Query 018229
Match_columns 359
No_of_seqs 223 out of 1585
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 07:13:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/018229.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/018229hhsearch_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 4.1E-80 8.9E-85 641.0 29.0 358 1-358 1-363 (572)
2 PLN02532 asparagine-tRNA synth 100.0 6.6E-73 1.4E-77 590.1 23.7 337 21-358 21-426 (633)
3 PLN02603 asparaginyl-tRNA synt 100.0 3.7E-64 7.9E-69 521.7 25.1 270 24-358 84-358 (565)
4 COG0017 AsnS Aspartyl/asparagi 100.0 3.4E-64 7.4E-69 504.0 22.7 230 27-358 2-236 (435)
5 PTZ00425 asparagine-tRNA ligas 100.0 1.4E-61 3E-66 502.6 25.1 285 44-358 78-380 (586)
6 KOG0554 Asparaginyl-tRNA synth 100.0 6.5E-62 1.4E-66 476.5 17.2 238 30-356 3-240 (446)
7 PRK03932 asnC asparaginyl-tRNA 100.0 2.9E-58 6.4E-63 468.7 25.1 239 28-358 2-244 (450)
8 TIGR00457 asnS asparaginyl-tRN 100.0 1.2E-57 2.6E-62 464.5 24.5 241 31-358 3-247 (453)
9 TIGR00458 aspS_arch aspartyl-t 100.0 8.1E-57 1.8E-61 455.6 23.0 223 40-358 5-236 (428)
10 PRK05159 aspC aspartyl-tRNA sy 100.0 1.2E-56 2.5E-61 455.5 23.9 229 27-357 2-239 (437)
11 PLN02850 aspartate-tRNA ligase 100.0 1.5E-56 3.4E-61 463.2 22.7 222 40-356 74-326 (530)
12 PTZ00401 aspartyl-tRNA synthet 100.0 8E-56 1.7E-60 458.9 24.2 226 29-355 65-313 (550)
13 COG0173 AspS Aspartyl-tRNA syn 100.0 7.4E-54 1.6E-58 435.1 21.4 229 34-356 3-243 (585)
14 PRK12820 bifunctional aspartyl 100.0 2.3E-53 4.9E-58 448.8 23.8 231 33-358 5-260 (706)
15 TIGR00459 aspS_bact aspartyl-t 100.0 2.9E-53 6.2E-58 441.8 23.6 223 40-358 8-242 (583)
16 PRK00476 aspS aspartyl-tRNA sy 100.0 4.1E-53 8.9E-58 442.3 24.4 233 27-358 3-245 (588)
17 PLN02903 aminoacyl-tRNA ligase 100.0 3.4E-53 7.3E-58 443.9 23.7 232 33-358 59-308 (652)
18 KOG0556 Aspartyl-tRNA syntheta 100.0 1.4E-53 3E-58 418.7 17.8 231 24-355 65-328 (533)
19 PRK00484 lysS lysyl-tRNA synth 100.0 8.8E-53 1.9E-57 432.4 23.4 238 24-358 27-276 (491)
20 PLN02502 lysyl-tRNA synthetase 100.0 2.1E-52 4.5E-57 433.7 23.3 237 25-358 83-333 (553)
21 TIGR00499 lysS_bact lysyl-tRNA 100.0 2E-52 4.3E-57 430.1 22.4 237 25-358 27-276 (496)
22 PRK12445 lysyl-tRNA synthetase 100.0 8.5E-52 1.8E-56 426.0 23.3 236 25-358 39-288 (505)
23 PTZ00385 lysyl-tRNA synthetase 100.0 1.1E-50 2.3E-55 425.1 23.0 238 25-358 82-337 (659)
24 PTZ00417 lysine-tRNA ligase; P 100.0 4.1E-50 8.9E-55 418.3 22.9 236 26-358 108-357 (585)
25 PRK02983 lysS lysyl-tRNA synth 100.0 1.3E-49 2.9E-54 439.0 22.9 230 26-358 636-874 (1094)
26 KOG0555 Asparaginyl-tRNA synth 100.0 1.3E-47 2.8E-52 375.5 15.2 243 12-358 97-345 (545)
27 KOG1885 Lysyl-tRNA synthetase 100.0 8.8E-43 1.9E-47 347.1 10.9 237 24-358 78-329 (560)
28 COG1190 LysU Lysyl-tRNA synthe 100.0 3.6E-42 7.8E-47 347.7 15.4 234 26-358 36-284 (502)
29 KOG2411 Aspartyl-tRNA syntheta 100.0 1.3E-39 2.9E-44 326.1 17.9 226 38-357 38-282 (628)
30 PF00152 tRNA-synt_2: tRNA syn 100.0 1.4E-36 3E-41 298.0 9.1 128 146-358 2-130 (335)
31 cd00776 AsxRS_core Asx tRNA sy 100.0 1.3E-35 2.9E-40 290.8 10.0 125 144-358 2-127 (322)
32 PRK06462 asparagine synthetase 100.0 3.2E-34 6.8E-39 282.6 9.2 131 145-358 9-141 (335)
33 cd00775 LysRS_core Lys_tRNA sy 100.0 1.6E-30 3.5E-35 255.7 10.1 111 159-358 1-112 (329)
34 TIGR00462 genX lysyl-tRNA synt 100.0 3.4E-29 7.3E-34 244.0 7.6 107 166-358 1-109 (304)
35 cd00669 Asp_Lys_Asn_RS_core As 99.9 5.8E-27 1.3E-31 224.8 8.7 104 166-358 1-105 (269)
36 cd00777 AspRS_core Asp tRNA sy 99.9 7.2E-27 1.6E-31 225.4 8.7 104 166-358 1-105 (280)
37 PRK09350 poxB regulator PoxA; 99.9 2.5E-25 5.5E-30 217.0 8.4 105 163-358 2-114 (306)
38 cd04317 EcAspRS_like_N EcAspRS 99.9 5.9E-22 1.3E-26 171.2 12.5 113 43-161 10-134 (135)
39 cd04322 LysRS_N LysRS_N: N-ter 99.8 4.7E-20 1E-24 153.7 11.9 101 49-157 1-108 (108)
40 cd04319 PhAsnRS_like_N PhAsnRS 99.8 6.4E-20 1.4E-24 151.8 12.5 99 49-155 1-103 (103)
41 cd04316 ND_PkAspRS_like_N ND_P 99.8 2.3E-19 4.9E-24 149.7 12.8 98 39-142 4-106 (108)
42 cd04320 AspRS_cyto_N AspRS_cyt 99.8 1.1E-17 2.3E-22 138.0 12.4 90 49-142 1-101 (102)
43 COG2269 Truncated, possibly in 99.7 1.1E-17 2.3E-22 160.0 5.9 110 164-358 14-125 (322)
44 cd04318 EcAsnRS_like_N EcAsnRS 99.7 2.5E-16 5.5E-21 124.8 11.3 79 49-130 1-81 (82)
45 cd04323 AsnRS_cyto_like_N AsnR 99.7 6.1E-16 1.3E-20 123.4 10.4 78 49-131 1-84 (84)
46 cd04321 ScAspRS_mt_like_N ScAs 99.7 9.4E-16 2E-20 123.1 11.1 80 49-131 1-86 (86)
47 cd04100 Asp_Lys_Asn_RS_N Asp_L 99.7 1.2E-15 2.5E-20 121.8 11.1 79 49-131 1-85 (85)
48 PF01336 tRNA_anti-codon: OB-f 99.1 7.2E-10 1.6E-14 84.6 9.1 73 50-129 1-75 (75)
49 PRK09537 pylS pyrolysyl-tRNA s 98.8 1.2E-08 2.6E-13 103.8 8.5 48 145-196 181-233 (417)
50 cd00768 class_II_aaRS-like_cor 98.5 7.8E-08 1.7E-12 86.4 5.0 56 301-356 50-111 (211)
51 TIGR02367 PylS pyrrolysyl-tRNA 98.3 1.6E-06 3.6E-11 88.6 8.7 54 301-355 291-351 (453)
52 cd00773 HisRS-like_core Class 97.8 4.4E-05 9.5E-10 72.7 7.5 32 166-197 2-33 (261)
53 PF00587 tRNA-synt_2b: tRNA sy 97.8 3.1E-05 6.7E-10 69.1 5.1 30 168-197 1-31 (173)
54 cd00779 ProRS_core_prok Prolyl 97.6 9.1E-05 2E-09 70.7 5.9 32 165-196 30-61 (255)
55 cd00670 Gly_His_Pro_Ser_Thr_tR 97.6 0.00014 3E-09 67.3 6.3 31 167-197 3-33 (235)
56 PRK00037 hisS histidyl-tRNA sy 97.5 0.00033 7.2E-09 70.7 8.1 34 163-196 15-48 (412)
57 TIGR00442 hisS histidyl-tRNA s 97.5 0.00038 8.3E-09 70.0 8.1 34 163-196 11-44 (397)
58 cd00774 GlyRS-like_core Glycyl 97.4 0.00017 3.7E-09 68.8 4.8 37 165-207 31-69 (254)
59 cd04489 ExoVII_LU_OBF ExoVII_L 97.3 0.0029 6.3E-08 48.8 10.1 73 50-127 2-75 (78)
60 PRK09194 prolyl-tRNA synthetas 97.3 0.00082 1.8E-08 71.2 8.6 33 164-196 45-77 (565)
61 cd04478 RPA2_DBD_D RPA2_DBD_D: 97.2 0.0062 1.3E-07 49.0 10.6 75 50-132 2-80 (95)
62 cd00771 ThrRS_core Threonyl-tR 97.2 0.0012 2.6E-08 64.4 7.6 33 165-197 29-61 (298)
63 TIGR00409 proS_fam_II prolyl-t 97.1 0.002 4.2E-08 68.6 9.4 33 164-196 45-77 (568)
64 PRK00413 thrS threonyl-tRNA sy 97.1 0.0013 2.7E-08 70.4 7.6 34 164-197 268-301 (638)
65 PRK12305 thrS threonyl-tRNA sy 97.1 0.0011 2.4E-08 70.1 7.0 34 164-197 204-237 (575)
66 cd00772 ProRS_core Prolyl-tRNA 97.1 0.0024 5.2E-08 61.5 8.8 32 166-197 32-63 (264)
67 TIGR00443 hisZ_biosyn_reg ATP 97.1 0.0014 3.1E-08 64.3 7.2 33 164-196 6-38 (314)
68 cd00496 PheRS_alpha_core Pheny 97.0 0.0022 4.8E-08 59.8 7.4 50 304-355 60-113 (218)
69 CHL00201 syh histidine-tRNA sy 97.0 0.0024 5.2E-08 65.5 8.2 33 164-196 16-48 (430)
70 cd00778 ProRS_core_arch_euk Pr 97.0 0.00096 2.1E-08 64.0 4.8 33 165-197 31-63 (261)
71 cd04487 RecJ_OBF2_like RecJ_OB 96.9 0.0087 1.9E-07 46.9 9.3 72 50-129 1-73 (73)
72 COG0124 HisS Histidyl-tRNA syn 96.9 0.0027 5.9E-08 65.4 8.0 31 165-195 17-47 (429)
73 cd04483 hOBFC1_like hOBFC1_lik 96.8 0.012 2.6E-07 48.2 9.7 68 52-127 2-90 (92)
74 PF13742 tRNA_anti_2: OB-fold 96.8 0.011 2.4E-07 48.7 9.5 77 46-127 20-98 (99)
75 PLN02530 histidine-tRNA ligase 96.8 0.0039 8.4E-08 65.0 8.2 33 163-195 81-113 (487)
76 COG1107 Archaea-specific RecJ- 96.8 0.0027 5.8E-08 67.0 6.8 98 17-129 190-288 (715)
77 PRK12292 hisZ ATP phosphoribos 96.8 0.0035 7.6E-08 63.4 7.4 33 163-195 14-46 (391)
78 TIGR00414 serS seryl-tRNA synt 96.7 0.0033 7.2E-08 64.4 6.6 34 164-197 171-204 (418)
79 TIGR00418 thrS threonyl-tRNA s 96.7 0.0055 1.2E-07 64.6 8.2 33 164-196 198-230 (563)
80 cd00770 SerRS_core Seryl-tRNA 96.6 0.0023 5E-08 62.5 4.8 34 164-197 50-83 (297)
81 PRK04172 pheS phenylalanyl-tRN 96.6 0.0099 2.2E-07 62.1 9.7 33 322-355 351-383 (489)
82 cd04485 DnaE_OBF DnaE_OBF: A s 96.6 0.013 2.7E-07 44.7 7.8 72 52-130 2-78 (84)
83 PF13393 tRNA-synt_His: Histid 96.5 0.0079 1.7E-07 58.3 7.9 34 163-196 7-40 (311)
84 cd04492 YhaM_OBF_like YhaM_OBF 96.5 0.054 1.2E-06 41.6 11.0 64 61-131 15-78 (83)
85 PRK08661 prolyl-tRNA synthetas 96.5 0.0039 8.4E-08 65.0 5.7 34 164-197 42-75 (477)
86 PRK12420 histidyl-tRNA synthet 96.5 0.0089 1.9E-07 61.0 8.2 34 163-196 15-48 (423)
87 PRK12293 hisZ ATP phosphoribos 96.5 0.009 1.9E-07 58.2 7.8 33 164-196 17-49 (281)
88 PRK12325 prolyl-tRNA synthetas 96.5 0.009 2E-07 61.5 8.1 32 165-196 46-77 (439)
89 PTZ00326 phenylalanyl-tRNA syn 96.5 0.013 2.7E-07 61.5 9.1 34 322-356 358-391 (494)
90 PRK12444 threonyl-tRNA synthet 96.4 0.006 1.3E-07 65.6 6.9 32 166-197 274-305 (639)
91 PLN02972 Histidyl-tRNA synthet 96.4 0.0093 2E-07 65.3 8.3 34 162-195 337-370 (763)
92 cd03524 RPA2_OBF_family RPA2_O 96.4 0.031 6.6E-07 40.8 8.7 68 52-126 2-73 (75)
93 PF01409 tRNA-synt_2d: tRNA sy 96.4 0.0093 2E-07 57.1 7.0 33 321-354 102-134 (247)
94 PRK00488 pheS phenylalanyl-tRN 96.3 0.01 2.3E-07 59.4 7.0 31 323-354 187-217 (339)
95 TIGR00408 proS_fam_I prolyl-tR 96.3 0.0047 1E-07 64.3 4.6 43 166-208 38-89 (472)
96 PRK12421 ATP phosphoribosyltra 96.2 0.015 3.3E-07 59.1 8.2 34 163-196 18-51 (392)
97 PLN02853 Probable phenylalanyl 96.2 0.011 2.5E-07 61.6 7.3 30 323-353 344-373 (492)
98 COG0016 PheS Phenylalanyl-tRNA 96.2 0.011 2.4E-07 59.0 6.7 46 304-350 172-220 (335)
99 PLN02908 threonyl-tRNA synthet 96.1 0.013 2.9E-07 63.6 7.4 34 164-197 319-352 (686)
100 cd04490 PolII_SU_OBF PolII_SU_ 96.1 0.066 1.4E-06 42.5 9.4 68 50-126 2-72 (79)
101 PRK05431 seryl-tRNA synthetase 96.0 0.02 4.3E-07 58.9 7.9 34 164-197 168-202 (425)
102 cd04482 RPA2_OBF_like RPA2_OBF 96.0 0.073 1.6E-06 43.3 9.4 72 50-132 1-77 (91)
103 TIGR00468 pheS phenylalanyl-tR 95.9 0.027 5.8E-07 55.2 7.9 30 322-352 151-180 (294)
104 PRK14799 thrS threonyl-tRNA sy 95.8 0.013 2.9E-07 62.1 5.7 33 164-196 166-198 (545)
105 PRK07373 DNA polymerase III su 95.8 0.05 1.1E-06 56.5 9.8 78 45-129 278-360 (449)
106 PLN02837 threonine-tRNA ligase 95.6 0.014 3E-07 62.8 4.9 34 164-197 245-278 (614)
107 PLN02788 phenylalanine-tRNA sy 95.6 0.045 9.7E-07 56.1 8.3 57 297-354 121-179 (402)
108 PF10451 Stn1: Telomere regula 95.6 0.1 2.2E-06 50.4 10.4 74 48-130 67-148 (256)
109 PF04076 BOF: Bacterial OB fol 95.3 0.11 2.3E-06 43.6 8.2 82 28-127 21-102 (103)
110 TIGR00156 conserved hypothetic 95.2 0.22 4.8E-06 43.3 10.1 81 29-127 45-125 (126)
111 COG4085 Predicted RNA-binding 95.2 0.094 2E-06 48.6 8.0 75 44-125 48-129 (204)
112 PRK12295 hisZ ATP phosphoribos 95.1 0.066 1.4E-06 54.2 7.6 26 171-196 9-34 (373)
113 PLN02678 seryl-tRNA synthetase 94.7 0.036 7.7E-07 57.6 4.4 34 164-197 172-205 (448)
114 PRK06826 dnaE DNA polymerase I 94.6 0.15 3.2E-06 58.7 9.5 79 46-130 990-1073(1151)
115 COG3111 Periplasmic protein wi 94.6 0.25 5.3E-06 42.8 8.5 74 44-129 54-127 (128)
116 PRK04173 glycyl-tRNA synthetas 94.6 0.035 7.6E-07 57.6 4.1 32 166-197 38-71 (456)
117 PF12869 tRNA_anti-like: tRNA_ 94.6 0.085 1.8E-06 45.5 5.9 67 43-110 63-131 (144)
118 PRK05672 dnaE2 error-prone DNA 94.5 0.14 3E-06 58.5 8.9 80 45-131 951-1033(1046)
119 COG5235 RFA2 Single-stranded D 94.4 0.21 4.6E-06 46.9 8.4 92 28-127 40-141 (258)
120 PRK03991 threonyl-tRNA synthet 94.3 0.061 1.3E-06 57.9 5.4 33 164-196 225-257 (613)
121 PRK07374 dnaE DNA polymerase I 94.2 0.2 4.3E-06 57.8 9.4 77 46-129 999-1080(1170)
122 PRK10053 hypothetical protein; 94.2 0.43 9.4E-06 41.7 9.4 72 44-127 58-129 (130)
123 PLN02320 seryl-tRNA synthetase 94.2 0.046 9.9E-07 57.5 4.0 38 165-202 232-270 (502)
124 PRK06461 single-stranded DNA-b 94.1 0.89 1.9E-05 39.3 11.1 85 29-131 4-100 (129)
125 PRK06920 dnaE DNA polymerase I 94.1 0.2 4.3E-06 57.4 9.0 78 46-130 942-1024(1107)
126 cd04488 RecG_wedge_OBF RecG_we 93.8 0.6 1.3E-05 34.6 8.5 68 52-126 2-72 (75)
127 PRK15491 replication factor A; 93.6 0.63 1.4E-05 47.3 10.8 90 30-133 58-157 (374)
128 PRK05673 dnaE DNA polymerase I 93.5 0.28 6E-06 56.5 8.9 79 46-131 976-1059(1135)
129 cd04479 RPA3 RPA3: A subfamily 93.3 0.83 1.8E-05 37.8 9.3 68 44-130 12-79 (101)
130 PRK13480 3'-5' exoribonuclease 93.3 0.75 1.6E-05 45.8 10.5 80 46-132 10-93 (314)
131 PRK07279 dnaE DNA polymerase I 92.9 0.41 8.8E-06 54.6 8.8 74 47-127 884-963 (1034)
132 cd04474 RPA1_DBD_A RPA1_DBD_A: 92.7 0.75 1.6E-05 38.0 8.2 75 48-125 10-98 (104)
133 PF03100 CcmE: CcmE; InterPro 92.7 1.6 3.5E-05 37.8 10.5 87 30-137 37-127 (131)
134 KOG2784 Phenylalanyl-tRNA synt 92.2 0.055 1.2E-06 54.6 0.8 39 318-357 328-368 (483)
135 cd04484 polC_OBF polC_OBF: A s 92.0 3.1 6.7E-05 33.1 10.6 73 50-127 2-80 (82)
136 PF08661 Rep_fac-A_3: Replicat 92.0 0.69 1.5E-05 38.6 7.1 59 44-112 15-73 (109)
137 COG1570 XseA Exonuclease VII, 91.9 0.79 1.7E-05 47.6 8.9 76 48-128 24-100 (440)
138 PRK14699 replication factor A; 91.1 1.5 3.3E-05 46.1 10.1 90 30-133 58-157 (484)
139 PRK00286 xseA exodeoxyribonucl 91.0 1.6 3.4E-05 44.9 10.1 79 47-130 23-102 (438)
140 cd04491 SoSSB_OBF SoSSB_OBF: A 90.2 3.2 6.9E-05 32.4 9.0 53 66-126 23-76 (82)
141 TIGR00237 xseA exodeoxyribonuc 90.0 1.9 4.2E-05 44.5 9.7 77 49-130 19-96 (432)
142 PRK12366 replication factor A; 89.7 2.7 5.9E-05 45.6 10.9 82 46-129 290-380 (637)
143 PRK12294 hisZ ATP phosphoribos 89.7 0.83 1.8E-05 44.5 6.3 34 163-196 4-37 (272)
144 PRK15491 replication factor A; 89.3 3.7 8.1E-05 41.8 11.0 82 48-133 177-267 (374)
145 PRK12366 replication factor A; 89.1 2.7 6E-05 45.6 10.4 84 29-125 63-154 (637)
146 PRK07459 single-stranded DNA-b 88.1 5.2 0.00011 34.2 9.5 52 81-132 46-104 (121)
147 PRK08486 single-stranded DNA-b 87.7 3.2 6.9E-05 38.2 8.5 53 81-133 51-109 (182)
148 PRK13254 cytochrome c-type bio 87.6 7.6 0.00016 34.6 10.5 76 45-137 49-127 (148)
149 PRK00960 seryl-tRNA synthetase 87.6 0.41 8.9E-06 50.7 2.8 34 164-197 221-255 (517)
150 COG0441 ThrS Threonyl-tRNA syn 87.4 0.39 8.6E-06 51.6 2.7 32 166-197 220-251 (589)
151 COG3705 HisZ ATP phosphoribosy 87.0 0.71 1.5E-05 47.3 4.1 33 166-198 17-49 (390)
152 PRK07211 replication factor A; 87.0 5 0.00011 42.3 10.4 74 48-127 64-147 (485)
153 PRK10917 ATP-dependent DNA hel 86.9 4.3 9.4E-05 44.3 10.3 77 45-128 57-136 (681)
154 PRK07275 single-stranded DNA-b 86.4 3.6 7.9E-05 37.1 7.9 52 81-132 49-106 (162)
155 PF15072 DUF4539: Domain of un 86.4 6.4 0.00014 32.0 8.6 60 49-112 4-64 (86)
156 TIGR00617 rpa1 replication fac 86.2 4.7 0.0001 43.6 10.0 84 48-133 191-286 (608)
157 PRK06863 single-stranded DNA-b 86.0 5.2 0.00011 36.4 8.7 52 81-132 54-111 (168)
158 PRK06751 single-stranded DNA-b 85.7 5.8 0.00013 36.2 8.9 52 81-132 49-106 (173)
159 KOG3108 Single-stranded DNA-bi 85.5 6 0.00013 38.6 9.4 73 49-129 70-145 (265)
160 PRK14699 replication factor A; 84.4 6.7 0.00015 41.3 9.9 85 46-133 285-377 (484)
161 PRK06293 single-stranded DNA-b 84.4 7.9 0.00017 35.0 9.1 52 81-132 45-102 (161)
162 PRK13150 cytochrome c-type bio 84.3 13 0.00029 33.6 10.4 77 45-137 55-134 (159)
163 PRK07135 dnaE DNA polymerase I 83.4 3.1 6.7E-05 47.4 7.3 64 46-112 896-962 (973)
164 COG0172 SerS Seryl-tRNA synthe 83.2 2.6 5.7E-05 43.7 6.2 34 165-198 173-206 (429)
165 PRK13165 cytochrome c-type bio 82.5 20 0.00043 32.5 10.8 77 45-137 55-134 (160)
166 COG0442 ProS Prolyl-tRNA synth 82.5 2.3 5E-05 44.9 5.6 32 165-196 46-77 (500)
167 PRK08402 replication factor A; 81.4 12 0.00027 37.9 10.1 87 30-129 63-159 (355)
168 PRK07217 replication factor A; 81.3 17 0.00038 36.2 10.8 85 46-140 81-168 (311)
169 TIGR00470 sepS O-phosphoseryl- 80.6 1.1 2.3E-05 47.2 2.3 32 322-353 208-239 (533)
170 PRK06386 replication factor A; 80.6 20 0.00044 36.5 11.3 76 47-133 117-198 (358)
171 PRK08763 single-stranded DNA-b 80.1 15 0.00032 33.3 9.2 52 81-132 54-111 (164)
172 PRK07218 replication factor A; 79.1 12 0.00027 38.8 9.4 70 47-126 68-143 (423)
173 PRK07211 replication factor A; 79.1 13 0.00028 39.3 9.7 80 47-132 171-259 (485)
174 PRK02801 primosomal replicatio 78.9 6.8 0.00015 32.4 6.2 49 81-129 50-100 (101)
175 cd04496 SSB_OBF SSB_OBF: A sub 78.1 5.3 0.00012 31.6 5.2 50 80-129 45-100 (100)
176 TIGR00643 recG ATP-dependent D 77.9 13 0.00028 40.2 9.6 63 45-111 30-96 (630)
177 COG1200 RecG RecG-like helicas 77.5 18 0.00039 39.7 10.3 92 26-130 45-139 (677)
178 PRK05813 single-stranded DNA-b 77.5 23 0.00051 33.5 10.1 83 48-133 110-211 (219)
179 TIGR00415 serS_MJ seryl-tRNA s 77.3 5.6 0.00012 42.2 6.4 35 164-198 221-256 (520)
180 PRK08182 single-stranded DNA-b 76.3 22 0.00048 31.5 9.1 51 81-131 56-112 (148)
181 cd05694 S1_Rrp5_repeat_hs2_sc2 75.3 9.2 0.0002 29.7 5.7 47 51-105 7-53 (74)
182 PRK07218 replication factor A; 74.9 34 0.00074 35.6 11.3 76 47-131 172-253 (423)
183 PRK13159 cytochrome c-type bio 74.9 36 0.00077 30.8 10.0 86 31-137 39-127 (155)
184 PRK06752 single-stranded DNA-b 74.9 8.2 0.00018 32.3 5.7 52 81-132 49-106 (112)
185 cd04497 hPOT1_OB1_like hPOT1_O 72.1 37 0.00081 29.4 9.3 96 30-132 4-106 (138)
186 PRK06958 single-stranded DNA-b 70.7 7 0.00015 36.1 4.6 52 81-132 54-111 (182)
187 COG3689 Predicted membrane pro 70.5 24 0.00051 34.5 8.3 89 42-137 170-266 (271)
188 PF00436 SSB: Single-strand bi 70.1 3.5 7.7E-05 33.0 2.3 49 81-129 50-104 (104)
189 PRK00448 polC DNA polymerase I 68.7 41 0.00089 40.2 11.3 82 46-129 235-320 (1437)
190 PRK05733 single-stranded DNA-b 67.5 40 0.00087 30.8 8.8 51 81-131 55-113 (172)
191 PRK00036 primosomal replicatio 67.4 15 0.00033 31.1 5.6 51 81-132 49-99 (107)
192 PF12857 TOBE_3: TOBE-like dom 66.4 31 0.00068 25.4 6.6 51 51-105 6-56 (58)
193 TIGR00621 ssb single stranded 66.2 11 0.00025 33.7 5.0 52 81-132 53-110 (164)
194 TIGR00469 pheS_mito phenylalan 65.4 22 0.00048 37.3 7.5 31 323-354 135-165 (460)
195 PRK06642 single-stranded DNA-b 65.3 44 0.00094 29.8 8.5 51 81-131 55-116 (152)
196 COG1571 Predicted DNA-binding 65.0 26 0.00057 36.4 7.9 73 47-131 266-343 (421)
197 PRK04036 DNA polymerase II sma 64.8 27 0.00059 36.9 8.2 61 46-109 152-215 (504)
198 cd04486 YhcR_OBF_like YhcR_OBF 63.4 55 0.0012 25.7 7.9 71 51-130 1-76 (78)
199 PRK07080 hypothetical protein; 61.4 3.5 7.6E-05 41.1 0.8 28 323-350 153-181 (317)
200 TIGR00594 polc DNA-directed DN 60.8 15 0.00033 42.2 5.9 37 46-85 980-1021(1022)
201 TIGR01405 polC_Gram_pos DNA po 59.4 75 0.0016 37.5 11.1 79 46-129 6-91 (1213)
202 KOG2324 Prolyl-tRNA synthetase 58.6 14 0.00031 37.8 4.5 31 166-196 52-82 (457)
203 PRK07274 single-stranded DNA-b 58.5 24 0.00052 30.4 5.4 51 81-131 49-104 (131)
204 PF13567 DUF4131: Domain of un 58.4 73 0.0016 26.6 8.4 62 47-112 75-145 (176)
205 PF15490 Ten1_2: Telomere-capp 56.1 1.3E+02 0.0029 25.8 14.1 89 30-129 8-96 (118)
206 PRK09010 single-stranded DNA-b 55.8 25 0.00053 32.3 5.3 52 81-132 56-116 (177)
207 PRK13732 single-stranded DNA-b 55.2 23 0.00049 32.5 4.9 53 81-133 56-116 (175)
208 PRK05813 single-stranded DNA-b 54.5 37 0.00081 32.2 6.4 83 46-132 7-103 (219)
209 PF11736 DUF3299: Protein of u 51.1 1.4E+02 0.0031 26.5 9.2 82 42-127 50-143 (146)
210 cd04452 S1_IF2_alpha S1_IF2_al 48.8 64 0.0014 24.1 5.9 48 51-105 6-59 (76)
211 PRK07772 single-stranded DNA-b 45.7 34 0.00074 31.6 4.6 46 81-126 55-106 (186)
212 COG2965 PriB Primosomal replic 45.2 1.3E+02 0.0028 25.4 7.3 38 92-129 64-102 (103)
213 PF03843 Slp: Outer membrane l 44.7 69 0.0015 28.8 6.3 85 28-120 18-115 (160)
214 cd05698 S1_Rrp5_repeat_hs6_sc5 44.7 63 0.0014 23.8 5.2 46 51-105 3-54 (70)
215 PLN02734 glycyl-tRNA synthetas 43.7 8.8 0.00019 42.1 0.4 31 167-197 110-141 (684)
216 COG0423 GRS1 Glycyl-tRNA synth 43.7 11 0.00023 40.3 1.0 30 167-196 41-72 (558)
217 cd05707 S1_Rrp5_repeat_sc11 S1 43.6 70 0.0015 23.6 5.3 46 51-105 3-54 (68)
218 COG2176 PolC DNA polymerase II 42.0 61 0.0013 38.0 6.6 78 49-129 241-323 (1444)
219 PRK14894 glycyl-tRNA synthetas 41.3 16 0.00035 38.9 1.9 28 323-352 167-198 (539)
220 cd05705 S1_Rrp5_repeat_hs14 S1 38.9 1.3E+02 0.0028 23.1 6.3 46 51-105 6-60 (74)
221 cd00673 AlaRS_core Alanyl-tRNA 38.9 69 0.0015 30.8 5.6 26 170-195 2-27 (232)
222 TIGR00752 slp outer membrane l 38.2 1E+02 0.0023 28.4 6.5 83 42-130 43-143 (182)
223 PF03459 TOBE: TOBE domain; I 37.2 1.6E+02 0.0035 21.3 6.5 51 51-105 6-56 (64)
224 PF04057 Rep-A_N: Replication 36.2 1.5E+02 0.0033 24.4 6.7 61 66-130 38-100 (101)
225 PRK05853 hypothetical protein; 35.8 61 0.0013 29.3 4.5 46 81-126 45-96 (161)
226 PRK06386 replication factor A; 34.9 4.2E+02 0.009 27.1 10.7 69 47-124 12-86 (358)
227 KOG1035 eIF-2alpha kinase GCN2 33.8 29 0.00063 40.6 2.5 30 165-194 931-960 (1351)
228 cd05708 S1_Rrp5_repeat_sc12 S1 33.3 1.1E+02 0.0024 22.6 5.0 46 52-105 6-57 (77)
229 KOG1637 Threonyl-tRNA syntheta 31.6 40 0.00086 35.7 2.9 31 167-197 193-223 (560)
230 COG3390 Uncharacterized protei 30.5 1.3E+02 0.0028 28.2 5.7 62 48-111 46-111 (196)
231 PF00458 WHEP-TRS: WHEP-TRS do 29.5 1.2E+02 0.0026 22.7 4.5 39 238-276 4-42 (56)
232 PF02721 DUF223: Domain of unk 29.3 2.4E+02 0.0052 22.5 6.7 63 70-133 2-69 (95)
233 TIGR00389 glyS_dimeric glycyl- 28.8 18 0.0004 38.8 -0.1 32 166-197 37-69 (551)
234 PRK06341 single-stranded DNA-b 28.3 1E+02 0.0023 27.9 4.7 46 81-126 55-107 (166)
235 PRK08582 hypothetical protein; 28.0 3.9E+02 0.0084 23.3 8.2 65 46-125 5-75 (139)
236 TIGR00638 Mop molybdenum-pteri 27.5 2.5E+02 0.0053 20.5 6.3 51 51-105 8-58 (69)
237 COG0587 DnaE DNA polymerase II 27.5 1.4E+02 0.0031 35.0 6.6 61 49-112 978-1044(1139)
238 cd05685 S1_Tex S1_Tex: The C-t 27.1 1.8E+02 0.004 20.6 5.2 46 51-105 3-54 (68)
239 cd04453 S1_RNase_E S1_RNase_E: 27.1 1.6E+02 0.0034 23.5 5.1 48 51-105 10-66 (88)
240 PF00575 S1: S1 RNA binding do 25.5 1.8E+02 0.0039 21.5 5.0 45 52-105 8-58 (74)
241 cd04472 S1_PNPase S1_PNPase: P 25.1 2.2E+02 0.0047 20.3 5.3 46 51-105 3-54 (68)
242 cd05689 S1_RPS1_repeat_ec4 S1_ 24.5 2E+02 0.0043 21.2 5.0 20 51-74 6-25 (72)
243 cd05687 S1_RPS1_repeat_ec1_hs1 24.4 2.1E+02 0.0045 21.0 5.1 46 51-105 3-54 (70)
244 cd05692 S1_RPS1_repeat_hs4 S1_ 24.2 2.1E+02 0.0046 20.2 5.0 46 51-105 3-54 (69)
245 KOG1936 Histidyl-tRNA syntheta 24.1 73 0.0016 33.5 3.2 30 164-193 72-101 (518)
246 PF15513 DUF4651: Domain of un 23.7 1E+02 0.0022 23.8 3.1 22 167-188 2-23 (62)
247 cd05706 S1_Rrp5_repeat_sc10 S1 23.6 2.8E+02 0.0062 20.4 5.8 46 51-105 6-57 (73)
248 COG0423 GRS1 Glycyl-tRNA synth 22.9 68 0.0015 34.4 2.8 27 324-352 190-220 (558)
249 KOG2851 Eukaryotic-type DNA pr 22.7 86 0.0019 32.1 3.4 52 305-357 61-116 (412)
250 COG2374 Predicted extracellula 22.2 3.8E+02 0.0083 30.2 8.3 82 26-111 193-281 (798)
251 cd04461 S1_Rrp5_repeat_hs8_sc7 22.1 2.1E+02 0.0045 22.0 4.9 49 46-105 14-68 (83)
252 cd04480 RPA1_DBD_A_like RPA1_D 21.8 3.8E+02 0.0083 20.7 7.7 52 53-107 8-60 (86)
253 KOG2298 Glycyl-tRNA synthetase 21.7 23 0.00051 37.5 -0.8 26 326-351 214-241 (599)
254 COG0629 Ssb Single-stranded DN 21.7 1.9E+02 0.0041 25.8 5.1 32 81-112 53-85 (167)
255 TIGR00389 glyS_dimeric glycyl- 21.3 93 0.002 33.6 3.5 28 323-352 185-216 (551)
256 PRK05807 hypothetical protein; 21.2 5.4E+02 0.012 22.2 8.7 62 51-126 8-75 (136)
257 cd05690 S1_RPS1_repeat_ec5 S1_ 20.5 2.6E+02 0.0057 20.2 5.0 46 51-105 3-55 (69)
258 PRK01584 alanyl-tRNA synthetas 20.3 1.5E+02 0.0033 32.3 4.9 28 322-349 58-88 (594)
No 1
>PLN02221 asparaginyl-tRNA synthetase
Probab=100.00 E-value=4.1e-80 Score=641.03 Aligned_cols=358 Identities=74% Similarity=1.195 Sum_probs=323.7
Q ss_pred CCCCCC-Cccccccccccccc--ccccccccceeehhhhcCCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCC
Q 018229 1 MADNEL-PVDQVATMDLNDDA--VQRHQFSDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSC 77 (359)
Q Consensus 1 ~~~~~~-~~~~~~~~~~~~~~--~~~~~~~~r~~i~di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg 77 (359)
|.|.-. |.+|||+++++.++ +|-.+++.+++|++|+...+.+..++|+.|+|+|||+++|.+|+++++||+|||+++
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 445444 56899999999987 344679999999999876666788999999999999999999942389999999995
Q ss_pred CceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCCC--CCcccEEEEEeEEEEeecCCCCCCCCCCcCcchhhhccCcCc
Q 018229 78 PANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPE--GTKQKIELRVQKVVDVGMVDPAKYPIPKTKLTLEFLRDRIPF 155 (359)
Q Consensus 78 ~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~~--~~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~~~~e~lr~~r~L 155 (359)
.+.||||+.++.....+.|+.||+|.|+|+|+.++. +++|++||++++|+|||++.+.+||++.+.++.|++|+++||
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 445999998764333346899999999999998763 256799999999999999975689999888899999999999
Q ss_pred cCCchHHHHHHHHHHHHHHHHHHHHHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHH
Q 018229 156 RPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAA 235 (359)
Q Consensus 156 ~lR~~~~~ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 235 (359)
|+|++.++++||+||.|.++||+||.++||+||+||+|++++||||+++|+|+|+.+..+..+....++++......||+
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 99999999999999999999999999999999999999999999999999999887655556666777887777889999
Q ss_pred HHHHHHhhhHHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHH
Q 018229 236 KLVIKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVE 315 (359)
Q Consensus 236 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e 315 (359)
+++++++++.|+.|+++++|.|+++|++||+++|++..+.+|++++++++.|.+.|+..|+.||||+++||+||||||||
T Consensus 241 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~dyFg~~ayLtqS~QLy~e 320 (572)
T PLN02221 241 RLIVKERGEVVAQLKAAKASKEEITAAVAELKIAKESLAHIEERSKLKPGLPKKDGKIDYSKDFFGRQAFLTVSGQLQVE 320 (572)
T ss_pred hhhhhhhcchhhhhhccccchhhhhhhhhhhhhhhhhhhhhhhhhhcccCCcccccccccccccCCCCeeeccCHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHccccceEEEeceeecCCCCCCCccccccccceeecccCCC
Q 018229 316 TYACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 316 ~~~~~~~~Vy~~~p~fRaE~~~t~rHl~EF~mle~E~af~~l~ 358 (359)
++++||+|||+|||+||||+++|+|||+||||||+||+|+|++
T Consensus 321 ~~~~~l~rVfeIgP~FRAE~s~T~RHL~EFtmlE~Emaf~d~~ 363 (572)
T PLN02221 321 TYACALSSVYTFGPTFRAENSHTSRHLAEFWMVEPEIAFADLE 363 (572)
T ss_pred HHHHhcCCeEEEccceecCCCCCCcccccccceeeeeecCCHH
Confidence 9999999999999999999999999999999999999999863
No 2
>PLN02532 asparagine-tRNA synthetase
Probab=100.00 E-value=6.6e-73 Score=590.06 Aligned_cols=337 Identities=51% Similarity=0.860 Sum_probs=300.1
Q ss_pred ccccccccceeehhhhcCCCCCCCCCCCEEEEEEEEeecccCCCc-----------------------------------
Q 018229 21 VQRHQFSDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKG----------------------------------- 65 (359)
Q Consensus 21 ~~~~~~~~r~~i~di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~----------------------------------- 65 (359)
+..++|++|+.++.|+++.|.+...+|+.|.|.|||++.+..+|.
T Consensus 21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 100 (633)
T PLN02532 21 ITPSKYSNRVVLKTILGRSDGGAGLVGKRVVVGGWVKSAKEVKKEPAPPPPPQSPSSAGDQSPGHKDVRCTEILQSRVPI 100 (633)
T ss_pred ccchhccceeeeeeecccCCCccccccceEEecceehhhHHhhcCCCCCCCCCCCCCCCCCCCCcCCcchhHHHhhhcHH
Confidence 345789999999999999999999999999999999875443322
Q ss_pred ---------------------------------eeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCC
Q 018229 66 ---------------------------------SFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPP 112 (359)
Q Consensus 66 ---------------------------------kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~ 112 (359)
+++||+||||+|.+.||||+.++.....+.|+.|++|.|+|+|+.++
T Consensus 101 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r~~g~i~FI~LrDGSg~~~lQvVv~~~~~~~~~~L~~Es~V~V~G~V~~~~ 180 (633)
T PLN02532 101 FRSIAKVLSGGGSTYPVREKTEIAIQKSAPPPPSVAYLLISDGSCVASLQVVVDSALAPLTQLMATGTCILAEGVLKLPL 180 (633)
T ss_pred HHHHHHHHcCCCCCCCcccccccccccccccCCCcEEEEEECCCCccceEEEEeCCcccHhhcCCCceEEEEEEEEEecC
Confidence 89999999999988899999876433346799999999999999884
Q ss_pred C-CCcccEEEEEeEEEEeecCCCCCCCCCCcCcchhhhccCcCccCCchHHHHHHHHHHHHHHHHHHHHHhCCcEEEccC
Q 018229 113 E-GTKQKIELRVQKVVDVGMVDPAKYPIPKTKLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTP 191 (359)
Q Consensus 113 ~-~~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~~~~e~lr~~r~L~lR~~~~~ai~riRS~I~~~iR~fL~~~gF~EV~TP 191 (359)
. ..+|++||++++|+||+++.+.+|||+++.+++|++|++||||+|++.++++||+||.|.++||+||+++||+||+||
T Consensus 181 ~~~~~g~iEl~v~~i~VLg~a~~~p~Pi~~k~~~~E~LR~~RhLdLRt~~~~ailRiRS~i~~aiR~ff~~~GFiEV~TP 260 (633)
T PLN02532 181 PAQGKHVIELEVEKILHIGTVDPEKYPLSKKRLPLDMLRDFSHFRPRTTTVASVTRVRSALTHATHTFFQDHGFLYVQVP 260 (633)
T ss_pred CCCCCCcEEEEeeEEEEEecCCCCCCccccccCCHHHHhhCcceecCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEeeCC
Confidence 2 357899999999999999865789999888899999999999999999999999999999999999999999999999
Q ss_pred eeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhcccchhhhhhhhHHHHHHHHH
Q 018229 192 IITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASVTELTKAKE 271 (359)
Q Consensus 192 iLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 271 (359)
+|++++||||+++|+|+|+..+.++.......++. ..-+.+++++++++|+..|..++++.+|+||+.|+.+++.++++
T Consensus 261 iLT~s~~EGa~elF~v~t~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 339 (633)
T PLN02532 261 IITTTDATGFGEMFRVTTLLGKSDDKEEKKPVHET-EGISLEAVKAAIKEKTNLVEELKRSESNREALVAAEQDLRKTNQ 339 (633)
T ss_pred eecccCCCccccccceecccccccccccccccccc-ccccchhhhhhhhccccccccccccccccccccccccccccccc
Confidence 99999999999999999976433321111111111 12367899999999999999999999999999999999999999
Q ss_pred HHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHHHccccceEEEeceeecCCCCCCCcccccccccee
Q 018229 272 NLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPE 351 (359)
Q Consensus 272 ~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~~~~~~Vy~~~p~fRaE~~~t~rHl~EF~mle~E 351 (359)
..+++|..++.+.+.+.+.++.+|+.+||++++||+||||||||+|++||+|||+|||+||||+++|+|||+||||||+|
T Consensus 340 ~~~~~~~~~~~~~~~~~~~~~~~f~~dyFg~~ayLtqS~QLylE~~~~gl~rVYeIgP~FRAE~s~T~RHL~EFtmlE~E 419 (633)
T PLN02532 340 LASQLEAKEKLKTGTSVKADKLSFSKDFFSRPTYLTVSGRLHLESYACALGNVYTFGPRFRADRIDSARHLAEMWMVEVE 419 (633)
T ss_pred ccccccccccccccccccccccccccccCCCCeeeccCHHHHHHHHHHhcCceEEEccceecCCCCCCcccccccceeee
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ecccCCC
Q 018229 352 MAFSDLK 358 (359)
Q Consensus 352 ~af~~l~ 358 (359)
|+|+||+
T Consensus 420 maf~d~~ 426 (633)
T PLN02532 420 MAFSELE 426 (633)
T ss_pred ehhcCHH
Confidence 9999864
No 3
>PLN02603 asparaginyl-tRNA synthetase
Probab=100.00 E-value=3.7e-64 Score=521.73 Aligned_cols=270 Identities=55% Similarity=0.909 Sum_probs=231.1
Q ss_pred cccccceeehhhhcCCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhhh--cc--CCCCC
Q 018229 24 HQFSDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADL--GQ--LVPTG 99 (359)
Q Consensus 24 ~~~~~r~~i~di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~--~~--~L~~e 99 (359)
..+..+++|+++.+..+....+.|++|+|+|||+++|.+| +++||+||||++...||||++++...+ .. .|+.|
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 3455778999998433344577899999999999999999 899999999998778999998764322 22 48999
Q ss_pred cEEEEEeEEeCCCCCCcccEEEEEeEEEEeecCCCCCCCCCCcCcchhhhccCcCccCCchHHHHHHHHHHHHHHHHHHH
Q 018229 100 TCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTKLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTF 179 (359)
Q Consensus 100 svV~V~G~v~~s~~~~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~~~~e~lr~~r~L~lR~~~~~ai~riRS~I~~~iR~f 179 (359)
|+|.|+|+|++++ +..|.+||++++|+||++|+ .+||++.+.++.+++|.++|||+|++.++++||+||.|++++|+|
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 9999999999887 45678999999999999998 589999988899999999999999999999999999999999999
Q ss_pred HHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhcccchhhhh
Q 018229 180 LQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAI 259 (359)
Q Consensus 180 L~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 259 (359)
|.++||+||+||+|++++||||+++|.|+++.....+ ++
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 9999999999999999999999999999986432111 00
Q ss_pred hhhHHHHHHHHHHHHHHHhhhccCCCCC-CCCCCccccccccCccccccccHHHHHHHHHccccceEEEeceeecCCCCC
Q 018229 260 SASVTELTKAKENLAKLEERSKLKPGIP-QKDGKIDYTQDFFARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHT 338 (359)
Q Consensus 260 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~~~~~~Vy~~~p~fRaE~~~t 338 (359)
.....+.| +..+..++..+||++++||+||||||||+|++||+|||+||||||||+++|
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 00011223 233555678899999999999999999999999999999999999999999
Q ss_pred CCccccccccceeecccCCC
Q 018229 339 SRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 339 ~rHl~EF~mle~E~af~~l~ 358 (359)
+|||+||||||+||+|+|++
T Consensus 339 ~RHL~EF~mlE~E~af~dl~ 358 (565)
T PLN02603 339 SRHLAEFWMIEPELAFADLN 358 (565)
T ss_pred ccccccceeeeeeeecCCHH
Confidence 99999999999999999864
No 4
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.4e-64 Score=503.97 Aligned_cols=230 Identities=43% Similarity=0.718 Sum_probs=212.7
Q ss_pred ccceeehhhhcCCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCCh--hh-h-ccCCCCCcEE
Q 018229 27 SDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV--AD-L-GQLVPTGTCV 102 (359)
Q Consensus 27 ~~r~~i~di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~--~~-~-~~~L~~esvV 102 (359)
+.+++|+|++. ...|+.|+|+|||+++|.+| +++||.||||+|+ ||||+.++. .+ + ++.|+.||+|
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 45788999873 33349999999999999999 8999999999998 999998642 11 2 4679999999
Q ss_pred EEEeEEeCCCCCCcccEEEEEeEEEEeecCCCCCCCCCCcCcc-hhhhccCcCccCCchHHHHHHHHHHHHHHHHHHHHH
Q 018229 103 YVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTKLT-LEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQ 181 (359)
Q Consensus 103 ~V~G~v~~s~~~~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~~~-~e~lr~~r~L~lR~~~~~ai~riRS~I~~~iR~fL~ 181 (359)
.|+|+|++++ +++|++||++++|+|++.+. .+|||+++.++ +|+++++||||+|++.++++|++||.|++++|+||.
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 48999999999999999996 59999999985 999999999999999999999999999999999999
Q ss_pred hCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhcccchhhhhhh
Q 018229 182 KQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISA 261 (359)
Q Consensus 182 ~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 261 (359)
++||+||+||+|+++++|||+++|.|
T Consensus 150 ~~gF~eV~tP~i~~~~~EGg~elF~v------------------------------------------------------ 175 (435)
T COG0017 150 ENGFTEVHTPIITASATEGGGELFKV------------------------------------------------------ 175 (435)
T ss_pred hCCcEEecCceEeccCCCCCceeEEE------------------------------------------------------
Confidence 99999999999999999999999977
Q ss_pred hHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHHHccccceEEEeceeecCCCCCCCc
Q 018229 262 SVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRH 341 (359)
Q Consensus 262 ~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~~~~~~Vy~~~p~fRaE~~~t~rH 341 (359)
+||+.++||+||||||+|+++++|+|||+|||+||||+|+|+||
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 47999999999999999999999999999999999999999999
Q ss_pred cccccccceeecccCCC
Q 018229 342 LAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 342 l~EF~mle~E~af~~l~ 358 (359)
|+||||+|+||+|++++
T Consensus 220 L~EF~~ld~Emaf~~~~ 236 (435)
T COG0017 220 LSEFWMLDPEMAFADLN 236 (435)
T ss_pred hhhHheecceeccCcHH
Confidence 99999999999999864
No 5
>PTZ00425 asparagine-tRNA ligase; Provisional
Probab=100.00 E-value=1.4e-61 Score=502.63 Aligned_cols=285 Identities=47% Similarity=0.757 Sum_probs=220.6
Q ss_pred CCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhh--hccCCCCCcEEEEEeEEeCCCCC-------
Q 018229 44 GLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD--LGQLVPTGTCVYVEGMLKNPPEG------- 114 (359)
Q Consensus 44 ~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~--~~~~L~~esvV~V~G~v~~s~~~------- 114 (359)
.++|+.|+|+|||+++|.+|+++++|++||||+|...+|||+.+.... ....|+.|++|.|+|+|..++..
T Consensus 78 ~~~g~~Vtl~GWv~~iR~~g~~~~~Fv~lrDgsg~~~iQiVv~~~~~~~~~l~~l~~gs~v~v~G~v~~~~~~~~n~~g~ 157 (586)
T PTZ00425 78 KYIDQIITVCGWSKAVRKQGGGRFCFVNLNDGSCHLNLQIIVDQSIENYEKLLKCGVGCCFRFTGKLIISPVQNENKKGL 157 (586)
T ss_pred ccCCCEEEEEEEEeehhhcCCceEEEEEEECCCCCcceEEEECCchHHHHHHhcCCCccEEEEEEEEEcCCccccCcCCC
Confidence 568999999999999999994349999999999977899999765322 23568999999999999987632
Q ss_pred CcccEEEEE-----eEEEEeecC-CCCCCCCCCcCcchhhhccCcCccCCchHHHHHHHHHHHHHHHHHHHHHhCCcEEE
Q 018229 115 TKQKIELRV-----QKVVDVGMV-DPAKYPIPKTKLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYI 188 (359)
Q Consensus 115 ~~g~lEL~a-----~~i~vLs~a-~~~~~Pi~~k~~~~e~lr~~r~L~lR~~~~~ai~riRS~I~~~iR~fL~~~gF~EV 188 (359)
.+|++||++ .+++||+.+ ++.+||++++.++.|++|++||||+|++.++++||+||.+..++|+||.++||+||
T Consensus 158 ~~~~~El~~~~~~~~~~~ilg~~~d~~~yPi~~k~~~~e~lr~~rhL~lR~~~~~avlRiRs~l~~a~r~ff~~~gF~eI 237 (586)
T PTZ00425 158 LKENVELALKDNSIHNFEIYGENLDPQKYPLSKKNHGKEFLREVAHLRPRSYFISSVIRIRNALAIATHLFFQSRGFLYI 237 (586)
T ss_pred CCccEEEEEecCCCceEEEEeccCCCCCCCCCCccCChhhhhhccceeccCHHHHHHHHHHHHHHHHHHHHHHHCCCEEe
Confidence 146799998 699999998 44689999988899999999999999999999999999999999999999999999
Q ss_pred ccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhcccchhhhhhh-hHHHHH
Q 018229 189 HTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISA-SVTELT 267 (359)
Q Consensus 189 ~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~ 267 (359)
+||+|++++||||+++|.|+|+..+..+ .+..|.+.. +...+ -|++.++.++..+ ..+++.
T Consensus 238 ~TPiit~s~~EGa~elF~V~t~~~~~~~----~~~~p~~~~------~~~~~--------~~~~~~~~~~~~~~~~~~~~ 299 (586)
T PTZ00425 238 HTPLITTSDCEGGGEMFTVTTLLGEDAD----YRAIPRVNK------KNKKG--------EKREDILNTCNANNNNGNSS 299 (586)
T ss_pred eCCeecccCCCCCcceEEeeeccccccc----ccccccccc------ccccc--------cccccccccccccccccccc
Confidence 9999999999999999999986432110 011111000 00000 1222232222221 011111
Q ss_pred --HHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHHHccccceEEEeceeecCCCCCCCccccc
Q 018229 268 --KAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRHLAEF 345 (359)
Q Consensus 268 --~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~~~~~~Vy~~~p~fRaE~~~t~rHl~EF 345 (359)
.+|.. +..| ..++.+++.+||++++||+||||||||++++||+|||+|+||||||+++|+|||+||
T Consensus 300 ~~~~~~~-----------~q~~-~~~~~~~~~~yF~k~ayL~~S~QLylE~~~~g~~rVf~i~p~FRaE~s~t~RHL~EF 367 (586)
T PTZ00425 300 SSNAVSS-----------PAYP-DQYLIDYKKDFFSKQAFLTVSGQLSLENLCSSMGDVYTFGPTFRAENSHTSRHLAEF 367 (586)
T ss_pred ccccccc-----------cccc-ccccccccccccCcceEEEcCchHHHHHHHhccCCEEEEeceEeCCCCCCCCCCccc
Confidence 11110 1111 123456778999999999999999999999999999999999999999999999999
Q ss_pred cccceeecccCCC
Q 018229 346 WMVEPEMAFSDLK 358 (359)
Q Consensus 346 ~mle~E~af~~l~ 358 (359)
||||+||+|+|++
T Consensus 368 t~lE~E~af~d~~ 380 (586)
T PTZ00425 368 WMIEPEIAFADLY 380 (586)
T ss_pred ceEEEEEecCCHH
Confidence 9999999999863
No 6
>KOG0554 consensus Asparaginyl-tRNA synthetase (mitochondrial) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=6.5e-62 Score=476.54 Aligned_cols=238 Identities=58% Similarity=0.970 Sum_probs=220.9
Q ss_pred eeehhhhcCCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEe
Q 018229 30 VLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLK 109 (359)
Q Consensus 30 ~~i~di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~ 109 (359)
..+.+++...++.....|+++.|.|||+++|.+| +++|++|.||++..++|||++++ ..+.+..|++|.|+|.+.
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 4455555445566778899999999999999999 89999999999999999999984 467799999999999998
Q ss_pred CCCCCCcccEEEEEeEEEEeecCCCCCCCCCCcCcchhhhccCcCccCCchHHHHHHHHHHHHHHHHHHHHHhCCcEEEc
Q 018229 110 NPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTKLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIH 189 (359)
Q Consensus 110 ~s~~~~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~~~~e~lr~~r~L~lR~~~~~ai~riRS~I~~~iR~fL~~~gF~EV~ 189 (359)
.+. +..+++|+.+++|.+++.++ ++||++++.+++|++|+..|||.|++.+.+++|+||.+..++|.||.+++|++|+
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 67899999999999999998 5599999999999999999999999999999999999999999999999999999
Q ss_pred cCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhcccchhhhhhhhHHHHHHH
Q 018229 190 TPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASVTELTKA 269 (359)
Q Consensus 190 TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 269 (359)
|||||.++||||+|+|+|+|+.
T Consensus 156 tPiiTt~DCEGaGE~F~vtt~~---------------------------------------------------------- 177 (446)
T KOG0554|consen 156 TPIITTNDCEGAGEVFQVTTLT---------------------------------------------------------- 177 (446)
T ss_pred CcEeeccCCCCCcceEEEEecC----------------------------------------------------------
Confidence 9999999999999999998742
Q ss_pred HHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHHHccccceEEEeceeecCCCCCCCccccccccc
Q 018229 270 KENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVE 349 (359)
Q Consensus 270 ~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~~~~~~Vy~~~p~fRaE~~~t~rHl~EF~mle 349 (359)
++..+|||+|+|||||+|||+|+|+|+|+|||+|||+||||+|||+|||+||||||
T Consensus 178 ------------------------d~~~~fFg~p~fLTVSgQLhlE~~a~~LsrvyTfgP~FRAEnS~tsRHLAEFwMlE 233 (446)
T KOG0554|consen 178 ------------------------DYSKDFFGRPAFLTVSGQLHLEAMACALSRVYTFGPTFRAENSHTSRHLAEFWMLE 233 (446)
T ss_pred ------------------------cccccccCCceEEEEeceehHHHHHhhhcceEeeccceecccCCchhHHhhhhhhh
Confidence 34679999999999999999999999999999999999999999999999999999
Q ss_pred eeecccC
Q 018229 350 PEMAFSD 356 (359)
Q Consensus 350 ~E~af~~ 356 (359)
+|+||++
T Consensus 234 aE~AF~~ 240 (446)
T KOG0554|consen 234 AELAFAE 240 (446)
T ss_pred hHHHHHH
Confidence 9999997
No 7
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=100.00 E-value=2.9e-58 Score=468.71 Aligned_cols=239 Identities=53% Similarity=0.867 Sum_probs=213.3
Q ss_pred cceeehhhhcCCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCCh----hhhccCCCCCcEEE
Q 018229 28 DRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV----ADLGQLVPTGTCVY 103 (359)
Q Consensus 28 ~r~~i~di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~----~~~~~~L~~esvV~ 103 (359)
++++|++++ .....|++|+|+|||+++|.+| |++|++|||++|. +|+++..+. .++.+.|+.||+|.
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 456788886 3467899999999999999999 8999999999987 888776542 23456799999999
Q ss_pred EEeEEeCCCCCCcccEEEEEeEEEEeecCCCCCCCCCCcCcchhhhccCcCccCCchHHHHHHHHHHHHHHHHHHHHHhC
Q 018229 104 VEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTKLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQ 183 (359)
Q Consensus 104 V~G~v~~s~~~~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~~~~e~lr~~r~L~lR~~~~~ai~riRS~I~~~iR~fL~~~ 183 (359)
|+|+|.+++ .+.|++||++++++||+++. .++|++.+.++.++++++||||+|++.++++|++||.|++++|+||.++
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 999999887 35789999999999999986 6799988888899999999999999999999999999999999999999
Q ss_pred CcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhcccchhhhhhhhH
Q 018229 184 GFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASV 263 (359)
Q Consensus 184 gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 263 (359)
||+||+||+|+.++|||++++|.|+++.+
T Consensus 151 gf~EV~TP~L~~~~~eg~~~~F~v~~~~~--------------------------------------------------- 179 (450)
T PRK03932 151 GFVWVDTPIITASDCEGAGELFRVTTLDL--------------------------------------------------- 179 (450)
T ss_pred CCEEecCCceeccCCCCCCCceEeecccc---------------------------------------------------
Confidence 99999999999999999999999864210
Q ss_pred HHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHHHccccceEEEeceeecCCCCCCCccc
Q 018229 264 TELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRHLA 343 (359)
Q Consensus 264 ~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~~~~~~Vy~~~p~fRaE~~~t~rHl~ 343 (359)
.++.+||++++||+||||||||++++|++|||+|+||||||+++|+|||+
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 01347999999999999999999999999999999999999999999999
Q ss_pred cccccceeecccCCC
Q 018229 344 EFWMVEPEMAFSDLK 358 (359)
Q Consensus 344 EF~mle~E~af~~l~ 358 (359)
||||||+||+|+|++
T Consensus 230 EFt~lE~e~~~~~~~ 244 (450)
T PRK03932 230 EFWMIEPEMAFADLE 244 (450)
T ss_pred cccccceEEeccCHH
Confidence 999999999999863
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=1.2e-57 Score=464.46 Aligned_cols=241 Identities=51% Similarity=0.859 Sum_probs=211.9
Q ss_pred eehhhhcCCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCCh----hhhccCCCCCcEEEEEe
Q 018229 31 LIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV----ADLGQLVPTGTCVYVEG 106 (359)
Q Consensus 31 ~i~di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~----~~~~~~L~~esvV~V~G 106 (359)
+|++++. + ...+.|++|+|+|||+++|.+| |++|++|||+++.+.||||++++. ..+.+.|+.||+|.|+|
T Consensus 3 ~~~~~~~--~-~~~~~g~~v~v~Gwv~~~R~~~--~~~F~~lrD~~~~g~iQ~v~~~~~~~~~~~~~~~l~~gs~V~v~G 77 (453)
T TIGR00457 3 AIKDLLQ--Q-VYKFVGDEVTVSGWVRTKRSSK--KIIFLELNDGSSLGPIQAVINGEDNPYLFQLLKSLTTGSSVSVTG 77 (453)
T ss_pred cHHHHHh--c-chhcCCCEEEEEEEeEEEEcCC--CeEEEEEECCCCCccEEEEEeCCcChHHHHHHHcCCCCcEEEEEE
Confidence 4666662 1 1356799999999999999998 899999999993334999998762 12456799999999999
Q ss_pred EEeCCCCCCcccEEEEEeEEEEeecCCCCCCCCCCcCcchhhhccCcCccCCchHHHHHHHHHHHHHHHHHHHHHhCCcE
Q 018229 107 MLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTKLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFL 186 (359)
Q Consensus 107 ~v~~s~~~~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~~~~e~lr~~r~L~lR~~~~~ai~riRS~I~~~iR~fL~~~gF~ 186 (359)
+|.+++ +..+++||.+++++||++|.+.++|++.+.++.++++++||||+|++.++++|++||.|++++|+||.++||+
T Consensus 78 ~v~~~~-~~~~~~El~~~~i~vl~~~~~~~~P~~~~~~~~~~~~~~r~l~lR~~~~~~~lr~Rs~i~~~~r~~~~~~gf~ 156 (453)
T TIGR00457 78 KVVESP-GKGQPVELQVKKIEVVGEAEPDDYPLQKKEHSLEFLRDIAHLRLRTNTLGAVMRVRNALSQAIHRYFQENGFT 156 (453)
T ss_pred EEEcCC-CCCCCEEEEEeEEEEEecCCccCCCCCccccChhhHhhCcceecCCHHHHHHHHHHHHHHHHHHHHHHHCCCE
Confidence 999876 4678999999999999999645799988888899999999999999999999999999999999999999999
Q ss_pred EEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhcccchhhhhhhhHHHH
Q 018229 187 YIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASVTEL 266 (359)
Q Consensus 187 EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 266 (359)
||+||+|+.++|||++++|.|.+.+
T Consensus 157 eV~TP~l~~~~~eg~~~~F~v~~~~------------------------------------------------------- 181 (453)
T TIGR00457 157 WVSPPILTSNDCEGAGELFRVSTDG------------------------------------------------------- 181 (453)
T ss_pred EecCCeEeecCCCCCCCceEecccc-------------------------------------------------------
Confidence 9999999999999999999885310
Q ss_pred HHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHHHccccceEEEeceeecCCCCCCCcccccc
Q 018229 267 TKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRHLAEFW 346 (359)
Q Consensus 267 ~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~~~~~~Vy~~~p~fRaE~~~t~rHl~EF~ 346 (359)
..+..+||++++||+||||||||++++|++|||+||||||||+++|+|||+|||
T Consensus 182 --------------------------~~~~~~~~~~~~yL~~Spql~lq~l~~g~~rVf~i~~~FR~E~~~t~rHl~EFt 235 (453)
T TIGR00457 182 --------------------------IDFSQDFFGKEAYLTVSGQLYLETYALALSKVYTFGPTFRAEKSNTSRHLSEFW 235 (453)
T ss_pred --------------------------cccchhccCCccccccCHHHHHHHHhhcccCceEeeeccccCCCCCCcCcchhc
Confidence 012346999999999999999999999999999999999999999999999999
Q ss_pred ccceeecccCCC
Q 018229 347 MVEPEMAFSDLK 358 (359)
Q Consensus 347 mle~E~af~~l~ 358 (359)
|||+||+|+|++
T Consensus 236 ~le~e~~~~~~~ 247 (453)
T TIGR00457 236 MIEPEMAFANLN 247 (453)
T ss_pred cceeeeecCCHH
Confidence 999999999863
No 9
>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=8.1e-57 Score=455.61 Aligned_cols=223 Identities=30% Similarity=0.455 Sum_probs=201.4
Q ss_pred CCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCCh-----hhhccCCCCCcEEEEEeEEeCCCCC
Q 018229 40 DGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV-----ADLGQLVPTGTCVYVEGMLKNPPEG 114 (359)
Q Consensus 40 ~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~-----~~~~~~L~~esvV~V~G~v~~s~~~ 114 (359)
+++..+.|++|+|+|||+++|.+| |++|++|||++|. ||||++++. .++...|+.||+|.|+|+|..++ .
T Consensus 5 ~l~~~~~g~~v~i~G~v~~~R~~g--~~~Fi~lrd~~g~--iQ~v~~~~~~~~~~~~~~~~l~~~s~v~v~G~v~~~~-~ 79 (428)
T TIGR00458 5 DIKPEMDGQEVTFMGWVHEIRDLG--GLIFVLLRDREGL--IQITAPAKKVSKNLFKWAKKLNLESVVAVRGIVKIKE-K 79 (428)
T ss_pred hCchhhCCCEEEEEEEEEEEecCC--CcEEEEEEeCCee--EEEEEECCcCCHHHHHHHhCCCCCcEEEEEEEEEecC-C
Confidence 445577899999999999999999 8999999999986 999998652 12456799999999999999776 3
Q ss_pred CcccEEEEEeEEEEeecCCCCCCCCCCcCc---chhhhccCcCccCCchHHHHHHHHHHHHHHHHHHHHHhCCcEEEccC
Q 018229 115 TKQKIELRVQKVVDVGMVDPAKYPIPKTKL---TLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTP 191 (359)
Q Consensus 115 ~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~~---~~e~lr~~r~L~lR~~~~~ai~riRS~I~~~iR~fL~~~gF~EV~TP 191 (359)
+.|++||++++|+|||+|. .++|++.++. +.++++++||||+|++.++++|++||.|++++|+||.++||+||+||
T Consensus 80 ~~~~~el~~~~i~vl~~~~-~~lP~~~~~~~~~~~~~r~~~R~ldlr~~~~~~~~r~Rs~i~~~iR~ff~~~gf~EV~TP 158 (428)
T TIGR00458 80 APGGFEIIPTKIEVINEAK-EPLPLDPTEKVPAELDTRLDYRFLDLRRPTVQAIFRIRSGVLESVREFLAEEGFIEVHTP 158 (428)
T ss_pred CCCcEEEEEeEEEEEecCC-CCCCCCccccCCCCHHHHhhhhhhhhCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCC
Confidence 5789999999999999996 6799876543 56888999999999999999999999999999999999999999999
Q ss_pred eeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhcccchhhhhhhhHHHHHHHHH
Q 018229 192 IITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASVTELTKAKE 271 (359)
Q Consensus 192 iLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 271 (359)
+|++++||||+++|.|
T Consensus 159 ~L~~~~~eg~~~~f~v---------------------------------------------------------------- 174 (428)
T TIGR00458 159 KLVASATEGGTELFPI---------------------------------------------------------------- 174 (428)
T ss_pred ceecCCCCCCcceeee----------------------------------------------------------------
Confidence 9999999999998865
Q ss_pred HHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHH-HccccceEEEeceeecCCCCCCCccccccccce
Q 018229 272 NLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVEP 350 (359)
Q Consensus 272 ~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~Vy~~~p~fRaE~~~t~rHl~EF~mle~ 350 (359)
+||++++||+||||||||++ ++|++|||+||||||||+++|+|||+||||||+
T Consensus 175 --------------------------~~~~~~~yL~~Spql~~q~li~~g~~rVf~i~~~FR~E~~~t~rHl~EFt~lE~ 228 (428)
T TIGR00458 175 --------------------------TYFEREAFLGQSPQLYKQQLMAAGFERVYEIGPIFRAEEHNTHRHLNEATSIDI 228 (428)
T ss_pred --------------------------EecCCcEEECcCHHHHHHHHHhcccCcEEEEecccccCCCCCccchheeeEeee
Confidence 37899999999999999975 688999999999999999999999999999999
Q ss_pred eecccCCC
Q 018229 351 EMAFSDLK 358 (359)
Q Consensus 351 E~af~~l~ 358 (359)
||+|+|++
T Consensus 229 e~a~~~~~ 236 (428)
T TIGR00458 229 EMAFEDHH 236 (428)
T ss_pred eeccCCHH
Confidence 99999863
No 10
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=100.00 E-value=1.2e-56 Score=455.53 Aligned_cols=229 Identities=31% Similarity=0.487 Sum_probs=205.2
Q ss_pred ccceeehhhhcCCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCCh----hhhccCCCCCcEE
Q 018229 27 SDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV----ADLGQLVPTGTCV 102 (359)
Q Consensus 27 ~~r~~i~di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~----~~~~~~L~~esvV 102 (359)
+++++|+++. ....|++|+|+|||+++|.+| |++|++|||++|. ||||++++. .++.+.|+.||+|
T Consensus 2 ~~~~~~~~l~------~~~~g~~V~i~GrV~~~R~~g--k~~Fl~LrD~~g~--iQ~v~~~~~~~~~~~~~~~L~~gs~V 71 (437)
T PRK05159 2 MKRHLTSELT------PELDGEEVTLAGWVHEIRDLG--GIAFLILRDRSGI--IQVVVKKKVDEELFETIKKLKRESVV 71 (437)
T ss_pred CceeEhhhCC------hhhCCCEEEEEEEeEeeecCC--CeEEEEEEcCCcE--EEEEEeCCccHHHHHHHhCCCCCcEE
Confidence 4667777663 567899999999999999999 8999999999986 999998752 2345779999999
Q ss_pred EEEeEEeCCCCCCcccEEEEEeEEEEeecCCCCCCCCCCc---CcchhhhccCcCccCCchHHHHHHHHHHHHHHHHHHH
Q 018229 103 YVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKT---KLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTF 179 (359)
Q Consensus 103 ~V~G~v~~s~~~~~g~lEL~a~~i~vLs~a~~~~~Pi~~k---~~~~e~lr~~r~L~lR~~~~~ai~riRS~I~~~iR~f 179 (359)
.|+|+|.+++. ..|++||++++|+|||+|. .++|+... ..+.++++++||||+|++.++++|++||.|++++|+|
T Consensus 72 ~v~G~v~~~~~-~~~~~el~~~~i~vls~a~-~~~P~~~~~~~~~~~~~~~~~r~Ldlr~~~~~~~l~~Rs~i~~~iR~f 149 (437)
T PRK05159 72 SVTGTVKANPK-APGGVEVIPEEIEVLNKAE-EPLPLDISGKVLAELDTRLDNRFLDLRRPRVRAIFKIRSEVLRAFREF 149 (437)
T ss_pred EEEEEEEcCCC-CCCCEEEEEeEEEEEeCCC-CCCCCCccccccCCHHHHhhCcceecCCHHHHHHHHHHHHHHHHHHHH
Confidence 99999998873 5689999999999999997 67887533 2357899999999999999999999999999999999
Q ss_pred HHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhcccchhhhh
Q 018229 180 LQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAI 259 (359)
Q Consensus 180 L~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 259 (359)
|.++||+||+||+|+.+++|||++.|.+
T Consensus 150 f~~~gf~EV~TP~L~~~~~eg~~~~f~~---------------------------------------------------- 177 (437)
T PRK05159 150 LYENGFTEIFTPKIVASGTEGGAELFPI---------------------------------------------------- 177 (437)
T ss_pred HHHCCCEEEeCCcccccCCCCCcceEeE----------------------------------------------------
Confidence 9999999999999999999999998864
Q ss_pred hhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHHHc-cccceEEEeceeecCCCCC
Q 018229 260 SASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYAC-AVSNVYTFGPTFRAEHSHT 338 (359)
Q Consensus 260 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~~-~~~~Vy~~~p~fRaE~~~t 338 (359)
+||++++||++|||||||++++ |++|||+||||||||+++|
T Consensus 178 --------------------------------------~~~~~~~~L~~Spql~~q~l~~~g~~rVf~i~~~FR~E~~~t 219 (437)
T PRK05159 178 --------------------------------------DYFEKEAYLAQSPQLYKQMMVGAGFERVFEIGPVFRAEEHNT 219 (437)
T ss_pred --------------------------------------EecCCceEecCCHHHHHHHHHhcCCCcEEEEeceeeCCCCCC
Confidence 4799999999999999999865 5999999999999999999
Q ss_pred CCccccccccceeecccC-C
Q 018229 339 SRHLAEFWMVEPEMAFSD-L 357 (359)
Q Consensus 339 ~rHl~EF~mle~E~af~~-l 357 (359)
+|||+||||||+||+|+| +
T Consensus 220 ~rHl~EFt~lE~e~a~~~~~ 239 (437)
T PRK05159 220 SRHLNEYTSIDVEMGFIDDH 239 (437)
T ss_pred cccchhhheeeeeeeecccH
Confidence 999999999999999997 5
No 11
>PLN02850 aspartate-tRNA ligase
Probab=100.00 E-value=1.5e-56 Score=463.22 Aligned_cols=222 Identities=31% Similarity=0.445 Sum_probs=198.6
Q ss_pred CCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCCh-------hhhccCCCCCcEEEEEeEEeCCC
Q 018229 40 DGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV-------ADLGQLVPTGTCVYVEGMLKNPP 112 (359)
Q Consensus 40 ~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~-------~~~~~~L~~esvV~V~G~v~~s~ 112 (359)
+++..+.|++|+|+|||+++|.+| +++|++|||+++. ||+|+..+. .+|...|+.||+|.|+|+|++.+
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 345678999999999999999999 7999999999976 999997642 23567899999999999998643
Q ss_pred C---CCcccEEEEEeEEEEeecCCCCCCCCCCcC--------------------cchhhhccCcCccCCchHHHHHHHHH
Q 018229 113 E---GTKQKIELRVQKVVDVGMVDPAKYPIPKTK--------------------LTLEFLRDRIPFRPRTNTIAAVARIR 169 (359)
Q Consensus 113 ~---~~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~--------------------~~~e~lr~~r~L~lR~~~~~ai~riR 169 (359)
. +.++++||++++|+|||+|. .++|++.++ .+.++++++||||+|++.++++||+|
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 678886543 24578899999999999999999999
Q ss_pred HHHHHHHHHHHHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhh
Q 018229 170 NALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKL 249 (359)
Q Consensus 170 S~I~~~iR~fL~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 249 (359)
|.|+++||+||.++||+||+||+|+++++|||+++|.|
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 99999999999999999999999999999999998865
Q ss_pred hcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHHH-ccccceEEEe
Q 018229 250 KSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYA-CAVSNVYTFG 328 (359)
Q Consensus 250 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~-~~~~~Vy~~~ 328 (359)
+||++++||+||||||||+++ +||+|||+||
T Consensus 267 ------------------------------------------------~yf~~~~~L~qSpql~kq~li~~g~~rVfeIg 298 (530)
T PLN02850 267 ------------------------------------------------DYKGQPACLAQSPQLHKQMAICGDFRRVFEIG 298 (530)
T ss_pred ------------------------------------------------ccCCcceecCCCHHHHHHHHHHhcCCceEEEe
Confidence 489999999999999999875 5799999999
Q ss_pred ceeecCCCCCCCccccccccceeecccC
Q 018229 329 PTFRAEHSHTSRHLAEFWMVEPEMAFSD 356 (359)
Q Consensus 329 p~fRaE~~~t~rHl~EF~mle~E~af~~ 356 (359)
||||||+|+|+|||+||||||+||+|.+
T Consensus 299 p~FRaE~s~t~RHl~EFt~Le~Em~~~~ 326 (530)
T PLN02850 299 PVFRAEDSFTHRHLCEFTGLDLEMEIKE 326 (530)
T ss_pred cccccCCCCCCccchhhccchhhhhhhc
Confidence 9999999999999999999999999974
No 12
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=100.00 E-value=8e-56 Score=458.89 Aligned_cols=226 Identities=27% Similarity=0.399 Sum_probs=200.5
Q ss_pred ceeehhhhcCCCCCCCC-CCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCCh------hhhccCCCCCcE
Q 018229 29 RVLIKSILTRPDGGAGL-AGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV------ADLGQLVPTGTC 101 (359)
Q Consensus 29 r~~i~di~~~~~l~~~~-~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~------~~~~~~L~~esv 101 (359)
++.|+++. ... .|+.|+|+|||+++|.+| +++|++|||++|. ||+|+..+. ..+...|+.||+
T Consensus 65 ~~~i~~l~------~~~~~g~~V~v~Grv~~~R~~G--k~~Fl~LRd~~~~--iQ~v~~~~~~~~~~~~~~~~~l~~esi 134 (550)
T PTZ00401 65 FIPVAVLS------KPELVDKTVLIRARVSTTRKKG--KMAFMVLRDGSDS--VQAMAAVEGDVPKEMIDFIGQIPTESI 134 (550)
T ss_pred eEEHHHCC------ccccCCCEEEEEEEEEEEecCC--CeEEEEEEeCCcC--EEEEEECCCccCHHHHHHHhcCCCCCE
Confidence 36677664 344 799999999999999999 8999999999986 999996432 235677999999
Q ss_pred EEEEeEEeCCCC----CCcccEEEEEeEEEEeecCCCCCCCCCCcC-----------cchhhhccCcCccCCchHHHHHH
Q 018229 102 VYVEGMLKNPPE----GTKQKIELRVQKVVDVGMVDPAKYPIPKTK-----------LTLEFLRDRIPFRPRTNTIAAVA 166 (359)
Q Consensus 102 V~V~G~v~~s~~----~~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~-----------~~~e~lr~~r~L~lR~~~~~ai~ 166 (359)
|.|+|+|.+.+. .+.|++||++++|+|||++. .++|++.++ .+.++++++||||+|++.++++|
T Consensus 135 V~V~G~v~~~~~~~~~~~~~~~El~v~~i~vls~a~-~~lP~~~~d~~~~~~~~~~~~~~dtrl~~R~LdlR~~~~~~i~ 213 (550)
T PTZ00401 135 VDVEATVCKVEQPITSTSHSDIELKVKKIHTVTESL-RTLPFTLEDASRKESDEGAKVNFDTRLNSRWMDLRTPASGAIF 213 (550)
T ss_pred EEEEEEEEecCccCCCCCCccEEEEeeEEEEEeCCC-CCCCCCcccccccccccccccChhhhhhhhhhhhcCHHHHHHH
Confidence 999999987532 15788999999999999997 678886543 24688899999999999999999
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHH
Q 018229 167 RIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAV 246 (359)
Q Consensus 167 riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 246 (359)
++||.|+++||+||.++||+||+||+|+.+++|||+++|.|
T Consensus 214 r~rs~i~~~~R~fl~~~gFiEV~TP~L~~~~~egga~~F~v--------------------------------------- 254 (550)
T PTZ00401 214 RLQSRVCQYFRQFLIDSDFCEIHSPKIINAPSEGGANVFKL--------------------------------------- 254 (550)
T ss_pred HHHHHHHHHHHHHHHHCCCEEEeCCccccCCCCcccccccc---------------------------------------
Confidence 99999999999999999999999999999999999998865
Q ss_pred HhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHHHc-cccceE
Q 018229 247 AKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYAC-AVSNVY 325 (359)
Q Consensus 247 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~~-~~~~Vy 325 (359)
+||++++||+||||||||++++ ||+|||
T Consensus 255 ---------------------------------------------------~yf~~~~~L~qSpql~kq~li~~g~~rVf 283 (550)
T PTZ00401 255 ---------------------------------------------------EYFNRFAYLAQSPQLYKQMVLQGDVPRVF 283 (550)
T ss_pred ---------------------------------------------------ccCCCCeecCCCHHHHHHHHHhcCCCCEE
Confidence 4899999999999999999875 699999
Q ss_pred EEeceeecCCCCCCCccccccccceeeccc
Q 018229 326 TFGPTFRAEHSHTSRHLAEFWMVEPEMAFS 355 (359)
Q Consensus 326 ~~~p~fRaE~~~t~rHl~EF~mle~E~af~ 355 (359)
+||||||||+++|+|||+||||||+||+|.
T Consensus 284 eI~p~FRaE~s~T~RHl~EFt~Le~E~~~~ 313 (550)
T PTZ00401 284 EVGPVFRSENSNTHRHLTEFVGLDVEMRIN 313 (550)
T ss_pred EEeCeEeCCCCCCCCCccchhhhhhhhHhc
Confidence 999999999999999999999999999996
No 13
>COG0173 AspS Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=7.4e-54 Score=435.08 Aligned_cols=229 Identities=26% Similarity=0.436 Sum_probs=203.9
Q ss_pred hhhcCCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCC-hh---hhccCCCCCcEEEEEeEEe
Q 018229 34 SILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKD-VA---DLGQLVPTGTCVYVEGMLK 109 (359)
Q Consensus 34 di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~-~~---~~~~~L~~esvV~V~G~v~ 109 (359)
.++ |+++..+++|++|+|+|||++.|++| +++||+|||.+|+ +|||++++ .. ..+..|+.|++|.|+|+|.
T Consensus 3 t~~-cg~l~~~~vG~~V~L~GWV~r~Rd~G--gliFiDLRDr~Gi--vQvv~~~~~~~~~~~~a~~lr~E~vi~V~G~V~ 77 (585)
T COG0173 3 THY-CGELRESHVGQTVTLSGWVHRRRDHG--GLIFIDLRDREGI--VQVVFDPEDSPEAFEVASRLRNEFVIQVTGTVR 77 (585)
T ss_pred cee-ccccCHHHCCCEEEEEeeeeeccccC--CeEEEEcccCCCe--EEEEECCccCHHHHHHHHhcCceEEEEEEEEEE
Confidence 344 77788899999999999999999999 8999999999998 99999984 22 3467799999999999999
Q ss_pred CCCCC------CcccEEEEEeEEEEeecCCCCCCCCCCc-CcchhhhccCcCccCCchHHHHHHHHHHHHHHHHHHHHHh
Q 018229 110 NPPEG------TKQKIELRVQKVVDVGMVDPAKYPIPKT-KLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQK 182 (359)
Q Consensus 110 ~s~~~------~~g~lEL~a~~i~vLs~a~~~~~Pi~~k-~~~~e~lr~~r~L~lR~~~~~ai~riRS~I~~~iR~fL~~ 182 (359)
.++++ .+|++||++++|+|||.+.+.||++... ..+-|.++.|||||||++.++..+++||+++.++|+||++
T Consensus 78 ~R~e~~~N~~l~TGeiEv~a~~i~vln~s~~lPf~i~d~~~~~Ee~RLkYRyLDLRR~~m~~~l~lR~kv~~~iR~~ld~ 157 (585)
T COG0173 78 ARPEGTINPNLPTGEIEVLAEEIEVLNASKTLPFQIEDETNASEEIRLKYRYLDLRRPEMQKNLKLRSKVTKAIRNFLDD 157 (585)
T ss_pred ecCccccCCCCCcceEEEEeeeEEEEecCCCCCcCCCCCCCcchhhhhhhhhhhhcCHHHHHHHHHHHHHHHHHHHHHhh
Confidence 98763 5799999999999999997667777554 4566788899999999999999999999999999999999
Q ss_pred CCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhcccchhhhhhhh
Q 018229 183 QGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISAS 262 (359)
Q Consensus 183 ~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 262 (359)
+||+||+||+|++++||||++ |.|+++..
T Consensus 158 ~gF~EiETPiLtkSTPEGARD-fLVPSRv~-------------------------------------------------- 186 (585)
T COG0173 158 QGFLEIETPILTKSTPEGARD-FLVPSRVH-------------------------------------------------- 186 (585)
T ss_pred cCCeEeecCccccCCCccccc-cccccccC--------------------------------------------------
Confidence 999999999999999999999 88875321
Q ss_pred HHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHH-HHccccceEEEeceeecCCCCCCCc
Q 018229 263 VTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVET-YACAVSNVYTFGPTFRAEHSHTSRH 341 (359)
Q Consensus 263 ~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~-~~~~~~~Vy~~~p~fRaE~~~t~rH 341 (359)
+ -.||. |.||||||||. |++||+|+|+|.+|||.|+++..|.
T Consensus 187 ---------------------~------------G~FYA----LPQSPQlfKQLLMvsGfdRYyQIarCFRDEDlRaDRQ 229 (585)
T COG0173 187 ---------------------P------------GKFYA----LPQSPQLFKQLLMVAGFDRYYQIARCFRDEDLRADRQ 229 (585)
T ss_pred ---------------------C------------Cceee----cCCCHHHHHHHHHHhcccceeeeeeeecccccccccC
Confidence 1 13664 99999999996 5899999999999999999999998
Q ss_pred cccccccceeecccC
Q 018229 342 LAEFWMVEPEMAFSD 356 (359)
Q Consensus 342 l~EF~mle~E~af~~ 356 (359)
+|||+||+||+|++
T Consensus 230 -PEFTQiD~EmSF~~ 243 (585)
T COG0173 230 -PEFTQIDLEMSFVD 243 (585)
T ss_pred -CcceeEeEEeecCC
Confidence 99999999999986
No 14
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=100.00 E-value=2.3e-53 Score=448.81 Aligned_cols=231 Identities=22% Similarity=0.345 Sum_probs=197.2
Q ss_pred hhhhcCCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCCh-----hhhccCCCCCcEEEEEeE
Q 018229 33 KSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV-----ADLGQLVPTGTCVYVEGM 107 (359)
Q Consensus 33 ~di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~-----~~~~~~L~~esvV~V~G~ 107 (359)
++++ |++++..+.|++|+|+|||+++|++| +++||+|||++|. +|||++++. ..+.+.|+.||+|.|+|+
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 3454 78888899999999999999999999 8999999999997 999998643 124567999999999999
Q ss_pred EeCCCCC------CcccEEEEEeEEEEeecCCCCCCCCCCcC------------cchhhhccCcCccCCchHHHHHHHHH
Q 018229 108 LKNPPEG------TKQKIELRVQKVVDVGMVDPAKYPIPKTK------------LTLEFLRDRIPFRPRTNTIAAVARIR 169 (359)
Q Consensus 108 v~~s~~~------~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~------------~~~e~lr~~r~L~lR~~~~~ai~riR 169 (359)
|.+++.+ .+|++||++++++||+++.+.|||+..+. .+.+.++++||||+|++.++++|++|
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 9986422 35899999999999999964567765432 24567779999999999999999999
Q ss_pred HHHHHHHHHHHHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhh
Q 018229 170 NALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKL 249 (359)
Q Consensus 170 S~I~~~iR~fL~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 249 (359)
|.|+++||+||.++||+||+||+|+++++|||++ |.++.
T Consensus 160 s~i~~~iR~fl~~~gFiEVeTPiL~~s~~eGAr~-~~~p~---------------------------------------- 198 (706)
T PRK12820 160 HRIIKCARDFLDSRGFLEIETPILTKSTPEGARD-YLVPS---------------------------------------- 198 (706)
T ss_pred HHHHHHHHHHHHHCCCEEEeCCccccCCCCCCcc-eEEee----------------------------------------
Confidence 9999999999999999999999999999999987 43321
Q ss_pred hcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccc-cccccHHHHHHHH-HccccceEEE
Q 018229 250 KSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQA-FLTVSGQLQVETY-ACAVSNVYTF 327 (359)
Q Consensus 250 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~-~L~~S~ql~~e~~-~~~~~~Vy~~ 327 (359)
.++..+. ||+||||||||++ ++||+|||+|
T Consensus 199 ------------------------------------------------~~~~~~~y~L~qSPQlykq~lm~~G~~rvfqI 230 (706)
T PRK12820 199 ------------------------------------------------RIHPKEFYALPQSPQLFKQLLMIAGFERYFQL 230 (706)
T ss_pred ------------------------------------------------ecCCCcceecCCCHHHHHHHHHhccCCcEEEE
Confidence 1223333 4999999999985 6889999999
Q ss_pred eceeecCCCCCCCccccccccceeecccCCC
Q 018229 328 GPTFRAEHSHTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 328 ~p~fRaE~~~t~rHl~EF~mle~E~af~~l~ 358 (359)
+||||||++++.|| +||||||+||+|+|++
T Consensus 231 ~~~FR~E~~~t~r~-pEFT~LE~E~af~d~~ 260 (706)
T PRK12820 231 ARCFRDEDLRPNRQ-PEFTQLDIEASFIDEE 260 (706)
T ss_pred echhcCCCCCCCcC-ccccccceeeccCCHH
Confidence 99999999999888 9999999999999863
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=2.9e-53 Score=441.75 Aligned_cols=223 Identities=26% Similarity=0.382 Sum_probs=190.9
Q ss_pred CCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh--hhccCCCCCcEEEEEeEEeCCCC----
Q 018229 40 DGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA--DLGQLVPTGTCVYVEGMLKNPPE---- 113 (359)
Q Consensus 40 ~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~--~~~~~L~~esvV~V~G~v~~s~~---- 113 (359)
++...++|++|+|+|||+++|.+| +++|++|||++|. +|||++++.. ...+.|+.||+|.|+|+|.+++.
T Consensus 8 ~l~~~~~g~~V~l~GwV~~~R~~G--kl~Fi~LrD~sg~--iQvv~~~~~~~~~~~~~L~~esvV~V~G~v~~r~~~~~n 83 (583)
T TIGR00459 8 QLRTEHLGQTVTLAGWVNRRRDLG--GLIFIDLRDRSGI--VQVVCDPDADALKLAKGLRNEDVVQVKGKVSARPEGNIN 83 (583)
T ss_pred hcchhhCCCEEEEEEEEEEEEcCC--CcEEEEEEeCCcc--EEEEEeCCHHHHHHHhcCCCCCEEEEEEEEEeCCccccC
Confidence 344577899999999999999999 8999999999996 9999987632 23567999999999999987652
Q ss_pred --CCcccEEEEEeEEEEeecCCCCCCCCCCcC--cchhhhccCcCccCCchHHHHHHHHHHHHHHHHHHHHHhCCcEEEc
Q 018229 114 --GTKQKIELRVQKVVDVGMVDPAKYPIPKTK--LTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIH 189 (359)
Q Consensus 114 --~~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~--~~~e~lr~~r~L~lR~~~~~ai~riRS~I~~~iR~fL~~~gF~EV~ 189 (359)
..+|++||.++++++|+++. .+|++... .+.+.++++||||+|++.++++|++||.|++++|+||.++||+||+
T Consensus 84 ~~~~tg~iEl~~~~i~iL~~a~--~~P~~~~~~~~~~~~Rl~~RyLDLR~~~~~~~lr~Rs~i~~~iR~ff~~~gFiEVe 161 (583)
T TIGR00459 84 RNLDTGEIEILAESITLLNKSK--TPPLIIEKTDAEEEVRLKYRYLDLRRPEMQQRLKLRHKVTKAVRNFLDQQGFLEIE 161 (583)
T ss_pred ccCCCCcEEEEEeEEEEeecCC--CCCCcccccccchhhhcccceEEcCCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEE
Confidence 14789999999999999985 45665432 3456677999999999999999999999999999999999999999
Q ss_pred cCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhcccchhhhhhhhHHHHHHH
Q 018229 190 TPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASVTELTKA 269 (359)
Q Consensus 190 TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 269 (359)
||+|++++||||++ |.|+.
T Consensus 162 TP~L~~s~~eGar~-f~vp~------------------------------------------------------------ 180 (583)
T TIGR00459 162 TPMLTKSTPEGARD-YLVPS------------------------------------------------------------ 180 (583)
T ss_pred CCeeccCCCCCCcc-eeeee------------------------------------------------------------
Confidence 99999999999987 76542
Q ss_pred HHHHHHHHhhhccCCCCCCCCCCccccccccCccc-cccccHHHHHHH-HHccccceEEEeceeecCCCCCCCccccccc
Q 018229 270 KENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQA-FLTVSGQLQVET-YACAVSNVYTFGPTFRAEHSHTSRHLAEFWM 347 (359)
Q Consensus 270 ~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~-~L~~S~ql~~e~-~~~~~~~Vy~~~p~fRaE~~~t~rHl~EF~m 347 (359)
.+++... ||+||||||||+ +++||+|||+||||||||+++|.|| +||||
T Consensus 181 ----------------------------~~~~~~~y~L~qSpQlykq~l~v~G~ervfqI~~~FR~E~~~t~r~-pEFT~ 231 (583)
T TIGR00459 181 ----------------------------RVHKGEFYALPQSPQLFKQLLMVSGVDRYYQIARCFRDEDLRADRQ-PEFTQ 231 (583)
T ss_pred ----------------------------ecCCCceeecCCCHHHHHHHHHhcccCcEEEEcceeeCCCCCCCCC-cccCc
Confidence 0122233 499999999997 5688999999999999999999999 99999
Q ss_pred cceeecccCCC
Q 018229 348 VEPEMAFSDLK 358 (359)
Q Consensus 348 le~E~af~~l~ 358 (359)
||+||+|+|++
T Consensus 232 le~E~af~d~~ 242 (583)
T TIGR00459 232 IDMEMSFMTQE 242 (583)
T ss_pred ceeeecCCCHH
Confidence 99999999864
No 16
>PRK00476 aspS aspartyl-tRNA synthetase; Validated
Probab=100.00 E-value=4.1e-53 Score=442.27 Aligned_cols=233 Identities=24% Similarity=0.377 Sum_probs=197.5
Q ss_pred ccceeehhhhcCCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCCh--hhhccCCCCCcEEEE
Q 018229 27 SDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV--ADLGQLVPTGTCVYV 104 (359)
Q Consensus 27 ~~r~~i~di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~--~~~~~~L~~esvV~V 104 (359)
++++++.++. ..++|++|+|+|||+++|.+| +++|++|||++|. +|||+++.. .+..+.|+.||+|.|
T Consensus 3 ~r~~~~~~l~------~~~~g~~V~l~GwV~~~R~~g--~l~Fi~LrD~~g~--iQ~v~~~~~~~~~~~~~l~~es~V~V 72 (588)
T PRK00476 3 MRTHYCGELR------ESHVGQTVTLCGWVHRRRDHG--GLIFIDLRDREGI--VQVVFDPDAEAFEVAESLRSEYVIQV 72 (588)
T ss_pred ccceeHHHhh------HHhCCCEEEEEEEEEEEEeCC--CeEEEEEEeCCce--EEEEEeCCHHHHHHHhCCCCCCEEEE
Confidence 4556666654 467899999999999999999 8999999999997 999998631 224567999999999
Q ss_pred EeEEeCCCCC------CcccEEEEEeEEEEeecCCCCCCCCCCc-CcchhhhccCcCccCCchHHHHHHHHHHHHHHHHH
Q 018229 105 EGMLKNPPEG------TKQKIELRVQKVVDVGMVDPAKYPIPKT-KLTLEFLRDRIPFRPRTNTIAAVARIRNALAYATH 177 (359)
Q Consensus 105 ~G~v~~s~~~------~~g~lEL~a~~i~vLs~a~~~~~Pi~~k-~~~~e~lr~~r~L~lR~~~~~ai~riRS~I~~~iR 177 (359)
+|+|.+++.+ .+|++||++++|+||++|.+.|+++..+ ..+.+.++++||||+|++.++++|++||.|++++|
T Consensus 73 ~G~v~~~~~~~~n~~~~~g~~El~~~~i~il~~a~~lP~~~~~~~~~~~~~Rl~~R~LdlR~~~~~~~l~~Rs~i~~~iR 152 (588)
T PRK00476 73 TGTVRARPEGTVNPNLPTGEIEVLASELEVLNKSKTLPFPIDDEEDVSEELRLKYRYLDLRRPEMQKNLKLRSKVTSAIR 152 (588)
T ss_pred EEEEEecCCcccCccCCCCcEEEEEeEEEEEecCCCCCCcccccccCChhhhhhcceEeecCHHHHHHHHHHHHHHHHHH
Confidence 9999987632 3689999999999999996334444322 24567778999999999999999999999999999
Q ss_pred HHHHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhcccchhh
Q 018229 178 TFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGRE 257 (359)
Q Consensus 178 ~fL~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 257 (359)
+||.++||+||+||+|++++||||++ |.|++.
T Consensus 153 ~ff~~~gFiEV~TP~L~~s~~ega~~-f~v~~~----------------------------------------------- 184 (588)
T PRK00476 153 NFLDDNGFLEIETPILTKSTPEGARD-YLVPSR----------------------------------------------- 184 (588)
T ss_pred HHHHHCCCEEEECCeeecCCCCCCcc-ceeccc-----------------------------------------------
Confidence 99999999999999999999999887 877420
Q ss_pred hhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHH-HHccccceEEEeceeecCCC
Q 018229 258 AISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVET-YACAVSNVYTFGPTFRAEHS 336 (359)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~-~~~~~~~Vy~~~p~fRaE~~ 336 (359)
-|++..+||+||||||+|+ +++|++|||+||||||||++
T Consensus 185 ----------------------------------------~~~~~~~~L~qSpql~kq~l~~~g~~rvfqi~~~FR~E~~ 224 (588)
T PRK00476 185 ----------------------------------------VHPGKFYALPQSPQLFKQLLMVAGFDRYYQIARCFRDEDL 224 (588)
T ss_pred ----------------------------------------ccCCceeecCCCHHHHHHHHHhcccCceEEEeceeecCCC
Confidence 1234445899999999997 46789999999999999999
Q ss_pred CCCCccccccccceeecccCCC
Q 018229 337 HTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 337 ~t~rHl~EF~mle~E~af~~l~ 358 (359)
+++||+ ||||||+||+|++++
T Consensus 225 ~~~r~~-EFt~le~e~af~~~~ 245 (588)
T PRK00476 225 RADRQP-EFTQIDIEMSFVTQE 245 (588)
T ss_pred CCCcCc-ccccceeeecCCCHH
Confidence 999998 999999999999863
No 17
>PLN02903 aminoacyl-tRNA ligase
Probab=100.00 E-value=3.4e-53 Score=443.92 Aligned_cols=232 Identities=24% Similarity=0.339 Sum_probs=196.3
Q ss_pred hhhhcCCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCCh----hhhccCCCCCcEEEEEeEE
Q 018229 33 KSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV----ADLGQLVPTGTCVYVEGML 108 (359)
Q Consensus 33 ~di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~----~~~~~~L~~esvV~V~G~v 108 (359)
+.++ |+++...++|++|+|+|||+++|.+| +++||+|||++|. +|||++++. ....+.|+.||+|.|+|+|
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 4454 77788899999999999999999999 8999999999997 999998652 1235679999999999999
Q ss_pred eCCCCC------CcccEEEEEeEEEEeecCC-CCCCCCCCc-----CcchhhhccCcCccCCchHHHHHHHHHHHHHHHH
Q 018229 109 KNPPEG------TKQKIELRVQKVVDVGMVD-PAKYPIPKT-----KLTLEFLRDRIPFRPRTNTIAAVARIRNALAYAT 176 (359)
Q Consensus 109 ~~s~~~------~~g~lEL~a~~i~vLs~a~-~~~~Pi~~k-----~~~~e~lr~~r~L~lR~~~~~ai~riRS~I~~~i 176 (359)
..++.+ .+|++||++++|+||++|. +.|+++..+ ..+.++++++||||+|++.++++|++||.|++++
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 976421 3588999999999999984 234444431 2567889999999999999999999999999999
Q ss_pred HHHHHh-CCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhcccch
Q 018229 177 HTFLQK-QGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAG 255 (359)
Q Consensus 177 R~fL~~-~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 255 (359)
|+||.+ +||+||+||+|++++||||++.| +...
T Consensus 214 R~fl~~~~gFiEVeTPiL~~st~eGardf~-v~~~--------------------------------------------- 247 (652)
T PLN02903 214 RRYLEDVHGFVEIETPILSRSTPEGARDYL-VPSR--------------------------------------------- 247 (652)
T ss_pred HHHHHhcCCeEEEECCeeccCCCCCCcccE-Eeee---------------------------------------------
Confidence 999997 99999999999999999999844 3210
Q ss_pred hhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHH-HHccccceEEEeceeecC
Q 018229 256 REAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVET-YACAVSNVYTFGPTFRAE 334 (359)
Q Consensus 256 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~-~~~~~~~Vy~~~p~fRaE 334 (359)
...+..+||+||||||||+ +++|++|||+|+||||||
T Consensus 248 ------------------------------------------~~~g~~y~L~qSPQlykQ~Lm~~G~~RvFqIa~~FR~E 285 (652)
T PLN02903 248 ------------------------------------------VQPGTFYALPQSPQLFKQMLMVSGFDRYYQIARCFRDE 285 (652)
T ss_pred ------------------------------------------cCCCcccccCCCHHHHHHHHHhccCCcEEEEehhhccC
Confidence 0013345799999999997 568899999999999999
Q ss_pred CCCCCCccccccccceeecccCCC
Q 018229 335 HSHTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 335 ~~~t~rHl~EF~mle~E~af~~l~ 358 (359)
++++.|| +||||||+||+|+|++
T Consensus 286 ~~~t~Rh-pEFTqLE~E~sf~d~~ 308 (652)
T PLN02903 286 DLRADRQ-PEFTQLDMELAFTPLE 308 (652)
T ss_pred CCCCCcc-cceeeeeeeecCCCHH
Confidence 9999999 9999999999999863
No 18
>KOG0556 consensus Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.4e-53 Score=418.66 Aligned_cols=231 Identities=29% Similarity=0.480 Sum_probs=206.4
Q ss_pred cccccceeehhhhcCCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCCh--------hhhccC
Q 018229 24 HQFSDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV--------ADLGQL 95 (359)
Q Consensus 24 ~~~~~r~~i~di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~--------~~~~~~ 95 (359)
.+-...+.++||. .+..|+.|+|+||||..|..| |++|+.||++.. ++||++..+. .+|...
T Consensus 65 ~~~~~~~~v~dl~------~~~~~~~V~vRgrVhtsr~~G--K~~FlvLRq~~~--tVQ~~~~~~~~~~isk~Mvkf~~~ 134 (533)
T KOG0556|consen 65 KEGRELTDVSDLD------ESNDGSEVLVRGRVHTSRLKG--KLCFLVLRQQGS--TVQCLVAVNEDGTISKQMVKFAGS 134 (533)
T ss_pred ccccceeehhhhh------hhcCCceEEEEEEEeeccccc--eEEEEEEeccCc--eEEEEEEcCCCchHHHHHHHHHhh
Confidence 3344455666664 567899999999999999999 899999999975 5999996543 258888
Q ss_pred CCCCcEEEEEeEEeCCCCC----CcccEEEEEeEEEEeecCCCCCCCCCCcC--------------------cchhhhcc
Q 018229 96 VPTGTCVYVEGMLKNPPEG----TKQKIELRVQKVVDVGMVDPAKYPIPKTK--------------------LTLEFLRD 151 (359)
Q Consensus 96 L~~esvV~V~G~v~~s~~~----~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~--------------------~~~e~lr~ 151 (359)
|+.||+|.|.|+|++.+.+ +.|++||++.+|+|||.+. +.+|++.++ ++.|++++
T Consensus 135 is~ESiV~v~g~v~k~~~~i~scT~qdvEi~v~~iyviS~a~-~~LPl~veDasrse~~eE~a~~~~~~~~~Vn~dtRLd 213 (533)
T KOG0556|consen 135 ISKESIVDVRGVVVKVKEPIKSCTVQDVEIHVRKIYVISIAL-PNLPLQVEDASRSEPDEEKAAEPESTLARVNLDTRLD 213 (533)
T ss_pred cCcceEEEEEEEEecCCCcccccccceeEEEEEEEEEEeccc-ccCCeeehhhcccccchhhhcCCccccceeccccccc
Confidence 9999999999999988753 6789999999999999998 788986332 24578899
Q ss_pred CcCccCCchHHHHHHHHHHHHHHHHHHHHHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhh
Q 018229 152 RIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEAD 231 (359)
Q Consensus 152 ~r~L~lR~~~~~ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~ 231 (359)
||.||||++..++|||+.+.|+.+||+||..+||+||+||+|++..+|||+.+|.|
T Consensus 214 nRvlDLRtptnqAiFriq~gvc~~FRe~L~~kgF~EIhTpKli~asSEGGanvF~v------------------------ 269 (533)
T KOG0556|consen 214 NRVLDLRTPTNQAIFRIQAGVCFAFREYLRSKGFVEIHTPKLIGASSEGGANVFRV------------------------ 269 (533)
T ss_pred ceeeecccccchheeehHHHHHHHHHHHHHhcCcceecccccccccCCCCceeEEE------------------------
Confidence 99999999999999999999999999999999999999999999999999999977
Q ss_pred HHHHHHHHHHhhhHHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHH
Q 018229 232 IEAAKLVIKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQ 311 (359)
Q Consensus 232 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~q 311 (359)
+||+.++||+||||
T Consensus 270 ------------------------------------------------------------------~Yfk~~A~LAQSPQ 283 (533)
T KOG0556|consen 270 ------------------------------------------------------------------SYFKQKAYLAQSPQ 283 (533)
T ss_pred ------------------------------------------------------------------EeccCcchhhcChH
Confidence 58999999999999
Q ss_pred HHHHHHHcc-ccceEEEeceeecCCCCCCCccccccccceeeccc
Q 018229 312 LQVETYACA-VSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFS 355 (359)
Q Consensus 312 l~~e~~~~~-~~~Vy~~~p~fRaE~~~t~rHl~EF~mle~E~af~ 355 (359)
||+||+||| |+|||+|||+||||+|+|.|||.||.-||+||+|-
T Consensus 284 LyKQMaI~gdf~rVyeIGpVfRAEdSnthRhltEFvGLD~EMaf~ 328 (533)
T KOG0556|consen 284 LYKQMAICGDFERVYEIGPVFRAEDSNTHRHLTEFVGLDLEMAFN 328 (533)
T ss_pred HHHHHHHhcchhheeeecceeeccccchhhhhHHhhCcchhhHHH
Confidence 999998776 99999999999999999999999999999999995
No 19
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=100.00 E-value=8.8e-53 Score=432.43 Aligned_cols=238 Identities=22% Similarity=0.271 Sum_probs=198.7
Q ss_pred cccccceeehhhhcCCC-CCC---CCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh-----hhcc
Q 018229 24 HQFSDRVLIKSILTRPD-GGA---GLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA-----DLGQ 94 (359)
Q Consensus 24 ~~~~~r~~i~di~~~~~-l~~---~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~-----~~~~ 94 (359)
..|.+++++.++..... +.. ...++.|+|+|||+++|.+| +++|++|||++|. ||||++++.. ...+
T Consensus 27 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~G~v~~~R~~g--~~~Fi~lrD~~g~--iQ~v~~~~~~~~~~~~~~~ 102 (491)
T PRK00484 27 NKFERTHTAAELRAKYDDKEKEELEELEIEVSVAGRVMLKRVMG--KASFATLQDGSGR--IQLYVSKDDVGEEALEAFK 102 (491)
T ss_pred CCCcCccCHHHHHHHhccccchhhcccCcEEEEEEEEEEEecCC--ceEEEEEEcCCcc--EEEEEECCcCCHHHHHHHh
Confidence 45777888888854211 111 12247899999999999999 8999999999986 9999987531 2334
Q ss_pred CCCCCcEEEEEeEEeCCCCCCcccEEEEEeEEEEeecCCCCCCCCCCc-CcchhhhccCcCccCC-chHHHHHHHHHHHH
Q 018229 95 LVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKT-KLTLEFLRDRIPFRPR-TNTIAAVARIRNAL 172 (359)
Q Consensus 95 ~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i~vLs~a~~~~~Pi~~k-~~~~e~lr~~r~L~lR-~~~~~ai~riRS~I 172 (359)
.|+.||+|.|+|+|.+++ +|++||++++++||++|. .++|.... ..+.+.+.++||||+| ++.++++|++||.|
T Consensus 103 ~l~~g~~v~v~G~v~~t~---~ge~el~~~~~~vls~~~-~plP~~~~~~~~~~~r~r~R~lDl~~~~~~~~~~r~Rs~i 178 (491)
T PRK00484 103 KLDLGDIIGVEGTLFKTK---TGELSVKATELTLLTKSL-RPLPDKFHGLTDVETRYRQRYVDLIVNPESRETFRKRSKI 178 (491)
T ss_pred cCCCCCEEEEEEEEEEcC---CCcEEEEEeEEEEEeccC-CCCCcccccccchhhhccceeeehhcCHHHHHHHHHHHHH
Confidence 599999999999999886 689999999999999996 56675322 2346788899999996 89999999999999
Q ss_pred HHHHHHHHHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhcc
Q 018229 173 AYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSD 252 (359)
Q Consensus 173 ~~~iR~fL~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 252 (359)
++++|+||.++||+||+||+|+++.+|+++++|.+.
T Consensus 179 ~~~iR~f~~~~gF~EVeTPiL~~~~~Ga~a~pF~t~-------------------------------------------- 214 (491)
T PRK00484 179 ISAIRRFLDNRGFLEVETPMLQPIAGGAAARPFITH-------------------------------------------- 214 (491)
T ss_pred HHHHHHHHHHCCCEEEECCceeccCCCccceeeeec--------------------------------------------
Confidence 999999999999999999999866544335788542
Q ss_pred cchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHH-HccccceEEEecee
Q 018229 253 KAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNVYTFGPTF 331 (359)
Q Consensus 253 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~Vy~~~p~f 331 (359)
.+||+.++||++|||||||++ ++|++|||+|||||
T Consensus 215 --------------------------------------------~~~~~~~~yL~~Spql~lk~l~v~g~~rVfei~~~F 250 (491)
T PRK00484 215 --------------------------------------------HNALDIDLYLRIAPELYLKRLIVGGFERVYEIGRNF 250 (491)
T ss_pred --------------------------------------------cccCCCceEeccCHHHHHHHHHhccCCcEEEEecce
Confidence 257899999999999999976 67899999999999
Q ss_pred ecCCCCCCCccccccccceeecccCCC
Q 018229 332 RAEHSHTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 332 RaE~~~t~rHl~EF~mle~E~af~~l~ 358 (359)
|||++++ |||+||||||+||+|+|++
T Consensus 251 R~E~~~~-rH~pEFt~lE~e~a~~d~~ 276 (491)
T PRK00484 251 RNEGIDT-RHNPEFTMLEFYQAYADYN 276 (491)
T ss_pred ecCCCCC-CcCCceEEEEEEEecCCHH
Confidence 9999985 9999999999999999864
No 20
>PLN02502 lysyl-tRNA synthetase
Probab=100.00 E-value=2.1e-52 Score=433.66 Aligned_cols=237 Identities=21% Similarity=0.281 Sum_probs=200.0
Q ss_pred ccccceeehhhhcCC-C--CCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh-----hh---c
Q 018229 25 QFSDRVLIKSILTRP-D--GGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA-----DL---G 93 (359)
Q Consensus 25 ~~~~r~~i~di~~~~-~--l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~-----~~---~ 93 (359)
.|..++++.++.... . .+....|++|+|+|||+++|.+| |++|++|||++|. ||||+.++.. .| .
T Consensus 83 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~v~GrV~~~R~~G--k~~F~~LrD~~g~--iQv~~~~~~~~~~~~~~~~~~ 158 (553)
T PLN02502 83 KFDVTHTAPELQEKYGSLENGEELEDVSVSVAGRIMAKRAFG--KLAFYDLRDDGGK--IQLYADKKRLDLDEEEFEKLH 158 (553)
T ss_pred CCCCCccHHHHHHHhhccccccccCCCEEEEEEEEEEEecCC--CeEEEEEecCCcc--EEEEEECccccchhHHHHHHH
Confidence 367788998885422 1 23456789999999999999999 8999999999986 9999986531 12 3
Q ss_pred cCCCCCcEEEEEeEEeCCCCCCcccEEEEEeEEEEeecCCCCCCCCCCcC-cchhhhccCcCccC-CchHHHHHHHHHHH
Q 018229 94 QLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTK-LTLEFLRDRIPFRP-RTNTIAAVARIRNA 171 (359)
Q Consensus 94 ~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~-~~~e~lr~~r~L~l-R~~~~~ai~riRS~ 171 (359)
..|+.||+|.|+|.|.+++ .|++||.+++|+||++|. .++|..... .+.+.++++||||+ |++..+++|++||.
T Consensus 159 ~~l~~gdiV~V~G~~~~t~---~gelel~~~~i~vLs~~l-~plP~k~~~~~d~e~r~r~RyLdl~~n~~~~~i~r~Rs~ 234 (553)
T PLN02502 159 SLVDRGDIVGVTGTPGKTK---KGELSIFPTSFEVLTKCL-LMLPDKYHGLTDQETRYRQRYLDLIANPEVRDIFRTRAK 234 (553)
T ss_pred hCCCCCcEEEEEEEEEecC---CCCEEEEEeEEEEEeccC-CCCCcccccccchhhhccchhhhhhcCHHHHHHHHHHHH
Confidence 4699999999999999986 689999999999999997 556643221 35688899999999 58999999999999
Q ss_pred HHHHHHHHHHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhc
Q 018229 172 LAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKS 251 (359)
Q Consensus 172 I~~~iR~fL~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (359)
|+++||+||.++||+||+||+|+++.+++++.+|.+.
T Consensus 235 i~~~iR~fl~~~gF~EVeTPiL~~~~gGA~a~pF~t~------------------------------------------- 271 (553)
T PLN02502 235 IISYIRRFLDDRGFLEVETPMLNMIAGGAAARPFVTH------------------------------------------- 271 (553)
T ss_pred HHHHHHHHHHHCCCEEEECCeeeccCCCccccceeee-------------------------------------------
Confidence 9999999999999999999999987644345677431
Q ss_pred ccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHH-HHccccceEEEece
Q 018229 252 DKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVET-YACAVSNVYTFGPT 330 (359)
Q Consensus 252 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~-~~~~~~~Vy~~~p~ 330 (359)
.+||+.++||++|||||+|+ +++||+|||+||||
T Consensus 272 ---------------------------------------------~n~~~~~~yL~~Spel~lK~L~v~g~~rVfeIg~~ 306 (553)
T PLN02502 272 ---------------------------------------------HNDLNMDLYLRIATELHLKRLVVGGFERVYEIGRQ 306 (553)
T ss_pred ---------------------------------------------cccCCcceeeecCHHHHHHHHHHhccCCEEEEcCe
Confidence 25789999999999999996 56899999999999
Q ss_pred eecCCCCCCCccccccccceeecccCCC
Q 018229 331 FRAEHSHTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 331 fRaE~~~t~rHl~EF~mle~E~af~~l~ 358 (359)
||||++++ |||+||||||+||+|+|++
T Consensus 307 FRnE~~~~-rH~pEFtmlE~y~a~~d~~ 333 (553)
T PLN02502 307 FRNEGIST-RHNPEFTTCEFYQAYADYN 333 (553)
T ss_pred eeCCCCCC-ccccceeehhhhhhcCCHH
Confidence 99999996 9999999999999999864
No 21
>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=2e-52 Score=430.13 Aligned_cols=237 Identities=19% Similarity=0.260 Sum_probs=198.1
Q ss_pred ccccceeehhhhcCC-CCCC---CCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh-----hhcc-
Q 018229 25 QFSDRVLIKSILTRP-DGGA---GLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA-----DLGQ- 94 (359)
Q Consensus 25 ~~~~r~~i~di~~~~-~l~~---~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~-----~~~~- 94 (359)
.|...+++.++.... ++.. ...|+.|+|+|||+++|.+| |++|++|||++|. ||+|++++.. ++.+
T Consensus 27 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~Grv~~~R~~g--k~~F~~l~D~~g~--iQ~~~~~~~~~~~~~~~~~~ 102 (496)
T TIGR00499 27 KFERTHSSQEFQEEYADLSNEELEDKNIEVSIAGRIMARRSMG--KATFITLQDESGQ--IQLYVNKDDLPEDFYEFDEY 102 (496)
T ss_pred CCCCCcCHHHHHHHhhccCccchhcCCCEEEEEEEEEEEecCC--CeEEEEEEcCCcc--EEEEEECCcCcHHHHHHHHh
Confidence 467778888885422 1111 24588999999999999999 8999999999986 9999987531 2233
Q ss_pred CCCCCcEEEEEeEEeCCCCCCcccEEEEEeEEEEeecCCCCCCCCCCcC-cchhhhccCcCccCC-chHHHHHHHHHHHH
Q 018229 95 LVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTK-LTLEFLRDRIPFRPR-TNTIAAVARIRNAL 172 (359)
Q Consensus 95 ~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~-~~~e~lr~~r~L~lR-~~~~~ai~riRS~I 172 (359)
.|+.||+|.|+|+|.+++ .|++||++++|++|++|. .++|..... .+.|+++++||||+| ++..+++|++||.|
T Consensus 103 ~l~~gd~V~v~G~~~~t~---~gelel~~~~i~ilsk~~-~plP~k~~~~~d~e~r~r~R~Ldl~~n~~~~~~~r~Rs~i 178 (496)
T TIGR00499 103 LLDLGDIIGVTGYPFKTK---TGELSVHVTELQILTKAL-RPLPDKFHGLTDQETRYRQRYLDLIVNPDSRQTFLVRSKI 178 (496)
T ss_pred cCCCCCEEEEEEEEEECC---CCcEEEEeeEEEEEecCC-CCCCccccccCChhhhhhhhhhhhhcCHHHHHHHHHHHHH
Confidence 489999999999999886 689999999999999996 556643222 256888999999998 57999999999999
Q ss_pred HHHHHHHHHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhcc
Q 018229 173 AYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSD 252 (359)
Q Consensus 173 ~~~iR~fL~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 252 (359)
+++||+||.++||+||+||+|++..+++++++|.+.
T Consensus 179 ~~~iR~fl~~~gF~EVeTP~L~~~~gga~a~pF~t~-------------------------------------------- 214 (496)
T TIGR00499 179 IKAIRRFLDDRGFIEVETPMLQVIPGGANARPFITH-------------------------------------------- 214 (496)
T ss_pred HHHHHHHHHHCcCEEEeCCeeecCCCCccceeEEee--------------------------------------------
Confidence 999999999999999999999987654445778652
Q ss_pred cchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHH-HccccceEEEecee
Q 018229 253 KAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNVYTFGPTF 331 (359)
Q Consensus 253 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~Vy~~~p~f 331 (359)
.++|+.++||++|||||||++ ++||+|||+|||||
T Consensus 215 --------------------------------------------~~~~~~~~yLriSpELylKrlivgG~~rVfeIg~~F 250 (496)
T TIGR00499 215 --------------------------------------------HNALDMDLYLRIAPELYLKRLIVGGFEKVYEIGRNF 250 (496)
T ss_pred --------------------------------------------cccCCCceEEecCHHHHHHHHHhCCCCceEEEecce
Confidence 135889999999999999976 67899999999999
Q ss_pred ecCCCCCCCccccccccceeecccCCC
Q 018229 332 RAEHSHTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 332 RaE~~~t~rHl~EF~mle~E~af~~l~ 358 (359)
|||++++ |||+||||||+||+|+|++
T Consensus 251 RnE~~~~-rH~pEFTmlE~y~a~~d~~ 276 (496)
T TIGR00499 251 RNEGVDT-THNPEFTMIEFYQAYADYE 276 (496)
T ss_pred ecCCCCC-cccchhheeehhhhcCCHH
Confidence 9999985 9999999999999999864
No 22
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=100.00 E-value=8.5e-52 Score=426.03 Aligned_cols=236 Identities=18% Similarity=0.230 Sum_probs=197.5
Q ss_pred ccccceeehhhhcCCC-CCC---CCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh---hh---cc
Q 018229 25 QFSDRVLIKSILTRPD-GGA---GLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA---DL---GQ 94 (359)
Q Consensus 25 ~~~~r~~i~di~~~~~-l~~---~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~---~~---~~ 94 (359)
.|...+++.++....+ +.. ...|+.|+|+|||+++|.+| |++|++|||++|. ||||+.++.. .+ .+
T Consensus 39 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~Grv~~~R~~G--k~~F~~lrD~~g~--iQ~~~~~~~~~~~~~~~~~~ 114 (505)
T PRK12445 39 DFRRDHTSDQLHEEFDAKDNQELESLNIEVSVAGRMMTRRIMG--KASFVTLQDVGGR--IQLYVARDSLPEGVYNDQFK 114 (505)
T ss_pred CCcCccCHHHHHHHhhccCcchhhcCCCEEEEEEEEEEEecCC--CcEEEEEEeCCcc--EEEEEECCccchhhHHHHHh
Confidence 4777888888854321 111 24478899999999999999 8999999999986 9999986431 12 35
Q ss_pred CCCCCcEEEEEeEEeCCCCCCcccEEEEEeEEEEeecCCCCCCCCCCcC-cchhhhccCcCccCC-chHHHHHHHHHHHH
Q 018229 95 LVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTK-LTLEFLRDRIPFRPR-TNTIAAVARIRNAL 172 (359)
Q Consensus 95 ~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~-~~~e~lr~~r~L~lR-~~~~~ai~riRS~I 172 (359)
.|..||+|.|+|.|.+++ +|++||+++++++|++|. .|+|..... .+.+.++++||||+| ++..+++|++||.|
T Consensus 115 ~l~~Gd~V~v~G~~~~t~---~gelel~~~~~~llsk~~-~plP~~~~~~~d~e~r~r~Ryldl~~n~~~r~~~r~Rs~i 190 (505)
T PRK12445 115 KWDLGDIIGARGTLFKTQ---TGELSIHCTELRLLTKAL-RPLPDKFHGLQDQEVRYRQRYLDLIANDKSRQTFVVRSKI 190 (505)
T ss_pred cCCCCCEEEEEEEEEecC---CCcEEEEEeEEEEEecCC-CCCCcccccccChhhhhhhhhhhhhcCHHHHHHHHHHHHH
Confidence 689999999999999886 689999999999999997 566653322 356889999999998 68999999999999
Q ss_pred HHHHHHHHHhCCcEEEccCeeecCCCCCC-CCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhc
Q 018229 173 AYATHTFLQKQGFLYIHTPIITTSDCEGA-GEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKS 251 (359)
Q Consensus 173 ~~~iR~fL~~~gF~EV~TPiLt~~~~EGa-~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (359)
+++||+||.++||+||+||+|+.. ++|| +.+|.+.
T Consensus 191 ~~~iR~f~~~~gFiEVeTPiL~~~-~gGa~a~pF~t~------------------------------------------- 226 (505)
T PRK12445 191 LAAIRQFMVARGFMEVETPMMQVI-PGGASARPFITH------------------------------------------- 226 (505)
T ss_pred HHHHHHHHHHCCCEEeeCCeeEec-CCCCcccceecc-------------------------------------------
Confidence 999999999999999999999875 4454 3466321
Q ss_pred ccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHH-HccccceEEEece
Q 018229 252 DKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNVYTFGPT 330 (359)
Q Consensus 252 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~Vy~~~p~ 330 (359)
.++|+.++||++|||||+|++ ++||+|||+||||
T Consensus 227 ---------------------------------------------~~~~~~~~yL~~SpELylKrlivgG~~rVfeIg~~ 261 (505)
T PRK12445 227 ---------------------------------------------HNALDLDMYLRIAPELYLKRLVVGGFERVFEINRN 261 (505)
T ss_pred ---------------------------------------------cccCCcceeeecCHHHHHHHHHhccCCcEEEEehh
Confidence 246899999999999999975 6789999999999
Q ss_pred eecCCCCCCCccccccccceeecccCCC
Q 018229 331 FRAEHSHTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 331 fRaE~~~t~rHl~EF~mle~E~af~~l~ 358 (359)
||||++ ++|||+||||||+||+|+|++
T Consensus 262 FRnE~~-~~rH~pEFTmlE~y~a~~d~~ 288 (505)
T PRK12445 262 FRNEGI-SVRHNPEFTMMELYMAYADYH 288 (505)
T ss_pred ccCCCC-CCCcCcccceeeeeeecCCHH
Confidence 999998 789999999999999999864
No 23
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=100.00 E-value=1.1e-50 Score=425.08 Aligned_cols=238 Identities=18% Similarity=0.245 Sum_probs=198.8
Q ss_pred ccccceeehhhhcCC-CC--CCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh----h---hcc
Q 018229 25 QFSDRVLIKSILTRP-DG--GAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA----D---LGQ 94 (359)
Q Consensus 25 ~~~~r~~i~di~~~~-~l--~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~----~---~~~ 94 (359)
.|..++++.++.... ++ +....++.|+|+|||+++|.+| |++|++|||++|. ||||+.++.. . +.+
T Consensus 82 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~V~vaGrV~~~R~~G--k~~F~~LrD~~G~--IQvv~~~~~~~~~~~~~~~~~ 157 (659)
T PTZ00385 82 SFRGITPISEVRERYGYLASGDRAAQATVRVAGRVTSVRDIG--KIIFVTIRSNGNE--LQVVGQVGEHFTREDLKKLKV 157 (659)
T ss_pred cCcccccHHHHHHHhhccccccccCCCEEEEEEEEEeeeccC--CeEEEEEEECCce--EEEEEECCccCCHHHHHHHHh
Confidence 377788888885432 11 1112355799999999999999 8999999999986 9999987531 1 234
Q ss_pred CCCCCcEEEEEeEEeCCCCCCcccEEEEEeEEEEeecCCCCCC---CCCCc---CcchhhhccCcCccCC-chHHHHHHH
Q 018229 95 LVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKY---PIPKT---KLTLEFLRDRIPFRPR-TNTIAAVAR 167 (359)
Q Consensus 95 ~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i~vLs~a~~~~~---Pi~~k---~~~~e~lr~~r~L~lR-~~~~~ai~r 167 (359)
.|+.||+|.|+|+|.+++ +|++||++++|++|+++...++ |-..+ ..+.|+++++|||||| ++.++++|+
T Consensus 158 ~l~~gdiV~V~G~v~~t~---~GeleI~~~~i~lLska~~~~~~~~p~~~k~~~~~d~e~R~r~RyLDL~~n~~~~~ifr 234 (659)
T PTZ00385 158 SLRVGDIIGADGVPCRMQ---RGELSVAASRMLILSPYVCTDQVVCPNLRGFTVLQDNDVKYRYRFTDMMTNPCVIETIK 234 (659)
T ss_pred CCCCCCEEEEEEEEEecC---CceEEEEeeEEEEechhhhccccCCCCCccccccCChhhhcccceeeeecCHHHHHHHH
Confidence 699999999999999876 7999999999999999531122 21112 2367899999999995 788999999
Q ss_pred HHHHHHHHHHHHHHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHH
Q 018229 168 IRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVA 247 (359)
Q Consensus 168 iRS~I~~~iR~fL~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 247 (359)
+||+|+++||+||.++||+||+||+|+++++||++++|.+.
T Consensus 235 ~Rs~I~~aiR~ff~~~gFlEVeTPiL~~~~~ga~a~pF~t~--------------------------------------- 275 (659)
T PTZ00385 235 KRHVMLQALRDYFNERNFVEVETPVLHTVASGANAKSFVTH--------------------------------------- 275 (659)
T ss_pred HHHHHHHHHHHHHHHCCCEEeeCCEeeccCCCCCccceEee---------------------------------------
Confidence 99999999999999999999999999998888889999652
Q ss_pred hhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHH-HccccceEE
Q 018229 248 KLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNVYT 326 (359)
Q Consensus 248 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~Vy~ 326 (359)
.++|+.++||++|||||+|++ ++||+|||+
T Consensus 276 -------------------------------------------------~n~~~~~~yL~~SPELylKrLivgG~erVye 306 (659)
T PTZ00385 276 -------------------------------------------------HNANAMDLFLRVAPELHLKQCIVGGMERIYE 306 (659)
T ss_pred -------------------------------------------------cccCCCCEEecCChHHHHHHHhhcccCCEEE
Confidence 135788999999999999975 578999999
Q ss_pred EeceeecCCCCCCCccccccccceeecccCCC
Q 018229 327 FGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 327 ~~p~fRaE~~~t~rHl~EF~mle~E~af~~l~ 358 (359)
||||||||+++ .||++||||||+|++|+|++
T Consensus 307 Ig~~FRnE~~~-~rH~pEFTmlE~y~a~~d~~ 337 (659)
T PTZ00385 307 IGKVFRNEDAD-RSHNPEFTSCEFYAAYHTYE 337 (659)
T ss_pred EeceecCCCCC-CCccccccceeeeeecCCHH
Confidence 99999999998 79999999999999999864
No 24
>PTZ00417 lysine-tRNA ligase; Provisional
Probab=100.00 E-value=4.1e-50 Score=418.28 Aligned_cols=236 Identities=17% Similarity=0.267 Sum_probs=196.4
Q ss_pred cccceeehhhhcCCC-C--CCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCCh-----hhh---cc
Q 018229 26 FSDRVLIKSILTRPD-G--GAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV-----ADL---GQ 94 (359)
Q Consensus 26 ~~~r~~i~di~~~~~-l--~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~-----~~~---~~ 94 (359)
|...++++++....+ + ++...++.|+|+|||+++|.+|+ +++|++|||.+|. |||+++++. ..| .+
T Consensus 108 ~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~Grv~~~R~~G~-k~~F~~L~d~~g~--iQv~~~~~~~~~~~~~~~~~~~ 184 (585)
T PTZ00417 108 FERTITVPEFVEKYQDLASGEHLEDTILNVTGRIMRVSASGQ-KLRFFDLVGDGAK--IQVLANFAFHDHTKSNFAECYD 184 (585)
T ss_pred CcCCcCHHHHHHHhhccCccccccCCeEEEEEEEEeeecCCC-CCEEEEEEeCCee--EEEEEECCccCCCHHHHHHHHh
Confidence 677788888854321 1 11224567999999999999996 5999999999875 999998652 122 35
Q ss_pred CCCCCcEEEEEeEEeCCCCCCcccEEEEEeEEEEeecCCCCCCCCCCcCcchhhhccCcCccCC-chHHHHHHHHHHHHH
Q 018229 95 LVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTKLTLEFLRDRIPFRPR-TNTIAAVARIRNALA 173 (359)
Q Consensus 95 ~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~~~~e~lr~~r~L~lR-~~~~~ai~riRS~I~ 173 (359)
.|+.||+|.|+|.+.+++ +|++||.+++|++|++|. .++|+.....+.+.+.++||||+| ++..+++|++||+|+
T Consensus 185 ~l~~Gd~V~V~G~~~~t~---~gel~i~~~~i~llsk~l-~~lP~~~g~~d~e~r~r~RyLdL~~n~~~~~ifr~RS~Ii 260 (585)
T PTZ00417 185 KIRRGDIVGIVGFPGKSK---KGELSIFPKETIILSPCL-HMLPMKYGLKDTEIRYRQRYLDLMINESTRSTFITRTKII 260 (585)
T ss_pred cCCCCCEEEEEeEEcCCC---CceEEEEEEEEEEEecCC-CCCCcccCCCCcccccccchhhhhcCHHHHHHHHHHHHHH
Confidence 699999999999998875 689999999999999997 678865323356888899999998 889999999999999
Q ss_pred HHHHHHHHhCCcEEEccCeeecCCCCCC-CCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhcc
Q 018229 174 YATHTFLQKQGFLYIHTPIITTSDCEGA-GEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSD 252 (359)
Q Consensus 174 ~~iR~fL~~~gF~EV~TPiLt~~~~EGa-~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 252 (359)
++||+||+++||+||+||+|+.+. +|| +.+|.+.
T Consensus 261 ~aiR~Ff~~rGFlEVeTPiL~~~~-GGA~a~PF~T~-------------------------------------------- 295 (585)
T PTZ00417 261 NYLRNFLNDRGFIEVETPTMNLVA-GGANARPFITH-------------------------------------------- 295 (585)
T ss_pred HHHHHHHHHCCeEEEeCCeeeccC-CcccceeEEec--------------------------------------------
Confidence 999999999999999999999984 444 4566421
Q ss_pred cchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHH-HccccceEEEecee
Q 018229 253 KAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNVYTFGPTF 331 (359)
Q Consensus 253 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~Vy~~~p~f 331 (359)
.++|+.++||++|||||+|+| ++||+|||+|||||
T Consensus 296 --------------------------------------------~n~~d~~lYLriSpEL~lKrLlvgG~~rVfeIgp~F 331 (585)
T PTZ00417 296 --------------------------------------------HNDLDLDLYLRIATELPLKMLIVGGIDKVYEIGKVF 331 (585)
T ss_pred --------------------------------------------ccCCCcceEEeecHHHHHHHHHHhCCCCEEEEcccc
Confidence 135788999999999999986 57899999999999
Q ss_pred ecCCCCCCCccccccccceeecccCCC
Q 018229 332 RAEHSHTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 332 RaE~~~t~rHl~EF~mle~E~af~~l~ 358 (359)
|||+++ +||++||||||+|+||+|++
T Consensus 332 RnE~~~-~rHnpEFTmlE~y~ay~dy~ 357 (585)
T PTZ00417 332 RNEGID-NTHNPEFTSCEFYWAYADFY 357 (585)
T ss_pred cCCCCC-CCccceeeeeeeeeecCCHH
Confidence 999998 59999999999999999874
No 25
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=100.00 E-value=1.3e-49 Score=438.95 Aligned_cols=230 Identities=23% Similarity=0.280 Sum_probs=199.9
Q ss_pred cccceeehhhhcCCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh------hhccCCCCC
Q 018229 26 FSDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA------DLGQLVPTG 99 (359)
Q Consensus 26 ~~~r~~i~di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~------~~~~~L~~e 99 (359)
|.+++++.++.. ...|++|+|+|||+++|.+| |++|++|||++|. ||||++++.. .+.+.|+.|
T Consensus 636 ~~~~~~~~~~~~------~~~~~~V~v~Grv~~~R~~G--~~~F~~lrD~~g~--iQ~v~~~~~~~~~~~~~~~~~l~~g 705 (1094)
T PRK02983 636 VPPTHTVAEALD------APTGEEVSVSGRVLRIRDYG--GVLFADLRDWSGE--LQVLLDASRLEQGSLADFRAAVDLG 705 (1094)
T ss_pred CcCccCHHHHHH------hcCCCEEEEEEEEEEEeeCC--CeEEEEEEeCCee--EEEEEECCccchhhHHHHHhcCCCC
Confidence 567778888753 46789999999999999999 8999999999986 9999987631 244568999
Q ss_pred cEEEEEeEEeCCCCCCcccEEEEEeEEEEeecCCCCCCCCCCcC-cchhhhccCcCccCC-chHHHHHHHHHHHHHHHHH
Q 018229 100 TCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTK-LTLEFLRDRIPFRPR-TNTIAAVARIRNALAYATH 177 (359)
Q Consensus 100 svV~V~G~v~~s~~~~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~-~~~e~lr~~r~L~lR-~~~~~ai~riRS~I~~~iR 177 (359)
|+|.|+|++.+++ .|++||++++|+++++|. .++|..... .+.+.+.++||||+| ++.++++|++||+|+++||
T Consensus 706 d~V~v~G~v~~t~---~ge~ei~~~~i~ll~k~~-~plP~k~~~~~d~e~R~r~R~lDL~~n~~~~~~~r~Rs~i~~~iR 781 (1094)
T PRK02983 706 DLVEVTGTMGTSR---NGTLSLLVTSWRLAGKCL-RPLPDKWKGLTDPEARVRQRYLDLAVNPEARDLLRARSAVVRAVR 781 (1094)
T ss_pred CEEEEEEEEEEcC---CCCEEEEEeEEEEEeccC-cCCCCccccCCChhhcchhhhhhhhcCHHHHHHHHHHHHHHHHHH
Confidence 9999999999886 589999999999999997 556643222 356788899999995 7899999999999999999
Q ss_pred HHHHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhcccchhh
Q 018229 178 TFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGRE 257 (359)
Q Consensus 178 ~fL~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 257 (359)
+||+++||+||+||+|+.+.+|+++++|.+.
T Consensus 782 ~fl~~~gFlEVeTPiL~~~~gGa~a~pF~t~------------------------------------------------- 812 (1094)
T PRK02983 782 ETLVARGFLEVETPILQQVHGGANARPFVTH------------------------------------------------- 812 (1094)
T ss_pred HHHHHCCCEEEeCCEeeccCCCcccceeEee-------------------------------------------------
Confidence 9999999999999999988876667889652
Q ss_pred hhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHH-HccccceEEEeceeecCCC
Q 018229 258 AISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNVYTFGPTFRAEHS 336 (359)
Q Consensus 258 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~Vy~~~p~fRaE~~ 336 (359)
.++|++++||++|||||||++ ++||+|||+||||||||++
T Consensus 813 ---------------------------------------~~~~~~~~yLriSPELylKrLivgG~erVFEIg~~FRnE~~ 853 (1094)
T PRK02983 813 ---------------------------------------INAYDMDLYLRIAPELYLKRLCVGGVERVFELGRNFRNEGV 853 (1094)
T ss_pred ---------------------------------------ecCCCccchhhcChHHHHHHHHhcccCceEEEcceecCCCC
Confidence 257899999999999999975 5789999999999999999
Q ss_pred CCCCccccccccceeecccCCC
Q 018229 337 HTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 337 ~t~rHl~EF~mle~E~af~~l~ 358 (359)
++ ||++||||||+||+|+|++
T Consensus 854 ~~-rHnpEFTmLE~y~a~~dy~ 874 (1094)
T PRK02983 854 DA-THNPEFTLLEAYQAHADYD 874 (1094)
T ss_pred CC-CccccccchhhhhhcCCHH
Confidence 85 9999999999999999874
No 26
>KOG0555 consensus Asparaginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.3e-47 Score=375.54 Aligned_cols=243 Identities=28% Similarity=0.450 Sum_probs=212.2
Q ss_pred cccccccccccccccccceeehhhhcCCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhh
Q 018229 12 ATMDLNDDAVQRHQFSDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD 91 (359)
Q Consensus 12 ~~~~~~~~~~~~~~~~~r~~i~di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~ 91 (359)
-++++.++- +.+....+.|-+.. .+.|+.|+|.||||+.|+++ +++||+||||+|+ ||||++++...
T Consensus 97 ~ki~ised~--slp~ak~iki~~s~-------~~r~qrVkv~gWVhrlR~qk--~l~FivLrdg~gf--lqCVl~~kl~~ 163 (545)
T KOG0555|consen 97 KKITISEDK--SLPAAKKIKIYDST-------ENRGQRVKVFGWVHRLRRQK--SLIFIVLRDGTGF--LQCVLSDKLCQ 163 (545)
T ss_pred hcccccCCC--CCchhheeeecccc-------cccCceEEeehhhHhhhhcC--ceEEEEEecCCce--EEEEEcchhhh
Confidence 355665554 55555555554433 57899999999999999997 8999999999998 99999988642
Q ss_pred -h-ccCCCCCcEEEEEeEEeCCCCC--CcccEEEEEeEEEEeecCCCC--CCCCCCcCcchhhhccCcCccCCchHHHHH
Q 018229 92 -L-GQLVPTGTCVYVEGMLKNPPEG--TKQKIELRVQKVVDVGMVDPA--KYPIPKTKLTLEFLRDRIPFRPRTNTIAAV 165 (359)
Q Consensus 92 -~-~~~L~~esvV~V~G~v~~s~~~--~~g~lEL~a~~i~vLs~a~~~--~~Pi~~k~~~~e~lr~~r~L~lR~~~~~ai 165 (359)
+ .-.|..+++|.|.|++++.|+| ++|+.||.|+-++|++.+... ..|+ +++.+.+.++++|||-+|....+.+
T Consensus 164 ~yd~~~Ls~essv~vYG~i~~~p~GK~apgghEl~vdy~Eiig~Apag~~~n~l-ne~s~~~~~LdnrHl~iRge~~s~v 242 (545)
T KOG0555|consen 164 SYDALTLSTESSVTVYGTIKKLPEGKSAPGGHELNVDYWEIIGLAPAGGFDNPL-NEESDVDVLLDNRHLVIRGENASKV 242 (545)
T ss_pred hhccccccccceEEEEEEEecCcCCCCCCCCceEEeeeeeeecccCCCcccccc-cccCCcceEeccceeEEechhHHHH
Confidence 2 2348899999999999999876 679999999999999988644 3455 3445778999999999999999999
Q ss_pred HHHHHHHHHHHHHHHHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhH
Q 018229 166 ARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEA 245 (359)
Q Consensus 166 ~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 245 (359)
+++|+.+.++||++|.++|++||.+|.|+....|||+.+|.
T Consensus 243 LK~Ra~~lr~~Rd~y~~~~ytEVtPPtmVQTQVEGGsTLFk--------------------------------------- 283 (545)
T KOG0555|consen 243 LKARAALLRAMRDHYFERGYTEVTPPTMVQTQVEGGSTLFK--------------------------------------- 283 (545)
T ss_pred HHHHHHHHHHHHHHHHhcCceecCCCceEEEEecCcceEEe---------------------------------------
Confidence 99999999999999999999999999999999999998874
Q ss_pred HHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHHHccccceE
Q 018229 246 VAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETYACAVSNVY 325 (359)
Q Consensus 246 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~~~~~~~Vy 325 (359)
.||||+++|||||+|||||.+..++++||
T Consensus 284 ---------------------------------------------------ldYyGEeAyLTQSSQLYLEtclpAlgdvy 312 (545)
T KOG0555|consen 284 ---------------------------------------------------LDYYGEEAYLTQSSQLYLETCLPALGDVY 312 (545)
T ss_pred ---------------------------------------------------ecccCchhhccchhHHHHHHhhhhcCcee
Confidence 47999999999999999999999999999
Q ss_pred EEeceeecCCCCCCCccccccccceeecccCCC
Q 018229 326 TFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 326 ~~~p~fRaE~~~t~rHl~EF~mle~E~af~~l~ 358 (359)
+|.++||||+|+|.|||+||+++|+|++|+++.
T Consensus 313 ~I~~SyRAEkSrTRRHLsEytHVEaE~afltfd 345 (545)
T KOG0555|consen 313 CIQQSYRAEKSRTRRHLSEYTHVEAECAFLTFD 345 (545)
T ss_pred EecHhhhhhhhhhhhhhhhheeeeeecccccHH
Confidence 999999999999999999999999999999763
No 27
>KOG1885 consensus Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=8.8e-43 Score=347.07 Aligned_cols=237 Identities=20% Similarity=0.319 Sum_probs=199.8
Q ss_pred cccccceeehhhhcC---CCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh----hh---c
Q 018229 24 HQFSDRVLIKSILTR---PDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA----DL---G 93 (359)
Q Consensus 24 ~~~~~r~~i~di~~~---~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~----~~---~ 93 (359)
++|...++|.++... ...++...+..|+|+|||+++|.+|. ||+|++|++++. .||||++.+.. +| .
T Consensus 78 hkf~vs~si~~fieky~~l~~ge~~~n~~~svaGRI~s~R~sGs-KL~Fydl~~~g~--klQvm~~~~~~~~~~~F~~~~ 154 (560)
T KOG1885|consen 78 HKFHVSISIPDFIEKYLHLATGEHLDNEIVSVAGRIHSKRESGS-KLVFYDLHGDGV--KLQVMANAKKITSEEDFEQLH 154 (560)
T ss_pred chhhccccHHHHHHHhcCcccccccccceeeeeeeEeeeeccCC-ceEEEEEecCCe--EEEEEEehhhcCCHHHHHHHH
Confidence 346666777776432 12345556778999999999999998 899999999964 59999997652 23 4
Q ss_pred cCCCCCcEEEEEeEEeCCCCCCcccEEEEEeEEEEeecCCCCCCC---CCCcCcchhhhccCcCccC-CchHHHHHHHHH
Q 018229 94 QLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYP---IPKTKLTLEFLRDRIPFRP-RTNTIAAVARIR 169 (359)
Q Consensus 94 ~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i~vLs~a~~~~~P---i~~k~~~~e~lr~~r~L~l-R~~~~~ai~riR 169 (359)
+.|++||+|.|.|.+.++. .|++.|.+.++.+|++|. .++| +.. .+.|++.++||||+ -++..+..|++|
T Consensus 155 ~~lkrGDiig~~G~pgrt~---~gELSi~~~~~~lLspcL-h~lP~~~~gL--kD~EtRyrqRylDlilN~~~r~~f~~R 228 (560)
T KOG1885|consen 155 KFLKRGDIIGVSGYPGRTK---SGELSIIPNEIILLSPCL-HMLPHEHFGL--KDKETRYRKRYLDLILNPEVRDRFRIR 228 (560)
T ss_pred hhhhccCEEeeecCCCcCC---CceEEEeecchheecchh-ccCChhhcCC--CcHHHHHHHHHHHHHcCHHHHHHHHHH
Confidence 5699999999999999886 689999999999999998 7777 222 25688888999998 577899999999
Q ss_pred HHHHHHHHHHHHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhh
Q 018229 170 NALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKL 249 (359)
Q Consensus 170 S~I~~~iR~fL~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 249 (359)
++|+.++|.||+++||+||+||+|...+.|..|.+|.+.
T Consensus 229 akII~~iRkfld~rgFlEVETPmmn~iaGGA~AkPFIT~----------------------------------------- 267 (560)
T KOG1885|consen 229 AKIISYIRKFLDSRGFLEVETPMMNMIAGGATAKPFITH----------------------------------------- 267 (560)
T ss_pred HHHHHHHHHHhhhcCceEecchhhccccCccccCceeec-----------------------------------------
Confidence 999999999999999999999999998866668999542
Q ss_pred hcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHH-HccccceEEEe
Q 018229 250 KSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNVYTFG 328 (359)
Q Consensus 250 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~Vy~~~ 328 (359)
.+-++..+||.++|+||+++| ++||+|||+||
T Consensus 268 -----------------------------------------------hndldm~LylRiAPEL~lK~LvVGGldrVYEIG 300 (560)
T KOG1885|consen 268 -----------------------------------------------HNDLDMDLYLRIAPELYLKMLVVGGLDRVYEIG 300 (560)
T ss_pred -----------------------------------------------ccccCcceeeeechHHHHHHHHhccHHHHHHHH
Confidence 122677899999999999986 78899999999
Q ss_pred ceeecCCCCCCCccccccccceeecccCCC
Q 018229 329 PTFRAEHSHTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 329 p~fRaE~~~t~rHl~EF~mle~E~af~~l~ 358 (359)
..||||..+ .+|++||+.+|+||||+|++
T Consensus 301 r~FRNEGID-lTHNPEFTTcEfY~AYady~ 329 (560)
T KOG1885|consen 301 RQFRNEGID-LTHNPEFTTCEFYMAYADYE 329 (560)
T ss_pred HHhhhcCcc-cccCCCcchHHHHHHHhhHH
Confidence 999999998 58999999999999999874
No 28
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=3.6e-42 Score=347.71 Aligned_cols=234 Identities=21% Similarity=0.283 Sum_probs=197.6
Q ss_pred cccceeehhhhcCCCC-C-CCCC--CCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh------hhccC
Q 018229 26 FSDRVLIKSILTRPDG-G-AGLA--GRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA------DLGQL 95 (359)
Q Consensus 26 ~~~r~~i~di~~~~~l-~-~~~~--gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~------~~~~~ 95 (359)
|.+.+++.++....+. . +... +..|+|+|||..+|.+| |++|++|.|++|. ||++++++.. .+.+.
T Consensus 36 ~~~~~~~~~l~~~~~~~~~~el~~~~~~v~vAGRi~~~R~~G--K~~F~~i~d~~gk--iQ~yi~k~~~~~~~~~~~~~~ 111 (502)
T COG1190 36 FERTHTSADLREKYADKTKEELEALNIEVSVAGRIMTIRNMG--KASFADLQDGSGK--IQLYVNKDEVGEEVFEALFKK 111 (502)
T ss_pred CcccccHHHHHHHHhccchhhhhhccceeEEecceeeecccC--ceeEEEEecCCce--EEEEEeccccchhhHHHHHhc
Confidence 6666777777542111 1 1122 22499999999999999 8999999999986 9999998741 14567
Q ss_pred CCCCcEEEEEeEEeCCCCCCcccEEEEEeEEEEeecCCCCCCCCCCcCc---chhhhccCcCccC-CchHHHHHHHHHHH
Q 018229 96 VPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVDPAKYPIPKTKL---TLEFLRDRIPFRP-RTNTIAAVARIRNA 171 (359)
Q Consensus 96 L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~~---~~e~lr~~r~L~l-R~~~~~ai~riRS~ 171 (359)
+..||+|.|+|.+.+++ +|++.|+|+++.+|++|. .|+| .|.+ +.|.+.++||||+ -++..+.+|..||+
T Consensus 112 ~dlGDiigv~G~~~~T~---~GelSv~v~~~~lLsKsL-~pLP--eK~hgL~D~E~RyR~RylDLi~N~e~r~~f~~Rs~ 185 (502)
T COG1190 112 LDLGDIIGVEGPLFKTK---TGELSVSVEELRLLSKSL-RPLP--EKFHGLTDKEIRYRQRYLDLIVNPESRQTFIKRSK 185 (502)
T ss_pred cccCCEEeeeeeeeecC---CCceEEEEEEEeeecccC-CCCC--hhhcCCccHHHHHHHHHHHHhcCHHHHHHHHHHHH
Confidence 89999999999999997 799999999999999998 5555 6665 4488889999998 57789999999999
Q ss_pred HHHHHHHHHHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhc
Q 018229 172 LAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKS 251 (359)
Q Consensus 172 I~~~iR~fL~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 251 (359)
|+++||+||+++||+||+||+|....+|.++.+|.+.
T Consensus 186 ii~~iR~fl~~~gFlEVETP~lq~i~GGA~ArPF~Th------------------------------------------- 222 (502)
T COG1190 186 IIRAIREFLDDRGFLEVETPMLQPIPGGAAARPFITH------------------------------------------- 222 (502)
T ss_pred HHHHHHHHHHHCCCeEeccccccccCCCcccccceee-------------------------------------------
Confidence 9999999999999999999999999877778999542
Q ss_pred ccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHH-HccccceEEEece
Q 018229 252 DKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNVYTFGPT 330 (359)
Q Consensus 252 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~Vy~~~p~ 330 (359)
.+.++.+.||.++|+|||+.+ ++||+|||+||++
T Consensus 223 ---------------------------------------------hNald~dlyLRIApELyLKRliVGG~erVfEIgr~ 257 (502)
T COG1190 223 ---------------------------------------------HNALDMDLYLRIAPELYLKRLIVGGFERVFEIGRN 257 (502)
T ss_pred ---------------------------------------------ecccCCceEEeeccHHHHHHHHhcCchhheeeccc
Confidence 134677889999999999965 7889999999999
Q ss_pred eecCCCCCCCccccccccceeecccCCC
Q 018229 331 FRAEHSHTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 331 fRaE~~~t~rHl~EF~mle~E~af~~l~ 358 (359)
||||..+ .||++||||||.|+||+|++
T Consensus 258 FRNEGid-~tHNPEFTmlE~Y~AYaDy~ 284 (502)
T COG1190 258 FRNEGID-TTHNPEFTMLEFYQAYADYE 284 (502)
T ss_pred cccCCCc-cccCcchhhHHHHHHHhHHH
Confidence 9999997 59999999999999999874
No 29
>KOG2411 consensus Aspartyl-tRNA synthetase, mitochondrial [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=1.3e-39 Score=326.06 Aligned_cols=226 Identities=24% Similarity=0.345 Sum_probs=193.1
Q ss_pred CCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhh----hccCCCCCcEEEEEeEEeCCCC
Q 018229 38 RPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD----LGQLVPTGTCVYVEGMLKNPPE 113 (359)
Q Consensus 38 ~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~----~~~~L~~esvV~V~G~v~~s~~ 113 (359)
|+++....+|+.|.|+||+.-.|.+| .+.|..|||.+|. +|+.++.+... ....++.||+|.|+|+|+.++.
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 66666788999999999999999998 8999999999997 99888876531 2345899999999999998752
Q ss_pred C------CcccEEEEEeEEEEeecCCCCCCCCCCcC-------cchhhhccCcCccCCchHHHHHHHHHHHHHHHHHHHH
Q 018229 114 G------TKQKIELRVQKVVDVGMVDPAKYPIPKTK-------LTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFL 180 (359)
Q Consensus 114 ~------~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~-------~~~e~lr~~r~L~lR~~~~~ai~riRS~I~~~iR~fL 180 (359)
. .+|.+|+.++++++++++. ..+|+...+ .+..+++.+|||+||++.++..+|+||.+++.+|+||
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 5799999999999999997 677765332 2345677899999999999999999999999999999
Q ss_pred Hh-CCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhHHHhhhcccchhhhh
Q 018229 181 QK-QGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAI 259 (359)
Q Consensus 181 ~~-~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 259 (359)
.+ .||+||+||+|...++|||+| |.|++..
T Consensus 193 ~n~~GFvevETPtLFkrTPgGA~E-FvVPtr~------------------------------------------------ 223 (628)
T KOG2411|consen 193 NNRHGFVEVETPTLFKRTPGGARE-FVVPTRT------------------------------------------------ 223 (628)
T ss_pred hhhcCeeeccCcchhccCCCccce-eecccCC------------------------------------------------
Confidence 76 579999999999999999999 9886521
Q ss_pred hhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHH-HHccccceEEEeceeecCCCCC
Q 018229 260 SASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVET-YACAVSNVYTFGPTFRAEHSHT 338 (359)
Q Consensus 260 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~-~~~~~~~Vy~~~p~fRaE~~~t 338 (359)
..| .|| -|.||||.|+|+ |++|++|+|+|+.|||.|.+..
T Consensus 224 -----------------------------~~g------~FY----aLpQSPQQfKQlLMvsGidrYyQiARCfRDEdlR~ 264 (628)
T KOG2411|consen 224 -----------------------------PRG------KFY----ALPQSPQQFKQLLMVSGIDRYYQIARCFRDEDLRA 264 (628)
T ss_pred -----------------------------CCC------cee----ecCCCHHHHHHHHHHhchhhHHhHHhhhcccccCc
Confidence 001 244 499999999998 5889999999999999999999
Q ss_pred CCccccccccceeecccCC
Q 018229 339 SRHLAEFWMVEPEMAFSDL 357 (359)
Q Consensus 339 ~rHl~EF~mle~E~af~~l 357 (359)
.|. +|||++|+||+|++.
T Consensus 265 DRQ-PEFTQvD~EMsF~~~ 282 (628)
T KOG2411|consen 265 DRQ-PEFTQVDMEMSFTDQ 282 (628)
T ss_pred ccC-CcceeeeeEEeccCH
Confidence 998 999999999999974
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=1.4e-36 Score=298.01 Aligned_cols=128 Identities=40% Similarity=0.639 Sum_probs=113.0
Q ss_pred hhhhccCcCccCCchHHHHHHHHHHHHHHHHHHHHHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCC
Q 018229 146 LEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNP 225 (359)
Q Consensus 146 ~e~lr~~r~L~lR~~~~~ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~ 225 (359)
.|+++++|||++|++.++++|++||.|++++|+||.++||+||+||+|+++++||++++|.|.+
T Consensus 2 ~e~~~~~r~l~~r~~~~~~~~~~rs~i~~~ir~ff~~~~f~Ev~tP~l~~~~~~~~~~~F~v~~---------------- 65 (335)
T PF00152_consen 2 EETRLDNRHLDLRTPAMSSILRIRSAILQAIREFFDKRGFIEVDTPILTSSTCEGGAEPFSVDS---------------- 65 (335)
T ss_dssp HHHHHHTHHHHTTSHHHHHHHHHHHHHHHHHHHHHHHTT-EEE---SEESSSSSSSSCSEEEEE----------------
T ss_pred hhhhhhccceeccCcHHHHHHHHHHHHHHHHHHHHHhCCceEEcCceeeccccCcccccccccc----------------
Confidence 5789999999999999999999999999999999999999999999999999999999999852
Q ss_pred CCChhhHHHHHHHHHHhhhHHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCcccc
Q 018229 226 PPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAF 305 (359)
Q Consensus 226 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~ 305 (359)
...+||++++|
T Consensus 66 ---------------------------------------------------------------------~~~~~~~~~~~ 76 (335)
T PF00152_consen 66 ---------------------------------------------------------------------EPGKYFGEPAY 76 (335)
T ss_dssp ---------------------------------------------------------------------STTEETTEEEE
T ss_pred ---------------------------------------------------------------------chhhhccccee
Confidence 12368999999
Q ss_pred ccccHHHHHHHHHc-cccceEEEeceeecCCCCCCCccccccccceeecccCCC
Q 018229 306 LTVSGQLQVETYAC-AVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 306 L~~S~ql~~e~~~~-~~~~Vy~~~p~fRaE~~~t~rHl~EF~mle~E~af~~l~ 358 (359)
|++|||||+|++++ |++|||+||||||+|+++|.|||+||||||+||+|+|++
T Consensus 77 L~~Spql~~k~ll~~g~~~vf~i~~~FR~E~~~~~rHl~EFtmLE~e~a~~~~~ 130 (335)
T PF00152_consen 77 LTQSPQLYLKRLLAAGLERVFEIGPCFRNEESRTRRHLPEFTMLEWEMAFADYD 130 (335)
T ss_dssp E-SSSHHHHHHHHHTTHSEEEEEEEEE-BSSSCBTTBSSEEEEEEEEEETSSHH
T ss_pred cCcChHHHHhhhccccchhhhheecceeccCcccccchhhhhhhhhccccCcHH
Confidence 99999999998754 599999999999999999999999999999999999863
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=1.3e-35 Score=290.84 Aligned_cols=125 Identities=46% Similarity=0.740 Sum_probs=118.4
Q ss_pred cchhhhccCcCccCCchHHHHHHHHHHHHHHHHHHHHHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcC
Q 018229 144 LTLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIK 223 (359)
Q Consensus 144 ~~~e~lr~~r~L~lR~~~~~ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~ 223 (359)
+++|+++++||||+|++..++++++||.|.+++|+||.++||+||+||+|+.+++||++++|.+
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 4678999999999999999999999999999999999999999999999999999999988853
Q ss_pred CCCCChhhHHHHHHHHHHhhhHHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCcc
Q 018229 224 NPPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQ 303 (359)
Q Consensus 224 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~ 303 (359)
+||+++
T Consensus 66 --------------------------------------------------------------------------~~~~~~ 71 (322)
T cd00776 66 --------------------------------------------------------------------------SYFGKP 71 (322)
T ss_pred --------------------------------------------------------------------------ccCCCc
Confidence 589999
Q ss_pred ccccccHHHHHHHHHccccceEEEeceeecCCCCCCCccccccccceeeccc-CCC
Q 018229 304 AFLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFS-DLK 358 (359)
Q Consensus 304 ~~L~~S~ql~~e~~~~~~~~Vy~~~p~fRaE~~~t~rHl~EF~mle~E~af~-~l~ 358 (359)
+||++|||||||++++|++|||+||||||||+++|+|||+||||||+||+|+ |++
T Consensus 72 ~yL~~Spql~lk~l~~~~~~vf~i~~~FR~E~~~~~rHl~EFtmlE~e~~~~~~~~ 127 (322)
T cd00776 72 AYLAQSPQLYKEMLIAALERVYEIGPVFRAEKSNTRRHLSEFWMLEAEMAFIEDYN 127 (322)
T ss_pred ceecCCHHHHHHHHHHhhhhhEEeccccccCCCCcCCCcceeeccceeeeccCCHH
Confidence 9999999999999988899999999999999999999999999999999999 653
No 32
>PRK06462 asparagine synthetase A; Reviewed
Probab=100.00 E-value=3.2e-34 Score=282.61 Aligned_cols=131 Identities=22% Similarity=0.265 Sum_probs=115.1
Q ss_pred chhhhccCcCccCCchHHHHHHHHHHHHHHHHHHHHHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCC
Q 018229 145 TLEFLRDRIPFRPRTNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKN 224 (359)
Q Consensus 145 ~~e~lr~~r~L~lR~~~~~ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~ 224 (359)
+.++++++|+|++|++..+++|++||.|++++|+||.++||+||+||+|+.++++|.+.--
T Consensus 9 ~~~~~~~~r~~~lr~~~~~~il~~Rs~i~~~iR~ff~~~~f~EV~TP~l~~~~~~~~~~g~------------------- 69 (335)
T PRK06462 9 EYEEFLRMSWKHISSEKYRKVLKVQSSILRYTREFLDGRGFVEVLPPIISPSTDPLMGLGS------------------- 69 (335)
T ss_pred chhhhhhhHHHHhcCHHHHHHHHHHHHHHHHHHHHHHHCCCEEEeCCeEecCCCCCCCccc-------------------
Confidence 5678889999999999999999999999999999999999999999999999887653200
Q ss_pred CCCChhhHHHHHHHHHHhhhHHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccc
Q 018229 225 PPPSEADIEAAKLVIKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQA 304 (359)
Q Consensus 225 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~ 304 (359)
..+...+..+||++++
T Consensus 70 ----------------------------------------------------------------~~~~~~~~~~~~~~~~ 85 (335)
T PRK06462 70 ----------------------------------------------------------------DLPVKQISIDFYGVEY 85 (335)
T ss_pred ----------------------------------------------------------------cCCccccccccCCCce
Confidence 0011123457899999
Q ss_pred cccccHHHHHHHHHccccceEEEeceeecCCCCC--CCccccccccceeecccCCC
Q 018229 305 FLTVSGQLQVETYACAVSNVYTFGPTFRAEHSHT--SRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 305 ~L~~S~ql~~e~~~~~~~~Vy~~~p~fRaE~~~t--~rHl~EF~mle~E~af~~l~ 358 (359)
||++|||||||++++|++|||+||||||||++++ +|||+||||||+||+|+|++
T Consensus 86 yL~~Spql~k~ll~~g~~rVfeI~p~FR~E~~~~~~~rHl~EFtmlE~e~~~~d~~ 141 (335)
T PRK06462 86 YLADSMILHKQLALRMLGKIFYLSPNFRLEPVDKDTGRHLYEFTQLDIEIEGADLD 141 (335)
T ss_pred eeccCHHHHHHHHHhhcCcEEEEeccccCCCCCCCCCCCCCchheeeehhhcCCHH
Confidence 9999999999999999999999999999999998 79999999999999998864
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=99.96 E-value=1.6e-30 Score=255.74 Aligned_cols=111 Identities=23% Similarity=0.385 Sum_probs=100.0
Q ss_pred chHHHHHHHHHHHHHHHHHHHHHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHH
Q 018229 159 TNTIAAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLV 238 (359)
Q Consensus 159 ~~~~~ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 238 (359)
++.++++|++||.|++++|+||.++||+||+||+|+++.++|++++|.+.
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 46789999999999999999999999999999999988777777888652
Q ss_pred HHHhhhHHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHH-
Q 018229 239 IKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY- 317 (359)
Q Consensus 239 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~- 317 (359)
.+||++++||++|||||+|++
T Consensus 51 ----------------------------------------------------------~~~~~~~~yL~~Spql~~k~ll 72 (329)
T cd00775 51 ----------------------------------------------------------HNALDMDLYLRIAPELYLKRLI 72 (329)
T ss_pred ----------------------------------------------------------cCCCCcceeeccCHHHHHHHHH
Confidence 147899999999999999976
Q ss_pred HccccceEEEeceeecCCCCCCCccccccccceeecccCCC
Q 018229 318 ACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 318 ~~~~~~Vy~~~p~fRaE~~~t~rHl~EF~mle~E~af~~l~ 358 (359)
++|++|||+||||||||+++ +|||+||||||+||+|++++
T Consensus 73 ~~g~~~vf~i~~~FR~E~~~-~rHl~EFt~le~e~~~~~~~ 112 (329)
T cd00775 73 VGGFERVYEIGRNFRNEGID-LTHNPEFTMIEFYEAYADYN 112 (329)
T ss_pred hcCCCcEEEEeccccCCCCC-CCCCCceEEEEEeeecCCHH
Confidence 57899999999999999995 79999999999999998763
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=99.95 E-value=3.4e-29 Score=243.96 Aligned_cols=107 Identities=22% Similarity=0.292 Sum_probs=94.5
Q ss_pred HHHHHHHHHHHHHHHHhCCcEEEccCeeecC-CCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhh
Q 018229 166 ARIRNALAYATHTFLQKQGFLYIHTPIITTS-DCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGE 244 (359)
Q Consensus 166 ~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~-~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 244 (359)
+++||.|++++|+||.++||+||+||+|+.+ .+||++++|.+..
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 4799999999999999999999999999998 5788899997631
Q ss_pred HHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHH-HHccccc
Q 018229 245 AVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVET-YACAVSN 323 (359)
Q Consensus 245 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~-~~~~~~~ 323 (359)
+..+++++++||++|||||+|+ +++|++|
T Consensus 46 --------------------------------------------------~~~~~~~~~~yL~~Spql~lk~ll~~g~~r 75 (304)
T TIGR00462 46 --------------------------------------------------LGPDGEGRPLYLQTSPEYAMKRLLAAGSGP 75 (304)
T ss_pred --------------------------------------------------cCCCCCCcceeeecCHHHHHHHHHhccCCC
Confidence 0113577899999999999995 6788999
Q ss_pred eEEEeceeecCCCCCCCccccccccceeecccCCC
Q 018229 324 VYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 324 Vy~~~p~fRaE~~~t~rHl~EF~mle~E~af~~l~ 358 (359)
||+||||||||+++ +|||+||||||+|++|+|++
T Consensus 76 Vfeigp~FRaE~~~-~rHl~EFtmLE~e~~~~d~~ 109 (304)
T TIGR00462 76 IFQICKVFRNGERG-RRHNPEFTMLEWYRPGFDYH 109 (304)
T ss_pred EEEEcCceeCCCCC-CCcccHHHhHHHHHHcCCHH
Confidence 99999999999995 89999999999999999864
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=99.94 E-value=5.8e-27 Score=224.80 Aligned_cols=104 Identities=27% Similarity=0.472 Sum_probs=93.5
Q ss_pred HHHHHHHHHHHHHHHHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhH
Q 018229 166 ARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEA 245 (359)
Q Consensus 166 ~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 245 (359)
|++||.|++.+|+||.++||+||+||+|+.+.+||++++|.|..
T Consensus 1 ~~~rs~i~~~ir~~f~~~gf~ev~tP~l~~~~~~~~~~~f~~~~------------------------------------ 44 (269)
T cd00669 1 FKVRSKIIKAIRDFMDDRGFLEVETPMLQKITGGAGARPFLVKY------------------------------------ 44 (269)
T ss_pred CcHHHHHHHHHHHHHHHCCCEEEECCEEeccCCccccceEEeee------------------------------------
Confidence 57999999999999999999999999999999998889887631
Q ss_pred HHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHH-Hccccce
Q 018229 246 VAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNV 324 (359)
Q Consensus 246 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~V 324 (359)
.+ +|+++||++|||||+|++ +++++||
T Consensus 45 ---------------------------------------------------~~-~g~~~~L~~Spql~~~~~~~~~~~~v 72 (269)
T cd00669 45 ---------------------------------------------------NA-LGLDYYLRISPQLFKKRLMVGGLDRV 72 (269)
T ss_pred ---------------------------------------------------cC-CCCcEEeecCHHHHHHHHHhcCCCcE
Confidence 01 388999999999999986 5779999
Q ss_pred EEEeceeecCCCCCCCccccccccceeecccCCC
Q 018229 325 YTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 325 y~~~p~fRaE~~~t~rHl~EF~mle~E~af~~l~ 358 (359)
|+|+||||+| +.+.|||+||||+|+||+|.+++
T Consensus 73 f~i~~~fR~e-~~~~~hl~EF~~le~e~~~~~~~ 105 (269)
T cd00669 73 FEINRNFRNE-DLRARHQPEFTMMDLEMAFADYE 105 (269)
T ss_pred EEEecceeCC-CCCCCcccceeEEEEEEecCCHH
Confidence 9999999999 77899999999999999999864
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=99.94 E-value=7.2e-27 Score=225.35 Aligned_cols=104 Identities=32% Similarity=0.443 Sum_probs=89.6
Q ss_pred HHHHHHHHHHHHHHHHhCCcEEEccCeeecCCCCCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHhhhH
Q 018229 166 ARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEKGEA 245 (359)
Q Consensus 166 ~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~~EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 245 (359)
|++||.|++++|+||.++||+||+||+|+.+++||+++ |.+..
T Consensus 1 l~~Rs~i~~~iR~f~~~~gfiEV~TP~L~~~~~~g~~~-f~~~~------------------------------------ 43 (280)
T cd00777 1 LRLRSRVIKAIRNFLDEQGFVEIETPILTKSTPEGARD-FLVPS------------------------------------ 43 (280)
T ss_pred CchHHHHHHHHHHHHHHCCCEEEeCCeeecCCCCCCCC-ceecc------------------------------------
Confidence 57999999999999999999999999999999999876 76531
Q ss_pred HHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHHH-Hccccce
Q 018229 246 VAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVETY-ACAVSNV 324 (359)
Q Consensus 246 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~~-~~~~~~V 324 (359)
..+.+...||++|||||||++ ++|++||
T Consensus 44 ---------------------------------------------------~~~~~~~~~L~~Spql~lk~ll~~g~~~v 72 (280)
T cd00777 44 ---------------------------------------------------RLHPGKFYALPQSPQLFKQLLMVSGFDRY 72 (280)
T ss_pred ---------------------------------------------------ccCCCceeecccCHHHHHHHHHhcCcCcE
Confidence 001233456999999999975 5789999
Q ss_pred EEEeceeecCCCCCCCccccccccceeecccCCC
Q 018229 325 YTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 325 y~~~p~fRaE~~~t~rHl~EF~mle~E~af~~l~ 358 (359)
|+|+||||+|++++.||+ ||||+|+|++|+|++
T Consensus 73 ~~i~~~fR~e~~~~~r~~-Ef~~~e~e~~~~~~~ 105 (280)
T cd00777 73 FQIARCFRDEDLRADRQP-EFTQIDIEMSFVDQE 105 (280)
T ss_pred EEeccceeCCCCCCCccc-eeEEeEeeeccCCHH
Confidence 999999999999998886 999999999999864
No 37
>PRK09350 poxB regulator PoxA; Provisional
Probab=99.92 E-value=2.5e-25 Score=216.96 Aligned_cols=105 Identities=20% Similarity=0.307 Sum_probs=90.5
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEccCeeecCCCCCC-CCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHH
Q 018229 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTSDCEGA-GEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKE 241 (359)
Q Consensus 163 ~ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~~EGa-~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 241 (359)
..+|++|+.|++.+|+||.++||+||+||+|+..+.+|+ ..+|.+
T Consensus 2 ~~~l~~r~~i~~~ir~~f~~~gf~EV~TP~l~~~~~~~~~~~~f~~---------------------------------- 47 (306)
T PRK09350 2 IPNLLKRAKIIAEIRRFFADRGVLEVETPILSQATVTDIHLVPFET---------------------------------- 47 (306)
T ss_pred hHHHHHHHHHHHHHHHHHHHCCCEEEECCeEecccCCCccCCceee----------------------------------
Confidence 478999999999999999999999999999987664443 222322
Q ss_pred hhhHHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCcccccccc------CccccccccHHHHHH
Q 018229 242 KGEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFF------ARQAFLTVSGQLQVE 315 (359)
Q Consensus 242 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f------~~~~~L~~S~ql~~e 315 (359)
+|| ++.+||++|||+|++
T Consensus 48 --------------------------------------------------------~y~~~~~~~~~~~~L~~SPe~~~k 71 (306)
T PRK09350 48 --------------------------------------------------------RFVGPGASQGKTLWLMTSPEYHMK 71 (306)
T ss_pred --------------------------------------------------------eeccccccCCcceEEecCHHHHHH
Confidence 234 789999999999999
Q ss_pred H-HHccccceEEEeceeecCCCCCCCccccccccceeecccCCC
Q 018229 316 T-YACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 316 ~-~~~~~~~Vy~~~p~fRaE~~~t~rHl~EF~mle~E~af~~l~ 358 (359)
. ++++++|||+||||||||++ |.||++||||||+|++|+|++
T Consensus 72 r~la~~~~rvf~i~~~FR~e~~-~~~H~~EFt~lE~y~~~~d~~ 114 (306)
T PRK09350 72 RLLAAGSGPIFQICKSFRNEEA-GRYHNPEFTMLEWYRPHYDMY 114 (306)
T ss_pred HHhhccccceEEecceeecCCC-CCCCCcHHHhhhhhhhCCCHH
Confidence 5 67789999999999999999 899999999999999999863
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=99.87 E-value=5.9e-22 Score=171.18 Aligned_cols=113 Identities=21% Similarity=0.400 Sum_probs=95.0
Q ss_pred CCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh---hhccCCCCCcEEEEEeEEeCCCCC-----
Q 018229 43 AGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA---DLGQLVPTGTCVYVEGMLKNPPEG----- 114 (359)
Q Consensus 43 ~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~---~~~~~L~~esvV~V~G~v~~s~~~----- 114 (359)
..+.|+.|+|+|||+++|.+| +++|++|||++|. +|+|+..+.. .+.+.|+.||+|.|+|++..++.+
T Consensus 10 ~~~~g~~V~i~Gwv~~~R~~g--k~~Fi~LrD~~g~--~Q~v~~~~~~~~~~~~~~l~~gs~V~V~G~~~~~~~~~~~~~ 85 (135)
T cd04317 10 ESHVGQEVTLCGWVQRRRDHG--GLIFIDLRDRYGI--VQVVFDPEEAPEFELAEKLRNESVIQVTGKVRARPEGTVNPK 85 (135)
T ss_pred hhHCCCEEEEEEeEehhcccC--CEEEEEEecCCee--EEEEEeCCchhHHHHHhCCCCccEEEEEEEEECCCccccCCC
Confidence 466799999999999999999 8999999999986 9999986532 245679999999999999986521
Q ss_pred -CcccEEEEEeEEEEeecCCCCCCCCCCcC---cchhhhccCcCccCCchH
Q 018229 115 -TKQKIELRVQKVVDVGMVDPAKYPIPKTK---LTLEFLRDRIPFRPRTNT 161 (359)
Q Consensus 115 -~~g~lEL~a~~i~vLs~a~~~~~Pi~~k~---~~~e~lr~~r~L~lR~~~ 161 (359)
..|++||++++|++|+++. ++|+..++ .+.+++.++|||+||++.
T Consensus 86 ~~~~~~El~~~~i~vl~~~~--~lP~~~~~~~~~~~~~r~~~R~LdLR~~~ 134 (135)
T cd04317 86 LPTGEIEVVASELEVLNKAK--TLPFEIDDDVNVSEELRLKYRYLDLRRPK 134 (135)
T ss_pred CCCCcEEEEEeEEEEEECCC--CCCCccccccCCCHHHhhhcceeecCCCC
Confidence 3578999999999999993 68876654 367899999999999864
No 39
>cd04322 LysRS_N LysRS_N: N-terminal, anticodon recognition domain of lysyl-tRNA synthetases (LysRS). These enzymes are homodimeric class 2b aminoacyl-tRNA synthetases (aaRSs). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Included in this group are E. coli LysS and LysU. These two isoforms of LysRS are encoded by distinct genes which are differently regulated. Eukaryotes contain 2 sets of aaRSs, both of which encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein
Probab=99.83 E-value=4.7e-20 Score=153.70 Aligned_cols=101 Identities=20% Similarity=0.242 Sum_probs=84.1
Q ss_pred EEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCCh---hh---hccCCCCCcEEEEEeEEeCCCCCCcccEEEE
Q 018229 49 QVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV---AD---LGQLVPTGTCVYVEGMLKNPPEGTKQKIELR 122 (359)
Q Consensus 49 ~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~---~~---~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~ 122 (359)
+|+|+|||+++|.+| +++|++|||+++. +|||++.+. .. +.+.|+.||+|.|+|++.+++ .|++||+
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 8999999999965 999998653 12 334499999999999999987 4889999
Q ss_pred EeEEEEeecCCCCCCCCCCcC-cchhhhccCcCccC
Q 018229 123 VQKVVDVGMVDPAKYPIPKTK-LTLEFLRDRIPFRP 157 (359)
Q Consensus 123 a~~i~vLs~a~~~~~Pi~~k~-~~~e~lr~~r~L~l 157 (359)
+++++++|+|. .++|+.... .+.|+++++|||++
T Consensus 74 ~~~~~ils~~~-~plP~~~~~~~~~~~r~~~R~ldl 108 (108)
T cd04322 74 VKEFTLLSKSL-RPLPEKFHGLTDVETRYRQRYLDL 108 (108)
T ss_pred eCEeEEeeccC-CCCCCCccCcCChhheeecccccC
Confidence 99999999997 566764432 35788999999985
No 40
>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=99.83 E-value=6.4e-20 Score=151.80 Aligned_cols=99 Identities=29% Similarity=0.435 Sum_probs=85.6
Q ss_pred EEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCCh--h--hhccCCCCCcEEEEEeEEeCCCCCCcccEEEEEe
Q 018229 49 QVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV--A--DLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQ 124 (359)
Q Consensus 49 ~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~--~--~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~ 124 (359)
+|+|+|||+++|.+| +++|++|||++|. +|+|+.++. . ...+.|+.||+|.|+|.+..++. ..+++||+++
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--VQAVFSKDLNEEAYREAKKVGIESSVIVEGAVKADPR-APGGAEVHGE 75 (103)
T ss_pred CEEEEEEEEeEEcCC--CeEEEEEecCCee--EEEEEeCCCCHHHHHHHhCCCCCCEEEEEEEEEECCC-CCCCEEEEEE
Confidence 389999999999999 8999999999986 999998651 1 22356899999999999998873 5678999999
Q ss_pred EEEEeecCCCCCCCCCCcCcchhhhccCcCc
Q 018229 125 KVVDVGMVDPAKYPIPKTKLTLEFLRDRIPF 155 (359)
Q Consensus 125 ~i~vLs~a~~~~~Pi~~k~~~~e~lr~~r~L 155 (359)
+++++|++. +||++.+. +.|+++++|||
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 88999999997
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=99.81 E-value=2.3e-19 Score=149.72 Aligned_cols=98 Identities=21% Similarity=0.355 Sum_probs=83.1
Q ss_pred CCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCCh-----hhhccCCCCCcEEEEEeEEeCCCC
Q 018229 39 PDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV-----ADLGQLVPTGTCVYVEGMLKNPPE 113 (359)
Q Consensus 39 ~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~-----~~~~~~L~~esvV~V~G~v~~s~~ 113 (359)
.++...+.|+.|+|+|||+++|.+| +++|++|||++|. +|+|+.++. ..+.+.|+.||+|.|+|.+.+++.
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 999998642 124567999999999999998873
Q ss_pred CCcccEEEEEeEEEEeecCCCCCCCCCCc
Q 018229 114 GTKQKIELRVQKVVDVGMVDPAKYPIPKT 142 (359)
Q Consensus 114 ~~~g~lEL~a~~i~vLs~a~~~~~Pi~~k 142 (359)
..+++||+++++++|+++. .+||++..
T Consensus 80 -~~~~~Ei~~~~i~il~~~~-~~~P~~~~ 106 (108)
T cd04316 80 -APNGVEIIPEEIEVLSEAK-TPLPLDPT 106 (108)
T ss_pred -CCCCEEEEEeEEEEEeCCC-CCCCcCcC
Confidence 4678999999999999997 68998643
No 42
>cd04320 AspRS_cyto_N AspRS_cyto_N: N-terminal, anticodon recognition domain of the type found in Saccharomyces cerevisiae and human cytoplasmic aspartyl-tRNA synthetase (AspRS). This domain is a beta-barrel domain (OB fold) involved in binding the tRNA anticodon stem-loop. The enzymes in this group are homodimeric class2b aminoacyl-tRNA synthetases (aaRSs). aaRSs catalyze the specific attachment of amino acids (AAs) to their cognate tRNAs during protein biosynthesis. This 2-step reaction involves i) the activation of the AA by ATP in the presence of magnesium ions, followed by ii) the transfer of the activated AA to the terminal ribose of tRNA. In the case of the class2b aaRSs, the activated AA is attached to the 3'OH of the terminal ribose. Eukaryotes contain 2 sets of aaRSs, both of which are encoded by the nuclear genome. One set concerns with cytoplasmic protein synthesis, whereas the other exclusively with mitochondrial protein synthesis.
Probab=99.75 E-value=1.1e-17 Score=138.03 Aligned_cols=90 Identities=27% Similarity=0.399 Sum_probs=75.3
Q ss_pred EEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCCh-------hhhccCCCCCcEEEEEeEEeCCCCC----Ccc
Q 018229 49 QVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV-------ADLGQLVPTGTCVYVEGMLKNPPEG----TKQ 117 (359)
Q Consensus 49 ~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~-------~~~~~~L~~esvV~V~G~v~~s~~~----~~g 117 (359)
.|+|+|||+++|.+|+ +++|++|||++|. +|||+..+. ..+.+.|+.||+|.|+|++.+++.. ..+
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 3899999999999997 6999999999986 999998652 1234679999999999999987531 238
Q ss_pred cEEEEEeEEEEeecCCCCCCCCCCc
Q 018229 118 KIELRVQKVVDVGMVDPAKYPIPKT 142 (359)
Q Consensus 118 ~lEL~a~~i~vLs~a~~~~~Pi~~k 142 (359)
++||+++++++|+++. .++|++..
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 43
>COG2269 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=99.70 E-value=1.1e-17 Score=160.02 Aligned_cols=110 Identities=22% Similarity=0.271 Sum_probs=88.6
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEccCeeecCCC-CCCCCcceeeccccchhhhhhhhcCCCCCChhhHHHHHHHHHHh
Q 018229 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTSDC-EGAGEMFQVTTLISDADKLEKELIKNPPPSEADIEAAKLVIKEK 242 (359)
Q Consensus 164 ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~~-EGa~e~F~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 242 (359)
..+..|+.|+..||.||.++||+||+||.|..+.. |---..|.+.-+-+ .
T Consensus 14 ~~ll~Ra~i~~~iR~FF~erg~lEVeTp~Ls~a~vtd~hL~~F~Te~~~~-------------~---------------- 64 (322)
T COG2269 14 DNLLKRAAIIAAIRRFFAERGVLEVETPALSVAPVTDIHLHPFETEFLGP-------------G---------------- 64 (322)
T ss_pred HHHHHHHHHHHHHHHHHHHcCceEecchHhhcCCCCccceeeeeeEEecc-------------C----------------
Confidence 34889999999999999999999999999987653 43345555432100 0
Q ss_pred hhHHHhhhcccchhhhhhhhHHHHHHHHHHHHHHHhhhccCCCCCCCCCCccccccccCccccccccHHHHHHH-HHccc
Q 018229 243 GEAVAKLKSDKAGREAISASVTELTKAKENLAKLEERSKLKPGIPQKDGKIDYTQDFFARQAFLTVSGQLQVET-YACAV 321 (359)
Q Consensus 243 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~~~~~~~f~~~~~L~~S~ql~~e~-~~~~~ 321 (359)
+ . =+++.||..||++|++- ++.|-
T Consensus 65 ------------------------------------------------~-----~--~~~~l~L~TSPEy~mKrLLAag~ 89 (322)
T COG2269 65 ------------------------------------------------G-----A--KGKPLWLHTSPEYHMKRLLAAGS 89 (322)
T ss_pred ------------------------------------------------c-----c--ccceeeeecCcHHHHHHHHHccC
Confidence 0 0 15789999999999995 57889
Q ss_pred cceEEEeceeecCCCCCCCccccccccceeecccCCC
Q 018229 322 SNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDLK 358 (359)
Q Consensus 322 ~~Vy~~~p~fRaE~~~t~rHl~EF~mle~E~af~~l~ 358 (359)
+++|+||.||||+. ...+|.+||+|||+|.++.|+.
T Consensus 90 ~~ifql~kvfRN~E-~G~~H~PEFTMLEWYrv~~d~~ 125 (322)
T COG2269 90 GPIFQLGKVFRNEE-MGRLHNPEFTMLEWYRVGCDYY 125 (322)
T ss_pred CcchhhhHHHhccc-ccccCCCceeEeeeeccCCcHH
Confidence 99999999999998 4689999999999999998863
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=99.69 E-value=2.5e-16 Score=124.83 Aligned_cols=79 Identities=42% Similarity=0.735 Sum_probs=69.2
Q ss_pred EEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh--hhccCCCCCcEEEEEeEEeCCCCCCcccEEEEEeEE
Q 018229 49 QVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA--DLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKV 126 (359)
Q Consensus 49 ~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~--~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i 126 (359)
.|+|+|||+++|.+| +++|++|||+++...+|||++++.. ++.+.|+.||+|.|+|.+..++. +.|++||+++++
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--KISFIELNDGSCLKNLQVVVDKELTNFKEILKLSTGSSIRVEGVLVKSPG-AKQPFELQAEKI 77 (82)
T ss_pred CEEEEEeEEEEEcCC--cEEEEEEECCCCccCEEEEEeCcccCHHHHhcCCCceEEEEEEEEEeCCC-CCCCEEEEEEEE
Confidence 389999999999999 8999999999987779999987643 34567999999999999999873 468999999999
Q ss_pred EEee
Q 018229 127 VDVG 130 (359)
Q Consensus 127 ~vLs 130 (359)
++++
T Consensus 78 ~il~ 81 (82)
T cd04318 78 EVLG 81 (82)
T ss_pred EEec
Confidence 9986
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=99.66 E-value=6.1e-16 Score=123.40 Aligned_cols=78 Identities=29% Similarity=0.427 Sum_probs=67.7
Q ss_pred EEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh---hhccCCCCCcEEEEEeEEeCCCCCC---cccEEEE
Q 018229 49 QVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA---DLGQLVPTGTCVYVEGMLKNPPEGT---KQKIELR 122 (359)
Q Consensus 49 ~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~---~~~~~L~~esvV~V~G~v~~s~~~~---~g~lEL~ 122 (359)
.|+|+|||+++|.+| +++|++|||++|. +|+++..+.. .+.+.|+.||+|.|+|++.+++. . .+++||+
T Consensus 1 ~V~v~Gwv~~~R~~g--~~~Fi~LrD~~~~--iQ~v~~~~~~~~~~~~~~l~~es~V~V~G~v~~~~~-~~~~~~~~Ei~ 75 (84)
T cd04323 1 RVKVFGWVHRLRSQK--KLMFLVLRDGTGF--LQCVLSKKLVTEFYDAKSLTQESSVEVTGEVKEDPR-AKQAPGGYELQ 75 (84)
T ss_pred CEEEEEEEEEEecCC--CcEEEEEEcCCeE--EEEEEcCCcchhHHHHhcCCCcCEEEEEEEEEECCc-ccCCCCCEEEE
Confidence 389999999999999 8999999999986 9999976532 34567999999999999999874 4 6889999
Q ss_pred EeEEEEeec
Q 018229 123 VQKVVDVGM 131 (359)
Q Consensus 123 a~~i~vLs~ 131 (359)
++++++|++
T Consensus 76 ~~~i~vl~~ 84 (84)
T cd04323 76 VDYLEIIGE 84 (84)
T ss_pred EEEEEEEcC
Confidence 999999974
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=99.66 E-value=9.4e-16 Score=123.14 Aligned_cols=80 Identities=16% Similarity=0.297 Sum_probs=66.9
Q ss_pred EEEEEEEEeeccc-CCCceeEEEEEecCCCCceEEEEEeCChhhh--ccCCCCCcEEEEEeEEeCCCCC---CcccEEEE
Q 018229 49 QVRVGGWVKTGRE-QGKGSFAFLEVNDGSCPANLQVIVDKDVADL--GQLVPTGTCVYVEGMLKNPPEG---TKQKIELR 122 (359)
Q Consensus 49 ~V~I~GwV~siR~-~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~--~~~L~~esvV~V~G~v~~s~~~---~~g~lEL~ 122 (359)
+|+|+|||+++|. +| +++|++|||++| ..+||+++++...+ .+.|+.||+|.|+|.+..++.. .+|++||+
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 3899999999999 56 899999999998 46999998654322 3569999999999999988731 13899999
Q ss_pred EeEEEEeec
Q 018229 123 VQKVVDVGM 131 (359)
Q Consensus 123 a~~i~vLs~ 131 (359)
++++++|++
T Consensus 78 ~~~i~il~~ 86 (86)
T cd04321 78 VDDIQTLNA 86 (86)
T ss_pred EEEEEEecC
Confidence 999999974
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=99.65 E-value=1.2e-15 Score=121.83 Aligned_cols=79 Identities=30% Similarity=0.581 Sum_probs=68.2
Q ss_pred EEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh----hhccCCCCCcEEEEEeEEeCCCCC--CcccEEEE
Q 018229 49 QVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA----DLGQLVPTGTCVYVEGMLKNPPEG--TKQKIELR 122 (359)
Q Consensus 49 ~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~----~~~~~L~~esvV~V~G~v~~s~~~--~~g~lEL~ 122 (359)
.|+|+|||+++|.+| +++|++|||+++. +|++++.+.. .+.+.|+.||+|.|+|.+..++.+ ..+++||+
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 389999999999999 8999999999975 9999987542 345679999999999999988721 47899999
Q ss_pred EeEEEEeec
Q 018229 123 VQKVVDVGM 131 (359)
Q Consensus 123 a~~i~vLs~ 131 (359)
+++++++++
T Consensus 77 ~~~i~il~~ 85 (85)
T cd04100 77 AEELEVLSK 85 (85)
T ss_pred EeEEEEECC
Confidence 999999974
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=99.08 E-value=7.2e-10 Score=84.61 Aligned_cols=73 Identities=27% Similarity=0.400 Sum_probs=61.3
Q ss_pred EEEEEEEeec-ccCCCceeEEEEEecCCCCceEEEEEeCC-hhhhccCCCCCcEEEEEeEEeCCCCCCcccEEEEEeEEE
Q 018229 50 VRVGGWVKTG-REQGKGSFAFLEVNDGSCPANLQVIVDKD-VADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVV 127 (359)
Q Consensus 50 V~I~GwV~si-R~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~-~~~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i~ 127 (359)
|+|.|||.++ |..+ ++.|+.|+|++|. +|+++..+ ...+.+.|+.|+.|.|+|.+...+ .+++||.+++++
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 346999999998
Q ss_pred Ee
Q 018229 128 DV 129 (359)
Q Consensus 128 vL 129 (359)
+|
T Consensus 74 ~l 75 (75)
T PF01336_consen 74 IL 75 (75)
T ss_dssp EE
T ss_pred EC
Confidence 86
No 49
>PRK09537 pylS pyrolysyl-tRNA synthetase; Reviewed
Probab=98.81 E-value=1.2e-08 Score=103.76 Aligned_cols=48 Identities=25% Similarity=0.324 Sum_probs=41.4
Q ss_pred chhhhccCcCccCCchHHHHHHHH-----HHHHHHHHHHHHHhCCcEEEccCeeecC
Q 018229 145 TLEFLRDRIPFRPRTNTIAAVARI-----RNALAYATHTFLQKQGFLYIHTPIITTS 196 (359)
Q Consensus 145 ~~e~lr~~r~L~lR~~~~~ai~ri-----RS~I~~~iR~fL~~~gF~EV~TPiLt~~ 196 (359)
.+|.++++| |++.+++++.+ .+.+..++|+||...||.||.||+|+..
T Consensus 181 ~~e~~l~~r----r~~~~~~~~~~g~~~~~s~Le~aIR~~f~~~GF~EV~TPtLt~e 233 (417)
T PRK09537 181 ELESELVSR----RKNDLKQMYEEDREDYLGKLERDITKFFVDRGFLEIKSPILIPA 233 (417)
T ss_pred hHHHHHHHh----cchhhHHhhccCCCCHHHHHHHHHHHHHHHCCCEEEECCeeecH
Confidence 345555555 88999999999 9999999999999999999999999743
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=98.55 E-value=7.8e-08 Score=86.35 Aligned_cols=56 Identities=21% Similarity=0.251 Sum_probs=44.2
Q ss_pred CccccccccHHHHHHHHHc-----cccceEEEeceeecCCCCC-CCccccccccceeecccC
Q 018229 301 ARQAFLTVSGQLQVETYAC-----AVSNVYTFGPTFRAEHSHT-SRHLAEFWMVEPEMAFSD 356 (359)
Q Consensus 301 ~~~~~L~~S~ql~~e~~~~-----~~~~Vy~~~p~fRaE~~~t-~rHl~EF~mle~E~af~~ 356 (359)
+...+|..|....+-.++. .--|+|++|+|||.|.... .+|+.||+|+++++...+
T Consensus 50 ~~~~~LR~s~~~~l~~~~~~n~~~~~~~lfeig~vfr~e~~~~~~~~~~ef~~l~~~~~g~~ 111 (211)
T cd00768 50 EEDLYLRPTLEPGLVRLFVSHIRKLPLRLAEIGPAFRNEGGRRGLRRVREFTQLEGEVFGED 111 (211)
T ss_pred CCEEEECCCCcHHHHHHHHhhcccCCEEEEEEcceeecCCCccccccceeEEEcCEEEEcCC
Confidence 4567899999988875443 3459999999999997632 278899999999998653
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=98.33 E-value=1.6e-06 Score=88.63 Aligned_cols=54 Identities=22% Similarity=0.266 Sum_probs=40.6
Q ss_pred Ccccccc--ccHHHHHHHHH--c--c-ccceEEEeceeecCCCCCCCccccccccceeeccc
Q 018229 301 ARQAFLT--VSGQLQVETYA--C--A-VSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFS 355 (359)
Q Consensus 301 ~~~~~L~--~S~ql~~e~~~--~--~-~~~Vy~~~p~fRaE~~~t~rHl~EF~mle~E~af~ 355 (359)
++..+|. ..|+|+.-... . . --|+|+||+|||+|..+ ..|+.||||++.+.+-.
T Consensus 291 ee~lvLRPdLTPsLaR~La~N~~~l~~PqKIFEIGkVFR~E~~~-~thlREF~QL~~eIaG~ 351 (453)
T TIGR02367 291 DKNFCLRPMLAPNLYNYLRKLDRALPDPIKIFEIGPCYRKESDG-KEHLEEFTMLNFCQMGS 351 (453)
T ss_pred cCceEecccCHHHHHHHHHHhhhhccCCeeEEEEcCeEecCCCC-CCCcCeEEEEEEEEECC
Confidence 3456777 78888854322 1 2 24999999999999864 68999999999988744
No 52
>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=97.84 E-value=4.4e-05 Score=72.65 Aligned_cols=32 Identities=19% Similarity=0.407 Sum_probs=28.7
Q ss_pred HHHHHHHHHHHHHHHHhCCcEEEccCeeecCC
Q 018229 166 ARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (359)
Q Consensus 166 ~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~ 197 (359)
.++|..|...+++.|.++||.||.||+|...+
T Consensus 2 ~~~~~~l~~~l~~~f~~~Gy~~v~tP~le~~~ 33 (261)
T cd00773 2 AALRRYIEDTLREVFERYGYEEIDTPVFEYTE 33 (261)
T ss_pred hHHHHHHHHHHHHHHHHcCCEEeeccceeeHH
Confidence 36788999999999999999999999998754
No 53
>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=97.78 E-value=3.1e-05 Score=69.10 Aligned_cols=30 Identities=37% Similarity=0.499 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHH-hCCcEEEccCeeecCC
Q 018229 168 IRNALAYATHTFLQ-KQGFLYIHTPIITTSD 197 (359)
Q Consensus 168 iRS~I~~~iR~fL~-~~gF~EV~TPiLt~~~ 197 (359)
++..|.+.+++.+. +.||.||.||.|.+..
T Consensus 1 l~~~l~~~~~~~~~~~~G~~ev~~P~l~~~~ 31 (173)
T PF00587_consen 1 LRNALERFIREEFVLKFGFQEVDTPILIPSE 31 (173)
T ss_dssp HHHHHHHHHHHHHHHHTTEEEEB--SEEEHH
T ss_pred CHHHHHHHHHHHhHHhcCCEEEECCeEEehH
Confidence 57889999999999 9999999999998754
No 54
>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=97.61 E-value=9.1e-05 Score=70.74 Aligned_cols=32 Identities=19% Similarity=0.210 Sum_probs=28.5
Q ss_pred HHHHHHHHHHHHHHHHHhCCcEEEccCeeecC
Q 018229 165 VARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (359)
Q Consensus 165 i~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~ 196 (359)
-.+++..|.+.+++.|.+.||.||.||+|...
T Consensus 30 g~~l~~~i~~~~~~~~~~~G~~ei~~P~l~~~ 61 (255)
T cd00779 30 GLRVLKKIENIIREEMNKIGAQEILMPILQPA 61 (255)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEEEECCccCCH
Confidence 35789999999999999999999999999763
No 55
>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=97.57 E-value=0.00014 Score=67.27 Aligned_cols=31 Identities=16% Similarity=0.208 Sum_probs=28.1
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEccCeeecCC
Q 018229 167 RIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (359)
Q Consensus 167 riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~ 197 (359)
+++..|...+++.|.+.||.||.||.|....
T Consensus 3 ~~~~~l~~~~~~~~~~~G~~ei~~P~l~~~~ 33 (235)
T cd00670 3 ALWRALERFLDDRMAEYGYQEILFPFLAPTV 33 (235)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEECCeEcCHH
Confidence 6788999999999999999999999998654
No 56
>PRK00037 hisS histidyl-tRNA synthetase; Reviewed
Probab=97.47 E-value=0.00033 Score=70.70 Aligned_cols=34 Identities=18% Similarity=0.257 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEccCeeecC
Q 018229 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (359)
Q Consensus 163 ~ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~ 196 (359)
-.-.+.+..+...+|+.|.++||.||.||+|...
T Consensus 15 p~~~~~~~~i~~~i~~~~~~~Gy~ei~tP~le~~ 48 (412)
T PRK00037 15 PEESAKWQYVEDTIREVFERYGFSEIRTPIFEYT 48 (412)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCeEeeccccchH
Confidence 3446788889999999999999999999999653
No 57
>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=97.45 E-value=0.00038 Score=70.01 Aligned_cols=34 Identities=18% Similarity=0.185 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEccCeeecC
Q 018229 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (359)
Q Consensus 163 ~ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~ 196 (359)
-.-.+++..+...+++.|.++||.||.||+|...
T Consensus 11 p~~~~~~~~i~~~i~~~f~~~Gy~~i~~P~le~~ 44 (397)
T TIGR00442 11 PEEMIKWQYIEETIREVFELYGFKEIRTPIFEYT 44 (397)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCeEecCcccchH
Confidence 3446788999999999999999999999999654
No 58
>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=97.41 E-value=0.00017 Score=68.85 Aligned_cols=37 Identities=27% Similarity=0.362 Sum_probs=32.0
Q ss_pred HHHHHHHHHHHHHHHHHhCC--cEEEccCeeecCCCCCCCCccee
Q 018229 165 VARIRNALAYATHTFLQKQG--FLYIHTPIITTSDCEGAGEMFQV 207 (359)
Q Consensus 165 i~riRS~I~~~iR~fL~~~g--F~EV~TPiLt~~~~EGa~e~F~v 207 (359)
-.+++..|...+|+.|...| |.||.||+|... +||.+
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 35789999999999998885 999999999876 68875
No 59
>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=97.33 E-value=0.0029 Score=48.82 Aligned_cols=73 Identities=18% Similarity=0.269 Sum_probs=57.3
Q ss_pred EEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhh-hccCCCCCcEEEEEeEEeCCCCCCcccEEEEEeEEE
Q 018229 50 VRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVV 127 (359)
Q Consensus 50 V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~-~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i~ 127 (359)
++|.|-|.++|..++ +++|+.|.|.++. +.+++..+... +...|..|+.|.|.|.+...+ ..+++.|.++++.
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 679999999987444 5999999999975 99998887532 345689999999999998643 1456888888764
No 60
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=97.29 E-value=0.00082 Score=71.24 Aligned_cols=33 Identities=12% Similarity=0.135 Sum_probs=29.5
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEccCeeecC
Q 018229 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (359)
Q Consensus 164 ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~ 196 (359)
.-++++..|.+.+|+.|.+.||.||.||+|...
T Consensus 45 ~g~~~~~~i~~~i~~~~~~~G~~ei~~P~l~~~ 77 (565)
T PRK09194 45 LGLRVLRKIENIVREEMNKIGAQEVLMPALQPA 77 (565)
T ss_pred cHHHHHHHHHHHHHHHHHHcCCEEEECcccCcH
Confidence 346789999999999999999999999999754
No 61
>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=97.16 E-value=0.0062 Score=49.00 Aligned_cols=75 Identities=24% Similarity=0.191 Sum_probs=57.8
Q ss_pred EEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhh----hccCCCCCcEEEEEeEEeCCCCCCcccEEEEEeE
Q 018229 50 VRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD----LGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQK 125 (359)
Q Consensus 50 V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~----~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~ 125 (359)
|++-|||.++...+ .-.=+.|.|+||. |-+.+...... ....+..|++|.|.|.+..- .|...|.+..
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 78999999999888 3445689999986 99988765431 34568999999999999654 3567788888
Q ss_pred EEEeecC
Q 018229 126 VVDVGMV 132 (359)
Q Consensus 126 i~vLs~a 132 (359)
+..+...
T Consensus 74 i~~v~d~ 80 (95)
T cd04478 74 IRPVTDF 80 (95)
T ss_pred EEEeCCc
Confidence 8766543
No 62
>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=97.15 E-value=0.0012 Score=64.41 Aligned_cols=33 Identities=33% Similarity=0.449 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHHhCCcEEEccCeeecCC
Q 018229 165 VARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (359)
Q Consensus 165 i~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~ 197 (359)
-.+++..|.+.+++.+.+.||.||.||.|....
T Consensus 29 g~~l~~~l~~~~~~~~~~~Gy~ev~tP~l~~~~ 61 (298)
T cd00771 29 GAIIRNELEDFLRELQRKRGYQEVETPIIYNKE 61 (298)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEEEECCeecCHH
Confidence 357889999999999999999999999997653
No 63
>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=97.12 E-value=0.002 Score=68.62 Aligned_cols=33 Identities=12% Similarity=0.196 Sum_probs=29.8
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEccCeeecC
Q 018229 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (359)
Q Consensus 164 ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~ 196 (359)
.-++++.+|.+.+|+.|.+.||.||.||.|...
T Consensus 45 ~g~rv~~~I~~~i~~~~~~~G~~ei~~P~l~~~ 77 (568)
T TIGR00409 45 LGLRVLKKVENIVREEMNKDGAIEVLLPALQPA 77 (568)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCEEEECCccchH
Confidence 346789999999999999999999999999874
No 64
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=97.08 E-value=0.0013 Score=70.41 Aligned_cols=34 Identities=26% Similarity=0.305 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEccCeeecCC
Q 018229 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (359)
Q Consensus 164 ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~ 197 (359)
.-.+++..|.+.+++.|...||.||.||+|....
T Consensus 268 ~~~~~~~~i~~~~~~~~~~~Gy~ei~tP~le~~~ 301 (638)
T PRK00413 268 KGWTIRRELERYIRRKLRKAGYQEVKTPQILDRE 301 (638)
T ss_pred cHHHHHHHHHHHHHHHHHHCCCEEEECCeeCCHH
Confidence 5567899999999999999999999999996543
No 65
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=97.08 E-value=0.0011 Score=70.12 Aligned_cols=34 Identities=29% Similarity=0.320 Sum_probs=30.2
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEccCeeecCC
Q 018229 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (359)
Q Consensus 164 ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~ 197 (359)
.-.+++..|...+++.+.+.||.||.||+|....
T Consensus 204 ~~~~~~~~l~~~~~~~~~~~Gy~ev~tP~le~~~ 237 (575)
T PRK12305 204 KGAIIRREIEDYLRKEHLKRGYEFVYTPHIGKSD 237 (575)
T ss_pred cHHHHHHHHHHHHHHHHHHcCCEEEECCccCCHH
Confidence 4568899999999999999999999999997653
No 66
>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=97.08 E-value=0.0024 Score=61.45 Aligned_cols=32 Identities=9% Similarity=0.174 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHhCCcEEEccCeeecCC
Q 018229 166 ARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (359)
Q Consensus 166 ~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~ 197 (359)
.+++..|...+++.+.+.||.||.||.|....
T Consensus 32 ~~i~~~I~~~i~~~~~~~G~~ev~~P~l~~~~ 63 (264)
T cd00772 32 KAILDKIENVLDKMFKEHGAQNALFPFFILAS 63 (264)
T ss_pred HHHHHHHHHHHHHHHHHcCCeEEECCeeccHH
Confidence 46889999999999999999999999997743
No 67
>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=97.07 E-value=0.0014 Score=64.27 Aligned_cols=33 Identities=15% Similarity=0.206 Sum_probs=29.1
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEccCeeecC
Q 018229 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (359)
Q Consensus 164 ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~ 196 (359)
.-.+++..|...+++.|.++||.||+||+|-..
T Consensus 6 ~~~~~~~~i~~~l~~~~~~~Gy~~i~tP~le~~ 38 (314)
T TIGR00443 6 EEAARKEEIERQLQDVFRSWGYQEIITPTLEYL 38 (314)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCeeccCcchhhH
Confidence 345789999999999999999999999999654
No 68
>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=96.99 E-value=0.0022 Score=59.78 Aligned_cols=50 Identities=20% Similarity=0.327 Sum_probs=35.6
Q ss_pred ccccc--cHHHHHHHHHc--cccceEEEeceeecCCCCCCCccccccccceeeccc
Q 018229 304 AFLTV--SGQLQVETYAC--AVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFS 355 (359)
Q Consensus 304 ~~L~~--S~ql~~e~~~~--~~~~Vy~~~p~fRaE~~~t~rHl~EF~mle~E~af~ 355 (359)
.+|.. .|.|- +.++. .--|+|+||++||.+..+ ..|++||+||+..++..
T Consensus 60 ~~LR~sLlp~LL-~~l~~N~~~~~lFEiG~Vf~~~~~~-~~~~~E~~~l~~~~~g~ 113 (218)
T cd00496 60 LLLRTHTSAVQA-RALAKLKPPIRIFSIGRVYRNDEID-ATHLPEFHQIEGLVVDK 113 (218)
T ss_pred EEEeccCcHHHH-HHHHhcCCCeeEEEEcCeEECCCCC-CCcCCccEEEEEEEECC
Confidence 34543 35553 44443 456999999999998753 47888999999887653
No 69
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=96.98 E-value=0.0024 Score=65.48 Aligned_cols=33 Identities=21% Similarity=0.207 Sum_probs=29.0
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEccCeeecC
Q 018229 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (359)
Q Consensus 164 ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~ 196 (359)
.-...|..+...+++.|...||.||.||+|-..
T Consensus 16 ~~~~~~~~i~~~i~~~~~~~Gy~~I~TP~~E~~ 48 (430)
T CHL00201 16 DEINYWQFIHDKALTLLSLANYSEIRTPIFENS 48 (430)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCeeecCcccchH
Confidence 345678999999999999999999999999764
No 70
>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=96.96 E-value=0.00096 Score=63.95 Aligned_cols=33 Identities=9% Similarity=0.121 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHHHhCCcEEEccCeeecCC
Q 018229 165 VARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (359)
Q Consensus 165 i~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~ 197 (359)
-.+++..|.+.+++.+.+.||.||.||.|...+
T Consensus 31 g~~l~~~l~~~~~~~~~~~G~~ev~~P~l~~~~ 63 (261)
T cd00778 31 GYAIWENIQKILDKEIKETGHENVYFPLLIPES 63 (261)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEEEECCccccHH
Confidence 457899999999999999999999999998754
No 71
>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=96.94 E-value=0.0087 Score=46.90 Aligned_cols=72 Identities=14% Similarity=0.180 Sum_probs=55.8
Q ss_pred EEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh-hhccCCCCCcEEEEEeEEeCCCCCCcccEEEEEeEEEE
Q 018229 50 VRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVD 128 (359)
Q Consensus 50 V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i~v 128 (359)
|+|.|-|.+.+..| +=+|+.|+|+.+ .|.|++-+... .....+..|+-|.|.|.+.. + .|.+.|.++++++
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 57899998765444 458899999875 49998876532 23345789999999999975 3 7889999999987
Q ss_pred e
Q 018229 129 V 129 (359)
Q Consensus 129 L 129 (359)
|
T Consensus 73 ~ 73 (73)
T cd04487 73 L 73 (73)
T ss_pred C
Confidence 5
No 72
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=96.92 E-value=0.0027 Score=65.36 Aligned_cols=31 Identities=23% Similarity=0.349 Sum_probs=27.9
Q ss_pred HHHHHHHHHHHHHHHHHhCCcEEEccCeeec
Q 018229 165 VARIRNALAYATHTFLQKQGFLYIHTPIITT 195 (359)
Q Consensus 165 i~riRS~I~~~iR~fL~~~gF~EV~TPiLt~ 195 (359)
-+..+..|...+|+-+...||.||.||++-.
T Consensus 17 d~~~~~~i~~~~~~v~~~yGf~eI~TPifE~ 47 (429)
T COG0124 17 DMALREYIESTIRKVFESYGFSEIRTPIFEY 47 (429)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEeccCccccc
Confidence 4678899999999999999999999999854
No 73
>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=96.85 E-value=0.012 Score=48.16 Aligned_cols=68 Identities=21% Similarity=0.342 Sum_probs=51.6
Q ss_pred EEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh---------------------hhccCCCCCcEEEEEeEEeC
Q 018229 52 VGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA---------------------DLGQLVPTGTCVYVEGMLKN 110 (359)
Q Consensus 52 I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~---------------------~~~~~L~~esvV~V~G~v~~ 110 (359)
|-|+|.+++... ...-+.|.|++|. |-|++..... .....+..|++|.|.|.+..
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 679999999888 5566789999996 9998876432 22345899999999999975
Q ss_pred CCCCCcccEEEEEeEEE
Q 018229 111 PPEGTKQKIELRVQKVV 127 (359)
Q Consensus 111 s~~~~~g~lEL~a~~i~ 127 (359)
= .+...|.++.+.
T Consensus 78 f----rg~~ql~i~~~~ 90 (92)
T cd04483 78 Y----RGEREINASVVY 90 (92)
T ss_pred c----CCeeEEEEEEEE
Confidence 4 345667776654
No 74
>PF13742 tRNA_anti_2: OB-fold nucleic acid binding domain
Probab=96.82 E-value=0.011 Score=48.75 Aligned_cols=77 Identities=16% Similarity=0.204 Sum_probs=62.3
Q ss_pred CCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhhh-c-cCCCCCcEEEEEeEEeCCCCCCcccEEEEE
Q 018229 46 AGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADL-G-QLVPTGTCVYVEGMLKNPPEGTKQKIELRV 123 (359)
Q Consensus 46 ~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~-~-~~L~~esvV~V~G~v~~s~~~~~g~lEL~a 123 (359)
.-..|+|.|-|.+.+.+++ +-+|++|+|+. ..|+|++....... . ..+..|+-|.|.|.+.--+ ..|.+.|.+
T Consensus 20 ~~~~vwV~GEIs~~~~~~~-gh~YftLkD~~--a~i~~~~~~~~~~~i~~~~l~~G~~V~v~g~~~~y~--~~G~~sl~v 94 (99)
T PF13742_consen 20 PLPNVWVEGEISNLKRHSS-GHVYFTLKDEE--ASISCVIFRSRARRIRGFDLKDGDKVLVRGRVSFYE--PRGSLSLIV 94 (99)
T ss_pred CcCCEEEEEEEeecEECCC-ceEEEEEEcCC--cEEEEEEEHHHHhhCCCCCCCCCCEEEEEEEEEEEC--CCcEEEEEE
Confidence 3478999999999998544 68999999987 46999998865332 2 4689999999999998765 367899999
Q ss_pred eEEE
Q 018229 124 QKVV 127 (359)
Q Consensus 124 ~~i~ 127 (359)
.+|+
T Consensus 95 ~~i~ 98 (99)
T PF13742_consen 95 EDID 98 (99)
T ss_pred EEeE
Confidence 8874
No 75
>PLN02530 histidine-tRNA ligase
Probab=96.81 E-value=0.0039 Score=65.03 Aligned_cols=33 Identities=21% Similarity=0.278 Sum_probs=29.3
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEccCeeec
Q 018229 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITT 195 (359)
Q Consensus 163 ~ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~ 195 (359)
-.-.++|..|...+++.|...||.||.||+|-.
T Consensus 81 p~~~~~~~~i~~~~~~~~~~~Gy~~I~tP~lE~ 113 (487)
T PLN02530 81 PEDMRLRNWLFDHFREVSRLFGFEEVDAPVLES 113 (487)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCEeccccccch
Confidence 344678999999999999999999999999965
No 76
>COG1107 Archaea-specific RecJ-like exonuclease, contains DnaJ-type Zn finger domain [DNA replication, recombination, and repair]
Probab=96.80 E-value=0.0027 Score=66.99 Aligned_cols=98 Identities=15% Similarity=0.214 Sum_probs=73.1
Q ss_pred ccccccccccccceeehhhhcCCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCCh-hhhccC
Q 018229 17 NDDAVQRHQFSDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDV-ADLGQL 95 (359)
Q Consensus 17 ~~~~~~~~~~~~r~~i~di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~-~~~~~~ 95 (359)
.|.-+|..+--.|+.|.+|- +++|++|+|.|-|..++.-+ +-+-+.|+|++|. +++-.-... ..--..
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 45667777777888888875 38999999999999999888 5666789999997 887654322 111235
Q ss_pred CCCCcEEEEEeEEeCCCCCCcccEEEEEeEEEEe
Q 018229 96 VPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDV 129 (359)
Q Consensus 96 L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i~vL 129 (359)
+..|++|.|+|.|..+. |.+-|.+.+++.|
T Consensus 259 IevGdiV~ViG~V~~r~----g~lQiE~~~me~L 288 (715)
T COG1107 259 IEVGDIVEVIGEVTRRD----GRLQIEIEAMEKL 288 (715)
T ss_pred CCCCceEEEEEEEeecC----CcEEEeehhhHHh
Confidence 88999999999998774 4555555556554
No 77
>PRK12292 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=96.77 E-value=0.0035 Score=63.42 Aligned_cols=33 Identities=15% Similarity=0.218 Sum_probs=28.9
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEccCeeec
Q 018229 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITT 195 (359)
Q Consensus 163 ~ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~ 195 (359)
-.-.+.|..+...+++.|..+||.||+||+|-.
T Consensus 14 p~~~~~~~~i~~~l~~~f~~~Gy~~i~tP~lE~ 46 (391)
T PRK12292 14 PEEARKIEEIRRRLLDLFRRWGYEEVITPTLEY 46 (391)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCceeeCcchhh
Confidence 345678899999999999999999999999954
No 78
>TIGR00414 serS seryl-tRNA synthetase. This model represents the seryl-tRNA synthetase found in most organisms. This protein is a class II tRNA synthetase, and is recognized by the pfam model tRNA-synt_2b. The seryl-tRNA synthetases of two archaeal species, Methanococcus jannaschii and Methanobacterium thermoautotrophicum, differ considerably and are included in a different model.
Probab=96.69 E-value=0.0033 Score=64.45 Aligned_cols=34 Identities=24% Similarity=0.378 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEccCeeecCC
Q 018229 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (359)
Q Consensus 164 ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~ 197 (359)
...++..++++.+++.+.+.||.||.||.|....
T Consensus 171 ~g~~l~~aL~~~~~~~~~~~G~~~v~~P~lv~~~ 204 (418)
T TIGR00414 171 DGAKLERALINFMLDLLEKNGYQEIYPPYLVNEE 204 (418)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCEEEeCCccccHH
Confidence 5678899999999999999999999999998764
No 79
>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=96.67 E-value=0.0055 Score=64.63 Aligned_cols=33 Identities=30% Similarity=0.324 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEccCeeecC
Q 018229 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (359)
Q Consensus 164 ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~ 196 (359)
.-.+++..|...+|+.+...||.||.||+|...
T Consensus 198 ~g~~~~~~i~~~~~~~~~~~G~~ev~tP~l~~~ 230 (563)
T TIGR00418 198 KGATIRNLLEDFVRQKQIKYGYMEVETPIMYDL 230 (563)
T ss_pred cHHHHHHHHHHHHHHHHHHcCCEEEECCccCCH
Confidence 446789999999999999999999999999754
No 80
>cd00770 SerRS_core Seryl-tRNA synthetase (SerRS) class II core catalytic domain. SerRS is responsible for the attachment of serine to the 3' OH group of ribose of the appropriate tRNA. This domain It is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. SerRS synthetase is a homodimer.
Probab=96.63 E-value=0.0023 Score=62.53 Aligned_cols=34 Identities=26% Similarity=0.399 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEccCeeecCC
Q 018229 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (359)
Q Consensus 164 ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~ 197 (359)
...+++.+|.+.+++.+.+.||.||.||.|....
T Consensus 50 ~g~~l~~~l~~~~~~~~~~~G~~ev~~P~l~~~~ 83 (297)
T cd00770 50 DGALLERALINFALDFLTKRGFTPVIPPFLVRKE 83 (297)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCEEEECcccccHH
Confidence 4568999999999999999999999999998754
No 81
>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional
Probab=96.63 E-value=0.0099 Score=62.08 Aligned_cols=33 Identities=24% Similarity=0.487 Sum_probs=28.2
Q ss_pred cceEEEeceeecCCCCCCCccccccccceeeccc
Q 018229 322 SNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFS 355 (359)
Q Consensus 322 ~~Vy~~~p~fRaE~~~t~rHl~EF~mle~E~af~ 355 (359)
-|+|+||+|||+|..+ ..|+.||++++.+++-.
T Consensus 351 ~rlFeiGrVFR~e~~d-~~~l~Ef~ql~~~i~G~ 383 (489)
T PRK04172 351 QKYFSIGRVFRPDTID-ATHLPEFYQLEGIVMGE 383 (489)
T ss_pred eEEEEecceEcCCCCC-cccCCchheEEEEEEeC
Confidence 3999999999999875 47889999999987653
No 82
>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=96.60 E-value=0.013 Score=44.68 Aligned_cols=72 Identities=24% Similarity=0.416 Sum_probs=51.9
Q ss_pred EEEEEeecc----cCCCceeEEEEEecCCCCceEEEEEeCChh-hhccCCCCCcEEEEEeEEeCCCCCCcccEEEEEeEE
Q 018229 52 VGGWVKTGR----EQGKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKV 126 (359)
Q Consensus 52 I~GwV~siR----~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i 126 (359)
+.|.|.+++ +.|+ .++|+.|.|++|. +.+++..+.. .+...+..|..|.|.|.+... .+.++|.+.++
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 456665532 2343 5899999999986 9999886542 244568899999999999753 35688888877
Q ss_pred EEee
Q 018229 127 VDVG 130 (359)
Q Consensus 127 ~vLs 130 (359)
..+.
T Consensus 75 ~~~~ 78 (84)
T cd04485 75 EDLE 78 (84)
T ss_pred ccHH
Confidence 5543
No 83
>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=96.55 E-value=0.0079 Score=58.32 Aligned_cols=34 Identities=21% Similarity=0.376 Sum_probs=25.7
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEccCeeecC
Q 018229 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (359)
Q Consensus 163 ~ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~ 196 (359)
-.-.+.+..+...+++.|..+||.+|+||+|...
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 3456788999999999999999999999999654
No 84
>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=96.52 E-value=0.054 Score=41.56 Aligned_cols=64 Identities=17% Similarity=0.296 Sum_probs=49.2
Q ss_pred cCCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCCCCCcccEEEEEeEEEEeec
Q 018229 61 EQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGM 131 (359)
Q Consensus 61 ~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i~vLs~ 131 (359)
+.|+ .++++.|.|++|. +.+++..+.......+..|..|.|.|.+... .+..+|.+.++..+..
T Consensus 15 k~g~-~~~~~~l~D~tg~--i~~~~f~~~~~~~~~l~~g~~v~v~G~v~~~----~~~~~l~~~~i~~l~~ 78 (83)
T cd04492 15 KNGK-PYLALTLQDKTGE--IEAKLWDASEEDEEKFKPGDIVHVKGRVEEY----RGRLQLKIQRIRLVTE 78 (83)
T ss_pred cCCC-cEEEEEEEcCCCe--EEEEEcCCChhhHhhCCCCCEEEEEEEEEEe----CCceeEEEEEEEECCc
Confidence 3454 6999999999986 9999877543334568999999999999653 3568888888876654
No 85
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=96.51 E-value=0.0039 Score=64.95 Aligned_cols=34 Identities=9% Similarity=0.146 Sum_probs=30.0
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEccCeeecCC
Q 018229 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (359)
Q Consensus 164 ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~ 197 (359)
.-++++..|...+++.|.+.||.||.||.|...+
T Consensus 42 ~g~~i~~~i~~~~~~~~~~~G~~ev~~P~l~~~~ 75 (477)
T PRK08661 42 YGYAIWENIQKILDKLFKETGHENVYFPLLIPES 75 (477)
T ss_pred cHHHHHHHHHHHHHHHHHHcCCEEEECCccCCHH
Confidence 3468999999999999999999999999997653
No 86
>PRK12420 histidyl-tRNA synthetase; Provisional
Probab=96.50 E-value=0.0089 Score=61.04 Aligned_cols=34 Identities=18% Similarity=0.277 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEccCeeecC
Q 018229 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (359)
Q Consensus 163 ~ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~ 196 (359)
-.-.+++..|...+++.|..+||.||.||+|-..
T Consensus 15 p~~~~~~~~i~~~l~~~f~~~Gy~~i~tP~lE~~ 48 (423)
T PRK12420 15 PEEQVLRNKIKRALEDVFERYGCKPLETPTLNMY 48 (423)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCEeccccccchH
Confidence 3445778899999999999999999999999654
No 87
>PRK12293 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=96.49 E-value=0.009 Score=58.15 Aligned_cols=33 Identities=21% Similarity=0.386 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEccCeeecC
Q 018229 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (359)
Q Consensus 164 ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~ 196 (359)
.-.+.+..+...+++.|...||-||+||+|-..
T Consensus 17 ~e~~~~~~i~~~l~~vf~~~Gy~~I~tP~lE~~ 49 (281)
T PRK12293 17 KSAKLKREIENVASEILYENGFEEIVTPFFSYH 49 (281)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCeEeeccceeeh
Confidence 445688889999999999999999999999643
No 88
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=96.48 E-value=0.009 Score=61.54 Aligned_cols=32 Identities=13% Similarity=0.173 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHhCCcEEEccCeeecC
Q 018229 165 VARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (359)
Q Consensus 165 i~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~ 196 (359)
-.+++..|...+|+.|.+.||.||.||.|...
T Consensus 46 g~~i~~~i~~~i~~~~~~~G~~ev~~P~l~~~ 77 (439)
T PRK12325 46 GLKVLKKIENIVREEQNRAGAIEILMPTIQPA 77 (439)
T ss_pred HHHHHHHHHHHHHHHHHHcCCEEEECCccccH
Confidence 36889999999999999999999999999864
No 89
>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional
Probab=96.47 E-value=0.013 Score=61.49 Aligned_cols=34 Identities=29% Similarity=0.408 Sum_probs=29.6
Q ss_pred cceEEEeceeecCCCCCCCccccccccceeecccC
Q 018229 322 SNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSD 356 (359)
Q Consensus 322 ~~Vy~~~p~fRaE~~~t~rHl~EF~mle~E~af~~ 356 (359)
-|+|.||.|||+|..+ ..|++||+|+|..+.--+
T Consensus 358 ~k~fsigrVfR~d~~D-atH~~eFhQ~Eg~vi~~~ 391 (494)
T PTZ00326 358 KKYFSIDRVFRNETLD-ATHLAEFHQVEGFVIDRN 391 (494)
T ss_pred ceEEecCCEecCCCCC-CCcCceeEEEEEEEEeCC
Confidence 4999999999999987 689999999998876443
No 90
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=96.45 E-value=0.006 Score=65.56 Aligned_cols=32 Identities=19% Similarity=0.317 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHhCCcEEEccCeeecCC
Q 018229 166 ARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (359)
Q Consensus 166 ~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~ 197 (359)
.+++..|...+++.+.+.||.||.||+|....
T Consensus 274 ~~~~~~i~~~~~~~~~~~G~~~v~tP~l~~~~ 305 (639)
T PRK12444 274 QIIRNELEAFLREIQKEYNYQEVRTPFMMNQE 305 (639)
T ss_pred HHHHHHHHHHHHHHHHHcCCEEEECCccCCHH
Confidence 45677799999999999999999999997753
No 91
>PLN02972 Histidyl-tRNA synthetase
Probab=96.44 E-value=0.0093 Score=65.33 Aligned_cols=34 Identities=15% Similarity=0.236 Sum_probs=30.1
Q ss_pred HHHHHHHHHHHHHHHHHHHHhCCcEEEccCeeec
Q 018229 162 IAAVARIRNALAYATHTFLQKQGFLYIHTPIITT 195 (359)
Q Consensus 162 ~~ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~ 195 (359)
+-.-..+|..|...+++.|..+||.||+||+|-.
T Consensus 337 lP~e~~~re~I~~~L~~vFk~hGy~eI~TPvfE~ 370 (763)
T PLN02972 337 AKEQMAIREKAFSIITSVFKRHGATALDTPVFEL 370 (763)
T ss_pred CHHHHHHHHHHHHHHHHHHHHcCCEEccCCcccc
Confidence 4466788999999999999999999999999853
No 92
>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=96.44 E-value=0.031 Score=40.81 Aligned_cols=68 Identities=24% Similarity=0.436 Sum_probs=50.9
Q ss_pred EEEEEeecccCC--CceeEEEEEecCC-CCceEEEEEeCChh-hhccCCCCCcEEEEEeEEeCCCCCCcccEEEEEeEE
Q 018229 52 VGGWVKTGREQG--KGSFAFLEVNDGS-CPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKV 126 (359)
Q Consensus 52 I~GwV~siR~~G--k~kl~Fi~LRDgs-g~~~lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i 126 (359)
|.|.|.+++... + .+.++.|.|++ +. +.+++..+.. .+...+..|+.|.|.|.+... .+...+.+.++
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 678888876654 4 68999999999 64 9999887653 233568999999999999754 35577777654
No 93
>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=96.37 E-value=0.0093 Score=57.14 Aligned_cols=33 Identities=21% Similarity=0.419 Sum_probs=28.4
Q ss_pred ccceEEEeceeecCCCCCCCccccccccceeecc
Q 018229 321 VSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAF 354 (359)
Q Consensus 321 ~~~Vy~~~p~fRaE~~~t~rHl~EF~mle~E~af 354 (359)
=-|+|++|.|||.|..+ ..|+++|.|+|.=.+.
T Consensus 102 p~kif~iG~VyR~D~~D-~th~~~f~Qleg~~~~ 134 (247)
T PF01409_consen 102 PIKIFEIGKVYRRDEID-ATHLPEFHQLEGLVVD 134 (247)
T ss_dssp SEEEEEEEEEESSSCSB-SSBESEEEEEEEEEEE
T ss_pred CeEEEecCceEecCCcc-cccCccceeEeeEEEe
Confidence 36999999999999986 6899999999985544
No 94
>PRK00488 pheS phenylalanyl-tRNA synthetase subunit alpha; Validated
Probab=96.29 E-value=0.01 Score=59.37 Aligned_cols=31 Identities=19% Similarity=0.283 Sum_probs=26.5
Q ss_pred ceEEEeceeecCCCCCCCccccccccceeecc
Q 018229 323 NVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAF 354 (359)
Q Consensus 323 ~Vy~~~p~fRaE~~~t~rHl~EF~mle~E~af 354 (359)
|+|++|.|||.+..+ .+|.++|.|||.=++.
T Consensus 187 rif~~G~VyR~D~~D-atH~~~FhQleglvvd 217 (339)
T PRK00488 187 RIIAPGRVYRNDSDD-ATHSPMFHQVEGLVVD 217 (339)
T ss_pred EEEEeeeEEEcCCCC-cccCcceeeEEEEEEe
Confidence 899999999999865 6899999999975443
No 95
>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=96.25 E-value=0.0047 Score=64.29 Aligned_cols=43 Identities=16% Similarity=0.249 Sum_probs=34.0
Q ss_pred HHHHHHHHHHHHHHHHhCCcEEEccCeeecCCC---CC------CCCcceee
Q 018229 166 ARIRNALAYATHTFLQKQGFLYIHTPIITTSDC---EG------AGEMFQVT 208 (359)
Q Consensus 166 ~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~~---EG------a~e~F~v~ 208 (359)
++++..|...+++-|.+.||.||.||.|....- +| +.++|.|+
T Consensus 38 ~~i~~~I~~~i~~~~~~~G~~ev~~P~l~~~~~~~~~~~h~~~f~~e~f~v~ 89 (472)
T TIGR00408 38 FKIWKNIQKILRNILDEIGHEEVYFPMLIPESELAKEKDHIKGFEPEVYWIT 89 (472)
T ss_pred HHHHHHHHHHHHHHHHHcCCEEEECCccCCHHHHHhhcchhhhcchhcEEEe
Confidence 467999999999999999999999999976432 23 34677664
No 96
>PRK12421 ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=96.25 E-value=0.015 Score=59.07 Aligned_cols=34 Identities=15% Similarity=0.233 Sum_probs=29.2
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEccCeeecC
Q 018229 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (359)
Q Consensus 163 ~ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~ 196 (359)
-.-.+.+..|...+++.|...||.||+||+|-..
T Consensus 18 p~e~~~~~~i~~~l~~~f~~~Gy~~I~tP~~E~~ 51 (392)
T PRK12421 18 PEEAQKIERLRRRLLDLFASRGYQLVMPPLIEYL 51 (392)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCEEeeCcchhhH
Confidence 3446788999999999999999999999999643
No 97
>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain
Probab=96.24 E-value=0.011 Score=61.65 Aligned_cols=30 Identities=33% Similarity=0.502 Sum_probs=26.5
Q ss_pred ceEEEeceeecCCCCCCCccccccccceeec
Q 018229 323 NVYTFGPTFRAEHSHTSRHLAEFWMVEPEMA 353 (359)
Q Consensus 323 ~Vy~~~p~fRaE~~~t~rHl~EF~mle~E~a 353 (359)
|+|++|.|||+|..| ..|++||.|+|-=..
T Consensus 344 k~fsigrVfR~d~iD-atH~~eFhQ~EG~vv 373 (492)
T PLN02853 344 RYFSIDRVFRNEAVD-RTHLAEFHQVEGLVC 373 (492)
T ss_pred EEEeccceecCCCCC-cccCccceeEEEEEE
Confidence 999999999999987 689999999986443
No 98
>COG0016 PheS Phenylalanyl-tRNA synthetase alpha subunit [Translation, ribosomal structure and biogenesis]
Probab=96.20 E-value=0.011 Score=59.05 Aligned_cols=46 Identities=24% Similarity=0.358 Sum_probs=35.4
Q ss_pred ccccccHHHHHHHHHc-c--ccceEEEeceeecCCCCCCCccccccccce
Q 018229 304 AFLTVSGQLQVETYAC-A--VSNVYTFGPTFRAEHSHTSRHLAEFWMVEP 350 (359)
Q Consensus 304 ~~L~~S~ql~~e~~~~-~--~~~Vy~~~p~fRaE~~~t~rHl~EF~mle~ 350 (359)
+-=|.........|.. . =-|++.+|.|||.|..| ..|++||.|+|-
T Consensus 172 lLRTHTs~vq~R~l~~~~~~P~k~~~~grvyR~D~~D-aTHs~~FhQiEG 220 (335)
T COG0016 172 LLRTHTSPVQARTLAENAKIPIKIFSPGRVYRNDTVD-ATHSPEFHQIEG 220 (335)
T ss_pred eecccCcHhhHHHHHhCCCCCceEecccceecCCCCC-cccchheeeeEE
Confidence 4445666666665544 3 35999999999999987 689999999995
No 99
>PLN02908 threonyl-tRNA synthetase
Probab=96.12 E-value=0.013 Score=63.60 Aligned_cols=34 Identities=29% Similarity=0.229 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEccCeeecCC
Q 018229 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (359)
Q Consensus 164 ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~ 197 (359)
.-.+++..|+..+|+.+.++||.||.||.|....
T Consensus 319 ~g~~i~~~l~~~~~~~~~~~G~~ev~tP~l~~~~ 352 (686)
T PLN02908 319 HGARIYNKLMDFIREQYWERGYDEVITPNIYNMD 352 (686)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCEEEECCccccHH
Confidence 4568999999999999999999999999997653
No 100
>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=96.09 E-value=0.066 Score=42.50 Aligned_cols=68 Identities=18% Similarity=0.264 Sum_probs=51.0
Q ss_pred EEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh---hhccCCCCCcEEEEEeEEeCCCCCCcccEEEEEeEE
Q 018229 50 VRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA---DLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKV 126 (359)
Q Consensus 50 V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~---~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i 126 (359)
|.+.|-|.++|..++++- |+.|.|.+|. +.+++.++.. .+...|..+.+|.|+|.+.... + .+.+++|
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 678899988874444456 9999999986 9999988763 3345688999999999995421 2 6666654
No 101
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=96.03 E-value=0.02 Score=58.94 Aligned_cols=34 Identities=18% Similarity=0.300 Sum_probs=29.9
Q ss_pred HHHHHHHHHHHHHHHHHH-hCCcEEEccCeeecCC
Q 018229 164 AVARIRNALAYATHTFLQ-KQGFLYIHTPIITTSD 197 (359)
Q Consensus 164 ai~riRS~I~~~iR~fL~-~~gF~EV~TPiLt~~~ 197 (359)
...++..++++.+++.+. +.||.||.||.|....
T Consensus 168 ~ga~L~~aL~~~~~~~~~~~~G~~ev~~P~lv~~~ 202 (425)
T PRK05431 168 DGARLERALIQFMLDLHTEEHGYTEVIPPYLVNEE 202 (425)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCEEEeccccccHH
Confidence 456799999999999998 9999999999998754
No 102
>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=95.98 E-value=0.073 Score=43.34 Aligned_cols=72 Identities=22% Similarity=0.340 Sum_probs=54.7
Q ss_pred EEEEEEEeecccC--CCceeEEEEEecCCCCceEEEEEeCCh--h-hhccCCCCCcEEEEEeEEeCCCCCCcccEEEEEe
Q 018229 50 VRVGGWVKTGREQ--GKGSFAFLEVNDGSCPANLQVIVDKDV--A-DLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQ 124 (359)
Q Consensus 50 V~I~GwV~siR~~--Gk~kl~Fi~LRDgsg~~~lQVVv~~~~--~-~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~ 124 (359)
++|.|.|.+.+.. | +=+|+.|.|.++. |.+++-+.. . .....|..||-|.|.|.+..-. .|.++
T Consensus 1 ~~v~GeVs~~~~~~~s--GH~yFtlkD~~~~--i~cv~f~~~g~~~~~~~~l~~Gd~V~v~G~v~~y~-------ql~ve 69 (91)
T cd04482 1 YRVTGKVVEEPRTIEG--GHVFFKISDGTGE--IDCAAYEPTKEFRDVVRLLIPGDEVTVYGSVRPGT-------TLNLE 69 (91)
T ss_pred CEEEEEEeCCeecCCC--CCEEEEEECCCcE--EEEEEECcccccccccCCCCCCCEEEEEEEEecCC-------EEEEE
Confidence 3689999988653 4 4588899998864 999887653 2 2445689999999999986442 58999
Q ss_pred EEEEeecC
Q 018229 125 KVVDVGMV 132 (359)
Q Consensus 125 ~i~vLs~a 132 (359)
++++++..
T Consensus 70 ~l~~~glg 77 (91)
T cd04482 70 KLRVIRLA 77 (91)
T ss_pred EEEECCCc
Confidence 99987754
No 103
>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=95.94 E-value=0.027 Score=55.22 Aligned_cols=30 Identities=30% Similarity=0.529 Sum_probs=25.1
Q ss_pred cceEEEeceeecCCCCCCCccccccccceee
Q 018229 322 SNVYTFGPTFRAEHSHTSRHLAEFWMVEPEM 352 (359)
Q Consensus 322 ~~Vy~~~p~fRaE~~~t~rHl~EF~mle~E~ 352 (359)
-|+|++|+|||.+..+ .+|++||++|+.-+
T Consensus 151 irlFEiGrVfr~d~~d-~~~~pef~ql~gl~ 180 (294)
T TIGR00468 151 IRIFSPGRVFRNDTVD-ATHLPEFHQVEGLV 180 (294)
T ss_pred ceEEEecceEEcCCCC-CccCChhhEEEEEE
Confidence 4999999999998753 57889999998754
No 104
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=95.83 E-value=0.013 Score=62.11 Aligned_cols=33 Identities=18% Similarity=0.169 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEccCeeecC
Q 018229 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (359)
Q Consensus 164 ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~ 196 (359)
.-.++|..|...+|+.+.+.||.||.||.|...
T Consensus 166 ~G~~i~~~L~~~~r~~~~~~Gy~eV~TP~i~~~ 198 (545)
T PRK14799 166 KGQTIRNELIAFMREINDSMGYQEVYTSHVFKT 198 (545)
T ss_pred hHHHHHHHHHHHHHHHHHHcCCeEEECCccchH
Confidence 456899999999999999999999999998554
No 105
>PRK07373 DNA polymerase III subunit alpha; Reviewed
Probab=95.82 E-value=0.05 Score=56.49 Aligned_cols=78 Identities=15% Similarity=0.235 Sum_probs=60.9
Q ss_pred CCCCEEEEEEEEeecccC----CCceeEEEEEecCCCCceEEEEEeCChhh-hccCCCCCcEEEEEeEEeCCCCCCcccE
Q 018229 45 LAGRQVRVGGWVKTGREQ----GKGSFAFLEVNDGSCPANLQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPEGTKQKI 119 (359)
Q Consensus 45 ~~gk~V~I~GwV~siR~~----Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~-~~~~L~~esvV~V~G~v~~s~~~~~g~l 119 (359)
..|+.|+|.|.|.++|.. |+ .++|+.|.|.+|. +.+++.++... +...|..+.+|.|+|.+... .+.+
T Consensus 278 ~~~~~v~vaG~I~~ik~~~TKkG~-~maf~~leD~tG~--ie~vvFp~~y~~~~~~l~~~~~v~v~G~v~~~----~~~~ 350 (449)
T PRK07373 278 KEKTKVSAVVMLNEVKKIVTKKGD-PMAFLQLEDLSGQ--SEAVVFPKSYERISELLQVDARLIIWGKVDRR----DDQV 350 (449)
T ss_pred cCCCEEEEEEEEEEeEecccCCCC-EEEEEEEEECCCC--EEEEECHHHHHHHHHHhccCCEEEEEEEEEec----CCeE
Confidence 357899999999998644 44 6999999999997 99999887532 44568899999999999753 2456
Q ss_pred EEEEeEEEEe
Q 018229 120 ELRVQKVVDV 129 (359)
Q Consensus 120 EL~a~~i~vL 129 (359)
.|.+++|.-+
T Consensus 351 ~liv~~i~~l 360 (449)
T PRK07373 351 QLIVEDAEPI 360 (449)
T ss_pred EEEEeEeecH
Confidence 7777777544
No 106
>PLN02837 threonine-tRNA ligase
Probab=95.64 E-value=0.014 Score=62.77 Aligned_cols=34 Identities=18% Similarity=0.277 Sum_probs=30.7
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEccCeeecCC
Q 018229 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (359)
Q Consensus 164 ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~ 197 (359)
.-.+++..|.+.+++.+.++||.||.||.|....
T Consensus 245 ~G~~l~~~L~~~~~~~~~~~G~~~v~tP~l~~~~ 278 (614)
T PLN02837 245 KGAIVRHIIEDSWKKMHFEHGYDLLYTPHVAKAD 278 (614)
T ss_pred hHHHHHHHHHHHHHHHHHHCCCEEEECCccCCHH
Confidence 5678999999999999999999999999998754
No 107
>PLN02788 phenylalanine-tRNA synthetase
Probab=95.63 E-value=0.045 Score=56.10 Aligned_cols=57 Identities=18% Similarity=0.310 Sum_probs=40.5
Q ss_pred cccc-Cccccc-cccHHHHHHHHHccccceEEEeceeecCCCCCCCccccccccceeecc
Q 018229 297 QDFF-ARQAFL-TVSGQLQVETYACAVSNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAF 354 (359)
Q Consensus 297 ~~~f-~~~~~L-~~S~ql~~e~~~~~~~~Vy~~~p~fRaE~~~t~rHl~EF~mle~E~af 354 (359)
..|| +...-| |...-...++|..+-.+++..|.|||.|..| ..|.++|.|+|-=+.+
T Consensus 121 DTfy~~~~~lLRTHTSa~q~~~l~~~~~~~~~~g~VyRrD~iD-~tH~p~FhQ~EG~~v~ 179 (402)
T PLN02788 121 DTYYVDAQTVLRCHTSAHQAELLRAGHTHFLVTGDVYRRDSID-ATHYPVFHQMEGVRVF 179 (402)
T ss_pred ceEEecCCccccCCCcHHHHHHHHhCCCcEEEEeeEeecCCCC-cccCccceeEEEEEEe
Confidence 3344 333333 3444444555555667999999999999987 6899999999987665
No 108
>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=95.62 E-value=0.1 Score=50.40 Aligned_cols=74 Identities=22% Similarity=0.207 Sum_probs=54.3
Q ss_pred CEEEEEEEEeecccC----CCceeEEEEEecCCCCceEEEEEeCChhh----hccCCCCCcEEEEEeEEeCCCCCCcccE
Q 018229 48 RQVRVGGWVKTGREQ----GKGSFAFLEVNDGSCPANLQVIVDKDVAD----LGQLVPTGTCVYVEGMLKNPPEGTKQKI 119 (359)
Q Consensus 48 k~V~I~GwV~siR~~----Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~----~~~~L~~esvV~V~G~v~~s~~~~~g~l 119 (359)
+.|+|.|.|-.+.-. . +.+|+.|-|+||...|.|++..+... -...+ .|++|.|.|.+. .+..
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 459999999988755 5 68999999999933699999875311 12335 899999999998 3468
Q ss_pred EEEEeEEEEee
Q 018229 120 ELRVQKVVDVG 130 (359)
Q Consensus 120 EL~a~~i~vLs 130 (359)
||.++.|.++.
T Consensus 138 ql~ve~i~~~~ 148 (256)
T PF10451_consen 138 QLDVERIELVR 148 (256)
T ss_dssp EEEEEEEEEET
T ss_pred EEEEEEEEccC
Confidence 89999998774
No 109
>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=95.30 E-value=0.11 Score=43.63 Aligned_cols=82 Identities=18% Similarity=0.226 Sum_probs=52.2
Q ss_pred cceeehhhhcCCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeE
Q 018229 28 DRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGM 107 (359)
Q Consensus 28 ~r~~i~di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~ 107 (359)
..++++++.. ...+..|+|.|.|-+.-..- + +.++|++|. |+|-++.+.+. -..+..++-|.|.|.
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 3456666652 35688999999987543322 2 458999985 99998877532 245889999999999
Q ss_pred EeCCCCCCcccEEEEEeEEE
Q 018229 108 LKNPPEGTKQKIELRVQKVV 127 (359)
Q Consensus 108 v~~s~~~~~g~lEL~a~~i~ 127 (359)
|-+. -...||.|..|+
T Consensus 87 VDk~----~~~~~IdV~~I~ 102 (103)
T PF04076_consen 87 VDKD----WNKTEIDVDRIE 102 (103)
T ss_dssp EEEE----TTEEEEEEEEEE
T ss_pred EeCC----CCceEEEEEEEE
Confidence 9854 346888888774
No 110
>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=95.23 E-value=0.22 Score=43.29 Aligned_cols=81 Identities=17% Similarity=0.227 Sum_probs=57.9
Q ss_pred ceeehhhhcCCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEE
Q 018229 29 RVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGML 108 (359)
Q Consensus 29 r~~i~di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v 108 (359)
-+++++... -..+..|+|.|.|-+.-..- - +.+||++|. |+|-++.+.+. -..+.+++-|.|.|.|
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~GeV 110 (126)
T TIGR00156 45 KMTVDFAKS------MHDGASVTLRGNIISHIGDD----R-YVFRDKSGE--INVVIPAAVWN-GREVQPKDMVNISGSL 110 (126)
T ss_pred eEeHHHHhh------CCCCCEEEEEEEEEEEeCCc----e-EEEECCCCC--EEEEECHHHcC-CCcCCCCCEEEEEEEE
Confidence 356666652 35688999999997543322 2 468999996 99998776531 2357899999999999
Q ss_pred eCCCCCCcccEEEEEeEEE
Q 018229 109 KNPPEGTKQKIELRVQKVV 127 (359)
Q Consensus 109 ~~s~~~~~g~lEL~a~~i~ 127 (359)
-+. -+..||.|.+|+
T Consensus 111 Dk~----~~~~~IdV~~I~ 125 (126)
T TIGR00156 111 DKK----SAPAEVDVTHIQ 125 (126)
T ss_pred CCC----CCCeEEEEEEEE
Confidence 754 235788888775
No 111
>COG4085 Predicted RNA-binding protein, contains TRAM domain [General function prediction only]
Probab=95.17 E-value=0.094 Score=48.59 Aligned_cols=75 Identities=23% Similarity=0.335 Sum_probs=57.5
Q ss_pred CCCCCEEEEEEEEeecc-cCCCceeEEEEEecCCCCceEEEEEeCChhhhc------cCCCCCcEEEEEeEEeCCCCCCc
Q 018229 44 GLAGRQVRVGGWVKTGR-EQGKGSFAFLEVNDGSCPANLQVIVDKDVADLG------QLVPTGTCVYVEGMLKNPPEGTK 116 (359)
Q Consensus 44 ~~~gk~V~I~GwV~siR-~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~------~~L~~esvV~V~G~v~~s~~~~~ 116 (359)
-.+.+.|++.|-|.+.+ ..|. ++.|+.|.|++|. |-+++..+...+. ..+..|.+|.|+|.+..-+
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 35677899999999987 4454 7999999999986 9998887653322 2466899999999997653
Q ss_pred ccEEEEEeE
Q 018229 117 QKIELRVQK 125 (359)
Q Consensus 117 g~lEL~a~~ 125 (359)
|..||.+++
T Consensus 121 G~~eVkvnq 129 (204)
T COG4085 121 GSSEVKVNQ 129 (204)
T ss_pred CCceeeccC
Confidence 566777654
No 112
>PRK12295 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=95.11 E-value=0.066 Score=54.24 Aligned_cols=26 Identities=23% Similarity=0.315 Sum_probs=23.2
Q ss_pred HHHHHHHHHHHhCCcEEEccCeeecC
Q 018229 171 ALAYATHTFLQKQGFLYIHTPIITTS 196 (359)
Q Consensus 171 ~I~~~iR~fL~~~gF~EV~TPiLt~~ 196 (359)
.+...+++.|..+||.||+||++-..
T Consensus 9 ~i~~~i~~~f~~~Gy~~I~tP~lE~~ 34 (373)
T PRK12295 9 AAAEALLASFEAAGAVRVDPPILQPA 34 (373)
T ss_pred HHHHHHHHHHHHcCCEEeeCCccccH
Confidence 67888899999999999999999654
No 113
>PLN02678 seryl-tRNA synthetase
Probab=94.66 E-value=0.036 Score=57.57 Aligned_cols=34 Identities=29% Similarity=0.441 Sum_probs=30.5
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEccCeeecCC
Q 018229 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (359)
Q Consensus 164 ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~ 197 (359)
...+++.++++++++++.++||.||.||.|....
T Consensus 172 ~ga~L~~AL~~y~ld~~~~~Gy~~V~~P~lv~~~ 205 (448)
T PLN02678 172 AGVLLNQALINFGLAFLRKRGYTPLQTPFFMRKD 205 (448)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCEEEECcccccHH
Confidence 4578999999999999999999999999998754
No 114
>PRK06826 dnaE DNA polymerase III DnaE; Reviewed
Probab=94.62 E-value=0.15 Score=58.69 Aligned_cols=79 Identities=20% Similarity=0.306 Sum_probs=61.5
Q ss_pred CCCEEEEEEEEeecccC----CCceeEEEEEecCCCCceEEEEEeCChh-hhccCCCCCcEEEEEeEEeCCCCCCcccEE
Q 018229 46 AGRQVRVGGWVKTGREQ----GKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEGTKQKIE 120 (359)
Q Consensus 46 ~gk~V~I~GwV~siR~~----Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~~~~~g~lE 120 (359)
.|+.|+|.|.|..+|.. |+ .++|+.|.|.+|. +.+++.++.. .+...|..|.+|.|+|.+.... .+.+.
T Consensus 990 ~~~~v~v~g~i~~~~~~~tk~G~-~maf~~leD~~g~--~e~~vfp~~~~~~~~~l~~~~~~~v~g~v~~~~---~~~~~ 1063 (1151)
T PRK06826 990 DGDKVIIGGIITEVKRKTTRNNE-MMAFLTLEDLYGT--VEVIVFPKVYEKYRSLLNEDNIVLIKGRVSLRE---DEEPK 1063 (1151)
T ss_pred CCcEEEEEEEEEEeEeeccCCCC-eEEEEEEEECCCc--EEEEECHHHHHHHHHHhccCCEEEEEEEEEecC---CCceE
Confidence 57899999999887643 33 5999999999987 9999988753 3455688999999999997542 34577
Q ss_pred EEEeEEEEee
Q 018229 121 LRVQKVVDVG 130 (359)
Q Consensus 121 L~a~~i~vLs 130 (359)
|.++++.-+.
T Consensus 1064 ~~~~~~~~l~ 1073 (1151)
T PRK06826 1064 LICEEIEPLV 1073 (1151)
T ss_pred EEEeeeecHh
Confidence 8888775553
No 115
>COG3111 Periplasmic protein with OB-fold [Function unknown]
Probab=94.57 E-value=0.25 Score=42.82 Aligned_cols=74 Identities=22% Similarity=0.312 Sum_probs=55.8
Q ss_pred CCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCCCCCcccEEEEE
Q 018229 44 GLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRV 123 (359)
Q Consensus 44 ~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a 123 (359)
-..+..|+|.|-|- |..|.. .| ..||++|. |+|.++...++ ...+.+.+-|.+.|.|-+. -...||.|
T Consensus 54 ~~Dda~V~l~GnIv--~qi~~D--~y-~FrD~sGe--I~VeIdd~~w~-g~tv~P~dkV~I~GevDk~----~~~~eIdV 121 (128)
T COG3111 54 LHDDAWVSLEGNIV--RQIGDD--RY-VFRDASGE--INVDIDDKVWN-GQTVTPKDKVRIQGEVDKD----WNSVEIDV 121 (128)
T ss_pred cccCCeEEEEeeEE--EeeCCc--eE-EEEcCCcc--EEEEecccccC-CcccCcccEEEEEeEEcCC----CccceeEh
Confidence 35688999999986 555532 33 58999986 99999887532 2458899999999999754 24678888
Q ss_pred eEEEEe
Q 018229 124 QKVVDV 129 (359)
Q Consensus 124 ~~i~vL 129 (359)
+.|+.+
T Consensus 122 ~~I~k~ 127 (128)
T COG3111 122 KHIEKL 127 (128)
T ss_pred hheEec
Confidence 887765
No 116
>PRK04173 glycyl-tRNA synthetase; Provisional
Probab=94.57 E-value=0.035 Score=57.63 Aligned_cols=32 Identities=19% Similarity=0.328 Sum_probs=28.2
Q ss_pred HHHHHHHHHHHHHHHHh--CCcEEEccCeeecCC
Q 018229 166 ARIRNALAYATHTFLQK--QGFLYIHTPIITTSD 197 (359)
Q Consensus 166 ~riRS~I~~~iR~fL~~--~gF~EV~TPiLt~~~ 197 (359)
.++|..|....|+.+.. .||.||.||+|....
T Consensus 38 ~~l~~~i~~~~r~~~~~~~~~~~ev~tp~i~~~~ 71 (456)
T PRK04173 38 VELKNNIKRAWWKSFVQEREDVVGIDSPIIMPPE 71 (456)
T ss_pred HHHHHHHHHHHHHHHHhccCCEEEEeccccCCHH
Confidence 47899999999999987 799999999998753
No 117
>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=94.55 E-value=0.085 Score=45.45 Aligned_cols=67 Identities=15% Similarity=0.132 Sum_probs=41.2
Q ss_pred CCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhhhc--cCCCCCcEEEEEeEEeC
Q 018229 43 AGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLG--QLVPTGTCVYVEGMLKN 110 (359)
Q Consensus 43 ~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~--~~L~~esvV~V~G~v~~ 110 (359)
..+.|+.|.|.|.|.+++.... +-.++...+..+...++|.+..+..... ..|+.|+-|.|.|.+.-
T Consensus 63 ~kY~gK~i~vtG~V~~I~~~~~-~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~l~~G~~Vti~G~~~g 131 (144)
T PF12869_consen 63 KKYKGKIIEVTGTVSSIDKGFG-DNYVVLLGTENGFAGVQCYFSNDQEKRASVAKLKKGQKVTIKGICTG 131 (144)
T ss_dssp HHHTT-EEEEEEEEEEEEE-ST-T-EEEEEE-TT-S-S--EEEEEEGGGHHHHHH--TTSEEEEEEE---
T ss_pred hhcCCCEEEEEEEEEEEEEcCC-CcEEEEccCCCCceeEEEEEccchhhhhhHhcCCCCCEEEEEEEEEe
Confidence 3468999999999999976332 4567777776666779999887653332 34899999999999854
No 118
>PRK05672 dnaE2 error-prone DNA polymerase; Validated
Probab=94.50 E-value=0.14 Score=58.46 Aligned_cols=80 Identities=21% Similarity=0.292 Sum_probs=63.0
Q ss_pred CCCCEEEEEEEEeecccC--CCceeEEEEEecCCCCceEEEEEeCChhh-hccCCCCCcEEEEEeEEeCCCCCCcccEEE
Q 018229 45 LAGRQVRVGGWVKTGREQ--GKGSFAFLEVNDGSCPANLQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPEGTKQKIEL 121 (359)
Q Consensus 45 ~~gk~V~I~GwV~siR~~--Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~-~~~~L~~esvV~V~G~v~~s~~~~~g~lEL 121 (359)
..|+.|+|.|+|..++.. ++ +++|+.|.|.+|. +.+++.++... +...|..|.++.|+|++... .+.+.|
T Consensus 951 ~~~~~v~v~g~i~~~~~~~Tkk-Gmaf~~leD~~g~--~e~~ifp~~~~~~~~~l~~~~~~~v~g~v~~~----~~~~~~ 1023 (1046)
T PRK05672 951 EDGRRVRVAGVVTHRQRPGTAS-GVTFLTLEDETGM--VNVVVWPGLWERQRREALGARLLLVRGRVQNA----EGVRHL 1023 (1046)
T ss_pred cCCCEEEEEEEEEEEEEecCCC-ceEEEEEecCCCC--EEEEECHHHHHHHHHHhccCCEEEEEEEEEec----CCeEEE
Confidence 357889999999988665 44 4999999999997 99999887532 44568899999999999754 345778
Q ss_pred EEeEEEEeec
Q 018229 122 RVQKVVDVGM 131 (359)
Q Consensus 122 ~a~~i~vLs~ 131 (359)
.++++.-+..
T Consensus 1024 ~~~~i~~~~~ 1033 (1046)
T PRK05672 1024 VADRLEDLSP 1033 (1046)
T ss_pred EEeeeechHH
Confidence 8888765543
No 119
>COG5235 RFA2 Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [DNA replication, recombination, and repair]
Probab=94.42 E-value=0.21 Score=46.93 Aligned_cols=92 Identities=18% Similarity=0.219 Sum_probs=63.5
Q ss_pred cceeehhhhcCCCCCC--CC--CC---CEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh---hhccCCC
Q 018229 28 DRVLIKSILTRPDGGA--GL--AG---RQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA---DLGQLVP 97 (359)
Q Consensus 28 ~r~~i~di~~~~~l~~--~~--~g---k~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~---~~~~~L~ 97 (359)
+.++|+.|+.|..-.. .. .+ ..|++-|||.++..+- .-+|+.|.||+|. |-|-...... ...+.+.
T Consensus 40 rpvTIKQIl~~~qd~~d~~f~vd~~Ev~~V~fVGvvrni~~~t--tn~~~~iEDGTG~--Ievr~W~~~~~~~e~~~d~~ 115 (258)
T COG5235 40 RPVTIKQILSCDQDETDSTFLVDSAEVTNVQFVGVVRNIKTST--TNSMFVIEDGTGS--IEVRFWPGNSYEEEQCKDLE 115 (258)
T ss_pred eeeEHHHhhcccccccCCceeecceEEeeEEEEEEEEeeeecc--cceEEEEecCCce--EEEEecCCCchHHHhccccc
Confidence 4579999998743211 11 12 2489999999999998 4588899999987 8888766542 1234566
Q ss_pred CCcEEEEEeEEeCCCCCCcccEEEEEeEEE
Q 018229 98 TGTCVYVEGMLKNPPEGTKQKIELRVQKVV 127 (359)
Q Consensus 98 ~esvV~V~G~v~~s~~~~~g~lEL~a~~i~ 127 (359)
-+-.|.|-|-++.= .|...|...-|.
T Consensus 116 ~~~yvkV~G~lk~F----~GK~~I~~~~i~ 141 (258)
T COG5235 116 EQNYVKVNGSLKTF----NGKRSISASHIS 141 (258)
T ss_pred cccEEEEecceeee----CCeeEEehhhee
Confidence 77799999998754 345555554443
No 120
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=94.34 E-value=0.061 Score=57.93 Aligned_cols=33 Identities=21% Similarity=0.229 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEccCeeecC
Q 018229 164 AVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (359)
Q Consensus 164 ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~ 196 (359)
.-.+++..|...+++.+.+.||.+|.||.|...
T Consensus 225 ~G~~i~~~L~~~~~~~~~~~G~~~V~tP~~~~~ 257 (613)
T PRK03991 225 KGRLIRDLLEDYVYNLVVELGAMPVETPIMYDL 257 (613)
T ss_pred HHHHHHHHHHHHHHHHHHHCCCEEEECCeecCh
Confidence 567899999999999999999999999998543
No 121
>PRK07374 dnaE DNA polymerase III subunit alpha; Validated
Probab=94.22 E-value=0.2 Score=57.79 Aligned_cols=77 Identities=14% Similarity=0.210 Sum_probs=60.2
Q ss_pred CCCEEEEEEEEeecccC----CCceeEEEEEecCCCCceEEEEEeCChhh-hccCCCCCcEEEEEeEEeCCCCCCcccEE
Q 018229 46 AGRQVRVGGWVKTGREQ----GKGSFAFLEVNDGSCPANLQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPEGTKQKIE 120 (359)
Q Consensus 46 ~gk~V~I~GwV~siR~~----Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~-~~~~L~~esvV~V~G~v~~s~~~~~g~lE 120 (359)
.|+.|+|.|.|..+|.. |+ .++|+.|.|.+|. +.+++.++... +...|..|.+|.|+|.|... .+.+.
T Consensus 999 ~~~~v~v~g~i~~~k~~~Tk~G~-~maf~~leD~tg~--~e~vvFp~~y~~~~~~l~~~~~~~v~g~v~~~----~~~~~ 1071 (1170)
T PRK07374 999 DKAKVSAIAMIPEMKQVTTRKGD-RMAILQLEDLTGS--CEAVVFPKSYERLSDHLMTDTRLLVWAKVDRR----DDRVQ 1071 (1170)
T ss_pred CCCEEEEEEEEEEeEecccCCCC-EEEEEEEEECCCC--EEEEECHHHHHHHHHHhccCCEEEEEEEEEec----CCeEE
Confidence 57899999999987543 33 5999999999987 99999887632 44568899999999999754 24567
Q ss_pred EEEeEEEEe
Q 018229 121 LRVQKVVDV 129 (359)
Q Consensus 121 L~a~~i~vL 129 (359)
|.++++.-+
T Consensus 1072 ~~~~~i~~l 1080 (1170)
T PRK07374 1072 LIIDDCREI 1080 (1170)
T ss_pred EEEeeeecH
Confidence 777777544
No 122
>PRK10053 hypothetical protein; Provisional
Probab=94.21 E-value=0.43 Score=41.71 Aligned_cols=72 Identities=22% Similarity=0.300 Sum_probs=53.7
Q ss_pred CCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCCCCCcccEEEEE
Q 018229 44 GLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRV 123 (359)
Q Consensus 44 ~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a 123 (359)
-..+..|+|.|.|- |..|.. - +..||++|. |+|-++.+.+. ...+.+++-|.|.|.|-+. -...||.|
T Consensus 58 ~~Dd~~V~L~G~Iv--~~lg~d--~-Y~F~D~tG~--I~VeID~~~w~-G~~v~p~~kV~I~GevDk~----~~~~~IdV 125 (130)
T PRK10053 58 MHDGATVSLRGNLI--DHKGDD--R-YVFRDKSGE--INVIIPAAVFD-GREVQPDQMININGSLDKK----SAPPVVRV 125 (130)
T ss_pred CcCCCeEEEEEEEE--EEeCCc--e-EEEECCCCc--EEEEeCHHHcC-CCcCCCCCEEEEEEEECCC----CCCeEEEE
Confidence 35688999999996 444422 2 468999986 99999877531 2468999999999999754 23578888
Q ss_pred eEEE
Q 018229 124 QKVV 127 (359)
Q Consensus 124 ~~i~ 127 (359)
+.|+
T Consensus 126 ~~i~ 129 (130)
T PRK10053 126 THLQ 129 (130)
T ss_pred EEEe
Confidence 8775
No 123
>PLN02320 seryl-tRNA synthetase
Probab=94.20 E-value=0.046 Score=57.50 Aligned_cols=38 Identities=32% Similarity=0.347 Sum_probs=30.4
Q ss_pred HHHHHHHHHHHHHHHHHhCCcEEEccCeeecCCC-CCCC
Q 018229 165 VARIRNALAYATHTFLQKQGFLYIHTPIITTSDC-EGAG 202 (359)
Q Consensus 165 i~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~~-EGa~ 202 (359)
..++..++++++++++.++||.||.||.|..... +|.+
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 3457788999999999999999999999987653 4433
No 124
>PRK06461 single-stranded DNA-binding protein; Reviewed
Probab=94.06 E-value=0.89 Score=39.27 Aligned_cols=85 Identities=19% Similarity=0.179 Sum_probs=59.5
Q ss_pred ceeehhhhcCCCCCCCCCC-CEEEEEEEEeecc-------cCCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCc
Q 018229 29 RVLIKSILTRPDGGAGLAG-RQVRVGGWVKTGR-------EQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGT 100 (359)
Q Consensus 29 r~~i~di~~~~~l~~~~~g-k~V~I~GwV~siR-------~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~es 100 (359)
.+.|+||. .| ..|.+.|.|.++. +.|...+.-+.|.|.||. |.+.+..+. ...+..|+
T Consensus 4 ~~kI~dL~---------~g~~~v~~~~~V~~i~~~~~~~~k~~~~~v~~~~l~D~TG~--I~~tlW~~~---a~~l~~Gd 69 (129)
T PRK06461 4 ITKIKDLK---------PGMERVNVTVRVLEVGEPKVIQTKGGPRTISEAVVGDETGR--VKLTLWGEQ---AGSLKEGE 69 (129)
T ss_pred ceEHHHcC---------CCCCceEEEEEEEEcCCceEEEeCCCceEEEEEEEECCCCE--EEEEEeCCc---cccCCCCC
Confidence 46788875 24 6788999988542 122214777899999985 999887753 34578999
Q ss_pred EEEEE-eEEeCCCCCCcccEEEEEeE---EEEeec
Q 018229 101 CVYVE-GMLKNPPEGTKQKIELRVQK---VVDVGM 131 (359)
Q Consensus 101 vV~V~-G~v~~s~~~~~g~lEL~a~~---i~vLs~ 131 (359)
+|.|. |.+..- .|.++|.+.+ |..+.+
T Consensus 70 vV~I~na~v~~f----~G~lqL~i~~~~~i~~~~~ 100 (129)
T PRK06461 70 VVEIENAWTTLY----RGKVQLNVGKYGSISESDD 100 (129)
T ss_pred EEEEECcEEeee----CCEEEEEECCCEEEEECCc
Confidence 99999 555532 5678999984 555544
No 125
>PRK06920 dnaE DNA polymerase III DnaE; Reviewed
Probab=94.06 E-value=0.2 Score=57.41 Aligned_cols=78 Identities=15% Similarity=0.284 Sum_probs=60.8
Q ss_pred CCCEEEEEEEEeeccc----CCCceeEEEEEecCCCCceEEEEEeCChh-hhccCCCCCcEEEEEeEEeCCCCCCcccEE
Q 018229 46 AGRQVRVGGWVKTGRE----QGKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEGTKQKIE 120 (359)
Q Consensus 46 ~gk~V~I~GwV~siR~----~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~~~~~g~lE 120 (359)
.|+.|+|.|+|..+|. .|+ .++|+.|.|.+|. +.+++.++.. .+...|..|.+|.|+|.+... .+...
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 4779999999988743 244 6999999999987 9999988753 345568899999999999754 34567
Q ss_pred EEEeEEEEee
Q 018229 121 LRVQKVVDVG 130 (359)
Q Consensus 121 L~a~~i~vLs 130 (359)
|.++++.-+.
T Consensus 1015 ~~~~~i~~l~ 1024 (1107)
T PRK06920 1015 WIVNGLYPLE 1024 (1107)
T ss_pred EEEeecccHH
Confidence 7887775553
No 126
>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=93.80 E-value=0.6 Score=34.60 Aligned_cols=68 Identities=22% Similarity=0.266 Sum_probs=44.0
Q ss_pred EEEEEeeccc--C-CCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCCCCCcccEEEEEeEE
Q 018229 52 VGGWVKTGRE--Q-GKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKV 126 (359)
Q Consensus 52 I~GwV~siR~--~-Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i 126 (359)
+.|.|.+++. . |+ ++.-+.+.|++|. +.++.-.......+.++.|+.+.|.|++... .+.++|.--++
T Consensus 2 i~~~V~~~~~~~~~~~-~~~~~~~~D~~g~--i~~~~F~~~~~~~~~~~~G~~~~v~Gkv~~~----~~~~qi~~P~~ 72 (75)
T cd04488 2 VEGTVVSVEVVPRRGR-RRLKVTLSDGTGT--LTLVFFNFQPYLKKQLPPGTRVRVSGKVKRF----RGGLQIVHPEY 72 (75)
T ss_pred EEEEEEEEEeccCCCc-cEEEEEEEcCCCE--EEEEEECCCHHHHhcCCCCCEEEEEEEEeec----CCeeEEeCCcE
Confidence 4566554321 1 33 5777889999875 9998875221124568999999999999754 24555544333
No 127
>PRK15491 replication factor A; Provisional
Probab=93.63 E-value=0.63 Score=47.34 Aligned_cols=90 Identities=21% Similarity=0.275 Sum_probs=66.3
Q ss_pred eeehhhhcCCCCCCCCCCCEEEEEEEEeec-------ccCC-CceeEEEEEecCCCCceEEEEEeCChhhh-c-cCCCCC
Q 018229 30 VLIKSILTRPDGGAGLAGRQVRVGGWVKTG-------REQG-KGSFAFLEVNDGSCPANLQVIVDKDVADL-G-QLVPTG 99 (359)
Q Consensus 30 ~~i~di~~~~~l~~~~~gk~V~I~GwV~si-------R~~G-k~kl~Fi~LRDgsg~~~lQVVv~~~~~~~-~-~~L~~e 99 (359)
+.|+||.. -...|+|.|+|-++ |..| .+++.=+.|-|.+|. +++++..+..+. . ..|..|
T Consensus 58 ~kI~dL~~--------~~~~v~i~arVl~~~~~R~f~r~dGs~g~v~~~~v~DeTG~--ir~tlW~~~a~~~~~~~le~G 127 (374)
T PRK15491 58 TKIADINE--------SSSNVNFTAKVVSIFEPKEFNRNDGTTGRVGNIIVADETGS--IRLTLWDDLADLIKTGDIEVG 127 (374)
T ss_pred ccHHHCCC--------CCCceEEEEEEeeccCCeeeecCCCCceEEEEEEEEcCCCe--EEEEEECchhhhhccCCcCCC
Confidence 45777752 24789999999876 3334 336666899999986 999998876432 2 358999
Q ss_pred cEEEEEeEEeCCCCCCcccEEEEEeEEEEeecCC
Q 018229 100 TCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVD 133 (359)
Q Consensus 100 svV~V~G~v~~s~~~~~g~lEL~a~~i~vLs~a~ 133 (359)
++|.|.|.++..- +++||.+.+-..+.++.
T Consensus 128 ~v~~I~~~~~~~y----~g~Ei~i~~~~~i~~~~ 157 (374)
T PRK15491 128 KSLNISGYAKEGY----SGIEVNIGRYGGISESD 157 (374)
T ss_pred CEEEEeeeeccCc----ccEEEEeCCCceeeecc
Confidence 9999999865443 34899999888888775
No 128
>PRK05673 dnaE DNA polymerase III subunit alpha; Validated
Probab=93.53 E-value=0.28 Score=56.51 Aligned_cols=79 Identities=23% Similarity=0.350 Sum_probs=62.2
Q ss_pred CCCEEEEEEEEeecccC----CCceeEEEEEecCCCCceEEEEEeCChh-hhccCCCCCcEEEEEeEEeCCCCCCcccEE
Q 018229 46 AGRQVRVGGWVKTGREQ----GKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEGTKQKIE 120 (359)
Q Consensus 46 ~gk~V~I~GwV~siR~~----Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~~~~~g~lE 120 (359)
.|+.|.+.|.|.++|.. |+ .++|+.|.|.+|. +.+++.++.. .+...|..|++|.|+|.+... .+.+.
T Consensus 976 ~g~~V~v~G~I~~vk~~~TKkG~-~mafltLeD~TG~--iEvviFp~~ye~~~~~L~~g~iV~V~GkVe~~----~~~~q 1048 (1135)
T PRK05673 976 GGSVVTVAGLVVSVRRRVTKRGN-KMAIVTLEDLSGR--IEVMLFSEALEKYRDLLEEDRIVVVKGQVSFD----DGGLR 1048 (1135)
T ss_pred cCceEEEEEEEEEEEecccCCCC-eEEEEEEEeCCCc--EEEEECHHHHHHHHHHhccCCEEEEEEEEEec----CCeEE
Confidence 47899999999887543 33 5999999999997 9999988753 345668899999999999754 24677
Q ss_pred EEEeEEEEeec
Q 018229 121 LRVQKVVDVGM 131 (359)
Q Consensus 121 L~a~~i~vLs~ 131 (359)
|.++++.-+..
T Consensus 1049 lii~~I~~L~~ 1059 (1135)
T PRK05673 1049 LTAREVMDLEE 1059 (1135)
T ss_pred EEEeecccHHH
Confidence 88887765543
No 129
>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=93.33 E-value=0.83 Score=37.83 Aligned_cols=68 Identities=24% Similarity=0.371 Sum_probs=48.2
Q ss_pred CCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCCCCCcccEEEEE
Q 018229 44 GLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRV 123 (359)
Q Consensus 44 ~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a 123 (359)
.+.|+.|+|-|+|.+.+... +.+.+..| ..++|.++... .+..+-+|+|.|+|... ..|.+
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 57899999999999887542 45665555 36999987653 35778899999999643 33555
Q ss_pred eEEEEee
Q 018229 124 QKVVDVG 130 (359)
Q Consensus 124 ~~i~vLs 130 (359)
..+.-++
T Consensus 73 ~~~~~~g 79 (101)
T cd04479 73 LSYIDFG 79 (101)
T ss_pred EEEEECC
Confidence 5544443
No 130
>PRK13480 3'-5' exoribonuclease YhaM; Provisional
Probab=93.26 E-value=0.75 Score=45.78 Aligned_cols=80 Identities=21% Similarity=0.168 Sum_probs=58.7
Q ss_pred CCCEEEEEEEEeecc----cCCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCCCCCcccEEE
Q 018229 46 AGRQVRVGGWVKTGR----EQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIEL 121 (359)
Q Consensus 46 ~gk~V~I~GwV~siR----~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL 121 (359)
.|+.|..-.-|.++. +.|+ ....+.|.|.||. |...+..........+..|++|.|.|.+..- .|.+.|
T Consensus 10 ~g~~v~~~~lv~~~~~~~~knG~-~yl~l~l~D~tG~--I~ak~W~~~~~~~~~~~~g~vv~v~G~v~~y----~g~~Ql 82 (314)
T PRK13480 10 VGEQVDHFLLIKSATKGVASNGK-PFLTLILQDKSGD--IEAKLWDVSPEDEATYVPETIVHVKGDIINY----RGRKQL 82 (314)
T ss_pred CCCEeeEEEEEEEceeeecCCCC-eEEEEEEEcCCcE--EEEEeCCCChhhHhhcCCCCEEEEEEEEEEE----CCcceE
Confidence 366666555565543 3453 4778889999986 9999877544445668999999999999754 456778
Q ss_pred EEeEEEEeecC
Q 018229 122 RVQKVVDVGMV 132 (359)
Q Consensus 122 ~a~~i~vLs~a 132 (359)
.+..++++.+.
T Consensus 83 ~i~~i~~~~~~ 93 (314)
T PRK13480 83 KVNQIRLATEE 93 (314)
T ss_pred EEEEeEECCCC
Confidence 89999888764
No 131
>PRK07279 dnaE DNA polymerase III DnaE; Reviewed
Probab=92.86 E-value=0.41 Score=54.56 Aligned_cols=74 Identities=18% Similarity=0.327 Sum_probs=57.5
Q ss_pred CCEEEEEEEEeeccc-----CCCceeEEEEEecCCCCceEEEEEeCChh-hhccCCCCCcEEEEEeEEeCCCCCCcccEE
Q 018229 47 GRQVRVGGWVKTGRE-----QGKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEGTKQKIE 120 (359)
Q Consensus 47 gk~V~I~GwV~siR~-----~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~~~~~g~lE 120 (359)
|+.+.+.|+|..+|. .|+ .++|+.|.|.+|. +.+++.++.. .+...|..|.+|.|+|.|... .+.+.
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 667889999987652 354 6999999999987 9999988753 345568899999999999764 34566
Q ss_pred EEEeEEE
Q 018229 121 LRVQKVV 127 (359)
Q Consensus 121 L~a~~i~ 127 (359)
|.++++.
T Consensus 957 l~~~~i~ 963 (1034)
T PRK07279 957 MVLQQIQ 963 (1034)
T ss_pred EEEeeee
Confidence 7777664
No 132
>cd04474 RPA1_DBD_A RPA1_DBD_A: A subfamily of OB folds corresponding to the second OB fold, the ssDNA-binding domain (DBD)-A, of human RPA1 (also called RPA70). RPA1 is the large subunit of Replication protein A (RPA). RPA is a nuclear ssDNA-binding protein (SSB) which appears to be involved in all aspects of DNA metabolism including replication, recombination, and repair. RPA also mediates specific interactions of various nuclear proteins. In animals, plants, and fungi, RPA is a heterotrimer with subunits of 70KDa (RPA1), 32kDa (RPA2), and 14 KDa (RPA3). In addition to DBD-A, RPA1 contains three other OB folds: DBD-B, DBD-C, and RPA1N. The major DNA binding activity of human RPA (hRPA) and Saccharomyces cerevisiae RPA (ScRPA) is associated with DBD-A and DBD-B of RPA1. RPA1 DBD-C is involved in trimerization. The ssDNA-binding mechanism is believed to be multistep and to involve conformational change. Although ScRPA and the hRPA have similar ssDNA-binding properties, they differ funct
Probab=92.73 E-value=0.75 Score=38.03 Aligned_cols=75 Identities=15% Similarity=0.244 Sum_probs=53.3
Q ss_pred CEEEEEEEEee---ccc------CCCceeEEEEEecCCCCceEEEEEeCCh-hhhccCCCCCcEEEEEe-EEeCCCCC--
Q 018229 48 RQVRVGGWVKT---GRE------QGKGSFAFLEVNDGSCPANLQVIVDKDV-ADLGQLVPTGTCVYVEG-MLKNPPEG-- 114 (359)
Q Consensus 48 k~V~I~GwV~s---iR~------~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~-~~~~~~L~~esvV~V~G-~v~~s~~~-- 114 (359)
..++|+|||-+ +|. .| ++.-++|+|..| ..|++.+..+. ..|...|..|+++.|.| .|+.....
T Consensus 10 ~~~~I~~rV~~k~~~~~f~~~~~~g--~~~~~~l~De~~-~~I~~t~~~~~~~~f~~~l~eG~vy~i~~~~V~~a~~~y~ 86 (104)
T cd04474 10 NKWTIKARVTNKSDIRTWSNARGEG--KLFSFDLLDEDG-GEIRATFFNDAVDKFYDLLEVGKVYYISKGSVKVANKKFN 86 (104)
T ss_pred CcEEEEEEEeeccccccccCCCCCc--EEEEEEEEECCC-CEEEEEEehHHHHHhhcccccccEEEEeccEEeeccccCC
Confidence 46999999974 332 25 788899999944 36999998765 34667899999999975 45444211
Q ss_pred -CcccEEEEEeE
Q 018229 115 -TKQKIELRVQK 125 (359)
Q Consensus 115 -~~g~lEL~a~~ 125 (359)
...++||....
T Consensus 87 ~~~~~yeI~f~~ 98 (104)
T cd04474 87 TLKNDYEITFNR 98 (104)
T ss_pred CCCCcEEEEECC
Confidence 35678887653
No 133
>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=92.66 E-value=1.6 Score=37.80 Aligned_cols=87 Identities=25% Similarity=0.405 Sum_probs=51.4
Q ss_pred eeehhhhcCCCCCCCCCCCEEEEEEEEe--ecccC--CCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEE
Q 018229 30 VLIKSILTRPDGGAGLAGRQVRVGGWVK--TGREQ--GKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVE 105 (359)
Q Consensus 30 ~~i~di~~~~~l~~~~~gk~V~I~GwV~--siR~~--Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~ 105 (359)
.+..++.. .....|+.|+|.|+|. ++... +. .+.|. |.|+. ..+.|+.....+ ...+.|..|.|+
T Consensus 37 ~t~se~~~----~~~~~~~~vrv~G~V~~gSv~~~~~~~-~~~F~-i~D~~--~~i~V~Y~G~~P---d~F~eg~~VVv~ 105 (131)
T PF03100_consen 37 LTPSELAA----EPQKVGRKVRVGGLVVEGSVEYDPDGN-TLTFT-ITDGG--KEIPVVYTGPLP---DLFREGQGVVVE 105 (131)
T ss_dssp E-TTTTTT----TST-TTSEEEEEEEEECTTEEE-TTSS-EEEEE-EE-SS---EEEEEEES--C---TT--TTSEEEEE
T ss_pred cCHHHHhh----ccccCCceEEEeeEEccCCEEEcCCCC-EEEEE-EEECC--cEEEEEECCCCC---ccccCCCeEEEE
Confidence 34555553 1224799999999998 55442 32 68875 78885 469999887643 346779999999
Q ss_pred eEEeCCCCCCcccEEEEEeEEEEeecCCCCCC
Q 018229 106 GMLKNPPEGTKQKIELRVQKVVDVGMVDPAKY 137 (359)
Q Consensus 106 G~v~~s~~~~~g~lEL~a~~i~vLs~a~~~~~ 137 (359)
|.+... + -++++ +||.+|+ ..|
T Consensus 106 G~~~~~-----g--~F~A~--~lL~Kcp-skY 127 (131)
T PF03100_consen 106 GRLGED-----G--VFEAT--ELLAKCP-SKY 127 (131)
T ss_dssp EEECCT-----S--EEEEE--EEEETS-----
T ss_pred EEECCC-----C--EEEEE--EEEeCCC-CCC
Confidence 999322 2 25555 5688886 444
No 134
>KOG2784 consensus Phenylalanyl-tRNA synthetase, beta subunit [Translation, ribosomal structure and biogenesis]
Probab=92.17 E-value=0.055 Score=54.65 Aligned_cols=39 Identities=31% Similarity=0.422 Sum_probs=31.9
Q ss_pred Hccc--cceEEEeceeecCCCCCCCccccccccceeecccCC
Q 018229 318 ACAV--SNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAFSDL 357 (359)
Q Consensus 318 ~~~~--~~Vy~~~p~fRaE~~~t~rHl~EF~mle~E~af~~l 357 (359)
-.+| .|.|+|-.+||||-.| ..||+||.++|--.|-.+|
T Consensus 328 k~~f~p~K~FSIDrVFRNEtvD-aTHLAEFHQVEGviad~gl 368 (483)
T KOG2784|consen 328 KKGFKPAKYFSIDRVFRNETVD-ATHLAEFHQVEGVIADKGL 368 (483)
T ss_pred hCCCCcccccchhhhhhccccc-hHHHHHHhhhceeeecCCC
Confidence 3455 5999999999999998 6899999999876665444
No 135
>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=92.00 E-value=3.1 Score=33.08 Aligned_cols=73 Identities=19% Similarity=0.180 Sum_probs=49.0
Q ss_pred EEEEEEEeec--c--cCCCceeEEEEEecCCCCceEEEEEeC-ChhhhccCCC-CCcEEEEEeEEeCCCCCCcccEEEEE
Q 018229 50 VRVGGWVKTG--R--EQGKGSFAFLEVNDGSCPANLQVIVDK-DVADLGQLVP-TGTCVYVEGMLKNPPEGTKQKIELRV 123 (359)
Q Consensus 50 V~I~GwV~si--R--~~Gk~kl~Fi~LRDgsg~~~lQVVv~~-~~~~~~~~L~-~esvV~V~G~v~~s~~~~~g~lEL~a 123 (359)
|.|.|-|-.+ | +.|+ .+.-+.|.|.+.. +-|..-. +.......|. .|++|.|.|.+....- .+++.+.+
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 6788988665 2 2343 4666899999875 6554433 2222234588 9999999999976642 46777777
Q ss_pred eEEE
Q 018229 124 QKVV 127 (359)
Q Consensus 124 ~~i~ 127 (359)
..+.
T Consensus 77 ~~i~ 80 (82)
T cd04484 77 NDIE 80 (82)
T ss_pred eeEE
Confidence 7664
No 136
>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=91.98 E-value=0.69 Score=38.64 Aligned_cols=59 Identities=24% Similarity=0.299 Sum_probs=38.2
Q ss_pred CCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCC
Q 018229 44 GLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPP 112 (359)
Q Consensus 44 ~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~ 112 (359)
.+.|+.|+|-|+|.+....| +.+-+.-.|+. .++|.+.... .+..+.+|+|.|+|....
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 57899999999999999888 44333333552 5888877653 235689999999997553
No 137
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=91.93 E-value=0.79 Score=47.55 Aligned_cols=76 Identities=16% Similarity=0.196 Sum_probs=62.3
Q ss_pred CEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhh-hccCCCCCcEEEEEeEEeCCCCCCcccEEEEEeEE
Q 018229 48 RQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKV 126 (359)
Q Consensus 48 k~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~-~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i 126 (359)
..|+|.|-|.+++...++ -.|+.|.|.... |+|++.+.... +.-.+.-|.-|.|.|.+..=+ ..|.+-|.++++
T Consensus 24 ~~V~v~GEISn~t~~~sg-H~YFtLKD~~A~--i~c~mf~~~~~~l~f~p~eG~~V~v~G~is~Y~--~rG~YQi~~~~~ 98 (440)
T COG1570 24 GQVWVRGEISNFTRPASG-HLYFTLKDERAQ--IRCVMFKGNNRRLKFRPEEGMQVLVRGKISLYE--PRGDYQIVAESM 98 (440)
T ss_pred CeEEEEEEecCCccCCCc-cEEEEEccCCce--EEEEEEcCcccccCCCccCCCEEEEEEEEEEEc--CCCceEEEEecC
Confidence 579999999999988763 899999999865 99999886532 222478999999999998765 478999999988
Q ss_pred EE
Q 018229 127 VD 128 (359)
Q Consensus 127 ~v 128 (359)
+-
T Consensus 99 ~p 100 (440)
T COG1570 99 EP 100 (440)
T ss_pred Cc
Confidence 64
No 138
>PRK14699 replication factor A; Provisional
Probab=91.10 E-value=1.5 Score=46.12 Aligned_cols=90 Identities=20% Similarity=0.245 Sum_probs=62.6
Q ss_pred eeehhhhcCCCCCCCCCCCEEEEEEEEeec-------ccCCC-ceeEEEEEecCCCCceEEEEEeCChhhhcc--CCCCC
Q 018229 30 VLIKSILTRPDGGAGLAGRQVRVGGWVKTG-------REQGK-GSFAFLEVNDGSCPANLQVIVDKDVADLGQ--LVPTG 99 (359)
Q Consensus 30 ~~i~di~~~~~l~~~~~gk~V~I~GwV~si-------R~~Gk-~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~--~L~~e 99 (359)
..|+||.. .++.|+|.|+|.++ |..|. +++.=+.|-|.||. |.+++..+..+... .|..|
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 35777752 34789999999887 33341 15555689999986 99999886543333 48999
Q ss_pred cEEEEEeEEeCCCCCCcccEEEEEeEEEEeecCC
Q 018229 100 TCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMVD 133 (359)
Q Consensus 100 svV~V~G~v~~s~~~~~g~lEL~a~~i~vLs~a~ 133 (359)
|+|.|.|.++.- -+++||.+.+..++.+..
T Consensus 128 Dvv~I~~~~r~~----~~g~el~~~~~~~i~~~~ 157 (484)
T PRK14699 128 QTLQISGYAKQG----YSGVEVNIGNNGVLTESE 157 (484)
T ss_pred CEEEEcceeccC----CCCceEEeCCCceeeccC
Confidence 999999975432 244788887666666543
No 139
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=91.03 E-value=1.6 Score=44.91 Aligned_cols=79 Identities=19% Similarity=0.204 Sum_probs=62.4
Q ss_pred CCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhh-hccCCCCCcEEEEEeEEeCCCCCCcccEEEEEeE
Q 018229 47 GRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQK 125 (359)
Q Consensus 47 gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~-~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~ 125 (359)
-..|+|.|=|.+.+.+++ +=+|+.|.|... .|-||+.+.... ..-.+..|+-|.|.|.|..-+ ..|.+.|.+.+
T Consensus 23 ~~~v~v~gEis~~~~~~s-GH~Yf~Lkd~~a--~i~~~~~~~~~~~~~~~~~~G~~v~v~g~~~~y~--~~g~~ql~v~~ 97 (438)
T PRK00286 23 LGQVWVRGEISNFTRHSS-GHWYFTLKDEIA--QIRCVMFKGSARRLKFKPEEGMKVLVRGKVSLYE--PRGDYQLIVEE 97 (438)
T ss_pred CCcEEEEEEeCCCeeCCC-CeEEEEEEcCCc--EEEEEEEcChhhcCCCCCCCCCEEEEEEEEEEEC--CCCCEEEEEEE
Confidence 468999999999987643 478899999975 499999886432 223478999999999998654 37889999999
Q ss_pred EEEee
Q 018229 126 VVDVG 130 (359)
Q Consensus 126 i~vLs 130 (359)
|...+
T Consensus 98 i~~~g 102 (438)
T PRK00286 98 IEPAG 102 (438)
T ss_pred eeeCC
Confidence 98654
No 140
>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=90.25 E-value=3.2 Score=32.40 Aligned_cols=53 Identities=19% Similarity=0.211 Sum_probs=41.0
Q ss_pred eeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEE-eEEeCCCCCCcccEEEEEeEE
Q 018229 66 SFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVE-GMLKNPPEGTKQKIELRVQKV 126 (359)
Q Consensus 66 kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~-G~v~~s~~~~~g~lEL~a~~i 126 (359)
++.-+.|.|.+|. |.+++..... ...+..|++|.++ |.+..- .+.++|.+.+.
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 6778899999985 9999887643 4568999999999 777543 47788887653
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=89.97 E-value=1.9 Score=44.53 Aligned_cols=77 Identities=13% Similarity=0.177 Sum_probs=60.7
Q ss_pred EEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhh-hccCCCCCcEEEEEeEEeCCCCCCcccEEEEEeEEE
Q 018229 49 QVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVV 127 (359)
Q Consensus 49 ~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~-~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i~ 127 (359)
.|+|.|-|.+.+.+.+ +=+|+.|.|... .|.||+.+.... ..-.+..|+-|.|.|.|.--+ ..|.+.|.+++++
T Consensus 19 ~v~V~GEisn~~~~~s-GH~YFtLkD~~a--~i~~vmf~~~~~~l~f~~~~G~~V~v~g~v~~y~--~~G~~ql~v~~i~ 93 (432)
T TIGR00237 19 QVWIQGEISNFTQPVS-GHWYFTLKDENA--QVRCVMFRGNNNRLKFRPQNGQQVLVRGGISVYE--PRGDYQIICFEMQ 93 (432)
T ss_pred cEEEEEEecCCeeCCC-ceEEEEEEcCCc--EEEEEEEcChhhCCCCCCCCCCEEEEEEEEEEEC--CCCcEEEEEEEec
Confidence 8999999999987654 468889999875 499999876532 222468999999999997655 3788999999997
Q ss_pred Eee
Q 018229 128 DVG 130 (359)
Q Consensus 128 vLs 130 (359)
..+
T Consensus 94 ~~G 96 (432)
T TIGR00237 94 PAG 96 (432)
T ss_pred cCC
Confidence 544
No 142
>PRK12366 replication factor A; Reviewed
Probab=89.68 E-value=2.7 Score=45.63 Aligned_cols=82 Identities=18% Similarity=0.240 Sum_probs=57.0
Q ss_pred CCCEEEEEEEEeec---cc----CCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCCC--CCc
Q 018229 46 AGRQVRVGGWVKTG---RE----QGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPE--GTK 116 (359)
Q Consensus 46 ~gk~V~I~GwV~si---R~----~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~~--~~~ 116 (359)
.|..++|.|+|-++ |. .|.+++.=+.|.|.+|. |++++..+..+....|..|+++.|.|-..+.-. ...
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 57899999999876 22 22237888999999985 999998875432234678999999875554211 124
Q ss_pred ccEEEEEeEEEEe
Q 018229 117 QKIELRVQKVVDV 129 (359)
Q Consensus 117 g~lEL~a~~i~vL 129 (359)
+.+||.+..-..+
T Consensus 368 ~~~El~~~~~s~I 380 (637)
T PRK12366 368 KRVDLNAGYSSEI 380 (637)
T ss_pred cCEEEEcCCceEE
Confidence 5788888654433
No 143
>PRK12294 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=89.66 E-value=0.83 Score=44.47 Aligned_cols=34 Identities=9% Similarity=0.082 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHHHHHhCCcEEEccCeeecC
Q 018229 163 AAVARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (359)
Q Consensus 163 ~ai~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~ 196 (359)
+.-+..+..+...+++.|.+.||-||.||+|-..
T Consensus 4 ~~~~~~~~~ie~~l~~~f~~~GY~~I~tP~~E~~ 37 (272)
T PRK12294 4 SEQLIALKESETAFLKYFNKADYELVDFSVIEKL 37 (272)
T ss_pred HHHHHHHHHHHHHHHHHHHHcCCeEeeCCcchhH
Confidence 3445667788899999999999999999999543
No 144
>PRK15491 replication factor A; Provisional
Probab=89.35 E-value=3.7 Score=41.79 Aligned_cols=82 Identities=16% Similarity=0.255 Sum_probs=59.2
Q ss_pred CEEEEEEEEeeccc-------CCC-ceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEe-EEeCCCCCCccc
Q 018229 48 RQVRVGGWVKTGRE-------QGK-GSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEG-MLKNPPEGTKQK 118 (359)
Q Consensus 48 k~V~I~GwV~siR~-------~Gk-~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G-~v~~s~~~~~g~ 118 (359)
..|.|.|+|.++-. .|. +++.=+.|-|.+|. |.+.+..+..+....|..|++|.|.+ .++... -.+.
T Consensus 177 ~~V~I~g~V~~~~~~r~~~~~~G~~~~v~~~~l~DetG~--Ir~t~W~~~a~~~~~l~~Gd~V~i~~~~~r~~~--~~g~ 252 (374)
T PRK15491 177 SDINIVGKVLDISDVRTFQKKDGSQGRVRNITIGDETGK--IRVTLWDGKTDLADKLENGDSVEIINGYARTNN--YSQE 252 (374)
T ss_pred ccEEEEEEEEEccCceEEEecCCCeEEEEEEEEECCCCe--EEEEEecchhcccccCCCCCEEEEEeceEEEec--cCCC
Confidence 45999999988742 332 24666889999985 99999887544335689999999976 465432 2578
Q ss_pred EEEEEeEEEEeecCC
Q 018229 119 IELRVQKVVDVGMVD 133 (359)
Q Consensus 119 lEL~a~~i~vLs~a~ 133 (359)
+||.+.+-..+.+|.
T Consensus 253 ~El~~~~~s~I~~~~ 267 (374)
T PRK15491 253 VEIQIGNHGSLRKTD 267 (374)
T ss_pred EEEEeCCCceEEECC
Confidence 999987666676764
No 145
>PRK12366 replication factor A; Reviewed
Probab=89.06 E-value=2.7 Score=45.61 Aligned_cols=84 Identities=18% Similarity=0.247 Sum_probs=60.8
Q ss_pred ceeehhhhcCCCCCCCCCCCEEEEEEEEeec---c----cCC-CceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCc
Q 018229 29 RVLIKSILTRPDGGAGLAGRQVRVGGWVKTG---R----EQG-KGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGT 100 (359)
Q Consensus 29 r~~i~di~~~~~l~~~~~gk~V~I~GwV~si---R----~~G-k~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~es 100 (359)
-+.|++|.. -...|+|.|+|.++ | ..| .+++.=+.|-|.+|. |.+++..+..++...|..|+
T Consensus 63 ~~~I~dl~p--------~~~~v~i~arV~~~~~~r~~~~~~G~eGkv~~~~v~DetG~--Ir~t~W~~~~~~~~~le~G~ 132 (637)
T PRK12366 63 DFKISDIEE--------GQINVEITGRIIEISNIKTFTRKDGSTGKLANITIADNTGT--IRLTLWNDNAKLLKGLKEGD 132 (637)
T ss_pred eeEHHHCcC--------CCcceEEEEEEEEccCCeEEECCCCCccEEEEEEEEcCCCE--EEEEEEchhhhhhccCCCCC
Confidence 346787752 12469999999765 3 222 227888899999985 99999887655556789999
Q ss_pred EEEEEeEEeCCCCCCcccEEEEEeE
Q 018229 101 CVYVEGMLKNPPEGTKQKIELRVQK 125 (359)
Q Consensus 101 vV~V~G~v~~s~~~~~g~lEL~a~~ 125 (359)
+|.|.|-..+.- .+.+||....
T Consensus 133 v~~i~~~~v~~~---~~~~el~~~~ 154 (637)
T PRK12366 133 VIKIENARSRKW---NNDVELNSGS 154 (637)
T ss_pred EEEEeccEeccc---CCceEEEcCC
Confidence 999998765543 5778887653
No 146
>PRK07459 single-stranded DNA-binding protein; Provisional
Probab=88.13 E-value=5.2 Score=34.21 Aligned_cols=52 Identities=21% Similarity=0.268 Sum_probs=38.1
Q ss_pred EEEEEeCChhh-hccCCCCCcEEEEEeEEeCCCC-----C-CcccEEEEEeEEEEeecC
Q 018229 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPE-----G-TKQKIELRVQKVVDVGMV 132 (359)
Q Consensus 81 lQVVv~~~~~~-~~~~L~~esvV~V~G~v~~s~~-----~-~~g~lEL~a~~i~vLs~a 132 (359)
+.|++-.+..+ ..+.|+.|+.|.|+|.+....- + +...+||.+++|..|+..
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 77877765432 4456899999999999986531 1 123689999999999753
No 147
>PRK08486 single-stranded DNA-binding protein; Provisional
Probab=87.74 E-value=3.2 Score=38.21 Aligned_cols=53 Identities=17% Similarity=0.240 Sum_probs=38.6
Q ss_pred EEEEEeCChhh-hccCCCCCcEEEEEeEEeCCCC----C-CcccEEEEEeEEEEeecCC
Q 018229 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKVVDVGMVD 133 (359)
Q Consensus 81 lQVVv~~~~~~-~~~~L~~esvV~V~G~v~~s~~----~-~~g~lEL~a~~i~vLs~a~ 133 (359)
+-|++...... +.+.|++|+-|.|+|.+..+.- + +...+||.+++|.+|+...
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 66776665432 4466999999999999986531 2 3456899999999997653
No 148
>PRK13254 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=87.56 E-value=7.6 Score=34.64 Aligned_cols=76 Identities=29% Similarity=0.451 Sum_probs=53.6
Q ss_pred CCCCEEEEEEEEe--eccc-CCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCCCCCcccEEE
Q 018229 45 LAGRQVRVGGWVK--TGRE-QGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIEL 121 (359)
Q Consensus 45 ~~gk~V~I~GwV~--siR~-~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL 121 (359)
..|+.|+|.|+|. ++.. .+. .+.| .|.|+. ..|.|......+ ...+-|..|-|+|.+... | .+
T Consensus 49 ~~g~~vrvgG~V~~gSi~~~~~~-~~~F-~ltD~~--~~i~V~Y~G~lP---d~F~eg~~VVv~G~~~~~-----g--~F 114 (148)
T PRK13254 49 PAGRRFRLGGLVEKGSVQRGDGL-TVRF-VVTDGN--ATVPVVYTGILP---DLFREGQGVVAEGRLQDG-----G--VF 114 (148)
T ss_pred cCCCeEEEeEEEecCcEEeCCCC-EEEE-EEEeCC--eEEEEEECCCCC---ccccCCCEEEEEEEECCC-----C--eE
Confidence 6799999999995 3433 332 6788 589985 458888876543 245779999999998522 2 25
Q ss_pred EEeEEEEeecCCCCCC
Q 018229 122 RVQKVVDVGMVDPAKY 137 (359)
Q Consensus 122 ~a~~i~vLs~a~~~~~ 137 (359)
+++ +||.+|+ ..|
T Consensus 115 ~A~--~vLaKc~-skY 127 (148)
T PRK13254 115 VAD--EVLAKHD-ENY 127 (148)
T ss_pred EEE--EEEecCC-CCC
Confidence 565 5688997 555
No 149
>PRK00960 seryl-tRNA synthetase; Provisional
Probab=87.56 E-value=0.41 Score=50.68 Aligned_cols=34 Identities=15% Similarity=0.133 Sum_probs=27.7
Q ss_pred HHHHHHHHHHHHHHHH-HHhCCcEEEccCeeecCC
Q 018229 164 AVARIRNALAYATHTF-LQKQGFLYIHTPIITTSD 197 (359)
Q Consensus 164 ai~riRS~I~~~iR~f-L~~~gF~EV~TPiLt~~~ 197 (359)
.-.+++..+.+.+++. +.+.||.||-+|.|.+..
T Consensus 221 ~Ga~L~~aL~~~i~d~~~~k~Gyeev~~P~Li~~e 255 (517)
T PRK00960 221 PMTKLFRAFEKLVIEEVLKPLGFDECLFPKLIPLE 255 (517)
T ss_pred hHHHHHHHHHHHHHHhhHhhcCCeEEECCcccCHH
Confidence 4467888899999877 466699999999998764
No 150
>COG0441 ThrS Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=87.41 E-value=0.39 Score=51.55 Aligned_cols=32 Identities=31% Similarity=0.464 Sum_probs=28.6
Q ss_pred HHHHHHHHHHHHHHHHhCCcEEEccCeeecCC
Q 018229 166 ARIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (359)
Q Consensus 166 ~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~ 197 (359)
..+|..+..++|.-..+.||.||.||.|....
T Consensus 220 ~~ir~~le~y~~~~~~~~Gy~~V~TP~~~~~~ 251 (589)
T COG0441 220 ATIRNLLEDYVRTKLRSYGYQEVKTPVLADLE 251 (589)
T ss_pred ccHHHHHHHHHHHHHHhcCceEecCCeeeecc
Confidence 36899999999999999999999999996643
No 151
>COG3705 HisZ ATP phosphoribosyltransferase involved in histidine biosynthesis [Amino acid transport and metabolism]
Probab=87.05 E-value=0.71 Score=47.28 Aligned_cols=33 Identities=18% Similarity=0.334 Sum_probs=27.4
Q ss_pred HHHHHHHHHHHHHHHHhCCcEEEccCeeecCCC
Q 018229 166 ARIRNALAYATHTFLQKQGFLYIHTPIITTSDC 198 (359)
Q Consensus 166 ~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~~ 198 (359)
.+....|...+++.|..+||..|+||+|...++
T Consensus 17 ~~~~~~i~~~l~~~f~~~Gy~~v~tP~lE~~d~ 49 (390)
T COG3705 17 ARRKEEIRDQLLALFRAWGYERVETPTLEPADP 49 (390)
T ss_pred HhhHHHHHHHHHHHHHHhCCccccccccchhhh
Confidence 345667778888899999999999999987765
No 152
>PRK07211 replication factor A; Reviewed
Probab=86.99 E-value=5 Score=42.31 Aligned_cols=74 Identities=20% Similarity=0.228 Sum_probs=55.7
Q ss_pred CEEEEEEEEeeccc------C---CCceeEEEEEecCCCCceEEEEEeCChh-hhccCCCCCcEEEEEeEEeCCCCCCcc
Q 018229 48 RQVRVGGWVKTGRE------Q---GKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEGTKQ 117 (359)
Q Consensus 48 k~V~I~GwV~siR~------~---Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~~~~~g 117 (359)
..|+|.|+|.++-. . +.+++.=++|-|.+|. |++++..+.. .+...|..|+++.|.|.+++. -+
T Consensus 64 ~~vtI~aRV~~~~~~Rt~~~~~~~~eGkv~~v~l~DeTG~--Ir~TlW~d~ad~~~~~Le~GdV~~I~~~~~~~----ys 137 (485)
T PRK07211 64 DEVKFLAKVLSIGDLRTFERDGEDEDGRVINVEVADETGS--VRVAFWDEQAVAAEEELEVGQVLRIKGRPKDG----YN 137 (485)
T ss_pred CceEEEEEEeEccCceEEEeCCCCCCcEEEEEEEEcCCCe--EEEEEechHhHhhhcccCCCCEEEEeceEecc----cc
Confidence 57999999977632 2 2238888999999986 9999987653 345679999999999987533 34
Q ss_pred cEEEEEeEEE
Q 018229 118 KIELRVQKVV 127 (359)
Q Consensus 118 ~lEL~a~~i~ 127 (359)
.+||.+..+.
T Consensus 138 ~~El~i~~ve 147 (485)
T PRK07211 138 GLEVSVDKVE 147 (485)
T ss_pred ceEEEEeeEE
Confidence 5798888643
No 153
>PRK10917 ATP-dependent DNA helicase RecG; Provisional
Probab=86.91 E-value=4.3 Score=44.26 Aligned_cols=77 Identities=21% Similarity=0.149 Sum_probs=54.6
Q ss_pred CCCCEEEEEEEEeecccC--CCceeEEEEEecCCCCceEEEEEeCChhhh-ccCCCCCcEEEEEeEEeCCCCCCcccEEE
Q 018229 45 LAGRQVRVGGWVKTGREQ--GKGSFAFLEVNDGSCPANLQVIVDKDVADL-GQLVPTGTCVYVEGMLKNPPEGTKQKIEL 121 (359)
Q Consensus 45 ~~gk~V~I~GwV~siR~~--Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~-~~~L~~esvV~V~G~v~~s~~~~~g~lEL 121 (359)
..|+.|+|.|.|.+.+.. ++ ++.-+.+.|++|. +++++-.-...| .+.++.|..+.|.|+|... .+.+++
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 468999999998876433 33 5788899999986 999887311124 4569999999999999763 234555
Q ss_pred EEeEEEE
Q 018229 122 RVQKVVD 128 (359)
Q Consensus 122 ~a~~i~v 128 (359)
.--++.+
T Consensus 130 ~~P~~~~ 136 (681)
T PRK10917 130 VHPEYEV 136 (681)
T ss_pred EcCEEEe
Confidence 5444443
No 154
>PRK07275 single-stranded DNA-binding protein; Provisional
Probab=86.38 E-value=3.6 Score=37.13 Aligned_cols=52 Identities=13% Similarity=0.183 Sum_probs=38.8
Q ss_pred EEEEEeCChhh-hccCCCCCcEEEEEeEEeCCCC----C-CcccEEEEEeEEEEeecC
Q 018229 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKVVDVGMV 132 (359)
Q Consensus 81 lQVVv~~~~~~-~~~~L~~esvV~V~G~v~~s~~----~-~~g~lEL~a~~i~vLs~a 132 (359)
+.|++..+..+ +.+.|++|+.|.|+|.+..+.- + +....||.+++|..|...
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 77888776533 4566899999999999986531 2 334689999999988654
No 155
>PF15072 DUF4539: Domain of unknown function (DUF4539)
Probab=86.37 E-value=6.4 Score=31.99 Aligned_cols=60 Identities=13% Similarity=0.194 Sum_probs=46.7
Q ss_pred EEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh-hhccCCCCCcEEEEEeEEeCCC
Q 018229 49 QVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPP 112 (359)
Q Consensus 49 ~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~ 112 (359)
.=.+.|.|++++..+. =+|+.|+|.+|. +++.+.++.. .+...|..|+++..+-+-..++
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 3458899999999984 479999999996 9999987753 3556788999988775544444
No 156
>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=86.23 E-value=4.7 Score=43.62 Aligned_cols=84 Identities=17% Similarity=0.285 Sum_probs=60.1
Q ss_pred CEEEEEEEEeec---cc----CCCceeEEEEEecCCCCceEEEEEeCChh-hhccCCCCCcEEEEE-eEEeCCCCC---C
Q 018229 48 RQVRVGGWVKTG---RE----QGKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVE-GMLKNPPEG---T 115 (359)
Q Consensus 48 k~V~I~GwV~si---R~----~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~-~~~~~L~~esvV~V~-G~v~~s~~~---~ 115 (359)
..++|+|||.++ |. .|.+++.-++|.|.+|. |++.+..+.. .|...|..|+++.|. |.|+..... .
T Consensus 191 ~~wtIkaRV~~Ks~ir~~~~~~gegkvfsv~L~Degg~--Irat~f~~~~dkf~~~l~eG~VY~Is~~~Vk~an~~y~~~ 268 (608)
T TIGR00617 191 NKWTIKARVTNKSEIRTWSNARGEGKLFNVELLDESGE--IRATAFNEQADKFYDIIQEGKVYYISKGSLKPANKQFTNL 268 (608)
T ss_pred CceEEEEEEEeccccceecCCCCCceeeEEEEecCCCe--EEEEECchHHHHHhhhcccCCEEEECceEEEEccccccCC
Confidence 359999999753 32 22227888999997664 9999988754 466779999999995 566654321 3
Q ss_pred cccEEEEEeEEEEeecCC
Q 018229 116 KQKIELRVQKVVDVGMVD 133 (359)
Q Consensus 116 ~g~lEL~a~~i~vLs~a~ 133 (359)
..++||...+-.++-+|.
T Consensus 269 ~~~yei~f~~~T~I~~~~ 286 (608)
T TIGR00617 269 GNDYEMTLDRDTVIEECE 286 (608)
T ss_pred CCCEEEEECCCeEEEECC
Confidence 467999988777776663
No 157
>PRK06863 single-stranded DNA-binding protein; Provisional
Probab=85.98 E-value=5.2 Score=36.39 Aligned_cols=52 Identities=25% Similarity=0.344 Sum_probs=38.7
Q ss_pred EEEEEeCChh-hhccCCCCCcEEEEEeEEeCCCC----C-CcccEEEEEeEEEEeecC
Q 018229 81 LQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKVVDVGMV 132 (359)
Q Consensus 81 lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~~----~-~~g~lEL~a~~i~vLs~a 132 (359)
+.|++..+.. .+.+.|+.|+.|.|+|.+..+.- + ....+||.+++|.+|+..
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 7777776543 24567999999999999987632 1 234689999999998754
No 158
>PRK06751 single-stranded DNA-binding protein; Provisional
Probab=85.68 E-value=5.8 Score=36.23 Aligned_cols=52 Identities=15% Similarity=0.195 Sum_probs=38.4
Q ss_pred EEEEEeCChh-hhccCCCCCcEEEEEeEEeCCCC----C-CcccEEEEEeEEEEeecC
Q 018229 81 LQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKVVDVGMV 132 (359)
Q Consensus 81 lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~~----~-~~g~lEL~a~~i~vLs~a 132 (359)
+-|++..+.. .+.+.|++|+.|.|+|.+..+.- + +...+||.|+.|.+|...
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 7777776543 24567999999999999987642 1 234689999999988643
No 159
>KOG3108 consensus Single-stranded DNA-binding replication protein A (RPA), medium (30 kD) subunit [Replication, recombination and repair]
Probab=85.48 E-value=6 Score=38.59 Aligned_cols=73 Identities=27% Similarity=0.229 Sum_probs=53.4
Q ss_pred EEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh---hhccCCCCCcEEEEEeEEeCCCCCCcccEEEEEeE
Q 018229 49 QVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA---DLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQK 125 (359)
Q Consensus 49 ~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~---~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~ 125 (359)
.|.+-|||+++-... .=++++|-|++|. |=+....... .....|..|-.|.|.|.++.- .|...|.+.+
T Consensus 70 ~v~~VGivr~~e~~~--t~i~y~I~D~tg~--id~r~W~~~~~~~~e~~~l~~~~yVkv~G~Lk~f----~Gk~sl~~fk 141 (265)
T KOG3108|consen 70 AVSIVGIVRNIEKSA--TNITYEIEDGTGQ--IDVRQWFHDNAESEEMPALETGTYVKVYGHLKPF----QGKKSLQVFK 141 (265)
T ss_pred EEEEEEEEEeceecC--cceEEEEecCccc--EEEEEeccccchhhhCcccccCcEEEeeecccCC----CCceeEEEEe
Confidence 589999999999998 4577899999986 6665544321 134468999999999999744 3455666666
Q ss_pred EEEe
Q 018229 126 VVDV 129 (359)
Q Consensus 126 i~vL 129 (359)
|..+
T Consensus 142 I~pv 145 (265)
T KOG3108|consen 142 IRPV 145 (265)
T ss_pred eeee
Confidence 6443
No 160
>PRK14699 replication factor A; Provisional
Probab=84.42 E-value=6.7 Score=41.35 Aligned_cols=85 Identities=13% Similarity=0.130 Sum_probs=63.2
Q ss_pred CCCEEEEEEEEeecc-------cCC-CceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCCCCCcc
Q 018229 46 AGRQVRVGGWVKTGR-------EQG-KGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQ 117 (359)
Q Consensus 46 ~gk~V~I~GwV~siR-------~~G-k~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~~~~~g 117 (359)
.+..|.|.|+|.++- ..| .+++.=+.|-|++|. |.+.+..+..++...+..|+.|.|.+.-++-. .-.+
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 357899999998652 223 226777899999996 99999887655556788999999876544322 1257
Q ss_pred cEEEEEeEEEEeecCC
Q 018229 118 KIELRVQKVVDVGMVD 133 (359)
Q Consensus 118 ~lEL~a~~i~vLs~a~ 133 (359)
.+||.+.+-.++.++.
T Consensus 362 ~~eL~~~~~t~I~~~~ 377 (484)
T PRK14699 362 QVELNLGARGIIQKSE 377 (484)
T ss_pred cEEEEecCceeEeecC
Confidence 8999999888888875
No 161
>PRK06293 single-stranded DNA-binding protein; Provisional
Probab=84.37 E-value=7.9 Score=35.04 Aligned_cols=52 Identities=13% Similarity=0.132 Sum_probs=37.6
Q ss_pred EEEEEeCChhh-hccCCCCCcEEEEEeEEeCCCC----C-CcccEEEEEeEEEEeecC
Q 018229 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKVVDVGMV 132 (359)
Q Consensus 81 lQVVv~~~~~~-~~~~L~~esvV~V~G~v~~s~~----~-~~g~lEL~a~~i~vLs~a 132 (359)
+.|++..+... ..+.|+.|+.|.|+|.+....- + +...+||.+++|.+|+-.
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 67777665422 3456999999999999986531 2 234689999999998544
No 162
>PRK13150 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=84.28 E-value=13 Score=33.62 Aligned_cols=77 Identities=23% Similarity=0.346 Sum_probs=55.0
Q ss_pred CCCCEEEEEEEEe--ecccCCC-ceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCCCCCcccEEE
Q 018229 45 LAGRQVRVGGWVK--TGREQGK-GSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIEL 121 (359)
Q Consensus 45 ~~gk~V~I~GwV~--siR~~Gk-~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL 121 (359)
..|+.++|.|.|. ++.+.+. ..+.| .|.|+.. .|.|....-.. ...+-|.-|.++|.+.... -+
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 6766442 13666 6899875 59888776543 3467899999999995332 14
Q ss_pred EEeEEEEeecCCCCCC
Q 018229 122 RVQKVVDVGMVDPAKY 137 (359)
Q Consensus 122 ~a~~i~vLs~a~~~~~ 137 (359)
+++ +||.+|+ ..|
T Consensus 122 ~A~--evLAKhd-ekY 134 (159)
T PRK13150 122 LAH--EVLAKHD-ENY 134 (159)
T ss_pred EEe--EEEeCCC-CCC
Confidence 454 6799998 555
No 163
>PRK07135 dnaE DNA polymerase III DnaE; Validated
Probab=83.38 E-value=3.1 Score=47.38 Aligned_cols=64 Identities=14% Similarity=0.074 Sum_probs=50.2
Q ss_pred CCCEEEEEEEEeecccC---CCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCC
Q 018229 46 AGRQVRVGGWVKTGREQ---GKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPP 112 (359)
Q Consensus 46 ~gk~V~I~GwV~siR~~---Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~ 112 (359)
.++.|+|.|.|.++|.. |+ .++|+.|.|.+|. +.+++.++.......+..++++.|+|+...+.
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 46789999999886543 55 6999999999986 99999887543223477889999999887654
No 164
>COG0172 SerS Seryl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=83.20 E-value=2.6 Score=43.69 Aligned_cols=34 Identities=24% Similarity=0.322 Sum_probs=27.8
Q ss_pred HHHHHHHHHHHHHHHHHhCCcEEEccCeeecCCC
Q 018229 165 VARIRNALAYATHTFLQKQGFLYIHTPIITTSDC 198 (359)
Q Consensus 165 i~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~~ 198 (359)
+-++--++++++=++..++||.|+.+|.|+...+
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 4456667788888888899999999999998754
No 165
>PRK13165 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=82.55 E-value=20 Score=32.51 Aligned_cols=77 Identities=19% Similarity=0.369 Sum_probs=54.7
Q ss_pred CCCCEEEEEEEEe--ecccCCCc-eeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCCCCCcccEEE
Q 018229 45 LAGRQVRVGGWVK--TGREQGKG-SFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIEL 121 (359)
Q Consensus 45 ~~gk~V~I~GwV~--siR~~Gk~-kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL 121 (359)
..|+.|+|.|.|. ++.+.+.+ .+.| .|.|+.. .|.|....-.. ...+-|.-|.|+|.+.... .+
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 77665531 2566 6889864 58888776433 3467799999999996321 24
Q ss_pred EEeEEEEeecCCCCCC
Q 018229 122 RVQKVVDVGMVDPAKY 137 (359)
Q Consensus 122 ~a~~i~vLs~a~~~~~ 137 (359)
+++ +||.+|+ ..|
T Consensus 122 ~A~--~vLAKhd-ekY 134 (160)
T PRK13165 122 EAK--EVLAKHD-ENY 134 (160)
T ss_pred EEE--EEEecCC-CCC
Confidence 454 6789997 555
No 166
>COG0442 ProS Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=82.49 E-value=2.3 Score=44.95 Aligned_cols=32 Identities=13% Similarity=0.133 Sum_probs=29.7
Q ss_pred HHHHHHHHHHHHHHHHHhCCcEEEccCeeecC
Q 018229 165 VARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (359)
Q Consensus 165 i~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~ 196 (359)
-+|++.+|.+.+|+-|++.|..||--|+|+++
T Consensus 46 g~rv~~kI~~iir~em~~~G~~Evl~P~L~p~ 77 (500)
T COG0442 46 GLRVLEKIENIIREEMDKIGAQEVLFPTLIPA 77 (500)
T ss_pred HHHHHHHHHHHHHHHHHhcCceEEechhcCHH
Confidence 47899999999999999999999999999983
No 167
>PRK08402 replication factor A; Reviewed
Probab=81.41 E-value=12 Score=37.88 Aligned_cols=87 Identities=18% Similarity=0.226 Sum_probs=57.5
Q ss_pred eeehhhhcCCCCCCCCCCCEEEEEEEEeec---c----cCCC-ceeEEEEEecCCCCceEEEEEeCChh-hhccCCCCCc
Q 018229 30 VLIKSILTRPDGGAGLAGRQVRVGGWVKTG---R----EQGK-GSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGT 100 (359)
Q Consensus 30 ~~i~di~~~~~l~~~~~gk~V~I~GwV~si---R----~~Gk-~kl~Fi~LRDgsg~~~lQVVv~~~~~-~~~~~L~~es 100 (359)
..|+||.. -.+.|.+.|+|.++ | +.|. +++.=+.|-|.||. +.+++..+.. .+...|..|+
T Consensus 63 ~kI~dl~~--------g~~~V~v~~rVl~~~~~r~f~rrdG~~~~V~~i~l~DeTG~--ir~TlW~~~a~~~~~~l~~Gd 132 (355)
T PRK08402 63 MHISDLVP--------GMRGVNIVGRVLRKYPPREYTKKDGSTGRVASLIIYDDTGR--ARVVLWDAKVAKYYNKINVGD 132 (355)
T ss_pred cCHHHccC--------CCceeeEEEEEEEccCCceeeccCCCcceEEEEEEEcCCCe--EEEEEechhhhhhcccCCCCC
Confidence 45777652 23689999999886 3 2332 13444899999986 8998887642 2334589999
Q ss_pred EEEEEe-EEeCCCCCCcccEEEEEeEEEEe
Q 018229 101 CVYVEG-MLKNPPEGTKQKIELRVQKVVDV 129 (359)
Q Consensus 101 vV~V~G-~v~~s~~~~~g~lEL~a~~i~vL 129 (359)
+|.|.| .|+..- .|.+||.+.+-..+
T Consensus 133 vi~I~~a~V~e~~---~G~~eLsvg~~s~i 159 (355)
T PRK08402 133 VIKVIDAQVRESL---SGLPELHINFRARI 159 (355)
T ss_pred EEEEECCEEeecC---CCcEEEEECCCceE
Confidence 999985 554332 45669988654433
No 168
>PRK07217 replication factor A; Reviewed
Probab=81.33 E-value=17 Score=36.25 Aligned_cols=85 Identities=9% Similarity=0.089 Sum_probs=63.5
Q ss_pred CCCEEEEEEEEeec--ccCCCceeEE-EEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCCCCCcccEEEE
Q 018229 46 AGRQVRVGGWVKTG--REQGKGSFAF-LEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELR 122 (359)
Q Consensus 46 ~gk~V~I~GwV~si--R~~Gk~kl~F-i~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~ 122 (359)
.++.|+|.|+|-.+ +.++ .+.+ -.|-|.||. |..+...+.. ...|..|++|.+.+.++..- .|.++|.
T Consensus 81 ~~~~VsV~aKVl~l~e~~~~--si~qvGllgDETG~--IkfT~W~~s~--~~~leeGd~~rI~na~v~ey---~G~~~ln 151 (311)
T PRK07217 81 PEQWVDVTAKVVQLWEPSSD--SIAQVGLLGDETGT--IKFTKWAKSD--LPELEEGKSYLLKNVVTDEY---QGRFSVK 151 (311)
T ss_pred CCCcEEEEEEEEEecCCCCC--ceEEEEEEEcCCce--EEEEEccCCC--CCcccCCCEEEEEeEEEeeE---CCEEEEE
Confidence 47789999999876 4455 5666 568899986 8888766421 23488999999999887664 6789999
Q ss_pred EeEEEEeecCCCCCCCCC
Q 018229 123 VQKVVDVGMVDPAKYPIP 140 (359)
Q Consensus 123 a~~i~vLs~a~~~~~Pi~ 140 (359)
+.+...+...+ .++++.
T Consensus 152 lg~~t~I~~~d-e~IeV~ 168 (311)
T PRK07217 152 LNRTTSIEELD-EDIEVG 168 (311)
T ss_pred eCCceEEEeCC-CCcccc
Confidence 98887777765 455553
No 169
>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=80.64 E-value=1.1 Score=47.18 Aligned_cols=32 Identities=16% Similarity=0.331 Sum_probs=26.1
Q ss_pred cceEEEeceeecCCCCCCCccccccccceeec
Q 018229 322 SNVYTFGPTFRAEHSHTSRHLAEFWMVEPEMA 353 (359)
Q Consensus 322 ~~Vy~~~p~fRaE~~~t~rHl~EF~mle~E~a 353 (359)
-|+|++|.|||.|......|+.+|.++|.=++
T Consensus 208 iRIFsIGRVfRrD~~~DaTHl~eFhQlEGLVV 239 (533)
T TIGR00470 208 LKLFSIDRCFRREQREDRSHLMTYHSASCVVV 239 (533)
T ss_pred eEEEeeeeEEecCCCCCCccCceeeeEEEEEE
Confidence 49999999999996534689999999986443
No 170
>PRK06386 replication factor A; Reviewed
Probab=80.62 E-value=20 Score=36.47 Aligned_cols=76 Identities=14% Similarity=0.062 Sum_probs=51.2
Q ss_pred CCEEEEEEEEeec------ccCCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCCCCCcccEE
Q 018229 47 GRQVRVGGWVKTG------REQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIE 120 (359)
Q Consensus 47 gk~V~I~GwV~si------R~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~~~~~g~lE 120 (359)
...|.|.|+|-.+ ++-+.+.+.=+.|-|.||. |.+++. .+.|..|++|.|.+.....- .|.+|
T Consensus 117 ~~~v~V~akVle~~e~e~~~~g~~~~v~sg~lgDeTGr--Ir~TlW------~~~l~eGd~v~i~na~v~e~---~G~~e 185 (358)
T PRK06386 117 TPYVSVIGKITGITKKEYDSDGTSKIVYQGYIEDDTAR--VRISSF------GKPLEDNRFVRIENARVSQY---NGYIE 185 (358)
T ss_pred CCceEEEEEEEEccCceEecCCCccEEEEEEEEcCCCe--EEEEEc------cccccCCCEEEEeeeEEEcc---CCeEE
Confidence 3457788888654 1111124555566666664 666654 34588999999999886554 68899
Q ss_pred EEEeEEEEeecCC
Q 018229 121 LRVQKVVDVGMVD 133 (359)
Q Consensus 121 L~a~~i~vLs~a~ 133 (359)
|.+.+...+.+.+
T Consensus 186 l~v~~~t~I~~~~ 198 (358)
T PRK06386 186 ISVGNKSVIKEVE 198 (358)
T ss_pred EEeCCeEEEEECC
Confidence 9999888776654
No 171
>PRK08763 single-stranded DNA-binding protein; Provisional
Probab=80.06 E-value=15 Score=33.29 Aligned_cols=52 Identities=17% Similarity=0.291 Sum_probs=37.8
Q ss_pred EEEEEeCChhh-hccCCCCCcEEEEEeEEeCCCC----C-CcccEEEEEeEEEEeecC
Q 018229 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKVVDVGMV 132 (359)
Q Consensus 81 lQVVv~~~~~~-~~~~L~~esvV~V~G~v~~s~~----~-~~g~lEL~a~~i~vLs~a 132 (359)
+.|++-.+..+ ..+.|+.|+.|.|+|.+....- + +...+||.+++|.+|...
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 66777665433 3456999999999999987531 1 234689999999998754
No 172
>PRK07218 replication factor A; Provisional
Probab=79.08 E-value=12 Score=38.81 Aligned_cols=70 Identities=20% Similarity=0.098 Sum_probs=50.1
Q ss_pred CCEEEEEEEEeecc-----cCC-CceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCCCCCcccEE
Q 018229 47 GRQVRVGGWVKTGR-----EQG-KGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIE 120 (359)
Q Consensus 47 gk~V~I~GwV~siR-----~~G-k~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~~~~~g~lE 120 (359)
++.|.|.|+|-++- ..| .+.+.=+.|-|.||. +.+++..+. .|..|++|.|.+-..+.- .|.+|
T Consensus 68 ~~~V~v~~kVl~i~~rt~r~dg~~g~v~~~~igDeTG~--Ir~tlW~~~-----~l~~Gdvv~I~na~vre~---~g~~e 137 (423)
T PRK07218 68 DKNVTVTGRVLTIGERSIRYQGDDHVIYEGILADETGT--ISYTAWKDF-----GLSPGDTVTIGNAGVREW---DGRPE 137 (423)
T ss_pred CceeEEEEEEEEecceeEecCCCceEEEEEEEECCCCe--EEEEEECCC-----CCCCCCEEEEeccEeecc---CCceE
Confidence 57899999998872 112 226777888888886 888887742 389999999998665543 46677
Q ss_pred EEEeEE
Q 018229 121 LRVQKV 126 (359)
Q Consensus 121 L~a~~i 126 (359)
|.+.+-
T Consensus 138 l~ig~~ 143 (423)
T PRK07218 138 LNIGES 143 (423)
T ss_pred EeccCc
Confidence 776433
No 173
>PRK07211 replication factor A; Reviewed
Probab=79.05 E-value=13 Score=39.30 Aligned_cols=80 Identities=28% Similarity=0.345 Sum_probs=57.2
Q ss_pred CCEEEEEEEEeec---c----cCC-CceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEE-eEEeCCCCCCcc
Q 018229 47 GRQVRVGGWVKTG---R----EQG-KGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVE-GMLKNPPEGTKQ 117 (359)
Q Consensus 47 gk~V~I~GwV~si---R----~~G-k~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~-G~v~~s~~~~~g 117 (359)
...|.|.|+|.++ | ..| .+++.=+.|-|.+|. |.+.+..+..+....|..|++|.|. |.|+.. .+
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 4679999999854 2 233 226666889999985 9999988764433568999999997 555432 57
Q ss_pred cEEEEEeEEEEeecC
Q 018229 118 KIELRVQKVVDVGMV 132 (359)
Q Consensus 118 ~lEL~a~~i~vLs~a 132 (359)
++||.+..-..+.++
T Consensus 245 ~~ELsl~~~s~I~~~ 259 (485)
T PRK07211 245 SLELHVGDRGAVEEV 259 (485)
T ss_pred cEEEEECCCceEEEC
Confidence 899988765555554
No 174
>PRK02801 primosomal replication protein N; Provisional
Probab=78.94 E-value=6.8 Score=32.40 Aligned_cols=49 Identities=18% Similarity=0.320 Sum_probs=34.7
Q ss_pred EEEEEeCChhh-hccCCCCCcEEEEEeEEeC-CCCCCcccEEEEEeEEEEe
Q 018229 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKN-PPEGTKQKIELRVQKVVDV 129 (359)
Q Consensus 81 lQVVv~~~~~~-~~~~L~~esvV~V~G~v~~-s~~~~~g~lEL~a~~i~vL 129 (359)
|+||+..+..+ ..+.++.|+.|.|+|.+.. ........+.|+++.|+.+
T Consensus 50 i~~va~G~~Ae~~~~~l~kGs~v~V~G~L~~~~~~~g~~~~~v~~~~i~~l 100 (101)
T PRK02801 50 MPVIVSGNQFQAITQSITVGSKITVQGFISCHQGRNGLSKLVLHAEQIELI 100 (101)
T ss_pred EEEEEEcHHHHHHHhhcCCCCEEEEEEEEEEeECCCCCEEEEEEEEEEEEC
Confidence 88888876543 3456999999999999986 2211223366999988765
No 175
>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=78.13 E-value=5.3 Score=31.58 Aligned_cols=50 Identities=20% Similarity=0.305 Sum_probs=36.1
Q ss_pred eEEEEEeCChh-hhccCCCCCcEEEEEeEEeCCCCC-----CcccEEEEEeEEEEe
Q 018229 80 NLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEG-----TKQKIELRVQKVVDV 129 (359)
Q Consensus 80 ~lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~~~-----~~g~lEL~a~~i~vL 129 (359)
.++|.+..+.. .+.+.++.||.|.|+|.+....-. ....++|.+++|.++
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 48888777643 245679999999999999876421 235688888888653
No 176
>TIGR00643 recG ATP-dependent DNA helicase RecG.
Probab=77.92 E-value=13 Score=40.16 Aligned_cols=63 Identities=21% Similarity=0.208 Sum_probs=46.5
Q ss_pred CCCCEEEEEEEEeeccc--CCCceeEEEEEec-CCCCceEEEEEeCChhhh-ccCCCCCcEEEEEeEEeCC
Q 018229 45 LAGRQVRVGGWVKTGRE--QGKGSFAFLEVND-GSCPANLQVIVDKDVADL-GQLVPTGTCVYVEGMLKNP 111 (359)
Q Consensus 45 ~~gk~V~I~GwV~siR~--~Gk~kl~Fi~LRD-gsg~~~lQVVv~~~~~~~-~~~L~~esvV~V~G~v~~s 111 (359)
..|+.++|.|.|.+... .++.++.-+.+.| ++|. +++++-... | .+.++.|..|.|.|+|...
T Consensus 30 ~~g~~~~~~~~v~~~~~~~~~~~~~~~~~~~d~~~~~--~~~~~F~~~--~~~~~~~~g~~~~~~Gk~~~~ 96 (630)
T TIGR00643 30 LPGERATIVGEVLSHCIFGFKRRKVLKLRLKDGGYKK--LELRFFNRA--FLKKKFKVGSKVVVYGKVKSS 96 (630)
T ss_pred CCCCEEEEEEEEEEeEeccCCCCceEEEEEEECCCCE--EEEEEECCH--HHHhhCCCCCEEEEEEEEEee
Confidence 46899999999875321 1211467788999 8875 999887632 4 3568999999999999754
No 177
>COG1200 RecG RecG-like helicase [DNA replication, recombination, and repair / Transcription]
Probab=77.51 E-value=18 Score=39.69 Aligned_cols=92 Identities=21% Similarity=0.230 Sum_probs=63.2
Q ss_pred cccceeehhhhcCCCCCCCCCCCEEEEEEEEeec--c-cCCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEE
Q 018229 26 FSDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTG--R-EQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCV 102 (359)
Q Consensus 26 ~~~r~~i~di~~~~~l~~~~~gk~V~I~GwV~si--R-~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV 102 (359)
|.++..+..+- ....|+.|+|.|.|.+. + ..++ ++.=+.+.|+++. +-+++-....-..+.++.|..|
T Consensus 45 YeD~~~~~~i~------~~~~g~~vti~g~V~~~~~~~~~~~-~~l~v~~~d~~~~--l~l~fFn~~~~l~~~~~~G~~v 115 (677)
T COG1200 45 YEDRTLLPGIA------EARPGEIVTIEGTVLSHEKFPFGKR-KLLKVTLSDGTGV--LTLVFFNFPAYLKKKLKVGERV 115 (677)
T ss_pred hhhccccCChh------hcCCCceEEEEEEEEeeeccCCCCC-ceEEEEEecCcEE--EEEEEECccHHHHhhCCCCCEE
Confidence 55555444442 34578999999999665 3 3344 5666789998875 8887765432124568999999
Q ss_pred EEEeEEeCCCCCCcccEEEEEeEEEEee
Q 018229 103 YVEGMLKNPPEGTKQKIELRVQKVVDVG 130 (359)
Q Consensus 103 ~V~G~v~~s~~~~~g~lEL~a~~i~vLs 130 (359)
.|.|+|... .+..++.--++.+..
T Consensus 116 ~v~Gk~~~~----~~~~~~~hpe~~~~~ 139 (677)
T COG1200 116 IVYGKVKRF----KGGLQITHPEYIVND 139 (677)
T ss_pred EEEEEEeec----cCceEEEcceEEecC
Confidence 999999864 456777766666654
No 178
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=77.48 E-value=23 Score=33.54 Aligned_cols=83 Identities=19% Similarity=0.203 Sum_probs=56.3
Q ss_pred CEEEEEEEEee---ccc--CCCceeEEEEEe-c----CCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCCC----
Q 018229 48 RQVRVGGWVKT---GRE--QGKGSFAFLEVN-D----GSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPE---- 113 (359)
Q Consensus 48 k~V~I~GwV~s---iR~--~Gk~kl~Fi~LR-D----gsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~~---- 113 (359)
..|.|.|+|-+ +|. .|. .++-+.|- + .+.+ +.|++......+...|+.||-|.|+|.+..+.-
T Consensus 110 N~V~LiGrL~~DPelR~t~~G~-~va~f~lAvnr~~~~td~--i~~v~wg~~Ae~~~~l~KG~~V~V~GrL~sr~y~~k~ 186 (219)
T PRK05813 110 NEIFLDGYICKEPVYRTTPFGR-EIADLLLAVNRPYNKSDY--IPCIAWGRNARFCKTLEVGDNIRVWGRVQSREYQKKL 186 (219)
T ss_pred cEEEEEEEccCCCeEEECCCCC-EEEEEEEEEcCCCCCceE--EEEEEEhHHhHHHhhCCCCCEEEEEEEEEecceEcCC
Confidence 46999999965 243 343 35544444 2 1233 888887765445556999999999999986531
Q ss_pred C-----CcccEEEEEeEEEEeecCC
Q 018229 114 G-----TKQKIELRVQKVVDVGMVD 133 (359)
Q Consensus 114 ~-----~~g~lEL~a~~i~vLs~a~ 133 (359)
+ +...+||.+++++.|+...
T Consensus 187 g~~~g~kr~~~eV~v~~i~~l~~~~ 211 (219)
T PRK05813 187 SEGEVVTKVAYEVSISKMEKVEKEE 211 (219)
T ss_pred CCccceEEEEEEEEEEEEEEcCChh
Confidence 1 1236899999999997653
No 179
>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=77.32 E-value=5.6 Score=42.25 Aligned_cols=35 Identities=20% Similarity=0.141 Sum_probs=27.2
Q ss_pred HHHHHHHHHHHHHHHHH-HhCCcEEEccCeeecCCC
Q 018229 164 AVARIRNALAYATHTFL-QKQGFLYIHTPIITTSDC 198 (359)
Q Consensus 164 ai~riRS~I~~~iR~fL-~~~gF~EV~TPiLt~~~~ 198 (359)
...++...+.+.+++++ .+.||.||-+|.|.+...
T Consensus 221 ~ga~L~rAL~~~~ld~~~~k~Gy~ev~fP~LIp~e~ 256 (520)
T TIGR00415 221 KITALFRALEEFFIEEIVKKIGFQECLFPKLIPLDI 256 (520)
T ss_pred HHHHHHHHHHHHHHHHHHHhcCCeEEeCCcEecHHH
Confidence 34567888888887655 556999999999987653
No 180
>PRK08182 single-stranded DNA-binding protein; Provisional
Probab=76.33 E-value=22 Score=31.49 Aligned_cols=51 Identities=18% Similarity=0.162 Sum_probs=37.2
Q ss_pred EEEEEeCChh-hhccCCCCCcEEEEEeEEeCCCC----C-CcccEEEEEeEEEEeec
Q 018229 81 LQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKVVDVGM 131 (359)
Q Consensus 81 lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~~----~-~~g~lEL~a~~i~vLs~ 131 (359)
+.|++..+.. ...+.|+.|+-|.|+|.+....- + ....+||.+++|.++..
T Consensus 56 ~~V~~wg~~Ae~v~~~l~KG~~V~V~GrL~~~~w~dkdG~~r~~~eI~a~~i~~l~~ 112 (148)
T PRK08182 56 APVELWHRDAEHWARLYQKGMRVLVEGRMERDEWTDNEDNERVTFKVEARRVGILPY 112 (148)
T ss_pred EEEEEEhHHHHHHHHhcCCCCEEEEEEEEEecccCCCCCCEEEEEEEEEeEEEEcCC
Confidence 7777776543 24566999999999999976531 1 23468999999988754
No 181
>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=75.26 E-value=9.2 Score=29.67 Aligned_cols=47 Identities=15% Similarity=0.136 Sum_probs=33.6
Q ss_pred EEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEE
Q 018229 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVE 105 (359)
Q Consensus 51 ~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~ 105 (359)
.|.|+|.++..+| +|+++-- .| +...+..+...+...++.|+.|.+.
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 3899999999999 7899821 12 6667766543333568899988775
No 182
>PRK07218 replication factor A; Provisional
Probab=74.92 E-value=34 Score=35.57 Aligned_cols=76 Identities=16% Similarity=0.116 Sum_probs=52.6
Q ss_pred CCEEEEEEEEeec--c----cCCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCCCCCcccEE
Q 018229 47 GRQVRVGGWVKTG--R----EQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIE 120 (359)
Q Consensus 47 gk~V~I~GwV~si--R----~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~~~~~g~lE 120 (359)
+..|.|.|+|..+ | +-|.+.+.=..|-|.||. |.+++..+. ..|..|++|.|.|-..+.- .|.+|
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 3458899998866 1 113224555568888875 888877653 2478999999999777654 68899
Q ss_pred EEEeEEEEeec
Q 018229 121 LRVQKVVDVGM 131 (359)
Q Consensus 121 L~a~~i~vLs~ 131 (359)
|.+.+-.-+..
T Consensus 243 lnv~~~t~I~~ 253 (423)
T PRK07218 243 VNVSEFTTVEA 253 (423)
T ss_pred EEECCceEEEE
Confidence 99985544443
No 183
>PRK13159 cytochrome c-type biogenesis protein CcmE; Reviewed
Probab=74.91 E-value=36 Score=30.76 Aligned_cols=86 Identities=21% Similarity=0.261 Sum_probs=58.2
Q ss_pred eehhhhcCCCCCCCCCCCEEEEEEEEe--ecccCCCc-eeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeE
Q 018229 31 LIKSILTRPDGGAGLAGRQVRVGGWVK--TGREQGKG-SFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGM 107 (359)
Q Consensus 31 ~i~di~~~~~l~~~~~gk~V~I~GwV~--siR~~Gk~-kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~ 107 (359)
+..++.. .....++.++|.|.|. ++.+.+.+ .+.| .|.|+.. .+.|....-.. ...+-|.-|-++|.
T Consensus 39 tpsEv~~----~~~~~~~~~RlGG~V~~GSv~r~~~~~~v~F-~vtD~~~--~v~V~Y~GilP---DlFrEGqgVVaeG~ 108 (155)
T PRK13159 39 TPSQVRA----GAAAGYQQFRLGGMVKAGSIQRAADSLKVSF-TVIDKNA--ATQVEYTGILP---DLFRDNQSVIANGR 108 (155)
T ss_pred CHHHHhc----CCcccCCeEEEccEEecCcEEEcCCCcEEEE-EEEcCCc--EEEEEEccCCC---ccccCCCeEEEEEE
Confidence 4456652 2234579999999998 77666531 3566 5889864 58888776432 24577999999999
Q ss_pred EeCCCCCCcccEEEEEeEEEEeecCCCCCC
Q 018229 108 LKNPPEGTKQKIELRVQKVVDVGMVDPAKY 137 (359)
Q Consensus 108 v~~s~~~~~g~lEL~a~~i~vLs~a~~~~~ 137 (359)
+. . | -++++ +||.+|+ ..|
T Consensus 109 ~~--~----g--~F~A~--~vLAKHd-e~Y 127 (155)
T PRK13159 109 MQ--G----G--RFVAN--EVLAKHD-ETY 127 (155)
T ss_pred Ec--C----C--EEEEe--EEEecCC-CcC
Confidence 85 1 1 34555 6789997 555
No 184
>PRK06752 single-stranded DNA-binding protein; Validated
Probab=74.90 E-value=8.2 Score=32.29 Aligned_cols=52 Identities=13% Similarity=0.204 Sum_probs=37.6
Q ss_pred EEEEEeCChh-hhccCCCCCcEEEEEeEEeCCCC----C-CcccEEEEEeEEEEeecC
Q 018229 81 LQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKVVDVGMV 132 (359)
Q Consensus 81 lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~~----~-~~g~lEL~a~~i~vLs~a 132 (359)
+.|++-.+.. .+.+.|..||.|.|+|.+..+.- + ....+||.+++|.+|+..
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 6666665532 34567899999999999987632 1 224689999999998754
No 185
>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=72.11 E-value=37 Score=29.35 Aligned_cols=96 Identities=20% Similarity=0.145 Sum_probs=59.6
Q ss_pred eeehhhhcCCCCCCCCCCCEEEEEEEEeec----ccCCCceeEEEEEecCCCC--ceEEEEEeCChhhhccCCCCCcEEE
Q 018229 30 VLIKSILTRPDGGAGLAGRQVRVGGWVKTG----REQGKGSFAFLEVNDGSCP--ANLQVIVDKDVADLGQLVPTGTCVY 103 (359)
Q Consensus 30 ~~i~di~~~~~l~~~~~gk~V~I~GwV~si----R~~Gk~kl~Fi~LRDgsg~--~~lQVVv~~~~~~~~~~L~~esvV~ 103 (359)
+.|+++. ...|+.|-|.|=|... |..|+.-.+-+.|.|.++. ..|.|.+-.+.......+..||+|.
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 TPLSSAL-------KESGGSVNVIGVVVDAGPPVRSKGTDYCCTLTITDPSLANSDGLTVKLFRPNEESLPIVKVGDIIL 76 (138)
T ss_pred EeHHHHH-------hccCCeEEEEEEEeecCCCcccCCCcEEEEEEEECCCCCCCCcEEEEEECCChhhCCCCCCCCEEE
Confidence 4566665 1468889999999875 3344445667789999872 5688877666433333458999999
Q ss_pred EEeEEeCCCCCCcccEEEE-EeEEEEeecC
Q 018229 104 VEGMLKNPPEGTKQKIELR-VQKVVDVGMV 132 (359)
Q Consensus 104 V~G~v~~s~~~~~g~lEL~-a~~i~vLs~a 132 (359)
+.+.-...-.+....+--. ..++-|....
T Consensus 77 l~~~kv~~~~g~~~~~~~~~~ss~avf~~~ 106 (138)
T cd04497 77 LRRVKIQSYNGKPQGISNDRGSSWAVFRGD 106 (138)
T ss_pred EEEEEEEEECCceEEEECCCceeEEEEcCC
Confidence 9997655542222222111 3345565544
No 186
>PRK06958 single-stranded DNA-binding protein; Provisional
Probab=70.71 E-value=7 Score=36.08 Aligned_cols=52 Identities=21% Similarity=0.344 Sum_probs=38.7
Q ss_pred EEEEEeCChh-hhccCCCCCcEEEEEeEEeCCCC----C-CcccEEEEEeEEEEeecC
Q 018229 81 LQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKVVDVGMV 132 (359)
Q Consensus 81 lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~~----~-~~g~lEL~a~~i~vLs~a 132 (359)
+.|++..+.. .+.+.|++|+.|.|+|.+..+.- + +...+||.+++|.+|...
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 7777766543 24567999999999999986531 1 345799999999999754
No 187
>COG3689 Predicted membrane protein [Function unknown]
Probab=70.45 E-value=24 Score=34.53 Aligned_cols=89 Identities=19% Similarity=0.191 Sum_probs=60.3
Q ss_pred CCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhh----h--ccCCCCCcEEEEEeEEeCCCCC-
Q 018229 42 GAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD----L--GQLVPTGTCVYVEGMLKNPPEG- 114 (359)
Q Consensus 42 ~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~----~--~~~L~~esvV~V~G~v~~s~~~- 114 (359)
..+..|++|.+.|+|.+=-..++ +-.| ..|= |+ +-|+++..... . ...++..++|.|+|++....-.
T Consensus 170 pdef~Gk~Ie~tGFVy~~~~~~~-N~lf-laRF--gi--icC~ADa~vygl~v~~~~~~~y~ndtWltvkGtl~~e~~~~ 243 (271)
T COG3689 170 PDEFAGKKIEFTGFVYNDESFPK-NYLF-LARF--GI--ICCAADAGVYGLLVELDNQTDYKNDTWLTVKGTLSSEYLSD 243 (271)
T ss_pred chhhcCceEEEEEEEECCCCCCc-ceee-hhhh--he--eeeeccceeEEEEEEccccccCCCCceEEEEeEEEeeecCc
Confidence 45788999999999998666664 3444 3554 33 66666654311 1 2348899999999999765321
Q ss_pred -CcccEEEEEeEEEEeecCCCCCC
Q 018229 115 -TKQKIELRVQKVVDVGMVDPAKY 137 (359)
Q Consensus 115 -~~g~lEL~a~~i~vLs~a~~~~~ 137 (359)
...-.-|++++++++-++. .||
T Consensus 244 ~~~~ipvi~v~sv~~I~kP~-nPY 266 (271)
T COG3689 244 FKKRIPVIEVDSVEVIPKPA-NPY 266 (271)
T ss_pred hhhcCcEEEeeeeeecCCCC-CCc
Confidence 2345678999999997765 444
No 188
>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=70.05 E-value=3.5 Score=33.00 Aligned_cols=49 Identities=22% Similarity=0.483 Sum_probs=31.3
Q ss_pred EEEEEeCChhh-hccCCCCCcEEEEEeEEeCCC----CC-CcccEEEEEeEEEEe
Q 018229 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPP----EG-TKQKIELRVQKVVDV 129 (359)
Q Consensus 81 lQVVv~~~~~~-~~~~L~~esvV~V~G~v~~s~----~~-~~g~lEL~a~~i~vL 129 (359)
++|++..+..+ +.+.+..||.|.|+|.+.... .+ ....+||.+++|.+|
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 345589999999999987643 12 245689999999875
No 189
>PRK00448 polC DNA polymerase III PolC; Validated
Probab=68.71 E-value=41 Score=40.22 Aligned_cols=82 Identities=17% Similarity=0.246 Sum_probs=53.8
Q ss_pred CCCEEEEEEEEeec--ccCCCc-eeEEEEEecCCCCceEEEEEeCCh-hhhccCCCCCcEEEEEeEEeCCCCCCcccEEE
Q 018229 46 AGRQVRVGGWVKTG--REQGKG-SFAFLEVNDGSCPANLQVIVDKDV-ADLGQLVPTGTCVYVEGMLKNPPEGTKQKIEL 121 (359)
Q Consensus 46 ~gk~V~I~GwV~si--R~~Gk~-kl~Fi~LRDgsg~~~lQVVv~~~~-~~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL 121 (359)
.+..|+|.|.|-.+ |..+++ .+.=+.|.|.+..-.+...+..+. ......|+.|++|.|.|.+.... -.+++.+
T Consensus 235 ~~~~v~i~G~if~~e~~~~k~~~~~~~~~~td~~~s~~~k~f~~~~~~~~~~~~~~~g~~v~~~g~~~~d~--~~~~~~~ 312 (1437)
T PRK00448 235 EERRVVVEGYVFKVEIKELKSGRHILTFKITDYTSSIIVKKFSRDKEDLKKFDEIKKGDWVKVRGSVQNDT--FTRDLVM 312 (1437)
T ss_pred cCCeEEEEEEEEEEEEEeccCCCEEEEEEEEcCCCCEEEEEEecCcchhHHHhcCCCCCEEEEEEEEeccC--CCCceEE
Confidence 35689999999775 333321 355578899987633444442221 22345689999999999998765 2567777
Q ss_pred EEeEEEEe
Q 018229 122 RVQKVVDV 129 (359)
Q Consensus 122 ~a~~i~vL 129 (359)
.+..+..+
T Consensus 313 ~~~~~~~~ 320 (1437)
T PRK00448 313 NAQDINEI 320 (1437)
T ss_pred Eeeeeeec
Confidence 77776654
No 190
>PRK05733 single-stranded DNA-binding protein; Provisional
Probab=67.52 E-value=40 Score=30.78 Aligned_cols=51 Identities=27% Similarity=0.355 Sum_probs=36.3
Q ss_pred EEEEEeCChh-hhccCCCCCcEEEEEeEEeCCCC---C-CcccEEEEEe---EEEEeec
Q 018229 81 LQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPE---G-TKQKIELRVQ---KVVDVGM 131 (359)
Q Consensus 81 lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~~---~-~~g~lEL~a~---~i~vLs~ 131 (359)
+-|++-.+.. .+.+.|+.|+.|.|+|.+..+.- + ....+||.++ .|.+|+.
T Consensus 55 ~~Vv~fgk~Ae~v~~~l~KGs~V~VeGrLr~~~y~kdG~~r~~~eVvvd~~g~v~~L~~ 113 (172)
T PRK05733 55 HRVSLFGKVAEIAGEYLRKGSQVYIEGKLQTREWEKDGIKRYTTEIVVDMQGTMQLLGG 113 (172)
T ss_pred EEEEEehHHHHHHHHHhCCCCEEEEEEEEEeCcEecCCEEEEEEEEEEeecCeEEECcC
Confidence 7777766542 24567999999999999987642 1 2346788888 7888863
No 191
>PRK00036 primosomal replication protein N; Reviewed
Probab=67.44 E-value=15 Score=31.11 Aligned_cols=51 Identities=24% Similarity=0.274 Sum_probs=38.7
Q ss_pred EEEEEeCChhhhccCCCCCcEEEEEeEEeCCCCCCcccEEEEEeEEEEeecC
Q 018229 81 LQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVGMV 132 (359)
Q Consensus 81 lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i~vLs~a 132 (359)
||+|+..........++.|+.|.|+|.+..+. .....+=||++.|+.+...
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 88888875443345699999999999998643 2456788999999888443
No 192
>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=66.43 E-value=31 Score=25.38 Aligned_cols=51 Identities=18% Similarity=0.157 Sum_probs=38.8
Q ss_pred EEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEE
Q 018229 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVE 105 (359)
Q Consensus 51 ~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~ 105 (359)
.|.|.|..++..| -++.++|.....-..|.|-++.+. ....+..|+.|.+.
T Consensus 6 ~l~a~V~~v~~~G--~~vRlEl~~~~~~~~iEvel~~~~--~~l~l~~G~~V~l~ 56 (58)
T PF12857_consen 6 GLPARVRRVRPVG--PEVRLELKRLDDGEPIEVELPRER--RQLGLQPGDRVYLR 56 (58)
T ss_pred cEeEEEEEEEecC--CeEEEEEEECCCCCEEEEEeCHhH--HhcCCCCCCEEEEE
Confidence 3788999999999 799999976632257999988775 23345669998775
No 193
>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=66.21 E-value=11 Score=33.72 Aligned_cols=52 Identities=25% Similarity=0.389 Sum_probs=37.7
Q ss_pred EEEEEeCChh-hhccCCCCCcEEEEEeEEeCCCC----C-CcccEEEEEeEEEEeecC
Q 018229 81 LQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKVVDVGMV 132 (359)
Q Consensus 81 lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~~----~-~~g~lEL~a~~i~vLs~a 132 (359)
+.|++-.+.. .+.+.|++|+.|.|+|.+..+.- + +...+||.+++|..|...
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 7777766543 24567999999999999986531 2 235689999999877643
No 194
>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=65.37 E-value=22 Score=37.32 Aligned_cols=31 Identities=10% Similarity=0.150 Sum_probs=25.5
Q ss_pred ceEEEeceeecCCCCCCCccccccccceeecc
Q 018229 323 NVYTFGPTFRAEHSHTSRHLAEFWMVEPEMAF 354 (359)
Q Consensus 323 ~Vy~~~p~fRaE~~~t~rHl~EF~mle~E~af 354 (359)
++...|.|||.+..| +.|.+-|.|+|--+.+
T Consensus 135 ~~i~~G~VYRrD~iD-atH~p~FHQ~EG~~v~ 165 (460)
T TIGR00469 135 GFLISADVYRRDEID-KTHYPVFHQADGAAIR 165 (460)
T ss_pred eeEeecceeeCCCCc-cccCccceeeEEEEEe
Confidence 378889999999987 6899999999954433
No 195
>PRK06642 single-stranded DNA-binding protein; Provisional
Probab=65.34 E-value=44 Score=29.76 Aligned_cols=51 Identities=22% Similarity=0.386 Sum_probs=35.1
Q ss_pred EEEEEeCC-hhh-hccCCCCCcEEEEEeEEeCCCC----C-CcccEEEEEeEE----EEeec
Q 018229 81 LQVIVDKD-VAD-LGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKV----VDVGM 131 (359)
Q Consensus 81 lQVVv~~~-~~~-~~~~L~~esvV~V~G~v~~s~~----~-~~g~lEL~a~~i----~vLs~ 131 (359)
+.|++-.+ ... ..+.|+.|+.|.|+|.+..+.- + +....||.+++| ..|..
T Consensus 55 ~~v~~~g~~~Ae~~~~~l~KG~~V~V~GrL~~~~y~dkdG~~r~~~eVvv~~~~~~i~fl~~ 116 (152)
T PRK06642 55 HRVVIFSEGLVSVVERYVTKGSKLYIEGSLQTRKWNDNSGQEKYTTEVVLQNFNSQLILLDS 116 (152)
T ss_pred EEEEEeChHHHHHHHHhCCCCCEEEEEEEEEeCeeECCCCCEEEEEEEEEEecccceEeccC
Confidence 77777664 322 4566999999999999986531 1 234678988876 56654
No 196
>COG1571 Predicted DNA-binding protein containing a Zn-ribbon domain [General function prediction only]
Probab=65.00 E-value=26 Score=36.37 Aligned_cols=73 Identities=21% Similarity=0.294 Sum_probs=53.1
Q ss_pred CCEEEEEEEEeec--ccCCCceeEEEEEecCCCCceEEEEEeCChh---hhccCCCCCcEEEEEeEEeCCCCCCcccEEE
Q 018229 47 GRQVRVGGWVKTG--REQGKGSFAFLEVNDGSCPANLQVIVDKDVA---DLGQLVPTGTCVYVEGMLKNPPEGTKQKIEL 121 (359)
Q Consensus 47 gk~V~I~GwV~si--R~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~---~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL 121 (359)
...++|.|.|... ..-| +..|+.+.|+.|. |-++.-.... ..+..|.+||.|.+-|.++.. . |
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 4568888988653 4456 7999999999985 8888765432 345678999999999998633 2 6
Q ss_pred EEeEEEEeec
Q 018229 122 RVQKVVDVGM 131 (359)
Q Consensus 122 ~a~~i~vLs~ 131 (359)
.+++++++.-
T Consensus 334 n~ek~~v~~l 343 (421)
T COG1571 334 NLEKFQVLKL 343 (421)
T ss_pred eEEEEEEEEe
Confidence 6667766543
No 197
>PRK04036 DNA polymerase II small subunit; Validated
Probab=64.76 E-value=27 Score=36.87 Aligned_cols=61 Identities=28% Similarity=0.407 Sum_probs=45.4
Q ss_pred CCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhh---hccCCCCCcEEEEEeEEe
Q 018229 46 AGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD---LGQLVPTGTCVYVEGMLK 109 (359)
Q Consensus 46 ~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~---~~~~L~~esvV~V~G~v~ 109 (359)
.++++.|-|-|..+|.-+++ -..+.|-|.+|. +++++.++..+ ....+-.|.+|.|.|.+.
T Consensus 152 ~~~~~~viG~v~~~~~~~~g-~~~~~LED~sgr--v~l~~~~~~~~~~~~~~~lvtg~vv~v~G~~~ 215 (504)
T PRK04036 152 GGEEVSIIGMVSDIRSTKNG-HKIVELEDTTGT--FPVLIMKDREDLAELADELLLDEVIGVEGTLS 215 (504)
T ss_pred CCceEEEEEEEEEeecccCC-ceEEEEECCCCe--EEEEeecchhhhhhhhhcccCceEEEEEEEEc
Confidence 56889999999999865432 224789999987 99998654312 223467899999999875
No 198
>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=63.40 E-value=55 Score=25.73 Aligned_cols=71 Identities=21% Similarity=0.220 Sum_probs=39.3
Q ss_pred EEEEEEeecccCCCceeEEEEEecCCCCce---EE-EEEeCChhhhccCCCCCcEEEEEeEEeCCCCCCcccEEEEEeE-
Q 018229 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPAN---LQ-VIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQK- 125 (359)
Q Consensus 51 ~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~---lQ-VVv~~~~~~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~- 125 (359)
+|.|.|..+...+. .-.|. |.|..+-.. -. +.+.... ...+..||.|.|+|+|..-. +..||...+
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 36788888766431 12355 666521100 00 1111110 24578999999999998653 456666644
Q ss_pred EEEee
Q 018229 126 VVDVG 130 (359)
Q Consensus 126 i~vLs 130 (359)
+++++
T Consensus 72 ~~~~~ 76 (78)
T cd04486 72 IEVLG 76 (78)
T ss_pred eEEec
Confidence 55554
No 199
>PRK07080 hypothetical protein; Validated
Probab=61.43 E-value=3.5 Score=41.15 Aligned_cols=28 Identities=25% Similarity=0.240 Sum_probs=24.3
Q ss_pred ceEEE-eceeecCCCCCCCccccccccce
Q 018229 323 NVYTF-GPTFRAEHSHTSRHLAEFWMVEP 350 (359)
Q Consensus 323 ~Vy~~-~p~fRaE~~~t~rHl~EF~mle~ 350 (359)
++|.. |.|||.|.++..+-+.||.|.|.
T Consensus 153 ~~~dv~g~CFR~E~s~dl~Rl~~F~mrE~ 181 (317)
T PRK07080 153 RLVDVASYCFRHEPSLDPARMQLFRMREY 181 (317)
T ss_pred cEEEeeeeeeccCCCCCcHHHhheeeeEE
Confidence 66664 89999999998888999999985
No 200
>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=60.83 E-value=15 Score=42.17 Aligned_cols=37 Identities=32% Similarity=0.565 Sum_probs=30.3
Q ss_pred CCCEEEEEEEEeecccC-----CCceeEEEEEecCCCCceEEEEE
Q 018229 46 AGRQVRVGGWVKTGREQ-----GKGSFAFLEVNDGSCPANLQVIV 85 (359)
Q Consensus 46 ~gk~V~I~GwV~siR~~-----Gk~kl~Fi~LRDgsg~~~lQVVv 85 (359)
.|..|++.|+|.++|.. |+ .++|+.|.|.+|. +.+++
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 46789999999876653 33 5999999999997 99886
No 201
>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=59.45 E-value=75 Score=37.47 Aligned_cols=79 Identities=11% Similarity=0.225 Sum_probs=53.9
Q ss_pred CCCEEEEEEEEeec--c--cCCCceeEEEEEecCCCCceEEEEEeC--Ch-hhhccCCCCCcEEEEEeEEeCCCCCCccc
Q 018229 46 AGRQVRVGGWVKTG--R--EQGKGSFAFLEVNDGSCPANLQVIVDK--DV-ADLGQLVPTGTCVYVEGMLKNPPEGTKQK 118 (359)
Q Consensus 46 ~gk~V~I~GwV~si--R--~~Gk~kl~Fi~LRDgsg~~~lQVVv~~--~~-~~~~~~L~~esvV~V~G~v~~s~~~~~g~ 118 (359)
.+..|+|.|.|-.+ | +.|+ .+.-+.|.|.+.. |.|..-. +. ......|+.|+.|.|.|.+.... -.++
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 35689999999764 2 2343 4656889999875 5554433 21 12335689999999999998664 2567
Q ss_pred EEEEEeEEEEe
Q 018229 119 IELRVQKVVDV 129 (359)
Q Consensus 119 lEL~a~~i~vL 129 (359)
+.+.+.+|..+
T Consensus 81 ~~~~~~~~~~~ 91 (1213)
T TIGR01405 81 LQMIIKDIEEI 91 (1213)
T ss_pred eEEEeeeeeec
Confidence 77777777654
No 202
>KOG2324 consensus Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=58.55 E-value=14 Score=37.78 Aligned_cols=31 Identities=26% Similarity=0.326 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHHhCCcEEEccCeeecC
Q 018229 166 ARIRNALAYATHTFLQKQGFLYIHTPIITTS 196 (359)
Q Consensus 166 ~riRS~I~~~iR~fL~~~gF~EV~TPiLt~~ 196 (359)
+|.-.+++..++.-|+.-|=.+|.-|+|++.
T Consensus 52 ~R~~~K~~~~l~~~mqs~Ga~kIslp~ls~~ 82 (457)
T KOG2324|consen 52 LRVLNKLCRLLDNEMQSGGAQKISLPILSSK 82 (457)
T ss_pred HHHHHHHHHHHHHHHHhccCeeEeecccChH
Confidence 4667789999999999999999999999754
No 203
>PRK07274 single-stranded DNA-binding protein; Provisional
Probab=58.50 E-value=24 Score=30.45 Aligned_cols=51 Identities=20% Similarity=0.298 Sum_probs=36.6
Q ss_pred EEEEEeCChhh-hccCCCCCcEEEEEeEEeCCCC---C-CcccEEEEEeEEEEeec
Q 018229 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPE---G-TKQKIELRVQKVVDVGM 131 (359)
Q Consensus 81 lQVVv~~~~~~-~~~~L~~esvV~V~G~v~~s~~---~-~~g~lEL~a~~i~vLs~ 131 (359)
+-|++-....+ ..+.|++|+.|.|+|.+..+.- + +...+||.++++.+|..
T Consensus 49 ~~v~~fg~~Ae~v~~~l~KG~~V~V~Grl~~~~y~kdG~~~~~~eviv~~i~~l~~ 104 (131)
T PRK07274 49 INVVLWGKLAETLASYASKGSLISIDGELRTRKYEKDGQTHYVTEVLCQSFQLLES 104 (131)
T ss_pred EEEEEehHHHHHHHHHcCCCCEEEEEEEEEeccCccCCcEEEEEEEEEEEEEECcC
Confidence 56666554322 4566999999999999987642 1 23468999999998863
No 204
>PF13567 DUF4131: Domain of unknown function (DUF4131)
Probab=58.37 E-value=73 Score=26.64 Aligned_cols=62 Identities=24% Similarity=0.389 Sum_probs=38.1
Q ss_pred CCEEEEEEEEeecccCCCceeEEEEEe------cCC---CCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCC
Q 018229 47 GRQVRVGGWVKTGREQGKGSFAFLEVN------DGS---CPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPP 112 (359)
Q Consensus 47 gk~V~I~GwV~siR~~Gk~kl~Fi~LR------Dgs---g~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~ 112 (359)
++.+++.|.|.+......+..-|. ++ .+. ....+++...++.. ..+..||.|.++|++...+
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 889999999988755443233233 22 111 11225555554421 1478999999999998654
No 205
>PF15490 Ten1_2: Telomere-capping, CST complex subunit
Probab=56.13 E-value=1.3e+02 Score=25.83 Aligned_cols=89 Identities=21% Similarity=0.200 Sum_probs=55.3
Q ss_pred eeehhhhcCCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEe
Q 018229 30 VLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLK 109 (359)
Q Consensus 30 ~~i~di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~ 109 (359)
+++.+|. -+....|+.|++-|++++.-..- .++=|.=...++ .-|+.++-+... .-..+.||.+.|.|.+.
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--QHSLKVDTKLLE-PFQARVGSLYQFIGELE 78 (118)
T ss_pred EehHHhc----CccccCCCeEEEEEEEEEEeccC--CEEEEEeeccCC--CcEEEEEeeEcc-ccccCCCCEEEEEEEEE
Confidence 3455552 13456899999999999987776 454332222222 256666654311 11247999999999998
Q ss_pred CCCCCCcccEEEEEeEEEEe
Q 018229 110 NPPEGTKQKIELRVQKVVDV 129 (359)
Q Consensus 110 ~s~~~~~g~lEL~a~~i~vL 129 (359)
..+ ..++..|++.=++++
T Consensus 79 ~~~--~~~~~~L~ARV~r~V 96 (118)
T PF15490_consen 79 HQP--QDGGIVLKARVLRCV 96 (118)
T ss_pred EEc--CCCcEEEEEEEEEec
Confidence 773 256677777544444
No 206
>PRK09010 single-stranded DNA-binding protein; Provisional
Probab=55.85 E-value=25 Score=32.31 Aligned_cols=52 Identities=23% Similarity=0.364 Sum_probs=35.7
Q ss_pred EEEEEeCChhh-hccCCCCCcEEEEEeEEeCCCC-C----CcccEEEEEe---EEEEeecC
Q 018229 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPPE-G----TKQKIELRVQ---KVVDVGMV 132 (359)
Q Consensus 81 lQVVv~~~~~~-~~~~L~~esvV~V~G~v~~s~~-~----~~g~lEL~a~---~i~vLs~a 132 (359)
+.|++..+... +.+.|++|+.|.|+|.+..+.- . ....+||.+. ++..|+..
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 4567999999999999986632 1 2345788776 67777643
No 207
>PRK13732 single-stranded DNA-binding protein; Provisional
Probab=55.20 E-value=23 Score=32.48 Aligned_cols=53 Identities=26% Similarity=0.398 Sum_probs=37.3
Q ss_pred EEEEEeCChh-hhccCCCCCcEEEEEeEEeCCCC---C-CcccEEEEEe---EEEEeecCC
Q 018229 81 LQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPE---G-TKQKIELRVQ---KVVDVGMVD 133 (359)
Q Consensus 81 lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~~---~-~~g~lEL~a~---~i~vLs~a~ 133 (359)
+-|++-.+.. ...+.|+.|+.|.|+|.+..+.- + +...+||.++ +|.+|++..
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 5666666542 24566999999999999876531 2 2346889998 888887653
No 208
>PRK05813 single-stranded DNA-binding protein; Provisional
Probab=54.48 E-value=37 Score=32.17 Aligned_cols=83 Identities=19% Similarity=0.197 Sum_probs=53.6
Q ss_pred CCCEEEEEEEEeec---ccCCCceeEEEEE-------ecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEe-C-CC-
Q 018229 46 AGRQVRVGGWVKTG---REQGKGSFAFLEV-------NDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLK-N-PP- 112 (359)
Q Consensus 46 ~gk~V~I~GwV~si---R~~Gk~kl~Fi~L-------RDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~-~-s~- 112 (359)
.+..|.|.|+|.+= |--.. +-.|..+ ++...+ |.|++.....+... +..|+.|.|+|.++ - ..
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 46678999998642 22111 2334332 244444 88888876544333 89999999999998 1 11
Q ss_pred CC-CcccEEEEEeEEEEeecC
Q 018229 113 EG-TKQKIELRVQKVVDVGMV 132 (359)
Q Consensus 113 ~~-~~g~lEL~a~~i~vLs~a 132 (359)
.+ +.--+||.+.+|+.|.+.
T Consensus 83 ~G~~R~vl~V~a~~i~~l~~~ 103 (219)
T PRK05813 83 DGKNRLILTVFARNIEYCDER 103 (219)
T ss_pred CCcEEEEEEEEEEEEEEccCC
Confidence 12 334589999999988764
No 209
>PF11736 DUF3299: Protein of unknown function (DUF3299); InterPro: IPR021727 This is a family of bacterial proteins of unknown function.
Probab=51.14 E-value=1.4e+02 Score=26.46 Aligned_cols=82 Identities=23% Similarity=0.259 Sum_probs=46.7
Q ss_pred CCCCCCCEEEEEEEEeecccCCCceeEEEEEecCC-CC--------ceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCC
Q 018229 42 GAGLAGRQVRVGGWVKTGREQGKGSFAFLEVNDGS-CP--------ANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPP 112 (359)
Q Consensus 42 ~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgs-g~--------~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~ 112 (359)
...+.|+.|+|.|+|.=+...+.+---|+-+.+-. |. +.|.|...+.. ..-..-+.|.|+|++....
T Consensus 50 v~~L~Gk~V~i~Gf~vPle~~~~~v~eFlLvP~~gaC~h~PpPppNqiV~V~~~~~~----~~~~~~~pv~V~G~l~~~~ 125 (146)
T PF11736_consen 50 VKALDGKQVRIPGFMVPLEQEEGKVTEFLLVPYFGACIHVPPPPPNQIVHVKMPKPI----PVDSLYDPVWVEGTLKVER 125 (146)
T ss_pred hHHhCCCEEEEeeEEEeeccCCCcEEEEEEeccCCcCcCCCCCCCccEEEEEeCCCc----cccccceeEEEEEEEEecc
Confidence 35678999999999998876442134788777733 21 11222222211 1112347899999998765
Q ss_pred CC---CcccEEEEEeEEE
Q 018229 113 EG---TKQKIELRVQKVV 127 (359)
Q Consensus 113 ~~---~~g~lEL~a~~i~ 127 (359)
.. ....+.+.+.+|+
T Consensus 126 ~~~~~~~~~Y~m~a~~v~ 143 (146)
T PF11736_consen 126 SSSDLGTSGYSMDADSVE 143 (146)
T ss_pred ccchheeEEEEEEeeEEE
Confidence 21 2234555555543
No 210
>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=48.79 E-value=64 Score=24.08 Aligned_cols=48 Identities=19% Similarity=0.149 Sum_probs=32.7
Q ss_pred EEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh--h----hccCCCCCcEEEEE
Q 018229 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA--D----LGQLVPTGTCVYVE 105 (359)
Q Consensus 51 ~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~--~----~~~~L~~esvV~V~ 105 (359)
.+.|.|.++...| +|++|.+..+ +...+..... + ....++.|+.|.|.
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 3689999999887 7899977533 5566654331 1 12337899998875
No 211
>PRK07772 single-stranded DNA-binding protein; Provisional
Probab=45.71 E-value=34 Score=31.65 Aligned_cols=46 Identities=26% Similarity=0.440 Sum_probs=31.7
Q ss_pred EEEEEeCChh-hhccCCCCCcEEEEEeEEeCCCC----C-CcccEEEEEeEE
Q 018229 81 LQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKV 126 (359)
Q Consensus 81 lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~~----~-~~g~lEL~a~~i 126 (359)
+.|++-.+.. .+.+.|++|+.|.|+|.+..+.- + +...+||.+++|
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 7788777643 35567999999999999987632 1 123466766654
No 212
>COG2965 PriB Primosomal replication protein N [DNA replication, recombination, and repair]
Probab=45.17 E-value=1.3e+02 Score=25.39 Aligned_cols=38 Identities=21% Similarity=0.312 Sum_probs=26.5
Q ss_pred hccCCCCCcEEEEEeEEeCCCCC-CcccEEEEEeEEEEe
Q 018229 92 LGQLVPTGTCVYVEGMLKNPPEG-TKQKIELRVQKVVDV 129 (359)
Q Consensus 92 ~~~~L~~esvV~V~G~v~~s~~~-~~g~lEL~a~~i~vL 129 (359)
+...|+.|+.|.|.|.+...... ....+=|++..++.+
T Consensus 64 lt~~i~~Gs~i~v~GFla~~~~~sg~~~lvlha~qi~~i 102 (103)
T COG2965 64 LTQSITVGSYILVVGFLACHKRRSGLSKLVLHAEQIEFI 102 (103)
T ss_pred hhhccccccEEEEEEEEEeecccCCccEEEEEeeEEEec
Confidence 34558999999999999755421 234567777777654
No 213
>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=44.73 E-value=69 Score=28.75 Aligned_cols=85 Identities=22% Similarity=0.207 Sum_probs=50.7
Q ss_pred cceeehhhhcCCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEe----cCCCCceEEEEEeCChh-------hhc--c
Q 018229 28 DRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVN----DGSCPANLQVIVDKDVA-------DLG--Q 94 (359)
Q Consensus 28 ~r~~i~di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LR----Dgsg~~~lQVVv~~~~~-------~~~--~ 94 (359)
...+++++.. ....+.|+.|++.|.|-++++.. +-+.|.|- |.+|. . |.- ..... .|. .
T Consensus 18 ~~~~~~~v~~---~p~~~~G~~VrwGG~I~~v~n~~--~~T~leV~~~PLd~~gr-P-~~~-~~s~GRFla~~~gFLDP~ 89 (160)
T PF03843_consen 18 PQPSFSQVRA---NPDAYQGQQVRWGGVIVNVRNLP--DQTELEVVQYPLDSSGR-P-QTD-DPSQGRFLARVPGFLDPA 89 (160)
T ss_pred ccCCHHHHHh---ChhhcCCCEEEECCEEEEEEECC--CceEEEEEEccCCCCCC-c-CCC-CCCCCEEEEEeCCCcCHH
Confidence 3345555542 34567899999999999999988 45666654 22221 0 000 00000 122 2
Q ss_pred CCCCCcEEEEEeEEeCCCCCCcccEE
Q 018229 95 LVPTGTCVYVEGMLKNPPEGTKQKIE 120 (359)
Q Consensus 95 ~L~~esvV~V~G~v~~s~~~~~g~lE 120 (359)
....|-.|.|.|.|.....++.|+.+
T Consensus 90 ~y~~Gr~vTV~G~v~g~~~~~ige~~ 115 (160)
T PF03843_consen 90 IYAPGRLVTVVGTVTGMETGKIGEYP 115 (160)
T ss_pred HcCCCCEEEEEEEecceEEeeeCCCc
Confidence 35789999999999876644445433
No 214
>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=44.72 E-value=63 Score=23.83 Aligned_cols=46 Identities=15% Similarity=0.239 Sum_probs=32.6
Q ss_pred EEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh------hhccCCCCCcEEEEE
Q 018229 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA------DLGQLVPTGTCVYVE 105 (359)
Q Consensus 51 ~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~------~~~~~L~~esvV~V~ 105 (359)
.+.|+|.++...| +|+.|-++ ++..+..+.. +....++.|+.|.|.
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 3789999999888 78999542 6777765432 122347889988886
No 215
>PLN02734 glycyl-tRNA synthetase
Probab=43.69 E-value=8.8 Score=42.15 Aligned_cols=31 Identities=10% Similarity=0.195 Sum_probs=25.4
Q ss_pred HHHHHHHHHHHHHH-HhCCcEEEccCeeecCC
Q 018229 167 RIRNALAYATHTFL-QKQGFLYIHTPIITTSD 197 (359)
Q Consensus 167 riRS~I~~~iR~fL-~~~gF~EV~TPiLt~~~ 197 (359)
.+++.|+..-|++| ...+.+||+||+|++..
T Consensus 110 ~lK~ni~~~Wr~~fv~~e~mleid~~~i~p~~ 141 (684)
T PLN02734 110 AVKSNVLAFWRQHFVLEENMLEVECPCVTPEV 141 (684)
T ss_pred HHHHHHHHHHHHHHhccCCeeEeeccccCCHh
Confidence 57788999999988 45677899999998764
No 216
>COG0423 GRS1 Glycyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=43.69 E-value=11 Score=40.31 Aligned_cols=30 Identities=23% Similarity=0.324 Sum_probs=25.2
Q ss_pred HHHHHHHHHHHHHHHh--CCcEEEccCeeecC
Q 018229 167 RIRNALAYATHTFLQK--QGFLYIHTPIITTS 196 (359)
Q Consensus 167 riRS~I~~~iR~fL~~--~gF~EV~TPiLt~~ 196 (359)
.++..|..+.|++|-. .+++||+||+|.+.
T Consensus 41 ~LK~nI~~~Wrk~fV~~~e~~~eIdtpii~p~ 72 (558)
T COG0423 41 ELKNNIKEAWRKSFVTEREDVVEIDTPIILPE 72 (558)
T ss_pred HHHHHHHHHHHHHHeeccCCeEEecccccCcH
Confidence 4677899999999954 58999999999864
No 217
>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=43.60 E-value=70 Score=23.57 Aligned_cols=46 Identities=22% Similarity=0.285 Sum_probs=31.6
Q ss_pred EEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh--h----hccCCCCCcEEEEE
Q 018229 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA--D----LGQLVPTGTCVYVE 105 (359)
Q Consensus 51 ~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~--~----~~~~L~~esvV~V~ 105 (359)
.+.|+|.++...| +|+.|-++ +...+..... + ....++.|+.|.+.
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 3789999999887 78999653 5556654321 1 22347889988875
No 218
>COG2176 PolC DNA polymerase III, alpha subunit (gram-positive type) [DNA replication, recombination, and repair]
Probab=41.98 E-value=61 Score=38.04 Aligned_cols=78 Identities=13% Similarity=0.238 Sum_probs=54.5
Q ss_pred EEEEEEEEeec----ccCCCceeEEEEEecCCCCceEEEEEeCCh-hhhccCCCCCcEEEEEeEEeCCCCCCcccEEEEE
Q 018229 49 QVRVGGWVKTG----REQGKGSFAFLEVNDGSCPANLQVIVDKDV-ADLGQLVPTGTCVYVEGMLKNPPEGTKQKIELRV 123 (359)
Q Consensus 49 ~V~I~GwV~si----R~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~-~~~~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a 123 (359)
.|+|.|.|-.+ .+.|+ .+.=+.+.|++..-.+|.....+. ....+.|+.|.+|.|+|.|...+ -.+++.+.+
T Consensus 241 ~v~v~G~IF~~e~~~~ksGr-~l~~i~vTD~t~Sl~~k~f~~~~ed~~~~~~ik~g~wvk~~g~v~~d~--f~~~l~m~i 317 (1444)
T COG2176 241 RVKVEGYIFKIEIKELKSGR-TLLNIKVTDYTSSLILKKFLRDEEDEKKFDGIKKGMWVKARGNVQLDT--FTRDLTMII 317 (1444)
T ss_pred ceEEEEEEEEEeeeecccCc-EEEEEEEecCchheeehhhccccccHHHHhhcccCcEEEEEEEEEecc--cccceEEEh
Confidence 49999999765 44555 677788999987545665555322 23456799999999999998875 355666666
Q ss_pred eEEEEe
Q 018229 124 QKVVDV 129 (359)
Q Consensus 124 ~~i~vL 129 (359)
.+|.-+
T Consensus 318 ~~I~ei 323 (1444)
T COG2176 318 NDINEI 323 (1444)
T ss_pred hhhhhh
Confidence 655443
No 219
>PRK14894 glycyl-tRNA synthetase; Provisional
Probab=41.32 E-value=16 Score=38.95 Aligned_cols=28 Identities=32% Similarity=0.476 Sum_probs=22.5
Q ss_pred ceEEEeceeecCCCCCCC----ccccccccceee
Q 018229 323 NVYTFGPTFRAEHSHTSR----HLAEFWMVEPEM 352 (359)
Q Consensus 323 ~Vy~~~p~fRaE~~~t~r----Hl~EF~mle~E~ 352 (359)
-+-+||.+||||=+ +| -+-||+|+|+|.
T Consensus 167 giaQIGk~FRNEIs--Pr~~l~R~REF~q~EiE~ 198 (539)
T PRK14894 167 GIAQVGKAFRNEIN--PRNFLFRVREFEQMEIEY 198 (539)
T ss_pred eEEeeeccccCccC--CCCceeecccchhheEEE
Confidence 37899999999954 33 368999999986
No 220
>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=38.91 E-value=1.3e+02 Score=23.07 Aligned_cols=46 Identities=17% Similarity=0.281 Sum_probs=31.0
Q ss_pred EEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh---------hhccCCCCCcEEEEE
Q 018229 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA---------DLGQLVPTGTCVYVE 105 (359)
Q Consensus 51 ~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~---------~~~~~L~~esvV~V~ 105 (359)
.|.|.|.++...| +|++|..+ +...+..... ++.+.++.|+.|.+.
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 4789999999887 89999642 5566653221 123457889988764
No 221
>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=38.87 E-value=69 Score=30.80 Aligned_cols=26 Identities=12% Similarity=0.280 Sum_probs=20.8
Q ss_pred HHHHHHHHHHHHhCCcEEEccCeeec
Q 018229 170 NALAYATHTFLQKQGFLYIHTPIITT 195 (359)
Q Consensus 170 S~I~~~iR~fL~~~gF~EV~TPiLt~ 195 (359)
+.|.+.+-+||.++|...|..--|+.
T Consensus 2 ~eiR~~fl~FF~~kgH~~v~s~slvp 27 (232)
T cd00673 2 SEIRETFLSFFEKKGHTRVPSSPVVP 27 (232)
T ss_pred hHHHHHHHHHHHhCCCEEeCCCCcCC
Confidence 35677888999999999988776663
No 222
>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=38.22 E-value=1e+02 Score=28.42 Aligned_cols=83 Identities=16% Similarity=0.089 Sum_probs=51.2
Q ss_pred CCCCCCCEEEEEEEEeecccCCCceeEEEEEe----cCCCCceEEEEEeCChh-------hhc--cCCCCCcEEEEEeEE
Q 018229 42 GAGLAGRQVRVGGWVKTGREQGKGSFAFLEVN----DGSCPANLQVIVDKDVA-------DLG--QLVPTGTCVYVEGML 108 (359)
Q Consensus 42 ~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LR----Dgsg~~~lQVVv~~~~~-------~~~--~~L~~esvV~V~G~v 108 (359)
...+.|+.|++.|.|-++++.. +-+-|.+- |.++. . +.- ..... .|. ... .|-.|.|.|++
T Consensus 43 p~~y~G~~Vr~GG~I~~v~N~~--~~T~lEVv~~PLd~~gr-P-~~~-~~s~GRFla~~~gFLDP~~y-~Gr~VTVvG~i 116 (182)
T TIGR00752 43 PLLYVGQTARFGGKVVNVTNLA--NQTKLEIASLPLDSIAK-P-FVE-LQSDGRFIAYFNGFLDPVNL-RERYVTVGGQI 116 (182)
T ss_pred hhhcCCCEEEECCEEEEEEECC--CceEEEEEEcccCCCCC-c-CCC-CCCCCEEEEEeCCCcChhhc-CCCEEEEEEEe
Confidence 3457899999999999999988 34555543 11221 0 000 00000 122 124 69999999999
Q ss_pred eCCCCCCcccEE-----EEEeEEEEee
Q 018229 109 KNPPEGTKQKIE-----LRVQKVVDVG 130 (359)
Q Consensus 109 ~~s~~~~~g~lE-----L~a~~i~vLs 130 (359)
....+++.|+.+ |.++.+++-.
T Consensus 117 ~G~e~gkIGe~~Y~yPvv~~~~~~lW~ 143 (182)
T TIGR00752 117 AGTEKGKIEQAPYTFPVVQADGYRIWH 143 (182)
T ss_pred cceEEeeeCCCcceeEEEEeeeEEecc
Confidence 887766677776 6666666544
No 223
>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=37.22 E-value=1.6e+02 Score=21.30 Aligned_cols=51 Identities=20% Similarity=0.231 Sum_probs=36.5
Q ss_pred EEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEE
Q 018229 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVE 105 (359)
Q Consensus 51 ~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~ 105 (359)
.+.|.|..+...| ...++.++-+.+ ..|-+.++.+... .-.|..|+-|.+.
T Consensus 6 ~l~g~V~~ie~~g--~~~~v~~~~~~~-~~l~a~it~~~~~-~L~L~~G~~V~~~ 56 (64)
T PF03459_consen 6 QLPGTVESIENLG--SEVEVTLDLGGG-ETLTARITPESAE-ELGLKPGDEVYAS 56 (64)
T ss_dssp EEEEEEEEEEESS--SEEEEEEEETTS-EEEEEEEEHHHHH-HCT-STT-EEEEE
T ss_pred EEEEEEEEEEECC--CeEEEEEEECCC-CEEEEEEcHHHHH-HcCCCCCCEEEEE
Confidence 4889999999999 789999988765 2477887765421 2247889988764
No 224
>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=36.21 E-value=1.5e+02 Score=24.37 Aligned_cols=61 Identities=15% Similarity=0.167 Sum_probs=41.8
Q ss_pred eeEEEEEecCCCCceEEEEEeCChhhh--ccCCCCCcEEEEEeEEeCCCCCCcccEEEEEeEEEEee
Q 018229 66 SFAFLEVNDGSCPANLQVIVDKDVADL--GQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQKVVDVG 130 (359)
Q Consensus 66 kl~Fi~LRDgsg~~~lQVVv~~~~~~~--~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~~i~vLs 130 (359)
+-.=+.|.||... +|.++....... ...|..|++|.+.-.....-. .+.-=|.+.+++|+.
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 4556789999854 999998765332 346999999999987765431 134457788888874
No 225
>PRK05853 hypothetical protein; Validated
Probab=35.80 E-value=61 Score=29.29 Aligned_cols=46 Identities=22% Similarity=0.320 Sum_probs=31.9
Q ss_pred EEEEEeCChh-hhccCCCCCcEEEEEeEEeCCCC----C-CcccEEEEEeEE
Q 018229 81 LQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKV 126 (359)
Q Consensus 81 lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~~----~-~~g~lEL~a~~i 126 (359)
+.|++..+.. ...+.|.+|+-|.|+|.+....- + ....+||.+++|
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 8888777643 34567999999999999986532 1 223566766654
No 226
>PRK06386 replication factor A; Reviewed
Probab=34.89 E-value=4.2e+02 Score=27.11 Aligned_cols=69 Identities=12% Similarity=0.109 Sum_probs=46.4
Q ss_pred CCEEEEEEEEeecc------cCCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEEeEEeCCCCCCcccEE
Q 018229 47 GRQVRVGGWVKTGR------EQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVEGMLKNPPEGTKQKIE 120 (359)
Q Consensus 47 gk~V~I~GwV~siR------~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~G~v~~s~~~~~g~lE 120 (359)
++.|.|.|+|-.+- +.|...+.=-.|-|.||. |...+... ...|..|++|.+.+.....- .|.+|
T Consensus 12 ~~~V~v~akVl~~~~r~i~~~~g~~~~~~gllgDeTG~--I~fT~W~~----~~~l~~Gd~v~i~na~v~~~---~G~~~ 82 (358)
T PRK06386 12 RQNVDLKVKVLSLNKRTIKNDRGETIYYYGIIGDETGT--VPFTAWEF----PDAVKSGDVIEIKYCYSKEY---NGKIR 82 (358)
T ss_pred CCcEEEEEEEEEccceEEecCCCCeEEEEEEEECCcce--EEEEecCC----cccCCCCCEEEEEeEEEeeE---CCEEE
Confidence 56788888887553 122213444567788875 77776553 23578999999999887654 56777
Q ss_pred EEEe
Q 018229 121 LRVQ 124 (359)
Q Consensus 121 L~a~ 124 (359)
|.+.
T Consensus 83 Lnv~ 86 (358)
T PRK06386 83 IYFD 86 (358)
T ss_pred EEEc
Confidence 7774
No 227
>KOG1035 consensus eIF-2alpha kinase GCN2 [Translation, ribosomal structure and biogenesis]
Probab=33.78 E-value=29 Score=40.64 Aligned_cols=30 Identities=17% Similarity=0.331 Sum_probs=24.9
Q ss_pred HHHHHHHHHHHHHHHHHhCCcEEEccCeee
Q 018229 165 VARIRNALAYATHTFLQKQGFLYIHTPIIT 194 (359)
Q Consensus 165 i~riRS~I~~~iR~fL~~~gF~EV~TPiLt 194 (359)
.-.+|..+...+-+-|.++||+|++||-+.
T Consensus 931 ~~~l~~~v~e~~~~ifr~Hga~~l~tpp~~ 960 (1351)
T KOG1035|consen 931 NNELREYVVEEVVKIFRKHGAIELETPPLS 960 (1351)
T ss_pred HHHHHHHHHHHHHHHHHHhcceeccCCccc
Confidence 345788888888899999999999999553
No 228
>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=33.26 E-value=1.1e+02 Score=22.62 Aligned_cols=46 Identities=17% Similarity=0.347 Sum_probs=30.4
Q ss_pred EEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh--h----hccCCCCCcEEEEE
Q 018229 52 VGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA--D----LGQLVPTGTCVYVE 105 (359)
Q Consensus 52 I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~--~----~~~~L~~esvV~V~ 105 (359)
+.|+|.++...| +|++|.+. + +..++..... + ....++.||.|.|.
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 789999999877 78888652 1 5555553321 1 12346889998875
No 229
>KOG1637 consensus Threonyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=31.61 E-value=40 Score=35.70 Aligned_cols=31 Identities=32% Similarity=0.369 Sum_probs=28.0
Q ss_pred HHHHHHHHHHHHHHHhCCcEEEccCeeecCC
Q 018229 167 RIRNALAYATHTFLQKQGFLYIHTPIITTSD 197 (359)
Q Consensus 167 riRS~I~~~iR~fL~~~gF~EV~TPiLt~~~ 197 (359)
++...++..||.=...+||.||-||.|-...
T Consensus 193 ~iyN~Lv~fir~ey~~rGf~EVitPniy~~~ 223 (560)
T KOG1637|consen 193 RIYNTLVDFIRAEYRKRGFTEVITPNIYNKK 223 (560)
T ss_pred hHHHHHHHHHHHHHHhcCCceecCcchhhhh
Confidence 7889999999999999999999999997654
No 230
>COG3390 Uncharacterized protein conserved in archaea [Function unknown]
Probab=30.46 E-value=1.3e+02 Score=28.15 Aligned_cols=62 Identities=15% Similarity=0.127 Sum_probs=45.6
Q ss_pred CEEEEEEEEeecccCCCc-eeEEEEEecCCCCceEEEEEeCC---hhhhccCCCCCcEEEEEeEEeCC
Q 018229 48 RQVRVGGWVKTGREQGKG-SFAFLEVNDGSCPANLQVIVDKD---VADLGQLVPTGTCVYVEGMLKNP 111 (359)
Q Consensus 48 k~V~I~GwV~siR~~Gk~-kl~Fi~LRDgsg~~~lQVVv~~~---~~~~~~~L~~esvV~V~G~v~~s 111 (359)
..|-|.|-+.+.-..|-+ .+.=+.+-|++|. +=|....- ...+.+.+..++.|.|.|++..=
T Consensus 46 nRifivGtltek~~i~ed~~~~R~rVvDpTGs--F~Vyag~yqPEa~a~l~~ve~~~~VaViGKi~~y 111 (196)
T COG3390 46 NRIFIVGTLTEKEGIGEDREYWRIRVVDPTGS--FYVYAGQYQPEAKAFLEDVEVPDLVAVIGKIRTY 111 (196)
T ss_pred eEEEEEEEEEeccCcCCcccEEEEEEecCCce--EEEEcCCCChHHHHHHHhccCCceEEEeccccee
Confidence 468899999988777721 4788899999986 66643322 12356778999999999998643
No 231
>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=29.51 E-value=1.2e+02 Score=22.68 Aligned_cols=39 Identities=41% Similarity=0.601 Sum_probs=31.6
Q ss_pred HHHHhhhHHHhhhcccchhhhhhhhHHHHHHHHHHHHHH
Q 018229 238 VIKEKGEAVAKLKSDKAGREAISASVTELTKAKENLAKL 276 (359)
Q Consensus 238 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 276 (359)
.+.+.+..|..||+++...+.+.++|+.|-.-+.....+
T Consensus 4 ~I~~QG~~VR~LKa~ka~k~~i~~aV~~Ll~LK~~~~~~ 42 (56)
T PF00458_consen 4 QIAAQGDKVRKLKAEKADKEEIDAAVAKLLELKAELKEL 42 (56)
T ss_dssp HHHHHHHHHHHHHHTT--HHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHccCCcHHHHHHHHHHHHHHHHHHHHh
Confidence 467889999999999999999999999998777666555
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=29.29 E-value=2.4e+02 Score=22.48 Aligned_cols=63 Identities=16% Similarity=0.299 Sum_probs=43.9
Q ss_pred EEEecCCCCceEEEEEeCChh-hhccCCCCCcEEEEEeEEeCCCCC----CcccEEEEEeEEEEeecCC
Q 018229 70 LEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPPEG----TKQKIELRVQKVVDVGMVD 133 (359)
Q Consensus 70 i~LRDgsg~~~lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~~~----~~g~lEL~a~~i~vLs~a~ 133 (359)
+.|-|..| ..||+.+.+... .|...|.-|++..++-.......+ +...+.|....-..+.++.
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 MVLVDEKG-DKIQATIPKELVDKFKDSLKEGSWYTISNFTVSPNSGSYRPTDHKYKINFMPNTKVTEID 69 (95)
T ss_pred EEEEecCC-CEEEEEECHHHHHHHHhhcccCCEEEeEeEEEEeCCCceeccCCCEEEEECCcCeEEECC
Confidence 35778888 589999987653 366778899999887655443322 4566777776666677665
No 233
>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=28.78 E-value=18 Score=38.82 Aligned_cols=32 Identities=34% Similarity=0.536 Sum_probs=27.1
Q ss_pred HHHHHHHHHHHHHHH-HhCCcEEEccCeeecCC
Q 018229 166 ARIRNALAYATHTFL-QKQGFLYIHTPIITTSD 197 (359)
Q Consensus 166 ~riRS~I~~~iR~fL-~~~gF~EV~TPiLt~~~ 197 (359)
..++..|....|++| ..+|++||++|+|++..
T Consensus 37 ~~lk~ni~~~wr~~~v~~~~~~ei~~~~i~~~~ 69 (551)
T TIGR00389 37 AVLKNNIKNAWRKFFIKNERVLEIDTPIITPEE 69 (551)
T ss_pred HHHHHHHHHHHHHHHHhcCCceEeeccccCCHH
Confidence 367888999999998 47889999999998753
No 234
>PRK06341 single-stranded DNA-binding protein; Provisional
Probab=28.30 E-value=1e+02 Score=27.95 Aligned_cols=46 Identities=24% Similarity=0.375 Sum_probs=30.7
Q ss_pred EEEEEeCC-hh-hhccCCCCCcEEEEEeEEeCCCC----C-CcccEEEEEeEE
Q 018229 81 LQVIVDKD-VA-DLGQLVPTGTCVYVEGMLKNPPE----G-TKQKIELRVQKV 126 (359)
Q Consensus 81 lQVVv~~~-~~-~~~~~L~~esvV~V~G~v~~s~~----~-~~g~lEL~a~~i 126 (359)
+.|++-.+ .. ...+.|++|+.|.|+|.+..+.- + +...+||.+++|
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 66776653 22 23467999999999999976531 1 234678877654
No 235
>PRK08582 hypothetical protein; Provisional
Probab=28.03 E-value=3.9e+02 Score=23.29 Aligned_cols=65 Identities=26% Similarity=0.358 Sum_probs=38.4
Q ss_pred CCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh--hh----ccCCCCCcEEEEEeEEeCCCCCCcccE
Q 018229 46 AGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA--DL----GQLVPTGTCVYVEGMLKNPPEGTKQKI 119 (359)
Q Consensus 46 ~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~--~~----~~~L~~esvV~V~G~v~~s~~~~~g~l 119 (359)
+|+. +.|.|..+...| +|+.|-++ +..++..... ++ ...+..||.|.|. ++.... .+.+
T Consensus 5 vG~i--v~G~V~~I~~fG----~fV~L~~~-----~~GlVhiSels~~~v~~~~~~l~vGD~Vkvk-V~~id~---~gkI 69 (139)
T PRK08582 5 VGSK--LQGKVTGITNFG----AFVELPEG-----KTGLVHISEVADNYVKDINDHLKVGDEVEVK-VLNVED---DGKI 69 (139)
T ss_pred CCCE--EEEEEEEEECCe----EEEEECCC-----CEEEEEeeccCcccccccccccCCCCEEEEE-EEEECC---CCcE
Confidence 3544 789999999998 78999653 3334433221 11 2457889988775 222222 3556
Q ss_pred EEEEeE
Q 018229 120 ELRVQK 125 (359)
Q Consensus 120 EL~a~~ 125 (359)
.|....
T Consensus 70 ~LSlk~ 75 (139)
T PRK08582 70 GLSIKK 75 (139)
T ss_pred EEEEEe
Confidence 655543
No 236
>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=27.48 E-value=2.5e+02 Score=20.46 Aligned_cols=51 Identities=16% Similarity=0.151 Sum_probs=33.9
Q ss_pred EEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhhhccCCCCCcEEEEE
Q 018229 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADLGQLVPTGTCVYVE 105 (359)
Q Consensus 51 ~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~~~~L~~esvV~V~ 105 (359)
.+.|.|.++...| ..+-+.|+=+.+ ..+.+.++.+... ...|..|+-|.+.
T Consensus 8 ~l~g~I~~i~~~g--~~~~v~l~~~~~-~~l~a~i~~~~~~-~l~l~~G~~v~~~ 58 (69)
T TIGR00638 8 QLKGKVVAIEDGD--VNAEVDLLLGGG-TKLTAVITLESVA-ELGLKPGKEVYAV 58 (69)
T ss_pred EEEEEEEEEEECC--CeEEEEEEECCC-CEEEEEecHHHHh-hCCCCCCCEEEEE
Confidence 5899999998888 566666665433 2477777665321 2347888887653
No 237
>COG0587 DnaE DNA polymerase III, alpha subunit [DNA replication, recombination, and repair]
Probab=27.46 E-value=1.4e+02 Score=35.02 Aligned_cols=61 Identities=25% Similarity=0.377 Sum_probs=44.1
Q ss_pred EEEEEEEEeecccC-----CCceeEEEEEecCCCCceEEEEEeCChh-hhccCCCCCcEEEEEeEEeCCC
Q 018229 49 QVRVGGWVKTGREQ-----GKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGMLKNPP 112 (359)
Q Consensus 49 ~V~I~GwV~siR~~-----Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~-~~~~~L~~esvV~V~G~v~~s~ 112 (359)
.+++.|-|..+|.. |+ +++|+.|.|.+|. +-+|+..+.. .+...+..+..+.|.|.+....
T Consensus 978 ~~~~~~~i~~vr~~~tk~~G~-~~~f~tl~D~~g~--~e~v~f~~~~~~~~~~l~~~~~~~v~g~v~~~~ 1044 (1139)
T COG0587 978 RVVLAGGIVAVRQRPTKAKGN-KMAFLTLEDETGI--LEVVVFPSEYERYRRLLLEGRLLIVKGKVQRRE 1044 (1139)
T ss_pred eeEEEEEEEEEEEeeccCCCC-EEEEEEEecCCCc--EEEEEcHHHHHHHHHHhccCcEEEEEEEEEecc
Confidence 47777777666432 32 4999999999996 8888876543 2334455678999999998754
No 238
>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=27.15 E-value=1.8e+02 Score=20.57 Aligned_cols=46 Identities=20% Similarity=0.270 Sum_probs=30.0
Q ss_pred EEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh--h----hccCCCCCcEEEEE
Q 018229 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA--D----LGQLVPTGTCVYVE 105 (359)
Q Consensus 51 ~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~--~----~~~~L~~esvV~V~ 105 (359)
.+.|+|..+...| +|+.|.++ +..++..... . ....++.|+.|.|.
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 3789999998888 78888643 4555554321 1 11236788888775
No 239
>cd04453 S1_RNase_E S1_RNase_E: RNase E and RNase G, S1-like RNA-binding domain. RNase E is an essential endoribonuclease in the processing and degradation of RNA. In addition to its role in mRNA degradation, RNase E has also been implicated in the processing of rRNA, and the maturation of tRNA, 10Sa RNA and the M1 precursor of RNase P. RNase E associates with PNPase (3' to 5' exonuclease), Rhl B (DEAD-box RNA helicase) and enolase (glycolytic enzyme) to form the RNA degradosome. RNase E tends to cut mRNA within single-stranded regions that are rich in A/U nucleotides. The N-terminal region of RNase E contains the catalytic site. Within the conserved N-terminal domain of RNAse E and RNase G, there is an S1-like subdomain, which is an ancient single-stranded RNA-binding domain. S1 domain is an RNA-binding module originally identified in the ribosomal protein S1. The S1 domain is required for RNA cleavage by RNase E. RNase G is paralogous to RNase E with an N-terminal catalytic domain th
Probab=27.07 E-value=1.6e+02 Score=23.51 Aligned_cols=48 Identities=19% Similarity=0.107 Sum_probs=30.5
Q ss_pred EEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhhh---------ccCCCCCcEEEEE
Q 018229 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADL---------GQLVPTGTCVYVE 105 (359)
Q Consensus 51 ~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~---------~~~L~~esvV~V~ 105 (359)
.+.|.|.++-..- .=+|++|-++ ....+..+...+ .+.++.|+.|.|.
T Consensus 10 iy~g~V~~i~~~~--~GaFV~l~~g-----~~Gllh~seis~~~~~~v~~~~~~~~~Gd~v~Vq 66 (88)
T cd04453 10 IYLGRVKKIVPGL--QAAFVDIGLG-----KNGFLHLSDILPAYFKKHKKIAKLLKEGQEILVQ 66 (88)
T ss_pred EEEEEEEEeccCC--cEEEEEeCCC-----CEEEEEhHHcCchhccccCCHHHcCCCCCEEEEE
Confidence 3689999998852 1389999764 344554432211 3457888888775
No 240
>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=25.53 E-value=1.8e+02 Score=21.46 Aligned_cols=45 Identities=18% Similarity=0.302 Sum_probs=32.1
Q ss_pred EEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhh------hccCCCCCcEEEEE
Q 018229 52 VGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD------LGQLVPTGTCVYVE 105 (359)
Q Consensus 52 I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~------~~~~L~~esvV~V~ 105 (359)
+.|+|.++...| +|++|.. + +..++...... ....+..|+.|.|.
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 689999999976 7899972 2 67777765422 23457888888765
No 241
>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=25.10 E-value=2.2e+02 Score=20.35 Aligned_cols=46 Identities=24% Similarity=0.268 Sum_probs=29.7
Q ss_pred EEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh--hh----ccCCCCCcEEEEE
Q 018229 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA--DL----GQLVPTGTCVYVE 105 (359)
Q Consensus 51 ~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~--~~----~~~L~~esvV~V~ 105 (359)
.+.|.|..+...| +|++|-++ +...+..... ++ .+.++.||.|.|.
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 3689999999987 78888653 4455544321 11 1236788888775
No 242
>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=24.45 E-value=2e+02 Score=21.24 Aligned_cols=20 Identities=30% Similarity=0.496 Sum_probs=17.4
Q ss_pred EEEEEEeecccCCCceeEEEEEec
Q 018229 51 RVGGWVKTGREQGKGSFAFLEVND 74 (359)
Q Consensus 51 ~I~GwV~siR~~Gk~kl~Fi~LRD 74 (359)
.+.|+|..+...| +|+.|.+
T Consensus 6 ~~~g~V~~i~~~G----~fv~l~~ 25 (72)
T cd05689 6 RLFGKVTNLTDYG----CFVELEE 25 (72)
T ss_pred EEEEEEEEEEeeE----EEEEcCC
Confidence 4899999999998 7899965
No 243
>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=24.42 E-value=2.1e+02 Score=20.99 Aligned_cols=46 Identities=17% Similarity=0.060 Sum_probs=30.4
Q ss_pred EEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhh------hccCCCCCcEEEEE
Q 018229 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVAD------LGQLVPTGTCVYVE 105 (359)
Q Consensus 51 ~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~------~~~~L~~esvV~V~ 105 (359)
.+.|.|.++...| +|++|.. + ...++...... ....++.||.|.+.
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 3689999998765 7888833 2 56666654321 22347889988775
No 244
>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=24.21 E-value=2.1e+02 Score=20.23 Aligned_cols=46 Identities=26% Similarity=0.332 Sum_probs=30.1
Q ss_pred EEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh--hh----ccCCCCCcEEEEE
Q 018229 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA--DL----GQLVPTGTCVYVE 105 (359)
Q Consensus 51 ~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~--~~----~~~L~~esvV~V~ 105 (359)
.+.|.|..+...| +|+.|-++ ++.++..... ++ ...++.|+.|.|.
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 5566654321 11 1347889998775
No 245
>KOG1936 consensus Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=24.06 E-value=73 Score=33.53 Aligned_cols=30 Identities=17% Similarity=0.335 Sum_probs=27.3
Q ss_pred HHHHHHHHHHHHHHHHHHhCCcEEEccCee
Q 018229 164 AVARIRNALAYATHTFLQKQGFLYIHTPII 193 (359)
Q Consensus 164 ai~riRS~I~~~iR~fL~~~gF~EV~TPiL 193 (359)
+-+.+|..|++.+.+-|..+|...|+||.+
T Consensus 72 ~qm~lRe~if~~i~~vFkrhGa~~iDTPVF 101 (518)
T KOG1936|consen 72 EQMALREKIFSTIKEVFKRHGAETIDTPVF 101 (518)
T ss_pred HHHHHHHHHHHHHHHHHHHcCCeeccccch
Confidence 346799999999999999999999999986
No 246
>PF15513 DUF4651: Domain of unknown function (DUF4651)
Probab=23.69 E-value=1e+02 Score=23.80 Aligned_cols=22 Identities=18% Similarity=0.378 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHHHHhCCcEEE
Q 018229 167 RIRNALAYATHTFLQKQGFLYI 188 (359)
Q Consensus 167 riRS~I~~~iR~fL~~~gF~EV 188 (359)
+.|.+|+..+|+||...|=++|
T Consensus 2 ~kre~i~~~iR~~fs~lG~I~v 23 (62)
T PF15513_consen 2 RKREEITAEIRQFFSQLGEIAV 23 (62)
T ss_pred cHHHHHHHHHHHHHHhcCcEEE
Confidence 4688999999999999986665
No 247
>cd05706 S1_Rrp5_repeat_sc10 S1_Rrp5_repeat_sc10: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes S. cerevisiae S1 repeat 10 (sc10). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=23.56 E-value=2.8e+02 Score=20.41 Aligned_cols=46 Identities=11% Similarity=-0.018 Sum_probs=30.2
Q ss_pred EEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh--hh----ccCCCCCcEEEEE
Q 018229 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA--DL----GQLVPTGTCVYVE 105 (359)
Q Consensus 51 ~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~--~~----~~~L~~esvV~V~ 105 (359)
.+.|.|..+...| +|+.|-.+ ++.++..... ++ ...++.||.|.+.
T Consensus 6 iv~g~V~~v~~~g----i~v~l~~~-----~~g~v~~s~l~~~~~~~~~~~~~~Gd~v~~~ 57 (73)
T cd05706 6 ILPGRVTKVNDRY----VLVQLGNK-----VTGPSFITDALDDYSEALPYKFKKNDIVRAC 57 (73)
T ss_pred EEEEEEEEEeCCe----EEEEeCCC-----cEEEEEhhhccCccccccccccCCCCEEEEE
Confidence 3689999988877 78888543 6667664331 11 2336788887764
No 248
>COG0423 GRS1 Glycyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=22.90 E-value=68 Score=34.44 Aligned_cols=27 Identities=37% Similarity=0.492 Sum_probs=22.6
Q ss_pred eEEEeceeecCCCCCCC----ccccccccceee
Q 018229 324 VYTFGPTFRAEHSHTSR----HLAEFWMVEPEM 352 (359)
Q Consensus 324 Vy~~~p~fRaE~~~t~r----Hl~EF~mle~E~ 352 (359)
|-+||.+||||=| +| -+-||+|.|+|.
T Consensus 190 iaQIGKsfRNEIS--Pr~gl~R~REF~QaEiE~ 220 (558)
T COG0423 190 IAQIGKSFRNEIS--PRNGLFRTREFEQAEIEF 220 (558)
T ss_pred EEeechhhccccC--cccceeehhhhhhhheee
Confidence 7899999999965 34 368999999986
No 249
>KOG2851 consensus Eukaryotic-type DNA primase, catalytic (small) subunit [Replication, recombination and repair]
Probab=22.68 E-value=86 Score=32.14 Aligned_cols=52 Identities=19% Similarity=0.385 Sum_probs=39.4
Q ss_pred cccccHHHHHHH-HHccccceEEEeceeecCCCCC--CCccccccccceeecc-cCC
Q 018229 305 FLTVSGQLQVET-YACAVSNVYTFGPTFRAEHSHT--SRHLAEFWMVEPEMAF-SDL 357 (359)
Q Consensus 305 ~L~~S~ql~~e~-~~~~~~~Vy~~~p~fRaE~~~t--~rHl~EF~mle~E~af-~~l 357 (359)
||+-..|--++. +......-+.||++|+.+.-+. .| .++|.-+|-|++| +|+
T Consensus 61 Y~sFn~~~~~~k~i~s~nP~KiDIGaVY~~~P~~~~t~~-~s~~~~vekELVFDIDm 116 (412)
T KOG2851|consen 61 YLSFNNASEFEKEISSTNPDKIDIGAVYSHRPRNHKTLR-KSDFQAVEKELVFDIDM 116 (412)
T ss_pred EeccCCHHHHHHHHhhcCCcceeecccccCCcccccccc-ccccceeeeeeEEeccc
Confidence 677777666665 4445778899999999986542 23 5999999999999 454
No 250
>COG2374 Predicted extracellular nuclease [General function prediction only]
Probab=22.18 E-value=3.8e+02 Score=30.20 Aligned_cols=82 Identities=20% Similarity=0.170 Sum_probs=49.5
Q ss_pred cccceeehhhhcCCCCCCCCCCCEEEEEEEEeecccCCCceeEEEEEe-------cCCCCceEEEEEeCChhhhccCCCC
Q 018229 26 FSDRVLIKSILTRPDGGAGLAGRQVRVGGWVKTGREQGKGSFAFLEVN-------DGSCPANLQVIVDKDVADLGQLVPT 98 (359)
Q Consensus 26 ~~~r~~i~di~~~~~l~~~~~gk~V~I~GwV~siR~~Gk~kl~Fi~LR-------Dgsg~~~lQVVv~~~~~~~~~~L~~ 98 (359)
+..+++|-.|.+.+--..-..+..|+|.|-|..+-..|+.-.-|..=. |......|=|.+... +.. |..
T Consensus 193 ~~~~~~I~~iQG~G~~s~~~~~~vvtieGvVtav~~~gs~~~GFyvQ~~~~~~d~d~~TSeGIFVy~~g~---~~~-l~l 268 (798)
T COG2374 193 ALVLTSIGQIQGEGHRSGPLGGGVVTIEGVVTAVTAGGSGVRGFYVQEEDTDVDGDPATSEGIFVYEGGA---SSD-LSL 268 (798)
T ss_pred cceeeechheeecccccccccCCeeEEEEEEEEEecCCCcccceEeecCCcCCCCCcccccceEEEeCCC---CCC-CCC
Confidence 344566666654322222467789999999999977774211354222 222223355555333 223 789
Q ss_pred CcEEEEEeEEeCC
Q 018229 99 GTCVYVEGMLKNP 111 (359)
Q Consensus 99 esvV~V~G~v~~s 111 (359)
||.|.|+|+|..=
T Consensus 269 Gd~V~VtG~V~Ey 281 (798)
T COG2374 269 GDRVTVTGTVSEY 281 (798)
T ss_pred CCEEEEEEEEEee
Confidence 9999999999864
No 251
>cd04461 S1_Rrp5_repeat_hs8_sc7 S1_Rrp5_repeat_hs8_sc7: Rrp5 Homo sapiens S1 repeat 8 (hs8) and Saccharomyces cerevisiae S1 repeat 7 (sc7)-like domains. Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in S. cerevisiae Rrp5 and 14 S1 repeats in H. sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 8 and S. cerevisiae S1 repeat 7. Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=22.12 E-value=2.1e+02 Score=21.97 Aligned_cols=49 Identities=27% Similarity=0.332 Sum_probs=33.4
Q ss_pred CCCEEEEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh------hhccCCCCCcEEEEE
Q 018229 46 AGRQVRVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA------DLGQLVPTGTCVYVE 105 (359)
Q Consensus 46 ~gk~V~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~------~~~~~L~~esvV~V~ 105 (359)
.|+. +.|.|.++...| +|++|-++ ++.++..... +....++.|+.|.|.
T Consensus 14 ~G~i--~~g~V~~v~~~G----~fv~l~~~-----~~g~v~~~el~~~~~~~~~~~~~~Gd~v~vk 68 (83)
T cd04461 14 PGMV--VHGYVRNITPYG----VFVEFLGG-----LTGLAPKSYISDEFVTDPSFGFKKGQSVTAK 68 (83)
T ss_pred CCCE--EEEEEEEEeece----EEEEcCCC-----CEEEEEHHHCCcccccCHHHhcCCCCEEEEE
Confidence 4554 469999999988 78998542 6677765431 122447888888876
No 252
>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=21.83 E-value=3.8e+02 Score=20.73 Aligned_cols=52 Identities=15% Similarity=0.287 Sum_probs=35.5
Q ss_pred EEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh-hhccCCCCCcEEEEEeE
Q 018229 53 GGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA-DLGQLVPTGTCVYVEGM 107 (359)
Q Consensus 53 ~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~-~~~~~L~~esvV~V~G~ 107 (359)
+=|.......|. .+. +.|.|..|. .||+.+.++.. .|...|..|.+..+.+.
T Consensus 8 r~W~~~~~~~~~-~~~-miL~De~G~-~I~a~i~~~~~~~f~~~L~eg~vy~is~f 60 (86)
T cd04480 8 RLWDVYNNASGE-SLE-MVLVDEKGN-RIHATIPKRLAAKFRPLLKEGKWYTISNF 60 (86)
T ss_pred EEEcCcCCCCCc-EEE-EEEEcCCCC-EEEEEECHHHHHhhhhhceeCCEEEEeeE
Confidence 344444444553 233 458899884 79999988653 46777999999999754
No 253
>KOG2298 consensus Glycyl-tRNA synthetase and related class II tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=21.73 E-value=23 Score=37.48 Aligned_cols=26 Identities=42% Similarity=0.530 Sum_probs=0.0
Q ss_pred EEeceeecCCCCCCC--cccccccccee
Q 018229 326 TFGPTFRAEHSHTSR--HLAEFWMVEPE 351 (359)
Q Consensus 326 ~~~p~fRaE~~~t~r--Hl~EF~mle~E 351 (359)
+||.+||||=|.-+- +..||+|-|+|
T Consensus 214 qiG~~fRNEISpRsGLlRvrEF~maEIE 241 (599)
T KOG2298|consen 214 QIGKSFRNEISPRSGLLRVREFTMAEIE 241 (599)
T ss_pred HhchHhhhccCcccCceeEEEeehHHhh
No 254
>COG0629 Ssb Single-stranded DNA-binding protein [DNA replication, recombination, and repair]
Probab=21.67 E-value=1.9e+02 Score=25.80 Aligned_cols=32 Identities=28% Similarity=0.537 Sum_probs=25.3
Q ss_pred EEEEEeCChhh-hccCCCCCcEEEEEeEEeCCC
Q 018229 81 LQVIVDKDVAD-LGQLVPTGTCVYVEGMLKNPP 112 (359)
Q Consensus 81 lQVVv~~~~~~-~~~~L~~esvV~V~G~v~~s~ 112 (359)
+.|++-.+..+ +.+.|+.|+.|.|+|.+....
T Consensus 53 ~~vv~wgk~Ae~~~~yl~KG~~V~VeG~l~~~~ 85 (167)
T COG0629 53 IRVVIWGKLAENAAEYLKKGSLVYVEGRLQTRK 85 (167)
T ss_pred EEEEEehHHHHHHHHHhcCCCEEEEEEEEEeee
Confidence 88888877543 345689999999999998764
No 255
>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=21.31 E-value=93 Score=33.55 Aligned_cols=28 Identities=39% Similarity=0.520 Sum_probs=22.4
Q ss_pred ceEEEeceeecCCCCCCC----ccccccccceee
Q 018229 323 NVYTFGPTFRAEHSHTSR----HLAEFWMVEPEM 352 (359)
Q Consensus 323 ~Vy~~~p~fRaE~~~t~r----Hl~EF~mle~E~ 352 (359)
-+-+||.+||||=+ +| -+-||+|.|+|.
T Consensus 185 giaQiGk~fRNEIs--Pr~~l~R~REF~q~EiE~ 216 (551)
T TIGR00389 185 GVAQIGKSFRNEIS--PRNGLFRVREFEQAEIEF 216 (551)
T ss_pred eehhhhHhhhcccC--cccceEEeehhhhchhhe
Confidence 47789999999954 34 368999999985
No 256
>PRK05807 hypothetical protein; Provisional
Probab=21.21 E-value=5.4e+02 Score=22.24 Aligned_cols=62 Identities=23% Similarity=0.249 Sum_probs=39.5
Q ss_pred EEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChh--hh----ccCCCCCcEEEEEeEEeCCCCCCcccEEEEEe
Q 018229 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVA--DL----GQLVPTGTCVYVEGMLKNPPEGTKQKIELRVQ 124 (359)
Q Consensus 51 ~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~--~~----~~~L~~esvV~V~G~v~~s~~~~~g~lEL~a~ 124 (359)
.+.|.|..+...| +|+.| ++ .+.++..... .+ ...++.|+.|.|. |.... . .+.++|...
T Consensus 8 vv~G~Vt~i~~~G----afV~L-~~-----~~Glvhiseis~~~v~~~~~~~kvGd~V~Vk--V~~id-~-~gkI~LSlk 73 (136)
T PRK05807 8 ILEGTVVNITNFG----AFVEV-EG-----KTGLVHISEVADTYVKDIREHLKEQDKVKVK--VISID-D-NGKISLSIK 73 (136)
T ss_pred EEEEEEEEEECCe----EEEEE-CC-----EEEEEEhhhcccccccCccccCCCCCEEEEE--EEEEC-C-CCcEEEEEE
Confidence 5789999999888 79999 43 3556554321 12 2347899999875 32222 1 467777765
Q ss_pred EE
Q 018229 125 KV 126 (359)
Q Consensus 125 ~i 126 (359)
.+
T Consensus 74 ~~ 75 (136)
T PRK05807 74 QA 75 (136)
T ss_pred ec
Confidence 54
No 257
>cd05690 S1_RPS1_repeat_ec5 S1_RPS1_repeat_ec5: Ribosomal protein S1 (RPS1) domain. RPS1 is a component of the small ribosomal subunit thought to be involved in the recognition and binding of mRNA's during translation initiation. The bacterial RPS1 domain architecture consists of 4-6 tandem S1 domains. In some bacteria, the tandem S1 array is located C-terminal to a 4-hydroxy-3-methylbut-2-enyl diphosphate reductase (HMBPP reductase) domain. While RPS1 is found primarily in bacteria, proteins with tandem RPS1-like domains have been identified in plants and humans, however these lack the N-terminal HMBPP reductase domain. This CD includes S1 repeat 5 (ec5) of the Escherichia coli RPS1. Autoantibodies to double-stranded DNA from patients with systemic lupus erythematosus cross-react with the human RPS1 homolog.
Probab=20.47 E-value=2.6e+02 Score=20.17 Aligned_cols=46 Identities=20% Similarity=0.291 Sum_probs=28.5
Q ss_pred EEEEEEeecccCCCceeEEEEEecCCCCceEEEEEeCChhhh-------ccCCCCCcEEEEE
Q 018229 51 RVGGWVKTGREQGKGSFAFLEVNDGSCPANLQVIVDKDVADL-------GQLVPTGTCVYVE 105 (359)
Q Consensus 51 ~I~GwV~siR~~Gk~kl~Fi~LRDgsg~~~lQVVv~~~~~~~-------~~~L~~esvV~V~ 105 (359)
.+.|+|.++...| +|+.|-++ +..++......+ ...++.|+.|.|.
T Consensus 3 ~~~g~V~~i~~~G----~fv~l~~~-----~~Glv~~~~l~~~~~~~~~~~~~~~G~~v~v~ 55 (69)
T cd05690 3 VVSGKIKSITDFG----IFVGLDGG-----IDGLVHISDISWTQRVRHPSEIYKKGQEVEAV 55 (69)
T ss_pred EEEEEEEEEEeee----EEEEeCCC-----CEEEEEHHHCCCccccCChhhEECCCCEEEEE
Confidence 3789999999988 78999653 444544332111 1224667776664
No 258
>PRK01584 alanyl-tRNA synthetase; Provisional
Probab=20.35 E-value=1.5e+02 Score=32.27 Aligned_cols=28 Identities=18% Similarity=0.251 Sum_probs=22.4
Q ss_pred cceEEEeceeec---CCCCCCCccccccccc
Q 018229 322 SNVYTFGPTFRA---EHSHTSRHLAEFWMVE 349 (359)
Q Consensus 322 ~~Vy~~~p~fRa---E~~~t~rHl~EF~mle 349 (359)
.|+=+.-+|.|+ |+.-|.||+.=|-||-
T Consensus 58 ~r~~~~QkCiR~~Dle~VG~~rHhTfFEMlG 88 (594)
T PRK01584 58 TRLVDVQKCLRTGDIDEVGDLSHLTFFEMLG 88 (594)
T ss_pred CCccccccccccccccccCCCcchhHHHhhc
Confidence 567777889998 5666899999999974
Done!