Query 024855
Match_columns 261
No_of_seqs 178 out of 1506
Neff 6.3
Searched_HMMs 46136
Date Fri Mar 29 07:55:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024855.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024855hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01989 STK_N The N-terminal d 99.9 9.7E-26 2.1E-30 183.9 16.0 138 112-260 1-142 (146)
2 PRK15456 universal stress prot 99.9 4.6E-25 1E-29 180.0 15.7 138 110-261 2-141 (142)
3 PRK15005 universal stress prot 99.9 4E-25 8.7E-30 179.6 15.2 140 110-261 2-143 (144)
4 PRK09982 universal stress prot 99.9 7.8E-24 1.7E-28 173.8 12.5 135 110-261 3-137 (142)
5 PRK15118 universal stress glob 99.9 3.9E-23 8.5E-28 168.5 12.8 135 109-261 2-137 (144)
6 cd01988 Na_H_Antiporter_C The 99.9 5.2E-21 1.1E-25 151.9 15.5 130 112-261 1-131 (132)
7 PF00582 Usp: Universal stress 99.9 5E-21 1.1E-25 150.2 12.8 137 110-261 2-139 (140)
8 PRK10116 universal stress prot 99.9 9.9E-21 2.1E-25 153.6 14.2 134 109-261 2-137 (142)
9 cd01987 USP_OKCHK USP domain i 99.8 2E-20 4.3E-25 148.5 11.8 121 112-261 1-123 (124)
10 PRK11175 universal stress prot 99.8 3E-20 6.5E-25 168.9 14.4 142 109-261 2-144 (305)
11 PRK11175 universal stress prot 99.8 9.2E-20 2E-24 165.6 14.6 151 82-261 138-298 (305)
12 COG0589 UspA Universal stress 99.8 7.5E-18 1.6E-22 135.8 16.5 144 109-261 4-150 (154)
13 cd00293 USP_Like Usp: Universa 99.8 1.8E-17 3.8E-22 128.9 16.3 130 112-261 1-130 (130)
14 PRK12652 putative monovalent c 99.6 2.4E-14 5.1E-19 135.3 14.4 107 109-233 4-126 (357)
15 PRK10490 sensor protein KdpD; 99.1 8E-10 1.7E-14 115.5 12.7 117 109-255 249-365 (895)
16 COG2205 KdpD Osmosensitive K+ 98.8 1.8E-08 3.9E-13 102.6 11.4 119 109-255 247-365 (890)
17 cd01984 AANH_like Adenine nucl 98.5 5.2E-07 1.1E-11 67.5 7.3 84 113-260 1-85 (86)
18 TIGR02432 lysidine_TilS_N tRNA 97.1 0.0076 1.6E-07 51.3 11.4 94 112-232 1-110 (189)
19 PLN03159 cation/H(+) antiporte 97.0 0.0052 1.1E-07 64.5 10.6 149 109-261 457-613 (832)
20 PF01171 ATP_bind_3: PP-loop f 96.5 0.039 8.5E-07 47.0 10.7 93 112-231 1-106 (182)
21 cd01992 PP-ATPase N-terminal d 96.4 0.045 9.9E-07 46.1 10.4 95 112-233 1-108 (185)
22 PRK12342 hypothetical protein; 95.3 0.12 2.5E-06 47.2 9.2 108 117-260 31-141 (254)
23 cd01993 Alpha_ANH_like_II This 94.7 0.33 7.1E-06 40.6 9.6 37 112-148 1-39 (185)
24 PLN03159 cation/H(+) antiporte 94.3 0.75 1.6E-05 48.6 13.3 118 110-230 630-751 (832)
25 PRK03359 putative electron tra 93.4 0.46 1E-05 43.3 8.5 107 118-259 33-143 (256)
26 PRK10696 tRNA 2-thiocytidine b 93.3 1.3 2.8E-05 39.9 11.4 93 109-231 28-141 (258)
27 COG0037 MesJ tRNA(Ile)-lysidin 93.2 0.71 1.5E-05 41.8 9.6 38 110-149 21-58 (298)
28 COG2086 FixA Electron transfer 90.8 1 2.2E-05 41.3 7.6 86 116-231 32-121 (260)
29 TIGR00268 conserved hypothetic 90.4 3.1 6.6E-05 37.4 10.3 35 109-147 11-45 (252)
30 PRK10660 tilS tRNA(Ile)-lysidi 86.2 5.5 0.00012 38.9 9.7 39 109-147 14-53 (436)
31 cd01990 Alpha_ANH_like_I This 85.2 9 0.0002 32.7 9.6 32 113-147 1-32 (202)
32 PRK13820 argininosuccinate syn 84.5 13 0.00028 36.1 11.2 36 109-147 1-37 (394)
33 PRK14665 mnmA tRNA-specific 2- 83.0 13 0.00028 35.6 10.4 35 109-147 4-38 (360)
34 PRK05253 sulfate adenylyltrans 82.5 14 0.00029 34.6 10.1 39 109-147 26-64 (301)
35 cd01712 ThiI ThiI is required 82.0 29 0.00062 29.0 11.2 33 112-148 1-33 (177)
36 PF00875 DNA_photolyase: DNA p 81.4 9.2 0.0002 31.6 7.9 84 124-230 14-97 (165)
37 TIGR00342 thiazole biosynthesi 81.0 32 0.0007 32.8 12.4 39 105-147 167-205 (371)
38 PF01012 ETF: Electron transfe 80.7 24 0.00053 29.0 10.2 81 120-233 14-102 (164)
39 TIGR00591 phr2 photolyase PhrI 80.0 16 0.00034 35.7 10.1 91 118-230 32-122 (454)
40 cd01986 Alpha_ANH_like Adenine 79.6 17 0.00037 27.6 8.3 32 113-148 1-32 (103)
41 cd01985 ETF The electron trans 79.2 37 0.00079 28.5 11.0 25 209-233 79-103 (181)
42 cd01995 ExsB ExsB is a transcr 76.5 32 0.0007 28.4 9.7 32 112-147 1-32 (169)
43 cd01713 PAPS_reductase This do 73.8 33 0.00071 27.4 9.0 35 112-147 1-35 (173)
44 PF02601 Exonuc_VII_L: Exonucl 73.3 7.6 0.00017 35.9 5.6 57 202-260 49-112 (319)
45 PLN00200 argininosuccinate syn 72.4 71 0.0015 31.1 12.2 35 110-147 5-39 (404)
46 PF13167 GTP-bdg_N: GTP-bindin 71.6 17 0.00038 28.2 6.4 49 182-230 7-66 (95)
47 TIGR03556 photolyase_8HDF deox 71.5 33 0.00071 33.8 9.8 86 122-230 14-99 (471)
48 cd01996 Alpha_ANH_like_III Thi 68.5 61 0.0013 26.1 9.8 33 112-147 3-35 (154)
49 cd01994 Alpha_ANH_like_IV This 67.8 81 0.0017 27.3 10.6 95 112-234 1-101 (194)
50 TIGR02765 crypto_DASH cryptoch 67.5 34 0.00075 32.9 8.9 93 122-231 14-106 (429)
51 PRK05370 argininosuccinate syn 67.1 65 0.0014 31.9 10.6 107 109-234 10-135 (447)
52 TIGR00884 guaA_Cterm GMP synth 64.5 1.1E+02 0.0024 28.5 11.4 34 111-147 17-50 (311)
53 COG1606 ATP-utilizing enzymes 64.4 91 0.002 28.8 10.3 91 110-232 17-124 (269)
54 TIGR00032 argG argininosuccina 64.3 83 0.0018 30.5 10.8 32 112-147 1-32 (394)
55 TIGR02039 CysD sulfate adenyly 63.8 1E+02 0.0022 28.8 10.9 38 110-147 19-56 (294)
56 PRK00919 GMP synthase subunit 63.7 45 0.00097 31.3 8.6 34 111-147 22-55 (307)
57 PF07355 GRDB: Glycine/sarcosi 63.4 19 0.00041 34.4 6.0 61 196-260 47-116 (349)
58 PF02844 GARS_N: Phosphoribosy 63.4 5.6 0.00012 31.3 2.1 23 207-230 49-71 (100)
59 cd01714 ETF_beta The electron 63.0 88 0.0019 27.1 9.9 32 115-146 29-60 (202)
60 PRK00143 mnmA tRNA-specific 2- 60.7 94 0.002 29.4 10.3 33 111-147 1-33 (346)
61 PRK14664 tRNA-specific 2-thiou 59.4 83 0.0018 30.2 9.7 34 109-146 4-37 (362)
62 cd01997 GMP_synthase_C The C-t 58.6 99 0.0021 28.7 9.9 33 112-147 1-33 (295)
63 PRK08349 hypothetical protein; 58.4 43 0.00093 28.7 7.0 33 111-147 1-33 (198)
64 TIGR01162 purE phosphoribosyla 58.1 53 0.0012 27.9 7.3 50 184-233 13-65 (156)
65 PF01008 IF-2B: Initiation fac 55.8 16 0.00035 33.0 4.1 37 221-261 176-216 (282)
66 PRK00286 xseA exodeoxyribonucl 54.1 23 0.0005 34.3 5.1 56 203-260 171-229 (438)
67 PRK09590 celB cellobiose phosp 53.9 30 0.00065 27.2 4.8 43 187-233 20-63 (104)
68 COG0041 PurE Phosphoribosylcar 53.6 47 0.001 28.3 6.1 48 185-232 18-68 (162)
69 TIGR00237 xseA exodeoxyribonuc 51.6 32 0.0007 33.6 5.7 57 202-260 164-224 (432)
70 PF03746 LamB_YcsF: LamB/YcsF 51.2 95 0.002 28.2 8.2 104 115-232 32-146 (242)
71 COG0299 PurN Folate-dependent 50.9 1.8E+02 0.0039 25.8 9.8 84 111-230 1-88 (200)
72 cd03364 TOPRIM_DnaG_primases T 50.7 45 0.00097 24.1 5.1 35 110-144 43-77 (79)
73 KOG1467 Translation initiation 50.7 1.2E+02 0.0025 30.6 9.2 104 111-260 360-466 (556)
74 cd02067 B12-binding B12 bindin 50.0 39 0.00085 26.2 5.0 42 191-234 22-64 (119)
75 TIGR02855 spore_yabG sporulati 49.0 42 0.0009 31.2 5.6 46 185-230 117-162 (283)
76 COG1570 XseA Exonuclease VII, 48.8 38 0.00083 33.4 5.6 56 202-259 170-229 (440)
77 PRK14561 hypothetical protein; 48.2 1.7E+02 0.0036 25.2 9.1 31 111-146 1-31 (194)
78 PRK00509 argininosuccinate syn 48.1 90 0.0019 30.4 8.0 35 110-147 2-36 (399)
79 COG1597 LCB5 Sphingosine kinas 47.6 44 0.00095 31.0 5.7 47 183-230 20-67 (301)
80 PF05582 Peptidase_U57: YabG p 47.6 41 0.00089 31.3 5.3 47 184-230 117-163 (287)
81 TIGR01917 gly_red_sel_B glycin 47.3 43 0.00094 32.9 5.7 60 196-259 43-111 (431)
82 PF00731 AIRC: AIR carboxylase 47.1 65 0.0014 27.1 6.1 49 185-233 16-67 (150)
83 PRK00109 Holliday junction res 46.8 18 0.0004 29.7 2.7 21 210-230 43-63 (138)
84 PF02441 Flavoprotein: Flavopr 45.2 38 0.00082 27.0 4.3 33 111-144 1-33 (129)
85 PF02568 ThiI: Thiamine biosyn 44.4 1.3E+02 0.0029 26.3 7.9 36 110-149 3-38 (197)
86 PRK12563 sulfate adenylyltrans 44.2 1.8E+02 0.0038 27.5 9.1 38 110-147 37-74 (312)
87 cd01998 tRNA_Me_trans tRNA met 43.9 2.6E+02 0.0056 26.4 10.4 32 112-147 1-32 (349)
88 PRK00074 guaA GMP synthase; Re 43.9 1.4E+02 0.003 29.8 8.9 35 110-147 215-249 (511)
89 cd06317 PBP1_ABC_sugar_binding 43.3 2.1E+02 0.0046 24.4 9.9 33 198-230 187-221 (275)
90 TIGR00273 iron-sulfur cluster- 43.3 51 0.0011 32.3 5.6 59 171-230 39-97 (432)
91 TIGR00420 trmU tRNA (5-methyla 41.5 3.2E+02 0.0068 26.0 12.4 33 111-147 1-33 (352)
92 COG1646 Predicted phosphate-bi 41.4 72 0.0016 29.0 5.8 47 209-261 29-76 (240)
93 PF13362 Toprim_3: Toprim doma 41.3 70 0.0015 23.9 5.0 37 109-145 40-78 (96)
94 PRK06029 3-octaprenyl-4-hydrox 41.2 50 0.0011 28.6 4.7 34 111-144 2-35 (185)
95 TIGR00853 pts-lac PTS system, 41.1 65 0.0014 24.6 4.8 60 186-261 21-81 (95)
96 PRK14057 epimerase; Provisiona 40.4 2.9E+02 0.0063 25.3 9.7 41 188-230 183-223 (254)
97 TIGR02766 crypt_chrom_pln cryp 40.4 2.2E+02 0.0048 27.9 9.6 46 183-230 51-96 (475)
98 KOG1650 Predicted K+/H+-antipo 40.4 1.2E+02 0.0026 32.1 8.1 41 111-151 615-655 (769)
99 PRK08576 hypothetical protein; 40.3 2.5E+02 0.0054 27.8 9.8 33 111-147 235-267 (438)
100 TIGR00289 conserved hypothetic 39.9 2.7E+02 0.0059 24.8 11.1 93 111-231 1-95 (222)
101 PF13662 Toprim_4: Toprim doma 39.5 50 0.0011 24.0 3.9 34 110-143 46-79 (81)
102 PRK10674 deoxyribodipyrimidine 38.8 2.9E+02 0.0063 27.2 10.2 88 122-230 15-105 (472)
103 cd05565 PTS_IIB_lactose PTS_II 38.7 83 0.0018 24.5 5.1 43 186-234 18-61 (99)
104 PRK07313 phosphopantothenoylcy 38.3 57 0.0012 28.0 4.6 33 111-144 2-34 (182)
105 PRK08227 autoinducer 2 aldolas 38.1 2.1E+02 0.0046 26.2 8.5 64 184-260 128-197 (264)
106 PF06925 MGDG_synth: Monogalac 38.1 57 0.0012 27.0 4.5 95 122-230 3-97 (169)
107 TIGR02113 coaC_strep phosphopa 37.8 58 0.0013 27.9 4.5 33 111-144 1-33 (177)
108 PF00072 Response_reg: Respons 37.6 1.3E+02 0.0027 22.0 6.0 46 207-260 30-76 (112)
109 TIGR00930 2a30 K-Cl cotranspor 36.6 4.3E+02 0.0094 28.7 11.7 96 111-230 576-676 (953)
110 PRK08745 ribulose-phosphate 3- 36.5 3.1E+02 0.0067 24.4 10.0 38 191-230 164-201 (223)
111 TIGR03573 WbuX N-acetyl sugar 35.5 3.6E+02 0.0077 25.3 9.9 34 111-147 60-93 (343)
112 cd06295 PBP1_CelR Ligand bindi 35.2 1.7E+02 0.0036 25.3 7.2 37 191-228 35-71 (275)
113 PRK08299 isocitrate dehydrogen 35.0 55 0.0012 32.0 4.3 25 121-145 185-209 (402)
114 cd01029 TOPRIM_primases TOPRIM 34.8 1.1E+02 0.0024 21.6 5.0 33 110-142 43-75 (79)
115 PRK11106 queuosine biosynthesi 34.4 2.8E+02 0.006 24.8 8.5 33 111-147 2-34 (231)
116 PRK08535 translation initiatio 34.1 3.9E+02 0.0084 24.8 11.1 57 192-260 167-227 (310)
117 PRK13010 purU formyltetrahydro 33.8 2.8E+02 0.0061 25.6 8.7 84 109-230 92-178 (289)
118 cd06320 PBP1_allose_binding Pe 33.7 3.1E+02 0.0067 23.6 11.9 35 199-233 183-219 (275)
119 TIGR02852 spore_dpaB dipicolin 33.2 82 0.0018 27.4 4.7 34 111-145 1-35 (187)
120 cd00578 L-fuc_L-ara-isomerases 33.1 1.1E+02 0.0024 29.7 6.2 43 210-261 52-94 (452)
121 PRK04527 argininosuccinate syn 33.1 4.7E+02 0.01 25.5 12.2 33 111-147 3-35 (400)
122 PRK09722 allulose-6-phosphate 32.8 1.4E+02 0.003 26.7 6.3 42 187-230 158-199 (229)
123 TIGR00250 RNAse_H_YqgF RNAse H 32.5 41 0.0009 27.3 2.6 23 208-230 35-57 (130)
124 PRK06027 purU formyltetrahydro 32.3 3.2E+02 0.0069 25.2 8.8 84 109-230 88-174 (286)
125 TIGR00524 eIF-2B_rel eIF-2B al 32.1 96 0.0021 28.9 5.3 60 191-260 173-236 (303)
126 PRK08091 ribulose-phosphate 3- 32.0 1.5E+02 0.0032 26.6 6.3 41 188-230 169-209 (228)
127 PRK11914 diacylglycerol kinase 31.3 92 0.002 28.4 5.0 18 210-227 53-70 (306)
128 COG0137 ArgG Argininosuccinate 31.2 5.1E+02 0.011 25.4 12.1 110 109-236 3-127 (403)
129 TIGR01918 various_sel_PB selen 31.0 50 0.0011 32.5 3.3 60 196-259 43-111 (431)
130 COG1540 Uncharacterized protei 30.4 3.2E+02 0.0069 25.0 8.0 50 185-234 92-150 (252)
131 PF02878 PGM_PMM_I: Phosphoglu 30.1 1.1E+02 0.0023 24.5 4.7 40 109-148 39-78 (137)
132 cd06278 PBP1_LacI_like_2 Ligan 30.0 2E+02 0.0043 24.4 6.7 40 189-228 22-61 (266)
133 TIGR00364 exsB protein. This p 29.8 3.5E+02 0.0075 22.9 9.5 23 211-233 101-123 (201)
134 PRK02261 methylaspartate mutas 29.7 1.6E+02 0.0035 23.9 5.8 37 191-230 26-63 (137)
135 PF13155 Toprim_2: Toprim-like 29.5 1.3E+02 0.0029 22.0 4.9 30 109-138 46-75 (96)
136 KOG2130 Phosphatidylserine-spe 29.2 26 0.00056 33.4 1.0 11 49-59 364-374 (407)
137 cd08550 GlyDH-like Glycerol_de 29.1 1.4E+02 0.0031 27.9 6.0 18 211-228 67-85 (349)
138 TIGR03183 DNA_S_dndC putative 29.1 5.8E+02 0.013 25.3 10.5 25 111-135 14-38 (447)
139 TIGR00486 YbgI_SA1388 dinuclea 28.7 81 0.0018 28.3 4.1 33 106-145 32-64 (249)
140 TIGR00511 ribulose_e2b2 ribose 28.7 1.4E+02 0.003 27.7 5.8 58 191-260 161-222 (301)
141 COG0075 Serine-pyruvate aminot 28.6 5.1E+02 0.011 25.2 9.7 35 107-146 77-111 (383)
142 cd01715 ETF_alpha The electron 28.4 93 0.002 25.8 4.2 26 208-233 70-95 (168)
143 cd06291 PBP1_Qymf_like Ligand 28.2 1.8E+02 0.004 24.8 6.2 43 188-230 21-64 (265)
144 cd01999 Argininosuccinate_Synt 28.2 3.6E+02 0.0078 26.1 8.7 32 113-147 1-32 (385)
145 PRK12569 hypothetical protein; 28.2 2.7E+02 0.0058 25.4 7.3 53 180-232 90-151 (245)
146 TIGR00646 MG010 DNA primase-re 28.1 1.3E+02 0.0027 27.0 5.1 36 110-145 154-189 (218)
147 PF02887 PK_C: Pyruvate kinase 27.7 53 0.0012 25.6 2.5 22 209-230 4-25 (117)
148 COG0301 ThiI Thiamine biosynth 27.7 5.8E+02 0.013 24.8 10.4 40 105-149 171-210 (383)
149 TIGR01501 MthylAspMutase methy 27.7 1E+02 0.0022 25.4 4.2 37 192-230 25-61 (134)
150 cd03557 L-arabinose_isomerase 27.4 2.4E+02 0.0052 28.2 7.5 43 210-261 51-97 (484)
151 cd02070 corrinoid_protein_B12- 27.4 1.3E+02 0.0027 25.9 5.0 42 191-234 105-147 (201)
152 COG0473 LeuB Isocitrate/isopro 27.3 77 0.0017 30.4 3.8 57 83-146 120-182 (348)
153 PRK10415 tRNA-dihydrouridine s 27.2 3.1E+02 0.0066 25.6 7.8 73 182-260 122-199 (321)
154 COG0036 Rpe Pentose-5-phosphat 27.1 1.8E+02 0.0039 26.1 5.9 31 198-230 169-199 (220)
155 smart00493 TOPRIM topoisomeras 27.0 99 0.0022 21.6 3.6 26 111-136 48-73 (76)
156 PLN02285 methionyl-tRNA formyl 26.9 2E+02 0.0042 27.2 6.5 39 192-230 64-102 (334)
157 cd06271 PBP1_AglR_RafR_like Li 26.8 2.6E+02 0.0057 23.7 6.9 40 191-230 28-68 (268)
158 PRK06801 hypothetical protein; 26.8 1.1E+02 0.0024 28.3 4.7 73 182-260 7-79 (286)
159 PRK06806 fructose-bisphosphate 26.8 4E+02 0.0086 24.5 8.4 73 185-261 117-206 (281)
160 PRK13011 formyltetrahydrofolat 26.6 4.6E+02 0.01 24.1 8.8 84 109-230 88-174 (286)
161 COG1066 Sms Predicted ATP-depe 26.5 2.3E+02 0.0049 28.1 6.9 85 109-231 92-178 (456)
162 PRK12857 fructose-1,6-bisphosp 26.5 1.1E+02 0.0023 28.4 4.6 50 205-260 26-79 (284)
163 TIGR00655 PurU formyltetrahydr 26.4 4.5E+02 0.0098 24.1 8.7 84 109-230 83-169 (280)
164 TIGR00290 MJ0570_dom MJ0570-re 26.1 4.7E+02 0.01 23.3 13.3 119 111-236 1-149 (223)
165 PRK12858 tagatose 1,6-diphosph 26.1 5.7E+02 0.012 24.3 11.2 129 111-260 84-246 (340)
166 cd02071 MM_CoA_mut_B12_BD meth 26.0 1.5E+02 0.0032 23.3 4.8 38 191-230 22-59 (122)
167 PRK06806 fructose-bisphosphate 25.9 1.4E+02 0.0031 27.5 5.3 66 193-260 14-79 (281)
168 PRK12737 gatY tagatose-bisphos 25.7 1.2E+02 0.0025 28.2 4.6 66 193-260 14-79 (284)
169 TIGR01858 tag_bisphos_ald clas 25.6 1.2E+02 0.0025 28.2 4.6 52 206-260 25-77 (282)
170 COG0415 PhrB Deoxyribodipyrimi 25.6 3.8E+02 0.0083 26.7 8.4 45 184-231 56-100 (461)
171 TIGR00640 acid_CoA_mut_C methy 25.5 1.1E+02 0.0024 24.8 4.1 38 192-231 26-63 (132)
172 COG0452 Dfp Phosphopantothenoy 25.1 1.1E+02 0.0024 29.6 4.6 37 109-146 3-39 (392)
173 PRK10550 tRNA-dihydrouridine s 24.9 5.7E+02 0.012 23.8 11.0 76 181-260 119-199 (312)
174 TIGR00421 ubiX_pad polyprenyl 24.9 1.1E+02 0.0023 26.4 4.0 32 112-144 1-32 (181)
175 PRK05920 aromatic acid decarbo 24.7 1.6E+02 0.0036 25.8 5.2 35 109-144 2-36 (204)
176 PF03808 Glyco_tran_WecB: Glyc 24.5 2E+02 0.0043 24.1 5.6 22 209-230 89-110 (172)
177 cd02072 Glm_B12_BD B12 binding 24.5 1.3E+02 0.0028 24.6 4.2 45 181-230 15-59 (128)
178 PRK08384 thiamine biosynthesis 24.4 6.5E+02 0.014 24.3 11.1 35 109-147 179-213 (381)
179 COG2262 HflX GTPases [General 24.3 2.1E+02 0.0046 28.1 6.2 46 185-230 22-78 (411)
180 TIGR01859 fruc_bis_ald_ fructo 24.2 3.2E+02 0.007 25.1 7.3 78 179-261 111-206 (282)
181 TIGR00177 molyb_syn molybdenum 24.0 1.6E+02 0.0035 23.9 4.8 37 192-229 36-74 (144)
182 cd06296 PBP1_CatR_like Ligand- 24.0 3.1E+02 0.0066 23.4 6.8 19 212-230 46-64 (270)
183 cd05564 PTS_IIB_chitobiose_lic 23.9 2.2E+02 0.0047 21.6 5.2 44 185-234 16-60 (96)
184 cd06319 PBP1_ABC_sugar_binding 23.9 2.7E+02 0.0059 23.8 6.5 14 217-230 51-64 (277)
185 cd01541 PBP1_AraR Ligand-bindi 23.7 3.4E+02 0.0074 23.2 7.1 44 187-230 20-64 (273)
186 PRK11070 ssDNA exonuclease Rec 23.5 6.2E+02 0.013 25.9 9.7 35 196-231 127-161 (575)
187 COG1139 Uncharacterized conser 23.5 2.2E+02 0.0047 28.3 6.2 55 175-230 57-111 (459)
188 PRK01269 tRNA s(4)U8 sulfurtra 23.4 7.2E+02 0.016 24.5 11.8 35 109-147 176-210 (482)
189 PHA02031 putative DnaG-like pr 23.4 1.3E+02 0.0028 27.8 4.4 37 110-146 206-242 (266)
190 PF02310 B12-binding: B12 bind 23.4 1.8E+02 0.0039 22.1 4.8 41 192-234 24-65 (121)
191 COG0151 PurD Phosphoribosylami 23.3 62 0.0013 31.8 2.4 21 210-230 52-72 (428)
192 PRK13337 putative lipid kinase 23.3 2.2E+02 0.0049 25.9 6.1 38 191-229 27-65 (304)
193 PRK12738 kbaY tagatose-bisphos 23.2 1.4E+02 0.0031 27.6 4.8 73 182-260 7-79 (286)
194 PRK08883 ribulose-phosphate 3- 23.2 2.4E+02 0.0053 24.8 6.1 44 185-230 154-197 (220)
195 TIGR00147 lipid kinase, YegS/R 23.1 3.2E+02 0.007 24.5 7.0 40 188-228 24-64 (293)
196 PF13271 DUF4062: Domain of un 23.0 2.4E+02 0.0051 20.7 5.1 27 205-231 38-64 (83)
197 PF10087 DUF2325: Uncharacteri 22.9 1.7E+02 0.0037 22.0 4.5 62 188-260 15-80 (97)
198 TIGR00127 nadp_idh_euk isocitr 22.8 2.4E+02 0.0052 27.7 6.3 25 121-145 186-210 (409)
199 PRK01565 thiamine biosynthesis 22.7 6.8E+02 0.015 24.0 12.4 36 108-147 174-209 (394)
200 PF03652 UPF0081: Uncharacteri 22.7 59 0.0013 26.6 1.9 52 208-260 38-92 (135)
201 TIGR02634 xylF D-xylose ABC tr 22.5 2.8E+02 0.0061 24.8 6.5 19 212-230 45-63 (302)
202 cd08170 GlyDH Glycerol dehydro 22.3 1.8E+02 0.0038 27.2 5.3 36 191-226 44-82 (351)
203 cd06301 PBP1_rhizopine_binding 22.3 2.9E+02 0.0062 23.6 6.3 18 213-230 48-65 (272)
204 PRK08305 spoVFB dipicolinate s 22.2 1.7E+02 0.0038 25.6 4.8 35 109-144 4-39 (196)
205 cd05008 SIS_GlmS_GlmD_1 SIS (S 21.9 1.4E+02 0.003 22.9 3.8 39 109-148 45-83 (126)
206 cd00311 TIM Triosephosphate is 21.8 92 0.002 28.1 3.1 55 206-261 69-124 (242)
207 PRK08185 hypothetical protein; 21.7 1.3E+02 0.0029 27.8 4.2 51 206-260 22-73 (283)
208 cd01539 PBP1_GGBP Periplasmic 21.6 2.5E+02 0.0054 25.0 6.0 41 212-261 48-88 (303)
209 COG0492 TrxB Thioredoxin reduc 21.6 1.4E+02 0.003 27.9 4.3 23 124-147 153-175 (305)
210 cd06274 PBP1_FruR Ligand bindi 21.6 4.5E+02 0.0098 22.3 7.5 39 192-230 25-64 (264)
211 COG2021 MET2 Homoserine acetyl 21.4 81 0.0018 30.5 2.8 51 79-135 120-170 (368)
212 cd06301 PBP1_rhizopine_binding 21.4 5.1E+02 0.011 22.0 11.0 34 198-231 183-219 (272)
213 COG2069 CdhD CO dehydrogenase/ 21.4 5.7E+02 0.012 24.4 8.2 27 124-150 150-176 (403)
214 PRK06850 hypothetical protein; 21.1 8.5E+02 0.018 24.6 10.0 24 111-134 35-58 (507)
215 PRK13982 bifunctional SbtC-lik 20.8 1.6E+02 0.0035 29.4 4.8 36 109-145 69-104 (475)
216 TIGR01283 nifE nitrogenase mol 20.8 3E+02 0.0065 26.8 6.7 57 170-230 302-358 (456)
217 TIGR01768 GGGP-family geranylg 20.7 1.1E+02 0.0023 27.5 3.2 44 211-261 17-61 (223)
218 PF00532 Peripla_BP_1: Peripla 20.7 3.3E+02 0.0073 24.3 6.6 48 185-232 20-67 (279)
219 PRK09195 gatY tagatose-bisphos 20.6 1.6E+02 0.0035 27.2 4.6 52 206-260 27-79 (284)
220 smart00852 MoCF_biosynth Proba 20.4 2.6E+02 0.0055 22.1 5.2 36 192-228 27-64 (135)
221 cd05014 SIS_Kpsf KpsF-like pro 20.1 1.6E+02 0.0034 22.7 3.8 39 109-148 46-84 (128)
222 COG1927 Mtd Coenzyme F420-depe 20.1 1.9E+02 0.004 26.2 4.5 44 211-261 50-93 (277)
No 1
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases. The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding.
Probab=99.94 E-value=9.7e-26 Score=183.85 Aligned_cols=138 Identities=28% Similarity=0.442 Sum_probs=112.6
Q ss_pred eEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHH
Q 024855 112 IIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDT 191 (261)
Q Consensus 112 kILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~ 191 (261)
+||||+|+|+.|++||+||+++|+..+++|++|||+++........+ ..+....+.++.++++++.++++.+.
T Consensus 1 ~ILVavD~S~~s~~al~~a~~~a~~~~~~l~ll~v~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~l~~~~~~ 73 (146)
T cd01989 1 SVAVAVDKDKKSKNALKWALDNLATKGQTIVLVHVHPPITSIPSSSG-------KLEVASAYKQEEDKEAKELLLPYRCF 73 (146)
T ss_pred CEEEEecCccccHHHHHHHHHhccCCCCcEEEEEeccCcccCCCCcc-------chHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 59999999999999999999999999999999999976432111100 11223445566677888899999999
Q ss_pred hhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC-CCCcccccccceec-cHHHHHhccCC--cceee
Q 024855 192 CSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT-KSSLRFHFHSINFN-GIGTLILFYFS--ILLFC 260 (261)
Q Consensus 192 ~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr-~sgl~~~~r~l~lG-SVA~~Vlr~A~--ipv~~ 260 (261)
|...+++++..++.|+++++.|+++|+++++|+||||+| ++++.+ +++| ||+++|+++++ ||||.
T Consensus 74 ~~~~~~~~~~~~~~g~~~~~~I~~~a~~~~~dlIV~Gs~g~~~l~~----~~~gssva~~Vi~~a~~~c~Vlv 142 (146)
T cd01989 74 CSRKGVQCEDVVLEDDDVAKAIVEYVADHGITKLVMGASSDNHFSM----KFKKSDVASSVLKEAPDFCTVYV 142 (146)
T ss_pred HhhcCCeEEEEEEeCCcHHHHHHHHHHHcCCCEEEEeccCCCceee----cccCCchhHHHHhcCCCCceEEE
Confidence 988899999988888777999999999999999999999 555555 4445 79999999999 99986
No 2
>PRK15456 universal stress protein UspG; Provisional
Probab=99.93 E-value=4.6e-25 Score=180.02 Aligned_cols=138 Identities=14% Similarity=0.171 Sum_probs=108.3
Q ss_pred CCeEEEeecCCh--hHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHH
Q 024855 110 EDIIYVAVGKSQ--SSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQK 187 (261)
Q Consensus 110 ~kkILVaVDgSe--~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek 187 (261)
|+|||||+|||+ .+.+|++||..+|+. +++|+++||+++..... .... ....+.+.+..++.+++.+++
T Consensus 2 ~~~ILv~vD~S~~~~s~~al~~A~~la~~-~~~l~llhv~~~~~~~~--~~~~------~~~~~~~~~~~~~~~~~~l~~ 72 (142)
T PRK15456 2 YKTIIMPVDVFEMELSDKAVRHAEFLAQD-DGVIHLLHVLPGSASLS--LHRF------AADVRRFEEHLQHEAEERLQT 72 (142)
T ss_pred CccEEEeccCCchhHHHHHHHHHHHHHhc-CCeEEEEEEecCccccc--cccc------ccchhhHHHHHHHHHHHHHHH
Confidence 689999999994 899999999999976 56999999997653211 0000 011234455566777778888
Q ss_pred HHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCCCCcccccccceeccHHHHHhccCCcceeeC
Q 024855 188 FLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 188 ~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
+.+.+...+++++.++..|++ ++.|+++|+++++||||||+|+.++.+ +++|||+++|+++++||||.+
T Consensus 73 ~~~~~~~~~~~v~~~v~~G~~-~~~I~~~a~~~~~DLIVmG~~g~~~~~----~llGS~a~~v~~~a~~pVLvV 141 (142)
T PRK15456 73 MVSHFTIDPSRIKQHVRFGSV-RDEVNELAEELGADVVVIGSRNPSIST----HLLGSNASSVIRHANLPVLVV 141 (142)
T ss_pred HHHHhCCCCcceEEEEcCCCh-HHHHHHHHhhcCCCEEEEcCCCCCccc----eecCccHHHHHHcCCCCEEEe
Confidence 877766567888888888765 899999999999999999999766654 678999999999999999964
No 3
>PRK15005 universal stress protein F; Provisional
Probab=99.93 E-value=4e-25 Score=179.57 Aligned_cols=140 Identities=14% Similarity=0.203 Sum_probs=106.6
Q ss_pred CCeEEEeecCChh--HHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHH
Q 024855 110 EDIIYVAVGKSQS--SMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQK 187 (261)
Q Consensus 110 ~kkILVaVDgSe~--S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek 187 (261)
|++||||+|||+. +.+|++||.++|+..+++|++|||+++...... .+ +.. ..+. ...+..++++++.+++
T Consensus 2 ~~~ILv~~D~s~~~~~~~a~~~a~~la~~~~~~l~ll~v~~~~~~~~~-~~-~~~---~~~~--~~~~~~~~~~~~~l~~ 74 (144)
T PRK15005 2 NRTILVPIDISDSELTQRVISHVEAEAKIDDAEVHFLTVIPSLPYYAS-LG-LAY---SAEL--PAMDDLKAEAKSQLEE 74 (144)
T ss_pred CccEEEecCCCchhHHHHHHHHHHHHHhccCCeEEEEEEEccCccccc-cc-ccc---cccc--hHHHHHHHHHHHHHHH
Confidence 6899999999997 589999999999999999999999986432110 11 000 0000 0112334455666777
Q ss_pred HHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCCCCcccccccceeccHHHHHhccCCcceeeC
Q 024855 188 FLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 188 ~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
+.+.+...+++++.++..|++ ++.|+++|+++++||||||+|++++.+ +++||++++|+++++||||.+
T Consensus 75 ~~~~~~~~~~~~~~~v~~G~p-~~~I~~~a~~~~~DLIV~Gs~~~~~~~----~llGS~a~~vl~~a~cpVlvV 143 (144)
T PRK15005 75 IIKKFKLPTDRVHVHVEEGSP-KDRILELAKKIPADMIIIASHRPDITT----YLLGSNAAAVVRHAECSVLVV 143 (144)
T ss_pred HHHHhCCCCCceEEEEeCCCH-HHHHHHHHHHcCCCEEEEeCCCCCchh----eeecchHHHHHHhCCCCEEEe
Confidence 776666667788888877765 899999999999999999999767665 678999999999999999974
No 4
>PRK09982 universal stress protein UspD; Provisional
Probab=99.91 E-value=7.8e-24 Score=173.77 Aligned_cols=135 Identities=16% Similarity=0.103 Sum_probs=102.6
Q ss_pred CCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHH
Q 024855 110 EDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFL 189 (261)
Q Consensus 110 ~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~ 189 (261)
|++||||+|+|+.|.+|+++|+++|+..+++|+++||+++..... ...+++ . .+...+..++.+++.++++.
T Consensus 3 ~k~ILvavD~S~~s~~al~~A~~lA~~~~a~l~llhV~~~~~~~~-~~~~~~----~---~~~~~~~~~~~~~~~l~~~~ 74 (142)
T PRK09982 3 YKHIGVAISGNEEDALLVNKALELARHNDAHLTLIHIDDGLSELY-PGIYFP----A---TEDILQLLKNKSDNKLYKLT 74 (142)
T ss_pred ceEEEEEecCCcchHHHHHHHHHHHHHhCCeEEEEEEccCcchhc-hhhhcc----c---hHHHHHHHHHHHHHHHHHHH
Confidence 789999999999999999999999999999999999987643110 000010 1 12333445566667777777
Q ss_pred HHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCCCCcccccccceeccHHHHHhccCCcceeeC
Q 024855 190 DTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 190 ~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
+.+.. ..++..+..|+ +++.|+++|+++++||||||+|++++.+ ++ | ||++|+|+++||||.+
T Consensus 75 ~~~~~--~~~~~~v~~G~-p~~~I~~~A~~~~aDLIVmG~~~~~~~~----~~-~-va~~V~~~s~~pVLvv 137 (142)
T PRK09982 75 KNIQW--PKTKLRIERGE-MPETLLEIMQKEQCDLLVCGHHHSFINR----LM-P-AYRGMINKMSADLLIV 137 (142)
T ss_pred HhcCC--CcceEEEEecC-HHHHHHHHHHHcCCCEEEEeCChhHHHH----HH-H-HHHHHHhcCCCCEEEe
Confidence 65543 34666667776 5899999999999999999998767665 44 5 9999999999999964
No 5
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=99.90 E-value=3.9e-23 Score=168.55 Aligned_cols=135 Identities=14% Similarity=0.135 Sum_probs=95.6
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHH
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKF 188 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~ 188 (261)
.|+|||||+|+|+.+.+||++|+.+|+..+++|++|||.++.... ..+.. +...+.+.++.++..++.++++
T Consensus 2 ~~~~ILvavD~S~~s~~al~~a~~la~~~~a~l~ll~v~~~~~~~--~~~~~------~~~~~~~~~~~~~~~~~~l~~~ 73 (144)
T PRK15118 2 AYKHILIAVDLSPESKVLVEKAVSMARPYNAKVSLIHVDVNYSDL--YTGLI------DVNLGDMQKRISEETHHALTEL 73 (144)
T ss_pred CceEEEEEccCChhHHHHHHHHHHHHHhhCCEEEEEEEccChhhh--hhhhh------hcchHHHHHHHHHHHHHHHHHH
Confidence 478999999999999999999999999889999999995332110 00100 0111223333334444445443
Q ss_pred HHHhhcCCCcEEEEEE-EcCChHHHHHHhhhhCCCcEEEECCCCCCcccccccceeccHHHHHhccCCcceeeC
Q 024855 189 LDTCSQSKVMVDTVLI-ESDLVAKAILDLIPVLNIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 189 ~~~~~~~gV~ve~~vi-eGd~~aeaIv~~A~e~~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
. ...++++...++ .|+ +++.|+++|+++++||||||+|+. +.+ . +||||++|+++++||||.+
T Consensus 74 ~---~~~~~~~~~~~~~~G~-p~~~I~~~a~~~~~DLIV~Gs~~~-~~~----~-lgSva~~v~~~a~~pVLvv 137 (144)
T PRK15118 74 S---TNAGYPITETLSGSGD-LGQVLVDAIKKYDMDLVVCGHHQD-FWS----K-LMSSARQLINTVHVDMLIV 137 (144)
T ss_pred H---HhCCCCceEEEEEecC-HHHHHHHHHHHhCCCEEEEeCccc-HHH----H-HHHHHHHHHhhCCCCEEEe
Confidence 3 445677544444 565 589999999999999999999963 333 2 3699999999999999964
No 6
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=99.87 E-value=5.2e-21 Score=151.92 Aligned_cols=130 Identities=19% Similarity=0.158 Sum_probs=104.3
Q ss_pred eEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHH
Q 024855 112 IIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDT 191 (261)
Q Consensus 112 kILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~ 191 (261)
+||||+|+++.+.++|++|..+|...+++|+++||+++..... + . . .....+..++.++.+.+.
T Consensus 1 ~ILv~vd~s~~~~~~l~~a~~la~~~~~~v~ll~v~~~~~~~~-----~-----~--~----~~~~~~~~~~~~~~~~~~ 64 (132)
T cd01988 1 RILVPVANPNTARDLLELAAALARAQNGEIIPLNVIEVPNHSS-----P-----S--Q----LEVNVQRARKLLRQAERI 64 (132)
T ss_pred CEEEecCCchhHHHHHHHHHHHhhcCCCeEEEEEEEecCCCCC-----c-----c--h----hHHHHHHHHHHHHHHHHH
Confidence 6999999999999999999999999999999999998643211 0 0 0 012234456677777777
Q ss_pred hhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCC-CCcccccccceeccHHHHHhccCCcceeeC
Q 024855 192 CSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTK-SSLRFHFHSINFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 192 ~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~-sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
+.+.|++++..+..++.+++.|+++++++++|+||||+++ +++.+ +++||++.+|+++++||||.+
T Consensus 65 ~~~~g~~~~~~~~~~~~~~~~I~~~a~~~~~dlIV~G~~~~~~~~~----~~lGs~~~~v~~~~~~pvlvv 131 (132)
T cd01988 65 AASLGVPVHTIIRIDHDIASGILRTAKERQADLIIMGWHGSTSLRD----RLFGGVIDQVLESAPCDVAVV 131 (132)
T ss_pred hhhcCCceEEEEEecCCHHHHHHHHHHhcCCCEEEEecCCCCCccc----eecCchHHHHHhcCCCCEEEe
Confidence 8788999888776655678999999999999999999995 44434 667999999999999999864
No 7
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=99.86 E-value=5e-21 Score=150.21 Aligned_cols=137 Identities=23% Similarity=0.229 Sum_probs=94.6
Q ss_pred CCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHH
Q 024855 110 EDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFL 189 (261)
Q Consensus 110 ~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~ 189 (261)
|++||||+|+++.+.+|++||+.+|+..+++|++|||++....... .......................
T Consensus 2 ~~~Ilv~~d~~~~~~~al~~a~~la~~~~~~i~~l~v~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~- 70 (140)
T PF00582_consen 2 YKRILVAIDGSEESRRALRFALELAKRSGAEITLLHVIPPPPQYSF----------SAAEDEESEEEAEEEEQARQAEA- 70 (140)
T ss_dssp TSEEEEEESSSHHHHHHHHHHHHHHHHHTCEEEEEEEEESCHCHHH----------HHHHHHHHHHHHHHHHHHHHHHH-
T ss_pred CCEEEEEECCCHHHHHHHHHHHHHHHhhCCeEEEEEeecccccccc----------ccccccccccccchhhhhhhHHH-
Confidence 6899999999999999999999999999999999999987542110 00000000000000000000010
Q ss_pred HHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCC-CCcccccccceeccHHHHHhccCCcceeeC
Q 024855 190 DTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTK-SSLRFHFHSINFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 190 ~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~-sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
..+...+.......+..+++++.|+++++++++|+||||+++ +++.+ +++||++++|+++++||||++
T Consensus 71 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~dliv~G~~~~~~~~~----~~~gs~~~~l~~~~~~pVlvv 139 (140)
T PF00582_consen 71 EEAEAEGGIVIEVVIESGDVADAIIEFAEEHNADLIVMGSRGRSGLER----LLFGSVAEKLLRHAPCPVLVV 139 (140)
T ss_dssp HHHHHHTTSEEEEEEEESSHHHHHHHHHHHTTCSEEEEESSSTTSTTT----SSSHHHHHHHHHHTSSEEEEE
T ss_pred HHHhhhccceeEEEEEeeccchhhhhccccccceeEEEeccCCCCccC----CCcCCHHHHHHHcCCCCEEEe
Confidence 222223344444445556679999999999999999999996 56554 678999999999999999974
No 8
>PRK10116 universal stress protein UspC; Provisional
Probab=99.86 E-value=9.9e-21 Score=153.58 Aligned_cols=134 Identities=13% Similarity=0.153 Sum_probs=99.7
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHH
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKF 188 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~ 188 (261)
.|++|||++|+|+.+..||++|+.+|+..+++|+++|+++...... . + .....+.+.+..+++.++.++++
T Consensus 2 ~~~~ILv~~D~s~~s~~al~~A~~lA~~~~a~l~ll~v~~~~~~~~---~-~-----~~~~~~~~~~~~~~~~~~~l~~~ 72 (142)
T PRK10116 2 SYSNILVAVAVTPESQQLLAKAVSIARPVNGKISLITLASDPEMYN---Q-F-----AAPMLEDLRSVMQEETQSFLDKL 72 (142)
T ss_pred CCceEEEEccCCcchHHHHHHHHHHHHHhCCEEEEEEEccCcccch---h-h-----hHHHHHHHHHHHHHHHHHHHHHH
Confidence 5799999999999999999999999998899999999987643211 1 1 11222344444555555666655
Q ss_pred HHHhhcCCCcEEE-EEEEcCChHHHHHHhhhhCCCcEEEECCCC-CCcccccccceeccHHHHHhccCCcceeeC
Q 024855 189 LDTCSQSKVMVDT-VLIESDLVAKAILDLIPVLNIRKLVVGTTK-SSLRFHFHSINFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 189 ~~~~~~~gV~ve~-~vieGd~~aeaIv~~A~e~~aDLIVmGsr~-sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
. ...+++.+. .+..|+ +.+.|++++++.++||||||+|+ +++.+ + +|++++|+++++||||.+
T Consensus 73 ~---~~~~~~~~~~~~~~G~-~~~~I~~~a~~~~~DLiV~g~~~~~~~~~----~--~s~a~~v~~~~~~pVLvv 137 (142)
T PRK10116 73 I---QDADYPIEKTFIAYGE-LSEHILEVCRKHHFDLVICGNHNHSFFSR----A--SCSAKRVIASSEVDVLLV 137 (142)
T ss_pred H---HhcCCCeEEEEEecCC-HHHHHHHHHHHhCCCEEEEcCCcchHHHH----H--HHHHHHHHhcCCCCEEEE
Confidence 3 344666543 444555 58999999999999999999995 55554 3 389999999999999964
No 9
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=99.84 E-value=2e-20 Score=148.51 Aligned_cols=121 Identities=18% Similarity=0.174 Sum_probs=94.9
Q ss_pred eEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHH
Q 024855 112 IIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDT 191 (261)
Q Consensus 112 kILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~ 191 (261)
+||||+|+|+.+++|++||..+|+..+++|++|||.++... . .. ++.++.++++.+.
T Consensus 1 ~Ilv~vd~s~~s~~al~~a~~la~~~~~~l~ll~v~~~~~~------~-----~~------------~~~~~~l~~~~~~ 57 (124)
T cd01987 1 RILVCISGGPNAERLIRRAARLADRLKAPWYVVYVETPRLN------R-----LS------------EAERRRLAEALRL 57 (124)
T ss_pred CEEEEECCCcchHHHHHHHHHHHHHhCCCEEEEEEecCccc------c-----CC------------HHHHHHHHHHHHH
Confidence 69999999999999999999999999999999999865321 0 01 1123345555555
Q ss_pred hhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCCC-CcccccccceeccHHHHHhccC-CcceeeC
Q 024855 192 CSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTKS-SLRFHFHSINFNGIGTLILFYF-SILLFCF 261 (261)
Q Consensus 192 ~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~s-gl~~~~r~l~lGSVA~~Vlr~A-~ipv~~~ 261 (261)
+++.++++ .++.++++++.|+++++++++|+||||+|+. ++.+ +++||++++|++++ +|||+.+
T Consensus 58 ~~~~~~~~--~~~~~~~~~~~I~~~~~~~~~dllviG~~~~~~~~~----~~~Gs~~~~v~~~a~~~~v~v~ 123 (124)
T cd01987 58 AEELGAEV--VTLPGDDVAEAIVEFAREHNVTQIVVGKSRRSRWRE----LFRGSLVDRLLRRAGNIDVHIV 123 (124)
T ss_pred HHHcCCEE--EEEeCCcHHHHHHHHHHHcCCCEEEeCCCCCchHHH----HhcccHHHHHHHhCCCCeEEEe
Confidence 65556543 3455666799999999999999999999954 5555 67899999999999 9999863
No 10
>PRK11175 universal stress protein UspE; Provisional
Probab=99.84 E-value=3e-20 Score=168.86 Aligned_cols=142 Identities=12% Similarity=0.083 Sum_probs=108.7
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHH
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKF 188 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~ 188 (261)
.|++||||+|+|+.+..|+++|+.+|+..+++|++|||++.... +.. +. ...+..+...+...++.++.|+++
T Consensus 2 ~~~~ILv~~D~s~~~~~al~~a~~lA~~~~a~l~ll~v~~~~~~-~~~-~~-----~~~~~~~~~~~~~~~~~~~~l~~~ 74 (305)
T PRK11175 2 KYQNILVVIDPNQDDQPALRRAVYLAQRNGGKITAFLPIYDFSY-EMT-TL-----LSPDEREAMRQGVISQRTAWIREQ 74 (305)
T ss_pred CcceEEEEcCCCccccHHHHHHHHHHHhcCCCEEEEEeccCchh-hhh-cc-----cchhHHHHHHHHHHHHHHHHHHHH
Confidence 47899999999999999999999999999999999999865321 100 11 111222222233334556677777
Q ss_pred HHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCC-CCcccccccceeccHHHHHhccCCcceeeC
Q 024855 189 LDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTK-SSLRFHFHSINFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 189 ~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~-sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
.+.+...+++++..+..++.+.+.|+++|+++++||||||+|+ +++.+ +++||++.+|+++++||||++
T Consensus 75 ~~~~~~~~~~~~~~v~~~g~~~~~i~~~a~~~~~DLiV~G~~~~~~~~~----~~~gs~~~~l~~~~~~pvlvv 144 (305)
T PRK11175 75 AKPYLDAGIPIEIKVVWHNRPFEAIIQEVIAGGHDLVVKMTHQHDKLES----VIFTPTDWHLLRKCPCPVLMV 144 (305)
T ss_pred HHHHhhcCCceEEEEecCCCcHHHHHHHHHhcCCCEEEEeCCCCcHHHh----hccChhHHHHHhcCCCCEEEe
Confidence 7777777899888777545568999999999999999999995 55554 778999999999999999974
No 11
>PRK11175 universal stress protein UspE; Provisional
Probab=99.83 E-value=9.2e-20 Score=165.63 Aligned_cols=151 Identities=16% Similarity=0.213 Sum_probs=106.6
Q ss_pred CCCccccccccccceeeecccCCCCCCCCCeEEEeecCChh-------HHHHHHHHHHHhcCC-CCeEEEEEEecCCCCC
Q 024855 82 PMPLAPIKEEIESSFFSFDVANGNGTQEEDIIYVAVGKSQS-------SMDALSWTLRHAVNP-STLIFLIHVFPQVKFV 153 (261)
Q Consensus 82 ~~p~~~~~~~~~~~~~~~~~~~~~~~~~~kkILVaVDgSe~-------S~~AL~~Al~~A~~~-ga~L~LLHVv~~~~~~ 153 (261)
|.||+.++++. | ..+++||||+|+|+. +..||++|+++|+.. +++|++|||++.....
T Consensus 138 ~~pvlvv~~~~----~----------~~~~~Ilva~D~s~~~~~~~~~~~~al~~a~~la~~~~~a~l~ll~v~~~~~~~ 203 (305)
T PRK11175 138 PCPVLMVKDQD----W----------PEGGKILVAVNVASEEPYHDALNEKLVEEAIDLAEQLNHAEVHLVNAYPVTPIN 203 (305)
T ss_pred CCCEEEecccc----c----------CCCCeEEEEeCCCCCccchhHHHHHHHHHHHHHHhhCcCCceEEEEEecCcchh
Confidence 68899888531 1 146899999999875 368999999999987 9999999998754310
Q ss_pred CCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcEE-EEEEEcCChHHHHHHhhhhCCCcEEEECCC-C
Q 024855 154 PSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDTCSQSKVMVD-TVLIESDLVAKAILDLIPVLNIRKLVVGTT-K 231 (261)
Q Consensus 154 p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~~~~~gV~ve-~~vieGd~~aeaIv~~A~e~~aDLIVmGsr-~ 231 (261)
. ...++ ... ...+.+..+++.++.++++.+. .+++.+ .++..|+ +++.|+++|+++++||||||+| +
T Consensus 204 ~--~~~~~--~~~---~~~~~~~~~~~~~~~l~~~~~~---~~~~~~~~~v~~G~-~~~~I~~~a~~~~~DLIVmG~~~~ 272 (305)
T PRK11175 204 I--AIELP--EFD---PSVYNDAIRGQHLLAMKALRQK---FGIDEEQTHVEEGL-PEEVIPDLAEHLDAELVILGTVGR 272 (305)
T ss_pred c--ccccc--ccc---hhhHHHHHHHHHHHHHHHHHHH---hCCChhheeeccCC-HHHHHHHHHHHhCCCEEEECCCcc
Confidence 0 00011 001 1223333444445555555443 355543 3445555 5899999999999999999999 6
Q ss_pred CCcccccccceeccHHHHHhccCCcceeeC
Q 024855 232 SSLRFHFHSINFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 232 sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
+++.+ +++||++++|+++++||||.+
T Consensus 273 ~~~~~----~llGS~a~~v~~~~~~pVLvv 298 (305)
T PRK11175 273 TGLSA----AFLGNTAEHVIDHLNCDLLAI 298 (305)
T ss_pred CCCcc----eeecchHHHHHhcCCCCEEEE
Confidence 66665 778999999999999999964
No 12
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=99.79 E-value=7.5e-18 Score=135.83 Aligned_cols=144 Identities=19% Similarity=0.161 Sum_probs=111.4
Q ss_pred CCCeEEEeec-CChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHH
Q 024855 109 EEDIIYVAVG-KSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQK 187 (261)
Q Consensus 109 ~~kkILVaVD-gSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek 187 (261)
.+++||+++| +++.+..|+++|...+...+..+.+++|.+............. ...............++.++.
T Consensus 4 ~~~~il~~~d~~s~~~~~a~~~a~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~ 78 (154)
T COG0589 4 MYKKILVAVDVGSEAAEKALEEAVALAKRLGAPLILLVVIDPLEPTALVSVALA-----DAPIPLSEEELEEEAEELLAE 78 (154)
T ss_pred ccceEEEEeCCCCHHHHHHHHHHHHHHHhcCCeEEEEEEecccccccccccccc-----cchhhhhHHHHHHHHHHHHHH
Confidence 5789999999 9999999999999999999999999999976543211111000 000111223344556777788
Q ss_pred HHHHhhcCCCc-EEEEEEEcCChHHHHHHhhhhCCCcEEEECCC-CCCcccccccceeccHHHHHhccCCcceeeC
Q 024855 188 FLDTCSQSKVM-VDTVLIESDLVAKAILDLIPVLNIRKLVVGTT-KSSLRFHFHSINFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 188 ~~~~~~~~gV~-ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr-~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
+.+.+...+++ ++..+..|.+..+.|++++.++++|+||||++ ++++.+ +++||++++|+++++||||++
T Consensus 79 ~~~~~~~~~~~~~~~~~~~g~~~~~~i~~~a~~~~adliV~G~~g~~~l~~----~llGsvs~~v~~~~~~pVlvv 150 (154)
T COG0589 79 AKALAEAAGVPVVETEVVEGSPSAEEILELAEEEDADLIVVGSRGRSGLSR----LLLGSVAEKVLRHAPCPVLVV 150 (154)
T ss_pred HHHHHHHcCCCeeEEEEecCCCcHHHHHHHHHHhCCCEEEECCCCCccccc----eeeehhHHHHHhcCCCCEEEE
Confidence 88888888888 47788888886799999999999999999999 455554 788999999999999999984
No 13
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=99.78 E-value=1.8e-17 Score=128.93 Aligned_cols=130 Identities=25% Similarity=0.283 Sum_probs=105.0
Q ss_pred eEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHH
Q 024855 112 IIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDT 191 (261)
Q Consensus 112 kILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~ 191 (261)
+||||+|+++.+..+++||..+|...+++|++|||.++....+ . ...+....+.++.++.+...
T Consensus 1 ~ilv~i~~~~~~~~~l~~a~~~a~~~~~~i~~l~v~~~~~~~~------------~----~~~~~~~~~~~~~l~~~~~~ 64 (130)
T cd00293 1 RILVAVDGSEESERALRWAARLARRLGAELVLLHVVDPPPSSA------------A----ELAELLEEEARALLEALREA 64 (130)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHhcCCEEEEEEEecCCCCcc------------h----hHHHHHHHHHHHHHHHHHHH
Confidence 6999999999999999999999999999999999987643210 0 12223345566778888777
Q ss_pred hhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCCCCcccccccceeccHHHHHhccCCcceeeC
Q 024855 192 CSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 192 ~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
+...+++++..+..|.+ ++.|++++++.++|+||||+++.+... .++.|+++.+++++++|||+.+
T Consensus 65 ~~~~~~~~~~~~~~~~~-~~~i~~~~~~~~~dlvvig~~~~~~~~---~~~~~~~~~~ll~~~~~pvliv 130 (130)
T cd00293 65 LAEAGVKVETVVLEGDP-AEAILEAAEELGADLIVMGSRGRSGLR---RLLLGSVAERVLRHAPCPVLVV 130 (130)
T ss_pred HhcCCCceEEEEecCCC-HHHHHHHHHHcCCCEEEEcCCCCCccc---eeeeccHHHHHHhCCCCCEEeC
Confidence 77778988888777776 899999999999999999999554432 2667999999999999999864
No 14
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=99.58 E-value=2.4e-14 Score=135.25 Aligned_cols=107 Identities=14% Similarity=0.218 Sum_probs=78.1
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCC--CCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHH
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNP--STLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQ 186 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~--ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Le 186 (261)
.|+|||||+|||+.|++|+++|+++|+.. +++|++|||++..... . ..+ ...+..+++++
T Consensus 4 ~ykkILVavDGSe~S~~Al~~AielA~~~g~~AeL~lL~Vv~~~~~~----~-------~~~-------~~~~~~eelle 65 (357)
T PRK12652 4 AANRLLVPVADSVTVRQTVAYAVESAEEAAETPTVHLVAAASGRAVD----P-------EGQ-------DELAAAEELLE 65 (357)
T ss_pred ccCeEEEEeCCCHHHHHHHHHHHHHHHhcCCCCEEEEEEEecCcccc----c-------chh-------HHHHHHHHHHH
Confidence 78999999999999999999999999874 6999999999854210 0 001 11112222333
Q ss_pred HHHHHhh------cCCCcEEEEEEEc-------CChHHHHHHhhhhCCCcEEEECCC-CCC
Q 024855 187 KFLDTCS------QSKVMVDTVLIES-------DLVAKAILDLIPVLNIRKLVVGTT-KSS 233 (261)
Q Consensus 187 k~~~~~~------~~gV~ve~~vieG-------d~~aeaIv~~A~e~~aDLIVmGsr-~sg 233 (261)
++.+.++ ..|+++++.++.+ +++++.|+++|+++++||||||-. ..|
T Consensus 66 ~~~~~~~~~l~~~~~gV~ve~~vv~~~~~~~~~G~pae~Iv~~Aee~~aDLIVm~~~~~~~ 126 (357)
T PRK12652 66 RVEVWATEDLGDDASSVTIETALLGTDEYLFGPGDYAEVLIAYAEEHGIDRVVLDPEYNPG 126 (357)
T ss_pred HHHHHHHHhhhcccCCCceEEEEEeccccccCCCCHHHHHHHHHHHcCCCEEEECCCCCCC
Confidence 3333332 2689999888763 456999999999999999999999 444
No 15
>PRK10490 sensor protein KdpD; Provisional
Probab=99.09 E-value=8e-10 Score=115.52 Aligned_cols=117 Identities=14% Similarity=0.143 Sum_probs=88.8
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHH
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKF 188 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~ 188 (261)
..++|||+|++++.+.+++++|.++|.+.++++++|||..+... .... +. +..+.+.
T Consensus 249 ~~eriLV~v~~~~~~~~lIr~~~rlA~~~~a~~~~l~V~~~~~~-----------~~~~--------~~----~~~l~~~ 305 (895)
T PRK10490 249 TRDAILLCIGHNTGSEKLVRTAARLAARLGSVWHAVYVETPRLH-----------RLPE--------KK----RRAILSA 305 (895)
T ss_pred cCCeEEEEECCCcchHHHHHHHHHHHHhcCCCEEEEEEecCCcC-----------cCCH--------HH----HHHHHHH
Confidence 56899999999999999999999999999999999999754210 0011 01 1122333
Q ss_pred HHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCCCCcccccccceeccHHHHHhccCC
Q 024855 189 LDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFS 255 (261)
Q Consensus 189 ~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ 255 (261)
.+.+++.|.++ +.+.|++++++|++||++++++.||||.++.+. + ++.||++++++|.++
T Consensus 306 ~~lA~~lGa~~--~~~~~~dva~~i~~~A~~~~vt~IViG~s~~~~-~----~~~~s~~~~l~r~~~ 365 (895)
T PRK10490 306 LRLAQELGAET--ATLSDPAEEKAVLRYAREHNLGKIIIGRRASRR-W----WRRESFADRLARLGP 365 (895)
T ss_pred HHHHHHcCCEE--EEEeCCCHHHHHHHHHHHhCCCEEEECCCCCCC-C----ccCCCHHHHHHHhCC
Confidence 34667667664 456788899999999999999999999994332 1 346899999999876
No 16
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=98.85 E-value=1.8e-08 Score=102.64 Aligned_cols=119 Identities=18% Similarity=0.097 Sum_probs=92.7
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHH
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKF 188 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~ 188 (261)
...+|||++++++.+.+.+++|.++|.+.++++++|||..+... + .. ++.+..|++.
T Consensus 247 ~~e~ilvcI~~~~~~e~liR~a~RlA~~~~a~~~av~v~~~~~~-----~------~~------------~~~~~~l~~~ 303 (890)
T COG2205 247 ARERILVCISGSPGSEKLIRRAARLASRLHAKWTAVYVETPELH-----R------LS------------EKEARRLHEN 303 (890)
T ss_pred ccceEEEEECCCCchHHHHHHHHHHHHHhCCCeEEEEEeccccc-----c------cc------------HHHHHHHHHH
Confidence 45899999999999999999999999999999999999755421 0 00 1223345666
Q ss_pred HHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCCCCcccccccceeccHHHHHhccCC
Q 024855 189 LDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFS 255 (261)
Q Consensus 189 ~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ 255 (261)
...+++.|-++ ..+.|++++++|++||+.+++..||||.++....+ .++.|+.++++++.++
T Consensus 304 ~~Lae~lGae~--~~l~~~dv~~~i~~ya~~~~~TkiViG~~~~~rw~---~~~~~~l~~~L~~~~~ 365 (890)
T COG2205 304 LRLAEELGAEI--VTLYGGDVAKAIARYAREHNATKIVIGRSRRSRWR---RLFKGSLADRLAREAP 365 (890)
T ss_pred HHHHHHhCCeE--EEEeCCcHHHHHHHHHHHcCCeeEEeCCCcchHHH---HHhcccHHHHHHhcCC
Confidence 66777766544 45668889999999999999999999999443322 3566999999999875
No 17
>cd01984 AANH_like Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide.
Probab=98.49 E-value=5.2e-07 Score=67.51 Aligned_cols=84 Identities=12% Similarity=0.036 Sum_probs=68.8
Q ss_pred EEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHh
Q 024855 113 IYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDTC 192 (261)
Q Consensus 113 ILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~~ 192 (261)
||||++|+..|..++.||.+.+ +.+.+++++|+.
T Consensus 1 ilv~~sgg~dS~~~l~~~~~~~-~~~~~~~~~~~~--------------------------------------------- 34 (86)
T cd01984 1 ILVALSGGLDSSVLLHLAKRLK-SGGPEVVALVVV--------------------------------------------- 34 (86)
T ss_pred CEEEeeCCHHHHHHHHHHHHHH-hcCCCEEEEEeH---------------------------------------------
Confidence 6899999999999999999987 557788888861
Q ss_pred hcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCCCCcccccccceec-cHHHHHhccCCcceee
Q 024855 193 SQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTKSSLRFHFHSINFN-GIGTLILFYFSILLFC 260 (261)
Q Consensus 193 ~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~sgl~~~~r~l~lG-SVA~~Vlr~A~ipv~~ 260 (261)
...+.+.+.++++++|+|++|++...... .+++| +++.++++.+.||||-
T Consensus 35 ---------------~~~~~~~~~a~~~~~~~Iv~G~~~~d~~~---~~~~~~~~~~~~~~~~~~~vl~ 85 (86)
T cd01984 35 ---------------AFVRILKRLAAEEGADVIILGHNADDVAG---RRLGASANVLVVIKGAGIPVLT 85 (86)
T ss_pred ---------------HHHHHHHHHHHHcCCCEEEEcCCchhhhh---hccCchhhhhhcccccCCceeC
Confidence 34677888888899999999999544333 24556 8999999999999984
No 18
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).
Probab=97.12 E-value=0.0076 Score=51.27 Aligned_cols=94 Identities=14% Similarity=0.157 Sum_probs=63.3
Q ss_pred eEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHH
Q 024855 112 IIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDT 191 (261)
Q Consensus 112 kILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~ 191 (261)
||+|++.|...|.-++.++.+.+...+.++.++||-.... ... .+..+.+.+.
T Consensus 1 ~v~va~SGG~DS~~ll~ll~~~~~~~~~~v~~v~vd~g~~---------------~~~------------~~~~~~~~~~ 53 (189)
T TIGR02432 1 RILVAVSGGVDSMALLHLLLKLQPKLKIRLIAAHVDHGLR---------------PES------------DEEAEFVQQF 53 (189)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHcCCCEEEEEeCCCCC---------------hhH------------HHHHHHHHHH
Confidence 6899999999999999999887766677899999842210 000 0112333445
Q ss_pred hhcCCCcEEEEEEEc--------CChH--------HHHHHhhhhCCCcEEEECCCCC
Q 024855 192 CSQSKVMVDTVLIES--------DLVA--------KAILDLIPVLNIRKLVVGTTKS 232 (261)
Q Consensus 192 ~~~~gV~ve~~vieG--------d~~a--------eaIv~~A~e~~aDLIVmGsr~s 232 (261)
|+..|+++...-+.. .... ..+.++|++++++.|+.|++..
T Consensus 54 ~~~~gi~~~~~~~~~~~~~~~~~~~~~~~~r~~R~~~l~~~a~~~g~~~i~~Gh~~~ 110 (189)
T TIGR02432 54 CKKLNIPLEIKKVDVKALAKGKKKNLEEAAREARYDFFEEIAKKHGADYILTAHHAD 110 (189)
T ss_pred HHHcCCCEEEEEecchhhccccCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCccH
Confidence 566677765443321 1122 5788899999999999999943
No 19
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=96.96 E-value=0.0052 Score=64.46 Aligned_cols=149 Identities=9% Similarity=0.106 Sum_probs=84.4
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhc--CCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHH
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAV--NPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQ 186 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~--~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Le 186 (261)
..-|||+++-..++-...++.+-.... +..-.++++|+++...... +. +...+..... .....+...+.++++.
T Consensus 457 ~elriL~cv~~~~~v~~li~Lle~s~~t~~sp~~vy~lhLveL~~r~~-~~--l~~h~~~~~~-~~~~~~~~~~~~~i~~ 532 (832)
T PLN03159 457 AELRMLVCVHTPRNVPTIINLLEASHPTKRSPICIYVLHLVELTGRAS-AM--LIVHNTRKSG-RPALNRTQAQSDHIIN 532 (832)
T ss_pred CceeEEEEeccCCcHHHHHHHHHhcCCCCCCCceEEEEEEEeecCCCc-cc--eeeeeccccc-ccccccccccccHHHH
Confidence 345999999988877777776543222 2346899999998542110 00 0000000000 0000000111234444
Q ss_pred HHHHHhhc-CCCcEEEEEE--EcCChHHHHHHhhhhCCCcEEEECCCCC-Ccccc--cccceeccHHHHHhccCCcceee
Q 024855 187 KFLDTCSQ-SKVMVDTVLI--ESDLVAKAILDLIPVLNIRKLVVGTTKS-SLRFH--FHSINFNGIGTLILFYFSILLFC 260 (261)
Q Consensus 187 k~~~~~~~-~gV~ve~~vi--eGd~~aeaIv~~A~e~~aDLIVmGsr~s-gl~~~--~r~l~lGSVA~~Vlr~A~ipv~~ 260 (261)
.+....+. .++.++.... ......+.||..|.+..+++||++=|+. ..... ...-....+-++|+++|||+|-.
T Consensus 533 af~~~~~~~~~v~v~~~t~vs~~~~mh~dIc~~A~d~~~slIilpfhk~~~~dg~~~~~~~~~r~~n~~VL~~ApCsVgI 612 (832)
T PLN03159 533 AFENYEQHAGCVSVQPLTAISPYSTMHEDVCNLAEDKRVSLIIIPFHKQQTVDGGMEATNPAFRGVNQNVLANAPCSVGI 612 (832)
T ss_pred HHHHHHhhcCceEEEEEEEEeCcccHHHHHHHHHHhcCCCEEEECCCCccCCCCCccccCchHHHHHHHHHccCCCCEEE
Confidence 44433322 2566664433 3447899999999999999999999942 22110 00012357889999999999865
Q ss_pred C
Q 024855 261 F 261 (261)
Q Consensus 261 ~ 261 (261)
|
T Consensus 613 l 613 (832)
T PLN03159 613 L 613 (832)
T ss_pred E
Confidence 3
No 20
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=96.46 E-value=0.039 Score=46.96 Aligned_cols=93 Identities=16% Similarity=0.193 Sum_probs=56.2
Q ss_pred eEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHH
Q 024855 112 IIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDT 191 (261)
Q Consensus 112 kILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~ 191 (261)
||+||+.|...|...+.....+....+-++.++||-.... + ... ... +...+.
T Consensus 1 ki~va~SGG~DS~~Ll~~l~~~~~~~~~~~~~~~vdh~~~---------~----~s~-----------~~~---~~v~~~ 53 (182)
T PF01171_consen 1 KILVAVSGGKDSMALLHLLKELRRRNGIKLIAVHVDHGLR---------E----ESD-----------EEA---EFVEEI 53 (182)
T ss_dssp EEEEE--SSHHHHHHHHHHHHHHTTTTTEEEEEEEE-STS---------C----CHH-----------HHH---HHHHHH
T ss_pred CEEEEEcCCHHHHHHHHHHHHHHHhcCCCeEEEEEecCCC---------c----ccc-----------hhH---HHHHHH
Confidence 7999999999999999998888887788999999964321 0 000 001 123334
Q ss_pred hhcCCCcEEEEEEE-----cCCh--------HHHHHHhhhhCCCcEEEECCCC
Q 024855 192 CSQSKVMVDTVLIE-----SDLV--------AKAILDLIPVLNIRKLVVGTTK 231 (261)
Q Consensus 192 ~~~~gV~ve~~vie-----Gd~~--------aeaIv~~A~e~~aDLIVmGsr~ 231 (261)
|+..+++....-+. +... .+.+.++|.+++++.|++|.|.
T Consensus 54 ~~~~~i~~~~~~~~~~~~~~~~~e~~aR~~Ry~~l~~~a~~~g~~~i~~GHh~ 106 (182)
T PF01171_consen 54 CEQLGIPLYIVRIDEDRKKGSNIEECARELRYQFLREIAKEEGCNKIALGHHL 106 (182)
T ss_dssp HHHTT-EEEEEE--CHCCTTSTCHHHHHHHHHHHHHHHHHTTT-CEEE---BH
T ss_pred HHhcCCceEEEEeeeeecccCCHHHHHHHHHHHHHHHhhhcccccceeecCcC
Confidence 66667776654433 1111 2466689999999999999993
No 21
>cd01992 PP-ATPase N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This domain has a strongly conserved motif SGGXD at the N terminus.
Probab=96.35 E-value=0.045 Score=46.07 Aligned_cols=95 Identities=14% Similarity=0.087 Sum_probs=61.9
Q ss_pred eEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHH
Q 024855 112 IIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDT 191 (261)
Q Consensus 112 kILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~ 191 (261)
+|+|++.|...|.-++.++.+.....+.++.++|+-.... . .. .+.++.+.+.
T Consensus 1 ~v~v~~SGG~DS~vl~~l~~~~~~~~~~~v~~v~id~~~~--------------~-~~------------~~~~~~~~~~ 53 (185)
T cd01992 1 KILVAVSGGPDSMALLHLLSELKPRLGLRLVAVHVDHGLR--------------P-ES------------DEEAAFVADL 53 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHHHcCCcEEEEEecCCCC--------------c-hH------------HHHHHHHHHH
Confidence 6899999999999999999887765577899999842210 0 00 1112233344
Q ss_pred hhcCCCcEEEE--EE-EcCC----------hHHHHHHhhhhCCCcEEEECCCCCC
Q 024855 192 CSQSKVMVDTV--LI-ESDL----------VAKAILDLIPVLNIRKLVVGTTKSS 233 (261)
Q Consensus 192 ~~~~gV~ve~~--vi-eGd~----------~aeaIv~~A~e~~aDLIVmGsr~sg 233 (261)
|+..|++.+.. .. .+.. ....+.++|++++++.|+.|++...
T Consensus 54 ~~~~~i~~~~~~~~~~~~~~~~~~~~~r~~r~~~l~~~a~~~~~~~i~~Gh~~dD 108 (185)
T cd01992 54 CAKLGIPLYILVVALAPKPGGNLEAAAREARYDFFAEIAKEHGADVLLTAHHADD 108 (185)
T ss_pred HHHcCCcEEEEeeccccCCCCCHHHHHHHHHHHHHHHHHHHcCCCEEEEcCCcHH
Confidence 55567776643 11 1111 0145778999999999999999543
No 22
>PRK12342 hypothetical protein; Provisional
Probab=95.32 E-value=0.12 Score=47.15 Aligned_cols=108 Identities=19% Similarity=0.185 Sum_probs=67.4
Q ss_pred ecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q 024855 117 VGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDTCSQSK 196 (261)
Q Consensus 117 VDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~~~~~g 196 (261)
.-.++...+||+.|+++. ..|.+|++|++=|+.. +...++.++..+-.+.+
T Consensus 31 ~~iNp~D~~AlE~AlrLk-~~g~~Vtvls~Gp~~a----------------------------~~~~l~r~alamGaD~a 81 (254)
T PRK12342 31 AKISQFDLNAIEAASQLA-TDGDEIAALTVGGSLL----------------------------QNSKVRKDVLSRGPHSL 81 (254)
T ss_pred ccCChhhHHHHHHHHHHh-hcCCEEEEEEeCCChH----------------------------hHHHHHHHHHHcCCCEE
Confidence 345788999999999998 6789999999732210 01112344444433333
Q ss_pred CcEEEEEEEcCCh---HHHHHHhhhhCCCcEEEECCCCCCcccccccceeccHHHHHhccCCcceee
Q 024855 197 VMVDTVLIESDLV---AKAILDLIPVLNIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFSILLFC 260 (261)
Q Consensus 197 V~ve~~vieGd~~---aeaIv~~A~e~~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~ 260 (261)
+-+......|.++ +..|..++++.++|||+.|....-... |-|...+...-.+|.++
T Consensus 82 vli~d~~~~g~D~~ata~~La~~i~~~~~DLVl~G~~s~D~~t-------gqvg~~lA~~Lg~P~vt 141 (254)
T PRK12342 82 YLVQDAQLEHALPLDTAKALAAAIEKIGFDLLLFGEGSGDLYA-------QQVGLLLGELLQLPVIN 141 (254)
T ss_pred EEEecCccCCCCHHHHHHHHHHHHHHhCCCEEEEcCCcccCCC-------CCHHHHHHHHhCCCcEe
Confidence 3333221223343 788999999999999999988432221 45666666666666654
No 23
>cd01993 Alpha_ANH_like_II This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=94.66 E-value=0.33 Score=40.57 Aligned_cols=37 Identities=16% Similarity=-0.003 Sum_probs=29.7
Q ss_pred eEEEeecCChhHHHHHHHHHHHhcCC--CCeEEEEEEec
Q 024855 112 IIYVAVGKSQSSMDALSWTLRHAVNP--STLIFLIHVFP 148 (261)
Q Consensus 112 kILVaVDgSe~S~~AL~~Al~~A~~~--ga~L~LLHVv~ 148 (261)
+|+|++.|...|.-++.++.+..... +-+++++|+-.
T Consensus 1 ~v~v~~SGG~DS~~ll~~l~~~~~~~~~~~~~~~~~~d~ 39 (185)
T cd01993 1 RILVALSGGKDSLVLLHVLKKLQRRYPYGFELEALTVDE 39 (185)
T ss_pred CEEEEeCCCHHHHHHHHHHHHHHhhcCCCeEEEEEEEEC
Confidence 68999999999999988877765433 56899999853
No 24
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=94.34 E-value=0.75 Score=48.57 Aligned_cols=118 Identities=13% Similarity=0.191 Sum_probs=66.7
Q ss_pred CCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCC--CCCCCCCCCChhHHHHHHHHHHHHHHHHHHH
Q 024855 110 EDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSP--LGKLPRNQVNPEQLETFMAQETGKRRQLLQK 187 (261)
Q Consensus 110 ~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~--~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek 187 (261)
..+|.+..=|.+.-+.||.+|.+++..++..++++|.++........ ....+.+...++..+. .+++++.=++.+++
T Consensus 630 ~~~v~~~F~GG~DDREALa~a~rma~~p~v~lTVirf~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~e~~~D~~~~~e 708 (832)
T PLN03159 630 SHHVAVLFFGGPDDREALAYAWRMSEHPGITLTVMRFIPGEDAAPTASQPASSPSDPRIPTVETD-GKKERQLDEEYINE 708 (832)
T ss_pred ceeEEEEecCCcchHHHHHHHHHHhcCCCeEEEEEEEEccccccccccccccccccccccccccc-chhHHHHHHHHHHH
Confidence 45999999888999999999999999999999999998653211000 0000100000000000 01122223456777
Q ss_pred HHHHhhc-CCCcEEEEEEEc-CChHHHHHHhhhhCCCcEEEECCC
Q 024855 188 FLDTCSQ-SKVMVDTVLIES-DLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 188 ~~~~~~~-~gV~ve~~vieG-d~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
++..... ..+.+...++.+ .....+|.+.. .+.||+|+|++
T Consensus 709 f~~~~~~~~~v~y~E~~V~~~~e~~~~l~~~~--~~ydL~iVGr~ 751 (832)
T PLN03159 709 FRARNAGNESIVYTEKVVSNGEETVAAIRSMD--SAHDLFIVGRG 751 (832)
T ss_pred HHHhcCCCCceEEEEEecCCHHHHHHHHHHhh--ccCcEEEEecC
Confidence 7765532 345565555532 22223333332 24999999987
No 25
>PRK03359 putative electron transfer flavoprotein FixA; Reviewed
Probab=93.38 E-value=0.46 Score=43.33 Aligned_cols=107 Identities=14% Similarity=0.078 Sum_probs=65.0
Q ss_pred cCChhHHHHHHHHHHHhcCCC-CeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHhhcCC
Q 024855 118 GKSQSSMDALSWTLRHAVNPS-TLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDTCSQSK 196 (261)
Q Consensus 118 DgSe~S~~AL~~Al~~A~~~g-a~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~~~~~g 196 (261)
-.++...+||+.|+++..+.+ .+|++|++=|+.. +....|+++..+-.+.+
T Consensus 33 ~iN~~D~~AlE~Alrlke~~~g~~Vtvvs~Gp~~a----------------------------~~~~~lr~aLAmGaD~a 84 (256)
T PRK03359 33 KISQYDLNAIEAACQLKQQAAEAQVTALSVGGKAL----------------------------TNAKGRKDVLSRGPDEL 84 (256)
T ss_pred ccChhhHHHHHHHHHHhhhcCCCEEEEEEECCcch----------------------------hhHHHHHHHHHcCCCEE
Confidence 357888999999999987654 7999999732210 01123444544433333
Q ss_pred CcEEEEEEEc-C--ChHHHHHHhhhhCCCcEEEECCCCCCcccccccceeccHHHHHhccCCccee
Q 024855 197 VMVDTVLIES-D--LVAKAILDLIPVLNIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFSILLF 259 (261)
Q Consensus 197 V~ve~~vieG-d--~~aeaIv~~A~e~~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~ 259 (261)
+-+...-..| | ..+..|..++++.++|||+.|.+..-.. .|-|...+...-.+|.+
T Consensus 85 vli~d~~~~g~D~~~tA~~La~ai~~~~~DLVl~G~~s~D~~-------tgqvg~~lAe~Lg~P~v 143 (256)
T PRK03359 85 IVVIDDQFEQALPQQTASALAAAAQKAGFDLILCGDGSSDLY-------AQQVGLLVGEILNIPAI 143 (256)
T ss_pred EEEecCcccCcCHHHHHHHHHHHHHHhCCCEEEEcCccccCC-------CCcHHHHHHHHhCCCce
Confidence 3332111111 1 3478888999999999999998843221 13455555555555554
No 26
>PRK10696 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional
Probab=93.35 E-value=1.3 Score=39.95 Aligned_cols=93 Identities=12% Similarity=0.107 Sum_probs=59.1
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCC--CCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHH
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNP--STLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQ 186 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~--ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Le 186 (261)
+.++|+||+.|...|.-.|.++.++.... +-+|..+|+-.... + ...+ .
T Consensus 28 ~~~kilVa~SGG~DS~~LL~ll~~l~~~~~~~~~l~av~vd~g~~------~------~~~~---------------~-- 78 (258)
T PRK10696 28 EGDRVMVCLSGGKDSYTLLDILLNLQKRAPINFELVAVNLDQKQP------G------FPEH---------------V-- 78 (258)
T ss_pred CCCEEEEEecCCHHHHHHHHHHHHHHHhCCCCeEEEEEEecCCCC------C------CCHH---------------H--
Confidence 56799999999999998888877765432 34788888742210 0 0100 1
Q ss_pred HHHHHhhcCCCcEEEEEEE-----------cCC--------hHHHHHHhhhhCCCcEEEECCCC
Q 024855 187 KFLDTCSQSKVMVDTVLIE-----------SDL--------VAKAILDLIPVLNIRKLVVGTTK 231 (261)
Q Consensus 187 k~~~~~~~~gV~ve~~vie-----------Gd~--------~aeaIv~~A~e~~aDLIVmGsr~ 231 (261)
+.+.|+..|+++..+-.. +.. -...+.++|+++++|.|++|.|.
T Consensus 79 -~~~~~~~lgI~~~v~~~~~~~~~~~~~~~~~~~c~~c~~~R~~~l~~~a~~~g~~~Ia~GH~~ 141 (258)
T PRK10696 79 -LPEYLESLGVPYHIEEQDTYSIVKEKIPEGKTTCSLCSRLRRGILYRTARELGATKIALGHHR 141 (258)
T ss_pred -HHHHHHHhCCCEEEEEecchhhhhhhhccCCChhHHHHHHHHHHHHHHHHHcCCCEEEEcCch
Confidence 123456667776533221 111 12456788999999999999994
No 27
>COG0037 MesJ tRNA(Ile)-lysidine synthase MesJ [Cell cycle control, cell division, chromosome partitioning]
Probab=93.24 E-value=0.71 Score=41.82 Aligned_cols=38 Identities=24% Similarity=0.130 Sum_probs=31.0
Q ss_pred CCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecC
Q 024855 110 EDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQ 149 (261)
Q Consensus 110 ~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~ 149 (261)
.++|+||+.|.+.|.-+|....++... -.+.++||...
T Consensus 21 ~~~ilVavSGGkDS~~ll~~L~~l~~~--~~~~a~~Vd~~ 58 (298)
T COG0037 21 EYKILVAVSGGKDSLALLHLLKELGRR--IEVEAVHVDHG 58 (298)
T ss_pred CCeEEEEeCCChHHHHHHHHHHHhccC--ceEEEEEecCC
Confidence 479999999999999998777666543 78999999543
No 28
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=90.84 E-value=1 Score=41.25 Aligned_cols=86 Identities=12% Similarity=0.155 Sum_probs=56.4
Q ss_pred eecCChhHHHHHHHHHHHhc-CCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHhhc
Q 024855 116 AVGKSQSSMDALSWTLRHAV-NPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDTCSQ 194 (261)
Q Consensus 116 aVDgSe~S~~AL~~Al~~A~-~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~~~~ 194 (261)
+...++....|++.|+++.. .++.++++|++=|+ .+++.+.++..+-.+
T Consensus 32 ~~~in~~D~~AvEeAlrLke~~~~~eV~vlt~Gp~------------------------------~a~~~lr~aLAmGaD 81 (260)
T COG2086 32 PLSINPFDLNAVEEALRLKEKGYGGEVTVLTMGPP------------------------------QAEEALREALAMGAD 81 (260)
T ss_pred CcccChhhHHHHHHHHHhhccCCCceEEEEEecch------------------------------hhHHHHHHHHhcCCC
Confidence 44457888999999999988 58999999997221 112233334333333
Q ss_pred CCCcEEEEEEEc---CChHHHHHHhhhhCCCcEEEECCCC
Q 024855 195 SKVMVDTVLIES---DLVAKAILDLIPVLNIRKLVVGTTK 231 (261)
Q Consensus 195 ~gV~ve~~vieG---d~~aeaIv~~A~e~~aDLIVmGsr~ 231 (261)
..+-++..-..+ -..+..|...+++.+.|||++|...
T Consensus 82 raili~d~~~~~~d~~~ta~~Laa~~~~~~~~LVl~G~qa 121 (260)
T COG2086 82 RAILITDRAFAGADPLATAKALAAAVKKIGPDLVLTGKQA 121 (260)
T ss_pred eEEEEecccccCccHHHHHHHHHHHHHhcCCCEEEEeccc
Confidence 333232111112 2457889999999999999999984
No 29
>TIGR00268 conserved hypothetical protein TIGR00268. The N-terminal region of the model shows similarity to Argininosuccinate synthase proteins using PSI-blast and using the recognize protein identification server.
Probab=90.42 E-value=3.1 Score=37.42 Aligned_cols=35 Identities=17% Similarity=0.047 Sum_probs=28.7
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
.+++|+|++.|...|.-++.++.+. +.++..||+.
T Consensus 11 ~~~~vlVa~SGGvDSs~ll~la~~~----g~~v~av~~~ 45 (252)
T TIGR00268 11 EFKKVLIAYSGGVDSSLLAAVCSDA----GTEVLAITVV 45 (252)
T ss_pred hcCCEEEEecCcHHHHHHHHHHHHh----CCCEEEEEec
Confidence 4679999999999999888777653 5678899984
No 30
>PRK10660 tilS tRNA(Ile)-lysidine synthetase; Provisional
Probab=86.21 E-value=5.5 Score=38.94 Aligned_cols=39 Identities=26% Similarity=0.240 Sum_probs=31.2
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHh-cCCCCeEEEEEEe
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHA-VNPSTLIFLIHVF 147 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A-~~~ga~L~LLHVv 147 (261)
+.++|+||+.|...|.-.+....+.. ...+-+++++||-
T Consensus 14 ~~~~ilvavSGG~DS~~Ll~~l~~~~~~~~~~~l~a~hvn 53 (436)
T PRK10660 14 TSRQILVAFSGGLDSTVLLHLLVQWRTENPGVTLRAIHVH 53 (436)
T ss_pred CCCeEEEEecCCHHHHHHHHHHHHHHHhcCCCeEEEEEEe
Confidence 56899999999999998887766544 2347799999994
No 31
>cd01990 Alpha_ANH_like_I This is a subfamily of Adenine nucleotide alpha hydrolases superfamily. Adenine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins probably binds ATP. This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N terminus.
Probab=85.22 E-value=9 Score=32.70 Aligned_cols=32 Identities=13% Similarity=0.058 Sum_probs=25.0
Q ss_pred EEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 113 IYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 113 ILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
|+|++.|...|.-++.++.+.. +.++..||+.
T Consensus 1 vvva~SGG~DS~~ll~ll~~~~---~~~v~~v~vd 32 (202)
T cd01990 1 VAVAFSGGVDSTLLLKAAVDAL---GDRVLAVTAT 32 (202)
T ss_pred CEEEccCCHHHHHHHHHHHHHh---CCcEEEEEeC
Confidence 6899999999998888876653 2378888884
No 32
>PRK13820 argininosuccinate synthase; Provisional
Probab=84.55 E-value=13 Score=36.12 Aligned_cols=36 Identities=6% Similarity=-0.071 Sum_probs=29.3
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCC-eEEEEEEe
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPST-LIFLIHVF 147 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga-~L~LLHVv 147 (261)
++++|+|++.|...|.-++.|+.+. .+. +++.+|+-
T Consensus 1 ~~~kVvvA~SGGvDSsvll~lL~e~---~g~~~Viav~vd 37 (394)
T PRK13820 1 MMKKVVLAYSGGLDTSVCVPLLKEK---YGYDEVITVTVD 37 (394)
T ss_pred CCCeEEEEEeCcHHHHHHHHHHHHh---cCCCEEEEEEEE
Confidence 3579999999999999999997543 354 89999984
No 33
>PRK14665 mnmA tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=83.01 E-value=13 Score=35.58 Aligned_cols=35 Identities=9% Similarity=-0.000 Sum_probs=27.7
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
+.++|+|++.|...|.-++.++.+ .+-+++.+|+.
T Consensus 4 ~~~kVlValSGGVDSsvaa~LL~~----~G~~V~~v~~~ 38 (360)
T PRK14665 4 KNKRVLLGMSGGTDSSVAAMLLLE----AGYEVTGVTFR 38 (360)
T ss_pred CCCEEEEEEcCCHHHHHHHHHHHH----cCCeEEEEEEe
Confidence 457999999999999877766644 46788888874
No 34
>PRK05253 sulfate adenylyltransferase subunit 2; Provisional
Probab=82.54 E-value=14 Score=34.56 Aligned_cols=39 Identities=15% Similarity=-0.032 Sum_probs=30.6
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
.+.+|+|++.|.+.|.-.|..|.+.....+..+.+|||-
T Consensus 26 ~f~~~vv~~SGGKDS~VLL~La~ka~~~~~~~~~vl~iD 64 (301)
T PRK05253 26 EFENPVMLYSIGKDSSVMLHLARKAFYPGKLPFPLLHVD 64 (301)
T ss_pred hCCCEEEEecCCHHHHHHHHHHHHhhcccCCCeeEEEEe
Confidence 356899999999999999988876554335578899985
No 35
>cd01712 ThiI ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway. It belongs to the Adenosine Nucleotide Hydrolysis suoerfamily and predicted to bind to Adenosine nucleotide.
Probab=82.04 E-value=29 Score=29.00 Aligned_cols=33 Identities=9% Similarity=-0.057 Sum_probs=27.3
Q ss_pred eEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEec
Q 024855 112 IIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFP 148 (261)
Q Consensus 112 kILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~ 148 (261)
+|+|++.|...|.-++.++.+ .|.+++.+|+..
T Consensus 1 ~vlv~~SGG~DS~~la~ll~~----~g~~v~av~~d~ 33 (177)
T cd01712 1 KALALLSGGIDSPVAAWLLMK----RGIEVDALHFNS 33 (177)
T ss_pred CEEEEecCChhHHHHHHHHHH----cCCeEEEEEEeC
Confidence 589999999999988888765 378899999853
No 36
>PF00875 DNA_photolyase: DNA photolyase from Prosite.; InterPro: IPR006050 DNA photolyases are enzymes that bind to DNA containing pyrimidine dimers: on absorption of visible light, they catalyse dimer splitting into the constituent monomers, a process called photoreactivation []. This is a DNA repair mechanism, repairing mismatched pyrimidine dimers induced by exposure to ultra-violet light []. The precise mechanisms involved in substrate binding, conversion of light energy to the mechanical energy needed to rupture the cyclobutane ring, and subsequent release of the product are uncertain []. Analysis of DNA lyases has revealed the presence of an intrinsic chromophore, all monomers containing a reduced FAD moiety, and, in addition, either a reduced pterin or 8-hydroxy-5-diazaflavin as a second chromophore [, ]. Either chromophore may act as the primary photon acceptor, peak absorptions occurring in the blue region of the spectrum and in the UV-B region, at a wavelength around 290nm []. This domain binds a light harvesting cofactor.; GO: 0003913 DNA photolyase activity, 0006281 DNA repair; PDB: 3UMV_A 2J07_A 1IQU_A 2J09_A 2J08_A 1IQR_A 1DNP_A 3FY4_B 2VTB_A 2J4D_B ....
Probab=81.37 E-value=9.2 Score=31.64 Aligned_cols=84 Identities=11% Similarity=0.159 Sum_probs=48.8
Q ss_pred HHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcEEEEE
Q 024855 124 MDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDTCSQSKVMVDTVL 203 (261)
Q Consensus 124 ~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~~~~~gV~ve~~v 203 (261)
..||..| ...+..|..|+|+++....+.. .. +.-. .-+.+-|....+.+++.|++. .+
T Consensus 14 N~aL~~A----~~~~~~v~~vfv~d~~~~~~~~--------~~-~~r~-------~Fl~~sL~~L~~~L~~~g~~L--~v 71 (165)
T PF00875_consen 14 NPALHAA----AQNGDPVLPVFVFDPEEFHPYR--------IG-PRRR-------RFLLESLADLQESLRKLGIPL--LV 71 (165)
T ss_dssp -HHHHHH----HHTTSEEEEEEEE-HHGGTTCS--------SC-HHHH-------HHHHHHHHHHHHHHHHTTS-E--EE
T ss_pred hHHHHHH----HHcCCCeEEEEEeccccccccc--------Cc-chHH-------HHHHHHHHHHHHHHHhcCcce--EE
Confidence 4456555 3456789999999875211100 01 1111 222334555555566667664 45
Q ss_pred EEcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 204 IESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 204 ieGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
..|+ +.+.|.+++++++++.|+.-..
T Consensus 72 ~~g~-~~~~l~~l~~~~~~~~V~~~~~ 97 (165)
T PF00875_consen 72 LRGD-PEEVLPELAKEYGATAVYFNEE 97 (165)
T ss_dssp EESS-HHHHHHHHHHHHTESEEEEE--
T ss_pred Eecc-hHHHHHHHHHhcCcCeeEeccc
Confidence 5676 4799999999999999998776
No 37
>TIGR00342 thiazole biosynthesis/tRNA modification protein ThiI. The protein product of the thiI gene is required for the synthesis of the thiazole moiety in thiamine biosynthesis. It also acts in the generation of 4-thiouridine in tRNA, and may occur in species (such as Mycoplasma genitalium) that lack de novo thiamine biosynthesis.
Probab=81.03 E-value=32 Score=32.79 Aligned_cols=39 Identities=10% Similarity=0.090 Sum_probs=30.4
Q ss_pred CCCCCCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 105 NGTQEEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 105 ~~~~~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
.+-....++||++.|...|.-|+-++.+ .|.+++.||+.
T Consensus 167 lP~g~~~kvlvllSGGiDS~vaa~ll~k----rG~~V~av~~~ 205 (371)
T TIGR00342 167 LPVGTQGKVLALLSGGIDSPVAAFMMMK----RGCRVVAVHFF 205 (371)
T ss_pred cCcCcCCeEEEEecCCchHHHHHHHHHH----cCCeEEEEEEe
Confidence 3334578999999999999888866543 47899999985
No 38
>PF01012 ETF: Electron transfer flavoprotein domain; InterPro: IPR014730 Electron transfer flavoproteins (ETFs) serve as specific electron acceptors for primary dehydrogenases, transferring the electrons to terminal respiratory systems. They can be functionally classified into constitutive, "housekeeping" ETFs, mainly involved in the oxidation of fatty acids (Group I), and ETFs produced by some prokaryotes under specific growth conditions, receiving electrons only from the oxidation of specific substrates (Group II) []. ETFs are heterodimeric proteins composed of an alpha and beta subunit, and contain an FAD cofactor and AMP [, , , , ]. ETF consists of three domains: domains I and II are formed by the N- and C-terminal portions of the alpha subunit, respectively, while domain III is formed by the beta subunit. Domains I and III share an almost identical alpha-beta-alpha sandwich fold, while domain II forms an alpha-beta-alpha sandwich similar to that of bacterial flavodoxins. FAD is bound in a cleft between domains II and III, while domain III binds the AMP molecule. Interactions between domains I and III stabilise the protein, forming a shallow bowl where domain II resides. This entry represents the N-terminal domain of both the alpha and beta subunits from Group I and Group II ETFs.; PDB: 1EFP_B 3FET_B 3IH5_B 2A1T_S 1EFV_B 1T9G_S 2A1U_B 1O96_E 1O94_C 3CLU_C ....
Probab=80.73 E-value=24 Score=29.05 Aligned_cols=81 Identities=20% Similarity=0.134 Sum_probs=51.0
Q ss_pred ChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcE
Q 024855 120 SQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDTCSQSKVMV 199 (261)
Q Consensus 120 Se~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~~~~~gV~v 199 (261)
++.+..+|..|.+++...|.++++|.+=+.. + . .+.|.+ .+...|+.-
T Consensus 14 ~~~~~e~l~~A~~La~~~g~~v~av~~G~~~-----------------~-~-----------~~~l~~---~l~~~G~d~ 61 (164)
T PF01012_consen 14 NPVSLEALEAARRLAEALGGEVTAVVLGPAE-----------------E-A-----------AEALRK---ALAKYGADK 61 (164)
T ss_dssp -HHHHHHHHHHHHHHHCTTSEEEEEEEETCC-----------------C-H-----------HHHHHH---HHHSTTESE
T ss_pred CHHHHHHHHHHHHHHhhcCCeEEEEEEecch-----------------h-h-----------HHHHhh---hhhhcCCcE
Confidence 5899999999999999889999999863110 0 0 011111 122345432
Q ss_pred EEEEEEcC--------ChHHHHHHhhhhCCCcEEEECCCCCC
Q 024855 200 DTVLIESD--------LVAKAILDLIPVLNIRKLVVGTTKSS 233 (261)
Q Consensus 200 e~~vieGd--------~~aeaIv~~A~e~~aDLIVmGsr~sg 233 (261)
- +.+.+. ..++.|.+++++.++|+|++|+...|
T Consensus 62 v-~~~~~~~~~~~~~~~~a~~l~~~~~~~~~~lVl~~~t~~g 102 (164)
T PF01012_consen 62 V-YHIDDPALAEYDPEAYADALAELIKEEGPDLVLFGSTSFG 102 (164)
T ss_dssp E-EEEE-GGGTTC-HHHHHHHHHHHHHHHT-SEEEEESSHHH
T ss_pred E-EEecCccccccCHHHHHHHHHHHHHhcCCCEEEEcCcCCC
Confidence 2 222221 35678999999999999999987443
No 39
>TIGR00591 phr2 photolyase PhrII. All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=80.00 E-value=16 Score=35.67 Aligned_cols=91 Identities=8% Similarity=0.008 Sum_probs=59.4
Q ss_pred cCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHhhcCCC
Q 024855 118 GKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDTCSQSKV 197 (261)
Q Consensus 118 DgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~~~~~gV 197 (261)
|.--.-..||..|++.|...+..|+.|+|+++.... .+ . ....=+.+-|+...+.+++.|+
T Consensus 32 DLRl~DN~aL~~A~~~a~~~~~~vl~vyi~dp~~~~---~~---------~-------~r~~Fl~esL~~L~~~L~~~g~ 92 (454)
T TIGR00591 32 DQRVQDNWALIAAQTLALKKKLPLHVCFCLVDFFLA---AT---------R-------RHYFFMLGGLDEVANECERLII 92 (454)
T ss_pred chhccCCHHHHHHHHHHHHcCCCEEEEEEeCCCccc---cc---------H-------HHHHHHHHHHHHHHHHHHHcCC
Confidence 555566778888877665456679999998764310 01 1 1112223344555555666677
Q ss_pred cEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 198 MVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 198 ~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
+. ++..|++ .+.|.+++++++|+.|+.-..
T Consensus 93 ~L--~v~~g~~-~~~l~~l~~~~~i~~V~~~~~ 122 (454)
T TIGR00591 93 PF--HLLDGPP-KELLPYFVDLHAAAAVVTDFS 122 (454)
T ss_pred ce--EEeecCh-HHHHHHHHHHcCCCEEEEecc
Confidence 65 3455665 799999999999999999776
No 40
>cd01986 Alpha_ANH_like Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases and ATP sulphurylases. The domain forms a apha/beta/apha fold which binds to Adenosine group..
Probab=79.62 E-value=17 Score=27.64 Aligned_cols=32 Identities=16% Similarity=0.087 Sum_probs=24.9
Q ss_pred EEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEec
Q 024855 113 IYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFP 148 (261)
Q Consensus 113 ILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~ 148 (261)
|+|++.|...|.-.+.++.+.. .++.++|+-.
T Consensus 1 v~v~~SGG~DS~~ll~~l~~~~----~~~~~~~~~~ 32 (103)
T cd01986 1 VLVAFSGGKDSSVAAALLKKLG----YQVIAVTVDH 32 (103)
T ss_pred CEEEEeCcHHHHHHHHHHHHhC----CCEEEEEEcC
Confidence 6899999999988887776642 3688999843
No 41
>cd01985 ETF The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The alpha subunit of ETF is structurally related to the bacterial nitrogen fixation protein fixB which could play a role in a redox process and feed electrons to ferredoxin. The beta subunit protein is distantly related to and forms a heterodimer with the alpha subunit.
Probab=79.24 E-value=37 Score=28.50 Aligned_cols=25 Identities=28% Similarity=0.283 Sum_probs=21.3
Q ss_pred hHHHHHHhhhhCCCcEEEECCCCCC
Q 024855 209 VAKAILDLIPVLNIRKLVVGTTKSS 233 (261)
Q Consensus 209 ~aeaIv~~A~e~~aDLIVmGsr~sg 233 (261)
.++.|.+++++.++|+|++|+...|
T Consensus 79 ~a~~l~~~i~~~~p~~Vl~g~t~~g 103 (181)
T cd01985 79 TAKALAALIKKEKPDLILAGATSIG 103 (181)
T ss_pred HHHHHHHHHHHhCCCEEEECCcccc
Confidence 3688999999999999999999554
No 42
>cd01995 ExsB ExsB is a transcription regulator related protein. It is a subfamily of a Adenosine nucleotide binding superfamily of proteins. This protein family is represented by a single member in nearly every completed large ( 1000 genes) prokaryotic genome. In Rhizobium meliloti, a species in which the exo genes make succinoglycan, a symbiotically important exopolysaccharide, exsB is located nearby and affects succinoglycan levels, probably through polar effects on exsA expression or the same polycistronic mRNA. In Arthrobacter viscosus, the homologous gene is designated ALU1 and is associated with an aluminum tolerance phenotype. The function is unknown
Probab=76.54 E-value=32 Score=28.35 Aligned_cols=32 Identities=13% Similarity=0.173 Sum_probs=25.5
Q ss_pred eEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 112 IIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 112 kILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
||+|++.|...|.-++.++.+ .+.+++.+|+.
T Consensus 1 kvlv~~SGG~DS~~~~~~~~~----~~~~v~~~~~~ 32 (169)
T cd01995 1 KAVVLLSGGLDSTTCLAWAKK----EGYEVHALSFD 32 (169)
T ss_pred CEEEEecCcHHHHHHHHHHHH----cCCcEEEEEEE
Confidence 589999999999988877654 24578889985
No 43
>cd01713 PAPS_reductase This domain is found in phosphoadenosine phosphosulphate (PAPS) reductase enzymes or PAPS sulphotransferase. PAPS reductase is part of the adenine nucleotide alpha hydrolases superfamily also including N type ATP PPases and ATP sulphurylases. A highly modified version of the P loop, the fingerprint peptide of mononucleotide-binding proteins, is present in the active site of the protein, which appears to be a positively charged cleft containing a number of conserved arginine and lysine residues. Although PAPS reductase has no ATPase activity, it shows a striking similarity to the structure of the ATP pyrophosphatase (ATP PPase) domain of GMP synthetase, indicating that both enzyme families have evolved from a common ancestral nucleotide-binding fold. The enzyme uses thioredoxin as an electron donor for the reduction of PAPS to phospho-adenosine-phosphate (PAP) . It is also found in NodP nodulation protein P from Rhizobium meliloti which has ATP sulphurylase acti
Probab=73.81 E-value=33 Score=27.39 Aligned_cols=35 Identities=14% Similarity=0.081 Sum_probs=26.5
Q ss_pred eEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 112 IIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 112 kILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
+|+|++.|.+.|.-.+..+.+..... ..+.++|+-
T Consensus 1 ~i~v~~SGGkDS~~ll~l~~~~~~~~-~~~~~v~~d 35 (173)
T cd01713 1 NVVVSFSGGKDSTVLLHLALKALPEL-KPVPVIFLD 35 (173)
T ss_pred CeEEEecCChHHHHHHHHHHHhcccc-cCceEEEeC
Confidence 58999999999998888877654322 367888873
No 44
>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR020579 Exonuclease VII 3.1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones []. Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N terminus. This entry represents Exonuclease VII, large subunit, C-terminal. ; GO: 0008855 exodeoxyribonuclease VII activity
Probab=73.29 E-value=7.6 Score=35.89 Aligned_cols=57 Identities=9% Similarity=0.115 Sum_probs=35.8
Q ss_pred EEEEcCChHHHHHHhhhhC-------CCcEEEECCCCCCcccccccceeccHHHHHhccCCcceee
Q 024855 202 VLIESDLVAKAILDLIPVL-------NIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFSILLFC 260 (261)
Q Consensus 202 ~vieGd~~aeaIv~~A~e~-------~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~ 260 (261)
..+.|...+..|++..+.. ++|+|||++-++++.-+| .|-==.++.. +-.+++||+.
T Consensus 49 ~~vQG~~A~~~I~~al~~~~~~~~~~~~Dviii~RGGGs~eDL~-~FN~e~vara-i~~~~~Pvis 112 (319)
T PF02601_consen 49 ASVQGEGAAASIVSALRKANEMGQADDFDVIIIIRGGGSIEDLW-AFNDEEVARA-IAASPIPVIS 112 (319)
T ss_pred ccccccchHHHHHHHHHHHHhccccccccEEEEecCCCChHHhc-ccChHHHHHH-HHhCCCCEEE
Confidence 3457877778888755543 499999998877655411 1211234444 3467899874
No 45
>PLN00200 argininosuccinate synthase; Provisional
Probab=72.38 E-value=71 Score=31.14 Aligned_cols=35 Identities=9% Similarity=0.058 Sum_probs=29.2
Q ss_pred CCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 110 EDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 110 ~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
.++|+|++.|.-.|.-++.|+.+. .+.+++.+|+.
T Consensus 5 ~~kVvva~SGGlDSsvla~~L~e~---~G~eViav~id 39 (404)
T PLN00200 5 LNKVVLAYSGGLDTSVILKWLREN---YGCEVVCFTAD 39 (404)
T ss_pred CCeEEEEEeCCHHHHHHHHHHHHh---hCCeEEEEEEE
Confidence 569999999999999999888653 36789999984
No 46
>PF13167 GTP-bdg_N: GTP-binding GTPase N-terminal
Probab=71.62 E-value=17 Score=28.19 Aligned_cols=49 Identities=14% Similarity=0.150 Sum_probs=35.2
Q ss_pred HHHHHHHHHHhhcCCCcEEEEEE-----------EcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 182 RQLLQKFLDTCSQSKVMVDTVLI-----------ESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 182 ~~~Lek~~~~~~~~gV~ve~~vi-----------eGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
++.|+++...|+..|+.+...++ .|....+.|.+.++.+++|+||.-..
T Consensus 7 ~~~l~El~~L~~t~g~~vv~~~~q~~~~~~p~~~iG~GK~eei~~~~~~~~~d~vvfd~~ 66 (95)
T PF13167_consen 7 EESLEELEELAETAGYEVVGTVVQKRRKPDPKTYIGSGKVEEIKELIEELDADLVVFDNE 66 (95)
T ss_pred HHHHHHHHHHHHHCCCeEEEEEEecCCCCCcceeechhHHHHHHHHHhhcCCCEEEECCC
Confidence 34566666677777776543332 24445799999999999999999876
No 47
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=71.46 E-value=33 Score=33.77 Aligned_cols=86 Identities=13% Similarity=0.126 Sum_probs=51.4
Q ss_pred hHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcEEE
Q 024855 122 SSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDTCSQSKVMVDT 201 (261)
Q Consensus 122 ~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~~~~~gV~ve~ 201 (261)
.-..||..|++ .+..|..|.|+++...... ....-. ..-+.+-|....+.+++.|++.
T Consensus 14 ~DN~AL~~A~~----~~~~vl~vfi~dp~~~~~~--------~~~~~r--------~~Fl~esL~~L~~~L~~~G~~L-- 71 (471)
T TIGR03556 14 SDNIGLAAARQ----QSAKVVGLFCLDPNILQAD--------DMAPAR--------VAYLIGCLQELQQRYQQAGSQL-- 71 (471)
T ss_pred chHHHHHHHHh----cCCCEEEEEEEchhhhccc--------cCCHHH--------HHHHHHHHHHHHHHHHHCCCCe--
Confidence 34456666653 3467999999876421100 001000 1122334445555566667765
Q ss_pred EEEEcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 202 VLIESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 202 ~vieGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
.+..|++ .+.|.+++++++++.|+.-..
T Consensus 72 ~v~~G~p-~~vl~~l~~~~~~~~V~~~~~ 99 (471)
T TIGR03556 72 LILQGDP-VQLIPQLAQQLGAKAVYWNLD 99 (471)
T ss_pred EEEECCH-HHHHHHHHHHcCCCEEEEecc
Confidence 4456765 699999999999999997766
No 48
>cd01996 Alpha_ANH_like_III This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domain has a strongly conserved motif SGGKD at the N terminus.
Probab=68.47 E-value=61 Score=26.11 Aligned_cols=33 Identities=15% Similarity=-0.035 Sum_probs=24.9
Q ss_pred eEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 112 IIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 112 kILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
.++|++.|...|.-++.++.+.. +-++..+|+-
T Consensus 3 d~~v~lSGG~DSs~ll~l~~~~~---~~~v~~v~~~ 35 (154)
T cd01996 3 DCIIGVSGGKDSSYALYLLKEKY---GLNPLAVTVD 35 (154)
T ss_pred CEEEECCCchhHHHHHHHHHHHh---CCceEEEEeC
Confidence 78999999999998888876543 2267777773
No 49
>cd01994 Alpha_ANH_like_IV This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=67.82 E-value=81 Score=27.26 Aligned_cols=95 Identities=9% Similarity=0.027 Sum_probs=53.8
Q ss_pred eEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHH
Q 024855 112 IIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDT 191 (261)
Q Consensus 112 kILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~ 191 (261)
|++|++.|...|.-|+.++.+ .|-++..|+...+... ...+. . . . -++.+..+
T Consensus 1 kv~v~~SGGkDS~~al~~a~~----~G~~v~~l~~~~~~~~----~~~~~--h-~-~---------------~~e~~~~~ 53 (194)
T cd01994 1 KVVALISGGKDSCYALYRALE----EGHEVVALLNLTPEEG----SSMMY--H-T-V---------------NHELLELQ 53 (194)
T ss_pred CEEEEecCCHHHHHHHHHHHH----cCCEEEEEEEEecCCC----Ccccc--c-c-c---------------CHHHHHHH
Confidence 578999999999999888876 3567777776643221 00000 0 0 0 01122234
Q ss_pred hhcCCCcEEEEEEEc------CChHHHHHHhhhhCCCcEEEECCCCCCc
Q 024855 192 CSQSKVMVDTVLIES------DLVAKAILDLIPVLNIRKLVVGTTKSSL 234 (261)
Q Consensus 192 ~~~~gV~ve~~vieG------d~~aeaIv~~A~e~~aDLIVmGsr~sgl 234 (261)
++..|++...+-+.+ ....+.|.+.+++ +++.||-|..-+-.
T Consensus 54 A~~lgipl~~i~~~~~~e~~~~~l~~~l~~~~~~-g~~~vv~G~i~sd~ 101 (194)
T cd01994 54 AEAMGIPLIRIEISGEEEDEVEDLKELLRKLKEE-GVDAVVFGAILSEY 101 (194)
T ss_pred HHHcCCcEEEEeCCCCchHHHHHHHHHHHHHHHc-CCCEEEECccccHH
Confidence 555677765432211 2333445555555 79999999985443
No 50
>TIGR02765 crypto_DASH cryptochrome, DASH family. Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes.
Probab=67.47 E-value=34 Score=32.92 Aligned_cols=93 Identities=13% Similarity=0.139 Sum_probs=53.6
Q ss_pred hHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcEEE
Q 024855 122 SSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDTCSQSKVMVDT 201 (261)
Q Consensus 122 ~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~~~~~gV~ve~ 201 (261)
.-..||..|++. +.+|..|.|+++........+..+. ..+ ....-+.+-|++..+.+++.|++.
T Consensus 14 ~DN~aL~~A~~~----~~~vl~vfi~dp~~~~~~~~~~~~~--~~~--------~r~~Fl~esL~~L~~~L~~~g~~L-- 77 (429)
T TIGR02765 14 HDNPALYKASSS----SDTLIPLYCFDPRQFKLTHFFGFPK--TGP--------ARGKFLLESLKDLRTSLRKLGSDL-- 77 (429)
T ss_pred ccHHHHHHHHhc----CCeEEEEEEECchHhccccccccCC--CCH--------HHHHHHHHHHHHHHHHHHHcCCCe--
Confidence 345567666543 3479999999864321000010000 111 111223344555555666667765
Q ss_pred EEEEcCChHHHHHHhhhhCCCcEEEECCCC
Q 024855 202 VLIESDLVAKAILDLIPVLNIRKLVVGTTK 231 (261)
Q Consensus 202 ~vieGd~~aeaIv~~A~e~~aDLIVmGsr~ 231 (261)
.+..|++ .+.|.+++++++|+.|+.-...
T Consensus 78 ~v~~G~~-~~vl~~L~~~~~~~~V~~~~~~ 106 (429)
T TIGR02765 78 LVRSGKP-EDVLPELIKELGVRTVFLHQEV 106 (429)
T ss_pred EEEeCCH-HHHHHHHHHHhCCCEEEEeccC
Confidence 3456765 6999999999999999988763
No 51
>PRK05370 argininosuccinate synthase; Validated
Probab=67.13 E-value=65 Score=31.89 Aligned_cols=107 Identities=9% Similarity=0.105 Sum_probs=63.1
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHH---------
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETG--------- 179 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e--------- 179 (261)
..+||++|+.|.-.+--++.|-.+. +.+|+.+++---. + ..++++...+++..
T Consensus 10 ~~~KVvLAYSGGLDTSv~l~wL~e~----~~eVia~~aDvGQ----------~----~~ed~~~i~~kA~~~GA~~~~vi 71 (447)
T PRK05370 10 VGQRVGIAFSGGLDTSAALLWMRQK----GAVPYAYTANLGQ----------P----DEDDYDAIPRRAMEYGAENARLI 71 (447)
T ss_pred CCCEEEEEecCCchHHHHHHHHHhc----CCeEEEEEEECCC----------C----CccchHHHHHHHHHhCCCEEEEe
Confidence 5689999999988888888886553 7889999884211 0 01122333322221
Q ss_pred -HHHHHHHHHHHHhhcCCCcE----EE--EE---EEcCChHHHHHHhhhhCCCcEEEECCCCCCc
Q 024855 180 -KRRQLLQKFLDTCSQSKVMV----DT--VL---IESDLVAKAILDLIPVLNIRKLVVGTTKSSL 234 (261)
Q Consensus 180 -~~~~~Lek~~~~~~~~gV~v----e~--~v---ieGd~~aeaIv~~A~e~~aDLIVmGsr~sgl 234 (261)
-.+++.+.+....+ .+.-. +. .+ +.-.-+++.|+++|++.+++.|.=|+.+.|-
T Consensus 72 Dlr~eF~e~~i~aI~-anA~Y~~~~e~~Y~l~t~LaRplia~~lv~~A~~~ga~aIAHG~TGKGN 135 (447)
T PRK05370 72 DCRAQLVAEGIAAIQ-CGAFHISTGGVTYFNTTPLGRAVTGTMLVAAMKEDGVNIWGDGSTYKGN 135 (447)
T ss_pred ccHHHHHHHHHHHHH-cCCccccccCccccCCCcchHHHHHHHHHHHHHHhCCcEEEEcCCCCCC
Confidence 11334444442222 22212 11 00 1113468999999999999999999995553
No 52
>TIGR00884 guaA_Cterm GMP synthase (glutamine-hydrolyzing), C-terminal domain or B subunit. This protein of purine de novo biosynthesis is well-conserved. However, it appears to split into two separate polypeptide chains in most of the Archaea. This C-terminal region would be the larger subunit
Probab=64.46 E-value=1.1e+02 Score=28.54 Aligned_cols=34 Identities=15% Similarity=0.046 Sum_probs=27.5
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
++|+|++.|...|.-++.++.+.. |.+++.+||-
T Consensus 17 ~kVvValSGGVDSsvla~ll~~~~---G~~v~av~vd 50 (311)
T TIGR00884 17 AKVIIALSGGVDSSVAAVLAHRAI---GDRLTCVFVD 50 (311)
T ss_pred CcEEEEecCChHHHHHHHHHHHHh---CCCEEEEEEe
Confidence 799999999998888887765532 5689999985
No 53
>COG1606 ATP-utilizing enzymes of the PP-loop superfamily [General function prediction only]
Probab=64.41 E-value=91 Score=28.76 Aligned_cols=91 Identities=10% Similarity=0.041 Sum_probs=55.9
Q ss_pred CCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHH
Q 024855 110 EDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFL 189 (261)
Q Consensus 110 ~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~ 189 (261)
..+++||..|.-.|--.+..|.+.+ |.++..+.|..|.. | ... ++.+.
T Consensus 17 ~~kv~vAfSGGvDSslLa~la~~~l---G~~v~AvTv~sP~~---------p-----~~e---------------~e~A~ 64 (269)
T COG1606 17 KKKVVVAFSGGVDSSLLAKLAKEAL---GDNVVAVTVDSPYI---------P-----RRE---------------IEEAK 64 (269)
T ss_pred cCeEEEEecCCccHHHHHHHHHHHh---ccceEEEEEecCCC---------C-----hhh---------------hhHHH
Confidence 3499999999888877776665555 57788888865321 1 111 11222
Q ss_pred HHhhcCCCcEEEEE--EE---------------cCChHHHHHHhhhhCCCcEEEECCCCC
Q 024855 190 DTCSQSKVMVDTVL--IE---------------SDLVAKAILDLIPVLNIRKLVVGTTKS 232 (261)
Q Consensus 190 ~~~~~~gV~ve~~v--ie---------------Gd~~aeaIv~~A~e~~aDLIVmGsr~s 232 (261)
..+++.|++.+.+- .. -..+.+.|++.|.+.+.|.|+=|+..+
T Consensus 65 ~~A~~iGi~H~~i~~~~~~~~~~~n~~~rCY~CK~~v~~~l~~~a~~~Gyd~V~dGtNas 124 (269)
T COG1606 65 NIAKEIGIRHEFIKMNRMDPEFKENPENRCYLCKRAVYSTLVEEAEKRGYDVVADGTNAS 124 (269)
T ss_pred HHHHHhCCcceeeehhhcchhhccCCCCcchHHHHHHHHHHHHHHHHcCCCEEEeCCcHH
Confidence 23333344322110 00 123568899999999999999998743
No 54
>TIGR00032 argG argininosuccinate synthase. argG in bacteria, ARG1 in Saccharomyces cerevisiae. There is a very unusual clustering in the alignment, with a deep split between one cohort of E. coli, H. influenzae, and Streptomyces, and the other cohort of eukaryotes, archaea, and the rest of the eubacteria.
Probab=64.27 E-value=83 Score=30.52 Aligned_cols=32 Identities=9% Similarity=0.089 Sum_probs=27.2
Q ss_pred eEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 112 IIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 112 kILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
+|+|++.|.-.|.-++.|+.+. +.+++.+|+.
T Consensus 1 kVvla~SGGlDSsvll~~l~e~----g~~V~av~id 32 (394)
T TIGR00032 1 KVVLAYSGGLDTSVCLKWLREK----GYEVIAYTAD 32 (394)
T ss_pred CEEEEEcCCHHHHHHHHHHHHc----CCEEEEEEEe
Confidence 5899999999999999887653 7789999984
No 55
>TIGR02039 CysD sulfate adenylyltransferase, small subunit. In Escherichia coli, ATP sulfurylase is a heterodimer composed of two subunits encoded by cysD and cysN, with APS kinase encoded by cysC. These genes are located in a unidirectionally transcribed gene cluster, and have been shown to be required for the synthesis of sulfur-containing amino acids. Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules.
Probab=63.83 E-value=1e+02 Score=28.76 Aligned_cols=38 Identities=13% Similarity=-0.062 Sum_probs=29.7
Q ss_pred CCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 110 EDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 110 ~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
+.+++|++.|.+.|.-.|..+.+.+...+..+.+|||-
T Consensus 19 f~~~vv~~SGGKDS~VlLhLa~kaf~~~~~p~~vl~ID 56 (294)
T TIGR02039 19 FERPVMLYSIGKDSSVLLHLARKAFYPGPLPFPLLHVD 56 (294)
T ss_pred cCCcEEEEecChHHHHHHHHHHHHhcccCCCeEEEEEe
Confidence 45678899999999999988877654335678999984
No 56
>PRK00919 GMP synthase subunit B; Validated
Probab=63.75 E-value=45 Score=31.25 Aligned_cols=34 Identities=15% Similarity=-0.014 Sum_probs=28.4
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
++++|++.|.-.|.-++.++.+. .|.+++.||+.
T Consensus 22 ~kVlVa~SGGVDSsvla~la~~~---lG~~v~aV~vD 55 (307)
T PRK00919 22 GKAIIALSGGVDSSVAAVLAHRA---IGDRLTPVFVD 55 (307)
T ss_pred CCEEEEecCCHHHHHHHHHHHHH---hCCeEEEEEEE
Confidence 79999999999998888777653 36789999985
No 57
>PF07355 GRDB: Glycine/sarcosine/betaine reductase selenoprotein B (GRDB); InterPro: IPR022787 This entry represents selenoprotein B of glycine reductase, sarcosine reductase, betaine reductase, D-proline reductase, and perhaps others. All members are expected to contain an internal UGA codon, encoding selenocysteine, which may be misinterpreted as a stop codon. ; GO: 0030699 glycine reductase activity, 0050485 oxidoreductase activity, acting on X-H and Y-H to form an X-Y bond, with a disulfide as acceptor, 0055114 oxidation-reduction process, 0030700 glycine reductase complex
Probab=63.40 E-value=19 Score=34.44 Aligned_cols=61 Identities=13% Similarity=0.178 Sum_probs=46.7
Q ss_pred CCcEEEEEEEcC--------ChHHHHHHhhhhCCCcEEEECCC-CCCcccccccceeccHHHHHhccCCcceee
Q 024855 196 KVMVDTVLIESD--------LVAKAILDLIPVLNIRKLVVGTT-KSSLRFHFHSINFNGIGTLILFYFSILLFC 260 (261)
Q Consensus 196 gV~ve~~vieGd--------~~aeaIv~~A~e~~aDLIVmGsr-~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~ 260 (261)
+.++...++-|| .+.+.|++.+++.++|++|.|-. .-|-.- ..-|.++..|-+...|||+.
T Consensus 47 ~~eIv~TiiCGDnyf~en~eea~~~i~~mv~~~~pD~viaGPaFnagrYG----~acg~v~~aV~e~~~IP~vt 116 (349)
T PF07355_consen 47 DAEIVATIICGDNYFNENKEEALKKILEMVKKLKPDVVIAGPAFNAGRYG----VACGEVAKAVQEKLGIPVVT 116 (349)
T ss_pred CCEEEEEEEECcchhhhCHHHHHHHHHHHHHhcCCCEEEEcCCcCCchHH----HHHHHHHHHHHHhhCCCEEE
Confidence 355666666664 35688999999999999999988 444222 33488999999999999985
No 58
>PF02844 GARS_N: Phosphoribosylglycinamide synthetase, N domain; InterPro: IPR020562 Phosphoribosylglycinamide synthetase (6.3.4.13 from EC) (GARS) (phosphoribosylamine glycine ligase) [] catalyses the second step in the de novo biosynthesis of purine. The reaction catalysed by phosphoribosylglycinamide synthetase is the ATP-dependent addition of 5-phosphoribosylamine to glycine to form 5'phosphoribosylglycinamide: ATP + 5-phosphoribosylamine + glycine = ADP + Pi + 5'-phosphoribosylglycinamide In bacteria, GARS is a monofunctional enzyme (encoded by the purD gene). In yeast, GARS is part of a bifunctional enzyme (encoded by the ADE5/7 gene) in conjunction with phosphoribosylformylglycinamidine cyclo-ligase (AIRS) (IPR000728 from INTERPRO). In higher eukaryotes, GARS is part of a trifunctional enzyme in conjunction with AIRS (IPR000728 from INTERPRO) and with phosphoribosylglycinamide formyltransferase (GART) (), forming GARS-AIRS-GART. This entry represents the N-domain, which is related to the N-terminal domain of biotin carboxylase/carbamoyl phosphate synthetase (IPR005481 from INTERPRO).; GO: 0004637 phosphoribosylamine-glycine ligase activity, 0009113 purine base biosynthetic process; PDB: 3MJF_A 2XD4_A 2XCL_A 2IP4_A 2YW2_B 2YYA_A 3LP8_A 1VKZ_A 2YS6_A 2YRX_A ....
Probab=63.39 E-value=5.6 Score=31.27 Aligned_cols=23 Identities=22% Similarity=0.250 Sum_probs=20.1
Q ss_pred CChHHHHHHhhhhCCCcEEEECCC
Q 024855 207 DLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 207 d~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
.+ .+.|+++++++++||+|+|.-
T Consensus 49 ~d-~~~l~~~a~~~~idlvvvGPE 71 (100)
T PF02844_consen 49 TD-PEELADFAKENKIDLVVVGPE 71 (100)
T ss_dssp T--HHHHHHHHHHTTESEEEESSH
T ss_pred CC-HHHHHHHHHHcCCCEEEECCh
Confidence 45 599999999999999999976
No 59
>cd01714 ETF_beta The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The beta subunit protein is distantly related to and forms a heterodimer with the alpha subunit.
Probab=63.03 E-value=88 Score=27.09 Aligned_cols=32 Identities=13% Similarity=0.003 Sum_probs=24.5
Q ss_pred EeecCChhHHHHHHHHHHHhcCCCCeEEEEEE
Q 024855 115 VAVGKSQSSMDALSWTLRHAVNPSTLIFLIHV 146 (261)
Q Consensus 115 VaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHV 146 (261)
++.-.++.+..+|..+..++...+.++.++.+
T Consensus 29 ~~~vi~e~~~~~l~ea~~la~~~g~~v~av~~ 60 (202)
T cd01714 29 VPLIINPYDEYAVEEALRLKEKYGGEVTVVSM 60 (202)
T ss_pred CCccCChHhHHHHHHHHHhhhhcCCEEEEEEE
Confidence 55666888899999999987766677766664
No 60
>PRK00143 mnmA tRNA-specific 2-thiouridylase MnmA; Reviewed
Probab=60.70 E-value=94 Score=29.36 Aligned_cols=33 Identities=9% Similarity=-0.025 Sum_probs=25.6
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
++|+|++.|...|.-++..+.+ .+-++..+|+.
T Consensus 1 ~kVlValSGGvDSsvla~lL~~----~G~~V~~v~~~ 33 (346)
T PRK00143 1 KRVVVGMSGGVDSSVAAALLKE----QGYEVIGVFMK 33 (346)
T ss_pred CeEEEEecCCHHHHHHHHHHHH----cCCcEEEEEEe
Confidence 4899999999988877755433 36678888886
No 61
>PRK14664 tRNA-specific 2-thiouridylase MnmA; Provisional
Probab=59.44 E-value=83 Score=30.18 Aligned_cols=34 Identities=9% Similarity=0.015 Sum_probs=25.8
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEE
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHV 146 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHV 146 (261)
+.++|+|++.|.-.|.-++.+.. ..+.+++.+|+
T Consensus 4 ~~~kVlVa~SGGvDSsv~a~lL~----~~G~eV~av~~ 37 (362)
T PRK14664 4 SKKRVLVGMSGGIDSTATCLMLQ----EQGYEIVGVTM 37 (362)
T ss_pred CCCEEEEEEeCCHHHHHHHHHHH----HcCCcEEEEEe
Confidence 45799999999988877665533 24677888887
No 62
>cd01997 GMP_synthase_C The C-terminal domain of GMP synthetase. It contains two subdomains; the ATP pyrophosphatase domain which closes to the N-termial and the dimerization domain at C-terminal end. The ATP-PPase is a twisted, five-stranded parallel beta-sheet sandwiched between helical layers. It has a signature nucleotide-binding motif, or P-loop, at the end of the first-beta strand.The dimerization domain formed by the C-terminal 115 amino acid for prokaryotic proteins. It is adjacent to teh ATP-binding site of the ATP-PPase subdomain. The largest difference between the primary sequence of prokaryotic and eukaryotic GMP synthetase map to the dimerization domain.Eukaryotic GMP synthetase has several large insertions relative to prokaryotes.
Probab=58.64 E-value=99 Score=28.71 Aligned_cols=33 Identities=12% Similarity=-0.013 Sum_probs=26.0
Q ss_pred eEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 112 IIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 112 kILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
+|+|++.|.-.|.-++.++.+. .|.+++.+|+.
T Consensus 1 kVlVa~SGGVDSsvla~ll~~~---lG~~v~aV~vd 33 (295)
T cd01997 1 KVILALSGGVDSTVAAVLLHKA---IGDRLTCVFVD 33 (295)
T ss_pred CEEEEEcCChHHHHHHHHHHHH---hCCcEEEEEec
Confidence 5899999999998888776553 25679999984
No 63
>PRK08349 hypothetical protein; Validated
Probab=58.43 E-value=43 Score=28.71 Aligned_cols=33 Identities=15% Similarity=0.097 Sum_probs=26.4
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
++++|++.|...|.-|+-++.+ .|.+|+.||+.
T Consensus 1 ~~~vvllSGG~DS~v~~~~l~~----~g~~v~av~~d 33 (198)
T PRK08349 1 MKAVALLSSGIDSPVAIYLMLR----RGVEVYPVHFR 33 (198)
T ss_pred CcEEEEccCChhHHHHHHHHHH----cCCeEEEEEEe
Confidence 4789999999999888855433 47899999985
No 64
>TIGR01162 purE phosphoribosylaminoimidazole carboxylase, PurE protein. Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. This model represents PurK, an N5-CAIR mutase.
Probab=58.05 E-value=53 Score=27.89 Aligned_cols=50 Identities=10% Similarity=0.197 Sum_probs=33.8
Q ss_pred HHHHHHHHhhcCCCcEEEEEEEcCChHHHHHHhhh---hCCCcEEEECCCCCC
Q 024855 184 LLQKFLDTCSQSKVMVDTVLIESDLVAKAILDLIP---VLNIRKLVVGTTKSS 233 (261)
Q Consensus 184 ~Lek~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~---e~~aDLIVmGsr~sg 233 (261)
.++++...++..|++++..+..-....+.+.++++ +.+++.||.+.-..+
T Consensus 13 ~~~~a~~~L~~~gi~~dv~V~SaHRtp~~~~~~~~~a~~~g~~viIa~AG~aa 65 (156)
T TIGR01162 13 TMKKAADILEEFGIPYELRVVSAHRTPELMLEYAKEAEERGIKVIIAGAGGAA 65 (156)
T ss_pred HHHHHHHHHHHcCCCeEEEEECcccCHHHHHHHHHHHHHCCCeEEEEeCCccc
Confidence 34566666777799988776654433466666654 567898888877554
No 65
>PF01008 IF-2B: Initiation factor 2 subunit family; InterPro: IPR000649 Initiation factor 2 binds to Met-tRNA, GTP and the small ribosomal subunit. The eukaryotic translation initiation factor EIF-2B is a complex made up of five different subunits, alpha, beta, gamma, delta and epsilon, and catalyses the exchange of EIF-2-bound GDP for GTP. This family includes initiation factor 2B alpha, beta and delta subunits from eukaryotes; related proteins from archaebacteria and IF-2 from prokaryotes and also contains a subfamily of proteins in eukaryotes, archaeae (e.g. Pyrococcus furiosus), or eubacteria such as Bacillus subtilis and Thermotoga maritima. Many of these proteins were initially annotated as putative translation initiation factors despite the fact that there is no evidence for the requirement of an IF2 recycling factor in prokaryotic translation initiation. Recently, one of these proteins from B. subtilis has been functionally characterised as a 5-methylthioribose-1-phosphate isomerase (MTNA) []. This enzyme participates in the methionine salvage pathway catalysing the isomerisation of 5-methylthioribose-1-phosphate to 5-methylthioribulose-1-phosphate []. The methionine salvage pathway leads to the synthesis of methionine from methylthioadenosine, the end product of the spermidine and spermine anabolism in many species.; GO: 0044237 cellular metabolic process; PDB: 1VB5_A 1T5O_D 3A11_E 3VM6_C 1W2W_A 1T9K_A 3ECS_B 2YRF_A 2YVK_B 2A0U_A ....
Probab=55.78 E-value=16 Score=33.01 Aligned_cols=37 Identities=11% Similarity=0.130 Sum_probs=23.9
Q ss_pred CCcEEEECCC---CCC-cccccccceeccHHHHHhccCCcceeeC
Q 024855 221 NIRKLVVGTT---KSS-LRFHFHSINFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 221 ~aDLIVmGsr---~sg-l~~~~r~l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
++|++++|+. ..| +.. ..+.....-+.|+..+||+|+
T Consensus 176 ~vd~VliGad~v~~nG~v~n----k~Gt~~~a~~Ak~~~vPv~v~ 216 (282)
T PF01008_consen 176 DVDKVLIGADAVLANGGVVN----KVGTLQLALAAKEFNVPVYVL 216 (282)
T ss_dssp TESEEEEE-SEEETTS-EEE----ETTHHHHHHHHHHTT-EEEEE
T ss_pred hCCeeEEeeeEEecCCCEee----hhhHHHHHHHHHhhCCCEEEE
Confidence 6999999999 344 443 234444556778889999873
No 66
>PRK00286 xseA exodeoxyribonuclease VII large subunit; Reviewed
Probab=54.08 E-value=23 Score=34.31 Aligned_cols=56 Identities=21% Similarity=0.207 Sum_probs=35.9
Q ss_pred EEEcCChHHHHHHhhhhCC---CcEEEECCCCCCcccccccceeccHHHHHhccCCcceee
Q 024855 203 LIESDLVAKAILDLIPVLN---IRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFSILLFC 260 (261)
Q Consensus 203 vieGd~~aeaIv~~A~e~~---aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~ 260 (261)
.+.|...+..|++..+..+ +|+||+|+-+++...+| .|-==.++..|. .+++||+.
T Consensus 171 ~vQG~~A~~~i~~al~~~~~~~~Dviii~RGGGS~eDL~-~Fn~e~v~~ai~-~~~~Pvis 229 (438)
T PRK00286 171 LVQGEGAAASIVAAIERANARGEDVLIVARGGGSLEDLW-AFNDEAVARAIA-ASRIPVIS 229 (438)
T ss_pred cCcCccHHHHHHHHHHHhcCCCCCEEEEecCCCCHHHhh-ccCcHHHHHHHH-cCCCCEEE
Confidence 4578877788887555443 59999999876665411 222223555554 46999975
No 67
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=53.92 E-value=30 Score=27.15 Aligned_cols=43 Identities=9% Similarity=-0.052 Sum_probs=27.6
Q ss_pred HHHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC-CCC
Q 024855 187 KFLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT-KSS 233 (261)
Q Consensus 187 k~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr-~sg 233 (261)
+..+.+++.|++++.. ..++ ..+-++....++|+|++|.+ +.-
T Consensus 20 k~k~~~~e~gi~~~i~---a~~~-~e~~~~~~~~~~DvIll~PQi~~~ 63 (104)
T PRK09590 20 KTTEYLKEQGKDIEVD---AITA-TEGEKAIAAAEYDLYLVSPQTKMY 63 (104)
T ss_pred HHHHHHHHCCCceEEE---EecH-HHHHHhhccCCCCEEEEChHHHHH
Confidence 3444566778876632 2343 45666666668999999988 543
No 68
>COG0041 PurE Phosphoribosylcarboxyaminoimidazole (NCAIR) mutase [Nucleotide transport and metabolism]
Probab=53.57 E-value=47 Score=28.33 Aligned_cols=48 Identities=6% Similarity=0.190 Sum_probs=35.2
Q ss_pred HHHHHHHhhcCCCcEEEEEEEcCChHHHHHHhh---hhCCCcEEEECCCCC
Q 024855 185 LQKFLDTCSQSKVMVDTVLIESDLVAKAILDLI---PVLNIRKLVVGTTKS 232 (261)
Q Consensus 185 Lek~~~~~~~~gV~ve~~vieGd~~aeaIv~~A---~e~~aDLIVmGsr~s 232 (261)
++++.+.+++.|++++..++.-+..-+.+.+|| ++.+++.||-|.-+.
T Consensus 18 mk~Aa~~L~~fgi~ye~~VvSAHRTPe~m~~ya~~a~~~g~~viIAgAGgA 68 (162)
T COG0041 18 MKKAAEILEEFGVPYEVRVVSAHRTPEKMFEYAEEAEERGVKVIIAGAGGA 68 (162)
T ss_pred HHHHHHHHHHcCCCeEEEEEeccCCHHHHHHHHHHHHHCCCeEEEecCcch
Confidence 455666677779999988886654457777766 477888899887653
No 69
>TIGR00237 xseA exodeoxyribonuclease VII, large subunit. This family consist of exodeoxyribonuclease VII, large subunit XseA which catalyses exonucleolytic cleavage in either the 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. Exonuclease VII consists of one large subunit and four small subunits.
Probab=51.56 E-value=32 Score=33.57 Aligned_cols=57 Identities=23% Similarity=0.297 Sum_probs=36.0
Q ss_pred EEEEcCChHHHHHHhhh----hCCCcEEEECCCCCCcccccccceeccHHHHHhccCCcceee
Q 024855 202 VLIESDLVAKAILDLIP----VLNIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFSILLFC 260 (261)
Q Consensus 202 ~vieGd~~aeaIv~~A~----e~~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~ 260 (261)
..+.|...+..|++..+ ..++|+||+|+-+++..-+| .|-=-.++..| -.+++||+.
T Consensus 164 ~~vQG~~a~~~i~~al~~~~~~~~~dviii~RGGGs~eDL~-~Fn~e~~~rai-~~~~~Pvis 224 (432)
T TIGR00237 164 TLVQGEGAVQSIVESIELANTKNECDVLIVGRGGGSLEDLW-SFNDEKVARAI-FLSKIPIIS 224 (432)
T ss_pred ccccCccHHHHHHHHHHHhhcCCCCCEEEEecCCCCHHHhh-hcCcHHHHHHH-HcCCCCEEE
Confidence 34678777778776554 23479999998876665422 22222344444 678999974
No 70
>PF03746 LamB_YcsF: LamB/YcsF family; InterPro: IPR005501 This entry represents the uncharacterised protein family UPF0271, including LamB. The lam locus of Emericella nidulans (Aspergillus nidulans) consists of two divergently transcribed genes, lamA and lamB, involved in the utilization of lactams such as 2-pyrrolidinone. Both genes are under the control of the positive regulatory gene amdR and are subject to carbon and nitrogen metabolite repression []. The exact molecular function of the proteins in this family is unknown.; PDB: 1V6T_A 1XW8_A 2XU2_A 2DFA_A.
Probab=51.21 E-value=95 Score=28.24 Aligned_cols=104 Identities=18% Similarity=0.227 Sum_probs=51.7
Q ss_pred EeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCC--CCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHh
Q 024855 115 VAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPS--PLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDTC 192 (261)
Q Consensus 115 VaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~--~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~~ 192 (261)
||..|--......+.++++|++.|..|- ..|. +|. .+|... -.++++ +.+......+..+..+|
T Consensus 32 IACG~HAGDp~~M~~tv~lA~~~gV~iG---AHPs---yPD~~gFGRr~-m~~s~~-------el~~~v~yQigaL~~~a 97 (242)
T PF03746_consen 32 IACGFHAGDPETMRRTVRLAKEHGVAIG---AHPS---YPDREGFGRRS-MDISPE-------ELRDSVLYQIGALQAIA 97 (242)
T ss_dssp EE-SSSS--HHHHHHHHHHHHHTT-EEE---EE------S-TTTTT-S------HH-------HHHHHHHHHHHHHHHHH
T ss_pred HhhcccccCHHHHHHHHHHHHHcCCEec---cCCC---CCCCCCCCCCC-CCCCHH-------HHHHHHHHHHHHHHHHH
Confidence 5666655555566667777776775332 2222 221 223111 012222 23334444556666678
Q ss_pred hcCCCcEEEEEEEc---------CChHHHHHHhhhhCCCcEEEECCCCC
Q 024855 193 SQSKVMVDTVLIES---------DLVAKAILDLIPVLNIRKLVVGTTKS 232 (261)
Q Consensus 193 ~~~gV~ve~~vieG---------d~~aeaIv~~A~e~~aDLIVmGsr~s 232 (261)
+..|.++..+=-.| ...+++|++.+++.+.+|.++|-.++
T Consensus 98 ~~~g~~l~hVKPHGALYn~~~~d~~lA~~i~~ai~~~~~~l~l~~~ags 146 (242)
T PF03746_consen 98 AAEGVPLHHVKPHGALYNMAAKDEELARAIAEAIKAFDPDLPLYGLAGS 146 (242)
T ss_dssp HHTT--EEEE---HHHHHHHHH-HHHHHHHHHHHHHH-TT-EEEEETTS
T ss_pred HHcCCeeEEecccHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEEcCCc
Confidence 88888876432222 35789999999999999999986643
No 71
>COG0299 PurN Folate-dependent phosphoribosylglycinamide formyltransferase PurN [Nucleotide transport and metabolism]
Probab=50.92 E-value=1.8e+02 Score=25.78 Aligned_cols=84 Identities=10% Similarity=0.020 Sum_probs=52.3
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHH
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLD 190 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~ 190 (261)
+||.|=+.|+-+..+|+=-|.+- ...++++.+|-.-.+.. ...+
T Consensus 1 ~ki~VlaSG~GSNlqaiida~~~-~~~~a~i~~Visd~~~A-----------------------------------~~le 44 (200)
T COG0299 1 KKIAVLASGNGSNLQAIIDAIKG-GKLDAEIVAVISDKADA-----------------------------------YALE 44 (200)
T ss_pred CeEEEEEeCCcccHHHHHHHHhc-CCCCcEEEEEEeCCCCC-----------------------------------HHHH
Confidence 47888889988888888877763 22355555554311100 1122
Q ss_pred HhhcCCCcEEEEEEEcC----ChHHHHHHhhhhCCCcEEEECCC
Q 024855 191 TCSQSKVMVDTVLIESD----LVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 191 ~~~~~gV~ve~~vieGd----~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
.+++.|++....-...- .-..+|++..+++++|+||+.-.
T Consensus 45 rA~~~gIpt~~~~~k~~~~r~~~d~~l~~~l~~~~~dlvvLAGy 88 (200)
T COG0299 45 RAAKAGIPTVVLDRKEFPSREAFDRALVEALDEYGPDLVVLAGY 88 (200)
T ss_pred HHHHcCCCEEEeccccCCCHHHHHHHHHHHHHhcCCCEEEEcch
Confidence 34556777543221111 14578999999999999999866
No 72
>cd03364 TOPRIM_DnaG_primases TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. E. coli DnaG is a single subunit enzyme.
Probab=50.70 E-value=45 Score=24.11 Aligned_cols=35 Identities=9% Similarity=0.069 Sum_probs=28.3
Q ss_pred CCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEE
Q 024855 110 EDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLI 144 (261)
Q Consensus 110 ~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LL 144 (261)
.++|+++.|..+..++|.+...+.+...+-++.++
T Consensus 43 ~~~vii~~D~D~aG~~a~~~~~~~l~~~g~~~~~~ 77 (79)
T cd03364 43 AKEVILAFDGDEAGQKAALRALELLLKLGLNVRVL 77 (79)
T ss_pred CCeEEEEECCCHHHHHHHHHHHHHHHHCCCeEEEE
Confidence 48999999999999999988888877666665543
No 73
>KOG1467 consensus Translation initiation factor 2B, delta subunit (eIF-2Bdelta/GCD2) [Translation, ribosomal structure and biogenesis]
Probab=50.67 E-value=1.2e+02 Score=30.64 Aligned_cols=104 Identities=17% Similarity=0.168 Sum_probs=60.3
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHH
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLD 190 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~ 190 (261)
..+|+.++.|.--...|.+ |++.+..+.++-|...+. . +++.+|+.
T Consensus 360 gdviltyg~s~vV~~ill~----A~~~~k~frVvVVDSRP~----~-----------------------EG~~~lr~--- 405 (556)
T KOG1467|consen 360 GDVLLTYGSSSVVNMILLE----AKELGKKFRVVVVDSRPN----L-----------------------EGRKLLRR--- 405 (556)
T ss_pred CCEEEEecchHHHHHHHHH----HHHhCcceEEEEEeCCCC----c-----------------------chHHHHHH---
Confidence 4778888888855555555 444445555554432211 0 12223333
Q ss_pred HhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC---CCCcccccccceeccHHHHHhccCCcceee
Q 024855 191 TCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT---KSSLRFHFHSINFNGIGTLILFYFSILLFC 260 (261)
Q Consensus 191 ~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr---~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~ 260 (261)
+...|++|...++.+ +.|+. ..++.|.+|.| ..|..- ...+-+.-.-|.++-.+|||.
T Consensus 406 -Lv~~GinctYv~I~a-------~syim-~evtkvfLGahailsNG~vy---sR~GTa~valvAna~nVPVlV 466 (556)
T KOG1467|consen 406 -LVDRGINCTYVLINA-------ASYIM-LEVTKVFLGAHAILSNGAVY---SRVGTACVALVANAFNVPVLV 466 (556)
T ss_pred -HHHcCCCeEEEEehh-------HHHHH-HhcceeeechhhhhcCcchh---hhcchHHHHHHhcccCCCEEE
Confidence 345699999887743 23444 46899999999 245432 233444555677788888863
No 74
>cd02067 B12-binding B12 binding domain (B12-BD). This domain binds different cobalamid derivates, like B12 (adenosylcobamide) or methylcobalamin or methyl-Co(III) 5-hydroxybenzimidazolylcobamide, it is found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase. Cobalamin undergoes a conformational change on binding the protein; the dimethylbenzimidazole group, which is coordinated to the cobalt in the free cofactor, moves away from the corrin and is replaced by a histidine contributed by the protein. The sequence Asp-X-His-X-X-Gly, which contains this histidine ligand, is conserved in many cobalamin-binding proteins.
Probab=49.97 E-value=39 Score=26.18 Aligned_cols=42 Identities=7% Similarity=0.082 Sum_probs=29.8
Q ss_pred HhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC-CCCc
Q 024855 191 TCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT-KSSL 234 (261)
Q Consensus 191 ~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr-~sgl 234 (261)
.++..|+++.. .....+.+.+++.+.+.++|+|++... ...+
T Consensus 22 ~l~~~G~~V~~--lg~~~~~~~l~~~~~~~~pdvV~iS~~~~~~~ 64 (119)
T cd02067 22 ALRDAGFEVID--LGVDVPPEEIVEAAKEEDADAIGLSGLLTTHM 64 (119)
T ss_pred HHHHCCCEEEE--CCCCCCHHHHHHHHHHcCCCEEEEeccccccH
Confidence 35556887732 223344689999999999999999887 4443
No 75
>TIGR02855 spore_yabG sporulation peptidase YabG. Members of this family are the protein YabG, demonstrated for Bacillus subtilis to be an endopeptidase able to release N-terminal peptides from a number of sporulation proteins, including CotT, CotF, and SpoIVA. It appears to be expressed under control of sigma-K.
Probab=48.98 E-value=42 Score=31.19 Aligned_cols=46 Identities=24% Similarity=0.249 Sum_probs=34.5
Q ss_pred HHHHHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 185 LQKFLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 185 Lek~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
|+.+.+.-++.++++....+....-.+.|.++.+++.+|.||+=-|
T Consensus 117 L~~Cl~~Ykql~i~a~G~~~~E~eqp~~i~~Ll~~~~PDIlViTGH 162 (283)
T TIGR02855 117 LRKCLKLYKKIGVPVVGIHCKEKEMPEKVLDLIEEVRPDILVITGH 162 (283)
T ss_pred HHHHHHHHHHhCCceEEEEecchhchHHHHHHHHHhCCCEEEEeCc
Confidence 4455555566688887765543333599999999999999999888
No 76
>COG1570 XseA Exonuclease VII, large subunit [DNA replication, recombination, and repair]
Probab=48.82 E-value=38 Score=33.39 Aligned_cols=56 Identities=18% Similarity=0.221 Sum_probs=35.4
Q ss_pred EEEEcCChHHHHHHhhh---hCC-CcEEEECCCCCCcccccccceeccHHHHHhccCCccee
Q 024855 202 VLIESDLVAKAILDLIP---VLN-IRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFSILLF 259 (261)
Q Consensus 202 ~vieGd~~aeaIv~~A~---e~~-aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~ 259 (261)
..+.|+..+..|++.++ +.+ +|+||+|+-++++..+| .|- --.--+-+-.+++||+
T Consensus 170 t~VQG~~A~~eIv~aI~~an~~~~~DvlIVaRGGGSiEDLW-~FN-dE~vaRAi~~s~iPvI 229 (440)
T COG1570 170 TLVQGEGAAEEIVEAIERANQRGDVDVLIVARGGGSIEDLW-AFN-DEIVARAIAASRIPVI 229 (440)
T ss_pred ccccCCCcHHHHHHHHHHhhccCCCCEEEEecCcchHHHHh-ccC-hHHHHHHHHhCCCCeE
Confidence 34678877888886544 444 99999999887776522 221 1122233446788886
No 77
>PRK14561 hypothetical protein; Provisional
Probab=48.21 E-value=1.7e+02 Score=25.17 Aligned_cols=31 Identities=19% Similarity=-0.066 Sum_probs=22.4
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEE
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHV 146 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHV 146 (261)
+||+|++.|...|.-.+.++.+. ..+.++|+
T Consensus 1 mkV~ValSGG~DSslll~~l~~~-----~~v~a~t~ 31 (194)
T PRK14561 1 MKAGVLFSGGKDSSLAAILLERF-----YDVELVTV 31 (194)
T ss_pred CEEEEEEechHHHHHHHHHHHhc-----CCeEEEEE
Confidence 58999999999888877665432 34566666
No 78
>PRK00509 argininosuccinate synthase; Provisional
Probab=48.13 E-value=90 Score=30.41 Aligned_cols=35 Identities=6% Similarity=0.075 Sum_probs=29.0
Q ss_pred CCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 110 EDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 110 ~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
.++|+|++.|.-.|.-++.|+.+.. +.+++.+|+.
T Consensus 2 ~~kVvva~SGGlDSsvla~~l~e~l---G~eViavt~d 36 (399)
T PRK00509 2 KKKVVLAYSGGLDTSVIIKWLKETY---GCEVIAFTAD 36 (399)
T ss_pred CCeEEEEEcCCHHHHHHHHHHHHhh---CCeEEEEEEe
Confidence 3699999999999999998886642 6789999985
No 79
>COG1597 LCB5 Sphingosine kinase and enzymes related to eukaryotic diacylglycerol kinase [Lipid metabolism / General function prediction only]
Probab=47.64 E-value=44 Score=30.97 Aligned_cols=47 Identities=13% Similarity=0.082 Sum_probs=34.5
Q ss_pred HHHHHHHHHhhcCCCcEEEEEEEcC-ChHHHHHHhhhhCCCcEEEECCC
Q 024855 183 QLLQKFLDTCSQSKVMVDTVLIESD-LVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 183 ~~Lek~~~~~~~~gV~ve~~vieGd-~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
+.+.++.+.+++.+........+.. . +..+++.+...+.|.||.+.-
T Consensus 20 ~~~~~~~~~l~~~g~~~~~~~t~~~g~-a~~~a~~a~~~~~D~via~GG 67 (301)
T COG1597 20 KLLREVEELLEEAGHELSVRVTEEAGD-AIEIAREAAVEGYDTVIAAGG 67 (301)
T ss_pred hHHHHHHHHHHhcCCeEEEEEeecCcc-HHHHHHHHHhcCCCEEEEecC
Confidence 3445555566667887777666655 5 789999888889999998765
No 80
>PF05582 Peptidase_U57: YabG peptidase U57; InterPro: IPR008764 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This is a group of peptidases belong to MEROPS peptidase family U57 (clan U-). The type example is the YabG protein of Bacillus subtilis. This is a protease involved in the synthesis and maturation of the spore coat proteins SpoIVA and YrbA of B. subtilis [].
Probab=47.61 E-value=41 Score=31.31 Aligned_cols=47 Identities=17% Similarity=0.145 Sum_probs=35.9
Q ss_pred HHHHHHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 184 LLQKFLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 184 ~Lek~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
.|+++.+.-++.++++....+....-.+.|.++.+++.+|.||+=-|
T Consensus 117 YL~~Cl~~Ykql~i~a~G~~~~E~eqp~~i~~Ll~~~~PDIlViTGH 163 (287)
T PF05582_consen 117 YLNKCLKVYKQLGIPAVGIHVPEKEQPEKIYRLLEEYRPDILVITGH 163 (287)
T ss_pred HHHHHHHHHHHcCCceEEEEechHHhhHHHHHHHHHcCCCEEEEeCc
Confidence 34455555566789888766644444699999999999999999888
No 81
>TIGR01917 gly_red_sel_B glycine reductase, selenoprotein B. Glycine reductase is a complex with two selenoprotein subunits, A and B. This model represents the glycine reductase selenoprotein B. Closely related to it, but excluded from this model, are selenoprotein B subunits of betaine reductase and sarcosine reductase. All contain selenocysteine incorporated during translation at a specific UGA codon.
Probab=47.32 E-value=43 Score=32.90 Aligned_cols=60 Identities=13% Similarity=0.143 Sum_probs=44.8
Q ss_pred CCcEEEEEEEcC--------ChHHHHHHhhhhCCCcEEEECCC-CCCcccccccceeccHHHHHhccCCccee
Q 024855 196 KVMVDTVLIESD--------LVAKAILDLIPVLNIRKLVVGTT-KSSLRFHFHSINFNGIGTLILFYFSILLF 259 (261)
Q Consensus 196 gV~ve~~vieGd--------~~aeaIv~~A~e~~aDLIVmGsr-~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~ 259 (261)
+.++...++-|| .+.+.|++.+++.++|++|.|-. .-|-.- ..-|.++..|-+...||++
T Consensus 43 ~~eVvaTiiCGDnYf~en~eea~~~i~~mv~k~~pDv~iaGPaFNagrYG----~acg~va~aV~e~~~IP~v 111 (431)
T TIGR01917 43 DAEIVATVVCGDSFFGENLEEAKAKVLEMIKGANPDIFIAGPAFNAGRYG----MAAGAITKAVQDELGIKAF 111 (431)
T ss_pred CCEEEEEEEECchhhhhCHHHHHHHHHHHHHhcCCCEEEEcCccCCccHH----HHHHHHHHHHHHhhCCCeE
Confidence 455655666664 23477999999999999999988 444222 3348899999999999997
No 82
>PF00731 AIRC: AIR carboxylase; InterPro: IPR000031 Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. PurK, N5-carboxyaminoimidazole ribonucleotide (N5_CAIR) synthetase, catalyzes the conversion of 5-aminoimidazole ribonucleotide (AIR), ATP, and bicarbonate to N5-CAIR, ADP, and Pi. PurE converts N5-CAIR to CAIR, the sixth step of de novo purine biosynthesis. In the presence of high concentrations of bicarbonate, PurE is reported able to convert AIR to CAIR directly and without ATP. Some members of this family contain two copies of this domain []. The crystal structure of PurE indicates a unique quaternary structure that confirms the octameric nature of the enzyme [].; GO: 0004638 phosphoribosylaminoimidazole carboxylase activity, 0006189 'de novo' IMP biosynthetic process; PDB: 3TRH_O 2YWX_A 2NSL_A 1D7A_A 2NSJ_A 1QCZ_A 2ATE_A 2NSH_A 3RG8_C 3RGG_D ....
Probab=47.07 E-value=65 Score=27.10 Aligned_cols=49 Identities=6% Similarity=0.092 Sum_probs=30.2
Q ss_pred HHHHHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhC---CCcEEEECCCCCC
Q 024855 185 LQKFLDTCSQSKVMVDTVLIESDLVAKAILDLIPVL---NIRKLVVGTTKSS 233 (261)
Q Consensus 185 Lek~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~---~aDLIVmGsr~sg 233 (261)
++++...+++.|+.++..+..-....+.+.+++++. +++.+|.++-..+
T Consensus 16 ~~~a~~~L~~~gi~~~~~V~saHR~p~~l~~~~~~~~~~~~~viIa~AG~~a 67 (150)
T PF00731_consen 16 AEEAAKTLEEFGIPYEVRVASAHRTPERLLEFVKEYEARGADVIIAVAGMSA 67 (150)
T ss_dssp HHHHHHHHHHTT-EEEEEE--TTTSHHHHHHHHHHTTTTTESEEEEEEESS-
T ss_pred HHHHHHHHHHcCCCEEEEEEeccCCHHHHHHHHHHhccCCCEEEEEECCCcc
Confidence 445556667778999877765444457777777654 6787777766544
No 83
>PRK00109 Holliday junction resolvase-like protein; Reviewed
Probab=46.79 E-value=18 Score=29.66 Aligned_cols=21 Identities=29% Similarity=0.232 Sum_probs=18.2
Q ss_pred HHHHHHhhhhCCCcEEEECCC
Q 024855 210 AKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 210 aeaIv~~A~e~~aDLIVmGsr 230 (261)
.+.|.+++++++++.||||--
T Consensus 43 ~~~l~~~i~~~~i~~iVvGlP 63 (138)
T PRK00109 43 WDRLEKLIKEWQPDGLVVGLP 63 (138)
T ss_pred HHHHHHHHHHhCCCEEEEecc
Confidence 688899999999999999944
No 84
>PF02441 Flavoprotein: Flavoprotein; InterPro: IPR003382 This entry contains a diverse range of flavoprotein enzymes, including epidermin biosynthesis protein, EpiD, which has been shown to be a flavoprotein that binds FMN []. This enzyme catalyzes the removal of two reducing equivalents from the cysteine residue of the C-terminal meso-lanthionine of epidermin to form a --C==C-- double bond. This family also includes the B chain of dipicolinate synthase a small polar molecule that accumulates to high concentrations in bacterial endospores, and is thought to play a role in spore heat resistance, or the maintenance of heat resistance []. Dipicolinate synthase catalyses the formation of dipicolinic acid from dihydroxydipicolinic acid. This family also includes phenylacrylic acid decarboxylase 4.1.1 from EC [].; GO: 0003824 catalytic activity; PDB: 3QJG_L 1G63_G 1G5Q_L 1P3Y_1 1QZU_A 1E20_A 1MVN_A 1MVL_A 3ZQU_A 2EJB_A ....
Probab=45.17 E-value=38 Score=26.98 Aligned_cols=33 Identities=15% Similarity=0.070 Sum_probs=24.5
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEE
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLI 144 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LL 144 (261)
|||+|++-||....+++++..++. +.|.+|.++
T Consensus 1 k~i~l~vtGs~~~~~~~~~l~~L~-~~g~~v~vv 33 (129)
T PF02441_consen 1 KRILLGVTGSIAAYKAPDLLRRLK-RAGWEVRVV 33 (129)
T ss_dssp -EEEEEE-SSGGGGGHHHHHHHHH-TTTSEEEEE
T ss_pred CEEEEEEECHHHHHHHHHHHHHHh-hCCCEEEEE
Confidence 699999999999999888876655 457775544
No 85
>PF02568 ThiI: Thiamine biosynthesis protein (ThiI); InterPro: IPR020536 Thiamine pyrophosphate (TPP) is synthesized de novo in many bacteria and is a required cofactor for many enzymes in the cell. ThiI is required for thiazole synthesis in the thiamine biosynthesis pathway []. Almost all proteins containing this entry have an N-terminal THUMP domain (see IPR004114 from INTERPRO).; GO: 0003723 RNA binding, 0009228 thiamine biosynthetic process, 0005737 cytoplasm; PDB: 1VBK_B 2C5S_A.
Probab=44.43 E-value=1.3e+02 Score=26.28 Aligned_cols=36 Identities=8% Similarity=-0.017 Sum_probs=24.3
Q ss_pred CCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecC
Q 024855 110 EDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQ 149 (261)
Q Consensus 110 ~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~ 149 (261)
..|+|+-+.|.-.|--|. .++.++|.+|..||...+
T Consensus 3 ~gk~l~LlSGGiDSpVAa----~lm~krG~~V~~l~f~~~ 38 (197)
T PF02568_consen 3 QGKALALLSGGIDSPVAA----WLMMKRGCEVIALHFDSP 38 (197)
T ss_dssp T-EEEEE-SSCCHHHHHH----HHHHCBT-EEEEEEEE-T
T ss_pred CceEEEEecCCccHHHHH----HHHHHCCCEEEEEEEECC
Confidence 358899998877776444 455667999999999744
No 86
>PRK12563 sulfate adenylyltransferase subunit 2; Provisional
Probab=44.25 E-value=1.8e+02 Score=27.49 Aligned_cols=38 Identities=13% Similarity=0.017 Sum_probs=29.8
Q ss_pred CCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 110 EDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 110 ~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
+++++|+..|.+.|.-.|..|.+.+...+..+-+|||-
T Consensus 37 f~~~~v~~SgGKDS~VlLhLa~kaf~~~~~~~pvl~VD 74 (312)
T PRK12563 37 CSKPVMLYSIGKDSVVMLHLAMKAFRPTRPPFPLLHVD 74 (312)
T ss_pred cCCcEEEecCChHHHHHHHHHHHhhcccCCCeeEEEeC
Confidence 35678899999999999988877664335578899983
No 87
>cd01998 tRNA_Me_trans tRNA methyl transferase. This family represents tRNA(5-methylaminomethyl-2-thiouridine)-methyltransferase which is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine present in the wobble position of some tRNAs. This family of enzyme only presents in bacteria and eukaryote. The archaeal counterpart of this enzyme performs same function, but is completely unrelated in sequence.
Probab=43.93 E-value=2.6e+02 Score=26.36 Aligned_cols=32 Identities=13% Similarity=-0.008 Sum_probs=24.2
Q ss_pred eEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 112 IIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 112 kILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
+|+|++.|...|.-++.++.+ .+.+++.+|+.
T Consensus 1 kVlValSGGvDSsvla~lL~~----~g~~v~~v~i~ 32 (349)
T cd01998 1 KVVVAMSGGVDSSVAAALLKE----QGYEVIGVFMK 32 (349)
T ss_pred CEEEEecCCHHHHHHHHHHHH----cCCcEEEEEEe
Confidence 589999999888877755543 35678888874
No 88
>PRK00074 guaA GMP synthase; Reviewed
Probab=43.90 E-value=1.4e+02 Score=29.85 Aligned_cols=35 Identities=9% Similarity=0.016 Sum_probs=27.9
Q ss_pred CCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 110 EDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 110 ~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
.++|+||+.|...|.-++..+.+.. +.+++.+|+-
T Consensus 215 ~~~vlva~SGGvDS~vll~ll~~~l---g~~v~av~vd 249 (511)
T PRK00074 215 DKKVILGLSGGVDSSVAAVLLHKAI---GDQLTCVFVD 249 (511)
T ss_pred CCcEEEEeCCCccHHHHHHHHHHHh---CCceEEEEEe
Confidence 4899999999998988877765533 5679999984
No 89
>cd06317 PBP1_ABC_sugar_binding_like_8 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Pperiplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=43.31 E-value=2.1e+02 Score=24.44 Aligned_cols=33 Identities=21% Similarity=0.312 Sum_probs=25.9
Q ss_pred cEEEEEEEcCChHHHHHHhhhhCCC--cEEEECCC
Q 024855 198 MVDTVLIESDLVAKAILDLIPVLNI--RKLVVGTT 230 (261)
Q Consensus 198 ~ve~~vieGd~~aeaIv~~A~e~~a--DLIVmGsr 230 (261)
++..++..++..+..+++++++.+. |+-|+|--
T Consensus 187 ~~~ai~~~~d~~a~g~~~~l~~~g~~~dv~v~g~d 221 (275)
T cd06317 187 DIDGVYAGDDNMARGALNAAKEAGLAGGIVIVGAN 221 (275)
T ss_pred CccEEEECCCcHHHHHHHHHHhcCCcCCcEEEEeC
Confidence 3555667777778889999998888 88888765
No 90
>TIGR00273 iron-sulfur cluster-binding protein. Members of this family have a perfect 4Fe-4S binding motif C-x(2)-C-x(2)-C-x(3)-CP followed by either a perfect or imperfect (the first Cys replaced by Ser) second copy. Members probably bind two 4fe-4S iron-sulfur clusters.
Probab=43.27 E-value=51 Score=32.33 Aligned_cols=59 Identities=14% Similarity=0.045 Sum_probs=41.9
Q ss_pred HHHHHHHHHHHHHHHHHHHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 171 ETFMAQETGKRRQLLQKFLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 171 e~~~~~~~e~~~~~Lek~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
.++.+..-+...++++++.+.++..|..+... -..+...+.|.+.++++++..||.|..
T Consensus 39 ~~ik~~~~~~ld~~l~~~~~~~~~~g~~v~~a-~t~~eA~~~v~~i~~~~~~~~vv~~kS 97 (432)
T TIGR00273 39 KEIKLKVLENLDFYLDQLKENVTQRGGHVYYA-KTAEEARKIIGKVAQEKNGKKVVKSKS 97 (432)
T ss_pred HHHHHHHHhhHHHHHHHHHHHHHHCCCEEEEE-CCHHHHHHHHHHHHHHhCCCEEEEcCc
Confidence 33444444567788888888888888766432 222444677889999999999999955
No 91
>TIGR00420 trmU tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase. tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase (trmU, asuE, or mnmA) is involved in the biosynthesis of the modified nucleoside 5-methylaminomethyl-2-thiouridine (mnm5s2U34) present in the wobble position of some tRNAs. This enzyme appears not to occur in the Archaea.
Probab=41.53 E-value=3.2e+02 Score=25.95 Aligned_cols=33 Identities=6% Similarity=-0.057 Sum_probs=26.4
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
++|+|++.|...|.-++.++.+ .+-+++.+|+.
T Consensus 1 ~kVlValSGGvDSsv~a~lL~~----~G~~V~~v~~~ 33 (352)
T TIGR00420 1 KKVIVGLSGGVDSSVSAYLLKQ----QGYEVVGVFMK 33 (352)
T ss_pred CeEEEEEeCCHHHHHHHHHHHH----cCCeEEEEEEE
Confidence 5899999999999888766654 35689999884
No 92
>COG1646 Predicted phosphate-binding enzymes, TIM-barrel fold [General function prediction only]
Probab=41.44 E-value=72 Score=28.97 Aligned_cols=47 Identities=11% Similarity=0.121 Sum_probs=35.5
Q ss_pred hHHHHHHhhhhCCCcEEEECCC-CCCcccccccceeccHHHHHhccCCcceeeC
Q 024855 209 VAKAILDLIPVLNIRKLVVGTT-KSSLRFHFHSINFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 209 ~aeaIv~~A~e~~aDLIVmGsr-~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
..+.|.+.+.+.+-|.|.+|-. +--... + -.+-.++-....+||++|
T Consensus 29 ~~~ei~~~~~~~GTDaImIGGS~gvt~~~----~--~~~v~~ik~~~~lPvilf 76 (240)
T COG1646 29 EADEIAEAAAEAGTDAIMIGGSDGVTEEN----V--DNVVEAIKERTDLPVILF 76 (240)
T ss_pred ccHHHHHHHHHcCCCEEEECCcccccHHH----H--HHHHHHHHhhcCCCEEEe
Confidence 3578999999999999999988 433322 1 246677777899999886
No 93
>PF13362 Toprim_3: Toprim domain
Probab=41.25 E-value=70 Score=23.85 Aligned_cols=37 Identities=5% Similarity=0.077 Sum_probs=29.1
Q ss_pred CCCeEEEeecCChh--HHHHHHHHHHHhcCCCCeEEEEE
Q 024855 109 EEDIIYVAVGKSQS--SMDALSWTLRHAVNPSTLIFLIH 145 (261)
Q Consensus 109 ~~kkILVaVDgSe~--S~~AL~~Al~~A~~~ga~L~LLH 145 (261)
.+++|+|+.|.... .+++.+.+.+.+...+..+.++-
T Consensus 40 ~~~~vii~~D~D~~~~G~~~a~~~~~~~~~~g~~~~~~~ 78 (96)
T PF13362_consen 40 PGRRVIIAADNDKANEGQKAAEKAAERLEAAGIAVSIVE 78 (96)
T ss_pred CCCeEEEEECCCCchhhHHHHHHHHHHHHhCCCeEEEEC
Confidence 78899999999887 88888888888776666555443
No 94
>PRK06029 3-octaprenyl-4-hydroxybenzoate carboxy-lyase; Provisional
Probab=41.22 E-value=50 Score=28.62 Aligned_cols=34 Identities=6% Similarity=-0.002 Sum_probs=26.8
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEE
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLI 144 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LL 144 (261)
+||++++-||-.+.++++.+-.+.+..|.++.++
T Consensus 2 k~IllgVTGsiaa~ka~~l~~~L~k~~g~~V~vv 35 (185)
T PRK06029 2 KRLIVGISGASGAIYGVRLLQVLRDVGEIETHLV 35 (185)
T ss_pred CEEEEEEECHHHHHHHHHHHHHHHhhcCCeEEEE
Confidence 6899999999999999999877754356664443
No 95
>TIGR00853 pts-lac PTS system, lactose/cellobiose family IIB component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains.The Lac family includes several sequenced lactose (b-galactoside) permeases of Gram-positive bacteria as well as those in E. coli. While the Lac family usually consists of two polypeptide components IIA and IICB, the Chb permease of E. coli consists of three IIA, IIB and IIC. This family is specific for the IIB subunit of the Lac PTS family.
Probab=41.09 E-value=65 Score=24.65 Aligned_cols=60 Identities=10% Similarity=-0.079 Sum_probs=35.3
Q ss_pred HHHHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC-CCCcccccccceeccHHHHHhccCCcceeeC
Q 024855 186 QKFLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT-KSSLRFHFHSINFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 186 ek~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr-~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
++..+.+++.|++++.. ..+. ..+-+++. ++|+|++|.+ +.-+.+ -.+.+....|||..|
T Consensus 21 ~k~~~~~~~~gi~~~v~---a~~~-~~~~~~~~--~~Dvill~pqi~~~~~~----------i~~~~~~~~ipv~~I 81 (95)
T TIGR00853 21 NKMNKAAEEYGVPVKIA---AGSY-GAAGEKLD--DADVVLLAPQVAYMLPD----------LKKETDKKGIPVEVI 81 (95)
T ss_pred HHHHHHHHHCCCcEEEE---EecH-HHHHhhcC--CCCEEEECchHHHHHHH----------HHHHhhhcCCCEEEe
Confidence 44455567778887643 2333 44555554 5799999998 553322 223345566777653
No 96
>PRK14057 epimerase; Provisional
Probab=40.44 E-value=2.9e+02 Score=25.26 Aligned_cols=41 Identities=20% Similarity=0.222 Sum_probs=24.5
Q ss_pred HHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 188 FLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 188 ~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
+++...+++..+... +.|+- ...-+..+.+.++|.+|+|+.
T Consensus 183 lr~~~~~~~~~~~Ie-VDGGI-~~~ti~~l~~aGad~~V~GSa 223 (254)
T PRK14057 183 LLCLLGDKREGKIIV-IDGSL-TQDQLPSLIAQGIDRVVSGSA 223 (254)
T ss_pred HHHHHHhcCCCceEE-EECCC-CHHHHHHHHHCCCCEEEEChH
Confidence 333344455555433 45654 344455555679999999976
No 97
>TIGR02766 crypt_chrom_pln cryptochrome, plant family. At least five major families of cryptochomes and photolyases share FAD cofactor binding, sequence homology, and the ability to react to short wavelengths of visible light. Photolysases are responsible for light-dependent DNA repair by removal of two types of uv-induced DNA dimerizations. Cryptochromes have other functions, often regulatory and often largely unknown, which may include circadian clock entrainment and control of development. Members of this subfamily are known so far only in plants; they may show some photolyase activity in vitro but appear mostly to be regulatory proteins that respond to blue light.
Probab=40.36 E-value=2.2e+02 Score=27.86 Aligned_cols=46 Identities=17% Similarity=0.126 Sum_probs=30.4
Q ss_pred HHHHHHHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 183 QLLQKFLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 183 ~~Lek~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
+-|..+.+.+++.|.+.. ++.++.+.+.|.+++++++++.|..-..
T Consensus 51 ~sL~~L~~~L~~~G~~L~--v~~~g~~~~~l~~l~~~~~i~~v~~~~~ 96 (475)
T TIGR02766 51 QSLAHLDQSLRSLGTCLV--TIRSTDTVAALLDCVRSTGATRLFFNHL 96 (475)
T ss_pred HHHHHHHHHHHHcCCceE--EEeCCCHHHHHHHHHHHcCCCEEEEecc
Confidence 344555555666676653 2334445788999999999998876655
No 98
>KOG1650 consensus Predicted K+/H+-antiporter [Inorganic ion transport and metabolism]
Probab=40.36 E-value=1.2e+02 Score=32.06 Aligned_cols=41 Identities=24% Similarity=0.308 Sum_probs=34.6
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCC
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVK 151 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~ 151 (261)
.+|.+-.=|.+.-+.|+.++..++..+...+++++-++...
T Consensus 615 ~~v~~lF~GG~DDrEALa~~~rm~~~~~v~lTVirf~~~~~ 655 (769)
T KOG1650|consen 615 YKVVVLFLGGKDDREALALAKRMAENPRVTLTVIRFFPDES 655 (769)
T ss_pred eEEEEEecCChhhHHHHHHHHHHhhCCceEEEEEEeeccch
Confidence 36666667788888899999999999999999999987653
No 99
>PRK08576 hypothetical protein; Provisional
Probab=40.33 E-value=2.5e+02 Score=27.75 Aligned_cols=33 Identities=15% Similarity=-0.052 Sum_probs=25.7
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
.+|+|++.|.+.|.-++..+.+... .+.++|+.
T Consensus 235 ~rVvVafSGGKDStvLL~La~k~~~----~V~aV~iD 267 (438)
T PRK08576 235 WTVIVPWSGGKDSTAALLLAKKAFG----DVTAVYVD 267 (438)
T ss_pred CCEEEEEcChHHHHHHHHHHHHhCC----CCEEEEeC
Confidence 3899999999999999987766532 37777763
No 100
>TIGR00289 conserved hypothetical protein TIGR00289. Homologous proteins related to MJ0570 of Methanococcus jannaschii include both the apparent orthologs found by this model above the trusted cutoff, the much longer protein YLR143W from Saccharomyces cerevisiae, and second homologous proteins from Archaeoglobus fulgidus and Pyrococcus horikoshii that appear to represent a second orthologous group.
Probab=39.86 E-value=2.7e+02 Score=24.76 Aligned_cols=93 Identities=14% Similarity=0.114 Sum_probs=54.2
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHH
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLD 190 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~ 190 (261)
+|++|...|.+.|.-|+-+|++. ..-+.|+++++...- ..+. ...+. +-+..
T Consensus 1 Mkv~vl~SGGKDS~lAl~~~~~~----~~V~~L~~~~~~~~~-----s~~~-h~~~~------------------~~~~~ 52 (222)
T TIGR00289 1 MKVAVLYSGGKDSILALYKALEE----HEVISLVGVFSENEE-----SYMF-HSPNL------------------HLTDL 52 (222)
T ss_pred CeEEEEecCcHHHHHHHHHHHHc----CeeEEEEEEcCCCCC-----cccc-ccCCH------------------HHHHH
Confidence 47888999999999999888764 244667777654310 0000 00110 11112
Q ss_pred HhhcCCCcEEEEEEEc--CChHHHHHHhhhhCCCcEEEECCCC
Q 024855 191 TCSQSKVMVDTVLIES--DLVAKAILDLIPVLNIRKLVVGTTK 231 (261)
Q Consensus 191 ~~~~~gV~ve~~vieG--d~~aeaIv~~A~e~~aDLIVmGsr~ 231 (261)
+++..|++.......+ +.--+.+.+..++.+++-||-|.=-
T Consensus 53 qA~algiPl~~~~~~~~~e~~~~~l~~~l~~~gv~~vv~GdI~ 95 (222)
T TIGR00289 53 VAEAVGIPLIKLYTSGEEEKEVEDLAGQLGELDVEALCIGAIE 95 (222)
T ss_pred HHHHcCCCeEEEEcCCchhHHHHHHHHHHHHcCCCEEEECccc
Confidence 3455577765443333 2223566666777789999988764
No 101
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=39.51 E-value=50 Score=23.96 Aligned_cols=34 Identities=6% Similarity=0.002 Sum_probs=22.8
Q ss_pred CCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEE
Q 024855 110 EDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFL 143 (261)
Q Consensus 110 ~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~L 143 (261)
.++|++++|.+...+.+.....+.+...+-++..
T Consensus 46 ~~~Vii~~D~D~~G~~~a~~i~~~l~~~gi~v~~ 79 (81)
T PF13662_consen 46 VKEVIIAFDNDKAGEKAAQKIAKKLLPLGIRVTR 79 (81)
T ss_dssp -SEEEEEEESSHHHHHHHHHHHHHHG--------
T ss_pred CceEEEEeCcCHHHHHHHHHHHHHHHhhcccccc
Confidence 4899999999999999999988877655555543
No 102
>PRK10674 deoxyribodipyrimidine photolyase; Provisional
Probab=38.85 E-value=2.9e+02 Score=27.17 Aligned_cols=88 Identities=8% Similarity=0.071 Sum_probs=50.5
Q ss_pred hHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcEEE
Q 024855 122 SSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDTCSQSKVMVDT 201 (261)
Q Consensus 122 ~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~~~~~gV~ve~ 201 (261)
.-..||..|++.+ +..|..|.|+++..... + ... ..-. .=+.+-|+...+.+++.|++.
T Consensus 15 ~DN~aL~~A~~~~---~~~vlpvyv~dp~~~~~------~--~~~-~~r~-------~Fl~esL~~L~~~L~~~g~~L-- 73 (472)
T PRK10674 15 HDNLALAAACRDP---SARVLALFIATPAQWAA------H--DMA-PRQA-------AFINAQLNALQIALAEKGIPL-- 73 (472)
T ss_pred chHHHHHHHHhCC---CCCEEEEEEECchhhcc------C--CCC-HHHH-------HHHHHHHHHHHHHHHHcCCce--
Confidence 4456776665433 24699999998742100 0 001 1011 122334445555566667665
Q ss_pred EEEEc---CChHHHHHHhhhhCCCcEEEECCC
Q 024855 202 VLIES---DLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 202 ~vieG---d~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
.+..| +.+.+.|.+++++++++.|+.-..
T Consensus 74 ~v~~g~~~g~~~~vl~~l~~~~~i~~v~~~~~ 105 (472)
T PRK10674 74 LFHEVDDFAASVEWLKQFCQQHQVTHLFYNYQ 105 (472)
T ss_pred EEEecCCcCCHHHHHHHHHHHcCCCEEEEecc
Confidence 44444 245788889999999999998655
No 103
>cd05565 PTS_IIB_lactose PTS_IIB_lactose: subunit IIB of enzyme II (EII) of the lactose-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS) found in Firmicutes as well as Actinobacteria. In this system, EII is a lactose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. The IIC and IIB domains are expressed as a single protein from the lac operon. The IIB domain fold includes a central four-stranded parallel open twisted beta-sheet flanked by alpha-helices on both sides. The seven major PTS systems with this IIB fold include lactose, chitobiose/lichenan, ascorbate, galactitol, mannitol, fructose, and a sensory system with similarity to the bacterial bgl system.
Probab=38.67 E-value=83 Score=24.46 Aligned_cols=43 Identities=12% Similarity=0.210 Sum_probs=27.5
Q ss_pred HHHHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC-CCCc
Q 024855 186 QKFLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT-KSSL 234 (261)
Q Consensus 186 ek~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr-~sgl 234 (261)
++..+.++++|++++.. --+ ...+-++.+ ++|+|++|.+ +.-+
T Consensus 18 ~km~~~a~~~gi~~~i~---a~~-~~e~~~~~~--~~Dvill~PQv~~~~ 61 (99)
T cd05565 18 NALNKGAKERGVPLEAA---AGA-YGSHYDMIP--DYDLVILAPQMASYY 61 (99)
T ss_pred HHHHHHHHHCCCcEEEE---Eee-HHHHHHhcc--CCCEEEEcChHHHHH
Confidence 34444567788887743 223 355666665 5799999998 6544
No 104
>PRK07313 phosphopantothenoylcysteine decarboxylase; Validated
Probab=38.33 E-value=57 Score=28.01 Aligned_cols=33 Identities=18% Similarity=0.151 Sum_probs=26.1
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEE
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLI 144 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LL 144 (261)
+||++++-||-.+.++.++.-.+ ++.+.+++++
T Consensus 2 k~Ill~vtGsiaa~~~~~li~~L-~~~g~~V~vv 34 (182)
T PRK07313 2 KNILLAVSGSIAAYKAADLTSQL-TKRGYQVTVL 34 (182)
T ss_pred CEEEEEEeChHHHHHHHHHHHHH-HHCCCEEEEE
Confidence 69999999999999999887665 4467765544
No 105
>PRK08227 autoinducer 2 aldolase; Validated
Probab=38.08 E-value=2.1e+02 Score=26.23 Aligned_cols=64 Identities=8% Similarity=-0.063 Sum_probs=38.7
Q ss_pred HHHHHHHHhhcCCCcEEEEEEEcCCh---HHHH---HHhhhhCCCcEEEECCCCCCcccccccceeccHHHHHhccCCcc
Q 024855 184 LLQKFLDTCSQSKVMVDTVLIESDLV---AKAI---LDLIPVLNIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFSIL 257 (261)
Q Consensus 184 ~Lek~~~~~~~~gV~ve~~vieGd~~---aeaI---v~~A~e~~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ip 257 (261)
.+.+..+.|.+.|+++-.+.-.|..+ .+.| ++.+-+.++|+|=+--. |..=.+|++.+++|
T Consensus 128 ~l~~v~~ea~~~G~Plla~~prG~~~~~~~~~ia~aaRiaaELGADiVK~~y~-------------~~~f~~vv~a~~vP 194 (264)
T PRK08227 128 NIIQLVDAGLRYGMPVMAVTAVGKDMVRDARYFSLATRIAAEMGAQIIKTYYV-------------EEGFERITAGCPVP 194 (264)
T ss_pred HHHHHHHHHHHhCCcEEEEecCCCCcCchHHHHHHHHHHHHHHcCCEEecCCC-------------HHHHHHHHHcCCCc
Confidence 35566677888899865533333211 1222 34555888887743322 22345788899999
Q ss_pred eee
Q 024855 258 LFC 260 (261)
Q Consensus 258 v~~ 260 (261)
|||
T Consensus 195 Vvi 197 (264)
T PRK08227 195 IVI 197 (264)
T ss_pred EEE
Confidence 998
No 106
>PF06925 MGDG_synth: Monogalactosyldiacylglycerol (MGDG) synthase; InterPro: IPR009695 This entry represents a conserved region of approximately 180 residues found towirds the N terminus of a number of plant and bacterial diacylglycerol glucosyltransferases, such as monogalactosyldiacylglycerol synthase [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0009247 glycolipid biosynthetic process
Probab=38.05 E-value=57 Score=27.02 Aligned_cols=95 Identities=12% Similarity=0.099 Sum_probs=47.2
Q ss_pred hHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHHHhhcCCCcEEE
Q 024855 122 SSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLDTCSQSKVMVDT 201 (261)
Q Consensus 122 ~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~~~~~~gV~ve~ 201 (261)
.+.+||+.|++....++.++.++.++..... .. ..-....|.. .-+.. .+...+..........-..
T Consensus 3 ~aA~Al~eal~~~~~~~~~v~v~D~~~~~~p--~~---------~~~~~~~Y~~-~~~~~-~ly~~~y~~~~~~~~~~~~ 69 (169)
T PF06925_consen 3 SAARALAEALERRRGPDAEVEVVDFLEEASP--WL---------RRLIRKAYLF-MVRHA-PLYGWLYRWTDKRRPRSKF 69 (169)
T ss_pred HHHHHHHHHHHhhcCCCCEEEEEehHHhhCh--HH---------HHHHHHHHHH-HHHHH-HHHHHHHHhcCCCccchHH
Confidence 4678898888776446788888888754221 00 0011122322 22233 4444444433221110000
Q ss_pred EEEEcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 202 VLIESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 202 ~vieGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
.-.......+.+.++.+++++|+|| .+|
T Consensus 70 ~~~~~~~~~~~l~~~l~~~~PD~II-sTh 97 (169)
T PF06925_consen 70 LSALSRLFARRLIRLLREFQPDLII-STH 97 (169)
T ss_pred HHHHHHHHHHHHHHHHhhcCCCEEE-ECC
Confidence 0001223356788888999999665 455
No 107
>TIGR02113 coaC_strep phosphopantothenoylcysteine decarboxylase, streptococcal. In most bacteria, a single bifunctional protein catalyses phosphopantothenoylcysteine decarboxylase and phosphopantothenate--cysteine ligase activities, sequential steps in coenzyme A biosynthesis (see TIGR00521). These activities reside in separate proteins encoded by tandem genes in some bacterial lineages. This model describes proteins from the genera Streptococcus and Enterococcus homologous to the N-terminal region of TIGR00521, corresponding to phosphopantothenoylcysteine decarboxylase activity.
Probab=37.79 E-value=58 Score=27.87 Aligned_cols=33 Identities=18% Similarity=0.111 Sum_probs=25.2
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEE
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLI 144 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LL 144 (261)
+||+|++-|+-.+.+++++.-. +++.+.+++++
T Consensus 1 k~I~lgvtGs~~a~~~~~ll~~-L~~~g~~V~vi 33 (177)
T TIGR02113 1 KKILLAVTGSIAAYKAADLTSQ-LTKLGYDVTVL 33 (177)
T ss_pred CEEEEEEcCHHHHHHHHHHHHH-HHHCCCEEEEE
Confidence 5899999999999999977644 45567765543
No 108
>PF00072 Response_reg: Response regulator receiver domain; InterPro: IPR001789 Two-component signal transduction systems enable bacteria to sense, respond, and adapt to a wide range of environments, stressors, and growth conditions []. Some bacteria can contain up to as many as 200 two-component systems that need tight regulation to prevent unwanted cross-talk []. These pathways have been adapted to response to a wide variety of stimuli, including nutrients, cellular redox state, changes in osmolarity, quorum signals, antibiotics, and more []. Two-component systems are comprised of a sensor histidine kinase (HK) and its cognate response regulator (RR) []. The HK catalyses its own auto-phosphorylation followed by the transfer of the phosphoryl group to the receiver domain on RR; phosphorylation of the RR usually activates an attached output domain, which can then effect changes in cellular physiology, often by regulating gene expression. Some HK are bifunctional, catalysing both the phosphorylation and dephosphorylation of their cognate RR. The input stimuli can regulate either the kinase or phosphatase activity of the bifunctional HK. A variant of the two-component system is the phospho-relay system. Here a hybrid HK auto-phosphorylates and then transfers the phosphoryl group to an internal receiver domain, rather than to a separate RR protein. The phosphoryl group is then shuttled to histidine phosphotransferase (HPT) and subsequently to a terminal RR, which can evoke the desired response [, ]. Bipartite response regulator proteins are involved in a two-component signal transduction system in bacteria, and certain eukaryotes like protozoa, that functions to detect and respond to environmental changes []. These systems have been detected during host invasion, drug resistance, motility, phosphate uptake, osmoregulation, and nitrogen fixation, amongst others []. The two-component system consists of a histidine protein kinase environmental sensor that phosphorylates the receiver domain of a response regulator protein; phosphorylation induces a conformational change in the response regulator, which activates the effector domain, triggering the cellular response []. The domains of the two-component proteins are highly modular, but the core structures and activities are maintained. The response regulators act as phosphorylation-activated switches to affect a cellular response, usually by transcriptional regulation. Most of these proteins consist of two domains, an N-terminal response regulator receiver domain, and a variable C-terminal effector domain with DNA-binding activity. This entry represents the response regulator receiver domain, which belongs to the CheY family, and receives the signal from the sensor partner in the two-component system.; GO: 0000156 two-component response regulator activity, 0000160 two-component signal transduction system (phosphorelay), 0006355 regulation of transcription, DNA-dependent; PDB: 2QR3_A 2QXY_A 1I3C_A 1JLK_A 2PKX_A 2PL1_A 3H1F_A 3H1E_A 3GWG_A 3H1G_A ....
Probab=37.58 E-value=1.3e+02 Score=21.96 Aligned_cols=46 Identities=11% Similarity=-0.031 Sum_probs=29.1
Q ss_pred CChHHHHHHhhhhCCCcEEEECCCCCCcccccccceeccHHHHHhccC-Ccceee
Q 024855 207 DLVAKAILDLIPVLNIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYF-SILLFC 260 (261)
Q Consensus 207 d~~aeaIv~~A~e~~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A-~ipv~~ 260 (261)
.. .+..++..+++.+|+|+|..+-.+... -.+.+++-+.. .+|+++
T Consensus 30 ~~-~~~~~~~~~~~~~d~iiid~~~~~~~~-------~~~~~~i~~~~~~~~ii~ 76 (112)
T PF00072_consen 30 SS-GEEALELLKKHPPDLIIIDLELPDGDG-------LELLEQIRQINPSIPIIV 76 (112)
T ss_dssp SS-HHHHHHHHHHSTESEEEEESSSSSSBH-------HHHHHHHHHHTTTSEEEE
T ss_pred CC-HHHHHHHhcccCceEEEEEeeeccccc-------cccccccccccccccEEE
Confidence 44 477778889999999999988433221 13445554433 566554
No 109
>TIGR00930 2a30 K-Cl cotransporter.
Probab=36.64 E-value=4.3e+02 Score=28.70 Aligned_cols=96 Identities=17% Similarity=0.181 Sum_probs=54.8
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHHHH
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKFLD 190 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~~~ 190 (261)
-+|||.++.-....+.++.|-.+.+ ...-+++.||++... .+..++. +..++.+.++.
T Consensus 576 PqiLvl~~~p~~~~~Ll~f~~~l~~-~~gl~i~~~v~~~~~---------------~~~~~~~-----~~~~~~~~~~~- 633 (953)
T TIGR00930 576 PQCLVLTGPPVCRPALLDFASQFTK-GKGLMICGSVIQGPR---------------LECVKEA-----QAAEAKIQTWL- 633 (953)
T ss_pred CeEEEEeCCCcCcHHHHHHHHHhcc-CCcEEEEEEEecCch---------------hhhHHHH-----HHHHHHHHHHH-
Confidence 3899999877777888999877764 345688889975421 0111111 11122222332
Q ss_pred HhhcCCCcEEEEEEEcCChHHHHHHhhhh-----CCCcEEEECCC
Q 024855 191 TCSQSKVMVDTVLIESDLVAKAILDLIPV-----LNIRKLVVGTT 230 (261)
Q Consensus 191 ~~~~~gV~ve~~vieGd~~aeaIv~~A~e-----~~aDLIVmGsr 230 (261)
+..+++.=..++...++.+.+....+. ..+..|+||-.
T Consensus 634 --~~~~~~~f~~~~~~~~~~~g~~~l~q~~GlG~l~PNtv~lg~~ 676 (953)
T TIGR00930 634 --EKNKVKAFYAVVVADDLREGVRHLIQASGLGRMKPNTLVMGYK 676 (953)
T ss_pred --HHhCCCeEEEEecCCCHHHHHHHHHHhcCCCCCCCCEEEecCc
Confidence 233454333344556666777766663 44667788765
No 110
>PRK08745 ribulose-phosphate 3-epimerase; Provisional
Probab=36.51 E-value=3.1e+02 Score=24.38 Aligned_cols=38 Identities=11% Similarity=0.135 Sum_probs=23.1
Q ss_pred HhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 191 TCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 191 ~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
...+.+.++... +.|+- ...-+..+.+.++|.+|+|+.
T Consensus 164 ~~~~~~~~~~Ie-VDGGI-~~eti~~l~~aGaDi~V~GSa 201 (223)
T PRK08745 164 KIDALGKPIRLE-IDGGV-KADNIGAIAAAGADTFVAGSA 201 (223)
T ss_pred HHHhcCCCeeEE-EECCC-CHHHHHHHHHcCCCEEEEChh
Confidence 333445444433 45654 344555566679999999976
No 111
>TIGR03573 WbuX N-acetyl sugar amidotransferase. This enzyme has been implicated in the formation of the acetamido moiety (sugar-NC(=NH)CH3) which is found on some exopolysaccharides and is positively charged at neutral pH. The reaction involves ligation of ammonia with a sugar N-acetyl group, displacing water. In E. coli (O145 strain) and Pseudomonas aeruginosa (O12 strain) this gene is known as wbuX and ifnA respectively and likely acts on sialic acid. In Campylobacter jejuni, the gene is known as pseA and acts on pseudaminic acid in the process of flagellin glycosylation. In other Pseudomonas strains and various organisms it is unclear what the identity of the sugar substrate is, and in fact, the phylogenetic tree of this family sports a considerably deep branching suggestive of possible major differences in substrate structure. Nevertheless, the family is characterized by a conserved tetracysteine motif (CxxC.....[GN]xCxxC) possibly indicative of a metal binding site, as well as an
Probab=35.49 E-value=3.6e+02 Score=25.35 Aligned_cols=34 Identities=12% Similarity=-0.059 Sum_probs=24.2
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
-.++||+.|...|.-++..+... .+-.+.++|+-
T Consensus 60 yD~iV~lSGGkDSs~la~ll~~~---~gl~~l~vt~~ 93 (343)
T TIGR03573 60 YDCIIGVSGGKDSTYQAHVLKKK---LGLNPLLVTVD 93 (343)
T ss_pred CCEEEECCCCHHHHHHHHHHHHH---hCCceEEEEEC
Confidence 37999999999888777555332 35566667773
No 112
>cd06295 PBP1_CelR Ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. This group includes the ligand binding domain of a transcription regulator of cellulose genes, CelR, which is highly homologous to the LacI-GalR family of bacterial transcription regulators. The binding of CelR to the celE promoter is inhibited specifically by cellobiose. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn chang
Probab=35.15 E-value=1.7e+02 Score=25.26 Aligned_cols=37 Identities=3% Similarity=-0.074 Sum_probs=19.9
Q ss_pred HhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEEC
Q 024855 191 TCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVG 228 (261)
Q Consensus 191 ~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmG 228 (261)
.+++.|+.+.......+ ..+.+.+.....++|-||+-
T Consensus 35 ~~~~~g~~~~v~~~~~~-~~~~~~~~l~~~~~dgiii~ 71 (275)
T cd06295 35 ALAERGYDLLLSFVSSP-DRDWLARYLASGRADGVILI 71 (275)
T ss_pred HHHHcCCEEEEEeCCch-hHHHHHHHHHhCCCCEEEEe
Confidence 34555666543322222 24566666666778876663
No 113
>PRK08299 isocitrate dehydrogenase; Validated
Probab=34.97 E-value=55 Score=31.96 Aligned_cols=25 Identities=12% Similarity=0.122 Sum_probs=20.4
Q ss_pred hhHHHHHHHHHHHhcCCCCeEEEEE
Q 024855 121 QSSMDALSWTLRHAVNPSTLIFLIH 145 (261)
Q Consensus 121 e~S~~AL~~Al~~A~~~ga~L~LLH 145 (261)
+.+++..++|.++|+.++.+|+++|
T Consensus 185 ~~~eRIa~~AF~~A~~r~~kVt~v~ 209 (402)
T PRK08299 185 ESIRDFARASFNYGLDRKYPVYLST 209 (402)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEEC
Confidence 3889999999999987766777776
No 114
>cd01029 TOPRIM_primases TOPRIM_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of bacterial DnaG-type primases and their homologs. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. The prototypical bacterial primase. Escherichia coli DnaG is a single subunit enzyme.
Probab=34.84 E-value=1.1e+02 Score=21.64 Aligned_cols=33 Identities=9% Similarity=0.086 Sum_probs=25.6
Q ss_pred CCeEEEeecCChhHHHHHHHHHHHhcCCCCeEE
Q 024855 110 EDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIF 142 (261)
Q Consensus 110 ~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~ 142 (261)
.++|+++.|..+..+++.+.+.+.+...+..+.
T Consensus 43 ~~~vii~~D~D~~G~~~~~~~~~~~~~~~~~~~ 75 (79)
T cd01029 43 ARTVILAFDNDEAGKKAAARALELLLALGGRVR 75 (79)
T ss_pred CCEEEEEECCCHHHHHHHHHHHHHHHHCCCEEE
Confidence 389999999999988888888777765444443
No 115
>PRK11106 queuosine biosynthesis protein QueC; Provisional
Probab=34.40 E-value=2.8e+02 Score=24.79 Aligned_cols=33 Identities=15% Similarity=0.071 Sum_probs=26.0
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
++++|++.|.-.|.-++.||.+. +.+++.|++.
T Consensus 2 ~kvvVl~SGG~DSt~~l~~a~~~----~~~v~alt~d 34 (231)
T PRK11106 2 KRAVVVFSGGQDSTTCLIQALQQ----YDEVHCVTFD 34 (231)
T ss_pred CcEEEEeeCcHHHHHHHHHHHhc----CCeEEEEEEE
Confidence 47999999999898888888542 4578888874
No 116
>PRK08535 translation initiation factor IF-2B subunit delta; Provisional
Probab=34.13 E-value=3.9e+02 Score=24.85 Aligned_cols=57 Identities=12% Similarity=0.099 Sum_probs=34.2
Q ss_pred hhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCC---CC-cccccccceeccHHHHHhccCCcceee
Q 024855 192 CSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTK---SS-LRFHFHSINFNGIGTLILFYFSILLFC 260 (261)
Q Consensus 192 ~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~---sg-l~~~~r~l~lGSVA~~Vlr~A~ipv~~ 260 (261)
+.+.|+++..+ ....+ -.+. + .+|++++|+++ .| +.. ..+.....-+.|+..+||++
T Consensus 167 L~~~GI~vtlI--~Dsav-~~~m---~--~vd~VivGAd~v~~nG~v~n----kiGT~~~A~~Ak~~~vPv~V 227 (310)
T PRK08535 167 LAEYGIPVTLI--VDSAV-RYFM---K--DVDKVVVGADAITANGAVIN----KIGTSQIALAAHEARVPFMV 227 (310)
T ss_pred HHHCCCCEEEE--ehhHH-HHHH---H--hCCEEEECccEEecCCCEEe----HHhHHHHHHHHHHhCCCEEE
Confidence 34568888643 22232 2332 2 39999999993 33 433 33444455566888999986
No 117
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=33.78 E-value=2.8e+02 Score=25.63 Aligned_cols=84 Identities=17% Similarity=0.200 Sum_probs=53.4
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHH
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKF 188 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~ 188 (261)
..+||.|-+.|+.++.+||-++.+.- .-++++.+|= ... ++ +
T Consensus 92 ~~~kiavl~Sg~g~nl~al~~~~~~~-~l~~~i~~vi--sn~----------------~~-------------------~ 133 (289)
T PRK13010 92 QRPKVVIMVSKFDHCLNDLLYRWRMG-ELDMDIVGII--SNH----------------PD-------------------L 133 (289)
T ss_pred CCeEEEEEEeCCCccHHHHHHHHHCC-CCCcEEEEEE--ECC----------------hh-------------------H
Confidence 45699999999999999998886543 2345544443 211 00 0
Q ss_pred HHHhhcCCCcEEEEEEE-c--CChHHHHHHhhhhCCCcEEEECCC
Q 024855 189 LDTCSQSKVMVDTVLIE-S--DLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 189 ~~~~~~~gV~ve~~vie-G--d~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
.+.+++.|+++...-.. . ......+++..+++++|+||+...
T Consensus 134 ~~~A~~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy 178 (289)
T PRK13010 134 QPLAVQHDIPFHHLPVTPDTKAQQEAQILDLIETSGAELVVLARY 178 (289)
T ss_pred HHHHHHcCCCEEEeCCCcccccchHHHHHHHHHHhCCCEEEEehh
Confidence 12355668887532110 1 112457899999999999999876
No 118
>cd06320 PBP1_allose_binding Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. Periplasmic allose-binding domain of bacterial transport systems that function as a primary receptor of active transport and chemotaxis. The members of this group are belonging to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Like other periplasmic receptors of the ABC-type transport systems, the allose-binding protein consists of two alpha/beta domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding.
Probab=33.74 E-value=3.1e+02 Score=23.55 Aligned_cols=35 Identities=20% Similarity=0.332 Sum_probs=26.7
Q ss_pred EEEEEEEcCChHHHHHHhhhhCCC--cEEEECCCCCC
Q 024855 199 VDTVLIESDLVAKAILDLIPVLNI--RKLVVGTTKSS 233 (261)
Q Consensus 199 ve~~vieGd~~aeaIv~~A~e~~a--DLIVmGsr~sg 233 (261)
+..++..++..+..++++.++.+. |+-|+|--...
T Consensus 183 ~~ai~~~~d~~a~~~~~al~~~g~~~di~vig~d~~~ 219 (275)
T cd06320 183 LKAIYCNNDTMALGVVEAVKNAGKQGKVLVVGTDGIP 219 (275)
T ss_pred ccEEEECCchhHHHHHHHHHhcCCCCCeEEEecCCCH
Confidence 445666677778888899888888 88899887543
No 119
>TIGR02852 spore_dpaB dipicolinic acid synthetase, B subunit. Members of this family represent the B subunit of dipicolinic acid synthetase, an enzyme that synthesizes a small molecule that appears to confer heat stability to bacterial endospores such as those of Bacillus subtilis. The A and B subunits are together in what was originally designated the spoVF locus for stage V of endospore formation.
Probab=33.16 E-value=82 Score=27.39 Aligned_cols=34 Identities=15% Similarity=0.131 Sum_probs=25.5
Q ss_pred CeEEEeecCChhHHHHH-HHHHHHhcCCCCeEEEEE
Q 024855 111 DIIYVAVGKSQSSMDAL-SWTLRHAVNPSTLIFLIH 145 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL-~~Al~~A~~~ga~L~LLH 145 (261)
+||++++-||-.+.+++ +.. +...+.|.+|+++-
T Consensus 1 ~~I~lgITGs~~a~~a~~~ll-~~L~~~g~~V~vI~ 35 (187)
T TIGR02852 1 KRIGFGLTGSHCTLEAVMPQL-EKLVDEGAEVTPIV 35 (187)
T ss_pred CEEEEEEecHHHHHHHHHHHH-HHHHhCcCEEEEEE
Confidence 58999999999999997 555 55556677755443
No 120
>cd00578 L-fuc_L-ara-isomerases L-fucose isomerase (FucIase) and L-arabinose isomerase (AI) family; composed of FucIase, AI and similar proteins. FucIase converts L-fucose, an aldohexose, to its ketose form, which prepares it for aldol cleavage (similar to the isomerization of glucose in glycolysis). L-fucose (or 6-deoxy-L-galactose) is found in various oligo- and polysaccharides in mammals, bacteria and plants. AI catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion to D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon source. AI can also convert D-galactose to D-tagatose at elevated temperatures in the presence of divalent metal ions. D-tagatose, rarely found in nature, is of commercial interest as a low-calorie sugar substitute.
Probab=33.11 E-value=1.1e+02 Score=29.69 Aligned_cols=43 Identities=12% Similarity=-0.072 Sum_probs=29.9
Q ss_pred HHHHHHhhhhCCCcEEEECCCCCCcccccccceeccHHHHHhccCCcceeeC
Q 024855 210 AKAILDLIPVLNIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 210 aeaIv~~A~e~~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
++.+++.+++.++|.||+-.+..+..+ ..-..++..++|||++
T Consensus 52 ~~~~~~~~~~~~~d~ii~~~~tf~~~~---------~~~~~~~~~~~Pvll~ 94 (452)
T cd00578 52 ARKAAEEFNEANCDGLIVWMHTFGPAK---------MWIAGLSELRKPVLLL 94 (452)
T ss_pred HHHHHHHHhhcCCcEEEEcccccccHH---------HHHHHHHhcCCCEEEE
Confidence 467778888889999999887555433 2233356678888863
No 121
>PRK04527 argininosuccinate synthase; Provisional
Probab=33.09 E-value=4.7e+02 Score=25.52 Aligned_cols=33 Identities=6% Similarity=0.004 Sum_probs=27.3
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
++|+|++.|.-.|--++.|+.+ .|.+++.|++.
T Consensus 3 ~kVvVA~SGGvDSSvla~~l~e----~G~~Viavt~d 35 (400)
T PRK04527 3 KDIVLAFSGGLDTSFCIPYLQE----RGYAVHTVFAD 35 (400)
T ss_pred CcEEEEEcCChHHHHHHHHHHH----cCCcEEEEEEE
Confidence 6899999999888888888765 26778888885
No 122
>PRK09722 allulose-6-phosphate 3-epimerase; Provisional
Probab=32.83 E-value=1.4e+02 Score=26.74 Aligned_cols=42 Identities=7% Similarity=0.090 Sum_probs=25.1
Q ss_pred HHHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 187 KFLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 187 k~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
++++...+.+..+... +.|+- ...-+..+.+.++|.+|+|+.
T Consensus 158 ~lr~~~~~~~~~~~Ie-VDGGI-~~~~i~~~~~aGad~~V~Gss 199 (229)
T PRK09722 158 ELKALRERNGLEYLIE-VDGSC-NQKTYEKLMEAGADVFIVGTS 199 (229)
T ss_pred HHHHHHHhcCCCeEEE-EECCC-CHHHHHHHHHcCCCEEEEChH
Confidence 3344444556665444 44654 344444555679999999964
No 123
>TIGR00250 RNAse_H_YqgF RNAse H-fold protein YqgF. This protein family, which exhibits an RNAse H fold in crystal structure, has been proposed as a putative Holliday junction resolvase, an alternate to RuvC.
Probab=32.47 E-value=41 Score=27.28 Aligned_cols=23 Identities=26% Similarity=0.205 Sum_probs=19.0
Q ss_pred ChHHHHHHhhhhCCCcEEEECCC
Q 024855 208 LVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 208 ~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
...+.|.+++++++++.||+|--
T Consensus 35 ~~~~~l~~~i~~~~~~~iVvGlP 57 (130)
T TIGR00250 35 PDWSRIEELLKEWTPDKIVVGLP 57 (130)
T ss_pred HHHHHHHHHHHHcCCCEEEEecc
Confidence 34688999999999999999944
No 124
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=32.27 E-value=3.2e+02 Score=25.16 Aligned_cols=84 Identities=14% Similarity=0.203 Sum_probs=52.6
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHH
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKF 188 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~ 188 (261)
+.+||.|-+.|+....+||-.+.+.- ..+++|.+|-. .. + .+
T Consensus 88 ~~~ri~vl~Sg~gsnl~al~~~~~~~-~~~~~i~~vis--n~-----------------~------------------~~ 129 (286)
T PRK06027 88 ERKRVVILVSKEDHCLGDLLWRWRSG-ELPVEIAAVIS--NH-----------------D------------------DL 129 (286)
T ss_pred cCcEEEEEEcCCCCCHHHHHHHHHcC-CCCcEEEEEEE--cC-----------------h------------------hH
Confidence 56799999999988888887775442 23555555543 10 0 00
Q ss_pred HHHhhcCCCcEEEEEEE--c-CChHHHHHHhhhhCCCcEEEECCC
Q 024855 189 LDTCSQSKVMVDTVLIE--S-DLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 189 ~~~~~~~gV~ve~~vie--G-d~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
...+++.|+++...-.. . ......+.+..+++++|+||+...
T Consensus 130 ~~lA~~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy 174 (286)
T PRK06027 130 RSLVERFGIPFHHVPVTKETKAEAEARLLELIDEYQPDLVVLARY 174 (286)
T ss_pred HHHHHHhCCCEEEeccCccccchhHHHHHHHHHHhCCCEEEEecc
Confidence 11245568877532110 1 122457889899999999999876
No 125
>TIGR00524 eIF-2B_rel eIF-2B alpha/beta/delta-related uncharacterized proteins. This model, eIF-2B_rel, describes half of a superfamily, where the other half consists of eukaryotic translation initiation factor 2B (eIF-2B) subunits alpha, beta, and delta. It is unclear whether the eIF-2B_rel set is monophyletic, or whether they are all more closely related to each other than to any eIF-2B subunit because the eIF-2B clade is highly derived. Members of this branch of the family are all uncharacterized with respect to function and are found in the Archaea, Bacteria, and Eukarya, although a number are described as putative translation intiation factor components. Proteins found by eIF-2B_rel include at least three clades, including a set of uncharacterized eukaryotic proteins, a set found in some but not all Archaea, and a set universal so far among the Archaea and closely related to several uncharacterized bacterial proteins.
Probab=32.07 E-value=96 Score=28.92 Aligned_cols=60 Identities=15% Similarity=0.105 Sum_probs=35.9
Q ss_pred HhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCC---CC-cccccccceeccHHHHHhccCCcceee
Q 024855 191 TCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTK---SS-LRFHFHSINFNGIGTLILFYFSILLFC 260 (261)
Q Consensus 191 ~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~---sg-l~~~~r~l~lGSVA~~Vlr~A~ipv~~ 260 (261)
.+.+.|++++.+ -|. ++--+.+..++|++++|+.+ .| +.. ..+.....-+.|+..+||++
T Consensus 173 ~L~~~gI~vtlI---~Ds---a~~~~m~~~~vd~VlvGAd~v~~nG~v~n----k~GT~~lA~~Ak~~~vPv~V 236 (303)
T TIGR00524 173 ELMQDGIDVTLI---TDS---MAAYFMQKGEIDAVIVGADRIARNGDVAN----KIGTYQLAVLAKEFRIPFFV 236 (303)
T ss_pred HHHHCCCCEEEE---Chh---HHHHHccccCCCEEEEcccEEecCCCEeE----hhhHHHHHHHHHHhCCCEEE
Confidence 344567777633 122 22233344579999999993 34 443 33444455566888999985
No 126
>PRK08091 ribulose-phosphate 3-epimerase; Validated
Probab=32.04 E-value=1.5e+02 Score=26.63 Aligned_cols=41 Identities=12% Similarity=0.157 Sum_probs=24.9
Q ss_pred HHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 188 FLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 188 ~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
+++..++++.++... +.|+- ...-+..+.+.++|.+|+|+.
T Consensus 169 lr~~~~~~~~~~~Ie-VDGGI-~~~ti~~l~~aGaD~~V~GSa 209 (228)
T PRK08091 169 VENRLGNRRVEKLIS-IDGSM-TLELASYLKQHQIDWVVSGSA 209 (228)
T ss_pred HHHHHHhcCCCceEE-EECCC-CHHHHHHHHHCCCCEEEEChh
Confidence 333344456655433 45654 344555666679999999976
No 127
>PRK11914 diacylglycerol kinase; Reviewed
Probab=31.29 E-value=92 Score=28.40 Aligned_cols=18 Identities=22% Similarity=0.228 Sum_probs=9.5
Q ss_pred HHHHHHhhhhCCCcEEEE
Q 024855 210 AKAILDLIPVLNIRKLVV 227 (261)
Q Consensus 210 aeaIv~~A~e~~aDLIVm 227 (261)
+..+++.+.+.++|+||+
T Consensus 53 ~~~~a~~~~~~~~d~vvv 70 (306)
T PRK11914 53 ARHLVAAALAKGTDALVV 70 (306)
T ss_pred HHHHHHHHHhcCCCEEEE
Confidence 455555454555665554
No 128
>COG0137 ArgG Argininosuccinate synthase [Amino acid transport and metabolism]
Probab=31.18 E-value=5.1e+02 Score=25.36 Aligned_cols=110 Identities=13% Similarity=0.206 Sum_probs=66.0
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHH--------
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGK-------- 180 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~-------- 180 (261)
..+||++|+.|.-..--+|.|-.+.. +.+++-+.+- .| + ..++++...+++.+-
T Consensus 3 ~~kkvvLAYSGGLDTSv~i~wL~e~~---~~eVia~tad---------vG-----Q-~eed~~~i~eKA~~~Ga~~~~vi 64 (403)
T COG0137 3 KVKKVVLAYSGGLDTSVAIKWLKEKG---GAEVIAVTAD---------VG-----Q-PEEDLDAIREKALELGAEEAYVI 64 (403)
T ss_pred CCcEEEEEecCCccHHHHHHHHHHhc---CceEEEEEEe---------CC-----C-ChHHhHHHHHHHHHhCCceEEEe
Confidence 45799999999887778999976543 4666666552 11 0 123334433333321
Q ss_pred --HHHHHHHHHHHhhcCCCcEEEEEEEcC-----ChHHHHHHhhhhCCCcEEEECCCCCCccc
Q 024855 181 --RRQLLQKFLDTCSQSKVMVDTVLIESD-----LVAKAILDLIPVLNIRKLVVGTTKSSLRF 236 (261)
Q Consensus 181 --~~~~Lek~~~~~~~~gV~ve~~vieGd-----~~aeaIv~~A~e~~aDLIVmGsr~sgl~~ 236 (261)
.+++.+++.-.+-+.+..++....-+. -+++.+++.|++.+++.|.=|+.+.|-.+
T Consensus 65 D~reeF~~~yi~~~i~ana~Yeg~YpL~TalaRPLIak~lVe~A~k~ga~avaHGcTGKGNDQ 127 (403)
T COG0137 65 DAREEFVEDYIFPAIKANALYEGVYPLGTALARPLIAKKLVEAAKKEGADAVAHGCTGKGNDQ 127 (403)
T ss_pred ecHHHHHHHHHHHHHHhhceeeccccccchhhHHHHHHHHHHHHHHcCCCEEEecCCCCCCce
Confidence 133444554444333444443222122 35789999999999999999999665443
No 129
>TIGR01918 various_sel_PB selenoprotein B, glycine/betaine/sarcosine/D-proline reductase family. This model represents selenoprotein B of glycine reductase, sarcosine reductase, betaine reductase, D-proline reductase, and perhaps others. This model is built in fragment mode to assist in recognizing fragmentary translations. All members are expected to contain an internal TGA codon, encoding selenocysteine, which may be misinterpreted as a stop codon.
Probab=30.95 E-value=50 Score=32.51 Aligned_cols=60 Identities=8% Similarity=0.094 Sum_probs=44.5
Q ss_pred CCcEEEEEEEcC--------ChHHHHHHhhhhCCCcEEEECCC-CCCcccccccceeccHHHHHhccCCccee
Q 024855 196 KVMVDTVLIESD--------LVAKAILDLIPVLNIRKLVVGTT-KSSLRFHFHSINFNGIGTLILFYFSILLF 259 (261)
Q Consensus 196 gV~ve~~vieGd--------~~aeaIv~~A~e~~aDLIVmGsr-~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~ 259 (261)
+.++...++-|| .+.+.|++.+++.++|++|.|-. .-|-.- ..-|.++..|-+...||++
T Consensus 43 ~~eVvaTiiCGDnYf~en~eea~~~i~~mv~k~~pDv~iaGPaFNagrYG----~acg~va~aV~e~~~IP~v 111 (431)
T TIGR01918 43 DAEVVHTVVCGDSFFGENLEEAVARVLEMLKDKEPDIFIAGPAFNAGRYG----VACGEICKVVQDKLNVPAV 111 (431)
T ss_pred CCEEEEEEEECchhhhhCHHHHHHHHHHHHHhcCCCEEEEcCccCCccHH----HHHHHHHHHHHHhhCCCeE
Confidence 445555566664 23477999999999999999988 444222 3348899999999999997
No 130
>COG1540 Uncharacterized proteins, homologs of lactam utilization protein B [General function prediction only]
Probab=30.40 E-value=3.2e+02 Score=25.01 Aligned_cols=50 Identities=14% Similarity=0.216 Sum_probs=35.5
Q ss_pred HHHHHHHhhcCCCcEEEEE---------EEcCChHHHHHHhhhhCCCcEEEECCCCCCc
Q 024855 185 LQKFLDTCSQSKVMVDTVL---------IESDLVAKAILDLIPVLNIRKLVVGTTKSSL 234 (261)
Q Consensus 185 Lek~~~~~~~~gV~ve~~v---------ieGd~~aeaIv~~A~e~~aDLIVmGsr~sgl 234 (261)
+-....+|+..|.++..+- ......+++|++.+...+..|++||-.++-+
T Consensus 92 iGAL~a~~~a~G~~~~hVKpHGALYN~~a~D~~la~av~~av~~~dp~L~l~~Lags~~ 150 (252)
T COG1540 92 IGALQAFARAQGGVVQHVKPHGALYNQAAKDRALADAVAEAVAAFDPSLILMGLAGSEL 150 (252)
T ss_pred HHHHHHHHHhcCCeEEEecccHHHHHHhhcCHHHHHHHHHHHHHhCCCceEEecCcHHH
Confidence 4445556777777665331 1234678999999999999999999886543
No 131
>PF02878 PGM_PMM_I: Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I; InterPro: IPR005844 The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) []. PGM (5.4.2.2 from EC) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose []. PGM/PMM (5.4.2.2 from EC; 5.4.2.8 from EC) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [, ]. Both PNGM (5.4.2.3 from EC) and PAGM (5.4.2.10 from EC) are involved in the biosynthesis of UDP-N-acetylglucosamine [, ]. Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme []. The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate. This entry represents domain I found in alpha-D-phosphohexomutase enzymes. This domain has a 3-layer alpha/beta/alpha topology.; GO: 0016868 intramolecular transferase activity, phosphotransferases, 0005975 carbohydrate metabolic process; PDB: 3I3W_B 1WQA_C 1KFQ_B 1KFI_A 2Z0F_A 2FKM_X 3C04_A 1K2Y_X 1P5G_X 2H4L_X ....
Probab=30.07 E-value=1.1e+02 Score=24.55 Aligned_cols=40 Identities=13% Similarity=-0.042 Sum_probs=33.6
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEec
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFP 148 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~ 148 (261)
...+|+|+-|....|....+.+++-+...|.+++.+...+
T Consensus 39 ~~~~VvVg~D~R~~s~~~~~~~~~~l~~~G~~V~~~g~~~ 78 (137)
T PF02878_consen 39 NGSRVVVGRDTRPSSPMLAKALAAGLRANGVDVIDIGLVP 78 (137)
T ss_dssp TSSEEEEEE-SSTTHHHHHHHHHHHHHHTTEEEEEEEEB-
T ss_pred CCCeEEEEEcccCCHHHHHHHHHHHHhhcccccccccccC
Confidence 4679999999999999999999888888899999888654
No 132
>cd06278 PBP1_LacI_like_2 Ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of uncharacterized DNA-binding regulatory proteins that are members of the LacI-GalR family of bacterial transcription repressors. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=30.00 E-value=2e+02 Score=24.38 Aligned_cols=40 Identities=10% Similarity=-0.005 Sum_probs=18.2
Q ss_pred HHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEEC
Q 024855 189 LDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVG 228 (261)
Q Consensus 189 ~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmG 228 (261)
.+.+++.|+.+.......+.-...+++.+...++|-||+-
T Consensus 22 ~~~~~~~g~~~~~~~~~~~~~~~~~i~~~~~~~vdgiii~ 61 (266)
T cd06278 22 SRALQARGYQPLLINTDDDEDLDAALRQLLQYRVDGVIVT 61 (266)
T ss_pred HHHHHHCCCeEEEEcCCCCHHHHHHHHHHHHcCCCEEEEe
Confidence 3344555665543222211112334444455677766664
No 133
>TIGR00364 exsB protein. This protein family is represented by a single member in nearly every completed large ( 1000 genes) prokaryotic genome. In Rhizobium meliloti, a species in which the exo genes make succinoglycan, a symbiotically important exopolysaccharide, exsB is located nearby and affects succinoglycan levels, probably through polar effects on exsA expression or the same polycistronic mRNA. In Arthrobacter viscosus, the homologous gene is designated ALU1 and is associated with an aluminum tolerance phenotype. The function is unknown.
Probab=29.80 E-value=3.5e+02 Score=22.93 Aligned_cols=23 Identities=9% Similarity=0.211 Sum_probs=18.7
Q ss_pred HHHHHhhhhCCCcEEEECCCCCC
Q 024855 211 KAILDLIPVLNIRKLVVGTTKSS 233 (261)
Q Consensus 211 eaIv~~A~e~~aDLIVmGsr~sg 233 (261)
..+..+|++++++.|++|.+...
T Consensus 101 ~~a~~~A~~~g~~~v~~G~~~~d 123 (201)
T TIGR00364 101 SIAASYAEALGAEAVITGVCETD 123 (201)
T ss_pred HHHHHHHHHCCCCEEEEEeccCc
Confidence 44568999999999999999433
No 134
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=29.68 E-value=1.6e+02 Score=23.95 Aligned_cols=37 Identities=8% Similarity=0.078 Sum_probs=28.7
Q ss_pred HhhcCCCcEEEEEEEc-CChHHHHHHhhhhCCCcEEEECCC
Q 024855 191 TCSQSKVMVDTVLIES-DLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 191 ~~~~~gV~ve~~vieG-d~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
.++..|+++... | +-+.+.|++.|.++++|+|.|...
T Consensus 26 ~lr~~G~eVi~L---G~~vp~e~i~~~a~~~~~d~V~lS~~ 63 (137)
T PRK02261 26 ALTEAGFEVINL---GVMTSQEEFIDAAIETDADAILVSSL 63 (137)
T ss_pred HHHHCCCEEEEC---CCCCCHHHHHHHHHHcCCCEEEEcCc
Confidence 355678876432 4 345799999999999999999887
No 135
>PF13155 Toprim_2: Toprim-like
Probab=29.47 E-value=1.3e+02 Score=22.02 Aligned_cols=30 Identities=10% Similarity=0.023 Sum_probs=25.7
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCC
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPS 138 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~g 138 (261)
++++|++++|..+..+++.+...+.....+
T Consensus 46 ~~~~i~l~~DnD~aG~~~~~~~~~~l~~~~ 75 (96)
T PF13155_consen 46 PYKKIVLAFDNDEAGRKAAEKLQKELKEEG 75 (96)
T ss_pred CCCcEEEEeCCCHHHHHHHHHHHHHHHhhC
Confidence 458899999999999999999988876554
No 136
>KOG2130 consensus Phosphatidylserine-specific receptor PtdSerR, contains JmjC domain [Chromatin structure and dynamics; Signal transduction mechanisms]
Probab=29.24 E-value=26 Score=33.36 Aligned_cols=11 Identities=36% Similarity=0.459 Sum_probs=4.5
Q ss_pred hhhhhhhhhhh
Q 024855 49 SEIEEEEEEEE 59 (261)
Q Consensus 49 ~~~~~~~~~~~ 59 (261)
++.|+|.|+.|
T Consensus 364 ~s~e~e~d~~G 374 (407)
T KOG2130|consen 364 SSDEEESDDNG 374 (407)
T ss_pred CCccccccccC
Confidence 33444444443
No 137
>cd08550 GlyDH-like Glycerol_dehydrogenase-like. Families of proteins related to glycerol dehydrogenases. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway. In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site. Some subfamilies have not been characterized till now.
Probab=29.07 E-value=1.4e+02 Score=27.87 Aligned_cols=18 Identities=17% Similarity=0.052 Sum_probs=10.6
Q ss_pred HHHHHhhhhCCCcEEE-EC
Q 024855 211 KAILDLIPVLNIRKLV-VG 228 (261)
Q Consensus 211 eaIv~~A~e~~aDLIV-mG 228 (261)
+.+++.+++.++|+|| +|
T Consensus 67 ~~~~~~~~~~~~d~IIavG 85 (349)
T cd08550 67 VKALCGAEEQEADVIIGVG 85 (349)
T ss_pred HHHHHHHHhcCCCEEEEec
Confidence 3455566666777665 44
No 138
>TIGR03183 DNA_S_dndC putative sulfurtransferase DndC. Members of this protein family are the DndC protein from the dnd (degradation during electrophoresis) operon. The dnd phenotype reflects a sulfur-containing modification to DNA. This operon is sparsely and sporadically distributed among bactera; among the first eight examples are members from the Actinobacteria, Firmicutes, Gammaproteobacteria, Cyanobacteria. DndC is suggested to be a sulfurtransferase.
Probab=29.05 E-value=5.8e+02 Score=25.28 Aligned_cols=25 Identities=12% Similarity=-0.035 Sum_probs=20.3
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhc
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAV 135 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~ 135 (261)
...+|+..|.+.|..+|..+.+.+.
T Consensus 14 ~p~vV~fSGGKDSta~L~Lv~~Al~ 38 (447)
T TIGR03183 14 IPWVVGYSGGKDSTAVLQLIWNALA 38 (447)
T ss_pred CceEEEeCCCHHHHHHHHHHHHHHH
Confidence 4578999999999999988776543
No 139
>TIGR00486 YbgI_SA1388 dinuclear metal center protein, YbgI/SA1388 family. The characterization of this family of uncharacterized proteins as orthologous is tentative. Members are found in all three domains of life. Several members (from Bacillus subtilis, Listeria monocytogenes, and Mycobacterium tuberculosis - all classified as Firmicutes within the Eubacteria) share a long insert relative to other members.
Probab=28.72 E-value=81 Score=28.28 Aligned_cols=33 Identities=27% Similarity=0.353 Sum_probs=21.3
Q ss_pred CCCCCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEE
Q 024855 106 GTQEEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIH 145 (261)
Q Consensus 106 ~~~~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLH 145 (261)
...+-++|+|++|.++. .+++|++ .++.+.+.|
T Consensus 32 ~~~~v~~I~~alD~t~~---vi~~Ai~----~~~dlIitH 64 (249)
T TIGR00486 32 GNEEVKKVVVAVDASES---VADEAVR----LGADLIITH 64 (249)
T ss_pred CCcccCEEEEEecCCHH---HHHHHHH----CCCCEEEEc
Confidence 34467899999999874 3444443 255566665
No 140
>TIGR00511 ribulose_e2b2 ribose-1,5-bisphosphate isomerase, e2b2 family. The delineation of this family was based originally, in part, on a discussion and neighbor-joining phylogenetic study by Kyrpides and Woese of archaeal and other proteins homologous to the alpha, beta, and delta subunits of eukaryotic initiation factor 2B (eIF-2B), a five-subunit molecule that catalyzes GTP recycling for eIF-2. Recently, Sato, et al. assigned the function ribulose-1,5 bisphosphate isomerase.
Probab=28.65 E-value=1.4e+02 Score=27.71 Aligned_cols=58 Identities=12% Similarity=0.055 Sum_probs=34.2
Q ss_pred HhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCC---CC-cccccccceeccHHHHHhccCCcceee
Q 024855 191 TCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTK---SS-LRFHFHSINFNGIGTLILFYFSILLFC 260 (261)
Q Consensus 191 ~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~---sg-l~~~~r~l~lGSVA~~Vlr~A~ipv~~ 260 (261)
.+.+.|++++.+ . |...-.+. + .+|++++|+++ .| +.. ..+.....-..|+..+||++
T Consensus 161 ~L~~~gI~vtlI--~-Dsa~~~~m---~--~vd~VivGad~v~~nG~v~n----kiGT~~lA~~Ak~~~vPv~V 222 (301)
T TIGR00511 161 ELRDYGIPVTLI--V-DSAVRYFM---K--EVDHVVVGADAITANGALIN----KIGTSQLALAAREARVPFMV 222 (301)
T ss_pred HHHHCCCCEEEE--e-hhHHHHHH---H--hCCEEEECccEEecCCCEEE----HHhHHHHHHHHHHhCCCEEE
Confidence 345568877633 2 22222232 2 39999999993 33 433 33444455566888999985
No 141
>COG0075 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]
Probab=28.63 E-value=5.1e+02 Score=25.17 Aligned_cols=35 Identities=14% Similarity=0.193 Sum_probs=23.5
Q ss_pred CCCCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEE
Q 024855 107 TQEEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHV 146 (261)
Q Consensus 107 ~~~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHV 146 (261)
..+.+||||..-|-=.- +|+ +++++++.+++++.+
T Consensus 77 ~~pgdkVLv~~nG~FG~----R~~-~ia~~~g~~v~~~~~ 111 (383)
T COG0075 77 VEPGDKVLVVVNGKFGE----RFA-EIAERYGAEVVVLEV 111 (383)
T ss_pred cCCCCeEEEEeCChHHH----HHH-HHHHHhCCceEEEeC
Confidence 34778888887764322 344 667778888877775
No 142
>cd01715 ETF_alpha The electron transfer flavoprotein (ETF) serves as a specific electron acceptor for various mitochondrial dehydrogenases. ETF transfers electrons to the main respiratory chain via ETF-ubiquinone oxidoreductase. ETF is an heterodimer that consists of an alpha and a beta subunit which binds one molecule of FAD per dimer . A similar system also exists in some bacteria. The homologous pair of proteins (FixA/FixB) are essential for nitrogen fixation. The alpha subunit of ETF is structurally related to the bacterial nitrogen fixation protein fixB which could play a role in a redox process and feed electrons to ferredoxin.
Probab=28.40 E-value=93 Score=25.80 Aligned_cols=26 Identities=19% Similarity=0.180 Sum_probs=21.8
Q ss_pred ChHHHHHHhhhhCCCcEEEECCCCCC
Q 024855 208 LVAKAILDLIPVLNIRKLVVGTTKSS 233 (261)
Q Consensus 208 ~~aeaIv~~A~e~~aDLIVmGsr~sg 233 (261)
..+++|.+.++++++|+|++|....|
T Consensus 70 ~~a~al~~~i~~~~p~~Vl~~~t~~g 95 (168)
T cd01715 70 PYAPALVALAKKEKPSHILAGATSFG 95 (168)
T ss_pred HHHHHHHHHHHhcCCCEEEECCCccc
Confidence 45688999999999999999999544
No 143
>cd06291 PBP1_Qymf_like Ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. This group includes the ligand binding domain of the lacI-like transcription regulator from a novel metal-reducing bacterium Alkaliphilus Metalliredigens (strain Qymf) and its close homologs. Qymf is a strict anaerobe that could be grown in the presence of borax and its cells are straight rods that produce endospores. This group is a member of the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription
Probab=28.25 E-value=1.8e+02 Score=24.77 Aligned_cols=43 Identities=9% Similarity=0.115 Sum_probs=23.3
Q ss_pred HHHHhhcCCCcEEEEEEEcCC-hHHHHHHhhhhCCCcEEEECCC
Q 024855 188 FLDTCSQSKVMVDTVLIESDL-VAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 188 ~~~~~~~~gV~ve~~vieGd~-~aeaIv~~A~e~~aDLIVmGsr 230 (261)
+.+.+++.|..+......++. ....+++.+...++|-||+...
T Consensus 21 i~~~~~~~g~~~~~~~~~~~~~~~~~~i~~~~~~~~dgiii~~~ 64 (265)
T cd06291 21 VEKELYKKGYKLILCNSDNDPEKEREYLEMLRQNQVDGIIAGTH 64 (265)
T ss_pred HHHHHHHCCCeEEEecCCccHHHHHHHHHHHHHcCCCEEEEecC
Confidence 334455567665432222121 1234556677788998888654
No 144
>cd01999 Argininosuccinate_Synthase Argininosuccinate synthase. The Argininosuccinate synthase is a urea cycle enzyme that catalyzes the penultimate step in arginine biosynthesis: the ATP-dependent ligation of citrulline to aspartate to form argininosuccinate, AMP and pyrophosphate . In humans, a defect in the AS gene causes citrullinemia, a genetic disease characterized by severe vomiting spells and mental retardation. AS is a homotetrameric enzyme of chains of about 400 amino-acid residues. An arginine seems to be important for the enzyme's catalytic mechanism. The sequences of AS from various prokaryotes, archaebacteria and eukaryotes show significant similarity
Probab=28.23 E-value=3.6e+02 Score=26.06 Aligned_cols=32 Identities=9% Similarity=0.121 Sum_probs=25.8
Q ss_pred EEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 113 IYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 113 ILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
|+|++.|.-.|.-++.|+.+. .+.+++.+|+-
T Consensus 1 Vvva~SGGlDSsvll~~l~e~---~~~eV~av~~d 32 (385)
T cd01999 1 VVLAYSGGLDTSVILKWLKEK---GGYEVIAVTAD 32 (385)
T ss_pred CEEEecCCHHHHHHHHHHHHh---CCCeEEEEEEE
Confidence 688999999999899888664 24589999985
No 145
>PRK12569 hypothetical protein; Provisional
Probab=28.21 E-value=2.7e+02 Score=25.44 Aligned_cols=53 Identities=11% Similarity=0.091 Sum_probs=36.8
Q ss_pred HHHHHHHHHHHHhhcCCCcEEEEEE---------EcCChHHHHHHhhhhCCCcEEEECCCCC
Q 024855 180 KRRQLLQKFLDTCSQSKVMVDTVLI---------ESDLVAKAILDLIPVLNIRKLVVGTTKS 232 (261)
Q Consensus 180 ~~~~~Lek~~~~~~~~gV~ve~~vi---------eGd~~aeaIv~~A~e~~aDLIVmGsr~s 232 (261)
.....+..+..+|...|.++..+-- ....++++|++.+++.+.+|++++-.++
T Consensus 90 ~v~yQigaL~~~~~~~g~~l~hVKPHGALYN~~~~d~~la~av~~ai~~~~~~l~l~~~~~s 151 (245)
T PRK12569 90 DVLYQLGALREFARAHGVRLQHVKPHGALYMHAARDEALARLLVEALARLDPLLILYCMDGS 151 (245)
T ss_pred HHHHHHHHHHHHHHHcCCeeEEecCCHHHHHHHhcCHHHHHHHHHHHHHhCCCcEEEecCCc
Confidence 3334455566677777887764311 2346789999999999999999986544
No 146
>TIGR00646 MG010 DNA primase-related protein. The DNA primase DnaG of E. coli and its apparent orthologs in other eubacterial species are approximately 600 residues in length. Within this set, a conspicuous outlier in percent identity, as seen in a UPGMA difference tree, is the branch containing the Mycoplasmas. This lineage is also unique in containing the small, DNA primase-related protein modelled by this alignment, which is homologous to the central third of DNA primase. Several small regions of sequence similarity specifically to Mycoplasma sequences rather than to all DnaG homologs suggests that the divergence of this protein from DnaG post-dated the separation of bacterial lineages. The function of this DNA primase-related protein is unknown.
Probab=28.07 E-value=1.3e+02 Score=27.01 Aligned_cols=36 Identities=8% Similarity=0.059 Sum_probs=30.3
Q ss_pred CCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEE
Q 024855 110 EDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIH 145 (261)
Q Consensus 110 ~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLH 145 (261)
.++|.+++|+.+..++|...+++.+...|-.+.++.
T Consensus 154 ~~~Iil~~D~D~AG~~Aa~r~~~~L~~~G~~v~vv~ 189 (218)
T TIGR00646 154 IEKIFICFDNDFAGKNAAANLEEILKKAGFITKVIE 189 (218)
T ss_pred CCEEEEEeCCCHHHHHHHHHHHHHHHHCCCeEEEEe
Confidence 479999999999999999999999877777665543
No 147
>PF02887 PK_C: Pyruvate kinase, alpha/beta domain; InterPro: IPR015795 Pyruvate kinase (2.7.1.40 from EC) (PK) catalyses the final step in glycolysis [], the conversion of phosphoenolpyruvate to pyruvate with concomitant phosphorylation of ADP to ATP: ADP + phosphoenolpyruvate = ATP + pyruvate The enzyme, which is found in all living organisms, requires both magnesium and potassium ions for its activity. In vertebrates, there are four tissue-specific isozymes: L (liver), R (red cells), M1 (muscle, heart and brain), and M2 (early foetal tissue). In plants, PK exists as cytoplasmic and plastid isozymes, while most bacteria and lower eukaryotes have one form, except in certain bacteria, such as Escherichia coli, that have two isozymes. All isozymes appear to be tetramers of identical subunits of ~500 residues. PK helps control the rate of glycolysis, along with phosphofructokinase (IPR000023 from INTERPRO) and hexokinase (IPR001312 from INTERPRO). PK possesses allosteric sites for numerous effectors, yet the isozymes respond differently, in keeping with their different tissue distributions []. The activity of L-type (liver) PK is increased by fructose-1,6-bisphosphate (F1,6BP) and lowered by ATP and alanine (gluconeogenic precursor), therefore when glucose levels are high, glycolysis is promoted, and when levels are low, gluconeogenesis is promoted. L-type PK is also hormonally regulated, being activated by insulin and inhibited by glucagon, which covalently modifies the PK enzyme. M1-type (muscle, brain) PK is inhibited by ATP, but F1,6BP and alanine have no effect, which correlates with the function of muscle and brain, as opposed to the liver. The structure of several pyruvate kinases from various organisms have been determined [, ]. The protein comprises three-four domains: a small N-terminal helical domain (absent in bacterial PK), a beta/alpha-barrel domain, a beta-barrel domain (inserted within the beta/alpha-barrel domain), and a 3-layer alpha/beta/alpha sandwich domain. This entry represents the 3-layer alpha/beta/alpha sandwich domain. This domain has a similar topology to the archaeal hypothetical protein, MTH1675 from Methanobacterium thermoautotrophicum.; PDB: 3QTG_B 1VP8_A 1T57_C 3N25_A 1AQF_C 2G50_B 1F3X_G 1A5U_F 1A49_E 1F3W_C ....
Probab=27.73 E-value=53 Score=25.62 Aligned_cols=22 Identities=36% Similarity=0.458 Sum_probs=13.6
Q ss_pred hHHHHHHhhhhCCCcEEEECCC
Q 024855 209 VAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 209 ~aeaIv~~A~e~~aDLIVmGsr 230 (261)
++...++.|++.++..||+=++
T Consensus 4 ia~aa~~~A~~~~ak~Ivv~T~ 25 (117)
T PF02887_consen 4 IARAAVELAEDLNAKAIVVFTE 25 (117)
T ss_dssp HHHHHHHHHHHHTESEEEEE-S
T ss_pred HHHHHHHHHHhcCCCEEEEECC
Confidence 3456666777777777776554
No 148
>COG0301 ThiI Thiamine biosynthesis ATP pyrophosphatase [Coenzyme metabolism]
Probab=27.69 E-value=5.8e+02 Score=24.83 Aligned_cols=40 Identities=5% Similarity=-0.051 Sum_probs=23.5
Q ss_pred CCCCCCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecC
Q 024855 105 NGTQEEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQ 149 (261)
Q Consensus 105 ~~~~~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~ 149 (261)
|..+.. ++|+=+.|.-.|- -|.-++.++|.+++.||...+
T Consensus 171 PvGt~G-k~l~LlSGGIDSP----VA~~l~mkRG~~v~~v~f~~~ 210 (383)
T COG0301 171 PVGTQG-KVLLLLSGGIDSP----VAAWLMMKRGVEVIPVHFGNP 210 (383)
T ss_pred ccccCC-cEEEEEeCCCChH----HHHHHHHhcCCEEEEEEEcCC
Confidence 333344 5555555433333 334456678999999998644
No 149
>TIGR01501 MthylAspMutase methylaspartate mutase, S subunit. This model represents the S (sigma) subunit of methylaspartate mutase (glutamate mutase), a cobalamin-dependent enzyme that catalyzes the first step in a pathway of glutamate fermentation.
Probab=27.68 E-value=1e+02 Score=25.37 Aligned_cols=37 Identities=5% Similarity=-0.017 Sum_probs=28.0
Q ss_pred hhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 192 CSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 192 ~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
++..|+++... --+-+.+.+++.|.++++|+|.|.+.
T Consensus 25 l~~~GfeVi~L--G~~v~~e~~v~aa~~~~adiVglS~l 61 (134)
T TIGR01501 25 FTNAGFNVVNL--GVLSPQEEFIKAAIETKADAILVSSL 61 (134)
T ss_pred HHHCCCEEEEC--CCCCCHHHHHHHHHHcCCCEEEEecc
Confidence 45678876543 12344699999999999999999877
No 150
>cd03557 L-arabinose_isomerase L-Arabinose isomerase (AI) catalyzes the isomerization of L-arabinose to L-ribulose, the first reaction in its conversion into D-xylulose-5-phosphate, an intermediate in the pentose phosphate pathway, which allows L-arabinose to be used as a carbon source. AI can also convert D-galactose to D-tagatose at elevated temperatures in the presence of divalent metal ions. D-tagatose, rarely found in nature, is of commercial interest as a low-calorie sugar substitute.
Probab=27.44 E-value=2.4e+02 Score=28.20 Aligned_cols=43 Identities=14% Similarity=-0.030 Sum_probs=29.4
Q ss_pred HHHHHHhhhhC----CCcEEEECCCCCCcccccccceeccHHHHHhccCCcceeeC
Q 024855 210 AKAILDLIPVL----NIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 210 aeaIv~~A~e~----~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
++.|.+..++. ++|.||+--+.-+-.+ ..-.+++.-.+|||++
T Consensus 51 ~~~i~~~~~~~~~~~~~dgvi~~m~TFs~a~---------~~i~~~~~l~~PvL~~ 97 (484)
T cd03557 51 PDEILAVCREANADDNCAGVITWMHTFSPAK---------MWIAGLTALQKPLLHL 97 (484)
T ss_pred HHHHHHHHHHccccCCccEEEEccCCCchHH---------HHHHHHHHcCCCEEEE
Confidence 46666666664 5999999888544333 3344578889999874
No 151
>cd02070 corrinoid_protein_B12-BD B12 binding domain of corrinoid proteins. A family of small methanogenic corrinoid proteins that bind methyl-Co(III) 5-hydroxybenzimidazolylcobamide as a cofactor. They play a role on the methanogenesis from trimethylamine, dimethylamine or monomethylamine, which is initiated by a series of corrinoid-dependent methyltransferases.
Probab=27.43 E-value=1.3e+02 Score=25.94 Aligned_cols=42 Identities=7% Similarity=0.076 Sum_probs=29.9
Q ss_pred HhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC-CCCc
Q 024855 191 TCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT-KSSL 234 (261)
Q Consensus 191 ~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr-~sgl 234 (261)
.++..|+++... --+-+.+.|++.+.++++|+|.+... ...+
T Consensus 105 ~l~~~G~~vi~l--G~~~p~~~l~~~~~~~~~d~v~lS~~~~~~~ 147 (201)
T cd02070 105 MLEANGFEVIDL--GRDVPPEEFVEAVKEHKPDILGLSALMTTTM 147 (201)
T ss_pred HHHHCCCEEEEC--CCCCCHHHHHHHHHHcCCCEEEEeccccccH
Confidence 355668776322 12345799999999999999999886 4443
No 152
>COG0473 LeuB Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]
Probab=27.31 E-value=77 Score=30.37 Aligned_cols=57 Identities=16% Similarity=0.236 Sum_probs=38.6
Q ss_pred CCccccccccccceeeecccCCCC-CCCCCeEEEeecC----ChhHHHHHHHHHHHhcCC-CCeEEEEEE
Q 024855 83 MPLAPIKEEIESSFFSFDVANGNG-TQEEDIIYVAVGK----SQSSMDALSWTLRHAVNP-STLIFLIHV 146 (261)
Q Consensus 83 ~p~~~~~~~~~~~~~~~~~~~~~~-~~~~kkILVaVDg----Se~S~~AL~~Al~~A~~~-ga~L~LLHV 146 (261)
+-++.|||-.++.-|-. .. .....+ |++|. -..+++.+++|.++|+++ ..+|+.+|=
T Consensus 120 ~D~viVREnTeG~Y~G~-----~~~~~~~~e--va~~~~~~Tr~~~eRI~r~AFe~A~~R~~kkvTsv~K 182 (348)
T COG0473 120 VDIVIVRENTEGLYFGE-----EGRILGGGE--VAIDTKVITRKGSERIARFAFELARKRGRKKVTSVHK 182 (348)
T ss_pred ccEEEEeeCCCccccCC-----CccccCCCe--EEEEEEeccHHHHHHHHHHHHHHHHhhCCCceEEEeh
Confidence 45778899988776611 11 001112 45554 248899999999999988 689999994
No 153
>PRK10415 tRNA-dihydrouridine synthase B; Provisional
Probab=27.22 E-value=3.1e+02 Score=25.56 Aligned_cols=73 Identities=14% Similarity=0.102 Sum_probs=40.9
Q ss_pred HHHHHHHHHHhhcCCCcEEEEEEEcCC----hHHHHHHhhhhCCCcEEEECCC-CCCcccccccceeccHHHHHhccCCc
Q 024855 182 RQLLQKFLDTCSQSKVMVDTVLIESDL----VAKAILDLIPVLNIRKLVVGTT-KSSLRFHFHSINFNGIGTLILFYFSI 256 (261)
Q Consensus 182 ~~~Lek~~~~~~~~gV~ve~~vieGd~----~aeaIv~~A~e~~aDLIVmGsr-~sgl~~~~r~l~lGSVA~~Vlr~A~i 256 (261)
.++++...+.+ ++++...+..|-. -...+++.+.+.++|.|.+-.+ +.+... ..... ....+|.+..++
T Consensus 122 ~eiv~av~~a~---d~pv~vKiR~G~~~~~~~~~~~a~~le~~G~d~i~vh~rt~~~~~~--G~a~~-~~i~~ik~~~~i 195 (321)
T PRK10415 122 KSILTEVVNAV---DVPVTLKIRTGWAPEHRNCVEIAQLAEDCGIQALTIHGRTRACLFN--GEAEY-DSIRAVKQKVSI 195 (321)
T ss_pred HHHHHHHHHhc---CCceEEEEEccccCCcchHHHHHHHHHHhCCCEEEEecCccccccC--CCcCh-HHHHHHHHhcCC
Confidence 34444443333 4555555443321 1457778888999999987665 333211 00111 355677778889
Q ss_pred ceee
Q 024855 257 LLFC 260 (261)
Q Consensus 257 pv~~ 260 (261)
||+.
T Consensus 196 PVI~ 199 (321)
T PRK10415 196 PVIA 199 (321)
T ss_pred cEEE
Confidence 9874
No 154
>COG0036 Rpe Pentose-5-phosphate-3-epimerase [Carbohydrate transport and metabolism]
Probab=27.06 E-value=1.8e+02 Score=26.12 Aligned_cols=31 Identities=6% Similarity=0.165 Sum_probs=21.6
Q ss_pred cEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 198 MVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 198 ~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
++... +.|+- ...-+..+.+.++|.+|+|+.
T Consensus 169 ~~~Ie-VDGGI-~~~t~~~~~~AGad~~VaGSa 199 (220)
T COG0036 169 DILIE-VDGGI-NLETIKQLAAAGADVFVAGSA 199 (220)
T ss_pred CeEEE-EeCCc-CHHHHHHHHHcCCCEEEEEEE
Confidence 44433 44553 466667777789999999996
No 155
>smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins.
Probab=27.01 E-value=99 Score=21.59 Aligned_cols=26 Identities=4% Similarity=-0.156 Sum_probs=22.0
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcC
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVN 136 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~ 136 (261)
++|+++.|.+...+.+.++..+.+..
T Consensus 48 ~~Iii~~D~D~~G~~~~~~i~~~l~~ 73 (76)
T smart00493 48 KEVILATDPDREGEAIAWKLAELLKP 73 (76)
T ss_pred CEEEEEcCCChhHHHHHHHHHHHhhh
Confidence 67999999999999998888777653
No 156
>PLN02285 methionyl-tRNA formyltransferase
Probab=26.95 E-value=2e+02 Score=27.15 Aligned_cols=39 Identities=8% Similarity=0.030 Sum_probs=23.3
Q ss_pred hhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 192 CSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 192 ~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
+.+.|+++..+......-.+.+++..++.++|+||+...
T Consensus 64 A~~~gIp~~~v~~~~~~~~~~~~~~l~~~~~Dliv~~~~ 102 (334)
T PLN02285 64 ALDRGFPPDLIFTPEKAGEEDFLSALRELQPDLCITAAY 102 (334)
T ss_pred HHHcCCCcceecCccccCCHHHHHHHHhhCCCEEEhhHh
Confidence 455677743221111111245677788899999999876
No 157
>cd06271 PBP1_AglR_RafR_like Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressors specific for raffinose (RafR) and alpha-glucosides (AglR) which are members of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the represso
Probab=26.82 E-value=2.6e+02 Score=23.67 Aligned_cols=40 Identities=8% Similarity=0.054 Sum_probs=19.5
Q ss_pred HhhcCCCcEEEEEEEcC-ChHHHHHHhhhhCCCcEEEECCC
Q 024855 191 TCSQSKVMVDTVLIESD-LVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 191 ~~~~~gV~ve~~vieGd-~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
.+++.|+.+.......+ ...+.+.+...+.++|-||+...
T Consensus 28 ~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~vdgiii~~~ 68 (268)
T cd06271 28 ALAEHGYDLVLLPVDPDEDPLEVYRRLVESGLVDGVIISRT 68 (268)
T ss_pred HHHHCCceEEEecCCCcHHHHHHHHHHHHcCCCCEEEEecC
Confidence 34445665543322211 11234555555667887777543
No 158
>PRK06801 hypothetical protein; Provisional
Probab=26.81 E-value=1.1e+02 Score=28.33 Aligned_cols=73 Identities=4% Similarity=-0.140 Sum_probs=46.2
Q ss_pred HHHHHHHHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCCCCcccccccceeccHHHHHhccCCcceee
Q 024855 182 RQLLQKFLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFSILLFC 260 (261)
Q Consensus 182 ~~~Lek~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~ 260 (261)
+++|+++ ++.+.-+=..=+..-....+|++.|++.+.-+|+.-+.... ++...-.+......+.+.+.+||.+
T Consensus 7 ~~~l~~A----~~~~yaV~Afn~~n~e~~~avi~AAe~~~~PvIl~~~~~~~--~~~~~~~~~~~~~~~a~~~~vpV~l 79 (286)
T PRK06801 7 ANGLAHA----RKHGYALGAFNVLDSHFLRALFAAAKQERSPFIINIAEVHF--KYISLESLVEAVKFEAARHDIPVVL 79 (286)
T ss_pred HHHHHHH----HHCCceEEEEeeCCHHHHHHHHHHHHHHCCCEEEEeCcchh--hcCCHHHHHHHHHHHHHHCCCCEEE
Confidence 3445444 33444333332334345799999999999999999887321 1111122457888899999999864
No 159
>PRK06806 fructose-bisphosphate aldolase; Provisional
Probab=26.77 E-value=4e+02 Score=24.52 Aligned_cols=73 Identities=11% Similarity=-0.058 Sum_probs=42.8
Q ss_pred HHHHHHHhhcCCCcEEEEEEE-c-------------CChHHHHHHhhhhCCCcEEEE--CCC-CCCcccccccceeccHH
Q 024855 185 LQKFLDTCSQSKVMVDTVLIE-S-------------DLVAKAILDLIPVLNIRKLVV--GTT-KSSLRFHFHSINFNGIG 247 (261)
Q Consensus 185 Lek~~~~~~~~gV~ve~~vie-G-------------d~~aeaIv~~A~e~~aDLIVm--Gsr-~sgl~~~~r~l~lGSVA 247 (261)
..++.+.|...|+.++..+.. | ..+ +...+++++.++|.|-+ |+- +.--.. ..+.=..-
T Consensus 117 t~~v~~~a~~~gv~veaE~ghlG~~d~~~~~~g~s~t~~-eea~~f~~~tg~DyLAvaiG~~hg~~~~~---~~l~~~~L 192 (281)
T PRK06806 117 TKEIVELAKQYGATVEAEIGRVGGSEDGSEDIEMLLTST-TEAKRFAEETDVDALAVAIGNAHGMYNGD---PNLRFDRL 192 (281)
T ss_pred HHHHHHHHHHcCCeEEEEeeeECCccCCcccccceeCCH-HHHHHHHHhhCCCEEEEccCCCCCCCCCC---CccCHHHH
Confidence 345556677777776643211 1 233 55677777789999999 877 321111 11111345
Q ss_pred HHHhccCCcceeeC
Q 024855 248 TLILFYFSILLFCF 261 (261)
Q Consensus 248 ~~Vlr~A~ipv~~~ 261 (261)
.++.+..++|++++
T Consensus 193 ~~i~~~~~iPlV~h 206 (281)
T PRK06806 193 QEINDVVHIPLVLH 206 (281)
T ss_pred HHHHHhcCCCEEEE
Confidence 66777778998863
No 160
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=26.55 E-value=4.6e+02 Score=24.12 Aligned_cols=84 Identities=12% Similarity=0.135 Sum_probs=52.1
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHH
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKF 188 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~ 188 (261)
+.+||.|-+-|+....+||-.+.+.- ..++++.+|-. .. ++ +
T Consensus 88 ~~~ri~vl~Sg~g~nl~al~~~~~~~-~~~~~i~~vis--n~----------------~~-------------------~ 129 (286)
T PRK13011 88 ARPKVLIMVSKFDHCLNDLLYRWRIG-ELPMDIVGVVS--NH----------------PD-------------------L 129 (286)
T ss_pred cCceEEEEEcCCcccHHHHHHHHHcC-CCCcEEEEEEE--CC----------------cc-------------------H
Confidence 46799999999988899988876543 23455555432 11 00 1
Q ss_pred HHHhhcCCCcEEEEEE-EcC--ChHHHHHHhhhhCCCcEEEECCC
Q 024855 189 LDTCSQSKVMVDTVLI-ESD--LVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 189 ~~~~~~~gV~ve~~vi-eGd--~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
...+++.|+++...-. ..+ .....+++..+++++|+||+...
T Consensus 130 ~~lA~~~gIp~~~~~~~~~~~~~~~~~~~~~l~~~~~Dlivlagy 174 (286)
T PRK13011 130 EPLAAWHGIPFHHFPITPDTKPQQEAQVLDVVEESGAELVVLARY 174 (286)
T ss_pred HHHHHHhCCCEEEeCCCcCchhhhHHHHHHHHHHhCcCEEEEeCh
Confidence 1124556787653211 111 12346888899999999999866
No 161
>COG1066 Sms Predicted ATP-dependent serine protease [Posttranslational modification, protein turnover, chaperones]
Probab=26.51 E-value=2.3e+02 Score=28.14 Aligned_cols=85 Identities=12% Similarity=0.081 Sum_probs=53.0
Q ss_pred CCCeEEEeecCC-hhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHH
Q 024855 109 EEDIIYVAVGKS-QSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQK 187 (261)
Q Consensus 109 ~~kkILVaVDgS-e~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek 187 (261)
+..-||++=|.. -.|.-.|+-+..+|.+. .+|+|--+. +..++ +
T Consensus 92 ~Gs~iLIgGdPGIGKSTLLLQva~~lA~~~----~vLYVsGEE---------------S~~Qi-------k--------- 136 (456)
T COG1066 92 PGSVILIGGDPGIGKSTLLLQVAARLAKRG----KVLYVSGEE---------------SLQQI-------K--------- 136 (456)
T ss_pred cccEEEEccCCCCCHHHHHHHHHHHHHhcC----cEEEEeCCc---------------CHHHH-------H---------
Confidence 566777776643 37888999999998754 678874221 11111 1
Q ss_pred HHHHhhcCCCcEEEE-EEEcCChHHHHHHhhhhCCCcEEEECCCC
Q 024855 188 FLDTCSQSKVMVDTV-LIESDLVAKAILDLIPVLNIRKLVVGTTK 231 (261)
Q Consensus 188 ~~~~~~~~gV~ve~~-vieGd~~aeaIv~~A~e~~aDLIVmGsr~ 231 (261)
-.+++.++..... +..-.. -+.|++.+++.++|++|+-+-.
T Consensus 137 --lRA~RL~~~~~~l~l~aEt~-~e~I~~~l~~~~p~lvVIDSIQ 178 (456)
T COG1066 137 --LRADRLGLPTNNLYLLAETN-LEDIIAELEQEKPDLVVIDSIQ 178 (456)
T ss_pred --HHHHHhCCCccceEEehhcC-HHHHHHHHHhcCCCEEEEeccc
Confidence 1122334332322 222334 4999999999999999999873
No 162
>PRK12857 fructose-1,6-bisphosphate aldolase; Reviewed
Probab=26.50 E-value=1.1e+02 Score=28.39 Aligned_cols=50 Identities=6% Similarity=-0.003 Sum_probs=37.2
Q ss_pred EcCChHHHHHHhhhhCCCcEEEECCCC----CCcccccccceeccHHHHHhccCCcceee
Q 024855 205 ESDLVAKAILDLIPVLNIRKLVVGTTK----SSLRFHFHSINFNGIGTLILFYFSILLFC 260 (261)
Q Consensus 205 eGd~~aeaIv~~A~e~~aDLIVmGsr~----sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~ 260 (261)
.+-...+++++.|++.+..+|+..+.. .|+. .+......+.+.+++||.+
T Consensus 26 ~n~e~~~avi~AAee~~sPvIlq~~~~~~~~~g~~------~~~~~~~~~A~~~~VPVal 79 (284)
T PRK12857 26 NNMEIVQAIVAAAEAEKSPVIIQASQGAIKYAGIE------YISAMVRTAAEKASVPVAL 79 (284)
T ss_pred CCHHHHHHHHHHHHHhCCCEEEEechhHhhhCCHH------HHHHHHHHHHHHCCCCEEE
Confidence 344557999999999999999998873 2322 2345677788899999864
No 163
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=26.43 E-value=4.5e+02 Score=24.15 Aligned_cols=84 Identities=13% Similarity=0.177 Sum_probs=51.9
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHHHHHHHH
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRRQLLQKF 188 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~~~Lek~ 188 (261)
..+||.|-+.|+.++.+||-.+.+.- .-++++.+| +.... + +.
T Consensus 83 ~~~ki~vl~Sg~g~nl~~l~~~~~~g-~l~~~i~~v--isn~~----------------~------------~~------ 125 (280)
T TIGR00655 83 KLKRVAILVSKEDHCLGDLLWRWYSG-ELDAEIALV--ISNHE----------------D------------LR------ 125 (280)
T ss_pred CCcEEEEEEcCCChhHHHHHHHHHcC-CCCcEEEEE--EEcCh----------------h------------HH------
Confidence 45799999999999999998875532 223444443 32110 0 00
Q ss_pred HHHhhcCCCcEEEEEEE-c--CChHHHHHHhhhhCCCcEEEECCC
Q 024855 189 LDTCSQSKVMVDTVLIE-S--DLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 189 ~~~~~~~gV~ve~~vie-G--d~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
..+++.|+++...-.. . ..-...+++..+++++|+||+...
T Consensus 126 -~~A~~~gIp~~~~~~~~~~~~~~e~~~~~~l~~~~~Dlivlagy 169 (280)
T TIGR00655 126 -SLVERFGIPFHYIPATKDNRVEHEKRQLELLKQYQVDLVVLAKY 169 (280)
T ss_pred -HHHHHhCCCEEEcCCCCcchhhhHHHHHHHHHHhCCCEEEEeCc
Confidence 1245567877532111 0 112357888899999999999876
No 164
>TIGR00290 MJ0570_dom MJ0570-related uncharacterized domain. Proteins with this uncharacterized domain include two apparent ortholog families in the Archaea, one of which is universal among the first four completed archaeal genomes, and YLR143W, a much longer protein from Saccharomyces cerevisiae. The domain comprises the full length of the archaeal proteins and the first third of the yeast protein.
Probab=26.10 E-value=4.7e+02 Score=23.28 Aligned_cols=119 Identities=11% Similarity=0.110 Sum_probs=65.2
Q ss_pred CeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEecCCC-CCCC---C----------CCCCCCCCC-ChhHHHHHHH
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFPQVK-FVPS---P----------LGKLPRNQV-NPEQLETFMA 175 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~-~~p~---~----------~g~~~~~~~-~~e~~e~~~~ 175 (261)
+|+++...|.+.|..|+-+|.+. . .-+.|+++++... .+.+ + .| +|-... .....+++.+
T Consensus 1 Mk~~~l~SGGKDS~~al~~a~~~-~---~v~~L~t~~~~~~~s~~~H~~~~~~~~~qA~alg-ipl~~~~~~~~~e~~~e 75 (223)
T TIGR00290 1 MKVAALISGGKDSCLALYHALKE-H---EVISLVNIMPENEESYMFHGVNAHLTDLQAESIG-IPLIKLYTEGTEEDEVE 75 (223)
T ss_pred CcEEEEecCcHHHHHHHHHHHHh-C---eeEEEEEEecCCCCcccccccCHHHHHHHHHHcC-CCeEEeecCCCccHHHH
Confidence 36778889999999999998876 2 4577888887542 1110 0 01 110000 0000011111
Q ss_pred HHHHHHHH---------------HHHHHHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCCCCccc
Q 024855 176 QETGKRRQ---------------LLQKFLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTKSSLRF 236 (261)
Q Consensus 176 ~~~e~~~~---------------~Lek~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~sgl~~ 236 (261)
.+++..++ ........|++.|+++-.- +++.+. +.+++..-+.+++.+|+.....|+..
T Consensus 76 ~l~~~l~~~gv~~vv~GdI~s~~qr~~~e~v~~~lgl~~~~P-LW~~~~-~~ll~e~i~~G~~aiIv~v~a~gL~~ 149 (223)
T TIGR00290 76 ELKGILHTLDVEAVVFGAIYSEYQKTRIERVCRELGLKSFAP-LWHRDP-EKLMEEFVEEKFEARIIAVAAEGLDE 149 (223)
T ss_pred HHHHHHHHcCCCEEEECCcccHHHHHHHHHHHHhcCCEEecc-ccCCCH-HHHHHHHHHcCCeEEEEEEecCCCCh
Confidence 11111111 1123334577777766433 457774 66776666889999999988666643
No 165
>PRK12858 tagatose 1,6-diphosphate aldolase; Reviewed
Probab=26.10 E-value=5.7e+02 Score=24.26 Aligned_cols=129 Identities=4% Similarity=0.020 Sum_probs=68.7
Q ss_pred CeEEEeec--C---Ch---hHHHHHHHHHHHhcCCCCeEEEEEEecCCCCCCCCCCCCCCCCCChhHHHHHHHHHHHHHH
Q 024855 111 DIIYVAVG--K---SQ---SSMDALSWTLRHAVNPSTLIFLIHVFPQVKFVPSPLGKLPRNQVNPEQLETFMAQETGKRR 182 (261)
Q Consensus 111 kkILVaVD--g---Se---~S~~AL~~Al~~A~~~ga~L~LLHVv~~~~~~p~~~g~~~~~~~~~e~~e~~~~~~~e~~~ 182 (261)
.-++++++ + +. .....+.|-.+.+++.|+..+-+||+-.+. .+. +.+.+..
T Consensus 84 ~GLil~~e~tg~d~t~~gr~~~~~~~~sve~a~~~GAdAVk~lv~~~~d--------------~~~-------~~~~~~~ 142 (340)
T PRK12858 84 CGLLLSYEKTGYDATAPGRLPDLLDNWSVRRIKEAGADAVKLLLYYRPD--------------EDD-------AINDRKH 142 (340)
T ss_pred CCeEEEecccccccCCCCCCccccccccHHHHHHcCCCEEEEEEEeCCC--------------cch-------HHHHHHH
Confidence 34777766 2 21 334567787888888888888888862211 011 1122334
Q ss_pred HHHHHHHHHhhcCCCcEEEEEE--E-cC----------ChHHHHHH----hhh-hCCCcEEEECCCCCC-ccc-cc---c
Q 024855 183 QLLQKFLDTCSQSKVMVDTVLI--E-SD----------LVAKAILD----LIP-VLNIRKLVVGTTKSS-LRF-HF---H 239 (261)
Q Consensus 183 ~~Lek~~~~~~~~gV~ve~~vi--e-Gd----------~~aeaIv~----~A~-e~~aDLIVmGsr~sg-l~~-~~---r 239 (261)
..+.++.+.|.+.|+++-..++ . +. ...+.|.. .++ +.++|++=+---... ... +- -
T Consensus 143 ~~l~rv~~ec~~~giPlllE~l~y~~~~~~~~~~~~a~~~p~~V~~a~r~~~~~elGaDvlKve~p~~~~~veg~~~~~~ 222 (340)
T PRK12858 143 AFVERVGAECRANDIPFFLEPLTYDGKGSDKKAEEFAKVKPEKVIKTMEEFSKPRYGVDVLKVEVPVDMKFVEGFDGFEE 222 (340)
T ss_pred HHHHHHHHHHHHcCCceEEEEeccCCCccccccccccccCHHHHHHHHHHHhhhccCCeEEEeeCCCCcccccccccccc
Confidence 5677788889999998644321 1 11 00133333 333 588998877554211 100 00 0
Q ss_pred cceec---cHHHHHhccCCcceee
Q 024855 240 SINFN---GIGTLILFYFSILLFC 260 (261)
Q Consensus 240 ~l~lG---SVA~~Vlr~A~ipv~~ 260 (261)
.+... ..-.++++.+++|++.
T Consensus 223 ~~~~~~~~~~f~~~~~a~~~P~vv 246 (340)
T PRK12858 223 AYTQEEAFKLFREQSDATDLPFIF 246 (340)
T ss_pred cccHHHHHHHHHHHHhhCCCCEEE
Confidence 00000 2345667788999875
No 166
>cd02071 MM_CoA_mut_B12_BD methylmalonyl CoA mutase B12 binding domain. This domain binds to B12 (adenosylcobamide), which initiates the conversion of succinyl CoA and methylmalonyl CoA by forming an adenosyl radical, which then undergoes a rearrangement exchanging a hydrogen atom with a group attached to a neighboring carbon atom. This family is present in both mammals and bacteria. Bacterial members are heterodimers and involved in the fermentation of pyruvate to propionate. Mammalian members are homodimers and responsible for the conversion of odd-chain fatty acids and branched-chain amino acids via propionyl CoA to succinyl CoA for further degradation.
Probab=26.01 E-value=1.5e+02 Score=23.35 Aligned_cols=38 Identities=5% Similarity=-0.023 Sum_probs=28.8
Q ss_pred HhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 191 TCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 191 ~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
.++..|+++... ....+.+.+++.+.++++|.|+|...
T Consensus 22 ~l~~~G~~vi~l--G~~vp~e~~~~~a~~~~~d~V~iS~~ 59 (122)
T cd02071 22 ALRDAGFEVIYT--GLRQTPEEIVEAAIQEDVDVIGLSSL 59 (122)
T ss_pred HHHHCCCEEEEC--CCCCCHHHHHHHHHHcCCCEEEEccc
Confidence 356678776533 23445699999999999999999887
No 167
>PRK06806 fructose-bisphosphate aldolase; Provisional
Probab=25.87 E-value=1.4e+02 Score=27.46 Aligned_cols=66 Identities=8% Similarity=-0.108 Sum_probs=42.0
Q ss_pred hcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCCCCcccccccceeccHHHHHhccCCcceee
Q 024855 193 SQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFSILLFC 260 (261)
Q Consensus 193 ~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~ 260 (261)
++.+.-+=..=+.+-...++|++.|++.+.-+|+.-+...- ++...-.++.......+.+.+||.+
T Consensus 14 ~~~~yaV~Afn~~n~e~~~avi~aAe~~~~Pvii~~~~~~~--~~~~~~~~~~~~~~~a~~~~vpv~l 79 (281)
T PRK06806 14 NQENYGVGAFSVANMEMVMGAIKAAEELNSPIILQIAEVRL--NHSPLHLIGPLMVAAAKQAKVPVAV 79 (281)
T ss_pred HHCCceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCcchh--ccCChHHHHHHHHHHHHHCCCCEEE
Confidence 33444333332334445799999999999999999887321 1011122456777888999999864
No 168
>PRK12737 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=25.71 E-value=1.2e+02 Score=28.19 Aligned_cols=66 Identities=12% Similarity=0.031 Sum_probs=41.6
Q ss_pred hcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCCCCcccccccceeccHHHHHhccCCcceee
Q 024855 193 SQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFSILLFC 260 (261)
Q Consensus 193 ~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~ 260 (261)
++.+.-+=..=+.+....+++++.|++.+..+|+.-+...- ++...-.+........+.+.+||.+
T Consensus 14 ~~~~yaV~AfN~~n~e~~~avi~AAee~~sPvIiq~~~~~~--~~~g~~~~~~~~~~~a~~~~VPVal 79 (284)
T PRK12737 14 QAEGYAVPAFNIHNLETLQVVVETAAELRSPVILAGTPGTF--SYAGTDYIVAIAEVAARKYNIPLAL 79 (284)
T ss_pred HHcCceEEEEEeCCHHHHHHHHHHHHHhCCCEEEEcCccHH--hhCCHHHHHHHHHHHHHHCCCCEEE
Confidence 33444333332334445799999999999999998776211 1011112356777888899999864
No 169
>TIGR01858 tag_bisphos_ald class II aldolase, tagatose bisphosphate family. This model describes tagatose-1,6-bisphosphate aldolases, and perhaps other closely related class II aldolases. This tetrameric, Zn2+-dependent enzyme is related to the class II fructose bisphosphate aldolase; fructose 1,6-bisphosphate and tagatose 1,6 bisphosphate differ only in chirality at C4.
Probab=25.64 E-value=1.2e+02 Score=28.18 Aligned_cols=52 Identities=8% Similarity=0.026 Sum_probs=37.7
Q ss_pred cCChHHHHHHhhhhCCCcEEEECCCCC-CcccccccceeccHHHHHhccCCcceee
Q 024855 206 SDLVAKAILDLIPVLNIRKLVVGTTKS-SLRFHFHSINFNGIGTLILFYFSILLFC 260 (261)
Q Consensus 206 Gd~~aeaIv~~A~e~~aDLIVmGsr~s-gl~~~~r~l~lGSVA~~Vlr~A~ipv~~ 260 (261)
+....++|++.|++.+.-+|+.-+... .... .-.+......+.+.+.+||.+
T Consensus 25 n~e~~~avi~AAee~~sPvIlq~s~~~~~~~~---~~~~~~~~~~~a~~~~VPVal 77 (282)
T TIGR01858 25 NLETIQAVVETAAEMRSPVILAGTPGTFKHAG---TEYIVALCSAASTTYNMPLAL 77 (282)
T ss_pred CHHHHHHHHHHHHHhCCCEEEEeCccHHhhCC---HHHHHHHHHHHHHHCCCCEEE
Confidence 444579999999999999999988731 1111 112346788899999999864
No 170
>COG0415 PhrB Deoxyribodipyrimidine photolyase [DNA replication, recombination, and repair]
Probab=25.56 E-value=3.8e+02 Score=26.71 Aligned_cols=45 Identities=13% Similarity=0.160 Sum_probs=32.4
Q ss_pred HHHHHHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCC
Q 024855 184 LLQKFLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTK 231 (261)
Q Consensus 184 ~Lek~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~ 231 (261)
-|+.+.+.+.+.|++. .+..|++ ...|.+++++.+++.|+-....
T Consensus 56 sL~~L~~~L~~~gi~L--~v~~~~~-~~~l~~~~~~~~~~~v~~n~~~ 100 (461)
T COG0415 56 SLQALQQSLAELGIPL--LVREGDP-EQVLPELAKQLAATTVFWNRDY 100 (461)
T ss_pred HHHHHHHHHHHcCCce--EEEeCCH-HHHHHHHHHHhCcceEEeeeee
Confidence 3555555566667764 4556775 7999999999998888877664
No 171
>TIGR00640 acid_CoA_mut_C methylmalonyl-CoA mutase C-terminal domain. Methylmalonyl-CoA mutase (EC 5.4.99.2) catalyzes a reversible isomerization between L-methylmalonyl-CoA and succinyl-CoA. The enzyme uses an adenosylcobalamin cofactor. It may be a homodimer, as in mitochondrion, or a heterodimer with partially homologous beta chain that does not bind the adenosylcobalamin cofactor, as in Propionibacterium freudenreichii. The most similar archaeal sequences are separate chains, such as AF2215 and AF2219 of Archaeoglobus fulgidus, that correspond roughly to the first 500 and last 130 residues, respectively of known methylmalonyl-CoA mutases. This model describes the C-terminal domain subfamily. In a neighbor-joining tree (methylaspartate mutase S chain as the outgroup), AF2219 branches with a coenzyme B12-dependent enzyme known not to be 5.4.99.2.
Probab=25.52 E-value=1.1e+02 Score=24.77 Aligned_cols=38 Identities=11% Similarity=-0.046 Sum_probs=27.9
Q ss_pred hhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCC
Q 024855 192 CSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTK 231 (261)
Q Consensus 192 ~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~ 231 (261)
++..|+++... ..+...+.+++.|.++++|.|+|.+.-
T Consensus 26 l~~~GfeVi~l--g~~~s~e~~v~aa~e~~adii~iSsl~ 63 (132)
T TIGR00640 26 YADLGFDVDVG--PLFQTPEEIARQAVEADVHVVGVSSLA 63 (132)
T ss_pred HHhCCcEEEEC--CCCCCHHHHHHHHHHcCCCEEEEcCch
Confidence 45568776533 223346899999999999999998873
No 172
>COG0452 Dfp Phosphopantothenoylcysteine synthetase/decarboxylase [Coenzyme metabolism]
Probab=25.08 E-value=1.1e+02 Score=29.58 Aligned_cols=37 Identities=11% Similarity=0.078 Sum_probs=29.5
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEE
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHV 146 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHV 146 (261)
..++|||+|.||-.+.++++.+-. ..+.|+++.++--
T Consensus 3 ~~k~ill~v~gsiaayk~~~l~r~-L~~~ga~v~vvmt 39 (392)
T COG0452 3 EGKRILLGVTGSIAAYKSVELVRL-LRRSGAEVRVVMT 39 (392)
T ss_pred CCceEEEEecCchhhhhHHHHHHH-HhhCCCeeEEEcc
Confidence 346999999999999999988754 5678887777654
No 173
>PRK10550 tRNA-dihydrouridine synthase C; Provisional
Probab=24.92 E-value=5.7e+02 Score=23.78 Aligned_cols=76 Identities=16% Similarity=-0.006 Sum_probs=44.1
Q ss_pred HHHHHHHHHHHhhcCCCcEEEEEEEcC---ChHHHHHHhhhhCCCcEEEECCC-CCCccccccc-ceeccHHHHHhccCC
Q 024855 181 RRQLLQKFLDTCSQSKVMVDTVLIESD---LVAKAILDLIPVLNIRKLVVGTT-KSSLRFHFHS-INFNGIGTLILFYFS 255 (261)
Q Consensus 181 ~~~~Lek~~~~~~~~gV~ve~~vieGd---~~aeaIv~~A~e~~aDLIVmGsr-~sgl~~~~r~-l~lGSVA~~Vlr~A~ 255 (261)
+.++++...+.+.. ++++...+.-|. .....+++.+.+.++|+|.+-.| +....+ .. .-. ....+|.+...
T Consensus 119 ~~eiv~avr~~~~~-~~pVsvKiR~g~~~~~~~~~~a~~l~~~Gvd~i~Vh~Rt~~~~y~--g~~~~~-~~i~~ik~~~~ 194 (312)
T PRK10550 119 IYQGAKAMREAVPA-HLPVTVKVRLGWDSGERKFEIADAVQQAGATELVVHGRTKEDGYR--AEHINW-QAIGEIRQRLT 194 (312)
T ss_pred HHHHHHHHHHhcCC-CcceEEEEECCCCCchHHHHHHHHHHhcCCCEEEECCCCCccCCC--CCcccH-HHHHHHHhhcC
Confidence 44555555544321 355555544342 22467888899999999999666 322111 00 000 24677888889
Q ss_pred cceee
Q 024855 256 ILLFC 260 (261)
Q Consensus 256 ipv~~ 260 (261)
|||+.
T Consensus 195 iPVi~ 199 (312)
T PRK10550 195 IPVIA 199 (312)
T ss_pred CcEEE
Confidence 99874
No 174
>TIGR00421 ubiX_pad polyprenyl P-hydroxybenzoate and phenylacrylic acid decarboxylases. In E.coli, the protein UbiX (3-octaprenyl-4-hydroxybenzoate carboxy-lyase) has been shown to be involved in the third step of ubiquinone biosynthesis. It catalyzes the reaction [3-octaprenyl-4-hydroxybenzoate = 2-octaprenylphenol + CO2]. The knockout of the homologous protein in yeast confers sensitivity to phenylacrylic acid. Members are not restricted to ubiquinone-synthesizing species. This family represents a distinct clade within the flavoprotein family of Pfam model pfam02441.
Probab=24.87 E-value=1.1e+02 Score=26.36 Aligned_cols=32 Identities=13% Similarity=0.096 Sum_probs=24.9
Q ss_pred eEEEeecCChhHHHHHHHHHHHhcCCCCeEEEE
Q 024855 112 IIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLI 144 (261)
Q Consensus 112 kILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LL 144 (261)
||+|++-||-.+.++++..-.+. +.|.+++++
T Consensus 1 ~illgvtGsiaa~ka~~lir~L~-~~g~~V~vv 32 (181)
T TIGR00421 1 RIVVAMTGASGVIYGIRLLEVLK-EAGVEVHLV 32 (181)
T ss_pred CEEEEEECHHHHHHHHHHHHHHH-HCCCEEEEE
Confidence 69999999999999999886664 457664443
No 175
>PRK05920 aromatic acid decarboxylase; Validated
Probab=24.67 E-value=1.6e+02 Score=25.84 Aligned_cols=35 Identities=9% Similarity=0.057 Sum_probs=26.9
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEE
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLI 144 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LL 144 (261)
..+||++++-||-.+.++++..-.+. +.|.+|+++
T Consensus 2 ~~krIllgITGsiaa~ka~~lvr~L~-~~g~~V~vi 36 (204)
T PRK05920 2 KMKRIVLAITGASGAIYGVRLLECLL-AADYEVHLV 36 (204)
T ss_pred CCCEEEEEEeCHHHHHHHHHHHHHHH-HCCCEEEEE
Confidence 35799999999999999998876664 457665444
No 176
>PF03808 Glyco_tran_WecB: Glycosyl transferase WecB/TagA/CpsF family; InterPro: IPR004629 The WecG member of this superfamily, believed to be UDP-N-acetyl-D-mannosaminuronic acid transferase, plays a role in Enterobacterial common antigen (eca) synthesis in Escherichia coli. Another family member, the Bacillus subtilis TagA protein, is involved in the biosynthesis of the cell wall polymer poly(glycerol phosphate). The third family member, CpsF, CMP-N-acetylneuraminic acid synthetase has a role in the capsular polysaccharide biosynthesis pathway.; GO: 0009058 biosynthetic process
Probab=24.51 E-value=2e+02 Score=24.11 Aligned_cols=22 Identities=23% Similarity=0.221 Sum_probs=19.6
Q ss_pred hHHHHHHhhhhCCCcEEEECCC
Q 024855 209 VAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 209 ~aeaIv~~A~e~~aDLIVmGsr 230 (261)
-.+.|++.+++.++|+|++|--
T Consensus 89 ~~~~i~~~I~~~~pdiv~vglG 110 (172)
T PF03808_consen 89 EEEAIINRINASGPDIVFVGLG 110 (172)
T ss_pred hHHHHHHHHHHcCCCEEEEECC
Confidence 3689999999999999999876
No 177
>cd02072 Glm_B12_BD B12 binding domain of glutamate mutase (Glm). Glutamate mutase catalysis the conversion of (S)-glutamate with (2S,3S)-3-methylaspartate. The rearrangement reaction is initiated by the extraction of a hydrogen from the protein-bound substrate by a 5'-desoxyadenosyl radical, which is generated by the homolytic cleavage of the organometallic bond of the cofactor B12. Glm is a heterotetrameric molecule consisting of two alpha and two epsilon polypeptide chains.
Probab=24.49 E-value=1.3e+02 Score=24.61 Aligned_cols=45 Identities=9% Similarity=0.085 Sum_probs=31.0
Q ss_pred HHHHHHHHHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 181 RRQLLQKFLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 181 ~~~~Lek~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
+++++.-. ++..|+++... --+-+.+.+++.|.++++|+|.|.+-
T Consensus 15 Gkniv~~~---L~~~GfeVidL--G~~v~~e~~v~aa~~~~adiVglS~L 59 (128)
T cd02072 15 GNKILDHA---FTEAGFNVVNL--GVLSPQEEFIDAAIETDADAILVSSL 59 (128)
T ss_pred HHHHHHHH---HHHCCCEEEEC--CCCCCHHHHHHHHHHcCCCEEEEecc
Confidence 34445443 45568876533 11344699999999999999999776
No 178
>PRK08384 thiamine biosynthesis protein ThiI; Provisional
Probab=24.44 E-value=6.5e+02 Score=24.29 Aligned_cols=35 Identities=9% Similarity=0.124 Sum_probs=27.5
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
...+|||++.|...|--|+-.. .+.|.+|..||+.
T Consensus 179 s~gkvlvllSGGiDSpVAa~ll----~krG~~V~~v~f~ 213 (381)
T PRK08384 179 TQGKVVALLSGGIDSPVAAFLM----MKRGVEVIPVHIY 213 (381)
T ss_pred CCCcEEEEEeCChHHHHHHHHH----HHcCCeEEEEEEE
Confidence 4689999999998888666333 3359999999995
No 179
>COG2262 HflX GTPases [General function prediction only]
Probab=24.31 E-value=2.1e+02 Score=28.07 Aligned_cols=46 Identities=9% Similarity=0.070 Sum_probs=32.2
Q ss_pred HHHHHHHhhcCCCcEEEEEE-----------EcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 185 LQKFLDTCSQSKVMVDTVLI-----------ESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 185 Lek~~~~~~~~gV~ve~~vi-----------eGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
++++...++..|+++...+. -|....+.|.+.++..++|+||....
T Consensus 22 leEl~~La~tag~~v~~~~~q~r~~pdp~~~iG~GK~eEi~~~v~~~~ad~VIf~~~ 78 (411)
T COG2262 22 LEELAELAETAGYEVVEVVTQKRERPDPKTYIGSGKLEEIAEAVEETGADLVIFDHE 78 (411)
T ss_pred HHHHHHHHHHcCCeEeeeEEEeccCCCcceecCcchHHHHHHHHHhcCCCEEEECCc
Confidence 44455555666665433222 25445799999999999999999988
No 180
>TIGR01859 fruc_bis_ald_ fructose-1,6-bisphosphate aldolase, class II, various bacterial and amitochondriate protist. This model represents of one of several subtypes of the class II fructose-1,6-bisphosphate aldolase, an enzyme of glycolysis. The subtypes are split into several models to allow separation of a family of tagatose bisphosphate aldolases. This form is found in Gram-positive bacteria, a variety of Gram-negative, and in amitochondriate protists. The class II enzymes share homology with tagatose bisphosphate aldolase but not with class I aldolase.
Probab=24.24 E-value=3.2e+02 Score=25.10 Aligned_cols=78 Identities=14% Similarity=0.033 Sum_probs=0.0
Q ss_pred HHHHHHHHHHHHHhhcCCCcEEEEEEEcC----------------ChHHHHHHhhhhCCCcEEE--ECCCCCCccccccc
Q 024855 179 GKRRQLLQKFLDTCSQSKVMVDTVLIESD----------------LVAKAILDLIPVLNIRKLV--VGTTKSSLRFHFHS 240 (261)
Q Consensus 179 e~~~~~Lek~~~~~~~~gV~ve~~vieGd----------------~~aeaIv~~A~e~~aDLIV--mGsr~sgl~~~~r~ 240 (261)
++..+...++.+.|...|+.++..+ |. .+ +...+++++.++|.|. +|+-..-..+ ..
T Consensus 111 ~eni~~t~~v~~~a~~~gv~Ve~El--G~~gg~ed~~~g~~~~~t~~-eea~~f~~~tgvD~Lavs~Gt~hg~~~~--~~ 185 (282)
T TIGR01859 111 EENLALTKKVVEIAHAKGVSVEAEL--GTLGGIEDGVDEKEAELADP-DEAEQFVKETGVDYLAAAIGTSHGKYKG--EP 185 (282)
T ss_pred HHHHHHHHHHHHHHHHcCCEEEEee--CCCcCccccccccccccCCH-HHHHHHHHHHCcCEEeeccCccccccCC--CC
Q ss_pred ceeccHHHHHhccCCcceeeC
Q 024855 241 INFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 241 l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
.+.=..-.++.+..++|++++
T Consensus 186 ~l~~e~L~~i~~~~~iPlv~h 206 (282)
T TIGR01859 186 GLDFERLKEIKELTNIPLVLH 206 (282)
T ss_pred ccCHHHHHHHHHHhCCCEEEE
No 181
>TIGR00177 molyb_syn molybdenum cofactor synthesis domain. The Drosophila protein cinnamon, the Arabidopsis protein cnx1, and rat protein gephyrin each have one domain like MoeA and one like MoaB and Mog. These domains are, however, distantly related to each other, as captured by this model. Gephyrin is unusual in that it seems to be a tubulin-binding neuroprotein involved in the clustering of both blycine receptors and GABA receptors, rather than a protein of molybdenum cofactor biosynthesis.
Probab=23.96 E-value=1.6e+02 Score=23.86 Aligned_cols=37 Identities=11% Similarity=0.091 Sum_probs=23.9
Q ss_pred hhcCCCcEEEEEEEcCChHHHHHHhhhhC--CCcEEEECC
Q 024855 192 CSQSKVMVDTVLIESDLVAKAILDLIPVL--NIRKLVVGT 229 (261)
Q Consensus 192 ~~~~gV~ve~~vieGd~~aeaIv~~A~e~--~aDLIVmGs 229 (261)
+++.|+++....+..|+ .+.|.+..++. ++|+||+--
T Consensus 36 l~~~G~~v~~~~~v~Dd-~~~i~~~l~~~~~~~DliIttG 74 (144)
T TIGR00177 36 LEEAGFNVSRLGIVPDD-PEEIREILRKAVDEADVVLTTG 74 (144)
T ss_pred HHHCCCeEEEEeecCCC-HHHHHHHHHHHHhCCCEEEECC
Confidence 34457777766666777 36666655432 789998853
No 182
>cd06296 PBP1_CatR_like Ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group includes the ligand-binding domain of a LacI-like transcriptional regulator, CatR which is involved in catechol degradation. This group belongs to the the LacI-GalR family repressors that are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the sugar-binding domain of ABC-type transport systems that contain the type I periplasmic binding protein-like fold. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=23.96 E-value=3.1e+02 Score=23.37 Aligned_cols=19 Identities=5% Similarity=0.102 Sum_probs=11.1
Q ss_pred HHHHhhhhCCCcEEEECCC
Q 024855 212 AILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 212 aIv~~A~e~~aDLIVmGsr 230 (261)
..++...+.++|.||+...
T Consensus 46 ~~i~~l~~~~~dgiii~~~ 64 (270)
T cd06296 46 QWVERLSARRTDGVILVTP 64 (270)
T ss_pred HHHHHHHHcCCCEEEEecC
Confidence 3444455567887766543
No 183
>cd05564 PTS_IIB_chitobiose_lichenan PTS_IIB_chitobiose_lichenan: subunit IIB of enzyme II (EII) of the N,N-diacetylchitobiose-specific and lichenan-specific phosphoenolpyruvate:carbohydrate phosphotransferase system (PTS). In these systems, EII is either a lichenan- or an N,N-diacetylchitobiose-specific permease with two cytoplasmic domains (IIA and IIB) and a transmembrane channel IIC domain. In the chitobiose system, these subunits are expressed as separate proteins from chbA, chbB, and chbC of the chb operon (formerly the cel (cellulose) operon). In the lichenan system, these subunits are expressed from licA, licB, and licC of the lic operon. The lic operon of Bacillus subtilis is required for the transport and degradation of oligomeric beta-glucosides, which are produced by extracellular enzymes on substrates such as lichenan or barley glucan. The lic operon is transcribed from a gammaA-dependent promoter and is inducible by lichenan, lichenan hydrolysate, and cellobiose. The IIB d
Probab=23.93 E-value=2.2e+02 Score=21.59 Aligned_cols=44 Identities=9% Similarity=0.179 Sum_probs=26.4
Q ss_pred HHHHHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC-CCCc
Q 024855 185 LQKFLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT-KSSL 234 (261)
Q Consensus 185 Lek~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr-~sgl 234 (261)
+++..+.+++.|++++.. .-+. ..+-++.. ++|+|+++-+ +.-+
T Consensus 16 ~~ki~~~~~~~~~~~~v~---~~~~-~~~~~~~~--~~Diil~~Pqv~~~~ 60 (96)
T cd05564 16 VKKMKKAAEKRGIDAEIE---AVPE-SELEEYID--DADVVLLGPQVRYML 60 (96)
T ss_pred HHHHHHHHHHCCCceEEE---EecH-HHHHHhcC--CCCEEEEChhHHHHH
Confidence 344555667778876533 2333 34444443 6899999988 5533
No 184
>cd06319 PBP1_ABC_sugar_binding_like_10 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily, which consists of two domains connected by a three-stranded hinge. The substrate specificity of this group is not known, but it is predicted to be involved in the transport of sugar-containing molecules and chemotaxis.
Probab=23.92 E-value=2.7e+02 Score=23.80 Aligned_cols=14 Identities=7% Similarity=0.140 Sum_probs=9.3
Q ss_pred hhhCCCcEEEECCC
Q 024855 217 IPVLNIRKLVVGTT 230 (261)
Q Consensus 217 A~e~~aDLIVmGsr 230 (261)
....++|-||++..
T Consensus 51 ~~~~~~dgiii~~~ 64 (277)
T cd06319 51 AIDKGVSGIIISPT 64 (277)
T ss_pred HHhcCCCEEEEcCC
Confidence 33467888877654
No 185
>cd01541 PBP1_AraR Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for arabinose (AraR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of AraR is structurally homologous to the periplasmic sugar-binding domain of ABC-type transporters and both domains contain the type I periplasmic binding protein-like fold. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to the type I periplasmic binding proteins. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which i
Probab=23.73 E-value=3.4e+02 Score=23.23 Aligned_cols=44 Identities=14% Similarity=0.079 Sum_probs=23.1
Q ss_pred HHHHHhhcCCCcEEEEEEEcCC-hHHHHHHhhhhCCCcEEEECCC
Q 024855 187 KFLDTCSQSKVMVDTVLIESDL-VAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 187 k~~~~~~~~gV~ve~~vieGd~-~aeaIv~~A~e~~aDLIVmGsr 230 (261)
.+.+.+++.|+.+.......+. .....++.....++|.||+...
T Consensus 20 gi~~~~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgii~~~~ 64 (273)
T cd01541 20 GIESVLSEKGYSLLLASTNNDPERERKCLENMLSQGIDGLIIEPT 64 (273)
T ss_pred HHHHHHHHcCCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEecc
Confidence 3344456667766433222221 1234455556678888887543
No 186
>PRK11070 ssDNA exonuclease RecJ; Provisional
Probab=23.55 E-value=6.2e+02 Score=25.87 Aligned_cols=35 Identities=14% Similarity=-0.022 Sum_probs=25.3
Q ss_pred CCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCC
Q 024855 196 KVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTK 231 (261)
Q Consensus 196 gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~ 231 (261)
+.+.-..+--|.. +-.-+++|++.++|+||+.+|.
T Consensus 127 ~~~LiItvD~Gi~-~~e~i~~a~~~gidvIVtDHH~ 161 (575)
T PRK11070 127 GAQLIVTVDNGIS-SHAGVAHAHALGIPVLVTDHHL 161 (575)
T ss_pred CCCEEEEEcCCcC-CHHHHHHHHHCCCCEEEECCCC
Confidence 4444333334544 6778899999999999999993
No 187
>COG1139 Uncharacterized conserved protein containing a ferredoxin-like domain [Energy production and conversion]
Probab=23.54 E-value=2.2e+02 Score=28.30 Aligned_cols=55 Identities=11% Similarity=0.099 Sum_probs=37.4
Q ss_pred HHHHHHHHHHHHHHHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 175 AQETGKRRQLLQKFLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 175 ~~~~e~~~~~Lek~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
...-+.+...++++.+.+++.|.++-.. ...++..+-|-+.+++++.+.||++-.
T Consensus 57 ~~~lenLd~~l~~~~~~v~~~Gg~vy~A-~~aedA~~ii~~iv~~k~~k~vVKsKS 111 (459)
T COG1139 57 LHVLENLDEYLEQLEENVTRNGGHVYFA-KDAEDAREIIGEIVGEKNGKKVVKSKS 111 (459)
T ss_pred HHHHHhHHHHHHHHHHHHHHcCCEEEEe-CCHHHHHHHHHHHHhhccCcEEEEecc
Confidence 3333455666777777777788776432 223444566668999999999999877
No 188
>PRK01269 tRNA s(4)U8 sulfurtransferase; Provisional
Probab=23.45 E-value=7.2e+02 Score=24.51 Aligned_cols=35 Identities=9% Similarity=-0.006 Sum_probs=28.1
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
...++||.+.|...|--|+-|+.+ .|.+++.||+.
T Consensus 176 ~~gk~lvllSGGiDS~va~~~~~k----rG~~v~~l~f~ 210 (482)
T PRK01269 176 TQEDVLSLISGGFDSGVASYMLMR----RGSRVHYCFFN 210 (482)
T ss_pred ccCeEEEEEcCCchHHHHHHHHHH----cCCEEEEEEEe
Confidence 456999999999989888766543 47899999985
No 189
>PHA02031 putative DnaG-like primase
Probab=23.38 E-value=1.3e+02 Score=27.79 Aligned_cols=37 Identities=8% Similarity=-0.038 Sum_probs=30.6
Q ss_pred CCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEE
Q 024855 110 EDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHV 146 (261)
Q Consensus 110 ~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHV 146 (261)
-++|++..|++....+|...|++++...+-.+.++.+
T Consensus 206 ~~~Vil~fDgD~AG~~Aa~ra~~~l~~~~~~v~vv~l 242 (266)
T PHA02031 206 CPRVLIFLDGDPAGVDGSAGAMRRLRPLLIEGQVIIT 242 (266)
T ss_pred CCCEEEEeCCCHHHHHHHHHHHHHHHHcCCceEEEEC
Confidence 3899999999999999999999998766666665553
No 190
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=23.37 E-value=1.8e+02 Score=22.07 Aligned_cols=41 Identities=7% Similarity=0.221 Sum_probs=28.2
Q ss_pred hhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC-CCCc
Q 024855 192 CSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT-KSSL 234 (261)
Q Consensus 192 ~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr-~sgl 234 (261)
+++.|+++. ++......+.+.+.+.+.++|+|.+... ...+
T Consensus 24 l~~~G~~v~--~~d~~~~~~~l~~~~~~~~pd~V~iS~~~~~~~ 65 (121)
T PF02310_consen 24 LRKAGHEVD--ILDANVPPEELVEALRAERPDVVGISVSMTPNL 65 (121)
T ss_dssp HHHTTBEEE--EEESSB-HHHHHHHHHHTTCSEEEEEESSSTHH
T ss_pred HHHCCCeEE--EECCCCCHHHHHHHHhcCCCcEEEEEccCcCcH
Confidence 445577665 3333433599999999999999999885 4443
No 191
>COG0151 PurD Phosphoribosylamine-glycine ligase [Nucleotide transport and metabolism]
Probab=23.30 E-value=62 Score=31.83 Aligned_cols=21 Identities=24% Similarity=0.373 Sum_probs=19.7
Q ss_pred HHHHHHhhhhCCCcEEEECCC
Q 024855 210 AKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 210 aeaIv~~A~e~~aDLIVmGsr 230 (261)
.+.|+++|+++++||+|+|--
T Consensus 52 ~~~lv~fA~~~~idl~vVGPE 72 (428)
T COG0151 52 HEALVAFAKEKNVDLVVVGPE 72 (428)
T ss_pred HHHHHHHHHHcCCCEEEECCc
Confidence 499999999999999999986
No 192
>PRK13337 putative lipid kinase; Reviewed
Probab=23.29 E-value=2.2e+02 Score=25.88 Aligned_cols=38 Identities=5% Similarity=-0.094 Sum_probs=20.8
Q ss_pred HhhcCCCcEEEEEEEc-CChHHHHHHhhhhCCCcEEEECC
Q 024855 191 TCSQSKVMVDTVLIES-DLVAKAILDLIPVLNIRKLVVGT 229 (261)
Q Consensus 191 ~~~~~gV~ve~~vieG-d~~aeaIv~~A~e~~aDLIVmGs 229 (261)
.+.+.+++++....+. +. +..+++.+.+.+.|+||+.-
T Consensus 27 ~l~~~~~~~~~~~t~~~~~-a~~~a~~~~~~~~d~vvv~G 65 (304)
T PRK13337 27 KLEQAGYETSAHATTGPGD-ATLAAERAVERKFDLVIAAG 65 (304)
T ss_pred HHHHcCCEEEEEEecCCCC-HHHHHHHHHhcCCCEEEEEc
Confidence 3455566665544432 33 46666655555667666543
No 193
>PRK12738 kbaY tagatose-bisphosphate aldolase; Reviewed
Probab=23.22 E-value=1.4e+02 Score=27.64 Aligned_cols=73 Identities=16% Similarity=0.154 Sum_probs=44.9
Q ss_pred HHHHHHHHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCCCCcccccccceeccHHHHHhccCCcceee
Q 024855 182 RQLLQKFLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFSILLFC 260 (261)
Q Consensus 182 ~~~Lek~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~ 260 (261)
+++|+++ .+.+.-+=..=+.+....+++++.|++.+..+|+..+.+.- ++...-.+......+.+.+.+||.+
T Consensus 7 k~iL~~A----~~~~yAV~AfN~~n~e~~~avi~AAee~~sPvIlq~s~~~~--~~~~~~~~~~~~~~~a~~~~VPVal 79 (286)
T PRK12738 7 KYLLQDA----QANGYAVPAFNIHNAETIQAILEVCSEMRSPVILAGTPGTF--KHIALEEIYALCSAYSTTYNMPLAL 79 (286)
T ss_pred HHHHHHH----HHCCceEEEEEeCCHHHHHHHHHHHHHHCCCEEEEcCcchh--hhCCHHHHHHHHHHHHHHCCCCEEE
Confidence 3455544 33344333222334445799999999999999998766311 1001112356788889999999964
No 194
>PRK08883 ribulose-phosphate 3-epimerase; Provisional
Probab=23.17 E-value=2.4e+02 Score=24.84 Aligned_cols=44 Identities=14% Similarity=0.141 Sum_probs=25.5
Q ss_pred HHHHHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 185 LQKFLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 185 Lek~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
++++++...+.+..+...+ .|+--.+.|- .+.+.++|.+|+|+.
T Consensus 154 I~~l~~~~~~~~~~~~I~v-dGGI~~eni~-~l~~aGAd~vVvGSa 197 (220)
T PRK08883 154 LRAVRKMIDESGRDIRLEI-DGGVKVDNIR-EIAEAGADMFVAGSA 197 (220)
T ss_pred HHHHHHHHHhcCCCeeEEE-ECCCCHHHHH-HHHHcCCCEEEEeHH
Confidence 3344444444455554333 4553235554 555679999999977
No 195
>TIGR00147 lipid kinase, YegS/Rv2252/BmrU family. The E. coli member of this family, YegS has been purified and shown to have phosphatidylglycerol kinase activity. The member from M. tuberculosis, Rv2252, has diacylglycerol kinase activity. BmrU from B. subtilis is in an operon with multidrug efflux transporter Bmr, but is uncharacterized.
Probab=23.14 E-value=3.2e+02 Score=24.49 Aligned_cols=40 Identities=5% Similarity=0.072 Sum_probs=20.3
Q ss_pred HHHHhhcCCCcEEEEEEEcC-ChHHHHHHhhhhCCCcEEEEC
Q 024855 188 FLDTCSQSKVMVDTVLIESD-LVAKAILDLIPVLNIRKLVVG 228 (261)
Q Consensus 188 ~~~~~~~~gV~ve~~vieGd-~~aeaIv~~A~e~~aDLIVmG 228 (261)
+.+.+++.+++++....... . +..+++.+.+.++|+||+.
T Consensus 24 i~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~d~ivv~ 64 (293)
T TIGR00147 24 VIMLLREEGMEIHVRVTWEKGD-AARYVEEARKFGVDTVIAG 64 (293)
T ss_pred HHHHHHHCCCEEEEEEecCccc-HHHHHHHHHhcCCCEEEEE
Confidence 33345556666654443332 3 3444544444567776653
No 196
>PF13271 DUF4062: Domain of unknown function (DUF4062)
Probab=23.04 E-value=2.4e+02 Score=20.65 Aligned_cols=27 Identities=15% Similarity=0.139 Sum_probs=22.2
Q ss_pred EcCChHHHHHHhhhhCCCcEEEECCCC
Q 024855 205 ESDLVAKAILDLIPVLNIRKLVVGTTK 231 (261)
Q Consensus 205 eGd~~aeaIv~~A~e~~aDLIVmGsr~ 231 (261)
.+..+-+.+++.+++-++=++++|.|.
T Consensus 38 ~~~~~~~~cl~~v~~cDifI~ilG~rY 64 (83)
T PF13271_consen 38 SDQSPLEICLKEVDECDIFILILGNRY 64 (83)
T ss_pred CCCCHHHHHHHHHhhCCEEEEeecccc
Confidence 356667888899999888889999993
No 197
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=22.95 E-value=1.7e+02 Score=21.96 Aligned_cols=62 Identities=10% Similarity=-0.044 Sum_probs=34.6
Q ss_pred HHHHhhcCCCcEEEEEEEc-CCh-HHHHHHhhhhCCCcEEEECCC--CCCcccccccceeccHHHHHhccCCcceee
Q 024855 188 FLDTCSQSKVMVDTVLIES-DLV-AKAILDLIPVLNIRKLVVGTT--KSSLRFHFHSINFNGIGTLILFYFSILLFC 260 (261)
Q Consensus 188 ~~~~~~~~gV~ve~~vieG-d~~-aeaIv~~A~e~~aDLIVmGsr--~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~ 260 (261)
+.+.+++.|.+...+-..+ ... ...|-..++ ++|+||+=+. .++..+ .+.+..+...+|++.
T Consensus 15 ~~~~~~~~G~~~~~hg~~~~~~~~~~~l~~~i~--~aD~VIv~t~~vsH~~~~---------~vk~~akk~~ip~~~ 80 (97)
T PF10087_consen 15 YKRILEKYGGKLIHHGRDGGDEKKASRLPSKIK--KADLVIVFTDYVSHNAMW---------KVKKAAKKYGIPIIY 80 (97)
T ss_pred HHHHHHHcCCEEEEEecCCCCccchhHHHHhcC--CCCEEEEEeCCcChHHHH---------HHHHHHHHcCCcEEE
Confidence 3444555676654431112 221 123555665 5899998887 344433 456677777777764
No 198
>TIGR00127 nadp_idh_euk isocitrate dehydrogenase, NADP-dependent, eukaryotic type. This model does not discriminate cytosolic, mitochondrial, and chloroplast proteins. However, the model starts very near the amino end of the cytosolic form; the finding of additional amino-terminal sequence may indicate a transit peptide.
Probab=22.79 E-value=2.4e+02 Score=27.68 Aligned_cols=25 Identities=12% Similarity=0.068 Sum_probs=20.9
Q ss_pred hhHHHHHHHHHHHhcCCCCeEEEEE
Q 024855 121 QSSMDALSWTLRHAVNPSTLIFLIH 145 (261)
Q Consensus 121 e~S~~AL~~Al~~A~~~ga~L~LLH 145 (261)
+.+++.+++|.++|+.++.+|+++|
T Consensus 186 ~~~eRIar~AF~~A~~~~~~Vt~v~ 210 (409)
T TIGR00127 186 ESIEGFAHSSFQLALEKKWPLYLST 210 (409)
T ss_pred HHHHHHHHHHHHHHHHcCCCEEEEc
Confidence 5889999999999987766777777
No 199
>PRK01565 thiamine biosynthesis protein ThiI; Provisional
Probab=22.74 E-value=6.8e+02 Score=23.96 Aligned_cols=36 Identities=11% Similarity=0.003 Sum_probs=28.7
Q ss_pred CCCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 108 QEEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 108 ~~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
....+++|++.|.-.|--|+-++.+ .|.+++.+|..
T Consensus 174 g~~gkvvvllSGGiDS~vaa~l~~k----~G~~v~av~~~ 209 (394)
T PRK01565 174 GTSGKALLLLSGGIDSPVAGYLAMK----RGVEIEAVHFH 209 (394)
T ss_pred CCCCCEEEEECCChhHHHHHHHHHH----CCCEEEEEEEe
Confidence 3567999999999988888766544 47899999984
No 200
>PF03652 UPF0081: Uncharacterised protein family (UPF0081); InterPro: IPR005227 Holliday junction resolvases (HJRs) are key enzymes of DNA recombination. The principal HJRs are now known or confidently predicted for all bacteria and archaea whose genomes have been completely sequenced, with many species encoding multiple potential HJRs. Structural and evolutionary relationships of HJRs and related nucleases suggests that the HJR function has evolved independently from at least four distinct structural folds, namely RNase H, endonuclease, endonuclease VII-colicin E and RusA (IPR008822 from INTERPRO): The endonuclease fold, whose structural prototypes are the phage exonuclease, the very short patch repair nuclease (Vsr) and type II restriction enzymes, is shown to encompass by far a greater diversity of nucleases than previously suspected. This fold unifies archaeal HJRs (IPR002732 from INTERPRO), repair nucleases such as RecB (IPR004586 from INTERPRO) and Vsr (IPR004603 from INTERPRO), restriction enzymes and a variety of predicted nucleases whose specific activities remain to be determined. The RNase H fold characterises the RuvC family (IPR002176 from INTERPRO), which is nearly ubiquitous in bacteria, and in addition the YqgF family (IPR005227 from INTERPRO). The proteins of this family, typified by Escherichia coli YqgF, are likely to function as an alternative to RuvC in most bacteria, but could be the principal HJRs in low-GC Gram-positive bacteria and Aquifex. Endonuclease VII of phage T4 (IPR004211 from INTERPRO) is shown to serve as a structural template for many nucleases, including McrA and other type II restriction enzymes. Together with colicin E7, endonuclease VII defines a distinct metal-dependent nuclease fold. Horizontal gene transfer, lineage-specific gene loss and gene family expansion, and non-orthologous gene displacement seem to have been major forces in the evolution of HJRs and related nucleases. A remarkable case of displacement is seen in the Lyme disease spirochete Borrelia burgdorferi, which does not possess any of the typical HJRs, but instead encodes, in its chromosome and each of the linear plasmids, members of the exonuclease family predicted to function as HJRs. The diversity of HJRs and related nucleases in bacteria and archaea contrasts with their near absence in eukaryotes. The few detected eukaryotic representatives of the endonuclease fold and the RNase H fold have probably been acquired from bacteria via horizontal gene transfer. The identity of the principal HJR(s) involved in recombination in eukaryotes remains uncertain; this function could be performed by topoisomerase IB or by a novel, so far undetected, class of enzymes. Likely HJRs and related nucleases were identified in the genomes of numerous bacterial and eukaryotic DNA viruses. Gene flow between viral and cellular genomes has probably played a major role in the evolution of this class of enzymes. This family represents the YqgF family of putative Holliday junction resolvases. With the exception of the spirochetes, the YqgF family is represented in all bacterial lineages, including the mycoplasmas with their highly degenerate genomes. The RuvC resolvases are conspicuously absent in the low-GC Gram-positive bacterial lineage, with the exception of Ureaplasma parvum (Ureaplasma urealyticum biotype 1) (Q9PQY7 from SWISSPROT, []). Furthermore, loss of function ruvC mutants of E. coli show a residual HJR activity that cannot be ascribed to the prophage-encoded RusA resolvase []. This suggests that the YqgF family proteins could be alternative HJRs whose function partially overlaps with that of RuvC [].; GO: 0016788 hydrolase activity, acting on ester bonds, 0006281 DNA repair, 0006310 DNA recombination, 0006974 response to DNA damage stimulus, 0005737 cytoplasm; PDB: 1NU0_A 1OVQ_A 1NMN_B 1VHX_B 1IV0_A.
Probab=22.69 E-value=59 Score=26.57 Aligned_cols=52 Identities=15% Similarity=0.117 Sum_probs=32.8
Q ss_pred ChHHHHHHhhhhCCCcEEEECCC-C-CCcccccccceeccHHHHHhccC-Ccceee
Q 024855 208 LVAKAILDLIPVLNIRKLVVGTT-K-SSLRFHFHSINFNGIGTLILFYF-SILLFC 260 (261)
Q Consensus 208 ~~aeaIv~~A~e~~aDLIVmGsr-~-sgl~~~~r~l~lGSVA~~Vlr~A-~ipv~~ 260 (261)
...+.|.+++++++++.||+|-- . .|-.. ......-.-++++-+.. .+||..
T Consensus 38 ~~~~~l~~li~~~~i~~iVvGlP~~~~G~~~-~~~~~v~~f~~~L~~~~~~ipV~~ 92 (135)
T PF03652_consen 38 KDIEELKKLIEEYQIDGIVVGLPLNMDGSES-EQARRVRKFAEELKKRFPGIPVIL 92 (135)
T ss_dssp CCHHHHHHHHHHCCECEEEEEEEBBCTSSC--CCHHHHHHHHHHHHHHH-TSEEEE
T ss_pred hHHHHHHHHHHHhCCCEEEEeCCcccCCCcc-HHHHHHHHHHHHHHHhcCCCcEEE
Confidence 45799999999999999999987 2 22211 00011123445555565 788764
No 201
>TIGR02634 xylF D-xylose ABC transporter, substrate-binding protein. Members of this family are periplasmic (when in Gram-negative bacteria) binding proteins for D-xylose import by a high-affinity ATP-binding cassette (ABC) transporter.
Probab=22.48 E-value=2.8e+02 Score=24.76 Aligned_cols=19 Identities=11% Similarity=0.132 Sum_probs=11.0
Q ss_pred HHHHhhhhCCCcEEEECCC
Q 024855 212 AILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 212 aIv~~A~e~~aDLIVmGsr 230 (261)
.+++.....++|-||+...
T Consensus 45 ~~i~~l~~~~vDgIIi~~~ 63 (302)
T TIGR02634 45 SQIENLIARGVDVLVIIPQ 63 (302)
T ss_pred HHHHHHHHcCCCEEEEeCC
Confidence 4455555566776666543
No 202
>cd08170 GlyDH Glycerol dehydrogenases (GlyDH) catalyzes oxidation of glycerol to dihydroxyacetone in glycerol dissmilation. Glycerol dehydrogenases (GlyDH) is a key enzyme in the glycerol dissimilation pathway . In anaerobic conditions, many microorganisms utilize glycerol as a source of carbon through coupled oxidative and reductive pathways. One of the pathways involves the oxidation of glycerol to dihydroxyacetone with the reduction of NAD+ to NADH catalyzed by glycerol dehydrogenases. Dihydroxyacetone is then phosphorylated by dihydroxyacetone kinase and enters the glycolytic pathway for further degradation. The activity of GlyDH is zinc-dependent. The zinc ion plays a role in stabilizing an alkoxide intermediate at the active site.
Probab=22.27 E-value=1.8e+02 Score=27.17 Aligned_cols=36 Identities=0% Similarity=0.024 Sum_probs=16.2
Q ss_pred HhhcCCCcEEEEEEEcCChH---HHHHHhhhhCCCcEEE
Q 024855 191 TCSQSKVMVDTVLIESDLVA---KAILDLIPVLNIRKLV 226 (261)
Q Consensus 191 ~~~~~gV~ve~~vieGd~~a---eaIv~~A~e~~aDLIV 226 (261)
.+++.++.+....+.+++.. +.+++.+++.++|+||
T Consensus 44 ~L~~~~i~~~~~~~~~~p~~~~v~~~~~~~~~~~~D~II 82 (351)
T cd08170 44 SLAAAGIDARFEVFGGECTRAEIERLAEIARDNGADVVI 82 (351)
T ss_pred HHHhCCCeEEEEEeCCcCCHHHHHHHHHHHhhcCCCEEE
Confidence 34444554433233333322 2444455566666554
No 203
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=22.26 E-value=2.9e+02 Score=23.63 Aligned_cols=18 Identities=6% Similarity=0.102 Sum_probs=11.2
Q ss_pred HHHhhhhCCCcEEEECCC
Q 024855 213 ILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 213 Iv~~A~e~~aDLIVmGsr 230 (261)
+++...+.++|-||+...
T Consensus 48 ~i~~l~~~~vdgiii~~~ 65 (272)
T cd06301 48 QVENFIAQGVDAIIVVPV 65 (272)
T ss_pred HHHHHHHcCCCEEEEecC
Confidence 344445667888877654
No 204
>PRK08305 spoVFB dipicolinate synthase subunit B; Reviewed
Probab=22.22 E-value=1.7e+02 Score=25.58 Aligned_cols=35 Identities=14% Similarity=0.102 Sum_probs=26.5
Q ss_pred CCCeEEEeecCChhHHH-HHHHHHHHhcCCCCeEEEE
Q 024855 109 EEDIIYVAVGKSQSSMD-ALSWTLRHAVNPSTLIFLI 144 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~-AL~~Al~~A~~~ga~L~LL 144 (261)
..+||++++-||-.+.+ +++.+-.+ .+.|.+|+++
T Consensus 4 ~~k~IllgVTGsiaa~k~a~~lir~L-~k~G~~V~vv 39 (196)
T PRK08305 4 KGKRIGFGLTGSHCTYDEVMPEIEKL-VDEGAEVTPI 39 (196)
T ss_pred CCCEEEEEEcCHHHHHHHHHHHHHHH-HhCcCEEEEE
Confidence 35799999999999999 58887555 4557765544
No 205
>cd05008 SIS_GlmS_GlmD_1 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal glutaminase domain and two C-terminal SIS domains and catalyzes the first step in hexosamine metabolism, converting fructose 6-phosphate into glucosamine 6-phosphate using glutamine as nitrogen source. The glutaminase domain hydrolyzes glutamine to glutamate and ammonia. Ammonia is transferred through a channel to the isomerase domain for glucosamine 6-phosphate synthesis. The end product of the pathway is N-acetylglucosamine, which plays multiple roles in eukaryotic cells including being a building block of bacterial and fungal cell walls. In the absence of glutamine, GlmS catalyzes the isomerization of fructose 6-phosphate into glucose 6- phosphate (PGI-like activity). Glucosamine-6-phosphate deaminase (GlmD) cont
Probab=21.86 E-value=1.4e+02 Score=22.93 Aligned_cols=39 Identities=23% Similarity=0.267 Sum_probs=30.4
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEec
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFP 148 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~ 148 (261)
..+.+++.+..|..+...++.+ +.|+..|++++.+--.+
T Consensus 45 ~~~d~~I~iS~sG~t~e~~~~~-~~a~~~g~~vi~iT~~~ 83 (126)
T cd05008 45 DEDTLVIAISQSGETADTLAAL-RLAKEKGAKTVAITNVV 83 (126)
T ss_pred CCCcEEEEEeCCcCCHHHHHHH-HHHHHcCCeEEEEECCC
Confidence 5678999999998888877665 67787888887777543
No 206
>cd00311 TIM Triosephosphate isomerase (TIM) is a glycolytic enzyme that catalyzes the interconversion of dihydroxyacetone phosphate and D-glyceraldehyde-3-phosphate. The reaction is very efficient and requires neither cofactors nor metal ions. TIM, usually homodimeric, but in some organisms tetrameric, is ubiqitous and conserved in function across eukaryotes, bacteria and archaea.
Probab=21.85 E-value=92 Score=28.07 Aligned_cols=55 Identities=5% Similarity=0.034 Sum_probs=35.9
Q ss_pred cCChHHHHHHhhhhCCCcEEEECCC-CCCcccccccceeccHHHHHhccCCcceeeC
Q 024855 206 SDLVAKAILDLIPVLNIRKLVVGTT-KSSLRFHFHSINFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 206 Gd~~aeaIv~~A~e~~aDLIVmGsr-~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
|.-.++.-.+..++.+++.+++|+. |+..+. -..-.+.......+++-=+|+||+
T Consensus 69 Ga~TGevS~~mL~d~G~~~viiGHSERR~~f~-Et~~~i~~Kv~~a~~~gl~pIvCi 124 (242)
T cd00311 69 GAFTGEISAEMLKDAGAKYVIIGHSERRQYFG-ETDEDVAKKVKAALEAGLTPILCV 124 (242)
T ss_pred CCCcCcCCHHHHHHcCCCEEEeCcccccCcCC-CCcHHHHHHHHHHHHCCCEEEEEe
Confidence 4334666778888999999999999 654432 001122334445666667899996
No 207
>PRK08185 hypothetical protein; Provisional
Probab=21.74 E-value=1.3e+02 Score=27.81 Aligned_cols=51 Identities=6% Similarity=-0.069 Sum_probs=37.1
Q ss_pred cCChHHHHHHhhhhCCCcEEEECCCCC-CcccccccceeccHHHHHhccCCcceee
Q 024855 206 SDLVAKAILDLIPVLNIRKLVVGTTKS-SLRFHFHSINFNGIGTLILFYFSILLFC 260 (261)
Q Consensus 206 Gd~~aeaIv~~A~e~~aDLIVmGsr~s-gl~~~~r~l~lGSVA~~Vlr~A~ipv~~ 260 (261)
......++++.|++.+.-+|+..+.+. .... .. +......+.+.+.+||.+
T Consensus 22 n~e~~~avi~AAee~~sPvIl~~~~~~~~~~~---~~-~~~~~~~~a~~~~vPV~l 73 (283)
T PRK08185 22 DSCFLRAVVEEAEANNAPAIIAIHPNELDFLG---DN-FFAYVRERAKRSPVPFVI 73 (283)
T ss_pred CHHHHHHHHHHHHHhCCCEEEEeCcchhhhcc---HH-HHHHHHHHHHHCCCCEEE
Confidence 444579999999999999999988832 1111 12 456777888899999864
No 208
>cd01539 PBP1_GGBP Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. Periplasmic glucose/galactose-binding protein (GGBP) involved in chemotaxis towards, and active transport of, glucose and galactose in various bacterial species. GGBP is a member of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic GGBP is homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR.
Probab=21.65 E-value=2.5e+02 Score=25.01 Aligned_cols=41 Identities=12% Similarity=-0.002 Sum_probs=22.3
Q ss_pred HHHHhhhhCCCcEEEECCCCCCcccccccceeccHHHHHhccCCcceeeC
Q 024855 212 AILDLIPVLNIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 212 aIv~~A~e~~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
.+++.+..+++|-||+......... ... +-++...|||+++
T Consensus 48 ~~i~~l~~~~vdgiii~~~~~~~~~--------~~~-~~~~~~giPvV~~ 88 (303)
T cd01539 48 EQIDTALAKGVDLLAVNLVDPTAAQ--------TVI-NKAKQKNIPVIFF 88 (303)
T ss_pred HHHHHHHHcCCCEEEEecCchhhHH--------HHH-HHHHHCCCCEEEe
Confidence 4555566778998887643221111 111 2345667787764
No 209
>COG0492 TrxB Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]
Probab=21.64 E-value=1.4e+02 Score=27.85 Aligned_cols=23 Identities=17% Similarity=0.049 Sum_probs=17.3
Q ss_pred HHHHHHHHHHhcCCCCeEEEEEEe
Q 024855 124 MDALSWTLRHAVNPSTLIFLIHVF 147 (261)
Q Consensus 124 ~~AL~~Al~~A~~~ga~L~LLHVv 147 (261)
..|++||+.++. ...+++++|=-
T Consensus 153 ~sAve~Al~L~~-~a~~Vtlv~r~ 175 (305)
T COG0492 153 DSAVEEALYLSK-IAKKVTLVHRR 175 (305)
T ss_pred HHHHHHHHHHHH-hcCeEEEEecC
Confidence 348889988775 56679999954
No 210
>cd06274 PBP1_FruR Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs. Ligand binding domain of DNA transcription repressor specific for fructose (FruR) and its close homologs, all of which are a member of the LacI-GalR family of bacterial transcription regulators. The LacI-GalR family repressors are composed of two functional domains: an N-terminal HTH (helix-turn-helix) domain, which is responsible for the DNA-binding specificity, and a C-terminal ligand-binding domain, which is homologous to members of the type I periplasmic binding protein superfamily. As also observed in the periplasmic binding proteins, the C-terminal domain of the bacterial transcription repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor
Probab=21.59 E-value=4.5e+02 Score=22.31 Aligned_cols=39 Identities=8% Similarity=0.140 Sum_probs=21.0
Q ss_pred hhcCCCcEEEEEEEcCC-hHHHHHHhhhhCCCcEEEECCC
Q 024855 192 CSQSKVMVDTVLIESDL-VAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 192 ~~~~gV~ve~~vieGd~-~aeaIv~~A~e~~aDLIVmGsr 230 (261)
+++.|..+......+++ ....+++.....++|-||+-..
T Consensus 25 ~~~~g~~~~~~~~~~~~~~~~~~i~~l~~~~vdgiii~~~ 64 (264)
T cd06274 25 ARERGYQLLIACSDDDPETERETVETLIARQVDALIVAGS 64 (264)
T ss_pred HHHCCCEEEEEeCCCCHHHHHHHHHHHHHcCCCEEEEcCC
Confidence 44556665433222222 1234566666778887777554
No 211
>COG2021 MET2 Homoserine acetyltransferase [Amino acid transport and metabolism]
Probab=21.39 E-value=81 Score=30.45 Aligned_cols=51 Identities=22% Similarity=0.402 Sum_probs=35.5
Q ss_pred CCCCCCccccccccccceeeecccCCCCCCCCCeEEEeecCChhHHHHHHHHHHHhc
Q 024855 79 NGMPMPLAPIKEEIESSFFSFDVANGNGTQEEDIIYVAVGKSQSSMDALSWTLRHAV 135 (261)
Q Consensus 79 ~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~kkILVaVDgSe~S~~AL~~Al~~A~ 135 (261)
+|.+.|+.||+....--.. + ++ +. ..+++..-|.+|-..++||+||+..-.
T Consensus 120 yg~~FP~~ti~D~V~aq~~-l-l~-~L---GI~~l~avvGgSmGGMqaleWa~~yPd 170 (368)
T COG2021 120 YGSDFPVITIRDMVRAQRL-L-LD-AL---GIKKLAAVVGGSMGGMQALEWAIRYPD 170 (368)
T ss_pred cccCCCcccHHHHHHHHHH-H-HH-hc---CcceEeeeeccChHHHHHHHHHHhChH
Confidence 4557899999877441100 0 00 01 567999999999999999999986554
No 212
>cd06301 PBP1_rhizopine_binding_like Periplasmic binding proteins specific to rhizopines. Periplasmic binding proteins specific to rhizopines, which are simple sugar-like compounds produced in the nodules induced by the symbiotic root nodule bacteria, such as Rhizobium and Sinorhizobium. Rhizopine-binding-like proteins from other bacteria are also included. Two inositol based rhizopine compounds are known to date: L-3-O-methly-scyllo-inosamine (3-O-MSI) and scyllo-inosamine. Bacterial strains that can metabolize rhizopine have a greater competitive advantage in nodulation and rhizopine synthesis is regulated by NifA/NtrA regulatory transcription activators which are maximally expressed at the onset of nitrogen fixation in bacteroids. The members of this group belong to the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily.
Probab=21.38 E-value=5.1e+02 Score=22.02 Aligned_cols=34 Identities=18% Similarity=0.186 Sum_probs=25.9
Q ss_pred cEEEEEEEcCChHHHHHHhhhhCCC---cEEEECCCC
Q 024855 198 MVDTVLIESDLVAKAILDLIPVLNI---RKLVVGTTK 231 (261)
Q Consensus 198 ~ve~~vieGd~~aeaIv~~A~e~~a---DLIVmGsr~ 231 (261)
+++.++..++..+..+++++++.+. |+-|+|--.
T Consensus 183 ~~~ai~~~~d~~a~~~~~~l~~~g~~~~di~ivg~d~ 219 (272)
T cd06301 183 KIDAVVANNDEMALGAIMALKAAGKSDKDVPVAGIDG 219 (272)
T ss_pred CCCEEEECCCchHHHHHHHHHHcCCCCCCcEEEeeCC
Confidence 3455667777778889999988887 788888764
No 213
>COG2069 CdhD CO dehydrogenase/acetyl-CoA synthase delta subunit (corrinoid Fe-S protein) [Energy production and conversion]
Probab=21.37 E-value=5.7e+02 Score=24.42 Aligned_cols=27 Identities=15% Similarity=0.209 Sum_probs=22.1
Q ss_pred HHHHHHHHHHhcCCCCeEEEEEEecCC
Q 024855 124 MDALSWTLRHAVNPSTLIFLIHVFPQV 150 (261)
Q Consensus 124 ~~AL~~Al~~A~~~ga~L~LLHVv~~~ 150 (261)
..-.+||-+..+++|+.++-+|.+...
T Consensus 150 edP~eWArk~Vk~fgadmvTiHlIsTd 176 (403)
T COG2069 150 EDPGEWARKCVKKFGADMVTIHLISTD 176 (403)
T ss_pred hCHHHHHHHHHHHhCCceEEEEeecCC
Confidence 344579999999999999999998654
No 214
>PRK06850 hypothetical protein; Provisional
Probab=21.12 E-value=8.5e+02 Score=24.58 Aligned_cols=24 Identities=8% Similarity=0.015 Sum_probs=19.6
Q ss_pred CeEEEeecCChhHHHHHHHHHHHh
Q 024855 111 DIIYVAVGKSQSSMDALSWTLRHA 134 (261)
Q Consensus 111 kkILVaVDgSe~S~~AL~~Al~~A 134 (261)
+.++|+..|.+.|..+|..+.+..
T Consensus 35 ~P~vV~fSGGKDStavL~Lv~~Al 58 (507)
T PRK06850 35 RPWVIGYSGGKDSTAVLQLVWNAL 58 (507)
T ss_pred CCeEEeCCCCchHHHHHHHHHHHH
Confidence 457899999999999998887654
No 215
>PRK13982 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional
Probab=20.85 E-value=1.6e+02 Score=29.41 Aligned_cols=36 Identities=11% Similarity=0.137 Sum_probs=29.2
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEE
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIH 145 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLH 145 (261)
..++||++|-||-.+.+++++.-.+. +.|.+|+++-
T Consensus 69 ~~k~IllgVtGsIAayka~~lvr~L~-k~G~~V~Vvm 104 (475)
T PRK13982 69 ASKRVTLIIGGGIAAYKALDLIRRLK-ERGAHVRCVL 104 (475)
T ss_pred CCCEEEEEEccHHHHHHHHHHHHHHH-hCcCEEEEEE
Confidence 57899999999999999999986664 5677765554
No 216
>TIGR01283 nifE nitrogenase molybdenum-iron cofactor biosynthesis protein NifE. This protein is part of the NifEN complex involved in biosynthesis of the molybdenum-iron cofactor used by the homologous NifDK complex of nitrogenase. In a few species, the protein is found as a NifEN fusion protein.
Probab=20.80 E-value=3e+02 Score=26.81 Aligned_cols=57 Identities=16% Similarity=0.267 Sum_probs=38.6
Q ss_pred HHHHHHHHHHHHHHHHHHHHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCC
Q 024855 170 LETFMAQETGKRRQLLQKFLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTT 230 (261)
Q Consensus 170 ~e~~~~~~~e~~~~~Lek~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr 230 (261)
.+++.++++++.+..++.+...+. |.++ .+..|....-.+.++..+.+++.+.+|+.
T Consensus 302 ~~~~i~~e~~~~~~~l~~~~~~L~--Gkrv--~i~~g~~~~~~l~~~l~elGmevv~~~t~ 358 (456)
T TIGR01283 302 TEELIAREEAKIRPALEPYRERLK--GKKA--AIYTGGVKSWSLVSALQDLGMEVVATGTQ 358 (456)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHcC--CCEE--EEEcCCchHHHHHHHHHHCCCEEEEEeee
Confidence 455556666677777777776664 4444 23334445677888889999999998865
No 217
>TIGR01768 GGGP-family geranylgeranylglyceryl phosphate synthase family protein. This model represents a family of sequences including geranylgeranylglyceryl phosphate synthase which catalyzes the first committed step in the synthesis of ether-linked membrane lipids in archaea. The clade of bacterial sequences may have the same function or a closely related function. This model supercedes TIGR00265, which has been retired.
Probab=20.69 E-value=1.1e+02 Score=27.51 Aligned_cols=44 Identities=9% Similarity=0.109 Sum_probs=26.1
Q ss_pred HHHHHhhhhCCCcEEEECCC-CCCcccccccceeccHHHHHhccCCcceeeC
Q 024855 211 KAILDLIPVLNIRKLVVGTT-KSSLRFHFHSINFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 211 eaIv~~A~e~~aDLIVmGsr-~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
..+++.+.+.+.|.|++|.. +-...+ +..+-.+|-++. +||++|
T Consensus 17 ~~~~~~~~~~gtdai~vGGS~~vt~~~------~~~~v~~ik~~~-lPvilf 61 (223)
T TIGR01768 17 DEIAKAAAESGTDAILIGGSQGVTYEK------TDTLIEALRRYG-LPIILF 61 (223)
T ss_pred HHHHHHHHhcCCCEEEEcCCCcccHHH------HHHHHHHHhccC-CCEEEe
Confidence 45666777777888888877 333333 123444444444 887765
No 218
>PF00532 Peripla_BP_1: Periplasmic binding proteins and sugar binding domain of LacI family; InterPro: IPR001761 This family includes the periplasmic binding proteins, and the LacI family transcriptional regulators. The periplasmic binding proteins are the primary receptors for chemotaxis and transport of many sugar based solutes. The LacI family of proteins consist of transcriptional regulators related to the lac repressor. In this case, generally the sugar binding domain binds a sugar which changes the DNA binding activity of the repressor domain (lacI) [, ].; PDB: 1BAP_A 7ABP_A 6ABP_A 1ABF_A 5ABP_A 2WRZ_B 9ABP_A 1APB_A 1ABE_A 8ABP_A ....
Probab=20.68 E-value=3.3e+02 Score=24.31 Aligned_cols=48 Identities=4% Similarity=0.107 Sum_probs=26.0
Q ss_pred HHHHHHHhhcCCCcEEEEEEEcCChHHHHHHhhhhCCCcEEEECCCCC
Q 024855 185 LQKFLDTCSQSKVMVDTVLIESDLVAKAILDLIPVLNIRKLVVGTTKS 232 (261)
Q Consensus 185 Lek~~~~~~~~gV~ve~~vieGd~~aeaIv~~A~e~~aDLIVmGsr~s 232 (261)
+....+.+++.|..+-..-...+.-.+..++...++++|-||+.+...
T Consensus 20 i~gIe~~a~~~Gy~l~l~~t~~~~~~e~~i~~l~~~~vDGiI~~s~~~ 67 (279)
T PF00532_consen 20 IRGIEQEAREHGYQLLLCNTGDDEEKEEYIELLLQRRVDGIILASSEN 67 (279)
T ss_dssp HHHHHHHHHHTTCEEEEEEETTTHHHHHHHHHHHHTTSSEEEEESSSC
T ss_pred HHHHHHHHHHcCCEEEEecCCCchHHHHHHHHHHhcCCCEEEEecccC
Confidence 334444556667655322222222223555667778888888876533
No 219
>PRK09195 gatY tagatose-bisphosphate aldolase; Reviewed
Probab=20.63 E-value=1.6e+02 Score=27.23 Aligned_cols=52 Identities=12% Similarity=-0.005 Sum_probs=37.0
Q ss_pred cCChHHHHHHhhhhCCCcEEEECCCC-CCcccccccceeccHHHHHhccCCcceee
Q 024855 206 SDLVAKAILDLIPVLNIRKLVVGTTK-SSLRFHFHSINFNGIGTLILFYFSILLFC 260 (261)
Q Consensus 206 Gd~~aeaIv~~A~e~~aDLIVmGsr~-sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~ 260 (261)
+.....++++.|++.+.-+|+.-+.. ..... .-.+......+.+.+.+||.+
T Consensus 27 n~e~~~avi~AAee~~sPvIiq~~~~~~~~~g---~~~~~~~~~~~A~~~~VPV~l 79 (284)
T PRK09195 27 NLETMQVVVETAAELHSPVIIAGTPGTFSYAG---TEYLLAIVSAAAKQYHHPLAL 79 (284)
T ss_pred CHHHHHHHHHHHHHhCCCEEEEcChhHHhhCC---HHHHHHHHHHHHHHCCCCEEE
Confidence 44457999999999999999988773 11111 112346788888999999864
No 220
>smart00852 MoCF_biosynth Probable molybdopterin binding domain. This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor. The domain is presumed to bind molybdopterin. The structure of this domain is known, and it forms an alpha/beta structure. In the known structure of Gephyrin this domain mediates trimerisation.
Probab=20.44 E-value=2.6e+02 Score=22.14 Aligned_cols=36 Identities=14% Similarity=0.108 Sum_probs=21.1
Q ss_pred hhcCCCcEEEEEEEcCChHHHHHHhhhh--CCCcEEEEC
Q 024855 192 CSQSKVMVDTVLIESDLVAKAILDLIPV--LNIRKLVVG 228 (261)
Q Consensus 192 ~~~~gV~ve~~vieGd~~aeaIv~~A~e--~~aDLIVmG 228 (261)
+++.|.++....+..|+ .+.|.+..++ .++|+||.-
T Consensus 27 l~~~G~~~~~~~~v~Dd-~~~I~~~l~~~~~~~dliitt 64 (135)
T smart00852 27 LTELGIEVTRYVIVPDD-KEAIKEALREALERADLVITT 64 (135)
T ss_pred HHHCCCeEEEEEEeCCC-HHHHHHHHHHHHhCCCEEEEc
Confidence 44557766555455566 3656655443 258888764
No 221
>cd05014 SIS_Kpsf KpsF-like protein. KpsF is an arabinose-5-phosphate isomerase which contains SIS (Sugar ISomerase) domains. SIS domains are found in many phosphosugar isomerases and phosphosugar binding proteins. KpsF catalyzes the reversible reaction of ribulose 5-phosphate to arabinose 5-phosphate. This is the second step in the CMP-Kdo biosynthesis pathway.
Probab=20.06 E-value=1.6e+02 Score=22.66 Aligned_cols=39 Identities=18% Similarity=0.180 Sum_probs=30.0
Q ss_pred CCCeEEEeecCChhHHHHHHHHHHHhcCCCCeEEEEEEec
Q 024855 109 EEDIIYVAVGKSQSSMDALSWTLRHAVNPSTLIFLIHVFP 148 (261)
Q Consensus 109 ~~kkILVaVDgSe~S~~AL~~Al~~A~~~ga~L~LLHVv~ 148 (261)
..+.+++.+..|-.+...++++ +.|+..+++++++--.+
T Consensus 46 ~~~d~vi~iS~sG~t~~~~~~~-~~a~~~g~~vi~iT~~~ 84 (128)
T cd05014 46 TPGDVVIAISNSGETDELLNLL-PHLKRRGAPIIAITGNP 84 (128)
T ss_pred CCCCEEEEEeCCCCCHHHHHHH-HHHHHCCCeEEEEeCCC
Confidence 5568999999988888888776 45777788888877644
No 222
>COG1927 Mtd Coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase [Energy production and conversion]
Probab=20.05 E-value=1.9e+02 Score=26.21 Aligned_cols=44 Identities=9% Similarity=-0.004 Sum_probs=32.1
Q ss_pred HHHHHhhhhCCCcEEEECCCCCCcccccccceeccHHHHHhccCCcceeeC
Q 024855 211 KAILDLIPVLNIRKLVVGTTKSSLRFHFHSINFNGIGTLILFYFSILLFCF 261 (261)
Q Consensus 211 eaIv~~A~e~~aDLIVmGsr~sgl~~~~r~l~lGSVA~~Vlr~A~ipv~~~ 261 (261)
.+..+..+++++|.||+++-..+.- +-+-|..++..+.+|++.|
T Consensus 50 aav~~~~e~~~pDfvi~isPNpaaP-------GP~kARE~l~~s~~Paiii 93 (277)
T COG1927 50 AAVTEMLEEFNPDFVIYISPNPAAP-------GPKKAREILSDSDVPAIII 93 (277)
T ss_pred HHHHHHHHhcCCCEEEEeCCCCCCC-------CchHHHHHHhhcCCCEEEe
Confidence 4555788899999999998855432 2456778888888887754
Done!