Query 008040
Match_columns 580
No_of_seqs 309 out of 2180
Neff 6.8
Searched_HMMs 46136
Date Thu Mar 28 18:41:13 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/008040.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/008040hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG1190 LysU Lysyl-tRNA synthe 100.0 4E-142 9E-147 1125.9 43.3 496 56-580 7-502 (502)
2 KOG1885 Lysyl-tRNA synthetase 100.0 5E-134 1E-138 1040.4 32.5 521 29-580 23-558 (560)
3 PLN02502 lysyl-tRNA synthetase 100.0 3E-131 7E-136 1085.0 54.3 494 55-580 54-553 (553)
4 TIGR00499 lysS_bact lysyl-tRNA 100.0 2E-129 3E-134 1066.7 54.9 492 58-579 1-495 (496)
5 PRK12445 lysyl-tRNA synthetase 100.0 3E-129 7E-134 1064.0 55.5 492 56-580 12-505 (505)
6 PRK00484 lysS lysyl-tRNA synth 100.0 6E-127 1E-131 1046.3 56.1 489 59-580 3-491 (491)
7 PTZ00417 lysine-tRNA ligase; P 100.0 2E-125 5E-130 1042.0 55.1 493 55-579 78-584 (585)
8 PRK02983 lysS lysyl-tRNA synth 100.0 3E-120 7E-125 1064.3 54.3 483 56-580 607-1094(1094)
9 PTZ00385 lysyl-tRNA synthetase 100.0 6E-119 1E-123 992.8 52.4 466 83-579 81-565 (659)
10 TIGR00459 aspS_bact aspartyl-t 100.0 8E-103 2E-107 862.3 43.8 437 87-577 2-554 (583)
11 TIGR00458 aspS_arch aspartyl-t 100.0 2.9E-99 6E-104 817.0 41.7 405 111-579 12-425 (428)
12 PRK05159 aspC aspartyl-tRNA sy 100.0 5.4E-99 1E-103 817.9 42.3 418 87-578 3-433 (437)
13 COG0173 AspS Aspartyl-tRNA syn 100.0 1.2E-97 3E-102 790.5 36.8 437 87-577 2-557 (585)
14 PTZ00401 aspartyl-tRNA synthet 100.0 5E-95 1.1E-99 797.8 38.4 410 110-578 77-546 (550)
15 PLN02850 aspartate-tRNA ligase 100.0 1.3E-94 2.8E-99 794.3 39.0 408 110-579 80-527 (530)
16 TIGR00457 asnS asparaginyl-tRN 100.0 5.2E-93 1.1E-97 772.1 37.7 407 110-579 15-450 (453)
17 PRK03932 asnC asparaginyl-tRNA 100.0 1.1E-92 2.5E-97 770.1 39.2 404 110-579 15-447 (450)
18 PLN02903 aminoacyl-tRNA ligase 100.0 4E-92 8.7E-97 779.8 43.4 440 85-577 57-622 (652)
19 COG0017 AsnS Aspartyl/asparagi 100.0 3.5E-92 7.5E-97 743.2 37.1 403 112-579 17-432 (435)
20 PRK00476 aspS aspartyl-tRNA sy 100.0 2.1E-91 4.5E-96 777.1 44.4 437 86-577 3-559 (588)
21 PRK12820 bifunctional aspartyl 100.0 3.3E-91 7.1E-96 779.5 42.3 441 86-578 4-576 (706)
22 PLN02603 asparaginyl-tRNA synt 100.0 4.4E-89 9.5E-94 750.9 41.1 428 85-579 86-562 (565)
23 PTZ00425 asparagine-tRNA ligas 100.0 7.8E-88 1.7E-92 739.4 41.4 404 110-579 80-583 (586)
24 PLN02221 asparaginyl-tRNA synt 100.0 4.1E-87 8.9E-92 735.1 41.9 408 109-579 48-569 (572)
25 PLN02532 asparagine-tRNA synth 100.0 1.7E-86 3.7E-91 731.8 35.5 390 123-579 129-630 (633)
26 cd00775 LysRS_core Lys_tRNA sy 100.0 6.3E-83 1.4E-87 668.9 36.4 327 223-578 1-329 (329)
27 KOG2411 Aspartyl-tRNA syntheta 100.0 3.1E-82 6.6E-87 658.4 35.7 439 86-577 33-598 (628)
28 PF00152 tRNA-synt_2: tRNA syn 100.0 1.3E-79 2.9E-84 647.1 24.5 328 208-577 1-334 (335)
29 TIGR00462 genX lysyl-tRNA synt 100.0 7.5E-79 1.6E-83 631.7 29.5 298 230-573 1-304 (304)
30 KOG0556 Aspartyl-tRNA syntheta 100.0 7.4E-78 1.6E-82 613.3 26.4 407 111-578 82-529 (533)
31 cd00776 AsxRS_core Asx tRNA sy 100.0 3.4E-77 7.3E-82 624.2 27.7 309 208-578 3-322 (322)
32 PRK06462 asparagine synthetase 100.0 1E-74 2.2E-79 607.9 26.9 310 207-579 8-332 (335)
33 KOG0554 Asparaginyl-tRNA synth 100.0 6.3E-73 1.4E-77 578.0 27.0 396 110-579 19-443 (446)
34 PRK09350 poxB regulator PoxA; 100.0 3.1E-72 6.6E-77 582.7 31.1 298 227-570 2-306 (306)
35 cd00669 Asp_Lys_Asn_RS_core As 100.0 8.7E-71 1.9E-75 561.6 27.3 268 230-578 1-269 (269)
36 KOG0555 Asparaginyl-tRNA synth 100.0 2.7E-68 5.9E-73 541.2 25.3 443 61-578 84-541 (545)
37 COG2269 Truncated, possibly in 100.0 4.4E-67 9.6E-72 516.6 24.9 302 227-577 13-321 (322)
38 cd00777 AspRS_core Asp tRNA sy 100.0 1.8E-66 3.9E-71 532.7 24.4 272 230-576 1-278 (280)
39 cd04322 LysRS_N LysRS_N: N-ter 99.9 1E-24 2.2E-29 193.3 13.9 108 113-220 1-108 (108)
40 cd04317 EcAspRS_like_N EcAspRS 99.9 4.1E-22 8.9E-27 183.6 12.6 120 88-222 2-132 (135)
41 cd04316 ND_PkAspRS_like_N ND_P 99.8 1.4E-18 3E-23 154.1 14.4 92 111-203 12-105 (108)
42 cd04319 PhAsnRS_like_N PhAsnRS 99.8 1.1E-18 2.4E-23 153.4 13.5 100 114-218 2-103 (103)
43 cd04320 AspRS_cyto_N AspRS_cyt 99.8 1.3E-17 2.7E-22 146.3 13.1 89 113-202 1-99 (102)
44 cd04100 Asp_Lys_Asn_RS_N Asp_L 99.6 1.3E-15 2.8E-20 129.1 11.4 79 114-194 2-85 (85)
45 cd04321 ScAspRS_mt_like_N ScAs 99.6 1.5E-15 3.3E-20 129.2 11.8 77 114-194 2-86 (86)
46 cd04323 AsnRS_cyto_like_N AsnR 99.6 5.5E-15 1.2E-19 125.1 11.9 79 113-194 1-84 (84)
47 PRK09537 pylS pyrolysyl-tRNA s 99.6 6.5E-15 1.4E-19 157.3 15.0 133 207-344 180-330 (417)
48 cd04318 EcAsnRS_like_N EcAsnRS 99.6 6.9E-15 1.5E-19 123.8 11.6 76 114-193 2-81 (82)
49 cd00768 class_II_aaRS-like_cor 99.5 9.9E-14 2.2E-18 135.2 11.8 100 233-332 2-111 (211)
50 TIGR02367 PylS pyrrolysyl-tRNA 99.5 2.9E-13 6.2E-18 144.5 13.8 107 231-338 240-360 (453)
51 cd00645 AsnA Asparagine synthe 99.4 3.9E-11 8.5E-16 121.3 19.9 265 237-572 4-298 (309)
52 PF01409 tRNA-synt_2d: tRNA sy 99.4 1.1E-11 2.3E-16 125.5 14.9 115 234-348 20-154 (247)
53 PTZ00213 asparagine synthetase 99.3 9.9E-11 2.1E-15 119.7 20.9 285 229-572 7-334 (348)
54 PRK00488 pheS phenylalanyl-tRN 99.3 3.3E-11 7.1E-16 126.0 16.2 113 234-348 111-237 (339)
55 PRK05425 asparagine synthetase 99.3 6E-10 1.3E-14 113.8 22.0 266 235-572 13-308 (327)
56 TIGR00669 asnA aspartate--ammo 99.2 1.1E-09 2.4E-14 111.7 20.8 271 230-572 5-315 (330)
57 PLN02853 Probable phenylalanyl 99.2 2.8E-10 6.1E-15 123.7 16.8 47 299-345 343-391 (492)
58 PTZ00326 phenylalanyl-tRNA syn 99.2 2.9E-10 6.2E-15 124.2 16.6 34 299-332 358-391 (494)
59 PF01336 tRNA_anti-codon: OB-f 99.1 8.3E-10 1.8E-14 90.2 12.3 74 114-192 1-75 (75)
60 COG0016 PheS Phenylalanyl-tRNA 99.1 6.3E-10 1.4E-14 115.8 14.0 112 234-347 114-243 (335)
61 TIGR00468 pheS phenylalanyl-tR 99.0 4.9E-09 1.1E-13 109.0 13.7 111 234-344 75-198 (294)
62 PRK04172 pheS phenylalanyl-tRN 98.9 3.5E-08 7.5E-13 109.6 17.9 115 230-344 232-398 (489)
63 PLN02788 phenylalanine-tRNA sy 98.9 6.6E-08 1.4E-12 103.6 16.6 95 234-331 71-180 (402)
64 cd00496 PheRS_alpha_core Pheny 98.7 1.1E-07 2.3E-12 94.8 11.6 108 235-347 5-131 (218)
65 PF00587 tRNA-synt_2b: tRNA sy 98.6 1.3E-07 2.8E-12 90.6 9.2 116 232-349 1-136 (173)
66 cd00670 Gly_His_Pro_Ser_Thr_tR 98.5 8.4E-07 1.8E-11 88.6 10.1 100 231-332 3-125 (235)
67 cd00773 HisRS-like_core Class 98.4 1.5E-06 3.2E-11 88.8 11.8 101 231-332 3-116 (261)
68 TIGR00470 sepS O-phosphoseryl- 98.4 1.8E-06 3.9E-11 93.0 12.2 49 299-347 208-259 (533)
69 TIGR00469 pheS_mito phenylalan 98.4 3.2E-06 6.9E-11 91.7 13.9 94 235-331 46-166 (460)
70 cd00772 ProRS_core Prolyl-tRNA 98.4 2.8E-06 6.1E-11 87.1 12.1 119 229-347 31-171 (264)
71 cd00774 GlyRS-like_core Glycyl 98.3 6.9E-07 1.5E-11 91.1 5.3 96 229-330 31-142 (254)
72 cd00778 ProRS_core_arch_euk Pr 98.3 3E-06 6.4E-11 86.8 9.2 119 229-347 31-171 (261)
73 cd00779 ProRS_core_prok Prolyl 98.2 6.7E-06 1.5E-10 83.9 9.9 117 229-346 30-164 (255)
74 TIGR00442 hisS histidyl-tRNA s 98.2 7.1E-06 1.5E-10 88.8 10.6 104 228-332 12-131 (397)
75 PRK09194 prolyl-tRNA synthetas 98.1 2E-05 4.2E-10 89.4 12.7 121 229-350 46-187 (565)
76 TIGR00409 proS_fam_II prolyl-t 98.1 2.5E-05 5.4E-10 88.4 12.4 122 229-351 46-188 (568)
77 PRK00037 hisS histidyl-tRNA sy 98.1 1.9E-05 4E-10 86.0 10.6 102 228-332 16-132 (412)
78 PLN02908 threonyl-tRNA synthet 98.0 3.2E-05 6.9E-10 89.6 12.0 119 228-349 319-456 (686)
79 PRK08661 prolyl-tRNA synthetas 98.0 2.4E-05 5.3E-10 86.8 10.3 118 229-347 43-182 (477)
80 cd00770 SerRS_core Seryl-tRNA 98.0 2.5E-05 5.3E-10 81.6 9.7 116 228-348 50-187 (297)
81 TIGR00414 serS seryl-tRNA synt 98.0 6.1E-05 1.3E-09 82.2 12.6 117 228-349 171-309 (418)
82 PRK14799 thrS threonyl-tRNA sy 98.0 3.7E-05 7.9E-10 86.4 11.1 119 228-349 166-303 (545)
83 cd00771 ThrRS_core Threonyl-tR 98.0 5.9E-05 1.3E-09 78.8 11.7 115 229-346 29-162 (298)
84 PRK12305 thrS threonyl-tRNA sy 97.9 6.3E-05 1.4E-09 85.5 12.0 120 228-349 204-342 (575)
85 PRK12444 threonyl-tRNA synthet 97.9 5.5E-05 1.2E-09 87.0 11.1 116 230-349 274-409 (639)
86 TIGR00408 proS_fam_I prolyl-tR 97.9 3.4E-05 7.5E-10 85.5 9.1 118 230-347 38-177 (472)
87 PRK05431 seryl-tRNA synthetase 97.9 7E-05 1.5E-09 81.9 11.1 117 228-349 168-307 (425)
88 PRK12325 prolyl-tRNA synthetas 97.9 7.3E-05 1.6E-09 82.2 11.2 118 229-347 46-181 (439)
89 TIGR00443 hisZ_biosyn_reg ATP 97.9 7.9E-05 1.7E-09 78.4 10.7 102 228-332 6-121 (314)
90 TIGR00418 thrS threonyl-tRNA s 97.9 0.00011 2.4E-09 83.2 12.6 118 228-347 198-334 (563)
91 CHL00201 syh histidine-tRNA sy 97.8 0.00011 2.3E-09 80.7 11.7 103 229-332 17-136 (430)
92 PF13393 tRNA-synt_His: Histid 97.8 0.00012 2.6E-09 76.5 11.5 117 228-345 8-139 (311)
93 PRK00413 thrS threonyl-tRNA sy 97.8 0.00014 3.1E-09 83.6 12.8 117 228-346 268-403 (638)
94 COG2502 AsnA Asparagine synthe 97.8 0.0012 2.6E-08 65.9 17.1 116 233-348 8-141 (330)
95 PLN02972 Histidyl-tRNA synthet 97.8 0.00013 2.9E-09 83.9 12.0 118 227-345 338-469 (763)
96 PRK12292 hisZ ATP phosphoribos 97.8 0.00011 2.3E-09 79.7 10.4 117 228-345 15-149 (391)
97 PRK12293 hisZ ATP phosphoribos 97.8 0.00017 3.6E-09 74.8 11.2 112 228-346 17-138 (281)
98 PLN02530 histidine-tRNA ligase 97.8 0.00013 2.7E-09 81.4 11.0 104 228-332 82-198 (487)
99 COG0124 HisS Histidyl-tRNA syn 97.7 0.00016 3.5E-09 78.7 10.8 117 229-345 17-152 (429)
100 PRK03991 threonyl-tRNA synthet 97.7 0.00022 4.7E-09 81.4 12.1 121 228-350 225-365 (613)
101 cd04489 ExoVII_LU_OBF ExoVII_L 97.7 0.00058 1.3E-08 56.3 11.4 72 114-190 2-75 (78)
102 PRK12420 histidyl-tRNA synthet 97.7 0.00025 5.5E-09 77.6 11.1 118 228-346 16-151 (423)
103 KOG2784 Phenylalanyl-tRNA synt 97.6 0.0001 2.3E-09 76.6 6.3 48 299-346 334-383 (483)
104 PRK12421 ATP phosphoribosyltra 97.6 0.00046 9.9E-09 74.9 11.5 117 228-347 19-154 (392)
105 PLN02837 threonine-tRNA ligase 97.5 0.00053 1.1E-08 78.5 10.9 120 228-349 245-383 (614)
106 PRK04173 glycyl-tRNA synthetas 97.4 0.00075 1.6E-08 74.6 10.2 49 300-349 188-239 (456)
107 PRK12295 hisZ ATP phosphoribos 97.4 0.00087 1.9E-08 72.2 10.0 110 234-347 8-133 (373)
108 cd04487 RecJ_OBF2_like RecJ_OB 97.2 0.0029 6.2E-08 52.2 9.6 73 114-192 1-73 (73)
109 COG0442 ProS Prolyl-tRNA synth 97.2 0.0011 2.3E-08 73.5 8.8 116 229-345 46-179 (500)
110 PRK12294 hisZ ATP phosphoribos 97.2 0.003 6.5E-08 65.2 11.3 117 227-351 4-129 (272)
111 PLN02678 seryl-tRNA synthetase 97.2 0.0015 3.3E-08 71.7 9.2 119 228-347 172-312 (448)
112 PLN02320 seryl-tRNA synthetase 97.0 0.0026 5.6E-08 70.5 8.8 118 229-349 232-370 (502)
113 cd04485 DnaE_OBF DnaE_OBF: A s 96.8 0.0083 1.8E-07 49.1 8.7 72 116-193 2-78 (84)
114 cd04478 RPA2_DBD_D RPA2_DBD_D: 96.8 0.014 3.1E-07 50.0 10.5 77 114-193 2-78 (95)
115 TIGR00415 serS_MJ seryl-tRNA s 96.8 0.014 2.9E-07 64.7 12.5 120 228-348 221-388 (520)
116 cd03524 RPA2_OBF_family RPA2_O 96.8 0.014 3.1E-07 46.0 9.7 69 115-189 1-73 (75)
117 PF13742 tRNA_anti_2: OB-fold 96.7 0.018 3.8E-07 50.3 10.7 74 112-190 22-98 (99)
118 cd04490 PolII_SU_OBF PolII_SU_ 96.7 0.018 4E-07 48.1 10.1 67 114-189 2-72 (79)
119 cd04483 hOBFC1_like hOBFC1_lik 96.5 0.024 5.2E-07 48.9 10.0 73 116-190 2-90 (92)
120 PRK07373 DNA polymerase III su 96.5 0.018 3.9E-07 63.5 10.8 76 111-192 280-360 (449)
121 PRK00960 seryl-tRNA synthetase 96.4 0.0071 1.5E-07 67.4 7.6 117 228-346 221-386 (517)
122 cd04482 RPA2_OBF_like RPA2_OBF 96.3 0.03 6.4E-07 48.2 9.1 74 115-195 2-77 (91)
123 PRK05672 dnaE2 error-prone DNA 95.9 0.036 7.7E-07 67.2 10.5 78 111-194 953-1033(1046)
124 COG0441 ThrS Threonyl-tRNA syn 95.8 0.013 2.7E-07 66.4 5.7 113 230-351 220-357 (589)
125 COG0172 SerS Seryl-tRNA synthe 95.7 0.1 2.2E-06 56.9 11.8 116 231-347 175-308 (429)
126 cd04492 YhaM_OBF_like YhaM_OBF 95.6 0.19 4.1E-06 41.3 10.9 64 125-195 15-79 (83)
127 PRK06826 dnaE DNA polymerase I 95.6 0.058 1.3E-06 65.9 10.6 79 111-194 991-1074(1151)
128 PF10451 Stn1: Telomere regula 95.6 0.057 1.2E-06 55.2 8.9 76 112-193 67-148 (256)
129 COG0423 GRS1 Glycyl-tRNA synth 95.4 0.026 5.7E-07 62.1 6.1 33 300-333 189-224 (558)
130 PRK07374 dnaE DNA polymerase I 95.3 0.084 1.8E-06 64.5 10.6 77 111-193 1000-1081(1170)
131 PRK06920 dnaE DNA polymerase I 95.3 0.075 1.6E-06 64.6 10.0 78 111-194 943-1025(1107)
132 KOG2324 Prolyl-tRNA synthetase 95.0 0.053 1.2E-06 57.0 6.8 111 230-341 52-181 (457)
133 PRK05673 dnaE DNA polymerase I 95.0 0.098 2.1E-06 64.0 10.1 79 111-195 977-1060(1135)
134 PRK09616 pheT phenylalanyl-tRN 94.9 0.16 3.5E-06 57.6 11.0 111 234-346 362-488 (552)
135 COG3705 HisZ ATP phosphoribosy 94.6 0.1 2.2E-06 56.3 7.7 102 229-331 16-128 (390)
136 PRK07279 dnaE DNA polymerase I 94.5 0.17 3.6E-06 61.1 10.1 75 112-192 885-965 (1034)
137 KOG1936 Histidyl-tRNA syntheta 94.3 0.058 1.2E-06 58.0 4.9 111 228-341 72-194 (518)
138 PF04076 BOF: Bacterial OB fol 93.8 0.72 1.6E-05 40.7 10.2 68 112-190 35-102 (103)
139 TIGR00389 glyS_dimeric glycyl- 93.7 0.076 1.6E-06 59.9 4.8 31 230-260 37-68 (551)
140 COG1107 Archaea-specific RecJ- 93.4 0.19 4.1E-06 56.0 7.0 79 109-193 211-289 (715)
141 PRK14894 glycyl-tRNA synthetas 93.2 0.44 9.5E-06 53.0 9.4 101 231-332 41-201 (539)
142 cd04474 RPA1_DBD_A RPA1_DBD_A: 92.7 0.45 9.8E-06 41.7 7.3 59 112-175 10-78 (104)
143 PRK10917 ATP-dependent DNA hel 92.3 1.5 3.3E-05 51.1 13.1 73 111-189 59-134 (681)
144 PRK15491 replication factor A; 92.1 1.2 2.7E-05 48.1 11.1 81 112-197 68-158 (374)
145 cd04488 RecG_wedge_OBF RecG_we 91.5 2.3 4.9E-05 33.7 9.6 67 116-189 2-72 (75)
146 TIGR00156 conserved hypothetic 91.5 1.7 3.7E-05 39.7 9.6 68 112-190 58-125 (126)
147 COG3111 Periplasmic protein wi 91.3 1.4 3E-05 39.8 8.6 70 112-192 58-127 (128)
148 PRK00286 xseA exodeoxyribonucl 91.2 1.9 4E-05 47.6 11.6 77 112-193 24-102 (438)
149 PRK06461 single-stranded DNA-b 90.1 5.2 0.00011 36.6 11.6 75 112-195 15-101 (129)
150 cd00769 PheRS_beta_core Phenyl 89.9 1 2.2E-05 44.1 7.3 108 235-346 4-136 (198)
151 TIGR00237 xseA exodeoxyribonuc 89.8 2.6 5.6E-05 46.5 11.1 76 112-192 18-95 (432)
152 PF12869 tRNA_anti-like: tRNA_ 89.8 1.2 2.6E-05 41.0 7.3 91 88-182 44-138 (144)
153 PRK10053 hypothetical protein; 89.7 2.3 5E-05 39.1 8.8 68 112-190 62-129 (130)
154 COG5235 RFA2 Single-stranded D 89.1 2.6 5.6E-05 41.4 9.1 77 112-192 67-143 (258)
155 PRK07217 replication factor A; 88.9 5 0.00011 42.1 11.7 82 111-200 82-166 (311)
156 COG1570 XseA Exonuclease VII, 88.8 2.5 5.3E-05 46.4 9.7 75 112-191 24-100 (440)
157 cd04484 polC_OBF polC_OBF: A s 88.2 8.5 0.00019 32.2 10.8 72 114-190 2-80 (82)
158 PF15072 DUF4539: Domain of un 88.1 2.9 6.3E-05 35.6 7.8 57 114-175 5-61 (86)
159 cd04491 SoSSB_OBF SoSSB_OBF: A 87.8 3.8 8.3E-05 34.0 8.4 55 127-190 22-77 (82)
160 PRK14699 replication factor A; 87.7 4.2 9.1E-05 45.5 11.0 80 112-197 68-158 (484)
161 COG4085 Predicted RNA-binding 85.8 2.9 6.2E-05 40.7 7.3 75 111-188 51-129 (204)
162 cd04479 RPA3 RPA3: A subfamily 85.1 9.3 0.0002 33.4 9.7 64 111-193 15-79 (101)
163 PRK13480 3'-5' exoribonuclease 84.7 9.2 0.0002 40.4 11.2 77 112-195 12-93 (314)
164 KOG2783 Phenylalanyl-tRNA synt 84.1 0.56 1.2E-05 50.0 1.8 94 239-332 80-185 (436)
165 PRK07218 replication factor A; 83.8 17 0.00036 40.1 13.1 67 112-189 69-143 (423)
166 PRK07459 single-stranded DNA-b 83.7 19 0.00041 32.6 11.3 79 112-195 4-104 (121)
167 TIGR00471 pheT_arch phenylalan 83.5 6.2 0.00013 44.9 10.0 115 233-347 364-491 (551)
168 KOG1035 eIF-2alpha kinase GCN2 83.3 4.5 9.7E-05 49.3 8.9 116 229-349 931-1057(1351)
169 PRK12366 replication factor A; 82.7 5.2 0.00011 46.4 9.1 76 111-192 291-380 (637)
170 cd05707 S1_Rrp5_repeat_sc11 S1 82.6 7.1 0.00015 30.9 7.3 52 115-171 3-54 (68)
171 PRK07211 replication factor A; 82.4 11 0.00025 42.0 11.1 73 112-190 64-147 (485)
172 KOG3108 Single-stranded DNA-bi 82.2 7.6 0.00016 40.0 9.0 77 112-192 69-145 (265)
173 COG2024 Phenylalanyl-tRNA synt 81.5 0.89 1.9E-05 48.4 2.1 39 537-576 314-353 (536)
174 TIGR00617 rpa1 replication fac 81.4 6 0.00013 45.7 8.9 80 112-196 191-286 (608)
175 PRK07135 dnaE DNA polymerase I 80.4 5.3 0.00011 48.4 8.3 61 111-177 897-961 (973)
176 PF00436 SSB: Single-strand bi 80.2 18 0.00038 30.9 9.6 48 140-192 49-104 (104)
177 PRK04036 DNA polymerase II sma 79.7 18 0.00039 40.8 11.9 107 60-190 120-227 (504)
178 PRK07275 single-stranded DNA-b 79.6 22 0.00048 33.9 10.7 78 113-195 4-106 (162)
179 PRK08486 single-stranded DNA-b 79.4 24 0.00053 34.3 11.1 37 160-196 65-109 (182)
180 PF08661 Rep_fac-A_3: Replicat 79.3 9.7 0.00021 33.6 7.7 57 110-178 17-73 (109)
181 cd04452 S1_IF2_alpha S1_IF2_al 79.0 12 0.00025 30.1 7.6 54 115-171 6-59 (76)
182 PRK12366 replication factor A; 78.7 10 0.00022 44.0 9.7 77 111-195 184-270 (637)
183 PRK06863 single-stranded DNA-b 78.5 27 0.00058 33.6 10.9 79 112-195 5-111 (168)
184 KOG2509 Seryl-tRNA synthetase 78.2 9.5 0.00021 41.6 8.5 115 228-347 183-321 (455)
185 PRK07080 hypothetical protein; 78.1 2.9 6.3E-05 43.9 4.5 48 300-348 153-202 (317)
186 TIGR00643 recG ATP-dependent D 77.6 16 0.00035 42.2 11.0 60 111-177 32-96 (630)
187 cd05698 S1_Rrp5_repeat_hs6_sc5 77.5 14 0.0003 29.3 7.5 52 115-171 3-54 (70)
188 PRK07252 hypothetical protein; 76.8 49 0.0011 29.9 11.6 69 115-188 6-74 (120)
189 COG1200 RecG RecG-like helicas 76.4 26 0.00057 40.5 11.8 76 111-193 60-139 (677)
190 cd05691 S1_RPS1_repeat_ec6 S1_ 75.3 17 0.00037 28.8 7.5 52 115-171 3-54 (73)
191 PF03100 CcmE: CcmE; InterPro 74.5 33 0.00072 31.4 10.1 71 110-196 49-124 (131)
192 PRK06751 single-stranded DNA-b 74.0 37 0.00079 32.8 10.6 78 113-195 4-106 (173)
193 PRK08402 replication factor A; 73.6 21 0.00045 38.5 9.7 76 112-192 73-159 (355)
194 PRK06293 single-stranded DNA-b 73.5 40 0.00087 32.2 10.6 38 158-195 57-102 (161)
195 cd05694 S1_Rrp5_repeat_hs2_sc2 73.1 29 0.00062 28.4 8.4 47 115-171 7-53 (74)
196 PRK07218 replication factor A; 73.0 23 0.0005 39.0 10.1 72 112-193 173-252 (423)
197 PRK15491 replication factor A; 72.8 17 0.00037 39.4 9.0 79 112-196 177-267 (374)
198 cd04472 S1_PNPase S1_PNPase: P 72.1 17 0.00037 28.2 6.7 52 115-171 3-54 (68)
199 cd05686 S1_pNO40 S1_pNO40: pNO 72.1 24 0.00051 28.5 7.7 53 115-171 6-58 (73)
200 PRK14699 replication factor A; 70.9 36 0.00078 38.2 11.1 79 112-196 177-267 (484)
201 PRK07211 replication factor A; 70.7 22 0.00047 39.9 9.3 79 112-196 172-260 (485)
202 PRK05807 hypothetical protein; 70.6 23 0.00049 32.8 8.0 67 115-189 8-75 (136)
203 cd05706 S1_Rrp5_repeat_sc10 S1 69.9 35 0.00075 27.2 8.2 52 115-171 6-57 (73)
204 PLN02734 glycyl-tRNA synthetas 69.8 1.4 3.1E-05 50.9 -0.1 34 300-334 277-313 (684)
205 PRK08582 hypothetical protein; 69.5 25 0.00054 32.6 8.1 69 115-189 8-76 (139)
206 TIGR00621 ssb single stranded 69.4 66 0.0014 30.6 11.2 79 112-195 5-110 (164)
207 COG1571 Predicted DNA-binding 69.3 19 0.00041 39.4 8.2 75 112-194 267-343 (421)
208 COG3390 Uncharacterized protei 69.1 22 0.00048 34.6 7.7 78 112-192 46-130 (196)
209 PRK06386 replication factor A; 69.0 35 0.00076 36.8 10.1 72 112-195 118-197 (358)
210 cd04461 S1_Rrp5_repeat_hs8_sc7 68.8 27 0.0006 28.8 7.6 52 115-171 17-68 (83)
211 cd05708 S1_Rrp5_repeat_sc12 S1 68.3 30 0.00064 27.6 7.5 53 115-171 5-57 (77)
212 PRK08763 single-stranded DNA-b 67.3 85 0.0018 30.1 11.4 79 112-195 6-111 (164)
213 cd05685 S1_Tex S1_Tex: The C-t 66.0 25 0.00055 27.0 6.5 52 115-171 3-54 (68)
214 PRK13254 cytochrome c-type bio 65.1 66 0.0014 30.3 10.0 70 111-196 51-124 (148)
215 PLN02265 probable phenylalanyl 64.7 22 0.00048 40.9 8.2 113 233-345 399-526 (597)
216 PF15490 Ten1_2: Telomere-capp 63.9 1.1E+02 0.0024 27.7 10.8 76 110-192 20-96 (118)
217 PRK13165 cytochrome c-type bio 63.4 36 0.00078 32.5 7.9 71 110-196 56-131 (160)
218 PRK02801 primosomal replicatio 63.1 38 0.00082 29.6 7.6 48 141-193 50-101 (101)
219 cd05697 S1_Rrp5_repeat_hs5 S1_ 62.5 43 0.00093 26.4 7.3 52 115-171 3-54 (69)
220 PRK08059 general stress protei 62.0 40 0.00088 30.4 7.8 70 115-189 10-79 (123)
221 PF03590 AsnA: Aspartate-ammon 60.5 1.6E+02 0.0035 30.0 12.2 119 234-352 7-143 (244)
222 cd05684 S1_DHX8_helicase S1_DH 59.7 54 0.0012 26.6 7.6 70 115-188 3-73 (79)
223 cd05692 S1_RPS1_repeat_hs4 S1_ 59.7 42 0.00091 25.8 6.7 52 115-171 3-54 (69)
224 PRK13732 single-stranded DNA-b 58.6 1.3E+02 0.0027 29.2 10.9 80 112-196 7-116 (175)
225 PRK13150 cytochrome c-type bio 57.9 1.1E+02 0.0023 29.3 10.0 71 110-196 56-131 (159)
226 PRK03987 translation initiatio 57.6 37 0.00081 34.9 7.6 71 115-188 11-81 (262)
227 cd05687 S1_RPS1_repeat_ec1_hs1 57.2 52 0.0011 25.9 7.0 52 115-171 3-54 (70)
228 COG0124 HisS Histidyl-tRNA syn 56.9 6 0.00013 43.6 1.7 21 545-565 307-327 (429)
229 cd04486 YhcR_OBF_like YhcR_OBF 56.6 86 0.0019 26.0 8.3 66 115-193 1-76 (78)
230 TIGR00594 polc DNA-directed DN 56.6 19 0.00042 44.1 6.1 35 111-145 981-1021(1022)
231 cd05703 S1_Rrp5_repeat_hs12_sc 55.3 64 0.0014 26.1 7.2 52 115-171 3-56 (73)
232 PF03459 TOBE: TOBE domain; I 54.1 81 0.0018 24.4 7.5 50 115-171 6-56 (64)
233 cd04480 RPA1_DBD_A_like RPA1_D 52.7 90 0.0019 25.9 7.9 50 126-180 17-67 (86)
234 PRK06752 single-stranded DNA-b 52.3 35 0.00075 30.2 5.6 36 160-195 63-106 (112)
235 PTZ00248 eukaryotic translatio 52.0 44 0.00096 35.4 7.1 71 115-188 20-90 (319)
236 PRK00036 primosomal replicatio 51.8 41 0.00089 29.9 5.8 50 140-195 48-99 (107)
237 PRK06642 single-stranded DNA-b 51.0 2.2E+02 0.0047 26.8 11.0 80 112-195 6-117 (152)
238 PRK06253 O-phosphoseryl-tRNA s 49.2 18 0.0004 40.6 3.9 48 300-347 210-260 (529)
239 cd04496 SSB_OBF SSB_OBF: A sub 48.5 65 0.0014 27.0 6.6 50 138-192 43-100 (100)
240 cd05705 S1_Rrp5_repeat_hs14 S1 48.1 1E+02 0.0022 25.1 7.3 52 115-171 6-60 (74)
241 TIGR01405 polC_Gram_pos DNA po 47.6 1.4E+02 0.003 37.5 11.5 79 112-193 8-92 (1213)
242 COG1098 VacB Predicted RNA bin 47.1 50 0.0011 30.2 5.6 67 115-188 8-75 (129)
243 COG0072 PheT Phenylalanyl-tRNA 46.3 29 0.00062 40.5 5.2 112 232-348 352-488 (650)
244 KOG1637 Threonyl-tRNA syntheta 45.4 24 0.00052 39.0 3.9 111 231-347 193-325 (560)
245 cd00673 AlaRS_core Alanyl-tRNA 45.1 74 0.0016 32.2 7.1 97 234-346 2-109 (232)
246 cd04454 S1_Rrp4_like S1_Rrp4_l 45.0 65 0.0014 26.4 5.8 52 115-171 9-60 (82)
247 PRK00629 pheT phenylalanyl-tRN 44.5 69 0.0015 38.3 8.1 110 234-347 490-622 (791)
248 cd00164 S1_like S1_like: Ribos 44.5 66 0.0014 24.0 5.5 51 116-171 1-51 (65)
249 KOG1894 Uncharacterized conser 44.0 23 0.0005 37.4 3.4 83 228-313 101-201 (412)
250 CHL00192 syfB phenylalanyl-tRN 43.4 72 0.0016 37.6 7.9 109 234-347 401-530 (704)
251 PF13567 DUF4131: Domain of un 43.2 1.3E+02 0.0028 27.2 8.2 57 111-176 75-143 (176)
252 PRK05813 single-stranded DNA-b 42.7 2.8E+02 0.0061 27.8 10.9 78 111-195 8-103 (219)
253 TIGR00638 Mop molybdenum-pteri 42.6 1.6E+02 0.0035 22.9 8.5 50 115-171 8-58 (69)
254 PRK13159 cytochrome c-type bio 42.5 2.2E+02 0.0047 27.1 9.4 69 111-196 51-124 (155)
255 PRK06958 single-stranded DNA-b 42.3 79 0.0017 30.8 6.7 38 158-195 66-111 (182)
256 PF14485 DUF4431: Domain of un 42.1 77 0.0017 24.0 5.2 34 140-180 1-34 (48)
257 PF02091 tRNA-synt_2e: Glycyl- 42.1 18 0.0004 37.0 2.4 29 544-572 149-177 (284)
258 PRK00448 polC DNA polymerase I 42.1 1.7E+02 0.0037 37.5 11.1 79 112-193 237-321 (1437)
259 PRK05813 single-stranded DNA-b 41.9 3.6E+02 0.0079 27.0 11.5 79 112-196 110-211 (219)
260 PF15513 DUF4651: Domain of un 41.1 31 0.00067 27.6 3.0 23 231-253 2-24 (62)
261 cd05690 S1_RPS1_repeat_ec5 S1_ 40.9 88 0.0019 24.3 5.8 52 115-171 3-55 (69)
262 PRK07772 single-stranded DNA-b 40.5 3E+02 0.0065 26.9 10.4 45 140-189 54-106 (186)
263 KOG2298 Glycyl-tRNA synthetase 40.4 5.8 0.00013 43.6 -1.5 31 301-332 212-245 (599)
264 PF04057 Rep-A_N: Replication 39.9 2.4E+02 0.0053 24.5 8.8 62 128-193 38-100 (101)
265 PF12857 TOBE_3: TOBE-like dom 39.7 1.4E+02 0.003 23.1 6.5 49 115-171 6-56 (58)
266 KOG3416 Predicted nucleic acid 39.3 1.1E+02 0.0025 28.0 6.6 51 114-173 23-73 (134)
267 PRK06386 replication factor A; 38.9 2.6E+02 0.0055 30.3 10.5 68 112-189 13-88 (358)
268 cd00496 PheRS_alpha_core Pheny 38.8 23 0.0005 35.1 2.5 29 542-570 181-212 (218)
269 PRK09348 glyQ glycyl-tRNA synt 38.1 22 0.00047 36.3 2.2 31 544-574 154-184 (283)
270 cd00733 GlyRS_alpha_core Class 38.0 22 0.00048 36.2 2.2 29 544-572 150-178 (279)
271 TIGR00472 pheT_bact phenylalan 36.5 1.1E+02 0.0024 36.6 8.2 106 238-347 498-629 (798)
272 cd05688 S1_RPS1_repeat_ec3 S1_ 35.6 1.7E+02 0.0036 22.4 6.6 51 115-171 4-54 (68)
273 PRK12293 hisZ ATP phosphoribos 35.2 23 0.00049 36.8 1.9 17 546-562 264-280 (281)
274 PRK07274 single-stranded DNA-b 33.2 98 0.0021 28.3 5.5 36 158-193 61-103 (131)
275 cd05702 S1_Rrp5_repeat_hs11_sc 33.0 1E+02 0.0022 24.4 5.1 52 115-171 3-56 (70)
276 PRK09521 exosome complex RNA-b 32.3 1.3E+02 0.0028 29.2 6.6 90 115-209 67-170 (189)
277 PF02721 DUF223: Domain of unk 31.9 1.4E+02 0.003 25.4 5.9 60 132-196 2-69 (95)
278 PF03843 Slp: Outer membrane l 31.6 1.8E+02 0.0039 27.6 7.2 76 110-193 33-130 (160)
279 PRK06341 single-stranded DNA-b 31.4 4.8E+02 0.01 25.0 11.4 80 112-195 6-117 (166)
280 TIGR00388 glyQ glycyl-tRNA syn 31.2 31 0.00067 35.4 2.0 29 545-573 152-180 (293)
281 cd00773 HisRS-like_core Class 30.0 48 0.001 33.7 3.2 26 535-561 234-260 (261)
282 PRK07400 30S ribosomal protein 29.6 1.9E+02 0.0042 30.6 7.8 66 115-186 199-264 (318)
283 cd05689 S1_RPS1_repeat_ec4 S1_ 29.3 1.7E+02 0.0037 23.0 5.8 51 115-171 6-58 (72)
284 PRK08182 single-stranded DNA-b 29.2 1.1E+02 0.0023 28.8 5.1 37 159-195 69-113 (148)
285 cd05696 S1_Rrp5_repeat_hs4 S1_ 29.1 3E+02 0.0064 21.9 7.2 49 118-171 7-56 (71)
286 COG0587 DnaE DNA polymerase II 28.9 1.7E+02 0.0037 36.5 8.0 72 113-189 978-1056(1139)
287 CHL00201 syh histidine-tRNA sy 28.1 53 0.0011 36.2 3.4 19 545-563 299-317 (430)
288 PRK06763 F0F1 ATP synthase sub 27.8 92 0.002 30.7 4.5 65 113-192 39-103 (213)
289 PF00575 S1: S1 RNA binding do 27.5 1.7E+02 0.0037 23.1 5.5 64 115-183 7-70 (74)
290 PF00970 FAD_binding_6: Oxidor 27.4 97 0.0021 26.0 4.3 60 110-174 32-94 (99)
291 TIGR00443 hisZ_biosyn_reg ATP 27.3 56 0.0012 34.3 3.3 26 535-562 287-313 (314)
292 PRK07899 rpsA 30S ribosomal pr 27.3 1.9E+02 0.0041 32.6 7.6 69 115-188 296-364 (486)
293 PRK12292 hisZ ATP phosphoribos 27.2 50 0.0011 35.9 2.9 24 535-560 295-319 (391)
294 PRK06253 O-phosphoseryl-tRNA s 26.8 59 0.0013 36.7 3.4 29 542-570 312-341 (529)
295 PRK07899 rpsA 30S ribosomal pr 26.5 2.4E+02 0.0051 31.8 8.1 51 115-171 211-261 (486)
296 cd05693 S1_Rrp5_repeat_hs1_sc1 25.6 1.7E+02 0.0038 25.3 5.5 51 115-171 6-76 (100)
297 PRK12421 ATP phosphoribosyltra 25.4 37 0.00079 37.0 1.5 20 544-563 310-329 (392)
298 TIGR03683 A-tRNA_syn_arch alan 24.8 30 0.00064 41.9 0.7 76 235-325 60-145 (902)
299 PRK09010 single-stranded DNA-b 23.8 2.5E+02 0.0054 27.2 6.7 37 159-195 69-116 (177)
300 TIGR00418 thrS threonyl-tRNA s 23.7 39 0.00084 38.5 1.3 17 547-563 442-458 (563)
301 cd05704 S1_Rrp5_repeat_hs13 S1 23.0 1.2E+02 0.0026 24.3 3.8 51 115-171 6-58 (72)
302 PRK05733 single-stranded DNA-b 22.7 1.8E+02 0.0038 28.1 5.4 78 112-194 6-113 (172)
303 PRK13902 alaS alanyl-tRNA synt 22.2 36 0.00079 41.2 0.8 76 235-325 63-148 (900)
304 COG3689 Predicted membrane pro 21.8 5.6E+02 0.012 26.5 8.9 86 110-198 174-265 (271)
305 PRK07400 30S ribosomal protein 21.0 4E+02 0.0087 28.2 8.2 52 115-171 34-85 (318)
306 cd00673 AlaRS_core Alanyl-tRNA 21.0 59 0.0013 32.9 1.9 20 544-563 211-231 (232)
307 PRK11824 polynucleotide phosph 21.0 2.9E+02 0.0064 32.5 7.8 66 115-186 624-689 (693)
308 COG0752 GlyQ Glycyl-tRNA synth 20.9 62 0.0013 32.9 1.9 28 545-572 156-183 (298)
309 KOG2851 Eukaryotic-type DNA pr 20.7 3.1E+02 0.0067 29.6 7.0 78 276-353 53-155 (412)
310 PRK01584 alanyl-tRNA synthetas 20.6 55 0.0012 37.7 1.7 95 234-344 4-108 (594)
311 PRK13806 rpsA 30S ribosomal pr 20.3 2.8E+02 0.006 31.2 7.2 69 115-188 382-450 (491)
312 PRK00037 hisS histidyl-tRNA sy 20.2 87 0.0019 34.0 3.1 31 544-574 294-325 (412)
313 cd05789 S1_Rrp4 S1_Rrp4: Rrp4 20.2 4.8E+02 0.01 21.2 7.6 52 115-171 9-64 (86)
314 TIGR03591 polynuc_phos polyrib 20.0 1.7E+02 0.0038 34.4 5.7 52 115-171 621-672 (684)
No 1
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.1e-142 Score=1125.90 Aligned_cols=496 Identities=52% Similarity=0.872 Sum_probs=466.8
Q ss_pred CCCHHHHHHHHHHHHHHHHHcCCCCCCCCCccCCCHHHHHHHHhhccCCccCCCCCCEEEEEEEEEeEecCCCeEEEEEe
Q 008040 56 TSDREAVRALRIKKVEELRSKGLEPYAYKWDRTHSANQLQEIYRHLANGEESNSENDHVSVAGRVVARRAFGKLAFLTLR 135 (580)
Q Consensus 56 ~~~~~e~~~~R~~kl~~L~~~g~~pyp~~~~~t~~~~~i~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~gk~~F~~Lr 135 (580)
....+++.+.|++|+++|+++|++|||+.|.++|++.+++++|.+....+..+ ....|+|+|||+++|.+||++|++|.
T Consensus 7 ~~~~~~~~~~R~~kl~~lr~~g~~~yp~~~~~~~~~~~l~~~~~~~~~~el~~-~~~~v~vAGRi~~~R~~GK~~F~~i~ 85 (502)
T COG1190 7 ARDLNDQIAVRREKLAALREQGIDPYPNDFERTHTSADLREKYADKTKEELEA-LNIEVSVAGRIMTIRNMGKASFADLQ 85 (502)
T ss_pred cccCcHHHHHHHHHHHHHHHcCCCCCCCcCcccccHHHHHHHHhccchhhhhh-ccceeEEecceeeecccCceeEEEEe
Confidence 45668999999999999999999999999999999999999998765443321 23359999999999999999999999
Q ss_pred eCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEEEccccCCCCCCCCCCCCChhhcccc
Q 008040 136 DDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFVILTKSLLPLPDKYHGLTDVDKRYRQ 215 (580)
Q Consensus 136 D~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~vls~a~~plP~~~~~l~d~e~r~r~ 215 (580)
|++|+||++++++.++++.|+.+.+.+++||+|+|+|.+++|++||++|.|+++++|+||+.|||+||||++|+|+|||+
T Consensus 86 d~~gkiQ~yi~k~~~~~~~~~~~~~~~dlGDiigv~G~~~~T~~GelSv~v~~~~lLsKsL~pLPeK~hgL~D~E~RyR~ 165 (502)
T COG1190 86 DGSGKIQLYVNKDEVGEEVFEALFKKLDLGDIIGVEGPLFKTKTGELSVSVEELRLLSKSLRPLPEKFHGLTDKEIRYRQ 165 (502)
T ss_pred cCCceEEEEEeccccchhhHHHHHhccccCCEEeeeeeeeecCCCceEEEEEEEeeecccCCCCChhhcCCccHHHHHHH
Confidence 99999999999998888899987777899999999999999999999999999999999999999999999999999999
Q ss_pred ceeeeecCHHHHHHHHHHHHHHHHHHHHHHhCCCeeecCceeeccCCCCCCCceeeccCCCCeeEEEEecHHHHHHHHHh
Q 008040 216 RYVDMISKPEVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAAGGAEARPFVTYHNSLGRDLYLRIATELHLKRMLI 295 (580)
Q Consensus 216 R~ldl~~~~~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~llv 295 (580)
|||||++|++.+++|..||+|+++||+||+++||+|||||+|++.+|||.|+||.||||+++.++|||||||||||+|+|
T Consensus 166 RylDLi~N~e~r~~f~~Rs~ii~~iR~fl~~~gFlEVETP~lq~i~GGA~ArPF~ThhNald~dlyLRIApELyLKRliV 245 (502)
T COG1190 166 RYLDLIVNPESRQTFIKRSKIIRAIREFLDDRGFLEVETPMLQPIPGGAAARPFITHHNALDMDLYLRIAPELYLKRLIV 245 (502)
T ss_pred HHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHCCCeEeccccccccCCCcccccceeeecccCCceEEeeccHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCceeEEecccccCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCceeecCCCCcceeeH
Q 008040 296 GGFEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQGVEICLERPWRRETM 375 (580)
Q Consensus 296 ~g~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~~~~i~~~~pf~rit~ 375 (580)
|||+||||||++|||||+|++|||||||||+|+||+||+|+|+++|+||+++++.+.|+..+.|.+.++||++||+|++|
T Consensus 246 GG~erVfEIgr~FRNEGid~tHNPEFTmlE~Y~AYaDy~D~m~ltE~Li~~~a~~v~gt~~v~y~~~~id~~~pf~ri~m 325 (502)
T COG1190 246 GGFERVFEIGRNFRNEGIDTTHNPEFTMLEFYQAYADYEDLMDLTEELIKELAKEVNGTTKVTYGGQEIDFSKPFKRITM 325 (502)
T ss_pred cCchhheeeccccccCCCccccCcchhhHHHHHHHhHHHHHHHHHHHHHHHHHHHhcCCeEEEECCEeEecCCCeeeeeh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCCCcEEEEecCCCCCcc
Q 008040 376 HNLVKEATGIDFNELGNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLVQPTFVLDYPIEISPL 455 (580)
Q Consensus 376 ~eai~~~~g~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~~P~fV~dyP~~~~pf 455 (580)
.||+++++|+++.... +.+++++++++ .|++.... ..| .+|++++++|+.+||+++.+||||+|||.++|||
T Consensus 326 ~dal~e~~g~~~~~~~-~~e~~~~~ak~-~~i~~~~~-----~~~-~~g~ll~~lFe~~vE~~liqPTFv~d~P~eiSPL 397 (502)
T COG1190 326 VDALKEYLGVDFDDLF-DDEEAKELAKK-HGIEVEKY-----GTW-GLGHLLNELFEELVEAKLIQPTFVTDHPVEISPL 397 (502)
T ss_pred HHHHHHHhCccccccC-CHHHHHHHHHH-hCCCcCcc-----ccc-cHHHHHHHHHHHHhhhhhcCCceeecCccccCcc
Confidence 9999999998644333 67899999998 88743210 013 3599999999999999999999999999999999
Q ss_pred ccccCCCCCceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcHH
Q 008040 456 AKPHRRHAGLTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDD 535 (580)
Q Consensus 456 a~~~~~~~~~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~ 535 (580)
||+|+++|++++||||||+|.||||||+|||||.+|++||++|+++ ++.||+|++. +|++
T Consensus 398 ak~~~~~p~~teRFElfi~g~EiaNaysELNDP~dQ~~RF~~Q~~~------------------k~~Gddea~~--~Ded 457 (502)
T COG1190 398 AKRHRSNPGLTERFELFIGGKEIANAYSELNDPVDQRERFEAQVEE------------------KEAGDDEAME--LDED 457 (502)
T ss_pred ccCCCCCcchhhhheeeeccEEeeeccchhcCHHHHHHHHHHHHHH------------------HHcCCccccc--cCHH
Confidence 9999999999999999999999999999999999999999999887 7889999997 9999
Q ss_pred HHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCCCCC
Q 008040 536 FVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILKIQQ 580 (580)
Q Consensus 536 yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~~~~ 580 (580)
||+||+||||||||+|||||||||+|||+.||||||+||.||+++
T Consensus 458 fv~ALeyGmPPTgG~GiGIDRLvMllT~~~sIRdVilFP~mr~~~ 502 (502)
T COG1190 458 FVEALEYGMPPTGGLGIGIDRLVMLLTNSPSIRDVILFPAMRPEK 502 (502)
T ss_pred HHHHHhcCCCCCCCccccHHHHHHHHcCCCchhheecccccCCCC
Confidence 999999999999999999999999999999999999999999874
No 2
>KOG1885 consensus Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.3e-134 Score=1040.39 Aligned_cols=521 Identities=45% Similarity=0.738 Sum_probs=474.1
Q ss_pred hhhccccccccccc-cccccccCCCCCCCCCHHHHHHHHHHHHHHHHHcCCCCCCCCCccCCCHHHHHHHHhhccCCccC
Q 008040 29 FVRCRSSTSITVSA-GTRNRRASSSSTSTSDREAVRALRIKKVEELRSKGLEPYAYKWDRTHSANQLQEIYRHLANGEES 107 (580)
Q Consensus 29 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~e~~~~R~~kl~~L~~~g~~pyp~~~~~t~~~~~i~~~~~~~~~~~~~ 107 (580)
+..||.++++++++ .+...++.+.++++.+++++.+.|.+.+++|+..|.+|||++|..++++.++.++|..+..|++.
T Consensus 23 ~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~d~~qy~~~R~r~i~~l~~s~~~Pyphkf~vs~si~~fieky~~l~~ge~~ 102 (560)
T KOG1885|consen 23 ALEKAKKASSKAAAPSVAAAKSVSKSEETSDPEQYFKIRSRAIEELRASGLNPYPHKFHVSISIPDFIEKYLHLATGEHL 102 (560)
T ss_pred HHHHHHhhhhccCCCccccccccccccccCCHHHHHHHHHHHHHHHhhcCCCCCcchhhccccHHHHHHHhcCccccccc
Confidence 43444444444332 33444444444478999999999999999999999999999999999999999999998777764
Q ss_pred CCCCCEEEEEEEEEeEecCC-CeEEEEEeeCCeeEEEEEecCc-cChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEE
Q 008040 108 NSENDHVSVAGRVVARRAFG-KLAFLTLRDDSGTIQLYCEKER-LLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVL 185 (580)
Q Consensus 108 ~~~~~~V~v~GrV~~~R~~g-k~~F~~LrD~sg~iQvv~~~~~-~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~ 185 (580)
+ +..|+|+|||+++|.+| |++|++|++++.+|||+++.+. .+++.|....+.|+.||+|+|+|.+.+|++||++|.
T Consensus 103 ~--n~~~svaGRI~s~R~sGsKL~Fydl~~~g~klQvm~~~~~~~~~~~F~~~~~~lkrGDiig~~G~pgrt~~gELSi~ 180 (560)
T KOG1885|consen 103 D--NEIVSVAGRIHSKRESGSKLVFYDLHGDGVKLQVMANAKKITSEEDFEQLHKFLKRGDIIGVSGYPGRTKSGELSII 180 (560)
T ss_pred c--cceeeeeeeEeeeeccCCceEEEEEecCCeEEEEEEehhhcCCHHHHHHHHhhhhccCEEeeecCCCcCCCceEEEe
Confidence 4 46799999999999999 7999999999999999999887 456789998888999999999999999999999999
Q ss_pred EeEEEEccccCCCCCCCCCCCCChhhccccceeeeecCHHHHHHHHHHHHHHHHHHHHHHhCCCeeecCceeeccCCCCC
Q 008040 186 VNSFVILTKSLLPLPDKYHGLTDVDKRYRQRYVDMISKPEVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAAGGAE 265 (580)
Q Consensus 186 ~~~i~vls~a~~plP~~~~~l~d~e~r~r~R~ldl~~~~~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~ 265 (580)
++++.+||+|++|||.+++||.|.|+|||+|||||+.|+.++++|++|++||..||.||+++||+|||||||+..+|||.
T Consensus 181 ~~~~~lLspcLh~lP~~~~gLkD~EtRyrqRylDlilN~~~r~~f~~RakII~~iRkfld~rgFlEVETPmmn~iaGGA~ 260 (560)
T KOG1885|consen 181 PNEIILLSPCLHMLPHEHFGLKDKETRYRKRYLDLILNPEVRDRFRIRAKIISYIRKFLDSRGFLEVETPMMNMIAGGAT 260 (560)
T ss_pred ecchheecchhccCChhhcCCCcHHHHHHHHHHHHHcCHHHHHHHHHHHHHHHHHHHHhhhcCceEecchhhccccCccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCceeeccCCCCeeEEEEecHHHHHHHHHhccCCceeEEecccccCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHH
Q 008040 266 ARPFVTYHNSLGRDLYLRIATELHLKRMLIGGFEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVT 345 (580)
Q Consensus 266 a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~ 345 (580)
|+||+|+||.+++++|||+|||||||+|+|||++||||||+.|||||+|.+||||||.||+||||+||+|||+++|+||+
T Consensus 261 AkPFIT~hndldm~LylRiAPEL~lK~LvVGGldrVYEIGr~FRNEGIDlTHNPEFTTcEfY~AYady~dlm~~TE~l~s 340 (560)
T KOG1885|consen 261 AKPFITHHNDLDMDLYLRIAPELYLKMLVVGGLDRVYEIGRQFRNEGIDLTHNPEFTTCEFYMAYADYEDLMDMTEELLS 340 (560)
T ss_pred cCceeecccccCcceeeeechHHHHHHHHhccHHHHHHHHHHhhhcCcccccCCCcchHHHHHHHhhHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhCCceeecCc-------eeecCCCCcceeeHHHHHHHHhCCCCCCCCC-CHHH----HHHHHHHHcCCCCCCcc
Q 008040 346 HCALAVNGKLTIDYQG-------VEICLERPWRRETMHNLVKEATGIDFNELGN-DLKV----AKETTLRALGDGLENKD 413 (580)
Q Consensus 346 ~~~~~v~~~~~~~~~~-------~~i~~~~pf~rit~~eai~~~~g~~~~~~~~-~~~~----~~~~~~~~~g~~~~~~~ 413 (580)
.+++.+.|++++.|.. .+++|++||+||+|.+.+++.+|++++.-+. +.++ +..++.+ .++
T Consensus 341 ~mv~~i~G~~~i~y~p~~~~~~~~eldf~~pfrri~mi~~L~k~lgi~l~~~~~l~~~e~~~~L~~~~~~-~~v------ 413 (560)
T KOG1885|consen 341 GMVKNITGSYKITYHPNGPEEPELELDFTRPFRRIEMIEELEKELGIKLPPGSTLHTEETRELLKSLCVD-EAV------ 413 (560)
T ss_pred HHHHhhcCceeEeecCCCCCCCceeeeccCCeeeeeHHHHHHHHhCCCCCCccccCchhhHHHHHHHHHh-ccc------
Confidence 9999999999999875 4789999999999999999999999986210 1222 3334443 344
Q ss_pred ccccCCCCcHHhHHHHHHHHHhcCCCCCcEEEEecCCCCCccccccCCCCCceeEEEEEEcCEeecccccccCCHHHHHH
Q 008040 414 KFVIESSPSVGNLLNEVFEIVVEPKLVQPTFVLDYPIEISPLAKPHRRHAGLTERFELFICGREMANAFSELTDPLDQRA 493 (580)
Q Consensus 414 ~~~~~~~~~lg~~l~~~~~~~ve~~l~~P~fV~dyP~~~~pfa~~~~~~~~~~~rFdL~i~G~Ei~ng~~el~dp~~q~~ 493 (580)
+++...+ .+++|+++++.++|+++.+||||+|||..+|||||.|++++|+++||||||+|.||||+|+|+|||.+||+
T Consensus 414 -~~p~p~t-~arlLdKLvg~flE~~cvnPTFi~~hP~imSPLAK~hrs~~glteRFElFi~~kEicNAYtElNdP~~Qr~ 491 (560)
T KOG1885|consen 414 -ECPPPRT-TARLLDKLVGEFLEPTCVNPTFIIDHPQIMSPLAKYHRSKAGLTERFELFIAGKEICNAYTELNDPVDQRQ 491 (560)
T ss_pred -CCCCccc-HHHHHHHHHhHhhccccCCCeeEcCCchhcCccccccccccchhhHHHHhhhhHHHhhhhhhhcCHHHHHH
Confidence 4444333 38999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcHHHHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccC
Q 008040 494 RLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAF 573 (580)
Q Consensus 494 rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~F 573 (580)
||++|.+. +..||+|++. .|++|++||+|||||+||||||||||+|+||++.|||||++|
T Consensus 492 rFe~Q~~~------------------k~~GDDEa~~--~De~Fc~ALEYGlPPtgGwGmGIDRL~MllTds~~I~EVL~F 551 (560)
T KOG1885|consen 492 RFEQQARD------------------KDAGDDEAQM--VDEDFCTALEYGLPPTGGWGMGIDRLVMLLTDSNNIREVLLF 551 (560)
T ss_pred HHHHHHHH------------------hhcCCccccc--ccHHHHHHHHcCCCCCCccccchhhhhhhhcCCcchhheeec
Confidence 99999887 7889999998 899999999999999999999999999999999999999999
Q ss_pred CcCCCCC
Q 008040 574 PILKIQQ 580 (580)
Q Consensus 574 P~~~~~~ 580 (580)
|.||+++
T Consensus 552 p~mkp~~ 558 (560)
T KOG1885|consen 552 PAMKPED 558 (560)
T ss_pred cccChhc
Confidence 9999863
No 3
>PLN02502 lysyl-tRNA synthetase
Probab=100.00 E-value=3.2e-131 Score=1084.98 Aligned_cols=494 Identities=61% Similarity=0.967 Sum_probs=456.2
Q ss_pred CCCCHHHHHHHHHHHHHHHHHcCCCCCCCCCccCCCHHHHHHHHhhccCCccCCCCCCEEEEEEEEEeEecCCCeEEEEE
Q 008040 55 STSDREAVRALRIKKVEELRSKGLEPYAYKWDRTHSANQLQEIYRHLANGEESNSENDHVSVAGRVVARRAFGKLAFLTL 134 (580)
Q Consensus 55 ~~~~~~e~~~~R~~kl~~L~~~g~~pyp~~~~~t~~~~~i~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~gk~~F~~L 134 (580)
++.+++++.+.|++|+++|++.|++|||++|.++|++++++++|..+..++. ..+++|+|+|||+++|.+||++|++|
T Consensus 54 ~~~~~~~~~~~r~~~~~~l~~~g~~pyp~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~V~v~GrV~~~R~~Gk~~F~~L 131 (553)
T PLN02502 54 ETMDPTQYRANRLKKVEALRAKGVEPYPYKFDVTHTAPELQEKYGSLENGEE--LEDVSVSVAGRIMAKRAFGKLAFYDL 131 (553)
T ss_pred cccCHHHHHHHHHHHHHHHHHcCCCCCCCCCCCCccHHHHHHHhhccccccc--cCCCEEEEEEEEEEEecCCCeEEEEE
Confidence 3557889999999999999999999999999999999999999988765543 23688999999999999999999999
Q ss_pred eeCCeeEEEEEecCccCh--HHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEEEccccCCCCCCCCCCCCChhhc
Q 008040 135 RDDSGTIQLYCEKERLLS--DQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFVILTKSLLPLPDKYHGLTDVDKR 212 (580)
Q Consensus 135 rD~sg~iQvv~~~~~~~~--~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~vls~a~~plP~~~~~l~d~e~r 212 (580)
+|++|.||||++++..++ +.|+.+.+.|+.||+|+|+|++.+|++|++||.|++|+|||+|++|||.++|++.|.++|
T Consensus 132 rD~~g~iQv~~~~~~~~~~~~~~~~~~~~l~~gdiV~V~G~~~~t~~gelel~~~~i~vLs~~l~plP~k~~~~~d~e~r 211 (553)
T PLN02502 132 RDDGGKIQLYADKKRLDLDEEEFEKLHSLVDRGDIVGVTGTPGKTKKGELSIFPTSFEVLTKCLLMLPDKYHGLTDQETR 211 (553)
T ss_pred ecCCccEEEEEECccccchhHHHHHHHhCCCCCcEEEEEEEEEecCCCCEEEEEeEEEEEeccCCCCCcccccccchhhh
Confidence 999999999998776543 348777655799999999999999999999999999999999999999999999999999
Q ss_pred cccceeeeecCHHHHHHHHHHHHHHHHHHHHHHhCCCeeecCceeeccCCCCCCCceeeccCCCCeeEEEEecHHHHHHH
Q 008040 213 YRQRYVDMISKPEVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAAGGAEARPFVTYHNSLGRDLYLRIATELHLKR 292 (580)
Q Consensus 213 ~r~R~ldl~~~~~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~ 292 (580)
||+|||||++|+.++++|++||+|+++||+||.++||+||+||+|++++|||+|+||.|++|++++++||+||||||||+
T Consensus 212 ~r~RyLdl~~n~~~~~i~r~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~gGA~a~pF~t~~n~~~~~~yL~~Spel~lK~ 291 (553)
T PLN02502 212 YRQRYLDLIANPEVRDIFRTRAKIISYIRRFLDDRGFLEVETPMLNMIAGGAAARPFVTHHNDLNMDLYLRIATELHLKR 291 (553)
T ss_pred ccchhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCeeeccCCCccccceeeecccCCcceeeecCHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHhccCCceeEEecccccCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCceeecCCCCcce
Q 008040 293 MLIGGFEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQGVEICLERPWRR 372 (580)
Q Consensus 293 llv~g~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~~~~i~~~~pf~r 372 (580)
|++|||+||||||||||||++++|||||||||||||+|+||+|||+++|+||+++++.+.+++.+.|.+.++++..||+|
T Consensus 292 L~v~g~~rVfeIg~~FRnE~~~~rH~pEFtmlE~y~a~~d~~dlm~~~E~li~~i~~~v~~~~~~~~~~~~i~~~~p~~r 371 (553)
T PLN02502 292 LVVGGFERVYEIGRQFRNEGISTRHNPEFTTCEFYQAYADYNDMMELTEEMVSGMVKELTGSYKIKYHGIEIDFTPPFRR 371 (553)
T ss_pred HHHhccCCEEEEcCeeeCCCCCCccccceeehhhhhhcCCHHHHHHHHHHHHHHHHHHHhcccccccCCccccCCCCcee
Confidence 99999999999999999999999999999999999999999999999999999999999999888898888999999999
Q ss_pred eeHHHHHHHHhCCCCCCCCCCHHHH----HHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCCCcEEEEec
Q 008040 373 ETMHNLVKEATGIDFNELGNDLKVA----KETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLVQPTFVLDY 448 (580)
Q Consensus 373 it~~eai~~~~g~~~~~~~~~~~~~----~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~~P~fV~dy 448 (580)
+||.|++++++|+++.... +.+++ .+.+.+ +|+ +++.. ..+|++++++|+++||+++.+||||+||
T Consensus 372 it~~e~l~~~~g~~~~~~~-~~~~~~~~l~~~~~~-~~~-------~~~~~-~~~~~~l~~l~~~~ve~~l~~PtFV~dy 441 (553)
T PLN02502 372 ISMISLVEEATGIDFPADL-KSDEANAYLIAACEK-FDV-------KCPPP-QTTGRLLNELFEEFLEETLVQPTFVLDH 441 (553)
T ss_pred ccHHHHHHHHhCCCCCcCC-CHHHHHHHHHHHHHH-cCC-------CCCCC-CCHhHHHHHHHHHHHHhhcCCCEEEECC
Confidence 9999999999999886522 33333 334555 666 33332 3469999999999999999999999999
Q ss_pred CCCCCccccccCCCCCceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCcccc
Q 008040 449 PIEISPLAKPHRRHAGLTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSY 528 (580)
Q Consensus 449 P~~~~pfa~~~~~~~~~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~ 528 (580)
|.+++||||++++||++++||||||+|+||+|||+|+|||.+||+||++|++. +..++++++
T Consensus 442 P~~~splak~~~~~p~~~erFELfi~G~Eiangy~ELnDp~~Qr~rf~~q~~~------------------~~~~~~~~~ 503 (553)
T PLN02502 442 PVEMSPLAKPHRSKPGLTERFELFINGRELANAFSELTDPVDQRERFEEQVKQ------------------HNAGDDEAM 503 (553)
T ss_pred ccccCcccccCCCCCCeEEEEEEEeCCeEEccchhhccCHHHHHHHHHHHHHH------------------hhcCCcccc
Confidence 99999999999999999999999999999999999999999999999999987 456777777
Q ss_pred ccCCcHHHHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCCCCC
Q 008040 529 EVTLDDDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILKIQQ 580 (580)
Q Consensus 529 ~~~~d~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~~~~ 580 (580)
+ +|++||+||+||||||||||||||||||+|||+.||||||+||+||+++
T Consensus 504 ~--~De~fl~aleyGmPP~gG~GiGiDRLvMlltg~~sIrdVi~FP~~k~~~ 553 (553)
T PLN02502 504 A--LDEDFCTALEYGLPPTGGWGLGIDRLVMLLTDSASIRDVIAFPAMKPQD 553 (553)
T ss_pred c--cHHHHHHHHHcCCCCCceEEehHHHHHHHHcCCcchheeecCCcCCCCC
Confidence 7 8999999999999999999999999999999999999999999999974
No 4
>TIGR00499 lysS_bact lysyl-tRNA synthetase, eukaryotic and non-spirochete bacterial. This model represents the lysyl-tRNA synthetases that are class II amino-acyl tRNA synthetases. It includes all eukaryotic and most bacterial examples of the enzyme, but not archaeal or spirochete forms.
Probab=100.00 E-value=1.5e-129 Score=1066.65 Aligned_cols=492 Identities=52% Similarity=0.872 Sum_probs=456.0
Q ss_pred CHHHHHHHHHHHHHHHHHcCCCCCCCCCccCCCHHHHHHHHhhccCCccCCCCCCEEEEEEEEEeEecCCCeEEEEEeeC
Q 008040 58 DREAVRALRIKKVEELRSKGLEPYAYKWDRTHSANQLQEIYRHLANGEESNSENDHVSVAGRVVARRAFGKLAFLTLRDD 137 (580)
Q Consensus 58 ~~~e~~~~R~~kl~~L~~~g~~pyp~~~~~t~~~~~i~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~gk~~F~~LrD~ 137 (580)
+.+++.+.|++|+++|++.|++|||+.|.++|++.+++++|..+..++.. ..++.|+|+|||+++|.+||++|++|+|+
T Consensus 1 ~~~~~~~~r~~k~~~l~~~~~~~yp~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~v~v~Grv~~~R~~gk~~F~~l~D~ 79 (496)
T TIGR00499 1 DLNDQLQTRREKLARLRQTGNNPYLNKFERTHSSQEFQEEYADLSNEELE-DKNIEVSIAGRIMARRSMGKATFITLQDE 79 (496)
T ss_pred ChhHHHHHHHHHHHHHHHcCCCCCCCCCCCCcCHHHHHHHhhccCccchh-cCCCEEEEEEEEEEEecCCCeEEEEEEcC
Confidence 35689999999999999999999999999999999999999876654432 23688999999999999999999999999
Q ss_pred CeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEEEccccCCCCCCCCCCCCChhhccccce
Q 008040 138 SGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFVILTKSLLPLPDKYHGLTDVDKRYRQRY 217 (580)
Q Consensus 138 sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~vls~a~~plP~~~~~l~d~e~r~r~R~ 217 (580)
+|.||+|++++.++++.|+.+++.|+.||+|+|+|++.+|++|++||.|++|+|||+|+.|||.++||++|+++|||+||
T Consensus 80 ~g~iQ~~~~~~~~~~~~~~~~~~~l~~gd~V~v~G~~~~t~~gelel~~~~i~ilsk~~~plP~k~~~~~d~e~r~r~R~ 159 (496)
T TIGR00499 80 SGQIQLYVNKDDLPEDFYEFDEYLLDLGDIIGVTGYPFKTKTGELSVHVTELQILTKALRPLPDKFHGLTDQETRYRQRY 159 (496)
T ss_pred CccEEEEEECCcCcHHHHHHHHhcCCCCCEEEEEEEEEECCCCcEEEEeeEEEEEecCCCCCCccccccCChhhhhhhhh
Confidence 99999999988776667777665579999999999999999999999999999999999999999999999999999999
Q ss_pred eeeecCHHHHHHHHHHHHHHHHHHHHHHhCCCeeecCceeeccCCCCCCCceeeccCCCCeeEEEEecHHHHHHHHHhcc
Q 008040 218 VDMISKPEVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAAGGAEARPFVTYHNSLGRDLYLRIATELHLKRMLIGG 297 (580)
Q Consensus 218 ldl~~~~~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g 297 (580)
|||++|+.++++|++||+|+++||+||.++||+||+||+|++++|||+|+||.|++|+++.++||+||||||||+|++||
T Consensus 160 Ldl~~n~~~~~~~r~Rs~i~~~iR~fl~~~gF~EVeTP~L~~~~gga~a~pF~t~~~~~~~~~yLriSpELylKrlivgG 239 (496)
T TIGR00499 160 LDLIVNPDSRQTFLVRSKIIKAIRRFLDDRGFIEVETPMLQVIPGGANARPFITHHNALDMDLYLRIAPELYLKRLIVGG 239 (496)
T ss_pred hhhhcCHHHHHHHHHHHHHHHHHHHHHHHCcCEEEeCCeeecCCCCccceeEEeecccCCCceEEecCHHHHHHHHHhCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCceeEEecccccCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCceeecCCCCcceeeHHH
Q 008040 298 FEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQGVEICLERPWRRETMHN 377 (580)
Q Consensus 298 ~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~~~~i~~~~pf~rit~~e 377 (580)
|+||||||||||||++++|||||||||||||+|+||+|||+++|+||+++++.+.+.+...|.+.+++++.||+|+||.|
T Consensus 240 ~~rVfeIg~~FRnE~~~~rH~pEFTmlE~y~a~~d~~dlm~~~E~li~~i~~~l~~~~~~~~~~~~~~~~~pf~rit~~e 319 (496)
T TIGR00499 240 FEKVYEIGRNFRNEGVDTTHNPEFTMIEFYQAYADYEDLMDLTENLFKFLAQELLGTTKITYGELEIDFKKPFKRITMVE 319 (496)
T ss_pred CCceEEEecceecCCCCCcccchhheeehhhhcCCHHHHHHHHHHHHHHHHHHHhcccceecCceeccCCCCceEEEHHH
Confidence 99999999999999999999999999999999999999999999999999999998888888888889999999999999
Q ss_pred HHH---HHhCCCCCCCCCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCCCcEEEEecCCCCCc
Q 008040 378 LVK---EATGIDFNELGNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLVQPTFVLDYPIEISP 454 (580)
Q Consensus 378 ai~---~~~g~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~~P~fV~dyP~~~~p 454 (580)
|++ +++|+++.... +.+.+++++++ +|+ +++.....+|++++++|+.++|+++.+||||+|||.+++|
T Consensus 320 ai~~~~~~~g~~~~~~~-~~~~l~~~~~~-~~~-------~~~~~~~~~~~~l~~~~~~~ve~~l~~P~fv~dyP~~~sp 390 (496)
T TIGR00499 320 AIKKYDMETGIDFDDLK-DFETAKALAKK-IGI-------EVAEKSLTLGHILNELFEQFLEHTLIQPTFITHYPAEISP 390 (496)
T ss_pred HHHHHHHhcCCCchhcC-CHHHHHHHHHH-cCC-------CcCCCCCCHHHHHHHHHHHHHHhccCCCEEEECCchhcCc
Confidence 999 77898875443 67777877877 777 3312223469999999999999999999999999999999
Q ss_pred cccccCCCCCceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcH
Q 008040 455 LAKPHRRHAGLTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDD 534 (580)
Q Consensus 455 fa~~~~~~~~~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~ 534 (580)
||++++++|++++|||||++|+||+|||+|+|||.+|++||++|++. ++.|+++++. +|+
T Consensus 391 lak~~~~~p~~~~rFeL~i~G~Ei~ng~~El~dp~~q~~rf~~q~~~------------------k~~g~~~~~~--~de 450 (496)
T TIGR00499 391 LAKRNPSNPEFTDRFELFIAGKEIANAFSELNDPLDQRERFEQQVAE------------------KEAGDDEAQF--VDE 450 (496)
T ss_pred ccccCCCCCCeEEEEEEEeCCeEEeccccccCCHHHHHHHHHHHHHH------------------HHcCCCcccc--chH
Confidence 99999999999999999999999999999999999999999999865 5667777776 799
Q ss_pred HHHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCCCC
Q 008040 535 DFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILKIQ 579 (580)
Q Consensus 535 ~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~~~ 579 (580)
|||+|++||||||||||||||||||+|||++||||||+||+||++
T Consensus 451 ~yl~a~~~G~PP~gG~GiGiDRLvMlltg~~~Irdvi~FP~~~~~ 495 (496)
T TIGR00499 451 DFVEALEYGMPPTGGLGIGIDRLVMLLTDSKSIRDVILFPAMRPQ 495 (496)
T ss_pred HHHHHHHcCCCCCceEEEhHHHHHHHHhCCCcHheeccCCCCCCC
Confidence 999999999999999999999999999999999999999999986
No 5
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=100.00 E-value=3.3e-129 Score=1064.01 Aligned_cols=492 Identities=44% Similarity=0.764 Sum_probs=454.4
Q ss_pred CCCHHHHHHHHHHHHHHHHHcCCCCCCCCCccCCCHHHHHHHHhhccCCccCCCCCCEEEEEEEEEeEecCCCeEEEEEe
Q 008040 56 TSDREAVRALRIKKVEELRSKGLEPYAYKWDRTHSANQLQEIYRHLANGEESNSENDHVSVAGRVVARRAFGKLAFLTLR 135 (580)
Q Consensus 56 ~~~~~e~~~~R~~kl~~L~~~g~~pyp~~~~~t~~~~~i~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~gk~~F~~Lr 135 (580)
+.+.+++.+.|++|+++|++.|+ |||++|.++|++.+++++|+.++.++.. ..+++|+|+|||+++|.+||++|++|+
T Consensus 12 ~~~~~~~~~~r~~k~~~l~~~g~-py~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~v~v~Grv~~~R~~Gk~~F~~lr 89 (505)
T PRK12445 12 AIDFNDELRNRREKLAALRQQGV-AFPNDFRRDHTSDQLHEEFDAKDNQELE-SLNIEVSVAGRMMTRRIMGKASFVTLQ 89 (505)
T ss_pred cCCccHHHHHHHHHHHHHHHhCC-CCCCCCcCccCHHHHHHHhhccCcchhh-cCCCEEEEEEEEEEEecCCCcEEEEEE
Confidence 44577899999999999999999 9999999999999999999876544321 235789999999999999999999999
Q ss_pred eCCeeEEEEEecCccChHHHHh-hhcccCCCcEEEEEeEEEecCCceeEEEEeEEEEccccCCCCCCCCCCCCChhhccc
Q 008040 136 DDSGTIQLYCEKERLLSDQFDQ-LKVFVDIGDILGVSGSMKRTEKGELSVLVNSFVILTKSLLPLPDKYHGLTDVDKRYR 214 (580)
Q Consensus 136 D~sg~iQvv~~~~~~~~~~~~~-~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~vls~a~~plP~~~~~l~d~e~r~r 214 (580)
|++|.||||++++..+++.|+. +.+ +++||+|+|+|++++|++|++||.|++++|||+|+.|||.++|+++|.++|||
T Consensus 90 D~~g~iQ~~~~~~~~~~~~~~~~~~~-l~~Gd~V~v~G~~~~t~~gelel~~~~~~llsk~~~plP~~~~~~~d~e~r~r 168 (505)
T PRK12445 90 DVGGRIQLYVARDSLPEGVYNDQFKK-WDLGDIIGARGTLFKTQTGELSIHCTELRLLTKALRPLPDKFHGLQDQEVRYR 168 (505)
T ss_pred eCCccEEEEEECCccchhhHHHHHhc-CCCCCEEEEEEEEEecCCCcEEEEEeEEEEEecCCCCCCcccccccChhhhhh
Confidence 9999999999987666566753 445 69999999999999999999999999999999999999999999999999999
Q ss_pred cceeeeecCHHHHHHHHHHHHHHHHHHHHHHhCCCeeecCceeeccCCCCCCCceeeccCCCCeeEEEEecHHHHHHHHH
Q 008040 215 QRYVDMISKPEVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAAGGAEARPFVTYHNSLGRDLYLRIATELHLKRML 294 (580)
Q Consensus 215 ~R~ldl~~~~~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~ll 294 (580)
+|||||++|+.++++|++||+|+++||+||.++||+||+||+|++++|||+|+||.|++|+++.++||+||||||||+|+
T Consensus 169 ~Ryldl~~n~~~r~~~r~Rs~i~~~iR~f~~~~gFiEVeTPiL~~~~gGa~a~pF~t~~~~~~~~~yL~~SpELylKrli 248 (505)
T PRK12445 169 QRYLDLIANDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVIPGGASARPFITHHNALDLDMYLRIAPELYLKRLV 248 (505)
T ss_pred hhhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHCCCEEeeCCeeEecCCCCcccceecccccCCcceeeecCHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hccCCceeEEecccccCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCceeecCCCCcceee
Q 008040 295 IGGFEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQGVEICLERPWRRET 374 (580)
Q Consensus 295 v~g~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~~~~i~~~~pf~rit 374 (580)
||||+||||||||||||++++|||||||||||||+|+||+|||+++|+||+++++.+.+.+.+.|.+..++++.||+|+|
T Consensus 249 vgG~~rVfeIg~~FRnE~~~~rH~pEFTmlE~y~a~~d~~d~m~l~E~li~~l~~~~~~~~~~~~~~~~i~~~~pf~rit 328 (505)
T PRK12445 249 VGGFERVFEINRNFRNEGISVRHNPEFTMMELYMAYADYHDLIELTESLFRTLAQEVLGTTKVTYGEHVFDFGKPFEKLT 328 (505)
T ss_pred hccCCcEEEEehhccCCCCCCCcCcccceeeeeeecCCHHHHHHHHHHHHHHHHHHHhcccceecCceeccCCCCceEEE
Confidence 99999999999999999999999999999999999999999999999999999999998887788877889999999999
Q ss_pred HHHHHHHHhC-CCCCCCCCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCCCcEEEEecCCCCC
Q 008040 375 MHNLVKEATG-IDFNELGNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLVQPTFVLDYPIEIS 453 (580)
Q Consensus 375 ~~eai~~~~g-~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~~P~fV~dyP~~~~ 453 (580)
|.||++++.| .++.... +.+.+++++++ +|+. .+..+ .+|++++++|+.++|+++.+||||+|||.+++
T Consensus 329 ~~eai~~~~~~~~~~~~~-~~~~~~~~~~~-~~~~-------~~~~~-~~~~l~~~~~~~~vE~~l~~P~Fv~dyP~~~s 398 (505)
T PRK12445 329 MREAIKKYRPETDMADLD-NFDAAKALAES-IGIT-------VEKSW-GLGRIVTEIFDEVAEAHLIQPTFITEYPAEVS 398 (505)
T ss_pred HHHHHHHHhCCCCccccC-CHHHHHHHHHH-cCCC-------CCCCC-CHHHHHHHHHHHHHHhhcCCCEEEECCCchhC
Confidence 9999999988 4654433 67888888887 7873 22333 35899999999999999999999999999999
Q ss_pred ccccccCCCCCceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCc
Q 008040 454 PLAKPHRRHAGLTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLD 533 (580)
Q Consensus 454 pfa~~~~~~~~~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d 533 (580)
|||+.+++||++++|||||++|+||||||+|+|||++|++||++|++. ++.|++++++ +|
T Consensus 399 plak~~~~~p~~~~rFeL~i~G~Ei~ng~~El~dp~eq~~rf~~q~~~------------------~~~g~~e~~~--~d 458 (505)
T PRK12445 399 PLARRNDVNPEITDRFEFFIGGREIGNGFSELNDAEDQAERFQEQVNA------------------KAAGDDEAMF--YD 458 (505)
T ss_pred cccccCCCCCCceEEEEEEeCCEEEcccccccCCHHHHHHHHHHHHHH------------------HhcCCCcccc--ch
Confidence 999999999999999999999999999999999999999999999876 5667788877 89
Q ss_pred HHHHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCCCCC
Q 008040 534 DDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILKIQQ 580 (580)
Q Consensus 534 ~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~~~~ 580 (580)
+|||+|++||||||||||||||||||+|||..||||||+||+||+++
T Consensus 459 e~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~~~~ 505 (505)
T PRK12445 459 EDYVTALEYGLPPTAGLGIGIDRMIMLFTNSHTIRDVILFPAMRPQK 505 (505)
T ss_pred HHHHHHHHcCCCCCCeEEEhHHHHHHHHcCCCchheEecCCCCCCCC
Confidence 99999999999999999999999999999999999999999999864
No 6
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=100.00 E-value=5.5e-127 Score=1046.33 Aligned_cols=489 Identities=55% Similarity=0.919 Sum_probs=453.4
Q ss_pred HHHHHHHHHHHHHHHHHcCCCCCCCCCccCCCHHHHHHHHhhccCCccCCCCCCEEEEEEEEEeEecCCCeEEEEEeeCC
Q 008040 59 REAVRALRIKKVEELRSKGLEPYAYKWDRTHSANQLQEIYRHLANGEESNSENDHVSVAGRVVARRAFGKLAFLTLRDDS 138 (580)
Q Consensus 59 ~~e~~~~R~~kl~~L~~~g~~pyp~~~~~t~~~~~i~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~gk~~F~~LrD~s 138 (580)
.+++.+.|++||++|++.|++|||++|.++|+|++++++|.++..++.. ..++.|+|+|||+++|.+||++|++|||++
T Consensus 3 ~~~~~~~r~~k~~~~~~~g~~~yp~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~v~v~G~v~~~R~~g~~~Fi~lrD~~ 81 (491)
T PRK00484 3 LNEQIAVRREKLAELREQGIDPYPNKFERTHTAAELRAKYDDKEKEELE-ELEIEVSVAGRVMLKRVMGKASFATLQDGS 81 (491)
T ss_pred ccHHHHHHHHHHHHHHHhCCCCCCCCCcCccCHHHHHHHhccccchhhc-ccCcEEEEEEEEEEEecCCceEEEEEEcCC
Confidence 3578999999999999999999999999999999999999776544322 123679999999999999999999999999
Q ss_pred eeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEEEccccCCCCCCCCCCCCChhhcccccee
Q 008040 139 GTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFVILTKSLLPLPDKYHGLTDVDKRYRQRYV 218 (580)
Q Consensus 139 g~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~vls~a~~plP~~~~~l~d~e~r~r~R~l 218 (580)
|.||||++++..+++.|+.+++ |+.||+|.|+|+|.+|++|++||.|++++|||+|+.|||.++|++.++++|||+|||
T Consensus 82 g~iQ~v~~~~~~~~~~~~~~~~-l~~g~~v~v~G~v~~t~~ge~el~~~~~~vls~~~~plP~~~~~~~~~~~r~r~R~l 160 (491)
T PRK00484 82 GRIQLYVSKDDVGEEALEAFKK-LDLGDIIGVEGTLFKTKTGELSVKATELTLLTKSLRPLPDKFHGLTDVETRYRQRYV 160 (491)
T ss_pred ccEEEEEECCcCCHHHHHHHhc-CCCCCEEEEEEEEEEcCCCcEEEEEeEEEEEeccCCCCCcccccccchhhhccceee
Confidence 9999999988766778888877 699999999999999999999999999999999999999999999999999999999
Q ss_pred eeecCHHHHHHHHHHHHHHHHHHHHHHhCCCeeecCceeeccCCCCCCCceeeccCCCCeeEEEEecHHHHHHHHHhccC
Q 008040 219 DMISKPEVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAAGGAEARPFVTYHNSLGRDLYLRIATELHLKRMLIGGF 298 (580)
Q Consensus 219 dl~~~~~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g~ 298 (580)
|||+|+.++++|++||+|+++||+||.++||+||+||+|+++++||+|+||.|++++++.++||+||||||||+||+||+
T Consensus 161 Dl~~~~~~~~~~r~Rs~i~~~iR~f~~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~l~v~g~ 240 (491)
T PRK00484 161 DLIVNPESRETFRKRSKIISAIRRFLDNRGFLEVETPMLQPIAGGAAARPFITHHNALDIDLYLRIAPELYLKRLIVGGF 240 (491)
T ss_pred ehhcCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCceeccCCCccceeeeeccccCCCceEeccCHHHHHHHHHhccC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CceeEEecccccCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCceeecCCCCcceeeHHHH
Q 008040 299 EKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQGVEICLERPWRRETMHNL 378 (580)
Q Consensus 299 ~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~~~~i~~~~pf~rit~~ea 378 (580)
+||||||||||||++++|||||||||||||+|+||+|||+++|+||+++++.+.++..+.+.+..++++.||+||||.||
T Consensus 241 ~rVfei~~~FR~E~~~~rH~pEFt~lE~e~a~~d~~d~m~~~E~li~~i~~~~~~~~~i~~~~~~~~~~~pf~rity~ea 320 (491)
T PRK00484 241 ERVYEIGRNFRNEGIDTRHNPEFTMLEFYQAYADYNDMMDLTEELIRHLAQAVLGTTKVTYQGTEIDFGPPFKRLTMVDA 320 (491)
T ss_pred CcEEEEecceecCCCCCCcCCceEEEEEEEecCCHHHHHHHHHHHHHHHHHHHhCCceEecCCEeecCCCCceEEEHHHH
Confidence 99999999999999999999999999999999999999999999999999999988888888888899999999999999
Q ss_pred HHHHhCCCCCCCCCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCCCcEEEEecCCCCCccccc
Q 008040 379 VKEATGIDFNELGNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLVQPTFVLDYPIEISPLAKP 458 (580)
Q Consensus 379 i~~~~g~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~~P~fV~dyP~~~~pfa~~ 458 (580)
++++.|+++... +.+++++.+.+ +|+ +.+..+ .+|++++++|+.++|+++.+||||+|||.+++||||+
T Consensus 321 i~~~~g~~~~~~--~~~~~~~~~~~-~~~-------~~~~~~-~~~~l~~~l~~~~ve~~~~~P~Fi~dyP~~~~pf~k~ 389 (491)
T PRK00484 321 IKEYTGVDFDDM--TDEEARALAKE-LGI-------EVEKSW-GLGKLINELFEEFVEPKLIQPTFITDYPVEISPLAKR 389 (491)
T ss_pred HHHHhCCCcccC--CHHHHHHHHHH-cCC-------CCCCCC-CHHHHHHHHHHHHhhhhcCCcEEEECCChHHhhhhcc
Confidence 999999987632 45666666666 776 223333 3599999999999999999999999999999999999
Q ss_pred cCCCCCceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcHHHHH
Q 008040 459 HRRHAGLTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDDFVT 538 (580)
Q Consensus 459 ~~~~~~~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~ 538 (580)
+++||++++|||||++|+||+|||+|+|||.+|++||++|++. +..+++++++ +|+|||+
T Consensus 390 ~~~~~~~~~rFdL~i~G~Ei~ngy~El~dp~~q~~r~~~q~~~------------------~~~~~~e~~~--~d~~yl~ 449 (491)
T PRK00484 390 HREDPGLTERFELFIGGREIANAFSELNDPIDQRERFEAQVEA------------------KEAGDDEAMF--MDEDFLR 449 (491)
T ss_pred CCCCCCeEEEEEEEECCEEEecchhhhCCHHHHHHHHHHHHHH------------------HHcCCCcccc--cHHHHHH
Confidence 9999999999999999999999999999999999999999866 4567777776 8999999
Q ss_pred HHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCCCCC
Q 008040 539 ALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILKIQQ 580 (580)
Q Consensus 539 al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~~~~ 580 (580)
|++||||||||||||||||||+|||.+||||||+||++|++.
T Consensus 450 a~~~G~PP~gG~GiGiDRLvm~ltg~~~Irdvi~FP~~~~~~ 491 (491)
T PRK00484 450 ALEYGMPPTGGLGIGIDRLVMLLTDSPSIRDVILFPLMRPEK 491 (491)
T ss_pred HHHCCCCCCCeEEEeHHHHHHHHhCCCcHHhcccCCCCCCCC
Confidence 999999999999999999999999999999999999999863
No 7
>PTZ00417 lysine-tRNA ligase; Provisional
Probab=100.00 E-value=2.1e-125 Score=1042.05 Aligned_cols=493 Identities=38% Similarity=0.673 Sum_probs=451.3
Q ss_pred CCCCHHHHHHHHHHHHHHHHHcCCCCCCCCCccCCCHHHHHHHHhhccCCccCCCCCCEEEEEEEEEeEecCC-CeEEEE
Q 008040 55 STSDREAVRALRIKKVEELRSKGLEPYAYKWDRTHSANQLQEIYRHLANGEESNSENDHVSVAGRVVARRAFG-KLAFLT 133 (580)
Q Consensus 55 ~~~~~~e~~~~R~~kl~~L~~~g~~pyp~~~~~t~~~~~i~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~g-k~~F~~ 133 (580)
++.+++++.+.|++|+++|++.|++|||+.|.++|++.+++++|+++..++.. .+..|+|+|||+++|.+| |++|++
T Consensus 78 ~~~~~~~~~~~r~~k~~~l~~~g~~pyp~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~v~v~Grv~~~R~~G~k~~F~~ 155 (585)
T PTZ00417 78 AEVDPRLYYENRSKFIQEQKAKGINPYPHKFERTITVPEFVEKYQDLASGEHL--EDTILNVTGRIMRVSASGQKLRFFD 155 (585)
T ss_pred ccCChHHHHHHHHHHHHHHHhcCCCCCCCCCcCCcCHHHHHHHhhccCccccc--cCCeEEEEEEEEeeecCCCCCEEEE
Confidence 56788999999999999999999999999999999999999999876554432 135699999999999999 699999
Q ss_pred EeeCCeeEEEEEecCccC--hHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEEEccccCCCCCCCCCCCCChhh
Q 008040 134 LRDDSGTIQLYCEKERLL--SDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFVILTKSLLPLPDKYHGLTDVDK 211 (580)
Q Consensus 134 LrD~sg~iQvv~~~~~~~--~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~vls~a~~plP~~~~~l~d~e~ 211 (580)
|+|++|.||||++++..+ .+.|+.+.+.|+.||+|+|+|.+.+|++||+||.|+++++||||+.|+|.+| |++|.++
T Consensus 156 L~d~~g~iQv~~~~~~~~~~~~~~~~~~~~l~~Gd~V~V~G~~~~t~~gel~i~~~~i~llsk~l~~lP~~~-g~~d~e~ 234 (585)
T PTZ00417 156 LVGDGAKIQVLANFAFHDHTKSNFAECYDKIRRGDIVGIVGFPGKSKKGELSIFPKETIILSPCLHMLPMKY-GLKDTEI 234 (585)
T ss_pred EEeCCeeEEEEEECCccCCCHHHHHHHHhcCCCCCEEEEEeEEcCCCCceEEEEEEEEEEEecCCCCCCccc-CCCCccc
Confidence 999999999999987543 5677764344799999999999999999999999999999999999999998 9999999
Q ss_pred ccccceeeeecCHHHHHHHHHHHHHHHHHHHHHHhCCCeeecCceeeccCCCCCCCceeeccCCCCeeEEEEecHHHHHH
Q 008040 212 RYRQRYVDMISKPEVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAAGGAEARPFVTYHNSLGRDLYLRIATELHLK 291 (580)
Q Consensus 212 r~r~R~ldl~~~~~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk 291 (580)
|||+|||||++|+..+++|++||+|+++||+||.++||+||+||+|++++|||+|+||.|++|+++.++|||||||||||
T Consensus 235 r~r~RyLdL~~n~~~~~ifr~RS~Ii~aiR~Ff~~rGFlEVeTPiL~~~~GGA~a~PF~T~~n~~d~~lYLriSpEL~lK 314 (585)
T PTZ00417 235 RYRQRYLDLMINESTRSTFITRTKIINYLRNFLNDRGFIEVETPTMNLVAGGANARPFITHHNDLDLDLYLRIATELPLK 314 (585)
T ss_pred ccccchhhhhcCHHHHHHHHHHHHHHHHHHHHHHHCCeEEEeCCeeeccCCcccceeEEecccCCCcceEEeecHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhccCCceeEEecccccCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecC--c-----eee
Q 008040 292 RMLIGGFEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQ--G-----VEI 364 (580)
Q Consensus 292 ~llv~g~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~--~-----~~i 364 (580)
+|+||||+||||||||||||+++++|||||||||||++|+||+|||+++|+||++++..+.+...+.|. | .++
T Consensus 315 rLlvgG~~rVfeIgp~FRnE~~~~rHnpEFTmlE~y~ay~dy~dlM~l~E~Li~~v~~~v~g~~~~~~~~~g~~~~~~~i 394 (585)
T PTZ00417 315 MLIVGGIDKVYEIGKVFRNEGIDNTHNPEFTSCEFYWAYADFYDLIKWSEDFFSQLVMHLFGTYKILYNKDGPEKDPIEI 394 (585)
T ss_pred HHHHhCCCCEEEEcccccCCCCCCCccceeeeeeeeeecCCHHHHHHHHHHHHHHHHHHhcCcceeeecccccccccccc
Confidence 999999999999999999999999999999999999999999999999999999999999988776664 1 257
Q ss_pred cCCCCcceeeHHHHHHHHhCCCCCC-C--CCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCCC
Q 008040 365 CLERPWRRETMHNLVKEATGIDFNE-L--GNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLVQ 441 (580)
Q Consensus 365 ~~~~pf~rit~~eai~~~~g~~~~~-~--~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~~ 441 (580)
++..||+|+||.|++++++|+++.. + ..+.+++.+++++ .|+. ++..+ .+|++++.+|+.+||+++.+
T Consensus 395 ~~~~pf~rit~~ea~~~~~g~~~~~~~~~~~~~~el~~~l~~-~g~~-------~~~~~-~~~~~l~~l~e~~vE~~l~~ 465 (585)
T PTZ00417 395 DFTPPYPKVSIVEELEKLTNTKLEQPFDSPETINKMINLIKE-NKIE-------MPNPP-TAAKLLDQLASHFIENKYPN 465 (585)
T ss_pred cCCCCceeccHHHHHHHHhCCCccccccccCCHHHHHHHHHH-cCCC-------CCCCC-CHHHHHHHHHHHHHHHhhCC
Confidence 8899999999999999999988642 1 1256778888887 7772 22222 45999999999999999975
Q ss_pred -cEEEEecCCCCCccccccCCCCCceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhh
Q 008040 442 -PTFVLDYPIEISPLAKPHRRHAGLTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKL 520 (580)
Q Consensus 442 -P~fV~dyP~~~~pfa~~~~~~~~~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~ 520 (580)
||||+|||.+++|||+.+++||++++||||||+|+||+|||+|+|||.+|++||+.|++. +
T Consensus 466 ~PtFI~dyP~~~sPLak~~~~dp~v~eRFELfi~G~EiangysELnDp~eQr~Rf~~q~~~------------------r 527 (585)
T PTZ00417 466 KPFFIIEHPQIMSPLAKYHRSKPGLTERLEMFICGKEVLNAYTELNDPFKQKECFSAQQKD------------------R 527 (585)
T ss_pred CcEEEECCChhhCchhhhcCCCCCeEEeEEeEECCEEEccCcchhcCHHHHHHHHHHHHHH------------------H
Confidence 999999999999999999999999999999999999999999999999999999999876 5
Q ss_pred hcCCccccccCCcHHHHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCCCC
Q 008040 521 KESDDHSYEVTLDDDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILKIQ 579 (580)
Q Consensus 521 ~~~~~e~~~~~~d~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~~~ 579 (580)
+.|++++++ .|++||+|++||||||||||||||||+|+|||++||||||+||+||++
T Consensus 528 ~~g~~e~~~--~Dedfl~AleyGmPPtgG~GiGIDRLvMlltg~~sIrdVi~FP~~r~~ 584 (585)
T PTZ00417 528 EKGDAEAFQ--FDAAFCTSLEYGLPPTGGLGLGIDRITMFLTNKNCIKDVILFPTMRPA 584 (585)
T ss_pred HcCCCcccc--cHHHHHHHHHcCCCCCceEEEcHHHHHHHHcCCcchheeecCCCCCCC
Confidence 677888887 899999999999999999999999999999999999999999999986
No 8
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=100.00 E-value=3.2e-120 Score=1064.29 Aligned_cols=483 Identities=42% Similarity=0.711 Sum_probs=447.6
Q ss_pred CCCHHHHHHHHHHHHHHHHHcCCCCCCCCCccCCCHHHHHHHHhhccCCccCCCCCCEEEEEEEEEeEecCCCeEEEEEe
Q 008040 56 TSDREAVRALRIKKVEELRSKGLEPYAYKWDRTHSANQLQEIYRHLANGEESNSENDHVSVAGRVVARRAFGKLAFLTLR 135 (580)
Q Consensus 56 ~~~~~e~~~~R~~kl~~L~~~g~~pyp~~~~~t~~~~~i~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~gk~~F~~Lr 135 (580)
....++|.++|++|+++|++.|++|||++|.++|+|+++.+.+ . |++|+|+|||+++|.+||++|++|+
T Consensus 607 ~~~~~~~~~~r~~k~~~l~~~g~~pyp~~~~~~~~~~~~~~~~----~-------~~~V~v~Grv~~~R~~G~~~F~~lr 675 (1094)
T PRK02983 607 EPRLPEQVRVRLAKLEALRAAGVDPYPVGVPPTHTVAEALDAP----T-------GEEVSVSGRVLRIRDYGGVLFADLR 675 (1094)
T ss_pred CCCccHHHHHHHHHHHHHHHcCCCCCCCCCcCccCHHHHHHhc----C-------CCEEEEEEEEEEEeeCCCeEEEEEE
Confidence 3456789999999999999999999999999999999998753 2 3689999999999999999999999
Q ss_pred eCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEEEccccCCCCCCCCCCCCChhhcccc
Q 008040 136 DDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFVILTKSLLPLPDKYHGLTDVDKRYRQ 215 (580)
Q Consensus 136 D~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~vls~a~~plP~~~~~l~d~e~r~r~ 215 (580)
|++|.||||++++..+++.|+.+++.|+.||+|.|+|++.+|++|++||.+++++|++||++|||+++|+++|+++|+|+
T Consensus 676 D~~g~iQ~v~~~~~~~~~~~~~~~~~l~~gd~V~v~G~v~~t~~ge~ei~~~~i~ll~k~~~plP~k~~~~~d~e~R~r~ 755 (1094)
T PRK02983 676 DWSGELQVLLDASRLEQGSLADFRAAVDLGDLVEVTGTMGTSRNGTLSLLVTSWRLAGKCLRPLPDKWKGLTDPEARVRQ 755 (1094)
T ss_pred eCCeeEEEEEECCccchhhHHHHHhcCCCCCEEEEEEEEEEcCCCCEEEEEeEEEEEeccCcCCCCccccCCChhhcchh
Confidence 99999999999887666667766666799999999999999999999999999999999999999999999999999999
Q ss_pred ceeeeecCHHHHHHHHHHHHHHHHHHHHHHhCCCeeecCceeeccCCCCCCCceeeccCCCCeeEEEEecHHHHHHHHHh
Q 008040 216 RYVDMISKPEVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAAGGAEARPFVTYHNSLGRDLYLRIATELHLKRMLI 295 (580)
Q Consensus 216 R~ldl~~~~~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~llv 295 (580)
|||||++|+.++++|++||+|+++||+||.++||+||+||+|++++|||+|+||.|++|++|+++||+||||||||+|++
T Consensus 756 R~lDL~~n~~~~~~~r~Rs~i~~~iR~fl~~~gFlEVeTPiL~~~~gGa~a~pF~t~~~~~~~~~yLriSPELylKrLiv 835 (1094)
T PRK02983 756 RYLDLAVNPEARDLLRARSAVVRAVRETLVARGFLEVETPILQQVHGGANARPFVTHINAYDMDLYLRIAPELYLKRLCV 835 (1094)
T ss_pred hhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCEeeccCCCcccceeEeeecCCCccchhhcChHHHHHHHHh
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccCCceeEEecccccCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCce-----eecCCCCc
Q 008040 296 GGFEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQGV-----EICLERPW 370 (580)
Q Consensus 296 ~g~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~~~-----~i~~~~pf 370 (580)
|||+||||||||||||++++||||||||||+||+|.||+|||+++|+||+++++.+.+...+.+.+. .++++.||
T Consensus 836 gG~erVFEIg~~FRnE~~~~rHnpEFTmLE~y~a~~dy~d~m~l~E~li~~i~~~v~~~~~~~~~~~~~~~~~i~~~~pf 915 (1094)
T PRK02983 836 GGVERVFELGRNFRNEGVDATHNPEFTLLEAYQAHADYDTMRDLTRELIQNAAQAAHGAPVVMRPDGDGVLEPVDISGPW 915 (1094)
T ss_pred cccCceEEEcceecCCCCCCCccccccchhhhhhcCCHHHHHHHHHHHHHHHHHHHhCCcEEeeCCccccccccccCCCc
Confidence 9999999999999999999999999999999999999999999999999999999998776655442 37889999
Q ss_pred ceeeHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCCCcEEEEecCC
Q 008040 371 RRETMHNLVKEATGIDFNELGNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLVQPTFVLDYPI 450 (580)
Q Consensus 371 ~rit~~eai~~~~g~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~~P~fV~dyP~ 450 (580)
+|+||.||++++.|+++.... +.+++++.+++ .|++ .++.+ ..|++++++|+.+||+++.+||||+|||.
T Consensus 916 ~rit~~eai~~~~g~~~~~~~-~~~~l~~~~~~-~~i~-------~~~~~-~~~~l~~~l~~~~ve~~~~~P~Fv~dyP~ 985 (1094)
T PRK02983 916 PVVTVHDAVSEALGEEIDPDT-PLAELRKLCDA-AGIP-------YRTDW-DAGAVVLELYEHLVEDRTTFPTFYTDFPT 985 (1094)
T ss_pred eEEEHHHHHHHHhCCCCCCCC-CHHHHHHHHHH-cCCC-------CCCCC-CHhHHHHHHHHHHHHhhcCCCEEEECCCc
Confidence 999999999999999876543 67788888877 7773 33333 34899999999999999999999999999
Q ss_pred CCCccccccCCCCCceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCcccccc
Q 008040 451 EISPLAKPHRRHAGLTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEV 530 (580)
Q Consensus 451 ~~~pfa~~~~~~~~~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~ 530 (580)
+++||||++++||++++|||||++|+||+|||+|+|||.+|++||++|... +..+++++++
T Consensus 986 ~~spla~~~~~~p~~~erFdL~i~G~Ei~ng~~El~Dp~eq~~r~~~q~~~------------------~~~~d~e~~~- 1046 (1094)
T PRK02983 986 SVSPLTRPHRSDPGLAERWDLVAWGVELGTAYSELTDPVEQRRRLTEQSLL------------------AAGGDPEAME- 1046 (1094)
T ss_pred ccccccccCCCCCCeeEEEEEEECCEEEeccccccCCHHHHHHHHHHHHHH------------------HhCCChhhcc-
Confidence 999999999999999999999999999999999999999999999988765 4677888887
Q ss_pred CCcHHHHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCCCCC
Q 008040 531 TLDDDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILKIQQ 580 (580)
Q Consensus 531 ~~d~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~~~~ 580 (580)
+|+|||+|++||||||||||||||||+|+|||. ||||||+||++|+++
T Consensus 1047 -~De~yl~al~yGmPP~gG~GiGiDRLvM~ltg~-sIRdvi~FP~~k~~~ 1094 (1094)
T PRK02983 1047 -LDEDFLQALEYAMPPTGGLGMGVDRLVMLLTGR-SIRETLPFPLVKPRQ 1094 (1094)
T ss_pred -ccHHHHHHHHcCCCCCCeEEeeHHHHHHHHhCC-ChheEecCCcCCCCC
Confidence 899999999999999999999999999999996 999999999999864
No 9
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=100.00 E-value=5.9e-119 Score=992.84 Aligned_cols=466 Identities=38% Similarity=0.682 Sum_probs=421.2
Q ss_pred CCCccCCCHHHHHHHHhhccCCccCCCCCCEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCcc-ChHHHHhhhcc
Q 008040 83 YKWDRTHSANQLQEIYRHLANGEESNSENDHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERL-LSDQFDQLKVF 161 (580)
Q Consensus 83 ~~~~~t~~~~~i~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~-~~~~~~~~~~~ 161 (580)
++|.++|++.+++++|.++..++.. .++.|+|+|||+++|.+||++|++|||++|.||||++++.. +++.|+.+.+.
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~V~vaGrV~~~R~~Gk~~F~~LrD~~G~IQvv~~~~~~~~~~~~~~~~~~ 158 (659)
T PTZ00385 81 SSFRGITPISEVRERYGYLASGDRA--AQATVRVAGRVTSVRDIGKIIFVTIRSNGNELQVVGQVGEHFTREDLKKLKVS 158 (659)
T ss_pred ccCcccccHHHHHHHhhcccccccc--CCCEEEEEEEEEeeeccCCeEEEEEEECCceEEEEEECCccCCHHHHHHHHhC
Confidence 3699999999999999877544332 13579999999999999999999999999999999998764 55677766555
Q ss_pred cCCCcEEEEEeEEEecCCceeEEEEeEEEEccccC--CCC--CC--CCCCCCChhhccccceeeeecCHHHHHHHHHHHH
Q 008040 162 VDIGDILGVSGSMKRTEKGELSVLVNSFVILTKSL--LPL--PD--KYHGLTDVDKRYRQRYVDMISKPEVADVFRKRAK 235 (580)
Q Consensus 162 l~~gd~v~v~G~v~~t~~ge~el~~~~i~vls~a~--~pl--P~--~~~~l~d~e~r~r~R~ldl~~~~~~~~~~~~Rs~ 235 (580)
|+.||+|+|+|+|.+|++||+||.|++++|||++. .++ |+ +||++.|+++|||+||||||+|+.++++|++||+
T Consensus 159 l~~gdiV~V~G~v~~t~~GeleI~~~~i~lLska~~~~~~~~p~~~k~~~~~d~e~R~r~RyLDL~~n~~~~~ifr~Rs~ 238 (659)
T PTZ00385 159 LRVGDIIGADGVPCRMQRGELSVAASRMLILSPYVCTDQVVCPNLRGFTVLQDNDVKYRYRFTDMMTNPCVIETIKKRHV 238 (659)
T ss_pred CCCCCEEEEEEEEEecCCceEEEEeeEEEEechhhhccccCCCCCccccccCChhhhcccceeeeecCHHHHHHHHHHHH
Confidence 79999999999999999999999999999999954 332 43 7899999999999999999999999999999999
Q ss_pred HHHHHHHHHHhCCCeeecCceeeccCCCCCCCceeeccCCCCeeEEEEecHHHHHHHHHhccCCceeEEecccccCCCCC
Q 008040 236 IVSEIRKTVESLGFVEVETPVLQGAAGGAEARPFVTYHNSLGRDLYLRIATELHLKRMLIGGFEKIYEIGRIFRNEGLST 315 (580)
Q Consensus 236 i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g~~rVfeIg~~FR~E~~~~ 315 (580)
|+++||+||.++||+||+||+|+++++|++|+||.|++|+++.++||+||||||||+||+|||+||||||||||||++++
T Consensus 239 I~~aiR~ff~~~gFlEVeTPiL~~~~~ga~a~pF~t~~n~~~~~~yL~~SPELylKrLivgG~erVyeIg~~FRnE~~~~ 318 (659)
T PTZ00385 239 MLQALRDYFNERNFVEVETPVLHTVASGANAKSFVTHHNANAMDLFLRVAPELHLKQCIVGGMERIYEIGKVFRNEDADR 318 (659)
T ss_pred HHHHHHHHHHHCCCEEeeCCEeeccCCCCCccceEeecccCCCCEEecCChHHHHHHHhhcccCCEEEEeceecCCCCCC
Confidence 99999999999999999999999989999999999999999999999999999999999999999999999999999999
Q ss_pred CCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecC-----c--eeecCCCCcceeeHHHHHHHHhCCCCC
Q 008040 316 RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQ-----G--VEICLERPWRRETMHNLVKEATGIDFN 388 (580)
Q Consensus 316 rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~-----~--~~i~~~~pf~rit~~eai~~~~g~~~~ 388 (580)
+|||||||||||++|.||+|||+++|+||++++..+.+...+++. + .+++++.||+|+||.+++.+++|+++.
T Consensus 319 rH~pEFTmlE~y~a~~d~~d~m~l~E~li~~~~~~v~g~~~~~~~~~~~~g~~~~i~~~~Pf~Rit~~d~~~e~~G~d~~ 398 (659)
T PTZ00385 319 SHNPEFTSCEFYAAYHTYEDLMPMTEDIFRQLAMRVNGTTVVQIYPENAHGNPVTVDLGKPFRRVSVYDEIQRMSGVEFP 398 (659)
T ss_pred CccccccceeeeeecCCHHHHHHHHHHHHHHHHHHhcCCeeEEeeccccCCCcccccCCCCceEEeHHHHHHHHhCCCCC
Confidence 999999999999999999999999999999999999998777764 3 257888999999999999999999875
Q ss_pred CCC--CCHHHH---HHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCCCcEEEEecCCCCCccccccCCCC
Q 008040 389 ELG--NDLKVA---KETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLVQPTFVLDYPIEISPLAKPHRRHA 463 (580)
Q Consensus 389 ~~~--~~~~~~---~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~~P~fV~dyP~~~~pfa~~~~~~~ 463 (580)
... ++.+++ +.++++ +|+ ++++. ..+|++++++|+.++++++.+||||+|||.+++||||.+++||
T Consensus 399 ~~~dl~~~~e~~~~~~~~~~-~gi-------~~~~~-~~~g~~~~~lfe~~ve~~l~qPtFI~dyP~e~sPLak~~~~dp 469 (659)
T PTZ00385 399 PPNELNTPKGIAYMSVVMLR-YNI-------PLPPV-RTAAKMFEKLIDFFITDRVVEPTFVMDHPLFMSPLAKEQVSRP 469 (659)
T ss_pred ccccCCCHHHHHHHHHHHHH-cCC-------CCCcc-cchhHHHHHHHHHHHHHhhCCcEEEeCCccccCcccccCCCCC
Confidence 321 123333 456666 787 33333 3458999999999999999999999999999999999999999
Q ss_pred CceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcHHHHHHHhcC
Q 008040 464 GLTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDDFVTALEYG 543 (580)
Q Consensus 464 ~~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~al~yG 543 (580)
++++|||||++|+||+|||+|+|||.+|++||++|+.. ++.+++++++ +|+|||+||+||
T Consensus 470 ~~teRFELfi~G~EiaNGysELnDp~eQr~Rfe~q~~~------------------k~~gd~ea~~--~DedfL~AleyG 529 (659)
T PTZ00385 470 GLAERFELFVNGIEYCNAYSELNDPHEQYHRFQQQLVD------------------RQGGDEEAMP--LDETFLKSLQVG 529 (659)
T ss_pred CeEEEEEEEeCCeEeeecccccCCHHHHHHHHHHHHHH------------------HhcCCchhhc--cHHHHHHHHHcC
Confidence 99999999999999999999999999999999999876 5678889888 999999999999
Q ss_pred CCCccceeccHHHHHHHHcCCCCccccccCCcCCCC
Q 008040 544 MPPASGMGLGIDRLVMLLTNSASIRDVIAFPILKIQ 579 (580)
Q Consensus 544 ~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~~~ 579 (580)
||||||||||||||||+|||++||||||+||.||++
T Consensus 530 mPPtgG~GIGIDRLvMlltg~~sIReVilFP~mr~~ 565 (659)
T PTZ00385 530 LPPTAGWGMGIDRALMLLTNSSNIRDGIIFPLLRQD 565 (659)
T ss_pred CCCCCceEEcHHHHHHHHcCCcchhheecCcccccc
Confidence 999999999999999999999999999999999985
No 10
>TIGR00459 aspS_bact aspartyl-tRNA synthetase, bacterial type. In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_bact, represents aspartyl-tRNA synthetases from the Bacteria and from mitochondria. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn). This model generates very low scores for the archaeal type of aspS and for asnS; scores between the trusted and noise cutoffs represent fragmentary sequences.
Probab=100.00 E-value=8.1e-103 Score=862.27 Aligned_cols=437 Identities=30% Similarity=0.507 Sum_probs=370.7
Q ss_pred cCCCHHHHHHHHhhccCCccCCCCCCEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCc
Q 008040 87 RTHSANQLQEIYRHLANGEESNSENDHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGD 166 (580)
Q Consensus 87 ~t~~~~~i~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd 166 (580)
++|+|+++...+ . |++|+|+|||+++|.+||++|++|||++|.||||++++ ++.|+.+++ |+.||
T Consensus 2 rt~~~~~l~~~~----~-------g~~V~l~GwV~~~R~~Gkl~Fi~LrD~sg~iQvv~~~~---~~~~~~~~~-L~~es 66 (583)
T TIGR00459 2 RTHYCGQLRTEH----L-------GQTVTLAGWVNRRRDLGGLIFIDLRDRSGIVQVVCDPD---ADALKLAKG-LRNED 66 (583)
T ss_pred CceeHhhcchhh----C-------CCEEEEEEEEEEEEcCCCcEEEEEEeCCccEEEEEeCC---HHHHHHHhc-CCCCC
Confidence 688999998654 2 47899999999999999999999999999999999876 467777766 59999
Q ss_pred EEEEEeEEEe---------cCCceeEEEEeEEEEccccCCCCCCCCCCCCChhhccccceeeeecCHHHHHHHHHHHHHH
Q 008040 167 ILGVSGSMKR---------TEKGELSVLVNSFVILTKSLLPLPDKYHGLTDVDKRYRQRYVDMISKPEVADVFRKRAKIV 237 (580)
Q Consensus 167 ~v~v~G~v~~---------t~~ge~el~~~~i~vls~a~~plP~~~~~l~d~e~r~r~R~ldl~~~~~~~~~~~~Rs~i~ 237 (580)
+|.|+|+|.+ +++|++||.|+++++||+|..++|..++...++++|+++||||| ||+.++++|++||+|+
T Consensus 67 vV~V~G~v~~r~~~~~n~~~~tg~iEl~~~~i~iL~~a~~~P~~~~~~~~~~~~Rl~~RyLDL-R~~~~~~~lr~Rs~i~ 145 (583)
T TIGR00459 67 VVQVKGKVSARPEGNINRNLDTGEIEILAESITLLNKSKTPPLIIEKTDAEEEVRLKYRYLDL-RRPEMQQRLKLRHKVT 145 (583)
T ss_pred EEEEEEEEEeCCccccCccCCCCcEEEEEeEEEEeecCCCCCCcccccccchhhhcccceEEc-CCHHHHHHHHHHHHHH
Confidence 9999999986 45899999999999999997655555566788999999999999 5899999999999999
Q ss_pred HHHHHHHHhCCCeeecCceeec-cCCCCCCCceeeccCCCCeeEE-EEecHHHHHHHHHhccCCceeEEecccccCCCCC
Q 008040 238 SEIRKTVESLGFVEVETPVLQG-AAGGAEARPFVTYHNSLGRDLY-LRIATELHLKRMLIGGFEKIYEIGRIFRNEGLST 315 (580)
Q Consensus 238 ~~iR~fl~~~gF~EVeTPiL~~-~~~Ga~a~pF~t~~~~~~~~~y-L~~Spql~lk~llv~g~~rVfeIg~~FR~E~~~~ 315 (580)
++||+||.++||+||+||+|++ +++| |++|.+++++++.++| |+||||||||+||+||++||||||||||||++++
T Consensus 146 ~~iR~ff~~~gFiEVeTP~L~~s~~eG--ar~f~vp~~~~~~~~y~L~qSpQlykq~l~v~G~ervfqI~~~FR~E~~~t 223 (583)
T TIGR00459 146 KAVRNFLDQQGFLEIETPMLTKSTPEG--ARDYLVPSRVHKGEFYALPQSPQLFKQLLMVSGVDRYYQIARCFRDEDLRA 223 (583)
T ss_pred HHHHHHHHHCCCEEEECCeeccCCCCC--CcceeeeeecCCCceeecCCCHHHHHHHHHhcccCcEEEEcceeeCCCCCC
Confidence 9999999999999999999995 5676 4789998887777776 9999999999999999999999999999999999
Q ss_pred CCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCceeecCCCCcceeeHHHHHHHHhCCCCCCC-----
Q 008040 316 RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQGVEICLERPWRRETMHNLVKEATGIDFNEL----- 390 (580)
Q Consensus 316 rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~~~~i~~~~pf~rit~~eai~~~~g~~~~~~----- 390 (580)
+|+||||||||||+|+|++|||+++|+||+++++++.+ +++..||+|+||.||+++| |.|-+++
T Consensus 224 ~r~pEFT~le~E~af~d~~dvm~~~E~li~~v~~~v~~----------~~~~~pf~r~ty~ea~~~y-GsDkPDlR~~~~ 292 (583)
T TIGR00459 224 DRQPEFTQIDMEMSFMTQEDVMELIEKLVSHVFLEVKG----------IDLKKPFPVMTYAEAMERY-GSDKPDLRFPLE 292 (583)
T ss_pred CCCcccCcceeeecCCCHHHHHHHHHHHHHHHHHHHhC----------CCCCCCceEEEHHHHHHHH-CCCCCccccCcc
Confidence 88899999999999999999999999999999999876 4568899999999999999 4442210
Q ss_pred --------------------------------------C-CCHHHHHHHHHHHcCCCC------CCcccc----------
Q 008040 391 --------------------------------------G-NDLKVAKETTLRALGDGL------ENKDKF---------- 415 (580)
Q Consensus 391 --------------------------------------~-~~~~~~~~~~~~~~g~~~------~~~~~~---------- 415 (580)
+ .+++.+.+.+++ .|.+. ...+..
T Consensus 293 ~~d~~~~~~~~~f~~~~~~~~~~~~v~~i~~~~~~~~~~~~~~~~l~~~~~~-~~~~~l~~~~~~~~~~~~~~~~~~~~~ 371 (583)
T TIGR00459 293 LIDVTDLFKDSEFKVFSNLINDGGRVKAIRVPGGWAELSRKSIKELRKFAKE-YGAKGLAYLKVNEDGINSPIKKFLDEK 371 (583)
T ss_pred cccHHHhhccCCcchhhhhhccCCeEEEEEecCCcCccCHhHHHHHHHHHHH-cCCCcceEEEEcCCcCCCchhhhcCHH
Confidence 0 123444455555 55441 110000
Q ss_pred -----------------------ccCCCCcHHhHHHHHHHH--HhcCCCCCcEEEEecCCC-----------CCcccccc
Q 008040 416 -----------------------VIESSPSVGNLLNEVFEI--VVEPKLVQPTFVLDYPIE-----------ISPLAKPH 459 (580)
Q Consensus 416 -----------------------~~~~~~~lg~~l~~~~~~--~ve~~l~~P~fV~dyP~~-----------~~pfa~~~ 459 (580)
....+..+|++..++.+. ++++...+|+||+|||.. ++||++++
T Consensus 372 ~~~~l~~~~~~~~gd~~~~~a~~~~~~~~~lG~lr~~l~~~~~l~~~~~~~~~wV~dfPlfe~~~~~~~~a~hhPfT~p~ 451 (583)
T TIGR00459 372 KGKILLERTDAQNGDILLFGAGSKKIVLDALGALRLKLGKDLGLVDPDLFSFLWVVDFPMFEKDKEGRLCAAHHPFTMPK 451 (583)
T ss_pred HHHHHHHHhCCCCCCEEEEecCcchhHHHHHHHHHHHHHHHcCCcCCCCceEEEEEeCCCccccCCCceeeeECCCCCCC
Confidence 000122367777776432 577888899999999996 99999999
Q ss_pred CCCCC---------ceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCcccccc
Q 008040 460 RRHAG---------LTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEV 530 (580)
Q Consensus 460 ~~~~~---------~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~ 530 (580)
++|+. .+++|||++||+||+|||.|+|||+.|+++|+ ++. .+++++..
T Consensus 452 ~~d~~~l~~~p~~~~~~~yDLvlnG~ElggGs~rihd~~~Q~~~f~-~l~---------------------~~~ee~~~- 508 (583)
T TIGR00459 452 DEDLENLEAAPEEALAEAYDLVLNGVELGGGSIRIHDPEVQKKVFE-ILG---------------------IDPEEARE- 508 (583)
T ss_pred CCChhhhhcChhhhhhheeeEEEeceEecceeEEeCCHHHHHHHHH-HcC---------------------CCHHHHHH-
Confidence 98877 89999999999999999999999999999999 542 24455555
Q ss_pred CCcHHHHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCC
Q 008040 531 TLDDDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILK 577 (580)
Q Consensus 531 ~~d~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~ 577 (580)
.|.+||+||+||||||||+|||||||||+|||++||||||+||+..
T Consensus 509 -~f~~ll~Al~yG~PPhgG~alG~DRlvmlLt~~~sIRDVIaFPKt~ 554 (583)
T TIGR00459 509 -KFGFLLEAFKYGTPPHAGFALGLDRLMMLLTGTDNIRDVIAFPKTT 554 (583)
T ss_pred -HHHHHHHHHhcCCCCcCceeccHHHHHHHHcCCCchhheeecCCCC
Confidence 7899999999999999999999999999999999999999999964
No 11
>TIGR00458 aspS_arch aspartyl-tRNA synthetase, archaeal type. In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_arch, represents aspartyl-tRNA synthetases from the eukaryotic cytosol and from the Archaea. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn).
Probab=100.00 E-value=2.9e-99 Score=816.97 Aligned_cols=405 Identities=27% Similarity=0.461 Sum_probs=347.9
Q ss_pred CCEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCC--ceeEEEEeE
Q 008040 111 NDHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEK--GELSVLVNS 188 (580)
Q Consensus 111 ~~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~--ge~el~~~~ 188 (580)
|++|+|+|||+++|.+||++|++|||++|.||+|++++..++++|+.+.+ |+.||+|.|+|+|.++++ |++||.+++
T Consensus 12 g~~v~i~G~v~~~R~~g~~~Fi~lrd~~g~iQ~v~~~~~~~~~~~~~~~~-l~~~s~v~v~G~v~~~~~~~~~~el~~~~ 90 (428)
T TIGR00458 12 GQEVTFMGWVHEIRDLGGLIFVLLRDREGLIQITAPAKKVSKNLFKWAKK-LNLESVVAVRGIVKIKEKAPGGFEIIPTK 90 (428)
T ss_pred CCEEEEEEEEEEEecCCCcEEEEEEeCCeeEEEEEECCcCCHHHHHHHhC-CCCCcEEEEEEEEEecCCCCCcEEEEEeE
Confidence 57899999999999999999999999999999999887666778888866 699999999999998764 899999999
Q ss_pred EEEccccCCCCCCCCC--CCCChhhccccceeeeecCHHHHHHHHHHHHHHHHHHHHHHhCCCeeecCceeeccCCCCCC
Q 008040 189 FVILTKSLLPLPDKYH--GLTDVDKRYRQRYVDMISKPEVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAAGGAEA 266 (580)
Q Consensus 189 i~vls~a~~plP~~~~--~l~d~e~r~r~R~ldl~~~~~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a 266 (580)
++|||+|..|+|.... ...+.++|+++|||||| ||.++++|++||.|+++||+||.++||+||+||+|++++.++++
T Consensus 91 i~vl~~~~~~lP~~~~~~~~~~~~~r~~~R~ldlr-~~~~~~~~r~Rs~i~~~iR~ff~~~gf~EV~TP~L~~~~~eg~~ 169 (428)
T TIGR00458 91 IEVINEAKEPLPLDPTEKVPAELDTRLDYRFLDLR-RPTVQAIFRIRSGVLESVREFLAEEGFIEVHTPKLVASATEGGT 169 (428)
T ss_pred EEEEecCCCCCCCCccccCCCCHHHHhhhhhhhhC-CHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCceecCCCCCCc
Confidence 9999999888996543 34678999999999996 89999999999999999999999999999999999977544456
Q ss_pred CceeeccCCCCeeEEEEecHHHHHHHHHhccCCceeEEecccccCCCCC-CCCccceeeeeEeecCCHHHHHHHHHHHHH
Q 008040 267 RPFVTYHNSLGRDLYLRIATELHLKRMLIGGFEKIYEIGRIFRNEGLST-RHNPEFTTIEMYEAYSDYQSMMNITEEIVT 345 (580)
Q Consensus 267 ~pF~t~~~~~~~~~yL~~Spql~lk~llv~g~~rVfeIg~~FR~E~~~~-rH~pEFtmlE~e~a~~d~~d~m~l~E~li~ 345 (580)
.+|.+ ++++.++||+||||||||+|++||++||||||||||||++++ |||||||||||||+|+|++|||+++|+||+
T Consensus 170 ~~f~v--~~~~~~~yL~~Spql~~q~li~~g~~rVf~i~~~FR~E~~~t~rHl~EFt~lE~e~a~~~~~dlm~~~e~li~ 247 (428)
T TIGR00458 170 ELFPI--TYFEREAFLGQSPQLYKQQLMAAGFERVYEIGPIFRAEEHNTHRHLNEATSIDIEMAFEDHHDVMDILEELVV 247 (428)
T ss_pred ceeee--EecCCcEEECcCHHHHHHHHHhcccCcEEEEecccccCCCCCccchheeeEeeeeeccCCHHHHHHHHHHHHH
Confidence 67865 467899999999999999999999999999999999999996 999999999999999999999999999999
Q ss_pred HHHHHHhCCceeecCceeecC---CCCcceeeHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCCCCccccccCCCCc
Q 008040 346 HCALAVNGKLTIDYQGVEICL---ERPWRRETMHNLVKEATGIDFNELGNDLKVAKETTLRALGDGLENKDKFVIESSPS 422 (580)
Q Consensus 346 ~~~~~v~~~~~~~~~~~~i~~---~~pf~rit~~eai~~~~g~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~ 422 (580)
++++.+.+.+...+....+++ +.||+||||.||++.+.. .|+. .+
T Consensus 248 ~i~~~~~~~~~~~~~~~~~~~~~~~~pf~rity~eA~~~l~~--------------------~g~~-------~~----- 295 (428)
T TIGR00458 248 RVFEDVPERCAHQLETLEFKLEKPEGKFVRLTYDEAIEMANA--------------------KGVE-------IG----- 295 (428)
T ss_pred HHHHHHHhcchhhhhhcccccccCCCCceEEEHHHHHHHHHH--------------------cCCC-------CC-----
Confidence 999999887644432222232 569999999999976421 1220 00
Q ss_pred HHhHHHHHHHHHhcCCCCCcEEEEecCCCCCccc-cccCCCCCceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHh
Q 008040 423 VGNLLNEVFEIVVEPKLVQPTFVLDYPIEISPLA-KPHRRHAGLTERFELFICGREMANAFSELTDPLDQRARLEEQVRQ 501 (580)
Q Consensus 423 lg~~l~~~~~~~ve~~l~~P~fV~dyP~~~~pfa-~~~~~~~~~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~ 501 (580)
+|..+...++..+.+.+.+|+||+|||.+++||| ++++++|++++|||||++|.||+|||+|+||+.+|++++.+.
T Consensus 296 ~~~~l~~~~E~~l~~~~~~p~fi~d~P~~~~pfy~~~~~~~p~~~~~fdl~~~g~Ei~~g~~r~~~~~~l~~~~~~~--- 372 (428)
T TIGR00458 296 WGEDLSTEAEKALGEEMDGLYFITDWPTEIRPFYTMPDEDNPEISKSFDLMYRDLEISSGAQRIHLHDLLVERIKAK--- 372 (428)
T ss_pred CccccchHHHHHHHHHhCCCEEEEeCchhcCcccccccCCCCCEEEEEEEEeCCeEEeeCchhcCCHHHHHHHHHHc---
Confidence 0222334445555555678999999999999996 688889999999999999999999999999999888776422
Q ss_pred hhhhhHhhhhhhhhhHHhhhcCCccccccCCcHHHHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCCCC
Q 008040 502 HNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILKIQ 579 (580)
Q Consensus 502 ~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~~~ 579 (580)
|.++. .|+|||+|++||||||||||||||||+|++||.+|||||++||+.+..
T Consensus 373 ---------------------g~~~~----~~~~yl~a~~~G~pP~~G~GiGidRL~m~l~g~~~Irdv~~FPr~~~r 425 (428)
T TIGR00458 373 ---------------------GLNPE----GFKDYLEAFSYGMPPHAGWGLGAERFVMFLLGLKNIREAVLFPRDRKR 425 (428)
T ss_pred ---------------------CCChH----HHHHHHHHHHCCCCCcCceeecHHHHHHHHcCCCchheEEeccCCCCC
Confidence 22222 368999999999999999999999999999999999999999998763
No 12
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=100.00 E-value=5.4e-99 Score=817.90 Aligned_cols=418 Identities=27% Similarity=0.473 Sum_probs=354.3
Q ss_pred cCCCHHHHHHHHhhccCCccCCCCCCEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCc
Q 008040 87 RTHSANQLQEIYRHLANGEESNSENDHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGD 166 (580)
Q Consensus 87 ~t~~~~~i~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd 166 (580)
++|+|+++...+ . |++|+|+|||+++|.+||++|++|||++|.||+|++++.. ++.++.+++ |+.||
T Consensus 3 ~~~~~~~l~~~~----~-------g~~V~i~GrV~~~R~~gk~~Fl~LrD~~g~iQ~v~~~~~~-~~~~~~~~~-L~~gs 69 (437)
T PRK05159 3 KRHLTSELTPEL----D-------GEEVTLAGWVHEIRDLGGIAFLILRDRSGIIQVVVKKKVD-EELFETIKK-LKRES 69 (437)
T ss_pred ceeEhhhCChhh----C-------CCEEEEEEEeEeeecCCCeEEEEEEcCCcEEEEEEeCCcc-HHHHHHHhC-CCCCc
Confidence 678898888654 2 4789999999999999999999999999999999988755 567887766 69999
Q ss_pred EEEEEeEEEecCC--ceeEEEEeEEEEccccCCCCCCCCCC--CCChhhccccceeeeecCHHHHHHHHHHHHHHHHHHH
Q 008040 167 ILGVSGSMKRTEK--GELSVLVNSFVILTKSLLPLPDKYHG--LTDVDKRYRQRYVDMISKPEVADVFRKRAKIVSEIRK 242 (580)
Q Consensus 167 ~v~v~G~v~~t~~--ge~el~~~~i~vls~a~~plP~~~~~--l~d~e~r~r~R~ldl~~~~~~~~~~~~Rs~i~~~iR~ 242 (580)
+|.|+|++.++++ |++||.+++++|||+|..++|...++ ..+.+.|+++||||| +|+.++++|++||.|+++||+
T Consensus 70 ~V~v~G~v~~~~~~~~~~el~~~~i~vls~a~~~~P~~~~~~~~~~~~~~~~~r~Ldl-r~~~~~~~l~~Rs~i~~~iR~ 148 (437)
T PRK05159 70 VVSVTGTVKANPKAPGGVEVIPEEIEVLNKAEEPLPLDISGKVLAELDTRLDNRFLDL-RRPRVRAIFKIRSEVLRAFRE 148 (437)
T ss_pred EEEEEEEEEcCCCCCCCEEEEEeEEEEEeCCCCCCCCCccccccCCHHHHhhCcceec-CCHHHHHHHHHHHHHHHHHHH
Confidence 9999999999886 89999999999999999889965433 467899999999999 589999999999999999999
Q ss_pred HHHhCCCeeecCceeeccCCCCCCCceeeccCCCCeeEEEEecHHHHHHHHHhccCCceeEEecccccCCCCC-CCCccc
Q 008040 243 TVESLGFVEVETPVLQGAAGGAEARPFVTYHNSLGRDLYLRIATELHLKRMLIGGFEKIYEIGRIFRNEGLST-RHNPEF 321 (580)
Q Consensus 243 fl~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g~~rVfeIg~~FR~E~~~~-rH~pEF 321 (580)
||.++||+||+||+|+++..+.++..|.+ +++|.++||+||||||||++++||++||||||||||||++++ ||||||
T Consensus 149 ff~~~gf~EV~TP~L~~~~~eg~~~~f~~--~~~~~~~~L~~Spql~~q~l~~~g~~rVf~i~~~FR~E~~~t~rHl~EF 226 (437)
T PRK05159 149 FLYENGFTEIFTPKIVASGTEGGAELFPI--DYFEKEAYLAQSPQLYKQMMVGAGFERVFEIGPVFRAEEHNTSRHLNEY 226 (437)
T ss_pred HHHHCCCEEEeCCcccccCCCCCcceEeE--EecCCceEecCCHHHHHHHHHhcCCCcEEEEeceeeCCCCCCcccchhh
Confidence 99999999999999986532222445544 578999999999999999999999999999999999999997 999999
Q ss_pred eeeeeEeecCC-HHHHHHHHHHHHHHHHHHHhCCce--eecCceeec-CCCCcceeeHHHHHHHHhC--CCCCCCCCCHH
Q 008040 322 TTIEMYEAYSD-YQSMMNITEEIVTHCALAVNGKLT--IDYQGVEIC-LERPWRRETMHNLVKEATG--IDFNELGNDLK 395 (580)
Q Consensus 322 tmlE~e~a~~d-~~d~m~l~E~li~~~~~~v~~~~~--~~~~~~~i~-~~~pf~rit~~eai~~~~g--~~~~~~~~~~~ 395 (580)
|||||||+|.| |+|||+++|+||+++++.+.+++. +.+.+..++ ++.||+||||.||++.+.. .++..
T Consensus 227 t~lE~e~a~~~~~~~lm~~~e~lv~~i~~~~~~~~~~~i~~~~~~~~~~~~~f~rit~~eA~~~l~~~~~~~~~------ 300 (437)
T PRK05159 227 TSIDVEMGFIDDHEDVMDLLENLLRYMYEDVAENCEKELELLGIELPVPETPIPRITYDEAIEILKSKGNEISW------ 300 (437)
T ss_pred heeeeeeeecccHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhccCCCcCCCCceEeEHHHHHHHHHHcCCCCCC------
Confidence 99999999998 999999999999999999977542 334443333 5589999999999998742 22110
Q ss_pred HHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCCC-cEEEEecCCCCCccc-cccCCCCCceeEEEEEE
Q 008040 396 VAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLVQ-PTFVLDYPIEISPLA-KPHRRHAGLTERFELFI 473 (580)
Q Consensus 396 ~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~~-P~fV~dyP~~~~pfa-~~~~~~~~~~~rFdL~i 473 (580)
| . .++.....++...+++.+.. |+||+|||.+++||| ++++++|++++|||||+
T Consensus 301 ----------~-----------~---~~~~~~e~~l~~~~~~~~~~~p~fi~~~P~~~~pfy~~~~~~~~~~~~~fdl~~ 356 (437)
T PRK05159 301 ----------G-----------D---DLDTEGERLLGEYVKEEYGSDFYFITDYPSEKRPFYTMPDEDDPEISKSFDLLF 356 (437)
T ss_pred ----------C-----------C---CCCcHHHHHHHHHHhhhcCCceEEEecCchhcCcceeeecCCCCCEEEEEEEEE
Confidence 0 0 01222333444455555554 899999999999995 57788899999999999
Q ss_pred cCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcHHHHHHHhcCCCCccceecc
Q 008040 474 CGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDDFVTALEYGMPPASGMGLG 553 (580)
Q Consensus 474 ~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~al~yG~PP~gG~GiG 553 (580)
+|+||+|||+|+|||++|+++|+++ +.+.+ .++|||+|++||||||||||||
T Consensus 357 ~g~Ei~~g~~r~~d~~~~~~~~~~~-----------------------g~~~~-----~~~~yl~a~~~G~pp~~G~giG 408 (437)
T PRK05159 357 RGLEITSGGQRIHRYDMLVESIKEK-----------------------GLNPE-----SFEFYLEAFKYGMPPHGGFGLG 408 (437)
T ss_pred CCEEEeeCeEEcCCHHHHHHHHHHc-----------------------CCCHH-----HHHHHHHHHHCCCCCCCeeeEh
Confidence 9999999999999999999888743 12222 3589999999999999999999
Q ss_pred HHHHHHHHcCCCCccccccCCcCCC
Q 008040 554 IDRLVMLLTNSASIRDVIAFPILKI 578 (580)
Q Consensus 554 iDRLvMlltg~~sIrdvi~FP~~~~ 578 (580)
||||+|++||.+|||||++||+.++
T Consensus 409 idRl~m~~~g~~~Irdv~~FPr~~~ 433 (437)
T PRK05159 409 LERLTMKLLGLENIREAVLFPRDRH 433 (437)
T ss_pred HHHHHHHHcCCCchhEEeeccCCCC
Confidence 9999999999999999999999875
No 13
>COG0173 AspS Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.2e-97 Score=790.50 Aligned_cols=437 Identities=28% Similarity=0.470 Sum_probs=361.5
Q ss_pred cCCCHHHHHHHHhhccCCccCCCCCCEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCc
Q 008040 87 RTHSANQLQEIYRHLANGEESNSENDHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGD 166 (580)
Q Consensus 87 ~t~~~~~i~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd 166 (580)
|||+|++|+..+ . |++|+|+|||+++|++|+++|+||||.+|.+|||++.+. +++.|+.+.. |+.|+
T Consensus 2 Rt~~cg~l~~~~----v-------G~~V~L~GWV~r~Rd~GgliFiDLRDr~GivQvv~~~~~-~~~~~~~a~~-lr~E~ 68 (585)
T COG0173 2 RTHYCGELRESH----V-------GQTVTLSGWVHRRRDHGGLIFIDLRDREGIVQVVFDPED-SPEAFEVASR-LRNEF 68 (585)
T ss_pred CceeccccCHHH----C-------CCEEEEEeeeeeccccCCeEEEEcccCCCeEEEEECCcc-CHHHHHHHHh-cCceE
Confidence 799999999876 4 489999999999999999999999999999999999863 4678998888 59999
Q ss_pred EEEEEeEEEec---------CCceeEEEEeEEEEccccCCCCCCCC--CCCCChhhccccceeeeecCHHHHHHHHHHHH
Q 008040 167 ILGVSGSMKRT---------EKGELSVLVNSFVILTKSLLPLPDKY--HGLTDVDKRYRQRYVDMISKPEVADVFRKRAK 235 (580)
Q Consensus 167 ~v~v~G~v~~t---------~~ge~el~~~~i~vls~a~~plP~~~--~~l~d~e~r~r~R~ldl~~~~~~~~~~~~Rs~ 235 (580)
+|.|+|+|... +||++||.|++|+|||+|. ++|... ..-..+++|++||||||| +|.+++.+++||+
T Consensus 69 vi~V~G~V~~R~e~~~N~~l~TGeiEv~a~~i~vln~s~-~lPf~i~d~~~~~Ee~RLkYRyLDLR-R~~m~~~l~lR~k 146 (585)
T COG0173 69 VIQVTGTVRARPEGTINPNLPTGEIEVLAEEIEVLNASK-TLPFQIEDETNASEEIRLKYRYLDLR-RPEMQKNLKLRSK 146 (585)
T ss_pred EEEEEEEEEecCccccCCCCCcceEEEEeeeEEEEecCC-CCCcCCCCCCCcchhhhhhhhhhhhc-CHHHHHHHHHHHH
Confidence 99999999864 4799999999999999986 455333 224578999999999996 6999999999999
Q ss_pred HHHHHHHHHHhCCCeeecCceee-ccCCCCCCCceeeccCCCCeeEE-EEecHHHHHHHHHhccCCceeEEecccccCCC
Q 008040 236 IVSEIRKTVESLGFVEVETPVLQ-GAAGGAEARPFVTYHNSLGRDLY-LRIATELHLKRMLIGGFEKIYEIGRIFRNEGL 313 (580)
Q Consensus 236 i~~~iR~fl~~~gF~EVeTPiL~-~~~~Ga~a~pF~t~~~~~~~~~y-L~~Spql~lk~llv~g~~rVfeIg~~FR~E~~ 313 (580)
++.+||+||+++||+|||||+|+ |+|+| ||.|.||++.....+| |+||||||+|.|||+||+|||||+||||+|+.
T Consensus 147 v~~~iR~~ld~~gF~EiETPiLtkSTPEG--ARDfLVPSRv~~G~FYALPQSPQlfKQLLMvsGfdRYyQIarCFRDEDl 224 (585)
T COG0173 147 VTKAIRNFLDDQGFLEIETPILTKSTPEG--ARDFLVPSRVHPGKFYALPQSPQLFKQLLMVAGFDRYYQIARCFRDEDL 224 (585)
T ss_pred HHHHHHHHHhhcCCeEeecCccccCCCcc--ccccccccccCCCceeecCCCHHHHHHHHHHhcccceeeeeeeeccccc
Confidence 99999999999999999999999 56888 7999999998877788 99999999999999999999999999999999
Q ss_pred CCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCceeecCCCCcceeeHHHHHHHHhCCCCCCCCC-
Q 008040 314 STRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQGVEICLERPWRRETMHNLVKEATGIDFNELGN- 392 (580)
Q Consensus 314 ~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~~~~i~~~~pf~rit~~eai~~~~g~~~~~~~~- 392 (580)
+.+++|||||||+||+|.|.+|+|+++|+|+.++++.+.| +++..||+||||.||+..| |.|-+++-.
T Consensus 225 RaDRQPEFTQiD~EmSF~~~edv~~~~E~l~~~vf~~~~~----------i~l~~pFprmtY~eAm~~Y-GSDKPDlRf~ 293 (585)
T COG0173 225 RADRQPEFTQIDLEMSFVDEEDVMELIEKLLRYVFKEVKG----------IELKTPFPRMTYAEAMRRY-GSDKPDLRFP 293 (585)
T ss_pred ccccCCcceeEeEEeecCCHHHHHHHHHHHHHHHHHHhcC----------CccCCCcccccHHHHHHHh-CCCCCcccCC
Confidence 9999999999999999999999999999999999998876 5678899999999999998 333222110
Q ss_pred ------------------------------------------CHHHHHHHHHHHcCCCCCCccccc--------------
Q 008040 393 ------------------------------------------DLKVAKETTLRALGDGLENKDKFV-------------- 416 (580)
Q Consensus 393 ------------------------------------------~~~~~~~~~~~~~g~~~~~~~~~~-------------- 416 (580)
.++.+.+.++. .|.++. .|..+
T Consensus 294 lel~dvt~~~~~~~F~vF~~~~~~~~~v~ai~vp~~~~~sRk~id~~~~~ak~-~gakGL-a~ikv~~~~~~gpi~kfl~ 371 (585)
T COG0173 294 LELIDVTDLFKDSEFKVFSNALANGGRVKAIVVPGGASLSRKQIDELTEFAKI-YGAKGL-AYIKVEEDGLKGPIAKFLS 371 (585)
T ss_pred ceehhHHHHhcCCCcceehhhhhcCCeEEEEEcCCccccCHHHHHHHHHHHHH-cCCCce-EEEEEecCCccchHHHhcC
Confidence 01122223333 332211 00000
Q ss_pred --------------------------cCCCCcHHhHHHHHHHH--HhcCCCCCcEEEEecCCC------------CCccc
Q 008040 417 --------------------------IESSPSVGNLLNEVFEI--VVEPKLVQPTFVLDYPIE------------ISPLA 456 (580)
Q Consensus 417 --------------------------~~~~~~lg~~l~~~~~~--~ve~~l~~P~fV~dyP~~------------~~pfa 456 (580)
...+..+|.+..++... ++.+....++||+|||.. ++||+
T Consensus 372 e~~~~~l~~~~~~~~gD~iff~A~~~~~~~~~lGalR~~l~~~l~li~~~~~~f~WVvDFPlfE~~ee~~~~~a~HHPFT 451 (585)
T COG0173 372 EEILEELIERLGAEDGDIIFFVADKKKVVNKALGALRLKLGKELGLIDKDQFKFLWVVDFPLFEWDEEEGRYVAAHHPFT 451 (585)
T ss_pred HHHHHHHHHHhCCCCCCEEEEecCcHHHHHHHHHHHHHHHHHHhCCCCcccceEEEEEecCccCCccccCceecccCCCC
Confidence 00123345555554443 455555679999999983 68999
Q ss_pred cccCCCCC---------ceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccc
Q 008040 457 KPHRRHAG---------LTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHS 527 (580)
Q Consensus 457 ~~~~~~~~---------~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~ 527 (580)
+|++.+.. .+..|||++||+||++|+.|+|||+.|++.|+.... ..+++
T Consensus 452 ~P~~~~~~~l~~~p~~~~a~aYDlVlNG~ElggGSiRIh~~eiQ~~vF~~lg~----------------------~~eea 509 (585)
T COG0173 452 MPKPEDLELLEADPESVRARAYDLVLNGYELGGGSIRIHDPEIQEKVFEILGI----------------------SPEEA 509 (585)
T ss_pred CCCccchhhhhcCHHHhhhhhccEEeccEeeccceeeeCCHHHHHHHHHHcCC----------------------CHHHH
Confidence 98775432 478999999999999999999999999999986421 12334
Q ss_pred cccCCcHHHHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCC
Q 008040 528 YEVTLDDDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILK 577 (580)
Q Consensus 528 ~~~~~d~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~ 577 (580)
.. .+..+|+|++||.|||||+|+|||||||+|+|..||||||+||+.-
T Consensus 510 ~e--kFGFll~Af~yGaPPHgGiA~GlDRlvmll~g~~sIReVIAFPKt~ 557 (585)
T COG0173 510 EE--KFGFLLEAFKYGAPPHGGIAFGLDRLVMLLTGAESIRDVIAFPKTQ 557 (585)
T ss_pred HH--HHHHHHHHHhcCCCCCcceeccHHHHHHHHcCCCchhheeecCCCc
Confidence 44 6778999999999999999999999999999999999999999864
No 14
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=100.00 E-value=5e-95 Score=797.84 Aligned_cols=410 Identities=21% Similarity=0.371 Sum_probs=338.1
Q ss_pred CCCEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecC-ccChHHHHhhhcccCCCcEEEEEeEEEe-------cCCce
Q 008040 110 ENDHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKE-RLLSDQFDQLKVFVDIGDILGVSGSMKR-------TEKGE 181 (580)
Q Consensus 110 ~~~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~-~~~~~~~~~~~~~l~~gd~v~v~G~v~~-------t~~ge 181 (580)
.|++|+|+|||+++|.+||++|++|||++|+||+|+..+ ..++++++.+.+ |+.||+|.|+|+|.+ +.+|+
T Consensus 77 ~g~~V~v~Grv~~~R~~Gk~~Fl~LRd~~~~iQ~v~~~~~~~~~~~~~~~~~-l~~esiV~V~G~v~~~~~~~~~~~~~~ 155 (550)
T PTZ00401 77 VDKTVLIRARVSTTRKKGKMAFMVLRDGSDSVQAMAAVEGDVPKEMIDFIGQ-IPTESIVDVEATVCKVEQPITSTSHSD 155 (550)
T ss_pred CCCEEEEEEEEEEEecCCCeEEEEEEeCCcCEEEEEECCCccCHHHHHHHhc-CCCCCEEEEEEEEEecCccCCCCCCcc
Confidence 468999999999999999999999999999999999754 345667777766 699999999999986 34689
Q ss_pred eEEEEeEEEEccccCCCCCCCCCC---------C-CChhhccccceeeeecCHHHHHHHHHHHHHHHHHHHHHHhCCCee
Q 008040 182 LSVLVNSFVILTKSLLPLPDKYHG---------L-TDVDKRYRQRYVDMISKPEVADVFRKRAKIVSEIRKTVESLGFVE 251 (580)
Q Consensus 182 ~el~~~~i~vls~a~~plP~~~~~---------l-~d~e~r~r~R~ldl~~~~~~~~~~~~Rs~i~~~iR~fl~~~gF~E 251 (580)
+||++++|+|||+|..+||..... + .+.++|+++|||||| +|.++++|++||.|+++||+||.++||+|
T Consensus 156 ~El~v~~i~vls~a~~~lP~~~~d~~~~~~~~~~~~~~dtrl~~R~LdlR-~~~~~~i~r~rs~i~~~~R~fl~~~gFiE 234 (550)
T PTZ00401 156 IELKVKKIHTVTESLRTLPFTLEDASRKESDEGAKVNFDTRLNSRWMDLR-TPASGAIFRLQSRVCQYFRQFLIDSDFCE 234 (550)
T ss_pred EEEEeeEEEEEeCCCCCCCCCcccccccccccccccChhhhhhhhhhhhc-CHHHHHHHHHHHHHHHHHHHHHHHCCCEE
Confidence 999999999999998888854322 2 368999999999996 89999999999999999999999999999
Q ss_pred ecCceeeccCCCCCCCceeeccCCCCeeEEEEecHHHHHHHHHhccCCceeEEecccccCCCCC-CCCccceeeeeEeec
Q 008040 252 VETPVLQGAAGGAEARPFVTYHNSLGRDLYLRIATELHLKRMLIGGFEKIYEIGRIFRNEGLST-RHNPEFTTIEMYEAY 330 (580)
Q Consensus 252 VeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g~~rVfeIg~~FR~E~~~~-rH~pEFtmlE~e~a~ 330 (580)
|+||+|++++.++++.+|.+ +++|.++||+||||||||+|++|||+||||||||||||+++| |||||||||||||+|
T Consensus 235 V~TP~L~~~~~egga~~F~v--~yf~~~~~L~qSpql~kq~li~~g~~rVfeI~p~FRaE~s~T~RHl~EFt~Le~E~~~ 312 (550)
T PTZ00401 235 IHSPKIINAPSEGGANVFKL--EYFNRFAYLAQSPQLYKQMVLQGDVPRVFEVGPVFRSENSNTHRHLTEFVGLDVEMRI 312 (550)
T ss_pred EeCCccccCCCCcccccccc--ccCCCCeecCCCHHHHHHHHHhcCCCCEEEEeCeEeCCCCCCCCCccchhhhhhhhHh
Confidence 99999997654446788976 678999999999999999999999999999999999999996 999999999999998
Q ss_pred C-CHHHHHHHHHHHHHHHHHHHhCCce-eecCceeec-------------------------------------CCCCcc
Q 008040 331 S-DYQSMMNITEEIVTHCALAVNGKLT-IDYQGVEIC-------------------------------------LERPWR 371 (580)
Q Consensus 331 ~-d~~d~m~l~E~li~~~~~~v~~~~~-~~~~~~~i~-------------------------------------~~~pf~ 371 (580)
. +|+|+|+++|+||.+++..+.+... +.+.+.... +..||+
T Consensus 313 ~~~y~evm~~~e~l~~~i~~~l~~~~~ei~~~~~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~l~~~~~~~~~~~~ 392 (550)
T PTZ00401 313 NEHYYEVLDLAESLFNYIFERLATHTKELKAVCQQYPFEPLVWKLTPERMKELGVGVISEGVEPTDKYQARVHNMDSRML 392 (550)
T ss_pred cCCHHHHHHHHHHHHHHHHHHHHccchhhhhhccccccccccccccHHHHHhcCCCcccccccchHHHHHHHHhcCCCcc
Confidence 5 7999999999999999998876421 111111000 123477
Q ss_pred eeeHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCCCcEEEEe-cCC
Q 008040 372 RETMHNLVKEATGIDFNELGNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLVQPTFVLD-YPI 450 (580)
Q Consensus 372 rit~~eai~~~~g~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~~P~fV~d-yP~ 450 (580)
|++|.||++.+... .+... .|. +. +......++..+|+++++.|+||+| ||.
T Consensus 393 rl~y~eai~lL~~~-------------------~~~~~--~~~---~d---l~~~~E~~L~~~v~~~~~~~~fI~d~yP~ 445 (550)
T PTZ00401 393 RINYMHCIELLNTV-------------------LEEKM--APT---DD---INTTNEKLLGKLVKERYGTDFFISDRFPS 445 (550)
T ss_pred cccHHHHHHHHHHh-------------------cccCC--Ccc---cc---cCchHHHHHHHHHHHhcCCCEEEECCCCh
Confidence 77777777655321 00000 000 00 1122233344566778889999998 999
Q ss_pred CCCccc-cccCCCCCceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccc
Q 008040 451 EISPLA-KPHRRHAGLTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYE 529 (580)
Q Consensus 451 ~~~pfa-~~~~~~~~~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~ 529 (580)
+++||| |++++||++++|||||++|.||+|||+|+|||++|++|+.+. |.+..
T Consensus 446 ~~rpFY~~~~~~dp~~s~~fDlf~~G~EI~sG~qR~~d~~~l~~r~~~~------------------------G~d~~-- 499 (550)
T PTZ00401 446 SARPFYTMECKDDERFTNSYDMFIRGEEISSGAQRIHDPDLLLARAKML------------------------NVDLT-- 499 (550)
T ss_pred hhCchhcCcCCCCCCEEEEEEEEeCCEEEccchhhcCCHHHHHHHHHHc------------------------CCCch--
Confidence 999996 788899999999999999999999999999999999987532 22221
Q ss_pred cCCcHHHHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCCC
Q 008040 530 VTLDDDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILKI 578 (580)
Q Consensus 530 ~~~d~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~~ 578 (580)
.++|||+|++||||||||||||||||||++||+.|||||++|||.+.
T Consensus 500 --~~~~Yl~a~~~G~PPhgG~GiGlERLvM~~lg~~nIR~v~lFPRdp~ 546 (550)
T PTZ00401 500 --PIKEYVDSFRLGAWPHGGFGVGLERVVMLYLGLSNVRLASLFPRDPQ 546 (550)
T ss_pred --hhHHHHHHHHcCCCCCceEEEhHHHHHHHHhCCCcHheeecCCCCCC
Confidence 35899999999999999999999999999999999999999999875
No 15
>PLN02850 aspartate-tRNA ligase
Probab=100.00 E-value=1.3e-94 Score=794.30 Aligned_cols=408 Identities=24% Similarity=0.381 Sum_probs=338.8
Q ss_pred CCCEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCc--cChHHHHhhhcccCCCcEEEEEeEEEe------cCCce
Q 008040 110 ENDHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKER--LLSDQFDQLKVFVDIGDILGVSGSMKR------TEKGE 181 (580)
Q Consensus 110 ~~~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~--~~~~~~~~~~~~l~~gd~v~v~G~v~~------t~~ge 181 (580)
.|++|+|+|||+++|.+|+++|++|||++++||+|+.++. +++++++.+.+ |+.||+|.|+|+|.+ +.+++
T Consensus 80 ~g~~V~v~Grv~~~R~~gk~~Fl~Lrd~~~~iQ~v~~~~~~~~~~~~~~~~~~-l~~es~V~V~G~v~~~~~~~~~~t~~ 158 (530)
T PLN02850 80 AGSEVLIRGRVHTIRGKGKSAFLVLRQSGFTVQCVVFVSEVTVSKGMVKYAKQ-LSRESVVDVEGVVSVPKKPVKGTTQQ 158 (530)
T ss_pred CCCEEEEEEEEEEEccCCCeEEEEEEeCCcCEEEEEECCccccCHHHHHHHhC-CCCCCEEEEEEEEEccCcCCCCCCcc
Confidence 3589999999999999999999999999999999998764 45567777766 699999999999984 45679
Q ss_pred eEEEEeEEEEccccCCCCCCCCC-------------------CCCChhhccccceeeeecCHHHHHHHHHHHHHHHHHHH
Q 008040 182 LSVLVNSFVILTKSLLPLPDKYH-------------------GLTDVDKRYRQRYVDMISKPEVADVFRKRAKIVSEIRK 242 (580)
Q Consensus 182 ~el~~~~i~vls~a~~plP~~~~-------------------~l~d~e~r~r~R~ldl~~~~~~~~~~~~Rs~i~~~iR~ 242 (580)
+||++++|+|||+|..++|.... ...+.++|+++|||||| ++.++++|++||.|++++|+
T Consensus 159 ~El~~~~i~vls~a~~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~rl~~R~LdlR-~~~~qaifrirs~i~~~~R~ 237 (530)
T PLN02850 159 VEIQVRKIYCVSKALATLPFNVEDAARSESEIEKALQTGEQLVRVGQDTRLNNRVLDLR-TPANQAIFRIQSQVCNLFRE 237 (530)
T ss_pred EEEEEeEEEEEeCCCCCCCCChhhcccccccccccccccccccccChhhhhcchhhhhc-CHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999888884432 12467999999999997 89999999999999999999
Q ss_pred HHHhCCCeeecCceeeccCCCCCCCceeeccCCCCeeEEEEecHHHHHHHHHhccCCceeEEecccccCCCCC-CCCccc
Q 008040 243 TVESLGFVEVETPVLQGAAGGAEARPFVTYHNSLGRDLYLRIATELHLKRMLIGGFEKIYEIGRIFRNEGLST-RHNPEF 321 (580)
Q Consensus 243 fl~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g~~rVfeIg~~FR~E~~~~-rH~pEF 321 (580)
||.++||+||+||+|+++....++.+|.| ++++.++||+||||||||++++|||+||||||||||||++++ ||+|||
T Consensus 238 fl~~~gF~EV~TP~L~~~~~egga~~F~v--~yf~~~~~L~qSpql~kq~li~~g~~rVfeIgp~FRaE~s~t~RHl~EF 315 (530)
T PLN02850 238 FLLSKGFVEIHTPKLIAGASEGGSAVFRL--DYKGQPACLAQSPQLHKQMAICGDFRRVFEIGPVFRAEDSFTHRHLCEF 315 (530)
T ss_pred HHHHCCcEEEeCCccccCCCccccceeee--ccCCcceecCCCHHHHHHHHHHhcCCceEEEecccccCCCCCCccchhh
Confidence 99999999999999986543334679987 468999999999999999999999999999999999999865 999999
Q ss_pred eeeeeEeecC-CHHHHHHHHHHHHHHHHHHHhCCce--eecCc-----eeecCCCCcceeeHHHHHHHHh--CCCCCCCC
Q 008040 322 TTIEMYEAYS-DYQSMMNITEEIVTHCALAVNGKLT--IDYQG-----VEICLERPWRRETMHNLVKEAT--GIDFNELG 391 (580)
Q Consensus 322 tmlE~e~a~~-d~~d~m~l~E~li~~~~~~v~~~~~--~~~~~-----~~i~~~~pf~rit~~eai~~~~--g~~~~~~~ 391 (580)
|||||||+|. +|+|||+++|+||++++..+.+.+. +...+ ..+.+..+|+|+||.||+..+. |+++...
T Consensus 316 t~Le~Em~~~~~y~evm~~~E~ll~~i~~~l~~~~~~el~~i~~~~~~~~~~~~~~~~rit~~ea~~~L~~~g~~~~~~- 394 (530)
T PLN02850 316 TGLDLEMEIKEHYSEVLDVVDELFVAIFDGLNERCKKELEAIREQYPFEPLKYLPKTLRLTFAEGIQMLKEAGVEVDPL- 394 (530)
T ss_pred ccchhhhhhhcCHHHHHHHHHHHHHHHHHHHHhhhhhhHHhhcccCCcchhhhcCCcccCCHHHHHHHHHHcCCCCCCC-
Confidence 9999999998 6999999999999999998876542 21111 1223445778999999887653 3222111
Q ss_pred CCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCCCc-EEEEecCCCCCccc-cccCCCCCceeEE
Q 008040 392 NDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLVQP-TFVLDYPIEISPLA-KPHRRHAGLTERF 469 (580)
Q Consensus 392 ~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~~P-~fV~dyP~~~~pfa-~~~~~~~~~~~rF 469 (580)
..+......++..++++++..| +||+|||.+++||| |++++||++++||
T Consensus 395 -----------------------------~dl~~~~E~~Lg~~v~~~~~~~~~ii~~yP~~~~pfY~~~~~~d~~~~~~f 445 (530)
T PLN02850 395 -----------------------------GDLNTESERKLGQLVKEKYGTDFYILHRYPLAVRPFYTMPCPDDPKYSNSF 445 (530)
T ss_pred -----------------------------CCcchHHHHHHHHHHHHhcCCCeEEEECCccccCchhccccCCCCCeEEEE
Confidence 0112333344445555666665 56789999999996 7888999999999
Q ss_pred EEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcHHHHHHHhcCCCCccc
Q 008040 470 ELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDDFVTALEYGMPPASG 549 (580)
Q Consensus 470 dL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~al~yG~PP~gG 549 (580)
|||++|.||+|||+|+|||++|++|+++. +.+.+. .+|||+|++||||||||
T Consensus 446 Dl~i~G~EI~~G~qr~~d~~~l~~r~~~~-----------------------g~d~~~-----~~~Yl~a~~~G~pPhgG 497 (530)
T PLN02850 446 DVFIRGEEIISGAQRVHDPELLEKRAEEC-----------------------GIDVKT-----ISTYIDSFRYGAPPHGG 497 (530)
T ss_pred EEEeCCEEEeccceecCCHHHHHHHHHHc-----------------------CCChHH-----HHHHHHHHHcCCCCCce
Confidence 99999999999999999999988887542 122222 38999999999999999
Q ss_pred eeccHHHHHHHHcCCCCccccccCCcCCCC
Q 008040 550 MGLGIDRLVMLLTNSASIRDVIAFPILKIQ 579 (580)
Q Consensus 550 ~GiGiDRLvMlltg~~sIrdvi~FP~~~~~ 579 (580)
|||||||||||+||++|||||++|||.+..
T Consensus 498 ~GiGlERLvM~l~g~~nIr~v~~FPR~p~r 527 (530)
T PLN02850 498 FGVGLERVVMLFCGLNNIRKTSLFPRDPQR 527 (530)
T ss_pred EEEcHHHHHHHHcCCCchheEeecCCCCCC
Confidence 999999999999999999999999998753
No 16
>TIGR00457 asnS asparaginyl-tRNA synthetase. In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, asnS, represents asparaginyl-tRNA synthetases from the three domains of life. Some species lack this enzyme and charge tRNA(asn) by misacylation with Asp, followed by transamidation of Asp to Asn.
Probab=100.00 E-value=5.2e-93 Score=772.09 Aligned_cols=407 Identities=24% Similarity=0.346 Sum_probs=335.7
Q ss_pred CCCEEEEEEEEEeEecCCCeEEEEEeeCC--eeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEec--CCceeEEE
Q 008040 110 ENDHVSVAGRVVARRAFGKLAFLTLRDDS--GTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRT--EKGELSVL 185 (580)
Q Consensus 110 ~~~~V~v~GrV~~~R~~gk~~F~~LrD~s--g~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t--~~ge~el~ 185 (580)
.|++|+|+|||+++|.+||++|++|||++ |.||+|++++ ..++.++.++. |+.||+|.|+|++.++ ++|++||.
T Consensus 15 ~g~~v~v~Gwv~~~R~~~~~~F~~lrD~~~~g~iQ~v~~~~-~~~~~~~~~~~-l~~gs~V~v~G~v~~~~~~~~~~El~ 92 (453)
T TIGR00457 15 VGDEVTVSGWVRTKRSSKKIIFLELNDGSSLGPIQAVINGE-DNPYLFQLLKS-LTTGSSVSVTGKVVESPGKGQPVELQ 92 (453)
T ss_pred CCCEEEEEEEeEEEEcCCCeEEEEEECCCCCccEEEEEeCC-cChHHHHHHHc-CCCCcEEEEEEEEEcCCCCCCCEEEE
Confidence 35899999999999999999999999999 9999999877 34556777766 6999999999999987 57899999
Q ss_pred EeEEEEccccC---CCCCCCCCCCCChhhccccceeeeecCHHHHHHHHHHHHHHHHHHHHHHhCCCeeecCceeeccCC
Q 008040 186 VNSFVILTKSL---LPLPDKYHGLTDVDKRYRQRYVDMISKPEVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAAG 262 (580)
Q Consensus 186 ~~~i~vls~a~---~plP~~~~~l~d~e~r~r~R~ldl~~~~~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~~ 262 (580)
+++++||++|. .|+|.+.+ ..+.++++||||+| ++.++++|++||.|++++|+||.++||+||+||+|+++++
T Consensus 93 ~~~i~vl~~~~~~~~P~~~~~~---~~~~~~~~r~l~lR-~~~~~~~lr~Rs~i~~~~r~~~~~~gf~eV~TP~l~~~~~ 168 (453)
T TIGR00457 93 VKKIEVVGEAEPDDYPLQKKEH---SLEFLRDIAHLRLR-TNTLGAVMRVRNALSQAIHRYFQENGFTWVSPPILTSNDC 168 (453)
T ss_pred EeEEEEEecCCccCCCCCcccc---ChhhHhhCcceecC-CHHHHHHHHHHHHHHHHHHHHHHHCCCEEecCCeEeecCC
Confidence 99999999997 34444443 45678899999996 6889999999999999999999999999999999998765
Q ss_pred CCCCCceeecc-------CCCCeeEEEEecHHHHHHHHHhccCCceeEEecccccCCCCC-CCCccceeeeeEeecCCHH
Q 008040 263 GAEARPFVTYH-------NSLGRDLYLRIATELHLKRMLIGGFEKIYEIGRIFRNEGLST-RHNPEFTTIEMYEAYSDYQ 334 (580)
Q Consensus 263 Ga~a~pF~t~~-------~~~~~~~yL~~Spql~lk~llv~g~~rVfeIg~~FR~E~~~~-rH~pEFtmlE~e~a~~d~~ 334 (580)
|+++++|.|+. +++|.++||+||||||||++ ++|++||||||||||||++++ |||||||||||||+|+|++
T Consensus 169 eg~~~~F~v~~~~~~~~~~~~~~~~yL~~Spql~lq~l-~~g~~rVf~i~~~FR~E~~~t~rHl~EFt~le~e~~~~~~~ 247 (453)
T TIGR00457 169 EGAGELFRVSTDGIDFSQDFFGKEAYLTVSGQLYLETY-ALALSKVYTFGPTFRAEKSNTSRHLSEFWMIEPEMAFANLN 247 (453)
T ss_pred CCCCCceEecccccccchhccCCccccccCHHHHHHHH-hhcccCceEeeeccccCCCCCCcCcchhccceeeeecCCHH
Confidence 66689998862 38999999999999999976 689999999999999999996 9999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHhCCce--eecCceee----------cCCCCcceeeHHHHHHHHhCCCCCCCCCCHHHHHHHHH
Q 008040 335 SMMNITEEIVTHCALAVNGKLT--IDYQGVEI----------CLERPWRRETMHNLVKEATGIDFNELGNDLKVAKETTL 402 (580)
Q Consensus 335 d~m~l~E~li~~~~~~v~~~~~--~~~~~~~i----------~~~~pf~rit~~eai~~~~g~~~~~~~~~~~~~~~~~~ 402 (580)
|+|+++|+||+++++.+.+.+. +.+.+... .+..||+|+||.||++.+.....
T Consensus 248 dvm~~~E~lv~~i~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~rit~~ea~~~l~~~~~--------------- 312 (453)
T TIGR00457 248 DLLQLAETLIKYIIKAVLENCSQELKFLEKNFDKDLIKRLENIINNKFARITYTDAIEILKESDK--------------- 312 (453)
T ss_pred HHHHHHHHHHHHHHHHHHHhhHHHHHHhhccCCchHHHHHHHhcCCCCceeEHHHHHHHHHhcCC---------------
Confidence 9999999999999999976542 22211111 12358999999999986643210
Q ss_pred HHcCCCCCCccccccCCCCcHHhHHHHHHHHH-hcCCCCCcEEEEecCCCCCccccccCCCCCceeEEEEEEcCE-eecc
Q 008040 403 RALGDGLENKDKFVIESSPSVGNLLNEVFEIV-VEPKLVQPTFVLDYPIEISPLAKPHRRHAGLTERFELFICGR-EMAN 480 (580)
Q Consensus 403 ~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~-ve~~l~~P~fV~dyP~~~~pfa~~~~~~~~~~~rFdL~i~G~-Ei~n 480 (580)
++ +.... +|..|...++.. ++..+.+|+||||||.+++|||+...+++++++|||||++|+ ||+|
T Consensus 313 ---~~-------~~~~~---~g~~l~~~~e~~L~~~~~~~p~fIt~~P~~~~pfy~~~~~~~~~~~~fDL~~~g~gEi~~ 379 (453)
T TIGR00457 313 ---NF-------EYEDF---WGDDLQTEHERFLAEEYFKPPVFVTNYPKDIKAFYMKLNDDGKTVAAMDLLAPGIGEIIG 379 (453)
T ss_pred ---CC-------cCCCC---CCCCCCcHHHHHHHHHhCCCCEEEECCCcccChhhcccCCCcCceeeeeeccCCceEEee
Confidence 00 00001 133333344443 344456799999999999999975558999999999999996 9999
Q ss_pred cccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcHHHHHHHhcCCCCccceeccHHHHHHH
Q 008040 481 AFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDDFVTALEYGMPPASGMGLGIDRLVML 560 (580)
Q Consensus 481 g~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~al~yG~PP~gG~GiGiDRLvMl 560 (580)
|++|+|+++.+.+++++. +.+.+. .+|||+|++||||||||||||||||||+
T Consensus 380 gsere~~~~~l~~~~~~~-----------------------g~d~~~-----~~~Yl~~~~~G~pPhgG~GiGieRlvm~ 431 (453)
T TIGR00457 380 GSEREDDLDKLENRMKEM-----------------------GLDTDA-----LNWYLDLRKYGSVPHSGFGLGFERLLAY 431 (453)
T ss_pred hhccCCCHHHHHHHHHHc-----------------------CCCHHH-----HHHHHHHHHcCCCCCCcEeehHHHHHHH
Confidence 999999998766555421 223333 3699999999999999999999999999
Q ss_pred HcCCCCccccccCCcCCCC
Q 008040 561 LTNSASIRDVIAFPILKIQ 579 (580)
Q Consensus 561 ltg~~sIrdvi~FP~~~~~ 579 (580)
|||.+|||||++|||+++.
T Consensus 432 l~g~~~Irdv~~FPr~~~~ 450 (453)
T TIGR00457 432 ITGLENIRDAIPFPRTPGN 450 (453)
T ss_pred HhCCCcHhhhccCcCCCCC
Confidence 9999999999999999864
No 17
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=100.00 E-value=1.1e-92 Score=770.06 Aligned_cols=404 Identities=24% Similarity=0.361 Sum_probs=331.8
Q ss_pred CCCEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCC--ceeEEEEe
Q 008040 110 ENDHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEK--GELSVLVN 187 (580)
Q Consensus 110 ~~~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~--ge~el~~~ 187 (580)
.|++|+|+|||+++|.+||++|++|||++|.+|+++..+. ++++|+.+++ |+.||+|.|+|++.++++ |++||.|+
T Consensus 15 ~~~~V~i~G~v~~~R~~g~~~Fi~lrD~~g~iq~~~~~~~-~~~~~~~~~~-l~~~s~v~v~G~v~~~~~~~~~~el~~~ 92 (450)
T PRK03932 15 VGQEVTVRGWVRTKRDSGKIAFLQLRDGSCFKQLQVVKDN-GEEYFEEIKK-LTTGSSVIVTGTVVESPRAGQGYELQAT 92 (450)
T ss_pred CCCEEEEEEEEEEEEeCCCeEEEEEECCCCcEEEEEEcCC-ChHHHHHHhc-CCCCcEEEEEEEEEcCCCCCCCEEEEEE
Confidence 3589999999999999999999999999999999997765 4567888877 599999999999998764 68999999
Q ss_pred EEEEccccC--CCCCCCCCCCCChhhccccceeeeecCHHHHHHHHHHHHHHHHHHHHHHhCCCeeecCceeeccCCCCC
Q 008040 188 SFVILTKSL--LPLPDKYHGLTDVDKRYRQRYVDMISKPEVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAAGGAE 265 (580)
Q Consensus 188 ~i~vls~a~--~plP~~~~~l~d~e~r~r~R~ldl~~~~~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~ 265 (580)
+++||++|. .|+|.++++ .+.++++|||||| ++.++++|++||.|+++||+||.++||+||+||+|+++.++++
T Consensus 93 ~i~vl~~~~~~~p~~~~~~~---~~~~~~~r~l~lR-~~~~~~~l~~Rs~i~~~iR~f~~~~gf~EV~TP~L~~~~~eg~ 168 (450)
T PRK03932 93 KIEVIGEDPEDYPIQKKRHS---IEFLREIAHLRPR-TNKFGAVMRIRNTLAQAIHEFFNENGFVWVDTPIITASDCEGA 168 (450)
T ss_pred EEEEccCCCCCCCCCccccC---hHHHhhCceeecc-CHHHHHHHHHHHHHHHHHHHHHHHCCCEEecCCceeccCCCCC
Confidence 999999975 455566654 4688999999997 6899999999999999999999999999999999997765566
Q ss_pred CCceeecc-------CCCCeeEEEEecHHHHHHHHHhccCCceeEEecccccCCCCC-CCCccceeeeeEeecCCHHHHH
Q 008040 266 ARPFVTYH-------NSLGRDLYLRIATELHLKRMLIGGFEKIYEIGRIFRNEGLST-RHNPEFTTIEMYEAYSDYQSMM 337 (580)
Q Consensus 266 a~pF~t~~-------~~~~~~~yL~~Spql~lk~llv~g~~rVfeIg~~FR~E~~~~-rH~pEFtmlE~e~a~~d~~d~m 337 (580)
++||.|++ +++|.++||+||||||||++ ++|++||||||||||||++++ |||||||||||||+|+|++|+|
T Consensus 169 ~~~F~v~~~~~~~~~~~~~~~~~L~~Spql~lq~l-~~g~~rVf~i~~~FR~E~~~t~rHl~EFt~lE~e~~~~~~~~~m 247 (450)
T PRK03932 169 GELFRVTTLDLDFSKDFFGKEAYLTVSGQLYAEAY-AMALGKVYTFGPTFRAENSNTRRHLAEFWMIEPEMAFADLEDNM 247 (450)
T ss_pred CCceEeecccccccccccCCCcccccCHHHHHHHH-HhccCCeEEeeeccccCCCCCccccccccccceEEeccCHHHHH
Confidence 88999976 78999999999999999875 689999999999999999965 9999999999999999999999
Q ss_pred HHHHHHHHHHHHHHhCCce--eecCcee--------e-c-CCCCcceeeHHHHHHHHh--CCCCCCCCCCHHHHHHHHHH
Q 008040 338 NITEEIVTHCALAVNGKLT--IDYQGVE--------I-C-LERPWRRETMHNLVKEAT--GIDFNELGNDLKVAKETTLR 403 (580)
Q Consensus 338 ~l~E~li~~~~~~v~~~~~--~~~~~~~--------i-~-~~~pf~rit~~eai~~~~--g~~~~~~~~~~~~~~~~~~~ 403 (580)
+++|+||+++++.+.+.+. +.+.+.. + + ++.||+|+||.||++.+. |.++..
T Consensus 248 ~~~e~li~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~p~~rity~eA~~~l~~~~~~~~~-------------- 313 (450)
T PRK03932 248 DLAEEMLKYVVKYVLENCPDDLEFLNRRVDKGDIERLENFIESPFPRITYTEAIEILQKSGKKFEF-------------- 313 (450)
T ss_pred HHHHHHHHHHHHHHHHhhHHHHHHhccccCchHHHHHHhhcCCCceEeEHHHHHHHHHHcCCCcCC--------------
Confidence 9999999999999876542 3322221 1 1 457999999999998653 211100
Q ss_pred HcCCCCCCccccccCCCCcHHhHHHHHHHHHhc-CCCCCcEEEEecCCCCCccc-cccCCCCCceeEEEEEEcCE-eecc
Q 008040 404 ALGDGLENKDKFVIESSPSVGNLLNEVFEIVVE-PKLVQPTFVLDYPIEISPLA-KPHRRHAGLTERFELFICGR-EMAN 480 (580)
Q Consensus 404 ~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve-~~l~~P~fV~dyP~~~~pfa-~~~~~~~~~~~rFdL~i~G~-Ei~n 480 (580)
.. .+|..+...++.++. +++.+||||+|||.+++||| ++++++ ++++||||++||+ ||++
T Consensus 314 -------------~~---~~g~~l~~~~e~~l~~~~~~~pvfI~~yP~~~~pfy~~~~~~~-~~~~~fdLl~~g~~El~~ 376 (450)
T PRK03932 314 -------------PV---EWGDDLGSEHERYLAEEHFKKPVFVTNYPKDIKAFYMRLNPDG-KTVAAMDLLAPGIGEIIG 376 (450)
T ss_pred -------------CC---CcccccChHHHHHHHHHhcCCcEEEECCCcccCcccCcCCCCC-CEEEEEEEEcCCCceeCC
Confidence 00 113334444554433 47788999999999999999 455556 9999999999885 7777
Q ss_pred cccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcHHHHHHHhcCCCCccceeccHHHHHHH
Q 008040 481 AFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDDFVTALEYGMPPASGMGLGIDRLVML 560 (580)
Q Consensus 481 g~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~al~yG~PP~gG~GiGiDRLvMl 560 (580)
|++|+++++.+.++++ +.|.++. ..+||+++++||||||||||||||||+|+
T Consensus 377 g~~r~~~~~~l~~~~~------------------------~~g~~~~----~~~~yl~~~~~G~pP~gG~GiGidRL~m~ 428 (450)
T PRK03932 377 GSQREERLDVLEARIK------------------------ELGLNKE----DYWWYLDLRRYGSVPHSGFGLGFERLVAY 428 (450)
T ss_pred HHHHhhhHHHHHHHHH------------------------HcCCCHH----HHHHHHHHHHcCCCCCCcEeehHHHHHHH
Confidence 7776666554433322 2233222 13699999999999999999999999999
Q ss_pred HcCCCCccccccCCcCCCC
Q 008040 561 LTNSASIRDVIAFPILKIQ 579 (580)
Q Consensus 561 ltg~~sIrdvi~FP~~~~~ 579 (580)
+||.+|||||++|||+++.
T Consensus 429 l~g~~nIrdv~~FPr~~~r 447 (450)
T PRK03932 429 ITGLDNIRDVIPFPRTPGR 447 (450)
T ss_pred HhCCCcHhhhccCcCCCCC
Confidence 9999999999999999863
No 18
>PLN02903 aminoacyl-tRNA ligase
Probab=100.00 E-value=4e-92 Score=779.82 Aligned_cols=440 Identities=25% Similarity=0.418 Sum_probs=350.3
Q ss_pred CccCCCHHHHHHHHhhccCCccCCCCCCEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCC
Q 008040 85 WDRTHSANQLQEIYRHLANGEESNSENDHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDI 164 (580)
Q Consensus 85 ~~~t~~~~~i~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~ 164 (580)
..|||+|++++..+ . |++|+|+|||+++|.+|+++|++|||++|.+|||++++. .++.++.+.+ |+.
T Consensus 57 ~~rt~~cg~l~~~~----~-------gk~V~l~GWV~~~R~~G~l~FidLRD~~G~iQvV~~~~~-~~~~~~~~~~-L~~ 123 (652)
T PLN02903 57 PSRSHLCGALSVND----V-------GSRVTLCGWVDLHRDMGGLTFLDVRDHTGIVQVVTLPDE-FPEAHRTANR-LRN 123 (652)
T ss_pred ccCCCchhhcchhh----C-------CCEEEEEEEEEEEecCCCcEEEEEEcCCccEEEEEeCCc-cHHHHHHHhc-CCC
Confidence 46899999998865 3 478999999999999999999999999999999998764 3456777766 599
Q ss_pred CcEEEEEeEEEec---------CCceeEEEEeEEEEccccCCCCCCCCC------CCCChhhccccceeeeecCHHHHHH
Q 008040 165 GDILGVSGSMKRT---------EKGELSVLVNSFVILTKSLLPLPDKYH------GLTDVDKRYRQRYVDMISKPEVADV 229 (580)
Q Consensus 165 gd~v~v~G~v~~t---------~~ge~el~~~~i~vls~a~~plP~~~~------~l~d~e~r~r~R~ldl~~~~~~~~~ 229 (580)
||+|.|+|+|..+ ++|++||.|++++|||+|..++|...+ ...++++|+++|||||| ++.++++
T Consensus 124 esvV~V~G~V~~r~~~~~n~~~~tGeiEl~~~~i~VL~~a~~~lPf~i~~~~~~~~~~~ee~Rl~~RyLDLR-~~~~q~~ 202 (652)
T PLN02903 124 EYVVAVEGTVRSRPQESPNKKMKTGSVEVVAESVDILNVVTKSLPFLVTTADEQKDSIKEEVRLRYRVLDLR-RPQMNAN 202 (652)
T ss_pred CCEEEEEEEEEeCCCcCcCCCCCCCCEEEEEeEEEEEecCCCCCCccccccccccccCChhhhhccceeecC-CHHHHHH
Confidence 9999999999854 368999999999999999877885443 23578999999999997 7999999
Q ss_pred HHHHHHHHHHHHHHHHh-CCCeeecCceeecc-CCCCCCCceeeccCCC-CeeEEEEecHHHHHHHHHhccCCceeEEec
Q 008040 230 FRKRAKIVSEIRKTVES-LGFVEVETPVLQGA-AGGAEARPFVTYHNSL-GRDLYLRIATELHLKRMLIGGFEKIYEIGR 306 (580)
Q Consensus 230 ~~~Rs~i~~~iR~fl~~-~gF~EVeTPiL~~~-~~Ga~a~pF~t~~~~~-~~~~yL~~Spql~lk~llv~g~~rVfeIg~ 306 (580)
|++||+|+++||+||.+ +||+||+||+|+++ ++| |++|.++++.. +..+||+||||||||+||++|++|||||||
T Consensus 203 lr~Rs~i~~~iR~fl~~~~gFiEVeTPiL~~st~eG--ardf~v~~~~~~g~~y~L~qSPQlykQ~Lm~~G~~RvFqIa~ 280 (652)
T PLN02903 203 LRLRHRVVKLIRRYLEDVHGFVEIETPILSRSTPEG--ARDYLVPSRVQPGTFYALPQSPQLFKQMLMVSGFDRYYQIAR 280 (652)
T ss_pred HHHHHHHHHHHHHHHHhcCCeEEEECCeeccCCCCC--CcccEEeeecCCCcccccCCCHHHHHHHHHhccCCcEEEEeh
Confidence 99999999999999997 99999999999954 566 46888776543 455679999999999999999999999999
Q ss_pred ccccCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCceeecCCCCcceeeHHHHHHHHhCCC
Q 008040 307 IFRNEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQGVEICLERPWRRETMHNLVKEATGID 386 (580)
Q Consensus 307 ~FR~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~~~~i~~~~pf~rit~~eai~~~~g~~ 386 (580)
|||||+++++|+||||||||||+|.|++|+|+++|+||+++++.+.+ +++..||+||||.||+++|. .|
T Consensus 281 ~FR~E~~~t~RhpEFTqLE~E~sf~d~~dvm~~~E~li~~v~~~~~~----------~~~~~PF~rity~eA~~~yg-sD 349 (652)
T PLN02903 281 CFRDEDLRADRQPEFTQLDMELAFTPLEDMLKLNEDLIRQVFKEIKG----------VQLPNPFPRLTYAEAMSKYG-SD 349 (652)
T ss_pred hhccCCCCCCcccceeeeeeeecCCCHHHHHHHHHHHHHHHHHHHhC----------CCCCCCceEEEHHHHHHHHc-CC
Confidence 99999999988899999999999999999999999999999998875 34567999999999999983 22
Q ss_pred CCCCC---------C-----C-----------------------------H----HHHHHHHHHHcCCCCC-------C-
Q 008040 387 FNELG---------N-----D-----------------------------L----KVAKETTLRALGDGLE-------N- 411 (580)
Q Consensus 387 ~~~~~---------~-----~-----------------------------~----~~~~~~~~~~~g~~~~-------~- 411 (580)
-+++- + + + +.+.+.++ .|.++. +
T Consensus 350 KPDlRf~~~l~dv~~~~~~~~f~~f~~~~~~~~~v~~i~~~~~~~~~~~~~~~~~~~~~~~~~--~g~~gl~~~~~~~~~ 427 (652)
T PLN02903 350 KPDLRYGLELVDVSDVFAESSFKVFAGALESGGVVKAICVPDGKKISNNTALKKGDIYNEAIK--SGAKGLAFLKVLDDG 427 (652)
T ss_pred CCcccCCceeeEhHHhhcCCCchhhhhhhccCCeEEEEEeCCCCccchhhhcccHHHHHHHHH--cCCCceEEEEEcCCC
Confidence 11110 0 0 0 00000111 121110 0
Q ss_pred cccc---c-------------------------------cCCCCcHHhHHHHHHHHH--hcCCCCCcEEEEecCCC----
Q 008040 412 KDKF---V-------------------------------IESSPSVGNLLNEVFEIV--VEPKLVQPTFVLDYPIE---- 451 (580)
Q Consensus 412 ~~~~---~-------------------------------~~~~~~lg~~l~~~~~~~--ve~~l~~P~fV~dyP~~---- 451 (580)
.+.. + ...+..+|.+..++...+ +.+.-..++||+|||..
T Consensus 428 ~~~~~~~~~k~~~~~~~~~l~~~~~~~~GD~~~~~a~~~~~~~~~lG~lR~~l~~~l~l~~~~~~~flWV~dFPlFe~~e 507 (652)
T PLN02903 428 ELEGIKALVESLSPEQAEQLLAACGAGPGDLILFAAGPTSSVNKTLDRLRQFIAKTLDLIDPSRHSILWVTDFPMFEWNE 507 (652)
T ss_pred CccCccchhhcCCHHHHHHHHHHhCCCCCcEEEEECCcchHHHHHHHHHHHHHHHHcCCCCCCCceEEEEEeCCCCCccC
Confidence 0000 0 001123455555555432 33333468999999984
Q ss_pred --------CCccccccCCCCC-----ceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHH
Q 008040 452 --------ISPLAKPHRRHAG-----LTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQE 518 (580)
Q Consensus 452 --------~~pfa~~~~~~~~-----~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~ 518 (580)
+.||++++++|-. .+..|||++||+||+||+.|+||++.|+++|+...
T Consensus 508 e~~~~~a~HHPFTap~~~d~~~l~~~~a~~YDLVlNG~EiggGS~Rih~~~~q~~~f~~~g------------------- 568 (652)
T PLN02903 508 DEQRLEALHHPFTAPNPEDMGDLSSARALAYDMVYNGVEIGGGSLRIYRRDVQQKVLEAIG------------------- 568 (652)
T ss_pred CCCceEecCCCCCCCCCcchhhhhhhhhhcceeEecceeeccceEecCCHHHHHHHHHHcC-------------------
Confidence 6899998776532 46899999999999999999999999999997531
Q ss_pred hhhcCCccccccCCcHHHHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCC
Q 008040 519 KLKESDDHSYEVTLDDDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILK 577 (580)
Q Consensus 519 ~~~~~~~e~~~~~~d~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~ 577 (580)
..++++.. .+.+||+||+||+|||||||+|+|||||+|+|.+||||||+||+..
T Consensus 569 ---~~~e~~~~--~F~~~l~a~~yG~PphgG~alGldRlvmll~~~~~IrdviaFPKt~ 622 (652)
T PLN02903 569 ---LSPEEAES--KFGYLLEALDMGAPPHGGIAYGLDRLVMLLAGAKSIRDVIAFPKTT 622 (652)
T ss_pred ---CCHHHHHH--HHHHHHHHHhcCCCCCCceeecHHHHHHHHcCCCchHheEecCCCC
Confidence 11122222 5789999999999999999999999999999999999999999964
No 19
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.5e-92 Score=743.24 Aligned_cols=403 Identities=27% Similarity=0.454 Sum_probs=337.9
Q ss_pred CEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCC--ceeEEEEeEE
Q 008040 112 DHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEK--GELSVLVNSF 189 (580)
Q Consensus 112 ~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~--ge~el~~~~i 189 (580)
+.|+|+|||+++|.+|+++|+.|||++|.||+|+.++...++.|+ +++ |+.||+|.|+|+|+.++. |.+||.|+++
T Consensus 17 ~~V~v~GWV~~~R~~g~i~Fi~lrDgsg~iQ~v~~~~~~~~~~~~-~~~-L~~es~v~V~G~v~~~~~a~~g~El~v~~i 94 (435)
T COG0017 17 QEVTVRGWVHNKRDLGKIIFLVLRDGSGFIQAVVPKNKVYEELFK-AKK-LTLESSVVVTGIVKASPKAPQGFELQVEKI 94 (435)
T ss_pred cEEEEEEEeeeecccCCeEEEEEEcCCcEEEEEEECCCCcHHHhh-hhc-CCCccEEEEEEEEEcCCCCCCCEEEEEEEE
Confidence 789999999999999999999999999999999998655677888 777 599999999999999874 6799999999
Q ss_pred EEccccCCCCCCCCCCCCChhhccccceeeeecCHHHHHHHHHHHHHHHHHHHHHHhCCCeeecCceeeccCCCCCCCce
Q 008040 190 VILTKSLLPLPDKYHGLTDVDKRYRQRYVDMISKPEVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAAGGAEARPF 269 (580)
Q Consensus 190 ~vls~a~~plP~~~~~l~d~e~r~r~R~ldl~~~~~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a~pF 269 (580)
+|++.+..|+|....+.++.++++++|||||| ++..+++|++||.|++++|+||.++||+||+||+|++++...++.+|
T Consensus 95 ~Vl~~a~~~~Pi~~~~~~~~e~lld~rhL~lR-~~~~~Av~kirs~i~~a~~eff~~~gF~eV~tP~i~~~~~EGg~elF 173 (435)
T COG0017 95 EVLGEADPPYPIDKKEHSELETLLDNRHLDLR-TPKIQAVFKIRSSILRAIREFFYENGFTEVHTPIITASATEGGGELF 173 (435)
T ss_pred EEeeccCCCCCcCcccccCHHHHHhchheecc-ccchHHHHhHHHHHHHHHHHHHHhCCcEEecCceEeccCCCCCceeE
Confidence 99999965677543333378999999999996 79999999999999999999999999999999999987433345799
Q ss_pred eeccCCCCeeEEEEecHHHHHHHHHhccCCceeEEecccccCCCCC-CCCccceeeeeEeecCCHHHHHHHHHHHHHHHH
Q 008040 270 VTYHNSLGRDLYLRIATELHLKRMLIGGFEKIYEIGRIFRNEGLST-RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCA 348 (580)
Q Consensus 270 ~t~~~~~~~~~yL~~Spql~lk~llv~g~~rVfeIg~~FR~E~~~~-rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~ 348 (580)
.+ ++|+.++||+||||||+|.++.+ |+|||+|||+||+|+++| ||+.||||+|+||+|+|++|+|+++|+||++++
T Consensus 174 ~v--~yf~~~a~LtqS~QLyke~~~~a-l~rVf~igP~FRAE~s~T~RHL~EF~~ld~Emaf~~~~d~m~l~E~~i~~i~ 250 (435)
T COG0017 174 KV--DYFDKEAYLTQSPQLYKEALAAA-LERVFTIGPTFRAEKSNTRRHLSEFWMLDPEMAFADLNDVMDLAEELIKYLF 250 (435)
T ss_pred EE--eecCcceEEecCHHHHHHHHHHH-hCceEEecCceecCCCCCcchhhhHheecceeccCcHHHHHHHHHHHHHHHH
Confidence 76 68999999999999999987655 999999999999999997 999999999999999999999999999999999
Q ss_pred HHHhCCce--eecCc---eeecC--CCCcceeeHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCCCCccccccCCCC
Q 008040 349 LAVNGKLT--IDYQG---VEICL--ERPWRRETMHNLVKEATGIDFNELGNDLKVAKETTLRALGDGLENKDKFVIESSP 421 (580)
Q Consensus 349 ~~v~~~~~--~~~~~---~~i~~--~~pf~rit~~eai~~~~g~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~ 421 (580)
+.+...+. +.+.+ ..+.. +.||+||||.||++.+.+..+..+. +|.
T Consensus 251 ~~v~e~~~~el~~l~~~~~~l~~~~~~pf~ritY~eAieiL~~~~~e~~~-------------~Gd-------------- 303 (435)
T COG0017 251 KKVLEECADELEFLGRDNSELKRPESAPFPRITYKEAIEILEEKGFEKVE-------------WGD-------------- 303 (435)
T ss_pred HHHHHHhHHHHHHhhccchhhcccccCCccEEEHHHHHHHHHhcCCcccC-------------CCC--------------
Confidence 99987653 34443 33333 4689999999999988654432110 221
Q ss_pred cHHhHHHHHHHHHhcCCC-CCcEEEEecCCCCCccccc-cCCCCCceeEEEEEEcC-EeecccccccCCHHHHHHHHHHH
Q 008040 422 SVGNLLNEVFEIVVEPKL-VQPTFVLDYPIEISPLAKP-HRRHAGLTERFELFICG-REMANAFSELTDPLDQRARLEEQ 498 (580)
Q Consensus 422 ~lg~~l~~~~~~~ve~~l-~~P~fV~dyP~~~~pfa~~-~~~~~~~~~rFdL~i~G-~Ei~ng~~el~dp~~q~~rf~~~ 498 (580)
.+....+.++..+. ..|+||+|||.+++|||++ ++++|+++.+|||+++| .||.+|++|++|++...+|+.++
T Consensus 304 ----Dl~~e~Er~l~e~~~~~~vfv~~yP~~~kpFYm~~~~d~p~~~~~~Dll~p~~gEIigGsqRe~~~d~L~~ri~~~ 379 (435)
T COG0017 304 ----DLGTEHERYLGEEYFKPPVFVTNYPKEIKPFYMRPDPDNPGTVASFDLLAPGGGEIIGGSQREHDYDLLVERIKEK 379 (435)
T ss_pred ----ccCCHHHHHHHHHhCCCcEEEEeCcccccccccccCCCCCCeEEEEeeecCCceeeecceeccccHHHHHHHHHHc
Confidence 11111222222223 3469999999999999864 67778999999999999 79999999999998655555432
Q ss_pred HHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcHHHHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCCC
Q 008040 499 VRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILKI 578 (580)
Q Consensus 499 ~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~~ 578 (580)
+.+.+. .+|||++++||+|||||||||+|||+|++||..|||||+||||.+.
T Consensus 380 -----------------------gl~~e~-----~~wYld~~kyG~~PHaGfGlG~ERlv~~i~gl~nIRea~pFPR~~~ 431 (435)
T COG0017 380 -----------------------GLDPES-----YEWYLDLRKYGMPPHAGFGLGLERLVMYILGLDNIREAIPFPRDPG 431 (435)
T ss_pred -----------------------CCChHH-----hHHHHHHHHcCCCCCcccccCHHHHHHHHhCCCcceeccccCCCCC
Confidence 234444 4799999999999999999999999999999999999999999876
Q ss_pred C
Q 008040 579 Q 579 (580)
Q Consensus 579 ~ 579 (580)
.
T Consensus 432 r 432 (435)
T COG0017 432 R 432 (435)
T ss_pred C
Confidence 3
No 20
>PRK00476 aspS aspartyl-tRNA synthetase; Validated
Probab=100.00 E-value=2.1e-91 Score=777.15 Aligned_cols=437 Identities=28% Similarity=0.470 Sum_probs=354.6
Q ss_pred ccCCCHHHHHHHHhhccCCccCCCCCCEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCC
Q 008040 86 DRTHSANQLQEIYRHLANGEESNSENDHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIG 165 (580)
Q Consensus 86 ~~t~~~~~i~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~g 165 (580)
.++|+|+++...+ . |++|+|+|||+++|.+|+++|++|||++|.+|+|+++. .+.|+.+.+ |+.|
T Consensus 3 ~r~~~~~~l~~~~----~-------g~~V~l~GwV~~~R~~g~l~Fi~LrD~~g~iQ~v~~~~---~~~~~~~~~-l~~e 67 (588)
T PRK00476 3 MRTHYCGELRESH----V-------GQTVTLCGWVHRRRDHGGLIFIDLRDREGIVQVVFDPD---AEAFEVAES-LRSE 67 (588)
T ss_pred ccceeHHHhhHHh----C-------CCEEEEEEEEEEEEeCCCeEEEEEEeCCceEEEEEeCC---HHHHHHHhC-CCCC
Confidence 4799999998766 3 37899999999999999999999999999999999862 567888877 5999
Q ss_pred cEEEEEeEEEecC---------CceeEEEEeEEEEccccCCCCCCCCCCC--CChhhccccceeeeecCHHHHHHHHHHH
Q 008040 166 DILGVSGSMKRTE---------KGELSVLVNSFVILTKSLLPLPDKYHGL--TDVDKRYRQRYVDMISKPEVADVFRKRA 234 (580)
Q Consensus 166 d~v~v~G~v~~t~---------~ge~el~~~~i~vls~a~~plP~~~~~l--~d~e~r~r~R~ldl~~~~~~~~~~~~Rs 234 (580)
|+|.|+|+|.+++ +|++||.|++++|||+|. ++|....+. .++++|+++|||||| ++.++++|++||
T Consensus 68 s~V~V~G~v~~~~~~~~n~~~~~g~~El~~~~i~il~~a~-~lP~~~~~~~~~~~~~Rl~~R~LdlR-~~~~~~~l~~Rs 145 (588)
T PRK00476 68 YVIQVTGTVRARPEGTVNPNLPTGEIEVLASELEVLNKSK-TLPFPIDDEEDVSEELRLKYRYLDLR-RPEMQKNLKLRS 145 (588)
T ss_pred CEEEEEEEEEecCCcccCccCCCCcEEEEEeEEEEEecCC-CCCCcccccccCChhhhhhcceEeec-CHHHHHHHHHHH
Confidence 9999999999865 789999999999999998 888765443 578999999999996 899999999999
Q ss_pred HHHHHHHHHHHhCCCeeecCceeecc-CCCCCCCceeeccC-CCCeeEEEEecHHHHHHHHHhccCCceeEEecccccCC
Q 008040 235 KIVSEIRKTVESLGFVEVETPVLQGA-AGGAEARPFVTYHN-SLGRDLYLRIATELHLKRMLIGGFEKIYEIGRIFRNEG 312 (580)
Q Consensus 235 ~i~~~iR~fl~~~gF~EVeTPiL~~~-~~Ga~a~pF~t~~~-~~~~~~yL~~Spql~lk~llv~g~~rVfeIg~~FR~E~ 312 (580)
+|+++||+||.++||+||+||+|+++ ++| |++|.++++ +.+..+||+||||||||+||++|++||||||||||||+
T Consensus 146 ~i~~~iR~ff~~~gFiEV~TP~L~~s~~eg--a~~f~v~~~~~~~~~~~L~qSpql~kq~l~~~g~~rvfqi~~~FR~E~ 223 (588)
T PRK00476 146 KVTSAIRNFLDDNGFLEIETPILTKSTPEG--ARDYLVPSRVHPGKFYALPQSPQLFKQLLMVAGFDRYYQIARCFRDED 223 (588)
T ss_pred HHHHHHHHHHHHCCCEEEECCeeecCCCCC--CccceecccccCCceeecCCCHHHHHHHHHhcccCceEEEeceeecCC
Confidence 99999999999999999999999964 565 578999876 45566779999999999999999999999999999999
Q ss_pred CCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCceeecCCCCcceeeHHHHHHHHhCCCCCCCCC
Q 008040 313 LSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQGVEICLERPWRRETMHNLVKEATGIDFNELGN 392 (580)
Q Consensus 313 ~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~~~~i~~~~pf~rit~~eai~~~~g~~~~~~~~ 392 (580)
++++|+||||||||||+|+|++|+|+++|+||+++++.+.+ .+++.||+|+||.||++.| |.|-+++-.
T Consensus 224 ~~~~r~~EFt~le~e~af~~~~dvm~~~E~li~~i~~~~~~----------~~~~~pf~r~ty~ea~~~y-g~dkPDlR~ 292 (588)
T PRK00476 224 LRADRQPEFTQIDIEMSFVTQEDVMALMEGLIRHVFKEVLG----------VDLPTPFPRMTYAEAMRRY-GSDKPDLRF 292 (588)
T ss_pred CCCCcCcccccceeeecCCCHHHHHHHHHHHHHHHHHHHhC----------ccCCCCceEEEHHHHHHHH-CCCCCcccC
Confidence 99988889999999999999999999999999999998876 2457899999999999988 443221100
Q ss_pred --------------------------------------------CHHHHHHHHHHHcCCCC-------CCccc-------
Q 008040 393 --------------------------------------------DLKVAKETTLRALGDGL-------ENKDK------- 414 (580)
Q Consensus 393 --------------------------------------------~~~~~~~~~~~~~g~~~-------~~~~~------- 414 (580)
.++.+.+.++. .|.+. ++.+.
T Consensus 293 ~~eI~DVT~if~~s~f~vf~~~l~~gg~VkaI~vp~~~~~~~rk~id~L~e~AK~-~gakGL~~i~~~~~~l~~~~akfl 371 (588)
T PRK00476 293 GLELVDVTDLFKDSGFKVFAGAANDGGRVKAIRVPGGAAQLSRKQIDELTEFAKI-YGAKGLAYIKVNEDGLKGPIAKFL 371 (588)
T ss_pred CceehhHHHHhccCCchhhhhhhccCCeEEEEEecCCCCccchhHHHHHHHHHHH-cCCCceEEEEEcCCCCcCchhhcC
Confidence 01122222332 23211 00000
Q ss_pred -------------------------cccCCCCcHHhHHHHHHHHH--hcCCCCCcEEEEecCCC------------CCcc
Q 008040 415 -------------------------FVIESSPSVGNLLNEVFEIV--VEPKLVQPTFVLDYPIE------------ISPL 455 (580)
Q Consensus 415 -------------------------~~~~~~~~lg~~l~~~~~~~--ve~~l~~P~fV~dyP~~------------~~pf 455 (580)
.....+..+|.+..++.+.+ +.+.-..++||+|||.. +.||
T Consensus 372 see~~~~L~e~l~~k~GDll~~~A~~~~~v~~aLG~LR~~L~~~~~~~~~~~~~f~Wv~dfPlf~~~~~~~~~~~~HhpF 451 (588)
T PRK00476 372 SEEELAALLERTGAKDGDLIFFGADKAKVVNDALGALRLKLGKELGLIDEDKFAFLWVVDFPMFEYDEEEGRWVAAHHPF 451 (588)
T ss_pred CHHHHHHHHHHhCCCCCCEEEEECCchHHHHHHHHHHHHHHHHHcCCCCCCCceEEEEEeCCCCCccCCCCeeeeecCCC
Confidence 00001233566666655543 32333468999999984 6799
Q ss_pred ccccCCC--------C--CceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCc
Q 008040 456 AKPHRRH--------A--GLTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDD 525 (580)
Q Consensus 456 a~~~~~~--------~--~~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~ 525 (580)
++++++| | -.+++|||++||.||+||+.|+||++.|+++|+... ..++
T Consensus 452 T~p~~~d~~~l~~~~p~~~~a~~~dlv~ng~E~~~gs~ri~~~~~q~~~~~~~~----------------------~~~~ 509 (588)
T PRK00476 452 TMPKDEDLDELETTDPGKARAYAYDLVLNGYELGGGSIRIHRPEIQEKVFEILG----------------------ISEE 509 (588)
T ss_pred CCcCccChhHhhcCCHHHhhhheeeeEEeeeeeccceEEeCCHHHHHHHHHHcC----------------------CCHH
Confidence 9987653 3 257999999999999999999999999999998431 1122
Q ss_pred cccccCCcHHHHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCC
Q 008040 526 HSYEVTLDDDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILK 577 (580)
Q Consensus 526 e~~~~~~d~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~ 577 (580)
++.. .+.|||+||+||+|||||||||+|||||+|||.+||||||+||+..
T Consensus 510 ~~~~--~~~~~~~a~~~g~pph~g~~~G~dr~~~~~~~~~~irdvi~fp~~~ 559 (588)
T PRK00476 510 EAEE--KFGFLLDALKYGAPPHGGIAFGLDRLVMLLAGADSIRDVIAFPKTQ 559 (588)
T ss_pred HHHH--HHHHHHHHHhcCCCCCcceeccHHHHHHHHcCCccHHheeeccCCC
Confidence 2222 4689999999999999999999999999999999999999999964
No 21
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=100.00 E-value=3.3e-91 Score=779.45 Aligned_cols=441 Identities=26% Similarity=0.441 Sum_probs=351.1
Q ss_pred ccCCCHHHHHHHHhhccCCccCCCCCCEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCC
Q 008040 86 DRTHSANQLQEIYRHLANGEESNSENDHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIG 165 (580)
Q Consensus 86 ~~t~~~~~i~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~g 165 (580)
.|||+|++|+..+ . |++|+|+|||+++|++|+++|++|||++|.||||++++..+++.|+.+.+ |+.|
T Consensus 4 ~r~~~cg~l~~~~----~-------g~~V~l~GWV~~~R~~G~l~FidLRD~~G~iQvV~~~~~~~~~~~~~~~~-L~~E 71 (706)
T PRK12820 4 NDRSFCGHLSLDD----T-------GREVCLAGWVDAFRDHGELLFIHLRDRNGFIQAVFSPEAAPADVYELAAS-LRAE 71 (706)
T ss_pred ccccccccCChhh----C-------CCEEEEEEEEEEEEcCCCcEEEEEEeCCccEEEEEeCCcCCHHHHHHHhc-CCCC
Confidence 5899999999865 3 47899999999999999999999999999999999877666678888877 5999
Q ss_pred cEEEEEeEEEec---------CCceeEEEEeEEEEccccC-CCCCC--CCC---------CCCChhhccccceeeeecCH
Q 008040 166 DILGVSGSMKRT---------EKGELSVLVNSFVILTKSL-LPLPD--KYH---------GLTDVDKRYRQRYVDMISKP 224 (580)
Q Consensus 166 d~v~v~G~v~~t---------~~ge~el~~~~i~vls~a~-~plP~--~~~---------~l~d~e~r~r~R~ldl~~~~ 224 (580)
|+|.|+|+|..+ ++|++||.+++++||++|. .|+|. +++ ...++++|+++|||||| ++
T Consensus 72 svV~V~G~v~~r~~~~~n~~~~tg~iEl~~~~i~iL~~a~~lP~~i~~~~~~~~~~~~~~~~~~e~~Rl~~RyLDLR-~~ 150 (706)
T PRK12820 72 FCVALQGEVQKRLEETENPHIETGDIEVFVRELSILAASEALPFAISDKAMTAGAGSAGADAVNEDLRLQYRYLDIR-RP 150 (706)
T ss_pred CEEEEEeEEeccCccccCCCCCCCcEEEEeeEEEEEecCCCCCCCCcccccccccccccccccCHhhhhhCceeecC-CH
Confidence 999999999874 3589999999999999996 24442 222 23578999999999995 89
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhCCCeeecCceeecc-CCCCCCCceeeccCCCCeeEE-EEecHHHHHHHHHhccCCcee
Q 008040 225 EVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA-AGGAEARPFVTYHNSLGRDLY-LRIATELHLKRMLIGGFEKIY 302 (580)
Q Consensus 225 ~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~-~~Ga~a~pF~t~~~~~~~~~y-L~~Spql~lk~llv~g~~rVf 302 (580)
.++++|++||+|+++||+||.++||+||+||+|+++ ++| |++|.+++++++..+| |+||||||||+||++|++|||
T Consensus 151 ~~~~~lr~Rs~i~~~iR~fl~~~gFiEVeTPiL~~s~~eG--Ar~~~~p~~~~~~~~y~L~qSPQlykq~lm~~G~~rvf 228 (706)
T PRK12820 151 AMQDHLAKRHRIIKCARDFLDSRGFLEIETPILTKSTPEG--ARDYLVPSRIHPKEFYALPQSPQLFKQLLMIAGFERYF 228 (706)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCccccCCCCC--CcceEEeeecCCCcceecCCCHHHHHHHHHhccCCcEE
Confidence 999999999999999999999999999999999964 565 5889888887777766 999999999999999999999
Q ss_pred EEecccccCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCceeecCCCCcceeeHHHHHHHH
Q 008040 303 EIGRIFRNEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQGVEICLERPWRRETMHNLVKEA 382 (580)
Q Consensus 303 eIg~~FR~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~~~~i~~~~pf~rit~~eai~~~ 382 (580)
|||||||||+++++|+||||||||||+|.|++|+|+++|+||+++++ +.+ +++..||+|+||.||+++|
T Consensus 229 qI~~~FR~E~~~t~r~pEFT~LE~E~af~d~~dvm~l~E~li~~v~~-~~~----------~~~~~pf~r~ty~eA~~~y 297 (706)
T PRK12820 229 QLARCFRDEDLRPNRQPEFTQLDIEASFIDEEFIFELIEELTARMFA-IGG----------IALPRPFPRMPYAEAMDTT 297 (706)
T ss_pred EEechhcCCCCCCCcCccccccceeeccCCHHHHHHHHHHHHHHHHH-hcC----------cCCCCCceEEEHHHHHHHh
Confidence 99999999999998889999999999999999999999999999986 211 3567899999999999999
Q ss_pred hCCCCCCCC---------------------------------------C-----CHHH-HH-HHHHHHcCCCCC------
Q 008040 383 TGIDFNELG---------------------------------------N-----DLKV-AK-ETTLRALGDGLE------ 410 (580)
Q Consensus 383 ~g~~~~~~~---------------------------------------~-----~~~~-~~-~~~~~~~g~~~~------ 410 (580)
|.|-+++- + .++. +. +.++. .|.+..
T Consensus 298 -G~DKPDlR~~~~l~d~~~~~~~~~f~~f~~~~~~~g~v~~i~~~~~~~~~s~~~~~~~~~~~~~~~-~g~~gl~~~~~~ 375 (706)
T PRK12820 298 -GSDRPDLRFDLKFADATDIFENTRYGIFKQILQRGGRIKGINIKGQSEKLSKNVLQNEYAKEIAPS-FGAKGMTWMRAE 375 (706)
T ss_pred -CCCCCccccCcEEEEHHHHhccCCchhhhhhhccCCeEEEEEeCCCccccCHHHHHHHHHHHHHHH-cCCCceEEEEEC
Confidence 43321110 0 0111 11 22222 332110
Q ss_pred -Ccc------------------------ccc---------cCCCCcHHhHHHHHHHH--HhcCCCCCcEEEEecCCC---
Q 008040 411 -NKD------------------------KFV---------IESSPSVGNLLNEVFEI--VVEPKLVQPTFVLDYPIE--- 451 (580)
Q Consensus 411 -~~~------------------------~~~---------~~~~~~lg~~l~~~~~~--~ve~~l~~P~fV~dyP~~--- 451 (580)
+.+ .++ ...+..+|.+..++... ++.+....++||+|||..
T Consensus 376 ~~~~~~~~~~~~~~~~~~~l~~~~~~~~gd~~~~~a~~~~~~~~~~LG~lR~~l~~~~~l~~~~~~~flWV~dFPlfe~~ 455 (706)
T PRK12820 376 AGGLDSNIVQFFSADEKEALKRRFHAEDGDVIIMIADASCAIVLSALGQLRLHLADRLGLIPEGVFHPLWITDFPLFEAT 455 (706)
T ss_pred CCCcCCchhccCCHHHHHHHHHHhCCCCCCEEEEECCCcchHHHHHHHHHHHHHHHHcCCCCCCCceEEEEEeCCcccCC
Confidence 000 000 00122456665555543 222333468999999983
Q ss_pred --------CCccccccCCC--------CC--ceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhh
Q 008040 452 --------ISPLAKPHRRH--------AG--LTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEK 513 (580)
Q Consensus 452 --------~~pfa~~~~~~--------~~--~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~ 513 (580)
++||++++++| |. .+.+|||++||.||+||+.|+||++.|+++|+..- .
T Consensus 456 ~e~~~~a~HHPFT~p~~~d~~~l~~~~p~~~~~~~YDLV~nG~E~ggGs~Rih~~~~q~~~f~~lg-~------------ 522 (706)
T PRK12820 456 DDGGVTSSHHPFTAPDREDFDPGDIEELLDLRSRAYDLVVNGEELGGGSIRINDKDIQLRIFAALG-L------------ 522 (706)
T ss_pred CCCCeeeeeCCCCCcCccChhhhccCChHHhhhheeeEEecceeeccceEEeCCHHHHHHHHHHcC-C------------
Confidence 68999987654 21 35799999999999999999999999999998631 1
Q ss_pred hhhHHhhhcCCccccccCCcHHHHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCCC
Q 008040 514 SSAQEKLKESDDHSYEVTLDDDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILKI 578 (580)
Q Consensus 514 ~~~~~~~~~~~~e~~~~~~d~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~~ 578 (580)
..+++.. .+.+||+||+||+|||||+|+|+|||||+|||.+||||||+||+...
T Consensus 523 ---------~~~~~~~--~Fgf~l~a~~~G~pphgG~a~G~dRlvm~l~~~~sirdviaFPK~~~ 576 (706)
T PRK12820 523 ---------SEEDIED--KFGFFLRAFDFAAPPHGGIALGLDRVVSMILQTPSIREVIAFPKNRS 576 (706)
T ss_pred ---------CHHHHHH--HHHHHHHHHhcCCCCCCceeccHHHHHHHHcCCccHHHhcccCCCCC
Confidence 1112222 46799999999999999999999999999999999999999999653
No 22
>PLN02603 asparaginyl-tRNA synthetase
Probab=100.00 E-value=4.4e-89 Score=750.86 Aligned_cols=428 Identities=20% Similarity=0.278 Sum_probs=343.3
Q ss_pred CccCCCHHHHHHHHhhccCCccCCCCCCEEEEEEEEEeEecCCCeEEEEEeeCCe--eEEEEEecCccChHHHHhhhc-c
Q 008040 85 WDRTHSANQLQEIYRHLANGEESNSENDHVSVAGRVVARRAFGKLAFLTLRDDSG--TIQLYCEKERLLSDQFDQLKV-F 161 (580)
Q Consensus 85 ~~~t~~~~~i~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~gk~~F~~LrD~sg--~iQvv~~~~~~~~~~~~~~~~-~ 161 (580)
+...+.|.++...-+ .+ ....|++|+|+|||+++|.+|+++|++|+|+++ .||||++++ ...|+.+.+ .
T Consensus 86 ~~~~~~~~~~~~~~~---~~--~~~~g~~V~v~GwV~~iR~~g~~~Fi~l~Dgs~~~~lQ~v~~~~---~~~~~~l~~~~ 157 (565)
T PLN02603 86 FRKKLRIADVKGGED---EG--LARVGKTLNVMGWVRTLRAQSSVTFIEVNDGSCLSNMQCVMTPD---AEGYDQVESGL 157 (565)
T ss_pred cCCceEhhhcccccc---cc--cccCCCEEEEEEEEEEEEeCCCeEEEEEECCCCCEeEEEEEECc---HHHHHHHhhcC
Confidence 335556777762110 11 113468999999999999999999999999997 699999765 246776643 3
Q ss_pred cCCCcEEEEEeEEEecCCce--eEEEEeEEEEccccCCCCCCCCCCCCChhhccccceeeeecCHHHHHHHHHHHHHHHH
Q 008040 162 VDIGDILGVSGSMKRTEKGE--LSVLVNSFVILTKSLLPLPDKYHGLTDVDKRYRQRYVDMISKPEVADVFRKRAKIVSE 239 (580)
Q Consensus 162 l~~gd~v~v~G~v~~t~~ge--~el~~~~i~vls~a~~plP~~~~~l~d~e~r~r~R~ldl~~~~~~~~~~~~Rs~i~~~ 239 (580)
|+.||+|.|+|+|++++.++ +||.|++++||++|..|+|...... ..+....++|||+| ++.++++||+||+|+++
T Consensus 158 l~~gs~V~V~G~v~~~~~~~~~~EL~v~~i~vlg~a~~~~Pi~~~~~-s~e~lr~~~hLr~R-t~~~~ai~RiRS~i~~a 235 (565)
T PLN02603 158 ITTGASVLVQGTVVSSQGGKQKVELKVSKIVVVGKSDPSYPIQKKRV-SREFLRTKAHLRPR-TNTFGAVARVRNALAYA 235 (565)
T ss_pred CCCCCEEEEEEEEEecCCCCccEEEEEeEEEEEECCCCCCCCccccc-chhhhhhhhhhhhc-cHHHHHHHHHHHHHHHH
Confidence 69999999999999988765 9999999999999987777644332 23455568899996 79999999999999999
Q ss_pred HHHHHHhCCCeeecCceeecc-CCCCCCCceeec---------------------------cCCCCeeEEEEecHHHHHH
Q 008040 240 IRKTVESLGFVEVETPVLQGA-AGGAEARPFVTY---------------------------HNSLGRDLYLRIATELHLK 291 (580)
Q Consensus 240 iR~fl~~~gF~EVeTPiL~~~-~~Ga~a~pF~t~---------------------------~~~~~~~~yL~~Spql~lk 291 (580)
+|+||.++||+||+||+|+++ ++||+..+++|+ .++|++++||+||||||||
T Consensus 236 ir~ff~~~gF~eV~TPiLt~s~~EGA~e~F~Vttl~~~~~~~~~~~~~~lp~~~~~~~~~~~dyF~~~~~LtvS~QL~~E 315 (565)
T PLN02603 236 THKFFQENGFVWVSSPIITASDCEGAGEQFCVTTLIPNSAENGGSLVDDIPKTKDGLIDWSQDFFGKPAFLTVSGQLNGE 315 (565)
T ss_pred HHHHHHHCCCEEEECCeecccCCCccccCceeeeccccccccccccccccccCcccccccchhhhCcceeeccCchHHHH
Confidence 999999999999999999975 788876555543 1468889999999999999
Q ss_pred HHHhccCCceeEEecccccCCCCC-CCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCce--eecCceee----
Q 008040 292 RMLIGGFEKIYEIGRIFRNEGLST-RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLT--IDYQGVEI---- 364 (580)
Q Consensus 292 ~llv~g~~rVfeIg~~FR~E~~~~-rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~--~~~~~~~i---- 364 (580)
.+ ++||+|||+||||||||++++ ||||||||||+||+|+|++|+|+++|++|+++++.+.+++. +++.+...
T Consensus 316 ~~-~~~l~rVy~igp~FRaE~s~T~RHL~EF~mlE~E~af~dl~d~m~~~E~~l~~~~~~v~~~~~~el~~~~~~~~~~~ 394 (565)
T PLN02603 316 TY-ATALSDVYTFGPTFRAENSNTSRHLAEFWMIEPELAFADLNDDMACATAYLQYVVKYILENCKEDMEFFNTWIEKGI 394 (565)
T ss_pred HH-HhcccceEEEecceeCCCCCCccccccceeeeeeeecCCHHHHHHHHHHHHHHHHHHHHcccHhHHHhcCCcccccH
Confidence 85 689999999999999999996 99999999999999999999999999999999999987652 33322211
Q ss_pred ------cCCCCcceeeHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCC
Q 008040 365 ------CLERPWRRETMHNLVKEATGIDFNELGNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPK 438 (580)
Q Consensus 365 ------~~~~pf~rit~~eai~~~~g~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~ 438 (580)
.+..||+||||.||++.+..... + ++. + ..||..|...+|.++...
T Consensus 395 ~~~l~~~~~~~f~rity~EAi~iL~~~~~---------------~-~~~---------~---~~~g~dl~~e~Er~L~~~ 446 (565)
T PLN02603 395 IDRLSDVVEKNFVQLSYTDAIELLLKAKK---------------K-FEF---------P---VKWGLDLQSEHERYITEE 446 (565)
T ss_pred HHHHHHhcCCCCCCCCHHHHHHHHHHhcc---------------c-cCC---------C---CCccccccHHHHHHHHHH
Confidence 13468999999999876532100 0 111 1 123566666666655554
Q ss_pred C--CCcEEEEecCCCCCccccccCCCCCceeEEEEEEcCE-eecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhh
Q 008040 439 L--VQPTFVLDYPIEISPLAKPHRRHAGLTERFELFICGR-EMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSS 515 (580)
Q Consensus 439 l--~~P~fV~dyP~~~~pfa~~~~~~~~~~~rFdL~i~G~-Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~ 515 (580)
+ .+|+||+|||.+++||||+.++|+.++++|||+++|+ ||++|++|+|+++...++ +++
T Consensus 447 ~~~~~PvfVtdyP~~ikpFYm~~~~d~~~v~~fDLl~p~~gEl~gGsqRe~r~e~L~~~----~~e-------------- 508 (565)
T PLN02603 447 AFGGRPVIIRDYPKEIKAFYMRENDDGKTVAAMDMLVPRVGELIGGSQREERLEYLEAR----LDE-------------- 508 (565)
T ss_pred hccCCCEEEECCccccCccccccCCCCCeeEEEEEEecCceEecCHHHHHhhHHHHHHH----HHH--------------
Confidence 4 3799999999999999998888899999999999987 999999999888754443 322
Q ss_pred hHHhhhcCCccccccCCcHHHHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCCCC
Q 008040 516 AQEKLKESDDHSYEVTLDDDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILKIQ 579 (580)
Q Consensus 516 ~~~~~~~~~~e~~~~~~d~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~~~ 579 (580)
.+.+++. .+|||++++||+|||||||||||||+|+|||.+||||||+|||.++.
T Consensus 509 -----~g~~~e~-----y~wYLdl~r~G~pPhgGfGlG~ERLvm~ltg~~nIRdvi~FPR~~g~ 562 (565)
T PLN02603 509 -----LKLNKES-----YWWYLDLRRYGSVPHAGFGLGFERLVQFATGIDNIRDAIPFPRVPGS 562 (565)
T ss_pred -----cCCCHHH-----HHHHHHHHhccCCCCceeEEcHHHHHHHHhCCCchhheeeccCCCCC
Confidence 1223343 37999999999999999999999999999999999999999999874
No 23
>PTZ00425 asparagine-tRNA ligase; Provisional
Probab=100.00 E-value=7.8e-88 Score=739.36 Aligned_cols=404 Identities=21% Similarity=0.336 Sum_probs=331.2
Q ss_pred CCCEEEEEEEEEeEecCCC--eEEEEEeeCCe--eEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecC-------
Q 008040 110 ENDHVSVAGRVVARRAFGK--LAFLTLRDDSG--TIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTE------- 178 (580)
Q Consensus 110 ~~~~V~v~GrV~~~R~~gk--~~F~~LrD~sg--~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~------- 178 (580)
.|+.|+|+|||+++|.+|+ ++|++|+|++| .||||+.++ .+.|+.+.+ |+.|++|.|+|+|..++
T Consensus 80 ~g~~Vtl~GWv~~iR~~g~~~~~Fv~lrDgsg~~~iQiVv~~~---~~~~~~l~~-l~~gs~v~v~G~v~~~~~~~~n~~ 155 (586)
T PTZ00425 80 IDQIITVCGWSKAVRKQGGGRFCFVNLNDGSCHLNLQIIVDQS---IENYEKLLK-CGVGCCFRFTGKLIISPVQNENKK 155 (586)
T ss_pred CCCEEEEEEEEeehhhcCCceEEEEEEECCCCCcceEEEECCc---hHHHHHHhc-CCCccEEEEEEEEEcCCccccCcC
Confidence 4689999999999999984 99999999998 699999765 346777767 59999999999998653
Q ss_pred ---CceeEEEE-----eEEEEccccC--CCCC--CCCCCCCChhhccccceeeeecCHHHHHHHHHHHHHHHHHHHHHHh
Q 008040 179 ---KGELSVLV-----NSFVILTKSL--LPLP--DKYHGLTDVDKRYRQRYVDMISKPEVADVFRKRAKIVSEIRKTVES 246 (580)
Q Consensus 179 ---~ge~el~~-----~~i~vls~a~--~plP--~~~~~l~d~e~r~r~R~ldl~~~~~~~~~~~~Rs~i~~~iR~fl~~ 246 (580)
+|.+||.+ ++++||+++. .++| .+.+ ..|.+..+||||+| ++.++++||+||.|..++|+||.+
T Consensus 156 g~~~~~~El~~~~~~~~~~~ilg~~~d~~~yPi~~k~~---~~e~lr~~rhL~lR-~~~~~avlRiRs~l~~a~r~ff~~ 231 (586)
T PTZ00425 156 GLLKENVELALKDNSIHNFEIYGENLDPQKYPLSKKNH---GKEFLREVAHLRPR-SYFISSVIRIRNALAIATHLFFQS 231 (586)
T ss_pred CCCCccEEEEEecCCCceEEEEeccCCCCCCCCCCccC---Chhhhhhccceecc-CHHHHHHHHHHHHHHHHHHHHHHH
Confidence 35689988 7999999884 2344 3332 45777789999996 799999999999999999999999
Q ss_pred CCCeeecCceeecc-CCCCCCCceeec-----------------------------------------------------
Q 008040 247 LGFVEVETPVLQGA-AGGAEARPFVTY----------------------------------------------------- 272 (580)
Q Consensus 247 ~gF~EVeTPiL~~~-~~Ga~a~pF~t~----------------------------------------------------- 272 (580)
+||+||+||+|+++ ++||+ ..|.++
T Consensus 232 ~gF~eI~TPiit~s~~EGa~-elF~V~t~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~q~~ 310 (586)
T PTZ00425 232 RGFLYIHTPLITTSDCEGGG-EMFTVTTLLGEDADYRAIPRVNKKNKKGEKREDILNTCNANNNNGNSSSSNAVSSPAYP 310 (586)
T ss_pred CCCEEeeCCeecccCCCCCc-ceEEeeecccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 99999999999965 66653 457652
Q ss_pred --------cCCCCeeEEEEecHHHHHHHHHhccCCceeEEecccccCCCCC-CCCccceeeeeEeecCCHHHHHHHHHHH
Q 008040 273 --------HNSLGRDLYLRIATELHLKRMLIGGFEKIYEIGRIFRNEGLST-RHNPEFTTIEMYEAYSDYQSMMNITEEI 343 (580)
Q Consensus 273 --------~~~~~~~~yL~~Spql~lk~llv~g~~rVfeIg~~FR~E~~~~-rH~pEFtmlE~e~a~~d~~d~m~l~E~l 343 (580)
.+|||+++||+||||||||++ ++||+|||+||||||||++++ ||+|||||||+||+|+|++|+|+++|+|
T Consensus 311 ~~~~~~~~~~yF~k~ayL~~S~QLylE~~-~~g~~rVf~i~p~FRaE~s~t~RHL~EFt~lE~E~af~d~~d~m~~~E~l 389 (586)
T PTZ00425 311 DQYLIDYKKDFFSKQAFLTVSGQLSLENL-CSSMGDVYTFGPTFRAENSHTSRHLAEFWMIEPEIAFADLYDNMELAESY 389 (586)
T ss_pred ccccccccccccCcceEEEcCchHHHHHH-HhccCCEEEEeceEeCCCCCCCCCCcccceEEEEEecCCHHHHHHHHHHH
Confidence 158899999999999999976 689999999999999999986 9999999999999999999999999999
Q ss_pred HHHHHHHHhCCc--eeecCceee----------cCCCCcceeeHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCCCC
Q 008040 344 VTHCALAVNGKL--TIDYQGVEI----------CLERPWRRETMHNLVKEATGIDFNELGNDLKVAKETTLRALGDGLEN 411 (580)
Q Consensus 344 i~~~~~~v~~~~--~~~~~~~~i----------~~~~pf~rit~~eai~~~~g~~~~~~~~~~~~~~~~~~~~~g~~~~~ 411 (580)
|+++++.+.+.+ .+.+.+..+ .+..||+||||.||++.+.... .+ ++.
T Consensus 390 i~~v~~~vl~~~~~~i~~~~~~~~~~l~~~l~~~~~~pf~rIty~EAi~iL~~~~---------------~~-~~~---- 449 (586)
T PTZ00425 390 IKYCIGYVLNNNFDDIYYFEENVETGLISRLKNILDEDFAKITYTNVIDLLQPYS---------------DS-FEV---- 449 (586)
T ss_pred HHHHHHHHhcccccccccccccccccHHHHHHHhcCCCCCcCCHHHHHHHHHHhH---------------Hh-cCC----
Confidence 999999998754 355543211 1357999999999998763210 00 111
Q ss_pred ccccccCCCCcHHhHHHHHHHHHhcCCC-CCcEEEEecCCCCCccccccCCCCCceeEEEEEEcCE-eecccccccCCHH
Q 008040 412 KDKFVIESSPSVGNLLNEVFEIVVEPKL-VQPTFVLDYPIEISPLAKPHRRHAGLTERFELFICGR-EMANAFSELTDPL 489 (580)
Q Consensus 412 ~~~~~~~~~~~lg~~l~~~~~~~ve~~l-~~P~fV~dyP~~~~pfa~~~~~~~~~~~rFdL~i~G~-Ei~ng~~el~dp~ 489 (580)
. ..+|..+...++.++..++ .+|+||+|||.+++|||+..++|+.++++|||+++|+ ||++|++|+++++
T Consensus 450 -----~---~~~G~dL~~e~Er~L~~~~~~~PvFItdyP~~~kPFY~~~~~d~~~v~~fDLlvpgiGEI~gGsqRe~~~e 521 (586)
T PTZ00425 450 -----P---VKWGMDLQSEHERFVAEQIFKKPVIVYNYPKDLKAFYMKLNEDQKTVAAMDVLVPKIGEVIGGSQREDNLE 521 (586)
T ss_pred -----C---CCcccccchHHHHHHHHHhcCCcEEEECCccccCccccCcCCCCCeEEEEeEEccCceEEccCCCccccHH
Confidence 0 0124445556666666664 6899999999999999997766778999999999985 9999999998876
Q ss_pred HHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcHHHHHHHhcCCCCccceeccHHHHHHHHcCCCCccc
Q 008040 490 DQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRD 569 (580)
Q Consensus 490 ~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrd 569 (580)
++.++++. .+.+.+. ++|||++++||||||||||||||||+|+|||.+||||
T Consensus 522 ----~L~~~ike-------------------~gl~~e~-----~~wYLd~rryG~pPhgGfGLGiERLvm~ltGl~nIRD 573 (586)
T PTZ00425 522 ----RLDKMIKE-------------------KKLNMES-----YWWYRQLRKFGSHPHAGFGLGFERLIMLVTGVDNIKD 573 (586)
T ss_pred ----HHHHHHHH-------------------cCCChhH-----HHHHHHHhhCCCCCCceEEEcHHHHHHHHcCCCchhe
Confidence 46666544 1223343 4799999999999999999999999999999999999
Q ss_pred cccCCcCCCC
Q 008040 570 VIAFPILKIQ 579 (580)
Q Consensus 570 vi~FP~~~~~ 579 (580)
|++|||.++.
T Consensus 574 vi~FPR~~g~ 583 (586)
T PTZ00425 574 TIPFPRYPGH 583 (586)
T ss_pred EEECcCCCCc
Confidence 9999999864
No 24
>PLN02221 asparaginyl-tRNA synthetase
Probab=100.00 E-value=4.1e-87 Score=735.14 Aligned_cols=408 Identities=20% Similarity=0.278 Sum_probs=324.1
Q ss_pred CCCCEEEEEEEEEeEecCCC--eEEEEEeeCC--eeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecC-----C
Q 008040 109 SENDHVSVAGRVVARRAFGK--LAFLTLRDDS--GTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTE-----K 179 (580)
Q Consensus 109 ~~~~~V~v~GrV~~~R~~gk--~~F~~LrD~s--g~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~-----~ 179 (580)
..|+.|+|+|||+++|.+|| ++|++|||++ |.||||+.++. ....+. |+.|++|.|+|+|+.++ +
T Consensus 48 ~~g~~V~I~GWV~~iR~~Gk~~i~Fl~LRDgs~~g~iQvVv~~~~-----~~~~~~-L~~ES~V~V~G~V~~~~~~~~~~ 121 (572)
T PLN02221 48 LAGQKVRIGGWVKTGREQGKGTFAFLEVNDGSCPANLQVMVDSSL-----YDLSTL-VATGTCVTVDGVLKVPPEGKGTK 121 (572)
T ss_pred cCCCEEEEEEEEEehhhCCCceEEEEEEeCCcccccEEEEEcCch-----hhHHhc-CCCceEEEEEEEEEeCCccCCCC
Confidence 34689999999999999996 8999999999 89999997652 111223 69999999999998764 4
Q ss_pred ceeEEEEeEEEEccccC-CCCCCCCCCCCChhhccccceeeeecCHHHHHHHHHHHHHHHHHHHHHHhCCCeeecCceee
Q 008040 180 GELSVLVNSFVILTKSL-LPLPDKYHGLTDVDKRYRQRYVDMISKPEVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQ 258 (580)
Q Consensus 180 ge~el~~~~i~vls~a~-~plP~~~~~l~d~e~r~r~R~ldl~~~~~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~ 258 (580)
|.+||.+++|+|||+|. .|+|..... .+.+.+.++|||++| ++.++++||+||.|+++||+||.++||+||+||+|+
T Consensus 122 ~~iEl~v~~i~vl~~a~~~~~Pi~~~~-~~~e~lrr~~hLR~R-~~~~~Ai~RiRS~i~~aiR~ff~~~gFiEI~TP~Lt 199 (572)
T PLN02221 122 QKIELSVEKVIDVGTVDPTKYPLPKTK-LTLEFLRDVLHLRSR-TNSISAVARIRNALAFATHSFFQEHSFLYIHTPIIT 199 (572)
T ss_pred ccEEEEEeEEEEEecCCCCCCCCCCCc-CChHHHhhcchhhcC-CHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCeec
Confidence 58999999999999986 366643222 346677788888885 799999999999999999999999999999999999
Q ss_pred cc-CCCCCCCceeec-----------------------------------------------------------------
Q 008040 259 GA-AGGAEARPFVTY----------------------------------------------------------------- 272 (580)
Q Consensus 259 ~~-~~Ga~a~pF~t~----------------------------------------------------------------- 272 (580)
++ ++|| +..|.+.
T Consensus 200 ~s~~EGg-~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 278 (572)
T PLN02221 200 TSDCEGA-GEMFQVTTLINYTERLEQDLIDNPPPTEADVEAARLIVKERGEVVAQLKAAKASKEEITAAVAELKIAKESL 278 (572)
T ss_pred cccCCCC-ccceeeeecccccccccccccccCcccchhhhhhhhhhhhhcchhhhhhccccchhhhhhhhhhhhhhhhhh
Confidence 65 5553 3455431
Q ss_pred -----------------------cCCCCeeEEEEecHHHHHHHHHhccCCceeEEecccccCCCC-CCCCccceeeeeEe
Q 008040 273 -----------------------HNSLGRDLYLRIATELHLKRMLIGGFEKIYEIGRIFRNEGLS-TRHNPEFTTIEMYE 328 (580)
Q Consensus 273 -----------------------~~~~~~~~yL~~Spql~lk~llv~g~~rVfeIg~~FR~E~~~-~rH~pEFtmlE~e~ 328 (580)
.+|||+++||+||||||||++ ++||+|||+||||||||+++ +||||||||||+||
T Consensus 279 ~~~~~~~~~~~~~~~~~~~~~~~~dyFg~~ayLtqS~QLy~e~~-~~~l~rVfeIgP~FRAE~s~T~RHL~EFtmlE~Em 357 (572)
T PLN02221 279 AHIEERSKLKPGLPKKDGKIDYSKDFFGRQAFLTVSGQLQVETY-ACALSSVYTFGPTFRAENSHTSRHLAEFWMVEPEI 357 (572)
T ss_pred hhhhhhhhcccCCcccccccccccccCCCCeeeccCHHHHHHHH-HHhcCCeEEEccceecCCCCCCcccccccceeeee
Confidence 168999999999999999986 57899999999999999996 59999999999999
Q ss_pred ecCCHHHHHHHHHHHHHHHHHHHhCCce--eec-----Cceee-----cCCCCcceeeHHHHHHHHhCCCCCCCCCCHHH
Q 008040 329 AYSDYQSMMNITEEIVTHCALAVNGKLT--IDY-----QGVEI-----CLERPWRRETMHNLVKEATGIDFNELGNDLKV 396 (580)
Q Consensus 329 a~~d~~d~m~l~E~li~~~~~~v~~~~~--~~~-----~~~~i-----~~~~pf~rit~~eai~~~~g~~~~~~~~~~~~ 396 (580)
+|.|++|+|+++|+||+++++.+.+.+. +.+ ....+ .+..||+||||.||++.+....
T Consensus 358 af~d~~dvm~l~E~lv~~i~~~l~~~~~~~l~~l~~~~~~~~~~~l~~~~~~pf~RIty~EAi~~L~~~~---------- 427 (572)
T PLN02221 358 AFADLEDDMNCAEAYVKYMCKWLLDKCFDDMELMAKNFDSGCIDRLRMVASTPFGRITYTEAIELLEEAV---------- 427 (572)
T ss_pred ecCCHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhcCchhhhhhhhccCCCceEEEHHHHHHHHHhhh----------
Confidence 9999999999999999999999987642 222 11111 1567999999999998753210
Q ss_pred HHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCC-CCCcEEEEecCCCCCccccccCCCCCceeEEEEEEcC
Q 008040 397 AKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPK-LVQPTFVLDYPIEISPLAKPHRRHAGLTERFELFICG 475 (580)
Q Consensus 397 ~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~-l~~P~fV~dyP~~~~pfa~~~~~~~~~~~rFdL~i~G 475 (580)
. .|. +... ...+|..+...++.++... ..+|+||+|||.+++||||+.++|+.+++|||||++|
T Consensus 428 ------~-~g~-------~~~~-~~~~G~dl~~e~Er~L~~~~~~~pvfv~dyP~~~~pfy~~~~~d~~~~~~fDLl~~g 492 (572)
T PLN02221 428 ------A-KGK-------EFDN-NVEWGIDLASEHERYLTEVLFQKPLIVYNYPKGIKAFYMRLNDDEKTVAAMDVLVPK 492 (572)
T ss_pred ------h-cCC-------CCCC-CcchhhhhhHHHHHHHHHHhcCCcEEEEcCChhhCcccccCCCCCceEEEEEEecCC
Confidence 0 121 0000 0123777777788877776 4689999999999999998877888899999999997
Q ss_pred E-eecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcHHHHHHHhcCCCCccceeccH
Q 008040 476 R-EMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDDFVTALEYGMPPASGMGLGI 554 (580)
Q Consensus 476 ~-Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~al~yG~PP~gG~GiGi 554 (580)
+ ||++|++ |+.+|+...... ++.|.+.. ..+|||+|++|||||||||||||
T Consensus 493 ~~El~~g~~-------R~~r~e~l~~~~-----------------~~~g~~~~----~~~~yLda~~~G~pPh~G~GlGi 544 (572)
T PLN02221 493 VGELIGGSQ-------REERYDVIKQRI-----------------EEMGLPIE----PYEWYLDLRRYGTVKHCGFGLGF 544 (572)
T ss_pred ceEECCHHH-------HHHHHHHHHHHH-----------------HHcCCChh----hhHHHHHHhhCCCCCCceEEEeH
Confidence 3 5555554 455555433220 23343322 35799999999999999999999
Q ss_pred HHHHHHHcCCCCccccccCCcCCCC
Q 008040 555 DRLVMLLTNSASIRDVIAFPILKIQ 579 (580)
Q Consensus 555 DRLvMlltg~~sIrdvi~FP~~~~~ 579 (580)
|||+|++||..|||||++|||.++.
T Consensus 545 ERLvm~l~g~~nIRdvi~FPR~~~~ 569 (572)
T PLN02221 545 ERMILFATGIDNIRDVIPFPRYPGK 569 (572)
T ss_pred HHHHHHHcCCCchheEeecCCCcCc
Confidence 9999999999999999999999864
No 25
>PLN02532 asparagine-tRNA synthetase
Probab=100.00 E-value=1.7e-86 Score=731.77 Aligned_cols=390 Identities=18% Similarity=0.232 Sum_probs=313.1
Q ss_pred EecCCCeEEEEEeeCCee--EEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecC----CceeEEEEeEEEEccccC
Q 008040 123 RRAFGKLAFLTLRDDSGT--IQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTE----KGELSVLVNSFVILTKSL 196 (580)
Q Consensus 123 ~R~~gk~~F~~LrD~sg~--iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~----~ge~el~~~~i~vls~a~ 196 (580)
.|.+|+++||+|||+||. ||||+.++..+. . .. |+.|++|.|+|+|..++ +|.+||.|++|+||+++.
T Consensus 129 ~r~~g~i~FI~LrDGSg~~~lQvVv~~~~~~~---~--~~-L~~Es~V~V~G~V~~~~~~~~~g~iEl~v~~i~VLg~a~ 202 (633)
T PLN02532 129 APPPPSVAYLLISDGSCVASLQVVVDSALAPL---T--QL-MATGTCILAEGVLKLPLPAQGKHVIELEVEKILHIGTVD 202 (633)
T ss_pred cccCCCcEEEEEECCCCccceEEEEeCCcccH---h--hc-CCCceEEEEEEEEEecCCCCCCCcEEEEeeEEEEEecCC
Confidence 799999999999999997 999998764321 1 34 69999999999999772 678999999999999875
Q ss_pred -CCCCCCCCCCCChhhccccceeeeecCHHHHHHHHHHHHHHHHHHHHHHhCCCeeecCceeecc-CCCCC-CCceee--
Q 008040 197 -LPLPDKYHGLTDVDKRYRQRYVDMISKPEVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA-AGGAE-ARPFVT-- 271 (580)
Q Consensus 197 -~plP~~~~~l~d~e~r~r~R~ldl~~~~~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~-~~Ga~-a~pF~t-- 271 (580)
.|+|...+.. ..|.+.++|||||| ++.++++||+||+|+++||+||.++||+||+||+|+++ ++||+ ..++.|
T Consensus 203 ~~p~Pi~~k~~-~~E~LR~~RhLdLR-t~~~~ailRiRS~i~~aiR~ff~~~GFiEV~TPiLT~s~~EGa~elF~v~t~~ 280 (633)
T PLN02532 203 PEKYPLSKKRL-PLDMLRDFSHFRPR-TTTVASVTRVRSALTHATHTFFQDHGFLYVQVPIITTTDATGFGEMFRVTTLL 280 (633)
T ss_pred CCCCccccccC-CHHHHhhCcceecC-CHHHHHHHHHHHHHHHHHHHHHHHCCCEEeeCCeecccCCCccccccceeccc
Confidence 4666443322 34555599999996 89999999999999999999999999999999999965 56643 222221
Q ss_pred --------------------------------------------------------------------------------
Q 008040 272 -------------------------------------------------------------------------------- 271 (580)
Q Consensus 272 -------------------------------------------------------------------------------- 271 (580)
T Consensus 281 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 360 (633)
T PLN02532 281 GKSDDKEEKKPVHETEGISLEAVKAAIKEKTNLVEELKRSESNREALVAAEQDLRKTNQLASQLEAKEKLKTGTSVKADK 360 (633)
T ss_pred cccccccccccccccccccchhhhhhhhcccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence
Q ss_pred ---ccCCCCeeEEEEecHHHHHHHHHhccCCceeEEecccccCCCCC-CCCccceeeeeEeecCCHHHHHHHHHHHHHHH
Q 008040 272 ---YHNSLGRDLYLRIATELHLKRMLIGGFEKIYEIGRIFRNEGLST-RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHC 347 (580)
Q Consensus 272 ---~~~~~~~~~yL~~Spql~lk~llv~g~~rVfeIg~~FR~E~~~~-rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~ 347 (580)
..+|||+++||+||||||||+++ +||+|||+||||||||+++| ||||||||||+||+|.||+|+|+++|+||+++
T Consensus 361 ~~f~~dyFg~~ayLtqS~QLylE~~~-~gl~rVYeIgP~FRAE~s~T~RHL~EFtmlE~Emaf~d~~dvM~l~E~lI~~v 439 (633)
T PLN02532 361 LSFSKDFFSRPTYLTVSGRLHLESYA-CALGNVYTFGPRFRADRIDSARHLAEMWMVEVEMAFSELEDAMNCAEDYFKFL 439 (633)
T ss_pred cccccccCCCCeeeccCHHHHHHHHH-HhcCceEEEccceecCCCCCCcccccccceeeeehhcCHHHHHHHHHHHHHHH
Confidence 12589999999999999999864 79999999999999999996 99999999999999999999999999999999
Q ss_pred HHHHhCCc--eeecCcee----------ecCCCCcceeeHHHHHHHHhC---CCCCCCCCCHHHHHHHHHHHcCCCCCCc
Q 008040 348 ALAVNGKL--TIDYQGVE----------ICLERPWRRETMHNLVKEATG---IDFNELGNDLKVAKETTLRALGDGLENK 412 (580)
Q Consensus 348 ~~~v~~~~--~~~~~~~~----------i~~~~pf~rit~~eai~~~~g---~~~~~~~~~~~~~~~~~~~~~g~~~~~~ 412 (580)
++.+.+++ .+.+.+.. ..++.||+||||.||++.+.. .++..
T Consensus 440 ~k~v~~~~~~el~~l~~~~~~~~~~~le~~~~~pf~RIty~EAi~iL~~~~~~~~e~----------------------- 496 (633)
T PLN02532 440 CKWVLENCSEDMKFVSKRIDKTISTRLEAIISSSLQRISYTEAVDLLKQATDKKFET----------------------- 496 (633)
T ss_pred HHHHHhhhhhhhhhhcccCCcchhhhhhcccCCCceEEEHHHHHHHHHHhcCCCccc-----------------------
Confidence 99998764 34444321 246789999999999987632 11110
Q ss_pred cccccCCCCcHHhHHHHHHHH-HhcCCCCCcEEEEecCCCCCccccccCCCCCceeEEEEEEcCE-eecccccccCCHHH
Q 008040 413 DKFVIESSPSVGNLLNEVFEI-VVEPKLVQPTFVLDYPIEISPLAKPHRRHAGLTERFELFICGR-EMANAFSELTDPLD 490 (580)
Q Consensus 413 ~~~~~~~~~~lg~~l~~~~~~-~ve~~l~~P~fV~dyP~~~~pfa~~~~~~~~~~~rFdL~i~G~-Ei~ng~~el~dp~~ 490 (580)
... +|..|....+. +++..+.+|+||+|||.+++||||..++|+.++++|||+++|+ ||++|++|+++.+.
T Consensus 497 ----~~~---~g~dL~~e~Er~L~~~~~~~PvFVtdyP~~ikPFY~~~~~d~~~v~~FDLlvp~~GEIigGsqRE~r~e~ 569 (633)
T PLN02532 497 ----KPE---WGIALTTEHLSYLADEIYKKPVIIYNYPKELKPFYVRLNDDGKTVAAFDLVVPKVGTVITGSQNEERMDI 569 (633)
T ss_pred ----ccc---cCCccChHHHHHHHHHHcCCCEEEECCChhhchhhCCcCCCCCceEEEEEecCCCeEEeeCcEeHHHHHH
Confidence 000 12222222232 2333357899999999999999998888899999999999975 99999999988764
Q ss_pred HHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcHHHHHHHhcCCCCccceeccHHHHHHHHcCCCCcccc
Q 008040 491 QRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDV 570 (580)
Q Consensus 491 q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdv 570 (580)
.. ++++. .|.++. .++|||++++||||||||||||||||+|||||.+|||||
T Consensus 570 L~----~~~ke--------------------~Gld~e----~~ewYLdlrryG~pPHgGfGLG~ERLvm~ltGl~nIRDv 621 (633)
T PLN02532 570 LN----ARIEE--------------------LGLPRE----QYEWYLDLRRHGTVKHSGFSLGFELMVLFATGLPDVRDA 621 (633)
T ss_pred HH----HHHHH--------------------cCCChh----hHHHHHHHHHcCCCCCeEEEEhHHHHHHHHhCCCchheE
Confidence 33 33322 233222 368999999999999999999999999999999999999
Q ss_pred ccCCcCCCC
Q 008040 571 IAFPILKIQ 579 (580)
Q Consensus 571 i~FP~~~~~ 579 (580)
|+|||+++.
T Consensus 622 i~FPR~~g~ 630 (633)
T PLN02532 622 IPFPRSWGK 630 (633)
T ss_pred eecCCCcCc
Confidence 999999864
No 26
>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=100.00 E-value=6.3e-83 Score=668.94 Aligned_cols=327 Identities=57% Similarity=0.948 Sum_probs=289.2
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHhCCCeeecCceeeccCCCCCCCceeeccCCCCeeEEEEecHHHHHHHHHhccCCcee
Q 008040 223 KPEVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAAGGAEARPFVTYHNSLGRDLYLRIATELHLKRMLIGGFEKIY 302 (580)
Q Consensus 223 ~~~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g~~rVf 302 (580)
||.++++|++||.|+++||+||.++||+||+||+|+++++|++++||.|++++++.++||+||||||||+++++|++|||
T Consensus 1 ~~~~~~~l~~Rs~i~~~iR~ff~~~gf~EV~TP~L~~~~~~~~~~~f~~~~~~~~~~~yL~~Spql~~k~ll~~g~~~vf 80 (329)
T cd00775 1 NEEVRQTFIVRSKIISYIRKFLDDRGFLEVETPMLQPIAGGAAARPFITHHNALDMDLYLRIAPELYLKRLIVGGFERVY 80 (329)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCccccCCCCccceeEEeccCCCCcceeeccCHHHHHHHHHhcCCCcEE
Confidence 68899999999999999999999999999999999998888889999998889999999999999999999999999999
Q ss_pred EEecccccCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCceeecCCCCcceeeHHHHHHHH
Q 008040 303 EIGRIFRNEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQGVEICLERPWRRETMHNLVKEA 382 (580)
Q Consensus 303 eIg~~FR~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~~~~i~~~~pf~rit~~eai~~~ 382 (580)
|||||||||++++|||||||||||||+|.|++|+|+++|++|+++++.+.+...+.+.+..++++.||+|+||.||++++
T Consensus 81 ~i~~~FR~E~~~~rHl~EFt~le~e~~~~~~~~~m~~~e~li~~i~~~~~~~~~~~~~~~~~~~~~pf~rity~eA~~~~ 160 (329)
T cd00775 81 EIGRNFRNEGIDLTHNPEFTMIEFYEAYADYNDMMDLTEDLFSGLVKKINGKTKIEYGGKELDFTPPFKRVTMVDALKEK 160 (329)
T ss_pred EEeccccCCCCCCCCCCceEEEEEeeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCCccccCCCCceEEEHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999998877777777667777899999999999999
Q ss_pred hCCCCCCCCC--CHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCCCcEEEEecCCCCCccccccC
Q 008040 383 TGIDFNELGN--DLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLVQPTFVLDYPIEISPLAKPHR 460 (580)
Q Consensus 383 ~g~~~~~~~~--~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~~P~fV~dyP~~~~pfa~~~~ 460 (580)
+|+++...++ ..+.++..... .+. ..+. ...++.+++.+++++|++++++||||+|||..++|||+..+
T Consensus 161 ~g~~~~~~~~~~~~~~~~~~~~~-~~~-------~~~~-~~~~~~~l~~l~~~~ve~~~~~p~fi~~yP~~~~~f~~~~~ 231 (329)
T cd00775 161 TGIDFPELDLEQPEELAKLLAKL-IKE-------KIEK-PRTLGKLLDKLFEEFVEPTLIQPTFIIDHPVEISPLAKRHR 231 (329)
T ss_pred hCCCcccccccCCHHHHHHHHHH-cCC-------CCCC-CCCHHHHHHHHHHHHhccccCCCEEEECCChHhCcCcCcCC
Confidence 9987643221 11222222221 222 1111 22458999999999999999999999999999999999888
Q ss_pred CCCCceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcHHHHHHH
Q 008040 461 RHAGLTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDDFVTAL 540 (580)
Q Consensus 461 ~~~~~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~al 540 (580)
+||++++|||||++|+||+|||+|+|||.+|+++|+++++. +..+.++..+ .|+|||+|+
T Consensus 232 ~~~~~~~rfdl~~~G~Ei~~G~~el~d~~e~~~r~~~~~~~------------------~~~~~~~~~~--~~~~yl~a~ 291 (329)
T cd00775 232 SNPGLTERFELFICGKEIANAYTELNDPFDQRERFEEQAKQ------------------KEAGDDEAMM--MDEDFVTAL 291 (329)
T ss_pred CCCCeeEEEEeEECCEEEEcccchhCCHHHHHHHHHHHHHH------------------HHcCCCcccc--chHHHHHHH
Confidence 99999999999999999999999999999999999998776 3444444444 689999999
Q ss_pred hcCCCCccceeccHHHHHHHHcCCCCccccccCCcCCC
Q 008040 541 EYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILKI 578 (580)
Q Consensus 541 ~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~~ 578 (580)
+||||||||||||||||+|++||.+|||||++||++|+
T Consensus 292 ~~G~pp~~G~glGleRL~m~~~g~~~Irdv~~Fp~~~~ 329 (329)
T cd00775 292 EYGMPPTGGLGIGIDRLVMLLTDSNSIRDVILFPAMRP 329 (329)
T ss_pred HCCCCCCCcEEecHHHHHHHHcCCCcHHhcccCCCCCC
Confidence 99999999999999999999999999999999999985
No 27
>KOG2411 consensus Aspartyl-tRNA synthetase, mitochondrial [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.1e-82 Score=658.40 Aligned_cols=439 Identities=27% Similarity=0.454 Sum_probs=348.7
Q ss_pred ccCCCHHHHHHHHhhccCCccCCCCCCEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCC
Q 008040 86 DRTHSANQLQEIYRHLANGEESNSENDHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIG 165 (580)
Q Consensus 86 ~~t~~~~~i~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~g 165 (580)
.+|+.|+++.-. +.|+.|.||||+...|.+|.+.|..|||.+|.||+.++.+..+.. ......++.+
T Consensus 33 ~~t~~~~el~~~-----------~vg~kv~l~GWl~~~~~~k~~~F~~LRD~~G~vq~lls~~s~~l~--~~~~~~v~~e 99 (628)
T KOG2411|consen 33 SRTSLCGELSVN-----------DVGKKVVLCGWLELHRVHKMLTFFNLRDAYGIVQQLLSPDSFPLA--QKLENDVPLE 99 (628)
T ss_pred hhhccchhhccC-----------ccCCEEEEeeeeeeeeccccceEEEeeccCcceEEEecchhhhHH--hcccCCCChh
Confidence 578889888642 356899999999999999999999999999999999987754311 2233447999
Q ss_pred cEEEEEeEEEec---------CCceeEEEEeEEEEccccCCCCCCCC------CCCCChhhccccceeeeecCHHHHHHH
Q 008040 166 DILGVSGSMKRT---------EKGELSVLVNSFVILTKSLLPLPDKY------HGLTDVDKRYRQRYVDMISKPEVADVF 230 (580)
Q Consensus 166 d~v~v~G~v~~t---------~~ge~el~~~~i~vls~a~~plP~~~------~~l~d~e~r~r~R~ldl~~~~~~~~~~ 230 (580)
|+|.|+|+|... ++|.+|+.++.+++++++...+|... ..+..+..|+++|||||| +|.++..+
T Consensus 100 ~vv~v~gtvv~Rp~~sin~km~tg~vev~~e~~~vln~~~~~~p~~v~df~~ld~~~~er~rl~~RyldLR-~~kmq~nL 178 (628)
T KOG2411|consen 100 DVVQVEGTVVSRPNESINSKMKTGFVEVVAEKVEVLNPVNKKLPFEVTDFKELDDLAGERIRLRFRYLDLR-RPKMQNNL 178 (628)
T ss_pred heEeeeeeEecccccccCccccccceEEEeeeeEEecCccCCCccchhhhhhhhccccccccchhhhhhhc-cHHHHHHH
Confidence 999999999843 47999999999999999998888432 223457899999999996 79999999
Q ss_pred HHHHHHHHHHHHHHHh-CCCeeecCceee-ccCCCCCCCceeeccCCCCeeEE-EEecHHHHHHHHHhccCCceeEEecc
Q 008040 231 RKRAKIVSEIRKTVES-LGFVEVETPVLQ-GAAGGAEARPFVTYHNSLGRDLY-LRIATELHLKRMLIGGFEKIYEIGRI 307 (580)
Q Consensus 231 ~~Rs~i~~~iR~fl~~-~gF~EVeTPiL~-~~~~Ga~a~pF~t~~~~~~~~~y-L~~Spql~lk~llv~g~~rVfeIg~~ 307 (580)
|+||.++..||+||.+ +||+|||||+|. .+||| |+.|+++.+.....+| |.||||+|+|+|||||++|||||++|
T Consensus 179 rlRS~~v~~iR~yl~n~~GFvevETPtLFkrTPgG--A~EFvVPtr~~~g~FYaLpQSPQQfKQlLMvsGidrYyQiARC 256 (628)
T KOG2411|consen 179 RLRSNVVKKIRRYLNNRHGFVEVETPTLFKRTPGG--AREFVVPTRTPRGKFYALPQSPQQFKQLLMVSGIDRYYQIARC 256 (628)
T ss_pred HHHHHHHHHHHHHHhhhcCeeeccCcchhccCCCc--cceeecccCCCCCceeecCCCHHHHHHHHHHhchhhHHhHHhh
Confidence 9999999999999976 579999999998 56887 6899999877655566 99999999999999999999999999
Q ss_pred cccCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCceeecCCCCcceeeHHHHHHHHhCCCC
Q 008040 308 FRNEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQGVEICLERPWRRETMHNLVKEATGIDF 387 (580)
Q Consensus 308 FR~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~~~~i~~~~pf~rit~~eai~~~~g~~~ 387 (580)
||+|+++.+++|||||+|+||+|.|.+|||.++|++|+++|....+ +.+..||+||||.||+..| |+|-
T Consensus 257 fRDEdlR~DRQPEFTQvD~EMsF~~~~dim~liEdll~~~ws~~k~----------~~l~~PF~riTY~~Am~~Y-G~DK 325 (628)
T KOG2411|consen 257 FRDEDLRADRQPEFTQVDMEMSFTDQEDIMKLIEDLLRYVWSEDKG----------IQLPVPFPRITYADAMDKY-GSDK 325 (628)
T ss_pred hcccccCcccCCcceeeeeEEeccCHHHHHHHHHHHHHHhchhhcC----------CCCCCCcccccHHHHHHHh-CCCC
Confidence 9999999999999999999999999999999999999999987655 3467899999999999998 4432
Q ss_pred CCCC-----CCHHHH----------------------------------HHHHHHHcC---CCC---------CCcc---
Q 008040 388 NELG-----NDLKVA----------------------------------KETTLRALG---DGL---------ENKD--- 413 (580)
Q Consensus 388 ~~~~-----~~~~~~----------------------------------~~~~~~~~g---~~~---------~~~~--- 413 (580)
++.- .|+.+. +...+. .| ..+ ...|
T Consensus 326 PD~Rf~l~l~dv~~~~~~~~~~~~~~d~l~~~~~vv~~~~~~~~s~~~~rk~~e~-~~~~~~~~~~f~~~~~~~~~w~~~ 404 (628)
T KOG2411|consen 326 PDTRFPLKLKDVSESISKSFEEALLSDGLISVEIVVLGAKKYSNSNYKKRKIYES-LGKSGFVGLPFPIEHDANKNWFKK 404 (628)
T ss_pred CcccCCcEecchHHhhhhhhhhhhhcCCccceEEEEeccccccchhhHHhHHHHH-Hhhcccccceeeeeccchhhhhhh
Confidence 2210 010000 000000 11 000 0001
Q ss_pred -----------------------------ccccCCCCcHHhHHHHHHHHHhc----CCCCCcEEEEecCCC---------
Q 008040 414 -----------------------------KFVIESSPSVGNLLNEVFEIVVE----PKLVQPTFVLDYPIE--------- 451 (580)
Q Consensus 414 -----------------------------~~~~~~~~~lg~~l~~~~~~~ve----~~l~~P~fV~dyP~~--------- 451 (580)
.+..+..+.+|++.-.+++..+. +......||+|||..
T Consensus 405 ~~~l~~e~~~~el~~~~~l~~~Div~~~~g~~~~~~~~LgrlRL~l~~l~~~~l~d~~~~~~lWVvDFPLF~p~~E~~q~ 484 (628)
T KOG2411|consen 405 FSSLTDEAVAIELIKQLGLAEGDIVLLCVGPKVSVNTPLGRLRLVLQDLLVKNLRDKSKFSFLWVVDFPLFSPWEEKNQR 484 (628)
T ss_pred chhhccchHHHHHHHHhCCCCCCEEEEeccCCccCCCchHHHHHHHHHHHhccccccccceEEEEEeccccCccccCCce
Confidence 11122345567775334443333 233356899999985
Q ss_pred ----CCccccccCCCCC---------ceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHH
Q 008040 452 ----ISPLAKPHRRHAG---------LTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQE 518 (580)
Q Consensus 452 ----~~pfa~~~~~~~~---------~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~ 518 (580)
+.||+++|++|-. ....|||++||+||+||+.|+|||+.|+..|+..++.
T Consensus 485 L~StHHPFTaP~~~Di~~L~s~p~~~rgqhYDlV~NGvElGGGSiRIhn~diQr~vLe~iLk~----------------- 547 (628)
T KOG2411|consen 485 LESTHHPFTAPHPKDIDLLESAPEKIRGQHYDLVVNGVELGGGSIRIHNPDIQRYVLEDILKI----------------- 547 (628)
T ss_pred eccccCCCCCCChhhhhHhhcCchhhhcceeeeEEccEeecCceeEecCHHHHHHHHHHHhcC-----------------
Confidence 5799999887632 3589999999999999999999999999999987643
Q ss_pred hhhcCCccccccCCcHHHHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCC
Q 008040 519 KLKESDDHSYEVTLDDDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILK 577 (580)
Q Consensus 519 ~~~~~~~e~~~~~~d~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~ 577 (580)
++.+. ..+..|+||.+|+||||||++|+|||+|+|||..||||||+||+..
T Consensus 548 ------p~~~~--s~gHLL~ALd~GaPPHGGiAlGlDRlvaml~~a~sIRDVIAFPKt~ 598 (628)
T KOG2411|consen 548 ------PEDAE--SKGHLLNALDMGAPPHGGIALGLDRLVAMLTGAPSIRDVIAFPKTT 598 (628)
T ss_pred ------chhhh--hHHHHHHHhhcCCCCCCceeecHHHHHHHHcCCCchheeeeccccC
Confidence 22222 2358999999999999999999999999999999999999999865
No 28
>PF00152 tRNA-synt_2: tRNA synthetases class II (D, K and N) ; InterPro: IPR004364 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This entry includes the asparagine, aspartic acid and lysine tRNA synthetases.; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 1N9W_B 1BBU_A 1BBW_A 4EX5_B 3E9I_A 3E9H_C 3A74_C 1NNH_A 3M4P_C 3M4Q_B ....
Probab=100.00 E-value=1.3e-79 Score=647.06 Aligned_cols=328 Identities=36% Similarity=0.579 Sum_probs=263.9
Q ss_pred ChhhccccceeeeecCHHHHHHHHHHHHHHHHHHHHHHhCCCeeecCceeeccCCCCCCCceeec---cCCCCeeEEEEe
Q 008040 208 DVDKRYRQRYVDMISKPEVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAAGGAEARPFVTY---HNSLGRDLYLRI 284 (580)
Q Consensus 208 d~e~r~r~R~ldl~~~~~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a~pF~t~---~~~~~~~~yL~~ 284 (580)
|+|+|+++||||+| ++.++++|++||.|+++||+||.++||+||+||+|+++.+++++++|.|. ..+++.++||++
T Consensus 1 ~~e~~~~~r~l~~r-~~~~~~~~~~rs~i~~~ir~ff~~~~f~Ev~tP~l~~~~~~~~~~~F~v~~~~~~~~~~~~~L~~ 79 (335)
T PF00152_consen 1 DEETRLDNRHLDLR-TPAMSSILRIRSAILQAIREFFDKRGFIEVDTPILTSSTCEGGAEPFSVDSEPGKYFGEPAYLTQ 79 (335)
T ss_dssp -HHHHHHTHHHHTT-SHHHHHHHHHHHHHHHHHHHHHHHTT-EEE---SEESSSSSSSSCSEEEEESTTEETTEEEEE-S
T ss_pred Chhhhhhccceecc-CcHHHHHHHHHHHHHHHHHHHHHhCCceEEcCceeeccccCccccccccccchhhhcccceecCc
Confidence 57899999999996 79999999999999999999999999999999999987655578999987 457899999999
Q ss_pred cHHHHHHHHHhccCCceeEEecccccCCC-CCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCcee
Q 008040 285 ATELHLKRMLIGGFEKIYEIGRIFRNEGL-STRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQGVE 363 (580)
Q Consensus 285 Spql~lk~llv~g~~rVfeIg~~FR~E~~-~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~~~~ 363 (580)
|||||||+++++|++||||||||||||++ +.||+||||||||||+|+|++++|+++|+||+++++++.+..+.... .
T Consensus 80 Spql~~k~ll~~g~~~vf~i~~~FR~E~~~~~rHl~EFtmLE~e~a~~~~~~lm~~~e~li~~i~~~~~~~~~~~~~--~ 157 (335)
T PF00152_consen 80 SPQLYLKRLLAAGLERVFEIGPCFRNEESRTRRHLPEFTMLEWEMAFADYDDLMDLIEELIKYIFKELLENAKELSL--N 157 (335)
T ss_dssp SSHHHHHHHHHTTHSEEEEEEEEE-BSSSCBTTBSSEEEEEEEEEETSSHHHHHHHHHHHHHHHHHHHHHHHHHHHT--C
T ss_pred ChHHHHhhhccccchhhhheecceeccCcccccchhhhhhhhhccccCcHHHhHHHHHHHHHHHHHHHhccCccccc--c
Confidence 99999999999999999999999999999 56999999999999999999999999999999999998643211111 4
Q ss_pred ecCCCCcceeeHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHH-HhcCCCCCc
Q 008040 364 ICLERPWRRETMHNLVKEATGIDFNELGNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEI-VVEPKLVQP 442 (580)
Q Consensus 364 i~~~~pf~rit~~eai~~~~g~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~-~ve~~l~~P 442 (580)
+++..||+|++|.||++.+.+.+.. ...+. .+...... .+. ....|.++..+.+. +++.....|
T Consensus 158 ~~~~~~f~ri~~~ea~~~~~~~~~~-~~~~~-~l~~~~~~-~~~------------~~~~~~~l~~~~e~~L~~~~~~~p 222 (335)
T PF00152_consen 158 IDLPKPFPRITYEEAFEIYGGDKPD-LRFDE-ELDDLAEI-EEL------------EFEVGRLLSEEVEPYLVEKYFTDP 222 (335)
T ss_dssp EESSSS-EEEEHHHHHHHHHHTTTT-TTTCH-HHHHHHHH-HHT------------THHCHHHHHHHHHHHHHHHHSSSE
T ss_pred ccccCCceEeeehHHHHHhhccccc-chhHH-HHHHHHHH-hcc------------cchHHHHHHHHHHHHhhhcccCCc
Confidence 6777889999999999999886522 21122 22221111 011 01126777777776 455567899
Q ss_pred EEEEecCCCCCccccccCCCC-CceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhh
Q 008040 443 TFVLDYPIEISPLAKPHRRHA-GLTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLK 521 (580)
Q Consensus 443 ~fV~dyP~~~~pfa~~~~~~~-~~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~ 521 (580)
+||+|||..++|||+.+++++ ++++|||||++|+||+|||+|+|||++|+++|+++...
T Consensus 223 ~fI~~~P~~~~pf~~~~~~~~~~~~~~fdl~~~g~Ei~~G~~r~~d~~~l~~r~~~~~~~-------------------- 282 (335)
T PF00152_consen 223 VFITDYPAEQSPFYKPPNDDDPGVAERFDLYIPGGEIANGSQREHDPEELRERFEEQGID-------------------- 282 (335)
T ss_dssp EEEEEEBGGGSTTTBBBSSSTTTBBSEEEEEETTEEEEEEEEB--SHHHHHHHHHHTTHH--------------------
T ss_pred EEEEecccccCcccccccccccccccceeEEEeCEEEehHHhhhhHHHHHHHHhhhcccc--------------------
Confidence 999999999999999888776 99999999999999999999999999999999987432
Q ss_pred cCCccccccCCcHHHHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCC
Q 008040 522 ESDDHSYEVTLDDDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILK 577 (580)
Q Consensus 522 ~~~~e~~~~~~d~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~ 577 (580)
+.+.++ .|+|||+|++||||||||||||||||||++||.+|||||++|||.+
T Consensus 283 --~~~~~~--~~~~yl~~~~~G~pp~~G~glG~eRLvm~l~g~~~Irdv~~FPr~~ 334 (335)
T PF00152_consen 283 --PEEEMP--IDEWYLEALKYGMPPHGGFGLGLERLVMLLLGLKNIRDVIPFPRDR 334 (335)
T ss_dssp --GGGSHH--HGHHHHHHHHTT--SEEEEEEEHHHHHHHHHT-SSGGGGSSS-CBT
T ss_pred --cccccc--hhHhHHHhhhccCcccCcceehHHHHHHHHcCCCcHHheecCCCCC
Confidence 122333 6899999999999999999999999999999999999999999986
No 29
>TIGR00462 genX lysyl-tRNA synthetase-like protein GenX. Many Gram-negative bacteria have a protein closely homologous to the C-terminal region of lysyl-tRNA synthetase (LysS). Multiple sequence alignment of these proteins with the homologous regions of collected LysS proteins shows that these proteins form a distinct set rather than just similar truncations of LysS. The protein is termed GenX after its designation in E. coli. Interestingly, genX often is located near a homolog of lysine-2,3-aminomutase. Its function is unknown.
Probab=100.00 E-value=7.5e-79 Score=631.68 Aligned_cols=298 Identities=37% Similarity=0.583 Sum_probs=265.5
Q ss_pred HHHHHHHHHHHHHHHHhCCCeeecCceeecc-CCCCCCCceeecc---CCCCeeEEEEecHHHHHHHHHhccCCceeEEe
Q 008040 230 FRKRAKIVSEIRKTVESLGFVEVETPVLQGA-AGGAEARPFVTYH---NSLGRDLYLRIATELHLKRMLIGGFEKIYEIG 305 (580)
Q Consensus 230 ~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~-~~Ga~a~pF~t~~---~~~~~~~yL~~Spql~lk~llv~g~~rVfeIg 305 (580)
+++||.|++++|+||.++||+||+||+|+++ .++++++||.|++ +++++++||+||||||||+++++|++||||||
T Consensus 1 l~~rs~i~~~ir~~f~~~gF~EV~TP~l~~~~~~e~~~~~F~~~y~~~~~~~~~~yL~~Spql~lk~ll~~g~~rVfeig 80 (304)
T TIGR00462 1 LRARARLLAAIRAFFAERGVLEVETPLLSPAPVTDPHLDAFATEFLGPDGEGRPLYLQTSPEYAMKRLLAAGSGPIFQIC 80 (304)
T ss_pred ChHHHHHHHHHHHHHHHCCCEEEECCeEecCCCCCcCCcceeeeccCCCCCCcceeeecCHHHHHHHHHhccCCCEEEEc
Confidence 4789999999999999999999999999987 4667899999864 46678999999999999999999999999999
Q ss_pred cccccCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCceeecCCCCcceeeHHHHHHHHhCC
Q 008040 306 RIFRNEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQGVEICLERPWRRETMHNLVKEATGI 385 (580)
Q Consensus 306 ~~FR~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~~~~i~~~~pf~rit~~eai~~~~g~ 385 (580)
||||||+++.||||||||||||++|.||+|||+++|+||+++++. ++.||+||||.||+++++|+
T Consensus 81 p~FRaE~~~~rHl~EFtmLE~e~~~~d~~d~m~~~e~li~~i~~~---------------~~~~~~~it~~ea~~~~~~~ 145 (304)
T TIGR00462 81 KVFRNGERGRRHNPEFTMLEWYRPGFDYHDLMDEVEALLQELLGD---------------PFAPWERLSYQEAFLRYAGI 145 (304)
T ss_pred CceeCCCCCCCcccHHHhHHHHHHcCCHHHHHHHHHHHHHHHHHh---------------cCCCcEEEEHHHHHHHHhCC
Confidence 999999999999999999999999999999999999999999874 24699999999999999999
Q ss_pred CCCCCCCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCC--CCcEEEEecCCCCCccccccCCCC
Q 008040 386 DFNELGNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKL--VQPTFVLDYPIEISPLAKPHRRHA 463 (580)
Q Consensus 386 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l--~~P~fV~dyP~~~~pfa~~~~~~~ 463 (580)
++... +.+++..++++ +|+. +... ..++.++..++.+.||+++ .+|+||+|||.+++|||++++++|
T Consensus 146 ~~~~~--~~~~~~~~~~~-~g~~-------~~~~-~d~~~~~e~~l~~~ie~~~~~~~p~fi~~yP~~~~~~~~~~~~~~ 214 (304)
T TIGR00462 146 DPLTA--SLDELAAAAAA-HGVR-------ASEE-DDRDDLLDLLFSEKVEPHLGFGRPTFLYDYPASQAALARISPDDP 214 (304)
T ss_pred CcccC--CHHHHHHHHHH-cCCC-------CCCC-CChhHHHHHHHHHHHHHhcCCCCCEEEEcCccccCcCccccCCCC
Confidence 87553 46667767776 7762 2222 2458889999999999998 679999999999999999999999
Q ss_pred CceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcHHHHHHHhcC
Q 008040 464 GLTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDDFVTALEYG 543 (580)
Q Consensus 464 ~~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~al~yG 543 (580)
++++|||||++|+||+|||+|+|||.+|++||+++++. ++..+.+..+ .|+|||+|++||
T Consensus 215 ~~~~rfdl~~~G~Ei~~G~~el~d~~~~~~r~~~~~~~------------------~~~~g~~~~~--~d~~yl~~~~~G 274 (304)
T TIGR00462 215 RVAERFELYIKGLELANGFHELTDAAEQRRRFEADNAE------------------RKALGLPRYP--LDERFLAALEAG 274 (304)
T ss_pred CeeEEEEEEECCEEEeeceeecCCHHHHHHHHHHHHHH------------------HHhCCCCcch--hhHHHHHHHHcC
Confidence 99999999999999999999999999999999999876 2222334444 789999999999
Q ss_pred CCCccceeccHHHHHHHHcCCCCccccccC
Q 008040 544 MPPASGMGLGIDRLVMLLTNSASIRDVIAF 573 (580)
Q Consensus 544 ~PP~gG~GiGiDRLvMlltg~~sIrdvi~F 573 (580)
||||||||||||||+|++||.+||||||+|
T Consensus 275 ~pP~~G~GiGieRL~m~l~g~~~Ir~vi~F 304 (304)
T TIGR00462 275 LPECSGVALGVDRLLMLALGADSIDDVLAF 304 (304)
T ss_pred CCCCCceEEcHHHHHHHHhCCCchhhcccC
Confidence 999999999999999999999999999998
No 30
>KOG0556 consensus Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=7.4e-78 Score=613.35 Aligned_cols=407 Identities=26% Similarity=0.452 Sum_probs=335.6
Q ss_pred CCEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCcc---ChHHHHhhhcccCCCcEEEEEeEEEecC-------Cc
Q 008040 111 NDHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERL---LSDQFDQLKVFVDIGDILGVSGSMKRTE-------KG 180 (580)
Q Consensus 111 ~~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~---~~~~~~~~~~~l~~gd~v~v~G~v~~t~-------~g 180 (580)
++.|.|.|||+.-|..||++|+.||++..+||+++..+.. +..+.+.... |+.+|+|.|.|+|.+.+ ++
T Consensus 82 ~~~V~vRgrVhtsr~~GK~~FlvLRq~~~tVQ~~~~~~~~~~isk~Mvkf~~~-is~ESiV~v~g~v~k~~~~i~scT~q 160 (533)
T KOG0556|consen 82 GSEVLVRGRVHTSRLKGKLCFLVLRQQGSTVQCLVAVNEDGTISKQMVKFAGS-ISKESIVDVRGVVVKVKEPIKSCTVQ 160 (533)
T ss_pred CceEEEEEEEeeccccceEEEEEEeccCceEEEEEEcCCCchHHHHHHHHHhh-cCcceEEEEEEEEecCCCcccccccc
Confidence 4789999999999999999999999999999999976543 4556665555 79999999999999754 24
Q ss_pred eeEEEEeEEEEccccCCCCCCCCCC-------------------CCChhhccccceeeeecCHHHHHHHHHHHHHHHHHH
Q 008040 181 ELSVLVNSFVILTKSLLPLPDKYHG-------------------LTDVDKRYRQRYVDMISKPEVADVFRKRAKIVSEIR 241 (580)
Q Consensus 181 e~el~~~~i~vls~a~~plP~~~~~-------------------l~d~e~r~r~R~ldl~~~~~~~~~~~~Rs~i~~~iR 241 (580)
.+||++.++.++|.+...||....+ -.+.++|++||.|||| +|..+++|++.+.|+.++|
T Consensus 161 dvEi~v~~iyviS~a~~~LPl~veDasrse~~eE~a~~~~~~~~~Vn~dtRLdnRvlDLR-tptnqAiFriq~gvc~~FR 239 (533)
T KOG0556|consen 161 DVEIHVRKIYVISIALPNLPLQVEDASRSEPDEEKAAEPESTLARVNLDTRLDNRVLDLR-TPTNQAIFRIQAGVCFAFR 239 (533)
T ss_pred eeEEEEEEEEEEecccccCCeeehhhcccccchhhhcCCccccceecccccccceeeecc-cccchheeehHHHHHHHHH
Confidence 7999999999999999888831100 1257899999999996 7999999999999999999
Q ss_pred HHHHhCCCeeecCceeeccCCCCCCCceeeccCCCCeeEEEEecHHHHHHHHHhccCCceeEEecccccCCCCC-CCCcc
Q 008040 242 KTVESLGFVEVETPVLQGAAGGAEARPFVTYHNSLGRDLYLRIATELHLKRMLIGGFEKIYEIGRIFRNEGLST-RHNPE 320 (580)
Q Consensus 242 ~fl~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g~~rVfeIg~~FR~E~~~~-rH~pE 320 (580)
+||..+||+||+||.|.+.+...||..|.+ .||+.++||+||||||+|++|+|+|+|||+|||+||+|++++ ||+.|
T Consensus 240 e~L~~kgF~EIhTpKli~asSEGGanvF~v--~Yfk~~A~LAQSPQLyKQMaI~gdf~rVyeIGpVfRAEdSnthRhltE 317 (533)
T KOG0556|consen 240 EYLRSKGFVEIHTPKLIGASSEGGANVFRV--SYFKQKAYLAQSPQLYKQMAICGDFERVYEIGPVFRAEDSNTHRHLTE 317 (533)
T ss_pred HHHHhcCcceecccccccccCCCCceeEEE--EeccCcchhhcChHHHHHHHHhcchhheeeecceeeccccchhhhhHH
Confidence 999999999999999997643334567876 689999999999999999999999999999999999999997 99999
Q ss_pred ceeeeeEeecC-CHHHHHHHHHHHHHHHHHHHhCCce--e-----ecCceeecCCCCcceeeHHHHHHHH--hCCCCCCC
Q 008040 321 FTTIEMYEAYS-DYQSMMNITEEIVTHCALAVNGKLT--I-----DYQGVEICLERPWRRETMHNLVKEA--TGIDFNEL 390 (580)
Q Consensus 321 FtmlE~e~a~~-d~~d~m~l~E~li~~~~~~v~~~~~--~-----~~~~~~i~~~~pf~rit~~eai~~~--~g~~~~~~ 390 (580)
|+.||+||+|. +|+++|+++.+++-++++.+...+. + +|.-....|..|--|++|.|++..+ .|++....
T Consensus 318 FvGLD~EMaf~~hYhEVm~~i~~lfv~IF~~l~ery~~Eie~Vr~qyp~e~fkf~~~~lrl~~~e~v~mLreaGvE~g~~ 397 (533)
T KOG0556|consen 318 FVGLDLEMAFNEHYHEVMDTIGELFVFIFKGLRERYAKEIETVRKQYPFEPFKFLEPPLRLTFKEGVAMLREAGVEMGDE 397 (533)
T ss_pred hhCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcccccCCCceEeehHHHHHHHHHcCcccCCc
Confidence 99999999997 7999999999999999998876542 1 2333445566777899999999876 46554433
Q ss_pred CCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCCCcEEEEecCCCCCccc-cccCCCCCceeEE
Q 008040 391 GNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLVQPTFVLDYPIEISPLA-KPHRRHAGLTERF 469 (580)
Q Consensus 391 ~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~~P~fV~dyP~~~~pfa-~~~~~~~~~~~rF 469 (580)
+ |+ . .++...||++..+.|. .....+-+||..++||| |++++||.++++|
T Consensus 398 d-Dl-----------s----------Te~Ek~LG~lV~eky~-------tdfyildkyP~avRPFYTmpd~~~p~ySnSy 448 (533)
T KOG0556|consen 398 D-DL-----------S----------TESEKKLGQLVREKYD-------TDFYILDKYPLAVRPFYTMPDPENPRYSNSY 448 (533)
T ss_pred c-cc-----------C----------ChhHHHHHHHHHHHhC-------CcEEEEccCccccccccccCCCCCCCcccch
Confidence 2 21 1 1222345666555443 22344455999999995 8999999999999
Q ss_pred EEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcHHHHHHHhcCCCCccc
Q 008040 470 ELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDDFVTALEYGMPPASG 549 (580)
Q Consensus 470 dL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~al~yG~PP~gG 549 (580)
|+|+.|.||.+|.+|+|||+.. .+.++.|++ +.. .-..||++++||+|||||
T Consensus 449 D~fmRGeEIlSGAQRIhdpe~L----~era~~hGi-------------------d~~-----~i~~YidsFryG~PPHaG 500 (533)
T KOG0556|consen 449 DFFMRGEEILSGAQRIHDPELL----VERAKEHGI-------------------DPS-----KISTYIDSFRYGAPPHAG 500 (533)
T ss_pred hheechhhhhccccccCCHHHH----HHHHHHcCC-------------------CHH-----HHHHHHHHhccCCCCCCC
Confidence 9999999999999999999864 444433321 222 236899999999999999
Q ss_pred eeccHHHHHHHHcCCCCccccccCCcCCC
Q 008040 550 MGLGIDRLVMLLTNSASIRDVIAFPILKI 578 (580)
Q Consensus 550 ~GiGiDRLvMlltg~~sIrdvi~FP~~~~ 578 (580)
+|||+||+||+++|+.|||-..+|||.+.
T Consensus 501 gGIGLERvvmlyl~L~nIR~~SlFPRDPk 529 (533)
T KOG0556|consen 501 GGIGLERVVMLYLGLNNIRKTSLFPRDPK 529 (533)
T ss_pred CcccHHHHHHHHhcCCcchhhccCCCCcc
Confidence 99999999999999999999999999875
No 31
>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=100.00 E-value=3.4e-77 Score=624.21 Aligned_cols=309 Identities=28% Similarity=0.467 Sum_probs=266.0
Q ss_pred ChhhccccceeeeecCHHHHHHHHHHHHHHHHHHHHHHhCCCeeecCceeeccCCCCCCCceeeccCCCCeeEEEEecHH
Q 008040 208 DVDKRYRQRYVDMISKPEVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAAGGAEARPFVTYHNSLGRDLYLRIATE 287 (580)
Q Consensus 208 d~e~r~r~R~ldl~~~~~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spq 287 (580)
+.++|+++|||||| ++.+++++++||.|++++|+||.++||+||+||+|+++.+++++.||.+ ++++.++||++|||
T Consensus 3 ~~~~~~~~r~l~lr-~~~~~~~~~~rs~i~~~ir~~f~~~gf~eV~TP~l~~~~~e~~~~~f~~--~~~~~~~yL~~Spq 79 (322)
T cd00776 3 NLETLLDNRHLDLR-TPKVQAIFRIRSEVLRAFREFLRENGFTEVHTPKITSTDTEGGAELFKV--SYFGKPAYLAQSPQ 79 (322)
T ss_pred ChHhhhhCceeeeC-CHHHHHHHHHHHHHHHHHHHHHHHCCCEEeeCCceecCCCCccCCcccc--ccCCCcceecCCHH
Confidence 56899999999997 8999999999999999999999999999999999998877778999986 68999999999999
Q ss_pred HHHHHHHhccCCceeEEecccccCCCCC-CCCccceeeeeEeecC-CHHHHHHHHHHHHHHHHHHHhCCce--ee----c
Q 008040 288 LHLKRMLIGGFEKIYEIGRIFRNEGLST-RHNPEFTTIEMYEAYS-DYQSMMNITEEIVTHCALAVNGKLT--ID----Y 359 (580)
Q Consensus 288 l~lk~llv~g~~rVfeIg~~FR~E~~~~-rH~pEFtmlE~e~a~~-d~~d~m~l~E~li~~~~~~v~~~~~--~~----~ 359 (580)
||||+|++| ++||||||||||||++++ ||||||||||||++|+ ||+|||+++|+||++++..+.+.+. +. +
T Consensus 80 l~lk~l~~~-~~~vf~i~~~FR~E~~~~~rHl~EFtmlE~e~~~~~~~~dlm~~~e~ll~~~~~~l~~~~~~~~~~~~~~ 158 (322)
T cd00776 80 LYKEMLIAA-LERVYEIGPVFRAEKSNTRRHLSEFWMLEAEMAFIEDYNEVMDLIEELIKYIFKRVLERCAKELELVNQL 158 (322)
T ss_pred HHHHHHHHh-hhhhEEeccccccCCCCcCCCcceeeccceeeeccCCHHHHHHHHHHHHHHHHHHHHhccHHHHhhhhcc
Confidence 999999887 999999999999999886 9999999999999999 9999999999999999999887653 22 2
Q ss_pred CceeecCCCCcceeeHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCC
Q 008040 360 QGVEICLERPWRRETMHNLVKEATGIDFNELGNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKL 439 (580)
Q Consensus 360 ~~~~i~~~~pf~rit~~eai~~~~g~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l 439 (580)
....+++..||+||||.||++.+.+.+... . . .+|..++..++..+...+
T Consensus 159 ~~~~~~~~~~~~rit~~eA~~~l~~~~~~~-------------------------~--~---~~~~~l~~~~e~~l~~~~ 208 (322)
T cd00776 159 NRELLKPLEPFPRITYDEAIELLREKGVEE-------------------------E--V---KWGEDLSTEHERLLGEIV 208 (322)
T ss_pred CcccccCCCCceEEEHHHHHHHHHHcCCCC-------------------------C--C---CccchhcHHHHHHHHHHh
Confidence 222346678999999999999886543210 0 0 013444445555555444
Q ss_pred -CCcEEEEecCCCCCccc-cccCCCCCceeEEEEEEcC-EeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhh
Q 008040 440 -VQPTFVLDYPIEISPLA-KPHRRHAGLTERFELFICG-REMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSA 516 (580)
Q Consensus 440 -~~P~fV~dyP~~~~pfa-~~~~~~~~~~~rFdL~i~G-~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~ 516 (580)
.+|+||+|||.+++||| +.++++|++++|||||++| .||+|||+|+|||++|+++|+++
T Consensus 209 ~~~p~fi~~~P~~~~pfy~~~~~~~~~~~~~fdl~~~G~~El~~g~~r~~d~~~l~~r~~~~------------------ 270 (322)
T cd00776 209 KGDPVFVTDYPKEIKPFYMKPDDDNPETVESFDLLMPGVGEIVGGSQRIHDYDELEERIKEH------------------ 270 (322)
T ss_pred CCCcEEEECCccccCCceeeecCCCCCeeEEEEEEcCCCeEEeeceeecCCHHHHHHHHHHc------------------
Confidence 78999999999999995 5677888999999999999 99999999999999999998753
Q ss_pred HHhhhcCCccccccCCcHHHHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCCC
Q 008040 517 QEKLKESDDHSYEVTLDDDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILKI 578 (580)
Q Consensus 517 ~~~~~~~~~e~~~~~~d~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~~ 578 (580)
..+.+ .++|||+|++||||||||||||||||+|++||.+|||||++|||.+.
T Consensus 271 -----g~~~~-----~~~~yl~a~~~G~pp~~G~giGidRL~m~~~g~~~Irdv~~FPr~~~ 322 (322)
T cd00776 271 -----GLDPE-----SFEWYLDLRKYGMPPHGGFGLGLERLVMWLLGLDNIREAILFPRDPK 322 (322)
T ss_pred -----CCChH-----HHHHHHHHHHCCCCCCceeeEhHHHHHHHHcCCCchheEeecCCCCC
Confidence 11212 35899999999999999999999999999999999999999999763
No 32
>PRK06462 asparagine synthetase A; Reviewed
Probab=100.00 E-value=1e-74 Score=607.93 Aligned_cols=310 Identities=20% Similarity=0.308 Sum_probs=259.3
Q ss_pred CChhhccccceeeeecCHHHHHHHHHHHHHHHHHHHHHHhCCCeeecCceeecc-----CCCCCCCceee-ccCCCCeeE
Q 008040 207 TDVDKRYRQRYVDMISKPEVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA-----AGGAEARPFVT-YHNSLGRDL 280 (580)
Q Consensus 207 ~d~e~r~r~R~ldl~~~~~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~-----~~Ga~a~pF~t-~~~~~~~~~ 280 (580)
.+.+.|+++|++|++ |+.++++|++||.|++++|+||.++||+||+||+|+++ .+|+. +||.+ +.+++|+++
T Consensus 8 ~~~~~~~~~r~~~lr-~~~~~~il~~Rs~i~~~iR~ff~~~~f~EV~TP~l~~~~~~~~~~g~~-~~~~~~~~~~~~~~~ 85 (335)
T PRK06462 8 KEYEEFLRMSWKHIS-SEKYRKVLKVQSSILRYTREFLDGRGFVEVLPPIISPSTDPLMGLGSD-LPVKQISIDFYGVEY 85 (335)
T ss_pred cchhhhhhhHHHHhc-CHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCeEecCCCCCCCcccc-CCccccccccCCCce
Confidence 356899999999995 89999999999999999999999999999999999975 24555 78864 567899999
Q ss_pred EEEecHHHHHHHHHhccCCceeEEecccccCCCCC---CCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCce-
Q 008040 281 YLRIATELHLKRMLIGGFEKIYEIGRIFRNEGLST---RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLT- 356 (580)
Q Consensus 281 yL~~Spql~lk~llv~g~~rVfeIg~~FR~E~~~~---rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~- 356 (580)
||++|||+||| ++++|++||||||||||||++++ ||||||||||||++|.||+|||+++|+||+++++.+.+++.
T Consensus 86 yL~~Spql~k~-ll~~g~~rVfeI~p~FR~E~~~~~~~rHl~EFtmlE~e~~~~d~~dlm~~~e~lv~~i~~~~~~~~~~ 164 (335)
T PRK06462 86 YLADSMILHKQ-LALRMLGKIFYLSPNFRLEPVDKDTGRHLYEFTQLDIEIEGADLDEVMDLIEDLIKYLVKELLEEHED 164 (335)
T ss_pred eeccCHHHHHH-HHHhhcCcEEEEeccccCCCCCCCCCCCCCchheeeehhhcCCHHHHHHHHHHHHHHHHHHHHhhhHH
Confidence 99999999955 56788999999999999999998 99999999999999999999999999999999999987653
Q ss_pred -eecCcee-ecCCCCcceeeHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHH
Q 008040 357 -IDYQGVE-ICLERPWRRETMHNLVKEATGIDFNELGNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIV 434 (580)
Q Consensus 357 -~~~~~~~-i~~~~pf~rit~~eai~~~~g~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ 434 (580)
+.+.+.. .+++.||+||||.||++.+....... . .++.+...++..
T Consensus 165 ~i~~~~~~~~~~~~p~~rit~~eA~~~l~~~~~~~---------------------------~-----~~~~l~~~~E~~ 212 (335)
T PRK06462 165 ELEFFGRDLPHLKRPFKRITHKEAVEILNEEGCRG---------------------------I-----DLEELGSEGEKS 212 (335)
T ss_pred HHHhcCCccccCCCCCeEEEHHHHHHHHHhcCCCc---------------------------c-----hHHHHhHHHHHH
Confidence 3333333 24678999999999998643211100 0 034455566666
Q ss_pred hcCCCCCcEEEEecCCCCCccccc-cCCCCCceeEEEEEEc--CEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhh
Q 008040 435 VEPKLVQPTFVLDYPIEISPLAKP-HRRHAGLTERFELFIC--GREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVS 511 (580)
Q Consensus 435 ve~~l~~P~fV~dyP~~~~pfa~~-~~~~~~~~~rFdL~i~--G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~ 511 (580)
++..+.+||||+|||.+++|||+. ++++|++++|||||++ +.||+||+++.|++.++.+++++
T Consensus 213 l~~~~~~p~fi~~yP~~~~pfy~~~~~~~~~~~~rFdL~~~~g~gEl~~g~er~~~~~~l~~~~~~-------------- 278 (335)
T PRK06462 213 LSEHFEEPFWIIDIPKGSREFYDREDPERPGVLRNYDLLLPEGYGEAVSGGEREYEYEEIVERIRE-------------- 278 (335)
T ss_pred HHHHhCCCEEEECCChhhCCcccccCCCCCCEEEEEEEEeeCCCcEEeeeEEEecCHHHHHHHHHH--------------
Confidence 666678899999999999999874 5778999999999995 45999999999998776554332
Q ss_pred hhhhhHHhhhcCCccccccCCcHHHHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCCCC
Q 008040 512 EKSSAQEKLKESDDHSYEVTLDDDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILKIQ 579 (580)
Q Consensus 512 ~~~~~~~~~~~~~~e~~~~~~d~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~~~ 579 (580)
.|.++. .++|||+|++||||||||||||||||||++||.+|||||++|||.++.
T Consensus 279 ----------~g~~~~----~~~~yl~a~~~G~pp~~G~glGidRLvm~~~g~~~Irdv~~FPr~~g~ 332 (335)
T PRK06462 279 ----------HGVDPE----KYKWYLEMAKEGPLPSAGFGIGVERLTRYICGLRHIREVQPFPRVPGI 332 (335)
T ss_pred ----------cCCChH----HHHHHHHHHHCCCCCCCeEEEcHHHHHHHHcCCCchheeeeccCCCCC
Confidence 232222 358999999999999999999999999999999999999999999874
No 33
>KOG0554 consensus Asparaginyl-tRNA synthetase (mitochondrial) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.3e-73 Score=578.01 Aligned_cols=396 Identities=22% Similarity=0.344 Sum_probs=317.1
Q ss_pred CCCEEEEEEEEEeEecCCCeEEEEEeeCCe--eEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCC--ceeEEE
Q 008040 110 ENDHVSVAGRVVARRAFGKLAFLTLRDDSG--TIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEK--GELSVL 185 (580)
Q Consensus 110 ~~~~V~v~GrV~~~R~~gk~~F~~LrD~sg--~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~--ge~el~ 185 (580)
.|++++|.|||+++|.+|+++|++|.||+. .+|||++++ ..+++..|++|.|+|.+..++. .++|+.
T Consensus 19 ~g~~~~i~GWvKsvr~~~~~~Fl~i~DGs~~~~lQvVv~~~---------~~q~la~Gt~i~~~g~l~~~~~~~q~iel~ 89 (446)
T KOG0554|consen 19 AGDTISIGGWVKSVRKLKKVTFLDINDGSCPSPLQVVVDSE---------QSQLLATGTCISAEGVLKVSKGAKQQIELN 89 (446)
T ss_pred CCCceeecchhhhcccccceEEEEecCCCCCcceEEEechH---------HhhhccccceEEEEeeEEeccchheeeeee
Confidence 368899999999999999999999999997 899999873 2345799999999999988753 379999
Q ss_pred EeEEEEccccCC--CCCCCCCCCCChhhccccceeeeecCHHHHHHHHHHHHHHHHHHHHHHhCCCeeecCceeecc-CC
Q 008040 186 VNSFVILTKSLL--PLPDKYHGLTDVDKRYRQRYVDMISKPEVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA-AG 262 (580)
Q Consensus 186 ~~~i~vls~a~~--plP~~~~~l~d~e~r~r~R~ldl~~~~~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~-~~ 262 (580)
|+++.+++.+.. |+|++.+.+. -+| ..-||.. |+..+.+++|+||.+..+++.||.++||++|+||+|+++ |+
T Consensus 90 ~eki~~vG~v~~~ypl~Kk~lt~e--~LR-~~~HLR~-Rt~~~~av~RvRs~~~~a~h~ffq~~~F~~i~tPiiTt~DCE 165 (446)
T KOG0554|consen 90 AEKIKVVGTVDESYPLQKKKLTPE--MLR-DKLHLRS-RTAKVGAVLRVRSALAFATHSFFQSHDFTYINTPIITTNDCE 165 (446)
T ss_pred eeEEEEEeecCCCCCCccccCCHH--HHh-hcccccc-hhhHHHHHHHHHHHHHHHHHHHHHHcCceEecCcEeeccCCC
Confidence 999999988754 5667655432 222 2334444 368889999999999999999999999999999999976 78
Q ss_pred CCCCCceeec------cCCCCeeEEEEecHHHHHHHHHhccCCceeEEecccccCCCCC-CCCccceeeeeEeecCC-HH
Q 008040 263 GAEARPFVTY------HNSLGRDLYLRIATELHLKRMLIGGFEKIYEIGRIFRNEGLST-RHNPEFTTIEMYEAYSD-YQ 334 (580)
Q Consensus 263 Ga~a~pF~t~------~~~~~~~~yL~~Spql~lk~llv~g~~rVfeIg~~FR~E~~~~-rH~pEFtmlE~e~a~~d-~~ 334 (580)
||| +.|.+. .++||+++||++|.|||++. +++++.|||.+||+||+|++++ ||+.||||+|.|+||++ ++
T Consensus 166 GaG-E~F~vtt~~d~~~~fFg~p~fLTVSgQLhlE~-~a~~LsrvyTfgP~FRAEnS~tsRHLAEFwMlEaE~AF~~sl~ 243 (446)
T KOG0554|consen 166 GAG-EVFQVTTLTDYSKDFFGRPAFLTVSGQLHLEA-MACALSRVYTFGPTFRAENSHTSRHLAEFWMLEAELAFAESLD 243 (446)
T ss_pred CCc-ceEEEEecCcccccccCCceEEEEeceehHHH-HHhhhcceEeeccceecccCCchhHHhhhhhhhhHHHHHHHHH
Confidence 887 478643 25899999999999999997 5889999999999999999996 99999999999999998 99
Q ss_pred HHHHHHHHHHHHHHHHHhCCce--eecCceee----------cCCCCcceeeHHHHHHHHhCCCCCCCCCCHHHHHHHHH
Q 008040 335 SMMNITEEIVTHCALAVNGKLT--IDYQGVEI----------CLERPWRRETMHNLVKEATGIDFNELGNDLKVAKETTL 402 (580)
Q Consensus 335 d~m~l~E~li~~~~~~v~~~~~--~~~~~~~i----------~~~~pf~rit~~eai~~~~g~~~~~~~~~~~~~~~~~~ 402 (580)
|+|+++|.+++++++.+.+++. +++..+.. -++.+|.|+||.||++.+....-..
T Consensus 244 d~m~~~e~~~K~mik~llek~~edmel~~k~~~~~~~~rl~~~~~~~~~~~tYteAie~L~~a~t~~------------- 310 (446)
T KOG0554|consen 244 DLMSCAEAYIKHMIKYLLEKCIEDMELMHKNEDPGSIDRLELVAKENLLRITYTEAIELLQKAVTKK------------- 310 (446)
T ss_pred HHHHHHHHHHHHHHHHHHhhccchhheeccccCCCccchhhhhccchhhhccHHHHHHHHHHhcccc-------------
Confidence 9999999999999999988652 33322111 1355688999999998764221000
Q ss_pred HHcCCCCCCccccccCCCCcHHhHHHHHHHH-HhcCCCCCcEEEEecCCCCCccccccCCCCCceeEEEEEEcCE-eecc
Q 008040 403 RALGDGLENKDKFVIESSPSVGNLLNEVFEI-VVEPKLVQPTFVLDYPIEISPLAKPHRRHAGLTERFELFICGR-EMAN 480 (580)
Q Consensus 403 ~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~-~ve~~l~~P~fV~dyP~~~~pfa~~~~~~~~~~~rFdL~i~G~-Ei~n 480 (580)
+.. +.. ||.-|...++. +++.....|+||+|||+.++||||..++++..+.+|||+++|+ ||++
T Consensus 311 --fk~---------~~k---wG~~l~~ehe~yL~~~~~~~PVfV~dYP~~iKpFYMr~n~~~~tVaa~DlLVP~vGEliG 376 (446)
T KOG0554|consen 311 --FKT---------PPK---WGIDLSTEHEKYLVEECFKKPVFVTDYPKGIKPFYMRLNDDGKTVAAFDLLVPGVGELIG 376 (446)
T ss_pred --ccc---------Ccc---cccccchhhHHHHHHHhcCCCEEEEeccccccceEEEecCCCCeeEEEEeecccchhhcC
Confidence 111 111 24334443443 3444556899999999999999999888888899999999999 9999
Q ss_pred cccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcHHHHHHHhcCCCCccceeccHHHHHHH
Q 008040 481 AFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDDFVTALEYGMPPASGMGLGIDRLVML 560 (580)
Q Consensus 481 g~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~al~yG~PP~gG~GiGiDRLvMl 560 (580)
|+.|+-+ .+.+.++ +-..+ ..+|||+.++||.+||||||||+||++.+
T Consensus 377 GSlREe~--------~~~l~e~-------------------g~~~~-----~~eWYldLRryG~vphgGFGlGfER~lq~ 424 (446)
T KOG0554|consen 377 GSLREER--------KARLKER-------------------GLTRE-----ELEWYLDLRRYGSVPHGGFGLGFERMLQY 424 (446)
T ss_pred cccchhh--------HHHHHhc-------------------CCCcc-----ccceehhhhhcCCCCCCcccccHHHHHHH
Confidence 9999654 2223221 11123 34799999999999999999999999999
Q ss_pred HcCCCCccccccCCcCCCC
Q 008040 561 LTNSASIRDVIAFPILKIQ 579 (580)
Q Consensus 561 ltg~~sIrdvi~FP~~~~~ 579 (580)
++|.+||||||||||....
T Consensus 425 ~tG~~nIkd~IPFpR~~~s 443 (446)
T KOG0554|consen 425 LTGNDNIKDVIPFPRYPGS 443 (446)
T ss_pred HhCCcchhhceecCCCccc
Confidence 9999999999999998753
No 34
>PRK09350 poxB regulator PoxA; Provisional
Probab=100.00 E-value=3.1e-72 Score=582.71 Aligned_cols=298 Identities=35% Similarity=0.536 Sum_probs=260.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCeeecCceeeccC-CCCCCCceeeccC----CCCeeEEEEecHHHHHHHHHhccCCce
Q 008040 227 ADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAA-GGAEARPFVTYHN----SLGRDLYLRIATELHLKRMLIGGFEKI 301 (580)
Q Consensus 227 ~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~-~Ga~a~pF~t~~~----~~~~~~yL~~Spql~lk~llv~g~~rV 301 (580)
..+|++|+.|+++||+||.++||+||+||+|+..+ +|++++||.+... ..|+.+||+||||+|+|+++++|++||
T Consensus 2 ~~~l~~r~~i~~~ir~~f~~~gf~EV~TP~l~~~~~~~~~~~~f~~~y~~~~~~~~~~~~L~~SPe~~~kr~la~~~~rv 81 (306)
T PRK09350 2 IPNLLKRAKIIAEIRRFFADRGVLEVETPILSQATVTDIHLVPFETRFVGPGASQGKTLWLMTSPEYHMKRLLAAGSGPI 81 (306)
T ss_pred hHHHHHHHHHHHHHHHHHHHCCCEEEECCeEecccCCCccCCceeeeeccccccCCcceEEecCHHHHHHHHhhccccce
Confidence 47899999999999999999999999999998654 6788899987543 347999999999999999999999999
Q ss_pred eEEecccccCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCceeecCCCCcceeeHHHHHHH
Q 008040 302 YEIGRIFRNEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQGVEICLERPWRRETMHNLVKE 381 (580)
Q Consensus 302 feIg~~FR~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~~~~i~~~~pf~rit~~eai~~ 381 (580)
|+||||||||+++.+|+|||||||||++|.|++|||+++|+||++++.. .||++++|.+|++.
T Consensus 82 f~i~~~FR~e~~~~~H~~EFt~lE~y~~~~d~~dlm~~~E~li~~i~~~-----------------~~~~~i~~~eaf~~ 144 (306)
T PRK09350 82 FQICKSFRNEEAGRYHNPEFTMLEWYRPHYDMYRLMNEVDDLLQQVLDC-----------------EPAESLSYQQAFLR 144 (306)
T ss_pred EEecceeecCCCCCCCCcHHHhhhhhhhCCCHHHHHHHHHHHHHHHHhc-----------------CCceEEEHHHHHHH
Confidence 9999999999998899999999999999999999999999999988741 58999999999999
Q ss_pred HhCCCCCCCCCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCC--CcEEEEecCCCCCcccccc
Q 008040 382 ATGIDFNELGNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLV--QPTFVLDYPIEISPLAKPH 459 (580)
Q Consensus 382 ~~g~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~--~P~fV~dyP~~~~pfa~~~ 459 (580)
++|++.... +.+.+++.+.+ +|+.. ...+. ..++.+++.+|...+|+++. .||||+|||.+++|||+++
T Consensus 145 ~~g~~~~~~--~~~~~~~~~~~-~g~~~-----~~~~~-~~~~~~~~~l~~~~ve~~l~~~~p~fi~~yP~~~~~~a~~~ 215 (306)
T PRK09350 145 YLGIDPLSA--DKTQLREVAAK-LGLSN-----IADEE-EDRDTLLQLLFTFGVEPNIGKEKPTFVYHFPASQAALAKIS 215 (306)
T ss_pred HhCCCCCcC--CHHHHHHHHHH-cCCCC-----cCCCC-CCHHHHHHHHHHHHHHHhcCCCCCEEEEcCccccCcccccc
Confidence 999876432 45566666655 66521 01112 24588999999999999985 5999999999999999999
Q ss_pred CCCCCceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcHHHHHH
Q 008040 460 RRHAGLTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDDFVTA 539 (580)
Q Consensus 460 ~~~~~~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~a 539 (580)
+++|++++|||||++|+||+|||+|+|||.+|++||+++... +...+.+..+ .|+|||+|
T Consensus 216 ~~~~~~~~rfdl~i~G~Ei~nG~~el~d~~~~~~r~~~~~~~------------------~~~~g~~~~~--~d~~~l~a 275 (306)
T PRK09350 216 TEDHRVAERFEVYFKGIELANGFHELTDAREQRQRFEQDNRK------------------RAARGLPQQP--IDENLIAA 275 (306)
T ss_pred CCCCCeeEEEEEEECCEEEecchhhcCCHHHHHHHHHHHHHH------------------HHhCCCCccc--CcHHHHHH
Confidence 999999999999999999999999999999999999998765 2223334444 78999999
Q ss_pred HhcCCCCccceeccHHHHHHHHcCCCCcccc
Q 008040 540 LEYGMPPASGMGLGIDRLVMLLTNSASIRDV 570 (580)
Q Consensus 540 l~yG~PP~gG~GiGiDRLvMlltg~~sIrdv 570 (580)
++||||||||||||||||+|++||.+|||||
T Consensus 276 ~~~G~pp~~G~giGidRL~m~~~g~~~Irdv 306 (306)
T PRK09350 276 LEAGLPDCSGVALGVDRLIMLALGAESISEV 306 (306)
T ss_pred HHcCCCCCCceEecHHHHHHHHcCCCCcccC
Confidence 9999999999999999999999999999997
No 35
>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=100.00 E-value=8.7e-71 Score=561.55 Aligned_cols=268 Identities=43% Similarity=0.737 Sum_probs=236.8
Q ss_pred HHHHHHHHHHHHHHHHhCCCeeecCceeeccCCCCCCCceeeccCCCCeeEEEEecHHHHHHHHHhccCCceeEEecccc
Q 008040 230 FRKRAKIVSEIRKTVESLGFVEVETPVLQGAAGGAEARPFVTYHNSLGRDLYLRIATELHLKRMLIGGFEKIYEIGRIFR 309 (580)
Q Consensus 230 ~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g~~rVfeIg~~FR 309 (580)
|++||.|+++||+||.++||+||+||+|+++++|+++++|.+.....|.++||++|||+|+|+++++|++|||+||||||
T Consensus 1 ~~~rs~i~~~ir~~f~~~gf~ev~tP~l~~~~~~~~~~~f~~~~~~~g~~~~L~~Spql~~~~~~~~~~~~vf~i~~~fR 80 (269)
T cd00669 1 FKVRSKIIKAIRDFMDDRGFLEVETPMLQKITGGAGARPFLVKYNALGLDYYLRISPQLFKKRLMVGGLDRVFEINRNFR 80 (269)
T ss_pred CcHHHHHHHHHHHHHHHCCCEEEECCEEeccCCccccceEEeeecCCCCcEEeecCHHHHHHHHHhcCCCcEEEEeccee
Confidence 57899999999999999999999999999877677789999865456999999999999999999999999999999999
Q ss_pred cCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCceeecCCCCcceeeHHHHHHHHhCCCCCC
Q 008040 310 NEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQGVEICLERPWRRETMHNLVKEATGIDFNE 389 (580)
Q Consensus 310 ~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~~~~i~~~~pf~rit~~eai~~~~g~~~~~ 389 (580)
+|..+.+|++||||||+|++|.|++|+|+++|+||+++++.+.+.+...+....++++.||+||||.||++.+
T Consensus 81 ~e~~~~~hl~EF~~le~e~~~~~~~dvm~~~e~lv~~i~~~~~~~~~~~~~~~~~~~~~~~~rit~~ea~~~~------- 153 (269)
T cd00669 81 NEDLRARHQPEFTMMDLEMAFADYEDVIELTERLVRHLAREVLGVTAVTYGFELEDFGLPFPRLTYREALERY------- 153 (269)
T ss_pred CCCCCCCcccceeEEEEEEecCCHHHHHHHHHHHHHHHHHHHhccccccccccccccCCCceEeeHHHHHHHh-------
Confidence 9987889999999999999999999999999999999999998765443333334678899999999999653
Q ss_pred CCCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCCCcEEEEecCCCCCccc-cccCCCCCceeE
Q 008040 390 LGNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLVQPTFVLDYPIEISPLA-KPHRRHAGLTER 468 (580)
Q Consensus 390 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~~P~fV~dyP~~~~pfa-~~~~~~~~~~~r 468 (580)
+ .|+||+|||..++||+ ++++++|++++|
T Consensus 154 ----------------------------------~----------------~p~fi~d~P~~~~~fy~~~~~~~~~~~~~ 183 (269)
T cd00669 154 ----------------------------------G----------------QPLFLTDYPAEMHSPLASPHDVNPEIADA 183 (269)
T ss_pred ----------------------------------C----------------CceEEECCCcccCCCCCCcCCCCCCeEEE
Confidence 1 5899999999977775 566778999999
Q ss_pred EEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcHHHHHHHhcCCCCcc
Q 008040 469 FELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDDFVTALEYGMPPAS 548 (580)
Q Consensus 469 FdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~al~yG~PP~g 548 (580)
||||++|+||+|||+|+||+++|+++|.++... ++. .++ .|+|||+|++||+||||
T Consensus 184 fdl~~~g~Ei~~G~~r~~d~~~l~~~~~~~~~~------------------~~~----~~~--~~~~yl~a~~~G~pp~~ 239 (269)
T cd00669 184 FDLFINGVEVGNGSSRLHDPDIQAEVFQEQGIN------------------KEA----GME--YFEFYLKALEYGLPPHG 239 (269)
T ss_pred EEEeeCCEEEeeCchhcCCHHHHHHHHHHhCcC------------------hhh----ccc--cHHHHHHHHHcCCCCCc
Confidence 999999999999999999999999999876322 111 122 68999999999999999
Q ss_pred ceeccHHHHHHHHcCCCCccccccCCcCCC
Q 008040 549 GMGLGIDRLVMLLTNSASIRDVIAFPILKI 578 (580)
Q Consensus 549 G~GiGiDRLvMlltg~~sIrdvi~FP~~~~ 578 (580)
|||||||||+|++||.+|||||++||+.++
T Consensus 240 G~glGieRL~m~~~g~~~Irdv~~FPr~~~ 269 (269)
T cd00669 240 GLGIGIDRLIMLMTNSPTIREVIAFPKMRR 269 (269)
T ss_pred eEeeHHHHHHHHHhCCCcHHHcccCCCCCC
Confidence 999999999999999999999999999874
No 36
>KOG0555 consensus Asparaginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.7e-68 Score=541.23 Aligned_cols=443 Identities=21% Similarity=0.333 Sum_probs=357.2
Q ss_pred HHHHHHHHHHHHHHHcCCCCCCCCCccCCCHHHHHHHHhhccCCccCCCCCCEEEEEEEEEeEecCCCeEEEEEeeCCee
Q 008040 61 AVRALRIKKVEELRSKGLEPYAYKWDRTHSANQLQEIYRHLANGEESNSENDHVSVAGRVVARRAFGKLAFLTLRDDSGT 140 (580)
Q Consensus 61 e~~~~R~~kl~~L~~~g~~pyp~~~~~t~~~~~i~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~gk~~F~~LrD~sg~ 140 (580)
+-.+.|.+.+++.++..+..+|+. ..+...+.|+. .+..|+.|+|.|||+++|.+++++||+|||++|.
T Consensus 84 ~~~ek~~~~le~a~ki~ised~sl-----p~ak~iki~~s------~~~r~qrVkv~gWVhrlR~qk~l~FivLrdg~gf 152 (545)
T KOG0555|consen 84 EASEKREKNLEEAKKITISEDKSL-----PAAKKIKIYDS------TENRGQRVKVFGWVHRLRRQKSLIFIVLRDGTGF 152 (545)
T ss_pred HHHHHHHHhHHhhhcccccCCCCC-----chhheeeeccc------ccccCceEEeehhhHhhhhcCceEEEEEecCCce
Confidence 334556666888888877766642 22222233322 1134689999999999999999999999999999
Q ss_pred EEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCC-----ceeEEEEeEEEEccccCCCC-CCCCCCCCChhhccc
Q 008040 141 IQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEK-----GELSVLVNSFVILTKSLLPL-PDKYHGLTDVDKRYR 214 (580)
Q Consensus 141 iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~-----ge~el~~~~i~vls~a~~pl-P~~~~~l~d~e~r~r 214 (580)
+|||++.+.. ..|+.+ . |..++.|.|.|++++.+. |+.||.|+-++|++.|..+- -.....-++++..++
T Consensus 153 lqCVl~~kl~--~~yd~~-~-Ls~essv~vYG~i~~~p~GK~apgghEl~vdy~Eiig~Apag~~~n~lne~s~~~~~Ld 228 (545)
T KOG0555|consen 153 LQCVLSDKLC--QSYDAL-T-LSTESSVTVYGTIKKLPEGKSAPGGHELNVDYWEIIGLAPAGGFDNPLNEESDVDVLLD 228 (545)
T ss_pred EEEEEcchhh--hhhccc-c-ccccceEEEEEEEecCcCCCCCCCCceEEeeeeeeecccCCCcccccccccCCcceEec
Confidence 9999988753 356655 3 599999999999998764 58999999999999885441 112223367889999
Q ss_pred cceeeeecCHHHHHHHHHHHHHHHHHHHHHHhCCCeeecCceeecc--CCCCCCCceeeccCCCCeeEEEEecHHHHHHH
Q 008040 215 QRYVDMISKPEVADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA--AGGAEARPFVTYHNSLGRDLYLRIATELHLKR 292 (580)
Q Consensus 215 ~R~ldl~~~~~~~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~--~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~ 292 (580)
||||-+| ......+++.|+.++++||++|.+.||.||.+|.|..+ .|| +..|. .||+|.++||+||.||||+.
T Consensus 229 nrHl~iR-ge~~s~vLK~Ra~~lr~~Rd~y~~~~ytEVtPPtmVQTQVEGG--sTLFk--ldYyGEeAyLTQSSQLYLEt 303 (545)
T KOG0555|consen 229 NRHLVIR-GENASKVLKARAALLRAMRDHYFERGYTEVTPPTMVQTQVEGG--STLFK--LDYYGEEAYLTQSSQLYLET 303 (545)
T ss_pred cceeEEe-chhHHHHHHHHHHHHHHHHHHHHhcCceecCCCceEEEEecCc--ceEEe--ecccCchhhccchhHHHHHH
Confidence 9999986 68899999999999999999999999999999999865 466 44675 58999999999999999998
Q ss_pred HHhccCCceeEEecccccCCCCC-CCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceee-cCceeecC---C
Q 008040 293 MLIGGFEKIYEIGRIFRNEGLST-RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTID-YQGVEICL---E 367 (580)
Q Consensus 293 llv~g~~rVfeIg~~FR~E~~~~-rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~-~~~~~i~~---~ 367 (580)
.+ .++++||+|.+.||+|.++| ||+.|||++|+|++|.+++|+|+.+|.||...+..++....-. .....++| +
T Consensus 304 cl-pAlgdvy~I~~SyRAEkSrTRRHLsEytHVEaE~afltfd~ll~~iE~lvc~~vdr~l~dp~~~li~~lnP~f~~P~ 382 (545)
T KOG0555|consen 304 CL-PALGDVYCIQQSYRAEKSRTRRHLSEYTHVEAECAFLTFDDLLDRIEALVCDSVDRLLEDPIAPLIKQLNPDFKAPK 382 (545)
T ss_pred hh-hhcCceeEecHhhhhhhhhhhhhhhhheeeeeecccccHHHHHHHHHHHHHHHHHHHHhChhhhhHHHhCCCCCCCC
Confidence 74 68999999999999999997 9999999999999999999999999999999999998754210 01112344 4
Q ss_pred CCcceeeHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCCCcEEEEe
Q 008040 368 RPWRRETMHNLVKEATGIDFNELGNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLVQPTFVLD 447 (580)
Q Consensus 368 ~pf~rit~~eai~~~~g~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~~P~fV~d 447 (580)
.||+|+.|.|||+-+...++..-. | ....+|..+.+..|...-..++.|+|++.
T Consensus 383 ~PFkRm~Y~dAI~wLke~~vk~ed--------------g------------~~fefGdDI~eAaER~mtdtIg~PIfLtr 436 (545)
T KOG0555|consen 383 RPFKRMNYSDAIEWLKEHDVKKED--------------G------------TDFEFGDDIPEAAERKMTDTIGVPIFLTR 436 (545)
T ss_pred CchhcCCHHHHHHHHHhcCCcCcc--------------C------------cccccccchhhHHHHhhhhhcCCceEEee
Confidence 689999999999877554443210 1 11123555666666666677788999999
Q ss_pred cCCCCCccccc-cCCCCCceeEEEEEEcCE-eecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCc
Q 008040 448 YPIEISPLAKP-HRRHAGLTERFELFICGR-EMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDD 525 (580)
Q Consensus 448 yP~~~~pfa~~-~~~~~~~~~rFdL~i~G~-Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~ 525 (580)
||+++++|||+ ..+|++++++.|++++|+ ||.+|+.|+.|.++..+-|+ |++.|.
T Consensus 437 FpveiKsFYM~rc~dd~~lTESvD~LmPnVGEIvGGSMRi~d~eeLlagfk-----------------------RegId~ 493 (545)
T KOG0555|consen 437 FPVEIKSFYMKRCEDDPRLTESVDVLMPNVGEIVGGSMRIDDSEELLAGFK-----------------------REGIDP 493 (545)
T ss_pred ccccccceeeecccCccccceeeeeecCCccccccceeeeccHHHHHHHHh-----------------------hcCCCC
Confidence 99999999975 567899999999999999 99999999999887665554 344455
Q ss_pred cccccCCcHHHHHHHhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCCC
Q 008040 526 HSYEVTLDDDFVTALEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILKI 578 (580)
Q Consensus 526 e~~~~~~d~~yl~al~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~~ 578 (580)
..| .||++.++||.-||||.|||+||++||||+..+||||.+|||.-.
T Consensus 494 ~pY-----YWy~DqrkyGt~pHGGyGLGlERfL~wL~~r~~vre~cLyPRfv~ 541 (545)
T KOG0555|consen 494 DPY-----YWYTDQRKYGTCPHGGYGLGLERFLAWLCDRYHVREVCLYPRFVG 541 (545)
T ss_pred CCc-----eEEeeccccccCCCCcccccHHHHHHHHhcccchhheeecchhhc
Confidence 544 699999999999999999999999999999999999999999643
No 37
>COG2269 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.4e-67 Score=516.62 Aligned_cols=302 Identities=37% Similarity=0.580 Sum_probs=269.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCeeecCceeeccC-CCCCCCceeec----cCCCCeeEEEEecHHHHHHHHHhccCCce
Q 008040 227 ADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAA-GGAEARPFVTY----HNSLGRDLYLRIATELHLKRMLIGGFEKI 301 (580)
Q Consensus 227 ~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~-~Ga~a~pF~t~----~~~~~~~~yL~~Spql~lk~llv~g~~rV 301 (580)
.+.+..|+.|+++||.||.++||+||+||.|+.++ ..++..+|.|. ....+.++||.+|||+++|+|+++|-+++
T Consensus 13 ~~~ll~Ra~i~~~iR~FF~erg~lEVeTp~Ls~a~vtd~hL~~F~Te~~~~~~~~~~~l~L~TSPEy~mKrLLAag~~~i 92 (322)
T COG2269 13 IDNLLKRAAIIAAIRRFFAERGVLEVETPALSVAPVTDIHLHPFETEFLGPGGAKGKPLWLHTSPEYHMKRLLAAGSGPI 92 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCceEecchHhhcCCCCccceeeeeeEEeccCccccceeeeecCcHHHHHHHHHccCCcc
Confidence 35589999999999999999999999999999664 55677889873 33446899999999999999999999999
Q ss_pred eEEecccccCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCceeecCCCCcceeeHHHHHHH
Q 008040 302 YEIGRIFRNEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQGVEICLERPWRRETMHNLVKE 381 (580)
Q Consensus 302 feIg~~FR~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~~~~i~~~~pf~rit~~eai~~ 381 (580)
||||+|||||..+..|||||||||||..+.||..+|+.+.+|++.++.- .++.++||.||+..
T Consensus 93 fql~kvfRN~E~G~~H~PEFTMLEWYrv~~d~~~lm~e~~~Ll~~vl~~-----------------~~~E~ls~~eaF~r 155 (322)
T COG2269 93 FQLGKVFRNEEMGRLHNPEFTMLEWYRVGCDYYRLMNEVDDLLQLVLEC-----------------VEAERLSYQEAFLR 155 (322)
T ss_pred hhhhHHHhcccccccCCCceeEeeeeccCCcHHHHHHHHHHHHHHHHcc-----------------CCcceeeHHHHHHH
Confidence 9999999999999999999999999999999999999999999888762 35899999999999
Q ss_pred HhCCCCCCCCCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCC--CcEEEEecCCCCCcccccc
Q 008040 382 ATGIDFNELGNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLV--QPTFVLDYPIEISPLAKPH 459 (580)
Q Consensus 382 ~~g~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~--~P~fV~dyP~~~~pfa~~~ 459 (580)
+.|+|.... +...+++.+.+ .|+. ..+. .+|..++..+|.+.|||+++ +|+||+|||...+.+|+.+
T Consensus 156 ~~gid~l~~--~~~~L~~~~~~-~~l~-------~~~~-~~~d~L~~~lf~~~VEP~lg~~rpt~ly~fP~~qaaLA~i~ 224 (322)
T COG2269 156 YLGIDPLSA--DKTELREAAAK-LGLS-------AATD-EDWDTLLQLLFVEGVEPNLGKERPTFLYHFPASQAALAQIS 224 (322)
T ss_pred HhCCCcccc--cHHHHHHHHHh-cCCC-------CCCc-cCHHHHHHHHHHhhcCcccCCCCceEEEeCcHHHHHhhccC
Confidence 999997663 45677777776 7772 2222 33589999999999999996 6999999999999999999
Q ss_pred CCCCCceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcHHHHHH
Q 008040 460 RRHAGLTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDDFVTA 539 (580)
Q Consensus 460 ~~~~~~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~a 539 (580)
+.||.+++|||||++|+||+|||.|++|+.+|++||+..+.+ |.....+.++ +|++||.|
T Consensus 225 ~~D~rVAERFElY~kGiELaNgf~EltDa~EqrrRfe~dn~~------------------r~~~~l~~~p--iDe~fl~A 284 (322)
T COG2269 225 TGDPRVAERFELYYKGIELANGFHELTDAAEQRRRFEQDNKE------------------RARRGLPQYP--IDEDFLAA 284 (322)
T ss_pred CCCcchhhhhhheeeeeeecccchhcCCHHHHHHHHHHHHHH------------------HHhcCCCCCC--CCHHHHHH
Confidence 999999999999999999999999999999999999988766 3444567777 99999999
Q ss_pred HhcCCCCccceeccHHHHHHHHcCCCCccccccCCcCC
Q 008040 540 LEYGMPPASGMGLGIDRLVMLLTNSASIRDVIAFPILK 577 (580)
Q Consensus 540 l~yG~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~~ 577 (580)
++. ||||+|++||||||||+++|..+|.|||.||..+
T Consensus 285 la~-mP~cSGvALG~DRLvmLalg~~~i~~Vi~f~v~~ 321 (322)
T COG2269 285 LAR-MPPCSGVALGFDRLVMLALGAESIDDVIAFPVAR 321 (322)
T ss_pred HHh-CCCcccceecHHHHHHHHcCcchHHHHhhccccc
Confidence 999 9999999999999999999999999999999754
No 38
>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=100.00 E-value=1.8e-66 Score=532.73 Aligned_cols=272 Identities=30% Similarity=0.473 Sum_probs=216.7
Q ss_pred HHHHHHHHHHHHHHHHhCCCeeecCceeecc-CCCCCCCceeeccCCC-CeeEEEEecHHHHHHHHHhccCCceeEEecc
Q 008040 230 FRKRAKIVSEIRKTVESLGFVEVETPVLQGA-AGGAEARPFVTYHNSL-GRDLYLRIATELHLKRMLIGGFEKIYEIGRI 307 (580)
Q Consensus 230 ~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~-~~Ga~a~pF~t~~~~~-~~~~yL~~Spql~lk~llv~g~~rVfeIg~~ 307 (580)
+++||+|+++||+||.++||+||+||+|+++ ++| +.+|.++.+.. +..+||+||||||||+|+++|++|||+||||
T Consensus 1 l~~Rs~i~~~iR~f~~~~gfiEV~TP~L~~~~~~g--~~~f~~~~~~~~~~~~~L~~Spql~lk~ll~~g~~~v~~i~~~ 78 (280)
T cd00777 1 LRLRSRVIKAIRNFLDEQGFVEIETPILTKSTPEG--ARDFLVPSRLHPGKFYALPQSPQLFKQLLMVSGFDRYFQIARC 78 (280)
T ss_pred CchHHHHHHHHHHHHHHCCCEEEeCCeeecCCCCC--CCCceeccccCCCceeecccCHHHHHHHHHhcCcCcEEEeccc
Confidence 4789999999999999999999999999965 455 46798866543 4456699999999999999999999999999
Q ss_pred cccCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCceeecCceeecCCCCcceeeHHHHHHHHhCCCC
Q 008040 308 FRNEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLTIDYQGVEICLERPWRRETMHNLVKEATGIDF 387 (580)
Q Consensus 308 FR~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~~~~~~~~i~~~~pf~rit~~eai~~~~g~~~ 387 (580)
||+|+++++|++||||||||++|.|++|||+++|+||++++..+.+. +++.||+|+||.||++.+ |.+.
T Consensus 79 fR~e~~~~~r~~Ef~~~e~e~~~~~~~dlm~~~e~li~~i~~~~~~~----------~~~~p~~rity~eA~~~~-~~~~ 147 (280)
T cd00777 79 FRDEDLRADRQPEFTQIDIEMSFVDQEDIMSLIEGLLKYVFKEVLGV----------ELTTPFPRMTYAEAMERY-GFKF 147 (280)
T ss_pred eeCCCCCCCccceeEEeEeeeccCCHHHHHHHHHHHHHHHHHHHhCC----------CCCCCCceeeHHHHHHHh-CCCC
Confidence 99999999888899999999999999999999999999999988763 346799999999999986 4332
Q ss_pred CCCCCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCCCcEEEEe-cCCCC---CccccccCCCC
Q 008040 388 NELGNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLVQPTFVLD-YPIEI---SPLAKPHRRHA 463 (580)
Q Consensus 388 ~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~~P~fV~d-yP~~~---~pfa~~~~~~~ 463 (580)
.... + +.+ .+ ...+. .+++++++ ||... .|+++.++++
T Consensus 148 ~~~~-d-----------~~~---------~~--~~~~~--------------~~~~~~~~pf~~~~~~~~~~~~~~~~~- 189 (280)
T cd00777 148 LWIV-D-----------FPL---------FE--WDEEE--------------GRLVSAHHPFTAPKEEDLDLLEKDPED- 189 (280)
T ss_pred cccc-C-----------Ccc---------cC--ChhHH--------------HHHHHHhCCCcCCCcccchhhhcCCcc-
Confidence 2110 0 000 00 00010 01223333 33322 3455555555
Q ss_pred CceeEEEEEEcCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccccccCCcHHHHHHHhcC
Q 008040 464 GLTERFELFICGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHSYEVTLDDDFVTALEYG 543 (580)
Q Consensus 464 ~~~~rFdL~i~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~al~yG 543 (580)
++++|||||++|+||+|||+|+|||++|+++|+++.. ...+... .++|||+|++||
T Consensus 190 ~~~~~fdl~~~G~Ei~~G~~r~~d~~~l~~r~~~~~~----------------------~~~~~~~--~~~~yl~a~~~G 245 (280)
T cd00777 190 ARAQAYDLVLNGVELGGGSIRIHDPDIQEKVFEILGL----------------------SEEEAEE--KFGFLLEAFKYG 245 (280)
T ss_pred CeeEEEEEEeCCEEEccCEEEcCCHHHHHHHHHHcCC----------------------Chhhhhh--hHHHHHHHHHCC
Confidence 8999999999999999999999999999999986521 1111122 468999999999
Q ss_pred CCCccceeccHHHHHHHHcCCCCccccccCCcC
Q 008040 544 MPPASGMGLGIDRLVMLLTNSASIRDVIAFPIL 576 (580)
Q Consensus 544 ~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP~~ 576 (580)
||||||||||||||+|++||.+|||||++||+.
T Consensus 246 ~pP~~G~giGidRL~m~~~g~~~Irdv~~FPr~ 278 (280)
T cd00777 246 APPHGGIALGLDRLVMLLTGSESIRDVIAFPKT 278 (280)
T ss_pred CCCCCeEeEhHHHHHHHHcCCCchheEeecCCC
Confidence 999999999999999999999999999999985
No 39
>cd04322 LysRS_N LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Included in this group are E. coli LysS and LysU. These two isoforms of LysRS are encoded by distinct genes which are differently regulated. Eukaryotes contain 2 sets of aaRSs, both of which encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein
Probab=99.92 E-value=1e-24 Score=193.34 Aligned_cols=108 Identities=53% Similarity=0.980 Sum_probs=100.5
Q ss_pred EEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEEEc
Q 008040 113 HVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFVIL 192 (580)
Q Consensus 113 ~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~vl 192 (580)
+|+|+|||+++|.+|+++|++|+|+++.+|+|++.+..+++.|..+.+.|+.||+|.|+|++.++++|++||.+++++||
T Consensus 1 ~v~v~GwV~~~R~~g~~~Fi~lrd~~~~lQ~v~~~~~~~~~~~~~~~~~l~~g~~V~v~G~v~~~~~g~~El~~~~~~il 80 (108)
T cd04322 1 EVSVAGRIMSKRGSGKLSFADLQDESGKIQVYVNKDDLGEEEFEDFKKLLDLGDIIGVTGTPFKTKTGELSIFVKEFTLL 80 (108)
T ss_pred CEEEEEEEEEEecCCCeEEEEEEECCeEEEEEEECCCCCHHHHHHHHhcCCCCCEEEEEEEEEecCCCCEEEEeCEeEEe
Confidence 38999999999999999999999999999999987765667788777746999999999999999999999999999999
Q ss_pred cccCCCCCCCCCCCCChhhccccceeee
Q 008040 193 TKSLLPLPDKYHGLTDVDKRYRQRYVDM 220 (580)
Q Consensus 193 s~a~~plP~~~~~l~d~e~r~r~R~ldl 220 (580)
|+|.+|||.+.++..+.++|+++|||||
T Consensus 81 s~~~~plP~~~~~~~~~~~r~~~R~ldl 108 (108)
T cd04322 81 SKSLRPLPEKFHGLTDVETRYRQRYLDL 108 (108)
T ss_pred eccCCCCCCCccCcCChhheeecccccC
Confidence 9999999999999999999999999996
No 40
>cd04317 EcAspRS_like_N EcAspRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli aspartyl-tRNA synthetase (AspRS), the human mitochondrial (mt) AspRS-2, the discriminating (D) Thermus thermophilus AspRS-1, and the nondiscriminating (ND) Helicobacter pylori AspRS. These homodimeric enzymes are class2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, wh
Probab=99.87 E-value=4.1e-22 Score=183.56 Aligned_cols=120 Identities=27% Similarity=0.460 Sum_probs=100.2
Q ss_pred CCCHHHHHHHHhhccCCccCCCCCCEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcE
Q 008040 88 THSANQLQEIYRHLANGEESNSENDHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDI 167 (580)
Q Consensus 88 t~~~~~i~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~ 167 (580)
+++|.++...+ . |+.|+|+|||+++|.+|+++|++|+|++|.+|+|+..+..+ .|..+++ |+.||+
T Consensus 2 ~~~~~~~~~~~----~-------g~~V~i~Gwv~~~R~~gk~~Fi~LrD~~g~~Q~v~~~~~~~--~~~~~~~-l~~gs~ 67 (135)
T cd04317 2 THYCGELRESH----V-------GQEVTLCGWVQRRRDHGGLIFIDLRDRYGIVQVVFDPEEAP--EFELAEK-LRNESV 67 (135)
T ss_pred ceehhhCChhH----C-------CCEEEEEEeEehhcccCCEEEEEEecCCeeEEEEEeCCchh--HHHHHhC-CCCccE
Confidence 56666665544 2 47899999999999999999999999999999999876432 2666666 699999
Q ss_pred EEEEeEEEec---------CCceeEEEEeEEEEccccCCCCCCCCCC--CCChhhccccceeeeec
Q 008040 168 LGVSGSMKRT---------EKGELSVLVNSFVILTKSLLPLPDKYHG--LTDVDKRYRQRYVDMIS 222 (580)
Q Consensus 168 v~v~G~v~~t---------~~ge~el~~~~i~vls~a~~plP~~~~~--l~d~e~r~r~R~ldl~~ 222 (580)
|.|+|++... ++|++||.++++++|++| .|+|..+.+ ..+.++|+++||||||.
T Consensus 68 V~V~G~~~~~~~~~~~~~~~~~~~El~~~~i~vl~~~-~~lP~~~~~~~~~~~~~r~~~R~LdLR~ 132 (135)
T cd04317 68 IQVTGKVRARPEGTVNPKLPTGEIEVVASELEVLNKA-KTLPFEIDDDVNVSEELRLKYRYLDLRR 132 (135)
T ss_pred EEEEEEEECCCccccCCCCCCCcEEEEEeEEEEEECC-CCCCCccccccCCCHHHhhhcceeecCC
Confidence 9999999864 357899999999999999 799977643 46899999999999973
No 41
>cd04316 ND_PkAspRS_like_N ND_PkAspRS_like_N: N-terminal, anticodon recognition domain of the type found in the homodimeric non-discriminating (ND) Pyrococcus kodakaraensis aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. P. kodakaraensis AspRS is a class 2b aaRS. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. P. kodakaraensis ND-AspRS can charge both tRNAAsp and tRNAAsn. Some of the enzymes in this group may be discriminating, based on the presence of homologs of asparaginyl-tRNA synthetase (AsnRS) in their completed genomes.
Probab=99.79 E-value=1.4e-18 Score=154.06 Aligned_cols=92 Identities=25% Similarity=0.486 Sum_probs=83.0
Q ss_pred CCEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCC--ceeEEEEeE
Q 008040 111 NDHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEK--GELSVLVNS 188 (580)
Q Consensus 111 ~~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~--ge~el~~~~ 188 (580)
|++|+|+|||+++|.+|+++|++|||++|.+|+|+.++..++++|+.+++ |+.||+|.|+|++.+++. +++||.+++
T Consensus 12 g~~V~v~Gwv~~~R~~g~~~Fi~LrD~~g~iQ~v~~~~~~~~~~~~~~~~-l~~es~V~V~G~v~~~~~~~~~~Ei~~~~ 90 (108)
T cd04316 12 GEEVTVAGWVHEIRDLGGIKFVILRDREGIVQVTAPKKKVDKELFKTVRK-LSRESVISVTGTVKAEPKAPNGVEIIPEE 90 (108)
T ss_pred CCEEEEEEEEEeeeccCCeEEEEEecCCeeEEEEEeCCCCCHHHHHHHhC-CCCcCEEEEEEEEEeCCCCCCCEEEEEeE
Confidence 47899999999999999999999999999999999877656678988877 599999999999998875 579999999
Q ss_pred EEEccccCCCCCCCC
Q 008040 189 FVILTKSLLPLPDKY 203 (580)
Q Consensus 189 i~vls~a~~plP~~~ 203 (580)
+++|++|..++|..+
T Consensus 91 i~il~~~~~~~P~~~ 105 (108)
T cd04316 91 IEVLSEAKTPLPLDP 105 (108)
T ss_pred EEEEeCCCCCCCcCc
Confidence 999999988888654
No 42
>cd04319 PhAsnRS_like_N PhAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Pyrococcus horikoshii AsnRS asparaginyl-tRNA synthetase (AsnRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The archeal enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose.
Probab=99.79 E-value=1.1e-18 Score=153.38 Aligned_cols=100 Identities=27% Similarity=0.357 Sum_probs=87.4
Q ss_pred EEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecC--CceeEEEEeEEEE
Q 008040 114 VSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTE--KGELSVLVNSFVI 191 (580)
Q Consensus 114 V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~--~ge~el~~~~i~v 191 (580)
|+|+|||+++|.+||++|++|||++|.+|+|++++ .+++.|+.+++ |+.||+|.|+|++.+++ .+++||.++++++
T Consensus 2 V~v~Gwv~~~R~~gk~~Fi~lrD~~g~iQ~v~~~~-~~~~~~~~~~~-l~~~s~v~V~G~v~~~~~~~~~~Ei~~~~i~v 79 (103)
T cd04319 2 VTLAGWVYRKREVGKKAFIVLRDSTGIVQAVFSKD-LNEEAYREAKK-VGIESSVIVEGAVKADPRAPGGAEVHGEKLEI 79 (103)
T ss_pred EEEEEEEEeEEcCCCeEEEEEecCCeeEEEEEeCC-CCHHHHHHHhC-CCCCCEEEEEEEEEECCCCCCCEEEEEEEEEE
Confidence 89999999999999999999999999999999876 45678888877 59999999999999875 3579999999999
Q ss_pred ccccCCCCCCCCCCCCChhhcccccee
Q 008040 192 LTKSLLPLPDKYHGLTDVDKRYRQRYV 218 (580)
Q Consensus 192 ls~a~~plP~~~~~l~d~e~r~r~R~l 218 (580)
||+|. |+|.... .+.++|+++|||
T Consensus 80 l~~a~-~~pi~~~--~~~~~~~~~rhL 103 (103)
T cd04319 80 IQNVE-FFPITED--ASDEFLLDVRHL 103 (103)
T ss_pred EecCC-CCccCCC--CCHHHHhhccCC
Confidence 99996 7775433 278999999996
No 43
>cd04320 AspRS_cyto_N AspRS_cyto_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae and human cytoplasmic aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis.
Probab=99.75 E-value=1.3e-17 Score=146.34 Aligned_cols=89 Identities=27% Similarity=0.390 Sum_probs=79.0
Q ss_pred EEEEEEEEEeEecCC-CeEEEEEeeCCeeEEEEEecCc--cChHHHHhhhcccCCCcEEEEEeEEEecCC-------cee
Q 008040 113 HVSVAGRVVARRAFG-KLAFLTLRDDSGTIQLYCEKER--LLSDQFDQLKVFVDIGDILGVSGSMKRTEK-------GEL 182 (580)
Q Consensus 113 ~V~v~GrV~~~R~~g-k~~F~~LrD~sg~iQvv~~~~~--~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~-------ge~ 182 (580)
.|+|+|||+++|.+| +++|++|||++|.+|+++.++. .+++.|+.+++ |+.||+|.|+|++.++++ |++
T Consensus 1 ~V~i~Gwv~~~R~~g~k~~Fi~LrD~sg~iQ~v~~~~~~~~~~~~~~~~~~-l~~es~V~V~G~v~~~~~~~~~~~~~~~ 79 (102)
T cd04320 1 EVLIRARVHTSRAQGAKLAFLVLRQQGYTIQGVLAASAEGVSKQMVKWAGS-LSKESIVDVEGTVKKPEEPIKSCTQQDV 79 (102)
T ss_pred CEEEEEEEEEeecCCCceEEEEEecCCceEEEEEeCCcccCCHHHHHHHhc-CCCccEEEEEEEEECCCCcccCCCcCcE
Confidence 389999999999999 8999999999999999998764 34567777766 599999999999998755 899
Q ss_pred EEEEeEEEEccccCCCCCCC
Q 008040 183 SVLVNSFVILTKSLLPLPDK 202 (580)
Q Consensus 183 el~~~~i~vls~a~~plP~~ 202 (580)
||.++++++|++|..++|..
T Consensus 80 El~~~~i~il~~~~~~~P~~ 99 (102)
T cd04320 80 ELHIEKIYVVSEAAEPLPFQ 99 (102)
T ss_pred EEEEEEEEEEecCCCCCCCC
Confidence 99999999999998888864
No 44
>cd04100 Asp_Lys_Asn_RS_N Asp_Lys_Asn_RS_N: N-terminal, anticodon recognition domain of class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. Class 2b aaRSs include the homodimeric aspartyl-, asparaginyl-, and lysyl-tRNA synthetases (AspRS, AsnRS, and LysRS). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Included in this group are archeal and archeal-like A
Probab=99.65 E-value=1.3e-15 Score=129.15 Aligned_cols=79 Identities=33% Similarity=0.595 Sum_probs=70.7
Q ss_pred EEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecC-----CceeEEEEeE
Q 008040 114 VSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTE-----KGELSVLVNS 188 (580)
Q Consensus 114 V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~-----~ge~el~~~~ 188 (580)
|+|+|||+++|.+|+++|++|||+++.+|++++.+..++ .++.+.+ |+.||+|.|+|.+.+++ ++++||.+++
T Consensus 2 V~i~Gwv~~~R~~g~~~Fi~Lrd~~~~iQ~v~~~~~~~~-~~~~~~~-l~~~s~V~v~G~~~~~~~~~~~~~~~El~~~~ 79 (85)
T cd04100 2 VTLAGWVHSRRDHGGLIFIDLRDGSGIVQVVVNKEELGE-FFEEAEK-LRTESVVGVTGTVVKRPEGNLATGEIELQAEE 79 (85)
T ss_pred EEEEEEEehhccCCCEEEEEEEeCCeeEEEEEECCcChH-HHHHHhC-CCCCCEEEEEeEEEECCCCCCCCCCEEEEEeE
Confidence 899999999999999999999999999999998775432 5777766 59999999999999886 7899999999
Q ss_pred EEEccc
Q 008040 189 FVILTK 194 (580)
Q Consensus 189 i~vls~ 194 (580)
+++|++
T Consensus 80 i~il~~ 85 (85)
T cd04100 80 LEVLSK 85 (85)
T ss_pred EEEECC
Confidence 999985
No 45
>cd04321 ScAspRS_mt_like_N ScAspRS_mt_like_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae mitochondrial (mt) aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this fungal group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis. Mutations in the gene for
Probab=99.64 E-value=1.5e-15 Score=129.16 Aligned_cols=77 Identities=29% Similarity=0.460 Sum_probs=69.1
Q ss_pred EEEEEEEEeEec-CCCeEEEEEeeCCe-eEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCC------ceeEEE
Q 008040 114 VSVAGRVVARRA-FGKLAFLTLRDDSG-TIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEK------GELSVL 185 (580)
Q Consensus 114 V~v~GrV~~~R~-~gk~~F~~LrD~sg-~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~------ge~el~ 185 (580)
|+|+|||+++|. +|+++|++|||++| .+||+++++. +.|+.+++ |+.||+|.|+|++..+++ |++||.
T Consensus 2 V~v~Gwv~~~R~~~~~~~Fi~LrD~~g~~iQvv~~~~~---~~~~~~~~-l~~~s~V~V~G~v~~~~~~~~~~~~~~Ei~ 77 (86)
T cd04321 2 VTLNGWIDRKPRIVKKLSFADLRDPNGDIIQLVSTAKK---DAFSLLKS-ITAESPVQVRGKLQLKEAKSSEKNDEWELV 77 (86)
T ss_pred EEEEEeEeeEeCCCCceEEEEEECCCCCEEEEEECCCH---HHHHHHhc-CCCCcEEEEEEEEEeCCCcCCCCCCCEEEE
Confidence 899999999999 68999999999999 6999997652 57887777 599999999999998875 899999
Q ss_pred EeEEEEccc
Q 008040 186 VNSFVILTK 194 (580)
Q Consensus 186 ~~~i~vls~ 194 (580)
++++++|+.
T Consensus 78 ~~~i~il~~ 86 (86)
T cd04321 78 VDDIQTLNA 86 (86)
T ss_pred EEEEEEecC
Confidence 999999974
No 46
>cd04323 AsnRS_cyto_like_N AsnRS_cyto_like_N: N-terminal, anticodon recognition domain of the type found in human and Saccharomyces cerevisiae cytoplasmic asparaginyl-tRNA synthetase (AsnRS), in Brugia malayai AsnRs and, in various putative bacterial AsnRSs. This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic synthesis, whereas the other exclusively with
Probab=99.61 E-value=5.5e-15 Score=125.06 Aligned_cols=79 Identities=29% Similarity=0.391 Sum_probs=68.9
Q ss_pred EEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecC-----CceeEEEEe
Q 008040 113 HVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTE-----KGELSVLVN 187 (580)
Q Consensus 113 ~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~-----~ge~el~~~ 187 (580)
.|+|+|||+++|.+|+++|++|||++|.+|+++..+..+ + |+.+++ |+.||+|.|+|++.+++ .+++||.++
T Consensus 1 ~V~v~Gwv~~~R~~g~~~Fi~LrD~~~~iQ~v~~~~~~~-~-~~~~~~-l~~es~V~V~G~v~~~~~~~~~~~~~Ei~~~ 77 (84)
T cd04323 1 RVKVFGWVHRLRSQKKLMFLVLRDGTGFLQCVLSKKLVT-E-FYDAKS-LTQESSVEVTGEVKEDPRAKQAPGGYELQVD 77 (84)
T ss_pred CEEEEEEEEEEecCCCcEEEEEEcCCeEEEEEEcCCcch-h-HHHHhc-CCCcCEEEEEEEEEECCcccCCCCCEEEEEE
Confidence 389999999999999999999999999999999866432 2 777766 69999999999999875 457999999
Q ss_pred EEEEccc
Q 008040 188 SFVILTK 194 (580)
Q Consensus 188 ~i~vls~ 194 (580)
++++|++
T Consensus 78 ~i~vl~~ 84 (84)
T cd04323 78 YLEIIGE 84 (84)
T ss_pred EEEEEcC
Confidence 9999974
No 47
>PRK09537 pylS pyrolysyl-tRNA synthetase; Reviewed
Probab=99.61 E-value=6.5e-15 Score=157.32 Aligned_cols=133 Identities=23% Similarity=0.372 Sum_probs=95.5
Q ss_pred CChhhccccceeeeecCHHHHHHHHH-----HHHHHHHHHHHHHhCCCeeecCceeeccC----CCCCC-CceeeccCCC
Q 008040 207 TDVDKRYRQRYVDMISKPEVADVFRK-----RAKIVSEIRKTVESLGFVEVETPVLQGAA----GGAEA-RPFVTYHNSL 276 (580)
Q Consensus 207 ~d~e~r~r~R~ldl~~~~~~~~~~~~-----Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~----~Ga~a-~pF~t~~~~~ 276 (580)
.+.|+||++| +++.++++|.+ .+.|.++||+||...||.||.||+|++.. .|... .++....-..
T Consensus 180 ~~~e~~l~~r-----r~~~~~~~~~~g~~~~~s~Le~aIR~~f~~~GF~EV~TPtLt~ee~~e~~g~~~g~~i~~~my~i 254 (417)
T PRK09537 180 KELESELVSR-----RKNDLKQMYEEDREDYLGKLERDITKFFVDRGFLEIKSPILIPAEYIERMGIDNDTELSKQIFRV 254 (417)
T ss_pred hhHHHHHHHh-----cchhhHHhhccCCCCHHHHHHHHHHHHHHHCCCEEEECCeeecHHHHHHhCCCCcccchhhheee
Confidence 3568888888 68999999999 99999999999999999999999997431 11100 1111111113
Q ss_pred CeeEEEE--ecHHHHHHHHH----hccCCceeEEecccccCCCCCCCCccceeeeeEeecCC--HHHHHHHHHHHH
Q 008040 277 GRDLYLR--IATELHLKRML----IGGFEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSD--YQSMMNITEEIV 344 (580)
Q Consensus 277 ~~~~yL~--~Spql~lk~ll----v~g~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d--~~d~m~l~E~li 344 (580)
+...+|| ..|.|+..... ...--|+||||+|||+|..+.+|++||+|++++....+ +.|++.++++++
T Consensus 255 deel~LRpsLtPsLlr~la~n~k~~~~P~RIFEIG~VFR~E~~g~~hlrEf~Ql~~~iiGs~~~f~dL~~lleeLL 330 (417)
T PRK09537 255 DKNFCLRPMLAPGLYNYLRKLDRILPDPIKIFEIGPCYRKESDGKEHLEEFTMVNFCQMGSGCTRENLENIIDDFL 330 (417)
T ss_pred CCceEehhhhHHHHHHHHHhhhhcccCCeeEEEEeceEecCCCCCCCcceEEEEEEEEeCCchHHHHHHHHHHHHH
Confidence 5678999 68888754321 11123899999999999988899999999999988653 455444444333
No 48
>cd04318 EcAsnRS_like_N EcAsnRS_like_N: N-terminal, anticodon recognition domain of the type found in Escherichia coli asparaginyl-tRNA synthetase (AsnRS) and, in Arabidopsis thaliana and Saccharomyces cerevisiae mitochondrial (mt) AsnRS. This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial
Probab=99.60 E-value=6.9e-15 Score=123.80 Aligned_cols=76 Identities=24% Similarity=0.398 Sum_probs=68.2
Q ss_pred EEEEEEEEeEecCCCeEEEEEeeCCe--eEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCC--ceeEEEEeEE
Q 008040 114 VSVAGRVVARRAFGKLAFLTLRDDSG--TIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEK--GELSVLVNSF 189 (580)
Q Consensus 114 V~v~GrV~~~R~~gk~~F~~LrD~sg--~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~--ge~el~~~~i 189 (580)
|+|+|||+++|.+|+++|++|||+++ .+|++++++.. .|+.+.+ |+.||+|.|+|.+..+++ |++||.++++
T Consensus 2 v~v~Gwv~~~R~~g~~~Fi~LrD~s~~~~lQvv~~~~~~---~~~~~~~-l~~gs~V~v~G~v~~~~~~~~~~El~~~~i 77 (82)
T cd04318 2 VTVNGWVRSVRDSKKISFIELNDGSCLKNLQVVVDKELT---NFKEILK-LSTGSSIRVEGVLVKSPGAKQPFELQAEKI 77 (82)
T ss_pred EEEEEeEEEEEcCCcEEEEEEECCCCccCEEEEEeCccc---CHHHHhc-CCCceEEEEEEEEEeCCCCCCCEEEEEEEE
Confidence 89999999999999999999999999 49999987642 3666766 599999999999999876 8999999999
Q ss_pred EEcc
Q 008040 190 VILT 193 (580)
Q Consensus 190 ~vls 193 (580)
++++
T Consensus 78 ~il~ 81 (82)
T cd04318 78 EVLG 81 (82)
T ss_pred EEec
Confidence 9986
No 49
>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=99.51 E-value=9.9e-14 Score=135.24 Aligned_cols=100 Identities=36% Similarity=0.501 Sum_probs=77.3
Q ss_pred HHHHHHHHHHHHHhCCCeeecCceeeccC----CCCCCCceeeccCCCCeeEEEEecHHHHHHHHHhc----cCCceeEE
Q 008040 233 RAKIVSEIRKTVESLGFVEVETPVLQGAA----GGAEARPFVTYHNSLGRDLYLRIATELHLKRMLIG----GFEKIYEI 304 (580)
Q Consensus 233 Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~----~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~----g~~rVfeI 304 (580)
|+.+.+.+|++|...||.||.||+|.+.. .|.............+...+||.|+...+.+.+.. .--|+|||
T Consensus 2 ~~~~~~~~r~~l~~~Gf~Ev~t~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~LR~s~~~~l~~~~~~n~~~~~~~lfei 81 (211)
T cd00768 2 RSKIEQKLRRFMAELGFQEVETPIVEREPLLEKAGHEPKDLLPVGAENEEDLYLRPTLEPGLVRLFVSHIRKLPLRLAEI 81 (211)
T ss_pred HHHHHHHHHHHHHHcCCEEeEcceecHHHHHHHcCccHhheeeeecCCCCEEEECCCCcHHHHHHHHhhcccCCEEEEEE
Confidence 78899999999999999999999998641 11111112222234456788999999999887664 44699999
Q ss_pred ecccccCCCCC--CCCccceeeeeEeecCC
Q 008040 305 GRIFRNEGLST--RHNPEFTTIEMYEAYSD 332 (580)
Q Consensus 305 g~~FR~E~~~~--rH~pEFtmlE~e~a~~d 332 (580)
|+|||+|.... +|+.||+|+++++...+
T Consensus 82 g~vfr~e~~~~~~~~~~ef~~l~~~~~g~~ 111 (211)
T cd00768 82 GPAFRNEGGRRGLRRVREFTQLEGEVFGED 111 (211)
T ss_pred cceeecCCCccccccceeEEEcCEEEEcCC
Confidence 99999997654 78999999999998764
No 50
>TIGR02367 PylS pyrrolysyl-tRNA synthetase. PylS is the archaeal enzyme responsible for charging the pyrrolysine tRNA, PylT, by ligating a free molecule of pyrrolysine. Pyrrolysine is encoded at an in-frame UAG (amber) at least in several corrinoid-dependent methyltransferases of the archaeal genera Methanosarcina and Methanococcoides, such as trimethylamine methyltransferase.
Probab=99.48 E-value=2.9e-13 Score=144.52 Aligned_cols=107 Identities=24% Similarity=0.345 Sum_probs=75.2
Q ss_pred HHHHHHHHHHHHHHHhCCCeeecCceeeccC-----C-CCCCCceeeccCCCCeeEEEE--ecHHHHHHHHH----hccC
Q 008040 231 RKRAKIVSEIRKTVESLGFVEVETPVLQGAA-----G-GAEARPFVTYHNSLGRDLYLR--IATELHLKRML----IGGF 298 (580)
Q Consensus 231 ~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~-----~-Ga~a~pF~t~~~~~~~~~yL~--~Spql~lk~ll----v~g~ 298 (580)
.-.+.+.+.||++|...||.||.||+|++.. + +.+. +.....-.++...+|| +.|+|+.-... ..--
T Consensus 240 ~~~~~Led~IRevfvg~GFqEV~TPtLt~eE~~E~m~~~~g~-eI~n~Iyk~ee~lvLRPdLTPsLaR~La~N~~~l~~P 318 (453)
T TIGR02367 240 DYLGKLERDITKFFVDRGFLEIKSPILIPAEYIERMGIDNDT-ELSKQIFRVDKNFCLRPMLAPNLYNYLRKLDRALPDP 318 (453)
T ss_pred cHHHHHHHHHHHHHHHCCCEEEECCeecchHHHHhhcCccCC-cccccceEecCceEecccCHHHHHHHHHHhhhhccCC
Confidence 3467899999999999999999999997321 1 1111 1110010134568899 88898743211 1123
Q ss_pred CceeEEecccccCCCCCCCCccceeeeeEeecC--CHHHHHH
Q 008040 299 EKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYS--DYQSMMN 338 (580)
Q Consensus 299 ~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~--d~~d~m~ 338 (580)
-|+|+||+|||+|..+.+|+.||+|++++.+.. ++.|+..
T Consensus 319 qKIFEIGkVFR~E~~~~thlREF~QL~~eIaG~~atfaDlea 360 (453)
T TIGR02367 319 IKIFEIGPCYRKESDGKEHLEEFTMLNFCQMGSGCTRENLEA 360 (453)
T ss_pred eeEEEEcCeEecCCCCCCCcCeEEEEEEEEECCCCCHHHHHH
Confidence 499999999999999999999999999999865 3665553
No 51
>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=99.37 E-value=3.9e-11 Score=121.30 Aligned_cols=265 Identities=18% Similarity=0.211 Sum_probs=151.4
Q ss_pred HHHHHHHHH-----hCCCeeecCceeeccCCCC------CCCceeeccCCC-CeeEEEEecHHHHHHHHHh-ccC---Cc
Q 008040 237 VSEIRKTVE-----SLGFVEVETPVLQGAAGGA------EARPFVTYHNSL-GRDLYLRIATELHLKRMLI-GGF---EK 300 (580)
Q Consensus 237 ~~~iR~fl~-----~~gF~EVeTPiL~~~~~Ga------~a~pF~t~~~~~-~~~~yL~~Spql~lk~llv-~g~---~r 300 (580)
|..|++||. +.+.+.|..|++.....|- ..+|.......+ +..+---+|--=++.+++. -|| +.
T Consensus 4 I~~iK~~F~~~L~~~LnL~rvsaPlfv~~~sGlnD~LnG~E~pV~f~~k~~~~~~~eiVhSLAKWKR~aL~~y~f~~geG 83 (309)
T cd00645 4 IKFIKDFFQDNLAKELNLIRVSAPLFVEKGSGLNDNLNGVEKPVSFKVKALPDATLEVVHSLAKWKRLALARYGFSLGEG 83 (309)
T ss_pred HHHHHHHHHHHHHHHhCeEEecCCeEEecCCCCccCCCCcccceEeecCCCCCceeEEeeehHHHHHHHHHhcCCCCCce
Confidence 455666653 5799999999999654331 235554333333 4556567777777666553 244 56
Q ss_pred eeEEecccc-cCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCce---eecCceeecCCCCcceeeHH
Q 008040 301 IYEIGRIFR-NEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLT---IDYQGVEICLERPWRRETMH 376 (580)
Q Consensus 301 VfeIg~~FR-~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~---~~~~~~~i~~~~pf~rit~~ 376 (580)
+|.=....| +|+.|..|.-==-|-|||.....-+--++...+.++.+...+..... ..|......+.....=||-.
T Consensus 84 lytdMnAiR~dE~ldn~HS~yVDQWDWEkvI~~~~R~~~~Lk~tV~~iy~~ik~te~~~~~~y~~~~~~Lp~~i~Fitsq 163 (309)
T cd00645 84 LYTDMNAIRPDEDLDNIHSIYVDQWDWEKVISKGERNLETLKETVNKIYKAIKETELEVNEKYPQLEPILPEEITFITSQ 163 (309)
T ss_pred eccCCccccCCcccCccceeEeccccHHhhcCccccCHHHHHHHHHHHHHHHHHHHHHHHHHchhhhhcCCCceEEecHH
Confidence 777666666 58899999988888888887654444445555555554444432211 12211111121122224444
Q ss_pred HHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCCCcEEEEecCCCCC---
Q 008040 377 NLVKEATGIDFNELGNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLVQPTFVLDYPIEIS--- 453 (580)
Q Consensus 377 eai~~~~g~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~~P~fV~dyP~~~~--- 453 (580)
|....|-..+ .-+...+++++ + .-|||+.--..++
T Consensus 164 eL~~~YP~l~------~keRE~~i~ke-~-----------------------------------gaVFi~~IG~~L~~g~ 201 (309)
T cd00645 164 ELEDRYPDLT------PKEREDAICKE-H-----------------------------------GAVFIIGIGGKLSDGK 201 (309)
T ss_pred HHHHHCCCCC------HHHHHHHHHHH-h-----------------------------------CcEEEEeccCcCCCCC
Confidence 4444442211 11111122222 1 2377776333221
Q ss_pred ccccccCCCCCceeEEEEEE------cCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCccc
Q 008040 454 PLAKPHRRHAGLTERFELFI------CGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDDHS 527 (580)
Q Consensus 454 pfa~~~~~~~~~~~rFdL~i------~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~e~ 527 (580)
|-..+.|+...+...=|+++ ...||.++..|.+. +++..|++. .+..+.
T Consensus 202 ~Hd~RapDYDDW~LNGDil~w~~~l~~a~ELSSmGiRVde-----e~L~~Ql~~--------------------~g~~dr 256 (309)
T cd00645 202 KHDGRAPDYDDWTLNGDILVWNPVLQRAFELSSMGIRVDE-----ESLQKQLKL--------------------AGDEDR 256 (309)
T ss_pred cCCCCCCCCcCccccceEEEEchhcCceeeecCcceEecH-----HHHHHHHHH--------------------cCCCcc
Confidence 22223344445665556654 24588888877654 345555543 232222
Q ss_pred cccCCcHHHHHHHhcC-CCCccceeccHHHHHHHHcCCCCcccccc
Q 008040 528 YEVTLDDDFVTALEYG-MPPASGMGLGIDRLVMLLTNSASIRDVIA 572 (580)
Q Consensus 528 ~~~~~d~~yl~al~yG-~PP~gG~GiGiDRLvMlltg~~sIrdvi~ 572 (580)
. .-.|++++..| +|||+|+|||+|||+|+|+|..+|.+|.+
T Consensus 257 ~----~l~~h~~ll~g~LP~TiGgGIGqsRL~M~LL~k~HIgEVqa 298 (309)
T cd00645 257 L----ELPFHKMLLNGELPQTIGGGIGQSRLCMFLLQKAHIGEVQA 298 (309)
T ss_pred c----cCHHHHHHHcCCCCccccccccHHHHHHHHhccchhcceee
Confidence 2 12459999999 99999999999999999999999999975
No 52
>PF01409 tRNA-synt_2d: tRNA synthetases class II core domain (F); InterPro: IPR002319 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. Phenylalanyl-tRNA synthetase (6.1.1.20 from EC) is an alpha2/beta2 tetramer composed of 2 subunits that belongs to class IIc. In eubacteria, a small subunit (pheS gene) can be designated as beta (E. coli) or alpha subunit (nomenclature adopted in InterPro). Reciprocally the large subunit (pheT gene) can be designated as alpha (E. coli) or beta (see IPR004531 from INTERPRO and IPR004532 from INTERPRO). In all other kingdoms the two subunits have equivalent length in eukaryota, and can be identified by specific signatures. The enzyme from Thermus thermophilus has an alpha 2 beta 2 type quaternary structure and is one of the most complicated members of the synthetase family. Identification of phenylalanyl-tRNA synthetase as a member of class II aaRSs was based only on sequence alignment of the small alpha-subunit with other synthetases [].; GO: 0000049 tRNA binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0043039 tRNA aminoacylation, 0005737 cytoplasm; PDB: 3TUP_A 3HFV_A 3CMQ_A 3TEG_A 2AKW_B 1B70_B 1B7Y_B 2ALY_B 2IY5_B 2AMC_B ....
Probab=99.36 E-value=1.1e-11 Score=125.45 Aligned_cols=115 Identities=27% Similarity=0.381 Sum_probs=78.4
Q ss_pred HHHHHHHHHHHHhCCCeeecCceeecc---------CCCCCCCc----eeeccCCC--CeeEEEEecHHHHHHHHH---h
Q 008040 234 AKIVSEIRKTVESLGFVEVETPVLQGA---------AGGAEARP----FVTYHNSL--GRDLYLRIATELHLKRML---I 295 (580)
Q Consensus 234 s~i~~~iR~fl~~~gF~EVeTPiL~~~---------~~Ga~a~p----F~t~~~~~--~~~~yL~~Spql~lk~ll---v 295 (580)
+++.+.||++|...||.||.+|.+.+. |...-||. |-.....- ....-||...--.+=+.| .
T Consensus 20 ~~~~~~i~~~~~~~Gf~e~~~~~v~s~~~nFD~Ln~p~dHpaR~~~Dtfyi~~p~~~~~~~~vLRThts~~~~~~l~~~~ 99 (247)
T PF01409_consen 20 TKFIREIRDIFVGMGFQEVEGPEVESEFYNFDALNIPQDHPARDMQDTFYISNPYSAEEDYSVLRTHTSPGQLRTLNKHR 99 (247)
T ss_dssp HHHHHHHHHHHHCTTSEEESTTSEEEHHHHTGGGTSTTTSCGGCGTTSEBSCSSSBCECSSEEE-SSTHHHHHHHHTTTS
T ss_pred HHHHHHHHHHHHHCCCeEeeCCeEEeeHHHHHhhCcCCCccccccccceeeeccccccchhhhhhhhhhHHHHHHHHHhc
Confidence 567888999999999999999999652 22212222 21111111 566778853322222333 1
Q ss_pred ccCCceeEEecccccCCCCCCCCccceeeeeEeecC--CHHHHHHHHHHHHHHHH
Q 008040 296 GGFEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYS--DYQSMMNITEEIVTHCA 348 (580)
Q Consensus 296 ~g~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~--d~~d~m~l~E~li~~~~ 348 (580)
..--|+|+||+|||+|..|.+|+|||+|+|.-.... ++.++..+++.++++++
T Consensus 100 ~~p~kif~iG~VyR~D~~D~th~~~f~Qleg~~~~~~~~f~~Lk~~l~~l~~~lf 154 (247)
T PF01409_consen 100 PPPIKIFEIGKVYRRDEIDATHLPEFHQLEGLVVDKNVTFEDLKGTLEELLKELF 154 (247)
T ss_dssp HSSEEEEEEEEEESSSCSBSSBESEEEEEEEEEEETTE-HHHHHHHHHHHHHHHH
T ss_pred CCCeEEEecCceEecCCcccccCccceeEeeEEEecccchhHHHHHHHHHHHHHh
Confidence 233699999999999999999999999999988765 57777777777765553
No 53
>PTZ00213 asparagine synthetase A; Provisional
Probab=99.35 E-value=9.9e-11 Score=119.67 Aligned_cols=285 Identities=15% Similarity=0.183 Sum_probs=151.3
Q ss_pred HHHHHHHHHHHHHHHHH-----hCCCeeecCceeeccCCCCC------CCceeeccCCC-CeeEEEEecHHHHHHHHHh-
Q 008040 229 VFRKRAKIVSEIRKTVE-----SLGFVEVETPVLQGAAGGAE------ARPFVTYHNSL-GRDLYLRIATELHLKRMLI- 295 (580)
Q Consensus 229 ~~~~Rs~i~~~iR~fl~-----~~gF~EVeTPiL~~~~~Ga~------a~pF~t~~~~~-~~~~yL~~Spql~lk~llv- 295 (580)
.|+.....|..|++||. +.+.+.|..|++.....|-+ .+|.......+ +..+-.-+|--=++.+++.
T Consensus 7 ~~~~~q~aI~~iK~~F~~~L~~~LnL~rVsaPLfv~~~~GlnDnLnG~ErpV~f~~k~~~~~~~evVhSLAKWKR~aL~~ 86 (348)
T PTZ00213 7 AYIDLQEQILKVKQIFSEALAKELNLIRVEAPLLAEVGDGTQDNLSGVEKAVQVHVKGIPNSVFEVVHSLAKWKRLTLGE 86 (348)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHhCeeEecCCeEEcCCCCcccCCCCeeeeeEEecCCCCCceeEEehhhHHHHHHHHHh
Confidence 34445566777777774 56999999999996543321 24544333333 4555567777767665543
Q ss_pred ccC---CceeEEeccc-ccCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCce---eecCceeecCCC
Q 008040 296 GGF---EKIYEIGRIF-RNEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLT---IDYQGVEICLER 368 (580)
Q Consensus 296 ~g~---~rVfeIg~~F-R~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~---~~~~~~~i~~~~ 368 (580)
-|| +.+|.=.+.. |+|..|..|.-==-|-|||+....-+--++...+.++.+...+..... ..|......+..
T Consensus 87 y~f~~geGlytdMnAiR~dE~ldn~HS~yVDQWDWEkvI~~~~R~~~~Lk~tV~~iy~~ik~te~~~~~~yp~l~~~Lp~ 166 (348)
T PTZ00213 87 HKFPVGEGIYTDMNALRVEEELDNIHSVYVDQWDWEMVIAPADRNLEYLKNTVRRLYAAIRKTEEAICNEYPNLKRILPK 166 (348)
T ss_pred cCCCCCceeeeccccccCCcccCccceeEeccccHHHhcCccccCHHHHHHHHHHHHHHHHHHHHHHHHHchhhhhcCCC
Confidence 233 5688844444 568889999988888889887654444444555555554444332211 122111111222
Q ss_pred CcceeeHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCCC-----------CccccccC--CCCcHHhHHHHHHHHHh
Q 008040 369 PWRRETMHNLVKEATGIDFNELGNDLKVAKETTLRALGDGLE-----------NKDKFVIE--SSPSVGNLLNEVFEIVV 435 (580)
Q Consensus 369 pf~rit~~eai~~~~g~~~~~~~~~~~~~~~~~~~~~g~~~~-----------~~~~~~~~--~~~~lg~~l~~~~~~~v 435 (580)
...=||-.|....|-..+ .-+...+++++ +|.... ..+...++ +|.+- .
T Consensus 167 ~I~FitsqeL~~~YP~lt------~keRE~~i~ke-~gaVFi~~IG~~L~~G~~Hd~RApDYDDW~t~-----------~ 228 (348)
T PTZ00213 167 EITFLHTEHLLKMYPNLS------PKEREREIVKK-YGAVFLIGIGCKLSSGDTHDLRAPDYDDWSSP-----------V 228 (348)
T ss_pred ceEEecHHHHHHHCCCCC------HHHHHHHHHHH-hCcEEEEeccCcCCCCCcCCCCCCCccccccc-----------c
Confidence 222344455555553322 12333445555 442100 00000000 11100 0
Q ss_pred cCCCCCcEEEEecCCC---CCccccccCCCCCceeEEEEEE------cCEeecccccccCCHHHHHHHHHHHHHhhhhhh
Q 008040 436 EPKLVQPTFVLDYPIE---ISPLAKPHRRHAGLTERFELFI------CGREMANAFSELTDPLDQRARLEEQVRQHNEKR 506 (580)
Q Consensus 436 e~~l~~P~fV~dyP~~---~~pfa~~~~~~~~~~~rFdL~i------~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r 506 (580)
+. .+ .-||.. ++|....+ | ..=|+++ ...||.++..|. |++ ++..|++.
T Consensus 229 ~~--~~----~~~~~~~~~~~~~~~~~----g--LNGDilvw~~~l~~a~ELSSmGiRV-d~e----sL~~Qlk~----- 286 (348)
T PTZ00213 229 SA--SK----IGFPTADPTMNSLMSLQ----G--LNGDILVYNPVLDDVLELSSMGIRV-DAE----ALRRQLEI----- 286 (348)
T ss_pred cc--cc----ccccccccccccccccc----C--ccceEEEechhcCceeecCCcceEE-cHH----HHHHHHHH-----
Confidence 00 00 113321 22221111 1 2223332 245888888887 664 34445433
Q ss_pred HhhhhhhhhhHHhhhcCCccccccCCcHHHHHHHhcC-CCCccceeccHHHHHHHHcCCCCcccccc
Q 008040 507 AAAVSEKSSAQEKLKESDDHSYEVTLDDDFVTALEYG-MPPASGMGLGIDRLVMLLTNSASIRDVIA 572 (580)
Q Consensus 507 ~~~~~~~~~~~~~~~~~~~e~~~~~~d~~yl~al~yG-~PP~gG~GiGiDRLvMlltg~~sIrdvi~ 572 (580)
.+..+.. ...+|++ +..| +|+|+|+|||+|||+|+|+|..+|.||.+
T Consensus 287 ---------------~g~~dr~---~l~~h~~-ll~g~LP~TiGGGIGqsRL~M~LL~k~HIgEVQ~ 334 (348)
T PTZ00213 287 ---------------TNNTDRL---KCMWHQM-LLNGELPQTIGGGIGQSRLCMFMLRKKHIGEVQC 334 (348)
T ss_pred ---------------cCCCccc---cCHHHHH-HHcCCCCCcccccccHHHHHHHHhCcchhcceee
Confidence 2322222 2457888 7778 99999999999999999999999999975
No 54
>PRK00488 pheS phenylalanyl-tRNA synthetase subunit alpha; Validated
Probab=99.32 E-value=3.3e-11 Score=125.96 Aligned_cols=113 Identities=19% Similarity=0.292 Sum_probs=77.4
Q ss_pred HHHHHHHHHHHHhCCCeeecCceeecc---------CCCCCCCceeeccCCCCeeEEEE--ecHHHHHHHHHhccC-Cce
Q 008040 234 AKIVSEIRKTVESLGFVEVETPVLQGA---------AGGAEARPFVTYHNSLGRDLYLR--IATELHLKRMLIGGF-EKI 301 (580)
Q Consensus 234 s~i~~~iR~fl~~~gF~EVeTPiL~~~---------~~Ga~a~pF~t~~~~~~~~~yL~--~Spql~lk~llv~g~-~rV 301 (580)
+.+...||++|...||.||++|.|.+. |.+.-||...- .-+.+...-|| +||-+- ..|-.... -|+
T Consensus 111 ~~~~~~Ir~if~~mGF~ev~gpeIes~~~NFdaLn~P~dHPaR~~~D-TfyI~~~~lLRThTSp~qi-r~L~~~~~Piri 188 (339)
T PRK00488 111 TQTIEEIEDIFVGMGFEVAEGPEIETDYYNFEALNIPKDHPARDMQD-TFYIDDGLLLRTHTSPVQI-RTMEKQKPPIRI 188 (339)
T ss_pred HHHHHHHHHHHHhCCCEEEeCCccccHHHHHHHhCCCCCCcccccCc-eEEEcCCceeeccCcHHHH-HHHHhcCCCeEE
Confidence 467788999999999999999999863 22212222210 01234445577 456442 22222222 289
Q ss_pred eEEecccccCCCCCCCCccceeeeeEeecC--CHHHHHHHHHHHHHHHH
Q 008040 302 YEIGRIFRNEGLSTRHNPEFTTIEMYEAYS--DYQSMMNITEEIVTHCA 348 (580)
Q Consensus 302 feIg~~FR~E~~~~rH~pEFtmlE~e~a~~--d~~d~m~l~E~li~~~~ 348 (580)
|++|+|||++..|.+|.|+|+|+|.-.... ++.++...++.++++++
T Consensus 189 f~~G~VyR~D~~DatH~~~FhQleglvvd~~vtf~dLK~~L~~fl~~~f 237 (339)
T PRK00488 189 IAPGRVYRNDSDDATHSPMFHQVEGLVVDKNISFADLKGTLEDFLKAFF 237 (339)
T ss_pred EEeeeEEEcCCCCcccCcceeeEEEEEEeCCCCHHHHHHHHHHHHHHHc
Confidence 999999999999999999999999877764 57787777777776554
No 55
>PRK05425 asparagine synthetase AsnA; Provisional
Probab=99.28 E-value=6e-10 Score=113.77 Aligned_cols=266 Identities=16% Similarity=0.192 Sum_probs=149.8
Q ss_pred HHHHHHHHHH-----HhCCCeeecCceeeccCCCCC------CCceeeccCCC-CeeEEEEecHHHHHHHHHh-ccC---
Q 008040 235 KIVSEIRKTV-----ESLGFVEVETPVLQGAAGGAE------ARPFVTYHNSL-GRDLYLRIATELHLKRMLI-GGF--- 298 (580)
Q Consensus 235 ~i~~~iR~fl-----~~~gF~EVeTPiL~~~~~Ga~------a~pF~t~~~~~-~~~~yL~~Spql~lk~llv-~g~--- 298 (580)
..|..|+++| .+.+.+.|..|++.....|-+ .+|.......+ +..+---+|--=++.+++. -||
T Consensus 13 ~aI~~iK~~F~~~L~~~LnL~rvsaPlfv~~~sGlnD~LnG~E~pV~F~~k~~~~~~~eiVhSLAKWKR~aL~~y~f~~g 92 (327)
T PRK05425 13 QAISFVKDFFERQLAKKLNLIRVSAPLFVRVGSGLNDNLNGVEKPVSFKVKDLPDATFEVVHSLAKWKRLALKRYGFSAG 92 (327)
T ss_pred HHHHHHHHHHHHHHHHhhCeeEecCCeEEcCCCCcccCCCCeecceEeeccCCCCCeeEEEeehHHHHHHHHHhcCCCCC
Confidence 3444455554 357999999999996543321 34443333333 3455577777777666553 244
Q ss_pred CceeEEecccc-cCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCce---eecCceeecCCCCcceee
Q 008040 299 EKIYEIGRIFR-NEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLT---IDYQGVEICLERPWRRET 374 (580)
Q Consensus 299 ~rVfeIg~~FR-~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~---~~~~~~~i~~~~pf~rit 374 (580)
+.+|.=....| +|+.|..|.-==-|-|||.....-+--++...+.++.+...+..... ..|... ..+.....=||
T Consensus 93 eGlytdMnAiR~dE~ld~~HS~yVDQWDWEkvI~~~~Rn~~~Lk~tV~~Iy~~ik~te~~~~~~y~~~-~~Lp~~i~Fit 171 (327)
T PRK05425 93 EGLYTDMNAIRPDEDLDNTHSVYVDQWDWEKVIGKEERNLDYLKETVEKIYKAIKATEKAVSKKYPLL-PFLPEEITFIT 171 (327)
T ss_pred ceeccCCccccCCcccCcccceEeccccHHHhCCccccCHHHHHHHHHHHHHHHHHHHHHHHHhCccc-ccCCCceEEec
Confidence 46776666655 58889999988888888887654333444555555554444432211 122111 11211222244
Q ss_pred HHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCCCcEEEEecCCCC--
Q 008040 375 MHNLVKEATGIDFNELGNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLVQPTFVLDYPIEI-- 452 (580)
Q Consensus 375 ~~eai~~~~g~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~~P~fV~dyP~~~-- 452 (580)
-.|....|-..+ .-+...+++++ + .-|||+.--..+
T Consensus 172 sqeL~~~YP~l~------~keRE~~i~ke---------------------------~---------gaVFi~~IG~~L~~ 209 (327)
T PRK05425 172 SQELEDRYPDLT------PKEREDAIAKE---------------------------Y---------GAVFLIGIGGKLSD 209 (327)
T ss_pred HHHHHHHCCCCC------HHHHHHHHHHH---------------------------h---------CcEEEEeccCcCCC
Confidence 444444442221 11111122222 1 237777633322
Q ss_pred -CccccccCCCCCceeEEEEEEc------CEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhhhhhhhhHHhhhcCCc
Q 008040 453 -SPLAKPHRRHAGLTERFELFIC------GREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAVSEKSSAQEKLKESDD 525 (580)
Q Consensus 453 -~pfa~~~~~~~~~~~rFdL~i~------G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~ 525 (580)
.|-..+.|+...|...=|+++- ..||.++..|.+ ++ ++.+|++. .+..
T Consensus 210 g~~Hd~RapDYDDW~LNGDilvw~~~l~~a~ELSSmGiRVd-~e----~L~~Qlk~--------------------~g~~ 264 (327)
T PRK05425 210 GKPHDGRAPDYDDWGLNGDILVWNPVLDDAFELSSMGIRVD-EE----ALKRQLKL--------------------TGDE 264 (327)
T ss_pred CCcCCCCCCCCcCcccCceEEEEccccCceeeecCcceEec-HH----HHHHHHHH--------------------cCCC
Confidence 1222333444455555565442 458888888876 43 45555433 2322
Q ss_pred cccccCCcHHHHHHHhcC-CCCccceeccHHHHHHHHcCCCCcccccc
Q 008040 526 HSYEVTLDDDFVTALEYG-MPPASGMGLGIDRLVMLLTNSASIRDVIA 572 (580)
Q Consensus 526 e~~~~~~d~~yl~al~yG-~PP~gG~GiGiDRLvMlltg~~sIrdvi~ 572 (580)
+.. ...+|+++ ..| +|||+|.|||+|||+|+|+|..+|.+|.+
T Consensus 265 dr~---~l~~h~~l-l~g~LP~TiGgGIGqsRL~M~LL~k~HIgEVq~ 308 (327)
T PRK05425 265 DRL---ELEWHQAL-LNGELPLTIGGGIGQSRLCMLLLQKAHIGEVQA 308 (327)
T ss_pred ccc---cCHHHHHH-HhCCCCCcccccccHHHHHHHHhccchhccccc
Confidence 222 34578888 778 99999999999999999999999999975
No 56
>TIGR00669 asnA aspartate--ammonia ligase, AsnA-type. The fact that the protein from the H. influenzae is more than 70 % identical to that from the spirochete Treponema pallidum, but less than 65 % identical to that from the closely related E. coli, strongly suggests lateral transfer.
Probab=99.23 E-value=1.1e-09 Score=111.66 Aligned_cols=271 Identities=18% Similarity=0.215 Sum_probs=150.5
Q ss_pred HHHHHHHHHHHHHHHH-----hCCCeeecCceeeccCCCC------CCCceeeccCCC-CeeEEEEecHHHHHHHHHh-c
Q 008040 230 FRKRAKIVSEIRKTVE-----SLGFVEVETPVLQGAAGGA------EARPFVTYHNSL-GRDLYLRIATELHLKRMLI-G 296 (580)
Q Consensus 230 ~~~Rs~i~~~iR~fl~-----~~gF~EVeTPiL~~~~~Ga------~a~pF~t~~~~~-~~~~yL~~Spql~lk~llv-~ 296 (580)
|+.-...|..|++||. +.+.++|..|.+.....|- ..+|........ +..+---+|--=++.+++. -
T Consensus 5 ~~~tq~aI~~iK~~F~~~L~~~L~L~rVsAPLfv~~~sGlnD~LnG~ErpV~f~~k~~~~~~~evVhSLAKWKR~aL~~y 84 (330)
T TIGR00669 5 FILQQQQISFVKSTFTQQLEERLGLIEVQGPILSQVGDGTQDNLSGREKAVQVKVKAIPDAQFEVVHSLAKWKRHTLARH 84 (330)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHhCeEEeccceEEcCCCCCcCCCCCeecceEeecCCCCCceeEEehhhHHHHHHHHHhc
Confidence 4445556677777774 5699999999998543332 135554333332 4556677777777665543 2
Q ss_pred cC---CceeEEeccccc-CC-CCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHhCCce---eecCceeecCCC
Q 008040 297 GF---EKIYEIGRIFRN-EG-LSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVNGKLT---IDYQGVEICLER 368 (580)
Q Consensus 297 g~---~rVfeIg~~FR~-E~-~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~~~~~---~~~~~~~i~~~~ 368 (580)
|| +.+|.=.+.-|. |+ .|..|.-==-|-|||.....-+--++...+.++.+...+..... ..| +....+..
T Consensus 85 ~f~~geGlytdMnAiR~De~~ldn~HS~yVDQWDWEkvI~~~~R~~~~Lk~tV~~Iy~~ik~te~~~~~~y-~l~~~Lp~ 163 (330)
T TIGR00669 85 DFSAGEGLFVHMKALRPDEDRLDPLHSVYVDQWDWEKVMPDGERNFAYLKSTVEAIYAAIRATEAAVSERF-GLAPFLPD 163 (330)
T ss_pred CCCCCceeeeccccccCCccccCccceeeeccccHHHhcCcccccHHHHHHHHHHHHHHHHHHHHHHHHhc-CccccCCC
Confidence 55 568886666664 77 78999887788888887654333444444444444444332211 122 11111212
Q ss_pred CcceeeHHHHHHHHhCCCCCCCCCCHHHHHHHHHHHcCCCCCCccccccCCCCcHHhHHHHHHHHHhcCCCCCcEEEEec
Q 008040 369 PWRRETMHNLVKEATGIDFNELGNDLKVAKETTLRALGDGLENKDKFVIESSPSVGNLLNEVFEIVVEPKLVQPTFVLDY 448 (580)
Q Consensus 369 pf~rit~~eai~~~~g~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~lg~~l~~~~~~~ve~~l~~P~fV~dy 448 (580)
...=||-.|....|-... .-+...+++++ +| -|||+.-
T Consensus 164 ~I~FitsqeL~~~YP~lt------~keRE~~i~ke-~g-----------------------------------aVFi~~I 201 (330)
T TIGR00669 164 QIHFVHSEELVSRYPDLD------SKGRERAICKE-LG-----------------------------------AVFLIGI 201 (330)
T ss_pred ceEEecHHHHHHHCCCCC------HHHHHHHHHHH-hC-----------------------------------cEEEEec
Confidence 222244455555543221 11222223333 22 3566542
Q ss_pred CCCCC---ccccccCCCCCce---------eEEEEEE------cCEeecccccccCCHHHHHHHHHHHHHhhhhhhHhhh
Q 008040 449 PIEIS---PLAKPHRRHAGLT---------ERFELFI------CGREMANAFSELTDPLDQRARLEEQVRQHNEKRAAAV 510 (580)
Q Consensus 449 P~~~~---pfa~~~~~~~~~~---------~rFdL~i------~G~Ei~ng~~el~dp~~q~~rf~~~~~~~~~~r~~~~ 510 (580)
--.++ |--.+.|+...|. ..=|+++ ...||++-..|.+ ++ .+..|++.
T Consensus 202 G~~L~~G~~Hd~RApDYDDW~t~~~~~~~gLNGDilvw~~vl~~a~ElSSMGIRVd-~~----~L~~Qlk~--------- 267 (330)
T TIGR00669 202 GGKLSDGKPHDVRAPDYDDWTTPSELGYKGLNGDILVWNPVLGDAFELSSMGIRVD-ED----ALRHQLAL--------- 267 (330)
T ss_pred cCcCCCCCcCCCCCCCcccccccccccccCcCceEEEEchhcCceeeeecceeEEC-HH----HHHHHHHH---------
Confidence 22211 1111112222222 3344433 2458888888864 32 35555543
Q ss_pred hhhhhhHHhhhcCCccccccCCcHHHHHHHhcC-CCCccceeccHHHHHHHHcCCCCcccccc
Q 008040 511 SEKSSAQEKLKESDDHSYEVTLDDDFVTALEYG-MPPASGMGLGIDRLVMLLTNSASIRDVIA 572 (580)
Q Consensus 511 ~~~~~~~~~~~~~~~e~~~~~~d~~yl~al~yG-~PP~gG~GiGiDRLvMlltg~~sIrdvi~ 572 (580)
.+..+.. ...||+++ ..| +|||+|.|||+|||+|+|+|..+|.+|.+
T Consensus 268 -----------~g~~dr~---~l~~h~el-l~g~LP~TiGGGIGqsRL~MfLL~k~HIgEVQ~ 315 (330)
T TIGR00669 268 -----------TGDEDRL---ELEWHQDL-LNGELPQTIGGGIGQSRLAMLLLQLKHIGEVQA 315 (330)
T ss_pred -----------cCCCccc---cCHHHHHH-HcCCCCccccccccHHHHHHHHhccccccceee
Confidence 2211222 24578888 778 99999999999999999999999999975
No 57
>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain
Probab=99.21 E-value=2.8e-10 Score=123.69 Aligned_cols=47 Identities=23% Similarity=0.499 Sum_probs=38.4
Q ss_pred CceeEEecccccCCCCCCCCccceeeeeEeecC--CHHHHHHHHHHHHH
Q 008040 299 EKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYS--DYQSMMNITEEIVT 345 (580)
Q Consensus 299 ~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~--d~~d~m~l~E~li~ 345 (580)
-|+|.||+|||+|.+|++|+|||.|+|--.... ++.+++.+++.+++
T Consensus 343 ~k~fsigrVfR~d~iDatH~~eFhQ~EG~vvd~~~t~~~L~g~l~~f~~ 391 (492)
T PLN02853 343 KRYFSIDRVFRNEAVDRTHLAEFHQVEGLVCDRGLTLGDLIGVLEDFFS 391 (492)
T ss_pred cEEEeccceecCCCCCcccCccceeEEEEEEeCCCCHHHHHHHHHHHHH
Confidence 399999999999999999999999999876643 56777766665553
No 58
>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional
Probab=99.21 E-value=2.9e-10 Score=124.16 Aligned_cols=34 Identities=35% Similarity=0.610 Sum_probs=31.6
Q ss_pred CceeEEecccccCCCCCCCCccceeeeeEeecCC
Q 008040 299 EKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSD 332 (580)
Q Consensus 299 ~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d 332 (580)
-|+|.||+|||+|..|.+|+|||+|+|......+
T Consensus 358 ~k~fsigrVfR~d~~DatH~~eFhQ~Eg~vi~~~ 391 (494)
T PTZ00326 358 KKYFSIDRVFRNETLDATHLAEFHQVEGFVIDRN 391 (494)
T ss_pred ceEEecCCEecCCCCCCCcCceeEEEEEEEEeCC
Confidence 4999999999999999999999999999988654
No 59
>PF01336 tRNA_anti-codon: OB-fold nucleic acid binding domain; InterPro: IPR004365 The OB-fold (oligonucleotide/oligosaccharide-binding fold) is found in all three kingdoms and its common architecture presents a binding face that has adapted to bind different ligands. The OB-fold is a five/six-stranded closed beta-barrel formed by 70-80 amino acid residues. The strands are connected by loops of varying length which form the functional appendages of the protein. The majority of OB-fold proteins use the same face for ligand binding or as an active site. Different OB-fold proteins use this 'fold-related binding face' to, variously, bind oligosaccharides, oligonucleotides, proteins, metal ions and catalytic substrates. This entry contains OB-fold domains that bind to nucleic acids []. It includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl-tRNA synthetases (See IPR004364 from INTERPRO). Aminoacyl-tRNA synthetases catalyse the addition of an amino acid to the appropriate tRNA molecule 6.1.1 from EC. This domain is found in RecG helicase involved in DNA repair. Replication factor A is a heterotrimeric complex, that contains a subunit in this family [, ]. This domain is also found at the C terminus of bacterial DNA polymerase III alpha chain.; GO: 0003676 nucleic acid binding; PDB: 1BBU_A 1KRS_A 1BBW_A 1KRT_A 1EQR_B 1IL2_B 1C0A_A 3KFU_A 1EOV_A 1ASY_A ....
Probab=99.14 E-value=8.3e-10 Score=90.18 Aligned_cols=74 Identities=39% Similarity=0.652 Sum_probs=63.7
Q ss_pred EEEEEEEEeE-ecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEEEc
Q 008040 114 VSVAGRVVAR-RAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFVIL 192 (580)
Q Consensus 114 V~v~GrV~~~-R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~vl 192 (580)
|+|+|||.++ |..+++.|++|.|++|.+|+++..+ .+......|..||+|.|+|.+...+.++++|.++++++|
T Consensus 1 V~v~G~V~~~~~~~~~~~~~~l~D~tg~i~~~~~~~-----~~~~~~~~l~~g~~v~v~G~v~~~~~~~~~l~~~~i~~l 75 (75)
T PF01336_consen 1 VTVEGRVTSIRRSGGKIVFFTLEDGTGSIQVVFFNE-----EYERFREKLKEGDIVRVRGKVKRYNGGELELIVPKIEIL 75 (75)
T ss_dssp EEEEEEEEEEEEEETTEEEEEEEETTEEEEEEEETH-----HHHHHHHTS-TTSEEEEEEEEEEETTSSEEEEEEEEEEE
T ss_pred CEEEEEEEEEEcCCCCEEEEEEEECCccEEEEEccH-----HhhHHhhcCCCCeEEEEEEEEEEECCccEEEEECEEEEC
Confidence 7899999999 7777899999999999999999872 233344557999999999999999888999999999876
No 60
>COG0016 PheS Phenylalanyl-tRNA synthetase alpha subunit [Translation, ribosomal structure and biogenesis]
Probab=99.13 E-value=6.3e-10 Score=115.84 Aligned_cols=112 Identities=28% Similarity=0.425 Sum_probs=70.5
Q ss_pred HHHHHHHHHHHHhCCCeeecCceeeccCCCCCC------CceeeccC--CCCee---EEEE--ecHHHHHHHHHhcc---
Q 008040 234 AKIVSEIRKTVESLGFVEVETPVLQGAAGGAEA------RPFVTYHN--SLGRD---LYLR--IATELHLKRMLIGG--- 297 (580)
Q Consensus 234 s~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a------~pF~t~~~--~~~~~---~yL~--~Spql~lk~llv~g--- 297 (580)
..++..|+++|.+.||.|++.|-+.+..-.-.| .|.-..++ |++.+ .-|| +||=.- |.|...
T Consensus 114 ~~~~e~i~~iF~~mGF~~~~gp~IE~d~~NFDaLn~P~dHPARdmqDTFy~~~~~~~~lLRTHTs~vq~--R~l~~~~~~ 191 (335)
T COG0016 114 TQTIEEIEDIFLGMGFTEVEGPEIETDFYNFDALNIPQDHPARDMQDTFYLKDDREKLLLRTHTSPVQA--RTLAENAKI 191 (335)
T ss_pred HHHHHHHHHHHHHcCceeccCCcccccccchhhhcCCCCCCcccccceEEEcCCCCceeecccCcHhhH--HHHHhCCCC
Confidence 357788999999999999999977764211011 11111111 12211 2344 333221 122332
Q ss_pred CCceeEEecccccCCCCCCCCccceeeeeEeec--CCHHHHHHHHHHHHHHH
Q 008040 298 FEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAY--SDYQSMMNITEEIVTHC 347 (580)
Q Consensus 298 ~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~--~d~~d~m~l~E~li~~~ 347 (580)
--|+|.+|+|||+|..|.+|+|||.|+|--... .+..+++-+++++++.+
T Consensus 192 P~k~~~~grvyR~D~~DaTHs~~FhQiEGlvvd~~~s~~~Lkg~L~~f~~~~ 243 (335)
T COG0016 192 PIKIFSPGRVYRNDTVDATHSPEFHQIEGLVVDKNISFADLKGTLEEFAKKF 243 (335)
T ss_pred CceEecccceecCCCCCcccchheeeeEEEEEeCCccHHHHHHHHHHHHHHh
Confidence 459999999999999999999999999964443 34667666666666444
No 61
>TIGR00468 pheS phenylalanyl-tRNA synthetase, alpha subunit. Most phenylalanyl-tRNA synthetases are heterodimeric, with 2 alpha (pheS) and 2 beta (pheT) subunits. This model describes the alpha subunit, which shows some similarity to class II aminoacyl-tRNA ligases. Mitochondrial phenylalanyl-tRNA synthetase is a single polypeptide chain, active as a monomer, and similar to this chain rather than to the beta chain, but excluded from this model. An interesting feature of the alignment of all sequences captured by this model is a deep split between non-spirochete bacterial examples and all other examples; supporting this split is a relative deletion of about 50 residues in the former set between two motifs well conserved throughout the alignment.
Probab=98.99 E-value=4.9e-09 Score=108.96 Aligned_cols=111 Identities=25% Similarity=0.405 Sum_probs=71.0
Q ss_pred HHHHHHHHHHHHhCCCeeecCceeeccCCCCCC------CceeeccC--CCCeeEEEEecHHHHHHHHHhccC---Ccee
Q 008040 234 AKIVSEIRKTVESLGFVEVETPVLQGAAGGAEA------RPFVTYHN--SLGRDLYLRIATELHLKRMLIGGF---EKIY 302 (580)
Q Consensus 234 s~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a------~pF~t~~~--~~~~~~yL~~Spql~lk~llv~g~---~rVf 302 (580)
..+.+.||++|...||.||.||.+.+......+ .|-....+ ++....+||+|.=--+=+.+.... -|+|
T Consensus 75 ~~~~~~ir~~l~~~Gf~Ev~~~~~~s~~~~fd~l~~~~~hpar~~~d~~~l~d~~vLRtsl~p~ll~~l~~N~~~pirlF 154 (294)
T TIGR00468 75 TRVIDEIRDIFLGLGFTEEKGPEVETDFWNFDALNIPQDHPARDMQDTFYIKDRLLLRTHTTAVQLRTMEENEKPPIRIF 154 (294)
T ss_pred HHHHHHHHHHHHHCCCEEeeCCceeccHHHHHHhCCCCCCcchhhccceeecCCcceecccHHHHHHHHHhcCCCCceEE
Confidence 356677899999999999999999865110000 00000001 112345677654333334445444 4999
Q ss_pred EEecccccCCCCCCCCccceeeeeEeecC--CHHHHHHHHHHHH
Q 008040 303 EIGRIFRNEGLSTRHNPEFTTIEMYEAYS--DYQSMMNITEEIV 344 (580)
Q Consensus 303 eIg~~FR~E~~~~rH~pEFtmlE~e~a~~--d~~d~m~l~E~li 344 (580)
|||+|||++..+.+|+|||+||+.-+... |+.|+..++|.++
T Consensus 155 EiGrVfr~d~~d~~~~pef~ql~gl~~~~~~~f~dLKg~le~ll 198 (294)
T TIGR00468 155 SPGRVFRNDTVDATHLPEFHQVEGLVIDKNVSFTNLKGFLEEFL 198 (294)
T ss_pred EecceEEcCCCCCccCChhhEEEEEEECCCCCHHHHHHHHHHHH
Confidence 99999999988889999999999876532 4555555555444
No 62
>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional
Probab=98.92 E-value=3.5e-08 Score=109.63 Aligned_cols=115 Identities=23% Similarity=0.403 Sum_probs=73.2
Q ss_pred HHHHHHHHHHHHHHHHhCCCeeecCceeecc---------C---------------CCCCCC-c--e-----eecc----
Q 008040 230 FRKRAKIVSEIRKTVESLGFVEVETPVLQGA---------A---------------GGAEAR-P--F-----VTYH---- 273 (580)
Q Consensus 230 ~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~---------~---------------~Ga~a~-p--F-----~t~~---- 273 (580)
...+..+++.||+.|...||.||+||++.+. | .|+... | . .+|.
T Consensus 232 ~~~~~~~~~~~~~~f~~~Gf~e~~~p~vE~~~~nfd~lf~p~~hpaR~~~dtf~~~~~~~~~~~~~~~~~v~~~he~g~~ 311 (489)
T PRK04172 232 KHPYREFIDEVRDILVEMGFEEMKGPLVETEFWNFDALFQPQDHPAREMQDTFYLKYPGIGDLPEELVERVKEVHEHGGD 311 (489)
T ss_pred CChHHHHHHHHHHHHHHCCCEEeeCCeeeecCcccccccCCCCCCCCCccceEEECCcccccCcHHHHHHHHHHHhccCC
Confidence 3457889999999999999999999999853 0 011000 0 0 0000
Q ss_pred -----------CCCCeeEEEEecHHHHHHHHHhc-cC--CceeEEecccccCCCCCCCCccceeeeeEeecC--CHHHHH
Q 008040 274 -----------NSLGRDLYLRIATELHLKRMLIG-GF--EKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYS--DYQSMM 337 (580)
Q Consensus 274 -----------~~~~~~~yL~~Spql~lk~llv~-g~--~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~--d~~d~m 337 (580)
...+..+-||...--.+-++++. +. -|+||||+|||+|..+..|++||+|+++.+... ++.+++
T Consensus 312 ~~~~~~~y~~~~~~~~~~~LR~~~T~~~~r~l~~~~~~p~rlFeiGrVFR~e~~d~~~l~Ef~ql~~~i~G~~~~f~elk 391 (489)
T PRK04172 312 TGSRGWGYKWDEDIAKRLVLRTHTTALSARYLASRPEPPQKYFSIGRVFRPDTIDATHLPEFYQLEGIVMGEDVSFRDLL 391 (489)
T ss_pred CCCccccCCcchhhhhccccccCChHHHHHHHHhcCCCCeEEEEecceEcCCCCCcccCCchheEEEEEEeCCCCHHHHH
Confidence 00123455664333333333331 22 399999999999999999999999999999875 344444
Q ss_pred HHHHHHH
Q 008040 338 NITEEIV 344 (580)
Q Consensus 338 ~l~E~li 344 (580)
.++++++
T Consensus 392 g~l~~ll 398 (489)
T PRK04172 392 GILKEFY 398 (489)
T ss_pred HHHHHHH
Confidence 4444444
No 63
>PLN02788 phenylalanine-tRNA synthetase
Probab=98.85 E-value=6.6e-08 Score=103.60 Aligned_cols=95 Identities=16% Similarity=0.325 Sum_probs=62.4
Q ss_pred HHHHHHHHHHHHhC---CCeeec--Cceeecc--------CCCCCCCceeeccCCCCeeEEEE--ecHHHHHHHHHhccC
Q 008040 234 AKIVSEIRKTVESL---GFVEVE--TPVLQGA--------AGGAEARPFVTYHNSLGRDLYLR--IATELHLKRMLIGGF 298 (580)
Q Consensus 234 s~i~~~iR~fl~~~---gF~EVe--TPiL~~~--------~~Ga~a~pF~t~~~~~~~~~yL~--~Spql~lk~llv~g~ 298 (580)
+.++..|+++|.+. ||.+++ .|+.+.. |..--||.-. .+-|++...-|| +|+-. -++|..+-
T Consensus 71 ~~~~~~i~~~f~~~~~~gf~~~~~~~~iv~~~~NFD~L~~P~dHPaR~~~-DTfy~~~~~lLRTHTSa~q--~~~l~~~~ 147 (402)
T PLN02788 71 GILKNAIYDYFDENYSNKFKKFDDLSPIVSTKQNFDDVLVPPDHVSRSYN-DTYYVDAQTVLRCHTSAHQ--AELLRAGH 147 (402)
T ss_pred HHHHHHHHHHHhhcccCCcEEecCCCCccchhhhhhhhCCCCCCCccCcc-ceEEecCCccccCCCcHHH--HHHHHhCC
Confidence 45667788899886 999999 5655431 1111122110 011334455566 34322 23444567
Q ss_pred CceeEEecccccCCCCCCCCccceeeeeEeecC
Q 008040 299 EKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYS 331 (580)
Q Consensus 299 ~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~ 331 (580)
.|++.+|+|||++.+|++|.|+|.|+|.-+.+.
T Consensus 148 ~~~~~~g~VyRrD~iD~tH~p~FhQ~EG~~v~~ 180 (402)
T PLN02788 148 THFLVTGDVYRRDSIDATHYPVFHQMEGVRVFS 180 (402)
T ss_pred CcEEEEeeEeecCCCCcccCccceeEEEEEEec
Confidence 899999999999999999999999999988753
No 64
>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=98.70 E-value=1.1e-07 Score=94.84 Aligned_cols=108 Identities=29% Similarity=0.446 Sum_probs=78.6
Q ss_pred HHHHHHHHHHHhCCCeeecCceeeccCCCCCC-------------CceeeccCCCCeeEEEEec--HHHHHHHHHhc--c
Q 008040 235 KIVSEIRKTVESLGFVEVETPVLQGAAGGAEA-------------RPFVTYHNSLGRDLYLRIA--TELHLKRMLIG--G 297 (580)
Q Consensus 235 ~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a-------------~pF~t~~~~~~~~~yL~~S--pql~lk~llv~--g 297 (580)
++.+.+|++|...||.||.|+.+++....... .++.. .|-. .-+||.| |.|. ..+.- .
T Consensus 5 ~~~~~ir~~L~~~Gf~Ev~tys~~~~~~~~~~~~~~~~~~~~~~~~~v~l-~NP~--~~~LR~sLlp~LL--~~l~~N~~ 79 (218)
T cd00496 5 KVIEEIEDIFVSMGFTEVEGPEVETDFYNFDALNIPQDHPARDMQDTFYI-NDPA--RLLLRTHTSAVQA--RALAKLKP 79 (218)
T ss_pred HHHHHHHHHHHHCCCEEEeCCcccccchhhhhcCCCCCCcccccCceEEE-CCCc--eEEEeccCcHHHH--HHHHhcCC
Confidence 45677899999999999999999865211000 01111 1211 3578865 4553 33444 4
Q ss_pred CCceeEEecccccCCCCCCCCccceeeeeEeecC--CHHHHHHHHHHHHHHH
Q 008040 298 FEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYS--DYQSMMNITEEIVTHC 347 (580)
Q Consensus 298 ~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~--d~~d~m~l~E~li~~~ 347 (580)
--|+||||+|||++..+..|+|||+||++.+++. |+.|++.++|.++..+
T Consensus 80 ~~~lFEiG~Vf~~~~~~~~~~~E~~~l~~~~~g~~~df~dlkg~ve~ll~~l 131 (218)
T cd00496 80 PIRIFSIGRVYRNDEIDATHLPEFHQIEGLVVDKGLTFADLKGTLEEFAKEL 131 (218)
T ss_pred CeeEEEEcCeEECCCCCCCcCCccEEEEEEEECCCCCHHHHHHHHHHHHHHh
Confidence 5699999999999877778999999999999987 8999999999998543
No 65
>PF00587 tRNA-synt_2b: tRNA synthetase class II core domain (G, H, P, S and T) This Prosite entry contains all class II enzymes. seryl tRNA synthetase structure; InterPro: IPR002314 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. This domain includes the glycine, histidine, proline, threonine and serine tRNA synthetases.; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 3UH0_A 3UGT_C 3UGQ_A 1B76_B 1GGM_B 1ATI_A 1ADY_C 1ADJ_C 2I4O_A 2I4M_B ....
Probab=98.63 E-value=1.3e-07 Score=90.58 Aligned_cols=116 Identities=26% Similarity=0.323 Sum_probs=79.4
Q ss_pred HHHHHHHHHHHHHH-hCCCeeecCceeeccC----CCC----CCCceeeccCCCCeeEEEEecHHHHHHHHHhcc-----
Q 008040 232 KRAKIVSEIRKTVE-SLGFVEVETPVLQGAA----GGA----EARPFVTYHNSLGRDLYLRIATELHLKRMLIGG----- 297 (580)
Q Consensus 232 ~Rs~i~~~iR~fl~-~~gF~EVeTPiL~~~~----~Ga----~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g----- 297 (580)
++.+|++.+++.+. +.||.||.||+|.+.. .|. ....|.+ .+..+.+++|+.+.+..+=.++...
T Consensus 1 l~~~l~~~~~~~~~~~~G~~ev~~P~l~~~~~~~~sg~~~~~~~~~~~~-~~~~~~~~~L~pt~~~~~~~~~~~~~~~~~ 79 (173)
T PF00587_consen 1 LRNALERFIREEFVLKFGFQEVDTPILIPSEVWEKSGHWDNFSDEMFKV-KDRGDEEYCLRPTSEPGIYSLFKNEIRSSY 79 (173)
T ss_dssp HHHHHHHHHHHHHHHHTTEEEEB--SEEEHHHHHHHSHHHHHGGGSEEE-EETTTEEEEE-SSSHHHHHHHHHHHEEBHG
T ss_pred CHHHHHHHHHHHhHHhcCCEEEECCeEEehHHhhhccccccccCCeeee-eecccccEEeccccccceeeeecceeeecc
Confidence 47899999999999 9999999999999741 221 1123332 1223467999988766554443321
Q ss_pred --C-CceeEEecccccCC-CC--CCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHH
Q 008040 298 --F-EKIYEIGRIFRNEG-LS--TRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCAL 349 (580)
Q Consensus 298 --~-~rVfeIg~~FR~E~-~~--~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~ 349 (580)
+ =|+|+||+|||+|. .. -.++-||+|.|++....+ ++..+..++++..+..
T Consensus 80 ~~LP~~~~~~g~~fR~E~~~~~gl~R~reF~~~e~~~f~~~-~~~~~~~~~~~~~~~~ 136 (173)
T PF00587_consen 80 RDLPLKLYQIGTCFRNEARPTRGLFRLREFTMDEMHIFCTP-EQSEEEFEELLELYKE 136 (173)
T ss_dssp GGSSEEEEEEEEEEBSSSSSBSTTTS-SEEEEEEEEEEESS-HHHHHHHHHHHHHHHH
T ss_pred ccCCeEEeecccccccccccccccceeeEeeeeceEEEeCC-cccHHHHHHHHHHHHH
Confidence 2 28999999999994 22 489999999999998877 7777777777655443
No 66
>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=98.45 E-value=8.4e-07 Score=88.62 Aligned_cols=100 Identities=20% Similarity=0.253 Sum_probs=71.9
Q ss_pred HHHHHHHHHHHHHHHhCCCeeecCceeecc----CCCCCCCc-----eeeccCCC----CeeEEEEecHHHHHHHHHhc-
Q 008040 231 RKRAKIVSEIRKTVESLGFVEVETPVLQGA----AGGAEARP-----FVTYHNSL----GRDLYLRIATELHLKRMLIG- 296 (580)
Q Consensus 231 ~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~~Ga~a~p-----F~t~~~~~----~~~~yL~~Spql~lk~llv~- 296 (580)
+++..|.+.+++.|.+.||.||.||+|.+. .+| .... |... +.- +..++||...+...=++...
T Consensus 3 ~~~~~l~~~~~~~~~~~G~~ei~~P~l~~~~~~~~~~-~~~~~~~~~~~~~-~~~~~~~~~~~~LrP~~~~~i~~~~~~~ 80 (235)
T cd00670 3 ALWRALERFLDDRMAEYGYQEILFPFLAPTVLFFKGG-HLDGYRKEMYTFE-DKGRELRDTDLVLRPAACEPIYQIFSGE 80 (235)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEECCeEcCHHHHhhcC-CcccchhhcCeec-cCcccccCCeEEEecCCCHHHHHHHhcc
Confidence 578899999999999999999999999964 233 1112 2211 111 46789997666554444332
Q ss_pred -----cC-CceeEEecccccCCCC---CCCCccceeeeeEeecCC
Q 008040 297 -----GF-EKIYEIGRIFRNEGLS---TRHNPEFTTIEMYEAYSD 332 (580)
Q Consensus 297 -----g~-~rVfeIg~~FR~E~~~---~rH~pEFtmlE~e~a~~d 332 (580)
.+ -|+|++|+|||+|... -.+.-||+|.|++....+
T Consensus 81 ~~~~~~lP~r~~~~g~~fR~E~~~~~gl~R~reF~q~e~~~~~~~ 125 (235)
T cd00670 81 ILSYRALPLRLDQIGPCFRHEPSGRRGLMRVREFRQVEYVVFGEP 125 (235)
T ss_pred CccchhcCeeeeeecccccCCCCCCCCChhheeeeeceEEEEcCH
Confidence 12 2899999999999876 357789999999986554
No 67
>cd00773 HisRS-like_core Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. This domain is also found at the C-terminus of eukaryotic GCN2 protein kinase and at the N-terminus of the ATP phosphoribosyltransferase accessory subunit, HisZ. HisZ along with HisG catalyze the first reaction in histidine biosynthesis. HisZ is found only in a subset of bacteria and differs from HisRS in lacking a C-terminal anti-codon binding domain.
Probab=98.44 E-value=1.5e-06 Score=88.82 Aligned_cols=101 Identities=28% Similarity=0.349 Sum_probs=73.7
Q ss_pred HHHHHHHHHHHHHHHhCCCeeecCceeeccC----C-CC--CCCceeeccCCCCeeEEEEecHHHHHHHHHhc------c
Q 008040 231 RKRAKIVSEIRKTVESLGFVEVETPVLQGAA----G-GA--EARPFVTYHNSLGRDLYLRIATELHLKRMLIG------G 297 (580)
Q Consensus 231 ~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~----~-Ga--~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~------g 297 (580)
+.|..|.+.+++.|.++||.||.||+|.+.. . |. ....|.. .+..|..+.||.-.....-++++. .
T Consensus 3 ~~~~~l~~~l~~~f~~~Gy~~v~tP~le~~~~~~~~~~~~~~~~~~~~-~d~~g~~l~LRpd~T~~iaR~~a~~~~~~~~ 81 (261)
T cd00773 3 ALRRYIEDTLREVFERYGYEEIDTPVFEYTELFLRKSGDEVSKEMYRF-KDKGGRDLALRPDLTAPVARAVAENLLSLPL 81 (261)
T ss_pred HHHHHHHHHHHHHHHHcCCEEeeccceeeHHHhcccccccccceEEEE-ECCCCCEEEeCCCCcHHHHHHHHhcCccCCC
Confidence 6788999999999999999999999998641 1 11 1123332 122367788995444444444332 2
Q ss_pred CCceeEEecccccCCCCCCCCccceeeeeEeecCC
Q 008040 298 FEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSD 332 (580)
Q Consensus 298 ~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d 332 (580)
--|+|++|+|||+|.....|..||+|+++|+-..+
T Consensus 82 p~k~~y~g~vfR~e~~~~g~~re~~Q~g~Eiig~~ 116 (261)
T cd00773 82 PLKLYYIGPVFRYERPQKGRYREFYQVGVEIIGSD 116 (261)
T ss_pred CeEEEEEcCEEecCCCCCCCccceEEeceeeeCCC
Confidence 24999999999999988889999999999987653
No 68
>TIGR00470 sepS O-phosphoseryl-tRNA(Cys) synthetase. This family of archaeal proteins resembles known phenylalanyl-tRNA synthetase alpha chains. Recently, it was shown to act in a proposed pathway of tRNA(Cys) indirect aminoacylation, resulting in Cys biosynthesis from O-phosphoserine, in certain archaea. It charges tRNA(Cys) with O-phosphoserine. The pscS gene product converts the phosphoserine to Cys.
Probab=98.42 E-value=1.8e-06 Score=93.03 Aligned_cols=49 Identities=16% Similarity=0.244 Sum_probs=43.0
Q ss_pred CceeEEecccccCC-CCCCCCccceeeeeEeecC--CHHHHHHHHHHHHHHH
Q 008040 299 EKIYEIGRIFRNEG-LSTRHNPEFTTIEMYEAYS--DYQSMMNITEEIVTHC 347 (580)
Q Consensus 299 ~rVfeIg~~FR~E~-~~~rH~pEFtmlE~e~a~~--d~~d~m~l~E~li~~~ 347 (580)
-|+|+||+|||+|. .|++|+++|.|+|.=++.. ++.|++.+++.|++++
T Consensus 208 iRIFsIGRVfRrD~~~DaTHl~eFhQlEGLVVdedVSf~DLKgvLe~LLr~L 259 (533)
T TIGR00470 208 LKLFSIDRCFRREQREDRSHLMTYHSASCVVVDEEVSVDDGKAVAEGLLAQF 259 (533)
T ss_pred eEEEeeeeEEecCCCCCCccCceeeeEEEEEECCCCCHHHHHHHHHHHHHHh
Confidence 59999999999995 7899999999999988865 5899999888888665
No 69
>TIGR00469 pheS_mito phenylalanyl-tRNA synthetase, mitochondrial. Unlike all other known phenylalanyl-tRNA synthetases, the mitochondrial form demonstrated from yeast is monomeric. It is similar to but longer than the alpha subunit (PheS) of the alpha 2 beta 2 form found in Bacteria, Archaea, and eukaryotes, and shares the characteristic motifs of class II aminoacyl-tRNA ligases. This alignment models the experimental example from Saccharomyces cerevisiae (designated MSF1) and its orthologs from other eukaryotic species.
Probab=98.41 E-value=3.2e-06 Score=91.66 Aligned_cols=94 Identities=17% Similarity=0.238 Sum_probs=56.8
Q ss_pred HHHHHHHHHHHhC--------CCeeecC--ceeecc--------CCCCCCCceeeccCCCCeeEEEE--ecHHHHHHHHH
Q 008040 235 KIVSEIRKTVESL--------GFVEVET--PVLQGA--------AGGAEARPFVTYHNSLGRDLYLR--IATELHLKRML 294 (580)
Q Consensus 235 ~i~~~iR~fl~~~--------gF~EVeT--PiL~~~--------~~Ga~a~pF~t~~~~~~~~~yL~--~Spql~lk~ll 294 (580)
.+...|.++|.+. ||-=++. |+-+.. |..--||.-. .+-|++...-|| +|+ +--++|
T Consensus 46 ~~~~~I~~~F~~~~~~~~~~~gf~v~~~~~Pvvt~~~NFD~Ln~P~dHPaR~~~-DT~Yi~~~~lLRTHTSa--~q~~~~ 122 (460)
T TIGR00469 46 IIRDLIEKKFNGADNNQRGNPLFKIFDNFKPVVTTMENFDNLGFPADHPGRQKS-DCYYINEQHLLRAHTSA--HELECF 122 (460)
T ss_pred HHHHHHHHHHHhhhcccccCCCeEEeeCCCCccchhhhhhhcCCCCCCcccCcc-cceEecCCceeCCCCcH--HHHHHH
Confidence 3445566677665 7866666 844321 1111122111 112455666677 344 222344
Q ss_pred hccCC-------ceeEEecccccCCCCCCCCccceeeeeEeecC
Q 008040 295 IGGFE-------KIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYS 331 (580)
Q Consensus 295 v~g~~-------rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~ 331 (580)
-.+.+ ++...|+|||.+.+|++|.|-|.|+|--+.+.
T Consensus 123 ~~~~~~~~~~~~~~i~~G~VYRrD~iDatH~p~FHQ~EG~~v~~ 166 (460)
T TIGR00469 123 QGGLDDSDNIKSGFLISADVYRRDEIDKTHYPVFHQADGAAIRK 166 (460)
T ss_pred HhccccCCCcceeeEeecceeeCCCCccccCccceeeEEEEEec
Confidence 44543 38899999999999999999999999655553
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=98.38 E-value=2.8e-06 Score=87.13 Aligned_cols=119 Identities=18% Similarity=0.124 Sum_probs=85.4
Q ss_pred HHHHHHHHHHHHHHHHHhCCCeeecCceeecc----CCCCCC-----CceeeccCC---CCeeEEEEecHHHHHHHHHhc
Q 008040 229 VFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----AGGAEA-----RPFVTYHNS---LGRDLYLRIATELHLKRMLIG 296 (580)
Q Consensus 229 ~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~~Ga~a-----~pF~t~~~~---~~~~~yL~~Spql~lk~llv~ 296 (580)
-.+++.+|.+.+++.+.+.||.||.||+|.+. ..|... .-|...... .+.+++|+...|..+=.+...
T Consensus 31 g~~i~~~I~~~i~~~~~~~G~~ev~~P~l~~~~~~~~~g~~~~~~~~e~~~~~~~~~~~~~~~l~LrPt~e~~~~~~~~~ 110 (264)
T cd00772 31 AKAILDKIENVLDKMFKEHGAQNALFPFFILASFLEKEAEHDEGFSKELAVFKDAGDEELEEDFALRPTLEENIGEIAAK 110 (264)
T ss_pred HHHHHHHHHHHHHHHHHHcCCeEEECCeeccHHHHhhcCCcccccCccceEEEeCCCCccCceEEECCCCCHHHHHHHHh
Confidence 35678999999999999999999999999863 233221 123322111 126899997776544443322
Q ss_pred ------cCC-ceeEEecccccCCCCCC---CCccceeeeeEeecCCHHHHHHHHHHHHHHH
Q 008040 297 ------GFE-KIYEIGRIFRNEGLSTR---HNPEFTTIEMYEAYSDYQSMMNITEEIVTHC 347 (580)
Q Consensus 297 ------g~~-rVfeIg~~FR~E~~~~r---H~pEFtmlE~e~a~~d~~d~m~l~E~li~~~ 347 (580)
.+. |+|++++|||+|..+++ +.-||+|.|.+....+.++..+.++.++...
T Consensus 111 ~i~s~~~LPlrl~~~~~~fR~E~r~~~Gl~R~reF~~~e~~~~~~~~e~a~~e~~~~~~~~ 171 (264)
T cd00772 111 FIKSWKDLPQHLNQIGNKFRDEIRPRFGFLRAREFIMKDGHSAHADAEEADEEFLNMLSAY 171 (264)
T ss_pred hhhhhhccCeeEEEEeCeEeCcCCCCCCcceeeEEEEeeeEEecCCHHHHHHHHHHHHHHH
Confidence 222 99999999999975543 7889999999987789888888888777443
No 71
>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=98.30 E-value=6.9e-07 Score=91.12 Aligned_cols=96 Identities=27% Similarity=0.266 Sum_probs=70.4
Q ss_pred HHHHHHHHHHHHHHHHHhCC--CeeecCceeeccCCCCCCCceeecc---CCCCeeEEEEecHH----HHHHHHHhcc--
Q 008040 229 VFRKRAKIVSEIRKTVESLG--FVEVETPVLQGAAGGAEARPFVTYH---NSLGRDLYLRIATE----LHLKRMLIGG-- 297 (580)
Q Consensus 229 ~~~~Rs~i~~~iR~fl~~~g--F~EVeTPiL~~~~~Ga~a~pF~t~~---~~~~~~~yL~~Spq----l~lk~llv~g-- 297 (580)
-.+++..|++.+|+.|...| |.||+||+|.+. ..|.+.. +.-+..+|||...- ...++++...
T Consensus 31 g~~l~~~i~~~~~~~~~~~g~~~~~i~tP~i~~~------~mf~~~~g~~d~~~~~~~Lrp~~~~~~~~~~~~~~~~~~~ 104 (254)
T cd00774 31 GVELKNNIKSAWRKSFVLEEEDMLEIDSPIITPE------LMFKTSIGPVESGGNLGYLRPETAQGIFVNFKNLLEFNRR 104 (254)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCeEEEeccccCCH------HHheeeecccCCCCcccccCCcccchHHHHHHHHHHHhCC
Confidence 45789999999999999885 999999999976 2344321 12345788886433 3334444322
Q ss_pred -C-CceeEEecccccCCCCC---CCCccceeeeeEeec
Q 008040 298 -F-EKIYEIGRIFRNEGLST---RHNPEFTTIEMYEAY 330 (580)
Q Consensus 298 -~-~rVfeIg~~FR~E~~~~---rH~pEFtmlE~e~a~ 330 (580)
+ =|+||||+|||||.+.. -+.-||||.|+|.-.
T Consensus 105 ~lP~~~~qig~~fR~E~~~~~gl~R~ReF~q~d~~~f~ 142 (254)
T cd00774 105 KLPFGVAQIGKSFRNEISPRNGLFRVREFTQAEIEFFV 142 (254)
T ss_pred CCCchhhhhchhhccccCcccceeeeccchhhheeeeE
Confidence 2 28999999999998655 688899999999854
No 72
>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=98.27 E-value=3e-06 Score=86.80 Aligned_cols=119 Identities=20% Similarity=0.130 Sum_probs=86.4
Q ss_pred HHHHHHHHHHHHHHHHHhCCCeeecCceeecc----C-CCC----CCCceeeccC---CCCeeEEEEecHHHHHHHHHhc
Q 008040 229 VFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----A-GGA----EARPFVTYHN---SLGRDLYLRIATELHLKRMLIG 296 (580)
Q Consensus 229 ~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~-~Ga----~a~pF~t~~~---~~~~~~yL~~Spql~lk~llv~ 296 (580)
-.+++..|++.+++.+.+.||.||.||+|.+. . +|- ....|..... ..+.+++|+...|..+=.+...
T Consensus 31 g~~l~~~l~~~~~~~~~~~G~~ev~~P~l~~~~~~~~~sg~~~~f~~~~f~~~~~~~~~~~~~~~L~Pt~e~~~~~~~~~ 110 (261)
T cd00778 31 GYAIWENIQKILDKEIKETGHENVYFPLLIPESELEKEKEHIEGFAPEVAWVTHGGLEELEEPLALRPTSETAIYPMFSK 110 (261)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEEEECCccccHHHhhhhhcchhhcCcceEEEEecCCcccCCcEEEcCCCCHHHHHHHHh
Confidence 46788999999999999999999999999863 1 221 1123332111 1124788998766544433322
Q ss_pred c------C-CceeEEecccccCCCCC---CCCccceeeeeEeecCCHHHHHHHHHHHHHHH
Q 008040 297 G------F-EKIYEIGRIFRNEGLST---RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHC 347 (580)
Q Consensus 297 g------~-~rVfeIg~~FR~E~~~~---rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~ 347 (580)
- + =|+|+|++|||+|..++ -+.-||+|.|.|..|.+.++..+..++++...
T Consensus 111 ~i~s~r~LPlr~~~~~~~fR~E~~~~~Gl~R~reF~~~d~h~~~~~~e~~~~~~~~~~~~~ 171 (261)
T cd00778 111 WIRSYRDLPLKINQWVNVFRWETKTTRPFLRTREFLWQEGHTAHATEEEAEEEVLQILDLY 171 (261)
T ss_pred hccchhhcCHHHHhhhhhccCCCCCCCceeEeeeeeeeceeeccCCHHHHHHHHHHHHHHH
Confidence 1 1 28999999999999774 47789999999999999999888888887544
No 73
>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=98.20 E-value=6.7e-06 Score=83.92 Aligned_cols=117 Identities=22% Similarity=0.298 Sum_probs=81.2
Q ss_pred HHHHHHHHHHHHHHHHHhCCCeeecCceeecc----CCCC----CCCceeeccCCCCeeEEEEecHHHHHHHHH----hc
Q 008040 229 VFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----AGGA----EARPFVTYHNSLGRDLYLRIATELHLKRML----IG 296 (580)
Q Consensus 229 ~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~~Ga----~a~pF~t~~~~~~~~~yL~~Spql~lk~ll----v~ 296 (580)
-.+++..|.+.+++.|.+.||.||.||+|.+. ..|. ....|... +..+.+++|+...|-.+=.++ .+
T Consensus 30 g~~l~~~i~~~~~~~~~~~G~~ei~~P~l~~~~~~~~sg~~~~~~~emy~~~-d~~~~~l~LrPt~e~~~t~~~~~~i~s 108 (255)
T cd00779 30 GLRVLKKIENIIREEMNKIGAQEILMPILQPAELWKESGRWDAYGPELLRLK-DRHGKEFLLGPTHEEVITDLVANEIKS 108 (255)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHHhcCCccccCcccEEEe-cCCCCeEEEecCCcHHHHHHHHhcccc
Confidence 46689999999999999999999999999863 1231 11233321 223567899976443222222 22
Q ss_pred --cCC-ceeEEecccccCCCCCC---CCccceeeeeEeecCCHHHHHHHHHHHHHH
Q 008040 297 --GFE-KIYEIGRIFRNEGLSTR---HNPEFTTIEMYEAYSDYQSMMNITEEIVTH 346 (580)
Q Consensus 297 --g~~-rVfeIg~~FR~E~~~~r---H~pEFtmlE~e~a~~d~~d~m~l~E~li~~ 346 (580)
.+. |+|++++|||+|..... +.-||+|.|++....+..+..+..++++..
T Consensus 109 ~~~LPlr~~~~~~~FR~E~~~~~Gl~R~reF~q~e~~~~~~~~~~a~~~~~~i~~~ 164 (255)
T cd00779 109 YKQLPLNLYQIQTKFRDEIRPRFGLMRGREFLMKDAYSFDIDEESLEETYEKMYQA 164 (255)
T ss_pred HhhCCHHHHhCcceecCCCCCCCceeeeeeEeHhhheeccCCHHHHHHHHHHHHHH
Confidence 233 99999999999954433 889999999999888777776666666543
No 74
>TIGR00442 hisS histidyl-tRNA synthetase. This model finds a histidyl-tRNA synthetase in every completed genome. Apparent second copies from Bacillus subtilis, Synechocystis sp., and Aquifex aeolicus are slightly shorter, more closely related to each other than to other hisS proteins, and actually serve as regulatory subunits for an enzyme of histidine biosynthesis. They were excluded from the seed alignment and score much lower than do single copy histidyl-tRNA synthetases of other genomes not included in the seed alignment. These putative second copies of HisS score below the trusted cutoff. The regulatory protein kinase GCN2 of Saccharomyces cerevisiae (YDR283c), and related proteins from other species designated eIF-2 alpha kinase, have a domain closely related to histidyl-tRNA synthetase that may serve to detect and respond to uncharged tRNA(his), an indicator of amino acid starvation; these regulatory proteins are not orthologous and so score below the noise cutoff.
Probab=98.19 E-value=7.1e-06 Score=88.83 Aligned_cols=104 Identities=28% Similarity=0.355 Sum_probs=74.2
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeeccC-----CCCC-----CCceeeccCCCCeeEEEEecHHHHHHHHHhcc
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAA-----GGAE-----ARPFVTYHNSLGRDLYLRIATELHLKRMLIGG 297 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~-----~Ga~-----a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g 297 (580)
.-.+++..+...+++.|.++||.||.||+|.... +|.. ...|.. .+..|..+.||.-.-...=|.++..
T Consensus 12 ~~~~~~~~i~~~i~~~f~~~Gy~~i~~P~le~~~~~~~~~g~~~~~~~~~~~~~-~d~~g~~l~LRpD~T~~iaR~~~~~ 90 (397)
T TIGR00442 12 EEMIKWQYIEETIREVFELYGFKEIRTPIFEYTELFARKVGEETDIVEKEMYTF-KDKGGRSLTLRPEGTAPVARAVIEN 90 (397)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCeEecCcccchHHHhhhccCccccccccceEEE-ECCCCCEEeecCCCcHHHHHHHHhc
Confidence 4567899999999999999999999999997531 2221 122321 1234677788854333333333321
Q ss_pred ------CCceeEEecccccCCCCCCCCccceeeeeEeecCC
Q 008040 298 ------FEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSD 332 (580)
Q Consensus 298 ------~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d 332 (580)
--|+|++|+|||+|..+..|.-||+|+++|....+
T Consensus 91 ~~~~~~p~r~~y~g~vfR~e~~~~gr~ref~Q~g~eiig~~ 131 (397)
T TIGR00442 91 KLLLPKPFKLYYIGPMFRYERPQKGRYRQFHQFGVEVIGSD 131 (397)
T ss_pred ccccCCCeEEEEEcCeecCCCCCCCcccceEEcCeeeeCCC
Confidence 14999999999999888778899999999987655
No 75
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=98.12 E-value=2e-05 Score=89.40 Aligned_cols=121 Identities=22% Similarity=0.267 Sum_probs=81.8
Q ss_pred HHHHHHHHHHHHHHHHHhCCCeeecCceeeccC----CC----CCCCceeeccCCCCeeEEEEecHHHHHHHHHhc---c
Q 008040 229 VFRKRAKIVSEIRKTVESLGFVEVETPVLQGAA----GG----AEARPFVTYHNSLGRDLYLRIATELHLKRMLIG---G 297 (580)
Q Consensus 229 ~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~----~G----a~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~---g 297 (580)
-.+++.+|.+.+|+.|.+.||.||.||+|.+.. +| -+...|... +..+.+++|+...|-..=.++.. .
T Consensus 46 g~~~~~~i~~~i~~~~~~~G~~ei~~P~l~~~~l~~~sg~~~~~~~emf~~~-d~~~~~l~LrPt~e~~~~~~~~~~~~s 124 (565)
T PRK09194 46 GLRVLRKIENIVREEMNKIGAQEVLMPALQPAELWQESGRWEEYGPELLRLK-DRHGRDFVLGPTHEEVITDLVRNEIKS 124 (565)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEEEECcccCcHHHHhhcCCccccchhceEEe-cCCCCEEEECCCChHHHHHHHHhhhhh
Confidence 467899999999999999999999999999641 22 112234321 33467899996444322222211 1
Q ss_pred ---C-CceeEEecccccCCCCCC---CCccceeeeeEeecCCHHHHHHHHHHHH---HHHHHH
Q 008040 298 ---F-EKIYEIGRIFRNEGLSTR---HNPEFTTIEMYEAYSDYQSMMNITEEIV---THCALA 350 (580)
Q Consensus 298 ---~-~rVfeIg~~FR~E~~~~r---H~pEFtmlE~e~a~~d~~d~m~l~E~li---~~~~~~ 350 (580)
+ =|+|||++|||+|..... +.-||+|.|+|....+.++.....+.++ ..+++.
T Consensus 125 ~~~LP~r~yqi~~~fR~E~rp~~Gl~R~reF~q~d~~~f~~~~~~a~~~~~~~~~~~~~i~~~ 187 (565)
T PRK09194 125 YKQLPLNLYQIQTKFRDEIRPRFGLMRGREFIMKDAYSFHADEESLDETYDAMYQAYSRIFDR 187 (565)
T ss_pred cccCCeEEEEeeCCccCCCCCCCcccccccEEEeeEEEEcCChHHHHHHHHHHHHHHHHHHHH
Confidence 1 299999999999954432 7889999999998776655554444444 444444
No 76
>TIGR00409 proS_fam_II prolyl-tRNA synthetase, family II. Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent groups. This group includes enzymes from Escherichia coli, Bacillus subtilis, Aquifex aeolicus, the spirochete Treponema pallidum, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae. The other group includes the Pro-specific domain of a human multifunctional tRNA ligase and the prolyl-tRNA synthetases from the Archaea, the Mycoplasmas, and the spirochete Borrelia burgdorferi.
Probab=98.08 E-value=2.5e-05 Score=88.38 Aligned_cols=122 Identities=21% Similarity=0.258 Sum_probs=83.9
Q ss_pred HHHHHHHHHHHHHHHHHhCCCeeecCceeecc----CCC----CCCCceeeccCCCCeeEEEEecHHHHHHH----HHhc
Q 008040 229 VFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----AGG----AEARPFVTYHNSLGRDLYLRIATELHLKR----MLIG 296 (580)
Q Consensus 229 ~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~~G----a~a~pF~t~~~~~~~~~yL~~Spql~lk~----llv~ 296 (580)
-.+++.+|.+.+|+.|.+.||.||.||+|.+. .+| .+...|... +..+.+++|+...|-.+=. .+.+
T Consensus 46 g~rv~~~I~~~i~~~~~~~G~~ei~~P~l~~~el~~~sg~~~~~~~emf~~~-dr~~~~l~LrPT~Ee~~t~~~~~~i~s 124 (568)
T TIGR00409 46 GLRVLKKVENIVREEMNKDGAIEVLLPALQPAELWQESGRWDTYGPELLRLK-DRKGREFVLGPTHEEVITDLARNEIKS 124 (568)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEEEECCccchHHHHhhcCCCCccchhcEEEe-cCCCCEEEEcCCCcHHHHHHHHHHHhh
Confidence 46789999999999999999999999999974 122 122345432 2346789999753322221 1222
Q ss_pred --cCC-ceeEEecccccCCCCC---CCCccceeeeeEeecCCHHHHHHHHHHHH---HHHHHHH
Q 008040 297 --GFE-KIYEIGRIFRNEGLST---RHNPEFTTIEMYEAYSDYQSMMNITEEIV---THCALAV 351 (580)
Q Consensus 297 --g~~-rVfeIg~~FR~E~~~~---rH~pEFtmlE~e~a~~d~~d~m~l~E~li---~~~~~~v 351 (580)
.+. |+|||++|||+|.-.. -+.-||+|.|+|....+.++.....+.++ ..+++.+
T Consensus 125 yr~LPlrlyqi~~~fR~E~rpr~Gl~R~REF~~~d~~~f~~~~~~a~~e~~~~~~~y~~if~~L 188 (568)
T TIGR00409 125 YKQLPLNLYQIQTKFRDEIRPRFGLMRGREFIMKDAYSFHSDEESLDATYQKMYQAYSNIFSRL 188 (568)
T ss_pred ccccCeEEEEeeCEeeCCCCCCCCccccccEEEEEEEEEeCChHHHHHHHHHHHHHHHHHHHHh
Confidence 233 9999999999995332 27889999999998888666655555444 4455443
No 77
>PRK00037 hisS histidyl-tRNA synthetase; Reviewed
Probab=98.06 E-value=1.9e-05 Score=85.98 Aligned_cols=102 Identities=27% Similarity=0.361 Sum_probs=73.2
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeecc----C-CCCC-----CCceeeccCCCCeeEEEEec--HHHHHHHHHh
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----A-GGAE-----ARPFVTYHNSLGRDLYLRIA--TELHLKRMLI 295 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~-~Ga~-----a~pF~t~~~~~~~~~yL~~S--pql~lk~llv 295 (580)
.-.+.+..+.+.+|+.|.++||.||.||+|... . +|.. ..-|.. .+-.|..+.||.- |++. +.++
T Consensus 16 ~~~~~~~~i~~~i~~~~~~~Gy~ei~tP~le~~~~~~~~~g~~~~~~~~~~~~~-~d~~g~~l~LRpd~T~~~a--r~~~ 92 (412)
T PRK00037 16 EESAKWQYVEDTIREVFERYGFSEIRTPIFEYTELFKRKVGEETDIVEKEMYTF-QDKGGRSLTLRPEGTAPVV--RAVI 92 (412)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCeEeeccccchHHHhccccCcccccccceeEEE-EcCCCCEEEecCCCcHHHH--HHHH
Confidence 456788899999999999999999999999753 1 2221 122321 1224667778854 4443 2333
Q ss_pred c---cCCceeEEecccccCCCCCCCCccceeeeeEeecCC
Q 008040 296 G---GFEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSD 332 (580)
Q Consensus 296 ~---g~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d 332 (580)
. .--|+|++|+|||+|..+..|.-||+|+++|.-..+
T Consensus 93 ~~~~~p~r~~~~g~vfR~e~~~~gr~ref~Q~g~ei~g~~ 132 (412)
T PRK00037 93 EHKLQPFKLYYIGPMFRYERPQKGRYRQFHQFGVEVIGSD 132 (412)
T ss_pred hCCCCCeEEEEEcCccccCCCCCCcccceEEcCeeeeCCC
Confidence 2 235999999999999888888899999999986554
No 78
>PLN02908 threonyl-tRNA synthetase
Probab=98.02 E-value=3.2e-05 Score=89.57 Aligned_cols=119 Identities=16% Similarity=0.145 Sum_probs=88.9
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeecc----CCCCC----CCceeeccCCCCeeEEEEecHHHHHHHHHhcc--
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----AGGAE----ARPFVTYHNSLGRDLYLRIATELHLKRMLIGG-- 297 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~~Ga~----a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g-- 297 (580)
.-.+++..|++.+|+.+.++||.||.||.|.+. .+|-. ...|.. +.-+.+++|+...+..+=++...-
T Consensus 319 ~g~~i~~~l~~~~~~~~~~~G~~ev~tP~l~~~~l~~~sGh~~~~~~~mf~~--~~~~~~~~Lrp~~~~~~~~~~~~~~~ 396 (686)
T PLN02908 319 HGARIYNKLMDFIREQYWERGYDEVITPNIYNMDLWETSGHAAHYKENMFVF--EIEKQEFGLKPMNCPGHCLMFAHRVR 396 (686)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCEEEECCccccHHHHhhcCCccccchhccEE--ecCCeeEEEcCCCcHHHHHHHhcccc
Confidence 456889999999999999999999999999864 23311 122332 223578999976655544433321
Q ss_pred ----C-CceeEEecccccCCCC----CCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHH
Q 008040 298 ----F-EKIYEIGRIFRNEGLS----TRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCAL 349 (580)
Q Consensus 298 ----~-~rVfeIg~~FR~E~~~----~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~ 349 (580)
+ =|+|++|+|||+|-+. -.+.-||||.|++. |...+++.+.+++++..+..
T Consensus 397 s~r~LPlr~~~~g~~fR~E~~~~l~Gl~RvReF~q~d~~i-f~~~~q~~~e~~~~l~~~~~ 456 (686)
T PLN02908 397 SYRELPLRLADFGVLHRNELSGALTGLTRVRRFQQDDAHI-FCREDQIKDEVKGVLDFLDY 456 (686)
T ss_pred ChhhCCHhHEEeeccccCCCCcCCcCccccccEEEeeEEE-EcCHHHHHHHHHHHHHHHHH
Confidence 1 1899999999999984 36888999999999 88888888888888776654
No 79
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=98.01 E-value=2.4e-05 Score=86.80 Aligned_cols=118 Identities=19% Similarity=0.087 Sum_probs=85.6
Q ss_pred HHHHHHHHHHHHHHHHHhCCCeeecCceeecc----CCCC-----CCCceeeccC---CCCeeEEEEecHHHHHHH----
Q 008040 229 VFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----AGGA-----EARPFVTYHN---SLGRDLYLRIATELHLKR---- 292 (580)
Q Consensus 229 ~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~~Ga-----~a~pF~t~~~---~~~~~~yL~~Spql~lk~---- 292 (580)
-++++..|.+.+++.|.+.||.||.||+|.+. .++. ....|.+... .++.+++||...|..+=.
T Consensus 43 g~~i~~~i~~~~~~~~~~~G~~ev~~P~l~~~~~~~~~~~h~~~f~~e~~~v~~~~~~~~~e~l~LrPtsE~~i~~~~~~ 122 (477)
T PRK08661 43 GYAIWENIQKILDKLFKETGHENVYFPLLIPESLLEKEKEHVEGFAPEVAWVTHGGGEKLEEKLALRPTSETIIYPMYKK 122 (477)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHhhhcCchhhcccccEEEEccCCCccCceEEEecCCcHHHHHHHHh
Confidence 56889999999999999999999999999864 1121 1234443221 235789999766333222
Q ss_pred HHhcc--C-CceeEEecccccCCCCCC---CCccceeeeeEeecCCHHHHHHHHHHHHHHH
Q 008040 293 MLIGG--F-EKIYEIGRIFRNEGLSTR---HNPEFTTIEMYEAYSDYQSMMNITEEIVTHC 347 (580)
Q Consensus 293 llv~g--~-~rVfeIg~~FR~E~~~~r---H~pEFtmlE~e~a~~d~~d~m~l~E~li~~~ 347 (580)
.+.+- + =|+||+++|||+|.. ++ +.-||+|.|.+.++.+.++..+.++.++...
T Consensus 123 ~i~SyrdLPlrl~q~~~vfR~E~~-~rgl~R~rEF~~~E~h~~~~~~eea~~e~~~~l~~y 182 (477)
T PRK08661 123 WIQSYRDLPLLYNQWVNVVRWETK-TRPFLRTREFLWQEGHTAHATEEEAEEETLEMLEIY 182 (477)
T ss_pred hhcchhhcCHHHhcccceeeCCCC-CCCcceeeeEEEcceeeeeCCHHHHHHHHHHHHHHH
Confidence 22221 2 289999999999998 54 7889999999999999988888877777533
No 80
>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=98.00 E-value=2.5e-05 Score=81.58 Aligned_cols=116 Identities=20% Similarity=0.262 Sum_probs=84.5
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeecc----CCCC----CCCceeeccCCCCeeEEEEecHHHHHHHHHhccC-
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----AGGA----EARPFVTYHNSLGRDLYLRIATELHLKRMLIGGF- 298 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~~Ga----~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g~- 298 (580)
.-.+++.+|++.+++.+.+.||.||.||.|.+. ..|- +...|.+ .+.+++|+...|..+=.+...-.
T Consensus 50 ~g~~l~~~l~~~~~~~~~~~G~~ev~~P~l~~~~l~~~sg~~~~~~~~~f~v----~~~~~~L~pt~e~~~~~l~~~~~~ 125 (297)
T cd00770 50 DGALLERALINFALDFLTKRGFTPVIPPFLVRKEVMEGTGQLPKFDEQLYKV----EGEDLYLIATAEVPLAALHRDEIL 125 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCEEEECcccccHHHHhhcCcCccChhcccEe----cCCCEEEeecCCHHHHHHHhcccC
Confidence 456889999999999999999999999999964 1231 1223333 24678999888877766554321
Q ss_pred ------CceeEEecccccCCCC-------CCCCccceeeeeEeecCCHHHHHHHHHHHHHHHH
Q 008040 299 ------EKIYEIGRIFRNEGLS-------TRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCA 348 (580)
Q Consensus 299 ------~rVfeIg~~FR~E~~~-------~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~ 348 (580)
=|+|++|+|||+|... --+.-||+|.|.+. |..-++..+..++++....
T Consensus 126 s~~~LPlr~~~~~~~fR~E~~~~g~~~~GL~R~reF~~~e~~~-f~~~e~~~~~~~~~l~~~~ 187 (297)
T cd00770 126 EEEELPLKYAGYSPCFRKEAGSAGRDTRGLFRVHQFEKVEQFV-FTKPEESWEELEELISNAE 187 (297)
T ss_pred CHhhCCchheecChhHhCccccCCCCCCCceEEEeeeeeeEEE-EECchHHHHHHHHHHHHHH
Confidence 2899999999999762 25788999999974 6655777666666665443
No 81
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=97.98 E-value=6.1e-05 Score=82.22 Aligned_cols=117 Identities=21% Similarity=0.264 Sum_probs=86.5
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeecc----CCCC----CCCceeeccCCCCeeEEEEecHHHHHHHHHhccC-
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----AGGA----EARPFVTYHNSLGRDLYLRIATELHLKRMLIGGF- 298 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~~Ga----~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g~- 298 (580)
.-.++...|++.+++.+.+.||.||.||.|.+. ..|- ...-|.+ -+.++||+...|..+-.+...-.
T Consensus 171 ~g~~l~~aL~~~~~~~~~~~G~~~v~~P~lv~~~~~~~~G~~~~f~~~~y~i----~~~~~~L~pTsE~~~~~~~~~~i~ 246 (418)
T TIGR00414 171 DGAKLERALINFMLDLLEKNGYQEIYPPYLVNEESLDGTGQLPKFEEDIFKL----EDTDLYLIPTAEVPLTNLHRNEIL 246 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCEEEeCCccccHHHHhhcCccccccccceEe----cCCCEEEEeCCcHHHHHHHhCcCC
Confidence 356788999999999999999999999999964 1221 1122322 25678999988877655443221
Q ss_pred ------CceeEEecccccCCCC----C---CCCccceeeeeEeecCCHHHHHHHHHHHHHHHHH
Q 008040 299 ------EKIYEIGRIFRNEGLS----T---RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCAL 349 (580)
Q Consensus 299 ------~rVfeIg~~FR~E~~~----~---rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~ 349 (580)
=|+|++++|||+|-.. + -+.-||+|.|. ..|.+-++..+..++++.....
T Consensus 247 s~~~LPlr~~~~s~~FR~E~g~~G~~t~GL~Rv~qF~k~E~-~~f~~~e~s~~~~~~~~~~~~~ 309 (418)
T TIGR00414 247 EEEELPIKYTAHSPCFRSEAGSYGKDTKGLIRVHQFNKVEL-VKFCKPEESAEELEEMTSDAEQ 309 (418)
T ss_pred ChHhCCeeEEEEcccccCCCCccCCCCCccccccceeeeeE-EEEcCHHHHHHHHHHHHHHHHH
Confidence 2899999999999742 2 48889999999 4588888888888887765543
No 82
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=97.98 E-value=3.7e-05 Score=86.41 Aligned_cols=119 Identities=13% Similarity=0.109 Sum_probs=87.9
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeecc----CCCCC--C--CceeeccCCCCeeEEEEecHHHHHHHHHhccC-
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----AGGAE--A--RPFVTYHNSLGRDLYLRIATELHLKRMLIGGF- 298 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~~Ga~--a--~pF~t~~~~~~~~~yL~~Spql~lk~llv~g~- 298 (580)
.-.++|..|.+.+|+.+.++||.||.||.|... .+|-. - ..|.. +.-+.+++|+.-..-..=++.....
T Consensus 166 ~G~~i~~~L~~~~r~~~~~~Gy~eV~TP~i~~~eL~k~SGh~~~y~~~mf~~--~~~~e~~~LrPm~cp~~~~~~~~~~~ 243 (545)
T PRK14799 166 KGQTIRNELIAFMREINDSMGYQEVYTSHVFKTDIWKISGHYTLYRDKLIVF--NMEGDEYGVKPMNCPAHILIYKSKPR 243 (545)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCeEEECCccchHHHHhhccccccchhhccee--eccCceEEeccCCCHHHHHHHhcccc
Confidence 457889999999999999999999999998753 23321 1 12322 2236789999766665554443322
Q ss_pred ------CceeEEecccccCCCCC----CCCccceeeeeEeecCCHHHHHHHHHHHHHHHHH
Q 008040 299 ------EKIYEIGRIFRNEGLST----RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCAL 349 (580)
Q Consensus 299 ------~rVfeIg~~FR~E~~~~----rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~ 349 (580)
=|+||+|+|||+|.+.. .+.-||||.|+.. |.+.+++.+-+.+++..+..
T Consensus 244 SyrdLPlR~~e~g~vfR~E~sg~l~GL~RvReF~Q~DaHi-f~~~~q~~~E~~~~l~~i~~ 303 (545)
T PRK14799 244 TYRDLPIRFSEFGHVYRWEKKGELYGLLRVRGFVQDDGHI-FLREDQLREEIKMLISKTVE 303 (545)
T ss_pred ChhhCCHhhEEecceecCCCCCCccccccceeEEEcccEE-EeCHHHHHHHHHHHHHHHHH
Confidence 18999999999999875 6889999999998 88887777777666655544
No 83
>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=97.97 E-value=5.9e-05 Score=78.78 Aligned_cols=115 Identities=15% Similarity=0.152 Sum_probs=76.3
Q ss_pred HHHHHHHHHHHHHHHHHhCCCeeecCceeecc----CCCC----CCCceeeccCCCCeeEEEEecHHHHHHHHHhc----
Q 008040 229 VFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----AGGA----EARPFVTYHNSLGRDLYLRIATELHLKRMLIG---- 296 (580)
Q Consensus 229 ~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~~Ga----~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~---- 296 (580)
-.+++..|.+.+++.+.+.||.||.||+|... ..|. ....|.+ ..-+.+++||...+...=++...
T Consensus 29 g~~l~~~l~~~~~~~~~~~Gy~ev~tP~l~~~~l~~~sg~~~~~~~~my~~--~~~~~~l~LRP~~~~~~~~~~~~~~~s 106 (298)
T cd00771 29 GAIIRNELEDFLRELQRKRGYQEVETPIIYNKELWETSGHWDHYRENMFPF--EEEDEEYGLKPMNCPGHCLIFKSKPRS 106 (298)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEEEECCeecCHHHHhhCCCccccccCceEe--ccCCceEEEcccCCHHHHHHHHhhccc
Confidence 46778999999999999999999999999854 1221 1123333 12246789986555443333221
Q ss_pred --cCC-ceeEEecccccCCCCC----CCCccceeeeeEeecCCHHHHHHHHHHHHHH
Q 008040 297 --GFE-KIYEIGRIFRNEGLST----RHNPEFTTIEMYEAYSDYQSMMNITEEIVTH 346 (580)
Q Consensus 297 --g~~-rVfeIg~~FR~E~~~~----rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~ 346 (580)
.+. |+|++|+|||+|.... -+.-||+|.|++.. ...++..+.+++++..
T Consensus 107 ~~~LPlr~~~~g~vfR~E~~~~~~Gl~R~reF~q~e~~i~-~~~e~~~~e~~e~l~~ 162 (298)
T cd00771 107 YRDLPLRLAEFGTVHRYEQSGALHGLTRVRGFTQDDAHIF-CTPDQIKEEIKGVLDL 162 (298)
T ss_pred hhhCCeEEEEecCcccCCCCCCCCCccccccEEECCEEEE-eCCcchHHHHHHHHHH
Confidence 222 9999999999997752 47789999999986 3334443343444433
No 84
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=97.92 E-value=6.3e-05 Score=85.48 Aligned_cols=120 Identities=15% Similarity=0.149 Sum_probs=82.4
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeecc----CCCC----CCCceeeccCCCCeeEEEEecHHHHHHHHHhc---
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----AGGA----EARPFVTYHNSLGRDLYLRIATELHLKRMLIG--- 296 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~~Ga----~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~--- 296 (580)
.-.+++..|.+.+++.+.+.||.||.||+|... .+|. ....|... +.-+..++||.-..-..=++.+.
T Consensus 204 ~~~~~~~~l~~~~~~~~~~~Gy~ev~tP~le~~~l~~~sg~~~~~~~~my~~~-d~~~~~~~LRP~~~~~~~~~~~~~~~ 282 (575)
T PRK12305 204 KGAIIRREIEDYLRKEHLKRGYEFVYTPHIGKSDLWKTSGHLDNYKENMFPPM-EIDEEEYYLKPMNCPGHILIYKSRLR 282 (575)
T ss_pred cHHHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHhhcCCcccchhhccccc-ccCCceEEEecCCCHHHHHHHhcccC
Confidence 346789999999999999999999999999864 2332 11233321 22467888995443332222221
Q ss_pred ---cCC-ceeEEecccccCCCCC----CCCccceeeeeEeecCCHHHHHHHHHHHHHHHHH
Q 008040 297 ---GFE-KIYEIGRIFRNEGLST----RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCAL 349 (580)
Q Consensus 297 ---g~~-rVfeIg~~FR~E~~~~----rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~ 349 (580)
.+. |.|++|+|||+|.... .+.-||||.|++. |.+.+...+.+.+++..+..
T Consensus 283 s~~~lP~r~~~~g~~fR~E~~~~~~Gl~R~reF~q~~~~i-f~~~~~~~~e~~e~i~l~~~ 342 (575)
T PRK12305 283 SYRDLPLRLAEFGTVYRYEKSGVLHGLTRVRGFTQDDAHI-FCTPDQIEDEILKVLDFVLE 342 (575)
T ss_pred ChhhCCHhhEEecccccCCCCCCCcCcccccCeEEcceEE-EeCHHHHHHHHHHHHHHHHH
Confidence 223 9999999999998752 4678999999995 77766666665666655544
No 85
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=97.90 E-value=5.5e-05 Score=87.03 Aligned_cols=116 Identities=12% Similarity=0.170 Sum_probs=83.7
Q ss_pred HHHHHHHHHHHHHHHHhCCCeeecCceeeccC----CCCCC-----CceeeccCCCCeeEEEEecHHHHHHHHHhccC--
Q 008040 230 FRKRAKIVSEIRKTVESLGFVEVETPVLQGAA----GGAEA-----RPFVTYHNSLGRDLYLRIATELHLKRMLIGGF-- 298 (580)
Q Consensus 230 ~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~----~Ga~a-----~pF~t~~~~~~~~~yL~~Spql~lk~llv~g~-- 298 (580)
..++..|.+.+++.+.+.||.||.||+|.+.. +| .. ..|.+ +.-+..++||...+...=++....+
T Consensus 274 ~~~~~~i~~~~~~~~~~~G~~~v~tP~l~~~~l~~~sG-~~~~~~~emy~~--d~~~~~~~LrP~~~~~~~~~~~~~~~s 350 (639)
T PRK12444 274 QIIRNELEAFLREIQKEYNYQEVRTPFMMNQELWERSG-HWDHYKDNMYFS--EVDNKSFALKPMNCPGHMLMFKNKLHS 350 (639)
T ss_pred HHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHhhcC-ChhhhhhhcCee--cCCCcEEEEccCCCHHHHHHHhCcccC
Confidence 45566799999999999999999999999641 33 22 22211 2235678899877766655544332
Q ss_pred -----CceeEEecccccCCCCC----CCCccceeeeeEeecCCHHHHHHHHHHHHHHHHH
Q 008040 299 -----EKIYEIGRIFRNEGLST----RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCAL 349 (580)
Q Consensus 299 -----~rVfeIg~~FR~E~~~~----rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~ 349 (580)
-|+|++|+|||+|.+.. -+.-||+|.|++ .|.+-+++.+.+++++..+..
T Consensus 351 y~~LP~r~~~~g~~fR~E~~~~~~Gl~R~reF~q~d~~-~f~~~~~~~~e~~~~~~~~~~ 409 (639)
T PRK12444 351 YRELPIRMCEFGQVHRHEFSGALNGLLRVRTFCQDDAH-LFVTPDQIEDEIKSVMAQIDY 409 (639)
T ss_pred hhhCCceeEEeccccCCCCCcCCcCcceeeeeEEccEE-EECCHHHHHHHHHHHHHHHHH
Confidence 29999999999998652 477899999999 788877777666666655433
No 86
>TIGR00408 proS_fam_I prolyl-tRNA synthetase, family I. Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent families. This family includes the archaeal enzyme, the Pro-specific domain of a human multifunctional tRNA ligase, and the enzyme from the spirochete Borrelia burgdorferi. The other family includes enzymes from Escherichia coli, Bacillus subtilis, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae.
Probab=97.90 E-value=3.4e-05 Score=85.48 Aligned_cols=118 Identities=22% Similarity=0.216 Sum_probs=86.5
Q ss_pred HHHHHHHHHHHHHHHHhCCCeeecCceeeccC----CCCC-----CCceeeccC---CCCeeEEEEecHHHHHHHHHh--
Q 008040 230 FRKRAKIVSEIRKTVESLGFVEVETPVLQGAA----GGAE-----ARPFVTYHN---SLGRDLYLRIATELHLKRMLI-- 295 (580)
Q Consensus 230 ~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~----~Ga~-----a~pF~t~~~---~~~~~~yL~~Spql~lk~llv-- 295 (580)
.+++..|.+.+++-+.+.||.||.||+|.+.. +|.. ...|.+... -++.+++||...+-.+=.+..
T Consensus 38 ~~i~~~I~~~i~~~~~~~G~~ev~~P~l~~~~~~~~~~~h~~~f~~e~f~v~~~g~~~~~e~l~LrPt~e~~i~~~~~~~ 117 (472)
T TIGR00408 38 FKIWKNIQKILRNILDEIGHEEVYFPMLIPESELAKEKDHIKGFEPEVYWITHGGLSKLDEPLALRPTSETAMYPMFKKW 117 (472)
T ss_pred HHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHHhhcchhhhcchhcEEEecCCCCccCCcEEEeCCCcHHHHHHHhcc
Confidence 56699999999999999999999999998631 2321 233433221 135789999777655432221
Q ss_pred --cc--C-CceeEEecccccCCCCC---CCCccceeeeeEeecCCHHHHHHHHHHHHHHH
Q 008040 296 --GG--F-EKIYEIGRIFRNEGLST---RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHC 347 (580)
Q Consensus 296 --~g--~-~rVfeIg~~FR~E~~~~---rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~ 347 (580)
+- + =|+||+++|||+|...+ -+.-||+|.|.+.+|.+.++..+.++.++...
T Consensus 118 i~S~rdLPlr~~q~~~vfR~E~~~~~gl~R~rEF~~~e~h~~~~~~e~a~~e~~~~l~~y 177 (472)
T TIGR00408 118 VKSYTDLPLKINQWVNVFRYETKHTRPFLRTREFTWQEAHTAHATAEEAEEQVLRALDIY 177 (472)
T ss_pred ccChhhcCHHHhheeeeecCCCCCCCCcceeeeeehhhhhhhhCCHHHHHHHHHHHHHHH
Confidence 11 2 28999999999999864 47889999999999999988888777777544
No 87
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=97.89 E-value=7e-05 Score=81.92 Aligned_cols=117 Identities=21% Similarity=0.253 Sum_probs=87.0
Q ss_pred HHHHHHHHHHHHHHHHHH-hCCCeeecCceeecc--C--CCC----CCCceeeccCCCCeeEEEEecHHHHHHHHHhccC
Q 008040 228 DVFRKRAKIVSEIRKTVE-SLGFVEVETPVLQGA--A--GGA----EARPFVTYHNSLGRDLYLRIATELHLKRMLIGGF 298 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~-~~gF~EVeTPiL~~~--~--~Ga----~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g~ 298 (580)
.-.++...|++.+++.+. +.||.||.||.|.+. - .|- ....|.+ -+.++||+...|..+=.+.....
T Consensus 168 ~ga~L~~aL~~~~~~~~~~~~G~~ev~~P~lv~~~~~~~~G~~~~f~~~ly~i----~~~~~~L~pTsE~~l~~l~~~~~ 243 (425)
T PRK05431 168 DGARLERALIQFMLDLHTEEHGYTEVIPPYLVNEESMYGTGQLPKFEEDLYKI----EDDDLYLIPTAEVPLTNLHRDEI 243 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCEEEeccccccHHHHhhcCccccchhhceEe----cCCCEEEEeCCcHHHHHHHhccc
Confidence 345688899999999998 999999999999963 1 221 1122322 25689999888887755544332
Q ss_pred -------CceeEEecccccCCCC----C---CCCccceeeeeEeecCCHHHHHHHHHHHHHHHHH
Q 008040 299 -------EKIYEIGRIFRNEGLS----T---RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCAL 349 (580)
Q Consensus 299 -------~rVfeIg~~FR~E~~~----~---rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~ 349 (580)
=|+|++++|||+|... + -+.-||+|.|.+ +|..-++..+..++++.....
T Consensus 244 ~s~~dLPlr~~~~s~~fR~Eag~~g~~~~GL~Rv~qF~k~E~~-~f~~~e~s~~~~~~~l~~~~~ 307 (425)
T PRK05431 244 LDEEELPLKYTAYSPCFRSEAGSAGRDTRGLIRVHQFDKVELV-KFTKPEDSYAELEELTANAEE 307 (425)
T ss_pred CCHHhCCeeEEEEcCEecCCCCcCCCCCCceeeeeeeeeeeEE-EEECHHHHHHHHHHHHHHHHH
Confidence 2899999999999743 2 478899999999 688878888888888765543
No 88
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=97.88 E-value=7.3e-05 Score=82.20 Aligned_cols=118 Identities=17% Similarity=0.201 Sum_probs=82.1
Q ss_pred HHHHHHHHHHHHHHHHHhCCCeeecCceeecc----CCCC----CCCceeeccCCCCeeEEEEecH-HH----HHHHHHh
Q 008040 229 VFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----AGGA----EARPFVTYHNSLGRDLYLRIAT-EL----HLKRMLI 295 (580)
Q Consensus 229 ~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~~Ga----~a~pF~t~~~~~~~~~yL~~Sp-ql----~lk~llv 295 (580)
-.+++.+|.+.+|+.|.+.||.||.||+|.+. ..|. +...|... +..+.+++|+... +. |......
T Consensus 46 g~~i~~~i~~~i~~~~~~~G~~ev~~P~l~~~~l~~~sg~~~~~~~emf~~~-d~~~~~~~L~Pt~e~~~~~~~~~~~~s 124 (439)
T PRK12325 46 GLKVLKKIENIVREEQNRAGAIEILMPTIQPADLWRESGRYDAYGKEMLRIK-DRHDREMLYGPTNEEMITDIFRSYVKS 124 (439)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEEEECCccccHHHHhhcCCccccchhheEEe-cCCCCEEEEcCCCcHHHHHHHHHHhhh
Confidence 46789999999999999999999999999964 1221 12344331 2336788898633 22 2222110
Q ss_pred -ccC-CceeEEecccccCCCCC---CCCccceeeeeEeecCCHHHHHHHHHHHHHHH
Q 008040 296 -GGF-EKIYEIGRIFRNEGLST---RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHC 347 (580)
Q Consensus 296 -~g~-~rVfeIg~~FR~E~~~~---rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~ 347 (580)
..+ =|+|||+++||+|.... .+.-||+|-|.|....|.+++.+..++++...
T Consensus 125 yrdLPlrl~q~~~~fR~E~~~~~GL~R~reF~~~D~h~f~~~~~~a~~~~~~~~~~~ 181 (439)
T PRK12325 125 YKDLPLNLYHIQWKFRDEIRPRFGVMRGREFLMKDAYSFDLDEEGARHSYNRMFVAY 181 (439)
T ss_pred chhhchHheEecCEecCCCCCCCCccccceEeEeccEEEeCCHHHHHHHHHHHHHHH
Confidence 112 38999999999996553 37889999999998888877777666555443
No 89
>TIGR00443 hisZ_biosyn_reg ATP phosphoribosyltransferase, regulatory subunit. Apparant second copies of histidyl-tRNA synthetase, found in Bacillus subtilis, Synechocystis sp., Aquifex aeolicus, and others, are in fact a regulatory subunit of ATP phosphoribosyltransferase, and usually encoded by a gene adjacent to that encoding the catalytic subunit.
Probab=97.87 E-value=7.9e-05 Score=78.35 Aligned_cols=102 Identities=25% Similarity=0.351 Sum_probs=73.0
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeecc----C-CCC-CCCceeeccCCCCeeEEEEe--cHHHHHHHHHhc---
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----A-GGA-EARPFVTYHNSLGRDLYLRI--ATELHLKRMLIG--- 296 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~-~Ga-~a~pF~t~~~~~~~~~yL~~--Spql~lk~llv~--- 296 (580)
.-.+++..|...+++.|.++||.||+||+|... . +|. ..+.|.. .+..|..+-||. .+++- |.++.
T Consensus 6 ~~~~~~~~i~~~l~~~~~~~Gy~~i~tP~le~~~~~~~~~~~~~~~~~~~-~d~~g~~l~LRpD~T~~ia--R~~~~~~~ 82 (314)
T TIGR00443 6 EEAARKEEIERQLQDVFRSWGYQEIITPTLEYLDTLSAGGGILNEDLFKL-FDSLGRVLGLRPDMTTPIA--RAVSTRLR 82 (314)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCeeccCcchhhHHHhcccCCcchhceEEE-ECCCCCEEeecCcCcHHHH--HHHHHhcc
Confidence 345779999999999999999999999999863 1 221 1223332 122366777884 34432 22222
Q ss_pred c---CCceeEEecccccCCCCCCCCccceeeeeEeecCC
Q 008040 297 G---FEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSD 332 (580)
Q Consensus 297 g---~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d 332 (580)
+ .-|+|++|+|||.|.....|.-||+|+.+|.-..+
T Consensus 83 ~~~~p~r~~y~g~VfR~~~~~~gr~re~~Q~g~Eiig~~ 121 (314)
T TIGR00443 83 DRPLPLRLCYAGNVFRTNESGAGRSREFTQAGVELIGAG 121 (314)
T ss_pred cCCCCeEEEEeceEeecCCCcCCCcccccccceEEeCCC
Confidence 2 24999999999999988888999999999986543
No 90
>TIGR00418 thrS threonyl-tRNA synthetase. This model represents the threonyl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. Note that B. subtilis has closely related isozymes thrS and thrZ. The N-terminal regions are quite dissimilar between archaeal and eubacterial forms, while some eukaryotic forms are missing sequence there altogether..
Probab=97.86 E-value=0.00011 Score=83.21 Aligned_cols=118 Identities=17% Similarity=0.128 Sum_probs=80.0
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeecc----CCCCC----CCceeeccCCCCeeEEEEecHHHHHHHHHhcc--
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----AGGAE----ARPFVTYHNSLGRDLYLRIATELHLKRMLIGG-- 297 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~~Ga~----a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g-- 297 (580)
.-.+++..|.+.+|+.+.+.||.||.||+|... .+|.. ...|.. .+.-|..++||...+...=++....
T Consensus 198 ~g~~~~~~i~~~~~~~~~~~G~~ev~tP~l~~~~l~~~sg~~~~~~~emy~~-~d~~~~~~~LrP~~~~~i~~~~~~~~~ 276 (563)
T TIGR00418 198 KGATIRNLLEDFVRQKQIKYGYMEVETPIMYDLELWEISGHWDNYKERMFPF-TELDNREFMLKPMNCPGHFLIFKSSLR 276 (563)
T ss_pred cHHHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHHhcCCcccchhhccee-ccCCCceEEEecCCCHHHHHHHhCcCC
Confidence 345688999999999999999999999999864 12311 112221 1223578999977665544444322
Q ss_pred ----C-CceeEEecccccCCCCC----CCCccceeeeeEeecCCHHHHHHHHHHHHHHH
Q 008040 298 ----F-EKIYEIGRIFRNEGLST----RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHC 347 (580)
Q Consensus 298 ----~-~rVfeIg~~FR~E~~~~----rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~ 347 (580)
+ =|+|++|+|||+|.... -+.-||+|.|+|.-.. .++.....++++..+
T Consensus 277 s~~~lP~rl~~~g~~fR~E~~g~~~Gl~R~reF~q~~~~~~~~-~~~~~~e~~~~i~~~ 334 (563)
T TIGR00418 277 SYRDLPLRIAELGYSHRYEQSGELHGLMRVRGFTQDDAHIFCT-EDQIKEEFKNQFRLI 334 (563)
T ss_pred ChHHCCceeeEeccccCCCCCcCCcCcccccceEEeeeEEEcC-HHHHHHHHHHHHHHH
Confidence 2 29999999999995431 3788999999998544 455555544444433
No 91
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=97.84 E-value=0.00011 Score=80.72 Aligned_cols=103 Identities=17% Similarity=0.204 Sum_probs=73.5
Q ss_pred HHHHHHHHHHHHHHHHHhCCCeeecCceeecc----C-CCCC-----CCceeeccCCCCeeEEEEecHHHHHHHHHhc--
Q 008040 229 VFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----A-GGAE-----ARPFVTYHNSLGRDLYLRIATELHLKRMLIG-- 296 (580)
Q Consensus 229 ~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~-~Ga~-----a~pF~t~~~~~~~~~yL~~Spql~lk~llv~-- 296 (580)
-...|..|.+.+++.|...||.||+||++... . .|.. ...|.. .+.-|..+.||.-.=...=|.++.
T Consensus 17 ~~~~~~~i~~~i~~~~~~~Gy~~I~TP~~E~~e~~~~~~G~~~~~~~~~my~~-~d~~g~~l~LRpd~T~~iaR~~~~~~ 95 (430)
T CHL00201 17 EINYWQFIHDKALTLLSLANYSEIRTPIFENSSLYDRGIGETTDIVNKEMYRF-TDRSNRDITLRPEGTAGIVRAFIENK 95 (430)
T ss_pred HHHHHHHHHHHHHHHHHHcCCeeecCcccchHHHHhcccCCcccccccceEEE-EcCCCCEEEeCCCCcHHHHHHHHHcc
Confidence 45679999999999999999999999999853 1 2322 123332 123366788995433333443322
Q ss_pred ----cCC-ceeEEecccccCCCCCCCCccceeeeeEeecCC
Q 008040 297 ----GFE-KIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSD 332 (580)
Q Consensus 297 ----g~~-rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d 332 (580)
... |.|++|+|||+|....-+.-||||+++|.-..+
T Consensus 96 ~~~~~~p~R~~y~g~vfR~e~~q~GR~Ref~Q~g~EiiG~~ 136 (430)
T CHL00201 96 MDYHSNLQRLWYSGPMFRYERPQSGRQRQFHQLGIEFIGSI 136 (430)
T ss_pred ccccCCCeEEEEEcceecCCCCcCCccceeEEeceEEECCC
Confidence 123 999999999999988777889999999987653
No 92
>PF13393 tRNA-synt_His: Histidyl-tRNA synthetase; PDB: 3HRI_E 3HRK_A 3LC0_A 1Z7N_A 1Z7M_D 3NET_A 1H4V_B 3OD1_A 4E51_B 3RAC_A ....
Probab=97.84 E-value=0.00012 Score=76.49 Aligned_cols=117 Identities=26% Similarity=0.401 Sum_probs=78.7
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeecc----C-CCCCC-CceeeccCCCCeeEEEEecHHHHHHHHHhcc----
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----A-GGAEA-RPFVTYHNSLGRDLYLRIATELHLKRMLIGG---- 297 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~-~Ga~a-~pF~t~~~~~~~~~yL~~Spql~lk~llv~g---- 297 (580)
.-.+.+..|.+.+++.|..+||.||+||++... . .|... ..|.. .+.-|..+-||.---+-.=|+++..
T Consensus 8 ~~~~~~~~i~~~l~~~f~~~Gy~~i~~P~le~~~~~~~~~~~~~~~~~~~-~D~~G~~l~LR~D~T~~iaR~~a~~~~~~ 86 (311)
T PF13393_consen 8 EEARKRERIESKLREVFERHGYEEIETPLLEYYELFLDKSGEDSDNMYRF-LDRSGRVLALRPDLTVPIARYVARNLNLP 86 (311)
T ss_dssp HHHHHHHHHHHHHHHHHHHTT-EE-B--SEEEHHHHHCHSSTTGGCSEEE-ECTTSSEEEE-SSSHHHHHHHHHHCCGSS
T ss_pred HHHHHHHHHHHHHHHHHHHcCCEEEECCeEeecHHhhhccccchhhhEEE-EecCCcEeccCCCCcHHHHHHHHHhcCcC
Confidence 456788999999999999999999999999853 1 22222 33332 2335677788855444444555532
Q ss_pred -CCceeEEecccccCCCCCCCCccceeeeeEeecCC-HH---HHHHHHHHHHH
Q 008040 298 -FEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSD-YQ---SMMNITEEIVT 345 (580)
Q Consensus 298 -~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d-~~---d~m~l~E~li~ 345 (580)
.-|+|++|++||.+.....+.-||+|+.+|.-..+ .. +++.++-+++.
T Consensus 87 ~~~r~~y~g~vfR~~~~~~g~~re~~Q~g~Eiig~~~~~~daEvi~l~~e~l~ 139 (311)
T PF13393_consen 87 RPKRYYYIGPVFRYERPGKGRPREFYQCGFEIIGSSSLEADAEVIKLADEILD 139 (311)
T ss_dssp SSEEEEEEEEEEEEETTTTTBESEEEEEEEEEESSSSHHHHHHHHHHHHHHHH
T ss_pred CCceEEEEcceeeccccCCCCCceeEEEEEEEECCCCHHHHHHHHHHHHHHHH
Confidence 35899999999999887778889999999998764 33 45555555553
No 93
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=97.83 E-value=0.00014 Score=83.58 Aligned_cols=117 Identities=17% Similarity=0.242 Sum_probs=78.2
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeecc----CCCC----CCCceeeccCCCCeeEEEEecHHHHHHHHHhc---
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----AGGA----EARPFVTYHNSLGRDLYLRIATELHLKRMLIG--- 296 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~~Ga----~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~--- 296 (580)
.-.+++..|.+.+++.+...||.||.||+|... .+|. .-..|... +.-+..+.||....-..=++.+.
T Consensus 268 ~~~~~~~~i~~~~~~~~~~~Gy~ei~tP~le~~~l~~~~g~~~~~~~~my~~~-d~~~~~~~LRP~~~~~~~r~~~~~~~ 346 (638)
T PRK00413 268 KGWTIRRELERYIRRKLRKAGYQEVKTPQILDRELWETSGHWDHYRENMFPTT-ESDGEEYALKPMNCPGHVQIYKQGLR 346 (638)
T ss_pred cHHHHHHHHHHHHHHHHHHCCCEEEECCeeCCHHHHHhcCChhhhhhccceee-cCCCcEEEEecCCcHHHHHHHhCcCC
Confidence 346789999999999999999999999999864 1331 11234321 22367788986444333333331
Q ss_pred ---cCC-ceeEEecccccCCCCC----CCCccceeeeeEeecCCHHHHHHHHHHHHHH
Q 008040 297 ---GFE-KIYEIGRIFRNEGLST----RHNPEFTTIEMYEAYSDYQSMMNITEEIVTH 346 (580)
Q Consensus 297 ---g~~-rVfeIg~~FR~E~~~~----rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~ 346 (580)
.+. |+|++|+|||+|.... .+.-||||+|++. |..-+...+.+.++|..
T Consensus 347 s~~~lP~r~~~~g~~fR~E~~~~~~Gl~R~reF~q~~~~~-~g~~~~~~~e~~eii~l 403 (638)
T PRK00413 347 SYRDLPLRLAEFGTVHRYEPSGALHGLMRVRGFTQDDAHI-FCTPEQIEEEVKKVIDL 403 (638)
T ss_pred ChhhCCceeeeccCeecCCCCCCCcCcceeeeeEEeeEEE-EcCHHHHHHHHHHHHHH
Confidence 222 9999999999998753 4668999999997 65544444333444433
No 94
>COG2502 AsnA Asparagine synthetase A [Amino acid transport and metabolism]
Probab=97.81 E-value=0.0012 Score=65.87 Aligned_cols=116 Identities=19% Similarity=0.265 Sum_probs=64.2
Q ss_pred HHHHHHHHHHHH-----HhCCCeeecCceeeccCCCC------CCCceeeccCCCCee-EEEEecHHHHHHHHHh-ccC-
Q 008040 233 RAKIVSEIRKTV-----ESLGFVEVETPVLQGAAGGA------EARPFVTYHNSLGRD-LYLRIATELHLKRMLI-GGF- 298 (580)
Q Consensus 233 Rs~i~~~iR~fl-----~~~gF~EVeTPiL~~~~~Ga------~a~pF~t~~~~~~~~-~yL~~Spql~lk~llv-~g~- 298 (580)
+.+-|..+.++| ...|.+||..|+|+....|- ..++..+........ +-.-.|--=++...++ -||
T Consensus 8 qQ~~IsfvKn~Ft~~l~~~L~lieVq~Pils~vg~G~qDnLsg~ekaVsv~vk~~p~a~fEvVhSLAKWKR~tL~r~~f~ 87 (330)
T COG2502 8 QQQAISFVKNTFTQHLEERLGLIEVQAPILSRVGDGLQDNLSGTEKAVSVKVKKLPDATFEVVHSLAKWKRHTLARYGFS 87 (330)
T ss_pred HHHHHHHHHHHHHHHHHHhcCeEEeecceEeccCCcccccccccccceEEEEeecCCchhhhhHHHHHHHHHHHHhcCCc
Confidence 344444444444 45799999999998543221 123333322222222 2233454555544443 133
Q ss_pred --CceeEEeccccc-CC-CCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHH
Q 008040 299 --EKIYEIGRIFRN-EG-LSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCA 348 (580)
Q Consensus 299 --~rVfeIg~~FR~-E~-~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~ 348 (580)
+..|.=.++.|. |+ .|..|.-=--|-|||....+-+--++...+.+..+.
T Consensus 88 ~~eGlythM~AlRpDeD~ld~~HSvYVDQWDWEkvi~~g~rNl~yLK~tV~kIY 141 (330)
T COG2502 88 AGEGLYTHMKALRPDEDRLDPIHSVYVDQWDWEKVIPDGDRNLAYLKSTVEKIY 141 (330)
T ss_pred CCCceeeechhcCCCcccccchheEEecccchhhhcCCccccHHHHHHHHHHHH
Confidence 688999999987 55 577898777777777766543333333333443333
No 95
>PLN02972 Histidyl-tRNA synthetase
Probab=97.80 E-value=0.00013 Score=83.93 Aligned_cols=118 Identities=19% Similarity=0.247 Sum_probs=81.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCeeecCceeeccC-----CCCCCC-ceeeccCCCCeeEEEEecHHHHHHHHHhcc---
Q 008040 227 ADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAA-----GGAEAR-PFVTYHNSLGRDLYLRIATELHLKRMLIGG--- 297 (580)
Q Consensus 227 ~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~-----~Ga~a~-pF~t~~~~~~~~~yL~~Spql~lk~llv~g--- 297 (580)
-.-..+|..|...+++.|..+||.||+||++.... .|...+ .|.. .+.-|..+-||.---.-.=|+++..
T Consensus 338 P~e~~~re~I~~~L~~vFk~hGy~eI~TPvfE~~Ell~~k~Ged~k~mY~f-~D~gGr~LaLRPDlTvPiAR~vA~n~~~ 416 (763)
T PLN02972 338 KEQMAIREKAFSIITSVFKRHGATALDTPVFELRETLMGKYGEDSKLIYDL-ADQGGELCSLRYDLTVPFARYVAMNGIT 416 (763)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCEEccCCcccchHHhhcccCcchhheEEE-ECCCCCEEEeCCCChHHHHHHHHhCCCC
Confidence 35567899999999999999999999999997531 222221 2221 2334667778854444444555432
Q ss_pred CCceeEEecccccCCCCCCCCccceeeeeEeecC-CH----HHHHHHHHHHHH
Q 008040 298 FEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYS-DY----QSMMNITEEIVT 345 (580)
Q Consensus 298 ~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~-d~----~d~m~l~E~li~ 345 (580)
--|.|+||+|||.|....-+.-||+|+++|.... +. -+++.++-+.++
T Consensus 417 p~KrYyiG~VFR~e~pqkGR~REF~Q~G~EIIG~~~~~~aDAEVI~La~E~L~ 469 (763)
T PLN02972 417 SFKRYQIAKVYRRDNPSKGRYREFYQCDFDIAGVYEPMGPDFEIIKVLTELLD 469 (763)
T ss_pred cceEEEeccEEecCCCCCCCCccceEEeEEEEcCCCcchhhHHHHHHHHHHHH
Confidence 2378889999999988777888999999999864 21 345555555443
No 96
>PRK12292 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=97.79 E-value=0.00011 Score=79.72 Aligned_cols=117 Identities=23% Similarity=0.263 Sum_probs=79.5
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeecc----C-CCCC--CCceeeccCC-CCeeEEEEecHHHHHHHHHhcc--
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----A-GGAE--ARPFVTYHNS-LGRDLYLRIATELHLKRMLIGG-- 297 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~-~Ga~--a~pF~t~~~~-~~~~~yL~~Spql~lk~llv~g-- 297 (580)
.-.+.|..+.+.+++.|.++||.||+||+|... . .|.. ...|.. .+. -|..+-||.---.-.-|+++..
T Consensus 15 ~~~~~~~~i~~~l~~~f~~~Gy~~i~tP~lE~~e~~~~~~g~~~~~~~~~f-~d~~~g~~l~LRpD~T~~iaR~~a~~~~ 93 (391)
T PRK12292 15 EEARKIEEIRRRLLDLFRRWGYEEVITPTLEYLDTLLAGGGAILDLRTFKL-VDQLSGRTLGLRPDMTAQIARIAATRLA 93 (391)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCceeeCcchhhHHHHhccCCccchhhhEEE-eecCCCCEEEECCCCcHHHHHHHHHhcc
Confidence 455679999999999999999999999999742 1 1211 123332 122 3667778843333333444432
Q ss_pred -C---CceeEEecccccCCCCCCCCccceeeeeEeecCC-H---HHHHHHHHHHHH
Q 008040 298 -F---EKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSD-Y---QSMMNITEEIVT 345 (580)
Q Consensus 298 -~---~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d-~---~d~m~l~E~li~ 345 (580)
. -|+|++|+|||.|....-+.-||+|+.+|.-..+ . -+++.++-+++.
T Consensus 94 ~~~~p~r~~y~g~vfR~~~~~~gr~ref~Q~g~EiiG~~~~~aDaEvi~l~~~~l~ 149 (391)
T PRK12292 94 NRPGPLRLCYAGNVFRAQERGLGRSREFLQSGVELIGDAGLEADAEVILLLLEALK 149 (391)
T ss_pred CCCCCeEEEeeceeeecCCCcCCCccchhccceEEeCCCCchHHHHHHHHHHHHHH
Confidence 1 3899999999999988888999999999997654 2 244444444443
No 97
>PRK12293 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=97.78 E-value=0.00017 Score=74.82 Aligned_cols=112 Identities=19% Similarity=0.233 Sum_probs=73.9
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeeccC--CC-CCCCceeeccCCCCeeEEEEecHHHHHHHHHhcc------C
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAA--GG-AEARPFVTYHNSLGRDLYLRIATELHLKRMLIGG------F 298 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~--~G-a~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g------~ 298 (580)
.-...+..|.+.+++.|...||-||+||++.... .. ..-..|.. .+.-|..+-||.---.-.-|+++.. -
T Consensus 17 ~e~~~~~~i~~~l~~vf~~~Gy~~I~tP~lE~~e~~~~~~~~~~y~~-~D~~g~~l~LRpD~T~~iaR~~a~~~~~~~~p 95 (281)
T PRK12293 17 KSAKLKREIENVASEILYENGFEEIVTPFFSYHQHQSIADEKELIRF-SDEKNHQISLRADSTLDVVRIVTKRLGRSTEH 95 (281)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCeEeeccceeehhhhcccchhceEEE-ECCCCCEEEECCcCCHHHHHHHHHhcccCCCc
Confidence 3456788999999999999999999999998532 11 11123332 2234566778843322223333322 2
Q ss_pred CceeEEecccccCCCCCCCCccceeeeeEeecCC-HHHHHHHHHHHHHH
Q 008040 299 EKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSD-YQSMMNITEEIVTH 346 (580)
Q Consensus 299 ~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d-~~d~m~l~E~li~~ 346 (580)
-|.|++|+|||.|. .||+|+.+|.-..+ ..+++.++-+.++.
T Consensus 96 ~r~~Y~g~vfR~~~------rEf~Q~GvEliG~~~~~Evi~la~~~l~~ 138 (281)
T PRK12293 96 KKWFYIQPVFRYPS------NEIYQIGAELIGEEDLSEILNIAAEIFEE 138 (281)
T ss_pred eeEEEeccEEecCC------CcccccCeEeeCCCCHHHHHHHHHHHHHH
Confidence 38999999999884 69999999998764 55555555544433
No 98
>PLN02530 histidine-tRNA ligase
Probab=97.78 E-value=0.00013 Score=81.43 Aligned_cols=104 Identities=24% Similarity=0.354 Sum_probs=74.1
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeecc---C--CCCCC--CceeeccCCCCeeEEEEecHHHHHHHHHhcc---
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA---A--GGAEA--RPFVTYHNSLGRDLYLRIATELHLKRMLIGG--- 297 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~---~--~Ga~a--~pF~t~~~~~~~~~yL~~Spql~lk~llv~g--- 297 (580)
.-.++|..|.+.+++.|...||.||+||+|... . .|... ..|.. .+..|..+-||.-.-...=|+++..
T Consensus 82 ~~~~~~~~i~~~~~~~~~~~Gy~~I~tP~lE~~el~~~~~g~~~~~~~y~f-~D~~g~~l~LRpD~T~~iaR~~~~~~~~ 160 (487)
T PLN02530 82 EDMRLRNWLFDHFREVSRLFGFEEVDAPVLESEELYIRKAGEEITDQLYNF-EDKGGRRVALRPELTPSLARLVLQKGKS 160 (487)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCEeccccccchHHHhccccCcccccceEEE-ECCCCCEEecCCCCcHHHHHHHHhcccc
Confidence 446789999999999999999999999999863 1 22221 22221 2334667778854333334444432
Q ss_pred --C-CceeEEecccccCCCCCCCCccceeeeeEeecCC
Q 008040 298 --F-EKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSD 332 (580)
Q Consensus 298 --~-~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d 332 (580)
+ -|.|++|+|||.|....-+.-||+|+.+|.-..+
T Consensus 161 ~~~P~r~~y~g~vfR~e~~q~gr~REf~Q~giEiiG~~ 198 (487)
T PLN02530 161 LSLPLKWFAIGQCWRYERMTRGRRREHYQWNMDIIGVP 198 (487)
T ss_pred cCCCeEEEEEcCEEcCcCCCCCCccceEEcCeeEeCCC
Confidence 2 3899999999999987777899999999997654
No 99
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=97.74 E-value=0.00016 Score=78.74 Aligned_cols=117 Identities=28% Similarity=0.363 Sum_probs=82.4
Q ss_pred HHHHHHHHHHHHHHHHHhCCCeeecCceeeccC-----CCCCCCc--ee--eccCCCCeeEEEEecHHHHHHHHHhcc--
Q 008040 229 VFRKRAKIVSEIRKTVESLGFVEVETPVLQGAA-----GGAEARP--FV--TYHNSLGRDLYLRIATELHLKRMLIGG-- 297 (580)
Q Consensus 229 ~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~-----~Ga~a~p--F~--t~~~~~~~~~yL~~Spql~lk~llv~g-- 297 (580)
-...|..|...+|+-+.+.||.||.||++-.+. .|..++- -. +..+--|+.+-||.-.---.=|+++..
T Consensus 17 d~~~~~~i~~~~~~v~~~yGf~eI~TPifE~telf~r~~Ge~td~v~kemY~F~Dkggr~laLRpe~Tapv~R~~~en~~ 96 (429)
T COG0124 17 DMALREYIESTIRKVFESYGFSEIRTPIFEYTELFARKSGEETDVVEKEMYTFKDKGGRSLALRPELTAPVARAVAENKL 96 (429)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEeccCccccchhHhhhccCCcccccccceEEEEeCCCCEEEecccCcHHHHHHHHhccc
Confidence 567889999999999999999999999998542 3433221 11 122345778888843333333444322
Q ss_pred ----CCceeEEecccccCCCCCCCCccceeeeeEeecCCH----HHHHHHHHHHHH
Q 008040 298 ----FEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSDY----QSMMNITEEIVT 345 (580)
Q Consensus 298 ----~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d~----~d~m~l~E~li~ 345 (580)
--|.|.+|||||.|....-+.-||+|+++|....+- -+++.++-+++.
T Consensus 97 ~~~~p~k~yy~g~vfRyErPQ~GR~RqF~Q~g~E~iG~~~~~~DAEvi~l~~~~l~ 152 (429)
T COG0124 97 DLPKPLKLYYFGPVFRYERPQKGRYRQFYQFGVEVIGSDSPDADAEVIALAVEILE 152 (429)
T ss_pred cccCCeeEEEecceecCCCCCCCCceeeEEcCeEEeCCCCcccCHHHHHHHHHHHH
Confidence 249999999999999999999999999999987642 345555555553
No 100
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=97.73 E-value=0.00022 Score=81.36 Aligned_cols=121 Identities=24% Similarity=0.211 Sum_probs=88.7
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeecc--------CCCCCCCceeeccCCCCeeEEEEecHHHHHHHHHhcc--
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA--------AGGAEARPFVTYHNSLGRDLYLRIATELHLKRMLIGG-- 297 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~--------~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g-- 297 (580)
.-.+++..|.+.+++.+.+.||.+|.||.|... ..+-+.+.|.+.. -+.+++|+...+..+=.+....
T Consensus 225 ~G~~i~~~L~~~~~~~~~~~G~~~V~tP~~~~~~~~~~sgh~~~f~e~my~v~~--~~e~l~Lrp~~c~~~~~~~~~~~~ 302 (613)
T PRK03991 225 KGRLIRDLLEDYVYNLVVELGAMPVETPIMYDLSHPAIREHADKFGERQYRVKS--DKKDLMLRFAACFGQFLMLKDMTI 302 (613)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCEEEECCeecChhHHhhcccccccchhceEecC--CCceEEEecCCCHHHHHHHhCCcC
Confidence 567899999999999999999999999999422 1222234555422 2568999977664432221111
Q ss_pred ----C-CceeEEec-ccccCCCCC----CCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHH
Q 008040 298 ----F-EKIYEIGR-IFRNEGLST----RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALA 350 (580)
Q Consensus 298 ----~-~rVfeIg~-~FR~E~~~~----rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~ 350 (580)
+ =|+||+|+ |||+|-... .+.-||||.|++.-..+.++.++..++++..+..-
T Consensus 303 SyrdLPlr~~e~~~~~fR~E~~g~l~GL~RvReF~~~D~h~f~~~~eqa~~e~~~~l~~~~~i 365 (613)
T PRK03991 303 SYKNLPLKMYELSTYSFRLEQRGELVGLKRLRAFTMPDMHTLCKDMEQAMEEFEKQYEMILET 365 (613)
T ss_pred chhhCChhhheecchheeCCCCCCCcCcccccceEeeeEEEEECCHHHHHHHHHHHHHHHHHH
Confidence 1 28999999 999998652 58899999999997677899999888888776553
No 101
>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.
Probab=97.71 E-value=0.00058 Score=56.27 Aligned_cols=72 Identities=19% Similarity=0.272 Sum_probs=59.8
Q ss_pred EEEEEEEEeEec-CCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecC-CceeEEEEeEEE
Q 008040 114 VSVAGRVVARRA-FGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTE-KGELSVLVNSFV 190 (580)
Q Consensus 114 V~v~GrV~~~R~-~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~-~ge~el~~~~i~ 190 (580)
++|.|-|.++|. .++.+|++|.|.++.+.+++-.+ .++.....|..|+.|.|+|.+.... +|.+.|.++++.
T Consensus 2 ~~v~g~v~~i~~tk~g~~~~~L~D~~~~i~~~~f~~-----~~~~~~~~l~~g~~v~v~g~v~~~~~~~~~~l~v~~i~ 75 (78)
T cd04489 2 VWVEGEISNLKRPSSGHLYFTLKDEDASIRCVMWRS-----NARRLGFPLEEGMEVLVRGKVSFYEPRGGYQLIVEEIE 75 (78)
T ss_pred EEEEEEEecCEECCCcEEEEEEEeCCeEEEEEEEcc-----hhhhCCCCCCCCCEEEEEEEEEEECCCCEEEEEEEEEE
Confidence 678999999885 33499999999999999999875 3555666789999999999999654 678999998874
No 102
>PRK12420 histidyl-tRNA synthetase; Provisional
Probab=97.67 E-value=0.00025 Score=77.60 Aligned_cols=118 Identities=22% Similarity=0.313 Sum_probs=80.2
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeecc----C-CCCCC----CceeeccCCCCeeEEEEecHHHHHHHHHhc--
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----A-GGAEA----RPFVTYHNSLGRDLYLRIATELHLKRMLIG-- 296 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~-~Ga~a----~pF~t~~~~~~~~~yL~~Spql~lk~llv~-- 296 (580)
.-..++..|.+.+++.|..+||.||.||+|... . .|.+. ..|.. .+..|..+-||.---.-.-|+++.
T Consensus 16 ~~~~~~~~i~~~l~~~f~~~Gy~~i~tP~lE~~~~~~~~~~~~~~~~~~~~~~-~D~~g~~l~LRpD~T~~iaR~va~~~ 94 (423)
T PRK12420 16 EEQVLRNKIKRALEDVFERYGCKPLETPTLNMYELMSSKYGGGDEILKEIYTL-TDQGKRDLALRYDLTIPFAKVVAMNP 94 (423)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCEeccccccchHHHHhcccCCCcccccceEEE-ecCCCceecccccccHHHHHHHHhCc
Confidence 445678899999999999999999999999863 1 12221 12321 223466777884433333344442
Q ss_pred c--CC-ceeEEecccccCCCCCCCCccceeeeeEeecCC----HHHHHHHHHHHHHH
Q 008040 297 G--FE-KIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSD----YQSMMNITEEIVTH 346 (580)
Q Consensus 297 g--~~-rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d----~~d~m~l~E~li~~ 346 (580)
. +. |.|++|+|||.|....-|.-||+|+.+|.-..+ --+++.++-+.++.
T Consensus 95 ~~~~p~r~~y~g~vfR~~~~~~gr~rE~~Q~g~EiiG~~~~~adaEvi~la~~~l~~ 151 (423)
T PRK12420 95 NIRLPFKRYEIGKVFRDGPIKQGRFREFIQCDVDIVGVESVMAEAELMSMAFELFRR 151 (423)
T ss_pred CCCCCeeEEEEcceECCCCCCCCccceeEECCeeeECCCCCcccHHHHHHHHHHHHH
Confidence 2 23 899999999999887788999999999987643 24555555555543
No 103
>KOG2784 consensus Phenylalanyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]
Probab=97.60 E-value=0.0001 Score=76.65 Aligned_cols=48 Identities=31% Similarity=0.465 Sum_probs=42.6
Q ss_pred CceeEEecccccCCCCCCCCccceeeeeEeecC--CHHHHHHHHHHHHHH
Q 008040 299 EKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYS--DYQSMMNITEEIVTH 346 (580)
Q Consensus 299 ~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~--d~~d~m~l~E~li~~ 346 (580)
-|+|.|-++||||..|++|+.||.|+|--.+.. ++-|+|-+.++++..
T Consensus 334 ~K~FSIDrVFRNEtvDaTHLAEFHQVEGviad~gltLgdLig~l~~ff~~ 383 (483)
T KOG2784|consen 334 AKYFSIDRVFRNETVDATHLAEFHQVEGVIADKGLTLGDLIGILMEFFTK 383 (483)
T ss_pred ccccchhhhhhccccchHHHHHHhhhceeeecCCCcHHHHHHHHHHHHhc
Confidence 499999999999999999999999999988865 688999988887743
No 104
>PRK12421 ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=97.59 E-value=0.00046 Score=74.87 Aligned_cols=117 Identities=11% Similarity=0.150 Sum_probs=78.3
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeecc---CC--CCC--CCceeeccCC-CCeeEEEEe--cHHHHHHHHHhc-
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA---AG--GAE--ARPFVTYHNS-LGRDLYLRI--ATELHLKRMLIG- 296 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~---~~--Ga~--a~pF~t~~~~-~~~~~yL~~--Spql~lk~llv~- 296 (580)
.-.+.+..|.+.+++.|..+||.||+||++... .. |.. ...|.. .+. -|..+-||. .+++- |+++.
T Consensus 19 ~e~~~~~~i~~~l~~~f~~~Gy~~I~tP~~E~~e~~~~~~g~~~~~~~y~f-~D~~~g~~l~LRpD~T~~ia--R~~a~~ 95 (392)
T PRK12421 19 EEAQKIERLRRRLLDLFASRGYQLVMPPLIEYLESLLTGAGQDLKLQTFKL-IDQLSGRLMGVRADITPQVA--RIDAHL 95 (392)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCEEeeCcchhhHHHHhccCCccchhceEEE-EcCCCCcEEEECCcCCHHHH--HHHHhh
Confidence 346678999999999999999999999999843 11 221 122322 222 255566773 33332 33221
Q ss_pred ----cCCceeEEecccccCCCCCCCCccceeeeeEeecCC-HH---HHHHHHHHHHHHH
Q 008040 297 ----GFEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSD-YQ---SMMNITEEIVTHC 347 (580)
Q Consensus 297 ----g~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d-~~---d~m~l~E~li~~~ 347 (580)
.--|.|++|+|||.+.......-||+|+.+|.-..+ .. +++.++-+.++.+
T Consensus 96 ~~~~~p~R~~Y~g~VfR~~~~~~gr~rEf~Q~GvEiiG~~~~~aDaEvi~l~~e~l~~l 154 (392)
T PRK12421 96 LNREGVARLCYAGSVLHTLPQGLFGSRTPLQLGAELYGHAGIEADLEIIRLMLGLLRNA 154 (392)
T ss_pred cCCCCceEEEEeeeEEEcCCCcCCCcCccceeceEEeCCCCchhHHHHHHHHHHHHHHc
Confidence 235999999999999877778899999999987653 32 5566555555443
No 105
>PLN02837 threonine-tRNA ligase
Probab=97.49 E-value=0.00053 Score=78.54 Aligned_cols=120 Identities=13% Similarity=0.052 Sum_probs=83.6
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeeccC----CCC----CCCceeeccCCCCeeEEEEecHHHHHHHHHhccC-
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGAA----GGA----EARPFVTYHNSLGRDLYLRIATELHLKRMLIGGF- 298 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~----~Ga----~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g~- 298 (580)
.-.+++..|++.+++...++||.||.||.|.... .|- ....|.+. +.-+..+.|+.+.+-..=.+...-.
T Consensus 245 ~G~~l~~~L~~~~~~~~~~~G~~~v~tP~l~~~~l~~~sGh~~~~~~~mf~~~-~~~~~~y~l~p~~~p~~~~~~~~~~~ 323 (614)
T PLN02837 245 KGAIVRHIIEDSWKKMHFEHGYDLLYTPHVAKADLWKTSGHLDFYKENMYDQM-DIEDELYQLRPMNCPYHILVYKRKLH 323 (614)
T ss_pred hHHHHHHHHHHHHHHHHHHCCCEEEECCccCCHHHHhhcCCcccchhhccccc-CCCCceEEECCCCcHHHHHHHhCccC
Confidence 4678899999999999999999999999999641 231 11223221 1113444588665533111111111
Q ss_pred ------CceeEEecccccCCCCC----CCCccceeeeeEeecCCHHHHHHHHHHHHHHHHH
Q 008040 299 ------EKIYEIGRIFRNEGLST----RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCAL 349 (580)
Q Consensus 299 ------~rVfeIg~~FR~E~~~~----rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~ 349 (580)
=|++|+|+|||+|.+.. -+.-||+|.|.+. |.+.++..+.+++++..+..
T Consensus 324 SyrdLPlr~~~~~~~~R~E~~g~~~GL~RvreF~~~e~h~-f~~~~q~~~e~~~~l~~~~~ 383 (614)
T PLN02837 324 SYRDLPIRVAELGTVYRYELSGSLHGLFRVRGFTQDDAHI-FCLEDQIKDEIRGVLDLTEE 383 (614)
T ss_pred ChhHCCHhhEeecccccCCCCCCCcCcccccceEECeEEE-EeCHHHHHHHHHHHHHHHHH
Confidence 28999999999998642 5788999999996 99988888888888876544
No 106
>PRK04173 glycyl-tRNA synthetase; Provisional
Probab=97.39 E-value=0.00075 Score=74.60 Aligned_cols=49 Identities=20% Similarity=0.162 Sum_probs=38.5
Q ss_pred ceeEEecccccCCCCC---CCCccceeeeeEeecCCHHHHHHHHHHHHHHHHH
Q 008040 300 KIYEIGRIFRNEGLST---RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCAL 349 (580)
Q Consensus 300 rVfeIg~~FR~E~~~~---rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~ 349 (580)
|++|+|+|||||-+.. -+..||||.|.+ .|.+.+++.+.+..++..+..
T Consensus 188 r~aq~g~~~RnE~s~~~gL~RvReF~q~e~h-iF~~peq~~~e~~~~l~~~~~ 239 (456)
T PRK04173 188 GIAQIGKSFRNEITPRNFIFRTREFEQMELE-FFVKPGTDNEWFAYWIELRKN 239 (456)
T ss_pred eeeEEchhHhCccCCCCCceeeceeeeeEEE-EEECcChHHHHHHHHHHHHHH
Confidence 8999999999998763 355899999997 688877777766666655443
No 107
>PRK12295 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=97.36 E-value=0.00087 Score=72.20 Aligned_cols=110 Identities=25% Similarity=0.369 Sum_probs=71.1
Q ss_pred HHHHHHHHHHHHhCCCeeecCceeeccC-----CCCCC--CceeeccCCCCeeEEEEecHHHHHHHHHh----ccCCcee
Q 008040 234 AKIVSEIRKTVESLGFVEVETPVLQGAA-----GGAEA--RPFVTYHNSLGRDLYLRIATELHLKRMLI----GGFEKIY 302 (580)
Q Consensus 234 s~i~~~iR~fl~~~gF~EVeTPiL~~~~-----~Ga~a--~pF~t~~~~~~~~~yL~~Spql~lk~llv----~g~~rVf 302 (580)
..|.+.+++.|..+||.||+||++.... .|... ..|.. .+.-|..+-||.---.-.=|+++ ..--|+|
T Consensus 8 ~~i~~~i~~~f~~~Gy~~I~tP~lE~~e~~~~~~g~~~~~~~~~f-~D~~G~~l~LRpD~T~piaR~~~~~~~~~p~R~~ 86 (373)
T PRK12295 8 AAAAEALLASFEAAGAVRVDPPILQPAEPFLDLSGEDIRRRIFVT-SDENGEELCLRPDFTIPVCRRHIATAGGEPARYA 86 (373)
T ss_pred HHHHHHHHHHHHHcCCEEeeCCccccHHHhhhccCchhhcceEEE-ECCCCCEEeeCCCCcHHHHHHHHHcCCCCCeEEE
Confidence 3788999999999999999999998631 22221 23332 22336677788322222222222 2234899
Q ss_pred EEecccccCCCCCCCCccceeeeeEeecC-C-H---HHHHHHHHHHHHHH
Q 008040 303 EIGRIFRNEGLSTRHNPEFTTIEMYEAYS-D-Y---QSMMNITEEIVTHC 347 (580)
Q Consensus 303 eIg~~FR~E~~~~rH~pEFtmlE~e~a~~-d-~---~d~m~l~E~li~~~ 347 (580)
++|+|||.| .-+.-||||+.+|.-.. + . -+++.++-+.+..+
T Consensus 87 Y~g~VfR~~---~gr~rEf~Q~GvEiiG~~~~~~aDaEvi~l~~~~L~~l 133 (373)
T PRK12295 87 YLGEVFRQR---RDRASEFLQAGIESFGRADPAAADAEVLALALEALAAL 133 (373)
T ss_pred EEccEEECC---CCCCCcceEeeEEeeCCCCCccchHHHHHHHHHHHHHc
Confidence 999999999 33567999999999764 3 2 25666666655443
No 108
>cd04487 RecJ_OBF2_like RecJ_OBF2_like: A subfamily of OB folds corresponding to the second OB fold (OBF2) of archaeal-specific proteins with similarity to eubacterial RecJ. RecJ is an ssDNA-specific exonuclease. Although the overall sequence similarity of these proteins to eubacterial RecJ proteins is marginal, they appear to carry motifs, which have been shown to be essential for nuclease function in Escherichia coli RecJ. In addition to this OB fold, most proteins in this subfamily contain: i) an N-terminal OB fold belonging to a different domain family (the ribosomal S1-like RNA-binding family); and ii) a domain, C-terminal to OBF2, characteristic of DHH family proteins. DHH family proteins include E. coli RecJ, and are predicted to have a phosphoesterase function.
Probab=97.25 E-value=0.0029 Score=52.21 Aligned_cols=73 Identities=30% Similarity=0.449 Sum_probs=58.1
Q ss_pred EEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEEEc
Q 008040 114 VSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFVIL 192 (580)
Q Consensus 114 V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~vl 192 (580)
|.|.|-|.+.+..|+=.|+.|.|+.+.|.+++-+... .. +...+..||-|.|.|.+.- ++|.+.+.|+++++|
T Consensus 1 v~v~GeVs~~~~~~GHvyfsLkD~~a~i~cv~f~~~~----~~-~~~~l~~Gd~V~v~G~v~~-~~G~~ql~v~~i~~~ 73 (73)
T cd04487 1 VHIEGEVVQIKQTSGPTIFTLRDETGTVWAAAFEEAG----VR-AYPEVEVGDIVRVTGEVEP-RDGQLQIEVESLEVL 73 (73)
T ss_pred CEEEEEEeccccCCCCEEEEEEcCCEEEEEEEEchhc----cC-CcCCCCCCCEEEEEEEEec-CCeEEEEEEeeEEEC
Confidence 4688888876446666999999999999999876531 12 2233699999999999986 899999999999886
No 109
>COG0442 ProS Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=97.21 E-value=0.0011 Score=73.53 Aligned_cols=116 Identities=26% Similarity=0.309 Sum_probs=89.8
Q ss_pred HHHHHHHHHHHHHHHHHhCCCeeecCceeeccC--------CCCCCCceeeccCCCCeeEEEEecHHHHHHHHHh---cc
Q 008040 229 VFRKRAKIVSEIRKTVESLGFVEVETPVLQGAA--------GGAEARPFVTYHNSLGRDLYLRIATELHLKRMLI---GG 297 (580)
Q Consensus 229 ~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~--------~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~llv---~g 297 (580)
-++++.+|.+.||+-|++.|..||--|+|+++. .|-+-..|.... ..+.++.|+...|--.--++. ..
T Consensus 46 g~rv~~kI~~iir~em~~~G~~Evl~P~L~p~eLwkEs~r~~~f~~El~~v~d-rg~~~l~L~PTsEe~it~~~~~~i~S 124 (500)
T COG0442 46 GLRVLEKIENIIREEMDKIGAQEVLFPTLIPAELWKESGRWEGFGPELFRVKD-RGDRPLALRPTSEEVITDMFRKWIRS 124 (500)
T ss_pred HHHHHHHHHHHHHHHHHhcCceEEechhcCHHHHHHHhChhhhcchhhEEEEc-cCCceeeeCCCcHHHHHHHHHHHhhh
Confidence 478899999999999999999999999999852 222334554433 348899999777654333322 11
Q ss_pred C----CceeEEecccccCCCCC---CCCccceeeeeEeecCCHHHHHHHHHHHHH
Q 008040 298 F----EKIYEIGRIFRNEGLST---RHNPEFTTIEMYEAYSDYQSMMNITEEIVT 345 (580)
Q Consensus 298 ~----~rVfeIg~~FR~E~~~~---rH~pEFtmlE~e~a~~d~~d~m~l~E~li~ 345 (580)
. =++|||...||+|--.+ -+.-||+|=|.|..+.|.+++....++++.
T Consensus 125 YkdLPl~lYQi~~kfRdE~rpr~gllR~REF~mkdaySfh~~~e~a~~~y~~~~~ 179 (500)
T COG0442 125 YKDLPLKLYQIQSKFRDEKRPRFGLLRGREFLMKDAYSFHADEEDAEETYEKMLD 179 (500)
T ss_pred hhhCCcceeeeeeEEeccccCCCCccchheeeecccccccCCHHHHHHHHHHHHH
Confidence 1 38999999999998644 588999999999999999999988888775
No 110
>PRK12294 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=97.18 E-value=0.003 Score=65.16 Aligned_cols=117 Identities=10% Similarity=0.036 Sum_probs=75.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCCeeecCceeecc----CCCCCC--CceeeccCCCCeeEEEEecHHHHHHHHHh---cc
Q 008040 227 ADVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----AGGAEA--RPFVTYHNSLGRDLYLRIATELHLKRMLI---GG 297 (580)
Q Consensus 227 ~~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~~Ga~a--~pF~t~~~~~~~~~yL~~Spql~lk~llv---~g 297 (580)
++.+..+..|.+.+++.|.++||-||+||++-.. ..+... ..|....+.-|+.+-||.-.-...-|+++ .+
T Consensus 4 ~~~~~~~~~ie~~l~~~f~~~GY~~I~tP~~E~~d~~~~~~~~~~~~~~~~~~~~~Gr~laLRpD~T~~iAR~~a~~~~~ 83 (272)
T PRK12294 4 SEQLIALKESETAFLKYFNKADYELVDFSVIEKLDWKQLNHEDLQQMGERSFWQHEHQIYALRNDFTDQLLRYYSMYPTA 83 (272)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCeEeeCCcchhHHhhhccccchhhhheeeeecCCCCEEEEcCCCCHHHHHHHHhcCCC
Confidence 4456678889999999999999999999999632 122111 12222222346778899544333445443 24
Q ss_pred CCceeEEecccccCCCCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHH
Q 008040 298 FEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAV 351 (580)
Q Consensus 298 ~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v 351 (580)
..|.|.+|++||++. +|+|+-+|.-..+.+...+.+ .+...++..+
T Consensus 84 ~~Rl~Y~g~VfR~~~-------~~~Q~GvEliG~~~~a~~e~l-~la~~~l~~~ 129 (272)
T PRK12294 84 ATKVAYAGLIIRNNE-------AAVQVGIENYAPSLANVQQSF-KLFIQFIQQQ 129 (272)
T ss_pred CceEEEeccEeccCC-------CcceeceEEECCCchhHHHHH-HHHHHHHHHh
Confidence 569999999999873 499999998875444444444 3333334444
No 111
>PLN02678 seryl-tRNA synthetase
Probab=97.15 E-value=0.0015 Score=71.68 Aligned_cols=119 Identities=15% Similarity=0.179 Sum_probs=73.5
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeecc--CCCC-CCCceeec---cCCCCeeEEEEecHHH-----HHHHHH-h
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA--AGGA-EARPFVTY---HNSLGRDLYLRIATEL-----HLKRML-I 295 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~--~~Ga-~a~pF~t~---~~~~~~~~yL~~Spql-----~lk~ll-v 295 (580)
.-.+++..|++.+++++.++||.||.||.|... -.|+ ...-|... ...-+.+.||.-..|. |....+ -
T Consensus 172 ~ga~L~~AL~~y~ld~~~~~Gy~~V~~P~lv~~~~~~~sG~~~~f~e~my~i~~~~~~~yLi~TaE~~l~~~h~~~~~s~ 251 (448)
T PLN02678 172 AGVLLNQALINFGLAFLRKRGYTPLQTPFFMRKDVMAKCAQLAQFDEELYKVTGEGDDKYLIATSEQPLCAYHRGDWIDP 251 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCEEEECcccccHHHHhhcCCcccchhcCceecCCCCceeeecccccccChHHhcccCCH
Confidence 347889999999999999999999999999853 1222 22222210 0001235665433221 111100 0
Q ss_pred ccC-CceeEEecccccCCC----CC---CCCccceeeeeEeecCCHHH--HHHHHHHHHHHH
Q 008040 296 GGF-EKIYEIGRIFRNEGL----ST---RHNPEFTTIEMYEAYSDYQS--MMNITEEIVTHC 347 (580)
Q Consensus 296 ~g~-~rVfeIg~~FR~E~~----~~---rH~pEFtmlE~e~a~~d~~d--~m~l~E~li~~~ 347 (580)
..+ =|++++++|||+|-. ++ .+.-+|+++|.+. |..-++ ..+..|+|+...
T Consensus 252 ~eLPlr~~~~s~cfR~Eags~G~~~~GL~RvhqF~KvE~f~-~~~pe~~~s~~~~e~~l~~~ 312 (448)
T PLN02678 252 KELPIRYAGYSTCFRKEAGSHGRDTLGIFRVHQFEKVEQFC-ITSPNGNESWEMHEEMLKNS 312 (448)
T ss_pred HhCCceeEEeccccccccccCCCcCCcceEEEEEEEEEEEE-EECCCchhHHHHHHHHHHHH
Confidence 111 389999999999986 33 5777999999954 554444 566666666544
No 112
>PLN02320 seryl-tRNA synthetase
Probab=96.97 E-value=0.0026 Score=70.54 Aligned_cols=118 Identities=20% Similarity=0.249 Sum_probs=80.0
Q ss_pred HHHHHHHHHHHHHHHHHhCCCeeecCceeecc--CCCCCCCc-----eeeccCCCCeeEEEEecHHH-----HHHHHHh-
Q 008040 229 VFRKRAKIVSEIRKTVESLGFVEVETPVLQGA--AGGAEARP-----FVTYHNSLGRDLYLRIATEL-----HLKRMLI- 295 (580)
Q Consensus 229 ~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~--~~Ga~a~p-----F~t~~~~~~~~~yL~~Spql-----~lk~llv- 295 (580)
..++...+++.+++++.++||.||.||.|... -.|+|-.| |.. ..-+.++||--..|. |....+.
T Consensus 232 ~a~Le~ALi~f~ld~~~~~Gy~eV~tP~lv~~~l~~~sG~~p~~e~~~~y--~ie~ed~~Li~TaE~Pl~~~~~~~ils~ 309 (502)
T PLN02320 232 AVLLEMALVNWTLSEVMKKGFTPLTTPEIVRSSVVEKCGFQPRGDNTQVY--SIDGSDQCLIGTAEIPVGGIHMDSILLE 309 (502)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEEEECCccchHHHHHhcCCCcccccCcee--EECCCceEEeecccccccccccccccCH
Confidence 34466789999999999999999999999853 23333222 211 112467888533332 3322210
Q ss_pred ccC-CceeEEecccccCCC----CC---CCCccceeeeeEeecCCHHHHHHHHHHHHHHHHH
Q 008040 296 GGF-EKIYEIGRIFRNEGL----ST---RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCAL 349 (580)
Q Consensus 296 ~g~-~rVfeIg~~FR~E~~----~~---rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~ 349 (580)
..+ =|++++++|||.|-. ++ -+.-+|+++|... |...++..+..|+|+..+..
T Consensus 310 ~dLPlRy~~~s~cFR~EAgs~G~d~rGL~RvhQF~KvE~~i-f~~peqs~~e~e~ll~~~e~ 370 (502)
T PLN02320 310 SALPLKYVAFSHCFRTEAGAAGAATRGLYRVHQFSKVEMFV-ICRPEESESFHEELIQIEED 370 (502)
T ss_pred hhCCceeEEeccccccccccCCCcCCCceeeeeeecccEEE-EECHHHHHHHHHHHHHHHHH
Confidence 111 389999999999966 33 4777999999976 78888888888888876644
No 113
>cd04485 DnaE_OBF DnaE_OBF: A subfamily of OB folds corresponding to the C-terminal OB-fold nucleic acid binding domain of Thermus aquaticus and Escherichia coli type C replicative DNA polymerase III alpha subunit (DnaE). The DNA polymerase holoenzyme of E. coli contains two copies of this replicative polymerase, each of which copies a different DNA strand. This group also contains Bacillus subtilis DnaE. Replication in B. subtilis and Staphylococcus aureus requires two different type C polymerases, polC and DnaE, both of which are thought to be included in the DNA polymerase holoenzyme. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.
Probab=96.81 E-value=0.0083 Score=49.14 Aligned_cols=72 Identities=31% Similarity=0.489 Sum_probs=53.4
Q ss_pred EEEEEEeEe----cCCC-eEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEE
Q 008040 116 VAGRVVARR----AFGK-LAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFV 190 (580)
Q Consensus 116 v~GrV~~~R----~~gk-~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~ 190 (580)
+.|.|.+++ ..|+ +.|+.|.|++|.+.+++-.+ .|+.....+..|..|.|.|.+... .|.+++.++++.
T Consensus 2 i~g~v~~~~~~~~k~g~~~~~~~l~D~tg~~~~~~f~~-----~~~~~~~~l~~g~~v~v~G~v~~~-~~~~~l~~~~i~ 75 (84)
T cd04485 2 VAGLVTSVRRRRTKKGKRMAFVTLEDLTGSIEVVVFPE-----TYEKYRDLLKEDALLLVEGKVERR-DGGLRLIAERIE 75 (84)
T ss_pred EEEEEEEeEEEEcCCCCEEEEEEEEeCCCeEEEEECHH-----HHHHHHHHhcCCCEEEEEEEEEec-CCceEEEeeccc
Confidence 556665543 2343 89999999999999998753 454445567999999999999864 367888888776
Q ss_pred Ecc
Q 008040 191 ILT 193 (580)
Q Consensus 191 vls 193 (580)
.+.
T Consensus 76 ~~~ 78 (84)
T cd04485 76 DLE 78 (84)
T ss_pred cHH
Confidence 554
No 114
>cd04478 RPA2_DBD_D RPA2_DBD_D: A subfamily of OB folds corresponding to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle dependent manner in response to DNA dam
Probab=96.80 E-value=0.014 Score=49.96 Aligned_cols=77 Identities=22% Similarity=0.209 Sum_probs=58.9
Q ss_pred EEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEEEcc
Q 008040 114 VSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFVILT 193 (580)
Q Consensus 114 V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~vls 193 (580)
|++.|+|.++...+.-.=+.|.|+||.|-+.+-....... ......+..|+.|.|.|.+..- .|...|.+..+..+.
T Consensus 2 v~~vG~V~~~~~~~~~~~~tL~D~TG~I~~~~W~~~~~~~--~~~~~~~~~g~~v~v~G~v~~~-~g~~ql~i~~i~~v~ 78 (95)
T cd04478 2 VTLVGVVRNVEEQSTNITYTIDDGTGTIEVRQWLDDDNDD--SSEVEPIEEGTYVRVFGNLKSF-QGKKSIMAFSIRPVT 78 (95)
T ss_pred EEEEEEEEeeeEcccEEEEEEECCCCcEEEEEeCCCCCcc--cccccccccCCEEEEEEEEccc-CCeeEEEEEEEEEeC
Confidence 7899999999998877778999999999999876532110 0112336999999999999643 477888888887665
No 115
>TIGR00415 serS_MJ seryl-tRNA synthetase, Methanococcus jannaschii family. The seryl-tRNA synthetases from a few of the Archaea, represented by this model, are very different from the set of mutually more closely related seryl-tRNA synthetases from Eubacteria, Eukaryotes, and other Archaea. Although distantly homologous, the present set differs enough not to be recognized by the pfam model tRNA-synt_2b that recognizes the remainder of seryl-tRNA synthetases among oither class II amino-acyl tRNA synthetases.
Probab=96.79 E-value=0.014 Score=64.72 Aligned_cols=120 Identities=12% Similarity=0.085 Sum_probs=82.9
Q ss_pred HHHHHHHHHHHHHHHHH-HhCCCeeecCceeeccC---CCCCCCce------eeccC-----------------------
Q 008040 228 DVFRKRAKIVSEIRKTV-ESLGFVEVETPVLQGAA---GGAEARPF------VTYHN----------------------- 274 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl-~~~gF~EVeTPiL~~~~---~Ga~a~pF------~t~~~----------------------- 274 (580)
...++...|.+.+.+++ .+.||.||-+|.|.+.. +.....-| +|+..
T Consensus 221 ~ga~L~rAL~~~~ld~~~~k~Gy~ev~fP~LIp~e~l~k~ghl~gF~~e~y~Vt~~~~d~d~~~~f~~~~~~~~eipi~~ 300 (520)
T TIGR00415 221 KITALFRALEEFFIEEIVKKIGFQECLFPKLIPLDIMNKMRYLEGLPEGMYYCCAPKRDPELFEEFKNELIIKKEIPIDK 300 (520)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCeEEeCCcEecHHHHcccCCCCCCchhheEEecCCCCcchhhcccccccccccccccc
Confidence 34567778888887655 45699999999999641 11122222 22211
Q ss_pred ---CCCe-eEEEEecHHHHHHHHHhcc------C-CceeEEe-cccccCCCCC---CCCccceeeeeEeecCCHHHHHHH
Q 008040 275 ---SLGR-DLYLRIATELHLKRMLIGG------F-EKIYEIG-RIFRNEGLST---RHNPEFTTIEMYEAYSDYQSMMNI 339 (580)
Q Consensus 275 ---~~~~-~~yL~~Spql~lk~llv~g------~-~rVfeIg-~~FR~E~~~~---rH~pEFtmlE~e~a~~d~~d~m~l 339 (580)
.... +++|+.+.+..+=.+..+- + -|+|++. +|||.|..++ .+.-||+|.|+-. +++.++..+.
T Consensus 301 L~~~le~~~~vL~PTSE~ply~~~a~~Ils~~dLPlk~~~~s~~CFR~EaGstrGL~RvhEF~kvE~v~-~~tpEea~e~ 379 (520)
T TIGR00415 301 LKNGIKDPGYVIAPAQCEPFYQFFEGEVIDAEDKPIKFFDRSGWTYRWEAGGAKGLDRVHEFLRVECVW-IAEPEETEEI 379 (520)
T ss_pred ccccccCCceEEeCccHHHHHHHHhccccChhhCCeeEEEEecCeEeCCCCCCCCCceeeEEEEEEEEE-EeCHHHHHHH
Confidence 0022 6779998888765444322 2 3789955 8999998654 6888999999999 9999999999
Q ss_pred HHHHHHHHH
Q 008040 340 TEEIVTHCA 348 (580)
Q Consensus 340 ~E~li~~~~ 348 (580)
.++++....
T Consensus 380 ~e~mle~~~ 388 (520)
T TIGR00415 380 RDKTLELAE 388 (520)
T ss_pred HHHHHHHHH
Confidence 999886543
No 116
>cd03524 RPA2_OBF_family RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold of the single strand (ss) DNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA contains six OB folds, which are involved in ssDNA binding and in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. This family also includes OB folds similar to those found in Escherichia coli SSB, the wedge domain of E. coli RecG (a branched-DNA-specific helicase), E. coli ssDNA specific exodeoxyribonuclease VII large subunit, Pyroco
Probab=96.78 E-value=0.014 Score=46.00 Aligned_cols=69 Identities=29% Similarity=0.492 Sum_probs=53.3
Q ss_pred EEEEEEEeEecCC---CeEEEEEeeCC-eeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEE
Q 008040 115 SVAGRVVARRAFG---KLAFLTLRDDS-GTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSF 189 (580)
Q Consensus 115 ~v~GrV~~~R~~g---k~~F~~LrD~s-g~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i 189 (580)
+|.|.|.+++... ...++.|.|.+ +.+.+++-.+. ++.....+..|+.|.|.|.+... .+...+.+.++
T Consensus 1 ~v~g~v~~~~~~~~~~~~~~~~l~D~~~~~i~~~~~~~~-----~~~~~~~~~~g~~v~v~g~v~~~-~~~~~l~~~~~ 73 (75)
T cd03524 1 TIVGIVVAVEEIRTEGKVLIFTLTDGTGGTIRVTLFGEL-----AEELENLLKEGQVVYIKGKVKKF-RGRLQLIVESI 73 (75)
T ss_pred CeEEEEEeecccccCCeEEEEEEEcCCCCEEEEEEEchH-----HHHHHhhccCCCEEEEEEEEEec-CCeEEEEeeee
Confidence 3788888887654 69999999999 99999998653 33333447999999999999764 56677777654
No 117
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=96.75 E-value=0.018 Score=50.33 Aligned_cols=74 Identities=22% Similarity=0.332 Sum_probs=62.0
Q ss_pred CEEEEEEEEEeEec-CCCeEEEEEeeCCeeEEEEEecCccChHHHHhhh-cccCCCcEEEEEeEEEe-cCCceeEEEEeE
Q 008040 112 DHVSVAGRVVARRA-FGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLK-VFVDIGDILGVSGSMKR-TEKGELSVLVNS 188 (580)
Q Consensus 112 ~~V~v~GrV~~~R~-~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~-~~l~~gd~v~v~G~v~~-t~~ge~el~~~~ 188 (580)
..|.|.|-|.+.+. .++-+|++|.|+...|++++-+.. +..+. ..+..|+-|.|.|.+.- .+.|.+++.|.+
T Consensus 22 ~~vwV~GEIs~~~~~~~gh~YftLkD~~a~i~~~~~~~~-----~~~i~~~~l~~G~~V~v~g~~~~y~~~G~~sl~v~~ 96 (99)
T PF13742_consen 22 PNVWVEGEISNLKRHSSGHVYFTLKDEEASISCVIFRSR-----ARRIRGFDLKDGDKVLVRGRVSFYEPRGSLSLIVED 96 (99)
T ss_pred CCEEEEEEEeecEECCCceEEEEEEcCCcEEEEEEEHHH-----HhhCCCCCCCCCCEEEEEEEEEEECCCcEEEEEEEE
Confidence 57999999999998 667899999999999999998753 33444 34699999999999975 568899999998
Q ss_pred EE
Q 008040 189 FV 190 (580)
Q Consensus 189 i~ 190 (580)
++
T Consensus 97 i~ 98 (99)
T PF13742_consen 97 ID 98 (99)
T ss_pred eE
Confidence 75
No 118
>cd04490 PolII_SU_OBF PolII_SU_OBF: A subfamily of OB folds corresponding to the OB fold found in Pyrococcus abyssi DNA polymerase II (PolII) small subunit. PolII is a family D DNA polymerase, having a 3-prime to 5-prime exonuclease activity. P. abyssi PolII is heterodimeric. The large subunit appears to be the polymerase, and the small subunit may be the exonuclease. The small subunit contains a calcineurin-like phosphatase superfamily domain C-terminal to this OB-fold domain.
Probab=96.71 E-value=0.018 Score=48.12 Aligned_cols=67 Identities=24% Similarity=0.431 Sum_probs=52.6
Q ss_pred EEEEEEEEeEec--CCCeEEEEEeeCCeeEEEEEecCccChHHHH--hhhcccCCCcEEEEEeEEEecCCceeEEEEeEE
Q 008040 114 VSVAGRVVARRA--FGKLAFLTLRDDSGTIQLYCEKERLLSDQFD--QLKVFVDIGDILGVSGSMKRTEKGELSVLVNSF 189 (580)
Q Consensus 114 V~v~GrV~~~R~--~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~--~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i 189 (580)
|.++|-|.++|. .|+- |+.|.|.+|++.+++-++ .|+ ....++..+.+|.|+|.+.. . ++ .+.++++
T Consensus 2 v~i~GiI~~v~~TK~g~~-~~~leD~~G~~Ev~~F~~-----~~~~~~~~~~l~~d~~v~v~g~v~~-~-~~-~l~~~~I 72 (79)
T cd04490 2 VSIIGMVNDVRSTKNGHR-IVELEDTTGRITVLLTKD-----KEELFEEAEDILPDEVIGVSGTVSK-D-GG-LIFADEI 72 (79)
T ss_pred EEEEEEEeEEEEcCCCCE-EEEEECCCCEEEEEEeCc-----hhhhhhhhhhccCCCEEEEEEEEec-C-CC-EEEEEEe
Confidence 688999999872 2446 999999999999999865 466 56667899999999999955 3 44 6666654
No 119
>cd04483 hOBFC1_like hOBFC1_like: A subfamily of OB folds similar to that found in human OB fold containing protein 1 (hOBFC1). Members of this group belong to the Replication protein A subunit 2 (RPA2) family of OB folds. RPA is a nuclear ssDNA binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The OB fold domain of RPA2 has dual roles in ssDNA binding and trimerization.
Probab=96.55 E-value=0.024 Score=48.86 Aligned_cols=73 Identities=29% Similarity=0.480 Sum_probs=53.4
Q ss_pred EEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChH---------------H-HHhhhcccCCCcEEEEEeEEEecCC
Q 008040 116 VAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSD---------------Q-FDQLKVFVDIGDILGVSGSMKRTEK 179 (580)
Q Consensus 116 v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~---------------~-~~~~~~~l~~gd~v~v~G~v~~t~~ 179 (580)
|.|+|.+++......-+.|.|++|.|-+++-.....++ + .+... .+..|++|.|.|.+. +-+
T Consensus 2 ivG~V~sv~~~~~~~~~tLdDgTG~Ie~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~i~~G~vvrV~G~i~-~fr 79 (92)
T cd04483 2 ILGTVVSRRERETFYSFGVDDGTGVVNCVCWKNLSYAEVSSRSDAARILKSALMALKQAK-VLEIGDLLRVRGSIR-TYR 79 (92)
T ss_pred eEEEEEEEEecCCeEEEEEecCCceEEEEEEcCcCccccccccccccccccccccccccc-ccCCCCEEEEEEEEe-ccC
Confidence 78999999988887888999999999999876542111 0 01222 369999999999987 345
Q ss_pred ceeEEEEeEEE
Q 008040 180 GELSVLVNSFV 190 (580)
Q Consensus 180 ge~el~~~~i~ 190 (580)
|...|.++.+.
T Consensus 80 g~~ql~i~~~~ 90 (92)
T cd04483 80 GEREINASVVY 90 (92)
T ss_pred CeeEEEEEEEE
Confidence 66667776654
No 120
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=96.46 E-value=0.018 Score=63.51 Aligned_cols=76 Identities=18% Similarity=0.318 Sum_probs=63.7
Q ss_pred CCEEEEEEEEEeEecC----C-CeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEE
Q 008040 111 NDHVSVAGRVVARRAF----G-KLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVL 185 (580)
Q Consensus 111 ~~~V~v~GrV~~~R~~----g-k~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~ 185 (580)
++.|+|+|.|.++|.. | .++|++|.|.+|.+.+++-.+ .|+..+.+|..|.+|.|+|.+.. ..+++.+.
T Consensus 280 ~~~v~vaG~I~~ik~~~TKkG~~maf~~leD~tG~ie~vvFp~-----~y~~~~~~l~~~~~v~v~G~v~~-~~~~~~li 353 (449)
T PRK07373 280 KTKVSAVVMLNEVKKIVTKKGDPMAFLQLEDLSGQSEAVVFPK-----SYERISELLQVDARLIIWGKVDR-RDDQVQLI 353 (449)
T ss_pred CCEEEEEEEEEEeEecccCCCCEEEEEEEEECCCCEEEEECHH-----HHHHHHHHhccCCEEEEEEEEEe-cCCeEEEE
Confidence 4789999999998754 4 399999999999999999754 67778788899999999999976 34678888
Q ss_pred EeEEEEc
Q 008040 186 VNSFVIL 192 (580)
Q Consensus 186 ~~~i~vl 192 (580)
++++.-+
T Consensus 354 v~~i~~l 360 (449)
T PRK07373 354 VEDAEPI 360 (449)
T ss_pred EeEeecH
Confidence 8887644
No 121
>PRK00960 seryl-tRNA synthetase; Provisional
Probab=96.44 E-value=0.0071 Score=67.44 Aligned_cols=117 Identities=19% Similarity=0.174 Sum_probs=74.4
Q ss_pred HHHHHHHHHHHHHHHHH-HhCCCeeecCceeeccC----CCCCCC-----ceeecc-C----------------------
Q 008040 228 DVFRKRAKIVSEIRKTV-ESLGFVEVETPVLQGAA----GGAEAR-----PFVTYH-N---------------------- 274 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl-~~~gF~EVeTPiL~~~~----~Ga~a~-----pF~t~~-~---------------------- 274 (580)
.-.++...+.+.+++.+ .+.||.||-||.|.+.. .| ... .|.+.+ .
T Consensus 221 ~Ga~L~~aL~~~i~d~~~~k~Gyeev~~P~Li~~ell~ksG-hl~~F~e~my~V~~~~~d~e~~~~~~~~l~~T~Evpl~ 299 (517)
T PRK00960 221 PMTKLFRAFEKLVIEEVLKPLGFDECLFPKLIPLEVMYKMR-YLEGLPEGMYYVCPPKRDPEYFEEFVDEMMVKKEVPIE 299 (517)
T ss_pred hHHHHHHHHHHHHHHhhHhhcCCeEEECCcccCHHHHhhcC-CccCChhhceEeeccccccccccchhhhcccccccccc
Confidence 45677888899998874 56699999999998641 22 111 122210 0
Q ss_pred ----CC-CeeEEEEecHHHHHHHHHh----ccCC---ceeE-EecccccCCCCC---CCCccceeeeeEeecCCHHHHHH
Q 008040 275 ----SL-GRDLYLRIATELHLKRMLI----GGFE---KIYE-IGRIFRNEGLST---RHNPEFTTIEMYEAYSDYQSMMN 338 (580)
Q Consensus 275 ----~~-~~~~yL~~Spql~lk~llv----~g~~---rVfe-Ig~~FR~E~~~~---rH~pEFtmlE~e~a~~d~~d~m~ 338 (580)
.+ +..+.|+.+...+.=.+.. +.=+ |+|+ .|+|||+|...+ .+.-||+|.|+. .|++.+++.+
T Consensus 300 ~~~~~L~~~~yvLrPa~Cp~~y~~~~~~ils~rdLPLrl~e~sG~cFR~EsGs~~GL~RV~eF~kvE~h-~f~tpEqs~e 378 (517)
T PRK00960 300 KLKEKLRDPGYVLAPAQCEPFYQFFQGETVDVDELPIKFFDRSGWTYRWEGGGAHGLERVNEFHRIEIV-WLGTPEQVEE 378 (517)
T ss_pred ccccccccccccccccCcHHHHHHHhCCcCChhhCCHHHhhccCCceeCCCCCCCCCcccceeEEEEEE-EEeCHHHHHH
Confidence 00 1112244333222212222 1113 8999 569999996332 688899999999 7999999999
Q ss_pred HHHHHHHH
Q 008040 339 ITEEIVTH 346 (580)
Q Consensus 339 l~E~li~~ 346 (580)
..++++.+
T Consensus 379 e~e~ll~~ 386 (517)
T PRK00960 379 IRDELLKY 386 (517)
T ss_pred HHHHHHHH
Confidence 99999844
No 122
>cd04482 RPA2_OBF_like RPA2_OBF_like: A subgroup of uncharacterized archaeal OB folds with similarity to the OB fold of the central ssDNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The major DNA binding activity of RPA is associated with RPA1 DBD-A and DBD-B; RPA2 DBD-D is a weak ssDNA-binding domain. RPA2 DBD-D is also involved in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. N-terminal to human RPA2 DBD-D is a domain containing all the known phosphorylation sites of RPA. Human RPA2 is phosphorylated in a cell cycle depende
Probab=96.31 E-value=0.03 Score=48.18 Aligned_cols=74 Identities=20% Similarity=0.339 Sum_probs=56.2
Q ss_pred EEEEEEEeEec--CCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEEEc
Q 008040 115 SVAGRVVARRA--FGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFVIL 192 (580)
Q Consensus 115 ~v~GrV~~~R~--~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~vl 192 (580)
+|.|.|.+.+. .|.=+|+.|.|+++.|.+++-+... .+..+...+..||.|.|.|.+..-. .|.+++++++
T Consensus 2 ~v~GeVs~~~~~~~sGH~yFtlkD~~~~i~cv~f~~~g---~~~~~~~~l~~Gd~V~v~G~v~~y~----ql~ve~l~~~ 74 (91)
T cd04482 2 RVTGKVVEEPRTIEGGHVFFKISDGTGEIDCAAYEPTK---EFRDVVRLLIPGDEVTVYGSVRPGT----TLNLEKLRVI 74 (91)
T ss_pred EEEEEEeCCeecCCCCCEEEEEECCCcEEEEEEECccc---ccccccCCCCCCCEEEEEEEEecCC----EEEEEEEEEC
Confidence 68999998754 4666899999999999998876531 1222334469999999999987644 6899999987
Q ss_pred ccc
Q 008040 193 TKS 195 (580)
Q Consensus 193 s~a 195 (580)
+-.
T Consensus 75 glg 77 (91)
T cd04482 75 RLA 77 (91)
T ss_pred CCc
Confidence 654
No 123
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=95.91 E-value=0.036 Score=67.16 Aligned_cols=78 Identities=22% Similarity=0.308 Sum_probs=65.6
Q ss_pred CCEEEEEEEEEeEecC--C-CeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEe
Q 008040 111 NDHVSVAGRVVARRAF--G-KLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVN 187 (580)
Q Consensus 111 ~~~V~v~GrV~~~R~~--g-k~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~ 187 (580)
+..|+|+|.|..++.. + +++|+.|.|.+|.+.+++-.+ .|+..+.+|..|.++.|+|++.+. .|++.+.|+
T Consensus 953 ~~~v~v~g~i~~~~~~~TkkGmaf~~leD~~g~~e~~ifp~-----~~~~~~~~l~~~~~~~v~g~v~~~-~~~~~~~~~ 1026 (1046)
T PRK05672 953 GRRVRVAGVVTHRQRPGTASGVTFLTLEDETGMVNVVVWPG-----LWERQRREALGARLLLVRGRVQNA-EGVRHLVAD 1026 (1046)
T ss_pred CCEEEEEEEEEEEEEecCCCceEEEEEecCCCCEEEEECHH-----HHHHHHHHhccCCEEEEEEEEEec-CCeEEEEEe
Confidence 4679999999988765 1 299999999999999999754 677777778999999999999864 667899999
Q ss_pred EEEEccc
Q 008040 188 SFVILTK 194 (580)
Q Consensus 188 ~i~vls~ 194 (580)
++.-+..
T Consensus 1027 ~i~~~~~ 1033 (1046)
T PRK05672 1027 RLEDLSP 1033 (1046)
T ss_pred eeechHH
Confidence 9876655
No 124
>COG0441 ThrS Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=95.80 E-value=0.013 Score=66.45 Aligned_cols=113 Identities=22% Similarity=0.319 Sum_probs=77.8
Q ss_pred HHHHHHHHHHHHHHHHhCCCeeecCceeeccC----CCCCCCceeeccCCCCeeEEEEecH--HHHHHHHHh--------
Q 008040 230 FRKRAKIVSEIRKTVESLGFVEVETPVLQGAA----GGAEARPFVTYHNSLGRDLYLRIAT--ELHLKRMLI-------- 295 (580)
Q Consensus 230 ~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~----~Ga~a~pF~t~~~~~~~~~yL~~Sp--ql~lk~llv-------- 295 (580)
-.+|+.+.+.+|.-..+.||.||.||+|.... .|. ...+..++|+..+. ++.+|-+-+
T Consensus 220 ~~ir~~le~y~~~~~~~~Gy~~V~TP~~~~~~l~~~SGH--------~~~y~e~mf~~~~~~~~~~lKpmNCpgh~~ifk 291 (589)
T COG0441 220 ATIRNLLEDYVRTKLRSYGYQEVKTPVLADLELWELSGH--------WDNYKEDMFLTESDDREYALKPMNCPGHILIFK 291 (589)
T ss_pred ccHHHHHHHHHHHHHHhcCceEecCCeeeecccchhccc--------hhhccccceeeccCChhheeeeccCHhHHHHHh
Confidence 36789999999999999999999999998542 331 11123334444332 222222111
Q ss_pred cc---C----CceeEEecccccCCCCC----CCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHH
Q 008040 296 GG---F----EKIYEIGRIFRNEGLST----RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAV 351 (580)
Q Consensus 296 ~g---~----~rVfeIg~~FR~E~~~~----rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v 351 (580)
.+ + -|++|+|.|||+|.+.. ++.-+|||=|.-. |...+.+.+-+.+.+..+....
T Consensus 292 ~~~~SYR~LP~r~~E~g~v~R~E~SGal~GL~RvR~ftqdDaHi-fc~~dQi~~E~~~~~~~i~~v~ 357 (589)
T COG0441 292 SGLRSYRELPLRLAEFGYVYRYEKSGALHGLMRVRGFTQDDAHI-FCTPDQIKDEFKGILELILEVY 357 (589)
T ss_pred cCCcceeccchhhhhcceeecccCcchhhccccccceeecccce-eccHHHHHHHHHHHHHHHHHHH
Confidence 11 1 38999999999999874 5788999998866 6777888888777777665533
No 125
>COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=95.69 E-value=0.1 Score=56.93 Aligned_cols=116 Identities=22% Similarity=0.227 Sum_probs=76.2
Q ss_pred HHHHHHHHHHHHHHHhCCCeeecCceeecc---CCCCCCCceeec-cCCCCeeEEEEecHHHHHHHHHhcc------C-C
Q 008040 231 RKRAKIVSEIRKTVESLGFVEVETPVLQGA---AGGAEARPFVTY-HNSLGRDLYLRIATELHLKRMLIGG------F-E 299 (580)
Q Consensus 231 ~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~---~~Ga~a~pF~t~-~~~~~~~~yL~~Spql~lk~llv~g------~-~ 299 (580)
++--.+++.+=++..++||.||.+|.|... .|....--|.-- +..-+.++||...-|.-+--+..+- + -
T Consensus 175 ~L~rAL~~f~ld~~~~~Gf~e~~~P~lv~~e~m~gtgqlpkf~e~~y~v~~~~~~LipTaEvpl~~l~~~Eil~~~~LP~ 254 (429)
T COG0172 175 RLERALIQFMLDLHTKHGFTEVLPPYLVNLESMFGTGQLPKFEEDLYKVEDPDLYLIPTAEVPLTNLHRDEILDEEDLPI 254 (429)
T ss_pred HHHHHHHHHHHHHHHHcCceEeeCceeecHHHhhccCCCCCCcccceEecCCCEEEEecchhhhHHhhcccccccccCCe
Confidence 444456666777777999999999999953 121111123210 0111337899888777666554321 1 3
Q ss_pred ceeEEecccccCCCC----C---CCCccceeeeeEeecCCHHHHHHHHHHHHHHH
Q 008040 300 KIYEIGRIFRNEGLS----T---RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHC 347 (580)
Q Consensus 300 rVfeIg~~FR~E~~~----~---rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~ 347 (580)
+++-.++|||-|..+ + .+.-+|..+|.-. |...++-.+.-|+|+...
T Consensus 255 k~~~~S~cFR~EAGs~GrdtrGliRvHQF~KVE~v~-~~~Pe~S~~~~E~m~~~a 308 (429)
T COG0172 255 KYTAYSPCFRSEAGSAGKDTRGLIRVHQFDKVELVV-ITKPEESEEELEEMLGNA 308 (429)
T ss_pred eeEEEChhhhcccccccccccceeeeeeeeeEEEEE-EeCcchhHHHHHHHHHHH
Confidence 788899999999754 4 4777999999865 677777777777777554
No 126
>cd04492 YhaM_OBF_like YhaM_OBF_like: A subfamily of OB folds similar to that found in Bacillus subtilis YhaM and Staphylococcus aureus cmp-binding factor-1 (SaCBF1). Both these proteins are 3'-to-5'exoribonucleases. YhaM requires Mn2+ or Co2+ for activity and is inactive in the presence of Mg2+. YhaM also has a Mn2+ dependent 3'-to-5'single-stranded DNA exonuclease activity. SaCBF is also a double-stranded DNA binding protein, binding specifically to cmp, the replication enhancer found in S. aureus plasmid pT181. Proteins in this group combine an N-terminal OB fold with a C-terminal HD domain. The HD domain is found in metal-dependent phosphohydrolases.
Probab=95.64 E-value=0.19 Score=41.26 Aligned_cols=64 Identities=23% Similarity=0.343 Sum_probs=49.2
Q ss_pred cCC-CeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEEEcccc
Q 008040 125 AFG-KLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFVILTKS 195 (580)
Q Consensus 125 ~~g-k~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~vls~a 195 (580)
+.| .+.++.|.|++|.+.+++-.+. +.. ...+..|.+|.|.|.+.. ..|..++.+.++..+...
T Consensus 15 k~g~~~~~~~l~D~tg~i~~~~f~~~-----~~~-~~~l~~g~~v~v~G~v~~-~~~~~~l~~~~i~~l~~~ 79 (83)
T cd04492 15 KNGKPYLALTLQDKTGEIEAKLWDAS-----EED-EEKFKPGDIVHVKGRVEE-YRGRLQLKIQRIRLVTEE 79 (83)
T ss_pred cCCCcEEEEEEEcCCCeEEEEEcCCC-----hhh-HhhCCCCCEEEEEEEEEE-eCCceeEEEEEEEECCcc
Confidence 345 4899999999999999997643 111 344699999999999976 466788988888766543
No 127
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=95.61 E-value=0.058 Score=65.86 Aligned_cols=79 Identities=20% Similarity=0.357 Sum_probs=65.5
Q ss_pred CCEEEEEEEEEeEecC----CC-eEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEE
Q 008040 111 NDHVSVAGRVVARRAF----GK-LAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVL 185 (580)
Q Consensus 111 ~~~V~v~GrV~~~R~~----gk-~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~ 185 (580)
+..|+|+|.|..+|.. |+ ++|++|.|.+|.+.+++-.+ .|+....+|..|.+|.|+|.+.....|.+.+.
T Consensus 991 ~~~v~v~g~i~~~~~~~tk~G~~maf~~leD~~g~~e~~vfp~-----~~~~~~~~l~~~~~~~v~g~v~~~~~~~~~~~ 1065 (1151)
T PRK06826 991 GDKVIIGGIITEVKRKTTRNNEMMAFLTLEDLYGTVEVIVFPK-----VYEKYRSLLNEDNIVLIKGRVSLREDEEPKLI 1065 (1151)
T ss_pred CcEEEEEEEEEEeEeeccCCCCeEEEEEEEECCCcEEEEECHH-----HHHHHHHHhccCCEEEEEEEEEecCCCceEEE
Confidence 5789999999998753 43 99999999999999999854 67777777899999999999975555678899
Q ss_pred EeEEEEccc
Q 008040 186 VNSFVILTK 194 (580)
Q Consensus 186 ~~~i~vls~ 194 (580)
++++.-+..
T Consensus 1066 ~~~~~~l~~ 1074 (1151)
T PRK06826 1066 CEEIEPLVI 1074 (1151)
T ss_pred EeeeecHhh
Confidence 988876653
No 128
>PF10451 Stn1: Telomere regulation protein Stn1; InterPro: IPR018856 The budding yeast protein Stn1 is a DNA-binding protein which has specificity for telomeric DNA. Structural profiling has predicted an OB-fold []. This entry represents the N-terminal part of the molecule, which adopts the OB fold. Protection of telomeres by multiple proteins with OB-fold domains is conserved in eukaryotic evolution [].; PDB: 3KF6_A 3KF8_A.
Probab=95.57 E-value=0.057 Score=55.22 Aligned_cols=76 Identities=28% Similarity=0.379 Sum_probs=57.0
Q ss_pred CEEEEEEEEEeEecC----CCeEEEEEeeCCe--eEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEE
Q 008040 112 DHVSVAGRVVARRAF----GKLAFLTLRDDSG--TIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVL 185 (580)
Q Consensus 112 ~~V~v~GrV~~~R~~----gk~~F~~LrD~sg--~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~ 185 (580)
+.|+|.|.|.++... .+.+|+.|-|+|| .|.+++.++.... ..-.+.. + .|++|.|+|.+. .+..+|.
T Consensus 67 ~~v~i~G~Vv~~~~~~~~~~~~~~l~iDD~Sg~~~i~~~~~~~~~~~-~~l~~~~-~-~G~~V~VkG~vs---r~~~ql~ 140 (256)
T PF10451_consen 67 RWVRIVGVVVGIDYKWIENEDRIILTIDDSSGANTIECKCSKSSYLS-MGLPIND-L-IGKVVEVKGTVS---RNERQLD 140 (256)
T ss_dssp -EEEEEEEEEEEEEEE-BBTCEEEEEEE-SSCS-EEEEEEEHHHHHC-CCHHCTT---TT-EEEEEEEEE---SSSEEEE
T ss_pred EEEEEEEEEEEEEEEeecccceEEEEEeCCCCceeEEEEEEcccccc-cCCCccC-C-CCcEEEEEEEEc---cCcEEEE
Confidence 469999999999866 6789999999999 8999998763210 0012333 3 899999999999 7888899
Q ss_pred EeEEEEcc
Q 008040 186 VNSFVILT 193 (580)
Q Consensus 186 ~~~i~vls 193 (580)
++.+.++.
T Consensus 141 ve~i~~~~ 148 (256)
T PF10451_consen 141 VERIELVR 148 (256)
T ss_dssp EEEEEEET
T ss_pred EEEEEccC
Confidence 99998774
No 129
>COG0423 GRS1 Glycyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=95.40 E-value=0.026 Score=62.14 Aligned_cols=33 Identities=33% Similarity=0.390 Sum_probs=27.2
Q ss_pred ceeEEecccccCCCCC---CCCccceeeeeEeecCCH
Q 008040 300 KIYEIGRIFRNEGLST---RHNPEFTTIEMYEAYSDY 333 (580)
Q Consensus 300 rVfeIg~~FR~E~~~~---rH~pEFtmlE~e~a~~d~ 333 (580)
-|-|||++||||=+-. -+.-||||+|+|. |.+-
T Consensus 189 giaQIGKsfRNEISPr~gl~R~REF~QaEiE~-Fv~P 224 (558)
T COG0423 189 GIAQIGKSFRNEISPRNGLFRTREFEQAEIEF-FVDP 224 (558)
T ss_pred EEEeechhhccccCcccceeehhhhhhhheee-EECC
Confidence 5799999999997643 6889999999998 5543
No 130
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=95.30 E-value=0.084 Score=64.55 Aligned_cols=77 Identities=16% Similarity=0.250 Sum_probs=64.1
Q ss_pred CCEEEEEEEEEeEecC----CC-eEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEE
Q 008040 111 NDHVSVAGRVVARRAF----GK-LAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVL 185 (580)
Q Consensus 111 ~~~V~v~GrV~~~R~~----gk-~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~ 185 (580)
+..|+|+|.|..+|.. |+ ++|++|.|.+|.+.+++-. +.|+..+.+|..|.+|.|+|.+... .|.+.+.
T Consensus 1000 ~~~v~v~g~i~~~k~~~Tk~G~~maf~~leD~tg~~e~vvFp-----~~y~~~~~~l~~~~~~~v~g~v~~~-~~~~~~~ 1073 (1170)
T PRK07374 1000 KAKVSAIAMIPEMKQVTTRKGDRMAILQLEDLTGSCEAVVFP-----KSYERLSDHLMTDTRLLVWAKVDRR-DDRVQLI 1073 (1170)
T ss_pred CCEEEEEEEEEEeEecccCCCCEEEEEEEEECCCCEEEEECH-----HHHHHHHHHhccCCEEEEEEEEEec-CCeEEEE
Confidence 4789999999998744 43 9999999999999999975 4677777778999999999999763 4678888
Q ss_pred EeEEEEcc
Q 008040 186 VNSFVILT 193 (580)
Q Consensus 186 ~~~i~vls 193 (580)
++++.-+.
T Consensus 1074 ~~~i~~l~ 1081 (1170)
T PRK07374 1074 IDDCREID 1081 (1170)
T ss_pred EeeeecHh
Confidence 88886553
No 131
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=95.28 E-value=0.075 Score=64.59 Aligned_cols=78 Identities=19% Similarity=0.291 Sum_probs=64.4
Q ss_pred CCEEEEEEEEEeEecC----C-CeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEE
Q 008040 111 NDHVSVAGRVVARRAF----G-KLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVL 185 (580)
Q Consensus 111 ~~~V~v~GrV~~~R~~----g-k~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~ 185 (580)
+..|+|+|.|..+|.. | +++|++|.|.+|.+.+++-.+ .|+....+|..|.+|.|+|.+... .++..+.
T Consensus 943 ~~~v~v~g~i~~~~~~~tk~g~~maf~~leD~tg~~e~~vFp~-----~y~~~~~~l~~~~~~~v~G~v~~~-~~~~~~~ 1016 (1107)
T PRK06920 943 KKVQRAIVYITSVKVIRTKKGQKMAFITFCDQNDEMEAVVFPE-----TYIHFSDKLQEGAIVLVDGTIELR-NHKLQWI 1016 (1107)
T ss_pred CCEEEEEEEEEEeEeecCCCCCeEEEEEEeeCCCcEEEEECHH-----HHHHHHHHhccCCEEEEEEEEEec-CCcEEEE
Confidence 4689999999998643 4 399999999999999999754 677777778999999999999763 6678888
Q ss_pred EeEEEEccc
Q 008040 186 VNSFVILTK 194 (580)
Q Consensus 186 ~~~i~vls~ 194 (580)
++++.-+..
T Consensus 1017 ~~~i~~l~~ 1025 (1107)
T PRK06920 1017 VNGLYPLEE 1025 (1107)
T ss_pred EeecccHHH
Confidence 888866543
No 132
>KOG2324 consensus Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=95.04 E-value=0.053 Score=57.01 Aligned_cols=111 Identities=22% Similarity=0.349 Sum_probs=84.5
Q ss_pred HHHHHHHHHHHHHHHHhCCCeeecCceeeccC--------CCCCCCceeeccCCCCeeEEEEecHHHHHHHHHhccCC--
Q 008040 230 FRKRAKIVSEIRKTVESLGFVEVETPVLQGAA--------GGAEARPFVTYHNSLGRDLYLRIATELHLKRMLIGGFE-- 299 (580)
Q Consensus 230 ~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~--------~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g~~-- 299 (580)
+|.-.++++.++.-|.+-|=.+|.-|+|++.. .+-+.+.|.. ++-.|+.+.|...-|=-.-.||+.-.+
T Consensus 52 ~R~~~K~~~~l~~~mqs~Ga~kIslp~ls~~~LWekTgRw~~~gsEl~rl-~Dr~gkq~cL~pThEE~iT~lmat~~~ls 130 (457)
T KOG2324|consen 52 LRVLNKLCRLLDNEMQSGGAQKISLPILSSKELWEKTGRWDAMGSELFRL-HDRKGKQMCLTPTHEEDITALMATYIPLS 130 (457)
T ss_pred HHHHHHHHHHHHHHHHhccCeeEeecccChHHHHHhcCcccccchhheEe-eccCCCEeccCCchHHHHHHHHHhcCccc
Confidence 56678899999999999999999999999752 2224556654 355678888987777766777764443
Q ss_pred ------ceeEEecccccCCCCC---CCCccceeeeeEeecCCHHHHHHHHH
Q 008040 300 ------KIYEIGRIFRNEGLST---RHNPEFTTIEMYEAYSDYQSMMNITE 341 (580)
Q Consensus 300 ------rVfeIg~~FR~E~~~~---rH~pEFtmlE~e~a~~d~~d~m~l~E 341 (580)
+|||||+=||+|---+ -+--||.|=|+|.-..|-++.|..-+
T Consensus 131 ykqlPi~vYQigrKfRDElrpRfGLlRgREFlMKDmYsFd~~~etA~qTy~ 181 (457)
T KOG2324|consen 131 YKQLPIRVYQIGRKFRDELRPRFGLLRGREFLMKDMYSFDSDEETAQQTYQ 181 (457)
T ss_pred cccCcEEeeeechhhhhccCccccchhhHHHHHhhhhcccCCHHHHHHHHH
Confidence 8999999999997433 56679999999986567777665433
No 133
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=95.03 E-value=0.098 Score=63.96 Aligned_cols=79 Identities=28% Similarity=0.409 Sum_probs=65.3
Q ss_pred CCEEEEEEEEEeEecC----CC-eEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEE
Q 008040 111 NDHVSVAGRVVARRAF----GK-LAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVL 185 (580)
Q Consensus 111 ~~~V~v~GrV~~~R~~----gk-~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~ 185 (580)
|..|+++|.|.++|.. |+ ++|++|.|.+|.+.+++-.+ .|+.....|..|++|.|+|.+.. ..+++.|.
T Consensus 977 g~~V~v~G~I~~vk~~~TKkG~~mafltLeD~TG~iEvviFp~-----~ye~~~~~L~~g~iV~V~GkVe~-~~~~~qli 1050 (1135)
T PRK05673 977 GSVVTVAGLVVSVRRRVTKRGNKMAIVTLEDLSGRIEVMLFSE-----ALEKYRDLLEEDRIVVVKGQVSF-DDGGLRLT 1050 (1135)
T ss_pred CceEEEEEEEEEEEecccCCCCeEEEEEEEeCCCcEEEEECHH-----HHHHHHHHhccCCEEEEEEEEEe-cCCeEEEE
Confidence 4789999999998754 43 99999999999999999854 67777777899999999999976 34778899
Q ss_pred EeEEEEcccc
Q 008040 186 VNSFVILTKS 195 (580)
Q Consensus 186 ~~~i~vls~a 195 (580)
++++.-+...
T Consensus 1051 i~~I~~L~~~ 1060 (1135)
T PRK05673 1051 AREVMDLEEA 1060 (1135)
T ss_pred EeecccHHHH
Confidence 9888766543
No 134
>PRK09616 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed
Probab=94.93 E-value=0.16 Score=57.64 Aligned_cols=111 Identities=20% Similarity=0.284 Sum_probs=74.2
Q ss_pred HHHHHHHHHHHHhCCCeeecCceeeccCC-----C-CCCCceeeccCCCCee-EEEEec--HHHHHHHHHhc---cC--C
Q 008040 234 AKIVSEIRKTVESLGFVEVETPVLQGAAG-----G-AEARPFVTYHNSLGRD-LYLRIA--TELHLKRMLIG---GF--E 299 (580)
Q Consensus 234 s~i~~~iR~fl~~~gF~EVeTPiL~~~~~-----G-a~a~pF~t~~~~~~~~-~yL~~S--pql~lk~llv~---g~--~ 299 (580)
.++.+.+|++|...||.||-|..|++... | ....+...-.|....+ -+||.| |.|. + .+.- +. -
T Consensus 362 ~~~~~~ir~~L~~~Gf~Ev~tys~~s~~~~~~~~~~~~~~~~i~l~NPls~e~svLRtsLlpgLL-~-~~~~N~~~~~~~ 439 (552)
T PRK09616 362 EKLERAIRDLMVGLGFQEVMNFTLTSEEVLFEKMNLEPEEDYVEVLNPISEDYTVVRTSLLPSLL-E-FLSNNKHREYPQ 439 (552)
T ss_pred HHHHHHHHHHHHhCCcceeccceEechHHHHHHhCCCCCCCeEEEcCCCccchheEeccchHHHH-H-HHHhccCCCCCe
Confidence 45667789999999999999999986511 1 1110111123444433 468876 3443 2 2221 11 2
Q ss_pred ceeEEecccccCCCCCCCCccceeeeeEeecC--CHHHHHHHHHHHHHH
Q 008040 300 KIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYS--DYQSMMNITEEIVTH 346 (580)
Q Consensus 300 rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~--d~~d~m~l~E~li~~ 346 (580)
|+||||+||+.+..+..|..|++++-+-++.. |+.|+..++|.++..
T Consensus 440 ~lFEiG~Vf~~~~~~~~~~~e~~~l~~~~~g~~~df~dlKg~ve~ll~~ 488 (552)
T PRK09616 440 KIFEIGDVVLIDESTETGTRTERKLAAAIAHSEASFTEIKSVVQALLRE 488 (552)
T ss_pred eEEEeeEEEecCCccccCcchhhEEEEEEECCCCCHHHHHHHHHHHHHH
Confidence 89999999998765456778999999888763 788888888888853
No 135
>COG3705 HisZ ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]
Probab=94.55 E-value=0.1 Score=56.32 Aligned_cols=102 Identities=24% Similarity=0.324 Sum_probs=72.3
Q ss_pred HHHHHHHHHHHHHHHHHhCCCeeecCceeecc----CC-CCC--CCceeeccCCCCeeEEEEecHHHHHHHHH----hcc
Q 008040 229 VFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----AG-GAE--ARPFVTYHNSLGRDLYLRIATELHLKRML----IGG 297 (580)
Q Consensus 229 ~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~~-Ga~--a~pF~t~~~~~~~~~yL~~Spql~lk~ll----v~g 297 (580)
-.+....|.+.+++.|...||..|+||+|++. .+ |+. .+-|.+. +..++.+-||.---.-.=|+. .++
T Consensus 16 e~~~~~~i~~~l~~~f~~~Gy~~v~tP~lE~~d~~l~~~g~~l~~~~f~l~-d~~g~~l~LRpD~T~pVaR~~~~~~~~~ 94 (390)
T COG3705 16 EARRKEEIRDQLLALFRAWGYERVETPTLEPADPLLDGAGEDLRRRLFKLE-DETGGRLGLRPDFTIPVARIHATLLAGT 94 (390)
T ss_pred HHhhHHHHHHHHHHHHHHhCCccccccccchhhhhhhccchhhhhhheEEe-cCCCCeEEecccccHHHHHHHHHhcCCC
Confidence 34567788899999999999999999999974 22 333 4678764 445666888843222222332 234
Q ss_pred CCceeEEecccccCCCCCCCCccceeeeeEeecC
Q 008040 298 FEKIYEIGRIFRNEGLSTRHNPEFTTIEMYEAYS 331 (580)
Q Consensus 298 ~~rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~~ 331 (580)
-.|++..|++||+.........||+|+=+|.-+.
T Consensus 95 P~Rl~Y~G~Vfr~~~~~~g~~~Ef~QaGiEllG~ 128 (390)
T COG3705 95 PLRLSYAGKVFRAREGRHGRRAEFLQAGIELLGD 128 (390)
T ss_pred CceeeecchhhhcchhccCcccchhhhhhHHhCC
Confidence 6799999999999933345666999999988543
No 136
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=94.53 E-value=0.17 Score=61.11 Aligned_cols=75 Identities=17% Similarity=0.315 Sum_probs=61.0
Q ss_pred CEEEEEEEEEeEec-----CCC-eEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEE
Q 008040 112 DHVSVAGRVVARRA-----FGK-LAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVL 185 (580)
Q Consensus 112 ~~V~v~GrV~~~R~-----~gk-~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~ 185 (580)
..+.+.|+|..+|. .|+ ++|++|.|.+|.+.+++-.+ .|+....+|..|.+|.|+|.+... .+++.+.
T Consensus 885 ~~~~~~~~i~~~~~~~tk~~g~~maf~~leD~~g~ie~~vFp~-----~y~~~~~~l~~~~~~~v~G~v~~~-~~~~~l~ 958 (1034)
T PRK07279 885 SEATILVQIQSIRVIRTKTKGQQMAFLSVTDTKKKLDVTLFPE-----TYRQYKDELKEGKFYYLKGKIQER-DGRLQMV 958 (1034)
T ss_pred CcceEEEEEEEEEEEEEcCCCCeEEEEEEeeCCCcEEEEECHH-----HHHHHHHHhccCCEEEEEEEEEec-CCeeEEE
Confidence 56889999987652 353 99999999999999999854 677777778999999999999763 6678888
Q ss_pred EeEEEEc
Q 008040 186 VNSFVIL 192 (580)
Q Consensus 186 ~~~i~vl 192 (580)
++++.-+
T Consensus 959 ~~~i~~l 965 (1034)
T PRK07279 959 LQQIQEA 965 (1034)
T ss_pred Eeeeecc
Confidence 8887544
No 137
>KOG1936 consensus Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=94.26 E-value=0.058 Score=58.01 Aligned_cols=111 Identities=22% Similarity=0.316 Sum_probs=73.1
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeec--c----CCCCCCCceeecc-CCCCeeEEEEecHHHHHHHHHhcc-C-
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQG--A----AGGAEARPFVTYH-NSLGRDLYLRIATELHLKRMLIGG-F- 298 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~--~----~~Ga~a~pF~t~~-~~~~~~~yL~~Spql~lk~llv~g-~- 298 (580)
+-+.+|..|++.|.+-|..+|..+|+||++.- + +|. ..+ .+... +.-|.-.-||----...-|+++.. .
T Consensus 72 ~qm~lRe~if~~i~~vFkrhGa~~iDTPVFElkeiL~gKYGE-dsk-LiYdlkDQGGEl~SLRYDLTVPfARylAmNki~ 149 (518)
T KOG1936|consen 72 EQMALREKIFSTIKEVFKRHGAETIDTPVFELKEILTGKYGE-DSK-LIYDLKDQGGELCSLRYDLTVPFARYLAMNKIT 149 (518)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCeeccccchhHHHHHhhhccc-ccc-eeEehhhcCCcEEEeecccccHHHHHHHHcccc
Confidence 34678999999999999999999999999862 2 222 222 11111 222333446644444455555533 1
Q ss_pred -CceeEEecccccCCC--CCCCCccceeeeeEeecCCHHHHHHHHH
Q 008040 299 -EKIYEIGRIFRNEGL--STRHNPEFTTIEMYEAYSDYQSMMNITE 341 (580)
Q Consensus 299 -~rVfeIg~~FR~E~~--~~rH~pEFtmlE~e~a~~d~~d~m~l~E 341 (580)
=+-|+||++||-+.. ..-+.-||+|+|+-.|. +++.|+...|
T Consensus 150 sikRy~iAkVyRRd~P~mtrGR~REFYQcDFDIAG-~~d~M~pdaE 194 (518)
T KOG1936|consen 150 SIKRYHIAKVYRRDQPAMTRGRYREFYQCDFDIAG-QFDPMIPDAE 194 (518)
T ss_pred cceeeeEEEEEeccCchhhchhhhhhhccCccccc-cCCCCCchHH
Confidence 145999999998775 45788899999999984 3444544444
No 138
>PF04076 BOF: Bacterial OB fold (BOF) protein; InterPro: IPR005220 Proteins in this entry have an OB-fold fold (oligonucleotide/oligosaccharide binding motif). Analysis of the predicted nucleotide-binding site of the OB-fold suggests that they lack nucleic acid-binding properties. They contain an predicted N-terminal signal peptide which indicates that they localise to the periplasm where they may function to bind proteins, small molecules, or other typical OB-fold ligands. As hypothesised for the distantly related OB-fold containing bacterial enterotoxins, the loss of nucleotide-binding function and the rapid evolution of the OB-fold ligand-binding site may be associated with the presence of members in mobile genetic elements and their potential role in bacterial pathogenicity [].; PDB: 1NNX_A.
Probab=93.84 E-value=0.72 Score=40.68 Aligned_cols=68 Identities=19% Similarity=0.287 Sum_probs=47.5
Q ss_pred CEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEE
Q 008040 112 DHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFV 190 (580)
Q Consensus 112 ~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~ 190 (580)
..|+|.|.|.+.-..-+ ..++|.+|.|+|-++.+.. .- .-+++++-|.|.|.|-+.-. ..+|.|..|+
T Consensus 35 ~~V~L~G~Iv~~l~~d~---Y~F~D~TG~I~VeId~~~w-----~g--~~vt~~~~Vri~GeVDk~~~-~~~IdV~~I~ 102 (103)
T PF04076_consen 35 TPVTLEGNIVKQLGDDK---YLFRDATGEIEVEIDDDVW-----RG--QTVTPDDKVRISGEVDKDWN-KTEIDVDRIE 102 (103)
T ss_dssp EEEEEEEEEEEEEETTE---EEEEETTEEEEEE--GGGS-----TT------TTSEEEEEEEEEEETT-EEEEEEEEEE
T ss_pred CeEEEEEEEEEEecCCE---EEEECCCCcEEEEEChhhc-----CC--cccCCCCEEEEEEEEeCCCC-ceEEEEEEEE
Confidence 78999999887654333 4579999999999987643 21 22699999999999996543 4788888764
No 139
>TIGR00389 glyS_dimeric glycyl-tRNA synthetase, dimeric type. This model describes a glycyl-tRNA synthetase distinct from the two alpha and two beta chains of the tetrameric E. coli glycyl-tRNA synthetase. This enzyme is a homodimeric class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes His, Ser, Pro, and this set of glycyl-tRNA synthetases.
Probab=93.69 E-value=0.076 Score=59.86 Aligned_cols=31 Identities=19% Similarity=0.303 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHH-HhCCCeeecCceeecc
Q 008040 230 FRKRAKIVSEIRKTV-ESLGFVEVETPVLQGA 260 (580)
Q Consensus 230 ~~~Rs~i~~~iR~fl-~~~gF~EVeTPiL~~~ 260 (580)
..++..|.+..|++| ..+|++||+||+|++.
T Consensus 37 ~~lk~ni~~~wr~~~v~~~~~~ei~~~~i~~~ 68 (551)
T TIGR00389 37 AVLKNNIKNAWRKFFIKNERVLEIDTPIITPE 68 (551)
T ss_pred HHHHHHHHHHHHHHHHhcCCceEeeccccCCH
Confidence 467889999999999 4789999999999863
No 140
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=93.37 E-value=0.19 Score=55.99 Aligned_cols=79 Identities=24% Similarity=0.368 Sum_probs=60.1
Q ss_pred CCCCEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeE
Q 008040 109 SENDHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNS 188 (580)
Q Consensus 109 ~~~~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~ 188 (580)
..|++|+|.|-|..++.-++-+-++|+|++|.+++-.-... +.-.| --|.+||+|.|+|.|.. ..|.+-|.+.+
T Consensus 211 ~ig~tV~I~GeV~qikqT~GPTVFtltDetg~i~aAAFe~a-GvRAy----P~IevGdiV~ViG~V~~-r~g~lQiE~~~ 284 (715)
T COG1107 211 MIGKTVRIEGEVTQIKQTSGPTVFTLTDETGAIWAAAFEEA-GVRAY----PEIEVGDIVEVIGEVTR-RDGRLQIEIEA 284 (715)
T ss_pred hcCceEEEEEEEEEEEEcCCCEEEEEecCCCceehhhhccC-CcccC----CCCCCCceEEEEEEEee-cCCcEEEeehh
Confidence 34689999999999999999888999999999998754321 11111 22699999999999874 45667777777
Q ss_pred EEEcc
Q 008040 189 FVILT 193 (580)
Q Consensus 189 i~vls 193 (580)
++.|.
T Consensus 285 me~L~ 289 (715)
T COG1107 285 MEKLT 289 (715)
T ss_pred hHHhh
Confidence 76664
No 141
>PRK14894 glycyl-tRNA synthetase; Provisional
Probab=93.16 E-value=0.44 Score=53.00 Aligned_cols=101 Identities=23% Similarity=0.312 Sum_probs=61.9
Q ss_pred HHHHHHHHHHHHHHH--hCCCeeecCceeecc----CCCCC------------------------------------CCc
Q 008040 231 RKRAKIVSEIRKTVE--SLGFVEVETPVLQGA----AGGAE------------------------------------ARP 268 (580)
Q Consensus 231 ~~Rs~i~~~iR~fl~--~~gF~EVeTPiL~~~----~~Ga~------------------------------------a~p 268 (580)
.++..|++.-|++|. ..+.+||+||+|.+. ++|-- .+|
T Consensus 41 ~lk~ni~~~W~~~~v~~~~~~~~id~~il~~~~v~~aSGH~~~F~DpmV~CkkCk~ryRaD~LiikCP~CGs~dLTe~~~ 120 (539)
T PRK14894 41 ELKNNIIADWWRTNVYERDDMEGLDAAILMNRLVWKYSGHEETFNDPLVDCRDCKMRWRADHIQGVCPNCGSRDLTEPRP 120 (539)
T ss_pred HHHHHHHHHHHHHHeeccCCEEEeeccccCCHhHeeeccCCCCCCCceeECCCCCccccCccceeeCCCCCCcCCCccee
Confidence 567788888888883 567789999998742 23210 122
Q ss_pred ----eeeccCCC---CeeEEEEecH--HHH--HHHHHhccCC----ceeEEecccccCCCCC---CCCccceeeeeEeec
Q 008040 269 ----FVTYHNSL---GRDLYLRIAT--ELH--LKRMLIGGFE----KIYEIGRIFRNEGLST---RHNPEFTTIEMYEAY 330 (580)
Q Consensus 269 ----F~t~~~~~---~~~~yL~~Sp--ql~--lk~llv~g~~----rVfeIg~~FR~E~~~~---rH~pEFtmlE~e~a~ 330 (580)
|.|..... +...|||.-. -.| -|+++-..-. -+-|||++||||=+-. -+.-||+|+|+|. |
T Consensus 121 FNLMF~T~iGp~~~~~~~~yLRPETAQGiFvnFk~ll~~~~~klPFgiaQIGk~FRNEIsPr~~l~R~REF~q~EiE~-F 199 (539)
T PRK14894 121 FNMMFRTQIGPVADSDSFAYLRPETAQGIFVNFANVLATSARKLPFGIAQVGKAFRNEINPRNFLFRVREFEQMEIEY-F 199 (539)
T ss_pred ccccceeccccCCCcCcceeeCcccchHHHHHHHHHHHhcCCCCCeeEEeeeccccCccCCCCceeecccchhheEEE-E
Confidence 22322111 2468999322 222 2333321111 5789999999994432 4778999999998 5
Q ss_pred CC
Q 008040 331 SD 332 (580)
Q Consensus 331 ~d 332 (580)
.+
T Consensus 200 v~ 201 (539)
T PRK14894 200 VM 201 (539)
T ss_pred eC
Confidence 54
No 142
>cd04474 RPA1_DBD_A RPA1_DBD_A: A subfamily of OB folds corresponding to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ funct
Probab=92.74 E-value=0.45 Score=41.74 Aligned_cols=59 Identities=22% Similarity=0.339 Sum_probs=44.6
Q ss_pred CEEEEEEEEEe---Eec------CCCeEEEEEeeC-CeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEE
Q 008040 112 DHVSVAGRVVA---RRA------FGKLAFLTLRDD-SGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMK 175 (580)
Q Consensus 112 ~~V~v~GrV~~---~R~------~gk~~F~~LrD~-sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~ 175 (580)
..++|+|||.+ +|. .|++.-++|.|. ++.|++.+-.+. .+.+...|..|+++.++|--+
T Consensus 10 ~~~~I~~rV~~k~~~~~f~~~~~~g~~~~~~l~De~~~~I~~t~~~~~-----~~~f~~~l~eG~vy~i~~~~V 78 (104)
T cd04474 10 NKWTIKARVTNKSDIRTWSNARGEGKLFSFDLLDEDGGEIRATFFNDA-----VDKFYDLLEVGKVYYISKGSV 78 (104)
T ss_pred CcEEEEEEEeeccccccccCCCCCcEEEEEEEEECCCCEEEEEEehHH-----HHHhhcccccccEEEEeccEE
Confidence 45899999985 332 377889999999 789999998753 233445579999999996444
No 143
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=92.32 E-value=1.5 Score=51.09 Aligned_cols=73 Identities=23% Similarity=0.387 Sum_probs=51.2
Q ss_pred CCEEEEEEEEEeEecC--C-CeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEe
Q 008040 111 NDHVSVAGRVVARRAF--G-KLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVN 187 (580)
Q Consensus 111 ~~~V~v~GrV~~~R~~--g-k~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~ 187 (580)
|+.|+|.|.|.+.+.. | ++.-+.+.|++|.+++++-.-. ..| +.+.+..|+.+.|.|++.. ..|.+++.--
T Consensus 59 g~~vtv~g~V~~~~~~~~~~~~~~v~l~D~tg~i~l~~F~~n---~~~--~~~~l~~G~~~~v~Gkv~~-~~~~~qm~~P 132 (681)
T PRK10917 59 GEKVTVEGEVLSAEVVFGKRRRLTVTVSDGTGNLTLRFFNFN---QPY--LKKQLKVGKRVAVYGKVKR-GKYGLEMVHP 132 (681)
T ss_pred CCEEEEEEEEEEEEEccCCceEEEEEEEECCeEEEEEEEccC---cHH--HHhhCCCCCEEEEEEEEEe-cCCeEEEEcC
Confidence 4789999999887533 3 4788899999999999987310 012 2344699999999999986 3344444433
Q ss_pred EE
Q 008040 188 SF 189 (580)
Q Consensus 188 ~i 189 (580)
++
T Consensus 133 ~~ 134 (681)
T PRK10917 133 EY 134 (681)
T ss_pred EE
Confidence 33
No 144
>PRK15491 replication factor A; Provisional
Probab=92.12 E-value=1.2 Score=48.10 Aligned_cols=81 Identities=21% Similarity=0.303 Sum_probs=60.5
Q ss_pred CEEEEEEEEEeE-------ecC---CCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCce
Q 008040 112 DHVSVAGRVVAR-------RAF---GKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGE 181 (580)
Q Consensus 112 ~~V~v~GrV~~~-------R~~---gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge 181 (580)
..|+|.|||.++ |.. |++.=+.|-|.+|+|++++-.+... .|. ...|..|+++.|.|.+...-.|
T Consensus 68 ~~v~i~arVl~~~~~R~f~r~dGs~g~v~~~~v~DeTG~ir~tlW~~~a~--~~~--~~~le~G~v~~I~~~~~~~y~g- 142 (374)
T PRK15491 68 SNVNFTAKVVSIFEPKEFNRNDGTTGRVGNIIVADETGSIRLTLWDDLAD--LIK--TGDIEVGKSLNISGYAKEGYSG- 142 (374)
T ss_pred CceEEEEEEeeccCCeeeecCCCCceEEEEEEEEcCCCeEEEEEECchhh--hhc--cCCcCCCCEEEEeeeeccCccc-
Confidence 569999999987 322 4677789999999999999876421 221 1236899999999986554455
Q ss_pred eEEEEeEEEEccccCC
Q 008040 182 LSVLVNSFVILTKSLL 197 (580)
Q Consensus 182 ~el~~~~i~vls~a~~ 197 (580)
+||.+.+-..+.+|..
T Consensus 143 ~Ei~i~~~~~i~~~~~ 158 (374)
T PRK15491 143 IEVNIGRYGGISESDE 158 (374)
T ss_pred EEEEeCCCceeeeccc
Confidence 8999988887877753
No 145
>cd04488 RecG_wedge_OBF RecG_wedge_OBF: A subfamily of OB folds corresponding to the OB fold found in the N-terminal (wedge) domain of Escherichia coli RecG. RecG is a branched-DNA-specific helicase, which catalyzes the interconversion of a DNA replication fork to a four-stranded (Holliday) junction in vivo and in vitro. This interconversion provides a route to repair stalled forks. The RecG monomer contains three domains. The N-terminal domain is named for its wedge structure, and may provide the specificity of RecG for binding branched-DNA structures. During the reversal of fork to Holliday junction, the wedge domain is fixed at the junction of the fork where the leading and lagging strand duplex arms meet, and is thought to promote the unwinding of the nascent leading and lagging strands. In order to form the Holliday junction, these nascent strands would be annealed, and the parental strands reannealed. The wedge domain may also be a processivity factor of RecG on these branched cha
Probab=91.52 E-value=2.3 Score=33.70 Aligned_cols=67 Identities=30% Similarity=0.408 Sum_probs=44.2
Q ss_pred EEEEEEeEec--C--CCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEE
Q 008040 116 VAGRVVARRA--F--GKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSF 189 (580)
Q Consensus 116 v~GrV~~~R~--~--gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i 189 (580)
+.|.|.+... . ++..-+.+.|++|.+.+++-... .| +.+.+..|+.+.|.|++..- .|.+++.--++
T Consensus 2 i~~~V~~~~~~~~~~~~~~~~~~~D~~g~i~~~~F~~~----~~--~~~~~~~G~~~~v~Gkv~~~-~~~~qi~~P~~ 72 (75)
T cd04488 2 VEGTVVSVEVVPRRGRRRLKVTLSDGTGTLTLVFFNFQ----PY--LKKQLPPGTRVRVSGKVKRF-RGGLQIVHPEY 72 (75)
T ss_pred EEEEEEEEEeccCCCccEEEEEEEcCCCEEEEEEECCC----HH--HHhcCCCCCEEEEEEEEeec-CCeeEEeCCcE
Confidence 4566655432 1 24788889999999999986521 12 22346999999999999764 45555544333
No 146
>TIGR00156 conserved hypothetical protein TIGR00156. As of the last revision, this family consists only of two proteins from Escherichia coli and one from the related species Haemophilus influenzae.
Probab=91.49 E-value=1.7 Score=39.70 Aligned_cols=68 Identities=21% Similarity=0.313 Sum_probs=50.8
Q ss_pred CEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEE
Q 008040 112 DHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFV 190 (580)
Q Consensus 112 ~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~ 190 (580)
..|+|.|.|...-..- =...+|++|.|+|-++.+. |.-. -++++|-|.|.|.|-+.- ...+|.|.+|+
T Consensus 58 t~V~L~G~Iv~~l~~d---~Y~F~D~TG~I~VeId~~~-----w~G~--~v~p~d~V~I~GeVDk~~-~~~~IdV~~I~ 125 (126)
T TIGR00156 58 ASVTLRGNIISHIGDD---RYVFRDKSGEINVVIPAAV-----WNGR--EVQPKDMVNISGSLDKKS-APAEVDVTHIQ 125 (126)
T ss_pred CEEEEEEEEEEEeCCc---eEEEECCCCCEEEEECHHH-----cCCC--cCCCCCEEEEEEEECCCC-CCeEEEEEEEE
Confidence 7899999998865443 3467999999999997653 3221 369999999999998543 24677777765
No 147
>COG3111 Periplasmic protein with OB-fold [Function unknown]
Probab=91.34 E-value=1.4 Score=39.83 Aligned_cols=70 Identities=21% Similarity=0.286 Sum_probs=51.2
Q ss_pred CEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEEE
Q 008040 112 DHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFVI 191 (580)
Q Consensus 112 ~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~v 191 (580)
..|+|.|-|...- |+=. +..||.||.|+|-++.+.... ..|++.|-|.+.|.+-+- --..||.|+.|+.
T Consensus 58 a~V~l~GnIv~qi--~~D~-y~FrD~sGeI~VeIdd~~w~g-------~tv~P~dkV~I~GevDk~-~~~~eIdV~~I~k 126 (128)
T COG3111 58 AWVSLEGNIVRQI--GDDR-YVFRDASGEINVDIDDKVWNG-------QTVTPKDKVRIQGEVDKD-WNSVEIDVKHIEK 126 (128)
T ss_pred CeEEEEeeEEEee--CCce-EEEEcCCccEEEEecccccCC-------cccCcccEEEEEeEEcCC-CccceeEhhheEe
Confidence 6799999987643 3222 357999999999998764321 237999999999999865 2236677777765
Q ss_pred c
Q 008040 192 L 192 (580)
Q Consensus 192 l 192 (580)
+
T Consensus 127 ~ 127 (128)
T COG3111 127 L 127 (128)
T ss_pred c
Confidence 4
No 148
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=91.22 E-value=1.9 Score=47.60 Aligned_cols=77 Identities=19% Similarity=0.223 Sum_probs=62.9
Q ss_pred CEEEEEEEEEeEecC-CCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEE-ecCCceeEEEEeEE
Q 008040 112 DHVSVAGRVVARRAF-GKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMK-RTEKGELSVLVNSF 189 (580)
Q Consensus 112 ~~V~v~GrV~~~R~~-gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~-~t~~ge~el~~~~i 189 (580)
..|+|.|=|.+.+.+ ++=+|++|.|....|-|++-+... ..+.-.+..|+-|.|.|.+. -.+.|.+.|.|+++
T Consensus 24 ~~v~v~gEis~~~~~~sGH~Yf~Lkd~~a~i~~~~~~~~~-----~~~~~~~~~G~~v~v~g~~~~y~~~g~~ql~v~~i 98 (438)
T PRK00286 24 GQVWVRGEISNFTRHSSGHWYFTLKDEIAQIRCVMFKGSA-----RRLKFKPEEGMKVLVRGKVSLYEPRGDYQLIVEEI 98 (438)
T ss_pred CcEEEEEEeCCCeeCCCCeEEEEEEcCCcEEEEEEEcChh-----hcCCCCCCCCCEEEEEEEEEEECCCCCEEEEEEEe
Confidence 579999999998765 457999999999999999988642 22333368999999999997 47889999999998
Q ss_pred EEcc
Q 008040 190 VILT 193 (580)
Q Consensus 190 ~vls 193 (580)
...+
T Consensus 99 ~~~g 102 (438)
T PRK00286 99 EPAG 102 (438)
T ss_pred eeCC
Confidence 7654
No 149
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=90.08 E-value=5.2 Score=36.57 Aligned_cols=75 Identities=17% Similarity=0.245 Sum_probs=54.7
Q ss_pred CEEEEEEEEEeEe-------cCC--CeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCcee
Q 008040 112 DHVSVAGRVVARR-------AFG--KLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGEL 182 (580)
Q Consensus 112 ~~V~v~GrV~~~R-------~~g--k~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~ 182 (580)
..|.+.|.|.++- +.| .+.-+.|.|.||+|.+.+-.+.. ..+..||+|.|.|-....-.|.+
T Consensus 15 ~~v~~~~~V~~i~~~~~~~~k~~~~~v~~~~l~D~TG~I~~tlW~~~a---------~~l~~GdvV~I~na~v~~f~G~l 85 (129)
T PRK06461 15 ERVNVTVRVLEVGEPKVIQTKGGPRTISEAVVGDETGRVKLTLWGEQA---------GSLKEGEVVEIENAWTTLYRGKV 85 (129)
T ss_pred CceEEEEEEEEcCCceEEEeCCCceEEEEEEEECCCCEEEEEEeCCcc---------ccCCCCCEEEEECcEEeeeCCEE
Confidence 4688889988432 222 36778999999999999876531 12589999999955544567889
Q ss_pred EEEEe---EEEEcccc
Q 008040 183 SVLVN---SFVILTKS 195 (580)
Q Consensus 183 el~~~---~i~vls~a 195 (580)
+|.+. .+..+...
T Consensus 86 qL~i~~~~~i~~~~~~ 101 (129)
T PRK06461 86 QLNVGKYGSISESDDE 101 (129)
T ss_pred EEEECCCEEEEECCcc
Confidence 99998 46666654
No 150
>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=89.94 E-value=1 Score=44.08 Aligned_cols=108 Identities=22% Similarity=0.254 Sum_probs=58.1
Q ss_pred HHHHHHHHHHHhCCCeeecCceeecc-C---CCCCC-CceeeccCCCCee-EEEEec--HHHHHHHH--HhccC--Ccee
Q 008040 235 KIVSEIRKTVESLGFVEVETPVLQGA-A---GGAEA-RPFVTYHNSLGRD-LYLRIA--TELHLKRM--LIGGF--EKIY 302 (580)
Q Consensus 235 ~i~~~iR~fl~~~gF~EVeTPiL~~~-~---~Ga~a-~pF~t~~~~~~~~-~yL~~S--pql~lk~l--lv~g~--~rVf 302 (580)
.+.+.+|++|...||.||-|..+++. . -+... .+.. -.|-...+ -+||.| |.|..-.. ..-+. -|+|
T Consensus 4 ~~~~~ir~~L~~~G~~E~~tys~~~~~~~~~~~~~~~~~i~-l~NPis~e~~~lR~sLlp~LL~~~~~N~~~~~~~~~lF 82 (198)
T cd00769 4 KLERKLRRLLAGLGFQEVITYSLTSPEEAELFDGGLDEAVE-LSNPLSEEYSVLRTSLLPGLLDALARNLNRKNKPLRLF 82 (198)
T ss_pred HHHHHHHHHHHHCCCceeecccCCCHHHHHhccCCCCCeEE-EcCCCchhHHHHHHHHHHHHHHHHHHHhcCCCCCEeEE
Confidence 45667899999999999999999864 1 00001 1111 11222222 124433 22211100 00121 2999
Q ss_pred EEecccccCCCCCCCCccceeeeeEeec-------------CCHHHHHHHHHHHHHH
Q 008040 303 EIGRIFRNEGLSTRHNPEFTTIEMYEAY-------------SDYQSMMNITEEIVTH 346 (580)
Q Consensus 303 eIg~~FR~E~~~~rH~pEFtmlE~e~a~-------------~d~~d~m~l~E~li~~ 346 (580)
|||+||..+.. +-.|.+.+=+-.+. .|+.|+-.++|.++..
T Consensus 83 EiG~vf~~~~~---~~~e~~~l~~~~~g~~~~~~w~~~~~~~~f~~~Kg~ve~ll~~ 136 (198)
T cd00769 83 EIGRVFLKDED---GPEEEEHLAALLSGNREPESWQGKGRPVDFYDAKGILEALLRA 136 (198)
T ss_pred EeEeEEecCCC---CCcchheEEEEEECCCccccccCCCCccCHhhHHHHHHHHHHH
Confidence 99999976431 22355555333333 3677777777777753
No 151
>TIGR00237 xseA exodeoxyribonuclease VII, large subunit. This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.
Probab=89.78 E-value=2.6 Score=46.50 Aligned_cols=76 Identities=14% Similarity=0.203 Sum_probs=61.0
Q ss_pred CEEEEEEEEEeEecC-CCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEE-ecCCceeEEEEeEE
Q 008040 112 DHVSVAGRVVARRAF-GKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMK-RTEKGELSVLVNSF 189 (580)
Q Consensus 112 ~~V~v~GrV~~~R~~-gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~-~t~~ge~el~~~~i 189 (580)
..|+|.|=|.+.+.+ ++=+|++|.|....|.||+-+... ..+.-.+..|+-|.|.|.+. -.+.|.+.|.|+++
T Consensus 18 ~~v~V~GEisn~~~~~sGH~YFtLkD~~a~i~~vmf~~~~-----~~l~f~~~~G~~V~v~g~v~~y~~~G~~ql~v~~i 92 (432)
T TIGR00237 18 LQVWIQGEISNFTQPVSGHWYFTLKDENAQVRCVMFRGNN-----NRLKFRPQNGQQVLVRGGISVYEPRGDYQIICFEM 92 (432)
T ss_pred CcEEEEEEecCCeeCCCceEEEEEEcCCcEEEEEEEcChh-----hCCCCCCCCCCEEEEEEEEEEECCCCcEEEEEEEe
Confidence 469999999998754 347999999999999999987642 22323368899999999996 57789999999998
Q ss_pred EEc
Q 008040 190 VIL 192 (580)
Q Consensus 190 ~vl 192 (580)
+..
T Consensus 93 ~~~ 95 (432)
T TIGR00237 93 QPA 95 (432)
T ss_pred ccC
Confidence 754
No 152
>PF12869 tRNA_anti-like: tRNA_anti-like; InterPro: IPR024422 The function of the proteins in this entry is not known, but they contain a novel variant of the nucleic acid-binding OB fold [].; PDB: 3F1Z_I.
Probab=89.77 E-value=1.2 Score=41.01 Aligned_cols=91 Identities=18% Similarity=0.305 Sum_probs=46.8
Q ss_pred CCCHHHHHHHHhhccCCccCCCCCCEEEEEEEEEeEec-CCCeEEEEEeeCCe--eEEEEEecCccChHHHHhhhcccCC
Q 008040 88 THSANQLQEIYRHLANGEESNSENDHVSVAGRVVARRA-FGKLAFLTLRDDSG--TIQLYCEKERLLSDQFDQLKVFVDI 164 (580)
Q Consensus 88 t~~~~~i~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~-~gk~~F~~LrD~sg--~iQvv~~~~~~~~~~~~~~~~~l~~ 164 (580)
..+..+|.+.|.+=+......-.|+.+.|.|.|..+.. .++-.++...+..+ .+++.+..+. .......+ |..
T Consensus 44 ~~sa~~L~~~y~~N~~~A~~kY~gK~i~vtG~V~~I~~~~~~~~~~~~~~~~~~~~v~~~~~~~~---~~~~~~~~-l~~ 119 (144)
T PF12869_consen 44 SVSAEELYKDYKDNEVAADKKYKGKIIEVTGTVSSIDKGFGDNYVVLLGTENGFAGVQCYFSNDQ---EKRASVAK-LKK 119 (144)
T ss_dssp EEEHHHHHHHHHH-HHHHHHHHTT-EEEEEEEEEEEEE-STT-EEEEEE-TT-S-S--EEEEEEG---GGHHHHHH---T
T ss_pred eecHHHHHHHHHhCHHHHHhhcCCCEEEEEEEEEEEEEcCCCcEEEEccCCCCceeEEEEEccch---hhhhhHhc-CCC
Confidence 34567777777331110000012589999999999976 34455665655443 7888888764 12222334 599
Q ss_pred CcEEEEEeEEEecC-Ccee
Q 008040 165 GDILGVSGSMKRTE-KGEL 182 (580)
Q Consensus 165 gd~v~v~G~v~~t~-~ge~ 182 (580)
||.|.|+|.+.... .|.+
T Consensus 120 G~~Vti~G~~~g~~~~~~v 138 (144)
T PF12869_consen 120 GQKVTIKGICTGYSLMGVV 138 (144)
T ss_dssp TSEEEEEEE-----SSS-E
T ss_pred CCEEEEEEEEEeeecCCcE
Confidence 99999999987653 4443
No 153
>PRK10053 hypothetical protein; Provisional
Probab=89.66 E-value=2.3 Score=39.08 Aligned_cols=68 Identities=22% Similarity=0.343 Sum_probs=50.6
Q ss_pred CEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEE
Q 008040 112 DHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFV 190 (580)
Q Consensus 112 ~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~ 190 (580)
..|+|.|.|...=..- =...+|++|.|+|-++.+. |. ..-+++.|-|.+.|.|-+.-. ..+|.|+.|+
T Consensus 62 ~~V~L~G~Iv~~lg~d---~Y~F~D~tG~I~VeID~~~-----w~--G~~v~p~~kV~I~GevDk~~~-~~~IdV~~i~ 129 (130)
T PRK10053 62 ATVSLRGNLIDHKGDD---RYVFRDKSGEINVIIPAAV-----FD--GREVQPDQMININGSLDKKSA-PPVVRVTHLQ 129 (130)
T ss_pred CeEEEEEEEEEEeCCc---eEEEECCCCcEEEEeCHHH-----cC--CCcCCCCCEEEEEEEECCCCC-CeEEEEEEEe
Confidence 6799999997654332 2457999999999998653 32 123799999999999987533 4677787775
No 154
>COG5235 RFA2 Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [DNA replication, recombination, and repair]
Probab=89.07 E-value=2.6 Score=41.43 Aligned_cols=77 Identities=17% Similarity=0.225 Sum_probs=56.2
Q ss_pred CEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEEE
Q 008040 112 DHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFVI 191 (580)
Q Consensus 112 ~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~v 191 (580)
..|++.|||+++..+-.-+|+.|.||+|.|-|-........ ....+.+.-|-.|.|-|.++ +-.|...|.+.-|.-
T Consensus 67 ~~V~fVGvvrni~~~ttn~~~~iEDGTG~Ievr~W~~~~~~---~e~~~d~~~~~yvkV~G~lk-~F~GK~~I~~~~i~~ 142 (258)
T COG5235 67 TNVQFVGVVRNIKTSTTNSMFVIEDGTGSIEVRFWPGNSYE---EEQCKDLEEQNYVKVNGSLK-TFNGKRSISASHISA 142 (258)
T ss_pred eeEEEEEEEEeeeecccceEEEEecCCceEEEEecCCCchH---HHhccccccccEEEEeccee-eeCCeeEEehhheee
Confidence 35899999999999988899999999999999887664211 12223346677999999876 455666666655543
Q ss_pred c
Q 008040 192 L 192 (580)
Q Consensus 192 l 192 (580)
+
T Consensus 143 I 143 (258)
T COG5235 143 I 143 (258)
T ss_pred c
Confidence 3
No 155
>PRK07217 replication factor A; Reviewed
Probab=88.93 E-value=5 Score=42.14 Aligned_cols=82 Identities=20% Similarity=0.165 Sum_probs=64.4
Q ss_pred CCEEEEEEEEEeE--ecCCCeEE-EEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEe
Q 008040 111 NDHVSVAGRVVAR--RAFGKLAF-LTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVN 187 (580)
Q Consensus 111 ~~~V~v~GrV~~~--R~~gk~~F-~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~ 187 (580)
++.|+|.|+|..+ +..+.+.. -.|-|.||+|-++...+.. . ..|..|++|.+.+..+..-.|.++|.+.
T Consensus 82 ~~~VsV~aKVl~l~e~~~~si~qvGllgDETG~IkfT~W~~s~-------~-~~leeGd~~rI~na~v~ey~G~~~lnlg 153 (311)
T PRK07217 82 EQWVDVTAKVVQLWEPSSDSIAQVGLLGDETGTIKFTKWAKSD-------L-PELEEGKSYLLKNVVTDEYQGRFSVKLN 153 (311)
T ss_pred CCcEEEEEEEEEecCCCCCceEEEEEEEcCCceEEEEEccCCC-------C-CcccCCCEEEEEeEEEeeECCEEEEEeC
Confidence 3679999999987 44566777 5789999999999887521 1 1268999999999999999999999998
Q ss_pred EEEEccccCCCCC
Q 008040 188 SFVILTKSLLPLP 200 (580)
Q Consensus 188 ~i~vls~a~~plP 200 (580)
+...+......++
T Consensus 154 ~~t~I~~~de~Ie 166 (311)
T PRK07217 154 RTTSIEELDEDIE 166 (311)
T ss_pred CceEEEeCCCCcc
Confidence 8877766544443
No 156
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=88.78 E-value=2.5 Score=46.39 Aligned_cols=75 Identities=20% Similarity=0.234 Sum_probs=60.7
Q ss_pred CEEEEEEEEEeEecCCC-eEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEe-cCCceeEEEEeEE
Q 008040 112 DHVSVAGRVVARRAFGK-LAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKR-TEKGELSVLVNSF 189 (580)
Q Consensus 112 ~~V~v~GrV~~~R~~gk-~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~-t~~ge~el~~~~i 189 (580)
..|+|.|-|.+++...+ -.|+.|.|....|+|++-+.... .+.-.+.-|+-|.|.|.+.. .++|.+.|.++++
T Consensus 24 ~~V~v~GEISn~t~~~sgH~YFtLKD~~A~i~c~mf~~~~~-----~l~f~p~eG~~V~v~G~is~Y~~rG~YQi~~~~~ 98 (440)
T COG1570 24 GQVWVRGEISNFTRPASGHLYFTLKDERAQIRCVMFKGNNR-----RLKFRPEEGMQVLVRGKISLYEPRGDYQIVAESM 98 (440)
T ss_pred CeEEEEEEecCCccCCCccEEEEEccCCceEEEEEEcCccc-----ccCCCccCCCEEEEEEEEEEEcCCCceEEEEecC
Confidence 46999999999985543 89999999999999999877421 22222588999999999974 6799999999987
Q ss_pred EE
Q 008040 190 VI 191 (580)
Q Consensus 190 ~v 191 (580)
+-
T Consensus 99 ~p 100 (440)
T COG1570 99 EP 100 (440)
T ss_pred Cc
Confidence 64
No 157
>cd04484 polC_OBF polC_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold nucleic acid binding domain of Bacillus subtilis type C replicative DNA polymerase III alpha subunit (polC). Replication in B. subtilis and Staphylococcus aureus requires two different polymerases, polC and DnaE. The holoenzyme is thought to include the two different polymerases. At the B. subtilis replication fork, polC appears to be involved in leading strand synthesis and DnaE in lagging strand synthesis.
Probab=88.23 E-value=8.5 Score=32.24 Aligned_cols=72 Identities=21% Similarity=0.293 Sum_probs=49.9
Q ss_pred EEEEEEEEeE--e--cCCC-eEEEEEeeCCeeEEEEEecCccChHHHHhhhcccC-CCcEEEEEeEEEecC-CceeEEEE
Q 008040 114 VSVAGRVVAR--R--AFGK-LAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVD-IGDILGVSGSMKRTE-KGELSVLV 186 (580)
Q Consensus 114 V~v~GrV~~~--R--~~gk-~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~-~gd~v~v~G~v~~t~-~ge~el~~ 186 (580)
|+|.|-|-.+ | +.|+ +.-+.|.|.+++|-|..-... ..+.+ .. |. .|++|.|.|.+.-.+ .+++.+.+
T Consensus 2 v~i~G~Vf~~e~re~k~g~~i~~~~itD~t~Si~~K~F~~~-~~~~~---~~-ik~~G~~v~v~G~v~~D~f~~e~~~~i 76 (82)
T cd04484 2 VVVEGEVFDLEIRELKSGRKILTFKVTDYTSSITVKKFLRK-DEKDK---EE-LKSKGDWVRVRGKVQYDTFSKELVLMI 76 (82)
T ss_pred EEEEEEEEEEEEEEecCCCEEEEEEEEcCCCCEEEEEeccC-ChhHH---hh-cccCCCEEEEEEEEEEccCCCceEEEe
Confidence 6788988765 2 2455 656899999997766654321 12222 23 57 899999999997544 68888888
Q ss_pred eEEE
Q 008040 187 NSFV 190 (580)
Q Consensus 187 ~~i~ 190 (580)
..+.
T Consensus 77 ~~i~ 80 (82)
T cd04484 77 NDIE 80 (82)
T ss_pred eeEE
Confidence 7764
No 158
>PF15072 DUF4539: Domain of unknown function (DUF4539)
Probab=88.09 E-value=2.9 Score=35.65 Aligned_cols=57 Identities=16% Similarity=0.154 Sum_probs=45.2
Q ss_pred EEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEE
Q 008040 114 VSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMK 175 (580)
Q Consensus 114 V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~ 175 (580)
=.++|.|.+++..+.=+|+.|.|.+|.++..+.++.. +.....|..|+++-.+-.-.
T Consensus 5 p~l~v~Iks~~~~~~D~~v~l~DpTG~i~~tiH~~v~-----~~y~~~l~~GavLlLk~V~V 61 (86)
T PF15072_consen 5 PCLVVIIKSIVPSSEDAFVVLKDPTGEIRGTIHRKVL-----EEYGDELSPGAVLLLKDVTV 61 (86)
T ss_pred CEEEEEEEEeeccCCCeEEEEECCCCcEEEEEeHHHH-----hhcCCccccCEEEEEeeeeE
Confidence 3789999999998877899999999999999987643 22334578899887775433
No 159
>cd04491 SoSSB_OBF SoSSB_OBF: A subfamily of OB folds similar to the OB fold of the crenarchaeote Sulfolobus solfataricus single-stranded (ss) DNA-binding protein (SSoSSB). SSoSSB has a single OB fold, and it physically and functionally interacts with RNA polymerase. In vitro, SSoSSB can substitute for the basal transcription factor TBP, stimulating transcription from promoters under conditions in which TBP is limiting, and supporting transcription when TBP is absent. SSoSSB selectively melts the duplex DNA of promoter sequences. It also relieves transcriptional repression by the chromatin Alba. In addition, SSoSSB activates reverse gyrase activity, which involves DNA binding, DNA cleavage, strand passage and ligation. SSoSSB stimulates all these steps in the presence of the chromatin protein, Sul7d. SSoSSB antagonizes the inhibitory effect of Sul7d on reverse gyrase supercoiling activity. It also physically and functionally interacts with Mini-chromosome Maintenance (MCM), stimulating
Probab=87.80 E-value=3.8 Score=33.96 Aligned_cols=55 Identities=24% Similarity=0.319 Sum_probs=40.8
Q ss_pred CCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE-eEEEecCCceeEEEEeEEE
Q 008040 127 GKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS-GSMKRTEKGELSVLVNSFV 190 (580)
Q Consensus 127 gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~-G~v~~t~~ge~el~~~~i~ 190 (580)
|++.-+.|.|.+|.|.+.+-.+. . . ..+..|++|.++ |.+ +.-.|.++|.+.+..
T Consensus 22 ~~~~~~~l~D~TG~i~~~~W~~~----~---~-~~~~~G~vv~i~~~~v-~~~~g~~ql~i~~~~ 77 (82)
T cd04491 22 GKVQSGLVGDETGTIRFTLWDEK----A---A-DDLEPGDVVRIENAYV-REFNGRLELSVGKNS 77 (82)
T ss_pred eEEEEEEEECCCCEEEEEEECch----h---c-ccCCCCCEEEEEeEEE-EecCCcEEEEeCCce
Confidence 45778899999999999998653 1 1 236999999999 555 445677888776543
No 160
>PRK14699 replication factor A; Provisional
Probab=87.66 E-value=4.2 Score=45.52 Aligned_cols=80 Identities=26% Similarity=0.292 Sum_probs=57.5
Q ss_pred CEEEEEEEEEeE-------ecCC---CeEEEEEeeCCeeEEEEEecCccChHHHHhhhc-ccCCCcEEEEEeEEEecCCc
Q 008040 112 DHVSVAGRVVAR-------RAFG---KLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKV-FVDIGDILGVSGSMKRTEKG 180 (580)
Q Consensus 112 ~~V~v~GrV~~~-------R~~g---k~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~-~l~~gd~v~v~G~v~~t~~g 180 (580)
..|++.|+|.++ |..| +++=+.|-|.||+|.+++-.+... .+.. -|..||+|.|.|.++.-. +
T Consensus 68 ~~v~i~~rVl~i~~~r~f~r~dG~~g~v~~~~iaDeTG~ir~tlW~~~a~-----~~~~g~l~~GDvv~I~~~~r~~~-~ 141 (484)
T PRK14699 68 GPVNFIARVVSVFDTKEFTRNDGTIGRVGNLIVGDETGKIKLTLWDNMAD-----LIKAGKIKAGQTLQISGYAKQGY-S 141 (484)
T ss_pred ceEEEEEEEEEecCceEEecCCCCceEEEEEEEecCCCeEEEEEecCccc-----hhhhcCCCCCCEEEEcceeccCC-C
Confidence 679999999998 3344 577778999999999999876421 1221 269999999999643333 4
Q ss_pred eeEEEEeEEEEccccCC
Q 008040 181 ELSVLVNSFVILTKSLL 197 (580)
Q Consensus 181 e~el~~~~i~vls~a~~ 197 (580)
.+||.+.+.+.+.++..
T Consensus 142 g~el~~~~~~~i~~~~~ 158 (484)
T PRK14699 142 GVEVNIGNNGVLTESEE 158 (484)
T ss_pred CceEEeCCCceeeccCc
Confidence 47888887666666533
No 161
>COG4085 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]
Probab=85.83 E-value=2.9 Score=40.68 Aligned_cols=75 Identities=28% Similarity=0.435 Sum_probs=52.1
Q ss_pred CCEEEEEEEEEeEe--cCCCeEEEEEeeCCeeEEEEEecCccChHHHHhh--hcccCCCcEEEEEeEEEecCCceeEEEE
Q 008040 111 NDHVSVAGRVVARR--AFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQL--KVFVDIGDILGVSGSMKRTEKGELSVLV 186 (580)
Q Consensus 111 ~~~V~v~GrV~~~R--~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~--~~~l~~gd~v~v~G~v~~t~~ge~el~~ 186 (580)
.+.|+|.|-|.+.+ ..+++.|+.|.|++|+|-+++..+. ++..... .-.+..|++|.|+|.+..= +|-.+|.+
T Consensus 51 ~e~v~vkg~V~~~~n~~~~gi~~l~lndgtGti~vva~~~t--ee~l~~n~~~p~~~eGe~veVtGrv~~y-rG~~eVkv 127 (204)
T COG4085 51 NEEVTVKGEVTADQNAIGGGIESLVLNDGTGTITVVASRST--EETLELNEGMPVTVEGEIVEVTGRVEEY-RGSSEVKV 127 (204)
T ss_pred eccceeeeEEEeeecccccceEEEEEECCCCcEEEEEecCh--hHhHhhcCCCCccccCcEEEEEEEEEEe-CCCceeec
Confidence 35688999999997 3457999999999999998887663 1111100 1124689999999988642 34455555
Q ss_pred eE
Q 008040 187 NS 188 (580)
Q Consensus 187 ~~ 188 (580)
.+
T Consensus 128 nq 129 (204)
T COG4085 128 NQ 129 (204)
T ss_pred cC
Confidence 54
No 162
>cd04479 RPA3 RPA3: A subfamily of OB folds similar to human RPA3 (also called RPA14). RPA3 is the smallest subunit of Replication protein A (RPA). RPA is a nuclear ssDNA binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA3 is believed to have a structural role in assembly of the RPA heterotrimer.
Probab=85.07 E-value=9.3 Score=33.39 Aligned_cols=64 Identities=20% Similarity=0.312 Sum_probs=47.0
Q ss_pred CCEEEEEEEEEeEecCCCeEEEEEeeCCe-eEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEE
Q 008040 111 NDHVSVAGRVVARRAFGKLAFLTLRDDSG-TIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSF 189 (580)
Q Consensus 111 ~~~V~v~GrV~~~R~~gk~~F~~LrD~sg-~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i 189 (580)
|+.|++-|+|.+.+.. . +.+.+..| .++|.++... . +..+-+|.|.|+|.. ..+|.+.++
T Consensus 15 gk~V~ivGkV~~~~~~---~-~~~~~~Dg~~v~v~l~~~~----------~-~~~~~~vEViG~V~~----~~~I~~~~~ 75 (101)
T cd04479 15 GKTVRIVGKVEKVDGD---S-LTLISSDGVNVTVELNRPL----------D-LPISGYVEVIGKVSP----DLTIRVLSY 75 (101)
T ss_pred CCEEEEEEEEEEecCC---e-EEEEcCCCCEEEEEeCCCC----------C-cccCCEEEEEEEECC----CCeEEEEEE
Confidence 4899999999999854 3 44555554 9999987652 1 377889999999984 356777776
Q ss_pred EEcc
Q 008040 190 VILT 193 (580)
Q Consensus 190 ~vls 193 (580)
.-++
T Consensus 76 ~~~g 79 (101)
T cd04479 76 IDFG 79 (101)
T ss_pred EECC
Confidence 5554
No 163
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=84.72 E-value=9.2 Score=40.44 Aligned_cols=77 Identities=21% Similarity=0.199 Sum_probs=55.4
Q ss_pred CEEEEEEEEEeEe----cCCC-eEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEE
Q 008040 112 DHVSVAGRVVARR----AFGK-LAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLV 186 (580)
Q Consensus 112 ~~V~v~GrV~~~R----~~gk-~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~ 186 (580)
+.|....-|.++. +.|+ ...+.|.|.||.|...+-... ++... .+..|++|.|.|.+.. =+|.+.+.+
T Consensus 12 ~~v~~~~lv~~~~~~~~knG~~yl~l~l~D~tG~I~ak~W~~~--~~~~~----~~~~g~vv~v~G~v~~-y~g~~Ql~i 84 (314)
T PRK13480 12 EQVDHFLLIKSATKGVASNGKPFLTLILQDKSGDIEAKLWDVS--PEDEA----TYVPETIVHVKGDIIN-YRGRKQLKV 84 (314)
T ss_pred CEeeEEEEEEEceeeecCCCCeEEEEEEEcCCcEEEEEeCCCC--hhhHh----hcCCCCEEEEEEEEEE-ECCcceEEE
Confidence 4455444455443 3355 777889999999999997653 22222 2589999999999974 567788999
Q ss_pred eEEEEcccc
Q 008040 187 NSFVILTKS 195 (580)
Q Consensus 187 ~~i~vls~a 195 (580)
.++..++++
T Consensus 85 ~~i~~~~~~ 93 (314)
T PRK13480 85 NQIRLATEE 93 (314)
T ss_pred EEeEECCCC
Confidence 999988775
No 164
>KOG2783 consensus Phenylalanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=84.13 E-value=0.56 Score=49.99 Aligned_cols=94 Identities=19% Similarity=0.306 Sum_probs=57.5
Q ss_pred HHHHHHHhC-----CCeeecCceeeccCC-CCCCCceeeccC------CCCeeEEEEecHHHHHHHHHhccCCceeEEec
Q 008040 239 EIRKTVESL-----GFVEVETPVLQGAAG-GAEARPFVTYHN------SLGRDLYLRIATELHLKRMLIGGFEKIYEIGR 306 (580)
Q Consensus 239 ~iR~fl~~~-----gF~EVeTPiL~~~~~-Ga~a~pF~t~~~------~~~~~~yL~~Spql~lk~llv~g~~rVfeIg~ 306 (580)
.|-++|+.. .-.+.+||+.+...+ |.-.-|=.-.++ |.+...-||.=.-.|---++..|.+.---.|-
T Consensus 80 ~i~~~f~~~~~~~fs~~~~~spvvt~~qnfdsl~~p~dh~sr~ksdtyy~n~~~~lr~htsahq~e~~~~~~~~flv~~D 159 (436)
T KOG2783|consen 80 RIEDYFYKTYRNLFSIFENESPVVTTYQNFDSLLFPADHVSRSKSDTYYVNHTHCLRAHTSAHQHELFQKGLDGFLVTGD 159 (436)
T ss_pred HHHHHHHHhhcccchhccCCCceeehhhhcccccCcccccccCcCCceeecceeeehhcchhhHHHHHHhcccccceeee
Confidence 345555443 347888888875421 100001000112 23444556533333323355677888889999
Q ss_pred ccccCCCCCCCCccceeeeeEeecCC
Q 008040 307 IFRNEGLSTRHNPEFTTIEMYEAYSD 332 (580)
Q Consensus 307 ~FR~E~~~~rH~pEFtmlE~e~a~~d 332 (580)
+||-..+|+.|.|=|.|+|--..+.-
T Consensus 160 Vyrrdeidsthypvfhq~eg~~~~s~ 185 (436)
T KOG2783|consen 160 VYRRDEIDSTHYPVFHQMEGVRLWSK 185 (436)
T ss_pred eeeeccccccccceeccccceeEEec
Confidence 99999999999999999998776653
No 165
>PRK07218 replication factor A; Provisional
Probab=83.82 E-value=17 Score=40.08 Aligned_cols=67 Identities=22% Similarity=0.219 Sum_probs=54.1
Q ss_pred CEEEEEEEEEeEe--------cCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeE
Q 008040 112 DHVSVAGRVVARR--------AFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELS 183 (580)
Q Consensus 112 ~~V~v~GrV~~~R--------~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~e 183 (580)
+.|.|.|+|.++- .-|.+.=+.|-|.||+|.+++..+. . |..||+|.|.+-..+.-.|.++
T Consensus 69 ~~V~v~~kVl~i~~rt~r~dg~~g~v~~~~igDeTG~Ir~tlW~~~----------~-l~~Gdvv~I~na~vre~~g~~e 137 (423)
T PRK07218 69 KNVTVTGRVLTIGERSIRYQGDDHVIYEGILADETGTISYTAWKDF----------G-LSPGDTVTIGNAGVREWDGRPE 137 (423)
T ss_pred ceeEEEEEEEEecceeEecCCCceEEEEEEEECCCCeEEEEEECCC----------C-CCCCCEEEEeccEeeccCCceE
Confidence 5799999999883 2245888889999999999988742 2 6999999999988888888888
Q ss_pred EEEeEE
Q 008040 184 VLVNSF 189 (580)
Q Consensus 184 l~~~~i 189 (580)
|.+.+-
T Consensus 138 l~ig~~ 143 (423)
T PRK07218 138 LNIGES 143 (423)
T ss_pred EeccCc
Confidence 887543
No 166
>PRK07459 single-stranded DNA-binding protein; Provisional
Probab=83.66 E-value=19 Score=32.57 Aligned_cols=79 Identities=24% Similarity=0.373 Sum_probs=50.4
Q ss_pred CEEEEEEEEEe---Eec--CCC-eEEEEEe-------eCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEec-
Q 008040 112 DHVSVAGRVVA---RRA--FGK-LAFLTLR-------DDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRT- 177 (580)
Q Consensus 112 ~~V~v~GrV~~---~R~--~gk-~~F~~Lr-------D~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t- 177 (580)
..|.|.|||.+ +|. .|+ ++-+.|- +.+.-+.|++-.+. .+ .+.+.|..||.|.|+|.+...
T Consensus 4 N~v~LiGrL~~DPelr~t~~G~~v~~fslAv~~~~~~~~t~w~~v~~wg~~--Ae---~~~~~l~KG~~V~V~G~l~~~~ 78 (121)
T PRK07459 4 NSVTLVGRAGRDPEVRYFESGSVVCNLTLAVNRRSRDDEPDWFNLEIWGKT--AQ---VAADYVKKGSLIGITGSLKFDR 78 (121)
T ss_pred cEEEEEEEccCCCEEEEcCCCCEEEEEEEEecccccCCCceEEEEEEehHH--HH---HHHHHcCCCCEEEEEEEEEecc
Confidence 36888888887 443 343 3333332 22345677765542 12 233447999999999999853
Q ss_pred ---CC-c----eeEEEEeEEEEcccc
Q 008040 178 ---EK-G----ELSVLVNSFVILTKS 195 (580)
Q Consensus 178 ---~~-g----e~el~~~~i~vls~a 195 (580)
+. | -++|.|++|++|++.
T Consensus 79 ~~d~d~G~~r~~~ei~a~~i~~L~~k 104 (121)
T PRK07459 79 WTDRNTGEDRSKPVIRVDRLELLGSK 104 (121)
T ss_pred eEcCCCCeEEEEEEEEEeEEEECcCC
Confidence 22 5 388999999999743
No 167
>TIGR00471 pheT_arch phenylalanyl-tRNA synthetase, beta subunit. Every known example of the phenylalanyl-tRNA synthetase, except the monomeric form of mitochondrial, is an alpha 2 beta 2 heterotetramer. The beta subunits break into two subfamilies that are considerably different in sequence, length, and pattern of gaps. This model represents the subfamily that includes the beta subunit from eukaryotic cytosol, the Archaea, and spirochetes.
Probab=83.46 E-value=6.2 Score=44.95 Aligned_cols=115 Identities=20% Similarity=0.217 Sum_probs=69.2
Q ss_pred HHHHHHHHHHHHHhCCCeeecCceeeccCC-----CCCCCceeeccCCCCeeE-EEEecHHHHHHHHHhccC-----Cce
Q 008040 233 RAKIVSEIRKTVESLGFVEVETPVLQGAAG-----GAEARPFVTYHNSLGRDL-YLRIATELHLKRMLIGGF-----EKI 301 (580)
Q Consensus 233 Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~~-----Ga~a~pF~t~~~~~~~~~-yL~~Spql~lk~llv~g~-----~rV 301 (580)
...+.+.+|++|...||.|+-|-.|++... |-...++..-.|-...++ +||.|-=--|=..+.-.. -|+
T Consensus 364 ~~~~~~~ir~~L~~~Gf~E~itysf~s~~~~~~~~~~~~~~~v~l~NPis~e~s~lR~SLlp~LL~~~~~N~~~~~~~~l 443 (551)
T TIGR00471 364 LNKVSDIIREIMVGLGFQEVIPLTLTSEEVNFKRMRIEDNNDVKVANPKTLEYTIVRTSLLPGLLETLSENKHHELPQKI 443 (551)
T ss_pred HHHHHHHHHHHHHhCCceeeccceEccHHHHHHHhccCCCCcEEeCCCCchhhhHhHhhhHHHHHHHHHhcccCCCCeeE
Confidence 456677889999999999999999986411 100111222234444333 577653222222222221 279
Q ss_pred eEEecccccCCCCCCCCccceeeeeEeec--CCHHHHHHHHHHHHHHH
Q 008040 302 YEIGRIFRNEGLSTRHNPEFTTIEMYEAY--SDYQSMMNITEEIVTHC 347 (580)
Q Consensus 302 feIg~~FR~E~~~~rH~pEFtmlE~e~a~--~d~~d~m~l~E~li~~~ 347 (580)
||||++|...+.+..+.++|.++-+-.+. .|+.|+...+|.++..+
T Consensus 444 FEiG~Vf~~~~~~~~~e~~~~~l~~~~~g~~~df~d~Kg~ve~ll~~l 491 (551)
T TIGR00471 444 FEIGDVVVKDDKSETRSRVVTKLAVGITHSEANFNEIKSIVAALAREL 491 (551)
T ss_pred EEEEEEEEcCCccccccceeeEEEEEEECCCCCHHHHHHHHHHHHHHc
Confidence 99999996532211245566777776654 48999999988888543
No 168
>KOG1035 consensus eIF-2alpha kinase GCN2 [Translation, ribosomal structure and biogenesis]
Probab=83.32 E-value=4.5 Score=49.31 Aligned_cols=116 Identities=22% Similarity=0.196 Sum_probs=73.0
Q ss_pred HHHHHHHHHHHHHHHHHhCCCeeecCceeecc--C--CCCCCCceeeccCCCCeeEEEEecHHHHHHHHHhcc---CCce
Q 008040 229 VFRKRAKIVSEIRKTVESLGFVEVETPVLQGA--A--GGAEARPFVTYHNSLGRDLYLRIATELHLKRMLIGG---FEKI 301 (580)
Q Consensus 229 ~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~--~--~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g---~~rV 301 (580)
.=.+|..+...+-+-|.++|++|++||-+... + +-+.+-.|.++. |..+-|+----+-.-|.++-. .-|-
T Consensus 931 ~~~l~~~v~e~~~~ifr~Hga~~l~tpp~~~~~~~~~~~~~~v~~ld~s---G~~v~Lp~DLr~pfar~vs~N~~~~~Kr 1007 (1351)
T KOG1035|consen 931 NNELREYVVEEVVKIFRKHGAIELETPPLSLRNACAYFSRKAVELLDHS---GDVVELPYDLRLPFARYVSRNSVLSFKR 1007 (1351)
T ss_pred HHHHHHHHHHHHHHHHHHhcceeccCCccccccccchhccceeeeecCC---CCEEEeeccccchHHHHhhhchHHHHHH
Confidence 34678888899999999999999999977632 2 223333344432 223323221111222222211 2366
Q ss_pred eEEecccccCCCCCCCCccceeeeeEeecCC----HHHHHHHHHHHHHHHHH
Q 008040 302 YEIGRIFRNEGLSTRHNPEFTTIEMYEAYSD----YQSMMNITEEIVTHCAL 349 (580)
Q Consensus 302 feIg~~FR~E~~~~rH~pEFtmlE~e~a~~d----~~d~m~l~E~li~~~~~ 349 (580)
|+|+++||-+. +. |=-||+.+++-....+ --+++.++-+++..++.
T Consensus 1008 y~i~rVyr~~~-~~-hP~~~~ec~fDii~~t~sl~~AE~L~vi~Ei~~~~l~ 1057 (1351)
T KOG1035|consen 1008 YCISRVYRPAI-HN-HPKECLECDFDIIGPTTSLTEAELLKVIVEITTEILH 1057 (1351)
T ss_pred hhhheeecccc-cC-CCccccceeeeEecCCCCccHHHHHHHHHHHHHHHhc
Confidence 99999999988 33 8889999999887653 34667777777766443
No 169
>PRK12366 replication factor A; Reviewed
Probab=82.70 E-value=5.2 Score=46.39 Aligned_cols=76 Identities=16% Similarity=0.256 Sum_probs=56.2
Q ss_pred CCEEEEEEEEEeEe---c------CCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEe-----
Q 008040 111 NDHVSVAGRVVARR---A------FGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKR----- 176 (580)
Q Consensus 111 ~~~V~v~GrV~~~R---~------~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~----- 176 (580)
|..++|.|||.++- . .|++.-+.|.|.+|.|.+.+-.+.. +.| .. |..||++.|+|-..+
T Consensus 291 g~~~~I~grV~~~~~~R~f~~~~g~gkv~s~~l~D~tG~IR~t~w~~~~--d~~---~~-l~~G~vy~is~~~vk~y~~~ 364 (637)
T PRK12366 291 GEEVDVKGRIIAISDKREVERDDRTAEVQDIELADGTGRVRVSFWGEKA--KIL---EN-LKEGDAVKIENCKVRTYYDN 364 (637)
T ss_pred CCEEEEEEEEEecCCceEEEcCCCcEEEEEEEEEcCCCeEEEEEeCchh--hhh---cc-cCCCCEEEEecCEEeecccc
Confidence 46799999999873 2 3788889999999999999987642 122 23 378999999976666
Q ss_pred cCCceeEEEEeEEEEc
Q 008040 177 TEKGELSVLVNSFVIL 192 (580)
Q Consensus 177 t~~ge~el~~~~i~vl 192 (580)
+..+++||.+..-..+
T Consensus 365 ~~~~~~El~~~~~s~I 380 (637)
T PRK12366 365 EGEKRVDLNAGYSSEI 380 (637)
T ss_pred CCCcCEEEEcCCceEE
Confidence 3445788888654433
No 170
>cd05707 S1_Rrp5_repeat_sc11 S1_Rrp5_repeat_sc11: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes S. cerevisiae S1 repeat 11 (sc11). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=82.59 E-value=7.1 Score=30.94 Aligned_cols=52 Identities=19% Similarity=0.226 Sum_probs=37.8
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|+|..+...| +|+.|-++ +...+....++.+.++.....+..||.|.+.
T Consensus 3 ~v~g~V~~v~~~G--v~V~l~~~---~~G~v~~s~l~~~~~~~~~~~~~~Gd~v~~~ 54 (68)
T cd05707 3 VVRGFVKNIANNG--VFVTLGRG---VDARVRVSELSDSYLKDWKKRFKVGQLVKGK 54 (68)
T ss_pred EEEEEEEEEECcc--EEEEeCCC---CEEEEEHHHCCchhhcCHhhccCCCCEEEEE
Confidence 4799999999888 89999754 6666666555433344444556999999885
No 171
>PRK07211 replication factor A; Reviewed
Probab=82.38 E-value=11 Score=42.04 Aligned_cols=73 Identities=19% Similarity=0.334 Sum_probs=53.5
Q ss_pred CEEEEEEEEEeEec-----------CCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCc
Q 008040 112 DHVSVAGRVVARRA-----------FGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKG 180 (580)
Q Consensus 112 ~~V~v~GrV~~~R~-----------~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~g 180 (580)
..|+|.|||.++-. .|++.=++|-|.+|.|.+++-.+... .+...|..||++.|.|.++ ..-+
T Consensus 64 ~~vtI~aRV~~~~~~Rt~~~~~~~~eGkv~~v~l~DeTG~Ir~TlW~d~ad-----~~~~~Le~GdV~~I~~~~~-~~ys 137 (485)
T PRK07211 64 DEVKFLAKVLSIGDLRTFERDGEDEDGRVINVEVADETGSVRVAFWDEQAV-----AAEEELEVGQVLRIKGRPK-DGYN 137 (485)
T ss_pred CceEEEEEEeEccCceEEEeCCCCCCcEEEEEEEEcCCCeEEEEEechHhH-----hhhcccCCCCEEEEeceEe-cccc
Confidence 56999999987633 46899999999999999999876421 1223369999999999775 2223
Q ss_pred eeEEEEeEEE
Q 008040 181 ELSVLVNSFV 190 (580)
Q Consensus 181 e~el~~~~i~ 190 (580)
.+||.+..++
T Consensus 138 ~~El~i~~ve 147 (485)
T PRK07211 138 GLEVSVDKVE 147 (485)
T ss_pred ceEEEEeeEE
Confidence 4677777544
No 172
>KOG3108 consensus Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [Replication, recombination and repair]
Probab=82.15 E-value=7.6 Score=39.99 Aligned_cols=77 Identities=18% Similarity=0.202 Sum_probs=59.1
Q ss_pred CEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEEE
Q 008040 112 DHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFVI 191 (580)
Q Consensus 112 ~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~v 191 (580)
..|++.|||..+-....-++++|-|++|.|-+.......... .+... |..|..|.|.|.++ +..|..+|.+.+|.-
T Consensus 69 ~~v~~VGivr~~e~~~t~i~y~I~D~tg~id~r~W~~~~~~~--~e~~~-l~~~~yVkv~G~Lk-~f~Gk~sl~~fkI~p 144 (265)
T KOG3108|consen 69 SAVSIVGIVRNIEKSATNITYEIEDGTGQIDVRQWFHDNAES--EEMPA-LETGTYVKVYGHLK-PFQGKKSLQVFKIRP 144 (265)
T ss_pred EEEEEEEEEEeceecCcceEEEEecCcccEEEEEeccccchh--hhCcc-cccCcEEEeeeccc-CCCCceeEEEEeeee
Confidence 468999999999999888899999999997777665432111 12223 69999999999987 677888888887754
Q ss_pred c
Q 008040 192 L 192 (580)
Q Consensus 192 l 192 (580)
+
T Consensus 145 v 145 (265)
T KOG3108|consen 145 V 145 (265)
T ss_pred e
Confidence 4
No 173
>COG2024 Phenylalanyl-tRNA synthetase alpha subunit (archaeal type) [Translation, ribosomal structure and biogenesis]
Probab=81.52 E-value=0.89 Score=48.41 Aligned_cols=39 Identities=33% Similarity=0.842 Sum_probs=31.6
Q ss_pred HHHHhcCCC-CccceeccHHHHHHHHcCCCCccccccCCcC
Q 008040 537 VTALEYGMP-PASGMGLGIDRLVMLLTNSASIRDVIAFPIL 576 (580)
Q Consensus 537 l~al~yG~P-P~gG~GiGiDRLvMlltg~~sIrdvi~FP~~ 576 (580)
+..-+||.| |---+|+|+|||.|.|-|.++||.. .+|..
T Consensus 314 ~ALaeY~Id~pVMNLGlGVERlaMIl~g~~DVR~m-vYpqi 353 (536)
T COG2024 314 IALAEYGIDYPVMNLGLGVERLAMILHGADDVRSM-VYPQI 353 (536)
T ss_pred HHHHHcCCCCceeecchhHHHHHHHHhCchHHhhh-hcccc
Confidence 455578877 7788999999999999999999964 45543
No 174
>TIGR00617 rpa1 replication factor-a protein 1 (rpa1). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=81.45 E-value=6 Score=45.66 Aligned_cols=80 Identities=23% Similarity=0.364 Sum_probs=57.4
Q ss_pred CEEEEEEEEEeE---ec------CCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE-eEEEecC---
Q 008040 112 DHVSVAGRVVAR---RA------FGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS-GSMKRTE--- 178 (580)
Q Consensus 112 ~~V~v~GrV~~~---R~------~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~-G~v~~t~--- 178 (580)
..++|.|||.++ |. .|++.-++|.|.+|.|++.+..+.. +.+..+|..|+++.|+ |.|....
T Consensus 191 ~~wtIkaRV~~Ks~ir~~~~~~gegkvfsv~L~Degg~Irat~f~~~~-----dkf~~~l~eG~VY~Is~~~Vk~an~~y 265 (608)
T TIGR00617 191 NKWTIKARVTNKSEIRTWSNARGEGKLFNVELLDESGEIRATAFNEQA-----DKFYDIIQEGKVYYISKGSLKPANKQF 265 (608)
T ss_pred CceEEEEEEEeccccceecCCCCCceeeEEEEecCCCeEEEEECchHH-----HHHhhhcccCCEEEECceEEEEccccc
Confidence 358999999863 32 3678889999999999999987632 2333457899999997 4555432
Q ss_pred ---CceeEEEEeEEEEccccC
Q 008040 179 ---KGELSVLVNSFVILTKSL 196 (580)
Q Consensus 179 ---~ge~el~~~~i~vls~a~ 196 (580)
...+||..++-+.+.+|.
T Consensus 266 ~~~~~~yei~f~~~T~I~~~~ 286 (608)
T TIGR00617 266 TNLGNDYEMTLDRDTVIEECE 286 (608)
T ss_pred cCCCCCEEEEECCCeEEEECC
Confidence 236888887777776653
No 175
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=80.42 E-value=5.3 Score=48.36 Aligned_cols=61 Identities=21% Similarity=0.273 Sum_probs=49.2
Q ss_pred CCEEEEEEEEEeEecC---CC-eEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEec
Q 008040 111 NDHVSVAGRVVARRAF---GK-LAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRT 177 (580)
Q Consensus 111 ~~~V~v~GrV~~~R~~---gk-~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t 177 (580)
++.|+|+|.|.++|.. |+ ++|++|.|.+|.+.+++-.+ .|+.... +..++++.|+|+..+.
T Consensus 897 ~~~~~v~g~i~~~~~~~K~g~~maf~~~eD~~~~~e~~~F~~-----~~~~~~~-l~~~~~~~~~~~~~~~ 961 (973)
T PRK07135 897 NTEYRLAIEVKNVKRLRKANKEYKKVILSDDSVEITIFVNDN-----DYLLFET-LKKGDIYEFLISKSKN 961 (973)
T ss_pred CCeEEEEEEEEEEEEEeeCCCeEEEEEEEECCCcEEEEEcHH-----HHHHHHH-hhcCCEEEEEEEEcCC
Confidence 3678999999987643 54 99999999999999999754 5666665 5888999999887653
No 176
>PF00436 SSB: Single-strand binding protein family; InterPro: IPR000424 The Escherichia coli single-strand binding protein [] (gene ssb), also known as the helix-destabilising protein, is a protein of 177 amino acids. It binds tightly, as a homotetramer, to single-stranded DNA (ss-DNA) and plays an important role in DNA replication, recombination and repair. Closely related variants of SSB are encoded in the genome of a variety of large self-transmissible plasmids. SSB has also been characterised in bacteria such as Proteus mirabilis or Serratia marcescens. Eukaryotic mitochondrial proteins that bind ss-DNA and are probably involved in mitochondrial DNA replication are structurally and evolutionary related to prokaryotic SSB.; GO: 0003697 single-stranded DNA binding; PDB: 3UDG_B 1SE8_A 2CWA_A 3ULL_B 1S3O_A 2DUD_A 3AFP_A 3AFQ_A 3VDY_A 3EIV_C ....
Probab=80.23 E-value=18 Score=30.91 Aligned_cols=48 Identities=15% Similarity=0.332 Sum_probs=30.0
Q ss_pred eEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEec----CCc----eeEEEEeEEEEc
Q 008040 140 TIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRT----EKG----ELSVLVNSFVIL 192 (580)
Q Consensus 140 ~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t----~~g----e~el~~~~i~vl 192 (580)
-++|++-.+. -+.+.+.+..||.|.|+|.+... +.| .++|.|++|++|
T Consensus 49 ~~~v~~~g~~-----A~~~~~~l~kG~~V~V~G~l~~~~~~~~~G~~~~~~~i~a~~i~fl 104 (104)
T PF00436_consen 49 WINVVAWGKL-----AENVAEYLKKGDRVYVEGRLRTRTYEDKDGQKRYRVEIIADNIEFL 104 (104)
T ss_dssp EEEEEEEHHH-----HHHHHHH--TT-EEEEEEEEEEEEEESTTSSEEEEEEEEEEEEEE-
T ss_pred EEEEEeeeec-----ccccceEEcCCCEEEEEEEEEeeEEECCCCCEEEEEEEEEEEEEeC
Confidence 4667665441 12333446999999999999753 235 488999999876
No 177
>PRK04036 DNA polymerase II small subunit; Validated
Probab=79.75 E-value=18 Score=40.77 Aligned_cols=107 Identities=20% Similarity=0.340 Sum_probs=65.3
Q ss_pred HHHHHHHHHHHHHHHHcCCCCCCCCCccCCCHHHHHHHHhhccCCccCCCCCCEEEEEEEEEeEecCCC-eEEEEEeeCC
Q 008040 60 EAVRALRIKKVEELRSKGLEPYAYKWDRTHSANQLQEIYRHLANGEESNSENDHVSVAGRVVARRAFGK-LAFLTLRDDS 138 (580)
Q Consensus 60 ~e~~~~R~~kl~~L~~~g~~pyp~~~~~t~~~~~i~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~gk-~~F~~LrD~s 138 (580)
..+...|+++|..+...-.+. ..+..|.+ +.. .++++.|.|-|..+|.-.+ -..+.|.|.+
T Consensus 120 ~~~y~~R~~~L~~~l~~~~~~--------~~i~~l~~----~~~------~~~~~~viG~v~~~~~~~~g~~~~~LED~s 181 (504)
T PRK04036 120 VAYFRDRYEKLSKIIRGRVNH--------RPIESLKK----LKR------GGEEVSIIGMVSDIRSTKNGHKIVELEDTT 181 (504)
T ss_pred HHHHHHHHHHHHHHHHhhccc--------ccHHHHhc----Ccc------CCceEEEEEEEEEeecccCCceEEEEECCC
Confidence 455788888887665432221 12333332 110 1367999999999985433 2257899999
Q ss_pred eeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEE
Q 008040 139 GTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFV 190 (580)
Q Consensus 139 g~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~ 190 (580)
|+|++++.++. .+.++.... +-.|.+|+|.|... ..|+ .+.|.++.
T Consensus 182 grv~l~~~~~~--~~~~~~~~~-lvtg~vv~v~G~~~--~~g~-~f~v~~i~ 227 (504)
T PRK04036 182 GTFPVLIMKDR--EDLAELADE-LLLDEVIGVEGTLS--GDGG-LIFADEII 227 (504)
T ss_pred CeEEEEeecch--hhhhhhhhc-ccCceEEEEEEEEc--CCCC-EEEEEEEE
Confidence 99999997542 112222223 58899999999854 3441 24455544
No 178
>PRK07275 single-stranded DNA-binding protein; Provisional
Probab=79.59 E-value=22 Score=33.92 Aligned_cols=78 Identities=22% Similarity=0.423 Sum_probs=50.2
Q ss_pred EEEEEEEEEe---Eec--CCC-eEEEEEe-e----------CCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEE
Q 008040 113 HVSVAGRVVA---RRA--FGK-LAFLTLR-D----------DSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMK 175 (580)
Q Consensus 113 ~V~v~GrV~~---~R~--~gk-~~F~~Lr-D----------~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~ 175 (580)
.|.|.|||.. +|. .|. ++-+.|- + .+.-|.|++-.+. .+. +.+.+..|+.|.|+|.+.
T Consensus 4 ~v~LiGrL~~DPElr~t~sG~~v~~ftlAv~r~~~~~~ge~~tdfi~vv~wgk~--Ae~---~~~~l~KG~~V~VeGrl~ 78 (162)
T PRK07275 4 NVVLVGRMTRDAELRYTPSNVAVATFTLAVNRTFKSQNGEREADFINCVIWRQQ--AEN---LANWAKKGALIGVTGRIQ 78 (162)
T ss_pred EEEEEEEECCCCeEEECCCCCEEEEEEEEEcCceecCCCCEeeeEEEEEEEcHH--HHH---HHHHcCCCCEEEEEEEEE
Confidence 5788888875 453 343 4444442 1 1235667766542 122 334469999999999998
Q ss_pred ec----CCc----eeEEEEeEEEEcccc
Q 008040 176 RT----EKG----ELSVLVNSFVILTKS 195 (580)
Q Consensus 176 ~t----~~g----e~el~~~~i~vls~a 195 (580)
.. +.| ..||.|++|.+|.+.
T Consensus 79 ~r~y~dkdG~k~~~~evva~~i~~l~~~ 106 (162)
T PRK07275 79 TRNYENQQGQRVYVTEVVADNFQMLESR 106 (162)
T ss_pred eceEECCCCCEEEEEEEEEeEEEECCCC
Confidence 43 345 488999999999744
No 179
>PRK08486 single-stranded DNA-binding protein; Provisional
Probab=79.41 E-value=24 Score=34.31 Aligned_cols=37 Identities=14% Similarity=0.318 Sum_probs=29.6
Q ss_pred cccCCCcEEEEEeEEEec----CCc----eeEEEEeEEEEccccC
Q 008040 160 VFVDIGDILGVSGSMKRT----EKG----ELSVLVNSFVILTKSL 196 (580)
Q Consensus 160 ~~l~~gd~v~v~G~v~~t----~~g----e~el~~~~i~vls~a~ 196 (580)
+.|+.||-|.|+|.+... +.| .++|.|++|.+|++..
T Consensus 65 ~~l~KG~~V~VeGrL~~~~y~dkdG~~r~~~eI~a~~v~~L~~~~ 109 (182)
T PRK08486 65 QYLSKGSKVLIEGRLTFESWMDQNGQKRSKHTITAESMQMLDSKS 109 (182)
T ss_pred HHcCCCCEEEEEEEEEeCcEECCCCcEEEEEEEEEeEEEECCCCC
Confidence 447999999999999853 334 4899999999997653
No 180
>PF08661 Rep_fac-A_3: Replication factor A protein 3; InterPro: IPR013970 Replication factor A is involved in eukaryotic DNA replication, recombination and repair. ; PDB: 2PI2_H 1L1O_D 3KDF_A 2Z6K_D 1QUQ_D 2PQA_D.
Probab=79.25 E-value=9.7 Score=33.62 Aligned_cols=57 Identities=18% Similarity=0.250 Sum_probs=35.0
Q ss_pred CCCEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecC
Q 008040 110 ENDHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTE 178 (580)
Q Consensus 110 ~~~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~ 178 (580)
.|+.|+|-|+|.+....|+.+-+.-. +++.|+|....+. . +..+.+|.|.|+|....
T Consensus 17 ~gk~VrivGkv~~~~~~g~~~~l~~~-d~~~V~v~l~~~~----------~-~~~~~~vEviG~V~~~~ 73 (109)
T PF08661_consen 17 VGKTVRIVGKVESVDPDGGSATLSTS-DGGQVTVSLNPPS----------D-EELSKYVEVIGKVNDDG 73 (109)
T ss_dssp TTSEEEEEEEEEEE-TTSSEEEEE-T-TS-EEEEEESS------------S-S---SEEEEEEEE-TTS
T ss_pred CCCeEEEEEEEeeEcCCCCEEEEEcC-CCCEEEEEeCCCC----------C-CCCCCEEEEEEEEcCCC
Confidence 35899999999999977763333222 3457888776542 1 25689999999998544
No 181
>cd04452 S1_IF2_alpha S1_IF2_alpha: The alpha subunit of translation Initiation Factor 2, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Eukaryotic and archaeal Initiation Factor 2 (e- and aIF2, respectively) are heterotrimeric proteins with three subunits (alpha, beta, and gamma). IF2 plays a crucial role in the process of translation initiation. The IF2 gamma subunit contains a GTP-binding site. The IF2 beta and gamma subunits together are thought to be responsible for binding methionyl-initiator tRNA. The ternary complex consisting of IF2, GTP, and the methionyl-initiator tRNA binds to the small subunit of the ribosome, as part of a pre-initiation complex that scans the mRNA to find the AUG start codon. The IF2-bound GTP is hydrolyzed to GDP when the methionyl-initiator tRNA binds the AUG start codon, at which time the IF2 is released with its bound GDP. The large ribosomal subunit then joins with the small subunit to c
Probab=78.95 E-value=12 Score=30.11 Aligned_cols=54 Identities=19% Similarity=0.204 Sum_probs=36.8
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|.|..+...| +|++|.+..+ +..++....+..+.+......+..||.|.|.
T Consensus 6 ~~~g~V~~v~~~g--~~v~l~~~~~-~~gll~~s~l~~~~~~~~~~~~~~Gd~v~vk 59 (76)
T cd04452 6 LVVVTVKSIADMG--AYVSLLEYGN-IEGMILLSELSRRRIRSIRKLVKVGRKEVVK 59 (76)
T ss_pred EEEEEEEEEEccE--EEEEEcCCCC-eEEEEEhHHcCCcccCCHHHeeCCCCEEEEE
Confidence 4789999999888 8999976433 4555555444333333444556899999886
No 182
>PRK12366 replication factor A; Reviewed
Probab=78.70 E-value=10 Score=44.03 Aligned_cols=77 Identities=30% Similarity=0.409 Sum_probs=59.2
Q ss_pred CCEEEEEEEEEeEec-------C---CCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCc
Q 008040 111 NDHVSVAGRVVARRA-------F---GKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKG 180 (580)
Q Consensus 111 ~~~V~v~GrV~~~R~-------~---gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~g 180 (580)
|..|.|.|.|.++-. . |++.=+.|.|.||+|-+.+-.+.. . ..+..||+|.|.|.++..-.|
T Consensus 184 g~~v~v~G~V~~~~~~~~f~rkdg~~~~~r~~~l~D~TG~irvTlW~~~a---~-----~~~~~g~vv~i~g~~~~~~~~ 255 (637)
T PRK12366 184 NLSATIEGEVTKAYPIKEFTRKDGSEGKLKSFILKDDTGSIRVTLWNDLT---D-----IEVNKGDIVRVKGYVKQGYRT 255 (637)
T ss_pred CCeEEEEEEEEEccCcEEEEEcCCCeeEEEEEEEEcCCCcEEEEEEChhh---c-----ccCCCCCEEEEEeEEecCcCC
Confidence 468999999988643 2 346678899999999999887632 1 126999999999966655558
Q ss_pred eeEEEEeEEEEcccc
Q 008040 181 ELSVLVNSFVILTKS 195 (580)
Q Consensus 181 e~el~~~~i~vls~a 195 (580)
.+||++.+..++.+.
T Consensus 256 ~~el~~~~~~~i~~~ 270 (637)
T PRK12366 256 GLEISANNIEILEKL 270 (637)
T ss_pred ceEEEeCCceeeccc
Confidence 899999888888654
No 183
>PRK06863 single-stranded DNA-binding protein; Provisional
Probab=78.48 E-value=27 Score=33.58 Aligned_cols=79 Identities=13% Similarity=0.255 Sum_probs=50.1
Q ss_pred CEEEEEEEEEe---EecC--CC-e-EEEEEeeC-------------CeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 112 DHVSVAGRVVA---RRAF--GK-L-AFLTLRDD-------------SGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 112 ~~V~v~GrV~~---~R~~--gk-~-~F~~LrD~-------------sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
..|.|.|||.+ +|.. |+ + .|-.-.+. +.-+.|++-... .+ .+.+.|..||.|.|+
T Consensus 5 N~V~LiGrLg~DPElR~t~nG~~va~fsVAvn~~~~d~~~Ge~~e~t~w~~Vv~fgk~--AE---~v~~~LkKGs~V~Ve 79 (168)
T PRK06863 5 NKVIIVGHLGNDPEIRTMPNGEAVANISVATSESWTDKNTGERREVTEWHRIVFYRRQ--AE---VAGEYLRKGSQVYVE 79 (168)
T ss_pred cEEEEEEEcCCCCEEEEcCCCCEEEEEEEEecCcccccCCCcccccceEEEEEEEhHH--HH---HHHHHCCCCCEEEEE
Confidence 46899999987 5643 42 3 33332221 114566655432 12 233447999999999
Q ss_pred eEEEec----CCc----eeEEEEeEEEEcccc
Q 008040 172 GSMKRT----EKG----ELSVLVNSFVILTKS 195 (580)
Q Consensus 172 G~v~~t----~~g----e~el~~~~i~vls~a 195 (580)
|.+... +.| .++|.|++|++|+.-
T Consensus 80 GrL~~r~w~DkdG~~r~~~eI~a~~i~~L~~r 111 (168)
T PRK06863 80 GRLKTRKWQDQNGQDRYTTEIQGDVLQMLGGR 111 (168)
T ss_pred EEEEeCCccCCCCCEEEEEEEEEeEEEECCCC
Confidence 999854 234 489999999999744
No 184
>KOG2509 consensus Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=78.24 E-value=9.5 Score=41.64 Aligned_cols=115 Identities=19% Similarity=0.259 Sum_probs=71.7
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeecc----CCCCCCCcee---eccCCCCeeEEEEecHHHHHHHHHhccCC-
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----AGGAEARPFV---TYHNSLGRDLYLRIATELHLKRMLIGGFE- 299 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~~Ga~a~pF~---t~~~~~~~~~yL~~Spql~lk~llv~g~~- 299 (580)
+...+-..|++..-+|+.++||+-+.||.+... ..|-..+ |. .+.-.-+.+.||--..|.-+-.+ +++
T Consensus 183 ~~a~LeqALi~yal~~l~~kGy~pl~~P~i~rkeVm~~cg~~~~-~d~~~~y~ld~~~~~~LiaTaE~plAa~---~~~e 258 (455)
T KOG2509|consen 183 AGAFLEQALINYALDFLNAKGYTPLTTPDILRKEVMQKCGQLPR-FDEEQYYVLDGGDEKYLIATAEQPLAAY---HRDE 258 (455)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCccccCchhhhHHHHHHhccCcC-CCcceEEeecCCccceeEeeccchhhhh---hccc
Confidence 455677889999999999999999999999853 1221111 21 11101123467665556553322 223
Q ss_pred ---------ceeEEecccccCC-C---CCC---CCccceeeeeEeecCCHHHHHHHHHHHHHHH
Q 008040 300 ---------KIYEIGRIFRNEG-L---STR---HNPEFTTIEMYEAYSDYQSMMNITEEIVTHC 347 (580)
Q Consensus 300 ---------rVfeIg~~FR~E~-~---~~r---H~pEFtmlE~e~a~~d~~d~m~l~E~li~~~ 347 (580)
|+--.++|||.|- + +++ +.-+|+-+|.-. ..+.++--++.|+||...
T Consensus 259 ~~~~~~lPiK~vg~S~CfR~EaGs~G~d~~GlyRVHqF~KVE~Fv-it~Pe~S~~~~eEmi~~~ 321 (455)
T KOG2509|consen 259 WLEEDQLPIKYVGVSRCFRAEAGSHGKDTKGLYRVHQFEKVEQFV-ITGPEDSWEMLEEMINNQ 321 (455)
T ss_pred ccccccCceeeeehhHHHHHHhhhcccccccceeeeeeeeeEEEE-ecCcchhHHHHHHHHHHH
Confidence 5666799999996 3 233 556999999855 345555555555555443
No 185
>PRK07080 hypothetical protein; Validated
Probab=78.07 E-value=2.9 Score=43.91 Aligned_cols=48 Identities=10% Similarity=0.176 Sum_probs=37.8
Q ss_pred ceeEE-ecccccCCCC-CCCCccceeeeeEeecCCHHHHHHHHHHHHHHHH
Q 008040 300 KIYEI-GRIFRNEGLS-TRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCA 348 (580)
Q Consensus 300 rVfeI-g~~FR~E~~~-~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~ 348 (580)
++|.+ |.|||+|++. .+++-||+|.|+-.. .+-+++++.-+..+....
T Consensus 153 ~~~dv~g~CFR~E~s~dl~Rl~~F~mrE~V~i-Gt~e~v~~~r~~w~e~~~ 202 (317)
T PRK07080 153 RLVDVASYCFRHEPSLDPARMQLFRMREYVRI-GTPEQIVAFRQSWIERGT 202 (317)
T ss_pred cEEEeeeeeeccCCCCCcHHHhheeeeEEEEe-cCHHHHHHHHHHHHHHHH
Confidence 66654 9999999975 589999999999774 577888888777776543
No 186
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=77.61 E-value=16 Score=42.24 Aligned_cols=60 Identities=25% Similarity=0.398 Sum_probs=44.8
Q ss_pred CCEEEEEEEEEeEec--CC--CeEEEEEee-CCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEec
Q 008040 111 NDHVSVAGRVVARRA--FG--KLAFLTLRD-DSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRT 177 (580)
Q Consensus 111 ~~~V~v~GrV~~~R~--~g--k~~F~~LrD-~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t 177 (580)
|+.|+|.|.|.+... .+ ++.-+.+.| ++|.+.+++-... | +.+.+..|+.+.|.|++...
T Consensus 32 g~~~~~~~~v~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~F~~~-----~--~~~~~~~g~~~~~~Gk~~~~ 96 (630)
T TIGR00643 32 GERATIVGEVLSHCIFGFKRRKVLKLRLKDGGYKKLELRFFNRA-----F--LKKKFKVGSKVVVYGKVKSS 96 (630)
T ss_pred CCEEEEEEEEEEeEeccCCCCceEEEEEEECCCCEEEEEEECCH-----H--HHhhCCCCCEEEEEEEEEee
Confidence 478999999876421 22 467788999 9999999987521 2 33446999999999999764
No 187
>cd05698 S1_Rrp5_repeat_hs6_sc5 S1_Rrp5_repeat_hs6_sc5: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 6 (hs6) and S. cerevisiae S1 repeat 5 (sc5). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=77.46 E-value=14 Score=29.26 Aligned_cols=52 Identities=13% Similarity=0.316 Sum_probs=37.0
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|+|.++.+.| +|+.|-++ ++.++....+..+......+.+..||.|.|.
T Consensus 3 ~~~g~V~~v~~~G--~~V~l~~~---~~gli~~s~l~~~~~~~~~~~~~~G~~i~v~ 54 (70)
T cd05698 3 KTHGTIVKVKPNG--CIVSFYNN---VKGFLPKSELSEAFIKDPEEHFRVGQVVKVK 54 (70)
T ss_pred EEEEEEEEEecCc--EEEEECCC---CEEEEEHHHcChhhcCCHHHcccCCCEEEEE
Confidence 4789999999888 89999542 7888877665432222233446899999886
No 188
>PRK07252 hypothetical protein; Provisional
Probab=76.85 E-value=49 Score=29.89 Aligned_cols=69 Identities=14% Similarity=0.275 Sum_probs=43.1
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNS 188 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~ 188 (580)
.+.|.|..+...| +|++|..+ +..++....+..+.+......+.+||.|.|.=.=....+|.+.+....
T Consensus 6 iv~G~V~~V~~~G--~fVei~~~---~~GllhiseLs~~~~~~~~~~~~vGD~V~VkI~~iD~~~~ri~lSlk~ 74 (120)
T PRK07252 6 KLKGTITGIKPYG--AFVALENG---TTGLIHISEIKTGFIDNIHQLLKVGEEVLVQVVDFDEYTGKASLSLRT 74 (120)
T ss_pred EEEEEEEEEeCcE--EEEEECCC---CEEEEEHHHcCCccccChhhccCCCCEEEEEEEEEeCCCCEEEEEEee
Confidence 4799999999988 78888432 555555544433334334445799999998622222235666655443
No 189
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=76.41 E-value=26 Score=40.54 Aligned_cols=76 Identities=28% Similarity=0.417 Sum_probs=54.3
Q ss_pred CCEEEEEEEEEeEecC---C-CeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEE
Q 008040 111 NDHVSVAGRVVARRAF---G-KLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLV 186 (580)
Q Consensus 111 ~~~V~v~GrV~~~R~~---g-k~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~ 186 (580)
|+.|+|.|.|.+.-.. + ++.=+.+.|+++.+-+++-... . .+++.++.|..|.|.|++... .|..++.-
T Consensus 60 g~~vti~g~V~~~~~~~~~~~~~l~v~~~d~~~~l~l~fFn~~----~--~l~~~~~~G~~v~v~Gk~~~~-~~~~~~~h 132 (677)
T COG1200 60 GEIVTIEGTVLSHEKFPFGKRKLLKVTLSDGTGVLTLVFFNFP----A--YLKKKLKVGERVIVYGKVKRF-KGGLQITH 132 (677)
T ss_pred CceEEEEEEEEeeeccCCCCCceEEEEEecCcEEEEEEEECcc----H--HHHhhCCCCCEEEEEEEEeec-cCceEEEc
Confidence 5789999999776433 3 3677789999999998876542 1 344557999999999999984 34455555
Q ss_pred eEEEEcc
Q 008040 187 NSFVILT 193 (580)
Q Consensus 187 ~~i~vls 193 (580)
-++.+++
T Consensus 133 pe~~~~~ 139 (677)
T COG1200 133 PEYIVND 139 (677)
T ss_pred ceEEecC
Confidence 5555543
No 190
>cd05691 S1_RPS1_repeat_ec6 S1_RPS1_repeat_ec6: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 6 (ec6) of the Escherichia coli RPS1. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=75.30 E-value=17 Score=28.81 Aligned_cols=52 Identities=23% Similarity=0.332 Sum_probs=35.6
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|.|..+...| +|++|.++ +..++....++.+.+......++.||.|.+.
T Consensus 3 ~v~g~V~~v~~~g--~~v~l~~~---~~g~i~~~~~~~~~~~~~~~~~~~Gd~v~~~ 54 (73)
T cd05691 3 IVTGKVTEVDAKG--ATVKLGDG---VEGFLRAAELSRDRVEDATERFKVGDEVEAK 54 (73)
T ss_pred EEEEEEEEEECCe--EEEEeCCC---CEEEEEHHHCCCccccCHHHccCCCCEEEEE
Confidence 3689999998776 78888654 5666665544433333344456999999886
No 191
>PF03100 CcmE: CcmE; InterPro: IPR004329 CcmE is the product of one of a cluster of Ccm genes that are necessary for cytochrome c biosynthesis in eubacteria. Expression of these proteins is induced when the organisms are grown under anaerobic conditions with nitrate or nitrite as the final electron acceptor.; GO: 0017003 protein-heme linkage, 0017004 cytochrome complex assembly, 0005886 plasma membrane; PDB: 1SR3_A 2KCT_A 1J6Q_A 1LM0_A.
Probab=74.55 E-value=33 Score=31.38 Aligned_cols=71 Identities=27% Similarity=0.318 Sum_probs=45.2
Q ss_pred CCCEEEEEEEEE--eEec--CC-CeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEE
Q 008040 110 ENDHVSVAGRVV--ARRA--FG-KLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSV 184 (580)
Q Consensus 110 ~~~~V~v~GrV~--~~R~--~g-k~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el 184 (580)
.++.|+|.|+|. ++.. .+ .+.| .|.|+...+.|+..... +++ ...|.-|.|+|.+ ...| .+
T Consensus 49 ~~~~vrv~G~V~~gSv~~~~~~~~~~F-~i~D~~~~i~V~Y~G~~--Pd~-------F~eg~~VVv~G~~--~~~g--~F 114 (131)
T PF03100_consen 49 VGRKVRVGGLVVEGSVEYDPDGNTLTF-TITDGGKEIPVVYTGPL--PDL-------FREGQGVVVEGRL--GEDG--VF 114 (131)
T ss_dssp TTSEEEEEEEEECTTEEE-TTSSEEEE-EEE-SS-EEEEEEES----CTT---------TTSEEEEEEEE--CCTS--EE
T ss_pred CCceEEEeeEEccCCEEEcCCCCEEEE-EEEECCcEEEEEECCCC--Ccc-------ccCCCeEEEEEEE--CCCC--EE
Confidence 368999999998 5544 23 4666 56899999999987653 333 3569999999988 2333 34
Q ss_pred EEeEEEEccccC
Q 008040 185 LVNSFVILTKSL 196 (580)
Q Consensus 185 ~~~~i~vls~a~ 196 (580)
+|++ ||.||.
T Consensus 115 ~A~~--lL~Kcp 124 (131)
T PF03100_consen 115 EATE--LLAKCP 124 (131)
T ss_dssp EEEE--EEETS-
T ss_pred EEEE--EEeCCC
Confidence 4554 566663
No 192
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=74.05 E-value=37 Score=32.81 Aligned_cols=78 Identities=23% Similarity=0.379 Sum_probs=48.0
Q ss_pred EEEEEEEEEe---Eec--CCC-eEEEEE-e-----eCC-----eeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEE
Q 008040 113 HVSVAGRVVA---RRA--FGK-LAFLTL-R-----DDS-----GTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMK 175 (580)
Q Consensus 113 ~V~v~GrV~~---~R~--~gk-~~F~~L-r-----D~s-----g~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~ 175 (580)
.|.|.|||.+ +|. .|. ++-+.| . +.. .-+-|++-.+. .+. +.+.|..||.|.|+|.+.
T Consensus 4 ~V~LiGrL~~DpelR~t~sG~~v~~fslAvnr~~~~~~ge~~tdwi~~v~wgk~--Ae~---~~~~l~KG~~V~VeGrL~ 78 (173)
T PRK06751 4 RVILVGRLTKDPDLRYTPNGVAVATFTLAVNRAFANQQGEREADFINCVIWRKQ--AEN---VANYLKKGSLAGVDGRLQ 78 (173)
T ss_pred EEEEEEEECCCCcEEECCCCCEEEEEEEEEccceecCCCCEEEEEEEEEEeCcH--HHH---HHHHcCCCCEEEEEEEEE
Confidence 5778888875 343 242 333333 1 111 24556655442 122 334469999999999998
Q ss_pred ec----CCc----eeEEEEeEEEEcccc
Q 008040 176 RT----EKG----ELSVLVNSFVILTKS 195 (580)
Q Consensus 176 ~t----~~g----e~el~~~~i~vls~a 195 (580)
.. +.| .+||.|+.|++|.+.
T Consensus 79 ~r~yedkdG~~~~~~eVva~~i~~l~~r 106 (173)
T PRK06751 79 TRNYEGQDGKRVYVTEVLAESVQFLEPR 106 (173)
T ss_pred eCccCCCCCcEEEEEEEEEEEEEeCcCC
Confidence 64 335 489999999998743
No 193
>PRK08402 replication factor A; Reviewed
Probab=73.58 E-value=21 Score=38.47 Aligned_cols=76 Identities=22% Similarity=0.371 Sum_probs=54.0
Q ss_pred CEEEEEEEEEeE---e----cCC---CeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEec-CCc
Q 008040 112 DHVSVAGRVVAR---R----AFG---KLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRT-EKG 180 (580)
Q Consensus 112 ~~V~v~GrV~~~---R----~~g---k~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t-~~g 180 (580)
+.|++.|+|.++ | +.| ++.=+.|-|.||.+.+.+..+... . .+.. |..||+|.|.|--++. -.|
T Consensus 73 ~~V~v~~rVl~~~~~r~f~rrdG~~~~V~~i~l~DeTG~ir~TlW~~~a~--~--~~~~-l~~Gdvi~I~~a~V~e~~~G 147 (355)
T PRK08402 73 RGVNIVGRVLRKYPPREYTKKDGSTGRVASLIIYDDTGRARVVLWDAKVA--K--YYNK-INVGDVIKVIDAQVRESLSG 147 (355)
T ss_pred ceeeEEEEEEEccCCceeeccCCCcceEEEEEEEcCCCeEEEEEechhhh--h--hccc-CCCCCEEEEECCEEeecCCC
Confidence 579999999987 3 234 355599999999999998876421 1 1223 5999999998655554 588
Q ss_pred eeEEEEeEEEEc
Q 008040 181 ELSVLVNSFVIL 192 (580)
Q Consensus 181 e~el~~~~i~vl 192 (580)
.++|.+.+-.-+
T Consensus 148 ~~eLsvg~~s~i 159 (355)
T PRK08402 148 LPELHINFRARI 159 (355)
T ss_pred cEEEEECCCceE
Confidence 888888655433
No 194
>PRK06293 single-stranded DNA-binding protein; Provisional
Probab=73.52 E-value=40 Score=32.18 Aligned_cols=38 Identities=21% Similarity=0.301 Sum_probs=29.3
Q ss_pred hhcccCCCcEEEEEeEEEec----CCc----eeEEEEeEEEEcccc
Q 008040 158 LKVFVDIGDILGVSGSMKRT----EKG----ELSVLVNSFVILTKS 195 (580)
Q Consensus 158 ~~~~l~~gd~v~v~G~v~~t----~~g----e~el~~~~i~vls~a 195 (580)
+.+.|..||.|.|+|.+... +.| .++|.|++|++|+-.
T Consensus 57 v~~yL~KG~~V~VeGrL~~~~y~dkdG~kr~~~eIva~~I~fl~~~ 102 (161)
T PRK06293 57 MLPYLKKGSGVIVAGEMSPESYVDKDGSPQSSLVVSVDTIKFSPFG 102 (161)
T ss_pred HHHhCCCCCEEEEEEEEEeCccCCCCCCEEEEEEEEEeEEEECcCC
Confidence 33447999999999999854 334 488999999999543
No 195
>cd05694 S1_Rrp5_repeat_hs2_sc2 S1_Rrp5_repeat_hs2_sc2: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 2 (hs2) and S. cerevisiae S1 repeat 2 (sc2). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=73.15 E-value=29 Score=28.41 Aligned_cols=47 Identities=15% Similarity=0.134 Sum_probs=34.3
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.|.|+|.++.++| +|+++ +-+.+..++.++.++.. ..+..|+.|.+.
T Consensus 7 ~v~g~V~si~d~G--~~v~~--g~~gv~Gfl~~~~~~~~------~~~~~Gq~v~~~ 53 (74)
T cd05694 7 VLSGCVSSVEDHG--YILDI--GIPGTTGFLPKKDAGNF------SKLKVGQLLLCV 53 (74)
T ss_pred EEEEEEEEEeCCE--EEEEe--CCCCcEEEEEHHHCCcc------cccCCCCEEEEE
Confidence 5999999999999 89998 32236777776654321 336899998876
No 196
>PRK07218 replication factor A; Provisional
Probab=73.02 E-value=23 Score=39.00 Aligned_cols=72 Identities=24% Similarity=0.297 Sum_probs=55.0
Q ss_pred CEEEEEEEEEeE--e----cCC--CeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeE
Q 008040 112 DHVSVAGRVVAR--R----AFG--KLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELS 183 (580)
Q Consensus 112 ~~V~v~GrV~~~--R----~~g--k~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~e 183 (580)
..|+|.|+|..+ | +-| .+.=..|-|.||+|.+++..+. .. |..||+|.|.|-..+.-.|.++
T Consensus 173 ~~V~v~g~Vl~~~~r~f~~~dg~~~v~~giigDeTG~Ir~tlW~~~---------~~-l~~Gd~v~I~na~v~e~~G~~e 242 (423)
T PRK07218 173 RGVNVEARVLELEHREIDGRDGETTILSGVLADETGRLPFTDWDPL---------PE-IEIGASIRIEDAYVREFRGVPS 242 (423)
T ss_pred CceEEEEEEEEecceeEEcCCCCeEEEEEEEECCCceEEEEEeccc---------cc-CCCCCEEEEeeeEEeccCCeEE
Confidence 458999999876 2 113 3555678999999999987652 12 5899999999999998899999
Q ss_pred EEEeEEEEcc
Q 008040 184 VLVNSFVILT 193 (580)
Q Consensus 184 l~~~~i~vls 193 (580)
|.+.+..-+.
T Consensus 243 lnv~~~t~I~ 252 (423)
T PRK07218 243 VNVSEFTTVE 252 (423)
T ss_pred EEECCceEEE
Confidence 9998554443
No 197
>PRK15491 replication factor A; Provisional
Probab=72.76 E-value=17 Score=39.36 Aligned_cols=79 Identities=15% Similarity=0.261 Sum_probs=57.4
Q ss_pred CEEEEEEEEEeEec-------CC---CeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeE-EEec-CC
Q 008040 112 DHVSVAGRVVARRA-------FG---KLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGS-MKRT-EK 179 (580)
Q Consensus 112 ~~V~v~GrV~~~R~-------~g---k~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~-v~~t-~~ 179 (580)
..|.|.|+|.++-. .| ++.=+.|-|.+|.|.+.+-.+... . +.. |..||.|.+.+- ++.+ -.
T Consensus 177 ~~V~I~g~V~~~~~~r~~~~~~G~~~~v~~~~l~DetG~Ir~t~W~~~a~--~---~~~-l~~Gd~V~i~~~~~r~~~~~ 250 (374)
T PRK15491 177 SDINIVGKVLDISDVRTFQKKDGSQGRVRNITIGDETGKIRVTLWDGKTD--L---ADK-LENGDSVEIINGYARTNNYS 250 (374)
T ss_pred ccEEEEEEEEEccCceEEEecCCCeEEEEEEEEECCCCeEEEEEecchhc--c---ccc-CCCCCEEEEEeceEEEeccC
Confidence 45999999988743 24 466699999999999999876421 1 223 589999999764 5433 35
Q ss_pred ceeEEEEeEEEEccccC
Q 008040 180 GELSVLVNSFVILTKSL 196 (580)
Q Consensus 180 ge~el~~~~i~vls~a~ 196 (580)
|++||.+.+-..+.+|.
T Consensus 251 g~~El~~~~~s~I~~~~ 267 (374)
T PRK15491 251 QEVEIQIGNHGSLRKTD 267 (374)
T ss_pred CCEEEEeCCCceEEECC
Confidence 88999987766676664
No 198
>cd04472 S1_PNPase S1_PNPase: Polynucleotide phosphorylase (PNPase), ), S1-like RNA-binding domain. PNPase is a polyribonucleotide nucleotidyl transferase that degrades mRNA. It is a trimeric multidomain protein. The C-terminus contains the S1 domain which binds ssRNA. This family is classified based on the S1 domain. PNPase nonspecifically removes the 3' nucleotides from mRNA, but is stalled by double-stranded RNA structures such as a stem-loop. Evidence shows that a minimum of 7-10 unpaired nucleotides at the 3' end, is required for PNPase degradation. It is suggested that PNPase also dephosphorylates the RNA 5' end. This additional activity may regulate the 5'-dependent activity of RNaseE in vivo.
Probab=72.14 E-value=17 Score=28.24 Aligned_cols=52 Identities=21% Similarity=0.386 Sum_probs=33.9
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|.|..+...| +|++|-++ +..++....+..+.+....+.+..||.|.|.
T Consensus 3 ~~~g~V~~v~~~G--~~v~l~~~---~~g~l~~~~l~~~~~~~~~~~~~~Gd~v~v~ 54 (68)
T cd04472 3 IYEGKVVKIKDFG--AFVEILPG---KDGLVHISELSDERVEKVEDVLKVGDEVKVK 54 (68)
T ss_pred EEEEEEEEEEEeE--EEEEeCCC---CEEEEEhHHcCCccccCHHHccCCCCEEEEE
Confidence 4689999999887 78888654 4555554443322222223346899999886
No 199
>cd05686 S1_pNO40 S1_pNO40: pNO40 , S1-like RNA-binding domain. pNO40 is a nucleolar protein of unknown function with an N-terminal S1 RNA binding domain, a CCHC type zinc finger, and clusters of basic amino acids representing a potential nucleolar targeting signal. pNO40 was identified through a yeast two-hybrid interaction screen of a human kidney cDNA library using the pinin (pnn) protein as bait. pNO40 is thought to play a role in ribosome maturation and/or biogenesis.
Probab=72.08 E-value=24 Score=28.49 Aligned_cols=53 Identities=25% Similarity=0.346 Sum_probs=36.2
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|.|..+-+.| +|+.| ++.+ +..++....+....++...+.+..||.|.|.
T Consensus 6 ~~~g~V~~i~~fG--~fv~l-~~~~-~eGlvh~sel~~~~~~~~~~~~~~Gd~v~vk 58 (73)
T cd05686 6 IFKGEVASVTEYG--AFVKI-PGCR-KQGLVHKSHMSSCRVDDPSEVVDVGEKVWVK 58 (73)
T ss_pred EEEEEEEEEEeee--EEEEE-CCCC-eEEEEEchhhCCCcccCHhhEECCCCEEEEE
Confidence 4689999999998 89999 4432 4555555444333444445556889999886
No 200
>PRK14699 replication factor A; Provisional
Probab=70.92 E-value=36 Score=38.23 Aligned_cols=79 Identities=23% Similarity=0.366 Sum_probs=57.9
Q ss_pred CEEEEEEEEEeE---ec----CC---CeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecC--C
Q 008040 112 DHVSVAGRVVAR---RA----FG---KLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTE--K 179 (580)
Q Consensus 112 ~~V~v~GrV~~~---R~----~g---k~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~--~ 179 (580)
..|+|.|+|.++ |. .| ++.=+.|-|.||+|.+++-.+... .... |..||+|.|.+-..+.. .
T Consensus 177 ~~V~i~gkVl~~~~~R~f~~~dG~~g~v~~~~igDeTG~ir~tlW~~~a~-----~~~~-l~~Gd~v~I~~a~vr~~~~~ 250 (484)
T PRK14699 177 GDLNLTGKVLEISEIRTFQRKDGTSGKVGNLLLGDETGTLRVTLWDDKTD-----FLNQ-IEYGDTVELINAYARENAFT 250 (484)
T ss_pred CceEEEEEEEeccCceEEecCCCCceEEEEEEEEcCCceEEEEEECcccc-----cccc-cCCCCEEEEecceEeecccC
Confidence 459999999875 32 23 455578999999999999876421 1223 69999999987655544 3
Q ss_pred ceeEEEEeEEEEccccC
Q 008040 180 GELSVLVNSFVILTKSL 196 (580)
Q Consensus 180 ge~el~~~~i~vls~a~ 196 (580)
|.++|.+....++.++.
T Consensus 251 ~~~el~~~~~s~i~~~~ 267 (484)
T PRK14699 251 QKVELQVGNRSIIRKSE 267 (484)
T ss_pred CceEEEecCceEeeccc
Confidence 78999998888887764
No 201
>PRK07211 replication factor A; Reviewed
Probab=70.69 E-value=22 Score=39.85 Aligned_cols=79 Identities=22% Similarity=0.340 Sum_probs=58.5
Q ss_pred CEEEEEEEEEeE---e----cC---CCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCce
Q 008040 112 DHVSVAGRVVAR---R----AF---GKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGE 181 (580)
Q Consensus 112 ~~V~v~GrV~~~---R----~~---gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge 181 (580)
..|.|.|||.++ | .. |++.=+.|-|.+|.|.+.+-.+.. +.| .. |..|++|.|.|--.+.-.|.
T Consensus 172 ~~v~I~grV~~v~~iRtf~r~dGseGkv~sv~L~DeTG~IR~TlW~d~A--d~~---~~-le~G~Vv~I~~a~Vre~~g~ 245 (485)
T PRK07211 172 SDVTLVGVVLDTDSVRTFDRDDGSEGRVSNLTVGDETGRVRVTLWDDRA--DLA---EE-LDAGESVEIVDGYVRERDGS 245 (485)
T ss_pred CceEEEEEEEEcCCCeEEECCCCCeeEEEEEEEEcCCCeEEEEEechhh--hhh---cc-CCCCCEEEEEeeEEEecCCc
Confidence 568999999854 2 23 468889999999999999987642 223 23 58999999986555555688
Q ss_pred eEEEEeEEEEccccC
Q 008040 182 LSVLVNSFVILTKSL 196 (580)
Q Consensus 182 ~el~~~~i~vls~a~ 196 (580)
+||.+.+-..+.+|.
T Consensus 246 ~ELsl~~~s~I~~~~ 260 (485)
T PRK07211 246 LELHVGDRGAVEEVD 260 (485)
T ss_pred EEEEECCCceEEECC
Confidence 999888766666653
No 202
>PRK05807 hypothetical protein; Provisional
Probab=70.62 E-value=23 Score=32.77 Aligned_cols=67 Identities=16% Similarity=0.293 Sum_probs=44.4
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEe-cCCceeEEEEeEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKR-TEKGELSVLVNSF 189 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~-t~~ge~el~~~~i 189 (580)
.+.|.|..+...| +|+.| ++ .+.++....+...-...+...+.+||.|.|. |.. ...|.++|....+
T Consensus 8 vv~G~Vt~i~~~G--afV~L-~~---~~Glvhiseis~~~v~~~~~~~kvGd~V~Vk--V~~id~~gkI~LSlk~~ 75 (136)
T PRK05807 8 ILEGTVVNITNFG--AFVEV-EG---KTGLVHISEVADTYVKDIREHLKEQDKVKVK--VISIDDNGKISLSIKQA 75 (136)
T ss_pred EEEEEEEEEECCe--EEEEE-CC---EEEEEEhhhcccccccCccccCCCCCEEEEE--EEEECCCCcEEEEEEec
Confidence 5889999999888 89999 43 3666665544332233334457999999876 322 2357777776654
No 203
>cd05706 S1_Rrp5_repeat_sc10 S1_Rrp5_repeat_sc10: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes S. cerevisiae S1 repeat 10 (sc10). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=69.86 E-value=35 Score=27.21 Aligned_cols=52 Identities=17% Similarity=0.117 Sum_probs=35.2
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|.|..+...| +|+.|-.+ ++.++....++.+........+..||.|.+.
T Consensus 6 iv~g~V~~v~~~g--i~v~l~~~---~~g~v~~s~l~~~~~~~~~~~~~~Gd~v~~~ 57 (73)
T cd05706 6 ILPGRVTKVNDRY--VLVQLGNK---VTGPSFITDALDDYSEALPYKFKKNDIVRAC 57 (73)
T ss_pred EEEEEEEEEeCCe--EEEEeCCC---cEEEEEhhhccCccccccccccCCCCEEEEE
Confidence 5789999998877 89998553 7777766554322112233446899998875
No 204
>PLN02734 glycyl-tRNA synthetase
Probab=69.80 E-value=1.4 Score=50.87 Aligned_cols=34 Identities=32% Similarity=0.391 Sum_probs=27.1
Q ss_pred ceeEEecccccCCCCC---CCCccceeeeeEeecCCHH
Q 008040 300 KIYEIGRIFRNEGLST---RHNPEFTTIEMYEAYSDYQ 334 (580)
Q Consensus 300 rVfeIg~~FR~E~~~~---rH~pEFtmlE~e~a~~d~~ 334 (580)
-+-|||++||||=+-+ -+.-||||.|+|- |.|.+
T Consensus 277 ~~AQIGk~FRNEIsPR~gl~R~REF~qaEiE~-Fv~P~ 313 (684)
T PLN02734 277 AAAQIGQAFRNEISPRQGLLRVREFTLAEIEH-FVDPE 313 (684)
T ss_pred eeeeccHhhhcccCcccceeeechhhhhhhhe-ecCcc
Confidence 5789999999994432 5788999999988 66544
No 205
>PRK08582 hypothetical protein; Provisional
Probab=69.53 E-value=25 Score=32.63 Aligned_cols=69 Identities=16% Similarity=0.321 Sum_probs=41.8
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSF 189 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i 189 (580)
.+.|.|..+...| +|+.|-++ +..++....+..+.+..+...+.+||.|.|.=. .....|.+.|....+
T Consensus 8 iv~G~V~~I~~fG--~fV~L~~~---~~GlVhiSels~~~v~~~~~~l~vGD~VkvkV~-~id~~gkI~LSlk~~ 76 (139)
T PRK08582 8 KLQGKVTGITNFG--AFVELPEG---KTGLVHISEVADNYVKDINDHLKVGDEVEVKVL-NVEDDGKIGLSIKKA 76 (139)
T ss_pred EEEEEEEEEECCe--EEEEECCC---CEEEEEeeccCcccccccccccCCCCEEEEEEE-EECCCCcEEEEEEec
Confidence 4899999999998 89999653 333333333322222333445799999988521 112347666665443
No 206
>TIGR00621 ssb single stranded DNA-binding protein (ssb). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=69.39 E-value=66 Score=30.58 Aligned_cols=79 Identities=15% Similarity=0.282 Sum_probs=48.7
Q ss_pred CEEEEEEEEEe---EecC--CC-eE-EEEEeeC------------CeeEEEEEecCccChHHHHhhhcccCCCcEEEEEe
Q 008040 112 DHVSVAGRVVA---RRAF--GK-LA-FLTLRDD------------SGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSG 172 (580)
Q Consensus 112 ~~V~v~GrV~~---~R~~--gk-~~-F~~LrD~------------sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G 172 (580)
..|+|.|+|.. +|.. |+ ++ |-...+. +.-+.|++-.+. -+.+.+.|..|+.|.|+|
T Consensus 5 N~V~L~G~l~~dPe~r~t~~G~~v~~fsvA~~~~~~~~~G~~~~~t~~~~v~~wg~~-----Ae~~~~~l~KG~~V~V~G 79 (164)
T TIGR00621 5 NKVILVGRLTRDPELRYTPSGNAVANFTLATNRRWKDQDGEWKEETEWHDIVIFGRL-----AEVAAQYLKKGSLVYVEG 79 (164)
T ss_pred cEEEEEEEeCCCCEEEECCCCCEEEEEEEEEcCceecCCCCEeccceEEEEEEehHH-----HHHHHHhCCCCCEEEEEE
Confidence 36888899887 5543 43 33 4333322 124445544331 122334469999999999
Q ss_pred EEEec----CCc----eeEEEEeEEEEcccc
Q 008040 173 SMKRT----EKG----ELSVLVNSFVILTKS 195 (580)
Q Consensus 173 ~v~~t----~~g----e~el~~~~i~vls~a 195 (580)
.+... +.| .++|.|++|.+|...
T Consensus 80 ~L~~~~~~~kdG~~~~~~ev~a~~i~~L~~~ 110 (164)
T TIGR00621 80 RLRTRKWEDQNGQKRSKTEIIADNVQLLDLL 110 (164)
T ss_pred EEEeceEECCCCcEEEEEEEEEEEEeecccc
Confidence 99853 345 488999999888644
No 207
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=69.32 E-value=19 Score=39.43 Aligned_cols=75 Identities=25% Similarity=0.305 Sum_probs=54.4
Q ss_pred CEEEEEEEEEeE--ecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEE
Q 008040 112 DHVSVAGRVVAR--RAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSF 189 (580)
Q Consensus 112 ~~V~v~GrV~~~--R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i 189 (580)
..++|.|+|... ..-|+..|+.+.|+.|.|-+++-.... .|..+-..|..||.|.+.|.++... |.++++
T Consensus 267 ~~~~v~g~v~~~p~~ieGghv~v~i~d~~G~I~~~A~eptk---~fr~~a~~L~pGD~i~~~G~~~~~~-----~n~ek~ 338 (421)
T COG1571 267 SKYRVVGRVEAEPRAIEGGHVVVEITDGEGEIGAVAFEPTK---EFRELARKLIPGDEITVYGSVKPGT-----LNLEKF 338 (421)
T ss_pred cceEEEEEEecccEEeeCCEEEEEecCCCceEEEEEecccc---cchHHHHhcCCCCEEEEecCccccc-----eeEEEE
Confidence 458899988774 457899999999999998888765431 2333323369999999999987533 666666
Q ss_pred EEccc
Q 008040 190 VILTK 194 (580)
Q Consensus 190 ~vls~ 194 (580)
+++.-
T Consensus 339 ~v~~l 343 (421)
T COG1571 339 QVLKL 343 (421)
T ss_pred EEEEe
Confidence 66543
No 208
>COG3390 Uncharacterized protein conserved in archaea [Function unknown]
Probab=69.10 E-value=22 Score=34.58 Aligned_cols=78 Identities=18% Similarity=0.386 Sum_probs=57.5
Q ss_pred CEEEEEEEEEeEecCC--C-eEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEE--ecCCce--eEE
Q 008040 112 DHVSVAGRVVARRAFG--K-LAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMK--RTEKGE--LSV 184 (580)
Q Consensus 112 ~~V~v~GrV~~~R~~g--k-~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~--~t~~ge--~el 184 (580)
..|-|.|-|..+-..| . +.=+.+.|.+|.+=|+...- .++....+.. +..+|.|.|.|++. ++..|. ++|
T Consensus 46 nRifivGtltek~~i~ed~~~~R~rVvDpTGsF~Vyag~y--qPEa~a~l~~-ve~~~~VaViGKi~~y~~d~g~~~~si 122 (196)
T COG3390 46 NRIFIVGTLTEKEGIGEDREYWRIRVVDPTGSFYVYAGQY--QPEAKAFLED-VEVPDLVAVIGKIRTYRTDEGVVLFSI 122 (196)
T ss_pred eEEEEEEEEEeccCcCCcccEEEEEEecCCceEEEEcCCC--ChHHHHHHHh-ccCCceEEEecccceeecCCCceEEEe
Confidence 4688999999998887 4 88899999999888865433 3566666655 69999999999986 344443 555
Q ss_pred EEeEEEEc
Q 008040 185 LVNSFVIL 192 (580)
Q Consensus 185 ~~~~i~vl 192 (580)
.++.+..+
T Consensus 123 RpE~vs~v 130 (196)
T COG3390 123 RPELVSKV 130 (196)
T ss_pred chhhhhhc
Confidence 56555443
No 209
>PRK06386 replication factor A; Reviewed
Probab=68.95 E-value=35 Score=36.78 Aligned_cols=72 Identities=11% Similarity=0.145 Sum_probs=54.2
Q ss_pred CEEEEEEEEEeEe------c--CCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeE
Q 008040 112 DHVSVAGRVVARR------A--FGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELS 183 (580)
Q Consensus 112 ~~V~v~GrV~~~R------~--~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~e 183 (580)
.-|.|.|+|..+= + .|.+.=+.|-|.||+|.++.-.+ . |..||+|.|.+...+.-+|.++
T Consensus 118 ~~v~V~akVle~~e~e~~~~g~~~~v~sg~lgDeTGrIr~TlW~~-----------~-l~eGd~v~i~na~v~e~~G~~e 185 (358)
T PRK06386 118 PYVSVIGKITGITKKEYDSDGTSKIVYQGYIEDDTARVRISSFGK-----------P-LEDNRFVRIENARVSQYNGYIE 185 (358)
T ss_pred CceEEEEEEEEccCceEecCCCccEEEEEEEEcCCCeEEEEEccc-----------c-ccCCCEEEEeeeEEEccCCeEE
Confidence 4578888887541 1 13466677788888888776543 2 5889999999998888899999
Q ss_pred EEEeEEEEcccc
Q 008040 184 VLVNSFVILTKS 195 (580)
Q Consensus 184 l~~~~i~vls~a 195 (580)
|.+.+...+.+.
T Consensus 186 l~v~~~t~I~~~ 197 (358)
T PRK06386 186 ISVGNKSVIKEV 197 (358)
T ss_pred EEeCCeEEEEEC
Confidence 999998877654
No 210
>cd04461 S1_Rrp5_repeat_hs8_sc7 S1_Rrp5_repeat_hs8_sc7: Rrp5 Homo sapiens S1 repeat 8 (hs8) and Saccharomyces cerevisiae S1 repeat 7 (sc7)-like domains. Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in S. cerevisiae Rrp5 and 14 S1 repeats in H. sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 8 and S. cerevisiae S1 repeat 7. Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=68.77 E-value=27 Score=28.76 Aligned_cols=52 Identities=13% Similarity=0.167 Sum_probs=37.1
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|.|.++...| +|++|-++ ++.++....++.+.+......++.||.|.|.
T Consensus 17 i~~g~V~~v~~~G--~fv~l~~~---~~g~v~~~el~~~~~~~~~~~~~~Gd~v~vk 68 (83)
T cd04461 17 VVHGYVRNITPYG--VFVEFLGG---LTGLAPKSYISDEFVTDPSFGFKKGQSVTAK 68 (83)
T ss_pred EEEEEEEEEeece--EEEEcCCC---CEEEEEHHHCCcccccCHHHhcCCCCEEEEE
Confidence 4679999999988 89998542 6777776655433333344557999999886
No 211
>cd05708 S1_Rrp5_repeat_sc12 S1_Rrp5_repeat_sc12: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes S. cerevisiae S1 repeat 12 (sc12). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=68.28 E-value=30 Score=27.63 Aligned_cols=53 Identities=15% Similarity=0.412 Sum_probs=33.2
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|+|..+...| +|++|.+. .+..++....+..+........+++||.|.|.
T Consensus 5 ~v~g~V~~i~~~g--~~v~l~~~--~~~g~i~~~~l~~~~~~~~~~~~~~Gd~v~v~ 57 (77)
T cd05708 5 KIDGTVRRVEDYG--VFIDIDGT--NVSGLCHKSEISDNRVADASKLFRVGDKVRAK 57 (77)
T ss_pred EEEEEEEEEEcce--EEEEECCC--CeEEEEEHHHCCCCccCCHhHeecCCCEEEEE
Confidence 4799999999877 78888651 23444444333222222223446999999886
No 212
>PRK08763 single-stranded DNA-binding protein; Provisional
Probab=67.35 E-value=85 Score=30.06 Aligned_cols=79 Identities=13% Similarity=0.194 Sum_probs=49.7
Q ss_pred CEEEEEEEEEe---EecC--C-CeEEEEEe-e-----CCe-------eEEEEEecCccChHHHHhhhcccCCCcEEEEEe
Q 008040 112 DHVSVAGRVVA---RRAF--G-KLAFLTLR-D-----DSG-------TIQLYCEKERLLSDQFDQLKVFVDIGDILGVSG 172 (580)
Q Consensus 112 ~~V~v~GrV~~---~R~~--g-k~~F~~Lr-D-----~sg-------~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G 172 (580)
..|.|.|||.+ +|.. | .++-+.|- + ..| -+.|++-.+. -+.+.+.|..||.|.|+|
T Consensus 6 Nkv~LiGrLg~DPelr~t~~G~~va~fsVA~~~~~k~~~G~~~e~t~w~~Vv~fgk~-----Ae~v~~~L~KGs~V~VeG 80 (164)
T PRK08763 6 NKVILVGNLGNDPDIKYTQSGMTITRISLATTSVRKDREGNTQERTEWHRVKFFGKL-----GEIAGEYLRKGSQCYIEG 80 (164)
T ss_pred eEEEEEEEecCCCeEEEcCCCCeEEEEEEEeccceecCCCCeeccceEEEEEEehHH-----HHHHHHhcCCCCEEEEEE
Confidence 46889999987 4532 4 24434442 1 111 2555554331 122344579999999999
Q ss_pred EEEec----CCc----eeEEEEeEEEEcccc
Q 008040 173 SMKRT----EKG----ELSVLVNSFVILTKS 195 (580)
Q Consensus 173 ~v~~t----~~g----e~el~~~~i~vls~a 195 (580)
.+... +.| .++|.|++|.+|...
T Consensus 81 rL~~~~y~dkdG~kr~~~eIva~~i~~L~~~ 111 (164)
T PRK08763 81 SIRYDKFTGQDGQERYVTEIVADEMQMLGGR 111 (164)
T ss_pred EEEeceeECCCCCEEEEEEEEEeEEEECCCC
Confidence 99853 234 489999999999754
No 213
>cd05685 S1_Tex S1_Tex: The C-terminal S1 domain of a transcription accessory factor called Tex, which has been characterized in Bordetella pertussis and Pseudomonas aeruginosa. The tex gene is essential in Bortella pertusis and is named for its role in toxin expression. Tex has two functional domains, an N-terminal domain homologous to the Escherichia coli maltose repression protein, which is a poorly defined transcriptional factor, and a C-terminal S1 RNA-binding domain. Tex is found in prokaryotes, eukaryotes, and archaea.
Probab=65.98 E-value=25 Score=27.04 Aligned_cols=52 Identities=21% Similarity=0.307 Sum_probs=34.7
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|+|..+...| .|++|.++ +..++....+..+.+......+.+||.|.|.
T Consensus 3 ~~~g~V~~i~~~G--~fv~l~~~---~~g~~~~~~l~~~~~~~~~~~~~~Gd~v~v~ 54 (68)
T cd05685 3 VLEGVVTNVTDFG--AFVDIGVK---QDGLIHISKMADRFVSHPSDVVSVGDIVEVK 54 (68)
T ss_pred EEEEEEEEEeccc--EEEEcCCC---CEEEEEHHHCCCccccCHHHhcCCCCEEEEE
Confidence 4789999998887 78999653 5566655444332232233346889999886
No 214
>PRK13254 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=65.14 E-value=66 Score=30.28 Aligned_cols=70 Identities=19% Similarity=0.283 Sum_probs=48.6
Q ss_pred CCEEEEEEEEE--eEec-CC-CeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEE
Q 008040 111 NDHVSVAGRVV--ARRA-FG-KLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLV 186 (580)
Q Consensus 111 ~~~V~v~GrV~--~~R~-~g-k~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~ 186 (580)
++.|+|.|.|. ++.. .+ .+.| .|.|++..|.|..... + +++ .+-|.-|.|+|.+... | .+.|
T Consensus 51 g~~vrvgG~V~~gSi~~~~~~~~~F-~ltD~~~~i~V~Y~G~-l-Pd~-------F~eg~~VVv~G~~~~~--g--~F~A 116 (148)
T PRK13254 51 GRRFRLGGLVEKGSVQRGDGLTVRF-VVTDGNATVPVVYTGI-L-PDL-------FREGQGVVAEGRLQDG--G--VFVA 116 (148)
T ss_pred CCeEEEeEEEecCcEEeCCCCEEEE-EEEeCCeEEEEEECCC-C-Ccc-------ccCCCEEEEEEEECCC--C--eEEE
Confidence 58899999996 3543 44 4666 6799988999888754 2 333 3569999999998532 3 3445
Q ss_pred eEEEEccccC
Q 008040 187 NSFVILTKSL 196 (580)
Q Consensus 187 ~~i~vls~a~ 196 (580)
+ +||.||.
T Consensus 117 ~--~vLaKc~ 124 (148)
T PRK13254 117 D--EVLAKHD 124 (148)
T ss_pred E--EEEecCC
Confidence 5 4677774
No 215
>PLN02265 probable phenylalanyl-tRNA synthetase beta chain
Probab=64.68 E-value=22 Score=40.94 Aligned_cols=113 Identities=16% Similarity=0.161 Sum_probs=62.2
Q ss_pred HHHHHHHHHHHHHhCCCeeecCceeeccCC-----C-CCC-CceeeccCCCCeeE-EEEecHHHHHHHHHhccC-----C
Q 008040 233 RAKIVSEIRKTVESLGFVEVETPVLQGAAG-----G-AEA-RPFVTYHNSLGRDL-YLRIATELHLKRMLIGGF-----E 299 (580)
Q Consensus 233 Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~~-----G-a~a-~pF~t~~~~~~~~~-yL~~Spql~lk~llv~g~-----~ 299 (580)
..++.+.+|+.|...||.||-|-.|++... + ... .....-.|-...++ +||.|-=--|=..+.... -
T Consensus 399 ~~~~~~~iR~~l~~~Gf~Ev~t~sl~s~~~~~~~~~~~~~~~~~v~I~NP~s~e~~vlRtSLlPgLL~~l~~N~~~~~p~ 478 (597)
T PLN02265 399 LNQFSDLLRAEVAMAGFTEVLTWILCSHKENFAMLNREDDGNSAVIIGNPRSADFEVVRTSLLPGLLKTLGHNKDAPKPI 478 (597)
T ss_pred HHHHHHHHHHHHHHCCceeeeceeeCChHHHHHhhcCCccCCceEEECCCcchhHHHHHHhhHHHHHHHHHHhhcCCCCe
Confidence 456667789999999999999999986411 0 000 01121123333332 366553222111222222 2
Q ss_pred ceeEEecccccCCCCCCCCccceeeeeEeec--CCHHHHHHHHHHHHH
Q 008040 300 KIYEIGRIFRNEGLSTRHNPEFTTIEMYEAY--SDYQSMMNITEEIVT 345 (580)
Q Consensus 300 rVfeIg~~FR~E~~~~rH~pEFtmlE~e~a~--~d~~d~m~l~E~li~ 345 (580)
|+||||++|-..........|-+.|=+-.+. +|+.++-.+++.++.
T Consensus 479 klFEiG~V~~~~~~~~~~~~e~~~la~~~~g~~~~f~~ikg~le~ll~ 526 (597)
T PLN02265 479 KLFEVSDVVLLDESKDVGARNSRRLAALYCGTTSGFEVIHGLVDRIME 526 (597)
T ss_pred eEEEeEeEEecCCcccCCcchhhEEEEEEECCCCCHhhHHHHHHHHHH
Confidence 7999999995432111111244455444443 378888888887774
No 216
>PF15490 Ten1_2: Telomere-capping, CST complex subunit
Probab=63.90 E-value=1.1e+02 Score=27.68 Aligned_cols=76 Identities=18% Similarity=0.277 Sum_probs=54.4
Q ss_pred CCCEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEec-CCceeEEEEeE
Q 008040 110 ENDHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRT-EKGELSVLVNS 188 (580)
Q Consensus 110 ~~~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t-~~ge~el~~~~ 188 (580)
+|..|++.|++.+.=..-.++=+.=.-.++.-|+.++-+.+++ | . ...|+...|-|.+... +.|+..|.|.=
T Consensus 20 ~g~svR~~GrL~~yD~~~~~a~l~~~~~~~~~~l~V~t~~l~~--~----~-~~~gslyq~iGEl~~~~~~~~~~L~ARV 92 (118)
T PF15490_consen 20 EGKSVRTFGRLQSYDVATSRATLTAQHESDQHSLKVDTKLLEP--F----Q-ARVGSLYQFIGELEHQPQDGGIVLKARV 92 (118)
T ss_pred CCCeEEEEEEEEEEeccCCEEEEEeeccCCCcEEEEEeeEccc--c----c-cCCCCEEEEEEEEEEEcCCCcEEEEEEE
Confidence 4689999999999977766655544445555566666554432 2 2 2789999999999887 67778777776
Q ss_pred EEEc
Q 008040 189 FVIL 192 (580)
Q Consensus 189 i~vl 192 (580)
++.+
T Consensus 93 ~r~V 96 (118)
T PF15490_consen 93 LRCV 96 (118)
T ss_pred EEec
Confidence 6665
No 217
>PRK13165 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=63.38 E-value=36 Score=32.45 Aligned_cols=71 Identities=21% Similarity=0.295 Sum_probs=50.2
Q ss_pred CCCEEEEEEEEE--eEecCCC---eEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEE
Q 008040 110 ENDHVSVAGRVV--ARRAFGK---LAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSV 184 (580)
Q Consensus 110 ~~~~V~v~GrV~--~~R~~gk---~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el 184 (580)
.++.++|-|.|. ++...+. +.| +|.|+...|.|....- + ++. ..-|.-|.|+|.+... | .+
T Consensus 56 ~g~~iRvgG~V~~GSi~r~~~~l~v~F-~vtD~~~~v~V~Y~Gi-l-PDl-------FrEG~gVVveG~~~~~--g--~F 121 (160)
T PRK13165 56 VGQRLRVGGMVMPGSVQRDPNSLKVSF-TLYDAGGSVTVTYEGI-L-PDL-------FREGQGIVAQGVLEEG--N--HI 121 (160)
T ss_pred CCCEEEEeeEEeCCcEEECCCCeEEEE-EEEcCCeEEEEEEccc-C-Ccc-------ccCCCeEEEEEEECCC--C--eE
Confidence 368999999999 7765543 455 7889999999988643 2 333 4669999999998632 2 23
Q ss_pred EEeEEEEccccC
Q 008040 185 LVNSFVILTKSL 196 (580)
Q Consensus 185 ~~~~i~vls~a~ 196 (580)
.++ +||.||.
T Consensus 122 ~A~--~vLAKhd 131 (160)
T PRK13165 122 EAK--EVLAKHD 131 (160)
T ss_pred EEE--EEEecCC
Confidence 444 5677774
No 218
>PRK02801 primosomal replication protein N; Provisional
Probab=63.13 E-value=38 Score=29.55 Aligned_cols=48 Identities=13% Similarity=0.339 Sum_probs=33.7
Q ss_pred EEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEe--cCCc--eeEEEEeEEEEcc
Q 008040 141 IQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKR--TEKG--ELSVLVNSFVILT 193 (580)
Q Consensus 141 iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~--t~~g--e~el~~~~i~vls 193 (580)
|+|++-.+. -+.+.+.+..|+-|.|+|.+.. ++.| .+.|+++.++.++
T Consensus 50 i~~va~G~~-----Ae~~~~~l~kGs~v~V~G~L~~~~~~~g~~~~~v~~~~i~~l~ 101 (101)
T PRK02801 50 MPVIVSGNQ-----FQAITQSITVGSKITVQGFISCHQGRNGLSKLVLHAEQIELID 101 (101)
T ss_pred EEEEEEcHH-----HHHHHhhcCCCCEEEEEEEEEEeECCCCCEEEEEEEEEEEECC
Confidence 777776542 2234444699999999999985 4445 3668889888763
No 219
>cd05697 S1_Rrp5_repeat_hs5 S1_Rrp5_repeat_hs5: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 5 (hs5) and S. cerevisiae S1 repeat 5 (sc5). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=62.54 E-value=43 Score=26.42 Aligned_cols=52 Identities=19% Similarity=0.193 Sum_probs=34.2
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|.|..+...| +|+.|-++ +-.++....++...+....+.+..||.|.+.
T Consensus 3 ~v~g~V~~v~~~G--v~V~l~~~---v~g~i~~~~l~~~~~~~~~~~~~~Gd~i~~~ 54 (69)
T cd05697 3 VVKGTIRKLRPSG--IFVKLSDH---IKGLVPPMHLADVRLKHPEKKFKPGLKVKCR 54 (69)
T ss_pred EEEEEEEEEeccE--EEEEecCC---cEEEEEHHHCCCccccCHHHcCCCCCEEEEE
Confidence 4789999999887 89998643 5666654443322222233346889998885
No 220
>PRK08059 general stress protein 13; Validated
Probab=61.99 E-value=40 Score=30.37 Aligned_cols=70 Identities=23% Similarity=0.399 Sum_probs=42.2
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSF 189 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i 189 (580)
.+.|.|..+...| +|++|.++ ++.++....++.+.+......+.+||.|.|.=.=....+|.+.+.....
T Consensus 10 iv~G~V~~i~~~G--~fV~i~~~---~~Gli~~sel~~~~~~~~~~~~~vGD~I~vkI~~id~~~~~i~lslk~~ 79 (123)
T PRK08059 10 VVTGKVTGIQPYG--AFVALDEE---TQGLVHISEITHGFVKDIHDFLSVGDEVKVKVLSVDEEKGKISLSIRAT 79 (123)
T ss_pred EEEEEEEEEecce--EEEEECCC---CEEEEEHHHCCcccccCHHHcCCCCCEEEEEEEEEECCCCeEEEEEEEc
Confidence 5799999999988 79998654 4555544433322222223446999999986211123356666655443
No 221
>PF03590 AsnA: Aspartate-ammonia ligase; InterPro: IPR004618 Aspartate--ammonia ligase (asparagine synthetase) 6.3.1.1 from EC catalyses the conversion of L-aspartate to L-asparagine in the presence of ATP and ammonia. This family represents one of two non-homologous forms of aspartate--ammonia ligase found in Escherichia coli. This type is also found in Haemophilus influenzae, Treponema pallidum and Lactobacillus delbrueckii, but appears to have a very limited distribution. The fact that the protein from the H. influenzae is more than 70% identical to that from the spirochete T. pallidum, but less than 65% identical to that from the closely related E. coli, strongly suggests lateral transfer.; GO: 0004071 aspartate-ammonia ligase activity, 0006529 asparagine biosynthetic process, 0005737 cytoplasm; PDB: 11AS_B 12AS_A.
Probab=60.53 E-value=1.6e+02 Score=29.95 Aligned_cols=119 Identities=18% Similarity=0.224 Sum_probs=60.5
Q ss_pred HHHHHHHHHHHH-----hCCCeeecCceeeccCCCC-----C-CCceeeccCCC-CeeEEEEecHHHHHHHHHh-ccC--
Q 008040 234 AKIVSEIRKTVE-----SLGFVEVETPVLQGAAGGA-----E-ARPFVTYHNSL-GRDLYLRIATELHLKRMLI-GGF-- 298 (580)
Q Consensus 234 s~i~~~iR~fl~-----~~gF~EVeTPiL~~~~~Ga-----~-a~pF~t~~~~~-~~~~yL~~Spql~lk~llv-~g~-- 298 (580)
.+.|..|.++|. +.+.+.|..|++.....|- | .+|........ +..+---+|--=++.+++. -||
T Consensus 7 q~aI~~iK~~F~~~L~~~LnL~rVsAPLfv~~~sGlNDnLnG~ErpVsF~~k~~~~~~~EIVhSLAKWKR~aL~~y~f~~ 86 (244)
T PF03590_consen 7 QKAIKFIKDTFERELSKALNLTRVSAPLFVEKGSGLNDNLNGVERPVSFDIKDIPDETAEIVHSLAKWKRMALKRYGFPP 86 (244)
T ss_dssp HHHHHHHHHHHHHHHHHHC-EEE----SEEETTSS-S--TTST----EE--TTSTT--EEE-S--TTHHHHHHHHTT--T
T ss_pred HHHHHHHHHHHHHHHHHHhCceEecCCeEEecCCCCcCCCCCeEeeEEEEccCCCCceeeeehhHHHHHHHHHHHcCCCC
Confidence 556777777774 5799999999999653221 1 24544333333 5566677777767665542 144
Q ss_pred -CceeEEecccc-cCC-CCCCCCccceeeeeEeecCCHHHHHHHHHHHHHHHHHHHh
Q 008040 299 -EKIYEIGRIFR-NEG-LSTRHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCALAVN 352 (580)
Q Consensus 299 -~rVfeIg~~FR-~E~-~~~rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~~~v~ 352 (580)
+.+|.=..+.| .|+ .|..|.-=.-|-|||+....-+--++...+.++.+...+.
T Consensus 87 geGlyTdMnAiR~~de~ld~~HSiYVDQWDWEkvI~~~~Rnl~~Lk~tV~~Iy~aik 143 (244)
T PF03590_consen 87 GEGLYTDMNAIRPDDEELDNIHSIYVDQWDWEKVISKEDRNLEFLKETVRKIYKAIK 143 (244)
T ss_dssp T-EEEEEEEEE-TT-SS--SS--SEEEEEEEEEE--TT--SHHHHHHHHHHHHHHHH
T ss_pred CceEeecCceeecchhccCcceEEEecccCHhhhcCcccccHHHHHHHHHHHHHHHH
Confidence 68999999999 775 7999999999999999976444445555555555555443
No 222
>cd05684 S1_DHX8_helicase S1_DHX8_helicase: The N-terminal S1 domain of human ATP-dependent RNA helicase DHX8, a DEAH (Asp-Glu-Ala-His) box polypeptide. The DEAH-box RNA helicases are thought to play key roles in pre-mRNA splicing and DHX8 facilitates nuclear export of spliced mRNA by releasing the RNA from the spliceosome. DHX8 is also known as HRH1 (human RNA helicase 1) in Homo sapiens and PRP22 in Saccharomyces cerevisiae.
Probab=59.75 E-value=54 Score=26.63 Aligned_cols=70 Identities=19% Similarity=0.249 Sum_probs=40.2
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHH-HhhhcccCCCcEEEEEeEEEecCCceeEEEEeE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQF-DQLKVFVDIGDILGVSGSMKRTEKGELSVLVNS 188 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~-~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~ 188 (580)
.+.|.|..+...| +|++|-+....+...+....+..+.+ +...+.+..||.|.|. +....++.+.+....
T Consensus 3 ~~~g~V~~v~~~G--~fv~l~~~~~~~~gll~~s~l~~~~~~~~~~~~~~~Gd~v~v~--v~~vd~~~i~~s~k~ 73 (79)
T cd05684 3 IYKGKVTSIMDFG--CFVQLEGLKGRKEGLVHISQLSFEGRVANPSDVVKRGQKVKVK--VISIQNGKISLSMKD 73 (79)
T ss_pred EEEEEEEEEEeee--EEEEEeCCCCCcEEEEEhHhccCCCCcCChhheeCCCCEEEEE--EEEEeCCEEEEEEEe
Confidence 4689999999888 89999643112444554443332222 2333446889999886 222115555554433
No 223
>cd05692 S1_RPS1_repeat_hs4 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 4 (hs4) of the H. sapiens RPS1 homolog. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=59.67 E-value=42 Score=25.80 Aligned_cols=52 Identities=25% Similarity=0.387 Sum_probs=32.5
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|.|..+...| +|++|-++ ++.++....+..+......+.+++||.|.|.
T Consensus 3 ~~~g~V~~i~~~g--~~v~i~~~---~~g~l~~~~l~~~~~~~~~~~~~~Gd~v~v~ 54 (69)
T cd05692 3 VVEGTVTRLKPFG--AFVELGGG---ISGLVHISQIAHKRVKDVKDVLKEGDKVKVK 54 (69)
T ss_pred EEEEEEEEEEeee--EEEEECCC---CEEEEEhHHcCCcccCCHHHccCCCCEEEEE
Confidence 4689999999877 78888543 4555554433221111122346899999876
No 224
>PRK13732 single-stranded DNA-binding protein; Provisional
Probab=58.64 E-value=1.3e+02 Score=29.20 Aligned_cols=80 Identities=18% Similarity=0.307 Sum_probs=49.5
Q ss_pred CEEEEEEEEEe---EecC--CC-eEEEEE-eeC------Ce-------eEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 112 DHVSVAGRVVA---RRAF--GK-LAFLTL-RDD------SG-------TIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 112 ~~V~v~GrV~~---~R~~--gk-~~F~~L-rD~------sg-------~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
..|.|.|||.+ +|.. |+ ++-+.| .+. +| -+-|++-.+. -+.+.+.|..||.|.|+
T Consensus 7 N~V~LiGrLg~DPElR~t~nG~~va~fslAvn~~~kd~~~Ge~~e~t~w~~Vv~wgk~-----Ae~v~~~L~KG~~V~Ve 81 (175)
T PRK13732 7 NKVILVGRLGKDPEVRYIPNGGAVANLQVATSESWRDKQTGEMREQTEWHRVVLFGKL-----AEVAGEYLRKGAQVYIE 81 (175)
T ss_pred eEEEEEEEecCCCEEEEcCCCCEEEEEEEEEcCccccCCCCceecceeEEEEEEecHH-----HHHHHHhcCCCCEEEEE
Confidence 47899999987 4543 42 444444 221 12 2345544331 12234457999999999
Q ss_pred eEEEec---CCc----eeEEEEe---EEEEccccC
Q 008040 172 GSMKRT---EKG----ELSVLVN---SFVILTKSL 196 (580)
Q Consensus 172 G~v~~t---~~g----e~el~~~---~i~vls~a~ 196 (580)
|.+... ..| .+||.|+ ++.+|++..
T Consensus 82 GrL~~r~ye~dG~kr~~~eIiv~~~g~~~fL~~~~ 116 (175)
T PRK13732 82 GQLRTRSWEDNGITRYVTEILVKTTGTMQMLGRAP 116 (175)
T ss_pred EEEEeeeEccCCeEEEEEEEEEeecCeEEEecCCC
Confidence 999843 234 4788888 899997653
No 225
>PRK13150 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=57.85 E-value=1.1e+02 Score=29.30 Aligned_cols=71 Identities=24% Similarity=0.333 Sum_probs=50.5
Q ss_pred CCCEEEEEEEEE--eEecCC-C--eEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEE
Q 008040 110 ENDHVSVAGRVV--ARRAFG-K--LAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSV 184 (580)
Q Consensus 110 ~~~~V~v~GrV~--~~R~~g-k--~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el 184 (580)
.++.++|-|.|. ++...+ . +.| +|.|+...|.|....-. ++. ..-|.-|.++|.+... | .+
T Consensus 56 ~g~~iRvgG~V~~GSv~r~~~~~~v~F-~vtD~~~~v~V~Y~Gil--PDl-------FrEG~gVVveG~~~~~--g--~F 121 (159)
T PRK13150 56 VGQRLRVGGMVMPGSVRRDPDSLKVNF-SLYDAEGSVTVSYEGIL--PDL-------FREGQGVVVQGTLEKG--N--HV 121 (159)
T ss_pred CCCEEEEeeEEeCCcEEECCCCcEEEE-EEEcCCcEEEEEEeccC--Ccc-------ccCCCeEEEEEEECCC--C--EE
Confidence 368999999999 776654 3 455 78999999999886542 333 4679999999998543 2 23
Q ss_pred EEeEEEEccccC
Q 008040 185 LVNSFVILTKSL 196 (580)
Q Consensus 185 ~~~~i~vls~a~ 196 (580)
.++ +||.||.
T Consensus 122 ~A~--evLAKhd 131 (159)
T PRK13150 122 LAH--EVLAKHD 131 (159)
T ss_pred EEe--EEEeCCC
Confidence 444 5777774
No 226
>PRK03987 translation initiation factor IF-2 subunit alpha; Validated
Probab=57.60 E-value=37 Score=34.94 Aligned_cols=71 Identities=21% Similarity=0.295 Sum_probs=44.9
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNS 188 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~ 188 (580)
.+.|.|..+.++| +|+.|.+..| ++.++....+....+..+.+.++.||.|.|.=.-....+|.+.|....
T Consensus 11 iV~G~V~~I~~~G--~fV~L~e~~g-ieGlI~iSEls~~~i~~i~~~~kvGd~V~vkVi~VD~~k~~I~LSlK~ 81 (262)
T PRK03987 11 LVVGTVKEVKDFG--AFVTLDEYPG-KEGFIHISEVASGWVKNIRDHVKEGQKVVCKVIRVDPRKGHIDLSLKR 81 (262)
T ss_pred EEEEEEEEEECCE--EEEEECCCCC-cEEEEEHHHcCcccccCHHHhCCCCCEEEEEEEEEecccCeEEEEEEe
Confidence 5789999999888 8999976433 677776554443333444556799999988622122234555544433
No 227
>cd05687 S1_RPS1_repeat_ec1_hs1 S1_RPS1_repeat_ec1_hs1: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 1 of the Escherichia coli and Homo sapiens RPS1 (ec1 and hs1, respectively). Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=57.24 E-value=52 Score=25.89 Aligned_cols=52 Identities=17% Similarity=0.128 Sum_probs=32.9
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.|.|.|.++...| +|++|-. ....++....+.....+.....+..||.|.+.
T Consensus 3 iv~g~V~~i~~~~--~~v~l~~---~~~g~l~~~e~~~~~~~~~~~~~~~Gd~i~~~ 54 (70)
T cd05687 3 IVKGTVVSVDDDE--VLVDIGY---KSEGIIPISEFSDDPIENGEDEVKVGDEVEVY 54 (70)
T ss_pred EEEEEEEEEeCCE--EEEEeCC---CceEEEEHHHhCccccCCHhHcCCCCCEEEEE
Confidence 4789999998765 8888833 24666665543221111223346899999886
No 228
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=56.93 E-value=6 Score=43.60 Aligned_cols=21 Identities=33% Similarity=0.824 Sum_probs=17.8
Q ss_pred CCccceeccHHHHHHHHcCCC
Q 008040 545 PPASGMGLGIDRLVMLLTNSA 565 (580)
Q Consensus 545 PP~gG~GiGiDRLvMlltg~~ 565 (580)
-|.-|||||+|||+++|-...
T Consensus 307 ~pavGFaiGveRl~~~l~~~~ 327 (429)
T COG0124 307 TPAVGFAIGVERLILALEEEG 327 (429)
T ss_pred CCceeEehHHHHHHHHHHHcC
Confidence 478899999999999887653
No 229
>cd04486 YhcR_OBF_like YhcR_OBF_like: A subfamily of OB-fold domains similar to the OB folds of Bacillus subtilis YhcR. YhcR is a sugar-nonspecific nuclease, which is active in the presence of Ca2+ and Mn2+. It cleaves RNA endonucleolytically, producing 3'-monophosphate nucleosides. YhcR appears to be the major Ca2+ activated nuclease of B. subtilis. YhcR may be localized in the cell wall.
Probab=56.65 E-value=86 Score=25.98 Aligned_cols=66 Identities=26% Similarity=0.349 Sum_probs=37.6
Q ss_pred EEEEEEEeEecCC-CeEEEEEeeCC--------eeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEE
Q 008040 115 SVAGRVVARRAFG-KLAFLTLRDDS--------GTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVL 185 (580)
Q Consensus 115 ~v~GrV~~~R~~g-k~~F~~LrD~s--------g~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~ 185 (580)
+|.|-|......+ .-.|. |+|.. .-|=|+..+ . ..+.+||.|.|+|++..- .|..+|.
T Consensus 1 ~v~GvVTa~~~~~~~~Gff-iQd~~~d~~~~ts~gifV~~~~-~----------~~~~~Gd~V~vtG~v~ey-~g~tql~ 67 (78)
T cd04486 1 TVEGVVTAVFSGGGLGGFY-IQDEDGDGDPATSEGIFVYTGS-G----------ADVAVGDLVRVTGTVTEY-YGLTQLT 67 (78)
T ss_pred CeEEEEEEEcCCCCcCEEE-EEcCCCCCCCcccceEEEecCC-C----------CCCCCCCEEEEEEEEEee-CCeEEEc
Confidence 3678888887653 23455 66652 122222221 1 226999999999998753 2344555
Q ss_pred EeE-EEEcc
Q 008040 186 VNS-FVILT 193 (580)
Q Consensus 186 ~~~-i~vls 193 (580)
..+ +++++
T Consensus 68 ~~~~~~~~~ 76 (78)
T cd04486 68 AVSAIEVLG 76 (78)
T ss_pred cCCceEEec
Confidence 433 55443
No 230
>TIGR00594 polc DNA-directed DNA polymerase III (polc). This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=56.56 E-value=19 Score=44.08 Aligned_cols=35 Identities=29% Similarity=0.564 Sum_probs=29.6
Q ss_pred CCEEEEEEEEEeEecC-----C-CeEEEEEeeCCeeEEEEE
Q 008040 111 NDHVSVAGRVVARRAF-----G-KLAFLTLRDDSGTIQLYC 145 (580)
Q Consensus 111 ~~~V~v~GrV~~~R~~-----g-k~~F~~LrD~sg~iQvv~ 145 (580)
|..|+++|.|.++|.. | .++|++|.|.+|.+.+++
T Consensus 981 g~~v~v~G~i~~~~~~~~tkkG~~maf~tleD~tg~ie~vi 1021 (1022)
T TIGR00594 981 DSQVRTLGGLNSVKKKITTKNGKPMAFLQLEDETGSIEVVV 1021 (1022)
T ss_pred CCEEEEEEEEEEEEEecccCCCCEEEEEEEEECCCcEEEEe
Confidence 4679999999876653 4 399999999999999987
No 231
>cd05703 S1_Rrp5_repeat_hs12_sc9 S1_Rrp5_repeat_hs12_sc9: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 12 (hs12) and S. cerevisiae S1 repeat 9 (sc9). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=55.34 E-value=64 Score=26.11 Aligned_cols=52 Identities=21% Similarity=0.155 Sum_probs=35.4
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChH--HHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSD--QFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~--~~~~~~~~l~~gd~v~v~ 171 (580)
.|.|.|.++-+.| +|+.|.++ |...+....++.+ ..+...+.+..||.|.+.
T Consensus 3 ~V~g~V~~i~~~g--~~V~l~~~---i~G~i~~~~ls~~~~~~~~~~~~~~vG~~v~~k 56 (73)
T cd05703 3 EVTGFVNNVSKEF--VWLTISPD---VKGRIPLLDLSDDVSVLEHPEKKFPIGQALKAK 56 (73)
T ss_pred EEEEEEEEEeCCE--EEEEeCCC---cEEEEEHHHcCCccccccCHHHhCCCCCEEEEE
Confidence 4789999998777 89999654 7777765544321 122233446999998876
No 232
>PF03459 TOBE: TOBE domain; InterPro: IPR005116 The TOBE domain [] (Transport-associated OB) always occurs as a dimer as the C-terminal strand of each domain is supplied by the partner. It is probably involved in the recognition of small ligands such as molybdenum (P46930 from SWISSPROT) and sulphate (P16676 from SWISSPROT), and is found in ABC transporters immediately after the ATPase domain.; GO: 0005215 transporter activity, 0005524 ATP binding, 0016820 hydrolase activity, acting on acid anhydrides, catalyzing transmembrane movement of substances, 0006810 transport, 0043190 ATP-binding cassette (ABC) transporter complex; PDB: 1G29_2 1H9M_B 1H9J_A 1H9K_A 1H9R_B 1O7L_C 1H9S_A 1B9N_A 1B9M_A 1GUS_C ....
Probab=54.07 E-value=81 Score=24.37 Aligned_cols=50 Identities=22% Similarity=0.236 Sum_probs=39.2
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCee-EEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGT-IQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~-iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|.|..+...|..+++.+.-+.+. |-+.+..+ .+..+ . |..||-|.+.
T Consensus 6 ~l~g~V~~ie~~g~~~~v~~~~~~~~~l~a~it~~-----~~~~L-~-L~~G~~V~~~ 56 (64)
T PF03459_consen 6 QLPGTVESIENLGSEVEVTLDLGGGETLTARITPE-----SAEEL-G-LKPGDEVYAS 56 (64)
T ss_dssp EEEEEEEEEEESSSEEEEEEEETTSEEEEEEEEHH-----HHHHC-T--STT-EEEEE
T ss_pred EEEEEEEEEEECCCeEEEEEEECCCCEEEEEEcHH-----HHHHc-C-CCCCCEEEEE
Confidence 68999999999999999999999887 88888654 34443 3 5899998874
No 233
>cd04480 RPA1_DBD_A_like RPA1_DBD_A_like: A subgroup of uncharacterized plant OB folds with similarity to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of RPA is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change.
Probab=52.66 E-value=90 Score=25.93 Aligned_cols=50 Identities=18% Similarity=0.224 Sum_probs=34.9
Q ss_pred CCCeEEEEEeeCCe-eEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCc
Q 008040 126 FGKLAFLTLRDDSG-TIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKG 180 (580)
Q Consensus 126 ~gk~~F~~LrD~sg-~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~g 180 (580)
.|...=+.|.|..| .||+.+.++.. +.+...|..|.+..+++.-.....+
T Consensus 17 ~~~~~~miL~De~G~~I~a~i~~~~~-----~~f~~~L~eg~vy~is~f~v~~~~~ 67 (86)
T cd04480 17 SGESLEMVLVDEKGNRIHATIPKRLA-----AKFRPLLKEGKWYTISNFEVAPNTG 67 (86)
T ss_pred CCcEEEEEEEcCCCCEEEEEECHHHH-----HhhhhhceeCCEEEEeeEEEEcCCC
Confidence 45555567899999 99999987642 2334557899999998755544433
No 234
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=52.31 E-value=35 Score=30.23 Aligned_cols=36 Identities=19% Similarity=0.555 Sum_probs=28.7
Q ss_pred cccCCCcEEEEEeEEEec----CCc----eeEEEEeEEEEcccc
Q 008040 160 VFVDIGDILGVSGSMKRT----EKG----ELSVLVNSFVILTKS 195 (580)
Q Consensus 160 ~~l~~gd~v~v~G~v~~t----~~g----e~el~~~~i~vls~a 195 (580)
+.+..||.|.|+|.+... +.| .++|.|+++.+|++.
T Consensus 63 ~~l~KG~~V~V~G~l~~~~~~~~~G~~~~~~ei~a~~i~~l~~~ 106 (112)
T PRK06752 63 EYCTKGSLVGITGRIHTRNYEDDQGKRIYITEVVIESITFLERR 106 (112)
T ss_pred HhcCCCCEEEEEEEEEeCccCCCCCcEEEEEEEEEEEEEECCCC
Confidence 446999999999999854 234 488999999999754
No 235
>PTZ00248 eukaryotic translation initiation factor 2 subunit 1; Provisional
Probab=52.04 E-value=44 Score=35.43 Aligned_cols=71 Identities=18% Similarity=0.188 Sum_probs=46.4
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNS 188 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~ 188 (580)
.|.|.|.++-++| +|++|- +++.++.++..+.++..-...+.++++.|+-|.|.=.=.-..+|.+.|....
T Consensus 20 vV~g~V~~I~d~G--afV~L~-EY~gvEGlIhiSElS~~ri~~i~d~vkvGd~v~vkVl~VD~ekg~IdLS~K~ 90 (319)
T PTZ00248 20 LVMVKVVRITEMG--AYVSLL-EYDDIEGMILMSELSKRRIRSINKLIRVGRHEVVVVLRVDKEKGYIDLSKKR 90 (319)
T ss_pred EEEEEEEEEeCCe--EEEEec-CCCCcEEEEEHHHhcccccCCHHHhcCCCCEEEEEEEEEeCCCCEEEEEeee
Confidence 5889999999999 899994 3445777777665443233445666899999988622122334655554443
No 236
>PRK00036 primosomal replication protein N; Reviewed
Probab=51.76 E-value=41 Score=29.90 Aligned_cols=50 Identities=16% Similarity=0.131 Sum_probs=37.1
Q ss_pred eEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCc--eeEEEEeEEEEcccc
Q 008040 140 TIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKG--ELSVLVNSFVILTKS 195 (580)
Q Consensus 140 ~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~g--e~el~~~~i~vls~a 195 (580)
.||+++..+ .-+.+.. +..|+.|.|+|.+.++..| .+-++++.|+.+.+.
T Consensus 48 ~i~ava~G~-----~a~~~~~-l~~Gs~v~v~GFLa~~~~~~~~LVLHi~~Ie~i~~~ 99 (107)
T PRK00036 48 TISAVALGD-----LALLLAD-TPLGTEMQVQGFLAPARKDSVKVKLHLQQARRIAGS 99 (107)
T ss_pred EEEEEEEhh-----HHHHhcc-cCCCCEEEEEEEEEECCCCCCcEEEEhHHeEEcccc
Confidence 567776642 3334445 6999999999999975544 688999999988654
No 237
>PRK06642 single-stranded DNA-binding protein; Provisional
Probab=51.00 E-value=2.2e+02 Score=26.81 Aligned_cols=80 Identities=23% Similarity=0.358 Sum_probs=48.3
Q ss_pred CEEEEEEEEEe---EecC--CC-eEEEEEe-eC-------------CeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 112 DHVSVAGRVVA---RRAF--GK-LAFLTLR-DD-------------SGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 112 ~~V~v~GrV~~---~R~~--gk-~~F~~Lr-D~-------------sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
..|.|.|||.+ +|.. |+ ++-+.|- +. +.-+.|++-.+. .-+.+.+.|..||.|.|+
T Consensus 6 N~V~LiGrLg~DPElr~t~~G~~v~~fslAv~~~~k~~~~G~~~~~T~w~~v~~~g~~----~Ae~~~~~l~KG~~V~V~ 81 (152)
T PRK06642 6 NKVILIGNVGRDPEIRTTGEGKKIINLSLATTETWKDRITSERKERTEWHRVVIFSEG----LVSVVERYVTKGSKLYIE 81 (152)
T ss_pred eEEEEEEEccCCceEEECCCCCEEEEEEEEeccccccccCCccccceeEEEEEEeChH----HHHHHHHhCCCCCEEEEE
Confidence 46899999987 6643 43 4444442 21 113555554421 112233457999999999
Q ss_pred eEEEec----CCc----eeEEEEeEE----EEcccc
Q 008040 172 GSMKRT----EKG----ELSVLVNSF----VILTKS 195 (580)
Q Consensus 172 G~v~~t----~~g----e~el~~~~i----~vls~a 195 (580)
|.+... +.| ..+|.|+++ .+|+..
T Consensus 82 GrL~~~~y~dkdG~~r~~~eVvv~~~~~~i~fl~~k 117 (152)
T PRK06642 82 GSLQTRKWNDNSGQEKYTTEVVLQNFNSQLILLDSK 117 (152)
T ss_pred EEEEeCeeECCCCCEEEEEEEEEEecccceEeccCC
Confidence 999853 334 378888876 677643
No 238
>PRK06253 O-phosphoseryl-tRNA synthetase; Reviewed
Probab=49.21 E-value=18 Score=40.63 Aligned_cols=48 Identities=17% Similarity=0.245 Sum_probs=34.9
Q ss_pred ceeEEecccccCCC-CCCCCccceeeeeEee--cCCHHHHHHHHHHHHHHH
Q 008040 300 KIYEIGRIFRNEGL-STRHNPEFTTIEMYEA--YSDYQSMMNITEEIVTHC 347 (580)
Q Consensus 300 rVfeIg~~FR~E~~-~~rH~pEFtmlE~e~a--~~d~~d~m~l~E~li~~~ 347 (580)
|+||||+|||.+.. +.+|+..+.+...... -.|+.|+..++|.|+..+
T Consensus 210 RLFEIGRVFr~d~~eE~t~La~llsGs~W~~~e~vDFfDlKGiLE~LL~~L 260 (529)
T PRK06253 210 KLFSIDRCFRREQREDASRLMTYHSASCVIADEDVTVDDGKAVAEGLLSQF 260 (529)
T ss_pred EEEEEeeEEecCCccchhheeEEEEccccccCCCCCHHHHHHHHHHHHHHc
Confidence 99999999988632 4567776666643221 247899999999999754
No 239
>cd04496 SSB_OBF SSB_OBF: A subfamily of OB folds similar to the OB fold of ssDNA-binding protein (SSB). SSBs bind with high affinity to ssDNA. They bind to and protect ssDNA intermediates during DNA metabolic pathways. All bacterial and eukaryotic SSBs studied to date oligomerize to bring together four OB folds in their active state. The majority (e.g. Escherichia coli SSB) have a single OB fold per monomer, which oligomerize to form a homotetramer. However, Deinococcus and Thermus SSB proteins have two OB folds per monomer, which oligomerize to form a homodimer. Mycobacterium tuberculosis SSB varies in quaternary structure from E. coli SSB. It forms a dimer of dimers having a unique dimer interface, which lends the protein greater stability. Included in this group are OB folds similar to Escherichia coli PriB. E.coli PriB is homodimeric with each monomer having a single OB fold. It does not appear to form higher order oligomers. PriB is an essential protein for the replication restart
Probab=48.48 E-value=65 Score=26.99 Aligned_cols=50 Identities=18% Similarity=0.324 Sum_probs=33.1
Q ss_pred CeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecC---C-c----eeEEEEeEEEEc
Q 008040 138 SGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTE---K-G----ELSVLVNSFVIL 192 (580)
Q Consensus 138 sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~---~-g----e~el~~~~i~vl 192 (580)
+..++|.+..+. -+.+.+.+..||.|.|+|.+.... . | .++|.+++|.++
T Consensus 43 ~~~~~v~~~g~~-----a~~~~~~~~kG~~V~v~G~l~~~~~~~~~g~~~~~~~i~~~~i~~~ 100 (100)
T cd04496 43 TDWIRVVAFGKL-----AENAAKYLKKGDLVYVEGRLRTRSWEDKDGQKRYGTEVVADRIEFL 100 (100)
T ss_pred cEEEEEEEEhHH-----HHHHHHHhCCCCEEEEEEEEEeceeECCCCCEEEEEEEEEEEEEEC
Confidence 336777776542 122334469999999999998542 2 3 478888888764
No 240
>cd05705 S1_Rrp5_repeat_hs14 S1_Rrp5_repeat_hs14: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 14 (hs14). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=48.11 E-value=1e+02 Score=25.11 Aligned_cols=52 Identities=15% Similarity=0.163 Sum_probs=33.1
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChH---HHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSD---QFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~---~~~~~~~~l~~gd~v~v~ 171 (580)
.|.|.|.++...| +|++|.. .+...+....+... ....+.+.++.||.|.+.
T Consensus 6 ~V~g~V~~i~~~G--~fV~l~~---~v~G~v~~~~ls~~~~~~~~~~~~~~~~G~~v~~k 60 (74)
T cd05705 6 LLRGYVSSVTKQG--VFFRLSS---SIVGRVLFQNVTKYFVSDPSLYNKYLPEGKLLTAK 60 (74)
T ss_pred EEEEEEEEEeCCc--EEEEeCC---CCEEEEEHHHccCccccChhhHhcccCCCCEEEEE
Confidence 5889999999888 8999954 34444443322211 112233457999998865
No 241
>TIGR01405 polC_Gram_pos DNA polymerase III, alpha chain, Gram-positive type. The N-terminal region of about 200 amino acids is rich in low-complexity sequence, poorly alignable, and not included n this model.
Probab=47.61 E-value=1.4e+02 Score=37.53 Aligned_cols=79 Identities=13% Similarity=0.263 Sum_probs=55.0
Q ss_pred CEEEEEEEEEeEec----CCC-eEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecC-CceeEEE
Q 008040 112 DHVSVAGRVVARRA----FGK-LAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTE-KGELSVL 185 (580)
Q Consensus 112 ~~V~v~GrV~~~R~----~gk-~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~-~ge~el~ 185 (580)
..|+|.|-|-.+-. .|+ +.-+.|.|.+++|-|..-.... +..+.+.. |..|++|.|.|.+.... .+++.+.
T Consensus 8 ~~~~~~g~i~~~~~~~~~~~~~~~~~~~~d~~~s~~~k~f~~~~--~~~~~~~~-~~~g~~~~~~g~~~~d~~~~~~~~~ 84 (1213)
T TIGR01405 8 NRVKIEGYIFKIEIKELKSGRTLLKIKVTDYTDSLILKKFLKSE--EDPEKFDG-IKIGKWVRARGKIELDNFSRDLQMI 84 (1213)
T ss_pred CeEEEEEEEEEEEeEeccCCCEEEEEEEEcCCCCEEEEEecccc--cchHHHhh-cCCCcEEEEEEEEeccCCCCceEEE
Confidence 57999999976522 455 5568899999877666443211 11222334 58999999999997544 6789999
Q ss_pred EeEEEEcc
Q 008040 186 VNSFVILT 193 (580)
Q Consensus 186 ~~~i~vls 193 (580)
+.++..+.
T Consensus 85 ~~~~~~~~ 92 (1213)
T TIGR01405 85 IKDIEEIP 92 (1213)
T ss_pred eeeeeecC
Confidence 98887653
No 242
>COG1098 VacB Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]
Probab=47.11 E-value=50 Score=30.17 Aligned_cols=67 Identities=16% Similarity=0.436 Sum_probs=44.9
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCC-eeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDS-GTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNS 188 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~s-g~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~ 188 (580)
.+.|+|..+-..| +|+.|-.++ |.|-|- . +...-.+.+...|..|+-|.|. ++.....|.++|.+..
T Consensus 8 ~l~GkItgI~~yG--AFV~l~~g~tGLVHIS--E--Ia~~fVkdI~d~L~vG~eV~vK-Vl~ide~GKisLSIr~ 75 (129)
T COG1098 8 KLKGKITGITPYG--AFVELEGGKTGLVHIS--E--IADGFVKDIHDHLKVGQEVKVK-VLDIDENGKISLSIRK 75 (129)
T ss_pred eEEEEEEeeEecc--eEEEecCCCcceEEeh--H--hhhhhHHhHHHHhcCCCEEEEE-EEeeccCCCcceehHH
Confidence 5899999999999 899998854 444432 1 1112234566778999999987 3333447777665543
No 243
>COG0072 PheT Phenylalanyl-tRNA synthetase beta subunit [Translation, ribosomal structure and biogenesis]
Probab=46.29 E-value=29 Score=40.48 Aligned_cols=112 Identities=21% Similarity=0.213 Sum_probs=66.0
Q ss_pred HHHHHHHHHHHHHHhCCCeeecCceeeccC-----CCCCCCceeeccCCCCeeE-EEEecHHHHHHHHHhc----cC--C
Q 008040 232 KRAKIVSEIRKTVESLGFVEVETPVLQGAA-----GGAEARPFVTYHNSLGRDL-YLRIATELHLKRMLIG----GF--E 299 (580)
Q Consensus 232 ~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~-----~Ga~a~pF~t~~~~~~~~~-yL~~Spql~lk~llv~----g~--~ 299 (580)
..+...+.+|++|...||.||-|-.|++.. ++.... ...-.|-...++ +||.|---.|-..+.- +. -
T Consensus 352 ~~~~~~r~vr~~l~~~G~~Evitysl~s~e~~~~~~~~~~~-~~~l~NPiS~e~s~mR~sLlp~LL~~~~~N~~r~~~~~ 430 (650)
T COG0072 352 PLQKFRRKVRRALVGLGFQEVITYSLTSPEEAKLFGLENDE-ALELANPISEEYSVLRTSLLPGLLEALSYNKNRKNPDV 430 (650)
T ss_pred hHHHHHHHHHHHHHhCCcceEeeeccCCHHHHHHhccCCCc-ceEecCCcchhHHHHHHHHHHHHHHHHHHhhccCCCCe
Confidence 455677789999999999999999999741 221110 111122222232 2555544443333321 11 4
Q ss_pred ceeEEecccccCCCCC-------------CCCccceeeeeEeecCCHHHHHHHHHHHHHHHH
Q 008040 300 KIYEIGRIFRNEGLST-------------RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHCA 348 (580)
Q Consensus 300 rVfeIg~~FR~E~~~~-------------rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~~ 348 (580)
|+||||++|-.++... .+ .+-|+-. .-.|+.|+-.+++.++..+-
T Consensus 431 ~iFEiG~v~~~~~~~~~~~~~~~~l~~g~~~-~~~w~~~---~~v~f~d~Kg~ve~ll~~lg 488 (650)
T COG0072 431 RIFEIGDVFVKDEEAERETRHLAGLAAGLAG-EESWQGK---RPVDFYDAKGDLEALLEALG 488 (650)
T ss_pred eEEEeeeeEecCCcccchhHHHHHHhhcccc-ccccccC---CCcCHHHHHHHHHHHHHHhC
Confidence 8999999999853211 22 3333333 23578888888888887664
No 244
>KOG1637 consensus Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=45.36 E-value=24 Score=39.03 Aligned_cols=111 Identities=18% Similarity=0.156 Sum_probs=64.9
Q ss_pred HHHHHHHHHHHHHHHhCCCeeecCceeecc----CCCCC----CCceeecc----------CCCCeeEEEEecHHHHHHH
Q 008040 231 RKRAKIVSEIRKTVESLGFVEVETPVLQGA----AGGAE----ARPFVTYH----------NSLGRDLYLRIATELHLKR 292 (580)
Q Consensus 231 ~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~~Ga~----a~pF~t~~----------~~~~~~~yL~~Spql~lk~ 292 (580)
++-++++..||.-...+||.||-||.|-.. .+|-- ...|.... |--|.-+-.+--+-=|.+.
T Consensus 193 ~iyN~Lv~fir~ey~~rGf~EVitPniy~~~LWe~SGHwqnY~enmF~~e~eke~~~LKPMNCPgHcLmf~~r~rS~reL 272 (560)
T KOG1637|consen 193 RIYNTLVDFIRAEYRKRGFTEVITPNIYNKKLWETSGHWQNYSENMFKFEVEKEEFALKPMNCPGHCLMFAHRDRSYREL 272 (560)
T ss_pred hHHHHHHHHHHHHHHhcCCceecCcchhhhhhhhhccchhhhhhhceeeeechhhhccCccCCCccccccccCCccHhhC
Confidence 677889999999999999999999999753 23310 11222110 1001101011111111110
Q ss_pred HHhccCCceeEEecccccCCCCC----CCCccceeeeeEeecCCHHHHHHHHHHHHHHH
Q 008040 293 MLIGGFEKIYEIGRIFRNEGLST----RHNPEFTTIEMYEAYSDYQSMMNITEEIVTHC 347 (580)
Q Consensus 293 llv~g~~rVfeIg~~FR~E~~~~----rH~pEFtmlE~e~a~~d~~d~m~l~E~li~~~ 347 (580)
--|.=.+|..-|||-+.+ +|+-+|.|=|.-. |.+.+++-+.++.++.++
T Consensus 273 -----PlR~aDFg~LHRnE~SGaLsGLTRvRrFqQDDaHI-FCt~~Qi~~Eik~~l~fl 325 (560)
T KOG1637|consen 273 -----PLRFADFGVLHRNEASGALSGLTRVRRFQQDDAHI-FCTPDQVKEEIKGCLDFL 325 (560)
T ss_pred -----CccccCcceeeeccccccccccceeeeecccCceE-EecCccHHHHHHHHHHHH
Confidence 025556889999998763 9999999988876 555555555555554443
No 245
>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=45.10 E-value=74 Score=32.20 Aligned_cols=97 Identities=16% Similarity=0.265 Sum_probs=62.4
Q ss_pred HHHHHHHHHHHHhCCCeeecCceeeccCCCCCCCceeeccCCCCeeEEEEecHHHHHHHHHhc----cCCceeEEecccc
Q 008040 234 AKIVSEIRKTVESLGFVEVETPVLQGAAGGAEARPFVTYHNSLGRDLYLRIATELHLKRMLIG----GFEKIYEIGRIFR 309 (580)
Q Consensus 234 s~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~----g~~rVfeIg~~FR 309 (580)
++|-+.+-+||.++|...|..--|.+.. |..+++..|.-...|....| ...|+-..-+|.|
T Consensus 2 ~eiR~~fl~FF~~kgH~~v~s~slvp~d---------------DptllFtnAGM~~Fkp~f~G~~~p~~~r~~~~QkCiR 66 (232)
T cd00673 2 SEIRETFLSFFEKKGHTRVPSSPVVPRD---------------DPTLLFTNAGMNQFKPIFLGEVPPPANRLVNSQKCIR 66 (232)
T ss_pred hHHHHHHHHHHHhCCCEEeCCCCcCCCC---------------CCchheeccchhhhhHHhcCCCCCCCCceeeeeecee
Confidence 3566778899999999988865555321 22334444443333433322 2368899999999
Q ss_pred cCCC-----CCCCCccceeeeeEeecCCH--HHHHHHHHHHHHH
Q 008040 310 NEGL-----STRHNPEFTTIEMYEAYSDY--QSMMNITEEIVTH 346 (580)
Q Consensus 310 ~E~~-----~~rH~pEFtmlE~e~a~~d~--~d~m~l~E~li~~ 346 (580)
.-++ +.||+.=|.|| --.+|.|| ++.+..+-+++..
T Consensus 67 ~~DienVG~t~rHhTfFEML-GNfSFgdYFK~eaI~~awe~LT~ 109 (232)
T cd00673 67 AGDIDNVGKTGRHHTFFEML-GNFSFGDYFKEEAIAFAWELLTE 109 (232)
T ss_pred cCChhhccccccchhhhhhh-cccchhhhhHHHHHHHHHHHHHh
Confidence 8553 35999999999 44567886 5666666666533
No 246
>cd04454 S1_Rrp4_like S1_Rrp4_like: Rrp4-like, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein, and Rrp40 and Csl4 proteins, also represented in this group, are subunits of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=45.00 E-value=65 Score=26.41 Aligned_cols=52 Identities=12% Similarity=0.015 Sum_probs=33.3
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.|.|.|..+...+ .++++... .+..+....+.....+.+...++.||.|.+.
T Consensus 9 iV~G~V~~v~~~~--~~V~i~~~---~~g~l~~~~~~~~~~~~~~~~~~~GD~i~~~ 60 (82)
T cd04454 9 IVIGIVTEVNSRF--WKVDILSR---GTARLEDSSATEKDKKEIRKSLQPGDLILAK 60 (82)
T ss_pred EEEEEEEEEcCCE--EEEEeCCC---ceEEeechhccCcchHHHHhcCCCCCEEEEE
Confidence 4789999997655 77888433 5666655443322223344557999999875
No 247
>PRK00629 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed
Probab=44.54 E-value=69 Score=38.29 Aligned_cols=110 Identities=19% Similarity=0.290 Sum_probs=60.7
Q ss_pred HHHHHHHHHHHHhCCCeeecCceeeccC----CCCCCCceeeccCCCCeeE-EEEecHHHHHHHHHh----ccCC--cee
Q 008040 234 AKIVSEIRKTVESLGFVEVETPVLQGAA----GGAEARPFVTYHNSLGRDL-YLRIATELHLKRMLI----GGFE--KIY 302 (580)
Q Consensus 234 s~i~~~iR~fl~~~gF~EVeTPiL~~~~----~Ga~a~pF~t~~~~~~~~~-yL~~Spql~lk~llv----~g~~--rVf 302 (580)
..+.+.+|++|...||.||-|-.|++.. -+-.. +...-.|-...++ +||.|-=.-|=..+. -+.. |+|
T Consensus 490 ~~~~~~ir~~L~~~Gf~Ev~tysf~~~~~~~~~~~~~-~~i~l~NPis~e~~~lR~SLlp~LL~~~~~N~~~~~~~i~lF 568 (791)
T PRK00629 490 QRLLRRLRRALAALGYQEVITYSFVSPEDAKLFGLNP-EPLLLLNPISEELSVMRTSLLPGLLEAVAYNLNRGNKDVALF 568 (791)
T ss_pred HHHHHHHHHHHHHCCCcEEeccccCCHHHHHhcCCCC-CeEEEeCCCchHHHHHHHhhHHHHHHHHHHHHhCCCCCEeEE
Confidence 3445678999999999999999998641 11000 1111123333332 355543222111111 2333 899
Q ss_pred EEecccccCCCCCCCCccceeeeeEeec------------CCHHHHHHHHHHHHHHH
Q 008040 303 EIGRIFRNEGLSTRHNPEFTTIEMYEAY------------SDYQSMMNITEEIVTHC 347 (580)
Q Consensus 303 eIg~~FR~E~~~~rH~pEFtmlE~e~a~------------~d~~d~m~l~E~li~~~ 347 (580)
|||+||.... ....|-+.|=+-++. .|+.++...+|.++..+
T Consensus 569 EiG~Vf~~~~---~~~~e~~~la~~~~g~~~~~~w~~~~~~df~~~Kg~le~ll~~l 622 (791)
T PRK00629 569 EIGRVFLPDG---DLPREPEHLAGVLTGNRVEESWGGKRPVDFFDLKGDVEALLEAL 622 (791)
T ss_pred eeeeeeCCCC---CCCcchhEEEEEEECCCccccccccCCCCHHHHHHHHHHHHHHc
Confidence 9999996521 011243344333332 47888888888888644
No 248
>cd00164 S1_like S1_like: Ribosomal protein S1-like RNA-binding domain. Found in a wide variety of RNA-associated proteins. Originally identified in S1 ribosomal protein. This superfamily also contains the Cold Shock Domain (CSD), which is a homolog of the S1 domain. Both domains are members of the Oligonucleotide/oligosaccharide Binding (OB) fold.
Probab=44.49 E-value=66 Score=23.97 Aligned_cols=51 Identities=25% Similarity=0.417 Sum_probs=30.1
Q ss_pred EEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 116 VAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 116 v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
+.|.|..+...| +|+++-++ ++.++.......+.+......+..||.|.+.
T Consensus 1 v~g~V~~v~~~g--~~v~l~~~---~~g~~~~~~~~~~~~~~~~~~~~~G~~v~~~ 51 (65)
T cd00164 1 VTGKVVSITKFG--VFVELEDG---VEGLVHISELSDKFVKDPSEVFKVGDEVEVK 51 (65)
T ss_pred CEEEEEEEEeee--EEEEecCC---CEEEEEHHHCCCccccCHhhEeCCCCEEEEE
Confidence 357888887655 67777522 5666655443322222223446899998875
No 249
>KOG1894 consensus Uncharacterized conserved protein [Function unknown]
Probab=43.98 E-value=23 Score=37.39 Aligned_cols=83 Identities=23% Similarity=0.217 Sum_probs=55.0
Q ss_pred HHHHHHHHHHHHHHHHHHhCCCeeecCceeecc----CCCCCCCceeecc-CCCCe---eEEEEecHHHHHHHHHhccC-
Q 008040 228 DVFRKRAKIVSEIRKTVESLGFVEVETPVLQGA----AGGAEARPFVTYH-NSLGR---DLYLRIATELHLKRMLIGGF- 298 (580)
Q Consensus 228 ~~~~~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~----~~Ga~a~pF~t~~-~~~~~---~~yL~~Spql~lk~llv~g~- 298 (580)
..+..+..--.+.++-|...+ |+.||.|+.. +.|+++.-|.++. .++|. ++.|.||+-++++..-| ||
T Consensus 101 ~~l~~~~~~k~a~~el~r~kd--e~ntp~l~qr~s~s~~~~~~n~qsIy~~~~~D~~~~~laL~i~~i~~k~~krv-~f~ 177 (412)
T KOG1894|consen 101 LHLEEADRPKYALQELFRLKD--ESNTPVLQQRLSASAFGAIANIQSIYNQGFYDQEDVVLALPISKIFFKDLKRV-GFD 177 (412)
T ss_pred HhcchhhhhhHHHHHHHHHhh--ccCChHHhhcccccchhhcccceeeccCCccCCCCccccccHhhhhhhhhhhh-cCC
Confidence 344444444455666666556 9999999843 4567777776653 34455 88999999999554433 44
Q ss_pred ------CceeE---EecccccCCC
Q 008040 299 ------EKIYE---IGRIFRNEGL 313 (580)
Q Consensus 299 ------~rVfe---Ig~~FR~E~~ 313 (580)
..||+ .++.|=||.-
T Consensus 178 d~a~e~~~v~s~~tl~~l~~ne~d 201 (412)
T KOG1894|consen 178 DNAPEQLEVVSGRTLSNLFYNETD 201 (412)
T ss_pred ccchhhheeeccccccccccCcch
Confidence 36666 6778888764
No 250
>CHL00192 syfB phenylalanyl-tRNA synthetase beta chain; Provisional
Probab=43.40 E-value=72 Score=37.63 Aligned_cols=109 Identities=19% Similarity=0.132 Sum_probs=58.7
Q ss_pred HHHHHHHHHHHHhCCCeeecCceeeccCCCCCCCceeeccCCCCee-EEEEecHHHHHHHHHhccC------CceeEEec
Q 008040 234 AKIVSEIRKTVESLGFVEVETPVLQGAAGGAEARPFVTYHNSLGRD-LYLRIATELHLKRMLIGGF------EKIYEIGR 306 (580)
Q Consensus 234 s~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~-~yL~~Spql~lk~llv~g~------~rVfeIg~ 306 (580)
..+.+.+|++|...||.||-|-.|++...- ...+.. -.|....+ -+||.|-=--|=..+.-.. =|+||||+
T Consensus 401 ~~~~~~ir~~L~~~Gf~Evitysf~s~~~~-~~~~i~-l~NPiS~e~s~lR~SLlpgLL~~~~~N~~r~~~~~rlFEiG~ 478 (704)
T CHL00192 401 YNTRDKIRSYLRNLGLTELIHYSLVKQESF-SKNEIK-LKNPLIKDYSTLRSSLLPGLIEAVQENLKQGNSTLEGFEIGH 478 (704)
T ss_pred HHHHHHHHHHHHhCCCceEecccccChhhc-CCCcEE-EeCCCchHHHHHHHHHHHHHHHHHHHHHhcCCCCEeEEEeee
Confidence 455677899999999999999999865211 111111 12333333 2466552111111122111 27999999
Q ss_pred ccccCCCCCCCCccceeeeeEee--------------cCCHHHHHHHHHHHHHHH
Q 008040 307 IFRNEGLSTRHNPEFTTIEMYEA--------------YSDYQSMMNITEEIVTHC 347 (580)
Q Consensus 307 ~FR~E~~~~rH~pEFtmlE~e~a--------------~~d~~d~m~l~E~li~~~ 347 (580)
||-..+.. ..|-.++=.-++ -.|+.|+-..+|.++..+
T Consensus 479 Vf~~~~~~---~~e~~~la~~~~g~~~~~~~w~~~~~~~dF~d~Kg~le~ll~~l 530 (704)
T CHL00192 479 VFNLDSSS---IIEETELAGGIFGGIDIRSSWSEKAQSLNWFEAKGIIENFFQKL 530 (704)
T ss_pred eEcCCCcc---ccccceEEEEEECCCcCccccCCCCCccCHHHHHHHHHHHHHHC
Confidence 99432111 112222211111 237888888888888644
No 251
>PF13567 DUF4131: Domain of unknown function (DUF4131)
Probab=43.23 E-value=1.3e+02 Score=27.22 Aligned_cols=57 Identities=28% Similarity=0.396 Sum_probs=38.0
Q ss_pred CCEEEEEEEEEeEecCC-C-eEEE-EE----ee-----CCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEe
Q 008040 111 NDHVSVAGRVVARRAFG-K-LAFL-TL----RD-----DSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKR 176 (580)
Q Consensus 111 ~~~V~v~GrV~~~R~~g-k-~~F~-~L----rD-----~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~ 176 (580)
++.+++.|.|.+..... + ..|. .+ .. .+++++++..++... . +..||.|.++|++..
T Consensus 75 ~~~~~v~g~V~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~--------~-l~~Gd~i~~~g~l~~ 143 (176)
T PF13567_consen 75 GKEVTVQGTVESVPQIDGRGQRFTLRVERVLAGGNWIPVSGKILLYLPKDSQP--------R-LQPGDRIRVRGKLKP 143 (176)
T ss_pred CceEEEEEEEcccccccCceEEEEEEEEEeeccccccccceeeEEEecccccc--------c-cCCCCEEEEEEEEec
Confidence 47899999999885543 3 2232 21 11 234788888776421 2 589999999999885
No 252
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=42.66 E-value=2.8e+02 Score=27.83 Aligned_cols=78 Identities=18% Similarity=0.264 Sum_probs=52.7
Q ss_pred CCEEEEEEEEEe---EecC-CCeEEEEE-------eeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEe--c
Q 008040 111 NDHVSVAGRVVA---RRAF-GKLAFLTL-------RDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKR--T 177 (580)
Q Consensus 111 ~~~V~v~GrV~~---~R~~-gk~~F~~L-------rD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~--t 177 (580)
+..|.|.|+|.+ .|.. .+-.|... ++....|.|++..... + ... +..|+.|.|+|.+.. .
T Consensus 8 ~NkV~L~Grl~~d~e~~~~~~G~~~~~f~laV~R~s~~~D~i~v~v~~rla-----e-~~~-l~kG~~v~VeGqlrsy~~ 80 (219)
T PRK05813 8 NNKVYLEGKVVSELEFSHEMYGEGFYNFKLEVPRLSDSKDILPVTVSERLL-----A-GMD-LKVGTLVIVEGQLRSYNK 80 (219)
T ss_pred cCEEEEEEEEcCCceEEEEeCCeEEEEEEEEeeccCCCccEEEEEEEhhhh-----h-hhc-ccCCCEEEEEEEEEEecc
Confidence 367999999986 3432 22333322 2455589999887642 2 223 599999999999982 1
Q ss_pred C-Cc----eeEEEEeEEEEcccc
Q 008040 178 E-KG----ELSVLVNSFVILTKS 195 (580)
Q Consensus 178 ~-~g----e~el~~~~i~vls~a 195 (580)
. .| -++|.|.+++.|...
T Consensus 81 ~~~G~~R~vl~V~a~~i~~l~~~ 103 (219)
T PRK05813 81 FIDGKNRLILTVFARNIEYCDER 103 (219)
T ss_pred CCCCcEEEEEEEEEEEEEEccCC
Confidence 2 24 489999999999764
No 253
>TIGR00638 Mop molybdenum-pterin binding domain. This model describes a multigene family of molybdenum-pterin binding proteins of about 70 amino acids in Clostridium pasteurianum, as a tandemly-repeated domain C-terminal to an unrelated domain in ModE, a molybdate transport gene repressor of E. coli, and in single or tandemly paired domains in several related proteins.
Probab=42.64 E-value=1.6e+02 Score=22.89 Aligned_cols=50 Identities=20% Similarity=0.119 Sum_probs=36.6
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCe-eEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSG-TIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg-~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|+|.++...|..+-+.|.-+.+ .+...+..+ .+..+ . |..|+-|.+.
T Consensus 8 ~l~g~I~~i~~~g~~~~v~l~~~~~~~l~a~i~~~-----~~~~l-~-l~~G~~v~~~ 58 (69)
T TIGR00638 8 QLKGKVVAIEDGDVNAEVDLLLGGGTKLTAVITLE-----SVAEL-G-LKPGKEVYAV 58 (69)
T ss_pred EEEEEEEEEEECCCeEEEEEEECCCCEEEEEecHH-----HHhhC-C-CCCCCEEEEE
Confidence 6999999999888877777776555 777777654 23333 3 5899988875
No 254
>PRK13159 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=42.51 E-value=2.2e+02 Score=27.09 Aligned_cols=69 Identities=20% Similarity=0.258 Sum_probs=49.5
Q ss_pred CCEEEEEEEEE--eEecCCC---eEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEE
Q 008040 111 NDHVSVAGRVV--ARRAFGK---LAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVL 185 (580)
Q Consensus 111 ~~~V~v~GrV~--~~R~~gk---~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~ 185 (580)
++.++|-|.|. |+...+. +.| .+.|+...|.|....- + ++. .+-|.-|.++|.+. .| ...
T Consensus 51 ~~~~RlGG~V~~GSv~r~~~~~~v~F-~vtD~~~~v~V~Y~Gi-l-PDl-------FrEGqgVVaeG~~~---~g--~F~ 115 (155)
T PRK13159 51 YQQFRLGGMVKAGSIQRAADSLKVSF-TVIDKNAATQVEYTGI-L-PDL-------FRDNQSVIANGRMQ---GG--RFV 115 (155)
T ss_pred CCeEEEccEEecCcEEEcCCCcEEEE-EEEcCCcEEEEEEccC-C-Ccc-------ccCCCeEEEEEEEc---CC--EEE
Confidence 47899999999 7766543 566 6789999999988653 2 333 46699999999986 24 344
Q ss_pred EeEEEEccccC
Q 008040 186 VNSFVILTKSL 196 (580)
Q Consensus 186 ~~~i~vls~a~ 196 (580)
++ +||.||.
T Consensus 116 A~--~vLAKHd 124 (155)
T PRK13159 116 AN--EVLAKHD 124 (155)
T ss_pred Ee--EEEecCC
Confidence 44 5777875
No 255
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=42.25 E-value=79 Score=30.81 Aligned_cols=38 Identities=11% Similarity=0.363 Sum_probs=29.8
Q ss_pred hhcccCCCcEEEEEeEEEec----CCc----eeEEEEeEEEEcccc
Q 008040 158 LKVFVDIGDILGVSGSMKRT----EKG----ELSVLVNSFVILTKS 195 (580)
Q Consensus 158 ~~~~l~~gd~v~v~G~v~~t----~~g----e~el~~~~i~vls~a 195 (580)
+.+.|+.||.|.|+|.+... +.| .++|.|++|++|...
T Consensus 66 v~~~LkKGs~V~VeGrL~~~~yeDkdG~kr~~~eVvA~~V~fL~sr 111 (182)
T PRK06958 66 VGEYLKKGSSVYIEGRIRTRKWQGQDGQDRYSTEIVADQMQMLGGR 111 (182)
T ss_pred HHHHhCCCCEEEEEEEEEeCceECCCCcEEEEEEEEEeEEEECCCC
Confidence 33457999999999999854 233 489999999999754
No 256
>PF14485 DUF4431: Domain of unknown function (DUF4431)
Probab=42.13 E-value=77 Score=23.98 Aligned_cols=34 Identities=26% Similarity=0.477 Sum_probs=25.7
Q ss_pred eEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCc
Q 008040 140 TIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKG 180 (580)
Q Consensus 140 ~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~g 180 (580)
.+|++++.+ .|+..+. =.|--|.|+|.++-..+|
T Consensus 1 ~vQL~l~~~-----~~~~~~~--~~Gk~V~V~G~l~~a~t~ 34 (48)
T PF14485_consen 1 EVQLILSEE-----DYSYLKS--LLGKRVSVTGKLFHAHTG 34 (48)
T ss_pred CeEEEeChh-----hhHHHHH--hcCCeEEEEEEEeeccCc
Confidence 379998433 4566655 379999999999988776
No 257
>PF02091 tRNA-synt_2e: Glycyl-tRNA synthetase alpha subunit; InterPro: IPR002310 The aminoacyl-tRNA synthetases (6.1.1. from EC) catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction. These proteins differ widely in size and oligomeric state, and have limited sequence homology []. The 20 aminoacyl-tRNA synthetases are divided into two classes, I and II. Class I aminoacyl-tRNA synthetases contain a characteristic Rossman fold catalytic domain and are mostly monomeric []. Class II aminoacyl-tRNA synthetases share an anti-parallel beta-sheet fold flanked by alpha-helices [], and are mostly dimeric or multimeric, containing at least three conserved regions [, , ]. However, tRNA binding involves an alpha-helical structure that is conserved between class I and class II synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxyl of the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred. The synthetases specific for arginine, cysteine, glutamic acid, glutamine, isoleucine, leucine, methionine, tyrosine, tryptophan and valine belong to class I synthetases. The synthetases specific for alanine, asparagine, aspartic acid, glycine, histidine, lysine, phenylalanine, proline, serine, and threonine belong to class-II synthetases []. Based on their mode of binding to the tRNA acceptor stem, both classes of tRNA synthetases have been subdivided into three subclasses, designated 1a, 1b, 1c and 2a, 2b, 2c. 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 (see IPR002315 from INTERPRO). 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 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 []. This entry represents the alpha subunit of glycyl-tRNA synthetase.; GO: 0000166 nucleotide binding, 0004820 glycine-tRNA ligase activity, 0005524 ATP binding, 0006426 glycyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3RF1_A 3UFG_B 3RGL_B 1J5W_B.
Probab=42.13 E-value=18 Score=36.99 Aligned_cols=29 Identities=24% Similarity=0.476 Sum_probs=23.1
Q ss_pred CCCccceeccHHHHHHHHcCCCCcccccc
Q 008040 544 MPPASGMGLGIDRLVMLLTNSASIRDVIA 572 (580)
Q Consensus 544 ~PP~gG~GiGiDRLvMlltg~~sIrdvi~ 572 (580)
-|.++=+--|+|||.|+|-|.+||-|++-
T Consensus 149 ~pv~~EITYGLERiamylQ~vdnv~dl~w 177 (284)
T PF02091_consen 149 KPVSVEITYGLERIAMYLQGVDNVYDLIW 177 (284)
T ss_dssp SS--EEEEEEHHHHHHHHCT-SSGGGSEE
T ss_pred cccceehhhhHHHHHHHHhCCCeeEeeee
Confidence 36677799999999999999999999864
No 258
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=42.07 E-value=1.7e+02 Score=37.46 Aligned_cols=79 Identities=16% Similarity=0.275 Sum_probs=53.5
Q ss_pred CEEEEEEEEEeE--ec--CCC-eEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecC-CceeEEE
Q 008040 112 DHVSVAGRVVAR--RA--FGK-LAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTE-KGELSVL 185 (580)
Q Consensus 112 ~~V~v~GrV~~~--R~--~gk-~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~-~ge~el~ 185 (580)
..|+|.|.|-.+ |. .|+ +.=+.|.|.+++|-|..-... ++.-+.+.. |..|++|.|+|.+...+ .+++.+.
T Consensus 237 ~~v~i~G~if~~e~~~~k~~~~~~~~~~td~~~s~~~k~f~~~--~~~~~~~~~-~~~g~~v~~~g~~~~d~~~~~~~~~ 313 (1437)
T PRK00448 237 RRVVVEGYVFKVEIKELKSGRHILTFKITDYTSSIIVKKFSRD--KEDLKKFDE-IKKGDWVKVRGSVQNDTFTRDLVMN 313 (1437)
T ss_pred CeEEEEEEEEEEEEEeccCCCEEEEEEEEcCCCCEEEEEEecC--cchhHHHhc-CCCCCEEEEEEEEeccCCCCceEEE
Confidence 579999999876 32 344 555788999886555433221 111222334 69999999999998654 6788888
Q ss_pred EeEEEEcc
Q 008040 186 VNSFVILT 193 (580)
Q Consensus 186 ~~~i~vls 193 (580)
+..+..+.
T Consensus 314 ~~~~~~~~ 321 (1437)
T PRK00448 314 AQDINEIK 321 (1437)
T ss_pred eeeeeecC
Confidence 88877543
No 259
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=41.88 E-value=3.6e+02 Score=27.03 Aligned_cols=79 Identities=22% Similarity=0.338 Sum_probs=53.3
Q ss_pred CEEEEEEEEEe---Eec--CCC-eEEEEEe-eC----CeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEec---
Q 008040 112 DHVSVAGRVVA---RRA--FGK-LAFLTLR-DD----SGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRT--- 177 (580)
Q Consensus 112 ~~V~v~GrV~~---~R~--~gk-~~F~~Lr-D~----sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t--- 177 (580)
..|.|.|+|.. +|. .|+ ++-+.|- +. +.-|.|++-... .+ + +.. +..||-|.|+|.+...
T Consensus 110 N~V~LiGrL~~DPelR~t~~G~~va~f~lAvnr~~~~td~i~~v~wg~~--Ae-~--~~~-l~KG~~V~V~GrL~sr~y~ 183 (219)
T PRK05813 110 NEIFLDGYICKEPVYRTTPFGREIADLLLAVNRPYNKSDYIPCIAWGRN--AR-F--CKT-LEVGDNIRVWGRVQSREYQ 183 (219)
T ss_pred cEEEEEEEccCCCeEEECCCCCEEEEEEEEEcCCCCCceEEEEEEEhHH--hH-H--Hhh-CCCCCEEEEEEEEEecceE
Confidence 57999999986 353 353 5555553 32 346777776552 12 2 334 6999999999999853
Q ss_pred -CCc--------eeEEEEeEEEEccccC
Q 008040 178 -EKG--------ELSVLVNSFVILTKSL 196 (580)
Q Consensus 178 -~~g--------e~el~~~~i~vls~a~ 196 (580)
+.| -.||.|+++++|++..
T Consensus 184 ~k~g~~~g~kr~~~eV~v~~i~~l~~~~ 211 (219)
T PRK05813 184 KKLSEGEVVTKVAYEVSISKMEKVEKEE 211 (219)
T ss_pred cCCCCccceEEEEEEEEEEEEEEcCChh
Confidence 233 3899999999997643
No 260
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=41.06 E-value=31 Score=27.60 Aligned_cols=23 Identities=43% Similarity=0.600 Sum_probs=19.9
Q ss_pred HHHHHHHHHHHHHHHhCCCeeec
Q 008040 231 RKRAKIVSEIRKTVESLGFVEVE 253 (580)
Q Consensus 231 ~~Rs~i~~~iR~fl~~~gF~EVe 253 (580)
+.|.+|++.||+||...|=++|-
T Consensus 2 ~kre~i~~~iR~~fs~lG~I~vL 24 (62)
T PF15513_consen 2 RKREEITAEIRQFFSQLGEIAVL 24 (62)
T ss_pred cHHHHHHHHHHHHHHhcCcEEEE
Confidence 46899999999999999977664
No 261
>cd05690 S1_RPS1_repeat_ec5 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 5 (ec5) of the Escherichia coli RPS1. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=40.90 E-value=88 Score=24.33 Aligned_cols=52 Identities=15% Similarity=0.259 Sum_probs=31.7
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccC-hHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLL-SDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~-~~~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|+|.++...| +|+.|-++ +..++....++ ........+.+..||.|.|.
T Consensus 3 ~~~g~V~~i~~~G--~fv~l~~~---~~Glv~~~~l~~~~~~~~~~~~~~~G~~v~v~ 55 (69)
T cd05690 3 VVSGKIKSITDFG--IFVGLDGG---IDGLVHISDISWTQRVRHPSEIYKKGQEVEAV 55 (69)
T ss_pred EEEEEEEEEEeee--EEEEeCCC---CEEEEEHHHCCCccccCChhhEECCCCEEEEE
Confidence 4789999999988 89999653 44444433322 00111112335889988876
No 262
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=40.50 E-value=3e+02 Score=26.93 Aligned_cols=45 Identities=13% Similarity=0.218 Sum_probs=28.3
Q ss_pred eEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEec----CCc----eeEEEEeEE
Q 008040 140 TIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRT----EKG----ELSVLVNSF 189 (580)
Q Consensus 140 ~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t----~~g----e~el~~~~i 189 (580)
-+.|++-.+. .+. +.+.|..||.|.|+|.+... +.| .++|.|++|
T Consensus 54 fi~V~~Wg~~--Ae~---va~~L~KGd~V~V~GrL~~r~wedkdG~~rt~~eV~a~~V 106 (186)
T PRK07772 54 FLRCSIWRQA--AEN---VAESLTKGMRVIVTGRLKQRSYETREGEKRTVVELEVDEI 106 (186)
T ss_pred EEEEEEecHH--HHH---HHHhcCCCCEEEEEEEEEcCceECCCCCEEEEEEEEEEEc
Confidence 4566665442 122 33446999999999999853 334 367777664
No 263
>KOG2298 consensus Glycyl-tRNA synthetase and related class II tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=40.45 E-value=5.8 Score=43.65 Aligned_cols=31 Identities=35% Similarity=0.447 Sum_probs=25.2
Q ss_pred eeEEecccccCCCCC---CCCccceeeeeEeecCC
Q 008040 301 IYEIGRIFRNEGLST---RHNPEFTTIEMYEAYSD 332 (580)
Q Consensus 301 VfeIg~~FR~E~~~~---rH~pEFtmlE~e~a~~d 332 (580)
+=+||+.||||=+.. -|--||||.|+|- |.|
T Consensus 212 ~AqiG~~fRNEISpRsGLlRvrEF~maEIEH-Fvd 245 (599)
T KOG2298|consen 212 SAQIGKSFRNEISPRSGLLRVREFTMAEIEH-FVD 245 (599)
T ss_pred HHHhchHhhhccCcccCceeEEEeehHHhhc-cCC
Confidence 358999999997653 6889999999986 554
No 264
>PF04057 Rep-A_N: Replication factor-A protein 1, N-terminal domain; InterPro: IPR007199 Replication factor-a protein 1 (RPA1) forms a multiprotein complex with RPA2 and RPA3 that binds single-stranded DNA and functions in the recognition of DNA damage for nucleotide excision repair. The complex binds to single-stranded DNA sequences participating in DNA replication in addition to those mediating transcriptional repression and activation, and stimulates the activity of cognate strand exchange protein Sep1. It cooperates with T-AG and DNA topoisomerase I to unwind template DNA containing the Simian Virus 40 origin of replication [].; GO: 0003677 DNA binding, 0006260 DNA replication, 0005634 nucleus; PDB: 1EWI_A 2B3G_A 2B29_A.
Probab=39.85 E-value=2.4e+02 Score=24.52 Aligned_cols=62 Identities=16% Similarity=0.174 Sum_probs=43.7
Q ss_pred CeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCC-ceeEEEEeEEEEcc
Q 008040 128 KLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEK-GELSVLVNSFVILT 193 (580)
Q Consensus 128 k~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~-ge~el~~~~i~vls 193 (580)
+--=+.|+||...+|.++.... .+... ...|+.|++|.+.-....+-. +.--|.+-+++++.
T Consensus 38 ~RyR~~lSDG~~~~~amLatql--n~lv~--~g~l~~~siirl~~y~~n~v~~~k~iiiil~leVv~ 100 (101)
T PF04057_consen 38 DRYRLVLSDGVHSIQAMLATQL--NHLVE--SGELQKGSIIRLKQYTCNTVKNGKKIIIILDLEVVQ 100 (101)
T ss_dssp -EEEEEEESSSEEEEEEESGGG--HHHHH--TTSSSTT-EEEEEEEEEEESTTSSEEEEEEEEEEEE
T ss_pred ceEEEEEEChHHHHHHHhHHHh--HHHHh--cCCcccCCEEEEeEEEEeeccCCCEEEEEEeeEEEe
Confidence 3556889999999999987653 12222 234799999999988776655 66667888888764
No 265
>PF12857 TOBE_3: TOBE-like domain; InterPro: IPR024765 The TOBE (transport-associated OB) domain [] always occurs as a dimer and it is found in ABC transporters immediately after the ATPase domain. This entry represents a TOBE-like domain, found in the C terminus of ATPase subunit CysA. CysA is part of the CysATWP ABC transporter complex, involved in sulphate/thiosulphate import [, ].
Probab=39.71 E-value=1.4e+02 Score=23.12 Aligned_cols=49 Identities=29% Similarity=0.345 Sum_probs=37.7
Q ss_pred EEEEEEEeEecCCCeEEEEEeeC-Ce-eEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDD-SG-TIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~-sg-~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|.|..++..|-.+.++|... ++ .|.+-++.+. ..+ . +..||.|.+.
T Consensus 6 ~l~a~V~~v~~~G~~vRlEl~~~~~~~~iEvel~~~~------~~l-~-l~~G~~V~l~ 56 (58)
T PF12857_consen 6 GLPARVRRVRPVGPEVRLELKRLDDGEPIEVELPRER------RQL-G-LQPGDRVYLR 56 (58)
T ss_pred cEeEEEEEEEecCCeEEEEEEECCCCCEEEEEeCHhH------Hhc-C-CCCCCEEEEE
Confidence 58899999999999999999665 33 7888887653 222 3 3669999875
No 266
>KOG3416 consensus Predicted nucleic acid binding protein [General function prediction only]
Probab=39.28 E-value=1.1e+02 Score=27.96 Aligned_cols=51 Identities=22% Similarity=0.365 Sum_probs=34.8
Q ss_pred EEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeE
Q 008040 114 VSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGS 173 (580)
Q Consensus 114 V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~ 173 (580)
|-..|++....+-.++.=.-+-|.+|+|-+-+-.+. ..++.+||+|..+|=
T Consensus 23 vl~~g~~tkTkdg~~v~~~kVaD~TgsI~isvW~e~---------~~~~~PGDIirLt~G 73 (134)
T KOG3416|consen 23 VLEYGRATKTKDGHEVRSCKVADETGSINISVWDEE---------GCLIQPGDIIRLTGG 73 (134)
T ss_pred EEeeceeeeccCCCEEEEEEEecccceEEEEEecCc---------CcccCCccEEEeccc
Confidence 445566655554446777788999997666655432 245799999999864
No 267
>PRK06386 replication factor A; Reviewed
Probab=38.90 E-value=2.6e+02 Score=30.30 Aligned_cols=68 Identities=16% Similarity=0.280 Sum_probs=51.8
Q ss_pred CEEEEEEEEEeEe------cCCC--eEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeE
Q 008040 112 DHVSVAGRVVARR------AFGK--LAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELS 183 (580)
Q Consensus 112 ~~V~v~GrV~~~R------~~gk--~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~e 183 (580)
..|+|.|+|..+- +.|. +.-..|-|.||+|-+.+.... ..|..||+|.+.+...+.=.|.++
T Consensus 13 ~~V~v~akVl~~~~r~i~~~~g~~~~~~gllgDeTG~I~fT~W~~~----------~~l~~Gd~v~i~na~v~~~~G~~~ 82 (358)
T PRK06386 13 QNVDLKVKVLSLNKRTIKNDRGETIYYYGIIGDETGTVPFTAWEFP----------DAVKSGDVIEIKYCYSKEYNGKIR 82 (358)
T ss_pred CcEEEEEEEEEccceEEecCCCCeEEEEEEEECCcceEEEEecCCc----------ccCCCCCEEEEEeEEEeeECCEEE
Confidence 5699999998553 2232 555568999999999987531 126899999999999988899999
Q ss_pred EEEeEE
Q 008040 184 VLVNSF 189 (580)
Q Consensus 184 l~~~~i 189 (580)
|.+.+.
T Consensus 83 Lnv~~~ 88 (358)
T PRK06386 83 IYFDSR 88 (358)
T ss_pred EEEcCc
Confidence 988644
No 268
>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=38.83 E-value=23 Score=35.14 Aligned_cols=29 Identities=31% Similarity=0.520 Sum_probs=24.0
Q ss_pred cCCC---CccceeccHHHHHHHHcCCCCcccc
Q 008040 542 YGMP---PASGMGLGIDRLVMLLTNSASIRDV 570 (580)
Q Consensus 542 yG~P---P~gG~GiGiDRLvMlltg~~sIrdv 570 (580)
+|+| |...+.|++|+|+|+.-|.++||+.
T Consensus 181 ~~i~~~~~v~~~Eidl~~l~~~~~~~~~~~~~ 212 (218)
T cd00496 181 AGIDEEYSGFAFGIGLERLAMLKYGIPDIRLF 212 (218)
T ss_pred CCCCCCceEEEEEecHHHHHHHHhCCcHHHHH
Confidence 5663 3468899999999999999999963
No 269
>PRK09348 glyQ glycyl-tRNA synthetase subunit alpha; Validated
Probab=38.14 E-value=22 Score=36.33 Aligned_cols=31 Identities=23% Similarity=0.417 Sum_probs=26.3
Q ss_pred CCCccceeccHHHHHHHHcCCCCccccccCC
Q 008040 544 MPPASGMGLGIDRLVMLLTNSASIRDVIAFP 574 (580)
Q Consensus 544 ~PP~gG~GiGiDRLvMlltg~~sIrdvi~FP 574 (580)
-|..+=+--|+|||.|.|-|.+||-|+..-.
T Consensus 154 ~pv~~EITYGLERiamylQ~vd~v~dl~w~~ 184 (283)
T PRK09348 154 KPVTGEITYGLERLAMYLQGVDNVYDLVWND 184 (283)
T ss_pred cccceeeehhHHHHHHHHhCCCceeeeecCC
Confidence 3677778999999999999999999986543
No 270
>cd00733 GlyRS_alpha_core Class II Glycyl-tRNA synthetase (GlyRS) alpha subunit core catalytic domain. GlyRS functions as a homodimer in eukaryotes, archaea and some bacteria and as a heterotetramer in the remainder of prokaryotes and in arabidopsis. 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 the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. This alignment contains only sequences from the GlyRS form which heterotetramerizes. The homodimer form of GlyRS is in a different family of class II aaRS. Class II assignment is based upon structure and the presence of three characteristic sequence motifs.
Probab=38.04 E-value=22 Score=36.22 Aligned_cols=29 Identities=21% Similarity=0.405 Sum_probs=25.3
Q ss_pred CCCccceeccHHHHHHHHcCCCCcccccc
Q 008040 544 MPPASGMGLGIDRLVMLLTNSASIRDVIA 572 (580)
Q Consensus 544 ~PP~gG~GiGiDRLvMlltg~~sIrdvi~ 572 (580)
-|..+=+--|+|||.|.|-|.+||-|+..
T Consensus 150 ~pv~~EiTYGLERiamylQ~vd~v~dl~w 178 (279)
T cd00733 150 KPISVEITYGLERIAMYLQGVDNVYDIEW 178 (279)
T ss_pred cccceeeehhHHHHHHHHhCCCceecccc
Confidence 36777899999999999999999998764
No 271
>TIGR00472 pheT_bact phenylalanyl-tRNA synthetase, beta subunit, non-spirochete bacterial. Every known example of the phenylalanyl-tRNA synthetase, except the monomeric form of mitochondrial, is an alpha 2 beta 2 heterotetramer. The beta subunits break into two subfamilies that are considerably different in sequence, length, and pattern of gaps. This model represents the subfamily that includes the beta subunit from Bacteria other than spirochetes, as well as a chloroplast-encoded form from Porphyra purpurea. The chloroplast-derived sequence is considerably shorter at the amino end, however.
Probab=36.51 E-value=1.1e+02 Score=36.55 Aligned_cols=106 Identities=22% Similarity=0.244 Sum_probs=56.5
Q ss_pred HHHHHHHHhCCCeeecCceeeccC----CCCCC-C-ceeeccCCCCeeE-EEEec--HHHHHHHH--HhccCC--ceeEE
Q 008040 238 SEIRKTVESLGFVEVETPVLQGAA----GGAEA-R-PFVTYHNSLGRDL-YLRIA--TELHLKRM--LIGGFE--KIYEI 304 (580)
Q Consensus 238 ~~iR~fl~~~gF~EVeTPiL~~~~----~Ga~a-~-pF~t~~~~~~~~~-yL~~S--pql~lk~l--lv~g~~--rVfeI 304 (580)
+.+|++|...||.||-|-.|++.. -|-.. . +.. -.|....++ +||.| |.|-.-.. ...+.. |+|||
T Consensus 498 ~~~r~~L~~~Gf~Ev~tysl~s~~~~~~~~~~~~~~~i~-l~NPis~e~s~lR~SLlpgLL~~~~~N~~~~~~~~~lFEi 576 (798)
T TIGR00472 498 RKLRTLLVGLGLNEVITYSLVSSEKAEKFNFPKLENLVE-IKNPLSNERSVLRTSLLPSLLEVLAYNQNRKNKDVKIFEI 576 (798)
T ss_pred HHHHHHHHHCCCcEEeccccCCHHHHHhhcCCCCCceEE-EeCCCchHHHHHHHhhHHHHHHHHHHHHhCCCCCEeEEee
Confidence 467999999999999999998641 11000 0 111 112222222 24443 22211100 012233 89999
Q ss_pred ecccccCCCCCCCCccceeeeeEeec-------------CCHHHHHHHHHHHHHHH
Q 008040 305 GRIFRNEGLSTRHNPEFTTIEMYEAY-------------SDYQSMMNITEEIVTHC 347 (580)
Q Consensus 305 g~~FR~E~~~~rH~pEFtmlE~e~a~-------------~d~~d~m~l~E~li~~~ 347 (580)
|+||...+.. -.|.++|=+-++. .|+.|+...+|.++..+
T Consensus 577 G~V~~~~~~~---~~e~~~La~~~~g~~~~~~~~~~~~~~df~d~Kg~le~ll~~l 629 (798)
T TIGR00472 577 GKVFAKDGLG---VKEQLRLAILISGEKNPSSWNHKEEKVDFYDLKGDVESLLELL 629 (798)
T ss_pred ecccCCCCCC---cchhhEEEEEEECCCCcccccCCCCcCChHHHHHHHHHHHHHc
Confidence 9999542211 1244444333322 47888888888888644
No 272
>cd05688 S1_RPS1_repeat_ec3 S1_RPS1_repeat_ec3: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 3 (ec3) of the Escherichia coli RPS1. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=35.62 E-value=1.7e+02 Score=22.36 Aligned_cols=51 Identities=24% Similarity=0.330 Sum_probs=33.0
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|.|..+...| +|++|. .++.++....+...........+++||.|.|.
T Consensus 4 ~~~g~V~~v~~~g--~~v~l~----~~~g~l~~~e~~~~~~~~~~~~~~~Gd~v~v~ 54 (68)
T cd05688 4 VVEGTVKSITDFG--AFVDLG----GVDGLLHISDMSWGRVKHPSEVVNVGDEVEVK 54 (68)
T ss_pred EEEEEEEEEEeee--EEEEEC----CeEEEEEhHHCCCccccCHhHEECCCCEEEEE
Confidence 4789999998877 888884 26667655443211111222335899999886
No 273
>PRK12293 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=35.19 E-value=23 Score=36.81 Aligned_cols=17 Identities=35% Similarity=0.538 Sum_probs=15.3
Q ss_pred CccceeccHHHHHHHHc
Q 008040 546 PASGMGLGIDRLVMLLT 562 (580)
Q Consensus 546 P~gG~GiGiDRLvMllt 562 (580)
|..||++|+|||+.+|.
T Consensus 264 PAvGfa~~ld~l~~~l~ 280 (281)
T PRK12293 264 SSSGFALYTDNLIEILL 280 (281)
T ss_pred CcceEEeeHHHHHHHhh
Confidence 79999999999998774
No 274
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=33.16 E-value=98 Score=28.27 Aligned_cols=36 Identities=25% Similarity=0.580 Sum_probs=28.7
Q ss_pred hhcccCCCcEEEEEeEEEec---CCc----eeEEEEeEEEEcc
Q 008040 158 LKVFVDIGDILGVSGSMKRT---EKG----ELSVLVNSFVILT 193 (580)
Q Consensus 158 ~~~~l~~gd~v~v~G~v~~t---~~g----e~el~~~~i~vls 193 (580)
+.+.|..||.|.|+|.+... +.| .++|.++++.+|.
T Consensus 61 v~~~l~KG~~V~V~Grl~~~~y~kdG~~~~~~eviv~~i~~l~ 103 (131)
T PRK07274 61 LASYASKGSLISIDGELRTRKYEKDGQTHYVTEVLCQSFQLLE 103 (131)
T ss_pred HHHHcCCCCEEEEEEEEEeccCccCCcEEEEEEEEEEEEEECc
Confidence 44557999999999999854 334 4789999999986
No 275
>cd05702 S1_Rrp5_repeat_hs11_sc8 S1_Rrp5_repeat_hs11_sc8: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 11 (hs11) and S. cerevisiae S1 repeat 8 (sc8). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=33.00 E-value=1e+02 Score=24.37 Aligned_cols=52 Identities=12% Similarity=0.102 Sum_probs=31.4
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChH--HHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSD--QFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~--~~~~~~~~l~~gd~v~v~ 171 (580)
.|.|.|..+...| +|+.|-++ ++..+....+..+ ......+.+..||.|.+.
T Consensus 3 iV~g~V~~i~~~g--i~v~l~~~---i~g~i~~~~i~~~~~~~~~~~~~~~~Gd~i~~k 56 (70)
T cd05702 3 LVKAKVKSVKPTQ--LNVQLADN---VHGRIHVSEVFDEWPDGKNPLSKFKIGQKIKAR 56 (70)
T ss_pred EEEEEEEEEECCc--EEEEeCCC---cEEEEEHHHhccccccccChhHhCCCCCEEEEE
Confidence 4789999998876 78888533 5555554433211 011112235889998875
No 276
>PRK09521 exosome complex RNA-binding protein Csl4; Provisional
Probab=32.30 E-value=1.3e+02 Score=29.17 Aligned_cols=90 Identities=19% Similarity=0.201 Sum_probs=49.8
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCC-------eeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEe
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDS-------GTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVN 187 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~s-------g~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~ 187 (580)
.|.|.|.++...| .|++|-+.. ..+..++....+.....+.+...+..||+|.+. |.... +.+.|...
T Consensus 67 iV~GkV~~i~~~g--~~V~I~~~~~~~~~l~~~~~G~l~~s~i~~~~~~~~~~~~~~GD~V~ak--V~~i~-~~i~LS~k 141 (189)
T PRK09521 67 IVYGRVVDVKEQR--ALVRIVSIEGSERELATSKLAYIHISQVSDGYVESLTDAFKIGDIVRAK--VISYT-DPLQLSTK 141 (189)
T ss_pred EEEEEEEEEcCCe--EEEEEEEecccccccCCCceeeEEhhHcChhhhhhHHhccCCCCEEEEE--EEecC-CcEEEEEe
Confidence 5789999998765 788885421 135566655544332233344557999999886 22222 44444443
Q ss_pred --EE-EEcccc---CCC-CCCCCCCCCCh
Q 008040 188 --SF-VILTKS---LLP-LPDKYHGLTDV 209 (580)
Q Consensus 188 --~i-~vls~a---~~p-lP~~~~~l~d~ 209 (580)
++ .|.+.| -.| .|..|..+..+
T Consensus 142 ~~~lGvv~a~~~~~g~~~~~~~~~~~~c~ 170 (189)
T PRK09521 142 GKDLGVIYAMCSRCRTPLVKKGENELKCP 170 (189)
T ss_pred cCCceEEEEEccccCCceEECCCCEEECC
Confidence 34 333433 344 35566554433
No 277
>PF02721 DUF223: Domain of unknown function DUF223; InterPro: IPR003871 The function of this domain has not been characterised, but may be involved in nucleic acid or nucleotide binding.
Probab=31.87 E-value=1.4e+02 Score=25.44 Aligned_cols=60 Identities=22% Similarity=0.210 Sum_probs=39.8
Q ss_pred EEEeeCCe-eEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCc-------eeEEEEeEEEEccccC
Q 008040 132 LTLRDDSG-TIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKG-------ELSVLVNSFVILTKSL 196 (580)
Q Consensus 132 ~~LrD~sg-~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~g-------e~el~~~~i~vls~a~ 196 (580)
+.|.|..| .||+.+.+.. .+.+...|..|++..++-..+....| ...|....-+.+.++.
T Consensus 2 mvL~De~G~~I~A~I~~~~-----~~~f~~~l~Eg~~y~i~~F~V~~~~~~yr~t~h~y~I~f~~~T~V~~~~ 69 (95)
T PF02721_consen 2 MVLVDEKGDKIQATIPKEL-----VDKFKDSLKEGSWYTISNFTVSPNSGSYRPTDHKYKINFMPNTKVTEID 69 (95)
T ss_pred EEEEecCCCEEEEEECHHH-----HHHHHhhcccCCEEEeEeEEEEeCCCceeccCCCEEEEECCcCeEEECC
Confidence 46888888 8999997653 33444567899999998766554433 3455555555555553
No 278
>PF03843 Slp: Outer membrane lipoprotein Slp family; InterPro: IPR004658 Slp superfamily members are present in the Gram-negative gamma proteobacteria Escherichia coli (which also contains a close paralog), Haemophilus influenzae and Pasteurella multocida and Vibrio cholerae. The known members of the family to date share a motif LX[GA]C near the N terminus, which is compatible with the possibility that the protein is modified into a lipoprotein with Cys as the new N terminus. Slp from E. coli is known to be a lipoprotein of the outer membrane and to be expressed in response to carbon starvation.; GO: 0019867 outer membrane
Probab=31.64 E-value=1.8e+02 Score=27.60 Aligned_cols=76 Identities=20% Similarity=0.209 Sum_probs=48.6
Q ss_pred CCCEEEEEEEEEeEecCCCeEEEEEee----CCe----------eEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEE
Q 008040 110 ENDHVSVAGRVVARRAFGKLAFLTLRD----DSG----------TIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMK 175 (580)
Q Consensus 110 ~~~~V~v~GrV~~~R~~gk~~F~~LrD----~sg----------~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~ 175 (580)
.|+.|+.-|.|.++++..+-+.|.|.. .+| +.=+.++ .-+++.. ...|-.|+|.|++.
T Consensus 33 ~G~~VrwGG~I~~v~n~~~~T~leV~~~PLd~~grP~~~~~s~GRFla~~~-gFLDP~~-------y~~Gr~vTV~G~v~ 104 (160)
T PF03843_consen 33 QGQQVRWGGVIVNVRNLPDQTELEVVQYPLDSSGRPQTDDPSQGRFLARVP-GFLDPAI-------YAPGRLVTVVGTVT 104 (160)
T ss_pred CCCEEEECCEEEEEEECCCceEEEEEEccCCCCCCcCCCCCCCCEEEEEeC-CCcCHHH-------cCCCCEEEEEEEec
Confidence 368999999999999988877777743 233 2222221 1122221 36799999999998
Q ss_pred ecCCc---e-----eEEEEeEEEEcc
Q 008040 176 RTEKG---E-----LSVLVNSFVILT 193 (580)
Q Consensus 176 ~t~~g---e-----~el~~~~i~vls 193 (580)
.+.+| + .-|.++.+.+=-
T Consensus 105 g~~~~~ige~~Y~yPvv~~~~~~lW~ 130 (160)
T PF03843_consen 105 GMETGKIGEYPYRYPVVDASGIHLWP 130 (160)
T ss_pred ceEEeeeCCCcceeeEEEeeEEEECC
Confidence 77654 3 235556655543
No 279
>PRK06341 single-stranded DNA-binding protein; Provisional
Probab=31.39 E-value=4.8e+02 Score=25.04 Aligned_cols=80 Identities=19% Similarity=0.308 Sum_probs=46.2
Q ss_pred CEEEEEEEEEe---EecC--CC-eEEEEE-ee-----C-Ce-------eEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 112 DHVSVAGRVVA---RRAF--GK-LAFLTL-RD-----D-SG-------TIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 112 ~~V~v~GrV~~---~R~~--gk-~~F~~L-rD-----~-sg-------~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
..|+|.|||.+ +|.. |+ ++-+.| .+ . ++ -+.|++-.+. .-+.+.+.|..|+.|.|+
T Consensus 6 N~V~LiGrLg~DPElR~t~sG~~v~~fsVAvn~~~kd~~~Ge~~e~T~w~~Vv~fg~~----~Ae~~~~~LkKG~~V~Ve 81 (166)
T PRK06341 6 NKVILIGNLGADPEIRRTQDGRPIANLRIATSETWRDRNSGERKEKTEWHRVVIFNEG----LCKVAEQYLKKGAKVYIE 81 (166)
T ss_pred eEEEEEEEecCCCEEEEcCCCCEEEEEEEEEccceecCCCCcccccceEEEEEEeChH----HHHHHHHhcCCCCEEEEE
Confidence 46899999988 5643 32 333333 22 1 12 2445544321 112233457999999999
Q ss_pred eEEEec----CCc----eeEEEEeE----EEEcccc
Q 008040 172 GSMKRT----EKG----ELSVLVNS----FVILTKS 195 (580)
Q Consensus 172 G~v~~t----~~g----e~el~~~~----i~vls~a 195 (580)
|.+... +.| .+||.|.+ +++|++.
T Consensus 82 GrL~~r~w~dkdG~~r~~~eIiv~~~~~~l~~l~~~ 117 (166)
T PRK06341 82 GQLQTRKWTDQSGVERYSTEVVLQGFNSTLTMLDGR 117 (166)
T ss_pred EEEEeCcEECCCCCEEEEEEEEEEecccceEEcccC
Confidence 999743 334 37777765 4677644
No 280
>TIGR00388 glyQ glycyl-tRNA synthetase, tetrameric type, alpha subunit. This tetrameric form of glycyl-tRNA synthetase (2 alpha, 2 beta) is found in the majority of completed eubacterial genomes, with the two genes fused in a few species. A substantially different homodimeric form (not recognized by this model) replaces this form in the Archaea, animals, yeasts, and some eubacteria.
Probab=31.23 E-value=31 Score=35.41 Aligned_cols=29 Identities=21% Similarity=0.386 Sum_probs=25.0
Q ss_pred CCccceeccHHHHHHHHcCCCCccccccC
Q 008040 545 PPASGMGLGIDRLVMLLTNSASIRDVIAF 573 (580)
Q Consensus 545 PP~gG~GiGiDRLvMlltg~~sIrdvi~F 573 (580)
|..+=+--|+|||.|+|-|.+||-|+..-
T Consensus 152 pv~~EITYGLERiaMylQ~vd~v~dl~w~ 180 (293)
T TIGR00388 152 PVSVEITYGLERLAMYIQGVENVYDLEWS 180 (293)
T ss_pred ccceeeehhHHHHHHHHhCCCeeeeeeec
Confidence 56677889999999999999999987654
No 281
>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=30.00 E-value=48 Score=33.67 Aligned_cols=26 Identities=31% Similarity=0.671 Sum_probs=19.3
Q ss_pred HHHHHHhcC-CCCccceeccHHHHHHHH
Q 008040 535 DFVTALEYG-MPPASGMGLGIDRLVMLL 561 (580)
Q Consensus 535 ~yl~al~yG-~PP~gG~GiGiDRLvMll 561 (580)
..++.+ .| -.|..||+||+|||+.++
T Consensus 234 ~L~~~f-~~~~~~avGfa~~~d~l~~~~ 260 (261)
T cd00773 234 GLLEEF-GGEDVPAVGFAIGLERLLLAL 260 (261)
T ss_pred HHHHHh-CCCCCCeEEEEEcHHHHHHhh
Confidence 455554 34 348999999999999765
No 282
>PRK07400 30S ribosomal protein S1; Reviewed
Probab=29.55 E-value=1.9e+02 Score=30.56 Aligned_cols=66 Identities=17% Similarity=0.291 Sum_probs=38.5
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLV 186 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~ 186 (580)
.+.|+|..+...| +|+++.. +..++....++.+........++.||.|.|.=.=....+|.+.|..
T Consensus 199 vv~G~V~~I~~~G--~fV~i~g----v~Gllhisels~~~~~~~~~~~~vGd~VkvkVl~iD~e~~rI~LS~ 264 (318)
T PRK07400 199 VVVGTVRGIKPYG--AFIDIGG----VSGLLHISEISHEHIETPHSVFNVNDEMKVMIIDLDAERGRISLST 264 (318)
T ss_pred EEEEEEEEEECCe--EEEEECC----EEEEEEHHHcccccccChhhccCCCCEEEEEEEEEeCCCCEEEEEE
Confidence 5899999999888 7988832 4555554433322222233456899999885211122345554443
No 283
>cd05689 S1_RPS1_repeat_ec4 S1_RPS1_repeat_ec4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 4 (ec4) of the Escherichia coli RPS1. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=29.27 E-value=1.7e+02 Score=23.00 Aligned_cols=51 Identities=18% Similarity=0.321 Sum_probs=30.9
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChH--HHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSD--QFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~--~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|+|..+...| +|+.|-++ +..++....+... ..+ ..+.+..||.|.|.
T Consensus 6 ~~~g~V~~i~~~G--~fv~l~~~---~~Gl~~~~~l~~~~~~~~-~~~~~~~Gd~v~v~ 58 (72)
T cd05689 6 RLFGKVTNLTDYG--CFVELEEG---VEGLVHVSEMDWTNKNIH-PSKVVSLGDEVEVM 58 (72)
T ss_pred EEEEEEEEEEeeE--EEEEcCCC---CEEEEEEEeccCcccccC-cccEeCCCCEEEEE
Confidence 5899999999998 89999653 3344433322110 011 11335778888775
No 284
>PRK08182 single-stranded DNA-binding protein; Provisional
Probab=29.19 E-value=1.1e+02 Score=28.78 Aligned_cols=37 Identities=22% Similarity=0.215 Sum_probs=28.5
Q ss_pred hcccCCCcEEEEEeEEEec----CCc----eeEEEEeEEEEcccc
Q 008040 159 KVFVDIGDILGVSGSMKRT----EKG----ELSVLVNSFVILTKS 195 (580)
Q Consensus 159 ~~~l~~gd~v~v~G~v~~t----~~g----e~el~~~~i~vls~a 195 (580)
.+.|..||-|.|+|.+... +.| .++|.|++|.+|..-
T Consensus 69 ~~~l~KG~~V~V~GrL~~~~w~dkdG~~r~~~eI~a~~i~~l~~r 113 (148)
T PRK08182 69 ARLYQKGMRVLVEGRMERDEWTDNEDNERVTFKVEARRVGILPYR 113 (148)
T ss_pred HHhcCCCCEEEEEEEEEecccCCCCCCEEEEEEEEEeEEEEcCCc
Confidence 3457999999999999854 234 488999999988643
No 285
>cd05696 S1_Rrp5_repeat_hs4 S1_Rrp5_repeat_hs4: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 4 (hs4). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=29.09 E-value=3e+02 Score=21.93 Aligned_cols=49 Identities=16% Similarity=0.169 Sum_probs=31.2
Q ss_pred EEEEeE-ecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 118 GRVVAR-RAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 118 GrV~~~-R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
|.|..+ -+.| +|+.|-++ +...+....+..+..+...+.+..||.|.+.
T Consensus 7 g~V~~v~~~~G--~~V~l~~g---v~G~i~~s~l~~~~~~~~~~~~~vG~~v~~k 56 (71)
T cd05696 7 VKVTKVEPDLG--AVFELKDG---LLGFVHISHLSDDKVPSDTGPFKAGTTHKAR 56 (71)
T ss_pred eEEEEEccCce--EEEEeCCC---CEEEEEHHHCCcchhcCcccccCCCCEEEEE
Confidence 788887 5666 89999774 5666655444322222233446889988876
No 286
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=28.88 E-value=1.7e+02 Score=36.46 Aligned_cols=72 Identities=29% Similarity=0.546 Sum_probs=50.3
Q ss_pred EEEEEEEEEeEecC-----CC-eEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCcee-EEE
Q 008040 113 HVSVAGRVVARRAF-----GK-LAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGEL-SVL 185 (580)
Q Consensus 113 ~V~v~GrV~~~R~~-----gk-~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~-el~ 185 (580)
.++++|-|..+|.. |+ ++|+.|.|.+|.+-+++-.+ .|......+-.+..+.|.|.+.....+.. -+.
T Consensus 978 ~~~~~~~i~~vr~~~tk~~G~~~~f~tl~D~~g~~e~v~f~~-----~~~~~~~~l~~~~~~~v~g~v~~~~~~~~~~~~ 1052 (1139)
T COG0587 978 RVVLAGGIVAVRQRPTKAKGNKMAFLTLEDETGILEVVVFPS-----EYERYRRLLLEGRLLIVKGKVQRREDGVGHALI 1052 (1139)
T ss_pred eeEEEEEEEEEEEeeccCCCCEEEEEEEecCCCcEEEEEcHH-----HHHHHHHHhccCcEEEEEEEEEecccccchhhh
Confidence 47788888887642 42 99999999999888888754 34444444566799999999988544332 344
Q ss_pred EeEE
Q 008040 186 VNSF 189 (580)
Q Consensus 186 ~~~i 189 (580)
+.++
T Consensus 1053 ~~~~ 1056 (1139)
T COG0587 1053 LEDL 1056 (1139)
T ss_pred HHHh
Confidence 4443
No 287
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=28.13 E-value=53 Score=36.20 Aligned_cols=19 Identities=32% Similarity=0.831 Sum_probs=16.1
Q ss_pred CCccceeccHHHHHHHHcC
Q 008040 545 PPASGMGLGIDRLVMLLTN 563 (580)
Q Consensus 545 PP~gG~GiGiDRLvMlltg 563 (580)
-|..||++|+|||+++|..
T Consensus 299 ~PavGfa~g~erl~~~l~~ 317 (430)
T CHL00201 299 TPAVGCAIGLERLLLIAKD 317 (430)
T ss_pred CCeeEEEecHHHHHHHHhc
Confidence 3777999999999998854
No 288
>PRK06763 F0F1 ATP synthase subunit alpha; Validated
Probab=27.77 E-value=92 Score=30.74 Aligned_cols=65 Identities=18% Similarity=0.287 Sum_probs=45.0
Q ss_pred EEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeEEEEc
Q 008040 113 HVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNSFVIL 192 (580)
Q Consensus 113 ~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~i~vl 192 (580)
..+|-|||.-+- .+..++.-...+..+|++++... . +++||.|.|+|.+.+.-+ ....|++++-+
T Consensus 39 ~~tiEGrVvEV~--~~~i~iesk~yn~~v~i~~d~~~----------n-vKVGD~VKaTG~m~rnf~--~ym~A~sVEk~ 103 (213)
T PRK06763 39 FSTIEGRVVEVD--NGVIVIKSKQYEEPVSVYIDSLS----------N-VKVGDEVKATGSMMRNFT--EYMVATAVENT 103 (213)
T ss_pred cceeeeEEEEEe--CCEEEEEeccCCCceEEEecCCC----------C-cccCcEEEEchHHHHhhH--Hhhhhhhheee
Confidence 358999999887 34567777777779999976542 2 589999999998765332 13444444444
No 289
>PF00575 S1: S1 RNA binding domain; InterPro: IPR003029 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S1 domain was originally identified in ribosomal protein S1 but is found in a large number of RNA-associated proteins. The structure of the S1 RNA-binding domain from the Escherichia coli polynucleotide phosphorylase has been determined using NMR methods and consists of a five-stranded antiparallel beta barrel. Conserved residues on one face of the barrel and adjacent loops form the putative RNA-binding site []. The structure of the S1 domain is very similar to that of cold shock proteins. This suggests that they may both be derived from an ancient nucleic acid-binding protein []. More information about these proteins can be found at Protein of the Month: RNA Exosomes []. This entry does not include translation initiation factor IF-1 S1 domains.; GO: 0003723 RNA binding; PDB: 3L7Z_F 2JE6_I 2JEA_I 2JEB_I 1E3P_A 2Y0S_E 1WI5_A 2BH8_A 2CQO_A 2EQS_A ....
Probab=27.51 E-value=1.7e+02 Score=23.06 Aligned_cols=64 Identities=27% Similarity=0.394 Sum_probs=37.1
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELS 183 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~e 183 (580)
.+.|+|.++...| +|++|- +.+..++....+...........+..|+.|.|.=.=....++.+.
T Consensus 7 iv~g~V~~v~~~g--~~V~l~---~~~~g~ip~~~l~~~~~~~~~~~~~~G~~v~v~v~~vd~~~~~i~ 70 (74)
T PF00575_consen 7 IVEGKVTSVEDFG--VFVDLG---NGIEGFIPISELSDDRIDDPSEVYKIGQTVRVKVIKVDKEKGRIR 70 (74)
T ss_dssp EEEEEEEEEETTE--EEEEES---TSSEEEEEGGGSSSSEESSSHGTCETTCEEEEEEEEEETTTTEEE
T ss_pred EEEEEEEEEECCE--EEEEEC---CcEEEEEEeehhcCccccccccccCCCCEEEEEEEEEECCCCeEE
Confidence 5799999999866 899987 334455555544321001122346889998776322233344443
No 290
>PF00970 FAD_binding_6: Oxidoreductase FAD-binding domain; InterPro: IPR008333 These sequences contain an oxidoreductase FAD-binding domain. To date, the 3D-structures of the flavoprotein domain of Zea mays (Maize) nitrate reductase [] and of pig NADH:cytochrome b5 reductase [] have been solved. The overall fold is similar to that of ferredoxin:NADP+ reductase []: the FAD-binding domain (N-terminal) has the topology of an anti-parallel beta-barrel, while the NAD(P)-binding domain (C-terminal) has the topology of a classical pyridine dinucleotide-binding fold (i.e. a central parallel beta-sheet flanked by 2 helices on each side).; PDB: 1JB9_A 3LVB_A 3LO8_A 1FRN_A 1FND_A 1BX1_A 1FNC_A 1FNB_A 1BX0_A 1FRQ_A ....
Probab=27.44 E-value=97 Score=26.00 Aligned_cols=60 Identities=18% Similarity=0.194 Sum_probs=35.7
Q ss_pred CCCEEEEEEEEEeE---ecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEE
Q 008040 110 ENDHVSVAGRVVAR---RAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSM 174 (580)
Q Consensus 110 ~~~~V~v~GrV~~~---R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v 174 (580)
.|+-|.|...+... |. .+.+..-+..|.+++.+.....+. .-..+.+ +..||.|.|+|-.
T Consensus 32 pGQ~v~v~~~~~~~~~~R~---yS~~s~~~~~~~~~~~ik~~~~G~-~S~~L~~-l~~Gd~v~i~gP~ 94 (99)
T PF00970_consen 32 PGQFVSVRVPINGKQVSRP---YSPASSPDDKGYLEFAIKRYPNGR-VSRYLHQ-LKPGDEVEIRGPY 94 (99)
T ss_dssp TT-EEEEEEEETTEEEEEE---EEBCSSTTSSSEEEEEEEECTTSH-HHHHHHT-SCTTSEEEEEEEE
T ss_pred cceEEEEEEccCCcceecc---eeEeeecCCCCcEEEEEEeccCCH-HHHHHHh-CCCCCEEEEEEcc
Confidence 36788888774322 31 122223334568999998764331 2334555 6999999999854
No 291
>TIGR00443 hisZ_biosyn_reg ATP phosphoribosyltransferase, regulatory subunit. Apparant second copies of histidyl-tRNA synthetase, found in Bacillus subtilis, Synechocystis sp., Aquifex aeolicus, and others, are in fact a regulatory subunit of ATP phosphoribosyltransferase, and usually encoded by a gene adjacent to that encoding the catalytic subunit.
Probab=27.34 E-value=56 Score=34.29 Aligned_cols=26 Identities=35% Similarity=0.668 Sum_probs=19.9
Q ss_pred HHHHHHhcC-CCCccceeccHHHHHHHHc
Q 008040 535 DFVTALEYG-MPPASGMGLGIDRLVMLLT 562 (580)
Q Consensus 535 ~yl~al~yG-~PP~gG~GiGiDRLvMllt 562 (580)
..++.+ | -.|..||++|+|||+.++.
T Consensus 287 ~L~~~f--g~~~~AvGfa~~~d~l~~~l~ 313 (314)
T TIGR00443 287 NLLGRF--GRPLPATGFALNLERLLEALT 313 (314)
T ss_pred HHHHHc--CCCCCCceEEecHHHHHHHhc
Confidence 455555 5 3489999999999998764
No 292
>PRK07899 rpsA 30S ribosomal protein S1; Reviewed
Probab=27.34 E-value=1.9e+02 Score=32.58 Aligned_cols=69 Identities=22% Similarity=0.293 Sum_probs=42.3
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNS 188 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~ 188 (580)
.+.|+|.++...| +|+.|.++ +..++....+..+.+......+..||.|.|.=.=....++.+.+....
T Consensus 296 vv~G~V~~I~~fG--vFVeL~~g---ieGLvh~SeLs~~~v~~~~~~~kvGd~V~VkIi~ID~e~rrI~LSlK~ 364 (486)
T PRK07899 296 IVPGKVTKLVPFG--AFVRVEEG---IEGLVHISELAERHVEVPEQVVQVGDEVFVKVIDIDLERRRISLSLKQ 364 (486)
T ss_pred EEEEEEEEEeccE--EEEEeCCC---cEEEEEHHHcCcccccCccceeCCCCEEEEEEEEEECCCCEEEEEEEE
Confidence 5899999999988 79998653 555555443332223333344689999988622222345566655544
No 293
>PRK12292 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=27.22 E-value=50 Score=35.87 Aligned_cols=24 Identities=42% Similarity=0.805 Sum_probs=18.7
Q ss_pred HHHHHHhcC-CCCccceeccHHHHHHH
Q 008040 535 DFVTALEYG-MPPASGMGLGIDRLVML 560 (580)
Q Consensus 535 ~yl~al~yG-~PP~gG~GiGiDRLvMl 560 (580)
..++.+ | -.|..||+||+|||+.+
T Consensus 295 ~L~~~f--g~~~pAvGfai~ldrl~~~ 319 (391)
T PRK12292 295 DLLGRF--GRARPATGFSLDLDRLLEL 319 (391)
T ss_pred hHHHHc--CCCCCCceEEeeHHHHHhh
Confidence 556655 5 34889999999999984
No 294
>PRK06253 O-phosphoseryl-tRNA synthetase; Reviewed
Probab=26.80 E-value=59 Score=36.72 Aligned_cols=29 Identities=38% Similarity=0.928 Sum_probs=24.0
Q ss_pred cCCC-CccceeccHHHHHHHHcCCCCcccc
Q 008040 542 YGMP-PASGMGLGIDRLVMLLTNSASIRDV 570 (580)
Q Consensus 542 yG~P-P~gG~GiGiDRLvMlltg~~sIrdv 570 (580)
||++ |...|+|++|||.|...+.++||+.
T Consensus 312 fDI~~pV~aFELDLErL~~i~~~~~dir~~ 341 (529)
T PRK06253 312 YGIDVPVMNLGLGVERLAMILYGAEDVREM 341 (529)
T ss_pred cCCCCceEEEEEeHHHHHhhhcCccccccc
Confidence 4544 5678999999999999888888884
No 295
>PRK07899 rpsA 30S ribosomal protein S1; Reviewed
Probab=26.45 E-value=2.4e+02 Score=31.83 Aligned_cols=51 Identities=25% Similarity=0.359 Sum_probs=34.9
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|.|.++...| +|++|- | +..++..+.++....+...+.+..|+.|.|.
T Consensus 211 iv~G~V~~i~~~G--~FVdlg---g-v~Glv~~Sels~~~v~~~~~~~kvGd~V~vk 261 (486)
T PRK07899 211 VRKGVVSSIVNFG--AFVDLG---G-VDGLVHVSELSWKHIDHPSEVVEVGQEVTVE 261 (486)
T ss_pred EEEEEEEEEECCe--EEEEEC---C-EEEEEEHHHCCCcccCCHHHhcCCCCEEEEE
Confidence 5789999999988 899992 3 7777766554322222233446899999775
No 296
>cd05693 S1_Rrp5_repeat_hs1_sc1 S1_Rrp5_repeat_hs1_sc1: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 1 (hs1) and S. cerevisiae S1 repeat 1 (sc1). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=25.63 E-value=1.7e+02 Score=25.29 Aligned_cols=51 Identities=14% Similarity=0.313 Sum_probs=32.7
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHH--------------------hhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFD--------------------QLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~--------------------~~~~~l~~gd~v~v~ 171 (580)
.|.|+|..+...| +|+.|-++ +..++.-..+.. .|. .+...+.+||+|.+.
T Consensus 6 vV~G~V~~v~~~g--l~v~L~~g---~~G~v~~seis~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~vGd~V~~k 76 (100)
T cd05693 6 LVLGQVKEITKLD--LVISLPNG---LTGYVPITNISD-AYTERLEELDEESEEEDDEEELPDLEDLFSVGQLVRCK 76 (100)
T ss_pred EEEEEEEEEcCCC--EEEECCCC---cEEEEEHHHhhH-HHHHHHHHhhhhccccccccccCCHHHhccCCCEEEEE
Confidence 6899999998887 88888543 455554443321 221 133446899998875
No 297
>PRK12421 ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=25.42 E-value=37 Score=37.00 Aligned_cols=20 Identities=25% Similarity=0.458 Sum_probs=16.8
Q ss_pred CCCccceeccHHHHHHHHcC
Q 008040 544 MPPASGMGLGIDRLVMLLTN 563 (580)
Q Consensus 544 ~PP~gG~GiGiDRLvMlltg 563 (580)
-.|..||++|+|||+.++.+
T Consensus 310 ~~pAvGfai~lerL~~~l~~ 329 (392)
T PRK12421 310 ARPATGFSMDLKELLALQFL 329 (392)
T ss_pred CCCCceEEeeHHHHHhhccc
Confidence 35889999999999987744
No 298
>TIGR03683 A-tRNA_syn_arch alanyl-tRNA synthetase. This family of alanyl-tRNA synthetases is limited to the archaea, and is a subset of those sequences identified by the model pfam07973 covering the second additional domain (SAD) of alanyl and threonyl tRNA synthetases.
Probab=24.77 E-value=30 Score=41.90 Aligned_cols=76 Identities=18% Similarity=0.270 Sum_probs=52.2
Q ss_pred HHHHHHHHHHHhCCCeeecCceeeccCCCCCCCceeeccCCCCeeEEEEecHHHHHHHHHhccC-----CceeEEecccc
Q 008040 235 KIVSEIRKTVESLGFVEVETPVLQGAAGGAEARPFVTYHNSLGRDLYLRIATELHLKRMLIGGF-----EKIYEIGRIFR 309 (580)
Q Consensus 235 ~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g~-----~rVfeIg~~FR 309 (580)
.|-+.+-+||.++|-.-|..= |.+ +.. +.+++|..|.-.-.|-.+.+|. .|+-..-||.|
T Consensus 60 eiR~~fl~FF~~~gH~~v~s~------------pvv-prw--~dDllft~Agm~~Fkp~f~~G~~~pp~~r~~~sQkCiR 124 (902)
T TIGR03683 60 EMREAFLSFFEKHGHTRIKRY------------PVV-ARW--RDDVYLTIASIADFQPWVTSGLVPPPANPLVISQPCIR 124 (902)
T ss_pred HHHHHHHHHHHhCCCEEeCCc------------CcC-cCC--CCCeeEeecchhhhhHhhcCCCCCCCCCCceecccccc
Confidence 445566789999996665531 221 110 2238888888777777766453 68888999999
Q ss_pred cCCCC-----CCCCccceeee
Q 008040 310 NEGLS-----TRHNPEFTTIE 325 (580)
Q Consensus 310 ~E~~~-----~rH~pEFtmlE 325 (580)
..+++ .||+.=|.||=
T Consensus 125 ~nDldnVG~t~rH~TfFEMlG 145 (902)
T TIGR03683 125 LNDIDNVGRTGRHLTCFEMMA 145 (902)
T ss_pred ccccccccCCCCcchhhhhcc
Confidence 97754 49999999984
No 299
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=23.80 E-value=2.5e+02 Score=27.23 Aligned_cols=37 Identities=19% Similarity=0.402 Sum_probs=27.7
Q ss_pred hcccCCCcEEEEEeEEEecC----Cc----eeEEEEe---EEEEcccc
Q 008040 159 KVFVDIGDILGVSGSMKRTE----KG----ELSVLVN---SFVILTKS 195 (580)
Q Consensus 159 ~~~l~~gd~v~v~G~v~~t~----~g----e~el~~~---~i~vls~a 195 (580)
.+.|..||.|.|+|.+.... .| .++|.|. ++++|++.
T Consensus 69 ~~~L~KGs~V~VeGrL~~~~yedkdG~~r~~~eVvv~~~~~~~~l~~r 116 (177)
T PRK09010 69 GEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGR 116 (177)
T ss_pred HHhcCCCCEEEEEEEEEeccccCCCCCEEEEEEEEEecCCcEEEccCC
Confidence 34579999999999998542 34 3777776 78888754
No 300
>TIGR00418 thrS threonyl-tRNA synthetase. This model represents the threonyl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. Note that B. subtilis has closely related isozymes thrS and thrZ. The N-terminal regions are quite dissimilar between archaeal and eubacterial forms, while some eukaryotic forms are missing sequence there altogether..
Probab=23.71 E-value=39 Score=38.51 Aligned_cols=17 Identities=18% Similarity=0.311 Sum_probs=14.8
Q ss_pred ccceeccHHHHHHHHcC
Q 008040 547 ASGMGLGIDRLVMLLTN 563 (580)
Q Consensus 547 ~gG~GiGiDRLvMlltg 563 (580)
|.||++|+|||+++|..
T Consensus 442 ~~Gfa~gieRli~~l~e 458 (563)
T TIGR00418 442 HRAILGSIERFIAILLE 458 (563)
T ss_pred EeeccCcHHHHHHHHHH
Confidence 46999999999998854
No 301
>cd05704 S1_Rrp5_repeat_hs13 S1_Rrp5_repeat_hs13: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 13 (hs13). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=22.98 E-value=1.2e+02 Score=24.30 Aligned_cols=51 Identities=16% Similarity=0.087 Sum_probs=28.7
Q ss_pred EEEEEEEeEec-CCCeEEEEEeeC-CeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRA-FGKLAFLTLRDD-SGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~-~gk~~F~~LrD~-sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|.|..++. .| +|+.|-.+ +|.+-+ .....+-.+.....+..||.|.+.
T Consensus 6 iv~G~V~~i~~~~g--~~v~l~~~~~Glvhi----s~~s~~~~~~~~~~~~~Gd~v~~k 58 (72)
T cd05704 6 VTLGMVTKVIPHSG--LTVQLPFGKTGLVSI----FHLSDSYTENPLEGFKPGKIVRCC 58 (72)
T ss_pred EEEEEEEEeeCCcE--EEEECCCCCEEEEEH----HHhcCcccCCHHHhCCCCCEEEEE
Confidence 46999999986 56 68888554 233322 111111111122335889998875
No 302
>PRK05733 single-stranded DNA-binding protein; Provisional
Probab=22.70 E-value=1.8e+02 Score=28.11 Aligned_cols=78 Identities=17% Similarity=0.296 Sum_probs=47.3
Q ss_pred CEEEEEEEEEeE---ecC--CC-eEEEEEe-eC------Ce-------eEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 112 DHVSVAGRVVAR---RAF--GK-LAFLTLR-DD------SG-------TIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 112 ~~V~v~GrV~~~---R~~--gk-~~F~~Lr-D~------sg-------~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
..|+|.|||.+- |.. |+ ++-+.|- +. .| -+-|++-.+. -+.+.+.|..|+.|.|+
T Consensus 6 NkV~LiGrlg~DPElr~t~nG~~va~fsVAv~~~~k~~~~Ge~~e~T~w~~Vv~fgk~-----Ae~v~~~l~KGs~V~Ve 80 (172)
T PRK05733 6 NKVILVGTCGQDPEVRYLPNGNAVTNLSLATSEQWTDKQSGQKVERTEWHRVSLFGKV-----AEIAGEYLRKGSQVYIE 80 (172)
T ss_pred eEEEEEEEecCCCEEEECCCCCEEEEEEEEEcCccccCCCCcccccceEEEEEEehHH-----HHHHHHHhCCCCEEEEE
Confidence 368899998763 432 43 4433332 11 11 2455554331 12234557999999999
Q ss_pred eEEEec---CCc----eeEEEEe---EEEEccc
Q 008040 172 GSMKRT---EKG----ELSVLVN---SFVILTK 194 (580)
Q Consensus 172 G~v~~t---~~g----e~el~~~---~i~vls~ 194 (580)
|.+... +.| .+||.|+ .+.+|+.
T Consensus 81 GrLr~~~y~kdG~~r~~~eVvvd~~g~v~~L~~ 113 (172)
T PRK05733 81 GKLQTREWEKDGIKRYTTEIVVDMQGTMQLLGG 113 (172)
T ss_pred EEEEeCcEecCCEEEEEEEEEEeecCeEEECcC
Confidence 999854 334 4788888 8999863
No 303
>PRK13902 alaS alanyl-tRNA synthetase; Provisional
Probab=22.20 E-value=36 Score=41.15 Aligned_cols=76 Identities=20% Similarity=0.305 Sum_probs=52.5
Q ss_pred HHHHHHHHHHHhCCCeeecCceeeccCCCCCCCceeeccCCCCeeEEEEecHHHHHHHHHhccC-----CceeEEecccc
Q 008040 235 KIVSEIRKTVESLGFVEVETPVLQGAAGGAEARPFVTYHNSLGRDLYLRIATELHLKRMLIGGF-----EKIYEIGRIFR 309 (580)
Q Consensus 235 ~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g~-----~rVfeIg~~FR 309 (580)
+|-+.+-+||.++|-.-|..= |.+ +.. +.++||..|.-.-.|-.+.+|. .|+-..-||.|
T Consensus 63 eiR~~Fl~FF~~~gH~~v~s~------------pvv-prw--~dDllft~Agm~~Fkp~f~~G~~~pp~~~~~~sQ~CiR 127 (900)
T PRK13902 63 EMREKFLSFFEKHGHTRIERY------------PVV-ARW--RDDVYLTIASIYDFQPWVTSGLVPPPANPLVISQPCIR 127 (900)
T ss_pred HHHHHHHHHHHhCCCEEcCCc------------CcC-CCC--CCCeeeeecchhhhhHHhcCCCCCCCCCCceecccccc
Confidence 344556789999996666531 221 110 2238888888777777766453 68899999999
Q ss_pred cCCCC-----CCCCccceeee
Q 008040 310 NEGLS-----TRHNPEFTTIE 325 (580)
Q Consensus 310 ~E~~~-----~rH~pEFtmlE 325 (580)
..+++ .||+.=|.||=
T Consensus 128 ~nDldnVG~t~rH~T~FEMlG 148 (900)
T PRK13902 128 LNDIDNVGRTGRHLTSFEMMA 148 (900)
T ss_pred hhhhhhccccCCchhhhhhcc
Confidence 97754 49999999974
No 304
>COG3689 Predicted membrane protein [Function unknown]
Probab=21.80 E-value=5.6e+02 Score=26.50 Aligned_cols=86 Identities=19% Similarity=0.168 Sum_probs=52.6
Q ss_pred CCCEEEEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccCh-HHHHhhhcccCCCcEEEEEeEEEecC-----CceeE
Q 008040 110 ENDHVSVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLS-DQFDQLKVFVDIGDILGVSGSMKRTE-----KGELS 183 (580)
Q Consensus 110 ~~~~V~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~-~~~~~~~~~l~~gd~v~v~G~v~~t~-----~ge~e 183 (580)
.|+++.+.|.|.+=-..++--++..| -|.+=|+++....+- -..+.... ++..++|.|+|++.... .....
T Consensus 174 ~Gk~Ie~tGFVy~~~~~~~N~lflaR--FgiicC~ADa~vygl~v~~~~~~~-y~ndtWltvkGtl~~e~~~~~~~~ipv 250 (271)
T COG3689 174 AGKKIEFTGFVYNDESFPKNYLFLAR--FGIICCAADAGVYGLLVELDNQTD-YKNDTWLTVKGTLSSEYLSDFKKRIPV 250 (271)
T ss_pred cCceEEEEEEEECCCCCCcceeehhh--hheeeeeccceeEEEEEEcccccc-CCCCceEEEEeEEEeeecCchhhcCcE
Confidence 46899999999985555553333332 233444444332210 00001123 48899999999998643 33578
Q ss_pred EEEeEEEEccccCCC
Q 008040 184 VLVNSFVILTKSLLP 198 (580)
Q Consensus 184 l~~~~i~vls~a~~p 198 (580)
|+|++++.+-+...|
T Consensus 251 i~v~sv~~I~kP~nP 265 (271)
T COG3689 251 IEVDSVEVIPKPANP 265 (271)
T ss_pred EEeeeeeecCCCCCC
Confidence 999999999776544
No 305
>PRK07400 30S ribosomal protein S1; Reviewed
Probab=21.01 E-value=4e+02 Score=28.16 Aligned_cols=52 Identities=10% Similarity=0.164 Sum_probs=33.1
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.|.|+|.++-..| +|++| ++....++....+...........+..||.|.+.
T Consensus 34 iv~G~V~~i~~~g--~~Vdi---g~k~~g~lp~sEis~~~~~~~~~~~~~G~~v~~~ 85 (318)
T PRK07400 34 IVNGTVFSLEPRG--ALIDI---GAKTAAFMPIQEMSINRVEGPEEVLQPNETREFF 85 (318)
T ss_pred EEEEEEEEEECCE--EEEEE---CCCeEEEEEHHHhccccccCHHHccCCCCEEEEE
Confidence 5899999997666 88888 4456677766544311111223346889887664
No 306
>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=21.00 E-value=59 Score=32.87 Aligned_cols=20 Identities=35% Similarity=0.772 Sum_probs=17.2
Q ss_pred CC-CccceeccHHHHHHHHcC
Q 008040 544 MP-PASGMGLGIDRLVMLLTN 563 (580)
Q Consensus 544 ~P-P~gG~GiGiDRLvMlltg 563 (580)
+| ++-.-|+|+|||+++|-|
T Consensus 211 Lp~k~IDTGmGlERla~vlQg 231 (232)
T cd00673 211 LPKKIVDTGMGLERLVWVLQG 231 (232)
T ss_pred CCCCeeeCCcCHHHHHHHHcC
Confidence 44 788899999999999866
No 307
>PRK11824 polynucleotide phosphorylase/polyadenylase; Provisional
Probab=20.99 E-value=2.9e+02 Score=32.55 Aligned_cols=66 Identities=17% Similarity=0.298 Sum_probs=40.3
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLV 186 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~ 186 (580)
.+.|.|..+.++| +|++|-.+ +...+....+..+.++.....+..||.|.|.= +...+.|.+.+..
T Consensus 624 v~~G~V~~I~~fG--afVei~~~---~~GllhiSels~~~v~~~~~v~kvGD~V~VkV-~~iD~~grI~LS~ 689 (693)
T PRK11824 624 IYEGKVVRIVDFG--AFVEILPG---KDGLVHISEIADERVEKVEDVLKEGDEVKVKV-LEIDKRGRIRLSR 689 (693)
T ss_pred EEEEEEEEEECCe--EEEEECCC---CEEEEEeeeccCccccCccceeCCCCEEEEEE-EEECCCCcEEEEE
Confidence 6799999999998 89999653 34444333333222333344568999999872 1222236555544
No 308
>COG0752 GlyQ Glycyl-tRNA synthetase, alpha subunit [Translation, ribosomal structure and biogenesis]
Probab=20.87 E-value=62 Score=32.94 Aligned_cols=28 Identities=21% Similarity=0.446 Sum_probs=24.0
Q ss_pred CCccceeccHHHHHHHHcCCCCcccccc
Q 008040 545 PPASGMGLGIDRLVMLLTNSASIRDVIA 572 (580)
Q Consensus 545 PP~gG~GiGiDRLvMlltg~~sIrdvi~ 572 (580)
|-++-+--|+|||.|++-|.+||-|+..
T Consensus 156 pV~~EITYGlERlAmYiQ~vdnVydl~W 183 (298)
T COG0752 156 PVSGEITYGLERLAMYIQGVDNVYDLEW 183 (298)
T ss_pred ceeeeeehhHHHHHHHHhCccceeEEee
Confidence 4556688899999999999999999864
No 309
>KOG2851 consensus Eukaryotic-type DNA primase, catalytic (small) subunit [Replication, recombination and repair]
Probab=20.72 E-value=3.1e+02 Score=29.62 Aligned_cols=78 Identities=17% Similarity=0.383 Sum_probs=54.0
Q ss_pred CCeeEEEE---ecHHHHHHHHHhccCCceeEEecccccCCCCCC--CCccceeeeeEeecC----CHHH-----------
Q 008040 276 LGRDLYLR---IATELHLKRMLIGGFEKIYEIGRIFRNEGLSTR--HNPEFTTIEMYEAYS----DYQS----------- 335 (580)
Q Consensus 276 ~~~~~yL~---~Spql~lk~llv~g~~rVfeIg~~FR~E~~~~r--H~pEFtmlE~e~a~~----d~~d----------- 335 (580)
+..++|+| -..|--++..|.+-..--++||++|+.++...+ ...+|+-+|=|..|- ||++
T Consensus 53 L~ddvYiRY~sFn~~~~~~k~i~s~nP~KiDIGaVY~~~P~~~~t~~~s~~~~vekELVFDIDmTDYD~VR~CCS~a~VC 132 (412)
T KOG2851|consen 53 LADDVYIRYLSFNNASEFEKEISSTNPDKIDIGAVYSHRPRNHKTLRKSDFQAVEKELVFDIDMTDYDDVRTCCSGADVC 132 (412)
T ss_pred ecCCcEEEEeccCCHHHHHHHHhhcCCcceeecccccCCccccccccccccceeeeeeEEecccccChHHhhhcccccch
Confidence 44555544 444444444556777778999999999987754 678999999999983 6776
Q ss_pred -----HHHHHHHHHHHHHHHHhC
Q 008040 336 -----MMNITEEIVTHCALAVNG 353 (580)
Q Consensus 336 -----~m~l~E~li~~~~~~v~~ 353 (580)
.|.++-.++...+.+-.|
T Consensus 133 ~KCW~fm~lAvkIld~aLrEdFG 155 (412)
T KOG2851|consen 133 PKCWKFMTLAVKILDTALREDFG 155 (412)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcC
Confidence 456666666666655544
No 310
>PRK01584 alanyl-tRNA synthetase; Provisional
Probab=20.57 E-value=55 Score=37.73 Aligned_cols=95 Identities=15% Similarity=0.192 Sum_probs=60.5
Q ss_pred HHHHHHHHHHHHhCCCeeecCceeeccCCCCCCCceeeccCCCCeeEEEEecHHHHHHHHHhcc----CCceeEEecccc
Q 008040 234 AKIVSEIRKTVESLGFVEVETPVLQGAAGGAEARPFVTYHNSLGRDLYLRIATELHLKRMLIGG----FEKIYEIGRIFR 309 (580)
Q Consensus 234 s~i~~~iR~fl~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk~llv~g----~~rVfeIg~~FR 309 (580)
++|-+.+-+||.++|-..|..--|.+. -+.++++..|.-...|....|- ..|+=..-+|.|
T Consensus 4 ~eiR~~fl~FF~~kgH~~~~s~slvp~---------------~d~tllftnAGm~~fk~~f~G~~~p~~~r~~~~QkCiR 68 (594)
T PRK01584 4 DELRKKYIDFFKSKGHVEIAGKSLIPE---------------NDPTVLFTTAGMHPLVPYLLGEPHPSGTRLVDVQKCLR 68 (594)
T ss_pred HHHHHHHHHHHHhCCCEEcCCCCcCCC---------------CCCCeeeeccchhhhhHHhcCCCCCCCCCccccccccc
Confidence 345567778999999888876544442 1234555555544445444321 367888899999
Q ss_pred cCCCC----CCCCccceeeeeEeecCCH--HHHHHHHHHHH
Q 008040 310 NEGLS----TRHNPEFTTIEMYEAYSDY--QSMMNITEEIV 344 (580)
Q Consensus 310 ~E~~~----~rH~pEFtmlE~e~a~~d~--~d~m~l~E~li 344 (580)
.-+++ .||+.=|.||-= .+|.|| ++.+..+-+++
T Consensus 69 ~~Dle~VG~~rHhTfFEMlGn-fSfgdYfK~eai~~awe~l 108 (594)
T PRK01584 69 TGDIDEVGDLSHLTFFEMLGN-WSLGAYFKEESIKYSFEFL 108 (594)
T ss_pred cccccccCCCcchhHHHhhcc-ccHhhhhHHHHHHHHHHHh
Confidence 95543 499998888743 457776 44555554444
No 311
>PRK13806 rpsA 30S ribosomal protein S1; Provisional
Probab=20.32 E-value=2.8e+02 Score=31.20 Aligned_cols=69 Identities=19% Similarity=0.173 Sum_probs=41.8
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEEeEEEecCCceeEEEEeE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVSGSMKRTEKGELSVLVNS 188 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~G~v~~t~~ge~el~~~~ 188 (580)
.+.|+|.++...| +|+.|-++ ++.++....+..+.-......+..||.|.+.=.-....+.-++|....
T Consensus 382 ~v~G~V~~i~~~G--~FV~l~~g---v~Gli~~se~s~~~~~~~~~~~~~Gd~v~~~V~~id~e~~ri~Ls~~~ 450 (491)
T PRK13806 382 TVTGTVEKRAQFG--LFVNLAPG---VTGLLPASVISRAGKPATYEKLKPGDSVTLVVEEIDTAKRKISLAPAG 450 (491)
T ss_pred EEEEEEEEEecCc--eEEEcCCC---cEEEEEHHHcCcccccchhhcCCCCCEEEEEEEEEeCCCCEEEEEeeh
Confidence 6899999999999 89999653 777776654432111112233589999987522122223345555443
No 312
>PRK00037 hisS histidyl-tRNA synthetase; Reviewed
Probab=20.20 E-value=87 Score=33.98 Aligned_cols=31 Identities=35% Similarity=0.666 Sum_probs=21.5
Q ss_pred CCCccceeccHHHHHHHHcCCC-CccccccCC
Q 008040 544 MPPASGMGLGIDRLVMLLTNSA-SIRDVIAFP 574 (580)
Q Consensus 544 ~PP~gG~GiGiDRLvMlltg~~-sIrdvi~FP 574 (580)
-.|..||++|+|||+.++.... +=.+|..+|
T Consensus 294 ~~pavGfs~~le~l~~~l~~~~~~~~~vlI~~ 325 (412)
T PRK00037 294 PTPAVGFAIGVERLLLLLEELGEEPVDVYVVP 325 (412)
T ss_pred CCceEEEEEcHHHHHHHHHhcCCCCCCEEEEE
Confidence 5578899999999999886543 123454444
No 313
>cd05789 S1_Rrp4 S1_Rrp4: Rrp4 S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=20.18 E-value=4.8e+02 Score=21.23 Aligned_cols=52 Identities=13% Similarity=0.126 Sum_probs=32.4
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccCh----HHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLS----DQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~----~~~~~~~~~l~~gd~v~v~ 171 (580)
.|.|.|..+...| .|++|-.+ +..++....+.. ...+.+...+..||.|.+.
T Consensus 9 iV~g~V~~i~~~g--~~v~i~~~---~~G~l~~se~~~~~~~~~~~~~~~~l~vGd~i~~~ 64 (86)
T cd05789 9 VVIGRVTEVGFKR--WKVDINSP---YDAVLPLSEVNLPRTDEDELNMRSYLDEGDLIVAE 64 (86)
T ss_pred EEEEEEEEECCCE--EEEECCCC---eEEEEEHHHccCCCCccchHHHHhhCCCCCEEEEE
Confidence 4689999998776 77777432 555555443321 1123334447999998775
No 314
>TIGR03591 polynuc_phos polyribonucleotide nucleotidyltransferase. Members of this protein family are polyribonucleotide nucleotidyltransferase, also called polynucleotide phosphorylase. Some members have been shown also to have additional functions as guanosine pentaphosphate synthetase and as poly(A) polymerase (see model TIGR02696 for an exception clade, within this family).
Probab=20.04 E-value=1.7e+02 Score=34.38 Aligned_cols=52 Identities=19% Similarity=0.321 Sum_probs=35.6
Q ss_pred EEEEEEEeEecCCCeEEEEEeeCCeeEEEEEecCccChHHHHhhhcccCCCcEEEEE
Q 008040 115 SVAGRVVARRAFGKLAFLTLRDDSGTIQLYCEKERLLSDQFDQLKVFVDIGDILGVS 171 (580)
Q Consensus 115 ~v~GrV~~~R~~gk~~F~~LrD~sg~iQvv~~~~~~~~~~~~~~~~~l~~gd~v~v~ 171 (580)
.+.|.|..+..+| +|+.|..+ +...+....+..+-++...+.+..||.|.|.
T Consensus 621 i~~G~V~~I~~~G--afVei~~g---~~GllHiSei~~~~v~~~~~~~kvGD~V~Vk 672 (684)
T TIGR03591 621 IYEGKVVRIMDFG--AFVEILPG---KDGLVHISEIANERVEKVEDVLKEGDEVKVK 672 (684)
T ss_pred EEEEEEEEEeCCE--EEEEECCC---cEEEEEHHHcCCCcccChhhccCCCCEEEEE
Confidence 4689999999988 89999653 4455544443333334445557899999986
Done!