Query psy4384
Match_columns 661
No_of_seqs 494 out of 2570
Neff 6.7
Searched_HMMs 46136
Date Sat Aug 17 00:09:16 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4384.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4384hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2626|consensus 100.0 2E-109 5E-114 885.7 26.6 493 1-504 26-534 (544)
2 COG0017 AsnS Aspartyl/asparagi 100.0 2.8E-33 6E-38 301.2 11.7 149 507-661 195-344 (435)
3 KOG0554|consensus 100.0 1.3E-32 2.9E-37 286.5 7.9 159 502-660 193-359 (446)
4 PLN02532 asparagine-tRNA synth 100.0 3.1E-32 6.6E-37 306.7 10.6 151 507-658 385-540 (633)
5 PLN02603 asparaginyl-tRNA synt 100.0 8.4E-31 1.8E-35 294.4 11.9 151 507-658 317-472 (565)
6 PTZ00425 asparagine-tRNA ligas 100.0 1.9E-30 4.1E-35 291.0 10.5 153 506-659 338-494 (586)
7 PLN02221 asparaginyl-tRNA synt 100.0 4.9E-30 1.1E-34 288.2 11.8 151 507-658 322-479 (572)
8 TIGR00458 aspS_arch aspartyl-t 100.0 1.3E-29 2.8E-34 279.6 11.8 147 504-661 192-338 (428)
9 PRK05159 aspC aspartyl-tRNA sy 100.0 1.7E-29 3.6E-34 279.7 12.0 149 504-661 195-347 (437)
10 TIGR00457 asnS asparaginyl-tRN 100.0 2.3E-29 5E-34 279.0 12.7 152 507-660 206-361 (453)
11 KOG0349|consensus 100.0 2.5E-29 5.4E-34 263.6 10.5 171 263-487 88-265 (725)
12 PRK06462 asparagine synthetase 100.0 3.7E-29 8.1E-34 267.9 10.7 144 507-661 98-243 (335)
13 PRK03932 asnC asparaginyl-tRNA 100.0 6.6E-29 1.4E-33 275.6 12.6 152 507-659 203-358 (450)
14 cd00776 AsxRS_core Asx tRNA sy 100.0 9.3E-29 2E-33 263.7 11.2 149 506-661 85-235 (322)
15 PLN02850 aspartate-tRNA ligase 99.9 1.6E-27 3.4E-32 267.9 11.7 153 504-661 284-440 (530)
16 PTZ00401 aspartyl-tRNA synthet 99.9 2.2E-27 4.9E-32 266.7 10.5 158 503-661 271-460 (550)
17 KOG0556|consensus 99.9 2.6E-27 5.6E-32 246.8 10.1 155 502-661 285-443 (533)
18 KOG0555|consensus 99.9 1.5E-26 3.3E-31 240.1 9.3 145 507-661 304-454 (545)
19 TIGR00462 genX lysyl-tRNA synt 99.9 6.8E-26 1.5E-30 239.8 9.5 141 506-661 68-215 (304)
20 PRK12445 lysyl-tRNA synthetase 99.9 2.2E-25 4.7E-30 249.5 9.7 141 506-661 247-409 (505)
21 TIGR00499 lysS_bact lysyl-tRNA 99.9 1.8E-25 3.8E-30 250.3 8.1 140 506-661 235-400 (496)
22 PF00152 tRNA-synt_2: tRNA syn 99.9 2.5E-25 5.5E-30 239.1 8.7 142 504-660 86-244 (335)
23 COG1190 LysU Lysyl-tRNA synthe 99.9 6.3E-25 1.4E-29 237.9 5.6 150 506-661 243-406 (502)
24 PRK00484 lysS lysyl-tRNA synth 99.9 1.4E-24 3E-29 243.0 8.1 140 506-661 235-395 (491)
25 PLN02502 lysyl-tRNA synthetase 99.9 4.8E-24 1.1E-28 240.0 8.4 140 506-661 292-457 (553)
26 PTZ00417 lysine-tRNA ligase; P 99.9 6.6E-24 1.4E-28 239.7 8.5 148 506-661 316-489 (585)
27 cd00775 LysRS_core Lys_tRNA sy 99.9 6.7E-24 1.4E-28 227.0 6.8 137 506-660 71-234 (329)
28 PRK02983 lysS lysyl-tRNA synth 99.9 1.1E-23 2.5E-28 253.4 8.8 146 506-661 833-999 (1094)
29 PTZ00385 lysyl-tRNA synthetase 99.9 2.8E-23 6.1E-28 235.4 9.0 145 505-661 295-470 (659)
30 KOG4323|consensus 99.9 3.9E-23 8.5E-28 223.0 7.5 144 1-152 177-326 (464)
31 smart00449 SPRY Domain in SPla 99.9 7.9E-22 1.7E-26 180.5 14.9 116 301-462 1-121 (122)
32 cd00669 Asp_Lys_Asn_RS_core As 99.9 2.6E-22 5.6E-27 208.9 8.0 118 504-661 62-179 (269)
33 PF00622 SPRY: SPRY domain; I 99.9 7.5E-21 1.6E-25 173.9 14.7 116 301-462 1-122 (124)
34 KOG1885|consensus 99.8 1.3E-21 2.9E-26 207.6 2.8 144 506-660 288-461 (560)
35 PRK09350 poxB regulator PoxA; 99.8 1.3E-20 2.7E-25 199.9 9.1 141 506-661 73-220 (306)
36 COG2269 Truncated, possibly in 99.8 9.2E-20 2E-24 184.2 7.4 141 506-661 84-229 (322)
37 KOG4030|consensus 99.7 6.7E-17 1.4E-21 149.0 16.7 155 262-470 27-185 (197)
38 TIGR00459 aspS_bact aspartyl-t 99.7 4E-18 8.7E-23 192.9 9.7 63 504-568 199-261 (583)
39 cd00777 AspRS_core Asp tRNA sy 99.7 6.9E-17 1.5E-21 169.3 5.8 91 505-622 63-153 (280)
40 KOG3953|consensus 99.7 9.6E-16 2.1E-20 151.1 13.3 158 264-464 27-201 (242)
41 PLN02903 aminoacyl-tRNA ligase 99.6 3.7E-16 8E-21 177.9 6.8 84 503-610 264-347 (652)
42 KOG4367|consensus 99.6 1.5E-14 3.3E-19 152.0 14.1 156 262-462 530-694 (699)
43 PRK00476 aspS aspartyl-tRNA sy 99.6 1.7E-15 3.8E-20 172.7 7.4 82 504-609 202-283 (588)
44 PRK12820 bifunctional aspartyl 99.6 3.2E-15 7E-20 171.8 6.2 81 504-609 217-297 (706)
45 KOG2243|consensus 99.5 1.4E-14 3.1E-19 164.6 10.5 133 288-467 1090-1234(5019)
46 COG0173 AspS Aspartyl-tRNA syn 99.3 1.4E-12 3E-17 143.2 7.0 83 503-609 201-283 (585)
47 KOG2411|consensus 99.3 1.2E-12 2.6E-17 140.7 3.5 83 503-609 239-321 (628)
48 KOG2243|consensus 99.0 7.7E-11 1.7E-15 135.0 2.9 138 289-471 657-825 (5019)
49 KOG1477|consensus 98.8 9.1E-09 2E-13 114.6 7.3 163 264-469 32-211 (469)
50 KOG1477|consensus 97.4 6.5E-05 1.4E-09 84.2 2.0 86 341-470 1-89 (469)
51 PF01409 tRNA-synt_2d: tRNA sy 96.9 0.0011 2.3E-08 68.8 5.0 53 510-563 101-154 (247)
52 smart00249 PHD PHD zinc finger 96.9 0.00057 1.2E-08 51.0 2.2 38 6-46 10-47 (47)
53 cd00496 PheRS_alpha_core Pheny 96.8 0.0013 2.9E-08 66.7 4.9 51 510-562 79-131 (218)
54 cd00768 class_II_aaRS-like_cor 96.7 0.0017 3.6E-08 64.3 4.2 53 510-562 74-132 (211)
55 PRK09537 pylS pyrolysyl-tRNA s 96.5 0.0025 5.5E-08 70.3 4.4 50 512-562 283-333 (417)
56 PTZ00326 phenylalanyl-tRNA syn 96.4 0.003 6.5E-08 71.1 4.1 50 512-562 358-408 (494)
57 PLN02853 Probable phenylalanyl 96.3 0.0034 7.3E-08 70.4 4.3 48 513-562 344-393 (492)
58 TIGR02367 PylS pyrrolysyl-tRNA 96.0 0.0069 1.5E-07 67.0 4.4 49 511-560 318-367 (453)
59 PF00628 PHD: PHD-finger; Int 96.0 0.0008 1.7E-08 52.1 -2.1 42 4-47 8-49 (51)
60 KOG2242|consensus 95.7 0.003 6.5E-08 72.4 0.4 156 287-486 66-238 (558)
61 KOG2784|consensus 95.5 0.0072 1.6E-07 64.3 2.2 50 512-562 334-384 (483)
62 PRK00488 pheS phenylalanyl-tRN 95.5 0.015 3.3E-07 62.5 4.7 51 513-564 187-238 (339)
63 TIGR00468 pheS phenylalanyl-tR 95.2 0.024 5.1E-07 60.4 5.1 50 512-563 151-202 (294)
64 PRK04172 pheS phenylalanyl-tRN 95.2 0.02 4.4E-07 65.1 4.9 50 512-562 351-401 (489)
65 COG0016 PheS Phenylalanyl-tRNA 95.2 0.02 4.2E-07 61.5 4.1 53 511-564 192-245 (335)
66 PLN02788 phenylalanine-tRNA sy 94.8 0.029 6.3E-07 61.9 4.5 52 510-563 146-211 (402)
67 TIGR00470 sepS O-phosphoseryl- 94.7 0.036 7.9E-07 61.6 4.9 50 512-562 208-259 (533)
68 PF00587 tRNA-synt_2b: tRNA sy 94.3 0.067 1.5E-06 52.0 5.4 49 513-563 85-135 (173)
69 cd00778 ProRS_core_arch_euk Pr 92.0 0.097 2.1E-06 54.7 2.4 49 513-562 121-171 (261)
70 PF00250 Fork_head: Fork head 89.2 0.75 1.6E-05 40.7 5.2 70 58-143 3-79 (96)
71 cd00670 Gly_His_Pro_Ser_Thr_tR 89.2 0.51 1.1E-05 47.8 4.8 47 513-561 90-138 (235)
72 TIGR00442 hisS histidyl-tRNA s 88.0 0.54 1.2E-05 52.0 4.3 35 512-547 98-132 (397)
73 cd00773 HisRS-like_core Class 87.2 0.69 1.5E-05 48.1 4.3 35 511-546 82-116 (261)
74 cd00772 ProRS_core Prolyl-tRNA 87.1 1 2.2E-05 47.2 5.6 49 513-562 121-171 (264)
75 PRK00037 hisS histidyl-tRNA sy 86.8 0.62 1.3E-05 51.7 4.0 35 511-546 98-132 (412)
76 cd00779 ProRS_core_prok Prolyl 83.8 0.79 1.7E-05 47.7 2.8 49 513-562 115-165 (255)
77 PRK12444 threonyl-tRNA synthet 83.8 1.3 2.8E-05 52.4 4.8 49 513-563 357-408 (639)
78 PRK08661 prolyl-tRNA synthetas 81.8 1.1 2.4E-05 51.0 3.2 48 513-562 133-182 (477)
79 cd00771 ThrRS_core Threonyl-tR 80.4 2.2 4.8E-05 45.4 4.7 48 513-562 113-163 (298)
80 KOG2752|consensus 80.2 0.73 1.6E-05 48.6 0.9 23 4-26 142-165 (345)
81 cd00774 GlyRS-like_core Glycyl 79.2 0.97 2.1E-05 47.0 1.5 34 513-546 109-144 (254)
82 PRK12305 thrS threonyl-tRNA sy 78.5 2.5 5.5E-05 49.2 4.8 50 513-564 290-342 (575)
83 cd00770 SerRS_core Seryl-tRNA 78.4 1.7 3.6E-05 46.4 3.0 49 513-563 133-187 (297)
84 PRK12293 hisZ ATP phosphoribos 78.2 2.3 5.1E-05 45.0 4.1 44 512-562 96-139 (281)
85 PF07177 Neuralized: Neuralize 77.6 7.6 0.00016 32.2 6.0 55 271-326 9-67 (69)
86 TIGR00408 proS_fam_I prolyl-tR 77.5 1.6 3.5E-05 49.6 2.7 50 513-563 127-178 (472)
87 PRK09194 prolyl-tRNA synthetas 76.8 3.7 8E-05 47.8 5.5 46 513-559 131-178 (565)
88 PRK12292 hisZ ATP phosphoribos 76.7 2.7 5.9E-05 46.5 4.2 48 512-560 99-149 (391)
89 TIGR00418 thrS threonyl-tRNA s 76.2 3.1 6.7E-05 48.3 4.6 46 513-560 284-332 (563)
90 TIGR00409 proS_fam_II prolyl-t 76.1 4 8.6E-05 47.6 5.4 46 513-559 131-178 (568)
91 PLN02908 threonyl-tRNA synthet 75.8 3.2 6.9E-05 49.5 4.7 50 513-564 404-456 (686)
92 PLN02837 threonine-tRNA ligase 75.3 3.3 7.2E-05 48.7 4.6 50 513-564 331-383 (614)
93 PF13831 PHD_2: PHD-finger; PD 74.2 0.94 2E-05 32.7 -0.2 22 8-29 2-23 (36)
94 TIGR00443 hisZ_biosyn_reg ATP 73.7 3.6 7.9E-05 44.1 4.1 36 511-547 87-122 (314)
95 KOG2242|consensus 73.5 3 6.5E-05 48.3 3.6 84 338-467 8-96 (558)
96 PRK04173 glycyl-tRNA synthetas 73.5 3.5 7.5E-05 46.7 4.0 49 513-564 188-239 (456)
97 PRK00413 thrS threonyl-tRNA sy 72.7 4.9 0.00011 47.4 5.2 48 513-562 354-404 (638)
98 PRK05431 seryl-tRNA synthetase 72.4 4.4 9.5E-05 45.5 4.5 50 513-564 252-307 (425)
99 PRK12325 prolyl-tRNA synthetas 72.2 4.6 9.9E-05 45.5 4.6 50 513-563 131-182 (439)
100 PRK03991 threonyl-tRNA synthet 72.0 4.2 9.1E-05 47.8 4.4 51 513-564 310-364 (613)
101 TIGR00414 serS seryl-tRNA synt 69.3 6.5 0.00014 44.1 4.9 50 513-564 254-309 (418)
102 PF13393 tRNA-synt_His: Histid 68.4 6.2 0.00013 41.9 4.4 51 509-560 86-139 (311)
103 CHL00201 syh histidine-tRNA sy 66.8 6.2 0.00014 44.3 4.2 35 512-547 103-137 (430)
104 PRK14799 thrS threonyl-tRNA sy 66.5 6.6 0.00014 45.5 4.4 50 513-564 251-303 (545)
105 PRK12421 ATP phosphoribosyltra 65.7 7 0.00015 43.4 4.2 51 511-562 101-154 (392)
106 COG0124 HisS Histidyl-tRNA syn 60.8 8.1 0.00018 43.4 3.6 37 510-547 100-136 (429)
107 COG0442 ProS Prolyl-tRNA synth 60.6 8.8 0.00019 43.9 3.9 50 513-563 131-182 (500)
108 PRK12420 histidyl-tRNA synthet 60.0 8.5 0.00019 43.0 3.7 47 513-560 101-150 (423)
109 cd00059 FH Forkhead (FH), also 60.0 7.1 0.00015 33.2 2.3 58 58-131 3-60 (78)
110 PLN02972 Histidyl-tRNA synthet 57.5 11 0.00024 45.2 4.1 47 513-560 419-469 (763)
111 KOG0825|consensus 57.1 4.2 9.1E-05 47.8 0.6 37 7-47 227-264 (1134)
112 TIGR00469 pheS_mito phenylalan 56.2 13 0.00029 41.8 4.3 29 513-542 135-163 (460)
113 smart00339 FH FORKHEAD. FORKHE 56.0 11 0.00023 33.0 2.8 70 58-143 3-79 (89)
114 PLN02530 histidine-tRNA ligase 54.9 14 0.0003 42.3 4.3 34 513-547 166-199 (487)
115 PRK07080 hypothetical protein; 53.6 13 0.00029 39.8 3.6 49 513-563 153-202 (317)
116 KOG4443|consensus 52.8 2 4.3E-05 49.6 -2.8 41 7-47 160-200 (694)
117 PRK09616 pheT phenylalanyl-tRN 51.7 19 0.0004 42.0 4.8 49 512-561 439-488 (552)
118 PRK00960 seryl-tRNA synthetase 50.6 14 0.0003 42.6 3.3 50 513-566 337-390 (517)
119 KOG0957|consensus 50.4 5.6 0.00012 44.5 0.2 39 8-47 557-596 (707)
120 smart00588 NEUZ domain in neur 48.1 45 0.00098 30.8 5.8 57 270-327 8-69 (123)
121 PRK12295 hisZ ATP phosphoribos 46.2 20 0.00043 39.6 3.7 47 511-561 82-132 (373)
122 COG0423 GRS1 Glycyl-tRNA synth 43.6 12 0.00026 42.6 1.5 30 514-543 190-221 (558)
123 TIGR00415 serS_MJ seryl-tRNA s 42.4 32 0.00069 39.5 4.5 49 513-563 337-388 (520)
124 KOG4299|consensus 41.9 11 0.00024 43.5 0.9 77 3-104 262-342 (613)
125 PF07496 zf-CW: CW-type Zinc F 41.4 10 0.00022 29.4 0.3 13 11-23 4-16 (50)
126 PF15446 zf-PHD-like: PHD/FYVE 38.6 22 0.00049 34.6 2.3 41 7-47 14-58 (175)
127 PRK14894 glycyl-tRNA synthetas 38.5 18 0.0004 41.3 1.9 31 514-544 168-200 (539)
128 PLN02678 seryl-tRNA synthetase 36.2 26 0.00056 39.7 2.6 48 513-562 257-312 (448)
129 KOG1632|consensus 36.1 12 0.00025 41.0 -0.1 37 9-48 74-112 (345)
130 PLN02734 glycyl-tRNA synthetas 35.4 15 0.00032 43.5 0.6 32 514-546 278-311 (684)
131 PF14041 Lipoprotein_21: LppP/ 34.0 76 0.0017 27.5 4.7 38 421-461 26-63 (89)
132 PF13832 zf-HC5HC2H_2: PHD-zin 31.4 32 0.00069 30.7 2.0 36 9-44 67-108 (110)
133 TIGR00389 glyS_dimeric glycyl- 29.9 18 0.00038 42.0 0.0 28 514-542 186-216 (551)
134 cd00769 PheRS_beta_core Phenyl 29.4 75 0.0016 31.5 4.4 46 512-561 79-136 (198)
135 KOG2324|consensus 29.3 63 0.0014 35.4 4.0 53 513-568 137-192 (457)
136 KOG1844|consensus 28.9 22 0.00047 40.7 0.5 41 7-52 98-138 (508)
137 PF13913 zf-C2HC_2: zinc-finge 26.4 21 0.00045 23.5 -0.1 17 10-26 2-18 (25)
138 PLN02320 seryl-tRNA synthetase 24.4 1E+02 0.0022 35.5 4.8 50 513-564 315-370 (502)
139 PRK06253 O-phosphoseryl-tRNA s 24.2 72 0.0016 36.7 3.5 49 513-562 210-260 (529)
140 KOG1245|consensus 23.9 29 0.00062 44.7 0.4 37 8-48 1121-1157(1404)
141 KOG0383|consensus 22.5 54 0.0012 39.1 2.2 87 10-103 59-152 (696)
142 KOG2298|consensus 22.1 22 0.00047 40.0 -1.0 27 516-542 214-242 (599)
No 1
>KOG2626|consensus
Probab=100.00 E-value=2.2e-109 Score=885.70 Aligned_cols=493 Identities=46% Similarity=0.834 Sum_probs=452.0
Q ss_pred CCCCccccceEecccccchhhHhhhc--cccCCccccceeEEEEcccCCCCCccceeeccCChHHHHHHHhhhccccccc
Q psy4384 1 GKERNFNLIELFCANCKCWFHESCIS--YQIGKLVPFMMNYVFICKNCSNTGLESFKKNQAMFPQMCITAIGNLMQTSIK 78 (661)
Q Consensus 1 g~~~~~~~~~lqC~~C~~wfH~~C~~--~~~~~~l~~~~~y~F~C~~C~~~g~e~~~r~~~~w~~~~~laLynL~~~~~~ 78 (661)
|++||+++++|||..|.+|||+.|+. .+.++++|++++|+|+|+.|.++|.|.|++.+++|++||++||+||+.....
T Consensus 26 e~~r~l~~~elqcs~clk~~~~~~~~~~~~~~s~~pf~t~y~fvc~~c~~~~~e~f~~~~a~~~~~~~t~ia~~~~~~~~ 105 (544)
T KOG2626|consen 26 EGERNLGIVELQCSTCLKWFHLPTLEAFHLIKSSLPFMTSYEFVCKECTPSGREHFERKQASLKAMCFTTIANLTCPSYP 105 (544)
T ss_pred ccccccCceeeEeeecccccccccccccccccccCCcccceeEEeccccCcchhhhhhcccchhhcchhhhcccCCcccc
Confidence 68999999999999999999986665 2334489999999999999999999999999999999999999999866543
Q ss_pred -cCCCc-cccccccccHHHHHhchhhccCCCccccchHHHHHHHHHhcCCCceEeecCCcc---eeeecCCCCCCCCchh
Q psy4384 79 -EGNPR-FTFSKEKEIIPFIEAHWDGMTTTPRRVTQSWHLTILRALAKETNVLFTCNESQE---QYGLIDKDLAHIKPNY 153 (661)
Q Consensus 79 -~~~~k-~yF~~~~dI~~fi~~~W~~L~~~~r~~~~~w~~~i~~~L~~~~~~~F~~g~~~~---~w~L~~~~~~~~~p~~ 153 (661)
|..+. .||+++++|+|||++||+.|++.++ +++|+.++..+|+++-.++|...++.. +|+|.++++.++.|+|
T Consensus 106 ~D~~~~~t~~~~~~eiip~ie~~w~~l~~~~~--~~~w~~~~~~~~~ke~~t~~~~~~~~~~~~~~al~~~nl~~~~p~~ 183 (544)
T KOG2626|consen 106 FDGSPMETYFSKKKEIIPYIEEYWEDLTTVPQ--KQTWRTNLSDTLSKERDTYFEVEEHRDPGKLFALANQNLSNIGPSY 183 (544)
T ss_pred ccccchhhhcccccccccchhhhhhhhccccc--ccchhhhhhhhhhhcccceeEEeccCCCcchhhhcccchhhcCccc
Confidence 55555 8999999999999999999997654 899999999999999555777666554 9999999999999999
Q ss_pred HH-hhhccceeeecCCcCCCCC--CCCCCCCCCCCCCCCCcccCCCCCCCCC-CCCCCCCCC-CCCCCCCCCCCceeEec
Q psy4384 154 EQ-MIKGGHIKVTDMGIQSSGS--NKGRGAKRKMPGETGVVSKRGRGAGGDA-AVPKLPAHG-YPLDHPFNKDGYRYILA 228 (661)
Q Consensus 154 ~~-~~~~g~~~~~~~~~~~~~~--~k~~~~kr~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~-~~~~~p~n~~g~~y~~~ 228 (661)
+. ++++|+...++..+..+++ .|.|..+|+.+++++.++++.|. .+|. .+..+|+|| ++++||++|+||||+++
T Consensus 184 ~~~~~~~~~~~~~~q~~~~p~~~~~k~r~a~~~~p~~~~v~g~~~r~-~sd~~~s~~k~p~~~v~~~~p~~k~~~~~~l~ 262 (544)
T KOG2626|consen 184 DEVQSGIGAKMHKKQVDETPPLSSGKCREASREAPSEAPVTGKKIKL-ISDAKESIHKPPNGCVPIEHPFSKDGYRYILA 262 (544)
T ss_pred cchhhcccccccccccCCCCCccccccccccccccCCCCccccccee-hhhcccccccCCCCCccccCCCCCCCceeeEe
Confidence 99 9999999998666555544 47888999988788888999887 6666 777799999 99999999999999999
Q ss_pred cCCCCCCCcccccccccCCCCCCCcccccccCCC--ceEeCcCCCCCCeEEeCCCcEEEeCCCeeEEEEeEEEeCCeEEE
Q psy4384 229 EPDPHAPFRQEFDESTETAGKPIPGWLYRTLAPS--HVLLALHDRAPQLRISEDRLAVTGDKGYCMVRATNYVGHGTWYW 306 (661)
Q Consensus 229 ~~~p~~p~~~~~~~~~~~~~~~~p~~~yr~~~~~--~v~~s~~dr~~~l~ls~d~l~v~~~~g~~~vRa~~~v~~G~~Yf 306 (661)
++||++|.++.| .++||.++||.+.++ .|+++++||++++.||+|+|+|||++||+||||+|+|.+|.|||
T Consensus 263 e~~P~~p~~~~~-------ak~iP~~~yr~l~~~~~tv~l~~hdrA~ql~Is~drlt~tgeKGy~MvRAshgv~~G~WYF 335 (544)
T KOG2626|consen 263 EPDPSAPEDIKF-------AKPIPGFLYRALLSPMDTVNLSWHDRAEQLKISEDRLTATGEKGYRMVRASHGVLEGAWYF 335 (544)
T ss_pred ccCCCCcccccc-------cccCCcchhhhhcCchhhhhhhhhcccccccccccceeeecccceeeeeecccccccceeE
Confidence 999999998876 789999999999866 99999999999999999999999999999999999999999999
Q ss_pred EEEEEeeCCCCcEEEEEeCCCCCCCCCCCCcCccEEEEcCCCcEEeCCCCcccCCCCCCCCEEEEEeeCCCCCC-CCCCC
Q psy4384 307 EATIEEMPEGSATRMGWGQEYANLQTPLGYDKFGYSWRSRKGTRFHECRGKHYSEGYSEGDTLGFLIHLPYRNQ-NSYVP 385 (661)
Q Consensus 307 Ev~i~~~~~~~~vriG~a~~~~~l~~pvG~d~~syg~~~~~G~~~h~s~~~~yg~~~~~GDVIG~~i~l~~~~~-~~~~~ 385 (661)
||+|+++++++|+||||++..++||||||||++|||||+.+|+++|++.+++|..+|++||||||+|+||.... ...+|
T Consensus 336 EI~vd~~pd~~a~RlGwsq~~g~LqApvGYdkfsY~wRdk~GtKfh~s~gk~Y~~gf~qGDvLGf~I~LP~~~~~~~~lp 415 (544)
T KOG2626|consen 336 EIKVDEMPDDAAIRLGWSQLYGNLQAPVGYDKFSYGWRDKKGTKFHESLGKHYSDGFGQGDVLGFYINLPKDLSPEKYLP 415 (544)
T ss_pred EEEeecCCCccceeeeccccccccccccccccccccccccCCcchhhhhhhhhhhhccCCceEEEEEecCCcccccccCC
Confidence 99999999999999999999999999999999999999999999999999999999999999999999998544 47899
Q ss_pred CccCCccccccccccchhccchhhHHHhhcccCCCcEEEEEECCeeccccceecc-CCceEEEEEecCCcEEEEeCCCCC
Q psy4384 386 RTFKDKPLVKFKCHLYYEEKDKVTEALKRLQTLDQSQIVFYKNGKSQGVAFQDIY-AGYYYPCVSLHKNCTVSVNFGPHF 464 (661)
Q Consensus 386 ~~~~d~~~i~~k~~~~~e~~d~~~~~~~~~~~~~~s~I~f~kNG~~~G~AF~~i~-~g~yyPavSl~~g~~v~~NFG~~F 464 (661)
+++||+++|+||+|+|||+.|++.++.++|..+|||.|.|||||++||+||+||+ .|.||||||||++++|++||||.|
T Consensus 416 ~~~kdk~lI~yK~~lyfe~~d~v~k~~k~l~~~pgS~I~f~KNG~~qG~Ay~ni~~~G~YyPaIS~yks~tv~~nfGP~F 495 (544)
T KOG2626|consen 416 LTHKDKFLIKYKGHLYFEDPDNVAKIEKTLKIKPGSEIEFFKNGVSQGVAYENIYKAGAYYPAISIYKSCTVKFNFGPQF 495 (544)
T ss_pred ccccccceeeeeeeeEEEccchhhhhhhccccCCCceEEEeecccchhhhhhhhhccccccceeeecccceEEEeccccc
Confidence 9999999999999999999999999999999999999999999999999999999 699999999999999999999999
Q ss_pred CCCCCCCCCCCccccccccchhhhccchhhhhhhhhccce
Q psy4384 465 KHALPTEEFPNVRGMWERSEESICEQSMADVLYLTENSGK 504 (661)
Q Consensus 465 ~~~p~~~~~~~~~p~~~~~~e~~~e~~laD~l~lve~~~q 504 (661)
+|||-+.++ ..++|++|++|||+||+|||+||++|.+.-
T Consensus 496 ~~~p~~lg~-~~~~m~~~~~eqi~E~~l~DiLy~ve~e~~ 534 (544)
T KOG2626|consen 496 RYPPCVLGN-RAVGMSDRYKEQIAEDTLADILYEVEQEVD 534 (544)
T ss_pred cCCccccCC-CcccccchhhhhHHHHHHHHHHHHhhhhhc
Confidence 999987655 345699999999999999999999987443
No 2
>COG0017 AsnS Aspartyl/asparaginyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=2.8e-33 Score=301.25 Aligned_cols=149 Identities=38% Similarity=0.724 Sum_probs=133.0
Q ss_pred eecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhccccc
Q psy4384 507 LDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLANI 586 (661)
Q Consensus 507 la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~~~ 586 (661)
+++.++|||+|||+||||+++|+|||+||||+|.|+||++ ++|+|+++|+||+++++.|++++..+++.+++ +.
T Consensus 195 ~~~al~rVf~igP~FRAE~s~T~RHL~EF~~ld~Emaf~~-~~d~m~l~E~~i~~i~~~v~e~~~~el~~l~~--~~--- 268 (435)
T COG0017 195 LAAALERVFTIGPTFRAEKSNTRRHLSEFWMLDPEMAFAD-LNDVMDLAEELIKYLFKKVLEECADELEFLGR--DN--- 268 (435)
T ss_pred HHHHhCceEEecCceecCCCCCcchhhhHheecceeccCc-HHHHHHHHHHHHHHHHHHHHHHhHHHHHHhhc--cc---
Confidence 4556999999999999999999999999999999999999 99999999999999999999999999988764 11
Q ss_pred cccccccCCcccccCHHHHHHHHHHcCCC-CCCCCCCchHHHHHHhhhccCceEEEEcCcccccccccccCCCCCC
Q psy4384 587 TDLQCIHDNPFIRMSYSAAVTILTRHGFD-VNPDSGLSKQHELFLVKYTNNVPIFIINWPKHVKPFYMKRSGEDPD 661 (661)
Q Consensus 587 ~~l~~~~~~pf~rit~~EAi~lL~~~~i~-~~~g~dl~~~~E~~L~e~~~~~PvFv~~yP~~~~PFY~k~~~~dp~ 661 (661)
..+....+.||+||||+|||++|++++++ ++||+||++++|++|+++....|+||+|||+++|||||++++++|+
T Consensus 269 ~~l~~~~~~pf~ritY~eAieiL~~~~~e~~~~GdDl~~e~Er~l~e~~~~~~vfv~~yP~~~kpFYm~~~~d~p~ 344 (435)
T COG0017 269 SELKRPESAPFPRITYKEAIEILEEKGFEKVEWGDDLGTEHERYLGEEYFKPPVFVTNYPKEIKPFYMRPDPDNPG 344 (435)
T ss_pred hhhcccccCCccEEEHHHHHHHHHhcCCcccCCCCccCCHHHHHHHHHhCCCcEEEEeCcccccccccccCCCCCC
Confidence 12221114689999999999999999998 9999999999999999886655799999999999999999999974
No 3
>KOG0554|consensus
Probab=99.97 E-value=1.3e-32 Score=286.54 Aligned_cols=159 Identities=36% Similarity=0.633 Sum_probs=146.6
Q ss_pred ccee---eeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHh
Q psy4384 502 SGKL---KLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYR 578 (661)
Q Consensus 502 ~~qL---~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~ 578 (661)
+||| +++.+++|||++||+||||+|+++|||+||||||+|+||++.++|+|+.+|++++++++.+++++.+++++..
T Consensus 193 SgQLhlE~~a~~LsrvyTfgP~FRAEnS~tsRHLAEFwMlEaE~AF~~sl~d~m~~~e~~~K~mik~llek~~edmel~~ 272 (446)
T KOG0554|consen 193 SGQLHLEAMACALSRVYTFGPTFRAENSHTSRHLAEFWMLEAELAFAESLDDLMSCAEAYIKHMIKYLLEKCIEDMELMH 272 (446)
T ss_pred eceehHHHHHhhhcceEeeccceecccCCchhHHhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhhccchhheec
Confidence 4565 3678999999999999999999999999999999999999889999999999999999999999999998888
Q ss_pred hhhccccccccccccCCcccccCHHHHHHHHHHcC-----CCCCCCCCCchHHHHHHhhhccCceEEEEcCccccccccc
Q psy4384 579 KLINLANITDLQCIHDNPFIRMSYSAAVTILTRHG-----FDVNPDSGLSKQHELFLVKYTNNVPIFIINWPKHVKPFYM 653 (661)
Q Consensus 579 ~~~~~~~~~~l~~~~~~pf~rit~~EAi~lL~~~~-----i~~~~g~dl~~~~E~~L~e~~~~~PvFv~~yP~~~~PFY~ 653 (661)
+..+...+..++.++..+|.+|||+|||++|++.. .+++||.+|.+++|++|++++++.||||+|||+.+|||||
T Consensus 273 k~~~~~~~~rl~~~~~~~~~~~tYteAie~L~~a~t~~fk~~~kwG~~l~~ehe~yL~~~~~~~PVfV~dYP~~iKpFYM 352 (446)
T KOG0554|consen 273 KNEDPGSIDRLELVAKENLLRITYTEAIELLQKAVTKKFKTPPKWGIDLSTEHEKYLVEECFKKPVFVTDYPKGIKPFYM 352 (446)
T ss_pred cccCCCccchhhhhccchhhhccHHHHHHHHHHhcccccccCcccccccchhhHHHHHHHhcCCCEEEEeccccccceEE
Confidence 88877777788888888899999999999998864 4678899999999999999998999999999999999999
Q ss_pred ccCCCCC
Q psy4384 654 KRSGEDP 660 (661)
Q Consensus 654 k~~~~dp 660 (661)
|.+++++
T Consensus 353 r~n~~~~ 359 (446)
T KOG0554|consen 353 RLNDDGK 359 (446)
T ss_pred EecCCCC
Confidence 9998875
No 4
>PLN02532 asparagine-tRNA synthetase
Probab=99.97 E-value=3.1e-32 Score=306.70 Aligned_cols=151 Identities=32% Similarity=0.532 Sum_probs=132.3
Q ss_pred eecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhccccc
Q psy4384 507 LDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLANI 586 (661)
Q Consensus 507 la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~~~ 586 (661)
++++++|||+|||+||||+++|+|||+||||||+|+||+| |+|+|+++|+||+++++.|++++..+++++...++...+
T Consensus 385 ~~~gl~rVYeIgP~FRAE~s~T~RHL~EFtmlE~Emaf~d-~~dvM~l~E~lI~~v~k~v~~~~~~el~~l~~~~~~~~~ 463 (633)
T PLN02532 385 YACALGNVYTFGPRFRADRIDSARHLAEMWMVEVEMAFSE-LEDAMNCAEDYFKFLCKWVLENCSEDMKFVSKRIDKTIS 463 (633)
T ss_pred HHHhcCceEEEccceecCCCCCCcccccccceeeeehhcC-HHHHHHHHHHHHHHHHHHHHhhhhhhhhhhcccCCcchh
Confidence 5679999999999999999999999999999999999997 999999999999999999999988888877544433333
Q ss_pred cccccccCCcccccCHHHHHHHHHHcC-----CCCCCCCCCchHHHHHHhhhccCceEEEEcCcccccccccccCCC
Q psy4384 587 TDLQCIHDNPFIRMSYSAAVTILTRHG-----FDVNPDSGLSKQHELFLVKYTNNVPIFIINWPKHVKPFYMKRSGE 658 (661)
Q Consensus 587 ~~l~~~~~~pf~rit~~EAi~lL~~~~-----i~~~~g~dl~~~~E~~L~e~~~~~PvFv~~yP~~~~PFY~k~~~~ 658 (661)
..++..+..||+||||.|||++|++.+ .++++|.||++++|++|++++.++||||+|||+++|||||+.+++
T Consensus 464 ~~le~~~~~pf~RIty~EAi~iL~~~~~~~~e~~~~~g~dL~~e~Er~L~~~~~~~PvFVtdyP~~ikPFY~~~~~d 540 (633)
T PLN02532 464 TRLEAIISSSLQRISYTEAVDLLKQATDKKFETKPEWGIALTTEHLSYLADEIYKKPVIIYNYPKELKPFYVRLNDD 540 (633)
T ss_pred hhhhcccCCCceEEEHHHHHHHHHHhcCCCcccccccCCccChHHHHHHHHHHcCCCEEEECCChhhchhhCCcCCC
Confidence 445545678999999999999998764 336788999999999999987688999999999999999998855
No 5
>PLN02603 asparaginyl-tRNA synthetase
Probab=99.97 E-value=8.4e-31 Score=294.42 Aligned_cols=151 Identities=34% Similarity=0.615 Sum_probs=133.2
Q ss_pred eecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhccccc
Q psy4384 507 LDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLANI 586 (661)
Q Consensus 507 la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~~~ 586 (661)
+++|++|||+|||+||||+++|+|||+||||||+|++|+| ++|+|+++|++|+++++.|++++..+++++..+.+...+
T Consensus 317 ~~~~l~rVy~igp~FRaE~s~T~RHL~EF~mlE~E~af~d-l~d~m~~~E~~l~~~~~~v~~~~~~el~~~~~~~~~~~~ 395 (565)
T PLN02603 317 YATALSDVYTFGPTFRAENSNTSRHLAEFWMIEPELAFAD-LNDDMACATAYLQYVVKYILENCKEDMEFFNTWIEKGII 395 (565)
T ss_pred HHhcccceEEEecceeCCCCCCccccccceeeeeeeecCC-HHHHHHHHHHHHHHHHHHHHcccHhHHHhcCCcccccHH
Confidence 5679999999999999999999999999999999999998 999999999999999999999998888887665554445
Q ss_pred cccccccCCcccccCHHHHHHHHHHcC----CCCCCCCCCchHHHHHHhhhcc-CceEEEEcCcccccccccccCCC
Q psy4384 587 TDLQCIHDNPFIRMSYSAAVTILTRHG----FDVNPDSGLSKQHELFLVKYTN-NVPIFIINWPKHVKPFYMKRSGE 658 (661)
Q Consensus 587 ~~l~~~~~~pf~rit~~EAi~lL~~~~----i~~~~g~dl~~~~E~~L~e~~~-~~PvFv~~yP~~~~PFY~k~~~~ 658 (661)
+.++.++..||+||||+||+++|++++ ..++||.+|+.++|++|++++. .+||||+|||+++|||||+.+++
T Consensus 396 ~~l~~~~~~~f~rity~EAi~iL~~~~~~~~~~~~~g~dl~~e~Er~L~~~~~~~~PvfVtdyP~~ikpFYm~~~~d 472 (565)
T PLN02603 396 DRLSDVVEKNFVQLSYTDAIELLLKAKKKFEFPVKWGLDLQSEHERYITEEAFGGRPVIIRDYPKEIKAFYMRENDD 472 (565)
T ss_pred HHHHHhcCCCCCCCCHHHHHHHHHHhccccCCCCCccccccHHHHHHHHHHhccCCCEEEECCccccCccccccCCC
Confidence 555556677999999999999998863 3467889999999999999775 46999999999999999987754
No 6
>PTZ00425 asparagine-tRNA ligase; Provisional
Probab=99.96 E-value=1.9e-30 Score=290.96 Aligned_cols=153 Identities=34% Similarity=0.585 Sum_probs=131.2
Q ss_pred eeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhcccc
Q psy4384 506 KLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLAN 585 (661)
Q Consensus 506 ~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~~ 585 (661)
++++|++|||+||||||||+++|+|||+||||||+|++|++ ++++|+++|+||++++..+++.+..+++++...+..+.
T Consensus 338 ~~~~g~~rVf~i~p~FRaE~s~t~RHL~EFt~lE~E~af~d-~~d~m~~~E~li~~v~~~vl~~~~~~i~~~~~~~~~~l 416 (586)
T PTZ00425 338 NLCSSMGDVYTFGPTFRAENSHTSRHLAEFWMIEPEIAFAD-LYDNMELAESYIKYCIGYVLNNNFDDIYYFEENVETGL 416 (586)
T ss_pred HHHhccCCEEEEeceEeCCCCCCCCCCcccceEEEEEecCC-HHHHHHHHHHHHHHHHHHHhcccccccccccccccccH
Confidence 36789999999999999999999999999999999999998 99999999999999999999887777766543232222
Q ss_pred ccccccccCCcccccCHHHHHHHHHHcC----CCCCCCCCCchHHHHHHhhhccCceEEEEcCcccccccccccCCCC
Q psy4384 586 ITDLQCIHDNPFIRMSYSAAVTILTRHG----FDVNPDSGLSKQHELFLVKYTNNVPIFIINWPKHVKPFYMKRSGED 659 (661)
Q Consensus 586 ~~~l~~~~~~pf~rit~~EAi~lL~~~~----i~~~~g~dl~~~~E~~L~e~~~~~PvFv~~yP~~~~PFY~k~~~~d 659 (661)
++.++..+..||+||||+||+++|++.+ .++++|.+|.+++|++|++++.+.||||+|||++++||||+.++++
T Consensus 417 ~~~l~~~~~~pf~rIty~EAi~iL~~~~~~~~~~~~~G~dL~~e~Er~L~~~~~~~PvFItdyP~~~kPFY~~~~~d~ 494 (586)
T PTZ00425 417 ISRLKNILDEDFAKITYTNVIDLLQPYSDSFEVPVKWGMDLQSEHERFVAEQIFKKPVIVYNYPKDLKAFYMKLNEDQ 494 (586)
T ss_pred HHHHHHhcCCCCCcCCHHHHHHHHHHhHHhcCCCCCcccccchHHHHHHHHHhcCCcEEEECCccccCccccCcCCCC
Confidence 3334444567999999999999998763 4578899999999999999866789999999999999999998765
No 7
>PLN02221 asparaginyl-tRNA synthetase
Probab=99.96 E-value=4.9e-30 Score=288.22 Aligned_cols=151 Identities=34% Similarity=0.599 Sum_probs=129.6
Q ss_pred eecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhccccc
Q psy4384 507 LDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLANI 586 (661)
Q Consensus 507 la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~~~ 586 (661)
++++++|||+|||+||||+++|+|||+||||||+|++|.| ++|+|+++|+||+++++.+.+++..+++.+...++...+
T Consensus 322 ~~~~l~rVfeIgP~FRAE~s~T~RHL~EFtmlE~Emaf~d-~~dvm~l~E~lv~~i~~~l~~~~~~~l~~l~~~~~~~~~ 400 (572)
T PLN02221 322 YACALSSVYTFGPTFRAENSHTSRHLAEFWMVEPEIAFAD-LEDDMNCAEAYVKYMCKWLLDKCFDDMELMAKNFDSGCI 400 (572)
T ss_pred HHHhcCCeEEEccceecCCCCCCcccccccceeeeeecCC-HHHHHHHHHHHHHHHHHHHHhhhHHHHHHHhhhcCchhh
Confidence 4578999999999999999999999999999999999997 999999999999999999999888888776544433233
Q ss_pred cccccccCCcccccCHHHHHHHHHHc---CC----CCCCCCCCchHHHHHHhhhccCceEEEEcCcccccccccccCCC
Q psy4384 587 TDLQCIHDNPFIRMSYSAAVTILTRH---GF----DVNPDSGLSKQHELFLVKYTNNVPIFIINWPKHVKPFYMKRSGE 658 (661)
Q Consensus 587 ~~l~~~~~~pf~rit~~EAi~lL~~~---~i----~~~~g~dl~~~~E~~L~e~~~~~PvFv~~yP~~~~PFY~k~~~~ 658 (661)
+.++..++.||+||||.||+++|+++ |. ++++|.++..++|++|++++.+.|+||+|||++++||||+.+++
T Consensus 401 ~~l~~~~~~pf~RIty~EAi~~L~~~~~~g~~~~~~~~~G~dl~~e~Er~L~~~~~~~pvfv~dyP~~~~pfy~~~~~d 479 (572)
T PLN02221 401 DRLRMVASTPFGRITYTEAIELLEEAVAKGKEFDNNVEWGIDLASEHERYLTEVLFQKPLIVYNYPKGIKAFYMRLNDD 479 (572)
T ss_pred hhhhhccCCCceEEEHHHHHHHHHhhhhcCCCCCCCcchhhhhhHHHHHHHHHHhcCCcEEEEcCChhhCcccccCCCC
Confidence 44554567899999999999999884 43 34678899999999999986678999999999999999877643
No 8
>TIGR00458 aspS_arch aspartyl-tRNA synthetase, archaeal type. In a multiple sequence alignment of representative asparaginyl-tRNA synthetases (asnS), archaeal/eukaryotic type aspartyl-tRNA synthetases (aspS_arch), and bacterial type aspartyl-tRNA synthetases (aspS_bact), there is a striking similarity between asnS and aspS_arch in gap pattern and in sequence, and a striking divergence of aspS_bact. Consequently, a separate model was built for each of the three groups. This model, aspS_arch, represents aspartyl-tRNA synthetases from the eukaryotic cytosol and from the Archaea. In some species, this enzyme aminoacylates tRNA for both Asp and Asn; Asp-tRNA(asn) is subsequently transamidated to Asn-tRNA(asn).
Probab=99.96 E-value=1.3e-29 Score=279.62 Aligned_cols=147 Identities=27% Similarity=0.525 Sum_probs=128.9
Q ss_pred eeeeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhcc
Q psy4384 504 KLKLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINL 583 (661)
Q Consensus 504 qL~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~ 583 (661)
|+.+++|++|||+||||||||+++|+||||||||||||++|+| ++|+|+++|+||++++..+.+++..+++.....+
T Consensus 192 q~li~~g~~rVf~i~~~FR~E~~~t~rHl~EFt~lE~e~a~~~-~~dlm~~~e~li~~i~~~~~~~~~~~~~~~~~~~-- 268 (428)
T TIGR00458 192 QQLMAAGFERVYEIGPIFRAEEHNTHRHLNEATSIDIEMAFED-HHDVMDILEELVVRVFEDVPERCAHQLETLEFKL-- 268 (428)
T ss_pred HHHHhcccCcEEEEecccccCCCCCccchheeeEeeeeeccCC-HHHHHHHHHHHHHHHHHHHHhcchhhhhhccccc--
Confidence 3457899999999999999999999899999999999999998 9999999999999999999888766554322111
Q ss_pred ccccccccccCCcccccCHHHHHHHHHHcCCCCCCCCCCchHHHHHHhhhccCceEEEEcCcccccccccccCCCCCC
Q psy4384 584 ANITDLQCIHDNPFIRMSYSAAVTILTRHGFDVNPDSGLSKQHELFLVKYTNNVPIFIINWPKHVKPFYMKRSGEDPD 661 (661)
Q Consensus 584 ~~~~~l~~~~~~pf~rit~~EAi~lL~~~~i~~~~g~dl~~~~E~~L~e~~~~~PvFv~~yP~~~~PFY~k~~~~dp~ 661 (661)
. .++.||+||||.||+++|++.|+++.++.+++.++|+.|++.+ ++|+||+|||++++|||++++++||+
T Consensus 269 ------~-~~~~pf~rity~eA~~~l~~~g~~~~~~~~l~~~~E~~l~~~~-~~p~fi~d~P~~~~pfy~~~~~~~p~ 338 (428)
T TIGR00458 269 ------E-KPEGKFVRLTYDEAIEMANAKGVEIGWGEDLSTEAEKALGEEM-DGLYFITDWPTEIRPFYTMPDEDNPE 338 (428)
T ss_pred ------c-cCCCCceEEEHHHHHHHHHHcCCCCCCccccchHHHHHHHHHh-CCCEEEEeCchhcCcccccccCCCCC
Confidence 0 1246899999999999999999988889999999999999875 68999999999999999999998874
No 9
>PRK05159 aspC aspartyl-tRNA synthetase; Provisional
Probab=99.96 E-value=1.7e-29 Score=279.72 Aligned_cols=149 Identities=26% Similarity=0.547 Sum_probs=129.8
Q ss_pred eeeeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhcc
Q psy4384 504 KLKLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINL 583 (661)
Q Consensus 504 qL~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~ 583 (661)
|+.+++|++|||+||||||||+++|+||||||||||||++|+++++++|+++|+||++++..+.+++..+++..+..++
T Consensus 195 q~l~~~g~~rVf~i~~~FR~E~~~t~rHl~EFt~lE~e~a~~~~~~~lm~~~e~lv~~i~~~~~~~~~~~i~~~~~~~~- 273 (437)
T PRK05159 195 QMMVGAGFERVFEIGPVFRAEEHNTSRHLNEYTSIDVEMGFIDDHEDVMDLLENLLRYMYEDVAENCEKELELLGIELP- 273 (437)
T ss_pred HHHHhcCCCcEEEEeceeeCCCCCCcccchhhheeeeeeeecccHHHHHHHHHHHHHHHHHHHHHhhHHHHHhhccCCC-
Confidence 4457788999999999999999998899999999999999997799999999999999999998887766665432211
Q ss_pred ccccccccccCCcccccCHHHHHHHHHHcCCCCCCCCCCchHHHHHHhhhccC----ceEEEEcCcccccccccccCCCC
Q psy4384 584 ANITDLQCIHDNPFIRMSYSAAVTILTRHGFDVNPDSGLSKQHELFLVKYTNN----VPIFIINWPKHVKPFYMKRSGED 659 (661)
Q Consensus 584 ~~~~~l~~~~~~pf~rit~~EAi~lL~~~~i~~~~g~dl~~~~E~~L~e~~~~----~PvFv~~yP~~~~PFY~k~~~~d 659 (661)
..+.||+||||.||+++|++.+++++++++++.++|++|++++.. .|+||+|||++++||||+++++|
T Consensus 274 --------~~~~~f~rit~~eA~~~l~~~~~~~~~~~~~~~~~e~~l~~~~~~~~~~~p~fi~~~P~~~~pfy~~~~~~~ 345 (437)
T PRK05159 274 --------VPETPIPRITYDEAIEILKSKGNEISWGDDLDTEGERLLGEYVKEEYGSDFYFITDYPSEKRPFYTMPDEDD 345 (437)
T ss_pred --------cCCCCceEeEHHHHHHHHHHcCCCCCCCCCCCcHHHHHHHHHHhhhcCCceEEEecCchhcCcceeeecCCC
Confidence 135799999999999999999998888999999999999876522 28999999999999999999988
Q ss_pred CC
Q psy4384 660 PD 661 (661)
Q Consensus 660 p~ 661 (661)
|+
T Consensus 346 ~~ 347 (437)
T PRK05159 346 PE 347 (437)
T ss_pred CC
Confidence 74
No 10
>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=99.96 E-value=2.3e-29 Score=279.01 Aligned_cols=152 Identities=40% Similarity=0.632 Sum_probs=130.8
Q ss_pred eecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhccccc
Q psy4384 507 LDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLANI 586 (661)
Q Consensus 507 la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~~~ 586 (661)
+++|++|||+||||||||+++|+||||||||||+|++|++ ++|+|+++|+||++++..+.+.+..+++...........
T Consensus 206 l~~g~~rVf~i~~~FR~E~~~t~rHl~EFt~le~e~~~~~-~~dvm~~~E~lv~~i~~~~~~~~~~~~~~~~~~~~~~~~ 284 (453)
T TIGR00457 206 YALALSKVYTFGPTFRAEKSNTSRHLSEFWMIEPEMAFAN-LNDLLQLAETLIKYIIKAVLENCSQELKFLEKNFDKDLI 284 (453)
T ss_pred HhhcccCceEeeeccccCCCCCCcCcchhccceeeeecCC-HHHHHHHHHHHHHHHHHHHHHhhHHHHHHhhccCCchHH
Confidence 4689999999999999999999999999999999999998 999999999999999999998877676665443333233
Q ss_pred cccccccCCcccccCHHHHHHHHHHcCC----CCCCCCCCchHHHHHHhhhccCceEEEEcCcccccccccccCCCCC
Q psy4384 587 TDLQCIHDNPFIRMSYSAAVTILTRHGF----DVNPDSGLSKQHELFLVKYTNNVPIFIINWPKHVKPFYMKRSGEDP 660 (661)
Q Consensus 587 ~~l~~~~~~pf~rit~~EAi~lL~~~~i----~~~~g~dl~~~~E~~L~e~~~~~PvFv~~yP~~~~PFY~k~~~~dp 660 (661)
..+...++.+|+||||.||+++|++.+. ++.+|.+|+.++|++|++++...|+||+|||++++||||+.+ +||
T Consensus 285 ~~l~~~~~~~~~rit~~ea~~~l~~~~~~~~~~~~~g~~l~~~~e~~L~~~~~~~p~fIt~~P~~~~pfy~~~~-~~~ 361 (453)
T TIGR00457 285 KRLENIINNKFARITYTDAIEILKESDKNFEYEDFWGDDLQTEHERFLAEEYFKPPVFVTNYPKDIKAFYMKLN-DDG 361 (453)
T ss_pred HHHHHhcCCCCceeEHHHHHHHHHhcCCCCcCCCCCCCCCCcHHHHHHHHHhCCCCEEEECCCcccChhhcccC-CCc
Confidence 4455556789999999999999998853 345778899999999999877789999999999999999988 665
No 11
>KOG0349|consensus
Probab=99.96 E-value=2.5e-29 Score=263.64 Aligned_cols=171 Identities=30% Similarity=0.474 Sum_probs=154.8
Q ss_pred ceEeCcCCCCCCeEEeCCCcEEEe--CCCeeEEEEeEEEe-CCeEEEEEEEEeeCCCCcEEEEEeCCCCCCCCCCCCcCc
Q psy4384 263 HVLLALHDRAPQLRISEDRLAVTG--DKGYCMVRATNYVG-HGTWYWEATIEEMPEGSATRMGWGQEYANLQTPLGYDKF 339 (661)
Q Consensus 263 ~v~~s~~dr~~~l~ls~d~l~v~~--~~g~~~vRa~~~v~-~G~~YfEv~i~~~~~~~~vriG~a~~~~~l~~pvG~d~~ 339 (661)
.|.+|..||...+.|++|+|...+ .+.|.++|||.|+. .|+|||||+|.+ .|.+|||||+-.++|+ +|.+.+
T Consensus 88 ~w~mn~~Drg~alaI~~dGL~CqSre~KeWhGcRaT~Gl~gkGK~YyEvtitd---~GLCRVGWsT~qasLd--lGt~~~ 162 (725)
T KOG0349|consen 88 EWKMNKQDRGLALAIDEDGLACQSREKKEWHGCRATAGLYGKGKYYYEVTITD---KGLCRVGWSTLQASLD--LGTGLD 162 (725)
T ss_pred ccccCccccCceeeEcCCccccchhHHhhhhccccccccccCceEEEEEEecc---Cceeeechhhcccccc--cCcccc
Confidence 467999999999999999999987 58999999999999 899999999988 8999999999999999 999999
Q ss_pred cEEEEcCCCcEEeCCCCcccCCCCCCCCEEEEEeeCCCCCCCCCCCCccCCccccccccccchhccchhhHHHhhcccCC
Q psy4384 340 GYSWRSRKGTRFHECRGKHYSEGYSEGDTLGFLIHLPYRNQNSYVPRTFKDKPLVKFKCHLYYEEKDKVTEALKRLQTLD 419 (661)
Q Consensus 340 syg~~~~~G~~~h~s~~~~yg~~~~~GDVIG~~i~l~~~~~~~~~~~~~~d~~~i~~k~~~~~e~~d~~~~~~~~~~~~~ 419 (661)
||||.+ .|.+.|+.+...||++|+..|||||++||.+
T Consensus 163 gFGfGG-TGkKS~nkqFDdYGe~Ft~~DvIGCyLDld~------------------------------------------ 199 (725)
T KOG0349|consen 163 GFGFGG-TGKKSTNKQFDDYGEPFTLNDVIGCYLDLDS------------------------------------------ 199 (725)
T ss_pred ccccCc-cCccccccccccccCcccccceeeEEEeccC------------------------------------------
Confidence 999988 8999999999999999999999999999999
Q ss_pred CcEEEEEECCeeccccce---eccCCceEEEEEecCCcEEEEeCCC-CCCCCCCCCCCCCccccccccchhh
Q psy4384 420 QSQIVFYKNGKSQGVAFQ---DIYAGYYYPCVSLHKNCTVSVNFGP-HFKHALPTEEFPNVRGMWERSEESI 487 (661)
Q Consensus 420 ~s~I~f~kNG~~~G~AF~---~i~~g~yyPavSl~~g~~v~~NFG~-~F~~~p~~~~~~~~~p~~~~~~e~~ 487 (661)
.+|.|+|||+.+|.||+ ++....+||||-+ +++..++|||. +|+|||..+ | ..+|+..+|.+
T Consensus 200 -~~v~fsKNG~~lg~AF~ip~~~kn~~lfPAvvl-kNael~fNFG~~~FKfpPgng-F---va~s~Ap~e~~ 265 (725)
T KOG0349|consen 200 -RTVWFSKNGEQLGAAFSIPVKYKNSNLFPAVVL-KNAELSFNFGSQPFKFPPGNG-F---VAVSDAPNEHS 265 (725)
T ss_pred -ceEEEecCccccceeEEcChhhcccccchheee-ccceEEEecCCCccccCCCCc-e---EEeecCCcccc
Confidence 89999999999999998 3445689999977 99999999999 999999864 5 56666555543
No 12
>PRK06462 asparagine synthetase A; Reviewed
Probab=99.96 E-value=3.7e-29 Score=267.90 Aligned_cols=144 Identities=30% Similarity=0.448 Sum_probs=126.6
Q ss_pred eecccceeEEEecccccCCCCC--CCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhccc
Q psy4384 507 LDLSLSKVYTLNPTFRAENSKS--RLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLA 584 (661)
Q Consensus 507 la~g~~rVyeIg~~FRaE~s~t--~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~ 584 (661)
+++|++|||+||||||||++++ +||||||||||||++|+| ++|+|+++|+||++++..+.+.+..++...+..+.
T Consensus 98 l~~g~~rVfeI~p~FR~E~~~~~~~rHl~EFtmlE~e~~~~d-~~dlm~~~e~lv~~i~~~~~~~~~~~i~~~~~~~~-- 174 (335)
T PRK06462 98 ALRMLGKIFYLSPNFRLEPVDKDTGRHLYEFTQLDIEIEGAD-LDEVMDLIEDLIKYLVKELLEEHEDELEFFGRDLP-- 174 (335)
T ss_pred HHhhcCcEEEEeccccCCCCCCCCCCCCCchheeeehhhcCC-HHHHHHHHHHHHHHHHHHHHhhhHHHHHhcCCccc--
Confidence 5567999999999999999988 689999999999999997 99999999999999999999888776665533211
Q ss_pred cccccccccCCcccccCHHHHHHHHHHcCCCCCCCCCCchHHHHHHhhhccCceEEEEcCcccccccccccCCCCCC
Q psy4384 585 NITDLQCIHDNPFIRMSYSAAVTILTRHGFDVNPDSGLSKQHELFLVKYTNNVPIFIINWPKHVKPFYMKRSGEDPD 661 (661)
Q Consensus 585 ~~~~l~~~~~~pf~rit~~EAi~lL~~~~i~~~~g~dl~~~~E~~L~e~~~~~PvFv~~yP~~~~PFY~k~~~~dp~ 661 (661)
.++.||+||||.||+++|++.+++..++.+++.++|++|.+.+ ++||||+|||++++|||++.++++|+
T Consensus 175 -------~~~~p~~rit~~eA~~~l~~~~~~~~~~~~l~~~~E~~l~~~~-~~p~fi~~yP~~~~pfy~~~~~~~~~ 243 (335)
T PRK06462 175 -------HLKRPFKRITHKEAVEILNEEGCRGIDLEELGSEGEKSLSEHF-EEPFWIIDIPKGSREFYDREDPERPG 243 (335)
T ss_pred -------cCCCCCeEEEHHHHHHHHHhcCCCcchHHHHhHHHHHHHHHHh-CCCEEEECCChhhCCcccccCCCCCC
Confidence 1356999999999999999998887778889999999999875 68999999999999999999888874
No 13
>PRK03932 asnC asparaginyl-tRNA synthetase; Validated
Probab=99.96 E-value=6.6e-29 Score=275.59 Aligned_cols=152 Identities=38% Similarity=0.678 Sum_probs=130.1
Q ss_pred eecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhccccc
Q psy4384 507 LDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLANI 586 (661)
Q Consensus 507 la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~~~ 586 (661)
+++|++|||+|+||||||+++|+||||||||||||++|++ ++++|+++|+||++++..+.+++..+++.+..+.+.+..
T Consensus 203 l~~g~~rVf~i~~~FR~E~~~t~rHl~EFt~lE~e~~~~~-~~~~m~~~e~li~~~~~~~~~~~~~~i~~~~~~~~~~~~ 281 (450)
T PRK03932 203 YAMALGKVYTFGPTFRAENSNTRRHLAEFWMIEPEMAFAD-LEDNMDLAEEMLKYVVKYVLENCPDDLEFLNRRVDKGDI 281 (450)
T ss_pred HHhccCCeEEeeeccccCCCCCccccccccccceEEeccC-HHHHHHHHHHHHHHHHHHHHHhhHHHHHHhccccCchHH
Confidence 5689999999999999999999999999999999999998 999999999999999999998887778777654433333
Q ss_pred cccccccCCcccccCHHHHHHHHHHcCCC----CCCCCCCchHHHHHHhhhccCceEEEEcCcccccccccccCCCC
Q psy4384 587 TDLQCIHDNPFIRMSYSAAVTILTRHGFD----VNPDSGLSKQHELFLVKYTNNVPIFIINWPKHVKPFYMKRSGED 659 (661)
Q Consensus 587 ~~l~~~~~~pf~rit~~EAi~lL~~~~i~----~~~g~dl~~~~E~~L~e~~~~~PvFv~~yP~~~~PFY~k~~~~d 659 (661)
+.++.+++.||+||||.||+++|++.+.+ +.+|.+++.++|++|++...+.||||+|||++++||||+.+++|
T Consensus 282 ~~~~~~~~~p~~rity~eA~~~l~~~~~~~~~~~~~g~~l~~~~e~~l~~~~~~~pvfI~~yP~~~~pfy~~~~~~~ 358 (450)
T PRK03932 282 ERLENFIESPFPRITYTEAIEILQKSGKKFEFPVEWGDDLGSEHERYLAEEHFKKPVFVTNYPKDIKAFYMRLNPDG 358 (450)
T ss_pred HHHHhhcCCCceEeEHHHHHHHHHHcCCCcCCCCCcccccChHHHHHHHHHhcCCcEEEECCCcccCcccCcCCCCC
Confidence 33333356799999999999999988764 36778899999999998445789999999999999999988766
No 14
>cd00776 AsxRS_core Asx tRNA synthetase (AspRS/AsnRS) class II core domain. Assignment to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure and the presence of three characteristic sequence motifs in the core domain. This family includes AsnRS as well as a subgroup of AspRS. AsnRS and AspRS are homodimers, which attach either asparagine or aspartate to the 3'OH group of ribose of the appropriate tRNA. While archaea lack asnRS, they possess a non-discriminating aspRS, which can mischarge Asp-tRNA with Asn. Subsequently, a tRNA-dependent aspartate amidotransferase converts the bound aspartate to asparagine. The catalytic core domain is primarily responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate.
Probab=99.95 E-value=9.3e-29 Score=263.75 Aligned_cols=149 Identities=37% Similarity=0.695 Sum_probs=127.2
Q ss_pred eeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhcccc
Q psy4384 506 KLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLAN 585 (661)
Q Consensus 506 ~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~~ 585 (661)
.+++ ++|||+||||||||++++.||||||||||||++|+++++|+|+++|+||++++..+.+.+..++.... .++
T Consensus 85 l~~~-~~~vf~i~~~FR~E~~~~~rHl~EFtmlE~e~~~~~~~~dlm~~~e~ll~~~~~~l~~~~~~~~~~~~-~~~--- 159 (322)
T cd00776 85 LIAA-LERVYEIGPVFRAEKSNTRRHLSEFWMLEAEMAFIEDYNEVMDLIEELIKYIFKRVLERCAKELELVN-QLN--- 159 (322)
T ss_pred HHHh-hhhhEEeccccccCCCCcCCCcceeeccceeeeccCCHHHHHHHHHHHHHHHHHHHHhccHHHHhhhh-ccC---
Confidence 3444 99999999999999999999999999999999999449999999999999999999988877665431 011
Q ss_pred ccccccccCCcccccCHHHHHHHHHHcCC--CCCCCCCCchHHHHHHhhhccCceEEEEcCcccccccccccCCCCCC
Q psy4384 586 ITDLQCIHDNPFIRMSYSAAVTILTRHGF--DVNPDSGLSKQHELFLVKYTNNVPIFIINWPKHVKPFYMKRSGEDPD 661 (661)
Q Consensus 586 ~~~l~~~~~~pf~rit~~EAi~lL~~~~i--~~~~g~dl~~~~E~~L~e~~~~~PvFv~~yP~~~~PFY~k~~~~dp~ 661 (661)
.+...+..||+||||.||+++|++.+. ++.+|.+++.++|++|++.+.+.||||+|||++++||||+.+++||+
T Consensus 160 --~~~~~~~~~~~rit~~eA~~~l~~~~~~~~~~~~~~l~~~~e~~l~~~~~~~p~fi~~~P~~~~pfy~~~~~~~~~ 235 (322)
T cd00776 160 --RELLKPLEPFPRITYDEAIELLREKGVEEEVKWGEDLSTEHERLLGEIVKGDPVFVTDYPKEIKPFYMKPDDDNPE 235 (322)
T ss_pred --cccccCCCCceEEEHHHHHHHHHHcCCCCCCCccchhcHHHHHHHHHHhCCCcEEEECCccccCCceeeecCCCCC
Confidence 111123578999999999999999887 67788899999999999887578999999999999999999988874
No 15
>PLN02850 aspartate-tRNA ligase
Probab=99.94 E-value=1.6e-27 Score=267.87 Aligned_cols=153 Identities=21% Similarity=0.442 Sum_probs=128.2
Q ss_pred eeeeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhcc
Q psy4384 504 KLKLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINL 583 (661)
Q Consensus 504 qL~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~ 583 (661)
|+.+++|++|||+||||||||+++|+|||+||||||+|++|.++|+++|+++|+||++++..+.+.+..+++.+....+.
T Consensus 284 q~li~~g~~rVfeIgp~FRaE~s~t~RHl~EFt~Le~Em~~~~~y~evm~~~E~ll~~i~~~l~~~~~~el~~i~~~~~~ 363 (530)
T PLN02850 284 QMAICGDFRRVFEIGPVFRAEDSFTHRHLCEFTGLDLEMEIKEHYSEVLDVVDELFVAIFDGLNERCKKELEAIREQYPF 363 (530)
T ss_pred HHHHHhcCCceEEEecccccCCCCCCccchhhccchhhhhhhcCHHHHHHHHHHHHHHHHHHHHhhhhhhHHhhcccCCc
Confidence 45678899999999999999999999999999999999999877999999999999999999988776677655433321
Q ss_pred ccccccccccCCcccccCHHHHHHHHHHcCCCCCCCCCCchHHHHHHhhhc---cCce-EEEEcCcccccccccccCCCC
Q psy4384 584 ANITDLQCIHDNPFIRMSYSAAVTILTRHGFDVNPDSGLSKQHELFLVKYT---NNVP-IFIINWPKHVKPFYMKRSGED 659 (661)
Q Consensus 584 ~~~~~l~~~~~~pf~rit~~EAi~lL~~~~i~~~~g~dl~~~~E~~L~e~~---~~~P-vFv~~yP~~~~PFY~k~~~~d 659 (661)
..+. . ..++++++|.||+++|++.|+++.++.|++++.|+.|++.+ .+.| +||+|||++++|||++++++|
T Consensus 364 ---~~~~-~-~~~~~rit~~ea~~~L~~~g~~~~~~~dl~~~~E~~Lg~~v~~~~~~~~~ii~~yP~~~~pfY~~~~~~d 438 (530)
T PLN02850 364 ---EPLK-Y-LPKTLRLTFAEGIQMLKEAGVEVDPLGDLNTESERKLGQLVKEKYGTDFYILHRYPLAVRPFYTMPCPDD 438 (530)
T ss_pred ---chhh-h-cCCcccCCHHHHHHHHHHcCCCCCCCCCcchHHHHHHHHHHHHhcCCCeEEEECCccccCchhccccCCC
Confidence 1121 1 23678999999999999999988888899999999997643 3444 667899999999999999988
Q ss_pred CC
Q psy4384 660 PD 661 (661)
Q Consensus 660 p~ 661 (661)
|+
T Consensus 439 ~~ 440 (530)
T PLN02850 439 PK 440 (530)
T ss_pred CC
Confidence 74
No 16
>PTZ00401 aspartyl-tRNA synthetase; Provisional
Probab=99.94 E-value=2.2e-27 Score=266.75 Aligned_cols=158 Identities=20% Similarity=0.399 Sum_probs=125.4
Q ss_pred ceeeeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhc
Q psy4384 503 GKLKLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLIN 582 (661)
Q Consensus 503 ~qL~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~ 582 (661)
.||.+++|++|||+||||||||+++|+||||||||||||++|.++|+++|+++|+||++++..+.+. ..+++.....++
T Consensus 271 kq~li~~g~~rVfeI~p~FRaE~s~T~RHl~EFt~Le~E~~~~~~y~evm~~~e~l~~~i~~~l~~~-~~ei~~~~~~~p 349 (550)
T PTZ00401 271 KQMVLQGDVPRVFEVGPVFRSENSNTHRHLTEFVGLDVEMRINEHYYEVLDLAESLFNYIFERLATH-TKELKAVCQQYP 349 (550)
T ss_pred HHHHHhcCCCCEEEEeCeEeCCCCCCCCCccchhhhhhhhHhcCCHHHHHHHHHHHHHHHHHHHHcc-chhhhhhccccc
Confidence 3566778999999999999999999999999999999999997679999999999999999988765 234433322111
Q ss_pred cccc------------------------ccc---ccccCCcccccCHHHHHHHHHHcC-CCCCCCCCCchHHHHHHhh--
Q psy4384 583 LANI------------------------TDL---QCIHDNPFIRMSYSAAVTILTRHG-FDVNPDSGLSKQHELFLVK-- 632 (661)
Q Consensus 583 ~~~~------------------------~~l---~~~~~~pf~rit~~EAi~lL~~~~-i~~~~g~dl~~~~E~~L~e-- 632 (661)
...+ ..| ......+|+||+|.||+++|++.+ .++++++|+++++|++|++
T Consensus 350 ~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~l~~~~~~~~~~~~rl~y~eai~lL~~~~~~~~~~~~dl~~~~E~~L~~~v 429 (550)
T PTZ00401 350 FEPLVWKLTPERMKELGVGVISEGVEPTDKYQARVHNMDSRMLRINYMHCIELLNTVLEEKMAPTDDINTTNEKLLGKLV 429 (550)
T ss_pred cccccccccHHHHHhcCCCcccccccchHHHHHHHHhcCCCcccccHHHHHHHHHHhcccCCCcccccCchHHHHHHHHH
Confidence 1110 000 001245699999999999999985 5566788999999999864
Q ss_pred -hccCceEEEEc-CcccccccccccCCCCCC
Q psy4384 633 -YTNNVPIFIIN-WPKHVKPFYMKRSGEDPD 661 (661)
Q Consensus 633 -~~~~~PvFv~~-yP~~~~PFY~k~~~~dp~ 661 (661)
...+.|+||+| ||.+++|||++++++||+
T Consensus 430 ~~~~~~~~fI~d~yP~~~rpFY~~~~~~dp~ 460 (550)
T PTZ00401 430 KERYGTDFFISDRFPSSARPFYTMECKDDER 460 (550)
T ss_pred HHhcCCCEEEECCCChhhCchhcCcCCCCCC
Confidence 33578999998 999999999999999874
No 17
>KOG0556|consensus
Probab=99.94 E-value=2.6e-27 Score=246.83 Aligned_cols=155 Identities=26% Similarity=0.489 Sum_probs=139.5
Q ss_pred cceeeeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhh
Q psy4384 502 SGKLKLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLI 581 (661)
Q Consensus 502 ~~qL~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~ 581 (661)
-.||+++++++|||+||||||||+|+|+||+.||+.||.||+|..||+++|+++.+++..|++.+..++..+|+..++.+
T Consensus 285 yKQMaI~gdf~rVyeIGpVfRAEdSnthRhltEFvGLD~EMaf~~hYhEVm~~i~~lfv~IF~~l~ery~~Eie~Vr~qy 364 (533)
T KOG0556|consen 285 YKQMAICGDFERVYEIGPVFRAEDSNTHRHLTEFVGLDLEMAFNEHYHEVMDTIGELFVFIFKGLRERYAKEIETVRKQY 364 (533)
T ss_pred HHHHHHhcchhheeeecceeeccccchhhhhHHhhCcchhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcC
Confidence 36789999999999999999999999999999999999999999999999999999999999999999999999998887
Q ss_pred ccccccccccccCCcccccCHHHHHHHHHHcCCCCCCCCCCchHHHHHHhhhc---cCceEEEEc-CcccccccccccCC
Q psy4384 582 NLANITDLQCIHDNPFIRMSYSAAVTILTRHGFDVNPDSGLSKQHELFLVKYT---NNVPIFIIN-WPKHVKPFYMKRSG 657 (661)
Q Consensus 582 ~~~~~~~l~~~~~~pf~rit~~EAi~lL~~~~i~~~~g~dl~~~~E~~L~e~~---~~~PvFv~~-yP~~~~PFY~k~~~ 657 (661)
+.+++.- -.+-.|++|.||+++|++.|++..+.+||+++.|+.|+..+ .+..++|.| ||.+++|||+++++
T Consensus 365 p~e~fkf-----~~~~lrl~~~e~v~mLreaGvE~g~~dDlsTe~Ek~LG~lV~eky~tdfyildkyP~avRPFYTmpd~ 439 (533)
T KOG0556|consen 365 PFEPFKF-----LEPPLRLTFKEGVAMLREAGVEMGDEDDLSTESEKKLGQLVREKYDTDFYILDKYPLAVRPFYTMPDP 439 (533)
T ss_pred CCccccc-----CCCceEeehHHHHHHHHHcCcccCCccccCChhHHHHHHHHHHHhCCcEEEEccCccccccccccCCC
Confidence 6544322 24567999999999999999999999999999999987543 567777776 99999999999999
Q ss_pred CCCC
Q psy4384 658 EDPD 661 (661)
Q Consensus 658 ~dp~ 661 (661)
+||+
T Consensus 440 ~~p~ 443 (533)
T KOG0556|consen 440 ENPR 443 (533)
T ss_pred CCCC
Confidence 9984
No 18
>KOG0555|consensus
Probab=99.93 E-value=1.5e-26 Score=240.14 Aligned_cols=145 Identities=34% Similarity=0.582 Sum_probs=126.0
Q ss_pred eecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhccccc
Q psy4384 507 LDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLANI 586 (661)
Q Consensus 507 la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~~~ 586 (661)
..+.+++||+|.++||||.|.|+|||+||||+|+|++|.+ ++++|+.+|+||+..++++++..... +-+.+++
T Consensus 304 clpAlgdvy~I~~SyRAEkSrTRRHLsEytHVEaE~aflt-fd~ll~~iE~lvc~~vdr~l~dp~~~---li~~lnP--- 376 (545)
T KOG0555|consen 304 CLPALGDVYCIQQSYRAEKSRTRRHLSEYTHVEAECAFLT-FDDLLDRIEALVCDSVDRLLEDPIAP---LIKQLNP--- 376 (545)
T ss_pred hhhhcCceeEecHhhhhhhhhhhhhhhhheeeeeeccccc-HHHHHHHHHHHHHHHHHHHHhChhhh---hHHHhCC---
Confidence 3478999999999999999999999999999999999998 99999999999999999999876542 1222332
Q ss_pred cccccccCCcccccCHHHHHHHHHHcCCCCC------CCCCCchHHHHHHhhhccCceEEEEcCcccccccccccCCCCC
Q psy4384 587 TDLQCIHDNPFIRMSYSAAVTILTRHGFDVN------PDSGLSKQHELFLVKYTNNVPIFIINWPKHVKPFYMKRSGEDP 660 (661)
Q Consensus 587 ~~l~~~~~~pf~rit~~EAi~lL~~~~i~~~------~g~dl~~~~E~~L~e~~~~~PvFv~~yP~~~~PFY~k~~~~dp 660 (661)
+++ .++.||.||.|.|||+.|+++++..+ .|+||....||.+++.+ +.|+|+++||+++|+|||+++++||
T Consensus 377 -~f~-~P~~PFkRm~Y~dAI~wLke~~vk~edg~~fefGdDI~eAaER~mtdtI-g~PIfLtrFpveiKsFYM~rc~dd~ 453 (545)
T KOG0555|consen 377 -DFK-APKRPFKRMNYSDAIEWLKEHDVKKEDGTDFEFGDDIPEAAERKMTDTI-GVPIFLTRFPVEIKSFYMKRCEDDP 453 (545)
T ss_pred -CCC-CCCCchhcCCHHHHHHHHHhcCCcCccCcccccccchhhHHHHhhhhhc-CCceEEeeccccccceeeecccCcc
Confidence 122 36889999999999999999988654 46789999999999885 6799999999999999999999998
Q ss_pred C
Q psy4384 661 D 661 (661)
Q Consensus 661 ~ 661 (661)
+
T Consensus 454 ~ 454 (545)
T KOG0555|consen 454 R 454 (545)
T ss_pred c
Confidence 5
No 19
>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=99.92 E-value=6.8e-26 Score=239.82 Aligned_cols=141 Identities=18% Similarity=0.283 Sum_probs=106.7
Q ss_pred eeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhh--HHHHHHHhhhhcc
Q psy4384 506 KLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESH--EEELLTYRKLINL 583 (661)
Q Consensus 506 ~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~--~~~l~~~~~~~~~ 583 (661)
.+++|++|||+||||||||+++ +||||||||||||++|.| ++|+|+++|+||++++..+.... .+..+.+.++
T Consensus 68 ll~~g~~rVfeigp~FRaE~~~-~rHl~EFtmLE~e~~~~d-~~d~m~~~e~li~~i~~~~~~~~~~it~~ea~~~~--- 142 (304)
T TIGR00462 68 LLAAGSGPIFQICKVFRNGERG-RRHNPEFTMLEWYRPGFD-YHDLMDEVEALLQELLGDPFAPWERLSYQEAFLRY--- 142 (304)
T ss_pred HHhccCCCEEEEcCceeCCCCC-CCcccHHHhHHHHHHcCC-HHHHHHHHHHHHHHHHHhcCCCcEEEEHHHHHHHH---
Confidence 4778999999999999999996 789999999999999997 99999999999999986410000 0000011111
Q ss_pred ccccccccccCCcccccCHHHHHHHHHHcCCCCCCCCCCchHHHHHHhhhc---c--CceEEEEcCcccccccccccCCC
Q psy4384 584 ANITDLQCIHDNPFIRMSYSAAVTILTRHGFDVNPDSGLSKQHELFLVKYT---N--NVPIFIINWPKHVKPFYMKRSGE 658 (661)
Q Consensus 584 ~~~~~l~~~~~~pf~rit~~EAi~lL~~~~i~~~~g~dl~~~~E~~L~e~~---~--~~PvFv~~yP~~~~PFY~k~~~~ 658 (661)
....+.+.+.+++.+++++.|+++..++|+++++|++|++++ . ++|+||+|||++++||| +.+++
T Consensus 143 ---------~~~~~~~~~~~~~~~~~~~~g~~~~~~~d~~~~~e~~l~~~ie~~~~~~~p~fi~~yP~~~~~~~-~~~~~ 212 (304)
T TIGR00462 143 ---------AGIDPLTASLDELAAAAAAHGVRASEEDDRDDLLDLLFSEKVEPHLGFGRPTFLYDYPASQAALA-RISPD 212 (304)
T ss_pred ---------hCCCcccCCHHHHHHHHHHcCCCCCCCCChhHHHHHHHHHHHHHhcCCCCCEEEEcCccccCcCc-cccCC
Confidence 111223344555566788889888888899999999997653 2 67999999999999996 68888
Q ss_pred CCC
Q psy4384 659 DPD 661 (661)
Q Consensus 659 dp~ 661 (661)
||+
T Consensus 213 ~~~ 215 (304)
T TIGR00462 213 DPR 215 (304)
T ss_pred CCC
Confidence 874
No 20
>PRK12445 lysyl-tRNA synthetase; Reviewed
Probab=99.92 E-value=2.2e-25 Score=249.53 Aligned_cols=141 Identities=23% Similarity=0.378 Sum_probs=107.7
Q ss_pred eeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhcccc
Q psy4384 506 KLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLAN 585 (661)
Q Consensus 506 ~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~~ 585 (661)
.+++|++||||||||||||++ ++||||||||||||++|+| |+|||+++|+||+++++.+.+..... +....+
T Consensus 247 livgG~~rVfeIg~~FRnE~~-~~rH~pEFTmlE~y~a~~d-~~d~m~l~E~li~~l~~~~~~~~~~~--~~~~~i---- 318 (505)
T PRK12445 247 LVVGGFERVFEINRNFRNEGI-SVRHNPEFTMMELYMAYAD-YHDLIELTESLFRTLAQEVLGTTKVT--YGEHVF---- 318 (505)
T ss_pred HHhccCCcEEEEehhccCCCC-CCCcCcccceeeeeeecCC-HHHHHHHHHHHHHHHHHHHhccccee--cCceec----
Confidence 477899999999999999998 6889999999999999997 99999999999999999887654311 110001
Q ss_pred ccccccccCCcccccCHHHHHHHHHH-------------------cCCCCCCCCC---CchHHHHHHhhhccCceEEEEc
Q psy4384 586 ITDLQCIHDNPFIRMSYSAAVTILTR-------------------HGFDVNPDSG---LSKQHELFLVKYTNNVPIFIIN 643 (661)
Q Consensus 586 ~~~l~~~~~~pf~rit~~EAi~lL~~-------------------~~i~~~~g~d---l~~~~E~~L~e~~~~~PvFv~~ 643 (661)
.+..||+|+||.||++.+.. ++++...+++ +-.+.+..+++....+||||+|
T Consensus 319 ------~~~~pf~rit~~eai~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~vE~~l~~P~Fv~d 392 (505)
T PRK12445 319 ------DFGKPFEKLTMREAIKKYRPETDMADLDNFDAAKALAESIGITVEKSWGLGRIVTEIFDEVAEAHLIQPTFITE 392 (505)
T ss_pred ------cCCCCceEEEHHHHHHHHhCCCCccccCCHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHHhhcCCCEEEEC
Confidence 13469999999999987642 2444333333 3334445566665678999999
Q ss_pred CcccccccccccCCCCCC
Q psy4384 644 WPKHVKPFYMKRSGEDPD 661 (661)
Q Consensus 644 yP~~~~PFY~k~~~~dp~ 661 (661)
||++++||| +.+++||+
T Consensus 393 yP~~~spla-k~~~~~p~ 409 (505)
T PRK12445 393 YPAEVSPLA-RRNDVNPE 409 (505)
T ss_pred CCchhCccc-ccCCCCCC
Confidence 999999998 66777774
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=99.92 E-value=1.8e-25 Score=250.27 Aligned_cols=140 Identities=27% Similarity=0.417 Sum_probs=106.9
Q ss_pred eeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhcccc
Q psy4384 506 KLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLAN 585 (661)
Q Consensus 506 ~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~~ 585 (661)
.+++|++|||||||+||||++++ ||||||||||+|+||+| |+|||+++|+||++++..+.+++...+. .
T Consensus 235 livgG~~rVfeIg~~FRnE~~~~-rH~pEFTmlE~y~a~~d-~~dlm~~~E~li~~i~~~l~~~~~~~~~--~------- 303 (496)
T TIGR00499 235 LIVGGFEKVYEIGRNFRNEGVDT-THNPEFTMIEFYQAYAD-YEDLMDLTENLFKFLAQELLGTTKITYG--E------- 303 (496)
T ss_pred HHhCCCCceEEEecceecCCCCC-cccchhheeehhhhcCC-HHHHHHHHHHHHHHHHHHHhcccceecC--c-------
Confidence 46789999999999999999985 89999999999999997 9999999999999999998766542111 1
Q ss_pred ccccccccCCcccccCHHHHHHHHHH-cCCCCC---------------------CCC----CCchHHHHHHhhhccCceE
Q psy4384 586 ITDLQCIHDNPFIRMSYSAAVTILTR-HGFDVN---------------------PDS----GLSKQHELFLVKYTNNVPI 639 (661)
Q Consensus 586 ~~~l~~~~~~pf~rit~~EAi~lL~~-~~i~~~---------------------~g~----dl~~~~E~~L~e~~~~~Pv 639 (661)
....++.||+||||.||++++.+ .|++.. ... .+...+|.++..+ ..+||
T Consensus 304 ---~~~~~~~pf~rit~~eai~~~~~~~g~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ve~~-l~~P~ 379 (496)
T TIGR00499 304 ---LEIDFKKPFKRITMVEAIKKYDMETGIDFDDLKDFETAKALAKKIGIEVAEKSLTLGHILNELFEQFLEHT-LIQPT 379 (496)
T ss_pred ---eeccCCCCceEEEHHHHHHHHHHhcCCCchhcCCHHHHHHHHHHcCCCcCCCCCCHHHHHHHHHHHHHHhc-cCCCE
Confidence 11124569999999999997743 344321 111 1223344444434 46799
Q ss_pred EEEcCcccccccccccCCCCCC
Q psy4384 640 FIINWPKHVKPFYMKRSGEDPD 661 (661)
Q Consensus 640 Fv~~yP~~~~PFY~k~~~~dp~ 661 (661)
||+|||++++|| |+.+++||+
T Consensus 380 fv~dyP~~~spl-ak~~~~~p~ 400 (496)
T TIGR00499 380 FITHYPAEISPL-AKRNPSNPE 400 (496)
T ss_pred EEECCchhcCcc-cccCCCCCC
Confidence 999999999999 789988874
No 22
>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=99.92 E-value=2.5e-25 Score=239.06 Aligned_cols=142 Identities=37% Similarity=0.594 Sum_probs=115.6
Q ss_pred eeeeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhcc
Q psy4384 504 KLKLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINL 583 (661)
Q Consensus 504 qL~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~ 583 (661)
|+.+++|++|||+||||||||+++++||||||||||||++|++ ++++|+++|+||+++++.+.+... +. .. .+
T Consensus 86 k~ll~~g~~~vf~i~~~FR~E~~~~~rHl~EFtmLE~e~a~~~-~~~lm~~~e~li~~i~~~~~~~~~-~~-~~--~~-- 158 (335)
T PF00152_consen 86 KRLLAAGLERVFEIGPCFRNEESRTRRHLPEFTMLEWEMAFAD-YDDLMDLIEELIKYIFKELLENAK-EL-SL--NI-- 158 (335)
T ss_dssp HHHHHTTHSEEEEEEEEE-BSSSCBTTBSSEEEEEEEEEETSS-HHHHHHHHHHHHHHHHHHHHHHHH-HH-HT--CE--
T ss_pred hhhccccchhhhheecceeccCcccccchhhhhhhhhccccCc-HHHhHHHHHHHHHHHHHHHhccCc-cc-cc--cc--
Confidence 3467889999999999999999989999999999999999998 899999999999999999876521 11 11 11
Q ss_pred ccccccccccCCcccccCHHHHHHHHHHcCCCCCC-----------------CCCCchHHHHHHhhhccCceEEEEcCcc
Q psy4384 584 ANITDLQCIHDNPFIRMSYSAAVTILTRHGFDVNP-----------------DSGLSKQHELFLVKYTNNVPIFIINWPK 646 (661)
Q Consensus 584 ~~~~~l~~~~~~pf~rit~~EAi~lL~~~~i~~~~-----------------g~dl~~~~E~~L~e~~~~~PvFv~~yP~ 646 (661)
.+..+|++++|.||++++.....++.. +..+..++|+.|++.....|+||+|||+
T Consensus 159 --------~~~~~f~ri~~~ea~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~l~~~~e~~L~~~~~~~p~fI~~~P~ 230 (335)
T PF00152_consen 159 --------DLPKPFPRITYEEAFEIYGGDKPDLRFDEELDDLAEIEELEFEVGRLLSEEVEPYLVEKYFTDPVFITDYPA 230 (335)
T ss_dssp --------ESSSS-EEEEHHHHHHHHHHTTTTTTTCHHHHHHHHHHHTTHHCHHHHHHHHHHHHHHHHSSSEEEEEEEBG
T ss_pred --------cccCCceEeeehHHHHHhhcccccchhHHHHHHHHHHhcccchHHHHHHHHHHHHhhhcccCCcEEEEeccc
Confidence 134679999999999999988755544 2346677888888655788999999999
Q ss_pred cccccccccCCCCC
Q psy4384 647 HVKPFYMKRSGEDP 660 (661)
Q Consensus 647 ~~~PFY~k~~~~dp 660 (661)
.++|||++.+++++
T Consensus 231 ~~~pf~~~~~~~~~ 244 (335)
T PF00152_consen 231 EQSPFYKPPNDDDP 244 (335)
T ss_dssp GGSTTTBBBSSSTT
T ss_pred ccCccccccccccc
Confidence 99999999887763
No 23
>COG1190 LysU Lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=99.90 E-value=6.3e-25 Score=237.88 Aligned_cols=150 Identities=23% Similarity=0.322 Sum_probs=107.5
Q ss_pred eeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhc---
Q psy4384 506 KLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLIN--- 582 (661)
Q Consensus 506 ~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~--- 582 (661)
.++||++||||||++||||++++ ||||||||||+|+||+| |+|+|+++|+||+.+++.+.++.. +.+.+..++
T Consensus 243 liVGG~erVfEIgr~FRNEGid~-tHNPEFTmlE~Y~AYaD-y~D~m~ltE~Li~~~a~~v~gt~~--v~y~~~~id~~~ 318 (502)
T COG1190 243 LIVGGFERVFEIGRNFRNEGIDT-THNPEFTMLEFYQAYAD-YEDLMDLTEELIKELAKEVNGTTK--VTYGGQEIDFSK 318 (502)
T ss_pred HHhcCchhheeeccccccCCCcc-ccCcchhhHHHHHHHhH-HHHHHHHHHHHHHHHHHHhcCCeE--EEECCEeEecCC
Confidence 36799999999999999999986 59999999999999998 999999999999999999987432 222222222
Q ss_pred ----cccccccccccCC-cccccCHHHHHHHHHHcCCCCCCC--CCC----chHHHHHHhhhccCceEEEEcCccccccc
Q psy4384 583 ----LANITDLQCIHDN-PFIRMSYSAAVTILTRHGFDVNPD--SGL----SKQHELFLVKYTNNVPIFIINWPKHVKPF 651 (661)
Q Consensus 583 ----~~~~~~l~~~~~~-pf~rit~~EAi~lL~~~~i~~~~g--~dl----~~~~E~~L~e~~~~~PvFv~~yP~~~~PF 651 (661)
+.+.+.+.+.++. -+...+.++|.++++++++++... ++. ....|.. +|....+|+||+|||++++|+
T Consensus 319 pf~ri~m~dal~e~~g~~~~~~~~~e~~~~~ak~~~i~~~~~~~~~~g~ll~~lFe~~-vE~~liqPTFv~d~P~eiSPL 397 (502)
T COG1190 319 PFKRITMVDALKEYLGVDFDDLFDDEEAKELAKKHGIEVEKYGTWGLGHLLNELFEEL-VEAKLIQPTFVTDHPVEISPL 397 (502)
T ss_pred CeeeeehHHHHHHHhCccccccCCHHHHHHHHHHhCCCcCccccccHHHHHHHHHHHH-hhhhhcCCceeecCccccCcc
Confidence 2222222222222 123334455566677778776533 222 2334443 455567899999999999999
Q ss_pred ccccCCCCCC
Q psy4384 652 YMKRSGEDPD 661 (661)
Q Consensus 652 Y~k~~~~dp~ 661 (661)
+|+++++|+
T Consensus 398 -ak~~~~~p~ 406 (502)
T COG1190 398 -AKRHRSNPG 406 (502)
T ss_pred -ccCCCCCcc
Confidence 999999985
No 24
>PRK00484 lysS lysyl-tRNA synthetase; Reviewed
Probab=99.90 E-value=1.4e-24 Score=242.99 Aligned_cols=140 Identities=29% Similarity=0.452 Sum_probs=104.3
Q ss_pred eeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhcccc
Q psy4384 506 KLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLAN 585 (661)
Q Consensus 506 ~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~~ 585 (661)
.+++|++|||+||||||||++++ ||||||||||+|++|+| ++|+|+++|+||++++..+.++.. +++.+..+
T Consensus 235 l~v~g~~rVfei~~~FR~E~~~~-rH~pEFt~lE~e~a~~d-~~d~m~~~E~li~~i~~~~~~~~~--i~~~~~~~---- 306 (491)
T PRK00484 235 LIVGGFERVYEIGRNFRNEGIDT-RHNPEFTMLEFYQAYAD-YNDMMDLTEELIRHLAQAVLGTTK--VTYQGTEI---- 306 (491)
T ss_pred HHhccCCcEEEEecceecCCCCC-CcCCceEEEEEEEecCC-HHHHHHHHHHHHHHHHHHHhCCce--EecCCEee----
Confidence 56789999999999999999985 89999999999999997 999999999999999998876421 22211111
Q ss_pred ccccccccCCcccccCHHHHHHHHH-----------------HcCCCCCCCCCCch----HHHHHHhhhccCceEEEEcC
Q psy4384 586 ITDLQCIHDNPFIRMSYSAAVTILT-----------------RHGFDVNPDSGLSK----QHELFLVKYTNNVPIFIINW 644 (661)
Q Consensus 586 ~~~l~~~~~~pf~rit~~EAi~lL~-----------------~~~i~~~~g~dl~~----~~E~~L~e~~~~~PvFv~~y 644 (661)
.++.||+||||.||++.+. +.+++....+++.. ..+.+ ++....+||||+||
T Consensus 307 ------~~~~pf~rity~eai~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~-ve~~~~~P~Fi~dy 379 (491)
T PRK00484 307 ------DFGPPFKRLTMVDAIKEYTGVDFDDMTDEEARALAKELGIEVEKSWGLGKLINELFEEF-VEPKLIQPTFITDY 379 (491)
T ss_pred ------cCCCCceEEEHHHHHHHHhCCCcccCCHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHH-hhhhcCCcEEEECC
Confidence 1356999999999998753 22333322222222 22333 44445789999999
Q ss_pred cccccccccccCCCCCC
Q psy4384 645 PKHVKPFYMKRSGEDPD 661 (661)
Q Consensus 645 P~~~~PFY~k~~~~dp~ 661 (661)
|++++||| +.+++||+
T Consensus 380 P~~~~pf~-k~~~~~~~ 395 (491)
T PRK00484 380 PVEISPLA-KRHREDPG 395 (491)
T ss_pred ChHHhhhh-ccCCCCCC
Confidence 99999996 57777764
No 25
>PLN02502 lysyl-tRNA synthetase
Probab=99.89 E-value=4.8e-24 Score=240.03 Aligned_cols=140 Identities=22% Similarity=0.327 Sum_probs=103.7
Q ss_pred eeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhcccc
Q psy4384 506 KLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLAN 585 (661)
Q Consensus 506 ~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~~ 585 (661)
.+++|++|||||||+||||++++ ||||||||||||++|+| |+|||+++|+||++++..+.+++... +.+..++
T Consensus 292 L~v~g~~rVfeIg~~FRnE~~~~-rH~pEFtmlE~y~a~~d-~~dlm~~~E~li~~i~~~v~~~~~~~--~~~~~i~--- 364 (553)
T PLN02502 292 LVVGGFERVYEIGRQFRNEGIST-RHNPEFTTCEFYQAYAD-YNDMMELTEEMVSGMVKELTGSYKIK--YHGIEID--- 364 (553)
T ss_pred HHHhccCCEEEEcCeeeCCCCCC-ccccceeehhhhhhcCC-HHHHHHHHHHHHHHHHHHHhcccccc--cCCcccc---
Confidence 47789999999999999999986 89999999999999997 99999999999999999998765422 1111111
Q ss_pred ccccccccCCcccccCHHHHHHHH----------------------HHcCCCCCCCC----CCchHHHHHHhhhccCceE
Q psy4384 586 ITDLQCIHDNPFIRMSYSAAVTIL----------------------TRHGFDVNPDS----GLSKQHELFLVKYTNNVPI 639 (661)
Q Consensus 586 ~~~l~~~~~~pf~rit~~EAi~lL----------------------~~~~i~~~~g~----dl~~~~E~~L~e~~~~~Pv 639 (661)
+..||+|+||.||++.+ ++.++++.... .+...+|.++.+++ .+||
T Consensus 365 -------~~~p~~rit~~e~l~~~~g~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~l~~l~~~~ve~~l-~~Pt 436 (553)
T PLN02502 365 -------FTPPFRRISMISLVEEATGIDFPADLKSDEANAYLIAACEKFDVKCPPPQTTGRLLNELFEEFLEETL-VQPT 436 (553)
T ss_pred -------CCCCceeccHHHHHHHHhCCCCCcCCCHHHHHHHHHHHHHHcCCCCCCCCCHhHHHHHHHHHHHHhhc-CCCE
Confidence 23466666666655432 23344333222 24455666666654 6799
Q ss_pred EEEcCcccccccccccCCCCCC
Q psy4384 640 FIINWPKHVKPFYMKRSGEDPD 661 (661)
Q Consensus 640 Fv~~yP~~~~PFY~k~~~~dp~ 661 (661)
||+|||++++||| +.+++||+
T Consensus 437 FV~dyP~~~spla-k~~~~~p~ 457 (553)
T PLN02502 437 FVLDHPVEMSPLA-KPHRSKPG 457 (553)
T ss_pred EEECCccccCccc-ccCCCCCC
Confidence 9999999999995 57788874
No 26
>PTZ00417 lysine-tRNA ligase; Provisional
Probab=99.89 E-value=6.6e-24 Score=239.72 Aligned_cols=148 Identities=19% Similarity=0.297 Sum_probs=103.8
Q ss_pred eeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhcccc
Q psy4384 506 KLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLAN 585 (661)
Q Consensus 506 ~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~~ 585 (661)
.+++|++|||||||+||||++++ ||||||||||||+||+| |+|||+++|+||++++..+.+.....+...+....
T Consensus 316 LlvgG~~rVfeIgp~FRnE~~~~-rHnpEFTmlE~y~ay~d-y~dlM~l~E~Li~~v~~~v~g~~~~~~~~~g~~~~--- 390 (585)
T PTZ00417 316 LIVGGIDKVYEIGKVFRNEGIDN-THNPEFTSCEFYWAYAD-FYDLIKWSEDFFSQLVMHLFGTYKILYNKDGPEKD--- 390 (585)
T ss_pred HHHhCCCCEEEEcccccCCCCCC-CccceeeeeeeeeecCC-HHHHHHHHHHHHHHHHHHhcCcceeeecccccccc---
Confidence 45789999999999999999985 79999999999999997 99999999999999999887653211110000000
Q ss_pred ccccccccCCccccc----------------------CHHHHHHHHHHcCCCCCCCCC----CchHHHHHHhhhccCceE
Q psy4384 586 ITDLQCIHDNPFIRM----------------------SYSAAVTILTRHGFDVNPDSG----LSKQHELFLVKYTNNVPI 639 (661)
Q Consensus 586 ~~~l~~~~~~pf~ri----------------------t~~EAi~lL~~~~i~~~~g~d----l~~~~E~~L~e~~~~~Pv 639 (661)
...+ .+..||+++ ++++|+++|++.|+++....+ +..+.|.++.+.+.+.||
T Consensus 391 ~~~i--~~~~pf~rit~~ea~~~~~g~~~~~~~~~~~~~~el~~~l~~~g~~~~~~~~~~~~l~~l~e~~vE~~l~~~Pt 468 (585)
T PTZ00417 391 PIEI--DFTPPYPKVSIVEELEKLTNTKLEQPFDSPETINKMINLIKENKIEMPNPPTAAKLLDQLASHFIENKYPNKPF 468 (585)
T ss_pred cccc--cCCCCceeccHHHHHHHHhCCCccccccccCCHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHHHHhhCCCcE
Confidence 0000 012344444 455555678888876654332 444455656555555699
Q ss_pred EEEcCcccccccccccCCCCCC
Q psy4384 640 FIINWPKHVKPFYMKRSGEDPD 661 (661)
Q Consensus 640 Fv~~yP~~~~PFY~k~~~~dp~ 661 (661)
||+|||++++||| +.+++||+
T Consensus 469 FI~dyP~~~sPLa-k~~~~dp~ 489 (585)
T PTZ00417 469 FIIEHPQIMSPLA-KYHRSKPG 489 (585)
T ss_pred EEECCChhhCchh-hhcCCCCC
Confidence 9999999999995 46667764
No 27
>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=99.89 E-value=6.7e-24 Score=227.02 Aligned_cols=137 Identities=25% Similarity=0.347 Sum_probs=100.9
Q ss_pred eeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhcccc
Q psy4384 506 KLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLAN 585 (661)
Q Consensus 506 ~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~~ 585 (661)
.+++|++|||+||||||||+++ +|||+||||||||++|++ ++++|+++|+||++++..+.+.. +++.....+
T Consensus 71 ll~~g~~~vf~i~~~FR~E~~~-~rHl~EFt~le~e~~~~~-~~~~m~~~e~li~~i~~~~~~~~--~~~~~~~~~---- 142 (329)
T cd00775 71 LIVGGFERVYEIGRNFRNEGID-LTHNPEFTMIEFYEAYAD-YNDMMDLTEDLFSGLVKKINGKT--KIEYGGKEL---- 142 (329)
T ss_pred HHhcCCCcEEEEeccccCCCCC-CCCCCceEEEEEeeecCC-HHHHHHHHHHHHHHHHHHHhCCc--eeecCCccc----
Confidence 4678999999999999999996 789999999999999997 99999999999999998887643 222211111
Q ss_pred ccccccccCCcccccCHHHHHHHHHHcCCCCCCCCC---------------------------CchHHHHHHhhhccCce
Q psy4384 586 ITDLQCIHDNPFIRMSYSAAVTILTRHGFDVNPDSG---------------------------LSKQHELFLVKYTNNVP 638 (661)
Q Consensus 586 ~~~l~~~~~~pf~rit~~EAi~lL~~~~i~~~~g~d---------------------------l~~~~E~~L~e~~~~~P 638 (661)
..+.||+|+||.||++.+ .|+++..+++ +....+.++..+ .++|
T Consensus 143 ------~~~~pf~rity~eA~~~~--~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~ve~~-~~~p 213 (329)
T cd00775 143 ------DFTPPFKRVTMVDALKEK--TGIDFPELDLEQPEELAKLLAKLIKEKIEKPRTLGKLLDKLFEEFVEPT-LIQP 213 (329)
T ss_pred ------cCCCCceEEEHHHHHHHH--hCCCcccccccCCHHHHHHHHHHcCCCCCCCCCHHHHHHHHHHHHhccc-cCCC
Confidence 124689999999999866 3443322111 111223333333 3489
Q ss_pred EEEEcCcccccccccccCCCCC
Q psy4384 639 IFIINWPKHVKPFYMKRSGEDP 660 (661)
Q Consensus 639 vFv~~yP~~~~PFY~k~~~~dp 660 (661)
|||+|||+.++|||| .+++||
T Consensus 214 ~fi~~yP~~~~~f~~-~~~~~~ 234 (329)
T cd00775 214 TFIIDHPVEISPLAK-RHRSNP 234 (329)
T ss_pred EEEECCChHhCcCcC-cCCCCC
Confidence 999999999999965 566666
No 28
>PRK02983 lysS lysyl-tRNA synthetase; Provisional
Probab=99.89 E-value=1.1e-23 Score=253.38 Aligned_cols=146 Identities=18% Similarity=0.217 Sum_probs=107.9
Q ss_pred eeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhcccc
Q psy4384 506 KLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLAN 585 (661)
Q Consensus 506 ~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~~ 585 (661)
.+++|++|||||||+||||++++ ||||||||||+|++|.| |+|||+++|+||+++++.+.+... +...+...
T Consensus 833 LivgG~erVFEIg~~FRnE~~~~-rHnpEFTmLE~y~a~~d-y~d~m~l~E~li~~i~~~v~~~~~--~~~~~~~~---- 904 (1094)
T PRK02983 833 LCVGGVERVFELGRNFRNEGVDA-THNPEFTLLEAYQAHAD-YDTMRDLTRELIQNAAQAAHGAPV--VMRPDGDG---- 904 (1094)
T ss_pred HHhcccCceEEEcceecCCCCCC-CccccccchhhhhhcCC-HHHHHHHHHHHHHHHHHHHhCCcE--EeeCCccc----
Confidence 36689999999999999999985 79999999999999997 999999999999999999876432 10000000
Q ss_pred ccccccccCCcccccCHHHHHHH------------------HHHcCCCCCCCCC---CchHHHHHHhhhccCceEEEEcC
Q psy4384 586 ITDLQCIHDNPFIRMSYSAAVTI------------------LTRHGFDVNPDSG---LSKQHELFLVKYTNNVPIFIINW 644 (661)
Q Consensus 586 ~~~l~~~~~~pf~rit~~EAi~l------------------L~~~~i~~~~g~d---l~~~~E~~L~e~~~~~PvFv~~y 644 (661)
......++.||+|+||.||++. +++.+++....++ +..+.+..++|....+||||+||
T Consensus 905 -~~~~i~~~~pf~rit~~eai~~~~g~~~~~~~~~~~l~~~~~~~~i~~~~~~~~~~l~~~l~~~~ve~~~~~P~Fv~dy 983 (1094)
T PRK02983 905 -VLEPVDISGPWPVVTVHDAVSEALGEEIDPDTPLAELRKLCDAAGIPYRTDWDAGAVVLELYEHLVEDRTTFPTFYTDF 983 (1094)
T ss_pred -cccccccCCCceEEEHHHHHHHHhCCCCCCCCCHHHHHHHHHHcCCCCCCCCCHhHHHHHHHHHHHHhhcCCCEEEECC
Confidence 0001124579999999999973 3445665443332 33444555666656889999999
Q ss_pred cccccccccccCCCCCC
Q psy4384 645 PKHVKPFYMKRSGEDPD 661 (661)
Q Consensus 645 P~~~~PFY~k~~~~dp~ 661 (661)
|++++|||| ++++||+
T Consensus 984 P~~~spla~-~~~~~p~ 999 (1094)
T PRK02983 984 PTSVSPLTR-PHRSDPG 999 (1094)
T ss_pred Ccccccccc-cCCCCCC
Confidence 999999975 6677764
No 29
>PTZ00385 lysyl-tRNA synthetase; Provisional
Probab=99.88 E-value=2.8e-23 Score=235.35 Aligned_cols=145 Identities=21% Similarity=0.345 Sum_probs=101.9
Q ss_pred eeeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhh-hcc
Q psy4384 505 LKLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKL-INL 583 (661)
Q Consensus 505 L~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~-~~~ 583 (661)
..+++|++|||||||+||||+++ +||||||||||||++|+| |+|||+++|+||++++..+.+... +++.... .+.
T Consensus 295 rLivgG~erVyeIg~~FRnE~~~-~rH~pEFTmlE~y~a~~d-~~d~m~l~E~li~~~~~~v~g~~~--~~~~~~~~~g~ 370 (659)
T PTZ00385 295 QCIVGGMERIYEIGKVFRNEDAD-RSHNPEFTSCEFYAAYHT-YEDLMPMTEDIFRQLAMRVNGTTV--VQIYPENAHGN 370 (659)
T ss_pred HHhhcccCCEEEEeceecCCCCC-CCccccccceeeeeecCC-HHHHHHHHHHHHHHHHHHhcCCee--EEeeccccCCC
Confidence 35778999999999999999998 679999999999999998 999999999999999999877432 1111000 000
Q ss_pred ccccccccccCCcccccCHHHHHHHHHHcCCCCCCCCCCchH------------------------------HHHHHhhh
Q psy4384 584 ANITDLQCIHDNPFIRMSYSAAVTILTRHGFDVNPDSGLSKQ------------------------------HELFLVKY 633 (661)
Q Consensus 584 ~~~~~l~~~~~~pf~rit~~EAi~lL~~~~i~~~~g~dl~~~------------------------------~E~~L~e~ 633 (661)
. ..+ .+..||+|+||.|++.-. .|+++.+++++.++ .|.++.+.
T Consensus 371 ~--~~i--~~~~Pf~Rit~~d~~~e~--~G~d~~~~~dl~~~~e~~~~~~~~~~~gi~~~~~~~~g~~~~~lfe~~ve~~ 444 (659)
T PTZ00385 371 P--VTV--DLGKPFRRVSVYDEIQRM--SGVEFPPPNELNTPKGIAYMSVVMLRYNIPLPPVRTAAKMFEKLIDFFITDR 444 (659)
T ss_pred c--ccc--cCCCCceEEeHHHHHHHH--hCCCCCccccCCCHHHHHHHHHHHHHcCCCCCcccchhHHHHHHHHHHHHHh
Confidence 0 001 134689999955544322 25544333333322 22333333
Q ss_pred ccCceEEEEcCcccccccccccCCCCCC
Q psy4384 634 TNNVPIFIINWPKHVKPFYMKRSGEDPD 661 (661)
Q Consensus 634 ~~~~PvFv~~yP~~~~PFY~k~~~~dp~ 661 (661)
..+||||+|||++++|| +|.+++||+
T Consensus 445 -l~qPtFI~dyP~e~sPL-ak~~~~dp~ 470 (659)
T PTZ00385 445 -VVEPTFVMDHPLFMSPL-AKEQVSRPG 470 (659)
T ss_pred -hCCcEEEeCCccccCcc-cccCCCCCC
Confidence 46899999999999999 788888884
No 30
>KOG4323|consensus
Probab=99.88 E-value=3.9e-23 Score=223.02 Aligned_cols=144 Identities=21% Similarity=0.371 Sum_probs=127.5
Q ss_pred CCCCccccceEecccccchhhHhhhccccCCccccceeEEEEcccCCCCCccceeeccCChHHHHHHHhhhccccccccC
Q psy4384 1 GKERNFNLIELFCANCKCWFHESCISYQIGKLVPFMMNYVFICKNCSNTGLESFKKNQAMFPQMCITAIGNLMQTSIKEG 80 (661)
Q Consensus 1 g~~~~~~~~~lqC~~C~~wfH~~C~~~~~~~~l~~~~~y~F~C~~C~~~g~e~~~r~~~~w~~~~~laLynL~~~~~~~~ 80 (661)
|+++.|| .||||++|++|||.+|-++...+++.+|.||+|.|.+|+ .|+++..|.+..|+|++|+|||||....
T Consensus 177 g~~~~~N-rmlqC~~C~~~fHq~Chqp~i~~~l~~D~~~~w~C~~C~-~~~~~~~r~t~~~~dv~~lal~~~~~~~---- 250 (464)
T KOG4323|consen 177 GGPGAGN-RMLQCDKCRQWYHQACHQPLIKDELAGDPFYEWFCDVCN-RGPKKVPRLTLRWADVLHLALYNLKPML---- 250 (464)
T ss_pred CCcCccc-eeeeecccccHHHHHhccCCCCHhhccCccceEeehhhc-cchhhccccccccccccchhhhhhhhhh----
Confidence 6889999 999999999999999999998888999999999999999 6999999999999999999999999765
Q ss_pred CCccccccccccHHHHHhchhhccCC-Ccc-ccchHHHHHHHHHhcCCCceEeecCCcc----eeeecCCCCCCCCch
Q psy4384 81 NPRFTFSKEKEIIPFIEAHWDGMTTT-PRR-VTQSWHLTILRALAKETNVLFTCNESQE----QYGLIDKDLAHIKPN 152 (661)
Q Consensus 81 ~~k~yF~~~~dI~~fi~~~W~~L~~~-~r~-~~~~w~~~i~~~L~~~~~~~F~~g~~~~----~w~L~~~~~~~~~p~ 152 (661)
+++||+...||++|++++|+.|.-. ++. -..+....++.+|+++ +++|+||++.+ .+++....+|...|+
T Consensus 251 -~~k~~~~~~ei~~f~e~~~~slp~~e~~tsp~~~~~~~~lsal~~~-~~~f~~gre~kk~~~~~~~~~a~~p~~pp~ 326 (464)
T KOG4323|consen 251 -KKKYFKSLVEILLFCEESWPSLPFYEPKTSPVTERSSSLLSALSSY-KSRFVSGREIKKKKSSFGPLHARVPPSPPN 326 (464)
T ss_pred -ccCCcccHHHHHHHHhhccccccccCCccccccchhhHHHHhhhcc-ccccccHHHHhhcccccccccCCCCCCCCC
Confidence 7999999999999999999999532 111 1357788999999999 99999999987 999666666655554
No 31
>smart00449 SPRY Domain in SPla and the RYanodine Receptor. Domain of unknown function. Distant homologues are domains in butyrophilin/marenostrin/pyrin homologues.
Probab=99.88 E-value=7.9e-22 Score=180.54 Aligned_cols=116 Identities=37% Similarity=0.677 Sum_probs=106.9
Q ss_pred CCeEEEEEEEEeeCCCCcEEEEEeCCCCC--CCCCCCCcCccEEEEcCCCcEEeCCCCcccCCCCCC-CCEEEEEeeCCC
Q psy4384 301 HGTWYWEATIEEMPEGSATRMGWGQEYAN--LQTPLGYDKFGYSWRSRKGTRFHECRGKHYSEGYSE-GDTLGFLIHLPY 377 (661)
Q Consensus 301 ~G~~YfEv~i~~~~~~~~vriG~a~~~~~--l~~pvG~d~~syg~~~~~G~~~h~s~~~~yg~~~~~-GDVIG~~i~l~~ 377 (661)
+|+|||||+|.+ .++++|||++..++ .+..+|.|.+||+|+..+|.++|+....+|+..++. ||||||+||+..
T Consensus 1 sG~~YwEV~v~~---~~~~~vGv~~~~~~r~~~~~~G~~~~sw~~~~~~g~~~~~~~~~~~~~~~~~~gd~iGv~lD~~~ 77 (122)
T smart00449 1 SGRHYFEVEIFD---GGHWRVGVATKSVPRGYFALLGEDKGSWGYDGDGGKKYHNSTGPEYGLPLQEPGDVIGCFLDLEA 77 (122)
T ss_pred CCcEEEEEEEcC---CCeEEEEEEcCccCCCccccCCCCCCEEEEEcCCCcEEeCCCCCccCccccCCCCEEEEEEECCC
Confidence 599999999987 78999999999998 578899999999999998899998877889999987 999999999999
Q ss_pred CCCCCCCCCccCCccccccccccchhccchhhHHHhhcccCCCcEEEEEECCeec-cccceecc-CCceEEEEEecCCcE
Q psy4384 378 RNQNSYVPRTFKDKPLVKFKCHLYYEEKDKVTEALKRLQTLDQSQIVFYKNGKSQ-GVAFQDIY-AGYYYPCVSLHKNCT 455 (661)
Q Consensus 378 ~~~~~~~~~~~~d~~~i~~k~~~~~e~~d~~~~~~~~~~~~~~s~I~f~kNG~~~-G~AF~~i~-~g~yyPavSl~~g~~ 455 (661)
+.|+||+||+.+ |.||.++. .+.+||+||+..++.
T Consensus 78 -------------------------------------------g~l~F~~ng~~~~~~~f~~~~~~~~l~P~~~~~~~~~ 114 (122)
T smart00449 78 -------------------------------------------GTISFYKNGKYLHGLAFFDVKFSGPLYPAVSLGSGCS 114 (122)
T ss_pred -------------------------------------------CEEEEEECCCEeeeEEEeccCCCCcEeeEEEcCCCCE
Confidence 899999999999 89999875 469999999998889
Q ss_pred EEEeCCC
Q psy4384 456 VSVNFGP 462 (661)
Q Consensus 456 v~~NFG~ 462 (661)
+++|||+
T Consensus 115 ~~~n~g~ 121 (122)
T smart00449 115 VRLNFGP 121 (122)
T ss_pred EEEEecC
Confidence 9999997
No 32
>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=99.86 E-value=2.6e-22 Score=208.89 Aligned_cols=118 Identities=25% Similarity=0.411 Sum_probs=99.4
Q ss_pred eeeeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhcc
Q psy4384 504 KLKLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINL 583 (661)
Q Consensus 504 qL~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~ 583 (661)
|+.+++|++|||+|+||||+|+ .+.||++||||||+|++|.+ ++|+|+++|+||+++++.+.+.+..++...
T Consensus 62 ~~~~~~~~~~vf~i~~~fR~e~-~~~~hl~EF~~le~e~~~~~-~~dvm~~~e~lv~~i~~~~~~~~~~~~~~~------ 133 (269)
T cd00669 62 KRLMVGGLDRVFEINRNFRNED-LRARHQPEFTMMDLEMAFAD-YEDVIELTERLVRHLAREVLGVTAVTYGFE------ 133 (269)
T ss_pred HHHHhcCCCcEEEEecceeCCC-CCCCcccceeEEEEEEecCC-HHHHHHHHHHHHHHHHHHHhcccccccccc------
Confidence 3456789999999999999994 57889999999999999997 999999999999999999887654433110
Q ss_pred ccccccccccCCcccccCHHHHHHHHHHcCCCCCCCCCCchHHHHHHhhhccCceEEEEcCcccccccccccCCCCCC
Q psy4384 584 ANITDLQCIHDNPFIRMSYSAAVTILTRHGFDVNPDSGLSKQHELFLVKYTNNVPIFIINWPKHVKPFYMKRSGEDPD 661 (661)
Q Consensus 584 ~~~~~l~~~~~~pf~rit~~EAi~lL~~~~i~~~~g~dl~~~~E~~L~e~~~~~PvFv~~yP~~~~PFY~k~~~~dp~ 661 (661)
+ ..++.||+||||.||++++. .|+||+|||+.++||||+.+++||+
T Consensus 134 -----~-~~~~~~~~rit~~ea~~~~~--------------------------~p~fi~d~P~~~~~fy~~~~~~~~~ 179 (269)
T cd00669 134 -----L-EDFGLPFPRLTYREALERYG--------------------------QPLFLTDYPAEMHSPLASPHDVNPE 179 (269)
T ss_pred -----c-cccCCCceEeeHHHHHHHhC--------------------------CceEEECCCcccCCCCCCcCCCCCC
Confidence 0 12457999999999999873 6999999999999999999888763
No 33
>PF00622 SPRY: SPRY domain; InterPro: IPR003877 The SPRY domain is of unknown function. Distant homologues are domains in butyrophilin/marenostrin/pyrin []. Ca2+-release from the sarcoplasmic or endoplasmic reticulum, the intracellular Ca2+ store, is mediated by the ryanodine receptor (RyR) and/or the inositol trisphosphate receptor (IP3R).; GO: 0005515 protein binding; PDB: 2V24_A 3EK9_A 2AFJ_A 2IWG_E 3EMW_A 2WL1_A 3TOJ_B 2VOK_A 2VOL_B 2FNJ_A ....
Probab=99.85 E-value=7.5e-21 Score=173.90 Aligned_cols=116 Identities=32% Similarity=0.595 Sum_probs=106.0
Q ss_pred CCeEEEEEEEEeeCCCCcEEEEEeCCCC---CCCCCCCCcCccEEEEcCCCcEEeCCCCcccCCCCCC-CCEEEEEeeCC
Q psy4384 301 HGTWYWEATIEEMPEGSATRMGWGQEYA---NLQTPLGYDKFGYSWRSRKGTRFHECRGKHYSEGYSE-GDTLGFLIHLP 376 (661)
Q Consensus 301 ~G~~YfEv~i~~~~~~~~vriG~a~~~~---~l~~pvG~d~~syg~~~~~G~~~h~s~~~~yg~~~~~-GDVIG~~i~l~ 376 (661)
+|+|||||+|.+. +.++|||++... .....+|++..||+|+...|.++|......++..+.. ||||||+||+.
T Consensus 1 sG~~YwEV~v~~~---~~~~iGv~~~~~~~~~~~~~~g~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~dvIG~~lD~~ 77 (124)
T PF00622_consen 1 SGKHYWEVEVDSG---GSISIGVATSSASVSGDENLSGYDPFSWGFHGDGGKKYHGGTSEETGSPFQEPGDVIGCGLDLD 77 (124)
T ss_dssp SSEEEEEEEETGG---CTEEEEEEETTSEESSSTS-TTSSTTEEEEETTTTTEEESTSSSECSCTSSTTTSEEEEEEETT
T ss_pred CcCEEEEEEEecC---cCEEEEEeECccccCCccccCCccccceeeeccccccceeecccccccccccCCcEEEEEEeec
Confidence 5999999999874 349999999999 6677899999999999988899999998999999998 99999999999
Q ss_pred CCCCCCCCCCccCCccccccccccchhccchhhHHHhhcccCCCcEEEEEECCeecc-ccceeccC-CceEEEEEecCCc
Q psy4384 377 YRNQNSYVPRTFKDKPLVKFKCHLYYEEKDKVTEALKRLQTLDQSQIVFYKNGKSQG-VAFQDIYA-GYYYPCVSLHKNC 454 (661)
Q Consensus 377 ~~~~~~~~~~~~~d~~~i~~k~~~~~e~~d~~~~~~~~~~~~~~s~I~f~kNG~~~G-~AF~~i~~-g~yyPavSl~~g~ 454 (661)
. ++|.||+||+.++ .+|+++.. +.+||+|++..++
T Consensus 78 ~-------------------------------------------g~l~F~~ng~~~~~~~f~~~~~~~~l~P~v~~~~~~ 114 (124)
T PF00622_consen 78 N-------------------------------------------GELSFYKNGKFLGIYAFTDIDFSEPLYPAVSLGGGQ 114 (124)
T ss_dssp T-------------------------------------------TEEEEEETTEEEEEEEEESCTTSSSBEEEEEEESTS
T ss_pred c-------------------------------------------cEEEEEECCccceeEEEECCCCCCcEEEEEEecCCC
Confidence 9 8999999999999 99998876 5999999999999
Q ss_pred EEEEeCCC
Q psy4384 455 TVSVNFGP 462 (661)
Q Consensus 455 ~v~~NFG~ 462 (661)
++++|||+
T Consensus 115 ~~~~n~g~ 122 (124)
T PF00622_consen 115 SVELNFGQ 122 (124)
T ss_dssp EEEEEEEC
T ss_pred EEEEEeCC
Confidence 99999997
No 34
>KOG1885|consensus
Probab=99.83 E-value=1.3e-21 Score=207.62 Aligned_cols=144 Identities=23% Similarity=0.334 Sum_probs=104.3
Q ss_pred eeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhcccc
Q psy4384 506 KLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLAN 585 (661)
Q Consensus 506 ~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~~ 585 (661)
.++||++||||||+.||||++|.+ ||||||.+|+|+||+| |+|||+++|+||+.++..+.++... .+... .+ .
T Consensus 288 LvVGGldrVYEIGr~FRNEGIDlT-HNPEFTTcEfY~AYad-y~dlm~~TE~l~s~mv~~i~G~~~i--~y~p~--~~-~ 360 (560)
T KOG1885|consen 288 LVVGGLDRVYEIGRQFRNEGIDLT-HNPEFTTCEFYMAYAD-YEDLMDMTEELLSGMVKNITGSYKI--TYHPN--GP-E 360 (560)
T ss_pred HHhccHHHHHHHHHHhhhcCcccc-cCCCcchHHHHHHHhh-HHHHHHHHHHHHHHHHHhhcCceeE--eecCC--CC-C
Confidence 477999999999999999999976 9999999999999998 9999999999999999999886531 11100 00 0
Q ss_pred ccccccccCCcccccCHHHHHHHHHHcCCCCCCCCCCchHH------------------------------HHHHhhhcc
Q psy4384 586 ITDLQCIHDNPFIRMSYSAAVTILTRHGFDVNPDSGLSKQH------------------------------ELFLVKYTN 635 (661)
Q Consensus 586 ~~~l~~~~~~pf~rit~~EAi~lL~~~~i~~~~g~dl~~~~------------------------------E~~L~e~~~ 635 (661)
...++-.+..||.||++-++++. +.|+++..|+++.++. +.+|... .
T Consensus 361 ~~~~eldf~~pfrri~mi~~L~k--~lgi~l~~~~~l~~~e~~~~L~~~~~~~~v~~p~p~t~arlLdKLvg~flE~~-c 437 (560)
T KOG1885|consen 361 EPELELDFTRPFRRIEMIEELEK--ELGIKLPPGSTLHTEETRELLKSLCVDEAVECPPPRTTARLLDKLVGEFLEPT-C 437 (560)
T ss_pred CCceeeeccCCeeeeeHHHHHHH--HhCCCCCCccccCchhhHHHHHHHHHhcccCCCCcccHHHHHHHHHhHhhccc-c
Confidence 11233345678888888776652 3455554444443332 2222222 3
Q ss_pred CceEEEEcCcccccccccccCCCCC
Q psy4384 636 NVPIFIINWPKHVKPFYMKRSGEDP 660 (661)
Q Consensus 636 ~~PvFv~~yP~~~~PFY~k~~~~dp 660 (661)
.+|+||+|+|..|+|+ +|.+..++
T Consensus 438 vnPTFi~~hP~imSPL-AK~hrs~~ 461 (560)
T KOG1885|consen 438 VNPTFIIDHPQIMSPL-AKYHRSKA 461 (560)
T ss_pred CCCeeEcCCchhcCcc-cccccccc
Confidence 5699999999999999 78766554
No 35
>PRK09350 poxB regulator PoxA; Provisional
Probab=99.82 E-value=1.3e-20 Score=199.93 Aligned_cols=141 Identities=17% Similarity=0.251 Sum_probs=97.7
Q ss_pred eeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhcccc
Q psy4384 506 KLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLAN 585 (661)
Q Consensus 506 ~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~~ 585 (661)
.++++++|||+||||||||++ +.||++||||||||++|+| ++|+|+++|+||++++....-...+.-+.+.++
T Consensus 73 ~la~~~~rvf~i~~~FR~e~~-~~~H~~EFt~lE~y~~~~d-~~dlm~~~E~li~~i~~~~~~~~i~~~eaf~~~----- 145 (306)
T PRK09350 73 LLAAGSGPIFQICKSFRNEEA-GRYHNPEFTMLEWYRPHYD-MYRLMNEVDDLLQQVLDCEPAESLSYQQAFLRY----- 145 (306)
T ss_pred HhhccccceEEecceeecCCC-CCCCCcHHHhhhhhhhCCC-HHHHHHHHHHHHHHHHhcCCceEEEHHHHHHHH-----
Confidence 366789999999999999999 7899999999999999997 999999999999988753000000000111111
Q ss_pred ccccccccCCcccccCHHHHHHHHHHcCC--CCCCCCCCchHHHHHHhhh---c-c-CceEEEEcCcccccccccccCCC
Q psy4384 586 ITDLQCIHDNPFIRMSYSAAVTILTRHGF--DVNPDSGLSKQHELFLVKY---T-N-NVPIFIINWPKHVKPFYMKRSGE 658 (661)
Q Consensus 586 ~~~l~~~~~~pf~rit~~EAi~lL~~~~i--~~~~g~dl~~~~E~~L~e~---~-~-~~PvFv~~yP~~~~PFY~k~~~~ 658 (661)
...+....+..++.+++.+.|+ ....++++.+..++.+++. . . +.||||+|||++++||| +++++
T Consensus 146 -------~g~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~l~~~~ve~~l~~~~p~fi~~yP~~~~~~a-~~~~~ 217 (306)
T PRK09350 146 -------LGIDPLSADKTQLREVAAKLGLSNIADEEEDRDTLLQLLFTFGVEPNIGKEKPTFVYHFPASQAALA-KISTE 217 (306)
T ss_pred -------hCCCCCcCCHHHHHHHHHHcCCCCcCCCCCCHHHHHHHHHHHHHHHhcCCCCCEEEEcCccccCccc-cccCC
Confidence 1112223456666666777776 3344556666666655432 2 2 46999999999999995 57777
Q ss_pred CCC
Q psy4384 659 DPD 661 (661)
Q Consensus 659 dp~ 661 (661)
||+
T Consensus 218 ~~~ 220 (306)
T PRK09350 218 DHR 220 (306)
T ss_pred CCC
Confidence 763
No 36
>COG2269 Truncated, possibly inactive, lysyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=99.79 E-value=9.2e-20 Score=184.18 Aligned_cols=141 Identities=20% Similarity=0.302 Sum_probs=113.4
Q ss_pred eeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhcccc
Q psy4384 506 KLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLAN 585 (661)
Q Consensus 506 ~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~~ 585 (661)
.||+|.++||+|++|||||+. +++|+|||||||||++++| |+.+|+.+.+|++.+++.+.-...+..+.+.+++++++
T Consensus 84 LLAag~~~ifql~kvfRN~E~-G~~H~PEFTMLEWYrv~~d-~~~lm~e~~~Ll~~vl~~~~~E~ls~~eaF~r~~gid~ 161 (322)
T COG2269 84 LLAAGSGPIFQLGKVFRNEEM-GRLHNPEFTMLEWYRVGCD-YYRLMNEVDDLLQLVLECVEAERLSYQEAFLRYLGIDP 161 (322)
T ss_pred HHHccCCcchhhhHHHhcccc-cccCCCceeEeeeeccCCc-HHHHHHHHHHHHHHHHccCCcceeeHHHHHHHHhCCCc
Confidence 478999999999999999995 5789999999999999998 99999999999999988765444445566666655432
Q ss_pred ccccccccCCcccccCHHHHHHHHHHcCCCCCCCCCCchHHHHHHhhhc-----cCceEEEEcCcccccccccccCCCCC
Q psy4384 586 ITDLQCIHDNPFIRMSYSAAVTILTRHGFDVNPDSGLSKQHELFLVKYT-----NNVPIFIINWPKHVKPFYMKRSGEDP 660 (661)
Q Consensus 586 ~~~l~~~~~~pf~rit~~EAi~lL~~~~i~~~~g~dl~~~~E~~L~e~~-----~~~PvFv~~yP~~~~PFY~k~~~~dp 660 (661)
. ...-++..+.+++.++....++++.+..++.+++.+ .++|+||+|||+++.++ ++.+++||
T Consensus 162 l------------~~~~~~L~~~~~~~~l~~~~~~~~d~L~~~lf~~~VEP~lg~~rpt~ly~fP~~qaaL-A~i~~~D~ 228 (322)
T COG2269 162 L------------SADKTELREAAAKLGLSAATDEDWDTLLQLLFVEGVEPNLGKERPTFLYHFPASQAAL-AQISTGDP 228 (322)
T ss_pred c------------cccHHHHHHHHHhcCCCCCCccCHHHHHHHHHHhhcCcccCCCCceEEEeCcHHHHHh-hccCCCCc
Confidence 1 122344556667778887777888888888877643 57899999999999999 89999998
Q ss_pred C
Q psy4384 661 D 661 (661)
Q Consensus 661 ~ 661 (661)
+
T Consensus 229 r 229 (322)
T COG2269 229 R 229 (322)
T ss_pred c
Confidence 5
No 37
>KOG4030|consensus
Probab=99.74 E-value=6.7e-17 Score=148.99 Aligned_cols=155 Identities=23% Similarity=0.356 Sum_probs=134.1
Q ss_pred CceEeCcCCCCCCeEEeCCCcEEEeCCCeeEEEEeEEEeCCeEEEEEEEEeeCCCCcEEEEEeCCCCCCCC-CCCCcCcc
Q psy4384 262 SHVLLALHDRAPQLRISEDRLAVTGDKGYCMVRATNYVGHGTWYWEATIEEMPEGSATRMGWGQEYANLQT-PLGYDKFG 340 (661)
Q Consensus 262 ~~v~~s~~dr~~~l~ls~d~l~v~~~~g~~~vRa~~~v~~G~~YfEv~i~~~~~~~~vriG~a~~~~~l~~-pvG~d~~s 340 (661)
+.|+|+.....+.+.|-..++.|+|.. .+.|+.++...+-||||+|.+ +|.+.||++++..+|+. |.|.|..|
T Consensus 27 P~V~LD~~hMG~dVvilk~g~RicGtG---G~lAtaPlvQnKsYFevkiQ~---tG~WgiGlat~q~~l~~~p~g~d~~s 100 (197)
T KOG4030|consen 27 PTVRLDVGHMGKDVVILKEGERICGTG---GALATAPLVQNKSYFEVKIQQ---TGTWGIGLATKQSPLDKVPGGCDEKS 100 (197)
T ss_pred CcEEeehhccCCcEEEEecCcEEeccC---ceeeeeeeecccceEEEEEee---cceeeeeeeeccCccccCCCCCccee
Confidence 578999999999999999999998655 588999999999999999998 89999999999999975 67899999
Q ss_pred EEEEcCCCcEEeCCCCcccC--CCC-CCCCEEEEEeeCCCCCCCCCCCCccCCccccccccccchhccchhhHHHhhccc
Q psy4384 341 YSWRSRKGTRFHECRGKHYS--EGY-SEGDTLGFLIHLPYRNQNSYVPRTFKDKPLVKFKCHLYYEEKDKVTEALKRLQT 417 (661)
Q Consensus 341 yg~~~~~G~~~h~s~~~~yg--~~~-~~GDVIG~~i~l~~~~~~~~~~~~~~d~~~i~~k~~~~~e~~d~~~~~~~~~~~ 417 (661)
|++|+ +|...|+.+.+.-. ..| .+|||+|+..|-
T Consensus 101 w~~r~-dga~~hnnee~~r~pa~~~p~EGDvVGvayDH------------------------------------------ 137 (197)
T KOG4030|consen 101 WGIRD-DGAIAHNNEEVARMPATVFPEEGDVVGVAYDH------------------------------------------ 137 (197)
T ss_pred EEEcc-CCchhcccHHHhcCccccCCccCcEEEEEeee------------------------------------------
Confidence 99998 79999987543322 112 699999999865
Q ss_pred CCCcEEEEEECCeeccccceeccCCceEEEEEecCCcEEEEeCCCCCCCCCCC
Q psy4384 418 LDQSQIVFYKNGKSQGVAFQDIYAGYYYPCVSLHKNCTVSVNFGPHFKHALPT 470 (661)
Q Consensus 418 ~~~s~I~f~kNG~~~G~AF~~i~~g~yyPavSl~~g~~v~~NFG~~F~~~p~~ 470 (661)
-++.||.||+.+-..|+++. |..||.|-+..++.+.+.|- +|...||.
T Consensus 138 ---VELnfY~NGKn~e~p~~gvR-G~vyPvvYVddsAILD~~f~-nF~h~PPp 185 (197)
T KOG4030|consen 138 ---VELNFYVNGKNVEDPITGVR-GPVYPVVYVDDSAILDLKFK-NFTHAPPP 185 (197)
T ss_pred ---EEEEEEEcCceecccccccc-cceeeEEEeCCceEEEEEec-ccccCCCC
Confidence 46899999999999999985 69999999999999999995 78885554
No 38
>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=99.74 E-value=4e-18 Score=192.94 Aligned_cols=63 Identities=24% Similarity=0.448 Sum_probs=59.1
Q ss_pred eeeeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhh
Q psy4384 504 KLKLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLE 568 (661)
Q Consensus 504 qL~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~ 568 (661)
|+.+++|++||||||||||||+++++|| |||||||+|++|+| ++|+|+++|+||+++++.+.+
T Consensus 199 q~l~v~G~ervfqI~~~FR~E~~~t~r~-pEFT~le~E~af~d-~~dvm~~~E~li~~v~~~v~~ 261 (583)
T TIGR00459 199 QLLMVSGVDRYYQIARCFRDEDLRADRQ-PEFTQIDMEMSFMT-QEDVMELIEKLVSHVFLEVKG 261 (583)
T ss_pred HHHHhcccCcEEEEcceeeCCCCCCCCC-cccCcceeeecCCC-HHHHHHHHHHHHHHHHHHHhC
Confidence 5568899999999999999999999877 99999999999998 999999999999999998865
No 39
>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=99.66 E-value=6.9e-17 Score=169.26 Aligned_cols=91 Identities=27% Similarity=0.449 Sum_probs=76.8
Q ss_pred eeeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhccc
Q psy4384 505 LKLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINLA 584 (661)
Q Consensus 505 L~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~~ 584 (661)
+.+++|++|||+|+|+||||+++++||+ ||||+|||++|.| ++++|+++|+||++++..+.+.
T Consensus 63 ~ll~~g~~~v~~i~~~fR~e~~~~~r~~-Ef~~~e~e~~~~~-~~dlm~~~e~li~~i~~~~~~~--------------- 125 (280)
T cd00777 63 LLMVSGFDRYFQIARCFRDEDLRADRQP-EFTQIDIEMSFVD-QEDIMSLIEGLLKYVFKEVLGV--------------- 125 (280)
T ss_pred HHHhcCcCcEEEeccceeCCCCCCCccc-eeEEeEeeeccCC-HHHHHHHHHHHHHHHHHHHhCC---------------
Confidence 3577999999999999999999988775 9999999999997 9999999999999998876542
Q ss_pred cccccccccCCcccccCHHHHHHHHHHcCCCCCCCCCC
Q psy4384 585 NITDLQCIHDNPFIRMSYSAAVTILTRHGFDVNPDSGL 622 (661)
Q Consensus 585 ~~~~l~~~~~~pf~rit~~EAi~lL~~~~i~~~~g~dl 622 (661)
..+.||+||||.||++.+ ++++.++.|+
T Consensus 126 -------~~~~p~~rity~eA~~~~---~~~~~~~~d~ 153 (280)
T cd00777 126 -------ELTTPFPRMTYAEAMERY---GFKFLWIVDF 153 (280)
T ss_pred -------CCCCCCceeeHHHHHHHh---CCCCccccCC
Confidence 135689999999999964 5555566554
No 40
>KOG3953|consensus
Probab=99.65 E-value=9.6e-16 Score=151.10 Aligned_cols=158 Identities=20% Similarity=0.353 Sum_probs=136.7
Q ss_pred eEeCcCCCCCCeEEeCC-CcEEEe---CCCeeEEEEeEEEeCCeEEEEEEEEeeCCCCcEEEEEeCCCCCCCC-----CC
Q psy4384 264 VLLALHDRAPQLRISED-RLAVTG---DKGYCMVRATNYVGHGTWYWEATIEEMPEGSATRMGWGQEYANLQT-----PL 334 (661)
Q Consensus 264 v~~s~~dr~~~l~ls~d-~l~v~~---~~g~~~vRa~~~v~~G~~YfEv~i~~~~~~~~vriG~a~~~~~l~~-----pv 334 (661)
+.||..||+..+.+-.+ +++++- ......+|+..+...|.++|||.+...+-+.|..||++++.|+|++ .+
T Consensus 27 ~~w~~~drs~nv~vk~~~~~tfhrhpvaqstd~~rGk~g~~~g~h~w~i~w~~r~~GT~avVGIaTk~Aplha~gy~aLl 106 (242)
T KOG3953|consen 27 HGWSPSDRSLNVFVKLPDGLTFHRHPVAQSTDGIRGKRGYSRGRHAWEIAWPNRQRGTHAVVGIATKVAPLHAVGYTALL 106 (242)
T ss_pred hccCcccccceeEEecCCcceEEecCCccccccccceeeeccCceEEEEEecCCccCCcceEEEEcccCchhhhHHHHHh
Confidence 66999999999988755 599975 2336778999999999999999999888899999999999999975 69
Q ss_pred CCcCccEEEEcCCCcEEeCCC-Cccc-----CCCCCCCCEEEEEeeCCCCCCCCCCCCccCCccccccccccchhccchh
Q psy4384 335 GYDKFGYSWRSRKGTRFHECR-GKHY-----SEGYSEGDTLGFLIHLPYRNQNSYVPRTFKDKPLVKFKCHLYYEEKDKV 408 (661)
Q Consensus 335 G~d~~syg~~~~~G~~~h~s~-~~~y-----g~~~~~GDVIG~~i~l~~~~~~~~~~~~~~d~~~i~~k~~~~~e~~d~~ 408 (661)
|.|..||||.-.++..+|++. ...| .+.|..+|.|+|.+|+.+
T Consensus 107 Gs~~qswGw~l~~~~l~H~g~~~~~yp~~~~~p~~~vp~ri~viLDm~e------------------------------- 155 (242)
T KOG3953|consen 107 GSNSQSWGWDLGRNVLYHDGQVAGLYPALNRQPKYNVPDRILVILDMIE------------------------------- 155 (242)
T ss_pred CCCCCccceecccceeeecCccccccccccCCchhcCCceEEEEEeecc-------------------------------
Confidence 999999999998889999882 2223 267999999999999998
Q ss_pred hHHHhhcccCCCcEEEEEECCeeccccceeccCCceEEEEE-ecCCcEEEEeC-CCCC
Q psy4384 409 TEALKRLQTLDQSQIVFYKNGKSQGVAFQDIYAGYYYPCVS-LHKNCTVSVNF-GPHF 464 (661)
Q Consensus 409 ~~~~~~~~~~~~s~I~f~kNG~~~G~AF~~i~~g~yyPavS-l~~g~~v~~NF-G~~F 464 (661)
+++.|.+||+++|+||+++.+-.+||+|| ++.+++|++-. |.++
T Consensus 156 ------------gtl~F~~~~e~LGvAFRgL~~~~LYP~Vsav~g~~Evtm~Ylg~~~ 201 (242)
T KOG3953|consen 156 ------------GTLSFAADGEYLGVAFRGLKDKKLYPAVSAVWGHCEVTMKYLGTLD 201 (242)
T ss_pred ------------ceEEEEECCeEEeeeecCCCCCcceeeeeehhcceeEEEEEeCCcC
Confidence 89999999999999999999889999999 56689999865 5455
No 41
>PLN02903 aminoacyl-tRNA ligase
Probab=99.62 E-value=3.7e-16 Score=177.86 Aligned_cols=84 Identities=24% Similarity=0.465 Sum_probs=72.8
Q ss_pred ceeeeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhc
Q psy4384 503 GKLKLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLIN 582 (661)
Q Consensus 503 ~qL~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~ 582 (661)
.|+.+++|++||||||||||||+++++|| |||||||||++|++ ++|+|+++|+||++++..+.+. +
T Consensus 264 kQ~Lm~~G~~RvFqIa~~FR~E~~~t~Rh-pEFTqLE~E~sf~d-~~dvm~~~E~li~~v~~~~~~~------------~ 329 (652)
T PLN02903 264 KQMLMVSGFDRYYQIARCFRDEDLRADRQ-PEFTQLDMELAFTP-LEDMLKLNEDLIRQVFKEIKGV------------Q 329 (652)
T ss_pred HHHHHhccCCcEEEEehhhccCCCCCCcc-cceeeeeeeecCCC-HHHHHHHHHHHHHHHHHHHhCC------------C
Confidence 35568899999999999999999999877 99999999999998 9999999999999998765431 0
Q ss_pred cccccccccccCCcccccCHHHHHHHHH
Q psy4384 583 LANITDLQCIHDNPFIRMSYSAAVTILT 610 (661)
Q Consensus 583 ~~~~~~l~~~~~~pf~rit~~EAi~lL~ 610 (661)
+..||+||||.||++..-
T Consensus 330 ----------~~~PF~rity~eA~~~yg 347 (652)
T PLN02903 330 ----------LPNPFPRLTYAEAMSKYG 347 (652)
T ss_pred ----------CCCCceEEEHHHHHHHHc
Confidence 235999999999998643
No 42
>KOG4367|consensus
Probab=99.58 E-value=1.5e-14 Score=152.02 Aligned_cols=156 Identities=23% Similarity=0.404 Sum_probs=131.5
Q ss_pred CceEeCcCCC---CCCeEEeCCCcEEEeC-CCeeEEEEeEEEeCCeEEEEEEEEeeCCCCcEEEEEeCCCCCCCCCCCCc
Q psy4384 262 SHVLLALHDR---APQLRISEDRLAVTGD-KGYCMVRATNYVGHGTWYWEATIEEMPEGSATRMGWGQEYANLQTPLGYD 337 (661)
Q Consensus 262 ~~v~~s~~dr---~~~l~ls~d~l~v~~~-~g~~~vRa~~~v~~G~~YfEv~i~~~~~~~~vriG~a~~~~~l~~pvG~d 337 (661)
..|.|=..+. ...+.+|++.+|++|. -.||++.+..++++|.+||||+|+.-...+.+.||+|+...+.+..+|-|
T Consensus 530 s~vawfqlt~spsqrdmilsnecatlsgssleyrtilgsiafskgvhywevtidrhdgnsdivigvaqpavnrnvmlgkd 609 (699)
T KOG4367|consen 530 SEVAWFQLTPSPSQRDMILSNECATLSGSSLEYRTILGSIAFSKGVHYWEVTIDRHDGNSDIVIGVAQPAVNRNVMLGKD 609 (699)
T ss_pred cceeeeeccCCchhhceeeecccceecccccchheeeeecccccceeEEEEEEeccCCCCCceEEecchhhhhceeeccc
Confidence 3444444444 4458999999999985 59999999999999999999999998778899999999999999999999
Q ss_pred CccEEEEcCCCc-EE--eCC-CCcccCCCCCCCCEEEEEeeCCCCCCCCCCCCccCCccccccccccchhccchhhHHHh
Q psy4384 338 KFGYSWRSRKGT-RF--HEC-RGKHYSEGYSEGDTLGFLIHLPYRNQNSYVPRTFKDKPLVKFKCHLYYEEKDKVTEALK 413 (661)
Q Consensus 338 ~~syg~~~~~G~-~~--h~s-~~~~yg~~~~~GDVIG~~i~l~~~~~~~~~~~~~~d~~~i~~k~~~~~e~~d~~~~~~~ 413 (661)
-.+|+..- +|. .| |+. .....-.+...|-|||+.+|++.
T Consensus 610 lhgwsmyv-dgerswylhnethhnrvlggvtrgtvigvrldcdr------------------------------------ 652 (699)
T KOG4367|consen 610 LHGWSMYV-DGERSWYLHNETHHNRVLGGVTRGTVIGVRLDCDR------------------------------------ 652 (699)
T ss_pred ccceeEEE-cCcceeEEeccccccccccccccccEEEEEEeccC------------------------------------
Confidence 99999776 344 33 433 22333368999999999999999
Q ss_pred hcccCCCcEEEEEECCeecc-ccceeccCCceEEEEEecCCcEEEEeCCC
Q psy4384 414 RLQTLDQSQIVFYKNGKSQG-VAFQDIYAGYYYPCVSLHKNCTVSVNFGP 462 (661)
Q Consensus 414 ~~~~~~~s~I~f~kNG~~~G-~AF~~i~~g~yyPavSl~~g~~v~~NFG~ 462 (661)
+++.|++|.+-.| .||+|+ .|-||||+|+..+.+|++.-|-
T Consensus 653 -------gtmeytvndrqddsmaftnm-rglyypafsvnanssitvhtgl 694 (699)
T KOG4367|consen 653 -------GTMEYTVNDRQDDSMAFTNM-RGLYYPAFSVNANSSITVHTGL 694 (699)
T ss_pred -------CceEEEeccccCCceeeecc-cceeeeeeEeccCceEEEecCC
Confidence 8999999999887 599999 8999999999999999999885
No 43
>PRK00476 aspS aspartyl-tRNA synthetase; Validated
Probab=99.58 E-value=1.7e-15 Score=172.74 Aligned_cols=82 Identities=27% Similarity=0.472 Sum_probs=72.1
Q ss_pred eeeeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhcc
Q psy4384 504 KLKLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINL 583 (661)
Q Consensus 504 qL~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~ 583 (661)
|+.+++|++||||||||||||+++++||+ ||||||||++|++ ++|+|+++|+||+++++.+.+.
T Consensus 202 q~l~~~g~~rvfqi~~~FR~E~~~~~r~~-EFt~le~e~af~~-~~dvm~~~E~li~~i~~~~~~~-------------- 265 (588)
T PRK00476 202 QLLMVAGFDRYYQIARCFRDEDLRADRQP-EFTQIDIEMSFVT-QEDVMALMEGLIRHVFKEVLGV-------------- 265 (588)
T ss_pred HHHHhcccCceEEEeceeecCCCCCCcCc-ccccceeeecCCC-HHHHHHHHHHHHHHHHHHHhCc--------------
Confidence 55688999999999999999999999887 9999999999998 9999999999999998876531
Q ss_pred ccccccccccCCcccccCHHHHHHHH
Q psy4384 584 ANITDLQCIHDNPFIRMSYSAAVTIL 609 (661)
Q Consensus 584 ~~~~~l~~~~~~pf~rit~~EAi~lL 609 (661)
.+..||+|+||.||++..
T Consensus 266 --------~~~~pf~r~ty~ea~~~y 283 (588)
T PRK00476 266 --------DLPTPFPRMTYAEAMRRY 283 (588)
T ss_pred --------cCCCCceEEEHHHHHHHH
Confidence 024689999999999753
No 44
>PRK12820 bifunctional aspartyl-tRNA synthetase/aspartyl/glutamyl-tRNA amidotransferase subunit C; Provisional
Probab=99.55 E-value=3.2e-15 Score=171.79 Aligned_cols=81 Identities=23% Similarity=0.414 Sum_probs=69.6
Q ss_pred eeeeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhcc
Q psy4384 504 KLKLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLINL 583 (661)
Q Consensus 504 qL~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~~ 583 (661)
|+.+++|++||||||||||||+++++|| |||||||+|++|++ ++|+|+++|+||+++++ +.+ .
T Consensus 217 q~lm~~G~~rvfqI~~~FR~E~~~t~r~-pEFT~LE~E~af~d-~~dvm~l~E~li~~v~~-~~~------------~-- 279 (706)
T PRK12820 217 QLLMIAGFERYFQLARCFRDEDLRPNRQ-PEFTQLDIEASFID-EEFIFELIEELTARMFA-IGG------------I-- 279 (706)
T ss_pred HHHHhccCCcEEEEechhcCCCCCCCcC-ccccccceeeccCC-HHHHHHHHHHHHHHHHH-hcC------------c--
Confidence 4567899999999999999999999876 99999999999998 99999999999998874 100 0
Q ss_pred ccccccccccCCcccccCHHHHHHHH
Q psy4384 584 ANITDLQCIHDNPFIRMSYSAAVTIL 609 (661)
Q Consensus 584 ~~~~~l~~~~~~pf~rit~~EAi~lL 609 (661)
.+..||+||||.||++..
T Consensus 280 --------~~~~pf~r~ty~eA~~~y 297 (706)
T PRK12820 280 --------ALPRPFPRMPYAEAMDTT 297 (706)
T ss_pred --------CCCCCceEEEHHHHHHHh
Confidence 134699999999999875
No 45
>KOG2243|consensus
Probab=99.54 E-value=1.4e-14 Score=164.59 Aligned_cols=133 Identities=27% Similarity=0.528 Sum_probs=117.7
Q ss_pred CCeeEEEE--eEEEeCCeEEEEEEEEeeCCCCcEEEEEeCCCCCCCCCCCCcCccEEEEcCCCcEEeCCCCcccCCCCCC
Q psy4384 288 KGYCMVRA--TNYVGHGTWYWEATIEEMPEGSATRMGWGQEYANLQTPLGYDKFGYSWRSRKGTRFHECRGKHYSEGYSE 365 (661)
Q Consensus 288 ~g~~~vRa--~~~v~~G~~YfEv~i~~~~~~~~vriG~a~~~~~l~~pvG~d~~syg~~~~~G~~~h~s~~~~yg~~~~~ 365 (661)
..++-.|+ +.+|+.|+||||.++.. .|.+||||++..+..+.-+|.|...++|.+..|++||++. .+||..|..
T Consensus 1090 dk~r~fr~eksyavkagkwyfefe~vt---~gdmrvgwarpgc~pd~elgadd~af~fdg~k~qrwhqg~-~~~grswq~ 1165 (5019)
T KOG2243|consen 1090 DKFRFFRAEKSYAVKAGKWYFEFETVT---AGDMRVGWARPGCQPDQELGADDQAFAFDGFKAQRWHQGN-EHFGRSWQA 1165 (5019)
T ss_pred ceeEEEeeehhheeeccceEEEEEEee---ccceeecccCCCCCcchhhCCccceeeeccchhhhhhccc-cccccccCC
Confidence 35677777 57899999999999988 7899999999999999999999999999999999999886 689999999
Q ss_pred CCEEEEEeeCCCCCCCCCCCCccCCccccccccccchhccchhhHHHhhcccCCCcEEEEEECCeec----c--ccceec
Q psy4384 366 GDTLGFLIHLPYRNQNSYVPRTFKDKPLVKFKCHLYYEEKDKVTEALKRLQTLDQSQIVFYKNGKSQ----G--VAFQDI 439 (661)
Q Consensus 366 GDVIG~~i~l~~~~~~~~~~~~~~d~~~i~~k~~~~~e~~d~~~~~~~~~~~~~~s~I~f~kNG~~~----G--~AF~~i 439 (661)
||||||.||+.+ .++.|++||+-+ | .||.|.
T Consensus 1166 gdvvgcmi~l~d-------------------------------------------~sm~ftlngeili~~~gselaf~d~ 1202 (5019)
T KOG2243|consen 1166 GDVVGCMIDLDD-------------------------------------------ASMIFTLNGEILIDDKGSELAFADF 1202 (5019)
T ss_pred CCeEEEEEeccc-------------------------------------------ceEEEEEcCeEEEcCCCCeeeeccc
Confidence 999999999998 789999999987 2 478876
Q ss_pred cC-CceEEEEEecCCcEEEEeCCC---CCCCC
Q psy4384 440 YA-GYYYPCVSLHKNCTVSVNFGP---HFKHA 467 (661)
Q Consensus 440 ~~-g~yyPavSl~~g~~v~~NFG~---~F~~~ 467 (661)
-- .++.|..++.-...-++|||. -|+|-
T Consensus 1203 di~~gfipic~lg~aqigrmn~g~d~st~k~~ 1234 (5019)
T KOG2243|consen 1203 DIEDGFIPICCLGLAQIGRMNFGKDASTFKFF 1234 (5019)
T ss_pred cccCCceeeeehhhHhhcccccCCcccceeee
Confidence 43 489999999888889999998 48874
No 46
>COG0173 AspS Aspartyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=99.33 E-value=1.4e-12 Score=143.24 Aligned_cols=83 Identities=27% Similarity=0.477 Sum_probs=74.1
Q ss_pred ceeeeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhc
Q psy4384 503 GKLKLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLIN 582 (661)
Q Consensus 503 ~qL~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~ 582 (661)
.||.|++|++|.|||++|||.|..+..|. ||||+||.|++|++ -+|+|+++|.||+.+++.+.+-
T Consensus 201 KQLLMvsGfdRYyQIarCFRDEDlRaDRQ-PEFTQiD~EmSF~~-~edv~~~~E~l~~~vf~~~~~i------------- 265 (585)
T COG0173 201 KQLLMVAGFDRYYQIARCFRDEDLRADRQ-PEFTQIDLEMSFVD-EEDVMELIEKLLRYVFKEVKGI------------- 265 (585)
T ss_pred HHHHHHhcccceeeeeeeecccccccccC-CcceeEeEEeecCC-HHHHHHHHHHHHHHHHHHhcCC-------------
Confidence 57789999999999999999999999888 99999999999999 8999999999999999876441
Q ss_pred cccccccccccCCcccccCHHHHHHHH
Q psy4384 583 LANITDLQCIHDNPFIRMSYSAAVTIL 609 (661)
Q Consensus 583 ~~~~~~l~~~~~~pf~rit~~EAi~lL 609 (661)
.+..||+||||+||++..
T Consensus 266 ---------~l~~pFprmtY~eAm~~Y 283 (585)
T COG0173 266 ---------ELKTPFPRMTYAEAMRRY 283 (585)
T ss_pred ---------ccCCCcccccHHHHHHHh
Confidence 145699999999998754
No 47
>KOG2411|consensus
Probab=99.29 E-value=1.2e-12 Score=140.68 Aligned_cols=83 Identities=23% Similarity=0.413 Sum_probs=72.2
Q ss_pred ceeeeecccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHhhhhc
Q psy4384 503 GKLKLDLSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLESHEEELLTYRKLIN 582 (661)
Q Consensus 503 ~qL~la~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~~~~~~l~~~~~~~~ 582 (661)
.||.|++|++|.|||++|||.|++...|. ||||++|.||+|.+ .+|+|+++|++|+++.....+.
T Consensus 239 KQlLMvsGidrYyQiARCfRDEdlR~DRQ-PEFTQvD~EMsF~~-~~dim~liEdll~~~ws~~k~~------------- 303 (628)
T KOG2411|consen 239 KQLLMVSGIDRYYQIARCFRDEDLRADRQ-PEFTQVDMEMSFTD-QEDIMKLIEDLLRYVWSEDKGI------------- 303 (628)
T ss_pred HHHHHHhchhhHHhHHhhhcccccCcccC-CcceeeeeEEeccC-HHHHHHHHHHHHHHhchhhcCC-------------
Confidence 67889999999999999999999988866 99999999999998 8999999999999887543221
Q ss_pred cccccccccccCCcccccCHHHHHHHH
Q psy4384 583 LANITDLQCIHDNPFIRMSYSAAVTIL 609 (661)
Q Consensus 583 ~~~~~~l~~~~~~pf~rit~~EAi~lL 609 (661)
-+..||+||||+||++..
T Consensus 304 ---------~l~~PF~riTY~~Am~~Y 321 (628)
T KOG2411|consen 304 ---------QLPVPFPRITYADAMDKY 321 (628)
T ss_pred ---------CCCCCcccccHHHHHHHh
Confidence 145799999999999864
No 48
>KOG2243|consensus
Probab=99.04 E-value=7.7e-11 Score=135.04 Aligned_cols=138 Identities=22% Similarity=0.438 Sum_probs=105.9
Q ss_pred CeeEEEEeE--EEeCC-----eEEEEEEEEee-----CCCCcEEEEEeCCCCCCCC----------CCCCcCccEEEEcC
Q psy4384 289 GYCMVRATN--YVGHG-----TWYWEATIEEM-----PEGSATRMGWGQEYANLQT----------PLGYDKFGYSWRSR 346 (661)
Q Consensus 289 g~~~vRa~~--~v~~G-----~~YfEv~i~~~-----~~~~~vriG~a~~~~~l~~----------pvG~d~~syg~~~~ 346 (661)
...++|.|. ||.+| +||||..|+.. .+..|+||||+..++--.. .||.|-|||||.+.
T Consensus 657 ~vss~rpniflgvaegsaqykkwy~el~id~~dpf~tae~thlrvgwass~gyap~pggge~wggngvgddl~sygfdgl 736 (5019)
T KOG2243|consen 657 DVSSIRPNIFLGVAEGSAQYKKWYFELIIDHTDPFLTAEATHLRVGWASSEGYAPCPGGGEEWGGNGVGDDLFSYGFDGL 736 (5019)
T ss_pred hhhhcCCceeEeeccchHHHHHHHHHHhhhcCCcceecccceeeeeeeccCCCCCCCCCcccccCCCccchhhhcCCCcc
Confidence 566788874 77777 89999999863 2468999999998764332 47788899999763
Q ss_pred CCcEEeCCCCcccC----CCCCCCCEEEEEeeCCCCCCCCCCCCccCCccccccccccchhccchhhHHHhhcccCCCcE
Q psy4384 347 KGTRFHECRGKHYS----EGYSEGDTLGFLIHLPYRNQNSYVPRTFKDKPLVKFKCHLYYEEKDKVTEALKRLQTLDQSQ 422 (661)
Q Consensus 347 ~G~~~h~s~~~~yg----~~~~~GDVIG~~i~l~~~~~~~~~~~~~~d~~~i~~k~~~~~e~~d~~~~~~~~~~~~~~s~ 422 (661)
..|.....+... .-....|||.|++||.. -.
T Consensus 737 --hlwsg~i~r~vas~nqhllrsddvisccldl~~-------------------------------------------ps 771 (5019)
T KOG2243|consen 737 --HLWSGCIARAVASPNQHLLRSDDVISCCLDLGA-------------------------------------------PS 771 (5019)
T ss_pred --hhhcccchhhhcChhhhhhcccchhhhhhhcCC-------------------------------------------Cc
Confidence 122222222222 23678999999999977 57
Q ss_pred EEEEECCeeccccceecc-CCceEEEEEecCCcEEEEeCCC---CCCCCCC-CC
Q psy4384 423 IVFYKNGKSQGVAFQDIY-AGYYYPCVSLHKNCTVSVNFGP---HFKHALP-TE 471 (661)
Q Consensus 423 I~f~kNG~~~G~AF~~i~-~g~yyPavSl~~g~~v~~NFG~---~F~~~p~-~~ 471 (661)
|.|-.||+++--.|+|.. +|-+||.+|...|-.|++-.|. +|+|-|| ++
T Consensus 772 isfringqpvqgmfenfn~dglffpv~sfsagikvrfllggrhgefkflpp~gy 825 (5019)
T KOG2243|consen 772 ISFRINGQPVQGMFENFNIDGLFFPVMSFSAGIKVRFLLGGRHGEFKFLPPPGY 825 (5019)
T ss_pred eEEEECCccchhHHhcCCCcceeeeeEeeccCeEEEEEecccccceeecCCCCC
Confidence 999999999888899875 5899999999999999999987 7999554 53
No 49
>KOG1477|consensus
Probab=98.78 E-value=9.1e-09 Score=114.59 Aligned_cols=163 Identities=18% Similarity=0.246 Sum_probs=130.7
Q ss_pred eEeCcCCCCCCeEE-eCCCcEEE-e-----CCCeeEEEEeEEEeC--CeEEEEEEEEeeCCCCcEEEEEeCCCCCCCCCC
Q psy4384 264 VLLALHDRAPQLRI-SEDRLAVT-G-----DKGYCMVRATNYVGH--GTWYWEATIEEMPEGSATRMGWGQEYANLQTPL 334 (661)
Q Consensus 264 v~~s~~dr~~~l~l-s~d~l~v~-~-----~~g~~~vRa~~~v~~--G~~YfEv~i~~~~~~~~vriG~a~~~~~l~~pv 334 (661)
..|+..+.+..+.. +.|...+. . ..+..++-|+.++.. |.+||||.|.+....+.+.||......++....
T Consensus 32 ~~~~~~~~~~~~~~~~~~~gi~f~~~~~~~~~dvg~~~~~~~~~~N~~~~~Fe~~i~d~g~~~~i~i~~~~~~~~~~~~~ 111 (469)
T KOG1477|consen 32 CEVNTINGSDFFTKNGPDMGIAFYTPPALLYHDVGVVQAGEPLPANFGIYYFEFDILDYGIEGRIKIGFLIDSFSIIESE 111 (469)
T ss_pred ceEeccCCceeEEEEcCCcceeeecCccccCCCcceeeCCCCCCcccccceeeeeHHHhhhhhceEEEEEeccccccccc
Confidence 45777777666544 44443332 1 235556666666654 799999999987778899999999999999999
Q ss_pred CCcCccEEEEcCCCcEEeCC--CCcccCCCCCCCCEEEEEeeCCCCCCCCCCCCccCCccccccccccchhccchhhHHH
Q psy4384 335 GYDKFGYSWRSRKGTRFHEC--RGKHYSEGYSEGDTLGFLIHLPYRNQNSYVPRTFKDKPLVKFKCHLYYEEKDKVTEAL 412 (661)
Q Consensus 335 G~d~~syg~~~~~G~~~h~s--~~~~yg~~~~~GDVIG~~i~l~~~~~~~~~~~~~~d~~~i~~k~~~~~e~~d~~~~~~ 412 (661)
||...|++|.+.+|.+.|.+ .+..|+++|+.||.|||+++.-.
T Consensus 112 g~~~~s~~y~g~~g~l~~~~~~~~~~~~~~~~~~D~ig~~~~~~~----------------------------------- 156 (469)
T KOG1477|consen 112 GYTMNSLGYHGNSGLLDNGGAELGEEFGPTFTTGDEIGCGINEIT----------------------------------- 156 (469)
T ss_pred chhhhhhcccCCchhhhhhhhhhchhhcCCCCccceeeeccchhh-----------------------------------
Confidence 99888999999999988833 56789999999999999998766
Q ss_pred hhcccCCCcEEEEEECCeeccccceeccCCceEE----EEEecCCcEEEEeCC-C-CCCCCCC
Q psy4384 413 KRLQTLDQSQIVFYKNGKSQGVAFQDIYAGYYYP----CVSLHKNCTVSVNFG-P-HFKHALP 469 (661)
Q Consensus 413 ~~~~~~~~s~I~f~kNG~~~G~AF~~i~~g~yyP----avSl~~g~~v~~NFG-~-~F~~~p~ 469 (661)
.+|+|++||..+|++++++..+.+-+ ++-+..+..|++||| . +|.|.-.
T Consensus 157 --------q~i~~t~~g~~~~~~~~~~~~~~~~~~~n~~~~~s~~~~I~~~~g~~~~~~fd~~ 211 (469)
T KOG1477|consen 157 --------QEIFFTKNGTEVGEIIKPLSPDLLEENGNLAWLFSPNEEVEVNFGLEEEFRFDFS 211 (469)
T ss_pred --------heeeeccCccccccccccccccccccccceeeEeccCceeeeeecCCCceeeccc
Confidence 79999999999999999998877777 555566999999999 4 6777544
No 50
>KOG1477|consensus
Probab=97.40 E-value=6.5e-05 Score=84.16 Aligned_cols=86 Identities=24% Similarity=0.389 Sum_probs=71.8
Q ss_pred EEEEcCCCcEEeCC-CCcccCCCCCCCCEEEEEeeCCCCCCCCCCCCccCCccccccccccchhccchhhHHHhhcccCC
Q psy4384 341 YSWRSRKGTRFHEC-RGKHYSEGYSEGDTLGFLIHLPYRNQNSYVPRTFKDKPLVKFKCHLYYEEKDKVTEALKRLQTLD 419 (661)
Q Consensus 341 yg~~~~~G~~~h~s-~~~~yg~~~~~GDVIG~~i~l~~~~~~~~~~~~~~d~~~i~~k~~~~~e~~d~~~~~~~~~~~~~ 419 (661)
|+||+++|..+-.+ .+..||+.+.+||||||+++.-.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~g~~~~~~d~i~~~~~~~~------------------------------------------ 38 (469)
T KOG1477|consen 1 YGYHGDDGNFFLKSGDGQLYGPVFTTGDVIPCEVNTIN------------------------------------------ 38 (469)
T ss_pred CCCcccchhhhhhcccccccCCcCCccccccceEeccC------------------------------------------
Confidence 57888899888754 78899999999999999999988
Q ss_pred CcEEEEEECCeeccccceeccCCceEEEEEec-CCcEEEEeCCC-CCCCCCCC
Q psy4384 420 QSQIVFYKNGKSQGVAFQDIYAGYYYPCVSLH-KNCTVSVNFGP-HFKHALPT 470 (661)
Q Consensus 420 ~s~I~f~kNG~~~G~AF~~i~~g~yyPavSl~-~g~~v~~NFG~-~F~~~p~~ 470 (661)
+.-+|+|||..+|++|.+.... .||.|.+. .+..+..|||. +|.+...+
T Consensus 39 -~~~~~~~~~~~~gi~f~~~~~~-~~~dvg~~~~~~~~~~N~~~~~Fe~~i~d 89 (469)
T KOG1477|consen 39 -GSDFFTKNGPDMGIAFYTPPAL-LYHDVGVVQAGEPLPANFGIYYFEFDILD 89 (469)
T ss_pred -CceeEEEEcCCcceeeecCccc-cCCCcceeeCCCCCCcccccceeeeeHHH
Confidence 7889999999999999976665 45555554 58899999999 88886653
No 51
>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=96.91 E-value=0.0011 Score=68.80 Aligned_cols=53 Identities=23% Similarity=0.451 Sum_probs=43.5
Q ss_pred ccceeEEEecccccCCCCCCCChhhhhcceeeeccCC-hHHHHHHHHHHHHHHHH
Q psy4384 510 SLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLD-NIHDLCNTIEQFIKSVL 563 (661)
Q Consensus 510 g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d-~~~dlm~~~E~Li~~i~ 563 (661)
.=-|+|+||+|||+|..|. +|+|||+++|.-.+..+ ++.+++..++.|+++++
T Consensus 101 ~p~kif~iG~VyR~D~~D~-th~~~f~Qleg~~~~~~~~f~~Lk~~l~~l~~~lf 154 (247)
T PF01409_consen 101 PPIKIFEIGKVYRRDEIDA-THLPEFHQLEGLVVDKNVTFEDLKGTLEELLKELF 154 (247)
T ss_dssp SSEEEEEEEEEESSSCSBS-SBESEEEEEEEEEEETTE-HHHHHHHHHHHHHHHH
T ss_pred CCeEEEecCceEecCCccc-ccCccceeEeeEEEecccchhHHHHHHHHHHHHHh
Confidence 3368999999999999885 49999999999887643 38888888888887775
No 52
>smart00249 PHD PHD zinc finger. The plant homeodomain (PHD) finger is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in epigenetics and chromatin-mediated transcriptional regulation. The PHD finger binds two zinc ions using the so-called 'cross-brace' motif and is thus structurally related to the 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=96.83 E-value=0.0013 Score=66.75 Aligned_cols=51 Identities=25% Similarity=0.443 Sum_probs=44.2
Q ss_pred ccceeEEEecccccCCCCCCCChhhhhcceeeeccC--ChHHHHHHHHHHHHHHH
Q psy4384 510 SLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFL--DNIHDLCNTIEQFIKSV 562 (661)
Q Consensus 510 g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~--d~~~dlm~~~E~Li~~i 562 (661)
.--++||||+|||+++.+ ..|+|||+||++..++. | +.+++..+|+|++.+
T Consensus 79 ~~~~lFEiG~Vf~~~~~~-~~~~~E~~~l~~~~~g~~~d-f~dlkg~ve~ll~~l 131 (218)
T cd00496 79 PPIRIFSIGRVYRNDEID-ATHLPEFHQIEGLVVDKGLT-FADLKGTLEEFAKEL 131 (218)
T ss_pred CCeeEEEEcCeEECCCCC-CCcCCccEEEEEEEECCCCC-HHHHHHHHHHHHHHh
Confidence 456999999999998764 35899999999999986 6 999999999999755
No 54
>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=96.67 E-value=0.0017 Score=64.33 Aligned_cols=53 Identities=21% Similarity=0.377 Sum_probs=40.5
Q ss_pred ccceeEEEecccccCCCCC-CCChhhhhcceeeeccCC-----hHHHHHHHHHHHHHHH
Q psy4384 510 SLSKVYTLNPTFRAENSKS-RLHLAEFYMIEAELAFLD-----NIHDLCNTIEQFIKSV 562 (661)
Q Consensus 510 g~~rVyeIg~~FRaE~s~t-~RHl~EFtmLE~e~a~~d-----~~~dlm~~~E~Li~~i 562 (661)
.--++||||+|||+|.... .+|+.||+|++++..+.. ++.+++..++++++.+
T Consensus 74 ~~~~lfeig~vfr~e~~~~~~~~~~ef~~l~~~~~g~~~~~~~~~~~~~~~~~~~l~~l 132 (211)
T cd00768 74 LPLRLAEIGPAFRNEGGRRGLRRVREFTQLEGEVFGEDGEEASEFEELIELTEELLRAL 132 (211)
T ss_pred CCEEEEEEcceeecCCCccccccceeEEEcCEEEEcCCchhHHHHHHHHHHHHHHHHHc
Confidence 3458999999999997532 168899999999999865 2566777777776544
No 55
>PRK09537 pylS pyrolysyl-tRNA synthetase; Reviewed
Probab=96.48 E-value=0.0025 Score=70.27 Aligned_cols=50 Identities=28% Similarity=0.483 Sum_probs=38.6
Q ss_pred ceeEEEecccccCCCCCCCChhhhhcceeeeccCC-hHHHHHHHHHHHHHHH
Q psy4384 512 SKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLD-NIHDLCNTIEQFIKSV 562 (661)
Q Consensus 512 ~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d-~~~dlm~~~E~Li~~i 562 (661)
-|+|+||+|||+|..+ ..|++||+|++++....+ .+.+++.+++++++.+
T Consensus 283 ~RIFEIG~VFR~E~~g-~~hlrEf~Ql~~~iiGs~~~f~dL~~lleeLL~~L 333 (417)
T PRK09537 283 IKIFEIGPCYRKESDG-KEHLEEFTMVNFCQMGSGCTRENLENIIDDFLKHL 333 (417)
T ss_pred eeEEEEeceEecCCCC-CCCcceEEEEEEEEeCCchHHHHHHHHHHHHHHHC
Confidence 4899999999999865 569999999999998643 2556666666555544
No 56
>PTZ00326 phenylalanyl-tRNA synthetase alpha chain; Provisional
Probab=96.36 E-value=0.003 Score=71.06 Aligned_cols=50 Identities=30% Similarity=0.530 Sum_probs=39.3
Q ss_pred ceeEEEecccccCCCCCCCChhhhhcceeeeccCC-hHHHHHHHHHHHHHHH
Q psy4384 512 SKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLD-NIHDLCNTIEQFIKSV 562 (661)
Q Consensus 512 ~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d-~~~dlm~~~E~Li~~i 562 (661)
-|+|.|++|||+|..|.+ |++||+++|......+ .+.+|+.++.++++.+
T Consensus 358 ~k~fsigrVfR~d~~Dat-H~~eFhQ~Eg~vi~~~~s~~~L~~~l~~f~~~l 408 (494)
T PTZ00326 358 KKYFSIDRVFRNETLDAT-HLAEFHQVEGFVIDRNLTLGDLIGTIREFFRRI 408 (494)
T ss_pred ceEEecCCEecCCCCCCC-cCceeEEEEEEEEeCCCCHHHHHHHHHHHHHhc
Confidence 499999999999999855 9999999999987754 2556666666555544
No 57
>PLN02853 Probable phenylalanyl-tRNA synthetase alpha chain
Probab=96.33 E-value=0.0034 Score=70.37 Aligned_cols=48 Identities=29% Similarity=0.546 Sum_probs=40.5
Q ss_pred eeEEEecccccCCCCCCCChhhhhcceeeecc--CChHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSRLHLAEFYMIEAELAF--LDNIHDLCNTIEQFIKSV 562 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~--~d~~~dlm~~~E~Li~~i 562 (661)
++|.|++|||+|..|.+ |+|||.++|.-..- .+ +.+|+.+++++++.+
T Consensus 344 k~fsigrVfR~d~iDat-H~~eFhQ~EG~vvd~~~t-~~~L~g~l~~f~~~l 393 (492)
T PLN02853 344 RYFSIDRVFRNEAVDRT-HLAEFHQVEGLVCDRGLT-LGDLIGVLEDFFSRL 393 (492)
T ss_pred EEEeccceecCCCCCcc-cCccceeEEEEEEeCCCC-HHHHHHHHHHHHHHc
Confidence 89999999999999865 99999999977664 44 888888888877664
No 58
>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=95.96 E-value=0.0069 Score=66.96 Aligned_cols=49 Identities=24% Similarity=0.408 Sum_probs=37.0
Q ss_pred cceeEEEecccccCCCCCCCChhhhhcceeeeccCC-hHHHHHHHHHHHHH
Q psy4384 511 LSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLD-NIHDLCNTIEQFIK 560 (661)
Q Consensus 511 ~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d-~~~dlm~~~E~Li~ 560 (661)
--|+|+||+|||+|..+ ..|+.||+|++++.+..+ .+.|++.++.++++
T Consensus 318 PqKIFEIGkVFR~E~~~-~thlREF~QL~~eIaG~~atfaDlealL~e~Lr 367 (453)
T TIGR02367 318 PIKIFEIGPCYRKESDG-KEHLEEFTMLNFCQMGSGCTRENLEAIIKDFLD 367 (453)
T ss_pred CeeEEEEcCeEecCCCC-CCCcCeEEEEEEEEECCCCCHHHHHHHHHHHHH
Confidence 34999999999999875 459999999999998754 25555544444443
No 59
>PF00628 PHD: PHD-finger; InterPro: IPR019787 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the PHD (homeodomain) zinc finger domain [,], which is a C4HC3 zinc-finger-like motif found in nuclear proteins thought to be involved in chromatin-mediated transcriptional regulation. The PHD finger motif is reminiscent of, but distinct from the C3HC4 type RING finger. The function of this domain is not yet known but in analogy with the LIM domain it could be involved in protein-protein interaction and be important for the assembly or activity of multicomponent complexes involved in transcriptional activation or repression. Alternatively, the interactions could be intra-molecular and be important in maintaining the structural integrity of the protein. In similarity to the RING finger and the LIM domain, the PHD finger is thought to bind two zinc ions. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0005515 protein binding; PDB: 3ZVY_A 2LGG_A 3SOW_A 3SOU_B 3ASL_A 3ASK_A 3ZVZ_B 3T6R_A 2LGK_A 3SOX_B ....
Probab=95.95 E-value=0.0008 Score=52.06 Aligned_cols=42 Identities=19% Similarity=0.539 Sum_probs=29.7
Q ss_pred CccccceEecccccchhhHhhhccccCCccccceeEEEEcccCC
Q psy4384 4 RNFNLIELFCANCKCWFHESCISYQIGKLVPFMMNYVFICKNCS 47 (661)
Q Consensus 4 ~~~~~~~lqC~~C~~wfH~~C~~~~~~~~l~~~~~y~F~C~~C~ 47 (661)
.+....||+|+.|.+|||..|++..... ...... .|.|..|.
T Consensus 8 ~~~~~~~i~C~~C~~~~H~~C~~~~~~~-~~~~~~-~w~C~~C~ 49 (51)
T PF00628_consen 8 SDDDGDMIQCDSCNRWYHQECVGPPEKA-EEIPSG-DWYCPNCR 49 (51)
T ss_dssp SCTTSSEEEBSTTSCEEETTTSTSSHSH-HSHHSS-SBSSHHHH
T ss_pred cCCCCCeEEcCCCChhhCcccCCCChhh-ccCCCC-cEECcCCc
Confidence 3456789999999999999999976531 111111 77787775
No 60
>KOG2242|consensus
Probab=95.73 E-value=0.003 Score=72.38 Aligned_cols=156 Identities=27% Similarity=0.458 Sum_probs=108.7
Q ss_pred CCCeeEEEEeEEEeCCeEEEEEEEEee----------CCCCcEEEEEeCCCCCCCCCCCCcCccEEEEcCCCcEEeCCCC
Q psy4384 287 DKGYCMVRATNYVGHGTWYWEATIEEM----------PEGSATRMGWGQEYANLQTPLGYDKFGYSWRSRKGTRFHECRG 356 (661)
Q Consensus 287 ~~g~~~vRa~~~v~~G~~YfEv~i~~~----------~~~~~vriG~a~~~~~l~~pvG~d~~syg~~~~~G~~~h~s~~ 356 (661)
...|...|+..++..|.--+|-++.+. ......++||.-.. ...-++.|.++|+|... +.+-.++..
T Consensus 66 ~~~~~~~r~a~~~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~L~~--~~~~~~~~~~~~~~~~~-~~~~~~~~~ 142 (558)
T KOG2242|consen 66 AGPWDGARAAYSVSRGEVCFEMRINEPEEVPHFQPLEPDPHDVRIGWSLDS--IRTLLGDEPFSYGYSET-GKKSCNSEV 142 (558)
T ss_pred cccCcccceeeeecCCcchhhcccccccccCCCCccccccccccccccchh--hhhcccccccccccccc-ccchhhHHH
Confidence 346777888888887766666555542 12346778887554 33447888899999884 555667788
Q ss_pred cccCCCCCCCCEEEEEeeCCCCCCCCCCCCccCCccccccccccchhccchhhHHHhhcccCCCcEEEEEECCeeccccc
Q psy4384 357 KHYSEGYSEGDTLGFLIHLPYRNQNSYVPRTFKDKPLVKFKCHLYYEEKDKVTEALKRLQTLDQSQIVFYKNGKSQGVAF 436 (661)
Q Consensus 357 ~~yg~~~~~GDVIG~~i~l~~~~~~~~~~~~~~d~~~i~~k~~~~~e~~d~~~~~~~~~~~~~~s~I~f~kNG~~~G~AF 436 (661)
+.|++.|.+.|+|||.++.... ....+.+.|||..++.+|
T Consensus 143 ~~~~e~f~e~~~i~c~~~~~~~----------------------------------------d~~~l~~~k~~~~~~~~~ 182 (558)
T KOG2242|consen 143 EKYGEKFPENDVIGCFADFEIL----------------------------------------DEVELSYEKNGQDLGESF 182 (558)
T ss_pred HHHHhhcccccccchhhccccc----------------------------------------ccCcchhhhccchhhhhh
Confidence 9999999999999999988662 126788999999999998
Q ss_pred ee---ccCC-ceEEEEEecCCcEEEEeCCC---CCCCCCCCCCCCCccccccccchh
Q psy4384 437 QD---IYAG-YYYPCVSLHKNCTVSVNFGP---HFKHALPTEEFPNVRGMWERSEES 486 (661)
Q Consensus 437 ~~---i~~g-~yyPavSl~~g~~v~~NFG~---~F~~~p~~~~~~~~~p~~~~~~e~ 486 (661)
.. ...+ ..||+|-. +.+.|..|||+ .|...+.+..+....|+.++..-+
T Consensus 183 ~l~~~~~~~~~~~p~vl~-~~~~ve~~f~~~~ag~~~v~~~~~~i~~~~~~~~~~~~ 238 (558)
T KOG2242|consen 183 LLSKEDLGGQALYPHVLR-KNCAVEGNFGQKAAGYEPVKEEYTFIQNYPLEERLRGP 238 (558)
T ss_pred cchhhhccCcccCccccc-CcceeccccccccccccccchhhhhhhhcchhhcccCC
Confidence 62 2334 48998844 88899999998 466555544332223555444333
No 61
>KOG2784|consensus
Probab=95.52 E-value=0.0072 Score=64.31 Aligned_cols=50 Identities=28% Similarity=0.503 Sum_probs=41.4
Q ss_pred ceeEEEecccccCCCCCCCChhhhhcceeeeccCC-hHHHHHHHHHHHHHHH
Q psy4384 512 SKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLD-NIHDLCNTIEQFIKSV 562 (661)
Q Consensus 512 ~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d-~~~dlm~~~E~Li~~i 562 (661)
.+.|.|-+|||||..|.+ ||+||.++|--.|-.. .+-++|-.+++++..+
T Consensus 334 ~K~FSIDrVFRNEtvDaT-HLAEFHQVEGviad~gltLgdLig~l~~ff~~l 384 (483)
T KOG2784|consen 334 AKYFSIDRVFRNETVDAT-HLAEFHQVEGVIADKGLTLGDLIGILMEFFTKL 384 (483)
T ss_pred ccccchhhhhhccccchH-HHHHHhhhceeeecCCCcHHHHHHHHHHHHhcc
Confidence 488999999999999966 9999999998887532 2789998888877544
No 62
>PRK00488 pheS phenylalanyl-tRNA synthetase subunit alpha; Validated
Probab=95.50 E-value=0.015 Score=62.54 Aligned_cols=51 Identities=20% Similarity=0.384 Sum_probs=42.0
Q ss_pred eeEEEecccccCCCCCCCChhhhhcceeeeccCC-hHHHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLD-NIHDLCNTIEQFIKSVLN 564 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d-~~~dlm~~~E~Li~~i~~ 564 (661)
|||++|+|||++..|. +|.|+|+++|.-....+ ++.++...++.+++.++.
T Consensus 187 rif~~G~VyR~D~~Da-tH~~~FhQleglvvd~~vtf~dLK~~L~~fl~~~fg 238 (339)
T PRK00488 187 RIIAPGRVYRNDSDDA-THSPMFHQVEGLVVDKNISFADLKGTLEDFLKAFFG 238 (339)
T ss_pred EEEEeeeEEEcCCCCc-ccCcceeeEEEEEEeCCCCHHHHHHHHHHHHHHHcC
Confidence 8999999999998775 59999999998666522 388888888888877764
No 63
>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=95.25 E-value=0.024 Score=60.38 Aligned_cols=50 Identities=22% Similarity=0.454 Sum_probs=41.1
Q ss_pred ceeEEEecccccCCCCCCCChhhhhcceeeecc--CChHHHHHHHHHHHHHHHH
Q psy4384 512 SKVYTLNPTFRAENSKSRLHLAEFYMIEAELAF--LDNIHDLCNTIEQFIKSVL 563 (661)
Q Consensus 512 ~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~--~d~~~dlm~~~E~Li~~i~ 563 (661)
-|+|+||+|||++..+ .+|+|||++|+.-... .+ +.++...+|+++..+.
T Consensus 151 irlFEiGrVfr~d~~d-~~~~pef~ql~gl~~~~~~~-f~dLKg~le~ll~~l~ 202 (294)
T TIGR00468 151 IRIFSPGRVFRNDTVD-ATHLPEFHQVEGLVIDKNVS-FTNLKGFLEEFLKKMF 202 (294)
T ss_pred ceEEEecceEEcCCCC-CccCChhhEEEEEEECCCCC-HHHHHHHHHHHHHHhC
Confidence 4999999999998865 3599999999988654 34 8999999999887653
No 64
>PRK04172 pheS phenylalanyl-tRNA synthetase subunit alpha; Provisional
Probab=95.24 E-value=0.02 Score=65.13 Aligned_cols=50 Identities=28% Similarity=0.540 Sum_probs=41.8
Q ss_pred ceeEEEecccccCCCCCCCChhhhhcceeeeccCC-hHHHHHHHHHHHHHHH
Q psy4384 512 SKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLD-NIHDLCNTIEQFIKSV 562 (661)
Q Consensus 512 ~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d-~~~dlm~~~E~Li~~i 562 (661)
-++|+||+|||+|..+. .|++||++++......+ ++.+++.+++++++.+
T Consensus 351 ~rlFeiGrVFR~e~~d~-~~l~Ef~ql~~~i~G~~~~f~elkg~l~~ll~~l 401 (489)
T PRK04172 351 QKYFSIGRVFRPDTIDA-THLPEFYQLEGIVMGEDVSFRDLLGILKEFYKRL 401 (489)
T ss_pred eEEEEecceEcCCCCCc-ccCCchheEEEEEEeCCCCHHHHHHHHHHHHHHh
Confidence 48999999999998764 48999999999998853 3778888888888655
No 65
>COG0016 PheS Phenylalanyl-tRNA synthetase alpha subunit [Translation, ribosomal structure and biogenesis]
Probab=95.15 E-value=0.02 Score=61.52 Aligned_cols=53 Identities=25% Similarity=0.401 Sum_probs=41.5
Q ss_pred cceeEEEecccccCCCCCCCChhhhhcceeeeccCC-hHHHHHHHHHHHHHHHHH
Q psy4384 511 LSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLD-NIHDLCNTIEQFIKSVLN 564 (661)
Q Consensus 511 ~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d-~~~dlm~~~E~Li~~i~~ 564 (661)
=-|++.+|+|||++..|.+ |+|||.++|.-..--+ ++.+|+-+++++++.+..
T Consensus 192 P~k~~~~grvyR~D~~DaT-Hs~~FhQiEGlvvd~~~s~~~Lkg~L~~f~~~~fg 245 (335)
T COG0016 192 PIKIFSPGRVYRNDTVDAT-HSPEFHQIEGLVVDKNISFADLKGTLEEFAKKFFG 245 (335)
T ss_pred CceEecccceecCCCCCcc-cchheeeeEEEEEeCCccHHHHHHHHHHHHHHhcC
Confidence 3489999999999999865 9999999996443321 377888888888877763
No 66
>PLN02788 phenylalanine-tRNA synthetase
Probab=94.84 E-value=0.029 Score=61.87 Aligned_cols=52 Identities=19% Similarity=0.352 Sum_probs=42.5
Q ss_pred ccceeEEEecccccCCCCCCCChhhhhcceeeecc--------------CChHHHHHHHHHHHHHHHH
Q psy4384 510 SLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAF--------------LDNIHDLCNTIEQFIKSVL 563 (661)
Q Consensus 510 g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~--------------~d~~~dlm~~~E~Li~~i~ 563 (661)
+-.+++.+|+|||++.+|.+ |.|+|.++|.-+.+ .. +.++...+|.|++.++
T Consensus 146 ~~~~~~~~g~VyRrD~iD~t-H~p~FhQ~EG~~v~~~~~~~~~~~~~~~~~-~~dLKg~Le~l~~~lf 211 (402)
T PLN02788 146 GHTHFLVTGDVYRRDSIDAT-HYPVFHQMEGVRVFSPEEWEASGLDGTDLA-AEDLKKTLEGLARHLF 211 (402)
T ss_pred CCCcEEEEeeEeecCCCCcc-cCccceeEEEEEEecccccccccccccccC-HHHHHHHHHHHHHHhc
Confidence 44599999999999999865 99999999988775 33 5677778888877664
No 67
>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=94.73 E-value=0.036 Score=61.58 Aligned_cols=50 Identities=16% Similarity=0.275 Sum_probs=42.6
Q ss_pred ceeEEEecccccCC-CCCCCChhhhhcceeeeccCC-hHHHHHHHHHHHHHHH
Q psy4384 512 SKVYTLNPTFRAEN-SKSRLHLAEFYMIEAELAFLD-NIHDLCNTIEQFIKSV 562 (661)
Q Consensus 512 ~rVyeIg~~FRaE~-s~t~RHl~EFtmLE~e~a~~d-~~~dlm~~~E~Li~~i 562 (661)
-|+|+||+|||+|. .|. +|+++|.++|.-.+..+ ++.+++..++.|++++
T Consensus 208 iRIFsIGRVfRrD~~~Da-THl~eFhQlEGLVVdedVSf~DLKgvLe~LLr~L 259 (533)
T TIGR00470 208 LKLFSIDRCFRREQREDR-SHLMTYHSASCVVVDEEVSVDDGKAVAEGLLAQF 259 (533)
T ss_pred eEEEeeeeEEecCCCCCC-ccCceeeeEEEEEECCCCCHHHHHHHHHHHHHHh
Confidence 48999999999996 454 59999999998887744 4899999999999887
No 68
>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=94.34 E-value=0.067 Score=52.02 Aligned_cols=49 Identities=22% Similarity=0.327 Sum_probs=37.5
Q ss_pred eeEEEecccccCCCC--CCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSK--SRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVL 563 (661)
Q Consensus 513 rVyeIg~~FRaE~s~--t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~ 563 (661)
++|+||++||+|... +-..+-||+|.|.+....+ ++..+..++++..+.
T Consensus 85 ~~~~~g~~fR~E~~~~~gl~R~reF~~~e~~~f~~~--~~~~~~~~~~~~~~~ 135 (173)
T PF00587_consen 85 KLYQIGTCFRNEARPTRGLFRLREFTMDEMHIFCTP--EQSEEEFEELLELYK 135 (173)
T ss_dssp EEEEEEEEEBSSSSSBSTTTS-SEEEEEEEEEEESS--HHHHHHHHHHHHHHH
T ss_pred EEeecccccccccccccccceeeEeeeeceEEEeCC--cccHHHHHHHHHHHH
Confidence 789999999999422 2557889999999997765 777777777765554
No 69
>cd00778 ProRS_core_arch_euk Prolyl-tRNA synthetase (ProRS) class II core catalytic domain. ProRS is a homodimer. It is responsible for the attachment of proline to the 3' OH group of ribose of the appropriate tRNA. This domain is primarily responsible for ATP-dependent formation of the enzyme bound aminoacyl-adenylate. Class II assignment is based upon its structure and the presence of three characteristic sequence motifs in the core domain. This subfamily contains the core domain of ProRS from archaea, the cytoplasm of eukaryotes and some bacteria.
Probab=91.95 E-value=0.097 Score=54.69 Aligned_cols=49 Identities=22% Similarity=0.243 Sum_probs=39.3
Q ss_pred eeEEEecccccCCCCCC--CChhhhhcceeeeccCChHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSR--LHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSV 562 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~--RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i 562 (661)
++|+|+++||+|..++. .=.-||+|.|.+.++++ .+++.+..++++...
T Consensus 121 r~~~~~~~fR~E~~~~~Gl~R~reF~~~d~h~~~~~-~e~~~~~~~~~~~~~ 171 (261)
T cd00778 121 KINQWVNVFRWETKTTRPFLRTREFLWQEGHTAHAT-EEEAEEEVLQILDLY 171 (261)
T ss_pred HHHhhhhhccCCCCCCCceeEeeeeeeeceeeccCC-HHHHHHHHHHHHHHH
Confidence 56999999999997631 12459999999999998 888888888876544
No 70
>PF00250 Fork_head: Fork head domain; InterPro: IPR001766 The fork head protein of Drosophila melanogaster, a transcription factor that promotes terminal rather than segmental development, contains neither homeodomains nor zinc-fingers characteristic of other transcription factors []. Instead, it contains a distinct type of DNA-binding region, containing around 100 amino acids, which has since been identified in a number of transcription factors (including D. melanogaster FD1-5, mammalian HNF-3, human HTLF, Saccharomyces cerevisiae HCM1, etc.). This is referred to as the fork head domain but is also known as a 'winged helix' [, , ]. The fork head domain binds B-DNA as a monomer [], but shows no similarity to previously identified DNA-binding motifs. Although the domain is found in several different transcription factors, a common function is their involvement in early developmental decisions of cell fates during embryogenesis [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 2UZK_A 2K86_A 1JXS_A 2C6Y_A 2A3S_A 2D2W_A 2KIU_A 1VTN_C 2A07_J 2AS5_F ....
Probab=89.22 E-value=0.75 Score=40.73 Aligned_cols=70 Identities=14% Similarity=0.174 Sum_probs=50.4
Q ss_pred cCChHHHHHHHhhhccccccccCCCccccccccccHHHHHhchhhccCCCccccchHHHHHHHHHhcCCCceEeecCC--
Q psy4384 58 QAMFPQMCITAIGNLMQTSIKEGNPRFTFSKEKEIIPFIEAHWDGMTTTPRRVTQSWHLTILRALAKETNVLFTCNES-- 135 (661)
Q Consensus 58 ~~~w~~~~~laLynL~~~~~~~~~~k~yF~~~~dI~~fi~~~W~~L~~~~r~~~~~w~~~i~~~L~~~~~~~F~~g~~-- 135 (661)
+.+++.|+.+||-|-. .+.-.+. +|+.||.+||..... ....|++.|--.||.+ ..|+.-..
T Consensus 3 p~sY~~LI~~Ai~~sp---------~~~Ltl~-eIy~~i~~~~pyyr~----~~~~WknSIRHnLS~~--~~F~kv~~~~ 66 (96)
T PF00250_consen 3 PYSYATLIAMAILSSP---------DKRLTLS-EIYEWIEENFPYYRD----ASKGWKNSIRHNLSLN--KCFVKVPRDP 66 (96)
T ss_dssp SS-HHHHHHHHHHTST---------TSEBEHH-HHHHHHHHHCGHHHC----THCHHHHHHHHHHHHS--TTEEEESCCT
T ss_pred CCcHHHHHHHHHHhCC---------CCCccHH-HHHHHHHHhhccccc----cchhhhhHHhhhcccc--ceeeecCcCC
Confidence 4678999999998832 2223355 999999999999863 3469999999999987 68853222
Q ss_pred ---cc--eeeecC
Q psy4384 136 ---QE--QYGLID 143 (661)
Q Consensus 136 ---~~--~w~L~~ 143 (661)
.+ +|.|..
T Consensus 67 ~~~gkg~~W~i~~ 79 (96)
T PF00250_consen 67 SEPGKGSYWTIDP 79 (96)
T ss_dssp SSSSSSEEEEE-C
T ss_pred CCCCCceeEEeCH
Confidence 22 888864
No 71
>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=89.17 E-value=0.51 Score=47.82 Aligned_cols=47 Identities=17% Similarity=0.250 Sum_probs=32.3
Q ss_pred eeEEEecccccCCCCC--CCChhhhhcceeeeccCChHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKS--RLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKS 561 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t--~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~ 561 (661)
++|+++++||+|.... ..-+-||+|.|++....+ ++..+..++++..
T Consensus 90 r~~~~g~~fR~E~~~~~gl~R~reF~q~e~~~~~~~--~~~~~~~~e~~~~ 138 (235)
T cd00670 90 RLDQIGPCFRHEPSGRRGLMRVREFRQVEYVVFGEP--EEAEEERREWLEL 138 (235)
T ss_pred eeeeecccccCCCCCCCCChhheeeeeceEEEEcCH--HHHHHHHHHHHHH
Confidence 7899999999998752 224579999999997654 2333434444433
No 72
>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=88.00 E-value=0.54 Score=52.00 Aligned_cols=35 Identities=26% Similarity=0.395 Sum_probs=29.9
Q ss_pred ceeEEEecccccCCCCCCCChhhhhcceeeeccCCh
Q psy4384 512 SKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDN 547 (661)
Q Consensus 512 ~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~ 547 (661)
-|+|++++|||+|..+.. |.-||+|+++|....++
T Consensus 98 ~r~~y~g~vfR~e~~~~g-r~ref~Q~g~eiig~~~ 132 (397)
T TIGR00442 98 FKLYYIGPMFRYERPQKG-RYRQFHQFGVEVIGSDS 132 (397)
T ss_pred eEEEEEcCeecCCCCCCC-cccceEEcCeeeeCCCC
Confidence 489999999999987655 67999999999987663
No 73
>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=87.15 E-value=0.69 Score=48.13 Aligned_cols=35 Identities=31% Similarity=0.487 Sum_probs=29.8
Q ss_pred cceeEEEecccccCCCCCCCChhhhhcceeeeccCC
Q psy4384 511 LSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLD 546 (661)
Q Consensus 511 ~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d 546 (661)
--|.|+++++||.|.... .|..||+|+++|.-..+
T Consensus 82 p~k~~y~g~vfR~e~~~~-g~~re~~Q~g~Eiig~~ 116 (261)
T cd00773 82 PLKLYYIGPVFRYERPQK-GRYREFYQVGVEIIGSD 116 (261)
T ss_pred CeEEEEEcCEEecCCCCC-CCccceEEeceeeeCCC
Confidence 348999999999999763 48899999999997765
No 74
>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=87.12 E-value=1 Score=47.18 Aligned_cols=49 Identities=16% Similarity=0.188 Sum_probs=37.3
Q ss_pred eeEEEecccccCCCCCCC--ChhhhhcceeeeccCChHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSRL--HLAEFYMIEAELAFLDNIHDLCNTIEQFIKSV 562 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~R--Hl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i 562 (661)
++|+++++||.|...++= =.-||+|.|.+...++ -++..+.+++++...
T Consensus 121 rl~~~~~~fR~E~r~~~Gl~R~reF~~~e~~~~~~~-~e~a~~e~~~~~~~~ 171 (264)
T cd00772 121 HLNQIGNKFRDEIRPRFGFLRAREFIMKDGHSAHAD-AEEADEEFLNMLSAY 171 (264)
T ss_pred eEEEEeCeEeCcCCCCCCcceeeEEEEeeeEEecCC-HHHHHHHHHHHHHHH
Confidence 789999999999643210 2469999999987777 788888887777444
No 75
>PRK00037 hisS histidyl-tRNA synthetase; Reviewed
Probab=86.84 E-value=0.62 Score=51.73 Aligned_cols=35 Identities=26% Similarity=0.365 Sum_probs=29.4
Q ss_pred cceeEEEecccccCCCCCCCChhhhhcceeeeccCC
Q psy4384 511 LSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLD 546 (661)
Q Consensus 511 ~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d 546 (661)
--|.|++|++||+|..+.. |.-||+|+++|.-..+
T Consensus 98 p~r~~~~g~vfR~e~~~~g-r~ref~Q~g~ei~g~~ 132 (412)
T PRK00037 98 PFKLYYIGPMFRYERPQKG-RYRQFHQFGVEVIGSD 132 (412)
T ss_pred CeEEEEEcCccccCCCCCC-cccceEEcCeeeeCCC
Confidence 3489999999999987654 7789999999986655
No 76
>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=83.79 E-value=0.79 Score=47.73 Aligned_cols=49 Identities=24% Similarity=0.250 Sum_probs=35.3
Q ss_pred eeEEEecccccCCCCCCC--ChhhhhcceeeeccCChHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSRL--HLAEFYMIEAELAFLDNIHDLCNTIEQFIKSV 562 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~R--Hl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i 562 (661)
++|+++++||+|.....= =.-||+|.|.+....+ -.+.....++++...
T Consensus 115 r~~~~~~~FR~E~~~~~Gl~R~reF~q~e~~~~~~~-~~~a~~~~~~i~~~~ 165 (255)
T cd00779 115 NLYQIQTKFRDEIRPRFGLMRGREFLMKDAYSFDID-EESLEETYEKMYQAY 165 (255)
T ss_pred HHHhCcceecCCCCCCCceeeeeeEeHhhheeccCC-HHHHHHHHHHHHHHH
Confidence 789999999999432210 2469999999998886 556666666665443
No 77
>PRK12444 threonyl-tRNA synthetase; Reviewed
Probab=83.77 E-value=1.3 Score=52.36 Aligned_cols=49 Identities=14% Similarity=0.214 Sum_probs=36.1
Q ss_pred eeEEEecccccCCCCCCC---ChhhhhcceeeeccCChHHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSRL---HLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVL 563 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~R---Hl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~ 563 (661)
|.|++|++||.|.+.+++ =.-||+|.|++ .|++ -+++...+++++..+.
T Consensus 357 r~~~~g~~fR~E~~~~~~Gl~R~reF~q~d~~-~f~~-~~~~~~e~~~~~~~~~ 408 (639)
T PRK12444 357 RMCEFGQVHRHEFSGALNGLLRVRTFCQDDAH-LFVT-PDQIEDEIKSVMAQID 408 (639)
T ss_pred eeEEeccccCCCCCcCCcCcceeeeeEEccEE-EECC-HHHHHHHHHHHHHHHH
Confidence 789999999999975310 23599999999 6777 5677776666665543
No 78
>PRK08661 prolyl-tRNA synthetase; Provisional
Probab=81.85 E-value=1.1 Score=51.04 Aligned_cols=48 Identities=17% Similarity=0.113 Sum_probs=39.1
Q ss_pred eeEEEecccccCCCCCC--CChhhhhcceeeeccCChHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSR--LHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSV 562 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~--RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i 562 (661)
++|+++++||+|.. ++ -=.-||+|.|.+.++++ .++..+.+++++...
T Consensus 133 rl~q~~~vfR~E~~-~rgl~R~rEF~~~E~h~~~~~-~eea~~e~~~~l~~y 182 (477)
T PRK08661 133 LYNQWVNVVRWETK-TRPFLRTREFLWQEGHTAHAT-EEEAEEETLEMLEIY 182 (477)
T ss_pred HHhcccceeeCCCC-CCCcceeeeEEEcceeeeeCC-HHHHHHHHHHHHHHH
Confidence 56899999999996 43 24579999999999998 888888888777543
No 79
>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=80.36 E-value=2.2 Score=45.42 Aligned_cols=48 Identities=13% Similarity=0.173 Sum_probs=31.7
Q ss_pred eeEEEecccccCCCCCCC---ChhhhhcceeeeccCChHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSRL---HLAEFYMIEAELAFLDNIHDLCNTIEQFIKSV 562 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~R---Hl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i 562 (661)
|+|++++|||+|.+...+ =.-||+|.|.+..... ++..+.+++++..+
T Consensus 113 r~~~~g~vfR~E~~~~~~Gl~R~reF~q~e~~i~~~~--e~~~~e~~e~l~~~ 163 (298)
T cd00771 113 RLAEFGTVHRYEQSGALHGLTRVRGFTQDDAHIFCTP--DQIKEEIKGVLDLI 163 (298)
T ss_pred EEEEecCcccCCCCCCCCCccccccEEECCEEEEeCC--cchHHHHHHHHHHH
Confidence 789999999999875211 2359999999986433 44444444444433
No 80
>KOG2752|consensus
Probab=80.19 E-value=0.73 Score=48.59 Aligned_cols=23 Identities=39% Similarity=0.843 Sum_probs=20.2
Q ss_pred CccccceEecccccchhh-Hhhhc
Q psy4384 4 RNFNLIELFCANCKCWFH-ESCIS 26 (661)
Q Consensus 4 ~~~~~~~lqC~~C~~wfH-~~C~~ 26 (661)
|+-...|+||.+|.-||| ..|.+
T Consensus 142 ~~~e~~m~QC~iCEDWFHce~c~~ 165 (345)
T KOG2752|consen 142 RTEEGEMLQCVICEDWFHCEGCMQ 165 (345)
T ss_pred ccccceeeeEEeccchhcccccCc
Confidence 667789999999999999 77777
No 81
>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=79.24 E-value=0.97 Score=47.02 Aligned_cols=34 Identities=26% Similarity=0.274 Sum_probs=26.4
Q ss_pred eeEEEecccccCCCCC--CCChhhhhcceeeeccCC
Q psy4384 513 KVYTLNPTFRAENSKS--RLHLAEFYMIEAELAFLD 546 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t--~RHl~EFtmLE~e~a~~d 546 (661)
++|+||++||+|.+.. --=.-||||.|+|.-..+
T Consensus 109 ~~~qig~~fR~E~~~~~gl~R~ReF~q~d~~~f~~~ 144 (254)
T cd00774 109 GVAQIGKSFRNEISPRNGLFRVREFTQAEIEFFVDP 144 (254)
T ss_pred hhhhhchhhccccCcccceeeeccchhhheeeeECC
Confidence 7899999999998643 013569999999986543
No 82
>PRK12305 thrS threonyl-tRNA synthetase; Reviewed
Probab=78.49 E-value=2.5 Score=49.15 Aligned_cols=50 Identities=18% Similarity=0.268 Sum_probs=35.8
Q ss_pred eeEEEecccccCCCCCCC---ChhhhhcceeeeccCChHHHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSRL---HLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLN 564 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~R---Hl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~ 564 (661)
|.|++|++||+|.+...+ =.-||+|.|++. |+. -+...+.+++++..+.+
T Consensus 290 r~~~~g~~fR~E~~~~~~Gl~R~reF~q~~~~i-f~~-~~~~~~e~~e~i~l~~~ 342 (575)
T PRK12305 290 RLAEFGTVYRYEKSGVLHGLTRVRGFTQDDAHI-FCT-PDQIEDEILKVLDFVLE 342 (575)
T ss_pred hhEEecccccCCCCCCCcCcccccCeEEcceEE-EeC-HHHHHHHHHHHHHHHHH
Confidence 789999999999874211 235999999995 655 56666666666655544
No 83
>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=78.42 E-value=1.7 Score=46.42 Aligned_cols=49 Identities=20% Similarity=0.327 Sum_probs=34.7
Q ss_pred eeEEEecccccCCCC------CCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSK------SRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVL 563 (661)
Q Consensus 513 rVyeIg~~FRaE~s~------t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~ 563 (661)
++|+++++||+|... .-.-.-||+|.|.+ .|+. -++..+..++++..+.
T Consensus 133 r~~~~~~~fR~E~~~~g~~~~GL~R~reF~~~e~~-~f~~-~e~~~~~~~~~l~~~~ 187 (297)
T cd00770 133 KYAGYSPCFRKEAGSAGRDTRGLFRVHQFEKVEQF-VFTK-PEESWEELEELISNAE 187 (297)
T ss_pred hheecChhHhCccccCCCCCCCceEEEeeeeeeEE-EEEC-chHHHHHHHHHHHHHH
Confidence 679999999999762 22245799999997 4665 3666666666665543
No 84
>PRK12293 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=78.25 E-value=2.3 Score=44.95 Aligned_cols=44 Identities=25% Similarity=0.465 Sum_probs=33.1
Q ss_pred ceeEEEecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHH
Q psy4384 512 SKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSV 562 (661)
Q Consensus 512 ~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i 562 (661)
-|.|++|+|||.|. .||+++.+|.-+.++..+++.++-+.++.+
T Consensus 96 ~r~~Y~g~vfR~~~-------rEf~Q~GvEliG~~~~~Evi~la~~~l~~l 139 (281)
T PRK12293 96 KKWFYIQPVFRYPS-------NEIYQIGAELIGEEDLSEILNIAAEIFEEL 139 (281)
T ss_pred eeEEEeccEEecCC-------CcccccCeEeeCCCCHHHHHHHHHHHHHHc
Confidence 38999999999984 499999999999886655555544444433
No 85
>PF07177 Neuralized: Neuralized; InterPro: IPR006573 NEUZ is a domain of unknown function found in neuralized proteins, i.e. proteins involved in the specification of the neuroblast during cellular differentiation. ; PDB: 2YUE_A 2E63_A.
Probab=77.57 E-value=7.6 Score=32.24 Aligned_cols=55 Identities=18% Similarity=0.270 Sum_probs=33.1
Q ss_pred CCCCeEEeCCCcEEEeCCCe--eEEEEeEEEeCCeEEEEEEEEee--CCCCcEEEEEeCC
Q psy4384 271 RAPQLRISEDRLAVTGDKGY--CMVRATNYVGHGTWYWEATIEEM--PEGSATRMGWGQE 326 (661)
Q Consensus 271 r~~~l~ls~d~l~v~~~~g~--~~vRa~~~v~~G~~YfEv~i~~~--~~~~~vriG~a~~ 326 (661)
+..+|.|++|+.+++...+| .-|-++.|+..|. -|||+|++. .-.|.++||+.+.
T Consensus 9 ~G~nV~L~~~~~~A~R~~sf~~giVFS~rPl~~~E-~~~v~I~~~~~~wsG~L~~GvT~~ 67 (69)
T PF07177_consen 9 HGKNVRLSNDGTVARRVSSFNNGIVFSSRPLRIGE-KFEVRIDEVEPSWSGSLRIGVTSC 67 (69)
T ss_dssp E-TTEEE-SSS-EEEEST-SSS-EEEESS-B-TT--EEEEEEEEE-SSSSS--EEEEESS
T ss_pred cCCCEEEcCCCeEEEecccCCceEEEecCCccCCC-EEEEEEEecCCCceeEEEEeeEcc
Confidence 68899999999999865444 4678899998874 245666554 3468999999764
No 86
>TIGR00408 proS_fam_I prolyl-tRNA synthetase, family I. Prolyl-tRNA synthetase is a class II tRNA synthetase and is recognized by pfam model tRNA-synt_2b, which recognizes tRNA synthetases for Gly, His, Ser, and Pro. The prolyl-tRNA synthetases are divided into two widely divergent families. This family includes the archaeal enzyme, the Pro-specific domain of a human multifunctional tRNA ligase, and the enzyme from the spirochete Borrelia burgdorferi. The other family includes enzymes from Escherichia coli, Bacillus subtilis, Synechocystis PCC6803, and one of the two prolyL-tRNA synthetases of Saccharomyces cerevisiae.
Probab=77.47 E-value=1.6 Score=49.61 Aligned_cols=50 Identities=22% Similarity=0.222 Sum_probs=39.5
Q ss_pred eeEEEecccccCCCCCC--CChhhhhcceeeeccCChHHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSR--LHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVL 563 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~--RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~ 563 (661)
++|+|+++||+|.+.++ -=..||+|.|.+.++++ .++..+.++.++....
T Consensus 127 r~~q~~~vfR~E~~~~~gl~R~rEF~~~e~h~~~~~-~e~a~~e~~~~l~~y~ 178 (472)
T TIGR00408 127 KINQWVNVFRYETKHTRPFLRTREFTWQEAHTAHAT-AEEAEEQVLRALDIYK 178 (472)
T ss_pred HHhheeeeecCCCCCCCCcceeeeeehhhhhhhhCC-HHHHHHHHHHHHHHHH
Confidence 67899999999997531 13469999999999998 8888888887775443
No 87
>PRK09194 prolyl-tRNA synthetase; Provisional
Probab=76.81 E-value=3.7 Score=47.81 Aligned_cols=46 Identities=24% Similarity=0.233 Sum_probs=32.4
Q ss_pred eeEEEecccccCCCCCCC--ChhhhhcceeeeccCChHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSRL--HLAEFYMIEAELAFLDNIHDLCNTIEQFI 559 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~R--Hl~EFtmLE~e~a~~d~~~dlm~~~E~Li 559 (661)
+.|+|+++||.|.....= =.-||+|.|.|....+ -++.....++++
T Consensus 131 r~yqi~~~fR~E~rp~~Gl~R~reF~q~d~~~f~~~-~~~a~~~~~~~~ 178 (565)
T PRK09194 131 NLYQIQTKFRDEIRPRFGLMRGREFIMKDAYSFHAD-EESLDETYDAMY 178 (565)
T ss_pred EEEEeeCCccCCCCCCCcccccccEEEeeEEEEcCC-hHHHHHHHHHHH
Confidence 789999999999422110 2469999999998876 455554555555
No 88
>PRK12292 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=76.70 E-value=2.7 Score=46.52 Aligned_cols=48 Identities=17% Similarity=0.140 Sum_probs=34.5
Q ss_pred ceeEEEecccccCCCCCCCChhhhhcceeeeccCChH---HHHHHHHHHHHH
Q psy4384 512 SKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNI---HDLCNTIEQFIK 560 (661)
Q Consensus 512 ~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~---~dlm~~~E~Li~ 560 (661)
-|.|++|+|||.|..... +.-||+++.+|.-..++. -+++.++-++++
T Consensus 99 ~r~~y~g~vfR~~~~~~g-r~ref~Q~g~EiiG~~~~~aDaEvi~l~~~~l~ 149 (391)
T PRK12292 99 LRLCYAGNVFRAQERGLG-RSREFLQSGVELIGDAGLEADAEVILLLLEALK 149 (391)
T ss_pred eEEEeeceeeecCCCcCC-CccchhccceEEeCCCCchHHHHHHHHHHHHHH
Confidence 389999999999986544 678999999999776643 244444444433
No 89
>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=76.15 E-value=3.1 Score=48.32 Aligned_cols=46 Identities=13% Similarity=0.172 Sum_probs=30.2
Q ss_pred eeEEEecccccCCCCCC---CChhhhhcceeeeccCChHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSR---LHLAEFYMIEAELAFLDNIHDLCNTIEQFIK 560 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~---RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~ 560 (661)
|+|++|++||+|.+..+ .=.-||+|.|+|.-.. -++.....++++.
T Consensus 284 rl~~~g~~fR~E~~g~~~Gl~R~reF~q~~~~~~~~--~~~~~~e~~~~i~ 332 (563)
T TIGR00418 284 RIAELGYSHRYEQSGELHGLMRVRGFTQDDAHIFCT--EDQIKEEFKNQFR 332 (563)
T ss_pred eeeEeccccCCCCCcCCcCcccccceEEeeeEEEcC--HHHHHHHHHHHHH
Confidence 78999999999975410 0235999999998544 2444444344433
No 90
>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=76.05 E-value=4 Score=47.59 Aligned_cols=46 Identities=24% Similarity=0.275 Sum_probs=33.0
Q ss_pred eeEEEecccccCCCCCC--CChhhhhcceeeeccCChHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSR--LHLAEFYMIEAELAFLDNIHDLCNTIEQFI 559 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~--RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li 559 (661)
++|+|+++||.|.-... -=.-||+|.|.|....+ .+++....+.++
T Consensus 131 rlyqi~~~fR~E~rpr~Gl~R~REF~~~d~~~f~~~-~~~a~~e~~~~~ 178 (568)
T TIGR00409 131 NLYQIQTKFRDEIRPRFGLMRGREFIMKDAYSFHSD-EESLDATYQKMY 178 (568)
T ss_pred EEEEeeCEeeCCCCCCCCccccccEEEEEEEEEeCC-hHHHHHHHHHHH
Confidence 88999999999942110 02359999999998876 566655666554
No 91
>PLN02908 threonyl-tRNA synthetase
Probab=75.76 E-value=3.2 Score=49.48 Aligned_cols=50 Identities=12% Similarity=0.151 Sum_probs=39.1
Q ss_pred eeEEEecccccCCCCC---CCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKS---RLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLN 564 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t---~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~ 564 (661)
|+|++|++||+|.+.. -.=.-||+|.|.+. |+. -+++++.+++++..+.+
T Consensus 404 r~~~~g~~fR~E~~~~l~Gl~RvReF~q~d~~i-f~~-~~q~~~e~~~~l~~~~~ 456 (686)
T PLN02908 404 RLADFGVLHRNELSGALTGLTRVRRFQQDDAHI-FCR-EDQIKDEVKGVLDFLDY 456 (686)
T ss_pred hHEEeeccccCCCCcCCcCccccccEEEeeEEE-EcC-HHHHHHHHHHHHHHHHH
Confidence 7899999999999842 11345999999999 776 68888888887766654
No 92
>PLN02837 threonine-tRNA ligase
Probab=75.34 E-value=3.3 Score=48.71 Aligned_cols=50 Identities=20% Similarity=0.230 Sum_probs=38.4
Q ss_pred eeEEEecccccCCCCCC---CChhhhhcceeeeccCChHHHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSR---LHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLN 564 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~---RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~ 564 (661)
++++++++||+|.+... .=.-||+|.|.+. |+. -++..+.+++++..+-+
T Consensus 331 r~~~~~~~~R~E~~g~~~GL~RvreF~~~e~h~-f~~-~~q~~~e~~~~l~~~~~ 383 (614)
T PLN02837 331 RVAELGTVYRYELSGSLHGLFRVRGFTQDDAHI-FCL-EDQIKDEIRGVLDLTEE 383 (614)
T ss_pred hhEeecccccCCCCCCCcCcccccceEECeEEE-EeC-HHHHHHHHHHHHHHHHH
Confidence 57899999999987431 1245899999996 987 68888888887765543
No 93
>PF13831 PHD_2: PHD-finger; PDB: 2L43_A 2KU3_A.
Probab=74.16 E-value=0.94 Score=32.69 Aligned_cols=22 Identities=36% Similarity=0.665 Sum_probs=16.0
Q ss_pred cceEecccccchhhHhhhcccc
Q psy4384 8 LIELFCANCKCWFHESCISYQI 29 (661)
Q Consensus 8 ~~~lqC~~C~~wfH~~C~~~~~ 29 (661)
..+|+|+.|.-.+|.+|=....
T Consensus 2 n~ll~C~~C~v~VH~~CYGv~~ 23 (36)
T PF13831_consen 2 NPLLFCDNCNVAVHQSCYGVSE 23 (36)
T ss_dssp CEEEE-SSS--EEEHHHHT-SS
T ss_pred CceEEeCCCCCcCChhhCCccc
Confidence 4799999999999999998765
No 94
>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=73.72 E-value=3.6 Score=44.07 Aligned_cols=36 Identities=19% Similarity=0.153 Sum_probs=29.8
Q ss_pred cceeEEEecccccCCCCCCCChhhhhcceeeeccCCh
Q psy4384 511 LSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDN 547 (661)
Q Consensus 511 ~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~ 547 (661)
--|+|++|+|||.|..... +.-||+++.+|.-..++
T Consensus 87 p~r~~y~g~VfR~~~~~~g-r~re~~Q~g~Eiig~~~ 122 (314)
T TIGR00443 87 PLRLCYAGNVFRTNESGAG-RSREFTQAGVELIGAGG 122 (314)
T ss_pred CeEEEEeceEeecCCCcCC-CcccccccceEEeCCCC
Confidence 3489999999999997644 78999999999866553
No 95
>KOG2242|consensus
Probab=73.51 E-value=3 Score=48.29 Aligned_cols=84 Identities=12% Similarity=0.000 Sum_probs=67.5
Q ss_pred CccEEEEcCCCcEEeCCCCcccCCCCCCCCEEEEEeeCCCCCCCCCCCCccCCccccccccccchhccchhhHHHhhccc
Q psy4384 338 KFGYSWRSRKGTRFHECRGKHYSEGYSEGDTLGFLIHLPYRNQNSYVPRTFKDKPLVKFKCHLYYEEKDKVTEALKRLQT 417 (661)
Q Consensus 338 ~~syg~~~~~G~~~h~s~~~~yg~~~~~GDVIG~~i~l~~~~~~~~~~~~~~d~~~i~~k~~~~~e~~d~~~~~~~~~~~ 417 (661)
.++|.+......++|.+. ..|+..+.. |+|+|.+++.-
T Consensus 8 ~~~~~~~~~~~~~~~~~~-~~~~~~~~~-~~~~~~d~~~c---------------------------------------- 45 (558)
T KOG2242|consen 8 GFSYFEDGEDRRAWSPQP-PAEEDEWHF-DTIVCIDTYNC---------------------------------------- 45 (558)
T ss_pred ccccccccchhhhccCCC-Ccccccccc-ceeeechhhhh----------------------------------------
Confidence 678888777777776554 568888888 99999998866
Q ss_pred CCCcEEEEEECCeeccccceecc-C---CceEEEEEecCCcEEEEeCCC-CCCCC
Q psy4384 418 LDQSQIVFYKNGKSQGVAFQDIY-A---GYYYPCVSLHKNCTVSVNFGP-HFKHA 467 (661)
Q Consensus 418 ~~~s~I~f~kNG~~~G~AF~~i~-~---g~yyPavSl~~g~~v~~NFG~-~F~~~ 467 (661)
-.+ ++.|+...|.||.-.. . -..+||+|+..+..+-.++++ +|+++
T Consensus 46 ---~~~-~~~~~~~~~~~~~~e~~~~~~~~~r~a~~~~~~~~~~~~~~~e~~~~~ 96 (558)
T KOG2242|consen 46 ---DLH-KYRRDRSSGYALTKERFAGPWDGARAAYSVSRGEVCFEMRINEPEEVP 96 (558)
T ss_pred ---hhh-hcccccccccccchhhccccCcccceeeeecCCcchhhcccccccccC
Confidence 345 8889999998887432 2 289999999999999999999 88887
No 96
>PRK04173 glycyl-tRNA synthetase; Provisional
Probab=73.48 E-value=3.5 Score=46.74 Aligned_cols=49 Identities=22% Similarity=0.250 Sum_probs=36.6
Q ss_pred eeEEEecccccCCCCCCCCh---hhhhcceeeeccCChHHHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSRLHL---AEFYMIEAELAFLDNIHDLCNTIEQFIKSVLN 564 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~RHl---~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~ 564 (661)
++.|+|++||+|-+. ..-| -|||+.|.+ .|++ -+++.+.+..++..+..
T Consensus 188 r~aq~g~~~RnE~s~-~~gL~RvReF~q~e~h-iF~~-peq~~~e~~~~l~~~~~ 239 (456)
T PRK04173 188 GIAQIGKSFRNEITP-RNFIFRTREFEQMELE-FFVK-PGTDNEWFAYWIELRKN 239 (456)
T ss_pred eeeEEchhHhCccCC-CCCceeeceeeeeEEE-EEEC-cChHHHHHHHHHHHHHH
Confidence 678999999999874 3222 899999997 6877 67777776666655543
No 97
>PRK00413 thrS threonyl-tRNA synthetase; Reviewed
Probab=72.71 E-value=4.9 Score=47.37 Aligned_cols=48 Identities=15% Similarity=0.236 Sum_probs=31.6
Q ss_pred eeEEEecccccCCCCCCC---ChhhhhcceeeeccCChHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSRL---HLAEFYMIEAELAFLDNIHDLCNTIEQFIKSV 562 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~R---Hl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i 562 (661)
|.|++|++||+|.+...+ =.-||+|.|++. |.. -+...+.+.++|.-+
T Consensus 354 r~~~~g~~fR~E~~~~~~Gl~R~reF~q~~~~~-~g~-~~~~~~e~~eii~l~ 404 (638)
T PRK00413 354 RLAEFGTVHRYEPSGALHGLMRVRGFTQDDAHI-FCT-PEQIEEEVKKVIDLI 404 (638)
T ss_pred eeeeccCeecCCCCCCCcCcceeeeeEEeeEEE-EcC-HHHHHHHHHHHHHHH
Confidence 889999999999975211 125999999998 544 344444444444433
No 98
>PRK05431 seryl-tRNA synthetase; Provisional
Probab=72.43 E-value=4.4 Score=45.50 Aligned_cols=50 Identities=20% Similarity=0.350 Sum_probs=37.0
Q ss_pred eeEEEecccccCCCCC---C---CChhhhhcceeeeccCChHHHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKS---R---LHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLN 564 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t---~---RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~ 564 (661)
++|++++|||.|.... + .=.-||+|.|.+ .|+. -++..+..++++..+.+
T Consensus 252 r~~~~s~~fR~Eag~~g~~~~GL~Rv~qF~k~E~~-~f~~-~e~s~~~~~~~l~~~~~ 307 (425)
T PRK05431 252 KYTAYSPCFRSEAGSAGRDTRGLIRVHQFDKVELV-KFTK-PEDSYAELEELTANAEE 307 (425)
T ss_pred eEEEEcCEecCCCCcCCCCCCceeeeeeeeeeeEE-EEEC-HHHHHHHHHHHHHHHHH
Confidence 6799999999998431 0 123599999999 6776 58888888877765543
No 99
>PRK12325 prolyl-tRNA synthetase; Provisional
Probab=72.20 E-value=4.6 Score=45.53 Aligned_cols=50 Identities=22% Similarity=0.227 Sum_probs=36.7
Q ss_pred eeEEEecccccCCCCCC--CChhhhhcceeeeccCChHHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSR--LHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVL 563 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~--RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~ 563 (661)
|+|+|+++||+|..... .=.-||+|-|+|....+ .+++.+..++++....
T Consensus 131 rl~q~~~~fR~E~~~~~GL~R~reF~~~D~h~f~~~-~~~a~~~~~~~~~~~~ 182 (439)
T PRK12325 131 NLYHIQWKFRDEIRPRFGVMRGREFLMKDAYSFDLD-EEGARHSYNRMFVAYL 182 (439)
T ss_pred HheEecCEecCCCCCCCCccccceEeEeccEEEeCC-HHHHHHHHHHHHHHHH
Confidence 67999999999964310 02579999999998787 6777776666654443
No 100
>PRK03991 threonyl-tRNA synthetase; Validated
Probab=71.95 E-value=4.2 Score=47.77 Aligned_cols=51 Identities=24% Similarity=0.354 Sum_probs=40.3
Q ss_pred eeEEEec-ccccCCCCC---CCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNP-TFRAENSKS---RLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLN 564 (661)
Q Consensus 513 rVyeIg~-~FRaE~s~t---~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~ 564 (661)
|+|++++ +||+|.+.. -.=+-||||.|.+..-.+ .++.++.+++++..+.+
T Consensus 310 r~~e~~~~~fR~E~~g~l~GL~RvReF~~~D~h~f~~~-~eqa~~e~~~~l~~~~~ 364 (613)
T PRK03991 310 KMYELSTYSFRLEQRGELVGLKRLRAFTMPDMHTLCKD-MEQAMEEFEKQYEMILE 364 (613)
T ss_pred hhheecchheeCCCCCCCcCcccccceEeeeEEEEECC-HHHHHHHHHHHHHHHHH
Confidence 5789999 999998643 123569999999986665 78999998888877654
No 101
>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=69.30 E-value=6.5 Score=44.08 Aligned_cols=50 Identities=18% Similarity=0.350 Sum_probs=36.3
Q ss_pred eeEEEecccccCCCC------CCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSK------SRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLN 564 (661)
Q Consensus 513 rVyeIg~~FRaE~s~------t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~ 564 (661)
++|++++|||+|... +-.=.-||+|.|. ..|+. -++.++..++++....+
T Consensus 254 r~~~~s~~FR~E~g~~G~~t~GL~Rv~qF~k~E~-~~f~~-~e~s~~~~~~~~~~~~~ 309 (418)
T TIGR00414 254 KYTAHSPCFRSEAGSYGKDTKGLIRVHQFNKVEL-VKFCK-PEESAEELEEMTSDAEQ 309 (418)
T ss_pred eEEEEcccccCCCCccCCCCCccccccceeeeeE-EEEcC-HHHHHHHHHHHHHHHHH
Confidence 679999999999742 1112459999999 56776 57778887777765543
No 102
>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=68.36 E-value=6.2 Score=41.94 Aligned_cols=51 Identities=18% Similarity=0.328 Sum_probs=37.8
Q ss_pred cccceeEEEecccccCCCCCCCChhhhhcceeeeccCChHH---HHHHHHHHHHH
Q psy4384 509 LSLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIH---DLCNTIEQFIK 560 (661)
Q Consensus 509 ~g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~---dlm~~~E~Li~ 560 (661)
....|+|++|++||.+..... +.-||+++.+|.-..++.. +++.++-+++.
T Consensus 86 ~~~~r~~y~g~vfR~~~~~~g-~~re~~Q~g~Eiig~~~~~~daEvi~l~~e~l~ 139 (311)
T PF13393_consen 86 PRPKRYYYIGPVFRYERPGKG-RPREFYQCGFEIIGSSSLEADAEVIKLADEILD 139 (311)
T ss_dssp SSSEEEEEEEEEEEEETTTTT-BESEEEEEEEEEESSSSHHHHHHHHHHHHHHHH
T ss_pred CCCceEEEEcceeeccccCCC-CCceeEEEEEEEECCCCHHHHHHHHHHHHHHHH
Confidence 456789999999999986543 6789999999998876555 44554444443
No 103
>CHL00201 syh histidine-tRNA synthetase; Provisional
Probab=66.78 E-value=6.2 Score=44.29 Aligned_cols=35 Identities=20% Similarity=0.258 Sum_probs=28.8
Q ss_pred ceeEEEecccccCCCCCCCChhhhhcceeeeccCCh
Q psy4384 512 SKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDN 547 (661)
Q Consensus 512 ~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~ 547 (661)
-|.|++|+|||+|.....| .-||+++++|.-+.++
T Consensus 103 ~R~~y~g~vfR~e~~q~GR-~Ref~Q~g~EiiG~~~ 137 (430)
T CHL00201 103 QRLWYSGPMFRYERPQSGR-QRQFHQLGIEFIGSID 137 (430)
T ss_pred eEEEEEcceecCCCCcCCc-cceeEEeceEEECCCC
Confidence 3899999999999966554 4699999999977653
No 104
>PRK14799 thrS threonyl-tRNA synthetase; Provisional
Probab=66.52 E-value=6.6 Score=45.51 Aligned_cols=50 Identities=18% Similarity=0.316 Sum_probs=37.7
Q ss_pred eeEEEecccccCCCCCC---CChhhhhcceeeeccCChHHHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSR---LHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLN 564 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~---RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~ 564 (661)
|.|++|+|||.|.+... .=.-|||+.|+.. |+. -+++.+.+.+++.-+.+
T Consensus 251 R~~e~g~vfR~E~sg~l~GL~RvReF~Q~DaHi-f~~-~~q~~~E~~~~l~~i~~ 303 (545)
T PRK14799 251 RFSEFGHVYRWEKKGELYGLLRVRGFVQDDGHI-FLR-EDQLREEIKMLISKTVE 303 (545)
T ss_pred hhEEecceecCCCCCCccccccceeEEEcccEE-EeC-HHHHHHHHHHHHHHHHH
Confidence 67999999999998641 1346999999998 877 57776777666655543
No 105
>PRK12421 ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=65.66 E-value=7 Score=43.40 Aligned_cols=51 Identities=8% Similarity=0.046 Sum_probs=36.5
Q ss_pred cceeEEEecccccCCCCCCCChhhhhcceeeeccCChHH---HHHHHHHHHHHHH
Q psy4384 511 LSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNIH---DLCNTIEQFIKSV 562 (661)
Q Consensus 511 ~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~---dlm~~~E~Li~~i 562 (661)
--|.|++|+|||.+..... -..||+++.+|.-+.++.. +++.++-+.++.+
T Consensus 101 p~R~~Y~g~VfR~~~~~~g-r~rEf~Q~GvEiiG~~~~~aDaEvi~l~~e~l~~l 154 (392)
T PRK12421 101 VARLCYAGSVLHTLPQGLF-GSRTPLQLGAELYGHAGIEADLEIIRLMLGLLRNA 154 (392)
T ss_pred ceEEEEeeeEEEcCCCcCC-CcCccceeceEEeCCCCchhHHHHHHHHHHHHHHc
Confidence 3489999999999886544 3479999999997766444 5555555554443
No 106
>COG0124 HisS Histidyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=60.80 E-value=8.1 Score=43.39 Aligned_cols=37 Identities=27% Similarity=0.404 Sum_probs=30.5
Q ss_pred ccceeEEEecccccCCCCCCCChhhhhcceeeeccCCh
Q psy4384 510 SLSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDN 547 (661)
Q Consensus 510 g~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~ 547 (661)
---|-|+++|+||.|.....|- -||+++++|....++
T Consensus 100 ~p~k~yy~g~vfRyErPQ~GR~-RqF~Q~g~E~iG~~~ 136 (429)
T COG0124 100 KPLKLYYFGPVFRYERPQKGRY-RQFYQFGVEVIGSDS 136 (429)
T ss_pred CCeeEEEecceecCCCCCCCCc-eeeEEcCeEEeCCCC
Confidence 3458899999999999876644 799999999987653
No 107
>COG0442 ProS Prolyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=60.61 E-value=8.8 Score=43.87 Aligned_cols=50 Identities=28% Similarity=0.341 Sum_probs=39.6
Q ss_pred eeEEEecccccCCCCCC--CChhhhhcceeeeccCChHHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSR--LHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVL 563 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~--RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~ 563 (661)
++|||..+||.|--.+. --.-||+|=|.|..+.| .+++....++++..-.
T Consensus 131 ~lYQi~~kfRdE~rpr~gllR~REF~mkdaySfh~~-~e~a~~~y~~~~~~Y~ 182 (500)
T COG0442 131 KLYQIQSKFRDEKRPRFGLLRGREFLMKDAYSFHAD-EEDAEETYEKMLDAYS 182 (500)
T ss_pred ceeeeeeEEeccccCCCCccchheeeecccccccCC-HHHHHHHHHHHHHHHH
Confidence 67999999999983211 13579999999999998 8999988888775443
No 108
>PRK12420 histidyl-tRNA synthetase; Provisional
Probab=60.00 E-value=8.5 Score=43.04 Aligned_cols=47 Identities=17% Similarity=0.365 Sum_probs=33.6
Q ss_pred eeEEEecccccCCCCCCCChhhhhcceeeeccCChH---HHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDNI---HDLCNTIEQFIK 560 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~---~dlm~~~E~Li~ 560 (661)
|.|++|+|||.|..... +.-||+++.+|.-..++. -+++.++-+.++
T Consensus 101 r~~y~g~vfR~~~~~~g-r~rE~~Q~g~EiiG~~~~~adaEvi~la~~~l~ 150 (423)
T PRK12420 101 KRYEIGKVFRDGPIKQG-RFREFIQCDVDIVGVESVMAEAELMSMAFELFR 150 (423)
T ss_pred eEEEEcceECCCCCCCC-ccceeEECCeeeECCCCCcccHHHHHHHHHHHH
Confidence 78999999999986544 789999999999665432 344444444443
No 109
>cd00059 FH Forkhead (FH), also known as a "winged helix". FH is named for the Drosophila fork head protein, a transcription factor which promotes terminal rather than segmental development. This family of transcription factor domains, which bind to B-DNA as monomers, are also found in the Hepatocyte nuclear factor (HNF) proteins, which provide tissue-specific gene regulation. The structure contains 2 flexible loops or "wings" in the C-terminal region, hence the term winged helix.
Probab=59.98 E-value=7.1 Score=33.24 Aligned_cols=58 Identities=16% Similarity=0.249 Sum_probs=44.1
Q ss_pred cCChHHHHHHHhhhccccccccCCCccccccccccHHHHHhchhhccCCCccccchHHHHHHHHHhcCCCceEe
Q psy4384 58 QAMFPQMCITAIGNLMQTSIKEGNPRFTFSKEKEIIPFIEAHWDGMTTTPRRVTQSWHLTILRALAKETNVLFT 131 (661)
Q Consensus 58 ~~~w~~~~~laLynL~~~~~~~~~~k~yF~~~~dI~~fi~~~W~~L~~~~r~~~~~w~~~i~~~L~~~~~~~F~ 131 (661)
+.+.++|+..||-+--. +--.+. +|+.||.+|+..... . ...|+..|--.||.+ ..|+
T Consensus 3 ~~sY~~LI~~Ai~~sp~---------~~lTL~-eIy~~I~~~~pyyr~-~---~~gWknSIRHnLS~n--~~F~ 60 (78)
T cd00059 3 PYSYSALIAMAIQSSPE---------KRLTLS-EIYKWISDNFPYFRD-A---PAGWQNSIRHNLSLN--KCFV 60 (78)
T ss_pred CCCHHHHHHHHHHhCCC---------CCeeHH-HHHHHHHHhCCcccc-C---CCCCccceeEecccc--cceE
Confidence 46788999998877321 122244 999999999999863 2 459999999999987 7885
No 110
>PLN02972 Histidyl-tRNA synthetase
Probab=57.53 E-value=11 Score=45.20 Aligned_cols=47 Identities=17% Similarity=0.473 Sum_probs=33.1
Q ss_pred eeEEEecccccCCCCCCCChhhhhcceeeeccC-ChH---HHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSRLHLAEFYMIEAELAFL-DNI---HDLCNTIEQFIK 560 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~-d~~---~dlm~~~E~Li~ 560 (661)
|.|+||++||.|..... +.-||+++.+|.... +.. -+++.++-+.++
T Consensus 419 KrYyiG~VFR~e~pqkG-R~REF~Q~G~EIIG~~~~~~aDAEVI~La~E~L~ 469 (763)
T PLN02972 419 KRYQIAKVYRRDNPSKG-RYREFYQCDFDIAGVYEPMGPDFEIIKVLTELLD 469 (763)
T ss_pred eEEEeccEEecCCCCCC-CCccceEEeEEEEcCCCcchhhHHHHHHHHHHHH
Confidence 78899999999986443 678999999999875 221 244444444443
No 111
>KOG0825|consensus
Probab=57.05 E-value=4.2 Score=47.80 Aligned_cols=37 Identities=27% Similarity=0.738 Sum_probs=27.4
Q ss_pred ccceEecccccch-hhHhhhccccCCccccceeEEEEcccCC
Q psy4384 7 NLIELFCANCKCW-FHESCISYQIGKLVPFMMNYVFICKNCS 47 (661)
Q Consensus 7 ~~~~lqC~~C~~w-fH~~C~~~~~~~~l~~~~~y~F~C~~C~ 47 (661)
..+||.|+.|.+- ||..||.-...- +|. -.|.|.+|+
T Consensus 227 EdVLLLCDsCN~~~YH~YCLDPdl~e-iP~---~eWYC~NC~ 264 (1134)
T KOG0825|consen 227 EDVLLLCDSCNKVYYHVYCLDPDLSE-SPV---NEWYCTNCS 264 (1134)
T ss_pred HHhheeecccccceeeccccCccccc-ccc---cceecCcch
Confidence 3589999999999 999999854311 222 246699998
No 112
>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=56.20 E-value=13 Score=41.83 Aligned_cols=29 Identities=10% Similarity=0.187 Sum_probs=24.7
Q ss_pred eeEEEecccccCCCCCCCChhhhhcceeee
Q psy4384 513 KVYTLNPTFRAENSKSRLHLAEFYMIEAEL 542 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~ 542 (661)
++...|.|||.+.+|.+ |.|.|.++|.-+
T Consensus 135 ~~i~~G~VYRrD~iDat-H~p~FHQ~EG~~ 163 (460)
T TIGR00469 135 GFLISADVYRRDEIDKT-HYPVFHQADGAA 163 (460)
T ss_pred eeEeecceeeCCCCccc-cCccceeeEEEE
Confidence 37889999999999865 999999999433
No 113
>smart00339 FH FORKHEAD. FORKHEAD, also known as a "winged helix"
Probab=55.95 E-value=11 Score=32.97 Aligned_cols=70 Identities=17% Similarity=0.162 Sum_probs=49.5
Q ss_pred cCChHHHHHHHhhhccccccccCCCccccccccccHHHHHhchhhccCCCccccchHHHHHHHHHhcCCCceEeecCC--
Q psy4384 58 QAMFPQMCITAIGNLMQTSIKEGNPRFTFSKEKEIIPFIEAHWDGMTTTPRRVTQSWHLTILRALAKETNVLFTCNES-- 135 (661)
Q Consensus 58 ~~~w~~~~~laLynL~~~~~~~~~~k~yF~~~~dI~~fi~~~W~~L~~~~r~~~~~w~~~i~~~L~~~~~~~F~~g~~-- 135 (661)
+.+++.|+..||-+-. .+-..+. +|+.+|.+||..... .. ..|+..|--.||.+ ..|+--..
T Consensus 3 ~~sY~~lI~~ai~~sp---------~~~ltl~-~Iy~~I~~~~pyy~~-~~---~~WknSIRHnLS~n--~~F~kv~~~~ 66 (89)
T smart00339 3 PYSYIALIAMAILSSP---------DKRLTLS-EIYKWIEDNFPYYRE-NR---AGWQNSIRHNLSLN--DCFVKVPREG 66 (89)
T ss_pred CCCHHHHHHHHHHhCC---------CCCeeHH-HHHHHHHHhCchhhc-Cc---cccccccccccchh--hceeecCcCC
Confidence 4568888888887722 2233354 999999999999863 22 39999999999987 68853321
Q ss_pred ---cc--eeeecC
Q psy4384 136 ---QE--QYGLID 143 (661)
Q Consensus 136 ---~~--~w~L~~ 143 (661)
.+ +|.|..
T Consensus 67 ~~~gkg~~W~i~~ 79 (89)
T smart00339 67 DRPGKGSYWTLDP 79 (89)
T ss_pred CCCCCCCEEEECc
Confidence 22 887754
No 114
>PLN02530 histidine-tRNA ligase
Probab=54.93 E-value=14 Score=42.33 Aligned_cols=34 Identities=15% Similarity=0.235 Sum_probs=28.2
Q ss_pred eeEEEecccccCCCCCCCChhhhhcceeeeccCCh
Q psy4384 513 KVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLDN 547 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d~ 547 (661)
|.|++|+|||.|..... +.-||+++.+|.-..++
T Consensus 166 r~~y~g~vfR~e~~q~g-r~REf~Q~giEiiG~~~ 199 (487)
T PLN02530 166 KWFAIGQCWRYERMTRG-RRREHYQWNMDIIGVPG 199 (487)
T ss_pred EEEEEcCEEcCcCCCCC-CccceEEcCeeEeCCCC
Confidence 88999999999986544 46899999999977553
No 115
>PRK07080 hypothetical protein; Validated
Probab=53.63 E-value=13 Score=39.84 Aligned_cols=49 Identities=16% Similarity=0.081 Sum_probs=37.6
Q ss_pred eeEE-EecccccCCCCCCCChhhhhcceeeeccCChHHHHHHHHHHHHHHHH
Q psy4384 513 KVYT-LNPTFRAENSKSRLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVL 563 (661)
Q Consensus 513 rVye-Ig~~FRaE~s~t~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~ 563 (661)
++|. .|.|||+|.+...+-+-||+|-|+-.-.. -+++++.-+..+....
T Consensus 153 ~~~dv~g~CFR~E~s~dl~Rl~~F~mrE~V~iGt--~e~v~~~r~~w~e~~~ 202 (317)
T PRK07080 153 RLVDVASYCFRHEPSLDPARMQLFRMREYVRIGT--PEQIVAFRQSWIERGT 202 (317)
T ss_pred cEEEeeeeeeccCCCCCcHHHhheeeeEEEEecC--HHHHHHHHHHHHHHHH
Confidence 5555 58899999988777889999999877663 5777777666665554
No 116
>KOG4443|consensus
Probab=52.78 E-value=2 Score=49.55 Aligned_cols=41 Identities=22% Similarity=0.592 Sum_probs=31.4
Q ss_pred ccceEecccccchhhHhhhccccCCccccceeEEEEcccCC
Q psy4384 7 NLIELFCANCKCWFHESCISYQIGKLVPFMMNYVFICKNCS 47 (661)
Q Consensus 7 ~~~~lqC~~C~~wfH~~C~~~~~~~~l~~~~~y~F~C~~C~ 47 (661)
-++|+.|++|.+|-|..|.++..-...-+-..-.|-|+.|.
T Consensus 160 ~~~~~~c~~c~rwsh~~c~~~sdd~~~q~~vD~~~~CS~CR 200 (694)
T KOG4443|consen 160 SLPMVCCSICQRWSHGGCDGISDDKYMQAQVDLQYKCSTCR 200 (694)
T ss_pred chhhHHHHHhcccccCCCCccchHHHHHHhhhhhcccceee
Confidence 35789999999999999999754222333344789999998
No 117
>PRK09616 pheT phenylalanyl-tRNA synthetase subunit beta; Reviewed
Probab=51.74 E-value=19 Score=41.95 Aligned_cols=49 Identities=8% Similarity=0.233 Sum_probs=37.8
Q ss_pred ceeEEEecccccCCCCCCCChhhhhcceeeeccCC-hHHHHHHHHHHHHHH
Q psy4384 512 SKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLD-NIHDLCNTIEQFIKS 561 (661)
Q Consensus 512 ~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d-~~~dlm~~~E~Li~~ 561 (661)
-++||||++|+.++.+ ..|..|+++|-.-.+... ++.++...+|.|+..
T Consensus 439 ~~lFEiG~Vf~~~~~~-~~~~~e~~~l~~~~~g~~~df~dlKg~ve~ll~~ 488 (552)
T PRK09616 439 QKIFEIGDVVLIDEST-ETGTRTERKLAAAIAHSEASFTEIKSVVQALLRE 488 (552)
T ss_pred eeEEEeeEEEecCCcc-ccCcchhhEEEEEEECCCCCHHHHHHHHHHHHHH
Confidence 4899999999987643 237789999988777631 388888888888753
No 118
>PRK00960 seryl-tRNA synthetase; Provisional
Probab=50.56 E-value=14 Score=42.58 Aligned_cols=50 Identities=18% Similarity=0.157 Sum_probs=37.2
Q ss_pred eeEE-EecccccCCCCCC---CChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHH
Q psy4384 513 KVYT-LNPTFRAENSKSR---LHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRV 566 (661)
Q Consensus 513 rVye-Ig~~FRaE~s~t~---RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v 566 (661)
|+++ .|+|||+|. .+. .=.-||+|.|.- .|+. -+++.+..++++.+ +..+
T Consensus 337 rl~e~sG~cFR~Es-Gs~~GL~RV~eF~kvE~h-~f~t-pEqs~ee~e~ll~~-~e~i 390 (517)
T PRK00960 337 KFFDRSGWTYRWEG-GGAHGLERVNEFHRIEIV-WLGT-PEQVEEIRDELLKY-AHIL 390 (517)
T ss_pred HHhhccCCceeCCC-CCCCCCcccceeEEEEEE-EEeC-HHHHHHHHHHHHHH-HHHH
Confidence 5678 569999995 321 234599999998 7887 79999999999844 3444
No 119
>KOG0957|consensus
Probab=50.44 E-value=5.6 Score=44.54 Aligned_cols=39 Identities=23% Similarity=0.659 Sum_probs=32.2
Q ss_pred cceEecccccchhhHhhhccccCCccccc-eeEEEEcccCC
Q psy4384 8 LIELFCANCKCWFHESCISYQIGKLVPFM-MNYVFICKNCS 47 (661)
Q Consensus 8 ~~~lqC~~C~~wfH~~C~~~~~~~~l~~~-~~y~F~C~~C~ 47 (661)
..-+||+.|..-||.-||+-+.+- +|-- .+|-..|+.|-
T Consensus 557 Hll~~CDtC~lhYHlGCL~PPLTR-~Pkk~kn~gWqCsECd 596 (707)
T KOG0957|consen 557 HLLTQCDTCHLHYHLGCLSPPLTR-LPKKNKNFGWQCSECD 596 (707)
T ss_pred HHHhhcchhhceeeccccCCcccc-CcccccCcceeecccc
Confidence 346899999999999999977665 5544 49999999994
No 120
>smart00588 NEUZ domain in neuralized proteins.
Probab=48.08 E-value=45 Score=30.84 Aligned_cols=57 Identities=16% Similarity=0.223 Sum_probs=41.5
Q ss_pred CCCCCeEEeCCCcEEEeCCC-e--eEEEEeEEEeCCeEEEEEEEEee--CCCCcEEEEEeCCC
Q psy4384 270 DRAPQLRISEDRLAVTGDKG-Y--CMVRATNYVGHGTWYWEATIEEM--PEGSATRMGWGQEY 327 (661)
Q Consensus 270 dr~~~l~ls~d~l~v~~~~g-~--~~vRa~~~v~~G~~YfEv~i~~~--~~~~~vriG~a~~~ 327 (661)
-+..+|.|++|+.+++.... | .-|.++.|++.|-- |+|+|++. .-.|++++|+.+..
T Consensus 8 ~~G~ni~l~~~~~~A~R~~~~f~~givFS~rPl~~~E~-~~v~i~~~~~~w~G~l~~G~Ts~d 69 (123)
T smart00588 8 RHGSNIRLSDSGRVARRSASDFCNALVFSARPLRINEL-FEVKIEKVVRKWSGALRFGVTTCD 69 (123)
T ss_pred ccCCCeEECCCCcEEEcccCCcCceEEecCCCCcCCCE-EEEEEEEecCCccCceEEEEecCC
Confidence 46889999999999986433 4 35778889988732 35666653 34589999998753
No 121
>PRK12295 hisZ ATP phosphoribosyltransferase regulatory subunit; Provisional
Probab=46.17 E-value=20 Score=39.62 Aligned_cols=47 Identities=15% Similarity=0.111 Sum_probs=32.6
Q ss_pred cceeEEEecccccCCCCCCCChhhhhcceeeeccC-ChH---HHHHHHHHHHHHH
Q psy4384 511 LSKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFL-DNI---HDLCNTIEQFIKS 561 (661)
Q Consensus 511 ~~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~-d~~---~dlm~~~E~Li~~ 561 (661)
--|.|++|+|||.|. . ..-||+++.+|.-.. +.. -+++.++-+.++.
T Consensus 82 p~R~~Y~g~VfR~~~-g---r~rEf~Q~GvEiiG~~~~~~aDaEvi~l~~~~L~~ 132 (373)
T PRK12295 82 PARYAYLGEVFRQRR-D---RASEFLQAGIESFGRADPAAADAEVLALALEALAA 132 (373)
T ss_pred CeEEEEEccEEECCC-C---CCCcceEeeEEeeCCCCCccchHHHHHHHHHHHHH
Confidence 348999999999993 2 347999999999774 322 2556555555443
No 122
>COG0423 GRS1 Glycyl-tRNA synthetase (class II) [Translation, ribosomal structure and biogenesis]
Probab=43.60 E-value=12 Score=42.63 Aligned_cols=30 Identities=27% Similarity=0.327 Sum_probs=22.7
Q ss_pred eEEEecccccCCCCC--CCChhhhhcceeeec
Q psy4384 514 VYTLNPTFRAENSKS--RLHLAEFYMIEAELA 543 (661)
Q Consensus 514 VyeIg~~FRaE~s~t--~RHl~EFtmLE~e~a 543 (661)
|-|||++||||=+-. ---+-||+|+|+|.=
T Consensus 190 iaQIGKsfRNEISPr~gl~R~REF~QaEiE~F 221 (558)
T COG0423 190 IAQIGKSFRNEISPRNGLFRTREFEQAEIEFF 221 (558)
T ss_pred EEeechhhccccCcccceeehhhhhhhheeeE
Confidence 679999999997411 114679999999883
No 123
>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=42.37 E-value=32 Score=39.48 Aligned_cols=49 Identities=14% Similarity=0.143 Sum_probs=36.9
Q ss_pred eeEEE-ecccccCCCCC--CCChhhhhcceeeeccCChHHHHHHHHHHHHHHHH
Q psy4384 513 KVYTL-NPTFRAENSKS--RLHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVL 563 (661)
Q Consensus 513 rVyeI-g~~FRaE~s~t--~RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~ 563 (661)
+++++ ++|||.|..++ -.=+-||+|.|.-. +.+ -++..+..++++....
T Consensus 337 k~~~~s~~CFR~EaGstrGL~RvhEF~kvE~v~-~~t-pEea~e~~e~mle~~~ 388 (520)
T TIGR00415 337 KFFDRSGWTYRWEAGGAKGLDRVHEFLRVECVW-IAE-PEETEEIRDKTLELAE 388 (520)
T ss_pred eEEEEecCeEeCCCCCCCCCceeeEEEEEEEEE-EeC-HHHHHHHHHHHHHHHH
Confidence 67884 47999999432 22346999999988 777 7888888888885543
No 124
>KOG4299|consensus
Probab=41.90 E-value=11 Score=43.53 Aligned_cols=77 Identities=19% Similarity=0.365 Sum_probs=46.0
Q ss_pred CCccccceEecccccchhhHhhhccc--cCCccccceeEEEEcccCCCCCccceeeccCChHHHHHHHhhhccccccccC
Q psy4384 3 ERNFNLIELFCANCKCWFHESCISYQ--IGKLVPFMMNYVFICKNCSNTGLESFKKNQAMFPQMCITAIGNLMQTSIKEG 80 (661)
Q Consensus 3 ~~~~~~~~lqC~~C~~wfH~~C~~~~--~~~~l~~~~~y~F~C~~C~~~g~e~~~r~~~~w~~~~~laLynL~~~~~~~~ 80 (661)
.+.+ ..-|+|+.|-+-||..||.-+ ... +|-+ .-.|..|-. . ..+-+++.+- .
T Consensus 262 ~~~F-~~~i~CD~Cp~sFH~~CLePPl~~en-iP~g---~W~C~ec~~-k----------------~~in~~~~t~---~ 316 (613)
T KOG4299|consen 262 SGLF-NDIICCDGCPRSFHQTCLEPPLEPEN-IPPG---SWFCPECKI-K----------------SVINPKMETL---S 316 (613)
T ss_pred cccc-ccceeecCCchHHHHhhcCCCCCccc-CCCC---ccccCCCee-e----------------eecccchhhh---h
Confidence 3444 567999999999999999965 333 4433 445888873 0 0011111100 0
Q ss_pred CCccccccccccHHHHHhc--hhhcc
Q psy4384 81 NPRFTFSKEKEIIPFIEAH--WDGMT 104 (661)
Q Consensus 81 ~~k~yF~~~~dI~~fi~~~--W~~L~ 104 (661)
...+.++.-...+.+||.| |+...
T Consensus 317 ~~~~~~~i~t~~~~~IDs~np~q~~l 342 (613)
T KOG4299|consen 317 NRGTVVDIFTQFVSKIDSHNPIQKIL 342 (613)
T ss_pred hccchHHHHHHHHHhhhccchhhhhC
Confidence 0245566666666688888 77776
No 125
>PF07496 zf-CW: CW-type Zinc Finger; InterPro: IPR011124 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a CW-type zinc finger motif, named for its conserved cysteine and tryptophan residues. It is predicted to be a highly specialised mononuclear four-cysteine (C4) zinc finger that plays a role in DNA binding and/or promoting protein-protein interactions in complicated eukaryotic processes including chromatin methylation status and early embryonic development. Weak homology to members of IPR001965 from INTERPRO further evidences these predictions. The domain is found exclusively in vertebrates, vertebrate-infecting parasites and higher plants []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 2RR4_A 2E61_A 2L7P_A.
Probab=41.45 E-value=10 Score=29.37 Aligned_cols=13 Identities=23% Similarity=0.695 Sum_probs=7.0
Q ss_pred EecccccchhhHh
Q psy4384 11 LFCANCKCWFHES 23 (661)
Q Consensus 11 lqC~~C~~wfH~~ 23 (661)
+||+.|++|=...
T Consensus 4 VQCd~C~KWR~lp 16 (50)
T PF07496_consen 4 VQCDSCLKWRRLP 16 (50)
T ss_dssp EE-TTT--EEEE-
T ss_pred EECCCCCceeeCC
Confidence 7999999995443
No 126
>PF15446 zf-PHD-like: PHD/FYVE-zinc-finger like domain
Probab=38.64 E-value=22 Score=34.60 Aligned_cols=41 Identities=20% Similarity=0.542 Sum_probs=32.4
Q ss_pred ccceEecccccchhhHhhhccccC--Cc--cccceeEEEEcccCC
Q psy4384 7 NLIELFCANCKCWFHESCISYQIG--KL--VPFMMNYVFICKNCS 47 (661)
Q Consensus 7 ~~~~lqC~~C~~wfH~~C~~~~~~--~~--l~~~~~y~F~C~~C~ 47 (661)
.-.++.|-.|.--||-.||..-.. -| --|+..|+..|.-|=
T Consensus 14 kG~Lv~CQGCs~sYHk~CLG~Rs~ReHlVTKVg~d~FVLQCr~Ci 58 (175)
T PF15446_consen 14 KGPLVYCQGCSSSYHKACLGPRSQREHLVTKVGDDDFVLQCRRCI 58 (175)
T ss_pred CCCeEEcCccChHHHhhhcCCccccceeeEEEcCCceEEechhhc
Confidence 348999999999999999995321 11 247889999999996
No 127
>PRK14894 glycyl-tRNA synthetase; Provisional
Probab=38.54 E-value=18 Score=41.32 Aligned_cols=31 Identities=23% Similarity=0.330 Sum_probs=22.6
Q ss_pred eEEEecccccCCCCC--CCChhhhhcceeeecc
Q psy4384 514 VYTLNPTFRAENSKS--RLHLAEFYMIEAELAF 544 (661)
Q Consensus 514 VyeIg~~FRaE~s~t--~RHl~EFtmLE~e~a~ 544 (661)
|-|||++||||=+-. ---+-||+|+|+|.-.
T Consensus 168 iaQIGk~FRNEIsPr~~l~R~REF~q~EiE~Fv 200 (539)
T PRK14894 168 IAQVGKAFRNEINPRNFLFRVREFEQMEIEYFV 200 (539)
T ss_pred EEeeeccccCccCCCCceeecccchhheEEEEe
Confidence 569999999995311 1135799999999843
No 128
>PLN02678 seryl-tRNA synthetase
Probab=36.16 E-value=26 Score=39.71 Aligned_cols=48 Identities=17% Similarity=0.239 Sum_probs=31.2
Q ss_pred eeEEEecccccCCCC---CCC---ChhhhhcceeeeccCChHHH--HHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSK---SRL---HLAEFYMIEAELAFLDNIHD--LCNTIEQFIKSV 562 (661)
Q Consensus 513 rVyeIg~~FRaE~s~---t~R---Hl~EFtmLE~e~a~~d~~~d--lm~~~E~Li~~i 562 (661)
|.+++++|||+|.+. .++ =.-+|+++|.. +++. -++ ..+..|+|+..+
T Consensus 257 r~~~~s~cfR~Eags~G~~~~GL~RvhqF~KvE~f-~~~~-pe~~~s~~~~e~~l~~~ 312 (448)
T PLN02678 257 RYAGYSTCFRKEAGSHGRDTLGIFRVHQFEKVEQF-CITS-PNGNESWEMHEEMLKNS 312 (448)
T ss_pred eeEEeccccccccccCCCcCCcceEEEEEEEEEEE-EEEC-CCchhHHHHHHHHHHHH
Confidence 568999999999862 111 23489999994 4543 344 566666666544
No 129
>KOG1632|consensus
Probab=36.08 E-value=12 Score=41.01 Aligned_cols=37 Identities=19% Similarity=0.552 Sum_probs=29.5
Q ss_pred ceEecccccchhhHhh--hccccCCccccceeEEEEcccCCC
Q psy4384 9 IELFCANCKCWFHESC--ISYQIGKLVPFMMNYVFICKNCSN 48 (661)
Q Consensus 9 ~~lqC~~C~~wfH~~C--~~~~~~~~l~~~~~y~F~C~~C~~ 48 (661)
.|++|+.|..|+|..| ++... ......-.+.|..|+.
T Consensus 74 ~~~~cd~C~~~~~~ec~~v~~~~---~e~p~~~~~~c~~c~~ 112 (345)
T KOG1632|consen 74 LMEQCDLCEDWYHGECWEVGTAE---KEAPKEDPKVCDECKE 112 (345)
T ss_pred hhhccccccccccccccccCchh---hcCCccccccccccch
Confidence 5899999999999999 87665 4445555677999984
No 130
>PLN02734 glycyl-tRNA synthetase
Probab=35.39 E-value=15 Score=43.53 Aligned_cols=32 Identities=34% Similarity=0.501 Sum_probs=23.1
Q ss_pred eEEEecccccCCCC--CCCChhhhhcceeeeccCC
Q psy4384 514 VYTLNPTFRAENSK--SRLHLAEFYMIEAELAFLD 546 (661)
Q Consensus 514 VyeIg~~FRaE~s~--t~RHl~EFtmLE~e~a~~d 546 (661)
+-|||++||||=+- .---+-||+|.|+|. |++
T Consensus 278 ~AQIGk~FRNEIsPR~gl~R~REF~qaEiE~-Fv~ 311 (684)
T PLN02734 278 AAQIGQAFRNEISPRQGLLRVREFTLAEIEH-FVD 311 (684)
T ss_pred eeeccHhhhcccCcccceeeechhhhhhhhe-ecC
Confidence 56999999999531 111357999999988 444
No 131
>PF14041 Lipoprotein_21: LppP/LprE lipoprotein
Probab=33.97 E-value=76 Score=27.48 Aligned_cols=38 Identities=29% Similarity=0.528 Sum_probs=29.4
Q ss_pred cEEEEEECCeeccccceeccCCceEEEEEecCCcEEEEeCC
Q psy4384 421 SQIVFYKNGKSQGVAFQDIYAGYYYPCVSLHKNCTVSVNFG 461 (661)
Q Consensus 421 s~I~f~kNG~~~G~AF~~i~~g~yyPavSl~~g~~v~~NFG 461 (661)
..+.||.+|+++|++-.+-. .+.+.+ ...+.+|.|.+.
T Consensus 26 ~~vl~Fh~G~fiGt~t~~p~--~~~~v~-~~~~~~V~V~Y~ 63 (89)
T PF14041_consen 26 QQVLFFHDGEFIGTATPDPY--GYIDVI-RSTDDTVTVQYR 63 (89)
T ss_pred eEEEEEECCEEcccCCcccc--CceeEE-eeCCCEEEEEEE
Confidence 68999999999999865533 555656 447899999875
No 132
>PF13832 zf-HC5HC2H_2: PHD-zinc-finger like domain
Probab=31.37 E-value=32 Score=30.69 Aligned_cols=36 Identities=17% Similarity=0.353 Sum_probs=24.3
Q ss_pred ceEeccc--ccchhhHhhhccccCCcccc----ceeEEEEcc
Q psy4384 9 IELFCAN--CKCWFHESCISYQIGKLVPF----MMNYVFICK 44 (661)
Q Consensus 9 ~~lqC~~--C~~wfH~~C~~~~~~~~l~~----~~~y~F~C~ 44 (661)
..++|.. |.++||..|.......+... ...+.+.|.
T Consensus 67 ~~i~C~~~~C~~~fH~~CA~~~g~~~~~~~~~~~~~~~~~C~ 108 (110)
T PF13832_consen 67 ACIKCSHPGCSTAFHPTCARKAGLYFEIENEEDNVQFIAYCP 108 (110)
T ss_pred eeEEcCCCCCCcCCCHHHHHHCCCeEEeeecCCCceEEEECC
Confidence 4789999 99999999998644221111 235666664
No 133
>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=29.91 E-value=18 Score=42.04 Aligned_cols=28 Identities=36% Similarity=0.455 Sum_probs=21.7
Q ss_pred eEEEecccccCCCCCCC---Chhhhhcceeee
Q psy4384 514 VYTLNPTFRAENSKSRL---HLAEFYMIEAEL 542 (661)
Q Consensus 514 VyeIg~~FRaE~s~t~R---Hl~EFtmLE~e~ 542 (661)
|-|||++||||=+ .+. -+-||+|+|+|.
T Consensus 186 iaQiGk~fRNEIs-Pr~~l~R~REF~q~EiE~ 216 (551)
T TIGR00389 186 VAQIGKSFRNEIS-PRNGLFRVREFEQAEIEF 216 (551)
T ss_pred ehhhhHhhhcccC-cccceEEeehhhhchhhe
Confidence 5699999999953 111 357999999988
No 134
>cd00769 PheRS_beta_core Phenylalanyl-tRNA synthetase (PheRS) beta chain core domain. PheRS belongs to class II aminoacyl-tRNA synthetases (aaRS) based upon its structure. While class II aaRSs generally aminoacylate the 3'-OH ribose of the appropriate tRNA, PheRS is an exception in that it attaches the amino acid at the 2'-OH group, like class I aaRSs. PheRS is an alpha-2/ beta-2 tetramer. While the alpha chain contains a catalytic core domain, the beta chain has a non-catalytic core domain.
Probab=29.43 E-value=75 Score=31.48 Aligned_cols=46 Identities=13% Similarity=0.187 Sum_probs=28.0
Q ss_pred ceeEEEecccccCCCCCCCChhhhhcceeeeccCC------------hHHHHHHHHHHHHHH
Q psy4384 512 SKVYTLNPTFRAENSKSRLHLAEFYMIEAELAFLD------------NIHDLCNTIEQFIKS 561 (661)
Q Consensus 512 ~rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a~~d------------~~~dlm~~~E~Li~~ 561 (661)
-++||||++|..+.. +..|.++|=.-.+... ++.|+-..+|.|+..
T Consensus 79 ~~lFEiG~vf~~~~~----~~~e~~~l~~~~~g~~~~~~w~~~~~~~~f~~~Kg~ve~ll~~ 136 (198)
T cd00769 79 LRLFEIGRVFLKDED----GPEEEEHLAALLSGNREPESWQGKGRPVDFYDAKGILEALLRA 136 (198)
T ss_pred EeEEEeEeEEecCCC----CCcchheEEEEEECCCccccccCCCCccCHhhHHHHHHHHHHH
Confidence 389999999976531 2235555544333321 377777777777643
No 135
>KOG2324|consensus
Probab=29.31 E-value=63 Score=35.36 Aligned_cols=53 Identities=23% Similarity=0.315 Sum_probs=35.7
Q ss_pred eeEEEecccccCCCCCCC---ChhhhhcceeeeccCChHHHHHHHHHHHHHHHHHHHhh
Q psy4384 513 KVYTLNPTFRAENSKSRL---HLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLNRVLE 568 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~R---Hl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~~v~~ 568 (661)
+||+||+-||.|-- ++- ---||.|=|.|.--.| -++.|+ +-+++..+..++..
T Consensus 137 ~vYQigrKfRDElr-pRfGLlRgREFlMKDmYsFd~~-~etA~q-Ty~~v~~aY~~iFk 192 (457)
T KOG2324|consen 137 RVYQIGRKFRDELR-PRFGLLRGREFLMKDMYSFDSD-EETAQQ-TYQLVDQAYDRIFK 192 (457)
T ss_pred EeeeechhhhhccC-ccccchhhHHHHHhhhhcccCC-HHHHHH-HHHHHHHHHHHHHH
Confidence 79999999999962 111 2359999999974343 555555 44556666666653
No 136
>KOG1844|consensus
Probab=28.85 E-value=22 Score=40.69 Aligned_cols=41 Identities=20% Similarity=0.490 Sum_probs=31.9
Q ss_pred ccceEecccccchhhHhhhccccCCccccceeEEEEcccCCCCCcc
Q psy4384 7 NLIELFCANCKCWFHESCISYQIGKLVPFMMNYVFICKNCSNTGLE 52 (661)
Q Consensus 7 ~~~~lqC~~C~~wfH~~C~~~~~~~~l~~~~~y~F~C~~C~~~g~e 52 (661)
.-.|+||..|.+|-|.-|...-... + -=.|.|..|.+++.+
T Consensus 98 ~g~~i~c~~c~~Wqh~~C~g~~~~~----~-p~~y~c~~c~~~~~~ 138 (508)
T KOG1844|consen 98 EGLMIQCDWCGRWQHKICCGSFKST----K-PDKYVCEICTPRNKE 138 (508)
T ss_pred CceeeCCcccCcccCceeeeecCCC----C-chhceeeeecccccc
Confidence 5679999999999999999864422 1 346789999976665
No 137
>PF13913 zf-C2HC_2: zinc-finger of a C2HC-type
Probab=26.40 E-value=21 Score=23.50 Aligned_cols=17 Identities=18% Similarity=0.352 Sum_probs=13.3
Q ss_pred eEecccccchhhHhhhc
Q psy4384 10 ELFCANCKCWFHESCIS 26 (661)
Q Consensus 10 ~lqC~~C~~wfH~~C~~ 26 (661)
+++|..|++.|..+=+.
T Consensus 2 l~~C~~CgR~F~~~~l~ 18 (25)
T PF13913_consen 2 LVPCPICGRKFNPDRLE 18 (25)
T ss_pred CCcCCCCCCEECHHHHH
Confidence 67899999999766443
No 138
>PLN02320 seryl-tRNA synthetase
Probab=24.38 E-value=1e+02 Score=35.47 Aligned_cols=50 Identities=18% Similarity=0.232 Sum_probs=36.3
Q ss_pred eeEEEecccccCCC--C--CC--CChhhhhcceeeeccCChHHHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENS--K--SR--LHLAEFYMIEAELAFLDNIHDLCNTIEQFIKSVLN 564 (661)
Q Consensus 513 rVyeIg~~FRaE~s--~--t~--RHl~EFtmLE~e~a~~d~~~dlm~~~E~Li~~i~~ 564 (661)
|..++++|||.|.+ + ++ .=.-+|+..|... |+. -++..+..|+|+..+.+
T Consensus 315 Ry~~~s~cFR~EAgs~G~d~rGL~RvhQF~KvE~~i-f~~-peqs~~e~e~ll~~~e~ 370 (502)
T PLN02320 315 KYVAFSHCFRTEAGAAGAATRGLYRVHQFSKVEMFV-ICR-PEESESFHEELIQIEED 370 (502)
T ss_pred eeEEeccccccccccCCCcCCCceeeeeeecccEEE-EEC-HHHHHHHHHHHHHHHHH
Confidence 56789999999976 2 10 1234899999965 665 68888888888876644
No 139
>PRK06253 O-phosphoseryl-tRNA synthetase; Reviewed
Probab=24.15 E-value=72 Score=36.68 Aligned_cols=49 Identities=16% Similarity=0.293 Sum_probs=32.5
Q ss_pred eeEEEecccccCCCCCCCChhhhhcceeeec--cCChHHHHHHHHHHHHHHH
Q psy4384 513 KVYTLNPTFRAENSKSRLHLAEFYMIEAELA--FLDNIHDLCNTIEQFIKSV 562 (661)
Q Consensus 513 rVyeIg~~FRaE~s~t~RHl~EFtmLE~e~a--~~d~~~dlm~~~E~Li~~i 562 (661)
++||||+|||.+...-.+|+..+.....-.+ -.+ +.|+...+|.|++.+
T Consensus 210 RLFEIGRVFr~d~~eE~t~La~llsGs~W~~~e~vD-FfDlKGiLE~LL~~L 260 (529)
T PRK06253 210 KLFSIDRCFRREQREDASRLMTYHSASCVIADEDVT-VDDGKAVAEGLLSQF 260 (529)
T ss_pred EEEEEeeEEecCCccchhheeEEEEccccccCCCCC-HHHHHHHHHHHHHHc
Confidence 8899999998864212347666655532111 134 889999999988754
No 140
>KOG1245|consensus
Probab=23.93 E-value=29 Score=44.68 Aligned_cols=37 Identities=24% Similarity=0.568 Sum_probs=30.7
Q ss_pred cceEecccccchhhHhhhccccCCccccceeEEEEcccCCC
Q psy4384 8 LIELFCANCKCWFHESCISYQIGKLVPFMMNYVFICKNCSN 48 (661)
Q Consensus 8 ~~~lqC~~C~~wfH~~C~~~~~~~~l~~~~~y~F~C~~C~~ 48 (661)
..|+.|+.|.+|||.-|++....++-++++ .|..|..
T Consensus 1121 ~~m~lc~~c~~~~h~~C~rp~~~~~~~~dW----~C~~c~~ 1157 (1404)
T KOG1245|consen 1121 EKMLLCDECLSGFHLFCLRPALSSVPPGDW----MCPSCRK 1157 (1404)
T ss_pred hhhhhhHhhhhhHHHHhhhhhhccCCcCCc----cCCccch
Confidence 479999999999999999976666567775 4999983
No 141
>KOG0383|consensus
Probab=22.47 E-value=54 Score=39.07 Aligned_cols=87 Identities=20% Similarity=0.332 Sum_probs=44.5
Q ss_pred eEecccccchhhHhhhccccCCccccceeEEEEcccCCCCCc--cce----eeccCChHHHHHHHhhhccccccccC-CC
Q psy4384 10 ELFCANCKCWFHESCISYQIGKLVPFMMNYVFICKNCSNTGL--ESF----KKNQAMFPQMCITAIGNLMQTSIKEG-NP 82 (661)
Q Consensus 10 ~lqC~~C~~wfH~~C~~~~~~~~l~~~~~y~F~C~~C~~~g~--e~~----~r~~~~w~~~~~laLynL~~~~~~~~-~~ 82 (661)
-|-|+.|.-|||..|+..+.. +.-.-- |+|..|..... ..- .|-..+|.. ....-+..-...... ..
T Consensus 59 ~l~c~tC~~s~h~~cl~~pl~---~~p~~~-~~c~Rc~~p~~~~k~~~il~~~~~~~~~~--~~~~~~~~~~~~~~~~~~ 132 (696)
T KOG0383|consen 59 LLWCDTCPASFHASCLGPPLT---PQPNGE-FICPRCFCPKNAGKIEKILGWRWKPTPKP--REGNQGVISPRRSNGIVE 132 (696)
T ss_pred EEEeccccHHHHHHccCCCCC---cCCccc-eeeeeeccCCCcccccccceeEecCCCCc--cccCcCccCCcccccchh
Confidence 345999999999999986552 222222 88888853333 111 333333333 000111110000011 12
Q ss_pred ccccccccccHHHHHhchhhc
Q psy4384 83 RFTFSKEKEIIPFIEAHWDGM 103 (661)
Q Consensus 83 k~yF~~~~dI~~fi~~~W~~L 103 (661)
+.||... ...+|...+|..=
T Consensus 133 re~~vk~-qg~s~~~c~~~~e 152 (696)
T KOG0383|consen 133 REFFVKW-QGLSYWHCSWKSE 152 (696)
T ss_pred hhccccc-ccCCccchhHHHH
Confidence 5555544 7888888888654
No 142
>KOG2298|consensus
Probab=22.14 E-value=22 Score=40.04 Aligned_cols=27 Identities=37% Similarity=0.470 Sum_probs=21.6
Q ss_pred EEecccccCCCCC--CCChhhhhcceeee
Q psy4384 516 TLNPTFRAENSKS--RLHLAEFYMIEAEL 542 (661)
Q Consensus 516 eIg~~FRaE~s~t--~RHl~EFtmLE~e~ 542 (661)
+||++||||=|.. --+..||||-|+|-
T Consensus 214 qiG~~fRNEISpRsGLlRvrEF~maEIEH 242 (599)
T KOG2298|consen 214 QIGKSFRNEISPRSGLLRVREFTMAEIEH 242 (599)
T ss_pred HhchHhhhccCcccCceeEEEeehHHhhc
Confidence 7999999997532 23778999999976
Done!