Query 036777
Match_columns 66
No_of_seqs 161 out of 1005
Neff 5.0
Searched_HMMs 46136
Date Fri Mar 29 05:23:18 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/036777.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/036777hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG2007 Cysteinyl-tRNA synthet 100.0 1.6E-29 3.6E-34 194.5 1.6 63 4-66 22-85 (586)
2 COG0215 CysS Cysteinyl-tRNA sy 99.9 2.1E-28 4.5E-33 186.0 2.2 52 15-66 1-52 (464)
3 PTZ00399 cysteinyl-tRNA-synthe 99.9 1E-27 2.2E-32 186.7 1.3 62 5-66 26-90 (651)
4 PLN02946 cysteine-tRNA ligase 99.9 3.4E-27 7.3E-32 182.0 1.4 59 8-66 52-110 (557)
5 PRK14536 cysS cysteinyl-tRNA s 99.9 7.2E-27 1.6E-31 177.9 0.3 53 14-66 1-53 (490)
6 PRK14535 cysS cysteinyl-tRNA s 99.9 8.9E-26 1.9E-30 177.7 0.7 53 14-66 226-278 (699)
7 PRK14534 cysS cysteinyl-tRNA s 99.9 1E-25 2.2E-30 171.5 0.3 51 14-66 1-51 (481)
8 TIGR03447 mycothiol_MshC cyste 99.9 3E-25 6.5E-30 166.4 1.2 56 9-66 11-66 (411)
9 TIGR00435 cysS cysteinyl-tRNA 99.9 6.2E-24 1.3E-28 159.7 0.1 51 16-66 1-51 (465)
10 PRK00260 cysS cysteinyl-tRNA s 99.9 1.3E-23 2.7E-28 157.5 0.5 53 14-66 1-53 (463)
11 cd00672 CysRS_core catalytic c 99.8 3.4E-22 7.3E-27 138.2 -0.4 50 17-66 1-50 (213)
12 PF01406 tRNA-synt_1e: tRNA sy 99.8 4.5E-21 9.8E-26 139.7 -3.9 38 29-66 1-38 (300)
13 PRK12418 cysteinyl-tRNA synthe 99.6 2E-17 4.3E-22 123.3 -1.5 37 30-66 2-39 (384)
14 cd00802 class_I_aaRS_core cata 98.4 1.3E-08 2.7E-13 65.1 -3.3 28 39-66 1-28 (143)
15 PRK01611 argS arginyl-tRNA syn 98.2 1.3E-07 2.7E-12 71.9 -1.4 34 33-66 109-142 (507)
16 PRK11893 methionyl-tRNA synthe 98.1 2.4E-07 5.2E-12 69.1 -2.3 30 37-66 3-32 (511)
17 TIGR00456 argS arginyl-tRNA sy 98.1 2.7E-07 5.8E-12 71.1 -2.8 42 25-66 100-143 (566)
18 cd00671 ArgRS_core catalytic c 97.8 1.6E-06 3.4E-11 59.2 -2.8 26 41-66 6-31 (212)
19 cd09287 GluRS_non_core catalyt 97.6 2.5E-06 5.4E-11 60.8 -4.0 26 41-66 5-30 (240)
20 cd00668 Ile_Leu_Val_MetRS_core 97.6 3.9E-06 8.4E-11 59.7 -3.4 29 38-66 3-31 (312)
21 PRK12268 methionyl-tRNA synthe 97.5 1.2E-05 2.7E-10 61.1 -1.1 28 39-66 5-35 (556)
22 cd00818 IleRS_core catalytic c 97.5 4.5E-06 9.8E-11 60.7 -3.7 27 40-66 6-32 (338)
23 cd00814 MetRS_core catalytic c 97.5 9.5E-06 2.1E-10 58.2 -2.4 27 40-66 5-31 (319)
24 TIGR00398 metG methionyl-tRNA 97.4 1E-05 2.2E-10 61.2 -2.9 27 40-66 4-30 (530)
25 PRK04156 gltX glutamyl-tRNA sy 97.2 2.6E-05 5.6E-10 61.3 -2.6 32 34-66 99-130 (567)
26 PRK12267 methionyl-tRNA synthe 97.1 5.8E-05 1.2E-09 58.9 -2.0 29 38-66 5-35 (648)
27 PRK00133 metG methionyl-tRNA s 96.9 7.5E-05 1.6E-09 58.7 -3.0 23 44-66 11-33 (673)
28 cd00812 LeuRS_core catalytic c 96.8 7.9E-05 1.7E-09 53.5 -2.8 26 41-66 6-31 (314)
29 cd00674 LysRS_core_class_I cat 96.8 0.00012 2.6E-09 54.6 -2.1 29 38-66 21-49 (353)
30 cd00817 ValRS_core catalytic c 96.8 5.8E-05 1.2E-09 55.7 -4.0 27 40-66 6-32 (382)
31 PLN02224 methionine-tRNA ligas 96.2 0.00078 1.7E-08 53.3 -0.9 45 22-66 48-100 (616)
32 PRK00390 leuS leucyl-tRNA synt 96.2 0.00055 1.2E-08 55.1 -2.2 29 38-66 33-63 (805)
33 PRK00750 lysK lysyl-tRNA synth 96.1 0.0012 2.6E-08 50.9 -0.6 29 38-66 25-53 (510)
34 TIGR00396 leuS_bact leucyl-tRN 95.6 0.0015 3.2E-08 53.1 -1.9 32 35-66 27-60 (842)
35 PRK13208 valS valyl-tRNA synth 94.3 0.0046 9.9E-08 49.5 -2.3 31 36-66 39-69 (800)
36 COG0143 MetG Methionyl-tRNA sy 93.5 0.0065 1.4E-07 47.9 -2.8 24 43-66 13-36 (558)
37 PF09334 tRNA-synt_1g: tRNA sy 92.5 0.0034 7.4E-08 46.8 -5.4 24 43-66 7-30 (391)
38 PLN02610 probable methionyl-tR 90.3 0.028 6E-07 45.8 -2.7 25 42-66 24-49 (801)
39 TIGR00395 leuS_arch leucyl-tRN 89.8 0.039 8.4E-07 45.4 -2.3 30 37-66 27-56 (938)
40 PLN02563 aminoacyl-tRNA ligase 89.3 0.046 9.9E-07 45.5 -2.2 32 35-66 108-142 (963)
41 TIGR00422 valS valyl-tRNA synt 88.3 0.062 1.4E-06 43.5 -2.0 31 36-66 34-64 (861)
42 TIGR00463 gltX_arch glutamyl-t 88.1 0.03 6.5E-07 44.3 -3.9 25 41-65 97-121 (560)
43 TIGR00467 lysS_arch lysyl-tRNA 87.8 0.097 2.1E-06 40.9 -1.2 30 37-66 19-48 (515)
44 PLN02943 aminoacyl-tRNA ligase 86.8 0.054 1.2E-06 44.7 -3.2 30 37-66 90-119 (958)
45 PTZ00419 valyl-tRNA synthetase 86.4 0.095 2.1E-06 43.3 -2.0 31 36-66 61-91 (995)
46 TIGR00392 ileS isoleucyl-tRNA 86.4 0.045 9.8E-07 44.2 -3.8 30 37-66 38-67 (861)
47 PLN02381 valyl-tRNA synthetase 86.4 0.088 1.9E-06 44.1 -2.2 30 37-66 130-159 (1066)
48 PRK14900 valS valyl-tRNA synth 85.7 0.092 2E-06 43.9 -2.4 31 36-66 49-79 (1052)
49 COG0495 LeuS Leucyl-tRNA synth 85.4 0.15 3.2E-06 42.2 -1.4 29 38-66 35-65 (814)
50 PRK05729 valS valyl-tRNA synth 84.6 0.061 1.3E-06 43.7 -3.9 30 37-66 38-67 (874)
51 PLN02959 aminoacyl-tRNA ligase 84.2 0.11 2.4E-06 43.6 -2.7 29 38-66 46-76 (1084)
52 PLN02882 aminoacyl-tRNA ligase 83.5 0.1 2.3E-06 44.1 -3.0 31 36-66 39-69 (1159)
53 PRK05743 ileS isoleucyl-tRNA s 83.2 0.095 2.1E-06 43.0 -3.3 30 37-66 51-80 (912)
54 KOG2804 Phosphorylcholine tran 82.1 0.37 8E-06 36.5 -0.3 24 33-58 60-83 (348)
55 PRK06039 ileS isoleucyl-tRNA s 82.0 0.14 3.1E-06 42.3 -2.7 31 36-66 42-72 (975)
56 PTZ00427 isoleucine-tRNA ligas 82.0 0.17 3.7E-06 43.2 -2.4 31 36-66 103-133 (1205)
57 PRK13804 ileS isoleucyl-tRNA s 81.9 0.11 2.4E-06 43.0 -3.4 29 38-66 57-85 (961)
58 PLN02843 isoleucyl-tRNA synthe 80.9 0.14 3E-06 42.5 -3.2 30 37-66 34-63 (974)
59 cd00853 NifX NifX belongs to a 80.0 1.5 3.2E-05 26.4 1.9 15 49-63 13-27 (102)
60 PF00133 tRNA-synt_1: tRNA syn 79.2 0.12 2.7E-06 40.3 -3.8 30 37-66 25-54 (601)
61 PLN02413 choline-phosphate cyt 77.6 1 2.2E-05 33.5 0.8 23 33-57 24-46 (294)
62 KOG0435 Leucyl-tRNA synthetase 77.3 0.73 1.6E-05 38.3 -0.1 23 44-66 66-88 (876)
63 PF00175 NAD_binding_1: Oxidor 75.7 1.3 2.9E-05 25.8 0.8 13 34-46 90-102 (109)
64 TIGR02663 nifX nitrogen fixati 74.8 2.5 5.4E-05 26.4 1.9 15 50-64 15-29 (119)
65 PF08030 NAD_binding_6: Ferric 74.6 2.3 4.9E-05 26.6 1.7 13 33-45 133-145 (156)
66 cd00851 MTH1175 This uncharact 73.5 2.8 6E-05 24.6 1.8 16 48-63 14-29 (103)
67 cd00562 NifX_NifB This CD repr 67.0 3.9 8.6E-05 23.8 1.5 15 49-63 13-27 (102)
68 cd00852 NifB NifB belongs to a 66.1 4.8 0.0001 24.3 1.7 15 49-63 13-27 (106)
69 PF02579 Nitro_FeMo-Co: Dinitr 64.9 6.2 0.00013 22.7 2.0 16 49-64 6-21 (94)
70 COG0525 ValS Valyl-tRNA synthe 64.0 1 2.2E-05 37.8 -2.0 39 28-66 23-64 (877)
71 cd02174 CCT CTP:phosphocholine 61.3 4.1 8.8E-05 26.8 0.9 19 36-56 2-20 (150)
72 PLN02286 arginine-tRNA ligase 59.6 2.9 6.3E-05 32.9 -0.1 32 35-66 117-148 (576)
73 PF00749 tRNA-synt_1c: tRNA sy 59.4 1.3 2.7E-05 32.3 -2.0 17 44-60 8-24 (314)
74 PTZ00308 ethanolamine-phosphat 57.5 4.9 0.00011 30.1 0.8 25 31-57 6-30 (353)
75 COG0018 ArgS Arginyl-tRNA synt 57.4 2.6 5.6E-05 33.6 -0.7 32 35-66 117-148 (577)
76 PRK12558 glutamyl-tRNA synthet 56.2 2.1 4.5E-05 33.1 -1.4 17 44-60 9-25 (445)
77 TIGR03838 queuosine_YadB gluta 55.7 0.62 1.4E-05 33.7 -4.1 18 44-61 7-24 (272)
78 PRK12451 arginyl-tRNA syntheta 55.5 2.8 6.1E-05 32.8 -0.8 33 34-66 112-144 (562)
79 KOG0432 Valyl-tRNA synthetase 55.3 1.3 2.9E-05 37.5 -2.7 33 34-66 74-106 (995)
80 cd00322 FNR_like Ferredoxin re 53.7 8 0.00017 25.1 1.3 12 35-46 190-201 (223)
81 TIGR03330 SAM_DCase_Bsu S-aden 53.4 8.2 0.00018 24.4 1.3 11 36-46 76-86 (112)
82 PRK03124 S-adenosylmethionine 53.0 8.4 0.00018 25.0 1.3 11 36-46 77-87 (127)
83 PRK01706 S-adenosylmethionine 52.6 8.7 0.00019 24.8 1.3 11 36-46 79-89 (123)
84 PLN02200 adenylate kinase fami 52.2 11 0.00024 26.1 1.9 45 1-45 3-52 (234)
85 KOG2111 Uncharacterized conser 52.1 24 0.00053 26.9 3.7 37 4-41 194-231 (346)
86 cd06188 NADH_quinone_reductase 51.9 9.9 0.00021 26.5 1.6 12 35-46 248-259 (283)
87 cd06200 SiR_like1 Cytochrome p 49.6 9.6 0.00021 26.1 1.2 9 37-45 203-211 (245)
88 PF00750 tRNA-synt_1d: tRNA sy 49.4 0.95 2E-05 33.3 -4.0 33 34-66 19-51 (354)
89 COG0008 GlnS Glutamyl- and glu 49.1 1.2 2.5E-05 34.8 -3.8 19 42-60 14-32 (472)
90 cd06186 NOX_Duox_like_FAD_NADP 48.8 14 0.0003 24.1 1.8 8 39-46 179-186 (210)
91 PLN03233 putative glutamate-tR 47.6 1.2 2.6E-05 35.3 -4.0 18 44-61 18-35 (523)
92 PLN02907 glutamate-tRNA ligase 47.1 1.3 2.7E-05 36.1 -3.9 21 41-61 217-237 (722)
93 cd06197 FNR_like_2 FAD/NAD(P) 46.6 10 0.00022 25.6 1.0 9 38-46 192-200 (220)
94 PRK00458 S-adenosylmethionine 45.1 13 0.00029 24.1 1.3 11 36-46 89-99 (127)
95 PRK02770 S-adenosylmethionine 45.1 13 0.00029 24.6 1.3 11 36-46 90-100 (139)
96 cd06208 CYPOR_like_FNR These f 44.7 13 0.00029 26.0 1.3 12 35-46 238-249 (286)
97 TIGR00440 glnS glutaminyl-tRNA 44.5 1.4 3.1E-05 34.8 -3.9 19 43-61 6-24 (522)
98 cd06190 T4MO_e_transfer_like T 44.2 14 0.00031 24.5 1.3 12 35-46 195-206 (232)
99 PTZ00402 glutamyl-tRNA synthet 44.0 1.5 3.2E-05 35.4 -3.9 19 43-61 58-76 (601)
100 PRK04025 S-adenosylmethionine 43.9 14 0.00031 24.4 1.3 11 36-46 77-87 (139)
101 PRK05347 glutaminyl-tRNA synth 43.8 1.5 3.2E-05 35.0 -3.9 21 41-61 33-53 (554)
102 cd00418 GlxRS_core catalytic c 43.2 4.1 8.9E-05 28.9 -1.4 18 43-60 7-24 (230)
103 PRK01236 S-adenosylmethionine 43.0 15 0.00033 24.0 1.3 11 36-46 78-88 (131)
104 cd06196 FNR_like_1 Ferredoxin 41.5 18 0.00039 23.7 1.5 9 37-45 187-195 (218)
105 PRK08051 fre FMN reductase; Va 41.0 15 0.00033 24.7 1.1 10 37-46 195-204 (232)
106 cd06198 FNR_like_3 NAD(P) bind 40.1 18 0.00039 23.8 1.4 11 35-45 180-190 (216)
107 cd06189 flavin_oxioreductase N 40.0 19 0.0004 23.9 1.4 11 36-46 190-200 (224)
108 TIGR01290 nifB nitrogenase cof 39.5 20 0.00044 27.4 1.7 26 38-63 330-358 (442)
109 COG1384 LysS Lysyl-tRNA synthe 39.2 2.8 6.1E-05 33.4 -3.0 28 39-66 22-49 (521)
110 cd06182 CYPOR_like NADPH cytoc 39.1 17 0.00037 25.5 1.2 9 38-46 216-224 (267)
111 cd06211 phenol_2-monooxygenase 39.1 19 0.00042 24.1 1.4 11 36-46 204-214 (238)
112 cd06212 monooxygenase_like The 39.0 17 0.00038 24.1 1.2 11 36-46 197-207 (232)
113 cd06187 O2ase_reductase_like T 39.0 20 0.00043 23.5 1.4 13 35-47 189-201 (224)
114 PRK10926 ferredoxin-NADP reduc 38.9 20 0.00043 24.6 1.4 11 36-46 206-216 (248)
115 PRK12410 glutamylglutaminyl-tR 38.7 5.6 0.00012 30.8 -1.4 17 44-60 6-22 (433)
116 cd00808 GluRS_core catalytic c 38.4 5.4 0.00012 28.4 -1.4 18 43-60 7-24 (239)
117 PTZ00319 NADH-cytochrome B5 re 38.4 19 0.00042 25.6 1.4 12 36-47 267-278 (300)
118 PLN03116 ferredoxin--NADP+ red 37.7 18 0.00039 25.8 1.1 10 36-45 259-268 (307)
119 TIGR00464 gltX_bact glutamyl-t 37.5 2 4.3E-05 33.1 -4.0 17 44-60 8-24 (470)
120 cd06165 Sortase_A_1 Sortase A 37.5 63 0.0014 20.0 3.5 17 29-45 97-114 (127)
121 cd06195 FNR1 Ferredoxin-NADP+ 37.1 22 0.00047 23.9 1.4 12 35-46 200-211 (241)
122 cd06191 FNR_iron_sulfur_bindin 36.9 18 0.0004 24.0 1.0 10 37-46 198-207 (231)
123 PTZ00437 glutaminyl-tRNA synth 36.7 2.2 4.8E-05 34.2 -3.9 26 34-60 49-74 (574)
124 cd06194 FNR_N-term_Iron_sulfur 36.7 20 0.00043 23.6 1.1 12 35-46 186-197 (222)
125 cd06209 BenDO_FAD_NAD Benzoate 36.6 23 0.0005 23.5 1.4 12 35-46 192-203 (228)
126 PRK05710 glutamyl-Q tRNA(Asp) 36.5 6.1 0.00013 29.1 -1.5 19 42-60 10-28 (299)
127 PRK14703 glutaminyl-tRNA synth 36.3 2.2 4.9E-05 35.2 -4.1 19 42-60 36-54 (771)
128 cd06213 oxygenase_e_transfer_s 36.2 20 0.00044 23.8 1.1 11 36-46 193-203 (227)
129 cd06215 FNR_iron_sulfur_bindin 35.8 21 0.00045 23.5 1.1 10 37-46 198-207 (231)
130 cd06166 Sortase_D_5 Sortase D 35.8 74 0.0016 19.8 3.6 18 27-44 96-114 (126)
131 cd06202 Nitric_oxide_synthase 35.3 22 0.00048 26.5 1.3 11 35-45 349-359 (406)
132 cd06185 PDR_like Phthalate dio 34.8 22 0.00049 23.1 1.2 11 36-46 176-186 (211)
133 cd06217 FNR_iron_sulfur_bindin 34.7 22 0.00049 23.4 1.2 11 36-46 201-211 (235)
134 PF13293 DUF4074: Domain of un 34.7 22 0.00047 21.1 0.9 15 42-56 3-17 (64)
135 cd06210 MMO_FAD_NAD_binding Me 34.7 22 0.00048 23.6 1.1 10 36-45 201-210 (236)
136 PRK14895 gltX glutamyl-tRNA sy 34.6 2.5 5.3E-05 33.4 -4.0 17 44-60 11-27 (513)
137 cd06216 FNR_iron_sulfur_bindin 34.4 25 0.00055 23.6 1.4 11 36-46 210-220 (243)
138 cd00807 GlnRS_core catalytic c 34.4 6.9 0.00015 28.1 -1.4 18 43-60 7-24 (238)
139 cd06201 SiR_like2 Cytochrome p 34.3 21 0.00045 25.2 1.0 10 37-46 246-255 (289)
140 PRK01406 gltX glutamyl-tRNA sy 34.2 2.5 5.4E-05 32.7 -4.0 17 44-60 11-27 (476)
141 PF02675 AdoMet_dc: S-adenosyl 34.1 27 0.00059 21.4 1.4 9 36-44 71-79 (106)
142 cd06184 flavohem_like_fad_nad_ 34.1 27 0.00059 23.4 1.5 12 35-46 208-219 (247)
143 cd05829 Sortase_E Sortase E (S 33.2 96 0.0021 19.9 3.9 32 29-61 110-141 (144)
144 cd06183 cyt_b5_reduct_like Cyt 32.4 31 0.00066 22.7 1.5 13 35-47 200-212 (234)
145 cd06214 PA_degradation_oxidore 32.3 29 0.00063 23.0 1.4 11 36-46 206-216 (241)
146 PF01921 tRNA-synt_1f: tRNA sy 31.9 1.7 3.7E-05 33.0 -5.1 30 36-65 23-52 (360)
147 PRK05713 hypothetical protein; 31.7 28 0.00061 24.7 1.3 13 35-47 273-285 (312)
148 cd06207 CyPoR_like NADPH cytoc 31.4 28 0.0006 25.6 1.3 12 35-46 328-339 (382)
149 cd02156 nt_trans nucleotidyl t 31.0 17 0.00036 21.8 0.0 13 43-56 5-17 (105)
150 PLN02627 glutamyl-tRNA synthet 30.8 3.1 6.8E-05 33.1 -4.0 17 44-60 52-68 (535)
151 cd06199 SiR Cytochrome p450- l 30.5 27 0.00058 25.6 1.1 9 37-45 308-316 (360)
152 TIGR00125 cyt_tran_rel cytidyl 30.4 15 0.00033 19.7 -0.2 12 45-56 6-17 (66)
153 KOG0436 Methionyl-tRNA synthet 30.3 3.3 7.1E-05 33.1 -3.9 21 46-66 50-70 (578)
154 PLN02859 glutamine-tRNA ligase 30.1 9.9 0.00021 31.7 -1.3 20 41-60 268-287 (788)
155 PRK05464 Na(+)-translocating N 29.7 35 0.00075 25.3 1.6 12 35-46 372-383 (409)
156 PRK06222 ferredoxin-NADP(+) re 29.4 28 0.00061 24.4 1.0 10 38-47 183-192 (281)
157 PRK13289 bifunctional nitric o 29.2 30 0.00065 25.1 1.1 11 36-46 358-368 (399)
158 KOG3378 Globins and related he 29.1 4.7 0.0001 30.7 -3.1 27 28-54 338-364 (385)
159 PHA02451 hypothetical protein 29.1 22 0.00047 20.5 0.3 10 39-48 20-29 (54)
160 PTZ00274 cytochrome b5 reducta 28.8 31 0.00067 25.3 1.1 11 37-47 264-274 (325)
161 TIGR01941 nqrF NADH:ubiquinone 28.6 37 0.0008 25.1 1.5 11 36-46 369-379 (405)
162 PRK10684 HCP oxidoreductase, N 28.1 33 0.00071 24.5 1.1 11 37-47 204-214 (332)
163 cd06206 bifunctional_CYPOR The 28.1 31 0.00067 25.4 1.1 11 36-46 328-338 (384)
164 cd06204 CYPOR NADPH cytochrome 28.1 33 0.00072 25.7 1.2 10 37-46 364-373 (416)
165 cd06203 methionine_synthase_re 27.9 35 0.00075 25.4 1.3 10 36-45 345-354 (398)
166 TIGR02160 PA_CoA_Oxy5 phenylac 27.9 33 0.00072 24.5 1.1 11 37-47 208-218 (352)
167 cd06219 DHOD_e_trans_like1 FAD 27.9 34 0.00073 23.4 1.2 10 38-47 182-191 (248)
168 TIGR03784 marine_sortase sorta 27.7 1.3E+02 0.0028 20.3 4.0 29 30-60 144-172 (174)
169 PLN03115 ferredoxin--NADP(+) r 27.7 38 0.00083 25.4 1.5 11 35-45 318-328 (367)
170 COG1586 SpeD S-adenosylmethion 27.2 31 0.00067 23.2 0.8 10 36-45 87-96 (136)
171 PRK00054 dihydroorotate dehydr 27.1 35 0.00077 23.2 1.1 9 38-46 183-191 (250)
172 cd00004 Sortase Sortases are c 26.6 1.4E+02 0.0031 18.2 3.8 16 30-45 100-115 (128)
173 cd06218 DHOD_e_trans FAD/NAD b 26.5 37 0.00081 23.2 1.2 11 36-46 180-190 (246)
174 cd06221 sulfite_reductase_like 26.2 35 0.00076 23.4 1.0 11 36-46 190-200 (253)
175 cd06220 DHOD_e_trans_like2 FAD 26.1 38 0.00083 22.8 1.2 10 37-46 168-177 (233)
176 PRK08345 cytochrome-c3 hydroge 25.8 42 0.00091 23.6 1.4 12 36-47 212-223 (289)
177 KOG0433 Isoleucyl-tRNA synthet 25.7 4.3 9.3E-05 34.3 -4.1 21 46-66 66-86 (937)
178 PRK07609 CDP-6-deoxy-delta-3,4 25.5 39 0.00085 24.0 1.2 11 36-46 298-308 (339)
179 PRK11872 antC anthranilate dio 25.4 39 0.00084 24.4 1.1 10 37-46 302-311 (340)
180 cd06192 DHOD_e_trans_like FAD/ 25.1 41 0.00089 22.6 1.2 10 37-46 179-188 (243)
181 PF06364 DUF1068: Protein of u 25.1 19 0.00041 25.2 -0.5 13 37-49 19-31 (176)
182 cd06193 siderophore_interactin 24.9 47 0.001 22.4 1.4 12 35-46 197-208 (235)
183 cd08064 MPN_eIF3f Mpr1p, Pad1p 24.4 55 0.0012 23.1 1.7 14 34-47 76-89 (265)
184 cd05828 Sortase_D_4 Sortase D 23.7 1.8E+02 0.004 18.0 3.9 19 27-45 93-111 (127)
185 KOG0279 G protein beta subunit 23.6 1.1E+02 0.0025 23.1 3.3 27 3-30 117-143 (315)
186 PLN02406 ethanolamine-phosphat 23.4 35 0.00076 26.5 0.6 23 33-57 248-270 (418)
187 COG1018 Hmp Flavodoxin reducta 23.1 43 0.00093 23.9 1.0 11 37-47 197-207 (266)
188 PRK08221 anaerobic sulfite red 21.9 62 0.0014 22.4 1.6 13 35-47 191-203 (263)
189 PF01234 NNMT_PNMT_TEMT: NNMT/ 21.8 60 0.0013 23.4 1.5 25 40-64 63-88 (256)
190 PF07865 DUF1652: Protein of u 21.8 1.2E+02 0.0027 17.8 2.7 23 8-30 21-43 (69)
191 TIGR03224 benzo_boxA benzoyl-C 21.1 53 0.0011 24.7 1.2 10 37-46 364-373 (411)
192 KOG1147 Glutamyl-tRNA syntheta 21.1 20 0.00044 29.5 -1.1 16 43-58 206-221 (712)
193 TIGR03094 sulfo_cyanin sulfocy 20.7 77 0.0017 22.5 1.8 30 26-63 153-182 (195)
194 PF10477 EIF4E-T: Nucleocytopl 20.5 39 0.00084 27.0 0.3 12 35-46 200-211 (578)
195 COG4198 Uncharacterized conser 20.5 55 0.0012 25.5 1.1 22 25-47 278-299 (405)
196 PRK06214 sulfite reductase; Pr 20.3 56 0.0012 25.8 1.2 10 36-45 477-486 (530)
197 PF01467 CTP_transf_2: Cytidyl 20.2 24 0.00052 21.2 -0.7 11 46-56 5-15 (157)
No 1
>KOG2007 consensus Cysteinyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=99.95 E-value=1.6e-29 Score=194.54 Aligned_cols=63 Identities=46% Similarity=0.716 Sum_probs=60.4
Q ss_pred cccccc-cCCCcceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 4 SKETTA-AAPKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 4 ~~~~~~-~~~~~~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
.+|..| +|.+++|+||||+||+||+|.|.++++|+||+|||||||.+||||||+||.||||+|
T Consensus 22 ~~w~~p~~~~~~~L~lYNslTr~Ke~fip~~~~~v~wY~CGpTvYD~SHmGHArsYVsfDIlrR 85 (586)
T KOG2007|consen 22 PHWDQPNAGQPTELKLYNSLTRQKEVFIPNNGNKVTWYICGPTVYDSSHMGHARSYVSFDILRR 85 (586)
T ss_pred cccCCCCCCCCCeEEEeeccccccceeeeCCCCeEEEEEecCcccchhhhhhhhhhhhHHHHHH
Confidence 578888 888899999999999999999999999999999999999999999999999999997
No 2
>COG0215 CysS Cysteinyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=99.94 E-value=2.1e-28 Score=185.99 Aligned_cols=52 Identities=56% Similarity=0.961 Sum_probs=50.6
Q ss_pred ceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 15 DLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 15 ~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
.|+||||+||+||+|.|.++++|+||+|||||||++||||||+||+||+|+|
T Consensus 1 ~l~iyNTltr~ke~F~P~~~~~V~mYvCGpTVYd~~HIGhaRt~V~fDvl~R 52 (464)
T COG0215 1 MLKLYNTLTRQKEEFVPIDPGKVKMYVCGPTVYDYAHIGHARTYVVFDVLRR 52 (464)
T ss_pred CcEEEecCccceecccCCCCCeEEEEecCCccCCccccccCcceehHHHHHH
Confidence 4899999999999999999999999999999999999999999999999987
No 3
>PTZ00399 cysteinyl-tRNA-synthetase; Provisional
Probab=99.93 E-value=1e-27 Score=186.70 Aligned_cols=62 Identities=37% Similarity=0.515 Sum_probs=57.2
Q ss_pred ccccccC---CCcceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 5 KETTAAA---PKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 5 ~~~~~~~---~~~~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
.|..|.. ..++|+|||||||+||+|.|.+++.|+||+|||||||.+||||||+||+||+|+|
T Consensus 26 ~w~~p~~~~~~~~~l~lyNtlt~~k~~f~p~~~~~v~~Y~CGPTvYd~~HiGhart~v~~Dil~R 90 (651)
T PTZ00399 26 EWKKPSKEGKYLTGLKVNNSLTGGKVEFVPQNGRQVRWYTCGPTVYDSSHLGHARTYVTFDIIRR 90 (651)
T ss_pred CCCCCCccCCCCCceEEEECCCCCccccccCCCCeeEEEEeCCCccCCcccccchHHHHHHHHHH
Confidence 5777764 2378999999999999999999999999999999999999999999999999987
No 4
>PLN02946 cysteine-tRNA ligase
Probab=99.93 E-value=3.4e-27 Score=182.02 Aligned_cols=59 Identities=59% Similarity=1.053 Sum_probs=56.0
Q ss_pred cccCCCcceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 8 TAAAPKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 8 ~~~~~~~~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
.|.+..|+|+||||+||+||+|.|.++++|+||+|||||||.+||||+|+||+||+|+|
T Consensus 52 ~~~~~~~~l~lyNTltr~ke~f~P~~~~~v~~Y~CGpTvYd~~HIGhaR~~V~~Dvl~R 110 (557)
T PLN02946 52 APASRGRELHLYNTMSRKKELFKPKVEGKVGMYVCGVTAYDLSHIGHARVYVTFDVLYR 110 (557)
T ss_pred CcCCCCCceEEEECCCCCeeccccCCCCceeEEEeCCccCCCCccccchhhHHHHHHHH
Confidence 45667789999999999999999999999999999999999999999999999999987
No 5
>PRK14536 cysS cysteinyl-tRNA synthetase; Provisional
Probab=99.92 E-value=7.2e-27 Score=177.89 Aligned_cols=53 Identities=38% Similarity=0.673 Sum_probs=51.3
Q ss_pred cceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 14 MDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 14 ~~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
|+|+||||+||+||+|.|+++++|+||+|||||||++||||+|+||+||+|+|
T Consensus 1 m~l~lyntlt~~ke~f~p~~~~~v~mYvCGpTvy~~~HiGhar~~v~~Dvl~R 53 (490)
T PRK14536 1 MALRLYNTLGRQQEEFQPIEHGHVRLYGCGPTVYNYAHIGNLRTYVFQDTLRR 53 (490)
T ss_pred CceEEEecCCCCeeccccCCCCceEEEeeCCccCCCcccchhHHHHHHHHHHH
Confidence 46999999999999999999999999999999999999999999999999987
No 6
>PRK14535 cysS cysteinyl-tRNA synthetase; Provisional
Probab=99.91 E-value=8.9e-26 Score=177.70 Aligned_cols=53 Identities=51% Similarity=0.872 Sum_probs=51.5
Q ss_pred cceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 14 MDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 14 ~~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
++|+||||+||++|+|.|++++.|+||+|||||||++||||||+||+||+|+|
T Consensus 226 ~~l~lyNTltr~ke~f~P~~~~~V~mYvCGPTVYd~~HIGHaRt~V~~DVL~R 278 (699)
T PRK14535 226 PMTTIYNTLTRQKEPFAPIDPENVRMYVCGMTVYDYCHLGHARVMVVFDMIAR 278 (699)
T ss_pred CceEEEECCCCCeeccccCCCCceEEEecCCcCCCCCcccchhHHHHHHHHHH
Confidence 56999999999999999999999999999999999999999999999999987
No 7
>PRK14534 cysS cysteinyl-tRNA synthetase; Provisional
Probab=99.91 E-value=1e-25 Score=171.53 Aligned_cols=51 Identities=31% Similarity=0.523 Sum_probs=48.8
Q ss_pred cceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 14 MDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 14 ~~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
|+|+||||+||++|+|+|. ++|+||+|||||||++||||+|+||+||+|+|
T Consensus 1 ~~l~lynTltr~ke~f~p~--~~v~mY~CGpTVYd~~HiGh~r~~v~~Dvl~R 51 (481)
T PRK14534 1 MLLKLYNTKTKDLSELKNF--SDVKVYACGPTVYNYAHIGNFRTYIFEDLLIK 51 (481)
T ss_pred CceEEEEcCCCCeeecccC--CceEEEeCCCCCCCCCCccchhHHHHHHHHHH
Confidence 5799999999999999995 79999999999999999999999999999987
No 8
>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=99.90 E-value=3e-25 Score=166.43 Aligned_cols=56 Identities=32% Similarity=0.625 Sum_probs=53.1
Q ss_pred ccCCCcceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 9 AAAPKMDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 9 ~~~~~~~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
+++.+++|+||||+||+||+|+| +++|+||+||||||+.+||||+|+||++|+|+|
T Consensus 11 ~~~~~~~l~lyntlt~~~~~f~p--~~~v~~YvCGpTvY~~~HIGhart~V~~Dvl~R 66 (411)
T TIGR03447 11 LPGTGPPLRLFDTADGQVRPVEP--GPEAGMYVCGITPYDATHLGHAATYLTFDLVNR 66 (411)
T ss_pred CCCCCCceEEEECCCCCeeeccC--CCcceEEEeCCccCCCcccccchHHHHHHHHHH
Confidence 45677899999999999999999 789999999999999999999999999999987
No 9
>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=99.87 E-value=6.2e-24 Score=159.72 Aligned_cols=51 Identities=59% Similarity=1.010 Sum_probs=49.8
Q ss_pred eEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 16 LIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 16 l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
|+||||+||+||+|.|.++++|+||+||||||+++||||+|+||++|+++|
T Consensus 1 l~lyntlt~~~e~f~p~~~~~v~~yvcgptvy~~~HiGhar~~v~~Dvl~R 51 (465)
T TIGR00435 1 LKLYNTLTRQKEEFEPLVQGKVKMYVCGPTVYDYCHIGHARTAIVFDVLRR 51 (465)
T ss_pred CeeEeCCCCCeeccccCCCCcceEEEecCccCCCcccccchHHHHHHHHHH
Confidence 689999999999999999999999999999999999999999999999987
No 10
>PRK00260 cysS cysteinyl-tRNA synthetase; Validated
Probab=99.87 E-value=1.3e-23 Score=157.49 Aligned_cols=53 Identities=57% Similarity=0.979 Sum_probs=51.4
Q ss_pred cceEEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 14 MDLIIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 14 ~~l~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
|.|+||||+||++|+|.|.+++.++||+||||||+.+||||+|+||.+|+|+|
T Consensus 1 ~~l~~~ntl~~~~~~f~p~~~~~v~~yvcgPtvy~~~HiGHar~~v~~Dvl~R 53 (463)
T PRK00260 1 MMLKIYNTLTRQKEEFKPLEPGKVKMYVCGPTVYDYAHIGHARSFVVFDVLRR 53 (463)
T ss_pred CceEEEECCCCceeecccCCCCcceEEEeCCccCCCcccccchhHHHHHHHHH
Confidence 57999999999999999999999999999999999999999999999999987
No 11
>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=99.83 E-value=3.4e-22 Score=138.15 Aligned_cols=50 Identities=52% Similarity=0.952 Sum_probs=48.5
Q ss_pred EEEeCCCCceEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 17 IIYNSMTQQKELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 17 ~lyntltr~ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
+||||+||++++|+|..++++++|+||||||+.+||||+|+||.+|+++|
T Consensus 1 ~~~~t~~~~~~~~~p~~~~~~~~y~~gpt~y~~~HiGH~r~~v~~Dvl~R 50 (213)
T cd00672 1 RLYNTLTRQKEEFVPLNPGLVTMYVCGPTVYDYAHIGHARTYVVFDVLRR 50 (213)
T ss_pred CcccCCCCceeeeecCCCCCceEEEeCCccCCCcccccchhHHHHHHHHH
Confidence 58999999999999999999999999999999999999999999999987
No 12
>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=99.77 E-value=4.5e-21 Score=139.72 Aligned_cols=38 Identities=55% Similarity=1.048 Sum_probs=32.4
Q ss_pred eeecCCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 29 FTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 29 f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
|+|+++++|+||+|||||||++||||||+||+||+|+|
T Consensus 1 F~p~~~~~v~~Y~CGPTVYd~~HiGhaR~~v~~D~l~R 38 (300)
T PF01406_consen 1 FKPLNPGKVRMYVCGPTVYDYAHIGHARTYVFFDVLRR 38 (300)
T ss_dssp ---SCTTEEEEEEEEEBTTS--BHHHHHHHHHHHHHHH
T ss_pred CcCCCCCeEEEEcCCCCCCCCCCCcceeeeeeHHHHHH
Confidence 78999999999999999999999999999999999987
No 13
>PRK12418 cysteinyl-tRNA synthetase; Provisional
Probab=99.63 E-value=2e-17 Score=123.28 Aligned_cols=37 Identities=46% Similarity=0.991 Sum_probs=34.8
Q ss_pred eecCCC-eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 30 TPIVPG-KVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 30 ~p~~~~-~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
.|+.|| +|+||+||||||+++||||+|+||+||+|+|
T Consensus 2 ~p~~~~~~v~~YvCGpTvY~~~HIGh~r~~V~~Dvl~R 39 (384)
T PRK12418 2 RPVAPGGTATMYVCGITPYDATHLGHAATYLAFDLVNR 39 (384)
T ss_pred cCCCCCCeeEEEecCCCCCCCCccchhHHHHHHHHHHH
Confidence 467778 9999999999999999999999999999987
No 14
>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=98.38 E-value=1.3e-08 Score=65.09 Aligned_cols=28 Identities=29% Similarity=0.516 Sum_probs=26.4
Q ss_pred eEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 39 MYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 39 ~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
+|.|||++.+..||||+|+++..|+++|
T Consensus 1 ~~~~~p~~~~~~HlGh~~~~~~~d~~~r 28 (143)
T cd00802 1 TTFSGITPNGYLHIGHLRTIVTFDFLAQ 28 (143)
T ss_pred CEecCCCCCCCccHhHHHHHHHHHHHHH
Confidence 5899999999999999999999999876
No 15
>PRK01611 argS arginyl-tRNA synthetase; Reviewed
Probab=98.23 E-value=1.3e-07 Score=71.87 Aligned_cols=34 Identities=24% Similarity=0.132 Sum_probs=31.7
Q ss_pred CCCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 33 VPGKVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 33 ~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
.+++|.+|.|||+++...||||+|+++..|+|.|
T Consensus 109 ~~~~v~Ie~~spnp~g~lHiGH~R~~iigD~laR 142 (507)
T PRK01611 109 KGKKVVVEYVSANPTGPLHVGHLRSAVIGDALAR 142 (507)
T ss_pred CCCEEEEEecCCCCCCCCcCCchHHHHHHHHHHH
Confidence 4578999999999999999999999999999876
No 16
>PRK11893 methionyl-tRNA synthetase; Reviewed
Probab=98.09 E-value=2.4e-07 Score=69.09 Aligned_cols=30 Identities=17% Similarity=0.114 Sum_probs=27.7
Q ss_pred eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 37 VGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
.-+.+++|||++.+||||+|+||.+|+++|
T Consensus 3 ~~i~~~~P~~~g~~HiGh~~~~~~~Dv~~R 32 (511)
T PRK11893 3 FYITTPIYYPNGKPHIGHAYTTLAADVLAR 32 (511)
T ss_pred EEEecCCCCCCCCcccchhHHHHHHHHHHH
Confidence 457789999999999999999999999987
No 17
>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=98.05 E-value=2.7e-07 Score=71.12 Aligned_cols=42 Identities=26% Similarity=0.174 Sum_probs=34.4
Q ss_pred ceEEeeecC--CCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 25 QKELFTPIV--PGKVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 25 ~ke~f~p~~--~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
+.+.|-+.. +.+|.++.|+|+++.+.||||+|+++..|+|+|
T Consensus 100 ~~~~~g~~~~~~~~v~ve~~spn~~~~~hiGh~r~~~~gd~l~r 143 (566)
T TIGR00456 100 QKEDYGSKKLKNKKIIIEFSSANPAGPLHIGHLRNAIIGDSLAR 143 (566)
T ss_pred cccccCCCCCCCCeEEEEecCCCCCCCCchhhhHHHHHHHHHHH
Confidence 344554333 348999999999999999999999999999876
No 18
>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=97.76 E-value=1.6e-06 Score=59.20 Aligned_cols=26 Identities=27% Similarity=0.197 Sum_probs=24.3
Q ss_pred EeCCccCCCCCCCccceEEEEEeeeC
Q 036777 41 VCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 41 ~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
.++|++.+.+||||+|++|.+|+|+|
T Consensus 6 ~~spN~~~~~HiGH~R~~vigD~l~R 31 (212)
T cd00671 6 FVSANPTGPLHVGHLRNAIIGDSLAR 31 (212)
T ss_pred ecCCCCCCCccccccHHHHHHHHHHH
Confidence 57899999999999999999999986
No 19
>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=97.58 E-value=2.5e-06 Score=60.82 Aligned_cols=26 Identities=35% Similarity=0.201 Sum_probs=23.9
Q ss_pred EeCCccCCCCCCCccceEEEEEeeeC
Q 036777 41 VCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 41 ~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
-||||++.+.||||+|+++++++++|
T Consensus 5 RfaPsPtG~lHiG~~rtal~~~l~Ar 30 (240)
T cd09287 5 RFAPNPNGPLHLGHARAAILNGEYAK 30 (240)
T ss_pred eCCCCCCCCccHHHHHHHHHHHHHHH
Confidence 59999999999999999999988765
No 20
>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=97.55 E-value=3.9e-06 Score=59.72 Aligned_cols=29 Identities=24% Similarity=0.063 Sum_probs=25.8
Q ss_pred eeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 38 GMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 38 ~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
-+..-.|||++.+||||+|+++.+|+++|
T Consensus 3 ~i~~~pP~~~g~~HiGH~~~~i~~D~i~R 31 (312)
T cd00668 3 YVTTPPPYANGSLHLGHALTHIIADFIAR 31 (312)
T ss_pred EEecCCCCCCCCcchhHHHHHHHHHHHHH
Confidence 35567899999999999999999999986
No 21
>PRK12268 methionyl-tRNA synthetase; Reviewed
Probab=97.53 E-value=1.2e-05 Score=61.06 Aligned_cols=28 Identities=18% Similarity=0.282 Sum_probs=23.3
Q ss_pred eEEeCC--ccCCCCCCCccceE-EEEEeeeC
Q 036777 39 MYVCGV--TAYDLSHLGHARAA-ISFYILYS 66 (66)
Q Consensus 39 ~Y~CGP--TvYd~~HiGhaR~~-V~~Dvl~R 66 (66)
+|+|.| +|++.+||||++++ |.+|+++|
T Consensus 5 ~~i~~~~py~ng~~HiGH~~~~~~~~D~~~R 35 (556)
T PRK12268 5 ILITSAWPYANGPLHLGHLAGSGLPADVFAR 35 (556)
T ss_pred EEEecCCCCCCCCccccccccchhHHHHHHH
Confidence 566665 45599999999998 99999987
No 22
>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=97.50 E-value=4.5e-06 Score=60.65 Aligned_cols=27 Identities=30% Similarity=0.153 Sum_probs=24.0
Q ss_pred EEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 40 YVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 40 Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
-.--|||++.+||||+|+++.+|+++|
T Consensus 6 ~~~pP~vnG~lHiGHa~~~~~~Dvl~R 32 (338)
T cd00818 6 HDGPPYANGLPHYGHALNKILKDIINR 32 (338)
T ss_pred ecCCCCCCCCchHHHHHHHHHHHHHHH
Confidence 344689999999999999999999987
No 23
>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=97.45 E-value=9.5e-06 Score=58.20 Aligned_cols=27 Identities=15% Similarity=0.135 Sum_probs=24.1
Q ss_pred EEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 40 YVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 40 Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
=+..|+|++.+||||+|+++.+|+++|
T Consensus 5 t~~~Py~ng~~HlGH~~~~~~~Dv~~R 31 (319)
T cd00814 5 TTALPYVNGVPHLGHLYGTVLADVFAR 31 (319)
T ss_pred EeCCCCCCCCcchhhHHHHHHHHHHHH
Confidence 356788899999999999999999987
No 24
>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=97.41 E-value=1e-05 Score=61.20 Aligned_cols=27 Identities=26% Similarity=0.148 Sum_probs=24.8
Q ss_pred EEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 40 YVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 40 Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
=+..|++.+.+||||+|+||.+|+|+|
T Consensus 4 t~~~P~~ng~lHiGH~~~~~~aDvl~R 30 (530)
T TIGR00398 4 TTALPYANGKPHLGHAYTTILADVYAR 30 (530)
T ss_pred ecCCCCCCCCcccchhHHHHHHHHHHH
Confidence 357899999999999999999999987
No 25
>PRK04156 gltX glutamyl-tRNA synthetase; Provisional
Probab=97.22 E-value=2.6e-05 Score=61.32 Aligned_cols=32 Identities=41% Similarity=0.314 Sum_probs=28.1
Q ss_pred CCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 34 PGKVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 34 ~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
+|+|.++ |+|+++.+.||||||++++.+.++|
T Consensus 99 ~g~V~tR-FaPsPtG~LHIGharaalln~~~Ar 130 (567)
T PRK04156 99 KGKVVMR-FAPNPSGPLHLGHARAAILNDEYAK 130 (567)
T ss_pred CCeEEEE-eCCCCCCCccHHHHHHHHHHHHHHH
Confidence 5679998 9999999999999999988776654
No 26
>PRK12267 methionyl-tRNA synthetase; Reviewed
Probab=97.06 E-value=5.8e-05 Score=58.85 Aligned_cols=29 Identities=28% Similarity=0.408 Sum_probs=25.4
Q ss_pred eeEEeCCccC--CCCCCCccceEEEEEeeeC
Q 036777 38 GMYVCGVTAY--DLSHLGHARAAISFYILYS 66 (66)
Q Consensus 38 ~~Y~CGPTvY--d~~HiGhaR~~V~~Dvl~R 66 (66)
.+|++-|-.| +.+||||+|+|+.+|+++|
T Consensus 5 ~~~it~~~py~ng~~HiGH~~~~~~aDv~~R 35 (648)
T PRK12267 5 TFYITTPIYYPNGKPHIGHAYTTIAADALAR 35 (648)
T ss_pred CEEEeeCCCCCCCCcccccchHHHHHHHHHH
Confidence 4677777777 9999999999999999987
No 27
>PRK00133 metG methionyl-tRNA synthetase; Reviewed
Probab=96.85 E-value=7.5e-05 Score=58.68 Aligned_cols=23 Identities=30% Similarity=0.170 Sum_probs=21.6
Q ss_pred CccCCCCCCCccceEEEEEeeeC
Q 036777 44 VTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 44 PTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
|++.+.+||||+|+|+.+|+++|
T Consensus 11 py~ng~~HiGH~~~~l~aDv~aR 33 (673)
T PRK00133 11 PYANGPIHLGHLVEYIQADIWVR 33 (673)
T ss_pred CCCCCcccccchHHHHHHHHHHH
Confidence 48999999999999999999987
No 28
>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=96.83 E-value=7.9e-05 Score=53.53 Aligned_cols=26 Identities=23% Similarity=0.084 Sum_probs=23.1
Q ss_pred EeCCccCCCCCCCccceEEEEEeeeC
Q 036777 41 VCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 41 ~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
+-=|++.+.+||||+|++|..|+++|
T Consensus 6 ~~~Py~ng~~HiGH~~~~v~~Dv~~R 31 (314)
T cd00812 6 VMFPYPSGALHVGHVRTYTIGDIIAR 31 (314)
T ss_pred cCCCCCCCCccccchHHHHHHHHHHH
Confidence 34589999999999999999999987
No 29
>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=96.82 E-value=0.00012 Score=54.58 Aligned_cols=29 Identities=17% Similarity=0.282 Sum_probs=25.9
Q ss_pred eeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 38 GMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 38 ~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
-+..+|++++..+||||+|.++..|+++|
T Consensus 21 ~~v~tgi~psG~~HIG~~~e~i~~D~i~R 49 (353)
T cd00674 21 YVVASGISPSGHIHIGNFREVITADLVAR 49 (353)
T ss_pred EEEecCCCCCCCcccCccHHHHHHHHHHH
Confidence 34567999999999999999999999876
No 30
>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=96.77 E-value=5.8e-05 Score=55.70 Aligned_cols=27 Identities=19% Similarity=0.038 Sum_probs=24.0
Q ss_pred EEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 40 YVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 40 Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
-+--|+|.+.+||||+++++..|+++|
T Consensus 6 ~~~pPy~nG~lHiGH~~~~~~~Dv~~R 32 (382)
T cd00817 6 DTPPPNVTGSLHMGHALNNTIQDIIAR 32 (382)
T ss_pred ecCCCCCCCcchHHHHHHHHHHHHHHH
Confidence 344589999999999999999999987
No 31
>PLN02224 methionine-tRNA ligase
Probab=96.24 E-value=0.00078 Score=53.25 Aligned_cols=45 Identities=11% Similarity=0.096 Sum_probs=31.0
Q ss_pred CCCceEEeeecC--CCe-----eeeEEeC-CccCCCCCCCccceEEEEEeeeC
Q 036777 22 MTQQKELFTPIV--PGK-----VGMYVCG-VTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 22 ltr~ke~f~p~~--~~~-----v~~Y~CG-PTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
-+++++.|.|.. +++ .-+-+++ |+|-+.+||||+++++..|++.|
T Consensus 48 ~~~~~~~~~~~~~~~~~~~~~~~~~ittp~pY~NG~~HiGHa~~~~~aDviaR 100 (616)
T PLN02224 48 SSGKRALYCTSSSQESTVDEADTFVLTTPLYYVNAPPHMGSAYTTIAADSIAR 100 (616)
T ss_pred ccccceeeccCCCcccCCCCCCeEEEeCCCCCCCCCCchhccHHHHHHHHHHH
Confidence 445666776632 122 2233344 48889999999999999999987
No 32
>PRK00390 leuS leucyl-tRNA synthetase; Validated
Probab=96.16 E-value=0.00055 Score=55.11 Aligned_cols=29 Identities=24% Similarity=0.305 Sum_probs=26.1
Q ss_pred eeEEeCCccC--CCCCCCccceEEEEEeeeC
Q 036777 38 GMYVCGVTAY--DLSHLGHARAAISFYILYS 66 (66)
Q Consensus 38 ~~Y~CGPTvY--d~~HiGhaR~~V~~Dvl~R 66 (66)
+.|+|.+.+| ...||||+++|+..|++.|
T Consensus 33 ~~~i~~~pPy~nG~lHiGH~~~~~~~Dii~R 63 (805)
T PRK00390 33 KYYVLDMFPYPSGGLHMGHVRNYTIGDVIAR 63 (805)
T ss_pred CEEEEccCCCCCCCcchhhhHHHHHHHHHHH
Confidence 6888887777 9999999999999999987
No 33
>PRK00750 lysK lysyl-tRNA synthetase; Reviewed
Probab=96.07 E-value=0.0012 Score=50.91 Aligned_cols=29 Identities=17% Similarity=0.251 Sum_probs=27.0
Q ss_pred eeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 38 GMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 38 ~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
-+..||+++...+||||+|.++..|+++|
T Consensus 25 ~~~~~g~~psG~~HiG~~~e~~~~d~v~r 53 (510)
T PRK00750 25 VVVETGIGPSGLPHIGNFREVARTDMVRR 53 (510)
T ss_pred EEEEeCCCCCCCcccccccchhhHHHHHH
Confidence 67899999999999999999999999876
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=95.62 E-value=0.0015 Score=53.07 Aligned_cols=32 Identities=25% Similarity=0.372 Sum_probs=27.1
Q ss_pred CeeeeEEeCCccC--CCCCCCccceEEEEEeeeC
Q 036777 35 GKVGMYVCGVTAY--DLSHLGHARAAISFYILYS 66 (66)
Q Consensus 35 ~~v~~Y~CGPTvY--d~~HiGhaR~~V~~Dvl~R 66 (66)
++-+.|++.+.+| ...||||+++|+..|++.|
T Consensus 27 ~k~k~~v~~~pPy~nG~lHiGH~~~~~~~Dvi~R 60 (842)
T TIGR00396 27 NKPKYYILDMFPYPSGALHMGHVRNYTITDVLSR 60 (842)
T ss_pred CCCCEEEEcCCCCCCCccccchhHHHHHHHHHHH
Confidence 4556888876666 8999999999999999987
No 35
>PRK13208 valS valyl-tRNA synthetase; Reviewed
Probab=94.35 E-value=0.0046 Score=49.53 Aligned_cols=31 Identities=13% Similarity=0.005 Sum_probs=27.3
Q ss_pred eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
+.-+..-.|++....||||+++++..|++.|
T Consensus 39 ~f~i~~ppPy~nG~lHiGH~~~~~~~D~~~R 69 (800)
T PRK13208 39 VYSIDTPPPTVSGSLHIGHVFSYTHTDFIAR 69 (800)
T ss_pred cEEEecCcCCCCCCccHHHHHhHHHHHHHHH
Confidence 4566677899999999999999999999876
No 36
>COG0143 MetG Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=93.51 E-value=0.0065 Score=47.95 Aligned_cols=24 Identities=17% Similarity=0.092 Sum_probs=22.0
Q ss_pred CCccCCCCCCCccceEEEEEeeeC
Q 036777 43 GVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 43 GPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
=|.+-+.+||||+.++|..|+++|
T Consensus 13 lpY~Ng~~HlGH~~~~l~ADv~aR 36 (558)
T COG0143 13 LPYPNGPPHLGHLYTYLAADVYAR 36 (558)
T ss_pred CCCCCCCcchhhHHHHHHHHHHHH
Confidence 468889999999999999999987
No 37
>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=92.48 E-value=0.0034 Score=46.84 Aligned_cols=24 Identities=21% Similarity=0.084 Sum_probs=20.7
Q ss_pred CCccCCCCCCCccceEEEEEeeeC
Q 036777 43 GVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 43 GPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
-|++-..+||||+.+|+..|+++|
T Consensus 7 ~pY~Ng~lHlGH~~~~l~ADv~aR 30 (391)
T PF09334_consen 7 IPYPNGDLHLGHLYPYLAADVLAR 30 (391)
T ss_dssp EEETSSS-BHHHHHHHHHHHHHHH
T ss_pred CCCCCCCCCCChhHHHHHHHHHHH
Confidence 468889999999999999999876
No 38
>PLN02610 probable methionyl-tRNA synthetase
Probab=90.30 E-value=0.028 Score=45.81 Aligned_cols=25 Identities=16% Similarity=0.179 Sum_probs=20.9
Q ss_pred eCCccCCCCCCCccc-eEEEEEeeeC
Q 036777 42 CGVTAYDLSHLGHAR-AAISFYILYS 66 (66)
Q Consensus 42 CGPTvYd~~HiGhaR-~~V~~Dvl~R 66 (66)
-=|++-+.+||||+. +|+..|++.|
T Consensus 24 ~~pY~Ng~~HlGH~~~~~l~aDv~aR 49 (801)
T PLN02610 24 ALPYVNNVPHLGNIIGCVLSADVFAR 49 (801)
T ss_pred CCCCCCCCcccchhhhhHHHHHHHHH
Confidence 346788899999999 5788999887
No 39
>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=89.76 E-value=0.039 Score=45.39 Aligned_cols=30 Identities=13% Similarity=-0.012 Sum_probs=24.6
Q ss_pred eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 37 VGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
.-+..-=|.+-...||||+++++..|++.|
T Consensus 27 f~i~~ppPy~nG~lH~GH~~~~~~~D~~aR 56 (938)
T TIGR00395 27 FFLTMAYPYLNGVMHAGHCRTFTIPEVSAR 56 (938)
T ss_pred eEEecCCCCCCCCcccchhhhhhHHHHHHH
Confidence 345555677779999999999999999876
No 40
>PLN02563 aminoacyl-tRNA ligase
Probab=89.28 E-value=0.046 Score=45.49 Aligned_cols=32 Identities=25% Similarity=0.198 Sum_probs=23.9
Q ss_pred CeeeeEE-eC-CccCCC-CCCCccceEEEEEeeeC
Q 036777 35 GKVGMYV-CG-VTAYDL-SHLGHARAAISFYILYS 66 (66)
Q Consensus 35 ~~v~~Y~-CG-PTvYd~-~HiGhaR~~V~~Dvl~R 66 (66)
++-+.|+ +| |.+-.. .||||+++|+.-|++.|
T Consensus 108 ~k~k~~v~~~~PYpnG~~lHiGH~~~y~~~DviaR 142 (963)
T PLN02563 108 SKPKFYVLDMFPYPSGAGLHVGHPEGYTATDILAR 142 (963)
T ss_pred CCCCEEEEeCCCCCCCcccchhhHHHHHHHHHHHH
Confidence 3445554 34 666665 89999999999999876
No 41
>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=88.33 E-value=0.062 Score=43.49 Aligned_cols=31 Identities=16% Similarity=0.019 Sum_probs=26.9
Q ss_pred eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
+..++.--|++-...||||+++++..|++.|
T Consensus 34 ~f~i~~ppPy~nG~lHiGH~~~~~~~D~~~R 64 (861)
T TIGR00422 34 PFCIDIPPPNVTGSLHIGHALNWSIQDIIAR 64 (861)
T ss_pred eEEEEeCCCCCCCCCcHHHhHHHHHHHHHHH
Confidence 4567777788889999999999999999876
No 42
>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=88.08 E-value=0.03 Score=44.33 Aligned_cols=25 Identities=32% Similarity=0.268 Sum_probs=20.5
Q ss_pred EeCCccCCCCCCCccceEEEEEeee
Q 036777 41 VCGVTAYDLSHLGHARAAISFYILY 65 (66)
Q Consensus 41 ~CGPTvYd~~HiGhaR~~V~~Dvl~ 65 (66)
-.-|++..+.||||||++++.+.++
T Consensus 97 RFaPsPtG~LHiGharaalln~~~A 121 (560)
T TIGR00463 97 RFAPNPSGPLHIGHARAAILNQYFA 121 (560)
T ss_pred EeCCCCCCCccHHHHHHHHHHHHHH
Confidence 4579999999999999988766543
No 43
>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=87.75 E-value=0.097 Score=40.90 Aligned_cols=30 Identities=20% Similarity=0.251 Sum_probs=26.4
Q ss_pred eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 37 VGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
.-+..+|.++-..+||||+|-.+..|+++|
T Consensus 19 ~~~~~tg~~psG~~HiG~~~e~~~~d~v~r 48 (515)
T TIGR00467 19 LYTVASGITPSGHIHIGNFREVITADAIAR 48 (515)
T ss_pred eEEEecCCCCCCCccccchhhhhHHHHHHH
Confidence 356789999999999999999999988765
No 44
>PLN02943 aminoacyl-tRNA ligase
Probab=86.85 E-value=0.054 Score=44.74 Aligned_cols=30 Identities=17% Similarity=0.023 Sum_probs=26.1
Q ss_pred eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 37 VGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
-.+...-|.|-...|||||++++.-|++.|
T Consensus 90 f~i~~pPP~~tG~lHiGHa~~~~~~D~~~R 119 (958)
T PLN02943 90 FVIPMPPPNVTGSLHMGHAMFVTLEDIMVR 119 (958)
T ss_pred EEEecCCCCCCCchhHHHHHHHHHHHHHHH
Confidence 456666799999999999999999999876
No 45
>PTZ00419 valyl-tRNA synthetase-like protein; Provisional
Probab=86.40 E-value=0.095 Score=43.27 Aligned_cols=31 Identities=19% Similarity=0.103 Sum_probs=26.7
Q ss_pred eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
..-+...-|++-...||||+++++..|++.|
T Consensus 61 ~f~i~~ppP~~~G~lHiGHa~~~~~~D~~~R 91 (995)
T PTZ00419 61 KFVIVLPPPNVTGYLHIGHALTGAIQDSLIR 91 (995)
T ss_pred eEEEEeCCCCCCCCCcHHHHHHHHHHHHHHH
Confidence 4566677788999999999999999999876
No 46
>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=86.39 E-value=0.045 Score=44.22 Aligned_cols=30 Identities=27% Similarity=0.074 Sum_probs=24.0
Q ss_pred eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 37 VGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
--++.--|.+-...||||+++++.-|++.|
T Consensus 38 f~i~~~pPy~nG~lH~GH~~~~~~~D~~~R 67 (861)
T TIGR00392 38 FIFHDGPPYANGSIHLGHALNKILKDIILR 67 (861)
T ss_pred eEEecCCCCCCCCccHHHHHHHHHHHHHHH
Confidence 344455567779999999999999999876
No 47
>PLN02381 valyl-tRNA synthetase
Probab=86.39 E-value=0.088 Score=44.13 Aligned_cols=30 Identities=17% Similarity=0.064 Sum_probs=26.2
Q ss_pred eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 37 VGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
.-+...-|.+-...||||+++++.-|++.|
T Consensus 130 f~i~~ppPy~nG~lHiGHa~~~ti~Dii~R 159 (1066)
T PLN02381 130 FVIVLPPPNVTGALHIGHALTAAIEDTIIR 159 (1066)
T ss_pred EEEEeCCCCCCCCccHHHHHHHHHHHHHHH
Confidence 566777788889999999999999999876
No 48
>PRK14900 valS valyl-tRNA synthetase; Provisional
Probab=85.71 E-value=0.092 Score=43.87 Aligned_cols=31 Identities=23% Similarity=0.164 Sum_probs=27.1
Q ss_pred eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
.-.+...-|++-...||||+++++.-|++.|
T Consensus 49 ~f~i~~pPP~~nG~lHiGH~~~~~~~Di~~R 79 (1052)
T PRK14900 49 PFSIVLPPPNVTGSLHLGHALTATLQDVLIR 79 (1052)
T ss_pred CEEEecCCCCCCCcchHHHHHhhHHHHHHHH
Confidence 3567777889999999999999999999876
No 49
>COG0495 LeuS Leucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=85.39 E-value=0.15 Score=42.19 Aligned_cols=29 Identities=24% Similarity=0.312 Sum_probs=23.8
Q ss_pred eeEEeCCccC--CCCCCCccceEEEEEeeeC
Q 036777 38 GMYVCGVTAY--DLSHLGHARAAISFYILYS 66 (66)
Q Consensus 38 ~~Y~CGPTvY--d~~HiGhaR~~V~~Dvl~R 66 (66)
+.|+.=+=+| ...|+||.|+|..-|++.|
T Consensus 35 Kfyvl~mfPYpSG~LHvGH~r~Yti~Dv~aR 65 (814)
T COG0495 35 KFYVLVMFPYPSGALHVGHVRNYTIGDVIAR 65 (814)
T ss_pred ceEEEeCCCCCCCCcccCccccccHHHHHHH
Confidence 7777666666 4589999999999999876
No 50
>PRK05729 valS valyl-tRNA synthetase; Reviewed
Probab=84.56 E-value=0.061 Score=43.73 Aligned_cols=30 Identities=20% Similarity=0.148 Sum_probs=25.4
Q ss_pred eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 37 VGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
..+...-|.|-...|||||.+++.-|++.|
T Consensus 38 f~i~~ppP~~~G~lHiGHa~~~~~~D~~~R 67 (874)
T PRK05729 38 FSIVIPPPNVTGSLHMGHALNNTLQDILIR 67 (874)
T ss_pred EEEecCCCCCCCcchHHHHHHHHHHHHHHH
Confidence 455566788889999999999999999876
No 51
>PLN02959 aminoacyl-tRNA ligase
Probab=84.19 E-value=0.11 Score=43.63 Aligned_cols=29 Identities=21% Similarity=0.111 Sum_probs=23.5
Q ss_pred eeEEeC--CccCCCCCCCccceEEEEEeeeC
Q 036777 38 GMYVCG--VTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 38 ~~Y~CG--PTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
..++.+ |.+-...||||+++++.-|++.|
T Consensus 46 kf~i~~ppPY~NG~lHiGHa~t~t~~D~i~R 76 (1084)
T PLN02959 46 KFFGNFPYPYMNGLLHLGHAFSLSKLEFAAA 76 (1084)
T ss_pred cEEEeCCCCCCCCCcchhhHHHHHHHHHHHH
Confidence 344444 77888999999999999999876
No 52
>PLN02882 aminoacyl-tRNA ligase
Probab=83.51 E-value=0.1 Score=44.10 Aligned_cols=31 Identities=26% Similarity=0.144 Sum_probs=27.4
Q ss_pred eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
.-.+|.--|++-..+|+||+++++.-|++.|
T Consensus 39 ~f~~~dgPPyanG~~HiGH~~~~~ikDii~R 69 (1159)
T PLN02882 39 EYIFYDGPPFATGLPHYGHILAGTIKDIVTR 69 (1159)
T ss_pred CEEEeCCCCCCCCcchhhHHHHHHHHHHHHH
Confidence 3577888899999999999999999999876
No 53
>PRK05743 ileS isoleucyl-tRNA synthetase; Reviewed
Probab=83.25 E-value=0.095 Score=43.05 Aligned_cols=30 Identities=23% Similarity=0.045 Sum_probs=24.4
Q ss_pred eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 37 VGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
.-+..--|.+-...|||||++++.-|++.|
T Consensus 51 f~i~~~pPyanG~lHiGHa~~~~~~Dii~R 80 (912)
T PRK05743 51 FILHDGPPYANGDIHIGHALNKILKDIIVK 80 (912)
T ss_pred EEEeCCCCCCCCCccHHHHHHHHHHHHHHH
Confidence 344455677888999999999999999876
No 54
>KOG2804 consensus Phosphorylcholine transferase/cholinephosphate cytidylyltransferase [Lipid transport and metabolism]
Probab=82.10 E-value=0.37 Score=36.49 Aligned_cols=24 Identities=46% Similarity=0.697 Sum_probs=20.3
Q ss_pred CCCeeeeEEeCCccCCCCCCCccceE
Q 036777 33 VPGKVGMYVCGVTAYDLSHLGHARAA 58 (66)
Q Consensus 33 ~~~~v~~Y~CGPTvYd~~HiGhaR~~ 58 (66)
.+..|++|.-| +||.-|.||||..
T Consensus 60 ~~RPVRVYADG--IyDLFH~GHarqL 83 (348)
T KOG2804|consen 60 TDRPVRVYADG--IYDLFHYGHARQL 83 (348)
T ss_pred CCCceEEEccc--hHHHhhhhHHHHH
Confidence 34679999988 7999999999963
No 55
>PRK06039 ileS isoleucyl-tRNA synthetase; Reviewed
Probab=82.01 E-value=0.14 Score=42.28 Aligned_cols=31 Identities=23% Similarity=0.168 Sum_probs=26.3
Q ss_pred eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
+-.++.--|++-...|+||+++++.-|++.|
T Consensus 42 ~f~i~~~PPy~nG~lH~GH~l~~t~kD~i~R 72 (975)
T PRK06039 42 EFVFYDGPPTANGLPHYGHLLTRTIKDVVPR 72 (975)
T ss_pred CEEEeCCCCCCCCCccHhhhHhhHHHHHHHH
Confidence 3456677788889999999999999999876
No 56
>PTZ00427 isoleucine-tRNA ligase, putative; Provisional
Probab=81.97 E-value=0.17 Score=43.18 Aligned_cols=31 Identities=26% Similarity=0.117 Sum_probs=27.5
Q ss_pred eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 36 KVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
.-.+|.--|++-..+|+||+.+++.-|++.|
T Consensus 103 ~Fv~~~gPPyanG~lHiGHal~~tikDii~R 133 (1205)
T PTZ00427 103 AYIFYDGPPFATGLPHYGHLLAGIIKDCVTR 133 (1205)
T ss_pred cEEEecCCCCCCCCcchhHHHHHHHHHHHHH
Confidence 3667888899999999999999999999876
No 57
>PRK13804 ileS isoleucyl-tRNA synthetase; Provisional
Probab=81.89 E-value=0.11 Score=42.99 Aligned_cols=29 Identities=21% Similarity=0.056 Sum_probs=23.0
Q ss_pred eeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 38 GMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 38 ~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
-+..--|.+-...|||||++++.-|++.|
T Consensus 57 ~l~dgPPyanG~lHiGHaln~~lkDii~R 85 (961)
T PRK13804 57 VLHDGPPYANGNIHIGHALNKILKDVIVR 85 (961)
T ss_pred EEeCCCCCCCCCccHHHHHHHHHHHHHHH
Confidence 34444566679999999999999999876
No 58
>PLN02843 isoleucyl-tRNA synthetase
Probab=80.91 E-value=0.14 Score=42.53 Aligned_cols=30 Identities=20% Similarity=0.039 Sum_probs=25.0
Q ss_pred eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 37 VGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
--+..--|.+-...|||||.+++.-|++.|
T Consensus 34 f~i~~~PPy~nG~lHiGHa~~~~lkDii~R 63 (974)
T PLN02843 34 FTLHDGPPYANGDLHIGHALNKILKDFINR 63 (974)
T ss_pred EEEeCCCCCCCCCcchhHHHHHHHHHHHHH
Confidence 445556688889999999999999999876
No 59
>cd00853 NifX NifX belongs to a family of iron-molybdenum cluster-binding proteins that includes NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. The protein is part of the nitrogen fixation gene cluster in nitrogen-fixing bacteria and has sequence similarity to other members of the cluster.
Probab=80.00 E-value=1.5 Score=26.43 Aligned_cols=15 Identities=27% Similarity=0.414 Sum_probs=14.1
Q ss_pred CCCCCccceEEEEEe
Q 036777 49 LSHLGHARAAISFYI 63 (66)
Q Consensus 49 ~~HiGhaR~~V~~Dv 63 (66)
..|.||++.|+++|+
T Consensus 13 ~~HFG~a~~F~Iydv 27 (102)
T cd00853 13 DAHFGSARRFAIYEV 27 (102)
T ss_pred ccccccCCEEEEEEE
Confidence 689999999999997
No 60
>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=79.20 E-value=0.12 Score=40.34 Aligned_cols=30 Identities=20% Similarity=-0.045 Sum_probs=21.7
Q ss_pred eeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 37 VGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 37 v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
..+..--|.+-...|+|||++++.-|++.|
T Consensus 25 f~i~~~PPy~nG~lH~GH~~~~~~~D~i~R 54 (601)
T PF00133_consen 25 FFIHDPPPYANGDLHIGHALNKTIKDIIAR 54 (601)
T ss_dssp EEEEE---BTSSS-BHHHHHHHHHHHHHHH
T ss_pred EEEEeCCCCCCCcccHHHHHHHHHHHHHHH
Confidence 445566678888999999999999998865
No 61
>PLN02413 choline-phosphate cytidylyltransferase
Probab=77.61 E-value=1 Score=33.50 Aligned_cols=23 Identities=48% Similarity=0.778 Sum_probs=19.4
Q ss_pred CCCeeeeEEeCCccCCCCCCCccce
Q 036777 33 VPGKVGMYVCGVTAYDLSHLGHARA 57 (66)
Q Consensus 33 ~~~~v~~Y~CGPTvYd~~HiGhaR~ 57 (66)
.+..+.+|+.| ++|..|.||+|.
T Consensus 24 ~~r~~rVyvdG--~FDLfH~GHir~ 46 (294)
T PLN02413 24 SDRPVRVYADG--IYDLFHFGHARS 46 (294)
T ss_pred CCCceEEEEeC--chhhCCHHHHHH
Confidence 45678999997 799999999874
No 62
>KOG0435 consensus Leucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=77.30 E-value=0.73 Score=38.34 Aligned_cols=23 Identities=26% Similarity=0.193 Sum_probs=19.3
Q ss_pred CccCCCCCCCccceEEEEEeeeC
Q 036777 44 VTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 44 PTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
|=+-...||||.|.|...|+|.|
T Consensus 66 PYPSG~LHiGHvRVYTIsD~laR 88 (876)
T KOG0435|consen 66 PYPSGALHIGHVRVYTISDILAR 88 (876)
T ss_pred CCCCCcccccceEEEEehHHHHH
Confidence 44446689999999999999876
No 63
>PF00175 NAD_binding_1: Oxidoreductase NAD-binding domain ; InterPro: IPR001433 Bacterial ferredoxin-NADP+ reductase may be bound to the thylakoid membrane or anchored to the thylakoid-bound phycobilisomes. Chloroplast ferredoxin-NADP+ reductase (1.18.1.2 from EC) may play a key role in regulating the relative amounts of cyclic and non-cyclic electron flow to meet the demands of the plant for ATP and reducing power. It is involved in the final step in the linear photosynthetic electron transport chain and has also been implicated in cyclic electron flow around photosystem I where its role would be to return electrons from ferredoxin to the cytochrome B-F complex. This domain is present in a variety of proteins that include, bacterial flavohemoprotein, mammalian NADH-cytochrome b5 reductase, eukaryotic NADPH-cytochrome P450 reductase, nitrate reductase from plants, nitric-oxide synthase, bacterial vanillate demethylase, as well as others.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1UMK_A 1CNE_A 2CND_A 1CNF_A 4FK8_A 4F7D_A 2XNJ_B 1FDR_A 1JB9_A 3LVB_A ....
Probab=75.67 E-value=1.3 Score=25.83 Aligned_cols=13 Identities=31% Similarity=0.922 Sum_probs=10.1
Q ss_pred CCeeeeEEeCCcc
Q 036777 34 PGKVGMYVCGVTA 46 (66)
Q Consensus 34 ~~~v~~Y~CGPTv 46 (66)
.....+|+|||..
T Consensus 90 ~~~~~v~iCGp~~ 102 (109)
T PF00175_consen 90 PDDTHVYICGPPP 102 (109)
T ss_dssp TTTEEEEEEEEHH
T ss_pred CCCCEEEEECCHH
Confidence 4567899999963
No 64
>TIGR02663 nifX nitrogen fixation protein NifX. Members of this family are NifX proteins encoded within operons for nitrogen fixation in a number of bacteria. NifX, NafY, and the C-terminal region of NifB all belong to the Pfam family pfam02579 and are involved in MoFe cofactor biosynthesis. NifX is a nitrogenase accessory protein with a role in expression of the MoFe cofactor.
Probab=74.77 E-value=2.5 Score=26.40 Aligned_cols=15 Identities=20% Similarity=0.437 Sum_probs=13.9
Q ss_pred CCCCccceEEEEEee
Q 036777 50 SHLGHARAAISFYIL 64 (66)
Q Consensus 50 ~HiGhaR~~V~~Dvl 64 (66)
.|.|||+.|+++|+-
T Consensus 15 ~HFG~A~~F~Iyev~ 29 (119)
T TIGR02663 15 AHFGSAKQFAIYDVT 29 (119)
T ss_pred ccccCCCEEEEEEEe
Confidence 899999999999983
No 65
>PF08030 NAD_binding_6: Ferric reductase NAD binding domain; InterPro: IPR013121 This entry contains ferric reductase NAD binding proteins.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 3A1F_A.
Probab=74.59 E-value=2.3 Score=26.58 Aligned_cols=13 Identities=38% Similarity=1.002 Sum_probs=9.2
Q ss_pred CCCeeeeEEeCCc
Q 036777 33 VPGKVGMYVCGVT 45 (66)
Q Consensus 33 ~~~~v~~Y~CGPT 45 (66)
..+.+.+++|||.
T Consensus 133 ~~~~~~V~~CGP~ 145 (156)
T PF08030_consen 133 SSGRVAVFVCGPP 145 (156)
T ss_dssp TT-EEEEEEES-H
T ss_pred CCCcEEEEEcCcH
Confidence 4568999999995
No 66
>cd00851 MTH1175 This uncharacterized conserved protein belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, NifB, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This domain is a predicted small-molecule-binding domain (SMBD) with an alpha/beta fold that is present either as a stand-alone domain (e.g. NifX and NifY) or fused to another conserved domain (e.g. NifB) however, its function is still undetermined.The SCOP database suggests that this domain is most similar to structures within the ribonuclease H superfamily. This conserved domain is represented in two of the three major divisions of life (bacteria and archaea).
Probab=73.51 E-value=2.8 Score=24.56 Aligned_cols=16 Identities=19% Similarity=0.293 Sum_probs=14.3
Q ss_pred CCCCCCccceEEEEEe
Q 036777 48 DLSHLGHARAAISFYI 63 (66)
Q Consensus 48 d~~HiGhaR~~V~~Dv 63 (66)
-..|.|+|..|+++|+
T Consensus 14 v~~hFg~a~~f~i~d~ 29 (103)
T cd00851 14 VSPHFGRAPYFLIYDV 29 (103)
T ss_pred ccCccccCCEEEEEEc
Confidence 4689999999999996
No 67
>cd00562 NifX_NifB This CD represents a family of iron-molybdenum cluster-binding proteins that includes NifB, NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme. This domain is a predicted small-molecule-binding domain (SMBD) with an alpha/beta fold that is present either as a stand-alone domain (e.g. NifX and NifY) or fused to another conserved domain (e.g. NifB) however, its function is still undetermined.The SCOP database suggests that this domain is most similar to structures within the ribonuclease H superfamily. This conserved domain is represented in two of the three major divisions of life (bacteria and archaea).
Probab=67.02 E-value=3.9 Score=23.78 Aligned_cols=15 Identities=20% Similarity=0.381 Sum_probs=13.8
Q ss_pred CCCCCccceEEEEEe
Q 036777 49 LSHLGHARAAISFYI 63 (66)
Q Consensus 49 ~~HiGhaR~~V~~Dv 63 (66)
..|.|+|..|+++|+
T Consensus 13 ~~hFg~A~~f~I~d~ 27 (102)
T cd00562 13 DQHFGRAPEFLIYEV 27 (102)
T ss_pred hhhcCCCCeEEEEEE
Confidence 479999999999997
No 68
>cd00852 NifB NifB belongs to a family of iron-molybdenum cluster-binding proteins that includes NifX, and NifY, all of which are involved in the synthesis of an iron-molybdenum cofactor (FeMo-co) that binds the active site of the dinitrogenase enzyme as part of nitrogen fixation in bacteria. This domain is sometimes found fused to a N-terminal domain (the Radical SAM domain) in nifB-like proteins.
Probab=66.09 E-value=4.8 Score=24.29 Aligned_cols=15 Identities=27% Similarity=0.434 Sum_probs=13.9
Q ss_pred CCCCCccceEEEEEe
Q 036777 49 LSHLGHARAAISFYI 63 (66)
Q Consensus 49 ~~HiGhaR~~V~~Dv 63 (66)
..|.|+++.|.++|+
T Consensus 13 ~~HFG~a~~F~Iydv 27 (106)
T cd00852 13 NQHFGHATEFQIYEV 27 (106)
T ss_pred hhhccCCCEEEEEEE
Confidence 589999999999997
No 69
>PF02579 Nitro_FeMo-Co: Dinitrogenase iron-molybdenum cofactor; InterPro: IPR003731 This entry represents several Nif (B, X and Y) proteins, which are involved in the biosynthesis of the iron-molybdenum cofactor (FeMo-co) found in the dinitrogenase enzyme of the nitrogenase complex in nitrogen-fixing bacteria. The nitrogenase complex catalyses the reduction of atmospheric dinitrogen to ammonia, and is composed of an iron metalloprotein (dinitrogenase reductase; homodimer of NifH; IPR000392 from INTERPRO) and a Fe-Mo metalloprotein (dinitrogenase; heterotetramer of NifD and NifK; IPR000318 from INTERPRO). The pathway for the synthesis of the Fe-Mo cofactor involves several proteins, including NifB, NifE, NifH, NifN, NifQ, NifV and NifX. NifB appears to be an iron-sulphur source for FeMo-co biosynthesis, while NifX may be associated with the mature FeMo-co, in particular with the addition of homocitrate during the last step of biosynthesis []. The NifX protein shows sequence similarity with the C terminus of NifB [], as well as to the conserved protein MTH1175 from the archaeon Methanobacterium thermoautotrophicum, which displays a ribonuclease H-like motif of three layers, alpha/beta/alpha, with a single mixed beta-sheet [].; PDB: 2QTD_A 2KLA_A 1EO1_A 1P90_A 1RDU_A 2YX6_D 1O13_A 1T3V_A 2RE2_B 2WFB_A.
Probab=64.87 E-value=6.2 Score=22.66 Aligned_cols=16 Identities=19% Similarity=0.295 Sum_probs=12.7
Q ss_pred CCCCCccceEEEEEee
Q 036777 49 LSHLGHARAAISFYIL 64 (66)
Q Consensus 49 ~~HiGhaR~~V~~Dvl 64 (66)
..|.|+|..|.++|+-
T Consensus 6 ~~hFg~a~~f~I~d~~ 21 (94)
T PF02579_consen 6 SPHFGRAPYFLIYDVE 21 (94)
T ss_dssp -SBCTT-SEEEEEEEE
T ss_pred eHHHCCCCEEEEEEEe
Confidence 4799999999999974
No 70
>COG0525 ValS Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=63.96 E-value=1 Score=37.76 Aligned_cols=39 Identities=21% Similarity=0.102 Sum_probs=30.4
Q ss_pred EeeecCCC---eeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 28 LFTPIVPG---KVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 28 ~f~p~~~~---~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
.|.|..+. .-.+=..-|.|=...|||||-.+...|+|.|
T Consensus 23 ~f~~~~~~~~~~f~I~~PPPNVTG~LHmGHAl~~tl~D~l~R 64 (877)
T COG0525 23 YFKPDPNEDKPPFSIDTPPPNVTGSLHMGHALNYTLQDILAR 64 (877)
T ss_pred CccCCCCCCCCCcEEeCCCCCCCCcccchhhhhHHHHHHHHH
Confidence 55554322 2566678899999999999999999999876
No 71
>cd02174 CCT CTP:phosphocholine cytidylyltransferase. CTP:phosphocholine cytidylyltransferase (CCT) catalyzes the condensation of CTP and phosphocholine to form CDP-choline as the rate-limiting and regulatory step in the CDP-choline pathway. CCT is unique in that its enzymatic activity is regulated by the extent of its association with membrane structures. A current model posts that the elastic stress of the bilayer curvature is sensed by CCT and this governs the degree of membrane association, thus providing a mechanism for both positive and negative regulation of activity.
Probab=61.30 E-value=4.1 Score=26.82 Aligned_cols=19 Identities=53% Similarity=0.891 Sum_probs=15.6
Q ss_pred eeeeEEeCCccCCCCCCCccc
Q 036777 36 KVGMYVCGVTAYDLSHLGHAR 56 (66)
Q Consensus 36 ~v~~Y~CGPTvYd~~HiGhaR 56 (66)
..++|++| .+|..|.||.+
T Consensus 2 ~~rV~~~G--~FDl~H~GHi~ 20 (150)
T cd02174 2 PVRVYVDG--CFDLFHYGHAN 20 (150)
T ss_pred CeEEEEeC--ccCCCCHHHHH
Confidence 35788887 69999999975
No 72
>PLN02286 arginine-tRNA ligase
Probab=59.59 E-value=2.9 Score=32.92 Aligned_cols=32 Identities=19% Similarity=0.113 Sum_probs=27.5
Q ss_pred CeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 35 GKVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 35 ~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
.+|-+=.+.|.+=...|+||+|+.+.=|.|.|
T Consensus 117 ~~v~VEfsSpNp~kplHvGHlRsaiiGdsLar 148 (576)
T PLN02286 117 KRAVVDFSSPNIAKEMHVGHLRSTIIGDTLAR 148 (576)
T ss_pred ceEEEEecCCCCCCCCccccccchhhHHHHHH
Confidence 56777788999999999999999998887754
No 73
>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=59.42 E-value=1.3 Score=32.34 Aligned_cols=17 Identities=35% Similarity=0.556 Sum_probs=12.1
Q ss_pred CccCCCCCCCccceEEE
Q 036777 44 VTAYDLSHLGHARAAIS 60 (66)
Q Consensus 44 PTvYd~~HiGhaR~~V~ 60 (66)
|++-.+.||||+|+++.
T Consensus 8 PsPtG~lHiG~~r~al~ 24 (314)
T PF00749_consen 8 PSPTGYLHIGHARTALL 24 (314)
T ss_dssp --SSSS-BHHHHHHHHH
T ss_pred CCCCCCcccchhHHHHH
Confidence 67788999999998764
No 74
>PTZ00308 ethanolamine-phosphate cytidylyltransferase; Provisional
Probab=57.47 E-value=4.9 Score=30.09 Aligned_cols=25 Identities=44% Similarity=0.925 Sum_probs=20.1
Q ss_pred ecCCCeeeeEEeCCccCCCCCCCccce
Q 036777 31 PIVPGKVGMYVCGVTAYDLSHLGHARA 57 (66)
Q Consensus 31 p~~~~~v~~Y~CGPTvYd~~HiGhaR~ 57 (66)
|..++.+.+|+.| .+|..|+||.+.
T Consensus 6 ~~~~~~~~v~~~G--~FD~vH~GH~~~ 30 (353)
T PTZ00308 6 PKKPGTIRVWVDG--CFDMLHFGHANA 30 (353)
T ss_pred CCCCCcEEEEEEe--ecccCCHHHHHH
Confidence 3456778999987 799999999763
No 75
>COG0018 ArgS Arginyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=57.36 E-value=2.6 Score=33.62 Aligned_cols=32 Identities=28% Similarity=0.180 Sum_probs=25.7
Q ss_pred CeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 35 GKVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 35 ~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
.+|-+=.--|.+=.+.||||+|+-|.=|.|.|
T Consensus 117 ~kV~iE~sSaNptkplHiGHlR~aiiGDsLar 148 (577)
T COG0018 117 KKVVIEYSSANPTGPLHIGHLRNAIIGDSLAR 148 (577)
T ss_pred CEEEEEEeCCCCCCCcccchhhhhHHHHHHHH
Confidence 45666666778889999999999998887765
No 76
>PRK12558 glutamyl-tRNA synthetase; Provisional
Probab=56.24 E-value=2.1 Score=33.14 Aligned_cols=17 Identities=29% Similarity=0.442 Sum_probs=14.4
Q ss_pred CccCCCCCCCccceEEE
Q 036777 44 VTAYDLSHLGHARAAIS 60 (66)
Q Consensus 44 PTvYd~~HiGhaR~~V~ 60 (66)
|++-.+.||||+|++++
T Consensus 9 PSPTG~lHiG~artAL~ 25 (445)
T PRK12558 9 PSPTGYLHVGNARTALL 25 (445)
T ss_pred CCCCCcccHHHHHHHHH
Confidence 67788999999999764
No 77
>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=55.67 E-value=0.62 Score=33.73 Aligned_cols=18 Identities=22% Similarity=0.191 Sum_probs=14.5
Q ss_pred CccCCCCCCCccceEEEE
Q 036777 44 VTAYDLSHLGHARAAISF 61 (66)
Q Consensus 44 PTvYd~~HiGhaR~~V~~ 61 (66)
|++=.+.||||+|++++-
T Consensus 7 PSPtG~lHiG~~rtAL~n 24 (272)
T TIGR03838 7 PSPSGPLHFGSLVAALGS 24 (272)
T ss_pred CCCCCcccHHHHHHHHHH
Confidence 566788999999998653
No 78
>PRK12451 arginyl-tRNA synthetase; Reviewed
Probab=55.48 E-value=2.8 Score=32.80 Aligned_cols=33 Identities=15% Similarity=0.045 Sum_probs=27.1
Q ss_pred CCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 34 PGKVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 34 ~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
+.+|-+=...|.+=...|+||+|+.+.=|.|.|
T Consensus 112 ~~~v~vE~sSpNp~kplHvGH~R~aiiGd~l~r 144 (562)
T PRK12451 112 EKTVVIDYSSPNIAKPFSMGHLRSTMIGNALKH 144 (562)
T ss_pred CCEEEEEecCCCCCCCcccchhhhHHHHHHHHH
Confidence 346777778889999999999999988777754
No 79
>KOG0432 consensus Valyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=55.25 E-value=1.3 Score=37.48 Aligned_cols=33 Identities=18% Similarity=0.048 Sum_probs=28.2
Q ss_pred CCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 34 PGKVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 34 ~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
.+...|+..-|.|=...|||||-+.-.-|.|.|
T Consensus 74 ~~~f~i~~PPPNVTG~LHiGHALt~aiqD~i~R 106 (995)
T KOG0432|consen 74 GGVFVIPLPPPNVTGSLHIGHALTVAIQDALAR 106 (995)
T ss_pred CCcceeecCCCCcccccchhHHHHHHHHHHHHH
Confidence 455679999999999999999999888887765
No 80
>cd00322 FNR_like Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport mechanism of photosystem I. FNR transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) and then transfers a hydride ion to convert NADP+ to NADPH. FNR has since been shown to utilize a variety of electron acceptors and donors and has a variety of physiological functions including nitrogen assimilation, dinitrogen fixation, steroid hydroxylation, fatty acid metabolism, oxygenase activity, and methane assimilation in many organisms. FNR has an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) flavin sub-domain which vary in orientation with respect to the NAD(P) binding domain. The N-terminal moeity may contain a flavin prosthetic group (as in
Probab=53.73 E-value=8 Score=25.07 Aligned_cols=12 Identities=33% Similarity=0.731 Sum_probs=9.4
Q ss_pred CeeeeEEeCCcc
Q 036777 35 GKVGMYVCGVTA 46 (66)
Q Consensus 35 ~~v~~Y~CGPTv 46 (66)
....+|+|||.-
T Consensus 190 ~~~~~yvCGp~~ 201 (223)
T cd00322 190 SGALVYICGPPA 201 (223)
T ss_pred cCCEEEEECCHH
Confidence 456799999974
No 81
>TIGR03330 SAM_DCase_Bsu S-adenosylmethionine decarboxylase proenzyme, Bacillus form. Members of this protein family are the single chain precursor of the two chains of the mature S-adenosylmethionine decarboxylase as found in Methanocaldococcus jannaschii, Bacillus subtilis, and a wide range of other species. It differs substantially in architecture from the form as found in Escherichia coli, and lacks any extended homology to the eukaryotic form (TIGR00535).
Probab=53.41 E-value=8.2 Score=24.36 Aligned_cols=11 Identities=27% Similarity=0.782 Sum_probs=9.3
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
.|++|+||+++
T Consensus 76 avDiftCg~~~ 86 (112)
T TIGR03330 76 AVDVFTCGDHS 86 (112)
T ss_pred EEEEEecCCCC
Confidence 48999999864
No 82
>PRK03124 S-adenosylmethionine decarboxylase proenzyme; Provisional
Probab=53.05 E-value=8.4 Score=25.03 Aligned_cols=11 Identities=27% Similarity=0.754 Sum_probs=9.4
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
.|++|+||+++
T Consensus 77 avDiftCg~~~ 87 (127)
T PRK03124 77 AVDVFTCGDRV 87 (127)
T ss_pred EEEEEecCCCC
Confidence 48999999975
No 83
>PRK01706 S-adenosylmethionine decarboxylase proenzyme; Validated
Probab=52.63 E-value=8.7 Score=24.84 Aligned_cols=11 Identities=36% Similarity=0.920 Sum_probs=9.4
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
.|++|+||.++
T Consensus 79 avDiftCg~~~ 89 (123)
T PRK01706 79 AIDCYTCGTTV 89 (123)
T ss_pred EEEEEecCCCC
Confidence 48999999975
No 84
>PLN02200 adenylate kinase family protein
Probab=52.17 E-value=11 Score=26.12 Aligned_cols=45 Identities=18% Similarity=0.152 Sum_probs=29.0
Q ss_pred CcccccccccCCCcceEEEeCCCCceEEeee-----cCCCeeeeEEeCCc
Q 036777 1 METSKETTAAAPKMDLIIYNSMTQQKELFTP-----IVPGKVGMYVCGVT 45 (66)
Q Consensus 1 ~~~~~~~~~~~~~~~l~lyntltr~ke~f~p-----~~~~~v~~Y~CGPT 45 (66)
|..||-........+|+++|+.+.+...+.- .......+.++||.
T Consensus 3 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ii~I~G~P 52 (234)
T PLN02200 3 MSSSKPLKLSQAASGLKIWESFSTEIITLEERGSSSKEKTPFITFVLGGP 52 (234)
T ss_pred cccCCcchHHHHhhhheecccccccccccccccCCccCCCCEEEEEECCC
Confidence 4556666666666789999999986444432 11123567888874
No 85
>KOG2111 consensus Uncharacterized conserved protein, contains WD40 repeats [Function unknown]
Probab=52.09 E-value=24 Score=26.95 Aligned_cols=37 Identities=11% Similarity=0.092 Sum_probs=24.4
Q ss_pred cccccccCCCcceEEEeCCCCceE-EeeecCCCeeeeEE
Q 036777 4 SKETTAAAPKMDLIIYNSMTQQKE-LFTPIVPGKVGMYV 41 (66)
Q Consensus 4 ~~~~~~~~~~~~l~lyntltr~ke-~f~p~~~~~v~~Y~ 41 (66)
+.-++|.....-+|||||.++++. +|.- .-.+..+|+
T Consensus 194 t~vATaStkGTLIRIFdt~~g~~l~E~RR-G~d~A~iy~ 231 (346)
T KOG2111|consen 194 TLVATASTKGTLIRIFDTEDGTLLQELRR-GVDRADIYC 231 (346)
T ss_pred cEEEEeccCcEEEEEEEcCCCcEeeeeec-CCchheEEE
Confidence 345677777788999999998753 3432 223556665
No 86
>cd06188 NADH_quinone_reductase Na+-translocating NADH:quinone oxidoreductase (Na+-NQR) FAD/NADH binding domain. (Na+-NQR) provides a means of storing redox reaction energy via the transmembrane translocation of Na2+ ions. The C-terminal domain resembles ferredoxin:NADP+ oxidoreductase, and has NADH and FAD binding sites. (Na+-NQR) is distinct from H+-translocating NADH:quinone oxidoreductases and noncoupled NADH:quinone oxidoreductases. The NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which vary in orientation with respect to the NAD(P) binding domain. The N-terminal domain of this group typically contains an iron-sulfur cluster binding domain.
Probab=51.91 E-value=9.9 Score=26.46 Aligned_cols=12 Identities=25% Similarity=0.830 Sum_probs=9.4
Q ss_pred CeeeeEEeCCcc
Q 036777 35 GKVGMYVCGVTA 46 (66)
Q Consensus 35 ~~v~~Y~CGPTv 46 (66)
....+|+|||..
T Consensus 248 ~~~~vyiCGP~~ 259 (283)
T cd06188 248 EDIEFYLCGPPP 259 (283)
T ss_pred CCeEEEEECCHH
Confidence 356799999974
No 87
>cd06200 SiR_like1 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ gene) are of the cytochrome p450 (CyPor) family having FAD and FMN as prosthetic groups and utilizing NADPH. Cypor (including cyt -450 reductase, nitric oxide synthase, and methionine synthase reductase) are ferredoxin reductase (FNR)-like proteins with an additional N-terminal FMN domain and a connecting sub-domain inserted within the flavin binding portion of the FNR-like domain. The connecting domain orients the N-terminal FMN domain with the C-terminal FNR domain. NADPH cytochrome p450 reductase (CYPOR) serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine synthase reductases. CYPOR transfers two electrons from NADPH to the heme of cytochrome p450 via FAD
Probab=49.59 E-value=9.6 Score=26.15 Aligned_cols=9 Identities=44% Similarity=1.114 Sum_probs=7.8
Q ss_pred eeeEEeCCc
Q 036777 37 VGMYVCGVT 45 (66)
Q Consensus 37 v~~Y~CGPT 45 (66)
..+|+|||.
T Consensus 203 ~~vy~CGp~ 211 (245)
T cd06200 203 AAIYVCGSL 211 (245)
T ss_pred cEEEEECCc
Confidence 469999997
No 88
>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=49.44 E-value=0.95 Score=33.31 Aligned_cols=33 Identities=24% Similarity=0.118 Sum_probs=22.5
Q ss_pred CCeeeeEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 34 PGKVGMYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 34 ~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
+.+|-+=.+-|.+=...|+||+|+.+.=|.|.|
T Consensus 19 ~~kv~VE~sSpNp~kplHvGHlR~~iiGd~lar 51 (354)
T PF00750_consen 19 GKKVVVEFSSPNPTKPLHVGHLRNTIIGDSLAR 51 (354)
T ss_dssp SEEEEEEE---BTTSS-BHHHHHHHHHHHHHHH
T ss_pred CCEEEEEecCCCCCCCCcCCcchhhhhhHHHHH
Confidence 456667778888999999999999887666543
No 89
>COG0008 GlnS Glutamyl- and glutaminyl-tRNA synthetases [Translation, ribosomal structure and biogenesis]
Probab=49.11 E-value=1.2 Score=34.82 Aligned_cols=19 Identities=32% Similarity=0.492 Sum_probs=14.9
Q ss_pred eCCccCCCCCCCccceEEE
Q 036777 42 CGVTAYDLSHLGHARAAIS 60 (66)
Q Consensus 42 CGPTvYd~~HiGhaR~~V~ 60 (66)
.=|.+=.+.||||||+.++
T Consensus 14 FAPsPtG~LHiG~artAl~ 32 (472)
T COG0008 14 FAPSPTGYLHIGHARTALL 32 (472)
T ss_pred ECcCCCCccchHHHHHHHH
Confidence 3456678899999998764
No 90
>cd06186 NOX_Duox_like_FAD_NADP NADPH oxidase (NOX) catalyzes the generation of reactive oxygen species (ROS) such as superoxide and hydrogen peroxide. ROS were originally identified as bactericidal agents in phagocytes, but are now also implicated in cell signaling and metabolism. NOX has a 6-alpha helix heme-binding transmembrane domain fused to a flavoprotein with the nucleotide binding domain located in the cytoplasm. Duox enzymes link a peroxidase domain to the NOX domain via a single transmembrane and EF-hand Ca2+ binding sites. The flavoprotein module has a ferredoxin like FAD/NADPH binding domain. In classical phagocytic NOX2, electron transfer occurs from NADPH to FAD to the heme of cytb to oxygen leading to superoxide formation.
Probab=48.85 E-value=14 Score=24.07 Aligned_cols=8 Identities=38% Similarity=0.866 Sum_probs=6.6
Q ss_pred eEEeCCcc
Q 036777 39 MYVCGVTA 46 (66)
Q Consensus 39 ~Y~CGPTv 46 (66)
+|+|||.-
T Consensus 179 v~~CGp~~ 186 (210)
T cd06186 179 VVVCGPPG 186 (210)
T ss_pred EEEECchh
Confidence 89999953
No 91
>PLN03233 putative glutamate-tRNA ligase; Provisional
Probab=47.61 E-value=1.2 Score=35.30 Aligned_cols=18 Identities=33% Similarity=0.434 Sum_probs=14.2
Q ss_pred CccCCCCCCCccceEEEE
Q 036777 44 VTAYDLSHLGHARAAISF 61 (66)
Q Consensus 44 PTvYd~~HiGhaR~~V~~ 61 (66)
|.+=.+.||||||++++-
T Consensus 18 PsPtG~LHiGharaAlln 35 (523)
T PLN03233 18 PEPSGYLHIGHAKAALLN 35 (523)
T ss_pred CCCCCcccHHHHHHHHHH
Confidence 566688999999987643
No 92
>PLN02907 glutamate-tRNA ligase
Probab=47.08 E-value=1.3 Score=36.14 Aligned_cols=21 Identities=29% Similarity=0.303 Sum_probs=16.5
Q ss_pred EeCCccCCCCCCCccceEEEE
Q 036777 41 VCGVTAYDLSHLGHARAAISF 61 (66)
Q Consensus 41 ~CGPTvYd~~HiGhaR~~V~~ 61 (66)
-.-|.+=.+.||||||++++-
T Consensus 217 RFaPsPtG~LHiG~ar~al~n 237 (722)
T PLN02907 217 RFPPEPSGYLHIGHAKAALLN 237 (722)
T ss_pred eeCCCCCCcccHHHHHHHHHH
Confidence 445777889999999987653
No 93
>cd06197 FNR_like_2 FAD/NAD(P) binding domain of ferredoxin reductase-like proteins. Ferredoxin reductase (FNR) was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport mechanism of photosystem I. FNR transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) and then transfers a hydride ion to convert NADP+ to NADPH. FNR has since been shown to utilize a variety of electron acceptors and donors and have a variety of physiological functions in a variety of organisms including nitrogen assimilation, dinitrogen fixation, steroid hydroxylation, fatty acid metabolism, oxygenase activity, and methane assimilation. FNR has an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) flavin sub-domain which varies in orientation with respect to the NAD(P) binding domain. The N-terminal moeity
Probab=46.58 E-value=10 Score=25.57 Aligned_cols=9 Identities=44% Similarity=1.080 Sum_probs=7.5
Q ss_pred eeEEeCCcc
Q 036777 38 GMYVCGVTA 46 (66)
Q Consensus 38 ~~Y~CGPTv 46 (66)
.+|+|||.-
T Consensus 192 ~v~~CGP~~ 200 (220)
T cd06197 192 EVYLCGPPA 200 (220)
T ss_pred cEEEECcHH
Confidence 689999973
No 94
>PRK00458 S-adenosylmethionine decarboxylase proenzyme; Provisional
Probab=45.09 E-value=13 Score=24.10 Aligned_cols=11 Identities=36% Similarity=0.893 Sum_probs=9.4
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
.|++|+||++.
T Consensus 89 avDiftCg~~~ 99 (127)
T PRK00458 89 TVDVYTCGEHT 99 (127)
T ss_pred EEEEEecCCCC
Confidence 48999999875
No 95
>PRK02770 S-adenosylmethionine decarboxylase proenzyme; Provisional
Probab=45.05 E-value=13 Score=24.56 Aligned_cols=11 Identities=27% Similarity=0.767 Sum_probs=9.1
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
.|++|+||+++
T Consensus 90 avDiftCg~~~ 100 (139)
T PRK02770 90 AVDVFTCGDHT 100 (139)
T ss_pred EEEEEecCCCC
Confidence 48999999864
No 96
>cd06208 CYPOR_like_FNR These ferredoxin reductases are related to the NADPH cytochrome p450 reductases (CYPOR), but lack the FAD-binding region connecting sub-domain. Ferredoxin-NADP+ reductase (FNR) is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins, such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap between the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second electron to form FADH2, which then
Probab=44.66 E-value=13 Score=26.01 Aligned_cols=12 Identities=25% Similarity=0.902 Sum_probs=9.0
Q ss_pred CeeeeEEeCCcc
Q 036777 35 GKVGMYVCGVTA 46 (66)
Q Consensus 35 ~~v~~Y~CGPTv 46 (66)
+...+|+|||.-
T Consensus 238 ~~~~vYiCGp~~ 249 (286)
T cd06208 238 DNTHVYICGLKG 249 (286)
T ss_pred CCcEEEEeCCch
Confidence 345799999963
No 97
>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=44.50 E-value=1.4 Score=34.82 Aligned_cols=19 Identities=21% Similarity=0.246 Sum_probs=14.8
Q ss_pred CCccCCCCCCCccceEEEE
Q 036777 43 GVTAYDLSHLGHARAAISF 61 (66)
Q Consensus 43 GPTvYd~~HiGhaR~~V~~ 61 (66)
-|.+=.+.||||||++++-
T Consensus 6 aPsPtG~LHiG~ar~al~n 24 (522)
T TIGR00440 6 PPEPNGYLHIGHAKSICLN 24 (522)
T ss_pred CCCCCCcccHHHHHHHHHH
Confidence 3667788999999987643
No 98
>cd06190 T4MO_e_transfer_like Toluene-4-monoxygenase electron transfer component of Pseudomonas mendocina hydroxylates toluene and forms p-cresol as part of a three component toluene-4-monoxygenase system. Electron transfer is from NADH to an NADH:ferredoxin oxidoreductase (TmoF in P. mendocina) to ferredoxin to an iron-containing oxygenase. TmoF is homologous to other mono- and dioxygenase systems within the ferredoxin reductase family.
Probab=44.19 E-value=14 Score=24.50 Aligned_cols=12 Identities=17% Similarity=0.451 Sum_probs=9.3
Q ss_pred CeeeeEEeCCcc
Q 036777 35 GKVGMYVCGVTA 46 (66)
Q Consensus 35 ~~v~~Y~CGPTv 46 (66)
....+|+|||.-
T Consensus 195 ~~~~vyiCGp~~ 206 (232)
T cd06190 195 AEFEFYFAGPPP 206 (232)
T ss_pred cccEEEEECCHH
Confidence 346899999973
No 99
>PTZ00402 glutamyl-tRNA synthetase; Provisional
Probab=43.95 E-value=1.5 Score=35.36 Aligned_cols=19 Identities=37% Similarity=0.461 Sum_probs=15.3
Q ss_pred CCccCCCCCCCccceEEEE
Q 036777 43 GVTAYDLSHLGHARAAISF 61 (66)
Q Consensus 43 GPTvYd~~HiGhaR~~V~~ 61 (66)
-|.+=.+.||||||++++-
T Consensus 58 APsPtGyLHIGharaAllN 76 (601)
T PTZ00402 58 PPEASGFLHIGHAKAALIN 76 (601)
T ss_pred CCCCCCcccHHHHHHHHHH
Confidence 4677789999999987653
No 100
>PRK04025 S-adenosylmethionine decarboxylase proenzyme; Validated
Probab=43.88 E-value=14 Score=24.42 Aligned_cols=11 Identities=36% Similarity=0.896 Sum_probs=9.2
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
.|++|+||+++
T Consensus 77 avDIftCg~~~ 87 (139)
T PRK04025 77 ALDVYTCGEKA 87 (139)
T ss_pred EEEEEecCCCC
Confidence 48999999874
No 101
>PRK05347 glutaminyl-tRNA synthetase; Provisional
Probab=43.85 E-value=1.5 Score=35.04 Aligned_cols=21 Identities=19% Similarity=0.178 Sum_probs=16.1
Q ss_pred EeCCccCCCCCCCccceEEEE
Q 036777 41 VCGVTAYDLSHLGHARAAISF 61 (66)
Q Consensus 41 ~CGPTvYd~~HiGhaR~~V~~ 61 (66)
-.-|.+=.+.||||||++++-
T Consensus 33 RFaPsPtG~LHiG~ar~al~n 53 (554)
T PRK05347 33 RFPPEPNGYLHIGHAKSICLN 53 (554)
T ss_pred EeCCCCCCcccHHHHHHHHHH
Confidence 345677789999999987643
No 102
>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=43.24 E-value=4.1 Score=28.91 Aligned_cols=18 Identities=33% Similarity=0.521 Sum_probs=14.4
Q ss_pred CCccCCCCCCCccceEEE
Q 036777 43 GVTAYDLSHLGHARAAIS 60 (66)
Q Consensus 43 GPTvYd~~HiGhaR~~V~ 60 (66)
-|++=.+.||||+|+++.
T Consensus 7 APsPtG~lHlG~~r~al~ 24 (230)
T cd00418 7 APSPTGYLHIGHARTALF 24 (230)
T ss_pred CCCCCCcccHHHHHHHHH
Confidence 356778899999998764
No 103
>PRK01236 S-adenosylmethionine decarboxylase proenzyme; Provisional
Probab=43.01 E-value=15 Score=24.03 Aligned_cols=11 Identities=27% Similarity=0.842 Sum_probs=9.2
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
.|++|+||+++
T Consensus 78 avDiftCg~~~ 88 (131)
T PRK01236 78 TLDVYTCGDPS 88 (131)
T ss_pred EEEEEecCCCC
Confidence 48999999874
No 104
>cd06196 FNR_like_1 Ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which varies in orientation with respect to the NAD(P) binding domain. The N-terminal region may contain a flavin prosthetic group (as in flavoenzymes) or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) which then transfers a hydride ion to convert NADP+ to NADPH.
Probab=41.49 E-value=18 Score=23.74 Aligned_cols=9 Identities=44% Similarity=0.973 Sum_probs=7.7
Q ss_pred eeeEEeCCc
Q 036777 37 VGMYVCGVT 45 (66)
Q Consensus 37 v~~Y~CGPT 45 (66)
..+|+|||.
T Consensus 187 ~~vyiCGp~ 195 (218)
T cd06196 187 QHFYVCGPP 195 (218)
T ss_pred CEEEEECCH
Confidence 569999996
No 105
>PRK08051 fre FMN reductase; Validated
Probab=41.04 E-value=15 Score=24.69 Aligned_cols=10 Identities=20% Similarity=0.511 Sum_probs=8.1
Q ss_pred eeeEEeCCcc
Q 036777 37 VGMYVCGVTA 46 (66)
Q Consensus 37 v~~Y~CGPTv 46 (66)
..+|+|||..
T Consensus 195 ~~vyicGp~~ 204 (232)
T PRK08051 195 YDIYIAGRFE 204 (232)
T ss_pred CEEEEECCHH
Confidence 4699999964
No 106
>cd06198 FNR_like_3 NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) domain, which varies in orientation with respect to the NAD(P) binding domain. The N-terminal domain may contain a flavin prosthetic group (as in flavoenzymes) or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) which then transfers a hydride ion to convert NADP+ to NADPH.
Probab=40.10 E-value=18 Score=23.76 Aligned_cols=11 Identities=18% Similarity=0.709 Sum_probs=8.8
Q ss_pred CeeeeEEeCCc
Q 036777 35 GKVGMYVCGVT 45 (66)
Q Consensus 35 ~~v~~Y~CGPT 45 (66)
....+|+|||.
T Consensus 180 ~~~~vyicGp~ 190 (216)
T cd06198 180 ADADVWFCGPP 190 (216)
T ss_pred CCCeEEEECcH
Confidence 45679999996
No 107
>cd06189 flavin_oxioreductase NAD(P)H dependent flavin oxidoreductases use flavin as a substrate in mediating electron transfer from iron complexes or iron proteins. Structurally similar to ferredoxin reductases, but with only 15% sequence identity, flavin reductases reduce FAD, FMN, or riboflavin via NAD(P)H. Flavin is used as a substrate, rather than a tightly bound prosthetic group as in flavoenzymes; weaker binding is due to the absence of a binding site for the AMP moeity of FAD.
Probab=40.03 E-value=19 Score=23.90 Aligned_cols=11 Identities=27% Similarity=0.830 Sum_probs=8.8
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
...+|+|||..
T Consensus 190 ~~~v~vCGp~~ 200 (224)
T cd06189 190 DFDVYACGSPE 200 (224)
T ss_pred ccEEEEECCHH
Confidence 46799999964
No 108
>TIGR01290 nifB nitrogenase cofactor biosynthesis protein NifB. This model describes NifB, a protein required for the biosynthesis of the iron-molybdenum (or iron-vanadium) cofactor used by the nitrogen-fixing enzyme nitrogenase. Archaeal homologs lack the most C-terminal region and score between the trusted and noise cutoffs of this model.
Probab=39.47 E-value=20 Score=27.38 Aligned_cols=26 Identities=27% Similarity=0.258 Sum_probs=18.7
Q ss_pred eeEEeCCc---cCCCCCCCccceEEEEEe
Q 036777 38 GMYVCGVT---AYDLSHLGHARAAISFYI 63 (66)
Q Consensus 38 ~~Y~CGPT---vYd~~HiGhaR~~V~~Dv 63 (66)
.|+++=+| .--..|.|||..|+++|+
T Consensus 330 ~~kVAVas~~g~~Vn~HFG~A~~F~Iyev 358 (442)
T TIGR01290 330 ECLVAVATKGGGAVNQHFGHADEFTIFSL 358 (442)
T ss_pred ceEEEEEcCCCCchhhhcCCCCeEEEEEE
Confidence 34444444 234689999999999997
No 109
>COG1384 LysS Lysyl-tRNA synthetase (class I) [Translation, ribosomal structure and biogenesis]
Probab=39.16 E-value=2.8 Score=33.41 Aligned_cols=28 Identities=18% Similarity=0.350 Sum_probs=22.2
Q ss_pred eEEeCCccCCCCCCCccceEEEEEeeeC
Q 036777 39 MYVCGVTAYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 39 ~Y~CGPTvYd~~HiGhaR~~V~~Dvl~R 66 (66)
+..-|.|+-...||||+|-.+..|+++|
T Consensus 22 ~v~tGisPSG~~HIGn~rEv~t~d~V~r 49 (521)
T COG1384 22 VVATGISPSGLIHIGNFREVLTADAVRR 49 (521)
T ss_pred EEecCcCCCCCcccccHHHHHHHHHHHH
Confidence 4556999999999999997776666543
No 110
>cd06182 CYPOR_like NADPH cytochrome p450 reductase (CYPOR) serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine synthase reductases. CYPOR transfers two electrons from NADPH to the heme of cytochrome p450 via FAD and FMN. CYPOR has a C-terminal ferredoxin reducatase (FNR)- like FAD and NAD binding module, an FMN-binding domain, and an additional conecting domain (inserted within the FAD binding region) that orients the FNR and FMN binding domains. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria and participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-t
Probab=39.14 E-value=17 Score=25.45 Aligned_cols=9 Identities=44% Similarity=1.025 Sum_probs=8.1
Q ss_pred eeEEeCCcc
Q 036777 38 GMYVCGVTA 46 (66)
Q Consensus 38 ~~Y~CGPTv 46 (66)
.+|+|||..
T Consensus 216 ~vyvCGp~~ 224 (267)
T cd06182 216 HIYVCGDAK 224 (267)
T ss_pred EEEEECCcc
Confidence 799999976
No 111
>cd06211 phenol_2-monooxygenase_like Phenol 2-monooxygenase (phenol hydroxylase) is a flavoprotein monooxygenase, able to use molecular oxygen as a substrate in the microbial degredation of phenol. This protein is encoded by a single gene and uses a tightly bound FAD cofactor in the NAD(P)H dependent conversion of phenol and O2 to catechol and H2O. This group is related to the NAD binding ferredoxin reductases.
Probab=39.10 E-value=19 Score=24.11 Aligned_cols=11 Identities=27% Similarity=0.649 Sum_probs=8.7
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
...+|+|||.-
T Consensus 204 ~~~vyvCGp~~ 214 (238)
T cd06211 204 GHKAYLCGPPP 214 (238)
T ss_pred cCEEEEECCHH
Confidence 45799999963
No 112
>cd06212 monooxygenase_like The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons. These flavoprotein monooxygenases use molecular oxygen as a substrate and require reduced FAD. One atom of oxygen is incorportated into the aromatic compond, while the other is used to form a molecule of water. In contrast dioxygenases add both atoms of oxygen to the substrate.
Probab=39.03 E-value=17 Score=24.12 Aligned_cols=11 Identities=27% Similarity=0.815 Sum_probs=8.6
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
...+|+|||.-
T Consensus 197 ~~~v~~CGp~~ 207 (232)
T cd06212 197 GCDVYLCGPPP 207 (232)
T ss_pred CCEEEEECCHH
Confidence 45799999963
No 113
>cd06187 O2ase_reductase_like The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons using oxygen as the oxidant. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S] ferredoxin center (fused to the FAD/NADH domain and/or discrete) to the oxygenase. Dioxygenases add both atoms of oxygen to the substrate, while mono-oxygenases (aka mixed oxygenases) add one atom to the substrate and one atom to water. In dioxygenases, Class I enzymes are 2 component, containing a reductase with Rieske type [2Fe-2S] redox centers and an oxygenase. Class II are 3 component, having discrete flavin and ferredoxin proteins and an oxygenase. Class III have 2 [2Fe-2S] centers, one fused to the flavin domain and the other separate.
Probab=39.00 E-value=20 Score=23.55 Aligned_cols=13 Identities=31% Similarity=0.797 Sum_probs=9.7
Q ss_pred CeeeeEEeCCccC
Q 036777 35 GKVGMYVCGVTAY 47 (66)
Q Consensus 35 ~~v~~Y~CGPTvY 47 (66)
+...+|+|||...
T Consensus 189 ~~~~v~vcGp~~~ 201 (224)
T cd06187 189 ADHDIYICGPPAM 201 (224)
T ss_pred ccCEEEEECCHHH
Confidence 3467999999753
No 114
>PRK10926 ferredoxin-NADP reductase; Provisional
Probab=38.87 E-value=20 Score=24.63 Aligned_cols=11 Identities=18% Similarity=0.507 Sum_probs=8.7
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
...+|+|||..
T Consensus 206 ~~~vy~CGp~~ 216 (248)
T PRK10926 206 TSHVMLCGNPQ 216 (248)
T ss_pred CCEEEEECCHH
Confidence 35699999964
No 115
>PRK12410 glutamylglutaminyl-tRNA synthetase; Provisional
Probab=38.69 E-value=5.6 Score=30.76 Aligned_cols=17 Identities=35% Similarity=0.372 Sum_probs=14.1
Q ss_pred CccCCCCCCCccceEEE
Q 036777 44 VTAYDLSHLGHARAAIS 60 (66)
Q Consensus 44 PTvYd~~HiGhaR~~V~ 60 (66)
|++=.+.||||+|++++
T Consensus 6 PSPTG~LHiG~artAL~ 22 (433)
T PRK12410 6 PSPTGDMHIGNLRAAIF 22 (433)
T ss_pred CCCCCcccHHHHHHHHH
Confidence 56678899999999764
No 116
>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=38.43 E-value=5.4 Score=28.38 Aligned_cols=18 Identities=28% Similarity=0.421 Sum_probs=14.0
Q ss_pred CCccCCCCCCCccceEEE
Q 036777 43 GVTAYDLSHLGHARAAIS 60 (66)
Q Consensus 43 GPTvYd~~HiGhaR~~V~ 60 (66)
-|++=.+.||||+|+++.
T Consensus 7 APsPtG~LHlG~~~~al~ 24 (239)
T cd00808 7 APSPTGFLHIGGARTALF 24 (239)
T ss_pred CCCCCCcccHHHHHHHHH
Confidence 366778899999988653
No 117
>PTZ00319 NADH-cytochrome B5 reductase; Provisional
Probab=38.42 E-value=19 Score=25.64 Aligned_cols=12 Identities=33% Similarity=0.570 Sum_probs=9.5
Q ss_pred eeeeEEeCCccC
Q 036777 36 KVGMYVCGVTAY 47 (66)
Q Consensus 36 ~v~~Y~CGPTvY 47 (66)
...+|+|||...
T Consensus 267 ~~~vyiCGp~~m 278 (300)
T PTZ00319 267 KVMALMCGPPPM 278 (300)
T ss_pred CeEEEEECCHHH
Confidence 457999999764
No 118
>PLN03116 ferredoxin--NADP+ reductase; Provisional
Probab=37.71 E-value=18 Score=25.77 Aligned_cols=10 Identities=30% Similarity=0.933 Sum_probs=8.0
Q ss_pred eeeeEEeCCc
Q 036777 36 KVGMYVCGVT 45 (66)
Q Consensus 36 ~v~~Y~CGPT 45 (66)
...+|+|||.
T Consensus 259 ~~~vYiCGp~ 268 (307)
T PLN03116 259 GAHIYFCGLK 268 (307)
T ss_pred CcEEEEeCCH
Confidence 3579999994
No 119
>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=37.53 E-value=2 Score=33.10 Aligned_cols=17 Identities=29% Similarity=0.397 Sum_probs=13.8
Q ss_pred CccCCCCCCCccceEEE
Q 036777 44 VTAYDLSHLGHARAAIS 60 (66)
Q Consensus 44 PTvYd~~HiGhaR~~V~ 60 (66)
|++=.+.||||+|+++.
T Consensus 8 PsPtG~lHiG~~rtal~ 24 (470)
T TIGR00464 8 PSPTGYLHIGGARTALF 24 (470)
T ss_pred CCCCCcccHHHHHHHHH
Confidence 56667899999998764
No 120
>cd06165 Sortase_A_1 Sortase A (SrtA) or subfamily-1 sortases are cysteine transpeptidases found in gram-positive bacteria that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is cleaved at a conserved cell wall sorting signal (usually a pentapeptide motif), and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. This group contains a subset of Class A (subfamily-1) sortases, excluding SrtA from Staphylococcus aureus. Sortase A cleaves between threonine and glycine of the LPXTG motif in a wide range of protein substrates. It affects the ability of a pathogen to establish successful infection. Sortase A contains an N-terminal region that functions as both a signal peptide for secretion and a stop-tra
Probab=37.46 E-value=63 Score=19.99 Aligned_cols=17 Identities=6% Similarity=0.221 Sum_probs=13.0
Q ss_pred eeecC-CCeeeeEEeCCc
Q 036777 29 FTPIV-PGKVGMYVCGVT 45 (66)
Q Consensus 29 f~p~~-~~~v~~Y~CGPT 45 (66)
+.|.. +..+.+.+|.|.
T Consensus 97 ~~~~~~~~~ltLiTC~p~ 114 (127)
T cd06165 97 IDDVPGKKLITLITCDDA 114 (127)
T ss_pred eccCCCCCEEEEEecCCC
Confidence 44444 578999999998
No 121
>cd06195 FNR1 Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second electron to form FADH2 which then transfers two electrons and a proton to NADP+ to form NADPH.
Probab=37.13 E-value=22 Score=23.86 Aligned_cols=12 Identities=17% Similarity=0.443 Sum_probs=9.2
Q ss_pred CeeeeEEeCCcc
Q 036777 35 GKVGMYVCGVTA 46 (66)
Q Consensus 35 ~~v~~Y~CGPTv 46 (66)
....+|+|||.-
T Consensus 200 ~~~~vyiCGp~~ 211 (241)
T cd06195 200 ETSHVMLCGNPQ 211 (241)
T ss_pred ccCEEEEeCCHH
Confidence 345799999974
No 122
>cd06191 FNR_iron_sulfur_binding Iron-sulfur binding Ferredoxin Reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with a C-terminal iron-sulfur binding cluster domain. FNR was intially identified as a chloroplast reductase activity catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport mechanism of photosystem I. FNR transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) and then transfers a hydride ion to convert NADP+ to NADPH. FNR has since been shown to utilize a variety of electron acceptors and donors and has a variety of physiological functions including nitrogen assimilation, dinitrogen fixation, steroid hydroxylation, fatty acid metabolism, oxygenase activity, and methnae assimilation in a variety of organisms. FNR has an NAD(P)-binding sub-domain of the alpha/beta class and a discrete (usually N-terminal) flavin sub-domain which vary in
Probab=36.91 E-value=18 Score=24.00 Aligned_cols=10 Identities=20% Similarity=0.737 Sum_probs=8.4
Q ss_pred eeeEEeCCcc
Q 036777 37 VGMYVCGVTA 46 (66)
Q Consensus 37 v~~Y~CGPTv 46 (66)
..+|+|||..
T Consensus 198 ~~vyicGp~~ 207 (231)
T cd06191 198 REAFICGPAG 207 (231)
T ss_pred CeEEEECCHH
Confidence 5799999975
No 123
>PTZ00437 glutaminyl-tRNA synthetase; Provisional
Probab=36.72 E-value=2.2 Score=34.24 Aligned_cols=26 Identities=23% Similarity=0.333 Sum_probs=19.3
Q ss_pred CCeeeeEEeCCccCCCCCCCccceEEE
Q 036777 34 PGKVGMYVCGVTAYDLSHLGHARAAIS 60 (66)
Q Consensus 34 ~~~v~~Y~CGPTvYd~~HiGhaR~~V~ 60 (66)
+|+| +--..|.+-.+.||||||++++
T Consensus 49 ~gkv-~tRFaPsPtG~LHiGharaall 74 (574)
T PTZ00437 49 GGKP-YFRFPPEPNGFLHIGHAKSMNL 74 (574)
T ss_pred CCcE-EEEeCCCCCCcccHHHHHHHHH
Confidence 3444 3456788889999999998764
No 124
>cd06194 FNR_N-term_Iron_sulfur_binding Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an N-terminal Iron-Sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second e
Probab=36.67 E-value=20 Score=23.62 Aligned_cols=12 Identities=25% Similarity=0.664 Sum_probs=9.2
Q ss_pred CeeeeEEeCCcc
Q 036777 35 GKVGMYVCGVTA 46 (66)
Q Consensus 35 ~~v~~Y~CGPTv 46 (66)
....+|+|||..
T Consensus 186 ~~~~vyicGp~~ 197 (222)
T cd06194 186 RDDVVYLCGAPS 197 (222)
T ss_pred CCCEEEEeCCHH
Confidence 346799999964
No 125
>cd06209 BenDO_FAD_NAD Benzoate dioxygenase reductase (BenDO) FAD/NAD binding domain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. As a Class I bacterial dioxygenases, benzoate dioxygenase like proteins combine an [2Fe-2S] cluster containing N-terminal ferredoxin at the end fused to an FAD/NADP(P) domain. In dioxygenase FAD/NAD(P) binding domain, the reductase transfers 2 electrons from NAD(P)H to the oxygenase which insert into an aromatic substrate, an initial step in microbial aerobic degradation of aromatic rings. Flavin oxidoreductases use flavins as substrates, unlike flavoenzymes which have a flavin prosthetic group.
Probab=36.62 E-value=23 Score=23.47 Aligned_cols=12 Identities=42% Similarity=1.068 Sum_probs=9.1
Q ss_pred CeeeeEEeCCcc
Q 036777 35 GKVGMYVCGVTA 46 (66)
Q Consensus 35 ~~v~~Y~CGPTv 46 (66)
....+|+|||.-
T Consensus 192 ~~~~v~icGp~~ 203 (228)
T cd06209 192 GDVDVYLCGPPP 203 (228)
T ss_pred CCcEEEEeCCHH
Confidence 456799999963
No 126
>PRK05710 glutamyl-Q tRNA(Asp) synthetase; Reviewed
Probab=36.53 E-value=6.1 Score=29.09 Aligned_cols=19 Identities=21% Similarity=0.225 Sum_probs=15.0
Q ss_pred eCCccCCCCCCCccceEEE
Q 036777 42 CGVTAYDLSHLGHARAAIS 60 (66)
Q Consensus 42 CGPTvYd~~HiGhaR~~V~ 60 (66)
.-|++=.+.||||+|+++.
T Consensus 10 FAPSPTG~LHlG~~rtAL~ 28 (299)
T PRK05710 10 FAPSPSGPLHFGSLVAALG 28 (299)
T ss_pred eCcCCCCcccHHHHHHHHH
Confidence 3467778899999998764
No 127
>PRK14703 glutaminyl-tRNA synthetase/YqeY domain fusion protein; Provisional
Probab=36.28 E-value=2.2 Score=35.17 Aligned_cols=19 Identities=21% Similarity=0.354 Sum_probs=15.3
Q ss_pred eCCccCCCCCCCccceEEE
Q 036777 42 CGVTAYDLSHLGHARAAIS 60 (66)
Q Consensus 42 CGPTvYd~~HiGhaR~~V~ 60 (66)
.-|.+-.+.||||||++++
T Consensus 36 FaPsPtG~lHiGhar~all 54 (771)
T PRK14703 36 FPPEPNGYLHIGHAKSILL 54 (771)
T ss_pred eCcCCCCcccHHHHHHHHH
Confidence 4567778999999998764
No 128
>cd06213 oxygenase_e_transfer_subunit The oxygenase reductase FAD/NADH binding domain acts as part of the multi-component bacterial oxygenases which oxidize hydrocarbons. Electron transfer is from NADH via FAD (in the oxygenase reductase) and an [2FE-2S] ferredoxin center (fused to the FAD/NADH domain and/or discrete) to the oxygenase. Dioxygenases add both atoms of oxygen to the substrate while mono-oxygenases add one atom to the substrate and one atom to water. In dioxygenases, Class I enzymes are 2 component, containing a reductase with Rieske type [2Fe-2S] redox centers and an oxygenase. Class II are 3 component, having discrete flavin and ferredoxin proteins and an oxygenase. Class III have 2 [2Fe-2S] centers, one fused to the flavin domain and the other separate.
Probab=36.17 E-value=20 Score=23.75 Aligned_cols=11 Identities=36% Similarity=0.803 Sum_probs=8.6
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
.-.+|+|||..
T Consensus 193 ~~~v~~CGp~~ 203 (227)
T cd06213 193 ATEAYLCGPPA 203 (227)
T ss_pred CCEEEEECCHH
Confidence 35799999964
No 129
>cd06215 FNR_iron_sulfur_binding_1 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal portion of the FAD/NAD binding domain contains most of the NADP(H) binding residues and the N-terminal sub-domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. In this ferredoxin like sub-group, the FAD/NAD sub-domains is typically fused to a C-terminal iron-sulfur binding domain. Iron-sulfur pr
Probab=35.83 E-value=21 Score=23.54 Aligned_cols=10 Identities=30% Similarity=0.813 Sum_probs=8.2
Q ss_pred eeeEEeCCcc
Q 036777 37 VGMYVCGVTA 46 (66)
Q Consensus 37 v~~Y~CGPTv 46 (66)
..+|+|||.-
T Consensus 198 ~~v~icGp~~ 207 (231)
T cd06215 198 RTVFVCGPAG 207 (231)
T ss_pred CeEEEECCHH
Confidence 5799999964
No 130
>cd06166 Sortase_D_5 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved at the cell wall sorting signal and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. Class D sortases are further classified into subfamilies 4 and 5. This group contains a subset of Class D sortases belonging to subfamily-5, represented by Clostridium perfringens CPE2315. Subfamily-5 sortases recognize a nonstandard sorting signal (LAXTG) and have replaced Sortase A in some gram-postive bacteria. They may play a housekeeping role in the cell.
Probab=35.79 E-value=74 Score=19.79 Aligned_cols=18 Identities=6% Similarity=0.252 Sum_probs=13.0
Q ss_pred EEeeecC-CCeeeeEEeCC
Q 036777 27 ELFTPIV-PGKVGMYVCGV 44 (66)
Q Consensus 27 e~f~p~~-~~~v~~Y~CGP 44 (66)
+.+.+.. +..+.+.+|+|
T Consensus 96 ~~~~~~~~~~~LtLiTC~~ 114 (126)
T cd06166 96 DVLNQDKSKKEITLITCTP 114 (126)
T ss_pred eEeccCCCCcEEEEEEcCC
Confidence 3344444 57899999999
No 131
>cd06202 Nitric_oxide_synthase The ferredoxin-reductase (FNR) like C-terminal domain of the nitric oxide synthase (NOS) fuses with a heme-containing N-terminal oxidase domain. The reductase portion is similar in structure to NADPH dependent cytochrome-450 reductase (CYPOR), having an inserted connecting sub-domain within the FAD binding portion of FNR. NOS differs from CYPOR in a requirement for the cofactor tetrahydrobiopterin and unlike most CYPOR is dimeric. Nitric oxide synthase produces nitric oxide in the conversion of L-arginine to L-citruline. NOS has been implicated in a variety of processes including cytotoxicity, anti-inflamation, neurotransmission, and vascular smooth muscle relaxation.
Probab=35.27 E-value=22 Score=26.55 Aligned_cols=11 Identities=36% Similarity=0.676 Sum_probs=8.8
Q ss_pred CeeeeEEeCCc
Q 036777 35 GKVGMYVCGVT 45 (66)
Q Consensus 35 ~~v~~Y~CGPT 45 (66)
+...+|+|||.
T Consensus 349 ~~~~iYvCG~~ 359 (406)
T cd06202 349 EGGHIYVCGDV 359 (406)
T ss_pred CCCEEEEeCCC
Confidence 34679999996
No 132
>cd06185 PDR_like Phthalate dioxygenase reductase (PDR) is an FMN-dependent reductase that mediates electron transfer from NADH to FMN to an iron sulfur cluster. PDR has an an N-terminal ferrredoxin reductase (FNR)-like NAD(H) binding domain and a C-terminal iron-sulfur [2Fe-2S] cluster domain. Although structurally homologous to FNR, PDR binds FMN rather than FAD in it's FNR-like domain. Electron transfer between pyrimidines and iron-sulfur clusters (Rieske center [2Fe-2S]) or heme groups is mediated by flavins in respiration, photosynthesis, and oxygenase systems. Type I dioxygenase systems, including the hydroxylate phthalate system, have 2 components, a monomeric reductase consisting of a flavin and a 2Fe-2S center and a multimeric oxygenase. In contrast to other Rieske dioxygenases the ferredoxin like domain is C-, not N-terminal.
Probab=34.83 E-value=22 Score=23.11 Aligned_cols=11 Identities=36% Similarity=0.818 Sum_probs=8.7
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
...+|+|||..
T Consensus 176 ~~~vyicGp~~ 186 (211)
T cd06185 176 GTHVYVCGPEG 186 (211)
T ss_pred CCEEEEECCHH
Confidence 45799999964
No 133
>cd06217 FNR_iron_sulfur_binding_3 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap between the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second electron to form
Probab=34.70 E-value=22 Score=23.44 Aligned_cols=11 Identities=45% Similarity=0.833 Sum_probs=8.6
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
.-.+|+|||..
T Consensus 201 ~~~v~icGp~~ 211 (235)
T cd06217 201 GRRVYVCGPPA 211 (235)
T ss_pred CCEEEEECCHH
Confidence 35799999964
No 134
>PF13293 DUF4074: Domain of unknown function (DUF4074)
Probab=34.68 E-value=22 Score=21.15 Aligned_cols=15 Identities=33% Similarity=0.662 Sum_probs=12.7
Q ss_pred eCCccCCCCCCCccc
Q 036777 42 CGVTAYDLSHLGHAR 56 (66)
Q Consensus 42 CGPTvYd~~HiGhaR 56 (66)
-||.+|...||.|.-
T Consensus 3 sGpS~fgL~HLph~~ 17 (64)
T PF13293_consen 3 SGPSLFGLNHLPHPS 17 (64)
T ss_pred CCccccccccCCCCc
Confidence 389999999998854
No 135
>cd06210 MMO_FAD_NAD_binding Methane monooxygenase (MMO) reductase of methanotrophs catalyzes the NADH-dependent hydroxylation of methane to methanol. This multicomponent enzyme mediates electron transfer via a hydroxylase (MMOH), a coupling protein, and a reductase which is comprised of an N-terminal [2Fe-2S] ferredoxin domain, an FAD binding subdomain, and an NADH binding subdomain. Oxygenases oxidize hydrocarbons using dioxygen as the oxidant. Dioxygenases add both atom of oxygen to the substrate, while mono-oxygenases add one atom to the substrate and one atom to water.
Probab=34.66 E-value=22 Score=23.59 Aligned_cols=10 Identities=40% Similarity=0.999 Sum_probs=7.8
Q ss_pred eeeeEEeCCc
Q 036777 36 KVGMYVCGVT 45 (66)
Q Consensus 36 ~v~~Y~CGPT 45 (66)
...+|+|||.
T Consensus 201 ~~~vyicGp~ 210 (236)
T cd06210 201 KPDIYLCGPP 210 (236)
T ss_pred CcEEEEeCCH
Confidence 3468999995
No 136
>PRK14895 gltX glutamyl-tRNA synthetase; Provisional
Probab=34.61 E-value=2.5 Score=33.45 Aligned_cols=17 Identities=29% Similarity=0.460 Sum_probs=13.6
Q ss_pred CccCCCCCCCccceEEE
Q 036777 44 VTAYDLSHLGHARAAIS 60 (66)
Q Consensus 44 PTvYd~~HiGhaR~~V~ 60 (66)
|++=.+.||||+|++++
T Consensus 11 PSPTG~lHiG~artAL~ 27 (513)
T PRK14895 11 PSPTGFLHIGSARTALF 27 (513)
T ss_pred CCCCCCccHHHHHHHHH
Confidence 45567899999999764
No 137
>cd06216 FNR_iron_sulfur_binding_2 Iron-sulfur binding ferredoxin reductase (FNR) proteins combine the FAD and NAD(P) binding regions of FNR with an iron-sulfur binding cluster domain. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredoxin to form a flavin semiquinone intermediate. The enzyme then accepts a second electron to for
Probab=34.44 E-value=25 Score=23.57 Aligned_cols=11 Identities=27% Similarity=0.724 Sum_probs=8.8
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
...+|+|||..
T Consensus 210 ~~~vyvcGp~~ 220 (243)
T cd06216 210 DRQVYACGPPG 220 (243)
T ss_pred cCeEEEECCHH
Confidence 46899999964
No 138
>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=34.38 E-value=6.9 Score=28.05 Aligned_cols=18 Identities=28% Similarity=0.412 Sum_probs=14.4
Q ss_pred CCccCCCCCCCccceEEE
Q 036777 43 GVTAYDLSHLGHARAAIS 60 (66)
Q Consensus 43 GPTvYd~~HiGhaR~~V~ 60 (66)
-|++=.+.||||+|+++.
T Consensus 7 APsPtG~lHlG~~~~al~ 24 (238)
T cd00807 7 PPEPNGYLHIGHAKAILL 24 (238)
T ss_pred CCCCCCcccHHHHHHHHH
Confidence 367778899999998764
No 139
>cd06201 SiR_like2 Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ gene) are of the cytochrome p450 (CyPor) family having FAD and FMN as prosthetic groups and utilizing NADPH. Cypor (including cyt -450 reductase, nitric oxide synthase, and methionine synthase reductase) are ferredoxin reductase (FNR)-like proteins with an additional N-terminal FMN domain and a connecting sub-domain inserted within the flavin binding portion of the FNR-like domain. The connecting domain orients the N-terminal FMN domain with the C-terminal FNR domain. NADPH cytochrome p450 reductase (CYPOR) serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine synthase reductases. CYPOR transfers two electrons from NADPH to the heme of cytochrome p450 via F
Probab=34.26 E-value=21 Score=25.24 Aligned_cols=10 Identities=40% Similarity=0.803 Sum_probs=8.1
Q ss_pred eeeEEeCCcc
Q 036777 37 VGMYVCGVTA 46 (66)
Q Consensus 37 v~~Y~CGPTv 46 (66)
..+|+|||..
T Consensus 246 ~~vyiCGp~~ 255 (289)
T cd06201 246 AQIMVCGSRA 255 (289)
T ss_pred cEEEEECCHH
Confidence 4699999964
No 140
>PRK01406 gltX glutamyl-tRNA synthetase; Reviewed
Probab=34.21 E-value=2.5 Score=32.68 Aligned_cols=17 Identities=29% Similarity=0.397 Sum_probs=13.2
Q ss_pred CccCCCCCCCccceEEE
Q 036777 44 VTAYDLSHLGHARAAIS 60 (66)
Q Consensus 44 PTvYd~~HiGhaR~~V~ 60 (66)
|++=.+.||||+|++++
T Consensus 11 PSPtG~lHiG~~rtal~ 27 (476)
T PRK01406 11 PSPTGYLHIGGARTALF 27 (476)
T ss_pred CCCCCcccHHHHHHHHH
Confidence 45557899999998764
No 141
>PF02675 AdoMet_dc: S-adenosylmethionine decarboxylase ; InterPro: IPR003826 Polyamines such as spermidine and spermine are essential for cellular growth under most conditions, being implicated in a large number of cellular processes including DNA, RNA and protein synthesis. S-adenosylmethionine decarboxylase (AdoMetDC) plays an essential regulatory role in the polyamine biosynthetic pathway by generating the n-propylamine residue required for the synthesis of spermidine and spermine from putrescein [, ]. Unlike many amino acid decarboxylases AdoMetDC uses a covalently bound pyruvate residue as a cofactor rather than the more common pyridoxal 5'-phosphate. These proteins can be divided into two main groups which show little sequence similarity either to each other, or to other pyruvoyl-dependent amino acid decarboxylases: class I enzymes found in bacteria and archaea, and class II enzymes found in eukaryotes. In both groups the active enzyme is generated by the post-translational autocatalytic cleavage of a precursor protein. This cleavage generates the pyruvate precursor from an internal serine residue and results in the formation of two non-identical subunits termed alpha and beta which form the active enzyme. Members of this family are related to the amino terminus of Escherichia coli S-adenosylmethionine decarboxylase.; GO: 0004014 adenosylmethionine decarboxylase activity, 0008295 spermidine biosynthetic process; PDB: 1VR7_A 3IWC_D 3IWD_D 3IWB_C 1TMI_A 1TLU_A 2III_A.
Probab=34.14 E-value=27 Score=21.36 Aligned_cols=9 Identities=33% Similarity=0.995 Sum_probs=8.0
Q ss_pred eeeeEEeCC
Q 036777 36 KVGMYVCGV 44 (66)
Q Consensus 36 ~v~~Y~CGP 44 (66)
.+++|+||+
T Consensus 71 avDiftC~~ 79 (106)
T PF02675_consen 71 AVDIFTCGE 79 (106)
T ss_dssp EEEEEEEST
T ss_pred EEEEEEcCC
Confidence 489999998
No 142
>cd06184 flavohem_like_fad_nad_binding FAD_NAD(P)H binding domain of flavohemoglobin. Flavohemoglobins have a globin domain containing a B-type heme fused with a ferredoxin reductase-like FAD/NAD-binding domain. Flavohemoglobins detoxify nitric oxide (NO) via an NO dioxygenase reaction. The hemoglobin domain adopts a globin fold with an embedded heme molecule. Flavohemoglobins also have a C-terminal reductase domain with bindiing sites for FAD and NAD(P)H. This domain catalyzes the conversion of NO + O2 + NAD(P)H to NO3- + NAD(P)+. Instead of the oxygen transport function of hemoglobins, flavohemoglobins seem to act in NO dioxygenation and NO signalling.
Probab=34.05 E-value=27 Score=23.42 Aligned_cols=12 Identities=25% Similarity=0.805 Sum_probs=9.3
Q ss_pred CeeeeEEeCCcc
Q 036777 35 GKVGMYVCGVTA 46 (66)
Q Consensus 35 ~~v~~Y~CGPTv 46 (66)
....+|+|||..
T Consensus 208 ~~~~v~icGp~~ 219 (247)
T cd06184 208 ADADFYLCGPVP 219 (247)
T ss_pred CCCEEEEECCHH
Confidence 457899999963
No 143
>cd05829 Sortase_E Sortase E (SrtE) is a membrane transpeptidase found in gram-positive bacteria that cleaves surface proteins at a cell sorting motif and catalyzes a transpeptidation reaction in which the surface protein substrate is covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. The function of Sortase E is unknown. In two different sortase families, the N-terminus either functions as both a signal peptide for secretion and a stop-transfer signal for membrane anchoring, or it contains a signal peptide only and the C-terminus serves as a membrane anchor. Most gram-positive bacteria contain more than one sortase and it is thought that the different sortases anchor different surface protein classes. The sortase domain is a modified beta-barrel flanked by two (SrtA) or three (SrtB) short alpha-helices.
Probab=33.21 E-value=96 Score=19.92 Aligned_cols=32 Identities=9% Similarity=0.188 Sum_probs=21.2
Q ss_pred eeecCCCeeeeEEeCCccCCCCCCCccceEEEE
Q 036777 29 FTPIVPGKVGMYVCGVTAYDLSHLGHARAAISF 61 (66)
Q Consensus 29 f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~ 61 (66)
|.+..+..+.+.+|.|..-. ..-+...++|++
T Consensus 110 ~~~~~~~~LtLiTC~~~~~~-~~~~~~~r~vv~ 141 (144)
T cd05829 110 YGDTGPPRLRLITCGGPFDR-RAGHYDDNVVVY 141 (144)
T ss_pred ecCCCCCEEEEEEeCCCCCC-cCCcccccEEEE
Confidence 33445678999999976443 344566677664
No 144
>cd06183 cyt_b5_reduct_like Cytochrome b5 reductase catalyzes the reduction of 2 molecules of cytochrome b5 using NADH as an electron donor. Like ferredoxin reductases, these proteins have an N-terminal FAD binding subdomain and a C-terminal NADH binding subdomain, separated by a cleft, which accepts FAD. The NADH-binding moiety interacts with part of the FAD and resembles a Rossmann fold. However, NAD is bound differently than in canonical Rossmann fold proteins. Nitrate reductases, flavoproteins similar to pyridine nucleotide cytochrome reductases, catalyze the reduction of nitrate to nitrite. The enzyme can be divided into three functional fragments that bind the cofactors molybdopterin, heme-iron, and FAD/NADH.
Probab=32.37 E-value=31 Score=22.65 Aligned_cols=13 Identities=23% Similarity=0.432 Sum_probs=9.9
Q ss_pred CeeeeEEeCCccC
Q 036777 35 GKVGMYVCGVTAY 47 (66)
Q Consensus 35 ~~v~~Y~CGPTvY 47 (66)
+...+|+|||...
T Consensus 200 ~~~~~~icGp~~~ 212 (234)
T cd06183 200 EDTLVLVCGPPPM 212 (234)
T ss_pred CCeEEEEECCHHH
Confidence 4567999999754
No 145
>cd06214 PA_degradation_oxidoreductase_like NAD(P) binding domain of ferredoxin reductase like phenylacetic acid (PA) degradation oxidoreductase. PA oxidoreductases of E. coli hydroxylate PA-CoA in the second step of PA degradation. Members of this group typically fuse a ferredoxin reductase-like domain with an iron-sulfur binding cluster domain. Ferredoxins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which vary in orientation with respect to the NAD(P) binding domain. The N-terminal portion may contain a flavin prosthetic group, as in flavoenzymes, or use flavin as a substrate. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and
Probab=32.28 E-value=29 Score=23.04 Aligned_cols=11 Identities=18% Similarity=0.477 Sum_probs=8.7
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
...+|+|||-.
T Consensus 206 ~~~v~icGp~~ 216 (241)
T cd06214 206 FDEAFLCGPEP 216 (241)
T ss_pred CcEEEEECCHH
Confidence 46799999953
No 146
>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=31.88 E-value=1.7 Score=32.96 Aligned_cols=30 Identities=17% Similarity=0.391 Sum_probs=18.4
Q ss_pred eeeeEEeCCccCCCCCCCccceEEEEEeee
Q 036777 36 KVGMYVCGVTAYDLSHLGHARAAISFYILY 65 (66)
Q Consensus 36 ~v~~Y~CGPTvYd~~HiGhaR~~V~~Dvl~ 65 (66)
..-+..+|.|+=..+||||+|-.+..|+++
T Consensus 23 ~~~v~~sG~sPSG~~HIGn~rEv~~~~~V~ 52 (360)
T PF01921_consen 23 EPYVFASGISPSGLPHIGNFREVLRADMVA 52 (360)
T ss_dssp SEEEEEEEE--SS---HHHHHHHHHHHHHH
T ss_pred ccEEEecCCCCCCCcccccccchhhHHHHH
Confidence 455678899999999999999766555543
No 147
>PRK05713 hypothetical protein; Provisional
Probab=31.71 E-value=28 Score=24.70 Aligned_cols=13 Identities=23% Similarity=0.406 Sum_probs=9.8
Q ss_pred CeeeeEEeCCccC
Q 036777 35 GKVGMYVCGVTAY 47 (66)
Q Consensus 35 ~~v~~Y~CGPTvY 47 (66)
+...+|+|||...
T Consensus 273 ~~~~vyiCGp~~m 285 (312)
T PRK05713 273 RQTMALLCGSPAS 285 (312)
T ss_pred CCeEEEEeCCHHH
Confidence 3467999999754
No 148
>cd06207 CyPoR_like NADPH cytochrome p450 reductase (CYPOR) serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine synthase reductases. CYPOR transfers two electrons from NADPH to the heme of cytochrome p450 via FAD and FMN. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced fe
Probab=31.36 E-value=28 Score=25.59 Aligned_cols=12 Identities=50% Similarity=0.814 Sum_probs=9.1
Q ss_pred CeeeeEEeCCcc
Q 036777 35 GKVGMYVCGVTA 46 (66)
Q Consensus 35 ~~v~~Y~CGPTv 46 (66)
+...+|+|||..
T Consensus 328 ~~~~vYvCG~~~ 339 (382)
T cd06207 328 GAGVIYVCGSTW 339 (382)
T ss_pred CCCEEEEECCcc
Confidence 334799999975
No 149
>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=31.04 E-value=17 Score=21.76 Aligned_cols=13 Identities=31% Similarity=0.509 Sum_probs=10.1
Q ss_pred CCccCCCCCCCccc
Q 036777 43 GVTAYDLSHLGHAR 56 (66)
Q Consensus 43 GPTvYd~~HiGhaR 56 (66)
|.+. |..|+||..
T Consensus 5 ~G~F-dp~H~GH~~ 17 (105)
T cd02156 5 PGEP-GYLHIGHAK 17 (105)
T ss_pred CCCC-CCCCHHHHH
Confidence 4555 999999964
No 150
>PLN02627 glutamyl-tRNA synthetase
Probab=30.78 E-value=3.1 Score=33.08 Aligned_cols=17 Identities=29% Similarity=0.319 Sum_probs=13.8
Q ss_pred CccCCCCCCCccceEEE
Q 036777 44 VTAYDLSHLGHARAAIS 60 (66)
Q Consensus 44 PTvYd~~HiGhaR~~V~ 60 (66)
|++=.+.||||+|++++
T Consensus 52 PSPTG~LHiG~aRtAL~ 68 (535)
T PLN02627 52 PSPTGNLHVGGARTALF 68 (535)
T ss_pred CCCCCCccHHHHHHHHH
Confidence 56668899999999764
No 151
>cd06199 SiR Cytochrome p450- like alpha subunits of E. coli sulfite reductase (SiR) multimerize with beta subunits to catalyze the NADPH dependent reduction of sulfite to sulfide. Beta subunits have an Fe4S4 cluster and a siroheme, while the alpha subunits (cysJ gene) are of the cytochrome p450 (CyPor) family having FAD and FMN as prosthetic groups and utilizing NADPH. Cypor (including cyt -450 reductase, nitric oxide synthase, and methionine synthase reductase) are ferredoxin reductase (FNR)-like proteins with an additional N-terminal FMN domain and a connecting sub-domain inserted within the flavin binding portion of the FNR-like domain. The connecting domain orients the N-terminal FMN domain with the C-terminal FNR domain.
Probab=30.46 E-value=27 Score=25.56 Aligned_cols=9 Identities=44% Similarity=1.010 Sum_probs=7.8
Q ss_pred eeeEEeCCc
Q 036777 37 VGMYVCGVT 45 (66)
Q Consensus 37 v~~Y~CGPT 45 (66)
..+|+|||.
T Consensus 308 ~~vYvCG~~ 316 (360)
T cd06199 308 AHFYVCGDA 316 (360)
T ss_pred CEEEEECCC
Confidence 569999996
No 152
>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=30.41 E-value=15 Score=19.73 Aligned_cols=12 Identities=42% Similarity=0.703 Sum_probs=9.7
Q ss_pred ccCCCCCCCccc
Q 036777 45 TAYDLSHLGHAR 56 (66)
Q Consensus 45 TvYd~~HiGhaR 56 (66)
.-+|..|.||..
T Consensus 6 G~Fdp~H~GH~~ 17 (66)
T TIGR00125 6 GTFDPFHLGHLD 17 (66)
T ss_pred CccCCCCHHHHH
Confidence 458999999965
No 153
>KOG0436 consensus Methionyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=30.29 E-value=3.3 Score=33.14 Aligned_cols=21 Identities=19% Similarity=0.226 Sum_probs=17.8
Q ss_pred cCCCCCCCccceEEEEEeeeC
Q 036777 46 AYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 46 vYd~~HiGhaR~~V~~Dvl~R 66 (66)
|-..+||||+-+.+..|.+.|
T Consensus 50 vNAaPHlGhlYS~llaDai~R 70 (578)
T KOG0436|consen 50 VNAAPHLGHLYSTLLADAIAR 70 (578)
T ss_pred cCCCcchhHHHHHHHHHHHHH
Confidence 457899999999999998876
No 154
>PLN02859 glutamine-tRNA ligase
Probab=30.14 E-value=9.9 Score=31.74 Aligned_cols=20 Identities=25% Similarity=0.315 Sum_probs=15.7
Q ss_pred EeCCccCCCCCCCccceEEE
Q 036777 41 VCGVTAYDLSHLGHARAAIS 60 (66)
Q Consensus 41 ~CGPTvYd~~HiGhaR~~V~ 60 (66)
---|.+-.+.||||||+.++
T Consensus 268 RFaPsPtG~LHiGharaall 287 (788)
T PLN02859 268 RFPPEPNGYLHIGHAKAMFV 287 (788)
T ss_pred EeCCCCCCcccHHHHHHHHH
Confidence 44577778899999998764
No 155
>PRK05464 Na(+)-translocating NADH-quinone reductase subunit F; Provisional
Probab=29.71 E-value=35 Score=25.33 Aligned_cols=12 Identities=25% Similarity=0.661 Sum_probs=9.2
Q ss_pred CeeeeEEeCCcc
Q 036777 35 GKVGMYVCGVTA 46 (66)
Q Consensus 35 ~~v~~Y~CGPTv 46 (66)
....+|+|||..
T Consensus 372 ~~~~vyiCGP~~ 383 (409)
T PRK05464 372 EDCEYYMCGPPM 383 (409)
T ss_pred CCeEEEEECCHH
Confidence 346799999974
No 156
>PRK06222 ferredoxin-NADP(+) reductase subunit alpha; Reviewed
Probab=29.44 E-value=28 Score=24.42 Aligned_cols=10 Identities=10% Similarity=0.079 Sum_probs=8.0
Q ss_pred eeEEeCCccC
Q 036777 38 GMYVCGVTAY 47 (66)
Q Consensus 38 ~~Y~CGPTvY 47 (66)
.+|+|||...
T Consensus 183 ~vy~CGP~~M 192 (281)
T PRK06222 183 RVVAIGPVIM 192 (281)
T ss_pred EEEEECCHHH
Confidence 5899999743
No 157
>PRK13289 bifunctional nitric oxide dioxygenase/dihydropteridine reductase 2; Provisional
Probab=29.23 E-value=30 Score=25.08 Aligned_cols=11 Identities=27% Similarity=0.812 Sum_probs=8.9
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
...+|+|||..
T Consensus 358 ~~~vyiCGp~~ 368 (399)
T PRK13289 358 DADFYFCGPVP 368 (399)
T ss_pred CCEEEEECCHH
Confidence 46799999974
No 158
>KOG3378 consensus Globins and related hemoproteins [Energy production and conversion]
Probab=29.11 E-value=4.7 Score=30.73 Aligned_cols=27 Identities=11% Similarity=0.090 Sum_probs=18.6
Q ss_pred EeeecCCCeeeeEEeCCccCCCCCCCc
Q 036777 28 LFTPIVPGKVGMYVCGVTAYDLSHLGH 54 (66)
Q Consensus 28 ~f~p~~~~~v~~Y~CGPTvYd~~HiGh 54 (66)
.++-.++...++|.|||.-|-..-+||
T Consensus 338 ~L~~~~~s~~DiY~~G~~~~M~~~~~~ 364 (385)
T KOG3378|consen 338 DLEKLDLSECDIYMLGPNNYMRFVKQE 364 (385)
T ss_pred HhhhcChhhCceeeeCcHHHHHHHHHH
Confidence 344456778999999998775544433
No 159
>PHA02451 hypothetical protein
Probab=29.06 E-value=22 Score=20.50 Aligned_cols=10 Identities=10% Similarity=-0.114 Sum_probs=7.3
Q ss_pred eEEeCCccCC
Q 036777 39 MYVCGVTAYD 48 (66)
Q Consensus 39 ~Y~CGPTvYd 48 (66)
=.+||||+--
T Consensus 20 dCvCgP~~e~ 29 (54)
T PHA02451 20 DCPCDPELEL 29 (54)
T ss_pred CcccCCccee
Confidence 3589999753
No 160
>PTZ00274 cytochrome b5 reductase; Provisional
Probab=28.81 E-value=31 Score=25.27 Aligned_cols=11 Identities=18% Similarity=0.425 Sum_probs=8.7
Q ss_pred eeeEEeCCccC
Q 036777 37 VGMYVCGVTAY 47 (66)
Q Consensus 37 v~~Y~CGPTvY 47 (66)
-.+|+|||...
T Consensus 264 ~~vylCGPp~M 274 (325)
T PTZ00274 264 KIIMLCGPDQL 274 (325)
T ss_pred cEEEEeCCHHH
Confidence 46899999754
No 161
>TIGR01941 nqrF NADH:ubiquinone oxidoreductase, Na(+)-translocating, F subunit. This model represents the NqrF subunit of the six-protein, Na(+)-pumping NADH-quinone reductase of a number of marine and pathogenic Gram-negative bacteria. This oxidoreductase complex functions primarily as a sodium ion pump.
Probab=28.65 E-value=37 Score=25.14 Aligned_cols=11 Identities=27% Similarity=0.800 Sum_probs=8.8
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
...+|+|||..
T Consensus 369 ~~~vylCGP~~ 379 (405)
T TIGR01941 369 DCEFYMCGPPM 379 (405)
T ss_pred CeEEEEeCCHH
Confidence 45799999974
No 162
>PRK10684 HCP oxidoreductase, NADH-dependent; Provisional
Probab=28.13 E-value=33 Score=24.53 Aligned_cols=11 Identities=27% Similarity=0.706 Sum_probs=8.6
Q ss_pred eeeEEeCCccC
Q 036777 37 VGMYVCGVTAY 47 (66)
Q Consensus 37 v~~Y~CGPTvY 47 (66)
-.+|+|||...
T Consensus 204 ~~vyiCGP~~m 214 (332)
T PRK10684 204 RTVMTCGPAPY 214 (332)
T ss_pred CEEEEECCHHH
Confidence 46899999753
No 163
>cd06206 bifunctional_CYPOR These bifunctional proteins fuse N-terminal cytochrome p450 with a cytochrome p450 reductase (CYPOR). NADPH cytochrome p450 reductase serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine synthase reductases. CYPOR transfers two electrons from NADPH to the heme of cytochrome p450 via FAD and FMN. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a la
Probab=28.07 E-value=31 Score=25.36 Aligned_cols=11 Identities=36% Similarity=0.736 Sum_probs=8.7
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
...+|+|||..
T Consensus 328 ~~~vyiCGp~~ 338 (384)
T cd06206 328 GARVYVCGDGR 338 (384)
T ss_pred CcEEEEECCCc
Confidence 35699999974
No 164
>cd06204 CYPOR NADPH cytochrome p450 reductase (CYPOR) serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine synthase reductases. CYPOR transfers two electrons from NADPH to the heme of cytochrome p450 via FAD and FMN. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme that catalyzes the reversible electron transfer between NADP(H) and electron carrier proteins such as ferredoxin and flavodoxin. Isoforms of these flavoproteins (i.e. having a non-covalently bound FAD as a prosthetic group) are present in chloroplasts, mitochondria, and bacteria in which they participate in a wide variety of redox metabolic pathways. The C-terminal domain contains most of the NADP(H) binding residues and the N-terminal domain interacts non-covalently with the isoalloxazine rings of the flavin molecule which lies largely in a large gap betweed the two domains. Ferredoxin-NADP+ reductase first accepts one electron from reduced ferredo
Probab=28.07 E-value=33 Score=25.67 Aligned_cols=10 Identities=40% Similarity=0.840 Sum_probs=8.3
Q ss_pred eeeEEeCCcc
Q 036777 37 VGMYVCGVTA 46 (66)
Q Consensus 37 v~~Y~CGPTv 46 (66)
..+|+|||..
T Consensus 364 ~~vYvCGp~~ 373 (416)
T cd06204 364 AYIYVCGDAK 373 (416)
T ss_pred CEEEEECCcc
Confidence 5699999975
No 165
>cd06203 methionine_synthase_red Human methionine synthase reductase (MSR) restores methionine sythase which is responsible for the regeneration of methionine from homocysteine, as well as the coversion of methyltetrahydrofolate to tetrahydrofolate. In MSR, electrons are transferred from NADPH to FAD to FMN to cob(II)alamin. MSR resembles proteins of the cytochrome p450 family including nitric oxide synthase, the alpha subunit of sulfite reductase, but contains an extended hinge region. NADPH cytochrome p450 reductase (CYPOR) serves as an electron donor in several oxygenase systems and is a component of nitric oxide synthases and methionine synthase reductases. CYPOR transfers two electrons from NADPH to the heme of cytochrome p450 via FAD and FMN. CYPORs resemble ferredoxin reductase (FNR) but have a connecting subdomain inserted within the flavin binding region, which helps orient the FMN binding doamin with the FNR module. Ferredoxin-NADP+ (oxido)reductase is an FAD-containing enzyme
Probab=27.91 E-value=35 Score=25.38 Aligned_cols=10 Identities=40% Similarity=0.976 Sum_probs=8.0
Q ss_pred eeeeEEeCCc
Q 036777 36 KVGMYVCGVT 45 (66)
Q Consensus 36 ~v~~Y~CGPT 45 (66)
...+|+|||.
T Consensus 345 ~~~iYvCG~~ 354 (398)
T cd06203 345 NAKIYVCGDA 354 (398)
T ss_pred CcEEEEECCc
Confidence 4679999984
No 166
>TIGR02160 PA_CoA_Oxy5 phenylacetate-CoA oxygenase/reductase, PaaK subunit. Phenylacetate-CoA oxygenase is comprised of a five gene complex responsible for the hydroxylation of phenylacetate-CoA (PA-CoA) as the second catabolic step in phenylacetic acid (PA) degradation. Although the exact function of this enzyme has not been determined, it has been shown to be required for phenylacetic acid degradation and has been proposed to function in a multicomponent oxygenase acting on phenylacetate-CoA.
Probab=27.90 E-value=33 Score=24.54 Aligned_cols=11 Identities=27% Similarity=0.628 Sum_probs=8.6
Q ss_pred eeeEEeCCccC
Q 036777 37 VGMYVCGVTAY 47 (66)
Q Consensus 37 v~~Y~CGPTvY 47 (66)
-.+|+|||...
T Consensus 208 ~~vyiCGp~~m 218 (352)
T TIGR02160 208 DEWFLCGPQAM 218 (352)
T ss_pred CEEEEECCHHH
Confidence 46899999753
No 167
>cd06219 DHOD_e_trans_like1 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to orotate coupled with the reduction of NAD+. In L. lactis, DHOD B (encoded by pyrDa) is co-expressed with pyrK and both gene products are required for full activity, as well as NAD binding. NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which vary in orientation with respect to the NAD(P) binding domain. The N-terminal domain may contain a flavin prosthetic group, as in flavoenzymes, or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD,
Probab=27.88 E-value=34 Score=23.35 Aligned_cols=10 Identities=10% Similarity=-0.017 Sum_probs=8.0
Q ss_pred eeEEeCCccC
Q 036777 38 GMYVCGVTAY 47 (66)
Q Consensus 38 ~~Y~CGPTvY 47 (66)
.+|+|||...
T Consensus 182 ~vyiCGP~~m 191 (248)
T cd06219 182 LVIAIGPPIM 191 (248)
T ss_pred EEEEECCHHH
Confidence 5899999743
No 168
>TIGR03784 marine_sortase sortase, marine proteobacterial type. Members of this protein family are sortase enzymes, cysteine transpeptidases involved in protein sorting activities. Members of this family tend to be found in proteobacteria, rather than in Gram-positive bacteria where sortases attach proteins to the Gram-positive cell wall or participate in pilin cross-linking. Many species with this sortase appear to contain a signal target sequence, a protein with a Vault protein inter-alpha-trypsin domain (pfam08487) and a von Willebrand factor type A domain (pfam00092), encoded by an adjacent gene. These sortases are designated subfamily 6 according to Comfort and Clubb (2004).
Probab=27.73 E-value=1.3e+02 Score=20.27 Aligned_cols=29 Identities=14% Similarity=0.182 Sum_probs=19.0
Q ss_pred eecCCCeeeeEEeCCccCCCCCCCccceEEE
Q 036777 30 TPIVPGKVGMYVCGVTAYDLSHLGHARAAIS 60 (66)
Q Consensus 30 ~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~ 60 (66)
.+.++..+.+.+|.| +|..--+.-.+||+
T Consensus 144 ~~~~~~~LtLiTC~P--f~~~~~~~~~R~vV 172 (174)
T TIGR03784 144 LPADDSQLVLITCYP--FDALGSGGPLRYVV 172 (174)
T ss_pred cCCCCCEEEEEeCCC--CCCCCCCCCcEEEE
Confidence 344456899999997 55543455566665
No 169
>PLN03115 ferredoxin--NADP(+) reductase; Provisional
Probab=27.66 E-value=38 Score=25.39 Aligned_cols=11 Identities=27% Similarity=0.845 Sum_probs=8.7
Q ss_pred CeeeeEEeCCc
Q 036777 35 GKVGMYVCGVT 45 (66)
Q Consensus 35 ~~v~~Y~CGPT 45 (66)
+...+|+|||.
T Consensus 318 ~~~~vYiCGp~ 328 (367)
T PLN03115 318 DNTYVYMCGLK 328 (367)
T ss_pred CCeEEEEeCCH
Confidence 34679999996
No 170
>COG1586 SpeD S-adenosylmethionine decarboxylase [Amino acid transport and metabolism]
Probab=27.25 E-value=31 Score=23.16 Aligned_cols=10 Identities=30% Similarity=0.919 Sum_probs=8.4
Q ss_pred eeeeEEeCCc
Q 036777 36 KVGMYVCGVT 45 (66)
Q Consensus 36 ~v~~Y~CGPT 45 (66)
.+++|+||..
T Consensus 87 ~iDVyTCG~~ 96 (136)
T COG1586 87 TIDVYTCGDH 96 (136)
T ss_pred EEEEEccCCC
Confidence 5899999983
No 171
>PRK00054 dihydroorotate dehydrogenase electron transfer subunit; Reviewed
Probab=27.05 E-value=35 Score=23.23 Aligned_cols=9 Identities=33% Similarity=0.933 Sum_probs=7.6
Q ss_pred eeEEeCCcc
Q 036777 38 GMYVCGVTA 46 (66)
Q Consensus 38 ~~Y~CGPTv 46 (66)
.+|+|||..
T Consensus 183 ~vyvCGp~~ 191 (250)
T PRK00054 183 AIYSCGPEI 191 (250)
T ss_pred EEEEeCCHH
Confidence 689999964
No 172
>cd00004 Sortase Sortases are cysteine transpeptidases, found in gram-positive bacteria, that anchor surface proteins to peptidoglycans of the bacterial cell wall envelope. They do so by catalyzing a transpeptidation reaction in which the surface protein substrate is cleaved at a conserved cell wall sorting signal and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. The different classes are called Sortase A or SrtA (subfamily 1), B or SrtB (subfamily 2), C or SrtC (subfamily3), D or SrtD (subfamilies 4 and 5), and E or SrtE. In two different sortase subfamilies, the N-terminus either functions as both a signal peptide for secretion and a stop-transfer signal for membrane anchoring, or it contains a signal peptide only and the C-terminus serves as a membrane anchor. Most gram-positive bacteria contain more than one s
Probab=26.56 E-value=1.4e+02 Score=18.24 Aligned_cols=16 Identities=13% Similarity=0.229 Sum_probs=12.4
Q ss_pred eecCCCeeeeEEeCCc
Q 036777 30 TPIVPGKVGMYVCGVT 45 (66)
Q Consensus 30 ~p~~~~~v~~Y~CGPT 45 (66)
.+..+..+.+.+|+|.
T Consensus 100 ~~~~~~~LtLiTC~~~ 115 (128)
T cd00004 100 PPTGDPILTLITCTPP 115 (128)
T ss_pred cCCCCCEEEEEEcCCC
Confidence 3444578999999987
No 173
>cd06218 DHOD_e_trans FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to orotate coupled with the reduction of NAD+. In L. lactis, DHOD B (encoded by pyrDa) is co-expressed with pyrK and both gene products are required for full activity, as well as 3 cofactors: FMN, FAD, and an [2Fe-2S] cluster.
Probab=26.46 E-value=37 Score=23.18 Aligned_cols=11 Identities=27% Similarity=0.582 Sum_probs=8.8
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
...+|+|||.-
T Consensus 180 ~~~vyiCGp~~ 190 (246)
T cd06218 180 PDVVYACGPEP 190 (246)
T ss_pred CCEEEEECCHH
Confidence 46899999964
No 174
>cd06221 sulfite_reductase_like Anaerobic sulfite reductase contains an FAD and NADPH binding module with structural similarity to ferredoxin reductase and sequence similarity to dihydroorotate dehydrogenases. Clostridium pasteurianum inducible dissimilatory type sulfite reductase is linked to ferredoxin and reduces NH2OH and SeO3 at a lesser rate than it's normal substate SO3(2-). Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to orotate coupled with the reduction of NAD+.
Probab=26.19 E-value=35 Score=23.40 Aligned_cols=11 Identities=27% Similarity=0.459 Sum_probs=8.6
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
...+|+|||.-
T Consensus 190 ~~~vyicGp~~ 200 (253)
T cd06221 190 NTVAIVCGPPI 200 (253)
T ss_pred CcEEEEECCHH
Confidence 45699999964
No 175
>cd06220 DHOD_e_trans_like2 FAD/NAD binding domain in the electron transfer subunit of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to orotate coupled with the reduction of NAD+. In L. lactis, DHOD B (encoded by pyrDa) is co-expressed with pyrK and both gene products are required for full activity, as well as 3 cofactors: FMN, FAD, and an [2Fe-2S] cluster.
Probab=26.13 E-value=38 Score=22.75 Aligned_cols=10 Identities=40% Similarity=0.889 Sum_probs=7.9
Q ss_pred eeeEEeCCcc
Q 036777 37 VGMYVCGVTA 46 (66)
Q Consensus 37 v~~Y~CGPTv 46 (66)
-.+|+|||.-
T Consensus 168 ~~vyicGp~~ 177 (233)
T cd06220 168 DAIYVCGPEI 177 (233)
T ss_pred CEEEEECCHH
Confidence 3689999964
No 176
>PRK08345 cytochrome-c3 hydrogenase subunit gamma; Provisional
Probab=25.79 E-value=42 Score=23.63 Aligned_cols=12 Identities=17% Similarity=0.371 Sum_probs=9.0
Q ss_pred eeeeEEeCCccC
Q 036777 36 KVGMYVCGVTAY 47 (66)
Q Consensus 36 ~v~~Y~CGPTvY 47 (66)
...+|+|||...
T Consensus 212 ~~~vyiCGP~~m 223 (289)
T PRK08345 212 NTYAAICGPPVM 223 (289)
T ss_pred ccEEEEECCHHH
Confidence 346999999743
No 177
>KOG0433 consensus Isoleucyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=25.68 E-value=4.3 Score=34.27 Aligned_cols=21 Identities=38% Similarity=0.305 Sum_probs=18.4
Q ss_pred cCCCCCCCccceEEEEEeeeC
Q 036777 46 AYDLSHLGHARAAISFYILYS 66 (66)
Q Consensus 46 vYd~~HiGhaR~~V~~Dvl~R 66 (66)
.-...|||||+..|.+|++.|
T Consensus 66 anG~lhlghalnkILkdIinr 86 (937)
T KOG0433|consen 66 ANGNLHLGHALNKILKDIINR 86 (937)
T ss_pred cCCCccchHHHHHHHHHHHHH
Confidence 667899999999999998765
No 178
>PRK07609 CDP-6-deoxy-delta-3,4-glucoseen reductase; Validated
Probab=25.54 E-value=39 Score=24.04 Aligned_cols=11 Identities=27% Similarity=0.688 Sum_probs=8.7
Q ss_pred eeeeEEeCCcc
Q 036777 36 KVGMYVCGVTA 46 (66)
Q Consensus 36 ~v~~Y~CGPTv 46 (66)
...+|+|||..
T Consensus 298 ~~~vy~CGp~~ 308 (339)
T PRK07609 298 GHQVYACGSPV 308 (339)
T ss_pred CCEEEEECCHH
Confidence 35799999964
No 179
>PRK11872 antC anthranilate dioxygenase reductase; Provisional
Probab=25.37 E-value=39 Score=24.39 Aligned_cols=10 Identities=40% Similarity=1.026 Sum_probs=8.0
Q ss_pred eeeEEeCCcc
Q 036777 37 VGMYVCGVTA 46 (66)
Q Consensus 37 v~~Y~CGPTv 46 (66)
..+|+|||.-
T Consensus 302 ~~vy~CGp~~ 311 (340)
T PRK11872 302 FDMYLCGPPP 311 (340)
T ss_pred CEEEEeCCHH
Confidence 4699999963
No 180
>cd06192 DHOD_e_trans_like FAD/NAD binding domain (electron transfer subunit) of dihydroorotate dehydrogenase-like proteins. Dihydroorotate dehydrogenases (DHODs) catalyze the only redox reaction in pyrimidine de novo biosynthesis. They catalyze the oxidation of (S)-dihydroorotate to orotate coupled with the reduction of NAD+. In L. lactis, DHOD B (encoded by pyrDa) is co-expressed with pyrK and both gene products are required for full activity, as well as NAD binding. NAD(P) binding domain of ferredoxin reductase-like proteins catalyze electron transfer between an NAD(P)-binding domain of the alpha/beta class and a discrete (usually N-terminal) domain which vary in orientation with respect to the NAD(P) binding domain. The N-terminal domain may contain a flavin prosthetic group (as in flavoenzymes) or use flavin as a substrate. Ferredoxin is reduced in the final stage of photosystem I. The flavoprotein Ferredoxin-NADP+ reductase transfers electrons from reduced ferredoxin to FAD (formi
Probab=25.15 E-value=41 Score=22.65 Aligned_cols=10 Identities=20% Similarity=0.222 Sum_probs=8.1
Q ss_pred eeeEEeCCcc
Q 036777 37 VGMYVCGVTA 46 (66)
Q Consensus 37 v~~Y~CGPTv 46 (66)
..+|+|||.-
T Consensus 179 ~~v~icGp~~ 188 (243)
T cd06192 179 DRIIVAGSDI 188 (243)
T ss_pred CEEEEECCHH
Confidence 4699999963
No 181
>PF06364 DUF1068: Protein of unknown function (DUF1068); InterPro: IPR010471 This family consists of several hypothetical plant proteins from Arabidopsis thaliana and Oryza sativa. The function of this family is unknown.
Probab=25.06 E-value=19 Score=25.17 Aligned_cols=13 Identities=23% Similarity=0.363 Sum_probs=10.4
Q ss_pred eeeEEeCCccCCC
Q 036777 37 VGMYVCGVTAYDL 49 (66)
Q Consensus 37 v~~Y~CGPTvYd~ 49 (66)
+-+|+|||.+|-.
T Consensus 19 ~a~yivGP~LYWh 31 (176)
T PF06364_consen 19 LAGYIVGPPLYWH 31 (176)
T ss_pred HHhheeCchHHHH
Confidence 3579999999854
No 182
>cd06193 siderophore_interacting Siderophore interacting proteins share the domain structure of the ferredoxin reductase like family. Siderophores are produced in various bacteria (and some plants) to extract iron from hosts. Binding constants are high, so iron can be pilfered from transferrin and lactoferrin for bacterial uptake, contributing to pathogen virulence. Ferredoxin reductase (FNR), an FAD and NAD(P) binding protein, was intially identified as a chloroplast reductase activity, catalyzing the electron transfer from reduced iron-sulfur protein ferredoxin to NADP+ as the final step in the electron transport mechanism of photosystem I. FNR transfers electrons from reduced ferredoxin to FAD (forming FADH2 via a semiquinone intermediate) and then transfers a hydride ion to convert NADP+ to NADPH. FNR has since been shown to utilize a variety of electron acceptors and donors and has a variety of physiological functions including nitrogen assimilation, dinitrogen fixation, steroid hy
Probab=24.92 E-value=47 Score=22.41 Aligned_cols=12 Identities=17% Similarity=0.415 Sum_probs=9.4
Q ss_pred CeeeeEEeCCcc
Q 036777 35 GKVGMYVCGVTA 46 (66)
Q Consensus 35 ~~v~~Y~CGPTv 46 (66)
+...+|+|||.-
T Consensus 197 ~~~~vyicGp~~ 208 (235)
T cd06193 197 GDGYVWIAGEAG 208 (235)
T ss_pred CCeEEEEEccHH
Confidence 446899999964
No 183
>cd08064 MPN_eIF3f Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF3f. Eukaryotic translation initiation factor 3 (eIF3) subunit F (eIF3F; EIF3S5; eIF3-p47; eukaryotic translation initiation factor 3, subunit 5 epsilon, 47kDa; Mov34/MPN/PAD-1 family protein) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity. It has been shown that eIF3f mRNA expression is significantly decreased in many human tumors including pancreatic cancer and melanoma. EIF3f is a potent inhibitor of HIV-1 replication; it mediates restriction of HIV-1 expression through several factors including the serine/arginine-rich (SR) protein 9G8, and cyclin-dependent kinase 11 (CDK11). EIF3f phosphorylation by CDK11 is important in regulating its function in translation and ap
Probab=24.44 E-value=55 Score=23.14 Aligned_cols=14 Identities=29% Similarity=0.318 Sum_probs=11.6
Q ss_pred CCeeeeEEeCCccC
Q 036777 34 PGKVGMYVCGVTAY 47 (66)
Q Consensus 34 ~~~v~~Y~CGPTvY 47 (66)
...|+||..||.+.
T Consensus 76 ~~vVGWY~tg~~~~ 89 (265)
T cd08064 76 EVIVGWYATGSEIT 89 (265)
T ss_pred CcEEeeeeCCCCCC
Confidence 36799999999765
No 184
>cd05828 Sortase_D_4 Sortase D (SrtD) is a membrane transpeptidase found in gram-positive bacteria that anchors surface proteins to peptidoglycans of the bacterial cell wall envelope. This involves a transpeptidation reaction in which the surface protein substrate is cleaved at the cell wall sorting signal and covalently linked to peptidoglycan for display on the bacterial surface. Sortases are grouped into different classes and subfamilies based on sequence, membrane topology, genomic positioning, and cleavage site preference. Class D sortases are further classified into subfamilies 4 and 5. This group contains a subset of Class D sortases belonging to subfamily-4. These sortases recognize a unique sorting signal (LPXTA) and they constitute a specialized sorting pathway found in bacilli. Their substrates are predicted to be predominantly enzymes such as 5'-nucleotidases, glycosyl hydrolase, and subtilase.
Probab=23.73 E-value=1.8e+02 Score=18.00 Aligned_cols=19 Identities=11% Similarity=0.205 Sum_probs=13.9
Q ss_pred EEeeecCCCeeeeEEeCCc
Q 036777 27 ELFTPIVPGKVGMYVCGVT 45 (66)
Q Consensus 27 e~f~p~~~~~v~~Y~CGPT 45 (66)
+.+.+..+..+.+.+|.|.
T Consensus 93 ~~~~~~~~~~LtLiTC~p~ 111 (127)
T cd05828 93 SVLAPSDDPTLTLITCYPF 111 (127)
T ss_pred EEccCCCCCEEEEEeCCCC
Confidence 3444545678999999974
No 185
>KOG0279 consensus G protein beta subunit-like protein [Signal transduction mechanisms]
Probab=23.58 E-value=1.1e+02 Score=23.13 Aligned_cols=27 Identities=7% Similarity=0.127 Sum_probs=19.5
Q ss_pred ccccccccCCCcceEEEeCCCCceEEee
Q 036777 3 TSKETTAAAPKMDLIIYNSMTQQKELFT 30 (66)
Q Consensus 3 ~~~~~~~~~~~~~l~lyntltr~ke~f~ 30 (66)
.+|-.+..+. .+|+|||+++..|-...
T Consensus 117 n~qivSGSrD-kTiklwnt~g~ck~t~~ 143 (315)
T KOG0279|consen 117 NRQIVSGSRD-KTIKLWNTLGVCKYTIH 143 (315)
T ss_pred CceeecCCCc-ceeeeeeecccEEEEEe
Confidence 4556666666 56999999998876543
No 186
>PLN02406 ethanolamine-phosphate cytidylyltransferase
Probab=23.39 E-value=35 Score=26.48 Aligned_cols=23 Identities=39% Similarity=0.637 Sum_probs=18.8
Q ss_pred CCCeeeeEEeCCccCCCCCCCccce
Q 036777 33 VPGKVGMYVCGVTAYDLSHLGHARA 57 (66)
Q Consensus 33 ~~~~v~~Y~CGPTvYd~~HiGhaR~ 57 (66)
.++.-.+|++| .+|..|.||.+.
T Consensus 248 ~~~~~iVyv~G--~FDlfH~GHi~~ 270 (418)
T PLN02406 248 GPDARIVYIDG--AFDLFHAGHVEI 270 (418)
T ss_pred CCCCeEEEECC--eeccCCHHHHHH
Confidence 35677899997 699999999863
No 187
>COG1018 Hmp Flavodoxin reductases (ferredoxin-NADPH reductases) family 1 [Energy production and conversion]
Probab=23.07 E-value=43 Score=23.91 Aligned_cols=11 Identities=27% Similarity=0.878 Sum_probs=9.2
Q ss_pred eeeEEeCCccC
Q 036777 37 VGMYVCGVTAY 47 (66)
Q Consensus 37 v~~Y~CGPTvY 47 (66)
-.+|+|||.-+
T Consensus 197 r~~y~CGp~~f 207 (266)
T COG1018 197 REVYLCGPGPF 207 (266)
T ss_pred CEEEEECCHHH
Confidence 78999999754
No 188
>PRK08221 anaerobic sulfite reductase subunit B; Provisional
Probab=21.88 E-value=62 Score=22.44 Aligned_cols=13 Identities=15% Similarity=0.250 Sum_probs=9.7
Q ss_pred CeeeeEEeCCccC
Q 036777 35 GKVGMYVCGVTAY 47 (66)
Q Consensus 35 ~~v~~Y~CGPTvY 47 (66)
....+|+|||.-.
T Consensus 191 ~~~~vylCGp~~m 203 (263)
T PRK08221 191 DNMQVIVVGPPIM 203 (263)
T ss_pred CCeEEEEECCHHH
Confidence 3467999999743
No 189
>PF01234 NNMT_PNMT_TEMT: NNMT/PNMT/TEMT family; InterPro: IPR000940 Methyl transfer from the ubiquitous S-adenosyl-L-methionine (AdoMet) to either nitrogen, oxygen or carbon atoms is frequently employed in diverse organisms ranging from bacteria to plants and mammals. The reaction is catalysed by methyltransferases (Mtases) and modifies DNA, RNA, proteins and small molecules, such as catechol for regulatory purposes. The various aspects of the role of DNA methylation in prokaryotic restriction-modification systems and in a number of cellular processes in eukaryotes including gene regulation and differentiation is well documented. Three classes of DNA Mtases transfer the methyl group from AdoMet to the target base to form either N-6-methyladenine, or N-4-methylcytosine, or C-5- methylcytosine. In C-5-cytosine Mtases, ten conserved motifs are arranged in the same order []. Motif I (a glycine-rich or closely related consensus sequence; FAGxGG in M.HhaI []), shared by other AdoMet-Mtases [], is part of the cofactor binding site and motif IV (PCQ) is part of the catalytic site. In contrast, sequence comparison among N-6-adenine and N-4-cytosine Mtases indicated two of the conserved segments [], although more conserved segments may be present. One of them corresponds to motif I in C-5-cytosine Mtases, and the other is named (D/N/S)PP(Y/F). Crystal structures are known for a number of Mtases [, , , ]. The cofactor binding sites are almost identical and the essential catalytic amino acids coincide. The comparable protein folding and the existence of equivalent amino acids in similar secondary and tertiary positions indicate that many (if not all) AdoMet-Mtases have a common catalytic domain structure. This permits tertiary structure prediction of other DNA, RNA, protein, and small-molecule AdoMet-Mtases from their amino acid sequences []. Several cytoplasmic vertebrate methyltransferases are evolutionary related [], including nicotinamide N-methyltransferase (2.1.1.1 from EC) (NNMT); phenylethanolamine N-methyltransferase (2.1.1.28 from EC) (PNMT); and thioether S-methyltransferase (2.1.1.96 from EC) (TEMT). NNMT catalyzes the N-methylation of nicotinamide and other pyridines to form pyridinium ions. This activity is important for the biotransformation of many drugs and xenobiotic compounds. PNMT catalyzes the last step in catecholamine biosynthesis, the conversion of noradrenalin to adrenalin; and TEMT catalyzes the methylation of dimethyl sulphide into trimethylsulphonium. These three enzymes use S-adenosyl-L-methionine as the methyl donor. They are proteins of 30 to 32 kDa.; GO: 0008168 methyltransferase activity; PDB: 2IIP_C 3ROD_A 2OBF_A 3HCA_B 2ONY_B 3KR1_A 2OPB_B 3KQP_B 2AN4_B 3KQM_A ....
Probab=21.83 E-value=60 Score=23.38 Aligned_cols=25 Identities=16% Similarity=0.004 Sum_probs=15.1
Q ss_pred EEeCCccCCCCCC-CccceEEEEEee
Q 036777 40 YVCGVTAYDLSHL-GHARAAISFYIL 64 (66)
Q Consensus 40 Y~CGPTvYd~~Hi-GhaR~~V~~Dvl 64 (66)
..||||+|...=. -+++..+..|..
T Consensus 63 iGsGPtiy~~lsa~~~f~~I~l~dy~ 88 (256)
T PF01234_consen 63 IGSGPTIYQLLSACEWFEEIVLSDYS 88 (256)
T ss_dssp ES-TT--GGGTTGGGTEEEEEEEESS
T ss_pred eCCCcHHHhhhhHHHhhcceEEeecc
Confidence 5799999965444 667777777754
No 190
>PF07865 DUF1652: Protein of unknown function (DUF1652); InterPro: IPR012448 The proteins in this entry have not been characterised.
Probab=21.77 E-value=1.2e+02 Score=17.81 Aligned_cols=23 Identities=17% Similarity=0.284 Sum_probs=17.9
Q ss_pred cccCCCcceEEEeCCCCceEEee
Q 036777 8 TAAAPKMDLIIYNSMTQQKELFT 30 (66)
Q Consensus 8 ~~~~~~~~l~lyntltr~ke~f~ 30 (66)
.+++..|+++|||-.|++.+-..
T Consensus 21 ~~~~~smtvrl~d~~sg~~~l~v 43 (69)
T PF07865_consen 21 IAPDGSMTVRLFDPASGRVELTV 43 (69)
T ss_pred ECCCCcEEEEEecCCCCcEEEEE
Confidence 45666799999999999876554
No 191
>TIGR03224 benzo_boxA benzoyl-CoA oxygenase/reductase, BoxA protein. Members of this protein family are BoxA, the A component of the BoxAB benzoyl-CoA oxygenase/reductase. This oxygen-requiring enzyme acts in an aerobic pathway of benzoate catabolism via coenzyme A ligation. BoxA is a homodimeric iron-sulphur-flavoprotein and acts as an NADPH-dependent reductase for BoxB.
Probab=21.10 E-value=53 Score=24.72 Aligned_cols=10 Identities=30% Similarity=0.996 Sum_probs=8.2
Q ss_pred eeeEEeCCcc
Q 036777 37 VGMYVCGVTA 46 (66)
Q Consensus 37 v~~Y~CGPTv 46 (66)
..+|+|||..
T Consensus 364 ~~vYiCGp~~ 373 (411)
T TIGR03224 364 TYIYICGLKG 373 (411)
T ss_pred cEEEEECCHH
Confidence 5699999974
No 192
>KOG1147 consensus Glutamyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=21.08 E-value=20 Score=29.54 Aligned_cols=16 Identities=38% Similarity=0.505 Sum_probs=13.0
Q ss_pred CCccCCCCCCCccceE
Q 036777 43 GVTAYDLSHLGHARAA 58 (66)
Q Consensus 43 GPTvYd~~HiGhaR~~ 58 (66)
-|-.-.+.|||||+..
T Consensus 206 PPEpSGyLHIGHAKAA 221 (712)
T KOG1147|consen 206 PPEPSGYLHIGHAKAA 221 (712)
T ss_pred CCCCCceeehhhHHHH
Confidence 5677788999999864
No 193
>TIGR03094 sulfo_cyanin sulfocyanin. Members of this family are blue-copper redox proteins designated sulfocyanin, from the archaeal genera Sulfolobus, Ferroplasma, and Picrophilus. The most closely related proteins characterized as functionally different are the rustacyanins.
Probab=20.74 E-value=77 Score=22.50 Aligned_cols=30 Identities=23% Similarity=0.402 Sum_probs=17.4
Q ss_pred eEEeeecCCCeeeeEEeCCccCCCCCCCccceEEEEEe
Q 036777 26 KELFTPIVPGKVGMYVCGVTAYDLSHLGHARAAISFYI 63 (66)
Q Consensus 26 ke~f~p~~~~~v~~Y~CGPTvYd~~HiGhaR~~V~~Dv 63 (66)
...|.+.. ...-||+||.+ |||-.=.+-++
T Consensus 153 sg~~~~~~-~G~YwlvCgip-------GHAesGMw~~l 182 (195)
T TIGR03094 153 SGWWNDTS-AGKYWLVCGIT-------GHAESGMWAVV 182 (195)
T ss_pred EEEeccCC-CeeEEEEcccC-------ChhhcCcEEEE
Confidence 34444443 45679999975 55555444443
No 194
>PF10477 EIF4E-T: Nucleocytoplasmic shuttling protein for mRNA cap-binding EIF4E; InterPro: IPR018862 EIF4E-T is the transporter protein for shuttling the mRNA cap-binding protein EIF4E protein, targeting it for nuclear import. EIF4E-T contains several key binding domains including two functional leucine-rich NESs (nuclear export signals) between residues 438-447 and 613-638 in the human protein. The other two binding domains are an EIF4E-binding site, between residues 27-42 in Q9EST3 from SWISSPROT, and a bipartite NLS (nuclear localisation signals) between 194-211, and these lie in family EIF4E-T_N. EIF4E is the eukaryotic translation initiation factor 4E that is the rate-limiting factor for cap-dependent translation initiation [].
Probab=20.50 E-value=39 Score=27.02 Aligned_cols=12 Identities=17% Similarity=0.274 Sum_probs=10.1
Q ss_pred CeeeeEEeCCcc
Q 036777 35 GKVGMYVCGVTA 46 (66)
Q Consensus 35 ~~v~~Y~CGPTv 46 (66)
...-|+.||||=
T Consensus 200 eEPEWfS~GPTS 211 (578)
T PF10477_consen 200 EEPEWFSAGPTS 211 (578)
T ss_pred cCccccccCCCc
Confidence 456899999995
No 195
>COG4198 Uncharacterized conserved protein [Function unknown]
Probab=20.50 E-value=55 Score=25.50 Aligned_cols=22 Identities=45% Similarity=0.682 Sum_probs=18.0
Q ss_pred ceEEeeecCCCeeeeEEeCCccC
Q 036777 25 QKELFTPIVPGKVGMYVCGVTAY 47 (66)
Q Consensus 25 ~ke~f~p~~~~~v~~Y~CGPTvY 47 (66)
.||++.|.++.+++||+-| .-|
T Consensus 278 ~k~~~~p~~~he~~my~~g-kwY 299 (405)
T COG4198 278 YKEPAKPSKPHEIGMYVDG-KWY 299 (405)
T ss_pred ecccCCCCCccceeEEEcC-EEE
Confidence 3789999999999999988 444
No 196
>PRK06214 sulfite reductase; Provisional
Probab=20.26 E-value=56 Score=25.83 Aligned_cols=10 Identities=40% Similarity=0.873 Sum_probs=8.1
Q ss_pred eeeeEEeCCc
Q 036777 36 KVGMYVCGVT 45 (66)
Q Consensus 36 ~v~~Y~CGPT 45 (66)
...+|+|||.
T Consensus 477 ~a~iYVCGp~ 486 (530)
T PRK06214 477 GAHFYVCGDA 486 (530)
T ss_pred CcEEEEeCCh
Confidence 4579999995
No 197
>PF01467 CTP_transf_2: Cytidylyltransferase; InterPro: IPR004820 This family includes []: Cholinephosphate cytidyltransferase (P49585 from SWISSPROT). Glycerol-3-phosphate cytidyltransferase (P27623 from SWISSPROT). CTP:cholinephosphate cytidylyltransferase (CCT) is a key regulatory enzyme in phosphatidylcholine biosynthesis that catalyzes the formation of CDP-choline. A comparison of the catalytic domains of CCTs from a wide variety of organisms reveals a large number of completely conserved residues. There may be a role for the conserved HXGH sequence in catalysis. The membrane-binding domain in rat CCT has been defined, and it has been suggested that lipids may play a role in inactivating the enzyme. A phosphorylation domain has been described [].; GO: 0016779 nucleotidyltransferase activity, 0009058 biosynthetic process; PDB: 1O6B_A 1H1T_A 1B6T_A 1GN8_A 1QJC_A 3ELB_A 3NBK_A 3NBA_A 1TFU_A 3LCJ_A ....
Probab=20.24 E-value=24 Score=21.21 Aligned_cols=11 Identities=36% Similarity=0.718 Sum_probs=5.7
Q ss_pred cCCCCCCCccc
Q 036777 46 AYDLSHLGHAR 56 (66)
Q Consensus 46 vYd~~HiGhaR 56 (66)
-+|+.|.||..
T Consensus 5 sFdP~H~GH~~ 15 (157)
T PF01467_consen 5 SFDPPHNGHLN 15 (157)
T ss_dssp --TT--HHHHH
T ss_pred EcCcccHHHHH
Confidence 57899999964
Done!