Query 017368
Match_columns 373
No_of_seqs 165 out of 1360
Neff 5.5
Searched_HMMs 46136
Date Fri Mar 29 07:58:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017368.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017368hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02221 asparaginyl-tRNA synt 100.0 2.2E-79 4.7E-84 639.3 33.6 370 1-370 1-379 (572)
2 PLN02532 asparagine-tRNA synth 100.0 2.8E-70 6.1E-75 573.6 27.4 347 21-370 21-442 (633)
3 COG0017 AsnS Aspartyl/asparagi 100.0 6.1E-65 1.3E-69 512.4 26.1 243 27-371 2-253 (435)
4 PLN02603 asparaginyl-tRNA synt 100.0 1.3E-64 2.9E-69 528.0 28.7 283 24-371 84-375 (565)
5 PTZ00425 asparagine-tRNA ligas 100.0 2.6E-62 5.6E-67 511.0 28.8 313 28-370 53-396 (586)
6 KOG0554 Asparaginyl-tRNA synth 100.0 2.2E-62 4.8E-67 482.9 19.6 253 30-371 3-260 (446)
7 PRK03932 asnC asparaginyl-tRNA 100.0 2.6E-58 5.5E-63 471.7 29.0 250 28-369 2-255 (450)
8 TIGR00457 asnS asparaginyl-tRN 100.0 2.3E-58 5E-63 472.3 28.6 253 30-369 2-258 (453)
9 PRK05159 aspC aspartyl-tRNA sy 100.0 6.4E-57 1.4E-61 459.8 27.8 240 28-369 3-251 (437)
10 TIGR00458 aspS_arch aspartyl-t 100.0 4.7E-57 1E-61 459.8 26.8 233 41-369 6-247 (428)
11 PLN02850 aspartate-tRNA ligase 100.0 7.8E-57 1.7E-61 468.0 25.4 235 40-369 74-340 (530)
12 PTZ00401 aspartyl-tRNA synthet 100.0 3.8E-56 8.3E-61 463.9 26.8 241 29-369 65-328 (550)
13 COG0173 AspS Aspartyl-tRNA syn 100.0 3.4E-55 7.3E-60 447.6 23.5 243 33-369 2-256 (585)
14 PLN02903 aminoacyl-tRNA ligase 100.0 3.6E-54 7.9E-59 453.8 27.4 243 33-369 59-319 (652)
15 TIGR00459 aspS_bact aspartyl-t 100.0 4E-54 8.6E-59 450.7 27.3 236 38-369 6-253 (583)
16 PRK12820 bifunctional aspartyl 100.0 4.7E-54 1E-58 456.6 27.2 243 33-370 5-272 (706)
17 PRK00476 aspS aspartyl-tRNA sy 100.0 4.9E-54 1.1E-58 451.8 26.6 243 28-369 4-256 (588)
18 PRK00484 lysS lysyl-tRNA synth 100.0 3.6E-53 7.9E-58 437.7 27.9 251 23-370 26-288 (491)
19 TIGR00499 lysS_bact lysyl-tRNA 100.0 7.1E-53 1.5E-57 435.9 26.8 249 24-369 26-287 (496)
20 PLN02502 lysyl-tRNA synthetase 100.0 9.8E-53 2.1E-57 438.6 27.0 250 23-369 81-344 (553)
21 PRK12445 lysyl-tRNA synthetase 100.0 3.7E-52 7.9E-57 431.1 27.5 249 24-370 38-300 (505)
22 KOG0556 Aspartyl-tRNA syntheta 100.0 4.7E-53 1E-57 417.5 19.4 242 29-371 70-345 (533)
23 PTZ00385 lysyl-tRNA synthetase 100.0 1.8E-50 3.8E-55 425.9 27.5 251 24-370 81-349 (659)
24 PTZ00417 lysine-tRNA ligase; P 100.0 3.3E-50 7.1E-55 421.4 26.9 248 24-368 106-367 (585)
25 PRK02983 lysS lysyl-tRNA synth 100.0 7.5E-50 1.6E-54 443.4 26.3 244 24-370 634-886 (1094)
26 KOG0555 Asparaginyl-tRNA synth 100.0 5.3E-48 1.1E-52 380.7 17.7 256 10-369 95-356 (545)
27 COG1190 LysU Lysyl-tRNA synthe 100.0 4.3E-42 9.3E-47 349.3 19.1 249 23-370 33-296 (502)
28 KOG1885 Lysyl-tRNA synthetase 100.0 1.8E-42 4E-47 346.9 13.8 259 14-368 68-339 (560)
29 KOG2411 Aspartyl-tRNA syntheta 100.0 8.9E-41 1.9E-45 336.6 20.1 240 38-371 38-296 (628)
30 PF00152 tRNA-synt_2: tRNA syn 100.0 2.3E-37 5E-42 305.1 13.2 140 145-369 1-141 (335)
31 cd00776 AsxRS_core Asx tRNA sy 100.0 2.1E-36 4.5E-41 298.1 13.9 135 144-368 2-137 (322)
32 PRK06462 asparagine synthetase 100.0 5.3E-35 1.1E-39 289.7 13.5 141 145-368 9-151 (335)
33 cd00775 LysRS_core Lys_tRNA sy 100.0 2.4E-31 5.2E-36 263.0 13.6 122 159-369 1-123 (329)
34 TIGR00462 genX lysyl-tRNA synt 100.0 2.5E-30 5.3E-35 253.3 10.7 119 166-370 1-121 (304)
35 cd00669 Asp_Lys_Asn_RS_core As 100.0 4.1E-28 8.9E-33 234.1 12.2 114 166-368 1-115 (269)
36 cd00777 AspRS_core Asp tRNA sy 99.9 5.5E-28 1.2E-32 234.4 11.7 115 166-369 1-116 (280)
37 PRK09350 poxB regulator PoxA; 99.9 1.4E-26 3E-31 227.0 11.7 123 163-370 2-126 (306)
38 cd04317 EcAspRS_like_N EcAspRS 99.9 2.3E-21 5E-26 168.4 13.3 112 44-161 11-134 (135)
39 cd04319 PhAsnRS_like_N PhAsnRS 99.8 1.5E-19 3.2E-24 150.5 12.9 99 49-155 1-103 (103)
40 cd04322 LysRS_N LysRS_N: N-ter 99.8 1.5E-19 3.2E-24 151.5 11.8 101 49-157 1-108 (108)
41 cd04316 ND_PkAspRS_like_N ND_P 99.8 7.5E-19 1.6E-23 147.4 12.9 98 39-142 4-106 (108)
42 COG2269 Truncated, possibly in 99.8 5.4E-19 1.2E-23 169.9 9.0 121 165-370 15-137 (322)
43 cd04320 AspRS_cyto_N AspRS_cyt 99.7 2.1E-17 4.5E-22 137.1 12.5 90 49-142 1-101 (102)
44 cd04318 EcAsnRS_like_N EcAsnRS 99.7 4.4E-16 9.5E-21 124.2 11.5 80 49-131 1-82 (82)
45 cd04323 AsnRS_cyto_like_N AsnR 99.6 1.3E-15 2.8E-20 122.3 10.6 79 49-131 1-84 (84)
46 cd04321 ScAspRS_mt_like_N ScAs 99.6 1.8E-15 3.9E-20 122.2 11.2 80 49-131 1-86 (86)
47 cd04100 Asp_Lys_Asn_RS_N Asp_L 99.6 1.9E-15 4.2E-20 121.2 10.6 79 49-131 1-85 (85)
48 PF01336 tRNA_anti-codon: OB-f 99.1 1.2E-09 2.6E-14 83.8 9.6 73 50-129 1-75 (75)
49 PRK09537 pylS pyrolysyl-tRNA s 98.9 9.7E-09 2.1E-13 105.0 11.6 131 158-372 190-334 (417)
50 cd00768 class_II_aaRS-like_cor 98.7 4.4E-08 9.5E-13 88.4 7.7 71 301-371 50-132 (211)
51 TIGR02367 PylS pyrrolysyl-tRNA 98.5 7.2E-07 1.6E-11 91.8 11.8 71 301-372 291-370 (453)
52 PF00587 tRNA-synt_2b: tRNA sy 98.1 1.5E-05 3.2E-10 71.6 7.9 60 302-362 55-125 (173)
53 cd00773 HisRS-like_core Class 97.9 7.2E-05 1.6E-09 71.6 11.0 31 167-197 3-33 (261)
54 cd00670 Gly_His_Pro_Ser_Thr_tR 97.9 7.4E-05 1.6E-09 69.4 9.2 31 167-197 3-33 (235)
55 TIGR00442 hisS histidyl-tRNA s 97.8 0.00018 4E-09 72.7 10.9 35 163-197 11-45 (397)
56 cd00779 ProRS_core_prok Prolyl 97.6 0.0002 4.3E-09 68.8 8.5 33 164-196 29-61 (255)
57 cd00496 PheRS_alpha_core Pheny 97.6 0.0006 1.3E-08 64.0 11.0 66 304-371 60-131 (218)
58 PRK00037 hisS histidyl-tRNA sy 97.6 0.00053 1.1E-08 69.6 11.1 34 163-196 15-48 (412)
59 cd00774 GlyRS-like_core Glycyl 97.5 0.00013 2.7E-09 70.1 5.6 37 165-207 31-69 (254)
60 PRK09194 prolyl-tRNA synthetas 97.5 0.00075 1.6E-08 71.9 11.2 34 163-196 44-77 (565)
61 cd00771 ThrRS_core Threonyl-tR 97.5 0.00075 1.6E-08 66.3 10.3 33 165-197 29-61 (298)
62 cd00772 ProRS_core Prolyl-tRNA 97.4 0.0015 3.2E-08 63.3 11.4 32 166-197 32-63 (264)
63 TIGR00418 thrS threonyl-tRNA s 97.3 0.0014 3E-08 69.6 11.1 33 164-196 198-230 (563)
64 TIGR00414 serS seryl-tRNA synt 97.3 0.00086 1.9E-08 69.2 9.2 36 163-198 170-205 (418)
65 PRK12305 thrS threonyl-tRNA sy 97.3 0.0008 1.7E-08 71.5 9.2 35 163-197 203-237 (575)
66 cd04489 ExoVII_LU_OBF ExoVII_L 97.3 0.0035 7.6E-08 48.7 10.1 73 50-127 2-75 (78)
67 PRK00413 thrS threonyl-tRNA sy 97.3 0.0012 2.7E-08 70.9 10.2 36 162-197 266-301 (638)
68 TIGR00409 proS_fam_II prolyl-t 97.3 0.0022 4.7E-08 68.7 11.9 33 164-196 45-77 (568)
69 cd00778 ProRS_core_arch_euk Pr 97.2 0.00087 1.9E-08 64.6 7.6 34 164-197 30-63 (261)
70 PRK12444 threonyl-tRNA synthet 97.2 0.0015 3.2E-08 70.6 9.7 32 166-197 274-305 (639)
71 cd04478 RPA2_DBD_D RPA2_DBD_D: 97.2 0.0056 1.2E-07 49.5 10.9 75 50-132 2-80 (95)
72 CHL00201 syh histidine-tRNA sy 97.2 0.0031 6.7E-08 65.1 11.4 49 322-371 103-155 (430)
73 PRK05431 seryl-tRNA synthetase 97.1 0.0017 3.7E-08 67.1 8.9 34 164-197 168-202 (425)
74 PLN02530 histidine-tRNA ligase 97.1 0.0035 7.7E-08 65.7 11.0 34 163-196 81-114 (487)
75 cd00770 SerRS_core Seryl-tRNA 97.1 0.0012 2.5E-08 65.0 6.9 34 164-197 50-83 (297)
76 TIGR00443 hisZ_biosyn_reg ATP 97.1 0.0029 6.2E-08 62.5 9.5 34 164-197 6-39 (314)
77 PLN02908 threonyl-tRNA synthet 97.1 0.0022 4.8E-08 70.0 9.3 35 163-197 318-352 (686)
78 PRK12293 hisZ ATP phosphoribos 97.1 0.0051 1.1E-07 60.2 10.9 33 164-196 17-49 (281)
79 PRK12325 prolyl-tRNA synthetas 97.0 0.004 8.6E-08 64.5 10.4 32 165-196 46-77 (439)
80 PRK08661 prolyl-tRNA synthetas 97.0 0.0021 4.6E-08 67.3 8.3 44 323-367 133-178 (477)
81 PRK04172 pheS phenylalanyl-tRN 97.0 0.0035 7.6E-08 65.8 9.9 69 302-371 327-401 (489)
82 cd04487 RecJ_OBF2_like RecJ_OB 97.0 0.0079 1.7E-07 47.5 9.2 72 50-129 1-73 (73)
83 PRK12292 hisZ ATP phosphoribos 96.9 0.0063 1.4E-07 61.9 10.9 34 163-196 14-47 (391)
84 PF13742 tRNA_anti_2: OB-fold 96.8 0.013 2.8E-07 48.8 10.0 87 31-127 10-98 (99)
85 PTZ00326 phenylalanyl-tRNA syn 96.8 0.004 8.7E-08 65.5 8.5 48 322-370 358-407 (494)
86 PF13393 tRNA-synt_His: Histid 96.8 0.01 2.2E-07 57.9 10.7 34 163-196 7-40 (311)
87 cd04483 hOBFC1_like hOBFC1_lik 96.8 0.014 3.1E-07 48.0 10.0 68 52-127 2-90 (92)
88 TIGR00408 proS_fam_I prolyl-tR 96.8 0.0021 4.6E-08 67.2 6.1 45 323-367 127-173 (472)
89 PF01409 tRNA-synt_2d: tRNA sy 96.7 0.0081 1.8E-07 57.9 9.1 50 321-371 102-153 (247)
90 PLN02972 Histidyl-tRNA synthet 96.7 0.012 2.6E-07 64.9 11.2 35 161-195 336-370 (763)
91 PRK12420 histidyl-tRNA synthet 96.7 0.013 2.7E-07 60.3 10.9 34 163-196 15-48 (423)
92 TIGR00468 pheS phenylalanyl-tR 96.7 0.019 4.1E-07 56.6 11.5 66 303-369 128-199 (294)
93 cd04485 DnaE_OBF DnaE_OBF: A s 96.6 0.014 2.9E-07 44.7 8.2 72 52-130 2-78 (84)
94 COG0124 HisS Histidyl-tRNA syn 96.6 0.018 3.9E-07 59.8 10.9 49 322-371 102-154 (429)
95 PRK12421 ATP phosphoribosyltra 96.5 0.023 5E-07 58.1 11.4 35 163-197 18-52 (392)
96 cd04492 YhaM_OBF_like YhaM_OBF 96.5 0.057 1.2E-06 41.7 11.0 61 66-132 19-79 (83)
97 PLN02853 Probable phenylalanyl 96.5 0.013 2.9E-07 61.6 9.3 48 322-370 343-392 (492)
98 PRK00488 pheS phenylalanyl-tRN 96.4 0.015 3.2E-07 58.7 9.1 46 323-369 187-234 (339)
99 PLN02837 threonine-tRNA ligase 96.4 0.012 2.7E-07 63.5 9.1 34 164-197 245-278 (614)
100 PRK14799 thrS threonyl-tRNA sy 96.4 0.015 3.2E-07 62.1 9.1 33 164-196 166-198 (545)
101 cd03524 RPA2_OBF_family RPA2_O 96.3 0.038 8.3E-07 40.5 8.8 68 52-126 2-73 (75)
102 COG0016 PheS Phenylalanyl-tRNA 96.3 0.0072 1.6E-07 60.8 6.3 64 304-368 172-244 (335)
103 cd04490 PolII_SU_OBF PolII_SU_ 96.2 0.058 1.3E-06 43.1 9.7 68 50-126 2-72 (79)
104 COG1107 Archaea-specific RecJ- 96.2 0.013 2.7E-07 62.5 7.5 99 17-130 190-289 (715)
105 PRK04173 glycyl-tRNA synthetas 96.1 0.013 2.7E-07 61.3 7.0 32 166-197 38-71 (456)
106 cd04482 RPA2_OBF_like RPA2_OBF 96.0 0.075 1.6E-06 43.6 9.4 73 50-132 1-77 (91)
107 PRK07373 DNA polymerase III su 95.9 0.049 1.1E-06 57.0 9.8 77 46-129 279-360 (449)
108 PRK12295 hisZ ATP phosphoribos 95.8 0.061 1.3E-06 54.8 10.3 27 171-197 9-35 (373)
109 PLN02678 seryl-tRNA synthetase 95.7 0.025 5.4E-07 59.1 7.0 35 164-198 172-206 (448)
110 PRK03991 threonyl-tRNA synthet 95.7 0.06 1.3E-06 58.3 9.9 33 164-196 225-257 (613)
111 PLN02788 phenylalanine-tRNA sy 95.6 0.098 2.1E-06 54.0 10.6 53 301-354 126-179 (402)
112 PF10451 Stn1: Telomere regula 95.6 0.12 2.6E-06 50.3 10.6 74 48-130 67-148 (256)
113 COG3111 Periplasmic protein wi 95.5 0.13 2.8E-06 44.9 9.4 84 28-129 44-127 (128)
114 KOG2784 Phenylalanyl-tRNA synt 95.4 0.028 6.2E-07 57.0 6.0 47 322-369 334-382 (483)
115 PF04076 BOF: Bacterial OB fol 95.3 0.14 3.1E-06 43.2 9.1 82 28-127 21-102 (103)
116 PLN02320 seryl-tRNA synthetase 95.1 0.041 8.9E-07 58.2 6.2 38 165-202 232-270 (502)
117 TIGR00156 conserved hypothetic 95.1 0.34 7.3E-06 42.5 10.8 80 29-127 45-125 (126)
118 PF12869 tRNA_anti-like: tRNA_ 94.9 0.083 1.8E-06 45.8 6.6 68 43-111 63-132 (144)
119 COG4085 Predicted RNA-binding 94.9 0.13 2.8E-06 48.1 8.1 75 44-125 48-129 (204)
120 PRK10053 hypothetical protein; 94.8 0.37 8E-06 42.5 10.4 80 30-127 50-129 (130)
121 cd04474 RPA1_DBD_A RPA1_DBD_A: 94.7 0.23 5E-06 41.4 8.6 78 47-125 9-98 (104)
122 PRK05672 dnaE2 error-prone DNA 94.6 0.14 3.1E-06 58.7 9.3 79 46-131 952-1033(1046)
123 COG5235 RFA2 Single-stranded D 94.5 0.32 6.9E-06 46.1 9.7 93 27-127 39-141 (258)
124 PRK06826 dnaE DNA polymerase I 94.4 0.19 4.1E-06 58.2 9.7 80 46-130 990-1073(1151)
125 PRK07374 dnaE DNA polymerase I 94.3 0.18 4E-06 58.4 9.5 78 46-129 999-1080(1170)
126 PRK15491 replication factor A; 94.2 0.3 6.5E-06 50.0 9.7 92 28-133 56-157 (374)
127 PRK06920 dnaE DNA polymerase I 93.9 0.24 5.1E-06 57.2 9.3 79 46-131 942-1025(1107)
128 cd04479 RPA3 RPA3: A subfamily 93.7 0.79 1.7E-05 38.2 9.7 68 44-130 12-79 (101)
129 cd04488 RecG_wedge_OBF RecG_we 93.6 0.72 1.6E-05 34.4 8.7 68 52-126 2-72 (75)
130 PRK05673 dnaE DNA polymerase I 93.6 0.28 6E-06 56.9 9.1 80 46-131 976-1059(1135)
131 PRK00960 seryl-tRNA synthetase 93.5 0.12 2.5E-06 55.1 5.5 35 164-198 221-256 (517)
132 PRK06461 single-stranded DNA-b 93.2 1.3 2.9E-05 38.4 10.9 86 29-131 4-100 (129)
133 COG0441 ThrS Threonyl-tRNA syn 93.1 0.13 2.9E-06 55.4 5.3 32 166-197 220-251 (589)
134 PRK07279 dnaE DNA polymerase I 93.1 0.4 8.7E-06 54.9 9.3 74 47-127 884-963 (1034)
135 PRK13480 3'-5' exoribonuclease 92.9 0.91 2E-05 45.5 10.6 80 47-133 11-94 (314)
136 PRK14699 replication factor A; 92.8 0.85 1.8E-05 48.3 10.6 90 30-133 58-157 (484)
137 PF08661 Rep_fac-A_3: Replicat 92.5 0.48 1E-05 39.8 6.8 59 44-112 15-73 (109)
138 COG1570 XseA Exonuclease VII, 92.4 0.59 1.3E-05 48.8 8.6 88 30-129 13-101 (440)
139 PRK12294 hisZ ATP phosphoribos 92.4 0.72 1.6E-05 45.2 8.9 34 163-196 4-37 (272)
140 PRK00286 xseA exodeoxyribonucl 92.2 0.96 2.1E-05 46.7 10.1 88 31-130 14-102 (438)
141 TIGR00237 xseA exodeoxyribonuc 92.0 0.93 2E-05 47.1 9.6 88 31-130 8-96 (432)
142 COG0172 SerS Seryl-tRNA synthe 90.9 0.78 1.7E-05 47.8 7.6 34 165-198 173-206 (429)
143 PRK12366 replication factor A; 90.8 1.7 3.6E-05 47.5 10.5 85 28-125 62-154 (637)
144 TIGR00415 serS_MJ seryl-tRNA s 90.8 1.2 2.5E-05 47.5 9.0 65 303-368 309-384 (520)
145 cd04491 SoSSB_OBF SoSSB_OBF: A 90.0 3.2 6.9E-05 32.6 8.9 53 66-126 23-76 (82)
146 COG0442 ProS Prolyl-tRNA synth 90.0 1.4 3E-05 46.9 8.7 41 322-362 130-172 (500)
147 cd04484 polC_OBF polC_OBF: A s 89.9 6.1 0.00013 31.6 10.5 73 50-127 2-80 (82)
148 TIGR00470 sepS O-phosphoseryl- 89.7 0.52 1.1E-05 49.8 5.2 50 322-371 208-259 (533)
149 PRK07211 replication factor A; 89.5 3 6.4E-05 44.3 10.7 84 30-127 54-147 (485)
150 PRK12366 replication factor A; 89.0 3.3 7.2E-05 45.2 11.0 80 46-127 290-378 (637)
151 PRK07459 single-stranded DNA-b 89.0 4.1 8.8E-05 35.1 9.5 52 81-132 46-104 (121)
152 PRK14699 replication factor A; 88.4 3.4 7.4E-05 43.8 10.3 85 46-133 285-377 (484)
153 PRK15491 replication factor A; 88.3 3.1 6.8E-05 42.6 9.7 93 29-133 166-267 (374)
154 PRK06863 single-stranded DNA-b 87.1 4.7 0.0001 36.9 9.1 52 81-132 54-111 (168)
155 PRK08486 single-stranded DNA-b 86.5 4 8.8E-05 37.8 8.4 53 81-133 51-109 (182)
156 KOG3108 Single-stranded DNA-bi 86.3 5.3 0.00011 39.3 9.5 74 48-129 69-145 (265)
157 KOG2324 Prolyl-tRNA synthetase 86.2 2.7 5.8E-05 43.2 7.6 32 165-196 51-82 (457)
158 PRK10917 ATP-dependent DNA hel 85.9 5.6 0.00012 43.7 10.6 77 45-128 57-136 (681)
159 PF03100 CcmE: CcmE; InterPro 85.5 6.7 0.00015 34.2 8.9 85 30-133 37-124 (131)
160 TIGR00617 rpa1 replication fac 85.0 5.7 0.00012 43.3 10.0 85 47-133 190-286 (608)
161 PRK13254 cytochrome c-type bio 85.0 15 0.00033 33.0 11.1 87 30-137 38-127 (148)
162 PRK06751 single-stranded DNA-b 85.0 6.5 0.00014 36.2 9.0 52 81-132 49-106 (173)
163 PRK07275 single-stranded DNA-b 85.0 4.7 0.0001 36.7 8.0 52 81-132 49-106 (162)
164 PRK07217 replication factor A; 84.9 12 0.00027 37.5 11.5 94 29-140 72-168 (311)
165 COG3705 HisZ ATP phosphoribosy 84.4 1.9 4.1E-05 44.5 5.7 33 166-198 17-49 (390)
166 PRK07211 replication factor A; 83.4 7.9 0.00017 41.2 9.9 81 47-133 171-260 (485)
167 PRK06293 single-stranded DNA-b 83.2 9.7 0.00021 34.7 9.2 52 81-132 45-102 (161)
168 PF15072 DUF4539: Domain of un 83.2 11 0.00025 30.8 8.7 60 49-112 4-64 (86)
169 PRK08763 single-stranded DNA-b 83.0 11 0.00024 34.4 9.5 52 81-132 54-111 (164)
170 PRK07135 dnaE DNA polymerase I 82.5 3.8 8.3E-05 47.0 7.7 64 46-112 896-962 (973)
171 PRK08402 replication factor A; 82.3 11 0.00024 38.4 10.3 88 29-129 62-159 (355)
172 PRK07218 replication factor A; 81.5 9.4 0.0002 39.9 9.5 79 29-125 58-142 (423)
173 TIGR00621 ssb single stranded 81.1 8.8 0.00019 34.7 8.2 52 81-132 53-110 (164)
174 PRK07218 replication factor A; 80.8 19 0.00041 37.7 11.5 77 47-132 172-254 (423)
175 PRK13732 single-stranded DNA-b 79.2 13 0.00028 34.3 8.7 53 81-133 56-116 (175)
176 PRK08182 single-stranded DNA-b 79.1 19 0.00041 32.2 9.5 52 81-132 56-113 (148)
177 PRK05813 single-stranded DNA-b 78.9 24 0.00053 33.7 10.7 84 47-133 109-211 (219)
178 PRK06386 replication factor A; 78.0 20 0.00043 36.8 10.4 86 29-133 107-198 (358)
179 PRK13165 cytochrome c-type bio 77.7 40 0.00087 30.8 11.2 77 45-137 55-134 (160)
180 COG3689 Predicted membrane pro 76.3 15 0.00033 36.1 8.5 95 33-137 164-266 (271)
181 cd04496 SSB_OBF SSB_OBF: A sub 76.0 6.2 0.00013 31.4 5.1 50 80-129 45-100 (100)
182 PRK00448 polC DNA polymerase I 75.5 25 0.00055 42.2 11.7 82 46-129 235-320 (1437)
183 COG1571 Predicted DNA-binding 74.6 15 0.00033 38.4 8.5 74 47-132 266-344 (421)
184 TIGR00643 recG ATP-dependent D 74.5 19 0.0004 39.2 9.7 74 46-126 31-107 (630)
185 COG1200 RecG RecG-like helicas 74.5 25 0.00055 38.8 10.5 81 44-131 57-140 (677)
186 PRK02801 primosomal replicatio 74.4 11 0.00023 31.5 6.2 48 81-129 50-100 (101)
187 PRK06752 single-stranded DNA-b 73.6 9.5 0.00021 32.1 5.8 52 81-132 49-106 (112)
188 PRK13150 cytochrome c-type bio 73.4 68 0.0015 29.3 11.5 77 45-137 55-134 (159)
189 PRK13159 cytochrome c-type bio 71.6 60 0.0013 29.5 10.7 87 30-137 38-127 (155)
190 cd05694 S1_Rrp5_repeat_hs2_sc2 70.1 14 0.0003 28.9 5.6 47 51-105 7-53 (74)
191 PRK09616 pheT phenylalanyl-tRN 70.1 37 0.00079 36.5 10.6 47 323-370 440-488 (552)
192 PRK06958 single-stranded DNA-b 69.6 7.8 0.00017 36.0 4.7 52 81-132 54-111 (182)
193 PRK06642 single-stranded DNA-b 68.6 38 0.00082 30.4 8.8 52 81-132 55-117 (152)
194 PRK00036 primosomal replicatio 67.7 14 0.0003 31.6 5.5 51 81-132 49-99 (107)
195 PF00436 SSB: Single-strand bi 67.6 4.8 0.0001 32.4 2.6 49 81-129 50-104 (104)
196 KOG2509 Seryl-tRNA synthetase 65.7 11 0.00024 39.5 5.3 34 163-196 182-215 (455)
197 PRK05733 single-stranded DNA-b 63.6 50 0.0011 30.4 8.7 52 81-132 55-114 (172)
198 KOG1637 Threonyl-tRNA syntheta 63.3 9.6 0.00021 40.4 4.3 48 324-372 276-326 (560)
199 PF12857 TOBE_3: TOBE-like dom 61.7 49 0.0011 24.6 6.9 50 51-105 6-56 (58)
200 PRK07080 hypothetical protein; 60.7 9.1 0.0002 38.5 3.6 40 322-362 152-192 (317)
201 PRK14894 glycyl-tRNA synthetas 59.9 7.4 0.00016 41.7 2.9 35 324-359 168-204 (539)
202 PRK07274 single-stranded DNA-b 56.4 28 0.0006 30.3 5.5 52 81-132 49-105 (131)
203 KOG1035 eIF-2alpha kinase GCN2 56.3 7.3 0.00016 45.6 2.3 30 165-194 931-960 (1351)
204 TIGR00594 polc DNA-directed DN 55.5 24 0.00051 41.0 6.2 37 46-85 980-1021(1022)
205 PRK04036 DNA polymerase II sma 55.3 52 0.0011 35.0 8.3 62 46-110 152-216 (504)
206 PF13567 DUF4131: Domain of un 54.6 88 0.0019 26.3 8.3 62 47-112 75-145 (176)
207 PRK09010 single-stranded DNA-b 54.4 27 0.00058 32.3 5.3 52 81-132 56-116 (177)
208 cd04497 hPOT1_OB1_like hPOT1_O 53.5 1.5E+02 0.0033 25.7 11.5 97 30-133 4-107 (138)
209 TIGR01405 polC_Gram_pos DNA po 52.4 1.2E+02 0.0027 35.9 11.4 80 46-130 6-92 (1213)
210 PRK05813 single-stranded DNA-b 52.3 41 0.00089 32.1 6.4 83 46-132 7-103 (219)
211 PF03843 Slp: Outer membrane l 52.1 57 0.0012 29.5 7.0 89 23-120 13-115 (160)
212 cd04486 YhcR_OBF_like YhcR_OBF 47.8 29 0.00063 27.5 3.9 71 51-130 1-76 (78)
213 PF00458 WHEP-TRS: WHEP-TRS do 46.4 42 0.00092 25.3 4.4 41 237-277 3-43 (56)
214 PLN02734 glycyl-tRNA synthetas 46.2 7.9 0.00017 42.8 0.6 32 167-198 110-142 (684)
215 COG2965 PriB Primosomal replic 45.1 1.2E+02 0.0026 25.8 7.2 74 47-129 4-102 (103)
216 PF11736 DUF3299: Protein of u 45.1 2.1E+02 0.0046 25.6 9.4 85 42-127 50-143 (146)
217 PRK07772 single-stranded DNA-b 44.6 37 0.0008 31.7 4.6 46 81-126 55-106 (186)
218 cd04452 S1_IF2_alpha S1_IF2_al 43.5 96 0.0021 23.2 6.2 48 51-105 6-59 (76)
219 PRK06386 replication factor A; 42.3 2.9E+02 0.0063 28.4 11.0 70 46-124 11-86 (358)
220 cd05698 S1_Rrp5_repeat_hs6_sc5 42.1 80 0.0017 23.4 5.5 46 51-105 3-54 (70)
221 PF15490 Ten1_2: Telomere-capp 41.3 2.4E+02 0.0051 24.5 11.6 84 30-124 8-91 (118)
222 COG0423 GRS1 Glycyl-tRNA synth 40.5 13 0.00028 39.9 1.1 31 167-197 41-73 (558)
223 cd05707 S1_Rrp5_repeat_sc11 S1 39.4 99 0.0021 22.9 5.6 46 51-105 3-54 (68)
224 cd00673 AlaRS_core Alanyl-tRNA 38.5 70 0.0015 31.0 5.6 41 321-362 55-101 (232)
225 TIGR00469 pheS_mito phenylalan 37.2 2.6E+02 0.0056 29.8 9.9 26 324-350 136-161 (460)
226 TIGR00389 glyS_dimeric glycyl- 36.7 12 0.00026 40.4 0.1 32 324-356 186-219 (551)
227 cd05705 S1_Rrp5_repeat_hs14 S1 36.0 1.6E+02 0.0034 22.8 6.4 46 51-105 6-60 (74)
228 PRK05853 hypothetical protein; 35.9 63 0.0014 29.4 4.6 46 81-126 45-96 (161)
229 TIGR00752 slp outer membrane l 34.5 1.4E+02 0.0031 27.8 6.8 79 41-130 42-143 (182)
230 COG2176 PolC DNA polymerase II 34.3 1.2E+02 0.0025 36.2 7.3 81 48-131 240-325 (1444)
231 PF03459 TOBE: TOBE domain; I 32.2 2E+02 0.0043 20.9 6.6 51 51-105 6-56 (64)
232 PF02721 DUF223: Domain of unk 30.1 2.3E+02 0.0051 22.7 6.7 63 70-133 2-69 (95)
233 cd05708 S1_Rrp5_repeat_sc12 S1 29.0 1.7E+02 0.0037 21.7 5.5 46 52-105 6-57 (77)
234 cd04480 RPA1_DBD_A_like RPA1_D 28.1 2.9E+02 0.0064 21.6 7.6 55 53-110 8-63 (86)
235 PF04057 Rep-A_N: Replication 27.7 3.1E+02 0.0068 22.7 7.2 61 66-130 38-100 (101)
236 PRK06341 single-stranded DNA-b 27.6 1.1E+02 0.0024 28.0 4.8 46 81-126 55-107 (166)
237 COG3390 Uncharacterized protei 26.9 1.7E+02 0.0037 27.6 5.9 61 48-110 46-110 (196)
238 COG0587 DnaE DNA polymerase II 26.8 1.7E+02 0.0036 34.7 7.1 62 49-112 978-1044(1139)
239 PF15513 DUF4651: Domain of un 24.8 90 0.002 24.3 3.1 23 167-189 2-24 (62)
240 cd05685 S1_Tex S1_Tex: The C-t 24.4 2.5E+02 0.0054 20.0 5.5 46 51-105 3-54 (68)
241 COG3061 OapA Cell envelope opa 24.2 86 0.0019 30.3 3.5 57 2-77 175-238 (242)
242 PF12109 CXCR4_N: CXCR4 Chemok 23.7 28 0.00061 23.7 0.1 12 328-339 21-32 (33)
243 PF00575 S1: S1 RNA binding do 23.6 2.3E+02 0.0051 21.0 5.3 45 52-105 8-58 (74)
244 cd05689 S1_RPS1_repeat_ec4 S1_ 23.3 2.4E+02 0.0053 20.9 5.4 20 51-74 6-25 (72)
245 cd04472 S1_PNPase S1_PNPase: P 22.9 2.9E+02 0.0063 19.8 5.6 46 51-105 3-54 (68)
246 PRK08582 hypothetical protein; 22.5 1.6E+02 0.0035 25.9 4.7 61 52-125 9-75 (139)
247 PRK01584 alanyl-tRNA synthetas 22.4 1.4E+02 0.003 32.8 5.1 40 322-362 58-102 (594)
248 KOG2298 Glycyl-tRNA synthetase 22.3 21 0.00046 38.0 -1.0 26 326-351 214-241 (599)
249 COG0423 GRS1 Glycyl-tRNA synth 21.6 75 0.0016 34.4 2.8 57 301-358 158-225 (558)
250 cd05687 S1_RPS1_repeat_ec1_hs1 21.3 2.9E+02 0.0062 20.4 5.4 46 51-105 3-54 (70)
251 cd05692 S1_RPS1_repeat_hs4 S1_ 20.8 3.2E+02 0.0069 19.4 5.5 46 51-105 3-54 (69)
252 TIGR00638 Mop molybdenum-pteri 20.7 3.5E+02 0.0075 19.8 6.7 51 51-105 8-58 (69)
No 1
>PLN02221 asparaginyl-tRNA synthetase
Probab=100.00 E-value=2.2e-79 Score=639.28 Aligned_cols=370 Identities=72% Similarity=1.157 Sum_probs=334.0
Q ss_pred CCCCCCc-ccccccccccchh--hcccccCcceehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCC
Q 017368 1 MADNELP-VDQVATMDLNDDA--VQRHQFSDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSC 77 (373)
Q Consensus 1 ~~~~~~~-~~~~~~~~~~~~~--~~~~~~~~r~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg 77 (373)
|.|.-.| .+|+|.+++..+. +|-++++.+++|++|+.+.+.+.+++|++|+|+|||+++|.+|+++++||+|||+++
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~V~I~GWV~~iR~~Gk~~i~Fl~LRDgs~ 80 (572)
T PLN02221 1 MGDEIVPPANQLAAVSLENDGSTVQKAQFSDRVLIRSILDRPDGGAGLAGQKVRIGGWVKTGREQGKGTFAFLEVNDGSC 80 (572)
T ss_pred CCCCCCChHHhhhheeccCCCcccccccccCceEHHHHhccccCChhcCCCEEEEEEEEEehhhCCCceEEEEEEeCCcc
Confidence 4555554 5899999998876 455899999999999966666778999999999999999999942389999999995
Q ss_pred CceEEEEEeCchhhhccCCCCCcEEEEEEEeeCCCC--CCccceEEEEeEEEEeecCCCCCCCCCCCCCChhhhhhccce
Q 017368 78 PANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPE--GTKQKIELRVQKVVDVGMVDPAKYPIPKTKLTLEFLRDRIPF 155 (373)
Q Consensus 78 ~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~~~~~--~~~g~vEL~v~~i~VLs~a~~~~~Pi~~k~~s~E~lr~~r~L 155 (373)
.+.||||+.++.....+.|+.||+|.|+|+|+.++. +.+|++||++++|+|+|++.+.+|||+.+.++.|++|+++||
T Consensus 81 ~g~iQvVv~~~~~~~~~~L~~ES~V~V~G~V~~~~~~~~~~~~iEl~v~~i~vl~~a~~~~~Pi~~~~~~~e~lrr~~hL 160 (572)
T PLN02221 81 PANLQVMVDSSLYDLSTLVATGTCVTVDGVLKVPPEGKGTKQKIELSVEKVIDVGTVDPTKYPLPKTKLTLEFLRDVLHL 160 (572)
T ss_pred cccEEEEEcCchhhHHhcCCCceEEEEEEEEEeCCccCCCCccEEEEEeEEEEEecCCCCCCCCCCCcCChHHHhhcchh
Confidence 445999998654333346899999999999998764 256799999999999999976689999888899999999999
Q ss_pred ecCCHHHHHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHH
Q 017368 156 RPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAA 235 (373)
Q Consensus 156 rlRt~~~~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 235 (373)
|+|++.++++|++||.+.+++|+||.++||+||+||+|++++||||+++|.|+++.......++.++++++++..|+||+
T Consensus 161 R~R~~~~~Ai~RiRS~i~~aiR~ff~~~gFiEI~TP~Lt~s~~EGg~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 240 (572)
T PLN02221 161 RSRTNSISAVARIRNALAFATHSFFQEHSFLYIHTPIITTSDCEGAGEMFQVTTLINYTERLEQDLIDNPPPTEADVEAA 240 (572)
T ss_pred hcCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCeeccccCCCCccceeeeecccccccccccccccCcccchhhhhh
Confidence 99999999999999999999999999999999999999999999999999998765555556678889998888899999
Q ss_pred HHHHHhhhhHHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHH
Q 017368 236 KLVIKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVE 315 (373)
Q Consensus 236 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e 315 (373)
+++++++|+.++.|+.++++.|++.+.++++..|++..+.++++++++++.|.+.|+.+|+.|||++++||+||||||+|
T Consensus 241 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dyFg~~ayLtqS~QLy~e 320 (572)
T PLN02221 241 RLIVKERGEVVAQLKAAKASKEEITAAVAELKIAKESLAHIEERSKLKPGLPKKDGKIDYSKDFFGRQAFLTVSGQLQVE 320 (572)
T ss_pred hhhhhhhcchhhhhhccccchhhhhhhhhhhhhhhhhhhhhhhhhhcccCCcccccccccccccCCCCeeeccCHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHhhcCceEEEecceecCCCCCCCCcCccccceeeecCCCHHHHHH----HHHHHHHh
Q 017368 316 TYACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLKVRWT----YTAHCLVF 370 (373)
Q Consensus 316 ~~~~~~~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~~~~~~~~~----~~~~~~~~ 370 (373)
++++||+|||+|||+||||+|+|+|||+||||||+||+|.|++|+|+ +|+++++.
T Consensus 321 ~~~~~l~rVfeIgP~FRAE~s~T~RHL~EFtmlE~Emaf~d~~dvm~l~E~lv~~i~~~ 379 (572)
T PLN02221 321 TYACALSSVYTFGPTFRAENSHTSRHLAEFWMVEPEIAFADLEDDMNCAEAYVKYMCKW 379 (572)
T ss_pred HHHHhcCCeEEEccceecCCCCCCcccccccceeeeeecCCHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999 55555543
No 2
>PLN02532 asparagine-tRNA synthetase
Probab=100.00 E-value=2.8e-70 Score=573.64 Aligned_cols=347 Identities=49% Similarity=0.826 Sum_probs=304.9
Q ss_pred hcccccCcceehhhhhcCCCCCCCCCCcEEEEEEEEEee-----------------------------------------
Q 017368 21 VQRHQFSDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTG----------------------------------------- 59 (373)
Q Consensus 21 ~~~~~~~~r~~Ikdi~~~~~l~~~~igk~V~V~GWV~si----------------------------------------- 59 (373)
+-+..||.|+.++.|+.+.|-+...+|+.|.|.|||++.
T Consensus 21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 100 (633)
T PLN02532 21 ITPSKYSNRVVLKTILGRSDGGAGLVGKRVVVGGWVKSAKEVKKEPAPPPPPQSPSSAGDQSPGHKDVRCTEILQSRVPI 100 (633)
T ss_pred ccchhccceeeeeeecccCCCccccccceEEecceehhhHHhhcCCCCCCCCCCCCCCCCCCCCcCCcchhHHHhhhcHH
Confidence 446899999999999999999999999999999999753
Q ss_pred -----------------------------ecCCCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEEEeeC
Q 017368 60 -----------------------------REQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKN 110 (373)
Q Consensus 60 -----------------------------R~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~~ 110 (373)
|.+| +++||+||||||..+||||+.++.....+.|+.|++|.|+|+|+.
T Consensus 101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~g--~i~FI~LrDGSg~~~lQvVv~~~~~~~~~~L~~Es~V~V~G~V~~ 178 (633)
T PLN02532 101 FRSIAKVLSGGGSTYPVREKTEIAIQKSAPPPP--SVAYLLISDGSCVASLQVVVDSALAPLTQLMATGTCILAEGVLKL 178 (633)
T ss_pred HHHHHHHHcCCCCCCCcccccccccccccccCC--CcEEEEEECCCCccceEEEEeCCcccHhhcCCCceEEEEEEEEEe
Confidence 5566 899999999999889999998764333467899999999999998
Q ss_pred CCC-CCccceEEEEeEEEEeecCCCCCCCCCCCCCChhhhhhccceecCCHHHHHHHHHHHHHHHHHHHHHHhCCcEEEe
Q 017368 111 PPE-GTKQKIELRVQKVVDVGMVDPAKYPIPKTKLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIH 189 (373)
Q Consensus 111 ~~~-~~~g~vEL~v~~i~VLs~a~~~~~Pi~~k~~s~E~lr~~r~LrlRt~~~~~il~iRS~i~~~iR~fL~~~gFiEV~ 189 (373)
+.. ..+|++||.+++|+||+++.+.+|||+++.+++|++|++||||+|++.++++|++||.+++++|+||.++||+||+
T Consensus 179 ~~~~~~~g~iEl~v~~i~VLg~a~~~p~Pi~~k~~~~E~LR~~RhLdLRt~~~~ailRiRS~i~~aiR~ff~~~GFiEV~ 258 (633)
T PLN02532 179 PLPAQGKHVIELEVEKILHIGTVDPEKYPLSKKRLPLDMLRDFSHFRPRTTTVASVTRVRSALTHATHTFFQDHGFLYVQ 258 (633)
T ss_pred cCCCCCCCcEEEEeeEEEEEecCCCCCCccccccCCHHHHhhCcceecCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEee
Confidence 732 3578999999999999998767899998888999999999999999999999999999999999999999999999
Q ss_pred cCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhhhcccchhhhhhhhHHHHHHH
Q 017368 190 TPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASVTELTKA 269 (373)
Q Consensus 190 TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 269 (373)
||+|++++||||+++|.|+++.....+..+..+.++. ...+.+++++|+++++..|+.++++.+++||+.+..+++.++
T Consensus 259 TPiLT~s~~EGa~elF~v~t~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 337 (633)
T PLN02532 259 VPIITTTDATGFGEMFRVTTLLGKSDDKEEKKPVHET-EGISLEAVKAAIKEKTNLVEELKRSESNREALVAAEQDLRKT 337 (633)
T ss_pred CCeecccCCCccccccceecccccccccccccccccc-ccccchhhhhhhhccccccccccccccccccccccccccccc
Confidence 9999999999999999998754322111111111111 123678999999999999999999999999999999999988
Q ss_pred HHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHHHhhcCceEEEecceecCCCCCCCCcCccccce
Q 017368 270 KENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVE 349 (373)
Q Consensus 270 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~~~~~~vy~~~p~fRaE~~~t~rhl~EF~~le 349 (373)
++--+-++...+.+.+.+.++++.+|+.|||++++||+||||||+|+++++|+|||+|||+||||+++|+|||+||||||
T Consensus 338 ~~~~~~~~~~~~~~~~~~~~~~~~~f~~dyFg~~ayLtqS~QLylE~~~~gl~rVYeIgP~FRAE~s~T~RHL~EFtmlE 417 (633)
T PLN02532 338 NQLASQLEAKEKLKTGTSVKADKLSFSKDFFSRPTYLTVSGRLHLESYACALGNVYTFGPRFRADRIDSARHLAEMWMVE 417 (633)
T ss_pred ccccccccccccccccccccccccccccccCCCCeeeccCHHHHHHHHHHhcCceEEEccceecCCCCCCccccccccee
Confidence 88777788888888888889999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeecCCCHHHHHH----HHHHHHHh
Q 017368 350 PEMAFSDLKVRWT----YTAHCLVF 370 (373)
Q Consensus 350 ~e~~~~~~~~~~~----~~~~~~~~ 370 (373)
+||+|+|++|+|+ +|+++++.
T Consensus 418 ~Emaf~d~~dvM~l~E~lI~~v~k~ 442 (633)
T PLN02532 418 VEMAFSELEDAMNCAEDYFKFLCKW 442 (633)
T ss_pred eeehhcCHHHHHHHHHHHHHHHHHH
Confidence 9999999999999 55555543
No 3
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.1e-65 Score=512.42 Aligned_cols=243 Identities=41% Similarity=0.658 Sum_probs=223.4
Q ss_pred CcceehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch--hh-h-ccCCCCCcEE
Q 017368 27 SDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV--AD-L-GQLVPTGTCV 102 (373)
Q Consensus 27 ~~r~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~--~~-~-~~~L~~esvV 102 (373)
..+++|+|++. ...+++|+|+|||+++|.+| +++||.||||||+ ||||+.++. .+ + ++.|+.||+|
T Consensus 2 ~~~~~i~di~~------~~~~~~V~v~GWV~~~R~~g--~i~Fi~lrDgsg~--iQ~v~~~~~~~~~~~~~~~L~~es~v 71 (435)
T COG0017 2 MKRTYIKDIKP------HVGGQEVTVRGWVHNKRDLG--KIIFLVLRDGSGF--IQAVVPKNKVYEELFKAKKLTLESSV 71 (435)
T ss_pred CceeeHHhhhc------cCCCcEEEEEEEeeeecccC--CeEEEEEEcCCcE--EEEEEECCCCcHHHhhhhcCCCccEE
Confidence 35789999984 23349999999999999999 8999999999998 999998642 11 1 5679999999
Q ss_pred EEEEEeeCCCCCCccceEEEEeEEEEeecCCCCCCCCCCCCCC-hhhhhhccceecCCHHHHHHHHHHHHHHHHHHHHHH
Q 017368 103 YVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTKLT-LEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQ 181 (373)
Q Consensus 103 ~V~G~v~~~~~~~~g~vEL~v~~i~VLs~a~~~~~Pi~~k~~s-~E~lr~~r~LrlRt~~~~~il~iRS~i~~~iR~fL~ 181 (373)
.|+|+|++++ ++.|++||++++|+|++.+. .+|||+++.++ +|+++++|||++|++..+++|++||.|++++|+||.
T Consensus 72 ~V~G~v~~~~-~a~~g~El~v~~i~Vl~~a~-~~~Pi~~~~~~~~e~lld~rhL~lR~~~~~Av~kirs~i~~a~~eff~ 149 (435)
T COG0017 72 VVTGIVKASP-KAPQGFELQVEKIEVLGEAD-PPYPIDKKEHSELETLLDNRHLDLRTPKIQAVFKIRSSILRAIREFFY 149 (435)
T ss_pred EEEEEEEcCC-CCCCCEEEEEEEEEEeeccC-CCCCcCcccccCHHHHHhchheeccccchHHHHhHHHHHHHHHHHHHH
Confidence 9999999998 57899999999999999996 49999999996 999999999999999999999999999999999999
Q ss_pred hCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhhhcccchhhhhhh
Q 017368 182 KQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISA 261 (373)
Q Consensus 182 ~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 261 (373)
++||+||+||+|+++++|||+++|.|
T Consensus 150 ~~gF~eV~tP~i~~~~~EGg~elF~v------------------------------------------------------ 175 (435)
T COG0017 150 ENGFTEVHTPIITASATEGGGELFKV------------------------------------------------------ 175 (435)
T ss_pred hCCcEEecCceEeccCCCCCceeEEE------------------------------------------------------
Confidence 99999999999999999999999987
Q ss_pred hHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHHHhhcCceEEEecceecCCCCCCCC
Q 017368 262 SVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRH 341 (373)
Q Consensus 262 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~~~~~~vy~~~p~fRaE~~~t~rh 341 (373)
+||++++||+||||||+|+++++++|||+|||+||||+|+|+||
T Consensus 176 ------------------------------------~yf~~~a~LtqS~QLyke~~~~al~rVf~igP~FRAE~s~T~RH 219 (435)
T COG0017 176 ------------------------------------DYFDKEAYLTQSPQLYKEALAAALERVFTIGPTFRAEKSNTRRH 219 (435)
T ss_pred ------------------------------------eecCcceEEecCHHHHHHHHHHHhCceEEecCceecCCCCCcch
Confidence 48999999999999999999999999999999999999999999
Q ss_pred cCccccceeeecCCCHHHHHH----HHHHHHHhc
Q 017368 342 LAEFWMVEPEMAFSDLKVRWT----YTAHCLVFE 371 (373)
Q Consensus 342 l~EF~~le~e~~~~~~~~~~~----~~~~~~~~~ 371 (373)
|+||||+|+||+|++++|+|+ +|+++++.+
T Consensus 220 L~EF~~ld~Emaf~~~~d~m~l~E~~i~~i~~~v 253 (435)
T COG0017 220 LSEFWMLDPEMAFADLNDVMDLAEELIKYLFKKV 253 (435)
T ss_pred hhhHheecceeccCcHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999 666666554
No 4
>PLN02603 asparaginyl-tRNA synthetase
Probab=100.00 E-value=1.3e-64 Score=527.98 Aligned_cols=283 Identities=53% Similarity=0.871 Sum_probs=239.8
Q ss_pred cccCcceehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhhh--cc--CCCCC
Q 017368 24 HQFSDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADL--GQ--LVPTG 99 (373)
Q Consensus 24 ~~~~~r~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~--~~--~L~~e 99 (373)
.++..+++|++|....+....+.|++|+|+|||+++|.+| +++|++||||++..+||||++++...+ .. .|+.|
T Consensus 84 ~~~~~~~~~~~~~~~~~~~~~~~g~~V~v~GwV~~iR~~g--~~~Fi~l~Dgs~~~~lQ~v~~~~~~~~~~l~~~~l~~g 161 (565)
T PLN02603 84 GEFRKKLRIADVKGGEDEGLARVGKTLNVMGWVRTLRAQS--SVTFIEVNDGSCLSNMQCVMTPDAEGYDQVESGLITTG 161 (565)
T ss_pred cccCCceEhhhcccccccccccCCCEEEEEEEEEEEEeCC--CeEEEEEECCCCCEeEEEEEECcHHHHHHHhhcCCCCC
Confidence 3456889999998433334578899999999999999999 899999999998778999998654322 22 48999
Q ss_pred cEEEEEEEeeCCCCCCccceEEEEeEEEEeecCCCCCCCCCCCCCChhhhhhccceecCCHHHHHHHHHHHHHHHHHHHH
Q 017368 100 TCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTKLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTF 179 (373)
Q Consensus 100 svV~V~G~v~~~~~~~~g~vEL~v~~i~VLs~a~~~~~Pi~~k~~s~E~lr~~r~LrlRt~~~~~il~iRS~i~~~iR~f 179 (373)
|+|.|+|+|++++ +..+.+||++++++|+|+|+ .+||++++.++.+++|.++|||+|++.++++|++||.+++++|+|
T Consensus 162 s~V~V~G~v~~~~-~~~~~~EL~v~~i~vlg~a~-~~~Pi~~~~~s~e~lr~~~hLr~Rt~~~~ai~RiRS~i~~air~f 239 (565)
T PLN02603 162 ASVLVQGTVVSSQ-GGKQKVELKVSKIVVVGKSD-PSYPIQKKRVSREFLRTKAHLRPRTNTFGAVARVRNALAYATHKF 239 (565)
T ss_pred CEEEEEEEEEecC-CCCccEEEEEeEEEEEECCC-CCCCCcccccchhhhhhhhhhhhccHHHHHHHHHHHHHHHHHHHH
Confidence 9999999999987 45678999999999999998 489999988999999999999999999999999999999999999
Q ss_pred HHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhhhcccchhhhh
Q 017368 180 LQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAI 259 (373)
Q Consensus 180 L~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 259 (373)
|.++||+||+||+|++++||||+++|.|+++.....+ ++
T Consensus 240 f~~~gF~eV~TPiLt~s~~EGA~e~F~Vttl~~~~~~-------~~---------------------------------- 278 (565)
T PLN02603 240 FQENGFVWVSSPIITASDCEGAGEQFCVTTLIPNSAE-------NG---------------------------------- 278 (565)
T ss_pred HHHCCCEEEECCeecccCCCccccCceeeeccccccc-------cc----------------------------------
Confidence 9999999999999999999999999999754211000 00
Q ss_pred hhhHHHHHHHHHHHHHHHhhhccCCCCC-CCCCCccccccccCccceeeccHHHHHHHHHhhcCceEEEecceecCCCCC
Q 017368 260 SASVTELTKAKENLAKLEERSKLKPGIP-QKDGKIDYTQDFFARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHT 338 (373)
Q Consensus 260 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~~~~~~vy~~~p~fRaE~~~t 338 (373)
..+...+| +..|+.++..|||++++||+||||||+|+|++||+|||+||||||||+|+|
T Consensus 279 --------------------~~~~~~lp~~~~~~~~~~~dyF~~~~~LtvS~QL~~E~~~~~l~rVy~igp~FRaE~s~T 338 (565)
T PLN02603 279 --------------------GSLVDDIPKTKDGLIDWSQDFFGKPAFLTVSGQLNGETYATALSDVYTFGPTFRAENSNT 338 (565)
T ss_pred --------------------cccccccccCcccccccchhhhCcceeeccCchHHHHHHHhcccceEEEecceeCCCCCC
Confidence 00001222 233556688899999999999999999999999999999999999999999
Q ss_pred CCCcCccccceeeecCCCHHHHHH----HHHHHHHhc
Q 017368 339 SRHLAEFWMVEPEMAFSDLKVRWT----YTAHCLVFE 371 (373)
Q Consensus 339 ~rhl~EF~~le~e~~~~~~~~~~~----~~~~~~~~~ 371 (373)
+|||+||||||+||+|+|++|+|+ +|+++++.+
T Consensus 339 ~RHL~EF~mlE~E~af~dl~d~m~~~E~~l~~~~~~v 375 (565)
T PLN02603 339 SRHLAEFWMIEPELAFADLNDDMACATAYLQYVVKYI 375 (565)
T ss_pred ccccccceeeeeeeecCCHHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999 455555543
No 5
>PTZ00425 asparagine-tRNA ligase; Provisional
Probab=100.00 E-value=2.6e-62 Score=510.98 Aligned_cols=313 Identities=45% Similarity=0.743 Sum_probs=236.5
Q ss_pred cceehhhhhcCC-------CC--CCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhh--hccCC
Q 017368 28 DRVLIKSILTRP-------DG--GAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD--LGQLV 96 (373)
Q Consensus 28 ~r~~Ikdi~~~~-------~l--~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~--~~~~L 96 (373)
.|+.|..+++.+ +. ...++|++|+|+|||+++|++|+++++||+||||+|...+|||+++.... ....|
T Consensus 53 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~Vtl~GWv~~iR~~g~~~~~Fv~lrDgsg~~~iQiVv~~~~~~~~~l~~l 132 (586)
T PTZ00425 53 SRIRICNVLNVPKSEKEFNDNSRKNKYIDQIITVCGWSKAVRKQGGGRFCFVNLNDGSCHLNLQIIVDQSIENYEKLLKC 132 (586)
T ss_pred cceeeehhccCccccccccccccccccCCCEEEEEEEEeehhhcCCceEEEEEEECCCCCcceEEEECCchHHHHHHhcC
Confidence 367777666521 11 13568999999999999999994359999999999977899999765322 23468
Q ss_pred CCCcEEEEEEEeeCCCCC-------CccceEEEE-----eEEEEeecC-CCCCCCCCCCCCChhhhhhccceecCCHHHH
Q 017368 97 PTGTCVYVEGMLKNPPEG-------TKQKIELRV-----QKVVDVGMV-DPAKYPIPKTKLTLEFLRDRIPFRPRTNTIA 163 (373)
Q Consensus 97 ~~esvV~V~G~v~~~~~~-------~~g~vEL~v-----~~i~VLs~a-~~~~~Pi~~k~~s~E~lr~~r~LrlRt~~~~ 163 (373)
+.|++|.|+|+|+.++.. .++++||.+ .+++|++++ ++.+||++++.++.|++|++||||+|++.++
T Consensus 133 ~~gs~v~v~G~v~~~~~~~~n~~g~~~~~~El~~~~~~~~~~~ilg~~~d~~~yPi~~k~~~~e~lr~~rhL~lR~~~~~ 212 (586)
T PTZ00425 133 GVGCCFRFTGKLIISPVQNENKKGLLKENVELALKDNSIHNFEIYGENLDPQKYPLSKKNHGKEFLREVAHLRPRSYFIS 212 (586)
T ss_pred CCccEEEEEEEEEcCCccccCcCCCCCccEEEEEecCCCceEEEEeccCCCCCCCCCCccCChhhhhhccceeccCHHHH
Confidence 999999999999987632 146799998 699999998 4568999998899999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhh
Q 017368 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKG 243 (373)
Q Consensus 164 ~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 243 (373)
++||+||.+..++|+||.++||+||+||+|++++||||+++|.|+++.++..+. .++ |.++ .+...++
T Consensus 213 avlRiRs~l~~a~r~ff~~~gF~eI~TPiit~s~~EGa~elF~V~t~~~~~~~~-~~~---p~~~------~~~~~~~-- 280 (586)
T PTZ00425 213 SVIRIRNALAIATHLFFQSRGFLYIHTPLITTSDCEGGGEMFTVTTLLGEDADY-RAI---PRVN------KKNKKGE-- 280 (586)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCEEeeCCeecccCCCCCcceEEeeecccccccc-ccc---cccc------ccccccc--
Confidence 999999999999999999999999999999999999999999998764321100 000 1000 0000000
Q ss_pred hHHHhhhcccchhhhhhh-hHHHHH--HHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHHHhh
Q 017368 244 EAVAKLKSDKAGREAISA-SVTELT--KAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYACA 320 (373)
Q Consensus 244 ~~~~~~~~~~~~~~~~~~-~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~~~ 320 (373)
|.++++.++... ..+.++ .+|.+++ .|. .+..+++.|||++++||+||||||+|++++|
T Consensus 281 ------~~~~~~~~~~~~~~~~~~~~~~~~~~~q-----------~~~-~~~~~~~~~yF~k~ayL~~S~QLylE~~~~g 342 (586)
T PTZ00425 281 ------KREDILNTCNANNNNGNSSSSNAVSSPA-----------YPD-QYLIDYKKDFFSKQAFLTVSGQLSLENLCSS 342 (586)
T ss_pred ------cccccccccccccccccccccccccccc-----------ccc-cccccccccccCcceEEEcCchHHHHHHHhc
Confidence 112222111111 000000 1111111 111 1345677899999999999999999999999
Q ss_pred cCceEEEecceecCCCCCCCCcCccccceeeecCCCHHHHHH----HHHHHHHh
Q 017368 321 VSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLKVRWT----YTAHCLVF 370 (373)
Q Consensus 321 ~~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~~~~~~~~~----~~~~~~~~ 370 (373)
|+|||+|+||||||+++|+|||+||||||+||+|++++++|+ +|+++++.
T Consensus 343 ~~rVf~i~p~FRaE~s~t~RHL~EFt~lE~E~af~d~~d~m~~~E~li~~v~~~ 396 (586)
T PTZ00425 343 MGDVYTFGPTFRAENSHTSRHLAEFWMIEPEIAFADLYDNMELAESYIKYCIGY 396 (586)
T ss_pred cCCEEEEeceEeCCCCCCCCCCcccceEEEEEecCCHHHHHHHHHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999 55555543
No 6
>KOG0554 consensus Asparaginyl-tRNA synthetase (mitochondrial) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.2e-62 Score=482.85 Aligned_cols=253 Identities=56% Similarity=0.933 Sum_probs=230.9
Q ss_pred eehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEEEee
Q 017368 30 VLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLK 109 (373)
Q Consensus 30 ~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~ 109 (373)
.++.++....++.....|+++.|.|||+++|..| +++|++|+||++..+||||++.+ ..+.+..|++|.|+|.+.
T Consensus 3 ~~~~~v~~~~~~~~~~~g~~~~i~GWvKsvr~~~--~~~Fl~i~DGs~~~~lQvVv~~~---~~q~la~Gt~i~~~g~l~ 77 (446)
T KOG0554|consen 3 KRSLSVLSGRILGHPRAGDTISIGGWVKSVRKLK--KVTFLDINDGSCPSPLQVVVDSE---QSQLLATGTCISAEGVLK 77 (446)
T ss_pred eeeeeeeccccccCCCCCCceeecchhhhccccc--ceEEEEecCCCCCcceEEEechH---HhhhccccceEEEEeeEE
Confidence 3444444333445567799999999999999999 89999999999999999999984 467799999999999999
Q ss_pred CCCCCCccceEEEEeEEEEeecCCCCCCCCCCCCCChhhhhhccceecCCHHHHHHHHHHHHHHHHHHHHHHhCCcEEEe
Q 017368 110 NPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTKLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIH 189 (373)
Q Consensus 110 ~~~~~~~g~vEL~v~~i~VLs~a~~~~~Pi~~k~~s~E~lr~~r~LrlRt~~~~~il~iRS~i~~~iR~fL~~~gFiEV~ 189 (373)
.+. +..+++|+.+++|.+++.++ .+||++++.+++|++|+..|||.|++.+.+++|+||++..++|.||.+++|++|+
T Consensus 78 ~~~-~~~q~iel~~eki~~vG~v~-~~ypl~Kk~lt~e~LR~~~HLR~Rt~~~~av~RvRs~~~~a~h~ffq~~~F~~i~ 155 (446)
T KOG0554|consen 78 VSK-GAKQQIELNAEKIKVVGTVD-ESYPLQKKKLTPEMLRDKLHLRSRTAKVGAVLRVRSALAFATHSFFQSHDFTYIN 155 (446)
T ss_pred ecc-chheeeeeeeeEEEEEeecC-CCCCCccccCCHHHHhhcccccchhhHHHHHHHHHHHHHHHHHHHHHHcCceEec
Confidence 884 67899999999999999999 4599999999999999999999999999999999999999999999999999999
Q ss_pred cCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhhhcccchhhhhhhhHHHHHHH
Q 017368 190 TPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASVTELTKA 269 (373)
Q Consensus 190 TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 269 (373)
|||||.++||||+|+|.|+++
T Consensus 156 tPiiTt~DCEGaGE~F~vtt~----------------------------------------------------------- 176 (446)
T KOG0554|consen 156 TPIITTNDCEGAGEVFQVTTL----------------------------------------------------------- 176 (446)
T ss_pred CcEeeccCCCCCcceEEEEec-----------------------------------------------------------
Confidence 999999999999999999753
Q ss_pred HHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHHHhhcCceEEEecceecCCCCCCCCcCccccce
Q 017368 270 KENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVE 349 (373)
Q Consensus 270 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~~~~~~vy~~~p~fRaE~~~t~rhl~EF~~le 349 (373)
.++..+||++|+|||+|+|||+|+|+|+|+|||++||+||||+|+|+|||+||||+|
T Consensus 177 -----------------------~d~~~~fFg~p~fLTVSgQLhlE~~a~~LsrvyTfgP~FRAEnS~tsRHLAEFwMlE 233 (446)
T KOG0554|consen 177 -----------------------TDYSKDFFGRPAFLTVSGQLHLEAMACALSRVYTFGPTFRAENSHTSRHLAEFWMLE 233 (446)
T ss_pred -----------------------CcccccccCCceEEEEeceehHHHHHhhhcceEeeccceecccCCchhHHhhhhhhh
Confidence 135678999999999999999999999999999999999999999999999999999
Q ss_pred eeecCCC-HHHHHH----HHHHHHHhc
Q 017368 350 PEMAFSD-LKVRWT----YTAHCLVFE 371 (373)
Q Consensus 350 ~e~~~~~-~~~~~~----~~~~~~~~~ 371 (373)
+|+||++ ++|+|. |+|+|++++
T Consensus 234 aE~AF~~sl~d~m~~~e~~~K~mik~l 260 (446)
T KOG0554|consen 234 AELAFAESLDDLMSCAEAYIKHMIKYL 260 (446)
T ss_pred hHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 9999999 999998 788887764
No 7
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=100.00 E-value=2.6e-58 Score=471.68 Aligned_cols=250 Identities=51% Similarity=0.827 Sum_probs=221.0
Q ss_pred cceehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch----hhhccCCCCCcEEE
Q 017368 28 DRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV----ADLGQLVPTGTCVY 103 (373)
Q Consensus 28 ~r~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~----~~~~~~L~~esvV~ 103 (373)
.+++|++++ ...+.|++|+|+|||+++|.+| |++|++|||++|. +|+++..+. .++.+.|+.||+|.
T Consensus 2 ~~~~~~~~~-----~~~~~~~~V~i~G~v~~~R~~g--~~~Fi~lrD~~g~--iq~~~~~~~~~~~~~~~~~l~~~s~v~ 72 (450)
T PRK03932 2 MRVSIKDIL-----KGKYVGQEVTVRGWVRTKRDSG--KIAFLQLRDGSCF--KQLQVVKDNGEEYFEEIKKLTTGSSVI 72 (450)
T ss_pred CcEEHHHhc-----ccccCCCEEEEEEEEEEEEeCC--CeEEEEEECCCCc--EEEEEEcCCChHHHHHHhcCCCCcEEE
Confidence 356788886 2467899999999999999999 8999999999986 888776542 23456799999999
Q ss_pred EEEEeeCCCCCCccceEEEEeEEEEeecCCCCCCCCCCCCCChhhhhhccceecCCHHHHHHHHHHHHHHHHHHHHHHhC
Q 017368 104 VEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTKLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQ 183 (373)
Q Consensus 104 V~G~v~~~~~~~~g~vEL~v~~i~VLs~a~~~~~Pi~~k~~s~E~lr~~r~LrlRt~~~~~il~iRS~i~~~iR~fL~~~ 183 (373)
|+|++.+++ .+.|++||++++++|++++. .++|++.+.+++++++++||||+|++.++++|++||.|++++|+||.++
T Consensus 73 v~G~v~~~~-~~~~~~el~~~~i~vl~~~~-~~~p~~~~~~~~~~~~~~r~l~lR~~~~~~~l~~Rs~i~~~iR~f~~~~ 150 (450)
T PRK03932 73 VTGTVVESP-RAGQGYELQATKIEVIGEDP-EDYPIQKKRHSIEFLREIAHLRPRTNKFGAVMRIRNTLAQAIHEFFNEN 150 (450)
T ss_pred EEEEEEcCC-CCCCCEEEEEEEEEEccCCC-CCCCCCccccChHHHhhCceeeccCHHHHHHHHHHHHHHHHHHHHHHHC
Confidence 999999987 35689999999999999986 6799988888899999999999999999999999999999999999999
Q ss_pred CcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhhhcccchhhhhhhhH
Q 017368 184 GFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASV 263 (373)
Q Consensus 184 gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 263 (373)
||+||+||+|++++|||++++|.|+++..
T Consensus 151 gf~EV~TP~L~~~~~eg~~~~F~v~~~~~--------------------------------------------------- 179 (450)
T PRK03932 151 GFVWVDTPIITASDCEGAGELFRVTTLDL--------------------------------------------------- 179 (450)
T ss_pred CCEEecCCceeccCCCCCCCceEeecccc---------------------------------------------------
Confidence 99999999999999999999999863200
Q ss_pred HHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHHHhhcCceEEEecceecCCCCCCCCcC
Q 017368 264 TELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRHLA 343 (373)
Q Consensus 264 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~~~~~~vy~~~p~fRaE~~~t~rhl~ 343 (373)
..+.+||++++||++|||||+|++++|++|||+|+||||||+++|+|||+
T Consensus 180 ------------------------------~~~~~~~~~~~~L~~Spql~lq~l~~g~~rVf~i~~~FR~E~~~t~rHl~ 229 (450)
T PRK03932 180 ------------------------------DFSKDFFGKEAYLTVSGQLYAEAYAMALGKVYTFGPTFRAENSNTRRHLA 229 (450)
T ss_pred ------------------------------cccccccCCCcccccCHHHHHHHHHhccCCeEEeeeccccCCCCCccccc
Confidence 02346999999999999999999999999999999999999999999999
Q ss_pred ccccceeeecCCCHHHHHHHHHHHHH
Q 017368 344 EFWMVEPEMAFSDLKVRWTYTAHCLV 369 (373)
Q Consensus 344 EF~~le~e~~~~~~~~~~~~~~~~~~ 369 (373)
||||||+||+|+|++++|+++..|++
T Consensus 230 EFt~lE~e~~~~~~~~~m~~~e~li~ 255 (450)
T PRK03932 230 EFWMIEPEMAFADLEDNMDLAEEMLK 255 (450)
T ss_pred cccccceEEeccCHHHHHHHHHHHHH
Confidence 99999999999999999995444443
No 8
>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=2.3e-58 Score=472.27 Aligned_cols=253 Identities=48% Similarity=0.813 Sum_probs=221.2
Q ss_pred eehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch----hhhccCCCCCcEEEEE
Q 017368 30 VLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV----ADLGQLVPTGTCVYVE 105 (373)
Q Consensus 30 ~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~----~~~~~~L~~esvV~V~ 105 (373)
.+|++++. ....+.|++|+|+|||+++|.+| |++|++|||+++.+.||+|++++. .+..+.|+.||+|.|+
T Consensus 2 ~~~~~~~~---~~~~~~g~~v~v~Gwv~~~R~~~--~~~F~~lrD~~~~g~iQ~v~~~~~~~~~~~~~~~l~~gs~V~v~ 76 (453)
T TIGR00457 2 AAIKDLLQ---QVYKFVGDEVTVSGWVRTKRSSK--KIIFLELNDGSSLGPIQAVINGEDNPYLFQLLKSLTTGSSVSVT 76 (453)
T ss_pred ccHHHHHh---cchhcCCCEEEEEEEeEEEEcCC--CeEEEEEECCCCCccEEEEEeCCcChHHHHHHHcCCCCcEEEEE
Confidence 45677773 12367799999999999999998 899999999993334999998752 1245679999999999
Q ss_pred EEeeCCCCCCccceEEEEeEEEEeecCCCCCCCCCCCCCChhhhhhccceecCCHHHHHHHHHHHHHHHHHHHHHHhCCc
Q 017368 106 GMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTKLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGF 185 (373)
Q Consensus 106 G~v~~~~~~~~g~vEL~v~~i~VLs~a~~~~~Pi~~k~~s~E~lr~~r~LrlRt~~~~~il~iRS~i~~~iR~fL~~~gF 185 (373)
|+|.+++ +.++++||.+++++|+|+|.+.++|++.+.+++++++++||||+|++.++++|++||.|++++|+||.++||
T Consensus 77 G~v~~~~-~~~~~~El~~~~i~vl~~~~~~~~P~~~~~~~~~~~~~~r~l~lR~~~~~~~lr~Rs~i~~~~r~~~~~~gf 155 (453)
T TIGR00457 77 GKVVESP-GKGQPVELQVKKIEVVGEAEPDDYPLQKKEHSLEFLRDIAHLRLRTNTLGAVMRVRNALSQAIHRYFQENGF 155 (453)
T ss_pred EEEEcCC-CCCCCEEEEEeEEEEEecCCccCCCCCccccChhhHhhCcceecCCHHHHHHHHHHHHHHHHHHHHHHHCCC
Confidence 9999876 467899999999999999975679998888889999999999999999999999999999999999999999
Q ss_pred EEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhhhcccchhhhhhhhHHH
Q 017368 186 LYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASVTE 265 (373)
Q Consensus 186 iEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 265 (373)
+||+||+|+.++|||++++|.|++.
T Consensus 156 ~eV~TP~l~~~~~eg~~~~F~v~~~------------------------------------------------------- 180 (453)
T TIGR00457 156 TWVSPPILTSNDCEGAGELFRVSTD------------------------------------------------------- 180 (453)
T ss_pred EEecCCeEeecCCCCCCCceEeccc-------------------------------------------------------
Confidence 9999999999999999999988521
Q ss_pred HHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHHHhhcCceEEEecceecCCCCCCCCcCcc
Q 017368 266 LTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRHLAEF 345 (373)
Q Consensus 266 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~~~~~~vy~~~p~fRaE~~~t~rhl~EF 345 (373)
+..+..+||++++||++|||||||++++|++|||+|+||||||+++|+|||+||
T Consensus 181 --------------------------~~~~~~~~~~~~~yL~~Spql~lq~l~~g~~rVf~i~~~FR~E~~~t~rHl~EF 234 (453)
T TIGR00457 181 --------------------------GIDFSQDFFGKEAYLTVSGQLYLETYALALSKVYTFGPTFRAEKSNTSRHLSEF 234 (453)
T ss_pred --------------------------ccccchhccCCccccccCHHHHHHHHhhcccCceEeeeccccCCCCCCcCcchh
Confidence 001234699999999999999999999999999999999999999999999999
Q ss_pred ccceeeecCCCHHHHHHHHHHHHH
Q 017368 346 WMVEPEMAFSDLKVRWTYTAHCLV 369 (373)
Q Consensus 346 ~~le~e~~~~~~~~~~~~~~~~~~ 369 (373)
||||+||+|+|++|+|+++..|++
T Consensus 235 t~le~e~~~~~~~dvm~~~E~lv~ 258 (453)
T TIGR00457 235 WMIEPEMAFANLNDLLQLAETLIK 258 (453)
T ss_pred ccceeeeecCCHHHHHHHHHHHHH
Confidence 999999999999999994444443
No 9
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=100.00 E-value=6.4e-57 Score=459.84 Aligned_cols=240 Identities=30% Similarity=0.458 Sum_probs=213.3
Q ss_pred cceehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch----hhhccCCCCCcEEE
Q 017368 28 DRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV----ADLGQLVPTGTCVY 103 (373)
Q Consensus 28 ~r~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~----~~~~~~L~~esvV~ 103 (373)
++++|+++- ....|++|+|+|||+++|.+| |++|++|||++|. ||+|++++. .++.+.|+.||+|.
T Consensus 3 ~~~~~~~l~------~~~~g~~V~i~GrV~~~R~~g--k~~Fl~LrD~~g~--iQ~v~~~~~~~~~~~~~~~L~~gs~V~ 72 (437)
T PRK05159 3 KRHLTSELT------PELDGEEVTLAGWVHEIRDLG--GIAFLILRDRSGI--IQVVVKKKVDEELFETIKKLKRESVVS 72 (437)
T ss_pred ceeEhhhCC------hhhCCCEEEEEEEeEeeecCC--CeEEEEEEcCCcE--EEEEEeCCccHHHHHHHhCCCCCcEEE
Confidence 567777664 467899999999999999999 8999999999986 999998652 23457799999999
Q ss_pred EEEEeeCCCCCCccceEEEEeEEEEeecCCCCCCCCCCC---CCChhhhhhccceecCCHHHHHHHHHHHHHHHHHHHHH
Q 017368 104 VEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKT---KLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFL 180 (373)
Q Consensus 104 V~G~v~~~~~~~~g~vEL~v~~i~VLs~a~~~~~Pi~~k---~~s~E~lr~~r~LrlRt~~~~~il~iRS~i~~~iR~fL 180 (373)
|+|+|.+++ ...|++||++++|+|+|+|. .++|+... ..+.++++++||||+|++.++++|++||.|++++|+||
T Consensus 73 v~G~v~~~~-~~~~~~el~~~~i~vls~a~-~~~P~~~~~~~~~~~~~~~~~r~Ldlr~~~~~~~l~~Rs~i~~~iR~ff 150 (437)
T PRK05159 73 VTGTVKANP-KAPGGVEVIPEEIEVLNKAE-EPLPLDISGKVLAELDTRLDNRFLDLRRPRVRAIFKIRSEVLRAFREFL 150 (437)
T ss_pred EEEEEEcCC-CCCCCEEEEEeEEEEEeCCC-CCCCCCccccccCCHHHHhhCcceecCCHHHHHHHHHHHHHHHHHHHHH
Confidence 999999986 34689999999999999997 56887533 23579999999999999999999999999999999999
Q ss_pred HhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhhhcccchhhhhh
Q 017368 181 QKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAIS 260 (373)
Q Consensus 181 ~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 260 (373)
.++||+||+||+|+.+++|||++.|++
T Consensus 151 ~~~gf~EV~TP~L~~~~~eg~~~~f~~----------------------------------------------------- 177 (437)
T PRK05159 151 YENGFTEIFTPKIVASGTEGGAELFPI----------------------------------------------------- 177 (437)
T ss_pred HHCCCEEEeCCcccccCCCCCcceEeE-----------------------------------------------------
Confidence 999999999999999999999998765
Q ss_pred hhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHHHh-hcCceEEEecceecCCCCCC
Q 017368 261 ASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYAC-AVSNVYTFGPTFRAEHSHTS 339 (373)
Q Consensus 261 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~~-~~~~vy~~~p~fRaE~~~t~ 339 (373)
+||++++||++|||||+|++++ |++|||+||||||||+++|+
T Consensus 178 -------------------------------------~~~~~~~~L~~Spql~~q~l~~~g~~rVf~i~~~FR~E~~~t~ 220 (437)
T PRK05159 178 -------------------------------------DYFEKEAYLAQSPQLYKQMMVGAGFERVFEIGPVFRAEEHNTS 220 (437)
T ss_pred -------------------------------------EecCCceEecCCHHHHHHHHHhcCCCcEEEEeceeeCCCCCCc
Confidence 4789999999999999999875 59999999999999999999
Q ss_pred CCcCccccceeeecCCC-HHHHHHHHHHHHH
Q 017368 340 RHLAEFWMVEPEMAFSD-LKVRWTYTAHCLV 369 (373)
Q Consensus 340 rhl~EF~~le~e~~~~~-~~~~~~~~~~~~~ 369 (373)
|||+||||||+||+|++ ++++|+++..|+.
T Consensus 221 rHl~EFt~lE~e~a~~~~~~~lm~~~e~lv~ 251 (437)
T PRK05159 221 RHLNEYTSIDVEMGFIDDHEDVMDLLENLLR 251 (437)
T ss_pred ccchhhheeeeeeeecccHHHHHHHHHHHHH
Confidence 99999999999999998 9999995444443
No 10
>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=4.7e-57 Score=459.80 Aligned_cols=233 Identities=28% Similarity=0.425 Sum_probs=208.6
Q ss_pred CCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch-----hhhccCCCCCcEEEEEEEeeCCCCCC
Q 017368 41 GGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV-----ADLGQLVPTGTCVYVEGMLKNPPEGT 115 (373)
Q Consensus 41 l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~-----~~~~~~L~~esvV~V~G~v~~~~~~~ 115 (373)
++..+.|++|+|+|||+++|.+| |++|++|||++|. ||+|++++. .++...|+.||+|.|+|+|+.++ ..
T Consensus 6 l~~~~~g~~v~i~G~v~~~R~~g--~~~Fi~lrd~~g~--iQ~v~~~~~~~~~~~~~~~~l~~~s~v~v~G~v~~~~-~~ 80 (428)
T TIGR00458 6 IKPEMDGQEVTFMGWVHEIRDLG--GLIFVLLRDREGL--IQITAPAKKVSKNLFKWAKKLNLESVVAVRGIVKIKE-KA 80 (428)
T ss_pred CchhhCCCEEEEEEEEEEEecCC--CcEEEEEEeCCee--EEEEEECCcCCHHHHHHHhCCCCCcEEEEEEEEEecC-CC
Confidence 34567899999999999999999 8999999999986 999998642 12456799999999999999875 34
Q ss_pred ccceEEEEeEEEEeecCCCCCCCCCCCC---CChhhhhhccceecCCHHHHHHHHHHHHHHHHHHHHHHhCCcEEEecCe
Q 017368 116 KQKIELRVQKVVDVGMVDPAKYPIPKTK---LTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPI 192 (373)
Q Consensus 116 ~g~vEL~v~~i~VLs~a~~~~~Pi~~k~---~s~E~lr~~r~LrlRt~~~~~il~iRS~i~~~iR~fL~~~gFiEV~TPi 192 (373)
.|++||++++++|+|+|. .++|++.++ .+.+++.++|||++|++.++++|++||.|++++|+||.++||+||+||+
T Consensus 81 ~~~~el~~~~i~vl~~~~-~~lP~~~~~~~~~~~~~r~~~R~ldlr~~~~~~~~r~Rs~i~~~iR~ff~~~gf~EV~TP~ 159 (428)
T TIGR00458 81 PGGFEIIPTKIEVINEAK-EPLPLDPTEKVPAELDTRLDYRFLDLRRPTVQAIFRIRSGVLESVREFLAEEGFIEVHTPK 159 (428)
T ss_pred CCcEEEEEeEEEEEecCC-CCCCCCccccCCCCHHHHhhhhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCc
Confidence 689999999999999996 678987654 3678889999999999999999999999999999999999999999999
Q ss_pred eecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhhhcccchhhhhhhhHHHHHHHHHH
Q 017368 193 ITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASVTELTKAKEN 272 (373)
Q Consensus 193 Lt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 272 (373)
|+++++|||+++|.+
T Consensus 160 L~~~~~eg~~~~f~v----------------------------------------------------------------- 174 (428)
T TIGR00458 160 LVASATEGGTELFPI----------------------------------------------------------------- 174 (428)
T ss_pred eecCCCCCCcceeee-----------------------------------------------------------------
Confidence 999999999998865
Q ss_pred HHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHH-HhhcCceEEEecceecCCCCCCCCcCccccceee
Q 017368 273 LAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPE 351 (373)
Q Consensus 273 ~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~vy~~~p~fRaE~~~t~rhl~EF~~le~e 351 (373)
+||++++||++|||||+|++ ++|++|||+||||||||+++|+|||+||||||+|
T Consensus 175 -------------------------~~~~~~~yL~~Spql~~q~li~~g~~rVf~i~~~FR~E~~~t~rHl~EFt~lE~e 229 (428)
T TIGR00458 175 -------------------------TYFEREAFLGQSPQLYKQQLMAAGFERVYEIGPIFRAEEHNTHRHLNEATSIDIE 229 (428)
T ss_pred -------------------------EecCCcEEECcCHHHHHHHHHhcccCcEEEEecccccCCCCCccchheeeEeeee
Confidence 37899999999999999975 5789999999999999999999999999999999
Q ss_pred ecCCCHHHHHHHHHHHHH
Q 017368 352 MAFSDLKVRWTYTAHCLV 369 (373)
Q Consensus 352 ~~~~~~~~~~~~~~~~~~ 369 (373)
|+|.|++++|+++..|+.
T Consensus 230 ~a~~~~~dlm~~~e~li~ 247 (428)
T TIGR00458 230 MAFEDHHDVMDILEELVV 247 (428)
T ss_pred eccCCHHHHHHHHHHHHH
Confidence 999999999995544443
No 11
>PLN02850 aspartate-tRNA ligase
Probab=100.00 E-value=7.8e-57 Score=468.03 Aligned_cols=235 Identities=29% Similarity=0.415 Sum_probs=207.6
Q ss_pred CCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch-------hhhccCCCCCcEEEEEEEeeCCC
Q 017368 40 DGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV-------ADLGQLVPTGTCVYVEGMLKNPP 112 (373)
Q Consensus 40 ~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~-------~~~~~~L~~esvV~V~G~v~~~~ 112 (373)
+++....|++|+|+|||+++|.+| +++|++|||+++. ||+|+..+. .++...|+.||+|.|+|+|++++
T Consensus 74 ~l~~~~~g~~V~v~Grv~~~R~~g--k~~Fl~Lrd~~~~--iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~ 149 (530)
T PLN02850 74 DLGEELAGSEVLIRGRVHTIRGKG--KSAFLVLRQSGFT--VQCVVFVSEVTVSKGMVKYAKQLSRESVVDVEGVVSVPK 149 (530)
T ss_pred hcchhhCCCEEEEEEEEEEEccCC--CeEEEEEEeCCcC--EEEEEECCccccCHHHHHHHhCCCCCCEEEEEEEEEccC
Confidence 344578899999999999999999 8999999999985 999997542 13567899999999999999653
Q ss_pred C---CCccceEEEEeEEEEeecCCCCCCCCCCCC--------------------CChhhhhhccceecCCHHHHHHHHHH
Q 017368 113 E---GTKQKIELRVQKVVDVGMVDPAKYPIPKTK--------------------LTLEFLRDRIPFRPRTNTIAAVARIR 169 (373)
Q Consensus 113 ~---~~~g~vEL~v~~i~VLs~a~~~~~Pi~~k~--------------------~s~E~lr~~r~LrlRt~~~~~il~iR 169 (373)
. +.++++||++++|.|+|+|. .++|++.++ .+.++++++||||+|++.++++|++|
T Consensus 150 ~~~~~~t~~~El~~~~i~vls~a~-~~lP~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~rl~~R~LdlR~~~~qaifrir 228 (530)
T PLN02850 150 KPVKGTTQQVEIQVRKIYCVSKAL-ATLPFNVEDAARSESEIEKALQTGEQLVRVGQDTRLNNRVLDLRTPANQAIFRIQ 228 (530)
T ss_pred cCCCCCCccEEEEEeEEEEEeCCC-CCCCCChhhcccccccccccccccccccccChhhhhcchhhhhcCHHHHHHHHHH
Confidence 2 24679999999999999997 578876543 24678889999999999999999999
Q ss_pred HHHHHHHHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhh
Q 017368 170 NALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKL 249 (373)
Q Consensus 170 S~i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 249 (373)
|.|++++|+||.++||+||+||+|+++++|||+++|.|
T Consensus 229 s~i~~~~R~fl~~~gF~EV~TP~L~~~~~egga~~F~v------------------------------------------ 266 (530)
T PLN02850 229 SQVCNLFREFLLSKGFVEIHTPKLIAGASEGGSAVFRL------------------------------------------ 266 (530)
T ss_pred HHHHHHHHHHHHHCCcEEEeCCccccCCCccccceeee------------------------------------------
Confidence 99999999999999999999999999999999998866
Q ss_pred hcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHHH-hhcCceEEEe
Q 017368 250 KSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYA-CAVSNVYTFG 328 (373)
Q Consensus 250 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~-~~~~~vy~~~ 328 (373)
+||++++||++|||||+|+++ ++++|||+||
T Consensus 267 ------------------------------------------------~yf~~~~~L~qSpql~kq~li~~g~~rVfeIg 298 (530)
T PLN02850 267 ------------------------------------------------DYKGQPACLAQSPQLHKQMAICGDFRRVFEIG 298 (530)
T ss_pred ------------------------------------------------ccCCcceecCCCHHHHHHHHHHhcCCceEEEe
Confidence 489999999999999999975 5799999999
Q ss_pred cceecCCCCCCCCcCccccceeeecCC-CHHHHHHHHHHHHH
Q 017368 329 PTFRAEHSHTSRHLAEFWMVEPEMAFS-DLKVRWTYTAHCLV 369 (373)
Q Consensus 329 p~fRaE~~~t~rhl~EF~~le~e~~~~-~~~~~~~~~~~~~~ 369 (373)
||||||+|+|+|||+||||||+||+|. +++++|+++..|+.
T Consensus 299 p~FRaE~s~t~RHl~EFt~Le~Em~~~~~y~evm~~~E~ll~ 340 (530)
T PLN02850 299 PVFRAEDSFTHRHLCEFTGLDLEMEIKEHYSEVLDVVDELFV 340 (530)
T ss_pred cccccCCCCCCccchhhccchhhhhhhcCHHHHHHHHHHHHH
Confidence 999999999999999999999999998 58999995555544
No 12
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=100.00 E-value=3.8e-56 Score=463.88 Aligned_cols=241 Identities=26% Similarity=0.376 Sum_probs=210.6
Q ss_pred ceehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch------hhhccCCCCCcEE
Q 017368 29 RVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV------ADLGQLVPTGTCV 102 (373)
Q Consensus 29 r~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~------~~~~~~L~~esvV 102 (373)
.+.|+++.. ....|++|+|+|||+++|.+| +++|++|||++|. ||+|+..+. .++...|+.||+|
T Consensus 65 ~~~i~~l~~-----~~~~g~~V~v~Grv~~~R~~G--k~~Fl~LRd~~~~--iQ~v~~~~~~~~~~~~~~~~~l~~esiV 135 (550)
T PTZ00401 65 FIPVAVLSK-----PELVDKTVLIRARVSTTRKKG--KMAFMVLRDGSDS--VQAMAAVEGDVPKEMIDFIGQIPTESIV 135 (550)
T ss_pred eEEHHHCCc-----cccCCCEEEEEEEEEEEecCC--CeEEEEEEeCCcC--EEEEEECCCccCHHHHHHHhcCCCCCEE
Confidence 377777752 223799999999999999999 8999999999986 999996432 1356779999999
Q ss_pred EEEEEeeCCCC----CCccceEEEEeEEEEeecCCCCCCCCCCCC-----------CChhhhhhccceecCCHHHHHHHH
Q 017368 103 YVEGMLKNPPE----GTKQKIELRVQKVVDVGMVDPAKYPIPKTK-----------LTLEFLRDRIPFRPRTNTIAAVAR 167 (373)
Q Consensus 103 ~V~G~v~~~~~----~~~g~vEL~v~~i~VLs~a~~~~~Pi~~k~-----------~s~E~lr~~r~LrlRt~~~~~il~ 167 (373)
.|+|+|++++. ..+|++||++++|+|+|+|. .++|++.++ .+.++++++||||+|++.++++|+
T Consensus 136 ~V~G~v~~~~~~~~~~~~~~~El~v~~i~vls~a~-~~lP~~~~d~~~~~~~~~~~~~~dtrl~~R~LdlR~~~~~~i~r 214 (550)
T PTZ00401 136 DVEATVCKVEQPITSTSHSDIELKVKKIHTVTESL-RTLPFTLEDASRKESDEGAKVNFDTRLNSRWMDLRTPASGAIFR 214 (550)
T ss_pred EEEEEEEecCccCCCCCCccEEEEeeEEEEEeCCC-CCCCCCcccccccccccccccChhhhhhhhhhhhcCHHHHHHHH
Confidence 99999998532 14688999999999999997 578876543 257888899999999999999999
Q ss_pred HHHHHHHHHHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHH
Q 017368 168 IRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVA 247 (373)
Q Consensus 168 iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 247 (373)
+||.|++++|+||.++||+||+||+|+++++|||+++|.|
T Consensus 215 ~rs~i~~~~R~fl~~~gFiEV~TP~L~~~~~egga~~F~v---------------------------------------- 254 (550)
T PTZ00401 215 LQSRVCQYFRQFLIDSDFCEIHSPKIINAPSEGGANVFKL---------------------------------------- 254 (550)
T ss_pred HHHHHHHHHHHHHHHCCCEEEeCCccccCCCCcccccccc----------------------------------------
Confidence 9999999999999999999999999999999999998865
Q ss_pred hhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHHHh-hcCceEE
Q 017368 248 KLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYAC-AVSNVYT 326 (373)
Q Consensus 248 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~~-~~~~vy~ 326 (373)
+||++++||++|||||+|++++ |++|||+
T Consensus 255 --------------------------------------------------~yf~~~~~L~qSpql~kq~li~~g~~rVfe 284 (550)
T PTZ00401 255 --------------------------------------------------EYFNRFAYLAQSPQLYKQMVLQGDVPRVFE 284 (550)
T ss_pred --------------------------------------------------ccCCCCeecCCCHHHHHHHHHhcCCCCEEE
Confidence 4899999999999999999875 6999999
Q ss_pred EecceecCCCCCCCCcCccccceeeecCC-CHHHHHHHHHHHHH
Q 017368 327 FGPTFRAEHSHTSRHLAEFWMVEPEMAFS-DLKVRWTYTAHCLV 369 (373)
Q Consensus 327 ~~p~fRaE~~~t~rhl~EF~~le~e~~~~-~~~~~~~~~~~~~~ 369 (373)
||||||||+++|+|||+||||||+||+|. +++++|+++..|+.
T Consensus 285 I~p~FRaE~s~T~RHl~EFt~Le~E~~~~~~y~evm~~~e~l~~ 328 (550)
T PTZ00401 285 VGPVFRSENSNTHRHLTEFVGLDVEMRINEHYYEVLDLAESLFN 328 (550)
T ss_pred EeCeEeCCCCCCCCCccchhhhhhhhHhcCCHHHHHHHHHHHHH
Confidence 99999999999999999999999999996 69999995554444
No 13
>COG0173 AspS Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.4e-55 Score=447.59 Aligned_cols=243 Identities=24% Similarity=0.396 Sum_probs=217.4
Q ss_pred hhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCc-hh---hhccCCCCCcEEEEEEEe
Q 017368 33 KSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKD-VA---DLGQLVPTGTCVYVEGML 108 (373)
Q Consensus 33 kdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~-~~---~~~~~L~~esvV~V~G~v 108 (373)
++++ |+++...++|++|+|+|||++.|++| +++||||||.+|+ +|||++.+ .. ..++.|+.|++|.|+|+|
T Consensus 2 Rt~~-cg~l~~~~vG~~V~L~GWV~r~Rd~G--gliFiDLRDr~Gi--vQvv~~~~~~~~~~~~a~~lr~E~vi~V~G~V 76 (585)
T COG0173 2 RTHY-CGELRESHVGQTVTLSGWVHRRRDHG--GLIFIDLRDREGI--VQVVFDPEDSPEAFEVASRLRNEFVIQVTGTV 76 (585)
T ss_pred Ccee-ccccCHHHCCCEEEEEeeeeeccccC--CeEEEEcccCCCe--EEEEECCccCHHHHHHHHhcCceEEEEEEEEE
Confidence 4555 88899999999999999999999999 8999999999998 99999984 22 346789999999999999
Q ss_pred eCCCCC------CccceEEEEeEEEEeecCCCCCCCCCCC-CCChhhhhhccceecCCHHHHHHHHHHHHHHHHHHHHHH
Q 017368 109 KNPPEG------TKQKIELRVQKVVDVGMVDPAKYPIPKT-KLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQ 181 (373)
Q Consensus 109 ~~~~~~------~~g~vEL~v~~i~VLs~a~~~~~Pi~~k-~~s~E~lr~~r~LrlRt~~~~~il~iRS~i~~~iR~fL~ 181 (373)
..++++ .+|++||++++|+|+|.|.+.||++.+. +.+.|.++.|||||||++.++.++++||+++.++|+||+
T Consensus 77 ~~R~e~~~N~~l~TGeiEv~a~~i~vln~s~~lPf~i~d~~~~~Ee~RLkYRyLDLRR~~m~~~l~lR~kv~~~iR~~ld 156 (585)
T COG0173 77 RARPEGTINPNLPTGEIEVLAEEIEVLNASKTLPFQIEDETNASEEIRLKYRYLDLRRPEMQKNLKLRSKVTKAIRNFLD 156 (585)
T ss_pred EecCccccCCCCCcceEEEEeeeEEEEecCCCCCcCCCCCCCcchhhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHHHHh
Confidence 999864 5799999999999999998777777665 456677888999999999999999999999999999999
Q ss_pred hCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhhhcccchhhhhhh
Q 017368 182 KQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISA 261 (373)
Q Consensus 182 ~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 261 (373)
++||+||+||+|++++||||++ |.||++.+++
T Consensus 157 ~~gF~EiETPiLtkSTPEGARD-fLVPSRv~~G----------------------------------------------- 188 (585)
T COG0173 157 DQGFLEIETPILTKSTPEGARD-FLVPSRVHPG----------------------------------------------- 188 (585)
T ss_pred hcCCeEeecCccccCCCccccc-cccccccCCC-----------------------------------------------
Confidence 9999999999999999999999 9999875532
Q ss_pred hHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHH-HHhhcCceEEEecceecCCCCCCC
Q 017368 262 SVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVET-YACAVSNVYTFGPTFRAEHSHTSR 340 (373)
Q Consensus 262 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~-~~~~~~~vy~~~p~fRaE~~~t~r 340 (373)
.||. |.||||||+|. |+.||+|+|+|.+|||.|++..+|
T Consensus 189 ------------------------------------~FYA----LPQSPQlfKQLLMvsGfdRYyQIarCFRDEDlRaDR 228 (585)
T COG0173 189 ------------------------------------KFYA----LPQSPQLFKQLLMVAGFDRYYQIARCFRDEDLRADR 228 (585)
T ss_pred ------------------------------------ceee----cCCCHHHHHHHHHHhcccceeeeeeeeccccccccc
Confidence 3666 99999999998 578999999999999999999999
Q ss_pred CcCccccceeeecCCCHHHHHHHHHHHHH
Q 017368 341 HLAEFWMVEPEMAFSDLKVRWTYTAHCLV 369 (373)
Q Consensus 341 hl~EF~~le~e~~~~~~~~~~~~~~~~~~ 369 (373)
. +||||||+||+|++-+|+|+.+..|+.
T Consensus 229 Q-PEFTQiD~EmSF~~~edv~~~~E~l~~ 256 (585)
T COG0173 229 Q-PEFTQIDLEMSFVDEEDVMELIEKLLR 256 (585)
T ss_pred C-CcceeEeEEeecCCHHHHHHHHHHHHH
Confidence 9 699999999999999999994444443
No 14
>PLN02903 aminoacyl-tRNA ligase
Probab=100.00 E-value=3.6e-54 Score=453.83 Aligned_cols=243 Identities=23% Similarity=0.327 Sum_probs=206.8
Q ss_pred hhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch----hhhccCCCCCcEEEEEEEe
Q 017368 33 KSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV----ADLGQLVPTGTCVYVEGML 108 (373)
Q Consensus 33 kdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~----~~~~~~L~~esvV~V~G~v 108 (373)
++++ |++++..++|++|+|+|||+++|++| +++|++|||++|. +|||++++. .+..+.|+.||+|.|+|+|
T Consensus 59 rt~~-cg~l~~~~~gk~V~l~GWV~~~R~~G--~l~FidLRD~~G~--iQvV~~~~~~~~~~~~~~~L~~esvV~V~G~V 133 (652)
T PLN02903 59 RSHL-CGALSVNDVGSRVTLCGWVDLHRDMG--GLTFLDVRDHTGI--VQVVTLPDEFPEAHRTANRLRNEYVVAVEGTV 133 (652)
T ss_pred CCCc-hhhcchhhCCCEEEEEEEEEEEecCC--CcEEEEEEcCCcc--EEEEEeCCccHHHHHHHhcCCCCCEEEEEEEE
Confidence 5555 88888899999999999999999999 8999999999997 999998642 1235679999999999999
Q ss_pred eCCCCC------CccceEEEEeEEEEeecCC-CCCCCCCC-----CCCChhhhhhccceecCCHHHHHHHHHHHHHHHHH
Q 017368 109 KNPPEG------TKQKIELRVQKVVDVGMVD-PAKYPIPK-----TKLTLEFLRDRIPFRPRTNTIAAVARIRNALAYAT 176 (373)
Q Consensus 109 ~~~~~~------~~g~vEL~v~~i~VLs~a~-~~~~Pi~~-----k~~s~E~lr~~r~LrlRt~~~~~il~iRS~i~~~i 176 (373)
..++.+ .+|++||.+++|+|||+|. +.|+++.. ...+.++++++||||+|++.++++|++||.|++++
T Consensus 134 ~~r~~~~~n~~~~tGeiEl~~~~i~VL~~a~~~lPf~i~~~~~~~~~~~ee~Rl~~RyLDLR~~~~q~~lr~Rs~i~~~i 213 (652)
T PLN02903 134 RSRPQESPNKKMKTGSVEVVAESVDILNVVTKSLPFLVTTADEQKDSIKEEVRLRYRVLDLRRPQMNANLRLRHRVVKLI 213 (652)
T ss_pred EeCCCcCcCCCCCCCCEEEEEeEEEEEecCCCCCCccccccccccccCChhhhhccceeecCCHHHHHHHHHHHHHHHHH
Confidence 987421 3588999999999999984 23444543 12577899999999999999999999999999999
Q ss_pred HHHHHh-CCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhhhcccch
Q 017368 177 HTFLQK-QGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAG 255 (373)
Q Consensus 177 R~fL~~-~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 255 (373)
|+||.+ +||+||+||+|+++++|||++ |.++...
T Consensus 214 R~fl~~~~gFiEVeTPiL~~st~eGard-f~v~~~~-------------------------------------------- 248 (652)
T PLN02903 214 RRYLEDVHGFVEIETPILSRSTPEGARD-YLVPSRV-------------------------------------------- 248 (652)
T ss_pred HHHHHhcCCeEEEECCeeccCCCCCCcc-cEEeeec--------------------------------------------
Confidence 999997 999999999999999999998 5554210
Q ss_pred hhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHH-HhhcCceEEEecceecC
Q 017368 256 REAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNVYTFGPTFRAE 334 (373)
Q Consensus 256 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~vy~~~p~fRaE 334 (373)
..+..+||+||||||+|++ ++|++|||+|+||||+|
T Consensus 249 -------------------------------------------~~g~~y~L~qSPQlykQ~Lm~~G~~RvFqIa~~FR~E 285 (652)
T PLN02903 249 -------------------------------------------QPGTFYALPQSPQLFKQMLMVSGFDRYYQIARCFRDE 285 (652)
T ss_pred -------------------------------------------CCCcccccCCCHHHHHHHHHhccCCcEEEEehhhccC
Confidence 0123347999999999975 67899999999999999
Q ss_pred CCCCCCCcCccccceeeecCCCHHHHHHHHHHHHH
Q 017368 335 HSHTSRHLAEFWMVEPEMAFSDLKVRWTYTAHCLV 369 (373)
Q Consensus 335 ~~~t~rhl~EF~~le~e~~~~~~~~~~~~~~~~~~ 369 (373)
++++.|| +||||||+||+|++++|+|+++..|++
T Consensus 286 ~~~t~Rh-pEFTqLE~E~sf~d~~dvm~~~E~li~ 319 (652)
T PLN02903 286 DLRADRQ-PEFTQLDMELAFTPLEDMLKLNEDLIR 319 (652)
T ss_pred CCCCCcc-cceeeeeeeecCCCHHHHHHHHHHHHH
Confidence 9999999 899999999999999999995555554
No 15
>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=4e-54 Score=450.73 Aligned_cols=236 Identities=25% Similarity=0.355 Sum_probs=200.8
Q ss_pred CCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh--hhccCCCCCcEEEEEEEeeCCCCC-
Q 017368 38 RPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA--DLGQLVPTGTCVYVEGMLKNPPEG- 114 (373)
Q Consensus 38 ~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~--~~~~~L~~esvV~V~G~v~~~~~~- 114 (373)
|++++..++|++|+|+|||+++|.+| +++|++|||++|. +|||++++.. ...+.|+.||+|.|+|+|.+++.+
T Consensus 6 ~~~l~~~~~g~~V~l~GwV~~~R~~G--kl~Fi~LrD~sg~--iQvv~~~~~~~~~~~~~L~~esvV~V~G~v~~r~~~~ 81 (583)
T TIGR00459 6 CGQLRTEHLGQTVTLAGWVNRRRDLG--GLIFIDLRDRSGI--VQVVCDPDADALKLAKGLRNEDVVQVKGKVSARPEGN 81 (583)
T ss_pred HhhcchhhCCCEEEEEEEEEEEEcCC--CcEEEEEEeCCcc--EEEEEeCCHHHHHHHhcCCCCCEEEEEEEEEeCCccc
Confidence 44445578899999999999999999 8999999999996 9999986532 235679999999999999986521
Q ss_pred -----CccceEEEEeEEEEeecCCCCCCCCCCC--CCChhhhhhccceecCCHHHHHHHHHHHHHHHHHHHHHHhCCcEE
Q 017368 115 -----TKQKIELRVQKVVDVGMVDPAKYPIPKT--KLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLY 187 (373)
Q Consensus 115 -----~~g~vEL~v~~i~VLs~a~~~~~Pi~~k--~~s~E~lr~~r~LrlRt~~~~~il~iRS~i~~~iR~fL~~~gFiE 187 (373)
.+|++||.++++++||++. ++|++.. ..+.+.++++||||+|++.++++|++||.|++++|+||.++||+|
T Consensus 82 ~n~~~~tg~iEl~~~~i~iL~~a~--~~P~~~~~~~~~~~~Rl~~RyLDLR~~~~~~~lr~Rs~i~~~iR~ff~~~gFiE 159 (583)
T TIGR00459 82 INRNLDTGEIEILAESITLLNKSK--TPPLIIEKTDAEEEVRLKYRYLDLRRPEMQQRLKLRHKVTKAVRNFLDQQGFLE 159 (583)
T ss_pred cCccCCCCcEEEEEeEEEEeecCC--CCCCcccccccchhhhcccceEEcCCHHHHHHHHHHHHHHHHHHHHHHHCCCEE
Confidence 4789999999999999985 4565542 234566668999999999999999999999999999999999999
Q ss_pred EecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhhhcccchhhhhhhhHHHHH
Q 017368 188 IHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASVTELT 267 (373)
Q Consensus 188 V~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 267 (373)
|+||+|++++||||++ |.++++
T Consensus 160 VeTP~L~~s~~eGar~-f~vp~~--------------------------------------------------------- 181 (583)
T TIGR00459 160 IETPMLTKSTPEGARD-YLVPSR--------------------------------------------------------- 181 (583)
T ss_pred EECCeeccCCCCCCcc-eeeeee---------------------------------------------------------
Confidence 9999999999999988 877521
Q ss_pred HHHHHHHHHHhhhccCCCCCCCCCCccccccccCccc-eeeccHHHHHHHH-HhhcCceEEEecceecCCCCCCCCcCcc
Q 017368 268 KAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQA-FLTVSGQLQVETY-ACAVSNVYTFGPTFRAEHSHTSRHLAEF 345 (373)
Q Consensus 268 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~-~L~~S~ql~~e~~-~~~~~~vy~~~p~fRaE~~~t~rhl~EF 345 (373)
+++... ||+||||||+|++ ++|++|||+|+||||||+++|+|| +||
T Consensus 182 -------------------------------~~~~~~y~L~qSpQlykq~l~v~G~ervfqI~~~FR~E~~~t~r~-pEF 229 (583)
T TIGR00459 182 -------------------------------VHKGEFYALPQSPQLFKQLLMVSGVDRYYQIARCFRDEDLRADRQ-PEF 229 (583)
T ss_pred -------------------------------cCCCceeecCCCHHHHHHHHHhcccCcEEEEcceeeCCCCCCCCC-ccc
Confidence 112223 4999999999975 678999999999999999999999 899
Q ss_pred ccceeeecCCCHHHHHHHHHHHHH
Q 017368 346 WMVEPEMAFSDLKVRWTYTAHCLV 369 (373)
Q Consensus 346 ~~le~e~~~~~~~~~~~~~~~~~~ 369 (373)
||||+||+|+|++|+|+++..|++
T Consensus 230 T~le~E~af~d~~dvm~~~E~li~ 253 (583)
T TIGR00459 230 TQIDMEMSFMTQEDVMELIEKLVS 253 (583)
T ss_pred CcceeeecCCCHHHHHHHHHHHHH
Confidence 999999999999999995554444
No 16
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=100.00 E-value=4.7e-54 Score=456.61 Aligned_cols=243 Identities=21% Similarity=0.319 Sum_probs=209.0
Q ss_pred hhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch-----hhhccCCCCCcEEEEEEE
Q 017368 33 KSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV-----ADLGQLVPTGTCVYVEGM 107 (373)
Q Consensus 33 kdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~-----~~~~~~L~~esvV~V~G~ 107 (373)
++++ |++++..+.|++|+|+|||+++|++| +++|++|||++|. +|||++++. .+....|+.||+|.|+|+
T Consensus 5 r~~~-cg~l~~~~~g~~V~l~GWV~~~R~~G--~l~FidLRD~~G~--iQvV~~~~~~~~~~~~~~~~L~~EsvV~V~G~ 79 (706)
T PRK12820 5 DRSF-CGHLSLDDTGREVCLAGWVDAFRDHG--ELLFIHLRDRNGF--IQAVFSPEAAPADVYELAASLRAEFCVALQGE 79 (706)
T ss_pred cccc-cccCChhhCCCEEEEEEEEEEEEcCC--CcEEEEEEeCCcc--EEEEEeCCcCCHHHHHHHhcCCCCCEEEEEeE
Confidence 4566 89999999999999999999999999 8999999999997 999997642 124567999999999999
Q ss_pred eeCCCCC------CccceEEEEeEEEEeecCCCCCCCCCCCC------------CChhhhhhccceecCCHHHHHHHHHH
Q 017368 108 LKNPPEG------TKQKIELRVQKVVDVGMVDPAKYPIPKTK------------LTLEFLRDRIPFRPRTNTIAAVARIR 169 (373)
Q Consensus 108 v~~~~~~------~~g~vEL~v~~i~VLs~a~~~~~Pi~~k~------------~s~E~lr~~r~LrlRt~~~~~il~iR 169 (373)
|.+++.+ .+|++||.+++++||++|.+.|||+.++. .+.+.+.++||||+|++.++++|++|
T Consensus 80 v~~r~~~~~n~~~~tg~iEl~~~~i~iL~~a~~lP~~i~~~~~~~~~~~~~~~~~~e~~Rl~~RyLDLR~~~~~~~lr~R 159 (706)
T PRK12820 80 VQKRLEETENPHIETGDIEVFVRELSILAASEALPFAISDKAMTAGAGSAGADAVNEDLRLQYRYLDIRRPAMQDHLAKR 159 (706)
T ss_pred EeccCccccCCCCCCCcEEEEeeEEEEEecCCCCCCCCcccccccccccccccccCHhhhhhCceeecCCHHHHHHHHHH
Confidence 9996532 34899999999999999975667765542 24566778999999999999999999
Q ss_pred HHHHHHHHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhh
Q 017368 170 NALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKL 249 (373)
Q Consensus 170 S~i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 249 (373)
|.+++++|+||.++||+||+||+|+++++|||++ |.++..
T Consensus 160 s~i~~~iR~fl~~~gFiEVeTPiL~~s~~eGAr~-~~~p~~--------------------------------------- 199 (706)
T PRK12820 160 HRIIKCARDFLDSRGFLEIETPILTKSTPEGARD-YLVPSR--------------------------------------- 199 (706)
T ss_pred HHHHHHHHHHHHHCCCEEEeCCccccCCCCCCcc-eEEeee---------------------------------------
Confidence 9999999999999999999999999999999988 655421
Q ss_pred hcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccc-eeeccHHHHHHHH-HhhcCceEEE
Q 017368 250 KSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQA-FLTVSGQLQVETY-ACAVSNVYTF 327 (373)
Q Consensus 250 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~-~L~~S~ql~~e~~-~~~~~~vy~~ 327 (373)
++..+. +|+||||||+|++ ++|++|||+|
T Consensus 200 -------------------------------------------------~~~~~~y~L~qSPQlykq~lm~~G~~rvfqI 230 (706)
T PRK12820 200 -------------------------------------------------IHPKEFYALPQSPQLFKQLLMIAGFERYFQL 230 (706)
T ss_pred -------------------------------------------------cCCCcceecCCCHHHHHHHHHhccCCcEEEE
Confidence 222233 4999999999985 6789999999
Q ss_pred ecceecCCCCCCCCcCccccceeeecCCCHHHHHHHHHHHHHh
Q 017368 328 GPTFRAEHSHTSRHLAEFWMVEPEMAFSDLKVRWTYTAHCLVF 370 (373)
Q Consensus 328 ~p~fRaE~~~t~rhl~EF~~le~e~~~~~~~~~~~~~~~~~~~ 370 (373)
+||||+|+++|.|| +||||||+||+|++++++|+++..|+.+
T Consensus 231 ~~~FR~E~~~t~r~-pEFT~LE~E~af~d~~dvm~l~E~li~~ 272 (706)
T PRK12820 231 ARCFRDEDLRPNRQ-PEFTQLDIEASFIDEEFIFELIEELTAR 272 (706)
T ss_pred echhcCCCCCCCcC-ccccccceeeccCCHHHHHHHHHHHHHH
Confidence 99999999999998 8999999999999999999966666653
No 17
>PRK00476 aspS aspartyl-tRNA synthetase; Validated
Probab=100.00 E-value=4.9e-54 Score=451.76 Aligned_cols=243 Identities=23% Similarity=0.354 Sum_probs=205.4
Q ss_pred cceehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch--hhhccCCCCCcEEEEE
Q 017368 28 DRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV--ADLGQLVPTGTCVYVE 105 (373)
Q Consensus 28 ~r~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~--~~~~~~L~~esvV~V~ 105 (373)
+++++.++ ...++|++|+|+|||+++|.+| +++|++|||++|. +|||+++.. .+..+.|+.||+|.|+
T Consensus 4 r~~~~~~l------~~~~~g~~V~l~GwV~~~R~~g--~l~Fi~LrD~~g~--iQ~v~~~~~~~~~~~~~l~~es~V~V~ 73 (588)
T PRK00476 4 RTHYCGEL------RESHVGQTVTLCGWVHRRRDHG--GLIFIDLRDREGI--VQVVFDPDAEAFEVAESLRSEYVIQVT 73 (588)
T ss_pred cceeHHHh------hHHhCCCEEEEEEEEEEEEeCC--CeEEEEEEeCCce--EEEEEeCCHHHHHHHhCCCCCCEEEEE
Confidence 44555555 3477899999999999999999 8999999999997 999998621 2245679999999999
Q ss_pred EEeeCCCCC------CccceEEEEeEEEEeecCCCCCCCCCCC-CCChhhhhhccceecCCHHHHHHHHHHHHHHHHHHH
Q 017368 106 GMLKNPPEG------TKQKIELRVQKVVDVGMVDPAKYPIPKT-KLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHT 178 (373)
Q Consensus 106 G~v~~~~~~------~~g~vEL~v~~i~VLs~a~~~~~Pi~~k-~~s~E~lr~~r~LrlRt~~~~~il~iRS~i~~~iR~ 178 (373)
|+|.+++.+ .+|++||.+++|+|+|+|.+.|+++..+ ..+.+.++++||||+|++.++++|++||.+++++|+
T Consensus 74 G~v~~~~~~~~n~~~~~g~~El~~~~i~il~~a~~lP~~~~~~~~~~~~~Rl~~R~LdlR~~~~~~~l~~Rs~i~~~iR~ 153 (588)
T PRK00476 74 GTVRARPEGTVNPNLPTGEIEVLASELEVLNKSKTLPFPIDDEEDVSEELRLKYRYLDLRRPEMQKNLKLRSKVTSAIRN 153 (588)
T ss_pred EEEEecCCcccCccCCCCcEEEEEeEEEEEecCCCCCCcccccccCChhhhhhcceEeecCHHHHHHHHHHHHHHHHHHH
Confidence 999987632 3689999999999999997444444332 245677778999999999999999999999999999
Q ss_pred HHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhhhcccchhhh
Q 017368 179 FLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREA 258 (373)
Q Consensus 179 fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 258 (373)
||.++||+||+||+|+++++||+++ |.|+++
T Consensus 154 ff~~~gFiEV~TP~L~~s~~ega~~-f~v~~~------------------------------------------------ 184 (588)
T PRK00476 154 FLDDNGFLEIETPILTKSTPEGARD-YLVPSR------------------------------------------------ 184 (588)
T ss_pred HHHHCCCEEEECCeeecCCCCCCcc-ceeccc------------------------------------------------
Confidence 9999999999999999999999988 888521
Q ss_pred hhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHH-HhhcCceEEEecceecCCCC
Q 017368 259 ISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNVYTFGPTFRAEHSH 337 (373)
Q Consensus 259 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~vy~~~p~fRaE~~~ 337 (373)
-|++..+||+||||||+|++ ++|++|||+|+||||||+++
T Consensus 185 ---------------------------------------~~~~~~~~L~qSpql~kq~l~~~g~~rvfqi~~~FR~E~~~ 225 (588)
T PRK00476 185 ---------------------------------------VHPGKFYALPQSPQLFKQLLMVAGFDRYYQIARCFRDEDLR 225 (588)
T ss_pred ---------------------------------------ccCCceeecCCCHHHHHHHHHhcccCceEEEeceeecCCCC
Confidence 02334457999999999975 57899999999999999999
Q ss_pred CCCCcCccccceeeecCCCHHHHHHHHHHHHH
Q 017368 338 TSRHLAEFWMVEPEMAFSDLKVRWTYTAHCLV 369 (373)
Q Consensus 338 t~rhl~EF~~le~e~~~~~~~~~~~~~~~~~~ 369 (373)
|+||+ ||||||+||+|++++++|+++..|+.
T Consensus 226 ~~r~~-EFt~le~e~af~~~~dvm~~~E~li~ 256 (588)
T PRK00476 226 ADRQP-EFTQIDIEMSFVTQEDVMALMEGLIR 256 (588)
T ss_pred CCcCc-ccccceeeecCCCHHHHHHHHHHHHH
Confidence 99999 99999999999999999995554443
No 18
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=100.00 E-value=3.6e-53 Score=437.66 Aligned_cols=251 Identities=21% Similarity=0.254 Sum_probs=208.8
Q ss_pred ccccCcceehhhhhcCCCC-CC---CCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh-----hhc
Q 017368 23 RHQFSDRVLIKSILTRPDG-GA---GLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA-----DLG 93 (373)
Q Consensus 23 ~~~~~~r~~Ikdi~~~~~l-~~---~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~-----~~~ 93 (373)
+..|.+++++.++...... .. ...+++|+|+|||+++|.+| |++|++|||++|. ||||++++.. +..
T Consensus 26 p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~G~v~~~R~~g--~~~Fi~lrD~~g~--iQ~v~~~~~~~~~~~~~~ 101 (491)
T PRK00484 26 PNKFERTHTAAELRAKYDDKEKEELEELEIEVSVAGRVMLKRVMG--KASFATLQDGSGR--IQLYVSKDDVGEEALEAF 101 (491)
T ss_pred CCCCcCccCHHHHHHHhccccchhhcccCcEEEEEEEEEEEecCC--ceEEEEEEcCCcc--EEEEEECCcCCHHHHHHH
Confidence 3568888999998653221 11 12247899999999999999 8999999999986 9999986531 233
Q ss_pred cCCCCCcEEEEEEEeeCCCCCCccceEEEEeEEEEeecCCCCCCCCCCCC-CChhhhhhccceecC-CHHHHHHHHHHHH
Q 017368 94 QLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTK-LTLEFLRDRIPFRPR-TNTIAAVARIRNA 171 (373)
Q Consensus 94 ~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~i~VLs~a~~~~~Pi~~k~-~s~E~lr~~r~LrlR-t~~~~~il~iRS~ 171 (373)
+.|+.||+|.|+|+|.+++ +|++||+++++++||+|. .++|..... .+.+.+.++||||+| ++.++++|++||.
T Consensus 102 ~~l~~g~~v~v~G~v~~t~---~ge~el~~~~~~vls~~~-~plP~~~~~~~~~~~r~r~R~lDl~~~~~~~~~~r~Rs~ 177 (491)
T PRK00484 102 KKLDLGDIIGVEGTLFKTK---TGELSVKATELTLLTKSL-RPLPDKFHGLTDVETRYRQRYVDLIVNPESRETFRKRSK 177 (491)
T ss_pred hcCCCCCEEEEEEEEEEcC---CCcEEEEEeEEEEEeccC-CCCCcccccccchhhhccceeeehhcCHHHHHHHHHHHH
Confidence 4599999999999999986 689999999999999996 556653222 356788889999996 8999999999999
Q ss_pred HHHHHHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhhhc
Q 017368 172 LAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKS 251 (373)
Q Consensus 172 i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (373)
|++++|+||.++||+||+||+|++..+++++++|.++
T Consensus 178 i~~~iR~f~~~~gF~EVeTPiL~~~~~Ga~a~pF~t~------------------------------------------- 214 (491)
T PRK00484 178 IISAIRRFLDNRGFLEVETPMLQPIAGGAAARPFITH------------------------------------------- 214 (491)
T ss_pred HHHHHHHHHHHCCCEEEECCceeccCCCccceeeeec-------------------------------------------
Confidence 9999999999999999999999866433334778652
Q ss_pred ccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHH-HhhcCceEEEecc
Q 017368 252 DKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNVYTFGPT 330 (373)
Q Consensus 252 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~vy~~~p~ 330 (373)
.+||+.++||++|||||+|++ ++|++|||+||||
T Consensus 215 ---------------------------------------------~~~~~~~~yL~~Spql~lk~l~v~g~~rVfei~~~ 249 (491)
T PRK00484 215 ---------------------------------------------HNALDIDLYLRIAPELYLKRLIVGGFERVYEIGRN 249 (491)
T ss_pred ---------------------------------------------cccCCCceEeccCHHHHHHHHHhccCCcEEEEecc
Confidence 257899999999999999986 5789999999999
Q ss_pred eecCCCCCCCCcCccccceeeecCCCHHHHHHHHHHHHHh
Q 017368 331 FRAEHSHTSRHLAEFWMVEPEMAFSDLKVRWTYTAHCLVF 370 (373)
Q Consensus 331 fRaE~~~t~rhl~EF~~le~e~~~~~~~~~~~~~~~~~~~ 370 (373)
||||++++ ||++||||||+||+|+|++|+|+++..|+++
T Consensus 250 FR~E~~~~-rH~pEFt~lE~e~a~~d~~d~m~~~E~li~~ 288 (491)
T PRK00484 250 FRNEGIDT-RHNPEFTMLEFYQAYADYNDMMDLTEELIRH 288 (491)
T ss_pred eecCCCCC-CcCCceEEEEEEEecCCHHHHHHHHHHHHHH
Confidence 99999996 9999999999999999999999955555443
No 19
>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=7.1e-53 Score=435.86 Aligned_cols=249 Identities=18% Similarity=0.238 Sum_probs=207.8
Q ss_pred cccCcceehhhhhcCCC-CCC---CCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh-----hhcc
Q 017368 24 HQFSDRVLIKSILTRPD-GGA---GLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA-----DLGQ 94 (373)
Q Consensus 24 ~~~~~r~~Ikdi~~~~~-l~~---~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~-----~~~~ 94 (373)
..|.+.+++.++.+..+ +.. ...|++|+|+|||+++|.+| |++|++|||++|. ||+|++.+.. ++..
T Consensus 26 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~Grv~~~R~~g--k~~F~~l~D~~g~--iQ~~~~~~~~~~~~~~~~~ 101 (496)
T TIGR00499 26 NKFERTHSSQEFQEEYADLSNEELEDKNIEVSIAGRIMARRSMG--KATFITLQDESGQ--IQLYVNKDDLPEDFYEFDE 101 (496)
T ss_pred CCCCCCcCHHHHHHHhhccCccchhcCCCEEEEEEEEEEEecCC--CeEEEEEEcCCcc--EEEEEECCcCcHHHHHHHH
Confidence 56788899988865332 111 24488999999999999999 8999999999986 9999986531 2233
Q ss_pred -CCCCCcEEEEEEEeeCCCCCCccceEEEEeEEEEeecCCCCCCCCCCCC-CChhhhhhccceecC-CHHHHHHHHHHHH
Q 017368 95 -LVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTK-LTLEFLRDRIPFRPR-TNTIAAVARIRNA 171 (373)
Q Consensus 95 -~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~i~VLs~a~~~~~Pi~~k~-~s~E~lr~~r~LrlR-t~~~~~il~iRS~ 171 (373)
.|+.||+|.|+|++.+++ +|++||++++|++||+|. .|+|..... .+.|++.++||||+| ++..+++|++||.
T Consensus 102 ~~l~~gd~V~v~G~~~~t~---~gelel~~~~i~ilsk~~-~plP~k~~~~~d~e~r~r~R~Ldl~~n~~~~~~~r~Rs~ 177 (496)
T TIGR00499 102 YLLDLGDIIGVTGYPFKTK---TGELSVHVTELQILTKAL-RPLPDKFHGLTDQETRYRQRYLDLIVNPDSRQTFLVRSK 177 (496)
T ss_pred hcCCCCCEEEEEEEEEECC---CCcEEEEeeEEEEEecCC-CCCCccccccCChhhhhhhhhhhhhcCHHHHHHHHHHHH
Confidence 489999999999999886 689999999999999996 455543222 256888889999998 6899999999999
Q ss_pred HHHHHHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhhhc
Q 017368 172 LAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKS 251 (373)
Q Consensus 172 i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (373)
|++++|+||.++||+||+||+|++..+++++++|.+.
T Consensus 178 i~~~iR~fl~~~gF~EVeTP~L~~~~gga~a~pF~t~------------------------------------------- 214 (496)
T TIGR00499 178 IIKAIRRFLDDRGFIEVETPMLQVIPGGANARPFITH------------------------------------------- 214 (496)
T ss_pred HHHHHHHHHHHCcCEEEeCCeeecCCCCccceeEEee-------------------------------------------
Confidence 9999999999999999999999977543334678663
Q ss_pred ccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHH-HhhcCceEEEecc
Q 017368 252 DKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNVYTFGPT 330 (373)
Q Consensus 252 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~vy~~~p~ 330 (373)
.++|+.++||++|||||+|++ ++|++|||+||||
T Consensus 215 ---------------------------------------------~~~~~~~~yLriSpELylKrlivgG~~rVfeIg~~ 249 (496)
T TIGR00499 215 ---------------------------------------------HNALDMDLYLRIAPELYLKRLIVGGFEKVYEIGRN 249 (496)
T ss_pred ---------------------------------------------cccCCCceEEecCHHHHHHHHHhCCCCceEEEecc
Confidence 135789999999999999987 5789999999999
Q ss_pred eecCCCCCCCCcCccccceeeecCCCHHHHHHHHHHHHH
Q 017368 331 FRAEHSHTSRHLAEFWMVEPEMAFSDLKVRWTYTAHCLV 369 (373)
Q Consensus 331 fRaE~~~t~rhl~EF~~le~e~~~~~~~~~~~~~~~~~~ 369 (373)
||||++++ ||++||||||+||+|+|++|+|+++..|++
T Consensus 250 FRnE~~~~-rH~pEFTmlE~y~a~~d~~dlm~~~E~li~ 287 (496)
T TIGR00499 250 FRNEGVDT-THNPEFTMIEFYQAYADYEDLMDLTENLFK 287 (496)
T ss_pred eecCCCCC-cccchhheeehhhhcCCHHHHHHHHHHHHH
Confidence 99999985 999999999999999999999995555444
No 20
>PLN02502 lysyl-tRNA synthetase
Probab=100.00 E-value=9.8e-53 Score=438.59 Aligned_cols=250 Identities=20% Similarity=0.259 Sum_probs=209.5
Q ss_pred ccccCcceehhhhhcCCC---CCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh-----hh--
Q 017368 23 RHQFSDRVLIKSILTRPD---GGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA-----DL-- 92 (373)
Q Consensus 23 ~~~~~~r~~Ikdi~~~~~---l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~-----~~-- 92 (373)
++.|.+++++.++.+..+ .+....|++|+|+|||+++|.+| |++|++|||++|. ||||+..+.. .+
T Consensus 81 p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~G--k~~F~~LrD~~g~--iQv~~~~~~~~~~~~~~~~ 156 (553)
T PLN02502 81 PYKFDVTHTAPELQEKYGSLENGEELEDVSVSVAGRIMAKRAFG--KLAFYDLRDDGGK--IQLYADKKRLDLDEEEFEK 156 (553)
T ss_pred CCCCCCCccHHHHHHHhhccccccccCCCEEEEEEEEEEEecCC--CeEEEEEecCCcc--EEEEEECccccchhHHHHH
Confidence 356888999999965332 23456789999999999999999 8999999999986 9999976421 12
Q ss_pred -ccCCCCCcEEEEEEEeeCCCCCCccceEEEEeEEEEeecCCCCCCCCCCCC-CChhhhhhccceec-CCHHHHHHHHHH
Q 017368 93 -GQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTK-LTLEFLRDRIPFRP-RTNTIAAVARIR 169 (373)
Q Consensus 93 -~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~i~VLs~a~~~~~Pi~~k~-~s~E~lr~~r~Lrl-Rt~~~~~il~iR 169 (373)
...|++||+|.|+|.+.+++ +|++||.+++|+||++|. .++|..... .+.|.+.++||||+ |++..+++|++|
T Consensus 157 ~~~~l~~gdiV~V~G~~~~t~---~gelel~~~~i~vLs~~l-~plP~k~~~~~d~e~r~r~RyLdl~~n~~~~~i~r~R 232 (553)
T PLN02502 157 LHSLVDRGDIVGVTGTPGKTK---KGELSIFPTSFEVLTKCL-LMLPDKYHGLTDQETRYRQRYLDLIANPEVRDIFRTR 232 (553)
T ss_pred HHhCCCCCcEEEEEEEEEecC---CCCEEEEEeEEEEEeccC-CCCCcccccccchhhhccchhhhhhcCHHHHHHHHHH
Confidence 24589999999999999987 689999999999999997 455543222 35688889999999 599999999999
Q ss_pred HHHHHHHHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhh
Q 017368 170 NALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKL 249 (373)
Q Consensus 170 S~i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 249 (373)
|.|++++|+||.++||+||+||+|+++.+++++.+|.+.
T Consensus 233 s~i~~~iR~fl~~~gF~EVeTPiL~~~~gGA~a~pF~t~----------------------------------------- 271 (553)
T PLN02502 233 AKIISYIRRFLDDRGFLEVETPMLNMIAGGAAARPFVTH----------------------------------------- 271 (553)
T ss_pred HHHHHHHHHHHHHCCCEEEECCeeeccCCCccccceeee-----------------------------------------
Confidence 999999999999999999999999987533334567541
Q ss_pred hcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHH-HhhcCceEEEe
Q 017368 250 KSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNVYTFG 328 (373)
Q Consensus 250 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~vy~~~ 328 (373)
.+||+.++||++|||||+|++ ++|++|||+||
T Consensus 272 -----------------------------------------------~n~~~~~~yL~~Spel~lK~L~v~g~~rVfeIg 304 (553)
T PLN02502 272 -----------------------------------------------HNDLNMDLYLRIATELHLKRLVVGGFERVYEIG 304 (553)
T ss_pred -----------------------------------------------cccCCcceeeecCHHHHHHHHHHhccCCEEEEc
Confidence 147899999999999999975 67999999999
Q ss_pred cceecCCCCCCCCcCccccceeeecCCCHHHHHHHHHHHHH
Q 017368 329 PTFRAEHSHTSRHLAEFWMVEPEMAFSDLKVRWTYTAHCLV 369 (373)
Q Consensus 329 p~fRaE~~~t~rhl~EF~~le~e~~~~~~~~~~~~~~~~~~ 369 (373)
||||||++++ ||++||||||+||+|+|++|+|+++..|++
T Consensus 305 ~~FRnE~~~~-rH~pEFtmlE~y~a~~d~~dlm~~~E~li~ 344 (553)
T PLN02502 305 RQFRNEGIST-RHNPEFTTCEFYQAYADYNDMMELTEEMVS 344 (553)
T ss_pred CeeeCCCCCC-ccccceeehhhhhhcCCHHHHHHHHHHHHH
Confidence 9999999996 999999999999999999999995444443
No 21
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=100.00 E-value=3.7e-52 Score=431.11 Aligned_cols=249 Identities=18% Similarity=0.210 Sum_probs=207.7
Q ss_pred cccCcceehhhhhcCCC-CCC---CCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch---hhh---c
Q 017368 24 HQFSDRVLIKSILTRPD-GGA---GLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV---ADL---G 93 (373)
Q Consensus 24 ~~~~~r~~Ikdi~~~~~-l~~---~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~---~~~---~ 93 (373)
..|..++++.++.+..+ +.. ...|++|+|+|||+++|.+| |++|++|||++|. ||||+.++. ..+ .
T Consensus 38 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~Grv~~~R~~G--k~~F~~lrD~~g~--iQ~~~~~~~~~~~~~~~~~ 113 (505)
T PRK12445 38 NDFRRDHTSDQLHEEFDAKDNQELESLNIEVSVAGRMMTRRIMG--KASFVTLQDVGGR--IQLYVARDSLPEGVYNDQF 113 (505)
T ss_pred CCCcCccCHHHHHHHhhccCcchhhcCCCEEEEEEEEEEEecCC--CcEEEEEEeCCcc--EEEEEECCccchhhHHHHH
Confidence 55788899999865433 211 13478899999999999999 8999999999986 999998643 112 3
Q ss_pred cCCCCCcEEEEEEEeeCCCCCCccceEEEEeEEEEeecCCCCCCCCCCCC-CChhhhhhccceecC-CHHHHHHHHHHHH
Q 017368 94 QLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTK-LTLEFLRDRIPFRPR-TNTIAAVARIRNA 171 (373)
Q Consensus 94 ~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~i~VLs~a~~~~~Pi~~k~-~s~E~lr~~r~LrlR-t~~~~~il~iRS~ 171 (373)
..|..||+|.|+|.+.+++ +|++||+++++++||+|. .|+|..... .+.|.+.++||||+| ++..+++|++||.
T Consensus 114 ~~l~~Gd~V~v~G~~~~t~---~gelel~~~~~~llsk~~-~plP~~~~~~~d~e~r~r~Ryldl~~n~~~r~~~r~Rs~ 189 (505)
T PRK12445 114 KKWDLGDIIGARGTLFKTQ---TGELSIHCTELRLLTKAL-RPLPDKFHGLQDQEVRYRQRYLDLIANDKSRQTFVVRSK 189 (505)
T ss_pred hcCCCCCEEEEEEEEEecC---CCcEEEEEeEEEEEecCC-CCCCcccccccChhhhhhhhhhhhhcCHHHHHHHHHHHH
Confidence 5689999999999999986 689999999999999997 556653322 367888999999998 7899999999999
Q ss_pred HHHHHHHHHHhCCcEEEecCeeecCCCCCCC-cceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhhh
Q 017368 172 LAYATHTFLQKQGFLYIHTPIITTSDCEGAG-EMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLK 250 (373)
Q Consensus 172 i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~-e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 250 (373)
|++++|+||.++||+||+||+|++. ++|+. .+|.+.
T Consensus 190 i~~~iR~f~~~~gFiEVeTPiL~~~-~gGa~a~pF~t~------------------------------------------ 226 (505)
T PRK12445 190 ILAAIRQFMVARGFMEVETPMMQVI-PGGASARPFITH------------------------------------------ 226 (505)
T ss_pred HHHHHHHHHHHCCCEEeeCCeeEec-CCCCcccceecc------------------------------------------
Confidence 9999999999999999999999865 44542 356431
Q ss_pred cccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHH-HhhcCceEEEec
Q 017368 251 SDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNVYTFGP 329 (373)
Q Consensus 251 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~vy~~~p 329 (373)
.++|+.++||++|||||+|++ ++|++|||+|||
T Consensus 227 ----------------------------------------------~~~~~~~~yL~~SpELylKrlivgG~~rVfeIg~ 260 (505)
T PRK12445 227 ----------------------------------------------HNALDLDMYLRIAPELYLKRLVVGGFERVFEINR 260 (505)
T ss_pred ----------------------------------------------cccCCcceeeecCHHHHHHHHHhccCCcEEEEeh
Confidence 147889999999999999985 678999999999
Q ss_pred ceecCCCCCCCCcCccccceeeecCCCHHHHHHHHHHHHHh
Q 017368 330 TFRAEHSHTSRHLAEFWMVEPEMAFSDLKVRWTYTAHCLVF 370 (373)
Q Consensus 330 ~fRaE~~~t~rhl~EF~~le~e~~~~~~~~~~~~~~~~~~~ 370 (373)
|||||++ +.||++||||||+||+|+|++++|+++..|+++
T Consensus 261 ~FRnE~~-~~rH~pEFTmlE~y~a~~d~~d~m~l~E~li~~ 300 (505)
T PRK12445 261 NFRNEGI-SVRHNPEFTMMELYMAYADYHDLIELTESLFRT 300 (505)
T ss_pred hccCCCC-CCCcCcccceeeeeeecCCHHHHHHHHHHHHHH
Confidence 9999998 789999999999999999999999955555543
No 22
>KOG0556 consensus Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.7e-53 Score=417.51 Aligned_cols=242 Identities=29% Similarity=0.466 Sum_probs=214.8
Q ss_pred ceehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch--------hhhccCCCCCc
Q 017368 29 RVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV--------ADLGQLVPTGT 100 (373)
Q Consensus 29 r~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~--------~~~~~~L~~es 100 (373)
.+.++|+. .+..++.|.|+|||+..|..| |++|+.||++.. ++||++..+. .+|...|+.||
T Consensus 70 ~~~v~dl~------~~~~~~~V~vRgrVhtsr~~G--K~~FlvLRq~~~--tVQ~~~~~~~~~~isk~Mvkf~~~is~ES 139 (533)
T KOG0556|consen 70 LTDVSDLD------ESNDGSEVLVRGRVHTSRLKG--KLCFLVLRQQGS--TVQCLVAVNEDGTISKQMVKFAGSISKES 139 (533)
T ss_pred eeehhhhh------hhcCCceEEEEEEEeeccccc--eEEEEEEeccCc--eEEEEEEcCCCchHHHHHHHHHhhcCcce
Confidence 34566664 467789999999999999999 899999999976 5999996543 25788899999
Q ss_pred EEEEEEEeeCCCCC----CccceEEEEeEEEEeecCCCCCCCCCCCC--------------------CChhhhhhcccee
Q 017368 101 CVYVEGMLKNPPEG----TKQKIELRVQKVVDVGMVDPAKYPIPKTK--------------------LTLEFLRDRIPFR 156 (373)
Q Consensus 101 vV~V~G~v~~~~~~----~~g~vEL~v~~i~VLs~a~~~~~Pi~~k~--------------------~s~E~lr~~r~Lr 156 (373)
+|.|.|+|++..+. +++++||++.++.|||.+. +.+|++-++ ...++++++|.||
T Consensus 140 iV~v~g~v~k~~~~i~scT~qdvEi~v~~iyviS~a~-~~LPl~veDasrse~~eE~a~~~~~~~~~Vn~dtRLdnRvlD 218 (533)
T KOG0556|consen 140 IVDVRGVVVKVKEPIKSCTVQDVEIHVRKIYVISIAL-PNLPLQVEDASRSEPDEEKAAEPESTLARVNLDTRLDNRVLD 218 (533)
T ss_pred EEEEEEEEecCCCcccccccceeEEEEEEEEEEeccc-ccCCeeehhhcccccchhhhcCCccccceecccccccceeee
Confidence 99999999998753 5689999999999999998 678886432 2456788999999
Q ss_pred cCCHHHHHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHH
Q 017368 157 PRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAK 236 (373)
Q Consensus 157 lRt~~~~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 236 (373)
+|+|..++||++++.|+.++|+||..+||+||+||+|.++++|||+++|.|
T Consensus 219 LRtptnqAiFriq~gvc~~FRe~L~~kgF~EIhTpKli~asSEGGanvF~v----------------------------- 269 (533)
T KOG0556|consen 219 LRTPTNQAIFRIQAGVCFAFREYLRSKGFVEIHTPKLIGASSEGGANVFRV----------------------------- 269 (533)
T ss_pred cccccchheeehHHHHHHHHHHHHHhcCcceecccccccccCCCCceeEEE-----------------------------
Confidence 999999999999999999999999999999999999999999999999877
Q ss_pred HHHHhhhhHHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHH
Q 017368 237 LVIKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVET 316 (373)
Q Consensus 237 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~ 316 (373)
+||+.++||+||||||+||
T Consensus 270 -------------------------------------------------------------~Yfk~~A~LAQSPQLyKQM 288 (533)
T KOG0556|consen 270 -------------------------------------------------------------SYFKQKAYLAQSPQLYKQM 288 (533)
T ss_pred -------------------------------------------------------------EeccCcchhhcChHHHHHH
Confidence 5999999999999999999
Q ss_pred HHhh-cCceEEEecceecCCCCCCCCcCccccceeeecCCC-HHHHHHHHHHHHHhc
Q 017368 317 YACA-VSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSD-LKVRWTYTAHCLVFE 371 (373)
Q Consensus 317 ~~~~-~~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~~~-~~~~~~~~~~~~~~~ 371 (373)
++|| |+|||+|||+||||+|+|+|||+||.-||+||+|.. +.++|++|..++.++
T Consensus 289 aI~gdf~rVyeIGpVfRAEdSnthRhltEFvGLD~EMaf~~hYhEVm~~i~~lfv~I 345 (533)
T KOG0556|consen 289 AICGDFERVYEIGPVFRAEDSNTHRHLTEFVGLDLEMAFNEHYHEVMDTIGELFVFI 345 (533)
T ss_pred HHhcchhheeeecceeeccccchhhhhHHhhCcchhhHHHHHHHHHHHHHHHHHHHH
Confidence 8765 999999999999999999999999999999999975 999999777766543
No 23
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=100.00 E-value=1.8e-50 Score=425.90 Aligned_cols=251 Identities=18% Similarity=0.235 Sum_probs=210.3
Q ss_pred cccCcceehhhhhcCCC-C--CCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh----h---hc
Q 017368 24 HQFSDRVLIKSILTRPD-G--GAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA----D---LG 93 (373)
Q Consensus 24 ~~~~~r~~Ikdi~~~~~-l--~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~----~---~~ 93 (373)
..|..++++.++.+..+ + .....++.|+|+|||+++|.+| |++|++|||++|. ||||+.++.. . +.
T Consensus 81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~vaGrV~~~R~~G--k~~F~~LrD~~G~--IQvv~~~~~~~~~~~~~~~~ 156 (659)
T PTZ00385 81 SSFRGITPISEVRERYGYLASGDRAAQATVRVAGRVTSVRDIG--KIIFVTIRSNGNE--LQVVGQVGEHFTREDLKKLK 156 (659)
T ss_pred ccCcccccHHHHHHHhhccccccccCCCEEEEEEEEEeeeccC--CeEEEEEEECCce--EEEEEECCccCCHHHHHHHH
Confidence 56788899999866433 1 1122355799999999999999 8999999999986 9999986531 1 22
Q ss_pred cCCCCCcEEEEEEEeeCCCCCCccceEEEEeEEEEeecCCCCCCCC-C--CC---CCChhhhhhccceecC-CHHHHHHH
Q 017368 94 QLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPI-P--KT---KLTLEFLRDRIPFRPR-TNTIAAVA 166 (373)
Q Consensus 94 ~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~i~VLs~a~~~~~Pi-~--~k---~~s~E~lr~~r~LrlR-t~~~~~il 166 (373)
+.|+.||+|.|+|+|.+++ +|++||+++++++||++...++|+ + .+ ..+.|++.++||||+| ++..+++|
T Consensus 157 ~~l~~gdiV~V~G~v~~t~---~GeleI~~~~i~lLska~~~~~~~~p~~~k~~~~~d~e~R~r~RyLDL~~n~~~~~if 233 (659)
T PTZ00385 157 VSLRVGDIIGADGVPCRMQ---RGELSVAASRMLILSPYVCTDQVVCPNLRGFTVLQDNDVKYRYRFTDMMTNPCVIETI 233 (659)
T ss_pred hCCCCCCEEEEEEEEEecC---CceEEEEeeEEEEechhhhccccCCCCCccccccCChhhhcccceeeeecCHHHHHHH
Confidence 4689999999999999876 799999999999999953112221 1 12 2467999999999995 88899999
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHH
Q 017368 167 RIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAV 246 (373)
Q Consensus 167 ~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 246 (373)
++||.|++++|+||.++||+||+||+|++.++||++.+|.+.
T Consensus 234 r~Rs~I~~aiR~ff~~~gFlEVeTPiL~~~~~ga~a~pF~t~-------------------------------------- 275 (659)
T PTZ00385 234 KKRHVMLQALRDYFNERNFVEVETPVLHTVASGANAKSFVTH-------------------------------------- 275 (659)
T ss_pred HHHHHHHHHHHHHHHHCCCEEeeCCEeeccCCCCCccceEee--------------------------------------
Confidence 999999999999999999999999999998888888989763
Q ss_pred HhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHH-HhhcCceE
Q 017368 247 AKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNVY 325 (373)
Q Consensus 247 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~vy 325 (373)
.++|+.++||++|||||+|++ ++|++|||
T Consensus 276 --------------------------------------------------~n~~~~~~yL~~SPELylKrLivgG~erVy 305 (659)
T PTZ00385 276 --------------------------------------------------HNANAMDLFLRVAPELHLKQCIVGGMERIY 305 (659)
T ss_pred --------------------------------------------------cccCCCCEEecCChHHHHHHHhhcccCCEE
Confidence 135788999999999999976 57899999
Q ss_pred EEecceecCCCCCCCCcCccccceeeecCCCHHHHHHHHHHHHHh
Q 017368 326 TFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLKVRWTYTAHCLVF 370 (373)
Q Consensus 326 ~~~p~fRaE~~~t~rhl~EF~~le~e~~~~~~~~~~~~~~~~~~~ 370 (373)
+||||||||+++ .||++||||||+|++|+|++++|+++..|+.+
T Consensus 306 eIg~~FRnE~~~-~rH~pEFTmlE~y~a~~d~~d~m~l~E~li~~ 349 (659)
T PTZ00385 306 EIGKVFRNEDAD-RSHNPEFTSCEFYAAYHTYEDLMPMTEDIFRQ 349 (659)
T ss_pred EEeceecCCCCC-CCccccccceeeeeecCCHHHHHHHHHHHHHH
Confidence 999999999998 69999999999999999999999966665554
No 24
>PTZ00417 lysine-tRNA ligase; Provisional
Probab=100.00 E-value=3.3e-50 Score=421.41 Aligned_cols=248 Identities=16% Similarity=0.264 Sum_probs=204.9
Q ss_pred cccCcceehhhhhcCCC-C--CCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch-----hhh---
Q 017368 24 HQFSDRVLIKSILTRPD-G--GAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV-----ADL--- 92 (373)
Q Consensus 24 ~~~~~r~~Ikdi~~~~~-l--~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~-----~~~--- 92 (373)
..|.+.+++.++.+..+ + .+...++.|+|+|||+++|.+|+ |++|++|||.+|. ||||+.++. ..+
T Consensus 106 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~Grv~~~R~~G~-k~~F~~L~d~~g~--iQv~~~~~~~~~~~~~~~~~ 182 (585)
T PTZ00417 106 HKFERTITVPEFVEKYQDLASGEHLEDTILNVTGRIMRVSASGQ-KLRFFDLVGDGAK--IQVLANFAFHDHTKSNFAEC 182 (585)
T ss_pred CCCcCCcCHHHHHHHhhccCccccccCCeEEEEEEEEeeecCCC-CCEEEEEEeCCee--EEEEEECCccCCCHHHHHHH
Confidence 45788899999865433 1 11223567999999999999995 5999999999885 999998642 122
Q ss_pred ccCCCCCcEEEEEEEeeCCCCCCccceEEEEeEEEEeecCCCCCCCCCCCCCChhhhhhccceecC-CHHHHHHHHHHHH
Q 017368 93 GQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTKLTLEFLRDRIPFRPR-TNTIAAVARIRNA 171 (373)
Q Consensus 93 ~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~i~VLs~a~~~~~Pi~~k~~s~E~lr~~r~LrlR-t~~~~~il~iRS~ 171 (373)
.+.|+.||+|.|+|.+.+++ +|++||.+++|+++++|. .++|+.-...+.+.+.++||||+| ++..+++|++||.
T Consensus 183 ~~~l~~Gd~V~V~G~~~~t~---~gel~i~~~~i~llsk~l-~~lP~~~g~~d~e~r~r~RyLdL~~n~~~~~ifr~RS~ 258 (585)
T PTZ00417 183 YDKIRRGDIVGIVGFPGKSK---KGELSIFPKETIILSPCL-HMLPMKYGLKDTEIRYRQRYLDLMINESTRSTFITRTK 258 (585)
T ss_pred HhcCCCCCEEEEEeEEcCCC---CceEEEEEEEEEEEecCC-CCCCcccCCCCcccccccchhhhhcCHHHHHHHHHHHH
Confidence 35689999999999998876 689999999999999997 667865223356788889999998 8899999999999
Q ss_pred HHHHHHHHHHhCCcEEEecCeeecCCCCCCC-cceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhhh
Q 017368 172 LAYATHTFLQKQGFLYIHTPIITTSDCEGAG-EMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLK 250 (373)
Q Consensus 172 i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~-e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 250 (373)
|++++|+||.++||+||+||+|++.. +||. .+|.+.
T Consensus 259 Ii~aiR~Ff~~rGFlEVeTPiL~~~~-GGA~a~PF~T~------------------------------------------ 295 (585)
T PTZ00417 259 IINYLRNFLNDRGFIEVETPTMNLVA-GGANARPFITH------------------------------------------ 295 (585)
T ss_pred HHHHHHHHHHHCCeEEEeCCeeeccC-CcccceeEEec------------------------------------------
Confidence 99999999999999999999999884 4433 455431
Q ss_pred cccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHH-HhhcCceEEEec
Q 017368 251 SDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNVYTFGP 329 (373)
Q Consensus 251 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~vy~~~p 329 (373)
.++|+.++||++|||||+|++ ++|++|||+|||
T Consensus 296 ----------------------------------------------~n~~d~~lYLriSpEL~lKrLlvgG~~rVfeIgp 329 (585)
T PTZ00417 296 ----------------------------------------------HNDLDLDLYLRIATELPLKMLIVGGIDKVYEIGK 329 (585)
T ss_pred ----------------------------------------------ccCCCcceEEeecHHHHHHHHHHhCCCCEEEEcc
Confidence 125788899999999999987 578999999999
Q ss_pred ceecCCCCCCCCcCccccceeeecCCCHHHHHHHHHHHH
Q 017368 330 TFRAEHSHTSRHLAEFWMVEPEMAFSDLKVRWTYTAHCL 368 (373)
Q Consensus 330 ~fRaE~~~t~rhl~EF~~le~e~~~~~~~~~~~~~~~~~ 368 (373)
|||||++++ ||++||||||+|++|+|++|+|+++..|+
T Consensus 330 ~FRnE~~~~-rHnpEFTmlE~y~ay~dy~dlM~l~E~Li 367 (585)
T PTZ00417 330 VFRNEGIDN-THNPEFTSCEFYWAYADFYDLIKWSEDFF 367 (585)
T ss_pred cccCCCCCC-CccceeeeeeeeeecCCHHHHHHHHHHHH
Confidence 999999984 99999999999999999999998444444
No 25
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=100.00 E-value=7.5e-50 Score=443.38 Aligned_cols=244 Identities=22% Similarity=0.255 Sum_probs=210.7
Q ss_pred cccCcceehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh------hhccCCC
Q 017368 24 HQFSDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA------DLGQLVP 97 (373)
Q Consensus 24 ~~~~~r~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~------~~~~~L~ 97 (373)
..|.+++++.++.+ ...|++|+|+|||+++|.+| |++|++|||++|. ||||++++.. .+.+.|+
T Consensus 634 ~~~~~~~~~~~~~~------~~~~~~V~v~Grv~~~R~~G--~~~F~~lrD~~g~--iQ~v~~~~~~~~~~~~~~~~~l~ 703 (1094)
T PRK02983 634 VGVPPTHTVAEALD------APTGEEVSVSGRVLRIRDYG--GVLFADLRDWSGE--LQVLLDASRLEQGSLADFRAAVD 703 (1094)
T ss_pred CCCcCccCHHHHHH------hcCCCEEEEEEEEEEEeeCC--CeEEEEEEeCCee--EEEEEECCccchhhHHHHHhcCC
Confidence 45788889999874 36788999999999999999 8999999999986 9999987531 2345689
Q ss_pred CCcEEEEEEEeeCCCCCCccceEEEEeEEEEeecCCCCCCCCCCCC-CChhhhhhccceecC-CHHHHHHHHHHHHHHHH
Q 017368 98 TGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTK-LTLEFLRDRIPFRPR-TNTIAAVARIRNALAYA 175 (373)
Q Consensus 98 ~esvV~V~G~v~~~~~~~~g~vEL~v~~i~VLs~a~~~~~Pi~~k~-~s~E~lr~~r~LrlR-t~~~~~il~iRS~i~~~ 175 (373)
.||+|.|+|++.+++ +|++||++++|+++++|. .|+|..... .+.+.+.++||||+| ++..+++|++||.|+++
T Consensus 704 ~gd~V~v~G~v~~t~---~ge~ei~~~~i~ll~k~~-~plP~k~~~~~d~e~R~r~R~lDL~~n~~~~~~~r~Rs~i~~~ 779 (1094)
T PRK02983 704 LGDLVEVTGTMGTSR---NGTLSLLVTSWRLAGKCL-RPLPDKWKGLTDPEARVRQRYLDLAVNPEARDLLRARSAVVRA 779 (1094)
T ss_pred CCCEEEEEEEEEEcC---CCCEEEEEeEEEEEeccC-cCCCCccccCCChhhcchhhhhhhhcCHHHHHHHHHHHHHHHH
Confidence 999999999999986 689999999999999997 455543222 356888899999995 78999999999999999
Q ss_pred HHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhhhcccch
Q 017368 176 THTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAG 255 (373)
Q Consensus 176 iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 255 (373)
+|+||.++||+||+||+|+...+|+++++|.++
T Consensus 780 iR~fl~~~gFlEVeTPiL~~~~gGa~a~pF~t~----------------------------------------------- 812 (1094)
T PRK02983 780 VRETLVARGFLEVETPILQQVHGGANARPFVTH----------------------------------------------- 812 (1094)
T ss_pred HHHHHHHCCCEEEeCCEeeccCCCcccceeEee-----------------------------------------------
Confidence 999999999999999999987776667888763
Q ss_pred hhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHHH-hhcCceEEEecceecC
Q 017368 256 REAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYA-CAVSNVYTFGPTFRAE 334 (373)
Q Consensus 256 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~-~~~~~vy~~~p~fRaE 334 (373)
.++|++++||++|||||+|+++ +|++|||+||||||||
T Consensus 813 -----------------------------------------~~~~~~~~yLriSPELylKrLivgG~erVFEIg~~FRnE 851 (1094)
T PRK02983 813 -----------------------------------------INAYDMDLYLRIAPELYLKRLCVGGVERVFELGRNFRNE 851 (1094)
T ss_pred -----------------------------------------ecCCCccchhhcChHHHHHHHHhcccCceEEEcceecCC
Confidence 2578999999999999999865 6899999999999999
Q ss_pred CCCCCCCcCccccceeeecCCCHHHHHHHHHHHHHh
Q 017368 335 HSHTSRHLAEFWMVEPEMAFSDLKVRWTYTAHCLVF 370 (373)
Q Consensus 335 ~~~t~rhl~EF~~le~e~~~~~~~~~~~~~~~~~~~ 370 (373)
++++ ||++||||||+|++|.|++|+|+++..|+++
T Consensus 852 ~~~~-rHnpEFTmLE~y~a~~dy~d~m~l~E~li~~ 886 (1094)
T PRK02983 852 GVDA-THNPEFTLLEAYQAHADYDTMRDLTRELIQN 886 (1094)
T ss_pred CCCC-CccccccchhhhhhcCCHHHHHHHHHHHHHH
Confidence 9985 8999999999999999999999966555543
No 26
>KOG0555 consensus Asparaginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.3e-48 Score=380.66 Aligned_cols=256 Identities=27% Similarity=0.423 Sum_probs=227.9
Q ss_pred ccccccccchhhcccccCcceehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch
Q 017368 10 QVATMDLNDDAVQRHQFSDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV 89 (373)
Q Consensus 10 ~~~~~~~~~~~~~~~~~~~r~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~ 89 (373)
+...+++++|. +++..+-+.|-+.+ .+.|+.|+|.||||++|+++ +|+||.||||+|+ ||||++++.
T Consensus 95 ~a~ki~ised~--slp~ak~iki~~s~-------~~r~qrVkv~gWVhrlR~qk--~l~FivLrdg~gf--lqCVl~~kl 161 (545)
T KOG0555|consen 95 EAKKITISEDK--SLPAAKKIKIYDST-------ENRGQRVKVFGWVHRLRRQK--SLIFIVLRDGTGF--LQCVLSDKL 161 (545)
T ss_pred hhhcccccCCC--CCchhheeeecccc-------cccCceEEeehhhHhhhhcC--ceEEEEEecCCce--EEEEEcchh
Confidence 45578888887 88888888887776 57899999999999999997 8999999999998 999999876
Q ss_pred hh-h-ccCCCCCcEEEEEEEeeCCCCC--CccceEEEEeEEEEeecCCCC--CCCCCCCCCChhhhhhccceecCCHHHH
Q 017368 90 AD-L-GQLVPTGTCVYVEGMLKNPPEG--TKQKIELRVQKVVDVGMVDPA--KYPIPKTKLTLEFLRDRIPFRPRTNTIA 163 (373)
Q Consensus 90 ~~-~-~~~L~~esvV~V~G~v~~~~~~--~~g~vEL~v~~i~VLs~a~~~--~~Pi~~k~~s~E~lr~~r~LrlRt~~~~ 163 (373)
.. + .-.|..|++|.|.|++++.|+| +.|+.||.|.-++|++.+.+. +.|| ++..+.+.++++|||-+|....+
T Consensus 162 ~~~yd~~~Ls~essv~vYG~i~~~p~GK~apgghEl~vdy~Eiig~Apag~~~n~l-ne~s~~~~~LdnrHl~iRge~~s 240 (545)
T KOG0555|consen 162 CQSYDALTLSTESSVTVYGTIKKLPEGKSAPGGHELNVDYWEIIGLAPAGGFDNPL-NEESDVDVLLDNRHLVIRGENAS 240 (545)
T ss_pred hhhhccccccccceEEEEEEEecCcCCCCCCCCceEEeeeeeeecccCCCcccccc-cccCCcceEeccceeEEechhHH
Confidence 42 2 2247899999999999999877 579999999999999998744 3344 34567788999999999999999
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhh
Q 017368 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKG 243 (373)
Q Consensus 164 ~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 243 (373)
.+|++|+.+.+++|+++.+.|+.||.+|.|.....|||+.+|+.
T Consensus 241 ~vLK~Ra~~lr~~Rd~y~~~~ytEVtPPtmVQTQVEGGsTLFkl------------------------------------ 284 (545)
T KOG0555|consen 241 KVLKARAALLRAMRDHYFERGYTEVTPPTMVQTQVEGGSTLFKL------------------------------------ 284 (545)
T ss_pred HHHHHHHHHHHHHHHHHHhcCceecCCCceEEEEecCcceEEee------------------------------------
Confidence 99999999999999999999999999999999998999887754
Q ss_pred hHHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHHHhhcCc
Q 017368 244 EAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYACAVSN 323 (373)
Q Consensus 244 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~~~~~~ 323 (373)
||||+++|||||+|||||+..-++++
T Consensus 285 ------------------------------------------------------dYyGEeAyLTQSSQLYLEtclpAlgd 310 (545)
T KOG0555|consen 285 ------------------------------------------------------DYYGEEAYLTQSSQLYLETCLPALGD 310 (545)
T ss_pred ------------------------------------------------------cccCchhhccchhHHHHHHhhhhcCc
Confidence 79999999999999999999999999
Q ss_pred eEEEecceecCCCCCCCCcCccccceeeecCCCHHHHHHHHHHHHH
Q 017368 324 VYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLKVRWTYTAHCLV 369 (373)
Q Consensus 324 vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~~~~~~~~~~~~~~~~ 369 (373)
||+|.++||||.|+|.|||+||+++|+|++|+++.++|+-|..++.
T Consensus 311 vy~I~~SyRAEkSrTRRHLsEytHVEaE~afltfd~ll~~iE~lvc 356 (545)
T KOG0555|consen 311 VYCIQQSYRAEKSRTRRHLSEYTHVEAECAFLTFDDLLDRIEALVC 356 (545)
T ss_pred eeEecHhhhhhhhhhhhhhhhheeeeeecccccHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999999999995555543
No 27
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=4.3e-42 Score=349.29 Aligned_cols=249 Identities=21% Similarity=0.259 Sum_probs=208.4
Q ss_pred ccccCcceehhhhhcCCCCC--CCCC--CcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh------hh
Q 017368 23 RHQFSDRVLIKSILTRPDGG--AGLA--GRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA------DL 92 (373)
Q Consensus 23 ~~~~~~r~~Ikdi~~~~~l~--~~~i--gk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~------~~ 92 (373)
+..|.+.+++.++.+..+.. +... .-.|.|+|||..+|.+| |++|++|.|++|. ||++++++.. .+
T Consensus 33 p~~~~~~~~~~~l~~~~~~~~~~el~~~~~~v~vAGRi~~~R~~G--K~~F~~i~d~~gk--iQ~yi~k~~~~~~~~~~~ 108 (502)
T COG1190 33 PNDFERTHTSADLREKYADKTKEELEALNIEVSVAGRIMTIRNMG--KASFADLQDGSGK--IQLYVNKDEVGEEVFEAL 108 (502)
T ss_pred CCcCcccccHHHHHHHHhccchhhhhhccceeEEecceeeecccC--ceeEEEEecCCce--EEEEEeccccchhhHHHH
Confidence 36677888888887533221 1122 22499999999999999 8999999999985 9999997641 24
Q ss_pred ccCCCCCcEEEEEEEeeCCCCCCccceEEEEeEEEEeecCCCCCCCCCCCCC---ChhhhhhccceecC-CHHHHHHHHH
Q 017368 93 GQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTKL---TLEFLRDRIPFRPR-TNTIAAVARI 168 (373)
Q Consensus 93 ~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~i~VLs~a~~~~~Pi~~k~~---s~E~lr~~r~LrlR-t~~~~~il~i 168 (373)
.+.+..||+|.|+|.+.+++ +|++.|.|++++++++|. .|+| .|.+ +.|.+.++||+|+- ++..+..|..
T Consensus 109 ~~~~dlGDiigv~G~~~~T~---~GelSv~v~~~~lLsKsL-~pLP--eK~hgL~D~E~RyR~RylDLi~N~e~r~~f~~ 182 (502)
T COG1190 109 FKKLDLGDIIGVEGPLFKTK---TGELSVSVEELRLLSKSL-RPLP--EKFHGLTDKEIRYRQRYLDLIVNPESRQTFIK 182 (502)
T ss_pred HhccccCCEEeeeeeeeecC---CCceEEEEEEEeeecccC-CCCC--hhhcCCccHHHHHHHHHHHHhcCHHHHHHHHH
Confidence 56789999999999999987 799999999999999998 5455 6655 45888889999984 7789999999
Q ss_pred HHHHHHHHHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHh
Q 017368 169 RNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAK 248 (373)
Q Consensus 169 RS~i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 248 (373)
||.|++++|+||.++||+||+||+|+....|.++.+|.+.
T Consensus 183 Rs~ii~~iR~fl~~~gFlEVETP~lq~i~GGA~ArPF~Th---------------------------------------- 222 (502)
T COG1190 183 RSKIIRAIREFLDDRGFLEVETPMLQPIPGGAAARPFITH---------------------------------------- 222 (502)
T ss_pred HHHHHHHHHHHHHHCCCeEeccccccccCCCcccccceee----------------------------------------
Confidence 9999999999999999999999999998866667888763
Q ss_pred hhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHH-HhhcCceEEE
Q 017368 249 LKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNVYTF 327 (373)
Q Consensus 249 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~vy~~ 327 (373)
.+-++...||.++|+|||+.+ ++||+|||+|
T Consensus 223 ------------------------------------------------hNald~dlyLRIApELyLKRliVGG~erVfEI 254 (502)
T COG1190 223 ------------------------------------------------HNALDMDLYLRIAPELYLKRLIVGGFERVFEI 254 (502)
T ss_pred ------------------------------------------------ecccCCceEEeeccHHHHHHHHhcCchhheee
Confidence 123566789999999999976 6789999999
Q ss_pred ecceecCCCCCCCCcCccccceeeecCCCHHHHHHHHHHHHHh
Q 017368 328 GPTFRAEHSHTSRHLAEFWMVEPEMAFSDLKVRWTYTAHCLVF 370 (373)
Q Consensus 328 ~p~fRaE~~~t~rhl~EF~~le~e~~~~~~~~~~~~~~~~~~~ 370 (373)
|++||||+.++ +|.+||||||.|+||+|++|+|+++..|+++
T Consensus 255 gr~FRNEGid~-tHNPEFTmlE~Y~AYaDy~D~m~ltE~Li~~ 296 (502)
T COG1190 255 GRNFRNEGIDT-THNPEFTMLEFYQAYADYEDLMDLTEELIKE 296 (502)
T ss_pred ccccccCCCcc-ccCcchhhHHHHHHHhHHHHHHHHHHHHHHH
Confidence 99999999985 7999999999999999999999955555544
No 28
>KOG1885 consensus Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.8e-42 Score=346.95 Aligned_cols=259 Identities=19% Similarity=0.268 Sum_probs=212.1
Q ss_pred ccccchhhcccccCcceehhhhhcCCC---CCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh
Q 017368 14 MDLNDDAVQRHQFSDRVLIKSILTRPD---GGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA 90 (373)
Q Consensus 14 ~~~~~~~~~~~~~~~r~~Ikdi~~~~~---l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~ 90 (373)
+-.+..+--+++|..+++|.+..+... .++...+..|.|+|||+++|.+|+ ||+|+||++++. .||||++.+..
T Consensus 68 l~~s~~~Pyphkf~vs~si~~fieky~~l~~ge~~~n~~~svaGRI~s~R~sGs-KL~Fydl~~~g~--klQvm~~~~~~ 144 (560)
T KOG1885|consen 68 LRASGLNPYPHKFHVSISIPDFIEKYLHLATGEHLDNEIVSVAGRIHSKRESGS-KLVFYDLHGDGV--KLQVMANAKKI 144 (560)
T ss_pred HhhcCCCCCcchhhccccHHHHHHHhcCcccccccccceeeeeeeEeeeeccCC-ceEEEEEecCCe--EEEEEEehhhc
Confidence 333334434578888899988765222 244555678999999999999998 899999999965 59999987652
Q ss_pred ----hh---ccCCCCCcEEEEEEEeeCCCCCCccceEEEEeEEEEeecCCCCCCCCC-CCCCChhhhhhccceec-CCHH
Q 017368 91 ----DL---GQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIP-KTKLTLEFLRDRIPFRP-RTNT 161 (373)
Q Consensus 91 ----~~---~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~i~VLs~a~~~~~Pi~-~k~~s~E~lr~~r~Lrl-Rt~~ 161 (373)
+| .+.|++||+|.|.|.+.++. +|+++|.++++.+|++|. .++|-. -.-.+.|.+.++||||+ -++.
T Consensus 145 ~~~~~F~~~~~~lkrGDiig~~G~pgrt~---~gELSi~~~~~~lLspcL-h~lP~~~~gLkD~EtRyrqRylDlilN~~ 220 (560)
T KOG1885|consen 145 TSEEDFEQLHKFLKRGDIIGVSGYPGRTK---SGELSIIPNEIILLSPCL-HMLPHEHFGLKDKETRYRKRYLDLILNPE 220 (560)
T ss_pred CCHHHHHHHHhhhhccCEEeeecCCCcCC---CceEEEeecchheecchh-ccCChhhcCCCcHHHHHHHHHHHHHcCHH
Confidence 23 46699999999999999987 689999999999999998 666611 11225688888999997 4778
Q ss_pred HHHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHh
Q 017368 162 IAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKE 241 (373)
Q Consensus 162 ~~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 241 (373)
.+..|++|+.|+..+|.||+++||+||+||||.....+..+.+|.+..
T Consensus 221 ~r~~f~~RakII~~iRkfld~rgFlEVETPmmn~iaGGA~AkPFIT~h-------------------------------- 268 (560)
T KOG1885|consen 221 VRDRFRIRAKIISYIRKFLDSRGFLEVETPMMNMIAGGATAKPFITHH-------------------------------- 268 (560)
T ss_pred HHHHHHHHHHHHHHHHHHhhhcCceEecchhhccccCccccCceeecc--------------------------------
Confidence 999999999999999999999999999999999988666678897630
Q ss_pred hhhHHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHH-Hhh
Q 017368 242 KGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACA 320 (373)
Q Consensus 242 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~ 320 (373)
+=++..+||.++|+||++++ ++|
T Consensus 269 --------------------------------------------------------ndldm~LylRiAPEL~lK~LvVGG 292 (560)
T KOG1885|consen 269 --------------------------------------------------------NDLDMDLYLRIAPELYLKMLVVGG 292 (560)
T ss_pred --------------------------------------------------------cccCcceeeeechHHHHHHHHhcc
Confidence 12466799999999999986 678
Q ss_pred cCceEEEecceecCCCCCCCCcCccccceeeecCCCHHHHHHHHHHHH
Q 017368 321 VSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLKVRWTYTAHCL 368 (373)
Q Consensus 321 ~~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~~~~~~~~~~~~~~~ 368 (373)
++|||+||..||||+.+. +|.+||+.+|+||||+|++|+|+++..|+
T Consensus 293 ldrVYEIGr~FRNEGIDl-THNPEFTTcEfY~AYady~dlm~~TE~l~ 339 (560)
T KOG1885|consen 293 LDRVYEIGRQFRNEGIDL-THNPEFTTCEFYMAYADYEDLMDMTEELL 339 (560)
T ss_pred HHHHHHHHHHhhhcCccc-ccCCCcchHHHHHHHhhHHHHHHHHHHHH
Confidence 999999999999999986 69999999999999999999999444443
No 29
>KOG2411 consensus Aspartyl-tRNA synthetase, mitochondrial [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=8.9e-41 Score=336.59 Aligned_cols=240 Identities=24% Similarity=0.329 Sum_probs=206.8
Q ss_pred CCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh----hhccCCCCCcEEEEEEEeeCCCC
Q 017368 38 RPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA----DLGQLVPTGTCVYVEGMLKNPPE 113 (373)
Q Consensus 38 ~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~----~~~~~L~~esvV~V~G~v~~~~~ 113 (373)
|+++....+|++|.||||+.-.|.+| .+.|..|||.+|. +|+.++.+.. .....++.||+|.|+|+|+.++.
T Consensus 38 ~~el~~~~vg~kv~l~GWl~~~~~~k--~~~F~~LRD~~G~--vq~lls~~s~~l~~~~~~~v~~e~vv~v~gtvv~Rp~ 113 (628)
T KOG2411|consen 38 CGELSVNDVGKKVVLCGWLELHRVHK--MLTFFNLRDAYGI--VQQLLSPDSFPLAQKLENDVPLEDVVQVEGTVVSRPN 113 (628)
T ss_pred chhhccCccCCEEEEeeeeeeeeccc--cceEEEeeccCcc--eEEEecchhhhHHhcccCCCChhheEeeeeeEecccc
Confidence 77777788999999999999999998 8999999999997 8888877653 12345799999999999998863
Q ss_pred C------CccceEEEEeEEEEeecCCCCCCCCCCCC-------CChhhhhhccceecCCHHHHHHHHHHHHHHHHHHHHH
Q 017368 114 G------TKQKIELRVQKVVDVGMVDPAKYPIPKTK-------LTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFL 180 (373)
Q Consensus 114 ~------~~g~vEL~v~~i~VLs~a~~~~~Pi~~k~-------~s~E~lr~~r~LrlRt~~~~~il~iRS~i~~~iR~fL 180 (373)
. .+|.+|+.++++++++++. ..+|+.-.+ .+..++..+|||++|++.++..++.||.++..+|+||
T Consensus 114 ~sin~km~tg~vev~~e~~~vln~~~-~~~p~~v~df~~ld~~~~er~rl~~RyldLR~~kmq~nLrlRS~~v~~iR~yl 192 (628)
T KOG2411|consen 114 ESINSKMKTGFVEVVAEKVEVLNPVN-KKLPFEVTDFKELDDLAGERIRLRFRYLDLRRPKMQNNLRLRSNVVKKIRRYL 192 (628)
T ss_pred cccCccccccceEEEeeeeEEecCcc-CCCccchhhhhhhhccccccccchhhhhhhccHHHHHHHHHHHHHHHHHHHHH
Confidence 2 4699999999999999997 667764322 3445667789999999999999999999999999999
Q ss_pred Hh-CCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhHHHhhhcccchhhhh
Q 017368 181 QK-QGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAI 259 (373)
Q Consensus 181 ~~-~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 259 (373)
.+ .||+||+||+|.+.+||||+| |.||++..+
T Consensus 193 ~n~~GFvevETPtLFkrTPgGA~E-FvVPtr~~~---------------------------------------------- 225 (628)
T KOG2411|consen 193 NNRHGFVEVETPTLFKRTPGGARE-FVVPTRTPR---------------------------------------------- 225 (628)
T ss_pred hhhcCeeeccCcchhccCCCccce-eecccCCCC----------------------------------------------
Confidence 76 579999999999999999999 999854110
Q ss_pred hhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHH-HhhcCceEEEecceecCCCCC
Q 017368 260 SASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNVYTFGPTFRAEHSHT 338 (373)
Q Consensus 260 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~vy~~~p~fRaE~~~t 338 (373)
| .||. |.||||.|+|++ +.|++|+|+|+.|||.|.+..
T Consensus 226 -------------------------------g------~FYa----LpQSPQQfKQlLMvsGidrYyQiARCfRDEdlR~ 264 (628)
T KOG2411|consen 226 -------------------------------G------KFYA----LPQSPQQFKQLLMVSGIDRYYQIARCFRDEDLRA 264 (628)
T ss_pred -------------------------------C------ceee----cCCCHHHHHHHHHHhchhhHHhHHhhhcccccCc
Confidence 1 2554 999999999995 789999999999999999999
Q ss_pred CCCcCccccceeeecCCCHHHHHHHHHHHHHhc
Q 017368 339 SRHLAEFWMVEPEMAFSDLKVRWTYTAHCLVFE 371 (373)
Q Consensus 339 ~rhl~EF~~le~e~~~~~~~~~~~~~~~~~~~~ 371 (373)
+|.. |||++|+||+|++.+|+|.+|..++.+.
T Consensus 265 DRQP-EFTQvD~EMsF~~~~dim~liEdll~~~ 296 (628)
T KOG2411|consen 265 DRQP-EFTQVDMEMSFTDQEDIMKLIEDLLRYV 296 (628)
T ss_pred ccCC-cceeeeeEEeccCHHHHHHHHHHHHHHh
Confidence 9997 9999999999999999999888888764
No 30
>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=2.3e-37 Score=305.06 Aligned_cols=140 Identities=36% Similarity=0.568 Sum_probs=121.3
Q ss_pred ChhhhhhccceecCCHHHHHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCC
Q 017368 145 TLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKN 224 (373)
Q Consensus 145 s~E~lr~~r~LrlRt~~~~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~ 224 (373)
+.|+++++|||++|++.++++|++||.|++++|+||.++||+||+||+|+++++||+++.|.|.+
T Consensus 1 ~~e~~~~~r~l~~r~~~~~~~~~~rs~i~~~ir~ff~~~~f~Ev~tP~l~~~~~~~~~~~F~v~~--------------- 65 (335)
T PF00152_consen 1 DEETRLDNRHLDLRTPAMSSILRIRSAILQAIREFFDKRGFIEVDTPILTSSTCEGGAEPFSVDS--------------- 65 (335)
T ss_dssp -HHHHHHTHHHHTTSHHHHHHHHHHHHHHHHHHHHHHHTT-EEE---SEESSSSSSSSCSEEEEE---------------
T ss_pred ChhhhhhccceeccCcHHHHHHHHHHHHHHHHHHHHHhCCceEEcCceeeccccCcccccccccc---------------
Confidence 35789999999999999999999999999999999999999999999999999999999999852
Q ss_pred CCCChhhHHHHHHHHHhhhhHHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccc
Q 017368 225 PPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQA 304 (373)
Q Consensus 225 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~ 304 (373)
...+||++++
T Consensus 66 ----------------------------------------------------------------------~~~~~~~~~~ 75 (335)
T PF00152_consen 66 ----------------------------------------------------------------------EPGKYFGEPA 75 (335)
T ss_dssp ----------------------------------------------------------------------STTEETTEEE
T ss_pred ----------------------------------------------------------------------chhhhcccce
Confidence 0236999999
Q ss_pred eeeccHHHHHHHHHh-hcCceEEEecceecCCCCCCCCcCccccceeeecCCCHHHHHHHHHHHHH
Q 017368 305 FLTVSGQLQVETYAC-AVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLKVRWTYTAHCLV 369 (373)
Q Consensus 305 ~L~~S~ql~~e~~~~-~~~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~~~~~~~~~~~~~~~~ 369 (373)
||++|||||+|++++ |+++||+||||||+|+++|.|||+||||||+||+|+|++++|+++..|++
T Consensus 76 ~L~~Spql~~k~ll~~g~~~vf~i~~~FR~E~~~~~rHl~EFtmLE~e~a~~~~~~lm~~~e~li~ 141 (335)
T PF00152_consen 76 YLTQSPQLYLKRLLAAGLERVFEIGPCFRNEESRTRRHLPEFTMLEWEMAFADYDDLMDLIEELIK 141 (335)
T ss_dssp EE-SSSHHHHHHHHHTTHSEEEEEEEEE-BSSSCBTTBSSEEEEEEEEEETSSHHHHHHHHHHHHH
T ss_pred ecCcChHHHHhhhccccchhhhheecceeccCcccccchhhhhhhhhccccCcHHHhHHHHHHHHH
Confidence 999999999999765 59999999999999999999999999999999999999999994444443
No 31
>cd00776 AsxRS_core Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as a subgroup of AspRS. AsnRS and AspRS are homodimers, which attach either asparagine or aspartate to the 3'OH group of ribose of the appropriate tRNA. While archaea lack asnRS, they possess a non-discriminating aspRS, which can mischarge Asp-tRNA with Asn. Subsequently, a tRNA-dependent aspartate amidotransferase converts the bound aspartate to asparagine. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate.
Probab=100.00 E-value=2.1e-36 Score=298.14 Aligned_cols=135 Identities=42% Similarity=0.676 Sum_probs=126.3
Q ss_pred CChhhhhhccceecCCHHHHHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhC
Q 017368 144 LTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIK 223 (373)
Q Consensus 144 ~s~E~lr~~r~LrlRt~~~~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~ 223 (373)
+++|+++++||||+|++..++++++||.|.+++|+||.++||+||+||+|+.+++||++++|.+
T Consensus 2 ~~~~~~~~~r~l~lr~~~~~~~~~~rs~i~~~ir~~f~~~gf~eV~TP~l~~~~~e~~~~~f~~---------------- 65 (322)
T cd00776 2 ANLETLLDNRHLDLRTPKVQAIFRIRSEVLRAFREFLRENGFTEVHTPKITSTDTEGGAELFKV---------------- 65 (322)
T ss_pred CChHhhhhCceeeeCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEeeCCceecCCCCccCCcccc----------------
Confidence 4678999999999999999999999999999999999999999999999999999999987754
Q ss_pred CCCCChhhHHHHHHHHHhhhhHHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCcc
Q 017368 224 NPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQ 303 (373)
Q Consensus 224 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~ 303 (373)
+||+++
T Consensus 66 --------------------------------------------------------------------------~~~~~~ 71 (322)
T cd00776 66 --------------------------------------------------------------------------SYFGKP 71 (322)
T ss_pred --------------------------------------------------------------------------ccCCCc
Confidence 589999
Q ss_pred ceeeccHHHHHHHHHhhcCceEEEecceecCCCCCCCCcCccccceeeecCC-CHHHHHHHHHHHH
Q 017368 304 AFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFS-DLKVRWTYTAHCL 368 (373)
Q Consensus 304 ~~L~~S~ql~~e~~~~~~~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~~-~~~~~~~~~~~~~ 368 (373)
+||++|||||+|++++|++|||+||||||||+++|.|||+||||||+||+|+ +++++|+++..++
T Consensus 72 ~yL~~Spql~lk~l~~~~~~vf~i~~~FR~E~~~~~rHl~EFtmlE~e~~~~~~~~dlm~~~e~ll 137 (322)
T cd00776 72 AYLAQSPQLYKEMLIAALERVYEIGPVFRAEKSNTRRHLSEFWMLEAEMAFIEDYNEVMDLIEELI 137 (322)
T ss_pred ceecCCHHHHHHHHHHhhhhhEEeccccccCCCCcCCCcceeeccceeeeccCCHHHHHHHHHHHH
Confidence 9999999999999988899999999999999999999999999999999999 9999999444444
No 32
>PRK06462 asparagine synthetase A; Reviewed
Probab=100.00 E-value=5.3e-35 Score=289.70 Aligned_cols=141 Identities=21% Similarity=0.245 Sum_probs=123.1
Q ss_pred ChhhhhhccceecCCHHHHHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCC
Q 017368 145 TLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKN 224 (373)
Q Consensus 145 s~E~lr~~r~LrlRt~~~~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~ 224 (373)
+.+.+.++|++++|++..+++|++||.|++++|+||.++||+||+||+|++++++|.+..
T Consensus 9 ~~~~~~~~r~~~lr~~~~~~il~~Rs~i~~~iR~ff~~~~f~EV~TP~l~~~~~~~~~~g-------------------- 68 (335)
T PRK06462 9 EYEEFLRMSWKHISSEKYRKVLKVQSSILRYTREFLDGRGFVEVLPPIISPSTDPLMGLG-------------------- 68 (335)
T ss_pred chhhhhhhHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCeEecCCCCCCCcc--------------------
Confidence 567888999999999999999999999999999999999999999999999988765430
Q ss_pred CCCChhhHHHHHHHHHhhhhHHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccc
Q 017368 225 PPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQA 304 (373)
Q Consensus 225 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~ 304 (373)
...+...+..+||++++
T Consensus 69 ---------------------------------------------------------------~~~~~~~~~~~~~~~~~ 85 (335)
T PRK06462 69 ---------------------------------------------------------------SDLPVKQISIDFYGVEY 85 (335)
T ss_pred ---------------------------------------------------------------ccCCccccccccCCCce
Confidence 00011124457999999
Q ss_pred eeeccHHHHHHHHHhhcCceEEEecceecCCCCC--CCCcCccccceeeecCCCHHHHHHHHHHHH
Q 017368 305 FLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHT--SRHLAEFWMVEPEMAFSDLKVRWTYTAHCL 368 (373)
Q Consensus 305 ~L~~S~ql~~e~~~~~~~~vy~~~p~fRaE~~~t--~rhl~EF~~le~e~~~~~~~~~~~~~~~~~ 368 (373)
||++|||||||++++|++|||+||||||||+++| +|||+||||||+||+|.|++++|+++..++
T Consensus 86 yL~~Spql~k~ll~~g~~rVfeI~p~FR~E~~~~~~~rHl~EFtmlE~e~~~~d~~dlm~~~e~lv 151 (335)
T PRK06462 86 YLADSMILHKQLALRMLGKIFYLSPNFRLEPVDKDTGRHLYEFTQLDIEIEGADLDEVMDLIEDLI 151 (335)
T ss_pred eeccCHHHHHHHHHhhcCcEEEEeccccCCCCCCCCCCCCCchheeeehhhcCCHHHHHHHHHHHH
Confidence 9999999999999999999999999999999998 799999999999999999999999444444
No 33
>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=99.97 E-value=2.4e-31 Score=262.96 Aligned_cols=122 Identities=21% Similarity=0.342 Sum_probs=108.1
Q ss_pred CHHHHHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHH
Q 017368 159 TNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLV 238 (373)
Q Consensus 159 t~~~~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 238 (373)
++.++++|++||.+++++|+||.++||+||+||+|+++.++|++++|.+.
T Consensus 1 ~~~~~~~l~~Rs~i~~~iR~ff~~~gf~EV~TP~L~~~~~~~~~~~f~~~------------------------------ 50 (329)
T cd00775 1 NEEVRQTFIVRSKIISYIRKFLDDRGFLEVETPMLQPIAGGAAARPFITH------------------------------ 50 (329)
T ss_pred CHHHHHHHHHHHHHHHHHHHHHHHCCCEEEECCccccCCCCccceeEEec------------------------------
Confidence 46789999999999999999999999999999999988777677878652
Q ss_pred HHhhhhHHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHH-
Q 017368 239 IKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY- 317 (373)
Q Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~- 317 (373)
.+||++++||++|||||+|++
T Consensus 51 ----------------------------------------------------------~~~~~~~~yL~~Spql~~k~ll 72 (329)
T cd00775 51 ----------------------------------------------------------HNALDMDLYLRIAPELYLKRLI 72 (329)
T ss_pred ----------------------------------------------------------cCCCCcceeeccCHHHHHHHHH
Confidence 147899999999999999986
Q ss_pred HhhcCceEEEecceecCCCCCCCCcCccccceeeecCCCHHHHHHHHHHHHH
Q 017368 318 ACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLKVRWTYTAHCLV 369 (373)
Q Consensus 318 ~~~~~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~~~~~~~~~~~~~~~~ 369 (373)
++|+++||+||||||||+++ .|||+||||||+||+|.+++++|+++..+++
T Consensus 73 ~~g~~~vf~i~~~FR~E~~~-~rHl~EFt~le~e~~~~~~~~~m~~~e~li~ 123 (329)
T cd00775 73 VGGFERVYEIGRNFRNEGID-LTHNPEFTMIEFYEAYADYNDMMDLTEDLFS 123 (329)
T ss_pred hcCCCcEEEEeccccCCCCC-CCCCCceEEEEEeeecCCHHHHHHHHHHHHH
Confidence 56899999999999999996 7999999999999999999999995544443
No 34
>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=99.96 E-value=2.5e-30 Score=253.29 Aligned_cols=119 Identities=21% Similarity=0.228 Sum_probs=104.2
Q ss_pred HHHHHHHHHHHHHHHHhCCcEEEecCeeecC-CCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhh
Q 017368 166 ARIRNALAYATHTFLQKQGFLYIHTPIITTS-DCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGE 244 (373)
Q Consensus 166 l~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~-~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 244 (373)
|++||.|++++|+||.++||+||+||+|+.+ .+||++++|.+..
T Consensus 1 l~~rs~i~~~ir~~f~~~gF~EV~TP~l~~~~~~e~~~~~F~~~y----------------------------------- 45 (304)
T TIGR00462 1 LRARARLLAAIRAFFAERGVLEVETPLLSPAPVTDPHLDAFATEF----------------------------------- 45 (304)
T ss_pred ChHHHHHHHHHHHHHHHCCCEEEECCeEecCCCCCcCCcceeeec-----------------------------------
Confidence 4789999999999999999999999999998 5688889897731
Q ss_pred HHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHH-HHhhcCc
Q 017368 245 AVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVET-YACAVSN 323 (373)
Q Consensus 245 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~-~~~~~~~ 323 (373)
+..+++++++||++|||||+|+ +++|++|
T Consensus 46 --------------------------------------------------~~~~~~~~~~yL~~Spql~lk~ll~~g~~r 75 (304)
T TIGR00462 46 --------------------------------------------------LGPDGEGRPLYLQTSPEYAMKRLLAAGSGP 75 (304)
T ss_pred --------------------------------------------------cCCCCCCcceeeecCHHHHHHHHHhccCCC
Confidence 1113678899999999999995 6788999
Q ss_pred eEEEecceecCCCCCCCCcCccccceeeecCCCHHHHHHHHHHHHHh
Q 017368 324 VYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLKVRWTYTAHCLVF 370 (373)
Q Consensus 324 vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~~~~~~~~~~~~~~~~~ 370 (373)
||+||||||||+++ .|||+||||||+|++|.|++|+|+++..|+.+
T Consensus 76 Vfeigp~FRaE~~~-~rHl~EFtmLE~e~~~~d~~d~m~~~e~li~~ 121 (304)
T TIGR00462 76 IFQICKVFRNGERG-RRHNPEFTMLEWYRPGFDYHDLMDEVEALLQE 121 (304)
T ss_pred EEEEcCceeCCCCC-CCcccHHHhHHHHHHcCCHHHHHHHHHHHHHH
Confidence 99999999999995 89999999999999999999999966665543
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=99.95 E-value=4.1e-28 Score=234.06 Aligned_cols=114 Identities=25% Similarity=0.411 Sum_probs=101.2
Q ss_pred HHHHHHHHHHHHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhH
Q 017368 166 ARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEA 245 (373)
Q Consensus 166 l~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 245 (373)
|++||.|++.+|+||.++||+||+||+|+.+.+||++++|.++..
T Consensus 1 ~~~rs~i~~~ir~~f~~~gf~ev~tP~l~~~~~~~~~~~f~~~~~----------------------------------- 45 (269)
T cd00669 1 FKVRSKIIKAIRDFMDDRGFLEVETPMLQKITGGAGARPFLVKYN----------------------------------- 45 (269)
T ss_pred CcHHHHHHHHHHHHHHHCCCEEEECCEEeccCCccccceEEeeec-----------------------------------
Confidence 579999999999999999999999999999988888898877310
Q ss_pred HHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHH-HhhcCce
Q 017368 246 VAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNV 324 (373)
Q Consensus 246 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~v 324 (373)
+ +++++||++|||||+|++ +++++||
T Consensus 46 ----------------------------------------------------~-~g~~~~L~~Spql~~~~~~~~~~~~v 72 (269)
T cd00669 46 ----------------------------------------------------A-LGLDYYLRISPQLFKKRLMVGGLDRV 72 (269)
T ss_pred ----------------------------------------------------C-CCCcEEeecCHHHHHHHHHhcCCCcE
Confidence 1 388999999999999986 5679999
Q ss_pred EEEecceecCCCCCCCCcCccccceeeecCCCHHHHHHHHHHHH
Q 017368 325 YTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLKVRWTYTAHCL 368 (373)
Q Consensus 325 y~~~p~fRaE~~~t~rhl~EF~~le~e~~~~~~~~~~~~~~~~~ 368 (373)
|+|+||||+| +.+.|||+||||+|+||+|.+++++|+++..|+
T Consensus 73 f~i~~~fR~e-~~~~~hl~EF~~le~e~~~~~~~dvm~~~e~lv 115 (269)
T cd00669 73 FEINRNFRNE-DLRARHQPEFTMMDLEMAFADYEDVIELTERLV 115 (269)
T ss_pred EEEecceeCC-CCCCCcccceeEEEEEEecCCHHHHHHHHHHHH
Confidence 9999999999 789999999999999999999999999444443
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=99.95 E-value=5.5e-28 Score=234.40 Aligned_cols=115 Identities=30% Similarity=0.373 Sum_probs=99.0
Q ss_pred HHHHHHHHHHHHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhhhH
Q 017368 166 ARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEA 245 (373)
Q Consensus 166 l~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 245 (373)
|++||.|++++|+||.++||+||+||+|+++++||+++ |.++..
T Consensus 1 l~~Rs~i~~~iR~f~~~~gfiEV~TP~L~~~~~~g~~~-f~~~~~----------------------------------- 44 (280)
T cd00777 1 LRLRSRVIKAIRNFLDEQGFVEIETPILTKSTPEGARD-FLVPSR----------------------------------- 44 (280)
T ss_pred CchHHHHHHHHHHHHHHCCCEEEeCCeeecCCCCCCCC-ceeccc-----------------------------------
Confidence 47899999999999999999999999999999999877 876310
Q ss_pred HHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHHH-HhhcCce
Q 017368 246 VAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNV 324 (373)
Q Consensus 246 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~v 324 (373)
.+.+...||++|||||+|++ +.|++||
T Consensus 45 ----------------------------------------------------~~~~~~~~L~~Spql~lk~ll~~g~~~v 72 (280)
T cd00777 45 ----------------------------------------------------LHPGKFYALPQSPQLFKQLLMVSGFDRY 72 (280)
T ss_pred ----------------------------------------------------cCCCceeecccCHHHHHHHHHhcCcCcE
Confidence 01233346999999999986 5789999
Q ss_pred EEEecceecCCCCCCCCcCccccceeeecCCCHHHHHHHHHHHHH
Q 017368 325 YTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLKVRWTYTAHCLV 369 (373)
Q Consensus 325 y~~~p~fRaE~~~t~rhl~EF~~le~e~~~~~~~~~~~~~~~~~~ 369 (373)
|+|+||||+|++++.||+ ||||+|+|++|.|++++|+++..|+.
T Consensus 73 ~~i~~~fR~e~~~~~r~~-Ef~~~e~e~~~~~~~dlm~~~e~li~ 116 (280)
T cd00777 73 FQIARCFRDEDLRADRQP-EFTQIDIEMSFVDQEDIMSLIEGLLK 116 (280)
T ss_pred EEeccceeCCCCCCCccc-eeEEeEeeeccCCHHHHHHHHHHHHH
Confidence 999999999999999998 99999999999999999995555554
No 37
>PRK09350 poxB regulator PoxA; Provisional
Probab=99.94 E-value=1.4e-26 Score=227.01 Aligned_cols=123 Identities=17% Similarity=0.198 Sum_probs=100.8
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCCCCCCC-cceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHh
Q 017368 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAG-EMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKE 241 (373)
Q Consensus 163 ~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~-e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 241 (373)
..+|++|+.|++.+|+||.++||+||+||+|+..+.+|+. ..|.+...
T Consensus 2 ~~~l~~r~~i~~~ir~~f~~~gf~EV~TP~l~~~~~~~~~~~~f~~~y~------------------------------- 50 (306)
T PRK09350 2 IPNLLKRAKIIAEIRRFFADRGVLEVETPILSQATVTDIHLVPFETRFV------------------------------- 50 (306)
T ss_pred hHHHHHHHHHHHHHHHHHHHCCCEEEECCeEecccCCCccCCceeeeec-------------------------------
Confidence 4689999999999999999999999999999876644321 22332100
Q ss_pred hhhHHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHH-HHhh
Q 017368 242 KGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVET-YACA 320 (373)
Q Consensus 242 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~-~~~~ 320 (373)
+.....++++||++|||++++. ++++
T Consensus 51 -----------------------------------------------------~~~~~~~~~~~L~~SPe~~~kr~la~~ 77 (306)
T PRK09350 51 -----------------------------------------------------GPGASQGKTLWLMTSPEYHMKRLLAAG 77 (306)
T ss_pred -----------------------------------------------------cccccCCcceEEecCHHHHHHHHhhcc
Confidence 0000227899999999999996 5678
Q ss_pred cCceEEEecceecCCCCCCCCcCccccceeeecCCCHHHHHHHHHHHHHh
Q 017368 321 VSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLKVRWTYTAHCLVF 370 (373)
Q Consensus 321 ~~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~~~~~~~~~~~~~~~~~ 370 (373)
++|||+||||||||++ |.||++||||||+|++|.|++|+|+++..|++.
T Consensus 78 ~~rvf~i~~~FR~e~~-~~~H~~EFt~lE~y~~~~d~~dlm~~~E~li~~ 126 (306)
T PRK09350 78 SGPIFQICKSFRNEEA-GRYHNPEFTMLEWYRPHYDMYRLMNEVDDLLQQ 126 (306)
T ss_pred ccceEEecceeecCCC-CCCCCcHHHhhhhhhhCCCHHHHHHHHHHHHHH
Confidence 9999999999999999 899999999999999999999999977777654
No 38
>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=99.86 E-value=2.3e-21 Score=168.41 Aligned_cols=112 Identities=21% Similarity=0.403 Sum_probs=94.3
Q ss_pred CCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh---hhccCCCCCcEEEEEEEeeCCCCC------
Q 017368 44 GLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA---DLGQLVPTGTCVYVEGMLKNPPEG------ 114 (373)
Q Consensus 44 ~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~---~~~~~L~~esvV~V~G~v~~~~~~------ 114 (373)
.+.|++|+|+|||+++|.+| +++|++|||++|. +|+|+..+.. .+...|+.||+|.|+|.+..++.+
T Consensus 11 ~~~g~~V~i~Gwv~~~R~~g--k~~Fi~LrD~~g~--~Q~v~~~~~~~~~~~~~~l~~gs~V~V~G~~~~~~~~~~~~~~ 86 (135)
T cd04317 11 SHVGQEVTLCGWVQRRRDHG--GLIFIDLRDRYGI--VQVVFDPEEAPEFELAEKLRNESVIQVTGKVRARPEGTVNPKL 86 (135)
T ss_pred hHCCCEEEEEEeEehhcccC--CEEEEEEecCCee--EEEEEeCCchhHHHHHhCCCCccEEEEEEEEECCCccccCCCC
Confidence 56799999999999999999 8999999999985 9999976532 245679999999999999986521
Q ss_pred CccceEEEEeEEEEeecCCCCCCCCCCCC---CChhhhhhccceecCCHH
Q 017368 115 TKQKIELRVQKVVDVGMVDPAKYPIPKTK---LTLEFLRDRIPFRPRTNT 161 (373)
Q Consensus 115 ~~g~vEL~v~~i~VLs~a~~~~~Pi~~k~---~s~E~lr~~r~LrlRt~~ 161 (373)
..|++||.+++++++++|. ++|+..++ .+.+++.++|||++|++.
T Consensus 87 ~~~~~El~~~~i~vl~~~~--~lP~~~~~~~~~~~~~r~~~R~LdLR~~~ 134 (135)
T cd04317 87 PTGEIEVVASELEVLNKAK--TLPFEIDDDVNVSEELRLKYRYLDLRRPK 134 (135)
T ss_pred CCCcEEEEEeEEEEEECCC--CCCCccccccCCCHHHhhhcceeecCCCC
Confidence 3578999999999999993 67876544 468999999999999864
No 39
>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=99.82 E-value=1.5e-19 Score=150.46 Aligned_cols=99 Identities=29% Similarity=0.431 Sum_probs=85.5
Q ss_pred EEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch--h--hhccCCCCCcEEEEEEEeeCCCCCCccceEEEEe
Q 017368 49 QVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV--A--DLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQ 124 (373)
Q Consensus 49 ~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~--~--~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~ 124 (373)
+|+|+|||+++|.+| |++|++|||++|. +|+|++.+. . ...+.|+.||+|.|+|.+.+++ ...+++||.++
T Consensus 1 ~V~v~Gwv~~~R~~g--k~~Fi~lrD~~g~--iQ~v~~~~~~~~~~~~~~~l~~~s~v~V~G~v~~~~-~~~~~~Ei~~~ 75 (103)
T cd04319 1 KVTLAGWVYRKREVG--KKAFIVLRDSTGI--VQAVFSKDLNEEAYREAKKVGIESSVIVEGAVKADP-RAPGGAEVHGE 75 (103)
T ss_pred CEEEEEEEEeEEcCC--CeEEEEEecCCee--EEEEEeCCCCHHHHHHHhCCCCCCEEEEEEEEEECC-CCCCCEEEEEE
Confidence 489999999999999 8999999999986 999998642 1 2235689999999999999887 35678999999
Q ss_pred EEEEeecCCCCCCCCCCCCCChhhhhhccce
Q 017368 125 KVVDVGMVDPAKYPIPKTKLTLEFLRDRIPF 155 (373)
Q Consensus 125 ~i~VLs~a~~~~~Pi~~k~~s~E~lr~~r~L 155 (373)
+++++|++. +||++.+. +.|+++++|||
T Consensus 76 ~i~vl~~a~--~~pi~~~~-~~~~~~~~rhL 103 (103)
T cd04319 76 KLEIIQNVE--FFPITEDA-SDEFLLDVRHL 103 (103)
T ss_pred EEEEEecCC--CCccCCCC-CHHHHhhccCC
Confidence 999999995 69998764 89999999997
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=99.81 E-value=1.5e-19 Score=151.54 Aligned_cols=101 Identities=20% Similarity=0.242 Sum_probs=83.8
Q ss_pred EEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch---hh---hccCCCCCcEEEEEEEeeCCCCCCccceEEE
Q 017368 49 QVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV---AD---LGQLVPTGTCVYVEGMLKNPPEGTKQKIELR 122 (373)
Q Consensus 49 ~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~---~~---~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~ 122 (373)
+|+|+|||+++|.+| +++|++|||+++. +|+|++.+. .. +.+.|+.||+|.|+|++.+++ .|++||+
T Consensus 1 ~v~v~GwV~~~R~~g--~~~Fi~lrd~~~~--lQ~v~~~~~~~~~~~~~~~~~l~~g~~V~v~G~v~~~~---~g~~El~ 73 (108)
T cd04322 1 EVSVAGRIMSKRGSG--KLSFADLQDESGK--IQVYVNKDDLGEEEFEDFKKLLDLGDIIGVTGTPFKTK---TGELSIF 73 (108)
T ss_pred CEEEEEEEEEEecCC--CeEEEEEEECCeE--EEEEEECCCCCHHHHHHHHhcCCCCCEEEEEEEEEecC---CCCEEEE
Confidence 488999999999999 8999999999974 999997653 12 334499999999999999987 4889999
Q ss_pred EeEEEEeecCCCCCCCCCCCC-CChhhhhhccceec
Q 017368 123 VQKVVDVGMVDPAKYPIPKTK-LTLEFLRDRIPFRP 157 (373)
Q Consensus 123 v~~i~VLs~a~~~~~Pi~~k~-~s~E~lr~~r~Lrl 157 (373)
+++++++|+|. .|+|+.... .+.|+++++|||++
T Consensus 74 ~~~~~ils~~~-~plP~~~~~~~~~~~r~~~R~ldl 108 (108)
T cd04322 74 VKEFTLLSKSL-RPLPEKFHGLTDVETRYRQRYLDL 108 (108)
T ss_pred eCEeEEeeccC-CCCCCCccCcCChhheeecccccC
Confidence 99999999996 556654433 36788899999974
No 41
>cd04316 ND_PkAspRS_like_N ND_PkAspRS_like_N: N-terminal, anticodon recognition domain of the type found in the homodimeric non-discriminating (ND) Pyrococcus kodakaraensis aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. P. kodakaraensis AspRS is a class 2b aaRS. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. P. kodakaraensis ND-AspRS can charge both tRNAAsp and tRNAAsn. Some of the enzymes in this group may be discriminating, based on the presence of homologs of asparaginyl-tRNA synthetase (AsnRS) in their completed genomes.
Probab=99.80 E-value=7.5e-19 Score=147.43 Aligned_cols=98 Identities=21% Similarity=0.355 Sum_probs=82.5
Q ss_pred CCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch-----hhhccCCCCCcEEEEEEEeeCCCC
Q 017368 39 PDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV-----ADLGQLVPTGTCVYVEGMLKNPPE 113 (373)
Q Consensus 39 ~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~-----~~~~~~L~~esvV~V~G~v~~~~~ 113 (373)
.++.....|++|+|+|||+++|.+| +++|++|||++|. +|+|+.++. .++.+.|+.||+|.|+|.+.+++.
T Consensus 4 ~~l~~~~~g~~V~v~Gwv~~~R~~g--~~~Fi~LrD~~g~--iQ~v~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~ 79 (108)
T cd04316 4 AEITPELDGEEVTVAGWVHEIRDLG--GIKFVILRDREGI--VQVTAPKKKVDKELFKTVRKLSRESVISVTGTVKAEPK 79 (108)
T ss_pred hhCchhhCCCEEEEEEEEEeeeccC--CeEEEEEecCCee--EEEEEeCCCCCHHHHHHHhCCCCcCEEEEEEEEEeCCC
Confidence 3445567899999999999999999 8999999999986 999998542 124567999999999999999873
Q ss_pred CCccceEEEEeEEEEeecCCCCCCCCCCC
Q 017368 114 GTKQKIELRVQKVVDVGMVDPAKYPIPKT 142 (373)
Q Consensus 114 ~~~g~vEL~v~~i~VLs~a~~~~~Pi~~k 142 (373)
..+++||+++++++++++. .+||++..
T Consensus 80 -~~~~~Ei~~~~i~il~~~~-~~~P~~~~ 106 (108)
T cd04316 80 -APNGVEIIPEEIEVLSEAK-TPLPLDPT 106 (108)
T ss_pred -CCCCEEEEEeEEEEEeCCC-CCCCcCcC
Confidence 4578999999999999997 57887643
No 42
>COG2269 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=99.77 E-value=5.4e-19 Score=169.94 Aligned_cols=121 Identities=21% Similarity=0.260 Sum_probs=97.9
Q ss_pred HHHHHHHHHHHHHHHHHhCCcEEEecCeeecCCC-CCCCcceeeeeccccchhhhhhhhCCCCCChhhHHHHHHHHHhhh
Q 017368 165 VARIRNALAYATHTFLQKQGFLYIHTPIITTSDC-EGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKG 243 (373)
Q Consensus 165 il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~~-EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 243 (373)
.+..|+.|+..+|.||.++||+||+||.|+.+.. |-.-..|.+...
T Consensus 15 ~ll~Ra~i~~~iR~FF~erg~lEVeTp~Ls~a~vtd~hL~~F~Te~~--------------------------------- 61 (322)
T COG2269 15 NLLKRAAIIAAIRRFFAERGVLEVETPALSVAPVTDIHLHPFETEFL--------------------------------- 61 (322)
T ss_pred HHHHHHHHHHHHHHHHHHcCceEecchHhhcCCCCccceeeeeeEEe---------------------------------
Confidence 4789999999999999999999999999997754 444455655311
Q ss_pred hHHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceeeccHHHHHHH-HHhhcC
Q 017368 244 EAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVET-YACAVS 322 (373)
Q Consensus 244 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~~S~ql~~e~-~~~~~~ 322 (373)
++. + .+ +++.||+.||++|++. ++.|-+
T Consensus 62 ------~~~--------------------------------------~-----~~--~~~l~L~TSPEy~mKrLLAag~~ 90 (322)
T COG2269 62 ------GPG--------------------------------------G-----AK--GKPLWLHTSPEYHMKRLLAAGSG 90 (322)
T ss_pred ------ccC--------------------------------------c-----cc--cceeeeecCcHHHHHHHHHccCC
Confidence 000 0 01 5789999999999987 577899
Q ss_pred ceEEEecceecCCCCCCCCcCccccceeeecCCCHHHHHHHHHHHHHh
Q 017368 323 NVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLKVRWTYTAHCLVF 370 (373)
Q Consensus 323 ~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~~~~~~~~~~~~~~~~~ 370 (373)
++|+||.|||||. ...+|.+||+|||||.++.|+.-+|+-+..|++.
T Consensus 91 ~ifql~kvfRN~E-~G~~H~PEFTMLEWYrv~~d~~~lm~e~~~Ll~~ 137 (322)
T COG2269 91 PIFQLGKVFRNEE-MGRLHNPEFTMLEWYRVGCDYYRLMNEVDDLLQL 137 (322)
T ss_pred cchhhhHHHhccc-ccccCCCceeEeeeeccCCcHHHHHHHHHHHHHH
Confidence 9999999999988 5689999999999999999999999955555543
No 43
>cd04320 AspRS_cyto_N AspRS_cyto_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae and human cytoplasmic aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis.
Probab=99.74 E-value=2.1e-17 Score=137.08 Aligned_cols=90 Identities=27% Similarity=0.398 Sum_probs=75.0
Q ss_pred EEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch----h---hhccCCCCCcEEEEEEEeeCCCCC----Ccc
Q 017368 49 QVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV----A---DLGQLVPTGTCVYVEGMLKNPPEG----TKQ 117 (373)
Q Consensus 49 ~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~----~---~~~~~L~~esvV~V~G~v~~~~~~----~~g 117 (373)
+|+|+|||+++|.+|+ +++|++|||++|. +|+|++.+. . .+.+.|+.||+|.|+|++.+++.. ..+
T Consensus 1 ~V~i~Gwv~~~R~~g~-k~~Fi~LrD~sg~--iQ~v~~~~~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~~~~~~~ 77 (102)
T cd04320 1 EVLIRARVHTSRAQGA-KLAFLVLRQQGYT--IQGVLAASAEGVSKQMVKWAGSLSKESIVDVEGTVKKPEEPIKSCTQQ 77 (102)
T ss_pred CEEEEEEEEEeecCCC-ceEEEEEecCCce--EEEEEeCCcccCCHHHHHHHhcCCCccEEEEEEEEECCCCcccCCCcC
Confidence 4899999999999997 6999999999986 999998652 1 234679999999999999987531 238
Q ss_pred ceEEEEeEEEEeecCCCCCCCCCCC
Q 017368 118 KIELRVQKVVDVGMVDPAKYPIPKT 142 (373)
Q Consensus 118 ~vEL~v~~i~VLs~a~~~~~Pi~~k 142 (373)
++||++++++++++|. .++|++.+
T Consensus 78 ~~El~~~~i~il~~~~-~~~P~~~~ 101 (102)
T cd04320 78 DVELHIEKIYVVSEAA-EPLPFQLE 101 (102)
T ss_pred cEEEEEEEEEEEecCC-CCCCCCCC
Confidence 8999999999999996 67887643
No 44
>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=99.68 E-value=4.4e-16 Score=124.16 Aligned_cols=80 Identities=43% Similarity=0.748 Sum_probs=69.4
Q ss_pred EEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh--hhccCCCCCcEEEEEEEeeCCCCCCccceEEEEeEE
Q 017368 49 QVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA--DLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKV 126 (373)
Q Consensus 49 ~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~--~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~i 126 (373)
.|+|+|||+++|.+| +++|++|||+++..++|||++++.. +..+.|+.||+|.|+|.+.+++ ...+++||+++++
T Consensus 1 ~v~v~Gwv~~~R~~g--~~~Fi~LrD~s~~~~lQvv~~~~~~~~~~~~~l~~gs~V~v~G~v~~~~-~~~~~~El~~~~i 77 (82)
T cd04318 1 EVTVNGWVRSVRDSK--KISFIELNDGSCLKNLQVVVDKELTNFKEILKLSTGSSIRVEGVLVKSP-GAKQPFELQAEKI 77 (82)
T ss_pred CEEEEEeEEEEEcCC--cEEEEEEECCCCccCEEEEEeCcccCHHHHhcCCCceEEEEEEEEEeCC-CCCCCEEEEEEEE
Confidence 378999999999999 8999999999997789999987643 3456799999999999999987 3468999999999
Q ss_pred EEeec
Q 017368 127 VDVGM 131 (373)
Q Consensus 127 ~VLs~ 131 (373)
++++.
T Consensus 78 ~il~~ 82 (82)
T cd04318 78 EVLGE 82 (82)
T ss_pred EEecC
Confidence 99863
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=1.3e-15 Score=122.25 Aligned_cols=79 Identities=29% Similarity=0.424 Sum_probs=67.6
Q ss_pred EEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh---hhccCCCCCcEEEEEEEeeCCCCC--CccceEEEE
Q 017368 49 QVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA---DLGQLVPTGTCVYVEGMLKNPPEG--TKQKIELRV 123 (373)
Q Consensus 49 ~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~---~~~~~L~~esvV~V~G~v~~~~~~--~~g~vEL~v 123 (373)
+|+|+|||+++|.+| +++|++|||++|. +|+++..+.. ++.+.|+.||+|.|+|++.+++.+ ..+++||++
T Consensus 1 ~V~v~Gwv~~~R~~g--~~~Fi~LrD~~~~--iQ~v~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~~~~~~~~~Ei~~ 76 (84)
T cd04323 1 RVKVFGWVHRLRSQK--KLMFLVLRDGTGF--LQCVLSKKLVTEFYDAKSLTQESSVEVTGEVKEDPRAKQAPGGYELQV 76 (84)
T ss_pred CEEEEEEEEEEecCC--CcEEEEEEcCCeE--EEEEEcCCcchhHHHHhcCCCcCEEEEEEEEEECCcccCCCCCEEEEE
Confidence 489999999999999 8999999999986 9999976532 345679999999999999998732 167899999
Q ss_pred eEEEEeec
Q 017368 124 QKVVDVGM 131 (373)
Q Consensus 124 ~~i~VLs~ 131 (373)
++++++|+
T Consensus 77 ~~i~vl~~ 84 (84)
T cd04323 77 DYLEIIGE 84 (84)
T ss_pred EEEEEEcC
Confidence 99999984
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=99.64 E-value=1.8e-15 Score=122.24 Aligned_cols=80 Identities=16% Similarity=0.297 Sum_probs=66.9
Q ss_pred EEEEEEEEEeeec-CCCceeEEEEEEcCCCCceEEEEEeCchhhh--ccCCCCCcEEEEEEEeeCCCCC---CccceEEE
Q 017368 49 QVRVGGWVKTGRE-QGKGSFAFLEVNDGSCPANLQVIVDKDVADL--GQLVPTGTCVYVEGMLKNPPEG---TKQKIELR 122 (373)
Q Consensus 49 ~V~V~GWV~siR~-~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~--~~~L~~esvV~V~G~v~~~~~~---~~g~vEL~ 122 (373)
+|+|+|||+++|+ +| +++|++|||++| ..+|||++++...+ .+.|+.||+|.|+|.+..++.. .+|++||.
T Consensus 1 ~V~v~Gwv~~~R~~~~--~~~Fi~LrD~~g-~~iQvv~~~~~~~~~~~~~l~~~s~V~V~G~v~~~~~~~~~~~~~~Ei~ 77 (86)
T cd04321 1 KVTLNGWIDRKPRIVK--KLSFADLRDPNG-DIIQLVSTAKKDAFSLLKSITAESPVQVRGKLQLKEAKSSEKNDEWELV 77 (86)
T ss_pred CEEEEEeEeeEeCCCC--ceEEEEEECCCC-CEEEEEECCCHHHHHHHhcCCCCcEEEEEEEEEeCCCcCCCCCCCEEEE
Confidence 4889999999999 57 899999999999 46999997654322 3568999999999999998731 23899999
Q ss_pred EeEEEEeec
Q 017368 123 VQKVVDVGM 131 (373)
Q Consensus 123 v~~i~VLs~ 131 (373)
++++++|++
T Consensus 78 ~~~i~il~~ 86 (86)
T cd04321 78 VDDIQTLNA 86 (86)
T ss_pred EEEEEEecC
Confidence 999999984
No 47
>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=99.63 E-value=1.9e-15 Score=121.24 Aligned_cols=79 Identities=30% Similarity=0.581 Sum_probs=68.1
Q ss_pred EEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh----hhccCCCCCcEEEEEEEeeCCCCC--CccceEEE
Q 017368 49 QVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA----DLGQLVPTGTCVYVEGMLKNPPEG--TKQKIELR 122 (373)
Q Consensus 49 ~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~----~~~~~L~~esvV~V~G~v~~~~~~--~~g~vEL~ 122 (373)
.|+|+|||+++|.+| +++|++|||+++. +|+|++.+.. .+...|+.||+|.|+|.+.+++.. ..+++||.
T Consensus 1 ~V~i~Gwv~~~R~~g--~~~Fi~Lrd~~~~--iQ~v~~~~~~~~~~~~~~~l~~~s~V~v~G~~~~~~~~~~~~~~~El~ 76 (85)
T cd04100 1 EVTLAGWVHSRRDHG--GLIFIDLRDGSGI--VQVVVNKEELGEFFEEAEKLRTESVVGVTGTVVKRPEGNLATGEIELQ 76 (85)
T ss_pred CEEEEEEEehhccCC--CEEEEEEEeCCee--EEEEEECCcChHHHHHHhCCCCCCEEEEEeEEEECCCCCCCCCCEEEE
Confidence 489999999999999 8999999999975 9999986532 245679999999999999998731 47899999
Q ss_pred EeEEEEeec
Q 017368 123 VQKVVDVGM 131 (373)
Q Consensus 123 v~~i~VLs~ 131 (373)
+++++++++
T Consensus 77 ~~~i~il~~ 85 (85)
T cd04100 77 AEELEVLSK 85 (85)
T ss_pred EeEEEEECC
Confidence 999999985
No 48
>PF01336 tRNA_anti-codon: OB-fold nucleic acid binding domain; InterPro: IPR004365 The OB-fold (oligonucleotide/oligosaccharide-binding fold) is found in all three kingdoms and its common architecture presents a binding face that has adapted to bind different ligands. The OB-fold is a five/six-stranded closed beta-barrel formed by 70-80 amino acid residues. The strands are connected by loops of varying length which form the functional appendages of the protein. The majority of OB-fold proteins use the same face for ligand binding or as an active site. Different OB-fold proteins use this 'fold-related binding face' to, variously, bind oligosaccharides, oligonucleotides, proteins, metal ions and catalytic substrates. This entry contains OB-fold domains that bind to nucleic acids []. It includes the anti-codon binding domain of lysyl, aspartyl, and asparaginyl-tRNA synthetases (See IPR004364 from INTERPRO). Aminoacyl-tRNA synthetases catalyse the addition of an amino acid to the appropriate tRNA molecule 6.1.1 from EC. This domain is found in RecG helicase involved in DNA repair. Replication factor A is a heterotrimeric complex, that contains a subunit in this family [, ]. This domain is also found at the C terminus of bacterial DNA polymerase III alpha chain.; GO: 0003676 nucleic acid binding; PDB: 1BBU_A 1KRS_A 1BBW_A 1KRT_A 1EQR_B 1IL2_B 1C0A_A 3KFU_A 1EOV_A 1ASY_A ....
Probab=99.06 E-value=1.2e-09 Score=83.83 Aligned_cols=73 Identities=27% Similarity=0.400 Sum_probs=61.3
Q ss_pred EEEEEEEEee-ecCCCceeEEEEEEcCCCCceEEEEEeCc-hhhhccCCCCCcEEEEEEEeeCCCCCCccceEEEEeEEE
Q 017368 50 VRVGGWVKTG-REQGKGSFAFLEVNDGSCPANLQVIVDKD-VADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVV 127 (373)
Q Consensus 50 V~V~GWV~si-R~~Gk~kl~FIdLRDgsg~~~IQvVv~~~-~~~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~i~ 127 (373)
|+|.|||.++ |..+ +++|+.|+|++|. +|+++..+ ...+.+.|+.|+.|.|.|++...+ .+++||.+++++
T Consensus 1 V~v~G~V~~~~~~~~--~~~~~~l~D~tg~--i~~~~~~~~~~~~~~~l~~g~~v~v~G~v~~~~---~~~~~l~~~~i~ 73 (75)
T PF01336_consen 1 VTVEGRVTSIRRSGG--KIVFFTLEDGTGS--IQVVFFNEEYERFREKLKEGDIVRVRGKVKRYN---GGELELIVPKIE 73 (75)
T ss_dssp EEEEEEEEEEEEEET--TEEEEEEEETTEE--EEEEEETHHHHHHHHTS-TTSEEEEEEEEEEET---TSSEEEEEEEEE
T ss_pred CEEEEEEEEEEcCCC--CEEEEEEEECCcc--EEEEEccHHhhHHhhcCCCCeEEEEEEEEEEEC---CccEEEEECEEE
Confidence 7899999999 5555 8999999999975 99999983 334567899999999999999875 236999999998
Q ss_pred Ee
Q 017368 128 DV 129 (373)
Q Consensus 128 VL 129 (373)
+|
T Consensus 74 ~l 75 (75)
T PF01336_consen 74 IL 75 (75)
T ss_dssp EE
T ss_pred EC
Confidence 76
No 49
>PRK09537 pylS pyrolysyl-tRNA synthetase; Reviewed
Probab=98.90 E-value=9.7e-09 Score=105.02 Aligned_cols=131 Identities=19% Similarity=0.218 Sum_probs=90.0
Q ss_pred CCHHHHHHHHH-----HHHHHHHHHHHHHhCCcEEEecCeeecCCCCCCCcceeeeeccccchhhhhhhhCCCCCChhhH
Q 017368 158 RTNTIAAVARI-----RNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADI 232 (373)
Q Consensus 158 Rt~~~~~il~i-----RS~i~~~iR~fL~~~gFiEV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~ 232 (373)
|.+.+++++.+ .+.+..++|+||...||.||.||+|+.... |..-.
T Consensus 190 r~~~~~~~~~~g~~~~~s~Le~aIR~~f~~~GF~EV~TPtLt~ee~------~e~~g----------------------- 240 (417)
T PRK09537 190 RKNDLKQMYEEDREDYLGKLERDITKFFVDRGFLEIKSPILIPAEY------IERMG----------------------- 240 (417)
T ss_pred cchhhHHhhccCCCCHHHHHHHHHHHHHHHCCCEEEECCeeecHHH------HHHhC-----------------------
Confidence 78899999999 999999999999999999999999974321 11000
Q ss_pred HHHHHHHHhhhhHHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccceee--ccH
Q 017368 233 EAAKLVIKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLT--VSG 310 (373)
Q Consensus 233 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~L~--~S~ 310 (373)
...+.+. ...-|. ++...+|. ..|
T Consensus 241 -------------------------------------------------~~~g~~i--~~~my~---ideel~LRpsLtP 266 (417)
T PRK09537 241 -------------------------------------------------IDNDTEL--SKQIFR---VDKNFCLRPMLAP 266 (417)
T ss_pred -------------------------------------------------CCCcccc--hhhhee---eCCceEehhhhHH
Confidence 0000000 000011 23456777 567
Q ss_pred HHHHHHHH-----hhcCceEEEecceecCCCCCCCCcCccccceeeecCCC--HHHHHHHHHHHHHhcc
Q 017368 311 QLQVETYA-----CAVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSD--LKVRWTYTAHCLVFEK 372 (373)
Q Consensus 311 ql~~e~~~-----~~~~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~~~--~~~~~~~~~~~~~~~~ 372 (373)
+|+..... ..=-|+|+||+|||+|.. +..|+.||+|++++....+ +.+++.+++.++..+.
T Consensus 267 sLlr~la~n~k~~~~P~RIFEIG~VFR~E~~-g~~hlrEf~Ql~~~iiGs~~~f~dL~~lleeLL~~LG 334 (417)
T PRK09537 267 GLYNYLRKLDRILPDPIKIFEIGPCYRKESD-GKEHLEEFTMVNFCQMGSGCTRENLENIIDDFLKHLG 334 (417)
T ss_pred HHHHHHHhhhhcccCCeeEEEEeceEecCCC-CCCCcceEEEEEEEEeCCchHHHHHHHHHHHHHHHCC
Confidence 77654321 112479999999999975 4679999999999998653 6777778888877654
No 50
>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=98.69 E-value=4.4e-08 Score=88.37 Aligned_cols=71 Identities=20% Similarity=0.177 Sum_probs=52.7
Q ss_pred CccceeeccHHHHHHHHHh-----hcCceEEEecceecCCCCC-CCCcCccccceeeecCCC------HHHHHHHHHHHH
Q 017368 301 ARQAFLTVSGQLQVETYAC-----AVSNVYTFGPTFRAEHSHT-SRHLAEFWMVEPEMAFSD------LKVRWTYTAHCL 368 (373)
Q Consensus 301 ~~~~~L~~S~ql~~e~~~~-----~~~~vy~~~p~fRaE~~~t-~rhl~EF~~le~e~~~~~------~~~~~~~~~~~~ 368 (373)
+...+|..|....+-.++. .--++|++|+|||.|.... .+|+.||+|+++++...+ +.+++..+..++
T Consensus 50 ~~~~~LR~s~~~~l~~~~~~n~~~~~~~lfeig~vfr~e~~~~~~~~~~ef~~l~~~~~g~~~~~~~~~~~~~~~~~~~l 129 (211)
T cd00768 50 EEDLYLRPTLEPGLVRLFVSHIRKLPLRLAEIGPAFRNEGGRRGLRRVREFTQLEGEVFGEDGEEASEFEELIELTEELL 129 (211)
T ss_pred CCEEEECCCCcHHHHHHHHhhcccCCEEEEEEcceeecCCCccccccceeEEEcCEEEEcCCchhHHHHHHHHHHHHHHH
Confidence 4567899999888765433 3468999999999997633 268899999999999864 355555666666
Q ss_pred Hhc
Q 017368 369 VFE 371 (373)
Q Consensus 369 ~~~ 371 (373)
..+
T Consensus 130 ~~l 132 (211)
T cd00768 130 RAL 132 (211)
T ss_pred HHc
Confidence 544
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=98.52 E-value=7.2e-07 Score=91.81 Aligned_cols=71 Identities=18% Similarity=0.148 Sum_probs=52.0
Q ss_pred Cccceee--ccHHHHHHHHH--h--h-cCceEEEecceecCCCCCCCCcCccccceeeecCC--CHHHHHHHHHHHHHhc
Q 017368 301 ARQAFLT--VSGQLQVETYA--C--A-VSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFS--DLKVRWTYTAHCLVFE 371 (373)
Q Consensus 301 ~~~~~L~--~S~ql~~e~~~--~--~-~~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~~--~~~~~~~~~~~~~~~~ 371 (373)
++..+|. ..|+|+.-... . . --|+|+||+|||+|... ..|+.||||++++.+.. ++.|+..+++.++..+
T Consensus 291 ee~lvLRPdLTPsLaR~La~N~~~l~~PqKIFEIGkVFR~E~~~-~thlREF~QL~~eIaG~~atfaDlealL~e~Lr~L 369 (453)
T TIGR02367 291 DKNFCLRPMLAPNLYNYLRKLDRALPDPIKIFEIGPCYRKESDG-KEHLEEFTMLNFCQMGSGCTRENLEAIIKDFLDHL 369 (453)
T ss_pred cCceEecccCHHHHHHHHHHhhhhccCCeeEEEEcCeEecCCCC-CCCcCeEEEEEEEEECCCCCHHHHHHHHHHHHHHC
Confidence 3446777 67787753211 1 1 35999999999999764 57999999999999864 4778877777777655
Q ss_pred c
Q 017368 372 K 372 (373)
Q Consensus 372 ~ 372 (373)
.
T Consensus 370 G 370 (453)
T TIGR02367 370 E 370 (453)
T ss_pred C
Confidence 3
No 52
>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=98.05 E-value=1.5e-05 Score=71.62 Aligned_cols=60 Identities=22% Similarity=0.244 Sum_probs=40.3
Q ss_pred ccceeeccHHHHH-HHHHhh-cC-------ceEEEecceecCCCCC--CCCcCccccceeeecCCCHHHHHH
Q 017368 302 RQAFLTVSGQLQV-ETYACA-VS-------NVYTFGPTFRAEHSHT--SRHLAEFWMVEPEMAFSDLKVRWT 362 (373)
Q Consensus 302 ~~~~L~~S~ql~~-e~~~~~-~~-------~vy~~~p~fRaE~~~t--~rhl~EF~~le~e~~~~~~~~~~~ 362 (373)
+..+|..+..... .++... .. ++|++|+|||+|...+ -..+-||+|.|.+....+ ++..+
T Consensus 55 ~~~~L~pt~~~~~~~~~~~~~~~~~~~LP~~~~~~g~~fR~E~~~~~gl~R~reF~~~e~~~f~~~-~~~~~ 125 (173)
T PF00587_consen 55 EEYCLRPTSEPGIYSLFKNEIRSSYRDLPLKLYQIGTCFRNEARPTRGLFRLREFTMDEMHIFCTP-EQSEE 125 (173)
T ss_dssp EEEEE-SSSHHHHHHHHHHHEEBHGGGSSEEEEEEEEEEBSSSSSBSTTTS-SEEEEEEEEEEESS-HHHHH
T ss_pred ccEEeccccccceeeeecceeeeccccCCeEEeecccccccccccccccceeeEeeeeceEEEeCC-cccHH
Confidence 3467887775433 344332 33 7999999999995333 567889999999987666 65555
No 53
>cd00773 HisRS-like_core Class II Histidinyl-tRNA synthetase (HisRS)-like catalytic core domain. HisRS is a homodimer. It is responsible for the attachment of histidine to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs. This domain is also found at the C-terminus of eukaryotic GCN2 protein kinase and at the N-terminus of the ATP phosphoribosyltransferase accessory subunit, HisZ. HisZ along with HisG catalyze the first reaction in histidine biosynthesis. HisZ is found only in a subset of bacteria and differs from HisRS in lacking a C-terminal anti-codon binding domain.
Probab=97.94 E-value=7.2e-05 Score=71.59 Aligned_cols=31 Identities=16% Similarity=0.395 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEecCeeecCC
Q 017368 167 RIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (373)
Q Consensus 167 ~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~ 197 (373)
+.|..+...+++.|.++||.||.||+|...+
T Consensus 3 ~~~~~l~~~l~~~f~~~Gy~~v~tP~le~~~ 33 (261)
T cd00773 3 ALRRYIEDTLREVFERYGYEEIDTPVFEYTE 33 (261)
T ss_pred HHHHHHHHHHHHHHHHcCCEEeeccceeeHH
Confidence 6788999999999999999999999998764
No 54
>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=97.86 E-value=7.4e-05 Score=69.44 Aligned_cols=31 Identities=16% Similarity=0.208 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEecCeeecCC
Q 017368 167 RIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (373)
Q Consensus 167 ~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~ 197 (373)
+++..|...+++.|.+.||.||.||.|....
T Consensus 3 ~~~~~l~~~~~~~~~~~G~~ei~~P~l~~~~ 33 (235)
T cd00670 3 ALWRALERFLDDRMAEYGYQEILFPFLAPTV 33 (235)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEECCeEcCHH
Confidence 5788999999999999999999999998764
No 55
>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=97.76 E-value=0.00018 Score=72.69 Aligned_cols=35 Identities=17% Similarity=0.206 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCC
Q 017368 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (373)
Q Consensus 163 ~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~ 197 (373)
-.-.+++..+...+++.|.++||.||.||+|...+
T Consensus 11 p~~~~~~~~i~~~i~~~f~~~Gy~~i~~P~le~~~ 45 (397)
T TIGR00442 11 PEEMIKWQYIEETIREVFELYGFKEIRTPIFEYTE 45 (397)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCeEecCcccchHH
Confidence 34567889999999999999999999999996643
No 56
>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=97.63 E-value=0.0002 Score=68.84 Aligned_cols=33 Identities=18% Similarity=0.192 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEecCeeecC
Q 017368 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (373)
Q Consensus 164 ~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~ 196 (373)
.-.+++..|.+.+++.|.+.||.||.||+|...
T Consensus 29 ~g~~l~~~i~~~~~~~~~~~G~~ei~~P~l~~~ 61 (255)
T cd00779 29 LGLRVLKKIENIIREEMNKIGAQEILMPILQPA 61 (255)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCEEEECCccCCH
Confidence 345789999999999999999999999999763
No 57
>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=97.60 E-value=0.0006 Score=64.00 Aligned_cols=66 Identities=14% Similarity=0.122 Sum_probs=48.3
Q ss_pred ceeeccH--HHHHHHHHh--hcCceEEEecceecCCCCCCCCcCccccceeeecCC--CHHHHHHHHHHHHHhc
Q 017368 304 AFLTVSG--QLQVETYAC--AVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFS--DLKVRWTYTAHCLVFE 371 (373)
Q Consensus 304 ~~L~~S~--ql~~e~~~~--~~~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~~--~~~~~~~~~~~~~~~~ 371 (373)
.+|+.|- .| ++.++. .--++|+||+|||.+... ..|++||+|+++.++.. ++.+++..+..++..+
T Consensus 60 ~~LR~sLlp~L-L~~l~~N~~~~~lFEiG~Vf~~~~~~-~~~~~E~~~l~~~~~g~~~df~dlkg~ve~ll~~l 131 (218)
T cd00496 60 LLLRTHTSAVQ-ARALAKLKPPIRIFSIGRVYRNDEID-ATHLPEFHQIEGLVVDKGLTFADLKGTLEEFAKEL 131 (218)
T ss_pred EEEeccCcHHH-HHHHHhcCCCeeEEEEcCeEECCCCC-CCcCCccEEEEEEEECCCCCHHHHHHHHHHHHHHh
Confidence 4565553 33 355554 567999999999998753 46788999999999986 7777777777666544
No 58
>PRK00037 hisS histidyl-tRNA synthetase; Reviewed
Probab=97.58 E-value=0.00053 Score=69.65 Aligned_cols=34 Identities=18% Similarity=0.257 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecC
Q 017368 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (373)
Q Consensus 163 ~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~ 196 (373)
..-.+.+..+...+|+.|.+.||.||.||+|...
T Consensus 15 p~~~~~~~~i~~~i~~~~~~~Gy~ei~tP~le~~ 48 (412)
T PRK00037 15 PEESAKWQYVEDTIREVFERYGFSEIRTPIFEYT 48 (412)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCeEeeccccchH
Confidence 3455788899999999999999999999999654
No 59
>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=97.53 E-value=0.00013 Score=70.13 Aligned_cols=37 Identities=27% Similarity=0.362 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHHHhCC--cEEEecCeeecCCCCCCCcceee
Q 017368 165 VARIRNALAYATHTFLQKQG--FLYIHTPIITTSDCEGAGEMFQV 207 (373)
Q Consensus 165 il~iRS~i~~~iR~fL~~~g--FiEV~TPiLt~~~~EGa~e~F~v 207 (373)
-.+++..|...+|+.|...| |.||.||+|.+. +||.+
T Consensus 31 g~~l~~~i~~~~~~~~~~~g~~~~~i~tP~i~~~------~mf~~ 69 (254)
T cd00774 31 GVELKNNIKSAWRKSFVLEEEDMLEIDSPIITPE------LMFKT 69 (254)
T ss_pred HHHHHHHHHHHHHHHHHhcCCCeEEEeccccCCH------HHhee
Confidence 35788999999999998885 999999999876 57766
No 60
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=97.48 E-value=0.00075 Score=71.93 Aligned_cols=34 Identities=12% Similarity=0.134 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecC
Q 017368 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (373)
Q Consensus 163 ~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~ 196 (373)
-.-++++..|...+|+.|.+.||.||.||+|.+.
T Consensus 44 P~g~~~~~~i~~~i~~~~~~~G~~ei~~P~l~~~ 77 (565)
T PRK09194 44 PLGLRVLRKIENIVREEMNKIGAQEVLMPALQPA 77 (565)
T ss_pred ccHHHHHHHHHHHHHHHHHHcCCEEEECcccCcH
Confidence 3456889999999999999999999999999854
No 61
>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=97.47 E-value=0.00075 Score=66.29 Aligned_cols=33 Identities=33% Similarity=0.449 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHhCCcEEEecCeeecCC
Q 017368 165 VARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (373)
Q Consensus 165 il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~ 197 (373)
-.+++..|...+++.+.+.||.||.||.|...+
T Consensus 29 g~~l~~~l~~~~~~~~~~~Gy~ev~tP~l~~~~ 61 (298)
T cd00771 29 GAIIRNELEDFLRELQRKRGYQEVETPIIYNKE 61 (298)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEEEECCeecCHH
Confidence 357889999999999999999999999997654
No 62
>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=97.41 E-value=0.0015 Score=63.26 Aligned_cols=32 Identities=9% Similarity=0.174 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHhCCcEEEecCeeecCC
Q 017368 166 ARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (373)
Q Consensus 166 l~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~ 197 (373)
.+++..|...+++.+.+.||.||.||.|....
T Consensus 32 ~~i~~~I~~~i~~~~~~~G~~ev~~P~l~~~~ 63 (264)
T cd00772 32 KAILDKIENVLDKMFKEHGAQNALFPFFILAS 63 (264)
T ss_pred HHHHHHHHHHHHHHHHHcCCeEEECCeeccHH
Confidence 46889999999999999999999999998754
No 63
>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=97.35 E-value=0.0014 Score=69.57 Aligned_cols=33 Identities=30% Similarity=0.324 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEecCeeecC
Q 017368 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (373)
Q Consensus 164 ~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~ 196 (373)
.-.+++..|...+|+.+.+.||.||.||+|...
T Consensus 198 ~g~~~~~~i~~~~~~~~~~~G~~ev~tP~l~~~ 230 (563)
T TIGR00418 198 KGATIRNLLEDFVRQKQIKYGYMEVETPIMYDL 230 (563)
T ss_pred cHHHHHHHHHHHHHHHHHHcCCEEEECCccCCH
Confidence 456789999999999999999999999999754
No 64
>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=97.33 E-value=0.00086 Score=69.15 Aligned_cols=36 Identities=22% Similarity=0.355 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCCC
Q 017368 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDC 198 (373)
Q Consensus 163 ~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~~ 198 (373)
....+++.++++.+++.+.+.||.||.||.|.+...
T Consensus 170 p~g~~l~~aL~~~~~~~~~~~G~~~v~~P~lv~~~~ 205 (418)
T TIGR00414 170 NDGAKLERALINFMLDLLEKNGYQEIYPPYLVNEES 205 (418)
T ss_pred cHHHHHHHHHHHHHHHHHHHcCCEEEeCCccccHHH
Confidence 356789999999999999999999999999987653
No 65
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=97.33 E-value=0.0008 Score=71.54 Aligned_cols=35 Identities=29% Similarity=0.314 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCC
Q 017368 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (373)
Q Consensus 163 ~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~ 197 (373)
-.-.+++..|...+++.+.+.||.||.||+|....
T Consensus 203 p~~~~~~~~l~~~~~~~~~~~Gy~ev~tP~le~~~ 237 (575)
T PRK12305 203 PKGAIIRREIEDYLRKEHLKRGYEFVYTPHIGKSD 237 (575)
T ss_pred ccHHHHHHHHHHHHHHHHHHcCCEEEECCccCCHH
Confidence 34568899999999999999999999999997653
No 66
>cd04489 ExoVII_LU_OBF ExoVII_LU_OBF: A subfamily of OB folds corresponding to the N-terminal OB-fold domain of Escherichia coli exodeoxyribonuclease VII (ExoVII) large subunit. E. coli ExoVII is composed of two non-identical subunits. E. coli ExoVII is a single-strand-specific exonuclease which degrades ssDNA from both 3-prime and 5-prime ends. ExoVII plays a role in methyl-directed mismatch repair in vivo. ExoVII may also guard the genome from mutagenesis by removing excess ssDNA, since the build up of ssDNA would lead to SOS induction and PolIV-dependent mutagenesis.
Probab=97.29 E-value=0.0035 Score=48.68 Aligned_cols=73 Identities=18% Similarity=0.269 Sum_probs=57.3
Q ss_pred EEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh-hhccCCCCCcEEEEEEEeeCCCCCCccceEEEEeEEE
Q 017368 50 VRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVV 127 (373)
Q Consensus 50 V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~-~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~i~ 127 (373)
++|.|-|.++|..++ +++|+.|.|.++. +.+++-.+.. .+...|..|+.|.|.|.+.... ..+.+.|.++++.
T Consensus 2 ~~v~g~v~~i~~tk~-g~~~~~L~D~~~~--i~~~~f~~~~~~~~~~l~~g~~v~v~g~v~~~~--~~~~~~l~v~~i~ 75 (78)
T cd04489 2 VWVEGEISNLKRPSS-GHLYFTLKDEDAS--IRCVMWRSNARRLGFPLEEGMEVLVRGKVSFYE--PRGGYQLIVEEIE 75 (78)
T ss_pred EEEEEEEecCEECCC-cEEEEEEEeCCeE--EEEEEEcchhhhCCCCCCCCCEEEEEEEEEEEC--CCCEEEEEEEEEE
Confidence 678999999987444 5999999999975 9999887643 2445789999999999998642 1356888888764
No 67
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=97.29 E-value=0.0012 Score=70.87 Aligned_cols=36 Identities=25% Similarity=0.271 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCC
Q 017368 162 IAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (373)
Q Consensus 162 ~~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~ 197 (373)
+-.-.+++..|...+++.+...||.||.||+|....
T Consensus 266 lp~~~~~~~~i~~~~~~~~~~~Gy~ei~tP~le~~~ 301 (638)
T PRK00413 266 HPKGWTIRRELERYIRRKLRKAGYQEVKTPQILDRE 301 (638)
T ss_pred cccHHHHHHHHHHHHHHHHHHCCCEEEECCeeCCHH
Confidence 345568899999999999999999999999997553
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=97.29 E-value=0.0022 Score=68.71 Aligned_cols=33 Identities=12% Similarity=0.196 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEecCeeecC
Q 017368 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (373)
Q Consensus 164 ~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~ 196 (373)
.-++++..|.+.+|+.|.+.||.||.||.|.+.
T Consensus 45 ~g~rv~~~I~~~i~~~~~~~G~~ei~~P~l~~~ 77 (568)
T TIGR00409 45 LGLRVLKKVENIVREEMNKDGAIEVLLPALQPA 77 (568)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCEEEECCccchH
Confidence 456889999999999999999999999999874
No 69
>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=97.25 E-value=0.00087 Score=64.61 Aligned_cols=34 Identities=9% Similarity=0.096 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCC
Q 017368 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (373)
Q Consensus 164 ~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~ 197 (373)
.-.+++.+|...+++.+.+.||.||.||.|...+
T Consensus 30 ~g~~l~~~l~~~~~~~~~~~G~~ev~~P~l~~~~ 63 (261)
T cd00778 30 YGYAIWENIQKILDKEIKETGHENVYFPLLIPES 63 (261)
T ss_pred cHHHHHHHHHHHHHHHHHHcCCEEEECCccccHH
Confidence 3458899999999999999999999999998764
No 70
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=97.21 E-value=0.0015 Score=70.62 Aligned_cols=32 Identities=19% Similarity=0.317 Sum_probs=28.4
Q ss_pred HHHHHHHHHHHHHHHHhCCcEEEecCeeecCC
Q 017368 166 ARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (373)
Q Consensus 166 l~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~ 197 (373)
..++..|...+++.+.+.||.||.||+|....
T Consensus 274 ~~~~~~i~~~~~~~~~~~G~~~v~tP~l~~~~ 305 (639)
T PRK12444 274 QIIRNELEAFLREIQKEYNYQEVRTPFMMNQE 305 (639)
T ss_pred HHHHHHHHHHHHHHHHHcCCEEEECCccCCHH
Confidence 46777899999999999999999999998653
No 71
>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=97.21 E-value=0.0056 Score=49.55 Aligned_cols=75 Identities=24% Similarity=0.191 Sum_probs=58.3
Q ss_pred EEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhh----hccCCCCCcEEEEEEEeeCCCCCCccceEEEEeE
Q 017368 50 VRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD----LGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQK 125 (373)
Q Consensus 50 V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~----~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~ 125 (373)
|++.|||.++...+ .-.=+.|.|+||. |-+.+...... ....+..|++|.|.|.+..- .+...|.+..
T Consensus 2 v~~vG~V~~~~~~~--~~~~~tL~D~TG~--I~~~~W~~~~~~~~~~~~~~~~g~~v~v~G~v~~~----~g~~ql~i~~ 73 (95)
T cd04478 2 VTLVGVVRNVEEQS--TNITYTIDDGTGT--IEVRQWLDDDNDDSSEVEPIEEGTYVRVFGNLKSF----QGKKSIMAFS 73 (95)
T ss_pred EEEEEEEEeeeEcc--cEEEEEEECCCCc--EEEEEeCCCCCcccccccccccCCEEEEEEEEccc----CCeeEEEEEE
Confidence 78999999999887 3444689999986 99988765432 34568999999999999764 3677888888
Q ss_pred EEEeecC
Q 017368 126 VVDVGMV 132 (373)
Q Consensus 126 i~VLs~a 132 (373)
+..+...
T Consensus 74 i~~v~d~ 80 (95)
T cd04478 74 IRPVTDF 80 (95)
T ss_pred EEEeCCc
Confidence 8766643
No 72
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=97.19 E-value=0.0031 Score=65.06 Aligned_cols=49 Identities=18% Similarity=0.154 Sum_probs=36.0
Q ss_pred CceEEEecceecCCCCCCCCcCccccceeeecCCCH----HHHHHHHHHHHHhc
Q 017368 322 SNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDL----KVRWTYTAHCLVFE 371 (373)
Q Consensus 322 ~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~~~~----~~~~~~~~~~~~~~ 371 (373)
-|.|++|++||.|.....|-- ||+|+++|+-..+- -++|.++..+++.+
T Consensus 103 ~R~~y~g~vfR~e~~q~GR~R-ef~Q~g~EiiG~~~~~aD~Evi~l~~~~l~~l 155 (430)
T CHL00201 103 QRLWYSGPMFRYERPQSGRQR-QFHQLGIEFIGSIDARADTEVIHLAMQIFNEL 155 (430)
T ss_pred eEEEEEcceecCCCCcCCccc-eeEEeceEEECCCChhhHHHHHHHHHHHHHHc
Confidence 388999999999998877754 99999999976541 24455555555443
No 73
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=97.13 E-value=0.0017 Score=67.08 Aligned_cols=34 Identities=18% Similarity=0.300 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHHHH-hCCcEEEecCeeecCC
Q 017368 164 AVARIRNALAYATHTFLQ-KQGFLYIHTPIITTSD 197 (373)
Q Consensus 164 ~il~iRS~i~~~iR~fL~-~~gFiEV~TPiLt~~~ 197 (373)
...++..++++.+++.+. +.||.||.||.|.+..
T Consensus 168 ~ga~L~~aL~~~~~~~~~~~~G~~ev~~P~lv~~~ 202 (425)
T PRK05431 168 DGARLERALIQFMLDLHTEEHGYTEVIPPYLVNEE 202 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCEEEeccccccHH
Confidence 556899999999999998 9999999999998754
No 74
>PLN02530 histidine-tRNA ligase
Probab=97.10 E-value=0.0035 Score=65.71 Aligned_cols=34 Identities=21% Similarity=0.272 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecC
Q 017368 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (373)
Q Consensus 163 ~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~ 196 (373)
-.-...|..|...+++.|...||-||.||+|-..
T Consensus 81 p~~~~~~~~i~~~~~~~~~~~Gy~~I~tP~lE~~ 114 (487)
T PLN02530 81 PEDMRLRNWLFDHFREVSRLFGFEEVDAPVLESE 114 (487)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCEeccccccchH
Confidence 4456789999999999999999999999999763
No 75
>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=97.09 E-value=0.0012 Score=64.99 Aligned_cols=34 Identities=26% Similarity=0.399 Sum_probs=30.8
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCC
Q 017368 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (373)
Q Consensus 164 ~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~ 197 (373)
...+++.+|.+.+++.+.+.||.||.||.|.+..
T Consensus 50 ~g~~l~~~l~~~~~~~~~~~G~~ev~~P~l~~~~ 83 (297)
T cd00770 50 DGALLERALINFALDFLTKRGFTPVIPPFLVRKE 83 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCEEEECcccccHH
Confidence 4568999999999999999999999999998764
No 76
>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=97.08 E-value=0.0029 Score=62.47 Aligned_cols=34 Identities=18% Similarity=0.246 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCC
Q 017368 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (373)
Q Consensus 164 ~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~ 197 (373)
.-.+.+..+...+++.|.++||.||+||+|-...
T Consensus 6 ~~~~~~~~i~~~l~~~~~~~Gy~~i~tP~le~~~ 39 (314)
T TIGR00443 6 EEAARKEEIERQLQDVFRSWGYQEIITPTLEYLD 39 (314)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCeeccCcchhhHH
Confidence 3457889999999999999999999999997653
No 77
>PLN02908 threonyl-tRNA synthetase
Probab=97.06 E-value=0.0022 Score=69.99 Aligned_cols=35 Identities=29% Similarity=0.226 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCC
Q 017368 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (373)
Q Consensus 163 ~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~ 197 (373)
-.-.+++..|+..+|+.+.+.||.||.||.|....
T Consensus 318 P~g~~i~~~l~~~~~~~~~~~G~~ev~tP~l~~~~ 352 (686)
T PLN02908 318 PHGARIYNKLMDFIREQYWERGYDEVITPNIYNMD 352 (686)
T ss_pred chHHHHHHHHHHHHHHHHHHcCCEEEECCccccHH
Confidence 34578999999999999999999999999997653
No 78
>PRK12293 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=97.06 E-value=0.0051 Score=60.24 Aligned_cols=33 Identities=21% Similarity=0.386 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEecCeeecC
Q 017368 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (373)
Q Consensus 164 ~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~ 196 (373)
.-...+..+...+++.|...||-||+||+|-..
T Consensus 17 ~e~~~~~~i~~~l~~vf~~~Gy~~I~tP~lE~~ 49 (281)
T PRK12293 17 KSAKLKREIENVASEILYENGFEEIVTPFFSYH 49 (281)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCeEeeccceeeh
Confidence 445688889999999999999999999999654
No 79
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=97.02 E-value=0.004 Score=64.52 Aligned_cols=32 Identities=13% Similarity=0.173 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHhCCcEEEecCeeecC
Q 017368 165 VARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (373)
Q Consensus 165 il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~ 196 (373)
-.+++..|...+|+-|.+.||-||.||.|.+.
T Consensus 46 g~~i~~~i~~~i~~~~~~~G~~ev~~P~l~~~ 77 (439)
T PRK12325 46 GLKVLKKIENIVREEQNRAGAIEILMPTIQPA 77 (439)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEEEECCccccH
Confidence 46899999999999999999999999999865
No 80
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=97.01 E-value=0.0021 Score=67.26 Aligned_cols=44 Identities=18% Similarity=-0.001 Sum_probs=34.5
Q ss_pred ceEEEecceecCCCCCC--CCcCccccceeeecCCCHHHHHHHHHHH
Q 017368 323 NVYTFGPTFRAEHSHTS--RHLAEFWMVEPEMAFSDLKVRWTYTAHC 367 (373)
Q Consensus 323 ~vy~~~p~fRaE~~~t~--rhl~EF~~le~e~~~~~~~~~~~~~~~~ 367 (373)
++|+++++||.|.+ +. -=..||+|.|.+.++++.++....+..+
T Consensus 133 rl~q~~~vfR~E~~-~rgl~R~rEF~~~E~h~~~~~~eea~~e~~~~ 178 (477)
T PRK08661 133 LYNQWVNVVRWETK-TRPFLRTREFLWQEGHTAHATEEEAEEETLEM 178 (477)
T ss_pred HHhcccceeeCCCC-CCCcceeeeEEEcceeeeeCCHHHHHHHHHHH
Confidence 68999999999998 43 2456999999999999987776633333
No 81
>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional
Probab=97.00 E-value=0.0035 Score=65.80 Aligned_cols=69 Identities=14% Similarity=0.171 Sum_probs=46.5
Q ss_pred ccceeeccHHHHH-HHHH-hh--cCceEEEecceecCCCCCCCCcCccccceeeecCC--CHHHHHHHHHHHHHhc
Q 017368 302 RQAFLTVSGQLQV-ETYA-CA--VSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFS--DLKVRWTYTAHCLVFE 371 (373)
Q Consensus 302 ~~~~L~~S~ql~~-e~~~-~~--~~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~~--~~~~~~~~~~~~~~~~ 371 (373)
++.-|.....-.. .+++ .+ =-++|+||+|||+|..+ ..|+.||++++..++.. ++-+++.+++.++..+
T Consensus 327 ~~~~LR~~~T~~~~r~l~~~~~~p~rlFeiGrVFR~e~~d-~~~l~Ef~ql~~~i~G~~~~f~elkg~l~~ll~~l 401 (489)
T PRK04172 327 KRLVLRTHTTALSARYLASRPEPPQKYFSIGRVFRPDTID-ATHLPEFYQLEGIVMGEDVSFRDLLGILKEFYKRL 401 (489)
T ss_pred hccccccCChHHHHHHHHhcCCCCeEEEEecceEcCCCCC-cccCCchheEEEEEEeCCCCHHHHHHHHHHHHHHh
Confidence 4455554443222 2333 22 24999999999999865 35789999999999875 4556666777776654
No 82
>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=96.96 E-value=0.0079 Score=47.48 Aligned_cols=72 Identities=14% Similarity=0.180 Sum_probs=55.8
Q ss_pred EEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh-hhccCCCCCcEEEEEEEeeCCCCCCccceEEEEeEEEE
Q 017368 50 VRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVD 128 (373)
Q Consensus 50 V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~-~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~i~V 128 (373)
|.|.|=|.+.+..| +=+|+.|+|+.+ .|.|++-.... +....+..|+-|.|.|.+.- + .|.+.|.+.++++
T Consensus 1 v~v~GeVs~~~~~~--GHvyfsLkD~~a--~i~cv~f~~~~~~~~~~l~~Gd~V~v~G~v~~-~---~G~~ql~v~~i~~ 72 (73)
T cd04487 1 VHIEGEVVQIKQTS--GPTIFTLRDETG--TVWAAAFEEAGVRAYPEVEVGDIVRVTGEVEP-R---DGQLQIEVESLEV 72 (73)
T ss_pred CEEEEEEeccccCC--CCEEEEEEcCCE--EEEEEEEchhccCCcCCCCCCCEEEEEEEEec-C---CeEEEEEEeeEEE
Confidence 56889998775544 578899999875 49998865432 23345789999999999886 3 6899999999987
Q ss_pred e
Q 017368 129 V 129 (373)
Q Consensus 129 L 129 (373)
+
T Consensus 73 ~ 73 (73)
T cd04487 73 L 73 (73)
T ss_pred C
Confidence 5
No 83
>PRK12292 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=96.94 E-value=0.0063 Score=61.93 Aligned_cols=34 Identities=15% Similarity=0.191 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecC
Q 017368 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (373)
Q Consensus 163 ~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~ 196 (373)
..-.+.|..+...+++.|.++||.||.||+|-..
T Consensus 14 p~~~~~~~~i~~~l~~~f~~~Gy~~i~tP~lE~~ 47 (391)
T PRK12292 14 PEEARKIEEIRRRLLDLFRRWGYEEVITPTLEYL 47 (391)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCceeeCcchhhH
Confidence 4455788999999999999999999999999643
No 84
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=96.84 E-value=0.013 Score=48.75 Aligned_cols=87 Identities=16% Similarity=0.218 Sum_probs=66.7
Q ss_pred ehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhhh-c-cCCCCCcEEEEEEEe
Q 017368 31 LIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADL-G-QLVPTGTCVYVEGML 108 (373)
Q Consensus 31 ~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~-~-~~L~~esvV~V~G~v 108 (373)
.|++.++ ..+.-+.|.|.|=|.+.+.+++ +-+|++|+|+.. .|+|++-...... . ..++.|+-|.|.|.+
T Consensus 10 ~ik~~le-----~~~~~~~vwV~GEIs~~~~~~~-gh~YftLkD~~a--~i~~~~~~~~~~~i~~~~l~~G~~V~v~g~~ 81 (99)
T PF13742_consen 10 YIKDLLE-----RDPPLPNVWVEGEISNLKRHSS-GHVYFTLKDEEA--SISCVIFRSRARRIRGFDLKDGDKVLVRGRV 81 (99)
T ss_pred HHHHHHh-----cCCCcCCEEEEEEEeecEECCC-ceEEEEEEcCCc--EEEEEEEHHHHhhCCCCCCCCCCEEEEEEEE
Confidence 4555553 2333489999999999999544 689999999774 6999998765332 2 468999999999999
Q ss_pred eCCCCCCccceEEEEeEEE
Q 017368 109 KNPPEGTKQKIELRVQKVV 127 (373)
Q Consensus 109 ~~~~~~~~g~vEL~v~~i~ 127 (373)
.--+ ..|.+.+.+.+|+
T Consensus 82 ~~y~--~~G~~sl~v~~i~ 98 (99)
T PF13742_consen 82 SFYE--PRGSLSLIVEDID 98 (99)
T ss_pred EEEC--CCcEEEEEEEEeE
Confidence 8765 3678999998875
No 85
>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional
Probab=96.83 E-value=0.004 Score=65.51 Aligned_cols=48 Identities=23% Similarity=0.208 Sum_probs=38.7
Q ss_pred CceEEEecceecCCCCCCCCcCccccceeeecCCC--HHHHHHHHHHHHHh
Q 017368 322 SNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSD--LKVRWTYTAHCLVF 370 (373)
Q Consensus 322 ~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~~~--~~~~~~~~~~~~~~ 370 (373)
-|+|.||.|||+|..+ ..|++||+|+|..+...+ +.+++.+++.+++.
T Consensus 358 ~k~fsigrVfR~d~~D-atH~~eFhQ~Eg~vi~~~~s~~~L~~~l~~f~~~ 407 (494)
T PTZ00326 358 KKYFSIDRVFRNETLD-ATHLAEFHQVEGFVIDRNLTLGDLIGTIREFFRR 407 (494)
T ss_pred ceEEecCCEecCCCCC-CCcCceeEEEEEEEEeCCCCHHHHHHHHHHHHHh
Confidence 4999999999999987 469999999999988654 56666666666654
No 86
>PF13393 tRNA-synt_His: Histidyl-tRNA synthetase; PDB: 3HRI_E 3HRK_A 3LC0_A 1Z7N_A 1Z7M_D 3NET_A 1H4V_B 3OD1_A 4E51_B 3RAC_A ....
Probab=96.81 E-value=0.01 Score=57.91 Aligned_cols=34 Identities=21% Similarity=0.376 Sum_probs=25.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecC
Q 017368 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (373)
Q Consensus 163 ~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~ 196 (373)
..-.+.+..+...+++.|.++||.+|+||+|...
T Consensus 7 ~~~~~~~~~i~~~l~~~f~~~Gy~~i~~P~le~~ 40 (311)
T PF13393_consen 7 PEEARKRERIESKLREVFERHGYEEIETPLLEYY 40 (311)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTT-EE-B--SEEEH
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCEEEECCeEeec
Confidence 3456788999999999999999999999999765
No 87
>cd04483 hOBFC1_like hOBFC1_like: A subfamily of OB folds similar to that found in human OB fold containing protein 1 (hOBFC1). Members of this group belong to the Replication protein A subunit 2 (RPA2) family of OB folds. RPA is a nuclear ssDNA binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). The OB fold domain of RPA2 has dual roles in ssDNA binding and trimerization.
Probab=96.81 E-value=0.014 Score=47.98 Aligned_cols=68 Identities=21% Similarity=0.325 Sum_probs=51.8
Q ss_pred EEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh---------------------hhccCCCCCcEEEEEEEeeC
Q 017368 52 VGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA---------------------DLGQLVPTGTCVYVEGMLKN 110 (373)
Q Consensus 52 V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~---------------------~~~~~L~~esvV~V~G~v~~ 110 (373)
|.|+|.+++... ...-+.|.|+||. |-|++..... .....+..|++|.|.|.+..
T Consensus 2 ivG~V~sv~~~~--~~~~~tLdDgTG~--Ie~~~W~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~G~vvrV~G~i~~ 77 (92)
T cd04483 2 ILGTVVSRRERE--TFYSFGVDDGTGV--VNCVCWKNLSYAEVSSRSDAARILKSALMALKQAKVLEIGDLLRVRGSIRT 77 (92)
T ss_pred eEEEEEEEEecC--CeEEEEEecCCce--EEEEEEcCcCcccccccccccccccccccccccccccCCCCEEEEEEEEec
Confidence 689999999888 5566789999995 9999875432 23345899999999999987
Q ss_pred CCCCCccceEEEEeEEE
Q 017368 111 PPEGTKQKIELRVQKVV 127 (373)
Q Consensus 111 ~~~~~~g~vEL~v~~i~ 127 (373)
=. +...|.++.+.
T Consensus 78 fr----g~~ql~i~~~~ 90 (92)
T cd04483 78 YR----GEREINASVVY 90 (92)
T ss_pred cC----CeeEEEEEEEE
Confidence 53 55667766553
No 88
>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=96.79 E-value=0.0021 Score=67.20 Aligned_cols=45 Identities=20% Similarity=0.169 Sum_probs=34.7
Q ss_pred ceEEEecceecCCCCCC--CCcCccccceeeecCCCHHHHHHHHHHH
Q 017368 323 NVYTFGPTFRAEHSHTS--RHLAEFWMVEPEMAFSDLKVRWTYTAHC 367 (373)
Q Consensus 323 ~vy~~~p~fRaE~~~t~--rhl~EF~~le~e~~~~~~~~~~~~~~~~ 367 (373)
++|+++++||.|.+.+. -=..||+|.|.+.+|++.++....+..+
T Consensus 127 r~~q~~~vfR~E~~~~~gl~R~rEF~~~e~h~~~~~~e~a~~e~~~~ 173 (472)
T TIGR00408 127 KINQWVNVFRYETKHTRPFLRTREFTWQEAHTAHATAEEAEEQVLRA 173 (472)
T ss_pred HHhheeeeecCCCCCCCCcceeeeeehhhhhhhhCCHHHHHHHHHHH
Confidence 68999999999998642 1246999999999999988776633333
No 89
>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=96.72 E-value=0.0081 Score=57.94 Aligned_cols=50 Identities=16% Similarity=0.177 Sum_probs=37.7
Q ss_pred cCceEEEecceecCCCCCCCCcCccccceeeecCC--CHHHHHHHHHHHHHhc
Q 017368 321 VSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFS--DLKVRWTYTAHCLVFE 371 (373)
Q Consensus 321 ~~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~~--~~~~~~~~~~~~~~~~ 371 (373)
=-++|++|.|||.|..+ ..|+++|.|+|.-.+.- ++.++...++.+++.+
T Consensus 102 p~kif~iG~VyR~D~~D-~th~~~f~Qleg~~~~~~~~f~~Lk~~l~~l~~~l 153 (247)
T PF01409_consen 102 PIKIFEIGKVYRRDEID-ATHLPEFHQLEGLVVDKNVTFEDLKGTLEELLKEL 153 (247)
T ss_dssp SEEEEEEEEEESSSCSB-SSBESEEEEEEEEEEETTE-HHHHHHHHHHHHHHH
T ss_pred CeEEEecCceEecCCcc-cccCccceeEeeEEEecccchhHHHHHHHHHHHHH
Confidence 47899999999999977 46999999999877654 4566666555555443
No 90
>PLN02972 Histidyl-tRNA synthetase
Probab=96.70 E-value=0.012 Score=64.94 Aligned_cols=35 Identities=14% Similarity=0.208 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhCCcEEEecCeeec
Q 017368 161 TIAAVARIRNALAYATHTFLQKQGFLYIHTPIITT 195 (373)
Q Consensus 161 ~~~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~ 195 (373)
.+-.-..+|..|...+++.|..+||.||+||+|-.
T Consensus 336 ~lP~e~~~re~I~~~L~~vFk~hGy~eI~TPvfE~ 370 (763)
T PLN02972 336 FAKEQMAIREKAFSIITSVFKRHGATALDTPVFEL 370 (763)
T ss_pred CCHHHHHHHHHHHHHHHHHHHHcCCEEccCCcccc
Confidence 34556788999999999999999999999999864
No 91
>PRK12420 histidyl-tRNA synthetase; Provisional
Probab=96.70 E-value=0.013 Score=60.30 Aligned_cols=34 Identities=18% Similarity=0.277 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecC
Q 017368 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (373)
Q Consensus 163 ~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~ 196 (373)
-.-...+..+...+++.|...||.||.||+|-..
T Consensus 15 p~~~~~~~~i~~~l~~~f~~~Gy~~i~tP~lE~~ 48 (423)
T PRK12420 15 PEEQVLRNKIKRALEDVFERYGCKPLETPTLNMY 48 (423)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCEeccccccchH
Confidence 3445778889999999999999999999999765
No 92
>TIGR00468 pheS phenylalanyl-tRNA synthetase, alpha subunit. Most phenylalanyl-tRNA synthetases are heterodimeric, with 2 alpha (pheS) and 2 beta (pheT) subunits. This model describes the alpha subunit, which shows some similarity to class II aminoacyl-tRNA ligases. Mitochondrial phenylalanyl-tRNA synthetase is a single polypeptide chain, active as a monomer, and similar to this chain rather than to the beta chain, but excluded from this model. An interesting feature of the alignment of all sequences captured by this model is a deep split between non-spirochete bacterial examples and all other examples; supporting this split is a relative deletion of about 50 residues in the former set between two motifs well conserved throughout the alignment.
Probab=96.67 E-value=0.019 Score=56.59 Aligned_cols=66 Identities=20% Similarity=0.235 Sum_probs=40.5
Q ss_pred cceeeccHHH-HHHHHHhhc---CceEEEecceecCCCCCCCCcCccccceeeecC--CCHHHHHHHHHHHHH
Q 017368 303 QAFLTVSGQL-QVETYACAV---SNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAF--SDLKVRWTYTAHCLV 369 (373)
Q Consensus 303 ~~~L~~S~ql-~~e~~~~~~---~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~--~~~~~~~~~~~~~~~ 369 (373)
...|+.|--- .++.+.... -++|++|.|||.+..+ ..|++||++++.-.+- +++.++.-.++.++.
T Consensus 128 ~~vLRtsl~p~ll~~l~~N~~~pirlFEiGrVfr~d~~d-~~~~pef~ql~gl~~~~~~~f~dLKg~le~ll~ 199 (294)
T TIGR00468 128 RLLLRTHTTAVQLRTMEENEKPPIRIFSPGRVFRNDTVD-ATHLPEFHQVEGLVIDKNVSFTNLKGFLEEFLK 199 (294)
T ss_pred CcceecccHHHHHHHHHhcCCCCceEEEecceEEcCCCC-CccCChhhEEEEEEECCCCCHHHHHHHHHHHHH
Confidence 4456555422 334444433 4999999999998753 4678899999877642 244444444444443
No 93
>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=96.62 E-value=0.014 Score=44.74 Aligned_cols=72 Identities=24% Similarity=0.416 Sum_probs=52.2
Q ss_pred EEEEEEeee----cCCCceeEEEEEEcCCCCceEEEEEeCchh-hhccCCCCCcEEEEEEEeeCCCCCCccceEEEEeEE
Q 017368 52 VGGWVKTGR----EQGKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKV 126 (373)
Q Consensus 52 V~GWV~siR----~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~-~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~i 126 (373)
+.|.|.+++ +.|+ .++|+.|.|++|. +.+++-.+.. .+...+..|..|.|.|++... .+.++|.+.++
T Consensus 2 i~g~v~~~~~~~~k~g~-~~~~~~l~D~tg~--~~~~~f~~~~~~~~~~l~~g~~v~v~G~v~~~----~~~~~l~~~~i 74 (84)
T cd04485 2 VAGLVTSVRRRRTKKGK-RMAFVTLEDLTGS--IEVVVFPETYEKYRDLLKEDALLLVEGKVERR----DGGLRLIAERI 74 (84)
T ss_pred EEEEEEEeEEEEcCCCC-EEEEEEEEeCCCe--EEEEECHHHHHHHHHHhcCCCEEEEEEEEEec----CCceEEEeecc
Confidence 566675543 2332 5899999999986 9999876542 245568999999999999764 25688888876
Q ss_pred EEee
Q 017368 127 VDVG 130 (373)
Q Consensus 127 ~VLs 130 (373)
..+.
T Consensus 75 ~~~~ 78 (84)
T cd04485 75 EDLE 78 (84)
T ss_pred ccHH
Confidence 5543
No 94
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=96.55 E-value=0.018 Score=59.81 Aligned_cols=49 Identities=27% Similarity=0.331 Sum_probs=37.1
Q ss_pred CceEEEecceecCCCCCCCCcCccccceeeecCCCH----HHHHHHHHHHHHhc
Q 017368 322 SNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDL----KVRWTYTAHCLVFE 371 (373)
Q Consensus 322 ~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~~~~----~~~~~~~~~~~~~~ 371 (373)
-|.|.+||+||.|+....|-- ||||+++|..-.+- -+++.++..++..+
T Consensus 102 ~k~yy~g~vfRyErPQ~GR~R-qF~Q~g~E~iG~~~~~~DAEvi~l~~~~l~~l 154 (429)
T COG0124 102 LKLYYFGPVFRYERPQKGRYR-QFYQFGVEVIGSDSPDADAEVIALAVEILEAL 154 (429)
T ss_pred eeEEEecceecCCCCCCCCce-eeEEcCeEEeCCCCcccCHHHHHHHHHHHHHc
Confidence 488999999999999888876 99999999976542 23444555555443
No 95
>PRK12421 ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=96.52 E-value=0.023 Score=58.08 Aligned_cols=35 Identities=14% Similarity=0.252 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCC
Q 017368 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (373)
Q Consensus 163 ~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~ 197 (373)
-.-.+.+..|...+++.|...||-||+||+|-...
T Consensus 18 p~e~~~~~~i~~~l~~~f~~~Gy~~I~tP~~E~~e 52 (392)
T PRK12421 18 PEEAQKIERLRRRLLDLFASRGYQLVMPPLIEYLE 52 (392)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCEEeeCcchhhHH
Confidence 34457888999999999999999999999997543
No 96
>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=96.49 E-value=0.057 Score=41.70 Aligned_cols=61 Identities=15% Similarity=0.237 Sum_probs=48.1
Q ss_pred eeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEEEeeCCCCCCccceEEEEeEEEEeecC
Q 017368 66 SFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMV 132 (373)
Q Consensus 66 kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~i~VLs~a 132 (373)
.++++.|.|++|. +.+++-.+.......+..|..|.|.|.+... .+..++.+.++..+...
T Consensus 19 ~~~~~~l~D~tg~--i~~~~f~~~~~~~~~l~~g~~v~v~G~v~~~----~~~~~l~~~~i~~l~~~ 79 (83)
T cd04492 19 PYLALTLQDKTGE--IEAKLWDASEEDEEKFKPGDIVHVKGRVEEY----RGRLQLKIQRIRLVTEE 79 (83)
T ss_pred cEEEEEEEcCCCe--EEEEEcCCChhhHhhCCCCCEEEEEEEEEEe----CCceeEEEEEEEECCcc
Confidence 6899999999996 9999876443334568999999999999763 35688988888766644
No 97
>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain
Probab=96.45 E-value=0.013 Score=61.55 Aligned_cols=48 Identities=23% Similarity=0.200 Sum_probs=38.5
Q ss_pred CceEEEecceecCCCCCCCCcCccccceeeecC--CCHHHHHHHHHHHHHh
Q 017368 322 SNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAF--SDLKVRWTYTAHCLVF 370 (373)
Q Consensus 322 ~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~--~~~~~~~~~~~~~~~~ 370 (373)
-++|.+|.|||+|..+. .|++||.|+|--.+- +++.+++-+++.+++.
T Consensus 343 ~k~fsigrVfR~d~iDa-tH~~eFhQ~EG~vvd~~~t~~~L~g~l~~f~~~ 392 (492)
T PLN02853 343 KRYFSIDRVFRNEAVDR-THLAEFHQVEGLVCDRGLTLGDLIGVLEDFFSR 392 (492)
T ss_pred cEEEeccceecCCCCCc-ccCccceeEEEEEEeCCCCHHHHHHHHHHHHHH
Confidence 38999999999999874 699999999976663 4677777777776654
No 98
>PRK00488 pheS phenylalanyl-tRNA synthetase subunit alpha; Validated
Probab=96.44 E-value=0.015 Score=58.69 Aligned_cols=46 Identities=15% Similarity=0.115 Sum_probs=33.9
Q ss_pred ceEEEecceecCCCCCCCCcCccccceeeecC--CCHHHHHHHHHHHHH
Q 017368 323 NVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAF--SDLKVRWTYTAHCLV 369 (373)
Q Consensus 323 ~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~--~~~~~~~~~~~~~~~ 369 (373)
++|++|.|||.+..+ .+|.++|.|+|.=.+. +++.++...++.+++
T Consensus 187 rif~~G~VyR~D~~D-atH~~~FhQleglvvd~~vtf~dLK~~L~~fl~ 234 (339)
T PRK00488 187 RIIAPGRVYRNDSDD-ATHSPMFHQVEGLVVDKNISFADLKGTLEDFLK 234 (339)
T ss_pred EEEEeeeEEEcCCCC-cccCcceeeEEEEEEeCCCCHHHHHHHHHHHHH
Confidence 899999999999765 5699999999986665 345555554444444
No 99
>PLN02837 threonine-tRNA ligase
Probab=96.42 E-value=0.012 Score=63.47 Aligned_cols=34 Identities=18% Similarity=0.277 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCC
Q 017368 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (373)
Q Consensus 164 ~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~ 197 (373)
.-.+++.+|...+++...++||.||.||.|....
T Consensus 245 ~G~~l~~~L~~~~~~~~~~~G~~~v~tP~l~~~~ 278 (614)
T PLN02837 245 KGAIVRHIIEDSWKKMHFEHGYDLLYTPHVAKAD 278 (614)
T ss_pred hHHHHHHHHHHHHHHHHHHCCCEEEECCccCCHH
Confidence 4578999999999999999999999999998754
No 100
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=96.36 E-value=0.015 Score=62.15 Aligned_cols=33 Identities=18% Similarity=0.169 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEecCeeecC
Q 017368 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (373)
Q Consensus 164 ~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~ 196 (373)
.-.++|..|...+|+.+.+.||.||.||.|...
T Consensus 166 ~G~~i~~~L~~~~r~~~~~~Gy~eV~TP~i~~~ 198 (545)
T PRK14799 166 KGQTIRNELIAFMREINDSMGYQEVYTSHVFKT 198 (545)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCeEEECCccchH
Confidence 457899999999999999999999999998544
No 101
>cd03524 RPA2_OBF_family RPA2_OBF_family: A family of oligonucleotide binding (OB) folds with similarity to the OB fold of the single strand (ss) DNA-binding domain (DBD)-D of human RPA2 (also called RPA32). RPA2 is a subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). RPA contains six OB folds, which are involved in ssDNA binding and in trimerization. The ssDNA binding mechanism is believed to be multistep and to involve conformational change. This family also includes OB folds similar to those found in Escherichia coli SSB, the wedge domain of E. coli RecG (a branched-DNA-specific helicase), E. coli ssDNA specific exodeoxyribonuclease VII large subunit, Pyroco
Probab=96.35 E-value=0.038 Score=40.52 Aligned_cols=68 Identities=24% Similarity=0.436 Sum_probs=51.3
Q ss_pred EEEEEEeeecCC--CceeEEEEEEcCC-CCceEEEEEeCchh-hhccCCCCCcEEEEEEEeeCCCCCCccceEEEEeEE
Q 017368 52 VGGWVKTGREQG--KGSFAFLEVNDGS-CPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKV 126 (373)
Q Consensus 52 V~GWV~siR~~G--k~kl~FIdLRDgs-g~~~IQvVv~~~~~-~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~i 126 (373)
+.|.|.+++... + .++++.|.|++ +. +.+++..+.. .+...+..|+.|.|.|.+... .+...+.+.++
T Consensus 2 v~g~v~~~~~~~~~~-~~~~~~l~D~~~~~--i~~~~~~~~~~~~~~~~~~g~~v~v~g~v~~~----~~~~~l~~~~~ 73 (75)
T cd03524 2 IVGIVVAVEEIRTEG-KVLIFTLTDGTGGT--IRVTLFGELAEELENLLKEGQVVYIKGKVKKF----RGRLQLIVESI 73 (75)
T ss_pred eEEEEEeecccccCC-eEEEEEEEcCCCCE--EEEEEEchHHHHHHhhccCCCEEEEEEEEEec----CCeEEEEeeee
Confidence 678888887654 3 68999999999 64 9999887643 234568999999999999764 25677777654
No 102
>COG0016 PheS Phenylalanyl-tRNA synthetase alpha subunit [Translation, ribosomal structure and biogenesis]
Probab=96.35 E-value=0.0072 Score=60.77 Aligned_cols=64 Identities=22% Similarity=0.354 Sum_probs=45.0
Q ss_pred ceeeccHHHHHHHHHhh---cCceEEEecceecCCCCCCCCcCccccceeeec-----CCCHHHHHH-HHHHHH
Q 017368 304 AFLTVSGQLQVETYACA---VSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMA-----FSDLKVRWT-YTAHCL 368 (373)
Q Consensus 304 ~~L~~S~ql~~e~~~~~---~~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~-----~~~~~~~~~-~~~~~~ 368 (373)
+-=|.........+... =-|++.+|.|||.|..+. .|++||.|+|-=.. |.+|..+++ +++.+.
T Consensus 172 lLRTHTs~vq~R~l~~~~~~P~k~~~~grvyR~D~~Da-THs~~FhQiEGlvvd~~~s~~~Lkg~L~~f~~~~f 244 (335)
T COG0016 172 LLRTHTSPVQARTLAENAKIPIKIFSPGRVYRNDTVDA-THSPEFHQIEGLVVDKNISFADLKGTLEEFAKKFF 244 (335)
T ss_pred eecccCcHhhHHHHHhCCCCCceEecccceecCCCCCc-ccchheeeeEEEEEeCCccHHHHHHHHHHHHHHhc
Confidence 44456666666666543 358999999999998885 59999999995332 445556665 666655
No 103
>cd04490 PolII_SU_OBF PolII_SU_OBF: A subfamily of OB folds corresponding to the OB fold found in Pyrococcus abyssi DNA polymerase II (PolII) small subunit. PolII is a family D DNA polymerase, having a 3-prime to 5-prime exonuclease activity. P. abyssi PolII is heterodimeric. The large subunit appears to be the polymerase, and the small subunit may be the exonuclease. The small subunit contains a calcineurin-like phosphatase superfamily domain C-terminal to this OB-fold domain.
Probab=96.22 E-value=0.058 Score=43.10 Aligned_cols=68 Identities=18% Similarity=0.264 Sum_probs=52.0
Q ss_pred EEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh---hhccCCCCCcEEEEEEEeeCCCCCCccceEEEEeEE
Q 017368 50 VRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA---DLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKV 126 (373)
Q Consensus 50 V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~---~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~i 126 (373)
|.++|-|.++|..++|+- |+.|-|.+|. +.+++-++.. .+...|..+.+|.|+|.+.... + .+.+.++
T Consensus 2 v~i~GiI~~v~~TK~g~~-~~~leD~~G~--~Ev~~F~~~~~~~~~~~~l~~d~~v~v~g~v~~~~-----~-~l~~~~I 72 (79)
T cd04490 2 VSIIGMVNDVRSTKNGHR-IVELEDTTGR--ITVLLTKDKEELFEEAEDILPDEVIGVSGTVSKDG-----G-LIFADEI 72 (79)
T ss_pred EEEEEEEeEEEEcCCCCE-EEEEECCCCE--EEEEEeCchhhhhhhhhhccCCCEEEEEEEEecCC-----C-EEEEEEe
Confidence 678999999985555456 9999999986 9999887653 3456788999999999995521 2 6666654
No 104
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=96.21 E-value=0.013 Score=62.49 Aligned_cols=99 Identities=15% Similarity=0.208 Sum_probs=72.4
Q ss_pred cchhhcccccCcceehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch-hhhccC
Q 017368 17 NDDAVQRHQFSDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV-ADLGQL 95 (373)
Q Consensus 17 ~~~~~~~~~~~~r~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~-~~~~~~ 95 (373)
.|..+|.-.--.|+.|.+|- ..+|++|+|.|-|..++.-+ +-.-+.|+|++|. +++-.-... ......
T Consensus 190 ~Y~~~~~~ke~~r~~i~~id-------~~ig~tV~I~GeV~qikqT~--GPTVFtltDetg~--i~aAAFe~aGvRAyP~ 258 (715)
T COG1107 190 RYREVQVEKELPRTLIDDLD-------EMIGKTVRIEGEVTQIKQTS--GPTVFTLTDETGA--IWAAAFEEAGVRAYPE 258 (715)
T ss_pred cchhhhhhhhcccccHHHHH-------hhcCceEEEEEEEEEEEEcC--CCEEEEEecCCCc--eehhhhccCCcccCCC
Confidence 45566666666678888885 37999999999999998888 5666789999997 887643321 112245
Q ss_pred CCCCcEEEEEEEeeCCCCCCccceEEEEeEEEEee
Q 017368 96 VPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVG 130 (373)
Q Consensus 96 L~~esvV~V~G~v~~~~~~~~g~vEL~v~~i~VLs 130 (373)
+..|++|.|.|.|..+. |.+-|.+..++.|.
T Consensus 259 IevGdiV~ViG~V~~r~----g~lQiE~~~me~L~ 289 (715)
T COG1107 259 IEVGDIVEVIGEVTRRD----GRLQIEIEAMEKLT 289 (715)
T ss_pred CCCCceEEEEEEEeecC----CcEEEeehhhHHhh
Confidence 88999999999998875 55555555555443
No 105
>PRK04173 glycyl-tRNA synthetase; Provisional
Probab=96.13 E-value=0.013 Score=61.27 Aligned_cols=32 Identities=19% Similarity=0.328 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHh--CCcEEEecCeeecCC
Q 017368 166 ARIRNALAYATHTFLQK--QGFLYIHTPIITTSD 197 (373)
Q Consensus 166 l~iRS~i~~~iR~fL~~--~gFiEV~TPiLt~~~ 197 (373)
..+|..|....|+.+.. .||.||.||+|.+..
T Consensus 38 ~~l~~~i~~~~r~~~~~~~~~~~ev~tp~i~~~~ 71 (456)
T PRK04173 38 VELKNNIKRAWWKSFVQEREDVVGIDSPIIMPPE 71 (456)
T ss_pred HHHHHHHHHHHHHHHHhccCCEEEEeccccCCHH
Confidence 47889999999999987 799999999998764
No 106
>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=95.95 E-value=0.075 Score=43.56 Aligned_cols=73 Identities=21% Similarity=0.297 Sum_probs=55.1
Q ss_pred EEEEEEEEeeecC-CCceeEEEEEEcCCCCceEEEEEeCch--h-hhccCCCCCcEEEEEEEeeCCCCCCccceEEEEeE
Q 017368 50 VRVGGWVKTGREQ-GKGSFAFLEVNDGSCPANLQVIVDKDV--A-DLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQK 125 (373)
Q Consensus 50 V~V~GWV~siR~~-Gk~kl~FIdLRDgsg~~~IQvVv~~~~--~-~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~ 125 (373)
+.|.|.|.+.+.+ .. +=+|+.|.|.++. |.+++-... . .....|..||-|.|.|.+..-. .|.+++
T Consensus 1 ~~v~GeVs~~~~~~~s-GH~yFtlkD~~~~--i~cv~f~~~g~~~~~~~~l~~Gd~V~v~G~v~~y~-------ql~ve~ 70 (91)
T cd04482 1 YRVTGKVVEEPRTIEG-GHVFFKISDGTGE--IDCAAYEPTKEFRDVVRLLIPGDEVTVYGSVRPGT-------TLNLEK 70 (91)
T ss_pred CEEEEEEeCCeecCCC-CCEEEEEECCCcE--EEEEEECcccccccccCCCCCCCEEEEEEEEecCC-------EEEEEE
Confidence 3689999988764 22 5688899998864 999876543 1 2345689999999999986532 589999
Q ss_pred EEEeecC
Q 017368 126 VVDVGMV 132 (373)
Q Consensus 126 i~VLs~a 132 (373)
+++++..
T Consensus 71 l~~~glg 77 (91)
T cd04482 71 LRVIRLA 77 (91)
T ss_pred EEECCCc
Confidence 9887764
No 107
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=95.85 E-value=0.049 Score=56.95 Aligned_cols=77 Identities=16% Similarity=0.229 Sum_probs=60.8
Q ss_pred CCcEEEEEEEEEeeecC----CCceeEEEEEEcCCCCceEEEEEeCchh-hhccCCCCCcEEEEEEEeeCCCCCCccceE
Q 017368 46 AGRQVRVGGWVKTGREQ----GKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEGTKQKIE 120 (373)
Q Consensus 46 igk~V~V~GWV~siR~~----Gk~kl~FIdLRDgsg~~~IQvVv~~~~~-~~~~~L~~esvV~V~G~v~~~~~~~~g~vE 120 (373)
.|+.|+|.|.|.++|.. |+ .++|+.|.|.+|. +.+++-++.. .+...|..+.+|.|+|++.... +.+.
T Consensus 279 ~~~~v~vaG~I~~ik~~~TKkG~-~maf~~leD~tG~--ie~vvFp~~y~~~~~~l~~~~~v~v~G~v~~~~----~~~~ 351 (449)
T PRK07373 279 EKTKVSAVVMLNEVKKIVTKKGD-PMAFLQLEDLSGQ--SEAVVFPKSYERISELLQVDARLIIWGKVDRRD----DQVQ 351 (449)
T ss_pred CCCEEEEEEEEEEeEecccCCCC-EEEEEEEEECCCC--EEEEECHHHHHHHHHHhccCCEEEEEEEEEecC----CeEE
Confidence 47899999999998754 33 5999999999997 9999987653 3456689999999999997642 4577
Q ss_pred EEEeEEEEe
Q 017368 121 LRVQKVVDV 129 (373)
Q Consensus 121 L~v~~i~VL 129 (373)
|.+.++.-+
T Consensus 352 liv~~i~~l 360 (449)
T PRK07373 352 LIVEDAEPI 360 (449)
T ss_pred EEEeEeecH
Confidence 888777544
No 108
>PRK12295 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=95.84 E-value=0.061 Score=54.80 Aligned_cols=27 Identities=22% Similarity=0.337 Sum_probs=23.9
Q ss_pred HHHHHHHHHHHhCCcEEEecCeeecCC
Q 017368 171 ALAYATHTFLQKQGFLYIHTPIITTSD 197 (373)
Q Consensus 171 ~i~~~iR~fL~~~gFiEV~TPiLt~~~ 197 (373)
.+...+++.|.++||.||.||++-...
T Consensus 9 ~i~~~i~~~f~~~Gy~~I~tP~lE~~e 35 (373)
T PRK12295 9 AAAEALLASFEAAGAVRVDPPILQPAE 35 (373)
T ss_pred HHHHHHHHHHHHcCCEEeeCCccccHH
Confidence 678889999999999999999997653
No 109
>PLN02678 seryl-tRNA synthetase
Probab=95.70 E-value=0.025 Score=59.06 Aligned_cols=35 Identities=29% Similarity=0.429 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEecCeeecCCC
Q 017368 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTSDC 198 (373)
Q Consensus 164 ~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~~ 198 (373)
...+++.++++.+++++.++||.||.||.|.....
T Consensus 172 ~ga~L~~AL~~y~ld~~~~~Gy~~V~~P~lv~~~~ 206 (448)
T PLN02678 172 AGVLLNQALINFGLAFLRKRGYTPLQTPFFMRKDV 206 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCEEEECcccccHHH
Confidence 45789999999999999999999999999987543
No 110
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=95.65 E-value=0.06 Score=58.34 Aligned_cols=33 Identities=21% Similarity=0.229 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEecCeeecC
Q 017368 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (373)
Q Consensus 164 ~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~ 196 (373)
.-.+++.+|...+++.+.+.||.+|.||.|...
T Consensus 225 ~G~~i~~~L~~~~~~~~~~~G~~~V~tP~~~~~ 257 (613)
T PRK03991 225 KGRLIRDLLEDYVYNLVVELGAMPVETPIMYDL 257 (613)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCEEEECCeecCh
Confidence 467899999999999999999999999988543
No 111
>PLN02788 phenylalanine-tRNA synthetase
Probab=95.56 E-value=0.098 Score=54.01 Aligned_cols=53 Identities=19% Similarity=0.263 Sum_probs=38.2
Q ss_pred Cccceee-ccHHHHHHHHHhhcCceEEEecceecCCCCCCCCcCccccceeeecC
Q 017368 301 ARQAFLT-VSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAF 354 (373)
Q Consensus 301 ~~~~~L~-~S~ql~~e~~~~~~~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~ 354 (373)
+...-|. ...-...++|..+-.+++..|.|||.|..+. .|.++|.|+|.-+.+
T Consensus 126 ~~~~lLRTHTSa~q~~~l~~~~~~~~~~g~VyRrD~iD~-tH~p~FhQ~EG~~v~ 179 (402)
T PLN02788 126 DAQTVLRCHTSAHQAELLRAGHTHFLVTGDVYRRDSIDA-THYPVFHQMEGVRVF 179 (402)
T ss_pred cCCccccCCCcHHHHHHHHhCCCcEEEEeeEeecCCCCc-ccCccceeEEEEEEe
Confidence 3444443 3333444555555679999999999999874 699999999988775
No 112
>PF10451 Stn1: Telomere regulation protein Stn1; InterPro: IPR018856 The budding yeast protein Stn1 is a DNA-binding protein which has specificity for telomeric DNA. Structural profiling has predicted an OB-fold []. This entry represents the N-terminal part of the molecule, which adopts the OB fold. Protection of telomeres by multiple proteins with OB-fold domains is conserved in eukaryotic evolution [].; PDB: 3KF6_A 3KF8_A.
Probab=95.56 E-value=0.12 Score=50.32 Aligned_cols=74 Identities=22% Similarity=0.207 Sum_probs=54.3
Q ss_pred cEEEEEEEEEeeecC----CCceeEEEEEEcCCCCceEEEEEeCchhh----hccCCCCCcEEEEEEEeeCCCCCCccce
Q 017368 48 RQVRVGGWVKTGREQ----GKGSFAFLEVNDGSCPANLQVIVDKDVAD----LGQLVPTGTCVYVEGMLKNPPEGTKQKI 119 (373)
Q Consensus 48 k~V~V~GWV~siR~~----Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~----~~~~L~~esvV~V~G~v~~~~~~~~g~v 119 (373)
+.|+|.|.|-.+.-. . +.+|+.|-|+||...|.|++...... -...+ .|.+|.|.|.+. .+..
T Consensus 67 ~~v~i~G~Vv~~~~~~~~~~--~~~~l~iDD~Sg~~~i~~~~~~~~~~~~~l~~~~~-~G~~V~VkG~vs------r~~~ 137 (256)
T PF10451_consen 67 RWVRIVGVVVGIDYKWIENE--DRIILTIDDSSGANTIECKCSKSSYLSMGLPINDL-IGKVVEVKGTVS------RNER 137 (256)
T ss_dssp -EEEEEEEEEEEEEEE-BBT--CEEEEEEE-SSCS-EEEEEEEHHHHHCCCHHCTT--TT-EEEEEEEEE------SSSE
T ss_pred EEEEEEEEEEEEEEEeeccc--ceEEEEEeCCCCceeEEEEEEcccccccCCCccCC-CCcEEEEEEEEc------cCcE
Confidence 469999999998755 5 68999999999933599999865321 12334 899999999998 2578
Q ss_pred EEEEeEEEEee
Q 017368 120 ELRVQKVVDVG 130 (373)
Q Consensus 120 EL~v~~i~VLs 130 (373)
||.++.+.++.
T Consensus 138 ql~ve~i~~~~ 148 (256)
T PF10451_consen 138 QLDVERIELVR 148 (256)
T ss_dssp EEEEEEEEEET
T ss_pred EEEEEEEEccC
Confidence 89999888765
No 113
>COG3111 Periplasmic protein with OB-fold [Function unknown]
Probab=95.48 E-value=0.13 Score=44.86 Aligned_cols=84 Identities=20% Similarity=0.247 Sum_probs=61.2
Q ss_pred cceehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEEE
Q 017368 28 DRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGM 107 (373)
Q Consensus 28 ~r~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~ 107 (373)
..+++++... -..+..|+|.|-| +|..|. =.| ..||+||. |+|.++.+.++ ...+.+.+-|.++|.
T Consensus 44 ~~~TV~~Ak~------~~Dda~V~l~GnI--v~qi~~--D~y-~FrD~sGe--I~VeIdd~~w~-g~tv~P~dkV~I~Ge 109 (128)
T COG3111 44 KVTTVDQAKT------LHDDAWVSLEGNI--VRQIGD--DRY-VFRDASGE--INVDIDDKVWN-GQTVTPKDKVRIQGE 109 (128)
T ss_pred ceeEHHHhhc------cccCCeEEEEeeE--EEeeCC--ceE-EEEcCCcc--EEEEecccccC-CcccCcccEEEEEeE
Confidence 3456665542 4568899999999 455553 244 58999995 99999876531 245899999999999
Q ss_pred eeCCCCCCccceEEEEeEEEEe
Q 017368 108 LKNPPEGTKQKIELRVQKVVDV 129 (373)
Q Consensus 108 v~~~~~~~~g~vEL~v~~i~VL 129 (373)
|-+-- ...||-|..|+.+
T Consensus 110 vDk~~----~~~eIdV~~I~k~ 127 (128)
T COG3111 110 VDKDW----NSVEIDVKHIEKL 127 (128)
T ss_pred EcCCC----ccceeEhhheEec
Confidence 98752 4688888887764
No 114
>KOG2784 consensus Phenylalanyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]
Probab=95.45 E-value=0.028 Score=57.05 Aligned_cols=47 Identities=26% Similarity=0.293 Sum_probs=38.2
Q ss_pred CceEEEecceecCCCCCCCCcCccccceeeecCC--CHHHHHHHHHHHHH
Q 017368 322 SNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFS--DLKVRWTYTAHCLV 369 (373)
Q Consensus 322 ~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~~--~~~~~~~~~~~~~~ 369 (373)
.+.|.|-.+||||-.+. -||+||.++|--.|-. +|-++|-++..++.
T Consensus 334 ~K~FSIDrVFRNEtvDa-THLAEFHQVEGviad~gltLgdLig~l~~ff~ 382 (483)
T KOG2784|consen 334 AKYFSIDRVFRNETVDA-THLAEFHQVEGVIADKGLTLGDLIGILMEFFT 382 (483)
T ss_pred ccccchhhhhhccccch-HHHHHHhhhceeeecCCCcHHHHHHHHHHHHh
Confidence 68999999999999986 4999999999888764 57888875555443
No 115
>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=95.35 E-value=0.14 Score=43.24 Aligned_cols=82 Identities=18% Similarity=0.220 Sum_probs=52.2
Q ss_pred cceehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEEE
Q 017368 28 DRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGM 107 (373)
Q Consensus 28 ~r~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~ 107 (373)
.-++++++.+ ...+..|+|.|.|-+.-..- + ..++|++|. |+|-++.+.+. ...++.++-|.|.|.
T Consensus 21 ~~~TV~~a~~------~~Dd~~V~L~G~Iv~~l~~d--~---Y~F~D~TG~--I~VeId~~~w~-g~~vt~~~~Vri~Ge 86 (103)
T PF04076_consen 21 TVTTVAQAKN------AKDDTPVTLEGNIVKQLGDD--K---YLFRDATGE--IEVEIDDDVWR-GQTVTPDDKVRISGE 86 (103)
T ss_dssp ----HHHHTT------S-SSEEEEEEEEEEEEEETT--E---EEEEETTEE--EEEE--GGGST-T----TTSEEEEEEE
T ss_pred CeEeHHHHhh------CcCCCeEEEEEEEEEEecCC--E---EEEECCCCc--EEEEEChhhcC-CcccCCCCEEEEEEE
Confidence 3356666653 35688999999985543322 2 458999985 99998876432 245789999999999
Q ss_pred eeCCCCCCccceEEEEeEEE
Q 017368 108 LKNPPEGTKQKIELRVQKVV 127 (373)
Q Consensus 108 v~~~~~~~~g~vEL~v~~i~ 127 (373)
|-+.- ...||.|.+|+
T Consensus 87 VDk~~----~~~~IdV~~I~ 102 (103)
T PF04076_consen 87 VDKDW----NKTEIDVDRIE 102 (103)
T ss_dssp EEEET----TEEEEEEEEEE
T ss_pred EeCCC----CceEEEEEEEE
Confidence 98643 46888888774
No 116
>PLN02320 seryl-tRNA synthetase
Probab=95.09 E-value=0.041 Score=58.21 Aligned_cols=38 Identities=32% Similarity=0.347 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHHHHhCCcEEEecCeeecCCC-CCCC
Q 017368 165 VARIRNALAYATHTFLQKQGFLYIHTPIITTSDC-EGAG 202 (373)
Q Consensus 165 il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~~-EGa~ 202 (373)
..++..++++.+++++.++||.||.||.|..... +|.+
T Consensus 232 ~a~Le~ALi~f~ld~~~~~Gy~eV~tP~lv~~~l~~~sG 270 (502)
T PLN02320 232 AVLLEMALVNWTLSEVMKKGFTPLTTPEIVRSSVVEKCG 270 (502)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEEEECCccchHHHHHhcC
Confidence 3457788999999999999999999999987654 4444
No 117
>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=95.06 E-value=0.34 Score=42.49 Aligned_cols=80 Identities=16% Similarity=0.208 Sum_probs=57.8
Q ss_pred ceehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhhhc-cCCCCCcEEEEEEE
Q 017368 29 RVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLG-QLVPTGTCVYVEGM 107 (373)
Q Consensus 29 r~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~-~~L~~esvV~V~G~ 107 (373)
-+++++... ...+..|+|.|.|.+.-... - ..+||++|. |+|-++.+. |. ..++.++-|.|.|.
T Consensus 45 ~~tV~~a~~------~~Ddt~V~L~G~Iv~~l~~d----~-Y~F~D~TG~--I~VeId~~~--w~G~~v~p~d~V~I~Ge 109 (126)
T TIGR00156 45 KMTVDFAKS------MHDGASVTLRGNIISHIGDD----R-YVFRDKSGE--INVVIPAAV--WNGREVQPKDMVNISGS 109 (126)
T ss_pred eEeHHHHhh------CCCCCEEEEEEEEEEEeCCc----e-EEEECCCCC--EEEEECHHH--cCCCcCCCCCEEEEEEE
Confidence 356666653 35688999999995543322 2 458999996 999987664 33 35789999999999
Q ss_pred eeCCCCCCccceEEEEeEEE
Q 017368 108 LKNPPEGTKQKIELRVQKVV 127 (373)
Q Consensus 108 v~~~~~~~~g~vEL~v~~i~ 127 (373)
|-+.- +..||-|.+|+
T Consensus 110 VDk~~----~~~~IdV~~I~ 125 (126)
T TIGR00156 110 LDKKS----APAEVDVTHIQ 125 (126)
T ss_pred ECCCC----CCeEEEEEEEE
Confidence 98642 45788887775
No 118
>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=94.87 E-value=0.083 Score=45.81 Aligned_cols=68 Identities=15% Similarity=0.116 Sum_probs=41.7
Q ss_pred CCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhhhcc--CCCCCcEEEEEEEeeCC
Q 017368 43 AGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQ--LVPTGTCVYVEGMLKNP 111 (373)
Q Consensus 43 ~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~--~L~~esvV~V~G~v~~~ 111 (373)
..+.|+.|.|.|.|.+++.... +-.++...+..+...++|.+..+...... .|+.|+.|.|.|++..-
T Consensus 63 ~kY~gK~i~vtG~V~~I~~~~~-~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~l~~G~~Vti~G~~~g~ 132 (144)
T PF12869_consen 63 KKYKGKIIEVTGTVSSIDKGFG-DNYVVLLGTENGFAGVQCYFSNDQEKRASVAKLKKGQKVTIKGICTGY 132 (144)
T ss_dssp HHHTT-EEEEEEEEEEEEE-ST-T-EEEEEE-TT-S-S--EEEEEEGGGHHHHHH--TTSEEEEEEE----
T ss_pred hhcCCCEEEEEEEEEEEEEcCC-CcEEEEccCCCCceeEEEEEccchhhhhhHhcCCCCCEEEEEEEEEee
Confidence 3568999999999999977332 45677777767767799998876533333 48999999999998653
No 119
>COG4085 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]
Probab=94.87 E-value=0.13 Score=48.05 Aligned_cols=75 Identities=23% Similarity=0.335 Sum_probs=57.6
Q ss_pred CCCCcEEEEEEEEEeee-cCCCceeEEEEEEcCCCCceEEEEEeCchhhhc------cCCCCCcEEEEEEEeeCCCCCCc
Q 017368 44 GLAGRQVRVGGWVKTGR-EQGKGSFAFLEVNDGSCPANLQVIVDKDVADLG------QLVPTGTCVYVEGMLKNPPEGTK 116 (373)
Q Consensus 44 ~~igk~V~V~GWV~siR-~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~------~~L~~esvV~V~G~v~~~~~~~~ 116 (373)
..+.+.|++.|-|.+.+ ..|. ++.|+.|.|++|. |-+++........ -.+..|.+|+|+|.+..=+
T Consensus 48 G~l~e~v~vkg~V~~~~n~~~~-gi~~l~lndgtGt--i~vva~~~tee~l~~n~~~p~~~eGe~veVtGrv~~yr---- 120 (204)
T COG4085 48 GRLNEEVTVKGEVTADQNAIGG-GIESLVLNDGTGT--ITVVASRSTEETLELNEGMPVTVEGEIVEVTGRVEEYR---- 120 (204)
T ss_pred ceeeccceeeeEEEeeeccccc-ceEEEEEECCCCc--EEEEEecChhHhHhhcCCCCccccCcEEEEEEEEEEeC----
Confidence 45677899999999997 4443 7999999999985 9988876543222 2456899999999998754
Q ss_pred cceEEEEeE
Q 017368 117 QKIELRVQK 125 (373)
Q Consensus 117 g~vEL~v~~ 125 (373)
|..||++.+
T Consensus 121 G~~eVkvnq 129 (204)
T COG4085 121 GSSEVKVNQ 129 (204)
T ss_pred CCceeeccC
Confidence 677887764
No 120
>PRK10053 hypothetical protein; Provisional
Probab=94.80 E-value=0.37 Score=42.46 Aligned_cols=80 Identities=20% Similarity=0.253 Sum_probs=57.6
Q ss_pred eehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEEEee
Q 017368 30 VLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLK 109 (373)
Q Consensus 30 ~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~ 109 (373)
+++.+... -..+..|+|.|.|- |..|.. - ..+||++|. |+|-++.+.+ ....++.++-|.|.|.|-
T Consensus 50 ~tV~~a~~------~~Dd~~V~L~G~Iv--~~lg~d--~-Y~F~D~tG~--I~VeID~~~w-~G~~v~p~~kV~I~GevD 115 (130)
T PRK10053 50 MTVEQAKT------MHDGATVSLRGNLI--DHKGDD--R-YVFRDKSGE--INVIIPAAVF-DGREVQPDQMININGSLD 115 (130)
T ss_pred EEHHHhhc------CcCCCeEEEEEEEE--EEeCCc--e-EEEECCCCc--EEEEeCHHHc-CCCcCCCCCEEEEEEEEC
Confidence 35665542 45688999999994 444522 2 358999996 9999987653 124589999999999998
Q ss_pred CCCCCCccceEEEEeEEE
Q 017368 110 NPPEGTKQKIELRVQKVV 127 (373)
Q Consensus 110 ~~~~~~~g~vEL~v~~i~ 127 (373)
+.- ...||-|.+|+
T Consensus 116 k~~----~~~~IdV~~i~ 129 (130)
T PRK10053 116 KKS----APPVVRVTHLQ 129 (130)
T ss_pred CCC----CCeEEEEEEEe
Confidence 642 45788888775
No 121
>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=94.69 E-value=0.23 Score=41.37 Aligned_cols=78 Identities=13% Similarity=0.171 Sum_probs=54.3
Q ss_pred CcEEEEEEEEEe---eecCC----CceeEEEEEEcCCCCceEEEEEeCch-hhhccCCCCCcEEEEEEEeeCCCCC----
Q 017368 47 GRQVRVGGWVKT---GREQG----KGSFAFLEVNDGSCPANLQVIVDKDV-ADLGQLVPTGTCVYVEGMLKNPPEG---- 114 (373)
Q Consensus 47 gk~V~V~GWV~s---iR~~G----k~kl~FIdLRDgsg~~~IQvVv~~~~-~~~~~~L~~esvV~V~G~v~~~~~~---- 114 (373)
...++|+|||.+ +|... .+++.-++|.|..|- .|++++..+. ..|...|..|+++.|.|--++...+
T Consensus 9 ~~~~~I~~rV~~k~~~~~f~~~~~~g~~~~~~l~De~~~-~I~~t~~~~~~~~f~~~l~eG~vy~i~~~~V~~a~~~y~~ 87 (104)
T cd04474 9 QNKWTIKARVTNKSDIRTWSNARGEGKLFSFDLLDEDGG-EIRATFFNDAVDKFYDLLEVGKVYYISKGSVKVANKKFNT 87 (104)
T ss_pred CCcEEEEEEEeeccccccccCCCCCcEEEEEEEEECCCC-EEEEEEehHHHHHhhcccccccEEEEeccEEeeccccCCC
Confidence 357999999974 34221 137889999999442 5999998765 3467789999999998654443211
Q ss_pred CccceEEEEeE
Q 017368 115 TKQKIELRVQK 125 (373)
Q Consensus 115 ~~g~vEL~v~~ 125 (373)
...++||....
T Consensus 88 ~~~~yeI~f~~ 98 (104)
T cd04474 88 LKNDYEITFNR 98 (104)
T ss_pred CCCcEEEEECC
Confidence 34678887764
No 122
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=94.59 E-value=0.14 Score=58.71 Aligned_cols=79 Identities=22% Similarity=0.294 Sum_probs=63.1
Q ss_pred CCcEEEEEEEEEeeecC--CCceeEEEEEEcCCCCceEEEEEeCchh-hhccCCCCCcEEEEEEEeeCCCCCCccceEEE
Q 017368 46 AGRQVRVGGWVKTGREQ--GKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEGTKQKIELR 122 (373)
Q Consensus 46 igk~V~V~GWV~siR~~--Gk~kl~FIdLRDgsg~~~IQvVv~~~~~-~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~ 122 (373)
.|+.|+|+|+|..++.. ++ +++|+.|-|.+|. +.+++-++.. .+...|..|.++.|+|++... .+.+.+.
T Consensus 952 ~~~~v~v~g~i~~~~~~~Tkk-Gmaf~~leD~~g~--~e~~ifp~~~~~~~~~l~~~~~~~v~g~v~~~----~~~~~~~ 1024 (1046)
T PRK05672 952 DGRRVRVAGVVTHRQRPGTAS-GVTFLTLEDETGM--VNVVVWPGLWERQRREALGARLLLVRGRVQNA----EGVRHLV 1024 (1046)
T ss_pred CCCEEEEEEEEEEEEEecCCC-ceEEEEEecCCCC--EEEEECHHHHHHHHHHhccCCEEEEEEEEEec----CCeEEEE
Confidence 57789999999988775 44 4999999999997 9999987753 244568999999999999864 2457888
Q ss_pred EeEEEEeec
Q 017368 123 VQKVVDVGM 131 (373)
Q Consensus 123 v~~i~VLs~ 131 (373)
++++.-+..
T Consensus 1025 ~~~i~~~~~ 1033 (1046)
T PRK05672 1025 ADRLEDLSP 1033 (1046)
T ss_pred EeeeechHH
Confidence 888865544
No 123
>COG5235 RFA2 Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [DNA replication, recombination, and repair]
Probab=94.46 E-value=0.32 Score=46.14 Aligned_cols=93 Identities=19% Similarity=0.222 Sum_probs=64.7
Q ss_pred CcceehhhhhcCCCCCCC---CC-C---cEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh---hhccCC
Q 017368 27 SDRVLIKSILTRPDGGAG---LA-G---RQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA---DLGQLV 96 (373)
Q Consensus 27 ~~r~~Ikdi~~~~~l~~~---~i-g---k~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~---~~~~~L 96 (373)
-+-++||.|+.|.....+ .+ + ..|++.|||+++..+- .-+|+.|.||+|. |-|-...... +..+.+
T Consensus 39 LrpvTIKQIl~~~qd~~d~~f~vd~~Ev~~V~fVGvvrni~~~t--tn~~~~iEDGTG~--Ievr~W~~~~~~~e~~~d~ 114 (258)
T COG5235 39 LRPVTIKQILSCDQDETDSTFLVDSAEVTNVQFVGVVRNIKTST--TNSMFVIEDGTGS--IEVRFWPGNSYEEEQCKDL 114 (258)
T ss_pred eeeeEHHHhhcccccccCCceeecceEEeeEEEEEEEEeeeecc--cceEEEEecCCce--EEEEecCCCchHHHhcccc
Confidence 456899999986432111 11 1 2589999999999999 5688899999997 8888876542 233456
Q ss_pred CCCcEEEEEEEeeCCCCCCccceEEEEeEEE
Q 017368 97 PTGTCVYVEGMLKNPPEGTKQKIELRVQKVV 127 (373)
Q Consensus 97 ~~esvV~V~G~v~~~~~~~~g~vEL~v~~i~ 127 (373)
..+-.|.|.|-++.= .|...|...-|.
T Consensus 115 ~~~~yvkV~G~lk~F----~GK~~I~~~~i~ 141 (258)
T COG5235 115 EEQNYVKVNGSLKTF----NGKRSISASHIS 141 (258)
T ss_pred ccccEEEEecceeee----CCeeEEehhhee
Confidence 677799999998764 245555554443
No 124
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=94.38 E-value=0.19 Score=58.24 Aligned_cols=80 Identities=20% Similarity=0.291 Sum_probs=61.7
Q ss_pred CCcEEEEEEEEEeeecCC--C-ceeEEEEEEcCCCCceEEEEEeCchh-hhccCCCCCcEEEEEEEeeCCCCCCccceEE
Q 017368 46 AGRQVRVGGWVKTGREQG--K-GSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEGTKQKIEL 121 (373)
Q Consensus 46 igk~V~V~GWV~siR~~G--k-~kl~FIdLRDgsg~~~IQvVv~~~~~-~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL 121 (373)
.|+.|+|.|.|.++|... + +.++|+.|.|.+|. +.+++-++.. .+...|..|.+|.|+|++..+. .+.+.+
T Consensus 990 ~~~~v~v~g~i~~~~~~~tk~G~~maf~~leD~~g~--~e~~vfp~~~~~~~~~l~~~~~~~v~g~v~~~~---~~~~~~ 1064 (1151)
T PRK06826 990 DGDKVIIGGIITEVKRKTTRNNEMMAFLTLEDLYGT--VEVIVFPKVYEKYRSLLNEDNIVLIKGRVSLRE---DEEPKL 1064 (1151)
T ss_pred CCcEEEEEEEEEEeEeeccCCCCeEEEEEEEECCCc--EEEEECHHHHHHHHHHhccCCEEEEEEEEEecC---CCceEE
Confidence 478999999999887542 1 14999999999997 9999987653 3456689999999999997542 245778
Q ss_pred EEeEEEEee
Q 017368 122 RVQKVVDVG 130 (373)
Q Consensus 122 ~v~~i~VLs 130 (373)
.+.++..+.
T Consensus 1065 ~~~~~~~l~ 1073 (1151)
T PRK06826 1065 ICEEIEPLV 1073 (1151)
T ss_pred EEeeeecHh
Confidence 888775554
No 125
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=94.32 E-value=0.18 Score=58.39 Aligned_cols=78 Identities=13% Similarity=0.166 Sum_probs=60.3
Q ss_pred CCcEEEEEEEEEeeecCC-C--ceeEEEEEEcCCCCceEEEEEeCchh-hhccCCCCCcEEEEEEEeeCCCCCCccceEE
Q 017368 46 AGRQVRVGGWVKTGREQG-K--GSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEGTKQKIEL 121 (373)
Q Consensus 46 igk~V~V~GWV~siR~~G-k--~kl~FIdLRDgsg~~~IQvVv~~~~~-~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL 121 (373)
.|++|+|.|.|.++|... | +.++|+.|.|.+|. +.+++-++.. .+...|..|.+|.|+|++.... +.+.|
T Consensus 999 ~~~~v~v~g~i~~~k~~~Tk~G~~maf~~leD~tg~--~e~vvFp~~y~~~~~~l~~~~~~~v~g~v~~~~----~~~~~ 1072 (1170)
T PRK07374 999 DKAKVSAIAMIPEMKQVTTRKGDRMAILQLEDLTGS--CEAVVFPKSYERLSDHLMTDTRLLVWAKVDRRD----DRVQL 1072 (1170)
T ss_pred CCCEEEEEEEEEEeEecccCCCCEEEEEEEEECCCC--EEEEECHHHHHHHHHHhccCCEEEEEEEEEecC----CeEEE
Confidence 478999999999886443 1 14999999999997 9999987653 2455689999999999997642 45678
Q ss_pred EEeEEEEe
Q 017368 122 RVQKVVDV 129 (373)
Q Consensus 122 ~v~~i~VL 129 (373)
.++++.-+
T Consensus 1073 ~~~~i~~l 1080 (1170)
T PRK07374 1073 IIDDCREI 1080 (1170)
T ss_pred EEeeeecH
Confidence 88777544
No 126
>PRK15491 replication factor A; Provisional
Probab=94.15 E-value=0.3 Score=49.96 Aligned_cols=92 Identities=22% Similarity=0.273 Sum_probs=68.4
Q ss_pred cceehhhhhcCCCCCCCCCCcEEEEEEEEEee-------ecCC-CceeEEEEEEcCCCCceEEEEEeCchhhhc--cCCC
Q 017368 28 DRVLIKSILTRPDGGAGLAGRQVRVGGWVKTG-------REQG-KGSFAFLEVNDGSCPANLQVIVDKDVADLG--QLVP 97 (373)
Q Consensus 28 ~r~~Ikdi~~~~~l~~~~igk~V~V~GWV~si-------R~~G-k~kl~FIdLRDgsg~~~IQvVv~~~~~~~~--~~L~ 97 (373)
.-+.|++|.. ..+.|.|.|+|.++ |+.| .+++.=+.|-|.||. +++++..+..+.. ..|.
T Consensus 56 ~~~kI~dL~~--------~~~~v~i~arVl~~~~~R~f~r~dGs~g~v~~~~v~DeTG~--ir~tlW~~~a~~~~~~~le 125 (374)
T PRK15491 56 DTTKIADINE--------SSSNVNFTAKVVSIFEPKEFNRNDGTTGRVGNIIVADETGS--IRLTLWDDLADLIKTGDIE 125 (374)
T ss_pred ccccHHHCCC--------CCCceEEEEEEeeccCCeeeecCCCCceEEEEEEEEcCCCe--EEEEEECchhhhhccCCcC
Confidence 3457888863 35789999999876 3334 336776899999996 9999998764322 4589
Q ss_pred CCcEEEEEEEeeCCCCCCccceEEEEeEEEEeecCC
Q 017368 98 TGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVD 133 (373)
Q Consensus 98 ~esvV~V~G~v~~~~~~~~g~vEL~v~~i~VLs~a~ 133 (373)
.|+++.|.|.+.+.- +.+||.+.+-..+.+++
T Consensus 126 ~G~v~~I~~~~~~~y----~g~Ei~i~~~~~i~~~~ 157 (374)
T PRK15491 126 VGKSLNISGYAKEGY----SGIEVNIGRYGGISESD 157 (374)
T ss_pred CCCEEEEeeeeccCc----ccEEEEeCCCceeeecc
Confidence 999999999855432 34899998887888775
No 127
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=93.95 E-value=0.24 Score=57.19 Aligned_cols=79 Identities=15% Similarity=0.257 Sum_probs=61.4
Q ss_pred CCcEEEEEEEEEeeecC----CCceeEEEEEEcCCCCceEEEEEeCchh-hhccCCCCCcEEEEEEEeeCCCCCCccceE
Q 017368 46 AGRQVRVGGWVKTGREQ----GKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEGTKQKIE 120 (373)
Q Consensus 46 igk~V~V~GWV~siR~~----Gk~kl~FIdLRDgsg~~~IQvVv~~~~~-~~~~~L~~esvV~V~G~v~~~~~~~~g~vE 120 (373)
.|+.|+|.|+|.++|.. |+ +++|+.|-|.+|. +.+++-++.. .+...|..|.+|.|+|++... .+...
T Consensus 942 ~~~~v~v~g~i~~~~~~~tk~g~-~maf~~leD~tg~--~e~~vFp~~y~~~~~~l~~~~~~~v~G~v~~~----~~~~~ 1014 (1107)
T PRK06920 942 KKKVQRAIVYITSVKVIRTKKGQ-KMAFITFCDQNDE--MEAVVFPETYIHFSDKLQEGAIVLVDGTIELR----NHKLQ 1014 (1107)
T ss_pred CCCEEEEEEEEEEeEeecCCCCC-eEEEEEEeeCCCc--EEEEECHHHHHHHHHHhccCCEEEEEEEEEec----CCcEE
Confidence 47799999999988533 33 6999999999997 9999987653 345668999999999999764 24567
Q ss_pred EEEeEEEEeec
Q 017368 121 LRVQKVVDVGM 131 (373)
Q Consensus 121 L~v~~i~VLs~ 131 (373)
+.++++.-+..
T Consensus 1015 ~~~~~i~~l~~ 1025 (1107)
T PRK06920 1015 WIVNGLYPLEE 1025 (1107)
T ss_pred EEEeecccHHH
Confidence 88887755543
No 128
>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=93.67 E-value=0.79 Score=38.25 Aligned_cols=68 Identities=24% Similarity=0.371 Sum_probs=49.2
Q ss_pred CCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEEEeeCCCCCCccceEEEE
Q 017368 44 GLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRV 123 (373)
Q Consensus 44 ~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v 123 (373)
.++|+.|++-|+|.+.+... +.+.+..| ..++|.+.... .+..+-+|+|.|+|... ..|.+
T Consensus 12 ~f~gk~V~ivGkV~~~~~~~------~~~~~~Dg-~~v~v~l~~~~-----~~~~~~~vEViG~V~~~-------~~I~~ 72 (101)
T cd04479 12 QFVGKTVRIVGKVEKVDGDS------LTLISSDG-VNVTVELNRPL-----DLPISGYVEVIGKVSPD-------LTIRV 72 (101)
T ss_pred hhCCCEEEEEEEEEEecCCe------EEEEcCCC-CEEEEEeCCCC-----CcccCCEEEEEEEECCC-------CeEEE
Confidence 57899999999999987542 45666655 36999987653 35778899999999743 34666
Q ss_pred eEEEEee
Q 017368 124 QKVVDVG 130 (373)
Q Consensus 124 ~~i~VLs 130 (373)
..+..++
T Consensus 73 ~~~~~~g 79 (101)
T cd04479 73 LSYIDFG 79 (101)
T ss_pred EEEEECC
Confidence 6554444
No 129
>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=93.62 E-value=0.72 Score=34.36 Aligned_cols=68 Identities=22% Similarity=0.234 Sum_probs=44.5
Q ss_pred EEEEEEeeecC---CCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEEEeeCCCCCCccceEEEEeEE
Q 017368 52 VGGWVKTGREQ---GKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKV 126 (373)
Q Consensus 52 V~GWV~siR~~---Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~i 126 (373)
+.|.|.+++.. |+ ++.-+.+.|++|. +.+++-.......+.++.|+.+.|.|++.... +.++|.-.++
T Consensus 2 i~~~V~~~~~~~~~~~-~~~~~~~~D~~g~--i~~~~F~~~~~~~~~~~~G~~~~v~Gkv~~~~----~~~qi~~P~~ 72 (75)
T cd04488 2 VEGTVVSVEVVPRRGR-RRLKVTLSDGTGT--LTLVFFNFQPYLKKQLPPGTRVRVSGKVKRFR----GGLQIVHPEY 72 (75)
T ss_pred EEEEEEEEEeccCCCc-cEEEEEEEcCCCE--EEEEEECCCHHHHhcCCCCCEEEEEEEEeecC----CeeEEeCCcE
Confidence 55666554321 22 5777889999885 99987652111245689999999999998642 4555554443
No 130
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=93.58 E-value=0.28 Score=56.86 Aligned_cols=80 Identities=21% Similarity=0.314 Sum_probs=62.5
Q ss_pred CCcEEEEEEEEEeeecCC--C-ceeEEEEEEcCCCCceEEEEEeCch-hhhccCCCCCcEEEEEEEeeCCCCCCccceEE
Q 017368 46 AGRQVRVGGWVKTGREQG--K-GSFAFLEVNDGSCPANLQVIVDKDV-ADLGQLVPTGTCVYVEGMLKNPPEGTKQKIEL 121 (373)
Q Consensus 46 igk~V~V~GWV~siR~~G--k-~kl~FIdLRDgsg~~~IQvVv~~~~-~~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL 121 (373)
.|+.|.+.|.|.++|... + +.++|+.|.|.+|. +.+++-++. ..+...|..|++|.|+|++.... +.+.|
T Consensus 976 ~g~~V~v~G~I~~vk~~~TKkG~~mafltLeD~TG~--iEvviFp~~ye~~~~~L~~g~iV~V~GkVe~~~----~~~ql 1049 (1135)
T PRK05673 976 GGSVVTVAGLVVSVRRRVTKRGNKMAIVTLEDLSGR--IEVMLFSEALEKYRDLLEEDRIVVVKGQVSFDD----GGLRL 1049 (1135)
T ss_pred cCceEEEEEEEEEEEecccCCCCeEEEEEEEeCCCc--EEEEECHHHHHHHHHHhccCCEEEEEEEEEecC----CeEEE
Confidence 478999999998886542 1 14999999999996 999998765 33556789999999999997642 56778
Q ss_pred EEeEEEEeec
Q 017368 122 RVQKVVDVGM 131 (373)
Q Consensus 122 ~v~~i~VLs~ 131 (373)
.++++.-+.+
T Consensus 1050 ii~~I~~L~~ 1059 (1135)
T PRK05673 1050 TAREVMDLEE 1059 (1135)
T ss_pred EEeecccHHH
Confidence 8887765544
No 131
>PRK00960 seryl-tRNA synthetase; Provisional
Probab=93.48 E-value=0.12 Score=55.09 Aligned_cols=35 Identities=14% Similarity=0.130 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHH-HHhCCcEEEecCeeecCCC
Q 017368 164 AVARIRNALAYATHTF-LQKQGFLYIHTPIITTSDC 198 (373)
Q Consensus 164 ~il~iRS~i~~~iR~f-L~~~gFiEV~TPiLt~~~~ 198 (373)
...+++.++...+++. +.+.||.||-+|.|.+...
T Consensus 221 ~Ga~L~~aL~~~i~d~~~~k~Gyeev~~P~Li~~el 256 (517)
T PRK00960 221 PMTKLFRAFEKLVIEEVLKPLGFDECLFPKLIPLEV 256 (517)
T ss_pred hHHHHHHHHHHHHHHhhHhhcCCeEEECCcccCHHH
Confidence 4568888999999887 4667999999999987654
No 132
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=93.24 E-value=1.3 Score=38.43 Aligned_cols=86 Identities=17% Similarity=0.139 Sum_probs=60.5
Q ss_pred ceehhhhhcCCCCCCCCCCcEEEEEEEEEeee-------cCCCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcE
Q 017368 29 RVLIKSILTRPDGGAGLAGRQVRVGGWVKTGR-------EQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTC 101 (373)
Q Consensus 29 r~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR-------~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esv 101 (373)
-++|+||.. ..+.|.+.|.|.++- +.+...+.-+.|.|.||. |.+.+..+. +..+..|++
T Consensus 4 ~~kI~dL~~--------g~~~v~~~~~V~~i~~~~~~~~k~~~~~v~~~~l~D~TG~--I~~tlW~~~---a~~l~~Gdv 70 (129)
T PRK06461 4 ITKIKDLKP--------GMERVNVTVRVLEVGEPKVIQTKGGPRTISEAVVGDETGR--VKLTLWGEQ---AGSLKEGEV 70 (129)
T ss_pred ceEHHHcCC--------CCCceEEEEEEEEcCCceEEEeCCCceEEEEEEEECCCCE--EEEEEeCCc---cccCCCCCE
Confidence 467888862 136788888888432 223224777899999985 999988753 345789999
Q ss_pred EEEE-EEeeCCCCCCccceEEEEeE---EEEeec
Q 017368 102 VYVE-GMLKNPPEGTKQKIELRVQK---VVDVGM 131 (373)
Q Consensus 102 V~V~-G~v~~~~~~~~g~vEL~v~~---i~VLs~ 131 (373)
|.|. |.+..- .|.++|.+.+ +..+.+
T Consensus 71 V~I~na~v~~f----~G~lqL~i~~~~~i~~~~~ 100 (129)
T PRK06461 71 VEIENAWTTLY----RGKVQLNVGKYGSISESDD 100 (129)
T ss_pred EEEECcEEeee----CCEEEEEECCCEEEEECCc
Confidence 9999 565543 4778999984 555554
No 133
>COG0441 ThrS Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=93.11 E-value=0.13 Score=55.45 Aligned_cols=32 Identities=31% Similarity=0.464 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHhCCcEEEecCeeecCC
Q 017368 166 ARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (373)
Q Consensus 166 l~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~ 197 (373)
..+|..+...+|.-..+.||.||.||.|....
T Consensus 220 ~~ir~~le~y~~~~~~~~Gy~~V~TP~~~~~~ 251 (589)
T COG0441 220 ATIRNLLEDYVRTKLRSYGYQEVKTPVLADLE 251 (589)
T ss_pred ccHHHHHHHHHHHHHHhcCceEecCCeeeecc
Confidence 47899999999999999999999999997543
No 134
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=93.07 E-value=0.4 Score=54.93 Aligned_cols=74 Identities=18% Similarity=0.327 Sum_probs=57.8
Q ss_pred CcEEEEEEEEEeeec-----CCCceeEEEEEEcCCCCceEEEEEeCchh-hhccCCCCCcEEEEEEEeeCCCCCCccceE
Q 017368 47 GRQVRVGGWVKTGRE-----QGKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEGTKQKIE 120 (373)
Q Consensus 47 gk~V~V~GWV~siR~-----~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~-~~~~~L~~esvV~V~G~v~~~~~~~~g~vE 120 (373)
++.+.+.|+|.++|. .|+ .++|+.|-|.+|. +.+++-++.. .+...|..|.+|.|+|++... .+.+.
T Consensus 884 ~~~~~~~~~i~~~~~~~tk~~g~-~maf~~leD~~g~--ie~~vFp~~y~~~~~~l~~~~~~~v~G~v~~~----~~~~~ 956 (1034)
T PRK07279 884 NSEATILVQIQSIRVIRTKTKGQ-QMAFLSVTDTKKK--LDVTLFPETYRQYKDELKEGKFYYLKGKIQER----DGRLQ 956 (1034)
T ss_pred CCcceEEEEEEEEEEEEEcCCCC-eEEEEEEeeCCCc--EEEEECHHHHHHHHHHhccCCEEEEEEEEEec----CCeeE
Confidence 567889999987653 344 6999999999997 9999987653 345668999999999999764 24567
Q ss_pred EEEeEEE
Q 017368 121 LRVQKVV 127 (373)
Q Consensus 121 L~v~~i~ 127 (373)
|.++++.
T Consensus 957 l~~~~i~ 963 (1034)
T PRK07279 957 MVLQQIQ 963 (1034)
T ss_pred EEEeeee
Confidence 7777664
No 135
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=92.95 E-value=0.91 Score=45.48 Aligned_cols=80 Identities=23% Similarity=0.187 Sum_probs=58.9
Q ss_pred CcEEEEEEEEEeee----cCCCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEEEeeCCCCCCccceEEE
Q 017368 47 GRQVRVGGWVKTGR----EQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELR 122 (373)
Q Consensus 47 gk~V~V~GWV~siR----~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~ 122 (373)
|++|....-|.+.. +.|+ ....+.|.|.||. |...+..........+..|++|.|.|.+..- .|.+.|.
T Consensus 11 g~~v~~~~lv~~~~~~~~knG~-~yl~l~l~D~tG~--I~ak~W~~~~~~~~~~~~g~vv~v~G~v~~y----~g~~Ql~ 83 (314)
T PRK13480 11 GEQVDHFLLIKSATKGVASNGK-PFLTLILQDKSGD--IEAKLWDVSPEDEATYVPETIVHVKGDIINY----RGRKQLK 83 (314)
T ss_pred CCEeeEEEEEEEceeeecCCCC-eEEEEEEEcCCcE--EEEEeCCCChhhHhhcCCCCEEEEEEEEEEE----CCcceEE
Confidence 55555555555443 3343 4788899999986 9999977654445668899999999999864 4677799
Q ss_pred EeEEEEeecCC
Q 017368 123 VQKVVDVGMVD 133 (373)
Q Consensus 123 v~~i~VLs~a~ 133 (373)
+.+++++.+..
T Consensus 84 i~~i~~~~~~e 94 (314)
T PRK13480 84 VNQIRLATEED 94 (314)
T ss_pred EEEeEECCCCC
Confidence 99999887753
No 136
>PRK14699 replication factor A; Provisional
Probab=92.75 E-value=0.85 Score=48.29 Aligned_cols=90 Identities=20% Similarity=0.237 Sum_probs=64.4
Q ss_pred eehhhhhcCCCCCCCCCCcEEEEEEEEEee-------ecCC-CceeEEEEEEcCCCCceEEEEEeCchhhhcc--CCCCC
Q 017368 30 VLIKSILTRPDGGAGLAGRQVRVGGWVKTG-------REQG-KGSFAFLEVNDGSCPANLQVIVDKDVADLGQ--LVPTG 99 (373)
Q Consensus 30 ~~Ikdi~~~~~l~~~~igk~V~V~GWV~si-------R~~G-k~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~--~L~~e 99 (373)
..|+||.. .++.|.+.|+|.++ |..| .+++.=+.|-|.||. |.+++..+..+... .|+.|
T Consensus 58 ~kI~di~~--------~~~~v~i~~rVl~i~~~r~f~r~dG~~g~v~~~~iaDeTG~--ir~tlW~~~a~~~~~g~l~~G 127 (484)
T PRK14699 58 VKIENITP--------ESGPVNFIARVVSVFDTKEFTRNDGTIGRVGNLIVGDETGK--IKLTLWDNMADLIKAGKIKAG 127 (484)
T ss_pred ccHhHccC--------CCceEEEEEEEEEecCceEEecCCCCceEEEEEEEecCCCe--EEEEEecCccchhhhcCCCCC
Confidence 57888863 35789999999887 3333 225666789999996 99999887543333 48999
Q ss_pred cEEEEEEEeeCCCCCCccceEEEEeEEEEeecCC
Q 017368 100 TCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVD 133 (373)
Q Consensus 100 svV~V~G~v~~~~~~~~g~vEL~v~~i~VLs~a~ 133 (373)
|+|.|.|.++.- .++.||.+.+..++.+++
T Consensus 128 Dvv~I~~~~r~~----~~g~el~~~~~~~i~~~~ 157 (484)
T PRK14699 128 QTLQISGYAKQG----YSGVEVNIGNNGVLTESE 157 (484)
T ss_pred CEEEEcceeccC----CCCceEEeCCCceeeccC
Confidence 999999975332 244788887666666653
No 137
>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=92.46 E-value=0.48 Score=39.83 Aligned_cols=59 Identities=24% Similarity=0.299 Sum_probs=38.7
Q ss_pred CCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEEEeeCCC
Q 017368 44 GLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPP 112 (373)
Q Consensus 44 ~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~~~~ 112 (373)
.+.|+.|+|-|+|.+....| +.+-+.-.|+. .++|.+..+. .+..+.+|+|.|+|....
T Consensus 15 ~~~gk~VrivGkv~~~~~~g--~~~~l~~~d~~---~V~v~l~~~~-----~~~~~~~vEviG~V~~~~ 73 (109)
T PF08661_consen 15 QFVGKTVRIVGKVESVDPDG--GSATLSTSDGG---QVTVSLNPPS-----DEELSKYVEVIGKVNDDG 73 (109)
T ss_dssp GGTTSEEEEEEEEEEE-TTS--SEEEEE-TTS----EEEEEESS-------SS---SEEEEEEEE-TTS
T ss_pred hhCCCeEEEEEEEeeEcCCC--CEEEEEcCCCC---EEEEEeCCCC-----CCCCCCEEEEEEEEcCCC
Confidence 57899999999999999777 44433333552 5888887653 245689999999998653
No 138
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=92.36 E-value=0.59 Score=48.76 Aligned_cols=88 Identities=16% Similarity=0.152 Sum_probs=68.5
Q ss_pred eehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhhh-ccCCCCCcEEEEEEEe
Q 017368 30 VLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADL-GQLVPTGTCVYVEGML 108 (373)
Q Consensus 30 ~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~-~~~L~~esvV~V~G~v 108 (373)
.+|+.+++ .+ =..|+|.|-|.+++...++ -.|+.|.|.... |+|++.+..... .-.+..|+-|.|.|++
T Consensus 13 ~~ik~llE------~~-~~~V~v~GEISn~t~~~sg-H~YFtLKD~~A~--i~c~mf~~~~~~l~f~p~eG~~V~v~G~i 82 (440)
T COG1570 13 DYIKRLLE------RD-LGQVWVRGEISNFTRPASG-HLYFTLKDERAQ--IRCVMFKGNNRRLKFRPEEGMQVLVRGKI 82 (440)
T ss_pred HHHHHHHH------hc-CCeEEEEEEecCCccCCCc-cEEEEEccCCce--EEEEEEcCcccccCCCccCCCEEEEEEEE
Confidence 35677764 11 3689999999999988864 899999999875 999988765322 2347899999999999
Q ss_pred eCCCCCCccceEEEEeEEEEe
Q 017368 109 KNPPEGTKQKIELRVQKVVDV 129 (373)
Q Consensus 109 ~~~~~~~~g~vEL~v~~i~VL 129 (373)
.-=+ ..|.+-|.+++++--
T Consensus 83 s~Y~--~rG~YQi~~~~~~p~ 101 (440)
T COG1570 83 SLYE--PRGDYQIVAESMEPA 101 (440)
T ss_pred EEEc--CCCceEEEEecCCcC
Confidence 8765 379999999988653
No 139
>PRK12294 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=92.35 E-value=0.72 Score=45.18 Aligned_cols=34 Identities=9% Similarity=0.082 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecC
Q 017368 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (373)
Q Consensus 163 ~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~ 196 (373)
+.-+.-+..+...+++.|.+.||-||.||+|-..
T Consensus 4 ~~~~~~~~~ie~~l~~~f~~~GY~~I~tP~~E~~ 37 (272)
T PRK12294 4 SEQLIALKESETAFLKYFNKADYELVDFSVIEKL 37 (272)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCeEeeCCcchhH
Confidence 3445567778889999999999999999999544
No 140
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=92.24 E-value=0.96 Score=46.73 Aligned_cols=88 Identities=20% Similarity=0.222 Sum_probs=67.2
Q ss_pred ehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhh-hccCCCCCcEEEEEEEee
Q 017368 31 LIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD-LGQLVPTGTCVYVEGMLK 109 (373)
Q Consensus 31 ~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~-~~~~L~~esvV~V~G~v~ 109 (373)
+|+++++ .. -+.|+|.|=|.+.+.+++ +-+|+.|.|... .|-||+...... ..-.++.|+-|.|.|.|.
T Consensus 14 ~ik~~le------~~-~~~v~v~gEis~~~~~~s-GH~Yf~Lkd~~a--~i~~~~~~~~~~~~~~~~~~G~~v~v~g~~~ 83 (438)
T PRK00286 14 YVKSLLE------RD-LGQVWVRGEISNFTRHSS-GHWYFTLKDEIA--QIRCVMFKGSARRLKFKPEEGMKVLVRGKVS 83 (438)
T ss_pred HHHHHHH------hh-CCcEEEEEEeCCCeeCCC-CeEEEEEEcCCc--EEEEEEEcChhhcCCCCCCCCCEEEEEEEEE
Confidence 4666664 11 479999999999987754 578899999975 499999875432 223478999999999998
Q ss_pred CCCCCCccceEEEEeEEEEee
Q 017368 110 NPPEGTKQKIELRVQKVVDVG 130 (373)
Q Consensus 110 ~~~~~~~g~vEL~v~~i~VLs 130 (373)
--+ ..|.+.|.|.+|...+
T Consensus 84 ~y~--~~g~~ql~v~~i~~~g 102 (438)
T PRK00286 84 LYE--PRGDYQLIVEEIEPAG 102 (438)
T ss_pred EEC--CCCCEEEEEEEeeeCC
Confidence 643 2688999999998744
No 141
>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=91.97 E-value=0.93 Score=47.13 Aligned_cols=88 Identities=15% Similarity=0.182 Sum_probs=66.4
Q ss_pred ehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhh-hccCCCCCcEEEEEEEee
Q 017368 31 LIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD-LGQLVPTGTCVYVEGMLK 109 (373)
Q Consensus 31 ~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~-~~~~L~~esvV~V~G~v~ 109 (373)
+|+++++ ... ..|+|.|=|.+.+.+.+ +-+|+.|.|.... |.||+...... ..-.+..|+-|.|.|.|.
T Consensus 8 ~ik~~le------~~~-~~v~V~GEisn~~~~~s-GH~YFtLkD~~a~--i~~vmf~~~~~~l~f~~~~G~~V~v~g~v~ 77 (432)
T TIGR00237 8 QIKALLE------ATF-LQVWIQGEISNFTQPVS-GHWYFTLKDENAQ--VRCVMFRGNNNRLKFRPQNGQQVLVRGGIS 77 (432)
T ss_pred HHHHHHH------hhC-CcEEEEEEecCCeeCCC-ceEEEEEEcCCcE--EEEEEEcChhhCCCCCCCCCCEEEEEEEEE
Confidence 4677764 113 39999999999987665 4788899998754 99998876432 123478999999999997
Q ss_pred CCCCCCccceEEEEeEEEEee
Q 017368 110 NPPEGTKQKIELRVQKVVDVG 130 (373)
Q Consensus 110 ~~~~~~~g~vEL~v~~i~VLs 130 (373)
-=+ ..|.+.|.|++++.-+
T Consensus 78 ~y~--~~G~~ql~v~~i~~~G 96 (432)
T TIGR00237 78 VYE--PRGDYQIICFEMQPAG 96 (432)
T ss_pred EEC--CCCcEEEEEEEeccCC
Confidence 654 3688999999997644
No 142
>COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=90.87 E-value=0.78 Score=47.83 Aligned_cols=34 Identities=24% Similarity=0.322 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHhCCcEEEecCeeecCCC
Q 017368 165 VARIRNALAYATHTFLQKQGFLYIHTPIITTSDC 198 (373)
Q Consensus 165 il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~~ 198 (373)
+.++--++++.+=++..++||.|+.+|.|.....
T Consensus 173 ~a~L~rAL~~f~ld~~~~~Gf~e~~~P~lv~~e~ 206 (429)
T COG0172 173 GARLERALIQFMLDLHTKHGFTEVLPPYLVNLES 206 (429)
T ss_pred HHHHHHHHHHHHHHHHHHcCceEeeCceeecHHH
Confidence 4466667788888888899999999999998765
No 143
>PRK12366 replication factor A; Reviewed
Probab=90.84 E-value=1.7 Score=47.55 Aligned_cols=85 Identities=18% Similarity=0.255 Sum_probs=63.2
Q ss_pred cceehhhhhcCCCCCCCCCCcEEEEEEEEEee---e----cCC-CceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCC
Q 017368 28 DRVLIKSILTRPDGGAGLAGRQVRVGGWVKTG---R----EQG-KGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTG 99 (373)
Q Consensus 28 ~r~~Ikdi~~~~~l~~~~igk~V~V~GWV~si---R----~~G-k~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~e 99 (373)
.-+.|++|.. -...|.|.|+|.++ | ..| .+++.=++|-|.+|. |.+++..+..++...|..|
T Consensus 62 ~~~~I~dl~p--------~~~~v~i~arV~~~~~~r~~~~~~G~eGkv~~~~v~DetG~--Ir~t~W~~~~~~~~~le~G 131 (637)
T PRK12366 62 EDFKISDIEE--------GQINVEITGRIIEISNIKTFTRKDGSTGKLANITIADNTGT--IRLTLWNDNAKLLKGLKEG 131 (637)
T ss_pred ceeEHHHCcC--------CCcceEEEEEEEEccCCeEEECCCCCccEEEEEEEEcCCCE--EEEEEEchhhhhhccCCCC
Confidence 3467888862 23579999999755 3 222 337888999999985 9999988765555678999
Q ss_pred cEEEEEEEeeCCCCCCccceEEEEeE
Q 017368 100 TCVYVEGMLKNPPEGTKQKIELRVQK 125 (373)
Q Consensus 100 svV~V~G~v~~~~~~~~g~vEL~v~~ 125 (373)
+++.|.|-..+.- .+.+||.+..
T Consensus 132 ~v~~i~~~~v~~~---~~~~el~~~~ 154 (637)
T PRK12366 132 DVIKIENARSRKW---NNDVELNSGS 154 (637)
T ss_pred CEEEEeccEeccc---CCceEEEcCC
Confidence 9999998766543 5788987753
No 144
>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=90.82 E-value=1.2 Score=47.54 Aligned_cols=65 Identities=12% Similarity=0.043 Sum_probs=43.1
Q ss_pred cceeeccHHHHHH-HHHhh------c-CceEEEe-cceecCCCCCC--CCcCccccceeeecCCCHHHHHHHHHHHH
Q 017368 303 QAFLTVSGQLQVE-TYACA------V-SNVYTFG-PTFRAEHSHTS--RHLAEFWMVEPEMAFSDLKVRWTYTAHCL 368 (373)
Q Consensus 303 ~~~L~~S~ql~~e-~~~~~------~-~~vy~~~-p~fRaE~~~t~--rhl~EF~~le~e~~~~~~~~~~~~~~~~~ 368 (373)
+.+|..+....+= ++..- + -++|.+. +|||.|..++. .=+.||.|.|.-. +.+-++..+....++
T Consensus 309 ~~vL~PTSE~ply~~~a~~Ils~~dLPlk~~~~s~~CFR~EaGstrGL~RvhEF~kvE~v~-~~tpEea~e~~e~ml 384 (520)
T TIGR00415 309 GYVIAPAQCEPFYQFFEGEVIDAEDKPIKFFDRSGWTYRWEAGGAKGLDRVHEFLRVECVW-IAEPEETEEIRDKTL 384 (520)
T ss_pred ceEEeCccHHHHHHHHhccccChhhCCeeEEEEecCeEeCCCCCCCCCceeeEEEEEEEEE-EeCHHHHHHHHHHHH
Confidence 5668877766553 33322 2 4678855 79999986542 3446999999887 888877766444443
No 145
>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=90.03 E-value=3.2 Score=32.63 Aligned_cols=53 Identities=19% Similarity=0.211 Sum_probs=41.7
Q ss_pred eeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEE-EEeeCCCCCCccceEEEEeEE
Q 017368 66 SFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVE-GMLKNPPEGTKQKIELRVQKV 126 (373)
Q Consensus 66 kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~-G~v~~~~~~~~g~vEL~v~~i 126 (373)
++.=+.|.|.||. |.+++..+.. ...+..|++|.+. |.+..- .+.++|.+.+.
T Consensus 23 ~~~~~~l~D~TG~--i~~~~W~~~~--~~~~~~G~vv~i~~~~v~~~----~g~~ql~i~~~ 76 (82)
T cd04491 23 KVQSGLVGDETGT--IRFTLWDEKA--ADDLEPGDVVRIENAYVREF----NGRLELSVGKN 76 (82)
T ss_pred EEEEEEEECCCCE--EEEEEECchh--cccCCCCCEEEEEeEEEEec----CCcEEEEeCCc
Confidence 7888899999985 9999987643 4568999999999 777654 47788887653
No 146
>COG0442 ProS Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=89.98 E-value=1.4 Score=46.95 Aligned_cols=41 Identities=20% Similarity=0.155 Sum_probs=33.7
Q ss_pred CceEEEecceecCCCCCC--CCcCccccceeeecCCCHHHHHH
Q 017368 322 SNVYTFGPTFRAEHSHTS--RHLAEFWMVEPEMAFSDLKVRWT 362 (373)
Q Consensus 322 ~~vy~~~p~fRaE~~~t~--rhl~EF~~le~e~~~~~~~~~~~ 362 (373)
=++|+|...||.|--++. --..||.|=|.+-...|.+++..
T Consensus 130 l~lYQi~~kfRdE~rpr~gllR~REF~mkdaySfh~~~e~a~~ 172 (500)
T COG0442 130 LKLYQIQSKFRDEKRPRFGLLRGREFLMKDAYSFHADEEDAEE 172 (500)
T ss_pred cceeeeeeEEeccccCCCCccchheeeecccccccCCHHHHHH
Confidence 468999999999975433 12469999999999999998877
No 147
>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=89.92 E-value=6.1 Score=31.60 Aligned_cols=73 Identities=19% Similarity=0.180 Sum_probs=48.1
Q ss_pred EEEEEEEEee--e--cCCCceeEEEEEEcCCCCceEEEEEeC-chhhhccCCC-CCcEEEEEEEeeCCCCCCccceEEEE
Q 017368 50 VRVGGWVKTG--R--EQGKGSFAFLEVNDGSCPANLQVIVDK-DVADLGQLVP-TGTCVYVEGMLKNPPEGTKQKIELRV 123 (373)
Q Consensus 50 V~V~GWV~si--R--~~Gk~kl~FIdLRDgsg~~~IQvVv~~-~~~~~~~~L~-~esvV~V~G~v~~~~~~~~g~vEL~v 123 (373)
|+|.|-|-.+ | +.|+ .+.-+.|.|.+.. +-|..-. +.......|+ .|++|.|.|.+.-..- .+++.+.+
T Consensus 2 v~i~G~Vf~~e~re~k~g~-~i~~~~itD~t~S--i~~K~F~~~~~~~~~~ik~~G~~v~v~G~v~~D~f--~~e~~~~i 76 (82)
T cd04484 2 VVVEGEVFDLEIRELKSGR-KILTFKVTDYTSS--ITVKKFLRKDEKDKEELKSKGDWVRVRGKVQYDTF--SKELVLMI 76 (82)
T ss_pred EEEEEEEEEEEEEEecCCC-EEEEEEEEcCCCC--EEEEEeccCChhHHhhcccCCCEEEEEEEEEEccC--CCceEEEe
Confidence 6788888655 2 2332 4666899999875 6554322 2222234588 9999999999976532 46777777
Q ss_pred eEEE
Q 017368 124 QKVV 127 (373)
Q Consensus 124 ~~i~ 127 (373)
..+.
T Consensus 77 ~~i~ 80 (82)
T cd04484 77 NDIE 80 (82)
T ss_pred eeEE
Confidence 6654
No 148
>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=89.73 E-value=0.52 Score=49.79 Aligned_cols=50 Identities=12% Similarity=0.111 Sum_probs=38.1
Q ss_pred CceEEEecceecCCCCCCCCcCccccceeeecC--CCHHHHHHHHHHHHHhc
Q 017368 322 SNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAF--SDLKVRWTYTAHCLVFE 371 (373)
Q Consensus 322 ~~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~--~~~~~~~~~~~~~~~~~ 371 (373)
-|+|++|.|||.|......|+.+|.++|.=++- +++.+++..++.+++.+
T Consensus 208 iRIFsIGRVfRrD~~~DaTHl~eFhQlEGLVVdedVSf~DLKgvLe~LLr~L 259 (533)
T TIGR00470 208 LKLFSIDRCFRREQREDRSHLMTYHSASCVVVDEEVSVDDGKAVAEGLLAQF 259 (533)
T ss_pred eEEEeeeeEEecCCCCCCccCceeeeEEEEEECCCCCHHHHHHHHHHHHHHh
Confidence 589999999999964334799999999987765 34677777666666543
No 149
>PRK07211 replication factor A; Reviewed
Probab=89.55 E-value=3 Score=44.28 Aligned_cols=84 Identities=20% Similarity=0.185 Sum_probs=61.9
Q ss_pred eehhhhhcCCCCCCCCCCcEEEEEEEEEeeec------C---CCceeEEEEEEcCCCCceEEEEEeCchh-hhccCCCCC
Q 017368 30 VLIKSILTRPDGGAGLAGRQVRVGGWVKTGRE------Q---GKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTG 99 (373)
Q Consensus 30 ~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~------~---Gk~kl~FIdLRDgsg~~~IQvVv~~~~~-~~~~~L~~e 99 (373)
..|++|.. ....|+|.|||.++-. . +.+++.=++|-|.||. |++++..+.. .+...|..|
T Consensus 54 ~~I~dL~p--------g~~~vtI~aRV~~~~~~Rt~~~~~~~~eGkv~~v~l~DeTG~--Ir~TlW~d~ad~~~~~Le~G 123 (485)
T PRK07211 54 NGIADIEP--------GMDEVKFLAKVLSIGDLRTFERDGEDEDGRVINVEVADETGS--VRVAFWDEQAVAAEEELEVG 123 (485)
T ss_pred ccHhhCCC--------CCCceEEEEEEeEccCceEEEeCCCCCCcEEEEEEEEcCCCe--EEEEEechHhHhhhcccCCC
Confidence 46777752 3468999999976532 2 2348999999999996 9999987653 355679999
Q ss_pred cEEEEEEEeeCCCCCCccceEEEEeEEE
Q 017368 100 TCVYVEGMLKNPPEGTKQKIELRVQKVV 127 (373)
Q Consensus 100 svV~V~G~v~~~~~~~~g~vEL~v~~i~ 127 (373)
+++.|.|.+++. -+.+||.+..+.
T Consensus 124 dV~~I~~~~~~~----ys~~El~i~~ve 147 (485)
T PRK07211 124 QVLRIKGRPKDG----YNGLEVSVDKVE 147 (485)
T ss_pred CEEEEeceEecc----ccceEEEEeeEE
Confidence 999999987533 345788888643
No 150
>PRK12366 replication factor A; Reviewed
Probab=88.98 E-value=3.3 Score=45.25 Aligned_cols=80 Identities=18% Similarity=0.202 Sum_probs=56.2
Q ss_pred CCcEEEEEEEEEeee---c----CCCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEEEeeCCCC--CCc
Q 017368 46 AGRQVRVGGWVKTGR---E----QGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPE--GTK 116 (373)
Q Consensus 46 igk~V~V~GWV~siR---~----~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~~~~~--~~~ 116 (373)
.|..+.|.|||.++- . -|.+++.=++|.|.+|. |++++..+..+....|..|+++.|.|-..+.-. ...
T Consensus 290 ~g~~~~I~grV~~~~~~R~f~~~~g~gkv~s~~l~D~tG~--IR~t~w~~~~d~~~~l~~G~vy~is~~~vk~y~~~~~~ 367 (637)
T PRK12366 290 DGEEVDVKGRIIAISDKREVERDDRTAEVQDIELADGTGR--VRVSFWGEKAKILENLKEGDAVKIENCKVRTYYDNEGE 367 (637)
T ss_pred CCCEEEEEEEEEecCCceEEEcCCCcEEEEEEEEEcCCCe--EEEEEeCchhhhhcccCCCCEEEEecCEEeeccccCCC
Confidence 567999999997762 2 23348888999999985 999998875432234679999999865555211 124
Q ss_pred cceEEEEeEEE
Q 017368 117 QKIELRVQKVV 127 (373)
Q Consensus 117 g~vEL~v~~i~ 127 (373)
+.+||.+..-.
T Consensus 368 ~~~El~~~~~s 378 (637)
T PRK12366 368 KRVDLNAGYSS 378 (637)
T ss_pred cCEEEEcCCce
Confidence 57888886444
No 151
>PRK07459 single-stranded DNA-binding protein; Provisional
Probab=88.97 E-value=4.1 Score=35.13 Aligned_cols=52 Identities=21% Similarity=0.268 Sum_probs=39.2
Q ss_pred EEEEEeCchhh-hccCCCCCcEEEEEEEeeCCCC-----C-CccceEEEEeEEEEeecC
Q 017368 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPE-----G-TKQKIELRVQKVVDVGMV 132 (373)
Q Consensus 81 IQvVv~~~~~~-~~~~L~~esvV~V~G~v~~~~~-----~-~~g~vEL~v~~i~VLs~a 132 (373)
+.|++-.+..+ ..+.|+.|+-|.|+|.+..+.- | ....+||.+++|..|+..
T Consensus 46 ~~v~~wg~~Ae~~~~~l~KG~~V~V~G~l~~~~~~d~d~G~~r~~~ei~a~~i~~L~~k 104 (121)
T PRK07459 46 FNLEIWGKTAQVAADYVKKGSLIGITGSLKFDRWTDRNTGEDRSKPVIRVDRLELLGSK 104 (121)
T ss_pred EEEEEehHHHHHHHHHcCCCCEEEEEEEEEecceEcCCCCeEEEEEEEEEeEEEECcCC
Confidence 88888765433 4466899999999999987632 1 234699999999999754
No 152
>PRK14699 replication factor A; Provisional
Probab=88.39 E-value=3.4 Score=43.79 Aligned_cols=85 Identities=13% Similarity=0.130 Sum_probs=63.5
Q ss_pred CCcEEEEEEEEEeee-------cCC-CceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEEEeeCCCCCCcc
Q 017368 46 AGRQVRVGGWVKTGR-------EQG-KGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQ 117 (373)
Q Consensus 46 igk~V~V~GWV~siR-------~~G-k~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~~~~~~~~g 117 (373)
.+..|.|.|+|.++= ..| .+++.=+.|-|+||. |.+++..+..++...+..|+.|.|.+--++-. .-.+
T Consensus 285 ~~~~v~I~grV~~~~~~r~~~~~~Gseg~v~~~~l~DeTG~--Ir~T~W~~~a~~~~~i~~Gd~v~i~~~y~~~~-~~~~ 361 (484)
T PRK14699 285 DMNNINISGRVLDISEVRTFEKKDGSPGRVGNLLLGDSTGK--IRLTLWDEKTNFLDEIDFDETVEVLNAYSREN-TFSQ 361 (484)
T ss_pred CCceeEEEEEEEEcCCCeEEEcCCCCeeEEEEEEEECCCCe--EEEEEeCcccccccccCCCceEEEEeEEEEec-cCCc
Confidence 467999999998652 222 336777899999996 99999887655666788999999875444321 1257
Q ss_pred ceEEEEeEEEEeecCC
Q 017368 118 KIELRVQKVVDVGMVD 133 (373)
Q Consensus 118 ~vEL~v~~i~VLs~a~ 133 (373)
.+||.+.+-.++.+++
T Consensus 362 ~~eL~~~~~t~I~~~~ 377 (484)
T PRK14699 362 QVELNLGARGIIQKSE 377 (484)
T ss_pred cEEEEecCceeEeecC
Confidence 8999999888888875
No 153
>PRK15491 replication factor A; Provisional
Probab=88.26 E-value=3.1 Score=42.60 Aligned_cols=93 Identities=16% Similarity=0.237 Sum_probs=65.1
Q ss_pred ceehhhhhcCCCCCCCCCCcEEEEEEEEEeeec-------CCC-ceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCc
Q 017368 29 RVLIKSILTRPDGGAGLAGRQVRVGGWVKTGRE-------QGK-GSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGT 100 (373)
Q Consensus 29 r~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~-------~Gk-~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~es 100 (373)
...|.+|.. ....|.|.|+|.++-. .|. +++.=+.|-|.+|. |.+++..+..+....|..|+
T Consensus 166 ~~~I~dl~~--------~~~~V~I~g~V~~~~~~r~~~~~~G~~~~v~~~~l~DetG~--Ir~t~W~~~a~~~~~l~~Gd 235 (374)
T PRK15491 166 SQKISDIKD--------GDSDINIVGKVLDISDVRTFQKKDGSQGRVRNITIGDETGK--IRVTLWDGKTDLADKLENGD 235 (374)
T ss_pred cccHHHcCC--------CCccEEEEEEEEEccCceEEEecCCCeEEEEEEEEECCCCe--EEEEEecchhcccccCCCCC
Confidence 356777642 2346999999987742 232 25666899999985 99999887544345689999
Q ss_pred EEEEEE-EeeCCCCCCccceEEEEeEEEEeecCC
Q 017368 101 CVYVEG-MLKNPPEGTKQKIELRVQKVVDVGMVD 133 (373)
Q Consensus 101 vV~V~G-~v~~~~~~~~g~vEL~v~~i~VLs~a~ 133 (373)
+|.|.+ .+.... -.+.+||.+.+-..+.++.
T Consensus 236 ~V~i~~~~~r~~~--~~g~~El~~~~~s~I~~~~ 267 (374)
T PRK15491 236 SVEIINGYARTNN--YSQEVEIQIGNHGSLRKTD 267 (374)
T ss_pred EEEEEeceEEEec--cCCCEEEEeCCCceEEECC
Confidence 999976 454332 2578999997666677764
No 154
>PRK06863 single-stranded DNA-binding protein; Provisional
Probab=87.10 E-value=4.7 Score=36.93 Aligned_cols=52 Identities=25% Similarity=0.344 Sum_probs=39.8
Q ss_pred EEEEEeCchh-hhccCCCCCcEEEEEEEeeCCCC----C-CccceEEEEeEEEEeecC
Q 017368 81 LQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKVVDVGMV 132 (373)
Q Consensus 81 IQvVv~~~~~-~~~~~L~~esvV~V~G~v~~~~~----~-~~g~vEL~v~~i~VLs~a 132 (373)
+.|++..... .+.+.|+.|+.|.|+|.+..+.- | ....+||.+++|.+|+..
T Consensus 54 ~~Vv~fgk~AE~v~~~LkKGs~V~VeGrL~~r~w~DkdG~~r~~~eI~a~~i~~L~~r 111 (168)
T PRK06863 54 HRIVFYRRQAEVAGEYLRKGSQVYVEGRLKTRKWQDQNGQDRYTTEIQGDVLQMLGGR 111 (168)
T ss_pred EEEEEEhHHHHHHHHHCCCCCEEEEEEEEEeCCccCCCCCEEEEEEEEEeEEEECCCC
Confidence 7888776543 34567999999999999988642 2 235799999999998754
No 155
>PRK08486 single-stranded DNA-binding protein; Provisional
Probab=86.46 E-value=4 Score=37.81 Aligned_cols=53 Identities=17% Similarity=0.240 Sum_probs=39.8
Q ss_pred EEEEEeCchhh-hccCCCCCcEEEEEEEeeCCCC----C-CccceEEEEeEEEEeecCC
Q 017368 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKVVDVGMVD 133 (373)
Q Consensus 81 IQvVv~~~~~~-~~~~L~~esvV~V~G~v~~~~~----~-~~g~vEL~v~~i~VLs~a~ 133 (373)
+-|++.....+ ..+.|+.|+-|.|+|.+..+.- + ....+||.+++|.+|+...
T Consensus 51 i~v~~fg~~AE~~~~~l~KG~~V~VeGrL~~~~y~dkdG~~r~~~eI~a~~v~~L~~~~ 109 (182)
T PRK08486 51 IDIRLFGRTAEIANQYLSKGSKVLIEGRLTFESWMDQNGQKRSKHTITAESMQMLDSKS 109 (182)
T ss_pred EEEEEEhHHHHHHHHHcCCCCEEEEEEEEEeCcEECCCCcEEEEEEEEEeEEEECCCCC
Confidence 77777765433 4566999999999999987532 2 3457999999999998653
No 156
>KOG3108 consensus Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [Replication, recombination and repair]
Probab=86.32 E-value=5.3 Score=39.28 Aligned_cols=74 Identities=27% Similarity=0.218 Sum_probs=54.2
Q ss_pred cEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh---hhccCCCCCcEEEEEEEeeCCCCCCccceEEEEe
Q 017368 48 RQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA---DLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQ 124 (373)
Q Consensus 48 k~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~---~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~ 124 (373)
..|.+-|||+++-... .=++++|-|++|. |=+....... .....|..|-.|.|.|.++... |...|.+.
T Consensus 69 ~~v~~VGivr~~e~~~--t~i~y~I~D~tg~--id~r~W~~~~~~~~e~~~l~~~~yVkv~G~Lk~f~----Gk~sl~~f 140 (265)
T KOG3108|consen 69 SAVSIVGIVRNIEKSA--TNITYEIEDGTGQ--IDVRQWFHDNAESEEMPALETGTYVKVYGHLKPFQ----GKKSLQVF 140 (265)
T ss_pred EEEEEEEEEEeceecC--cceEEEEecCccc--EEEEEeccccchhhhCcccccCcEEEeeecccCCC----CceeEEEE
Confidence 3689999999999998 4577799999986 6666554321 1344689999999999998753 45556666
Q ss_pred EEEEe
Q 017368 125 KVVDV 129 (373)
Q Consensus 125 ~i~VL 129 (373)
+|..+
T Consensus 141 kI~pv 145 (265)
T KOG3108|consen 141 KIRPV 145 (265)
T ss_pred eeeee
Confidence 65433
No 157
>KOG2324 consensus Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=86.19 E-value=2.7 Score=43.18 Aligned_cols=32 Identities=25% Similarity=0.282 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHHHhCCcEEEecCeeecC
Q 017368 165 VARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (373)
Q Consensus 165 il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~ 196 (373)
-+|.-.+++..++.=|+.-|-.+|.-|+|++.
T Consensus 51 g~R~~~K~~~~l~~~mqs~Ga~kIslp~ls~~ 82 (457)
T KOG2324|consen 51 GLRVLNKLCRLLDNEMQSGGAQKISLPILSSK 82 (457)
T ss_pred hHHHHHHHHHHHHHHHHhccCeeEeecccChH
Confidence 35677789999999999999999999999864
No 158
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=85.90 E-value=5.6 Score=43.67 Aligned_cols=77 Identities=21% Similarity=0.149 Sum_probs=55.0
Q ss_pred CCCcEEEEEEEEEeeecC--CCceeEEEEEEcCCCCceEEEEEeCchhhh-ccCCCCCcEEEEEEEeeCCCCCCccceEE
Q 017368 45 LAGRQVRVGGWVKTGREQ--GKGSFAFLEVNDGSCPANLQVIVDKDVADL-GQLVPTGTCVYVEGMLKNPPEGTKQKIEL 121 (373)
Q Consensus 45 ~igk~V~V~GWV~siR~~--Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~-~~~L~~esvV~V~G~v~~~~~~~~g~vEL 121 (373)
..|+.|+|.|.|.+.+.. ++ ++.-+.+.|++|. +++++-.-...| .+.++.|..+.|.|++... .+.+++
T Consensus 57 ~~g~~vtv~g~V~~~~~~~~~~-~~~~v~l~D~tg~--i~l~~F~~n~~~~~~~l~~G~~~~v~Gkv~~~----~~~~qm 129 (681)
T PRK10917 57 RPGEKVTVEGEVLSAEVVFGKR-RRLTVTVSDGTGN--LTLRFFNFNQPYLKKQLKVGKRVAVYGKVKRG----KYGLEM 129 (681)
T ss_pred CCCCEEEEEEEEEEEEEccCCc-eEEEEEEEECCeE--EEEEEEccCcHHHHhhCCCCCEEEEEEEEEec----CCeEEE
Confidence 358999999999876433 33 5788899999985 999876311124 4668999999999999863 234566
Q ss_pred EEeEEEE
Q 017368 122 RVQKVVD 128 (373)
Q Consensus 122 ~v~~i~V 128 (373)
.-.++.+
T Consensus 130 ~~P~~~~ 136 (681)
T PRK10917 130 VHPEYEV 136 (681)
T ss_pred EcCEEEe
Confidence 5555544
No 159
>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=85.50 E-value=6.7 Score=34.18 Aligned_cols=85 Identities=22% Similarity=0.327 Sum_probs=51.6
Q ss_pred eehhhhhcCCCCCCCCCCcEEEEEEEEE--eeecC-CCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEE
Q 017368 30 VLIKSILTRPDGGAGLAGRQVRVGGWVK--TGREQ-GKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEG 106 (373)
Q Consensus 30 ~~Ikdi~~~~~l~~~~igk~V~V~GWV~--siR~~-Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G 106 (373)
.+..++.. .....|+.|+|.|+|. ++... +...+.|. |.|+.. .+.|++..... ...+.|..|.|+|
T Consensus 37 ~t~se~~~----~~~~~~~~vrv~G~V~~gSv~~~~~~~~~~F~-i~D~~~--~i~V~Y~G~~P---d~F~eg~~VVv~G 106 (131)
T PF03100_consen 37 LTPSELAA----EPQKVGRKVRVGGLVVEGSVEYDPDGNTLTFT-ITDGGK--EIPVVYTGPLP---DLFREGQGVVVEG 106 (131)
T ss_dssp E-TTTTTT----TST-TTSEEEEEEEEECTTEEE-TTSSEEEEE-EE-SS---EEEEEEES--C---TT--TTSEEEEEE
T ss_pred cCHHHHhh----ccccCCceEEEeeEEccCCEEEcCCCCEEEEE-EEECCc--EEEEEECCCCC---ccccCCCeEEEEE
Confidence 34556653 2224799999999998 66543 22278875 789854 59999987643 2457899999999
Q ss_pred EeeCCCCCCccceEEEEeEEEEeecCC
Q 017368 107 MLKNPPEGTKQKIELRVQKVVDVGMVD 133 (373)
Q Consensus 107 ~v~~~~~~~~g~vEL~v~~i~VLs~a~ 133 (373)
.+... + -++++ ++|.+|+
T Consensus 107 ~~~~~-----g--~F~A~--~lL~Kcp 124 (131)
T PF03100_consen 107 RLGED-----G--VFEAT--ELLAKCP 124 (131)
T ss_dssp EECCT-----S--EEEEE--EEEETS-
T ss_pred EECCC-----C--EEEEE--EEEeCCC
Confidence 99332 2 35555 4577776
No 160
>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=85.03 E-value=5.7 Score=43.29 Aligned_cols=85 Identities=16% Similarity=0.264 Sum_probs=61.1
Q ss_pred CcEEEEEEEEEe---eec----CCCceeEEEEEEcCCCCceEEEEEeCchh-hhccCCCCCcEEEEE-EEeeCCCCC---
Q 017368 47 GRQVRVGGWVKT---GRE----QGKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVE-GMLKNPPEG--- 114 (373)
Q Consensus 47 gk~V~V~GWV~s---iR~----~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~-~~~~~L~~esvV~V~-G~v~~~~~~--- 114 (373)
...++|+|||.+ +|. .|.+++.-++|.|.+|. |++.+..+.. .|...|..|+++.|. |.|......
T Consensus 190 ~~~wtIkaRV~~Ks~ir~~~~~~gegkvfsv~L~Degg~--Irat~f~~~~dkf~~~l~eG~VY~Is~~~Vk~an~~y~~ 267 (608)
T TIGR00617 190 QNKWTIKARVTNKSEIRTWSNARGEGKLFNVELLDESGE--IRATAFNEQADKFYDIIQEGKVYYISKGSLKPANKQFTN 267 (608)
T ss_pred CCceEEEEEEEeccccceecCCCCCceeeEEEEecCCCe--EEEEECchHHHHHhhhcccCCEEEECceEEEEccccccC
Confidence 346999999975 333 22237888999997764 9999987753 466789999999995 566543211
Q ss_pred CccceEEEEeEEEEeecCC
Q 017368 115 TKQKIELRVQKVVDVGMVD 133 (373)
Q Consensus 115 ~~g~vEL~v~~i~VLs~a~ 133 (373)
...++||....-.++-++.
T Consensus 268 ~~~~yei~f~~~T~I~~~~ 286 (608)
T TIGR00617 268 LGNDYEMTLDRDTVIEECE 286 (608)
T ss_pred CCCCEEEEECCCeEEEECC
Confidence 3467999998777777664
No 161
>PRK13254 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=85.00 E-value=15 Score=33.00 Aligned_cols=87 Identities=25% Similarity=0.394 Sum_probs=58.1
Q ss_pred eehhhhhcCCCCCCCCCCcEEEEEEEEE--eeec-CCCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEE
Q 017368 30 VLIKSILTRPDGGAGLAGRQVRVGGWVK--TGRE-QGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEG 106 (373)
Q Consensus 30 ~~Ikdi~~~~~l~~~~igk~V~V~GWV~--siR~-~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G 106 (373)
.+..++.. .....|+.|+|.|+|. ++.. .+ ..+.| .|.|+.. .|.|++..... ...+-|..|.|+|
T Consensus 38 ~tpse~~~----~~~~~g~~vrvgG~V~~gSi~~~~~-~~~~F-~ltD~~~--~i~V~Y~G~lP---d~F~eg~~VVv~G 106 (148)
T PRK13254 38 YTPSEVAE----GEAPAGRRFRLGGLVEKGSVQRGDG-LTVRF-VVTDGNA--TVPVVYTGILP---DLFREGQGVVAEG 106 (148)
T ss_pred eCHHHHhc----CCccCCCeEEEeEEEecCcEEeCCC-CEEEE-EEEeCCe--EEEEEECCCCC---ccccCCCEEEEEE
Confidence 34456653 2236799999999995 4543 33 26787 5899854 58888876543 2357799999999
Q ss_pred EeeCCCCCCccceEEEEeEEEEeecCCCCCC
Q 017368 107 MLKNPPEGTKQKIELRVQKVVDVGMVDPAKY 137 (373)
Q Consensus 107 ~v~~~~~~~~g~vEL~v~~i~VLs~a~~~~~ 137 (373)
.+... + .++++ +||.+|+ ..|
T Consensus 107 ~~~~~-----g--~F~A~--~vLaKc~-skY 127 (148)
T PRK13254 107 RLQDG-----G--VFVAD--EVLAKHD-ENY 127 (148)
T ss_pred EECCC-----C--eEEEE--EEEecCC-CCC
Confidence 98532 1 35565 5688887 344
No 162
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=84.97 E-value=6.5 Score=36.17 Aligned_cols=52 Identities=15% Similarity=0.198 Sum_probs=39.5
Q ss_pred EEEEEeCchhh-hccCCCCCcEEEEEEEeeCCCC----C-CccceEEEEeEEEEeecC
Q 017368 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKVVDVGMV 132 (373)
Q Consensus 81 IQvVv~~~~~~-~~~~L~~esvV~V~G~v~~~~~----~-~~g~vEL~v~~i~VLs~a 132 (373)
+-|++..+..+ +.+.|+.|+.|.|+|.+..+.- + ....+||.|+.|.+|...
T Consensus 49 i~~v~wgk~Ae~~~~~l~KG~~V~VeGrL~~r~yedkdG~~~~~~eVva~~i~~l~~r 106 (173)
T PRK06751 49 INCVIWRKQAENVANYLKKGSLAGVDGRLQTRNYEGQDGKRVYVTEVLAESVQFLEPR 106 (173)
T ss_pred EEEEEeCcHHHHHHHHcCCCCEEEEEEEEEeCccCCCCCcEEEEEEEEEEEEEeCcCC
Confidence 77887776533 4567999999999999998752 2 234789999999888754
No 163
>PRK07275 single-stranded DNA-binding protein; Provisional
Probab=84.97 E-value=4.7 Score=36.66 Aligned_cols=52 Identities=13% Similarity=0.183 Sum_probs=39.9
Q ss_pred EEEEEeCchhh-hccCCCCCcEEEEEEEeeCCCC----C-CccceEEEEeEEEEeecC
Q 017368 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKVVDVGMV 132 (373)
Q Consensus 81 IQvVv~~~~~~-~~~~L~~esvV~V~G~v~~~~~----~-~~g~vEL~v~~i~VLs~a 132 (373)
|.|++..+..+ ..+.|+.|+-|.|+|.+..+.- | +....||.|++|..|.+.
T Consensus 49 i~vv~wgk~Ae~~~~~l~KG~~V~VeGrl~~r~y~dkdG~k~~~~evva~~i~~l~~~ 106 (162)
T PRK07275 49 INCVIWRQQAENLANWAKKGALIGVTGRIQTRNYENQQGQRVYVTEVVADNFQMLESR 106 (162)
T ss_pred EEEEEEcHHHHHHHHHcCCCCEEEEEEEEEeceEECCCCCEEEEEEEEEeEEEECCCC
Confidence 88888776533 4566899999999999987642 2 345799999999988755
No 164
>PRK07217 replication factor A; Reviewed
Probab=84.94 E-value=12 Score=37.53 Aligned_cols=94 Identities=12% Similarity=0.079 Sum_probs=69.4
Q ss_pred ceehhhhhcCCCCCCCCCCcEEEEEEEEEee--ecCCCceeEE-EEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEE
Q 017368 29 RVLIKSILTRPDGGAGLAGRQVRVGGWVKTG--REQGKGSFAF-LEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVE 105 (373)
Q Consensus 29 r~~Ikdi~~~~~l~~~~igk~V~V~GWV~si--R~~Gk~kl~F-IdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~ 105 (373)
-+.|+||. ..++.|.|.|+|..+ +.++ .+.. -.|-|.||. |..++..+.. ...|..|++|.|.
T Consensus 72 ~~kI~Di~--------~~~~~VsV~aKVl~l~e~~~~--si~qvGllgDETG~--IkfT~W~~s~--~~~leeGd~~rI~ 137 (311)
T PRK07217 72 LVNIADID--------EPEQWVDVTAKVVQLWEPSSD--SIAQVGLLGDETGT--IKFTKWAKSD--LPELEEGKSYLLK 137 (311)
T ss_pred ceeeeecC--------CCCCcEEEEEEEEEecCCCCC--ceEEEEEEEcCCce--EEEEEccCCC--CCcccCCCEEEEE
Confidence 34566664 257899999999877 4444 5666 568999986 9998877531 2348899999999
Q ss_pred EEeeCCCCCCccceEEEEeEEEEeecCCCCCCCCC
Q 017368 106 GMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIP 140 (373)
Q Consensus 106 G~v~~~~~~~~g~vEL~v~~i~VLs~a~~~~~Pi~ 140 (373)
+..+..- .|.++|.+.+...+...+ .+.++.
T Consensus 138 na~v~ey---~G~~~lnlg~~t~I~~~d-e~IeV~ 168 (311)
T PRK07217 138 NVVTDEY---QGRFSVKLNRTTSIEELD-EDIEVG 168 (311)
T ss_pred eEEEeeE---CCEEEEEeCCceEEEeCC-CCcccc
Confidence 9887754 688999999888887765 445543
No 165
>COG3705 HisZ ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]
Probab=84.37 E-value=1.9 Score=44.53 Aligned_cols=33 Identities=18% Similarity=0.334 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHhCCcEEEecCeeecCCC
Q 017368 166 ARIRNALAYATHTFLQKQGFLYIHTPIITTSDC 198 (373)
Q Consensus 166 l~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~~~ 198 (373)
......|...+++.|...||..|+||+|...++
T Consensus 17 ~~~~~~i~~~l~~~f~~~Gy~~v~tP~lE~~d~ 49 (390)
T COG3705 17 ARRKEEIRDQLLALFRAWGYERVETPTLEPADP 49 (390)
T ss_pred HhhHHHHHHHHHHHHHHhCCccccccccchhhh
Confidence 355667888889999999999999999998876
No 166
>PRK07211 replication factor A; Reviewed
Probab=83.36 E-value=7.9 Score=41.17 Aligned_cols=81 Identities=28% Similarity=0.360 Sum_probs=58.6
Q ss_pred CcEEEEEEEEEee---e----cCC-CceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEE-EEeeCCCCCCcc
Q 017368 47 GRQVRVGGWVKTG---R----EQG-KGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVE-GMLKNPPEGTKQ 117 (373)
Q Consensus 47 gk~V~V~GWV~si---R----~~G-k~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~-G~v~~~~~~~~g 117 (373)
+..|.|.|+|.++ | ..| .+++.=+.|-|.||. |.+++..+..+....|..|++|.|. |.+... .+
T Consensus 171 ~~~v~I~grV~~v~~iRtf~r~dGseGkv~sv~L~DeTG~--IR~TlW~d~Ad~~~~le~G~Vv~I~~a~Vre~----~g 244 (485)
T PRK07211 171 LSDVTLVGVVLDTDSVRTFDRDDGSEGRVSNLTVGDETGR--VRVTLWDDRADLAEELDAGESVEIVDGYVRER----DG 244 (485)
T ss_pred CCceEEEEEEEEcCCCeEEECCCCCeeEEEEEEEEcCCCe--EEEEEechhhhhhccCCCCCEEEEEeeEEEec----CC
Confidence 5689999999844 2 222 336777899999995 9999988764433568999999997 555443 47
Q ss_pred ceEEEEeEEEEeecCC
Q 017368 118 KIELRVQKVVDVGMVD 133 (373)
Q Consensus 118 ~vEL~v~~i~VLs~a~ 133 (373)
.+||.+..-..+.++.
T Consensus 245 ~~ELsl~~~s~I~~~~ 260 (485)
T PRK07211 245 SLELHVGDRGAVEEVD 260 (485)
T ss_pred cEEEEECCCceEEECC
Confidence 8999887655555543
No 167
>PRK06293 single-stranded DNA-binding protein; Provisional
Probab=83.18 E-value=9.7 Score=34.72 Aligned_cols=52 Identities=13% Similarity=0.132 Sum_probs=38.7
Q ss_pred EEEEEeCchhh-hccCCCCCcEEEEEEEeeCCCC----C-CccceEEEEeEEEEeecC
Q 017368 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKVVDVGMV 132 (373)
Q Consensus 81 IQvVv~~~~~~-~~~~L~~esvV~V~G~v~~~~~----~-~~g~vEL~v~~i~VLs~a 132 (373)
+.|++..+..+ ..+.|+.|+.|.|+|.+..+.- | ....+||.+++|..++-.
T Consensus 45 i~v~awg~~Ae~v~~yL~KG~~V~VeGrL~~~~y~dkdG~kr~~~eIva~~I~fl~~~ 102 (161)
T PRK06293 45 CRCNIWGNRYDKMLPYLKKGSGVIVAGEMSPESYVDKDGSPQSSLVVSVDTIKFSPFG 102 (161)
T ss_pred EEEEEEhHHHHHHHHhCCCCCEEEEEEEEEeCccCCCCCCEEEEEEEEEeEEEECcCC
Confidence 77777665432 3456899999999999987632 2 335799999999998654
No 168
>PF15072 DUF4539: Domain of unknown function (DUF4539)
Probab=83.16 E-value=11 Score=30.78 Aligned_cols=60 Identities=13% Similarity=0.194 Sum_probs=46.0
Q ss_pred EEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh-hhccCCCCCcEEEEEEEeeCCC
Q 017368 49 QVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPP 112 (373)
Q Consensus 49 ~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~-~~~~~L~~esvV~V~G~v~~~~ 112 (373)
-=.+.|.|++++..+. =+|+.|+|.||. +++.+..+.. ++...|..|+++...-.-.-++
T Consensus 4 Vp~l~v~Iks~~~~~~--D~~v~l~DpTG~--i~~tiH~~v~~~y~~~l~~GavLlLk~V~Vf~p 64 (86)
T PF15072_consen 4 VPCLVVIIKSIVPSSE--DAFVVLKDPTGE--IRGTIHRKVLEEYGDELSPGAVLLLKDVTVFSP 64 (86)
T ss_pred cCEEEEEEEEeeccCC--CeEEEEECCCCc--EEEEEeHHHHhhcCCccccCEEEEEeeeeEEec
Confidence 3468999999999994 479999999996 9999987653 3566788999888764433333
No 169
>PRK08763 single-stranded DNA-binding protein; Provisional
Probab=82.97 E-value=11 Score=34.42 Aligned_cols=52 Identities=17% Similarity=0.291 Sum_probs=38.8
Q ss_pred EEEEEeCchhh-hccCCCCCcEEEEEEEeeCCCC----C-CccceEEEEeEEEEeecC
Q 017368 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKVVDVGMV 132 (373)
Q Consensus 81 IQvVv~~~~~~-~~~~L~~esvV~V~G~v~~~~~----~-~~g~vEL~v~~i~VLs~a 132 (373)
+.|++-.+..+ ..+.|+.|+.|.|+|.+..+.- + ....+||.+++|..|+..
T Consensus 54 ~~Vv~fgk~Ae~v~~~L~KGs~V~VeGrL~~~~y~dkdG~kr~~~eIva~~i~~L~~~ 111 (164)
T PRK08763 54 HRVKFFGKLGEIAGEYLRKGSQCYIEGSIRYDKFTGQDGQERYVTEIVADEMQMLGGR 111 (164)
T ss_pred EEEEEehHHHHHHHHhcCCCCEEEEEEEEEeceeECCCCCEEEEEEEEEeEEEECCCC
Confidence 77777665433 3456899999999999987632 2 235799999999998865
No 170
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=82.53 E-value=3.8 Score=46.96 Aligned_cols=64 Identities=14% Similarity=0.074 Sum_probs=50.1
Q ss_pred CCcEEEEEEEEEeeecC---CCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEEEeeCCC
Q 017368 46 AGRQVRVGGWVKTGREQ---GKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPP 112 (373)
Q Consensus 46 igk~V~V~GWV~siR~~---Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~~~~ 112 (373)
.++.|+|.|.|.++|.. |+ .++|+.|.|.+|. +.+++-++.......|..++++.|+|+...+.
T Consensus 896 ~~~~~~v~g~i~~~~~~~K~g~-~maf~~~eD~~~~--~e~~~F~~~~~~~~~l~~~~~~~~~~~~~~~~ 962 (973)
T PRK07135 896 INTEYRLAIEVKNVKRLRKANK-EYKKVILSDDSVE--ITIFVNDNDYLLFETLKKGDIYEFLISKSKNN 962 (973)
T ss_pred CCCeEEEEEEEEEEEEEeeCCC-eEEEEEEEECCCc--EEEEEcHHHHHHHHHhhcCCEEEEEEEEcCCC
Confidence 46789999999887543 44 6999999999986 99998876543223477899999999987653
No 171
>PRK08402 replication factor A; Reviewed
Probab=82.35 E-value=11 Score=38.42 Aligned_cols=88 Identities=18% Similarity=0.212 Sum_probs=59.6
Q ss_pred ceehhhhhcCCCCCCCCCCcEEEEEEEEEee---e----cCCC-ceeEEEEEEcCCCCceEEEEEeCchhh-hccCCCCC
Q 017368 29 RVLIKSILTRPDGGAGLAGRQVRVGGWVKTG---R----EQGK-GSFAFLEVNDGSCPANLQVIVDKDVAD-LGQLVPTG 99 (373)
Q Consensus 29 r~~Ikdi~~~~~l~~~~igk~V~V~GWV~si---R----~~Gk-~kl~FIdLRDgsg~~~IQvVv~~~~~~-~~~~L~~e 99 (373)
-..|+||.. ..+.|.+.|+|.++ | +.|. +++.=+.|-|.||. +.+++..+... +...|..|
T Consensus 62 ~~kI~dl~~--------g~~~V~v~~rVl~~~~~r~f~rrdG~~~~V~~i~l~DeTG~--ir~TlW~~~a~~~~~~l~~G 131 (355)
T PRK08402 62 LMHISDLVP--------GMRGVNIVGRVLRKYPPREYTKKDGSTGRVASLIIYDDTGR--ARVVLWDAKVAKYYNKINVG 131 (355)
T ss_pred ccCHHHccC--------CCceeeEEEEEEEccCCceeeccCCCcceEEEEEEEcCCCe--EEEEEechhhhhhcccCCCC
Confidence 356788863 34789999999876 3 2232 23444899999996 89999886532 33458999
Q ss_pred cEEEEEE-EeeCCCCCCccceEEEEeEEEEe
Q 017368 100 TCVYVEG-MLKNPPEGTKQKIELRVQKVVDV 129 (373)
Q Consensus 100 svV~V~G-~v~~~~~~~~g~vEL~v~~i~VL 129 (373)
++|.|.| .|...- .|.+||.+.+-..+
T Consensus 132 dvi~I~~a~V~e~~---~G~~eLsvg~~s~i 159 (355)
T PRK08402 132 DVIKVIDAQVRESL---SGLPELHINFRARI 159 (355)
T ss_pred CEEEEECCEEeecC---CCcEEEEECCCceE
Confidence 9999984 554332 46679998654433
No 172
>PRK07218 replication factor A; Provisional
Probab=81.52 E-value=9.4 Score=39.90 Aligned_cols=79 Identities=22% Similarity=0.109 Sum_probs=56.5
Q ss_pred ceehhhhhcCCCCCCCCCCcEEEEEEEEEeee-----cCC-CceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEE
Q 017368 29 RVLIKSILTRPDGGAGLAGRQVRVGGWVKTGR-----EQG-KGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCV 102 (373)
Q Consensus 29 r~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR-----~~G-k~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV 102 (373)
...|+||.. .++.|.|.|+|-++- ..| .+.+.=+.|-|.||. +.+++..+. .|..|++|
T Consensus 58 ~~kI~Di~~--------~~~~V~v~~kVl~i~~rt~r~dg~~g~v~~~~igDeTG~--Ir~tlW~~~-----~l~~Gdvv 122 (423)
T PRK07218 58 SKDIKELST--------DDKNVTVTGRVLTIGERSIRYQGDDHVIYEGILADETGT--ISYTAWKDF-----GLSPGDTV 122 (423)
T ss_pred CccHhhCCC--------CCceeEEEEEEEEecceeEecCCCceEEEEEEEECCCCe--EEEEEECCC-----CCCCCCEE
Confidence 456777752 357899999998872 112 236777889999986 999988753 38999999
Q ss_pred EEEEEeeCCCCCCccceEEEEeE
Q 017368 103 YVEGMLKNPPEGTKQKIELRVQK 125 (373)
Q Consensus 103 ~V~G~v~~~~~~~~g~vEL~v~~ 125 (373)
.|.+-..+.- .|.+||.+.+
T Consensus 123 ~I~na~vre~---~g~~el~ig~ 142 (423)
T PRK07218 123 TIGNAGVREW---DGRPELNIGE 142 (423)
T ss_pred EEeccEeecc---CCceEEeccC
Confidence 9997665543 4667777643
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=81.09 E-value=8.8 Score=34.70 Aligned_cols=52 Identities=25% Similarity=0.425 Sum_probs=38.4
Q ss_pred EEEEEeCchhh-hccCCCCCcEEEEEEEeeCCCC----C-CccceEEEEeEEEEeecC
Q 017368 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKVVDVGMV 132 (373)
Q Consensus 81 IQvVv~~~~~~-~~~~L~~esvV~V~G~v~~~~~----~-~~g~vEL~v~~i~VLs~a 132 (373)
+.|++..+..+ +.+.|+.|+.|.|+|.+..+.- + ....+||.|++|..|...
T Consensus 53 ~~v~~wg~~Ae~~~~~l~KG~~V~V~G~L~~~~~~~kdG~~~~~~ev~a~~i~~L~~~ 110 (164)
T TIGR00621 53 HDIVIFGRLAEVAAQYLKKGSLVYVEGRLRTRKWEDQNGQKRSKTEIIADNVQLLDLL 110 (164)
T ss_pred EEEEEehHHHHHHHHhCCCCCEEEEEEEEEeceEECCCCcEEEEEEEEEEEEeecccc
Confidence 77777765433 4567999999999999987632 2 345689999999777654
No 174
>PRK07218 replication factor A; Provisional
Probab=80.78 E-value=19 Score=37.70 Aligned_cols=77 Identities=16% Similarity=0.123 Sum_probs=54.4
Q ss_pred CcEEEEEEEEEee--e----cCCCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEEEeeCCCCCCccceE
Q 017368 47 GRQVRVGGWVKTG--R----EQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIE 120 (373)
Q Consensus 47 gk~V~V~GWV~si--R----~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~~~~~~~~g~vE 120 (373)
+..|.|.|+|..+ | +-|...+.=..|-|.||. |.+++..+. ..|..|++|.|.|-.++.- .|.+|
T Consensus 172 ~~~V~v~g~Vl~~~~r~f~~~dg~~~v~~giigDeTG~--Ir~tlW~~~----~~l~~Gd~v~I~na~v~e~---~G~~e 242 (423)
T PRK07218 172 DRGVNVEARVLELEHREIDGRDGETTILSGVLADETGR--LPFTDWDPL----PEIEIGASIRIEDAYVREF---RGVPS 242 (423)
T ss_pred CCceEEEEEEEEecceeEEcCCCCeEEEEEEEECCCce--EEEEEeccc----ccCCCCCEEEEeeeEEecc---CCeEE
Confidence 4568889998766 1 123224555678899885 888887763 2478999999999877754 58899
Q ss_pred EEEeEEEEeecC
Q 017368 121 LRVQKVVDVGMV 132 (373)
Q Consensus 121 L~v~~i~VLs~a 132 (373)
|.+.+-..+...
T Consensus 243 lnv~~~t~I~~~ 254 (423)
T PRK07218 243 VNVSEFTTVEAL 254 (423)
T ss_pred EEECCceEEEEC
Confidence 999855444443
No 175
>PRK13732 single-stranded DNA-binding protein; Provisional
Probab=79.19 E-value=13 Score=34.31 Aligned_cols=53 Identities=26% Similarity=0.433 Sum_probs=38.4
Q ss_pred EEEEEeCchhh-hccCCCCCcEEEEEEEeeCCCC---C-CccceEEEEe---EEEEeecCC
Q 017368 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPE---G-TKQKIELRVQ---KVVDVGMVD 133 (373)
Q Consensus 81 IQvVv~~~~~~-~~~~L~~esvV~V~G~v~~~~~---~-~~g~vEL~v~---~i~VLs~a~ 133 (373)
+-|++-.+..+ ..+.|+.|+.|.|+|.+..+.- | ....+||.|+ ++..|++..
T Consensus 56 ~~Vv~wgk~Ae~v~~~L~KG~~V~VeGrL~~r~ye~dG~kr~~~eIiv~~~g~~~fL~~~~ 116 (175)
T PRK13732 56 HRVVLFGKLAEVAGEYLRKGAQVYIEGQLRTRSWEDNGITRYVTEILVKTTGTMQMLGRAP 116 (175)
T ss_pred EEEEEecHHHHHHHHhcCCCCEEEEEEEEEeeeEccCCeEEEEEEEEEeecCeEEEecCCC
Confidence 66777665432 4566899999999999887531 2 3357899998 888888764
No 176
>PRK08182 single-stranded DNA-binding protein; Provisional
Probab=79.11 E-value=19 Score=32.16 Aligned_cols=52 Identities=17% Similarity=0.146 Sum_probs=38.5
Q ss_pred EEEEEeCchh-hhccCCCCCcEEEEEEEeeCCCC----C-CccceEEEEeEEEEeecC
Q 017368 81 LQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKVVDVGMV 132 (373)
Q Consensus 81 IQvVv~~~~~-~~~~~L~~esvV~V~G~v~~~~~----~-~~g~vEL~v~~i~VLs~a 132 (373)
+.|++..... ...+.|+.|+-|.|+|.+..+.- + ....+||.+++|.++...
T Consensus 56 ~~V~~wg~~Ae~v~~~l~KG~~V~V~GrL~~~~w~dkdG~~r~~~eI~a~~i~~l~~r 113 (148)
T PRK08182 56 APVELWHRDAEHWARLYQKGMRVLVEGRMERDEWTDNEDNERVTFKVEARRVGILPYR 113 (148)
T ss_pred EEEEEEhHHHHHHHHhcCCCCEEEEEEEEEecccCCCCCCEEEEEEEEEeEEEEcCCc
Confidence 7788776543 24566999999999999987631 2 235799999999887643
No 177
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=78.87 E-value=24 Score=33.65 Aligned_cols=84 Identities=19% Similarity=0.179 Sum_probs=57.4
Q ss_pred CcEEEEEEEEEe---eecC--CCceeEEEEEEc-----CCCCceEEEEEeCchhhhccCCCCCcEEEEEEEeeCCCCC--
Q 017368 47 GRQVRVGGWVKT---GREQ--GKGSFAFLEVND-----GSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEG-- 114 (373)
Q Consensus 47 gk~V~V~GWV~s---iR~~--Gk~kl~FIdLRD-----gsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~~~~~~-- 114 (373)
-..|.|.|+|.. +|.. |. .++-+.|-= .+.+ +.|++.....++...|+.||-|.|+|.+..+.-.
T Consensus 109 ~N~V~LiGrL~~DPelR~t~~G~-~va~f~lAvnr~~~~td~--i~~v~wg~~Ae~~~~l~KG~~V~V~GrL~sr~y~~k 185 (219)
T PRK05813 109 PNEIFLDGYICKEPVYRTTPFGR-EIADLLLAVNRPYNKSDY--IPCIAWGRNARFCKTLEVGDNIRVWGRVQSREYQKK 185 (219)
T ss_pred ccEEEEEEEccCCCeEEECCCCC-EEEEEEEEEcCCCCCceE--EEEEEEhHHhHHHhhCCCCCEEEEEEEEEecceEcC
Confidence 458999999964 3443 32 344444431 1333 8888887655555569999999999999876321
Q ss_pred -------CccceEEEEeEEEEeecCC
Q 017368 115 -------TKQKIELRVQKVVDVGMVD 133 (373)
Q Consensus 115 -------~~g~vEL~v~~i~VLs~a~ 133 (373)
+...+||.+++++.+++..
T Consensus 186 ~g~~~g~kr~~~eV~v~~i~~l~~~~ 211 (219)
T PRK05813 186 LSEGEVVTKVAYEVSISKMEKVEKEE 211 (219)
T ss_pred CCCccceEEEEEEEEEEEEEEcCChh
Confidence 2346999999999988753
No 178
>PRK06386 replication factor A; Reviewed
Probab=78.01 E-value=20 Score=36.79 Aligned_cols=86 Identities=14% Similarity=0.048 Sum_probs=57.7
Q ss_pred ceehhhhhcCCCCCCCCCCcEEEEEEEEEee------ecCCCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEE
Q 017368 29 RVLIKSILTRPDGGAGLAGRQVRVGGWVKTG------REQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCV 102 (373)
Q Consensus 29 r~~Ikdi~~~~~l~~~~igk~V~V~GWV~si------R~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV 102 (373)
...|+||.. ...-|.|.|+|..+ ++.+.+.+.=+.|-|.||. |.+++.. +.|..|++|
T Consensus 107 ~~KI~DL~~--------g~~~v~V~akVle~~e~e~~~~g~~~~v~sg~lgDeTGr--Ir~TlW~------~~l~eGd~v 170 (358)
T PRK06386 107 LVKIRDLSL--------VTPYVSVIGKITGITKKEYDSDGTSKIVYQGYIEDDTAR--VRISSFG------KPLEDNRFV 170 (358)
T ss_pred ccEeEeccC--------CCCceEEEEEEEEccCceEecCCCccEEEEEEEEcCCCe--EEEEEcc------ccccCCCEE
Confidence 456666642 24567778887554 1222224555667777765 7777654 358899999
Q ss_pred EEEEEeeCCCCCCccceEEEEeEEEEeecCC
Q 017368 103 YVEGMLKNPPEGTKQKIELRVQKVVDVGMVD 133 (373)
Q Consensus 103 ~V~G~v~~~~~~~~g~vEL~v~~i~VLs~a~ 133 (373)
.|.+-.+..- .|.+||.+.+...+.+.+
T Consensus 171 ~i~na~v~e~---~G~~el~v~~~t~I~~~~ 198 (358)
T PRK06386 171 RIENARVSQY---NGYIEISVGNKSVIKEVE 198 (358)
T ss_pred EEeeeEEEcc---CCeEEEEeCCeEEEEECC
Confidence 9999876643 689999999887777654
No 179
>PRK13165 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=77.70 E-value=40 Score=30.82 Aligned_cols=77 Identities=19% Similarity=0.369 Sum_probs=54.8
Q ss_pred CCCcEEEEEEEEE--eeecCCCc-eeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEEEeeCCCCCCccceEE
Q 017368 45 LAGRQVRVGGWVK--TGREQGKG-SFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIEL 121 (373)
Q Consensus 45 ~igk~V~V~GWV~--siR~~Gk~-kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL 121 (373)
..|+.++|.|.|. ++.+.+.+ .+.| +|.|+.. .+.|....-.. ...+-|.-|.|+|.+.... .+
T Consensus 55 ~~g~~iRvgG~V~~GSi~r~~~~l~v~F-~vtD~~~--~v~V~Y~GilP---DlFrEG~gVVveG~~~~~g-------~F 121 (160)
T PRK13165 55 EVGQRLRVGGMVMPGSVQRDPNSLKVSF-TLYDAGG--SVTVTYEGILP---DLFREGQGIVAQGVLEEGN-------HI 121 (160)
T ss_pred CCCCEEEEeeEEeCCcEEECCCCeEEEE-EEEcCCe--EEEEEEcccCC---ccccCCCeEEEEEEECCCC-------eE
Confidence 4799999999998 88766532 3566 6899865 58888876543 2457799999999996421 24
Q ss_pred EEeEEEEeecCCCCCC
Q 017368 122 RVQKVVDVGMVDPAKY 137 (373)
Q Consensus 122 ~v~~i~VLs~a~~~~~ 137 (373)
.++ +|+.+|+ ..|
T Consensus 122 ~A~--~vLAKhd-ekY 134 (160)
T PRK13165 122 EAK--EVLAKHD-ENY 134 (160)
T ss_pred EEE--EEEecCC-CCC
Confidence 454 5788897 445
No 180
>COG3689 Predicted membrane protein [Function unknown]
Probab=76.31 E-value=15 Score=36.10 Aligned_cols=95 Identities=20% Similarity=0.201 Sum_probs=63.9
Q ss_pred hhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh------hhccCCCCCcEEEEEE
Q 017368 33 KSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA------DLGQLVPTGTCVYVEG 106 (373)
Q Consensus 33 kdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~------~~~~~L~~esvV~V~G 106 (373)
..|++ ...+..|++|.+.|+|.+=-..++ +-.|| .|= |+ +=|+++.... +-...++..++|.|+|
T Consensus 164 ~~iy~---~pdef~Gk~Ie~tGFVy~~~~~~~-N~lfl-aRF--gi--icC~ADa~vygl~v~~~~~~~y~ndtWltvkG 234 (271)
T COG3689 164 EEIYN---YPDEFAGKKIEFTGFVYNDESFPK-NYLFL-ARF--GI--ICCAADAGVYGLLVELDNQTDYKNDTWLTVKG 234 (271)
T ss_pred HHHhc---CchhhcCceEEEEEEEECCCCCCc-ceeeh-hhh--he--eeeeccceeEEEEEEccccccCCCCceEEEEe
Confidence 34554 355788999999999988656663 34443 553 33 6666665431 1123478999999999
Q ss_pred EeeCCCCC--CccceEEEEeEEEEeecCCCCCC
Q 017368 107 MLKNPPEG--TKQKIELRVQKVVDVGMVDPAKY 137 (373)
Q Consensus 107 ~v~~~~~~--~~g~vEL~v~~i~VLs~a~~~~~ 137 (373)
++...--. ...-.-|+|.+++++-+.+ .||
T Consensus 235 tl~~e~~~~~~~~ipvi~v~sv~~I~kP~-nPY 266 (271)
T COG3689 235 TLSSEYLSDFKKRIPVIEVDSVEVIPKPA-NPY 266 (271)
T ss_pred EEEeeecCchhhcCcEEEeeeeeecCCCC-CCc
Confidence 99875322 2455779999999998775 444
No 181
>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=76.03 E-value=6.2 Score=31.39 Aligned_cols=50 Identities=20% Similarity=0.308 Sum_probs=36.7
Q ss_pred eEEEEEeCchhh-hccCCCCCcEEEEEEEeeCCCCC-----CccceEEEEeEEEEe
Q 017368 80 NLQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPEG-----TKQKIELRVQKVVDV 129 (373)
Q Consensus 80 ~IQvVv~~~~~~-~~~~L~~esvV~V~G~v~~~~~~-----~~g~vEL~v~~i~VL 129 (373)
.++|.+..+..+ ..+.++.||.|.|+|.+....-. ....++|.+++|.++
T Consensus 45 ~~~v~~~g~~a~~~~~~~~kG~~V~v~G~l~~~~~~~~~g~~~~~~~i~~~~i~~~ 100 (100)
T cd04496 45 WIRVVAFGKLAENAAKYLKKGDLVYVEGRLRTRSWEDKDGQKRYGTEVVADRIEFL 100 (100)
T ss_pred EEEEEEEhHHHHHHHHHhCCCCEEEEEEEEEeceeECCCCCEEEEEEEEEEEEEEC
Confidence 488888776433 45679999999999999886421 235688888887653
No 182
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=75.53 E-value=25 Score=42.18 Aligned_cols=82 Identities=17% Similarity=0.239 Sum_probs=54.0
Q ss_pred CCcEEEEEEEEEee--ecCCCc-eeEEEEEEcCCCCceEEEEEeCch-hhhccCCCCCcEEEEEEEeeCCCCCCccceEE
Q 017368 46 AGRQVRVGGWVKTG--REQGKG-SFAFLEVNDGSCPANLQVIVDKDV-ADLGQLVPTGTCVYVEGMLKNPPEGTKQKIEL 121 (373)
Q Consensus 46 igk~V~V~GWV~si--R~~Gk~-kl~FIdLRDgsg~~~IQvVv~~~~-~~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL 121 (373)
.+..|+|.|.|-.+ |..+++ .+.=+.|.|.+..-.+++.+..+. .+....|+.|++|.|.|.+....- .+++.+
T Consensus 235 ~~~~v~i~G~if~~e~~~~k~~~~~~~~~~td~~~s~~~k~f~~~~~~~~~~~~~~~g~~v~~~g~~~~d~~--~~~~~~ 312 (1437)
T PRK00448 235 EERRVVVEGYVFKVEIKELKSGRHILTFKITDYTSSIIVKKFSRDKEDLKKFDEIKKGDWVKVRGSVQNDTF--TRDLVM 312 (1437)
T ss_pred cCCeEEEEEEEEEEEEEeccCCCEEEEEEEEcCCCCEEEEEEecCcchhHHHhcCCCCCEEEEEEEEeccCC--CCceEE
Confidence 45799999999765 333322 355578999987634444442221 223466899999999999987542 467777
Q ss_pred EEeEEEEe
Q 017368 122 RVQKVVDV 129 (373)
Q Consensus 122 ~v~~i~VL 129 (373)
.+..+..+
T Consensus 313 ~~~~~~~~ 320 (1437)
T PRK00448 313 NAQDINEI 320 (1437)
T ss_pred Eeeeeeec
Confidence 77776644
No 183
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=74.63 E-value=15 Score=38.39 Aligned_cols=74 Identities=20% Similarity=0.290 Sum_probs=53.7
Q ss_pred CcEEEEEEEEEee--ecCCCceeEEEEEEcCCCCceEEEEEeCchh---hhccCCCCCcEEEEEEEeeCCCCCCccceEE
Q 017368 47 GRQVRVGGWVKTG--REQGKGSFAFLEVNDGSCPANLQVIVDKDVA---DLGQLVPTGTCVYVEGMLKNPPEGTKQKIEL 121 (373)
Q Consensus 47 gk~V~V~GWV~si--R~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~---~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL 121 (373)
...++|.|.|... +.-| +..|+.+.|+.|. |-+++-.... ..+..|..||.|.+.|.++.. . |
T Consensus 266 ~~~~~v~g~v~~~p~~ieG--ghv~v~i~d~~G~--I~~~A~eptk~fr~~a~~L~pGD~i~~~G~~~~~------~--~ 333 (421)
T COG1571 266 YSKYRVVGRVEAEPRAIEG--GHVVVEITDGEGE--IGAVAFEPTKEFRELARKLIPGDEITVYGSVKPG------T--L 333 (421)
T ss_pred ccceEEEEEEecccEEeeC--CEEEEEecCCCce--EEEEEecccccchHHHHhcCCCCEEEEecCcccc------c--e
Confidence 4578888887543 4456 7999999999985 8888754432 245678999999999998653 2 6
Q ss_pred EEeEEEEeecC
Q 017368 122 RVQKVVDVGMV 132 (373)
Q Consensus 122 ~v~~i~VLs~a 132 (373)
.+++++|+.-+
T Consensus 334 n~ek~~v~~l~ 344 (421)
T COG1571 334 NLEKFQVLKLA 344 (421)
T ss_pred eEEEEEEEEee
Confidence 77777665543
No 184
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=74.53 E-value=19 Score=39.24 Aligned_cols=74 Identities=20% Similarity=0.135 Sum_probs=50.7
Q ss_pred CCcEEEEEEEEEeeec--CCCceeEEEEEEc-CCCCceEEEEEeCchhhhccCCCCCcEEEEEEEeeCCCCCCccceEEE
Q 017368 46 AGRQVRVGGWVKTGRE--QGKGSFAFLEVND-GSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELR 122 (373)
Q Consensus 46 igk~V~V~GWV~siR~--~Gk~kl~FIdLRD-gsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~ 122 (373)
.|+.++|.|.|.+... .++.++.-+.+.| ++|. +.+++-... -..+.++.|..+.|.|++.... +.+++.
T Consensus 31 ~g~~~~~~~~v~~~~~~~~~~~~~~~~~~~d~~~~~--~~~~~F~~~-~~~~~~~~g~~~~~~Gk~~~~~----~~~~~~ 103 (630)
T TIGR00643 31 PGERATIVGEVLSHCIFGFKRRKVLKLRLKDGGYKK--LELRFFNRA-FLKKKFKVGSKVVVYGKVKSSK----FKAYLI 103 (630)
T ss_pred CCCEEEEEEEEEEeEeccCCCCceEEEEEEECCCCE--EEEEEECCH-HHHhhCCCCCEEEEEEEEEeeC----CEEEEE
Confidence 5889999999875421 1211467788999 8875 999876532 1235689999999999998642 344444
Q ss_pred EeEE
Q 017368 123 VQKV 126 (373)
Q Consensus 123 v~~i 126 (373)
-.++
T Consensus 104 ~p~~ 107 (630)
T TIGR00643 104 HPEF 107 (630)
T ss_pred CCEE
Confidence 4444
No 185
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=74.46 E-value=25 Score=38.82 Aligned_cols=81 Identities=19% Similarity=0.179 Sum_probs=58.5
Q ss_pred CCCCcEEEEEEEEEeeecC---CCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEEEeeCCCCCCccceE
Q 017368 44 GLAGRQVRVGGWVKTGREQ---GKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIE 120 (373)
Q Consensus 44 ~~igk~V~V~GWV~siR~~---Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~~~~~~~~g~vE 120 (373)
...|..|++.|.|.+.-.. ++ ++.=+.+.|++|. |-+++-....-..+.++.|..|.|.|++... .+..+
T Consensus 57 ~~~g~~vti~g~V~~~~~~~~~~~-~~l~v~~~d~~~~--l~l~fFn~~~~l~~~~~~G~~v~v~Gk~~~~----~~~~~ 129 (677)
T COG1200 57 ARPGEIVTIEGTVLSHEKFPFGKR-KLLKVTLSDGTGV--LTLVFFNFPAYLKKKLKVGERVIVYGKVKRF----KGGLQ 129 (677)
T ss_pred cCCCceEEEEEEEEeeeccCCCCC-ceEEEEEecCcEE--EEEEEECccHHHHhhCCCCCEEEEEEEEeec----cCceE
Confidence 3468999999999666433 44 5666789998875 8887754432123568999999999999874 46777
Q ss_pred EEEeEEEEeec
Q 017368 121 LRVQKVVDVGM 131 (373)
Q Consensus 121 L~v~~i~VLs~ 131 (373)
+.--++.+...
T Consensus 130 ~~hpe~~~~~~ 140 (677)
T COG1200 130 ITHPEYIVNDD 140 (677)
T ss_pred EEcceEEecCC
Confidence 77777777653
No 186
>PRK02801 primosomal replication protein N; Provisional
Probab=74.38 E-value=11 Score=31.48 Aligned_cols=48 Identities=21% Similarity=0.376 Sum_probs=34.5
Q ss_pred EEEEEeCchhh-hccCCCCCcEEEEEEEeeC--CCCCCccceEEEEeEEEEe
Q 017368 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKN--PPEGTKQKIELRVQKVVDV 129 (373)
Q Consensus 81 IQvVv~~~~~~-~~~~L~~esvV~V~G~v~~--~~~~~~g~vEL~v~~i~VL 129 (373)
|+||+..+..+ ..+-|+.|+-|.|+|.+.. .+.+ ...+.|+++.++.+
T Consensus 50 i~~va~G~~Ae~~~~~l~kGs~v~V~G~L~~~~~~~g-~~~~~v~~~~i~~l 100 (101)
T PRK02801 50 MPVIVSGNQFQAITQSITVGSKITVQGFISCHQGRNG-LSKLVLHAEQIELI 100 (101)
T ss_pred EEEEEEcHHHHHHHhhcCCCCEEEEEEEEEEeECCCC-CEEEEEEEEEEEEC
Confidence 88988876544 3456899999999999986 2222 23366888888765
No 187
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=73.63 E-value=9.5 Score=32.13 Aligned_cols=52 Identities=13% Similarity=0.204 Sum_probs=38.7
Q ss_pred EEEEEeCchh-hhccCCCCCcEEEEEEEeeCCCC----C-CccceEEEEeEEEEeecC
Q 017368 81 LQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKVVDVGMV 132 (373)
Q Consensus 81 IQvVv~~~~~-~~~~~L~~esvV~V~G~v~~~~~----~-~~g~vEL~v~~i~VLs~a 132 (373)
+.|++-.+.. .+.+.|..||-|.|+|.+..+.- | ....+||.++++..|+..
T Consensus 49 ~~v~~wg~~Ae~~~~~l~KG~~V~V~G~l~~~~~~~~~G~~~~~~ei~a~~i~~l~~~ 106 (112)
T PRK06752 49 INCVVWRKSAENVTEYCTKGSLVGITGRIHTRNYEDDQGKRIYITEVVIESITFLERR 106 (112)
T ss_pred EEEEEehHHHHHHHHhcCCCCEEEEEEEEEeCccCCCCCcEEEEEEEEEEEEEECCCC
Confidence 6677666543 34567899999999999987642 2 234789999999998764
No 188
>PRK13150 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=73.41 E-value=68 Score=29.33 Aligned_cols=77 Identities=23% Similarity=0.346 Sum_probs=55.1
Q ss_pred CCCcEEEEEEEEE--eeecCCC-ceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEEEeeCCCCCCccceEE
Q 017368 45 LAGRQVRVGGWVK--TGREQGK-GSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIEL 121 (373)
Q Consensus 45 ~igk~V~V~GWV~--siR~~Gk-~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL 121 (373)
..|+.++|.|.|. ++.+.+. ..+.| +|.|+.. .|.|.+..-.. ...+-|.-|.++|.+.... -+
T Consensus 55 ~~g~~iRvgG~V~~GSv~r~~~~~~v~F-~vtD~~~--~v~V~Y~GilP---DlFrEG~gVVveG~~~~~g-------~F 121 (159)
T PRK13150 55 AVGQRLRVGGMVMPGSVRRDPDSLKVNF-SLYDAEG--SVTVSYEGILP---DLFREGQGVVVQGTLEKGN-------HV 121 (159)
T ss_pred CCCCEEEEeeEEeCCcEEECCCCcEEEE-EEEcCCc--EEEEEEeccCC---ccccCCCeEEEEEEECCCC-------EE
Confidence 4699999999998 7866542 13666 6999865 59998876543 3457899999999996431 24
Q ss_pred EEeEEEEeecCCCCCC
Q 017368 122 RVQKVVDVGMVDPAKY 137 (373)
Q Consensus 122 ~v~~i~VLs~a~~~~~ 137 (373)
+++ +||.+|+ ..|
T Consensus 122 ~A~--evLAKhd-ekY 134 (159)
T PRK13150 122 LAH--EVLAKHD-ENY 134 (159)
T ss_pred EEe--EEEeCCC-CCC
Confidence 454 6788997 445
No 189
>PRK13159 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=71.64 E-value=60 Score=29.54 Aligned_cols=87 Identities=21% Similarity=0.266 Sum_probs=59.0
Q ss_pred eehhhhhcCCCCCCCCCCcEEEEEEEEE--eeecCCCc-eeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEE
Q 017368 30 VLIKSILTRPDGGAGLAGRQVRVGGWVK--TGREQGKG-SFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEG 106 (373)
Q Consensus 30 ~~Ikdi~~~~~l~~~~igk~V~V~GWV~--siR~~Gk~-kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G 106 (373)
.+..++.. .....++.++|.|.|. |+.+.+.+ .+.| .+.|+.. .+.|.+..-.. ...+-|.-|.++|
T Consensus 38 ~tpsEv~~----~~~~~~~~~RlGG~V~~GSv~r~~~~~~v~F-~vtD~~~--~v~V~Y~GilP---DlFrEGqgVVaeG 107 (155)
T PRK13159 38 FTPSQVRA----GAAAGYQQFRLGGMVKAGSIQRAADSLKVSF-TVIDKNA--ATQVEYTGILP---DLFRDNQSVIANG 107 (155)
T ss_pred ECHHHHhc----CCcccCCeEEEccEEecCcEEEcCCCcEEEE-EEEcCCc--EEEEEEccCCC---ccccCCCeEEEEE
Confidence 44566653 2234579999999998 88776532 3576 5889865 49988876433 2457799999999
Q ss_pred EeeCCCCCCccceEEEEeEEEEeecCCCCCC
Q 017368 107 MLKNPPEGTKQKIELRVQKVVDVGMVDPAKY 137 (373)
Q Consensus 107 ~v~~~~~~~~g~vEL~v~~i~VLs~a~~~~~ 137 (373)
.+.. | -++++ +|+.+|+ ..|
T Consensus 108 ~~~~------g--~F~A~--~vLAKHd-e~Y 127 (155)
T PRK13159 108 RMQG------G--RFVAN--EVLAKHD-ETY 127 (155)
T ss_pred EEcC------C--EEEEe--EEEecCC-CcC
Confidence 9851 1 34554 5788887 444
No 190
>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=70.12 E-value=14 Score=28.90 Aligned_cols=47 Identities=15% Similarity=0.136 Sum_probs=32.8
Q ss_pred EEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEE
Q 017368 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVE 105 (373)
Q Consensus 51 ~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~ 105 (373)
.|.|+|.++..+| +|+++-- .| +...+......+...++.|+.|.+.
T Consensus 7 ~v~g~V~si~d~G----~~v~~g~-~g---v~Gfl~~~~~~~~~~~~~Gq~v~~~ 53 (74)
T cd05694 7 VLSGCVSSVEDHG----YILDIGI-PG---TTGFLPKKDAGNFSKLKVGQLLLCV 53 (74)
T ss_pred EEEEEEEEEeCCE----EEEEeCC-CC---cEEEEEHHHCCcccccCCCCEEEEE
Confidence 4999999999999 7899831 12 5666665433222568899988775
No 191
>PRK09616 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed
Probab=70.09 E-value=37 Score=36.51 Aligned_cols=47 Identities=9% Similarity=0.048 Sum_probs=31.2
Q ss_pred ceEEEecceecCCCCCCCCcCccccceeeecC--CCHHHHHHHHHHHHHh
Q 017368 323 NVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAF--SDLKVRWTYTAHCLVF 370 (373)
Q Consensus 323 ~vy~~~p~fRaE~~~t~rhl~EF~~le~e~~~--~~~~~~~~~~~~~~~~ 370 (373)
++|++|.||+.+..+ ..|+.|++++-.-++- +++.++--.+..++..
T Consensus 440 ~lFEiG~Vf~~~~~~-~~~~~e~~~l~~~~~g~~~df~dlKg~ve~ll~~ 488 (552)
T PRK09616 440 KIFEIGDVVLIDEST-ETGTRTERKLAAAIAHSEASFTEIKSVVQALLRE 488 (552)
T ss_pred eEEEeeEEEecCCcc-ccCcchhhEEEEEEECCCCCHHHHHHHHHHHHHH
Confidence 799999999986533 2377799988876664 2444444455555443
No 192
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=69.59 E-value=7.8 Score=36.04 Aligned_cols=52 Identities=21% Similarity=0.385 Sum_probs=39.6
Q ss_pred EEEEEeCchhh-hccCCCCCcEEEEEEEeeCCCC----C-CccceEEEEeEEEEeecC
Q 017368 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKVVDVGMV 132 (373)
Q Consensus 81 IQvVv~~~~~~-~~~~L~~esvV~V~G~v~~~~~----~-~~g~vEL~v~~i~VLs~a 132 (373)
+.|++..+..+ +.+.|+.|+.|.|+|.+..+.- + ....+||++++|.+|+..
T Consensus 54 ~~V~~fGk~AE~v~~~LkKGs~V~VeGrL~~~~yeDkdG~kr~~~eVvA~~V~fL~sr 111 (182)
T PRK06958 54 HRVAFFGRLAEIVGEYLKKGSSVYIEGRIRTRKWQGQDGQDRYSTEIVADQMQMLGGR 111 (182)
T ss_pred EEEEEehHHHHHHHHHhCCCCEEEEEEEEEeCceECCCCcEEEEEEEEEeEEEECCCC
Confidence 77777665432 4567999999999999987632 2 346799999999999864
No 193
>PRK06642 single-stranded DNA-binding protein; Provisional
Probab=68.58 E-value=38 Score=30.36 Aligned_cols=52 Identities=21% Similarity=0.368 Sum_probs=36.2
Q ss_pred EEEEEeCc-hhh-hccCCCCCcEEEEEEEeeCCCC----C-CccceEEEEeEE----EEeecC
Q 017368 81 LQVIVDKD-VAD-LGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKV----VDVGMV 132 (373)
Q Consensus 81 IQvVv~~~-~~~-~~~~L~~esvV~V~G~v~~~~~----~-~~g~vEL~v~~i----~VLs~a 132 (373)
+.|++-.+ ..+ ..+.|+.|+.|.|+|.+..+.- | .....||.+.++ ..|+..
T Consensus 55 ~~v~~~g~~~Ae~~~~~l~KG~~V~V~GrL~~~~y~dkdG~~r~~~eVvv~~~~~~i~fl~~k 117 (152)
T PRK06642 55 HRVVIFSEGLVSVVERYVTKGSKLYIEGSLQTRKWNDNSGQEKYTTEVVLQNFNSQLILLDSK 117 (152)
T ss_pred EEEEEeChHHHHHHHHhCCCCCEEEEEEEEEeCeeECCCCCEEEEEEEEEEecccceEeccCC
Confidence 77887664 332 4566899999999999987632 2 235688988876 555543
No 194
>PRK00036 primosomal replication protein N; Reviewed
Probab=67.74 E-value=14 Score=31.60 Aligned_cols=51 Identities=24% Similarity=0.274 Sum_probs=38.6
Q ss_pred EEEEEeCchhhhccCCCCCcEEEEEEEeeCCCCCCccceEEEEeEEEEeecC
Q 017368 81 LQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMV 132 (373)
Q Consensus 81 IQvVv~~~~~~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~i~VLs~a 132 (373)
||+|+..+.......++.|+.|.|+|.+.... .....+=||++.|+.+...
T Consensus 49 i~ava~G~~a~~~~~l~~Gs~v~v~GFLa~~~-~~~~~LVLHi~~Ie~i~~~ 99 (107)
T PRK00036 49 ISAVALGDLALLLADTPLGTEMQVQGFLAPAR-KDSVKVKLHLQQARRIAGS 99 (107)
T ss_pred EEEEEEhhHHHHhcccCCCCEEEEEEEEEECC-CCCCcEEEEhHHeEEcccc
Confidence 88888775544445689999999999999743 2346788999999888544
No 195
>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=67.58 E-value=4.8 Score=32.43 Aligned_cols=49 Identities=22% Similarity=0.483 Sum_probs=31.9
Q ss_pred EEEEEeCchhh-hccCCCCCcEEEEEEEeeCCC----CC-CccceEEEEeEEEEe
Q 017368 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPP----EG-TKQKIELRVQKVVDV 129 (373)
Q Consensus 81 IQvVv~~~~~~-~~~~L~~esvV~V~G~v~~~~----~~-~~g~vEL~v~~i~VL 129 (373)
++|++..+..+ ..+.|+.||.|.|+|.+.... .| ....+||.+++|.+|
T Consensus 50 ~~v~~~g~~A~~~~~~l~kG~~V~V~G~l~~~~~~~~~G~~~~~~~i~a~~i~fl 104 (104)
T PF00436_consen 50 INVVAWGKLAENVAEYLKKGDRVYVEGRLRTRTYEDKDGQKRYRVEIIADNIEFL 104 (104)
T ss_dssp EEEEEEHHHHHHHHHH--TT-EEEEEEEEEEEEEESTTSSEEEEEEEEEEEEEE-
T ss_pred EEEEeeeecccccceEEcCCCEEEEEEEEEeeEEECCCCCEEEEEEEEEEEEEeC
Confidence 67776655433 345689999999999988743 12 345699999998865
No 196
>KOG2509 consensus Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=65.69 E-value=11 Score=39.54 Aligned_cols=34 Identities=29% Similarity=0.343 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEecCeeecC
Q 017368 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (373)
Q Consensus 163 ~~il~iRS~i~~~iR~fL~~~gFiEV~TPiLt~~ 196 (373)
.....+-.+++++.-+|+.++||+-+.||.|...
T Consensus 182 g~~a~LeqALi~yal~~l~~kGy~pl~~P~i~rk 215 (455)
T KOG2509|consen 182 GAGAFLEQALINYALDFLNAKGYTPLTTPDILRK 215 (455)
T ss_pred CHHHHHHHHHHHHHHHHHHHcCCccccCchhhhH
Confidence 3456788899999999999999999999988754
No 197
>PRK05733 single-stranded DNA-binding protein; Provisional
Probab=63.61 E-value=50 Score=30.38 Aligned_cols=52 Identities=27% Similarity=0.335 Sum_probs=37.3
Q ss_pred EEEEEeCchh-hhccCCCCCcEEEEEEEeeCCCC---C-CccceEEEEe---EEEEeecC
Q 017368 81 LQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPE---G-TKQKIELRVQ---KVVDVGMV 132 (373)
Q Consensus 81 IQvVv~~~~~-~~~~~L~~esvV~V~G~v~~~~~---~-~~g~vEL~v~---~i~VLs~a 132 (373)
+-|++-.+.. ...+.|+.|+.|.|+|.+..+.- + ....+||.+. .+.+|+..
T Consensus 55 ~~Vv~fgk~Ae~v~~~l~KGs~V~VeGrLr~~~y~kdG~~r~~~eVvvd~~g~v~~L~~~ 114 (172)
T PRK05733 55 HRVSLFGKVAEIAGEYLRKGSQVYIEGKLQTREWEKDGIKRYTTEIVVDMQGTMQLLGGR 114 (172)
T ss_pred EEEEEehHHHHHHHHHhCCCCEEEEEEEEEeCcEecCCEEEEEEEEEEeecCeEEECcCC
Confidence 7777766542 34567899999999999987642 2 2356888888 78887643
No 198
>KOG1637 consensus Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=63.27 E-value=9.6 Score=40.41 Aligned_cols=48 Identities=21% Similarity=0.234 Sum_probs=36.2
Q ss_pred eEEEecceecCCCCCC---CCcCccccceeeecCCCHHHHHHHHHHHHHhcc
Q 017368 324 VYTFGPTFRAEHSHTS---RHLAEFWMVEPEMAFSDLKVRWTYTAHCLVFEK 372 (373)
Q Consensus 324 vy~~~p~fRaE~~~t~---rhl~EF~~le~e~~~~~~~~~~~~~~~~~~~~~ 372 (373)
.=.||+.-|||-|.+- -|+.+|.+=|.-. |+..+.+.+.||.|+++++
T Consensus 276 ~aDFg~LHRnE~SGaLsGLTRvRrFqQDDaHI-FCt~~Qi~~Eik~~l~fl~ 326 (560)
T KOG1637|consen 276 FADFGVLHRNEASGALSGLTRVRRFQQDDAHI-FCTPDQVKEEIKGCLDFLD 326 (560)
T ss_pred ccCcceeeeccccccccccceeeeecccCceE-EecCccHHHHHHHHHHHHH
Confidence 3468889999987543 5888999988877 7877777777777777654
No 199
>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=61.72 E-value=49 Score=24.56 Aligned_cols=50 Identities=18% Similarity=0.179 Sum_probs=38.3
Q ss_pred EEEEEEEeeecCCCceeEEEEEEcC-CCCceEEEEEeCchhhhccCCCCCcEEEEE
Q 017368 51 RVGGWVKTGREQGKGSFAFLEVNDG-SCPANLQVIVDKDVADLGQLVPTGTCVYVE 105 (373)
Q Consensus 51 ~V~GWV~siR~~Gk~kl~FIdLRDg-sg~~~IQvVv~~~~~~~~~~L~~esvV~V~ 105 (373)
.+.|.|..++..| -.+.++|... ++ ..|.+-++.+. ....+..|+.|.+.
T Consensus 6 ~l~a~V~~v~~~G--~~vRlEl~~~~~~-~~iEvel~~~~--~~l~l~~G~~V~l~ 56 (58)
T PF12857_consen 6 GLPARVRRVRPVG--PEVRLELKRLDDG-EPIEVELPRER--RQLGLQPGDRVYLR 56 (58)
T ss_pred cEeEEEEEEEecC--CeEEEEEEECCCC-CEEEEEeCHhH--HhcCCCCCCEEEEE
Confidence 3788999999999 8999999766 44 47999888764 22235669998875
No 200
>PRK07080 hypothetical protein; Validated
Probab=60.68 E-value=9.1 Score=38.54 Aligned_cols=40 Identities=18% Similarity=0.096 Sum_probs=30.0
Q ss_pred CceEEE-ecceecCCCCCCCCcCccccceeeecCCCHHHHHH
Q 017368 322 SNVYTF-GPTFRAEHSHTSRHLAEFWMVEPEMAFSDLKVRWT 362 (373)
Q Consensus 322 ~~vy~~-~p~fRaE~~~t~rhl~EF~~le~e~~~~~~~~~~~ 362 (373)
+++|+. |.|||.|.++..+-+.||.|.|.-. ..+-+.+.+
T Consensus 152 g~~~dv~g~CFR~E~s~dl~Rl~~F~mrE~V~-iGt~e~v~~ 192 (317)
T PRK07080 152 GRLVDVASYCFRHEPSLDPARMQLFRMREYVR-IGTPEQIVA 192 (317)
T ss_pred CcEEEeeeeeeccCCCCCcHHHhheeeeEEEE-ecCHHHHHH
Confidence 366665 8899999998888889999999654 335555544
No 201
>PRK14894 glycyl-tRNA synthetase; Provisional
Probab=59.88 E-value=7.4 Score=41.72 Aligned_cols=35 Identities=26% Similarity=0.291 Sum_probs=25.8
Q ss_pred eEEEecceecCCCCCC--CCcCccccceeeecCCCHHH
Q 017368 324 VYTFGPTFRAEHSHTS--RHLAEFWMVEPEMAFSDLKV 359 (373)
Q Consensus 324 vy~~~p~fRaE~~~t~--rhl~EF~~le~e~~~~~~~~ 359 (373)
+-+||.+||||=+-.+ --+-||+|+|+|. |++-.+
T Consensus 168 iaQIGk~FRNEIsPr~~l~R~REF~q~EiE~-Fv~P~~ 204 (539)
T PRK14894 168 IAQVGKAFRNEINPRNFLFRVREFEQMEIEY-FVMPGT 204 (539)
T ss_pred EEeeeccccCccCCCCceeecccchhheEEE-EeCCCc
Confidence 6799999999954211 1356999999998 776543
No 202
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=56.39 E-value=28 Score=30.28 Aligned_cols=52 Identities=19% Similarity=0.279 Sum_probs=37.9
Q ss_pred EEEEEeCchhh-hccCCCCCcEEEEEEEeeCCCC---C-CccceEEEEeEEEEeecC
Q 017368 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPE---G-TKQKIELRVQKVVDVGMV 132 (373)
Q Consensus 81 IQvVv~~~~~~-~~~~L~~esvV~V~G~v~~~~~---~-~~g~vEL~v~~i~VLs~a 132 (373)
+-|++-....+ ..+.|+.|+.|.|+|.+..+.- + ....+||.++++.+|...
T Consensus 49 ~~v~~fg~~Ae~v~~~l~KG~~V~V~Grl~~~~y~kdG~~~~~~eviv~~i~~l~~k 105 (131)
T PRK07274 49 INVVLWGKLAETLASYASKGSLISIDGELRTRKYEKDGQTHYVTEVLCQSFQLLESR 105 (131)
T ss_pred EEEEEehHHHHHHHHHcCCCCEEEEEEEEEeccCccCCcEEEEEEEEEEEEEECcCC
Confidence 66666654433 4566999999999999988643 2 235689999999988743
No 203
>KOG1035 consensus eIF-2alpha kinase GCN2 [Translation, ribosomal structure and biogenesis]
Probab=56.32 E-value=7.3 Score=45.56 Aligned_cols=30 Identities=17% Similarity=0.331 Sum_probs=25.5
Q ss_pred HHHHHHHHHHHHHHHHHhCCcEEEecCeee
Q 017368 165 VARIRNALAYATHTFLQKQGFLYIHTPIIT 194 (373)
Q Consensus 165 il~iRS~i~~~iR~fL~~~gFiEV~TPiLt 194 (373)
.-.+|+.+...+-+.|.++|++|++||-+.
T Consensus 931 ~~~l~~~v~e~~~~ifr~Hga~~l~tpp~~ 960 (1351)
T KOG1035|consen 931 NNELREYVVEEVVKIFRKHGAIELETPPLS 960 (1351)
T ss_pred HHHHHHHHHHHHHHHHHHhcceeccCCccc
Confidence 346788889999999999999999999544
No 204
>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=55.46 E-value=24 Score=40.97 Aligned_cols=37 Identities=32% Similarity=0.565 Sum_probs=30.2
Q ss_pred CCcEEEEEEEEEeeecC-----CCceeEEEEEEcCCCCceEEEEE
Q 017368 46 AGRQVRVGGWVKTGREQ-----GKGSFAFLEVNDGSCPANLQVIV 85 (373)
Q Consensus 46 igk~V~V~GWV~siR~~-----Gk~kl~FIdLRDgsg~~~IQvVv 85 (373)
.|.+|++.|+|.++|.. |+ .++|+.|.|.+|. +.+++
T Consensus 980 ~g~~v~v~G~i~~~~~~~~tkkG~-~maf~tleD~tg~--ie~vi 1021 (1022)
T TIGR00594 980 NDSQVRTLGGLNSVKKKITTKNGK-PMAFLQLEDETGS--IEVVV 1021 (1022)
T ss_pred CCCEEEEEEEEEEEEEecccCCCC-EEEEEEEEECCCc--EEEEe
Confidence 46789999999877653 32 5999999999997 98886
No 205
>PRK04036 DNA polymerase II small subunit; Validated
Probab=55.27 E-value=52 Score=35.04 Aligned_cols=62 Identities=27% Similarity=0.403 Sum_probs=45.4
Q ss_pred CCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhh---hccCCCCCcEEEEEEEeeC
Q 017368 46 AGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD---LGQLVPTGTCVYVEGMLKN 110 (373)
Q Consensus 46 igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~---~~~~L~~esvV~V~G~v~~ 110 (373)
.++++.|-|-|..+|.-+++ -..+.|-|.+|. +++++.++..+ ....|-.|.+|.|.|.+..
T Consensus 152 ~~~~~~viG~v~~~~~~~~g-~~~~~LED~sgr--v~l~~~~~~~~~~~~~~~lvtg~vv~v~G~~~~ 216 (504)
T PRK04036 152 GGEEVSIIGMVSDIRSTKNG-HKIVELEDTTGT--FPVLIMKDREDLAELADELLLDEVIGVEGTLSG 216 (504)
T ss_pred CCceEEEEEEEEEeecccCC-ceEEEEECCCCe--EEEEeecchhhhhhhhhcccCceEEEEEEEEcC
Confidence 46889999999999865432 224689999997 99998654312 2234667999999999753
No 206
>PF13567 DUF4131: Domain of unknown function (DUF4131)
Probab=54.56 E-value=88 Score=26.29 Aligned_cols=62 Identities=24% Similarity=0.389 Sum_probs=38.2
Q ss_pred CcEEEEEEEEEeeecCCCceeEEEEEE------cCC---CCceEEEEEeCchhhhccCCCCCcEEEEEEEeeCCC
Q 017368 47 GRQVRVGGWVKTGREQGKGSFAFLEVN------DGS---CPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPP 112 (373)
Q Consensus 47 gk~V~V~GWV~siR~~Gk~kl~FIdLR------Dgs---g~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~~~~ 112 (373)
++.+++.|.|.+......+..-|. ++ .+. ....+++...++.. ..+..||.|.++|++...+
T Consensus 75 ~~~~~v~g~V~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~i~~~~~~~~~---~~l~~Gd~i~~~g~l~~~~ 145 (176)
T PF13567_consen 75 GKEVTVQGTVESVPQIDGRGQRFT-LRVERVLAGGNWIPVSGKILLYLPKDSQ---PRLQPGDRIRVRGKLKPPS 145 (176)
T ss_pred CceEEEEEEEcccccccCceEEEE-EEEEEeeccccccccceeeEEEeccccc---cccCCCCEEEEEEEEecCC
Confidence 889999999988855553233232 22 111 11125555444421 2478999999999998765
No 207
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=54.44 E-value=27 Score=32.30 Aligned_cols=52 Identities=25% Similarity=0.406 Sum_probs=36.4
Q ss_pred EEEEEeCchhh-hccCCCCCcEEEEEEEeeCCCC----C-CccceEEEEe---EEEEeecC
Q 017368 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQ---KVVDVGMV 132 (373)
Q Consensus 81 IQvVv~~~~~~-~~~~L~~esvV~V~G~v~~~~~----~-~~g~vEL~v~---~i~VLs~a 132 (373)
+.|++-.+..+ ..+.|+.|+-|.|+|.+..+.- + ....+||.+. +++.|++.
T Consensus 56 ~~V~~fgk~Ae~~~~~L~KGs~V~VeGrL~~~~yedkdG~~r~~~eVvv~~~~~~~~l~~r 116 (177)
T PRK09010 56 HRVVLFGKLAEVAGEYLRKGSQVYIEGQLRTRKWTDQSGQDRYTTEVVVNVGGTMQMLGGR 116 (177)
T ss_pred EEEEEehhHHHHHHHhcCCCCEEEEEEEEEeccccCCCCCEEEEEEEEEecCCcEEEccCC
Confidence 67777665432 4567999999999999987642 1 2356788776 67777654
No 208
>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=53.54 E-value=1.5e+02 Score=25.73 Aligned_cols=97 Identities=20% Similarity=0.145 Sum_probs=60.4
Q ss_pred eehhhhhcCCCCCCCCCCcEEEEEEEEEeee----cCCCceeEEEEEEcCCCC--ceEEEEEeCchhhhccCCCCCcEEE
Q 017368 30 VLIKSILTRPDGGAGLAGRQVRVGGWVKTGR----EQGKGSFAFLEVNDGSCP--ANLQVIVDKDVADLGQLVPTGTCVY 103 (373)
Q Consensus 30 ~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR----~~Gk~kl~FIdLRDgsg~--~~IQvVv~~~~~~~~~~L~~esvV~ 103 (373)
+.|+++.. ..++.|-|.|=|.... ..|++-.+-+.|.|.++. ..|.|.+-.+..+....+..||+|.
T Consensus 4 ~~i~~~~~-------~~~~~v~vigVV~~~~~p~~s~g~d~~~tl~i~D~S~~~~~~l~v~~F~~~~~~LP~v~~GDVIl 76 (138)
T cd04497 4 TPLSSALK-------ESGGSVNVIGVVVDAGPPVRSKGTDYCCTLTITDPSLANSDGLTVKLFRPNEESLPIVKVGDIIL 76 (138)
T ss_pred EeHHHHHh-------ccCCeEEEEEEEeecCCCcccCCCcEEEEEEEECCCCCCCCcEEEEEECCChhhCCCCCCCCEEE
Confidence 45677752 4688899999887753 344446777889999872 4688877665433334458999999
Q ss_pred EEEEeeCCCCCCccceEEE-EeEEEEeecCC
Q 017368 104 VEGMLKNPPEGTKQKIELR-VQKVVDVGMVD 133 (373)
Q Consensus 104 V~G~v~~~~~~~~g~vEL~-v~~i~VLs~a~ 133 (373)
+.+.-...-.+....+--. ..++-|.....
T Consensus 77 l~~~kv~~~~g~~~~~~~~~~ss~avf~~~~ 107 (138)
T cd04497 77 LRRVKIQSYNGKPQGISNDRGSSWAVFRGDD 107 (138)
T ss_pred EEEEEEEEECCceEEEECCCceeEEEEcCCC
Confidence 9987665542222221111 34466666553
No 209
>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=52.44 E-value=1.2e+02 Score=35.94 Aligned_cols=80 Identities=13% Similarity=0.235 Sum_probs=53.8
Q ss_pred CCcEEEEEEEEEee--ec--CCCceeEEEEEEcCCCCceEEEEEe--Cch-hhhccCCCCCcEEEEEEEeeCCCCCCccc
Q 017368 46 AGRQVRVGGWVKTG--RE--QGKGSFAFLEVNDGSCPANLQVIVD--KDV-ADLGQLVPTGTCVYVEGMLKNPPEGTKQK 118 (373)
Q Consensus 46 igk~V~V~GWV~si--R~--~Gk~kl~FIdLRDgsg~~~IQvVv~--~~~-~~~~~~L~~esvV~V~G~v~~~~~~~~g~ 118 (373)
....|+|.|.|-.+ |. .|+ .+.-+.|.|.+.. |.|..- .+. ......|+.|++|.|.|.+.... -.++
T Consensus 6 ~~~~~~~~g~i~~~~~~~~~~~~-~~~~~~~~d~~~s--~~~k~f~~~~~~~~~~~~~~~g~~~~~~g~~~~d~--~~~~ 80 (1213)
T TIGR01405 6 EENRVKIEGYIFKIEIKELKSGR-TLLKIKVTDYTDS--LILKKFLKSEEDPEKFDGIKIGKWVRARGKIELDN--FSRD 80 (1213)
T ss_pred cCCeEEEEEEEEEEEeEeccCCC-EEEEEEEEcCCCC--EEEEEecccccchHHHhhcCCCcEEEEEEEEeccC--CCCc
Confidence 45789999998654 22 343 4556899999875 555432 221 12335689999999999998654 2467
Q ss_pred eEEEEeEEEEee
Q 017368 119 IELRVQKVVDVG 130 (373)
Q Consensus 119 vEL~v~~i~VLs 130 (373)
+.+.+.++..+.
T Consensus 81 ~~~~~~~~~~~~ 92 (1213)
T TIGR01405 81 LQMIIKDIEEIP 92 (1213)
T ss_pred eEEEeeeeeecC
Confidence 777777776543
No 210
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=52.29 E-value=41 Score=32.12 Aligned_cols=83 Identities=19% Similarity=0.206 Sum_probs=54.7
Q ss_pred CCcEEEEEEEEEee---ecCCCceeEEEEE-------EcCCCCceEEEEEeCchhhhccCCCCCcEEEEEEEeeC--CC-
Q 017368 46 AGRQVRVGGWVKTG---REQGKGSFAFLEV-------NDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKN--PP- 112 (373)
Q Consensus 46 igk~V~V~GWV~si---R~~Gk~kl~FIdL-------RDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~~--~~- 112 (373)
.+..|.|.|+|.+= |--.. +-.|..+ .+.+.+ |.|++.....+... |..|+.|.|+|.+.. ..
T Consensus 7 ~~NkV~L~Grl~~d~e~~~~~~-G~~~~~f~laV~R~s~~~D~--i~v~v~~rlae~~~-l~kG~~v~VeGqlrsy~~~~ 82 (219)
T PRK05813 7 ENNKVYLEGKVVSELEFSHEMY-GEGFYNFKLEVPRLSDSKDI--LPVTVSERLLAGMD-LKVGTLVIVEGQLRSYNKFI 82 (219)
T ss_pred hcCEEEEEEEEcCCceEEEEeC-CeEEEEEEEEeeccCCCccE--EEEEEEhhhhhhhc-ccCCCEEEEEEEEEEeccCC
Confidence 57789999999542 22111 2333322 254444 88888877644444 899999999999991 11
Q ss_pred CC-CccceEEEEeEEEEeecC
Q 017368 113 EG-TKQKIELRVQKVVDVGMV 132 (373)
Q Consensus 113 ~~-~~g~vEL~v~~i~VLs~a 132 (373)
.+ +.--+||.+.+++.+++.
T Consensus 83 ~G~~R~vl~V~a~~i~~l~~~ 103 (219)
T PRK05813 83 DGKNRLILTVFARNIEYCDER 103 (219)
T ss_pred CCcEEEEEEEEEEEEEEccCC
Confidence 12 345699999999988875
No 211
>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=52.12 E-value=57 Score=29.51 Aligned_cols=89 Identities=21% Similarity=0.197 Sum_probs=54.1
Q ss_pred ccccCcceehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcC----CCCc--------eEEEEEeCchh
Q 017368 23 RHQFSDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDG----SCPA--------NLQVIVDKDVA 90 (373)
Q Consensus 23 ~~~~~~r~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDg----sg~~--------~IQvVv~~~~~ 90 (373)
+-+....++..++.. ....+.|+.|++.|.|-++++.. +-..|.|-.- +|.. .+=+.++
T Consensus 13 ~~~~~~~~~~~~v~~---~p~~~~G~~VrwGG~I~~v~n~~--~~T~leV~~~PLd~~grP~~~~~s~GRFla~~~---- 83 (160)
T PF03843_consen 13 RDQVDPQPSFSQVRA---NPDAYQGQQVRWGGVIVNVRNLP--DQTELEVVQYPLDSSGRPQTDDPSQGRFLARVP---- 83 (160)
T ss_pred cCCCCccCCHHHHHh---ChhhcCCCEEEECCEEEEEEECC--CceEEEEEEccCCCCCCcCCCCCCCCEEEEEeC----
Confidence 344455667777764 35578899999999999999988 4555555321 1110 0000000
Q ss_pred hhc--cCCCCCcEEEEEEEeeCCCCCCccceE
Q 017368 91 DLG--QLVPTGTCVYVEGMLKNPPEGTKQKIE 120 (373)
Q Consensus 91 ~~~--~~L~~esvV~V~G~v~~~~~~~~g~vE 120 (373)
.|. ...+.|-.|.|.|+|.....+..|+.+
T Consensus 84 gFLDP~~y~~Gr~vTV~G~v~g~~~~~ige~~ 115 (160)
T PF03843_consen 84 GFLDPAIYAPGRLVTVVGTVTGMETGKIGEYP 115 (160)
T ss_pred CCcCHHHcCCCCEEEEEEEecceEEeeeCCCc
Confidence 122 235789999999999886544444433
No 212
>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=47.77 E-value=29 Score=27.53 Aligned_cols=71 Identities=21% Similarity=0.220 Sum_probs=39.9
Q ss_pred EEEEEEEeeecCCCceeEEEEEEcCCCCce---EE-EEEeCchhhhccCCCCCcEEEEEEEeeCCCCCCccceEEEEeE-
Q 017368 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPAN---LQ-VIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQK- 125 (373)
Q Consensus 51 ~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~---IQ-vVv~~~~~~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~- 125 (373)
+|.|.|......+. .-.|. |.|..+-.+ -. +.+.... ...+..||.|.|+|++.+-. +..||....
T Consensus 1 ~v~GvVTa~~~~~~-~~Gff-iQd~~~d~~~~ts~gifV~~~~---~~~~~~Gd~V~vtG~v~ey~----g~tql~~~~~ 71 (78)
T cd04486 1 TVEGVVTAVFSGGG-LGGFY-IQDEDGDGDPATSEGIFVYTGS---GADVAVGDLVRVTGTVTEYY----GLTQLTAVSA 71 (78)
T ss_pred CeEEEEEEEcCCCC-cCEEE-EEcCCCCCCCcccceEEEecCC---CCCCCCCCEEEEEEEEEeeC----CeEEEccCCc
Confidence 36788888876531 12454 677521100 01 1111110 23578999999999998754 456666644
Q ss_pred EEEee
Q 017368 126 VVDVG 130 (373)
Q Consensus 126 i~VLs 130 (373)
+++++
T Consensus 72 ~~~~~ 76 (78)
T cd04486 72 IEVLG 76 (78)
T ss_pred eEEec
Confidence 55554
No 213
>PF00458 WHEP-TRS: WHEP-TRS domain; InterPro: IPR000738 A conserved domain of 46 amino acids, called WHEP-TRS has been shown [] to exist in a number of higher eukaryote aminoacyl-transfer RNA synthetases. This domain is present one to six times in the several enzymes. There are three copies in mammalian multifunctional aminoacyl-tRNA synthetase in a region that separates the N-terminal glutamyl-tRNA synthetase domain from the C-terminal prolyl-tRNA synthetase domain, and six copies in the intercatalytic region of the Drosophila enzyme. The domain is found at the N-terminal extremity of the mammalian tryptophanyl- tRNA synthetase and histidyl-tRNA synthetase, and the mammalian, insect, nematode and plant glycyl- tRNA synthetases []. This domain could contain a central alpha-helical region and may play a role in the association of tRNA-synthetases into multienzyme complexes.; GO: 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation; PDB: 1R1B_A 1D2D_A 1X59_A 1FYJ_A 2ZT8_A 2ZXF_A 2ZT7_A 2ZT6_A 2PME_A 2ZT5_A ....
Probab=46.37 E-value=42 Score=25.35 Aligned_cols=41 Identities=39% Similarity=0.562 Sum_probs=35.0
Q ss_pred HHHHhhhhHHHhhhcccchhhhhhhhHHHHHHHHHHHHHHH
Q 017368 237 LVIKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLE 277 (373)
Q Consensus 237 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 277 (373)
..|++.|+.|..||+++...+.|...++.|-.-|.....++
T Consensus 3 ~~I~~QG~~VR~LKa~ka~k~~i~~aV~~Ll~LK~~~~~~t 43 (56)
T PF00458_consen 3 AQIAAQGDKVRKLKAEKADKEEIDAAVAKLLELKAELKELT 43 (56)
T ss_dssp HHHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHHHccCCcHHHHHHHHHHHHHHHHHHHHhh
Confidence 46788999999999999999999999999999998887773
No 214
>PLN02734 glycyl-tRNA synthetase
Probab=46.22 E-value=7.9 Score=42.78 Aligned_cols=32 Identities=9% Similarity=0.189 Sum_probs=26.0
Q ss_pred HHHHHHHHHHHHHH-HhCCcEEEecCeeecCCC
Q 017368 167 RIRNALAYATHTFL-QKQGFLYIHTPIITTSDC 198 (373)
Q Consensus 167 ~iRS~i~~~iR~fL-~~~gFiEV~TPiLt~~~~ 198 (373)
.+++.|+..-|++| ...+.+||+||+|++...
T Consensus 110 ~lK~ni~~~Wr~~fv~~e~mleid~~~i~p~~V 142 (684)
T PLN02734 110 AVKSNVLAFWRQHFVLEENMLEVECPCVTPEVV 142 (684)
T ss_pred HHHHHHHHHHHHHHhccCCeeEeeccccCCHhH
Confidence 57788889999988 456778999999998743
No 215
>COG2965 PriB Primosomal replication protein N [DNA replication, recombination, and repair]
Probab=45.12 E-value=1.2e+02 Score=25.77 Aligned_cols=74 Identities=16% Similarity=0.211 Sum_probs=44.8
Q ss_pred CcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh------------------------hhccCCCCCcEE
Q 017368 47 GRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA------------------------DLGQLVPTGTCV 102 (373)
Q Consensus 47 gk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~------------------------~~~~~L~~esvV 102 (373)
...+.+.|-|.. .|+.-.-.+|++.+|++++-... .+...+..|+.|
T Consensus 4 ~Nrl~L~g~vak---------~~~r~~sPsGIphc~f~Lehrs~q~Eag~~RQv~~~mpv~vsG~qa~~lt~~i~~Gs~i 74 (103)
T COG2965 4 TNRLSLSGTVAK---------VPVRRYSPSGIPHCQFVLEHRSWQEEAGFQRQVWCEMPVRVSGRQAEELTQSITVGSYI 74 (103)
T ss_pred cceEEEEEEeec---------cceeeeCCCCCeeEEEEEeecchhhhCCcceeEEEEccEEeechhhhhhhhccccccEE
Confidence 345666666643 23344555677777777754320 133458999999
Q ss_pred EEEEEeeCCCCC-CccceEEEEeEEEEe
Q 017368 103 YVEGMLKNPPEG-TKQKIELRVQKVVDV 129 (373)
Q Consensus 103 ~V~G~v~~~~~~-~~g~vEL~v~~i~VL 129 (373)
.|+|.+...... .-..+=|++..++.+
T Consensus 75 ~v~GFla~~~~~sg~~~lvlha~qi~~i 102 (103)
T COG2965 75 LVVGFLACHKRRSGLSKLVLHAEQIEFI 102 (103)
T ss_pred EEEEEEEeecccCCccEEEEEeeEEEec
Confidence 999999875421 224466666666543
No 216
>PF11736 DUF3299: Protein of unknown function (DUF3299); InterPro: IPR021727 This is a family of bacterial proteins of unknown function.
Probab=45.06 E-value=2.1e+02 Score=25.59 Aligned_cols=85 Identities=22% Similarity=0.193 Sum_probs=47.7
Q ss_pred CCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCC-CC-----ceEEEEEeCchhhhccCCCCCcEEEEEEEeeCCCCC-
Q 017368 42 GAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGS-CP-----ANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEG- 114 (373)
Q Consensus 42 ~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgs-g~-----~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~~~~~~- 114 (373)
.....|+.|+|.|+|.-+-..+.+---|+-+.+.. |. ..=|+|.-.-... ...-..-+.|.|+|++......
T Consensus 50 v~~L~Gk~V~i~Gf~vPle~~~~~v~eFlLvP~~gaC~h~PpPppNqiV~V~~~~~-~~~~~~~~pv~V~G~l~~~~~~~ 128 (146)
T PF11736_consen 50 VKALDGKQVRIPGFMVPLEQEEGKVTEFLLVPYFGACIHVPPPPPNQIVHVKMPKP-IPVDSLYDPVWVEGTLKVERSSS 128 (146)
T ss_pred hHHhCCCEEEEeeEEEeeccCCCcEEEEEEeccCCcCcCCCCCCCccEEEEEeCCC-ccccccceeEEEEEEEEeccccc
Confidence 34678999999999999886542233677666632 21 0114432111000 0111235789999999886521
Q ss_pred --CccceEEEEeEEE
Q 017368 115 --TKQKIELRVQKVV 127 (373)
Q Consensus 115 --~~g~vEL~v~~i~ 127 (373)
....+.+.+.+|+
T Consensus 129 ~~~~~~Y~m~a~~v~ 143 (146)
T PF11736_consen 129 DLGTSGYSMDADSVE 143 (146)
T ss_pred hheeEEEEEEeeEEE
Confidence 2345666666554
No 217
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=44.61 E-value=37 Score=31.68 Aligned_cols=46 Identities=26% Similarity=0.440 Sum_probs=32.6
Q ss_pred EEEEEeCchh-hhccCCCCCcEEEEEEEeeCCCC----C-CccceEEEEeEE
Q 017368 81 LQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKV 126 (373)
Q Consensus 81 IQvVv~~~~~-~~~~~L~~esvV~V~G~v~~~~~----~-~~g~vEL~v~~i 126 (373)
+.|++..+.. ...+.|+.|+-|.|+|.+..+.- + ....+||.+++|
T Consensus 55 i~V~~Wg~~Ae~va~~L~KGd~V~V~GrL~~r~wedkdG~~rt~~eV~a~~V 106 (186)
T PRK07772 55 LRCSIWRQAAENVAESLTKGMRVIVTGRLKQRSYETREGEKRTVVELEVDEI 106 (186)
T ss_pred EEEEEecHHHHHHHHhcCCCCEEEEEEEEEcCceECCCCCEEEEEEEEEEEc
Confidence 7888877653 35567999999999999987642 1 223567777654
No 218
>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=43.48 E-value=96 Score=23.25 Aligned_cols=48 Identities=19% Similarity=0.149 Sum_probs=32.3
Q ss_pred EEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh--h----hccCCCCCcEEEEE
Q 017368 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA--D----LGQLVPTGTCVYVE 105 (373)
Q Consensus 51 ~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~--~----~~~~L~~esvV~V~ 105 (373)
.+.|.|.++...| +|++|.+..+ +...+..... + ....++.|+.|.|.
T Consensus 6 ~~~g~V~~v~~~g----~~v~l~~~~~---~~gll~~s~l~~~~~~~~~~~~~~Gd~v~vk 59 (76)
T cd04452 6 LVVVTVKSIADMG----AYVSLLEYGN---IEGMILLSELSRRRIRSIRKLVKVGRKEVVK 59 (76)
T ss_pred EEEEEEEEEEccE----EEEEEcCCCC---eEEEEEhHHcCCcccCCHHHeeCCCCEEEEE
Confidence 3689999999877 8899987533 5555543321 1 12347899998875
No 219
>PRK06386 replication factor A; Reviewed
Probab=42.33 E-value=2.9e+02 Score=28.41 Aligned_cols=70 Identities=13% Similarity=0.119 Sum_probs=48.5
Q ss_pred CCcEEEEEEEEEeee------cCCCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEEEeeCCCCCCccce
Q 017368 46 AGRQVRVGGWVKTGR------EQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKI 119 (373)
Q Consensus 46 igk~V~V~GWV~siR------~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~~~~~~~~g~v 119 (373)
.++.|.|.|+|-.+- +.|...+.=-.|-|.||. |..++... ...|..|++|.+.+-..+.- .|.+
T Consensus 11 ~~~~V~v~akVl~~~~r~i~~~~g~~~~~~gllgDeTG~--I~fT~W~~----~~~l~~Gd~v~i~na~v~~~---~G~~ 81 (358)
T PRK06386 11 ARQNVDLKVKVLSLNKRTIKNDRGETIYYYGIIGDETGT--VPFTAWEF----PDAVKSGDVIEIKYCYSKEY---NGKI 81 (358)
T ss_pred CCCcEEEEEEEEEccceEEecCCCCeEEEEEEEECCcce--EEEEecCC----cccCCCCCEEEEEeEEEeeE---CCEE
Confidence 466788888887553 122223445568888886 88887653 23578999999998877654 5677
Q ss_pred EEEEe
Q 017368 120 ELRVQ 124 (373)
Q Consensus 120 EL~v~ 124 (373)
+|.+.
T Consensus 82 ~Lnv~ 86 (358)
T PRK06386 82 RIYFD 86 (358)
T ss_pred EEEEc
Confidence 88875
No 220
>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=42.10 E-value=80 Score=23.40 Aligned_cols=46 Identities=15% Similarity=0.239 Sum_probs=32.2
Q ss_pred EEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh------hhccCCCCCcEEEEE
Q 017368 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA------DLGQLVPTGTCVYVE 105 (373)
Q Consensus 51 ~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~------~~~~~L~~esvV~V~ 105 (373)
.+.|+|.++...| +|+.|.++ ++..+..... +..+.++.|+.|.|.
T Consensus 3 ~~~g~V~~v~~~G----~~V~l~~~-----~~gli~~s~l~~~~~~~~~~~~~~G~~i~v~ 54 (70)
T cd05698 3 KTHGTIVKVKPNG----CIVSFYNN-----VKGFLPKSELSEAFIKDPEEHFRVGQVVKVK 54 (70)
T ss_pred EEEEEEEEEecCc----EEEEECCC-----CEEEEEHHHcChhhcCCHHHcccCCCEEEEE
Confidence 3789999998877 88999542 6777665331 122347889988886
No 221
>PF15490 Ten1_2: Telomere-capping, CST complex subunit
Probab=41.33 E-value=2.4e+02 Score=24.47 Aligned_cols=84 Identities=21% Similarity=0.223 Sum_probs=53.6
Q ss_pred eehhhhhcCCCCCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEEEEee
Q 017368 30 VLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLK 109 (373)
Q Consensus 30 ~~Ikdi~~~~~l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~G~v~ 109 (373)
+++.||. -+....|+.|++-|++++.-... .++=|.=...++ .-|+.++.+...- -..+.||.+.|-|.+.
T Consensus 8 ~~l~Evs----~~~~~~g~svR~~GrL~~yD~~~--~~a~l~~~~~~~--~~~l~V~t~~l~~-~~~~~gslyq~iGEl~ 78 (118)
T PF15490_consen 8 VFLWEVS----SGFVPEGKSVRTFGRLQSYDVAT--SRATLTAQHESD--QHSLKVDTKLLEP-FQARVGSLYQFIGELE 78 (118)
T ss_pred EehHHhc----CccccCCCeEEEEEEEEEEeccC--CEEEEEeeccCC--CcEEEEEeeEccc-cccCCCCEEEEEEEEE
Confidence 4556662 13456899999999999997777 455432233332 2677776553210 1247999999999998
Q ss_pred CCCCCCccceEEEEe
Q 017368 110 NPPEGTKQKIELRVQ 124 (373)
Q Consensus 110 ~~~~~~~g~vEL~v~ 124 (373)
..+. .++..|++.
T Consensus 79 ~~~~--~~~~~L~AR 91 (118)
T PF15490_consen 79 HQPQ--DGGIVLKAR 91 (118)
T ss_pred EEcC--CCcEEEEEE
Confidence 8731 455666654
No 222
>COG0423 GRS1 Glycyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=40.53 E-value=13 Score=39.92 Aligned_cols=31 Identities=23% Similarity=0.342 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHh--CCcEEEecCeeecCC
Q 017368 167 RIRNALAYATHTFLQK--QGFLYIHTPIITTSD 197 (373)
Q Consensus 167 ~iRS~i~~~iR~fL~~--~gFiEV~TPiLt~~~ 197 (373)
.++..|..+-|++|-. .+++||+||+|.+..
T Consensus 41 ~LK~nI~~~Wrk~fV~~~e~~~eIdtpii~p~~ 73 (558)
T COG0423 41 ELKNNIKEAWRKSFVTEREDVVEIDTPIILPEE 73 (558)
T ss_pred HHHHHHHHHHHHHHeeccCCeEEecccccCcHH
Confidence 4677889999999954 579999999998753
No 223
>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=39.38 E-value=99 Score=22.93 Aligned_cols=46 Identities=22% Similarity=0.285 Sum_probs=31.2
Q ss_pred EEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh--h----hccCCCCCcEEEEE
Q 017368 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA--D----LGQLVPTGTCVYVE 105 (373)
Q Consensus 51 ~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~--~----~~~~L~~esvV~V~ 105 (373)
.+.|+|.++...| +|++|-++ +...+..... + ....++.|+.|.+.
T Consensus 3 ~v~g~V~~v~~~G----v~V~l~~~-----~~G~v~~s~l~~~~~~~~~~~~~~Gd~v~~~ 54 (68)
T cd05707 3 VVRGFVKNIANNG----VFVTLGRG-----VDARVRVSELSDSYLKDWKKRFKVGQLVKGK 54 (68)
T ss_pred EEEEEEEEEECcc----EEEEeCCC-----CEEEEEHHHCCchhhcCHhhccCCCCEEEEE
Confidence 3789999999877 88999653 5555543321 1 22347889988875
No 224
>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=38.46 E-value=70 Score=30.97 Aligned_cols=41 Identities=22% Similarity=0.317 Sum_probs=29.3
Q ss_pred cCceEEEecceec---CCC-CCCCCcCccccceeeecCCCH--HHHHH
Q 017368 321 VSNVYTFGPTFRA---EHS-HTSRHLAEFWMVEPEMAFSDL--KVRWT 362 (373)
Q Consensus 321 ~~~vy~~~p~fRa---E~~-~t~rhl~EF~~le~e~~~~~~--~~~~~ 362 (373)
..|+-+.-+|.|+ |+. .|.||+.=|-||- --+|-|+ ++.|.
T Consensus 55 ~~r~~~~QkCiR~~DienVG~t~rHhTfFEMLG-NfSFgdYFK~eaI~ 101 (232)
T cd00673 55 ANRLVNSQKCIRAGDIDNVGKTGRHHTFFEMLG-NFSFGDYFKEEAIA 101 (232)
T ss_pred CCceeeeeeceecCChhhccccccchhhhhhhc-ccchhhhhHHHHHH
Confidence 3677777889998 333 4889999999983 4567675 55555
No 225
>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=37.22 E-value=2.6e+02 Score=29.83 Aligned_cols=26 Identities=12% Similarity=0.234 Sum_probs=22.3
Q ss_pred eEEEecceecCCCCCCCCcCcccccee
Q 017368 324 VYTFGPTFRAEHSHTSRHLAEFWMVEP 350 (373)
Q Consensus 324 vy~~~p~fRaE~~~t~rhl~EF~~le~ 350 (373)
+.-.|.|||.+..+. .|-+-|.|+|-
T Consensus 136 ~i~~G~VYRrD~iDa-tH~p~FHQ~EG 161 (460)
T TIGR00469 136 FLISADVYRRDEIDK-THYPVFHQADG 161 (460)
T ss_pred eEeecceeeCCCCcc-ccCccceeeEE
Confidence 777899999998874 58899999994
No 226
>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=36.68 E-value=12 Score=40.43 Aligned_cols=32 Identities=34% Similarity=0.450 Sum_probs=0.0
Q ss_pred eEEEecceecCCCCCCC--CcCccccceeeecCCC
Q 017368 324 VYTFGPTFRAEHSHTSR--HLAEFWMVEPEMAFSD 356 (373)
Q Consensus 324 vy~~~p~fRaE~~~t~r--hl~EF~~le~e~~~~~ 356 (373)
+-+||.+||||=|-.+- -+-||+|.|+|. |++
T Consensus 186 iaQiGk~fRNEIsPr~~l~R~REF~q~EiE~-F~~ 219 (551)
T TIGR00389 186 VAQIGKSFRNEISPRNGLFRVREFEQAEIEF-FVH 219 (551)
T ss_pred ehhhhHhhhcccCcccceEEeehhhhchhhe-ecC
No 227
>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=35.98 E-value=1.6e+02 Score=22.77 Aligned_cols=46 Identities=17% Similarity=0.281 Sum_probs=30.4
Q ss_pred EEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh---------hhccCCCCCcEEEEE
Q 017368 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA---------DLGQLVPTGTCVYVE 105 (373)
Q Consensus 51 ~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~---------~~~~~L~~esvV~V~ 105 (373)
.|.|.|.++...| +|++|..+ +...+.-... ++.+.++.|+.|.+.
T Consensus 6 ~V~g~V~~i~~~G----~fV~l~~~-----v~G~v~~~~ls~~~~~~~~~~~~~~~~G~~v~~k 60 (74)
T cd05705 6 LLRGYVSSVTKQG----VFFRLSSS-----IVGRVLFQNVTKYFVSDPSLYNKYLPEGKLLTAK 60 (74)
T ss_pred EEEEEEEEEeCCc----EEEEeCCC-----CEEEEEHHHccCccccChhhHhcccCCCCEEEEE
Confidence 4789999998877 89999642 5555542210 123457889988764
No 228
>PRK05853 hypothetical protein; Validated
Probab=35.90 E-value=63 Score=29.44 Aligned_cols=46 Identities=22% Similarity=0.320 Sum_probs=32.8
Q ss_pred EEEEEeCchh-hhccCCCCCcEEEEEEEeeCCCC----C-CccceEEEEeEE
Q 017368 81 LQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKV 126 (373)
Q Consensus 81 IQvVv~~~~~-~~~~~L~~esvV~V~G~v~~~~~----~-~~g~vEL~v~~i 126 (373)
+.|++..+.. ...+.|..|+-|.|+|.+..+.- + ....+||.+++|
T Consensus 45 i~V~~wg~lAe~v~~~L~KG~~V~V~GrL~~~~wedkdG~~r~~~eV~a~~V 96 (161)
T PRK05853 45 ITVNCWGRLVTGVGAALGKGAPVIVVGHVYTSEYEDRDGNRRSSLEMRATSV 96 (161)
T ss_pred EEEEEEhHHHHHHHHHcCCCCEEEEEEEEEccceECCCCCEEEEEEEEEEEe
Confidence 8888877653 34567999999999999987642 1 234566776654
No 229
>TIGR00752 slp outer membrane lipoprotein, Slp family. 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 cholera. 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 Escherichia coli is known to be a lipoprotein of the outer membrane and to be expressed in response to carbon starvation.
Probab=34.50 E-value=1.4e+02 Score=27.76 Aligned_cols=79 Identities=15% Similarity=0.114 Sum_probs=50.5
Q ss_pred CCCCCCCcEEEEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch----------------hhhc--cCCCCCcEE
Q 017368 41 GGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV----------------ADLG--QLVPTGTCV 102 (373)
Q Consensus 41 l~~~~igk~V~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~----------------~~~~--~~L~~esvV 102 (373)
....+.|+.|++.|-|-++++.. +-+-|.+- |.=++++. ..|. ... .|-.|
T Consensus 42 ~p~~y~G~~Vr~GG~I~~v~N~~--~~T~lEVv--------~~PLd~~grP~~~~~s~GRFla~~~gFLDP~~y-~Gr~V 110 (182)
T TIGR00752 42 QPLLYVGQTARFGGKVVNVTNLA--NQTKLEIA--------SLPLDSIAKPFVELQSDGRFIAYFNGFLDPVNL-RERYV 110 (182)
T ss_pred ChhhcCCCEEEECCEEEEEEECC--CceEEEEE--------EcccCCCCCcCCCCCCCCEEEEEeCCCcChhhc-CCCEE
Confidence 34567899999999999999988 33444442 21122210 0122 124 59999
Q ss_pred EEEEEeeCCCCCCccceE-----EEEeEEEEee
Q 017368 103 YVEGMLKNPPEGTKQKIE-----LRVQKVVDVG 130 (373)
Q Consensus 103 ~V~G~v~~~~~~~~g~vE-----L~v~~i~VLs 130 (373)
.|.|++.....++.|+.+ |.++.+++-.
T Consensus 111 TVvG~i~G~e~gkIGe~~Y~yPvv~~~~~~lW~ 143 (182)
T TIGR00752 111 TVGGQIAGTEKGKIEQAPYTFPVVQADGYRIWH 143 (182)
T ss_pred EEEEEecceEEeeeCCCcceeEEEEeeeEEecc
Confidence 999999887766667765 5566555444
No 230
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=34.31 E-value=1.2e+02 Score=36.16 Aligned_cols=81 Identities=12% Similarity=0.217 Sum_probs=58.4
Q ss_pred cEEEEEEEEEee----ecCCCceeEEEEEEcCCCCceEEEEEeCch-hhhccCCCCCcEEEEEEEeeCCCCCCccceEEE
Q 017368 48 RQVRVGGWVKTG----REQGKGSFAFLEVNDGSCPANLQVIVDKDV-ADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELR 122 (373)
Q Consensus 48 k~V~V~GWV~si----R~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~-~~~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~ 122 (373)
..|+|.|.|-.+ .+.|+ .+.=+.+.|++..-.+|.....+. .+....|+.|.+|.|+|.|.... -++++.+.
T Consensus 240 ~~v~v~G~IF~~e~~~~ksGr-~l~~i~vTD~t~Sl~~k~f~~~~ed~~~~~~ik~g~wvk~~g~v~~d~--f~~~l~m~ 316 (1444)
T COG2176 240 TRVKVEGYIFKIEIKELKSGR-TLLNIKVTDYTSSLILKKFLRDEEDEKKFDGIKKGMWVKARGNVQLDT--FTRDLTMI 316 (1444)
T ss_pred cceEEEEEEEEEeeeecccCc-EEEEEEEecCchheeehhhccccccHHHHhhcccCcEEEEEEEEEecc--cccceEEE
Confidence 359999999655 34454 677788999987544555554322 23556799999999999999875 46788888
Q ss_pred EeEEEEeec
Q 017368 123 VQKVVDVGM 131 (373)
Q Consensus 123 v~~i~VLs~ 131 (373)
+.+|.-+..
T Consensus 317 i~~I~ei~~ 325 (1444)
T COG2176 317 INDINEIEN 325 (1444)
T ss_pred hhhhhhhhc
Confidence 888765553
No 231
>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=32.16 E-value=2e+02 Score=20.93 Aligned_cols=51 Identities=20% Similarity=0.227 Sum_probs=36.2
Q ss_pred EEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEE
Q 017368 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVE 105 (373)
Q Consensus 51 ~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~ 105 (373)
.+.|.|..+...| ...++.++-+.+. .|-+.++.+... .-.|..|+-|.+.
T Consensus 6 ~l~g~V~~ie~~g--~~~~v~~~~~~~~-~l~a~it~~~~~-~L~L~~G~~V~~~ 56 (64)
T PF03459_consen 6 QLPGTVESIENLG--SEVEVTLDLGGGE-TLTARITPESAE-ELGLKPGDEVYAS 56 (64)
T ss_dssp EEEEEEEEEEESS--SEEEEEEEETTSE-EEEEEEEHHHHH-HCT-STT-EEEEE
T ss_pred EEEEEEEEEEECC--CeEEEEEEECCCC-EEEEEEcHHHHH-HcCCCCCCEEEEE
Confidence 4889999999999 7899998887663 477777664321 1237899988764
No 232
>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=30.07 E-value=2.3e+02 Score=22.75 Aligned_cols=63 Identities=16% Similarity=0.297 Sum_probs=45.0
Q ss_pred EEEEcCCCCceEEEEEeCchh-hhccCCCCCcEEEEEEEeeCCCCC----CccceEEEEeEEEEeecCC
Q 017368 70 LEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEG----TKQKIELRVQKVVDVGMVD 133 (373)
Q Consensus 70 IdLRDgsg~~~IQvVv~~~~~-~~~~~L~~esvV~V~G~v~~~~~~----~~g~vEL~v~~i~VLs~a~ 133 (373)
+.|-|..|. .||+.+.++.. .+...|.-|++..++-..+....+ ....+.|....-+.+.+++
T Consensus 2 mvL~De~G~-~I~A~I~~~~~~~f~~~l~Eg~~y~i~~F~V~~~~~~yr~t~h~y~I~f~~~T~V~~~~ 69 (95)
T PF02721_consen 2 MVLVDEKGD-KIQATIPKELVDKFKDSLKEGSWYTISNFTVSPNSGSYRPTDHKYKINFMPNTKVTEID 69 (95)
T ss_pred EEEEecCCC-EEEEEECHHHHHHHHhhcccCCEEEeEeEEEEeCCCceeccCCCEEEEECCcCeEEECC
Confidence 357788884 79999987653 366778999999987655543322 3467778877777777775
No 233
>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=28.97 E-value=1.7e+02 Score=21.70 Aligned_cols=46 Identities=17% Similarity=0.347 Sum_probs=30.0
Q ss_pred EEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh--h----hccCCCCCcEEEEE
Q 017368 52 VGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA--D----LGQLVPTGTCVYVE 105 (373)
Q Consensus 52 V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~--~----~~~~L~~esvV~V~ 105 (373)
+.|+|.++...| +|++|.+. + +..++..... + ....++.||.|.|.
T Consensus 6 v~g~V~~i~~~g----~~v~l~~~-~---~~g~i~~~~l~~~~~~~~~~~~~~Gd~v~v~ 57 (77)
T cd05708 6 IDGTVRRVEDYG----VFIDIDGT-N---VSGLCHKSEISDNRVADASKLFRVGDKVRAK 57 (77)
T ss_pred EEEEEEEEEcce----EEEEECCC-C---eEEEEEHHHCCCCccCCHhHeecCCCEEEEE
Confidence 789999998877 78888652 1 4555543221 1 12346899998875
No 234
>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=28.12 E-value=2.9e+02 Score=21.58 Aligned_cols=55 Identities=13% Similarity=0.163 Sum_probs=36.7
Q ss_pred EEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh-hhccCCCCCcEEEEEEEeeC
Q 017368 53 GGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKN 110 (373)
Q Consensus 53 ~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~-~~~~~L~~esvV~V~G~v~~ 110 (373)
+=|.......| ...=+.|.|..|. .||+.+.++.. .|...|..|.+..+.+.-+.
T Consensus 8 r~W~~~~~~~~--~~~~miL~De~G~-~I~a~i~~~~~~~f~~~L~eg~vy~is~f~v~ 63 (86)
T cd04480 8 RLWDVYNNASG--ESLEMVLVDEKGN-RIHATIPKRLAAKFRPLLKEGKWYTISNFEVA 63 (86)
T ss_pred EEEcCcCCCCC--cEEEEEEEcCCCC-EEEEEECHHHHHhhhhhceeCCEEEEeeEEEE
Confidence 33443333345 3333569999984 69999987653 46778999999999854443
No 235
>PF04057 Rep-A_N: Replication factor-A protein 1, N-terminal domain; InterPro: IPR007199 Replication factor-a protein 1 (RPA1) forms a multiprotein complex with RPA2 and RPA3 that binds single-stranded DNA and functions in the recognition of DNA damage for nucleotide excision repair. The complex binds to single-stranded DNA sequences participating in DNA replication in addition to those mediating transcriptional repression and activation, and stimulates the activity of cognate strand exchange protein Sep1. It cooperates with T-AG and DNA topoisomerase I to unwind template DNA containing the Simian Virus 40 origin of replication [].; GO: 0003677 DNA binding, 0006260 DNA replication, 0005634 nucleus; PDB: 1EWI_A 2B3G_A 2B29_A.
Probab=27.73 E-value=3.1e+02 Score=22.71 Aligned_cols=61 Identities=15% Similarity=0.167 Sum_probs=41.1
Q ss_pred eeEEEEEEcCCCCceEEEEEeCchhhh--ccCCCCCcEEEEEEEeeCCCCCCccceEEEEeEEEEee
Q 017368 66 SFAFLEVNDGSCPANLQVIVDKDVADL--GQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVG 130 (373)
Q Consensus 66 kl~FIdLRDgsg~~~IQvVv~~~~~~~--~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~i~VLs 130 (373)
+-.=+.|.||... +|.++....... ...|+.|++|.+.-.....-. .+.-=|.+.+++|+.
T Consensus 38 ~RyR~~lSDG~~~--~~amLatqln~lv~~g~l~~~siirl~~y~~n~v~--~~k~iiiil~leVv~ 100 (101)
T PF04057_consen 38 DRYRLVLSDGVHS--IQAMLATQLNHLVESGELQKGSIIRLKQYTCNTVK--NGKKIIIILDLEVVQ 100 (101)
T ss_dssp -EEEEEEESSSEE--EEEEESGGGHHHHHTTSSSTT-EEEEEEEEEEEST--TSSEEEEEEEEEEEE
T ss_pred ceEEEEEEChHHH--HHHHhHHHhHHHHhcCCcccCCEEEEeEEEEeecc--CCCEEEEEEeeEEEe
Confidence 4555789999864 999998765332 346899999999876655431 134447788888775
No 236
>PRK06341 single-stranded DNA-binding protein; Provisional
Probab=27.59 E-value=1.1e+02 Score=28.01 Aligned_cols=46 Identities=24% Similarity=0.400 Sum_probs=31.4
Q ss_pred EEEEEeCc-hhh-hccCCCCCcEEEEEEEeeCCCC----C-CccceEEEEeEE
Q 017368 81 LQVIVDKD-VAD-LGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKV 126 (373)
Q Consensus 81 IQvVv~~~-~~~-~~~~L~~esvV~V~G~v~~~~~----~-~~g~vEL~v~~i 126 (373)
+.|++-.+ ..+ ..+.|+.|+.|.|+|.+..+.- + ....+||.+.+|
T Consensus 55 ~~Vv~fg~~~Ae~~~~~LkKG~~V~VeGrL~~r~w~dkdG~~r~~~eIiv~~~ 107 (166)
T PRK06341 55 HRVVIFNEGLCKVAEQYLKKGAKVYIEGQLQTRKWTDQSGVERYSTEVVLQGF 107 (166)
T ss_pred EEEEEeChHHHHHHHHhcCCCCEEEEEEEEEeCcEECCCCCEEEEEEEEEEec
Confidence 67776653 222 3467999999999999986531 2 235688888654
No 237
>COG3390 Uncharacterized protein conserved in archaea [Function unknown]
Probab=26.86 E-value=1.7e+02 Score=27.62 Aligned_cols=61 Identities=15% Similarity=0.176 Sum_probs=44.9
Q ss_pred cEEEEEEEEEeeecCCCc-eeEEEEEEcCCCCceEEEEEeC---chhhhccCCCCCcEEEEEEEeeC
Q 017368 48 RQVRVGGWVKTGREQGKG-SFAFLEVNDGSCPANLQVIVDK---DVADLGQLVPTGTCVYVEGMLKN 110 (373)
Q Consensus 48 k~V~V~GWV~siR~~Gk~-kl~FIdLRDgsg~~~IQvVv~~---~~~~~~~~L~~esvV~V~G~v~~ 110 (373)
+.|.|.|-+.+.-..|.+ .+.=+.+-|++|. +=|.... +...+.+.+..++.|.|.|++..
T Consensus 46 nRifivGtltek~~i~ed~~~~R~rVvDpTGs--F~Vyag~yqPEa~a~l~~ve~~~~VaViGKi~~ 110 (196)
T COG3390 46 NRIFIVGTLTEKEGIGEDREYWRIRVVDPTGS--FYVYAGQYQPEAKAFLEDVEVPDLVAVIGKIRT 110 (196)
T ss_pred eEEEEEEEEEeccCcCCcccEEEEEEecCCce--EEEEcCCCChHHHHHHHhccCCceEEEecccce
Confidence 478999999888777622 3777899999985 6553322 22236677899999999999865
No 238
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=26.81 E-value=1.7e+02 Score=34.69 Aligned_cols=62 Identities=23% Similarity=0.326 Sum_probs=44.3
Q ss_pred EEEEEEEEEeeecCCC----ceeEEEEEEcCCCCceEEEEEeCchh-hhccCCCCCcEEEEEEEeeCCC
Q 017368 49 QVRVGGWVKTGREQGK----GSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPP 112 (373)
Q Consensus 49 ~V~V~GWV~siR~~Gk----~kl~FIdLRDgsg~~~IQvVv~~~~~-~~~~~L~~esvV~V~G~v~~~~ 112 (373)
.+++.|-|..+|.... ++++|+.|.|.+|. +-+|+-.... ++...+..+..+.|.|++....
T Consensus 978 ~~~~~~~i~~vr~~~tk~~G~~~~f~tl~D~~g~--~e~v~f~~~~~~~~~~l~~~~~~~v~g~v~~~~ 1044 (1139)
T COG0587 978 RVVLAGGIVAVRQRPTKAKGNKMAFLTLEDETGI--LEVVVFPSEYERYRRLLLEGRLLIVKGKVQRRE 1044 (1139)
T ss_pred eeEEEEEEEEEEEeeccCCCCEEEEEEEecCCCc--EEEEEcHHHHHHHHHHhccCcEEEEEEEEEecc
Confidence 4777777776654321 13999999999995 8888875542 3444555678999999998853
No 239
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=24.85 E-value=90 Score=24.25 Aligned_cols=23 Identities=17% Similarity=0.335 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEe
Q 017368 167 RIRNALAYATHTFLQKQGFLYIH 189 (373)
Q Consensus 167 ~iRS~i~~~iR~fL~~~gFiEV~ 189 (373)
+.|..|+..+|+||...|=|+|-
T Consensus 2 ~kre~i~~~iR~~fs~lG~I~vL 24 (62)
T PF15513_consen 2 RKREEITAEIRQFFSQLGEIAVL 24 (62)
T ss_pred cHHHHHHHHHHHHHHhcCcEEEE
Confidence 46889999999999999977663
No 240
>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=24.43 E-value=2.5e+02 Score=19.99 Aligned_cols=46 Identities=20% Similarity=0.270 Sum_probs=29.9
Q ss_pred EEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh--h----hccCCCCCcEEEEE
Q 017368 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA--D----LGQLVPTGTCVYVE 105 (373)
Q Consensus 51 ~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~--~----~~~~L~~esvV~V~ 105 (373)
.+.|+|..+...| +|++|.++ +...+..... + ....++.|+.|.|.
T Consensus 3 ~~~g~V~~i~~~G----~fv~l~~~-----~~g~~~~~~l~~~~~~~~~~~~~~Gd~v~v~ 54 (68)
T cd05685 3 VLEGVVTNVTDFG----AFVDIGVK-----QDGLIHISKMADRFVSHPSDVVSVGDIVEVK 54 (68)
T ss_pred EEEEEEEEEeccc----EEEEcCCC-----CEEEEEHHHCCCccccCHHHhcCCCCEEEEE
Confidence 3789999998877 78899643 4555543321 1 11236888888875
No 241
>COG3061 OapA Cell envelope opacity-associated protein A [Cell envelope biogenesis, outer membrane]
Probab=24.25 E-value=86 Score=30.32 Aligned_cols=57 Identities=30% Similarity=0.376 Sum_probs=37.9
Q ss_pred CCCCCcccccccccccchhhcccccCcceehhhhhcCCCCCCCCCCcEEEE----EEEEEeeecCCCce---eEEEEEEc
Q 017368 2 ADNELPVDQVATMDLNDDAVQRHQFSDRVLIKSILTRPDGGAGLAGRQVRV----GGWVKTGREQGKGS---FAFLEVND 74 (373)
Q Consensus 2 ~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~Ikdi~~~~~l~~~~igk~V~V----~GWV~siR~~Gk~k---l~FIdLRD 74 (373)
.||+||+-.|-+|..-+.+-.+ |+.-..|+.|+| .|+|.-.|.-+ + +.|+...|
T Consensus 175 Rdn~LpitDVnAMakveGagkp-----------------LSnlkaGq~Vki~~naqG~Vt~L~le~--~n~~vlF~RQ~D 235 (242)
T COG3061 175 RDNNLPITDVNAMAKVEGAGKP-----------------LSNLKAGQKVKISLNAQGRVTELRLET--GNNQVLFTRQSD 235 (242)
T ss_pred hccCCChHHhHHHHhhccCCCc-----------------hhhccCCCEEEEEEcCccceEEEEecc--CCceEEEEEcCC
Confidence 3677777777776655544111 122234777777 49999988877 5 99999999
Q ss_pred CCC
Q 017368 75 GSC 77 (373)
Q Consensus 75 gsg 77 (373)
||-
T Consensus 236 GSy 238 (242)
T COG3061 236 GSY 238 (242)
T ss_pred Ccc
Confidence 873
No 242
>PF12109 CXCR4_N: CXCR4 Chemokine receptor N terminal; InterPro: IPR022726 This entry represents the N-terminal region of the CXC type 4 chemokine receptor. CXCR4 and its ligand stromal cell-derived factor-1 (a.k.a. CXCL12) are essential for proper fetal development. CXCR4 is also the major coreceptor for T-tropic strains of Human immunodeficiency virus 1, and SDF-1 inhibits HIV-1 infection. Additionally, SDF-1 and CXCR4 mediate cancer cell migration and metastasis. The N-terminal domain of most chemokine receptors is the ligand binding domain and so the N-terminal domain of CXCR4 is the binding site for SDF-1 [].; PDB: 3OE9_B 3OE0_A 3ODU_A 2K03_D 3OE8_A 2K05_D 3OE6_A 2K04_B.
Probab=23.71 E-value=28 Score=23.65 Aligned_cols=12 Identities=33% Similarity=0.639 Sum_probs=5.9
Q ss_pred ecceecCCCCCC
Q 017368 328 GPTFRAEHSHTS 339 (373)
Q Consensus 328 ~p~fRaE~~~t~ 339 (373)
-||||.|+.+=+
T Consensus 21 EpCf~~eNadFN 32 (33)
T PF12109_consen 21 EPCFREENADFN 32 (33)
T ss_dssp S--SS-SSSSTH
T ss_pred CccccccccccC
Confidence 378888887643
No 243
>PF00575 S1: S1 RNA binding domain; InterPro: IPR003029 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. The S1 domain was originally identified in ribosomal protein S1 but is found in a large number of RNA-associated proteins. The structure of the S1 RNA-binding domain from the Escherichia coli polynucleotide phosphorylase has been determined using NMR methods and consists of a five-stranded antiparallel beta barrel. Conserved residues on one face of the barrel and adjacent loops form the putative RNA-binding site []. The structure of the S1 domain is very similar to that of cold shock proteins. This suggests that they may both be derived from an ancient nucleic acid-binding protein []. More information about these proteins can be found at Protein of the Month: RNA Exosomes []. This entry does not include translation initiation factor IF-1 S1 domains.; GO: 0003723 RNA binding; PDB: 3L7Z_F 2JE6_I 2JEA_I 2JEB_I 1E3P_A 2Y0S_E 1WI5_A 2BH8_A 2CQO_A 2EQS_A ....
Probab=23.59 E-value=2.3e+02 Score=21.01 Aligned_cols=45 Identities=18% Similarity=0.302 Sum_probs=31.5
Q ss_pred EEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhh------hccCCCCCcEEEEE
Q 017368 52 VGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD------LGQLVPTGTCVYVE 105 (373)
Q Consensus 52 V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~------~~~~L~~esvV~V~ 105 (373)
+.|+|.++...| +|++|.. + +...+...... ....+..|+.|.|.
T Consensus 8 v~g~V~~v~~~g----~~V~l~~--~---~~g~ip~~~l~~~~~~~~~~~~~~G~~v~v~ 58 (74)
T PF00575_consen 8 VEGKVTSVEDFG----VFVDLGN--G---IEGFIPISELSDDRIDDPSEVYKIGQTVRVK 58 (74)
T ss_dssp EEEEEEEEETTE----EEEEEST--S---SEEEEEGGGSSSSEESSSHGTCETTCEEEEE
T ss_pred EEEEEEEEECCE----EEEEECC--c---EEEEEEeehhcCccccccccccCCCCEEEEE
Confidence 689999999866 8899972 2 66777654321 23457788888775
No 244
>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=23.26 E-value=2.4e+02 Score=20.88 Aligned_cols=20 Identities=30% Similarity=0.496 Sum_probs=17.3
Q ss_pred EEEEEEEeeecCCCceeEEEEEEc
Q 017368 51 RVGGWVKTGREQGKGSFAFLEVND 74 (373)
Q Consensus 51 ~V~GWV~siR~~Gk~kl~FIdLRD 74 (373)
.+.|+|..+...| +|+.|.+
T Consensus 6 ~~~g~V~~i~~~G----~fv~l~~ 25 (72)
T cd05689 6 RLFGKVTNLTDYG----CFVELEE 25 (72)
T ss_pred EEEEEEEEEEeeE----EEEEcCC
Confidence 4889999999988 8899965
No 245
>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=22.86 E-value=2.9e+02 Score=19.81 Aligned_cols=46 Identities=24% Similarity=0.268 Sum_probs=29.5
Q ss_pred EEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh--hh----ccCCCCCcEEEEE
Q 017368 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA--DL----GQLVPTGTCVYVE 105 (373)
Q Consensus 51 ~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~--~~----~~~L~~esvV~V~ 105 (373)
.+.|.|..+...| +|++|-++ +...+..... ++ ...++.||.|.|.
T Consensus 3 ~~~g~V~~v~~~G----~~v~l~~~-----~~g~l~~~~l~~~~~~~~~~~~~~Gd~v~v~ 54 (68)
T cd04472 3 IYEGKVVKIKDFG----AFVEILPG-----KDGLVHISELSDERVEKVEDVLKVGDEVKVK 54 (68)
T ss_pred EEEEEEEEEEEeE----EEEEeCCC-----CEEEEEhHHcCCccccCHHHccCCCCEEEEE
Confidence 3689999999877 78888653 4444443221 11 1346788888775
No 246
>PRK08582 hypothetical protein; Provisional
Probab=22.46 E-value=1.6e+02 Score=25.92 Aligned_cols=61 Identities=26% Similarity=0.356 Sum_probs=36.1
Q ss_pred EEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCch--hh----hccCCCCCcEEEEEEEeeCCCCCCccceEEEEeE
Q 017368 52 VGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV--AD----LGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQK 125 (373)
Q Consensus 52 V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~--~~----~~~~L~~esvV~V~G~v~~~~~~~~g~vEL~v~~ 125 (373)
+.|.|..+...| +||+|-++ +..++.-.. .+ ....++.||.|.|. |..... .+.+.|.+..
T Consensus 9 v~G~V~~I~~fG----~fV~L~~~-----~~GlVhiSels~~~v~~~~~~l~vGD~Vkvk--V~~id~--~gkI~LSlk~ 75 (139)
T PRK08582 9 LQGKVTGITNFG----AFVELPEG-----KTGLVHISEVADNYVKDINDHLKVGDEVEVK--VLNVED--DGKIGLSIKK 75 (139)
T ss_pred EEEEEEEEECCe----EEEEECCC-----CEEEEEeeccCcccccccccccCCCCEEEEE--EEEECC--CCcEEEEEEe
Confidence 789999999988 89999653 333332221 11 12457899998875 222211 2555555543
No 247
>PRK01584 alanyl-tRNA synthetase; Provisional
Probab=22.41 E-value=1.4e+02 Score=32.78 Aligned_cols=40 Identities=13% Similarity=0.165 Sum_probs=28.8
Q ss_pred CceEEEecceec---CCCCCCCCcCccccceeeecCCCH--HHHHH
Q 017368 322 SNVYTFGPTFRA---EHSHTSRHLAEFWMVEPEMAFSDL--KVRWT 362 (373)
Q Consensus 322 ~~vy~~~p~fRa---E~~~t~rhl~EF~~le~e~~~~~~--~~~~~ 362 (373)
.|+=+.-+|.|+ |+..|.||+.=|-||-- .+|.|| ++.|.
T Consensus 58 ~r~~~~QkCiR~~Dle~VG~~rHhTfFEMlGn-fSfgdYfK~eai~ 102 (594)
T PRK01584 58 TRLVDVQKCLRTGDIDEVGDLSHLTFFEMLGN-WSLGAYFKEESIK 102 (594)
T ss_pred CCccccccccccccccccCCCcchhHHHhhcc-ccHhhhhHHHHHH
Confidence 566677789998 77788999999988653 346564 44554
No 248
>KOG2298 consensus Glycyl-tRNA synthetase and related class II tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=22.25 E-value=21 Score=38.04 Aligned_cols=26 Identities=42% Similarity=0.515 Sum_probs=0.0
Q ss_pred EEecceecCCCCCC--CCcCccccceee
Q 017368 326 TFGPTFRAEHSHTS--RHLAEFWMVEPE 351 (373)
Q Consensus 326 ~~~p~fRaE~~~t~--rhl~EF~~le~e 351 (373)
+||.+||+|=|.-. -+..||+|-|+|
T Consensus 214 qiG~~fRNEISpRsGLlRvrEF~maEIE 241 (599)
T KOG2298|consen 214 QIGKSFRNEISPRSGLLRVREFTMAEIE 241 (599)
T ss_pred HhchHhhhccCcccCceeEEEeehHHhh
No 249
>COG0423 GRS1 Glycyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=21.62 E-value=75 Score=34.38 Aligned_cols=57 Identities=23% Similarity=0.290 Sum_probs=35.3
Q ss_pred Cccceeecc---HHH-HHHHHHhhcC-----ceEEEecceecCCCCCC--CCcCccccceeeecCCCHH
Q 017368 301 ARQAFLTVS---GQL-QVETYACAVS-----NVYTFGPTFRAEHSHTS--RHLAEFWMVEPEMAFSDLK 358 (373)
Q Consensus 301 ~~~~~L~~S---~ql-~~e~~~~~~~-----~vy~~~p~fRaE~~~t~--rhl~EF~~le~e~~~~~~~ 358 (373)
+...||..= |+| --+.++.... -|-+||.+||||=|--+ --+-||+|.|+|. |++-.
T Consensus 158 ~~~~YLRPETAQGiFvnFk~l~~~~r~klPFgiaQIGKsfRNEISPr~gl~R~REF~QaEiE~-Fv~P~ 225 (558)
T COG0423 158 DSLGYLRPETAQGIFVNFKNLLEFARNKLPFGIAQIGKSFRNEISPRNGLFRTREFEQAEIEF-FVDPE 225 (558)
T ss_pred CcceeecccccchhhhhhHHHHHHhccCCCeEEEeechhhccccCcccceeehhhhhhhheee-EECCC
Confidence 357788653 333 1133333221 26799999999965221 2356999999998 66543
No 250
>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=21.29 E-value=2.9e+02 Score=20.36 Aligned_cols=46 Identities=17% Similarity=0.073 Sum_probs=30.0
Q ss_pred EEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh------hhccCCCCCcEEEEE
Q 017368 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA------DLGQLVPTGTCVYVE 105 (373)
Q Consensus 51 ~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~------~~~~~L~~esvV~V~ 105 (373)
.+.|.|.++...| +|++|.. + ...++..... +..+.++.||.|.+.
T Consensus 3 iv~g~V~~i~~~~----~~v~l~~--~---~~g~l~~~e~~~~~~~~~~~~~~~Gd~i~~~ 54 (70)
T cd05687 3 IVKGTVVSVDDDE----VLVDIGY--K---SEGIIPISEFSDDPIENGEDEVKVGDEVEVY 54 (70)
T ss_pred EEEEEEEEEeCCE----EEEEeCC--C---ceEEEEHHHhCccccCCHhHcCCCCCEEEEE
Confidence 3689999998755 8899933 2 5666654321 122447889988875
No 251
>cd05692 S1_RPS1_repeat_hs4 S1_RPS1_repeat_hs4: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 4 (hs4) of the H. sapiens RPS1 homolog. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=20.79 E-value=3.2e+02 Score=19.40 Aligned_cols=46 Identities=26% Similarity=0.332 Sum_probs=29.7
Q ss_pred EEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchh--hh----ccCCCCCcEEEEE
Q 017368 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA--DL----GQLVPTGTCVYVE 105 (373)
Q Consensus 51 ~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~--~~----~~~L~~esvV~V~ 105 (373)
.+.|.|..+...| +|++|.++ ++..+..... ++ .+.++.|+.|.|.
T Consensus 3 ~~~g~V~~i~~~g----~~v~i~~~-----~~g~l~~~~l~~~~~~~~~~~~~~Gd~v~v~ 54 (69)
T cd05692 3 VVEGTVTRLKPFG----AFVELGGG-----ISGLVHISQIAHKRVKDVKDVLKEGDKVKVK 54 (69)
T ss_pred EEEEEEEEEEeee----EEEEECCC-----CEEEEEhHHcCCcccCCHHHccCCCCEEEEE
Confidence 3678899998877 78888543 4555543321 11 1347889998875
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=20.69 E-value=3.5e+02 Score=19.78 Aligned_cols=51 Identities=16% Similarity=0.141 Sum_probs=33.6
Q ss_pred EEEEEEEeeecCCCceeEEEEEEcCCCCceEEEEEeCchhhhccCCCCCcEEEEE
Q 017368 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVE 105 (373)
Q Consensus 51 ~V~GWV~siR~~Gk~kl~FIdLRDgsg~~~IQvVv~~~~~~~~~~L~~esvV~V~ 105 (373)
.+.|.|.++...| ..+-+.|+=+.+. .|...++.+.. ..-.|..|+-|.+.
T Consensus 8 ~l~g~I~~i~~~g--~~~~v~l~~~~~~-~l~a~i~~~~~-~~l~l~~G~~v~~~ 58 (69)
T TIGR00638 8 QLKGKVVAIEDGD--VNAEVDLLLGGGT-KLTAVITLESV-AELGLKPGKEVYAV 58 (69)
T ss_pred EEEEEEEEEEECC--CeEEEEEEECCCC-EEEEEecHHHH-hhCCCCCCCEEEEE
Confidence 5889999998888 5666666644331 47777765432 12347889988764
Done!