Query psy6240
Match_columns 233
No_of_seqs 166 out of 1376
Neff 6.6
Searched_HMMs 46136
Date Fri Aug 16 21:20:39 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy6240.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/6240hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0018 ArgS Arginyl-tRNA synt 100.0 5.4E-55 1.2E-59 420.6 19.6 203 1-232 48-258 (577)
2 PRK12451 arginyl-tRNA syntheta 100.0 6E-55 1.3E-59 421.4 19.8 203 1-232 46-253 (562)
3 PLN02286 arginine-tRNA ligase 100.0 9.8E-54 2.1E-58 413.8 19.9 203 1-232 44-258 (576)
4 TIGR00456 argS arginyl-tRNA sy 100.0 6.5E-50 1.4E-54 386.8 20.0 204 1-232 45-254 (566)
5 KOG1195|consensus 100.0 4.6E-45 9.9E-50 339.4 13.7 179 26-232 70-250 (567)
6 KOG4426|consensus 100.0 1.6E-42 3.5E-47 318.0 14.8 198 3-231 125-327 (656)
7 PF00750 tRNA-synt_1d: tRNA sy 100.0 7.2E-41 1.6E-45 307.4 12.6 161 45-232 4-164 (354)
8 PRK01611 argS arginyl-tRNA syn 100.0 8.9E-36 1.9E-40 285.0 14.6 149 1-232 49-199 (507)
9 cd00671 ArgRS_core catalytic c 100.0 3.5E-28 7.6E-33 208.7 10.8 59 65-123 1-59 (212)
10 cd00802 class_I_aaRS_core cata 99.5 4.3E-14 9.4E-19 113.8 5.8 56 68-123 1-56 (143)
11 cd00814 MetRS_core catalytic c 98.9 3.7E-09 8.1E-14 96.0 7.9 54 66-119 2-55 (319)
12 cd00668 Ile_Leu_Val_MetRS_core 98.9 3.6E-09 7.8E-14 95.6 7.6 55 65-119 1-55 (312)
13 cd00817 ValRS_core catalytic c 98.9 5.6E-09 1.2E-13 97.2 7.7 56 65-120 2-57 (382)
14 cd00818 IleRS_core catalytic c 98.9 7.3E-09 1.6E-13 95.0 8.1 56 65-120 2-57 (338)
15 cd00812 LeuRS_core catalytic c 98.8 1.2E-08 2.7E-13 92.5 7.2 56 65-120 1-56 (314)
16 PRK12267 methionyl-tRNA synthe 98.7 6E-08 1.3E-12 95.9 9.3 55 64-118 4-58 (648)
17 PRK11893 methionyl-tRNA synthe 98.7 9E-08 2E-12 91.6 9.7 55 64-118 1-55 (511)
18 PLN02224 methionine-tRNA ligas 98.7 6.5E-08 1.4E-12 95.2 8.8 61 61-121 66-126 (616)
19 PRK00260 cysS cysteinyl-tRNA s 98.7 1E-07 2.2E-12 91.0 9.4 58 62-119 20-77 (463)
20 TIGR00398 metG methionyl-tRNA 98.6 9.2E-08 2E-12 92.3 8.4 52 67-118 2-53 (530)
21 PRK13208 valS valyl-tRNA synth 98.6 9.8E-08 2.1E-12 96.5 8.5 57 63-119 37-93 (800)
22 cd00672 CysRS_core catalytic c 98.5 4.7E-07 1E-11 78.2 8.3 58 64-121 19-76 (213)
23 PRK12268 methionyl-tRNA synthe 98.4 5.7E-07 1.2E-11 87.3 8.4 58 64-121 3-61 (556)
24 PTZ00419 valyl-tRNA synthetase 98.4 5.7E-07 1.2E-11 93.0 7.9 56 62-117 58-113 (995)
25 PF00133 tRNA-synt_1: tRNA syn 98.4 1.1E-06 2.4E-11 86.4 9.5 59 62-120 21-79 (601)
26 PLN02943 aminoacyl-tRNA ligase 98.4 6.6E-07 1.4E-11 92.2 8.3 56 62-117 86-141 (958)
27 PLN02381 valyl-tRNA synthetase 98.4 7.3E-07 1.6E-11 92.7 8.6 57 62-118 126-182 (1066)
28 TIGR00435 cysS cysteinyl-tRNA 98.4 1.5E-06 3.2E-11 83.1 10.0 56 63-118 19-74 (465)
29 TIGR00422 valS valyl-tRNA synt 98.4 5.8E-07 1.2E-11 91.7 7.6 58 63-120 32-89 (861)
30 PRK00133 metG methionyl-tRNA s 98.4 1.3E-06 2.9E-11 86.9 9.1 58 64-121 2-59 (673)
31 TIGR00395 leuS_arch leucyl-tRN 98.4 8.6E-07 1.9E-11 91.2 8.0 59 63-121 24-82 (938)
32 PRK14900 valS valyl-tRNA synth 98.3 9.6E-07 2.1E-11 91.8 7.3 57 63-119 47-103 (1052)
33 PRK05729 valS valyl-tRNA synth 98.3 2.8E-06 6E-11 86.9 10.3 53 63-115 35-87 (874)
34 TIGR00396 leuS_bact leucyl-tRN 98.3 1.6E-06 3.5E-11 88.3 8.3 59 62-121 28-86 (842)
35 TIGR00392 ileS isoleucyl-tRNA 98.2 2.3E-06 5E-11 87.3 7.3 58 63-120 35-92 (861)
36 PF09334 tRNA-synt_1g: tRNA sy 98.2 3.2E-06 6.8E-11 79.2 7.2 49 73-121 8-56 (391)
37 COG0525 ValS Valyl-tRNA synthe 98.2 6.3E-06 1.4E-10 83.4 9.3 54 64-117 33-86 (877)
38 PRK00390 leuS leucyl-tRNA synt 98.2 3.6E-06 7.9E-11 85.4 7.7 57 64-121 33-89 (805)
39 PRK05743 ileS isoleucyl-tRNA s 98.2 4.6E-06 9.9E-11 85.7 8.1 59 62-120 47-105 (912)
40 PRK06039 ileS isoleucyl-tRNA s 98.1 5.6E-06 1.2E-10 85.6 7.9 59 62-120 39-97 (975)
41 COG0143 MetG Methionyl-tRNA sy 98.1 6.6E-06 1.4E-10 80.1 7.8 60 63-122 4-63 (558)
42 PRK13804 ileS isoleucyl-tRNA s 98.1 7.2E-06 1.6E-10 84.7 8.3 57 63-119 53-109 (961)
43 cd00674 LysRS_core_class_I cat 98.1 8.4E-06 1.8E-10 75.5 7.4 51 64-115 19-69 (353)
44 PLN02563 aminoacyl-tRNA ligase 98.1 1.1E-05 2.4E-10 83.2 8.0 59 62-121 109-168 (963)
45 PLN02843 isoleucyl-tRNA synthe 98.1 1.5E-05 3.2E-10 82.5 8.9 58 62-119 30-87 (974)
46 PF03485 Arg_tRNA_synt_N: Argi 98.0 2E-06 4.2E-11 63.5 1.3 36 1-37 45-85 (85)
47 PLN02610 probable methionyl-tR 98.0 1.6E-05 3.5E-10 80.6 8.0 59 63-121 16-75 (801)
48 PLN02959 aminoacyl-tRNA ligase 98.0 3.1E-05 6.7E-10 81.0 9.5 62 63-124 44-105 (1084)
49 PRK12418 cysteinyl-tRNA synthe 97.9 6.2E-05 1.3E-09 70.4 10.2 58 63-120 7-64 (384)
50 KOG0435|consensus 97.9 2.5E-05 5.5E-10 76.7 6.5 45 62-107 56-100 (876)
51 PTZ00427 isoleucine-tRNA ligas 97.9 6.3E-05 1.4E-09 79.2 9.8 58 63-120 101-158 (1205)
52 COG0495 LeuS Leucyl-tRNA synth 97.8 1.1E-05 2.4E-10 81.4 3.1 55 65-119 35-89 (814)
53 PLN02882 aminoacyl-tRNA ligase 97.8 7.9E-05 1.7E-09 78.4 9.2 58 63-120 37-94 (1159)
54 TIGR03447 mycothiol_MshC cyste 97.8 0.00013 2.9E-09 68.7 9.4 58 63-120 34-91 (411)
55 PLN02946 cysteine-tRNA ligase 97.5 0.00042 9.1E-09 67.7 9.4 58 62-119 77-134 (557)
56 PRK14536 cysS cysteinyl-tRNA s 97.5 0.00054 1.2E-08 66.1 9.9 54 62-115 20-73 (490)
57 PRK14535 cysS cysteinyl-tRNA s 97.5 0.00069 1.5E-08 67.4 9.7 57 63-119 246-302 (699)
58 PTZ00399 cysteinyl-tRNA-synthe 97.4 0.00087 1.9E-08 66.8 10.0 57 62-118 57-114 (651)
59 PRK00750 lysK lysyl-tRNA synth 97.3 0.00034 7.5E-09 67.8 5.9 50 65-115 24-73 (510)
60 PRK14534 cysS cysteinyl-tRNA s 97.2 0.0023 5E-08 61.6 9.6 51 65-115 21-71 (481)
61 TIGR00467 lysS_arch lysyl-tRNA 97.1 0.00073 1.6E-08 65.6 5.5 49 64-113 18-66 (515)
62 PRK12300 leuS leucyl-tRNA synt 97.0 0.0016 3.4E-08 67.2 7.1 43 79-121 1-43 (897)
63 cd09287 GluRS_non_core catalyt 96.7 0.0011 2.4E-08 58.4 3.1 40 71-112 6-45 (240)
64 PF01406 tRNA-synt_1e: tRNA sy 96.6 0.012 2.5E-07 53.5 9.0 56 62-117 5-60 (300)
65 cd00418 GlxRS_core catalytic c 96.6 0.0011 2.3E-08 58.1 1.8 26 72-97 7-32 (230)
66 cd00807 GlnRS_core catalytic c 96.5 0.0013 2.8E-08 57.8 1.8 35 71-107 6-40 (238)
67 PF00749 tRNA-synt_1c: tRNA sy 96.5 0.0012 2.6E-08 60.3 1.6 38 72-111 7-44 (314)
68 TIGR00463 gltX_arch glutamyl-t 96.3 0.004 8.7E-08 61.0 4.4 46 64-112 92-137 (560)
69 PRK04156 gltX glutamyl-tRNA sy 96.3 0.0043 9.3E-08 60.9 4.5 47 63-112 99-145 (567)
70 PLN03233 putative glutamate-tR 96.2 0.0047 1E-07 60.0 4.2 42 63-107 9-50 (523)
71 TIGR03838 queuosine_YadB gluta 96.2 0.0024 5.2E-08 57.2 1.8 37 72-110 6-42 (272)
72 TIGR00440 glnS glutaminyl-tRNA 96.2 0.0061 1.3E-07 59.2 4.6 34 72-107 6-39 (522)
73 PRK05347 glutaminyl-tRNA synth 96.1 0.0072 1.5E-07 59.1 4.8 39 65-106 29-67 (554)
74 cd00808 GluRS_core catalytic c 96.1 0.0028 6.1E-08 55.8 1.8 25 72-96 7-31 (239)
75 PLN02907 glutamate-tRNA ligase 96.1 0.0063 1.4E-07 61.4 4.4 40 64-106 212-251 (722)
76 COG0008 GlnS Glutamyl- and glu 96.1 0.0028 6.1E-08 60.9 1.9 39 66-107 10-48 (472)
77 PLN02859 glutamine-tRNA ligase 96.1 0.009 1.9E-07 60.5 5.3 33 63-96 262-294 (788)
78 PTZ00437 glutaminyl-tRNA synth 96.1 0.0045 9.8E-08 60.6 3.1 41 63-106 49-89 (574)
79 PRK05710 glutamyl-Q tRNA(Asp) 95.8 0.0044 9.6E-08 56.3 1.8 61 66-130 6-70 (299)
80 PTZ00402 glutamyl-tRNA synthet 95.7 0.0053 1.1E-07 60.5 1.8 42 63-107 50-91 (601)
81 KOG0432|consensus 95.6 0.012 2.6E-07 59.8 4.1 53 62-114 73-125 (995)
82 COG0215 CysS Cysteinyl-tRNA sy 95.6 0.065 1.4E-06 51.4 8.7 51 63-113 20-70 (464)
83 PRK12410 glutamylglutaminyl-tR 95.6 0.006 1.3E-07 58.0 1.8 25 72-96 5-29 (433)
84 PRK14703 glutaminyl-tRNA synth 95.5 0.011 2.4E-07 60.0 3.5 31 65-96 31-61 (771)
85 PF01921 tRNA-synt_1f: tRNA sy 95.4 0.014 3.1E-07 54.2 3.6 52 63-115 22-73 (360)
86 KOG0436|consensus 95.4 0.069 1.5E-06 50.7 8.0 70 74-153 49-118 (578)
87 TIGR00464 gltX_bact glutamyl-t 95.3 0.0089 1.9E-07 57.5 1.9 34 72-107 7-40 (470)
88 PRK12558 glutamyl-tRNA synthet 95.2 0.01 2.2E-07 56.7 1.9 30 66-96 3-32 (445)
89 PRK01406 gltX glutamyl-tRNA sy 95.1 0.012 2.5E-07 56.8 1.9 30 66-96 5-34 (476)
90 PLN02627 glutamyl-tRNA synthet 94.9 0.024 5.1E-07 55.4 3.4 42 63-107 43-84 (535)
91 PRK14895 gltX glutamyl-tRNA sy 94.8 0.015 3.2E-07 56.5 1.9 63 65-131 4-70 (513)
92 COG1384 LysS Lysyl-tRNA synthe 93.0 0.14 2.9E-06 49.7 4.7 51 64-115 19-69 (521)
93 KOG2007|consensus 90.8 0.43 9.3E-06 46.3 5.2 55 63-117 53-108 (586)
94 KOG1148|consensus 89.3 0.67 1.5E-05 45.8 5.2 65 63-128 246-338 (764)
95 COG0060 IleS Isoleucyl-tRNA sy 87.8 1.7 3.6E-05 45.3 7.3 55 64-118 49-103 (933)
96 KOG1147|consensus 83.5 0.86 1.9E-05 44.7 2.6 31 64-95 199-229 (712)
97 KOG0434|consensus 82.6 2.5 5.5E-05 42.8 5.5 46 72-117 46-91 (1070)
98 TIGR00234 tyrS tyrosyl-tRNA sy 80.0 1.8 3.9E-05 40.6 3.4 43 70-118 34-77 (377)
99 PRK08560 tyrosyl-tRNA syntheta 79.9 1.6 3.6E-05 40.0 3.1 43 70-118 34-76 (329)
100 PRK05244 Der GTPase activator; 78.2 4.8 0.0001 34.0 5.0 43 188-232 108-150 (177)
101 cd00805 TyrRS_core catalytic c 78.0 2.1 4.6E-05 38.1 3.1 42 70-117 4-46 (269)
102 TIGR00233 trpS tryptophanyl-tR 77.7 1.8 3.8E-05 39.8 2.6 38 70-113 6-43 (328)
103 COG3078 Uncharacterized protei 77.6 5.5 0.00012 32.7 5.0 45 187-233 108-152 (169)
104 PF04220 YihI: Der GTPase acti 76.9 5.6 0.00012 33.4 5.1 50 178-233 103-152 (169)
105 PRK05912 tyrosyl-tRNA syntheta 72.1 4.2 9.2E-05 38.5 3.6 41 69-115 36-77 (408)
106 PF08373 RAP: RAP domain; Int 72.0 3.1 6.6E-05 27.8 2.0 35 76-110 4-40 (58)
107 PTZ00348 tyrosyl-tRNA syntheta 71.9 4.9 0.00011 40.7 4.1 43 70-117 36-78 (682)
108 PTZ00126 tyrosyl-tRNA syntheta 71.8 4.8 0.0001 37.9 3.9 43 70-117 70-112 (383)
109 cd00806 TrpRS_core catalytic c 71.5 3.9 8.5E-05 36.6 3.1 39 70-113 3-41 (280)
110 cd00395 Tyr_Trp_RS_core cataly 71.2 2.8 6E-05 37.5 2.1 34 70-107 3-37 (273)
111 PRK13354 tyrosyl-tRNA syntheta 70.8 4 8.6E-05 38.7 3.1 43 69-117 36-79 (410)
112 PRK12285 tryptophanyl-tRNA syn 69.9 9.7 0.00021 35.7 5.4 40 70-115 70-109 (368)
113 PRK00927 tryptophanyl-tRNA syn 68.7 3.5 7.7E-05 37.9 2.3 43 70-118 5-47 (333)
114 COG0162 TyrS Tyrosyl-tRNA synt 65.0 7.1 0.00015 37.1 3.5 40 68-113 34-74 (401)
115 PF00579 tRNA-synt_1b: tRNA sy 64.6 4.2 9.1E-05 36.3 1.9 42 70-117 9-50 (292)
116 PRK12282 tryptophanyl-tRNA syn 63.6 7.4 0.00016 35.9 3.3 41 70-117 6-47 (333)
117 KOG1149|consensus 60.5 5.7 0.00012 38.2 2.0 29 66-95 34-62 (524)
118 KOG0437|consensus 59.0 11 0.00023 38.8 3.6 65 62-126 42-106 (1080)
119 PRK12556 tryptophanyl-tRNA syn 55.3 10 0.00022 35.0 2.7 38 70-113 7-46 (332)
120 PRK12284 tryptophanyl-tRNA syn 54.6 12 0.00026 35.9 3.1 38 70-113 6-45 (431)
121 KOG0433|consensus 54.1 12 0.00026 38.4 3.1 44 75-118 66-109 (937)
122 PLN02886 aminoacyl-tRNA ligase 52.9 10 0.00023 35.8 2.4 39 69-113 49-87 (389)
123 KOG1118|consensus 52.7 2E+02 0.0042 26.8 10.9 32 89-127 88-119 (366)
124 PRK12283 tryptophanyl-tRNA syn 52.0 12 0.00026 35.5 2.6 41 70-117 6-47 (398)
125 COG0180 TrpS Tryptophanyl-tRNA 47.1 23 0.00051 32.5 3.7 59 70-133 9-81 (314)
126 PF09456 RcsC: RcsC Alpha-Beta 45.9 16 0.00034 27.6 1.9 25 84-108 6-30 (92)
127 COG2945 Predicted hydrolase of 43.1 27 0.00059 30.2 3.2 47 74-121 34-86 (210)
128 PLN02486 aminoacyl-tRNA ligase 43.1 34 0.00074 32.2 4.2 38 70-113 77-116 (383)
129 TIGR01837 PHA_granule_1 poly(h 42.1 1.4E+02 0.003 23.3 6.9 23 206-228 70-92 (118)
130 PF00750 tRNA-synt_1d: tRNA sy 41.4 23 0.00051 32.7 2.8 17 215-231 151-167 (354)
131 PF04028 DUF374: Domain of unk 38.1 32 0.00069 24.8 2.5 20 89-108 21-40 (74)
132 cd02156 nt_trans nucleotidyl t 36.7 14 0.00031 27.5 0.5 13 72-85 5-17 (105)
133 PF12324 HTH_15: Helix-turn-he 34.3 1.3E+02 0.0028 22.0 5.2 49 184-233 21-70 (77)
134 TIGR00125 cyt_tran_rel cytidyl 31.9 14 0.00031 24.7 -0.2 8 78-85 10-17 (66)
135 PF10137 TIR-like: Predicted n 31.0 46 0.001 26.3 2.6 36 81-116 4-39 (125)
136 PRK12558 glutamyl-tRNA synthet 30.2 33 0.00072 33.0 1.9 34 192-232 37-70 (445)
137 PF03068 PAD: Protein-arginine 29.1 44 0.00096 31.6 2.5 40 70-115 318-357 (385)
138 PF12645 HTH_16: Helix-turn-he 28.3 55 0.0012 22.8 2.4 39 194-232 5-47 (65)
139 COG1832 Predicted CoA-binding 27.0 99 0.0022 25.1 3.9 37 62-109 15-51 (140)
140 cd05212 NAD_bind_m-THF_DH_Cycl 26.7 60 0.0013 26.1 2.6 26 83-108 34-59 (140)
141 cd07381 MPP_CapA CapA and rela 26.4 50 0.0011 28.2 2.2 26 91-116 67-94 (239)
142 TIGR01510 coaD_prev_kdtB pante 24.9 22 0.00048 28.7 -0.2 8 78-85 10-17 (155)
143 PRK10976 putative hydrolase; P 24.6 81 0.0018 27.1 3.3 45 67-123 181-225 (266)
144 PF08494 DEAD_assoc: DEAD/H as 24.5 1.2E+02 0.0025 25.4 4.1 53 62-115 4-60 (187)
145 COG2185 Sbm Methylmalonyl-CoA 24.2 63 0.0014 26.4 2.3 28 76-106 18-45 (143)
146 PRK00168 coaD phosphopantethei 23.7 25 0.00054 28.6 -0.2 16 67-85 4-19 (159)
147 PF09587 PGA_cap: Bacterial ca 23.3 68 0.0015 27.7 2.5 25 92-116 66-92 (250)
148 cd03413 CbiK_C Anaerobic cobal 22.4 64 0.0014 24.4 1.9 27 82-108 70-99 (103)
149 PF01927 Mut7-C: Mut7-C RNAse 22.0 69 0.0015 25.7 2.1 21 89-113 9-29 (147)
150 cd02163 PPAT Phosphopantethein 22.0 28 0.00061 28.1 -0.2 8 78-85 10-17 (153)
151 PF09886 DUF2113: Uncharacteri 21.9 3.3E+02 0.0072 23.2 6.3 84 28-113 70-160 (188)
152 PF06757 Ins_allergen_rp: Inse 21.7 2.3E+02 0.005 23.3 5.3 59 163-231 114-173 (179)
153 smart00854 PGA_cap Bacterial c 21.7 70 0.0015 27.4 2.3 28 90-117 62-91 (239)
154 PF08608 Wyosine_form: Wyosine 20.4 78 0.0017 22.0 1.8 35 76-110 10-54 (62)
155 PF00994 MoCF_biosynth: Probab 20.2 1.1E+02 0.0024 24.0 3.0 36 88-123 17-52 (144)
156 PF09824 ArsR: ArsR transcript 20.0 2.5E+02 0.0054 23.3 5.0 64 162-226 68-148 (160)
No 1
>COG0018 ArgS Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=100.00 E-value=5.4e-55 Score=420.60 Aligned_cols=203 Identities=25% Similarity=0.440 Sum_probs=176.6
Q ss_pred CccccccCchhhhhhhccc-cCCC---ceEEecC-CeEEEEeChhhHHHHHHhccCC-Cccccccc-CCCceEEEEecCC
Q psy6240 1 MVKTFTIHYHIIDGSENIN-IRGG---TQFHIDD-DNVILPVDKTEFITQVLTSTGD-KHVYKTQL-NCTDKVVVEFSSP 73 (233)
Q Consensus 1 ~ak~~~~~p~~ia~~~~~~-~~~~---~~v~~~g-gfINf~l~~~~~~~~vl~~~~~-~~~~g~~~-~~~~~v~VE~sSp 73 (233)
|||.++++|++|| ++|++ +... ..|+++| |||||++++.++.+.+.+.+.. +..||... ++|++|+||||||
T Consensus 48 laK~~~~~P~eiA-~~i~~~l~~~~~~~~veiaGpgfINf~l~~~~~~~~~~~~l~~~~~~~G~~~~~~~~kV~iE~sSa 126 (577)
T COG0018 48 LAKKLGKNPREIA-EEIAEKLDTDEIIEKVEIAGPGFINFFLSPEFLAELLLEILEKGDDRYGRSKLGKGKKVVIEYSSA 126 (577)
T ss_pred HhhhcCCCHHHHH-HHHHHhccccCcEeEEEEcCCCEEEEEECHHHHHHHHHHHHHhcccccCccccCCCCEEEEEEeCC
Confidence 6899999999996 88877 4433 2399999 9999999999998777776654 45577654 6799999999999
Q ss_pred CCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHHHHHHhhccCcCcccCCchHHHHHHHHHHHHhh
Q psy6240 74 NIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQIGLKELNIKHTDLEQSPLDVLYKAYVKANELA 153 (233)
Q Consensus 74 Np~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~~~~~~~~~~~~~~~~~~~~~l~~~Y~~~~~~~ 153 (233)
||||||||||+|||||||+|||||+++||+|+|+|||||||+||++|++|+.+++.+......+|++++++.|+++++
T Consensus 127 NptkplHiGHlR~aiiGDsLaril~~~Gy~V~r~~yvnD~G~Q~~~l~~~~~~~~~e~~~~~~~~~~~lg~~y~~i~~-- 204 (577)
T COG0018 127 NPTGPLHIGHLRNAIIGDSLARILEFLGYDVTRENYVNDWGTQIGMLALSYEKRGREALGLTPEPDGYLGEYYVKIAK-- 204 (577)
T ss_pred CCCCCcccchhhhhHHHHHHHHHHHHcCCCeeEEeeECcHHHHHHHHHHHHHHhccccccCCCCcchHHHHHHHHHHH--
Confidence 999999999999999999999999999999999999999999999999999998753221356678999999999887
Q ss_pred ccCCccccccchhHHHHHHHhhhHhhcCCchHH-HHHHHHHHHHhcCCchhhHHHHHHHHHHHHHHHHHHhhhcCCcccC
Q psy6240 154 KINPDVQEQAPLDVLYKAYVKANDLAKINPDVQ-EQASNIFQQLECGKNTLHTKDWLDFQQVTLNELRGTYERLGIHFSV 232 (233)
Q Consensus 154 ~~~~~~~~~~p~~~y~g~y~~~~~~~~~d~~~~-~~a~~~~~~le~gd~~~~~~~w~~~~~~sl~~~~~~~~rlgi~FD~ 232 (233)
.++++|... +++++++.++|.+|++. ++|++++++|++++++||++|||+||.
T Consensus 205 ------------------------~~~~~~~~~~~~~~~~~~k~e~~d~~~--~lw~~~v~~~l~~~k~~l~~l~V~fD~ 258 (577)
T COG0018 205 ------------------------DLEEDPGNDEEEAREEVEKLESGDEEA--ELWRKFVDLSLEGIKETLDRLGVKFDV 258 (577)
T ss_pred ------------------------HHHhCcccchHHHHHHHHHHhcCChHH--HHHHHHHHHHHHHHHHHHHHhCcccce
Confidence 555565533 88999999999999887 899999999999999999999999996
No 2
>PRK12451 arginyl-tRNA synthetase; Reviewed
Probab=100.00 E-value=6e-55 Score=421.38 Aligned_cols=203 Identities=31% Similarity=0.542 Sum_probs=177.6
Q ss_pred CccccccCchhhhhhhccccCCC---ceEEecCCeEEEEeChhhHHHHHHhcc-CCCccccccc-CCCceEEEEecCCCC
Q psy6240 1 MVKTFTIHYHIIDGSENINIRGG---TQFHIDDDNVILPVDKTEFITQVLTST-GDKHVYKTQL-NCTDKVVVEFSSPNI 75 (233)
Q Consensus 1 ~ak~~~~~p~~ia~~~~~~~~~~---~~v~~~ggfINf~l~~~~~~~~vl~~~-~~~~~~g~~~-~~~~~v~VE~sSpNp 75 (233)
|||.++++|+.|| ++|+...+. ..|+++||||||+|++.++.+.++..+ ..+..||... +++++|+||||||||
T Consensus 46 lak~~~~~P~~iA-~~i~~~l~~~~i~~ve~~g~fiN~~l~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~v~vE~sSpNp 124 (562)
T PRK12451 46 LAKQYKKAPAIIA-KEVAEKLSDPFFTKVEAVGPYVNVFFNRETVSDAVLKTILAEKEEYGQNHFGCEKTVVIDYSSPNI 124 (562)
T ss_pred HHHHcCCCHHHHH-HHHHHhccccccceeEeeCCEEEEEECHHHHHHHHHHHHHhhHhhcCCCccCCCCEEEEEecCCCC
Confidence 5899999999996 787664332 238999999999999999987777554 3445688643 458999999999999
Q ss_pred CCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHHHHHHhhccCcCcccCCchHHHHHHHHHHHHhhcc
Q psy6240 76 AKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQIGLKELNIKHTDLEQSPLDVLYKAYVKANELAKI 155 (233)
Q Consensus 76 ~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~~~~~~~~~~~~~~~~~~~~~l~~~Y~~~~~~~~~ 155 (233)
||||||||+|||||||+|||||+++||+|+|+|||||||+|||++++++.+++. +.....+|++++..+|+++++
T Consensus 125 ~kplHvGH~R~aiiGd~l~ril~~~G~~V~r~nyinD~G~Q~~~l~~~~~~~~~-~~~~~~~~~~~l~~~Y~~~~~---- 199 (562)
T PRK12451 125 AKPFSMGHLRSTMIGNALKHIAEKCGYEVVGINYIGDWGTQFGKLITAYKKWGN-EAVVKEDPIRELFKLYVQFHE---- 199 (562)
T ss_pred CCCcccchhhhHHHHHHHHHHHHHCCCCeEEEeeecCchHHHHHHHHHHHHhCC-ccccccCchHHHHHHHHHHHH----
Confidence 999999999999999999999999999999999999999999999999988764 233455677888888888776
Q ss_pred CCccccccchhHHHHHHHhhhHhhcCCchHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHHHHHHHhhhcCCcccC
Q psy6240 156 NPDVQEQAPLDVLYKAYVKANDLAKINPDVQEQASNIFQQLECGKNTLHTKDWLDFQQVTLNELRGTYERLGIHFSV 232 (233)
Q Consensus 156 ~~~~~~~~p~~~y~g~y~~~~~~~~~d~~~~~~a~~~~~~le~gd~~~~~~~w~~~~~~sl~~~~~~~~rlgi~FD~ 232 (233)
.++++|++++++++++.+||+||++.. ++|++++++|+++|++||++|||+||.
T Consensus 200 ----------------------~~~~~~~~~~~~~~~~~~le~gd~~~~-~~w~~~~~~~l~~~~~~~~~l~V~fD~ 253 (562)
T PRK12451 200 ----------------------EVKDDEELEEEGRAWFKKLEEGDEEAV-ELWNWFRHESLKEFSRIYELLGVEFTN 253 (562)
T ss_pred ----------------------hhccChhHHHHHHHHHHHhhCCCHHHH-HHHHHHHHHHHHHHHHHHHHcCCCcee
Confidence 778888999999999999999999999 999999999999999999999999994
No 3
>PLN02286 arginine-tRNA ligase
Probab=100.00 E-value=9.8e-54 Score=413.78 Aligned_cols=203 Identities=22% Similarity=0.336 Sum_probs=172.5
Q ss_pred Cccccc------cCchhhhhhhccccCC-C---ceEEecC-CeEEEEeChhhHHHHHHhccCCCcccccccCCCceEEEE
Q psy6240 1 MVKTFT------IHYHIIDGSENINIRG-G---TQFHIDD-DNVILPVDKTEFITQVLTSTGDKHVYKTQLNCTDKVVVE 69 (233)
Q Consensus 1 ~ak~~~------~~p~~ia~~~~~~~~~-~---~~v~~~g-gfINf~l~~~~~~~~vl~~~~~~~~~g~~~~~~~~v~VE 69 (233)
|||.++ ++|+.|| ++|++..+ . +.|+++| |||||+|++.++.+.+......+..||.....+++|+||
T Consensus 44 lak~~~~~~~~~k~P~~iA-~~i~~~l~~~~~i~~v~vagpGfiNf~l~~~~l~~~l~~~~~~~~~~g~~~~~~~~v~VE 122 (576)
T PLN02286 44 LWSKLKGKGTSFKNPRAVA-QAIVKNLPASEMIESTSVAGPGFVNVRLSASWLAKRIERMLVDGIDTWAPTLPVKRAVVD 122 (576)
T ss_pred HHHHhCccccccCCHHHHH-HHHHHhCccccceeeEEEcCCCeEEEEECHHHHHHHHHHHHHcCcccCCCCCCCceEEEE
Confidence 589999 9999996 88876332 2 2389999 799999999999877665544445565433456899999
Q ss_pred ecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHHHHHHh-hccCcCcccCCchHHHHHHHHH
Q psy6240 70 FSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQIGLKE-LNIKHTDLEQSPLDVLYKAYVK 148 (233)
Q Consensus 70 ~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~~~~~~-~~~~~~~~~~~~~~~l~~~Y~~ 148 (233)
||||||||||||||+|||||||+|||||+++||+|+|+|||||||+|||+|++++.. ++. +......|++++..+|++
T Consensus 123 fsSpNp~kplHvGHlRsaiiGdsLaril~~~G~~V~r~nyinD~G~Qi~~l~~~~~~~~~~-~~~~~~~~i~~l~~~Y~~ 201 (576)
T PLN02286 123 FSSPNIAKEMHVGHLRSTIIGDTLARMLEFSGVEVLRRNHVGDWGTQFGMLIEHLFEKFPN-WESVSDQAIGDLQEFYKA 201 (576)
T ss_pred ecCCCCCCCCccccccchhhHHHHHHHHHHcCCceEEEEeecchHHHHHHHHHHHHHhcCc-ccccCcccHHHHHHHHHH
Confidence 999999999999999999999999999999999999999999999999999999965 332 222344567777777877
Q ss_pred HHHhhccCCccccccchhHHHHHHHhhhHhhcCCchHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHHHHHHHhhhcCC
Q psy6240 149 ANELAKINPDVQEQAPLDVLYKAYVKANDLAKINPDVQEQASNIFQQLECGKNTLHTKDWLDFQQVTLNELRGTYERLGI 228 (233)
Q Consensus 149 ~~~~~~~~~~~~~~~p~~~y~g~y~~~~~~~~~d~~~~~~a~~~~~~le~gd~~~~~~~w~~~~~~sl~~~~~~~~rlgi 228 (233)
+++ .++++|++.+++++++.+||+||++.. ++|++++++|+++|+++|++|||
T Consensus 202 ~~~--------------------------~~~~~~~~~~~~~~~~~~le~gd~~~~-~lw~~~~~~~~~~~~~~y~~l~V 254 (576)
T PLN02286 202 AKK--------------------------RFDEDEEFKARAQQAVVRLQGGDPEYR-AAWAKICEISRREFEKVYQRLRV 254 (576)
T ss_pred hhh--------------------------hccCCHHHHHHHHHHHHHHHcCCHHHH-HHHHHHHHHHHHHHHHHHHHhCC
Confidence 776 677788999999999999999999999 99999999999999999999999
Q ss_pred cccC
Q psy6240 229 HFSV 232 (233)
Q Consensus 229 ~FD~ 232 (233)
+||.
T Consensus 255 ~fd~ 258 (576)
T PLN02286 255 ELEE 258 (576)
T ss_pred eeee
Confidence 9995
No 4
>TIGR00456 argS arginyl-tRNA synthetase. This model recognizes arginyl-tRNA synthetase in every completed genome to date. An interesting feature of the alignment of all arginyl-tRNA synthetases is a fairly deep split between two families. One family includes archaeal, eukaryotic and organellar, spirochete, E. coli, and Synechocystis sp. The second, sharing a deletion of about 25 residues in the central region relative to the first, includes Bacillus subtilis, Aquifex aeolicus, the Mycoplasmas and Mycobacteria, and the Gram-negative bacterium Helicobacter pylori.
Probab=100.00 E-value=6.5e-50 Score=386.79 Aligned_cols=204 Identities=25% Similarity=0.478 Sum_probs=171.8
Q ss_pred CccccccCchhhhhhhccccCC-C---ceEEecCCeEEEEeChhhHHHHHHhcc-CCCcccccccCCCceEEEEecCCCC
Q psy6240 1 MVKTFTIHYHIIDGSENINIRG-G---TQFHIDDDNVILPVDKTEFITQVLTST-GDKHVYKTQLNCTDKVVVEFSSPNI 75 (233)
Q Consensus 1 ~ak~~~~~p~~ia~~~~~~~~~-~---~~v~~~ggfINf~l~~~~~~~~vl~~~-~~~~~~g~~~~~~~~v~VE~sSpNp 75 (233)
|||.++++|++|| ++|..... . ..|+++||||||+|++.++.+.++..+ ..+..||.....+++|+||||||||
T Consensus 45 lak~~~~~P~~iA-~~i~~~l~~~~~i~~ve~~gpfiN~~l~~~~~~~~~~~~~~~~~~~~g~~~~~~~~v~ve~~spn~ 123 (566)
T TIGR00456 45 LAKVLKKNPRAIA-EEIVLKLKTGEIIEKVEAAGPFINFFLSPQKLLERLIQKILTQKEDYGSKKLKNKKIIIEFSSANP 123 (566)
T ss_pred HHHHcCCCHHHHH-HHHHHhCCCcCcEeEEEEeCCEEEEEEcHHHHHHHHHHHHHhcccccCCCCCCCCeEEEEecCCCC
Confidence 5799999999996 88866332 2 238999999999999989988877654 3456788643337899999999999
Q ss_pred CCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHHHHHHhhccCcC-cccCCchHHHHHHHHHHHHhhc
Q psy6240 76 AKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQIGLKELNIKHT-DLEQSPLDVLYKAYVKANELAK 154 (233)
Q Consensus 76 ~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~~~~~~~~~~~~-~~~~~~~~~l~~~Y~~~~~~~~ 154 (233)
+|||||||+||+++||+|+|+|+++||+|.|+|||||||+|||++++|+.+++.+.. +...
T Consensus 124 ~~~~hiGh~r~~~~gd~l~r~~~~~g~~v~r~~yinD~G~Q~~~l~~~~~~~~~~~~~~~~~------------------ 185 (566)
T TIGR00456 124 AGPLHIGHLRNAIIGDSLARILEFLGYDVIREYYVNDWGRQFGLLALGVEKFGNEKLNEAVK------------------ 185 (566)
T ss_pred CCCCchhhhHHHHHHHHHHHHHHHCCCCeeEEeeecchHHHHHHHHHHHHHhCCccccCccc------------------
Confidence 999999999999999999999999999999999999999999999999988763210 1122
Q ss_pred cCCccccccchhHHHHHHHhhhHhhcCCchHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHHHHHHHhhhcCCcccC
Q psy6240 155 INPDVQEQAPLDVLYKAYVKANDLAKINPDVQEQASNIFQQLECGKNTLHTKDWLDFQQVTLNELRGTYERLGIHFSV 232 (233)
Q Consensus 155 ~~~~~~~~~p~~~y~g~y~~~~~~~~~d~~~~~~a~~~~~~le~gd~~~~~~~w~~~~~~sl~~~~~~~~rlgi~FD~ 232 (233)
.|.+.|.|.|+..++.+++++++++++++++.+||.||++.. ++|+.++++|+++++++|++|||+||.
T Consensus 186 --------~~~~~~~~~Y~~~~~~~~~~~~~~~~~~~~~~~le~~d~~~~-~~w~~~~~~~l~~~~~~~~~l~V~fD~ 254 (566)
T TIGR00456 186 --------KPDHGLEGFYVEINKRLEENEELEEEARELFVKLESGDEEAI-KLWKRLVEYSLEGIKETLARLNIHFDS 254 (566)
T ss_pred --------CChHHHHHHHHHHHHHHhhCccHHHHHHHHHHhccCCCHHHH-HHHHHHHHHHHHHHHHHHHHcCCceee
Confidence 344455555555555888899999999999999999999999 999999999999999999999999995
No 5
>KOG1195|consensus
Probab=100.00 E-value=4.6e-45 Score=339.42 Aligned_cols=179 Identities=40% Similarity=0.708 Sum_probs=165.7
Q ss_pred EEecCCeEEEEeChhhHHHHHHhccC-CCcccccc-cCCCceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCe
Q psy6240 26 FHIDDDNVILPVDKTEFITQVLTSTG-DKHVYKTQ-LNCTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANN 103 (233)
Q Consensus 26 v~~~ggfINf~l~~~~~~~~vl~~~~-~~~~~g~~-~~~~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~ 103 (233)
|.+-|.|++|+|++..+++.++..+. ....||.. .+.+++|||||||||++|||||||+|+|+||..++|+.++.||+
T Consensus 70 ~~~~~~~~~f~ln~~~~~k~~l~~i~~~~~~~g~~~~~~~k~iVVefSSPNIAK~FHvGhLRsTiiG~flanl~e~~G~~ 149 (567)
T KOG1195|consen 70 VGASGPFVQFFLNRRRLIKSVLPIIEEQREKYGKNELGSGKKIVVEFSSPNIAKPFHVGHLRSTIIGNFLANLHEALGWE 149 (567)
T ss_pred HhcCCCeEEEEecHHHHHHHHHHHHHHHhcccCccccccCceEEEEecCCCcccccccchhhhhhhhhHhhhhHHhhCCc
Confidence 56677899999999999999988764 44568875 36799999999999999999999999999999999999999999
Q ss_pred eEEEeeeCchhhHHHHHHHHHHhhccCcCcccCCchHHHHHHHHHHHHhhccCCccccccchhHHHHHHHhhhHhhcCCc
Q psy6240 104 VVCLNYLGDWGTQFGLLQIGLKELNIKHTDLEQSPLDVLYKAYVKANELAKINPDVQEQAPLDVLYKAYVKANDLAKINP 183 (233)
Q Consensus 104 V~r~nyinD~G~Q~~~l~~~~~~~~~~~~~~~~~~~~~l~~~Y~~~~~~~~~~~~~~~~~p~~~y~g~y~~~~~~~~~d~ 183 (233)
|+|.||+||||+|||+++.|+.++|. ++++..+|++||+++|+++|+ .+++++
T Consensus 150 Vtr~NYLGDWGkQFgll~~g~~~~g~-e~~L~~~pI~hL~dvYVk~nk--------------------------~~~~~~ 202 (567)
T KOG1195|consen 150 VTRVNYLGDWGKQFGLLALGFQLYGD-EEELQLNPIKHLFDVYVKINK--------------------------DAEKDP 202 (567)
T ss_pred eeehhhhhHHHHHhhHHhccHHhhCc-hhhhccchHHHHHHHHHHhhh--------------------------hhhhCc
Confidence 99999999999999999999999986 677889999999999999998 566678
Q ss_pred hHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHHHHHHHhhhcCCcccC
Q psy6240 184 DVQEQASNIFQQLECGKNTLHTKDWLDFQQVTLNELRGTYERLGIHFSV 232 (233)
Q Consensus 184 ~~~~~a~~~~~~le~gd~~~~~~~w~~~~~~sl~~~~~~~~rlgi~FD~ 232 (233)
+..++|+++|+++|.||++.+ .+|++|++.|++.+.++|+||||+||+
T Consensus 203 ~~~~~are~f~rlE~~d~e~~-k~Wqrfr~lsIe~l~~~Y~Rl~v~FD~ 250 (567)
T KOG1195|consen 203 DTAEEAREFFKRLEDGDEEHL-KLWQRFRDLSIEKLIKTYNRLNVKFDE 250 (567)
T ss_pred chHHHHHHHHHHHhcccHHHH-HHHHHhhhhhHHHHHHHHHHhceeeee
Confidence 889999999999999999999 999999999999999999999999996
No 6
>KOG4426|consensus
Probab=100.00 E-value=1.6e-42 Score=318.01 Aligned_cols=198 Identities=25% Similarity=0.358 Sum_probs=161.3
Q ss_pred cccccCchhhhhhhccccCCCce----EEecC-CeEEEEeChhhHHHHHHhccCCCcccccccCCCceEEEEecCCCCCC
Q psy6240 3 KTFTIHYHIIDGSENINIRGGTQ----FHIDD-DNVILPVDKTEFITQVLTSTGDKHVYKTQLNCTDKVVVEFSSPNIAK 77 (233)
Q Consensus 3 k~~~~~p~~ia~~~~~~~~~~~~----v~~~g-gfINf~l~~~~~~~~vl~~~~~~~~~g~~~~~~~~v~VE~sSpNp~k 77 (233)
|...+.|+.|| +++....|.+. ++++| ||||++|+.++..+++-.-...|-..+. -..++|+|||||||++|
T Consensus 125 kg~~~~P~~va-~~l~~~lP~se~vEk~~iagpGFiNv~Ls~d~~~~~i~nll~~GV~~P~--l~~KrvlVDFSSPNIAK 201 (656)
T KOG4426|consen 125 KGINKRPRDVA-QELQKHLPTSEMVEKCEIAGPGFINVFLSKDYMSKQISNLLVNGVKLPT--LSVKRVLVDFSSPNIAK 201 (656)
T ss_pred cCCccCcHHHH-HHHHhhCCchhhhhhhcccCCceEEEEechHHHHHHHHHHHHcCCCCcc--cceeeEEEecCCCcHHH
Confidence 44566799996 99999877754 78999 9999999988777655333333333222 23589999999999999
Q ss_pred CcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHHHHHHhhccCcCcccCCchHHHHHHHHHHHHhhccCC
Q psy6240 78 PFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQIGLKELNIKHTDLEQSPLDVLYKAYVKANELAKINP 157 (233)
Q Consensus 78 pLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~~~~~~~~~~~~~~~~~~~~~l~~~Y~~~~~~~~~~~ 157 (233)
.|||||+|||||||+|||+|++.|++|.|.|||||||+|||||+..+...- +.-.....|+..|...|.+.
T Consensus 202 eMHVGHLRSTIIGdsl~RllE~~~~dVlR~NHvGDWGTQFGMLIahL~dkF-Pd~l~vsp~IgDLQvFYkeS-------- 272 (656)
T KOG4426|consen 202 EMHVGHLRSTIIGDSLCRLLEFSGVDVLRRNHVGDWGTQFGMLIAHLFDKF-PDYLSVSPPIGDLQVFYKES-------- 272 (656)
T ss_pred HhhhhhhhhhhHhHHHHHHHHhcCcceEeeccccchHHHHHHHHHHHHHhC-CchhccCCCchhHHHHHHHH--------
Confidence 999999999999999999999999999999999999999999998876531 11122223455555555543
Q ss_pred ccccccchhHHHHHHHhhhHhhcCCchHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHHHHHHHhhhcCCccc
Q psy6240 158 DVQEQAPLDVLYKAYVKANDLAKINPDVQEQASNIFQQLECGKNTLHTKDWLDFQQVTLNELRGTYERLGIHFS 231 (233)
Q Consensus 158 ~~~~~~p~~~y~g~y~~~~~~~~~d~~~~~~a~~~~~~le~gd~~~~~~~w~~~~~~sl~~~~~~~~rlgi~FD 231 (233)
+.++++||+|+++|.+.+.+||.|||..+ +.|..++++|..+++.+|+||+|+..
T Consensus 273 ------------------KkrFD~deeFKkrAyq~VV~LQggdp~~~-kAW~~ICdvSr~ef~kvY~rLdi~l~ 327 (656)
T KOG4426|consen 273 ------------------KKRFDEDEEFKKRAYQAVVRLQGGDPDIR-KAWALICDVSRKEFQKVYNRLDISLK 327 (656)
T ss_pred ------------------HhccCcCHHHHHHHHHHeeecccCCChHH-HHHHHHHHhhHHHHHHHHHHhcchHh
Confidence 33889999999999999999999999999 99999999999999999999999753
No 7
>PF00750 tRNA-synt_1d: tRNA synthetases class I (R); InterPro: IPR015945 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 represents the core region of arginyl-tRNA synthetase (6.1.1.19 from EC), which has been crystallized and preliminary X-ray crystallographic analysis of yeast arginyl-tRNA synthetase-yeast tRNAArg complexes is available []. ; GO: 0000166 nucleotide binding, 0004814 arginine-tRNA ligase activity, 0005524 ATP binding, 0006420 arginyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 2ZUE_A 2ZUF_A 3FNR_A 1IQ0_A 1F7V_A 1F7U_A 1BS2_A 3GDZ_B.
Probab=100.00 E-value=7.2e-41 Score=307.43 Aligned_cols=161 Identities=35% Similarity=0.562 Sum_probs=119.7
Q ss_pred HHHhccCCCcccccccCCCceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHHHHH
Q psy6240 45 QVLTSTGDKHVYKTQLNCTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQIGL 124 (233)
Q Consensus 45 ~vl~~~~~~~~~g~~~~~~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~~~~ 124 (233)
++|.. +..|+...+++++|+||||||||||||||||+|||||||+|||||+++||+|+|+|||||||+|||+|++|+
T Consensus 4 ~il~~---~~~y~~~~~~~~kv~VE~sSpNp~kplHvGHlR~~iiGd~laril~~~G~~V~r~nyigD~G~Q~~~l~~~~ 80 (354)
T PF00750_consen 4 EILEK---GEEYGSEKGKGKKVVVEFSSPNPTKPLHVGHLRNTIIGDSLARILEAAGYDVTRENYIGDWGTQIGLLAASY 80 (354)
T ss_dssp HHHHH---GGGTT--TTTSEEEEEEE---BTTSS-BHHHHHHHHHHHHHHHHHHHTTEEEEEEEEEBTTSHHHHHHHHHH
T ss_pred HHHhc---chhcccccCCCCEEEEEecCCCCCCCCcCCcchhhhhhHHHHHHHHHcCCeeeeEEEECCCCHHHHHHHHHH
Confidence 45544 356744457899999999999999999999999999999999999999999999999999999999999999
Q ss_pred HhhccCcCcccCCchHHHHHHHHHHHHhhccCCccccccchhHHHHHHHhhhHhhcCCchHHHHHHHHHHHHhcCCchhh
Q psy6240 125 KELNIKHTDLEQSPLDVLYKAYVKANELAKINPDVQEQAPLDVLYKAYVKANDLAKINPDVQEQASNIFQQLECGKNTLH 204 (233)
Q Consensus 125 ~~~~~~~~~~~~~~~~~l~~~Y~~~~~~~~~~~~~~~~~p~~~y~g~y~~~~~~~~~d~~~~~~a~~~~~~le~gd~~~~ 204 (233)
.+++. ++.....|+.++.+.|+..+......+. ..+..+++.+++++++.++|+||++..
T Consensus 81 ~~~~~-~~~~~~~~~~~l~~~Y~~~~~~~~~~~~-------------------~~~~~~~~~~~~~~~~~~le~gd~~~~ 140 (354)
T PF00750_consen 81 KKFGD-EELLEEDPIKHLEDLYVGANKRDEADEI-------------------AEKEPEELEEEAREYLKKLEQGDEEFR 140 (354)
T ss_dssp HHHHH-HHTSHSSCHHHHHHHHHHHHHHHHHTTC-------------------SSGCCCCHHHHHHHHHHHHHHCCTTHH
T ss_pred Hhhhh-hhhcccccccchhhhhhhhhhhhhhhhh-------------------ccccccccccccceeeeecccccHHHH
Confidence 99764 2233457888888989887652221110 012234589999999999999999987
Q ss_pred HHHHHHHHHHHHHHHHHHhhhcCCcccC
Q psy6240 205 TKDWLDFQQVTLNELRGTYERLGIHFSV 232 (233)
Q Consensus 205 ~~~w~~~~~~sl~~~~~~~~rlgi~FD~ 232 (233)
++|+. .+++.++++|++|+|+||+
T Consensus 141 -~~~~~---~~~~~~k~~l~~l~i~fDv 164 (354)
T PF00750_consen 141 -ELWQK---YILEWSKETLQRLYIRFDV 164 (354)
T ss_dssp -HHHHH---HHHHHHHHHHHHTT---SE
T ss_pred -HHHHH---HHHHHHHHHHHHHHHHhCc
Confidence 88886 2455566677777777764
No 8
>PRK01611 argS arginyl-tRNA synthetase; Reviewed
Probab=100.00 E-value=8.9e-36 Score=285.01 Aligned_cols=149 Identities=29% Similarity=0.449 Sum_probs=129.3
Q ss_pred CccccccCchhhhhhhccccCCCceEEecC-CeEEEEeChhhHHHHHHhccCCCccccccc-CCCceEEEEecCCCCCCC
Q psy6240 1 MVKTFTIHYHIIDGSENINIRGGTQFHIDD-DNVILPVDKTEFITQVLTSTGDKHVYKTQL-NCTDKVVVEFSSPNIAKP 78 (233)
Q Consensus 1 ~ak~~~~~p~~ia~~~~~~~~~~~~v~~~g-gfINf~l~~~~~~~~vl~~~~~~~~~g~~~-~~~~~v~VE~sSpNp~kp 78 (233)
|||.++++|++|| ++|.+. -..|+++| |||||+|++.++.+.+.+....+..||... +++++|+||||||||+||
T Consensus 49 lak~~~~~p~~ia-~~i~~~--i~~v~~~~~gfiN~~l~~~~~~~~~~~~~~~~~~~g~~~~~~~~~v~Ie~~spnp~g~ 125 (507)
T PRK01611 49 LAKKLKKNPREIA-EEIVEA--IEKVEIAGPGFINFFLDPAALAELVLAILEAGERYGRSDIGKGKKVVVEYVSANPTGP 125 (507)
T ss_pred HHHHcCCCHHHHH-HHHHhh--eeEEEEeCCCEEEEEECHHHHHHHHHHHHhchhhcCCCcCCCCCEEEEEecCCCCCCC
Confidence 5799999999996 888763 24489999 799999999999877665554456788643 578999999999999999
Q ss_pred cccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHHHHHHhhccCcCcccCCchHHHHHHHHHHHHhhccCCc
Q psy6240 79 FHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQIGLKELNIKHTDLEQSPLDVLYKAYVKANELAKINPD 158 (233)
Q Consensus 79 LHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~~~~~~~~~~~~~~~~~~~~~l~~~Y~~~~~~~~~~~~ 158 (233)
|||||+|++++||+|+|+|+++||+|.++||+||||+|+++++.++ .
T Consensus 126 lHiGH~R~~iigD~laR~lr~~G~~V~~~~~i~D~G~qi~~~a~~~--------------------------~------- 172 (507)
T PRK01611 126 LHVGHLRSAVIGDALARILEFAGYDVTREYYVNDAGTQIGMLIASL--------------------------E------- 172 (507)
T ss_pred CcCCchHHHHHHHHHHHHHHHcCCcEEEEeeeCCccHHHHHHHHHH--------------------------H-------
Confidence 9999999999999999999999999999999999999999886552 0
Q ss_pred cccccchhHHHHHHHhhhHhhcCCchHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHHHHHHHhhhcCCcccC
Q psy6240 159 VQEQAPLDVLYKAYVKANDLAKINPDVQEQASNIFQQLECGKNTLHTKDWLDFQQVTLNELRGTYERLGIHFSV 232 (233)
Q Consensus 159 ~~~~~p~~~y~g~y~~~~~~~~~d~~~~~~a~~~~~~le~gd~~~~~~~w~~~~~~sl~~~~~~~~rlgi~FD~ 232 (233)
..|+.+++.++++|+++|++|||+||.
T Consensus 173 -----------------------------------------------~~~~~~~~~~~~~~~~~l~~LgI~~D~ 199 (507)
T PRK01611 173 -----------------------------------------------LLWRKAVDISLDEIKEDLDRLGVHFDV 199 (507)
T ss_pred -----------------------------------------------HHHHHHHHHHHHHHHHHHHHcCCeeeE
Confidence 169999999999999999999999984
No 9
>cd00671 ArgRS_core catalytic core domain of arginyl-tRNA synthetases. Arginyl tRNA synthetase (ArgRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. There are at least three subgroups of ArgRS. One type contains both characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. The second subtype lacks the KMSKS motif; however, it has a lysine N-terminal to the HIGH motif, which serves as the functional counterpart to the second lysine of the KMSKS motif. A third group, which is found primarily in archaea and a few bacteria, lacks both the KMSKS motif and the HIGH loop lysine.
Probab=99.95 E-value=3.5e-28 Score=208.66 Aligned_cols=59 Identities=39% Similarity=0.807 Sum_probs=56.6
Q ss_pred eEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHHHH
Q psy6240 65 KVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQIG 123 (233)
Q Consensus 65 ~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~~~ 123 (233)
+|+||||||||+|||||||+||+++||+|+|+|+++||+|.++||+||||.||++++.+
T Consensus 1 ~v~ve~~spN~~~~~HiGH~R~~vigD~l~R~l~~~G~~V~~~~~~~D~G~qi~~~a~~ 59 (212)
T cd00671 1 KILVEFVSANPTGPLHVGHLRNAIIGDSLARILEFLGYDVTREYYINDWGRQIGLLILS 59 (212)
T ss_pred CeEEEecCCCCCCCccccccHHHHHHHHHHHHHHHCCCcEEEEeccCCcHHHHHHHHHH
Confidence 58999999999999999999999999999999999999999999999999999988644
No 10
>cd00802 class_I_aaRS_core catalytic core domain of class I amino acyl-tRNA synthetase. Class I amino acyl-tRNA synthetase (aaRS) catalytic core domain. These enzymes are mostly monomers which aminoacylate the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding.
Probab=99.48 E-value=4.3e-14 Score=113.76 Aligned_cols=56 Identities=25% Similarity=0.344 Sum_probs=53.3
Q ss_pred EEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHHHH
Q psy6240 68 VEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQIG 123 (233)
Q Consensus 68 VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~~~ 123 (233)
|++++|||+|++||||+|+.+++|+++|.|+..||+|...++++|||.|++..+..
T Consensus 1 ~~~~~p~~~~~~HlGh~~~~~~~d~~~r~lr~~G~~v~~~~~~dd~~~~~~~~a~~ 56 (143)
T cd00802 1 TTFSGITPNGYLHIGHLRTIVTFDFLAQAYRKLGYKVRCIALIDDAGGLIGDPANK 56 (143)
T ss_pred CEecCCCCCCCccHhHHHHHHHHHHHHHHHHHcCCCeEEEeeeCCCchHHHHHHHh
Confidence 57999999999999999999999999999999999999999999999999987644
No 11
>cd00814 MetRS_core catalytic core domain of methioninyl-tRNA synthetases. Methionine tRNA synthetase (MetRS) catalytic core domain. This class I enzyme aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. MetRS, which consists of the core domain and an anti-codon binding domain, functions as a monomer. However, in some species the anti-codon binding domain is followed by an EMAP domain. In this case, MetRS functions as a homodimer. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. As a result of a deletion event, MetRS has a significantly shorter core domain insertion than IleRS, ValRS, and LeuR. Consequently, the MetRS insertion lacks the editing function.
Probab=98.90 E-value=3.7e-09 Score=95.95 Aligned_cols=54 Identities=24% Similarity=0.379 Sum_probs=48.5
Q ss_pred EEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHH
Q psy6240 66 VVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGL 119 (233)
Q Consensus 66 v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~ 119 (233)
++|=-.-|+|+|++|+||+|+.++.|+++|.++..|++|.-.-=++|.|..+-.
T Consensus 2 ~~it~~~Py~ng~~HlGH~~~~~~~Dv~~R~~r~~G~~V~~~~g~Dd~g~~i~~ 55 (319)
T cd00814 2 VLITTALPYVNGVPHLGHLYGTVLADVFARYQRLRGYDVLFVTGTDEHGTKIEQ 55 (319)
T ss_pred EEEEeCCCCCCCCcchhhHHHHHHHHHHHHHHHhCCCcccccCccCCCCcHHHH
Confidence 456667799999999999999999999999999999999999989999887754
No 12
>cd00668 Ile_Leu_Val_MetRS_core catalytic core domain of isoleucyl, leucyl, valyl and methioninyl tRNA synthetases. Catalytic core domain of isoleucyl, leucyl, valyl and methioninyl tRNA synthetases. These class I enzymes are all monomers. However, in some species, MetRS functions as a homodimer, as a result of an additional C-terminal domain. These enzymes aminoacylate the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. Enzymes in this subfamily share an insertion in the core domain, which is subject to both deletions and rearrangements. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids. MetRS has a significantly shorter insertion, which lacks the editing function.
Probab=98.90 E-value=3.6e-09 Score=95.59 Aligned_cols=55 Identities=22% Similarity=0.312 Sum_probs=49.6
Q ss_pred eEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHH
Q psy6240 65 KVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGL 119 (233)
Q Consensus 65 ~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~ 119 (233)
+.+|--..|+|+|++||||+|+.++.|+++|.++..||+|....=++|.|..+-.
T Consensus 1 ~~~i~~~pP~~~g~~HiGH~~~~i~~D~i~R~~r~~G~~v~~~~g~D~~g~~i~~ 55 (312)
T cd00668 1 KFYVTTPPPYANGSLHLGHALTHIIADFIARYKRMRGYEVPFLPGWDTHGLPIEL 55 (312)
T ss_pred CEEEecCCCCCCCCcchhHHHHHHHHHHHHHHHHhCCCCCCCCCccCCCCHHHHH
Confidence 3577888999999999999999999999999999999999998888888877644
No 13
>cd00817 ValRS_core catalytic core domain of valyl-tRNA synthetases. Valine amino-acyl tRNA synthetase (ValRS) catalytic core domain. This enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. ValRS has an insertion in the core domain, which is subject to both deletions and rearrangements. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids.
Probab=98.86 E-value=5.6e-09 Score=97.19 Aligned_cols=56 Identities=18% Similarity=0.291 Sum_probs=52.0
Q ss_pred eEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHH
Q psy6240 65 KVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLL 120 (233)
Q Consensus 65 ~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l 120 (233)
+.+|--.-|+|+|++||||+|+.++.|+++|-++..|++|....-++|.|..+-..
T Consensus 2 ~f~i~~~pPy~nG~lHiGH~~~~~~~Dv~~Ry~r~~G~~V~~~~G~D~hG~pie~~ 57 (382)
T cd00817 2 VFVIDTPPPNVTGSLHMGHALNNTIQDIIARYKRMKGYNVLWPPGTDHAGIATQVV 57 (382)
T ss_pred cEEEecCCCCCCCcchHHHHHHHHHHHHHHHHHHhcCCcccccCccCCCCChHHHH
Confidence 56788889999999999999999999999999999999999999999999988544
No 14
>cd00818 IleRS_core catalytic core domain of isoleucyl-tRNA synthetases. Isoleucine amino-acyl tRNA synthetases (IleRS) catalytic core domain . This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. IleRS has an insertion in the core domain, which is subject to both deletions and rearrangements. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids.
Probab=98.85 E-value=7.3e-09 Score=94.97 Aligned_cols=56 Identities=16% Similarity=0.095 Sum_probs=51.1
Q ss_pred eEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHH
Q psy6240 65 KVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLL 120 (233)
Q Consensus 65 ~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l 120 (233)
+.+|--.-|+|+|++||||+|+.++.|+++|.++..||+|.-..=+.|.|..+..-
T Consensus 2 ~f~i~~~pP~vnG~lHiGHa~~~~~~Dvl~Ry~r~~G~~V~~~~g~D~hG~~ie~k 57 (338)
T cd00818 2 EFVFHDGPPYANGLPHYGHALNKILKDIINRYKTMQGYYVPRRPGWDCHGLPIELK 57 (338)
T ss_pred CeEEecCCCCCCCCchHHHHHHHHHHHHHHHHHHhcCCccCCcCCcCCCCchhHHH
Confidence 46677788999999999999999999999999999999999999999999988544
No 15
>cd00812 LeuRS_core catalytic core domain of leucyl-tRNA synthetases. Leucyl tRNA synthetase (LeuRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. In Aquifex aeolicus, the gene encoding LeuRS is split in two, just before the KMSKS motif. Consequently, LeuRS is a heterodimer, which likely superimposes with the LeuRS monomer found in most other organisms. LeuRS has an insertion in the core domain, which is subject to both deletions and rearrangements and thus differs between prokaryotic LeuRS and archaeal/eukaryotic LeuRS. This editing region hydrolyzes mischarged cognate tRNAs and thus prevents the incorporation of chemically similar amino acids.
Probab=98.79 E-value=1.2e-08 Score=92.48 Aligned_cols=56 Identities=21% Similarity=0.276 Sum_probs=51.3
Q ss_pred eEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHH
Q psy6240 65 KVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLL 120 (233)
Q Consensus 65 ~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l 120 (233)
|++|-..-|+|+|++|+||+|+.++.|+++|.++..|++|.-..-+.|.|..+-..
T Consensus 1 k~~it~~~Py~ng~~HiGH~~~~v~~Dv~~R~lr~~G~~V~~v~g~Dd~g~~i~~~ 56 (314)
T cd00812 1 KFYILVMFPYPSGALHVGHVRTYTIGDIIARYKRMQGYNVLFPMGFDAFGLPAENA 56 (314)
T ss_pred CeEEecCCCCCCCCccccchHHHHHHHHHHHHHHHcCCCcCCCCCcCCCCCHHHHH
Confidence 46777788999999999999999999999999999999999999999999987543
No 16
>PRK12267 methionyl-tRNA synthetase; Reviewed
Probab=98.69 E-value=6e-08 Score=95.92 Aligned_cols=55 Identities=15% Similarity=0.141 Sum_probs=51.2
Q ss_pred ceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHH
Q psy6240 64 DKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFG 118 (233)
Q Consensus 64 ~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~ 118 (233)
++++|--.=|.|+|++||||+|+.++.|+++|.++..|++|.-..-++|.|..+-
T Consensus 4 ~~~~it~~~py~ng~~HiGH~~~~~~aDv~~R~~r~~G~~v~~~~g~D~~g~~i~ 58 (648)
T PRK12267 4 KTFYITTPIYYPNGKPHIGHAYTTIAADALARYKRLQGYDVFFLTGTDEHGQKIQ 58 (648)
T ss_pred CCEEEeeCCCCCCCCcccccchHHHHHHHHHHHHHhcCCceEeecCCCCcchHHH
Confidence 4678888889999999999999999999999999999999999999999999763
No 17
>PRK11893 methionyl-tRNA synthetase; Reviewed
Probab=98.68 E-value=9e-08 Score=91.64 Aligned_cols=55 Identities=16% Similarity=0.175 Sum_probs=51.4
Q ss_pred ceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHH
Q psy6240 64 DKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFG 118 (233)
Q Consensus 64 ~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~ 118 (233)
++++|--.-|+|+|++||||+|+.++.|.++|.++..|++|.-..-+.|+|..+-
T Consensus 1 ~~~~i~~~~P~~~g~~HiGh~~~~~~~Dv~~R~~r~~G~~v~~v~g~dd~g~~i~ 55 (511)
T PRK11893 1 KKFYITTPIYYPNGKPHIGHAYTTLAADVLARFKRLRGYDVFFLTGTDEHGQKIQ 55 (511)
T ss_pred CCEEEecCCCCCCCCcccchhHHHHHHHHHHHHHHhcCCcEEecCCCCCCChHHH
Confidence 4677888889999999999999999999999999999999999999999999774
No 18
>PLN02224 methionine-tRNA ligase
Probab=98.67 E-value=6.5e-08 Score=95.22 Aligned_cols=61 Identities=15% Similarity=0.246 Sum_probs=56.4
Q ss_pred CCCceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHH
Q psy6240 61 NCTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQ 121 (233)
Q Consensus 61 ~~~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~ 121 (233)
+++++++|-=.-|+|+|++||||+|+.+++|+++|.++..||+|.-...++|.|.+|..-+
T Consensus 66 ~~~~~~~ittp~pY~NG~~HiGHa~~~~~aDviaR~~r~~G~~V~fv~G~DehG~kI~~~A 126 (616)
T PLN02224 66 DEADTFVLTTPLYYVNAPPHMGSAYTTIAADSIARFQRLLGKKVIFITGTDEHGEKIATSA 126 (616)
T ss_pred CCCCeEEEeCCCCCCCCCCchhccHHHHHHHHHHHHHHhcCCceEEecCcCCcchHHHHHH
Confidence 4567888888889999999999999999999999999999999999999999999997654
No 19
>PRK00260 cysS cysteinyl-tRNA synthetase; Validated
Probab=98.66 E-value=1e-07 Score=90.97 Aligned_cols=58 Identities=19% Similarity=0.254 Sum_probs=53.0
Q ss_pred CCceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHH
Q psy6240 62 CTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGL 119 (233)
Q Consensus 62 ~~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~ 119 (233)
.+++|-+=.++|.|.+++||||+|+.++.|+|+|.++..||+|.-..-+.|.|..+-.
T Consensus 20 ~~~~v~~yvcgPtvy~~~HiGHar~~v~~Dvl~R~lr~~G~~V~~v~~~tD~ddki~~ 77 (463)
T PRK00260 20 EPGKVKMYVCGPTVYDYAHIGHARSFVVFDVLRRYLRYLGYKVTYVRNITDIDDKIIK 77 (463)
T ss_pred CCCcceEEEeCCccCCCcccccchhHHHHHHHHHHHHhcCCceEEeecCCCCcHHHHH
Confidence 4567888889999999999999999999999999999999999999999999887644
No 20
>TIGR00398 metG methionyl-tRNA synthetase. The methionyl-tRNA synthetase (metG) is a class I amino acyl-tRNA ligase. This model appears to recognize the methionyl-tRNA synthetase of every species, including eukaryotic cytosolic and mitochondrial forms. The UPGMA difference tree calculated after search and alignment according to this model shows an unusual deep split between two families of MetG. One family contains forms from the Archaea, yeast cytosol, spirochetes, and E. coli, among others. The other family includes forms from yeast mitochondrion, Synechocystis sp., Bacillus subtilis, the Mycoplasmas, Aquifex aeolicus, and Helicobacter pylori. The E. coli enzyme is homodimeric, although monomeric forms can be prepared that are fully active. Activity of this enzyme in bacteria includes aminoacylation of fMet-tRNA with Met; subsequent formylation of the Met to fMet is catalyzed by a separate enzyme. Note that the protein from Aquifex aeolicus is split into an alpha (large) and beta (sma
Probab=98.63 E-value=9.2e-08 Score=92.31 Aligned_cols=52 Identities=19% Similarity=0.255 Sum_probs=47.3
Q ss_pred EEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHH
Q psy6240 67 VVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFG 118 (233)
Q Consensus 67 ~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~ 118 (233)
+|--.-|+|+|++||||+|+.++.|+|+|.++..|++|.-.--+.|.|..+-
T Consensus 2 ~it~~~P~~ng~lHiGH~~~~~~aDvl~R~~r~~G~~V~~v~g~D~~g~~i~ 53 (530)
T TIGR00398 2 LITTALPYANGKPHLGHAYTTILADVYARYKRLRGYEVLFVCGTDEHGTKIE 53 (530)
T ss_pred EEecCCCCCCCCcccchhHHHHHHHHHHHHHHhcCCeEEEecccCCCCcHHH
Confidence 3455669999999999999999999999999999999999999999999773
No 21
>PRK13208 valS valyl-tRNA synthetase; Reviewed
Probab=98.62 E-value=9.8e-08 Score=96.54 Aligned_cols=57 Identities=18% Similarity=0.237 Sum_probs=53.3
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHH
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGL 119 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~ 119 (233)
.++.+|-..-|||+|+|||||+++.+++|+++|..+..||+|....=.+..|..+-.
T Consensus 37 ~~~f~i~~ppPy~nG~lHiGH~~~~~~~D~~~R~~r~~G~~v~~~~G~D~~Glpie~ 93 (800)
T PRK13208 37 KPVYSIDTPPPTVSGSLHIGHVFSYTHTDFIARYQRMRGYNVFFPQGWDDNGLPTER 93 (800)
T ss_pred CCcEEEecCcCCCCCCccHHHHHhHHHHHHHHHHHHcCCCcccCCCCcCCCcchHHH
Confidence 567999999999999999999999999999999999999999999989999988854
No 22
>cd00672 CysRS_core catalytic core domain of cysteinyl tRNA synthetase. Cysteinyl tRNA synthetase (CysRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding.
Probab=98.50 E-value=4.7e-07 Score=78.18 Aligned_cols=58 Identities=16% Similarity=0.163 Sum_probs=50.4
Q ss_pred ceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHH
Q psy6240 64 DKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQ 121 (233)
Q Consensus 64 ~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~ 121 (233)
+++-+=-+.|-|-+++||||+|+.++.|+|+|.++..|++|.-.-=+.|.|..+-..+
T Consensus 19 ~~~~~y~~gpt~y~~~HiGH~r~~v~~Dvl~R~lr~~G~~V~~~~g~dd~g~ki~~~A 76 (213)
T cd00672 19 GLVTMYVCGPTVYDYAHIGHARTYVVFDVLRRYLEDLGYKVRYVQNITDIDDKIIKRA 76 (213)
T ss_pred CCceEEEeCCccCCCcccccchhHHHHHHHHHHHHhcCCeeEEEeecCCCCCHHHHHH
Confidence 4445555778888999999999999999999999999999999999999999885443
No 23
>PRK12268 methionyl-tRNA synthetase; Reviewed
Probab=98.45 E-value=5.7e-07 Score=87.33 Aligned_cols=58 Identities=21% Similarity=0.394 Sum_probs=53.4
Q ss_pred ceEEEEecCCCCCCCcccccchhh-hHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHH
Q psy6240 64 DKVVVEFSSPNIAKPFHVGHFRGT-VLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQ 121 (233)
Q Consensus 64 ~~v~VE~sSpNp~kpLHvGHlRna-iiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~ 121 (233)
++++|-=.-|+|+|++||||+|+. ++.|+++|.++..|++|...--++|.|..+-.-+
T Consensus 3 ~~~~i~~~~py~ng~~HiGH~~~~~~~~D~~~R~~r~~G~~v~~~~g~d~~g~~i~~~a 61 (556)
T PRK12268 3 MRILITSAWPYANGPLHLGHLAGSGLPADVFARYQRLKGNEVLFVSGSDEHGTPIELAA 61 (556)
T ss_pred CcEEEecCCCCCCCCccccccccchhHHHHHHHHHHhcCCceEecCcCCCcccHHHHHH
Confidence 468888899999999999999999 9999999999999999999999999999886443
No 24
>PTZ00419 valyl-tRNA synthetase-like protein; Provisional
Probab=98.41 E-value=5.7e-07 Score=93.01 Aligned_cols=56 Identities=14% Similarity=0.227 Sum_probs=49.2
Q ss_pred CCceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHH
Q psy6240 62 CTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQF 117 (233)
Q Consensus 62 ~~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~ 117 (233)
..++.+|-..-|||||+|||||++|.++.|+++|-.+..||+|....=.+..|-..
T Consensus 58 ~~~~f~i~~ppP~~~G~lHiGHa~~~~~~D~~~Ry~rm~G~~v~~~~G~D~~Gl~~ 113 (995)
T PTZ00419 58 SGKKFVIVLPPPNVTGYLHIGHALTGAIQDSLIRYHRMKGDETLWVPGTDHAGIAT 113 (995)
T ss_pred CCCeEEEEeCCCCCCCCCcHHHHHHHHHHHHHHHHHHhcCCcccCCCCCCCCchhh
Confidence 35679999999999999999999999999999999999999999876666666533
No 25
>PF00133 tRNA-synt_1: tRNA synthetases class I (I, L, M and V); InterPro: IPR002300 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. The class Ia aminoacyl-tRNA synthetases consist of the isoleucyl, methionyl, valyl, leucyl, cysteinyl, and arginyl-tRNA synthetases; the class Ib include the glutamyl and glutaminyl-tRNA synthetases, and the class Ic are the tyrosyl and tryptophanyl-tRNA synthetases [].; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 1OBC_A 2AJH_B 4ARI_A 2AJG_B 4AQ7_D 2AJI_B 4ARC_A 4AS1_A 1QU3_A 1QU2_A ....
Probab=98.41 E-value=1.1e-06 Score=86.41 Aligned_cols=59 Identities=15% Similarity=0.169 Sum_probs=48.9
Q ss_pred CCceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHH
Q psy6240 62 CTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLL 120 (233)
Q Consensus 62 ~~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l 120 (233)
+.++.+|-..-||++|+|||||++|-++.|+++|-.+-.||+|....=.+-.|..+-..
T Consensus 21 ~~~~f~i~~~PPy~nG~lH~GH~~~~~~~D~i~Ry~rm~G~~v~~~~G~D~~Glpie~~ 79 (601)
T PF00133_consen 21 NKPKFFIHDPPPYANGDLHIGHALNKTIKDIIARYKRMQGYNVLFPPGWDCHGLPIEAK 79 (601)
T ss_dssp TSGEEEEEE---BTSSS-BHHHHHHHHHHHHHHHHHHCTTSEEEEEEEEB--SHHHHHH
T ss_pred CCCcEEEEeCCCCCCCcccHHHHHHHHHHHHHHHHHHhCCcEeCCCCCcCCCCcchhhh
Confidence 46678888899999999999999999999999999999999999999999999988654
No 26
>PLN02943 aminoacyl-tRNA ligase
Probab=98.41 E-value=6.6e-07 Score=92.22 Aligned_cols=56 Identities=16% Similarity=0.245 Sum_probs=48.9
Q ss_pred CCceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHH
Q psy6240 62 CTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQF 117 (233)
Q Consensus 62 ~~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~ 117 (233)
.+++.+|.-.-||+||+|||||++|.++.|+++|-.+..||+|....=.+..|..+
T Consensus 86 ~~~~f~i~~pPP~~tG~lHiGHa~~~~~~D~~~Ry~rm~G~~vl~~~G~D~~Gl~~ 141 (958)
T PLN02943 86 GGDPFVIPMPPPNVTGSLHMGHAMFVTLEDIMVRYNRMKGRPTLWIPGTDHAGIAT 141 (958)
T ss_pred CCCCEEEecCCCCCCCchhHHHHHHHHHHHHHHHHHHhcCCeeecCCCCCcccchh
Confidence 35568999999999999999999999999999999999999999866666666544
No 27
>PLN02381 valyl-tRNA synthetase
Probab=98.41 E-value=7.3e-07 Score=92.73 Aligned_cols=57 Identities=14% Similarity=0.252 Sum_probs=51.6
Q ss_pred CCceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHH
Q psy6240 62 CTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFG 118 (233)
Q Consensus 62 ~~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~ 118 (233)
..++.+|-...||+||+|||||+++.+|.|+++|-.+..||+|....=.+..|..+-
T Consensus 126 ~~~~f~i~~ppPy~nG~lHiGHa~~~ti~Dii~Ry~rm~G~~vl~~~G~D~~Glp~e 182 (1066)
T PLN02381 126 SKPPFVIVLPPPNVTGALHIGHALTAAIEDTIIRWKRMSGYNALWVPGVDHAGIATQ 182 (1066)
T ss_pred CCCcEEEEeCCCCCCCCccHHHHHHHHHHHHHHHHHHhCCCcccccCCCCCCcChHH
Confidence 356689999999999999999999999999999999999999999888888877663
No 28
>TIGR00435 cysS cysteinyl-tRNA synthetase. This model finds the cysteinyl-tRNA synthetase from most but not from all species. The enzyme from one archaeal species, Archaeoglobus fulgidus, is found but the equivalent enzymes from some other Archaea, including Methanococcus jannaschii, are not found, although biochemical evidence suggests that tRNA(Cys) in these species are charged directly with Cys rather than through a misacylation and correction pathway as for tRNA(Gln).
Probab=98.40 E-value=1.5e-06 Score=83.10 Aligned_cols=56 Identities=18% Similarity=0.301 Sum_probs=50.4
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHH
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFG 118 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~ 118 (233)
+++|-+=-+.|-|.+++||||+|+.+..|+++|.|+..||+|.-.-=+.|.|..+-
T Consensus 19 ~~~v~~yvcgptvy~~~HiGhar~~v~~Dvl~R~lr~~G~~V~~v~n~tD~ddkIi 74 (465)
T TIGR00435 19 QGKVKMYVCGPTVYDYCHIGHARTAIVFDVLRRYLRYLGYKVQYVQNITDIDDKII 74 (465)
T ss_pred CCcceEEEecCccCCCcccccchHHHHHHHHHHHHHHcCCcEEEEEeeCCccHHHH
Confidence 45666767889999999999999999999999999999999999999999998663
No 29
>TIGR00422 valS valyl-tRNA synthetase. The valyl-tRNA synthetase (ValS) is a class I amino acyl-tRNA ligase and is particularly closely related to the isoleucyl tRNA synthetase.
Probab=98.40 E-value=5.8e-07 Score=91.69 Aligned_cols=58 Identities=17% Similarity=0.276 Sum_probs=52.0
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHH
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLL 120 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l 120 (233)
.++.+|-..-||+||+|||||+++.++.|+++|-.+..||+|....=.+..|..+-..
T Consensus 32 ~~~f~i~~ppPy~nG~lHiGH~~~~~~~D~~~Ry~rm~G~~vl~~~G~D~~Glp~e~~ 89 (861)
T TIGR00422 32 KPPFCIDIPPPNVTGSLHIGHALNWSIQDIIARYKRMKGYNVLWLPGTDHAGIATQVK 89 (861)
T ss_pred CCeEEEEeCCCCCCCCCcHHHhHHHHHHHHHHHHHHhcCCcccCCCCcCcCCCcHHHH
Confidence 4678889999999999999999999999999999999999999888888888866443
No 30
>PRK00133 metG methionyl-tRNA synthetase; Reviewed
Probab=98.37 E-value=1.3e-06 Score=86.89 Aligned_cols=58 Identities=19% Similarity=0.275 Sum_probs=52.6
Q ss_pred ceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHH
Q psy6240 64 DKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQ 121 (233)
Q Consensus 64 ~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~ 121 (233)
++++|--.=|+|+|++||||+|+.++.|+++|.++..||+|.-.--.+|.|..+-..+
T Consensus 2 ~~~~itt~~py~ng~~HiGH~~~~l~aDv~aR~~r~~G~~V~~~~g~D~hG~~i~~~A 59 (673)
T PRK00133 2 RKILVTCALPYANGPIHLGHLVEYIQADIWVRYQRMRGHEVLFVCADDAHGTPIMLKA 59 (673)
T ss_pred CCEEEeCCCCCCCCcccccchHHHHHHHHHHHHHHhcCCeeEEeCccCCCChHHHHHH
Confidence 4677888889999999999999999999999999999999999999999999886544
No 31
>TIGR00395 leuS_arch leucyl-tRNA synthetase, archaeal and cytosolic family. The leucyl-tRNA synthetases belong to two families so broadly different that they are represented by separate models. This model includes both archaeal and cytosolic eukaryotic leucyl-tRNA synthetases; the eubacterial and mitochondrial forms differ so substantially that some other tRNA ligases score higher by this model than does any eubacterial LeuS.
Probab=98.37 E-value=8.6e-07 Score=91.21 Aligned_cols=59 Identities=20% Similarity=0.213 Sum_probs=53.7
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHH
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQ 121 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~ 121 (233)
.++.+|-..-||++|+||+||+|+.++.|++||-.+..|++|....=..-.|+.+...+
T Consensus 24 ~~kf~i~~ppPy~nG~lH~GH~~~~~~~D~~aRy~Rm~G~~vl~p~G~d~~G~pi~~~a 82 (938)
T TIGR00395 24 REKFFLTMAYPYLNGVMHAGHCRTFTIPEVSARFERMKGKNVLFPLGFHVTGTPILGLA 82 (938)
T ss_pred CCceEEecCCCCCCCCcccchhhhhhHHHHHHHHHHhcCCccCCCCccCCCCCchHHHH
Confidence 46799999999999999999999999999999999999999998888888898876544
No 32
>PRK14900 valS valyl-tRNA synthetase; Provisional
Probab=98.33 E-value=9.6e-07 Score=91.81 Aligned_cols=57 Identities=16% Similarity=0.229 Sum_probs=51.7
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHH
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGL 119 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~ 119 (233)
+.+..|--.-||+||+|||||++|.++.|+++|-.+..||+|....=.++.|.++-.
T Consensus 47 ~~~f~i~~pPP~~nG~lHiGH~~~~~~~Di~~Ry~rm~G~~vl~~~G~D~~Glp~e~ 103 (1052)
T PRK14900 47 RPPFSIVLPPPNVTGSLHLGHALTATLQDVLIRWKRMSGFNTLWLPGTDHAGIATQM 103 (1052)
T ss_pred CCCEEEecCCCCCCCcchHHHHHhhHHHHHHHHHHHhcCCcccCCCCCCccchHHHH
Confidence 456888889999999999999999999999999999999999999888888887754
No 33
>PRK05729 valS valyl-tRNA synthetase; Reviewed
Probab=98.33 E-value=2.8e-06 Score=86.93 Aligned_cols=53 Identities=17% Similarity=0.282 Sum_probs=46.7
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhh
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGT 115 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~ 115 (233)
+++.+|-..-||+||.|||||++|.++.|+++|-.+..||+|....=.+..|.
T Consensus 35 ~~~f~i~~ppP~~~G~lHiGHa~~~~~~D~~~Ry~rm~G~~vl~~~G~D~~Gi 87 (874)
T PRK05729 35 KKPFSIVIPPPNVTGSLHMGHALNNTLQDILIRYKRMQGYNTLWLPGTDHAGI 87 (874)
T ss_pred CCCEEEecCCCCCCCcchHHHHHHHHHHHHHHHHHHhCCCcccCCCCCCccch
Confidence 45699999999999999999999999999999999999999987755555554
No 34
>TIGR00396 leuS_bact leucyl-tRNA synthetase, eubacterial and mitochondrial family. The leucyl-tRNA synthetases belong to two families so broadly different that they are represented by separate models. This model includes both eubacterial and mitochondrial leucyl-tRNA synthetases. It generates higher scores for some valyl-tRNA synthetases than for any archaeal or eukaryotic cytosolic leucyl-tRNA synthetase. Note that the enzyme from Aquifex aeolicus is split into alpha and beta chains; neither chain is long enough to score above the trusted cutoff, but the alpha chain scores well above the noise cutoff. The beta chain must be found by a model and search designed for partial length matches.
Probab=98.31 E-value=1.6e-06 Score=88.32 Aligned_cols=59 Identities=14% Similarity=0.178 Sum_probs=52.7
Q ss_pred CCceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHH
Q psy6240 62 CTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQ 121 (233)
Q Consensus 62 ~~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~ 121 (233)
+++.++++- -|+|+|.|||||+|+-+++|+++|-++..||+|....-.++.|..+-..+
T Consensus 28 k~k~~v~~~-pPy~nG~lHiGH~~~~~~~Dvi~Ry~rm~G~~V~~~~G~D~~Glpie~~a 86 (842)
T TIGR00396 28 KPKYYILDM-FPYPSGALHMGHVRNYTITDVLSRYYRMKGYNVLHPMGWDAFGLPAENAA 86 (842)
T ss_pred CCCEEEEcC-CCCCCCccccchhHHHHHHHHHHHHHHhcCCceeccCCcCCCChHHHHHH
Confidence 344577774 89999999999999999999999999999999999999999999887643
No 35
>TIGR00392 ileS isoleucyl-tRNA synthetase. The isoleucyl tRNA synthetase (IleS) is a class I amino acyl-tRNA ligase and is particularly closely related to the valyl tRNA synthetase. This model may recognize IleS from every species, including eukaryotic cytosolic and mitochondrial forms.
Probab=98.23 E-value=2.3e-06 Score=87.33 Aligned_cols=58 Identities=14% Similarity=0.157 Sum_probs=52.3
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHH
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLL 120 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l 120 (233)
+++.+|-..-|+|+|+|||||++|-++.|+++|-.+..||+|....=.+..|..+-..
T Consensus 35 ~~~f~i~~~pPy~nG~lH~GH~~~~~~~D~~~Ry~rm~G~~v~~~~G~D~~Glpie~~ 92 (861)
T TIGR00392 35 KPEFIFHDGPPYANGSIHLGHALNKILKDIILRYKTMQGFNVTRKPGWDTHGLPIEHK 92 (861)
T ss_pred CCCeEEecCCCCCCCCccHHHHHHHHHHHHHHHHHHcCCCccCCCCCcCCCccHHHHH
Confidence 4567788888999999999999999999999999999999999998888888887654
No 36
>PF09334 tRNA-synt_1g: tRNA synthetases class I (M); InterPro: IPR015413 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 is found in methionyl and leucyl tRNA synthetases. ; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 2D5B_A 1A8H_A 1WOY_A 2D54_A 4DLP_A 2CT8_B 2CSX_A 1MED_A 1PFU_A 1PFW_A ....
Probab=98.21 E-value=3.2e-06 Score=79.20 Aligned_cols=49 Identities=14% Similarity=0.259 Sum_probs=42.5
Q ss_pred CCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHH
Q psy6240 73 PNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQ 121 (233)
Q Consensus 73 pNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~ 121 (233)
|-|+|++||||+...+.+|++||-++..|++|.-.--+++.|+.+..-+
T Consensus 8 pY~Ng~lHlGH~~~~l~ADv~aR~~r~~G~~v~~~tGtDehG~~i~~~A 56 (391)
T PF09334_consen 8 PYPNGDLHLGHLYPYLAADVLARYLRLRGHDVLFVTGTDEHGSKIETAA 56 (391)
T ss_dssp EETSSS-BHHHHHHHHHHHHHHHHHHHTT-EEEEEEEEE-SSHHHHHHH
T ss_pred CCCCCCCCCChhHHHHHHHHHHHHHhhcccceeeEEecchhhHHHHHHH
Confidence 6789999999999999999999999999999999999999999886543
No 37
>COG0525 ValS Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=98.19 E-value=6.3e-06 Score=83.38 Aligned_cols=54 Identities=19% Similarity=0.246 Sum_probs=50.1
Q ss_pred ceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHH
Q psy6240 64 DKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQF 117 (233)
Q Consensus 64 ~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~ 117 (233)
++..|.-..||+||.|||||+-|..|=|+|+|-.|-.||+|.-.-..+.+|-.-
T Consensus 33 ~~f~I~~PPPNVTG~LHmGHAl~~tl~D~l~RykRM~G~~vl~~pG~DhAGIaT 86 (877)
T COG0525 33 PPFSIDTPPPNVTGSLHMGHALNYTLQDILARYKRMRGYNVLWPPGTDHAGIAT 86 (877)
T ss_pred CCcEEeCCCCCCCCcccchhhhhHHHHHHHHHHHHcCCCeeecCCCCCCCCchH
Confidence 559999999999999999999999999999999999999999998888888543
No 38
>PRK00390 leuS leucyl-tRNA synthetase; Validated
Probab=98.19 E-value=3.6e-06 Score=85.38 Aligned_cols=57 Identities=19% Similarity=0.266 Sum_probs=51.0
Q ss_pred ceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHH
Q psy6240 64 DKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQ 121 (233)
Q Consensus 64 ~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~ 121 (233)
+.++++-. |+|+|+|||||+|+.++.|+++|-.+..||+|....-.++.|..+-..+
T Consensus 33 ~~~i~~~p-Py~nG~lHiGH~~~~~~~Dii~Ry~rm~G~~V~~~~G~D~~Glpie~~a 89 (805)
T PRK00390 33 KYYVLDMF-PYPSGGLHMGHVRNYTIGDVIARYKRMQGYNVLHPMGWDAFGLPAENAA 89 (805)
T ss_pred CEEEEccC-CCCCCCcchhhhHHHHHHHHHHHHHHhcCCcccccCccCCCCCHHHHHH
Confidence 45666554 9999999999999999999999999999999999999999999986543
No 39
>PRK05743 ileS isoleucyl-tRNA synthetase; Reviewed
Probab=98.17 E-value=4.6e-06 Score=85.70 Aligned_cols=59 Identities=14% Similarity=0.171 Sum_probs=52.6
Q ss_pred CCceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHH
Q psy6240 62 CTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLL 120 (233)
Q Consensus 62 ~~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l 120 (233)
..++.+|-..-||++|+|||||++|.++.|+++|-.+..||+|.-..=.+-.|..+-..
T Consensus 47 ~~~~f~i~~~pPyanG~lHiGHa~~~~~~Dii~Ry~rm~G~~v~~~~G~D~~Glpie~~ 105 (912)
T PRK05743 47 GKPKFILHDGPPYANGDIHIGHALNKILKDIIVKSKTMSGFDAPYVPGWDCHGLPIELK 105 (912)
T ss_pred CCCcEEEeCCCCCCCCCccHHHHHHHHHHHHHHHHHHccCCcccCCCCcCCCccHhHHH
Confidence 34568999999999999999999999999999999999999999888888888877544
No 40
>PRK06039 ileS isoleucyl-tRNA synthetase; Reviewed
Probab=98.14 E-value=5.6e-06 Score=85.63 Aligned_cols=59 Identities=15% Similarity=0.072 Sum_probs=53.5
Q ss_pred CCceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHH
Q psy6240 62 CTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLL 120 (233)
Q Consensus 62 ~~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l 120 (233)
.+++.++-..-||+||.|||||++|-+|.|+++|-.+-.||+|....=.+-.|..+-..
T Consensus 39 ~~~~f~i~~~PPy~nG~lH~GH~l~~t~kD~i~Ry~rm~G~~v~~~~GwD~~GlPie~~ 97 (975)
T PRK06039 39 GGPEFVFYDGPPTANGLPHYGHLLTRTIKDVVPRYKTMKGYKVERRAGWDTHGLPVELE 97 (975)
T ss_pred CCCCEEEeCCCCCCCCCccHhhhHhhHHHHHHHHHHHhCCCcccCcCCcCCCccHHHHH
Confidence 34568888999999999999999999999999999999999999999888888887654
No 41
>COG0143 MetG Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=98.13 E-value=6.6e-06 Score=80.15 Aligned_cols=60 Identities=22% Similarity=0.254 Sum_probs=53.9
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHHH
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQI 122 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~~ 122 (233)
.++++|==.=|-|+|++|+||+++++..|++||.+|..|++|.-.--.+..|+.|..-|.
T Consensus 4 ~~~~~VTtalpY~Ng~~HlGH~~~~l~ADv~aRy~Rl~G~~v~fvtGtDeHGt~I~~~A~ 63 (558)
T COG0143 4 MKKILVTTALPYPNGPPHLGHLYTYLAADVYARYLRLRGYEVFFLTGTDEHGTKIELKAE 63 (558)
T ss_pred CCcEEEecCCCCCCCCcchhhHHHHHHHHHHHHHHHhcCCeEEEEeccCCCCCHHHHHHH
Confidence 457777777799999999999999999999999999999999999999999999966543
No 42
>PRK13804 ileS isoleucyl-tRNA synthetase; Provisional
Probab=98.12 E-value=7.2e-06 Score=84.67 Aligned_cols=57 Identities=14% Similarity=0.191 Sum_probs=51.0
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHH
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGL 119 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~ 119 (233)
.++.+|--.-|+++|.|||||++|-+|.|+++|-.+..||+|...-=.+-.|..+-.
T Consensus 53 ~~~f~l~dgPPyanG~lHiGHaln~~lkDii~Ry~rm~G~~v~~~pGwD~hGlPiE~ 109 (961)
T PRK13804 53 RPKFVLHDGPPYANGNIHIGHALNKILKDVIVRSKQMLGFDANYVPGWDCHGLPIEW 109 (961)
T ss_pred CCcEEEeCCCCCCCCCccHHHHHHHHHHHHHHHHHHhcCCcccCCCCcCCCCcHHHH
Confidence 456888889999999999999999999999999999999999988877777877753
No 43
>cd00674 LysRS_core_class_I catalytic core domain of class I lysyl tRNA synthetase. Class I lysyl tRNA synthetase (LysRS) catalytic core domain. This class I enzyme is a monomer which aminoacylates the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. The class I LysRS is found only in archaea and some bacteria and has evolved separately from class II LysRS, as the two do not share structural or sequence similarity.
Probab=98.10 E-value=8.4e-06 Score=75.46 Aligned_cols=51 Identities=22% Similarity=0.312 Sum_probs=46.2
Q ss_pred ceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhh
Q psy6240 64 DKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGT 115 (233)
Q Consensus 64 ~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~ 115 (233)
++++|+=.=+ |+|+.||||+|..+..|+++|.++..|++|.-....+|++.
T Consensus 19 ~~~~v~tgi~-psG~~HIG~~~e~i~~D~i~R~lr~~G~~v~~v~~~Dd~d~ 69 (353)
T cd00674 19 EKYVVASGIS-PSGHIHIGNFREVITADLVARALRDLGFEVRLIYSWDDYDR 69 (353)
T ss_pred CeEEEecCCC-CCCCcccCccHHHHHHHHHHHHHHHcCCCEEEEEEEcCCCc
Confidence 4677765554 99999999999999999999999999999999999999975
No 44
>PLN02563 aminoacyl-tRNA ligase
Probab=98.05 E-value=1.1e-05 Score=83.22 Aligned_cols=59 Identities=19% Similarity=0.191 Sum_probs=52.0
Q ss_pred CCceEEEEecCCCCCCC-cccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHH
Q psy6240 62 CTDKVVVEFSSPNIAKP-FHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQ 121 (233)
Q Consensus 62 ~~~~v~VE~sSpNp~kp-LHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~ 121 (233)
+++.++++-. |.|+|. |||||+|+.+++|++||-.+..||+|...-=.+.+|..+...+
T Consensus 109 k~k~~v~~~~-PYpnG~~lHiGH~~~y~~~DviaRy~Rm~G~~Vl~~~G~D~~GlPiE~~a 168 (963)
T PLN02563 109 KPKFYVLDMF-PYPSGAGLHVGHPEGYTATDILARYKRMQGYNVLHPMGWDAFGLPAEQYA 168 (963)
T ss_pred CCCEEEEeCC-CCCCCcccchhhHHHHHHHHHHHHHHHhcCCeecccccccccCcHHHHHH
Confidence 4555667666 999996 9999999999999999999999999999999999999987543
No 45
>PLN02843 isoleucyl-tRNA synthetase
Probab=98.05 E-value=1.5e-05 Score=82.52 Aligned_cols=58 Identities=16% Similarity=0.226 Sum_probs=52.7
Q ss_pred CCceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHH
Q psy6240 62 CTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGL 119 (233)
Q Consensus 62 ~~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~ 119 (233)
++++.+|--.-||++|.|||||++|.++-|+++|-.+..||+|...-=.+..|..+-.
T Consensus 30 ~~~~f~i~~~PPy~nG~lHiGHa~~~~lkDii~Ry~rm~G~~v~~~pG~D~hGlpie~ 87 (974)
T PLN02843 30 NGESFTLHDGPPYANGDLHIGHALNKILKDFINRYQLLQGKKVHYVPGWDCHGLPIEL 87 (974)
T ss_pred CCCCEEEeCCCCCCCCCcchhHHHHHHHHHHHHHHHHhcCCccccCCccCCCCcHHHH
Confidence 4567999999999999999999999999999999999999999988888888887753
No 46
>PF03485 Arg_tRNA_synt_N: Arginyl tRNA synthetase N terminal domain; InterPro: IPR005148 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 is found at the N terminus of Arginyl tRNA synthetase, also called additional domain 1 (Add-1). It is about 140 residues long and it has been suggested that this domain will be involved in tRNA recognition [].; GO: 0000166 nucleotide binding, 0004814 arginine-tRNA ligase activity, 0005524 ATP binding, 0006420 arginyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1F7V_A 1F7U_A 1BS2_A 2ZUE_A 2ZUF_A 1IQ0_A 3GDZ_B.
Probab=98.02 E-value=2e-06 Score=63.51 Aligned_cols=36 Identities=8% Similarity=0.110 Sum_probs=27.7
Q ss_pred CccccccCchhhhhhhccc-cCCC---ceEEecC-CeEEEEe
Q psy6240 1 MVKTFTIHYHIIDGSENIN-IRGG---TQFHIDD-DNVILPV 37 (233)
Q Consensus 1 ~ak~~~~~p~~ia~~~~~~-~~~~---~~v~~~g-gfINf~l 37 (233)
|||.+|++|.+|| +++.+ +... ..|+++| |||||+|
T Consensus 45 lak~~k~~P~~iA-~~i~~~l~~~~~i~~vev~gpGFiN~~L 85 (85)
T PF03485_consen 45 LAKKLKKNPREIA-EEIAEKLEKSPIIEKVEVAGPGFINFFL 85 (85)
T ss_dssp HHHHTTS-HHHHH-HHHHHCHCTTTTEEEEEEETTTEEEEEE
T ss_pred HHHHcCCCHHHHH-HHHHHhcCCCCCEEEEEEcCCcEEEEeC
Confidence 5899999999997 77766 3333 2399999 8999987
No 47
>PLN02610 probable methionyl-tRNA synthetase
Probab=98.00 E-value=1.6e-05 Score=80.64 Aligned_cols=59 Identities=14% Similarity=0.240 Sum_probs=53.1
Q ss_pred CceEEEEecCCCCCCCcccccchhh-hHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHH
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGT-VLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQ 121 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRna-iiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~ 121 (233)
.++++|=-.=|.|+|++||||++++ +..|++||-++..|++|.-.--+++.|+.+..-+
T Consensus 16 ~~~~~ITt~~pY~Ng~~HlGH~~~~~l~aDv~aRy~r~~G~~v~f~~GtDehG~~i~~~A 75 (801)
T PLN02610 16 KRNILITSALPYVNNVPHLGNIIGCVLSADVFARYCRLRGYNAIYICGTDEYGTATETKA 75 (801)
T ss_pred CCCEEEeCCCCCCCCCcccchhhhhHHHHHHHHHHHHhCCCceEecccccCCcHHHHHHH
Confidence 3578888888999999999999986 5589999999999999999999999999987644
No 48
>PLN02959 aminoacyl-tRNA ligase
Probab=97.97 E-value=3.1e-05 Score=80.96 Aligned_cols=62 Identities=19% Similarity=0.131 Sum_probs=57.1
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHHHHH
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQIGL 124 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~~~~ 124 (233)
..+.+|.+.-|+++|+|||||++|-++.|+++|-.+..||+|....=..-.|..+-..+.-+
T Consensus 44 ~~kf~i~~ppPY~NG~lHiGHa~t~t~~D~i~Rykrm~G~~vlfp~G~d~tGlPIe~~aek~ 105 (1084)
T PLN02959 44 GEKFFGNFPYPYMNGLLHLGHAFSLSKLEFAAAYHRLRGANVLLPFAFHCTGMPIKASADKL 105 (1084)
T ss_pred CCcEEEeCCCCCCCCCcchhhHHHHHHHHHHHHHHHcCCCccCCCCCcCCCCccHHHHHHHH
Confidence 36789999999999999999999999999999999999999999999999999998776544
No 49
>PRK12418 cysteinyl-tRNA synthetase; Provisional
Probab=97.94 E-value=6.2e-05 Score=70.44 Aligned_cols=58 Identities=10% Similarity=0.019 Sum_probs=52.6
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHH
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLL 120 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l 120 (233)
|++|-+=-++|-|=++.||||+|..|..|.|+|.|+..||+|.-.-=+.|.|..|-.-
T Consensus 7 ~~~v~~YvCGpTvY~~~HIGh~r~~V~~Dvl~R~lr~~G~~V~~V~nitD~ddKIi~~ 64 (384)
T PRK12418 7 GGTATMYVCGITPYDATHLGHAATYLAFDLVNRVWRDAGHDVHYVQNVTDVDDPLLER 64 (384)
T ss_pred CCeeEEEecCCCCCCCCccchhHHHHHHHHHHHHHHHcCCceEEEEecCCcchHHHHH
Confidence 4467777899999999999999999999999999999999999999999999988543
No 50
>KOG0435|consensus
Probab=97.87 E-value=2.5e-05 Score=76.68 Aligned_cols=45 Identities=20% Similarity=0.353 Sum_probs=39.5
Q ss_pred CCceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEE
Q psy6240 62 CTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCL 107 (233)
Q Consensus 62 ~~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~ 107 (233)
.++|+|+... |-|.|.|||||.|--.|-|+|||.++-+||+|+--
T Consensus 56 sk~KYiLsMF-PYPSG~LHiGHvRVYTIsD~laRf~rm~GynVihP 100 (876)
T KOG0435|consen 56 SKKKYILSMF-PYPSGALHIGHVRVYTISDILARFYRMKGYNVIHP 100 (876)
T ss_pred CCCceEEEec-CCCCCcccccceEEEEehHHHHHHHHhcCceeecC
Confidence 3455777766 89999999999999999999999999999999743
No 51
>PTZ00427 isoleucine-tRNA ligase, putative; Provisional
Probab=97.87 E-value=6.3e-05 Score=79.24 Aligned_cols=58 Identities=12% Similarity=0.001 Sum_probs=53.3
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHH
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLL 120 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l 120 (233)
+++.++--.-||+||++||||+++.++-|+++|-.+..||+|.+..=.+..|..+-..
T Consensus 101 ~~~Fv~~~gPPyanG~lHiGHal~~tikDii~Ry~rm~G~~V~~~~GwD~hGlPiE~~ 158 (1205)
T PTZ00427 101 KKAYIFYDGPPFATGLPHYGHLLAGIIKDCVTRYFYQCGFSVERKFGWDCHGLPIEYE 158 (1205)
T ss_pred CCcEEEecCCCCCCCCcchhHHHHHHHHHHHHHHHHcCCCeeccCCccCCCCcHHHHH
Confidence 4567888889999999999999999999999999999999999999999999988754
No 52
>COG0495 LeuS Leucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=97.81 E-value=1.1e-05 Score=81.42 Aligned_cols=55 Identities=24% Similarity=0.274 Sum_probs=44.5
Q ss_pred eEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHH
Q psy6240 65 KVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGL 119 (233)
Q Consensus 65 ~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~ 119 (233)
|..|=.-=|-|+|.|||||.||-+|||++||-.|..||+|.--.=..=+|+.+--
T Consensus 35 Kfyvl~mfPYpSG~LHvGH~r~Yti~Dv~aRykRm~GyNVL~PMGwdafGlPae~ 89 (814)
T COG0495 35 KFYVLVMFPYPSGALHVGHVRNYTIGDVIARYKRMQGYNVLHPMGWDAFGLPAEN 89 (814)
T ss_pred ceEEEeCCCCCCCCcccCccccccHHHHHHHHHHhcCCeecccCcccccCchHHH
Confidence 5545455599999999999999999999999999999999866655555665543
No 53
>PLN02882 aminoacyl-tRNA ligase
Probab=97.80 E-value=7.9e-05 Score=78.40 Aligned_cols=58 Identities=12% Similarity=0.045 Sum_probs=53.2
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHH
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLL 120 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l 120 (233)
.++.++--.-||+||++||||+++.+|-|+++|-.+..||+|.+..=.+..|..+-..
T Consensus 37 ~~~f~~~dgPPyanG~~HiGH~~~~~ikDii~Ry~rm~G~~V~~~~GwD~hGlPiE~~ 94 (1159)
T PLN02882 37 LPEYIFYDGPPFATGLPHYGHILAGTIKDIVTRYQSMTGHHVTRRFGWDCHGLPVEYE 94 (1159)
T ss_pred CCCEEEeCCCCCCCCcchhhHHHHHHHHHHHHHHHHcCCCcccccCccCCCCcHHHHH
Confidence 3458888899999999999999999999999999999999999999999999987655
No 54
>TIGR03447 mycothiol_MshC cysteine--1-D-myo-inosityl 2-amino-2-deoxy-alpha-D-glucopyranoside ligase. Members of this protein family are MshC, l-cysteine:1-D-myo-inosityl 2-amino-2-deoxy-alpha-D-glucopyranoside ligase, an enzyme that uses ATP to ligate a Cys residue to a mycothiol precursor molecule, in the second to last step in mycothiol biosynthesis. This enzyme shows considerable homology to Cys--tRNA ligases, and many instances are misannotated as such. Mycothiol is found in Mycobacterium tuberculosis, Corynebacterium glutamicum, Streptomyces coelicolor, and various other members of the Actinobacteria. Mycothiol is an analog to glutathione.
Probab=97.77 E-value=0.00013 Score=68.73 Aligned_cols=58 Identities=10% Similarity=-0.015 Sum_probs=51.6
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHH
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLL 120 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l 120 (233)
+++|-+=-++|=|=++.||||+|+.|.-|+|+|.|+..||+|.-.-=+.|.|..|-.-
T Consensus 34 ~~~v~~YvCGpTvY~~~HIGhart~V~~Dvl~R~lr~~G~~V~fV~nitD~dDKIi~~ 91 (411)
T TIGR03447 34 GPEAGMYVCGITPYDATHLGHAATYLTFDLVNRVWRDAGHRVHYVQNVTDVDDPLFER 91 (411)
T ss_pred CCcceEEEeCCccCCCcccccchHHHHHHHHHHHHHhcCCceEEeeCCCchhHHHHHH
Confidence 4456666688999999999999999999999999999999999999999999988543
No 55
>PLN02946 cysteine-tRNA ligase
Probab=97.54 E-value=0.00042 Score=67.74 Aligned_cols=58 Identities=16% Similarity=0.071 Sum_probs=51.7
Q ss_pred CCceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHH
Q psy6240 62 CTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGL 119 (233)
Q Consensus 62 ~~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~ 119 (233)
.+.+|-+=-+.|-+=++.||||+|+.|.-|+|+|.|+..||+|.-.-=+.|.|..|-.
T Consensus 77 ~~~~v~~Y~CGpTvYd~~HIGhaR~~V~~Dvl~R~Lr~~Gy~V~~V~niTDiDDKIi~ 134 (557)
T PLN02946 77 VEGKVGMYVCGVTAYDLSHIGHARVYVTFDVLYRYLKHLGYEVRYVRNFTDVDDKIIA 134 (557)
T ss_pred CCCceeEEEeCCccCCCCccccchhhHHHHHHHHHHHhcCCcEEEEECCCCccCHHHH
Confidence 3456666677899999999999999999999999999999999999999999988744
No 56
>PRK14536 cysS cysteinyl-tRNA synthetase; Provisional
Probab=97.53 E-value=0.00054 Score=66.05 Aligned_cols=54 Identities=17% Similarity=0.241 Sum_probs=48.8
Q ss_pred CCceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhh
Q psy6240 62 CTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGT 115 (233)
Q Consensus 62 ~~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~ 115 (233)
.+++|-+=-|.|-+-.+.||||+|+.|.-|+|+|.|+..||+|.-.-=|-|.|.
T Consensus 20 ~~~~v~mYvCGpTvy~~~HiGhar~~v~~Dvl~R~l~~~G~~V~~v~NiTDv~h 73 (490)
T PRK14536 20 EHGHVRLYGCGPTVYNYAHIGNLRTYVFQDTLRRTLHFLGYRVTHVMNITDVGH 73 (490)
T ss_pred CCCceEEEeeCCccCCCcccchhHHHHHHHHHHHHHHhcCCceEEEEeeccccc
Confidence 456788888889999999999999999999999999999999998887889873
No 57
>PRK14535 cysS cysteinyl-tRNA synthetase; Provisional
Probab=97.46 E-value=0.00069 Score=67.41 Aligned_cols=57 Identities=14% Similarity=0.144 Sum_probs=51.2
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHH
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGL 119 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~ 119 (233)
+++|-+=-+.|-|=.+.||||+|..|.-|+|+|.|+..||+|.-.-=+.|.|..|-.
T Consensus 246 ~~~V~mYvCGPTVYd~~HIGHaRt~V~~DVL~R~Lr~~Gy~V~fV~NiTD~DDKII~ 302 (699)
T PRK14535 246 PENVRMYVCGMTVYDYCHLGHARVMVVFDMIARWLRECGYPLTYVRNITDIDDKIIA 302 (699)
T ss_pred CCceEEEecCCcCCCCCcccchhHHHHHHHHHHHHHHcCCceEEEeCCcccchHHHH
Confidence 456777667799999999999999999999999999999999999999999998744
No 58
>PTZ00399 cysteinyl-tRNA-synthetase; Provisional
Probab=97.42 E-value=0.00087 Score=66.78 Aligned_cols=57 Identities=19% Similarity=0.260 Sum_probs=50.7
Q ss_pred CCceEEEEecCCCCCCCcccccchhhhHHHHHHHHHH-HcCCeeEEEeeeCchhhHHH
Q psy6240 62 CTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSN-YFANNVVCLNYLGDWGTQFG 118 (233)
Q Consensus 62 ~~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~-~~G~~V~r~nyinD~G~Q~~ 118 (233)
.+.+|-+=-|.|-+=.+.||||+|+.|.-|+|+|+|+ +.||+|.-.-=|.|.|--|-
T Consensus 57 ~~~~v~~Y~CGPTvYd~~HiGhart~v~~Dil~R~l~~~~Gy~V~~v~nitDidDKIi 114 (651)
T PTZ00399 57 NGRQVRWYTCGPTVYDSSHLGHARTYVTFDIIRRILEDYFGYDVFYVMNITDIDDKII 114 (651)
T ss_pred CCCeeEEEEeCCCccCCcccccchHHHHHHHHHHHHHHhcCCceEEEeCCCCcchHHH
Confidence 4566777667788889999999999999999999999 99999999999999998763
No 59
>PRK00750 lysK lysyl-tRNA synthetase; Reviewed
Probab=97.33 E-value=0.00034 Score=67.75 Aligned_cols=50 Identities=20% Similarity=0.185 Sum_probs=46.0
Q ss_pred eEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhh
Q psy6240 65 KVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGT 115 (233)
Q Consensus 65 ~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~ 115 (233)
.++|+=.-. |+|+.||||+|..+.+|+++|.|+..|++|.-.+..+|+|.
T Consensus 24 ~~~~~~g~~-psG~~HiG~~~e~~~~d~v~r~lr~~G~~v~~i~~~Dd~d~ 73 (510)
T PRK00750 24 PVVVETGIG-PSGLPHIGNFREVARTDMVRRALRDLGIKTRLIFFSDDMDG 73 (510)
T ss_pred cEEEEeCCC-CCCCcccccccchhhHHHHHHHHHHcCCcEEEEEEEecCCc
Confidence 477776654 99999999999999999999999999999999999999984
No 60
>PRK14534 cysS cysteinyl-tRNA synthetase; Provisional
Probab=97.18 E-value=0.0023 Score=61.63 Aligned_cols=51 Identities=22% Similarity=0.317 Sum_probs=43.8
Q ss_pred eEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhh
Q psy6240 65 KVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGT 115 (233)
Q Consensus 65 ~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~ 115 (233)
+|-+=-+.|-+=.+.||||+|..|.-|+|+|.|+..||+|.-.-=|-|.|.
T Consensus 21 ~v~mY~CGpTVYd~~HiGh~r~~v~~Dvl~R~l~~~G~~V~~v~NiTDIgh 71 (481)
T PRK14534 21 DVKVYACGPTVYNYAHIGNFRTYIFEDLLIKSLRLLKYNVNYAMNITDIGH 71 (481)
T ss_pred ceEEEeCCCCCCCCCCccchhHHHHHHHHHHHHHHcCCceEEEEecccccc
Confidence 555555667777789999999999999999999999999998777788864
No 61
>TIGR00467 lysS_arch lysyl-tRNA synthetase, archaeal and spirochete. This model represents the lysyl-tRNA synthetases that are class I amino-acyl tRNA synthetases. It includes archaeal and spirochete examples of the enzyme. All other known examples are class IIc amino-acyl tRNA synthetases and seem to form a separate orthologous set.
Probab=97.11 E-value=0.00073 Score=65.57 Aligned_cols=49 Identities=12% Similarity=0.194 Sum_probs=45.9
Q ss_pred ceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCch
Q psy6240 64 DKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDW 113 (233)
Q Consensus 64 ~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~ 113 (233)
++++|+=.=. |+|+.||||+|..+.+|.++|.++..|++|.-++..+|+
T Consensus 18 ~~~~~~tg~~-psG~~HiG~~~e~~~~d~v~r~~r~~g~~~~~i~~~Dd~ 66 (515)
T TIGR00467 18 NLYTVASGIT-PSGHIHIGNFREVITADAIARALRDSGSEARFIYIADNY 66 (515)
T ss_pred CeEEEecCCC-CCCCccccchhhhhHHHHHHHHHHHcCCCEEEEEEEcCC
Confidence 3688887666 999999999999999999999999999999999999999
No 62
>PRK12300 leuS leucyl-tRNA synthetase; Reviewed
Probab=97.01 E-value=0.0016 Score=67.16 Aligned_cols=43 Identities=26% Similarity=0.261 Sum_probs=39.4
Q ss_pred cccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHH
Q psy6240 79 FHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQ 121 (233)
Q Consensus 79 LHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~ 121 (233)
|||||+|+.++.|+++|-.+..||+|....=..-.|..+...+
T Consensus 1 lHiGH~~~~t~~D~i~Ry~rm~G~~Vl~~~G~d~~GlPie~~a 43 (897)
T PRK12300 1 LHVGHGRTYTIGDVIARYKRMRGYNVLFPMAFHVTGTPILGIA 43 (897)
T ss_pred CccchhHHHHHHHHHHHHHHcCCCcCCCCCCCCCCCcCHHHHH
Confidence 7999999999999999999999999999888888899887654
No 63
>cd09287 GluRS_non_core catalytic core domain of non-discriminating glutamyl-tRNA synthetase. Non-discriminating Glutamyl-tRNA synthetase (GluRS) cataytic core domain. These enzymes attach Glu to the appropriate tRNA. Like other class I tRNA synthetases, they aminoacylate the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. These enzymes function as monomers. Archaea and most bacteria lack GlnRS. In these organisms, the "non-discriminating" form of GluRS aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu, which is converted to Gln when appropriate by a transamidation enzyme.
Probab=96.75 E-value=0.0011 Score=58.38 Aligned_cols=40 Identities=25% Similarity=0.385 Sum_probs=30.5
Q ss_pred cCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCc
Q psy6240 71 SSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGD 112 (233)
Q Consensus 71 sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD 112 (233)
+.|.|||+||+||+|++++-+.+|| .+.|-=+.|.--+++
T Consensus 6 faPsPtG~lHiG~~rtal~~~l~Ar--~~~G~~ilRieDtD~ 45 (240)
T cd09287 6 FAPNPNGPLHLGHARAAILNGEYAK--MYGGKFILRFDDTDP 45 (240)
T ss_pred CCCCCCCCccHHHHHHHHHHHHHHH--HcCCEEEEeeCcCCC
Confidence 4699999999999999999999999 344444444444443
No 64
>PF01406 tRNA-synt_1e: tRNA synthetases class I (C) catalytic domain; InterPro: IPR015803 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. Cysteinyl-tRNA synthetase (6.1.1.16 from EC) is an alpha monomer and belongs to class Ia.; GO: 0000166 nucleotide binding, 0004817 cysteine-tRNA ligase activity, 0005524 ATP binding, 0006423 cysteinyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 3SP1_B 3TQO_A 3C8Z_B 1LI5_B 1LI7_B 1U0B_B.
Probab=96.64 E-value=0.012 Score=53.51 Aligned_cols=56 Identities=20% Similarity=0.299 Sum_probs=45.3
Q ss_pred CCceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHH
Q psy6240 62 CTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQF 117 (233)
Q Consensus 62 ~~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~ 117 (233)
++++|-+=-+.|-+=-..||||+|+.|.=|.|.|.|++.||+|.-.-=|-|.---+
T Consensus 5 ~~~~v~~Y~CGPTVYd~~HiGhaR~~v~~D~l~R~L~~~g~~V~~V~NiTDiDDKi 60 (300)
T PF01406_consen 5 NPGKVRMYVCGPTVYDYAHIGHARTYVFFDVLRRYLEYLGYDVTYVMNITDIDDKI 60 (300)
T ss_dssp CTTEEEEEEEEEBTTS--BHHHHHHHHHHHHHHHHHHHTT-EEEEEEEEB-SSHHH
T ss_pred CCCeEEEEcCCCCCCCCCCCcceeeeeeHHHHHHHHHHcCCeEEEEEeccccchHH
Confidence 46677777788999999999999999999999999999999999888888885443
No 65
>cd00418 GlxRS_core catalytic core domain of glutamyl-tRNA and glutaminyl-tRNA synthetase. Glutamyl-tRNA synthetase(GluRS)/Glutaminyl-tRNA synthetase (GlnRS) cataytic core domain. These enzymes attach Glu or Gln, respectively, to the appropriate tRNA. Like other class I tRNA synthetases, they aminoacylate the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. These enzymes function as monomers. Archaea, cellular organelles, and some bacteria lack GlnRS. In these cases, the "non-discriminating" form of GluRS aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu, which is converted to Gln when appropriate by a transamidation enzyme. The discriminating form of GluRS differs from GlnRS and the non-discriminating form of GluRS in their C-terminal anti-codon bind
Probab=96.59 E-value=0.0011 Score=58.14 Aligned_cols=26 Identities=23% Similarity=0.342 Sum_probs=23.8
Q ss_pred CCCCCCCcccccchhhhHHHHHHHHH
Q psy6240 72 SPNIAKPFHVGHFRGTVLGNFVANLS 97 (233)
Q Consensus 72 SpNp~kpLHvGHlRnaiiGd~Larll 97 (233)
.|+|||+||+||+|++++--..||-.
T Consensus 7 APsPtG~lHlG~~r~al~n~l~Ar~~ 32 (230)
T cd00418 7 APSPTGYLHIGHARTALFNFAFARKY 32 (230)
T ss_pred CCCCCCcccHHHHHHHHHHHHHHHHc
Confidence 59999999999999999999999853
No 66
>cd00807 GlnRS_core catalytic core domain of glutaminyl-tRNA synthetase. Glutaminyl-tRNA synthetase (GlnRS) cataytic core domain. These enzymes attach Gln to the appropriate tRNA. Like other class I tRNA synthetases, they aminoacylate the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. GlnRS contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding. These enzymes function as monomers. Archaea and most bacteria lack GlnRS. In these organisms, the "non-discriminating" form of GluRS aminoacylates both tRNA(Glu) and tRNA(Gln) with Glu, which is converted to Gln when appropriate by a transamidation enzyme.
Probab=96.50 E-value=0.0013 Score=57.84 Aligned_cols=35 Identities=17% Similarity=0.118 Sum_probs=27.5
Q ss_pred cCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEE
Q psy6240 71 SSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCL 107 (233)
Q Consensus 71 sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~ 107 (233)
..|+|||+||+||+|++++.-..||-. .|-=+.|.
T Consensus 6 FAPsPtG~lHlG~~~~al~~~l~Ar~~--~G~~iLRi 40 (238)
T cd00807 6 FPPEPNGYLHIGHAKAILLNFGYAKKY--GGRCNLRF 40 (238)
T ss_pred cCCCCCCcccHHHHHHHHHHHHHHHHh--CCEEEEEe
Confidence 359999999999999999999999853 44444443
No 67
>PF00749 tRNA-synt_1c: tRNA synthetases class I (E and Q), catalytic domain; InterPro: IPR020058 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. Glutamyl-tRNA synthetase (6.1.1.17 from EC) is a class Ic synthetase and shows several similarities with glutaminyl-tRNA synthetase concerning structure and catalytic properties. It is an alpha2 dimer. To date one crystal structure of a glutamyl-tRNA synthetase (Thermus thermophilus) has been solved. The molecule has the form of a bent cylinder and consists of four domains. The N-terminal half (domains 1 and 2) contains the 'Rossman fold' typical for class I synthetases and resembles the corresponding part of Escherichia coli GlnRS, whereas the C-terminal half exhibits a GluRS-specific structure []. ; GO: 0000166 nucleotide binding, 0005524 ATP binding, 0016876 ligase activity, forming aminoacyl-tRNA and related compounds, 0043039 tRNA aminoacylation, 0005737 cytoplasm; PDB: 2HZ7_A 2CFO_A 4A91_A 1NZJ_A 1N78_A 1G59_C 2CV2_A 2CV1_A 2CV0_B 1GLN_A ....
Probab=96.50 E-value=0.0012 Score=60.26 Aligned_cols=38 Identities=21% Similarity=0.375 Sum_probs=26.8
Q ss_pred CCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeC
Q psy6240 72 SPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLG 111 (233)
Q Consensus 72 SpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyin 111 (233)
.|+|||+||+||+|+|++=...|| +.-|-=+.|.-=+|
T Consensus 7 APsPtG~lHiG~~r~al~n~~~Ar--~~~G~~iLRieDtD 44 (314)
T PF00749_consen 7 APSPTGYLHIGHARTALLNYLFAR--KYGGKFILRIEDTD 44 (314)
T ss_dssp ---SSSS-BHHHHHHHHHHHHHHH--HTTSEEEEEEETSS
T ss_pred CCCCCCCcccchhHHHHHHHHHHh--ccCceEEEeccccc
Confidence 599999999999999999999998 45565556654443
No 68
>TIGR00463 gltX_arch glutamyl-tRNA synthetase, archaeal and eukaryotic family. The glutamyl-tRNA synthetases of the eukaryotic cytosol and of the Archaea are more similar to glutaminyl-tRNA synthetases than to bacterial glutamyl-tRNA synthetases. This alignment models just the eukaryotic cytosolic and archaeal forms of the enzyme. In some eukaryotes, the glutamyl-tRNA synthetase is part of a longer, multifunctional aminoacyl-tRNA ligase. In many species, the charging of tRNA(gln) proceeds first through misacylation with Glu and then transamidation. For this reason, glutamyl-tRNA synthetases may act on both tRNA(gln) and tRNA(glu).
Probab=96.35 E-value=0.004 Score=60.99 Aligned_cols=46 Identities=28% Similarity=0.620 Sum_probs=34.5
Q ss_pred ceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCc
Q psy6240 64 DKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGD 112 (233)
Q Consensus 64 ~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD 112 (233)
.+|+.=|. |+|||+||+||+|++++-..+|+ .+-|-=+.|.-=+|.
T Consensus 92 ~~vvtRFa-PsPtG~LHiGharaalln~~~Ar--~~~G~~iLRidDTDp 137 (560)
T TIGR00463 92 GEVVMRFA-PNPSGPLHIGHARAAILNQYFAK--KYKGKLIIRFDDTDP 137 (560)
T ss_pred CeeEEEeC-CCCCCCccHHHHHHHHHHHHHHH--hcCCEEEEEeCcCCc
Confidence 45666665 99999999999999999999997 344555555544444
No 69
>PRK04156 gltX glutamyl-tRNA synthetase; Provisional
Probab=96.33 E-value=0.0043 Score=60.88 Aligned_cols=47 Identities=28% Similarity=0.403 Sum_probs=37.5
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCc
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGD 112 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD 112 (233)
+.+|+. ...|+|+|+||+||+|++++-+.+|| .+-|-=+.|.-=+|+
T Consensus 99 ~g~V~t-RFaPsPtG~LHIGharaalln~~~Ar--~~~G~~iLRidDTDp 145 (567)
T PRK04156 99 KGKVVM-RFAPNPSGPLHLGHARAAILNDEYAK--MYGGKFILRFEDTDP 145 (567)
T ss_pred CCeEEE-EeCCCCCCCccHHHHHHHHHHHHHHH--HcCCEEEEeEccCCC
Confidence 445655 47899999999999999999999999 456666666666665
No 70
>PLN03233 putative glutamate-tRNA ligase; Provisional
Probab=96.23 E-value=0.0047 Score=59.98 Aligned_cols=42 Identities=19% Similarity=0.435 Sum_probs=31.8
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEE
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCL 107 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~ 107 (233)
+.+|+.=|. |+|||+||+||+|++++-.-+||-. -|-=+.|.
T Consensus 9 ~g~v~tRFA-PsPtG~LHiGharaAlln~l~Ar~~--gG~~iLRi 50 (523)
T PLN03233 9 AGQIVTRFP-PEPSGYLHIGHAKAALLNDYYARRY--KGRLILRF 50 (523)
T ss_pred CCeEEEeeC-CCCCCcccHHHHHHHHHHHHHHHHh--CCEEEEEE
Confidence 345666554 9999999999999999999999843 45444443
No 71
>TIGR03838 queuosine_YadB glutamyl-queuosine tRNA(Asp) synthetase. This protein resembles a shortened glutamyl-tRNA ligase, but its purpose is to modify tRNA(Asp) at a queuosine position in the anticodon rather than to charge a tRNA with its cognate amino acid.
Probab=96.20 E-value=0.0024 Score=57.24 Aligned_cols=37 Identities=19% Similarity=0.234 Sum_probs=29.2
Q ss_pred CCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeee
Q psy6240 72 SPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYL 110 (233)
Q Consensus 72 SpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyi 110 (233)
.|+|||+||+||+|++++-.-.|| ..-|-=+.|.-=+
T Consensus 6 APSPtG~lHiG~~rtAL~n~l~Ar--~~gG~~iLRiEDt 42 (272)
T TIGR03838 6 APSPSGPLHFGSLVAALGSYLDAR--AHGGRWLVRIEDL 42 (272)
T ss_pred CCCCCCcccHHHHHHHHHHHHHHH--HhCCEEEEEeCcC
Confidence 599999999999999999999998 3455555555433
No 72
>TIGR00440 glnS glutaminyl-tRNA synthetase. This protein is a relatively rare aminoacyl-tRNA synthetase, found in the cytosolic compartment of eukaryotes, in E. coli and a number of other Gram-negative Bacteria, and in Deinococcus radiodurans. In contrast, the pathway to Gln-tRNA in mitochondria, Archaea, Gram-positive Bacteria, and a number of other lineages is by misacylation with Glu followed by transamidation to correct the aminoacylation to Gln. This enzyme is a class I tRNA synthetase (hit by the pfam model tRNA-synt_1c) and is quite closely related to glutamyl-tRNA synthetases.
Probab=96.16 E-value=0.0061 Score=59.23 Aligned_cols=34 Identities=21% Similarity=0.268 Sum_probs=27.3
Q ss_pred CCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEE
Q psy6240 72 SPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCL 107 (233)
Q Consensus 72 SpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~ 107 (233)
.|+|||+||+||+|++++-..+|+- +-|-=+.|.
T Consensus 6 aPsPtG~LHiG~ar~al~n~~~A~~--~~G~~iLRi 39 (522)
T TIGR00440 6 PPEPNGYLHIGHAKSICLNFGYAKY--YNGTCNLRF 39 (522)
T ss_pred CCCCCCcccHHHHHHHHHHHHHHHH--hCCEEEEEE
Confidence 5999999999999999999999984 345444443
No 73
>PRK05347 glutaminyl-tRNA synthetase; Provisional
Probab=96.12 E-value=0.0072 Score=59.09 Aligned_cols=39 Identities=23% Similarity=0.290 Sum_probs=30.4
Q ss_pred eEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEE
Q psy6240 65 KVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVC 106 (233)
Q Consensus 65 ~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r 106 (233)
+|+.=|. |+|||+||+||+|++++-..+|+- +-|-=+.|
T Consensus 29 ~v~tRFa-PsPtG~LHiG~ar~al~n~~~Ar~--~~G~~iLR 67 (554)
T PRK05347 29 RVHTRFP-PEPNGYLHIGHAKSICLNFGLAQD--YGGKCNLR 67 (554)
T ss_pred ceEEEeC-CCCCCcccHHHHHHHHHHHHHHHH--hCCEEEEE
Confidence 5666664 999999999999999999999984 33444444
No 74
>cd00808 GluRS_core catalytic core domain of discriminating glutamyl-tRNA synthetase. Discriminating Glutamyl-tRNA synthetase (GluRS) catalytic core domain . The discriminating form of GluRS is only found in bacteria and cellular organelles. GluRS is a monomer that attaches Glu to the appropriate tRNA. Like other class I tRNA synthetases, GluRS aminoacylates the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the characteristic class I HIGH and KMSKS motifs, which are involved in ATP binding.
Probab=96.12 E-value=0.0028 Score=55.80 Aligned_cols=25 Identities=20% Similarity=0.353 Sum_probs=23.4
Q ss_pred CCCCCCCcccccchhhhHHHHHHHH
Q psy6240 72 SPNIAKPFHVGHFRGTVLGNFVANL 96 (233)
Q Consensus 72 SpNp~kpLHvGHlRnaiiGd~Larl 96 (233)
.|+|||+||+||+|++++....|+-
T Consensus 7 APsPtG~LHlG~~~~al~n~l~ar~ 31 (239)
T cd00808 7 APSPTGFLHIGGARTALFNYLFARK 31 (239)
T ss_pred CCCCCCcccHHHHHHHHHHHHHHHH
Confidence 5999999999999999999999985
No 75
>PLN02907 glutamate-tRNA ligase
Probab=96.10 E-value=0.0063 Score=61.42 Aligned_cols=40 Identities=28% Similarity=0.519 Sum_probs=31.1
Q ss_pred ceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEE
Q psy6240 64 DKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVC 106 (233)
Q Consensus 64 ~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r 106 (233)
.+|+.=|. |+|||+|||||+|++++-..+||- +-|-=+.|
T Consensus 212 ~~v~tRFa-PsPtG~LHiG~ar~al~n~~~Ar~--~~G~~iLR 251 (722)
T PLN02907 212 GKVCTRFP-PEPSGYLHIGHAKAALLNQYFARR--YKGKLIVR 251 (722)
T ss_pred CceEEeeC-CCCCCcccHHHHHHHHHHHHHHHH--hCCEEEEE
Confidence 45666665 999999999999999999999983 34444444
No 76
>COG0008 GlnS Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=96.09 E-value=0.0028 Score=60.88 Aligned_cols=39 Identities=23% Similarity=0.349 Sum_probs=29.7
Q ss_pred EEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEE
Q psy6240 66 VVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCL 107 (233)
Q Consensus 66 v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~ 107 (233)
|++=|. |+|||+|||||+|+|++-...||-. -|-=+.|.
T Consensus 10 v~tRFA-PsPtG~LHiG~artAl~N~~~Ar~~--~G~fiLRi 48 (472)
T COG0008 10 VRTRFA-PSPTGYLHIGHARTALLNYLYARKY--GGKFILRI 48 (472)
T ss_pred eEEEEC-cCCCCccchHHHHHHHHHHHHHHHh--CCEEEEEe
Confidence 555554 9999999999999999988888853 34444443
No 77
>PLN02859 glutamine-tRNA ligase
Probab=96.07 E-value=0.009 Score=60.47 Aligned_cols=33 Identities=24% Similarity=0.341 Sum_probs=28.0
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHH
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANL 96 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larl 96 (233)
+.+|+.=|. |+|||+|||||+|++++-.-+|+-
T Consensus 262 ~g~V~tRFa-PsPtG~LHiGharaallN~~~Ar~ 294 (788)
T PLN02859 262 GGKVYTRFP-PEPNGYLHIGHAKAMFVDFGLAKE 294 (788)
T ss_pred CCceEEEeC-CCCCCcccHHHHHHHHHHHHHHHH
Confidence 345666665 999999999999999999988885
No 78
>PTZ00437 glutaminyl-tRNA synthetase; Provisional
Probab=96.06 E-value=0.0045 Score=60.57 Aligned_cols=41 Identities=20% Similarity=0.155 Sum_probs=31.8
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEE
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVC 106 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r 106 (233)
+.+|+.=|. |+|||+||+||+|++++-..+|+-. -|-=+.|
T Consensus 49 ~gkv~tRFa-PsPtG~LHiGharaalln~~~Ar~~--gG~~iLR 89 (574)
T PTZ00437 49 GGKPYFRFP-PEPNGFLHIGHAKSMNLNFGSARAH--GGKCYLR 89 (574)
T ss_pred CCcEEEEeC-CCCCCcccHHHHHHHHHHHHHHHHh--CCEEEEE
Confidence 346777665 9999999999999999999999853 3443333
No 79
>PRK05710 glutamyl-Q tRNA(Asp) synthetase; Reviewed
Probab=95.82 E-value=0.0044 Score=56.26 Aligned_cols=61 Identities=13% Similarity=0.226 Sum_probs=37.5
Q ss_pred EEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHH----HHHHHHHHhhccC
Q psy6240 66 VVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQF----GLLQIGLKELNIK 130 (233)
Q Consensus 66 v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~----~~l~~~~~~~~~~ 130 (233)
|+.=| .|.|||+||+||+|+|++-...||-.. |-=+.|.--++. .+.. ..+...+.-+|.+
T Consensus 6 v~~RF-APSPTG~LHlG~~rtAL~n~l~Ar~~~--G~~iLRiEDtD~-~R~~~~~~~~I~~dL~wlGl~ 70 (299)
T PRK05710 6 YIGRF-APSPSGPLHFGSLVAALGSWLDARAHG--GRWLLRIEDIDP-PREVPGAADAILADLEWLGLH 70 (299)
T ss_pred eeEEe-CcCCCCcccHHHHHHHHHHHHHHHHcC--CEEEEEECcCCC-CccchHHHHHHHHHHHHCCCC
Confidence 44433 599999999999999999888887542 444444443322 3322 2244444445654
No 80
>PTZ00402 glutamyl-tRNA synthetase; Provisional
Probab=95.69 E-value=0.0053 Score=60.50 Aligned_cols=42 Identities=24% Similarity=0.438 Sum_probs=32.3
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEE
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCL 107 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~ 107 (233)
+.+|+.=|. |+|||+|||||+|++++-.-+||-. -|-=+.|.
T Consensus 50 ~~~v~tRFA-PsPtGyLHIGharaAllN~l~Ar~~--gG~~iLRi 91 (601)
T PTZ00402 50 EGKVVTRFP-PEASGFLHIGHAKAALINSMLADKY--KGKLVFRF 91 (601)
T ss_pred CCeeEEeeC-CCCCCcccHHHHHHHHHHHHHHHHh--CCEEEEEE
Confidence 456766665 9999999999999999999999843 45444443
No 81
>KOG0432|consensus
Probab=95.62 E-value=0.012 Score=59.80 Aligned_cols=53 Identities=17% Similarity=0.290 Sum_probs=44.8
Q ss_pred CCceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchh
Q psy6240 62 CTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWG 114 (233)
Q Consensus 62 ~~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G 114 (233)
.+.+.++=-.-||.||.||+||+=...|=|+|+|..+..||.|.-.==++=+|
T Consensus 73 ~~~~f~i~~PPPNVTG~LHiGHALt~aiqD~i~R~~rm~G~~vlw~PG~DHAG 125 (995)
T KOG0432|consen 73 PGGVFVIPLPPPNVTGSLHIGHALTVAIQDALARYNRMHGYQVLWVPGTDHAG 125 (995)
T ss_pred CCCcceeecCCCCcccccchhHHHHHHHHHHHHHHHHhcCCeeeecCCccccc
Confidence 45667777888999999999999999999999999999999887655454444
No 82
>COG0215 CysS Cysteinyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=95.60 E-value=0.065 Score=51.38 Aligned_cols=51 Identities=22% Similarity=0.326 Sum_probs=41.3
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCch
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDW 113 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~ 113 (233)
+.+|-+=-|.|-+=--.||||+|+.|.-|.|.|.|++.||.|.-.-=|-|-
T Consensus 20 ~~~V~mYvCGpTVYd~~HIGhaRt~V~fDvl~R~L~~~Gy~V~yV~NiTDI 70 (464)
T COG0215 20 PGKVKMYVCGPTVYDYAHIGHARTYVVFDVLRRYLRYLGYKVTYVRNITDI 70 (464)
T ss_pred CCeEEEEecCCccCCccccccCcceehHHHHHHHHHHhCCeEEEEeccccc
Confidence 444777677788888999999999999999999999999976554444454
No 83
>PRK12410 glutamylglutaminyl-tRNA synthetase; Provisional
Probab=95.60 E-value=0.006 Score=58.05 Aligned_cols=25 Identities=24% Similarity=0.563 Sum_probs=23.0
Q ss_pred CCCCCCCcccccchhhhHHHHHHHH
Q psy6240 72 SPNIAKPFHVGHFRGTVLGNFVANL 96 (233)
Q Consensus 72 SpNp~kpLHvGHlRnaiiGd~Larl 96 (233)
.|.|||+|||||+|+|++--..||-
T Consensus 5 APSPTG~LHiG~artAL~n~l~Ar~ 29 (433)
T PRK12410 5 APSPTGDMHIGNLRAAIFNYIVAKQ 29 (433)
T ss_pred CCCCCCcccHHHHHHHHHHHHHHHH
Confidence 5999999999999999998888884
No 84
>PRK14703 glutaminyl-tRNA synthetase/YqeY domain fusion protein; Provisional
Probab=95.53 E-value=0.011 Score=59.96 Aligned_cols=31 Identities=29% Similarity=0.456 Sum_probs=26.9
Q ss_pred eEEEEecCCCCCCCcccccchhhhHHHHHHHH
Q psy6240 65 KVVVEFSSPNIAKPFHVGHFRGTVLGNFVANL 96 (233)
Q Consensus 65 ~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larl 96 (233)
+|+.=| .|+|||+||+||+|++++-..+|+-
T Consensus 31 ~v~tRF-aPsPtG~lHiGhar~alln~~~A~~ 61 (771)
T PRK14703 31 RVVTRF-PPEPNGYLHIGHAKSILLNFGIARD 61 (771)
T ss_pred ceEEEe-CcCCCCcccHHHHHHHHHHHHHHHH
Confidence 465555 4999999999999999999999984
No 85
>PF01921 tRNA-synt_1f: tRNA synthetases class I (K); InterPro: IPR002904 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. Lysyl-tRNA synthetase (6.1.1.6 from EC) is an alpha 2 homodimer that belong to both class I and class II. In eubacteria and eukaryota lysyl-tRNA synthetases belong to class II in the same family as aspartyl tRNA synthetase. The class Ic lysyl-tRNA synthetase family is present in archaea and in a number of bacterial groups that include the alphaproteobacteria and spirochaetes[]. A refined crystal structures shows that the active site of LysU is shaped to position the substrates for the nucleophilic attack of the lysine carboxylate on the ATP alpha-phosphate. No residues are directly involved in catalysis, but a number of highly conserved amino acids and three metal ions coordinate the substrates and stabilise the pentavalent transition state. A loop close to the catalytic pocket, disordered in the lysine-bound structure, becomes ordered upon adenine binding [].; GO: 0000166 nucleotide binding, 0004824 lysine-tRNA ligase activity, 0005524 ATP binding, 0006430 lysyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 1IRX_A.
Probab=95.41 E-value=0.014 Score=54.20 Aligned_cols=52 Identities=19% Similarity=0.241 Sum_probs=38.6
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhh
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGT 115 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~ 115 (233)
.+.++++ |.--|.|+.|||++|-.+.++.++|.|+..|++|.-++..+|+=.
T Consensus 22 ~~~~v~~-sG~sPSG~~HIGn~rEv~~~~~V~~al~~~g~~~r~i~~~DD~D~ 73 (360)
T PF01921_consen 22 KEPYVFA-SGISPSGLPHIGNFREVLRADMVARALRDRGKDVRLIYFSDDMDP 73 (360)
T ss_dssp -SEEEEE-EEE--SS---HHHHHHHHHHHHHHHHHHTTT-EEEEEEEE-TTSB
T ss_pred CccEEEe-cCCCCCCCcccccccchhhHHHHHHHHHHcCCCEEEEEEeecCCc
Confidence 4456555 668899999999999999999999999999999999999999754
No 86
>KOG0436|consensus
Probab=95.41 E-value=0.069 Score=50.72 Aligned_cols=70 Identities=14% Similarity=0.193 Sum_probs=56.0
Q ss_pred CCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHHHHHHhhccCcCcccCCchHHHHHHHHHHHHhh
Q psy6240 74 NIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQIGLKELNIKHTDLEQSPLDVLYKAYVKANELA 153 (233)
Q Consensus 74 Np~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~~~~~~~~~~~~~~~~~~~~~l~~~Y~~~~~~~ 153 (233)
-|+-+-|+||+-++++-|++||.-+..|-.|+-.-=++.-|..|...+.+ .+.+|.+++-++|.++.+++
T Consensus 49 YvNAaPHlGhlYS~llaDai~R~q~lkg~~v~fsTGTDEHGlKIqtaaat----------nG~~P~e~cDr~s~~f~qL~ 118 (578)
T KOG0436|consen 49 YVNAAPHLGHLYSTLLADAIARFQRLKGKKVIFSTGTDEHGLKIQTAAAT----------NGRNPPELCDRISQSFRQLW 118 (578)
T ss_pred ecCCCcchhHHHHHHHHHHHHHHHhhcCCceEeecCCCccchhhhhhHhh----------cCCChHHHHhhhhHHHHHHH
Confidence 46678899999999999999999999999999888888899988776554 22456677777776665543
No 87
>TIGR00464 gltX_bact glutamyl-tRNA synthetase, bacterial family. The glutamyl-tRNA synthetases of the eukaryotic cytosol and of the Archaea are more similar to glutaminyl-tRNA synthetases than to bacterial glutamyl-tRNA synthetases. This alignment models just the bacterial and mitochondrial forms of the enzyme. In many species, the charging of tRNA(gln) proceeds first through misacylation with Glu and then transamidation. For this reason, glutamyl-tRNA synthetases may act on both tRNA(gln) and tRNA(glu). This model is highly specific. Proteins with positive scores below the trusted cutoff may be fragments rather than full-length sequences.
Probab=95.29 E-value=0.0089 Score=57.47 Aligned_cols=34 Identities=15% Similarity=0.272 Sum_probs=27.1
Q ss_pred CCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEE
Q psy6240 72 SPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCL 107 (233)
Q Consensus 72 SpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~ 107 (233)
.|.|||+||+||+|+|++---.|| ..-|-=+.|.
T Consensus 7 APsPtG~lHiG~~rtal~n~l~Ar--~~~G~~iLRi 40 (470)
T TIGR00464 7 APSPTGYLHIGGARTALFNYLFAK--HTGGEFILRI 40 (470)
T ss_pred CCCCCCcccHHHHHHHHHHHHHHH--HcCCEEEEEe
Confidence 499999999999999999999998 3445444444
No 88
>PRK12558 glutamyl-tRNA synthetase; Provisional
Probab=95.17 E-value=0.01 Score=56.71 Aligned_cols=30 Identities=30% Similarity=0.473 Sum_probs=23.4
Q ss_pred EEEEecCCCCCCCcccccchhhhHHHHHHHH
Q psy6240 66 VVVEFSSPNIAKPFHVGHFRGTVLGNFVANL 96 (233)
Q Consensus 66 v~VE~sSpNp~kpLHvGHlRnaiiGd~Larl 96 (233)
|++=| .|.|||+|||||+|+|++--..||-
T Consensus 3 vr~RF-APSPTG~lHiG~artAL~n~l~Ar~ 32 (445)
T PRK12558 3 VITRF-APSPTGYLHVGNARTALLNWLYARK 32 (445)
T ss_pred eeEEe-CCCCCCcccHHHHHHHHHHHHHHHH
Confidence 33333 4999999999999999987666664
No 89
>PRK01406 gltX glutamyl-tRNA synthetase; Reviewed
Probab=95.06 E-value=0.012 Score=56.79 Aligned_cols=30 Identities=23% Similarity=0.378 Sum_probs=25.0
Q ss_pred EEEEecCCCCCCCcccccchhhhHHHHHHHH
Q psy6240 66 VVVEFSSPNIAKPFHVGHFRGTVLGNFVANL 96 (233)
Q Consensus 66 v~VE~sSpNp~kpLHvGHlRnaiiGd~Larl 96 (233)
|.+=| .|.|||+|||||+|+|++=-..||-
T Consensus 5 v~~Rf-APSPtG~lHiG~~rtal~n~l~Ar~ 34 (476)
T PRK01406 5 VRTRF-APSPTGYLHIGGARTALFNWLFARH 34 (476)
T ss_pred eeEEe-CCCCCCcccHHHHHHHHHHHHHHHH
Confidence 44444 4999999999999999998888874
No 90
>PLN02627 glutamyl-tRNA synthetase
Probab=94.86 E-value=0.024 Score=55.35 Aligned_cols=42 Identities=24% Similarity=0.318 Sum_probs=33.1
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEE
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCL 107 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~ 107 (233)
..+|.+=|. |.|||+|||||+|+|++--..|| ..-|-=+.|+
T Consensus 43 ~~~vr~RFA-PSPTG~LHiG~aRtAL~n~l~Ar--~~gG~fiLRI 84 (535)
T PLN02627 43 GGPVRVRFA-PSPTGNLHVGGARTALFNYLFAR--SKGGKFVLRI 84 (535)
T ss_pred CCceEEEeC-CCCCCCccHHHHHHHHHHHHHHH--HhCCEEEEEe
Confidence 446777776 89999999999999999999998 3445544444
No 91
>PRK14895 gltX glutamyl-tRNA synthetase; Provisional
Probab=94.81 E-value=0.015 Score=56.52 Aligned_cols=63 Identities=19% Similarity=0.269 Sum_probs=39.0
Q ss_pred eEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHH----HHHHHHHHhhccCc
Q psy6240 65 KVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQF----GLLQIGLKELNIKH 131 (233)
Q Consensus 65 ~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~----~~l~~~~~~~~~~~ 131 (233)
+|.+=| .|.|||+|||||+|++++=-..|| ..-|-=+.|+-=+ |..+.. ..+..++.-+|.+.
T Consensus 4 ~vrtRF-APSPTG~lHiG~artAL~n~l~Ar--~~gG~fiLRIEDT-D~~R~~~~~~~~i~~~L~WLGl~w 70 (513)
T PRK14895 4 NVITRF-APSPTGFLHIGSARTALFNYLFAR--HHNGKFLLRIEDT-DKERSTKEAVEAIFSGLKWLGLDW 70 (513)
T ss_pred CeeEee-CCCCCCCccHHHHHHHHHHHHHHH--HcCCEEEEEECCC-CccccChHHHHHHHHHHHHcCCCC
Confidence 344444 499999999999999999999998 3445444444322 223322 22344455556543
No 92
>COG1384 LysS Lysyl-tRNA synthetase (class I) [Translation, ribosomal structure and biogenesis]
Probab=93.03 E-value=0.14 Score=49.67 Aligned_cols=51 Identities=20% Similarity=0.275 Sum_probs=45.6
Q ss_pred ceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhh
Q psy6240 64 DKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGT 115 (233)
Q Consensus 64 ~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~ 115 (233)
..++|+ |.--|.|..|||.+|-.+.||++++.|+..|++|.-++-.+|+-.
T Consensus 19 ~~~~v~-tGisPSG~~HIGn~rEv~t~d~V~ralr~~g~~~r~I~~~DD~D~ 69 (521)
T COG1384 19 DEYVVA-TGISPSGLIHIGNFREVLTADAVRRALRDRGDEVRLIYISDDYDP 69 (521)
T ss_pred CcEEEe-cCcCCCCCcccccHHHHHHHHHHHHHHHHcCCceEEEEEccCCcc
Confidence 456666 557899999999999999999999999999999999999999853
No 93
>KOG2007|consensus
Probab=90.81 E-value=0.43 Score=46.27 Aligned_cols=55 Identities=22% Similarity=0.348 Sum_probs=42.7
Q ss_pred CceEEEEecCCCCCCCcccccchhhhHHHHHHHHHH-HcCCeeEEEeeeCchhhHH
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSN-YFANNVVCLNYLGDWGTQF 117 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~-~~G~~V~r~nyinD~G~Q~ 117 (233)
|.+|-.=-+.|-.=-.-||||+|+.|-=|.|-|+|+ +.||+|.-..=|-|.--.|
T Consensus 53 ~~~v~wY~CGpTvYD~SHmGHArsYVsfDIlrRiL~dyfgy~V~~vmNiTDVDDKI 108 (586)
T KOG2007|consen 53 GNKVTWYICGPTVYDSSHMGHARSYVSFDILRRILRDYFGYDVTFVMNITDVDDKI 108 (586)
T ss_pred CCeEEEEEecCcccchhhhhhhhhhhhHHHHHHHHHHHcCcceEEEecccchhHHH
Confidence 334333334444445679999999999999999999 9999999988888876655
No 94
>KOG1148|consensus
Probab=89.27 E-value=0.67 Score=45.83 Aligned_cols=65 Identities=20% Similarity=0.287 Sum_probs=54.9
Q ss_pred CceEEEEecCCCCCCCcccccchhhhH----------------------------HHHHHHHHHHcCCeeEEEeeeCchh
Q psy6240 63 TDKVVVEFSSPNIAKPFHVGHFRGTVL----------------------------GNFVANLSNYFANNVVCLNYLGDWG 114 (233)
Q Consensus 63 ~~~v~VE~sSpNp~kpLHvGHlRnaii----------------------------Gd~Larll~~~G~~V~r~nyinD~G 114 (233)
|.+|+--| .|-|+|-|||||+....+ =++|..+-+++||+-.++-|--|.=
T Consensus 246 GGkV~TRF-PPEPNG~LHIGHaKAInvNFgyAk~~~G~cyLRfDDTNPEkEee~yf~sI~e~V~WLG~~P~kvTysSDyF 324 (764)
T KOG1148|consen 246 GGKVVTRF-PPEPNGILHIGHAKAINVNFGYAKAHGGVCYLRFDDTNPEKEEEEYFESIKEMVAWLGFEPYKVTYSSDYF 324 (764)
T ss_pred CCeeEEeC-CCCCCceeeecchhheeechhhhhhhCCeEEEecCCCCcchhhHHHHHHHHHHHHHhCCCceeeecchhHH
Confidence 56665555 599999999999876544 2688899999999999999999999
Q ss_pred hHHHHHHHHHHhhc
Q psy6240 115 TQFGLLQIGLKELN 128 (233)
Q Consensus 115 ~Q~~~l~~~~~~~~ 128 (233)
-|+-.+++-+.+.|
T Consensus 325 dqLy~~av~LIrkG 338 (764)
T KOG1148|consen 325 DQLYELAVELIRKG 338 (764)
T ss_pred HHHHHHHHHHHhcC
Confidence 99999998887765
No 95
>COG0060 IleS Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=87.79 E-value=1.7 Score=45.33 Aligned_cols=55 Identities=16% Similarity=0.225 Sum_probs=43.6
Q ss_pred ceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHH
Q psy6240 64 DKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFG 118 (233)
Q Consensus 64 ~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~ 118 (233)
++.++-=..|--+|-.|+||+-|-||=|++.|-....||+|.+..=.+=-|..|-
T Consensus 49 ~~FvfhDGPPyANG~iHiGHalnKilKDiI~Ry~~m~G~~v~~~pGWDcHGLPIE 103 (933)
T COG0060 49 PKFVLHDGPPYANGNIHIGHALNKILKDIIVRYKTMQGYDVPYVPGWDCHGLPIE 103 (933)
T ss_pred CcEEEeCCCCCCCCCcchhhhHHHhhhhhhhhhhcccCCcCCCCCCCcCCCchHH
Confidence 3444444668889999999999999999999999999999988764333365554
No 96
>KOG1147|consensus
Probab=83.50 E-value=0.86 Score=44.70 Aligned_cols=31 Identities=32% Similarity=0.657 Sum_probs=26.5
Q ss_pred ceEEEEecCCCCCCCcccccchhhhHHHHHHH
Q psy6240 64 DKVVVEFSSPNIAKPFHVGHFRGTVLGNFVAN 95 (233)
Q Consensus 64 ~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Lar 95 (233)
.+|++-|. |-|.|-|||||++.|.+-.-.|.
T Consensus 199 GkVv~RFP-PEpSGyLHIGHAKAALLNqYfa~ 229 (712)
T KOG1147|consen 199 GKVVTRFP-PEPSGYLHIGHAKAALLNQYFAQ 229 (712)
T ss_pred CceEEecC-CCCCceeehhhHHHHHHHHHHHH
Confidence 47888775 99999999999999999777765
No 97
>KOG0434|consensus
Probab=82.58 E-value=2.5 Score=42.79 Aligned_cols=46 Identities=15% Similarity=0.143 Sum_probs=40.0
Q ss_pred CCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHH
Q psy6240 72 SPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQF 117 (233)
Q Consensus 72 SpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~ 117 (233)
.|=-||--|-||+-...|-|++-|-.--.||+|.|++=.+=-|..+
T Consensus 46 PPFATGlPHyGHiLa~TIKDiVtRya~~~G~hVeRRFGWD~HGlPV 91 (1070)
T KOG0434|consen 46 PPFATGLPHYGHILASTIKDIVTRYATQTGHHVERRFGWDTHGLPV 91 (1070)
T ss_pred CccccCCCccchhhhhhHHHHHHHHhhccccceeeecccccCCCcc
Confidence 4667899999999999999999999999999999998665556554
No 98
>TIGR00234 tyrS tyrosyl-tRNA synthetase. This tyrosyl-tRNA synthetase model starts picking up tryptophanyl-tRNA synthetases at scores of 0 and below. The proteins found by this model have a deep split between two groups. One group contains bacterial and organellar eukaryotic examples. The other contains archaeal and cytosolic eukaryotic examples.
Probab=80.01 E-value=1.8 Score=40.59 Aligned_cols=43 Identities=21% Similarity=0.298 Sum_probs=30.9
Q ss_pred ecCCCCCC-CcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHH
Q psy6240 70 FSSPNIAK-PFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFG 118 (233)
Q Consensus 70 ~sSpNp~k-pLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~ 118 (233)
|+.--||| .||+||+= +=...+-+..+||+|+-. |+||=.++|
T Consensus 34 y~G~dPTg~~lHlGh~v----~l~~l~~lq~~G~~~~il--igd~ta~ig 77 (377)
T TIGR00234 34 YVGFDPTAPSLHLGHLV----PLLKLRDFQQAGHEVIVL--LGDATALIG 77 (377)
T ss_pred EEeeCCCCCCccHHHHH----HHHHHHHHHHCCCcEEEE--Eeccchhhc
Confidence 88889999 89999963 323234444579987655 899877766
No 99
>PRK08560 tyrosyl-tRNA synthetase; Validated
Probab=79.87 E-value=1.6 Score=39.97 Aligned_cols=43 Identities=21% Similarity=0.340 Sum_probs=28.7
Q ss_pred ecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHH
Q psy6240 70 FSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFG 118 (233)
Q Consensus 70 ~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~ 118 (233)
|+.--|||+||+||+= ++. .+.++-+ +|++ ....|+||=.+++
T Consensus 34 ~~G~~PTG~lHLG~~~-~~~--~~~~lq~-~g~~--~~i~IaD~ha~~~ 76 (329)
T PRK08560 34 YIGFEPSGKIHLGHLL-TMN--KLADLQK-AGFK--VTVLLADWHAYLN 76 (329)
T ss_pred EEccCCCCcchhhhhH-HHH--HHHHHHH-CCCe--EEEEEccchhhcC
Confidence 7999999999999942 222 1444444 4766 4677888855554
No 100
>PRK05244 Der GTPase activator; Provisional
Probab=78.24 E-value=4.8 Score=33.98 Aligned_cols=43 Identities=19% Similarity=0.303 Sum_probs=34.1
Q ss_pred HHHHHHHHHhcCCchhhHHHHHHHHHHHHHHHHHHhhhcCCcccC
Q psy6240 188 QASNIFQQLECGKNTLHTKDWLDFQQVTLNELRGTYERLGIHFSV 232 (233)
Q Consensus 188 ~a~~~~~~le~gd~~~~~~~w~~~~~~sl~~~~~~~~rlgi~FD~ 232 (233)
+-.+++.+||+|..-. +-=+.+++.+|..|...+..|||..|.
T Consensus 108 rL~~LLdrLE~Ge~Ls--~~dQ~yvD~~LdRie~LM~~LGI~~ed 150 (177)
T PRK05244 108 RLNALLDRLEAGETLS--AEDQKWVDEKLDRIDELMEKLGISDDD 150 (177)
T ss_pred HHHHHHHHHHCCCcCC--HHHHHHHHHHHHHHHHHHHHhCCCccc
Confidence 3446888999885432 455677899999999999999998875
No 101
>cd00805 TyrRS_core catalytic core domain of tyrosinyl-tRNA synthetase. Tyrosinyl-tRNA synthetase (TyrRS) catalytic core domain. TyrRS is a homodimer which attaches Tyr to the appropriate tRNA. TyrRS is a class I tRNA synthetases, so it aminoacylates the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formationof the enzyme bound aminoacyl-adenylate. It contains the class I characteristic HIGH and KMSKS motifs, which are involved in ATP binding.
Probab=78.03 E-value=2.1 Score=38.09 Aligned_cols=42 Identities=14% Similarity=0.317 Sum_probs=29.2
Q ss_pred ecCCCCCC-CcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHH
Q psy6240 70 FSSPNIAK-PFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQF 117 (233)
Q Consensus 70 ~sSpNp~k-pLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~ 117 (233)
|+.--||| .||+||+-.+ + .+.++.++ |++| ...|+||=..+
T Consensus 4 y~G~~PTg~~lHLG~~~~~-~--~~~~lq~~-g~~~--~ilI~D~~a~~ 46 (269)
T cd00805 4 YIGFDPTAPSLHLGHLVPL-M--KLRDFQQA-GHEV--IVLIGDATAMI 46 (269)
T ss_pred EEeeCCCCCcccHHHHHHH-H--HHHHHHHC-CCeE--EEEECCCeeec
Confidence 45667999 8999998642 2 56666664 8876 56677764444
No 102
>TIGR00233 trpS tryptophanyl-tRNA synthetase. This model represents tryptophanyl-tRNA synthetase. Some members of the family have a pfam00458 domain amino-terminal to the region described by this model.
Probab=77.72 E-value=1.8 Score=39.84 Aligned_cols=38 Identities=18% Similarity=0.416 Sum_probs=29.9
Q ss_pred ecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCch
Q psy6240 70 FSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDW 113 (233)
Q Consensus 70 ~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~ 113 (233)
|+.--|||.+|+||. +|-...+.+-..|++| ...|.||
T Consensus 6 ~~G~~PTG~~HlG~~----l~~~~~~~~~q~~~~~--~i~IaD~ 43 (328)
T TIGR00233 6 LTGIQPSGKMHLGHY----LGAIQTKWLQQFGVEL--FICIADL 43 (328)
T ss_pred EEeeCCCcHhHHHHH----HHHHHHHHHHhCCCCE--EEEeecc
Confidence 677789999999996 7777777777889875 4456666
No 103
>COG3078 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=77.59 E-value=5.5 Score=32.75 Aligned_cols=45 Identities=18% Similarity=0.421 Sum_probs=35.8
Q ss_pred HHHHHHHHHHhcCCchhhHHHHHHHHHHHHHHHHHHhhhcCCcccCC
Q psy6240 187 EQASNIFQQLECGKNTLHTKDWLDFQQVTLNELRGTYERLGIHFSVD 233 (233)
Q Consensus 187 ~~a~~~~~~le~gd~~~~~~~w~~~~~~sl~~~~~~~~rlgi~FD~~ 233 (233)
+.-.+++.+|++|..-. .--+.+++.+|..|.+.++.|||.+|-+
T Consensus 108 e~L~~LLdrLdagetLs--~edQ~~VD~~LDRI~~LMe~LGl~~ddd 152 (169)
T COG3078 108 ERLDALLDRLDAGETLS--AEDQQWVDAKLDRIDELMEKLGLSYDDD 152 (169)
T ss_pred HHHHHHHHHhhccCccc--HHHHHHHHHHHHHHHHHHHHhCCccCCc
Confidence 45567888998884432 4567789999999999999999999854
No 104
>PF04220 YihI: Der GTPase activator (YihI); InterPro: IPR007336 This entry contains Escherichia coli (strain K12) YihI. YihI activates the GTPase activity of Der, a 50S ribosomal subunit stability factor and can therefore be considered a GAP (GTPase activating)-like protein. The stimulation is specific to Der as YihI does not stimulate the GTPase activity of Era or ObgE. The interaction of YihI with Der requires only the C-terminal 78 amino acids of YihI []. A yihI deletion mutant is viable and shows a shorter lag period, but the same post-lag growth rate as a wild-type strain. yihI is expressed during the lag period. Overexpression of yihI inhibits cell growth and biogenesis of the 50S ribosomal subunit []. YihI is an unusual, highly hydrophilic protein with an uneven distribution of charged residues, resulting in an N-terminal region with high pI and a C-terminal region with low pI [].
Probab=76.94 E-value=5.6 Score=33.35 Aligned_cols=50 Identities=18% Similarity=0.290 Sum_probs=37.0
Q ss_pred hhcCCchHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHHHHHHHhhhcCCcccCC
Q psy6240 178 LAKINPDVQEQASNIFQQLECGKNTLHTKDWLDFQQVTLNELRGTYERLGIHFSVD 233 (233)
Q Consensus 178 ~~~~d~~~~~~a~~~~~~le~gd~~~~~~~w~~~~~~sl~~~~~~~~rlgi~FD~~ 233 (233)
.++.|+ +-..++.++|+|..-. .-=+.+++.+|..|...++.|||..|.+
T Consensus 103 ~LEnD~----rL~~LLdrle~Ge~Ls--~~dQ~yvD~~LdRi~~Lm~~LGi~~ddd 152 (169)
T PF04220_consen 103 MLENDE----RLNQLLDRLEEGETLS--AEDQKYVDEKLDRIEELMEELGIEDDDD 152 (169)
T ss_pred HhhccH----HHHHHHHHHHCCCcCC--HHHHHHHHHHHHHHHHHHHHhCCCcccc
Confidence 345554 3445888999885432 4456679999999999999999988753
No 105
>PRK05912 tyrosyl-tRNA synthetase; Validated
Probab=72.11 E-value=4.2 Score=38.49 Aligned_cols=41 Identities=12% Similarity=0.254 Sum_probs=26.4
Q ss_pred EecCCCCCCC-cccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhh
Q psy6240 69 EFSSPNIAKP-FHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGT 115 (233)
Q Consensus 69 E~sSpNp~kp-LHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~ 115 (233)
=|+.--|||+ ||+||+= ++ ..+.+ |...||+|. .-|+||=.
T Consensus 36 vy~G~dPTg~slHlGhlv-~l--~~l~~-lQ~~G~~~~--~ligd~ta 77 (408)
T PRK05912 36 IYLGFDPTAPSLHLGHLV-PL--LKLRR-FQDAGHKPI--ALIGGFTG 77 (408)
T ss_pred EEEeecCCCCCccHHhHH-HH--HHHHH-HHHCCCcEE--EEEcCcee
Confidence 4788899996 9999974 11 23333 445788764 44566433
No 106
>PF08373 RAP: RAP domain; InterPro: IPR013584 The ~60-residue RAP (an acronym for RNA-binding domain abundant in Apicomplexans) domain is found in various proteins in eukaryotes. It is particularly abundant in apicomplexans and might mediate a range of cellular functions through its potential interactions with RNA []. The RAP domain consists of multiple blocks of charged and aromatics residues and is predicted to be composed of alpha helical and beta strand structures. Two predicted loop regions that are dominated by glycine and tryptophan residues are found before and after the central beta sheet []. Some proteins known to contain a RAP domain are listed below: Human hypothetical protein MGC5297, Mammalian FAST kinase domain-containing proteins (FASTKDs), Chlamydomonas reinhardtii chloroplastic trans-splicing factor Raa3.
Probab=72.03 E-value=3.1 Score=27.80 Aligned_cols=35 Identities=14% Similarity=0.178 Sum_probs=24.2
Q ss_pred CCCcccccchhhhHHHHHH--HHHHHcCCeeEEEeee
Q psy6240 76 AKPFHVGHFRGTVLGNFVA--NLSNYFANNVVCLNYL 110 (233)
Q Consensus 76 ~kpLHvGHlRnaiiGd~La--rll~~~G~~V~r~nyi 110 (233)
.||.|.=+-.....|.+.. |+|++.||+|+.+.|-
T Consensus 4 dGp~hy~~~~~~~~g~t~lk~r~L~~~G~~Vi~Ip~~ 40 (58)
T PF08373_consen 4 DGPSHYYRNSNNLTGSTKLKHRHLKALGYKVISIPYY 40 (58)
T ss_pred CCcHHhhCCCCccchHHHHHHHHHHHCCCEEEEecHH
Confidence 4566643333334477764 6999999999999885
No 107
>PTZ00348 tyrosyl-tRNA synthetase; Provisional
Probab=71.87 E-value=4.9 Score=40.69 Aligned_cols=43 Identities=9% Similarity=0.203 Sum_probs=30.0
Q ss_pred ecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHH
Q psy6240 70 FSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQF 117 (233)
Q Consensus 70 ~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~ 117 (233)
|+.--|||+||+||+ ++|-.-.+.+...||+| .+.|.||=.++
T Consensus 36 ~sGi~PTG~lHLGng---~~~aik~~~~~q~g~~~--~~lIAD~HAlt 78 (682)
T PTZ00348 36 YDGFEPSGRMHIAQG---IFKAVNVNKCTQAGCEF--VFWVADWFALM 78 (682)
T ss_pred EEeeCCCCcCeeccH---HHHHHHHHHHHhCCCeE--EEEEcchhhhc
Confidence 889999999999993 66633344455678864 56677774443
No 108
>PTZ00126 tyrosyl-tRNA synthetase; Provisional
Probab=71.77 E-value=4.8 Score=37.89 Aligned_cols=43 Identities=12% Similarity=0.164 Sum_probs=27.8
Q ss_pred ecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHH
Q psy6240 70 FSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQF 117 (233)
Q Consensus 70 ~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~ 117 (233)
|+.--|||++|+||+ ++----+..+ ..+||+| .+.|.||=.++
T Consensus 70 ~~G~~PTG~lHLG~g--~i~~~~~~~l-q~~G~~v--~~~IaD~hA~~ 112 (383)
T PTZ00126 70 YDGFEPSGRMHIAQG--ILKAINVNKL-TKAGCVF--VFWVADWFALL 112 (383)
T ss_pred EEEECCCCcccccch--HhHhHHHHHH-HhCCCeE--EEEEccceeec
Confidence 888999999999992 2111234443 5668875 45567764444
No 109
>cd00806 TrpRS_core catalytic core domain of tryptophanyl-tRNA synthetase. Tryptophanyl-tRNA synthetase (TrpRS) catalytic core domain. TrpRS is a homodimer which attaches Tyr to the appropriate tRNA. TrpRS is a class I tRNA synthetases, so it aminoacylates the 2'-OH of the nucleotide at the 3' end of the tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains class I characteristic HIGH and KMSKS motifs, which are involved in ATP binding
Probab=71.45 E-value=3.9 Score=36.65 Aligned_cols=39 Identities=15% Similarity=0.268 Sum_probs=25.4
Q ss_pred ecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCch
Q psy6240 70 FSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDW 113 (233)
Q Consensus 70 ~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~ 113 (233)
|+.--|||.||+||+-.++. ...-|..+|++| ...|+|+
T Consensus 3 ~tG~~PTG~lHLG~~~~al~---~~~~lQ~ag~~~--~~~IaD~ 41 (280)
T cd00806 3 LSGIQPSGSLHLGHYLGAFR---FWVWLQEAGYEL--FFFIADL 41 (280)
T ss_pred EEeeCCCchhhHHHHHHHHH---HHHHHHhCCCCE--EEEecch
Confidence 45567999999999844332 233334458765 4557888
No 110
>cd00395 Tyr_Trp_RS_core catalytic core domain of tyrosinyl-tRNA and tryptophanyl-tRNA synthetase. Tyrosinyl-tRNA synthetase (TyrRS)/Tryptophanyl-tRNA synthetase (TrpRS) catalytic core domain. These enzymes attach Tyr or Trp, respectively, to the appropriate tRNA. These class I enzymes are homodimers, which aminoacylate the 2'-OH of the nucleotide at the 3' of the appropriate tRNA. The core domain is based on the Rossman fold and is responsible for the ATP-dependent formation of the enzyme bound aminoacyl-adenylate. It contains the class I characteristic HIGH and KMSKS motifs, which are involved in ATP binding.
Probab=71.20 E-value=2.8 Score=37.48 Aligned_cols=34 Identities=15% Similarity=0.325 Sum_probs=22.7
Q ss_pred ecCCCCCC-CcccccchhhhHHHHHHHHHHHcCCeeEEE
Q psy6240 70 FSSPNIAK-PFHVGHFRGTVLGNFVANLSNYFANNVVCL 107 (233)
Q Consensus 70 ~sSpNp~k-pLHvGHlRnaiiGd~Larll~~~G~~V~r~ 107 (233)
|+.--||| .||+||+ +|=...+-+..+|++|.-.
T Consensus 3 y~G~~PTg~~lHlGh~----~~l~~~~~lq~~g~~~~~~ 37 (273)
T cd00395 3 YCGIDPTADSLHIGHL----IGLLTFRRFQHAGHRPIFL 37 (273)
T ss_pred EEeEcCCCCCccHHHH----HHHHHHHHHHHCCCCEEEE
Confidence 45557999 6999997 6633444445578887543
No 111
>PRK13354 tyrosyl-tRNA synthetase; Provisional
Probab=70.76 E-value=4 Score=38.74 Aligned_cols=43 Identities=14% Similarity=0.257 Sum_probs=28.2
Q ss_pred EecCCCCCCC-cccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHH
Q psy6240 69 EFSSPNIAKP-FHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQF 117 (233)
Q Consensus 69 E~sSpNp~kp-LHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~ 117 (233)
=|+.--||++ ||+||+ +.--.+.++ ..+||+| ..-|+||=.++
T Consensus 36 iy~G~dPT~~sLHlGhl---v~l~~l~~l-q~~G~~~--~~ligd~ta~i 79 (410)
T PRK13354 36 LYLGFDPTAPSLHIGHL---VPLMKLKRF-QDAGHRP--VILIGGFTGKI 79 (410)
T ss_pred EEEcccCCCCCcchhhH---HHHHHHHHH-HHcCCeE--EEEEccccccc
Confidence 3788999996 999994 222334444 4578876 45667775444
No 112
>PRK12285 tryptophanyl-tRNA synthetase; Reviewed
Probab=69.89 E-value=9.7 Score=35.65 Aligned_cols=40 Identities=20% Similarity=0.214 Sum_probs=26.9
Q ss_pred ecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhh
Q psy6240 70 FSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGT 115 (233)
Q Consensus 70 ~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~ 115 (233)
||.--|+|.||+||+- + =..+..+-+ .|++| ...|.||=.
T Consensus 70 ytG~~PSG~lHLGh~~-~--~~~~~~lQ~-~g~~~--~i~IaD~ha 109 (368)
T PRK12285 70 YTGFMPSGPMHIGHKM-V--FDELKWHQE-FGANV--YIPIADDEA 109 (368)
T ss_pred EEccCCCCCccHHHHH-H--HHHHHHHHh-cCCCE--EEEecchHH
Confidence 8999999999999962 1 223444444 67765 455777733
No 113
>PRK00927 tryptophanyl-tRNA synthetase; Reviewed
Probab=68.71 E-value=3.5 Score=37.88 Aligned_cols=43 Identities=16% Similarity=0.299 Sum_probs=27.1
Q ss_pred ecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHH
Q psy6240 70 FSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFG 118 (233)
Q Consensus 70 ~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~ 118 (233)
|+.--|||+||+||.=.++ .-+.++-+. ++ ....|.||=.+.+
T Consensus 5 ~~G~~PTG~lHLG~~~g~~--~~~~~lQ~~--~~--~~~~IaD~ha~t~ 47 (333)
T PRK00927 5 LSGIQPTGKLHLGNYLGAI--KNWVELQDE--YE--CFFCIADLHALTV 47 (333)
T ss_pred EEeeCCCccchHHhHHHHH--HHHHHHHhc--CC--eEEEEecHHHHhC
Confidence 5667799999999974332 233334332 44 4577888866553
No 114
>COG0162 TyrS Tyrosyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=64.99 E-value=7.1 Score=37.06 Aligned_cols=40 Identities=15% Similarity=0.216 Sum_probs=29.4
Q ss_pred EEecCCCCCC-CcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCch
Q psy6240 68 VEFSSPNIAK-PFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDW 113 (233)
Q Consensus 68 VE~sSpNp~k-pLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~ 113 (233)
.=|+.--||+ .+|+||+ +.=..-+-|..+||+|+.. +|||
T Consensus 34 ~~Y~GfDPTa~slHlGhl----v~l~kL~~fQ~aGh~~ivL--igd~ 74 (401)
T COG0162 34 RVYIGFDPTAPSLHLGHL----VPLMKLRRFQDAGHKPIVL--IGDA 74 (401)
T ss_pred eEEEeeCCCCCccchhhH----HHHHHHHHHHHCCCeEEEE--eccc
Confidence 3477889999 9999997 4444556667789999865 3444
No 115
>PF00579 tRNA-synt_1b: tRNA synthetases class I (W and Y); InterPro: IPR002305 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. The class Ia aminoacyl-tRNA synthetases consist of the isoleucyl, methionyl, valyl, leucyl, cysteinyl, and arginyl-tRNA synthetases; the class Ib include the glutamyl and glutaminyl-tRNA synthetases, and the class Ic are the tyrosyl and tryptophanyl-tRNA synthetases [].; GO: 0000166 nucleotide binding, 0004812 aminoacyl-tRNA ligase activity, 0005524 ATP binding, 0006418 tRNA aminoacylation for protein translation, 0005737 cytoplasm; PDB: 2JAN_A 3P0J_B 3P0I_B 3P0H_B 1YID_C 2A4M_C 1YIA_C 1YI8_C 2EL7_A 3PRH_A ....
Probab=64.64 E-value=4.2 Score=36.29 Aligned_cols=42 Identities=14% Similarity=0.241 Sum_probs=26.9
Q ss_pred ecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHH
Q psy6240 70 FSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQF 117 (233)
Q Consensus 70 ~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~ 117 (233)
|+.--|||+||+||+=... .+..+.+ .|++|. .-|+||=..+
T Consensus 9 y~G~~PTg~lHlG~l~~~~---~~~~lq~-~g~~~~--i~iaD~~a~~ 50 (292)
T PF00579_consen 9 YTGIDPTGDLHLGHLVPIM---KLIWLQK-AGFKVI--ILIADLHALL 50 (292)
T ss_dssp EEEEESSSS-BHHHHHHHH---HHHHHHH-TTSEEE--EEEEHHHHHH
T ss_pred EEeECCCCcccchHHHHHH---HHHHHHh-cCCccc--eEecchhhcc
Confidence 6778899999999964443 3444444 788765 4567764444
No 116
>PRK12282 tryptophanyl-tRNA synthetase II; Reviewed
Probab=63.58 E-value=7.4 Score=35.89 Aligned_cols=41 Identities=12% Similarity=0.233 Sum_probs=27.4
Q ss_pred ecCCCCCCCcccccchhhhHHHHHHH-HHHHcCCeeEEEeeeCchhhHH
Q psy6240 70 FSSPNIAKPFHVGHFRGTVLGNFVAN-LSNYFANNVVCLNYLGDWGTQF 117 (233)
Q Consensus 70 ~sSpNp~kpLHvGHlRnaiiGd~Lar-ll~~~G~~V~r~nyinD~G~Q~ 117 (233)
||.--|||++|+||. +|-.... =|...|. | ...|.||=.++
T Consensus 6 ~sG~~PTG~~HLGn~----l~~~~~~~~lQ~~~~-~--~i~IaD~ha~~ 47 (333)
T PRK12282 6 LTGDRPTGKLHLGHY----VGSLKNRVALQNEHE-Q--FVLIADQQALT 47 (333)
T ss_pred EEeeCCCCcchHHHH----HHHHHHHHHHHhCCC-E--EEEEccchhHh
Confidence 566789999999996 5533333 3455554 4 57788886555
No 117
>KOG1149|consensus
Probab=60.45 E-value=5.7 Score=38.16 Aligned_cols=29 Identities=28% Similarity=0.503 Sum_probs=23.9
Q ss_pred EEEEecCCCCCCCcccccchhhhHHHHHHH
Q psy6240 66 VVVEFSSPNIAKPFHVGHFRGTVLGNFVAN 95 (233)
Q Consensus 66 v~VE~sSpNp~kpLHvGHlRnaiiGd~Lar 95 (233)
|-|=|. |.|||-||+|-+|.|..-=-.||
T Consensus 34 VRvRFA-PSPTGfLHlGgLRTALfNYLfAr 62 (524)
T KOG1149|consen 34 VRVRFA-PSPTGFLHLGGLRTALFNYLFAR 62 (524)
T ss_pred eEEeec-CCCCcceehhhHHHHHHHHHHHH
Confidence 666665 99999999999999988666665
No 118
>KOG0437|consensus
Probab=59.02 E-value=11 Score=38.81 Aligned_cols=65 Identities=20% Similarity=0.176 Sum_probs=55.3
Q ss_pred CCceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHHHHHHh
Q psy6240 62 CTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQIGLKE 126 (233)
Q Consensus 62 ~~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~~~~~~ 126 (233)
...|..+-|.-|-.+|.||+||+-+.-=-++-+-.-|-.|++|.--+=..=.|..|.-.+--+++
T Consensus 42 ~~~Kff~tfpyPYMNG~LHlGH~FslSK~eFa~~y~rL~Gk~vLfPfgFHCTGMPI~A~AdKLkr 106 (1080)
T KOG0437|consen 42 SKPKFFVTFPYPYMNGRLHLGHAFSLSKVEFASGYERLQGKNVLFPFGFHCTGMPIKASADKLKR 106 (1080)
T ss_pred ccCceeEeccccccCceeeccceeehhhhHHHHHHHHhcCceEEeecccccCCCccHHhHHHHHH
Confidence 36689999999999999999999999999999999999999999888777778877655544443
No 119
>PRK12556 tryptophanyl-tRNA synthetase; Provisional
Probab=55.33 E-value=10 Score=34.96 Aligned_cols=38 Identities=13% Similarity=0.391 Sum_probs=23.7
Q ss_pred ecCCCCCCCcccccchhhhHHHHH--HHHHHHcCCeeEEEeeeCch
Q psy6240 70 FSSPNIAKPFHVGHFRGTVLGNFV--ANLSNYFANNVVCLNYLGDW 113 (233)
Q Consensus 70 ~sSpNp~kpLHvGHlRnaiiGd~L--arll~~~G~~V~r~nyinD~ 113 (233)
||.--|||.+|+||. +|-.- .++.+..| +...+.|-||
T Consensus 7 ~sGiqPTG~~HLGny----lga~k~~~~lq~~~~--~~~~~~IADl 46 (332)
T PRK12556 7 LTGIKPTGYPHLGNY----IGAIKPALQMAKNYE--GKALYFIADY 46 (332)
T ss_pred EEEECCCCcchHHHH----HHHHHHHHHHHHhcC--CeEEEEEech
Confidence 788899999999995 55332 23444444 3344455555
No 120
>PRK12284 tryptophanyl-tRNA synthetase; Reviewed
Probab=54.55 E-value=12 Score=35.85 Aligned_cols=38 Identities=16% Similarity=0.307 Sum_probs=25.8
Q ss_pred ecCCCCCCCcccccchhhhHHHHH--HHHHHHcCCeeEEEeeeCch
Q psy6240 70 FSSPNIAKPFHVGHFRGTVLGNFV--ANLSNYFANNVVCLNYLGDW 113 (233)
Q Consensus 70 ~sSpNp~kpLHvGHlRnaiiGd~L--arll~~~G~~V~r~nyinD~ 113 (233)
||.--|||.+|+||. +|-.- .++....||+ ..+.|-||
T Consensus 6 lSGiqPTG~lHLGNy----lGaik~~v~lq~q~~~~--~~~~IADl 45 (431)
T PRK12284 6 LTGITTTGTPHLGNY----AGAIRPAIAASRQPGVE--SFYFLADY 45 (431)
T ss_pred EEEecCCCcchHHHH----HHHHHHHHHHHHhCCCc--EEEEeech
Confidence 677789999999995 55432 4555556776 45556665
No 121
>KOG0433|consensus
Probab=54.08 E-value=12 Score=38.36 Aligned_cols=44 Identities=11% Similarity=0.166 Sum_probs=34.4
Q ss_pred CCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHH
Q psy6240 75 IAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFG 118 (233)
Q Consensus 75 p~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~ 118 (233)
-+|.||+||++|-|+=|.+-|..-+.|.+|.-.-=.+=-|-.+.
T Consensus 66 anG~lhlghalnkILkdIinr~~laqg~~alyvpGwDchGLPiE 109 (937)
T KOG0433|consen 66 ANGNLHLGHALNKILKDIINRILLAQGKSALYVPGWDCHGLPIE 109 (937)
T ss_pred cCCCccchHHHHHHHHHHHHHHHHhcCceeccCCCCCcCCCchH
Confidence 55999999999999999999999999997754433333355554
No 122
>PLN02886 aminoacyl-tRNA ligase
Probab=52.91 E-value=10 Score=35.77 Aligned_cols=39 Identities=15% Similarity=0.250 Sum_probs=26.4
Q ss_pred EecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCch
Q psy6240 69 EFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDW 113 (233)
Q Consensus 69 E~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~ 113 (233)
=||.--|||.+|+||.=.++ .-...+-+ ||++ -+.|=||
T Consensus 49 v~sGiqPSG~lHLGnylGai--~~~v~lQ~--~~~~--~~~IADl 87 (389)
T PLN02886 49 VVSGVQPTGSIHLGNYLGAI--KNWVALQE--TYDT--FFCVVDL 87 (389)
T ss_pred EEEEECCCCccHHHHHHHHH--HHHHHHhc--cCCE--EEEEecH
Confidence 47888999999999974443 33444443 7765 4667766
No 123
>KOG1118|consensus
Probab=52.67 E-value=2e+02 Score=26.76 Aligned_cols=32 Identities=13% Similarity=0.281 Sum_probs=22.8
Q ss_pred HHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHHHHHHhh
Q psy6240 89 LGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQIGLKEL 127 (233)
Q Consensus 89 iGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~~~~~~~ 127 (233)
+|+++.+.-+.+|.+-. +|.-...++.++...
T Consensus 88 Lg~~mik~gkeLg~dSs-------~g~tl~~~Gesm~~i 119 (366)
T KOG1118|consen 88 LGDVMIKHGKELGDDSS-------FGHTLIDAGESMREI 119 (366)
T ss_pred HHHHHHHHHHhcCCCcc-------ccHHHHHHHHHHHHH
Confidence 89999999999999854 455555555555443
No 124
>PRK12283 tryptophanyl-tRNA synthetase; Reviewed
Probab=52.03 E-value=12 Score=35.54 Aligned_cols=41 Identities=20% Similarity=0.435 Sum_probs=25.7
Q ss_pred ecCCCCCCCcccccchhhhHHHHHHHHHH-HcCCeeEEEeeeCchhhHH
Q psy6240 70 FSSPNIAKPFHVGHFRGTVLGNFVANLSN-YFANNVVCLNYLGDWGTQF 117 (233)
Q Consensus 70 ~sSpNp~kpLHvGHlRnaiiGd~Larll~-~~G~~V~r~nyinD~G~Q~ 117 (233)
||.-=|||.+|+||. +| ++.+..+ -.|+++ -+.|-||=...
T Consensus 6 ~sGiqPSG~~HLGny----lG-~ik~wv~lq~~~~~--~~~IADlHAlt 47 (398)
T PRK12283 6 LSGMRPTGRLHLGHY----HG-VLKNWVKLQHEYEC--FFFVADWHALT 47 (398)
T ss_pred EEEeCCCCcchHHHH----HH-HHHHHHHHhcCCcE--EEEeecHHHHh
Confidence 455679999999997 45 3344333 236654 56777775443
No 125
>COG0180 TrpS Tryptophanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=47.05 E-value=23 Score=32.52 Aligned_cols=59 Identities=12% Similarity=0.191 Sum_probs=39.9
Q ss_pred ecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCch--------------hhHHHHHHHHHHhhccCcCc
Q psy6240 70 FSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDW--------------GTQFGLLQIGLKELNIKHTD 133 (233)
Q Consensus 70 ~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~--------------G~Q~~~l~~~~~~~~~~~~~ 133 (233)
+|.-=|||.||+||- +|-.-.++.-..+| +..-+.|-|+ -.++..++..|...|.+|+.
T Consensus 9 lSG~~PSG~lHLGny----~ga~~~~v~~q~~~-~~~f~~IaDlha~t~~~~~~~~~l~~~~~e~~a~~LA~GiDP~k 81 (314)
T COG0180 9 LSGIQPSGKLHLGNY----LGAIRNWVLLQEEY-YECFFFIADLHAITVRQDPTEEDLRQATREVAADYLAVGLDPEK 81 (314)
T ss_pred EecCCCCCCcchhHh----HHHHHHHHHHhccc-CceEEEEecHHHhhcCCCChHHHHHHHHHHHHHHHHHhccCccc
Confidence 577889999999997 88888888877776 3344444443 33444455666666766653
No 126
>PF09456 RcsC: RcsC Alpha-Beta-Loop (ABL); InterPro: IPR019017 This domain is found in the C terminus of the signal transduction response regulator (phospho-relay) kinase RcsC, between the ATP-binding region (IPR003594 from INTERPRO) and the receiver region (IPR001789 from INTERPRO). This domain forms a discrete alpha/beta/loop structure []. The Rcs signalling pathway controls a variety of physiological functions like capsule synthesis, cell division or motility in prokaryotes. The Rcs regulation cascade, involving a multi-step phosphorelay between the two membrane-bound hybrid sensor kinases RcsC and RcsD and the global regulator RcsB, is, up to now, one of the most complicated regulatory systems in bacteria []. ; GO: 0004673 protein histidine kinase activity, 0004871 signal transducer activity, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent, 0018106 peptidyl-histidine phosphorylation, 0005886 plasma membrane, 0016021 integral to membrane; PDB: 2AYY_A 2AYX_A.
Probab=45.87 E-value=16 Score=27.64 Aligned_cols=25 Identities=20% Similarity=0.347 Sum_probs=19.7
Q ss_pred chhhhHHHHHHHHHHHcCCeeEEEe
Q psy6240 84 FRGTVLGNFVANLSNYFANNVVCLN 108 (233)
Q Consensus 84 lRnaiiGd~Larll~~~G~~V~r~n 108 (233)
.||+-+-+.|-++|...|..|.+-.
T Consensus 6 irNa~Le~yL~~lL~~~G~~v~~y~ 30 (92)
T PF09456_consen 6 IRNAYLESYLQRLLSYHGFQVQRYE 30 (92)
T ss_dssp ---HHHHHHHHHHHCTTTEEEEE-S
T ss_pred ehhHHHHHHHHHHHHHCCcEEEEec
Confidence 5999999999999999999888755
No 127
>COG2945 Predicted hydrolase of the alpha/beta superfamily [General function prediction only]
Probab=43.13 E-value=27 Score=30.17 Aligned_cols=47 Identities=15% Similarity=0.221 Sum_probs=37.4
Q ss_pred CCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeC------chhhHHHHHH
Q psy6240 74 NIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLG------DWGTQFGLLQ 121 (233)
Q Consensus 74 Np~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyin------D~G~Q~~~l~ 121 (233)
++-+|++=||.-|- +=..|+++|...|+-+.|-||=| +|.+=+|.+.
T Consensus 34 ~HPHPl~gGtm~nk-vv~~la~~l~~~G~atlRfNfRgVG~S~G~fD~GiGE~~ 86 (210)
T COG2945 34 CHPHPLFGGTMNNK-VVQTLARALVKRGFATLRFNFRGVGRSQGEFDNGIGELE 86 (210)
T ss_pred cCCCccccCccCCH-HHHHHHHHHHhCCceEEeecccccccccCcccCCcchHH
Confidence 56679999995555 45899999999999999999955 6666666654
No 128
>PLN02486 aminoacyl-tRNA ligase
Probab=43.07 E-value=34 Score=32.24 Aligned_cols=38 Identities=18% Similarity=0.309 Sum_probs=25.3
Q ss_pred ecCCCCCCC-cccccchhhhHHHHHHHHHH-HcCCeeEEEeeeCch
Q psy6240 70 FSSPNIAKP-FHVGHFRGTVLGNFVANLSN-YFANNVVCLNYLGDW 113 (233)
Q Consensus 70 ~sSpNp~kp-LHvGHlRnaiiGd~Larll~-~~G~~V~r~nyinD~ 113 (233)
|+.--|+|+ ||+||+ ++=...+-|. +.|..|.-. +.|+
T Consensus 77 YtG~~PSg~~lHlGHl----v~~~~~~~lQ~~~~~~~~I~--iaD~ 116 (383)
T PLN02486 77 YTGRGPSSEALHLGHL----IPFMFTKYLQDAFKVPLVIQ--LTDD 116 (383)
T ss_pred EeCCCCCCccccHHHH----HHHHHHHHHHHhCCCeEEEE--ecCH
Confidence 888999995 999995 5544444445 446555444 6774
No 129
>TIGR01837 PHA_granule_1 poly(hydroxyalkanoate) granule-associated protein. This model describes a domain found in some proteins associated with polyhydroxyalkanoate (PHA) granules in a subset of species that have PHA inclusion granules. Included are two tandem proteins of Pseudomonas oleovorans, PhaI and PhaF, and their homologs in related species. PhaF proteins have a low-complexity C-terminal region with repeats similar to AAAKP.
Probab=42.11 E-value=1.4e+02 Score=23.26 Aligned_cols=23 Identities=17% Similarity=0.462 Sum_probs=19.4
Q ss_pred HHHHHHHHHHHHHHHHHhhhcCC
Q psy6240 206 KDWLDFQQVTLNELRGTYERLGI 228 (233)
Q Consensus 206 ~~w~~~~~~sl~~~~~~~~rlgi 228 (233)
.-|..+-+.+-+.+++.|.+||+
T Consensus 70 ~~~~~le~~~~~~v~~~L~~lg~ 92 (118)
T TIGR01837 70 RNWDKLEKAFDERVEQALNRLNI 92 (118)
T ss_pred hhHHHHHHHHHHHHHHHHHHcCC
Confidence 45888888888999999999987
No 130
>PF00750 tRNA-synt_1d: tRNA synthetases class I (R); InterPro: IPR015945 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 represents the core region of arginyl-tRNA synthetase (6.1.1.19 from EC), which has been crystallized and preliminary X-ray crystallographic analysis of yeast arginyl-tRNA synthetase-yeast tRNAArg complexes is available []. ; GO: 0000166 nucleotide binding, 0004814 arginine-tRNA ligase activity, 0005524 ATP binding, 0006420 arginyl-tRNA aminoacylation, 0005737 cytoplasm; PDB: 2ZUE_A 2ZUF_A 3FNR_A 1IQ0_A 1F7V_A 1F7U_A 1BS2_A 3GDZ_B.
Probab=41.45 E-value=23 Score=32.67 Aligned_cols=17 Identities=24% Similarity=0.493 Sum_probs=9.6
Q ss_pred HHHHHHHHhhhcCCccc
Q psy6240 215 TLNELRGTYERLGIHFS 231 (233)
Q Consensus 215 sl~~~~~~~~rlgi~FD 231 (233)
+.+.+++++.+|++.|+
T Consensus 151 ~k~~l~~l~i~fDv~~~ 167 (354)
T PF00750_consen 151 SKETLQRLYIRFDVWFD 167 (354)
T ss_dssp HHHHHHHTT---SEEEE
T ss_pred HHHHHHHHHHHhCcCcc
Confidence 55667777777777764
No 131
>PF04028 DUF374: Domain of unknown function (DUF374); InterPro: IPR007172 This is a bacterial domain of unknown function.
Probab=38.09 E-value=32 Score=24.76 Aligned_cols=20 Identities=15% Similarity=0.205 Sum_probs=18.6
Q ss_pred HHHHHHHHHHHcCCeeEEEe
Q psy6240 89 LGNFVANLSNYFANNVVCLN 108 (233)
Q Consensus 89 iGd~Larll~~~G~~V~r~n 108 (233)
=|+.++++++..|++++|=.
T Consensus 21 DGe~ia~~~~~~G~~~iRGS 40 (74)
T PF04028_consen 21 DGELIARVLERFGFRTIRGS 40 (74)
T ss_pred CHHHHHHHHHHcCCCeEEeC
Confidence 38999999999999999988
No 132
>cd02156 nt_trans nucleotidyl transferase superfamily. nt_trans (nucleotidyl transferase) This superfamily includes the class I amino-acyl tRNA synthetases, pantothenate synthetase (PanC), ATP sulfurylase, and the cytidylyltransferases, all of which have a conserved dinucleotide-binding domain.
Probab=36.74 E-value=14 Score=27.55 Aligned_cols=13 Identities=23% Similarity=0.437 Sum_probs=10.0
Q ss_pred CCCCCCCcccccch
Q psy6240 72 SPNIAKPFHVGHFR 85 (233)
Q Consensus 72 SpNp~kpLHvGHlR 85 (233)
..++ +|+|.||+.
T Consensus 5 ~G~F-dp~H~GH~~ 17 (105)
T cd02156 5 PGEP-GYLHIGHAK 17 (105)
T ss_pred CCCC-CCCCHHHHH
Confidence 3455 799999985
No 133
>PF12324 HTH_15: Helix-turn-helix domain of alkylmercury lyase; InterPro: IPR024259 Alkylmercury lyase (EC:4.99.1.2) cleaves the carbon-mercury bond of organomercurials such as phenylmercuric acetate. This entry represents the N-terminal helix-turn-helix domain.; PDB: 3FN8_B 3F2G_B 3F0P_A 3F2F_B 3F2H_A 3F0O_B 1S6L_A.
Probab=34.30 E-value=1.3e+02 Score=21.96 Aligned_cols=49 Identities=8% Similarity=0.096 Sum_probs=34.4
Q ss_pred hHHHHHHHHHHHHhcCCchhhHHHHHHHHHHHHHHHHHHhhhc-CCcccCC
Q psy6240 184 DVQEQASNIFQQLECGKNTLHTKDWLDFQQVTLNELRGTYERL-GIHFSVD 233 (233)
Q Consensus 184 ~~~~~a~~~~~~le~gd~~~~~~~w~~~~~~sl~~~~~~~~rl-gi~FD~~ 233 (233)
.....-+.+++.|-.|.|-.+ +....-..+.++.....|..+ +++||.+
T Consensus 21 ~~~~L~r~LLr~LA~G~PVt~-~~LA~a~g~~~e~v~~~L~~~p~tEyD~~ 70 (77)
T PF12324_consen 21 GFAWLLRPLLRLLAKGQPVTV-EQLAAALGWPVEEVRAALAAMPDTEYDDQ 70 (77)
T ss_dssp THHHHHHHHHHHHTTTS-B-H-HHHHHHHT--HHHHHHHHHH-TTSEEETT
T ss_pred ccHHHHHHHHHHHHcCCCcCH-HHHHHHHCCCHHHHHHHHHhCCCceEcCC
Confidence 355667789999999999888 555556678999999999776 7888864
No 134
>TIGR00125 cyt_tran_rel cytidyltransferase-related domain. Protein families that contain at least one copy of this domain include citrate lyase ligase, pantoate-beta-alanine ligase, glycerol-3-phosphate cytidyltransferase, ADP-heptose synthase, phosphocholine cytidylyltransferase, lipopolysaccharide core biosynthesis protein KdtB, the bifunctional protein NadR, and a number whose function is unknown. Many of these proteins are known to use CTP or ATP and release pyrophosphate.
Probab=31.86 E-value=14 Score=24.74 Aligned_cols=8 Identities=63% Similarity=1.526 Sum_probs=6.8
Q ss_pred Ccccccch
Q psy6240 78 PFHVGHFR 85 (233)
Q Consensus 78 pLHvGHlR 85 (233)
|+|.||++
T Consensus 10 p~H~GH~~ 17 (66)
T TIGR00125 10 PFHLGHLD 17 (66)
T ss_pred CCCHHHHH
Confidence 79999974
No 135
>PF10137 TIR-like: Predicted nucleotide-binding protein containing TIR-like domain; InterPro: IPR019302 This entry represents a TIR-like domain found in a family of prokaryotic predicted nucleotide-binding proteins. Their exact function has not, as yet, been defined.
Probab=31.03 E-value=46 Score=26.34 Aligned_cols=36 Identities=11% Similarity=0.075 Sum_probs=29.0
Q ss_pred cccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhH
Q psy6240 81 VGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQ 116 (233)
Q Consensus 81 vGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q 116 (233)
|||+|+..+=+.+.++|+..|.+++--.=--+.|.-
T Consensus 4 Ivhg~~~~~~~~v~~~L~~~~~ep~i~~~~~~~g~t 39 (125)
T PF10137_consen 4 IVHGRDLAAAEAVERFLEKLGLEPIIWHEQPNLGQT 39 (125)
T ss_pred EEeCCCHHHHHHHHHHHHhCCCceEEeecCCCCCCc
Confidence 789999999999999999999998855543355543
No 136
>PRK12558 glutamyl-tRNA synthetase; Provisional
Probab=30.24 E-value=33 Score=33.02 Aligned_cols=34 Identities=12% Similarity=0.157 Sum_probs=25.3
Q ss_pred HHHHHhcCCchhhHHHHHHHHHHHHHHHHHHhhhcCCcccC
Q psy6240 192 IFQQLECGKNTLHTKDWLDFQQVTLNELRGTYERLGIHFSV 232 (233)
Q Consensus 192 ~~~~le~gd~~~~~~~w~~~~~~sl~~~~~~~~rlgi~FD~ 232 (233)
++.++|+-|.+. .++.+++.|.++|++|||+||.
T Consensus 37 fiLRIEDTD~~R-------s~~~~~~~I~e~L~wLGI~~De 70 (445)
T PRK12558 37 FILRIDDTDLER-------SKQEYADAIAEDLKWLGINWDR 70 (445)
T ss_pred EEEEeccCCccc-------chHHHHHHHHHHHHHcCCCCCc
Confidence 344556556532 3477999999999999999995
No 137
>PF03068 PAD: Protein-arginine deiminase (PAD); InterPro: IPR013530 In the presence of calcium ions, Protein-arginine deiminase (PAD) enzymes 3.5.3.15 from EC catalyse the post-translational modification reaction responsible for the formation of citrulline residues from protein-bound arginine residues []. Four PAD isotypes of PAD have been identified in mammals, a fifth may also exist. Non-mammalian vertebrates appear to have only a single PAD enzyme. All known natural substrates of PAD are proteins known to have an important structural function, such as keratin (PAD1), intermediate filaments or proteins associated with intermediate filaments. Citrulination may have consequences for the structural integrity and interactions of these proteins. Physiological levels of calcium appear to be too low to activate these enzymes suggesting a role between PAD activation and loss of calcium homeostasis during terminal differentiation and cell death (apoptosis). ; GO: 0004668 protein-arginine deiminase activity, 0005509 calcium ion binding, 0005737 cytoplasm; PDB: 3B1U_A 3B1T_A 2DW5_A 3APN_A 1WD9_A 2DEX_X 1WD8_A 2DEY_X 2DEW_X 1WDA_A ....
Probab=29.07 E-value=44 Score=31.61 Aligned_cols=40 Identities=25% Similarity=0.369 Sum_probs=25.6
Q ss_pred ecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhh
Q psy6240 70 FSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGT 115 (233)
Q Consensus 70 ~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~ 115 (233)
+..|||-||+==|+ -++-+.+.++|+.+|++| .||+||=.
T Consensus 318 l~~P~P~GP~i~G~---d~~e~~v~~~~~~~G~~v---~fiDD~~~ 357 (385)
T PF03068_consen 318 LGIPKPFGPVIDGR---DCLEEAVRELLEPAGLNV---TFIDDWFS 357 (385)
T ss_dssp EEEE-----EETTE---EHHHHHHHHHHGGGT-EE---EEE--TTT
T ss_pred cccCCCcCCccCCE---ehHHHHHHHHHhhcCCEE---EEEeCcHH
Confidence 44599999997665 578899999999999976 58999944
No 138
>PF12645 HTH_16: Helix-turn-helix domain; InterPro: IPR024760 This domain appears to be a helix-turn-helix domain, suggesting a transcriptional regulatory protein. Some proteins with this domain are annotated as conjugative transposon proteins.
Probab=28.33 E-value=55 Score=22.80 Aligned_cols=39 Identities=8% Similarity=0.049 Sum_probs=21.3
Q ss_pred HHHhcCCchhhHHHHHHHHH----HHHHHHHHHhhhcCCcccC
Q psy6240 194 QQLECGKNTLHTKDWLDFQQ----VTLNELRGTYERLGIHFSV 232 (233)
Q Consensus 194 ~~le~gd~~~~~~~w~~~~~----~sl~~~~~~~~rlgi~FD~ 232 (233)
.+-.+||+++++++.+.+.. .|++.+..-+......+|.
T Consensus 5 ~~A~~GD~~A~~~IL~~y~~yI~kls~r~~~d~~g~~~~~vDe 47 (65)
T PF12645_consen 5 KAAKQGDPEAMEEILKHYEPYISKLSTRTLYDEYGNVYGYVDE 47 (65)
T ss_pred HHHHcCCHHHHHHHHHHHHHHHHHHHHhhcccccCCcCceeCH
Confidence 33456888777666666543 3444444444444555554
No 139
>COG1832 Predicted CoA-binding protein [General function prediction only]
Probab=27.04 E-value=99 Score=25.15 Aligned_cols=37 Identities=19% Similarity=0.093 Sum_probs=31.5
Q ss_pred CCceEEEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEee
Q psy6240 62 CTDKVVVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNY 109 (233)
Q Consensus 62 ~~~~v~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~ny 109 (233)
+.++|-|==.|+||.+|-|. ++.-|...||+|+-.|=
T Consensus 15 ~~K~IAvVG~S~~P~r~sy~-----------V~kyL~~~GY~ViPVNP 51 (140)
T COG1832 15 SAKTIAVVGASDKPDRPSYR-----------VAKYLQQKGYRVIPVNP 51 (140)
T ss_pred hCceEEEEecCCCCCccHHH-----------HHHHHHHCCCEEEeeCc
Confidence 46788888889999999775 68889999999999884
No 140
>cd05212 NAD_bind_m-THF_DH_Cyclohyd_like NAD(P) binding domain of methylene-tetrahydrofolate dehydrogenase and methylene-tetrahydrofolate dehydrogenase/cyclohydrolase. NAD(P) binding domains of methylene-tetrahydrofolate dehydrogenase (m-THF DH) and m-THF DH/cyclohydrolase bifunctional enzymes (m-THF DH/cyclohydrolase). M-THF is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. In addition, most DHs also have an associated cyclohydrolase activity which catalyzes its hydrolysis to N10-formyltetrahydrofolate. m-THF DH is typically found as part of a multifunctional protein in eukaryotes. NADP-dependent m-THF DH in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional
Probab=26.74 E-value=60 Score=26.09 Aligned_cols=26 Identities=15% Similarity=0.055 Sum_probs=23.8
Q ss_pred cchhhhHHHHHHHHHHHcCCeeEEEe
Q psy6240 83 HFRGTVLGNFVANLSNYFANNVVCLN 108 (233)
Q Consensus 83 HlRnaiiGd~Larll~~~G~~V~r~n 108 (233)
-+||.++|.-||++|...|..|..-.
T Consensus 34 vGrs~~vG~pla~lL~~~gatV~~~~ 59 (140)
T cd05212 34 VGRSGIVGAPLQCLLQRDGATVYSCD 59 (140)
T ss_pred ECCCchHHHHHHHHHHHCCCEEEEeC
Confidence 57999999999999999999998775
No 141
>cd07381 MPP_CapA CapA and related proteins, metallophosphatase domain. CapA is one of three membrane-associated enzymes in Bacillus anthracis that is required for synthesis of gamma-polyglutamic acid (PGA), a major component of the bacterial capsule. The YwtB and PgsA proteins of Bacillus subtilis are closely related to CapA and are also included in this alignment model. CapA belongs to the metallophosphatase (MPP) superfamily. MPPs are functionally diverse, but all share a conserved domain with an active site consisting of two metal ions (usually manganese, iron, or zinc) coordinated with octahedral geometry by a cage of histidine, aspartate, and asparagine residues. The MPP superfamily includes: Mre11/SbcD-like exonucleases, Dbr1-like RNA lariat debranching enzymes, YfcE-like phosphodiesterases, purple acid phosphatases (PAPs), YbbF-like UDP-2,3-diacylglucosamine hydrolases, and acid sphingomyelinases (ASMases). The conserved domain is a double beta-sheet sandwich with a di-metal
Probab=26.35 E-value=50 Score=28.24 Aligned_cols=26 Identities=31% Similarity=0.253 Sum_probs=22.7
Q ss_pred HHHHHHHHHcCCeeEEE--eeeCchhhH
Q psy6240 91 NFVANLSNYFANNVVCL--NYLGDWGTQ 116 (233)
Q Consensus 91 d~Larll~~~G~~V~r~--nyinD~G~Q 116 (233)
..++..|+.+|+++... ||.-|+|.+
T Consensus 67 ~~~~~~L~~~G~d~~tlaNNH~fD~G~~ 94 (239)
T cd07381 67 PEVADALKAAGFDVVSLANNHTLDYGEE 94 (239)
T ss_pred HHHHHHHHHhCCCEEEcccccccccchH
Confidence 45678899999999887 999999987
No 142
>TIGR01510 coaD_prev_kdtB pantetheine-phosphate adenylyltransferase, bacterial. This model describes pantetheine-phosphate adenylyltransferase, the penultimate enzyme of coenzyme A (CoA) biosynthesis in bacteria. It does not show any strong homology to eukaryotic enzymes of coenzyme A biosynthesis. This protein was previously designated KdtB and postulated (because of cytidyltransferase homology and proximity to kdtA) to be an enzyme of LPS biosynthesis, a cytidyltransferase for 3-deoxy-D-manno-2-octulosonic acid. However, no activity toward that compound was found with either CTP or ATP. The phylogenetic distribution of this enzyme is more consistent with coenzyme A biosynthesis than with LPS biosynthesis.
Probab=24.94 E-value=22 Score=28.70 Aligned_cols=8 Identities=38% Similarity=0.812 Sum_probs=7.2
Q ss_pred Ccccccch
Q psy6240 78 PFHVGHFR 85 (233)
Q Consensus 78 pLHvGHlR 85 (233)
|+|.||++
T Consensus 10 P~H~GHl~ 17 (155)
T TIGR01510 10 PVTNGHLD 17 (155)
T ss_pred CCcHHHHH
Confidence 88999986
No 143
>PRK10976 putative hydrolase; Provisional
Probab=24.64 E-value=81 Score=27.08 Aligned_cols=45 Identities=13% Similarity=0.198 Sum_probs=39.1
Q ss_pred EEEecCCCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHHHH
Q psy6240 67 VVEFSSPNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQIG 123 (233)
Q Consensus 67 ~VE~sSpNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~~~ 123 (233)
.+|.+.++.+| |..|..+++..|.+......+||..+=+.||-.+
T Consensus 181 ~~eI~~~gvsK------------g~al~~l~~~lgi~~~~viafGD~~NDi~Ml~~a 225 (266)
T PRK10976 181 CLEVMAGGVSK------------GHALEAVAKKLGYSLKDCIAFGDGMNDAEMLSMA 225 (266)
T ss_pred eEEEEcCCCCh------------HHHHHHHHHHcCCCHHHeEEEcCCcccHHHHHHc
Confidence 46777777777 9999999999999999999999999999998644
No 144
>PF08494 DEAD_assoc: DEAD/H associated; InterPro: IPR013701 This domain is found in ATP-dependent helicases as well as a number of hypothetical proteins together with the helicase conserved C-terminal domain (IPR011545 from INTERPRO) and the IPR001650 from INTERPRO domain. ; GO: 0005524 ATP binding, 0016818 hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides
Probab=24.47 E-value=1.2e+02 Score=25.41 Aligned_cols=53 Identities=13% Similarity=0.117 Sum_probs=36.2
Q ss_pred CCceEEEEecC----CCCCCCcccccchhhhHHHHHHHHHHHcCCeeEEEeeeCchhh
Q psy6240 62 CTDKVVVEFSS----PNIAKPFHVGHFRGTVLGNFVANLSNYFANNVVCLNYLGDWGT 115 (233)
Q Consensus 62 ~~~~v~VE~sS----pNp~kpLHvGHlRnaiiGd~Larll~~~G~~V~r~nyinD~G~ 115 (233)
..++|+||.+- -...=--+.|+--|-.+|-.|+..+....- .....+++|.|-
T Consensus 4 ~~~~ilvE~~~~~~~~~~v~~~~~G~~vN~~L~~lla~~l~~~~~-~~v~~~~~dygi 60 (187)
T PF08494_consen 4 TDRRILVERFRERGGRHVVLHSFFGRRVNEALARLLAYRLSRRYG-LSVSVSVDDYGI 60 (187)
T ss_pred CCCEEEEEEEEecCCcEEEEEcCCCHHHHHHHHHHHHHHHHHhcC-CCeEEEEcCCEE
Confidence 46789999884 222222346999999999999988776533 244566788775
No 145
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=24.17 E-value=63 Score=26.35 Aligned_cols=28 Identities=29% Similarity=0.172 Sum_probs=22.5
Q ss_pred CCCcccccchhhhHHHHHHHHHHHcCCeeEE
Q psy6240 76 AKPFHVGHFRGTVLGNFVANLSNYFANNVVC 106 (233)
Q Consensus 76 ~kpLHvGHlRnaiiGd~Larll~~~G~~V~r 106 (233)
+|+--=||-|.+ ..++|+|+.+|++|+-
T Consensus 18 ak~GlDgHd~ga---kvia~~l~d~GfeVi~ 45 (143)
T COG2185 18 AKLGLDGHDRGA---KVIARALADAGFEVIN 45 (143)
T ss_pred eccCccccccch---HHHHHHHHhCCceEEe
Confidence 445556999988 4599999999999974
No 146
>PRK00168 coaD phosphopantetheine adenylyltransferase; Provisional
Probab=23.71 E-value=25 Score=28.60 Aligned_cols=16 Identities=25% Similarity=0.378 Sum_probs=11.0
Q ss_pred EEEecCCCCCCCcccccch
Q psy6240 67 VVEFSSPNIAKPFHVGHFR 85 (233)
Q Consensus 67 ~VE~sSpNp~kpLHvGHlR 85 (233)
.|=..|=| |+|.||++
T Consensus 4 gi~gGsFd---P~H~GHl~ 19 (159)
T PRK00168 4 AIYPGSFD---PITNGHLD 19 (159)
T ss_pred EEEeeecC---CCCHHHHH
Confidence 34445556 78999986
No 147
>PF09587 PGA_cap: Bacterial capsule synthesis protein PGA_cap; InterPro: IPR019079 CapA is a putative poly-gamma-glutamate capsule biosynthesis protein found in bacteria. Poly-gamma-glutamate is a natural polymer that may be involved in virulence and may help bacteria survive in high salt concentrations. It is a surface-associated protein [].
Probab=23.34 E-value=68 Score=27.75 Aligned_cols=25 Identities=24% Similarity=0.259 Sum_probs=21.2
Q ss_pred HHHHHHHHcCCeeEEE--eeeCchhhH
Q psy6240 92 FVANLSNYFANNVVCL--NYLGDWGTQ 116 (233)
Q Consensus 92 ~Larll~~~G~~V~r~--nyinD~G~Q 116 (233)
.++..|+.+|+++... ||+-|+|.+
T Consensus 66 ~~~~~L~~~G~d~vslANNH~~D~G~~ 92 (250)
T PF09587_consen 66 EILDALKDAGFDVVSLANNHIFDYGEE 92 (250)
T ss_pred HHHHHHHHcCCCEEEecCCCCccccHH
Confidence 4477889999999877 899999975
No 148
>cd03413 CbiK_C Anaerobic cobalamin biosynthetic cobalt chelatase (CbiK), C-terminal domain. CbiK is part of the cobalt-early path for cobalamin biosynthesis. It catalyzes the insertion of cobalt into the oxidized form of precorrin-2, factor II (sirohydrochlorin), the second step of the anaerobic branch of vitamin B12 biosynthesis. CbiK belongs to the class II family of chelatases, and is a homomeric enzyme that does not require ATP for its enzymatic activity.
Probab=22.43 E-value=64 Score=24.40 Aligned_cols=27 Identities=11% Similarity=0.058 Sum_probs=23.8
Q ss_pred ccchhhhHH---HHHHHHHHHcCCeeEEEe
Q psy6240 82 GHFRGTVLG---NFVANLSNYFANNVVCLN 108 (233)
Q Consensus 82 GHlRnaiiG---d~Larll~~~G~~V~r~n 108 (233)
+|.++-+-| ||-.+.|+..||+|...+
T Consensus 70 ~H~~~Dipge~~~SW~~~l~~~g~~v~~~~ 99 (103)
T cd03413 70 DHAHNDMAGDEPDSWKSILEAAGIKVETVL 99 (103)
T ss_pred ccchhcCCCCCchhHHHHHHHCCCeeEEEe
Confidence 489999999 599999999999998765
No 149
>PF01927 Mut7-C: Mut7-C RNAse domain; InterPro: IPR002782 This prokaryotic family of proteins have no known function. The proteins contain four conserved cysteines that may be involved in metal binding or disulphide bridges.
Probab=22.04 E-value=69 Score=25.69 Aligned_cols=21 Identities=24% Similarity=0.352 Sum_probs=17.1
Q ss_pred HHHHHHHHHHHcCCeeEEEeeeCch
Q psy6240 89 LGNFVANLSNYFANNVVCLNYLGDW 113 (233)
Q Consensus 89 iGd~Larll~~~G~~V~r~nyinD~ 113 (233)
+| .||+-|+.+||+|. |.+|.
T Consensus 9 L~-~Lar~LR~lG~Dt~---~~~~~ 29 (147)
T PF01927_consen 9 LG-RLARWLRLLGYDTL---YSRDI 29 (147)
T ss_pred HH-HHHHHHHHCCCcEE---EeCCC
Confidence 44 58999999999999 55565
No 150
>cd02163 PPAT Phosphopantetheine adenylyltransferase. Phosphopantetheine adenylyltransferase (PPAT). PPAT is an essential enzyme in bacteria, responsible for catalyzing the rate-limiting step in coenzyme A (CoA) biosynthesis. The dinucleotide-binding fold of PPAT is homologous to class I aminoacyl-tRNA synthetases. CoA has been shown to inhibit PPAT and competes with ATP, PhP, and dPCoA. PPAT is a homohexamer in E. coli.
Probab=21.96 E-value=28 Score=28.08 Aligned_cols=8 Identities=38% Similarity=0.849 Sum_probs=7.1
Q ss_pred Ccccccch
Q psy6240 78 PFHVGHFR 85 (233)
Q Consensus 78 pLHvGHlR 85 (233)
|+|.||++
T Consensus 10 P~H~GHl~ 17 (153)
T cd02163 10 PITNGHLD 17 (153)
T ss_pred CCCHHHHH
Confidence 78999986
No 151
>PF09886 DUF2113: Uncharacterized protein conserved in archaea (DUF2113); InterPro: IPR016762 There is currently no experimental data for members of this group or their homologues. Based on distant sequence similarity, they may be tentatively predicted to be nucleic acid-binding proteins, they are also likely to be linked to methanogenesis or a process closely connected to it.
Probab=21.89 E-value=3.3e+02 Score=23.22 Aligned_cols=84 Identities=10% Similarity=0.100 Sum_probs=56.4
Q ss_pred ecCCeEEEEeChhhHHHHHHhccCCCcccccc-cCCCceEEEEecCCCCC----CCcccccchhhhHHHHHHHHHHH--c
Q psy6240 28 IDDDNVILPVDKTEFITQVLTSTGDKHVYKTQ-LNCTDKVVVEFSSPNIA----KPFHVGHFRGTVLGNFVANLSNY--F 100 (233)
Q Consensus 28 ~~ggfINf~l~~~~~~~~vl~~~~~~~~~g~~-~~~~~~v~VE~sSpNp~----kpLHvGHlRnaiiGd~Larll~~--~ 100 (233)
..+|=+=+.+..+.|+..+|..+= ..||+. ..++.+.-|.-.|+.+. ..|-|--.+....=+.+=-+.+- -
T Consensus 70 ~~~~~~~i~I~dEtYlp~LL~kLW--~kyGr~~V~QP~Rf~I~i~~~~~~~~~i~dlvV~Dp~~~l~~~v~da~~RI~PE 147 (188)
T PF09886_consen 70 KGEGEIKIKIEDETYLPDLLKKLW--EKYGRENVDQPDRFEIIIDSDIDEAKDIEDLVVYDPSEDLKKKVYDAMFRIAPE 147 (188)
T ss_pred CCCcEEEEEEcccchHHHHHHHHH--HHhCccccCCCCceEEEecCCcccccchhhcEEECcHHHHHHHHHHHHHHhCCC
Confidence 344677788888999888888752 247764 46788888888888765 45556555555544443333333 3
Q ss_pred CCeeEEEeeeCch
Q psy6240 101 ANNVVCLNYLGDW 113 (233)
Q Consensus 101 G~~V~r~nyinD~ 113 (233)
|++|.+++|-|+.
T Consensus 148 GFRVr~~~~~~~~ 160 (188)
T PF09886_consen 148 GFRVRRHYYEGNS 160 (188)
T ss_pred ccEEeeccccCCe
Confidence 9999999887753
No 152
>PF06757 Ins_allergen_rp: Insect allergen related repeat, nitrile-specifier detoxification; InterPro: IPR010629 This entry represents several insect specific allergen repeats. These repeats are commonly found in various proteins from cockroaches, fruit flies and mosquitos. It has been suggested that the repeat sequences have evolved by duplication of an ancestral amino acid domain, which may have arisen from the mitochondrial energy transfer proteins []. This family exemplifies a case of novel gene evolution. The case in point is the arms-race between plants and their infective insective herbivores in the area of the glucosinolate-myrosinase system. Brassicas have developed the glucosinolate-myrosinase system as chemical defence mechanism against the insects, and consequently the insects have adapted to produce a detoxifying molecule, nitrile-specifier protein (NSP). NSP is present in the Pieris rapae (Cabbage white butterfly). NSP is structurally different from and has no amino acid homology to any known detoxifying enzymes, and it appears to have arisen by a process of domain and gene duplication of a sequence of unknown function that is widespread in insect species and referred to as insect-allergen-repeat protein. Thus this family is found either as a single domain or as a multiple repeat-domain [].
Probab=21.72 E-value=2.3e+02 Score=23.32 Aligned_cols=59 Identities=14% Similarity=0.229 Sum_probs=32.9
Q ss_pred cchhHHHHHHHhhhHhhcCCchHHHHHHHHHHHHhcCCchhhHHHHHHH-HHHHHHHHHHHhhhcCCccc
Q psy6240 163 APLDVLYKAYVKANDLAKINPDVQEQASNIFQQLECGKNTLHTKDWLDF-QQVTLNELRGTYERLGIHFS 231 (233)
Q Consensus 163 ~p~~~y~g~y~~~~~~~~~d~~~~~~a~~~~~~le~gd~~~~~~~w~~~-~~~sl~~~~~~~~rlgi~FD 231 (233)
.|.+....-|.. ++++++++.+-.+.+ . .++.. ++++.+ ..-.+..+...|++.||..|
T Consensus 114 lP~~~l~aL~~~---K~~~s~~F~~f~~~l----~--S~ef~-~~~~~~~~~~~~~~~~~~L~~~Gvdv~ 173 (179)
T PF06757_consen 114 LPRDKLRALYEE---KLATSPEFAEFVEAL----R--SPEFQ-QLYNALWASPEFQRLLNELRENGVDVD 173 (179)
T ss_pred CCHHHHHHHHHH---HHHCCHHHHHHHHHH----c--CHHHH-HHHHHHHcCHHHHHHHHHHHHcCCCHH
Confidence 555555555533 666777776644444 2 12222 334433 33455777788888888665
No 153
>smart00854 PGA_cap Bacterial capsule synthesis protein PGA_cap. This protein is a putative poly-gamma-glutamate capsule biosynthesis protein found in bacteria. Poly-gamma-glutamate is a natural polymer that may be involved in virulence and may help bacteria survive in high salt concentrations. It is a surface-associated protein.
Probab=21.70 E-value=70 Score=27.44 Aligned_cols=28 Identities=25% Similarity=0.049 Sum_probs=23.5
Q ss_pred HHHHHHHHHHcCCeeEEE--eeeCchhhHH
Q psy6240 90 GNFVANLSNYFANNVVCL--NYLGDWGTQF 117 (233)
Q Consensus 90 Gd~Larll~~~G~~V~r~--nyinD~G~Q~ 117 (233)
+..++.+|+.+|+++... ||.-|+|.+-
T Consensus 62 ~~~~~~~l~~~G~d~~~laNNH~fD~G~~g 91 (239)
T smart00854 62 PPENAAALKAAGFDVVSLANNHSLDYGEEG 91 (239)
T ss_pred CHHHHHHHHHhCCCEEEeccCcccccchHH
Confidence 345688999999999876 9999999764
No 154
>PF08608 Wyosine_form: Wyosine base formation; InterPro: IPR013917 The proteins in this entry appear to be important in wyosine base formation in a subset of phenylalanine specific tRNAs. It has been proposed that it participates in converting tRNA(Phe)-m(1)G(37) to tRNA(Phe)-yW []. ; PDB: 2YX0_A 2Z2U_A.
Probab=20.40 E-value=78 Score=21.97 Aligned_cols=35 Identities=17% Similarity=0.202 Sum_probs=17.4
Q ss_pred CCCcccccchhh----------hHHHHHHHHHHHcCCeeEEEeee
Q psy6240 76 AKPFHVGHFRGT----------VLGNFVANLSNYFANNVVCLNYL 110 (233)
Q Consensus 76 ~kpLHvGHlRna----------iiGd~Larll~~~G~~V~r~nyi 110 (233)
.+++|+|+-|+- =+-++-..|.+.+||.|..+...
T Consensus 10 Ka~~~~G~s~~rLt~~nmp~h~eV~~F~~~l~~~~~y~i~~e~~~ 54 (62)
T PF08608_consen 10 KAYMHVGYSRNRLTMGNMPWHEEVLDFAEELAELLGYEITDEHEH 54 (62)
T ss_dssp EE------------GGGS--HHHHHHHHHHHHTTSTEEEEEEECC
T ss_pred ecCcccccccCccccCCCCcHHHHHHHHHHHHhhcCCEEEecccc
Confidence 467899988721 24566667777889999887654
No 155
>PF00994 MoCF_biosynth: Probable molybdopterin binding domain; InterPro: IPR001453 Eukaryotic and prokaryotic molybdoenzymes require a molybdopterin cofactor (MoCF) for their activity. The biosynthesis of this cofactor involves a complex multistep enzymatic pathway. One of the eukaryotic proteins involved in this pathway is the Drosophila protein cinnamon [] which is highly similar to gephyrin, a rat microtubule-associated protein which was thought to anchor the glycine receptor to subsynaptic microtubules. Cinnamon and gephyrin are evolutionary related, in their N-terminal half, to the Escherichia coli MoCF biosynthesis proteins mog/chlG and moaB/chlA2 and, in their C-terminal half, to E. coli moeA/chlE.; GO: 0006777 Mo-molybdopterin cofactor biosynthetic process; PDB: 3TCR_B 1O8O_B 1O8Q_G 1EAV_D 1O8N_C 1UUX_A 1UUY_A 2G2C_A 2G4R_C 3K6A_F ....
Probab=20.21 E-value=1.1e+02 Score=23.95 Aligned_cols=36 Identities=17% Similarity=0.059 Sum_probs=29.8
Q ss_pred hHHHHHHHHHHHcCCeeEEEeeeCchhhHHHHHHHH
Q psy6240 88 VLGNFVANLSNYFANNVVCLNYLGDWGTQFGLLQIG 123 (233)
Q Consensus 88 iiGd~Larll~~~G~~V~r~nyinD~G~Q~~~l~~~ 123 (233)
.-|..|+++|+..|++|.+.-.+.|==..+...+..
T Consensus 17 ~n~~~l~~~l~~~G~~v~~~~~v~Dd~~~i~~~l~~ 52 (144)
T PF00994_consen 17 SNGPFLAALLEELGIEVIRYGIVPDDPDAIKEALRR 52 (144)
T ss_dssp HHHHHHHHHHHHTTEEEEEEEEEESSHHHHHHHHHH
T ss_pred hHHHHHHHHHHHcCCeeeEEEEECCCHHHHHHHHHh
Confidence 357899999999999999999999977777665533
No 156
>PF09824 ArsR: ArsR transcriptional regulator; InterPro: IPR014517 Members of this family of archaeal proteins are conserved transcriptional regulators belonging to the ArsR family.
Probab=20.01 E-value=2.5e+02 Score=23.34 Aligned_cols=64 Identities=17% Similarity=0.274 Sum_probs=39.3
Q ss_pred ccchhHHHHHHHhh-----------hHh----hcCCchHHHHHHHHHHHHhcCCchhhHHHHHHH--HHHHHHHHHHHhh
Q psy6240 162 QAPLDVLYKAYVKA-----------NDL----AKINPDVQEQASNIFQQLECGKNTLHTKDWLDF--QQVTLNELRGTYE 224 (233)
Q Consensus 162 ~~p~~~y~g~y~~~-----------~~~----~~~d~~~~~~a~~~~~~le~gd~~~~~~~w~~~--~~~sl~~~~~~~~ 224 (233)
+.|+-+||-.|.+. ++. +..|+++++.+.++-+.++.|+.... .+-+.+ -...+.++-+=-.
T Consensus 68 ~kPeKEYhtsYs~vqaNFqcs~~DLsdii~i~f~~deel~~~~e~i~~~v~~Gn~Sl~-~lsr~l~~sp~firglAKRs~ 146 (160)
T PF09824_consen 68 EKPEKEYHTSYSKVQANFQCSMEDLSDIIYIAFMSDEELRDYVEKIEKEVEAGNTSLS-DLSRKLGISPVFIRGLAKRSP 146 (160)
T ss_pred CCchHHHHhhHhheeeeeEeeHHHHHHHHheeecCHHHHHHHHHHHHHHHHcCCCcHH-HHHHHhCCCHHHHHHHHHhcc
Confidence 35677777776442 222 24678899999999999998887655 555554 3344444443333
Q ss_pred hc
Q psy6240 225 RL 226 (233)
Q Consensus 225 rl 226 (233)
+|
T Consensus 147 ~L 148 (160)
T PF09824_consen 147 KL 148 (160)
T ss_pred Cc
Confidence 33
Done!