associated antigen) and HuR (ELAV-like protein 1). These genes are most closely related to the sex-lethal subfamily of splicing factors found in Dipteran insects (IPR006546 from INTERPRO). ; GO: 0003723 RNA binding.
Probab=36.24 E-value=15 Score=17.78 Aligned_cols=20 Identities=25% Similarity=0.356 Sum_probs=14.2
Q ss_pred CHHHHHHHHHHHHHHHCCCE
Q ss_conf 38999999999999873987
Q gi|254780317|r 116 HPVTQVIDEVTCIFMDMGFA 135 (366)
Q Consensus 116 HPItqvi~eI~~IF~~lGF~ 135 (366)
=|=|-+..|++.||.-.|=-
T Consensus 110 LPK~MTq~eLE~lF~pfG~I 129 (436)
T TIGR01661 110 LPKTMTQKELESLFSPFGKI 129 (436)
T ss_pred CCCCCCHHHHHHHHCCCCCE
T ss_conf 88652368999983202752
No 144
>COG4981 Enoyl reductase domain of yeast-type FAS1 [Lipid metabolism]
Probab=36.13 E-value=21 Score=16.67 Aligned_cols=126 Identities=14% Similarity=0.191 Sum_probs=63.6
Q ss_pred HHHHHHHHHHCCCHHHHHHHHHHHCCCCHHHHHHHHHHCC-C-CHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 9999999850699899999999980864068999876158-9-9889-99999999999999999999999999856766
Q gi|254780317|r 15 RSSLYNSIASVTDMDSLNAIRVATLGRKGSISSLLKDLKN-L-DSQQ-VSARGAILNQLKVDISGKISARKDFIRNQLIF 91 (366)
Q Consensus 15 ~~e~~~~I~~a~~~~eLe~lrv~~LGKKG~Lt~llK~Lk~-L-s~Ee-Kk~~Gk~iNelK~~Ie~~i~~kk~~L~~~~~~ 91 (366)
-.++++.|-+++-.+ =.++...+=++.| ++..+++|+. + .... -..+|+++.+.--+.. ++.+++++|-+. ++
T Consensus 265 Sp~vK~~lv~t~Gvd-d~~W~~~g~a~~G-m~s~rSqLgadIheidn~~~~~~rlldev~~d~~-a~~arRdeII~a-ln 340 (717)
T COG4981 265 SPAVKEALVATQGVD-DDEWEGTGKAPGG-MASVRSQLGADIHEIDNRGAMAGRLLDEVAGDLP-AVAARRDEIIEA-LN 340 (717)
T ss_pred CHHHHHHHHHCCCCC-CHHCEECCCCCCC-EEEEHHHHCCCHHHHHHHHHHHHHHHHHHHCCCH-HHHHHHHHHHHH-HH
T ss_conf 888998876177988-3210234788886-3543544087077650277888887766515638-889879999999-86
Q ss_pred HHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHH--------HHCCCCCCCC
Q ss_conf 67654310000011232122674238999999999999873987623723415889888--------6189887733
Q gi|254780317|r 92 EQISSQSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFA--------ALNFPDDHPA 160 (366)
Q Consensus 92 ~kl~~E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFd--------aLNiP~~HPA 160 (366)
+ .++ | .-|. .=+-+-.|...=..+|-|-.+++|++...|-.|. +=.++++|-+
T Consensus 341 ~-taK-------p------yFg~--v~~MTY~ewl~R~vEL~~~~~~~~w~d~Twr~rf~~ml~R~EaRl~~~~~g~ 401 (717)
T COG4981 341 K-TAK-------P------YFGD--VADMTYAEWLQRYVELMIGEVGSPWIDVTWRDRFGDMLRRAEARLTEQDHGP 401 (717)
T ss_pred H-HCC-------C------CCCH--HHHHHHHHHHHHHHHHHHCCCCCCCCCCHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf 3-257-------6------4230--7775799999999998607778875052599999999999998505201674
No 145
>COG2098 Uncharacterized protein conserved in archaea [Function unknown]
Probab=36.13 E-value=33 Score=15.22 Aligned_cols=59 Identities=31% Similarity=0.363 Sum_probs=37.4
Q ss_pred CCCCCCCCCEEEECCCCCHHHHHHHHHHHHH-HHCCCCCCEEEEE------ECCCCCCCCCCEE-EEEE
Q ss_conf 3781002005786178668999889999999-9708886626454------2388985266103-6787
Q gi|254780317|r 216 HSPMFHQIEGLVVSDSATIANLRWVLESFCK-SFFEVSSLQMRFR------PSFFPFTEPSFEV-DVRC 276 (366)
Q Consensus 216 H~~~FhQ~egl~v~~~i~~~~lk~~l~~~~~-~~fg~~~~~~r~r------p~~fPftePs~Ev-dv~~ 276 (366)
--..|||.-|.-|... |-..|-..++.-++ +=|= .+++|+.. +++|-|||-|-|+ ||.-
T Consensus 22 lGalyHqf~GtPvs~~-~a~~le~aI~esi~~QP~v-~daeV~Id~~~~K~~~~~gYt~LsG~mLdV~l 88 (116)
T COG2098 22 LGALYHQFVGTPVSPG-TAESLEKAIEESIKVQPFV-EDAEVKIDRDKEKLDGEFGYTELSGEMLDVRL 88 (116)
T ss_pred HHHHHHHHCCCCCCCC-CHHHHHHHHHHHHHCCCCE-EEEEEEECCCCCCCCCCCCEEEECCCCEEEEE
T ss_conf 3312233307767854-3689999999987228745-56799964654456664556883253177999
No 146
>KOG0018 consensus
Probab=36.12 E-value=33 Score=15.22 Aligned_cols=10 Identities=40% Similarity=0.893 Sum_probs=4.7
Q ss_pred EEECCCCCCC
Q ss_conf 5410576474
Q gi|254780317|r 201 VIVPGKTYRR 210 (366)
Q Consensus 201 ~~~~GrvyR~ 210 (366)
.+.||+-||.
T Consensus 1039 ~~pP~KRFr~ 1048 (1141)
T KOG0018 1039 CMPPGKRFRP 1048 (1141)
T ss_pred CCCCCCCCCC
T ss_conf 0598444673
No 147
>pfam11324 DUF3126 Protein of unknown function (DUF3126). This family of proteins with unknown function appear to be restricted to Alphaproteobacteria.
Probab=35.32 E-value=34 Score=15.14 Aligned_cols=31 Identities=29% Similarity=0.431 Sum_probs=23.8
Q ss_pred HHHHHHHHHCCCCCCEEEEEECCCCCCCCCCEEEE
Q ss_conf 99999999708886626454238898526610367
Q gi|254780317|r 240 VLESFCKSFFEVSSLQMRFRPSFFPFTEPSFEVDV 274 (366)
Q Consensus 240 ~l~~~~~~~fg~~~~~~r~rp~~fPftePs~Evdv 274 (366)
-|+.+++..||...++++-||. ..-|+||.+
T Consensus 4 klq~yLr~~F~n~~i~v~~r~k----~~DSaEV~~ 34 (63)
T pfam11324 4 KLQAYLKRKFGNPTLRVKARPK----KGDSAEVYI 34 (63)
T ss_pred HHHHHHHHHHCCCCEEEECCCC----CCCCEEEEE
T ss_conf 9999999971999659976799----998769985
No 148
>KOG3226 consensus
Probab=35.10 E-value=10 Score=18.87 Aligned_cols=27 Identities=41% Similarity=0.661 Sum_probs=21.7
Q ss_pred EEEECCCCCCCCC--CCCCC-------CCCCCCCEE
Q ss_conf 2541057647454--42137-------810020057
Q gi|254780317|r 200 KVIVPGKTYRRDS--DSTHS-------PMFHQIEGL 226 (366)
Q Consensus 200 ~~~~~GrvyR~d~--D~tH~-------~~FhQ~egl 226 (366)
+.+..|--||.|+ |.||+ |-|.||+|.
T Consensus 339 kAl~LGAkY~pDW~~gsThLICAF~NTPKy~QV~g~ 374 (508)
T KOG3226 339 KALTLGAKYQPDWNAGSTHLICAFPNTPKYRQVEGN 374 (508)
T ss_pred HHHHHCCCCCCCCCCCCEEEEEECCCCCCHHHCCCC
T ss_conf 887616602677678963689723899515320157
No 149
>TIGR01389 recQ ATP-dependent DNA helicase RecQ; InterPro: IPR006293 The ATP-dependent DNA helicase RecQ (3.6.1 from EC) is involved in genome maintenance . All homologues tested to date unwind paired DNA, translocating in a 3' to 5' direction and several have a preference for forked or 4-way DNA structures (e.g. Holliday junctions) or for G-quartet DNA. The yeast protein, Sgs1, is present in numerous foci that coincide with sites of de novo synthesis DNA, such as the replication fork, and protein levels peak during S-phase. A model has been proposed for Sgs1p action in the S-phase checkpoint response, both as a 'sensor' for damage during replication and a 'resolvase' for structures that arise at paused forks, such as the four-way 'chickenfoot' structure. The action of Sgs1p may serve to maintain the proper amount and integrity of ss DNA that is necessary for the binding of RPA (replication protein A, the eukaryotic ss DNA-binding protein)DNA pol complexes. Sgs1p would thus function by detecting (or resolving) aberrant DNA structures, and would thus contribute to the full activation of the DNA-dependent protein kinase, Mec1p and the effector kinase, Rad53p. Its ability to bind both the large subunit of RPA and the RecA-like protein Rad51p, place it in a unique position to resolve inappropriate fork structures that can occur when either the leading or lagging strand synthesis is stalled. Thus, RecQ helicases integrate checkpoint activation and checkpoint response. ; GO: 0004003 ATP-dependent DNA helicase activity, 0006310 DNA recombination, 0009432 SOS response.
Probab=34.87 E-value=11 Score=18.71 Aligned_cols=40 Identities=18% Similarity=0.323 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHHHHHH--HHHCCCHHHHHHHHHHHCCCCHHH
Q ss_conf 689999999999999999--850699899999999980864068
Q gi|254780317|r 4 CNVFEDEVERIRSSLYNS--IASVTDMDSLNAIRVATLGRKGSI 45 (366)
Q Consensus 4 ~n~m~eeI~~L~~e~~~~--I~~a~~~~eLe~lrv~~LGKKG~L 45 (366)
++.|+|++++|++.--++ |++.-|.++-.++-... ..|.|
T Consensus 63 IsLMkDQVd~L~~~Gv~Aa~lNSt~s~~E~~~i~~~~--~~G~~ 104 (607)
T TIGR01389 63 ISLMKDQVDQLRAAGVAAAYLNSTLSAKEQQEIEKAL--VNGEL 104 (607)
T ss_pred HHHHHHHHHHHHHCCCEEEEECCCCCHHHHHHHHHHH--HCCCE
T ss_conf 6314779999986070145203778888999999998--41981
No 150
>pfam07798 DUF1640 Protein of unknown function (DUF1640). This family consists of sequences derived from hypothetical eukaryotic proteins. A region approximately 100 residues in length is featured.
Probab=34.56 E-value=35 Score=15.05 Aligned_cols=11 Identities=18% Similarity=0.419 Sum_probs=3.8
Q ss_pred HHHHHHHHHCC
Q ss_conf 68999876158
Q gi|254780317|r 44 SISSLLKDLKN 54 (366)
Q Consensus 44 ~Lt~llK~Lk~ 54 (366)
.++.+.+.+..
T Consensus 59 ~~selr~el~~ 69 (177)
T pfam07798 59 DFAKLKSELQS 69 (177)
T ss_pred HHHHHHHHHHH
T ss_conf 99999999998
No 151
>pfam10805 DUF2730 Protein of unknown function (DUF2730). This family of proteins with unknown function appears to be restricted to Gammaproteobacteria.
Probab=34.53 E-value=35 Score=15.05 Aligned_cols=41 Identities=10% Similarity=0.344 Sum_probs=23.2
Q ss_pred HHHHHHHHHCCCHHHHHHHHHHHCCCCHHHHHHHHHHCCCC
Q ss_conf 99999985069989999999998086406899987615899
Q gi|254780317|r 16 SSLYNSIASVTDMDSLNAIRVATLGRKGSISSLLKDLKNLD 56 (366)
Q Consensus 16 ~e~~~~I~~a~~~~eLe~lrv~~LGKKG~Lt~llK~Lk~Ls 56 (366)
++...++....+.+++.++++..-.=+|.+..+..++..++
T Consensus 52 ~~lE~~v~~lPt~~dv~~L~~~itelrGe~k~l~~~i~~i~ 92 (106)
T pfam10805 52 TEMETKLESLPTAKDVHALKIEITELRGELKELSAQIQSIS 92 (106)
T ss_pred HHHHHHHHCCCCHHHHHHHHHHHHHHCCHHHHHHHHHHHHH
T ss_conf 99999985399687899999999997146999988757688
No 152
>KOG0729 consensus
Probab=34.27 E-value=24 Score=16.28 Aligned_cols=14 Identities=7% Similarity=0.318 Sum_probs=7.2
Q ss_pred HHHHHHHHHHCCCE
Q ss_conf 99999999873987
Q gi|254780317|r 122 IDEVTCIFMDMGFA 135 (366)
Q Consensus 122 i~eI~~IF~~lGF~ 135 (366)
+.+|-.+-.++|=.
T Consensus 117 ~KqiaKfvV~lg~~ 130 (435)
T KOG0729 117 VKQIAKFVVGLGDR 130 (435)
T ss_pred HHHHHHHHHCCCCC
T ss_conf 99888886455655
No 153
>PRK12928 lipoyl synthase; Provisional
Probab=34.04 E-value=28 Score=15.73 Aligned_cols=176 Identities=19% Similarity=0.239 Sum_probs=75.2
Q ss_pred HHHHHHHHHHHHHCCC-EE---ECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCC-------CCCCH
Q ss_conf 9999999999987398-76---2372341588988861898877331633127750566655632244-------67630
Q gi|254780317|r 119 TQVIDEVTCIFMDMGF-AL---EEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRT-------HTSPV 187 (366)
Q Consensus 119 tqvi~eI~~IF~~lGF-~v---~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRt-------hTS~v 187 (366)
.....++.++..+.+- +| +.=|.|-.-|- .-.-||-|=+. ..-|. |-.|.
T Consensus 25 ~~~~~~~~~~l~~~~L~TVCeeA~CPNi~ECw~--------------~gTATFMIlGd-----~CTR~C~FC~V~tg~P~ 85 (290)
T PRK12928 25 ASELETVQRLVKQRRLHTICEEARCPNRGECYA--------------QGTATFLLMGS-----ICTRRCAFCQVAKGRPM 85 (290)
T ss_pred CCHHHHHHHHHHHCCCEEEECCCCCCCHHHHCC--------------CCCCEEEECCC-----CCCCCCCCCCCCCCCCC
T ss_conf 834999999999779925567888997488669--------------98428996678-----63548985155379989
Q ss_pred HH------HHHHH-CCCEEEEEECCCCCCCCC---CCCCCCC-C---------CCCCEEEECCCCCHHH-HHHHHHHHHH
Q ss_conf 55------55430-363122541057647454---4213781-0---------0200578617866899-9889999999
Q gi|254780317|r 188 QI------RVMES-QDLPIKVIVPGKTYRRDS---DSTHSPM-F---------HQIEGLVVSDSATIAN-LRWVLESFCK 246 (366)
Q Consensus 188 Qi------R~m~~-~~pP~~~~~~GrvyR~d~---D~tH~~~-F---------hQ~egl~v~~~i~~~~-lk~~l~~~~~ 246 (366)
-+ |+-+. ...-++.+.+--|=|-|- -|.|... - -.||-|+-|-.-...+ |+.+++. --
T Consensus 86 ~lD~~EP~rvA~av~~m~LkyvVITSV~RDDL~DgGA~hfa~~I~~Ir~~~P~~~iEvLiPDF~G~~~~al~~v~~a-~p 164 (290)
T PRK12928 86 PLDPDEPERVAEAVAALGLRYVVLTSVARDDLPDGGAAHFVATIAAIRARNPGTGIEVLTPDFWGGVARALATVLAA-KP 164 (290)
T ss_pred CCCHHHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEECHHHCCCHHHHHHHHHHC-CC
T ss_conf 89803479999999983897689841236788664529999999999845998679970711136878999999846-85
Q ss_pred HHCCCCCCEEEEEECCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCC-CCCC--CEEEEEEECC
Q ss_conf 970888662645423889852661036787505880422468834898457563888998569-8800--0379963134
Q gi|254780317|r 247 SFFEVSSLQMRFRPSFFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVG-IDPD--IYQGFAWGMG 323 (366)
Q Consensus 247 ~~fg~~~~~~r~rp~~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g-~d~~--~~~g~AfG~G 323 (366)
.+|. .++++ -|..+|-.-|.+.-+-+ =+||+.+. ++|. .-||+-.|+|
T Consensus 165 dV~n-HNiET--V~rL~~~VRp~A~Y~rS--------------------------L~vL~~ak~~~~~i~TKSgiMvGLG 215 (290)
T PRK12928 165 DCFN-HNLET--VPRLQKAVRRGADYQRS--------------------------LDLLARAKELAPGIPTKSGLMLGLG 215 (290)
T ss_pred HHHH-CCCCC--CHHHCCCCCCCCHHHHH--------------------------HHHHHHHHHHCCCCEEEEEEEEECC
T ss_conf 4654-55012--04317124885508999--------------------------9999999973888524134588605
Q ss_pred HHHHHHHHCCCCCHHHHHHCCHHH
Q ss_conf 469979973897058766358888
Q gi|254780317|r 324 LDRIAMLKYGMPDVREFFGADVRW 347 (366)
Q Consensus 324 ~eRlaml~~gi~diR~~~~~d~rf 347 (366)
=..--.+ - -+++|.+.++.+
T Consensus 216 Et~eEv~-~---~~~DLr~~gvdi 235 (290)
T PRK12928 216 ETEDEVI-E---TLRDLRAVDCDR 235 (290)
T ss_pred CCHHHHH-H---HHHHHHHCCCCE
T ss_conf 8899999-9---999999819989
No 154
>KOG2344 consensus
Probab=34.00 E-value=35 Score=14.99 Aligned_cols=18 Identities=28% Similarity=0.628 Sum_probs=12.2
Q ss_pred CCCCCCCCCHHHHHHHHH
Q ss_conf 212267423899999999
Q gi|254780317|r 108 SPCHRGRIHPVTQVIDEV 125 (366)
Q Consensus 108 ~~~~~G~~HPItqvi~eI 125 (366)
.|...|++||+|...-..
T Consensus 379 ~pv~gG~VHpLTryvmny 396 (623)
T KOG2344 379 TPVPGGGVHPLTRYVMNY 396 (623)
T ss_pred CCCCCCCCCHHHHHHHHH
T ss_conf 899999767107999999
No 155
>COG4734 ArdA Antirestriction protein [General function prediction only]
Probab=33.67 E-value=9.7 Score=19.09 Aligned_cols=29 Identities=31% Similarity=0.503 Sum_probs=22.3
Q ss_pred EEECCCCCCCCCCEEEEEEECCCCE---EEECCCCCEE
Q ss_conf 5423889852661036787505880---4224688348
Q gi|254780317|r 258 FRPSFFPFTEPSFEVDVRCSFSDGI---IKFDEGTEWM 292 (366)
Q Consensus 258 ~rp~~fPftePs~Evdv~~~~~~~~---~~~~~~~~Wi 292 (366)
++-|-||| |-|.|++|.|. |..|..+.|=
T Consensus 38 l~~srfPn------vmVkCpnceg~~e~Ct~~~~d~~e 69 (193)
T COG4734 38 LFDSRFPN------VMVKCPNCEGFYEACTALHADEWE 69 (193)
T ss_pred HHHHCCCC------CEEECCCHHHHHHHHHHHCCCCCC
T ss_conf 88612763------122165501189997763277533
No 156
>TIGR03112 6_pyr_pter_rel 6-pyruvoyl tetrahydropterin synthase-related domain. Members of this family are small proteins, or small domains of larger proteins, that occur in certain Firmicutes in the same regions as members of families TIGR03110 and TIGR03111. Members of TIGR03110 resemble exosortase, a proposed protein sorting transpeptidase (see TIGR02602). TIGR03111 represents a small clade among the group 2 glycosyltransferases. Members of the current protein family resemble eukaryotic known and prokaryotic predicted 6-pyruvoyl tetrahydropterin synthases.
Probab=33.58 E-value=36 Score=14.94 Aligned_cols=54 Identities=17% Similarity=0.401 Sum_probs=35.8
Q ss_pred CCCCCCCCCCCCCEEEECCC---CCHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCC--CCCCEE
Q ss_conf 44213781002005786178---66899988999999997088866264542388985--266103
Q gi|254780317|r 212 SDSTHSPMFHQIEGLVVSDS---ATIANLRWVLESFCKSFFEVSSLQMRFRPSFFPFT--EPSFEV 272 (366)
Q Consensus 212 ~D~tH~~~FhQ~egl~v~~~---i~~~~lk~~l~~~~~~~fg~~~~~~r~rp~~fPft--ePs~Ev 272 (366)
....|.|.| +|+.-+..+. |-|.+||..++.++..+=+ ++--.--||. .||+|-
T Consensus 19 c~~lHgHtw-~v~v~v~~~~~~~idF~~lk~~v~~vl~~ldh------~~LNel~pF~~~NPT~EN 77 (113)
T TIGR03112 19 RGNKHPHTW-EITIFVIKKEDKFILFNDVEKKVEKYLKPYQN------KYLNDLEPFDKINPTLEN 77 (113)
T ss_pred CCCCCCCCE-EEEEEEEECCCCEEEHHHHHHHHHHHHHHHCC------CHHCCCCCCCCCCCCHHH
T ss_conf 268769867-99999980888687299999999999987575------101048753568987899
No 157
>PTZ00213 asparagine synthetase A; Provisional
Probab=33.24 E-value=36 Score=14.91 Aligned_cols=49 Identities=16% Similarity=0.218 Sum_probs=36.2
Q ss_pred EEEECCCCCCCCC--CCCCCCCCCCCCE--EEECCCCCHHHHHHHHHHHHHHH
Q ss_conf 2541057647454--4213781002005--78617866899988999999997
Q gi|254780317|r 200 KVIVPGKTYRRDS--DSTHSPMFHQIEG--LVVSDSATIANLRWVLESFCKSF 248 (366)
Q Consensus 200 ~~~~~GrvyR~d~--D~tH~~~FhQ~eg--l~v~~~i~~~~lk~~l~~~~~~~ 248 (366)
-+.+-=+.-|+|+ |.+||.-.-|-+= ++-.++-|+.-||.+...+++.+
T Consensus 94 GlyTdMnAIR~De~lDn~HSiYVDQWDWEkvI~~e~R~l~~LK~tV~~Iy~~i 146 (350)
T PTZ00213 94 GIYTHMKALRVEETLDNIHSVYVDQWDWERVMAPADRNLEFLKATVRSLYAAI 146 (350)
T ss_pred EEEECCCCCCCCCCCCCCCCEEECCCCHHCCCCHHHCCHHHHHHHHHHHHHHH
T ss_conf 55424440257655687631898520420006842268999999999999999
No 158
>KOG4191 consensus
Probab=32.92 E-value=19 Score=16.89 Aligned_cols=38 Identities=21% Similarity=0.400 Sum_probs=20.2
Q ss_pred CCCEEECCCEEE-------CHHHHHHHHCCCCCCCC---------CCCCCEEEE
Q ss_conf 398762372341-------58898886189887733---------163312775
Q gi|254780317|r 132 MGFALEEGSDIE-------TDYYNFAALNFPDDHPA---------RQMHDTFFV 169 (366)
Q Consensus 132 lGF~v~eGPEIE-------td~~NFdaLNiP~~HPA---------RdmqDTFyl 169 (366)
+||-..+|-+-+ -+-|++.-+-.|-+-|+ -|.+-|||.
T Consensus 168 ~g~~n~~g~~~ds~kkl~~vasyptsd~~Lp~~~P~~d~~h~kPkNdipntF~a 221 (516)
T KOG4191 168 HGPGNGPGRSPDSKKKLPKVASYPTSDVDLPIDVPRTDDFHNKPKNDIPNTFWA 221 (516)
T ss_pred CCCCCCCCCCHHHHHHCCCHHCCCCCCCCCCCCCCCCCCCCCCCCCCCCHHHHH
T ss_conf 577788775867763032011167666557577877434577886656226888
No 159
>pfam09227 DUF1962 Domain of unknown function (DUF1962). Members of this family of fungal domains are functionally uncharacterized.
Probab=32.92 E-value=32 Score=15.35 Aligned_cols=17 Identities=35% Similarity=0.741 Sum_probs=14.1
Q ss_pred EEECCCCCEEEEECCCC
Q ss_conf 42246883489845756
Q gi|254780317|r 283 IKFDEGTEWMEILGCGM 299 (366)
Q Consensus 283 ~~~~~~~~WiEi~g~Gm 299 (366)
.--|++++|.||--||-
T Consensus 35 vvecrggkwteiqdc~~ 51 (64)
T pfam09227 35 VVECRGGKWTEIQDCGS 51 (64)
T ss_pred EEEECCCCEEEEEECCC
T ss_conf 28856982277430576
No 160
>PRK09469 glnA glutamine synthetase; Provisional
Probab=31.26 E-value=29 Score=15.62 Aligned_cols=34 Identities=15% Similarity=0.366 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHCCC--EEECCCEEECHHHHHHHHCC
Q ss_conf 9999999999987398--76237234158898886189
Q gi|254780317|r 119 TQVIDEVTCIFMDMGF--ALEEGSDIETDYYNFAALNF 154 (366)
Q Consensus 119 tqvi~eI~~IF~~lGF--~v~eGPEIEtd~~NFdaLNi 154 (366)
-.+..+..+.+.++|| ++.-|||+| ||-|+....
T Consensus 106 R~iLkr~~~~l~~~G~~~~~~~g~E~E--FyLfd~~~~ 141 (469)
T PRK09469 106 RSIAKRAEDYLRSTGIADTVLFGPEPE--FFLFDDIRF 141 (469)
T ss_pred HHHHHHHHHHHHHCCCCCEEEECCCEE--EEEECCCCC
T ss_conf 999999999999759963012314338--998426444
No 161
>PRK07574 formate dehydrogenase; Provisional
Probab=30.69 E-value=16 Score=17.44 Aligned_cols=11 Identities=9% Similarity=0.293 Sum_probs=6.2
Q ss_pred HHHHHHHCCCE
Q ss_conf 99999873987
Q gi|254780317|r 125 VTCIFMDMGFA 135 (366)
Q Consensus 125 I~~IF~~lGF~ 135 (366)
+++++-+-|.+
T Consensus 60 lr~~le~~gh~ 70 (385)
T PRK07574 60 LRTFLEERGHE 70 (385)
T ss_pred HHHHHHHCCCE
T ss_conf 58889855916
No 162
>KOG4321 consensus
Probab=30.68 E-value=40 Score=14.61 Aligned_cols=63 Identities=25% Similarity=0.356 Sum_probs=34.8
Q ss_pred HCCCCCCCCCC-------CCCEEEEECCC----------CCCCCCC----------CCCCCCHHHHHHH--HCCCEEEEE
Q ss_conf 18988773316-------33127750566----------6556322----------4467630555543--036312254
Q gi|254780317|r 152 LNFPDDHPARQ-------MHDTFFVPGIA----------GGKHKLL----------RTHTSPVQIRVME--SQDLPIKVI 202 (366)
Q Consensus 152 LNiP~~HPARd-------mqDTFyl~~~~----------~~~~~lL----------RthTS~vQiR~m~--~~~pP~~~~ 202 (366)
-|.|+.-||-- .-|-+|++..- .+++.|. --|.||.++..-. -.+..+-.+
T Consensus 38 envpqegpalivyyhgaipidmyylnsrmllqrerliytigdrflfklpgwgtiseafhvspgtvqscvsilrdgnllai 117 (279)
T KOG4321 38 ENVPQEGPALIVYYHGAIPIDMYYLNSRMLLQRERLIYTIGDRFLFKLPGWGTISEAFHVSPGTVQSCVSILRDGNLLAI 117 (279)
T ss_pred CCCCCCCCEEEEEECCCCCEEEEEECHHHHHHHHHHEEEECCEEEEECCCCCCHHHHHCCCCCCHHHHHHHHCCCCEEEE
T ss_conf 25887696699997176423334311688875544137623566794788656034310588508878775205867987
Q ss_pred ECCCCCCCCC-CC
Q ss_conf 1057647454-42
Q gi|254780317|r 203 VPGKTYRRDS-DS 214 (366)
Q Consensus 203 ~~GrvyR~d~-D~ 214 (366)
|||-||--.- |.
T Consensus 118 spggvyeaqfgdh 130 (279)
T KOG4321 118 SPGGVYEAQFGDH 130 (279)
T ss_pred CCCCEEEECCCHH
T ss_conf 6885665210207
No 163
>PRK05481 lipoyl synthase; Provisional
Probab=29.96 E-value=41 Score=14.53 Aligned_cols=32 Identities=22% Similarity=0.410 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHCCC-EEECCCEEECHHHHHHHH
Q ss_conf 99999999987398-762372341588988861
Q gi|254780317|r 121 VIDEVTCIFMDMGF-ALEEGSDIETDYYNFAAL 152 (366)
Q Consensus 121 vi~eI~~IF~~lGF-~v~eGPEIEtd~~NFdaL 152 (366)
.-++..++=.+||| .|+.||-|-|.||--+..
T Consensus 251 eF~~~~~~a~~~GF~~V~SgPlVRSSY~A~~~~ 283 (289)
T PRK05481 251 EFDEYKEIALELGFLHVASGPLVRSSYHADEQF 283 (289)
T ss_pred HHHHHHHHHHHCCCCEEEECCCCCCCHHHHHHH
T ss_conf 999999999975996798237400204268998
No 164
>COG5490 Uncharacterized conserved protein [Function unknown]
Probab=29.10 E-value=42 Score=14.43 Aligned_cols=13 Identities=15% Similarity=0.279 Sum_probs=4.3
Q ss_pred CCHHHHHHHHHHH
Q ss_conf 9989999999998
Q gi|254780317|r 26 TDMDSLNAIRVAT 38 (366)
Q Consensus 26 ~~~~eLe~lrv~~ 38 (366)
.++.+|-++...|
T Consensus 101 ks~qElvelQTaf 113 (158)
T COG5490 101 KSLQELVELQTAF 113 (158)
T ss_pred CCHHHHHHHHHHH
T ss_conf 9899999999999
No 165
>TIGR01851 argC_other N-acetyl-gamma-glutamyl-phosphate reductase; InterPro: IPR010136 N -Acetylglutamate (NAG) fulfils distinct biological roles in lower and higher organisms. In prokaryotes, lower eukaryotes and plants it is the first intermediate in the biosynthesis of arginine, whereas in ureotelic (excreting nitrogen mostly in the form of urea) vertebrates, it is an essential allosteric cofactor for carbamyl phosphate synthetase I (CPSI), the first enzyme of the urea cycle. The pathway that leads from glutamate to arginine in lower organisms employs eight steps, starting with the acetylation of glutamate to form NAG. In these species, NAG can be produced by two enzymatic reactions: one catalysed by NAG synthase (NAGS) and the other by ornithine acetyltransferase (OAT). In ureotelic species, NAG is produced exclusively by NAGS. In lower organisms, NAGS is feedback-inhibited by L-arginine, whereas mammalian NAGS activity is significantly enhanced by this amino acid. The NAGS genes of bacteria, fungi and mammals are more diverse than other arginine-biosynthesis and urea-cycle genes. The evolutionary relationship between the distinctly different roles of NAG and its metabolism in lower and higher organisms remains to be determined . The pathway from glutamate to arginine is: NAGS; N-acetylglutamate synthase (2.3.1.1 from EC) (glutamate to N-acetylglutamate) NAGK; N-acetylglutamate kinase (2.7.2.8 from EC) (N-acetylglutamate to N-acetylglutamate-5P) NAGSA; N-acetyl-gamma-glutamyl-phosphate reductase (1.2.1.38 from EC) (N-acetylglutamate-5P to N-acetylglumate semialdehyde) Acetylornithine aminotransferase (2.6.1.11 from EC) (N-acetylglumate semialdehyde to N-acetylornithine) Acetylornithine deacetylase (3.5.1.16 from EC) (N-acetylornithine to ornithine) Arginase (3.5.3.1 from EC) (ornithine to arginine) This entry represents bacterial N-acetyl-gamma-glutamyl-phosphate reductases, an enzyme catalysing the third step of arginine biosynthesis from glutamate.; GO: 0003942 N-acetyl-gamma-glutamyl-phosphate reductase activity, 0006526 arginine biosynthetic process, 0005737 cytoplasm.
Probab=29.03 E-value=25 Score=16.09 Aligned_cols=14 Identities=29% Similarity=0.510 Sum_probs=8.1
Q ss_pred CCCCCCCCCCCCEE
Q ss_conf 42137810020057
Q gi|254780317|r 213 DSTHSPMFHQIEGL 226 (366)
Q Consensus 213 D~tH~~~FhQ~egl 226 (366)
.-.|.|+-||--||
T Consensus 182 ~HKHlpEm~~~sgL 195 (314)
T TIGR01851 182 EHKHLPEMRVHSGL 195 (314)
T ss_pred CCCCCHHHHHCCCC
T ss_conf 37745333203655
No 166
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=28.50 E-value=37 Score=14.82 Aligned_cols=22 Identities=14% Similarity=0.283 Sum_probs=14.1
Q ss_pred CCHHHHHHHHHHHHHHHCCCEE
Q ss_conf 2389999999999998739876
Q gi|254780317|r 115 IHPVTQVIDEVTCIFMDMGFAL 136 (366)
Q Consensus 115 ~HPItqvi~eI~~IF~~lGF~v 136 (366)
..-...+.+--..||.++|-..
T Consensus 171 ~~tY~~~~~AY~~IF~rlgL~~ 192 (570)
T PRK09194 171 DETYDAMYQAYSRIFTRLGLDF 192 (570)
T ss_pred HHHHHHHHHHHHHHHHHHCCCE
T ss_conf 9999999999999999809862
No 167
>KOG2008 consensus
Probab=28.36 E-value=43 Score=14.34 Aligned_cols=26 Identities=4% Similarity=-0.023 Sum_probs=15.3
Q ss_pred CCCCHHHHHHHHHHHHHHHCCCEEEC
Q ss_conf 74238999999999999873987623
Q gi|254780317|r 113 GRIHPVTQVIDEVTCIFMDMGFALEE 138 (366)
Q Consensus 113 G~~HPItqvi~eI~~IF~~lGF~v~e 138 (366)
.+.|-+.+....++..-...|+.|-.
T Consensus 152 s~a~~~l~l~~~~R~~ek~n~~AIkK 177 (426)
T KOG2008 152 STAARYLALMGRMRQLEKKNKRAIKK 177 (426)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 89999999999999999986778750
No 168
>PRK00133 metG methionyl-tRNA synthetase; Reviewed
Probab=28.34 E-value=43 Score=14.34 Aligned_cols=50 Identities=18% Similarity=0.284 Sum_probs=24.9
Q ss_pred EEEECCCCC------CHHHHHHCCCCCCCEEEEEEEC-C-------------HHH-HHHHHCCCCCHHHHHH
Q ss_conf 898457563------8889985698800037996313-4-------------469-9799738970587663
Q gi|254780317|r 292 MEILGCGMV------DPRVLRGVGIDPDIYQGFAWGM-G-------------LDR-IAMLKYGMPDVREFFG 342 (366)
Q Consensus 292 iEi~g~Gm~------~p~vl~~~g~d~~~~~g~AfG~-G-------------~eR-laml~~gi~diR~~~~ 342 (366)
+-+.|--++ -|-+|..+|+.... .-++-|+ . |+= -++=+||.+-+|.+..
T Consensus 285 vhfiGKDii~FH~i~wPa~L~~~g~~lP~-~v~~hg~l~~~G~KmSKS~Gnvv~p~~~l~~yg~D~lRY~l~ 355 (666)
T PRK00133 285 YHFIGKDIIYFHTLFWPAMLEGAGYRLPT-NVFAHGFLTVEGAKMSKSRGTFIWARTYLDHLDPDYLRYYLA 355 (666)
T ss_pred EEECCCCHHHHHHHHHHHHHHHCCCCCCC-CCCCCCCEEECCEEEECCCCEEEEHHHHHHHCCCCCEEHHHH
T ss_conf 67534431146476799999846778886-121146487788060012671761799998669645302033
No 169
>KOG3861 consensus
Probab=28.13 E-value=44 Score=14.31 Aligned_cols=62 Identities=29% Similarity=0.400 Sum_probs=38.3
Q ss_pred CCC-CCCCCC-CCCCCCEE----EECCCCCHHHHHHHHHHHHHHHCCCCCCEEE-----------EEEC---------CC
Q ss_conf 454-421378-10020057----8617866899988999999997088866264-----------5423---------88
Q gi|254780317|r 210 RDS-DSTHSP-MFHQIEGL----VVSDSATIANLRWVLESFCKSFFEVSSLQMR-----------FRPS---------FF 263 (366)
Q Consensus 210 ~d~-D~tH~~-~FhQ~egl----~v~~~i~~~~lk~~l~~~~~~~fg~~~~~~r-----------~rp~---------~f 263 (366)
+|+ -++|+. -||--|+| ||.+.|..+-+|..++.....+ |.+.-.+- .+|+ -|
T Consensus 112 ~DtVvR~vy~KyFhPKEalV~~GVvnr~i~raa~K~v~~~v~~~~-~~n~qal~F~YPyGaTL~V~~panvvLstGsv~f 190 (438)
T KOG3861 112 GDTVVRPVYYKYFHPKEALVGGGVVNRSIWRAALKLVIEKVYYDF-SDNKQALHFQYPYGATLNVSEPANVVLSTGSVVF 190 (438)
T ss_pred CCCEEEHHHHHCCCHHHHHHCCCEEEHHHHHHHHHHHHHHHHHHC-CCCHHEEEEECCCCCEEECCCCCEEEECCCCEEC
T ss_conf 870563105541686886542565209999998766688877631-6651038996466755652661006853485532
Q ss_pred CCCCCCCEE
Q ss_conf 985266103
Q gi|254780317|r 264 PFTEPSFEV 272 (366)
Q Consensus 264 PftePs~Ev 272 (366)
||.-|-+-.
T Consensus 191 P~nRP~~af 199 (438)
T KOG3861 191 PFNRPLVAF 199 (438)
T ss_pred CCCCCCEEE
T ss_conf 578731100
No 170
>pfam03822 NAF NAF domain.
Probab=27.95 E-value=44 Score=14.29 Aligned_cols=27 Identities=15% Similarity=0.395 Sum_probs=23.8
Q ss_pred CCCCCCHHHHHHHHHHHHHHHCCCEEE
Q ss_conf 267423899999999999987398762
Q gi|254780317|r 111 HRGRIHPVTQVIDEVTCIFMDMGFALE 137 (366)
Q Consensus 111 ~~G~~HPItqvi~eI~~IF~~lGF~v~ 137 (366)
.--+.+|-+.++..|+++-..+||.|.
T Consensus 34 RF~S~~~a~~Ii~klEevA~~l~f~V~ 60 (61)
T pfam03822 34 RFTSKKPASEIISKLEEVAKKLGFKVK 60 (61)
T ss_pred EEECCCCHHHHHHHHHHHHHHHCCEEE
T ss_conf 530789999999999999997186664
No 171
>pfam11805 DUF3326 Protein of unknown function (DUF3326). This protein is functionally uncharacterized. It is about 300-500 amino acids in length. This family is found in plants and bacteria.
Probab=27.68 E-value=12 Score=18.34 Aligned_cols=17 Identities=12% Similarity=0.116 Sum_probs=7.3
Q ss_pred HHHHHHHHHHHHHHHCC
Q ss_conf 89998899999999708
Q gi|254780317|r 234 IANLRWVLESFCKSFFE 250 (366)
Q Consensus 234 ~~~lk~~l~~~~~~~fg 250 (366)
++---.++.+++.+.|.
T Consensus 186 laGaEAVISHliv~~~~ 202 (339)
T pfam11805 186 LAGAEAVISHLLVRELQ 202 (339)
T ss_pred CHHHHHHHHHHHHHHCC
T ss_conf 26599999999998429
No 172
>PRK00578 prfB peptide chain release factor 2; Validated
Probab=27.67 E-value=45 Score=14.26 Aligned_cols=58 Identities=28% Similarity=0.317 Sum_probs=30.8
Q ss_pred CCCCCCCHHHHHHHHC---------CCEEEE-----EECCCCCCC--CC--CCCCCCCCCCCCEEEEC----------CC
Q ss_conf 2446763055554303---------631225-----410576474--54--42137810020057861----------78
Q gi|254780317|r 180 LRTHTSPVQIRVMESQ---------DLPIKV-----IVPGKTYRR--DS--DSTHSPMFHQIEGLVVS----------DS 231 (366)
Q Consensus 180 LRthTS~vQiR~m~~~---------~pP~~~-----~~~GrvyR~--d~--D~tH~~~FhQ~egl~v~----------~~ 231 (366)
-|-|||.++|-+|-.- +..+|+ =.||--.-| |+ --||.|. |++|- +.
T Consensus 209 gr~hTS~a~V~V~P~~~~~~~i~i~~~dl~id~~RssGaGGQ~VNkt~sAVRitH~PT-----Givv~cq~eRSQ~~Nk~ 283 (367)
T PRK00578 209 GRRHTSFASVEVYPEVDDDIEIEINPKDLRIDTYRSSGAGGQHVNKTDSAVRITHIPT-----GIVVQCQNERSQHQNKA 283 (367)
T ss_pred CCEEEEEEEEEEECCCCCCCCCCCCCCCEEEEEEECCCCCCCCCCCCCCEEEEEEECC-----CEEEEECCCHHHHHHHH
T ss_conf 8657775699996267764357788213358986468998777575233379997258-----64999556021898999
Q ss_pred CCHHHHHHHHH
Q ss_conf 66899988999
Q gi|254780317|r 232 ATIANLRWVLE 242 (366)
Q Consensus 232 i~~~~lk~~l~ 242 (366)
.-|.=|+.-|.
T Consensus 284 ~A~~~L~akL~ 294 (367)
T PRK00578 284 SAMKMLKAKLY 294 (367)
T ss_pred HHHHHHHHHHH
T ss_conf 99999999999
No 173
>KOG2270 consensus
Probab=27.40 E-value=41 Score=14.48 Aligned_cols=29 Identities=14% Similarity=0.250 Sum_probs=15.0
Q ss_pred HHHHCCCEEECCCEEECHHHHHHHHCCCCCCCC
Q ss_conf 998739876237234158898886189887733
Q gi|254780317|r 128 IFMDMGFALEEGSDIETDYYNFAALNFPDDHPA 160 (366)
Q Consensus 128 IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPA 160 (366)
++..+.=.+.+|-|.-. || |.+.+-.|=|
T Consensus 144 ~i~~inGCiSTGKEANV-YH---at~~dG~~~A 172 (520)
T KOG2270 144 VIVEINGCISTGKEANV-YH---ATEEDGSEFA 172 (520)
T ss_pred EEEECCCCCCCCCCCEE-EE---EECCCCCEEE
T ss_conf 04402542304753305-76---3067986678
No 174
>PRK01544 bifunctional N5-glutamine S-adenosyl-L-methionine-dependent methyltransferase/tRNA (m7G46) methyltransferase; Reviewed
Probab=27.10 E-value=46 Score=14.19 Aligned_cols=60 Identities=13% Similarity=0.182 Sum_probs=34.8
Q ss_pred HHHHHHHHHHHHHHHHCC-CHHHHHH--HHHHHCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHH
Q ss_conf 999999999999985069-9899999--999980864068999876158998899999999999
Q gi|254780317|r 9 DEVERIRSSLYNSIASVT-DMDSLNA--IRVATLGRKGSISSLLKDLKNLDSQQVSARGAILNQ 69 (366)
Q Consensus 9 eeI~~L~~e~~~~I~~a~-~~~eLe~--lrv~~LGKKG~Lt~llK~Lk~Ls~EeKk~~Gk~iNe 69 (366)
=-|+++..++...|+.+. +...|++ +-...||+. ....++..=..++.++...+-+.+..
T Consensus 3 ~tik~~L~~~t~~Lk~~GI~sP~LDAelLL~hvL~~~-r~~L~~~~d~~Lse~e~~~f~~li~R 65 (503)
T PRK01544 3 YSIKQILSDATDKLNKIGISSPQLEARILLQHVINKP-IEYLLINLDEQLNEAEIEAFEKLLER 65 (503)
T ss_pred CCHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHCCC-HHHHHHCCCCCCCHHHHHHHHHHHHH
T ss_conf 3399999999999998699966888999999997949-99986277777899999999999999
No 175
>TIGR00513 accA acetyl-CoA carboxylase, carboxyl transferase, alpha subunit; InterPro: IPR001095 This entry contains the alpha subunit the acetyl coenzyme A carboxylase complex (). It catalyzes the first step in the synthesis of long-chain fatty acids which involves the carboxylation of acetyl-CoA to malonyl-CoA. The acetyl-CoA carboxylase complex () is a heterohexamer of biotin carboxyl carrier protein, biotin carboxylase and two non-identical carboxyl transferase subunits (alpha and beta) in a 2:2 association . The reaction involves two steps: Biotin carrier protein + ATP + HCO_3^- -> Carboxybiotin carrier protein + ADP + P_i Carboxybiotin carrier protein + Acetyl-CoA -> Malonyl-CoA + Biotin carrier protein ; GO: 0003989 acetyl-CoA carboxylase activity, 0006633 fatty acid biosynthetic process, 0009317 acetyl-CoA carboxylase complex.
Probab=26.98 E-value=14 Score=17.91 Aligned_cols=105 Identities=26% Similarity=0.378 Sum_probs=57.2
Q ss_pred CCCCCCCCCHHH------HHHHHCC-CEEEEEECCCCCCCC------CCCCCCC--CCCCCCEEEECCCCCHHHHHHHHH
Q ss_conf 322446763055------5543036-312254105764745------4421378--100200578617866899988999
Q gi|254780317|r 178 KLLRTHTSPVQI------RVMESQD-LPIKVIVPGKTYRRD------SDSTHSP--MFHQIEGLVVSDSATIANLRWVLE 242 (366)
Q Consensus 178 ~lLRthTS~vQi------R~m~~~~-pP~~~~~~GrvyR~d------~D~tH~~--~FhQ~egl~v~~~i~~~~lk~~l~ 242 (366)
-|=|=||-||-| |--+++= =-+-+=.| .-||+= .|.=..| +|=-.-|=|-+-+ |.=.|-=+
T Consensus 109 G~Arldg~PV~viGhqKGr~tKek~~RNFGMP~P-~GYRKALrLm~~AerF~~PIi~fiDT~GAYPGig---AEerGQsE 184 (329)
T TIGR00513 109 GVARLDGRPVVVIGHQKGRDTKEKLLRNFGMPAP-EGYRKALRLMKMAERFNLPIITFIDTPGAYPGIG---AEERGQSE 184 (329)
T ss_pred EEEEECCCCEEEEECCCCCCCHHHCCCCCCCCCC-CCHHHHHHHHHHHHHCCCCEEEEECCCCCCCCCH---HHHHCCHH
T ss_conf 2113378124886213575403421125798879-6047999999877761798588653888875620---44505278
Q ss_pred HHHHHHCCCCCCEEEEEECCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHCCCCCCCEEEEEEEC
Q ss_conf 99999708886626454238898526610367875058804224688348984575638889985698800037996313
Q gi|254780317|r 243 SFCKSFFEVSSLQMRFRPSFFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGVGIDPDIYQGFAWGM 322 (366)
Q Consensus 243 ~~~~~~fg~~~~~~r~rp~~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~~~g~AfG~ 322 (366)
.+++.|++- +--+=| |-|. =||.-| ||=|.|+
T Consensus 185 AIA~NL~Em-----------a~L~VP-----vic~---------------vIGEGG-----------------SGGALai 216 (329)
T TIGR00513 185 AIAKNLREM-----------ARLKVP-----VICT---------------VIGEGG-----------------SGGALAI 216 (329)
T ss_pred HHHHHHHHH-----------HCCCCC-----EEEE---------------EECCCC-----------------CHHHHHH
T ss_conf 999998997-----------109988-----7999---------------852686-----------------1478999
Q ss_pred CH-HHHHHHHCCC
Q ss_conf 44-6997997389
Q gi|254780317|r 323 GL-DRIAMLKYGM 334 (366)
Q Consensus 323 G~-eRlaml~~gi 334 (366)
|| ||+.||-|.+
T Consensus 217 GVGDkv~MLeyS~ 229 (329)
T TIGR00513 217 GVGDKVNMLEYST 229 (329)
T ss_pred HHHHHHHHHHHHH
T ss_conf 8988998876202
No 176
>COG1379 PHP family phosphoesterase with a Zn ribbon [General function prediction only]
Probab=26.75 E-value=18 Score=17.11 Aligned_cols=72 Identities=19% Similarity=0.182 Sum_probs=41.3
Q ss_pred CCCCCCEEEECCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCC-----------------CCCCEEEEEEECCCC
Q ss_conf 100200578617866899988999999997088866264542388985-----------------266103678750588
Q gi|254780317|r 219 MFHQIEGLVVSDSATIANLRWVLESFCKSFFEVSSLQMRFRPSFFPFT-----------------EPSFEVDVRCSFSDG 281 (366)
Q Consensus 219 ~FhQ~egl~v~~~i~~~~lk~~l~~~~~~~fg~~~~~~r~rp~~fPft-----------------ePs~Evdv~~~~~~~ 281 (366)
+|.|++ |. ++||..++.. +-+....++..--+.+|.- ||-...+-.|..|+|
T Consensus 205 Efn~f~---v~-~~sF~~~r~A-------i~~~~g~~ivaNyGLdP~LGKY~~TAC~rC~t~y~le~A~~~~wrCpkCGg 273 (403)
T COG1379 205 EFNQFE---VE-EISFEELRKA-------IKGKDGCKIVANYGLDPRLGKYHLTACSRCYTRYSLEEAKSLRWRCPKCGG 273 (403)
T ss_pred HHHEEE---CC-CCCHHHHHHH-------HHCCCCCEEEEECCCCCCCCCHHHHHHHHHHHCCCCCHHHHHCCCCCCCCC
T ss_conf 543542---55-6888999999-------715899617873376711130647889876004675545540646862366
Q ss_pred EEEECCCCCEEEEECCCCCC
Q ss_conf 04224688348984575638
Q gi|254780317|r 282 IIKFDEGTEWMEILGCGMVD 301 (366)
Q Consensus 282 ~~~~~~~~~WiEi~g~Gm~~ 301 (366)
..+-....+-.|+.-.--.|
T Consensus 274 ~ikKGV~dRv~ELad~~~~~ 293 (403)
T COG1379 274 KIKKGVSDRVLELADTEPEH 293 (403)
T ss_pred CHHHHHHHHHHHHHCCCCCC
T ss_conf 01030889999862057336
No 177
>cd07062 Peptidase_S66_mccF_like Microcin C7 self-immunity protein determines resistance to exogenous microcin C7. Microcin C7 self-immunity protein (mccF): MccF, a homolog of the LD-carboxypeptidase family, mediates resistance against exogenously added microcin C7 (MccC7), a ribosomally-encoded peptide antibiotic that contains a phosphoramidate linkage to adenosine monophosphate at its C-terminus. The plasmid-encoded mccF gene is transcribed in the opposite direction to the other five genes (mccA-E) and is required for the full expression of immunity but not for production. The catalytic triad residues (Ser, His, Glu) of LD-carboxypeptidase are also conserved in MccF, strongly suggesting that MccF shares the hydrolytic activity with LD-carboxypeptidases. Substrates of MccF have not been deduced, but could likely be microcin C7 precursors. The possible role of MccF is to defend producer cells against exogenous microcin from re-entering after having been exported. It is suggested that M
Probab=26.71 E-value=46 Score=14.14 Aligned_cols=45 Identities=13% Similarity=0.243 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCE
Q ss_conf 999999999998739876237234158898886189887733163312
Q gi|254780317|r 119 TQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDT 166 (366)
Q Consensus 119 tqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDT 166 (366)
...+++-.+++.++||+|+.||.+-...++ +--+...=|+|.+.-
T Consensus 17 ~~~~~~~~~~L~~~G~~v~~~~~~~~~~~~---~ag~~~~Ra~dL~~a 61 (308)
T cd07062 17 PHRLERAKKRLENLGFEVVEGPNALKGDKY---LSASPEERAEELMAA 61 (308)
T ss_pred HHHHHHHHHHHHHCCCEEEECCCCCCCCCC---CCCCHHHHHHHHHHH
T ss_conf 999999999999699989878760234675---579989999999998
No 178
>KOG4712 consensus
Probab=26.48 E-value=47 Score=14.11 Aligned_cols=99 Identities=15% Similarity=0.228 Sum_probs=62.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHH-------HHHHHHHHH
Q ss_conf 9999999999999999999999999998567666765431000001123212267423899999-------999999987
Q gi|254780317|r 59 QVSARGAILNQLKVDISGKISARKDFIRNQLIFEQISSQSVDVSLPVFSSPCHRGRIHPVTQVI-------DEVTCIFMD 131 (366)
Q Consensus 59 eKk~~Gk~iNelK~~Ie~~i~~kk~~L~~~~~~~kl~~E~iDVTLP~~~~~~~~G~~HPItqvi-------~eI~~IF~~ 131 (366)
-|+++=-.+|.+|+.+...+..+-..+...-. .+..++- +.....-..||..++. .-|.+.|..
T Consensus 897 gRp~l~~lle~lK~k~~s~~~~~~~f~~~~IR-------G~~~s~~--~~~~a~e~~~~~~~i~~~~~V~~~~i~~~~~c 967 (1335)
T KOG4712 897 GRPELLFLLEDLKQKLESMLTRRVPFLKKGIR-------GIGFSHL--QQRSAQEIVHCVFQLLTPMCVHLENIHNYFQC 967 (1335)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC-------CCCHHHH--CHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
T ss_conf 32789999999999999999999999987714-------6625541--34656404884888766778999999999999
Q ss_pred CCCEEECCCEEECHHHHHH---HHCCCCCCCCCCCCCE
Q ss_conf 3987623723415889888---6189887733163312
Q gi|254780317|r 132 MGFALEEGSDIETDYYNFA---ALNFPDDHPARQMHDT 166 (366)
Q Consensus 132 lGF~v~eGPEIEtd~~NFd---aLNiP~~HPARdmqDT 166 (366)
.---+.+||+++++-|-|= |-+.|---||-..-|-
T Consensus 968 ~~h~~~d~p~~~v~~~~~L~~sa~FqPT~~~~~~~~D~ 1005 (1335)
T KOG4712 968 LAHGVVDGPGVKVQEYHILSSSACFQPTLQIFHGLFDW 1005 (1335)
T ss_pred HHHHCCCCCCHHHHHHHHHHHHHHCCCCHHHHHCCCCC
T ss_conf 98743568521146889876776429861566436666
No 179
>PRK12810 gltD glutamate synthase subunit beta; Reviewed
Probab=26.06 E-value=22 Score=16.49 Aligned_cols=50 Identities=18% Similarity=0.237 Sum_probs=29.0
Q ss_pred HHHHHHCCCCCCCCCCCCCCCC---------CCHHHHHHHHHHHHHHHCCCEEECCCEEECH
Q ss_conf 7654310000011232122674---------2389999999999998739876237234158
Q gi|254780317|r 93 QISSQSVDVSLPVFSSPCHRGR---------IHPVTQVIDEVTCIFMDMGFALEEGSDIETD 145 (366)
Q Consensus 93 kl~~E~iDVTLP~~~~~~~~G~---------~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd 145 (366)
.|+....+||+= .+....|. +-|- .++++-.++..++|-++..+-+|-.|
T Consensus 161 ~Lar~G~~VtVf--E~~~~~GGll~yGIP~~RLpk-~v~~~ei~~l~~~GV~~~~n~~VG~d 219 (472)
T PRK12810 161 QLARAGHKVTVF--ERDDRIGGLLRYGIPDFKLEK-DVIDRRIELMEGEGIEFRTGVEVGKD 219 (472)
T ss_pred HHHHCCCEEEEE--ECCCCCCCEEEECCCCCCCCH-HHHHHHHHHHHHCCCEEEECEECCCC
T ss_conf 998669758997--257777754653178855535-89999999998579789905231875
No 180
>pfam01696 Adeno_E1B_55K Adenovirus EB1 55K protein / large t-antigen. This family consists of adenovirus E1B 55K protein or large t-antigen. E1B 55K binds p53 the tumour suppressor protein converting it from a transcriptional activator which responds to damaged DNA in to an unregulated repressor of genes with a p53 binding site. This protects the virus against p53 induced host antiviral responses and prevents apoptosis as induced by the adenovirus E1A protein. The E1B region of adenovirus encodes two proteins E1B 55K the large t-antigen as found in this family and E1B 19K pfam01691 the small t-antigen which is not found in this family; both of these proteins inhibit E1A induced apoptosis.
Probab=25.62 E-value=12 Score=18.33 Aligned_cols=69 Identities=25% Similarity=0.367 Sum_probs=34.9
Q ss_pred HHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCC--------CCCCCCC-----CC
Q ss_conf 9999999999987398762372341588988861898877331633127750566655--------6322446-----76
Q gi|254780317|r 119 TQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGK--------HKLLRTH-----TS 185 (366)
Q Consensus 119 tqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~--------~~lLRth-----TS 185 (366)
+..-.||.+-| .++|..=.|-|+|+.+ -|+++++.+ +- +.-||.. |+
T Consensus 21 ~V~~~ev~~e~-------~~~~~~~~~ky~FEqv------------kt~~l~P~d-Dle~~I~~hAKIaL~P~~~Y~I~~ 80 (387)
T pfam01696 21 TVTYQEVLDEF-------QNGPDFLLEKYSFEQI------------KTYWLEPGD-DLEEAIRQHAKVALRPDKEYVIRK 80 (387)
T ss_pred CCCHHHHHHHH-------HCCCHHHHHHCCCEEE------------EEEECCCCC-CHHHHHHHHCEEEECCCCEEEEEC
T ss_conf 27399999877-------3370455432151026------------899758885-599999752458428996899823
Q ss_pred CHHHHHH---HHCCCEEEEEECCCC
Q ss_conf 3055554---303631225410576
Q gi|254780317|r 186 PVQIRVM---ESQDLPIKVIVPGKT 207 (366)
Q Consensus 186 ~vQiR~m---~~~~pP~~~~~~Grv 207 (366)
++.||.+ .-+..-+++-+|.++
T Consensus 81 ~v~I~~~CYIiGnGA~v~i~~~~~~ 105 (387)
T pfam01696 81 PVNIRSCCYIIGNGAVVKIDTPDGV 105 (387)
T ss_pred CEEEEEEEEEECCCEEEEEECCCCC
T ss_conf 3688777899879779999468875
No 181
>PTZ00009 heat shock 70 kDa protein; Provisional
Probab=25.38 E-value=49 Score=13.97 Aligned_cols=12 Identities=17% Similarity=0.371 Sum_probs=6.2
Q ss_pred HHHHHHHHHHHH
Q ss_conf 999999999999
Q gi|254780317|r 118 VTQVIDEVTCIF 129 (366)
Q Consensus 118 Itqvi~eI~~IF 129 (366)
|-.|++.|.++|
T Consensus 345 iP~Vq~~l~~~f 356 (657)
T PTZ00009 345 IPKVQSLISDFF 356 (657)
T ss_pred CHHHHHHHHHHH
T ss_conf 768999999981
No 182
>cd07963 Anticodon_Ia_Cys Anticodon-binding domain of cysteinyl tRNA synthetases. This domain is found in cysteinyl tRNA synthetases (CysRS), which belong to the class Ia aminoacyl tRNA synthetases. It lies C-terminal to the catalytic core domain, and recognizes and specifically binds to the tRNA anticodon. CysRS catalyzes the transfer of cysteine to the 3'-end of its tRNA.
Probab=25.30 E-value=49 Score=13.96 Aligned_cols=25 Identities=20% Similarity=0.296 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHCCCEEECCCEEECHH
Q ss_conf 99999999987398762372341588
Q gi|254780317|r 121 VIDEVTCIFMDMGFALEEGSDIETDY 146 (366)
Q Consensus 121 vi~eI~~IF~~lGF~v~eGPEIEtd~ 146 (366)
.-|+|++-..++|+.|.++|+= |.|
T Consensus 130 ~AD~IRd~L~~~Gi~ieDt~~G-t~W 154 (156)
T cd07963 130 EADRIRDELAAQGIILEDSPEG-TTW 154 (156)
T ss_pred HHHHHHHHHHHCCCEEEECCCC-CEE
T ss_conf 9999999999879278877999-701
No 183
>smart00874 B5 tRNA synthetase B5 domain. This domain is found in phenylalanine-tRNA synthetase beta subunits.
Probab=25.30 E-value=42 Score=14.46 Aligned_cols=17 Identities=29% Similarity=0.583 Sum_probs=12.2
Q ss_pred HHHHHHHHHHCCCEEEC
Q ss_conf 99999999873987623
Q gi|254780317|r 122 IDEVTCIFMDMGFALEE 138 (366)
Q Consensus 122 i~eI~~IF~~lGF~v~e 138 (366)
.+++.+++.+|||++..
T Consensus 21 ~~~i~~~L~~lg~~~~~ 37 (71)
T smart00874 21 AEEIEEILKRLGFEVEV 37 (71)
T ss_pred HHHHHHHHHHCCCEEEE
T ss_conf 99999999986998996
No 184
>pfam04344 CheZ Chemotaxis phosphatase, CheZ. This family represents the bacterial chemotaxis phosphatase, CheZ. This protein forms a dimer characterized by a long four-helix bundle, composed of two helices from each monomer. CheZ dephosphorylates CheY in a reaction that is essential to maintain a continuous chemotactic response to environmental changes. It is thought that CheZ's conserved residue Gln 147 orientates a water molecule for nucleophilic attack at the CheY active site.
Probab=25.22 E-value=49 Score=13.95 Aligned_cols=14 Identities=29% Similarity=0.517 Sum_probs=6.3
Q ss_pred HHHHHHHHHHHCCC
Q ss_conf 99999999987398
Q gi|254780317|r 121 VIDEVTCIFMDMGF 134 (366)
Q Consensus 121 vi~eI~~IF~~lGF 134 (366)
-.+++-|.+.++||
T Consensus 192 ~QddVDDLLsSLGF 205 (205)
T pfam04344 192 GQDQVDDLLSSLGF 205 (205)
T ss_pred CHHHHHHHHHHCCC
T ss_conf 76469999985699
No 185
>COG0320 LipA Lipoate synthase [Coenzyme metabolism]
Probab=24.68 E-value=42 Score=14.48 Aligned_cols=180 Identities=21% Similarity=0.275 Sum_probs=91.4
Q ss_pred CHHHHHHHHHHHHHHHCCC-EEEC---CCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCC-------CC
Q ss_conf 3899999999999987398-7623---72341588988861898877331633127750566655632244-------67
Q gi|254780317|r 116 HPVTQVIDEVTCIFMDMGF-ALEE---GSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRT-------HT 184 (366)
Q Consensus 116 HPItqvi~eI~~IF~~lGF-~v~e---GPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRt-------hT 184 (366)
-|......++.++..+.|- +|-| -|.|-. ||. .-+-||-|=+. ..-|- |.
T Consensus 32 ~p~~~~~~~~k~~~r~~~L~TVCEEA~CPNi~E---Cw~-----------~~tATFmImG~-----~CTR~C~FC~V~~g 92 (306)
T COG0320 32 APTGSRYQEIKEILRKNGLHTVCEEASCPNIGE---CWS-----------RGTATFMILGD-----ICTRRCRFCDVKTG 92 (306)
T ss_pred CCCCCHHHHHHHHHHHCCCCEECCCCCCCCHHH---HHC-----------CCCEEEEECCC-----HHCCCCCCCCCCCC
T ss_conf 888831899999998669852525678997688---716-----------78337764151-----32267885314789
Q ss_pred CCHH------HHHHHH-CCCEEEEEECCCCCCCCC---CCCCCC----------CCCCCCEEEECCCCCHHHHHHHHHHH
Q ss_conf 6305------555430-363122541057647454---421378----------10020057861786689998899999
Q gi|254780317|r 185 SPVQ------IRVMES-QDLPIKVIVPGKTYRRDS---DSTHSP----------MFHQIEGLVVSDSATIANLRWVLESF 244 (366)
Q Consensus 185 S~vQ------iR~m~~-~~pP~~~~~~GrvyR~d~---D~tH~~----------~FhQ~egl~v~~~i~~~~lk~~l~~~ 244 (366)
-|.. -|+.++ ...-++++.+--|=|-|- -|.|.. -..++|-|+-|-.-.-..|+-+++.=
T Consensus 93 ~P~~lD~~EP~rvAeaV~~mgLkyVViTsVdRDDL~DGGA~hfa~~i~~Ir~~~P~t~iEvL~PDF~G~~~al~~v~~~~ 172 (306)
T COG0320 93 RPNPLDPDEPERVAEAVKDMGLKYVVITSVDRDDLPDGGAQHFAECIRAIRELNPQTTIEVLTPDFRGNDDALEIVADAG 172 (306)
T ss_pred CCCCCCCCHHHHHHHHHHHHCCCEEEEEEECCCCCCCCCHHHHHHHHHHHHHHCCCCEEEEECCCCCCCHHHHHHHHHCC
T ss_conf 99999974278999999983898699975315666564568999999999963999648983865467899999998369
Q ss_pred HHHHCCCCCCEEEEEECCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCHHHHHHC-CCCCCC--EEEEEEE
Q ss_conf 9997088866264542388985266103678750588042246883489845756388899856-988000--3799631
Q gi|254780317|r 245 CKSFFEVSSLQMRFRPSFFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDPRVLRGV-GIDPDI--YQGFAWG 321 (366)
Q Consensus 245 ~~~~fg~~~~~~r~rp~~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p~vl~~~-g~d~~~--~~g~AfG 321 (366)
. .+|. .++++ -|.-+|.+-|.+--+=+ + .||+.+ .++|+. -||+-.|
T Consensus 173 p-dV~n-HNvET--VprL~~~VRp~A~Y~~S----------------L----------~~L~~~k~~~P~i~TKSgiMlG 222 (306)
T COG0320 173 P-DVFN-HNVET--VPRLYPRVRPGATYERS----------------L----------SLLERAKELGPDIPTKSGLMVG 222 (306)
T ss_pred C-CHHH-CCCCC--CHHCCCCCCCCCCHHHH----------------H----------HHHHHHHHHCCCCCCCCCEEEE
T ss_conf 6-1100-45200--00114256898768889----------------9----------9999999858986311213550
Q ss_pred CCHHHHHHHHCCCCCHHHHHHCCHHHH
Q ss_conf 344699799738970587663588888
Q gi|254780317|r 322 MGLDRIAMLKYGMPDVREFFGADVRWI 348 (366)
Q Consensus 322 ~G~eRlaml~~gi~diR~~~~~d~rfl 348 (366)
+|=..= =++- -+++|.+.|+.+|
T Consensus 223 LGEt~~-Ev~e---~m~DLr~~gvdil 245 (306)
T COG0320 223 LGETDE-EVIE---VMDDLRSAGVDIL 245 (306)
T ss_pred CCCCHH-HHHH---HHHHHHHCCCCEE
T ss_conf 577689-9999---9999998599899
No 186
>TIGR01088 aroQ 3-dehydroquinate dehydratase, type II; InterPro: IPR001874 3-dehydroquinate dehydratase (4.2.1.10 from EC), or dehydroquinase, catalyzes the conversion of 3-dehydroquinate into 3-dehydroshikimate. It is the third step in the shikimate pathway for the biosynthesis of aromatic amino acids from chorismate. Two classes of dehydroquinases exist, known as types I and II. Class-II enzymes are homododecameric enzymes of about 17 kDa. They are found in some bacteria such as actinomycetales , and some fungi where they act in a catabolic pathway that allows the use of quinic acid as a carbon source.; GO: 0003855 3-dehydroquinate dehydratase activity, 0009073 aromatic amino acid family biosynthetic process.
Probab=24.60 E-value=50 Score=13.87 Aligned_cols=106 Identities=23% Similarity=0.195 Sum_probs=66.6
Q ss_pred HHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCC-CCEEEEECCCCCCCCCCCCCCCCHHHHHH-HHCC
Q ss_conf 999999999998739876237234158898886189887733163-31277505666556322446763055554-3036
Q gi|254780317|r 119 TQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQM-HDTFFVPGIAGGKHKLLRTHTSPVQIRVM-ESQD 196 (366)
Q Consensus 119 tqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdm-qDTFyl~~~~~~~~~lLRthTS~vQiR~m-~~~~ 196 (366)
++++++|..+....|=+---.=|+|.===|||.==+-.=|-|-+. -|=.=|++.+ =|||| |-+|-- ..-+
T Consensus 23 ~~tle~i~~~~~~~a~~~~ld~e~~~fQSN~EG~L~d~Ih~a~g~~~~GiviNpgA-------~THtS-vAlRDA~~~v~ 94 (144)
T TIGR01088 23 SQTLEEIEEILETFAAQLNLDVEVEFFQSNSEGELIDKIHEALGQDYDGIVINPGA-------YTHTS-VALRDALAAVS 94 (144)
T ss_pred CCCHHHHHHHHHHHHHHCCCEEEEEEECCCCHHHHHHHHHHHHCCCCCEEEECCCC-------CCHHH-HHHHHHHHHHC
T ss_conf 86878999999999985398278987304435789999998723886537878731-------01367-99999999703
Q ss_pred CEEEEEECCCCCCCCCCCCCCCCCCCCCEEEECCCC
Q ss_conf 312254105764745442137810020057861786
Q gi|254780317|r 197 LPIKVIVPGKTYRRDSDSTHSPMFHQIEGLVVSDSA 232 (366)
Q Consensus 197 pP~~~~~~GrvyR~d~D~tH~~~FhQ~egl~v~~~i 232 (366)
.|.==|=+-.|||||+=+-||..=-=.+|..++=++
T Consensus 95 ~P~vEVHlSNvhaREeFRh~S~~a~va~G~I~GLG~ 130 (144)
T TIGR01088 95 LPVVEVHLSNVHAREEFRHHSYIAPVAKGVIVGLGA 130 (144)
T ss_pred CCEEEEECCCCCCCCCCCCCCCCCCCCCCEEECCCH
T ss_conf 986898516651266401045422203532751573
No 187
>cd03345 eu_TyrOH Eukaryotic tyrosine hydroxylase (TyrOH); a member of the biopterin-dependent aromatic amino acid hydroxylase family of non-heme, iron(II)-dependent enzymes that also includes prokaryotic and eukaryotic phenylalanine-4-hydroxylase (PheOH) and eukaryotic tryptophan hydroxylase (TrpOH). TyrOH catalyzes the conversion of tyrosine to L-dihydroxyphenylalanine (L-DOPA), the rate-limiting step in the biosynthesis of the catecholamines dopamine, noradrenaline, and adrenaline.
Probab=24.54 E-value=50 Score=13.86 Aligned_cols=200 Identities=16% Similarity=0.177 Sum_probs=96.1
Q ss_pred CCHHHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHH-C
Q ss_conf 9988999999999999999999-9999999998567666765431000001123212267423899999999999987-3
Q gi|254780317|r 55 LDSQQVSARGAILNQLKVDISG-KISARKDFIRNQLIFEQISSQSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMD-M 132 (366)
Q Consensus 55 Ls~EeKk~~Gk~iNelK~~Ie~-~i~~kk~~L~~~~~~~kl~~E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~-l 132 (366)
.+.+|.+..|...++++..... +..+-...+..-+.+- -++.. .+ =. +++|.+.... -
T Consensus 60 YT~~E~~tW~~v~~~l~~l~~~~AC~eyl~~~~~L~~~~---------g~~~d--~I--PQ-------l~dvs~~L~~~T 119 (298)
T cd03345 60 YTAEEIATWKEVYKTLKDLHATHACKEYLDAFQLLEKEC---------GYSED--RI--PQ-------LEDVSEFLKERT 119 (298)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHC---------CCCCC--CC--CC-------HHHHHHHHHHCC
T ss_conf 698999999999999999864165899999999999835---------99988--89--98-------799989987513
Q ss_pred CCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHHHHHHHCCCEEEEEECCCCCCCCC
Q ss_conf 98762372341588988861898877331633127750566655632244676305555430363122541057647454
Q gi|254780317|r 133 GFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQIRVMESQDLPIKVIVPGKTYRRDS 212 (366)
Q Consensus 133 GF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQiR~m~~~~pP~~~~~~GrvyR~d~ 212 (366)
||++.--|-+-+.--=|+.|-.- --+=|=|| |+|.++
T Consensus 120 Gf~l~pV~Gll~~r~F~~~LA~r------~F~~TqyI-----------Rh~~~p-------------------------- 156 (298)
T cd03345 120 GFQLRPVAGLLSARDFLASLAFR------VFQCTQYI-----------RHASSP-------------------------- 156 (298)
T ss_pred CCEEEECCCCCCHHHHHHHHHHC------CCCCEEEE-----------CCCCCC--------------------------
T ss_conf 98798536647889999998528------04530024-----------267777--------------------------
Q ss_pred CCCCCC-CCCCCCEEE-ECCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCEEEEEEECCCCEEEECCCCC
Q ss_conf 421378-100200578-617866899988999999997088866264542388985266103678750588042246883
Q gi|254780317|r 213 DSTHSP-MFHQIEGLV-VSDSATIANLRWVLESFCKSFFEVSSLQMRFRPSFFPFTEPSFEVDVRCSFSDGIIKFDEGTE 290 (366)
Q Consensus 213 D~tH~~-~FhQ~egl~-v~~~i~~~~lk~~l~~~~~~~fg~~~~~~r~rp~~fPftePs~Evdv~~~~~~~~~~~~~~~~ 290 (366)
|-|-.| +||-+=|-+ .=-|-.||+....+-.. -.|..+-.+..-..-+=|| +|. | +|+..|
T Consensus 157 ~YtpEPDi~Hel~GH~Plladp~fA~f~q~iG~a---sl~a~de~i~~LarlYWfT---VEF--------G---L~~e~g 219 (298)
T cd03345 157 MHSPEPDCCHELLGHVPMLADPTFAQFSQDIGLA---SLGASDEEIEKLSTLYWFT---VEF--------G---LCKENG 219 (298)
T ss_pred CCCCCCCHHHHHHCCCCCCCCHHHHHHHHHHHHH---HCCCCHHHHHHHHHHHHHH---EEE--------E---EECCCC
T ss_conf 7789995366664456122798999999999998---7178999999998888754---011--------4---660389
Q ss_pred EEEEECCCCCCH-HHHHHCCCC-CCCEEEEEEECCHHHHHHHHCCCCCHHH
Q ss_conf 489845756388-899856988-0003799631344699799738970587
Q gi|254780317|r 291 WMEILGCGMVDP-RVLRGVGID-PDIYQGFAWGMGLDRIAMLKYGMPDVRE 339 (366)
Q Consensus 291 WiEi~g~Gm~~p-~vl~~~g~d-~~~~~g~AfG~G~eRlaml~~gi~diR~ 339 (366)
=+.+-|+|++.. .=++.+==| |++ --+-+++++.-.|.|+.+-.
T Consensus 220 ~~KaYGAGiLSS~gEl~~alS~~~~~-----~pfd~~~v~~~~Y~It~~Qp 265 (298)
T cd03345 220 ELKAYGAGLLSSYGELLHALSDEPEH-----RPFDPAATAVQPYQDQTYQP 265 (298)
T ss_pred CEEEECCCCCCCHHHHHHHHCCCCCC-----CCCCHHHHHCCCCCCCCCCC
T ss_conf 52662453228878898870799841-----37989998067889787078
No 188
>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional
Probab=24.54 E-value=50 Score=13.86 Aligned_cols=38 Identities=13% Similarity=0.211 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCC
Q ss_conf 9999999999987398762372341588988861898877331633
Q gi|254780317|r 119 TQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMH 164 (366)
Q Consensus 119 tqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmq 164 (366)
|-.++.+...|.+.||.|.. |-.+.|+||. |+|..|.+
T Consensus 16 TTLi~kli~~l~~~G~rV~~---IKH~~H~f~~-----D~pGkDS~ 53 (170)
T PRK10751 16 TTLLKKLIPALCARGIRPGL---IKHTHHDMDV-----DKPGKDSY 53 (170)
T ss_pred HHHHHHHHHHHHHCCCEEEE---EECCCCCCCC-----CCCCCCCH
T ss_conf 99999999999987984999---9457778889-----99984109
No 189
>pfam11015 DUF2853 Protein of unknown function (DUF2853). This bacterial family of proteins has no known function.
Probab=24.43 E-value=36 Score=14.92 Aligned_cols=23 Identities=26% Similarity=0.299 Sum_probs=18.7
Q ss_pred HHHHHCCCHHHHHHHHHHHCCCC
Q ss_conf 99850699899999999980864
Q gi|254780317|r 20 NSIASVTDMDSLNAIRVATLGRK 42 (366)
Q Consensus 20 ~~I~~a~~~~eLe~lrv~~LGKK 42 (366)
+++-++++.++|+.+|..||.||
T Consensus 35 as~Vs~Sd~~ELe~Vk~nfl~kK 57 (102)
T pfam11015 35 SSTVSASDPKELERVKENFLIKK 57 (102)
T ss_pred CCHHCCCCHHHHHHHHHHHHHHH
T ss_conf 01320588899999998089987
No 190
>pfam07083 DUF1351 Protein of unknown function (DUF1351). This family consists of several bacterial and phage proteins of around 230 residues in length. The function of this family is unknown.
Probab=24.29 E-value=51 Score=13.83 Aligned_cols=49 Identities=10% Similarity=0.147 Sum_probs=19.2
Q ss_pred HHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCHHHHHHHHHHC
Q ss_conf 8999999999999999985069989999999998086406899987615
Q gi|254780317|r 5 NVFEDEVERIRSSLYNSIASVTDMDSLNAIRVATLGRKGSISSLLKDLK 53 (366)
Q Consensus 5 n~m~eeI~~L~~e~~~~I~~a~~~~eLe~lrv~~LGKKG~Lt~llK~Lk 53 (366)
..++..++.+.+.+..-+-...+..+-.+.|..+-+-+..|....|.++
T Consensus 18 e~lk~~v~~~~~~y~~~vvTee~ik~~Kk~rA~LnKl~k~ld~~Rk~iK 66 (220)
T pfam07083 18 EEFEKAIDEVVAKYKGYVVTEENYKDDKKERAELNKLIKALNDKRKEIK 66 (220)
T ss_pred HHHHHHHHHHHHHHCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 9999999999998479200520267789999999999989899999999
No 191
>pfam07927 YcfA YcfA-like protein. The viral, archaeal and bacterial proteins making up this family are similar to the YcfA protein expressed by E. coli. Most of these proteins are hypothetical proteins of unknown function.
Probab=24.10 E-value=37 Score=14.86 Aligned_cols=38 Identities=24% Similarity=0.531 Sum_probs=20.3
Q ss_pred HHHHHHHHHCCCEEE--CCCEEECHHHHHHH---HCCCCCCCCCCC
Q ss_conf 999999987398762--37234158898886---189887733163
Q gi|254780317|r 123 DEVTCIFMDMGFALE--EGSDIETDYYNFAA---LNFPDDHPARQM 163 (366)
Q Consensus 123 ~eI~~IF~~lGF~v~--eGPEIEtd~~NFda---LNiP~~HPARdm 163 (366)
.|+..++...||.+. .|...- |++-+. +-+| .|+++|+
T Consensus 2 ~el~k~L~~~G~~~~r~~GsH~~--~~~~~~~~~~~VP-~H~~kei 44 (58)
T pfam07927 2 RELIKLLEKLGFELVRQKGSHHI--FKHPGKKGTVTVP-RHPGKEL 44 (58)
T ss_pred HHHHHHHHHCCCEEEECCCCEEE--EECCCCCEEEEEC-CCCCCCC
T ss_conf 48999999889189805777504--8858998079942-8987743
No 192
>KOG0804 consensus
Probab=23.59 E-value=52 Score=13.74 Aligned_cols=19 Identities=11% Similarity=0.083 Sum_probs=13.0
Q ss_pred HHHHHHHHHHHHHHHHCCC
Q ss_conf 9999999999999850699
Q gi|254780317|r 9 DEVERIRSSLYNSIASVTD 27 (366)
Q Consensus 9 eeI~~L~~e~~~~I~~a~~ 27 (366)
.++++.++.+...+..+++
T Consensus 347 sqlen~k~~~e~~~~e~~~ 365 (493)
T KOG0804 347 SQLENQKQYYELLITEADS 365 (493)
T ss_pred HHHHHHHHHHHHHHHHHHH
T ss_conf 9997599999999998875
No 193
>COG2609 AceE Pyruvate dehydrogenase complex, dehydrogenase (E1) component [Energy production and conversion]
Probab=23.51 E-value=53 Score=13.73 Aligned_cols=108 Identities=15% Similarity=0.289 Sum_probs=72.8
Q ss_pred ECCCCCHH-HHHHHHHHHHHHHCCC--CCCEEEEEECCCCCCCCCCEEEEEEECCCCEEEECCC----CCEEEEECCCCC
Q ss_conf 61786689-9988999999997088--8662645423889852661036787505880422468----834898457563
Q gi|254780317|r 228 VSDSATIA-NLRWVLESFCKSFFEV--SSLQMRFRPSFFPFTEPSFEVDVRCSFSDGIIKFDEG----TEWMEILGCGMV 300 (366)
Q Consensus 228 v~~~i~~~-~lk~~l~~~~~~~fg~--~~~~~r~rp~~fPftePs~Evdv~~~~~~~~~~~~~~----~~WiEi~g~Gm~ 300 (366)
+--+=+|+ .+--++..-++.|+|. +++-+-++-+-=++..|-+-....-..++|.....+. ..=+-++|+|-+
T Consensus 656 ~tYdPafayEvAVI~~~g~~rmy~~~qe~~~yYit~~ne~~~qPamp~gae~gI~kG~Y~l~~~~~~~~~~vqll~SGai 735 (887)
T COG2609 656 ISYDPAFAYEVAVIMQDGLRRMYGEGQENVFYYITLSNENYPQPAMPEGAEEGIIKGIYKLETPGGQGKAKVQLLGSGAI 735 (887)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHHCCCCCCCEEEEEECCCCCCCCCCCCCCHHHHHHCEEEEECCCCCCCCEEEEEECCHH
T ss_conf 12484378898999999999972356678079999646777899988861665654215753378788734899724130
Q ss_pred CHHHHHHC-------CCCCCCEEEEEE------ECCHHHHHHHHCCCCC
Q ss_conf 88899856-------988000379963------1344699799738970
Q gi|254780317|r 301 DPRVLRGV-------GIDPDIYQGFAW------GMGLDRIAMLKYGMPD 336 (366)
Q Consensus 301 ~p~vl~~~-------g~d~~~~~g~Af------G~G~eRlaml~~gi~d 336 (366)
-|+|++++ |++.+.|+.=-| |.-.+|--|+ |.-..
T Consensus 736 ~~ea~~AaelL~~d~gv~adl~svtS~~eL~rdg~a~~R~n~l-hP~~~ 783 (887)
T COG2609 736 LREALEAAELLAKDYGVEADLWSVTSFDELARDGQAAERWNLL-HPTET 783 (887)
T ss_pred HHHHHHHHHHHHHCCCCCCCEEECCCHHHHHCCHHHHHHHHHC-CCCCC
T ss_conf 7999999998753216566735336688873035777888851-89877
No 194
>KOG0426 consensus
Probab=23.14 E-value=20 Score=16.84 Aligned_cols=15 Identities=27% Similarity=0.311 Sum_probs=8.7
Q ss_pred CCCCCCEEEECCCCC
Q ss_conf 100200578617866
Q gi|254780317|r 219 MFHQIEGLVVSDSAT 233 (366)
Q Consensus 219 ~FhQ~egl~v~~~i~ 233 (366)
-|.--|+|+-+..-|
T Consensus 33 nfF~W~cLI~GP~~T 47 (165)
T KOG0426 33 NFFEWECLIQGPEDT 47 (165)
T ss_pred CEEEEEEEEECCCCC
T ss_conf 505766543478988
No 195
>PRK07080 hypothetical protein; Validated
Probab=22.62 E-value=55 Score=13.61 Aligned_cols=142 Identities=18% Similarity=0.254 Sum_probs=78.7
Q ss_pred CCCCCCHHHHHHHHHHHHHHHCCCEEECCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCC-------------C--
Q ss_conf 2674238999999999999873987623723415889888618988773316331277505666-------------5--
Q gi|254780317|r 111 HRGRIHPVTQVIDEVTCIFMDMGFALEEGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAG-------------G-- 175 (366)
Q Consensus 111 ~~G~~HPItqvi~eI~~IF~~lGF~v~eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~-------------~-- 175 (366)
-.|.---...|.+.|......+|=. .|+ +.|-+|+--|-++.-.|=|++.-.. .
T Consensus 40 lYgRs~~fE~vv~~l~a~i~~~g~~--~~~---------evlrFPPvm~r~~fE~s~YlkSFP~L~GtV~~f~G~e~~h~ 108 (318)
T PRK07080 40 LYGRSGLFERVVDALDALITRLGAD--QGA---------EVLRFPPAMSRAEFERSGYLKSFPQLAGTVHSFCGNEREHR 108 (318)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHCCC--CCC---------CEEECCCCCCHHHHHHCCHHHHCCHHHCCEECCCCCCHHHH
T ss_conf 3036154999999999999873644--587---------15766998865553330465525002010010468968999
Q ss_pred ------------------CCCCCCCC-CCCHHHHHHHHCCC-E---EEEEECCCCCCCCC--CCCCCCCCCCCCEEEECC
Q ss_conf ------------------56322446-76305555430363-1---22541057647454--421378100200578617
Q gi|254780317|r 176 ------------------KHKLLRTH-TSPVQIRVMESQDL-P---IKVIVPGKTYRRDS--DSTHSPMFHQIEGLVVSD 230 (366)
Q Consensus 176 ------------------~~~lLRth-TS~vQiR~m~~~~p-P---~~~~~~GrvyR~d~--D~tH~~~FhQ~egl~v~~ 230 (366)
..++|-.- +-||- -++.+..+ | ..+=.-|.|||+|- |.+..-+|+|-|-+.|+.
T Consensus 109 ~ll~~~~~g~dWt~~~~ptdvvLtPAACyPvY-P~~a~rG~LP~~G~~~dv~~yCFRhEPS~dp~Rmq~FRMrEyV~iGt 187 (318)
T PRK07080 109 RLLACLDRGEDWTESQKPTDVVLTPAACYPVY-PVVASRGPLPAGGRIVDVFSYCFRHEPSLDPARMQLFRMREYVRIGT 187 (318)
T ss_pred HHHHHHHCCCCCCCCCCCCCEEECCCCCCCCC-HHHCCCCCCCCCCEEEEEEEEHHCCCCCCCHHHHHHHHCEEEEEECC
T ss_conf 99999871898422357664575040114253-76602788988874898764210178988858888644044577179
Q ss_pred CCCHHHH----HHHHHHHHHHHCCCCCCEEEEEECCCCCCCC
Q ss_conf 8668999----8899999999708886626454238898526
Q gi|254780317|r 231 SATIANL----RWVLESFCKSFFEVSSLQMRFRPSFFPFTEP 268 (366)
Q Consensus 231 ~i~~~~l----k~~l~~~~~~~fg~~~~~~r~rp~~fPfteP 268 (366)
--..... +..-..+++.+ | +.++...+-=||--.
T Consensus 188 ~e~v~a~R~~W~~r~~~~~~~L-~---L~~~vd~AnDPFFGr 225 (318)
T PRK07080 188 PEQILAFRQRWIERGTRMADAL-G---LPVEIDVANDPFFGR 225 (318)
T ss_pred HHHHHHHHHHHHHHHHHHHHHC-C---CCCCEECCCCCCCCC
T ss_conf 9999999999999999999975-9---985231157875463
No 196
>COG3167 PilO Tfp pilus assembly protein PilO [Cell motility and secretion / Intracellular trafficking and secretion]
Probab=22.08 E-value=56 Score=13.53 Aligned_cols=46 Identities=20% Similarity=0.309 Sum_probs=20.3
Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHCCCCHHHHHHHHHH
Q ss_conf 6899999999999999998506998999999999808640689998761
Q gi|254780317|r 4 CNVFEDEVERIRSSLYNSIASVTDMDSLNAIRVATLGRKGSISSLLKDL 52 (366)
Q Consensus 4 ~n~m~eeI~~L~~e~~~~I~~a~~~~eLe~lrv~~LGKKG~Lt~llK~L 52 (366)
+.....+-+++++.+..+...+.+++.|.+-.++. +..+..++++|
T Consensus 51 l~~~~~eEe~LKs~~q~K~~~aanL~~lr~Ql~em---ee~~~~llrQL 96 (211)
T COG3167 51 LEELEAEEEELKSTYQQKAIQAANLEALRAQLAEM---EERFDILLRQL 96 (211)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHH---HHHHHHHHHHC
T ss_conf 99998779999999999999873559999999999---99999999858
No 197
>TIGR01020 rpsE_arch ribosomal protein S5; InterPro: IPR005711 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites , . About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many of ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome , . This model finds eukaryotic ribosomal protein S2 as well as archaeal ribosomal protein S5.; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0015935 small ribosomal subunit.
Probab=21.92 E-value=43 Score=14.34 Aligned_cols=30 Identities=37% Similarity=0.557 Sum_probs=21.6
Q ss_pred CCCCCEEEEECCCCCCHHHHHHCCCCCCCEEEEEEE
Q ss_conf 468834898457563888998569880003799631
Q gi|254780317|r 286 DEGTEWMEILGCGMVDPRVLRGVGIDPDIYQGFAWG 321 (366)
Q Consensus 286 ~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~~~g~AfG 321 (366)
.++.| |=+|=|--.||+-+||+ |+|| +++|
T Consensus 156 P~G~G----LVaGDV~K~~L~LAGI~-DVWt-~T~G 185 (220)
T TIGR01020 156 PKGVG----LVAGDVAKKVLRLAGIK-DVWT-QTRG 185 (220)
T ss_pred CCCCE----EEECCHHHHHHHHCCCC-EEEE-CCCC
T ss_conf 99623----88746446887745962-3540-4556
No 198
>KOG3820 consensus
Probab=21.91 E-value=56 Score=13.51 Aligned_cols=202 Identities=18% Similarity=0.265 Sum_probs=83.2
Q ss_pred CCCCHHHHHHHHHHHHHHHCCCEEECCCEE----------ECHHHHHHHHC-CCCCCCCCCCCCEEEE--------ECC-
Q ss_conf 742389999999999998739876237234----------15889888618-9887733163312775--------056-
Q gi|254780317|r 113 GRIHPVTQVIDEVTCIFMDMGFALEEGSDI----------ETDYYNFAALN-FPDDHPARQMHDTFFV--------PGI- 172 (366)
Q Consensus 113 G~~HPItqvi~eI~~IF~~lGF~v~eGPEI----------Etd~~NFdaLN-iP~~HPARdmqDTFyl--------~~~- 172 (366)
|-.-|+..- =+..|..+-|..-.|..| .|=---|.-|+ .-+.|.-++--|.|=+ ++.
T Consensus 154 GFkD~vYR~---RRk~fadiA~nyKhGdpIP~veYT~eEikTWg~Vf~~L~~Ly~~HAC~ey~~~f~lLe~~cg~~ednI 230 (461)
T KOG3820 154 GFKDPVYRQ---RRKFFADIAFNYKHGDPIPRVEYTEEEIKTWGTVFRTLTDLYPTHACAEYLDNFPLLEKYCGYREDNI 230 (461)
T ss_pred CCCCHHHHH---HHHHHHHHHHHCCCCCCCCCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCC
T ss_conf 987889999---99999999875104898886345799998899999999887454128999987899998528687776
Q ss_pred C--CCCCCCCCCCCCCHHHH---------HHHHCCCEEEEEECCCCCCCCCCCCCCCCC---CCCCEEE-ECCCCCHHHH
Q ss_conf 6--65563224467630555---------543036312254105764745442137810---0200578-6178668999
Q gi|254780317|r 173 A--GGKHKLLRTHTSPVQIR---------VMESQDLPIKVIVPGKTYRRDSDSTHSPMF---HQIEGLV-VSDSATIANL 237 (366)
Q Consensus 173 ~--~~~~~lLRthTS~vQiR---------~m~~~~pP~~~~~~GrvyR~d~D~tH~~~F---hQ~egl~-v~~~i~~~~l 237 (366)
. .+-..-|+.- |+.|+| .-.. ...+|+|---..-|.-.|.-|+|+- |-+=|-| .=.|-+||..
T Consensus 231 PQLeDVs~FLk~~-TGF~lRPvAGlLSaRDFLa-gLAFRVFhcTQYiRH~s~P~yTPEPD~cHELLGHvPLfADp~FAQF 308 (461)
T KOG3820 231 PQLEDVSKFLKKK-TGFRLRPVAGLLSARDFLA-GLAFRVFHCTQYIRHHSSPFYTPEPDTCHELLGHVPLFADPSFAQF 308 (461)
T ss_pred CHHHHHHHHHHHC-CCCEEECCCCCCCHHHHHH-HHHHHHEEEEEEEECCCCCCCCCCCCHHHHHHCCCHHCCCHHHHHH
T ss_conf 2589999999855-4955511313375888876-5566521100013447998889997368887355610058269888
Q ss_pred HHHHHHHHHHHCCCCCCEEEEEECCCCCCCCCCEEEEEEECCCCEEEECCCCCEEEEECCCCCCH--HHHHHCCCCCCCE
Q ss_conf 88999999997088866264542388985266103678750588042246883489845756388--8998569880003
Q gi|254780317|r 238 RWVLESFCKSFFEVSSLQMRFRPSFFPFTEPSFEVDVRCSFSDGIIKFDEGTEWMEILGCGMVDP--RVLRGVGIDPDIY 315 (366)
Q Consensus 238 k~~l~~~~~~~fg~~~~~~r~rp~~fPftePs~Evdv~~~~~~~~~~~~~~~~WiEi~g~Gm~~p--~vl~~~g~d~~~~ 315 (366)
-.-+- =.=.|..+-.+.=-..-+=|| +|. .+||+.|=+-+-|||+... +..-++-=.|++
T Consensus 309 SQEIG---LASLGAsDe~IEKLaTlywFt---VEF-----------GLCkq~g~~KayGAGLLSS~gEL~hals~~pei- 370 (461)
T KOG3820 309 SQEIG---LASLGASDEDIEKLATLYWFT---VEF-----------GLCKQDGELKAYGAGLLSSYGELQHALSDKPEI- 370 (461)
T ss_pred HHHHH---HHHCCCCHHHHHHHHEEEEEE---EEE-----------EEECCCCEEEEECHHHHHHHHHHHHHHCCCCCC-
T ss_conf 68742---431599989998764136788---887-----------530358815653324566589999885388634-
Q ss_pred EEEEEECCHHHHHHHHCCCCCHHHHH
Q ss_conf 79963134469979973897058766
Q gi|254780317|r 316 QGFAWGMGLDRIAMLKYGMPDVREFF 341 (366)
Q Consensus 316 ~g~AfG~G~eRlaml~~gi~diR~~~ 341 (366)
- -+-.|+.|.-+|-|.+--.+|
T Consensus 371 --~--~FdP~vt~vq~y~it~yQp~Y 392 (461)
T KOG3820 371 --K--DFDPEVTAVQKYLITTYQPLY 392 (461)
T ss_pred --C--CCCCCCEEEEECCCCCCCCCE
T ss_conf --6--778340044201234554202
No 199
>TIGR01382 PfpI intracellular protease, PfpI family; InterPro: IPR006286 Peptidases are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry. Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad . This group of cysteine peptidases belong to MEROPS peptidase family C56 (Pfp1 endopeptidase, clan PC(C)). The member of this family from Pyrococcus horikoshii has been solved to 2 Angstrom resolution. It is an ATP-independent intracellular protease that crystallises as a hexameric ring. Cys-101 is proposed as the active site residue in a catalytic triad with the adjacent His-102 and a Glu residue from an adjacent monomer. A member of this family from Bacillus subtilis, GSP18, has been shown to be expressed in response to several forms of stress. A role in the degradation of small peptides has been suggested. This family is contained in a larger one of the thiamine biosynthesis protein ThiJ and its homologs.; GO: 0016798 hydrolase activity acting on glycosyl bonds.
Probab=21.71 E-value=52 Score=13.74 Aligned_cols=88 Identities=22% Similarity=0.325 Sum_probs=62.8
Q ss_pred HHHHHHHHCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCHHH-HHHHHCCCEEEEEECCC---------------CC
Q ss_conf 889888618988773316331277505666556322446763055-55430363122541057---------------64
Q gi|254780317|r 145 DYYNFAALNFPDDHPARQMHDTFFVPGIAGGKHKLLRTHTSPVQI-RVMESQDLPIKVIVPGK---------------TY 208 (366)
Q Consensus 145 d~~NFdaLNiP~~HPARdmqDTFyl~~~~~~~~~lLRthTS~vQi-R~m~~~~pP~~~~~~Gr---------------vy 208 (366)
+--+||||-+|=.|- ..--||+-+..+.+ |.|.+...|+-.||-|- +|
T Consensus 73 ~~~~YDal~ipGG~a----------------~~e~LR~d~~~~~lvR~f~e~gK~vaaIChgp~lLi~A~VlrGkk~T~y 136 (189)
T TIGR01382 73 DPEDYDALVIPGGRA----------------SPEYLRLDEKVIRLVREFVEKGKPVAAICHGPQLLISAGVLRGKKLTAY 136 (189)
T ss_pred CHHHCCEEEEECCCC----------------CCCCCCCCHHHHHHHHHHHHCCCEEEEEECCCEEEEECCEECCCEEEEC
T ss_conf 852564789717735----------------6000148768999999984178819998453000002551037537533
Q ss_pred CC-C-C-CCCCC-CCCCCC-CEEEECCC---C----CHHHHHHHHHHHHHHH
Q ss_conf 74-5-4-42137-810020-05786178---6----6899988999999997
Q gi|254780317|r 209 RR-D-S-DSTHS-PMFHQI-EGLVVSDS---A----TIANLRWVLESFCKSF 248 (366)
Q Consensus 209 R~-d-~-D~tH~-~~FhQ~-egl~v~~~---i----~~~~lk~~l~~~~~~~ 248 (366)
.. + . |-+-- -+|--. ++.|+|.| + +-+||......|++.|
T Consensus 137 ~aPei~~d~~nAGaey~D~~~~~V~d~nGWt~itar~p~~l~aF~~~~~~~L 188 (189)
T TIGR01382 137 PAPEIIDDVKNAGAEYVDIREVVVVDANGWTLITARVPADLPAFNSEILKLL 188 (189)
T ss_pred CCCCCHHHHHHCCEEEEECCCCEEECCCCEEEEECCCCHHHHHHHHHHHHHC
T ss_conf 9986215565286116787874145488517994288112788999999971
No 200
>TIGR01969 minD_arch cell division ATPase MinD; InterPro: IPR010224 Proper placement of the bacterial cell division site requires the site-specific inactivation of other potential division sites. In Escherichia coli, selection of the correct mid-cell site is mediated by the MinC, MinD and MinE proteins. Several members of this family are found in archaeal genomes but their function is uncharacterised. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. This entry represents the archaeal MinD family. The exact roles of the various archaeal MinD homologs are unknown. .
Probab=21.54 E-value=45 Score=14.22 Aligned_cols=15 Identities=40% Similarity=0.461 Sum_probs=10.1
Q ss_pred EEEECCCCCHHHHHH
Q ss_conf 578617866899988
Q gi|254780317|r 225 GLVVSDSATIANLRW 239 (366)
Q Consensus 225 gl~v~~~i~~~~lk~ 239 (366)
-+++|-|||||||-=
T Consensus 32 V~~~DADI~MANL~L 46 (258)
T TIGR01969 32 VLVLDADITMANLEL 46 (258)
T ss_pred EEEEECCHHHHHHHH
T ss_conf 899946766776898
No 201
>TIGR00838 argH argininosuccinate lyase; InterPro: IPR009049 This entry represents argininosuccinate lyase, but may include examples of avian delta crystallins, in which argininosuccinate lyase activity may or may not be present and the biological role is to provide the optically clear cellular protein of the eye lens. ; GO: 0004056 argininosuccinate lyase activity, 0042450 arginine biosynthetic process via ornithine.
Probab=21.52 E-value=57 Score=13.46 Aligned_cols=40 Identities=20% Similarity=0.181 Sum_probs=21.8
Q ss_pred HHCCCCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 98086406899987615899889999999999999999999
Q gi|254780317|r 37 ATLGRKGSISSLLKDLKNLDSQQVSARGAILNQLKVDISGK 77 (366)
Q Consensus 37 ~~LGKKG~Lt~llK~Lk~Ls~EeKk~~Gk~iNelK~~Ie~~ 77 (366)
+..|-..+. ..+++.|-|+.||.+++=+.||++|+++.+.
T Consensus 31 Di~~~~AH~-~~L~k~GiLt~Ee~~~l~~gL~~l~~e~~~~ 70 (469)
T TIGR00838 31 DIEGSIAHT-KMLKKAGILTEEEAAKLIEGLNELKEEVREG 70 (469)
T ss_pred HHCCCHHHH-HHHHHCCCCCHHHHHHHHHHHHHHHHHHHCC
T ss_conf 213359999-9987527988889999999999999988608
No 202
>TIGR02956 TMAO_torS TMAO reductase sytem sensor TorS; InterPro: IPR014302 This protein, TorS, is part of a regulatory system for the torCAD operon that encodes the pterin molybdenum cofactor-containing enzyme trimethylamine-N-oxide (TMAO) reductase (TorA), a cognate chaperone (TorD), and a penta-haem cytochrome (TorC). TorS works together with the inducer-binding protein TorT and the response regulator TorR. TorS contains histidine kinase ATPase (IPR003594 from INTERPRO), HAMP (IPR003660 from INTERPRO), phosphoacceptor (IPR003661 from INTERPRO), and phosphotransfer (IPR008207 from INTERPRO) domains and a response regulator receiver domain (IPR001789 from INTERPRO)..
Probab=21.52 E-value=57 Score=13.46 Aligned_cols=194 Identities=16% Similarity=0.222 Sum_probs=97.2
Q ss_pred CCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCC-------------------------------
Q ss_conf 5899889999999999999999999999999998567666765431000-------------------------------
Q gi|254780317|r 53 KNLDSQQVSARGAILNQLKVDISGKISARKDFIRNQLIFEQISSQSVDV------------------------------- 101 (366)
Q Consensus 53 k~Ls~EeKk~~Gk~iNelK~~Ie~~i~~kk~~L~~~~~~~kl~~E~iDV------------------------------- 101 (366)
..|..+++ .+-+++++.|+.++..+..|..+|.. .|.||..|.+.-
T Consensus 446 ~~L~~~~~-~~~~EL~~HKe~LE~~v~~RT~EL~~--~N~rLN~E~~~H~kAR~~AE~AnrAKS~FLAtMSHEIRTPlNG 522 (1052)
T TIGR02956 446 LKLEAEER-QVKQELQEHKESLEQLVAQRTQELKE--TNERLNAEVLNHAKARAEAEEANRAKSAFLATMSHEIRTPLNG 522 (1052)
T ss_pred HHHHHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHH
T ss_conf 66769999-99999988899999999998899999--7467639998799999999997488768874135113201136
Q ss_pred -----------CCCCCCC-----CCCCCCCCHHHHHHHHHHHHHHHCCCE-EECC-CEEECHHHHHHH------------
Q ss_conf -----------0011232-----122674238999999999999873987-6237-234158898886------------
Q gi|254780317|r 102 -----------SLPVFSS-----PCHRGRIHPVTQVIDEVTCIFMDMGFA-LEEG-SDIETDYYNFAA------------ 151 (366)
Q Consensus 102 -----------TLP~~~~-----~~~~G~~HPItqvi~eI~~IF~~lGF~-v~eG-PEIEtd~~NFda------------ 151 (366)
+||..-+ -.+.| --+--++++|-| |+ |.-| ..++-..-+||-
T Consensus 523 ~LGT~~LL~d~~L~~~Q~~yl~~In~SG--e~LL~iLNDILD------YSkIEaGGthl~i~~~~fd~~~L~~dv~~Lm~ 594 (1052)
T TIGR02956 523 ILGTLELLGDTGLTSQQQQYLQVINRSG--ESLLDILNDILD------YSKIEAGGTHLSISPRPFDLNKLLEDVHHLME 594 (1052)
T ss_pred HHHHHHHHCCCCCCHHHHHHHHHHHHHH--HHHHHHHHHHHH------HHHHHCCCCCCCCCCCCCCHHHHHHHHHHHHH
T ss_conf 8999975058998888999999998622--789999846754------67761087465345567788889999999999
Q ss_pred -----------HCCCCCCCCCCCCCEEEEECCCCCCCCCC---------CCCCCCHHHHHHHHCCCE-----EEEEECCC
Q ss_conf -----------18988773316331277505666556322---------446763055554303631-----22541057
Q gi|254780317|r 152 -----------LNFPDDHPARQMHDTFFVPGIAGGKHKLL---------RTHTSPVQIRVMESQDLP-----IKVIVPGK 206 (366)
Q Consensus 152 -----------LNiP~~HPARdmqDTFyl~~~~~~~~~lL---------RthTS~vQiR~m~~~~pP-----~~~~~~Gr 206 (366)
.|+|.+=|+-=.-|--=| +-+| =||+=.|.|++-.+.+-| +.+...+-
T Consensus 595 sRA~~Kg~~L~~~~~~~~~~~~~gD~~ri-------RQvL~NLvgNaIKFT~~Gsv~l~~~l~~~~~~gdsel~F~V~Dt 667 (1052)
T TIGR02956 595 SRAQEKGIQLILNIDEQLPNWWQGDLRRI-------RQVLINLVGNAIKFTDRGSVVLRVSLNDDSSSGDSELLFEVEDT 667 (1052)
T ss_pred HHHHCCCCEEEECCCCCHHHHHHCCCCHH-------HHHHHHHHHCCCEECCCCEEEEEEEECCCCCCCCCEEEEEEEEC
T ss_conf 87740372567427654278875366134-------47676544132004345269999885588898663478888624
Q ss_pred CCCCC--CCCCCCCCCCCCC-EEE--ECCCCCHHHHHHHHHHHHHHHCCC-CCCEEEE---EECCCCCCCC
Q ss_conf 64745--4421378100200-578--617866899988999999997088-8662645---4238898526
Q gi|254780317|r 207 TYRRD--SDSTHSPMFHQIE-GLV--VSDSATIANLRWVLESFCKSFFEV-SSLQMRF---RPSFFPFTEP 268 (366)
Q Consensus 207 vyR~d--~D~tH~~~FhQ~e-gl~--v~~~i~~~~lk~~l~~~~~~~fg~-~~~~~r~---rp~~fPfteP 268 (366)
--=-+ .-++=.-.|.|+| |.- .|.++.+| +=..++..|=|. ..+.|.= +-|-|-|+=|
T Consensus 668 G~GIae~~~~~lF~aF~Qa~eg~~~~gGTGLGLA----Is~~Lv~AM~G~GrGl~v~S~~~~GScF~F~lp 734 (1052)
T TIGR02956 668 GVGIAEEEQATLFDAFTQADEGRRKSGGTGLGLA----ISRRLVEAMDGEGRGLGVESELGQGSCFWFTLP 734 (1052)
T ss_pred CCCCCHHHHHHHCCCCCCCCCCCCCCCCCCCHHH----HHHHHHHHHCCCCCCCEEEEECCCCCEEEEECC
T ss_conf 7799879998543310121013731377650689----999999970888765016664587502212423
No 203
>TIGR02622 CDP_4_6_dhtase CDP-glucose 4,6-dehydratase; InterPro: IPR013445 This entry contains CDP-glucose 4,6-dehydratases from a variety of Gram-negative and Gram-positive bacteria. Members are typically encoded next to a gene that encodes a glucose-1-phosphate cytidylyltransferase, which produces the substrate CDP-D-glucose. This is used by the proteins in this entry to produce CDP-4-keto-6-deoxyglucose..
Probab=21.47 E-value=45 Score=14.21 Aligned_cols=114 Identities=17% Similarity=0.265 Sum_probs=68.9
Q ss_pred HHHHHHHCCCEEE-CCCEEECHHHHHHHHCCCCCCCCCCCCCEEEEECCCC------------------------CCCC-
Q ss_conf 9999987398762-3723415889888618988773316331277505666------------------------5563-
Q gi|254780317|r 125 VTCIFMDMGFALE-EGSDIETDYYNFAALNFPDDHPARQMHDTFFVPGIAG------------------------GKHK- 178 (366)
Q Consensus 125 I~~IF~~lGF~v~-eGPEIEtd~~NFdaLNiP~~HPARdmqDTFyl~~~~~------------------------~~~~- 178 (366)
+.-.+.+||=+|. ..=+.+|.=..||+||. ++.++|..|+...-+ +..+
T Consensus 20 L~lWL~~lGA~V~GYSL~P~t~PnlFe~l~l-----~~~~~~~Wyf~~~~gDIrD~~~L~~~~~~~~PeIvFHlAAQPLV 94 (361)
T TIGR02622 20 LSLWLLELGAEVAGYSLDPPTSPNLFELLNL-----AKKIKDSWYFSSIFGDIRDAAKLEKAIAEFKPEIVFHLAAQPLV 94 (361)
T ss_pred HHHHHHHCCCEEEEEECCCCCCCCHHHHHHH-----HHHHHCCEEEEEEEECCCCHHHHHHHHHHCCCCEEEHHHHHHHH
T ss_conf 9999984796798971688788405557525-----42432350554233032327899999997289898333542788
Q ss_pred ------CCCCCCCCH--HHHHHHHCC-----CEEEEEECCCCCCCCCCCCCCCCCCCCCEEEECCCCCHHHHHHHHHHHH
Q ss_conf ------224467630--555543036-----3122541057647454421378100200578617866899988999999
Q gi|254780317|r 179 ------LLRTHTSPV--QIRVMESQD-----LPIKVIVPGKTYRRDSDSTHSPMFHQIEGLVVSDSATIANLRWVLESFC 245 (366)
Q Consensus 179 ------lLRthTS~v--QiR~m~~~~-----pP~~~~~~GrvyR~d~D~tH~~~FhQ~egl~v~~~i~~~~lk~~l~~~~ 245 (366)
=+-|=+|+| +++.|+.-+ --+=+|.-+|||||++=--++-+==++-| +|. -+-=|++-|-.+
T Consensus 95 r~SY~~P~~Tf~TNVmGT~~lLea~r~~~~~~a~v~vTsDK~Y~N~EW~wgYRE~D~LGG----hDP-YS~SKAcAELv~ 169 (361)
T TIGR02622 95 RKSYADPLETFETNVMGTVNLLEAIRAIKSVKAVVLVTSDKVYENKEWVWGYRETDPLGG----HDP-YSSSKACAELVI 169 (361)
T ss_pred HHHHHCHHHHEEEHHHHHHHHHHHHHHCCCCEEEEEEECCEEECCCCCCCCCCCCCCCCC----CCC-CCCCHHHHHHHH
T ss_conf 986732020222003222577889974699569998616723307878875232478877----167-753289999999
Q ss_pred HHH
Q ss_conf 997
Q gi|254780317|r 246 KSF 248 (366)
Q Consensus 246 ~~~ 248 (366)
..+
T Consensus 170 ~sy 172 (361)
T TIGR02622 170 ASY 172 (361)
T ss_pred HHH
T ss_conf 999
No 204
>TIGR00614 recQ_fam ATP-dependent DNA helicase, RecQ family; InterPro: IPR004589 The ATP-dependent DNA helicase RecQ (3.6.1 from EC) is involved in genome maintenance . All homologues tested to date unwind paired DNA, translocating in a 3' to 5' direction and several have a preference for forked or 4-way DNA structures (e.g. Holliday junctions) or for G-quartet DNA. The yeast protein, Sgs1, is present in numerous foci that coincide with sites of de novo synthesis DNA, such as the replication fork, and protein levels peak during S-phase. A model has been proposed for Sgs1p action in the S-phase checkpoint response, both as a 'sensor' for damage during replication and a 'resolvase' for structures that arise at paused forks, such as the four-way 'chickenfoot' structure. The action of Sgs1p may serve to maintain the proper amount and integrity of ss DNA that is necessary for the binding of RPA (replication protein A, the eukaryotic ss DNA-binding protein)DNA pol complexes. Sgs1p would thus function by detecting (or resolving) aberrant DNA structures, and would thus contribute to the full activation of the DNA-dependent protein kinase, Mec1p and the effector kinase, Rad53p. Its ability to bind both the large subunit of RPA and the RecA-like protein Rad51p, place it in a unique position to resolve inappropriate fork structures that can occur when either the leading or lagging strand synthesis is stalled. Thus, RecQ helicases integrate checkpoint activation and checkpoint response. ; GO: 0008026 ATP-dependent helicase activity, 0006310 DNA recombination.
Probab=21.18 E-value=58 Score=13.41 Aligned_cols=52 Identities=13% Similarity=0.233 Sum_probs=37.4
Q ss_pred CHHHHHHHHHHHHHHHHHH--HHHCCCHHHHHHHHHHHCCCCHHHHHHHHHHCCCCHHH
Q ss_conf 4689999999999999999--85069989999999998086406899987615899889
Q gi|254780317|r 3 ECNVFEDEVERIRSSLYNS--IASVTDMDSLNAIRVATLGRKGSISSLLKDLKNLDSQQ 59 (366)
Q Consensus 3 e~n~m~eeI~~L~~e~~~~--I~~a~~~~eLe~lrv~~LGKKG~Lt~llK~Lk~Ls~Ee 59 (366)
=++.|+|++.+|...-..+ |.++++.++-.++-.+...|.|.+..+ .++||.
T Consensus 61 LiSLm~DQV~~L~~~~i~A~~L~s~~s~~~~~~v~~~~~~k~g~~kll-----YvtPE~ 114 (497)
T TIGR00614 61 LISLMEDQVLQLKASGIPATFLNSSQSKEQQKEVLTDLSKKDGKLKLL-----YVTPEK 114 (497)
T ss_pred HHHHHHHHHHHHHHCCCCEECCCCCCCHHHHHHHHHHHHHHCCCEEEE-----EECHHH
T ss_conf 365689999998744863010443257789999999987307975899-----716346
No 205
>TIGR01340 aconitase_mito aconitate hydratase, mitochondrial; InterPro: IPR006248 Aconitase (aconitate hydratase; 4.2.1.3 from EC) is an iron-sulphur protein that contains a [4Fe-4S]-cluster and catalyses the interconversion of isocitrate and citrate via a cis-aconitate intermediate. Aconitase functions in both the TCA and glyoxylate cycles, however unlike the majority of iron-sulphur proteins that function as electron carriers, the [4Fe-4S]-cluster of aconitase reacts directly with an enzyme substrate. In eukaryotes there is a cytosolic form (cAcn) and a mitochondrial form (mAcn) of the enzyme. In bacteria there are also 2 forms, aconitase A (AcnA) and B (AcnB). Several aconitases are known to be multi-functional enzymes with a second non-catalytic, but essential function that arises when the cellular environment changes, such as when iron levels drop , . Eukaryotic cAcn and mAcn, and bacterial AcnA have the same domain organisation, consisting of three N-terminal alpha/beta/alpha domains, a linker region, followed by a C-terminal 'swivel' domain with a beta/beta/alpha structure (1-2-3-linker-4), although mAcn is small than cAcn. However, bacterial AcnB has a different organisation: it contains an N-terminal HEAT-like domain, followed by the 'swivel' domain, then the three alpha/beta/alpha domains (HEAT-4-1-2-3) . Below is a description of some of the multi-functional activities associated with different aconitases. Eukaryotic mAcn catalyses the second step of the mitochondrial TCA cycle, which is important for energy production, providing high energy electrons in the form of NADH and FADH2 to the mitochondrial oxidative phosphorylation pathway . The TCA cycle also provides precursors for haem and amino acid production. This enzyme has a second, non-catalytic but essential role in mitochondrial DNA (mtDNA) maintenance: mAcn acts to stabilise mtDNA, forming part of mtDNA protein-DNA complexes known as nucleoids. mAcn is thought to reversibly model nucleoids to directly influence mitochondrial gene expression in response to changes in the cellular environment. Therefore, mAcn can influence the expression of components of the oxidative phosphorylation pathway encoded in mtDNA. Eukaryotic cAcn enzyme balances the amount of citrate and isocitrate in the cytoplasm, which in turn creates a balance between the amount of NADPH generated from isocitrate by isocitrate dehydrogenase with the amount of acetyl-CoA generated from citrate by citrate lyase. Fatty acid synthesis requires both NADPH and acetyl-CoA, as do other metabolic processes, including the need for NADPH to combat oxidative stress. The enzymatic form of cAcn predominates when iron levels are normal, but if they drop sufficiently to cause the disassembly of the [4Fe-4S]-cluster, then cAcn undergoes a conformational change from a compact enzyme to a more open L-shaped protein known as iron regulatory protein 1 (IRP1; or IRE-binding protein 1, IREBP1) , . As IRP1, the catalytic site and the [4Fe-4S]-cluster are lost, and two new RNA-binding sites appear. IRP1 functions in the post-transcriptional regulation of genes involved in iron metabolism - it binds to mRNA iron-responsive elements (IRE), 30-nucleotide stem-loop structures at the 3' or 5' end of specific transcripts. Transcripts containing an IRE include ferritin L and H subunits (iron storage), transferrin (iron plasma chaperone), transferrin receptor (iron uptake into cells), ferroportin (iron exporter), mAcn, succinate dehydrogenase, erythroid aminolevulinic acid synthetase (tetrapyrrole biosynthesis), among others. If the IRE is in the 5'-UTR of the transcript (e.g. in ferritin mRNA), then IRP1-binding prevents its translation by blocking the transcript from binding to the ribosome. If the IRE is in the 3'-UTR of the transcript (e.g. transferrin receptor), then IRP1-binding protects it from endonuclease degradation, thereby prolonging the half-life of the transcript and enabling it to be translated . IRP2 is another IRE-binding protein that binds to the same transcripts as IRP1. However, since IRP1 is predominantly in the enzymatic cAcn form, it is IRP2 that acts as the major metabolic regulator that maintains iron homeostasis . Although IRP2 is homologous to IRP1, IPR2 lacks aconitase activity, and is known only to have a single function in the post-transcriptional regulation of iron metabolism genes . In iron-replete cells, IRP2 activity is regulated primarily by iron-dependent degradation through the ubiquitin-proteasomal system. Bacterial AcnB is also known to be multi-functional. In addition to its role in the TCA cycle, AcnB was shown to be a post-transcriptional regulator of gene expression in Escherichia coli and Salmonella enterica , . In S.enterica, AcnB initiates a regulatory cascade controlling flagella biosynthesis through an interaction with the ftsH transcript, an alternative RNA polymerase sigma factor. This binding lowers the intracellular concentration of FtsH protease, which in turn enhances the amount of RNA polymerase sigma32 factor (normally degraded by FtsH protease), and sigma32 then increases the synthesis of chaperone DnaK, which in turn promotes the synthesis of the flagellar protein FliC. AcnB regulates the synthesis of other proteins as well, such as superoxide dismutase (SodA) and other enzymes involved in oxidative stress. This entry represents mitochondrial aconitase (mAcn), as well as close homologues such as certain bacterial aconitase A (AcnA) enzymes. More information about these proteins can be found at Protein of the Month: Aconitase .; GO: 0003994 aconitate hydratase activity, 0051539 4 iron 4 sulfur cluster binding, 0006099 tricarboxylic acid cycle.
Probab=21.16 E-value=35 Score=15.02 Aligned_cols=13 Identities=31% Similarity=0.611 Sum_probs=5.6
Q ss_pred CCCCCCHHHHHHC
Q ss_conf 5756388899856
Q gi|254780317|r 296 GCGMVDPRVLRGV 308 (366)
Q Consensus 296 g~Gm~~p~vl~~~ 308 (366)
|+|++|.-||+|.
T Consensus 134 GsGIIHQivLENy 146 (761)
T TIGR01340 134 GSGIIHQIVLENY 146 (761)
T ss_pred CCCEEEHHHHHHC
T ss_conf 8840413212310
No 206
>KOG3595 consensus
Probab=21.12 E-value=58 Score=13.40 Aligned_cols=65 Identities=12% Similarity=0.185 Sum_probs=38.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCCCCCCCCCCCCCCCCCCHHHHHHHHHHHHHHH
Q ss_conf 9999999999999999999999998567666765431000001123212267423899999999999987
Q gi|254780317|r 62 ARGAILNQLKVDISGKISARKDFIRNQLIFEQISSQSVDVSLPVFSSPCHRGRIHPVTQVIDEVTCIFMD 131 (366)
Q Consensus 62 ~~Gk~iNelK~~Ie~~i~~kk~~L~~~~~~~kl~~E~iDVTLP~~~~~~~~G~~HPItqvi~eI~~IF~~ 131 (366)
.....+.+.|+.+++.+++....++.+...-+.-+ +.|++.= .. -.--.|++..+++-+.-.+..
T Consensus 784 ~~~~~~~~~k~~v~~~l~~a~P~leeA~aal~ti~-k~~l~~l--ks--~~~PP~~Vk~~meavciLlg~ 848 (1395)
T KOG3595 784 EKAGLIQAQKAEVEEDLEEAEPALEEASAALSTIK-KADLSEL--KS--MKNPPHAVKLVMEAVCILLGR 848 (1395)
T ss_pred HHHHHHHHHHHHHHHHHHHCCHHHHHHHHHHHHCC-HHHHHHH--HH--CCCCCHHHHHHHHHHHHHHCC
T ss_conf 88988999999999775213359999999997355-1207888--75--059977899999999998277
No 207
>cd02410 archeal_CPSF_KH The archaeal cleavage and polyadenylation specificity factor (CPSF) contains an N-terminal K homology RNA-binding domain (KH). The archeal CPSFs are predicted to be metal-dependent RNases belonging to the beta-CASP family, a subgroup enzymes within the metallo-beta-lactamase fold. The KH motif is a beta-alpha-alpha-beta-beta unit that folds into an alpha-beta structure with a three stranded beta-sheet interupted by two contiguous helices. In general, KH domains are known to bind single-stranded RNA or DNA and are found in a wide variety of proteins including ribosomal proteins, transcription factors and post-transcriptional modifiers of mRNA.
Probab=21.04 E-value=59 Score=13.39 Aligned_cols=70 Identities=17% Similarity=0.193 Sum_probs=46.2
Q ss_pred EEEEECCCCE-EEECCCCCEEEEECCCCCCHHHHHHCCCCCCCEEEEEEECCHHHHHHHHCCCCCHHHHHHC----CHHH
Q ss_conf 6787505880-4224688348984575638889985698800037996313446997997389705876635----8888
Q gi|254780317|r 273 DVRCSFSDGI-IKFDEGTEWMEILGCGMVDPRVLRGVGIDPDIYQGFAWGMGLDRIAMLKYGMPDVREFFGA----DVRW 347 (366)
Q Consensus 273 dv~~~~~~~~-~~~~~~~~WiEi~g~Gm~~p~vl~~~g~d~~~~~g~AfG~G~eRlaml~~gi~diR~~~~~----d~rf 347 (366)
|+++--|.|. +=-|+ .-|+=++-.|...-++.+..|+-|.+++.=+ |--.-|.+||.+.-+ --.|
T Consensus 70 ~i~FD~~~gEV~Iea~-kPg~viGk~g~~l~eI~~~tGW~p~v~RtPp---------i~S~ti~~IR~~l~~~~~eRrk~ 139 (145)
T cd02410 70 DIYFDDDTGEVIIEAE-KPGLVIGKGGSTLREITRETGWAPKVVRTPP---------IQSRTVKSIRRFLRREREERKEI 139 (145)
T ss_pred EEEECCCCCEEEEEEC-CCEEEECCCCHHHHHHHHHHCCEEEEEECCC---------CCHHHHHHHHHHHHHHHHHHHHH
T ss_conf 6897488857999977-9777972761679999997398157886599---------96178999999999808999999
Q ss_pred HHHCC
Q ss_conf 87448
Q gi|254780317|r 348 IEHYG 352 (366)
Q Consensus 348 l~qf~ 352 (366)
|++||
T Consensus 140 L~~~G 144 (145)
T cd02410 140 LKRIG 144 (145)
T ss_pred HHHHC
T ss_conf 99805
No 208
>cd00179 SynN Syntaxin N-terminus domain; syntaxins are nervous system-specific proteins implicated in the docking of synaptic vesicles with the presynaptic plasma membrane; they are a family of receptors for intracellular transport vesicles; each target membrane may be identified by a specific member of the syntaxin family; syntaxins contain a moderately well conserved amino-terminal domain, called Habc, whose structure is an antiparallel three-helix bundle; a linker of about 30 amino acids connects this to the carboxy-terminal region, designated H3 (t_SNARE), of the syntaxin cytoplasmic domain; the highly conserved H3 region forms a single, long alpha-helix when it is part of the core SNARE complex and anchors the protein on the cytoplasmic surface of cellular membranes; H3 is not included in defining this domain
Probab=21.01 E-value=59 Score=13.38 Aligned_cols=27 Identities=19% Similarity=0.192 Sum_probs=12.6
Q ss_pred HHHHHHHHHHCCCCHHHHHHHHHHCCC
Q ss_conf 999999999808640689998761589
Q gi|254780317|r 29 DSLNAIRVATLGRKGSISSLLKDLKNL 55 (366)
Q Consensus 29 ~eLe~lrv~~LGKKG~Lt~llK~Lk~L 55 (366)
..|+++....-.+-..+...+|.|..-
T Consensus 44 ~~l~~~~~~i~~~a~~ik~~Lk~l~~~ 70 (151)
T cd00179 44 QELESLVQEIKKLAKEIKGKLKELEES 70 (151)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_conf 999999999999999999999999982
No 209
>pfam08006 DUF1700 Protein of unknown function (DUF1700). This family contains many hypothetical bacterial proteins and two putative membrane proteins.
Probab=20.82 E-value=59 Score=13.36 Aligned_cols=36 Identities=14% Similarity=0.103 Sum_probs=19.8
Q ss_pred CCHHHHHHHHHHCCCCHHHHHHHHHHHHHHHHHHHHHHH
Q ss_conf 640689998761589988999999999999999999999
Q gi|254780317|r 41 RKGSISSLLKDLKNLDSQQVSARGAILNQLKVDISGKIS 79 (366)
Q Consensus 41 KKG~Lt~llK~Lk~Ls~EeKk~~Gk~iNelK~~Ie~~i~ 79 (366)
|+-.++.+.+.|+.+|.+||.+. ++...+.+.+..+
T Consensus 3 k~efL~~L~~~L~~lp~~e~~~i---l~~y~e~f~~~~~ 38 (181)
T pfam08006 3 KIEFLNELESSLKKLPEEERKDI---LYDYEEHFYEGEE 38 (181)
T ss_pred HHHHHHHHHHHHHCCCHHHHHHH---HHHHHHHHHHHHH
T ss_conf 99999999998865999999999---9999999998766
No 210
>TIGR01772 MDH_euk_gproteo malate dehydrogenase, NAD-dependent; InterPro: IPR010097 This entry represents the NAD-dependent malate dehydrogenase found in eukaryotes and certain gamma proteobacteria. The enzyme is involved in the citric acid cycle as well as the glyoxalate cycle. Several isoforms exist in eukaryotes. In Saccharomyces cereviseae, for example, there are cytoplasmic, mitochondrial and peroxisomal forms. Although malate dehydrogenases have in some cases been mistaken for lactate dehydrogenases due to the similarity of these two substrates and the apparent ease with which evolution can toggle these activities, critical residues have been identified which can discriminate between the two activities.; GO: 0030060 L-malate dehydrogenase activity, 0006108 malate metabolic process.
Probab=20.71 E-value=40 Score=14.62 Aligned_cols=19 Identities=11% Similarity=-0.076 Sum_probs=8.8
Q ss_pred CCHHHH-HHHHHHHHHHHCC
Q ss_conf 668999-8899999999708
Q gi|254780317|r 232 ATIANL-RWVLESFCKSFFE 250 (366)
Q Consensus 232 i~~~~l-k~~l~~~~~~~fg 250 (366)
+|||+- -.+-..+++.|-|
T Consensus 263 LSMA~AGakF~~~~v~~l~G 282 (379)
T TIGR01772 263 LSMAFAGAKFALSLVSGLKG 282 (379)
T ss_pred HHHHHHHHHHHHHHHHHHCC
T ss_conf 78999999999999998558
No 211
>COG0514 RecQ Superfamily II DNA helicase [DNA replication, recombination, and repair]
Probab=20.61 E-value=28 Score=15.78 Aligned_cols=33 Identities=9% Similarity=0.226 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHHHH--HHHCCCHHHHHHHHH
Q ss_conf 689999999999999999--850699899999999
Q gi|254780317|r 4 CNVFEDEVERIRSSLYNS--IASVTDMDSLNAIRV 36 (366)
Q Consensus 4 ~n~m~eeI~~L~~e~~~~--I~~a~~~~eLe~lrv 36 (366)
++.|.|++++++..-..+ |++.-+.++-.++..
T Consensus 67 iSLM~DQV~~l~~~Gi~A~~lnS~l~~~e~~~v~~ 101 (590)
T COG0514 67 ISLMKDQVDQLEAAGIRAAYLNSTLSREERQQVLN 101 (590)
T ss_pred HHHHHHHHHHHHHCCCEEEHHHCCCCHHHHHHHHH
T ss_conf 88899999999975965204424367877999999
No 212
>pfam01075 Glyco_transf_9 Glycosyltransferase family 9 (heptosyltransferase). Members of this family belong to glycosyltransferase family 9. Lipopolysaccharide is a major component of the outer leaflet of the outer membrane in Gram-negative bacteria. It is composed of three domains; lipid A, Core oligosaccharide and the O-antigen. All of these enzymes transfer heptose to the lipopolysaccharide core.
Probab=20.60 E-value=18 Score=17.13 Aligned_cols=57 Identities=14% Similarity=0.222 Sum_probs=33.4
Q ss_pred EEECCCCCHHHHHHHHHHHHHHHCCCCCCEEEEEECCCCCCCCC--CEEEEEEECCCCE-EEECC
Q ss_conf 78617866899988999999997088866264542388985266--1036787505880-42246
Q gi|254780317|r 226 LVVSDSATIANLRWVLESFCKSFFEVSSLQMRFRPSFFPFTEPS--FEVDVRCSFSDGI-IKFDE 287 (366)
Q Consensus 226 l~v~~~i~~~~lk~~l~~~~~~~fg~~~~~~r~rp~~fPftePs--~Evdv~~~~~~~~-~~~~~ 287 (366)
++|+-|-...|+-..+..=+-.+||+.+ ..+ |.|+.+.+ ++.++.|.-|... |...+
T Consensus 188 l~I~nDSGp~HiAaA~g~Pti~ifGpT~-p~~----~~P~~~~~~vi~~~l~C~PC~~~~C~~~~ 247 (249)
T pfam01075 188 LVVGNDSGLMHLAAALDRPVIGLYGPTD-PVR----TGPYSDNATCVSSHRPCLPCFVRQCRLGK 247 (249)
T ss_pred EEEECCCHHHHHHHHCCCCEEEEECCCC-HHH----HCCCCCCEEEEECCCCCCCCCCCCCCCCC
T ss_conf 6885798599999983998899978898-725----18889985899489978898989699988
No 213
>TIGR02279 PaaC-3OHAcCoADH 3-hydroxyacyl-CoA dehydrogenase PaaC; InterPro: IPR011967 This 3-hydroxyacyl-CoA dehydrogenase is involved in the degradation of phenylacetic acid, presumably in steps following the opening of the phenyl ring . The sequences included in this entry are all found in possible operons with other related genes such as paaA, paaB, paaD, paaE, paaF and paaN . Some genomes contain these other genes without an apparent paaC in the same operon - possibly in these cases a different dehydrogenase involved in fatty acid degradation may fill in the needed activity. .
Probab=20.58 E-value=32 Score=15.29 Aligned_cols=67 Identities=25% Similarity=0.413 Sum_probs=41.3
Q ss_pred CCCCCCCCCCHHH-------------HHHHHCCCEEEEEECCCCCCCCC---CCCCCCC--CCCCCEEEECCCCCHHHHH
Q ss_conf 6322446763055-------------55430363122541057647454---4213781--0020057861786689998
Q gi|254780317|r 177 HKLLRTHTSPVQI-------------RVMESQDLPIKVIVPGKTYRRDS---DSTHSPM--FHQIEGLVVSDSATIANLR 238 (366)
Q Consensus 177 ~~lLRthTS~vQi-------------R~m~~~~pP~~~~~~GrvyR~d~---D~tH~~~--FhQ~egl~v~~~i~~~~lk 238 (366)
+.=-|||.||.-| |.|+.+.. .+=-=|. |+.=.+| |-=+| .|++||||+==+
T Consensus 178 K~PVh~~STPGFIVNRVARPyYaEalR~L~E~~A--------~pa~lDA~LRdg~GF~MGpfELtD--LIG~DVNfAVTc 247 (508)
T TIGR02279 178 KQPVHARSTPGFIVNRVARPYYAEALRVLEEQVA--------EPAVLDALLRDGAGFAMGPFELTD--LIGHDVNFAVTC 247 (508)
T ss_pred CCCCCCCCCCCCEECCCCCCHHHHHHHHHHCCCC--------CHHHHHHHHHHCCCCCCCHHHHHH--HCCCCCCHHHHH
T ss_conf 8563234698823426567317899987302576--------846898997505888874466755--204552300001
Q ss_pred HHHHHHHHHHCCCCCCEEEEEEC
Q ss_conf 89999999970888662645423
Q gi|254780317|r 239 WVLESFCKSFFEVSSLQMRFRPS 261 (366)
Q Consensus 239 ~~l~~~~~~~fg~~~~~~r~rp~ 261 (366)
.+.+.| |+ +-||.||
T Consensus 248 SVF~Af----~~----drRF~PS 262 (508)
T TIGR02279 248 SVFDAF----YQ----DRRFLPS 262 (508)
T ss_pred HHHHHH----HH----CCCCCCC
T ss_conf 023201----00----3478986
No 214
>KOG3878 consensus
Probab=20.49 E-value=26 Score=15.95 Aligned_cols=33 Identities=18% Similarity=0.215 Sum_probs=17.6
Q ss_pred CCCCCCCCH--------HHHHHHHCCCEEEEEECCCCCCCC
Q ss_conf 224467630--------555543036312254105764745
Q gi|254780317|r 179 LLRTHTSPV--------QIRVMESQDLPIKVIVPGKTYRRD 211 (366)
Q Consensus 179 lLRthTS~v--------QiR~m~~~~pP~~~~~~GrvyR~d 211 (366)
.-|+|+-.+ |-.+.++..-..-+|||-..+-|-
T Consensus 266 qa~~~dds~e~~le~v~~eeagE~~p~s~p~I~pas~WtRp 306 (469)
T KOG3878 266 QAEQQDDSVEQTLEGVGQEEAGEEEPDSYPMICPASIWTRP 306 (469)
T ss_pred HHHCCCCCHHHHCCCCCHHHHCCCCCCCCCEECCHHHCCCC
T ss_conf 66405772244225523555410377546502615533743
No 215
>TIGR01622 SF-CC1 splicing factor, CC1-like family; InterPro: IPR006509 These sequences represent a subfamily of RNA splicing factors including the Pad-1 protein (Neurospora crassa), CAPER (mouse) and CC1.3 (human). All are characterised by an N-terminal arginine-rich, low complexity domain followed by three (or in the case of 4 human paralogs, two) RNA recognition domains. These splicing factors are closely related to the U2AF splicing factor family (IPR006529 from INTERPRO). ; GO: 0003723 RNA binding, 0006397 mRNA processing, 0005634 nucleus.
Probab=20.38 E-value=60 Score=13.29 Aligned_cols=33 Identities=24% Similarity=0.416 Sum_probs=24.8
Q ss_pred CCC--CCCCCCCCCCCC-HH-HHHHHHHHHHHHHCCC
Q ss_conf 001--123212267423-89-9999999999987398
Q gi|254780317|r 102 SLP--VFSSPCHRGRIH-PV-TQVIDEVTCIFMDMGF 134 (366)
Q Consensus 102 TLP--~~~~~~~~G~~H-PI-tqvi~eI~~IF~~lGF 134 (366)
+.| +.....+.|++| || +.+-+++++||--.|=
T Consensus 225 ~~p~S~~~~kLYvG~LhGPlfnitE~~L~~iFepFG~ 261 (531)
T TIGR01622 225 DIPNSIADLKLYVGNLHGPLFNITEQELRQIFEPFGE 261 (531)
T ss_pred CCCCCCCCCCCEECCHHHCHHCCCHHHHHHHHHCCCC
T ss_conf 7787645532111221100000357887424210486
No 216
>TIGR03545 conserved hypothetical protein TIGR03545. This model represents a relatively rare but broadly distributed uncharacterized protein family, distributed in 1-2 percent of bacterial genomes, all of which have outer membranes. In many of these genomes, it is part of a two-gene pair.
Probab=20.35 E-value=60 Score=13.29 Aligned_cols=84 Identities=12% Similarity=0.133 Sum_probs=42.0
Q ss_pred HHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHH--CCCC--HHHHHHHHH---HCCCCHHHHHHHHHHHHHHHHHHHH
Q ss_conf 68999999999999999985069989999999998--0864--068999876---1589988999999999999999999
Q gi|254780317|r 4 CNVFEDEVERIRSSLYNSIASVTDMDSLNAIRVAT--LGRK--GSISSLLKD---LKNLDSQQVSARGAILNQLKVDISG 76 (366)
Q Consensus 4 ~n~m~eeI~~L~~e~~~~I~~a~~~~eLe~lrv~~--LGKK--G~Lt~llK~---Lk~Ls~EeKk~~Gk~iNelK~~Ie~ 76 (366)
.+.++..+++..+.+.+..++..+..+|++.+.+. |.++ .-+..+.+. +.++- .+-++--+++..+|++++.
T Consensus 166 ~e~~~~~~k~~~~~w~~~~~~Lp~~~~l~~y~~rl~~i~~~~~~~~~~l~~~k~~~d~lk-~e~~adk~~i~~~k~~l~~ 244 (554)
T TIGR03545 166 AEEIERSLKAMQQKWKKRKDSLPQKQDLEEYQKRLEAIKEADIKNPLELQKAKEEFDKLK-KEGKADKQQIISAKNDLQN 244 (554)
T ss_pred HHHHHHHHHHHHHHHHHHHHHCCCHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHHH
T ss_conf 999999999999999999985765567999999999987436899999999999999999-9999999999999999998
Q ss_pred HHHHHHHHHHHH
Q ss_conf 999999999856
Q gi|254780317|r 77 KISARKDFIRNQ 88 (366)
Q Consensus 77 ~i~~kk~~L~~~ 88 (366)
+.+..+..+...
T Consensus 245 ~~~~l~~~~~~l 256 (554)
T TIGR03545 245 DLKQLKAQLAEL 256 (554)
T ss_pred HHHHHHHHHHHH
T ss_conf 599999999999
No 217
>PRK11408 hypothetical protein; Provisional
Probab=20.17 E-value=53 Score=13.72 Aligned_cols=19 Identities=32% Similarity=0.476 Sum_probs=9.8
Q ss_pred CCCCCCC---CCCCCEEEECCC
Q ss_conf 4213781---002005786178
Q gi|254780317|r 213 DSTHSPM---FHQIEGLVVSDS 231 (366)
Q Consensus 213 D~tH~~~---FhQ~egl~v~~~ 231 (366)
-.|.||| -+-..|++||.+
T Consensus 48 VtTrS~lGAivy~tGGiLID~G 69 (219)
T PRK11408 48 VSTRSPMGAIVYETGGILIDYG 69 (219)
T ss_pred CCCCCCCEEEEECCCCEEEECC
T ss_conf 4445754035651585898788
Done!