Query 013856
Match_columns 435
No_of_seqs 323 out of 1631
Neff 6.6
Searched_HMMs 46136
Date Fri Mar 29 08:04:48 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/013856.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/013856hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG0556 Aspartyl-tRNA syntheta 100.0 6E-109 1E-113 815.6 32.3 407 13-435 6-415 (533)
2 PLN02850 aspartate-tRNA ligase 100.0 1.1E-93 2.4E-98 756.9 37.6 407 13-435 5-412 (530)
3 PTZ00401 aspartyl-tRNA synthet 100.0 2.6E-88 5.7E-93 716.6 36.9 390 18-435 7-432 (550)
4 KOG1885 Lysyl-tRNA synthetase 100.0 6.2E-81 1.4E-85 625.5 15.2 380 18-428 5-403 (560)
5 COG0017 AsnS Aspartyl/asparagi 100.0 1.1E-75 2.3E-80 596.5 31.6 310 92-432 4-317 (435)
6 PLN02502 lysyl-tRNA synthetase 100.0 4.8E-75 1E-79 615.9 31.4 370 16-424 3-394 (553)
7 PRK05159 aspC aspartyl-tRNA sy 100.0 8.7E-73 1.9E-77 588.7 34.0 314 92-434 4-318 (437)
8 TIGR00458 aspS_arch aspartyl-t 100.0 5.6E-73 1.2E-77 588.2 31.5 311 94-433 2-313 (428)
9 PLN02221 asparaginyl-tRNA synt 100.0 6.8E-70 1.5E-74 576.6 29.9 304 100-433 46-456 (572)
10 TIGR00499 lysS_bact lysyl-tRNA 100.0 4.1E-70 8.9E-75 574.7 25.1 302 76-414 21-332 (496)
11 PRK03932 asnC asparaginyl-tRNA 100.0 8.9E-69 1.9E-73 560.0 32.0 307 94-430 5-331 (450)
12 PTZ00417 lysine-tRNA ligase; P 100.0 7.1E-68 1.5E-72 563.1 29.5 323 53-405 74-410 (585)
13 TIGR00457 asnS asparaginyl-tRN 100.0 2.4E-67 5.3E-72 549.0 31.9 302 101-432 13-336 (453)
14 PRK12445 lysyl-tRNA synthetase 100.0 1E-67 2.3E-72 556.7 29.2 306 64-408 18-337 (505)
15 PRK00484 lysS lysyl-tRNA synth 100.0 2.9E-67 6.3E-72 552.9 30.8 300 76-414 22-329 (491)
16 PLN02603 asparaginyl-tRNA synt 100.0 2.9E-66 6.3E-71 548.9 30.1 301 100-432 103-447 (565)
17 PTZ00425 asparagine-tRNA ligas 100.0 4.7E-65 1E-69 539.0 30.2 305 101-432 78-469 (586)
18 PLN02532 asparagine-tRNA synth 100.0 5.4E-65 1.2E-69 541.0 29.6 284 117-432 130-516 (633)
19 PTZ00385 lysyl-tRNA synthetase 100.0 8.5E-65 1.8E-69 541.5 30.7 323 81-431 81-414 (659)
20 PRK02983 lysS lysyl-tRNA synth 100.0 4.9E-64 1.1E-68 566.9 28.3 300 76-414 629-932 (1094)
21 PLN02903 aminoacyl-tRNA ligase 100.0 9.3E-63 2E-67 526.1 29.4 283 92-413 60-349 (652)
22 TIGR00459 aspS_bact aspartyl-t 100.0 7.2E-62 1.6E-66 517.0 31.9 269 93-405 4-278 (583)
23 COG1190 LysU Lysyl-tRNA synthe 100.0 5.6E-63 1.2E-67 505.9 21.5 297 76-413 29-336 (502)
24 PRK12820 bifunctional aspartyl 100.0 3.4E-61 7.5E-66 518.5 29.6 286 93-407 7-297 (706)
25 PRK00476 aspS aspartyl-tRNA sy 100.0 3.9E-61 8.5E-66 514.4 29.6 277 93-415 6-288 (588)
26 COG0173 AspS Aspartyl-tRNA syn 100.0 1.7E-60 3.8E-65 489.9 26.2 272 93-405 4-281 (585)
27 KOG0555 Asparaginyl-tRNA synth 100.0 1.9E-56 4.2E-61 441.1 26.7 368 15-433 50-429 (545)
28 KOG0554 Asparaginyl-tRNA synth 100.0 6.4E-56 1.4E-60 438.9 21.4 298 99-432 15-333 (446)
29 cd00776 AsxRS_core Asx tRNA sy 100.0 2.8E-50 6E-55 404.7 17.5 206 226-433 2-209 (322)
30 KOG2411 Aspartyl-tRNA syntheta 100.0 2.9E-48 6.3E-53 392.0 20.9 281 93-413 36-324 (628)
31 PRK06462 asparagine synthetase 100.0 4.1E-48 8.8E-53 390.7 15.3 201 226-432 8-217 (335)
32 PF00152 tRNA-synt_2: tRNA syn 100.0 5.4E-47 1.2E-51 382.9 11.7 194 227-430 1-216 (335)
33 TIGR00462 genX lysyl-tRNA synt 100.0 1.3E-41 2.8E-46 339.3 14.6 163 248-434 1-186 (304)
34 cd00775 LysRS_core Lys_tRNA sy 100.0 1.1E-40 2.4E-45 335.9 16.8 178 242-430 2-182 (329)
35 cd00669 Asp_Lys_Asn_RS_core As 100.0 2.5E-37 5.4E-42 303.5 13.2 152 248-408 1-154 (269)
36 cd00777 AspRS_core Asp tRNA sy 100.0 4.1E-36 8.9E-41 296.4 14.7 151 248-421 1-154 (280)
37 PRK09350 poxB regulator PoxA; 100.0 5E-34 1.1E-38 285.0 14.8 163 245-433 2-190 (306)
38 COG2269 Truncated, possibly in 99.9 2.4E-28 5.2E-33 234.6 9.6 141 246-414 14-161 (322)
39 cd04317 EcAspRS_like_N EcAspRS 99.9 9.8E-24 2.1E-28 186.8 13.8 128 94-243 4-134 (135)
40 cd04322 LysRS_N LysRS_N: N-ter 99.9 3.6E-22 7.8E-27 170.2 13.4 107 106-239 1-108 (108)
41 cd04320 AspRS_cyto_N AspRS_cyt 99.8 3.7E-20 7.9E-25 156.2 14.2 100 106-205 1-102 (102)
42 cd04316 ND_PkAspRS_like_N ND_P 99.8 3.2E-19 7E-24 152.1 13.8 103 95-204 3-106 (108)
43 cd04319 PhAsnRS_like_N PhAsnRS 99.8 4.4E-19 9.6E-24 150.0 13.5 103 106-237 1-103 (103)
44 cd04100 Asp_Lys_Asn_RS_N Asp_L 99.7 3.3E-16 7.1E-21 127.7 12.3 85 106-195 1-85 (85)
45 cd04323 AsnRS_cyto_like_N AsnR 99.6 2.6E-15 5.7E-20 122.2 11.9 84 106-195 1-84 (84)
46 cd04321 ScAspRS_mt_like_N ScAs 99.6 2.4E-14 5.1E-19 117.3 12.2 85 106-195 1-86 (86)
47 cd04318 EcAsnRS_like_N EcAsnRS 99.6 2.8E-14 6.1E-19 115.5 11.4 79 106-194 1-81 (82)
48 PRK09537 pylS pyrolysyl-tRNA s 99.4 3.9E-13 8.5E-18 138.5 8.6 136 225-365 179-333 (417)
49 cd00768 class_II_aaRS-like_cor 99.2 5E-11 1.1E-15 111.0 6.7 115 250-365 1-132 (211)
50 PF01336 tRNA_anti-codon: OB-f 99.0 6E-09 1.3E-13 81.6 11.3 75 107-193 1-75 (75)
51 TIGR02367 PylS pyrrolysyl-tRNA 98.9 6.4E-09 1.4E-13 107.6 9.9 112 250-365 241-369 (453)
52 cd00496 PheRS_alpha_core Pheny 98.5 2.3E-07 4.9E-12 88.8 8.0 110 253-366 5-132 (218)
53 PF01409 tRNA-synt_2d: tRNA sy 98.4 6.9E-07 1.5E-11 87.1 9.1 116 252-368 20-156 (247)
54 cd00773 HisRS-like_core Class 98.4 1.6E-06 3.5E-11 84.9 9.6 101 248-349 2-116 (261)
55 PF00587 tRNA-synt_2b: tRNA sy 98.4 1.1E-06 2.4E-11 80.6 7.5 116 250-367 1-136 (173)
56 PRK00488 pheS phenylalanyl-tRN 98.3 4.2E-06 9E-11 84.8 9.8 114 252-367 111-238 (339)
57 TIGR00468 pheS phenylalanyl-tR 98.2 6.8E-06 1.5E-10 82.2 9.7 131 231-367 51-203 (294)
58 cd00670 Gly_His_Pro_Ser_Thr_tR 98.2 6E-06 1.3E-10 78.9 8.5 102 248-349 2-125 (235)
59 PRK00037 hisS histidyl-tRNA sy 98.1 1.1E-05 2.4E-10 83.9 10.4 119 245-364 15-150 (412)
60 TIGR00442 hisS histidyl-tRNA s 98.1 1.8E-05 3.8E-10 82.1 10.0 118 246-364 12-149 (397)
61 PRK04172 pheS phenylalanyl-tRN 98.0 3.3E-05 7.1E-10 82.5 10.3 117 247-365 231-401 (489)
62 cd00778 ProRS_core_arch_euk Pr 98.0 1.5E-05 3.4E-10 78.2 6.9 117 246-363 30-169 (261)
63 cd00772 ProRS_core Prolyl-tRNA 98.0 5.1E-05 1.1E-09 74.7 10.6 114 247-362 31-168 (264)
64 PTZ00326 phenylalanyl-tRNA syn 97.9 2.9E-05 6.3E-10 82.3 8.9 51 314-365 357-408 (494)
65 PLN02853 Probable phenylalanyl 97.9 3.6E-05 7.8E-10 81.3 8.6 50 315-365 343-393 (492)
66 cd00771 ThrRS_core Threonyl-tR 97.9 6.2E-05 1.4E-09 75.3 9.4 101 246-346 28-146 (298)
67 cd00779 ProRS_core_prok Prolyl 97.9 4.8E-05 1E-09 74.5 8.4 116 246-362 29-162 (255)
68 TIGR00409 proS_fam_II prolyl-t 97.9 9.1E-05 2E-09 80.5 11.2 123 246-369 45-188 (568)
69 COG0016 PheS Phenylalanyl-tRNA 97.8 6.1E-05 1.3E-09 76.1 8.8 115 252-368 114-246 (335)
70 cd00774 GlyRS-like_core Glycyl 97.8 3.7E-05 8E-10 75.3 7.0 97 246-348 30-143 (254)
71 PRK09194 prolyl-tRNA synthetas 97.8 9.9E-05 2.1E-09 80.3 10.6 123 246-369 45-188 (565)
72 cd00770 SerRS_core Seryl-tRNA 97.8 5.8E-05 1.3E-09 75.6 8.2 115 246-364 50-185 (297)
73 TIGR00443 hisZ_biosyn_reg ATP 97.8 8.5E-05 1.8E-09 74.8 9.2 117 246-364 6-139 (314)
74 PF13393 tRNA-synt_His: Histid 97.8 0.00018 3.8E-09 72.0 10.6 117 246-363 8-139 (311)
75 PLN02788 phenylalanine-tRNA sy 97.7 0.00012 2.6E-09 75.9 8.9 111 254-368 73-213 (402)
76 PRK12305 thrS threonyl-tRNA sy 97.7 0.00012 2.6E-09 79.6 9.2 115 246-362 204-337 (575)
77 PLN02908 threonyl-tRNA synthet 97.7 0.00013 2.7E-09 81.2 9.1 121 245-367 318-456 (686)
78 TIGR00414 serS seryl-tRNA synt 97.7 0.00021 4.5E-09 75.0 10.1 116 246-365 171-307 (418)
79 PRK12293 hisZ ATP phosphoribos 97.7 0.00033 7.2E-09 69.7 10.8 113 246-365 17-139 (281)
80 PRK12292 hisZ ATP phosphoribos 97.6 0.00025 5.3E-09 73.7 9.9 119 246-365 15-151 (391)
81 PRK05431 seryl-tRNA synthetase 97.6 0.00023 5E-09 74.8 9.8 116 246-365 168-305 (425)
82 TIGR00418 thrS threonyl-tRNA s 97.6 0.00017 3.7E-09 78.3 8.5 117 246-363 198-339 (563)
83 PLN02972 Histidyl-tRNA synthet 97.5 0.00037 8.1E-09 77.4 10.3 120 244-364 337-470 (763)
84 PRK12444 threonyl-tRNA synthet 97.5 0.00033 7.2E-09 77.3 9.9 113 248-362 274-404 (639)
85 PRK14799 thrS threonyl-tRNA sy 97.5 0.00033 7.2E-09 75.7 9.3 119 246-366 166-302 (545)
86 PRK00413 thrS threonyl-tRNA sy 97.5 0.00044 9.5E-09 76.2 10.4 100 246-345 268-386 (638)
87 PRK08661 prolyl-tRNA synthetas 97.5 0.00019 4.1E-09 76.5 7.3 116 246-363 42-180 (477)
88 PRK12420 histidyl-tRNA synthet 97.5 0.00045 9.7E-09 72.5 9.9 120 245-365 15-152 (423)
89 CHL00201 syh histidine-tRNA sy 97.5 0.00037 8.1E-09 73.3 9.3 118 246-364 16-154 (430)
90 PRK03991 threonyl-tRNA synthet 97.5 0.00051 1.1E-08 75.3 9.8 121 246-367 225-364 (613)
91 PRK12325 prolyl-tRNA synthetas 97.5 0.0006 1.3E-08 72.0 9.9 115 247-362 46-178 (439)
92 TIGR00408 proS_fam_I prolyl-tR 97.4 0.0003 6.5E-09 74.9 7.7 115 247-363 37-175 (472)
93 PRK12421 ATP phosphoribosyltra 97.4 0.0011 2.5E-08 68.9 10.6 119 246-365 19-154 (392)
94 PLN02530 histidine-tRNA ligase 97.4 0.00078 1.7E-08 72.1 9.5 118 245-365 81-217 (487)
95 PRK12295 hisZ ATP phosphoribos 97.2 0.0015 3.2E-08 67.6 9.1 108 253-364 9-132 (373)
96 PLN02678 seryl-tRNA synthetase 97.1 0.0011 2.4E-08 70.0 6.7 117 246-364 172-311 (448)
97 PLN02837 threonine-tRNA ligase 97.0 0.0022 4.7E-08 70.5 9.1 118 246-365 245-381 (614)
98 cd04489 ExoVII_LU_OBF ExoVII_L 96.9 0.012 2.7E-07 46.3 10.4 74 107-191 2-75 (78)
99 COG0124 HisS Histidyl-tRNA syn 96.9 0.0038 8.2E-08 65.6 8.9 117 247-364 17-153 (429)
100 PRK04173 glycyl-tRNA synthetas 96.7 0.0042 9.1E-08 66.0 7.8 30 248-277 38-69 (456)
101 KOG2784 Phenylalanyl-tRNA synt 96.7 0.0021 4.6E-08 65.0 5.0 59 303-364 322-383 (483)
102 PF13742 tRNA_anti_2: OB-fold 96.6 0.02 4.3E-07 48.1 9.9 76 104-191 21-98 (99)
103 cd04487 RecJ_OBF2_like RecJ_OB 96.6 0.019 4.1E-07 45.6 8.9 73 107-193 1-73 (73)
104 PLN02320 seryl-tRNA synthetase 96.5 0.0044 9.6E-08 66.1 6.3 118 247-368 232-371 (502)
105 COG1107 Archaea-specific RecJ- 96.3 0.0042 9.1E-08 66.3 4.8 88 92-194 202-289 (715)
106 COG0442 ProS Prolyl-tRNA synth 96.2 0.0098 2.1E-07 63.6 7.0 117 246-363 45-179 (500)
107 PRK12294 hisZ ATP phosphoribos 96.2 0.033 7.3E-07 55.2 10.2 96 244-347 3-109 (272)
108 TIGR00470 sepS O-phosphoseryl- 96.2 0.0063 1.4E-07 64.0 5.0 51 315-365 208-259 (533)
109 cd04485 DnaE_OBF DnaE_OBF: A s 96.2 0.057 1.2E-06 42.2 9.4 72 109-193 2-77 (84)
110 PRK07373 DNA polymerase III su 96.1 0.038 8.2E-07 58.6 10.4 86 94-192 270-359 (449)
111 cd03524 RPA2_OBF_family RPA2_O 95.9 0.13 2.9E-06 38.5 10.2 69 109-190 2-73 (75)
112 cd04478 RPA2_DBD_D RPA2_DBD_D: 95.9 0.096 2.1E-06 43.0 9.9 78 107-195 2-79 (95)
113 TIGR00415 serS_MJ seryl-tRNA s 95.8 0.039 8.4E-07 59.0 9.1 117 246-364 221-386 (520)
114 PRK00960 seryl-tRNA synthetase 95.8 0.016 3.5E-07 62.2 6.0 116 246-364 221-386 (517)
115 cd04482 RPA2_OBF_like RPA2_OBF 95.6 0.082 1.8E-06 43.7 8.5 74 107-195 1-76 (91)
116 cd04492 YhaM_OBF_like YhaM_OBF 95.2 0.42 9.2E-06 37.5 11.2 64 118-195 15-78 (83)
117 cd04474 RPA1_DBD_A RPA1_DBD_A: 95.0 0.25 5.3E-06 41.7 9.6 86 95-189 2-98 (104)
118 KOG2324 Prolyl-tRNA synthetase 95.0 0.056 1.2E-06 55.0 6.5 109 247-356 51-178 (457)
119 cd04483 hOBFC1_like hOBFC1_lik 94.8 0.38 8.2E-06 39.8 10.0 76 109-192 2-91 (92)
120 KOG1936 Histidyl-tRNA syntheta 94.8 0.2 4.3E-06 52.2 9.9 102 245-347 71-184 (518)
121 COG0172 SerS Seryl-tRNA synthe 94.7 0.11 2.4E-06 54.6 8.1 114 246-363 172-306 (429)
122 PRK07374 dnaE DNA polymerase I 94.6 0.17 3.8E-06 59.5 10.3 87 94-193 990-1080(1170)
123 PF04076 BOF: Bacterial OB fol 94.6 0.22 4.7E-06 42.3 8.2 78 94-191 24-102 (103)
124 PRK05673 dnaE DNA polymerase I 94.2 0.19 4.2E-06 59.0 9.6 88 94-194 967-1058(1135)
125 COG0423 GRS1 Glycyl-tRNA synth 94.0 0.12 2.7E-06 55.0 6.7 29 249-277 41-71 (558)
126 PRK05672 dnaE2 error-prone DNA 93.7 0.3 6.6E-06 57.0 9.8 86 97-195 946-1033(1046)
127 PRK06920 dnaE DNA polymerase I 93.7 0.38 8.1E-06 56.4 10.4 86 94-193 934-1023(1107)
128 TIGR00156 conserved hypothetic 93.5 0.52 1.1E-05 41.4 8.7 79 93-191 46-125 (126)
129 cd04490 PolII_SU_OBF PolII_SU_ 93.5 1.2 2.7E-05 35.7 10.3 57 107-171 2-62 (79)
130 PF10451 Stn1: Telomere regula 93.4 0.28 6.2E-06 48.2 7.7 75 105-194 67-148 (256)
131 PRK09616 pheT phenylalanyl-tRN 93.3 0.34 7.4E-06 52.8 9.0 112 252-364 362-488 (552)
132 PRK06826 dnaE DNA polymerase I 93.2 0.58 1.3E-05 55.2 11.1 80 102-193 989-1072(1151)
133 COG0441 ThrS Threonyl-tRNA syn 93.0 0.13 2.7E-06 56.3 4.9 111 249-366 221-354 (589)
134 COG3111 Periplasmic protein wi 92.9 0.63 1.4E-05 40.6 8.1 84 90-193 43-127 (128)
135 PRK10053 hypothetical protein; 92.8 0.79 1.7E-05 40.5 8.8 79 93-191 50-129 (130)
136 PRK07279 dnaE DNA polymerase I 92.6 0.69 1.5E-05 53.8 10.4 75 104-191 884-963 (1034)
137 TIGR00389 glyS_dimeric glycyl- 92.4 0.19 4.1E-06 54.6 5.2 31 247-277 36-67 (551)
138 TIGR00469 pheS_mito phenylalan 91.9 0.66 1.4E-05 49.2 8.4 52 289-343 101-161 (460)
139 COG1570 XseA Exonuclease VII, 91.7 0.66 1.4E-05 48.8 8.2 75 105-191 24-99 (440)
140 cd04479 RPA3 RPA3: A subfamily 91.7 1.6 3.4E-05 36.8 9.0 54 101-170 12-65 (101)
141 TIGR00617 rpa1 replication fac 91.2 1.8 4E-05 47.7 11.4 98 90-196 178-285 (608)
142 PRK10917 ATP-dependent DNA hel 90.5 1.3 2.8E-05 49.5 9.7 67 98-171 53-122 (681)
143 PF08661 Rep_fac-A_3: Replicat 90.1 1.8 3.8E-05 36.8 8.1 57 101-172 15-72 (109)
144 cd04488 RecG_wedge_OBF RecG_we 89.7 3 6.6E-05 31.5 8.5 56 109-171 2-60 (75)
145 cd00769 PheRS_beta_core Phenyl 89.5 0.68 1.5E-05 43.3 5.5 108 253-364 4-136 (198)
146 COG3705 HisZ ATP phosphoribosy 89.5 1.1 2.3E-05 46.7 7.4 101 247-348 16-128 (390)
147 COG4085 Predicted RNA-binding 89.1 1.9 4E-05 40.5 7.8 68 100-171 47-118 (204)
148 PRK07459 single-stranded DNA-b 88.1 12 0.00027 32.4 12.0 59 132-196 43-104 (121)
149 PF12869 tRNA_anti-like: tRNA_ 87.8 1.8 3.9E-05 38.1 6.7 66 100-170 63-130 (144)
150 PRK15491 replication factor A; 87.8 3.8 8.2E-05 42.6 10.0 89 92-196 57-156 (374)
151 PRK00286 xseA exodeoxyribonucl 87.7 2.6 5.6E-05 44.5 9.0 77 104-192 23-100 (438)
152 TIGR00237 xseA exodeoxyribonuc 87.4 2.4 5.1E-05 44.9 8.5 75 106-192 19-94 (432)
153 cd04484 polC_OBF polC_OBF: A s 86.6 15 0.00033 29.5 11.0 74 107-191 2-80 (82)
154 KOG2509 Seryl-tRNA synthetase 86.4 1.2 2.7E-05 46.5 5.5 119 245-364 182-327 (455)
155 PRK06461 single-stranded DNA-b 85.6 12 0.00025 32.9 10.6 85 92-195 4-100 (129)
156 PRK06863 single-stranded DNA-b 85.5 19 0.00042 33.2 12.3 57 134-196 53-111 (168)
157 PF00436 SSB: Single-strand bi 84.9 17 0.00036 29.7 10.8 55 133-193 48-104 (104)
158 PRK08486 single-stranded DNA-b 84.8 19 0.0004 33.7 12.1 59 132-196 48-108 (182)
159 TIGR00643 recG ATP-dependent D 84.3 4.7 0.0001 44.7 9.2 66 97-171 25-95 (630)
160 PRK07275 single-stranded DNA-b 83.9 22 0.00047 32.7 11.9 85 106-196 4-106 (162)
161 KOG1035 eIF-2alpha kinase GCN2 83.5 2.2 4.8E-05 50.0 6.3 119 246-368 930-1058(1351)
162 PRK14699 replication factor A; 83.2 7.9 0.00017 41.7 10.0 88 93-196 58-156 (484)
163 COG1200 RecG RecG-like helicas 82.8 13 0.00027 41.5 11.4 84 97-195 53-140 (677)
164 KOG3108 Single-stranded DNA-bi 82.7 7.4 0.00016 38.5 8.9 75 105-191 69-143 (265)
165 PRK06751 single-stranded DNA-b 82.5 27 0.00058 32.4 12.0 58 133-196 47-106 (173)
166 PRK02801 primosomal replicatio 82.4 28 0.00061 29.2 11.9 52 134-193 49-100 (101)
167 COG5235 RFA2 Single-stranded D 82.3 8.3 0.00018 36.8 8.5 75 106-192 68-142 (258)
168 PRK13480 3'-5' exoribonuclease 82.2 13 0.00027 37.9 10.5 79 104-196 11-93 (314)
169 PRK12366 replication factor A; 82.0 7.3 0.00016 43.4 9.6 94 91-193 278-380 (637)
170 PRK06293 single-stranded DNA-b 81.4 39 0.00085 31.0 12.5 59 132-196 42-102 (161)
171 PF03590 AsnA: Aspartate-ammon 81.2 9.8 0.00021 37.0 8.8 118 252-370 7-143 (244)
172 PRK07135 dnaE DNA polymerase I 80.9 6.9 0.00015 45.6 9.1 62 103-171 896-960 (973)
173 TIGR00621 ssb single stranded 78.3 49 0.0011 30.2 12.2 58 133-196 51-110 (164)
174 PRK06752 single-stranded DNA-b 78.3 41 0.00089 28.5 12.3 58 133-196 47-106 (112)
175 PRK07211 replication factor A; 78.1 18 0.00039 38.9 10.5 81 94-190 55-146 (485)
176 PRK13732 single-stranded DNA-b 78.1 48 0.001 30.8 12.2 44 153-196 68-115 (175)
177 PRK07274 single-stranded DNA-b 78.0 47 0.001 29.1 12.1 43 153-195 61-104 (131)
178 PTZ00213 asparagine synthetase 77.3 56 0.0012 33.4 13.1 121 249-370 9-147 (348)
179 PF03100 CcmE: CcmE; InterPro 75.8 24 0.00051 31.1 9.1 58 102-170 48-109 (131)
180 PRK08763 single-stranded DNA-b 75.7 65 0.0014 29.6 12.3 44 153-196 66-111 (164)
181 PRK12366 replication factor A; 75.7 16 0.00035 40.7 9.8 84 91-189 62-154 (637)
182 PF15072 DUF4539: Domain of un 75.1 11 0.00025 30.8 6.4 56 108-170 6-61 (86)
183 cd04496 SSB_OBF SSB_OBF: A sub 74.4 23 0.0005 28.5 8.2 57 131-193 42-100 (100)
184 cd00645 AsnA Asparagine synthe 74.4 44 0.00095 33.7 11.4 106 264-370 18-136 (309)
185 PRK05813 single-stranded DNA-b 74.3 46 0.001 32.1 11.3 86 104-196 109-210 (219)
186 PRK07080 hypothetical protein; 73.5 3.1 6.7E-05 42.1 3.2 48 316-365 153-201 (317)
187 PRK06958 single-stranded DNA-b 73.0 73 0.0016 29.9 12.0 59 132-196 51-111 (182)
188 TIGR00471 pheT_arch phenylalan 72.6 13 0.00028 40.6 8.0 111 251-364 364-490 (551)
189 PRK14699 replication factor A; 72.6 18 0.00039 38.9 9.0 92 92-196 276-376 (484)
190 cd04491 SoSSB_OBF SoSSB_OBF: A 70.2 38 0.00083 26.7 8.4 54 122-191 23-77 (82)
191 COG1571 Predicted DNA-binding 68.8 25 0.00055 37.0 8.7 74 105-194 267-342 (421)
192 PRK15491 replication factor A; 67.7 26 0.00055 36.5 8.6 89 94-196 168-266 (374)
193 TIGR02930 vnfG_nitrog V-contai 66.3 12 0.00026 31.9 4.7 51 385-435 40-90 (109)
194 PRK07217 replication factor A; 66.0 74 0.0016 32.3 11.1 93 91-201 71-167 (311)
195 PRK13254 cytochrome c-type bio 65.4 96 0.0021 28.0 10.8 58 102-170 49-109 (148)
196 PRK14894 glycyl-tRNA synthetas 65.0 3.8 8.3E-05 44.1 1.9 31 316-346 167-199 (539)
197 PRK07211 replication factor A; 64.6 37 0.00081 36.6 9.2 89 93-196 162-259 (485)
198 PRK05813 single-stranded DNA-b 64.4 85 0.0018 30.2 10.8 85 103-196 7-103 (219)
199 TIGR02929 anfG_nitrog Fe-only 64.1 14 0.00031 31.4 4.8 51 385-435 40-90 (109)
200 PRK05425 asparagine synthetase 62.8 1.6E+02 0.0035 30.0 12.8 106 264-370 29-147 (327)
201 PRK04036 DNA polymerase II sma 62.7 32 0.0007 37.2 8.5 72 95-170 143-215 (504)
202 TIGR00594 polc DNA-directed DN 62.1 13 0.00029 43.6 5.8 37 103-139 980-1021(1022)
203 PRK06386 replication factor A; 61.5 80 0.0017 32.7 10.7 90 92-196 107-197 (358)
204 PLN02734 glycyl-tRNA synthetas 60.7 3.4 7.4E-05 46.1 0.7 30 316-345 277-308 (684)
205 PF03139 AnfG_VnfG: Vanadium/a 60.1 26 0.00055 30.1 5.6 51 385-435 43-93 (112)
206 PRK08402 replication factor A; 59.1 53 0.0011 34.0 8.9 92 92-196 62-162 (355)
207 PF11736 DUF3299: Protein of u 58.6 99 0.0022 27.9 9.6 85 99-191 50-143 (146)
208 PLN02265 probable phenylalanyl 58.5 31 0.00068 38.1 7.7 113 251-364 399-527 (597)
209 cd00673 AlaRS_core Alanyl-tRNA 57.8 46 0.001 32.4 7.7 96 252-364 2-109 (232)
210 PRK05733 single-stranded DNA-b 56.1 1.7E+02 0.0037 27.1 11.8 56 134-195 54-113 (172)
211 PF13567 DUF4131: Domain of un 56.0 89 0.0019 27.0 8.9 60 104-174 75-146 (176)
212 PRK08182 single-stranded DNA-b 55.6 1.6E+02 0.0034 26.5 12.6 64 133-202 54-120 (148)
213 TIGR00669 asnA aspartate--ammo 51.7 2.8E+02 0.0061 28.3 13.2 119 251-370 8-145 (330)
214 cd05694 S1_Rrp5_repeat_hs2_sc2 51.3 41 0.00088 26.4 5.2 48 108-167 7-54 (74)
215 TIGR01405 polC_Gram_pos DNA po 50.5 1.2E+02 0.0026 36.6 11.1 81 104-193 7-91 (1213)
216 PRK07772 single-stranded DNA-b 50.2 2.2E+02 0.0048 26.7 12.2 52 133-190 53-106 (186)
217 cd04480 RPA1_DBD_A_like RPA1_D 49.7 1.3E+02 0.0027 24.0 8.1 71 110-187 8-80 (86)
218 cd05707 S1_Rrp5_repeat_sc11 S1 49.6 46 0.00099 25.1 5.2 52 108-167 3-55 (68)
219 PRK06642 single-stranded DNA-b 49.5 2E+02 0.0043 25.9 11.4 44 153-196 68-117 (152)
220 COG3689 Predicted membrane pro 48.0 43 0.00094 33.1 5.8 93 99-196 170-262 (271)
221 PRK07218 replication factor A; 45.8 1.1E+02 0.0024 32.4 9.0 83 92-194 58-147 (423)
222 PRK00448 polC DNA polymerase I 45.1 1.6E+02 0.0035 36.1 11.2 90 92-192 226-319 (1437)
223 KOG2298 Glycyl-tRNA synthetase 45.1 5.5 0.00012 42.3 -0.8 29 317-345 212-242 (599)
224 PRK00036 primosomal replicatio 45.0 83 0.0018 26.9 6.5 53 132-195 46-98 (107)
225 PRK09010 single-stranded DNA-b 45.0 2.6E+02 0.0057 26.0 12.3 58 133-196 54-116 (177)
226 PRK07218 replication factor A; 44.6 2.1E+02 0.0046 30.3 10.8 76 104-196 172-254 (423)
227 PRK06253 O-phosphoseryl-tRNA s 43.8 26 0.00056 38.0 3.9 50 316-365 210-260 (529)
228 cd05703 S1_Rrp5_repeat_hs12_sc 43.0 53 0.0012 25.5 4.7 55 108-168 3-58 (73)
229 COG2965 PriB Primosomal replic 42.9 1E+02 0.0022 26.1 6.4 73 119-193 24-102 (103)
230 PRK13165 cytochrome c-type bio 41.7 2E+02 0.0043 26.4 8.8 72 102-196 55-130 (160)
231 COG0587 DnaE DNA polymerase II 41.3 94 0.002 37.1 8.2 62 104-171 976-1042(1139)
232 cd05698 S1_Rrp5_repeat_hs6_sc5 39.0 69 0.0015 24.1 4.7 51 108-166 3-54 (70)
233 cd04486 YhcR_OBF_like YhcR_OBF 38.6 2E+02 0.0043 22.8 8.3 54 108-171 1-59 (78)
234 cd05687 S1_RPS1_repeat_ec1_hs1 37.9 59 0.0013 24.5 4.2 51 108-166 3-54 (70)
235 cd05705 S1_Rrp5_repeat_hs14 S1 37.6 89 0.0019 24.4 5.3 53 108-167 6-61 (74)
236 COG2502 AsnA Asparagine synthe 36.2 4.5E+02 0.0098 26.2 11.6 117 253-370 14-145 (330)
237 PF00970 FAD_binding_6: Oxidor 35.0 72 0.0016 25.6 4.5 62 101-169 30-94 (99)
238 cd05706 S1_Rrp5_repeat_sc10 S1 34.7 1E+02 0.0022 23.4 5.1 51 108-166 6-57 (73)
239 cd04452 S1_IF2_alpha S1_IF2_al 33.4 99 0.0021 23.5 4.9 53 108-166 6-59 (76)
240 PF01411 tRNA-synt_2c: tRNA sy 33.3 52 0.0011 36.0 4.4 96 254-363 2-111 (552)
241 CHL00192 syfB phenylalanyl-tRN 32.8 97 0.0021 35.0 6.5 110 252-365 401-530 (704)
242 PF15513 DUF4651: Domain of un 32.7 45 0.00097 25.7 2.6 23 249-271 2-24 (62)
243 PRK06341 single-stranded DNA-b 32.3 4E+02 0.0088 24.5 11.9 44 153-196 68-117 (166)
244 PF12569 NARP1: NMDA receptor- 31.8 79 0.0017 34.4 5.4 25 18-42 404-428 (517)
245 PRK13150 cytochrome c-type bio 31.6 4.1E+02 0.0089 24.4 10.5 72 102-196 55-130 (159)
246 cd05697 S1_Rrp5_repeat_hs5 S1_ 30.3 1.1E+02 0.0024 22.9 4.7 52 108-167 3-55 (69)
247 PF03755 YicC_N: YicC-like fam 29.2 73 0.0016 28.8 4.0 39 232-271 26-64 (159)
248 cd04472 S1_PNPase S1_PNPase: P 29.2 1E+02 0.0022 22.6 4.3 51 108-166 3-54 (68)
249 cd05693 S1_Rrp5_repeat_hs1_sc1 29.1 1.5E+02 0.0033 24.6 5.6 29 108-142 6-34 (100)
250 cd05691 S1_RPS1_repeat_ec6 S1_ 29.1 1.2E+02 0.0025 22.8 4.6 50 109-166 4-54 (73)
251 COG0072 PheT Phenylalanyl-tRNA 28.3 1.1E+02 0.0024 34.2 5.9 112 250-365 352-487 (650)
252 TIGR00638 Mop molybdenum-pteri 28.3 2.5E+02 0.0054 20.8 7.1 50 108-166 8-58 (69)
253 cd04454 S1_Rrp4_like S1_Rrp4_l 27.9 2.3E+02 0.0051 22.0 6.3 53 108-167 9-61 (82)
254 COG1098 VacB Predicted RNA bin 27.8 1.6E+02 0.0035 25.9 5.6 52 108-167 8-60 (129)
255 PF03459 TOBE: TOBE domain; I 26.6 2.6E+02 0.0057 20.5 7.8 50 108-166 6-56 (64)
256 PRK00629 pheT phenylalanyl-tRN 26.1 1.6E+02 0.0034 33.8 6.8 109 253-365 491-622 (791)
257 PF12857 TOBE_3: TOBE-like dom 26.1 2.7E+02 0.0059 20.5 6.8 49 108-166 6-56 (58)
258 PRK13159 cytochrome c-type bio 26.0 3.9E+02 0.0084 24.5 7.9 58 102-170 49-110 (155)
259 TIGR00472 pheT_bact phenylalan 25.9 1.3E+02 0.0027 34.6 5.9 106 256-365 498-629 (798)
260 cd05702 S1_Rrp5_repeat_hs11_sc 25.6 1.7E+02 0.0036 22.2 4.9 53 108-166 3-56 (70)
261 PF15490 Ten1_2: Telomere-capp 25.5 3.8E+02 0.0083 23.3 7.5 68 92-172 7-80 (118)
262 cd05685 S1_Tex S1_Tex: The C-t 25.0 1.5E+02 0.0032 21.6 4.4 51 108-166 3-54 (68)
263 cd05708 S1_Rrp5_repeat_sc12 S1 24.7 1.3E+02 0.0028 22.8 4.1 53 108-166 5-57 (77)
264 COG2176 PolC DNA polymerase II 24.4 8.5E+02 0.018 29.7 11.9 79 106-193 241-323 (1444)
265 PLN02900 alanyl-tRNA synthetas 24.4 1.2E+02 0.0026 35.6 5.4 100 252-362 14-128 (936)
266 PRK08582 hypothetical protein; 24.3 1.6E+02 0.0035 26.1 5.2 54 103-166 5-59 (139)
267 KOG1637 Threonyl-tRNA syntheta 23.9 58 0.0013 34.9 2.5 93 249-346 193-308 (560)
268 PF02721 DUF223: Domain of unk 23.7 4E+02 0.0086 21.6 7.7 64 127-196 3-68 (95)
269 PRK13902 alaS alanyl-tRNA synt 23.6 1.2E+02 0.0026 35.4 5.2 99 252-364 62-175 (900)
270 cd04497 hPOT1_OB1_like hPOT1_O 23.6 3.7E+02 0.0081 23.5 7.4 72 91-170 2-82 (138)
271 PF08496 Peptidase_S49_N: Pept 23.3 96 0.0021 28.3 3.5 24 19-42 61-84 (155)
272 PRK01584 alanyl-tRNA synthetas 22.7 2.2E+02 0.0047 31.7 6.7 97 252-363 4-109 (594)
273 PF03843 Slp: Outer membrane l 21.7 5.7E+02 0.012 23.2 8.3 71 92-172 22-106 (160)
274 cd05689 S1_RPS1_repeat_ec4 S1_ 21.7 1.4E+02 0.0031 22.5 3.8 28 108-141 6-33 (72)
275 cd04461 S1_Rrp5_repeat_hs8_sc7 20.8 1.9E+02 0.004 22.7 4.4 55 102-166 13-68 (83)
276 TIGR03683 A-tRNA_syn_arch alan 20.4 1.7E+02 0.0036 34.2 5.6 97 252-362 59-170 (902)
277 PRK05807 hypothetical protein; 20.4 1.8E+02 0.004 25.6 4.7 67 108-190 8-75 (136)
No 1
>KOG0556 consensus Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.9e-109 Score=815.60 Aligned_cols=407 Identities=56% Similarity=0.819 Sum_probs=382.9
Q ss_pred cccCCccccChhHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCCCCCccCCChhhhhccCCCCCCCccccccCcce
Q 013856 13 EVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSVNDPQTGKWSEAVSGREW 92 (435)
Q Consensus 13 ~~~~~~~~~sk~~lkk~~k~~~k~~kka~~~~~~~~~~~~~~~~~d~~~~~Yg~~~~~~~~~~~~pyp~~~~~~~~~~~~ 92 (435)
..+++|+ +|||++||.+|+++|..+|+|++..+. ++..++++|.++++||++++.++|+. +++.|
T Consensus 6 ~~gE~gk-~SKK~~kk~a~~~eK~~~k~e~~~~~~--~a~~~~~ed~~~~~yg~~~l~~s~~~------------~~~~~ 70 (533)
T KOG0556|consen 6 ALGEDGK-LSKKALKKLAKKLEKLRKKQEREETAA--KAREAEAEDYAKERYGDLSLIQSQSK------------EGREL 70 (533)
T ss_pred hcccccc-ccHHHHHHHHHHHHHHHhhhhhhhhhh--hhhhhhhhhHHhhhcCcccccccccc------------cccce
Confidence 3455676 999999999999999999988654222 22335677889999999999988873 78899
Q ss_pred eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCC-CCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856 93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPD-SVSKEMVRFVRSLSNESIVDVIGVVSV 171 (435)
Q Consensus 93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~-~~~~~~~~~~~~l~~esiV~V~G~v~~ 171 (435)
+.+.+|+.+..|+.||||||||+.|.+| |+||++|||++.+|||++..+.+ .++++|++|+++|+.||||+|.|+|++
T Consensus 71 ~~v~dl~~~~~~~~V~vRgrVhtsr~~G-K~~FlvLRq~~~tVQ~~~~~~~~~~isk~Mvkf~~~is~ESiV~v~g~v~k 149 (533)
T KOG0556|consen 71 TDVSDLDESNDGSEVLVRGRVHTSRLKG-KLCFLVLRQQGSTVQCLVAVNEDGTISKQMVKFAGSISKESIVDVRGVVVK 149 (533)
T ss_pred eehhhhhhhcCCceEEEEEEEeeccccc-eEEEEEEeccCceEEEEEEcCCCchHHHHHHHHHhhcCcceEEEEEEEEec
Confidence 9999999999999999999999999999 99999999999999999988765 389999999999999999999999999
Q ss_pred CCccCCCCc-eeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHH
Q 013856 172 PDVEIKGAT-QQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFR 249 (435)
Q Consensus 172 ~~~~~~~~t-~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~ 249 (435)
++.|++||| +++||+|.+|+|||.+ +.||++++|++|++.+.+++.+.+..+.++++|||||||+||||||++|+|||
T Consensus 150 ~~~~i~scT~qdvEi~v~~iyviS~a~~~LPl~veDasrse~~eE~a~~~~~~~~~Vn~dtRLdnRvlDLRtptnqAiFr 229 (533)
T KOG0556|consen 150 VKEPIKSCTVQDVEIHVRKIYVISIALPNLPLQVEDASRSEPDEEKAAEPESTLARVNLDTRLDNRVLDLRTPTNQAIFR 229 (533)
T ss_pred CCCcccccccceeEEEEEEEEEEecccccCCeeehhhcccccchhhhcCCccccceecccccccceeeecccccchheee
Confidence 999999999 6699999999999999 99999999999988766666666667889999999999999999999999999
Q ss_pred HHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcC
Q 013856 250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDS 329 (435)
Q Consensus 250 ~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s 329 (435)
+++.||.+||+||..+||+|||||+|+++++|||+++|.|+||+.++||+|||||||||+|||||+|||+||||||||+|
T Consensus 230 iq~gvc~~FRe~L~~kgF~EIhTpKli~asSEGGanvF~v~Yfk~~A~LAQSPQLyKQMaI~gdf~rVyeIGpVfRAEdS 309 (533)
T KOG0556|consen 230 IQAGVCFAFREYLRSKGFVEIHTPKLIGASSEGGANVFRVSYFKQKAYLAQSPQLYKQMAICGDFERVYEIGPVFRAEDS 309 (533)
T ss_pred hHHHHHHHHHHHHHhcCcceecccccccccCCCCceeEEEEeccCcchhhcChHHHHHHHHhcchhheeeecceeecccc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHHHHH
Q 013856 330 YTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKD 409 (435)
Q Consensus 330 ~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~~ 409 (435)
||||||+||++||+||+|..||+|+|+++.+||.+||+.|.++|+++|+.++.+||+++++|..|..|++|.||++||++
T Consensus 310 nthRhltEFvGLD~EMaf~~hYhEVm~~i~~lfv~IF~~l~ery~~Eie~Vr~qyp~e~fkf~~~~lrl~~~e~v~mLre 389 (533)
T KOG0556|consen 310 NTHRHLTEFVGLDLEMAFNEHYHEVMDTIGELFVFIFKGLRERYAKEIETVRKQYPFEPFKFLEPPLRLTFKEGVAMLRE 389 (533)
T ss_pred chhhhhHHhhCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcccccCCCceEeehHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCCCCCCCcHHHHHHHHHHhcC
Q 013856 410 AGVEIDPLGDLNTESERKLGQLVLEK 435 (435)
Q Consensus 410 ~g~~~~~~~dl~te~E~~L~~~vkek 435 (435)
+|+++++.+||+||.||+||++|+||
T Consensus 390 aGvE~g~~dDlsTe~Ek~LG~lV~ek 415 (533)
T KOG0556|consen 390 AGVEMGDEDDLSTESEKKLGQLVREK 415 (533)
T ss_pred cCcccCCccccCChhHHHHHHHHHHH
Confidence 99999999999999999999999987
No 2
>PLN02850 aspartate-tRNA ligase
Probab=100.00 E-value=1.1e-93 Score=756.89 Aligned_cols=407 Identities=71% Similarity=1.072 Sum_probs=366.2
Q ss_pred cccCCccccChhHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCCCCCccCCChhhhhccCCCCCCCccccccCcce
Q 013856 13 EVDSSSQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSVNDPQTGKWSEAVSGREW 92 (435)
Q Consensus 13 ~~~~~~~~~sk~~lkk~~k~~~k~~kka~~~~~~~~~~~~~~~~~d~~~~~Yg~~~~~~~~~~~~pyp~~~~~~~~~~~~ 92 (435)
.++..+..+|||++||++|+++|++++++++++. ++ ...++|..+++||++|+.++++. .+.++|
T Consensus 5 ~~~~~~~~~~~~~~~k~~~~~~~~~~~~~~~~~~-~~---~~~~~~~~~~~yg~~~~~~~~~~-----------~~~~~~ 69 (530)
T PLN02850 5 AVEESGEKISKKAAKKAAAKAEKLRREATAKAAA-AS---LEDEDDPLASNYGDVPLEELQSK-----------VTGREW 69 (530)
T ss_pred cccccCCCcCHHHHHHHHHHHHHHHHHHHHHHHH-hh---hccccchhhccCCcccccccccc-----------cCCceE
Confidence 3455677799999999999999998876633221 11 12256888999999999876641 256789
Q ss_pred eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856 93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP 172 (435)
Q Consensus 93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~ 172 (435)
+.|++|++.+.|++|+|+||||++|.+| +++|++|||++++||||+..+...++++|++|+..|+.||+|.|+|+|+.|
T Consensus 70 ~~i~~l~~~~~g~~V~v~Grv~~~R~~g-k~~Fl~Lrd~~~~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~ 148 (530)
T PLN02850 70 TDVSDLGEELAGSEVLIRGRVHTIRGKG-KSAFLVLRQSGFTVQCVVFVSEVTVSKGMVKYAKQLSRESVVDVEGVVSVP 148 (530)
T ss_pred eEhhhcchhhCCCEEEEEEEEEEEccCC-CeEEEEEEeCCcCEEEEEECCccccCHHHHHHHhCCCCCCEEEEEEEEEcc
Confidence 9999999999999999999999999999 699999999999999999876544789999999999999999999999998
Q ss_pred CccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHH
Q 013856 173 DVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQ 251 (435)
Q Consensus 173 ~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~r 251 (435)
..|++++++++||++++|+|||+| ++||++++|+++++.+.+.....+..++++++++||+|||||||++.+++||++|
T Consensus 149 ~~~~~~~t~~~El~~~~i~vls~a~~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~rl~~R~LdlR~~~~qaifrir 228 (530)
T PLN02850 149 KKPVKGTTQQVEIQVRKIYCVSKALATLPFNVEDAARSESEIEKALQTGEQLVRVGQDTRLNNRVLDLRTPANQAIFRIQ 228 (530)
T ss_pred CcCCCCCCccEEEEEeEEEEEeCCCCCCCCChhhcccccccccccccccccccccChhhhhcchhhhhcCHHHHHHHHHH
Confidence 888899999999999999999999 9999999998876543322111233467889999999999999999999999999
Q ss_pred HHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCCC
Q 013856 252 SQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYT 331 (435)
Q Consensus 252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t 331 (435)
|.|+++||+||.++||+||+||+|+++++|||+++|.|+|||+++||+|||||||||++++|++||||||||||||+|+|
T Consensus 229 s~i~~~~R~fl~~~gF~EV~TP~L~~~~~egga~~F~v~yf~~~~~L~qSpql~kq~li~~g~~rVfeIgp~FRaE~s~t 308 (530)
T PLN02850 229 SQVCNLFREFLLSKGFVEIHTPKLIAGASEGGSAVFRLDYKGQPACLAQSPQLHKQMAICGDFRRVFEIGPVFRAEDSFT 308 (530)
T ss_pred HHHHHHHHHHHHHCCcEEEeCCccccCCCccccceeeeccCCcceecCCCHHHHHHHHHHhcCCceEEEecccccCCCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHHHHHcC
Q 013856 332 HRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAG 411 (435)
Q Consensus 332 ~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~~~g 411 (435)
+|||||||||||||+|.++|+|+|+++|+||++|+..+.++|..+|+.++.++|++++.+..+++|+||.||++||++.|
T Consensus 309 ~RHl~EFt~Le~Em~~~~~y~evm~~~E~ll~~i~~~l~~~~~~el~~i~~~~~~~~~~~~~~~~rit~~ea~~~L~~~g 388 (530)
T PLN02850 309 HRHLCEFTGLDLEMEIKEHYSEVLDVVDELFVAIFDGLNERCKKELEAIREQYPFEPLKYLPKTLRLTFAEGIQMLKEAG 388 (530)
T ss_pred CccchhhccchhhhhhhcCHHHHHHHHHHHHHHHHHHHHhhhhhhHHhhcccCCcchhhhcCCcccCCHHHHHHHHHHcC
Confidence 99999999999999999889999999999999999999999999999999888988888888999999999999999999
Q ss_pred CCCCCCCCCCcHHHHHHHHHHhcC
Q 013856 412 VEIDPLGDLNTESERKLGQLVLEK 435 (435)
Q Consensus 412 ~~~~~~~dl~te~E~~L~~~vkek 435 (435)
+++++++||++++|+.||++|+++
T Consensus 389 ~~~~~~~dl~~~~E~~Lg~~v~~~ 412 (530)
T PLN02850 389 VEVDPLGDLNTESERKLGQLVKEK 412 (530)
T ss_pred CCCCCCCCcchHHHHHHHHHHHHh
Confidence 998889999999999999999874
No 3
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=100.00 E-value=2.6e-88 Score=716.58 Aligned_cols=390 Identities=43% Similarity=0.682 Sum_probs=344.1
Q ss_pred ccccChhHHHHHHHHHHHHHHHHHHHHHHHHHhhhcccccCCCCCCccCCChhhhhccCCCCCCCccccccCcceeEecc
Q 013856 18 SQSISKKAAKKEAAKKAKEERRKEAEAAASAASALSIEEEGPLANNYGDVPLQELQSVNDPQTGKWSEAVSGREWTEVGA 97 (435)
Q Consensus 18 ~~~~sk~~lkk~~k~~~k~~kka~~~~~~~~~~~~~~~~~d~~~~~Yg~~~~~~~~~~~~pyp~~~~~~~~~~~~~~i~~ 97 (435)
....+|+++||++|+++|+++++++++....++ .++|..+++||.+|+.|++. .+.++|++|++
T Consensus 7 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~g~~~~~~~~~------------~~~~~~~~i~~ 70 (550)
T PTZ00401 7 DAGAPAVEKKQSDKEARKAARLAEEKARAAEKA----ALVEKYKDVFGAAPMVQSTT------------YKSRTFIPVAV 70 (550)
T ss_pred ccCcchhhHHHHHHHHHhHHHHHHHHHHHHhhh----hccchhhccCCccccccccc------------cCCCceEEHHH
Confidence 456789999999999999998887543222211 15688899999999986654 35678999999
Q ss_pred ccCCC-CCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccC
Q 013856 98 LNGSL-KDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEI 176 (435)
Q Consensus 98 l~~~~-~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~ 176 (435)
|+..+ .|++|+|+|||+++|.+| +++|++|||++++||||+..+. .++++|++|+..|+.||+|+|+|+|+.+..++
T Consensus 71 l~~~~~~g~~V~v~Grv~~~R~~G-k~~Fl~LRd~~~~iQ~v~~~~~-~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~ 148 (550)
T PTZ00401 71 LSKPELVDKTVLIRARVSTTRKKG-KMAFMVLRDGSDSVQAMAAVEG-DVPKEMIDFIGQIPTESIVDVEATVCKVEQPI 148 (550)
T ss_pred CCccccCCCEEEEEEEEEEEecCC-CeEEEEEEeCCcCEEEEEECCC-ccCHHHHHHHhcCCCCCEEEEEEEEEecCccC
Confidence 98777 899999999999999999 8899999999999999997653 36889999999999999999999999887777
Q ss_pred CCCc-eeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHHHHH
Q 013856 177 KGAT-QQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQV 254 (435)
Q Consensus 177 ~~~t-~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i 254 (435)
++++ +++||++++|+|||+| ++||++++|+++++. .....++++|||+|||||||++.++++|++||.|
T Consensus 149 ~~~~~~~~El~v~~i~vls~a~~~lP~~~~d~~~~~~---------~~~~~~~~dtrl~~R~LdlR~~~~~~i~r~rs~i 219 (550)
T PTZ00401 149 TSTSHSDIELKVKKIHTVTESLRTLPFTLEDASRKES---------DEGAKVNFDTRLNSRWMDLRTPASGAIFRLQSRV 219 (550)
T ss_pred CCCCCccEEEEeeEEEEEeCCCCCCCCCccccccccc---------ccccccChhhhhhhhhhhhcCHHHHHHHHHHHHH
Confidence 6666 6799999999999999 899999999876432 1234578999999999999999999999999999
Q ss_pred HHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCCCCcc
Q 013856 255 GNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRH 334 (435)
Q Consensus 255 ~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t~rH 334 (435)
+++||+||.++||+|||||+|+++++|||+++|.++|||.++||+|||||||||+++||++|||+||||||||+++|+||
T Consensus 220 ~~~~R~fl~~~gFiEV~TP~L~~~~~egga~~F~v~yf~~~~~L~qSpql~kq~li~~g~~rVfeI~p~FRaE~s~T~RH 299 (550)
T PTZ00401 220 CQYFRQFLIDSDFCEIHSPKIINAPSEGGANVFKLEYFNRFAYLAQSPQLYKQMVLQGDVPRVFEVGPVFRSENSNTHRH 299 (550)
T ss_pred HHHHHHHHHHCCCEEEeCCccccCCCCccccccccccCCCCeecCCCHHHHHHHHHhcCCCCEEEEeCeEeCCCCCCCCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCC----------------------
Q 013856 335 LCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYK---------------------- 392 (435)
Q Consensus 335 l~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~---------------------- 392 (435)
|||||||||||+|.++|+|+|+++|+||.+++..+.++ ..+|+.++.++|++++.|.
T Consensus 300 l~EFt~Le~E~~~~~~y~evm~~~e~l~~~i~~~l~~~-~~ei~~~~~~~p~~~~~~~~~~~~~~~~g~~~~~~~~~~~~ 378 (550)
T PTZ00401 300 LTEFVGLDVEMRINEHYYEVLDLAESLFNYIFERLATH-TKELKAVCQQYPFEPLVWKLTPERMKELGVGVISEGVEPTD 378 (550)
T ss_pred ccchhhhhhhhHhcCCHHHHHHHHHHHHHHHHHHHHcc-chhhhhhccccccccccccccHHHHHhcCCCcccccccchH
Confidence 99999999999998789999999999999999999876 4567777766776554221
Q ss_pred ----------CCCccccHHHHHHHHHHcC-CCCCCCCCCCcHHHHHHHHHHhcC
Q 013856 393 ----------PKTLRLTFEEGVQMLKDAG-VEIDPLGDLNTESERKLGQLVLEK 435 (435)
Q Consensus 393 ----------~p~~rit~~eai~ll~~~g-~~~~~~~dl~te~E~~L~~~vkek 435 (435)
.||+||+|.||++||++.| .+++|++||++++|+.||++|+++
T Consensus 379 ~l~~~~~~~~~~~~rl~y~eai~lL~~~~~~~~~~~~dl~~~~E~~L~~~v~~~ 432 (550)
T PTZ00401 379 KYQARVHNMDSRMLRINYMHCIELLNTVLEEKMAPTDDINTTNEKLLGKLVKER 432 (550)
T ss_pred HHHHHHHhcCCCcccccHHHHHHHHHHhcccCCCcccccCchHHHHHHHHHHHh
Confidence 2489999999999999986 567888999999999999999864
No 4
>KOG1885 consensus Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.2e-81 Score=625.55 Aligned_cols=380 Identities=23% Similarity=0.355 Sum_probs=323.9
Q ss_pred ccccChhHHHHHHHHHHHHHHHHHHHHHHH------HHhhhcccccCCCCCCccCCChhhhhcc----CCCCCCCccccc
Q 013856 18 SQSISKKAAKKEAAKKAKEERRKEAEAAAS------AASALSIEEEGPLANNYGDVPLQELQSV----NDPQTGKWSEAV 87 (435)
Q Consensus 18 ~~~~sk~~lkk~~k~~~k~~kka~~~~~~~------~~~~~~~~~~d~~~~~Yg~~~~~~~~~~----~~pyp~~~~~~~ 87 (435)
.+++||++|||+.+..+|+..++.+++... .+......+++.++.+|.++|...++++ .|||||||++++
T Consensus 5 s~~~sk~~lkrr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~~~d~~qy~~~R~r~i~~l~~s~~~Pyphkf~vs~ 84 (560)
T KOG1885|consen 5 SEMLSKNELKRRSLAKQKALEKAKKASSKAAAPSVAAAKSVSKSEETSDPEQYFKIRSRAIEELRASGLNPYPHKFHVSI 84 (560)
T ss_pred hhhhhHHHHHHhHHHhhHHHHHHHhhhhccCCCccccccccccccccCCHHHHHHHHHHHHHHHhhcCCCCCcchhhccc
Confidence 478999999999999888776665432111 1111335677889999999999988774 599999999999
Q ss_pred cCccee-Eeccc--cCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEE
Q 013856 88 SGREWT-EVGAL--NGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVD 164 (435)
Q Consensus 88 ~~~~~~-~i~~l--~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~ 164 (435)
+..+|. ++..+ +++..+..|+|+||||++|.+|+||+|++|++++.+||+|++.+....+.++....+.|++||||+
T Consensus 85 si~~fieky~~l~~ge~~~n~~~svaGRI~s~R~sGsKL~Fydl~~~g~klQvm~~~~~~~~~~~F~~~~~~lkrGDiig 164 (560)
T KOG1885|consen 85 SIPDFIEKYLHLATGEHLDNEIVSVAGRIHSKRESGSKLVFYDLHGDGVKLQVMANAKKITSEEDFEQLHKFLKRGDIIG 164 (560)
T ss_pred cHHHHHHHhcCcccccccccceeeeeeeEeeeeccCCceEEEEEecCCeEEEEEEehhhcCCHHHHHHHHhhhhccCEEe
Confidence 986653 22322 455667789999999999999999999999999999999999876534455666778899999999
Q ss_pred EEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeec-h
Q 013856 165 VIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRT-L 242 (435)
Q Consensus 165 V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~-~ 242 (435)
|.|.+++ +.+++++|.+.+|.+|||| ++||.. ++++.|+|+|+++|||||+. +
T Consensus 165 ~~G~pgr------t~~gELSi~~~~~~lLspcLh~lP~~-------------------~~gLkD~EtRyrqRylDlilN~ 219 (560)
T KOG1885|consen 165 VSGYPGR------TKSGELSIIPNEIILLSPCLHMLPHE-------------------HFGLKDKETRYRKRYLDLILNP 219 (560)
T ss_pred eecCCCc------CCCceEEEeecchheecchhccCChh-------------------hcCCCcHHHHHHHHHHHHHcCH
Confidence 9996654 3457999999999999999 999942 67889999999999999987 7
Q ss_pred hhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcc--eeee--ccCCCceeeccChHHHHhhhccCCCceeE
Q 013856 243 ANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSA--VFRL--DYKGQSACLAQSPQLHKQMSICGDFGRVF 318 (435)
Q Consensus 243 ~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~--~F~~--~~~~~~~~L~~Spql~lq~li~~g~~rVf 318 (435)
.++..|++|++|+.+||.||+++||+||+||||+. ..|||. ||.+ +.++.++|||+|||||+|||++||++|||
T Consensus 220 ~~r~~f~~RakII~~iRkfld~rgFlEVETPmmn~--iaGGA~AkPFIT~hndldm~LylRiAPEL~lK~LvVGGldrVY 297 (560)
T KOG1885|consen 220 EVRDRFRIRAKIISYIRKFLDSRGFLEVETPMMNM--IAGGATAKPFITHHNDLDMDLYLRIAPELYLKMLVVGGLDRVY 297 (560)
T ss_pred HHHHHHHHHHHHHHHHHHHhhhcCceEecchhhcc--ccCccccCceeecccccCcceeeeechHHHHHHHHhccHHHHH
Confidence 89999999999999999999999999999999975 456655 9998 45899999999999999999999999999
Q ss_pred EEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccc
Q 013856 319 ETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRL 398 (435)
Q Consensus 319 eIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~ri 398 (435)
|||++||||+. +.+||||||.|||||||+| |+|+|+++|+||+.+++.+.+.|.......+...+.-.++|.+||+||
T Consensus 298 EIGr~FRNEGI-DlTHNPEFTTcEfY~AYad-y~dlm~~TE~l~s~mv~~i~G~~~i~y~p~~~~~~~~eldf~~pfrri 375 (560)
T KOG1885|consen 298 EIGRQFRNEGI-DLTHNPEFTTCEFYMAYAD-YEDLMDMTEELLSGMVKNITGSYKITYHPNGPEEPELELDFTRPFRRI 375 (560)
T ss_pred HHHHHhhhcCc-ccccCCCcchHHHHHHHhh-HHHHHHHHHHHHHHHHHhhcCceeEeecCCCCCCCceeeeccCCeeee
Confidence 99999999995 9999999999999999997 999999999999999999998886554444443444458999999999
Q ss_pred cHHHHHHHHHHcCCCCCCCCCCCcHHHHHH
Q 013856 399 TFEEGVQMLKDAGVEIDPLGDLNTESERKL 428 (435)
Q Consensus 399 t~~eai~ll~~~g~~~~~~~dl~te~E~~L 428 (435)
+|-+.++ ++.|++++++++|++++-+.+
T Consensus 376 ~mi~~L~--k~lgi~l~~~~~l~~~e~~~~ 403 (560)
T KOG1885|consen 376 EMIEELE--KELGIKLPPGSTLHTEETREL 403 (560)
T ss_pred eHHHHHH--HHhCCCCCCccccCchhhHHH
Confidence 9999998 899999999999999877554
No 5
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.1e-75 Score=596.54 Aligned_cols=310 Identities=35% Similarity=0.564 Sum_probs=282.2
Q ss_pred eeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856 92 WTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV 171 (435)
Q Consensus 92 ~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~ 171 (435)
.+.+.++.+...|+.|+|+|||+++|.+| +++|+.|||+++.||||+.+++ +.+++++ ++.|+.||+|.|+|+|+.
T Consensus 4 ~~~i~di~~~~~~~~V~v~GWV~~~R~~g-~i~Fi~lrDgsg~iQ~v~~~~~--~~~~~~~-~~~L~~es~v~V~G~v~~ 79 (435)
T COG0017 4 RTYIKDIKPHVGGQEVTVRGWVHNKRDLG-KIIFLVLRDGSGFIQAVVPKNK--VYEELFK-AKKLTLESSVVVTGIVKA 79 (435)
T ss_pred eeeHHhhhccCCCcEEEEEEEeeeecccC-CeEEEEEEcCCcEEEEEEECCC--CcHHHhh-hhcCCCccEEEEEEEEEc
Confidence 35566776666669999999999999999 7999999999999999998652 3677888 899999999999999987
Q ss_pred CCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHH
Q 013856 172 PDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRI 250 (435)
Q Consensus 172 ~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~ 250 (435)
.++ +.|++||++++|.|++.+ .++|++.+.. +++++|++|||||||++..++||++
T Consensus 80 ~~~----a~~g~El~v~~i~Vl~~a~~~~Pi~~~~~-------------------~~~e~lld~rhL~lR~~~~~Av~ki 136 (435)
T COG0017 80 SPK----APQGFELQVEKIEVLGEADPPYPIDKKEH-------------------SELETLLDNRHLDLRTPKIQAVFKI 136 (435)
T ss_pred CCC----CCCCEEEEEEEEEEeeccCCCCCcCcccc-------------------cCHHHHHhchheeccccchHHHHhH
Confidence 653 347899999999999999 7899986542 2689999999999999999999999
Q ss_pred HHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCC
Q 013856 251 QSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSY 330 (435)
Q Consensus 251 rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~ 330 (435)
||.|++++|+||.++||+||+||+|+++++|||+++|.++||+.++||+||||||||+++++ |+|||+|||+||||+|+
T Consensus 137 rs~i~~a~~eff~~~gF~eV~tP~i~~~~~EGg~elF~v~yf~~~a~LtqS~QLyke~~~~a-l~rVf~igP~FRAE~s~ 215 (435)
T COG0017 137 RSSILRAIREFFYENGFTEVHTPIITASATEGGGELFKVDYFDKEAYLTQSPQLYKEALAAA-LERVFTIGPTFRAEKSN 215 (435)
T ss_pred HHHHHHHHHHHHHhCCcEEecCceEeccCCCCCceeEEEeecCcceEEecCHHHHHHHHHHH-hCceEEecCceecCCCC
Confidence 99999999999999999999999999999999999999999999999999999999988776 99999999999999999
Q ss_pred CCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccC--CCCCccccHHHHHHHHH
Q 013856 331 THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKY--KPKTLRLTFEEGVQMLK 408 (435)
Q Consensus 331 t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~--~~p~~rit~~eai~ll~ 408 (435)
|.|||.||||+|.||+|++ ++|+|+++|+||+++++.+.++|..+|+.+++ +...++. ..||+||||.|||++|+
T Consensus 216 T~RHL~EF~~ld~Emaf~~-~~d~m~l~E~~i~~i~~~v~e~~~~el~~l~~--~~~~l~~~~~~pf~ritY~eAieiL~ 292 (435)
T COG0017 216 TRRHLSEFWMLDPEMAFAD-LNDVMDLAEELIKYLFKKVLEECADELEFLGR--DNSELKRPESAPFPRITYKEAIEILE 292 (435)
T ss_pred CcchhhhHheecceeccCc-HHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhc--cchhhcccccCCccEEEHHHHHHHHH
Confidence 9999999999999999998 99999999999999999999999999999876 2233433 35899999999999999
Q ss_pred HcCCC-CCCCCCCCcHHHHHHHHHH
Q 013856 409 DAGVE-IDPLGDLNTESERKLGQLV 432 (435)
Q Consensus 409 ~~g~~-~~~~~dl~te~E~~L~~~v 432 (435)
+.|.+ +.|++||++++||+|++..
T Consensus 293 ~~~~e~~~~GdDl~~e~Er~l~e~~ 317 (435)
T COG0017 293 EKGFEKVEWGDDLGTEHERYLGEEY 317 (435)
T ss_pred hcCCcccCCCCccCCHHHHHHHHHh
Confidence 99998 9999999999999999643
No 6
>PLN02502 lysyl-tRNA synthetase
Probab=100.00 E-value=4.8e-75 Score=615.88 Aligned_cols=370 Identities=24% Similarity=0.365 Sum_probs=300.1
Q ss_pred CCccccChhHHHHHHHHHHHHHHHHHHHHHHHH--Hhh--------hcccccCCCCCCccCCChhhhhcc----CCCCCC
Q 013856 16 SSSQSISKKAAKKEAAKKAKEERRKEAEAAASA--ASA--------LSIEEEGPLANNYGDVPLQELQSV----NDPQTG 81 (435)
Q Consensus 16 ~~~~~~sk~~lkk~~k~~~k~~kka~~~~~~~~--~~~--------~~~~~~d~~~~~Yg~~~~~~~~~~----~~pyp~ 81 (435)
..++++||+++||++|+++++++++++++++++ ++. .+++.++.++++|..+|...++.+ .|||||
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~~~~~l~~~g~~pyp~ 82 (553)
T PLN02502 3 SNGEPLSKNALKKRLKAKQAEEEKAAKEEAKAAAAAAAAKGRSRKSAAADDETMDPTQYRANRLKKVEALRAKGVEPYPY 82 (553)
T ss_pred CCcccccHHHHHHHHhhhhhhHHHhhhHhhcccccccccCccccccccccccccCHHHHHHHHHHHHHHHHHcCCCCCCC
Confidence 467899999999999999999888765432211 000 111222456678888888776653 599999
Q ss_pred CccccccCccee-Eeccc--cCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCC-HHHHHHHhcC
Q 013856 82 KWSEAVSGREWT-EVGAL--NGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVS-KEMVRFVRSL 157 (435)
Q Consensus 82 ~~~~~~~~~~~~-~i~~l--~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~-~~~~~~~~~l 157 (435)
+|+++++..++. .+..+ ++...|++|+|+|||+++|.+| |++|++|||+++.||||+..+....+ ..+..+...|
T Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~G-k~~F~~LrD~~g~iQv~~~~~~~~~~~~~~~~~~~~l 161 (553)
T PLN02502 83 KFDVTHTAPELQEKYGSLENGEELEDVSVSVAGRIMAKRAFG-KLAFYDLRDDGGKIQLYADKKRLDLDEEEFEKLHSLV 161 (553)
T ss_pred CCCCCccHHHHHHHhhccccccccCCCEEEEEEEEEEEecCC-CeEEEEEecCCccEEEEEECccccchhHHHHHHHhCC
Confidence 999998876542 23333 3456789999999999999999 89999999999999999986532111 2355555679
Q ss_pred CCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccce
Q 013856 158 SNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRV 236 (435)
Q Consensus 158 ~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~ 236 (435)
+.||+|.|+|++.++. ++++||++++|.|||+| .+||.... +..+.++|+++||
T Consensus 162 ~~gdiV~V~G~~~~t~------~gelel~~~~i~vLs~~l~plP~k~~-------------------~~~d~e~r~r~Ry 216 (553)
T PLN02502 162 DRGDIVGVTGTPGKTK------KGELSIFPTSFEVLTKCLLMLPDKYH-------------------GLTDQETRYRQRY 216 (553)
T ss_pred CCCcEEEEEEEEEecC------CCCEEEEEeEEEEEeccCCCCCcccc-------------------cccchhhhccchh
Confidence 9999999999998643 47899999999999999 89997533 3478999999999
Q ss_pred eeee-chhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee--ccCCCceeeccChHHHHhhhccCC
Q 013856 237 IDIR-TLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL--DYKGQSACLAQSPQLHKQMSICGD 313 (435)
Q Consensus 237 Ldlr-~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~--~~~~~~~~L~~Spql~lq~li~~g 313 (435)
|||| ++.++++|++||.|+++||+||+++||+||+||+|++++.++++.+|.+ +||+.++||+||||||||+|++||
T Consensus 217 Ldl~~n~~~~~i~r~Rs~i~~~iR~fl~~~gF~EVeTPiL~~~~gGA~a~pF~t~~n~~~~~~yL~~Spel~lK~L~v~g 296 (553)
T PLN02502 217 LDLIANPEVRDIFRTRAKIISYIRRFLDDRGFLEVETPMLNMIAGGAAARPFVTHHNDLNMDLYLRIATELHLKRLVVGG 296 (553)
T ss_pred hhhhcCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCeeeccCCCccccceeeecccCCcceeeecCHHHHHHHHHHhc
Confidence 9996 6999999999999999999999999999999999987543223458988 789999999999999999999999
Q ss_pred CceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCC
Q 013856 314 FGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKP 393 (435)
Q Consensus 314 ~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~ 393 (435)
++||||||||||||+++ .|||||||||||||+|++ |+|+|+++|+||+++++.+.+.|... +....++|..
T Consensus 297 ~~rVfeIg~~FRnE~~~-~rH~pEFtmlE~y~a~~d-~~dlm~~~E~li~~i~~~v~~~~~~~-------~~~~~i~~~~ 367 (553)
T PLN02502 297 FERVYEIGRQFRNEGIS-TRHNPEFTTCEFYQAYAD-YNDMMELTEEMVSGMVKELTGSYKIK-------YHGIEIDFTP 367 (553)
T ss_pred cCCEEEEcCeeeCCCCC-CccccceeehhhhhhcCC-HHHHHHHHHHHHHHHHHHHhcccccc-------cCCccccCCC
Confidence 99999999999999985 599999999999999996 99999999999999999998776533 2334577888
Q ss_pred CCccccHHHHHHHHHHcCCCCCCCCCCCcHH
Q 013856 394 KTLRLTFEEGVQMLKDAGVEIDPLGDLNTES 424 (435)
Q Consensus 394 p~~rit~~eai~ll~~~g~~~~~~~dl~te~ 424 (435)
||+|+||.||++ +..|++++. |++.++
T Consensus 368 p~~rit~~e~l~--~~~g~~~~~--~~~~~~ 394 (553)
T PLN02502 368 PFRRISMISLVE--EATGIDFPA--DLKSDE 394 (553)
T ss_pred CceeccHHHHHH--HHhCCCCCc--CCCHHH
Confidence 999999999997 556776543 344443
No 7
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=100.00 E-value=8.7e-73 Score=588.69 Aligned_cols=314 Identities=39% Similarity=0.616 Sum_probs=285.9
Q ss_pred eeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856 92 WTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV 171 (435)
Q Consensus 92 ~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~ 171 (435)
.+.+++|.+...|++|+|+|||+++|.+| |++|++|||+++.||||++.+. + ++++++++.|+.||+|.|+|+|..
T Consensus 4 ~~~~~~l~~~~~g~~V~i~GrV~~~R~~g-k~~Fl~LrD~~g~iQ~v~~~~~--~-~~~~~~~~~L~~gs~V~v~G~v~~ 79 (437)
T PRK05159 4 RHLTSELTPELDGEEVTLAGWVHEIRDLG-GIAFLILRDRSGIIQVVVKKKV--D-EELFETIKKLKRESVVSVTGTVKA 79 (437)
T ss_pred eeEhhhCChhhCCCEEEEEEEeEeeecCC-CeEEEEEEcCCcEEEEEEeCCc--c-HHHHHHHhCCCCCcEEEEEEEEEc
Confidence 46788898888999999999999999999 8999999999999999998653 2 678899999999999999999987
Q ss_pred CCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHH
Q 013856 172 PDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRI 250 (435)
Q Consensus 172 ~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~ 250 (435)
+++ ..+++||++++|+|||+| .++|+...+. ...+.++|++|||||||++.++++|++
T Consensus 80 ~~~----~~~~~el~~~~i~vls~a~~~~P~~~~~~-----------------~~~~~~~~~~~r~Ldlr~~~~~~~l~~ 138 (437)
T PRK05159 80 NPK----APGGVEVIPEEIEVLNKAEEPLPLDISGK-----------------VLAELDTRLDNRFLDLRRPRVRAIFKI 138 (437)
T ss_pred CCC----CCCCEEEEEeEEEEEeCCCCCCCCCcccc-----------------ccCCHHHHhhCcceecCCHHHHHHHHH
Confidence 542 236799999999999999 7999875432 114579999999999999999999999
Q ss_pred HHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCC
Q 013856 251 QSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSY 330 (435)
Q Consensus 251 rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~ 330 (435)
||.|+++||+||.++||+||+||+|+++++|||++.|.++|||.++||+||||||||+++++|++|||+||||||||+++
T Consensus 139 Rs~i~~~iR~ff~~~gf~EV~TP~L~~~~~eg~~~~f~~~~~~~~~~L~~Spql~~q~l~~~g~~rVf~i~~~FR~E~~~ 218 (437)
T PRK05159 139 RSEVLRAFREFLYENGFTEIFTPKIVASGTEGGAELFPIDYFEKEAYLAQSPQLYKQMMVGAGFERVFEIGPVFRAEEHN 218 (437)
T ss_pred HHHHHHHHHHHHHHCCCEEEeCCcccccCCCCCcceEeEEecCCceEecCCHHHHHHHHHhcCCCcEEEEeceeeCCCCC
Confidence 99999999999999999999999999889999999999999999999999999999999999999999999999999998
Q ss_pred CCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHHHHHc
Q 013856 331 THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDA 410 (435)
Q Consensus 331 t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~~~ 410 (435)
|+|||||||||||||+|.++|+++|+++|+||+++++.+.++|..++..++..++ .+..||+||||.||+++|++.
T Consensus 219 t~rHl~EFt~lE~e~a~~~~~~~lm~~~e~lv~~i~~~~~~~~~~~i~~~~~~~~----~~~~~f~rit~~eA~~~l~~~ 294 (437)
T PRK05159 219 TSRHLNEYTSIDVEMGFIDDHEDVMDLLENLLRYMYEDVAENCEKELELLGIELP----VPETPIPRITYDEAIEILKSK 294 (437)
T ss_pred CcccchhhheeeeeeeecccHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhccCCC----cCCCCceEeEHHHHHHHHHHc
Confidence 8999999999999999997799999999999999999999999888877664332 134699999999999999999
Q ss_pred CCCCCCCCCCCcHHHHHHHHHHhc
Q 013856 411 GVEIDPLGDLNTESERKLGQLVLE 434 (435)
Q Consensus 411 g~~~~~~~dl~te~E~~L~~~vke 434 (435)
|.+++|++|+++++|+.|+++|.+
T Consensus 295 ~~~~~~~~~~~~~~e~~l~~~~~~ 318 (437)
T PRK05159 295 GNEISWGDDLDTEGERLLGEYVKE 318 (437)
T ss_pred CCCCCCCCCCCcHHHHHHHHHHhh
Confidence 999999999999999999999865
No 8
>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=5.6e-73 Score=588.24 Aligned_cols=311 Identities=38% Similarity=0.601 Sum_probs=281.0
Q ss_pred EeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCC
Q 013856 94 EVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPD 173 (435)
Q Consensus 94 ~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~ 173 (435)
.+++++.++.|++|+|+|||+++|.+| |++|++|||+++.||||++.+. +++++++++..|+.||+|.|+|+|+..+
T Consensus 2 ~~~~l~~~~~g~~v~i~G~v~~~R~~g-~~~Fi~lrd~~g~iQ~v~~~~~--~~~~~~~~~~~l~~~s~v~v~G~v~~~~ 78 (428)
T TIGR00458 2 YSADIKPEMDGQEVTFMGWVHEIRDLG-GLIFVLLRDREGLIQITAPAKK--VSKNLFKWAKKLNLESVVAVRGIVKIKE 78 (428)
T ss_pred chhhCchhhCCCEEEEEEEEEEEecCC-CcEEEEEEeCCeeEEEEEECCc--CCHHHHHHHhCCCCCcEEEEEEEEEecC
Confidence 356677788899999999999999999 6999999999999999998642 5778999999999999999999998543
Q ss_pred ccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHHH
Q 013856 174 VEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQS 252 (435)
Q Consensus 174 ~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~rs 252 (435)
..++++||++++|+|||+| .+||++.++. ...+.++|++|||||||++..+++|++||
T Consensus 79 ----~~~~~~el~~~~i~vl~~~~~~lP~~~~~~-----------------~~~~~~~r~~~R~ldlr~~~~~~~~r~Rs 137 (428)
T TIGR00458 79 ----KAPGGFEIIPTKIEVINEAKEPLPLDPTEK-----------------VPAELDTRLDYRFLDLRRPTVQAIFRIRS 137 (428)
T ss_pred ----CCCCcEEEEEeEEEEEecCCCCCCCCcccc-----------------CCCCHHHHhhhhhhhhCCHHHHHHHHHHH
Confidence 1347899999999999999 8999987653 12578999999999999999999999999
Q ss_pred HHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCCCC
Q 013856 253 QVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTH 332 (435)
Q Consensus 253 ~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t~ 332 (435)
.|++++|+||.++||+||+||+|+++++|||+++|.++||+.++||+||||||||+++++|++|||+||||||||+++|+
T Consensus 138 ~i~~~iR~ff~~~gf~EV~TP~L~~~~~eg~~~~f~v~~~~~~~yL~~Spql~~q~li~~g~~rVf~i~~~FR~E~~~t~ 217 (428)
T TIGR00458 138 GVLESVREFLAEEGFIEVHTPKLVASATEGGTELFPITYFEREAFLGQSPQLYKQQLMAAGFERVYEIGPIFRAEEHNTH 217 (428)
T ss_pred HHHHHHHHHHHHCCCEEEeCCceecCCCCCCcceeeeEecCCcEEECcCHHHHHHHHHhcccCcEEEEecccccCCCCCc
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999889
Q ss_pred ccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHHHHHcCC
Q 013856 333 RHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGV 412 (435)
Q Consensus 333 rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~~~g~ 412 (435)
|||||||||||||+|++ |+|+|+++|+||+++++.+.++|..+++.++..++. ...||+||||.||+++|++.|+
T Consensus 218 rHl~EFt~lE~e~a~~~-~~dlm~~~e~li~~i~~~~~~~~~~~~~~~~~~~~~----~~~pf~rity~eA~~~l~~~g~ 292 (428)
T TIGR00458 218 RHLNEATSIDIEMAFED-HHDVMDILEELVVRVFEDVPERCAHQLETLEFKLEK----PEGKFVRLTYDEAIEMANAKGV 292 (428)
T ss_pred cchheeeEeeeeeccCC-HHHHHHHHHHHHHHHHHHHHhcchhhhhhccccccc----CCCCceEEEHHHHHHHHHHcCC
Confidence 99999999999999996 999999999999999999999988877654332211 1358999999999999999999
Q ss_pred CCCCCCCCCcHHHHHHHHHHh
Q 013856 413 EIDPLGDLNTESERKLGQLVL 433 (435)
Q Consensus 413 ~~~~~~dl~te~E~~L~~~vk 433 (435)
+++|++||++++|++|++.+.
T Consensus 293 ~~~~~~~l~~~~E~~l~~~~~ 313 (428)
T TIGR00458 293 EIGWGEDLSTEAEKALGEEMD 313 (428)
T ss_pred CCCCccccchHHHHHHHHHhC
Confidence 999999999999999998653
No 9
>PLN02221 asparaginyl-tRNA synthetase
Probab=100.00 E-value=6.8e-70 Score=576.64 Aligned_cols=304 Identities=27% Similarity=0.403 Sum_probs=265.6
Q ss_pred CCCCCCEEEEEEEEeeeccCCC-ceEEEEEEeCC--eEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccC
Q 013856 100 GSLKDQEVLIRGRVHTTRPVGN-KLAFVVVRERV--STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEI 176 (435)
Q Consensus 100 ~~~~g~~V~v~GrV~~~R~~G~-kl~Fl~Lrd~~--~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~ 176 (435)
..+.|+.|+|+||||++|.+|+ +++|++|||++ +.||||+..+.. .....|+.||+|.|+|+|+.++. .
T Consensus 46 ~~~~g~~V~I~GWV~~iR~~Gk~~i~Fl~LRDgs~~g~iQvVv~~~~~-------~~~~~L~~ES~V~V~G~V~~~~~-~ 117 (572)
T PLN02221 46 AGLAGQKVRIGGWVKTGREQGKGTFAFLEVNDGSCPANLQVMVDSSLY-------DLSTLVATGTCVTVDGVLKVPPE-G 117 (572)
T ss_pred hhcCCCEEEEEEEEEehhhCCCceEEEEEEeCCcccccEEEEEcCchh-------hHHhcCCCceEEEEEEEEEeCCc-c
Confidence 5788999999999999999996 48999999999 799999975311 11236899999999999987654 3
Q ss_pred CCCceeEEEEEeEEEEeecC-C-CCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHHHHH
Q 013856 177 KGATQQVEVQIKKLYCVSRA-A-KTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQV 254 (435)
Q Consensus 177 ~~~t~~lEI~v~~i~vls~~-~-~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i 254 (435)
++++|++||++++|.|||+| . ++|++... .+.++++++|||++|++..+++||+||.|
T Consensus 118 ~~~~~~iEl~v~~i~vl~~a~~~~~Pi~~~~--------------------~~~e~lrr~~hLR~R~~~~~Ai~RiRS~i 177 (572)
T PLN02221 118 KGTKQKIELSVEKVIDVGTVDPTKYPLPKTK--------------------LTLEFLRDVLHLRSRTNSISAVARIRNAL 177 (572)
T ss_pred CCCCccEEEEEeEEEEEecCCCCCCCCCCCc--------------------CChHHHhhcchhhcCCHHHHHHHHHHHHH
Confidence 45678999999999999999 3 78876332 35788889999999999999999999999
Q ss_pred HHHHHHHhhcCCeeeecCceeeecCCCCCcceeee---------------------------------------------
Q 013856 255 GNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL--------------------------------------------- 289 (435)
Q Consensus 255 ~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~--------------------------------------------- 289 (435)
+++||+||.++||+||+||+|++++||||++.|.|
T Consensus 178 ~~aiR~ff~~~gFiEI~TP~Lt~s~~EGg~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 257 (572)
T PLN02221 178 AFATHSFFQEHSFLYIHTPIITTSDCEGAGEMFQVTTLINYTERLEQDLIDNPPPTEADVEAARLIVKERGEVVAQLKAA 257 (572)
T ss_pred HHHHHHHHHHCCCEEEeCCeeccccCCCCccceeeeecccccccccccccccCcccchhhhhhhhhhhhhcchhhhhhcc
Confidence 99999999999999999999999999999999876
Q ss_pred ---------------------------------------------ccCCCceeeccChHHHHhhhccCCCceeEEEecce
Q 013856 290 ---------------------------------------------DYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVF 324 (435)
Q Consensus 290 ---------------------------------------------~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~F 324 (435)
+|||+++||+||||||||+++ +||+|||+|||||
T Consensus 258 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dyFg~~ayLtqS~QLy~e~~~-~~l~rVfeIgP~F 336 (572)
T PLN02221 258 KASKEEITAAVAELKIAKESLAHIEERSKLKPGLPKKDGKIDYSKDFFGRQAFLTVSGQLQVETYA-CALSSVYTFGPTF 336 (572)
T ss_pred ccchhhhhhhhhhhhhhhhhhhhhhhhhhcccCCcccccccccccccCCCCeeeccCHHHHHHHHH-HhcCCeEEEccce
Confidence 799999999999999999865 5799999999999
Q ss_pred ecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCc---cc--cCCCCCcccc
Q 013856 325 RAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFE---PL--KYKPKTLRLT 399 (435)
Q Consensus 325 R~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~---~~--~~~~p~~rit 399 (435)
|||+++|+||||||||||+||+|.+ |+|+|+++|+||+++++.+.++|.++++.+...++.. .+ .+..||+|||
T Consensus 337 RAE~s~T~RHL~EFtmlE~Emaf~d-~~dvm~l~E~lv~~i~~~l~~~~~~~l~~l~~~~~~~~~~~l~~~~~~pf~RIt 415 (572)
T PLN02221 337 RAENSHTSRHLAEFWMVEPEIAFAD-LEDDMNCAEAYVKYMCKWLLDKCFDDMELMAKNFDSGCIDRLRMVASTPFGRIT 415 (572)
T ss_pred ecCCCCCCcccccccceeeeeecCC-HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhcCchhhhhhhhccCCCceEEE
Confidence 9999999999999999999999996 8999999999999999999999999998876554321 11 1346999999
Q ss_pred HHHHHHHHHHc---CCC----CCCCCCCCcHHHHHHHHHHh
Q 013856 400 FEEGVQMLKDA---GVE----IDPLGDLNTESERKLGQLVL 433 (435)
Q Consensus 400 ~~eai~ll~~~---g~~----~~~~~dl~te~E~~L~~~vk 433 (435)
|.||+++|++. |.+ +.|++||++++|++|++++.
T Consensus 416 y~EAi~~L~~~~~~g~~~~~~~~~G~dl~~e~Er~L~~~~~ 456 (572)
T PLN02221 416 YTEAIELLEEAVAKGKEFDNNVEWGIDLASEHERYLTEVLF 456 (572)
T ss_pred HHHHHHHHHhhhhcCCCCCCCcchhhhhhHHHHHHHHHHhc
Confidence 99999999984 543 46889999999999999853
No 10
>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=4.1e-70 Score=574.75 Aligned_cols=302 Identities=24% Similarity=0.392 Sum_probs=257.1
Q ss_pred CCCCCCCccccccCcce-eEeccccC---CCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHH
Q 013856 76 NDPQTGKWSEAVSGREW-TEVGALNG---SLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMV 151 (435)
Q Consensus 76 ~~pyp~~~~~~~~~~~~-~~i~~l~~---~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~ 151 (435)
.|||||+|+++++..++ ..+.++.. ...|++|+|+|||+++|.+| |++|++|||++++||+|++.+. ++++++
T Consensus 21 ~~~yp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~Grv~~~R~~g-k~~F~~l~D~~g~iQ~~~~~~~--~~~~~~ 97 (496)
T TIGR00499 21 NNPYLNKFERTHSSQEFQEEYADLSNEELEDKNIEVSIAGRIMARRSMG-KATFITLQDESGQIQLYVNKDD--LPEDFY 97 (496)
T ss_pred CCCCCCCCCCCcCHHHHHHHhhccCccchhcCCCEEEEEEEEEEEecCC-CeEEEEEEcCCccEEEEEECCc--CcHHHH
Confidence 48999999998877543 12222221 24588999999999999988 8999999999999999998642 566777
Q ss_pred HHHhc-CCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcc
Q 013856 152 RFVRS-LSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQD 229 (435)
Q Consensus 152 ~~~~~-l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e 229 (435)
++... |+.||+|.|+|++.++. +|++||++++|.+||+| .+||....+ ..+.+
T Consensus 98 ~~~~~~l~~gd~V~v~G~~~~t~------~gelel~~~~i~ilsk~~~plP~k~~~-------------------~~d~e 152 (496)
T TIGR00499 98 EFDEYLLDLGDIIGVTGYPFKTK------TGELSVHVTELQILTKALRPLPDKFHG-------------------LTDQE 152 (496)
T ss_pred HHHHhcCCCCCEEEEEEEEEECC------CCcEEEEeeEEEEEecCCCCCCccccc-------------------cCChh
Confidence 77764 89999999999997643 47899999999999999 899976432 36889
Q ss_pred cccccceeeeec-hhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeecc--CCCceeeccChHHHH
Q 013856 230 TRLNNRVIDIRT-LANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDY--KGQSACLAQSPQLHK 306 (435)
Q Consensus 230 ~rl~~R~Ldlr~-~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~--~~~~~~L~~Spql~l 306 (435)
+||++||||||+ +.++++|++||.|+++||+||.++||+||+||+|++..+++++.||.+.| |+.++||+|||||||
T Consensus 153 ~r~r~R~Ldl~~n~~~~~~~r~Rs~i~~~iR~fl~~~gF~EVeTP~L~~~~gga~a~pF~t~~~~~~~~~yLriSpELyl 232 (496)
T TIGR00499 153 TRYRQRYLDLIVNPDSRQTFLVRSKIIKAIRRFLDDRGFIEVETPMLQVIPGGANARPFITHHNALDMDLYLRIAPELYL 232 (496)
T ss_pred hhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHCcCEEEeCCeeecCCCCccceeEEeecccCCCceEEecCHHHHH
Confidence 999999999996 89999999999999999999999999999999998654322346899865 999999999999999
Q ss_pred hhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCC
Q 013856 307 QMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPF 386 (435)
Q Consensus 307 q~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~ 386 (435)
|+|++||++||||||||||||++ +.|||||||||||||+|++ |+|+|+++|+||+++++.+.+.+... ++.
T Consensus 233 KrlivgG~~rVfeIg~~FRnE~~-~~rH~pEFTmlE~y~a~~d-~~dlm~~~E~li~~i~~~l~~~~~~~-------~~~ 303 (496)
T TIGR00499 233 KRLIVGGFEKVYEIGRNFRNEGV-DTTHNPEFTMIEFYQAYAD-YEDLMDLTENLFKFLAQELLGTTKIT-------YGE 303 (496)
T ss_pred HHHHhCCCCceEEEecceecCCC-CCcccchhheeehhhhcCC-HHHHHHHHHHHHHHHHHHHhccccee-------cCc
Confidence 99999999999999999999998 4699999999999999996 99999999999999999998766432 233
Q ss_pred ccccCCCCCccccHHHHHHHHH-HcCCCC
Q 013856 387 EPLKYKPKTLRLTFEEGVQMLK-DAGVEI 414 (435)
Q Consensus 387 ~~~~~~~p~~rit~~eai~ll~-~~g~~~ 414 (435)
..+++..||+||||.||+++|. ..|+++
T Consensus 304 ~~~~~~~pf~rit~~eai~~~~~~~g~~~ 332 (496)
T TIGR00499 304 LEIDFKKPFKRITMVEAIKKYDMETGIDF 332 (496)
T ss_pred eeccCCCCceEEEHHHHHHHHHHhcCCCc
Confidence 3466778999999999999885 468765
No 11
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=100.00 E-value=8.9e-69 Score=559.96 Aligned_cols=307 Identities=27% Similarity=0.413 Sum_probs=274.0
Q ss_pred Eeccc-cCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856 94 EVGAL-NGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP 172 (435)
Q Consensus 94 ~i~~l-~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~ 172 (435)
.++++ ...+.|++|+|+|||+++|.+| |++|++|||+++.+|+++..+. +.+++++++.|+.||+|.|+|++..+
T Consensus 5 ~~~~~~~~~~~~~~V~i~G~v~~~R~~g-~~~Fi~lrD~~g~iq~~~~~~~---~~~~~~~~~~l~~~s~v~v~G~v~~~ 80 (450)
T PRK03932 5 SIKDILKGKYVGQEVTVRGWVRTKRDSG-KIAFLQLRDGSCFKQLQVVKDN---GEEYFEEIKKLTTGSSVIVTGTVVES 80 (450)
T ss_pred EHHHhcccccCCCEEEEEEEEEEEEeCC-CeEEEEEECCCCcEEEEEEcCC---ChHHHHHHhcCCCCcEEEEEEEEEcC
Confidence 34554 4578899999999999999998 8999999999999999997643 46788899999999999999999865
Q ss_pred CccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHH
Q 013856 173 DVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQ 251 (435)
Q Consensus 173 ~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~r 251 (435)
+ ..++++||++++++||++| .++|+..++ .+.++|+++||||||++.++++|++|
T Consensus 81 ~----~~~~~~el~~~~i~vl~~~~~~~p~~~~~--------------------~~~~~~~~~r~l~lR~~~~~~~l~~R 136 (450)
T PRK03932 81 P----RAGQGYELQATKIEVIGEDPEDYPIQKKR--------------------HSIEFLREIAHLRPRTNKFGAVMRIR 136 (450)
T ss_pred C----CCCCCEEEEEEEEEEccCCCCCCCCCccc--------------------cChHHHhhCceeeccCHHHHHHHHHH
Confidence 4 2346899999999999999 889987543 24588999999999999999999999
Q ss_pred HHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee---------ccCCCceeeccChHHHHhhhccCCCceeEEEec
Q 013856 252 SQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL---------DYKGQSACLAQSPQLHKQMSICGDFGRVFETGP 322 (435)
Q Consensus 252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~---------~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp 322 (435)
|.|++++|+||.++||+||+||+|+++++||++++|.| +|||.++||+||||||||++ ++|++|||+|||
T Consensus 137 s~i~~~iR~f~~~~gf~EV~TP~L~~~~~eg~~~~F~v~~~~~~~~~~~~~~~~~L~~Spql~lq~l-~~g~~rVf~i~~ 215 (450)
T PRK03932 137 NTLAQAIHEFFNENGFVWVDTPIITASDCEGAGELFRVTTLDLDFSKDFFGKEAYLTVSGQLYAEAY-AMALGKVYTFGP 215 (450)
T ss_pred HHHHHHHHHHHHHCCCEEecCCceeccCCCCCCCceEeecccccccccccCCCcccccCHHHHHHHH-HhccCCeEEeee
Confidence 99999999999999999999999999999999999999 89999999999999999985 589999999999
Q ss_pred ceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCcccc-----CCCCCcc
Q 013856 323 VFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLK-----YKPKTLR 397 (435)
Q Consensus 323 ~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~-----~~~p~~r 397 (435)
|||||+++|.|||||||||||||+|++ |+|+|+++|+||+++++.+.++|..+|+.++..++...+. ...||+|
T Consensus 216 ~FR~E~~~t~rHl~EFt~lE~e~~~~~-~~~~m~~~e~li~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~p~~r 294 (450)
T PRK03932 216 TFRAENSNTRRHLAEFWMIEPEMAFAD-LEDNMDLAEEMLKYVVKYVLENCPDDLEFLNRRVDKGDIERLENFIESPFPR 294 (450)
T ss_pred ccccCCCCCccccccccccceEEeccC-HHHHHHHHHHHHHHHHHHHHHhhHHHHHHhccccCchHHHHHHhhcCCCceE
Confidence 999999999999999999999999996 9999999999999999999999999998887655433221 3369999
Q ss_pred ccHHHHHHHHHHcCCC----CCCCCCCCcHHHHHHHH
Q 013856 398 LTFEEGVQMLKDAGVE----IDPLGDLNTESERKLGQ 430 (435)
Q Consensus 398 it~~eai~ll~~~g~~----~~~~~dl~te~E~~L~~ 430 (435)
|||.||+++|++.|.+ +.|+.||++++|++|++
T Consensus 295 ity~eA~~~l~~~~~~~~~~~~~g~~l~~~~e~~l~~ 331 (450)
T PRK03932 295 ITYTEAIEILQKSGKKFEFPVEWGDDLGSEHERYLAE 331 (450)
T ss_pred eEHHHHHHHHHHcCCCcCCCCCcccccChHHHHHHHH
Confidence 9999999999998864 36788999999999997
No 12
>PTZ00417 lysine-tRNA ligase; Provisional
Probab=100.00 E-value=7.1e-68 Score=563.13 Aligned_cols=323 Identities=19% Similarity=0.278 Sum_probs=264.0
Q ss_pred cccccCCCCCCccCCChhhhhcc----CCCCCCCccccccCcce-eEecccc--CCCCCCEEEEEEEEeeeccCCCceEE
Q 013856 53 SIEEEGPLANNYGDVPLQELQSV----NDPQTGKWSEAVSGREW-TEVGALN--GSLKDQEVLIRGRVHTTRPVGNKLAF 125 (435)
Q Consensus 53 ~~~~~d~~~~~Yg~~~~~~~~~~----~~pyp~~~~~~~~~~~~-~~i~~l~--~~~~g~~V~v~GrV~~~R~~G~kl~F 125 (435)
..+++|.+++.|...|...++.+ .|||||+|+++++..++ ..+.++. +...++.|+|+|||+++|.+|+|++|
T Consensus 74 ~~~~~~~~~~~~~~~r~~k~~~l~~~g~~pyp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~Grv~~~R~~G~k~~F 153 (585)
T PTZ00417 74 KEEEAEVDPRLYYENRSKFIQEQKAKGINPYPHKFERTITVPEFVEKYQDLASGEHLEDTILNVTGRIMRVSASGQKLRF 153 (585)
T ss_pred ccccccCChHHHHHHHHHHHHHHHhcCCCCCCCCCcCCcCHHHHHHHhhccCccccccCCeEEEEEEEEeeecCCCCCEE
Confidence 34667899999999998776654 59999999999887553 2233322 22345679999999999999988999
Q ss_pred EEEEeCCeEEEEEEeeCCCCCCHHHHH-HHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCccc
Q 013856 126 VVVRERVSTVQCLATVKPDSVSKEMVR-FVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITI 203 (435)
Q Consensus 126 l~Lrd~~~~iQvv~~~~~~~~~~~~~~-~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~ 203 (435)
++|||++++||||+..+....+.+.++ +.+.|+.||+|.|+|.+.+ +.+|++||.+++|.+||+| .+||+..
T Consensus 154 ~~L~d~~g~iQv~~~~~~~~~~~~~~~~~~~~l~~Gd~V~V~G~~~~------t~~gel~i~~~~i~llsk~l~~lP~~~ 227 (585)
T PTZ00417 154 FDLVGDGAKIQVLANFAFHDHTKSNFAECYDKIRRGDIVGIVGFPGK------SKKGELSIFPKETIILSPCLHMLPMKY 227 (585)
T ss_pred EEEEeCCeeEEEEEECCccCCCHHHHHHHHhcCCCCCEEEEEeEEcC------CCCceEEEEEEEEEEEecCCCCCCccc
Confidence 999999999999998653222233333 3578999999999999764 3357999999999999999 8999752
Q ss_pred ccccchHHHHHhhhhcCCCCCCCCcccccccceeeee-chhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCC
Q 013856 204 EDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIR-TLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEG 282 (435)
Q Consensus 204 ~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr-~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~eg 282 (435)
+..+.++|+++|||||| ++..+++|++||.|+++||+||.++||+||+||+|++.. |
T Consensus 228 --------------------g~~d~e~r~r~RyLdL~~n~~~~~ifr~RS~Ii~aiR~Ff~~rGFlEVeTPiL~~~~--G 285 (585)
T PTZ00417 228 --------------------GLKDTEIRYRQRYLDLMINESTRSTFITRTKIINYLRNFLNDRGFIEVETPTMNLVA--G 285 (585)
T ss_pred --------------------CCCCcccccccchhhhhcCHHHHHHHHHHHHHHHHHHHHHHHCCeEEEeCCeeeccC--C
Confidence 34678999999999999 589999999999999999999999999999999999763 4
Q ss_pred Ccc--eeee--ccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHH
Q 013856 283 GSA--VFRL--DYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIV 358 (435)
Q Consensus 283 ga~--~F~~--~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~ 358 (435)
||. ||.+ ++++.++||++|||||||+|++||++||||||||||||++ +.||||||||||||++|++ |+|+|+++
T Consensus 286 GA~a~PF~T~~n~~d~~lYLriSpEL~lKrLlvgG~~rVfeIgp~FRnE~~-~~rHnpEFTmlE~y~ay~d-y~dlM~l~ 363 (585)
T PTZ00417 286 GANARPFITHHNDLDLDLYLRIATELPLKMLIVGGIDKVYEIGKVFRNEGI-DNTHNPEFTSCEFYWAYAD-FYDLIKWS 363 (585)
T ss_pred cccceeEEecccCCCcceEEeecHHHHHHHHHHhCCCCEEEEcccccCCCC-CCCccceeeeeeeeeecCC-HHHHHHHH
Confidence 444 8987 6899999999999999999999999999999999999998 5699999999999999996 99999999
Q ss_pred HHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHH
Q 013856 359 DCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQ 405 (435)
Q Consensus 359 e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ 405 (435)
|+||++++..+.+.+...+...+.......+++..||+|+||.||++
T Consensus 364 E~Li~~v~~~v~g~~~~~~~~~g~~~~~~~i~~~~pf~rit~~ea~~ 410 (585)
T PTZ00417 364 EDFFSQLVMHLFGTYKILYNKDGPEKDPIEIDFTPPYPKVSIVEELE 410 (585)
T ss_pred HHHHHHHHHHhcCcceeeecccccccccccccCCCCceeccHHHHHH
Confidence 99999999988765432221111111122456778999999888876
No 13
>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=2.4e-67 Score=548.98 Aligned_cols=302 Identities=26% Similarity=0.410 Sum_probs=267.9
Q ss_pred CCCCCEEEEEEEEeeeccCCCceEEEEEEeCC--eEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCC
Q 013856 101 SLKDQEVLIRGRVHTTRPVGNKLAFVVVRERV--STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKG 178 (435)
Q Consensus 101 ~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~--~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~ 178 (435)
.+.|++|+|+|||+++|.+| +++|++|||++ +.||||++.+ .+.++++++..|+.||+|.|+|+|..++ +
T Consensus 13 ~~~g~~v~v~Gwv~~~R~~~-~~~F~~lrD~~~~g~iQ~v~~~~---~~~~~~~~~~~l~~gs~V~v~G~v~~~~----~ 84 (453)
T TIGR00457 13 KFVGDEVTVSGWVRTKRSSK-KIIFLELNDGSSLGPIQAVINGE---DNPYLFQLLKSLTTGSSVSVTGKVVESP----G 84 (453)
T ss_pred hcCCCEEEEEEEeEEEEcCC-CeEEEEEECCCCCccEEEEEeCC---cChHHHHHHHcCCCCcEEEEEEEEEcCC----C
Confidence 57799999999999999887 99999999999 9999999864 3467888999999999999999998743 2
Q ss_pred CceeEEEEEeEEEEeecCC--CCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHHHHHHH
Q 013856 179 ATQQVEVQIKKLYCVSRAA--KTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGN 256 (435)
Q Consensus 179 ~t~~lEI~v~~i~vls~~~--~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i~~ 256 (435)
.++++||.+++|.|||+|. .+|++.++ .+.++|+++||||+|++..+++|++||.|++
T Consensus 85 ~~~~~El~~~~i~vl~~~~~~~~P~~~~~--------------------~~~~~~~~~r~l~lR~~~~~~~lr~Rs~i~~ 144 (453)
T TIGR00457 85 KGQPVELQVKKIEVVGEAEPDDYPLQKKE--------------------HSLEFLRDIAHLRLRTNTLGAVMRVRNALSQ 144 (453)
T ss_pred CCCCEEEEEeEEEEEecCCccCCCCCccc--------------------cChhhHhhCcceecCCHHHHHHHHHHHHHHH
Confidence 3478999999999999993 78887543 2467899999999999999999999999999
Q ss_pred HHHHHhhcCCeeeecCceeeecCCCCCcceeeec---------cCCCceeeccChHHHHhhhccCCCceeEEEecceecC
Q 013856 257 IFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLD---------YKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAE 327 (435)
Q Consensus 257 ~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~---------~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E 327 (435)
++|+||.++||+||+||+|+++++|||+++|.+. |||+++||+||||||||++ ++|++|||+||||||||
T Consensus 145 ~~r~~~~~~gf~eV~TP~l~~~~~eg~~~~F~v~~~~~~~~~~~~~~~~yL~~Spql~lq~l-~~g~~rVf~i~~~FR~E 223 (453)
T TIGR00457 145 AIHRYFQENGFTWVSPPILTSNDCEGAGELFRVSTDGIDFSQDFFGKEAYLTVSGQLYLETY-ALALSKVYTFGPTFRAE 223 (453)
T ss_pred HHHHHHHHCCCEEecCCeEeecCCCCCCCceEecccccccchhccCCccccccCHHHHHHHH-hhcccCceEeeeccccC
Confidence 9999999999999999999999999999999987 9999999999999999976 58999999999999999
Q ss_pred cCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCcccc-----CCCCCccccHHH
Q 013856 328 DSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLK-----YKPKTLRLTFEE 402 (435)
Q Consensus 328 ~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~-----~~~p~~rit~~e 402 (435)
+++|+|||||||||||||+|++ |+|+|+++|+||+++++.+.++|..+++.++..++...+. ...||+||||.|
T Consensus 224 ~~~t~rHl~EFt~le~e~~~~~-~~dvm~~~E~lv~~i~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~rit~~e 302 (453)
T TIGR00457 224 KSNTSRHLSEFWMIEPEMAFAN-LNDLLQLAETLIKYIIKAVLENCSQELKFLEKNFDKDLIKRLENIINNKFARITYTD 302 (453)
T ss_pred CCCCCcCcchhccceeeeecCC-HHHHHHHHHHHHHHHHHHHHHhhHHHHHHhhccCCchHHHHHHHhcCCCCceeEHHH
Confidence 9988999999999999999997 9999999999999999999999988887776544322111 124899999999
Q ss_pred HHHHHHHcCC----CCCCCCCCCcHHHHHHHHHH
Q 013856 403 GVQMLKDAGV----EIDPLGDLNTESERKLGQLV 432 (435)
Q Consensus 403 ai~ll~~~g~----~~~~~~dl~te~E~~L~~~v 432 (435)
|+++|++.|. +..|++||++++|++|++.+
T Consensus 303 a~~~l~~~~~~~~~~~~~g~~l~~~~e~~L~~~~ 336 (453)
T TIGR00457 303 AIEILKESDKNFEYEDFWGDDLQTEHERFLAEEY 336 (453)
T ss_pred HHHHHHhcCCCCcCCCCCCCCCCcHHHHHHHHHh
Confidence 9999999864 34578899999999999875
No 14
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=100.00 E-value=1e-67 Score=556.71 Aligned_cols=306 Identities=21% Similarity=0.325 Sum_probs=254.1
Q ss_pred ccCCChhhhhc---cCCCCCCCccccccCcce-eEeccccC---CCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEE
Q 013856 64 YGDVPLQELQS---VNDPQTGKWSEAVSGREW-TEVGALNG---SLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQ 136 (435)
Q Consensus 64 Yg~~~~~~~~~---~~~pyp~~~~~~~~~~~~-~~i~~l~~---~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQ 136 (435)
|-..|+..++. .+.||||+|+++++..++ ..+.++.. ...|++|+|+|||+++|.+| |++|++|||++++||
T Consensus 18 ~~~~r~~k~~~l~~~g~py~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~Grv~~~R~~G-k~~F~~lrD~~g~iQ 96 (505)
T PRK12445 18 ELRNRREKLAALRQQGVAFPNDFRRDHTSDQLHEEFDAKDNQELESLNIEVSVAGRMMTRRIMG-KASFVTLQDVGGRIQ 96 (505)
T ss_pred HHHHHHHHHHHHHHhCCCCCCCCcCccCHHHHHHHhhccCcchhhcCCCEEEEEEEEEEEecCC-CcEEEEEEeCCccEE
Confidence 44444443332 234999999999887543 12222221 24488999999999999999 889999999999999
Q ss_pred EEEeeCCCCCCHHHHH-HHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHH
Q 013856 137 CLATVKPDSVSKEMVR-FVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIE 214 (435)
Q Consensus 137 vv~~~~~~~~~~~~~~-~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~ 214 (435)
||+..+. ++.+.++ ....|+.||+|.|+|++.++. +|++||+++++++||+| .+||....+
T Consensus 97 ~~~~~~~--~~~~~~~~~~~~l~~Gd~V~v~G~~~~t~------~gelel~~~~~~llsk~~~plP~~~~~--------- 159 (505)
T PRK12445 97 LYVARDS--LPEGVYNDQFKKWDLGDIIGARGTLFKTQ------TGELSIHCTELRLLTKALRPLPDKFHG--------- 159 (505)
T ss_pred EEEECCc--cchhhHHHHHhcCCCCCEEEEEEEEEecC------CCcEEEEEeEEEEEecCCCCCCccccc---------
Confidence 9998542 3333333 457899999999999998643 57899999999999999 999986433
Q ss_pred hhhhcCCCCCCCCcccccccceeeeec-hhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcc--eeee--
Q 013856 215 KASKEGVQLPRVNQDTRLNNRVIDIRT-LANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSA--VFRL-- 289 (435)
Q Consensus 215 ~~~~~~~~~~~~~~e~rl~~R~Ldlr~-~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~--~F~~-- 289 (435)
..+.++|+|+||||||+ +..+++|++||.|+++||+||.++||+||+||+|++. +|||. ||.+
T Consensus 160 ----------~~d~e~r~r~Ryldl~~n~~~r~~~r~Rs~i~~~iR~f~~~~gFiEVeTPiL~~~--~gGa~a~pF~t~~ 227 (505)
T PRK12445 160 ----------LQDQEVRYRQRYLDLIANDKSRQTFVVRSKILAAIRQFMVARGFMEVETPMMQVI--PGGASARPFITHH 227 (505)
T ss_pred ----------ccChhhhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHHHHHHCCCEEeeCCeeEec--CCCCcccceeccc
Confidence 36789999999999996 8999999999999999999999999999999999864 55554 8875
Q ss_pred ccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHh
Q 013856 290 DYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSL 369 (435)
Q Consensus 290 ~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~ 369 (435)
+||+.++||+||||||||+|++||++||||||||||||++ |.|||||||||||||+|++ |+|+|+++|+||++++..+
T Consensus 228 ~~~~~~~yL~~SpELylKrlivgG~~rVfeIg~~FRnE~~-~~rH~pEFTmlE~y~a~~d-~~d~m~l~E~li~~l~~~~ 305 (505)
T PRK12445 228 NALDLDMYLRIAPELYLKRLVVGGFERVFEINRNFRNEGI-SVRHNPEFTMMELYMAYAD-YHDLIELTESLFRTLAQEV 305 (505)
T ss_pred ccCCcceeeecCHHHHHHHHHhccCCcEEEEehhccCCCC-CCCcCcccceeeeeeecCC-HHHHHHHHHHHHHHHHHHH
Confidence 7899999999999999999999999999999999999997 9999999999999999996 9999999999999999988
Q ss_pred hhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHHHH
Q 013856 370 NNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLK 408 (435)
Q Consensus 370 ~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~ 408 (435)
.+.+... +....+++.+||+||||.||++.+.
T Consensus 306 ~~~~~~~-------~~~~~i~~~~pf~rit~~eai~~~~ 337 (505)
T PRK12445 306 LGTTKVT-------YGEHVFDFGKPFEKLTMREAIKKYR 337 (505)
T ss_pred hccccee-------cCceeccCCCCceEEEHHHHHHHHh
Confidence 7654321 3334467778999999999998663
No 15
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=100.00 E-value=2.9e-67 Score=552.90 Aligned_cols=300 Identities=24% Similarity=0.360 Sum_probs=251.3
Q ss_pred CCCCCCCccccccCcce----eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHH
Q 013856 76 NDPQTGKWSEAVSGREW----TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMV 151 (435)
Q Consensus 76 ~~pyp~~~~~~~~~~~~----~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~ 151 (435)
.|||||+|.++++..++ ..+..-.....+++|+|+|||+++|.+| +++|++|||++++||||++.+. ++++++
T Consensus 22 ~~~yp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~G~v~~~R~~g-~~~Fi~lrD~~g~iQ~v~~~~~--~~~~~~ 98 (491)
T PRK00484 22 IDPYPNKFERTHTAAELRAKYDDKEKEELEELEIEVSVAGRVMLKRVMG-KASFATLQDGSGRIQLYVSKDD--VGEEAL 98 (491)
T ss_pred CCCCCCCCcCccCHHHHHHHhccccchhhcccCcEEEEEEEEEEEecCC-ceEEEEEEcCCccEEEEEECCc--CCHHHH
Confidence 58999999998776443 2222111112347899999999999999 8999999999999999998642 456778
Q ss_pred HHHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCccc
Q 013856 152 RFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDT 230 (435)
Q Consensus 152 ~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~ 230 (435)
+.+..|+.||+|.|+|+|..+. +|++||+++++.|||+| .+||+...+ ..+.++
T Consensus 99 ~~~~~l~~g~~v~v~G~v~~t~------~ge~el~~~~~~vls~~~~plP~~~~~-------------------~~~~~~ 153 (491)
T PRK00484 99 EAFKKLDLGDIIGVEGTLFKTK------TGELSVKATELTLLTKSLRPLPDKFHG-------------------LTDVET 153 (491)
T ss_pred HHHhcCCCCCEEEEEEEEEEcC------CCcEEEEEeEEEEEeccCCCCCccccc-------------------ccchhh
Confidence 8888899999999999998642 47899999999999999 899986432 357899
Q ss_pred ccccceeeee-chhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee--ccCCCceeeccChHHHHh
Q 013856 231 RLNNRVIDIR-TLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL--DYKGQSACLAQSPQLHKQ 307 (435)
Q Consensus 231 rl~~R~Ldlr-~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~--~~~~~~~~L~~Spql~lq 307 (435)
|+++|||||| ++.++++|++||.|+++||+||.++||+||+||+|+++.+++++.+|.+ +||+.++||+||||||||
T Consensus 154 r~r~R~lDl~~~~~~~~~~r~Rs~i~~~iR~f~~~~gF~EVeTPiL~~~~~Ga~a~pF~t~~~~~~~~~yL~~Spql~lk 233 (491)
T PRK00484 154 RYRQRYVDLIVNPESRETFRKRSKIISAIRRFLDNRGFLEVETPMLQPIAGGAAARPFITHHNALDIDLYLRIAPELYLK 233 (491)
T ss_pred hccceeeehhcCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCceeccCCCccceeeeeccccCCCceEeccCHHHHHH
Confidence 9999999998 5999999999999999999999999999999999986533323469975 789999999999999999
Q ss_pred hhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCc
Q 013856 308 MSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFE 387 (435)
Q Consensus 308 ~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~ 387 (435)
++++||++|||+||||||||+++ .|||||||||||||+|.+ |+|+|+++|+||+++++.+.+++. +. +...
T Consensus 234 ~l~v~g~~rVfei~~~FR~E~~~-~rH~pEFt~lE~e~a~~d-~~d~m~~~E~li~~i~~~~~~~~~--i~-----~~~~ 304 (491)
T PRK00484 234 RLIVGGFERVYEIGRNFRNEGID-TRHNPEFTMLEFYQAYAD-YNDMMDLTEELIRHLAQAVLGTTK--VT-----YQGT 304 (491)
T ss_pred HHHhccCCcEEEEecceecCCCC-CCcCCceEEEEEEEecCC-HHHHHHHHHHHHHHHHHHHhCCce--Ee-----cCCE
Confidence 99999999999999999999985 599999999999999995 999999999999999999876422 21 2222
Q ss_pred cccCCCCCccccHHHHHHHHHHcCCCC
Q 013856 388 PLKYKPKTLRLTFEEGVQMLKDAGVEI 414 (435)
Q Consensus 388 ~~~~~~p~~rit~~eai~ll~~~g~~~ 414 (435)
.+++..||+||||.||++.+ .|+++
T Consensus 305 ~~~~~~pf~rity~eai~~~--~g~~~ 329 (491)
T PRK00484 305 EIDFGPPFKRLTMVDAIKEY--TGVDF 329 (491)
T ss_pred eecCCCCceEEEHHHHHHHH--hCCCc
Confidence 35667899999999999854 45544
No 16
>PLN02603 asparaginyl-tRNA synthetase
Probab=100.00 E-value=2.9e-66 Score=548.89 Aligned_cols=301 Identities=23% Similarity=0.351 Sum_probs=262.1
Q ss_pred CCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCe--EEEEEEeeCCCCCCHHHHHHHh--cCCCCceEEEEEEEecCCcc
Q 013856 100 GSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVS--TVQCLATVKPDSVSKEMVRFVR--SLSNESIVDVIGVVSVPDVE 175 (435)
Q Consensus 100 ~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~--~iQvv~~~~~~~~~~~~~~~~~--~l~~esiV~V~G~v~~~~~~ 175 (435)
+.+.|++|+|+|||+++|.+| +++|++|||+++ .||||+..+. ..++.+. .|+.||+|.|+|+|+.++
T Consensus 103 ~~~~g~~V~v~GwV~~iR~~g-~~~Fi~l~Dgs~~~~lQ~v~~~~~-----~~~~~l~~~~l~~gs~V~V~G~v~~~~-- 174 (565)
T PLN02603 103 LARVGKTLNVMGWVRTLRAQS-SVTFIEVNDGSCLSNMQCVMTPDA-----EGYDQVESGLITTGASVLVQGTVVSSQ-- 174 (565)
T ss_pred cccCCCEEEEEEEEEEEEeCC-CeEEEEEECCCCCEeEEEEEECcH-----HHHHHHhhcCCCCCCEEEEEEEEEecC--
Confidence 367799999999999999998 899999999885 6999997532 1233333 499999999999998753
Q ss_pred CCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHHHHH
Q 013856 176 IKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQV 254 (435)
Q Consensus 176 ~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i 254 (435)
++.+.+||++++|.+|++| .++|++.++ .+.+.+..++|||+|++.++++||+||.|
T Consensus 175 --~~~~~~EL~v~~i~vlg~a~~~~Pi~~~~--------------------~s~e~lr~~~hLr~Rt~~~~ai~RiRS~i 232 (565)
T PLN02603 175 --GGKQKVELKVSKIVVVGKSDPSYPIQKKR--------------------VSREFLRTKAHLRPRTNTFGAVARVRNAL 232 (565)
T ss_pred --CCCccEEEEEeEEEEEECCCCCCCCcccc--------------------cchhhhhhhhhhhhccHHHHHHHHHHHHH
Confidence 3346799999999999999 889987544 23466778999999999999999999999
Q ss_pred HHHHHHHhhcCCeeeecCceeeecCCCCCcceeee------------------------------ccCCCceeeccChHH
Q 013856 255 GNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL------------------------------DYKGQSACLAQSPQL 304 (435)
Q Consensus 255 ~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~------------------------------~~~~~~~~L~~Spql 304 (435)
+.++|+||.++||+|||||+|++++|||+++.|.| +|||+++||+|||||
T Consensus 233 ~~air~ff~~~gF~eV~TPiLt~s~~EGA~e~F~Vttl~~~~~~~~~~~~~~lp~~~~~~~~~~~dyF~~~~~LtvS~QL 312 (565)
T PLN02603 233 AYATHKFFQENGFVWVSSPIITASDCEGAGEQFCVTTLIPNSAENGGSLVDDIPKTKDGLIDWSQDFFGKPAFLTVSGQL 312 (565)
T ss_pred HHHHHHHHHHCCCEEEECCeecccCCCccccCceeeeccccccccccccccccccCcccccccchhhhCcceeeccCchH
Confidence 99999999999999999999999999999998854 689999999999999
Q ss_pred HHhhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcC
Q 013856 305 HKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQY 384 (435)
Q Consensus 305 ~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~ 384 (435)
|||++ ++||+|||+||||||||+|+|+|||+||||||+||+|++ ++|+|+++|++|+++++.+.++|..+|+.++..+
T Consensus 313 ~~E~~-~~~l~rVy~igp~FRaE~s~T~RHL~EF~mlE~E~af~d-l~d~m~~~E~~l~~~~~~v~~~~~~el~~~~~~~ 390 (565)
T PLN02603 313 NGETY-ATALSDVYTFGPTFRAENSNTSRHLAEFWMIEPELAFAD-LNDDMACATAYLQYVVKYILENCKEDMEFFNTWI 390 (565)
T ss_pred HHHHH-HhcccceEEEecceeCCCCCCccccccceeeeeeeecCC-HHHHHHHHHHHHHHHHHHHHcccHhHHHhcCCcc
Confidence 99975 578999999999999999999999999999999999996 9999999999999999999999999998876544
Q ss_pred CCcccc-----CCCCCccccHHHHHHHHHHcC----CCCCCCCCCCcHHHHHHHHHH
Q 013856 385 PFEPLK-----YKPKTLRLTFEEGVQMLKDAG----VEIDPLGDLNTESERKLGQLV 432 (435)
Q Consensus 385 ~~~~~~-----~~~p~~rit~~eai~ll~~~g----~~~~~~~dl~te~E~~L~~~v 432 (435)
+...++ ...||+||||.||+++|++.+ ..+.|++||++++|++|++.+
T Consensus 391 ~~~~~~~l~~~~~~~f~rity~EAi~iL~~~~~~~~~~~~~g~dl~~e~Er~L~~~~ 447 (565)
T PLN02603 391 EKGIIDRLSDVVEKNFVQLSYTDAIELLLKAKKKFEFPVKWGLDLQSEHERYITEEA 447 (565)
T ss_pred cccHHHHHHHhcCCCCCCCCHHHHHHHHHHhccccCCCCCccccccHHHHHHHHHHh
Confidence 322111 235899999999999999874 346789999999999999865
No 17
>PTZ00425 asparagine-tRNA ligase; Provisional
Probab=100.00 E-value=4.7e-65 Score=538.97 Aligned_cols=305 Identities=21% Similarity=0.319 Sum_probs=260.5
Q ss_pred CCCCCEEEEEEEEeeeccCCC-ceEEEEEEeCCe--EEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCcc--
Q 013856 101 SLKDQEVLIRGRVHTTRPVGN-KLAFVVVRERVS--TVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVE-- 175 (435)
Q Consensus 101 ~~~g~~V~v~GrV~~~R~~G~-kl~Fl~Lrd~~~--~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~-- 175 (435)
.+.|++|+|+|||+++|.+|+ +++|++|||+++ .||||+... ...+..+.+|+.||+|.|+|+|...+..
T Consensus 78 ~~~g~~Vtl~GWv~~iR~~g~~~~~Fv~lrDgsg~~~iQiVv~~~-----~~~~~~l~~l~~gs~v~v~G~v~~~~~~~~ 152 (586)
T PTZ00425 78 KYIDQIITVCGWSKAVRKQGGGRFCFVNLNDGSCHLNLQIIVDQS-----IENYEKLLKCGVGCCFRFTGKLIISPVQNE 152 (586)
T ss_pred ccCCCEEEEEEEEeehhhcCCceEEEEEEECCCCCcceEEEECCc-----hHHHHHHhcCCCccEEEEEEEEEcCCcccc
Confidence 467999999999999999985 599999999987 699998643 1234456789999999999999754322
Q ss_pred -CCC-CceeEEEEE-----eEEEEeecC-C--CCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhh
Q 013856 176 -IKG-ATQQVEVQI-----KKLYCVSRA-A--KTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQ 245 (435)
Q Consensus 176 -~~~-~t~~lEI~v-----~~i~vls~~-~--~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~ 245 (435)
..+ .++.+||++ +++.||+++ . ++|++.+. .+.|+++++||||+|++..+
T Consensus 153 n~~g~~~~~~El~~~~~~~~~~~ilg~~~d~~~yPi~~k~--------------------~~~e~lr~~rhL~lR~~~~~ 212 (586)
T PTZ00425 153 NKKGLLKENVELALKDNSIHNFEIYGENLDPQKYPLSKKN--------------------HGKEFLREVAHLRPRSYFIS 212 (586)
T ss_pred CcCCCCCccEEEEEecCCCceEEEEeccCCCCCCCCCCcc--------------------CChhhhhhccceeccCHHHH
Confidence 111 246799998 799999988 4 56665332 35788999999999999999
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee------------------------------------
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL------------------------------------ 289 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~------------------------------------ 289 (435)
++||+||.|..++|+||.++||+||+||+|++++||||++.|.|
T Consensus 213 avlRiRs~l~~a~r~ff~~~gF~eI~TPiit~s~~EGa~elF~V~t~~~~~~~~~~~p~~~~~~~~~~~~~~~~~~~~~~ 292 (586)
T PTZ00425 213 SVIRIRNALAIATHLFFQSRGFLYIHTPLITTSDCEGGGEMFTVTTLLGEDADYRAIPRVNKKNKKGEKREDILNTCNAN 292 (586)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCEEeeCCeecccCCCCCcceEEeeecccccccccccccccccccccccccccccccccc
Confidence 99999999999999999999999999999999999999999987
Q ss_pred ---------------------------ccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCCCCccccchhhhe
Q 013856 290 ---------------------------DYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLD 342 (435)
Q Consensus 290 ---------------------------~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE 342 (435)
+|||+++||+||||||||++ ++|++|||+||||||||+++|+|||+||||||
T Consensus 293 ~~~~~~~~~~~~~~~q~~~~~~~~~~~~yF~k~ayL~~S~QLylE~~-~~g~~rVf~i~p~FRaE~s~t~RHL~EFt~lE 371 (586)
T PTZ00425 293 NNNGNSSSSNAVSSPAYPDQYLIDYKKDFFSKQAFLTVSGQLSLENL-CSSMGDVYTFGPTFRAENSHTSRHLAEFWMIE 371 (586)
T ss_pred ccccccccccccccccccccccccccccccCcceEEEcCchHHHHHH-HhccCCEEEEeceEeCCCCCCCCCCcccceEE
Confidence 69999999999999999976 57899999999999999999999999999999
Q ss_pred eeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccc-----cCCCCCccccHHHHHHHHHHcC----CC
Q 013856 343 VEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPL-----KYKPKTLRLTFEEGVQMLKDAG----VE 413 (435)
Q Consensus 343 ~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~-----~~~~p~~rit~~eai~ll~~~g----~~ 413 (435)
+||+|++ ++|+|+++|+||+++++.+.++|..+|..++.......+ .+..||+||||.||+++|++.| .+
T Consensus 372 ~E~af~d-~~d~m~~~E~li~~v~~~vl~~~~~~i~~~~~~~~~~l~~~l~~~~~~pf~rIty~EAi~iL~~~~~~~~~~ 450 (586)
T PTZ00425 372 PEIAFAD-LYDNMELAESYIKYCIGYVLNNNFDDIYYFEENVETGLISRLKNILDEDFAKITYTNVIDLLQPYSDSFEVP 450 (586)
T ss_pred EEEecCC-HHHHHHHHHHHHHHHHHHHhcccccccccccccccccHHHHHHHhcCCCCCcCCHHHHHHHHHHhHHhcCCC
Confidence 9999996 999999999999999999998888887765432211111 1235899999999999998864 46
Q ss_pred CCCCCCCCcHHHHHHHHHH
Q 013856 414 IDPLGDLNTESERKLGQLV 432 (435)
Q Consensus 414 ~~~~~dl~te~E~~L~~~v 432 (435)
++|++||++++|++|++.+
T Consensus 451 ~~~G~dL~~e~Er~L~~~~ 469 (586)
T PTZ00425 451 VKWGMDLQSEHERFVAEQI 469 (586)
T ss_pred CCcccccchHHHHHHHHHh
Confidence 7899999999999999985
No 18
>PLN02532 asparagine-tRNA synthetase
Probab=100.00 E-value=5.4e-65 Score=540.97 Aligned_cols=284 Identities=19% Similarity=0.310 Sum_probs=246.4
Q ss_pred ccCCCceEEEEEEeCCeE--EEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEee
Q 013856 117 RPVGNKLAFVVVRERVST--VQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVS 194 (435)
Q Consensus 117 R~~G~kl~Fl~Lrd~~~~--iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls 194 (435)
|.+| +++||+|||+++. ||||+.... .. ....|+.|++|.|+|+|+....+ ..+|.+||.+++|.||+
T Consensus 130 r~~g-~i~FI~LrDGSg~~~lQvVv~~~~--~~-----~~~~L~~Es~V~V~G~V~~~~~~--~~~g~iEl~v~~i~VLg 199 (633)
T PLN02532 130 PPPP-SVAYLLISDGSCVASLQVVVDSAL--AP-----LTQLMATGTCILAEGVLKLPLPA--QGKHVIELEVEKILHIG 199 (633)
T ss_pred ccCC-CcEEEEEECCCCccceEEEEeCCc--cc-----HhhcCCCceEEEEEEEEEecCCC--CCCCcEEEEeeEEEEEe
Confidence 6677 8999999999987 999997542 11 12689999999999999875322 34578999999999999
Q ss_pred cC--CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHHHHHHHHHHHHhhcCCeeeecC
Q 013856 195 RA--AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHT 272 (435)
Q Consensus 195 ~~--~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~T 272 (435)
++ .++|++.+. .+.|+++++||||||++..+++||+||.|+++||+||.++||+||+|
T Consensus 200 ~a~~~p~Pi~~k~--------------------~~~E~LR~~RhLdLRt~~~~ailRiRS~i~~aiR~ff~~~GFiEV~T 259 (633)
T PLN02532 200 TVDPEKYPLSKKR--------------------LPLDMLRDFSHFRPRTTTVASVTRVRSALTHATHTFFQDHGFLYVQV 259 (633)
T ss_pred cCCCCCCcccccc--------------------CCHHHHhhCcceecCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEeeC
Confidence 87 468876432 25678889999999999999999999999999999999999999999
Q ss_pred ceeeecCCCCCcce------------------------------------------------------------------
Q 013856 273 PKLIAGSSEGGSAV------------------------------------------------------------------ 286 (435)
Q Consensus 273 P~l~~~~~egga~~------------------------------------------------------------------ 286 (435)
|+|++++||||++.
T Consensus 260 PiLT~s~~EGa~elF~v~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 339 (633)
T PLN02532 260 PIITTTDATGFGEMFRVTTLLGKSDDKEEKKPVHETEGISLEAVKAAIKEKTNLVEELKRSESNREALVAAEQDLRKTNQ 339 (633)
T ss_pred CeecccCCCccccccceeccccccccccccccccccccccchhhhhhhhccccccccccccccccccccccccccccccc
Confidence 99999999999976
Q ss_pred -----------------------eeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcCCCCccccchhhhee
Q 013856 287 -----------------------FRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDV 343 (435)
Q Consensus 287 -----------------------F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~ 343 (435)
|.++|||+++||+||||||||+++ +||+|||+|||+||||+++|+||||||||||+
T Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~f~~dyFg~~ayLtqS~QLylE~~~-~gl~rVYeIgP~FRAE~s~T~RHL~EFtmlE~ 418 (633)
T PLN02532 340 LASQLEAKEKLKTGTSVKADKLSFSKDFFSRPTYLTVSGRLHLESYA-CALGNVYTFGPRFRADRIDSARHLAEMWMVEV 418 (633)
T ss_pred ccccccccccccccccccccccccccccCCCCeeeccCHHHHHHHHH-HhcCceEEEccceecCCCCCCcccccccceee
Confidence 566799999999999999999865 58999999999999999999999999999999
Q ss_pred eecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCcc-----ccCCCCCccccHHHHHHHHHHcC-----CC
Q 013856 344 EMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEP-----LKYKPKTLRLTFEEGVQMLKDAG-----VE 413 (435)
Q Consensus 344 e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~-----~~~~~p~~rit~~eai~ll~~~g-----~~ 413 (435)
||+|.+ |+|+|+++|+||+++++.+.++|..+|+.++..+.... ..+..||+||||.||+++|++.+ .+
T Consensus 419 Emaf~d-~~dvM~l~E~lI~~v~k~v~~~~~~el~~l~~~~~~~~~~~le~~~~~pf~RIty~EAi~iL~~~~~~~~e~~ 497 (633)
T PLN02532 419 EMAFSE-LEDAMNCAEDYFKFLCKWVLENCSEDMKFVSKRIDKTISTRLEAIISSSLQRISYTEAVDLLKQATDKKFETK 497 (633)
T ss_pred eehhcC-HHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccCCcchhhhhhcccCCCceEEEHHHHHHHHHHhcCCCcccc
Confidence 999996 99999999999999999999999999988765443211 13446999999999999998874 23
Q ss_pred CCCCCCCCcHHHHHHHHHH
Q 013856 414 IDPLGDLNTESERKLGQLV 432 (435)
Q Consensus 414 ~~~~~dl~te~E~~L~~~v 432 (435)
++|++||++++|++|++.+
T Consensus 498 ~~~g~dL~~e~Er~L~~~~ 516 (633)
T PLN02532 498 PEWGIALTTEHLSYLADEI 516 (633)
T ss_pred cccCCccChHHHHHHHHHH
Confidence 6799999999999999873
No 19
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=100.00 E-value=8.5e-65 Score=541.48 Aligned_cols=323 Identities=21% Similarity=0.296 Sum_probs=257.5
Q ss_pred CCccccccCcce-eEeccc--cCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHH-hc
Q 013856 81 GKWSEAVSGREW-TEVGAL--NGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFV-RS 156 (435)
Q Consensus 81 ~~~~~~~~~~~~-~~i~~l--~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~-~~ 156 (435)
|+|+++++..++ ..+.++ ++...++.|+|+|||+++|.+| |++|++|||++++||||+..+.. ++++++++. ..
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~vaGrV~~~R~~G-k~~F~~LrD~~G~IQvv~~~~~~-~~~~~~~~~~~~ 158 (659)
T PTZ00385 81 SSFRGITPISEVRERYGYLASGDRAAQATVRVAGRVTSVRDIG-KIIFVTIRSNGNELQVVGQVGEH-FTREDLKKLKVS 158 (659)
T ss_pred ccCcccccHHHHHHHhhccccccccCCCEEEEEEEEEeeeccC-CeEEEEEEECCceEEEEEECCcc-CCHHHHHHHHhC
Confidence 466766665432 122332 2223366799999999999999 79999999999999999986431 356677666 57
Q ss_pred CCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC--CCCCcccccccchHHHHHhhhhcCCCCCCCCccccccc
Q 013856 157 LSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA--AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNN 234 (435)
Q Consensus 157 l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~--~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~ 234 (435)
|+.||+|.|+|+|.+. .+|++||++++|.+||++ ..+|..... ....+..+.++||||
T Consensus 159 l~~gdiV~V~G~v~~t------~~GeleI~~~~i~lLska~~~~~~~~p~~--------------~k~~~~~d~e~R~r~ 218 (659)
T PTZ00385 159 LRVGDIIGADGVPCRM------QRGELSVAASRMLILSPYVCTDQVVCPNL--------------RGFTVLQDNDVKYRY 218 (659)
T ss_pred CCCCCEEEEEEEEEec------CCceEEEEeeEEEEechhhhccccCCCCC--------------ccccccCChhhhccc
Confidence 9999999999999753 358999999999999994 222221100 002345789999999
Q ss_pred ceeeeec-hhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee--ccCCCceeeccChHHHHhhhcc
Q 013856 235 RVIDIRT-LANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL--DYKGQSACLAQSPQLHKQMSIC 311 (435)
Q Consensus 235 R~Ldlr~-~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~--~~~~~~~~L~~Spql~lq~li~ 311 (435)
||||||+ +.++++|++||.|+++||+||.++||+||+||+|+++++++|+.+|.+ ++|+.++||+||||||||+|++
T Consensus 219 RyLDL~~n~~~~~ifr~Rs~I~~aiR~ff~~~gFlEVeTPiL~~~~~ga~a~pF~t~~n~~~~~~yL~~SPELylKrLiv 298 (659)
T PTZ00385 219 RFTDMMTNPCVIETIKKRHVMLQALRDYFNERNFVEVETPVLHTVASGANAKSFVTHHNANAMDLFLRVAPELHLKQCIV 298 (659)
T ss_pred ceeeeecCHHHHHHHHHHHHHHHHHHHHHHHCCCEEeeCCEeeccCCCCCccceEeecccCCCCEEecCChHHHHHHHhh
Confidence 9999975 889999999999999999999999999999999998888889999998 4589999999999999999999
Q ss_pred CCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhc--CCCccc
Q 013856 312 GDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQ--YPFEPL 389 (435)
Q Consensus 312 ~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~--~~~~~~ 389 (435)
||++||||||||||||++ +.||||||||||||++|++ |+|+|+++|+||++++..+.+... +...... .....+
T Consensus 299 gG~erVyeIg~~FRnE~~-~~rH~pEFTmlE~y~a~~d-~~d~m~l~E~li~~~~~~v~g~~~--~~~~~~~~~g~~~~i 374 (659)
T PTZ00385 299 GGMERIYEIGKVFRNEDA-DRSHNPEFTSCEFYAAYHT-YEDLMPMTEDIFRQLAMRVNGTTV--VQIYPENAHGNPVTV 374 (659)
T ss_pred cccCCEEEEeceecCCCC-CCCccccccceeeeeecCC-HHHHHHHHHHHHHHHHHHhcCCee--EEeeccccCCCcccc
Confidence 999999999999999998 5899999999999999996 999999999999999999876431 1110000 000135
Q ss_pred cCCCCCccccHHHHHHHHHHcCCCCCCCCCCCcHHHHHHHHH
Q 013856 390 KYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQL 431 (435)
Q Consensus 390 ~~~~p~~rit~~eai~ll~~~g~~~~~~~dl~te~E~~L~~~ 431 (435)
++.+||+||||.+++. +..|+++++++|+++++|..++..
T Consensus 375 ~~~~Pf~Rit~~d~~~--e~~G~d~~~~~dl~~~~e~~~~~~ 414 (659)
T PTZ00385 375 DLGKPFRRVSVYDEIQ--RMSGVEFPPPNELNTPKGIAYMSV 414 (659)
T ss_pred cCCCCceEEeHHHHHH--HHhCCCCCccccCCCHHHHHHHHH
Confidence 7778999999777664 557999888889999888755443
No 20
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=100.00 E-value=4.9e-64 Score=566.86 Aligned_cols=300 Identities=20% Similarity=0.249 Sum_probs=251.3
Q ss_pred CCCCCCCccccccCcceeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHh
Q 013856 76 NDPQTGKWSEAVSGREWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR 155 (435)
Q Consensus 76 ~~pyp~~~~~~~~~~~~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~ 155 (435)
.|||||+|+++++. +++.+...|++|+|+|||+++|.+| |++|++|||++++||||++.+.. .+..+..|..
T Consensus 629 ~~pyp~~~~~~~~~------~~~~~~~~~~~V~v~Grv~~~R~~G-~~~F~~lrD~~g~iQ~v~~~~~~-~~~~~~~~~~ 700 (1094)
T PRK02983 629 VDPYPVGVPPTHTV------AEALDAPTGEEVSVSGRVLRIRDYG-GVLFADLRDWSGELQVLLDASRL-EQGSLADFRA 700 (1094)
T ss_pred CCCCCCCCcCccCH------HHHHHhcCCCEEEEEEEEEEEeeCC-CeEEEEEEeCCeeEEEEEECCcc-chhhHHHHHh
Confidence 59999999987653 4454457789999999999999999 89999999999999999986532 1234555667
Q ss_pred cCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCccccccc
Q 013856 156 SLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNN 234 (435)
Q Consensus 156 ~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~ 234 (435)
.|+.||+|.|+|++.++. +|++||++++|.++++| .+||.... +..+.++|+|+
T Consensus 701 ~l~~gd~V~v~G~v~~t~------~ge~ei~~~~i~ll~k~~~plP~k~~-------------------~~~d~e~R~r~ 755 (1094)
T PRK02983 701 AVDLGDLVEVTGTMGTSR------NGTLSLLVTSWRLAGKCLRPLPDKWK-------------------GLTDPEARVRQ 755 (1094)
T ss_pred cCCCCCEEEEEEEEEEcC------CCCEEEEEeEEEEEeccCcCCCCccc-------------------cCCChhhcchh
Confidence 899999999999998643 47899999999999999 89997532 34788999999
Q ss_pred ceeeeec-hhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee--ccCCCceeeccChHHHHhhhcc
Q 013856 235 RVIDIRT-LANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL--DYKGQSACLAQSPQLHKQMSIC 311 (435)
Q Consensus 235 R~Ldlr~-~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~--~~~~~~~~L~~Spql~lq~li~ 311 (435)
||||||+ +.++++|++||.|+++||+||.++||+||+||+|++..+++++++|.+ +|||+++||+||||||||++++
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 9999976 899999999999999999999999999999999986555445678954 7999999999999999999999
Q ss_pred CCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccC
Q 013856 312 GDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKY 391 (435)
Q Consensus 312 ~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~ 391 (435)
||++||||||||||||++ +.||||||||||+||+|.| |+|+|+++|+||+++++.+.+... +..-+.......+++
T Consensus 836 gG~erVFEIg~~FRnE~~-~~rHnpEFTmLE~y~a~~d-y~d~m~l~E~li~~i~~~v~~~~~--~~~~~~~~~~~~i~~ 911 (1094)
T PRK02983 836 GGVERVFELGRNFRNEGV-DATHNPEFTLLEAYQAHAD-YDTMRDLTRELIQNAAQAAHGAPV--VMRPDGDGVLEPVDI 911 (1094)
T ss_pred cccCceEEEcceecCCCC-CCCccccccchhhhhhcCC-HHHHHHHHHHHHHHHHHHHhCCcE--EeeCCcccccccccc
Confidence 999999999999999998 4699999999999999986 999999999999999999865421 000000111224667
Q ss_pred CCCCccccHHHHHHHHHHcCCCC
Q 013856 392 KPKTLRLTFEEGVQMLKDAGVEI 414 (435)
Q Consensus 392 ~~p~~rit~~eai~ll~~~g~~~ 414 (435)
..||+||||.||++ +..|+++
T Consensus 912 ~~pf~rit~~eai~--~~~g~~~ 932 (1094)
T PRK02983 912 SGPWPVVTVHDAVS--EALGEEI 932 (1094)
T ss_pred CCCceEEEHHHHHH--HHhCCCC
Confidence 78999999999997 4455543
No 21
>PLN02903 aminoacyl-tRNA ligase
Probab=100.00 E-value=9.3e-63 Score=526.07 Aligned_cols=283 Identities=28% Similarity=0.400 Sum_probs=243.2
Q ss_pred eeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856 92 WTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV 171 (435)
Q Consensus 92 ~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~ 171 (435)
.+.|++|...+.|++|+|+|||+++|.+| +++|++|||+++.+|||++.+. ++++++++..|+.||+|.|+|+|..
T Consensus 60 t~~cg~l~~~~~gk~V~l~GWV~~~R~~G-~l~FidLRD~~G~iQvV~~~~~---~~~~~~~~~~L~~esvV~V~G~V~~ 135 (652)
T PLN02903 60 SHLCGALSVNDVGSRVTLCGWVDLHRDMG-GLTFLDVRDHTGIVQVVTLPDE---FPEAHRTANRLRNEYVVAVEGTVRS 135 (652)
T ss_pred CCchhhcchhhCCCEEEEEEEEEEEecCC-CcEEEEEEcCCccEEEEEeCCc---cHHHHHHHhcCCCCCEEEEEEEEEe
Confidence 35789999999999999999999999999 8999999999999999997542 4567888999999999999999986
Q ss_pred CC-ccC--CCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhH
Q 013856 172 PD-VEI--KGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGI 247 (435)
Q Consensus 172 ~~-~~~--~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i 247 (435)
++ .++ +..+|++||++++|+||++| .+||+.+.+... ....++.++|++|||||||++.++++
T Consensus 136 r~~~~~n~~~~tGeiEl~~~~i~VL~~a~~~lPf~i~~~~~-------------~~~~~~ee~Rl~~RyLDLR~~~~q~~ 202 (652)
T PLN02903 136 RPQESPNKKMKTGSVEVVAESVDILNVVTKSLPFLVTTADE-------------QKDSIKEEVRLRYRVLDLRRPQMNAN 202 (652)
T ss_pred CCCcCcCCCCCCCCEEEEEeEEEEEecCCCCCCcccccccc-------------ccccCChhhhhccceeecCCHHHHHH
Confidence 42 222 33458899999999999999 889998764311 01126789999999999999999999
Q ss_pred HHHHHHHHHHHHHHhhc-CCeeeecCceeeecCCCCCcceeeeccC--CCceeeccChHHHHhhhccCCCceeEEEecce
Q 013856 248 FRIQSQVGNIFRQFLLS-ENFVEIHTPKLIAGSSEGGSAVFRLDYK--GQSACLAQSPQLHKQMSICGDFGRVFETGPVF 324 (435)
Q Consensus 248 ~~~rs~i~~~~R~fl~~-~gF~EV~TP~l~~~~~egga~~F~~~~~--~~~~~L~~Spql~lq~li~~g~~rVfeIgp~F 324 (435)
|++||.|++++|+||.+ +||+||+||+|+++++||+.+.|...++ |..+||+||||||||++|++|++|||||||||
T Consensus 203 lr~Rs~i~~~iR~fl~~~~gFiEVeTPiL~~st~eGardf~v~~~~~~g~~y~L~qSPQlykQ~Lm~~G~~RvFqIa~~F 282 (652)
T PLN02903 203 LRLRHRVVKLIRRYLEDVHGFVEIETPILSRSTPEGARDYLVPSRVQPGTFYALPQSPQLFKQMLMVSGFDRYYQIARCF 282 (652)
T ss_pred HHHHHHHHHHHHHHHHhcCCeEEEECCeeccCCCCCCcccEEeeecCCCcccccCCCHHHHHHHHHhccCCcEEEEehhh
Confidence 99999999999999997 9999999999999888876654444443 56778999999999999999999999999999
Q ss_pred ecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHH
Q 013856 325 RAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGV 404 (435)
Q Consensus 325 R~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai 404 (435)
|||++++.|| ||||||||||+|++ |+|+|+++|+||+++++.+.+ +++..||+||||.||+
T Consensus 283 R~E~~~t~Rh-pEFTqLE~E~sf~d-~~dvm~~~E~li~~v~~~~~~-----------------~~~~~PF~rity~eA~ 343 (652)
T PLN02903 283 RDEDLRADRQ-PEFTQLDMELAFTP-LEDMLKLNEDLIRQVFKEIKG-----------------VQLPNPFPRLTYAEAM 343 (652)
T ss_pred ccCCCCCCcc-cceeeeeeeecCCC-HHHHHHHHHHHHHHHHHHHhC-----------------CCCCCCceEEEHHHHH
Confidence 9999999888 99999999999996 999999999999999987652 1233699999999999
Q ss_pred HHHHHcCCC
Q 013856 405 QMLKDAGVE 413 (435)
Q Consensus 405 ~ll~~~g~~ 413 (435)
+ ..|.+
T Consensus 344 ~---~ygsD 349 (652)
T PLN02903 344 S---KYGSD 349 (652)
T ss_pred H---HHcCC
Confidence 6 45544
No 22
>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=7.2e-62 Score=517.01 Aligned_cols=269 Identities=27% Similarity=0.451 Sum_probs=235.0
Q ss_pred eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856 93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP 172 (435)
Q Consensus 93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~ 172 (435)
+.|+++...+.|++|+|+|||+++|.+| +++|++|||+++.||||++.+ .++++++..|+.||+|.|+|+|...
T Consensus 4 ~~~~~l~~~~~g~~V~l~GwV~~~R~~G-kl~Fi~LrD~sg~iQvv~~~~-----~~~~~~~~~L~~esvV~V~G~v~~r 77 (583)
T TIGR00459 4 HYCGQLRTEHLGQTVTLAGWVNRRRDLG-GLIFIDLRDRSGIVQVVCDPD-----ADALKLAKGLRNEDVVQVKGKVSAR 77 (583)
T ss_pred eeHhhcchhhCCCEEEEEEEEEEEEcCC-CcEEEEEEeCCccEEEEEeCC-----HHHHHHHhcCCCCCEEEEEEEEEeC
Confidence 4577887788999999999999999999 799999999999999999753 4567888999999999999999753
Q ss_pred C-ccCC--CCceeEEEEEeEEEEeecCCCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHH
Q 013856 173 D-VEIK--GATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFR 249 (435)
Q Consensus 173 ~-~~~~--~~t~~lEI~v~~i~vls~~~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~ 249 (435)
+ .++. .++|++||.++++.+|++|..+|+.+.+. ..+.++|+++||||||++.++++|+
T Consensus 78 ~~~~~n~~~~tg~iEl~~~~i~iL~~a~~~P~~~~~~------------------~~~~~~Rl~~RyLDLR~~~~~~~lr 139 (583)
T TIGR00459 78 PEGNINRNLDTGEIEILAESITLLNKSKTPPLIIEKT------------------DAEEEVRLKYRYLDLRRPEMQQRLK 139 (583)
T ss_pred CccccCccCCCCcEEEEEeEEEEeecCCCCCCccccc------------------ccchhhhcccceEEcCCHHHHHHHH
Confidence 2 2222 45689999999999999996678765421 2567999999999999999999999
Q ss_pred HHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeecc--CCCce-eeccChHHHHhhhccCCCceeEEEecceec
Q 013856 250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDY--KGQSA-CLAQSPQLHKQMSICGDFGRVFETGPVFRA 326 (435)
Q Consensus 250 ~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~--~~~~~-~L~~Spql~lq~li~~g~~rVfeIgp~FR~ 326 (435)
+||.|+++||+||.++||+||+||+|+++++||+ .+|.+.+ ++..+ +|+||||||||+|+++|++|||||||||||
T Consensus 140 ~Rs~i~~~iR~ff~~~gFiEVeTP~L~~s~~eGa-r~f~vp~~~~~~~~y~L~qSpQlykq~l~v~G~ervfqI~~~FR~ 218 (583)
T TIGR00459 140 LRHKVTKAVRNFLDQQGFLEIETPMLTKSTPEGA-RDYLVPSRVHKGEFYALPQSPQLFKQLLMVSGVDRYYQIARCFRD 218 (583)
T ss_pred HHHHHHHHHHHHHHHCCCEEEECCeeccCCCCCC-cceeeeeecCCCceeecCCCHHHHHHHHHhcccCcEEEEcceeeC
Confidence 9999999999999999999999999998878865 4576654 35554 599999999999999999999999999999
Q ss_pred CcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHH
Q 013856 327 EDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQ 405 (435)
Q Consensus 327 E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ 405 (435)
|++++.|| ||||||||||+|++ |+|+|+++|+||+++++.+.+ +++..||+||||.||+.
T Consensus 219 E~~~t~r~-pEFT~le~E~af~d-~~dvm~~~E~li~~v~~~v~~-----------------~~~~~pf~r~ty~ea~~ 278 (583)
T TIGR00459 219 EDLRADRQ-PEFTQIDMEMSFMT-QEDVMELIEKLVSHVFLEVKG-----------------IDLKKPFPVMTYAEAME 278 (583)
T ss_pred CCCCCCCC-cccCcceeeecCCC-HHHHHHHHHHHHHHHHHHHhC-----------------CCCCCCceEEEHHHHHH
Confidence 99989888 99999999999996 999999999999999998763 23457999999999996
No 23
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.6e-63 Score=505.87 Aligned_cols=297 Identities=24% Similarity=0.364 Sum_probs=254.4
Q ss_pred CCCCCCCccccccCcc----eeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHH
Q 013856 76 NDPQTGKWSEAVSGRE----WTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMV 151 (435)
Q Consensus 76 ~~pyp~~~~~~~~~~~----~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~ 151 (435)
.||||+.|+.+++..+ |.....-........|+|+|||.++|.+| |++|++|.|++++||++++++. +..+.+
T Consensus 29 ~~~yp~~~~~~~~~~~l~~~~~~~~~~el~~~~~~v~vAGRi~~~R~~G-K~~F~~i~d~~gkiQ~yi~k~~--~~~~~~ 105 (502)
T COG1190 29 IDPYPNDFERTHTSADLREKYADKTKEELEALNIEVSVAGRIMTIRNMG-KASFADLQDGSGKIQLYVNKDE--VGEEVF 105 (502)
T ss_pred CCCCCCcCcccccHHHHHHHHhccchhhhhhccceeEEecceeeecccC-ceeEEEEecCCceEEEEEeccc--cchhhH
Confidence 6899999999876543 33222100112233499999999999999 9999999999999999999753 445555
Q ss_pred H-HHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcc
Q 013856 152 R-FVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQD 229 (435)
Q Consensus 152 ~-~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e 229 (435)
+ +.+.+..||||+|+|.+.+ +.+|+++|+++++.+|++| .+||.. .+++.|+|
T Consensus 106 ~~~~~~~dlGDiigv~G~~~~------T~~GelSv~v~~~~lLsKsL~pLPeK-------------------~hgL~D~E 160 (502)
T COG1190 106 EALFKKLDLGDIIGVEGPLFK------TKTGELSVSVEELRLLSKSLRPLPEK-------------------FHGLTDKE 160 (502)
T ss_pred HHHHhccccCCEEeeeeeeee------cCCCceEEEEEEEeeecccCCCCChh-------------------hcCCccHH
Confidence 5 6778999999999999876 3468999999999999999 999965 34568999
Q ss_pred cccccceeeeec-hhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcc--eeee--ccCCCceeeccChHH
Q 013856 230 TRLNNRVIDIRT-LANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSA--VFRL--DYKGQSACLAQSPQL 304 (435)
Q Consensus 230 ~rl~~R~Ldlr~-~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~--~F~~--~~~~~~~~L~~Spql 304 (435)
+|+|+|||||.. +..+.+|..||+|+++||+||+++||+||+||+|+. ..|||+ ||.+ |.++.++|||+||+|
T Consensus 161 ~RyR~RylDLi~N~e~r~~f~~Rs~ii~~iR~fl~~~gFlEVETP~lq~--i~GGA~ArPF~ThhNald~dlyLRIApEL 238 (502)
T COG1190 161 IRYRQRYLDLIVNPESRQTFIKRSKIIRAIREFLDDRGFLEVETPMLQP--IPGGAAARPFITHHNALDMDLYLRIAPEL 238 (502)
T ss_pred HHHHHHHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHCCCeEeccccccc--cCCCcccccceeeecccCCceEEeeccHH
Confidence 999999999998 789999999999999999999999999999999985 456655 9998 569999999999999
Q ss_pred HHhhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcC
Q 013856 305 HKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQY 384 (435)
Q Consensus 305 ~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~ 384 (435)
|||+||+|||+||||||++||||+. +.||||||||||+|+||+| |+|+|+++|+||+++++.+.+... -.|
T Consensus 239 yLKRliVGG~erVfEIgr~FRNEGi-d~tHNPEFTmlE~Y~AYaD-y~D~m~ltE~Li~~~a~~v~gt~~-------v~y 309 (502)
T COG1190 239 YLKRLIVGGFERVFEIGRNFRNEGI-DTTHNPEFTMLEFYQAYAD-YEDLMDLTEELIKELAKEVNGTTK-------VTY 309 (502)
T ss_pred HHHHHHhcCchhheeeccccccCCC-ccccCcchhhHHHHHHHhH-HHHHHHHHHHHHHHHHHHhcCCeE-------EEE
Confidence 9999999999999999999999996 8999999999999999997 999999999999999999875321 235
Q ss_pred CCccccCCCCCccccHHHHHHHHHHcCCC
Q 013856 385 PFEPLKYKPKTLRLTFEEGVQMLKDAGVE 413 (435)
Q Consensus 385 ~~~~~~~~~p~~rit~~eai~ll~~~g~~ 413 (435)
+...++|.+||.|++|.||+. ...|+.
T Consensus 310 ~~~~id~~~pf~ri~m~dal~--e~~g~~ 336 (502)
T COG1190 310 GGQEIDFSKPFKRITMVDALK--EYLGVD 336 (502)
T ss_pred CCEeEecCCCeeeeehHHHHH--HHhCcc
Confidence 566789999999999999996 667765
No 24
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=100.00 E-value=3.4e-61 Score=518.46 Aligned_cols=286 Identities=27% Similarity=0.360 Sum_probs=238.4
Q ss_pred eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856 93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP 172 (435)
Q Consensus 93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~ 172 (435)
+.|++|.+.+.|++|+|+|||+++|.+| +++|++|||+++.||||++.+. ++.++++++..|+.||+|.|+|+|..+
T Consensus 7 ~~cg~l~~~~~g~~V~l~GWV~~~R~~G-~l~FidLRD~~G~iQvV~~~~~--~~~~~~~~~~~L~~EsvV~V~G~v~~r 83 (706)
T PRK12820 7 SFCGHLSLDDTGREVCLAGWVDAFRDHG-ELLFIHLRDRNGFIQAVFSPEA--APADVYELAASLRAEFCVALQGEVQKR 83 (706)
T ss_pred cccccCChhhCCCEEEEEEEEEEEEcCC-CcEEEEEEeCCccEEEEEeCCc--CCHHHHHHHhcCCCCCEEEEEeEEecc
Confidence 5789999999999999999999999999 8999999999999999998542 467788999999999999999999874
Q ss_pred CccC---CCCceeEEEEEeEEEEeecCCCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHH
Q 013856 173 DVEI---KGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFR 249 (435)
Q Consensus 173 ~~~~---~~~t~~lEI~v~~i~vls~~~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~ 249 (435)
+... +..+|++||++++|.||++|..+|+.+.+...+.. ..+..+..++.++|++|||||||++..+++|+
T Consensus 84 ~~~~~n~~~~tg~iEl~~~~i~iL~~a~~lP~~i~~~~~~~~------~~~~~~~~~~e~~Rl~~RyLDLR~~~~~~~lr 157 (706)
T PRK12820 84 LEETENPHIETGDIEVFVRELSILAASEALPFAISDKAMTAG------AGSAGADAVNEDLRLQYRYLDIRRPAMQDHLA 157 (706)
T ss_pred CccccCCCCCCCcEEEEeeEEEEEecCCCCCCCCcccccccc------cccccccccCHhhhhhCceeecCCHHHHHHHH
Confidence 3221 22358899999999999999667876654211000 00011223678999999999999999999999
Q ss_pred HHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcce-eeeccCCCce-eeccChHHHHhhhccCCCceeEEEecceecC
Q 013856 250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAV-FRLDYKGQSA-CLAQSPQLHKQMSICGDFGRVFETGPVFRAE 327 (435)
Q Consensus 250 ~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~-F~~~~~~~~~-~L~~Spql~lq~li~~g~~rVfeIgp~FR~E 327 (435)
+||.|+++||+||.++||+||+||+|++++++|+.+. +...+++..+ +|+||||||||+||++|++||||||||||||
T Consensus 158 ~Rs~i~~~iR~fl~~~gFiEVeTPiL~~s~~eGAr~~~~p~~~~~~~~y~L~qSPQlykq~lm~~G~~rvfqI~~~FR~E 237 (706)
T PRK12820 158 KRHRIIKCARDFLDSRGFLEIETPILTKSTPEGARDYLVPSRIHPKEFYALPQSPQLFKQLLMIAGFERYFQLARCFRDE 237 (706)
T ss_pred HHHHHHHHHHHHHHHCCCEEEeCCccccCCCCCCcceEEeeecCCCcceecCCCHHHHHHHHHhccCCcEEEEechhcCC
Confidence 9999999999999999999999999998888875542 2334455544 5999999999999999999999999999999
Q ss_pred cCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHHH
Q 013856 328 DSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQML 407 (435)
Q Consensus 328 ~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll 407 (435)
++++.|| ||||||||||+|++ ++|+|+++|+||+++++.. + ..+..||+||||.||++.+
T Consensus 238 ~~~t~r~-pEFT~LE~E~af~d-~~dvm~l~E~li~~v~~~~-----------~-------~~~~~pf~r~ty~eA~~~y 297 (706)
T PRK12820 238 DLRPNRQ-PEFTQLDIEASFID-EEFIFELIEELTARMFAIG-----------G-------IALPRPFPRMPYAEAMDTT 297 (706)
T ss_pred CCCCCcC-ccccccceeeccCC-HHHHHHHHHHHHHHHHHhc-----------C-------cCCCCCceEEEHHHHHHHh
Confidence 9988877 99999999999996 9999999999999998511 0 1234699999999999633
No 25
>PRK00476 aspS aspartyl-tRNA synthetase; Validated
Probab=100.00 E-value=3.9e-61 Score=514.39 Aligned_cols=277 Identities=29% Similarity=0.447 Sum_probs=241.9
Q ss_pred eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856 93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP 172 (435)
Q Consensus 93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~ 172 (435)
+.++++...+.|++|+|+|||+++|.+| +++|++|||+++.||||++. . .++++++..|+.||+|.|+|+|...
T Consensus 6 ~~~~~l~~~~~g~~V~l~GwV~~~R~~g-~l~Fi~LrD~~g~iQ~v~~~----~-~~~~~~~~~l~~es~V~V~G~v~~~ 79 (588)
T PRK00476 6 HYCGELRESHVGQTVTLCGWVHRRRDHG-GLIFIDLRDREGIVQVVFDP----D-AEAFEVAESLRSEYVIQVTGTVRAR 79 (588)
T ss_pred eeHHHhhHHhCCCEEEEEEEEEEEEeCC-CeEEEEEEeCCceEEEEEeC----C-HHHHHHHhCCCCCCEEEEEEEEEec
Confidence 4577787788999999999999999999 89999999999999999974 1 5678889999999999999999863
Q ss_pred C-ccC--CCCceeEEEEEeEEEEeecCCCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHH
Q 013856 173 D-VEI--KGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFR 249 (435)
Q Consensus 173 ~-~~~--~~~t~~lEI~v~~i~vls~~~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~ 249 (435)
+ .++ +..+|++||.+++|.|||+|.++|+.+.+.. ..+.++|+++||||||++..+++|+
T Consensus 80 ~~~~~n~~~~~g~~El~~~~i~il~~a~~lP~~~~~~~-----------------~~~~~~Rl~~R~LdlR~~~~~~~l~ 142 (588)
T PRK00476 80 PEGTVNPNLPTGEIEVLASELEVLNKSKTLPFPIDDEE-----------------DVSEELRLKYRYLDLRRPEMQKNLK 142 (588)
T ss_pred CCcccCccCCCCcEEEEEeEEEEEecCCCCCCcccccc-----------------cCChhhhhhcceEeecCHHHHHHHH
Confidence 2 222 2236889999999999999977888764321 1567999999999999999999999
Q ss_pred HHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeec---cCCCceeeccChHHHHhhhccCCCceeEEEecceec
Q 013856 250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLD---YKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRA 326 (435)
Q Consensus 250 ~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~---~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~ 326 (435)
+||.|++++|+||.++||+||+||+|++++++| +.+|.+. +.+..+||+||||||||+|+++|++|||+|||||||
T Consensus 143 ~Rs~i~~~iR~ff~~~gFiEV~TP~L~~s~~eg-a~~f~v~~~~~~~~~~~L~qSpql~kq~l~~~g~~rvfqi~~~FR~ 221 (588)
T PRK00476 143 LRSKVTSAIRNFLDDNGFLEIETPILTKSTPEG-ARDYLVPSRVHPGKFYALPQSPQLFKQLLMVAGFDRYYQIARCFRD 221 (588)
T ss_pred HHHHHHHHHHHHHHHCCCEEEECCeeecCCCCC-CccceecccccCCceeecCCCHHHHHHHHHhcccCceEEEeceeec
Confidence 999999999999999999999999999887876 5668875 678888999999999999999999999999999999
Q ss_pred CcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHHH
Q 013856 327 EDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQM 406 (435)
Q Consensus 327 E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~l 406 (435)
|++++.||+ |||||||||+|++ |+|+|+++|+||+++++.+.+ .++..||+||||.||++
T Consensus 222 E~~~~~r~~-EFt~le~e~af~~-~~dvm~~~E~li~~i~~~~~~-----------------~~~~~pf~r~ty~ea~~- 281 (588)
T PRK00476 222 EDLRADRQP-EFTQIDIEMSFVT-QEDVMALMEGLIRHVFKEVLG-----------------VDLPTPFPRMTYAEAMR- 281 (588)
T ss_pred CCCCCCcCc-ccccceeeecCCC-HHHHHHHHHHHHHHHHHHHhC-----------------ccCCCCceEEEHHHHHH-
Confidence 999999987 9999999999996 999999999999999988752 12346899999999995
Q ss_pred HHHcCCCCC
Q 013856 407 LKDAGVEID 415 (435)
Q Consensus 407 l~~~g~~~~ 415 (435)
..|.+-|
T Consensus 282 --~yg~dkP 288 (588)
T PRK00476 282 --RYGSDKP 288 (588)
T ss_pred --HHCCCCC
Confidence 5566544
No 26
>COG0173 AspS Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.7e-60 Score=489.92 Aligned_cols=272 Identities=30% Similarity=0.464 Sum_probs=246.4
Q ss_pred eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856 93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP 172 (435)
Q Consensus 93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~ 172 (435)
+.|++|..+++|++|+++||||+.|.+| +|+|++|||..|.+|+|++.. .+++.++.+..|+.|++|.|+|+|...
T Consensus 4 ~~cg~l~~~~vG~~V~L~GWV~r~Rd~G-gliFiDLRDr~GivQvv~~~~---~~~~~~~~a~~lr~E~vi~V~G~V~~R 79 (585)
T COG0173 4 HYCGELRESHVGQTVTLSGWVHRRRDHG-GLIFIDLRDREGIVQVVFDPE---DSPEAFEVASRLRNEFVIQVTGTVRAR 79 (585)
T ss_pred eeccccCHHHCCCEEEEEeeeeeccccC-CeEEEEcccCCCeEEEEECCc---cCHHHHHHHHhcCceEEEEEEEEEEec
Confidence 5788999999999999999999999999 799999999999999999853 467888999999999999999988754
Q ss_pred Cc---cCCCCceeEEEEEeEEEEeecCCCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHH
Q 013856 173 DV---EIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFR 249 (435)
Q Consensus 173 ~~---~~~~~t~~lEI~v~~i~vls~~~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~ 249 (435)
+. ..+-.||++||++++|.|||.|.+|||.+.|.. .++.|+||.|||||||.|.++..++
T Consensus 80 ~e~~~N~~l~TGeiEv~a~~i~vln~s~~lPf~i~d~~-----------------~~~Ee~RLkYRyLDLRR~~m~~~l~ 142 (585)
T COG0173 80 PEGTINPNLPTGEIEVLAEEIEVLNASKTLPFQIEDET-----------------NASEEIRLKYRYLDLRRPEMQKNLK 142 (585)
T ss_pred CccccCCCCCcceEEEEeeeEEEEecCCCCCcCCCCCC-----------------CcchhhhhhhhhhhhcCHHHHHHHH
Confidence 32 334567999999999999999999999987631 2678999999999999999999999
Q ss_pred HHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeec---cCCCceeeccChHHHHhhhccCCCceeEEEecceec
Q 013856 250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLD---YKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRA 326 (435)
Q Consensus 250 ~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~---~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~ 326 (435)
.||+++.++|+||+++||+||+||+|+.+++|| |..|-|. +-|..+-|.||||||||.||++||+|+|+|++|||.
T Consensus 143 lR~kv~~~iR~~ld~~gF~EiETPiLtkSTPEG-ARDfLVPSRv~~G~FYALPQSPQlfKQLLMvsGfdRYyQIarCFRD 221 (585)
T COG0173 143 LRSKVTKAIRNFLDDQGFLEIETPILTKSTPEG-ARDFLVPSRVHPGKFYALPQSPQLFKQLLMVAGFDRYYQIARCFRD 221 (585)
T ss_pred HHHHHHHHHHHHHhhcCCeEeecCccccCCCcc-ccccccccccCCCceeecCCCHHHHHHHHHHhcccceeeeeeeecc
Confidence 999999999999999999999999999988775 8888885 478889999999999999999999999999999999
Q ss_pred CcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHH
Q 013856 327 EDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQ 405 (435)
Q Consensus 327 E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ 405 (435)
|+.+..|. |||||+|+||+|.+ -+|+|+++|+|+.++|+.+.+ +++..||+||||+||+.
T Consensus 222 EDlRaDRQ-PEFTQiD~EmSF~~-~edv~~~~E~l~~~vf~~~~~-----------------i~l~~pFprmtY~eAm~ 281 (585)
T COG0173 222 EDLRADRQ-PEFTQIDLEMSFVD-EEDVMELIEKLLRYVFKEVKG-----------------IELKTPFPRMTYAEAMR 281 (585)
T ss_pred cccccccC-CcceeEeEEeecCC-HHHHHHHHHHHHHHHHHHhcC-----------------CccCCCcccccHHHHHH
Confidence 99999999 99999999999998 799999999999999998753 23446999999999995
No 27
>KOG0555 consensus Asparaginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.9e-56 Score=441.07 Aligned_cols=368 Identities=23% Similarity=0.316 Sum_probs=286.4
Q ss_pred cCCccccChhHHHHHHHHHHHHHHHHHHHHHH--HHHhhhccccc---CCCCCCccCCChhhhhccCCCCCCCccccccC
Q 013856 15 DSSSQSISKKAAKKEAAKKAKEERRKEAEAAA--SAASALSIEEE---GPLANNYGDVPLQELQSVNDPQTGKWSEAVSG 89 (435)
Q Consensus 15 ~~~~~~~sk~~lkk~~k~~~k~~kka~~~~~~--~~~~~~~~~~~---d~~~~~Yg~~~~~~~~~~~~pyp~~~~~~~~~ 89 (435)
++.=++.||++|||.+|.-..+.+|.+++..+ +.+++.+++.+ .+.-..+- +.+.
T Consensus 50 ~e~~e~~sk~~Lkk~~kg~~~~~~k~~k~~~~ea~~~ek~~~~le~a~ki~ised~--------------------slp~ 109 (545)
T KOG0555|consen 50 SEEYEPISKSALKKIKKGWVRECKKSAKASQKEAEASEKREKNLEEAKKITISEDK--------------------SLPA 109 (545)
T ss_pred ccccchHHHHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHhHHhhhcccccCCC--------------------CCch
Confidence 34446899999999998777666665432111 11111111111 11111111 1233
Q ss_pred cceeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEE
Q 013856 90 REWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVV 169 (435)
Q Consensus 90 ~~~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v 169 (435)
.+-++|.+.. ++.|+.|.|.||||+.|.+ ++|+|++|||+++.||||++.... .+ ++ +-.|+.+|.|.|.|++
T Consensus 110 ak~iki~~s~-~~r~qrVkv~gWVhrlR~q-k~l~FivLrdg~gflqCVl~~kl~-~~---yd-~~~Ls~essv~vYG~i 182 (545)
T KOG0555|consen 110 AKKIKIYDST-ENRGQRVKVFGWVHRLRRQ-KSLIFIVLRDGTGFLQCVLSDKLC-QS---YD-ALTLSTESSVTVYGTI 182 (545)
T ss_pred hheeeecccc-cccCceEEeehhhHhhhhc-CceEEEEEecCCceEEEEEcchhh-hh---hc-cccccccceEEEEEEE
Confidence 3456666543 5789999999999999999 599999999999999999985321 11 11 1258999999999999
Q ss_pred ecCCccCCCCceeEEEEEeEEEEeecCCCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHH
Q 013856 170 SVPDVEIKGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFR 249 (435)
Q Consensus 170 ~~~~~~~~~~t~~lEI~v~~i~vls~~~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~ 249 (435)
++.+. .|++.++.||.|.-+.|++.++.-.+... ..+ -.+.+..|+||||-+|....+.+++
T Consensus 183 ~~~p~-GK~apgghEl~vdy~Eiig~Apag~~~n~---lne--------------~s~~~~~LdnrHl~iRge~~s~vLK 244 (545)
T KOG0555|consen 183 KKLPE-GKSAPGGHELNVDYWEIIGLAPAGGFDNP---LNE--------------ESDVDVLLDNRHLVIRGENASKVLK 244 (545)
T ss_pred ecCcC-CCCCCCCceEEeeeeeeecccCCCccccc---ccc--------------cCCcceEeccceeEEechhHHHHHH
Confidence 87543 35667899999999999987722111100 000 1456788999999999999999999
Q ss_pred HHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEecceecCcC
Q 013856 250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAEDS 329 (435)
Q Consensus 250 ~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E~s 329 (435)
+|+.+++++|++|.+.|+.||.+|.|.....|||++.|+++|||.++||+||.||||+.++.+ +++||+|.++||||.|
T Consensus 245 ~Ra~~lr~~Rd~y~~~~ytEVtPPtmVQTQVEGGsTLFkldYyGEeAyLTQSSQLYLEtclpA-lgdvy~I~~SyRAEkS 323 (545)
T KOG0555|consen 245 ARAALLRAMRDHYFERGYTEVTPPTMVQTQVEGGSTLFKLDYYGEEAYLTQSSQLYLETCLPA-LGDVYCIQQSYRAEKS 323 (545)
T ss_pred HHHHHHHHHHHHHHhcCceecCCCceEEEEecCcceEEeecccCchhhccchhHHHHHHhhhh-cCceeEecHhhhhhhh
Confidence 999999999999999999999999999999999999999999999999999999999988764 9999999999999999
Q ss_pred CCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhH-HHHHHhhhcCCCccccCCCCCccccHHHHHHHHH
Q 013856 330 YTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCK-KELEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLK 408 (435)
Q Consensus 330 ~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~-~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~ 408 (435)
.|.|||.|||++|+|++|.+ ++++|+.+|+|++..+..+++.-. ..|..++..|.. -..||.||.|+|||++|+
T Consensus 324 rTRRHLsEytHVEaE~aflt-fd~ll~~iE~lvc~~vdr~l~dp~~~li~~lnP~f~~----P~~PFkRm~Y~dAI~wLk 398 (545)
T KOG0555|consen 324 RTRRHLSEYTHVEAECAFLT-FDDLLDRIEALVCDSVDRLLEDPIAPLIKQLNPDFKA----PKRPFKRMNYSDAIEWLK 398 (545)
T ss_pred hhhhhhhhheeeeeeccccc-HHHHHHHHHHHHHHHHHHHHhChhhhhHHHhCCCCCC----CCCchhcCCHHHHHHHHH
Confidence 99999999999999999997 999999999999999999886532 355555443321 135999999999999999
Q ss_pred HcCCC------CCCCCCCCcHHHHHHHHHHh
Q 013856 409 DAGVE------IDPLGDLNTESERKLGQLVL 433 (435)
Q Consensus 409 ~~g~~------~~~~~dl~te~E~~L~~~vk 433 (435)
+.++. +..|+|+....||++.+-|-
T Consensus 399 e~~vk~edg~~fefGdDI~eAaER~mtdtIg 429 (545)
T KOG0555|consen 399 EHDVKKEDGTDFEFGDDIPEAAERKMTDTIG 429 (545)
T ss_pred hcCCcCccCcccccccchhhHHHHhhhhhcC
Confidence 98654 55679999999999988663
No 28
>KOG0554 consensus Asparaginyl-tRNA synthetase (mitochondrial) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.4e-56 Score=438.94 Aligned_cols=298 Identities=27% Similarity=0.402 Sum_probs=263.4
Q ss_pred cCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCC--eEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccC
Q 013856 99 NGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERV--STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEI 176 (435)
Q Consensus 99 ~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~--~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~ 176 (435)
.....|++++|.|||.++|.+| +.+|++|.||+ ..+|||++. ...+.+..|+.|.|+|++..+
T Consensus 15 ~~~~~g~~~~i~GWvKsvr~~~-~~~Fl~i~DGs~~~~lQvVv~~----------~~~q~la~Gt~i~~~g~l~~~---- 79 (446)
T KOG0554|consen 15 GHPRAGDTISIGGWVKSVRKLK-KVTFLDINDGSCPSPLQVVVDS----------EQSQLLATGTCISAEGVLKVS---- 79 (446)
T ss_pred cCCCCCCceeecchhhhccccc-ceEEEEecCCCCCcceEEEech----------HHhhhccccceEEEEeeEEec----
Confidence 4457799999999999999999 78999999997 589999985 234679999999999999876
Q ss_pred CCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHHHHHHHHH
Q 013856 177 KGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIFRIQSQVG 255 (435)
Q Consensus 177 ~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i~ 255 (435)
++..+++|+.+.+|.+++.+ +.+|++.+. ..++...+.-||+.|+....+++|+||.+.
T Consensus 80 ~~~~q~iel~~eki~~vG~v~~~ypl~Kk~--------------------lt~e~LR~~~HLR~Rt~~~~av~RvRs~~~ 139 (446)
T KOG0554|consen 80 KGAKQQIELNAEKIKVVGTVDESYPLQKKK--------------------LTPEMLRDKLHLRSRTAKVGAVLRVRSALA 139 (446)
T ss_pred cchheeeeeeeeEEEEEeecCCCCCCcccc--------------------CCHHHHhhcccccchhhHHHHHHHHHHHHH
Confidence 46678899999999999999 778887554 345666678899999999999999999999
Q ss_pred HHHHHHhhcCCeeeecCceeeecCCCCCcceeee--------ccCCCceeeccChHHHHhhhccCCCceeEEEecceecC
Q 013856 256 NIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL--------DYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFRAE 327 (435)
Q Consensus 256 ~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~--------~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR~E 327 (435)
.+++.||.+++|++|+||+|+.++|||++++|.| +|||+++||++|.|||++. ++.++.|||.+||+||||
T Consensus 140 ~a~h~ffq~~~F~~i~tPiiTt~DCEGaGE~F~vtt~~d~~~~fFg~p~fLTVSgQLhlE~-~a~~LsrvyTfgP~FRAE 218 (446)
T KOG0554|consen 140 FATHSFFQSHDFTYINTPIITTNDCEGAGEVFQVTTLTDYSKDFFGRPAFLTVSGQLHLEA-MACALSRVYTFGPTFRAE 218 (446)
T ss_pred HHHHHHHHHcCceEecCcEeeccCCCCCcceEEEEecCcccccccCCceEEEEeceehHHH-HHhhhcceEeeccceecc
Confidence 9999999999999999999999999999999987 5899999999999999995 567899999999999999
Q ss_pred cCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCc-c----ccCCCCCccccHHH
Q 013856 328 DSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFE-P----LKYKPKTLRLTFEE 402 (435)
Q Consensus 328 ~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~-~----~~~~~p~~rit~~e 402 (435)
+|+++|||.||||+|.|+||++.++|+|+++|.+++++++.+.++|.++++...+..... . ..+..+|.||||.|
T Consensus 219 nS~tsRHLAEFwMlEaE~AF~~sl~d~m~~~e~~~K~mik~llek~~edmel~~k~~~~~~~~rl~~~~~~~~~~~tYte 298 (446)
T KOG0554|consen 219 NSHTSRHLAEFWMLEAELAFAESLDDLMSCAEAYIKHMIKYLLEKCIEDMELMHKNEDPGSIDRLELVAKENLLRITYTE 298 (446)
T ss_pred cCCchhHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhheeccccCCCccchhhhhccchhhhccHHH
Confidence 999999999999999999999889999999999999999999999999887655543211 1 12234689999999
Q ss_pred HHHHHHHcC-----CCCCCCCCCCcHHHHHHHHHH
Q 013856 403 GVQMLKDAG-----VEIDPLGDLNTESERKLGQLV 432 (435)
Q Consensus 403 ai~ll~~~g-----~~~~~~~dl~te~E~~L~~~v 432 (435)
||++|.+++ .++.|+.||++|||++|++..
T Consensus 299 Aie~L~~a~t~~fk~~~kwG~~l~~ehe~yL~~~~ 333 (446)
T KOG0554|consen 299 AIELLQKAVTKKFKTPPKWGIDLSTEHEKYLVEEC 333 (446)
T ss_pred HHHHHHHhcccccccCcccccccchhhHHHHHHHh
Confidence 999999986 356899999999999999875
No 29
>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=2.8e-50 Score=404.69 Aligned_cols=206 Identities=47% Similarity=0.711 Sum_probs=190.0
Q ss_pred CCcccccccceeeeechhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHH
Q 013856 226 VNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLH 305 (435)
Q Consensus 226 ~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~ 305 (435)
+++++|++|||||+|++..++++++||.|++.+|+||.++||+||+||+|++++++|++++|.++|||+++||++|||||
T Consensus 2 ~~~~~~~~~r~l~lr~~~~~~~~~~rs~i~~~ir~~f~~~gf~eV~TP~l~~~~~e~~~~~f~~~~~~~~~yL~~Spql~ 81 (322)
T cd00776 2 ANLETLLDNRHLDLRTPKVQAIFRIRSEVLRAFREFLRENGFTEVHTPKITSTDTEGGAELFKVSYFGKPAYLAQSPQLY 81 (322)
T ss_pred CChHhhhhCceeeeCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEeeCCceecCCCCccCCccccccCCCcceecCCHHHH
Confidence 46799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCC
Q 013856 306 KQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYP 385 (435)
Q Consensus 306 lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~ 385 (435)
||++++| ++|||+||||||||++++.|||||||||||||+|+++|+|+|+++|+||+++++.+.+.|..++..++ .++
T Consensus 82 lk~l~~~-~~~vf~i~~~FR~E~~~~~rHl~EFtmlE~e~~~~~~~~dlm~~~e~ll~~~~~~l~~~~~~~~~~~~-~~~ 159 (322)
T cd00776 82 KEMLIAA-LERVYEIGPVFRAEKSNTRRHLSEFWMLEAEMAFIEDYNEVMDLIEELIKYIFKRVLERCAKELELVN-QLN 159 (322)
T ss_pred HHHHHHh-hhhhEEeccccccCCCCcCCCcceeeccceeeeccCCHHHHHHHHHHHHHHHHHHHHhccHHHHhhhh-ccC
Confidence 9999987 99999999999999998999999999999999999559999999999999999999999988877642 222
Q ss_pred CccccCCCCCccccHHHHHHHHHHcCC--CCCCCCCCCcHHHHHHHHHHh
Q 013856 386 FEPLKYKPKTLRLTFEEGVQMLKDAGV--EIDPLGDLNTESERKLGQLVL 433 (435)
Q Consensus 386 ~~~~~~~~p~~rit~~eai~ll~~~g~--~~~~~~dl~te~E~~L~~~vk 433 (435)
.....+..||+||||.||+++|.+.|. +++|++|+++++|++|+++++
T Consensus 160 ~~~~~~~~~~~rit~~eA~~~l~~~~~~~~~~~~~~l~~~~e~~l~~~~~ 209 (322)
T cd00776 160 RELLKPLEPFPRITYDEAIELLREKGVEEEVKWGEDLSTEHERLLGEIVK 209 (322)
T ss_pred cccccCCCCceEEEHHHHHHHHHHcCCCCCCCccchhcHHHHHHHHHHhC
Confidence 233445679999999999999999987 778999999999999999873
No 30
>KOG2411 consensus Aspartyl-tRNA synthetase, mitochondrial [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.9e-48 Score=392.04 Aligned_cols=281 Identities=25% Similarity=0.382 Sum_probs=239.6
Q ss_pred eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec-
Q 013856 93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV- 171 (435)
Q Consensus 93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~- 171 (435)
+.|+++....+|+.|.++|||...|.+| .+.|+.|||..|.||+.++.+.. . ...+....++.||+|.|.|+|+.
T Consensus 36 ~~~~el~~~~vg~kv~l~GWl~~~~~~k-~~~F~~LRD~~G~vq~lls~~s~--~-l~~~~~~~v~~e~vv~v~gtvv~R 111 (628)
T KOG2411|consen 36 SLCGELSVNDVGKKVVLCGWLELHRVHK-MLTFFNLRDAYGIVQQLLSPDSF--P-LAQKLENDVPLEDVVQVEGTVVSR 111 (628)
T ss_pred ccchhhccCccCCEEEEeeeeeeeeccc-cceEEEeeccCcceEEEecchhh--h-HHhcccCCCChhheEeeeeeEecc
Confidence 5788888889999999999999999996 89999999999999999885421 1 11233456999999999999874
Q ss_pred CCc--cCCCCceeEEEEEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechhhhhHH
Q 013856 172 PDV--EIKGATQQVEVQIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLANQGIF 248 (435)
Q Consensus 172 ~~~--~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~~~~i~ 248 (435)
|.. +.+..+|.+|+...++++++++ ..+|+.+.|....+ -+.+..+||++||||||.+.++..+
T Consensus 112 p~~sin~km~tg~vev~~e~~~vln~~~~~~p~~v~df~~ld-------------~~~~er~rl~~RyldLR~~kmq~nL 178 (628)
T KOG2411|consen 112 PNESINSKMKTGFVEVVAEKVEVLNPVNKKLPFEVTDFKELD-------------DLAGERIRLRFRYLDLRRPKMQNNL 178 (628)
T ss_pred cccccCccccccceEEEeeeeEEecCccCCCccchhhhhhhh-------------ccccccccchhhhhhhccHHHHHHH
Confidence 333 4456678999999999999999 99999988764211 1256789999999999999999999
Q ss_pred HHHHHHHHHHHHHhhc-CCeeeecCceeeecCCCCCcceeeecc---CCCceeeccChHHHHhhhccCCCceeEEEecce
Q 013856 249 RIQSQVGNIFRQFLLS-ENFVEIHTPKLIAGSSEGGSAVFRLDY---KGQSACLAQSPQLHKQMSICGDFGRVFETGPVF 324 (435)
Q Consensus 249 ~~rs~i~~~~R~fl~~-~gF~EV~TP~l~~~~~egga~~F~~~~---~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~F 324 (435)
|.||.+...+|+||.+ .||+||+||+|-.. +.|||..|.|.. -|..+-|.||||.|||+||+||++|+|+|++||
T Consensus 179 rlRS~~v~~iR~yl~n~~GFvevETPtLFkr-TPgGA~EFvVPtr~~~g~FYaLpQSPQQfKQlLMvsGidrYyQiARCf 257 (628)
T KOG2411|consen 179 RLRSNVVKKIRRYLNNRHGFVEVETPTLFKR-TPGGAREFVVPTRTPRGKFYALPQSPQQFKQLLMVSGIDRYYQIARCF 257 (628)
T ss_pred HHHHHHHHHHHHHHhhhcCeeeccCcchhcc-CCCccceeecccCCCCCceeecCCCHHHHHHHHHHhchhhHHhHHhhh
Confidence 9999999999999987 57999999999875 566788898854 277888999999999999999999999999999
Q ss_pred ecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHH
Q 013856 325 RAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGV 404 (435)
Q Consensus 325 R~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai 404 (435)
|.|+++..|+ |||||+|+||+|.+ .+|+|+++|+|+++++..... +....||+||||++|+
T Consensus 258 RDEdlR~DRQ-PEFTQvD~EMsF~~-~~dim~liEdll~~~ws~~k~-----------------~~l~~PF~riTY~~Am 318 (628)
T KOG2411|consen 258 RDEDLRADRQ-PEFTQVDMEMSFTD-QEDIMKLIEDLLRYVWSEDKG-----------------IQLPVPFPRITYADAM 318 (628)
T ss_pred cccccCcccC-CcceeeeeEEeccC-HHHHHHHHHHHHHHhchhhcC-----------------CCCCCCcccccHHHHH
Confidence 9999988888 99999999999997 799999999999999987542 1334699999999999
Q ss_pred HHHHHcCCC
Q 013856 405 QMLKDAGVE 413 (435)
Q Consensus 405 ~ll~~~g~~ 413 (435)
. ..|.+
T Consensus 319 ~---~YG~D 324 (628)
T KOG2411|consen 319 D---KYGSD 324 (628)
T ss_pred H---HhCCC
Confidence 6 45554
No 31
>PRK06462 asparagine synthetase A; Reviewed
Probab=100.00 E-value=4.1e-48 Score=390.73 Aligned_cols=201 Identities=29% Similarity=0.423 Sum_probs=181.4
Q ss_pred CCcccccccceeeeechhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCC---C----cceeeeccCCCceee
Q 013856 226 VNQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEG---G----SAVFRLDYKGQSACL 298 (435)
Q Consensus 226 ~~~e~rl~~R~Ldlr~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~eg---g----a~~F~~~~~~~~~~L 298 (435)
.+.++|++||++|+|++..+++|++||.|++++|+||.++||+||+||+|+++.++| | ...|.++|||+++||
T Consensus 8 ~~~~~~~~~r~~~lr~~~~~~il~~Rs~i~~~iR~ff~~~~f~EV~TP~l~~~~~~~~~~g~~~~~~~~~~~~~~~~~yL 87 (335)
T PRK06462 8 KEYEEFLRMSWKHISSEKYRKVLKVQSSILRYTREFLDGRGFVEVLPPIISPSTDPLMGLGSDLPVKQISIDFYGVEYYL 87 (335)
T ss_pred cchhhhhhhHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCeEecCCCCCCCccccCCccccccccCCCceee
Confidence 578999999999999999999999999999999999999999999999999876653 2 335778899999999
Q ss_pred ccChHHHHhhhccCCCceeEEEecceecCcCCC--CccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHH
Q 013856 299 AQSPQLHKQMSICGDFGRVFETGPVFRAEDSYT--HRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKE 376 (435)
Q Consensus 299 ~~Spql~lq~li~~g~~rVfeIgp~FR~E~s~t--~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~ 376 (435)
++|||||||++ ++|++|||+||||||||++++ +|||||||||||||+|.+ |+|+|+++|+||+++++.+.++|..+
T Consensus 88 ~~Spql~k~ll-~~g~~rVfeI~p~FR~E~~~~~~~rHl~EFtmlE~e~~~~d-~~dlm~~~e~lv~~i~~~~~~~~~~~ 165 (335)
T PRK06462 88 ADSMILHKQLA-LRMLGKIFYLSPNFRLEPVDKDTGRHLYEFTQLDIEIEGAD-LDEVMDLIEDLIKYLVKELLEEHEDE 165 (335)
T ss_pred ccCHHHHHHHH-HhhcCcEEEEeccccCCCCCCCCCCCCCchheeeehhhcCC-HHHHHHHHHHHHHHHHHHHHhhhHHH
Confidence 99999998865 567999999999999999977 799999999999999985 99999999999999999999999988
Q ss_pred HHHhhhcCCCccccCCCCCccccHHHHHHHHHHcCCCCCCCCCCCcHHHHHHHHHH
Q 013856 377 LEAVAKQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLV 432 (435)
Q Consensus 377 i~~~~~~~~~~~~~~~~p~~rit~~eai~ll~~~g~~~~~~~dl~te~E~~L~~~v 432 (435)
|..++...+ .+..||+||||.||+++|++.|.+..+++||++++|++|++++
T Consensus 166 i~~~~~~~~----~~~~p~~rit~~eA~~~l~~~~~~~~~~~~l~~~~E~~l~~~~ 217 (335)
T PRK06462 166 LEFFGRDLP----HLKRPFKRITHKEAVEILNEEGCRGIDLEELGSEGEKSLSEHF 217 (335)
T ss_pred HHhcCCccc----cCCCCCeEEEHHHHHHHHHhcCCCcchHHHHhHHHHHHHHHHh
Confidence 877655332 2357999999999999999999888888999999999999876
No 32
>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=5.4e-47 Score=382.88 Aligned_cols=194 Identities=37% Similarity=0.576 Sum_probs=165.8
Q ss_pred CcccccccceeeeechhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeec-----cCCCceeeccC
Q 013856 227 NQDTRLNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLD-----YKGQSACLAQS 301 (435)
Q Consensus 227 ~~e~rl~~R~Ldlr~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~-----~~~~~~~L~~S 301 (435)
++|+|++|||||+|++..+++|++||.|+++||+||.++||+||+||+|++++++||+++|.|+ |||+++||++|
T Consensus 1 ~~e~~~~~r~l~~r~~~~~~~~~~rs~i~~~ir~ff~~~~f~Ev~tP~l~~~~~~~~~~~F~v~~~~~~~~~~~~~L~~S 80 (335)
T PF00152_consen 1 DEETRLDNRHLDLRTPAMSSILRIRSAILQAIREFFDKRGFIEVDTPILTSSTCEGGAEPFSVDSEPGKYFGEPAYLTQS 80 (335)
T ss_dssp -HHHHHHTHHHHTTSHHHHHHHHHHHHHHHHHHHHHHHTT-EEE---SEESSSSSSSSCSEEEEESTTEETTEEEEE-SS
T ss_pred ChhhhhhccceeccCcHHHHHHHHHHHHHHHHHHHHHhCCceEEcCceeeccccCccccccccccchhhhcccceecCcC
Confidence 3689999999999999999999999999999999999999999999999999999999999999 99999999999
Q ss_pred hHHHHhhhccCCCceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhh
Q 013856 302 PQLHKQMSICGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVA 381 (435)
Q Consensus 302 pql~lq~li~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~ 381 (435)
||||||+++++|++|||+||||||||+++|.|||||||||||||+|++ ++++|+++|+||+++++.+.++.. .+ .+
T Consensus 81 pql~~k~ll~~g~~~vf~i~~~FR~E~~~~~rHl~EFtmLE~e~a~~~-~~~lm~~~e~li~~i~~~~~~~~~-~~-~~- 156 (335)
T PF00152_consen 81 PQLYLKRLLAAGLERVFEIGPCFRNEESRTRRHLPEFTMLEWEMAFAD-YDDLMDLIEELIKYIFKELLENAK-EL-SL- 156 (335)
T ss_dssp SHHHHHHHHHTTHSEEEEEEEEE-BSSSCBTTBSSEEEEEEEEEETSS-HHHHHHHHHHHHHHHHHHHHHHHH-HH-HT-
T ss_pred hHHHHhhhccccchhhhheecceeccCcccccchhhhhhhhhccccCc-HHHhHHHHHHHHHHHHHHHhccCc-cc-cc-
Confidence 999999999999999999999999999999999999999999999997 888999999999999999976622 11 11
Q ss_pred hcCCCccccCCCCCccccHHHHHHHHHHcCCCCCC-----------------CCCCCcHHHHHHHH
Q 013856 382 KQYPFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDP-----------------LGDLNTESERKLGQ 430 (435)
Q Consensus 382 ~~~~~~~~~~~~p~~rit~~eai~ll~~~g~~~~~-----------------~~dl~te~E~~L~~ 430 (435)
.+++..||+||+|.||++++...+.++.. +.+|++..|+.|+.
T Consensus 157 ------~~~~~~~f~ri~~~ea~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~e~~L~~ 216 (335)
T PF00152_consen 157 ------NIDLPKPFPRITYEEAFEIYGGDKPDLRFDEELDDLAEIEELEFEVGRLLSEEVEPYLVE 216 (335)
T ss_dssp ------CEESSSS-EEEEHHHHHHHHHHTTTTTTTCHHHHHHHHHHHTTHHCHHHHHHHHHHHHHH
T ss_pred ------cccccCCceEeeehHHHHHhhcccccchhHHHHHHHHHHhcccchHHHHHHHHHHHHhhh
Confidence 34455789999999999999987755443 34567777777763
No 33
>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=1.3e-41 Score=339.28 Aligned_cols=163 Identities=21% Similarity=0.309 Sum_probs=147.8
Q ss_pred HHHHHHHHHHHHHHhhcCCeeeecCceeeec-CCCCCcceeeeccCC-----CceeeccChHHHHhhhccCCCceeEEEe
Q 013856 248 FRIQSQVGNIFRQFLLSENFVEIHTPKLIAG-SSEGGSAVFRLDYKG-----QSACLAQSPQLHKQMSICGDFGRVFETG 321 (435)
Q Consensus 248 ~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~-~~egga~~F~~~~~~-----~~~~L~~Spql~lq~li~~g~~rVfeIg 321 (435)
+++||.|++++|+||.++||+||+||+|+++ ++++|+++|+++||+ +++||+||||||||+++++|++||||||
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 588899999999876 6999999999999999999999999999
Q ss_pred cceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHH
Q 013856 322 PVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFE 401 (435)
Q Consensus 322 p~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~ 401 (435)
||||||++ ++||||||||||||++|.+ |+|+|+++|+||+++++.+ ..||+||||.
T Consensus 81 p~FRaE~~-~~rHl~EFtmLE~e~~~~d-~~d~m~~~e~li~~i~~~~----------------------~~~~~~it~~ 136 (304)
T TIGR00462 81 KVFRNGER-GRRHNPEFTMLEWYRPGFD-YHDLMDEVEALLQELLGDP----------------------FAPWERLSYQ 136 (304)
T ss_pred CceeCCCC-CCCcccHHHhHHHHHHcCC-HHHHHHHHHHHHHHHHHhc----------------------CCCcEEEEHH
Confidence 99999998 6899999999999999986 9999999999999998751 2467777777
Q ss_pred HHHH-----------------HHHHcCCCCCCCCCCCcHHHHHHHHHHhc
Q 013856 402 EGVQ-----------------MLKDAGVEIDPLGDLNTESERKLGQLVLE 434 (435)
Q Consensus 402 eai~-----------------ll~~~g~~~~~~~dl~te~E~~L~~~vke 434 (435)
||++ ++++.|+++++.+|+++.+|+.|+++|+.
T Consensus 137 ea~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~d~~~~~e~~l~~~ie~ 186 (304)
T TIGR00462 137 EAFLRYAGIDPLTASLDELAAAAAAHGVRASEEDDRDDLLDLLFSEKVEP 186 (304)
T ss_pred HHHHHHhCCCcccCCHHHHHHHHHHcCCCCCCCCChhHHHHHHHHHHHHH
Confidence 7754 67788888888899999999999999864
No 34
>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=1.1e-40 Score=335.95 Aligned_cols=178 Identities=24% Similarity=0.376 Sum_probs=150.4
Q ss_pred hhhhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee--ccCCCceeeccChHHHHhhhccCCCceeEE
Q 013856 242 LANQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL--DYKGQSACLAQSPQLHKQMSICGDFGRVFE 319 (435)
Q Consensus 242 ~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~--~~~~~~~~L~~Spql~lq~li~~g~~rVfe 319 (435)
+.++++|++||.|+++||+||.++||+||+||+|+++++++++.+|.+ +||+.++||+||||||||+++++|++|||+
T Consensus 2 ~~~~~~l~~Rs~i~~~iR~ff~~~gf~EV~TP~L~~~~~~~~~~~f~~~~~~~~~~~yL~~Spql~~k~ll~~g~~~vf~ 81 (329)
T cd00775 2 EEVRQTFIVRSKIISYIRKFLDDRGFLEVETPMLQPIAGGAAARPFITHHNALDMDLYLRIAPELYLKRLIVGGFERVYE 81 (329)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCccccCCCCccceeEEeccCCCCcceeeccCHHHHHHHHHhcCCCcEEE
Confidence 568899999999999999999999999999999998766667789988 789999999999999999999999999999
Q ss_pred EecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCcccc
Q 013856 320 TGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLT 399 (435)
Q Consensus 320 Igp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit 399 (435)
||||||||++ +.|||||||||||||+|++ |+|+|+++|+||+++++.+.+.+ ++.. ....+.+..||+|||
T Consensus 82 i~~~FR~E~~-~~rHl~EFt~le~e~~~~~-~~~~m~~~e~li~~i~~~~~~~~--~~~~-----~~~~~~~~~pf~rit 152 (329)
T cd00775 82 IGRNFRNEGI-DLTHNPEFTMIEFYEAYAD-YNDMMDLTEDLFSGLVKKINGKT--KIEY-----GGKELDFTPPFKRVT 152 (329)
T ss_pred EeccccCCCC-CCCCCCceEEEEEeeecCC-HHHHHHHHHHHHHHHHHHHhCCc--eeec-----CCccccCCCCceEEE
Confidence 9999999998 6899999999999999985 99999999999999999987653 2222 222234457999999
Q ss_pred HHHHHHHHHHcCCCCCCCCCCCc-HHHHHHHH
Q 013856 400 FEEGVQMLKDAGVEIDPLGDLNT-ESERKLGQ 430 (435)
Q Consensus 400 ~~eai~ll~~~g~~~~~~~dl~t-e~E~~L~~ 430 (435)
|.||++ +..|+++.+.++..+ +.++.++.
T Consensus 153 y~eA~~--~~~g~~~~~~~~~~~~~~~~~~~~ 182 (329)
T cd00775 153 MVDALK--EKTGIDFPELDLEQPEELAKLLAK 182 (329)
T ss_pred HHHHHH--HHhCCCcccccccCCHHHHHHHHH
Confidence 999998 457877655555544 34444444
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=2.5e-37 Score=303.45 Aligned_cols=152 Identities=29% Similarity=0.462 Sum_probs=138.4
Q ss_pred HHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccC--CCceeeccChHHHHhhhccCCCceeEEEeccee
Q 013856 248 FRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYK--GQSACLAQSPQLHKQMSICGDFGRVFETGPVFR 325 (435)
Q Consensus 248 ~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~--~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR 325 (435)
|++||.|++.+|+||.++||+||+||+|+++.+++|+++|.++|+ |+++||++|||||+|+++++|++|||+||||||
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 579999999999999999999999999998889999999999988 999999999999999999999999999999999
Q ss_pred cCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHHH
Q 013856 326 AEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGVQ 405 (435)
Q Consensus 326 ~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai~ 405 (435)
+| +.|.||++|||||||||+|.+ |+|+|+++|+||+++++.+.++|..++.. ...++..||+||||.||++
T Consensus 81 ~e-~~~~~hl~EF~~le~e~~~~~-~~dvm~~~e~lv~~i~~~~~~~~~~~~~~-------~~~~~~~~~~rit~~ea~~ 151 (269)
T cd00669 81 NE-DLRARHQPEFTMMDLEMAFAD-YEDVIELTERLVRHLAREVLGVTAVTYGF-------ELEDFGLPFPRLTYREALE 151 (269)
T ss_pred CC-CCCCCcccceeEEEEEEecCC-HHHHHHHHHHHHHHHHHHHhccccccccc-------cccccCCCceEeeHHHHHH
Confidence 99 579999999999999999995 99999999999999999998877665421 1224557999999999999
Q ss_pred HHH
Q 013856 406 MLK 408 (435)
Q Consensus 406 ll~ 408 (435)
+|.
T Consensus 152 ~~~ 154 (269)
T cd00669 152 RYG 154 (269)
T ss_pred HhC
Confidence 885
No 36
>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=4.1e-36 Score=296.41 Aligned_cols=151 Identities=32% Similarity=0.514 Sum_probs=131.2
Q ss_pred HHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccC---CCceeeccChHHHHhhhccCCCceeEEEecce
Q 013856 248 FRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYK---GQSACLAQSPQLHKQMSICGDFGRVFETGPVF 324 (435)
Q Consensus 248 ~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~---~~~~~L~~Spql~lq~li~~g~~rVfeIgp~F 324 (435)
+++||.|+++||+||.++||+||+||+|++++++|+ .+|.+.|+ +..+||+||||||||+++++|++|||+|||||
T Consensus 1 l~~Rs~i~~~iR~f~~~~gfiEV~TP~L~~~~~~g~-~~f~~~~~~~~~~~~~L~~Spql~lk~ll~~g~~~v~~i~~~f 79 (280)
T cd00777 1 LRLRSRVIKAIRNFLDEQGFVEIETPILTKSTPEGA-RDFLVPSRLHPGKFYALPQSPQLFKQLLMVSGFDRYFQIARCF 79 (280)
T ss_pred CchHHHHHHHHHHHHHHCCCEEEeCCeeecCCCCCC-CCceeccccCCCceeecccCHHHHHHHHHhcCcCcEEEeccce
Confidence 478999999999999999999999999998778754 55998875 45566999999999999999999999999999
Q ss_pred ecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccccHHHHH
Q 013856 325 RAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRLTFEEGV 404 (435)
Q Consensus 325 R~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~rit~~eai 404 (435)
|+|++++.||+ ||||||||++|.+ |+|+|+++|+||++++..+.+. .+..||+||||.||+
T Consensus 80 R~e~~~~~r~~-Ef~~~e~e~~~~~-~~dlm~~~e~li~~i~~~~~~~-----------------~~~~p~~rity~eA~ 140 (280)
T cd00777 80 RDEDLRADRQP-EFTQIDIEMSFVD-QEDIMSLIEGLLKYVFKEVLGV-----------------ELTTPFPRMTYAEAM 140 (280)
T ss_pred eCCCCCCCccc-eeEEeEeeeccCC-HHHHHHHHHHHHHHHHHHHhCC-----------------CCCCCCceeeHHHHH
Confidence 99999887775 9999999999995 9999999999999999887532 234689999999999
Q ss_pred HHHHHcCCCCCCCCCCC
Q 013856 405 QMLKDAGVEIDPLGDLN 421 (435)
Q Consensus 405 ~ll~~~g~~~~~~~dl~ 421 (435)
+. .|+++.|+.|+.
T Consensus 141 ~~---~~~~~~~~~d~~ 154 (280)
T cd00777 141 ER---YGFKFLWIVDFP 154 (280)
T ss_pred HH---hCCCCccccCCc
Confidence 84 466666776764
No 37
>PRK09350 poxB regulator PoxA; Provisional
Probab=100.00 E-value=5e-34 Score=285.02 Aligned_cols=163 Identities=20% Similarity=0.251 Sum_probs=135.5
Q ss_pred hhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCC-CCcceeeeccC------CCceeeccChHHHHhhhccCCCcee
Q 013856 245 QGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSE-GGSAVFRLDYK------GQSACLAQSPQLHKQMSICGDFGRV 317 (435)
Q Consensus 245 ~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~e-gga~~F~~~~~------~~~~~L~~Spql~lq~li~~g~~rV 317 (435)
..+|++|+.|++.||+||.++||+||+||+|+..... ....+|.++|+ |+.+||+||||+|+|+++++|++||
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 4689999999999999999999999999999865432 24457999887 7999999999999999999999999
Q ss_pred EEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCcc
Q 013856 318 FETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLR 397 (435)
Q Consensus 318 feIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~r 397 (435)
|+||||||||++ +.||++||||||||++|.+ |+|+|+++|+||++++.. .||+|
T Consensus 82 f~i~~~FR~e~~-~~~H~~EFt~lE~y~~~~d-~~dlm~~~E~li~~i~~~------------------------~~~~~ 135 (306)
T PRK09350 82 FQICKSFRNEEA-GRYHNPEFTMLEWYRPHYD-MYRLMNEVDDLLQQVLDC------------------------EPAES 135 (306)
T ss_pred EEecceeecCCC-CCCCCcHHHhhhhhhhCCC-HHHHHHHHHHHHHHHHhc------------------------CCceE
Confidence 999999999998 9999999999999999996 999999999999998753 24555
Q ss_pred ccHHHHH-----------------HHHHHcCC--CCCCCCCCCcHHHHHHHHHHh
Q 013856 398 LTFEEGV-----------------QMLKDAGV--EIDPLGDLNTESERKLGQLVL 433 (435)
Q Consensus 398 it~~eai-----------------~ll~~~g~--~~~~~~dl~te~E~~L~~~vk 433 (435)
|+|.||+ +++.+.|+ ..++.+|+.+..++.++.+|.
T Consensus 136 i~~~eaf~~~~g~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~l~~~~ve 190 (306)
T PRK09350 136 LSYQQAFLRYLGIDPLSADKTQLREVAAKLGLSNIADEEEDRDTLLQLLFTFGVE 190 (306)
T ss_pred EEHHHHHHHHhCCCCCcCCHHHHHHHHHHcCCCCcCCCCCCHHHHHHHHHHHHHH
Confidence 6665554 44555665 334455777777777777664
No 38
>COG2269 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=99.95 E-value=2.4e-28 Score=234.56 Aligned_cols=141 Identities=23% Similarity=0.380 Sum_probs=123.4
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC-CCCCcceeeeccC------CCceeeccChHHHHhhhccCCCceeE
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS-SEGGSAVFRLDYK------GQSACLAQSPQLHKQMSICGDFGRVF 318 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~-~egga~~F~~~~~------~~~~~L~~Spql~lq~li~~g~~rVf 318 (435)
..+..|+.|++.||.||.++||+||+||.|+.+. ++..-.+|.|.|+ +.++||+.|||+++|+|+++|-+++|
T Consensus 14 ~~ll~Ra~i~~~iR~FF~erg~lEVeTp~Ls~a~vtd~hL~~F~Te~~~~~~~~~~~l~L~TSPEy~mKrLLAag~~~if 93 (322)
T COG2269 14 DNLLKRAAIIAAIRRFFAERGVLEVETPALSVAPVTDIHLHPFETEFLGPGGAKGKPLWLHTSPEYHMKRLLAAGSGPIF 93 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHcCceEecchHhhcCCCCccceeeeeeEEeccCccccceeeeecCcHHHHHHHHHccCCcch
Confidence 4588999999999999999999999999997653 4445558999885 37899999999999999999999999
Q ss_pred EEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhhhhhHHHHHHhhhcCCCccccCCCCCccc
Q 013856 319 ETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLNNVCKKELEAVAKQYPFEPLKYKPKTLRL 398 (435)
Q Consensus 319 eIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~~~~~~~i~~~~~~~~~~~~~~~~p~~ri 398 (435)
+||+||||++ .+.+|+|||||||||..+.+ |+-+|+.+.+|+..++... ++.|+
T Consensus 94 ql~kvfRN~E-~G~~H~PEFTMLEWYrv~~d-~~~lm~e~~~Ll~~vl~~~------------------------~~E~l 147 (322)
T COG2269 94 QLGKVFRNEE-MGRLHNPEFTMLEWYRVGCD-YYRLMNEVDDLLQLVLECV------------------------EAERL 147 (322)
T ss_pred hhhHHHhccc-ccccCCCceeEeeeeccCCc-HHHHHHHHHHHHHHHHccC------------------------Cccee
Confidence 9999999999 69999999999999999997 9999999999988877542 36788
Q ss_pred cHHHHHHHHHHcCCCC
Q 013856 399 TFEEGVQMLKDAGVEI 414 (435)
Q Consensus 399 t~~eai~ll~~~g~~~ 414 (435)
||.||+. +..|+++
T Consensus 148 s~~eaF~--r~~gid~ 161 (322)
T COG2269 148 SYQEAFL--RYLGIDP 161 (322)
T ss_pred eHHHHHH--HHhCCCc
Confidence 8888885 7777653
No 39
>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=99.91 E-value=9.8e-24 Score=186.78 Aligned_cols=128 Identities=30% Similarity=0.431 Sum_probs=104.2
Q ss_pred EeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCC
Q 013856 94 EVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPD 173 (435)
Q Consensus 94 ~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~ 173 (435)
.++++.+...|+.|+|+|||+++|.+| +++|++|||+++.+|||+..+.. .+ ++++..|+.||+|.|+|++..++
T Consensus 4 ~~~~~~~~~~g~~V~i~Gwv~~~R~~g-k~~Fi~LrD~~g~~Q~v~~~~~~---~~-~~~~~~l~~gs~V~V~G~~~~~~ 78 (135)
T cd04317 4 YCGELRESHVGQEVTLCGWVQRRRDHG-GLIFIDLRDRYGIVQVVFDPEEA---PE-FELAEKLRNESVIQVTGKVRARP 78 (135)
T ss_pred ehhhCChhHCCCEEEEEEeEehhcccC-CEEEEEEecCCeeEEEEEeCCch---hH-HHHHhCCCCccEEEEEEEEECCC
Confidence 355666667799999999999999999 69999999999999999975421 22 57788999999999999998643
Q ss_pred c-cC--CCCceeEEEEEeEEEEeecCCCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeeeechh
Q 013856 174 V-EI--KGATQQVEVQIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDIRTLA 243 (435)
Q Consensus 174 ~-~~--~~~t~~lEI~v~~i~vls~~~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldlr~~~ 243 (435)
. ++ ...++++||++++|++|++|.++|+..++.. ..+.++|++|||||||++.
T Consensus 79 ~~~~~~~~~~~~~El~~~~i~vl~~~~~lP~~~~~~~-----------------~~~~~~r~~~R~LdLR~~~ 134 (135)
T cd04317 79 EGTVNPKLPTGEIEVVASELEVLNKAKTLPFEIDDDV-----------------NVSEELRLKYRYLDLRRPK 134 (135)
T ss_pred ccccCCCCCCCcEEEEEeEEEEEECCCCCCCcccccc-----------------CCCHHHhhhcceeecCCCC
Confidence 2 11 2234679999999999999988999876531 2678999999999999864
No 40
>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=99.88 E-value=3.6e-22 Score=170.24 Aligned_cols=107 Identities=22% Similarity=0.365 Sum_probs=90.1
Q ss_pred EEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEE
Q 013856 106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEV 185 (435)
Q Consensus 106 ~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI 185 (435)
+|+|+|||+++|.+| +++|++|||+++.||||++.+.. .+..|.++.+.|+.||+|.|+|++..++ ++++||
T Consensus 1 ~v~v~GwV~~~R~~g-~~~Fi~lrd~~~~lQ~v~~~~~~-~~~~~~~~~~~l~~g~~V~v~G~v~~~~------~g~~El 72 (108)
T cd04322 1 EVSVAGRIMSKRGSG-KLSFADLQDESGKIQVYVNKDDL-GEEEFEDFKKLLDLGDIIGVTGTPFKTK------TGELSI 72 (108)
T ss_pred CEEEEEEEEEEecCC-CeEEEEEEECCeEEEEEEECCCC-CHHHHHHHHhcCCCCCEEEEEEEEEecC------CCCEEE
Confidence 489999999999999 69999999999999999976532 2345555655699999999999998753 267999
Q ss_pred EEeEEEEeecC-CCCCcccccccchHHHHHhhhhcCCCCCCCCcccccccceeee
Q 013856 186 QIKKLYCVSRA-AKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVIDI 239 (435)
Q Consensus 186 ~v~~i~vls~~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~Ldl 239 (435)
+++++++||+| .+||+...+. .+.++|+++|||||
T Consensus 73 ~~~~~~ils~~~~plP~~~~~~-------------------~~~~~r~~~R~ldl 108 (108)
T cd04322 73 FVKEFTLLSKSLRPLPEKFHGL-------------------TDVETRYRQRYLDL 108 (108)
T ss_pred EeCEeEEeeccCCCCCCCccCc-------------------CChhheeecccccC
Confidence 99999999999 8999865432 57899999999996
No 41
>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=99.84 E-value=3.7e-20 Score=156.22 Aligned_cols=100 Identities=51% Similarity=0.742 Sum_probs=85.9
Q ss_pred EEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCc-eeEE
Q 013856 106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGAT-QQVE 184 (435)
Q Consensus 106 ~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t-~~lE 184 (435)
.|+|+|||+++|.+|++++|++|||+++.|||++..+....+++|++++..|+.||+|.|+|++..++++.+++. +++|
T Consensus 1 ~V~i~Gwv~~~R~~g~k~~Fi~LrD~sg~iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~~~~~~~~~E 80 (102)
T cd04320 1 EVLIRARVHTSRAQGAKLAFLVLRQQGYTIQGVLAASAEGVSKQMVKWAGSLSKESIVDVEGTVKKPEEPIKSCTQQDVE 80 (102)
T ss_pred CEEEEEEEEEeecCCCceEEEEEecCCceEEEEEeCCcccCCHHHHHHHhcCCCccEEEEEEEEECCCCcccCCCcCcEE
Confidence 489999999999999899999999999999999986532246788999999999999999999988655544433 7899
Q ss_pred EEEeEEEEeecC-CCCCccccc
Q 013856 185 VQIKKLYCVSRA-AKTPITIED 205 (435)
Q Consensus 185 I~v~~i~vls~~-~~lP~~~~d 205 (435)
|++++|++|++| .+||++..|
T Consensus 81 l~~~~i~il~~~~~~~P~~~~d 102 (102)
T cd04320 81 LHIEKIYVVSEAAEPLPFQLED 102 (102)
T ss_pred EEEEEEEEEecCCCCCCCCCCC
Confidence 999999999999 899997653
No 42
>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=99.81 E-value=3.2e-19 Score=152.10 Aligned_cols=103 Identities=32% Similarity=0.486 Sum_probs=89.0
Q ss_pred eccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCc
Q 013856 95 VGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDV 174 (435)
Q Consensus 95 i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~ 174 (435)
++++.+...|+.|+|+|||+++|.+| +++|++|||+++.+|||+..+ ..++++++++..|+.||+|.|+|++...+.
T Consensus 3 ~~~l~~~~~g~~V~v~Gwv~~~R~~g-~~~Fi~LrD~~g~iQ~v~~~~--~~~~~~~~~~~~l~~es~V~V~G~v~~~~~ 79 (108)
T cd04316 3 SAEITPELDGEEVTVAGWVHEIRDLG-GIKFVILRDREGIVQVTAPKK--KVDKELFKTVRKLSRESVISVTGTVKAEPK 79 (108)
T ss_pred hhhCchhhCCCEEEEEEEEEeeeccC-CeEEEEEecCCeeEEEEEeCC--CCCHHHHHHHhCCCCcCEEEEEEEEEeCCC
Confidence 45666677899999999999999999 799999999999999999843 256788999999999999999999987543
Q ss_pred cCCCCceeEEEEEeEEEEeecC-CCCCcccc
Q 013856 175 EIKGATQQVEVQIKKLYCVSRA-AKTPITIE 204 (435)
Q Consensus 175 ~~~~~t~~lEI~v~~i~vls~~-~~lP~~~~ 204 (435)
+ .+++||++++|.+|++| .+||++..
T Consensus 80 ~----~~~~Ei~~~~i~il~~~~~~~P~~~~ 106 (108)
T cd04316 80 A----PNGVEIIPEEIEVLSEAKTPLPLDPT 106 (108)
T ss_pred C----CCCEEEEEeEEEEEeCCCCCCCcCcC
Confidence 2 25799999999999999 89998743
No 43
>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=99.81 E-value=4.4e-19 Score=149.99 Aligned_cols=103 Identities=29% Similarity=0.346 Sum_probs=87.5
Q ss_pred EEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEE
Q 013856 106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEV 185 (435)
Q Consensus 106 ~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI 185 (435)
+|+|+|||+++|.+| |++|++|||+++.+|||+..+ .++++++.+..|+.||+|.|+|++...+.+ .+++||
T Consensus 1 ~V~v~Gwv~~~R~~g-k~~Fi~lrD~~g~iQ~v~~~~---~~~~~~~~~~~l~~~s~v~V~G~v~~~~~~----~~~~Ei 72 (103)
T cd04319 1 KVTLAGWVYRKREVG-KKAFIVLRDSTGIVQAVFSKD---LNEEAYREAKKVGIESSVIVEGAVKADPRA----PGGAEV 72 (103)
T ss_pred CEEEEEEEEeEEcCC-CeEEEEEecCCeeEEEEEeCC---CCHHHHHHHhCCCCCCEEEEEEEEEECCCC----CCCEEE
Confidence 489999999999999 789999999999999999754 356778888899999999999999875432 246999
Q ss_pred EEeEEEEeecCCCCCcccccccchHHHHHhhhhcCCCCCCCCccccccccee
Q 013856 186 QIKKLYCVSRAAKTPITIEDASRSEAEIEKASKEGVQLPRVNQDTRLNNRVI 237 (435)
Q Consensus 186 ~v~~i~vls~~~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~e~rl~~R~L 237 (435)
++++|.+|++|.++|++.+ .+.++|+++|||
T Consensus 73 ~~~~i~vl~~a~~~pi~~~---------------------~~~~~~~~~rhL 103 (103)
T cd04319 73 HGEKLEIIQNVEFFPITED---------------------ASDEFLLDVRHL 103 (103)
T ss_pred EEEEEEEEecCCCCccCCC---------------------CCHHHHhhccCC
Confidence 9999999999976887622 267899999997
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=99.69 E-value=3.3e-16 Score=127.71 Aligned_cols=85 Identities=31% Similarity=0.381 Sum_probs=72.8
Q ss_pred EEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEE
Q 013856 106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEV 185 (435)
Q Consensus 106 ~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI 185 (435)
.|+|+|||+++|.+| +++|++|||+++.+|++++.+. ..+|++++..|+.||+|.|+|.+..++.+. ++++++||
T Consensus 1 ~V~i~Gwv~~~R~~g-~~~Fi~Lrd~~~~iQ~v~~~~~---~~~~~~~~~~l~~~s~V~v~G~~~~~~~~~-~~~~~~El 75 (85)
T cd04100 1 EVTLAGWVHSRRDHG-GLIFIDLRDGSGIVQVVVNKEE---LGEFFEEAEKLRTESVVGVTGTVVKRPEGN-LATGEIEL 75 (85)
T ss_pred CEEEEEEEehhccCC-CEEEEEEEeCCeeEEEEEECCc---ChHHHHHHhCCCCCCEEEEEeEEEECCCCC-CCCCCEEE
Confidence 389999999999999 6999999999999999998643 233788999999999999999998755333 45578999
Q ss_pred EEeEEEEeec
Q 013856 186 QIKKLYCVSR 195 (435)
Q Consensus 186 ~v~~i~vls~ 195 (435)
+++++++|++
T Consensus 76 ~~~~i~il~~ 85 (85)
T cd04100 76 QAEELEVLSK 85 (85)
T ss_pred EEeEEEEECC
Confidence 9999999975
No 45
>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=99.64 E-value=2.6e-15 Score=122.21 Aligned_cols=84 Identities=31% Similarity=0.368 Sum_probs=70.0
Q ss_pred EEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEE
Q 013856 106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEV 185 (435)
Q Consensus 106 ~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI 185 (435)
.|+|+|||+++|.+| +++|++|||+++.+|+++..+.. + . ++++..|+.||+|.|+|++..++.+. ...+++||
T Consensus 1 ~V~v~Gwv~~~R~~g-~~~Fi~LrD~~~~iQ~v~~~~~~--~-~-~~~~~~l~~es~V~V~G~v~~~~~~~-~~~~~~Ei 74 (84)
T cd04323 1 RVKVFGWVHRLRSQK-KLMFLVLRDGTGFLQCVLSKKLV--T-E-FYDAKSLTQESSVEVTGEVKEDPRAK-QAPGGYEL 74 (84)
T ss_pred CEEEEEEEEEEecCC-CcEEEEEEcCCeEEEEEEcCCcc--h-h-HHHHhcCCCcCEEEEEEEEEECCccc-CCCCCEEE
Confidence 489999999999998 89999999999999999975421 2 2 67888999999999999998765443 22367999
Q ss_pred EEeEEEEeec
Q 013856 186 QIKKLYCVSR 195 (435)
Q Consensus 186 ~v~~i~vls~ 195 (435)
+++++++||.
T Consensus 75 ~~~~i~vl~~ 84 (84)
T cd04323 75 QVDYLEIIGE 84 (84)
T ss_pred EEEEEEEEcC
Confidence 9999999974
No 46
>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=99.58 E-value=2.4e-14 Score=117.27 Aligned_cols=85 Identities=20% Similarity=0.361 Sum_probs=68.0
Q ss_pred EEEEEEEEeeeccCCCceEEEEEEeCCe-EEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEE
Q 013856 106 EVLIRGRVHTTRPVGNKLAFVVVRERVS-TVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVE 184 (435)
Q Consensus 106 ~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~-~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lE 184 (435)
+|+|+|||+++|..+++++|++|||+++ .+||+++.+ .+.++.+..|+.||+|.|+|++...+......++++|
T Consensus 1 ~V~v~Gwv~~~R~~~~~~~Fi~LrD~~g~~iQvv~~~~-----~~~~~~~~~l~~~s~V~V~G~v~~~~~~~~~~~~~~E 75 (86)
T cd04321 1 KVTLNGWIDRKPRIVKKLSFADLRDPNGDIIQLVSTAK-----KDAFSLLKSITAESPVQVRGKLQLKEAKSSEKNDEWE 75 (86)
T ss_pred CEEEEEeEeeEeCCCCceEEEEEECCCCCEEEEEECCC-----HHHHHHHhcCCCCcEEEEEEEEEeCCCcCCCCCCCEE
Confidence 4899999999999544899999999999 699998643 1345666789999999999999865432223347899
Q ss_pred EEEeEEEEeec
Q 013856 185 VQIKKLYCVSR 195 (435)
Q Consensus 185 I~v~~i~vls~ 195 (435)
|++++|.+|++
T Consensus 76 i~~~~i~il~~ 86 (86)
T cd04321 76 LVVDDIQTLNA 86 (86)
T ss_pred EEEEEEEEecC
Confidence 99999999974
No 47
>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=99.57 E-value=2.8e-14 Score=115.53 Aligned_cols=79 Identities=23% Similarity=0.325 Sum_probs=67.0
Q ss_pred EEEEEEEEeeeccCCCceEEEEEEeCCe--EEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeE
Q 013856 106 EVLIRGRVHTTRPVGNKLAFVVVRERVS--TVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQV 183 (435)
Q Consensus 106 ~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~--~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~l 183 (435)
.|+|+|||+++|.+| +++|++|||+++ .|||+++.+.. . ++++..|+.||+|.|+|.+..++.+ .+++
T Consensus 1 ~v~v~Gwv~~~R~~g-~~~Fi~LrD~s~~~~lQvv~~~~~~--~---~~~~~~l~~gs~V~v~G~v~~~~~~----~~~~ 70 (82)
T cd04318 1 EVTVNGWVRSVRDSK-KISFIELNDGSCLKNLQVVVDKELT--N---FKEILKLSTGSSIRVEGVLVKSPGA----KQPF 70 (82)
T ss_pred CEEEEEeEEEEEcCC-cEEEEEEECCCCccCEEEEEeCccc--C---HHHHhcCCCceEEEEEEEEEeCCCC----CCCE
Confidence 389999999999999 899999999987 59999986432 1 5677899999999999999875432 3689
Q ss_pred EEEEeEEEEee
Q 013856 184 EVQIKKLYCVS 194 (435)
Q Consensus 184 EI~v~~i~vls 194 (435)
||+++++.+++
T Consensus 71 El~~~~i~il~ 81 (82)
T cd04318 71 ELQAEKIEVLG 81 (82)
T ss_pred EEEEEEEEEec
Confidence 99999999986
No 48
>PRK09537 pylS pyrolysyl-tRNA synthetase; Reviewed
Probab=99.41 E-value=3.9e-13 Score=138.50 Aligned_cols=136 Identities=21% Similarity=0.337 Sum_probs=101.8
Q ss_pred CCCcccccccceeeeechhhhhHHHH-----HHHHHHHHHHHhhcCCeeeecCceeeecCC------CCCcce-eeeccC
Q 013856 225 RVNQDTRLNNRVIDIRTLANQGIFRI-----QSQVGNIFRQFLLSENFVEIHTPKLIAGSS------EGGSAV-FRLDYK 292 (435)
Q Consensus 225 ~~~~e~rl~~R~Ldlr~~~~~~i~~~-----rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~------egga~~-F~~~~~ 292 (435)
..++|+||++| |.+..+++|.+ .+.|.+++|+||...||.||.||.|+.... .+|... ..+-++
T Consensus 179 ~~~~e~~l~~r----r~~~~~~~~~~g~~~~~s~Le~aIR~~f~~~GF~EV~TPtLt~ee~~e~~g~~~g~~i~~~my~i 254 (417)
T PRK09537 179 FKELESELVSR----RKNDLKQMYEEDREDYLGKLERDITKFFVDRGFLEIKSPILIPAEYIERMGIDNDTELSKQIFRV 254 (417)
T ss_pred hhhHHHHHHHh----cchhhHHhhccCCCCHHHHHHHHHHHHHHHCCCEEEECCeeecHHHHHHhCCCCcccchhhheee
Confidence 36789999999 88999999999 999999999999999999999999975321 112110 011124
Q ss_pred CCceeec--cChHHHHhhhc----cCCCceeEEEecceecCcCCCCccccchhhheeeecccc-cHHHHHHHHHHHHHHH
Q 013856 293 GQSACLA--QSPQLHKQMSI----CGDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK-HYSEVMDIVDCLFVTI 365 (435)
Q Consensus 293 ~~~~~L~--~Spql~lq~li----~~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~-~~~d~m~~~e~l~~~i 365 (435)
+...+|+ ..|.|+..... ...--|+|+||+|||+|.. +.+|++||+|++++....+ .+.|++.++++++..+
T Consensus 255 deel~LRpsLtPsLlr~la~n~k~~~~P~RIFEIG~VFR~E~~-g~~hlrEf~Ql~~~iiGs~~~f~dL~~lleeLL~~L 333 (417)
T PRK09537 255 DKNFCLRPMLAPGLYNYLRKLDRILPDPIKIFEIGPCYRKESD-GKEHLEEFTMVNFCQMGSGCTRENLENIIDDFLKHL 333 (417)
T ss_pred CCceEehhhhHHHHHHHHHhhhhcccCCeeEEEEeceEecCCC-CCCCcceEEEEEEEEeCCchHHHHHHHHHHHHHHHC
Confidence 6678999 68898875321 1112489999999999985 7889999999999987542 2566666666666554
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=99.16 E-value=5e-11 Score=111.02 Aligned_cols=115 Identities=23% Similarity=0.318 Sum_probs=87.9
Q ss_pred HHHHHHHHHHHHhhcCCeeeecCceeeecC-CCC-C-c--ceee-eccCCCceeeccChHHHHhhhccC----CCceeEE
Q 013856 250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGS-SEG-G-S--AVFR-LDYKGQSACLAQSPQLHKQMSICG----DFGRVFE 319 (435)
Q Consensus 250 ~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~-~eg-g-a--~~F~-~~~~~~~~~L~~Spql~lq~li~~----g~~rVfe 319 (435)
+|+.+.+.+|++|...||.||.||.|+... .+. | . .... .+..+...+||.|+...+...+.. .--|+||
T Consensus 1 ~~~~~~~~~r~~l~~~Gf~Ev~t~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~LR~s~~~~l~~~~~~n~~~~~~~lfe 80 (211)
T cd00768 1 IRSKIEQKLRRFMAELGFQEVETPIVEREPLLEKAGHEPKDLLPVGAENEEDLYLRPTLEPGLVRLFVSHIRKLPLRLAE 80 (211)
T ss_pred CHHHHHHHHHHHHHHcCCEEeEcceecHHHHHHHcCccHhheeeeecCCCCEEEECCCCcHHHHHHHHhhcccCCEEEEE
Confidence 367899999999999999999999997642 111 1 1 1122 234567889999999999877654 3469999
Q ss_pred EecceecCcCCCC--ccccchhhheeeeccccc-----HHHHHHHHHHHHHHH
Q 013856 320 TGPVFRAEDSYTH--RHLCEFTGLDVEMEIKKH-----YSEVMDIVDCLFVTI 365 (435)
Q Consensus 320 Igp~FR~E~s~t~--rHl~EFt~lE~e~a~~~~-----~~d~m~~~e~l~~~i 365 (435)
||+|||+|.+ +. +|+.||+|+++++..... +.+++.++++++..+
T Consensus 81 ig~vfr~e~~-~~~~~~~~ef~~l~~~~~g~~~~~~~~~~~~~~~~~~~l~~l 132 (211)
T cd00768 81 IGPAFRNEGG-RRGLRRVREFTQLEGEVFGEDGEEASEFEELIELTEELLRAL 132 (211)
T ss_pred EcceeecCCC-ccccccceeEEEcCEEEEcCCchhHHHHHHHHHHHHHHHHHc
Confidence 9999999975 43 789999999999988642 567778888777655
No 50
>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=98.99 E-value=6e-09 Score=81.62 Aligned_cols=75 Identities=27% Similarity=0.415 Sum_probs=63.1
Q ss_pred EEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEEE
Q 013856 107 VLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQ 186 (435)
Q Consensus 107 V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~ 186 (435)
|+|.|||.+++..|++++|+.|+|+++.|||++.. ..+..+...|..|++|.|.|.+.... .++++|.
T Consensus 1 V~v~G~V~~~~~~~~~~~~~~l~D~tg~i~~~~~~------~~~~~~~~~l~~g~~v~v~G~v~~~~------~~~~~l~ 68 (75)
T PF01336_consen 1 VTVEGRVTSIRRSGGKIVFFTLEDGTGSIQVVFFN------EEYERFREKLKEGDIVRVRGKVKRYN------GGELELI 68 (75)
T ss_dssp EEEEEEEEEEEEEETTEEEEEEEETTEEEEEEEET------HHHHHHHHTS-TTSEEEEEEEEEEET------TSSEEEE
T ss_pred CEEEEEEEEEEcCCCCEEEEEEEECCccEEEEEcc------HHhhHHhhcCCCCeEEEEEEEEEEEC------CccEEEE
Confidence 78999999996556699999999999999999984 35667888999999999999997642 1259999
Q ss_pred EeEEEEe
Q 013856 187 IKKLYCV 193 (435)
Q Consensus 187 v~~i~vl 193 (435)
+.++++|
T Consensus 69 ~~~i~~l 75 (75)
T PF01336_consen 69 VPKIEIL 75 (75)
T ss_dssp EEEEEEE
T ss_pred ECEEEEC
Confidence 9999876
No 51
>TIGR02367 PylS pyrrolysyl-tRNA synthetase. PylS is the archaeal enzyme responsible for charging the pyrrolysine tRNA, PylT, by ligating a free molecule of pyrrolysine. Pyrrolysine is encoded at an in-frame UAG (amber) at least in several corrinoid-dependent methyltransferases of the archaeal genera Methanosarcina and Methanococcoides, such as trimethylamine methyltransferase.
Probab=98.89 E-value=6.4e-09 Score=107.59 Aligned_cols=112 Identities=24% Similarity=0.417 Sum_probs=81.2
Q ss_pred HHHHHHHHHHHHhhcCCeeeecCceeeecC------CCCCc----ceeeeccCCCceeec--cChHHHHhhhc----cCC
Q 013856 250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGS------SEGGS----AVFRLDYKGQSACLA--QSPQLHKQMSI----CGD 313 (435)
Q Consensus 250 ~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~------~egga----~~F~~~~~~~~~~L~--~Spql~lq~li----~~g 313 (435)
-.+.+.+.+|++|...||.||.||+|+... .+++. ..|. ++...+|| +.|+|+..... ...
T Consensus 241 ~~~~Led~IRevfvg~GFqEV~TPtLt~eE~~E~m~~~~g~eI~n~Iyk---~ee~lvLRPdLTPsLaR~La~N~~~l~~ 317 (453)
T TIGR02367 241 YLGKLERDITKFFVDRGFLEIKSPILIPAEYIERMGIDNDTELSKQIFR---VDKNFCLRPMLAPNLYNYLRKLDRALPD 317 (453)
T ss_pred HHHHHHHHHHHHHHHCCCEEEECCeecchHHHHhhcCccCCcccccceE---ecCceEecccCHHHHHHHHHHhhhhccC
Confidence 457889999999999999999999996211 11121 2343 35578999 88999864321 112
Q ss_pred CceeEEEecceecCcCCCCccccchhhheeeecccc-cHHHHHHHHHHHHHHH
Q 013856 314 FGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK-HYSEVMDIVDCLFVTI 365 (435)
Q Consensus 314 ~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~-~~~d~m~~~e~l~~~i 365 (435)
--|+|+||+|||+|.. +.+|+.||+|++++....+ .+.|+..++.+++..+
T Consensus 318 PqKIFEIGkVFR~E~~-~~thlREF~QL~~eIaG~~atfaDlealL~e~Lr~L 369 (453)
T TIGR02367 318 PIKIFEIGPCYRKESD-GKEHLEEFTMLNFCQMGSGCTRENLEAIIKDFLDHL 369 (453)
T ss_pred CeeEEEEcCeEecCCC-CCCCcCeEEEEEEEEECCCCCHHHHHHHHHHHHHHC
Confidence 3499999999999985 8899999999999987643 3667776666555543
No 52
>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=98.53 E-value=2.3e-07 Score=88.76 Aligned_cols=110 Identities=16% Similarity=0.256 Sum_probs=77.4
Q ss_pred HHHHHHHHHhhcCCeeeecCceeeecCCCCC-c------------ceeeeccCCCceeeccC--hHHHHhhhccC--CCc
Q 013856 253 QVGNIFRQFLLSENFVEIHTPKLIAGSSEGG-S------------AVFRLDYKGQSACLAQS--PQLHKQMSICG--DFG 315 (435)
Q Consensus 253 ~i~~~~R~fl~~~gF~EV~TP~l~~~~~egg-a------------~~F~~~~~~~~~~L~~S--pql~lq~li~~--g~~ 315 (435)
.+.+.+|++|...||.||.|+.+++...+-. . .++.+..- .-.+||.| |.|.. .++. .--
T Consensus 5 ~~~~~ir~~L~~~Gf~Ev~tys~~~~~~~~~~~~~~~~~~~~~~~~~v~l~NP-~~~~LR~sLlp~LL~--~l~~N~~~~ 81 (218)
T cd00496 5 KVIEEIEDIFVSMGFTEVEGPEVETDFYNFDALNIPQDHPARDMQDTFYINDP-ARLLLRTHTSAVQAR--ALAKLKPPI 81 (218)
T ss_pred HHHHHHHHHHHHCCCEEEeCCcccccchhhhhcCCCCCCcccccCceEEECCC-ceEEEeccCcHHHHH--HHHhcCCCe
Confidence 4567789999999999999999976521100 0 11222110 03567744 55543 3343 456
Q ss_pred eeEEEecceecCcCCCCccccchhhheeeecccc-cHHHHHHHHHHHHHHHh
Q 013856 316 RVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK-HYSEVMDIVDCLFVTIF 366 (435)
Q Consensus 316 rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~-~~~d~m~~~e~l~~~i~ 366 (435)
|+||||+|||++.+ +.+|+|||++|.+.++... ++.|++.+++.++..+-
T Consensus 82 ~lFEiG~Vf~~~~~-~~~~~~E~~~l~~~~~g~~~df~dlkg~ve~ll~~l~ 132 (218)
T cd00496 82 RIFSIGRVYRNDEI-DATHLPEFHQIEGLVVDKGLTFADLKGTLEEFAKELF 132 (218)
T ss_pred eEEEEcCeEECCCC-CCCcCCccEEEEEEEECCCCCHHHHHHHHHHHHHHhc
Confidence 99999999999874 5578999999999999861 38899999999997654
No 53
>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=98.45 E-value=6.9e-07 Score=87.13 Aligned_cols=116 Identities=19% Similarity=0.323 Sum_probs=79.9
Q ss_pred HHHHHHHHHHhhcCCeeeecCceeeecC--------C-CCCc----ceeeec--cC--CCceeecc--ChHHHHhh-hcc
Q 013856 252 SQVGNIFRQFLLSENFVEIHTPKLIAGS--------S-EGGS----AVFRLD--YK--GQSACLAQ--SPQLHKQM-SIC 311 (435)
Q Consensus 252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~--------~-egga----~~F~~~--~~--~~~~~L~~--Spql~lq~-li~ 311 (435)
+.+++.+|++|...||.||.+|.+.+.. . +.-+ +.|-+. +- .....||. ||-+..-+ .-.
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 4567889999999999999999996521 1 1111 124331 11 56677774 55544332 111
Q ss_pred CCCceeEEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHHHhHH
Q 013856 312 GDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVTIFDS 368 (435)
Q Consensus 312 ~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~i~~~ 368 (435)
..=-|+|+||+|||+|.. +.+|+|+|.|+|.-+... -++.++..+++.+++++|..
T Consensus 100 ~~p~kif~iG~VyR~D~~-D~th~~~f~Qleg~~~~~~~~f~~Lk~~l~~l~~~lfG~ 156 (247)
T PF01409_consen 100 PPPIKIFEIGKVYRRDEI-DATHLPEFHQLEGLVVDKNVTFEDLKGTLEELLKELFGI 156 (247)
T ss_dssp HSSEEEEEEEEEESSSCS-BSSBESEEEEEEEEEEETTE-HHHHHHHHHHHHHHHHTT
T ss_pred CCCeEEEecCceEecCCc-ccccCccceeEeeEEEecccchhHHHHHHHHHHHHHhhc
Confidence 234699999999999995 889999999999976553 14888999999888888753
No 54
>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=98.37 E-value=1.6e-06 Score=84.87 Aligned_cols=101 Identities=19% Similarity=0.295 Sum_probs=73.1
Q ss_pred HHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--C-----CCcceeee-ccCCCceeec--cChHHHHhhh---cc-CC
Q 013856 248 FRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--E-----GGSAVFRL-DYKGQSACLA--QSPQLHKQMS---IC-GD 313 (435)
Q Consensus 248 ~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e-----gga~~F~~-~~~~~~~~L~--~Spql~lq~l---i~-~g 313 (435)
.+++..|.+.+++.|.++||.||.||.|..... . ...+.|++ +--|+.+.|+ ..|++..-.+ .. ..
T Consensus 2 ~~~~~~l~~~l~~~f~~~Gy~~v~tP~le~~~~~~~~~~~~~~~~~~~~~d~~g~~l~LRpd~T~~iaR~~a~~~~~~~~ 81 (261)
T cd00773 2 AALRRYIEDTLREVFERYGYEEIDTPVFEYTELFLRKSGDEVSKEMYRFKDKGGRDLALRPDLTAPVARAVAENLLSLPL 81 (261)
T ss_pred hHHHHHHHHHHHHHHHHcCCEEeeccceeeHHHhcccccccccceEEEEECCCCCEEEeCCCCcHHHHHHHHhcCccCCC
Confidence 367889999999999999999999999977542 1 12236765 4457788888 3344432211 11 12
Q ss_pred CceeEEEecceecCcCCCCccccchhhheeeecccc
Q 013856 314 FGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK 349 (435)
Q Consensus 314 ~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~ 349 (435)
--|+|++|+|||.|.+ ...|..||+|+++|+-..+
T Consensus 82 p~k~~y~g~vfR~e~~-~~g~~re~~Q~g~Eiig~~ 116 (261)
T cd00773 82 PLKLYYIGPVFRYERP-QKGRYREFYQVGVEIIGSD 116 (261)
T ss_pred CeEEEEEcCEEecCCC-CCCCccceEEeceeeeCCC
Confidence 3499999999999985 4668899999999987654
No 55
>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=98.35 E-value=1.1e-06 Score=80.59 Aligned_cols=116 Identities=20% Similarity=0.336 Sum_probs=77.5
Q ss_pred HHHHHHHHHHHHhh-cCCeeeecCceeeecCC---CC-----CcceeeeccCC-CceeeccChHHH-----Hhhhcc--C
Q 013856 250 IQSQVGNIFRQFLL-SENFVEIHTPKLIAGSS---EG-----GSAVFRLDYKG-QSACLAQSPQLH-----KQMSIC--G 312 (435)
Q Consensus 250 ~rs~i~~~~R~fl~-~~gF~EV~TP~l~~~~~---eg-----ga~~F~~~~~~-~~~~L~~Spql~-----lq~li~--~ 312 (435)
++.+|++.+++.+. +.||.||.||.|.+... -| ....|.+.--+ ..++|+-+.+.. ...... .
T Consensus 1 l~~~l~~~~~~~~~~~~G~~ev~~P~l~~~~~~~~sg~~~~~~~~~~~~~~~~~~~~~L~pt~~~~~~~~~~~~~~~~~~ 80 (173)
T PF00587_consen 1 LRNALERFIREEFVLKFGFQEVDTPILIPSEVWEKSGHWDNFSDEMFKVKDRGDEEYCLRPTSEPGIYSLFKNEIRSSYR 80 (173)
T ss_dssp HHHHHHHHHHHHHHHHTTEEEEB--SEEEHHHHHHHSHHHHHGGGSEEEEETTTEEEEE-SSSHHHHHHHHHHHEEBHGG
T ss_pred CHHHHHHHHHHHhHHhcCCEEEECCeEEehHHhhhccccccccCCeeeeeecccccEEeccccccceeeeecceeeeccc
Confidence 57899999999999 99999999999987541 11 12256664433 568998666433 222222 1
Q ss_pred CC-ceeEEEecceecCc--CCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhH
Q 013856 313 DF-GRVFETGPVFRAED--SYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFD 367 (435)
Q Consensus 313 g~-~rVfeIgp~FR~E~--s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~ 367 (435)
.+ =++|+||+|||+|. ..+...+-||+|.|++....+ ++..+..++++..+..
T Consensus 81 ~LP~~~~~~g~~fR~E~~~~~gl~R~reF~~~e~~~f~~~--~~~~~~~~~~~~~~~~ 136 (173)
T PF00587_consen 81 DLPLKLYQIGTCFRNEARPTRGLFRLREFTMDEMHIFCTP--EQSEEEFEELLELYKE 136 (173)
T ss_dssp GSSEEEEEEEEEEBSSSSSBSTTTS-SEEEEEEEEEEESS--HHHHHHHHHHHHHHHH
T ss_pred cCCeEEeecccccccccccccccceeeEeeeeceEEEeCC--cccHHHHHHHHHHHHH
Confidence 23 38999999999993 235778889999999887654 6777776666654443
No 56
>PRK00488 pheS phenylalanyl-tRNA synthetase subunit alpha; Validated
Probab=98.26 E-value=4.2e-06 Score=84.76 Aligned_cols=114 Identities=14% Similarity=0.186 Sum_probs=80.6
Q ss_pred HHHHHHHHHHhhcCCeeeecCceeeecC--------C-CCCcc-eeeeccCCCceeec--cChHHHHhhhccCCC-ceeE
Q 013856 252 SQVGNIFRQFLLSENFVEIHTPKLIAGS--------S-EGGSA-VFRLDYKGQSACLA--QSPQLHKQMSICGDF-GRVF 318 (435)
Q Consensus 252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~--------~-egga~-~F~~~~~~~~~~L~--~Spql~lq~li~~g~-~rVf 318 (435)
+.+...||++|...||.|+.+|.|.+.. + +..|. .-.+-|.+....|| .||-+-.-|.- ... -|+|
T Consensus 111 ~~~~~~Ir~if~~mGF~ev~gpeIes~~~NFdaLn~P~dHPaR~~~DTfyI~~~~lLRThTSp~qir~L~~-~~~Pirif 189 (339)
T PRK00488 111 TQTIEEIEDIFVGMGFEVAEGPEIETDYYNFEALNIPKDHPARDMQDTFYIDDGLLLRTHTSPVQIRTMEK-QKPPIRII 189 (339)
T ss_pred HHHHHHHHHHHHhCCCEEEeCCccccHHHHHHHhCCCCCCcccccCceEEEcCCceeeccCcHHHHHHHHh-cCCCeEEE
Confidence 5678899999999999999999986411 1 11121 11122335556666 67765444332 222 3899
Q ss_pred EEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHHHhH
Q 013856 319 ETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVTIFD 367 (435)
Q Consensus 319 eIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~i~~ 367 (435)
++|+|||++. .+.+|.|+|.|+|.-+... -++.++..+++.+++.+|.
T Consensus 190 ~~G~VyR~D~-~DatH~~~FhQleglvvd~~vtf~dLK~~L~~fl~~~fg 238 (339)
T PRK00488 190 APGRVYRNDS-DDATHSPMFHQVEGLVVDKNISFADLKGTLEDFLKAFFG 238 (339)
T ss_pred EeeeEEEcCC-CCcccCcceeeEEEEEEeCCCCHHHHHHHHHHHHHHHcC
Confidence 9999999998 4889999999999755442 2488999999999999986
No 57
>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=98.20 E-value=6.8e-06 Score=82.21 Aligned_cols=131 Identities=18% Similarity=0.265 Sum_probs=84.8
Q ss_pred ccccceeeeechhh---hhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC--CC---CCc--------ceeeeccCCC
Q 013856 231 RLNNRVIDIRTLAN---QGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS--SE---GGS--------AVFRLDYKGQ 294 (435)
Q Consensus 231 rl~~R~Ldlr~~~~---~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~--~e---gga--------~~F~~~~~~~ 294 (435)
++..+.+|+..|.. .....-...+.+.+|++|...||.|+.||.+.+.. .+ -.. ++|.+. .
T Consensus 51 ~~~~~~~d~tlp~~~~~~g~~~p~~~~~~~ir~~l~~~Gf~Ev~~~~~~s~~~~fd~l~~~~~hpar~~~d~~~l~---d 127 (294)
T TIGR00468 51 KLKFETYDVTLPGTKIYPGSLHPLTRVIDEIRDIFLGLGFTEEKGPEVETDFWNFDALNIPQDHPARDMQDTFYIK---D 127 (294)
T ss_pred hhhhccCcccCCCCCCCCCCcCHHHHHHHHHHHHHHHCCCEEeeCCceeccHHHHHHhCCCCCCcchhhccceeec---C
Confidence 34445555554321 11223345667889999999999999999997641 00 000 123332 3
Q ss_pred ceeeccC--hHHHHhhhccCCC---ceeEEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHHHhH
Q 013856 295 SACLAQS--PQLHKQMSICGDF---GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVTIFD 367 (435)
Q Consensus 295 ~~~L~~S--pql~lq~li~~g~---~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~i~~ 367 (435)
..+||.| |-+-. .+..+. -|+||||+|||++.. +.+|+|||.+|+.-+... -++.|+..+++.++..+.-
T Consensus 128 ~~vLRtsl~p~ll~--~l~~N~~~pirlFEiGrVfr~d~~-d~~~~pef~ql~gl~~~~~~~f~dLKg~le~ll~~l~~ 203 (294)
T TIGR00468 128 RLLLRTHTTAVQLR--TMEENEKPPIRIFSPGRVFRNDTV-DATHLPEFHQVEGLVIDKNVSFTNLKGFLEEFLKKMFG 203 (294)
T ss_pred CcceecccHHHHHH--HHHhcCCCCceEEEecceEEcCCC-CCccCChhhEEEEEEECCCCCHHHHHHHHHHHHHHhCC
Confidence 4566644 43332 233344 499999999999874 678999999999876542 1488999999998877653
No 58
>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=98.17 E-value=6e-06 Score=78.88 Aligned_cols=102 Identities=17% Similarity=0.185 Sum_probs=69.4
Q ss_pred HHHHHHHHHHHHHHhhcCCeeeecCceeeecCC-C-CC-c-----ceeeeccC-----CCceeeccChH--H---HHhhh
Q 013856 248 FRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS-E-GG-S-----AVFRLDYK-----GQSACLAQSPQ--L---HKQMS 309 (435)
Q Consensus 248 ~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~-e-gg-a-----~~F~~~~~-----~~~~~L~~Spq--l---~lq~l 309 (435)
.+++..|.+.+++.|...||.||.||.|..... + +| . ..|.+..- |..++|+-... + +....
T Consensus 2 ~~~~~~l~~~~~~~~~~~G~~ei~~P~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~LrP~~~~~i~~~~~~~~ 81 (235)
T cd00670 2 TALWRALERFLDDRMAEYGYQEILFPFLAPTVLFFKGGHLDGYRKEMYTFEDKGRELRDTDLVLRPAACEPIYQIFSGEI 81 (235)
T ss_pred HHHHHHHHHHHHHHHHHcCCEEEECCeEcCHHHHhhcCCcccchhhcCeeccCcccccCCeEEEecCCCHHHHHHHhccC
Confidence 357889999999999999999999999986541 1 11 1 24555332 46788884432 2 22221
Q ss_pred cc-CCC-ceeEEEecceecCcCC--CCccccchhhheeeecccc
Q 013856 310 IC-GDF-GRVFETGPVFRAEDSY--THRHLCEFTGLDVEMEIKK 349 (435)
Q Consensus 310 i~-~g~-~rVfeIgp~FR~E~s~--t~rHl~EFt~lE~e~a~~~ 349 (435)
.. ..+ -|+|++|+|||+|.+. ...-+-||+|.|++.-..+
T Consensus 82 ~~~~~lP~r~~~~g~~fR~E~~~~~gl~R~reF~q~e~~~~~~~ 125 (235)
T cd00670 82 LSYRALPLRLDQIGPCFRHEPSGRRGLMRVREFRQVEYVVFGEP 125 (235)
T ss_pred ccchhcCeeeeeecccccCCCCCCCCChhheeeeeceEEEEcCH
Confidence 11 123 3899999999999863 1334579999999987643
No 59
>PRK00037 hisS histidyl-tRNA synthetase; Reviewed
Probab=98.14 E-value=1.1e-05 Score=83.89 Aligned_cols=119 Identities=18% Similarity=0.231 Sum_probs=81.3
Q ss_pred hhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC----CC------Ccceeee-ccCCCceeec--cChHHHHhhhcc
Q 013856 245 QGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS----EG------GSAVFRL-DYKGQSACLA--QSPQLHKQMSIC 311 (435)
Q Consensus 245 ~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~----eg------ga~~F~~-~~~~~~~~L~--~Spql~lq~li~ 311 (435)
..-.+.+..+...+|+.|.+.||.||.||++..... .| ..+.|.+ +--|+.+.|+ ..|++..-.+--
T Consensus 15 p~~~~~~~~i~~~i~~~~~~~Gy~ei~tP~le~~~~~~~~~g~~~~~~~~~~~~~~d~~g~~l~LRpd~T~~~ar~~~~~ 94 (412)
T PRK00037 15 PEESAKWQYVEDTIREVFERYGFSEIRTPIFEYTELFKRKVGEETDIVEKEMYTFQDKGGRSLTLRPEGTAPVVRAVIEH 94 (412)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCeEeeccccchHHHhccccCcccccccceeEEEEcCCCCEEEecCCCcHHHHHHHHhC
Confidence 355678888999999999999999999999955321 11 2335664 3357788887 345555432111
Q ss_pred C-CCceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHH
Q 013856 312 G-DFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVT 364 (435)
Q Consensus 312 ~-g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~ 364 (435)
. .--|+|++|+|||+|.+ ...|.-||+|+++|+-..++- -|++.++.+++..
T Consensus 95 ~~~p~r~~~~g~vfR~e~~-~~gr~ref~Q~g~ei~g~~~~~~d~E~i~~~~~~l~~ 150 (412)
T PRK00037 95 KLQPFKLYYIGPMFRYERP-QKGRYRQFHQFGVEVIGSDSPLADAEVIALAADILKA 150 (412)
T ss_pred CCCCeEEEEEcCccccCCC-CCCcccceEEcCeeeeCCCCcchhHHHHHHHHHHHHH
Confidence 1 33599999999999986 445778999999997554321 4566666555543
No 60
>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=98.07 E-value=1.8e-05 Score=82.08 Aligned_cols=118 Identities=17% Similarity=0.214 Sum_probs=79.5
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CCC-------cceeee-ccCCCceeec--cChHHHHhhhc--
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EGG-------SAVFRL-DYKGQSACLA--QSPQLHKQMSI-- 310 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---egg-------a~~F~~-~~~~~~~~L~--~Spql~lq~li-- 310 (435)
.-..++..+...+++.|.++||.||.||++..... .+| .+.|.+ +.-|+.+.|| ..|++....+-
T Consensus 12 ~~~~~~~~i~~~i~~~f~~~Gy~~i~~P~le~~~~~~~~~g~~~~~~~~~~~~~~d~~g~~l~LRpD~T~~iaR~~~~~~ 91 (397)
T TIGR00442 12 EEMIKWQYIEETIREVFELYGFKEIRTPIFEYTELFARKVGEETDIVEKEMYTFKDKGGRSLTLRPEGTAPVARAVIENK 91 (397)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCeEecCcccchHHHhhhccCccccccccceEEEECCCCCEEeecCCCcHHHHHHHHhcc
Confidence 45678899999999999999999999999965331 111 235664 3467777787 44454432111
Q ss_pred -cCCC-ceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHH
Q 013856 311 -CGDF-GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVT 364 (435)
Q Consensus 311 -~~g~-~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~ 364 (435)
...+ -|.|++|+|||.|.+. ..|.-||+|+++|.-..++. -|++.++.+.+..
T Consensus 92 ~~~~~p~r~~y~g~vfR~e~~~-~gr~ref~Q~g~eiig~~~~~~d~E~i~l~~e~l~~ 149 (397)
T TIGR00442 92 LLLPKPFKLYYIGPMFRYERPQ-KGRYRQFHQFGVEVIGSDSPLADAEIIALAAEILKE 149 (397)
T ss_pred cccCCCeEEEEEcCeecCCCCC-CCcccceEEcCeeeeCCCCHHHHHHHHHHHHHHHHH
Confidence 1112 4999999999999864 44668999999998665432 2455555555543
No 61
>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional
Probab=97.98 E-value=3.3e-05 Score=82.54 Aligned_cols=117 Identities=17% Similarity=0.235 Sum_probs=76.3
Q ss_pred HHHHHHHHHHHHHHHhhcCCeeeecCceeeec-----C-----CCC---Ccceeeecc----------------------
Q 013856 247 IFRIQSQVGNIFRQFLLSENFVEIHTPKLIAG-----S-----SEG---GSAVFRLDY---------------------- 291 (435)
Q Consensus 247 i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~-----~-----~eg---ga~~F~~~~---------------------- 291 (435)
-......+++.||+.|...||.||.||.+-+. + -.+ -.+.|.+++
T Consensus 231 ~~~~~~~~~~~~~~~f~~~Gf~e~~~p~vE~~~~nfd~lf~p~~hpaR~~~dtf~~~~~~~~~~~~~~~~~v~~~he~g~ 310 (489)
T PRK04172 231 KKHPYREFIDEVRDILVEMGFEEMKGPLVETEFWNFDALFQPQDHPAREMQDTFYLKYPGIGDLPEELVERVKEVHEHGG 310 (489)
T ss_pred CCChHHHHHHHHHHHHHHCCCEEeeCCeeeecCcccccccCCCCCCCCCccceEEECCcccccCcHHHHHHHHHHHhccC
Confidence 34457788999999999999999999999743 0 000 001222110
Q ss_pred --------------CCCceeeccC--hHHHHhhhccC--CCceeEEEecceecCcCCCCccccchhhheeeecccc-cHH
Q 013856 292 --------------KGQSACLAQS--PQLHKQMSICG--DFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK-HYS 352 (435)
Q Consensus 292 --------------~~~~~~L~~S--pql~lq~li~~--g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~-~~~ 352 (435)
.++...||.. |-+-.- +..- .=-|+|+||+|||+|.. +..|++||++|+..+...+ ++.
T Consensus 311 ~~~~~~~~y~~~~~~~~~~~LR~~~T~~~~r~-l~~~~~~p~rlFeiGrVFR~e~~-d~~~l~Ef~ql~~~i~G~~~~f~ 388 (489)
T PRK04172 311 DTGSRGWGYKWDEDIAKRLVLRTHTTALSARY-LASRPEPPQKYFSIGRVFRPDTI-DATHLPEFYQLEGIVMGEDVSFR 388 (489)
T ss_pred CCCCccccCCcchhhhhccccccCChHHHHHH-HHhcCCCCeEEEEecceEcCCCC-CcccCCchheEEEEEEeCCCCHH
Confidence 0233455522 222111 1111 12499999999999985 6688999999999988742 367
Q ss_pred HHHHHHHHHHHHH
Q 013856 353 EVMDIVDCLFVTI 365 (435)
Q Consensus 353 d~m~~~e~l~~~i 365 (435)
+++.++++++..+
T Consensus 389 elkg~l~~ll~~l 401 (489)
T PRK04172 389 DLLGILKEFYKRL 401 (489)
T ss_pred HHHHHHHHHHHHh
Confidence 8888888888765
No 62
>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=97.96 E-value=1.5e-05 Score=78.22 Aligned_cols=117 Identities=17% Similarity=0.108 Sum_probs=80.9
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CC------CcceeeeccCC-----CceeeccChHH-----HH
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EG------GSAVFRLDYKG-----QSACLAQSPQL-----HK 306 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---eg------ga~~F~~~~~~-----~~~~L~~Spql-----~l 306 (435)
.-.+++..|.+.+++.+.+.||.||.||.|..... ++ +.+.|.+.--+ .+++|+-..+- |.
T Consensus 30 ~g~~l~~~l~~~~~~~~~~~G~~ev~~P~l~~~~~~~~~sg~~~~f~~~~f~~~~~~~~~~~~~~~L~Pt~e~~~~~~~~ 109 (261)
T cd00778 30 YGYAIWENIQKILDKEIKETGHENVYFPLLIPESELEKEKEHIEGFAPEVAWVTHGGLEELEEPLALRPTSETAIYPMFS 109 (261)
T ss_pred cHHHHHHHHHHHHHHHHHHcCCEEEECCccccHHHhhhhhcchhhcCcceEEEEecCCcccCCcEEEcCCCCHHHHHHHH
Confidence 45688899999999999999999999999977542 12 22356664322 36888876432 22
Q ss_pred hhhcc-CCC-ceeEEEecceecCcCCC--CccccchhhheeeecccccHHHHHHHHHHHHH
Q 013856 307 QMSIC-GDF-GRVFETGPVFRAEDSYT--HRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFV 363 (435)
Q Consensus 307 q~li~-~g~-~rVfeIgp~FR~E~s~t--~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~ 363 (435)
..... .++ =|+|+||+|||+|.+.+ .-=.-||+|.|.+..+++ .++..+..++++.
T Consensus 110 ~~i~s~r~LPlr~~~~~~~fR~E~~~~~Gl~R~reF~~~d~h~~~~~-~e~~~~~~~~~~~ 169 (261)
T cd00778 110 KWIRSYRDLPLKINQWVNVFRWETKTTRPFLRTREFLWQEGHTAHAT-EEEAEEEVLQILD 169 (261)
T ss_pred hhccchhhcCHHHHhhhhhccCCCCCCCceeEeeeeeeeceeeccCC-HHHHHHHHHHHHH
Confidence 22111 122 28999999999998632 223459999999988876 6777776666654
No 63
>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=97.96 E-value=5.1e-05 Score=74.74 Aligned_cols=114 Identities=15% Similarity=0.098 Sum_probs=77.7
Q ss_pred HHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC-C--C-----C-cceeeeccCC-----CceeeccChHH-----HHh
Q 013856 247 IFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS-E--G-----G-SAVFRLDYKG-----QSACLAQSPQL-----HKQ 307 (435)
Q Consensus 247 i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~-e--g-----g-a~~F~~~~~~-----~~~~L~~Spql-----~lq 307 (435)
-.+++..|.+.+++.+.+.||.||.||.|..... . | + .+.|.+..-+ .+++|+-..+- |..
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 4467889999999999999999999999976432 1 1 1 2345553222 67888865543 222
Q ss_pred hhcc-CCCc-eeEEEecceecCcCCCCc---cccchhhheeeecccccHHHHHHHHHHHH
Q 013856 308 MSIC-GDFG-RVFETGPVFRAEDSYTHR---HLCEFTGLDVEMEIKKHYSEVMDIVDCLF 362 (435)
Q Consensus 308 ~li~-~g~~-rVfeIgp~FR~E~s~t~r---Hl~EFt~lE~e~a~~~~~~d~m~~~e~l~ 362 (435)
.... ..+. |+|++++|||.|.. +.+ =.-||+|.|.+....+ .++....++.++
T Consensus 111 ~i~s~~~LPlrl~~~~~~fR~E~r-~~~Gl~R~reF~~~e~~~~~~~-~e~a~~e~~~~~ 168 (264)
T cd00772 111 FIKSWKDLPQHLNQIGNKFRDEIR-PRFGFLRAREFIMKDGHSAHAD-AEEADEEFLNML 168 (264)
T ss_pred hhhhhhccCeeEEEEeCeEeCcCC-CCCCcceeeEEEEeeeEEecCC-HHHHHHHHHHHH
Confidence 2211 1333 99999999999953 322 2469999999876665 667777666666
No 64
>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional
Probab=97.94 E-value=2.9e-05 Score=82.26 Aligned_cols=51 Identities=22% Similarity=0.333 Sum_probs=39.8
Q ss_pred CceeEEEecceecCcCCCCccccchhhheeeecccc-cHHHHHHHHHHHHHHH
Q 013856 314 FGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK-HYSEVMDIVDCLFVTI 365 (435)
Q Consensus 314 ~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~-~~~d~m~~~e~l~~~i 365 (435)
--|+|.||+|||+|.. +.+|+|||+|+|..+...+ ...+|+.++.+++..+
T Consensus 357 P~k~fsigrVfR~d~~-DatH~~eFhQ~Eg~vi~~~~s~~~L~~~l~~f~~~l 408 (494)
T PTZ00326 357 PKKYFSIDRVFRNETL-DATHLAEFHQVEGFVIDRNLTLGDLIGTIREFFRRI 408 (494)
T ss_pred CceEEecCCEecCCCC-CCCcCceeEEEEEEEEeCCCCHHHHHHHHHHHHHhc
Confidence 3599999999999995 8999999999999876543 2456666666665554
No 65
>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain
Probab=97.90 E-value=3.6e-05 Score=81.26 Aligned_cols=50 Identities=22% Similarity=0.412 Sum_probs=40.2
Q ss_pred ceeEEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHHH
Q 013856 315 GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVTI 365 (435)
Q Consensus 315 ~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~i 365 (435)
-|+|+||+|||+|.. |.+|+|||.|+|.-+.-. =++.+++.++..++..+
T Consensus 343 ~k~fsigrVfR~d~i-DatH~~eFhQ~EG~vvd~~~t~~~L~g~l~~f~~~l 393 (492)
T PLN02853 343 KRYFSIDRVFRNEAV-DRTHLAEFHQVEGLVCDRGLTLGDLIGVLEDFFSRL 393 (492)
T ss_pred cEEEeccceecCCCC-CcccCccceeEEEEEEeCCCCHHHHHHHHHHHHHHc
Confidence 499999999999995 899999999999754422 13778888888777665
No 66
>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=97.87 E-value=6.2e-05 Score=75.35 Aligned_cols=101 Identities=20% Similarity=0.245 Sum_probs=68.7
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC----C---CC-CcceeeeccCCCceeeccChH-----HHHhhhcc-
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS----S---EG-GSAVFRLDYKGQSACLAQSPQ-----LHKQMSIC- 311 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~----~---eg-ga~~F~~~~~~~~~~L~~Spq-----l~lq~li~- 311 (435)
.-.+++..|.+.+++.+.+.||.||.||.|.... + ++ ..+.|.++--|..++|+-... +|......
T Consensus 28 ~g~~l~~~l~~~~~~~~~~~Gy~ev~tP~l~~~~l~~~sg~~~~~~~~my~~~~~~~~l~LRP~~~~~~~~~~~~~~~s~ 107 (298)
T cd00771 28 KGAIIRNELEDFLRELQRKRGYQEVETPIIYNKELWETSGHWDHYRENMFPFEEEDEEYGLKPMNCPGHCLIFKSKPRSY 107 (298)
T ss_pred cHHHHHHHHHHHHHHHHHHcCCEEEECCeecCHHHHhhCCCccccccCceEeccCCceEEEcccCCHHHHHHHHhhccch
Confidence 3457788999999999999999999999997643 1 11 123677754456788874332 22222111
Q ss_pred CCCc-eeEEEecceecCcCCCCc---cccchhhheeeec
Q 013856 312 GDFG-RVFETGPVFRAEDSYTHR---HLCEFTGLDVEME 346 (435)
Q Consensus 312 ~g~~-rVfeIgp~FR~E~s~t~r---Hl~EFt~lE~e~a 346 (435)
..+. |+|++|+|||+|.+.+.+ =.-||+|.|.+.-
T Consensus 108 ~~LPlr~~~~g~vfR~E~~~~~~Gl~R~reF~q~e~~i~ 146 (298)
T cd00771 108 RDLPLRLAEFGTVHRYEQSGALHGLTRVRGFTQDDAHIF 146 (298)
T ss_pred hhCCeEEEEecCcccCCCCCCCCCccccccEEECCEEEE
Confidence 1333 999999999999863211 2359999999875
No 67
>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=97.86 E-value=4.8e-05 Score=74.50 Aligned_cols=116 Identities=19% Similarity=0.184 Sum_probs=76.1
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--C-C-----Ccceeeec-cCCCceeeccChH-----HHHhhhcc
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--E-G-----GSAVFRLD-YKGQSACLAQSPQ-----LHKQMSIC 311 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e-g-----ga~~F~~~-~~~~~~~L~~Spq-----l~lq~li~ 311 (435)
.-.+++..|.+.+++.|...||.||.||+|..... . | +.+.|.+. --+.+++|+...+ ++......
T Consensus 29 ~g~~l~~~i~~~~~~~~~~~G~~ei~~P~l~~~~~~~~sg~~~~~~~emy~~~d~~~~~l~LrPt~e~~~t~~~~~~i~s 108 (255)
T cd00779 29 LGLRVLKKIENIIREEMNKIGAQEILMPILQPAELWKESGRWDAYGPELLRLKDRHGKEFLLGPTHEEVITDLVANEIKS 108 (255)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHHhcCCccccCcccEEEecCCCCeEEEecCCcHHHHHHHHhcccc
Confidence 34567889999999999999999999999976321 1 1 22357763 3457889986532 33332211
Q ss_pred -CCCc-eeEEEecceecCcCCCC--ccccchhhheeeecccccHHHHHHHHHHHH
Q 013856 312 -GDFG-RVFETGPVFRAEDSYTH--RHLCEFTGLDVEMEIKKHYSEVMDIVDCLF 362 (435)
Q Consensus 312 -~g~~-rVfeIgp~FR~E~s~t~--rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~ 362 (435)
..+. |+|++|+|||+|..... -=.-||+|+|.+....+ -.+.....++++
T Consensus 109 ~~~LPlr~~~~~~~FR~E~~~~~Gl~R~reF~q~e~~~~~~~-~~~a~~~~~~i~ 162 (255)
T cd00779 109 YKQLPLNLYQIQTKFRDEIRPRFGLMRGREFLMKDAYSFDID-EESLEETYEKMY 162 (255)
T ss_pred HhhCCHHHHhCcceecCCCCCCCceeeeeeEeHhhheeccCC-HHHHHHHHHHHH
Confidence 1333 99999999999942111 03469999999988765 345544444443
No 68
>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=97.86 E-value=9.1e-05 Score=80.50 Aligned_cols=123 Identities=20% Similarity=0.226 Sum_probs=83.1
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--C------CCcceeeec-cCCCceeeccCh-----HHHHhhhcc
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--E------GGSAVFRLD-YKGQSACLAQSP-----QLHKQMSIC 311 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e------gga~~F~~~-~~~~~~~L~~Sp-----ql~lq~li~ 311 (435)
.-.+++..|.+.+|+.|...||.||.||.|.+... + -|.+.|.+. -.|..++|+-.. .++...+..
T Consensus 45 ~g~rv~~~I~~~i~~~~~~~G~~ei~~P~l~~~el~~~sg~~~~~~~emf~~~dr~~~~l~LrPT~Ee~~t~~~~~~i~s 124 (568)
T TIGR00409 45 LGLRVLKKVENIVREEMNKDGAIEVLLPALQPAELWQESGRWDTYGPELLRLKDRKGREFVLGPTHEEVITDLARNEIKS 124 (568)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCEEEECCccchHHHHhhcCCCCccchhcEEEecCCCCEEEEcCCCcHHHHHHHHHHHhh
Confidence 45678899999999999999999999999987431 1 134578873 456788888642 223322211
Q ss_pred -CCCc-eeEEEecceecCc-CC-CCccccchhhheeeecccccHHHHHHHHHHHH---HHHhHHh
Q 013856 312 -GDFG-RVFETGPVFRAED-SY-THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLF---VTIFDSL 369 (435)
Q Consensus 312 -~g~~-rVfeIgp~FR~E~-s~-t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~---~~i~~~~ 369 (435)
..+. |+|+|+++||.|. .. +.-=.-||+|.|.|.-..+ ..++....+.++ ..||+.+
T Consensus 125 yr~LPlrlyqi~~~fR~E~rpr~Gl~R~REF~~~d~~~f~~~-~~~a~~e~~~~~~~y~~if~~L 188 (568)
T TIGR00409 125 YKQLPLNLYQIQTKFRDEIRPRFGLMRGREFIMKDAYSFHSD-EESLDATYQKMYQAYSNIFSRL 188 (568)
T ss_pred ccccCeEEEEeeCEeeCCCCCCCCccccccEEEEEEEEEeCC-hHHHHHHHHHHHHHHHHHHHHh
Confidence 1343 9999999999994 21 1112359999999998775 455544555443 5566654
No 69
>COG0016 PheS Phenylalanyl-tRNA synthetase alpha subunit [Translation, ribosomal structure and biogenesis]
Probab=97.84 E-value=6.1e-05 Score=76.07 Aligned_cols=115 Identities=15% Similarity=0.241 Sum_probs=74.8
Q ss_pred HHHHHHHHHHhhcCCeeeecCceeeecCCCC----------Ccc-eeeeccCCCc---eeec--cChHHHHhhhccCC-C
Q 013856 252 SQVGNIFRQFLLSENFVEIHTPKLIAGSSEG----------GSA-VFRLDYKGQS---ACLA--QSPQLHKQMSICGD-F 314 (435)
Q Consensus 252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~~eg----------ga~-~F~~~~~~~~---~~L~--~Spql~lq~li~~g-~ 314 (435)
..++..++++|.+.||.++..|-+.+ .--. -|. .--+-|++.. .-|| +||=--..|.--.. =
T Consensus 114 ~~~~e~i~~iF~~mGF~~~~gp~IE~-d~~NFDaLn~P~dHPARdmqDTFy~~~~~~~~lLRTHTs~vq~R~l~~~~~~P 192 (335)
T COG0016 114 TQTIEEIEDIFLGMGFTEVEGPEIET-DFYNFDALNIPQDHPARDMQDTFYLKDDREKLLLRTHTSPVQARTLAENAKIP 192 (335)
T ss_pred HHHHHHHHHHHHHcCceeccCCcccc-cccchhhhcCCCCCCcccccceEEEcCCCCceeecccCcHhhHHHHHhCCCCC
Confidence 45688899999999999999995543 1110 011 0012244332 3555 45522222211111 4
Q ss_pred ceeEEEecceecCcCCCCccccchhhheee-ecccccHHHHHHHHHHHHHHHhHH
Q 013856 315 GRVFETGPVFRAEDSYTHRHLCEFTGLDVE-MEIKKHYSEVMDIVDCLFVTIFDS 368 (435)
Q Consensus 315 ~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e-~a~~~~~~d~m~~~e~l~~~i~~~ 368 (435)
-|+|++|+|||++.. +.+|+|+|.|+|-- +.-.-++.+|+-+++++++.++..
T Consensus 193 ~k~~~~grvyR~D~~-DaTHs~~FhQiEGlvvd~~~s~~~Lkg~L~~f~~~~fg~ 246 (335)
T COG0016 193 IKIFSPGRVYRNDTV-DATHSPEFHQIEGLVVDKNISFADLKGTLEEFAKKFFGE 246 (335)
T ss_pred ceEecccceecCCCC-CcccchheeeeEEEEEeCCccHHHHHHHHHHHHHHhcCC
Confidence 699999999999985 89999999999953 322223678999999999888853
No 70
>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=97.83 E-value=3.7e-05 Score=75.27 Aligned_cols=97 Identities=20% Similarity=0.262 Sum_probs=67.3
Q ss_pred hHHHHHHHHHHHHHHHhhcCC--eeeecCceeeecCCCCCcceeeec-----cCCCceeecc--Ch---HHHHhhhccC-
Q 013856 246 GIFRIQSQVGNIFRQFLLSEN--FVEIHTPKLIAGSSEGGSAVFRLD-----YKGQSACLAQ--SP---QLHKQMSICG- 312 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~g--F~EV~TP~l~~~~~egga~~F~~~-----~~~~~~~L~~--Sp---ql~lq~li~~- 312 (435)
.-.+++..|.+.+|+.|...| |.||.||+|.+. ..|.+. .-+..+||+- .| -.++......
T Consensus 30 ~g~~l~~~i~~~~~~~~~~~g~~~~~i~tP~i~~~------~mf~~~~g~~d~~~~~~~Lrp~~~~~~~~~~~~~~~~~~ 103 (254)
T cd00774 30 LGVELKNNIKSAWRKSFVLEEEDMLEIDSPIITPE------LMFKTSIGPVESGGNLGYLRPETAQGIFVNFKNLLEFNR 103 (254)
T ss_pred hHHHHHHHHHHHHHHHHHhcCCCeEEEeccccCCH------HHheeeecccCCCCcccccCCcccchHHHHHHHHHHHhC
Confidence 345788999999999999885 999999999753 566654 3456778874 22 1222222211
Q ss_pred -CC-ceeEEEecceecCcCCC--Cccccchhhheeeeccc
Q 013856 313 -DF-GRVFETGPVFRAEDSYT--HRHLCEFTGLDVEMEIK 348 (435)
Q Consensus 313 -g~-~rVfeIgp~FR~E~s~t--~rHl~EFt~lE~e~a~~ 348 (435)
.+ =|+|+||+|||+|.+.. .-=.-||||+|+|.-..
T Consensus 104 ~~lP~~~~qig~~fR~E~~~~~gl~R~ReF~q~d~~~f~~ 143 (254)
T cd00774 104 RKLPFGVAQIGKSFRNEISPRNGLFRVREFTQAEIEFFVD 143 (254)
T ss_pred CCCCchhhhhchhhccccCcccceeeeccchhhheeeeEC
Confidence 22 28999999999998522 12457999999987543
No 71
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=97.81 E-value=9.9e-05 Score=80.26 Aligned_cols=123 Identities=21% Similarity=0.228 Sum_probs=80.9
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--C------CCcceeee-ccCCCceeeccChH-----HHHhhhcc
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--E------GGSAVFRL-DYKGQSACLAQSPQ-----LHKQMSIC 311 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e------gga~~F~~-~~~~~~~~L~~Spq-----l~lq~li~ 311 (435)
.-++++..|.+.+|+.|.+.||.||.||.|..... . .|.+.|.+ +-.+++++|+-..+ ++...+..
T Consensus 45 ~g~~~~~~i~~~i~~~~~~~G~~ei~~P~l~~~~l~~~sg~~~~~~~emf~~~d~~~~~l~LrPt~e~~~~~~~~~~~~s 124 (565)
T PRK09194 45 LGLRVLRKIENIVREEMNKIGAQEVLMPALQPAELWQESGRWEEYGPELLRLKDRHGRDFVLGPTHEEVITDLVRNEIKS 124 (565)
T ss_pred cHHHHHHHHHHHHHHHHHHcCCEEEECcccCcHHHHhhcCCccccchhceEEecCCCCEEEECCCChHHHHHHHHhhhhh
Confidence 45678999999999999999999999999985431 1 13457776 44578889885333 33332221
Q ss_pred -CCC-ceeEEEecceecCcC-CCC-ccccchhhheeeecccccHHHHHHHHHHHH---HHHhHHh
Q 013856 312 -GDF-GRVFETGPVFRAEDS-YTH-RHLCEFTGLDVEMEIKKHYSEVMDIVDCLF---VTIFDSL 369 (435)
Q Consensus 312 -~g~-~rVfeIgp~FR~E~s-~t~-rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~---~~i~~~~ 369 (435)
..+ =|.|+|+++||.|.. ... -=.-||+|.|.|....+ -.+.....+.++ ..+|+.+
T Consensus 125 ~~~LP~r~yqi~~~fR~E~rp~~Gl~R~reF~q~d~~~f~~~-~~~a~~~~~~~~~~~~~i~~~l 188 (565)
T PRK09194 125 YKQLPLNLYQIQTKFRDEIRPRFGLMRGREFIMKDAYSFHAD-EESLDETYDAMYQAYSRIFDRL 188 (565)
T ss_pred cccCCeEEEEeeCCccCCCCCCCcccccccEEEeeEEEEcCC-hHHHHHHHHHHHHHHHHHHHHh
Confidence 122 399999999999942 111 02459999999998764 334333444444 4555544
No 72
>cd00770 SerRS_core Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. SerRS synthetase is a homodimer.
Probab=97.81 E-value=5.8e-05 Score=75.57 Aligned_cols=115 Identities=16% Similarity=0.230 Sum_probs=80.0
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC-C--C-----CcceeeeccCCCceeeccChHHHHhhhccC-----
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS-E--G-----GSAVFRLDYKGQSACLAQSPQLHKQMSICG----- 312 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~-e--g-----ga~~F~~~~~~~~~~L~~Spql~lq~li~~----- 312 (435)
.-.+++.+|.+.+++.+.+.||.||.||.|..... + | +.+.|.++ +.+++|+-..+..+=.+...
T Consensus 50 ~g~~l~~~l~~~~~~~~~~~G~~ev~~P~l~~~~l~~~sg~~~~~~~~~f~v~--~~~~~L~pt~e~~~~~l~~~~~~s~ 127 (297)
T cd00770 50 DGALLERALINFALDFLTKRGFTPVIPPFLVRKEVMEGTGQLPKFDEQLYKVE--GEDLYLIATAEVPLAALHRDEILEE 127 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCEEEECcccccHHHHhhcCcCccChhcccEec--CCCEEEeecCCHHHHHHHhcccCCH
Confidence 46788999999999999999999999999987541 1 1 23456664 36788886665554433322
Q ss_pred -CC-ceeEEEecceecCcC------CCCccccchhhheeeecccccHHHHHHHHHHHHHH
Q 013856 313 -DF-GRVFETGPVFRAEDS------YTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVT 364 (435)
Q Consensus 313 -g~-~rVfeIgp~FR~E~s------~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~ 364 (435)
.+ =|+|++|+|||+|.+ .+.--.-||+|.|.+ .|+.. ++..+..++++..
T Consensus 128 ~~LPlr~~~~~~~fR~E~~~~g~~~~GL~R~reF~~~e~~-~f~~~-e~~~~~~~~~l~~ 185 (297)
T cd00770 128 EELPLKYAGYSPCFRKEAGSAGRDTRGLFRVHQFEKVEQF-VFTKP-EESWEELEELISN 185 (297)
T ss_pred hhCCchheecChhHhCccccCCCCCCCceEEEeeeeeeEE-EEECc-hHHHHHHHHHHHH
Confidence 12 389999999999975 233356799999996 45542 5555555555544
No 73
>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=97.80 E-value=8.5e-05 Score=74.83 Aligned_cols=117 Identities=21% Similarity=0.204 Sum_probs=80.1
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CC---Ccceeee-ccCCCceeec--cChHHHHhhhcc-----
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EG---GSAVFRL-DYKGQSACLA--QSPQLHKQMSIC----- 311 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---eg---ga~~F~~-~~~~~~~~L~--~Spql~lq~li~----- 311 (435)
.-.+++..|...+++.|.++||.+|+||++..... .+ ..+.|.+ +.-|..+.|| ..|++-.- +..
T Consensus 6 ~~~~~~~~i~~~l~~~~~~~Gy~~i~tP~le~~~~~~~~~~~~~~~~~~~~d~~g~~l~LRpD~T~~iaR~-~~~~~~~~ 84 (314)
T TIGR00443 6 EEAARKEEIERQLQDVFRSWGYQEIITPTLEYLDTLSAGGGILNEDLFKLFDSLGRVLGLRPDMTTPIARA-VSTRLRDR 84 (314)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCeeccCcchhhHHHhcccCCcchhceEEEECCCCCEEeecCcCcHHHHHH-HHHhcccC
Confidence 34577899999999999999999999999866431 11 1235655 3357777887 35554432 221
Q ss_pred CCCceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHH
Q 013856 312 GDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVT 364 (435)
Q Consensus 312 ~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~ 364 (435)
..--|+|++|+|||.|.. ...+.-||+|+.+|.-..++. -|++.++-+.+..
T Consensus 85 ~~p~r~~y~g~VfR~~~~-~~gr~re~~Q~g~Eiig~~~~~adaEvi~l~~~~l~~ 139 (314)
T TIGR00443 85 PLPLRLCYAGNVFRTNES-GAGRSREFTQAGVELIGAGGPAADAEVIALLIEALKA 139 (314)
T ss_pred CCCeEEEEeceEeecCCC-cCCCcccccccceEEeCCCCchhHHHHHHHHHHHHHH
Confidence 123599999999999996 455678999999997544322 2566666655554
No 74
>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=97.75 E-value=0.00018 Score=72.03 Aligned_cols=117 Identities=21% Similarity=0.281 Sum_probs=77.8
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC------CCCcceeee-ccCCCceeec--cChHHHHhhhc---cCC
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS------EGGSAVFRL-DYKGQSACLA--QSPQLHKQMSI---CGD 313 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~------egga~~F~~-~~~~~~~~L~--~Spql~lq~li---~~g 313 (435)
.-.+.+..|.+.+++.|..+||.+|+||++..... +...+.|.+ +--|..+.|| ..+++-.-.+. ...
T Consensus 8 ~~~~~~~~i~~~l~~~f~~~Gy~~i~~P~le~~~~~~~~~~~~~~~~~~~~D~~G~~l~LR~D~T~~iaR~~a~~~~~~~ 87 (311)
T PF13393_consen 8 EEARKRERIESKLREVFERHGYEEIETPLLEYYELFLDKSGEDSDNMYRFLDRSGRVLALRPDLTVPIARYVARNLNLPR 87 (311)
T ss_dssp HHHHHHHHHHHHHHHHHHHTT-EE-B--SEEEHHHHHCHSSTTGGCSEEEECTTSSEEEE-SSSHHHHHHHHHHCCGSSS
T ss_pred HHHHHHHHHHHHHHHHHHHcCCEEEECCeEeecHHhhhccccchhhhEEEEecCCcEeccCCCCcHHHHHHHHHhcCcCC
Confidence 45678899999999999999999999999976431 112235655 3356667776 33344332221 234
Q ss_pred CceeEEEecceecCcCCCCccccchhhheeeecccccHH---HHHHHHHHHHH
Q 013856 314 FGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYS---EVMDIVDCLFV 363 (435)
Q Consensus 314 ~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~---d~m~~~e~l~~ 363 (435)
.-|+|.+|+|||.+.. ...+.-||+|+.+|.-..++.. |++.++-+++.
T Consensus 88 ~~r~~y~g~vfR~~~~-~~g~~re~~Q~g~Eiig~~~~~~daEvi~l~~e~l~ 139 (311)
T PF13393_consen 88 PKRYYYIGPVFRYERP-GKGRPREFYQCGFEIIGSSSLEADAEVIKLADEILD 139 (311)
T ss_dssp SEEEEEEEEEEEEETT-TTTBESEEEEEEEEEESSSSHHHHHHHHHHHHHHHH
T ss_pred CceEEEEcceeecccc-CCCCCceeEEEEEEEECCCCHHHHHHHHHHHHHHHH
Confidence 5799999999999975 3446689999999977655444 77777777775
No 75
>PLN02788 phenylalanine-tRNA synthetase
Probab=97.72 E-value=0.00012 Score=75.88 Aligned_cols=111 Identities=13% Similarity=0.187 Sum_probs=72.3
Q ss_pred HHHHHHHHhhcC---Ceeeec--CceeeecC--------C-CCCcceeeeccCCCceeec--cChHHHHhhhccCCCcee
Q 013856 254 VGNIFRQFLLSE---NFVEIH--TPKLIAGS--------S-EGGSAVFRLDYKGQSACLA--QSPQLHKQMSICGDFGRV 317 (435)
Q Consensus 254 i~~~~R~fl~~~---gF~EV~--TP~l~~~~--------~-egga~~F~~~~~~~~~~L~--~Spql~lq~li~~g~~rV 317 (435)
++..|+++|... ||.+++ .|+.+..- . ..+-+.--+-|.+...-|| +|+--.- +|..+-.|+
T Consensus 73 ~~~~i~~~f~~~~~~gf~~~~~~~~iv~~~~NFD~L~~P~dHPaR~~~DTfy~~~~~lLRTHTSa~q~~--~l~~~~~~~ 150 (402)
T PLN02788 73 LKNAIYDYFDENYSNKFKKFDDLSPIVSTKQNFDDVLVPPDHVSRSYNDTYYVDAQTVLRCHTSAHQAE--LLRAGHTHF 150 (402)
T ss_pred HHHHHHHHHhhcccCCcEEecCCCCccchhhhhhhhCCCCCCCccCccceEEecCCccccCCCcHHHHH--HHHhCCCcE
Confidence 355667777776 999998 55433210 0 1111112233566677777 4442222 222356699
Q ss_pred EEEecceecCcCCCCccccchhhheeeecc--------------cccHHHHHHHHHHHHHHHhHH
Q 013856 318 FETGPVFRAEDSYTHRHLCEFTGLDVEMEI--------------KKHYSEVMDIVDCLFVTIFDS 368 (435)
Q Consensus 318 feIgp~FR~E~s~t~rHl~EFt~lE~e~a~--------------~~~~~d~m~~~e~l~~~i~~~ 368 (435)
+.+|.|||++.. |.+|.|+|.|+|.-+.+ .. ..++...+|.|+..+|..
T Consensus 151 ~~~g~VyRrD~i-D~tH~p~FhQ~EG~~v~~~~~~~~~~~~~~~~~-~~dLKg~Le~l~~~lfg~ 213 (402)
T PLN02788 151 LVTGDVYRRDSI-DATHYPVFHQMEGVRVFSPEEWEASGLDGTDLA-AEDLKKTLEGLARHLFGD 213 (402)
T ss_pred EEEeeEeecCCC-CcccCccceeEEEEEEecccccccccccccccC-HHHHHHHHHHHHHHhcCC
Confidence 999999999995 89999999999987765 22 567888888888877654
No 76
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=97.70 E-value=0.00012 Score=79.63 Aligned_cols=115 Identities=18% Similarity=0.176 Sum_probs=73.4
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--CCC------cceeee-ccCCCceeecc-ChHH----HHhhhcc
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--EGG------SAVFRL-DYKGQSACLAQ-SPQL----HKQMSIC 311 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--egg------a~~F~~-~~~~~~~~L~~-Spql----~lq~li~ 311 (435)
.-.+++..|.+.+|+.+...||.||.||+|..... .+| .+.|.+ +--|+.++|+- +... |.+....
T Consensus 204 ~~~~~~~~l~~~~~~~~~~~Gy~ev~tP~le~~~l~~~sg~~~~~~~~my~~~d~~~~~~~LRP~~~~~~~~~~~~~~~s 283 (575)
T PRK12305 204 KGAIIRREIEDYLRKEHLKRGYEFVYTPHIGKSDLWKTSGHLDNYKENMFPPMEIDEEEYYLKPMNCPGHILIYKSRLRS 283 (575)
T ss_pred cHHHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHhhcCCcccchhhcccccccCCceEEEecCCCHHHHHHHhcccCC
Confidence 45678899999999999999999999999976431 112 234655 33467788872 2222 2222111
Q ss_pred -CCCc-eeEEEecceecCcCCCC---ccccchhhheeeecccccHHHHHHHHHHHH
Q 013856 312 -GDFG-RVFETGPVFRAEDSYTH---RHLCEFTGLDVEMEIKKHYSEVMDIVDCLF 362 (435)
Q Consensus 312 -~g~~-rVfeIgp~FR~E~s~t~---rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~ 362 (435)
..+. |.|++|+|||+|.+... .=.-||+|+|.+. |.. -+...+.+.+++
T Consensus 284 ~~~lP~r~~~~g~~fR~E~~~~~~Gl~R~reF~q~~~~i-f~~-~~~~~~e~~e~i 337 (575)
T PRK12305 284 YRDLPLRLAEFGTVYRYEKSGVLHGLTRVRGFTQDDAHI-FCT-PDQIEDEILKVL 337 (575)
T ss_pred hhhCCHhhEEecccccCCCCCCCcCcccccCeEEcceEE-EeC-HHHHHHHHHHHH
Confidence 1233 99999999999986321 1235999999995 533 334443333333
No 77
>PLN02908 threonyl-tRNA synthetase
Probab=97.69 E-value=0.00013 Score=81.17 Aligned_cols=121 Identities=15% Similarity=0.111 Sum_probs=82.4
Q ss_pred hhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--CC------CcceeeeccCCCceeeccChHH-----HHhhhcc
Q 013856 245 QGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--EG------GSAVFRLDYKGQSACLAQSPQL-----HKQMSIC 311 (435)
Q Consensus 245 ~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--eg------ga~~F~~~~~~~~~~L~~Spql-----~lq~li~ 311 (435)
-.-.+++..|++.+|+.+..+||.||.||.|..... .. +.+.|.++--+..++|+--..- |......
T Consensus 318 P~g~~i~~~l~~~~~~~~~~~G~~ev~tP~l~~~~l~~~sGh~~~~~~~mf~~~~~~~~~~Lrp~~~~~~~~~~~~~~~s 397 (686)
T PLN02908 318 PHGARIYNKLMDFIREQYWERGYDEVITPNIYNMDLWETSGHAAHYKENMFVFEIEKQEFGLKPMNCPGHCLMFAHRVRS 397 (686)
T ss_pred chHHHHHHHHHHHHHHHHHHcCCEEEECCccccHHHHhhcCCccccchhccEEecCCeeEEEcCCCcHHHHHHHhccccC
Confidence 356789999999999999999999999999976431 11 1234665444677888744322 2222211
Q ss_pred C-CC-ceeEEEecceecCcCC---CCccccchhhheeeecccccHHHHHHHHHHHHHHHhH
Q 013856 312 G-DF-GRVFETGPVFRAEDSY---THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFD 367 (435)
Q Consensus 312 ~-g~-~rVfeIgp~FR~E~s~---t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~ 367 (435)
- .+ =|+|++|+|||+|.+. +..=.-||+|.|.+. |+. .+++.+.+++++..+..
T Consensus 398 ~r~LPlr~~~~g~~fR~E~~~~l~Gl~RvReF~q~d~~i-f~~-~~q~~~e~~~~l~~~~~ 456 (686)
T PLN02908 398 YRELPLRLADFGVLHRNELSGALTGLTRVRRFQQDDAHI-FCR-EDQIKDEVKGVLDFLDY 456 (686)
T ss_pred hhhCCHhHEEeeccccCCCCcCCcCccccccEEEeeEEE-EcC-HHHHHHHHHHHHHHHHH
Confidence 1 12 2899999999999863 333456999999998 664 56777777666655443
No 78
>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=97.68 E-value=0.00021 Score=75.00 Aligned_cols=116 Identities=15% Similarity=0.227 Sum_probs=80.0
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC-------CC-CcceeeeccCCCceeeccChHHHHhhhccC-----
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS-------EG-GSAVFRLDYKGQSACLAQSPQLHKQMSICG----- 312 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~-------eg-ga~~F~~~~~~~~~~L~~Spql~lq~li~~----- 312 (435)
.-.++..+|++++++.+.+.||.||.||.|..... ++ +.+.|.+. +.++||+-..+..+-.+...
T Consensus 171 ~g~~l~~aL~~~~~~~~~~~G~~~v~~P~lv~~~~~~~~G~~~~f~~~~y~i~--~~~~~L~pTsE~~~~~~~~~~i~s~ 248 (418)
T TIGR00414 171 DGAKLERALINFMLDLLEKNGYQEIYPPYLVNEESLDGTGQLPKFEEDIFKLE--DTDLYLIPTAEVPLTNLHRNEILEE 248 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCEEEeCCccccHHHHhhcCccccccccceEec--CCCEEEEeCCcHHHHHHHhCcCCCh
Confidence 45678899999999999999999999999987542 11 23356664 46788887765444322211
Q ss_pred -CC-ceeEEEecceecCcCC------CCccccchhhheeeecccccHHHHHHHHHHHHHHH
Q 013856 313 -DF-GRVFETGPVFRAEDSY------THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTI 365 (435)
Q Consensus 313 -g~-~rVfeIgp~FR~E~s~------t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i 365 (435)
.+ =|+|++|+|||+|.+. +.-=.-||++.|. ..|+. -++..+..++++...
T Consensus 249 ~~LPlr~~~~s~~FR~E~g~~G~~t~GL~Rv~qF~k~E~-~~f~~-~e~s~~~~~~~~~~~ 307 (418)
T TIGR00414 249 EELPIKYTAHSPCFRSEAGSYGKDTKGLIRVHQFNKVEL-VKFCK-PEESAEELEEMTSDA 307 (418)
T ss_pred HhCCeeEEEEcccccCCCCccCCCCCccccccceeeeeE-EEEcC-HHHHHHHHHHHHHHH
Confidence 22 3899999999999631 2223459999999 45654 566677666666543
No 79
>PRK12293 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=97.66 E-value=0.00033 Score=69.69 Aligned_cols=113 Identities=19% Similarity=0.311 Sum_probs=79.5
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCC---CCcceeee-ccCCCceeec--cChHHHHhhhc---cCC-Cc
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSE---GGSAVFRL-DYKGQSACLA--QSPQLHKQMSI---CGD-FG 315 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~e---gga~~F~~-~~~~~~~~L~--~Spql~lq~li---~~g-~~ 315 (435)
.-...+..|.+.+++.|...||-||.||++--...- ...+.|++ +.-|+.+.|| ..+++-.-.+- -.. --
T Consensus 17 ~e~~~~~~i~~~l~~vf~~~Gy~~I~tP~lE~~e~~~~~~~~~~y~~~D~~g~~l~LRpD~T~~iaR~~a~~~~~~~~p~ 96 (281)
T PRK12293 17 KSAKLKREIENVASEILYENGFEEIVTPFFSYHQHQSIADEKELIRFSDEKNHQISLRADSTLDVVRIVTKRLGRSTEHK 96 (281)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCeEeeccceeehhhhcccchhceEEEECCCCCEEEECCcCCHHHHHHHHHhcccCCCce
Confidence 455678889999999999999999999999653321 12335665 3356667777 44444332111 011 23
Q ss_pred eeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHH
Q 013856 316 RVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTI 365 (435)
Q Consensus 316 rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i 365 (435)
|.|.+|+|||.|. .||+|+.+|+-..++..|++.++-+.+..+
T Consensus 97 r~~Y~g~vfR~~~-------rEf~Q~GvEliG~~~~~Evi~la~~~l~~l 139 (281)
T PRK12293 97 KWFYIQPVFRYPS-------NEIYQIGAELIGEEDLSEILNIAAEIFEEL 139 (281)
T ss_pred eEEEeccEEecCC-------CcccccCeEeeCCCCHHHHHHHHHHHHHHc
Confidence 9999999999874 599999999988887777777777666654
No 80
>PRK12292 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=97.64 E-value=0.00025 Score=73.72 Aligned_cols=119 Identities=21% Similarity=0.222 Sum_probs=80.3
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--C-CC----cceeee-cc-CCCceeec--cChHHHHhhhcc---
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--E-GG----SAVFRL-DY-KGQSACLA--QSPQLHKQMSIC--- 311 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e-gg----a~~F~~-~~-~~~~~~L~--~Spql~lq~li~--- 311 (435)
.-.+.+..+...+++.|..+||.||.||++-.... . +| .+.|++ +. -|+.+.|| ..+++-.-.+-.
T Consensus 15 ~~~~~~~~i~~~l~~~f~~~Gy~~i~tP~lE~~e~~~~~~g~~~~~~~~~f~d~~~g~~l~LRpD~T~~iaR~~a~~~~~ 94 (391)
T PRK12292 15 EEARKIEEIRRRLLDLFRRWGYEEVITPTLEYLDTLLAGGGAILDLRTFKLVDQLSGRTLGLRPDMTAQIARIAATRLAN 94 (391)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCceeeCcchhhHHHHhccCCccchhhhEEEeecCCCCEEEECCCCcHHHHHHHHHhccC
Confidence 45567889999999999999999999999954321 1 11 225655 33 46777777 445554321110
Q ss_pred -CCCceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHHH
Q 013856 312 -GDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVTI 365 (435)
Q Consensus 312 -~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~i 365 (435)
..--|+|++|+|||.|.. ..-+.-||+|+.+|.-..++. -|++.++-+.+..+
T Consensus 95 ~~~p~r~~y~g~vfR~~~~-~~gr~ref~Q~g~EiiG~~~~~aDaEvi~l~~~~l~~l 151 (391)
T PRK12292 95 RPGPLRLCYAGNVFRAQER-GLGRSREFLQSGVELIGDAGLEADAEVILLLLEALKAL 151 (391)
T ss_pred CCCCeEEEeeceeeecCCC-cCCCccchhccceEEeCCCCchHHHHHHHHHHHHHHHc
Confidence 112399999999999985 444578999999998655433 46777776666654
No 81
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=97.64 E-value=0.00023 Score=74.79 Aligned_cols=116 Identities=12% Similarity=0.207 Sum_probs=80.8
Q ss_pred hHHHHHHHHHHHHHHHhh-cCCeeeecCceeeecCC-C--C-----CcceeeeccCCCceeeccChHHHHhhhccCC---
Q 013856 246 GIFRIQSQVGNIFRQFLL-SENFVEIHTPKLIAGSS-E--G-----GSAVFRLDYKGQSACLAQSPQLHKQMSICGD--- 313 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~-~~gF~EV~TP~l~~~~~-e--g-----ga~~F~~~~~~~~~~L~~Spql~lq~li~~g--- 313 (435)
.-.++..+|++++++.+. ++||.||.||.|..... + | +.+.|.+. +.++||.-..+..+=.+....
T Consensus 168 ~ga~L~~aL~~~~~~~~~~~~G~~ev~~P~lv~~~~~~~~G~~~~f~~~ly~i~--~~~~~L~pTsE~~l~~l~~~~~~s 245 (425)
T PRK05431 168 DGARLERALIQFMLDLHTEEHGYTEVIPPYLVNEESMYGTGQLPKFEEDLYKIE--DDDLYLIPTAEVPLTNLHRDEILD 245 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCEEEeccccccHHHHhhcCccccchhhceEec--CCCEEEEeCCcHHHHHHHhcccCC
Confidence 456788899999999998 99999999999987431 1 1 23356664 578899876655543222221
Q ss_pred ---C-ceeEEEecceecCcCC------CCccccchhhheeeecccccHHHHHHHHHHHHHHH
Q 013856 314 ---F-GRVFETGPVFRAEDSY------THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTI 365 (435)
Q Consensus 314 ---~-~rVfeIgp~FR~E~s~------t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i 365 (435)
+ =|+|++++|||.|.+. +.-=.-||+|.|.+ .|+. -++..+..++++..+
T Consensus 246 ~~dLPlr~~~~s~~fR~Eag~~g~~~~GL~Rv~qF~k~E~~-~f~~-~e~s~~~~~~~l~~~ 305 (425)
T PRK05431 246 EEELPLKYTAYSPCFRSEAGSAGRDTRGLIRVHQFDKVELV-KFTK-PEDSYAELEELTANA 305 (425)
T ss_pred HHhCCeeEEEEcCEecCCCCcCCCCCCceeeeeeeeeeeEE-EEEC-HHHHHHHHHHHHHHH
Confidence 2 3899999999999742 11134599999998 5665 467777777666543
No 82
>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=97.60 E-value=0.00017 Score=78.26 Aligned_cols=117 Identities=17% Similarity=0.203 Sum_probs=74.6
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--CCC------cceeeec-cCCCceeeccChHH-----HHhhhcc
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--EGG------SAVFRLD-YKGQSACLAQSPQL-----HKQMSIC 311 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--egg------a~~F~~~-~~~~~~~L~~Spql-----~lq~li~ 311 (435)
.-.+++..|.+.+|+.+...||.||.||+|..... .+| .+.|.+. --|+.++|+-...- |.+....
T Consensus 198 ~g~~~~~~i~~~~~~~~~~~G~~ev~tP~l~~~~l~~~sg~~~~~~~emy~~~d~~~~~~~LrP~~~~~i~~~~~~~~~s 277 (563)
T TIGR00418 198 KGATIRNLLEDFVRQKQIKYGYMEVETPIMYDLELWEISGHWDNYKERMFPFTELDNREFMLKPMNCPGHFLIFKSSLRS 277 (563)
T ss_pred cHHHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHHhcCCcccchhhcceeccCCCceEEEecCCCHHHHHHHhCcCCC
Confidence 34567899999999999999999999999976431 111 1245542 23578888844432 3332221
Q ss_pred -CCC-ceeEEEecceecCcCCCC----ccccchhhheeeeccccc-----HHHHHHHHHHHHH
Q 013856 312 -GDF-GRVFETGPVFRAEDSYTH----RHLCEFTGLDVEMEIKKH-----YSEVMDIVDCLFV 363 (435)
Q Consensus 312 -~g~-~rVfeIgp~FR~E~s~t~----rHl~EFt~lE~e~a~~~~-----~~d~m~~~e~l~~ 363 (435)
..+ -|+|++|+|||+|.+ +. -=.-||+|.|.|.-.... +.++++++.+++.
T Consensus 278 ~~~lP~rl~~~g~~fR~E~~-g~~~Gl~R~reF~q~~~~~~~~~~~~~~e~~~~i~~~~~~~~ 339 (563)
T TIGR00418 278 YRDLPLRIAELGYSHRYEQS-GELHGLMRVRGFTQDDAHIFCTEDQIKEEFKNQFRLIQKVYS 339 (563)
T ss_pred hHHCCceeeEeccccCCCCC-cCCcCcccccceEEeeeEEEcCHHHHHHHHHHHHHHHHHHHH
Confidence 123 399999999999964 31 123589999998754310 2335555555554
No 83
>PLN02972 Histidyl-tRNA synthetase
Probab=97.55 E-value=0.00037 Score=77.36 Aligned_cols=120 Identities=14% Similarity=0.257 Sum_probs=79.1
Q ss_pred hhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--CC-C---cceeee-ccCCCceeec--cChHHHHhhhccC-C
Q 013856 244 NQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--EG-G---SAVFRL-DYKGQSACLA--QSPQLHKQMSICG-D 313 (435)
Q Consensus 244 ~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--eg-g---a~~F~~-~~~~~~~~L~--~Spql~lq~li~~-g 313 (435)
.-.-..+|..|...+++.|..+||.||.||++-.... .+ | ...|.+ +.-|+.+.|| ..+.+---.+.-. .
T Consensus 337 lP~e~~~re~I~~~L~~vFk~hGy~eI~TPvfE~~Ell~~k~Ged~k~mY~f~D~gGr~LaLRPDlTvPiAR~vA~n~~~ 416 (763)
T PLN02972 337 AKEQMAIREKAFSIITSVFKRHGATALDTPVFELRETLMGKYGEDSKLIYDLADQGGELCSLRYDLTVPFARYVAMNGIT 416 (763)
T ss_pred CHHHHHHHHHHHHHHHHHHHHcCCEEccCCcccchHHhhcccCcchhheEEEECCCCCEEEeCCCChHHHHHHHHhCCCC
Confidence 3466778999999999999999999999999854321 11 1 125655 3446666666 2333322111100 1
Q ss_pred CceeEEEecceecCcCCCCccccchhhheeeeccc-ccH---HHHHHHHHHHHHH
Q 013856 314 FGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHY---SEVMDIVDCLFVT 364 (435)
Q Consensus 314 ~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~---~d~m~~~e~l~~~ 364 (435)
--|.|+||+|||.|.. ..-+.-||+||++|+... +.. -|++.++-+.+..
T Consensus 417 p~KrYyiG~VFR~e~p-qkGR~REF~Q~G~EIIG~~~~~~aDAEVI~La~E~L~~ 470 (763)
T PLN02972 417 SFKRYQIAKVYRRDNP-SKGRYREFYQCDFDIAGVYEPMGPDFEIIKVLTELLDE 470 (763)
T ss_pred cceEEEeccEEecCCC-CCCCCccceEEeEEEEcCCCcchhhHHHHHHHHHHHHh
Confidence 2378889999999985 334568999999998764 211 4677777766654
No 84
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=97.55 E-value=0.00033 Score=77.25 Aligned_cols=113 Identities=17% Similarity=0.194 Sum_probs=72.3
Q ss_pred HHHHHHHHHHHHHHhhcCCeeeecCceeeecC---CCCC-----cceeeeccCCCceeeccChHHHHhhhccC------C
Q 013856 248 FRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS---SEGG-----SAVFRLDYKGQSACLAQSPQLHKQMSICG------D 313 (435)
Q Consensus 248 ~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~---~egg-----a~~F~~~~~~~~~~L~~Spql~lq~li~~------g 313 (435)
.+++..|.+.+++.+.+.||.||.||+|.... ..|. .+.|.++--++.++|+-..+-..=.+... +
T Consensus 274 ~~~~~~i~~~~~~~~~~~G~~~v~tP~l~~~~l~~~sG~~~~~~~emy~~d~~~~~~~LrP~~~~~~~~~~~~~~~sy~~ 353 (639)
T PRK12444 274 QIIRNELEAFLREIQKEYNYQEVRTPFMMNQELWERSGHWDHYKDNMYFSEVDNKSFALKPMNCPGHMLMFKNKLHSYRE 353 (639)
T ss_pred HHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHhhcCChhhhhhhcCeecCCCcEEEEccCCCHHHHHHHhCcccChhh
Confidence 34566699999999999999999999997753 1121 12343333356777885543333222211 2
Q ss_pred C-ceeEEEecceecCcCC---CCccccchhhheeeecccccHHHHHHHHHHHH
Q 013856 314 F-GRVFETGPVFRAEDSY---THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLF 362 (435)
Q Consensus 314 ~-~rVfeIgp~FR~E~s~---t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~ 362 (435)
+ -|.|++|+|||.|.+. +.-=.-||+|.|.+ .|.. -+++...+++++
T Consensus 354 LP~r~~~~g~~fR~E~~~~~~Gl~R~reF~q~d~~-~f~~-~~~~~~e~~~~~ 404 (639)
T PRK12444 354 LPIRMCEFGQVHRHEFSGALNGLLRVRTFCQDDAH-LFVT-PDQIEDEIKSVM 404 (639)
T ss_pred CCceeEEeccccCCCCCcCCcCcceeeeeEEccEE-EECC-HHHHHHHHHHHH
Confidence 2 3999999999999863 21124599999999 6664 344444433333
No 85
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=97.53 E-value=0.00033 Score=75.72 Aligned_cols=119 Identities=15% Similarity=0.141 Sum_probs=78.9
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC--CCCCc------ceeeeccCCCceeeccChH-----HHHhhhccC
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS--SEGGS------AVFRLDYKGQSACLAQSPQ-----LHKQMSICG 312 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~--~egga------~~F~~~~~~~~~~L~~Spq-----l~lq~li~~ 312 (435)
.-.++|..|...+|+.+.++||.||.||.|.... ..+|- +.|.++--+.+++|+--.. +|.+....-
T Consensus 166 ~G~~i~~~L~~~~r~~~~~~Gy~eV~TP~i~~~eL~k~SGh~~~y~~~mf~~~~~~e~~~LrPm~cp~~~~~~~~~~~Sy 245 (545)
T PRK14799 166 KGQTIRNELIAFMREINDSMGYQEVYTSHVFKTDIWKISGHYTLYRDKLIVFNMEGDEYGVKPMNCPAHILIYKSKPRTY 245 (545)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCeEEECCccchHHHHhhccccccchhhcceeeccCceEEeccCCCHHHHHHHhccccCh
Confidence 5668999999999999999999999999985533 11221 2354444467788874332 333322211
Q ss_pred -CC-ceeEEEecceecCcCCCC---ccccchhhheeeecccccHHHHHHHHHHHHHHHh
Q 013856 313 -DF-GRVFETGPVFRAEDSYTH---RHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIF 366 (435)
Q Consensus 313 -g~-~rVfeIgp~FR~E~s~t~---rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~ 366 (435)
.+ =|.|++|+|||.|.+... .=.-||||.|... |+. .+++.+.+.+++..+.
T Consensus 246 rdLPlR~~e~g~vfR~E~sg~l~GL~RvReF~Q~DaHi-f~~-~~q~~~E~~~~l~~i~ 302 (545)
T PRK14799 246 RDLPIRFSEFGHVYRWEKKGELYGLLRVRGFVQDDGHI-FLR-EDQLREEIKMLISKTV 302 (545)
T ss_pred hhCCHhhEEecceecCCCCCCccccccceeEEEcccEE-EeC-HHHHHHHHHHHHHHHH
Confidence 22 289999999999997431 2346999999998 765 4555555555444443
No 86
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=97.52 E-value=0.00044 Score=76.17 Aligned_cols=100 Identities=24% Similarity=0.333 Sum_probs=68.1
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC---CCC-----Ccceeee-ccCCCceeeccC--hH---HHHhhhcc
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS---SEG-----GSAVFRL-DYKGQSACLAQS--PQ---LHKQMSIC 311 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~---~eg-----ga~~F~~-~~~~~~~~L~~S--pq---l~lq~li~ 311 (435)
.-.+++..|.+.+++.|...||.||.||+|.... ..| ..+.|.+ +--|+.+.|+-- |. +|.+....
T Consensus 268 ~~~~~~~~i~~~~~~~~~~~Gy~ei~tP~le~~~l~~~~g~~~~~~~~my~~~d~~~~~~~LRP~~~~~~~r~~~~~~~s 347 (638)
T PRK00413 268 KGWTIRRELERYIRRKLRKAGYQEVKTPQILDRELWETSGHWDHYRENMFPTTESDGEEYALKPMNCPGHVQIYKQGLRS 347 (638)
T ss_pred cHHHHHHHHHHHHHHHHHHCCCEEEECCeeCCHHHHHhcCChhhhhhccceeecCCCcEEEEecCCcHHHHHHHhCcCCC
Confidence 5567899999999999999999999999996643 112 1224664 334677888732 22 23332211
Q ss_pred -CCCc-eeEEEecceecCcCCC---Cccccchhhheeee
Q 013856 312 -GDFG-RVFETGPVFRAEDSYT---HRHLCEFTGLDVEM 345 (435)
Q Consensus 312 -~g~~-rVfeIgp~FR~E~s~t---~rHl~EFt~lE~e~ 345 (435)
..+. |.|++|+|||.|.+.. ..=.-||||+|++.
T Consensus 348 ~~~lP~r~~~~g~~fR~E~~~~~~Gl~R~reF~q~~~~~ 386 (638)
T PRK00413 348 YRDLPLRLAEFGTVHRYEPSGALHGLMRVRGFTQDDAHI 386 (638)
T ss_pred hhhCCceeeeccCeecCCCCCCCcCcceeeeeEEeeEEE
Confidence 1233 9999999999998632 11235999999997
No 87
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=97.52 E-value=0.00019 Score=76.50 Aligned_cols=116 Identities=16% Similarity=0.058 Sum_probs=83.7
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CC------CcceeeeccC-----CCceeeccCh-----HHHH
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EG------GSAVFRLDYK-----GQSACLAQSP-----QLHK 306 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---eg------ga~~F~~~~~-----~~~~~L~~Sp-----ql~l 306 (435)
.-++++..|.+.+++.|...||.||.||.|.+... ++ +.+.|.+..- +.+++|+-.. .+|.
T Consensus 42 ~g~~i~~~i~~~~~~~~~~~G~~ev~~P~l~~~~~~~~~~~h~~~f~~e~~~v~~~~~~~~~e~l~LrPtsE~~i~~~~~ 121 (477)
T PRK08661 42 YGYAIWENIQKILDKLFKETGHENVYFPLLIPESLLEKEKEHVEGFAPEVAWVTHGGGEKLEEKLALRPTSETIIYPMYK 121 (477)
T ss_pred cHHHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHhhhcCchhhcccccEEEEccCCCccCceEEEecCCcHHHHHHHH
Confidence 45688999999999999999999999999977542 12 2346776432 4678998655 3444
Q ss_pred hhhcc-CCC-ceeEEEecceecCcCCCC--ccccchhhheeeecccccHHHHHHHHHHHHH
Q 013856 307 QMSIC-GDF-GRVFETGPVFRAEDSYTH--RHLCEFTGLDVEMEIKKHYSEVMDIVDCLFV 363 (435)
Q Consensus 307 q~li~-~g~-~rVfeIgp~FR~E~s~t~--rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~ 363 (435)
..... .+| =|+|++|+|||.|.+ ++ -=.-||+|.|.+..+.+ .++..+.++.++.
T Consensus 122 ~~i~SyrdLPlrl~q~~~vfR~E~~-~rgl~R~rEF~~~E~h~~~~~-~eea~~e~~~~l~ 180 (477)
T PRK08661 122 KWIQSYRDLPLLYNQWVNVVRWETK-TRPFLRTREFLWQEGHTAHAT-EEEAEEETLEMLE 180 (477)
T ss_pred hhhcchhhcCHHHhcccceeeCCCC-CCCcceeeeEEEcceeeeeCC-HHHHHHHHHHHHH
Confidence 43222 123 289999999999996 43 24569999999998886 6777666666553
No 88
>PRK12420 histidyl-tRNA synthetase; Provisional
Probab=97.51 E-value=0.00045 Score=72.47 Aligned_cols=120 Identities=19% Similarity=0.280 Sum_probs=79.3
Q ss_pred hhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC--CC--C-Cc----ceeee-ccCCCceeec--cChHHHHhhhccC
Q 013856 245 QGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS--SE--G-GS----AVFRL-DYKGQSACLA--QSPQLHKQMSICG 312 (435)
Q Consensus 245 ~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~--~e--g-ga----~~F~~-~~~~~~~~L~--~Spql~lq~li~~ 312 (435)
-.-..++..|.+.+++.|...||.||.||.|-... .. | +. ..|.+ +.-|+.+.|| ..+++-.-.+.-.
T Consensus 15 p~~~~~~~~i~~~l~~~f~~~Gy~~i~tP~lE~~~~~~~~~~~~~~~~~~~~~~~D~~g~~l~LRpD~T~~iaR~va~~~ 94 (423)
T PRK12420 15 PEEQVLRNKIKRALEDVFERYGCKPLETPTLNMYELMSSKYGGGDEILKEIYTLTDQGKRDLALRYDLTIPFAKVVAMNP 94 (423)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCEeccccccchHHHHhcccCCCcccccceEEEecCCCceecccccccHHHHHHHHhCc
Confidence 34557788899999999999999999999997642 11 1 21 24554 3356667776 3334432211111
Q ss_pred --CCc-eeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHHH
Q 013856 313 --DFG-RVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVTI 365 (435)
Q Consensus 313 --g~~-rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~i 365 (435)
.+. |.|++|+|||.|.. ..-+.-||+|+.+|+-..++. -|++.++-+.+..+
T Consensus 95 ~~~~p~r~~y~g~vfR~~~~-~~gr~rE~~Q~g~EiiG~~~~~adaEvi~la~~~l~~l 152 (423)
T PRK12420 95 NIRLPFKRYEIGKVFRDGPI-KQGRFREFIQCDVDIVGVESVMAEAELMSMAFELFRRL 152 (423)
T ss_pred CCCCCeeEEEEcceECCCCC-CCCccceeEECCeeeECCCCCcccHHHHHHHHHHHHHC
Confidence 223 89999999999985 344678999999998554322 46777776666543
No 89
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=97.51 E-value=0.00037 Score=73.29 Aligned_cols=118 Identities=20% Similarity=0.291 Sum_probs=79.7
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--C--C-C-----cceeee-ccCCCceeec--cChHHHH---hhh
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--E--G-G-----SAVFRL-DYKGQSACLA--QSPQLHK---QMS 309 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e--g-g-----a~~F~~-~~~~~~~~L~--~Spql~l---q~l 309 (435)
.-...+..|.+.+++.|...||.||.||++-.... . | . .+.|.+ +.-|+.+.|| ..|++.. +..
T Consensus 16 ~~~~~~~~i~~~i~~~~~~~Gy~~I~TP~~E~~e~~~~~~G~~~~~~~~~my~~~d~~g~~l~LRpd~T~~iaR~~~~~~ 95 (430)
T CHL00201 16 DEINYWQFIHDKALTLLSLANYSEIRTPIFENSSLYDRGIGETTDIVNKEMYRFTDRSNRDITLRPEGTAGIVRAFIENK 95 (430)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCeeecCcccchHHHHhcccCCcccccccceEEEEcCCCCEEEeCCCCcHHHHHHHHHcc
Confidence 44567899999999999999999999999865331 1 2 1 235665 3346777887 4444433 211
Q ss_pred ccC-CC-ceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHH
Q 013856 310 ICG-DF-GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVT 364 (435)
Q Consensus 310 i~~-g~-~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~ 364 (435)
... .. -|.|++|+|||.|.+...|- -||+|+++|+-..++. -|++.++-+.+..
T Consensus 96 ~~~~~~p~R~~y~g~vfR~e~~q~GR~-Ref~Q~g~EiiG~~~~~aD~Evi~l~~~~l~~ 154 (430)
T CHL00201 96 MDYHSNLQRLWYSGPMFRYERPQSGRQ-RQFHQLGIEFIGSIDARADTEVIHLAMQIFNE 154 (430)
T ss_pred ccccCCCeEEEEEcceecCCCCcCCcc-ceeEEeceEEECCCChhhHHHHHHHHHHHHHH
Confidence 111 23 39999999999998655554 5999999998765432 2566666665544
No 90
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=97.46 E-value=0.00051 Score=75.29 Aligned_cols=121 Identities=17% Similarity=0.236 Sum_probs=84.6
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeec---C----CCC-CcceeeeccCCCceeeccChH-----HHHhhhccC
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAG---S----SEG-GSAVFRLDYKGQSACLAQSPQ-----LHKQMSICG 312 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~---~----~eg-ga~~F~~~~~~~~~~L~~Spq-----l~lq~li~~ 312 (435)
.-.+++..|.+++++.+.+.||.+|.||.|... . .++ +.+.|.+.--+..++|+-..+ +|+.....-
T Consensus 225 ~G~~i~~~L~~~~~~~~~~~G~~~V~tP~~~~~~~~~~sgh~~~f~e~my~v~~~~e~l~Lrp~~c~~~~~~~~~~~~Sy 304 (613)
T PRK03991 225 KGRLIRDLLEDYVYNLVVELGAMPVETPIMYDLSHPAIREHADKFGERQYRVKSDKKDLMLRFAACFGQFLMLKDMTISY 304 (613)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCEEEECCeecChhHHhhcccccccchhceEecCCCceEEEecCCCHHHHHHHhCCcCch
Confidence 567899999999999999999999999988432 1 112 445677755567888885544 223322110
Q ss_pred -CC-ceeEEEec-ceecCcCCC---CccccchhhheeeecccccHHHHHHHHHHHHHHHhH
Q 013856 313 -DF-GRVFETGP-VFRAEDSYT---HRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFD 367 (435)
Q Consensus 313 -g~-~rVfeIgp-~FR~E~s~t---~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~ 367 (435)
.+ =|+|++|+ |||+|.+.. ..=+-||||.|.+.-..+ .++.++.++.++..+..
T Consensus 305 rdLPlr~~e~~~~~fR~E~~g~l~GL~RvReF~~~D~h~f~~~-~eqa~~e~~~~l~~~~~ 364 (613)
T PRK03991 305 KNLPLKMYELSTYSFRLEQRGELVGLKRLRAFTMPDMHTLCKD-MEQAMEEFEKQYEMILE 364 (613)
T ss_pred hhCChhhheecchheeCCCCCCCcCcccccceEeeeEEEEECC-HHHHHHHHHHHHHHHHH
Confidence 12 27999999 999998522 334569999999875543 67888877777766544
No 91
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=97.45 E-value=0.0006 Score=71.97 Aligned_cols=115 Identities=16% Similarity=0.146 Sum_probs=77.5
Q ss_pred HHHHHHHHHHHHHHHhhcCCeeeecCceeeecC----CC---C-Ccceeee-ccCCCceeeccCh-----HHHHhhhcc-
Q 013856 247 IFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS----SE---G-GSAVFRL-DYKGQSACLAQSP-----QLHKQMSIC- 311 (435)
Q Consensus 247 i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~----~e---g-ga~~F~~-~~~~~~~~L~~Sp-----ql~lq~li~- 311 (435)
-.+++..|.+.+|+.+...||.||.||.|.... ++ + +.+.|.+ +--+.+++|+... .++......
T Consensus 46 g~~i~~~i~~~i~~~~~~~G~~ev~~P~l~~~~l~~~sg~~~~~~~emf~~~d~~~~~~~L~Pt~e~~~~~~~~~~~~sy 125 (439)
T PRK12325 46 GLKVLKKIENIVREEQNRAGAIEILMPTIQPADLWRESGRYDAYGKEMLRIKDRHDREMLYGPTNEEMITDIFRSYVKSY 125 (439)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEEEECCccccHHHHhhcCCccccchhheEEecCCCCEEEEcCCCcHHHHHHHHHHhhhc
Confidence 467899999999999999999999999998642 11 1 3346776 3456788888522 333332211
Q ss_pred CCC-ceeEEEecceecCcCC--CCccccchhhheeeecccccHHHHHHHHHHHH
Q 013856 312 GDF-GRVFETGPVFRAEDSY--THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLF 362 (435)
Q Consensus 312 ~g~-~rVfeIgp~FR~E~s~--t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~ 362 (435)
..+ =|+|+||++||+|.+. +..=.-||+|-|.|....+ .+++.+...+++
T Consensus 126 rdLPlrl~q~~~~fR~E~~~~~GL~R~reF~~~D~h~f~~~-~~~a~~~~~~~~ 178 (439)
T PRK12325 126 KDLPLNLYHIQWKFRDEIRPRFGVMRGREFLMKDAYSFDLD-EEGARHSYNRMF 178 (439)
T ss_pred hhhchHheEecCEecCCCCCCCCccccceEeEeccEEEeCC-HHHHHHHHHHHH
Confidence 123 4899999999999641 1113579999999887665 455555444443
No 92
>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=97.45 E-value=0.0003 Score=74.92 Aligned_cols=115 Identities=21% Similarity=0.191 Sum_probs=81.2
Q ss_pred HHHHHHHHHHHHHHHhhcCCeeeecCceeeecC---CCC------CcceeeeccC-----CCceeeccChHHHH-----h
Q 013856 247 IFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS---SEG------GSAVFRLDYK-----GQSACLAQSPQLHK-----Q 307 (435)
Q Consensus 247 i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~---~eg------ga~~F~~~~~-----~~~~~L~~Spql~l-----q 307 (435)
=.+++..|.+.+++-+.+.||.||.||.|.... .+| +.+.|.+.-. +.+++|+-..+-.. .
T Consensus 37 g~~i~~~I~~~i~~~~~~~G~~ev~~P~l~~~~~~~~~~~h~~~f~~e~f~v~~~g~~~~~e~l~LrPt~e~~i~~~~~~ 116 (472)
T TIGR00408 37 GFKIWKNIQKILRNILDEIGHEEVYFPMLIPESELAKEKDHIKGFEPEVYWITHGGLSKLDEPLALRPTSETAMYPMFKK 116 (472)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHHhhcchhhhcchhcEEEecCCCCccCCcEEEeCCCcHHHHHHHhc
Confidence 345689999999999999999999999997643 122 2346777543 37889986654332 2
Q ss_pred hhccC--CC-ceeEEEecceecCcCCC--CccccchhhheeeecccccHHHHHHHHHHHHH
Q 013856 308 MSICG--DF-GRVFETGPVFRAEDSYT--HRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFV 363 (435)
Q Consensus 308 ~li~~--g~-~rVfeIgp~FR~E~s~t--~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~ 363 (435)
. +.+ .+ =|+|++|+|||+|.+.+ .-=..||+|.|.+..|.+ .++....++.++.
T Consensus 117 ~-i~S~rdLPlr~~q~~~vfR~E~~~~~gl~R~rEF~~~e~h~~~~~-~e~a~~e~~~~l~ 175 (472)
T TIGR00408 117 W-VKSYTDLPLKINQWVNVFRYETKHTRPFLRTREFTWQEAHTAHAT-AEEAEEQVLRALD 175 (472)
T ss_pred c-ccChhhcCHHHhheeeeecCCCCCCCCcceeeeeehhhhhhhhCC-HHHHHHHHHHHHH
Confidence 2 222 23 28999999999999632 123569999999988876 6776666665554
No 93
>PRK12421 ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=97.36 E-value=0.0011 Score=68.90 Aligned_cols=119 Identities=13% Similarity=0.119 Sum_probs=79.7
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--C-CCc----ceeeecc--CCCceeec--cChHHHHhhh--cc-
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--E-GGS----AVFRLDY--KGQSACLA--QSPQLHKQMS--IC- 311 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e-gga----~~F~~~~--~~~~~~L~--~Spql~lq~l--i~- 311 (435)
.-.+.+..|.+.+++.|...||.||.||++-.... . .|. ..|++.. -|+.+-|| ..+++-.-.+ ..
T Consensus 19 ~e~~~~~~i~~~l~~~f~~~Gy~~I~tP~~E~~e~~~~~~g~~~~~~~y~f~D~~~g~~l~LRpD~T~~iaR~~a~~~~~ 98 (392)
T PRK12421 19 EEAQKIERLRRRLLDLFASRGYQLVMPPLIEYLESLLTGAGQDLKLQTFKLIDQLSGRLMGVRADITPQVARIDAHLLNR 98 (392)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCEEeeCcchhhHHHHhccCCccchhceEEEEcCCCCcEEEECCcCCHHHHHHHHhhcCC
Confidence 45677889999999999999999999999864331 1 122 2465432 25556666 3444433110 01
Q ss_pred CCCceeEEEecceecCcCCCCccccchhhheeeecccccHH---HHHHHHHHHHHHH
Q 013856 312 GDFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYS---EVMDIVDCLFVTI 365 (435)
Q Consensus 312 ~g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~---d~m~~~e~l~~~i 365 (435)
..--|.|.+|+|||.+.....| .-||+|+.+|+-..++.. |++.++-+.+..+
T Consensus 99 ~~p~R~~Y~g~VfR~~~~~~gr-~rEf~Q~GvEiiG~~~~~aDaEvi~l~~e~l~~l 154 (392)
T PRK12421 99 EGVARLCYAGSVLHTLPQGLFG-SRTPLQLGAELYGHAGIEADLEIIRLMLGLLRNA 154 (392)
T ss_pred CCceEEEEeeeEEEcCCCcCCC-cCccceeceEEeCCCCchhHHHHHHHHHHHHHHc
Confidence 1235999999999998754444 479999999986655443 7777777777654
No 94
>PLN02530 histidine-tRNA ligase
Probab=97.36 E-value=0.00078 Score=72.05 Aligned_cols=118 Identities=17% Similarity=0.257 Sum_probs=78.7
Q ss_pred hhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--C-CCc----ceeee-ccCCCceeec--cChHHHHhhhccC--
Q 013856 245 QGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--E-GGS----AVFRL-DYKGQSACLA--QSPQLHKQMSICG-- 312 (435)
Q Consensus 245 ~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e-gga----~~F~~-~~~~~~~~L~--~Spql~lq~li~~-- 312 (435)
-.-.+.+..|...+++.|...||.||.||+|-.... . .|. +.|.+ +.-|+.+.|| ..|++..- ++.
T Consensus 81 p~~~~~~~~i~~~~~~~~~~~Gy~~I~tP~lE~~el~~~~~g~~~~~~~y~f~D~~g~~l~LRpD~T~~iaR~--~~~~~ 158 (487)
T PLN02530 81 PEDMRLRNWLFDHFREVSRLFGFEEVDAPVLESEELYIRKAGEEITDQLYNFEDKGGRRVALRPELTPSLARL--VLQKG 158 (487)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCEeccccccchHHHhccccCcccccceEEEECCCCCEEecCCCCcHHHHHH--HHhcc
Confidence 355678899999999999999999999999965331 1 122 25654 3456767776 33443321 111
Q ss_pred ---CC-ceeEEEecceecCcCCCCccccchhhheeeeccccc---HHHHHHHHHHHHHHH
Q 013856 313 ---DF-GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKH---YSEVMDIVDCLFVTI 365 (435)
Q Consensus 313 ---g~-~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~---~~d~m~~~e~l~~~i 365 (435)
.+ -|.|++|+|||.|..... +.-||+|+.+|+-..++ --|++.++-+.+..+
T Consensus 159 ~~~~~P~r~~y~g~vfR~e~~q~g-r~REf~Q~giEiiG~~~~~aDaEvi~l~~~~l~~l 217 (487)
T PLN02530 159 KSLSLPLKWFAIGQCWRYERMTRG-RRREHYQWNMDIIGVPGVEAEAELLAAIVTFFKRV 217 (487)
T ss_pred cccCCCeEEEEEcCEEcCcCCCCC-CccceEEcCeeEeCCCCcchhHHHHHHHHHHHHHc
Confidence 12 389999999999985343 46799999999865432 235666666555443
No 95
>PRK12295 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=97.19 E-value=0.0015 Score=67.65 Aligned_cols=108 Identities=19% Similarity=0.261 Sum_probs=71.6
Q ss_pred HHHHHHHHHhhcCCeeeecCceeeecCC--C-CCc----ceeee-ccCCCceeec--cChHHHHhhhc--cCCCceeEEE
Q 013856 253 QVGNIFRQFLLSENFVEIHTPKLIAGSS--E-GGS----AVFRL-DYKGQSACLA--QSPQLHKQMSI--CGDFGRVFET 320 (435)
Q Consensus 253 ~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e-gga----~~F~~-~~~~~~~~L~--~Spql~lq~li--~~g~~rVfeI 320 (435)
.|.+.+++.|..+||.||.||++-.... . .|. ..|.+ +--|+.+.|| ..+++-.-.+- ...--|.|++
T Consensus 9 ~i~~~i~~~f~~~Gy~~I~tP~lE~~e~~~~~~g~~~~~~~~~f~D~~G~~l~LRpD~T~piaR~~~~~~~~~p~R~~Y~ 88 (373)
T PRK12295 9 AAAEALLASFEAAGAVRVDPPILQPAEPFLDLSGEDIRRRIFVTSDENGEELCLRPDFTIPVCRRHIATAGGEPARYAYL 88 (373)
T ss_pred HHHHHHHHHHHHcCCEEeeCCccccHHHhhhccCchhhcceEEEECCCCCEEeeCCCCcHHHHHHHHHcCCCCCeEEEEE
Confidence 7788999999999999999999965431 1 122 25655 3346667776 33333321110 1224599999
Q ss_pred ecceecCcCCCCccccchhhheeeeccc-cc---HHHHHHHHHHHHHH
Q 013856 321 GPVFRAEDSYTHRHLCEFTGLDVEMEIK-KH---YSEVMDIVDCLFVT 364 (435)
Q Consensus 321 gp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~---~~d~m~~~e~l~~~ 364 (435)
|+|||.+.. ..-||+|+.+|.-.. +. --|++.++-+.+..
T Consensus 89 g~VfR~~~g----r~rEf~Q~GvEiiG~~~~~~aDaEvi~l~~~~L~~ 132 (373)
T PRK12295 89 GEVFRQRRD----RASEFLQAGIESFGRADPAAADAEVLALALEALAA 132 (373)
T ss_pred ccEEECCCC----CCCcceEeeEEeeCCCCCccchHHHHHHHHHHHHH
Confidence 999999832 346999999998663 21 23788887777765
No 96
>PLN02678 seryl-tRNA synthetase
Probab=97.06 E-value=0.0011 Score=70.00 Aligned_cols=117 Identities=14% Similarity=0.186 Sum_probs=70.6
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC-CC-------CcceeeeccCCCceeeccC---h--HHHHhhhc-c
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS-EG-------GSAVFRLDYKGQSACLAQS---P--QLHKQMSI-C 311 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~-eg-------ga~~F~~~~~~~~~~L~~S---p--ql~lq~li-~ 311 (435)
...+++.+|++++++++..+||.||.||.|..... ++ ..+.|.+.--|.+.||.-. | -+|....+ -
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 44788999999999999999999999999976432 11 1224555322335555432 1 12221111 1
Q ss_pred CCC-ceeEEEecceecCcCC---C---CccccchhhheeeecccccHHH--HHHHHHHHHHH
Q 013856 312 GDF-GRVFETGPVFRAEDSY---T---HRHLCEFTGLDVEMEIKKHYSE--VMDIVDCLFVT 364 (435)
Q Consensus 312 ~g~-~rVfeIgp~FR~E~s~---t---~rHl~EFt~lE~e~a~~~~~~d--~m~~~e~l~~~ 364 (435)
..+ =|++++++|||+|.+. + ..-.-+|+++|.. .|.. -++ .....|+|+..
T Consensus 252 ~eLPlr~~~~s~cfR~Eags~G~~~~GL~RvhqF~KvE~f-~~~~-pe~~~s~~~~e~~l~~ 311 (448)
T PLN02678 252 KELPIRYAGYSTCFRKEAGSHGRDTLGIFRVHQFEKVEQF-CITS-PNGNESWEMHEEMLKN 311 (448)
T ss_pred HhCCceeEEeccccccccccCCCcCCcceEEEEEEEEEEE-EEEC-CCchhHHHHHHHHHHH
Confidence 122 3899999999999852 1 2223489999994 4432 233 44445554443
No 97
>PLN02837 threonine-tRNA ligase
Probab=97.04 E-value=0.0022 Score=70.55 Aligned_cols=118 Identities=15% Similarity=0.118 Sum_probs=78.4
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCC---C-----Ccceeeecc-CCCceeeccChH-----HHHhhhcc
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSE---G-----GSAVFRLDY-KGQSACLAQSPQ-----LHKQMSIC 311 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~e---g-----ga~~F~~~~-~~~~~~L~~Spq-----l~lq~li~ 311 (435)
.-.+++..|++++++....+||.||.||.|.....- | +.+.|.+.- -+..+.|+.+.+ +|++....
T Consensus 245 ~G~~l~~~L~~~~~~~~~~~G~~~v~tP~l~~~~l~~~sGh~~~~~~~mf~~~~~~~~~y~l~p~~~p~~~~~~~~~~~S 324 (614)
T PLN02837 245 KGAIVRHIIEDSWKKMHFEHGYDLLYTPHVAKADLWKTSGHLDFYKENMYDQMDIEDELYQLRPMNCPYHILVYKRKLHS 324 (614)
T ss_pred hHHHHHHHHHHHHHHHHHHCCCEEEECCccCCHHHHhhcCCcccchhhcccccCCCCceEEECCCCcHHHHHHHhCccCC
Confidence 567899999999999999999999999999764311 1 223555422 234445664443 33332211
Q ss_pred -CCC-ceeEEEecceecCcCCC---CccccchhhheeeecccccHHHHHHHHHHHHHHH
Q 013856 312 -GDF-GRVFETGPVFRAEDSYT---HRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTI 365 (435)
Q Consensus 312 -~g~-~rVfeIgp~FR~E~s~t---~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i 365 (435)
..+ =|+|++|+|||+|.+.. .-=.-||+|.|.+. |+. .++..+.++.++..+
T Consensus 325 yrdLPlr~~~~~~~~R~E~~g~~~GL~RvreF~~~e~h~-f~~-~~q~~~e~~~~l~~~ 381 (614)
T PLN02837 325 YRDLPIRVAELGTVYRYELSGSLHGLFRVRGFTQDDAHI-FCL-EDQIKDEIRGVLDLT 381 (614)
T ss_pred hhHCCHhhEeecccccCCCCCCCcCcccccceEECeEEE-EeC-HHHHHHHHHHHHHHH
Confidence 022 38999999999998521 22345899999996 876 677777666666543
No 98
>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=96.95 E-value=0.012 Score=46.31 Aligned_cols=74 Identities=14% Similarity=0.214 Sum_probs=55.5
Q ss_pred EEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEEE
Q 013856 107 VLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQ 186 (435)
Q Consensus 107 V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~ 186 (435)
++|.|-|.++|...++++|+.|.|.++.+.|++..+.. .+.-..|..|+.|.|.|.+...+. .+++.|.
T Consensus 2 ~~v~g~v~~i~~tk~g~~~~~L~D~~~~i~~~~f~~~~------~~~~~~l~~g~~v~v~g~v~~~~~-----~~~~~l~ 70 (78)
T cd04489 2 VWVEGEISNLKRPSSGHLYFTLKDEDASIRCVMWRSNA------RRLGFPLEEGMEVLVRGKVSFYEP-----RGGYQLI 70 (78)
T ss_pred EEEEEEEecCEECCCcEEEEEEEeCCeEEEEEEEcchh------hhCCCCCCCCCEEEEEEEEEEECC-----CCEEEEE
Confidence 68999999988633359999999999999999986421 122356999999999999974210 1357888
Q ss_pred EeEEE
Q 013856 187 IKKLY 191 (435)
Q Consensus 187 v~~i~ 191 (435)
++++.
T Consensus 71 v~~i~ 75 (78)
T cd04489 71 VEEIE 75 (78)
T ss_pred EEEEE
Confidence 87764
No 99
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=96.89 E-value=0.0038 Score=65.58 Aligned_cols=117 Identities=21% Similarity=0.260 Sum_probs=79.5
Q ss_pred HHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCC---CCcc-------eeeecc-CCCceeec---cCh--HHHHhhhc
Q 013856 247 IFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSE---GGSA-------VFRLDY-KGQSACLA---QSP--QLHKQMSI 310 (435)
Q Consensus 247 i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~e---gga~-------~F~~~~-~~~~~~L~---~Sp--ql~lq~li 310 (435)
-...+..|...+|+-+.+.||.||.||++-....= .|.+ .|.... -|+.+-|| ++| -++.+-..
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 56778899999999999999999999998543311 1211 233322 46777777 444 23333222
Q ss_pred cC-CCceeEEEecceecCcCCCCccccchhhheeeecccccH---HHHHHHHHHHHHH
Q 013856 311 CG-DFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHY---SEVMDIVDCLFVT 364 (435)
Q Consensus 311 ~~-g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~---~d~m~~~e~l~~~ 364 (435)
.. ---|.|.+|||||.|.....|- -||+||++|....++. -|++.++.+++..
T Consensus 97 ~~~~p~k~yy~g~vfRyErPQ~GR~-RqF~Q~g~E~iG~~~~~~DAEvi~l~~~~l~~ 153 (429)
T COG0124 97 DLPKPLKLYYFGPVFRYERPQKGRY-RQFYQFGVEVIGSDSPDADAEVIALAVEILEA 153 (429)
T ss_pred cccCCeeEEEecceecCCCCCCCCc-eeeEEcCeEEeCCCCcccCHHHHHHHHHHHHH
Confidence 21 2349999999999999866665 6999999998665421 3677777776664
No 100
>PRK04173 glycyl-tRNA synthetase; Provisional
Probab=96.72 E-value=0.0042 Score=65.97 Aligned_cols=30 Identities=13% Similarity=0.424 Sum_probs=27.0
Q ss_pred HHHHHHHHHHHHHHhhc--CCeeeecCceeee
Q 013856 248 FRIQSQVGNIFRQFLLS--ENFVEIHTPKLIA 277 (435)
Q Consensus 248 ~~~rs~i~~~~R~fl~~--~gF~EV~TP~l~~ 277 (435)
.++|..|.+++|+.+.. .||.||.||+|..
T Consensus 38 ~~l~~~i~~~~r~~~~~~~~~~~ev~tp~i~~ 69 (456)
T PRK04173 38 VELKNNIKRAWWKSFVQEREDVVGIDSPIIMP 69 (456)
T ss_pred HHHHHHHHHHHHHHHHhccCCEEEEeccccCC
Confidence 47889999999999987 7999999999976
No 101
>KOG2784 consensus Phenylalanyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]
Probab=96.70 E-value=0.0021 Score=65.02 Aligned_cols=59 Identities=24% Similarity=0.363 Sum_probs=44.5
Q ss_pred HHHHhhhccCCC--ceeEEEecceecCcCCCCccccchhhheeeecccc-cHHHHHHHHHHHHHH
Q 013856 303 QLHKQMSICGDF--GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK-HYSEVMDIVDCLFVT 364 (435)
Q Consensus 303 ql~lq~li~~g~--~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~-~~~d~m~~~e~l~~~ 364 (435)
.||. |.-.|| .|.|.|-+|||||.. +.+||.||.++|--.+-.+ .+-|+|-++++++..
T Consensus 322 mLy~--LAk~~f~p~K~FSIDrVFRNEtv-DaTHLAEFHQVEGviad~gltLgdLig~l~~ff~~ 383 (483)
T KOG2784|consen 322 MLYR--LAKKGFKPAKYFSIDRVFRNETV-DATHLAEFHQVEGVIADKGLTLGDLIGILMEFFTK 383 (483)
T ss_pred HHHH--HHhCCCCcccccchhhhhhcccc-chHHHHHHhhhceeeecCCCcHHHHHHHHHHHHhc
Confidence 5554 224566 589999999999996 8999999999998766432 266788877777654
No 102
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=96.65 E-value=0.02 Score=48.10 Aligned_cols=76 Identities=13% Similarity=0.249 Sum_probs=59.8
Q ss_pred CCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHH--hcCCCCceEEEEEEEecCCccCCCCce
Q 013856 104 DQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFV--RSLSNESIVDVIGVVSVPDVEIKGATQ 181 (435)
Q Consensus 104 g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~--~~l~~esiV~V~G~v~~~~~~~~~~t~ 181 (435)
-..|||.|=|.+.+.++++-+|++|+|+..+|+|++-.+.. ..+ ..+..|+-|.|.|.+..-. ..|
T Consensus 21 ~~~vwV~GEIs~~~~~~~gh~YftLkD~~a~i~~~~~~~~~-------~~i~~~~l~~G~~V~v~g~~~~y~-----~~G 88 (99)
T PF13742_consen 21 LPNVWVEGEISNLKRHSSGHVYFTLKDEEASISCVIFRSRA-------RRIRGFDLKDGDKVLVRGRVSFYE-----PRG 88 (99)
T ss_pred cCCEEEEEEEeecEECCCceEEEEEEcCCcEEEEEEEHHHH-------hhCCCCCCCCCCEEEEEEEEEEEC-----CCc
Confidence 47899999999999854467999999999999999986421 222 3689999999999987422 136
Q ss_pred eEEEEEeEEE
Q 013856 182 QVEVQIKKLY 191 (435)
Q Consensus 182 ~lEI~v~~i~ 191 (435)
.+.+.|.+|.
T Consensus 89 ~~sl~v~~i~ 98 (99)
T PF13742_consen 89 SLSLIVEDID 98 (99)
T ss_pred EEEEEEEEeE
Confidence 7999988774
No 103
>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=96.60 E-value=0.019 Score=45.57 Aligned_cols=73 Identities=23% Similarity=0.309 Sum_probs=55.2
Q ss_pred EEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEEE
Q 013856 107 VLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQ 186 (435)
Q Consensus 107 V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~ 186 (435)
|+|.|=|-+.+..|.. +|+.|+|+++.|.|++-.... ......+..||-|.|.|.+.. ..|.+.|.
T Consensus 1 v~v~GeVs~~~~~~GH-vyfsLkD~~a~i~cv~f~~~~------~~~~~~l~~Gd~V~v~G~v~~-------~~G~~ql~ 66 (73)
T cd04487 1 VHIEGEVVQIKQTSGP-TIFTLRDETGTVWAAAFEEAG------VRAYPEVEVGDIVRVTGEVEP-------RDGQLQIE 66 (73)
T ss_pred CEEEEEEeccccCCCC-EEEEEEcCCEEEEEEEEchhc------cCCcCCCCCCCEEEEEEEEec-------CCeEEEEE
Confidence 5789999876444434 788999999999999875421 111246899999999999864 13679999
Q ss_pred EeEEEEe
Q 013856 187 IKKLYCV 193 (435)
Q Consensus 187 v~~i~vl 193 (435)
+.++.+|
T Consensus 67 v~~i~~~ 73 (73)
T cd04487 67 VESLEVL 73 (73)
T ss_pred EeeEEEC
Confidence 9999875
No 104
>PLN02320 seryl-tRNA synthetase
Probab=96.52 E-value=0.0044 Score=66.11 Aligned_cols=118 Identities=18% Similarity=0.278 Sum_probs=75.0
Q ss_pred HHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC-CC-Cc-------ceeeeccCCCceeeccChH-----HHHhhhcc-
Q 013856 247 IFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS-EG-GS-------AVFRLDYKGQSACLAQSPQ-----LHKQMSIC- 311 (435)
Q Consensus 247 i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~-eg-ga-------~~F~~~~~~~~~~L~~Spq-----l~lq~li~- 311 (435)
..++..++++++++++..+||.||.||.|..... +| |- ..|.++ +.++||.-..| +|....+.
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 AVLLEMALVNWTLSEVMKKGFTPLTTPEIVRSSVVEKCGFQPRGDNTQVYSID--GSDQCLIGTAEIPVGGIHMDSILLE 309 (502)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEEEECCccchHHHHHhcCCCcccccCceeEEC--CCceEEeecccccccccccccccCH
Confidence 4456678999999999999999999999976542 22 21 123332 46677742222 33332221
Q ss_pred CCC-ceeEEEecceecCcCC-C-----CccccchhhheeeecccccHHHHHHHHHHHHHHHhHH
Q 013856 312 GDF-GRVFETGPVFRAEDSY-T-----HRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDS 368 (435)
Q Consensus 312 ~g~-~rVfeIgp~FR~E~s~-t-----~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~ 368 (435)
..+ =|++++|+|||.|.+. + .--.-+|+..|... |+. -++..+..++|+..+..-
T Consensus 310 ~dLPlRy~~~s~cFR~EAgs~G~d~rGL~RvhQF~KvE~~i-f~~-peqs~~e~e~ll~~~e~i 371 (502)
T PLN02320 310 SALPLKYVAFSHCFRTEAGAAGAATRGLYRVHQFSKVEMFV-ICR-PEESESFHEELIQIEEDL 371 (502)
T ss_pred hhCCceeEEeccccccccccCCCcCCCceeeeeeecccEEE-EEC-HHHHHHHHHHHHHHHHHH
Confidence 122 3899999999999651 1 11234899999854 443 577777777777655443
No 105
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=96.34 E-value=0.0042 Score=66.28 Aligned_cols=88 Identities=19% Similarity=0.293 Sum_probs=66.6
Q ss_pred eeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856 92 WTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV 171 (435)
Q Consensus 92 ~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~ 171 (435)
++.+.+|++ +.|++|.|+|-|..++..+ .-.-+.|+|+++.++|-+..... + .-...+..|++|.|+|.|..
T Consensus 202 r~~i~~id~-~ig~tV~I~GeV~qikqT~-GPTVFtltDetg~i~aAAFe~aG-v-----RAyP~IevGdiV~ViG~V~~ 273 (715)
T COG1107 202 RTLIDDLDE-MIGKTVRIEGEVTQIKQTS-GPTVFTLTDETGAIWAAAFEEAG-V-----RAYPEIEVGDIVEVIGEVTR 273 (715)
T ss_pred cccHHHHHh-hcCceEEEEEEEEEEEEcC-CCEEEEEecCCCceehhhhccCC-c-----ccCCCCCCCceEEEEEEEee
Confidence 355777766 9999999999999999987 44556999999999999875432 1 22357999999999999975
Q ss_pred CCccCCCCceeEEEEEeEEEEee
Q 013856 172 PDVEIKGATQQVEVQIKKLYCVS 194 (435)
Q Consensus 172 ~~~~~~~~t~~lEI~v~~i~vls 194 (435)
.. |.+-|.+..++.|.
T Consensus 274 r~-------g~lQiE~~~me~L~ 289 (715)
T COG1107 274 RD-------GRLQIEIEAMEKLT 289 (715)
T ss_pred cC-------CcEEEeehhhHHhh
Confidence 32 45556666666654
No 106
>COG0442 ProS Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=96.24 E-value=0.0098 Score=63.57 Aligned_cols=117 Identities=18% Similarity=0.195 Sum_probs=86.6
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC-------CCC-Ccceeeecc-CCCceeeccChHHHHhhhc----cC
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS-------SEG-GSAVFRLDY-KGQSACLAQSPQLHKQMSI----CG 312 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~-------~eg-ga~~F~~~~-~~~~~~L~~Spql~lq~li----~~ 312 (435)
--++++.+|.+.+|+-|++.|..||.-|+|+++. .+| |.++|.+.. -++++.|+-..|=-.--++ -+
T Consensus 45 ~g~rv~~kI~~iir~em~~~G~~Evl~P~L~p~eLwkEs~r~~~f~~El~~v~drg~~~l~L~PTsEe~it~~~~~~i~S 124 (500)
T COG0442 45 LGLRVLEKIENIIREEMDKIGAQEVLFPTLIPAELWKESGRWEGFGPELFRVKDRGDRPLALRPTSEEVITDMFRKWIRS 124 (500)
T ss_pred cHHHHHHHHHHHHHHHHHhcCceEEechhcCHHHHHHHhChhhhcchhhEEEEccCCceeeeCCCcHHHHHHHHHHHhhh
Confidence 3578899999999999999999999999999843 133 566788744 5788999866653221111 11
Q ss_pred --CC-ceeEEEecceecCcC--CCCccccchhhheeeecccccHHHHHHHHHHHHH
Q 013856 313 --DF-GRVFETGPVFRAEDS--YTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFV 363 (435)
Q Consensus 313 --g~-~rVfeIgp~FR~E~s--~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~ 363 (435)
+| =++|+|..+||.|-- ...--.-||+|=|.|-.+.+ .+++....+.++.
T Consensus 125 YkdLPl~lYQi~~kfRdE~rpr~gllR~REF~mkdaySfh~~-~e~a~~~y~~~~~ 179 (500)
T COG0442 125 YKDLPLKLYQIQSKFRDEKRPRFGLLRGREFLMKDAYSFHAD-EEDAEETYEKMLD 179 (500)
T ss_pred hhhCCcceeeeeeEEeccccCCCCccchheeeecccccccCC-HHHHHHHHHHHHH
Confidence 22 279999999999972 12224579999999999987 8888887777664
No 107
>PRK12294 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=96.21 E-value=0.033 Score=55.22 Aligned_cols=96 Identities=13% Similarity=0.068 Sum_probs=64.2
Q ss_pred hhhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--CCCcc----eee-e-ccCCCceeec--cChHHHHhhhc-cC
Q 013856 244 NQGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--EGGSA----VFR-L-DYKGQSACLA--QSPQLHKQMSI-CG 312 (435)
Q Consensus 244 ~~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--egga~----~F~-~-~~~~~~~~L~--~Spql~lq~li-~~ 312 (435)
++.-+..+..|.+.+++.|...||-+|+||++-.... .++.. .|. + +.-|+.+-|| ..|++-.-.+. ..
T Consensus 3 ~~~~~~~~~~ie~~l~~~f~~~GY~~I~tP~~E~~d~~~~~~~~~~~~~~~~~~~~~Gr~laLRpD~T~~iAR~~a~~~~ 82 (272)
T PRK12294 3 NSEQLIALKESETAFLKYFNKADYELVDFSVIEKLDWKQLNHEDLQQMGERSFWQHEHQIYALRNDFTDQLLRYYSMYPT 82 (272)
T ss_pred cHHHHHHHHHHHHHHHHHHHHcCCeEeeCCcchhHHhhhccccchhhhheeeeecCCCCEEEEcCCCCHHHHHHHHhcCC
Confidence 3445566788899999999999999999999943322 12211 222 2 2246777777 55665552111 12
Q ss_pred CCceeEEEecceecCcCCCCccccchhhheeeecc
Q 013856 313 DFGRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEI 347 (435)
Q Consensus 313 g~~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~ 347 (435)
+..|.|.+|+|||++. +|+|+-+|.-.
T Consensus 83 ~~~Rl~Y~g~VfR~~~--------~~~Q~GvEliG 109 (272)
T PRK12294 83 AATKVAYAGLIIRNNE--------AAVQVGIENYA 109 (272)
T ss_pred CCceEEEeccEeccCC--------CcceeceEEEC
Confidence 4569999999999875 37888888766
No 108
>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=96.17 E-value=0.0063 Score=64.02 Aligned_cols=51 Identities=14% Similarity=0.242 Sum_probs=43.3
Q ss_pred ceeEEEecceecCcCCCCccccchhhheeeecccc-cHHHHHHHHHHHHHHH
Q 013856 315 GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK-HYSEVMDIVDCLFVTI 365 (435)
Q Consensus 315 ~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~-~~~d~m~~~e~l~~~i 365 (435)
-|+|+||+|||+|...+.+|+++|.++|.-++..+ ++.|++.+++.|++.+
T Consensus 208 iRIFsIGRVfRrD~~~DaTHl~eFhQlEGLVVdedVSf~DLKgvLe~LLr~L 259 (533)
T TIGR00470 208 LKLFSIDRCFRREQREDRSHLMTYHSASCVVVDEEVSVDDGKAVAEGLLAQF 259 (533)
T ss_pred eEEEeeeeEEecCCCCCCccCceeeeEEEEEECCCCCHHHHHHHHHHHHHHh
Confidence 59999999999996447799999999998665532 4789999999999887
No 109
>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=96.15 E-value=0.057 Score=42.18 Aligned_cols=72 Identities=17% Similarity=0.333 Sum_probs=50.6
Q ss_pred EEEEEeeec----cCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEE
Q 013856 109 IRGRVHTTR----PVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVE 184 (435)
Q Consensus 109 v~GrV~~~R----~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lE 184 (435)
|.|.|.+++ ..|+.++|+.|.|+++.+.+++... ...+....+..|..|.|.|.+..-. +..+
T Consensus 2 i~g~v~~~~~~~~k~g~~~~~~~l~D~tg~~~~~~f~~------~~~~~~~~l~~g~~v~v~G~v~~~~-------~~~~ 68 (84)
T cd04485 2 VAGLVTSVRRRRTKKGKRMAFVTLEDLTGSIEVVVFPE------TYEKYRDLLKEDALLLVEGKVERRD-------GGLR 68 (84)
T ss_pred EEEEEEEeEEEEcCCCCEEEEEEEEeCCCeEEEEECHH------HHHHHHHHhcCCCEEEEEEEEEecC-------CceE
Confidence 455554432 3465689999999999999998842 1223456799999999999986421 3477
Q ss_pred EEEeEEEEe
Q 013856 185 VQIKKLYCV 193 (435)
Q Consensus 185 I~v~~i~vl 193 (435)
+.+.++..+
T Consensus 69 l~~~~i~~~ 77 (84)
T cd04485 69 LIAERIEDL 77 (84)
T ss_pred EEeeccccH
Confidence 887776554
No 110
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=96.07 E-value=0.038 Score=58.60 Aligned_cols=86 Identities=15% Similarity=0.199 Sum_probs=63.5
Q ss_pred EeccccCCCCCCEEEEEEEEeeecc----CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEE
Q 013856 94 EVGALNGSLKDQEVLIRGRVHTTRP----VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVV 169 (435)
Q Consensus 94 ~i~~l~~~~~g~~V~v~GrV~~~R~----~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v 169 (435)
.+.++.....|+.|+|.|.|.++|. .|+.|+|+.|.|.++.+.+++..+ ..-++...|..+.+|.|+|.+
T Consensus 270 ~~~~l~~~~~~~~v~vaG~I~~ik~~~TKkG~~maf~~leD~tG~ie~vvFp~------~y~~~~~~l~~~~~v~v~G~v 343 (449)
T PRK07373 270 NLSELEEQKEKTKVSAVVMLNEVKKIVTKKGDPMAFLQLEDLSGQSEAVVFPK------SYERISELLQVDARLIIWGKV 343 (449)
T ss_pred CHHHHhcccCCCEEEEEEEEEEeEecccCCCCEEEEEEEEECCCCEEEEECHH------HHHHHHHHhccCCEEEEEEEE
Confidence 3444443345789999999999874 366799999999999999999843 233455679999999999999
Q ss_pred ecCCccCCCCceeEEEEEeEEEE
Q 013856 170 SVPDVEIKGATQQVEVQIKKLYC 192 (435)
Q Consensus 170 ~~~~~~~~~~t~~lEI~v~~i~v 192 (435)
...+ +.+.|.+.+|.-
T Consensus 344 ~~~~-------~~~~liv~~i~~ 359 (449)
T PRK07373 344 DRRD-------DQVQLIVEDAEP 359 (449)
T ss_pred EecC-------CeEEEEEeEeec
Confidence 6421 246677766643
No 111
>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=95.88 E-value=0.13 Score=38.45 Aligned_cols=69 Identities=13% Similarity=0.174 Sum_probs=50.9
Q ss_pred EEEEEeeeccCC--CceEEEEEEeCC-eEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEE
Q 013856 109 IRGRVHTTRPVG--NKLAFVVVRERV-STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEV 185 (435)
Q Consensus 109 v~GrV~~~R~~G--~kl~Fl~Lrd~~-~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI 185 (435)
|.|.|.+++... +.++++.|.|++ +.+.|++..+ ....+...+..|++|.|.|.+... .+...+
T Consensus 2 v~g~v~~~~~~~~~~~~~~~~l~D~~~~~i~~~~~~~------~~~~~~~~~~~g~~v~v~g~v~~~-------~~~~~l 68 (75)
T cd03524 2 IVGIVVAVEEIRTEGKVLIFTLTDGTGGTIRVTLFGE------LAEELENLLKEGQVVYIKGKVKKF-------RGRLQL 68 (75)
T ss_pred eEEEEEeecccccCCeEEEEEEEcCCCCEEEEEEEch------HHHHHHhhccCCCEEEEEEEEEec-------CCeEEE
Confidence 678888887654 578999999999 9999999853 122344679999999999998642 134666
Q ss_pred EEeEE
Q 013856 186 QIKKL 190 (435)
Q Consensus 186 ~v~~i 190 (435)
.+.++
T Consensus 69 ~~~~~ 73 (75)
T cd03524 69 IVESI 73 (75)
T ss_pred Eeeee
Confidence 66543
No 112
>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=95.87 E-value=0.096 Score=42.97 Aligned_cols=78 Identities=13% Similarity=0.164 Sum_probs=57.5
Q ss_pred EEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEEE
Q 013856 107 VLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQ 186 (435)
Q Consensus 107 V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~ 186 (435)
|++-|+|.++...+..+. +.|.|++|+|-|.+-......+ ......+..|++|.|.|.+..-. +...|.
T Consensus 2 v~~vG~V~~~~~~~~~~~-~tL~D~TG~I~~~~W~~~~~~~---~~~~~~~~~g~~v~v~G~v~~~~-------g~~ql~ 70 (95)
T cd04478 2 VTLVGVVRNVEEQSTNIT-YTIDDGTGTIEVRQWLDDDNDD---SSEVEPIEEGTYVRVFGNLKSFQ-------GKKSIM 70 (95)
T ss_pred EEEEEEEEeeeEcccEEE-EEEECCCCcEEEEEeCCCCCcc---cccccccccCCEEEEEEEEcccC-------CeeEEE
Confidence 789999999999886655 5899999999999875432100 01235799999999999986421 457788
Q ss_pred EeEEEEeec
Q 013856 187 IKKLYCVSR 195 (435)
Q Consensus 187 v~~i~vls~ 195 (435)
+..+..+..
T Consensus 71 i~~i~~v~d 79 (95)
T cd04478 71 AFSIRPVTD 79 (95)
T ss_pred EEEEEEeCC
Confidence 888877654
No 113
>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=95.82 E-value=0.039 Score=58.97 Aligned_cols=117 Identities=16% Similarity=0.083 Sum_probs=76.7
Q ss_pred hHHHHHHHHHHHHHHHhh-cCCeeeecCceeeecCCC---C----Cc-ceeeeccC------------------------
Q 013856 246 GIFRIQSQVGNIFRQFLL-SENFVEIHTPKLIAGSSE---G----GS-AVFRLDYK------------------------ 292 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~-~~gF~EV~TP~l~~~~~e---g----ga-~~F~~~~~------------------------ 292 (435)
..+++..++.+.+++++. +.||.||.+|.|++...- | -. +.|.|..-
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 556778888888876664 569999999999875421 1 11 13444210
Q ss_pred -----C-CceeeccChHHHHhhhcc------CCC-ceeEEEe-cceecCcC--CCCccccchhhheeeecccccHHHHHH
Q 013856 293 -----G-QSACLAQSPQLHKQMSIC------GDF-GRVFETG-PVFRAEDS--YTHRHLCEFTGLDVEMEIKKHYSEVMD 356 (435)
Q Consensus 293 -----~-~~~~L~~Spql~lq~li~------~g~-~rVfeIg-p~FR~E~s--~t~rHl~EFt~lE~e~a~~~~~~d~m~ 356 (435)
. ..++|+-+.+..+=.+.. .++ -++|++. +|||.|.. ++..=+-||.|.|+-. +.+ .++..+
T Consensus 301 L~~~le~~~~vL~PTSE~ply~~~a~~Ils~~dLPlk~~~~s~~CFR~EaGstrGL~RvhEF~kvE~v~-~~t-pEea~e 378 (520)
T TIGR00415 301 LKNGIKDPGYVIAPAQCEPFYQFFEGEVIDAEDKPIKFFDRSGWTYRWEAGGAKGLDRVHEFLRVECVW-IAE-PEETEE 378 (520)
T ss_pred ccccccCCceEEeCccHHHHHHHHhccccChhhCCeeEEEEecCeEeCCCCCCCCCceeeEEEEEEEEE-EeC-HHHHHH
Confidence 1 156687776655532222 233 3788945 79999983 3444456999999977 665 788888
Q ss_pred HHHHHHHH
Q 013856 357 IVDCLFVT 364 (435)
Q Consensus 357 ~~e~l~~~ 364 (435)
..++++..
T Consensus 379 ~~e~mle~ 386 (520)
T TIGR00415 379 IRDKTLEL 386 (520)
T ss_pred HHHHHHHH
Confidence 88887754
No 114
>PRK00960 seryl-tRNA synthetase; Provisional
Probab=95.77 E-value=0.016 Score=62.24 Aligned_cols=116 Identities=15% Similarity=0.133 Sum_probs=72.0
Q ss_pred hHHHHHHHHHHHHHHHh-hcCCeeeecCceeeecCC---CCC-----cceeeeccCC--Cc------eeecc--------
Q 013856 246 GIFRIQSQVGNIFRQFL-LSENFVEIHTPKLIAGSS---EGG-----SAVFRLDYKG--QS------ACLAQ-------- 300 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl-~~~gF~EV~TP~l~~~~~---egg-----a~~F~~~~~~--~~------~~L~~-------- 300 (435)
.-.++...+.+++++.+ ...||.||-||.|.+... .|- .+.|.+.-++ .+ .||..
T Consensus 221 ~Ga~L~~aL~~~i~d~~~~k~Gyeev~~P~Li~~ell~ksGhl~~F~e~my~V~~~~~d~e~~~~~~~~l~~T~Evpl~~ 300 (517)
T PRK00960 221 PMTKLFRAFEKLVIEEVLKPLGFDECLFPKLIPLEVMYKMRYLEGLPEGMYYVCPPKRDPEYFEEFVDEMMVKKEVPIEK 300 (517)
T ss_pred hHHHHHHHHHHHHHHhhHhhcCCeEEECCcccCHHHHhhcCCccCChhhceEeeccccccccccchhhhccccccccccc
Confidence 45678888999998874 556999999999987431 111 1135443211 00 23221
Q ss_pred --------------C--h---HHHHhhhccCCCc---eeEE-EecceecCc--CCCCccccchhhheeeecccccHHHHH
Q 013856 301 --------------S--P---QLHKQMSICGDFG---RVFE-TGPVFRAED--SYTHRHLCEFTGLDVEMEIKKHYSEVM 355 (435)
Q Consensus 301 --------------S--p---ql~lq~li~~g~~---rVfe-Igp~FR~E~--s~t~rHl~EFt~lE~e~a~~~~~~d~m 355 (435)
+ | .+|.... ...-+ |+|+ .|+|||+|. .++..=.-||+|.|.- .|+. .+++.
T Consensus 301 ~~~~L~~~~yvLrPa~Cp~~y~~~~~~i-ls~rdLPLrl~e~sG~cFR~EsGs~~GL~RV~eF~kvE~h-~f~t-pEqs~ 377 (517)
T PRK00960 301 LKEKLRDPGYVLAPAQCEPFYQFFQGET-VDVDELPIKFFDRSGWTYRWEGGGAHGLERVNEFHRIEIV-WLGT-PEQVE 377 (517)
T ss_pred cccccccccccccccCcHHHHHHHhCCc-CChhhCCHHHhhccCCceeCCCCCCCCCcccceeEEEEEE-EEeC-HHHHH
Confidence 1 1 1222222 22222 7899 669999996 2333345699999997 6765 78899
Q ss_pred HHHHHHHHH
Q 013856 356 DIVDCLFVT 364 (435)
Q Consensus 356 ~~~e~l~~~ 364 (435)
+..++++.+
T Consensus 378 ee~e~ll~~ 386 (517)
T PRK00960 378 EIRDELLKY 386 (517)
T ss_pred HHHHHHHHH
Confidence 988888844
No 115
>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=95.62 E-value=0.082 Score=43.71 Aligned_cols=74 Identities=22% Similarity=0.311 Sum_probs=54.0
Q ss_pred EEEEEEEeeecc--CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEE
Q 013856 107 VLIRGRVHTTRP--VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVE 184 (435)
Q Consensus 107 V~v~GrV~~~R~--~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lE 184 (435)
++|.|.|.+.+. .|.. +|+.|.|+++.|.|++..... .+-.....|..||.|.|.|.+..- + .
T Consensus 1 ~~v~GeVs~~~~~~~sGH-~yFtlkD~~~~i~cv~f~~~g----~~~~~~~~l~~Gd~V~v~G~v~~y---------~-q 65 (91)
T cd04482 1 YRVTGKVVEEPRTIEGGH-VFFKISDGTGEIDCAAYEPTK----EFRDVVRLLIPGDEVTVYGSVRPG---------T-T 65 (91)
T ss_pred CEEEEEEeCCeecCCCCC-EEEEEECCCcEEEEEEECccc----ccccccCCCCCCCEEEEEEEEecC---------C-E
Confidence 379999998754 3425 788999999999999886431 111234579999999999988532 1 5
Q ss_pred EEEeEEEEeec
Q 013856 185 VQIKKLYCVSR 195 (435)
Q Consensus 185 I~v~~i~vls~ 195 (435)
|.++++.+++-
T Consensus 66 l~ve~l~~~gl 76 (91)
T cd04482 66 LNLEKLRVIRL 76 (91)
T ss_pred EEEEEEEECCC
Confidence 88888887654
No 116
>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=95.24 E-value=0.42 Score=37.45 Aligned_cols=64 Identities=13% Similarity=0.197 Sum_probs=48.1
Q ss_pred cCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeec
Q 013856 118 PVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSR 195 (435)
Q Consensus 118 ~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~ 195 (435)
..|+.++++.|.|+++.+.+++..... .....+..|.+|.|.|.+..- .+..+|.+.++..+..
T Consensus 15 k~g~~~~~~~l~D~tg~i~~~~f~~~~-------~~~~~l~~g~~v~v~G~v~~~-------~~~~~l~~~~i~~l~~ 78 (83)
T cd04492 15 KNGKPYLALTLQDKTGEIEAKLWDASE-------EDEEKFKPGDIVHVKGRVEEY-------RGRLQLKIQRIRLVTE 78 (83)
T ss_pred cCCCcEEEEEEEcCCCeEEEEEcCCCh-------hhHhhCCCCCEEEEEEEEEEe-------CCceeEEEEEEEECCc
Confidence 346679999999999999999974311 224679999999999999641 1347888888876643
No 117
>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=94.98 E-value=0.25 Score=41.72 Aligned_cols=86 Identities=14% Similarity=0.130 Sum_probs=58.9
Q ss_pred eccccCCCCCCEEEEEEEEee---ecc------CCCceEEEEEEeC-CeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEE
Q 013856 95 VGALNGSLKDQEVLIRGRVHT---TRP------VGNKLAFVVVRER-VSTVQCLATVKPDSVSKEMVRFVRSLSNESIVD 164 (435)
Q Consensus 95 i~~l~~~~~g~~V~v~GrV~~---~R~------~G~kl~Fl~Lrd~-~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~ 164 (435)
|.+|.+.. ..++|+|||.+ +|. .| ++.-++|+|. ++.|+|.+-.. ...+|...|..|+++.
T Consensus 2 I~~L~p~~--~~~~I~~rV~~k~~~~~f~~~~~~g-~~~~~~l~De~~~~I~~t~~~~------~~~~f~~~l~eG~vy~ 72 (104)
T cd04474 2 ISSLNPYQ--NKWTIKARVTNKSDIRTWSNARGEG-KLFSFDLLDEDGGEIRATFFND------AVDKFYDLLEVGKVYY 72 (104)
T ss_pred hhHccCCC--CcEEEEEEEeeccccccccCCCCCc-EEEEEEEEECCCCEEEEEEehH------HHHHhhcccccccEEE
Confidence 34555433 35889999974 332 25 7788999999 89999999742 2345777899999999
Q ss_pred EEEEEecCCcc-CCCCceeEEEEEeE
Q 013856 165 VIGVVSVPDVE-IKGATQQVEVQIKK 189 (435)
Q Consensus 165 V~G~v~~~~~~-~~~~t~~lEI~v~~ 189 (435)
|.|--+++..+ -+....++||....
T Consensus 73 i~~~~V~~a~~~y~~~~~~yeI~f~~ 98 (104)
T cd04474 73 ISKGSVKVANKKFNTLKNDYEITFNR 98 (104)
T ss_pred EeccEEeeccccCCCCCCcEEEEECC
Confidence 99865554422 23333568887764
No 118
>KOG2324 consensus Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=94.96 E-value=0.056 Score=54.99 Aligned_cols=109 Identities=22% Similarity=0.288 Sum_probs=73.6
Q ss_pred HHHHHHHHHHHHHHHhhcCCeeeecCceeeecC----C---C-CCcceeee-ccCCCceeeccChHHHHhhhccCCC---
Q 013856 247 IFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS----S---E-GGSAVFRL-DYKGQSACLAQSPQLHKQMSICGDF--- 314 (435)
Q Consensus 247 i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~----~---e-gga~~F~~-~~~~~~~~L~~Spql~lq~li~~g~--- 314 (435)
-+|...++++.++.-|++-|-.+|.-|+|.+.. + + -|++.|.+ |--|+.++|+-.-|=-.-.+|+.-.
T Consensus 51 g~R~~~K~~~~l~~~mqs~Ga~kIslp~ls~~~LWekTgRw~~~gsEl~rl~Dr~gkq~cL~pThEE~iT~lmat~~~ls 130 (457)
T KOG2324|consen 51 GLRVLNKLCRLLDNEMQSGGAQKISLPILSSKELWEKTGRWDAMGSELFRLHDRKGKQMCLTPTHEEDITALMATYIPLS 130 (457)
T ss_pred hHHHHHHHHHHHHHHHHhccCeeEeecccChHHHHHhcCcccccchhheEeeccCCCEeccCCchHHHHHHHHHhcCccc
Confidence 356778899999999999999999999997643 1 2 26788988 4477888887544433322222211
Q ss_pred -----ceeEEEecceecCcC--CCCccccchhhheeeecccccHHHHHH
Q 013856 315 -----GRVFETGPVFRAEDS--YTHRHLCEFTGLDVEMEIKKHYSEVMD 356 (435)
Q Consensus 315 -----~rVfeIgp~FR~E~s--~t~rHl~EFt~lE~e~a~~~~~~d~m~ 356 (435)
=+||+||+-||+|-- .+.----||.|=|+|- |..+-++.|.
T Consensus 131 ykqlPi~vYQigrKfRDElrpRfGLlRgREFlMKDmYs-Fd~~~etA~q 178 (457)
T KOG2324|consen 131 YKQLPIRVYQIGRKFRDELRPRFGLLRGREFLMKDMYS-FDSDEETAQQ 178 (457)
T ss_pred cccCcEEeeeechhhhhccCccccchhhHHHHHhhhhc-ccCCHHHHHH
Confidence 279999999999951 1222336999999985 3333444443
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=94.77 E-value=0.38 Score=39.84 Aligned_cols=76 Identities=17% Similarity=0.192 Sum_probs=52.1
Q ss_pred EEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCC-------------HHH-HHHHhcCCCCceEEEEEEEecCCc
Q 013856 109 IRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVS-------------KEM-VRFVRSLSNESIVDVIGVVSVPDV 174 (435)
Q Consensus 109 v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~-------------~~~-~~~~~~l~~esiV~V~G~v~~~~~ 174 (435)
|-|+|.+++..... .-+.|.|++|.|-|++=......+ ..| .+....+..|++|.|.|.+..-.
T Consensus 2 ivG~V~sv~~~~~~-~~~tLdDgTG~Ie~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~G~vvrV~G~i~~fr- 79 (92)
T cd04483 2 ILGTVVSRRERETF-YSFGVDDGTGVVNCVCWKNLSYAEVSSRSDAARILKSALMALKQAKVLEIGDLLRVRGSIRTYR- 79 (92)
T ss_pred eEEEEEEEEecCCe-EEEEEecCCceEEEEEEcCcCcccccccccccccccccccccccccccCCCCEEEEEEEEeccC-
Confidence 67999999988745 456899999999999865422000 001 02345699999999999996421
Q ss_pred cCCCCceeEEEEEeEEEE
Q 013856 175 EIKGATQQVEVQIKKLYC 192 (435)
Q Consensus 175 ~~~~~t~~lEI~v~~i~v 192 (435)
+...|.++.++.
T Consensus 80 ------g~~ql~i~~~~~ 91 (92)
T cd04483 80 ------GEREINASVVYK 91 (92)
T ss_pred ------CeeEEEEEEEEe
Confidence 456677776653
No 120
>KOG1936 consensus Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=94.76 E-value=0.2 Score=52.22 Aligned_cols=102 Identities=15% Similarity=0.226 Sum_probs=65.0
Q ss_pred hhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecC-CCC--Ccc---eeeeccCC-C----ceeeccChHHHHhhhccCC
Q 013856 245 QGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGS-SEG--GSA---VFRLDYKG-Q----SACLAQSPQLHKQMSICGD 313 (435)
Q Consensus 245 ~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~-~eg--ga~---~F~~~~~~-~----~~~L~~Spql~lq~li~~g 313 (435)
-.-+.+|..|++.|++-|..+|...|+||..---. .-| |-+ .+-+..-| . .+=|+++=-=|+-|==+..
T Consensus 71 p~qm~lRe~if~~i~~vFkrhGa~~iDTPVFElkeiL~gKYGEdskLiYdlkDQGGEl~SLRYDLTVPfARylAmNki~s 150 (518)
T KOG1936|consen 71 PEQMALREKIFSTIKEVFKRHGAETIDTPVFELKEILTGKYGEDSKLIYDLKDQGGELCSLRYDLTVPFARYLAMNKITS 150 (518)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCeeccccchhHHHHHhhhcccccceeEehhhcCCcEEEeecccccHHHHHHHHccccc
Confidence 35678899999999999999999999999862211 001 222 22222122 1 2224444444544321222
Q ss_pred CceeEEEecceecCc-CCCCccccchhhheeeecc
Q 013856 314 FGRVFETGPVFRAED-SYTHRHLCEFTGLDVEMEI 347 (435)
Q Consensus 314 ~~rVfeIgp~FR~E~-s~t~rHl~EFt~lE~e~a~ 347 (435)
+ +-|.|+++||-.. ..|.--.-||.||||-+|.
T Consensus 151 i-kRy~iAkVyRRd~P~mtrGR~REFYQcDFDIAG 184 (518)
T KOG1936|consen 151 I-KRYHIAKVYRRDQPAMTRGRYREFYQCDFDIAG 184 (518)
T ss_pred c-eeeeEEEEEeccCchhhchhhhhhhccCccccc
Confidence 3 4599999999876 3455567899999998886
No 121
>COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=94.70 E-value=0.11 Score=54.58 Aligned_cols=114 Identities=15% Similarity=0.226 Sum_probs=69.6
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCCCCCcc--------eeeeccCCCceeeccChHHHH-----hhhcc-
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSA--------VFRLDYKGQSACLAQSPQLHK-----QMSIC- 311 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~--------~F~~~~~~~~~~L~~Spql~l-----q~li~- 311 (435)
.+.++--++++++=++..++||.|+.+|.|+...+.-|.. .|.+. +.++||.-.-+.-+ ...+-
T Consensus 172 ~~a~L~rAL~~f~ld~~~~~Gf~e~~~P~lv~~e~m~gtgqlpkf~e~~y~v~--~~~~~LipTaEvpl~~l~~~Eil~~ 249 (429)
T COG0172 172 KGARLERALIQFMLDLHTKHGFTEVLPPYLVNLESMFGTGQLPKFEEDLYKVE--DPDLYLIPTAEVPLTNLHRDEILDE 249 (429)
T ss_pred HHHHHHHHHHHHHHHHHHHcCceEeeCceeecHHHhhccCCCCCCcccceEec--CCCEEEEecchhhhHHhhccccccc
Confidence 4556667788888888889999999999998755433322 23332 23678876654433 33232
Q ss_pred CCC-ceeEEEecceecCcCCC---C---ccccchhhheeeecccccHHHHHHHHHHHHH
Q 013856 312 GDF-GRVFETGPVFRAEDSYT---H---RHLCEFTGLDVEMEIKKHYSEVMDIVDCLFV 363 (435)
Q Consensus 312 ~g~-~rVfeIgp~FR~E~s~t---~---rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~ 363 (435)
..+ -+.+-.+||||.|.+.. . .-.-+|..+|.- .|+. -++-....|+|+.
T Consensus 250 ~~LP~k~~~~S~cFR~EAGs~GrdtrGliRvHQF~KVE~v-~~~~-Pe~S~~~~E~m~~ 306 (429)
T COG0172 250 EDLPIKYTAYSPCFRSEAGSAGKDTRGLIRVHQFDKVELV-VITK-PEESEEELEEMLG 306 (429)
T ss_pred ccCCeeeEEEChhhhcccccccccccceeeeeeeeeEEEE-EEeC-cchhHHHHHHHHH
Confidence 223 36777899999996421 1 123489998863 2332 4444444455544
No 122
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=94.60 E-value=0.17 Score=59.48 Aligned_cols=87 Identities=14% Similarity=0.208 Sum_probs=63.5
Q ss_pred EeccccCCCCCCEEEEEEEEeeecc----CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEE
Q 013856 94 EVGALNGSLKDQEVLIRGRVHTTRP----VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVV 169 (435)
Q Consensus 94 ~i~~l~~~~~g~~V~v~GrV~~~R~----~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v 169 (435)
.+.++.....|..|+|.|.|.++|. .|+.|+|+.|.|.++.+.+++... ...++...|..|.+|.|+|.|
T Consensus 990 ~~~~l~~~~~~~~v~v~g~i~~~k~~~Tk~G~~maf~~leD~tg~~e~vvFp~------~y~~~~~~l~~~~~~~v~g~v 1063 (1170)
T PRK07374 990 SLSSLEEQPDKAKVSAIAMIPEMKQVTTRKGDRMAILQLEDLTGSCEAVVFPK------SYERLSDHLMTDTRLLVWAKV 1063 (1170)
T ss_pred CHHHHhcccCCCEEEEEEEEEEeEecccCCCCEEEEEEEEECCCCEEEEECHH------HHHHHHHHhccCCEEEEEEEE
Confidence 3444433345889999999999864 366799999999999999999853 233445679999999999999
Q ss_pred ecCCccCCCCceeEEEEEeEEEEe
Q 013856 170 SVPDVEIKGATQQVEVQIKKLYCV 193 (435)
Q Consensus 170 ~~~~~~~~~~t~~lEI~v~~i~vl 193 (435)
...+ +.+.|.+.++.-+
T Consensus 1064 ~~~~-------~~~~~~~~~i~~l 1080 (1170)
T PRK07374 1064 DRRD-------DRVQLIIDDCREI 1080 (1170)
T ss_pred EecC-------CeEEEEEeeeecH
Confidence 6421 2466777666543
No 123
>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=94.58 E-value=0.22 Score=42.31 Aligned_cols=78 Identities=13% Similarity=0.224 Sum_probs=51.1
Q ss_pred EeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHH-hcCCCCceEEEEEEEecC
Q 013856 94 EVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFV-RSLSNESIVDVIGVVSVP 172 (435)
Q Consensus 94 ~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~-~~l~~esiV~V~G~v~~~ 172 (435)
.+.++.....+..|+|.|+|.+.-..- + |.++|+++.|++-++... |. ..+++++.|.|.|.|-+.
T Consensus 24 TV~~a~~~~Dd~~V~L~G~Iv~~l~~d-~---Y~F~D~TG~I~VeId~~~---------w~g~~vt~~~~Vri~GeVDk~ 90 (103)
T PF04076_consen 24 TVAQAKNAKDDTPVTLEGNIVKQLGDD-K---YLFRDATGEIEVEIDDDV---------WRGQTVTPDDKVRISGEVDKD 90 (103)
T ss_dssp -HHHHTTS-SSEEEEEEEEEEEEEETT-E---EEEEETTEEEEEE--GGG---------STT----TTSEEEEEEEEEEE
T ss_pred eHHHHhhCcCCCeEEEEEEEEEEecCC-E---EEEECCCCcEEEEEChhh---------cCCcccCCCCEEEEEEEEeCC
Confidence 444555567789999999987754322 3 689999999999987531 22 358999999999999743
Q ss_pred CccCCCCceeEEEEEeEEE
Q 013856 173 DVEIKGATQQVEVQIKKLY 191 (435)
Q Consensus 173 ~~~~~~~t~~lEI~v~~i~ 191 (435)
. ...+|.|..|.
T Consensus 91 ~-------~~~~IdV~~I~ 102 (103)
T PF04076_consen 91 W-------NKTEIDVDRIE 102 (103)
T ss_dssp T-------TEEEEEEEEEE
T ss_pred C-------CceEEEEEEEE
Confidence 2 24778777764
No 124
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=94.25 E-value=0.19 Score=59.04 Aligned_cols=88 Identities=20% Similarity=0.315 Sum_probs=65.4
Q ss_pred EeccccCCCCCCEEEEEEEEeeeccC----CCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEE
Q 013856 94 EVGALNGSLKDQEVLIRGRVHTTRPV----GNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVV 169 (435)
Q Consensus 94 ~i~~l~~~~~g~~V~v~GrV~~~R~~----G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v 169 (435)
.+.++.....|..|.+.|-|.++|.. |+.++|+.|.|.++.+.+++..+ ..-++...|..|++|.|+|.|
T Consensus 967 ~~~~l~~~~~g~~V~v~G~I~~vk~~~TKkG~~mafltLeD~TG~iEvviFp~------~ye~~~~~L~~g~iV~V~GkV 1040 (1135)
T PRK05673 967 RLADLEPTEGGSVVTVAGLVVSVRRRVTKRGNKMAIVTLEDLSGRIEVMLFSE------ALEKYRDLLEEDRIVVVKGQV 1040 (1135)
T ss_pred CHHHHhccccCceEEEEEEEEEEEecccCCCCeEEEEEEEeCCCcEEEEECHH------HHHHHHHHhccCCEEEEEEEE
Confidence 34444333458899999999998654 66799999999999999999843 233456679999999999999
Q ss_pred ecCCccCCCCceeEEEEEeEEEEee
Q 013856 170 SVPDVEIKGATQQVEVQIKKLYCVS 194 (435)
Q Consensus 170 ~~~~~~~~~~t~~lEI~v~~i~vls 194 (435)
...+ +.+.|.++++.-+.
T Consensus 1041 e~~~-------~~~qlii~~I~~L~ 1058 (1135)
T PRK05673 1041 SFDD-------GGLRLTAREVMDLE 1058 (1135)
T ss_pred EecC-------CeEEEEEeecccHH
Confidence 6421 34677777776543
No 125
>COG0423 GRS1 Glycyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=94.00 E-value=0.12 Score=55.03 Aligned_cols=29 Identities=24% Similarity=0.597 Sum_probs=25.3
Q ss_pred HHHHHHHHHHHHHhhc--CCeeeecCceeee
Q 013856 249 RIQSQVGNIFRQFLLS--ENFVEIHTPKLIA 277 (435)
Q Consensus 249 ~~rs~i~~~~R~fl~~--~gF~EV~TP~l~~ 277 (435)
.++..|.++.|++|-. .+++||+||+|.+
T Consensus 41 ~LK~nI~~~Wrk~fV~~~e~~~eIdtpii~p 71 (558)
T COG0423 41 ELKNNIKEAWRKSFVTEREDVVEIDTPIILP 71 (558)
T ss_pred HHHHHHHHHHHHHHeeccCCeEEecccccCc
Confidence 5678899999999975 5899999999976
No 126
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=93.69 E-value=0.3 Score=56.98 Aligned_cols=86 Identities=15% Similarity=0.117 Sum_probs=63.9
Q ss_pred cccCCCCCCEEEEEEEEeeeccC--CCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCc
Q 013856 97 ALNGSLKDQEVLIRGRVHTTRPV--GNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDV 174 (435)
Q Consensus 97 ~l~~~~~g~~V~v~GrV~~~R~~--G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~ 174 (435)
++.....|..|+|+|.|..++.. .++|+|+.|-|.++.+.+++..+ ..-++...|..|+++.|+|.+...
T Consensus 946 ~l~~~~~~~~v~v~g~i~~~~~~~TkkGmaf~~leD~~g~~e~~ifp~------~~~~~~~~l~~~~~~~v~g~v~~~-- 1017 (1046)
T PRK05672 946 ELLDVEDGRRVRVAGVVTHRQRPGTASGVTFLTLEDETGMVNVVVWPG------LWERQRREALGARLLLVRGRVQNA-- 1017 (1046)
T ss_pred HHhhccCCCEEEEEEEEEEEEEecCCCceEEEEEecCCCCEEEEECHH------HHHHHHHHhccCCEEEEEEEEEec--
Confidence 44433467889999999987664 33499999999999999999843 223445669999999999999642
Q ss_pred cCCCCceeEEEEEeEEEEeec
Q 013856 175 EIKGATQQVEVQIKKLYCVSR 195 (435)
Q Consensus 175 ~~~~~t~~lEI~v~~i~vls~ 195 (435)
.+.+.|.+.++.-+..
T Consensus 1018 -----~~~~~~~~~~i~~~~~ 1033 (1046)
T PRK05672 1018 -----EGVRHLVADRLEDLSP 1033 (1046)
T ss_pred -----CCeEEEEEeeeechHH
Confidence 1346788887765543
No 127
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=93.66 E-value=0.38 Score=56.41 Aligned_cols=86 Identities=15% Similarity=0.255 Sum_probs=63.3
Q ss_pred EeccccCCCCCCEEEEEEEEeeecc----CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEE
Q 013856 94 EVGALNGSLKDQEVLIRGRVHTTRP----VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVV 169 (435)
Q Consensus 94 ~i~~l~~~~~g~~V~v~GrV~~~R~----~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v 169 (435)
.+.++.. ..|..|+|.|.|.++|. .|+.|+|+.|.|.++.+.+++..+ ..-++...|..+.+|.|+|.+
T Consensus 934 ~~~~l~~-~~~~~v~v~g~i~~~~~~~tk~g~~maf~~leD~tg~~e~~vFp~------~y~~~~~~l~~~~~~~v~G~v 1006 (1107)
T PRK06920 934 SLAQAMR-HKKKVQRAIVYITSVKVIRTKKGQKMAFITFCDQNDEMEAVVFPE------TYIHFSDKLQEGAIVLVDGTI 1006 (1107)
T ss_pred CHHHHhh-cCCCEEEEEEEEEEeEeecCCCCCeEEEEEEeeCCCcEEEEECHH------HHHHHHHHhccCCEEEEEEEE
Confidence 3444432 45789999999999864 366899999999999999999843 233455679999999999999
Q ss_pred ecCCccCCCCceeEEEEEeEEEEe
Q 013856 170 SVPDVEIKGATQQVEVQIKKLYCV 193 (435)
Q Consensus 170 ~~~~~~~~~~t~~lEI~v~~i~vl 193 (435)
...+ +...|.+.++.-+
T Consensus 1007 ~~~~-------~~~~~~~~~i~~l 1023 (1107)
T PRK06920 1007 ELRN-------HKLQWIVNGLYPL 1023 (1107)
T ss_pred EecC-------CcEEEEEeecccH
Confidence 6421 3466777666443
No 128
>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=93.53 E-value=0.52 Score=41.42 Aligned_cols=79 Identities=13% Similarity=0.247 Sum_probs=57.1
Q ss_pred eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHh-cCCCCceEEEEEEEec
Q 013856 93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR-SLSNESIVDVIGVVSV 171 (435)
Q Consensus 93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~-~l~~esiV~V~G~v~~ 171 (435)
+.+.++.....+..|++.|.|...-..- . |.+||++++|.+-++.. .|.. .+++++-|.|.|.|-+
T Consensus 46 ~tV~~a~~~~Ddt~V~L~G~Iv~~l~~d-~---Y~F~D~TG~I~VeId~~---------~w~G~~v~p~d~V~I~GeVDk 112 (126)
T TIGR00156 46 MTVDFAKSMHDGASVTLRGNIISHIGDD-R---YVFRDKSGEINVVIPAA---------VWNGREVQPKDMVNISGSLDK 112 (126)
T ss_pred EeHHHHhhCCCCCEEEEEEEEEEEeCCc-e---EEEECCCCCEEEEECHH---------HcCCCcCCCCCEEEEEEEECC
Confidence 4555555567799999999998754332 2 78999999999988742 2443 5889999999999964
Q ss_pred CCccCCCCceeEEEEEeEEE
Q 013856 172 PDVEIKGATQQVEVQIKKLY 191 (435)
Q Consensus 172 ~~~~~~~~t~~lEI~v~~i~ 191 (435)
.- ...||-|..|.
T Consensus 113 ~~-------~~~~IdV~~I~ 125 (126)
T TIGR00156 113 KS-------APAEVDVTHIQ 125 (126)
T ss_pred CC-------CCeEEEEEEEE
Confidence 21 23677777664
No 129
>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=93.48 E-value=1.2 Score=35.69 Aligned_cols=57 Identities=23% Similarity=0.288 Sum_probs=44.3
Q ss_pred EEEEEEEeeecc--CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHH--HHHhcCCCCceEEEEEEEec
Q 013856 107 VLIRGRVHTTRP--VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMV--RFVRSLSNESIVDVIGVVSV 171 (435)
Q Consensus 107 V~v~GrV~~~R~--~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~--~~~~~l~~esiV~V~G~v~~ 171 (435)
|.++|-|.++|. .| +- |+.|-|.++++.+++.... .. ++...|..+.+|.|+|.+..
T Consensus 2 v~i~GiI~~v~~TK~g-~~-~~~leD~~G~~Ev~~F~~~------~~~~~~~~~l~~d~~v~v~g~v~~ 62 (79)
T cd04490 2 VSIIGMVNDVRSTKNG-HR-IVELEDTTGRITVLLTKDK------EELFEEAEDILPDEVIGVSGTVSK 62 (79)
T ss_pred EEEEEEEeEEEEcCCC-CE-EEEEECCCCEEEEEEeCch------hhhhhhhhhccCCCEEEEEEEEec
Confidence 578888888862 24 34 9999999999999998542 22 45567999999999999843
No 130
>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=93.38 E-value=0.28 Score=48.23 Aligned_cols=75 Identities=17% Similarity=0.229 Sum_probs=52.8
Q ss_pred CEEEEEEEEeeeccC----CCceEEEEEEeCCe--EEEEEEeeCCCC-CCHHHHHHHhcCCCCceEEEEEEEecCCccCC
Q 013856 105 QEVLIRGRVHTTRPV----GNKLAFVVVRERVS--TVQCLATVKPDS-VSKEMVRFVRSLSNESIVDVIGVVSVPDVEIK 177 (435)
Q Consensus 105 ~~V~v~GrV~~~R~~----G~kl~Fl~Lrd~~~--~iQvv~~~~~~~-~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~ 177 (435)
+.|.|.|.|..+.-. . +-+|+.|-|++| .|.|++..+... .+. -+..+ .|++|.|.|.+..
T Consensus 67 ~~v~i~G~Vv~~~~~~~~~~-~~~~l~iDD~Sg~~~i~~~~~~~~~~~~~l----~~~~~-~G~~V~VkG~vsr------ 134 (256)
T PF10451_consen 67 RWVRIVGVVVGIDYKWIENE-DRIILTIDDSSGANTIECKCSKSSYLSMGL----PINDL-IGKVVEVKGTVSR------ 134 (256)
T ss_dssp -EEEEEEEEEEEEEEE-BBT-CEEEEEEE-SSCS-EEEEEEEHHHHHCCCH----HCTT--TT-EEEEEEEEES------
T ss_pred EEEEEEEEEEEEEEEeeccc-ceEEEEEeCCCCceeEEEEEEcccccccCC----CccCC-CCcEEEEEEEEcc------
Confidence 578999999998754 4 568899999998 899999864210 111 12345 9999999999972
Q ss_pred CCceeEEEEEeEEEEee
Q 013856 178 GATQQVEVQIKKLYCVS 194 (435)
Q Consensus 178 ~~t~~lEI~v~~i~vls 194 (435)
+..+|.+..|.++.
T Consensus 135 ---~~~ql~ve~i~~~~ 148 (256)
T PF10451_consen 135 ---NERQLDVERIELVR 148 (256)
T ss_dssp ---SSEEEEEEEEEEET
T ss_pred ---CcEEEEEEEEEccC
Confidence 35889999988764
No 131
>PRK09616 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed
Probab=93.33 E-value=0.34 Score=52.78 Aligned_cols=112 Identities=17% Similarity=0.234 Sum_probs=71.2
Q ss_pred HHHHHHHHHHhhcCCeeeecCceeeecCC--C----CCc-ceeee-ccC-CCceeeccC--hHHHHhhhcc-CCC--cee
Q 013856 252 SQVGNIFRQFLLSENFVEIHTPKLIAGSS--E----GGS-AVFRL-DYK-GQSACLAQS--PQLHKQMSIC-GDF--GRV 317 (435)
Q Consensus 252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~~--e----gga-~~F~~-~~~-~~~~~L~~S--pql~lq~li~-~g~--~rV 317 (435)
..+.+.+|++|...||.|+-|..+++..- + ... ....+ |-. ..-.+||.| |.|..-..-- .+. -|+
T Consensus 362 ~~~~~~ir~~L~~~Gf~Ev~tys~~s~~~~~~~~~~~~~~~~i~l~NPls~e~svLRtsLlpgLL~~~~~N~~~~~~~~l 441 (552)
T PRK09616 362 EKLERAIRDLMVGLGFQEVMNFTLTSEEVLFEKMNLEPEEDYVEVLNPISEDYTVVRTSLLPSLLEFLSNNKHREYPQKI 441 (552)
T ss_pred HHHHHHHHHHHHhCCcceeccceEechHHHHHHhCCCCCCCeEEEcCCCccchheEeccchHHHHHHHHhccCCCCCeeE
Confidence 34567789999999999999999986511 1 011 12333 222 234567766 4444332110 111 389
Q ss_pred EEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHH
Q 013856 318 FETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVT 364 (435)
Q Consensus 318 feIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~ 364 (435)
||||+||+.+.. +..|..|++++-+-++.. -++.++..+++.++..
T Consensus 442 FEiG~Vf~~~~~-~~~~~~e~~~l~~~~~g~~~df~dlKg~ve~ll~~ 488 (552)
T PRK09616 442 FEIGDVVLIDES-TETGTRTERKLAAAIAHSEASFTEIKSVVQALLRE 488 (552)
T ss_pred EEeeEEEecCCc-cccCcchhhEEEEEEECCCCCHHHHHHHHHHHHHH
Confidence 999999998752 344777999998877652 1477888888887764
No 132
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=93.22 E-value=0.58 Score=55.15 Aligned_cols=80 Identities=18% Similarity=0.301 Sum_probs=60.9
Q ss_pred CCCCEEEEEEEEeeecc----CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCC
Q 013856 102 LKDQEVLIRGRVHTTRP----VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIK 177 (435)
Q Consensus 102 ~~g~~V~v~GrV~~~R~----~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~ 177 (435)
..|..|+|.|.|.++|. .|+.|+|+.|.|.++.+.+++... ...++...|..|.+|.|+|.+....
T Consensus 989 ~~~~~v~v~g~i~~~~~~~tk~G~~maf~~leD~~g~~e~~vfp~------~~~~~~~~l~~~~~~~v~g~v~~~~---- 1058 (1151)
T PRK06826 989 KDGDKVIIGGIITEVKRKTTRNNEMMAFLTLEDLYGTVEVIVFPK------VYEKYRSLLNEDNIVLIKGRVSLRE---- 1058 (1151)
T ss_pred cCCcEEEEEEEEEEeEeeccCCCCeEEEEEEEECCCcEEEEECHH------HHHHHHHHhccCCEEEEEEEEEecC----
Confidence 35789999999999874 366799999999999999999843 2334556799999999999996321
Q ss_pred CCceeEEEEEeEEEEe
Q 013856 178 GATQQVEVQIKKLYCV 193 (435)
Q Consensus 178 ~~t~~lEI~v~~i~vl 193 (435)
.+.+.|.+.++.-+
T Consensus 1059 --~~~~~~~~~~~~~l 1072 (1151)
T PRK06826 1059 --DEEPKLICEEIEPL 1072 (1151)
T ss_pred --CCceEEEEeeeecH
Confidence 12366777766544
No 133
>COG0441 ThrS Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=92.97 E-value=0.13 Score=56.28 Aligned_cols=111 Identities=23% Similarity=0.201 Sum_probs=68.6
Q ss_pred HHHHHHHHHHHHHhhcCCeeeecCceeeecC---CCCCcceeeeccCCCceeeccCh---------------HHHHhhhc
Q 013856 249 RIQSQVGNIFRQFLLSENFVEIHTPKLIAGS---SEGGSAVFRLDYKGQSACLAQSP---------------QLHKQMSI 310 (435)
Q Consensus 249 ~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~---~egga~~F~~~~~~~~~~L~~Sp---------------ql~lq~li 310 (435)
.+|+.+.+++|.-..+.||.||.||.|.... ..|.. +.|..++|+..|. ++|+..+-
T Consensus 221 ~ir~~le~y~~~~~~~~Gy~~V~TP~~~~~~l~~~SGH~-----~~y~e~mf~~~~~~~~~~lKpmNCpgh~~ifk~~~~ 295 (589)
T COG0441 221 TIRNLLEDYVRTKLRSYGYQEVKTPVLADLELWELSGHW-----DNYKEDMFLTESDDREYALKPMNCPGHILIFKSGLR 295 (589)
T ss_pred cHHHHHHHHHHHHHHhcCceEecCCeeeecccchhccch-----hhccccceeeccCChhheeeeccCHhHHHHHhcCCc
Confidence 6788999999999999999999999996432 12211 1233444444443 23444322
Q ss_pred cC-CC-ceeEEEecceecCcCC---CCccccchhhheeeecccccHHHHHHHHHHHHHHHh
Q 013856 311 CG-DF-GRVFETGPVFRAEDSY---THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIF 366 (435)
Q Consensus 311 ~~-g~-~rVfeIgp~FR~E~s~---t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~ 366 (435)
+- .+ -|.+|+|.|||.|.|. +.+=+-.|||=|.-. |+. .+.+.+.+-+.+..+.
T Consensus 296 SYR~LP~r~~E~g~v~R~E~SGal~GL~RvR~ftqdDaHi-fc~-~dQi~~E~~~~~~~i~ 354 (589)
T COG0441 296 SYRELPLRLAEFGYVYRYEKSGALHGLMRVRGFTQDDAHI-FCT-PDQIKDEFKGILELIL 354 (589)
T ss_pred ceeccchhhhhcceeecccCcchhhccccccceeecccce-ecc-HHHHHHHHHHHHHHHH
Confidence 11 01 2899999999999862 334567899988643 333 3455555544444433
No 134
>COG3111 Periplasmic protein with OB-fold [Function unknown]
Probab=92.91 E-value=0.63 Score=40.56 Aligned_cols=84 Identities=18% Similarity=0.234 Sum_probs=60.3
Q ss_pred cceeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHH-hcCCCCceEEEEEE
Q 013856 90 REWTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFV-RSLSNESIVDVIGV 168 (435)
Q Consensus 90 ~~~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~-~~l~~esiV~V~G~ 168 (435)
.+-+.+.+....+.+..|+++|-|..- .|.- . |.+||.+++|++.++... |. ..+++.+-|.|.|.
T Consensus 43 ~~~~TV~~Ak~~~Dda~V~l~GnIv~q--i~~D-~-y~FrD~sGeI~VeIdd~~---------w~g~tv~P~dkV~I~Ge 109 (128)
T COG3111 43 AKVTTVDQAKTLHDDAWVSLEGNIVRQ--IGDD-R-YVFRDASGEINVDIDDKV---------WNGQTVTPKDKVRIQGE 109 (128)
T ss_pred cceeEHHHhhccccCCeEEEEeeEEEe--eCCc-e-EEEEcCCccEEEEecccc---------cCCcccCcccEEEEEeE
Confidence 344555555556779999999998653 3322 2 689999999999998531 33 35999999999999
Q ss_pred EecCCccCCCCceeEEEEEeEEEEe
Q 013856 169 VSVPDVEIKGATQQVEVQIKKLYCV 193 (435)
Q Consensus 169 v~~~~~~~~~~t~~lEI~v~~i~vl 193 (435)
|-+-- ...||-|..|..+
T Consensus 110 vDk~~-------~~~eIdV~~I~k~ 127 (128)
T COG3111 110 VDKDW-------NSVEIDVKHIEKL 127 (128)
T ss_pred EcCCC-------ccceeEhhheEec
Confidence 86421 2478888887764
No 135
>PRK10053 hypothetical protein; Provisional
Probab=92.79 E-value=0.79 Score=40.54 Aligned_cols=79 Identities=14% Similarity=0.275 Sum_probs=57.1
Q ss_pred eEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHh-cCCCCceEEEEEEEec
Q 013856 93 TEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR-SLSNESIVDVIGVVSV 171 (435)
Q Consensus 93 ~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~-~l~~esiV~V~G~v~~ 171 (435)
+.+.+......+..|++.|.|...= |.. =|.+||+++.|++-++.. .|.. .+++++-|.|.|.|-+
T Consensus 50 ~tV~~a~~~~Dd~~V~L~G~Iv~~l--g~d--~Y~F~D~tG~I~VeID~~---------~w~G~~v~p~~kV~I~GevDk 116 (130)
T PRK10053 50 MTVEQAKTMHDGATVSLRGNLIDHK--GDD--RYVFRDKSGEINVIIPAA---------VFDGREVQPDQMININGSLDK 116 (130)
T ss_pred EEHHHhhcCcCCCeEEEEEEEEEEe--CCc--eEEEECCCCcEEEEeCHH---------HcCCCcCCCCCEEEEEEEECC
Confidence 3555555567789999999997643 322 278999999999998743 2443 5999999999999864
Q ss_pred CCccCCCCceeEEEEEeEEE
Q 013856 172 PDVEIKGATQQVEVQIKKLY 191 (435)
Q Consensus 172 ~~~~~~~~t~~lEI~v~~i~ 191 (435)
.- ...+|-|..|.
T Consensus 117 ~~-------~~~~IdV~~i~ 129 (130)
T PRK10053 117 KS-------APPVVRVTHLQ 129 (130)
T ss_pred CC-------CCeEEEEEEEe
Confidence 21 24677777765
No 136
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=92.57 E-value=0.69 Score=53.79 Aligned_cols=75 Identities=13% Similarity=0.265 Sum_probs=57.2
Q ss_pred CCEEEEEEEEeeecc-----CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCC
Q 013856 104 DQEVLIRGRVHTTRP-----VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKG 178 (435)
Q Consensus 104 g~~V~v~GrV~~~R~-----~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~ 178 (435)
|..+.+.|+|.++|. .|+.|+|+.|-|.++.+.+++..+ ..-++...|..+.+|.|+|.|...+
T Consensus 884 ~~~~~~~~~i~~~~~~~tk~~g~~maf~~leD~~g~ie~~vFp~------~y~~~~~~l~~~~~~~v~G~v~~~~----- 952 (1034)
T PRK07279 884 NSEATILVQIQSIRVIRTKTKGQQMAFLSVTDTKKKLDVTLFPE------TYRQYKDELKEGKFYYLKGKIQERD----- 952 (1034)
T ss_pred CCcceEEEEEEEEEEEEEcCCCCeEEEEEEeeCCCcEEEEECHH------HHHHHHHHhccCCEEEEEEEEEecC-----
Confidence 667889999987552 577899999999999999999853 2334556799999999999996421
Q ss_pred CceeEEEEEeEEE
Q 013856 179 ATQQVEVQIKKLY 191 (435)
Q Consensus 179 ~t~~lEI~v~~i~ 191 (435)
+.+.|.+.++.
T Consensus 953 --~~~~l~~~~i~ 963 (1034)
T PRK07279 953 --GRLQMVLQQIQ 963 (1034)
T ss_pred --CeeEEEEeeee
Confidence 34666666654
No 137
>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=92.35 E-value=0.19 Score=54.59 Aligned_cols=31 Identities=26% Similarity=0.474 Sum_probs=26.8
Q ss_pred HHHHHHHHHHHHHHHh-hcCCeeeecCceeee
Q 013856 247 IFRIQSQVGNIFRQFL-LSENFVEIHTPKLIA 277 (435)
Q Consensus 247 i~~~rs~i~~~~R~fl-~~~gF~EV~TP~l~~ 277 (435)
=..++..|.+.+|++| ...|++||+||+|++
T Consensus 36 G~~lk~ni~~~wr~~~v~~~~~~ei~~~~i~~ 67 (551)
T TIGR00389 36 GAVLKNNIKNAWRKFFIKNERVLEIDTPIITP 67 (551)
T ss_pred hHHHHHHHHHHHHHHHHhcCCceEeeccccCC
Confidence 3467889999999988 478899999999977
No 138
>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=91.87 E-value=0.66 Score=49.18 Aligned_cols=52 Identities=17% Similarity=0.231 Sum_probs=36.8
Q ss_pred eccCCCceeec--cChHHHHhhhccCCCc-------eeEEEecceecCcCCCCccccchhhhee
Q 013856 289 LDYKGQSACLA--QSPQLHKQMSICGDFG-------RVFETGPVFRAEDSYTHRHLCEFTGLDV 343 (435)
Q Consensus 289 ~~~~~~~~~L~--~Spql~lq~li~~g~~-------rVfeIgp~FR~E~s~t~rHl~EFt~lE~ 343 (435)
+-|++....|| +|+-.-- +|-.+.+ ++...|.|||.+.. +.+|.|-|.|+|-
T Consensus 101 T~Yi~~~~lLRTHTSa~q~~--~~~~~~~~~~~~~~~~i~~G~VYRrD~i-DatH~p~FHQ~EG 161 (460)
T TIGR00469 101 CYYINEQHLLRAHTSAHELE--CFQGGLDDSDNIKSGFLISADVYRRDEI-DKTHYPVFHQADG 161 (460)
T ss_pred ceEecCCceeCCCCcHHHHH--HHHhccccCCCcceeeEeecceeeCCCC-ccccCccceeeEE
Confidence 34667778887 4552221 2223332 48899999999985 8999999999994
No 139
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=91.71 E-value=0.66 Score=48.82 Aligned_cols=75 Identities=12% Similarity=0.219 Sum_probs=58.2
Q ss_pred CEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec-CCccCCCCceeE
Q 013856 105 QEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV-PDVEIKGATQQV 183 (435)
Q Consensus 105 ~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~-~~~~~~~~t~~l 183 (435)
..|||+|-|.+++...+.-.|+.|.|....|+|++...... +.--.+.-|.-|.|.|.|.. ++ .|.+
T Consensus 24 ~~V~v~GEISn~t~~~sgH~YFtLKD~~A~i~c~mf~~~~~------~l~f~p~eG~~V~v~G~is~Y~~------rG~Y 91 (440)
T COG1570 24 GQVWVRGEISNFTRPASGHLYFTLKDERAQIRCVMFKGNNR------RLKFRPEEGMQVLVRGKISLYEP------RGDY 91 (440)
T ss_pred CeEEEEEEecCCccCCCccEEEEEccCCceEEEEEEcCccc------ccCCCccCCCEEEEEEEEEEEcC------CCce
Confidence 46999999999987665578999999999999999976431 11124889999999999873 33 2578
Q ss_pred EEEEeEEE
Q 013856 184 EVQIKKLY 191 (435)
Q Consensus 184 EI~v~~i~ 191 (435)
.|.+.++.
T Consensus 92 Qi~~~~~~ 99 (440)
T COG1570 92 QIVAESME 99 (440)
T ss_pred EEEEecCC
Confidence 88888766
No 140
>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=91.66 E-value=1.6 Score=36.79 Aligned_cols=54 Identities=22% Similarity=0.239 Sum_probs=40.7
Q ss_pred CCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEe
Q 013856 101 SLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVS 170 (435)
Q Consensus 101 ~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~ 170 (435)
.+.|+.|++-|+|.+.+.. .+.....+++.++|.++... .+..+-+|.|.|+|.
T Consensus 12 ~f~gk~V~ivGkV~~~~~~----~~~~~~~Dg~~v~v~l~~~~------------~~~~~~~vEViG~V~ 65 (101)
T cd04479 12 QFVGKTVRIVGKVEKVDGD----SLTLISSDGVNVTVELNRPL------------DLPISGYVEVIGKVS 65 (101)
T ss_pred hhCCCEEEEEEEEEEecCC----eEEEEcCCCCEEEEEeCCCC------------CcccCCEEEEEEEEC
Confidence 5889999999999999864 23333344569999987431 456788999999985
No 141
>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=91.15 E-value=1.8 Score=47.73 Aligned_cols=98 Identities=13% Similarity=0.188 Sum_probs=69.7
Q ss_pred cceeEeccccCCCCCCEEEEEEEEee---ecc------CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCC
Q 013856 90 REWTEVGALNGSLKDQEVLIRGRVHT---TRP------VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNE 160 (435)
Q Consensus 90 ~~~~~i~~l~~~~~g~~V~v~GrV~~---~R~------~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~e 160 (435)
..++.|.+|.+-. ...+|+|||.+ +|. .| ++.-++|.|.++.|++.+... ..-+|...|..|
T Consensus 178 ~~~~pI~~L~py~--~~wtIkaRV~~Ks~ir~~~~~~geg-kvfsv~L~Degg~Irat~f~~------~~dkf~~~l~eG 248 (608)
T TIGR00617 178 RRVMPIASLSPYQ--NKWTIKARVTNKSEIRTWSNARGEG-KLFNVELLDESGEIRATAFNE------QADKFYDIIQEG 248 (608)
T ss_pred cceEEHHHCCCCC--CceEEEEEEEeccccceecCCCCCc-eeeEEEEecCCCeEEEEECch------HHHHHhhhcccC
Confidence 3578999998743 34899999975 332 35 677789999999999998742 234677889999
Q ss_pred ceEEEEE-EEecCCccCCCCceeEEEEEeEEEEeecC
Q 013856 161 SIVDVIG-VVSVPDVEIKGATQQVEVQIKKLYCVSRA 196 (435)
Q Consensus 161 siV~V~G-~v~~~~~~~~~~t~~lEI~v~~i~vls~~ 196 (435)
++..|.+ .|+...+.-+.....+||...+-..+.+|
T Consensus 249 ~VY~Is~~~Vk~an~~y~~~~~~yei~f~~~T~I~~~ 285 (608)
T TIGR00617 249 KVYYISKGSLKPANKQFTNLGNDYEMTLDRDTVIEEC 285 (608)
T ss_pred CEEEECceEEEEccccccCCCCCEEEEECCCeEEEEC
Confidence 9999966 44433222223335699999887777766
No 142
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=90.50 E-value=1.3 Score=49.51 Aligned_cols=67 Identities=16% Similarity=0.141 Sum_probs=50.5
Q ss_pred ccCCCCCCEEEEEEEEeeeccC--CCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHH-HhcCCCCceEEEEEEEec
Q 013856 98 LNGSLKDQEVLIRGRVHTTRPV--GNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRF-VRSLSNESIVDVIGVVSV 171 (435)
Q Consensus 98 l~~~~~g~~V~v~GrV~~~R~~--G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~-~~~l~~esiV~V~G~v~~ 171 (435)
+.+-..|+.|+|.|+|.+.+.. |.++.-+.+.|+++.++++...... .| .+.++.|+.+.|.|++..
T Consensus 53 i~~l~~g~~vtv~g~V~~~~~~~~~~~~~~v~l~D~tg~i~l~~F~~n~-------~~~~~~l~~G~~~~v~Gkv~~ 122 (681)
T PRK10917 53 IAELRPGEKVTVEGEVLSAEVVFGKRRRLTVTVSDGTGNLTLRFFNFNQ-------PYLKKQLKVGKRVAVYGKVKR 122 (681)
T ss_pred HHHCCCCCEEEEEEEEEEEEEccCCceEEEEEEEECCeEEEEEEEccCc-------HHHHhhCCCCCEEEEEEEEEe
Confidence 3334568999999999886433 4466778889999999999883111 24 357999999999999975
No 143
>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=90.12 E-value=1.8 Score=36.81 Aligned_cols=57 Identities=21% Similarity=0.242 Sum_probs=37.8
Q ss_pred CCCCCEEEEEEEEeeeccCCCceEEEEEE-eCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC
Q 013856 101 SLKDQEVLIRGRVHTTRPVGNKLAFVVVR-ERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP 172 (435)
Q Consensus 101 ~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lr-d~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~ 172 (435)
.+.|+.|+|-|+|.+....| + . +.|+ .+++.|+|.+... ..+..+.+|.|.|+|...
T Consensus 15 ~~~gk~VrivGkv~~~~~~g-~-~-~~l~~~d~~~V~v~l~~~------------~~~~~~~~vEviG~V~~~ 72 (109)
T PF08661_consen 15 QFVGKTVRIVGKVESVDPDG-G-S-ATLSTSDGGQVTVSLNPP------------SDEELSKYVEVIGKVNDD 72 (109)
T ss_dssp GGTTSEEEEEEEEEEE-TTS-S-E-EEEE-TTS-EEEEEESS--------------SS---SEEEEEEEE-TT
T ss_pred hhCCCeEEEEEEEeeEcCCC-C-E-EEEEcCCCCEEEEEeCCC------------CCCCCCCEEEEEEEEcCC
Confidence 57899999999999999777 3 3 3455 3567888877642 134568899999999643
No 144
>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=89.66 E-value=3 Score=31.49 Aligned_cols=56 Identities=18% Similarity=0.168 Sum_probs=39.1
Q ss_pred EEEEEeeecc--C-CCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856 109 IRGRVHTTRP--V-GNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV 171 (435)
Q Consensus 109 v~GrV~~~R~--~-G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~ 171 (435)
|.|+|.+.+. . |+++.-+.+.|+++.|.++.... .+ .....++.|+.+.|.|.+..
T Consensus 2 i~~~V~~~~~~~~~~~~~~~~~~~D~~g~i~~~~F~~----~~---~~~~~~~~G~~~~v~Gkv~~ 60 (75)
T cd04488 2 VEGTVVSVEVVPRRGRRRLKVTLSDGTGTLTLVFFNF----QP---YLKKQLPPGTRVRVSGKVKR 60 (75)
T ss_pred EEEEEEEEEeccCCCccEEEEEEEcCCCEEEEEEECC----CH---HHHhcCCCCCEEEEEEEEee
Confidence 5666655422 1 34566778899999999998742 11 11357999999999999864
No 145
>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=89.55 E-value=0.68 Score=43.35 Aligned_cols=108 Identities=21% Similarity=0.260 Sum_probs=59.3
Q ss_pred HHHHHHHHHhhcCCeeeecCceeeecC-CC----CCcceeee-ccC-CCceeeccC--hHHHHhhhc--cCC--CceeEE
Q 013856 253 QVGNIFRQFLLSENFVEIHTPKLIAGS-SE----GGSAVFRL-DYK-GQSACLAQS--PQLHKQMSI--CGD--FGRVFE 319 (435)
Q Consensus 253 ~i~~~~R~fl~~~gF~EV~TP~l~~~~-~e----gga~~F~~-~~~-~~~~~L~~S--pql~lq~li--~~g--~~rVfe 319 (435)
.+.+.+|++|...||.||-|..+++.. .. +...+.++ |-. ..--+||.| |.|..-..- .-+ --|+||
T Consensus 4 ~~~~~ir~~L~~~G~~E~~tys~~~~~~~~~~~~~~~~~i~l~NPis~e~~~lR~sLlp~LL~~~~~N~~~~~~~~~lFE 83 (198)
T cd00769 4 KLERKLRRLLAGLGFQEVITYSLTSPEEAELFDGGLDEAVELSNPLSEEYSVLRTSLLPGLLDALARNLNRKNKPLRLFE 83 (198)
T ss_pred HHHHHHHHHHHHCCCceeecccCCCHHHHHhccCCCCCeEEEcCCCchhHHHHHHHHHHHHHHHHHHHhcCCCCCEeEEE
Confidence 456678999999999999999997641 11 11122222 111 223356655 344332211 112 229999
Q ss_pred EecceecCcCCCCccccchhhheeeeccc------------ccHHHHHHHHHHHHHH
Q 013856 320 TGPVFRAEDSYTHRHLCEFTGLDVEMEIK------------KHYSEVMDIVDCLFVT 364 (435)
Q Consensus 320 Igp~FR~E~s~t~rHl~EFt~lE~e~a~~------------~~~~d~m~~~e~l~~~ 364 (435)
||+||..... +..|.+.+=+-++.. .++.|+-..++.++..
T Consensus 84 iG~vf~~~~~----~~~e~~~l~~~~~g~~~~~~w~~~~~~~~f~~~Kg~ve~ll~~ 136 (198)
T cd00769 84 IGRVFLKDED----GPEEEEHLAALLSGNREPESWQGKGRPVDFYDAKGILEALLRA 136 (198)
T ss_pred eEeEEecCCC----CCcchheEEEEEECCCccccccCCCCccCHhhHHHHHHHHHHH
Confidence 9999976431 223444443322221 1466777777777654
No 146
>COG3705 HisZ ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]
Probab=89.51 E-value=1.1 Score=46.74 Aligned_cols=101 Identities=21% Similarity=0.298 Sum_probs=69.1
Q ss_pred HHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC---CCCcc----eeee-ccCCCceeec--cChHHHHhh--hccCCC
Q 013856 247 IFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS---EGGSA----VFRL-DYKGQSACLA--QSPQLHKQM--SICGDF 314 (435)
Q Consensus 247 i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~---egga~----~F~~-~~~~~~~~L~--~Spql~lq~--li~~g~ 314 (435)
-.+....|.+.++..|...||..|+||+|....+ +.|+. .|++ +-.|..++|| ..+++-..- .+.+.-
T Consensus 16 e~~~~~~i~~~l~~~f~~~Gy~~v~tP~lE~~d~~l~~~g~~l~~~~f~l~d~~g~~l~LRpD~T~pVaR~~~~~~~~~P 95 (390)
T COG3705 16 EARRKEEIRDQLLALFRAWGYERVETPTLEPADPLLDGAGEDLRRRLFKLEDETGGRLGLRPDFTIPVARIHATLLAGTP 95 (390)
T ss_pred HHhhHHHHHHHHHHHHHHhCCccccccccchhhhhhhccchhhhhhheEEecCCCCeEEecccccHHHHHHHHHhcCCCC
Confidence 3455677888889999999999999999987652 21222 6886 4567778888 344433321 123356
Q ss_pred ceeEEEecceecCcCCCCccccchhhheeeeccc
Q 013856 315 GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK 348 (435)
Q Consensus 315 ~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~ 348 (435)
.|++..|+|||+... -+.-..||+|.=+|+=..
T Consensus 96 ~Rl~Y~G~Vfr~~~~-~~g~~~Ef~QaGiEllG~ 128 (390)
T COG3705 96 LRLSYAGKVFRAREG-RHGRRAEFLQAGIELLGD 128 (390)
T ss_pred ceeeecchhhhcchh-ccCcccchhhhhhHHhCC
Confidence 899999999998732 333345999988876543
No 147
>COG4085 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]
Probab=89.10 E-value=1.9 Score=40.51 Aligned_cols=68 Identities=21% Similarity=0.362 Sum_probs=51.9
Q ss_pred CCCCCCEEEEEEEEeeec-cCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHH---hcCCCCceEEEEEEEec
Q 013856 100 GSLKDQEVLIRGRVHTTR-PVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFV---RSLSNESIVDVIGVVSV 171 (435)
Q Consensus 100 ~~~~g~~V~v~GrV~~~R-~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~---~~l~~esiV~V~G~v~~ 171 (435)
+-...+.|+|.|-|.+.+ ..|..+.|+.|.|++++|-+++..+. .+..... .-+..|.+|.|+|.+..
T Consensus 47 ~G~l~e~v~vkg~V~~~~n~~~~gi~~l~lndgtGti~vva~~~t----ee~l~~n~~~p~~~eGe~veVtGrv~~ 118 (204)
T COG4085 47 DGRLNEEVTVKGEVTADQNAIGGGIESLVLNDGTGTITVVASRST----EETLELNEGMPVTVEGEIVEVTGRVEE 118 (204)
T ss_pred CceeeccceeeeEEEeeecccccceEEEEEECCCCcEEEEEecCh----hHhHhhcCCCCccccCcEEEEEEEEEE
Confidence 345567888999999988 56668999999999999999988653 2322211 13669999999998863
No 148
>PRK07459 single-stranded DNA-binding protein; Provisional
Probab=88.12 E-value=12 Score=32.42 Aligned_cols=59 Identities=8% Similarity=0.061 Sum_probs=39.3
Q ss_pred CeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCcc-CC-CCc-eeEEEEEeEEEEeecC
Q 013856 132 VSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVE-IK-GAT-QQVEVQIKKLYCVSRA 196 (435)
Q Consensus 132 ~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~-~~-~~t-~~lEI~v~~i~vls~~ 196 (435)
+.-+.|++-.. ......+.|.+|+.|.|+|.+....-. .. |.+ ...||.+.+|..|++.
T Consensus 43 t~w~~v~~wg~------~Ae~~~~~l~KG~~V~V~G~l~~~~~~d~d~G~~r~~~ei~a~~i~~L~~k 104 (121)
T PRK07459 43 PDWFNLEIWGK------TAQVAADYVKKGSLIGITGSLKFDRWTDRNTGEDRSKPVIRVDRLELLGSK 104 (121)
T ss_pred ceEEEEEEehH------HHHHHHHHcCCCCEEEEEEEEEecceEcCCCCeEEEEEEEEEeEEEECcCC
Confidence 44577777632 112234679999999999999754221 11 333 3499999999999753
No 149
>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=87.79 E-value=1.8 Score=38.12 Aligned_cols=66 Identities=17% Similarity=0.199 Sum_probs=38.1
Q ss_pred CCCCCCEEEEEEEEeeeccCCCceEEEEEEeC--CeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEe
Q 013856 100 GSLKDQEVLIRGRVHTTRPVGNKLAFVVVRER--VSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVS 170 (435)
Q Consensus 100 ~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~--~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~ 170 (435)
....|+.|.|.|.|..++....+-.++...+. ...|+|.+..+.. .......|..|+.|.|+|++.
T Consensus 63 ~kY~gK~i~vtG~V~~I~~~~~~~~~~~~~~~~~~~~v~~~~~~~~~-----~~~~~~~l~~G~~Vti~G~~~ 130 (144)
T PF12869_consen 63 KKYKGKIIEVTGTVSSIDKGFGDNYVVLLGTENGFAGVQCYFSNDQE-----KRASVAKLKKGQKVTIKGICT 130 (144)
T ss_dssp HHHTT-EEEEEEEEEEEEE-STT-EEEEEE-TT-S-S--EEEEEEGG-----GHHHHHH--TTSEEEEEEE--
T ss_pred hhcCCCEEEEEEEEEEEEEcCCCcEEEEccCCCCceeEEEEEccchh-----hhhhHhcCCCCCEEEEEEEEE
Confidence 34679999999999999873324345555553 3578888876421 111234599999999999875
No 150
>PRK15491 replication factor A; Provisional
Probab=87.75 E-value=3.8 Score=42.62 Aligned_cols=89 Identities=16% Similarity=0.259 Sum_probs=63.6
Q ss_pred eeEeccccCCCCCCEEEEEEEEeee-------ccCC--CceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHH--hcCCCC
Q 013856 92 WTEVGALNGSLKDQEVLIRGRVHTT-------RPVG--NKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFV--RSLSNE 160 (435)
Q Consensus 92 ~~~i~~l~~~~~g~~V~v~GrV~~~-------R~~G--~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~--~~l~~e 160 (435)
..+|++|.+. ...|+|.|||.++ |..| .++.=++|-|.+++|.+++-... .+.+ ..|..|
T Consensus 57 ~~kI~dL~~~--~~~v~i~arVl~~~~~R~f~r~dGs~g~v~~~~v~DeTG~ir~tlW~~~-------a~~~~~~~le~G 127 (374)
T PRK15491 57 TTKIADINES--SSNVNFTAKVVSIFEPKEFNRNDGTTGRVGNIIVADETGSIRLTLWDDL-------ADLIKTGDIEVG 127 (374)
T ss_pred cccHHHCCCC--CCceEEEEEEeeccCCeeeecCCCCceEEEEEEEEcCCCeEEEEEECch-------hhhhccCCcCCC
Confidence 3567777643 3679999999987 3334 26666789999999999997431 1122 359999
Q ss_pred ceEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC
Q 013856 161 SIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA 196 (435)
Q Consensus 161 siV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~ 196 (435)
+++.|.|.+.. +- +.+||++.+-..+.+|
T Consensus 128 ~v~~I~~~~~~------~y-~g~Ei~i~~~~~i~~~ 156 (374)
T PRK15491 128 KSLNISGYAKE------GY-SGIEVNIGRYGGISES 156 (374)
T ss_pred CEEEEeeeecc------Cc-ccEEEEeCCCceeeec
Confidence 99999997432 11 2389999988888887
No 151
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=87.74 E-value=2.6 Score=44.50 Aligned_cols=77 Identities=13% Similarity=0.204 Sum_probs=59.2
Q ss_pred CCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec-CCccCCCCcee
Q 013856 104 DQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV-PDVEIKGATQQ 182 (435)
Q Consensus 104 g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~-~~~~~~~~t~~ 182 (435)
-..|||.|=|.+.+.++++=+|+.|.|....|-||+..+... +.--.+..|+-|.|.|.|.. ++ .|.
T Consensus 23 ~~~v~v~gEis~~~~~~sGH~Yf~Lkd~~a~i~~~~~~~~~~------~~~~~~~~G~~v~v~g~~~~y~~------~g~ 90 (438)
T PRK00286 23 LGQVWVRGEISNFTRHSSGHWYFTLKDEIAQIRCVMFKGSAR------RLKFKPEEGMKVLVRGKVSLYEP------RGD 90 (438)
T ss_pred CCcEEEEEEeCCCeeCCCCeEEEEEEcCCcEEEEEEEcChhh------cCCCCCCCCCEEEEEEEEEEECC------CCC
Confidence 468999999999876644558899999999999999875321 01124789999999999873 32 256
Q ss_pred EEEEEeEEEE
Q 013856 183 VEVQIKKLYC 192 (435)
Q Consensus 183 lEI~v~~i~v 192 (435)
+.|.|.+|..
T Consensus 91 ~ql~v~~i~~ 100 (438)
T PRK00286 91 YQLIVEEIEP 100 (438)
T ss_pred EEEEEEEeee
Confidence 9999998875
No 152
>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=87.43 E-value=2.4 Score=44.91 Aligned_cols=75 Identities=16% Similarity=0.185 Sum_probs=57.4
Q ss_pred EEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec-CCccCCCCceeEE
Q 013856 106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV-PDVEIKGATQQVE 184 (435)
Q Consensus 106 ~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~-~~~~~~~~t~~lE 184 (435)
.|||.|=|.+.+..+++=+|+.|.|....|-||+..+... ...-.+..|+-|.|.|.|.. ++ .|.+.
T Consensus 19 ~v~V~GEisn~~~~~sGH~YFtLkD~~a~i~~vmf~~~~~------~l~f~~~~G~~V~v~g~v~~y~~------~G~~q 86 (432)
T TIGR00237 19 QVWIQGEISNFTQPVSGHWYFTLKDENAQVRCVMFRGNNN------RLKFRPQNGQQVLVRGGISVYEP------RGDYQ 86 (432)
T ss_pred cEEEEEEecCCeeCCCceEEEEEEcCCcEEEEEEEcChhh------CCCCCCCCCCEEEEEEEEEEECC------CCcEE
Confidence 7999999999876544458889999999999999875321 00124789999999999863 32 25799
Q ss_pred EEEeEEEE
Q 013856 185 VQIKKLYC 192 (435)
Q Consensus 185 I~v~~i~v 192 (435)
|.|.+|.-
T Consensus 87 l~v~~i~~ 94 (432)
T TIGR00237 87 IICFEMQP 94 (432)
T ss_pred EEEEEecc
Confidence 99998874
No 153
>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=86.64 E-value=15 Score=29.52 Aligned_cols=74 Identities=18% Similarity=0.253 Sum_probs=51.3
Q ss_pred EEEEEEEeeec----cCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCC-CCceEEEEEEEecCCccCCCCce
Q 013856 107 VLIRGRVHTTR----PVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLS-NESIVDVIGVVSVPDVEIKGATQ 181 (435)
Q Consensus 107 V~v~GrV~~~R----~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~-~esiV~V~G~v~~~~~~~~~~t~ 181 (435)
|.|.|-|-.+- ..|+.+.-+.|.|.+.+|-|..... . . .+....|. .|++|.|.|.+....- .+
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-----~~ 70 (82)
T cd04484 2 VVVEGEVFDLEIRELKSGRKILTFKVTDYTSSITVKKFLR-K--D---EKDKEELKSKGDWVRVRGKVQYDTF-----SK 70 (82)
T ss_pred EEEEEEEEEEEEEEecCCCEEEEEEEEcCCCCEEEEEecc-C--C---hhHHhhcccCCCEEEEEEEEEEccC-----CC
Confidence 67889987752 3465666688999999888887753 1 1 12236788 9999999999875321 24
Q ss_pred eEEEEEeEEE
Q 013856 182 QVEVQIKKLY 191 (435)
Q Consensus 182 ~lEI~v~~i~ 191 (435)
++.+.+..|.
T Consensus 71 e~~~~i~~i~ 80 (82)
T cd04484 71 ELVLMINDIE 80 (82)
T ss_pred ceEEEeeeEE
Confidence 6777776654
No 154
>KOG2509 consensus Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=86.39 E-value=1.2 Score=46.54 Aligned_cols=119 Identities=11% Similarity=0.157 Sum_probs=65.9
Q ss_pred hhHHHHHHHHHHHHHHHhhcCCeeeecCceeeecCC--------CCCcceeeeccCCCceeeccChHHHHhhh-----cc
Q 013856 245 QGIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAGSS--------EGGSAVFRLDYKGQSACLAQSPQLHKQMS-----IC 311 (435)
Q Consensus 245 ~~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~~--------egga~~F~~~~~~~~~~L~~Spql~lq~l-----i~ 311 (435)
.....+--+|+++.-+|+.++||+-+.||-|..... .+.-+.+.+---+.+.||.-..|.-+-.+ +.
T Consensus 182 g~~a~LeqALi~yal~~l~~kGy~pl~~P~i~rkeVm~~cg~~~~~d~~~~y~ld~~~~~~LiaTaE~plAa~~~~e~~~ 261 (455)
T KOG2509|consen 182 GAGAFLEQALINYALDFLNAKGYTPLTTPDILRKEVMQKCGQLPRFDEEQYYVLDGGDEKYLIATAEQPLAAYHRDEWLE 261 (455)
T ss_pred CHHHHHHHHHHHHHHHHHHHcCCccccCchhhhHHHHHHhccCcCCCcceEEeecCCccceeEeeccchhhhhhcccccc
Confidence 356677788999999999999999999999876431 11111122111123445554443322211 11
Q ss_pred C-CC-ceeEEEecceecCcCC---CCc---cccchhhheeee------cccccHHHHHHHHHHHHHH
Q 013856 312 G-DF-GRVFETGPVFRAEDSY---THR---HLCEFTGLDVEM------EIKKHYSEVMDIVDCLFVT 364 (435)
Q Consensus 312 ~-g~-~rVfeIgp~FR~E~s~---t~r---Hl~EFt~lE~e~------a~~~~~~d~m~~~e~l~~~ 364 (435)
- .+ -|+-..+.|||+|-+. +.+ -.-+|+-+|.-. ++.- +++++...++++..
T Consensus 262 ~~~lPiK~vg~S~CfR~EaGs~G~d~~GlyRVHqF~KVE~Fvit~Pe~S~~~-~eEmi~~~eef~qs 327 (455)
T KOG2509|consen 262 EDQLPIKYVGVSRCFRAEAGSHGKDTKGLYRVHQFEKVEQFVITGPEDSWEM-LEEMINNQEEFYQS 327 (455)
T ss_pred cccCceeeeehhHHHHHHhhhcccccccceeeeeeeeeEEEEecCcchhHHH-HHHHHHHHHHHHHH
Confidence 0 11 2455678999999622 222 223899988632 2222 44555555555543
No 155
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=85.57 E-value=12 Score=32.91 Aligned_cols=85 Identities=16% Similarity=0.185 Sum_probs=57.1
Q ss_pred eeEeccccCCCCCCEEEEEEEEeeec------cCCC--ceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceE
Q 013856 92 WTEVGALNGSLKDQEVLIRGRVHTTR------PVGN--KLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIV 163 (435)
Q Consensus 92 ~~~i~~l~~~~~g~~V~v~GrV~~~R------~~G~--kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV 163 (435)
..+|++|.+. ...|.+.|.|.++- ..|+ .+.-+.|.|.+++|.+.+=.. . +..|..||+|
T Consensus 4 ~~kI~dL~~g--~~~v~~~~~V~~i~~~~~~~~k~~~~~v~~~~l~D~TG~I~~tlW~~-~---------a~~l~~GdvV 71 (129)
T PRK06461 4 ITKIKDLKPG--MERVNVTVRVLEVGEPKVIQTKGGPRTISEAVVGDETGRVKLTLWGE-Q---------AGSLKEGEVV 71 (129)
T ss_pred ceEHHHcCCC--CCceEEEEEEEEcCCceEEEeCCCceEEEEEEEECCCCEEEEEEeCC-c---------cccCCCCCEE
Confidence 4577777542 26789999998542 1232 366678899999999887532 1 2468999999
Q ss_pred EEEE-EEecCCccCCCCceeEEEEEeE---EEEeec
Q 013856 164 DVIG-VVSVPDVEIKGATQQVEVQIKK---LYCVSR 195 (435)
Q Consensus 164 ~V~G-~v~~~~~~~~~~t~~lEI~v~~---i~vls~ 195 (435)
.|.| .+.. -.+.++|.+.+ |..+.+
T Consensus 72 ~I~na~v~~-------f~G~lqL~i~~~~~i~~~~~ 100 (129)
T PRK06461 72 EIENAWTTL-------YRGKVQLNVGKYGSISESDD 100 (129)
T ss_pred EEECcEEee-------eCCEEEEEECCCEEEEECCc
Confidence 9994 4432 12468899984 665554
No 156
>PRK06863 single-stranded DNA-binding protein; Provisional
Probab=85.46 E-value=19 Score=33.22 Aligned_cols=57 Identities=16% Similarity=0.026 Sum_probs=38.8
Q ss_pred EEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCc-cCCCCc-eeEEEEEeEEEEeecC
Q 013856 134 TVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDV-EIKGAT-QQVEVQIKKLYCVSRA 196 (435)
Q Consensus 134 ~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~-~~~~~t-~~lEI~v~~i~vls~~ 196 (435)
-+.|++... ..-.+...|++||.|.|+|.+....- ...|.+ ..++|.+.+|.+|+..
T Consensus 53 w~~Vv~fgk------~AE~v~~~LkKGs~V~VeGrL~~r~w~DkdG~~r~~~eI~a~~i~~L~~r 111 (168)
T PRK06863 53 WHRIVFYRR------QAEVAGEYLRKGSQVYVEGRLKTRKWQDQNGQDRYTTEIQGDVLQMLGGR 111 (168)
T ss_pred EEEEEEEhH------HHHHHHHHCCCCCEEEEEEEEEeCCccCCCCCEEEEEEEEEeEEEECCCC
Confidence 466766532 22234677999999999999975322 123433 3499999999998754
No 157
>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=84.93 E-value=17 Score=29.73 Aligned_cols=55 Identities=20% Similarity=0.134 Sum_probs=32.2
Q ss_pred eEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCC-CCc-eeEEEEEeEEEEe
Q 013856 133 STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIK-GAT-QQVEVQIKKLYCV 193 (435)
Q Consensus 133 ~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~-~~t-~~lEI~v~~i~vl 193 (435)
..++|++-.. ..-.....+..||.|.|+|.+....-..+ |.+ ..++|.+++|..|
T Consensus 48 ~~~~v~~~g~------~A~~~~~~l~kG~~V~V~G~l~~~~~~~~~G~~~~~~~i~a~~i~fl 104 (104)
T PF00436_consen 48 DWINVVAWGK------LAENVAEYLKKGDRVYVEGRLRTRTYEDKDGQKRYRVEIIADNIEFL 104 (104)
T ss_dssp EEEEEEEEHH------HHHHHHHH--TT-EEEEEEEEEEEEEESTTSSEEEEEEEEEEEEEE-
T ss_pred EEEEEEeeee------cccccceEEcCCCEEEEEEEEEeeEEECCCCCEEEEEEEEEEEEEeC
Confidence 3567776632 11223456999999999998874322112 333 4599999999875
No 158
>PRK08486 single-stranded DNA-binding protein; Provisional
Probab=84.83 E-value=19 Score=33.74 Aligned_cols=59 Identities=12% Similarity=0.074 Sum_probs=38.6
Q ss_pred CeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCc-cCCCCc-eeEEEEEeEEEEeecC
Q 013856 132 VSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDV-EIKGAT-QQVEVQIKKLYCVSRA 196 (435)
Q Consensus 132 ~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~-~~~~~t-~~lEI~v~~i~vls~~ 196 (435)
+.-+-|++-.. ....+...|++||-|.|+|.+....- ...+.+ -.+||.+.+|.+|++.
T Consensus 48 t~fi~v~~fg~------~AE~~~~~l~KG~~V~VeGrL~~~~y~dkdG~~r~~~eI~a~~v~~L~~~ 108 (182)
T PRK08486 48 VCFIDIRLFGR------TAEIANQYLSKGSKVLIEGRLTFESWMDQNGQKRSKHTITAESMQMLDSK 108 (182)
T ss_pred ceEEEEEEEhH------HHHHHHHHcCCCCEEEEEEEEEeCcEECCCCcEEEEEEEEEeEEEECCCC
Confidence 34566666532 11223467999999999999974321 122433 3499999999999765
No 159
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=84.28 E-value=4.7 Score=44.72 Aligned_cols=66 Identities=17% Similarity=0.158 Sum_probs=48.4
Q ss_pred cccCCCCCCEEEEEEEEeeec---cCCCceEEEEEEe-CCeEEEEEEeeCCCCCCHHHHHHH-hcCCCCceEEEEEEEec
Q 013856 97 ALNGSLKDQEVLIRGRVHTTR---PVGNKLAFVVVRE-RVSTVQCLATVKPDSVSKEMVRFV-RSLSNESIVDVIGVVSV 171 (435)
Q Consensus 97 ~l~~~~~g~~V~v~GrV~~~R---~~G~kl~Fl~Lrd-~~~~iQvv~~~~~~~~~~~~~~~~-~~l~~esiV~V~G~v~~ 171 (435)
.+.+-..|+.|+|.|+|.+.. ..+.++.-+.+.| +++.+.++.... .|. +.++.|+.+.|.|++..
T Consensus 25 ~i~~~~~g~~~~~~~~v~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~F~~---------~~~~~~~~~g~~~~~~Gk~~~ 95 (630)
T TIGR00643 25 TIGELLPGERATIVGEVLSHCIFGFKRRKVLKLRLKDGGYKKLELRFFNR---------AFLKKKFKVGSKVVVYGKVKS 95 (630)
T ss_pred CHHHcCCCCEEEEEEEEEEeEeccCCCCceEEEEEEECCCCEEEEEEECC---------HHHHhhCCCCCEEEEEEEEEe
Confidence 344446689999999987532 1223456678889 999999999842 133 56999999999999964
No 160
>PRK07275 single-stranded DNA-binding protein; Provisional
Probab=83.87 E-value=22 Score=32.65 Aligned_cols=85 Identities=13% Similarity=0.223 Sum_probs=51.8
Q ss_pred EEEEEEEEee---ecc--CCCceEEEEEE------e-----CCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEE
Q 013856 106 EVLIRGRVHT---TRP--VGNKLAFVVVR------E-----RVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVV 169 (435)
Q Consensus 106 ~V~v~GrV~~---~R~--~G~kl~Fl~Lr------d-----~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v 169 (435)
.|.|.|||.. +|. .|..++-+.|- + .+.-|.|++-.. .....++.|.+|+.|.|+|.+
T Consensus 4 ~v~LiGrL~~DPElr~t~sG~~v~~ftlAv~r~~~~~~ge~~tdfi~vv~wgk------~Ae~~~~~l~KG~~V~VeGrl 77 (162)
T PRK07275 4 NVVLVGRMTRDAELRYTPSNVAVATFTLAVNRTFKSQNGEREADFINCVIWRQ------QAENLANWAKKGALIGVTGRI 77 (162)
T ss_pred EEEEEEEECCCCeEEECCCCCEEEEEEEEEcCceecCCCCEeeeEEEEEEEcH------HHHHHHHHcCCCCEEEEEEEE
Confidence 4666677664 342 34444444442 1 134577777642 112245679999999999999
Q ss_pred ecCCc-cCCCCc-eeEEEEEeEEEEeecC
Q 013856 170 SVPDV-EIKGAT-QQVEVQIKKLYCVSRA 196 (435)
Q Consensus 170 ~~~~~-~~~~~t-~~lEI~v~~i~vls~~ 196 (435)
....- ...|.+ -..||.+.+|.+|.+.
T Consensus 78 ~~r~y~dkdG~k~~~~evva~~i~~l~~~ 106 (162)
T PRK07275 78 QTRNYENQQGQRVYVTEVVADNFQMLESR 106 (162)
T ss_pred EeceEECCCCCEEEEEEEEEeEEEECCCC
Confidence 74321 122444 3499999999998754
No 161
>KOG1035 consensus eIF-2alpha kinase GCN2 [Translation, ribosomal structure and biogenesis]
Probab=83.53 E-value=2.2 Score=49.96 Aligned_cols=119 Identities=13% Similarity=0.067 Sum_probs=70.4
Q ss_pred hHHHHHHHHHHHHHHHhhcCCeeeecCceeeec-CCCC-Ccceeee-ccCCC----ceeeccChHHHHhhhccCCCceeE
Q 013856 246 GIFRIQSQVGNIFRQFLLSENFVEIHTPKLIAG-SSEG-GSAVFRL-DYKGQ----SACLAQSPQLHKQMSICGDFGRVF 318 (435)
Q Consensus 246 ~i~~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~-~~eg-ga~~F~~-~~~~~----~~~L~~Spql~lq~li~~g~~rVf 318 (435)
..-.+|..++..+-+.|.++|++|++||-+... +|.. ..++..+ +.-|. ++=||+----|.-+=-+ -.-|-|
T Consensus 930 ~~~~l~~~v~e~~~~ifr~Hga~~l~tpp~~~~~~~~~~~~~~v~~ld~sG~~v~Lp~DLr~pfar~vs~N~~-~~~Kry 1008 (1351)
T KOG1035|consen 930 INNELREYVVEEVVKIFRKHGAIELETPPLSLRNACAYFSRKAVELLDHSGDVVELPYDLRLPFARYVSRNSV-LSFKRY 1008 (1351)
T ss_pred hHHHHHHHHHHHHHHHHHHhcceeccCCccccccccchhccceeeeecCCCCEEEeeccccchHHHHhhhchH-HHHHHh
Confidence 344678889999999999999999999966542 2222 1223322 22222 22233222222211101 123569
Q ss_pred EEecceecCcCCCCccccchhhheeeecccc-c--HHHHHHHHHHHHHHHhHH
Q 013856 319 ETGPVFRAEDSYTHRHLCEFTGLDVEMEIKK-H--YSEVMDIVDCLFVTIFDS 368 (435)
Q Consensus 319 eIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~-~--~~d~m~~~e~l~~~i~~~ 368 (435)
+|++|||-+.+ + |--||+.|+|-.-.-+ + -.|++.++-+++..++.+
T Consensus 1009 ~i~rVyr~~~~--~-hP~~~~ec~fDii~~t~sl~~AE~L~vi~Ei~~~~l~~ 1058 (1351)
T KOG1035|consen 1009 CISRVYRPAIH--N-HPKECLECDFDIIGPTTSLTEAELLKVIVEITTEILHE 1058 (1351)
T ss_pred hhheeeccccc--C-CCccccceeeeEecCCCCccHHHHHHHHHHHHHHHhcc
Confidence 99999998883 3 8889999999654321 1 146777777777765543
No 162
>PRK14699 replication factor A; Provisional
Probab=83.15 E-value=7.9 Score=41.65 Aligned_cols=88 Identities=13% Similarity=0.206 Sum_probs=58.9
Q ss_pred eEeccccCCCCCCEEEEEEEEeee-------ccCCC--ceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHh--cCCCCc
Q 013856 93 TEVGALNGSLKDQEVLIRGRVHTT-------RPVGN--KLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVR--SLSNES 161 (435)
Q Consensus 93 ~~i~~l~~~~~g~~V~v~GrV~~~-------R~~G~--kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~--~l~~es 161 (435)
.+|++|.+ .+..|+|.|||.++ |..|+ +++=+.|-|.+++|-+++=... ...+. .|..||
T Consensus 58 ~kI~di~~--~~~~v~i~~rVl~i~~~r~f~r~dG~~g~v~~~~iaDeTG~ir~tlW~~~-------a~~~~~g~l~~GD 128 (484)
T PRK14699 58 VKIENITP--ESGPVNFIARVVSVFDTKEFTRNDGTIGRVGNLIVGDETGKIKLTLWDNM-------ADLIKAGKIKAGQ 128 (484)
T ss_pred ccHhHccC--CCceEEEEEEEEEecCceEEecCCCCceEEEEEEEecCCCeEEEEEecCc-------cchhhhcCCCCCC
Confidence 46777754 35789999999998 44453 5565688899999999975321 11222 599999
Q ss_pred eEEEEEEEecCCccCCCCceeEEEEEeEEEEeecC
Q 013856 162 IVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA 196 (435)
Q Consensus 162 iV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~ 196 (435)
+|.|.|.++ .. - +.+||.+....++.++
T Consensus 129 vv~I~~~~r-~~-----~-~g~el~~~~~~~i~~~ 156 (484)
T PRK14699 129 TLQISGYAK-QG-----Y-SGVEVNIGNNGVLTES 156 (484)
T ss_pred EEEEcceec-cC-----C-CCceEEeCCCceeecc
Confidence 999999643 22 1 2367777655555544
No 163
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=82.77 E-value=13 Score=41.45 Aligned_cols=84 Identities=15% Similarity=0.110 Sum_probs=59.9
Q ss_pred cccCCCCCCEEEEEEEEeee--c-cCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHH-hcCCCCceEEEEEEEecC
Q 013856 97 ALNGSLKDQEVLIRGRVHTT--R-PVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFV-RSLSNESIVDVIGVVSVP 172 (435)
Q Consensus 97 ~l~~~~~g~~V~v~GrV~~~--R-~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~-~~l~~esiV~V~G~v~~~ 172 (435)
.+.+...|+.|+|.|.|.+. + ..++++.=+.+.|+++.|=+++.... . |+ +.++.|..|.|.|.+..-
T Consensus 53 ~i~~~~~g~~vti~g~V~~~~~~~~~~~~~l~v~~~d~~~~l~l~fFn~~----~----~l~~~~~~G~~v~v~Gk~~~~ 124 (677)
T COG1200 53 GIAEARPGEIVTIEGTVLSHEKFPFGKRKLLKVTLSDGTGVLTLVFFNFP----A----YLKKKLKVGERVIVYGKVKRF 124 (677)
T ss_pred ChhhcCCCceEEEEEEEEeeeccCCCCCceEEEEEecCcEEEEEEEECcc----H----HHHhhCCCCCEEEEEEEEeec
Confidence 34455679999999999664 4 33555555788899999999988532 1 33 579999999999999752
Q ss_pred CccCCCCceeEEEEEeEEEEeec
Q 013856 173 DVEIKGATQQVEVQIKKLYCVSR 195 (435)
Q Consensus 173 ~~~~~~~t~~lEI~v~~i~vls~ 195 (435)
.+..++.--++.+++.
T Consensus 125 -------~~~~~~~hpe~~~~~~ 140 (677)
T COG1200 125 -------KGGLQITHPEYIVNDD 140 (677)
T ss_pred -------cCceEEEcceEEecCC
Confidence 2356666666666543
No 164
>KOG3108 consensus Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [Replication, recombination and repair]
Probab=82.74 E-value=7.4 Score=38.54 Aligned_cols=75 Identities=15% Similarity=0.150 Sum_probs=53.6
Q ss_pred CEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEE
Q 013856 105 QEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVE 184 (435)
Q Consensus 105 ~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lE 184 (435)
..|++-|||.++-.+..+ ++|+|-|+++.|=|..=......+. ....|..|-.|.|.|.++.+. |..+
T Consensus 69 ~~v~~VGivr~~e~~~t~-i~y~I~D~tg~id~r~W~~~~~~~~----e~~~l~~~~yVkv~G~Lk~f~-------Gk~s 136 (265)
T KOG3108|consen 69 SAVSIVGIVRNIEKSATN-ITYEIEDGTGQIDVRQWFHDNAESE----EMPALETGTYVKVYGHLKPFQ-------GKKS 136 (265)
T ss_pred EEEEEEEEEEeceecCcc-eEEEEecCcccEEEEEeccccchhh----hCcccccCcEEEeeecccCCC-------Ccee
Confidence 368899999999988766 6789999999977765443222222 234799999999999997653 3345
Q ss_pred EEEeEEE
Q 013856 185 VQIKKLY 191 (435)
Q Consensus 185 I~v~~i~ 191 (435)
|.+.+|.
T Consensus 137 l~~fkI~ 143 (265)
T KOG3108|consen 137 LQVFKIR 143 (265)
T ss_pred EEEEeee
Confidence 5555544
No 165
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=82.52 E-value=27 Score=32.41 Aligned_cols=58 Identities=17% Similarity=0.213 Sum_probs=39.2
Q ss_pred eEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCcc-CCCCc-eeEEEEEeEEEEeecC
Q 013856 133 STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVE-IKGAT-QQVEVQIKKLYCVSRA 196 (435)
Q Consensus 133 ~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~-~~~~t-~~lEI~v~~i~vls~~ 196 (435)
.-+-|++-.. ........|++|+.|.|+|.+....-. ..+.+ ..+||.+..|.+|.+.
T Consensus 47 dwi~~v~wgk------~Ae~~~~~l~KG~~V~VeGrL~~r~yedkdG~~~~~~eVva~~i~~l~~r 106 (173)
T PRK06751 47 DFINCVIWRK------QAENVANYLKKGSLAGVDGRLQTRNYEGQDGKRVYVTEVLAESVQFLEPR 106 (173)
T ss_pred EEEEEEEeCc------HHHHHHHHcCCCCEEEEEEEEEeCccCCCCCcEEEEEEEEEEEEEeCcCC
Confidence 3566776532 223356679999999999999754221 23444 3499999999998753
No 166
>PRK02801 primosomal replication protein N; Provisional
Probab=82.41 E-value=28 Score=29.16 Aligned_cols=52 Identities=12% Similarity=0.248 Sum_probs=33.5
Q ss_pred EEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEe
Q 013856 134 TVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCV 193 (435)
Q Consensus 134 ~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vl 193 (435)
.|+|++-.+ ..-...+.+..||.|.|+|.+.. -....|.+ .+.|+++.|..+
T Consensus 49 ~i~~va~G~------~Ae~~~~~l~kGs~v~V~G~L~~-~~~~~g~~-~~~v~~~~i~~l 100 (101)
T PRK02801 49 RMPVIVSGN------QFQAITQSITVGSKITVQGFISC-HQGRNGLS-KLVLHAEQIELI 100 (101)
T ss_pred EEEEEEEcH------HHHHHHhhcCCCCEEEEEEEEEE-eECCCCCE-EEEEEEEEEEEC
Confidence 488887642 22223457999999999999975 12222322 255999888765
No 167
>COG5235 RFA2 Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [DNA replication, recombination, and repair]
Probab=82.34 E-value=8.3 Score=36.77 Aligned_cols=75 Identities=11% Similarity=0.150 Sum_probs=52.8
Q ss_pred EEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEE
Q 013856 106 EVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEV 185 (435)
Q Consensus 106 ~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI 185 (435)
.|.+-|||.++..+-.+ .|++|.||++.|-|-.=..... ....++.+.-+-.|.|.|.++.= .|+..|
T Consensus 68 ~V~fVGvvrni~~~ttn-~~~~iEDGTG~Ievr~W~~~~~----~~e~~~d~~~~~yvkV~G~lk~F-------~GK~~I 135 (258)
T COG5235 68 NVQFVGVVRNIKTSTTN-SMFVIEDGTGSIEVRFWPGNSY----EEEQCKDLEEQNYVKVNGSLKTF-------NGKRSI 135 (258)
T ss_pred eEEEEEEEEeeeecccc-eEEEEecCCceEEEEecCCCch----HHHhccccccccEEEEecceeee-------CCeeEE
Confidence 58899999999998745 7899999999999886543221 12345667788899999988631 244556
Q ss_pred EEeEEEE
Q 013856 186 QIKKLYC 192 (435)
Q Consensus 186 ~v~~i~v 192 (435)
...-|.-
T Consensus 136 ~~~~i~~ 142 (258)
T COG5235 136 SASHISA 142 (258)
T ss_pred ehhheee
Confidence 5544433
No 168
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=82.15 E-value=13 Score=37.88 Aligned_cols=79 Identities=10% Similarity=0.112 Sum_probs=54.5
Q ss_pred CCEEEEEEEEeeec----cCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCC
Q 013856 104 DQEVLIRGRVHTTR----PVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGA 179 (435)
Q Consensus 104 g~~V~v~GrV~~~R----~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~ 179 (435)
|+.|..-.-|.++. +.|+.-..+.|.|.+|+|.+.+=.. +. .....+..|++|.|.|.+..=
T Consensus 11 g~~v~~~~lv~~~~~~~~knG~~yl~l~l~D~tG~I~ak~W~~----~~---~~~~~~~~g~vv~v~G~v~~y------- 76 (314)
T PRK13480 11 GEQVDHFLLIKSATKGVASNGKPFLTLILQDKSGDIEAKLWDV----SP---EDEATYVPETIVHVKGDIINY------- 76 (314)
T ss_pred CCEeeEEEEEEEceeeecCCCCeEEEEEEEcCCcEEEEEeCCC----Ch---hhHhhcCCCCEEEEEEEEEEE-------
Confidence 55555555555433 3365555677889999999998532 11 235679999999999998632
Q ss_pred ceeEEEEEeEEEEeecC
Q 013856 180 TQQVEVQIKKLYCVSRA 196 (435)
Q Consensus 180 t~~lEI~v~~i~vls~~ 196 (435)
.|.+.|.+..|..+.+.
T Consensus 77 ~g~~Ql~i~~i~~~~~~ 93 (314)
T PRK13480 77 RGRKQLKVNQIRLATEE 93 (314)
T ss_pred CCcceEEEEEeEECCCC
Confidence 14577889999988764
No 169
>PRK12366 replication factor A; Reviewed
Probab=82.03 E-value=7.3 Score=43.37 Aligned_cols=94 Identities=11% Similarity=0.119 Sum_probs=62.6
Q ss_pred ceeEeccccCCCCCCEEEEEEEEeeec---------cCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCc
Q 013856 91 EWTEVGALNGSLKDQEVLIRGRVHTTR---------PVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNES 161 (435)
Q Consensus 91 ~~~~i~~l~~~~~g~~V~v~GrV~~~R---------~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~es 161 (435)
....|++|.+-..|..++|+|||.++- ..| ++.=+.|.|++++|.+++-... . +....|..|+
T Consensus 278 ~~~pI~~L~~~~~g~~~~I~grV~~~~~~R~f~~~~g~g-kv~s~~l~D~tG~IR~t~w~~~--~-----d~~~~l~~G~ 349 (637)
T PRK12366 278 EIVNIEELTEFEDGEEVDVKGRIIAISDKREVERDDRTA-EVQDIELADGTGRVRVSFWGEK--A-----KILENLKEGD 349 (637)
T ss_pred CceeHHHCCcccCCCEEEEEEEEEecCCceEEEcCCCcE-EEEEEEEEcCCCeEEEEEeCch--h-----hhhcccCCCC
Confidence 346777776533688999999999863 235 7777899999999999997531 1 1123568999
Q ss_pred eEEEEEEEecCCccCCCCceeEEEEEeEEEEe
Q 013856 162 IVDVIGVVSVPDVEIKGATQQVEVQIKKLYCV 193 (435)
Q Consensus 162 iV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vl 193 (435)
++.|.|-..+.-... ...+++||.+..-..+
T Consensus 350 vy~is~~~vk~y~~~-~~~~~~El~~~~~s~I 380 (637)
T PRK12366 350 AVKIENCKVRTYYDN-EGEKRVDLNAGYSSEI 380 (637)
T ss_pred EEEEecCEEeecccc-CCCcCEEEEcCCceEE
Confidence 999988655411111 1124588888654433
No 170
>PRK06293 single-stranded DNA-binding protein; Provisional
Probab=81.42 E-value=39 Score=31.00 Aligned_cols=59 Identities=15% Similarity=0.126 Sum_probs=38.5
Q ss_pred CeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCc-cCCCCc-eeEEEEEeEEEEeecC
Q 013856 132 VSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDV-EIKGAT-QQVEVQIKKLYCVSRA 196 (435)
Q Consensus 132 ~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~-~~~~~t-~~lEI~v~~i~vls~~ 196 (435)
+.-+.|++-.+ ......+.|++||.|.|+|.+....- ...+.+ ..++|.+..|.+|+-.
T Consensus 42 T~wi~v~awg~------~Ae~v~~yL~KG~~V~VeGrL~~~~y~dkdG~kr~~~eIva~~I~fl~~~ 102 (161)
T PRK06293 42 TVWCRCNIWGN------RYDKMLPYLKKGSGVIVAGEMSPESYVDKDGSPQSSLVVSVDTIKFSPFG 102 (161)
T ss_pred eEEEEEEEEhH------HHHHHHHhCCCCCEEEEEEEEEeCccCCCCCCEEEEEEEEEeEEEECcCC
Confidence 34566766532 11223466999999999999974321 223444 3499999999998544
No 171
>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=81.18 E-value=9.8 Score=37.00 Aligned_cols=118 Identities=14% Similarity=0.224 Sum_probs=67.5
Q ss_pred HHHHHHHHHHhh-----cCCeeeecCceeeecCCC-----CCcc---eeeeccC-CCceeeccChHHHHhhhcc-CCC--
Q 013856 252 SQVGNIFRQFLL-----SENFVEIHTPKLIAGSSE-----GGSA---VFRLDYK-GQSACLAQSPQLHKQMSIC-GDF-- 314 (435)
Q Consensus 252 s~i~~~~R~fl~-----~~gF~EV~TP~l~~~~~e-----gga~---~F~~~~~-~~~~~L~~Spql~lq~li~-~g~-- 314 (435)
...+..+.++|. ..+.+.|..|+++...++ .|.+ .|.+..+ +..+-.-+|=--||.+++. -||
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 344556666664 469999999999875432 1433 3666555 6788888999999998874 244
Q ss_pred -ceeEEEeccee-cCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhh
Q 013856 315 -GRVFETGPVFR-AEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLN 370 (435)
Q Consensus 315 -~rVfeIgp~FR-~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~ 370 (435)
+.+|+=....| .|..-++.|--=.-|-|||+.+.. -+--++.+.+.+..|+..+.
T Consensus 87 geGlyTdMnAiR~~de~ld~~HSiYVDQWDWEkvI~~-~~Rnl~~Lk~tV~~Iy~aik 143 (244)
T PF03590_consen 87 GEGLYTDMNAIRPDDEELDNIHSIYVDQWDWEKVISK-EDRNLEFLKETVRKIYKAIK 143 (244)
T ss_dssp T-EEEEEEEEE-TT-SS--SS--SEEEEEEEEEE--T-T--SHHHHHHHHHHHHHHHH
T ss_pred CceEeecCceeecchhccCcceEEEecccCHhhhcCc-ccccHHHHHHHHHHHHHHHH
Confidence 68999999999 887568899888999999999875 34566777777777777665
No 172
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=80.87 E-value=6.9 Score=45.56 Aligned_cols=62 Identities=10% Similarity=0.102 Sum_probs=49.9
Q ss_pred CCCEEEEEEEEeeecc---CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856 103 KDQEVLIRGRVHTTRP---VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV 171 (435)
Q Consensus 103 ~g~~V~v~GrV~~~R~---~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~ 171 (435)
.++.|+|.|.|.++|. .|+.|+|+.|.|.++.+.+++..+ .++....+..++++.|+|....
T Consensus 896 ~~~~~~v~g~i~~~~~~~K~g~~maf~~~eD~~~~~e~~~F~~-------~~~~~~~l~~~~~~~~~~~~~~ 960 (973)
T PRK07135 896 INTEYRLAIEVKNVKRLRKANKEYKKVILSDDSVEITIFVNDN-------DYLLFETLKKGDIYEFLISKSK 960 (973)
T ss_pred CCCeEEEEEEEEEEEEEeeCCCeEEEEEEEECCCcEEEEEcHH-------HHHHHHHhhcCCEEEEEEEEcC
Confidence 4678999999998654 477899999999999999999843 2333445888999999998754
No 173
>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=78.30 E-value=49 Score=30.20 Aligned_cols=58 Identities=14% Similarity=0.048 Sum_probs=37.8
Q ss_pred eEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccC-CCCc-eeEEEEEeEEEEeecC
Q 013856 133 STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEI-KGAT-QQVEVQIKKLYCVSRA 196 (435)
Q Consensus 133 ~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~-~~~t-~~lEI~v~~i~vls~~ 196 (435)
.-+-|++-.. ....+...|.+|+.|.|+|.+....-.. .+.+ ..++|.+.+|..|...
T Consensus 51 ~~~~v~~wg~------~Ae~~~~~l~KG~~V~V~G~L~~~~~~~kdG~~~~~~ev~a~~i~~L~~~ 110 (164)
T TIGR00621 51 EWHDIVIFGR------LAEVAAQYLKKGSLVYVEGRLRTRKWEDQNGQKRSKTEIIADNVQLLDLL 110 (164)
T ss_pred eEEEEEEehH------HHHHHHHhCCCCCEEEEEEEEEeceEECCCCcEEEEEEEEEEEEeecccc
Confidence 4566665532 2223456899999999999997432211 2333 3499999999887643
No 174
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=78.30 E-value=41 Score=28.53 Aligned_cols=58 Identities=17% Similarity=0.279 Sum_probs=38.5
Q ss_pred eEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCc-cCCCCc-eeEEEEEeEEEEeecC
Q 013856 133 STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDV-EIKGAT-QQVEVQIKKLYCVSRA 196 (435)
Q Consensus 133 ~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~-~~~~~t-~~lEI~v~~i~vls~~ 196 (435)
.-+-|++-.. ........+.+||.|.|+|.+....- ...|.+ ..+||.+.+|.+|++.
T Consensus 47 ~~~~v~~wg~------~Ae~~~~~l~KG~~V~V~G~l~~~~~~~~~G~~~~~~ei~a~~i~~l~~~ 106 (112)
T PRK06752 47 DFINCVVWRK------SAENVTEYCTKGSLVGITGRIHTRNYEDDQGKRIYITEVVIESITFLERR 106 (112)
T ss_pred EEEEEEEehH------HHHHHHHhcCCCCEEEEEEEEEeCccCCCCCcEEEEEEEEEEEEEECCCC
Confidence 3456666532 12234567999999999999975422 223444 3499999999998754
No 175
>PRK07211 replication factor A; Reviewed
Probab=78.12 E-value=18 Score=38.94 Aligned_cols=81 Identities=17% Similarity=0.206 Sum_probs=57.3
Q ss_pred EeccccCCCCCCEEEEEEEEeeecc-----------CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCce
Q 013856 94 EVGALNGSLKDQEVLIRGRVHTTRP-----------VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESI 162 (435)
Q Consensus 94 ~i~~l~~~~~g~~V~v~GrV~~~R~-----------~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esi 162 (435)
+|.+|.+. ...|+|.|||.++-. .| +++=++|-|.++.|.+++-.. ...++...|..|++
T Consensus 55 ~I~dL~pg--~~~vtI~aRV~~~~~~Rt~~~~~~~~eG-kv~~v~l~DeTG~Ir~TlW~d------~ad~~~~~Le~GdV 125 (485)
T PRK07211 55 GIADIEPG--MDEVKFLAKVLSIGDLRTFERDGEDEDG-RVINVEVADETGSVRVAFWDE------QAVAAEEELEVGQV 125 (485)
T ss_pred cHhhCCCC--CCceEEEEEEeEccCceEEEeCCCCCCc-EEEEEEEEcCCCeEEEEEech------HhHhhhcccCCCCE
Confidence 56667542 256889999877532 24 788889999999999998742 12345678999999
Q ss_pred EEEEEEEecCCccCCCCceeEEEEEeEE
Q 013856 163 VDVIGVVSVPDVEIKGATQQVEVQIKKL 190 (435)
Q Consensus 163 V~V~G~v~~~~~~~~~~t~~lEI~v~~i 190 (435)
+.|.|.++. . -..+||.+..+
T Consensus 126 ~~I~~~~~~------~-ys~~El~i~~v 146 (485)
T PRK07211 126 LRIKGRPKD------G-YNGLEVSVDKV 146 (485)
T ss_pred EEEeceEec------c-ccceEEEEeeE
Confidence 999987642 1 13468888853
No 176
>PRK13732 single-stranded DNA-binding protein; Provisional
Probab=78.11 E-value=48 Score=30.82 Aligned_cols=44 Identities=23% Similarity=0.209 Sum_probs=31.9
Q ss_pred HHhcCCCCceEEEEEEEecCCccCCCCc-eeEEEEEe---EEEEeecC
Q 013856 153 FVRSLSNESIVDVIGVVSVPDVEIKGAT-QQVEVQIK---KLYCVSRA 196 (435)
Q Consensus 153 ~~~~l~~esiV~V~G~v~~~~~~~~~~t-~~lEI~v~---~i~vls~~ 196 (435)
....|.+||.|.|+|.+....-...|.+ ..+||.+. +|.+|++.
T Consensus 68 v~~~L~KG~~V~VeGrL~~r~ye~dG~kr~~~eIiv~~~g~~~fL~~~ 115 (175)
T PRK13732 68 AGEYLRKGAQVYIEGQLRTRSWEDNGITRYVTEILVKTTGTMQMLGRA 115 (175)
T ss_pred HHHhcCCCCEEEEEEEEEeeeEccCCeEEEEEEEEEeecCeEEEecCC
Confidence 4567999999999999874322223444 34899998 89999765
No 177
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=78.04 E-value=47 Score=29.11 Aligned_cols=43 Identities=19% Similarity=0.218 Sum_probs=32.0
Q ss_pred HHhcCCCCceEEEEEEEecCCccCCCCc-eeEEEEEeEEEEeec
Q 013856 153 FVRSLSNESIVDVIGVVSVPDVEIKGAT-QQVEVQIKKLYCVSR 195 (435)
Q Consensus 153 ~~~~l~~esiV~V~G~v~~~~~~~~~~t-~~lEI~v~~i~vls~ 195 (435)
..+.|.+||.|.|+|.+....-...|.+ -.+||.+.+|.+|..
T Consensus 61 v~~~l~KG~~V~V~Grl~~~~y~kdG~~~~~~eviv~~i~~l~~ 104 (131)
T PRK07274 61 LASYASKGSLISIDGELRTRKYEKDGQTHYVTEVLCQSFQLLES 104 (131)
T ss_pred HHHHcCCCCEEEEEEEEEeccCccCCcEEEEEEEEEEEEEECcC
Confidence 4567999999999999975433233444 348999999999864
No 178
>PTZ00213 asparagine synthetase A; Provisional
Probab=77.28 E-value=56 Score=33.44 Aligned_cols=121 Identities=12% Similarity=0.148 Sum_probs=82.0
Q ss_pred HHHHHHHHHHHHHhh-----cCCeeeecCceeeecCCC-----CCcc---eeeeccC-CCceeeccChHHHHhhhccC-C
Q 013856 249 RIQSQVGNIFRQFLL-----SENFVEIHTPKLIAGSSE-----GGSA---VFRLDYK-GQSACLAQSPQLHKQMSICG-D 313 (435)
Q Consensus 249 ~~rs~i~~~~R~fl~-----~~gF~EV~TP~l~~~~~e-----gga~---~F~~~~~-~~~~~L~~Spql~lq~li~~-g 313 (435)
+..-..+..+++||. +.+.+.|..|++....++ .|.+ .|.+..+ +..+-.-+|=--||.+++.- |
T Consensus 9 ~~~q~aI~~iK~~F~~~L~~~LnL~rVsaPLfv~~~~GlnDnLnG~ErpV~f~~k~~~~~~~evVhSLAKWKR~aL~~y~ 88 (348)
T PTZ00213 9 IDLQEQILKVKQIFSEALAKELNLIRVEAPLLAEVGDGTQDNLSGVEKAVQVHVKGIPNSVFEVVHSLAKWKRLTLGEHK 88 (348)
T ss_pred HHHHHHHHHHHHHHHHHHHHHhCeeEecCCeEEcCCCCcccCCCCeeeeeEEecCCCCCceeEEehhhHHHHHHHHHhcC
Confidence 333444555555554 469999999999764322 1333 3666554 57777889999999988742 3
Q ss_pred C---ceeEEEecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhh
Q 013856 314 F---GRVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLN 370 (435)
Q Consensus 314 ~---~rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~ 370 (435)
| +.+|+=.+..|....-++.|--=--|-|||+.+.. -+--++.+.+.+..|+..+.
T Consensus 89 f~~geGlytdMnAiR~dE~ldn~HS~yVDQWDWEkvI~~-~~R~~~~Lk~tV~~iy~~ik 147 (348)
T PTZ00213 89 FPVGEGIYTDMNALRVEEELDNIHSVYVDQWDWEMVIAP-ADRNLEYLKNTVRRLYAAIR 147 (348)
T ss_pred CCCCceeeeccccccCCcccCccceeEeccccHHHhcCc-cccCHHHHHHHHHHHHHHHH
Confidence 3 67999888888655458889777778899988864 44556666666666666654
No 179
>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=75.78 E-value=24 Score=31.07 Aligned_cols=58 Identities=19% Similarity=0.173 Sum_probs=40.0
Q ss_pred CCCCEEEEEEEEe--eecc--CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEe
Q 013856 102 LKDQEVLIRGRVH--TTRP--VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVS 170 (435)
Q Consensus 102 ~~g~~V~v~GrV~--~~R~--~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~ 170 (435)
..|+.|+|.|.|. ++.. .+..+.| .|.|++..|.|+..... + ..+..|.-|.|+|.+.
T Consensus 48 ~~~~~vrv~G~V~~gSv~~~~~~~~~~F-~i~D~~~~i~V~Y~G~~---P-------d~F~eg~~VVv~G~~~ 109 (131)
T PF03100_consen 48 KVGRKVRVGGLVVEGSVEYDPDGNTLTF-TITDGGKEIPVVYTGPL---P-------DLFREGQGVVVEGRLG 109 (131)
T ss_dssp -TTSEEEEEEEEECTTEEE-TTSSEEEE-EEE-SS-EEEEEEES-----C-------TT--TTSEEEEEEEEC
T ss_pred cCCceEEEeeEEccCCEEEcCCCCEEEE-EEEECCcEEEEEECCCC---C-------ccccCCCeEEEEEEEC
Confidence 3799999999998 4443 3557776 67899999999987532 2 2467799999999883
No 180
>PRK08763 single-stranded DNA-binding protein; Provisional
Probab=75.75 E-value=65 Score=29.60 Aligned_cols=44 Identities=11% Similarity=0.081 Sum_probs=31.8
Q ss_pred HHhcCCCCceEEEEEEEecCCcc-CCCCc-eeEEEEEeEEEEeecC
Q 013856 153 FVRSLSNESIVDVIGVVSVPDVE-IKGAT-QQVEVQIKKLYCVSRA 196 (435)
Q Consensus 153 ~~~~l~~esiV~V~G~v~~~~~~-~~~~t-~~lEI~v~~i~vls~~ 196 (435)
....|+.||.|.|+|.+....-. ..+.+ ..+||.+.+|..|+..
T Consensus 66 v~~~L~KGs~V~VeGrL~~~~y~dkdG~kr~~~eIva~~i~~L~~~ 111 (164)
T PRK08763 66 AGEYLRKGSQCYIEGSIRYDKFTGQDGQERYVTEIVADEMQMLGGR 111 (164)
T ss_pred HHHhcCCCCEEEEEEEEEeceeECCCCCEEEEEEEEEeEEEECCCC
Confidence 34569999999999999754221 22333 3499999999998754
No 181
>PRK12366 replication factor A; Reviewed
Probab=75.74 E-value=16 Score=40.70 Aligned_cols=84 Identities=18% Similarity=0.255 Sum_probs=59.9
Q ss_pred ceeEeccccCCCCCCEEEEEEEEeee-------ccCC--CceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCc
Q 013856 91 EWTEVGALNGSLKDQEVLIRGRVHTT-------RPVG--NKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNES 161 (435)
Q Consensus 91 ~~~~i~~l~~~~~g~~V~v~GrV~~~-------R~~G--~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~es 161 (435)
...+|++|.+. ...|+|.|||.++ |..| .++.=++|-|.+++|.+++-.. ..++...|..|+
T Consensus 62 ~~~~I~dl~p~--~~~v~i~arV~~~~~~r~~~~~~G~eGkv~~~~v~DetG~Ir~t~W~~-------~~~~~~~le~G~ 132 (637)
T PRK12366 62 EDFKISDIEEG--QINVEITGRIIEISNIKTFTRKDGSTGKLANITIADNTGTIRLTLWND-------NAKLLKGLKEGD 132 (637)
T ss_pred ceeEHHHCcCC--CcceEEEEEEEEccCCeEEECCCCCccEEEEEEEEcCCCEEEEEEEch-------hhhhhccCCCCC
Confidence 45688888652 2469999999765 2323 2788889999999999999753 123456899999
Q ss_pred eEEEEEEEecCCccCCCCceeEEEEEeE
Q 013856 162 IVDVIGVVSVPDVEIKGATQQVEVQIKK 189 (435)
Q Consensus 162 iV~V~G~v~~~~~~~~~~t~~lEI~v~~ 189 (435)
++.|.|...+. ..+.+||.+..
T Consensus 133 v~~i~~~~v~~------~~~~~el~~~~ 154 (637)
T PRK12366 133 VIKIENARSRK------WNNDVELNSGS 154 (637)
T ss_pred EEEEeccEecc------cCCceEEEcCC
Confidence 99999976543 22457776653
No 182
>PF15072 DUF4539: Domain of unknown function (DUF4539)
Probab=75.08 E-value=11 Score=30.84 Aligned_cols=56 Identities=18% Similarity=0.236 Sum_probs=43.1
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEe
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVS 170 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~ 170 (435)
.+.|.|.+++..+. =+|+.|+|.+|.+++.+..+ + +..+-..|..|+++..+-+-.
T Consensus 6 ~l~v~Iks~~~~~~-D~~v~l~DpTG~i~~tiH~~---v---~~~y~~~l~~GavLlLk~V~V 61 (86)
T PF15072_consen 6 CLVVIIKSIVPSSE-DAFVVLKDPTGEIRGTIHRK---V---LEEYGDELSPGAVLLLKDVTV 61 (86)
T ss_pred EEEEEEEEeeccCC-CeEEEEECCCCcEEEEEeHH---H---HhhcCCccccCEEEEEeeeeE
Confidence 58899999999986 48999999999999999853 1 112445688888877766543
No 183
>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=74.40 E-value=23 Score=28.54 Aligned_cols=57 Identities=19% Similarity=0.149 Sum_probs=37.3
Q ss_pred CCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCC-CCc-eeEEEEEeEEEEe
Q 013856 131 RVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIK-GAT-QQVEVQIKKLYCV 193 (435)
Q Consensus 131 ~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~-~~t-~~lEI~v~~i~vl 193 (435)
....++|.+-.+ ..-..++.+.+||.|.|+|.+....-..+ +.+ ..++|.++.|.++
T Consensus 42 ~~~~~~v~~~g~------~a~~~~~~~~kG~~V~v~G~l~~~~~~~~~g~~~~~~~i~~~~i~~~ 100 (100)
T cd04496 42 ETDWIRVVAFGK------LAENAAKYLKKGDLVYVEGRLRTRSWEDKDGQKRYGTEVVADRIEFL 100 (100)
T ss_pred ccEEEEEEEEhH------HHHHHHHHhCCCCEEEEEEEEEeceeECCCCCEEEEEEEEEEEEEEC
Confidence 345678877632 11234567999999999999975332222 333 4499999888764
No 184
>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=74.36 E-value=44 Score=33.72 Aligned_cols=106 Identities=14% Similarity=0.249 Sum_probs=75.1
Q ss_pred cCCeeeecCceeeecCCC-----CCcc---eeeeccC-CCceeeccChHHHHhhhccC-CC---ceeEEEecceecCcCC
Q 013856 264 SENFVEIHTPKLIAGSSE-----GGSA---VFRLDYK-GQSACLAQSPQLHKQMSICG-DF---GRVFETGPVFRAEDSY 330 (435)
Q Consensus 264 ~~gF~EV~TP~l~~~~~e-----gga~---~F~~~~~-~~~~~L~~Spql~lq~li~~-g~---~rVfeIgp~FR~E~s~ 330 (435)
+.+.+.|..|.+....++ .|.+ .|.+..+ +..+-.-+|=--||.+++.- || +.+|+=....|....-
T Consensus 18 ~LnL~rvsaPlfv~~~sGlnD~LnG~E~pV~f~~k~~~~~~~eiVhSLAKWKR~aL~~y~f~~geGlytdMnAiR~dE~l 97 (309)
T cd00645 18 ELNLIRVSAPLFVEKGSGLNDNLNGVEKPVSFKVKALPDATLEVVHSLAKWKRLALARYGFSLGEGLYTDMNAIRPDEDL 97 (309)
T ss_pred HhCeEEecCCeEEecCCCCccCCCCcccceEeecCCCCCceeEEeeehHHHHHHHHHhcCCCCCceeccCCccccCCccc
Confidence 469999999999865433 1333 3666555 57777888999999988742 44 6799988888864435
Q ss_pred CCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhh
Q 013856 331 THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLN 370 (435)
Q Consensus 331 t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~ 370 (435)
++.|--=--|-|||..+.. -+--++.+.+.+..|+..+.
T Consensus 98 dn~HS~yVDQWDWEkvI~~-~~R~~~~Lk~tV~~iy~~ik 136 (309)
T cd00645 98 DNIHSIYVDQWDWEKVISK-GERNLETLKETVNKIYKAIK 136 (309)
T ss_pred CccceeEeccccHHhhcCc-cccCHHHHHHHHHHHHHHHH
Confidence 8889777778899988864 34556666666666666654
No 185
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=74.26 E-value=46 Score=32.06 Aligned_cols=86 Identities=22% Similarity=0.338 Sum_probs=58.3
Q ss_pred CCEEEEEEEEee---ecc--CCCceEEEEEEeC-----CeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCC
Q 013856 104 DQEVLIRGRVHT---TRP--VGNKLAFVVVRER-----VSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPD 173 (435)
Q Consensus 104 g~~V~v~GrV~~---~R~--~G~kl~Fl~Lrd~-----~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~ 173 (435)
-..|.+.|||-. +|. .|..++-+.|--+ +.-|.|++-.. ...++..+.+||-|.|.|.+....
T Consensus 109 ~N~V~LiGrL~~DPelR~t~~G~~va~f~lAvnr~~~~td~i~~v~wg~-------~Ae~~~~l~KG~~V~V~GrL~sr~ 181 (219)
T PRK05813 109 PNEIFLDGYICKEPVYRTTPFGREIADLLLAVNRPYNKSDYIPCIAWGR-------NARFCKTLEVGDNIRVWGRVQSRE 181 (219)
T ss_pred ccEEEEEEEccCCCeEEECCCCCEEEEEEEEEcCCCCCceEEEEEEEhH-------HhHHHhhCCCCCEEEEEEEEEecc
Confidence 357999999976 354 4656666666532 45788887643 123456799999999999997542
Q ss_pred ccC-CC----Cc-eeEEEEEeEEEEeecC
Q 013856 174 VEI-KG----AT-QQVEVQIKKLYCVSRA 196 (435)
Q Consensus 174 ~~~-~~----~t-~~lEI~v~~i~vls~~ 196 (435)
-.. .+ .+ ..+||.+.+++.|++.
T Consensus 182 y~~k~g~~~g~kr~~~eV~v~~i~~l~~~ 210 (219)
T PRK05813 182 YQKKLSEGEVVTKVAYEVSISKMEKVEKE 210 (219)
T ss_pred eEcCCCCccceEEEEEEEEEEEEEEcCCh
Confidence 211 12 12 3599999999998764
No 186
>PRK07080 hypothetical protein; Validated
Probab=73.50 E-value=3.1 Score=42.07 Aligned_cols=48 Identities=13% Similarity=0.055 Sum_probs=36.7
Q ss_pred eeEEE-ecceecCcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHH
Q 013856 316 RVFET-GPVFRAEDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTI 365 (435)
Q Consensus 316 rVfeI-gp~FR~E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i 365 (435)
++|.+ |.|||+|++++.+-+-||.|-|+-.-. +-+.+++.-+..+...
T Consensus 153 ~~~dv~g~CFR~E~s~dl~Rl~~F~mrE~V~iG--t~e~v~~~r~~w~e~~ 201 (317)
T PRK07080 153 RLVDVASYCFRHEPSLDPARMQLFRMREYVRIG--TPEQIVAFRQSWIERG 201 (317)
T ss_pred cEEEeeeeeeccCCCCCcHHHhheeeeEEEEec--CHHHHHHHHHHHHHHH
Confidence 66655 889999999999999999999986654 2567777766655543
No 187
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=73.04 E-value=73 Score=29.86 Aligned_cols=59 Identities=10% Similarity=0.001 Sum_probs=39.2
Q ss_pred CeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCcc-CCCCc-eeEEEEEeEEEEeecC
Q 013856 132 VSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVE-IKGAT-QQVEVQIKKLYCVSRA 196 (435)
Q Consensus 132 ~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~-~~~~t-~~lEI~v~~i~vls~~ 196 (435)
+.-+.|++... ......+.|++||.|.|+|.+....-. ..+.+ ..+||.+..|.+|...
T Consensus 51 T~w~~V~~fGk------~AE~v~~~LkKGs~V~VeGrL~~~~yeDkdG~kr~~~eVvA~~V~fL~sr 111 (182)
T PRK06958 51 TEWHRVAFFGR------LAEIVGEYLKKGSSVYIEGRIRTRKWQGQDGQDRYSTEIVADQMQMLGGR 111 (182)
T ss_pred ceEEEEEEehH------HHHHHHHHhCCCCEEEEEEEEEeCceECCCCcEEEEEEEEEeEEEECCCC
Confidence 34566666532 222345679999999999999754221 22333 3499999999999754
No 188
>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=72.65 E-value=13 Score=40.64 Aligned_cols=111 Identities=20% Similarity=0.313 Sum_probs=62.2
Q ss_pred HHHHHHHHHHHhhcCCeeeecCceeeecC-C-C--C--Ccceeee-ccCC-CceeeccC--hHHHHhhhccCCC-----c
Q 013856 251 QSQVGNIFRQFLLSENFVEIHTPKLIAGS-S-E--G--GSAVFRL-DYKG-QSACLAQS--PQLHKQMSICGDF-----G 315 (435)
Q Consensus 251 rs~i~~~~R~fl~~~gF~EV~TP~l~~~~-~-e--g--ga~~F~~-~~~~-~~~~L~~S--pql~lq~li~~g~-----~ 315 (435)
...+.+.+|++|...||.|+-|-.+++.. . + + +.....+ |-.. .--+||.| |.|-. .+..+. -
T Consensus 364 ~~~~~~~ir~~L~~~Gf~E~itysf~s~~~~~~~~~~~~~~~v~l~NPis~e~s~lR~SLlp~LL~--~~~~N~~~~~~~ 441 (551)
T TIGR00471 364 LNKVSDIIREIMVGLGFQEVIPLTLTSEEVNFKRMRIEDNNDVKVANPKTLEYTIVRTSLLPGLLE--TLSENKHHELPQ 441 (551)
T ss_pred HHHHHHHHHHHHHhCCceeeccceEccHHHHHHHhccCCCCcEEeCCCCchhhhHhHhhhHHHHHH--HHHhcccCCCCe
Confidence 34566778999999999999999997641 1 1 0 0011112 2222 23356655 33332 222221 2
Q ss_pred eeEEEecceecCcCCCCccccchhhheeeecc-cccHHHHHHHHHHHHHH
Q 013856 316 RVFETGPVFRAEDSYTHRHLCEFTGLDVEMEI-KKHYSEVMDIVDCLFVT 364 (435)
Q Consensus 316 rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~-~~~~~d~m~~~e~l~~~ 364 (435)
|+||||+||...+... .+-.+|.++-+-++. ..++.|+...+|.++..
T Consensus 442 ~lFEiG~Vf~~~~~~~-~~e~~~~~l~~~~~g~~~df~d~Kg~ve~ll~~ 490 (551)
T TIGR00471 442 KIFEIGDVVVKDDKSE-TRSRVVTKLAVGITHSEANFNEIKSIVAALARE 490 (551)
T ss_pred eEEEEEEEEEcCCccc-cccceeeEEEEEEECCCCCHHHHHHHHHHHHHH
Confidence 7999999996532111 122333555444432 11478888888888754
No 189
>PRK14699 replication factor A; Provisional
Probab=72.63 E-value=18 Score=38.93 Aligned_cols=92 Identities=15% Similarity=0.268 Sum_probs=64.3
Q ss_pred eeEeccccCCCCCCEEEEEEEEeeec-------cCC--CceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCce
Q 013856 92 WTEVGALNGSLKDQEVLIRGRVHTTR-------PVG--NKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESI 162 (435)
Q Consensus 92 ~~~i~~l~~~~~g~~V~v~GrV~~~R-------~~G--~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esi 162 (435)
+..|.+|.+ .+..|+|.|||.++= ..| .++.=+.|-|+++.|.+++-... .++...|..|+.
T Consensus 276 ~~~I~~L~~--~~~~v~I~grV~~~~~~r~~~~~~Gseg~v~~~~l~DeTG~Ir~T~W~~~-------a~~~~~i~~Gd~ 346 (484)
T PRK14699 276 FTPIEDIKA--DMNNINISGRVLDISEVRTFEKKDGSPGRVGNLLLGDSTGKIRLTLWDEK-------TNFLDEIDFDET 346 (484)
T ss_pred ccCHHHcCC--CCceeEEEEEEEEcCCCeEEEcCCCCeeEEEEEEEECCCCeEEEEEeCcc-------cccccccCCCce
Confidence 345566643 467899999999662 233 26666889999999999986431 134567889999
Q ss_pred EEEEEEEecCCccCCCCceeEEEEEeEEEEeecC
Q 013856 163 VDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA 196 (435)
Q Consensus 163 V~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~ 196 (435)
|.|.+.-++-. ...+.+||.+.+-.++.+|
T Consensus 347 v~i~~~y~~~~----~~~~~~eL~~~~~t~I~~~ 376 (484)
T PRK14699 347 VEVLNAYSREN----TFSQQVELNLGARGIIQKS 376 (484)
T ss_pred EEEEeEEEEec----cCCccEEEEecCceeEeec
Confidence 99887654311 1235799999988888887
No 190
>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=70.22 E-value=38 Score=26.69 Aligned_cols=54 Identities=15% Similarity=0.123 Sum_probs=38.3
Q ss_pred ceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEE-EEEecCCccCCCCceeEEEEEeEEE
Q 013856 122 KLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVI-GVVSVPDVEIKGATQQVEVQIKKLY 191 (435)
Q Consensus 122 kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~-G~v~~~~~~~~~~t~~lEI~v~~i~ 191 (435)
++.=+.|.|+++.|.+++=.... ...+..|++|.+. |.+..- .+.++|.+.+..
T Consensus 23 ~~~~~~l~D~TG~i~~~~W~~~~---------~~~~~~G~vv~i~~~~v~~~-------~g~~ql~i~~~~ 77 (82)
T cd04491 23 KVQSGLVGDETGTIRFTLWDEKA---------ADDLEPGDVVRIENAYVREF-------NGRLELSVGKNS 77 (82)
T ss_pred EEEEEEEECCCCEEEEEEECchh---------cccCCCCCEEEEEeEEEEec-------CCcEEEEeCCce
Confidence 56667888999999999864210 3569999999999 666431 145788776543
No 191
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=68.84 E-value=25 Score=37.03 Aligned_cols=74 Identities=19% Similarity=0.261 Sum_probs=54.4
Q ss_pred CEEEEEEEEee--eccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCcee
Q 013856 105 QEVLIRGRVHT--TRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQ 182 (435)
Q Consensus 105 ~~V~v~GrV~~--~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~ 182 (435)
..+.|.|+|.. ...-| ...|+.+.|+.+.|=|++... .+++-..+..|.+||.|.+.|.++. +.
T Consensus 267 ~~~~v~g~v~~~p~~ieG-ghv~v~i~d~~G~I~~~A~ep----tk~fr~~a~~L~pGD~i~~~G~~~~---------~~ 332 (421)
T COG1571 267 SKYRVVGRVEAEPRAIEG-GHVVVEITDGEGEIGAVAFEP----TKEFRELARKLIPGDEITVYGSVKP---------GT 332 (421)
T ss_pred cceEEEEEEecccEEeeC-CEEEEEecCCCceEEEEEecc----cccchHHHHhcCCCCEEEEecCccc---------cc
Confidence 45788888876 33356 679999999999999998754 2345556789999999999998753 11
Q ss_pred EEEEEeEEEEee
Q 013856 183 VEVQIKKLYCVS 194 (435)
Q Consensus 183 lEI~v~~i~vls 194 (435)
|.+.+++++.
T Consensus 333 --~n~ek~~v~~ 342 (421)
T COG1571 333 --LNLEKFQVLK 342 (421)
T ss_pred --eeEEEEEEEE
Confidence 6666666653
No 192
>PRK15491 replication factor A; Provisional
Probab=67.65 E-value=26 Score=36.51 Aligned_cols=89 Identities=16% Similarity=0.267 Sum_probs=59.7
Q ss_pred EeccccCCCCCCEEEEEEEEeeecc-------CCC--ceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEE
Q 013856 94 EVGALNGSLKDQEVLIRGRVHTTRP-------VGN--KLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVD 164 (435)
Q Consensus 94 ~i~~l~~~~~g~~V~v~GrV~~~R~-------~G~--kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~ 164 (435)
+|.+|.+ .+..|.|.|||.++-. .|. ++.=+.|-|.+++|.+.+-... .+....|..|+.|.
T Consensus 168 ~I~dl~~--~~~~V~I~g~V~~~~~~r~~~~~~G~~~~v~~~~l~DetG~Ir~t~W~~~-------a~~~~~l~~Gd~V~ 238 (374)
T PRK15491 168 KISDIKD--GDSDINIVGKVLDISDVRTFQKKDGSQGRVRNITIGDETGKIRVTLWDGK-------TDLADKLENGDSVE 238 (374)
T ss_pred cHHHcCC--CCccEEEEEEEEEccCceEEEecCCCeEEEEEEEEECCCCeEEEEEecch-------hcccccCCCCCEEE
Confidence 4455543 2345999999998743 343 5555888899999999886431 11235699999999
Q ss_pred EEEE-EecCCccCCCCceeEEEEEeEEEEeecC
Q 013856 165 VIGV-VSVPDVEIKGATQQVEVQIKKLYCVSRA 196 (435)
Q Consensus 165 V~G~-v~~~~~~~~~~t~~lEI~v~~i~vls~~ 196 (435)
|.+. ++.. ...+.+||.+.+-..+.+|
T Consensus 239 i~~~~~r~~-----~~~g~~El~~~~~s~I~~~ 266 (374)
T PRK15491 239 IINGYARTN-----NYSQEVEIQIGNHGSLRKT 266 (374)
T ss_pred EEeceEEEe-----ccCCCEEEEeCCCceEEEC
Confidence 9774 4321 1235799999877777777
No 193
>TIGR02930 vnfG_nitrog V-containing nitrogenase, delta subunit. Nitrogenase is the enzyme of biological nitrogen fixation. The most wide-spread and most efficient nitrogenase contains a molybdenum cofactor. This protein family, VnfG, represents the delta subunit of the V-containing (vanadium) alternative nitrogenase. It is homologous to AnfG, the delta subunit of the Fe-only nitrogenase.
Probab=66.27 E-value=12 Score=31.91 Aligned_cols=51 Identities=12% Similarity=0.156 Sum_probs=43.0
Q ss_pred CCccccCCCCCccccHHHHHHHHHHcCCCCCCCCCCCcHHHHHHHHHHhcC
Q 013856 385 PFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435 (435)
Q Consensus 385 ~~~~~~~~~p~~rit~~eai~ll~~~g~~~~~~~dl~te~E~~L~~~vkek 435 (435)
-.+++....|--|.=|.||+-|.......++|..+|+.++=+.|.+-+|++
T Consensus 40 ~GE~~~~~Tp~Dr~yy~DAv~la~~~k~rfpW~~~~~kdei~~l~~~lk~r 90 (109)
T TIGR02930 40 NGEKINLETPMDKLFYADAKNLASDIKERFPWISELDKDQILELVESVKKR 90 (109)
T ss_pred cCCCCCCCChHHHHHHHHHHHHHHHHHHhCcHHHhCCHHHHHHHHHHHHHH
Confidence 345566667888999999999888888889999999999999999888874
No 194
>PRK07217 replication factor A; Reviewed
Probab=65.99 E-value=74 Score=32.32 Aligned_cols=93 Identities=13% Similarity=0.168 Sum_probs=65.9
Q ss_pred ceeEeccccCCCCCCEEEEEEEEeee--ccCCCceEE-EEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEE
Q 013856 91 EWTEVGALNGSLKDQEVLIRGRVHTT--RPVGNKLAF-VVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIG 167 (435)
Q Consensus 91 ~~~~i~~l~~~~~g~~V~v~GrV~~~--R~~G~kl~F-l~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G 167 (435)
.-.+|++|.+ .++-|+|.|+|.++ +.++ .+.. -.|-|.+++|-.++=.+.. ...|..|+++.|.+
T Consensus 71 ~~~kI~Di~~--~~~~VsV~aKVl~l~e~~~~-si~qvGllgDETG~IkfT~W~~s~---------~~~leeGd~~rI~n 138 (311)
T PRK07217 71 ELVNIADIDE--PEQWVDVTAKVVQLWEPSSD-SIAQVGLLGDETGTIKFTKWAKSD---------LPELEEGKSYLLKN 138 (311)
T ss_pred CceeeeecCC--CCCcEEEEEEEEEecCCCCC-ceEEEEEEEcCCceEEEEEccCCC---------CCcccCCCEEEEEe
Confidence 3457888864 47789999999987 3334 4555 4677889999888754311 23588999999999
Q ss_pred EEecCCccCCCCceeEEEEEeEEEEeecC-CCCCc
Q 013856 168 VVSVPDVEIKGATQQVEVQIKKLYCVSRA-AKTPI 201 (435)
Q Consensus 168 ~v~~~~~~~~~~t~~lEI~v~~i~vls~~-~~lP~ 201 (435)
..+.- -.|.++|.+.+...+... ..++.
T Consensus 139 a~v~e------y~G~~~lnlg~~t~I~~~de~IeV 167 (311)
T PRK07217 139 VVTDE------YQGRFSVKLNRTTSIEELDEDIEV 167 (311)
T ss_pred EEEee------ECCEEEEEeCCceEEEeCCCCccc
Confidence 87642 125689999988888776 55543
No 195
>PRK13254 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=65.42 E-value=96 Score=28.03 Aligned_cols=58 Identities=19% Similarity=0.165 Sum_probs=43.3
Q ss_pred CCCCEEEEEEEEee--ecc-CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEe
Q 013856 102 LKDQEVLIRGRVHT--TRP-VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVS 170 (435)
Q Consensus 102 ~~g~~V~v~GrV~~--~R~-~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~ 170 (435)
..|+.|+|.|.|.. +.. .|..+.| .|.|++.+|.|..... ++ ..+.-|.-|.|+|.+.
T Consensus 49 ~~g~~vrvgG~V~~gSi~~~~~~~~~F-~ltD~~~~i~V~Y~G~---lP-------d~F~eg~~VVv~G~~~ 109 (148)
T PRK13254 49 PAGRRFRLGGLVEKGSVQRGDGLTVRF-VVTDGNATVPVVYTGI---LP-------DLFREGQGVVAEGRLQ 109 (148)
T ss_pred cCCCeEEEeEEEecCcEEeCCCCEEEE-EEEeCCeEEEEEECCC---CC-------ccccCCCEEEEEEEEC
Confidence 56999999999953 433 5557777 6799988998887642 22 2466799999999985
No 196
>PRK14894 glycyl-tRNA synthetase; Provisional
Probab=64.95 E-value=3.8 Score=44.10 Aligned_cols=31 Identities=23% Similarity=0.311 Sum_probs=23.4
Q ss_pred eeEEEecceecCcC--CCCccccchhhheeeec
Q 013856 316 RVFETGPVFRAEDS--YTHRHLCEFTGLDVEME 346 (435)
Q Consensus 316 rVfeIgp~FR~E~s--~t~rHl~EFt~lE~e~a 346 (435)
.+-+||++||||=+ +..--+-||+|.|+|.=
T Consensus 167 giaQIGk~FRNEIsPr~~l~R~REF~q~EiE~F 199 (539)
T PRK14894 167 GIAQVGKAFRNEINPRNFLFRVREFEQMEIEYF 199 (539)
T ss_pred eEEeeeccccCccCCCCceeecccchhheEEEE
Confidence 48999999999942 22224679999999863
No 197
>PRK07211 replication factor A; Reviewed
Probab=64.64 E-value=37 Score=36.57 Aligned_cols=89 Identities=16% Similarity=0.155 Sum_probs=58.9
Q ss_pred eEeccccCCCCCCEEEEEEEEeee-------ccCC--CceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceE
Q 013856 93 TEVGALNGSLKDQEVLIRGRVHTT-------RPVG--NKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIV 163 (435)
Q Consensus 93 ~~i~~l~~~~~g~~V~v~GrV~~~-------R~~G--~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV 163 (435)
..|.+|.+ ....|.|.|||.++ |..| .++.=+.|-|.+++|.+.+-... .+.+..|..|++|
T Consensus 162 ~~I~dL~~--~~~~v~I~grV~~v~~iRtf~r~dGseGkv~sv~L~DeTG~IR~TlW~d~-------Ad~~~~le~G~Vv 232 (485)
T PRK07211 162 YTVEDLSL--GLSDVTLVGVVLDTDSVRTFDRDDGSEGRVSNLTVGDETGRVRVTLWDDR-------ADLAEELDAGESV 232 (485)
T ss_pred ccHHHcCC--CCCceEEEEEEEEcCCCeEEECCCCCeeEEEEEEEEcCCCeEEEEEechh-------hhhhccCCCCCEE
Confidence 34445543 24668999999854 2233 15566888899999999986421 1223569999999
Q ss_pred EEEEEEecCCccCCCCceeEEEEEeEEEEeecC
Q 013856 164 DVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA 196 (435)
Q Consensus 164 ~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~ 196 (435)
.|.|.-.+.. .+.+||.+..-..+.+|
T Consensus 233 ~I~~a~Vre~------~g~~ELsl~~~s~I~~~ 259 (485)
T PRK07211 233 EIVDGYVRER------DGSLELHVGDRGAVEEV 259 (485)
T ss_pred EEEeeEEEec------CCcEEEEECCCceEEEC
Confidence 9986432221 25799999877777766
No 198
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=64.43 E-value=85 Score=30.25 Aligned_cols=85 Identities=13% Similarity=0.153 Sum_probs=55.3
Q ss_pred CCCEEEEEEEEee---eccCCCceEEEEEE-------eCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEe-c
Q 013856 103 KDQEVLIRGRVHT---TRPVGNKLAFVVVR-------ERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVS-V 171 (435)
Q Consensus 103 ~g~~V~v~GrV~~---~R~~G~kl~Fl~Lr-------d~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~-~ 171 (435)
....|.|.|||.+ .|-....-.|+.+. +....|.|++.... ...+. +..|+.|.|+|.+. .
T Consensus 7 ~~NkV~L~Grl~~d~e~~~~~~G~~~~~f~laV~R~s~~~D~i~v~v~~rl-------ae~~~-l~kG~~v~VeGqlrsy 78 (219)
T PRK05813 7 ENNKVYLEGKVVSELEFSHEMYGEGFYNFKLEVPRLSDSKDILPVTVSERL-------LAGMD-LKVGTLVIVEGQLRSY 78 (219)
T ss_pred hcCEEEEEEEEcCCceEEEEeCCeEEEEEEEEeeccCCCccEEEEEEEhhh-------hhhhc-ccCCCEEEEEEEEEEe
Confidence 4567889999875 34422233555543 44568899987542 22233 99999999999998 2
Q ss_pred CCccCCCC-ceeEEEEEeEEEEeecC
Q 013856 172 PDVEIKGA-TQQVEVQIKKLYCVSRA 196 (435)
Q Consensus 172 ~~~~~~~~-t~~lEI~v~~i~vls~~ 196 (435)
... ..+. .--+||.+.+|..|++.
T Consensus 79 ~~~-~~G~~R~vl~V~a~~i~~l~~~ 103 (219)
T PRK05813 79 NKF-IDGKNRLILTVFARNIEYCDER 103 (219)
T ss_pred ccC-CCCcEEEEEEEEEEEEEEccCC
Confidence 111 0122 23499999999998775
No 199
>TIGR02929 anfG_nitrog Fe-only nitrogenase, delta subunit. Nitrogenase, also called dinitrogenase, is the enzyme of biological nitrogen fixation. The most wide-spread and most efficient nitrogenase contains a molybdenum cofactor. This protein family, AnfG, represents the delta subunit of the Fe-only alternative nitrogenase. It is homologous to VnfG, the delta subunit of the V-containing (vanadium) nitrogenase.
Probab=64.15 E-value=14 Score=31.43 Aligned_cols=51 Identities=18% Similarity=0.092 Sum_probs=42.8
Q ss_pred CCccccCCCCCccccHHHHHHHHHHcCCCCCCCCCCCcHHHHHHHHHHhcC
Q 013856 385 PFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435 (435)
Q Consensus 385 ~~~~~~~~~p~~rit~~eai~ll~~~g~~~~~~~dl~te~E~~L~~~vkek 435 (435)
-.+++....|--|.=|.||+-|.......++|..+++.++=+.|.+-+|+|
T Consensus 40 ~GE~~~~~Tp~Dr~y~~DAv~la~~~k~rfpW~~~~~kdei~~l~~~lk~r 90 (109)
T TIGR02929 40 CGENAREDTSADRCYWVDAVTLAGAYKRRFPWLEDMTKDEIKTLMQALHEK 90 (109)
T ss_pred cCCCCCCCChHHHHHHHHHHHHHHHHHHhCcHHHhCCHHHHHHHHHHHHHH
Confidence 345555557888999999999888888889999999999999998888874
No 200
>PRK05425 asparagine synthetase AsnA; Provisional
Probab=62.76 E-value=1.6e+02 Score=30.01 Aligned_cols=106 Identities=15% Similarity=0.227 Sum_probs=74.7
Q ss_pred cCCeeeecCceeeecCCC-----CCcc---eeeeccCC-CceeeccChHHHHhhhcc-CCC---ceeEEEecceecCcCC
Q 013856 264 SENFVEIHTPKLIAGSSE-----GGSA---VFRLDYKG-QSACLAQSPQLHKQMSIC-GDF---GRVFETGPVFRAEDSY 330 (435)
Q Consensus 264 ~~gF~EV~TP~l~~~~~e-----gga~---~F~~~~~~-~~~~L~~Spql~lq~li~-~g~---~rVfeIgp~FR~E~s~ 330 (435)
+.+.+.|..|.+....++ .|.+ .|.+..++ ..+-.-+|=--||.+++. -|| +.+|+=....|....-
T Consensus 29 ~LnL~rvsaPlfv~~~sGlnD~LnG~E~pV~F~~k~~~~~~~eiVhSLAKWKR~aL~~y~f~~geGlytdMnAiR~dE~l 108 (327)
T PRK05425 29 KLNLIRVSAPLFVRVGSGLNDNLNGVEKPVSFKVKDLPDATFEVVHSLAKWKRLALKRYGFSAGEGLYTDMNAIRPDEDL 108 (327)
T ss_pred hhCeeEecCCeEEcCCCCcccCCCCeecceEeeccCCCCCeeEEEeehHHHHHHHHHhcCCCCCceeccCCccccCCccc
Confidence 469999999999764332 1323 36665554 577788999999998875 244 5799988888864435
Q ss_pred CCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhh
Q 013856 331 THRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLN 370 (435)
Q Consensus 331 t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~ 370 (435)
++.|--=--|-|||..+.. -+--++.+.+.+..|+..+.
T Consensus 109 d~~HS~yVDQWDWEkvI~~-~~Rn~~~Lk~tV~~Iy~~ik 147 (327)
T PRK05425 109 DNTHSVYVDQWDWEKVIGK-EERNLDYLKETVEKIYKAIK 147 (327)
T ss_pred CcccceEeccccHHHhCCc-cccCHHHHHHHHHHHHHHHH
Confidence 8889777778899988864 34556666666666666654
No 201
>PRK04036 DNA polymerase II small subunit; Validated
Probab=62.73 E-value=32 Score=37.17 Aligned_cols=72 Identities=21% Similarity=0.285 Sum_probs=50.0
Q ss_pred eccccCCC-CCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEe
Q 013856 95 VGALNGSL-KDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVS 170 (435)
Q Consensus 95 i~~l~~~~-~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~ 170 (435)
+..|.+.. .|+.++|-|-|..+|...+.=..+.|-|.+++|+++...+. ++..+....|-.|.+|.|.|.+.
T Consensus 143 i~~l~~~~~~~~~~~viG~v~~~~~~~~g~~~~~LED~sgrv~l~~~~~~----~~~~~~~~~lvtg~vv~v~G~~~ 215 (504)
T PRK04036 143 IESLKKLKRGGEEVSIIGMVSDIRSTKNGHKIVELEDTTGTFPVLIMKDR----EDLAELADELLLDEVIGVEGTLS 215 (504)
T ss_pred HHHHhcCccCCceEEEEEEEEEeecccCCceEEEEECCCCeEEEEeecch----hhhhhhhhcccCceEEEEEEEEc
Confidence 34443333 57889999999999854322124789999999999986421 12233345788999999999875
No 202
>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=62.10 E-value=13 Score=43.63 Aligned_cols=37 Identities=16% Similarity=0.442 Sum_probs=31.5
Q ss_pred CCCEEEEEEEEeeecc-----CCCceEEEEEEeCCeEEEEEE
Q 013856 103 KDQEVLIRGRVHTTRP-----VGNKLAFVVVRERVSTVQCLA 139 (435)
Q Consensus 103 ~g~~V~v~GrV~~~R~-----~G~kl~Fl~Lrd~~~~iQvv~ 139 (435)
.|..|+|.|.|.++|. .|..|+|+.|.|.++.+.+++
T Consensus 980 ~g~~v~v~G~i~~~~~~~~tkkG~~maf~tleD~tg~ie~vi 1021 (1022)
T TIGR00594 980 NDSQVRTLGGLNSVKKKITTKNGKPMAFLQLEDETGSIEVVV 1021 (1022)
T ss_pred CCCEEEEEEEEEEEEEecccCCCCEEEEEEEEECCCcEEEEe
Confidence 5788999999987654 355699999999999999987
No 203
>PRK06386 replication factor A; Reviewed
Probab=61.46 E-value=80 Score=32.73 Aligned_cols=90 Identities=10% Similarity=0.080 Sum_probs=54.3
Q ss_pred eeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCC-eEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEe
Q 013856 92 WTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERV-STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVS 170 (435)
Q Consensus 92 ~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~-~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~ 170 (435)
..+|++|.+. +.-|+|.|+|..+ +.+ .++ ++++ +++|..+-....+ .-.+..|...|..|++|.|.+..+
T Consensus 107 ~~KI~DL~~g--~~~v~V~akVle~---~e~--e~~-~~g~~~~v~sg~lgDeTG-rIr~TlW~~~l~eGd~v~i~na~v 177 (358)
T PRK06386 107 LVKIRDLSLV--TPYVSVIGKITGI---TKK--EYD-SDGTSKIVYQGYIEDDTA-RVRISSFGKPLEDNRFVRIENARV 177 (358)
T ss_pred ccEeEeccCC--CCceEEEEEEEEc---cCc--eEe-cCCCccEEEEEEEEcCCC-eEEEEEccccccCCCEEEEeeeEE
Confidence 3577777543 4568899999765 112 224 3333 4555444332211 111223555689999999999875
Q ss_pred cCCccCCCCceeEEEEEeEEEEeecC
Q 013856 171 VPDVEIKGATQQVEVQIKKLYCVSRA 196 (435)
Q Consensus 171 ~~~~~~~~~t~~lEI~v~~i~vls~~ 196 (435)
.- -.|.+||++.+...+.+.
T Consensus 178 ~e------~~G~~el~v~~~t~I~~~ 197 (358)
T PRK06386 178 SQ------YNGYIEISVGNKSVIKEV 197 (358)
T ss_pred Ec------cCCeEEEEeCCeEEEEEC
Confidence 42 236799999998887765
No 204
>PLN02734 glycyl-tRNA synthetase
Probab=60.70 E-value=3.4 Score=46.05 Aligned_cols=30 Identities=30% Similarity=0.303 Sum_probs=23.2
Q ss_pred eeEEEecceecCcC--CCCccccchhhheeee
Q 013856 316 RVFETGPVFRAEDS--YTHRHLCEFTGLDVEM 345 (435)
Q Consensus 316 rVfeIgp~FR~E~s--~t~rHl~EFt~lE~e~ 345 (435)
.+-+||++||||=| +..--+-||+|.|+|.
T Consensus 277 ~~AQIGk~FRNEIsPR~gl~R~REF~qaEiE~ 308 (684)
T PLN02734 277 AAAQIGQAFRNEISPRQGLLRVREFTLAEIEH 308 (684)
T ss_pred eeeeccHhhhcccCcccceeeechhhhhhhhe
Confidence 47899999999942 2333568999999975
No 205
>PF03139 AnfG_VnfG: Vanadium/alternative nitrogenase delta subunit; InterPro: IPR004349 The nitrogenase complex 1.18.6.1 from EC catalyses the conversion of molecular nitrogen to ammonia (nitrogen fixation). The complex is hexameric, consisting of 2 alpha, 2 beta, and 2 delta subunits. This family represents the delta subunit of a group of nitrogenases that do not utilise molybdenum (Mo) as a cofactor, but instead use either vanadium (V nitrogenases), or iron (alternative nitrogenases). ; GO: 0016163 nitrogenase activity, 0009399 nitrogen fixation, 0055114 oxidation-reduction process
Probab=60.15 E-value=26 Score=30.12 Aligned_cols=51 Identities=14% Similarity=0.133 Sum_probs=43.3
Q ss_pred CCccccCCCCCccccHHHHHHHHHHcCCCCCCCCCCCcHHHHHHHHHHhcC
Q 013856 385 PFEPLKYKPKTLRLTFEEGVQMLKDAGVEIDPLGDLNTESERKLGQLVLEK 435 (435)
Q Consensus 385 ~~~~~~~~~p~~rit~~eai~ll~~~g~~~~~~~dl~te~E~~L~~~vkek 435 (435)
-.+++....|--|.=|.||+-|.......++|..+++.++=+.|.+-+|++
T Consensus 43 ~gE~v~~eTp~Drcyw~DAv~la~~~k~rfpW~~~~~k~ei~~lm~~lk~r 93 (112)
T PF03139_consen 43 CGEPVDLETPADRCYWVDAVCLAEAFKERFPWINEMSKDEIKSLMQGLKER 93 (112)
T ss_pred cCCCCCCCCchhHHHHHHHHHHHHHHHHcCcHHHHCCHHHHHHHHHHHHHH
Confidence 455666667889999999999888877889999999999999999888874
No 206
>PRK08402 replication factor A; Reviewed
Probab=59.13 E-value=53 Score=34.00 Aligned_cols=92 Identities=14% Similarity=0.180 Sum_probs=58.0
Q ss_pred eeEeccccCCCCCCEEEEEEEEeee---c----cCCC--ceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCce
Q 013856 92 WTEVGALNGSLKDQEVLIRGRVHTT---R----PVGN--KLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESI 162 (435)
Q Consensus 92 ~~~i~~l~~~~~g~~V~v~GrV~~~---R----~~G~--kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esi 162 (435)
..+|++|.+. .+.|++.|+|.++ | ..|. ++.=+.|-|+++++.+++=.. . .-++...|..|++
T Consensus 62 ~~kI~dl~~g--~~~V~v~~rVl~~~~~r~f~rrdG~~~~V~~i~l~DeTG~ir~TlW~~-~-----a~~~~~~l~~Gdv 133 (355)
T PRK08402 62 LMHISDLVPG--MRGVNIVGRVLRKYPPREYTKKDGSTGRVASLIIYDDTGRARVVLWDA-K-----VAKYYNKINVGDV 133 (355)
T ss_pred ccCHHHccCC--CceeeEEEEEEEccCCceeeccCCCcceEEEEEEEcCCCeEEEEEech-h-----hhhhcccCCCCCE
Confidence 3567777642 3689999999986 3 2232 344488999999997776432 1 1123456999999
Q ss_pred EEEEEEEecCCccCCCCceeEEEEEeEEEEeecC
Q 013856 163 VDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSRA 196 (435)
Q Consensus 163 V~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~~ 196 (435)
|.|.|.-+.- .-.|.+||++.+-..+...
T Consensus 134 i~I~~a~V~e-----~~~G~~eLsvg~~s~i~~~ 162 (355)
T PRK08402 134 IKVIDAQVRE-----SLSGLPELHINFRARIILN 162 (355)
T ss_pred EEEECCEEee-----cCCCcEEEEECCCceEEeC
Confidence 9998643321 1124468888765555443
No 207
>PF11736 DUF3299: Protein of unknown function (DUF3299); InterPro: IPR021727 This is a family of bacterial proteins of unknown function.
Probab=58.57 E-value=99 Score=27.86 Aligned_cols=85 Identities=18% Similarity=0.091 Sum_probs=48.4
Q ss_pred cCCCCCCEEEEEEEEeeeccCCCce-EEEEEEeCCeE--------EEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEE
Q 013856 99 NGSLKDQEVLIRGRVHTTRPVGNKL-AFVVVRERVST--------VQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVV 169 (435)
Q Consensus 99 ~~~~~g~~V~v~GrV~~~R~~G~kl-~Fl~Lrd~~~~--------iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v 169 (435)
...+.|+.|+|.|+|.-.-..+.++ -|+.+.+.+.. =|+|.-.....+ ..-..-+-|.|+|++
T Consensus 50 v~~L~Gk~V~i~Gf~vPle~~~~~v~eFlLvP~~gaC~h~PpPppNqiV~V~~~~~~--------~~~~~~~pv~V~G~l 121 (146)
T PF11736_consen 50 VKALDGKQVRIPGFMVPLEQEEGKVTEFLLVPYFGACIHVPPPPPNQIVHVKMPKPI--------PVDSLYDPVWVEGTL 121 (146)
T ss_pred hHHhCCCEEEEeeEEEeeccCCCcEEEEEEeccCCcCcCCCCCCCccEEEEEeCCCc--------cccccceeEEEEEEE
Confidence 3467899999999999988654333 68888775432 144433221111 011234679999999
Q ss_pred ecCCccCCCCceeEEEEEeEEE
Q 013856 170 SVPDVEIKGATQQVEVQIKKLY 191 (435)
Q Consensus 170 ~~~~~~~~~~t~~lEI~v~~i~ 191 (435)
........-.+..+.+.+.+|.
T Consensus 122 ~~~~~~~~~~~~~Y~m~a~~v~ 143 (146)
T PF11736_consen 122 KVERSSSDLGTSGYSMDADSVE 143 (146)
T ss_pred EeccccchheeEEEEEEeeEEE
Confidence 7543211111233666665554
No 208
>PLN02265 probable phenylalanyl-tRNA synthetase beta chain
Probab=58.49 E-value=31 Score=38.09 Aligned_cols=113 Identities=14% Similarity=0.127 Sum_probs=59.8
Q ss_pred HHHHHHHHHHHhhcCCeeeecCceeeecC--C-----CC-Ccceeee-ccCC-CceeeccChHHHHhhhccCCCc-----
Q 013856 251 QSQVGNIFRQFLLSENFVEIHTPKLIAGS--S-----EG-GSAVFRL-DYKG-QSACLAQSPQLHKQMSICGDFG----- 315 (435)
Q Consensus 251 rs~i~~~~R~fl~~~gF~EV~TP~l~~~~--~-----eg-ga~~F~~-~~~~-~~~~L~~Spql~lq~li~~g~~----- 315 (435)
...+.+.+|+.|...||.||-|-.|++.. . .. +.....+ |-.. .--+||.|-=--|=..+..+..
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 35666788999999999999999998642 0 00 1111222 2221 2235665532222112333332
Q ss_pred eeEEEecceecCcCCCCccccchhhheeeeccc-ccHHHHHHHHHHHHHH
Q 013856 316 RVFETGPVFRAEDSYTHRHLCEFTGLDVEMEIK-KHYSEVMDIVDCLFVT 364 (435)
Q Consensus 316 rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a~~-~~~~d~m~~~e~l~~~ 364 (435)
|+||||.||-.... ..+...|..+|=+-++.. .++.++-.+++.++..
T Consensus 479 klFEiG~V~~~~~~-~~~~~~e~~~la~~~~g~~~~f~~ikg~le~ll~~ 527 (597)
T PLN02265 479 KLFEVSDVVLLDES-KDVGARNSRRLAALYCGTTSGFEVIHGLVDRIMEV 527 (597)
T ss_pred eEEEeEeEEecCCc-ccCCcchhhEEEEEEECCCCCHhhHHHHHHHHHHH
Confidence 79999999954321 111111333333322221 1477877777777753
No 209
>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=57.76 E-value=46 Score=32.36 Aligned_cols=96 Identities=20% Similarity=0.341 Sum_probs=57.8
Q ss_pred HHHHHHHHHHhhcCCeeeecCceeeecC-C-----CCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEeccee
Q 013856 252 SQVGNIFRQFLLSENFVEIHTPKLIAGS-S-----EGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFR 325 (435)
Q Consensus 252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~-~-----egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR 325 (435)
+.|.+.+-+||.++|...|..--|++.. + ..|..+|+ ++||-+.+. ...|+-..-+|.|
T Consensus 2 ~eiR~~fl~FF~~kgH~~v~s~slvp~dDptllFtnAGM~~Fk------p~f~G~~~p---------~~~r~~~~QkCiR 66 (232)
T cd00673 2 SEIRETFLSFFEKKGHTRVPSSPVVPRDDPTLLFTNAGMNQFK------PIFLGEVPP---------PANRLVNSQKCIR 66 (232)
T ss_pred hHHHHHHHHHHHhCCCEEeCCCCcCCCCCCchheeccchhhhh------HHhcCCCCC---------CCCceeeeeecee
Confidence 4567888899999999999877676421 0 11222221 222222211 2357777888899
Q ss_pred cCc----CCCCccccchhhheeeecccccH--HHHHHHHHHHHHH
Q 013856 326 AED----SYTHRHLCEFTGLDVEMEIKKHY--SEVMDIVDCLFVT 364 (435)
Q Consensus 326 ~E~----s~t~rHl~EFt~lE~e~a~~~~~--~d~m~~~e~l~~~ 364 (435)
.-+ ..|.||++=|.||= -.+|.+ | ++.+..+=+++-.
T Consensus 67 ~~DienVG~t~rHhTfFEMLG-NfSFgd-YFK~eaI~~awe~LT~ 109 (232)
T cd00673 67 AGDIDNVGKTGRHHTFFEMLG-NFSFGD-YFKEEAIAFAWELLTE 109 (232)
T ss_pred cCChhhccccccchhhhhhhc-ccchhh-hhHHHHHHHHHHHHHh
Confidence 632 35899999888883 456654 4 4556555555443
No 210
>PRK05733 single-stranded DNA-binding protein; Provisional
Probab=56.11 E-value=1.7e+02 Score=27.10 Aligned_cols=56 Identities=14% Similarity=0.023 Sum_probs=37.0
Q ss_pred EEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCc-eeEEEEEe---EEEEeec
Q 013856 134 TVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGAT-QQVEVQIK---KLYCVSR 195 (435)
Q Consensus 134 ~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t-~~lEI~v~---~i~vls~ 195 (435)
-+-|++-.. ..-...+.|.+|+.|.|+|.+....-...+.+ ..+||.+. .|.+|+.
T Consensus 54 w~~Vv~fgk------~Ae~v~~~l~KGs~V~VeGrLr~~~y~kdG~~r~~~eVvvd~~g~v~~L~~ 113 (172)
T PRK05733 54 WHRVSLFGK------VAEIAGEYLRKGSQVYIEGKLQTREWEKDGIKRYTTEIVVDMQGTMQLLGG 113 (172)
T ss_pred EEEEEEehH------HHHHHHHHhCCCCEEEEEEEEEeCcEecCCEEEEEEEEEEeecCeEEECcC
Confidence 466666532 11234567999999999999975433323333 34899998 7898863
No 211
>PF13567 DUF4131: Domain of unknown function (DUF4131)
Probab=55.99 E-value=89 Score=26.97 Aligned_cols=60 Identities=18% Similarity=0.293 Sum_probs=39.2
Q ss_pred CCEEEEEEEEeeeccC-CCceEEEEEE------eC-----CeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856 104 DQEVLIRGRVHTTRPV-GNKLAFVVVR------ER-----VSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV 171 (435)
Q Consensus 104 g~~V~v~GrV~~~R~~-G~kl~Fl~Lr------d~-----~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~ 171 (435)
|+.+++.|.|.+.... +....| .++ .+ .++|++.+..... ..+.+||.+.++|.+..
T Consensus 75 ~~~~~v~g~V~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~i~~~~~~~~~----------~~l~~Gd~i~~~g~l~~ 143 (176)
T PF13567_consen 75 GKEVTVQGTVESVPQIDGRGQRF-TLRVERVLAGGNWIPVSGKILLYLPKDSQ----------PRLQPGDRIRVRGKLKP 143 (176)
T ss_pred CceEEEEEEEcccccccCceEEE-EEEEEEeeccccccccceeeEEEeccccc----------cccCCCCEEEEEEEEec
Confidence 7889999999887554 323223 232 11 3567777664321 16899999999999987
Q ss_pred CCc
Q 013856 172 PDV 174 (435)
Q Consensus 172 ~~~ 174 (435)
|..
T Consensus 144 ~~~ 146 (176)
T PF13567_consen 144 PSG 146 (176)
T ss_pred CCC
Confidence 653
No 212
>PRK08182 single-stranded DNA-binding protein; Provisional
Probab=55.57 E-value=1.6e+02 Score=26.51 Aligned_cols=64 Identities=8% Similarity=0.031 Sum_probs=40.8
Q ss_pred eEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCc-cCCCCc-eeEEEEEeEEEEeecC-CCCCcc
Q 013856 133 STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDV-EIKGAT-QQVEVQIKKLYCVSRA-AKTPIT 202 (435)
Q Consensus 133 ~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~-~~~~~t-~~lEI~v~~i~vls~~-~~lP~~ 202 (435)
.-+.|++-.. ........|.+|+.|.|+|.+....- ...+.+ ..++|.+.+|.+|... ...+..
T Consensus 54 ~w~~V~~wg~------~Ae~v~~~l~KG~~V~V~GrL~~~~w~dkdG~~r~~~eI~a~~i~~l~~r~~~~~~~ 120 (148)
T PRK08182 54 FWAPVELWHR------DAEHWARLYQKGMRVLVEGRMERDEWTDNEDNERVTFKVEARRVGILPYRIESVTLS 120 (148)
T ss_pred EEEEEEEEhH------HHHHHHHhcCCCCEEEEEEEEEecccCCCCCCEEEEEEEEEeEEEEcCCcccccEec
Confidence 3466776632 11224567999999999999874321 122333 3499999999988654 444443
No 213
>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=51.74 E-value=2.8e+02 Score=28.34 Aligned_cols=119 Identities=15% Similarity=0.172 Sum_probs=81.1
Q ss_pred HHHHHHHHHHHhh-----cCCeeeecCceeeecCCC-----CCcc---eeeeccC-CCceeeccChHHHHhhhcc-CCC-
Q 013856 251 QSQVGNIFRQFLL-----SENFVEIHTPKLIAGSSE-----GGSA---VFRLDYK-GQSACLAQSPQLHKQMSIC-GDF- 314 (435)
Q Consensus 251 rs~i~~~~R~fl~-----~~gF~EV~TP~l~~~~~e-----gga~---~F~~~~~-~~~~~L~~Spql~lq~li~-~g~- 314 (435)
.-..+..+++||. ..+.+.|..|.+....++ .|.+ .|.+... +..+-.-+|=--||.+++. -||
T Consensus 8 tq~aI~~iK~~F~~~L~~~L~L~rVsAPLfv~~~sGlnD~LnG~ErpV~f~~k~~~~~~~evVhSLAKWKR~aL~~y~f~ 87 (330)
T TIGR00669 8 QQQQISFVKSTFTQQLEERLGLIEVQGPILSQVGDGTQDNLSGREKAVQVKVKAIPDAQFEVVHSLAKWKRHTLARHDFS 87 (330)
T ss_pred HHHHHHHHHHHHHHHHHHHhCeEEeccceEEcCCCCCcCCCCCeecceEeecCCCCCceeEEehhhHHHHHHHHHhcCCC
Confidence 3344555555554 459999999999764322 1333 3666554 5777888999999998875 244
Q ss_pred --ceeEEEecceec-CcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhh
Q 013856 315 --GRVFETGPVFRA-EDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLN 370 (435)
Q Consensus 315 --~rVfeIgp~FR~-E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~ 370 (435)
+.+|+=....|. |.+-++.|--=--|-|||+.+.. -+--++.+.+.+..|+..+.
T Consensus 88 ~geGlytdMnAiR~De~~ldn~HS~yVDQWDWEkvI~~-~~R~~~~Lk~tV~~Iy~~ik 145 (330)
T TIGR00669 88 AGEGLFVHMKALRPDEDRLDPLHSVYVDQWDWEKVMPD-GERNFAYLKSTVEAIYAAIR 145 (330)
T ss_pred CCceeeeccccccCCccccCccceeeeccccHHHhcCc-ccccHHHHHHHHHHHHHHHH
Confidence 579998888886 55357888777778899988864 34556666666666666654
No 214
>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=51.30 E-value=41 Score=26.40 Aligned_cols=48 Identities=10% Similarity=0.132 Sum_probs=34.1
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEE
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIG 167 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G 167 (435)
.|.|+|.++..+| +|+++- .+.+-+.+..+. ++.. ..+..|+.+.+.=
T Consensus 7 ~v~g~V~si~d~G---~~v~~g--~~gv~Gfl~~~~--~~~~-----~~~~~Gq~v~~~V 54 (74)
T cd05694 7 VLSGCVSSVEDHG---YILDIG--IPGTTGFLPKKD--AGNF-----SKLKVGQLLLCVV 54 (74)
T ss_pred EEEEEEEEEeCCE---EEEEeC--CCCcEEEEEHHH--CCcc-----cccCCCCEEEEEE
Confidence 3899999999999 899983 123677777542 2221 5688998887754
No 215
>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=50.52 E-value=1.2e+02 Score=36.60 Aligned_cols=81 Identities=15% Similarity=0.210 Sum_probs=55.5
Q ss_pred CCEEEEEEEEeeecc----CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCC
Q 013856 104 DQEVLIRGRVHTTRP----VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGA 179 (435)
Q Consensus 104 g~~V~v~GrV~~~R~----~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~ 179 (435)
+..|+|.|.|-.+-. .|+.+.-+.|.|.+..|-|....... ...+....|..|+.|.|.|.+....-
T Consensus 7 ~~~~~~~g~i~~~~~~~~~~~~~~~~~~~~d~~~s~~~k~f~~~~----~~~~~~~~~~~g~~~~~~g~~~~d~~----- 77 (1213)
T TIGR01405 7 ENRVKIEGYIFKIEIKELKSGRTLLKIKVTDYTDSLILKKFLKSE----EDPEKFDGIKIGKWVRARGKIELDNF----- 77 (1213)
T ss_pred CCeEEEEEEEEEEEeEeccCCCEEEEEEEEcCCCCEEEEEecccc----cchHHHhhcCCCcEEEEEEEEeccCC-----
Confidence 568999999987532 46666668889998888887765322 11234578999999999999875421
Q ss_pred ceeEEEEEeEEEEe
Q 013856 180 TQQVEVQIKKLYCV 193 (435)
Q Consensus 180 t~~lEI~v~~i~vl 193 (435)
.+++.+.+..|..+
T Consensus 78 ~~~~~~~~~~~~~~ 91 (1213)
T TIGR01405 78 SRDLQMIIKDIEEI 91 (1213)
T ss_pred CCceEEEeeeeeec
Confidence 13566666665543
No 216
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=50.17 E-value=2.2e+02 Score=26.69 Aligned_cols=52 Identities=19% Similarity=0.242 Sum_probs=31.5
Q ss_pred eEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCcc-CCCCc-eeEEEEEeEE
Q 013856 133 STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVE-IKGAT-QQVEVQIKKL 190 (435)
Q Consensus 133 ~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~-~~~~t-~~lEI~v~~i 190 (435)
.-|.|++-.. .....+..|++||.|.|+|.+....-. ..+.+ ..+||.+.+|
T Consensus 53 ~fi~V~~Wg~------~Ae~va~~L~KGd~V~V~GrL~~r~wedkdG~~rt~~eV~a~~V 106 (186)
T PRK07772 53 LFLRCSIWRQ------AAENVAESLTKGMRVIVTGRLKQRSYETREGEKRTVVELEVDEI 106 (186)
T ss_pred eEEEEEEecH------HHHHHHHhcCCCCEEEEEEEEEcCceECCCCCEEEEEEEEEEEc
Confidence 3567777632 122345679999999999999743211 12322 2377777654
No 217
>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=49.68 E-value=1.3e+02 Score=23.96 Aligned_cols=71 Identities=10% Similarity=0.137 Sum_probs=42.8
Q ss_pred EEEEeeeccCCCceEEEEEEeC-CeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCC-ccCCCCceeEEEEE
Q 013856 110 RGRVHTTRPVGNKLAFVVVRER-VSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPD-VEIKGATQQVEVQI 187 (435)
Q Consensus 110 ~GrV~~~R~~G~kl~Fl~Lrd~-~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~-~~~~~~t~~lEI~v 187 (435)
+=|.+.....|..+.+ +|.|. |..||+.+... ...+|...|..|.+..+.+.-..+. .+.+...+.++|..
T Consensus 8 r~W~~~~~~~~~~~~m-iL~De~G~~I~a~i~~~------~~~~f~~~L~eg~vy~is~f~v~~~~~~y~~~~~~y~I~f 80 (86)
T cd04480 8 RLWDVYNNASGESLEM-VLVDEKGNRIHATIPKR------LAAKFRPLLKEGKWYTISNFEVAPNTGSYRPTDHPYKIKF 80 (86)
T ss_pred EEEcCcCCCCCcEEEE-EEEcCCCCEEEEEECHH------HHHhhhhhceeCCEEEEeeEEEEcCCCcccccCCcEEEEe
Confidence 4444444445655554 45555 55999999753 2345778899999999987544433 22333334566544
No 218
>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=49.58 E-value=46 Score=25.05 Aligned_cols=52 Identities=19% Similarity=0.271 Sum_probs=34.9
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHH-HHHHHhcCCCCceEEEEE
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKE-MVRFVRSLSNESIVDVIG 167 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~-~~~~~~~l~~esiV~V~G 167 (435)
.+.|+|.++...| +|+.|-++ +.+.+..+. ++.. ..+....++.|+.|.+.=
T Consensus 3 ~v~g~V~~v~~~G---v~V~l~~~---~~G~v~~s~--l~~~~~~~~~~~~~~Gd~v~~~v 55 (68)
T cd05707 3 VVRGFVKNIANNG---VFVTLGRG---VDARVRVSE--LSDSYLKDWKKRFKVGQLVKGKI 55 (68)
T ss_pred EEEEEEEEEECcc---EEEEeCCC---CEEEEEHHH--CCchhhcCHhhccCCCCEEEEEE
Confidence 3799999999988 89999653 677776542 2222 112334588898887753
No 219
>PRK06642 single-stranded DNA-binding protein; Provisional
Probab=49.52 E-value=2e+02 Score=25.95 Aligned_cols=44 Identities=14% Similarity=0.192 Sum_probs=29.9
Q ss_pred HHhcCCCCceEEEEEEEecCCc-cCCCCc-eeEEEEEeEE----EEeecC
Q 013856 153 FVRSLSNESIVDVIGVVSVPDV-EIKGAT-QQVEVQIKKL----YCVSRA 196 (435)
Q Consensus 153 ~~~~l~~esiV~V~G~v~~~~~-~~~~~t-~~lEI~v~~i----~vls~~ 196 (435)
..+.|.+||.|.|+|.+....- ...|.+ ...||.+.+| ..|...
T Consensus 68 ~~~~l~KG~~V~V~GrL~~~~y~dkdG~~r~~~eVvv~~~~~~i~fl~~k 117 (152)
T PRK06642 68 VERYVTKGSKLYIEGSLQTRKWNDNSGQEKYTTEVVLQNFNSQLILLDSK 117 (152)
T ss_pred HHHhCCCCCEEEEEEEEEeCeeECCCCCEEEEEEEEEEecccceEeccCC
Confidence 3456999999999999975422 123444 3489999876 666543
No 220
>COG3689 Predicted membrane protein [Function unknown]
Probab=47.97 E-value=43 Score=33.09 Aligned_cols=93 Identities=11% Similarity=0.159 Sum_probs=58.7
Q ss_pred cCCCCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCC
Q 013856 99 NGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKG 178 (435)
Q Consensus 99 ~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~ 178 (435)
.++..|++|.+.|.|.+=-..+++ .++..| .+-+=|++++...+..-++ +--..++..++|.|+|++....-+. .
T Consensus 170 pdef~Gk~Ie~tGFVy~~~~~~~N-~lflaR--FgiicC~ADa~vygl~v~~-~~~~~y~ndtWltvkGtl~~e~~~~-~ 244 (271)
T COG3689 170 PDEFAGKKIEFTGFVYNDESFPKN-YLFLAR--FGIICCAADAGVYGLLVEL-DNQTDYKNDTWLTVKGTLSSEYLSD-F 244 (271)
T ss_pred chhhcCceEEEEEEEECCCCCCcc-eeehhh--hheeeeeccceeEEEEEEc-cccccCCCCceEEEEeEEEeeecCc-h
Confidence 356889999999999986666655 333444 4455666665432210000 0124689999999999997432111 1
Q ss_pred CceeEEEEEeEEEEeecC
Q 013856 179 ATQQVEVQIKKLYCVSRA 196 (435)
Q Consensus 179 ~t~~lEI~v~~i~vls~~ 196 (435)
.....-|++.+++++.+.
T Consensus 245 ~~~ipvi~v~sv~~I~kP 262 (271)
T COG3689 245 KKRIPVIEVDSVEVIPKP 262 (271)
T ss_pred hhcCcEEEeeeeeecCCC
Confidence 123477999999998765
No 221
>PRK07218 replication factor A; Provisional
Probab=45.81 E-value=1.1e+02 Score=32.42 Aligned_cols=83 Identities=20% Similarity=0.155 Sum_probs=53.3
Q ss_pred eeEeccccCCCCCCEEEEEEEEeeec-----cCC--CceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEE
Q 013856 92 WTEVGALNGSLKDQEVLIRGRVHTTR-----PVG--NKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVD 164 (435)
Q Consensus 92 ~~~i~~l~~~~~g~~V~v~GrV~~~R-----~~G--~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~ 164 (435)
-.+|++|.+. ++.|.|.|||-++- ..| ..+.=+.|-|.+|+|.+++=.. ..|..||+|.
T Consensus 58 ~~kI~Di~~~--~~~V~v~~kVl~i~~rt~r~dg~~g~v~~~~igDeTG~Ir~tlW~~------------~~l~~Gdvv~ 123 (423)
T PRK07218 58 SKDIKELSTD--DKNVTVTGRVLTIGERSIRYQGDDHVIYEGILADETGTISYTAWKD------------FGLSPGDTVT 123 (423)
T ss_pred CccHhhCCCC--CceeEEEEEEEEecceeEecCCCceEEEEEEEECCCCeEEEEEECC------------CCCCCCCEEE
Confidence 3577788653 57899999999883 112 1455556666677777666421 1399999999
Q ss_pred EEEEEecCCccCCCCceeEEEEEeEEEEee
Q 013856 165 VIGVVSVPDVEIKGATQQVEVQIKKLYCVS 194 (435)
Q Consensus 165 V~G~v~~~~~~~~~~t~~lEI~v~~i~vls 194 (435)
|.+.....- .+.++|.+.+-..+.
T Consensus 124 I~na~vre~------~g~~el~ig~~t~I~ 147 (423)
T PRK07218 124 IGNAGVREW------DGRPELNIGESTTVS 147 (423)
T ss_pred EeccEeecc------CCceEEeccCcceEE
Confidence 998654321 245788876544443
No 222
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=45.11 E-value=1.6e+02 Score=36.12 Aligned_cols=90 Identities=14% Similarity=0.233 Sum_probs=58.0
Q ss_pred eeEeccccCCCCCCEEEEEEEEeee--c--cCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEE
Q 013856 92 WTEVGALNGSLKDQEVLIRGRVHTT--R--PVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIG 167 (435)
Q Consensus 92 ~~~i~~l~~~~~g~~V~v~GrV~~~--R--~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G 167 (435)
.+.+.++.. .+..|+|.|.|-.+ | ..|+.+.=+.|.|.+..|-|....... +..+....|+.|++|.|.|
T Consensus 226 ~~~~~~i~~--~~~~v~i~G~if~~e~~~~k~~~~~~~~~~td~~~s~~~k~f~~~~----~~~~~~~~~~~g~~v~~~g 299 (1437)
T PRK00448 226 ITPMKEINE--EERRVVVEGYVFKVEIKELKSGRHILTFKITDYTSSIIVKKFSRDK----EDLKKFDEIKKGDWVKVRG 299 (1437)
T ss_pred cccHHHhhc--cCCeEEEEEEEEEEEEEeccCCCEEEEEEEEcCCCCEEEEEEecCc----chhHHHhcCCCCCEEEEEE
Confidence 345555542 35689999999886 2 245455556788988877777665322 1224457899999999999
Q ss_pred EEecCCccCCCCceeEEEEEeEEEE
Q 013856 168 VVSVPDVEIKGATQQVEVQIKKLYC 192 (435)
Q Consensus 168 ~v~~~~~~~~~~t~~lEI~v~~i~v 192 (435)
.+....- .+++.+.+..|..
T Consensus 300 ~~~~d~~-----~~~~~~~~~~~~~ 319 (1437)
T PRK00448 300 SVQNDTF-----TRDLVMNAQDINE 319 (1437)
T ss_pred EEeccCC-----CCceEEEeeeeee
Confidence 9875321 1345555555544
No 223
>KOG2298 consensus Glycyl-tRNA synthetase and related class II tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=45.08 E-value=5.5 Score=42.35 Aligned_cols=29 Identities=31% Similarity=0.298 Sum_probs=23.1
Q ss_pred eEEEecceecCcC--CCCccccchhhheeee
Q 013856 317 VFETGPVFRAEDS--YTHRHLCEFTGLDVEM 345 (435)
Q Consensus 317 VfeIgp~FR~E~s--~t~rHl~EFt~lE~e~ 345 (435)
+-+||.+||||=| .+.-+..||||.|+|-
T Consensus 212 ~AqiG~~fRNEISpRsGLlRvrEF~maEIEH 242 (599)
T KOG2298|consen 212 SAQIGKSFRNEISPRSGLLRVREFTMAEIEH 242 (599)
T ss_pred HHHhchHhhhccCcccCceeEEEeehHHhhc
Confidence 3479999999954 3566889999999873
No 224
>PRK00036 primosomal replication protein N; Reviewed
Probab=45.05 E-value=83 Score=26.94 Aligned_cols=53 Identities=9% Similarity=0.162 Sum_probs=38.3
Q ss_pred CeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEEeec
Q 013856 132 VSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYCVSR 195 (435)
Q Consensus 132 ~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~vls~ 195 (435)
...||+++.. ++......++.|+.|.|+|.+.... . ....+=+|++.|..+..
T Consensus 46 ~~~i~ava~G-------~~a~~~~~l~~Gs~v~v~GFLa~~~--~--~~~~LVLHi~~Ie~i~~ 98 (107)
T PRK00036 46 ELTISAVALG-------DLALLLADTPLGTEMQVQGFLAPAR--K--DSVKVKLHLQQARRIAG 98 (107)
T ss_pred EEEEEEEEEh-------hHHHHhcccCCCCEEEEEEEEEECC--C--CCCcEEEEhHHeEEccc
Confidence 4567887763 3455667899999999999998511 1 12458899999988744
No 225
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=45.05 E-value=2.6e+02 Score=26.01 Aligned_cols=58 Identities=14% Similarity=0.013 Sum_probs=36.8
Q ss_pred eEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCcc-CCCCc-eeEEEEEe---EEEEeecC
Q 013856 133 STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVE-IKGAT-QQVEVQIK---KLYCVSRA 196 (435)
Q Consensus 133 ~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~-~~~~t-~~lEI~v~---~i~vls~~ 196 (435)
.-+.|++-.+ ......+.|++||.|.|+|.+....-. ..+.+ ..+||.+. ++.+|.+.
T Consensus 54 ~w~~V~~fgk------~Ae~~~~~L~KGs~V~VeGrL~~~~yedkdG~~r~~~eVvv~~~~~~~~l~~r 116 (177)
T PRK09010 54 EWHRVVLFGK------LAEVAGEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGR 116 (177)
T ss_pred EEEEEEEehh------HHHHHHHhcCCCCEEEEEEEEEeccccCCCCCEEEEEEEEEecCCcEEEccCC
Confidence 3466766632 112245679999999999999743221 22333 34888877 78888754
No 226
>PRK07218 replication factor A; Provisional
Probab=44.55 E-value=2.1e+02 Score=30.33 Aligned_cols=76 Identities=11% Similarity=0.071 Sum_probs=49.4
Q ss_pred CCEEEEEEEEeeecc------CC-CceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccC
Q 013856 104 DQEVLIRGRVHTTRP------VG-NKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEI 176 (435)
Q Consensus 104 g~~V~v~GrV~~~R~------~G-~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~ 176 (435)
+.-|+|.|+|..+=. -| ..+.=..|-|.+++|.+++=.. ...|..|++|.|.|..+.-
T Consensus 172 ~~~V~v~g~Vl~~~~r~f~~~dg~~~v~~giigDeTG~Ir~tlW~~-----------~~~l~~Gd~v~I~na~v~e---- 236 (423)
T PRK07218 172 DRGVNVEARVLELEHREIDGRDGETTILSGVLADETGRLPFTDWDP-----------LPEIEIGASIRIEDAYVRE---- 236 (423)
T ss_pred CCceEEEEEEEEecceeEEcCCCCeEEEEEEEECCCceEEEEEecc-----------cccCCCCCEEEEeeeEEec----
Confidence 445899999997711 12 1333345667777777776431 1258999999999977642
Q ss_pred CCCceeEEEEEeEEEEeecC
Q 013856 177 KGATQQVEVQIKKLYCVSRA 196 (435)
Q Consensus 177 ~~~t~~lEI~v~~i~vls~~ 196 (435)
-.|.+||++.+-.-+...
T Consensus 237 --~~G~~elnv~~~t~I~~~ 254 (423)
T PRK07218 237 --FRGVPSVNVSEFTTVEAL 254 (423)
T ss_pred --cCCeEEEEECCceEEEEC
Confidence 125699999865555443
No 227
>PRK06253 O-phosphoseryl-tRNA synthetase; Reviewed
Probab=43.85 E-value=26 Score=37.99 Aligned_cols=50 Identities=12% Similarity=0.225 Sum_probs=32.9
Q ss_pred eeEEEecceecCcCCCCccccchhhheeeec-ccccHHHHHHHHHHHHHHH
Q 013856 316 RVFETGPVFRAEDSYTHRHLCEFTGLDVEME-IKKHYSEVMDIVDCLFVTI 365 (435)
Q Consensus 316 rVfeIgp~FR~E~s~t~rHl~EFt~lE~e~a-~~~~~~d~m~~~e~l~~~i 365 (435)
|+||||+|||.+.....+|+.-+.....-.. -.-++.|+..+++.|+..+
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 9999999998864224467766655532111 1114888999999888764
No 228
>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=42.95 E-value=53 Score=25.51 Aligned_cols=55 Identities=9% Similarity=-0.007 Sum_probs=36.9
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCC-HHHHHHHhcCCCCceEEEEEE
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVS-KEMVRFVRSLSNESIVDVIGV 168 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~-~~~~~~~~~l~~esiV~V~G~ 168 (435)
.|.|.|.++-..| +|+.|.++ |.+.+....-.-+ ...-++.+.++.|+.|.+.=.
T Consensus 3 ~V~g~V~~i~~~g---~~V~l~~~---i~G~i~~~~ls~~~~~~~~~~~~~~vG~~v~~kV~ 58 (73)
T cd05703 3 EVTGFVNNVSKEF---VWLTISPD---VKGRIPLLDLSDDVSVLEHPEKKFPIGQALKAKVV 58 (73)
T ss_pred EEEEEEEEEeCCE---EEEEeCCC---cEEEEEHHHcCCccccccCHHHhCCCCCEEEEEEE
Confidence 4789999998888 89999654 7888875421100 012245677999998877543
No 229
>COG2965 PriB Primosomal replication protein N [DNA replication, recombination, and repair]
Probab=42.85 E-value=1e+02 Score=26.07 Aligned_cols=73 Identities=11% Similarity=0.152 Sum_probs=41.3
Q ss_pred CCCceEEEEEEeC------CeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCceeEEEEEeEEEE
Q 013856 119 VGNKLAFVVVRER------VSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQIKKLYC 192 (435)
Q Consensus 119 ~G~kl~Fl~Lrd~------~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~v~~i~v 192 (435)
+|-..|=+.|.-. +..=|+-+.-.--....+...|..+|+.||.+.|.|.+..-.+. +.-..+-|+...|+.
T Consensus 24 sGIphc~f~Lehrs~q~Eag~~RQv~~~mpv~vsG~qa~~lt~~i~~Gs~i~v~GFla~~~~~--sg~~~lvlha~qi~~ 101 (103)
T COG2965 24 SGIPHCQFVLEHRSWQEEAGFQRQVWCEMPVRVSGRQAEELTQSITVGSYILVVGFLACHKRR--SGLSKLVLHAEQIEF 101 (103)
T ss_pred CCCeeEEEEEeecchhhhCCcceeEEEEccEEeechhhhhhhhccccccEEEEEEEEEeeccc--CCccEEEEEeeEEEe
Confidence 3544555556543 23444444421111234444566789999999999999753221 212457777777765
Q ss_pred e
Q 013856 193 V 193 (435)
Q Consensus 193 l 193 (435)
+
T Consensus 102 i 102 (103)
T COG2965 102 I 102 (103)
T ss_pred c
Confidence 3
No 230
>PRK13165 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=41.74 E-value=2e+02 Score=26.44 Aligned_cols=72 Identities=14% Similarity=0.156 Sum_probs=50.5
Q ss_pred CCCCEEEEEEEEe--eeccCCC--ceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCC
Q 013856 102 LKDQEVLIRGRVH--TTRPVGN--KLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIK 177 (435)
Q Consensus 102 ~~g~~V~v~GrV~--~~R~~G~--kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~ 177 (435)
..|+.|+|.|.|. ++...+. .+.| .|.|+..+|.|....- ++ ..+.-|.-|.|+|.+...+
T Consensus 55 ~~g~~iRvgG~V~~GSi~r~~~~l~v~F-~vtD~~~~v~V~Y~Gi---lP-------DlFrEG~gVVveG~~~~~g---- 119 (160)
T PRK13165 55 EVGQRLRVGGMVMPGSVQRDPNSLKVSF-TLYDAGGSVTVTYEGI---LP-------DLFREGQGIVAQGVLEEGN---- 119 (160)
T ss_pred CCCCEEEEeeEEeCCcEEECCCCeEEEE-EEEcCCeEEEEEEccc---CC-------ccccCCCeEEEEEEECCCC----
Confidence 4689999999998 6666554 3565 7889999998887632 22 2466789999999885321
Q ss_pred CCceeEEEEEeEEEEeecC
Q 013856 178 GATQQVEVQIKKLYCVSRA 196 (435)
Q Consensus 178 ~~t~~lEI~v~~i~vls~~ 196 (435)
.++++ .||.+|
T Consensus 120 ------~F~A~--~vLAKh 130 (160)
T PRK13165 120 ------HIEAK--EVLAKH 130 (160)
T ss_pred ------eEEEE--EEEecC
Confidence 23343 578888
No 231
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=41.26 E-value=94 Score=37.13 Aligned_cols=62 Identities=24% Similarity=0.410 Sum_probs=46.3
Q ss_pred CCEEEEEEEEeeecc-----CCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856 104 DQEVLIRGRVHTTRP-----VGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV 171 (435)
Q Consensus 104 g~~V~v~GrV~~~R~-----~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~ 171 (435)
+..+.+.|=|..+|. .|++++|+.|.|.++.+-+|+.. ....++...+-.+.++.|.|.+..
T Consensus 976 ~~~~~~~~~i~~vr~~~tk~~G~~~~f~tl~D~~g~~e~v~f~------~~~~~~~~~l~~~~~~~v~g~v~~ 1042 (1139)
T COG0587 976 GRRVVLAGGIVAVRQRPTKAKGNKMAFLTLEDETGILEVVVFP------SEYERYRRLLLEGRLLIVKGKVQR 1042 (1139)
T ss_pred cceeEEEEEEEEEEEeeccCCCCEEEEEEEecCCCcEEEEEcH------HHHHHHHHHhccCcEEEEEEEEEe
Confidence 334777777777654 35569999999999988888763 244455666777799999999875
No 232
>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=39.00 E-value=69 Score=24.06 Aligned_cols=51 Identities=16% Similarity=0.216 Sum_probs=34.7
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHH-HHHHHhcCCCCceEEEE
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKE-MVRFVRSLSNESIVDVI 166 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~-~~~~~~~l~~esiV~V~ 166 (435)
.+.|+|.++...| +|+.|-++ +++++..+. ++.+ ..+....++.|+.|.|.
T Consensus 3 ~~~g~V~~v~~~G---~~V~l~~~---~~gli~~s~--l~~~~~~~~~~~~~~G~~i~v~ 54 (70)
T cd05698 3 KTHGTIVKVKPNG---CIVSFYNN---VKGFLPKSE--LSEAFIKDPEEHFRVGQVVKVK 54 (70)
T ss_pred EEEEEEEEEecCc---EEEEECCC---CEEEEEHHH--cChhhcCCHHHcccCCCEEEEE
Confidence 3789999999888 89999542 788887642 2221 11122458889988886
No 233
>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=38.63 E-value=2e+02 Score=22.82 Aligned_cols=54 Identities=17% Similarity=0.200 Sum_probs=31.8
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCC-----eEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEec
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERV-----STVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSV 171 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~-----~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~ 171 (435)
+|.|-|......+..-.|+ |.|.. .+-..+.-.... ...+.+||.|.|+|+|..
T Consensus 1 ~v~GvVTa~~~~~~~~Gff-iQd~~~d~~~~ts~gifV~~~~---------~~~~~~Gd~V~vtG~v~e 59 (78)
T cd04486 1 TVEGVVTAVFSGGGLGGFY-IQDEDGDGDPATSEGIFVYTGS---------GADVAVGDLVRVTGTVTE 59 (78)
T ss_pred CeEEEEEEEcCCCCcCEEE-EEcCCCCCCCcccceEEEecCC---------CCCCCCCCEEEEEEEEEe
Confidence 3678888877643122565 56541 123333322110 246899999999999974
No 234
>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=37.91 E-value=59 Score=24.50 Aligned_cols=51 Identities=12% Similarity=0.126 Sum_probs=32.6
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHH-HHHHHhcCCCCceEEEE
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKE-MVRFVRSLSNESIVDVI 166 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~-~~~~~~~l~~esiV~V~ 166 (435)
.|.|.|.++...| +|++|.. .+.+++..+.- +.. .......++.||.|.+.
T Consensus 3 iv~g~V~~i~~~~---~~v~l~~---~~~g~l~~~e~--~~~~~~~~~~~~~~Gd~i~~~ 54 (70)
T cd05687 3 IVKGTVVSVDDDE---VLVDIGY---KSEGIIPISEF--SDDPIENGEDEVKVGDEVEVY 54 (70)
T ss_pred EEEEEEEEEeCCE---EEEEeCC---CceEEEEHHHh--CccccCCHhHcCCCCCEEEEE
Confidence 3689999998876 8999943 35777765421 111 01123458899988776
No 235
>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=37.63 E-value=89 Score=24.36 Aligned_cols=53 Identities=17% Similarity=0.224 Sum_probs=33.7
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCC---CCCCHHHHHHHhcCCCCceEEEEE
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKP---DSVSKEMVRFVRSLSNESIVDVIG 167 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~---~~~~~~~~~~~~~l~~esiV~V~G 167 (435)
.|.|.|.++...| +|++|.. .+.+.+...+ ..+. ..-++.+.++.|+.|.+.=
T Consensus 6 ~V~g~V~~i~~~G---~fV~l~~---~v~G~v~~~~ls~~~~~-~~~~~~~~~~~G~~v~~kV 61 (74)
T cd05705 6 LLRGYVSSVTKQG---VFFRLSS---SIVGRVLFQNVTKYFVS-DPSLYNKYLPEGKLLTAKV 61 (74)
T ss_pred EEEEEEEEEeCCc---EEEEeCC---CCEEEEEHHHccCcccc-ChhhHhcccCCCCEEEEEE
Confidence 4789999999888 8999954 3566666321 1111 1112346689999887543
No 236
>COG2502 AsnA Asparagine synthetase A [Amino acid transport and metabolism]
Probab=36.24 E-value=4.5e+02 Score=26.23 Aligned_cols=117 Identities=17% Similarity=0.215 Sum_probs=71.6
Q ss_pred HHHHHHHHHhh-cCCeeeecCceeeecCCC-----CCcc-e--eeeccCCC-ceeeccChHHHHhhhccC-CC---ceeE
Q 013856 253 QVGNIFRQFLL-SENFVEIHTPKLIAGSSE-----GGSA-V--FRLDYKGQ-SACLAQSPQLHKQMSICG-DF---GRVF 318 (435)
Q Consensus 253 ~i~~~~R~fl~-~~gF~EV~TP~l~~~~~e-----gga~-~--F~~~~~~~-~~~L~~Spql~lq~li~~-g~---~rVf 318 (435)
.+-+.|...|. ..|.+||..|+|.....+ .|.+ + |.+.-... .+-.-.|---||.+.++- || +.+|
T Consensus 14 fvKn~Ft~~l~~~L~lieVq~Pils~vg~G~qDnLsg~ekaVsv~vk~~p~a~fEvVhSLAKWKR~tL~r~~f~~~eGly 93 (330)
T COG2502 14 FVKNTFTQHLEERLGLIEVQAPILSRVGDGLQDNLSGTEKAVSVKVKKLPDATFEVVHSLAKWKRHTLARYGFSAGEGLY 93 (330)
T ss_pred HHHHHHHHHHHHhcCeEEeecceEeccCCcccccccccccceEEEEeecCCchhhhhHHHHHHHHHHHHhcCCcCCCcee
Confidence 34445555554 469999999999753211 1233 2 44433322 244567777888877642 33 6899
Q ss_pred EEecceec-CcCCCCccccchhhheeeecccccHHHHHHHHHHHHHHHhHHhh
Q 013856 319 ETGPVFRA-EDSYTHRHLCEFTGLDVEMEIKKHYSEVMDIVDCLFVTIFDSLN 370 (435)
Q Consensus 319 eIgp~FR~-E~s~t~rHl~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i~~~~~ 370 (435)
.=....|. |++-+..|.-=--+-|||...-+ -+--+..+.+.+..|...+.
T Consensus 94 thM~AlRpDeD~ld~~HSvYVDQWDWEkvi~~-g~rNl~yLK~tV~kIY~~ir 145 (330)
T COG2502 94 THMKALRPDEDRLDPIHSVYVDQWDWEKVIPD-GDRNLAYLKSTVEKIYAAIR 145 (330)
T ss_pred eechhcCCCcccccchheEEecccchhhhcCC-ccccHHHHHHHHHHHHHHHH
Confidence 99999996 66678888766667788776654 23444555555555555543
No 237
>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=34.96 E-value=72 Score=25.65 Aligned_cols=62 Identities=13% Similarity=0.113 Sum_probs=38.6
Q ss_pred CCCCCEEEEEEEEeeeccCCCceEEEEEE---eCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEE
Q 013856 101 SLKDQEVLIRGRVHTTRPVGNKLAFVVVR---ERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVV 169 (435)
Q Consensus 101 ~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lr---d~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v 169 (435)
-..|+-|.|+..+.... -..-+.+- +..+.+++.+.....+ .+-.|+..++.||.|.|.|=.
T Consensus 30 ~~pGQ~v~v~~~~~~~~----~~R~yS~~s~~~~~~~~~~~ik~~~~G---~~S~~L~~l~~Gd~v~i~gP~ 94 (99)
T PF00970_consen 30 FKPGQFVSVRVPINGKQ----VSRPYSPASSPDDKGYLEFAIKRYPNG---RVSRYLHQLKPGDEVEIRGPY 94 (99)
T ss_dssp STTT-EEEEEEEETTEE----EEEEEEBCSSTTSSSEEEEEEEECTTS---HHHHHHHTSCTTSEEEEEEEE
T ss_pred cCcceEEEEEEccCCcc----eecceeEeeecCCCCcEEEEEEeccCC---HHHHHHHhCCCCCEEEEEEcc
Confidence 35599999988833210 01122322 2345788888875332 345678889999999999954
No 238
>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=34.74 E-value=1e+02 Score=23.38 Aligned_cols=51 Identities=14% Similarity=0.198 Sum_probs=33.2
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHH-HHHhcCCCCceEEEE
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMV-RFVRSLSNESIVDVI 166 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~-~~~~~l~~esiV~V~ 166 (435)
.+.|.|..+...| +|+.|-.+ +++++..+. ++.+.. +....++.||.|.+.
T Consensus 6 iv~g~V~~v~~~g---i~v~l~~~---~~g~v~~s~--l~~~~~~~~~~~~~~Gd~v~~~ 57 (73)
T cd05706 6 ILPGRVTKVNDRY---VLVQLGNK---VTGPSFITD--ALDDYSEALPYKFKKNDIVRAC 57 (73)
T ss_pred EEEEEEEEEeCCe---EEEEeCCC---cEEEEEhhh--ccCccccccccccCCCCEEEEE
Confidence 3689999998887 89998554 788887642 221111 123447888877664
No 239
>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=33.41 E-value=99 Score=23.49 Aligned_cols=53 Identities=15% Similarity=0.177 Sum_probs=34.5
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHH-HHHhcCCCCceEEEE
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMV-RFVRSLSNESIVDVI 166 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~-~~~~~l~~esiV~V~ 166 (435)
.+.|.|..+...| +|++|.+.. .+.+++..+. .+.+.+ ..-..++.|+.|.|.
T Consensus 6 ~~~g~V~~v~~~g---~~v~l~~~~-~~~gll~~s~--l~~~~~~~~~~~~~~Gd~v~vk 59 (76)
T cd04452 6 LVVVTVKSIADMG---AYVSLLEYG-NIEGMILLSE--LSRRRIRSIRKLVKVGRKEVVK 59 (76)
T ss_pred EEEEEEEEEEccE---EEEEEcCCC-CeEEEEEhHH--cCCcccCCHHHeeCCCCEEEEE
Confidence 3689999999988 899997632 2567776542 221111 123458899988875
No 240
>PF01411 tRNA-synt_2c: tRNA synthetases class II (A); InterPro: IPR018164 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. Alanyl-tRNA synthetase (6.1.1.7 from EC) is an alpha4 tetramer that belongs to class IIc. ; GO: 0000166 nucleotide binding, 0004813 alanine-tRNA ligase activity, 0005524 ATP binding, 0006419 alanyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3HY1_A 3HXZ_C 3HXY_A 3HXU_A 3HY0_B 3HXV_A 3HXX_A 3HXW_A 2E1B_A 2ZZG_B ....
Probab=33.31 E-value=52 Score=36.05 Aligned_cols=96 Identities=14% Similarity=0.177 Sum_probs=50.3
Q ss_pred HHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccC-----CCceeEEEecceecC-
Q 013856 254 VGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICG-----DFGRVFETGPVFRAE- 327 (435)
Q Consensus 254 i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~-----g~~rVfeIgp~FR~E- 327 (435)
|-+.|-+||.++|..-|..--|++. -+.+++++.|+---.|-.+.| ...|+=..-||.|.-
T Consensus 2 iR~~fl~fF~~~gH~~v~s~~lvp~-------------~d~~llf~~Agm~~fkp~f~g~~~~p~~~r~~~~Q~CiR~~G 68 (552)
T PF01411_consen 2 IREKFLDFFEKKGHTIVPSSSLVPR-------------WDPTLLFTNAGMNQFKPYFLGGEVPPPANRLVSSQKCIRTGG 68 (552)
T ss_dssp HHHHHHHHHHTTT-EEE----SS-T-------------T-TTBSS--SGGGGGCCCCTTSSS--SSSCEEEEEEEE-EET
T ss_pred HHHHHHHHHHHCCCEEeccCCcccC-------------CCCCceeeHhhHHHHHHHhcCCCCCCCCCcccccceeeccCC
Confidence 4567788999999888876555441 122233333332222223333 347899999999987
Q ss_pred ---c----CCCCccccchhhheeeecccccH-HHHHHHHHHHHH
Q 013856 328 ---D----SYTHRHLCEFTGLDVEMEIKKHY-SEVMDIVDCLFV 363 (435)
Q Consensus 328 ---~----s~t~rHl~EFt~lE~e~a~~~~~-~d~m~~~e~l~~ 363 (435)
+ ..|.||++=|.||=- .+|-+.+ ++.+..+-+++.
T Consensus 69 khnDld~VG~t~rH~T~FEMlGn-~sfgdYfK~eai~~awe~lt 111 (552)
T PF01411_consen 69 KHNDLDNVGRTGRHHTFFEMLGN-FSFGDYFKEEAIEYAWEFLT 111 (552)
T ss_dssp TEECGGGTTTSSS--SEEEEEEE-EEECSS-HHHHHHHHHHHHH
T ss_pred CcchhhhcCCCceEeeehhhccc-cccccccHHHHHHHHHHHHH
Confidence 2 358999988888753 5565532 345555555544
No 241
>CHL00192 syfB phenylalanyl-tRNA synthetase beta chain; Provisional
Probab=32.75 E-value=97 Score=35.04 Aligned_cols=110 Identities=18% Similarity=0.176 Sum_probs=58.0
Q ss_pred HHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeee-ccCC-CceeeccC--hHHHHhhhccCC------CceeEEEe
Q 013856 252 SQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRL-DYKG-QSACLAQS--PQLHKQMSICGD------FGRVFETG 321 (435)
Q Consensus 252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~-~~~~-~~~~L~~S--pql~lq~li~~g------~~rVfeIg 321 (435)
..+.+.+|++|...||.|+-|-.+++... ....+..+ |-.. .--+||.| |.|-. .+... --|+||||
T Consensus 401 ~~~~~~ir~~L~~~Gf~Evitysf~s~~~-~~~~~i~l~NPiS~e~s~lR~SLlpgLL~--~~~~N~~r~~~~~rlFEiG 477 (704)
T CHL00192 401 YNTRDKIRSYLRNLGLTELIHYSLVKQES-FSKNEIKLKNPLIKDYSTLRSSLLPGLIE--AVQENLKQGNSTLEGFEIG 477 (704)
T ss_pred HHHHHHHHHHHHhCCCceEecccccChhh-cCCCcEEEeCCCchHHHHHHHHHHHHHHH--HHHHHHhcCCCCEeEEEee
Confidence 34466689999999999999999976421 11122222 2222 23356655 33322 22212 22799999
Q ss_pred cceecCcC--CCCccccchhhhe------eee--cccccHHHHHHHHHHHHHHH
Q 013856 322 PVFRAEDS--YTHRHLCEFTGLD------VEM--EIKKHYSEVMDIVDCLFVTI 365 (435)
Q Consensus 322 p~FR~E~s--~t~rHl~EFt~lE------~e~--a~~~~~~d~m~~~e~l~~~i 365 (435)
.||-..+. ...+|+.=...-. |.- .-. ++.|+-..+|.++..+
T Consensus 478 ~Vf~~~~~~~~e~~~la~~~~g~~~~~~~w~~~~~~~-dF~d~Kg~le~ll~~l 530 (704)
T CHL00192 478 HVFNLDSSSIIEETELAGGIFGGIDIRSSWSEKAQSL-NWFEAKGIIENFFQKL 530 (704)
T ss_pred eeEcCCCccccccceEEEEEECCCcCccccCCCCCcc-CHHHHHHHHHHHHHHC
Confidence 99943211 1112221111111 110 011 3778888888888654
No 242
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=32.69 E-value=45 Score=25.74 Aligned_cols=23 Identities=17% Similarity=0.270 Sum_probs=19.5
Q ss_pred HHHHHHHHHHHHHhhcCCeeeec
Q 013856 249 RIQSQVGNIFRQFLLSENFVEIH 271 (435)
Q Consensus 249 ~~rs~i~~~~R~fl~~~gF~EV~ 271 (435)
+.|..|++.||+||...|=+.|-
T Consensus 2 ~kre~i~~~iR~~fs~lG~I~vL 24 (62)
T PF15513_consen 2 RKREEITAEIRQFFSQLGEIAVL 24 (62)
T ss_pred cHHHHHHHHHHHHHHhcCcEEEE
Confidence 46889999999999999977654
No 243
>PRK06341 single-stranded DNA-binding protein; Provisional
Probab=32.28 E-value=4e+02 Score=24.49 Aligned_cols=44 Identities=14% Similarity=0.140 Sum_probs=28.5
Q ss_pred HHhcCCCCceEEEEEEEecCCc-cCCCCc-eeEEEEEeEE----EEeecC
Q 013856 153 FVRSLSNESIVDVIGVVSVPDV-EIKGAT-QQVEVQIKKL----YCVSRA 196 (435)
Q Consensus 153 ~~~~l~~esiV~V~G~v~~~~~-~~~~~t-~~lEI~v~~i----~vls~~ 196 (435)
..+.|++|+.|.|+|.+....- ...+.+ ..+||.+..| ..|.+.
T Consensus 68 ~~~~LkKG~~V~VeGrL~~r~w~dkdG~~r~~~eIiv~~~~~~l~~l~~~ 117 (166)
T PRK06341 68 AEQYLKKGAKVYIEGQLQTRKWTDQSGVERYSTEVVLQGFNSTLTMLDGR 117 (166)
T ss_pred HHHhcCCCCEEEEEEEEEeCcEECCCCCEEEEEEEEEEecccceEEcccC
Confidence 3467999999999999874321 122333 3488888764 666543
No 244
>PF12569 NARP1: NMDA receptor-regulated protein 1 ; InterPro: IPR021183 This group represents N-terminal acetyltransferase A (NatA) auxiliary subunit and represents a non-catalytic component of the NatA N-terminal acetyltransferase, which catalyzes acetylation of proteins beginning with Met-Ser, Met-Gly and Met-Ala. N-terminal acetylation plays a role in normal eukaryotic translation and processing, protect against proteolytic degradation and protein turnover. NAT1 anchors ARD1 and NAT5 to the ribosome and may present the N- terminal of nascent polypeptides for acetylation [], [].
Probab=31.82 E-value=79 Score=34.40 Aligned_cols=25 Identities=20% Similarity=0.319 Sum_probs=17.1
Q ss_pred ccccChhHHHHHHHHHHHHHHHHHH
Q 013856 18 SQSISKKAAKKEAAKKAKEERRKEA 42 (435)
Q Consensus 18 ~~~~sk~~lkk~~k~~~k~~kka~~ 42 (435)
...+|-.+.||..|++.|+++|+++
T Consensus 404 ~~~~~~~e~Kk~~kK~kK~~~k~~~ 428 (517)
T PF12569_consen 404 NENMSAAERKKAKKKAKKAAKKAKK 428 (517)
T ss_pred cccCChHHHHHHHHHHHHHHHHHhH
Confidence 3467777777777777777666653
No 245
>PRK13150 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=31.57 E-value=4.1e+02 Score=24.37 Aligned_cols=72 Identities=15% Similarity=0.134 Sum_probs=50.6
Q ss_pred CCCCEEEEEEEEe--eeccCCC--ceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCC
Q 013856 102 LKDQEVLIRGRVH--TTRPVGN--KLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIK 177 (435)
Q Consensus 102 ~~g~~V~v~GrV~--~~R~~G~--kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~ 177 (435)
..|+.++|.|.|. ++...+. .+.| .|.|+..+|.|....- + + ..+.-|.-|.++|.+...+
T Consensus 55 ~~g~~iRvgG~V~~GSv~r~~~~~~v~F-~vtD~~~~v~V~Y~Gi---l-P------DlFrEG~gVVveG~~~~~g---- 119 (159)
T PRK13150 55 AVGQRLRVGGMVMPGSVRRDPDSLKVNF-SLYDAEGSVTVSYEGI---L-P------DLFREGQGVVVQGTLEKGN---- 119 (159)
T ss_pred CCCCEEEEeeEEeCCcEEECCCCcEEEE-EEEcCCcEEEEEEecc---C-C------ccccCCCeEEEEEEECCCC----
Confidence 4689999999998 6655432 4565 7899999998887642 2 2 2467789999999985321
Q ss_pred CCceeEEEEEeEEEEeecC
Q 013856 178 GATQQVEVQIKKLYCVSRA 196 (435)
Q Consensus 178 ~~t~~lEI~v~~i~vls~~ 196 (435)
-++++ .||.+|
T Consensus 120 ------~F~A~--evLAKh 130 (159)
T PRK13150 120 ------HVLAH--EVLAKH 130 (159)
T ss_pred ------EEEEe--EEEeCC
Confidence 13343 578888
No 246
>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=30.34 E-value=1.1e+02 Score=22.92 Aligned_cols=52 Identities=15% Similarity=0.286 Sum_probs=33.1
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHH-HHHHHhcCCCCceEEEEE
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKE-MVRFVRSLSNESIVDVIG 167 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~-~~~~~~~l~~esiV~V~G 167 (435)
.+.|+|.++...| +|+.|-.+ +-+++.... .+.. .......++.|+.+.+.=
T Consensus 3 ~v~g~V~~v~~~G---v~V~l~~~---v~g~i~~~~--l~~~~~~~~~~~~~~Gd~i~~~V 55 (69)
T cd05697 3 VVKGTIRKLRPSG---IFVKLSDH---IKGLVPPMH--LADVRLKHPEKKFKPGLKVKCRV 55 (69)
T ss_pred EEEEEEEEEeccE---EEEEecCC---cEEEEEHHH--CCCccccCHHHcCCCCCEEEEEE
Confidence 3789999999988 89998643 667775431 1111 111234688888877643
No 247
>PF03755 YicC_N: YicC-like family, N-terminal region ; InterPro: IPR013527 Proteins in this entry are homologues of YicC (P23839 from SWISSPROT) from Escherichia coli. Although it is relatively poorly characterised YicC has been shown to be important for cells in the stationary phase, and essential for growth at high temperatures []. This domain is found at the N-terminal region of these proteins.
Probab=29.24 E-value=73 Score=28.81 Aligned_cols=39 Identities=23% Similarity=0.414 Sum_probs=26.0
Q ss_pred cccceeeeechhhhhHHHHHHHHHHHHHHHhhcCCeeeec
Q 013856 232 LNNRVIDIRTLANQGIFRIQSQVGNIFRQFLLSENFVEIH 271 (435)
Q Consensus 232 l~~R~Ldlr~~~~~~i~~~rs~i~~~~R~fl~~~gF~EV~ 271 (435)
+++||||+...--....-+=..|-+.+++++ .||-++|.
T Consensus 26 vN~R~Ldi~~rlP~~l~~lE~~ir~~i~~~l-~RGkV~v~ 64 (159)
T PF03755_consen 26 VNHRFLDISIRLPRELSSLEPEIRKLIRKKL-SRGKVEVS 64 (159)
T ss_pred cccCceeeEEeCCHHHHHHHHHHHHHHHHhc-ccceEEEE
Confidence 5789999976433444444455556666555 68999987
No 248
>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=29.22 E-value=1e+02 Score=22.58 Aligned_cols=51 Identities=25% Similarity=0.283 Sum_probs=32.7
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHH-HHHhcCCCCceEEEE
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMV-RFVRSLSNESIVDVI 166 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~-~~~~~l~~esiV~V~ 166 (435)
.+.|+|..+...| +|+.|-++ +.+++....- +...+ .....++.||.|.|.
T Consensus 3 ~~~g~V~~v~~~G---~~v~l~~~---~~g~l~~~~l--~~~~~~~~~~~~~~Gd~v~v~ 54 (68)
T cd04472 3 IYEGKVVKIKDFG---AFVEILPG---KDGLVHISEL--SDERVEKVEDVLKVGDEVKVK 54 (68)
T ss_pred EEEEEEEEEEEeE---EEEEeCCC---CEEEEEhHHc--CCccccCHHHccCCCCEEEEE
Confidence 4689999999988 89998654 5677664321 11111 112357889888776
No 249
>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=29.11 E-value=1.5e+02 Score=24.62 Aligned_cols=29 Identities=10% Similarity=0.259 Sum_probs=21.9
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeC
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVK 142 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~ 142 (435)
.|-|+|.++...| +|+.|-.+ +.+.+..+
T Consensus 6 vV~G~V~~v~~~g---l~v~L~~g---~~G~v~~s 34 (100)
T cd05693 6 LVLGQVKEITKLD---LVISLPNG---LTGYVPIT 34 (100)
T ss_pred EEEEEEEEEcCCC---EEEECCCC---cEEEEEHH
Confidence 4789999999888 88888643 56666543
No 250
>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=29.06 E-value=1.2e+02 Score=22.75 Aligned_cols=50 Identities=18% Similarity=0.249 Sum_probs=33.4
Q ss_pred EEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHH-HHHhcCCCCceEEEE
Q 013856 109 IRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMV-RFVRSLSNESIVDVI 166 (435)
Q Consensus 109 v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~-~~~~~l~~esiV~V~ 166 (435)
|.|.|..+...| +|+.|..+ +.+++..+. .+.+.+ +....++.|+.|.+.
T Consensus 4 v~g~V~~v~~~g---~~v~l~~~---~~g~i~~~~--~~~~~~~~~~~~~~~Gd~v~~~ 54 (73)
T cd05691 4 VTGKVTEVDAKG---ATVKLGDG---VEGFLRAAE--LSRDRVEDATERFKVGDEVEAK 54 (73)
T ss_pred EEEEEEEEECCe---EEEEeCCC---CEEEEEHHH--CCCccccCHHHccCCCCEEEEE
Confidence 689999998877 88998654 677776542 222111 223457899988775
No 251
>COG0072 PheT Phenylalanyl-tRNA synthetase beta subunit [Translation, ribosomal structure and biogenesis]
Probab=28.35 E-value=1.1e+02 Score=34.24 Aligned_cols=112 Identities=18% Similarity=0.137 Sum_probs=61.0
Q ss_pred HHHHHHHHHHHHhhcCCeeeecCceeeecC----CCCCcc-eeee-ccC-CCceeeccChHHHHhhhccC----C--Cce
Q 013856 250 IQSQVGNIFRQFLLSENFVEIHTPKLIAGS----SEGGSA-VFRL-DYK-GQSACLAQSPQLHKQMSICG----D--FGR 316 (435)
Q Consensus 250 ~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~----~egga~-~F~~-~~~-~~~~~L~~Spql~lq~li~~----g--~~r 316 (435)
..+...+.+|++|...||.||-|-.|++.. ..++.. ...+ +-. -.--+||.|---.|-.++.- + --|
T Consensus 352 ~~~~~~r~vr~~l~~~G~~Evitysl~s~e~~~~~~~~~~~~~~l~NPiS~e~s~mR~sLlp~LL~~~~~N~~r~~~~~~ 431 (650)
T COG0072 352 PLQKFRRKVRRALVGLGFQEVITYSLTSPEEAKLFGLENDEALELANPISEEYSVLRTSLLPGLLEALSYNKNRKNPDVR 431 (650)
T ss_pred hHHHHHHHHHHHHHhCCcceEeeeccCCHHHHHHhccCCCcceEecCCcchhHHHHHHHHHHHHHHHHHHhhccCCCCee
Confidence 556677889999999999999999997632 111111 1111 111 11234555543333333321 1 248
Q ss_pred eEEEecceecCcCCCC--ccc---------cchhhheeeecccccHHHHHHHHHHHHHHH
Q 013856 317 VFETGPVFRAEDSYTH--RHL---------CEFTGLDVEMEIKKHYSEVMDIVDCLFVTI 365 (435)
Q Consensus 317 VfeIgp~FR~E~s~t~--rHl---------~EFt~lE~e~a~~~~~~d~m~~~e~l~~~i 365 (435)
+||||.+|-..+.... +|+ .+-|.-. .-. ++.++-..++.++..+
T Consensus 432 iFEiG~v~~~~~~~~~~~~~~~~l~~g~~~~~~w~~~---~~v-~f~d~Kg~ve~ll~~l 487 (650)
T COG0072 432 IFEIGDVFVKDEEAERETRHLAGLAAGLAGEESWQGK---RPV-DFYDAKGDLEALLEAL 487 (650)
T ss_pred EEEeeeeEecCCcccchhHHHHHHhhccccccccccC---CCc-CHHHHHHHHHHHHHHh
Confidence 9999999997532111 111 1222221 012 3677777777777765
No 252
>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=28.33 E-value=2.5e+02 Score=20.81 Aligned_cols=50 Identities=16% Similarity=0.060 Sum_probs=32.9
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCe-EEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEE
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVS-TVQCLATVKPDSVSKEMVRFVRSLSNESIVDVI 166 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~-~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~ 166 (435)
.+.|+|.++...| ..+-+.|+-+++ +|.+.+.... + .--.|..|+-|.+.
T Consensus 8 ~l~g~I~~i~~~g-~~~~v~l~~~~~~~l~a~i~~~~-------~-~~l~l~~G~~v~~~ 58 (69)
T TIGR00638 8 QLKGKVVAIEDGD-VNAEVDLLLGGGTKLTAVITLES-------V-AELGLKPGKEVYAV 58 (69)
T ss_pred EEEEEEEEEEECC-CeEEEEEEECCCCEEEEEecHHH-------H-hhCCCCCCCEEEEE
Confidence 5899999998877 566677776555 7777765321 0 11257788876553
No 253
>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=27.86 E-value=2.3e+02 Score=22.02 Aligned_cols=53 Identities=13% Similarity=0.021 Sum_probs=33.2
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEE
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIG 167 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G 167 (435)
.|-|+|..+...| +++++... .++.+....-. .....+....++.||.|.+.=
T Consensus 9 iV~G~V~~v~~~~---~~V~i~~~---~~g~l~~~~~~-~~~~~~~~~~~~~GD~i~~~V 61 (82)
T cd04454 9 IVIGIVTEVNSRF---WKVDILSR---GTARLEDSSAT-EKDKKEIRKSLQPGDLILAKV 61 (82)
T ss_pred EEEEEEEEEcCCE---EEEEeCCC---ceEEeechhcc-CcchHHHHhcCCCCCEEEEEE
Confidence 3589999998766 78888443 67776654211 111223345689999876643
No 254
>COG1098 VacB Predicted RNA binding protein (contains ribosomal protein S1 domain) [Translation, ribosomal structure and biogenesis]
Probab=27.78 E-value=1.6e+02 Score=25.94 Aligned_cols=52 Identities=21% Similarity=0.333 Sum_probs=37.0
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHH-hcCCCCceEEEEE
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFV-RSLSNESIVDVIG 167 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~-~~l~~esiV~V~G 167 (435)
.+.|+|..+-.-| +|+.|-.+. |..+--+ .+...+++-+ ..|+.|+-|.|.=
T Consensus 8 ~l~GkItgI~~yG---AFV~l~~g~---tGLVHIS--EIa~~fVkdI~d~L~vG~eV~vKV 60 (129)
T COG1098 8 KLKGKITGITPYG---AFVELEGGK---TGLVHIS--EIADGFVKDIHDHLKVGQEVKVKV 60 (129)
T ss_pred eEEEEEEeeEecc---eEEEecCCC---cceEEeh--HhhhhhHHhHHHHhcCCCEEEEEE
Confidence 4789999999999 899998876 3444432 2344556544 4699999888764
No 255
>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=26.63 E-value=2.6e+02 Score=20.48 Aligned_cols=50 Identities=14% Similarity=0.023 Sum_probs=35.8
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCeE-EEEEEeeCCCCCCHHHHHHHhcCCCCceEEEE
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVST-VQCLATVKPDSVSKEMVRFVRSLSNESIVDVI 166 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~~-iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~ 166 (435)
.+.|+|..+...| ...++.++-+++. |-+.+... .. -.-.|..|+-|.+.
T Consensus 6 ~l~g~V~~ie~~g-~~~~v~~~~~~~~~l~a~it~~------~~--~~L~L~~G~~V~~~ 56 (64)
T PF03459_consen 6 QLPGTVESIENLG-SEVEVTLDLGGGETLTARITPE------SA--EELGLKPGDEVYAS 56 (64)
T ss_dssp EEEEEEEEEEESS-SEEEEEEEETTSEEEEEEEEHH------HH--HHCT-STT-EEEEE
T ss_pred EEEEEEEEEEECC-CeEEEEEEECCCCEEEEEEcHH------HH--HHcCCCCCCEEEEE
Confidence 5899999999999 7899999988877 88887642 10 01248889877654
No 256
>PRK00629 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed
Probab=26.13 E-value=1.6e+02 Score=33.83 Aligned_cols=109 Identities=15% Similarity=0.140 Sum_probs=57.3
Q ss_pred HHHHHHHHHhhcCCeeeecCceeeecC-CC--C-Ccceeee-ccCC-CceeeccChHHHHhhhc----cCCCc--eeEEE
Q 013856 253 QVGNIFRQFLLSENFVEIHTPKLIAGS-SE--G-GSAVFRL-DYKG-QSACLAQSPQLHKQMSI----CGDFG--RVFET 320 (435)
Q Consensus 253 ~i~~~~R~fl~~~gF~EV~TP~l~~~~-~e--g-ga~~F~~-~~~~-~~~~L~~Spql~lq~li----~~g~~--rVfeI 320 (435)
.+.+.+|++|...||.||-|-.+++.. .. + ......+ |-.. .--+||.|-=.-|=..+ ..+.. ++|||
T Consensus 491 ~~~~~ir~~L~~~Gf~Ev~tysf~~~~~~~~~~~~~~~i~l~NPis~e~~~lR~SLlp~LL~~~~~N~~~~~~~i~lFEi 570 (791)
T PRK00629 491 RLLRRLRRALAALGYQEVITYSFVSPEDAKLFGLNPEPLLLLNPISEELSVMRTSLLPGLLEAVAYNLNRGNKDVALFEI 570 (791)
T ss_pred HHHHHHHHHHHHCCCcEEeccccCCHHHHHhcCCCCCeEEEeCCCchHHHHHHHhhHHHHHHHHHHHHhCCCCCEeEEee
Confidence 345678999999999999999997641 11 0 0012222 2222 22356655322221122 12333 89999
Q ss_pred ecceecCcCCCCccccchhhheeeecc-------c----ccHHHHHHHHHHHHHHH
Q 013856 321 GPVFRAEDSYTHRHLCEFTGLDVEMEI-------K----KHYSEVMDIVDCLFVTI 365 (435)
Q Consensus 321 gp~FR~E~s~t~rHl~EFt~lE~e~a~-------~----~~~~d~m~~~e~l~~~i 365 (435)
|+||.... + ...|-+.|=+-++. . -++.++-..++.++..+
T Consensus 571 G~Vf~~~~--~--~~~e~~~la~~~~g~~~~~~w~~~~~~df~~~Kg~le~ll~~l 622 (791)
T PRK00629 571 GRVFLPDG--D--LPREPEHLAGVLTGNRVEESWGGKRPVDFFDLKGDVEALLEAL 622 (791)
T ss_pred eeeeCCCC--C--CCcchhEEEEEEECCCccccccccCCCCHHHHHHHHHHHHHHc
Confidence 99996421 0 01122222221111 0 13778888888888644
No 257
>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=26.12 E-value=2.7e+02 Score=20.54 Aligned_cols=49 Identities=16% Similarity=0.106 Sum_probs=36.2
Q ss_pred EEEEEEeeeccCCCceEEEEEEeC--CeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEE
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRER--VSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVI 166 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~--~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~ 166 (435)
.+.|+|..++..| -++.++|... +..|.+-++... ..-.+..|+.|.+.
T Consensus 6 ~l~a~V~~v~~~G-~~vRlEl~~~~~~~~iEvel~~~~---------~~l~l~~G~~V~l~ 56 (58)
T PF12857_consen 6 GLPARVRRVRPVG-PEVRLELKRLDDGEPIEVELPRER---------RQLGLQPGDRVYLR 56 (58)
T ss_pred cEeEEEEEEEecC-CeEEEEEEECCCCCEEEEEeCHhH---------HhcCCCCCCEEEEE
Confidence 4788999999999 7799999644 567888876431 12356679988775
No 258
>PRK13159 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=25.98 E-value=3.9e+02 Score=24.46 Aligned_cols=58 Identities=17% Similarity=0.200 Sum_probs=42.3
Q ss_pred CCCCEEEEEEEEe--eeccCCC--ceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEe
Q 013856 102 LKDQEVLIRGRVH--TTRPVGN--KLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVS 170 (435)
Q Consensus 102 ~~g~~V~v~GrV~--~~R~~G~--kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~ 170 (435)
..++.++|.|.|. ++...+. .+.| .+.|+..+|.|....- + ++ ..+-|.-|.++|.+.
T Consensus 49 ~~~~~~RlGG~V~~GSv~r~~~~~~v~F-~vtD~~~~v~V~Y~Gi---l-PD------lFrEGqgVVaeG~~~ 110 (155)
T PRK13159 49 AGYQQFRLGGMVKAGSIQRAADSLKVSF-TVIDKNAATQVEYTGI---L-PD------LFRDNQSVIANGRMQ 110 (155)
T ss_pred ccCCeEEEccEEecCcEEEcCCCcEEEE-EEEcCCcEEEEEEccC---C-Cc------cccCCCeEEEEEEEc
Confidence 3468899999998 6666654 4566 6789999998887632 2 22 456788899999874
No 259
>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=25.93 E-value=1.3e+02 Score=34.62 Aligned_cols=106 Identities=18% Similarity=0.267 Sum_probs=56.0
Q ss_pred HHHHHHhhcCCeeeecCceeeecC-CC-----CCcceeee-ccCC-CceeeccC--hHHHHhhhc--cCCCc--eeEEEe
Q 013856 256 NIFRQFLLSENFVEIHTPKLIAGS-SE-----GGSAVFRL-DYKG-QSACLAQS--PQLHKQMSI--CGDFG--RVFETG 321 (435)
Q Consensus 256 ~~~R~fl~~~gF~EV~TP~l~~~~-~e-----gga~~F~~-~~~~-~~~~L~~S--pql~lq~li--~~g~~--rVfeIg 321 (435)
+.+|++|...||.||-|-.+++.. .. .......+ |-.. .--+||.| |.|..-..- ..+.. |+||||
T Consensus 498 ~~~r~~L~~~Gf~Ev~tysl~s~~~~~~~~~~~~~~~i~l~NPis~e~s~lR~SLlpgLL~~~~~N~~~~~~~~~lFEiG 577 (798)
T TIGR00472 498 RKLRTLLVGLGLNEVITYSLVSSEKAEKFNFPKLENLVEIKNPLSNERSVLRTSLLPSLLEVLAYNQNRKNKDVKIFEIG 577 (798)
T ss_pred HHHHHHHHHCCCcEEeccccCCHHHHHhhcCCCCCceEEEeCCCchHHHHHHHhhHHHHHHHHHHHHhCCCCCEeEEeee
Confidence 467999999999999999997641 10 00002222 2221 22245554 333332111 12233 899999
Q ss_pred cceecCcCCCCccccchhhheeeeccc------------ccHHHHHHHHHHHHHHH
Q 013856 322 PVFRAEDSYTHRHLCEFTGLDVEMEIK------------KHYSEVMDIVDCLFVTI 365 (435)
Q Consensus 322 p~FR~E~s~t~rHl~EFt~lE~e~a~~------------~~~~d~m~~~e~l~~~i 365 (435)
.||...+. . ..|..+|=+-++.. -++.|+-..++.++..+
T Consensus 578 ~V~~~~~~-~---~~e~~~La~~~~g~~~~~~~~~~~~~~df~d~Kg~le~ll~~l 629 (798)
T TIGR00472 578 KVFAKDGL-G---VKEQLRLAILISGEKNPSSWNHKEEKVDFYDLKGDVESLLELL 629 (798)
T ss_pred cccCCCCC-C---cchhhEEEEEEECCCCcccccCCCCcCChHHHHHHHHHHHHHc
Confidence 99954221 0 11333332222210 13778888888888644
No 260
>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=25.62 E-value=1.7e+02 Score=22.17 Aligned_cols=53 Identities=11% Similarity=0.088 Sum_probs=31.1
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCH-HHHHHHhcCCCCceEEEE
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSK-EMVRFVRSLSNESIVDVI 166 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~-~~~~~~~~l~~esiV~V~ 166 (435)
.|.|+|..+...| +|+.|-.+ +.+.+..+.-..+. ....-...+..|++|.+.
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 3789999998877 88888543 67777643210000 011113457788877654
No 261
>PF15490 Ten1_2: Telomere-capping, CST complex subunit
Probab=25.48 E-value=3.8e+02 Score=23.27 Aligned_cols=68 Identities=9% Similarity=0.061 Sum_probs=43.6
Q ss_pred eeEeccc--cCCCCCCEEEEEEEEeeeccCCCceEEEEE----EeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEE
Q 013856 92 WTEVGAL--NGSLKDQEVLIRGRVHTTRPVGNKLAFVVV----RERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDV 165 (435)
Q Consensus 92 ~~~i~~l--~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~L----rd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V 165 (435)
+..+.++ +....|++|++-||+++.-..- .+ ..| .+++..+.|-..- +++ -....||...+
T Consensus 7 ~~~l~Evs~~~~~~g~svR~~GrL~~yD~~~-~~--a~l~~~~~~~~~~l~V~t~~----l~~------~~~~~gslyq~ 73 (118)
T PF15490_consen 7 YVFLWEVSSGFVPEGKSVRTFGRLQSYDVAT-SR--ATLTAQHESDQHSLKVDTKL----LEP------FQARVGSLYQF 73 (118)
T ss_pred EEehHHhcCccccCCCeEEEEEEEEEEeccC-CE--EEEEeeccCCCcEEEEEeeE----ccc------cccCCCCEEEE
Confidence 3344444 2357799999999999997775 44 355 4445555444332 221 13479999999
Q ss_pred EEEEecC
Q 013856 166 IGVVSVP 172 (435)
Q Consensus 166 ~G~v~~~ 172 (435)
.|.+...
T Consensus 74 iGEl~~~ 80 (118)
T PF15490_consen 74 IGELEHQ 80 (118)
T ss_pred EEEEEEE
Confidence 9988643
No 262
>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=24.95 E-value=1.5e+02 Score=21.58 Aligned_cols=51 Identities=22% Similarity=0.274 Sum_probs=32.2
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHH-HHHHHhcCCCCceEEEE
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKE-MVRFVRSLSNESIVDVI 166 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~-~~~~~~~l~~esiV~V~ 166 (435)
.+.|+|..+...| +|+.|.++ +.+++....- +.+ ....-..++.|+.|.|.
T Consensus 3 ~~~g~V~~i~~~G---~fv~l~~~---~~g~~~~~~l--~~~~~~~~~~~~~~Gd~v~v~ 54 (68)
T cd05685 3 VLEGVVTNVTDFG---AFVDIGVK---QDGLIHISKM--ADRFVSHPSDVVSVGDIVEVK 54 (68)
T ss_pred EEEEEEEEEeccc---EEEEcCCC---CEEEEEHHHC--CCccccCHHHhcCCCCEEEEE
Confidence 3789999999888 89998643 6677764321 111 00112347888888775
No 263
>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=24.69 E-value=1.3e+02 Score=22.76 Aligned_cols=53 Identities=17% Similarity=0.185 Sum_probs=32.5
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEE
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVI 166 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~ 166 (435)
.+.|+|.++...| +|+.|-+ ..+.+++..+.-. ..........++.||.|.|.
T Consensus 5 ~v~g~V~~i~~~g---~~v~l~~--~~~~g~i~~~~l~-~~~~~~~~~~~~~Gd~v~v~ 57 (77)
T cd05708 5 KIDGTVRRVEDYG---VFIDIDG--TNVSGLCHKSEIS-DNRVADASKLFRVGDKVRAK 57 (77)
T ss_pred EEEEEEEEEEcce---EEEEECC--CCeEEEEEHHHCC-CCccCCHhHeecCCCEEEEE
Confidence 3789999999888 8998864 2356666543210 00011112457899988775
No 264
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=24.43 E-value=8.5e+02 Score=29.66 Aligned_cols=79 Identities=15% Similarity=0.182 Sum_probs=51.6
Q ss_pred EEEEEEEEeee----ccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecCCccCCCCce
Q 013856 106 EVLIRGRVHTT----RPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVPDVEIKGATQ 181 (435)
Q Consensus 106 ~V~v~GrV~~~----R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~~~~~~~~t~ 181 (435)
.|.|.|-|-.+ ..+|..+.=+.+.|.+.++=+...... ++-.+....|+.|.+|.++|.|.... -++
T Consensus 241 ~v~v~G~IF~~e~~~~ksGr~l~~i~vTD~t~Sl~~k~f~~~----~ed~~~~~~ik~g~wvk~~g~v~~d~-----f~~ 311 (1444)
T COG2176 241 RVKVEGYIFKIEIKELKSGRTLLNIKVTDYTSSLILKKFLRD----EEDEKKFDGIKKGMWVKARGNVQLDT-----FTR 311 (1444)
T ss_pred ceEEEEEEEEEeeeecccCcEEEEEEEecCchheeehhhccc----cccHHHHhhcccCcEEEEEEEEEecc-----ccc
Confidence 49999999875 345767777778888765444333221 12235678999999999999987642 124
Q ss_pred eEEEEEeEEEEe
Q 013856 182 QVEVQIKKLYCV 193 (435)
Q Consensus 182 ~lEI~v~~i~vl 193 (435)
++.+.+.+|.-+
T Consensus 312 ~l~m~i~~I~ei 323 (1444)
T COG2176 312 DLTMIINDINEI 323 (1444)
T ss_pred ceEEEhhhhhhh
Confidence 456666555444
No 265
>PLN02900 alanyl-tRNA synthetase
Probab=24.36 E-value=1.2e+02 Score=35.56 Aligned_cols=100 Identities=17% Similarity=0.200 Sum_probs=57.2
Q ss_pred HHHHHHHHHHhhcCCeeeecCceeeecC------CCCCcceeeeccCCCceeeccChHHHHhhhccCCCceeEEEeccee
Q 013856 252 SQVGNIFRQFLLSENFVEIHTPKLIAGS------SEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGDFGRVFETGPVFR 325 (435)
Q Consensus 252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~------~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g~~rVfeIgp~FR 325 (435)
+.|-+.|-+||.++|-.-|.+--|++.. +..|..+| +++||-+.+-.+ =.+.+.|+=..-+|.|
T Consensus 14 ~eiR~~Fl~FF~~~gH~~v~s~slvp~~dptllftnAGm~~F------k~~f~G~~~p~~----~~~~~~R~~~~QkCiR 83 (936)
T PLN02900 14 DRIRRTFLSFFESKGHTFLPSSPLVPVDDPTLLFTNAGMNQF------KPIFLGTADPNT----PLRKLPRATNTQKCIR 83 (936)
T ss_pred HHHHHHHHHHHHhCCCEEeCCCCcCCCCCCCeeeeecchhhh------hhhhcCCCCCCC----CCCCCCceeeeccccc
Confidence 4556677889999999999877776521 01123333 233333332100 0123567888889999
Q ss_pred c-------Cc-CCCCccccchhhheeeecccccH-HHHHHHHHHHH
Q 013856 326 A-------ED-SYTHRHLCEFTGLDVEMEIKKHY-SEVMDIVDCLF 362 (435)
Q Consensus 326 ~-------E~-s~t~rHl~EFt~lE~e~a~~~~~-~d~m~~~e~l~ 362 (435)
+ |+ ..|.||.+=|-||=- .+|-+.+ ++.+..+=+|+
T Consensus 84 ~gGKHnDlenVG~t~rHhTfFEMlGn-fSfgdYfK~eaI~~awe~l 128 (936)
T PLN02900 84 AGGKHNDLDDVGKDTYHHTFFEMLGN-WSFGDYFKKEAIGWAWELL 128 (936)
T ss_pred CCCCCCCHhhccCCCCchHHHHhhhc-cchhhhhHHHHHHHHHHHH
Confidence 9 22 358899887777643 4555422 34444444443
No 266
>PRK08582 hypothetical protein; Provisional
Probab=24.26 E-value=1.6e+02 Score=26.11 Aligned_cols=54 Identities=24% Similarity=0.335 Sum_probs=34.8
Q ss_pred CCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHH-HHhcCCCCceEEEE
Q 013856 103 KDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVR-FVRSLSNESIVDVI 166 (435)
Q Consensus 103 ~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~-~~~~l~~esiV~V~ 166 (435)
+|+. |.|.|..+...| +|+.|-.+ +.+++..+. ++...+. ....+..||.|.|.
T Consensus 5 vG~i--v~G~V~~I~~fG---~fV~L~~~---~~GlVhiSe--ls~~~v~~~~~~l~vGD~Vkvk 59 (139)
T PRK08582 5 VGSK--LQGKVTGITNFG---AFVELPEG---KTGLVHISE--VADNYVKDINDHLKVGDEVEVK 59 (139)
T ss_pred CCCE--EEEEEEEEECCe---EEEEECCC---CEEEEEeec--cCcccccccccccCCCCEEEEE
Confidence 4554 799999999998 89999653 556665432 2211111 12458889988764
No 267
>KOG1637 consensus Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=23.90 E-value=58 Score=34.88 Aligned_cols=93 Identities=18% Similarity=0.270 Sum_probs=57.9
Q ss_pred HHHHHHHHHHHHHhhcCCeeeecCceeeecC---CCCC-----cceeeecc----CC--------CceeeccChHHHHhh
Q 013856 249 RIQSQVGNIFRQFLLSENFVEIHTPKLIAGS---SEGG-----SAVFRLDY----KG--------QSACLAQSPQLHKQM 308 (435)
Q Consensus 249 ~~rs~i~~~~R~fl~~~gF~EV~TP~l~~~~---~egg-----a~~F~~~~----~~--------~~~~L~~Spql~lq~ 308 (435)
++-..++..+|.-...+||.||-||.|-... .-|. -+.|+++- |+ .-+-.+.-|-=|.++
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 6778889999999999999999999985432 1121 12455532 11 111122223333332
Q ss_pred hccCCCceeEEEecceecCcCC---CCccccchhhheeeec
Q 013856 309 SICGDFGRVFETGPVFRAEDSY---THRHLCEFTGLDVEME 346 (435)
Q Consensus 309 li~~g~~rVfeIgp~FR~E~s~---t~rHl~EFt~lE~e~a 346 (435)
= -|.=-+|+.-|||-|. +.+|+-+|.+=|.-+.
T Consensus 273 P-----lR~aDFg~LHRnE~SGaLsGLTRvRrFqQDDaHIF 308 (560)
T KOG1637|consen 273 P-----LRFADFGVLHRNEASGALSGLTRVRRFQQDDAHIF 308 (560)
T ss_pred C-----ccccCcceeeeccccccccccceeeeecccCceEE
Confidence 1 1344578899999753 5789999998887553
No 268
>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=23.74 E-value=4e+02 Score=21.58 Aligned_cols=64 Identities=13% Similarity=0.144 Sum_probs=43.9
Q ss_pred EEEe-CCeEEEEEEeeCCCCCCHHHHHHHhcCCCCceEEEEEEEecC-CccCCCCceeEEEEEeEEEEeecC
Q 013856 127 VVRE-RVSTVQCLATVKPDSVSKEMVRFVRSLSNESIVDVIGVVSVP-DVEIKGATQQVEVQIKKLYCVSRA 196 (435)
Q Consensus 127 ~Lrd-~~~~iQvv~~~~~~~~~~~~~~~~~~l~~esiV~V~G~v~~~-~~~~~~~t~~lEI~v~~i~vls~~ 196 (435)
+|-| .|.+||+.+... ...+|...|.-|++..+.-..+.+ ....+...+.+-|....-+.+.+|
T Consensus 3 vL~De~G~~I~A~I~~~------~~~~f~~~l~Eg~~y~i~~F~V~~~~~~yr~t~h~y~I~f~~~T~V~~~ 68 (95)
T PF02721_consen 3 VLVDEKGDKIQATIPKE------LVDKFKDSLKEGSWYTISNFTVSPNSGSYRPTDHKYKINFMPNTKVTEI 68 (95)
T ss_pred EEEecCCCEEEEEECHH------HHHHHHhhcccCCEEEeEeEEEEeCCCceeccCCCEEEEECCcCeEEEC
Confidence 3444 577999999642 234566789999999998865543 333444456788888777777777
No 269
>PRK13902 alaS alanyl-tRNA synthetase; Provisional
Probab=23.62 E-value=1.2e+02 Score=35.39 Aligned_cols=99 Identities=16% Similarity=0.177 Sum_probs=61.8
Q ss_pred HHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCC-----CceeEEEecceec
Q 013856 252 SQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGD-----FGRVFETGPVFRA 326 (435)
Q Consensus 252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g-----~~rVfeIgp~FR~ 326 (435)
+.|-+.|-+||.++|-.-|..--+++ ....+++|+.|+-.-.|-.+..| ..|+-..-||.|.
T Consensus 62 ~eiR~~Fl~FF~~~gH~~v~s~pvvp-------------rw~dDllft~Agm~~Fkp~f~~G~~~pp~~~~~~sQ~CiR~ 128 (900)
T PRK13902 62 KEMREKFLSFFEKHGHTRIERYPVVA-------------RWRDDVYLTIASIYDFQPWVTSGLVPPPANPLVISQPCIRL 128 (900)
T ss_pred HHHHHHHHHHHHhCCCEEcCCcCcCC-------------CCCCCeeeeecchhhhhHHhcCCCCCCCCCCceecccccch
Confidence 45566777899999976665433332 11222666666554444444423 3688888999998
Q ss_pred Cc----CCCCccccchhhheeeeccc-----cc-HHHHHHHHHHHHHH
Q 013856 327 ED----SYTHRHLCEFTGLDVEMEIK-----KH-YSEVMDIVDCLFVT 364 (435)
Q Consensus 327 E~----s~t~rHl~EFt~lE~e~a~~-----~~-~~d~m~~~e~l~~~ 364 (435)
-+ ..|.||++=|.||=- .+|- +. -++.+..+-+||-.
T Consensus 129 nDldnVG~t~rH~T~FEMlGn-~sFg~~~~~~YfK~eaI~~a~e~lt~ 175 (900)
T PRK13902 129 NDIDNVGRTGRHLTSFEMMAH-HAFNYPDKEVYWKDETVEYCFEFFTK 175 (900)
T ss_pred hhhhhccccCCchhhhhhccc-eeeCCCCcccccHHHHHHHHHHHHHh
Confidence 54 358999998888853 4443 21 15677777777654
No 270
>cd04497 hPOT1_OB1_like hPOT1_OB1_like: A subfamily of OB folds similar to the first OB fold (OB1) of human protection of telomeres 1 protein (hPOT1), the single OB fold of the N-terminal domain of Schizosaccharomyces pombe POT1 (SpPOT1), and the first OB fold of the N-terminal domain of the alpha subunit (OB1Nalpha) of Oxytricha nova telomere end binding protein (OnTEBP). POT1 proteins recognize single-stranded (ss) 3-prime ends of the telomere. A 3-prime ss overhang is conserved in ciliated protozoa, yeast, and mammals. SpPOT1 is essential for telomere maintenance. It binds specifically to the ss G-rich telomeric sequence (GGTTAC) of S. pombe. hPOT1 binds specifically to ss telomeric DNA repeats ending with the sequence GGTTAG. Deletion of the S. pombe pot1+ gene results in a rapid loss of telomere sequences, chromosome mis-segregation and chromosome circularization. hPOT1 is implicated in telomere length regulation. The hPOT1 monomer consists of two closely connected OB folds (OB1-OB
Probab=23.56 E-value=3.7e+02 Score=23.50 Aligned_cols=72 Identities=11% Similarity=0.068 Sum_probs=47.0
Q ss_pred ceeEeccccCCCCCCEEEEEEEEeeecc----CCC-ceEEEEEEeCC----eEEEEEEeeCCCCCCHHHHHHHhcCCCCc
Q 013856 91 EWTEVGALNGSLKDQEVLIRGRVHTTRP----VGN-KLAFVVVRERV----STVQCLATVKPDSVSKEMVRFVRSLSNES 161 (435)
Q Consensus 91 ~~~~i~~l~~~~~g~~V~v~GrV~~~R~----~G~-kl~Fl~Lrd~~----~~iQvv~~~~~~~~~~~~~~~~~~l~~es 161 (435)
.|+.|+++.. ..|+.|.|-|=|..... .|+ -.+-+.|-|.+ ..|.+.+..... ..+..+..||
T Consensus 2 ~f~~i~~~~~-~~~~~v~vigVV~~~~~p~~s~g~d~~~tl~i~D~S~~~~~~l~v~~F~~~~-------~~LP~v~~GD 73 (138)
T cd04497 2 KYTPLSSALK-ESGGSVNVIGVVVDAGPPVRSKGTDYCCTLTITDPSLANSDGLTVKLFRPNE-------ESLPIVKVGD 73 (138)
T ss_pred ceEeHHHHHh-ccCCeEEEEEEEeecCCCcccCCCcEEEEEEEECCCCCCCCcEEEEEECCCh-------hhCCCCCCCC
Confidence 3566777654 57888999999887643 332 34445666764 347777765421 1234578999
Q ss_pred eEEEEEEEe
Q 013856 162 IVDVIGVVS 170 (435)
Q Consensus 162 iV~V~G~v~ 170 (435)
+|.+.+.-.
T Consensus 74 VIll~~~kv 82 (138)
T cd04497 74 IILLRRVKI 82 (138)
T ss_pred EEEEEEEEE
Confidence 999999644
No 271
>PF08496 Peptidase_S49_N: Peptidase family S49 N-terminal; InterPro: IPR013703 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain is found to the N terminus of bacterial signal peptidases that belong to the MEROPS peptidase family S49 (protease IV family, clan SK) (see also IPR002142 from INTERPRO) [, ]. ; GO: 0004252 serine-type endopeptidase activity, 0005886 plasma membrane
Probab=23.30 E-value=96 Score=28.27 Aligned_cols=24 Identities=29% Similarity=0.280 Sum_probs=17.3
Q ss_pred cccChhHHHHHHHHHHHHHHHHHH
Q 013856 19 QSISKKAAKKEAAKKAKEERRKEA 42 (435)
Q Consensus 19 ~~~sk~~lkk~~k~~~k~~kka~~ 42 (435)
..++++++|+..|+.+|++|+.++
T Consensus 61 all~k~e~K~~~K~~KK~~K~~~K 84 (155)
T PF08496_consen 61 ALLDKKELKAWEKAEKKEEKAKAK 84 (155)
T ss_pred HhcCHHHHHHHHHHHHHHHHHHhh
Confidence 357888888888877777665543
No 272
>PRK01584 alanyl-tRNA synthetase; Provisional
Probab=22.65 E-value=2.2e+02 Score=31.71 Aligned_cols=97 Identities=16% Similarity=0.202 Sum_probs=55.4
Q ss_pred HHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccC----CCceeEEEecceec-
Q 013856 252 SQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICG----DFGRVFETGPVFRA- 326 (435)
Q Consensus 252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~----g~~rVfeIgp~FR~- 326 (435)
+.|-+.|-+||.++|-..|.+--|++.. +-+++++.|+--..|-.+.| ...|+=..-+|.|.
T Consensus 4 ~eiR~~fl~FF~~kgH~~~~s~slvp~~-------------d~tllftnAGm~~fk~~f~G~~~p~~~r~~~~QkCiR~~ 70 (594)
T PRK01584 4 DELRKKYIDFFKSKGHVEIAGKSLIPEN-------------DPTVLFTTAGMHPLVPYLLGEPHPSGTRLVDVQKCLRTG 70 (594)
T ss_pred HHHHHHHHHHHHhCCCEEcCCCCcCCCC-------------CCCeeeeccchhhhhHHhcCCCCCCCCCccccccccccc
Confidence 4567788899999999888876666421 11122222221111111111 13566677788996
Q ss_pred --CcCCCCccccchhhheeeecccccH--HHHHHHHHHHHH
Q 013856 327 --EDSYTHRHLCEFTGLDVEMEIKKHY--SEVMDIVDCLFV 363 (435)
Q Consensus 327 --E~s~t~rHl~EFt~lE~e~a~~~~~--~d~m~~~e~l~~ 363 (435)
|+..|.||++=|.||=- .+|.+ | ++.+..+=+||-
T Consensus 71 Dle~VG~~rHhTfFEMlGn-fSfgd-YfK~eai~~awe~lt 109 (594)
T PRK01584 71 DIDEVGDLSHLTFFEMLGN-WSLGA-YFKEESIKYSFEFLT 109 (594)
T ss_pred cccccCCCcchhHHHhhcc-ccHhh-hhHHHHHHHHHHHhc
Confidence 44447899988888743 55554 4 455555555543
No 273
>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=21.73 E-value=5.7e+02 Score=23.23 Aligned_cols=71 Identities=15% Similarity=0.144 Sum_probs=45.0
Q ss_pred eeEeccccCCCCCCEEEEEEEEeeeccCCCceEEEEEEe----C----------CeEEEEEEeeCCCCCCHHHHHHHhcC
Q 013856 92 WTEVGALNGSLKDQEVLIRGRVHTTRPVGNKLAFVVVRE----R----------VSTVQCLATVKPDSVSKEMVRFVRSL 157 (435)
Q Consensus 92 ~~~i~~l~~~~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd----~----------~~~iQvv~~~~~~~~~~~~~~~~~~l 157 (435)
|..+.+-.+...|+.|..-|.|.+++.... -..|.|-+ . .+..=+.++. -+++ ...
T Consensus 22 ~~~v~~~p~~~~G~~VrwGG~I~~v~n~~~-~T~leV~~~PLd~~grP~~~~~s~GRFla~~~g---FLDP------~~y 91 (160)
T PF03843_consen 22 FSQVRANPDAYQGQQVRWGGVIVNVRNLPD-QTELEVVQYPLDSSGRPQTDDPSQGRFLARVPG---FLDP------AIY 91 (160)
T ss_pred HHHHHhChhhcCCCEEEECCEEEEEEECCC-ceEEEEEEccCCCCCCcCCCCCCCCEEEEEeCC---CcCH------HHc
Confidence 444444455788999999999999999863 35555542 1 1222233221 1222 247
Q ss_pred CCCceEEEEEEEecC
Q 013856 158 SNESIVDVIGVVSVP 172 (435)
Q Consensus 158 ~~esiV~V~G~v~~~ 172 (435)
..|-.|.|.|+|...
T Consensus 92 ~~Gr~vTV~G~v~g~ 106 (160)
T PF03843_consen 92 APGRLVTVVGTVTGM 106 (160)
T ss_pred CCCCEEEEEEEecce
Confidence 789999999999754
No 274
>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=21.65 E-value=1.4e+02 Score=22.48 Aligned_cols=28 Identities=32% Similarity=0.450 Sum_probs=22.0
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCeEEEEEEee
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATV 141 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~ 141 (435)
.+.|+|..+...| +|+.|-++ +.+++..
T Consensus 6 ~~~g~V~~i~~~G---~fv~l~~~---~~Gl~~~ 33 (72)
T cd05689 6 RLFGKVTNLTDYG---CFVELEEG---VEGLVHV 33 (72)
T ss_pred EEEEEEEEEEeeE---EEEEcCCC---CEEEEEE
Confidence 4899999999998 89999653 5666654
No 275
>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=20.77 E-value=1.9e+02 Score=22.67 Aligned_cols=55 Identities=20% Similarity=0.148 Sum_probs=36.6
Q ss_pred CCCCEEEEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHH-HHHHHhcCCCCceEEEE
Q 013856 102 LKDQEVLIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKE-MVRFVRSLSNESIVDVI 166 (435)
Q Consensus 102 ~~g~~V~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~-~~~~~~~l~~esiV~V~ 166 (435)
..|+. +.|.|.++...| +|++|-. .+++++..+.- +.. ..+....++.|+.|.|.
T Consensus 13 ~~G~i--~~g~V~~v~~~G---~fv~l~~---~~~g~v~~~el--~~~~~~~~~~~~~~Gd~v~vk 68 (83)
T cd04461 13 KPGMV--VHGYVRNITPYG---VFVEFLG---GLTGLAPKSYI--SDEFVTDPSFGFKKGQSVTAK 68 (83)
T ss_pred CCCCE--EEEEEEEEeece---EEEEcCC---CCEEEEEHHHC--CcccccCHHHhcCCCCEEEEE
Confidence 45665 469999999988 8999953 27788775421 111 11233568889888776
No 276
>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=20.41 E-value=1.7e+02 Score=34.22 Aligned_cols=97 Identities=15% Similarity=0.174 Sum_probs=60.5
Q ss_pred HHHHHHHHHHhhcCCeeeecCceeeecCCCCCcceeeeccCCCceeeccChHHHHhhhccCC-----CceeEEEecceec
Q 013856 252 SQVGNIFRQFLLSENFVEIHTPKLIAGSSEGGSAVFRLDYKGQSACLAQSPQLHKQMSICGD-----FGRVFETGPVFRA 326 (435)
Q Consensus 252 s~i~~~~R~fl~~~gF~EV~TP~l~~~~~egga~~F~~~~~~~~~~L~~Spql~lq~li~~g-----~~rVfeIgp~FR~ 326 (435)
+.|-+.|-+||.++|-.-|..--+++ -...+++|+.|+-.-.|-.+..| ..|+-..-||.|.
T Consensus 59 ~eiR~~fl~FF~~~gH~~v~s~pvvp-------------rw~dDllft~Agm~~Fkp~f~~G~~~pp~~r~~~sQkCiR~ 125 (902)
T TIGR03683 59 DEMREAFLSFFEKHGHTRIKRYPVVA-------------RWRDDVYLTIASIADFQPWVTSGLVPPPANPLVISQPCIRL 125 (902)
T ss_pred HHHHHHHHHHHHhCCCEEeCCcCcCc-------------CCCCCeeEeecchhhhhHhhcCCCCCCCCCCceeccccccc
Confidence 45566778899999977666433332 11122555555544444444323 3678888899997
Q ss_pred Cc----CCCCccccchhhheeeeccc-----ccH-HHHHHHHHHHH
Q 013856 327 ED----SYTHRHLCEFTGLDVEMEIK-----KHY-SEVMDIVDCLF 362 (435)
Q Consensus 327 E~----s~t~rHl~EFt~lE~e~a~~-----~~~-~d~m~~~e~l~ 362 (435)
-+ ..|.||++=|.||=- .+|- +.+ ++.+..+-+||
T Consensus 126 nDldnVG~t~rH~TfFEMlGn-~sFg~~~~~dYfK~EaI~~a~e~l 170 (902)
T TIGR03683 126 NDIDNVGRTGRHLTCFEMMAH-HAFNYPDKEIYWKDETVEYCFEFL 170 (902)
T ss_pred cccccccCCCCcchhhhhccc-eeeCCCCcccCcHHHHHHHHHHHH
Confidence 53 358999999988853 4443 211 57777777777
No 277
>PRK05807 hypothetical protein; Provisional
Probab=20.38 E-value=1.8e+02 Score=25.62 Aligned_cols=67 Identities=27% Similarity=0.379 Sum_probs=41.1
Q ss_pred EEEEEEeeeccCCCceEEEEEEeCCeEEEEEEeeCCCCCCHHHHH-HHhcCCCCceEEEEEEEecCCccCCCCceeEEEE
Q 013856 108 LIRGRVHTTRPVGNKLAFVVVRERVSTVQCLATVKPDSVSKEMVR-FVRSLSNESIVDVIGVVSVPDVEIKGATQQVEVQ 186 (435)
Q Consensus 108 ~v~GrV~~~R~~G~kl~Fl~Lrd~~~~iQvv~~~~~~~~~~~~~~-~~~~l~~esiV~V~G~v~~~~~~~~~~t~~lEI~ 186 (435)
.|.|.|..+...| +|+.| ++ .++++..+. ++...++ ....+..|+.|.|. |.... . .+.++|.
T Consensus 8 vv~G~Vt~i~~~G---afV~L-~~---~~Glvhise--is~~~v~~~~~~~kvGd~V~Vk--V~~id----~-~gkI~LS 71 (136)
T PRK05807 8 ILEGTVVNITNFG---AFVEV-EG---KTGLVHISE--VADTYVKDIREHLKEQDKVKVK--VISID----D-NGKISLS 71 (136)
T ss_pred EEEEEEEEEECCe---EEEEE-CC---EEEEEEhhh--cccccccCccccCCCCCEEEEE--EEEEC----C-CCcEEEE
Confidence 5789999999988 89999 43 378877542 2222221 12358999998775 32211 1 2456666
Q ss_pred EeEE
Q 013856 187 IKKL 190 (435)
Q Consensus 187 v~~i 190 (435)
+..+
T Consensus 72 lk~~ 75 (136)
T PRK05807 72 IKQA 75 (136)
T ss_pred EEec
Confidence 6554
Done!