Query 024773
Match_columns 262
No_of_seqs 185 out of 1441
Neff 7.9
Searched_HMMs 46136
Date Fri Mar 29 07:18:49 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024773.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024773hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK05752 uroporphyrinogen-III 100.0 2.9E-39 6.3E-44 283.7 23.7 209 48-262 1-218 (255)
2 PRK08811 uroporphyrinogen-III 100.0 1.3E-38 2.7E-43 281.0 22.6 210 45-262 13-227 (266)
3 COG1587 HemD Uroporphyrinogen- 100.0 2.7E-37 5.8E-42 270.2 23.4 204 50-262 1-212 (248)
4 PRK07239 bifunctional uroporph 100.0 9.9E-37 2.1E-41 282.0 24.4 211 45-262 6-244 (381)
5 PRK09189 uroporphyrinogen-III 100.0 1.9E-36 4.2E-41 263.4 21.8 201 51-262 1-208 (240)
6 PRK05928 hemD uroporphyrinogen 100.0 1.3E-34 2.9E-39 251.4 23.6 205 51-262 2-215 (249)
7 PRK06975 bifunctional uroporph 100.0 3.4E-34 7.4E-39 280.1 23.7 208 49-262 2-234 (656)
8 cd06578 HemD Uroporphyrinogen- 100.0 9.8E-33 2.1E-37 237.6 23.8 202 53-262 1-210 (239)
9 PF02602 HEM4: Uroporphyrinoge 100.0 5.7E-34 1.2E-38 245.6 14.9 192 63-262 1-204 (231)
10 PRK07168 bifunctional uroporph 100.0 4.6E-32 1E-36 255.6 17.5 198 28-262 237-444 (474)
11 KOG4132 Uroporphyrinogen III s 100.0 3.2E-27 6.9E-32 196.9 18.7 206 50-262 3-222 (260)
12 PRK05928 hemD uroporphyrinogen 99.7 1.6E-16 3.4E-21 137.8 14.0 120 48-174 123-247 (249)
13 cd06578 HemD Uroporphyrinogen- 99.7 1.6E-15 3.6E-20 130.2 14.7 118 47-171 119-239 (239)
14 PRK07239 bifunctional uroporph 99.6 3.3E-15 7.1E-20 138.4 14.3 121 46-174 138-275 (381)
15 PRK05752 uroporphyrinogen-III 99.6 1.4E-14 3.1E-19 127.2 14.1 121 48-175 128-251 (255)
16 PF02602 HEM4: Uroporphyrinoge 99.6 4.2E-15 9E-20 128.0 7.9 116 47-169 114-231 (231)
17 COG1587 HemD Uroporphyrinogen- 99.6 3.3E-14 7.2E-19 124.4 13.3 118 50-174 123-244 (248)
18 PRK09189 uroporphyrinogen-III 99.6 8E-14 1.7E-18 121.2 14.3 118 48-172 116-238 (240)
19 PRK08811 uroporphyrinogen-III 99.5 3.3E-13 7.1E-18 119.3 13.8 122 48-175 136-260 (266)
20 KOG4132 Uroporphyrinogen III s 99.4 1.8E-12 3.9E-17 108.9 13.0 117 53-175 136-255 (260)
21 PRK06975 bifunctional uroporph 99.2 1.5E-10 3.2E-15 114.2 13.4 118 48-174 137-265 (656)
22 PRK07168 bifunctional uroporph 98.7 4.6E-07 9.9E-12 86.3 16.8 171 51-262 164-338 (474)
23 cd06298 PBP1_CcpA_like Ligand- 97.0 0.035 7.6E-07 47.7 14.2 177 64-261 20-213 (268)
24 cd06295 PBP1_CelR Ligand bindi 96.9 0.036 7.8E-07 48.1 13.9 176 65-261 32-222 (275)
25 cd01575 PBP1_GntR Ligand-bindi 96.9 0.025 5.5E-07 48.5 12.7 178 64-261 20-213 (268)
26 cd06299 PBP1_LacI_like_13 Liga 96.9 0.041 8.9E-07 47.3 14.0 177 64-261 20-211 (265)
27 cd06272 PBP1_hexuronate_repres 96.7 0.036 7.8E-07 47.7 12.0 174 64-261 20-208 (261)
28 cd06273 PBP1_GntR_like_1 This 96.7 0.054 1.2E-06 46.6 13.1 178 63-261 19-214 (268)
29 cd06297 PBP1_LacI_like_12 Liga 96.6 0.073 1.6E-06 46.2 13.7 178 63-261 19-216 (269)
30 cd06271 PBP1_AglR_RafR_like Li 96.6 0.049 1.1E-06 46.8 12.3 178 64-261 24-217 (268)
31 COG1609 PurR Transcriptional r 96.5 0.059 1.3E-06 49.1 12.8 181 63-261 78-273 (333)
32 cd06286 PBP1_CcpB_like Ligand- 96.5 0.081 1.8E-06 45.4 13.1 178 63-261 19-211 (260)
33 cd06296 PBP1_CatR_like Ligand- 96.5 0.056 1.2E-06 46.6 12.0 180 64-261 20-214 (270)
34 cd06283 PBP1_RegR_EndR_KdgR_li 96.4 0.14 3.1E-06 43.8 14.1 179 63-261 19-214 (267)
35 cd06270 PBP1_GalS_like Ligand 96.4 0.12 2.5E-06 44.7 13.4 177 64-261 20-213 (268)
36 cd06274 PBP1_FruR Ligand bindi 96.4 0.17 3.7E-06 43.5 14.3 177 64-261 20-214 (264)
37 cd06301 PBP1_rhizopine_binding 96.3 0.17 3.7E-06 43.7 14.2 180 64-261 20-218 (272)
38 cd06294 PBP1_ycjW_transcriptio 96.3 0.11 2.5E-06 44.5 13.1 181 63-261 24-219 (270)
39 cd06305 PBP1_methylthioribose_ 96.3 0.12 2.6E-06 44.6 13.0 181 63-261 19-217 (273)
40 cd01542 PBP1_TreR_like Ligand- 96.2 0.09 2E-06 45.0 11.5 174 63-261 19-209 (259)
41 cd06279 PBP1_LacI_like_3 Ligan 96.2 0.17 3.6E-06 44.3 13.4 175 63-261 24-231 (283)
42 cd01545 PBP1_SalR Ligand-bindi 96.1 0.17 3.6E-06 43.5 13.2 180 64-261 20-215 (270)
43 cd06320 PBP1_allose_binding Pe 96.1 0.13 2.9E-06 44.5 12.5 178 64-260 20-215 (275)
44 cd06285 PBP1_LacI_like_7 Ligan 96.1 0.12 2.6E-06 44.5 12.1 176 63-261 19-211 (265)
45 cd06281 PBP1_LacI_like_5 Ligan 96.1 0.18 4E-06 43.5 13.3 176 64-261 20-212 (269)
46 cd06309 PBP1_YtfQ_like Peripla 96.1 0.081 1.7E-06 45.9 11.0 184 63-261 19-221 (273)
47 cd06292 PBP1_LacI_like_10 Liga 96.1 0.18 3.9E-06 43.5 13.0 182 63-261 19-217 (273)
48 cd06290 PBP1_LacI_like_9 Ligan 96.0 0.21 4.6E-06 42.8 13.0 176 64-261 20-212 (265)
49 cd01537 PBP1_Repressors_Sugar_ 95.9 0.23 5.1E-06 41.9 13.0 180 63-261 19-214 (264)
50 TIGR01481 ccpA catabolite cont 95.9 0.39 8.4E-06 42.9 14.9 176 65-261 81-272 (329)
51 PRK10423 transcriptional repre 95.9 0.49 1.1E-05 42.1 15.5 178 64-261 77-271 (327)
52 cd06289 PBP1_MalI_like Ligand- 95.9 0.59 1.3E-05 40.0 15.5 176 64-261 20-214 (268)
53 cd06288 PBP1_sucrose_transcrip 95.9 0.16 3.5E-06 43.6 11.9 178 64-261 21-213 (269)
54 cd06310 PBP1_ABC_sugar_binding 95.9 0.21 4.6E-06 43.1 12.6 181 63-261 19-217 (273)
55 cd06275 PBP1_PurR Ligand-bindi 95.8 0.41 8.9E-06 41.1 14.0 178 64-261 20-214 (269)
56 PRK10703 DNA-binding transcrip 95.6 0.21 4.5E-06 45.0 11.9 179 64-261 80-275 (341)
57 cd06316 PBP1_ABC_sugar_binding 95.6 0.24 5.3E-06 43.5 12.2 185 65-261 21-219 (294)
58 cd06284 PBP1_LacI_like_6 Ligan 95.6 0.43 9.3E-06 40.8 13.5 178 63-261 19-212 (267)
59 cd06293 PBP1_LacI_like_11 Liga 95.6 0.32 6.9E-06 41.9 12.6 178 64-261 20-213 (269)
60 cd06313 PBP1_ABC_sugar_binding 95.6 0.21 4.6E-06 43.5 11.6 180 64-261 20-216 (272)
61 cd01574 PBP1_LacI Ligand-bindi 95.6 0.32 7E-06 41.6 12.6 178 63-261 19-210 (264)
62 PRK10014 DNA-binding transcrip 95.6 0.61 1.3E-05 41.8 14.8 166 65-251 86-266 (342)
63 cd06282 PBP1_GntR_like_2 Ligan 95.6 0.48 1E-05 40.4 13.6 175 64-261 20-212 (266)
64 PRK11303 DNA-binding transcrip 95.5 0.78 1.7E-05 40.9 15.3 175 64-261 82-274 (328)
65 cd01541 PBP1_AraR Ligand-bindi 95.5 0.33 7E-06 42.0 12.5 179 64-261 20-219 (273)
66 PRK02261 methylaspartate mutas 95.5 0.68 1.5E-05 36.8 12.9 113 49-174 2-133 (137)
67 cd06267 PBP1_LacI_sugar_bindin 95.4 1.2 2.5E-05 37.6 15.5 179 64-261 20-213 (264)
68 PF00532 Peripla_BP_1: Peripla 95.4 0.074 1.6E-06 47.1 8.1 169 64-251 22-203 (279)
69 cd06278 PBP1_LacI_like_2 Ligan 95.3 0.36 7.8E-06 41.2 11.8 176 64-261 20-211 (266)
70 PF13407 Peripla_BP_4: Peripla 95.2 0.23 5.1E-06 42.5 10.5 180 63-261 18-216 (257)
71 cd06318 PBP1_ABC_sugar_binding 95.2 0.51 1.1E-05 40.9 12.6 182 63-261 19-224 (282)
72 TIGR02853 spore_dpaA dipicolin 95.1 0.5 1.1E-05 42.3 12.6 175 50-240 1-221 (287)
73 cd06276 PBP1_FucR_like Ligand- 95.1 0.3 6.5E-06 42.1 10.8 170 63-261 18-198 (247)
74 cd06308 PBP1_sensor_kinase_lik 95.1 0.72 1.6E-05 39.8 13.2 180 64-261 20-216 (270)
75 cd06323 PBP1_ribose_binding Pe 95.0 1.3 2.7E-05 37.8 14.5 179 64-261 20-214 (268)
76 cd06302 PBP1_LsrB_Quorum_Sensi 95.0 0.47 1E-05 42.0 12.0 182 63-261 19-219 (298)
77 cd06314 PBP1_tmGBP Periplasmic 94.9 0.3 6.5E-06 42.2 10.3 178 64-261 19-213 (271)
78 cd06321 PBP1_ABC_sugar_binding 94.7 1.2 2.6E-05 38.3 13.5 145 101-261 56-214 (271)
79 cd06291 PBP1_Qymf_like Ligand 94.6 0.62 1.3E-05 39.9 11.5 172 64-261 20-209 (265)
80 cd06287 PBP1_LacI_like_8 Ligan 94.6 0.76 1.7E-05 40.0 12.0 172 63-259 27-212 (269)
81 cd01536 PBP1_ABC_sugar_binding 94.5 0.79 1.7E-05 38.9 11.7 178 65-260 21-214 (267)
82 TIGR02417 fruct_sucro_rep D-fr 94.5 0.71 1.5E-05 41.2 11.9 175 64-261 81-273 (327)
83 cd06307 PBP1_uncharacterized_s 94.4 1.8 3.9E-05 37.3 14.1 183 64-261 20-219 (275)
84 cd06312 PBP1_ABC_sugar_binding 94.4 0.56 1.2E-05 40.5 10.9 180 64-261 21-217 (271)
85 COG2185 Sbm Methylmalonyl-CoA 94.4 0.75 1.6E-05 36.8 10.5 106 49-166 11-129 (143)
86 PRK10727 DNA-binding transcrip 94.4 1.3 2.8E-05 39.9 13.5 175 65-261 81-273 (343)
87 cd01544 PBP1_GalR Ligand-bindi 94.4 1.9 4.1E-05 37.2 14.1 170 63-261 24-215 (270)
88 cd06277 PBP1_LacI_like_1 Ligan 94.4 1.6 3.5E-05 37.4 13.6 176 64-261 23-213 (268)
89 PRK10401 DNA-binding transcrip 94.3 1.7 3.7E-05 39.2 14.2 176 65-261 81-273 (346)
90 cd06319 PBP1_ABC_sugar_binding 94.3 1 2.2E-05 38.8 12.2 181 64-261 20-219 (277)
91 PRK10653 D-ribose transporter 94.2 1.5 3.2E-05 38.5 13.3 179 63-261 46-240 (295)
92 cd06280 PBP1_LacI_like_4 Ligan 94.2 0.87 1.9E-05 39.1 11.4 175 63-261 19-208 (263)
93 PRK09526 lacI lac repressor; R 94.1 1.1 2.4E-05 40.2 12.4 176 64-261 84-276 (342)
94 PRK09492 treR trehalose repres 94.1 2.5 5.3E-05 37.4 14.4 171 63-261 82-265 (315)
95 cd01391 Periplasmic_Binding_Pr 94.0 1.9 4.1E-05 35.9 13.0 148 101-261 57-217 (269)
96 PRK08306 dipicolinate synthase 94.0 2.6 5.7E-05 37.8 14.5 176 49-239 1-221 (296)
97 PRK14987 gluconate operon tran 94.0 2.2 4.8E-05 38.1 14.1 176 64-261 84-275 (331)
98 cd06300 PBP1_ABC_sugar_binding 93.9 1.9 4.1E-05 37.1 13.2 144 101-261 59-217 (272)
99 cd06322 PBP1_ABC_sugar_binding 93.9 1.4 3E-05 37.8 12.1 181 63-261 19-212 (267)
100 cd06354 PBP1_BmpA_PnrA_like Pe 93.7 2.6 5.7E-05 36.5 13.6 176 64-260 23-212 (265)
101 TIGR00640 acid_CoA_mut_C methy 93.7 2.3 4.9E-05 33.6 11.9 111 50-173 2-125 (132)
102 cd06317 PBP1_ABC_sugar_binding 93.2 1.6 3.4E-05 37.5 11.4 180 64-261 21-221 (275)
103 PF04392 ABC_sub_bind: ABC tra 92.8 2.8 6.1E-05 37.2 12.6 185 63-259 18-216 (294)
104 cd01539 PBP1_GGBP Periplasmic 92.8 3.1 6.6E-05 36.8 12.9 182 64-261 20-240 (303)
105 cd02072 Glm_B12_BD B12 binding 92.7 2.3 5E-05 33.4 10.4 97 63-172 17-127 (128)
106 cd06324 PBP1_ABC_sugar_binding 92.6 3.9 8.4E-05 36.2 13.2 186 64-260 21-237 (305)
107 cd01538 PBP1_ABC_xylose_bindin 92.5 3.7 7.9E-05 35.9 12.8 181 64-261 20-224 (288)
108 TIGR01501 MthylAspMutase methy 92.3 4.3 9.3E-05 32.1 11.7 110 51-173 2-130 (134)
109 PRK09701 D-allose transporter 92.3 3 6.5E-05 37.1 12.2 184 64-261 45-250 (311)
110 cd06306 PBP1_TorT-like TorT-li 91.8 2.7 6E-05 36.2 11.1 176 64-259 20-215 (268)
111 PRK11041 DNA-binding transcrip 91.7 7.6 0.00016 34.0 14.0 176 64-261 56-249 (309)
112 cd06303 PBP1_LuxPQ_Quorum_Sens 91.7 4.5 9.7E-05 35.1 12.4 186 63-261 20-224 (280)
113 cd01543 PBP1_XylR Ligand-bindi 91.1 7.3 0.00016 33.3 13.1 172 64-261 19-207 (265)
114 PRK10339 DNA-binding transcrip 90.9 7.1 0.00015 34.7 13.2 168 64-261 88-270 (327)
115 PRK08339 short chain dehydroge 90.8 5 0.00011 34.8 11.8 148 47-207 5-185 (263)
116 cd06304 PBP1_BmpA_like Peripla 89.9 6.5 0.00014 33.8 11.6 171 64-250 22-201 (260)
117 COG4822 CbiK Cobalamin biosynt 89.7 7.6 0.00016 33.3 11.1 144 65-217 65-242 (265)
118 PRK15408 autoinducer 2-binding 89.3 4.9 0.00011 36.6 10.8 171 65-258 45-239 (336)
119 PRK11790 D-3-phosphoglycerate 89.0 10 0.00022 35.7 13.0 173 46-240 6-215 (409)
120 TIGR02405 trehalos_R_Ecol treh 89.0 7.9 0.00017 34.2 11.8 172 64-261 80-262 (311)
121 cd02071 MM_CoA_mut_B12_BD meth 88.7 6 0.00013 30.4 9.4 96 64-172 18-121 (122)
122 cd06311 PBP1_ABC_sugar_binding 88.6 15 0.00032 31.5 14.0 144 101-259 59-217 (274)
123 PRK15438 erythronate-4-phospha 88.2 3.6 7.8E-05 38.3 9.1 163 51-240 1-179 (378)
124 cd01540 PBP1_arabinose_binding 88.1 5.1 0.00011 34.7 9.8 184 63-260 19-228 (289)
125 cd02067 B12-binding B12 bindin 88.0 6.3 0.00014 29.9 9.1 84 63-158 17-108 (119)
126 PF10087 DUF2325: Uncharacteri 87.7 2.2 4.8E-05 31.5 6.1 67 180-248 1-68 (97)
127 TIGR02955 TMAO_TorT TMAO reduc 87.3 11 0.00024 33.0 11.5 176 65-259 21-215 (295)
128 PLN02928 oxidoreductase family 87.2 7.6 0.00016 35.7 10.7 168 48-240 16-238 (347)
129 PF03358 FMN_red: NADPH-depend 87.1 2.7 5.8E-05 33.2 6.8 81 180-260 2-112 (152)
130 PRK10569 NAD(P)H-dependent FMN 86.9 4 8.8E-05 34.2 8.0 70 191-260 21-105 (191)
131 PRK06756 flavodoxin; Provision 86.9 4.2 9.2E-05 32.1 7.8 64 63-136 20-91 (148)
132 cd06341 PBP1_ABC_ligand_bindin 86.3 24 0.00051 31.5 13.5 137 101-251 66-212 (341)
133 cd00316 Oxidoreductase_nitroge 86.2 27 0.0006 32.1 14.3 153 49-212 151-313 (399)
134 TIGR03567 FMN_reduc_SsuE FMN r 86.0 5.1 0.00011 32.7 8.1 40 221-260 58-104 (171)
135 cd05564 PTS_IIB_chitobiose_lic 86.0 8.3 0.00018 28.4 8.5 74 180-262 1-79 (96)
136 cd06325 PBP1_ABC_uncharacteriz 86.0 20 0.00043 30.6 12.3 151 101-260 59-217 (281)
137 TIGR00853 pts-lac PTS system, 85.9 12 0.00025 27.7 9.2 74 179-262 4-83 (95)
138 TIGR02637 RhaS rhamnose ABC tr 84.7 19 0.00041 31.5 11.7 148 101-261 55-219 (302)
139 TIGR02634 xylF D-xylose ABC tr 84.4 13 0.00028 32.8 10.6 178 63-260 18-217 (302)
140 PRK07825 short chain dehydroge 83.9 27 0.00059 30.1 12.4 81 48-135 3-87 (273)
141 PRK15395 methyl-galactoside AB 83.5 33 0.00071 30.8 14.6 152 101-261 80-258 (330)
142 PRK10537 voltage-gated potassi 83.2 12 0.00025 35.1 10.0 113 50-172 240-369 (393)
143 PRK00107 gidB 16S rRNA methylt 83.0 13 0.00028 31.0 9.3 53 163-215 123-175 (187)
144 PF03358 FMN_red: NADPH-depend 82.8 4.7 0.0001 31.8 6.4 71 63-134 21-112 (152)
145 PRK00257 erythronate-4-phospha 82.6 18 0.00038 33.8 10.9 160 51-240 1-179 (381)
146 PRK14192 bifunctional 5,10-met 82.5 17 0.00036 32.5 10.3 160 52-237 37-211 (283)
147 PRK10936 TMAO reductase system 82.4 24 0.00052 31.9 11.6 192 50-260 46-263 (343)
148 cd05565 PTS_IIB_lactose PTS_II 81.1 16 0.00034 27.3 8.2 71 180-260 2-78 (99)
149 PRK14719 bifunctional RNAse/5- 79.4 17 0.00037 33.6 9.6 85 118-213 14-105 (360)
150 PRK10569 NAD(P)H-dependent FMN 79.3 8.7 0.00019 32.1 7.0 59 64-122 22-93 (191)
151 PF10087 DUF2325: Uncharacteri 79.1 23 0.00049 26.0 9.4 63 52-119 1-65 (97)
152 PF06506 PrpR_N: Propionate ca 79.0 11 0.00024 30.9 7.5 75 128-209 34-108 (176)
153 COG0300 DltE Short-chain dehyd 78.4 13 0.00027 33.0 8.0 156 46-214 2-191 (265)
154 PF06180 CbiK: Cobalt chelatas 78.2 9 0.0002 33.9 7.0 142 63-206 61-238 (262)
155 PRK09496 trkA potassium transp 78.1 61 0.0013 30.4 16.1 198 51-261 1-238 (453)
156 cd01965 Nitrogenase_MoFe_beta_ 77.8 63 0.0014 30.4 13.6 142 61-209 170-330 (428)
157 PRK09496 trkA potassium transp 77.6 24 0.00053 33.0 10.4 117 48-172 229-363 (453)
158 cd02070 corrinoid_protein_B12- 77.3 42 0.0009 28.1 10.9 91 50-146 82-183 (201)
159 TIGR01285 nifN nitrogenase mol 77.2 66 0.0014 30.5 13.1 144 60-211 181-344 (432)
160 TIGR03566 FMN_reduc_MsuE FMN r 77.1 13 0.00028 30.3 7.4 39 221-259 61-106 (174)
161 PRK04017 hypothetical protein; 76.7 22 0.00048 28.1 8.1 82 115-205 10-97 (132)
162 PRK02910 light-independent pro 76.1 80 0.0017 30.7 14.1 142 60-212 175-328 (519)
163 PF13377 Peripla_BP_3: Peripla 75.7 14 0.00031 28.7 7.2 84 178-261 9-104 (160)
164 PRK13982 bifunctional SbtC-lik 75.5 6.7 0.00015 37.7 5.9 85 27-111 231-343 (475)
165 cd06167 LabA_like LabA_like pr 74.7 10 0.00022 29.8 6.0 82 61-145 53-142 (149)
166 PRK05872 short chain dehydroge 74.1 62 0.0013 28.5 12.3 83 46-135 5-94 (296)
167 PF03709 OKR_DC_1_N: Orn/Lys/A 74.0 34 0.00074 25.9 8.5 68 62-138 6-77 (115)
168 PRK12480 D-lactate dehydrogena 73.9 71 0.0015 29.1 15.3 171 51-240 2-210 (330)
169 PRK14191 bifunctional 5,10-met 73.2 48 0.001 29.7 10.3 161 52-237 35-209 (285)
170 PF13458 Peripla_BP_6: Peripla 73.2 65 0.0014 28.4 13.0 137 101-251 68-214 (343)
171 TIGR03567 FMN_reduc_SsuE FMN r 72.8 12 0.00025 30.5 6.0 69 65-133 22-103 (171)
172 PRK06756 flavodoxin; Provision 72.7 16 0.00034 28.8 6.7 12 161-172 12-23 (148)
173 PLN02516 methylenetetrahydrofo 72.5 69 0.0015 28.9 11.3 163 53-238 44-220 (299)
174 PRK08410 2-hydroxyacid dehydro 72.0 60 0.0013 29.3 10.9 62 177-241 144-209 (311)
175 PRK01175 phosphoribosylformylg 71.5 40 0.00086 29.8 9.4 91 49-155 2-109 (261)
176 PF00148 Oxidored_nitro: Nitro 71.4 11 0.00023 35.0 6.1 153 48-214 142-307 (398)
177 TIGR01753 flav_short flavodoxi 70.8 13 0.00028 28.6 5.7 62 63-135 17-87 (140)
178 PF02310 B12-binding: B12 bind 70.1 29 0.00063 25.9 7.4 87 62-160 17-112 (121)
179 PRK08415 enoyl-(acyl carrier p 70.0 74 0.0016 27.7 11.5 72 48-124 3-80 (274)
180 PRK12481 2-deoxy-D-gluconate 3 69.8 69 0.0015 27.2 12.7 72 46-123 4-79 (251)
181 COG0647 NagD Predicted sugar p 69.0 34 0.00073 30.4 8.4 84 60-156 27-114 (269)
182 PRK06703 flavodoxin; Provision 68.6 15 0.00032 29.0 5.7 62 64-136 21-90 (151)
183 cd06268 PBP1_ABC_transporter_L 67.7 74 0.0016 26.8 14.4 143 102-258 66-220 (298)
184 cd06386 PBP1_NPR_C_like Ligand 67.6 1E+02 0.0022 28.3 12.2 60 190-251 157-218 (387)
185 cd01968 Nitrogenase_NifE_I Nit 67.5 99 0.0022 28.9 11.8 142 60-211 171-320 (410)
186 COG0075 Serine-pyruvate aminot 67.1 16 0.00035 34.1 6.3 61 48-109 78-138 (383)
187 cd06289 PBP1_MalI_like Ligand- 66.7 56 0.0012 27.5 9.3 89 50-138 117-217 (268)
188 COG2984 ABC-type uncharacteriz 66.4 1E+02 0.0023 28.0 14.5 170 63-247 49-231 (322)
189 COG0569 TrkA K+ transport syst 66.3 83 0.0018 26.9 14.6 188 51-249 1-222 (225)
190 PRK14476 nitrogenase molybdenu 65.9 96 0.0021 29.6 11.4 144 60-211 182-344 (455)
191 cd01974 Nitrogenase_MoFe_beta 65.5 65 0.0014 30.4 10.2 140 62-210 176-335 (435)
192 cd04509 PBP1_ABC_transporter_G 65.5 83 0.0018 26.5 10.9 136 102-251 67-215 (299)
193 PLN02891 IMP cyclohydrolase 65.4 1E+02 0.0022 30.1 11.3 130 104-249 25-179 (547)
194 PRK05867 short chain dehydroge 65.1 85 0.0018 26.5 10.3 85 47-135 6-95 (253)
195 cd00401 AdoHcyase S-adenosyl-L 65.0 1.3E+02 0.0028 28.5 14.1 36 44-79 30-66 (413)
196 PRK14175 bifunctional 5,10-met 64.9 69 0.0015 28.7 9.6 146 67-238 55-211 (286)
197 PF04127 DFP: DNA / pantothena 64.4 17 0.00037 30.3 5.4 18 62-79 32-49 (185)
198 PRK10669 putative cation:proto 64.4 82 0.0018 30.7 11.0 114 51-173 418-549 (558)
199 PRK08265 short chain dehydroge 64.1 75 0.0016 27.1 9.7 81 48-135 4-89 (261)
200 PF04016 DUF364: Domain of unk 64.1 13 0.00029 29.7 4.5 76 177-262 10-96 (147)
201 PRK05569 flavodoxin; Provision 63.9 16 0.00035 28.3 5.0 37 99-135 45-90 (141)
202 cd01080 NAD_bind_m-THF_DH_Cycl 63.8 30 0.00064 28.4 6.6 69 163-239 27-98 (168)
203 PRK05786 fabG 3-ketoacyl-(acyl 63.5 81 0.0018 26.2 9.6 84 48-135 3-90 (238)
204 PRK05569 flavodoxin; Provision 63.4 39 0.00084 26.1 7.1 35 227-261 47-90 (141)
205 cd01537 PBP1_Repressors_Sugar_ 63.2 39 0.00084 28.1 7.6 47 93-139 169-218 (264)
206 cd01972 Nitrogenase_VnfE_like 63.1 1.1E+02 0.0024 28.7 11.3 138 61-209 180-325 (426)
207 TIGR03427 ABC_peri_uca ABC tra 62.7 1.2E+02 0.0026 27.5 12.1 140 64-241 25-166 (328)
208 PRK11303 DNA-binding transcrip 62.6 56 0.0012 28.8 8.8 86 50-137 179-276 (328)
209 PRK06703 flavodoxin; Provision 62.2 38 0.00082 26.7 6.9 14 160-173 11-24 (151)
210 PRK06849 hypothetical protein; 62.2 55 0.0012 30.2 8.9 90 49-141 3-113 (389)
211 cd06320 PBP1_allose_binding Pe 62.0 46 0.00099 28.4 7.9 87 51-137 123-218 (275)
212 COG4635 HemG Flavodoxin [Energ 61.8 21 0.00046 29.3 5.1 64 63-137 19-90 (175)
213 PRK07308 flavodoxin; Validated 61.7 26 0.00057 27.5 5.8 74 52-136 5-90 (146)
214 PRK07791 short chain dehydroge 61.6 1.1E+02 0.0024 26.7 11.6 75 48-123 4-88 (286)
215 cd01391 Periplasmic_Binding_Pr 61.5 52 0.0011 26.9 8.0 73 64-136 144-218 (269)
216 PRK09739 hypothetical protein; 61.4 24 0.00051 29.4 5.8 58 191-248 24-106 (199)
217 PRK07533 enoyl-(acyl carrier p 61.3 1E+02 0.0023 26.3 12.4 86 46-135 6-97 (258)
218 PF00389 2-Hacid_dh: D-isomer 61.2 28 0.0006 26.8 5.8 95 53-171 1-101 (133)
219 PRK07453 protochlorophyllide o 61.0 1E+02 0.0022 27.4 10.2 70 48-124 4-80 (322)
220 cd01080 NAD_bind_m-THF_DH_Cycl 61.0 30 0.00066 28.3 6.2 58 46-113 40-98 (168)
221 PRK05579 bifunctional phosphop 60.9 42 0.00091 31.5 7.9 34 46-79 184-234 (399)
222 PRK09426 methylmalonyl-CoA mut 60.8 73 0.0016 32.4 9.9 98 63-173 600-705 (714)
223 cd06309 PBP1_YtfQ_like Peripla 60.7 1E+02 0.0023 26.1 10.0 53 93-145 175-233 (273)
224 COG0623 FabI Enoyl-[acyl-carri 60.6 1.2E+02 0.0025 26.6 11.0 157 47-208 3-187 (259)
225 PRK14188 bifunctional 5,10-met 60.6 1E+02 0.0022 27.7 10.0 162 53-239 37-212 (296)
226 PF02310 B12-binding: B12 bind 60.3 26 0.00057 26.2 5.4 68 189-262 16-89 (121)
227 TIGR00521 coaBC_dfp phosphopan 60.3 40 0.00086 31.6 7.6 34 46-79 181-231 (390)
228 PRK06895 putative anthranilate 59.8 94 0.002 25.6 9.1 88 51-156 2-94 (190)
229 TIGR00288 conserved hypothetic 59.8 95 0.0021 25.3 8.8 75 63-145 69-148 (160)
230 PRK06128 oxidoreductase; Provi 59.7 1.2E+02 0.0027 26.5 13.0 87 47-135 52-143 (300)
231 PF02606 LpxK: Tetraacyldisacc 59.5 26 0.00057 31.9 6.1 73 45-117 222-294 (326)
232 PRK08605 D-lactate dehydrogena 59.5 1E+02 0.0022 28.0 10.0 130 98-240 41-212 (332)
233 PRK00170 azoreductase; Reviewe 59.4 23 0.00051 29.2 5.4 26 223-248 81-113 (201)
234 TIGR01327 PGDH D-3-phosphoglyc 59.3 1.2E+02 0.0025 29.6 10.9 162 52-239 1-204 (525)
235 cd06282 PBP1_GntR_like_2 Ligan 59.2 27 0.00058 29.4 5.9 71 65-137 139-214 (266)
236 PLN02616 tetrahydrofolate dehy 59.1 83 0.0018 29.2 9.2 69 162-238 213-284 (364)
237 PF05991 NYN_YacP: YacP-like N 58.9 24 0.00052 28.8 5.2 50 152-204 67-117 (166)
238 PF03808 Glyco_tran_WecB: Glyc 58.6 99 0.0021 25.1 9.7 121 130-261 8-134 (172)
239 cd06315 PBP1_ABC_sugar_binding 58.5 1.2E+02 0.0026 26.1 14.7 175 64-251 21-212 (280)
240 PRK06079 enoyl-(acyl carrier p 58.5 52 0.0011 28.1 7.7 70 46-123 3-79 (252)
241 cd03129 GAT1_Peptidase_E_like 58.3 75 0.0016 26.6 8.4 63 177-243 28-95 (210)
242 PRK07097 gluconate 5-dehydroge 58.2 1.2E+02 0.0025 25.9 11.8 85 47-135 7-96 (265)
243 cd00615 Orn_deC_like Ornithine 58.1 35 0.00075 30.2 6.6 63 48-112 97-164 (294)
244 PRK05568 flavodoxin; Provision 58.0 57 0.0012 25.1 7.2 13 160-172 11-23 (142)
245 cd01740 GATase1_FGAR_AT Type 1 57.9 69 0.0015 27.6 8.3 82 54-145 4-98 (238)
246 cd01976 Nitrogenase_MoFe_alpha 57.6 1.7E+02 0.0037 27.5 12.7 138 60-210 185-332 (421)
247 PRK06484 short chain dehydroge 56.9 1.8E+02 0.0039 27.7 12.3 83 46-135 265-352 (520)
248 cd06313 PBP1_ABC_sugar_binding 56.6 84 0.0018 26.9 8.7 47 93-139 174-220 (272)
249 PRK09271 flavodoxin; Provision 56.6 57 0.0012 26.1 7.1 67 63-136 19-93 (160)
250 TIGR01729 taurine_ABC_bnd taur 56.3 46 0.00099 29.3 7.1 65 44-113 94-158 (300)
251 smart00852 MoCF_biosynth Proba 56.3 19 0.0004 28.0 4.0 51 60-114 18-69 (135)
252 cd01575 PBP1_GntR Ligand-bindi 56.3 78 0.0017 26.6 8.3 75 64-138 137-216 (268)
253 cd00578 L-fuc_L-ara-isomerases 56.2 1.6E+02 0.0035 27.8 11.2 142 61-212 24-199 (452)
254 PF02670 DXP_reductoisom: 1-de 56.1 9.6 0.00021 30.0 2.3 98 133-248 9-112 (129)
255 cd06310 PBP1_ABC_sugar_binding 56.1 1.1E+02 0.0025 25.8 9.4 86 51-138 124-220 (273)
256 PRK14189 bifunctional 5,10-met 56.0 1.4E+02 0.003 26.8 9.9 161 52-238 36-211 (285)
257 cd01543 PBP1_XylR Ligand-bindi 55.8 1.2E+02 0.0026 25.6 9.5 88 50-137 109-209 (265)
258 PRK09186 flagellin modificatio 55.5 1.2E+02 0.0027 25.4 10.1 72 48-123 2-79 (256)
259 PLN02306 hydroxypyruvate reduc 55.4 1.8E+02 0.0039 27.2 12.6 177 49-240 14-248 (386)
260 PRK07765 para-aminobenzoate sy 55.3 1.3E+02 0.0028 25.5 10.1 93 51-156 1-98 (214)
261 PRK12742 oxidoreductase; Provi 55.0 78 0.0017 26.3 8.0 32 47-78 3-35 (237)
262 PRK01355 azoreductase; Reviewe 54.9 33 0.00072 28.6 5.6 55 193-247 26-103 (199)
263 PLN02897 tetrahydrofolate dehy 54.7 1.1E+02 0.0023 28.3 9.1 68 162-237 196-266 (345)
264 PRK06395 phosphoribosylamine-- 54.4 1.8E+02 0.0038 27.6 11.0 85 50-138 2-99 (435)
265 PF02882 THF_DHG_CYH_C: Tetrah 54.4 47 0.001 27.0 6.2 69 162-238 18-89 (160)
266 PF04016 DUF364: Domain of unk 54.1 9.7 0.00021 30.5 2.1 115 47-173 8-130 (147)
267 PLN02409 serine--glyoxylate am 54.1 1.1E+02 0.0024 28.4 9.5 64 173-238 79-147 (401)
268 KOG2882 p-Nitrophenyl phosphat 54.1 51 0.0011 29.8 6.7 89 85-203 38-127 (306)
269 PRK13556 azoreductase; Provisi 54.1 42 0.00091 28.1 6.2 26 224-249 85-117 (208)
270 PF11798 IMS_HHH: IMS family H 54.0 6.4 0.00014 22.9 0.8 16 130-145 15-30 (32)
271 PRK05784 phosphoribosylamine-- 53.8 1.7E+02 0.0038 28.2 11.0 85 51-139 1-104 (486)
272 cd01966 Nitrogenase_NifN_1 Nit 53.8 1.8E+02 0.0039 27.4 10.9 142 61-210 172-332 (417)
273 PRK05568 flavodoxin; Provision 53.7 31 0.00067 26.7 5.0 36 100-136 46-90 (142)
274 cd06288 PBP1_sucrose_transcrip 53.6 1.1E+02 0.0023 25.7 8.8 45 93-137 168-215 (269)
275 cd06350 PBP1_GPCR_family_C_lik 53.5 1.6E+02 0.0035 26.0 10.3 89 162-252 146-242 (348)
276 PRK13243 glyoxylate reductase; 53.5 1.8E+02 0.0038 26.5 11.0 166 51-240 3-216 (333)
277 PRK14176 bifunctional 5,10-met 53.4 1.7E+02 0.0037 26.3 10.2 161 51-236 41-215 (287)
278 cd06326 PBP1_STKc_like Type I 52.9 1.6E+02 0.0035 25.8 14.0 146 101-258 67-221 (336)
279 cd01743 GATase1_Anthranilate_S 52.9 89 0.0019 25.4 7.8 88 54-157 3-94 (184)
280 PRK06139 short chain dehydroge 52.7 1.2E+02 0.0026 27.4 9.3 85 46-135 3-93 (330)
281 PRK06463 fabG 3-ketoacyl-(acyl 52.6 90 0.002 26.4 8.1 82 46-135 3-88 (255)
282 cd06371 PBP1_sensory_GC_DEF_li 52.5 1.9E+02 0.0041 26.5 12.3 137 102-251 66-217 (382)
283 cd02070 corrinoid_protein_B12- 52.0 1.4E+02 0.003 24.9 9.3 79 178-262 82-173 (201)
284 cd06273 PBP1_GntR_like_1 This 51.9 55 0.0012 27.6 6.7 73 64-136 138-215 (268)
285 cd06323 PBP1_ribose_binding Pe 51.8 75 0.0016 26.7 7.5 38 101-138 180-217 (268)
286 TIGR02690 resist_ArsH arsenica 51.8 1.4E+02 0.0031 25.6 9.0 83 178-261 26-135 (219)
287 PF13344 Hydrolase_6: Haloacid 51.7 95 0.002 22.8 7.4 78 61-145 18-98 (101)
288 TIGR00853 pts-lac PTS system, 51.3 95 0.0021 22.7 9.6 77 49-137 2-84 (95)
289 cd06341 PBP1_ABC_ligand_bindin 51.3 69 0.0015 28.4 7.5 64 63-128 151-215 (341)
290 cd05564 PTS_IIB_chitobiose_lic 51.2 95 0.002 22.7 9.1 63 63-137 17-80 (96)
291 PRK00676 hemA glutamyl-tRNA re 50.8 35 0.00077 31.3 5.4 58 177-236 173-234 (338)
292 COG2185 Sbm Methylmalonyl-CoA 50.6 93 0.002 24.9 7.1 61 137-206 31-96 (143)
293 TIGR03566 FMN_reduc_MsuE FMN r 50.6 45 0.00098 27.0 5.6 62 71-132 29-105 (174)
294 PRK08594 enoyl-(acyl carrier p 50.4 1.6E+02 0.0035 25.1 9.8 85 47-135 4-96 (257)
295 cd06300 PBP1_ABC_sugar_binding 50.2 1.3E+02 0.0028 25.4 8.8 73 64-139 146-221 (272)
296 TIGR01459 HAD-SF-IIA-hyp4 HAD- 50.2 1.4E+02 0.003 25.4 8.9 78 57-138 24-105 (242)
297 PRK09590 celB cellobiose phosp 50.2 66 0.0014 24.1 6.0 73 179-261 2-82 (104)
298 COG2014 Uncharacterized conser 50.1 1E+02 0.0023 26.5 7.6 112 131-262 80-198 (250)
299 PF02525 Flavodoxin_2: Flavodo 50.1 7.7 0.00017 32.2 1.0 57 191-247 22-104 (199)
300 TIGR01282 nifD nitrogenase mol 50.1 2.4E+02 0.0052 27.0 12.2 135 60-207 220-364 (466)
301 cd06269 PBP1_glutamate_recepto 50.0 1.6E+02 0.0034 24.8 9.5 113 128-251 95-219 (298)
302 KOG2774 NAD dependent epimeras 49.9 1.2E+02 0.0027 26.7 8.2 207 31-247 31-322 (366)
303 TIGR03590 PseG pseudaminic aci 49.8 81 0.0018 27.7 7.5 78 166-249 22-101 (279)
304 PRK13581 D-3-phosphoglycerate 49.7 1.8E+02 0.004 28.3 10.5 163 51-239 1-205 (526)
305 cd01977 Nitrogenase_VFe_alpha 49.4 2.3E+02 0.0049 26.5 12.4 138 61-210 176-321 (415)
306 TIGR01861 ANFD nitrogenase iro 49.1 2.6E+02 0.0057 27.2 13.0 137 60-207 215-358 (513)
307 cd06308 PBP1_sensor_kinase_lik 49.0 51 0.0011 28.0 6.0 88 50-137 122-218 (270)
308 KOG2862 Alanine-glyoxylate ami 48.9 88 0.0019 28.7 7.4 144 48-201 15-166 (385)
309 COG0715 TauA ABC-type nitrate/ 48.8 55 0.0012 29.1 6.4 64 45-113 131-195 (335)
310 PRK14183 bifunctional 5,10-met 48.7 1.7E+02 0.0037 26.1 9.3 161 52-238 35-210 (281)
311 TIGR02690 resist_ArsH arsenica 48.5 1.3E+02 0.0028 25.9 8.2 68 67-135 51-135 (219)
312 COG0655 WrbA Multimeric flavod 48.4 32 0.00069 28.9 4.5 27 220-246 67-100 (207)
313 PRK08250 glutamine amidotransf 48.1 1.8E+02 0.0039 25.0 10.2 52 51-111 1-54 (235)
314 PRK14738 gmk guanylate kinase; 48.1 1.6E+02 0.0035 24.5 10.3 135 46-201 9-146 (206)
315 PRK06490 glutamine amidotransf 47.6 1.4E+02 0.003 25.8 8.4 94 49-157 6-109 (239)
316 PRK12360 4-hydroxy-3-methylbut 47.4 2.1E+02 0.0045 25.6 9.9 28 50-77 31-58 (281)
317 cd01079 NAD_bind_m-THF_DH NAD 47.4 1.2E+02 0.0026 25.7 7.6 46 162-207 35-92 (197)
318 cd02068 radical_SAM_B12_BD B12 47.3 1.2E+02 0.0027 22.9 8.9 76 62-144 5-84 (127)
319 PRK11480 tauA taurine transpor 47.3 71 0.0015 28.5 6.9 66 43-113 115-180 (320)
320 cd06353 PBP1_BmpA_Med_like Per 47.2 1.9E+02 0.0041 25.0 13.9 134 101-249 56-198 (258)
321 PRK00048 dihydrodipicolinate r 47.2 74 0.0016 27.7 6.8 24 226-249 58-82 (257)
322 PRK10310 PTS system galactitol 47.2 93 0.002 22.7 6.3 26 179-204 3-34 (94)
323 TIGR03590 PseG pseudaminic aci 47.1 92 0.002 27.4 7.5 71 50-124 31-102 (279)
324 cd01741 GATase1_1 Subgroup of 47.1 1.4E+02 0.0031 24.2 8.2 90 54-156 5-103 (188)
325 PRK09739 hypothetical protein; 47.0 53 0.0012 27.3 5.6 50 63-112 24-89 (199)
326 PRK02910 light-independent pro 46.9 1.3E+02 0.0028 29.3 9.0 49 29-81 276-325 (519)
327 PRK13143 hisH imidazole glycer 46.9 1.3E+02 0.0029 25.0 8.0 78 51-144 1-86 (200)
328 PRK03094 hypothetical protein; 46.8 37 0.0008 24.4 3.9 21 188-208 8-28 (80)
329 PRK03619 phosphoribosylformylg 46.8 1.3E+02 0.0028 25.6 8.1 79 52-145 2-95 (219)
330 TIGR01283 nifE nitrogenase mol 46.6 2.6E+02 0.0057 26.5 14.6 139 61-210 211-358 (456)
331 PRK05565 fabG 3-ketoacyl-(acyl 46.5 1E+02 0.0022 25.6 7.5 33 47-79 2-35 (247)
332 TIGR01753 flav_short flavodoxi 46.1 85 0.0018 23.8 6.4 14 160-173 8-21 (140)
333 cd06385 PBP1_NPR_A Ligand-bind 46.1 2.4E+02 0.0052 25.9 10.5 60 190-251 165-226 (405)
334 cd01967 Nitrogenase_MoFe_alpha 46.1 2.5E+02 0.0053 26.0 10.7 139 61-210 174-318 (406)
335 PLN03139 formate dehydrogenase 46.0 1.6E+02 0.0035 27.5 9.1 157 62-239 64-266 (386)
336 PRK07792 fabG 3-ketoacyl-(acyl 45.9 1.8E+02 0.0039 25.7 9.2 89 44-135 6-98 (306)
337 PF13377 Peripla_BP_3: Peripla 45.8 94 0.002 23.9 6.7 73 64-137 30-106 (160)
338 PRK10792 bifunctional 5,10-met 45.8 2.2E+02 0.0049 25.5 10.0 159 52-236 37-210 (285)
339 cd03129 GAT1_Peptidase_E_like 45.7 86 0.0019 26.2 6.8 67 50-123 29-100 (210)
340 cd06294 PBP1_ycjW_transcriptio 45.7 85 0.0018 26.4 6.9 45 93-137 174-221 (270)
341 PF02882 THF_DHG_CYH_C: Tetrah 45.7 57 0.0012 26.6 5.4 57 46-112 32-89 (160)
342 KOG0519 Sensory transduction h 45.6 1.9E+02 0.0042 29.7 10.3 130 27-174 646-783 (786)
343 PLN02253 xanthoxin dehydrogena 45.5 1.4E+02 0.003 25.7 8.3 73 47-123 15-90 (280)
344 PRK12748 3-ketoacyl-(acyl-carr 45.5 1.1E+02 0.0024 25.9 7.6 33 47-79 2-37 (256)
345 PRK05452 anaerobic nitric oxid 45.2 75 0.0016 30.6 7.0 68 191-261 270-344 (479)
346 PF09084 NMT1: NMT1/THI5 like; 44.9 21 0.00045 29.6 2.8 62 42-108 85-146 (216)
347 PF02579 Nitro_FeMo-Co: Dinitr 44.8 43 0.00093 23.7 4.2 45 121-172 49-93 (94)
348 PRK14187 bifunctional 5,10-met 44.8 1.7E+02 0.0037 26.4 8.7 163 52-238 36-213 (294)
349 PF00266 Aminotran_5: Aminotra 44.8 1E+02 0.0022 28.0 7.6 73 176-250 86-168 (371)
350 cd02071 MM_CoA_mut_B12_BD meth 44.8 1.1E+02 0.0024 23.2 6.7 80 48-127 25-104 (122)
351 PRK00676 hemA glutamyl-tRNA re 44.7 51 0.0011 30.3 5.5 62 47-109 171-233 (338)
352 cd06272 PBP1_hexuronate_repres 44.6 74 0.0016 26.8 6.4 48 95-142 165-215 (261)
353 PRK06125 short chain dehydroge 44.5 1.6E+02 0.0036 24.8 8.5 33 47-79 4-37 (259)
354 PRK10653 D-ribose transporter 44.5 1.3E+02 0.0027 26.2 7.9 35 102-136 207-241 (295)
355 PRK11921 metallo-beta-lactamas 44.5 82 0.0018 29.3 7.0 76 181-261 252-340 (394)
356 TIGR00537 hemK_rel_arch HemK-r 44.5 58 0.0012 26.4 5.4 49 165-213 120-169 (179)
357 cd00615 Orn_deC_like Ornithine 44.4 2.2E+02 0.0048 25.0 9.8 31 176-208 97-127 (294)
358 PRK12359 flavodoxin FldB; Prov 44.3 1.3E+02 0.0028 24.7 7.4 87 157-247 7-101 (172)
359 PRK06550 fabG 3-ketoacyl-(acyl 44.3 1.4E+02 0.0031 24.6 8.0 32 48-79 3-35 (235)
360 PF02502 LacAB_rpiB: Ribose/Ga 44.1 1.3E+02 0.0028 23.9 7.1 101 62-172 14-119 (140)
361 PRK06182 short chain dehydroge 44.1 2E+02 0.0044 24.5 12.0 78 49-135 2-83 (273)
362 cd06366 PBP1_GABAb_receptor Li 44.0 2.3E+02 0.005 25.1 13.8 138 102-251 66-216 (350)
363 COG2072 TrkA Predicted flavopr 44.0 45 0.00098 31.7 5.3 51 21-79 154-204 (443)
364 cd06274 PBP1_FruR Ligand bindi 43.9 1.3E+02 0.0028 25.3 7.7 38 101-138 177-217 (264)
365 PRK06015 keto-hydroxyglutarate 43.9 1.6E+02 0.0035 24.9 8.0 32 51-82 5-38 (201)
366 COG2358 Imp TRAP-type uncharac 43.6 1.3E+02 0.0029 27.4 7.9 118 21-145 107-226 (321)
367 cd06295 PBP1_CelR Ligand bindi 43.6 1.1E+02 0.0024 25.9 7.3 76 64-139 146-226 (275)
368 PRK07370 enoyl-(acyl carrier p 43.5 2.1E+02 0.0045 24.4 13.1 86 48-135 4-96 (258)
369 PRK10444 UMP phosphatase; Prov 43.3 1.7E+02 0.0038 25.3 8.5 82 60-155 20-104 (248)
370 TIGR02667 moaB_proteo molybden 43.2 1E+02 0.0022 24.9 6.6 50 61-114 23-75 (163)
371 PRK09271 flavodoxin; Provision 43.2 65 0.0014 25.8 5.4 12 161-172 11-22 (160)
372 cd03145 GAT1_cyanophycinase Ty 43.2 61 0.0013 27.5 5.5 65 50-117 29-98 (217)
373 cd06451 AGAT_like Alanine-glyo 43.1 2.4E+02 0.0053 25.1 9.9 71 165-237 61-133 (356)
374 PRK07060 short chain dehydroge 43.0 1.5E+02 0.0033 24.5 8.0 33 46-78 5-38 (245)
375 cd05212 NAD_bind_m-THF_DH_Cycl 43.0 88 0.0019 24.8 6.0 70 162-239 10-82 (140)
376 PF12261 T_hemolysin: Thermost 43.0 35 0.00076 28.4 3.8 37 100-142 114-150 (179)
377 cd06278 PBP1_LacI_like_2 Ligan 42.9 1.5E+02 0.0032 24.8 8.0 83 51-137 116-213 (266)
378 PF04273 DUF442: Putative phos 42.8 59 0.0013 24.7 4.8 69 51-119 29-104 (110)
379 COG2604 Uncharacterized protei 42.8 1.5E+02 0.0033 29.3 8.5 133 104-261 226-360 (594)
380 TIGR01289 LPOR light-dependent 42.7 2.4E+02 0.0053 25.0 9.9 72 49-124 2-78 (314)
381 CHL00073 chlN photochlorophyll 42.6 90 0.002 30.0 7.0 97 47-155 311-412 (457)
382 PRK04870 histidinol-phosphate 42.5 2.5E+02 0.0055 25.1 10.9 12 197-208 122-133 (356)
383 PLN02409 serine--glyoxylate am 42.5 71 0.0015 29.6 6.3 62 49-111 83-146 (401)
384 cd06290 PBP1_LacI_like_9 Ligan 42.2 1E+02 0.0023 25.9 6.9 45 93-137 167-214 (265)
385 cd08187 BDH Butanol dehydrogen 42.1 66 0.0014 29.8 6.0 72 163-240 16-99 (382)
386 PF08373 RAP: RAP domain; Int 42.1 17 0.00037 23.7 1.5 26 66-91 24-49 (58)
387 PRK07454 short chain dehydroge 42.0 2E+02 0.0044 23.9 10.9 83 50-136 6-93 (241)
388 cd03146 GAT1_Peptidase_E Type 42.0 1.8E+02 0.0039 24.4 8.2 81 162-250 15-101 (212)
389 PRK08945 putative oxoacyl-(acy 41.9 2.1E+02 0.0045 24.0 9.7 75 46-124 8-89 (247)
390 cd06375 PBP1_mGluR_groupII Lig 41.8 2.1E+02 0.0045 27.1 9.5 88 162-251 160-256 (458)
391 TIGR03427 ABC_peri_uca ABC tra 41.8 42 0.00091 30.5 4.5 66 45-115 101-166 (328)
392 PF11731 Cdd1: Pathogenicity l 41.7 22 0.00047 26.4 2.1 38 130-173 16-53 (93)
393 PRK11921 metallo-beta-lactamas 41.7 52 0.0011 30.6 5.2 38 99-136 297-341 (394)
394 KOG2836 Protein tyrosine phosp 41.6 54 0.0012 26.2 4.4 83 23-123 3-90 (173)
395 PRK14166 bifunctional 5,10-met 41.6 2.3E+02 0.0049 25.4 9.0 161 52-237 34-209 (282)
396 cd06267 PBP1_LacI_sugar_bindin 41.6 2E+02 0.0043 23.7 9.4 88 50-137 116-215 (264)
397 cd06314 PBP1_tmGBP Periplasmic 41.6 1E+02 0.0022 26.2 6.8 72 65-138 142-216 (271)
398 cd06271 PBP1_AglR_RafR_like Li 41.4 1.1E+02 0.0025 25.5 7.0 76 64-139 141-221 (268)
399 cd06312 PBP1_ABC_sugar_binding 41.4 1E+02 0.0022 26.1 6.8 46 93-138 174-220 (271)
400 cd06316 PBP1_ABC_sugar_binding 41.3 1.9E+02 0.0041 24.9 8.5 47 92-138 176-222 (294)
401 PRK06484 short chain dehydroge 41.1 2.6E+02 0.0056 26.6 10.1 69 48-123 3-75 (520)
402 PLN02672 methionine S-methyltr 41.1 4.1E+02 0.0089 28.6 12.0 77 172-250 772-861 (1082)
403 COG0075 Serine-pyruvate aminot 41.0 2.3E+02 0.0051 26.5 9.3 62 171-235 73-138 (383)
404 TIGR01140 L_thr_O3P_dcar L-thr 40.7 1.7E+02 0.0037 26.1 8.3 86 135-238 49-135 (330)
405 PRK10727 DNA-binding transcrip 40.6 1.3E+02 0.0027 26.8 7.5 75 64-138 197-276 (343)
406 cd06301 PBP1_rhizopine_binding 40.6 82 0.0018 26.7 6.0 45 93-137 174-220 (272)
407 cd06360 PBP1_alkylbenzenes_lik 40.4 2.5E+02 0.0055 24.5 11.6 85 163-251 121-213 (336)
408 cd06390 PBP1_iGluR_AMPA_GluR1 40.0 3E+02 0.0064 25.2 10.2 167 63-247 15-191 (364)
409 cd06296 PBP1_CatR_like Ligand- 39.9 1E+02 0.0022 26.0 6.5 74 64-137 138-216 (270)
410 PF13662 Toprim_4: Toprim doma 39.9 43 0.00094 23.4 3.5 71 130-207 3-80 (81)
411 PRK14171 bifunctional 5,10-met 39.8 1.9E+02 0.0041 26.0 8.2 162 52-238 36-212 (288)
412 cd03145 GAT1_cyanophycinase Ty 39.8 1.4E+02 0.003 25.3 7.2 84 163-249 13-103 (217)
413 TIGR01457 HAD-SF-IIA-hyp2 HAD- 39.7 1.9E+02 0.004 24.9 8.1 81 61-155 21-105 (249)
414 PRK05866 short chain dehydroge 39.7 80 0.0017 27.8 5.9 36 43-78 33-69 (293)
415 PRK08213 gluconate 5-dehydroge 39.7 53 0.0011 27.9 4.6 79 33-123 3-85 (259)
416 cd06284 PBP1_LacI_like_6 Ligan 39.6 1.7E+02 0.0037 24.4 7.8 73 65-137 137-214 (267)
417 PRK14179 bifunctional 5,10-met 39.5 2.8E+02 0.0061 24.8 12.8 162 52-238 36-211 (284)
418 PRK06196 oxidoreductase; Provi 39.5 2.7E+02 0.0058 24.5 9.6 71 47-124 23-96 (315)
419 PRK07206 hypothetical protein; 39.4 3.1E+02 0.0067 25.3 11.3 66 50-116 2-84 (416)
420 cd06384 PBP1_NPR_B Ligand-bind 39.4 3E+02 0.0066 25.2 12.6 60 190-251 165-226 (399)
421 COG2247 LytB Putative cell wal 39.4 1.4E+02 0.003 27.3 7.2 53 154-208 54-107 (337)
422 PRK08263 short chain dehydroge 39.3 2.5E+02 0.0053 24.1 9.8 81 49-136 2-87 (275)
423 cd06281 PBP1_LacI_like_5 Ligan 39.3 78 0.0017 26.8 5.7 73 64-137 137-214 (269)
424 cd01541 PBP1_AraR Ligand-bindi 39.3 1.3E+02 0.0029 25.4 7.2 73 65-137 142-221 (273)
425 PRK10355 xylF D-xylose transpo 39.0 2.9E+02 0.0062 24.7 13.4 183 49-252 24-235 (330)
426 PRK08248 O-acetylhomoserine am 39.0 3.3E+02 0.0072 25.7 10.3 113 135-259 62-184 (431)
427 COG0436 Aspartate/tyrosine/aro 38.9 2.7E+02 0.0058 26.0 9.5 89 160-250 95-195 (393)
428 TIGR01737 FGAM_synth_I phospho 38.9 1.6E+02 0.0034 25.1 7.4 80 51-145 1-94 (227)
429 cd08551 Fe-ADH iron-containing 38.9 78 0.0017 29.0 5.9 69 164-237 11-89 (370)
430 PRK09082 methionine aminotrans 38.9 3.1E+02 0.0066 25.0 11.9 71 176-249 113-194 (386)
431 cd01121 Sms Sms (bacterial rad 38.8 2.3E+02 0.005 26.3 9.0 59 177-239 109-169 (372)
432 PRK05993 short chain dehydroge 38.7 2.6E+02 0.0055 24.1 10.8 66 49-123 3-71 (277)
433 PF03709 OKR_DC_1_N: Orn/Lys/A 38.7 92 0.002 23.5 5.3 65 190-261 6-74 (115)
434 COG0431 Predicted flavoprotein 38.5 1.3E+02 0.0029 24.7 6.7 39 222-260 61-106 (184)
435 PRK12744 short chain dehydroge 38.5 2.4E+02 0.0052 23.7 8.8 77 46-123 4-85 (257)
436 COG0426 FpaA Uncharacterized f 38.5 1E+02 0.0022 28.9 6.5 94 163-261 229-337 (388)
437 PF03698 UPF0180: Uncharacteri 38.4 55 0.0012 23.5 3.7 37 187-236 7-43 (80)
438 PRK14178 bifunctional 5,10-met 38.3 2.9E+02 0.0063 24.6 10.3 162 52-239 30-206 (279)
439 PRK15424 propionate catabolism 38.2 3.7E+02 0.0079 26.4 10.6 19 228-246 173-191 (538)
440 cd01976 Nitrogenase_MoFe_alpha 38.1 2.9E+02 0.0063 26.0 9.7 97 46-157 296-392 (421)
441 PF03853 YjeF_N: YjeF-related 38.0 88 0.0019 25.4 5.4 36 176-211 23-62 (169)
442 PRK13394 3-hydroxybutyrate deh 37.9 1.6E+02 0.0035 24.7 7.5 32 47-78 4-36 (262)
443 PRK08063 enoyl-(acyl carrier p 37.9 1.8E+02 0.0038 24.3 7.6 31 48-78 2-33 (250)
444 cd06333 PBP1_ABC-type_HAAT_lik 37.7 2.7E+02 0.0059 24.1 12.2 157 92-261 56-221 (312)
445 PRK07856 short chain dehydroge 37.7 1.8E+02 0.0039 24.5 7.6 33 47-79 3-36 (252)
446 TIGR00177 molyb_syn molybdenum 37.6 66 0.0014 25.3 4.6 50 61-114 28-78 (144)
447 PRK01045 ispH 4-hydroxy-3-meth 37.6 3.1E+02 0.0067 24.7 9.5 162 50-234 30-216 (298)
448 TIGR01182 eda Entner-Doudoroff 37.6 1.5E+02 0.0033 25.1 7.0 32 50-81 8-41 (204)
449 PRK12829 short chain dehydroge 37.6 1.6E+02 0.0034 24.8 7.3 34 46-79 7-41 (264)
450 TIGR01755 flav_wrbA NAD(P)H:qu 37.5 1.3E+02 0.0028 25.0 6.5 36 226-261 66-112 (197)
451 PRK10014 DNA-binding transcrip 37.5 1.3E+02 0.0028 26.6 7.0 25 101-125 242-266 (342)
452 PRK07114 keto-hydroxyglutarate 37.4 2.6E+02 0.0055 24.1 8.4 141 51-203 16-183 (222)
453 TIGR01501 MthylAspMutase methy 37.3 1E+02 0.0022 24.4 5.4 56 139-203 22-82 (134)
454 PF01276 OKR_DC_1: Orn/Lys/Arg 37.3 51 0.0011 31.2 4.4 73 48-123 104-195 (417)
455 cd06451 AGAT_like Alanine-glyo 37.3 99 0.0021 27.7 6.2 62 48-111 72-133 (356)
456 COG1497 Predicted transcriptio 37.2 57 0.0012 28.6 4.2 63 130-204 190-252 (260)
457 cd01979 Pchlide_reductase_N Pc 37.1 1.2E+02 0.0026 28.2 6.9 95 46-155 272-366 (396)
458 TIGR00640 acid_CoA_mut_C methy 37.0 1.7E+02 0.0037 22.8 6.8 94 49-144 29-122 (132)
459 PRK08594 enoyl-(acyl carrier p 37.0 1.8E+02 0.0039 24.8 7.6 15 190-204 22-36 (257)
460 cd08170 GlyDH Glycerol dehydro 36.9 76 0.0017 28.9 5.5 80 163-246 10-95 (351)
461 cd05212 NAD_bind_m-THF_DH_Cycl 36.9 65 0.0014 25.5 4.4 78 46-137 24-102 (140)
462 COG0436 Aspartate/tyrosine/aro 36.8 54 0.0012 30.6 4.5 72 49-124 112-195 (393)
463 PRK14186 bifunctional 5,10-met 36.8 3E+02 0.0064 24.9 9.0 148 66-239 54-212 (297)
464 TIGR01286 nifK nitrogenase mol 36.7 3.4E+02 0.0073 26.5 10.0 138 60-208 234-393 (515)
465 PF00633 HHH: Helix-hairpin-he 36.6 27 0.0006 20.0 1.6 11 134-144 19-29 (30)
466 cd06280 PBP1_LacI_like_4 Ligan 36.6 92 0.002 26.3 5.7 46 93-138 163-211 (263)
467 PRK09072 short chain dehydroge 36.5 2.5E+02 0.0053 23.8 8.4 84 48-135 3-89 (263)
468 PLN02522 ATP citrate (pro-S)-l 36.5 4.5E+02 0.0098 26.3 14.3 172 72-259 56-255 (608)
469 PRK10423 transcriptional repre 36.4 1.8E+02 0.0039 25.5 7.7 45 93-137 226-273 (327)
470 COG1879 RbsB ABC-type sugar tr 36.4 3E+02 0.0065 24.2 13.9 139 100-250 89-241 (322)
471 cd06352 PBP1_NPR_GC_like Ligan 36.3 3.2E+02 0.007 24.6 10.5 88 162-251 123-218 (389)
472 PRK07904 short chain dehydroge 36.3 2.7E+02 0.0058 23.7 12.2 85 49-136 7-97 (253)
473 cd06311 PBP1_ABC_sugar_binding 36.3 1E+02 0.0023 26.1 6.0 50 93-143 176-226 (274)
474 PRK09701 D-allose transporter 36.3 2E+02 0.0043 25.3 8.0 43 95-137 209-252 (311)
475 PRK10703 DNA-binding transcrip 36.2 1.3E+02 0.0027 26.7 6.7 75 64-138 199-278 (341)
476 PRK13146 hisH imidazole glycer 36.1 2.2E+02 0.0047 23.9 7.8 81 51-145 2-93 (209)
477 PRK06171 sorbitol-6-phosphate 36.1 1.9E+02 0.0042 24.5 7.7 33 47-79 6-39 (266)
478 cd00609 AAT_like Aspartate ami 36.0 2.9E+02 0.0064 24.0 9.2 61 176-238 81-142 (350)
479 TIGR01278 DPOR_BchB light-inde 36.0 4.1E+02 0.0089 25.7 13.8 183 56-262 171-390 (511)
480 cd02067 B12-binding B12 bindin 35.8 1E+02 0.0022 23.1 5.2 79 48-126 25-103 (119)
481 PRK07550 hypothetical protein; 35.7 3.4E+02 0.0074 24.6 10.2 32 177-210 113-144 (386)
482 cd01574 PBP1_LacI Ligand-bindi 35.7 2E+02 0.0043 24.1 7.6 85 50-137 116-212 (264)
483 TIGR02026 BchE magnesium-proto 35.6 2.9E+02 0.0064 26.5 9.5 111 58-173 21-137 (497)
484 PRK09526 lacI lac repressor; R 35.4 94 0.002 27.5 5.7 37 101-137 239-278 (342)
485 PRK08105 flavodoxin; Provision 35.3 1.8E+02 0.004 23.0 6.8 64 63-137 20-95 (149)
486 PRK00087 4-hydroxy-3-methylbut 35.3 3.5E+02 0.0076 27.1 10.2 170 50-250 30-231 (647)
487 PF13344 Hydrolase_6: Haloacid 35.3 71 0.0015 23.5 4.1 40 162-204 17-58 (101)
488 COG0683 LivK ABC-type branched 35.3 3.2E+02 0.0069 24.8 9.3 138 101-251 77-227 (366)
489 cd06533 Glyco_transf_WecG_TagA 35.0 2.4E+02 0.0053 22.8 9.1 120 130-261 6-132 (171)
490 TIGR01141 hisC histidinol-phos 34.8 3.3E+02 0.0071 24.2 9.3 32 177-210 94-125 (346)
491 COG5426 Uncharacterized membra 34.8 33 0.00071 29.1 2.4 47 59-110 31-77 (254)
492 PRK13479 2-aminoethylphosphona 34.6 2E+02 0.0044 25.8 7.9 62 49-111 79-140 (368)
493 PRK06719 precorrin-2 dehydroge 34.5 51 0.0011 26.5 3.5 34 46-79 9-42 (157)
494 PRK12827 short chain dehydroge 34.5 2.7E+02 0.0058 23.0 8.6 89 48-136 4-97 (249)
495 PF02401 LYTB: LytB protein; 34.5 1.9E+02 0.0041 25.8 7.4 74 113-206 12-91 (281)
496 TIGR02329 propionate_PrpR prop 34.3 4E+02 0.0087 26.0 10.2 19 228-246 163-181 (526)
497 TIGR01754 flav_RNR ribonucleot 34.3 1.1E+02 0.0024 23.6 5.4 33 100-135 48-88 (140)
498 cd08178 AAD_C C-terminal alcoh 34.3 56 0.0012 30.5 4.2 54 178-234 21-84 (398)
499 PRK14194 bifunctional 5,10-met 34.2 3.5E+02 0.0077 24.4 9.2 163 52-239 37-213 (301)
500 PRK06225 aspartate aminotransf 34.2 3.1E+02 0.0068 24.8 9.1 32 177-210 106-137 (380)
No 1
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=100.00 E-value=2.9e-39 Score=283.68 Aligned_cols=209 Identities=21% Similarity=0.171 Sum_probs=182.0
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC-
Q 024773 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT- 126 (262)
Q Consensus 48 l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~- 126 (262)
+.|++||||||..+...+.+.|+++|++++.+|+++++|..+...+...+.++.+||||||||+|||++|++.+.+.+.
T Consensus 1 ~~g~~vlvTRp~~~~~~l~~~l~~~G~~~~~~P~i~i~p~~~~~~~~~~l~~l~~~d~iifTS~naV~~~~~~l~~~~~~ 80 (255)
T PRK05752 1 MSGWRLLLTRPAEECAALAASLAEAGIFSSSLPLLAIEPLPETPEQRALLLELDRYCAVIVVSKPAARLGLELLDRYWPQ 80 (255)
T ss_pred CCCCEEEECCcHHHHHHHHHHHHHcCCCEEEcCcEEEeeCCCCHHHHHHHhcCCCCCEEEEECHHHHHHHHHHHHhhCCC
Confidence 4699999999999999999999999999999999999998776666677778899999999999999999999876554
Q ss_pred -CCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHH--hhhC-CCCccEEEEEccCCChhhHHHHHHhCCC
Q 024773 127 -PNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASE--LPKN-GKKKCTVLYPASAKASNEIEEGLSNRGF 202 (262)
Q Consensus 127 -~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~--l~~~-~~~g~~vL~~~g~~~~~~L~~~L~~~G~ 202 (262)
.+.+++|||++|+++|+++ |+.++++|+.+++++|++. +... ..+++++|++||+.+++.|.+.|++.|+
T Consensus 81 ~~~~~~~aVG~~Ta~al~~~------G~~~~~~p~~~~se~Ll~~~~l~~~~~~~~~~vLi~rg~~~r~~L~~~L~~~G~ 154 (255)
T PRK05752 81 PPQQPWFSVGAATAAILQDY------GLDVSYPEQGDDSEALLALPALRQALAVPDPRVLIMRGEGGRELLAERLREQGA 154 (255)
T ss_pred CcCCEEEEECHHHHHHHHHc------CCCcccCCCCCCcHHHHhChhhhccccCCCCEEEEEccCccHHHHHHHHHHCCC
Confidence 3689999999999999999 9999988999999999976 3332 2367899999999999999999999999
Q ss_pred eeeEEeeeccccCCCChHHHHHHc--CCCCEEEEeCHHHHHHHHHHhcccC--CCCCeEEEECC
Q 024773 203 EVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVASPSAVRSWVNLISDTE--QWSNSVACIAG 262 (262)
Q Consensus 203 ~v~~i~vY~~~~~~~~~~~~~~~l--~~~d~ivFtS~s~~~~~~~~~~~~~--~~~~~i~~IGp 262 (262)
.|+++++|++.+.......+.+.+ +.+|+|+|||++++++|++.++... ..+.+++||||
T Consensus 155 ~v~~~~vY~~~~~~~~~~~~~~~~~~~~~d~v~ftS~~~~~~~~~~~~~~~~~~~~~~~~~ig~ 218 (255)
T PRK05752 155 SVDYLELYRRCLPDYPAGTLLQRVEAERLNGLVVSSGQGFEHLQQLAGADWPELARLPLFVPSP 218 (255)
T ss_pred EEeEEEEEeecCCCCCHHHHHHHHHhCCCCEEEECCHHHHHHHHHHhChhHHHhcCceEEEeCH
Confidence 999999999987765555555544 3799999999999999999986532 45789999996
No 2
>PRK08811 uroporphyrinogen-III synthase; Validated
Probab=100.00 E-value=1.3e-38 Score=281.01 Aligned_cols=210 Identities=17% Similarity=0.192 Sum_probs=178.5
Q ss_pred CCCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc
Q 024773 45 SASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA 124 (262)
Q Consensus 45 ~~~l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~ 124 (262)
..++.|++||||||..+.+.+.+.|++.|++++.+|++++++..+ ..+...+.++.+||||||||+|||++|+......
T Consensus 13 ~~~l~g~~IlvTRp~~q~~~l~~~L~~~G~~~~~~P~i~i~~~~~-~~~~~~l~~l~~~d~iiftS~NAV~~~~~~~~~~ 91 (266)
T PRK08811 13 ATADAAWTLISLRPSGEHAPLRRAVARHGGRLLALSPWRLQRLDT-AQARDALRQALAAPIVVFTSPAAVRAAHRLLPLQ 91 (266)
T ss_pred CcCCCCCEEEEeCCHHHHHHHHHHHHHCCCcEEEcCceeecCCCc-hhHHHHHhhcccCCEEEEECHHHHHHHHHHhccc
Confidence 467999999999999999999999999999999999999998754 3445566778899999999999999998644333
Q ss_pred CCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHHhCCCee
Q 024773 125 GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEV 204 (262)
Q Consensus 125 ~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v 204 (262)
...+.+++|||++|+++|+++ |+.++++|+.+++|+|++. ......|++||+++|+.++++|.+.|.++|+.|
T Consensus 92 ~~~~~~~~AVG~~TA~aL~~~------G~~~~~~P~~~~se~Ll~l-~~~~~~g~~vLi~rg~~gr~~L~~~L~~~G~~V 164 (266)
T PRK08811 92 RPARAHWLSVGEGTARALQAC------GIDEVVRPTRMDSEGLLAL-PLAQAPLQAVGLITAPGGRGLLAPTLQQRGARI 164 (266)
T ss_pred CccCCeEEEECHHHHHHHHHc------CCCceeCCCCCCcHHHHhC-hhhhCCCCEEEEEeCCCcHHHHHHHHHHCCCEE
Confidence 345889999999999999999 9999999999999999987 222236799999999999999999999999999
Q ss_pred eEEeeeccccCCCChHHHHHHc--CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEECC
Q 024773 205 VRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIAG 262 (262)
Q Consensus 205 ~~i~vY~~~~~~~~~~~~~~~l--~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IGp 262 (262)
+++++|++.+.....+.+...+ ..+|+++|||++++++|++.++... +.+.+++||||
T Consensus 165 ~~~~vY~~~~~~~~~~~~~~l~~~~~~d~i~ftS~sav~~f~~~l~~~~~~~l~~~~~v~is~ 227 (266)
T PRK08811 165 LRADVYQRVPLRLRASTLAALSRAAPRSVLALSSAEALTLILQQLPDALRRALQQRPVVASSD 227 (266)
T ss_pred eEEEEEeeeCCCCCHHHHHHHHHhCCCCEEEEChHHHHHHHHHHhhhhHHHHHhCCCEEEeCH
Confidence 9999999988765543332222 3799999999999999999987531 45788999996
No 3
>COG1587 HemD Uroporphyrinogen-III synthase [Coenzyme metabolism]
Probab=100.00 E-value=2.7e-37 Score=270.24 Aligned_cols=204 Identities=33% Similarity=0.435 Sum_probs=183.5
Q ss_pred CCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCC--
Q 024773 50 NPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTP-- 127 (262)
Q Consensus 50 g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~-- 127 (262)
||+|+|||++.+.+++.+.|++.|+++..+|++++.+..+ ++..+..+..||||+|||+|||++|++.+...+.+
T Consensus 1 ~~~vlvtR~~~~~~~~~~~l~~~G~~~~~~P~i~~~~~~~---l~~~l~~l~~~d~vvfTS~~av~~~~~~l~~~~~~~~ 77 (248)
T COG1587 1 GMRVLVTRPREQAEELAALLRKAGAEPLELPLIEIEPLPD---LEVALEDLDSADWVVFTSPNAVRFFFEALKEQGLDAL 77 (248)
T ss_pred CcEEEEeCchhhhHHHHHHHHhCCCcceeecceeeecchh---HHHHHhccccCCEEEEECHHHHHHHHHHHHhhccccc
Confidence 7899999999999999999999999999999999998654 55666677779999999999999999999887643
Q ss_pred -CcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHHhCCCeeeE
Q 024773 128 -NVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVR 206 (262)
Q Consensus 128 -~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~ 206 (262)
+.+++|||++|+++|+++ |+.++++|+++++++++..+.+....++++|+++|+.+++.|.+.|.++|+.|.+
T Consensus 78 ~~~~i~aVG~~Ta~~l~~~------G~~~~~~p~~~~~~~l~~~l~~~~~~~~~vl~~~~~~~r~~l~~~L~~~G~~v~~ 151 (248)
T COG1587 78 KNKKIAAVGEKTAEALRKL------GIKVDFIPEDGDSEGLLEELPELLKGGKRVLILRGNGGREVLEEKLEERGAEVRE 151 (248)
T ss_pred ccCeEEEEcHHHHHHHHHh------CCCCCcCCCccchHHHHHHhhhhccCCCeEEEEcCCCchHHHHHHHHhCCCEEEE
Confidence 789999999999999999 9999999999999999999998875579999999999999999999999999999
Q ss_pred EeeeccccCCCChHHHHHHc--CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEECC
Q 024773 207 LNTYTTEPVHHVDQTVLKQA--LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIAG 262 (262)
Q Consensus 207 i~vY~~~~~~~~~~~~~~~l--~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IGp 262 (262)
+.+|++.+.....+.+.+.+ .++|+|+|||+++|++|+..++... +.+.+++||||
T Consensus 152 ~~~Y~~~~~~~~~~~~~~~~~~~~~d~v~ftS~~~v~~~~~~~~~~~~~~~~~~~v~~IG~ 212 (248)
T COG1587 152 VEVYRTEPPPLDEATLIELLKLGEVDAVVFTSSSAVRALLALAPESGIEFLERKRVASIGP 212 (248)
T ss_pred EeeeeecCCCccHHHHHHHHHhCCCCEEEEeCHHHHHHHHHHccccchhHhhCceEEEecH
Confidence 99999999998744333333 5999999999999999999998764 24789999997
No 4
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=100.00 E-value=9.9e-37 Score=281.96 Aligned_cols=211 Identities=19% Similarity=0.200 Sum_probs=180.1
Q ss_pred CCCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC--CCccEEEEeCHHHHHHHHHHHH
Q 024773 45 SASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD--TIFDWIIITSPEAGSVFLEAWK 122 (262)
Q Consensus 45 ~~~l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l--~~~d~IiFTS~~aV~~f~~~l~ 122 (262)
.+||.|++|+|||+. +...+.+.|+++|++++.+|+++++|..+...++..+..+ +.||||||||+|+|++|++.+.
T Consensus 6 ~~pL~g~rIlvtr~~-~a~~la~~L~~~G~~~~~~P~i~i~~~~~~~~~~~~~~~l~~~~~d~vvfTS~ngv~~~~~~l~ 84 (381)
T PRK07239 6 SAPLAGFTVGVTAAR-RAEELAALLERRGARVVHAPALRIVPLADDDELRAATRALIAAPPDIVVATTGIGFRGWVEAAD 84 (381)
T ss_pred CCCCCCcEEEEeccC-CHHHHHHHHHHcCCeEEEecCEEEecCCCcHHHHHHHHHHHcCCCCEEEEeChHHHHHHHHHHH
Confidence 489999999999986 7899999999999999999999999987655566666554 6899999999999999999887
Q ss_pred HcCC--------CCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccC-----CC
Q 024773 123 EAGT--------PNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASA-----KA 189 (262)
Q Consensus 123 ~~~~--------~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~-----~~ 189 (262)
+.+. .+.+++|||++|+++|+++ |+.++++|+.+++++|++.+.....+|+++|++++. ..
T Consensus 85 ~~~~~~~~~~~l~~~~i~aVG~~Ta~aL~~~------G~~~~~~p~~~~~e~L~~~l~~~~~~g~~vli~~~~~~~~~~~ 158 (381)
T PRK07239 85 GWGLADELLEALSSARLLARGPKATGAIRAA------GLREEWSPASESSAEVLEYLLEEGVAGKRIAVQLHGATDEWEP 158 (381)
T ss_pred HcCChHHHHHHHcCCeEEEECccHHHHHHHc------CCCCccCCCCCccHHHHHHHhcCCCCCCEEEEEcCCCccccCc
Confidence 6653 3789999999999999999 999999999999999999988765678999998766 44
Q ss_pred hhhHHHHHHhCCCeeeEEeeeccccCCCCh--HHHHHHcC--CCCEEEEeCHHHHHHHHHHhcccC---------CCCCe
Q 024773 190 SNEIEEGLSNRGFEVVRLNTYTTEPVHHVD--QTVLKQAL--SIPVVAVASPSAVRSWVNLISDTE---------QWSNS 256 (262)
Q Consensus 190 ~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~--~~~~~~l~--~~d~ivFtS~s~~~~~~~~~~~~~---------~~~~~ 256 (262)
+++|.+.|++.|+.|+++++|++.+..... .++.+.+. .+|+|+|||+++|++|++.++... ..+++
T Consensus 159 ~~~L~~~L~~~G~~V~~~~vY~~~~~~~~~~~~~~~~~l~~~~~d~v~FtS~stv~~f~~~l~~~~~~~~~~~~~~~~~~ 238 (381)
T PRK07239 159 LPEFLEALRAAGAEVVPVPVYRWVPPPDPGPLDRLVDAIASRGLDAVTFTSAPAVAALLERAREMGLLDQLLAALRTDVL 238 (381)
T ss_pred hHHHHHHHHHCCCEEEEeCcEEEcCCCChhHHHHHHHHHHcCCccEEEEcCHHHHHHHHHHHHHcCChHHHHHhhccCCE
Confidence 578999999999999999999998764432 23444443 799999999999999999987542 24678
Q ss_pred EEEECC
Q 024773 257 VACIAG 262 (262)
Q Consensus 257 i~~IGp 262 (262)
++||||
T Consensus 239 i~aIGp 244 (381)
T PRK07239 239 AACVGP 244 (381)
T ss_pred EEEECH
Confidence 999997
No 5
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=100.00 E-value=1.9e-36 Score=263.36 Aligned_cols=201 Identities=19% Similarity=0.163 Sum_probs=168.0
Q ss_pred CeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CCCCc
Q 024773 51 PKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GTPNV 129 (262)
Q Consensus 51 ~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~-~~~~~ 129 (262)
|+||+|||..+...+.+.|+++|++++.+|++++++.++. ....+ .+.||||||||+|||++|.+..... .+.+.
T Consensus 1 m~VLvTRp~~~~~~l~~~L~~~G~~~~~~P~i~i~~~~~~--~~~~l--~~~~d~iifTS~naV~~~~~~~~~~~~~~~~ 76 (240)
T PRK09189 1 MRVLVTRPEPAAERTAARLRAMGHEPVLLPLSRPVHDVAA--AFTAL--SEPHGAIAVTSAEAVRHLAALGERLLPHLAL 76 (240)
T ss_pred CeEEEECCCCchHHHHHHHHHCCCceEEecccccccChhh--hhhhh--cCCcCEEEEECHHHHHHHHhcchhhHHhcCC
Confidence 6899999999999999999999999999999999876421 11222 2468999999999999987642221 12478
Q ss_pred EEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHHhCCCeeeEEee
Q 024773 130 RIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNT 209 (262)
Q Consensus 130 ~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~v 209 (262)
+++|||++|+++|+++ |+.. +.|..+++++|++.+.....+++++|++||+.++++|.+.|+++|+.|+++++
T Consensus 77 ~~~aVG~~Ta~~l~~~------G~~~-~~~~~~~~e~L~~~~~~~~~~~~~vL~~rg~~~r~~l~~~L~~~G~~v~~~~v 149 (240)
T PRK09189 77 PLFAVGEATAEAAREL------GFRH-VIEGGGDGVRLAETVAAALAPTARLLYLAGRPRAPVFEDRLAAAGIPFRVAEC 149 (240)
T ss_pred eEEEEcHHHHHHHHHc------CCCC-CcCCCCCHHHHHHHHHHhcCCCCcEEEeccCcccchhHHHHHhCCCeeEEEEE
Confidence 9999999999999999 9984 56778999999999876544679999999999999999999999999999999
Q ss_pred eccccCCCChHHHHHHcC--CCCEEEEeCHHHHHHHHHHhcccC----CCCCeEEEECC
Q 024773 210 YTTEPVHHVDQTVLKQAL--SIPVVAVASPSAVRSWVNLISDTE----QWSNSVACIAG 262 (262)
Q Consensus 210 Y~~~~~~~~~~~~~~~l~--~~d~ivFtS~s~~~~~~~~~~~~~----~~~~~i~~IGp 262 (262)
|++.+......++.+.+. ++|+|+||||+++++|++.++... +.+.+++||||
T Consensus 150 Y~~~~~~~~~~~~~~~l~~~~~d~i~f~S~~~~~~f~~~~~~~~~~~~l~~~~~v~Ig~ 208 (240)
T PRK09189 150 YDMLPVMYSPATLSAILGGAPFDAVLLYSRVAARRFFALMRLSIAPPADEKTRFLCLSA 208 (240)
T ss_pred EEeecCCCChHHHHHHHhcCCCCEEEEeCHHHHHHHHHHHhhhcCcccccccCeEEeCH
Confidence 999987766555555553 799999999999999999986432 35788999996
No 6
>PRK05928 hemD uroporphyrinogen-III synthase; Reviewed
Probab=100.00 E-value=1.3e-34 Score=251.38 Aligned_cols=205 Identities=26% Similarity=0.326 Sum_probs=177.6
Q ss_pred CeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc---CCC
Q 024773 51 PKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA---GTP 127 (262)
Q Consensus 51 ~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~---~~~ 127 (262)
|+||+||+......+.+.|+++|++++.+|++++++.+.... ...+..+..||+|+|||++||++|++.+.+. ...
T Consensus 2 ~~ilitr~~~~~~~l~~~l~~~G~~v~~~p~~~~~~~~~~~~-~~~~~~~~~~d~iiftS~~av~~~~~~~~~~~~~~~~ 80 (249)
T PRK05928 2 MKILVTRPSPKAEELVELLRELGFVALHFPLIEIEPGRQLPQ-LAAQLAALGADWVIFTSKNAVEFLLSALKKKKLKWPK 80 (249)
T ss_pred CEEEEeCCHHHHHHHHHHHHHcCCCEEEeccEEEecCCCcCh-HHHHhhCCCCCEEEEECHHHHHHHHHHHHhcCcCCCC
Confidence 799999999999999999999999999999999999865433 3344467899999999999999999988732 234
Q ss_pred CcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHHhCCCeeeEE
Q 024773 128 NVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRL 207 (262)
Q Consensus 128 ~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i 207 (262)
+.+++|||++|+++|+++ |+.++++|+.++.+++++.|.+....|+++|+++|+.+++.|.+.|++.|+.|.++
T Consensus 81 ~~~~~avG~~Ta~~l~~~------G~~~~~~~~~~~~~~l~~~l~~~~~~~~~ili~~~~~~~~~l~~~L~~~G~~v~~~ 154 (249)
T PRK05928 81 NKKYAAIGEKTALALKKL------GGKVVFVPEDGESSELLLELPELLLKGKRVLYLRGNGGREVLGDTLEERGAEVDEC 154 (249)
T ss_pred CCEEEEECHHHHHHHHHc------CCCccccCCCCcChHHHHhChhhhcCCCEEEEECCCCCHHHHHHHHHHCCCEEeEE
Confidence 789999999999999999 99999999999999999999887456899999999999999999999999999999
Q ss_pred eeeccccCCCChHHHHHHc--CCCCEEEEeCHHHHHHHHHHhcccC----CCCCeEEEECC
Q 024773 208 NTYTTEPVHHVDQTVLKQA--LSIPVVAVASPSAVRSWVNLISDTE----QWSNSVACIAG 262 (262)
Q Consensus 208 ~vY~~~~~~~~~~~~~~~l--~~~d~ivFtS~s~~~~~~~~~~~~~----~~~~~i~~IGp 262 (262)
++|++.+...........+ ..+|+|+|||+++|++|++.+.... ..+.+++||||
T Consensus 155 ~~Y~~~~~~~~~~~~~~~~~~~~~d~ivftS~~~v~~~~~~~~~~~~~~~~~~~~~~aiG~ 215 (249)
T PRK05928 155 EVYERVPPKLDGAELLARLQSGEVDAVIFTSPSTVRAFFSLAPELGRREWLLSCKAVVIGE 215 (249)
T ss_pred EEEEeeCCCCChHHHHHHHHhCCCCEEEECCHHHHHHHHHHhcccchhHHHhCCeEEEeCH
Confidence 9999988765443333322 4899999999999999999987653 34789999996
No 7
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=100.00 E-value=3.4e-34 Score=280.10 Aligned_cols=208 Identities=20% Similarity=0.193 Sum_probs=177.7
Q ss_pred CCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCC
Q 024773 49 SNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPN 128 (262)
Q Consensus 49 ~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~ 128 (262)
.+++||||||..+...+.+.|+++|++++.+|+++++|..+...+...+..+..||||||||+|||++|++.+......+
T Consensus 2 ~~~~VLVTRp~~qa~~la~~L~~~G~~vi~~Pli~i~p~~~~~~l~~~l~~L~~yd~iIFTS~nAV~~~~~~l~~~~~~~ 81 (656)
T PRK06975 2 RAFTVVVTRPDGQSAALAAQLAAAGLDVLDFPLLDIAPVADDAPLRAALARLSDYALVVFVSPNAVDRALARLDAIWPHA 81 (656)
T ss_pred CCCEEEEeCcHhHHHHHHHHHHHcCCCEEEcccEEeeCCCChHHHHHHHHhCCCCCEEEEECHHHHHHHHHHHHhhCccC
Confidence 47899999999999999999999999999999999999876666777777889999999999999999999887654457
Q ss_pred cEEEEeChhHHHHHHHhhhhcCCCCceeec------------CCCCCHHHHHHHhhhCC--CCccEEEEEccCCChhhHH
Q 024773 129 VRIGVVGAGTASIFEEVIQSSKCSLDVAFS------------PSKATGKILASELPKNG--KKKCTVLYPASAKASNEIE 194 (262)
Q Consensus 129 ~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~------------p~~~t~e~L~~~l~~~~--~~g~~vL~~~g~~~~~~L~ 194 (262)
++++|||++|+++|+++ |+.++++ |..+++|+|++.+.... .+|++||+++|+++++.|.
T Consensus 82 ~~i~AVG~~Ta~aL~~~------Gi~~~~~~~~~P~~~~~~p~~~~~se~Ll~~l~~~~~~~~g~rVLi~rG~~gr~~L~ 155 (656)
T PRK06975 82 LPVAVVGPGSVAALARH------GIAAPAHRVIAPDAPADGGEARYDSEALFAEIDAAFGALAGKRVLIVRGDGGREWLA 155 (656)
T ss_pred CeEEEECHHHHHHHHHc------CCCCceeeccccccccCCCCCccchHHHHHhHHHhccCCCCCEEEEEcCCCCcHHHH
Confidence 89999999999999999 9998876 46689999999988754 5789999999999999999
Q ss_pred HHHHhCCCeeeEEeeeccccCCCChH---HHHHHc-CCCCEEEEeCHHHHHHHHHHhccc----C---CCCCeEEEECC
Q 024773 195 EGLSNRGFEVVRLNTYTTEPVHHVDQ---TVLKQA-LSIPVVAVASPSAVRSWVNLISDT----E---QWSNSVACIAG 262 (262)
Q Consensus 195 ~~L~~~G~~v~~i~vY~~~~~~~~~~---~~~~~l-~~~d~ivFtS~s~~~~~~~~~~~~----~---~~~~~i~~IGp 262 (262)
+.|.+.|+.|+++++|++..+..... .+.+.+ +.+|+|+|||+++|++|++.+..+ . +.+.+++||||
T Consensus 156 ~~L~~~Ga~V~~v~vY~~~~~~~~~~~~~~~~~~l~~~idav~fTS~s~v~~f~~la~~~l~~~~~~~l~~~~ivaIgp 234 (656)
T PRK06975 156 ERLREAGAEVELVEAYRRVVPEPSIGAWERVHALLSGAPHAWLLTSSEAVRNLDELARAHLNPAEIDALKHAPLVAPHA 234 (656)
T ss_pred HHHHHCCCEEEEEeEEEeeCCCcchhHHHHHHHHHhCCCcEEEECCHHHHHHHHHHHHhhcCHHHHHHHhCCeEEEeCH
Confidence 99999999999999999765433221 222233 369999999999999999984321 1 45789999996
No 8
>cd06578 HemD Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in the human uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria, a recessive inborn error of metabolism also known as Gunther disease.
Probab=100.00 E-value=9.8e-33 Score=237.60 Aligned_cols=202 Identities=31% Similarity=0.432 Sum_probs=176.7
Q ss_pred EEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc---CCCCc
Q 024773 53 VVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA---GTPNV 129 (262)
Q Consensus 53 VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~---~~~~~ 129 (262)
||+||+....+.+.+.|+++|+++..+|+|++++. +...+...+..+..+|+|+|||+++|++|++.+... .+.+.
T Consensus 1 iLi~r~~~~~~~l~~~L~~~G~~~~~~p~~~~~~~-~~~~~~~~~~~~~~~~~iiftS~~av~~~~~~~~~~~~~~~~~~ 79 (239)
T cd06578 1 VLVTRPRPQADELAALLEALGAEVLELPLIEIEPL-DDAELDAALADLDEYDWLIFTSPNAVEAFFEALEELGLRALAGL 79 (239)
T ss_pred CEecCchHHhHHHHHHHHHcCCcEEEeeeEEEecC-ChHHHHHHHHhcCCCCEEEEECHHHHHHHHHHHHhhCCccccCC
Confidence 68999998899999999999999999999999987 545556666677789999999999999999988764 34689
Q ss_pred EEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHHhCCCeeeEEee
Q 024773 130 RIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNT 209 (262)
Q Consensus 130 ~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~v 209 (262)
+++|||++|+++|+++ |+.+++.|+.+++++|++.+.+....++++|+++|+.+++.|.+.|++.|+.|.++++
T Consensus 80 ~~~avG~~Ta~~l~~~------g~~~~~~~~~~~~~~L~~~i~~~~~~~~~il~~~g~~~~~~l~~~L~~~g~~v~~~~~ 153 (239)
T cd06578 80 KIAAVGPKTAEALREA------GLTADFVPEEGDSEGLLELLELQDGKGKRILRPRGGRAREDLAEALRERGAEVDEVEV 153 (239)
T ss_pred EEEEECHHHHHHHHHc------CCCceeCCCccCHHHHHHHHHhcCCCCCEEEEEcCcchhHHHHHHHHHCCCEEEEEEE
Confidence 9999999999999999 9999998889999999999998744679999999999999999999999999999999
Q ss_pred eccccCCCChHHHHHHcC--CCCEEEEeCHHHHHHHHHHhccc---CCCCCeEEEECC
Q 024773 210 YTTEPVHHVDQTVLKQAL--SIPVVAVASPSAVRSWVNLISDT---EQWSNSVACIAG 262 (262)
Q Consensus 210 Y~~~~~~~~~~~~~~~l~--~~d~ivFtS~s~~~~~~~~~~~~---~~~~~~i~~IGp 262 (262)
|++.+.+.. +...+.+. .+|+|+|||+++|+.|++.+.++ .+.+.+++||||
T Consensus 154 Y~~~~~~~~-~~~~~~l~~~~~~~iiftS~~~v~~f~~~~~~~~~~~~~~~~~~aig~ 210 (239)
T cd06578 154 YRTVPPDLD-AELLELLEEGAIDAVLFTSPSTVRNLLELLGKEGRALLKNVKIAAIGP 210 (239)
T ss_pred EEEECCCCc-HHHHHHHHcCCCcEEEEeCHHHHHHHHHHHhhhhhhhhcCCeEEEECH
Confidence 999987654 22333332 67899999999999999999864 256899999996
No 9
>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents uroporphyrinogen III synthase (4.2.1.75 from EC) which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule, linking it to the first pyrrole unit (ring A), thereby generating a large macrocyclic structure called uroporphyrinogen III []. The enzyme folds into two alpha/beta domains connected by a beta-ladder, the active site being located between the two domains []. Congenital erythropoietic porphyria (CEP) is an autosomal recessive inborn error of metabolism that results from the markedly deficient activity of uroporphyrinogen III synthase []. ; GO: 0004852 uroporphyrinogen-III synthase activity, 0033014 tetrapyrrole biosynthetic process; PDB: 1WD7_B 1WCX_A 1WCW_A 3D8R_A 3D8T_B 3D8S_A 3D8N_A 3RE1_A 3MW8_A 3P9Z_A ....
Probab=100.00 E-value=5.7e-34 Score=245.64 Aligned_cols=192 Identities=29% Similarity=0.412 Sum_probs=163.9
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC--CccEEEEeCHHHHHHHHHHHHHcC-----CCCcEEEEeC
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT--IFDWIIITSPEAGSVFLEAWKEAG-----TPNVRIGVVG 135 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~--~~d~IiFTS~~aV~~f~~~l~~~~-----~~~~~i~aVG 135 (262)
+++.+.|+++|++++.+|+++++|..+...+...++.+. .||+|||||++||++|++.+...+ +.+.+++|||
T Consensus 1 ~~l~~~l~~~G~~~~~~P~i~~~~~~~~~~l~~~l~~l~~~~~d~viftS~~av~~~~~~l~~~~~~~~~~~~~~i~avG 80 (231)
T PF02602_consen 1 SELAALLRALGAEVIELPLIEIEPLPDLASLEAALEQLPPGNYDWVIFTSPNAVRAFFKALQSAGADLRLLKNIKIFAVG 80 (231)
T ss_dssp -HHHHHHHHTTEEEEEEESEEEEECCHHHHHHHHHHHHTGCCSSEEEESSHHHHHHHHHHHHHTTHHHHHHHHSEEEESS
T ss_pred CHHHHHHHHCCCcEEEECCEEEEeCCCHHHHHHHHHhcccCCCCEEEEECHHHHHHHHHHHhhhhhhhhhccCCeEEEEc
Confidence 468899999999999999999999666666777776665 999999999999999999887332 2378999999
Q ss_pred hhHHHHHHHhhhhcCCCCceeecCC-CCCHHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeecccc
Q 024773 136 AGTASIFEEVIQSSKCSLDVAFSPS-KATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEP 214 (262)
Q Consensus 136 ~~Ta~~L~~~~~~~~~G~~~~~~p~-~~t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~ 214 (262)
++|+++|+++ |++++++|. .+++++|++.|.+.. .++++|+++|+.++++|.+.|++.|++|+++.||++ .
T Consensus 81 ~~Ta~~l~~~------G~~~~~~~~~~~~s~~L~~~l~~~~-~~~~vl~~~g~~~~~~l~~~L~~~g~~v~~~~vY~~-~ 152 (231)
T PF02602_consen 81 PKTAEALREY------GFQPDFVPSSEGSSEGLAELLKEQL-RGKRVLILRGEGGRPDLPEKLREAGIEVTEVIVYET-P 152 (231)
T ss_dssp HHHHHHHHHT------T-EECEE-TTSSSHHHHHGGHHHCC-TTEEEEEEESSSSCHHHHHHHHHTTEEEEEEECEEE-E
T ss_pred HHHHHHHHHc------CCCccccCCCCCCHHHHHHHHHhhC-CCCeEEEEcCCCccHHHHHHHHHCCCeEEEEEEeec-c
Confidence 9999999999 999998998 899999999888754 458999999999999999999999999999999999 5
Q ss_pred CCCChHHHHHHc--CCCCEEEEeCHHHHHHHHHHhccc--CCCCCeEEEECC
Q 024773 215 VHHVDQTVLKQA--LSIPVVAVASPSAVRSWVNLISDT--EQWSNSVACIAG 262 (262)
Q Consensus 215 ~~~~~~~~~~~l--~~~d~ivFtS~s~~~~~~~~~~~~--~~~~~~i~~IGp 262 (262)
......++.+.+ ..+|+|+||||++++.|++.+++. ...+.+++||||
T Consensus 153 ~~~~~~~~~~~l~~~~~~~v~ftS~~~~~~~~~~~~~~~~~~~~~~~~~ig~ 204 (231)
T PF02602_consen 153 PEELSPELKEALDRGEIDAVVFTSPSAVRAFLELLKKNGALLKRVPIVAIGP 204 (231)
T ss_dssp EHHHHHHHHHHHHHTTTSEEEESSHHHHHHHHHHSSGHHHHHTTSEEEESSH
T ss_pred cccchHHHHHHHHcCCCCEEEECCHHHHHHHHHHhHhhhhhhhCCEEEEECH
Confidence 444444455545 589999999999999999999874 267999999996
No 10
>PRK07168 bifunctional uroporphyrinogen-III methyltransferase/uroporphyrinogen-III synthase; Reviewed
Probab=100.00 E-value=4.6e-32 Score=255.61 Aligned_cols=198 Identities=10% Similarity=0.077 Sum_probs=166.7
Q ss_pred CCCCccchhccccccccCCCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEE
Q 024773 28 LPFQFSRIQASSDATSASASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWII 107 (262)
Q Consensus 28 ~~~~~~~~~~~~~~~~~~~~l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~Ii 107 (262)
+|++++|++. +||.|++||+||+.++...+.+.|+++|++|+.+|++++++.+.. +..+.++.+||||+
T Consensus 237 ~~~~~~~~~~--------~PL~G~~IlVtR~~~q~~~l~~~L~~~GA~v~~~P~i~~~~~~~~---~~~l~~l~~ydwlv 305 (474)
T PRK07168 237 LRNQIAWKER--------KPLHGKKVLFTSATNKTSVMKQKLQEAGAEIYQIPTFKKEEYTLT---LEQINEIFNVNRLV 305 (474)
T ss_pred cccccchhhc--------ccccCceEEeeccHHHHHHHHHHHHHcCCEEEEeccEEeeCCCCc---HHHHHHhccCCEEE
Confidence 5678999999 999999999999999999999999999999999999998765432 34566778999999
Q ss_pred EeCHHHHHHHHHHHHHcCCC----CcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEE
Q 024773 108 ITSPEAGSVFLEAWKEAGTP----NVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLY 183 (262)
Q Consensus 108 FTS~~aV~~f~~~l~~~~~~----~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~ 183 (262)
|||+|+|+.|++.+.+.+.| ..+|+|||++|+++|+++ |+.++ |+++++|+++.. ... . +++++
T Consensus 306 FTS~ngV~~Ff~~l~~~~~D~R~l~~kiaavG~~Ta~aL~~~------Gl~~d--p~~~~~e~~l~~-g~~--~-~~vl~ 373 (474)
T PRK07168 306 FCSAESVEILMQSCSKYKKDIRSLQAELQHMNVATQEKLMQY------GLLSK--EAKFSSDTTVYL-GRN--I-NRIAF 373 (474)
T ss_pred EcCHHHHHHHHHHHHHcCCChHHhCCEEEEECHHHHHHHHhC------CCccC--CcccccceeEEe-ccc--c-cceee
Confidence 99999999999999988765 479999999999999999 99985 999999999865 221 2 68999
Q ss_pred EccCCChhhHHHHHHhCCCe-eeEEeeec--cccCCCChHHHHHHcCCCCEEEEeCHHHHHHHHHHhcccC---CCCCeE
Q 024773 184 PASAKASNEIEEGLSNRGFE-VVRLNTYT--TEPVHHVDQTVLKQALSIPVVAVASPSAVRSWVNLISDTE---QWSNSV 257 (262)
Q Consensus 184 ~~g~~~~~~L~~~L~~~G~~-v~~i~vY~--~~~~~~~~~~~~~~l~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i 257 (262)
++++ .|.. +.....|+ +...+....++.+. .+|.|+|||+++|++|++.++..+ ..++++
T Consensus 374 ~~~~------------~g~~~~~~~~~y~~~~~~~~~~~~~l~e~--~~d~iiFtS~ssV~~f~~~~~~~~~~~~~~~~~ 439 (474)
T PRK07168 374 IQEK------------IGAGSYMMTHKYTIDHRFDEVHSRMLSEF--LWDSIVFEGRASIDTFLAEVKRLGFIDIVTLPF 439 (474)
T ss_pred cccC------------CCCceEEEEEEeeccccccchhhhHHhhc--cCceEEECCHHHHHHHHHHHHhhCchhhccCce
Confidence 9976 5566 99999999 66655433333332 489999999999999999987654 367899
Q ss_pred EEECC
Q 024773 258 ACIAG 262 (262)
Q Consensus 258 ~~IGp 262 (262)
+||||
T Consensus 440 ~~iGp 444 (474)
T PRK07168 440 SYTDV 444 (474)
T ss_pred EEeCH
Confidence 99997
No 11
>KOG4132 consensus Uroporphyrinogen III synthase UROS/HEM4 [Coenzyme transport and metabolism]
Probab=99.95 E-value=3.2e-27 Score=196.89 Aligned_cols=206 Identities=17% Similarity=0.211 Sum_probs=175.7
Q ss_pred CCeEEEeCCCC-ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc----
Q 024773 50 NPKVVVTRERG-KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA---- 124 (262)
Q Consensus 50 g~~VLitR~~~-~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~---- 124 (262)
.++|++..... ..+.+.+.|+.+|++++.+|++..... +.+++++.|+...+|-.|||||++.|+++-+.+.+.
T Consensus 3 ~~~vlllK~~s~~~D~Y~~~l~~~~~epifIP~l~f~f~-~l~~lr~kL~~p~kY~giIfTSpR~VEa~~eaL~q~~tel 81 (260)
T KOG4132|consen 3 KVTVLLLKNKSVPIDPYEEELRSYGLEPIFIPVLSFTFV-NLQQLRAKLNNPPKYAGIIFTSPRCVEALNEALIQTETEL 81 (260)
T ss_pred ceeEEEecCCCCCCCHHHHHHHhcCCCceeecceeeeec-cHHHHHHHhcCchhhceeEEeChHHHHHHHHHhccccchh
Confidence 34788887765 568999999999999999999999886 457788888888899999999999999999998843
Q ss_pred --CCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC--CCccEEEEEccCCChhhHHHHHHhC
Q 024773 125 --GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPASAKASNEIEEGLSNR 200 (262)
Q Consensus 125 --~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~g~~vL~~~g~~~~~~L~~~L~~~ 200 (262)
.|....+|+||++|...++.. |+....--...+++.|++.|.+.- ....++|+|+|+..++.|+..|...
T Consensus 82 ~~~w~a~~vYtVG~aT~~si~~~------~~l~T~Ge~~gNa~~LaD~Ive~~~~~~alPLLfpcGn~~rdil~kkL~~~ 155 (260)
T KOG4132|consen 82 KAAWLAKHVYTVGPATHASIRRL------GFLNTHGEDAGNAEILADLIVETFTDKRALPLLFPCGNLRRDILPKKLHDK 155 (260)
T ss_pred hhHHhhcceeeeccccHHHHHHh------cCccccccccccHHHHhHhhhhcCCCcccCceEEEcccchhHHHHHHHHhC
Confidence 244789999999999999999 876533333489999999998852 3457799999999999999999999
Q ss_pred CCeeeEEeeeccccCCCChHHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccC--CCCCeEEEECC
Q 024773 201 GFEVVRLNTYTTEPVHHVDQTVLKQA---LSIPVVAVASPSAVRSWVNLISDTE--QWSNSVACIAG 262 (262)
Q Consensus 201 G~~v~~i~vY~~~~~~~~~~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~--~~~~~i~~IGp 262 (262)
|+.|+.++||+|+..+.....+...+ +.+|+|+|+||+++...++.++... .++.++++|||
T Consensus 156 G~~Vds~~VY~T~~hp~~~~~~~~alk~~~~~d~ivfFSPsgv~~~lq~f~~~~~s~~~~k~aaIGP 222 (260)
T KOG4132|consen 156 GIRVDSCEVYETREHPDGFKQFIHALKECGFIDWIVFFSPSGVKSSLQYFGDSNRSGDHLKLAAIGP 222 (260)
T ss_pred CceeeEEEEEeeeecccHHHHHHHHHHhcCCcceEEEECcchHHHHHHHHHHhccchhheeEEEeCc
Confidence 99999999999999988766655555 3799999999999999999998765 46899999998
No 12
>PRK05928 hemD uroporphyrinogen-III synthase; Reviewed
Probab=99.71 E-value=1.6e-16 Score=137.81 Aligned_cols=120 Identities=22% Similarity=0.247 Sum_probs=102.6
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCc-hHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC
Q 024773 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDT-DRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT 126 (262)
Q Consensus 48 l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~-~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~ 126 (262)
+.|++||++|+....+.+.+.|++.|+.+..+|+|++++.... ......+ ..+.+|+|+|||+++|++|++.+...+.
T Consensus 123 ~~~~~ili~~~~~~~~~l~~~L~~~G~~v~~~~~Y~~~~~~~~~~~~~~~~-~~~~~d~ivftS~~~v~~~~~~~~~~~~ 201 (249)
T PRK05928 123 LKGKRVLYLRGNGGREVLGDTLEERGAEVDECEVYERVPPKLDGAELLARL-QSGEVDAVIFTSPSTVRAFFSLAPELGR 201 (249)
T ss_pred cCCCEEEEECCCCCHHHHHHHHHHCCCEEeEEEEEEeeCCCCChHHHHHHH-HhCCCCEEEECCHHHHHHHHHHhcccch
Confidence 6799999999999999999999999999999999999886432 2222222 1368999999999999999998876542
Q ss_pred ----CCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhC
Q 024773 127 ----PNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKN 174 (262)
Q Consensus 127 ----~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~ 174 (262)
.+.+++|||+.|+++|+++ |+.++++|+.++.++|++.|.+.
T Consensus 202 ~~~~~~~~~~aiG~~Ta~~l~~~------G~~~~~~~~~~~~~~l~~~l~~~ 247 (249)
T PRK05928 202 REWLLSCKAVVIGERTAEALREL------GIKVIIVPDSADNEALLRALKEL 247 (249)
T ss_pred hHHHhCCeEEEeCHHHHHHHHHc------CCCcceecCCCChHHHHHHHHHh
Confidence 3789999999999999999 99999999999999999988654
No 13
>cd06578 HemD Uroporphyrinogen-III synthase (HemD) catalyzes the asymmetrical cyclization of tetrapyrrole (linear) to uroporphyrinogen-III, the fourth step in the biosynthesis of heme. This ubiquitous enzyme is present in eukaryotes, bacteria and archaea. Mutations in the human uroporphyrinogen-III synthase gene cause congenital erythropoietic porphyria, a recessive inborn error of metabolism also known as Gunther disease.
Probab=99.67 E-value=1.6e-15 Score=130.24 Aligned_cols=118 Identities=21% Similarity=0.272 Sum_probs=102.4
Q ss_pred CCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc--
Q 024773 47 SNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-- 124 (262)
Q Consensus 47 ~l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~-- 124 (262)
...+++|+++|+......+.+.|+++|+++..+|+|++++..+.+.....+. ...+|+|+|||+++|+.|++.+.+.
T Consensus 119 ~~~~~~il~~~g~~~~~~l~~~L~~~g~~v~~~~~Y~~~~~~~~~~~~~~l~-~~~~~~iiftS~~~v~~f~~~~~~~~~ 197 (239)
T cd06578 119 DGKGKRILRPRGGRAREDLAEALRERGAEVDEVEVYRTVPPDLDAELLELLE-EGAIDAVLFTSPSTVRNLLELLGKEGR 197 (239)
T ss_pred CCCCCEEEEEcCcchhHHHHHHHHHCCCEEEEEEEEEEECCCCcHHHHHHHH-cCCCcEEEEeCHHHHHHHHHHHhhhhh
Confidence 3679999999999888999999999999999999999998765444455553 3578899999999999999998764
Q ss_pred -CCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHh
Q 024773 125 -GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASEL 171 (262)
Q Consensus 125 -~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l 171 (262)
...+.+++|||++|+++|++. |++++++++.++.++|++.+
T Consensus 198 ~~~~~~~~~aig~~t~~~l~~~------g~~~~~~~~~~~~~~l~~~i 239 (239)
T cd06578 198 ALLKNVKIAAIGPRTAEALREL------GLKVVIVAESPTLEALLEAL 239 (239)
T ss_pred hhhcCCeEEEECHHHHHHHHHc------CCCceeeecCCChHHHHhhC
Confidence 345899999999999999999 99999999999999998754
No 14
>PRK07239 bifunctional uroporphyrinogen-III synthetase/response regulator domain protein; Validated
Probab=99.64 E-value=3.3e-15 Score=138.40 Aligned_cols=121 Identities=21% Similarity=0.281 Sum_probs=99.1
Q ss_pred CCCCCCeEEEeCCC-----CChHHHHHHHHhCCCcEEEeceEEeeeCCCch---HHHHHHhcCCCccEEEEeCHHHHHHH
Q 024773 46 ASNSNPKVVVTRER-----GKNGKLIKALAKHRIDCLELPLIQHAQGPDTD---RLSSVLNADTIFDWIIITSPEAGSVF 117 (262)
Q Consensus 46 ~~l~g~~VLitR~~-----~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~---~l~~~l~~l~~~d~IiFTS~~aV~~f 117 (262)
....|++|++.+.. ...+.+.+.|++.|++|..+|+|++++..+.+ .+...+ .-+.+|+|+|||+++|++|
T Consensus 138 ~~~~g~~vli~~~~~~~~~~~~~~L~~~L~~~G~~V~~~~vY~~~~~~~~~~~~~~~~~l-~~~~~d~v~FtS~stv~~f 216 (381)
T PRK07239 138 EGVAGKRIAVQLHGATDEWEPLPEFLEALRAAGAEVVPVPVYRWVPPPDPGPLDRLVDAI-ASRGLDAVTFTSAPAVAAL 216 (381)
T ss_pred CCCCCCEEEEEcCCCccccCchHHHHHHHHHCCCEEEEeCcEEEcCCCChhHHHHHHHHH-HcCCccEEEEcCHHHHHHH
Confidence 34679999998776 34468999999999999999999998764332 233333 2357999999999999999
Q ss_pred HHHHHHcCC---------CCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhC
Q 024773 118 LEAWKEAGT---------PNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKN 174 (262)
Q Consensus 118 ~~~l~~~~~---------~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~ 174 (262)
++.+...+. .+++++||||.|+++|+++ |+.+ .+|++++.++|+++|.+.
T Consensus 217 ~~~l~~~~~~~~~~~~~~~~~~i~aIGp~Ta~al~~~------G~~~-~vp~~~t~~~Lv~~i~~~ 275 (381)
T PRK07239 217 LERAREMGLLDQLLAALRTDVLAACVGPVTAAPLVRA------GVPT-SAPERMRLGALARHITEE 275 (381)
T ss_pred HHHHHHcCChHHHHHhhccCCEEEEECHHHHHHHHHc------CCCc-cCCCCCCHHHHHHHHHHH
Confidence 999876432 3678999999999999999 9998 579999999999999765
No 15
>PRK05752 uroporphyrinogen-III synthase; Validated
Probab=99.60 E-value=1.4e-14 Score=127.15 Aligned_cols=121 Identities=12% Similarity=0.111 Sum_probs=102.7
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCC-chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc--
Q 024773 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPD-TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-- 124 (262)
Q Consensus 48 l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~-~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~-- 124 (262)
..|++||++|+....+.+.+.|++.|+.|..+++|++++... ...+...+ ..+.+|+|+|||++++++|++.+...
T Consensus 128 ~~~~~vLi~rg~~~r~~L~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~~-~~~~~d~v~ftS~~~~~~~~~~~~~~~~ 206 (255)
T PRK05752 128 VPDPRVLIMRGEGGRELLAERLREQGASVDYLELYRRCLPDYPAGTLLQRV-EAERLNGLVVSSGQGFEHLQQLAGADWP 206 (255)
T ss_pred CCCCEEEEEccCccHHHHHHHHHHCCCEEeEEEEEeecCCCCCHHHHHHHH-HhCCCCEEEECCHHHHHHHHHHhChhHH
Confidence 368899999999999999999999999999999999876543 33444444 34679999999999999999877542
Q ss_pred CCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC
Q 024773 125 GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG 175 (262)
Q Consensus 125 ~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~ 175 (262)
.+.+.+++|||+.|++++++. |+....+++.++.++|++.|.+..
T Consensus 207 ~~~~~~~~~ig~~ta~a~~~~------G~~~~~~a~~~t~~~L~~al~~~~ 251 (255)
T PRK05752 207 ELARLPLFVPSPRVAEQARAA------GAQTVVDCRGASAAALLAALRRQA 251 (255)
T ss_pred HhcCceEEEeCHHHHHHHHHc------CCCceeeCCCCChHHHHHHHHhcc
Confidence 135789999999999999999 999888899999999999988754
No 16
>PF02602 HEM4: Uroporphyrinogen-III synthase HemD; InterPro: IPR003754 Tetrapyrroles are large macrocyclic compounds derived from a common biosynthetic pathway []. The end-product, uroporphyrinogen III, is used to synthesise a number of important molecules, including vitamin B12, haem, sirohaem, chlorophyll, coenzyme F430 and phytochromobilin []. The first stage in tetrapyrrole synthesis is the synthesis of 5-aminoaevulinic acid ALA via two possible routes: (1) condensation of succinyl CoA and glycine (C4 pathway) using ALA synthase (2.3.1.37 from EC), or (2) decarboxylation of glutamate (C5 pathway) via three different enzymes, glutamyl-tRNA synthetase (6.1.1.17 from EC) to charge a tRNA with glutamate, glutamyl-tRNA reductase (1.2.1.70 from EC) to reduce glutamyl-tRNA to glutamate-1-semialdehyde (GSA), and GSA aminotransferase (5.4.3.8 from EC) to catalyse a transamination reaction to produce ALA. The second stage is to convert ALA to uroporphyrinogen III, the first macrocyclic tetrapyrrolic structure in the pathway. This is achieved by the action of three enzymes in one common pathway: porphobilinogen (PBG) synthase (or ALA dehydratase, 4.2.1.24 from EC) to condense two ALA molecules to generate porphobilinogen; hydroxymethylbilane synthase (or PBG deaminase, 2.5.1.61 from EC) to polymerise four PBG molecules into preuroporphyrinogen (tetrapyrrole structure); and uroporphyrinogen III synthase (4.2.1.75 from EC) to link two pyrrole units together (rings A and D) to yield uroporphyrinogen III. Uroporphyrinogen III is the first branch point of the pathway. To synthesise cobalamin (vitamin B12), sirohaem, and coenzyme F430, uroporphyrinogen III needs to be converted into precorrin-2 by the action of uroporphyrinogen III methyltransferase (2.1.1.107 from EC). To synthesise haem and chlorophyll, uroporphyrinogen III needs to be decarboxylated into coproporphyrinogen III by the action of uroporphyrinogen III decarboxylase (4.1.1.37 from EC) []. This entry represents uroporphyrinogen III synthase (4.2.1.75 from EC) which functions during the second stage of tetrapyrrole biosynthesis. This enzyme catalyses the inversion of the final pyrrole unit (ring D) of the linear tetrapyrrole molecule, linking it to the first pyrrole unit (ring A), thereby generating a large macrocyclic structure called uroporphyrinogen III []. The enzyme folds into two alpha/beta domains connected by a beta-ladder, the active site being located between the two domains []. Congenital erythropoietic porphyria (CEP) is an autosomal recessive inborn error of metabolism that results from the markedly deficient activity of uroporphyrinogen III synthase []. ; GO: 0004852 uroporphyrinogen-III synthase activity, 0033014 tetrapyrrole biosynthetic process; PDB: 1WD7_B 1WCX_A 1WCW_A 3D8R_A 3D8T_B 3D8S_A 3D8N_A 3RE1_A 3MW8_A 3P9Z_A ....
Probab=99.58 E-value=4.2e-15 Score=127.98 Aligned_cols=116 Identities=23% Similarity=0.294 Sum_probs=97.9
Q ss_pred CCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc--
Q 024773 47 SNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-- 124 (262)
Q Consensus 47 ~l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~-- 124 (262)
.+.+++||++|+......+.+.|+++|++|..+++|++.+.....++...+. .+.+|+|+|||+++|+.|++.+.+.
T Consensus 114 ~~~~~~vl~~~g~~~~~~l~~~L~~~g~~v~~~~vY~~~~~~~~~~~~~~l~-~~~~~~v~ftS~~~~~~~~~~~~~~~~ 192 (231)
T PF02602_consen 114 QLRGKRVLILRGEGGRPDLPEKLREAGIEVTEVIVYETPPEELSPELKEALD-RGEIDAVVFTSPSAVRAFLELLKKNGA 192 (231)
T ss_dssp CCTTEEEEEEESSSSCHHHHHHHHHTTEEEEEEECEEEEEHHHHHHHHHHHH-HTTTSEEEESSHHHHHHHHHHSSGHHH
T ss_pred hCCCCeEEEEcCCCccHHHHHHHHHCCCeEEEEEEeecccccchHHHHHHHH-cCCCCEEEECCHHHHHHHHHHhHhhhh
Confidence 4667899999999999999999999999999999999922222344444552 3789999999999999999988754
Q ss_pred CCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHH
Q 024773 125 GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILAS 169 (262)
Q Consensus 125 ~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~ 169 (262)
...+.+++|+|+.|+++|++. |++++.+|+.++.++|++
T Consensus 193 ~~~~~~~~~ig~~ta~~l~~~------g~~~~~va~~~~~~~lv~ 231 (231)
T PF02602_consen 193 LLKRVPIVAIGPRTAKALREL------GFKVDIVAERPTIEALVE 231 (231)
T ss_dssp HHTTSEEEESSHHHHHHHHHT------T-SCSEEESSSSHHHHHH
T ss_pred hhhCCEEEEECHHHHHHHHHc------CCCceEECCCCChhHhhC
Confidence 346899999999999999999 999999999999999974
No 17
>COG1587 HemD Uroporphyrinogen-III synthase [Coenzyme metabolism]
Probab=99.57 E-value=3.3e-14 Score=124.38 Aligned_cols=118 Identities=24% Similarity=0.308 Sum_probs=103.1
Q ss_pred CCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchH-HHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC--
Q 024773 50 NPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDR-LSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT-- 126 (262)
Q Consensus 50 g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~-l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~-- 126 (262)
|++|++.|+....+.+.+.|.++|++|..+++|++++.....+ +...+ ....+|+|+|||+.+|++|++.+...+.
T Consensus 123 ~~~vl~~~~~~~r~~l~~~L~~~G~~v~~~~~Y~~~~~~~~~~~~~~~~-~~~~~d~v~ftS~~~v~~~~~~~~~~~~~~ 201 (248)
T COG1587 123 GKRVLILRGNGGREVLEEKLEERGAEVREVEVYRTEPPPLDEATLIELL-KLGEVDAVVFTSSSAVRALLALAPESGIEF 201 (248)
T ss_pred CCeEEEEcCCCchHHHHHHHHhCCCEEEEEeeeeecCCCccHHHHHHHH-HhCCCCEEEEeCHHHHHHHHHHccccchhH
Confidence 7999999999999999999999999999999999999865422 22233 6689999999999999999998877653
Q ss_pred -CCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhC
Q 024773 127 -PNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKN 174 (262)
Q Consensus 127 -~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~ 174 (262)
.+++++|||+.|++.++++ |+++++.++.++.++|.+.+...
T Consensus 202 ~~~~~v~~IG~~Ta~~l~~~------G~~~~~~~~~~~~~~l~~al~~~ 244 (248)
T COG1587 202 LERKRVASIGPRTAETLKEL------GITVDIAAEKPTLEALADALAKL 244 (248)
T ss_pred hhCceEEEecHHHHHHHHHc------CCcceecccccchHHHHHHHHHH
Confidence 3689999999999999999 99998999999999999887654
No 18
>PRK09189 uroporphyrinogen-III synthase; Validated
Probab=99.56 E-value=8e-14 Score=121.20 Aligned_cols=118 Identities=17% Similarity=0.109 Sum_probs=98.0
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCc-hHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcC-
Q 024773 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDT-DRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAG- 125 (262)
Q Consensus 48 l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~-~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~- 125 (262)
..|++||+.|+....+.+.+.|+++|+.|..+++|++++.+.. ..+...+ .-+.+|+|+|||+.+|++|++.+...+
T Consensus 116 ~~~~~vL~~rg~~~r~~l~~~L~~~G~~v~~~~vY~~~~~~~~~~~~~~~l-~~~~~d~i~f~S~~~~~~f~~~~~~~~~ 194 (240)
T PRK09189 116 APTARLLYLAGRPRAPVFEDRLAAAGIPFRVAECYDMLPVMYSPATLSAIL-GGAPFDAVLLYSRVAARRFFALMRLSIA 194 (240)
T ss_pred CCCCcEEEeccCcccchhHHHHHhCCCeeEEEEEEEeecCCCChHHHHHHH-hcCCCCEEEEeCHHHHHHHHHHHhhhcC
Confidence 3688999999999999999999999999999999999876533 3344444 336799999999999999999886432
Q ss_pred ---CCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhh
Q 024773 126 ---TPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELP 172 (262)
Q Consensus 126 ---~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~ 172 (262)
..+.+++|||+.|++++++. |.....+++.++.++|++.+.
T Consensus 195 ~~~l~~~~~v~Ig~~ta~al~~~------~~~~~~ia~~~t~~~l~~~l~ 238 (240)
T PRK09189 195 PPADEKTRFLCLSARVAAALPAS------LRAQALIAAMPDEKSLLSLLS 238 (240)
T ss_pred cccccccCeEEeCHHHHHHHhhc------cccceeecCCCCHHHHHHHhh
Confidence 25788999999999999988 765556789999999998764
No 19
>PRK08811 uroporphyrinogen-III synthase; Validated
Probab=99.50 E-value=3.3e-13 Score=119.29 Aligned_cols=122 Identities=12% Similarity=0.035 Sum_probs=102.0
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc---
Q 024773 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA--- 124 (262)
Q Consensus 48 l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~--- 124 (262)
..|++||+.|+..+.+.+.+.|+++|+.|..+++|+.++.....+....+..-...|+++|||+.++++|++.+.+.
T Consensus 136 ~~g~~vLi~rg~~gr~~L~~~L~~~G~~V~~~~vY~~~~~~~~~~~~~~l~~~~~~d~i~ftS~sav~~f~~~l~~~~~~ 215 (266)
T PRK08811 136 APLQAVGLITAPGGRGLLAPTLQQRGARILRADVYQRVPLRLRASTLAALSRAAPRSVLALSSAEALTLILQQLPDALRR 215 (266)
T ss_pred CCCCEEEEEeCCCcHHHHHHHHHHCCCEEeEEEEEeeeCCCCCHHHHHHHHHhCCCCEEEEChHHHHHHHHHHhhhhHHH
Confidence 36899999999999999999999999999999999988754332222222123579999999999999999987653
Q ss_pred CCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC
Q 024773 125 GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG 175 (262)
Q Consensus 125 ~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~ 175 (262)
.+.+.+++|+|+.|++++++. |+....+++.++.++|++.+....
T Consensus 216 ~l~~~~~v~is~rtA~~a~~~------G~~~v~vA~~~~~~~l~~a~~~~~ 260 (266)
T PRK08811 216 ALQQRPVVASSDRLLDAAHAA------GFIHVMRAAGPLPAQLAAAAAAIM 260 (266)
T ss_pred HHhCCCEEEeCHHHHHHHHHc------CCCceeeCCCCCHHHHHHHHHhhc
Confidence 235788999999999999999 999988999999999999987764
No 20
>KOG4132 consensus Uroporphyrinogen III synthase UROS/HEM4 [Coenzyme transport and metabolism]
Probab=99.44 E-value=1.8e-12 Score=108.89 Aligned_cols=117 Identities=16% Similarity=0.273 Sum_probs=105.7
Q ss_pred EEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCc-hHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcC--CCCc
Q 024773 53 VVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDT-DRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAG--TPNV 129 (262)
Q Consensus 53 VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~-~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~--~~~~ 129 (262)
.|++.+....+.+.+.|.+.|+.|+.+-+|+++..++. .++..+++.-+..|||+|.||++|+...+.+.... .++.
T Consensus 136 LLfpcGn~~rdil~kkL~~~G~~Vds~~VY~T~~hp~~~~~~~~alk~~~~~d~ivfFSPsgv~~~lq~f~~~~~s~~~~ 215 (260)
T KOG4132|consen 136 LLFPCGNLRRDILPKKLHDKGIRVDSCEVYETREHPDGFKQFIHALKECGFIDWIVFFSPSGVKSSLQYFGDSNRSGDHL 215 (260)
T ss_pred eEEEcccchhHHHHHHHHhCCceeeEEEEEeeeecccHHHHHHHHHHhcCCcceEEEECcchHHHHHHHHHHhccchhhe
Confidence 78889988899999999999999999999999998874 57778887667899999999999999999887754 3689
Q ss_pred EEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC
Q 024773 130 RIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG 175 (262)
Q Consensus 130 ~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~ 175 (262)
++++|||.|+++|++. |++++.+.+.++.+.|+..|....
T Consensus 216 k~aaIGPtT~kaL~~~------g~~~~~vs~~P~pe~L~~~I~~~~ 255 (260)
T KOG4132|consen 216 KLAAIGPTTRKALEDL------GVKVDVVSPAPDPESLADAIELYQ 255 (260)
T ss_pred eEEEeCcchHHHHHHc------CCCcceecCCCCHHHHHHHHHhhh
Confidence 9999999999999999 999999999999999999887654
No 21
>PRK06975 bifunctional uroporphyrinogen-III synthetase/uroporphyrin-III C-methyltransferase; Reviewed
Probab=99.21 E-value=1.5e-10 Score=114.16 Aligned_cols=118 Identities=14% Similarity=0.110 Sum_probs=94.2
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeC-CCc---hHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHH
Q 024773 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQG-PDT---DRLSSVLNADTIFDWIIITSPEAGSVFLEAWKE 123 (262)
Q Consensus 48 l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~-~~~---~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~ 123 (262)
+.|++||++|+..+.+.+.+.|++.|+.|..+++|+.... ++. ..+...+ .+.+|+|+|||+++|++|++.+.+
T Consensus 137 ~~g~rVLi~rG~~gr~~L~~~L~~~Ga~V~~v~vY~~~~~~~~~~~~~~~~~~l--~~~idav~fTS~s~v~~f~~la~~ 214 (656)
T PRK06975 137 LAGKRVLIVRGDGGREWLAERLREAGAEVELVEAYRRVVPEPSIGAWERVHALL--SGAPHAWLLTSSEAVRNLDELARA 214 (656)
T ss_pred CCCCEEEEEcCCCCcHHHHHHHHHCCCEEEEEeEEEeeCCCcchhHHHHHHHHH--hCCCcEEEECCHHHHHHHHHHHHh
Confidence 5789999999999899999999999999999999996533 222 2233333 246999999999999999987432
Q ss_pred c-------CCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhC
Q 024773 124 A-------GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKN 174 (262)
Q Consensus 124 ~-------~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~ 174 (262)
+ ...+++++|||+.|++.+++. |+... .+..++.++++..+.++
T Consensus 215 ~l~~~~~~~l~~~~ivaIgprtA~~a~~~------G~~~i-~~a~~~~e~ll~ai~~~ 265 (656)
T PRK06975 215 HLNPAEIDALKHAPLVAPHARIAEQARAL------GFDRI-TLTGAGDERIVRAFLTW 265 (656)
T ss_pred hcCHHHHHHHhCCeEEEeCHHHHHHHHHc------CCCee-ecCCCChHHHHHHHHHH
Confidence 1 124789999999999999999 99974 45678888888877665
No 22
>PRK07168 bifunctional uroporphyrinogen-III methyltransferase/uroporphyrinogen-III synthase; Reviewed
Probab=98.75 E-value=4.6e-07 Score=86.25 Aligned_cols=171 Identities=11% Similarity=0.124 Sum_probs=113.5
Q ss_pred CeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcE
Q 024773 51 PKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVR 130 (262)
Q Consensus 51 ~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~ 130 (262)
.++++.-+......+.+.|.++|.... .|+.-++-... .+ .-++.++ +..+.+.+.+.+.+...
T Consensus 164 ~tlV~lm~~~~l~~I~~~L~~~G~~~~-tpvavv~~~t~-----------~~-Qri~~~t---L~~l~~~~~~~~~~~pa 227 (474)
T PRK07168 164 DTIAYYMGIKNLPTICENLRQAGKKED-TPVAVIEWGTT-----------GK-QRVVTGT---LSTIVSIVKNENISNPS 227 (474)
T ss_pred CeEEEEcChhhHHHHHHHHHHcCcCCC-CeEEEEEECCC-----------CC-cEEEEEE---HHHHHHHHHhcCCCCCE
Confidence 355655555566789999999886533 34444443211 11 1222222 33334444555566778
Q ss_pred EEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeee
Q 024773 131 IGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTY 210 (262)
Q Consensus 131 i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY 210 (262)
++.||+... +++. + .........|++||+.|+......|.+.|++.|++|.+++.-
T Consensus 228 vivvG~vv~--~~~~-------~---------------~~~~~~PL~G~~IlVtR~~~q~~~l~~~L~~~GA~v~~~P~i 283 (474)
T PRK07168 228 MTIVGDVVS--LRNQ-------I---------------AWKERKPLHGKKVLFTSATNKTSVMKQKLQEAGAEIYQIPTF 283 (474)
T ss_pred EEEEChHhc--cccc-------c---------------chhhcccccCceEEeeccHHHHHHHHHHHHHcCCEEEEeccE
Confidence 999997432 2222 1 011122235799999999999999999999999999999888
Q ss_pred ccccCCCChHHHHHHcCCCCEEEEeCHHHHHHHHHHhcccCCC----CCeEEEECC
Q 024773 211 TTEPVHHVDQTVLKQALSIPVVAVASPSAVRSWVNLISDTEQW----SNSVACIAG 262 (262)
Q Consensus 211 ~~~~~~~~~~~~~~~l~~~d~ivFtS~s~~~~~~~~~~~~~~~----~~~i~~IGp 262 (262)
+..+.+.. ...++.+..+||++|||+.+|+.|++.+.+.+.+ ..+++|||+
T Consensus 284 ~~~~~~~~-~~~l~~l~~ydwlvFTS~ngV~~Ff~~l~~~~~D~R~l~~kiaavG~ 338 (474)
T PRK07168 284 KKEEYTLT-LEQINEIFNVNRLVFCSAESVEILMQSCSKYKKDIRSLQAELQHMNV 338 (474)
T ss_pred EeeCCCCc-HHHHHHhccCCEEEEcCHHHHHHHHHHHHHcCCChHHhCCEEEEECH
Confidence 75544333 3444557799999999999999999999876411 379999996
No 23
>cd06298 PBP1_CcpA_like Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation. Ligand-binding domain of the catabolite control protein A (CcpA), which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. In gram-positive bacteria, CCR is controlled by HPr, a phosphoenolpyruvate:sugar phsophotrasnferase system (PTS) and a transcriptional regulator CcpA. Moreover, CcpA can regulate sporulation and antibiotic resistance as well as play a role in virulence development of certain pathogens such as the group A streptococcus. The ligand binding domain of CcpA is a member of the LacI-GalR family of bacterial transcription regulators.
Probab=96.95 E-value=0.035 Score=47.75 Aligned_cols=177 Identities=13% Similarity=0.053 Sum_probs=99.9
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (262)
.+.+.++++|+.+...+. . .+.+...+.+.. -..+|++|+.+...-......+.. .+++++.++...
T Consensus 20 ~~~~~~~~~g~~~~~~~~---~--~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~l~~---~~ipvV~~~~~~--- 88 (268)
T cd06298 20 GIDDIATMYKYNIILSNS---D--NDKEKELKVLNNLLAKQVDGIIFMGGKISEEHREEFKR---SPTPVVLAGSVD--- 88 (268)
T ss_pred HHHHHHHHcCCeEEEEeC---C--CCHHHHHHHHHHHHHhcCCEEEEeCCCCcHHHHHHHhc---CCCCEEEEcccc---
Confidence 345677788998876642 1 122211122221 257999999865433444444433 367888888532
Q ss_pred HHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-h-------hhHHHHHHhCCCeeeEEeeecc
Q 024773 142 FEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-S-------NEIEEGLSNRGFEVVRLNTYTT 212 (262)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-~-------~~L~~~L~~~G~~v~~i~vY~~ 212 (262)
... ++.. +.+.. ..+..+++.|.+. ..++++++.|... . .-+.+.++++|..+....++..
T Consensus 89 -~~~------~~~~-v~~d~~~~~~~~~~~l~~~--g~~~i~~l~~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~ 158 (268)
T cd06298 89 -EDN------ELPS-VNIDYKKAAFEATELLIKN--GHKKIAFISGPLEDSINGDERLAGYKEALSEANIEFDESLIFEG 158 (268)
T ss_pred -CCC------CCCE-EEECcHHHHHHHHHHHHHc--CCceEEEEeCCcccccchhHHHHHHHHHHHHcCCCCCHHHeEeC
Confidence 112 2221 23333 3445566666663 3478999987654 1 3445678888876544434433
Q ss_pred ccCCCChHH-HHHHcC--CCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 213 EPVHHVDQT-VLKQAL--SIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 213 ~~~~~~~~~-~~~~l~--~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
........+ +.+.+. .+++|+.++...+..+++.+.+.+ ..++.+++++
T Consensus 159 ~~~~~~~~~~~~~~l~~~~~~ai~~~~d~~a~~~~~~l~~~g~~vp~di~vvg~d 213 (268)
T cd06298 159 DYTYESGYELAEELLEDGKPTAAFVTDDELAIGILNAAQDAGLKVPEDFEIIGFN 213 (268)
T ss_pred CCChhHHHHHHHHHhcCCCCCEEEEcCcHHHHHHHHHHHHcCCCCccceEEEeec
Confidence 222111112 222232 389999999998888988887765 2467777765
No 24
>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=96.90 E-value=0.036 Score=48.09 Aligned_cols=176 Identities=15% Similarity=0.115 Sum_probs=97.5
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHH
Q 024773 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEE 144 (262)
Q Consensus 65 l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~ 144 (262)
+.+.++++|+++.....-.- +...+...+ .-..+|+||+++...-...++.+.+ .+++++++|.... .
T Consensus 32 i~~~~~~~g~~~~v~~~~~~----~~~~~~~~l-~~~~~dgiii~~~~~~~~~~~~~~~---~~ipvV~~~~~~~----~ 99 (275)
T cd06295 32 IADALAERGYDLLLSFVSSP----DRDWLARYL-ASGRADGVILIGQHDQDPLPERLAE---TGLPFVVWGRPLP----G 99 (275)
T ss_pred HHHHHHHcCCEEEEEeCCch----hHHHHHHHH-HhCCCCEEEEeCCCCChHHHHHHHh---CCCCEEEECCccC----C
Confidence 55677788988876543211 122333333 2257999998765432333444433 3679999986322 1
Q ss_pred hhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccccCC
Q 024773 145 VIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEPVH 216 (262)
Q Consensus 145 ~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~~~~ 216 (262)
. ++.. +.+.. ..++.+++.|.+.. .++++++.+... ..-+.+.+++.|..+....++......
T Consensus 100 ~------~~~~-V~~d~~~~g~~~a~~l~~~g--~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~ 170 (275)
T cd06295 100 Q------PYCY-VGSDNVGGGRLATEHLLARG--RRRIAFLGGPQDMPEGEERLEGYREALAEAGLPLDPRLVAPGDFTE 170 (275)
T ss_pred C------CCCE-EEECcHHHHHHHHHHHHHCC--CCeEEEEcCCCCcchhHHHHHHHHHHHHHcCCCCChhhEEeccCCH
Confidence 2 2222 22332 23455556666543 478999887654 233566777777554433333222111
Q ss_pred CC-hHHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 217 HV-DQTVLKQA---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 217 ~~-~~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
.. ...+.+.+ ..+++|++++...+..++..+.+.+ ..++.++|++
T Consensus 171 ~~~~~~~~~~l~~~~~~~ai~~~~~~~a~g~~~~l~~~g~~ip~~i~ii~~d 222 (275)
T cd06295 171 ESGRAAMRALLERGPDFDAVFAASDLMALGALRALREAGRRVPEDVAVVGFD 222 (275)
T ss_pred HHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHHHhCCCCccceEEEeeC
Confidence 11 11222333 2589999999888888888877654 2467777764
No 25
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR 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,
Probab=96.88 E-value=0.025 Score=48.54 Aligned_cols=178 Identities=11% Similarity=0.017 Sum_probs=97.6
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCc-hHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDT-DRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~-~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
.+.+.+++.|+++...+... .+ ... +.++..+ ...+|+||+++...-..+.+.+... ++++++++....
T Consensus 20 gi~~~~~~~g~~~~~~~~~~-~~-~~~~~~~~~l~--~~~vdgiii~~~~~~~~~~~~~~~~---~ipvv~~~~~~~--- 89 (268)
T cd01575 20 GISDVLEAAGYQLLLGNTGY-SP-EREEELLRTLL--SRRPAGLILTGLEHTERTRQLLRAA---GIPVVEIMDLPP--- 89 (268)
T ss_pred HHHHHHHHcCCEEEEecCCC-Cc-hhHHHHHHHHH--HcCCCEEEEeCCCCCHHHHHHHHhc---CCCEEEEecCCC---
Confidence 45567788899887655421 11 111 1122222 2579999998865333444444433 678888875321
Q ss_pred HHhhhhcCCCCceeecCC-CCCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeecccc
Q 024773 143 EEVIQSSKCSLDVAFSPS-KATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEP 214 (262)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~-~~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~~ 214 (262)
.. ... .+... ...+..+++.+.+.. .+++.++.+... ..-+.+.|++.|..+....++....
T Consensus 90 -~~------~~~-~v~~d~~~~~~~~~~~l~~~g--~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~~ 159 (268)
T cd01575 90 -DP------IDM-AVGFSHAEAGRAMARHLLARG--YRRIGFLGARMDDTRAQQRLEGFRAALRAAGLDPPLVVTTPEPS 159 (268)
T ss_pred -CC------CCC-eEEeCcHHHHHHHHHHHHHCC--CCcEEEecCCCCcccHHHHHHHHHHHHHHcCCCCCceeEeccCC
Confidence 11 111 12222 234555566666543 468888887653 2345667788776544333332221
Q ss_pred CCCChHH-HHHHc---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 215 VHHVDQT-VLKQA---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 215 ~~~~~~~-~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
......+ +.+.+ ..+++|+..+...+..+++.+.+.+ ..++.+++++
T Consensus 160 ~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~~~p~di~vig~d 213 (268)
T cd01575 160 SFALGRELLAELLARWPDLDAVFCSNDDLALGALFECQRRGISVPEDIAIAGFG 213 (268)
T ss_pred CHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHHHhCCCCCcceEEEecC
Confidence 1111112 22223 2689999999988888888887654 3466777664
No 26
>cd06299 PBP1_LacI_like_13 Ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This group includes the ligand-binding domain of DNA-binding regulatory protein from Corynebacterium glutamicum which has a unique ability to produce significant amounts of L-glutamate directly from cheap sugar and ammonia. This regulatory protein is a member 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 trans
Probab=96.87 E-value=0.041 Score=47.30 Aligned_cols=177 Identities=11% Similarity=0.026 Sum_probs=98.1
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (262)
.+.+.++++|+++..++... +.+.....+. .-..+|+||+++.......++.+.+. +++++++|....
T Consensus 20 gi~~~~~~~g~~~~~~~~~~-----~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~l~~~---~ipvV~~~~~~~-- 89 (265)
T cd06299 20 AIQDAASAAGYSTIIGNSDE-----NPETENRYLDNLLSQRVDGIIVVPHEQSAEQLEDLLKR---GIPVVFVDREIT-- 89 (265)
T ss_pred HHHHHHHHcCCEEEEEeCCC-----CHHHHHHHHHHHHhcCCCEEEEcCCCCChHHHHHHHhC---CCCEEEEecccC--
Confidence 45567778899888664321 2111112221 12579999998754333234444433 678999986432
Q ss_pred HHHhhhhcCCCCceeecCCCCC-HHHHHHHhhhCCCCccEEEEEccCCCh-------hhHHHHHHhCCCeeeEEeeeccc
Q 024773 142 FEEVIQSSKCSLDVAFSPSKAT-GKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTE 213 (262)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~~t-~e~L~~~l~~~~~~g~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~i~vY~~~ 213 (262)
.. ++.. +....+. ...+++.+.+. ..++++++.|.... .-+.+.++++|..+.....+...
T Consensus 90 --~~------~~~~-v~~d~~~~~~~~~~~l~~~--g~~~I~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~ 158 (265)
T cd06299 90 --GS------PIPF-VTSDPQPGMTEAVSLLVAL--GHKKIGYISGPQDTSTGRERLEAFRQACASLGLEVNEDLVVLGG 158 (265)
T ss_pred --CC------CCCE-EEECcHHHHHHHHHHHHHc--CCCcEEEEeCCCCcccHHHHHHHHHHHHHHCCCCCChHhEEecC
Confidence 12 3322 2222222 23344555543 34789988776542 45667888888654332233222
Q ss_pred cCCCChHH-HHHHcC-CCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 214 PVHHVDQT-VLKQAL-SIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 214 ~~~~~~~~-~~~~l~-~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
.......+ +.+.+. .+++|+.++...+...+..+.+.+ ..++.|++++
T Consensus 159 ~~~~~~~~~~~~~l~~~~~av~~~~d~~a~gv~~al~~~g~~vp~dv~v~g~d 211 (265)
T cd06299 159 YSQESGYAGATKLLDQGATAIIAGDSMMTIGAIRAIHDAGLVIGEDISLIGFD 211 (265)
T ss_pred cchHHHHHHHHHHHcCCCCEEEEcCcHHHHHHHHHHHHhCCCCCcceeEEEeC
Confidence 22111122 222233 489999999999888888887765 2467787775
No 27
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, 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 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
Probab=96.66 E-value=0.036 Score=47.69 Aligned_cols=174 Identities=9% Similarity=0.026 Sum_probs=96.6
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFE 143 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~ 143 (262)
.+.+.++++|+++...... +.......+ .-..+|+||+++...-...+..+.+ .+++++++|....
T Consensus 20 gi~~~~~~~g~~~~~~~~~------~~~~~~~~l-~~~~vdgii~~~~~~~~~~~~~~~~---~~ipvV~~~~~~~---- 85 (261)
T cd06272 20 GINQAISKNGYNMNVSITP------SLAEAEDLF-KENRFDGVIIFGESASDVEYLYKIK---LAIPVVSYGVDYD---- 85 (261)
T ss_pred HHHHHHHHcCCEEEEEecc------cHHHHHHHH-HHcCcCEEEEeCCCCChHHHHHHHH---cCCCEEEEcccCC----
Confidence 3455667889888776543 122222233 2247999998875543333333333 3678999986432
Q ss_pred HhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccccC
Q 024773 144 EVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEPV 215 (262)
Q Consensus 144 ~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~~~ 215 (262)
. ++.. +.... ..+..+++.+.+.. .++++++.+... ..-+.+.+++.|..+....++.....
T Consensus 86 -~------~~~~-V~~d~~~~~~~~~~~l~~~g--~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~ 155 (261)
T cd06272 86 -L------KYPI-VNVDNEKAMELAVLYLAEKG--HKKIAYIGDLSLDRRQRKRFKGFLETCDENGISISDSHIDVDGLS 155 (261)
T ss_pred -C------CCCE-EEEChHHHHHHHHHHHHHcC--chhEEEeecccccccHHHHHHHHHHHHHHcCCCCCHHHeeeCCCC
Confidence 2 3322 22222 34566666666643 478888876543 23445677777764433333321111
Q ss_pred CCChHH-HHHHc---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 216 HHVDQT-VLKQA---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 216 ~~~~~~-~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
.....+ +.+.+ ..+++|+.++...+...+..+.+.+ .+++.+++++
T Consensus 156 ~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~~vp~dv~vvg~d 208 (261)
T cd06272 156 AEGGDNAAKKLLKESDLPTAIICGSYDIALGVLSALNKQGISIPEDIEIISYD 208 (261)
T ss_pred HHHHHHHHHHHHcCCCCCCEEEECCcHHHHHHHHHHHHhCCCCCCceEEEeeC
Confidence 111112 22223 2489999999888888888887654 3467777765
No 28
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), 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 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
Probab=96.65 E-value=0.054 Score=46.61 Aligned_cols=178 Identities=11% Similarity=0.028 Sum_probs=97.6
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~ 140 (262)
..+.+.++++|+.+.... .. .+.+.....++. -...|++|+++...-...+..+.+. +++++++|....
T Consensus 19 ~~i~~~~~~~g~~~~~~~---~~--~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~l~~~---~iPvv~~~~~~~- 89 (268)
T cd06273 19 QAFQETLAAHGYTLLVAS---SG--YDLDREYAQARKLLERGVDGLALIGLDHSPALLDLLARR---GVPYVATWNYSP- 89 (268)
T ss_pred HHHHHHHHHCCCEEEEec---CC--CCHHHHHHHHHHHHhcCCCEEEEeCCCCCHHHHHHHHhC---CCCEEEEcCCCC-
Confidence 346667888898887532 11 122211112211 2468999998765444444444443 678888885321
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC--------hhhHHHHHHhCCCeeeEEeeec
Q 024773 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA--------SNEIEEGLSNRGFEVVRLNTYT 211 (262)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~--------~~~L~~~L~~~G~~v~~i~vY~ 211 (262)
.. .+.. +.... ..+..+++.|.+. ..+++.++.+... ..-+.+.|+++|+.+....++.
T Consensus 90 ---~~------~~~~-v~~d~~~~~~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~ 157 (268)
T cd06273 90 ---DS------PYPC-VGFDNREAGRLAARHLIAL--GHRRIAMIFGPTQGNDRARARRAGVRAALAEAGLELPELWQVE 157 (268)
T ss_pred ---CC------CCCE-EEeChHHHHHHHHHHHHHC--CCCeEEEEeccccCCccHHHHHHHHHHHHHHcCCCCCHHHeee
Confidence 11 2221 22222 2345556666664 3478988876431 2345567888887655444443
Q ss_pred cccCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 212 TEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 212 ~~~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
........ ..+.+.+ ...++|+.++...+..+++.+.+.+ ..++.+++++
T Consensus 158 ~~~~~~~~~~~~~~~l~~~~~~~ai~~~~~~~a~~~~~~l~~~g~~~p~~i~vig~d 214 (268)
T cd06273 158 APYSIADGRAALRQLLEQPPRPTAVICGNDVLALGALYEARRLGLSVPEDLSIVGFD 214 (268)
T ss_pred CCCcHHHHHHHHHHHHcCCCCCCEEEEcChHHHHHHHHHHHHcCCCCCCceEEEecC
Confidence 22221111 1222223 2589999999998888888887654 2456676654
No 29
>cd06297 PBP1_LacI_like_12 Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs. Ligand-binding domain of uncharacterized transcription regulators from Thermus thermophilus and close homologs from other bacteria. 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.
Probab=96.61 E-value=0.073 Score=46.21 Aligned_cols=178 Identities=12% Similarity=0.043 Sum_probs=99.8
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
..+.+.++++|+++...+..... ...+.+...+ .-...|+||+++...-....+.+.+. +.+++++|...
T Consensus 19 ~~i~~~~~~~gy~~~~~~~~~~~--~~~~~~~~~l-~~~~vdgvi~~~~~~~~~~~~~l~~~---~iPvv~~~~~~---- 88 (269)
T cd06297 19 EGIEGALLEQRYDLALFPLLSLA--RLKRYLESTT-LAYLTDGLLLASYDLTERLAERRLPT---ERPVVLVDAEN---- 88 (269)
T ss_pred HHHHHHHHHCCCEEEEEeCCCcH--HHHHHHHHHH-HhcCCCEEEEecCccChHHHHHHhhc---CCCEEEEccCC----
Confidence 45666778889998876443111 0011122222 23579999999864333344444433 67899998631
Q ss_pred HHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCC-------------hhhHHHHHHhCCCeeeEEee
Q 024773 143 EEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA-------------SNEIEEGLSNRGFEVVRLNT 209 (262)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------------~~~L~~~L~~~G~~v~~i~v 209 (262)
. ++..........+...++.|.+. .++++++.+... ..-+.+.+++.|..+....+
T Consensus 89 --~------~~~~v~~d~~~~g~~a~~~L~~~---~~~i~~i~~~~~~~~~~~~~~~~~R~~gf~~~~~~~g~~~~~~~~ 157 (269)
T cd06297 89 --P------RFDSFYLDNRLGGRLAGAYLADF---PGRIGAITVEEEPDRAFRRTVFAERRAGFQQALKDAGRPFSPDLL 157 (269)
T ss_pred --C------CCCEEEECcHHHHHHHHHHHHHh---CCceEEEeCccccccccccccHHHHHHHHHHHHHHcCCCCChhhE
Confidence 2 33322222223455555666654 367887765432 23345677788877654333
Q ss_pred eccccCCCCh-HHHHHHcC---CCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 210 YTTEPVHHVD-QTVLKQAL---SIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 210 Y~~~~~~~~~-~~~~~~l~---~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
+......... ..+.+.+. ++++|+..+...+...+..+.+.+ ..++.+++++
T Consensus 158 ~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~vP~di~vvg~d 216 (269)
T cd06297 158 AITDHSEEGGRLAMRHLLEKASPPLAVFASADQQALGALQEAVELGLTVGEDVRVVGFD 216 (269)
T ss_pred EeCCCChhhHHHHHHHHHcCCCCCcEEEEcCcHHHHHHHHHHHHcCCCCCCceEEEEEC
Confidence 3332211111 22333332 579999999988888888887765 3477888775
No 30
>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=96.58 E-value=0.049 Score=46.75 Aligned_cols=178 Identities=12% Similarity=0.057 Sum_probs=98.2
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCC-chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPD-TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~-~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
.+.+.++++|+++.......- .+ .+.+...+ .-..+|++|+++.+.-......+.+ .+++++++|....
T Consensus 24 ~i~~~~~~~g~~~~~~~~~~~---~~~~~~~~~~~-~~~~vdgiii~~~~~~~~~~~~~~~---~~ipvV~~~~~~~--- 93 (268)
T cd06271 24 GLSEALAEHGYDLVLLPVDPD---EDPLEVYRRLV-ESGLVDGVIISRTRPDDPRVALLLE---RGFPFVTHGRTEL--- 93 (268)
T ss_pred HHHHHHHHCCceEEEecCCCc---HHHHHHHHHHH-HcCCCCEEEEecCCCCChHHHHHHh---cCCCEEEECCcCC---
Confidence 455667788988877754321 11 12233333 2256999999875432222333333 3678888875321
Q ss_pred HHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeecccc
Q 024773 143 EEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEP 214 (262)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~~ 214 (262)
.. .+.. +.... ..+...++.+.+. ..++++++.|... ..-+.+.++++|..+....++....
T Consensus 94 -~~------~~~~-V~~d~~~~~~~a~~~l~~~--g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~ 163 (268)
T cd06271 94 -GD------PHPW-VDFDNEAAAYQAVRRLIAL--GHRRIALLNPPEDLTFAQHRRAGYRRALAEAGLPLDPALIVSGDM 163 (268)
T ss_pred -CC------CCCe-EeeCcHHHHHHHHHHHHHc--CCCcEEEecCccccchHHHHHHHHHHHHHHhCCCCCCceEEeCCC
Confidence 12 2221 22333 2334555566554 2478998876543 2445567777777653333443222
Q ss_pred CCCChHH-HHHHc---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 215 VHHVDQT-VLKQA---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 215 ~~~~~~~-~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
......+ +.+.+ ..+++|+..+...+..+++.+++.+ ..++.+++++
T Consensus 164 ~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~vp~~i~iig~d 217 (268)
T cd06271 164 TEEGGYAAAAELLALPDRPTAIVCSSELMALGVLAALAEAGLRPGRDVSVVGFD 217 (268)
T ss_pred ChHHHHHHHHHHHhCCCCCCEEEEcCcHHHHHHHHHHHHhCCCCCcceeEEEec
Confidence 2111112 22223 2489999999988888888887765 2466777664
No 31
>COG1609 PurR Transcriptional regulators [Transcription]
Probab=96.50 E-value=0.059 Score=49.12 Aligned_cols=181 Identities=9% Similarity=0.015 Sum_probs=109.6
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
.-+.+.++++|+.+...+.-... .......+.+ ....+|+||+.+...-+.+.+.+.+. +++++.+|....
T Consensus 78 ~gi~~~~~~~gy~~~l~~~~~~~--~~e~~~~~~l-~~~~vdGiIi~~~~~~~~~~~~l~~~---~~P~V~i~~~~~--- 148 (333)
T COG1609 78 KGIEEAAREAGYSLLLANTDDDP--EKEREYLETL-LQKRVDGLILLGERPNDSLLELLAAA---GIPVVVIDRSPP--- 148 (333)
T ss_pred HHHHHHHHHcCCEEEEECCCCCH--HHHHHHHHHH-HHcCCCEEEEecCCCCHHHHHHHHhc---CCCEEEEeCCCc---
Confidence 34556777889999887765511 1112222233 23679999999955555555555554 678999997544
Q ss_pred HHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCee-eEEeeecccc
Q 024773 143 EEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEV-VRLNTYTTEP 214 (262)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v-~~i~vY~~~~ 214 (262)
.. ++..+..-....+..+++.|.+.. .+++.++.|... ..-+.+.|.++|..+ ..........
T Consensus 149 -~~------~~~~V~~Dn~~~~~~a~~~L~~~G--~~~i~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~~~~i~~~~~~ 219 (333)
T COG1609 149 -GL------GVPSVGIDNFAGAYLATEHLIELG--HRRIAFIGGPLDSSASRERLEGYRAALREAGLPINPEWIVEGDFS 219 (333)
T ss_pred -cC------CCCEEEEChHHHHHHHHHHHHHCC--CceEEEEeCCCccccHhHHHHHHHHHHHHCCCCCCcceEEecCCC
Confidence 23 444433333345566677777643 478999999731 355778899999876 3333322221
Q ss_pred CCCChHHHHHHc---CC-CCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 215 VHHVDQTVLKQA---LS-IPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 215 ~~~~~~~~~~~l---~~-~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
...-...+.+.+ .. .++|++.+-..+-..+..+.+.+ ..++.|++++
T Consensus 220 ~~~g~~~~~~ll~~~~~~ptAif~~nD~~Alg~l~~~~~~g~~vP~disviGfD 273 (333)
T COG1609 220 EESGYEAAERLLARGEPRPTAIFCANDLMALGALRALRELGLRVPEDLSVIGFD 273 (333)
T ss_pred hHHHHHHHHHHHhcCCCCCcEEEEcCcHHHHHHHHHHHHcCCCCCCeeEEEEec
Confidence 111112233333 23 89999999999999998877665 2345565543
No 32
>cd06286 PBP1_CcpB_like Ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. This group includes the ligand-binding domain of a novel transcription factor implicated in catabolite repression in Bacillus and Clostridium species. CcpB is 30% identical in sequence to CcpA which functions as the major transcriptional regulator of carbon catabolite repression/regulation (CCR), a process in which enzymes necessary for the metabolism of alternative sugars are inhibited in the presence of glucose. Like CcpA, the DNA-binding protein CcpB exerts its catabolite-repressing effect by a mechanism dependent on the presence of HPr(Ser-P), the small phosphocarrier proteins of the phosphoenolpyruvate-sugar phosphotransferase system, but with a less significant degree.
Probab=96.49 E-value=0.081 Score=45.35 Aligned_cols=178 Identities=11% Similarity=0.020 Sum_probs=97.7
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
..+.+.++++|+++...+.... + ....++...+ .....|+||+.+...-...++.+.+. . +++.++..+.
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~-~-~~~~~~i~~l-~~~~vdgiii~~~~~~~~~~~~~~~~---~-pvv~~~~~~~--- 88 (260)
T cd06286 19 DGIEKAALKHGYKVVLLQTNYD-K-EKELEYLELL-KTKQVDGLILCSRENDWEVIEPYTKY---G-PIVLCEEYDS--- 88 (260)
T ss_pred HHHHHHHHHcCCEEEEEeCCCC-h-HHHHHHHHHH-HHcCCCEEEEeCCCCCHHHHHHHhcC---C-CEEEEecccC---
Confidence 3455667778988876543111 0 0111111222 22568999997653211223333322 3 7888886432
Q ss_pred HHhhhhcCCCCceeecCC-CCCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeecccc
Q 024773 143 EEVIQSSKCSLDVAFSPS-KATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEP 214 (262)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~-~~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~~ 214 (262)
. ++.. +... ...+...++.|.+.. .++++++.|... .+-+.+.|++.|..+....+|....
T Consensus 89 --~------~~~~-v~~d~~~~~~~~~~~l~~~g--~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~~~~~~~~~i~~~~~ 157 (260)
T cd06286 89 --K------NISS-VYIDHYEAFYEALKYLIQKG--YRKIAYCIGRKKSLNSQSRKKAYKDALEEYGLTPDEEWIFEGCF 157 (260)
T ss_pred --C------CCCE-EEECChHHHHHHHHHHHHCC--CceEEEEcCCcccchhHHHHHHHHHHHHHcCCCCChHheEeCCC
Confidence 3 4433 2232 234556666676643 478999987643 3345567888886654333333222
Q ss_pred CCCChHHHHHH-c---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 215 VHHVDQTVLKQ-A---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 215 ~~~~~~~~~~~-l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
......+..+. + ..+++|++.+...+..++..+.+.+ ..++.+++++
T Consensus 158 ~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~~ip~di~v~g~d 211 (260)
T cd06286 158 TIEDGERIGHQLLKMKDRPDAIFTGSDEVAAGIITEAKKQGIRVPEDLAIIGFD 211 (260)
T ss_pred CHHHHHHHHHHHHcCCCCCCEEEEcchHHHHHHHHHHHHcCCCCCcceEEEeec
Confidence 11111122222 2 2689999999999988888888765 3467777764
No 33
>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=96.47 E-value=0.056 Score=46.60 Aligned_cols=180 Identities=11% Similarity=0.046 Sum_probs=97.1
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFE 143 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~ 143 (262)
.+.+.++++|+++.......-. ....+..+.+ .-..+|+||+++...-...++.+.+ .+++++++|.....
T Consensus 20 gi~~~~~~~g~~~~~~~~~~~~--~~~~~~i~~l-~~~~~dgiii~~~~~~~~~~~~~~~---~~ipvV~i~~~~~~--- 90 (270)
T cd06296 20 GVEEAAAAAGYDVVLSESGRRT--SPERQWVERL-SARRTDGVILVTPELTSAQRAALRR---TGIPFVVVDPAGDP--- 90 (270)
T ss_pred HHHHHHHHcCCeEEEecCCCch--HHHHHHHHHH-HHcCCCEEEEecCCCChHHHHHHhc---CCCCEEEEecccCC---
Confidence 3455677789887665432111 0111111122 1257999999876432222333333 37799999854211
Q ss_pred HhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccccC
Q 024773 144 EVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEPV 215 (262)
Q Consensus 144 ~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~~~ 215 (262)
.. ++. .+.+.. ..++...+.+.+. ..+++.++.|... .+-+.+.+++.|..+....++.....
T Consensus 91 ~~------~~~-~v~~d~~~~~~~a~~~l~~~--g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~ 161 (270)
T cd06296 91 DA------DVP-SVGATNWAGGLAATEHLLEL--GHRRIGFITGPPDLLCSRARLDGYRAALAEAGIPVDPALVREGDFS 161 (270)
T ss_pred CC------CCC-EEEeCcHHHHHHHHHHHHHc--CCCcEEEEcCCCcchhHHHHHHHHHHHHHHcCCCCChHHheeCCCC
Confidence 01 222 122222 2345555566554 2478988887643 24455677777766543333332222
Q ss_pred CCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 216 HHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 216 ~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
.... ..+.+.+ ..+++|+..+...+..+++.+.+.+ ..++.|++++
T Consensus 162 ~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~~~p~~i~v~~~d 214 (270)
T cd06296 162 TESGFRAAAELLALPERPTAIFAGNDLMALGVYEAARERGLRIPEDLSVVGFD 214 (270)
T ss_pred HHHHHHHHHHHHhCCCCCcEEEEcCcHHHHHHHHHHHHhCCCCCCceEEEEEC
Confidence 1111 1122222 3689999999999988988888765 2467777765
No 34
>cd06283 PBP1_RegR_EndR_KdgR_like Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR. Ligand-binding domain of DNA transcription repressor RegR and other putative regulators such as KdgR and EndR, all of which are members of the LacI-GalR family of bacterial transcription regulators. RegR regulates bacterial competence and the expression of virulence factors, including hyaluronidase. 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 b
Probab=96.40 E-value=0.14 Score=43.80 Aligned_cols=179 Identities=10% Similarity=0.065 Sum_probs=95.3
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~ 140 (262)
..+.+.++++|+.+..... . .+.+.....++. -..+|+|++.....-...++.+.. .+++++++|....
T Consensus 19 ~~i~~~a~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~~dgiii~~~~~~~~~l~~~~~---~~ipvV~~~~~~~- 89 (267)
T cd06283 19 KGIEDVCRAHGYQVLVCNS---D--NDPEKEKEYLESLLAYQVDGLIVNPTGNNKELYQRLAK---NGKPVVLVDRKIP- 89 (267)
T ss_pred HHHHHHHHHcCCEEEEEcC---C--CCHHHHHHHHHHHHHcCcCEEEEeCCCCChHHHHHHhc---CCCCEEEEcCCCC-
Confidence 3456677788988764322 1 122221222222 257999999875422222333333 3678999986421
Q ss_pred HHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCC--------hhhHHHHHHhCCCeeeEEeeecc
Q 024773 141 IFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA--------SNEIEEGLSNRGFEVVRLNTYTT 212 (262)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~--------~~~L~~~L~~~G~~v~~i~vY~~ 212 (262)
.. ++.....-....++.+++.|.+.. .++++++.|... ..-+.+.+++.|..+....+...
T Consensus 90 ---~~------~~~~v~~d~~~~g~~~~~~l~~~g--~~~i~~l~~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~ 158 (267)
T cd06283 90 ---EL------GVDTVTLDNYEAAKEAVDHLIEKG--YERILFVTEPLDEISPRMERYEGFKEALAEHGIGVNEELIEID 158 (267)
T ss_pred ---CC------CCCEEEeccHHHHHHHHHHHHHcC--CCcEEEEecCccccccHHHHHHHHHHHHHHcCCCCCcceeEec
Confidence 22 333212112234566667776543 468888866432 13445677777754332222211
Q ss_pred ccCCCCh-HHHHHHcC---CCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 213 EPVHHVD-QTVLKQAL---SIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 213 ~~~~~~~-~~~~~~l~---~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
....... ..+.+.+. .+++|+.++...+..++..+.+.+ ..++.|++++
T Consensus 159 ~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~vp~di~v~g~d 214 (267)
T cd06283 159 DEDADELDERLRQLLNKPKKKTAIFAANGLILLEVLKALKELGIRIPEDVGLIGFD 214 (267)
T ss_pred ccchHHHHHHHHHHHcCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCccceEEEEeC
Confidence 1111111 12222232 589999999998888888887665 2356777664
No 35
>cd06270 PBP1_GalS_like Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand binding domain of DNA transcription iso-repressor GalS, which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalS is a dimeric protein like GalR,and its major role is in regulating expression of the high-affinity galactose transporter encoded by the mgl operon, whereas GalR is the exclusive regulator of galactose permease, the low-affinity galactose transporter. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are homologous to the periplasmic sugar bindi
Probab=96.37 E-value=0.12 Score=44.67 Aligned_cols=177 Identities=7% Similarity=-0.008 Sum_probs=96.1
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (262)
-+.+.++++|+.+...... .+.+.-...++. -..+|+||+++..-=...++.+.. .++++++++....
T Consensus 20 g~~~~a~~~g~~~~~~~~~-----~~~~~~~~~i~~~~~~~vdgii~~~~~~~~~~~~~~~~---~~ipvV~~~~~~~-- 89 (268)
T cd06270 20 GVESVARKAGKHLIITAGH-----HSAEKEREAIEFLLERRCDALILHSKALSDDELIELAA---QVPPLVLINRHIP-- 89 (268)
T ss_pred HHHHHHHHCCCEEEEEeCC-----CchHHHHHHHHHHHHcCCCEEEEecCCCCHHHHHHHhh---CCCCEEEEeccCC--
Confidence 3456677889988754321 111111122211 257999999864211112333333 2678888885321
Q ss_pred HHHhhhhcCCCCceeecCC-CCCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccc
Q 024773 142 FEEVIQSSKCSLDVAFSPS-KATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTE 213 (262)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~-~~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~ 213 (262)
.. +... +... ...++.+++.|.+. ..++++++.+... ..-+.+.++++|..++...++...
T Consensus 90 --~~------~~~~-v~~d~~~~~~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~ 158 (268)
T cd06270 90 --GL------ADRC-IWLDNEQGGYLATEHLIEL--GHRKIACITGPLTKEDARLRLQGYRDALAEAGIALDESLIIEGD 158 (268)
T ss_pred --CC------CCCe-EEECcHHHHHHHHHHHHHC--CCceEEEEeCCcccccHHHHHHHHHHHHHHcCCCCCcceEEECC
Confidence 11 2221 2222 23455666666654 3478888877543 233566778888765433333322
Q ss_pred cCCCChHH-HHHHc---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 214 PVHHVDQT-VLKQA---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 214 ~~~~~~~~-~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
.......+ +.+.+ ..+++|+.++...+..+++.+.+.+ ..++.+++++
T Consensus 159 ~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~ip~di~v~g~d 213 (268)
T cd06270 159 FTEEGGYAAMQELLARGAPFTAVFCANDEMAAGAISALREHGISVPQDVSIIGFD 213 (268)
T ss_pred CCHHHHHHHHHHHHhCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCCceeEEEec
Confidence 22111112 22223 2579999999989888888887654 2467788876
No 36
>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=96.35 E-value=0.17 Score=43.51 Aligned_cols=177 Identities=9% Similarity=0.025 Sum_probs=98.4
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (262)
.+.+.++++|+++....... +.+...+.+. ....+|+|++.+.+.-......+.. .++++++++....
T Consensus 20 ~~~~~~~~~g~~~~~~~~~~-----~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~~---~~ipvV~~~~~~~-- 89 (264)
T cd06274 20 RLEALARERGYQLLIACSDD-----DPETERETVETLIARQVDALIVAGSLPPDDPYYLCQK---AGLPVVALDRPGD-- 89 (264)
T ss_pred HHHHHHHHCCCEEEEEeCCC-----CHHHHHHHHHHHHHcCCCEEEEcCCCCchHHHHHHHh---cCCCEEEecCccC--
Confidence 34466778899887654322 2111112221 1357999998875421111333333 2678999976532
Q ss_pred HHHhhhhcCCCCceeecCCCC-CHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccc
Q 024773 142 FEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTE 213 (262)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~ 213 (262)
.. ++.. +....+ .+..+++.+.+. ..++++++.|... ..-+.+.++++|..+....++...
T Consensus 90 --~~------~~~~-V~~d~~~~g~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~ 158 (264)
T cd06274 90 --PS------RFPS-VVSDNRDGAAELTRELLAA--PPEEVLFLGGLPELSPSRERLAGFRQALADAGLPVQPDWIYAEG 158 (264)
T ss_pred --CC------CCCE-EEEccHHHHHHHHHHHHHC--CCCcEEEEeCCCcccchHHHHHHHHHHHHHcCCCCCcceeecCC
Confidence 22 2322 222332 235556666653 3478999988654 234556777777655444444432
Q ss_pred cCCCChHH-HHHHc----CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 214 PVHHVDQT-VLKQA----LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 214 ~~~~~~~~-~~~~l----~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
.......+ +.+.+ ..+++|+..+...+..++..+.+.+ ..++.|++++
T Consensus 159 ~~~~~~~~~~~~~l~~~~~~~~ai~~~~d~~A~g~~~al~~~g~~ip~dv~v~g~d 214 (264)
T cd06274 159 YSPESGYQLMAELLARLGRLPRALFTTSYTLLEGVLRFLRERPGLAPSDLRIATFD 214 (264)
T ss_pred CChHHHHHHHHHHHccCCCCCcEEEEcChHHHHHHHHHHHHcCCCCCcceEEEEeC
Confidence 22211111 22222 2479999999899988888888765 2467888775
No 37
>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=96.33 E-value=0.17 Score=43.66 Aligned_cols=180 Identities=12% Similarity=0.049 Sum_probs=96.2
Q ss_pred HHHHHHHh-CCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhH
Q 024773 64 KLIKALAK-HRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGT 138 (262)
Q Consensus 64 ~l~~~L~~-~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~T 138 (262)
.+.+.+++ .|+++...... .+.+.....+.. -...|++|+.+.. ........+.+. +++++.+|...
T Consensus 20 gi~~~~~~~~~~~~~~~~~~-----~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~~~l~~~---~iPvv~~~~~~ 91 (272)
T cd06301 20 AMKEHAKVLGGVELQFEDAK-----NDVATQLSQVENFIAQGVDAIIVVPVDTAATAPIVKAANAA---GIPLVYVNRRP 91 (272)
T ss_pred HHHHHHHHcCCcEEEEeCCC-----CCHHHHHHHHHHHHHcCCCEEEEecCchhhhHHHHHHHHHC---CCeEEEecCCC
Confidence 34556667 78777765331 122211222221 2468999987654 234444444443 67899888643
Q ss_pred HHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeee
Q 024773 139 ASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTY 210 (262)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY 210 (262)
... .. ++.. +.... ..+..+++.|.+.....++++++.|... ..-+.+.|++.| .+....++
T Consensus 92 ~~~--~~------~~~~-V~~d~~~~g~~~~~~l~~~~~~~~~i~~i~~~~~~~~~~~R~~gf~~~l~~~~-~~~~~~~~ 161 (272)
T cd06301 92 ENA--PK------GVAY-VGSDEVVAGRLQAEYVADKLGGKGNVAILMGPLGQSAQIDRTKGVEEVLAKYP-DIKVVEEQ 161 (272)
T ss_pred CCC--CC------eeEE-EecChHHHHHHHHHHHHHHhCCCccEEEEECCCCCccHHHHHHHHHHHHHHCC-CcEEEecC
Confidence 211 12 3322 22222 3445556666654222368999987643 244566787777 33333333
Q ss_pred ccccCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCC--CCCeEEEEC
Q 024773 211 TTEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQ--WSNSVACIA 261 (262)
Q Consensus 211 ~~~~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~--~~~~i~~IG 261 (262)
......... ..+.+.+ ..+++|+..+...+...++.+.+.+. .++.|++++
T Consensus 162 ~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~~~~di~ivg~d 218 (272)
T cd06301 162 TANWSRAEAMDLMENWLSSGGKIDAVVANNDEMALGAIMALKAAGKSDKDVPVAGID 218 (272)
T ss_pred CCCccHHHHHHHHHHHHHhCCCCCEEEECCCchHHHHHHHHHHcCCCCCCcEEEeeC
Confidence 222111111 1222223 35899999898888888888877653 266777664
No 38
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which 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 repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=96.32 E-value=0.11 Score=44.54 Aligned_cols=181 Identities=8% Similarity=0.019 Sum_probs=96.2
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
..+.+.++++|+++.....-. .....+.+...+ .-..+|+||+.+...-....+.+.+. ++++++++.....
T Consensus 24 ~~~~~~~~~~g~~~~~~~~~~--~~~~~~~~~~~~-~~~~~dgiii~~~~~~~~~~~~~~~~---~ipvV~~~~~~~~-- 95 (270)
T cd06294 24 RGISAVANENGYDISLATGKN--EEELLEEVKKMI-QQKRVDGFILLYSREDDPIIDYLKEE---KFPFVVIGKPEDD-- 95 (270)
T ss_pred HHHHHHHHHCCCEEEEecCCC--cHHHHHHHHHHH-HHcCcCEEEEecCcCCcHHHHHHHhc---CCCEEEECCCCCC--
Confidence 345567778898886432111 000012222223 22469999998754333444444433 6789999853211
Q ss_pred HHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeE-Eeeeccc
Q 024773 143 EEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVR-LNTYTTE 213 (262)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~-i~vY~~~ 213 (262)
.. ++.. +.... ..+..+++.|.+. ..++++++.|... ..-+.+.+++.|..... +..+...
T Consensus 96 -~~------~~~~-v~~d~~~~g~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~ 165 (270)
T cd06294 96 -KE------NITY-VDNDNIQAGYDATEYLIKL--GHKKIAFVGGDLDLEVTQDRLQGYKQALEDHGIPDRNEVIISLDF 165 (270)
T ss_pred -CC------CCCe-EEECcHHHHHHHHHHHHHc--CCccEEEecCCcccHHHHHHHHHHHHHHHHcCCCCCcceEEecCC
Confidence 01 2221 22222 3445666667665 3478999987654 23345677777753322 1211111
Q ss_pred cCCCChHHHHHHcC---CCCEEEEeCHHHHHHHHHHhcccCC---CCCeEEEEC
Q 024773 214 PVHHVDQTVLKQAL---SIPVVAVASPSAVRSWVNLISDTEQ---WSNSVACIA 261 (262)
Q Consensus 214 ~~~~~~~~~~~~l~---~~d~ivFtS~s~~~~~~~~~~~~~~---~~~~i~~IG 261 (262)
........+.+.+. ++++|+..+...+...+..+.+.+. .++.+++.+
T Consensus 166 ~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~iP~dv~vig~d 219 (270)
T cd06294 166 SEEGGYKALKKLLEQHPRPTAIVATDDLLALGVLKVLNELGLKVPEDLSIIGFN 219 (270)
T ss_pred chHHHHHHHHHHHhCCCCCCEEEECChHHHHHHHHHHHHcCCCCCcceEEEeeC
Confidence 11111112223232 5899999999888888888877652 456677654
No 39
>cd06305 PBP1_methylthioribose_binding_like Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Methylthioribose-binding protein-like of ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) 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. The sugar-binding domain of the periplasmic proteins in this group is also homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR), DNA-binding transcriptional repressors such as LacI and GalR.
Probab=96.27 E-value=0.12 Score=44.55 Aligned_cols=181 Identities=10% Similarity=-0.010 Sum_probs=93.7
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCH--HHHHHHHHHHHHcCCCCcEEEEeChhH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSP--EAGSVFLEAWKEAGTPNVRIGVVGAGT 138 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~--~aV~~f~~~l~~~~~~~~~i~aVG~~T 138 (262)
..+.+.++++|+++...+. ..-++ .+.++..+ -..+|+||+.+. ......+..+.+. ++++++++...
T Consensus 19 ~gi~~~~~~~g~~~~~~~~---~~~~~~~~~~l~~~~--~~~vdgii~~~~~~~~~~~~i~~~~~~---~ipvV~~~~~~ 90 (273)
T cd06305 19 AGTKAEAEALGGDLRVYDA---GGDDAKQADQIDQAI--AQKVDAIIIQHGRAEVLKPWVKRALDA---GIPVVAFDVDS 90 (273)
T ss_pred HHHHHHHHHcCCEEEEECC---CCCHHHHHHHHHHHH--HcCCCEEEEecCChhhhHHHHHHHHHc---CCCEEEecCCC
Confidence 3456678889998876432 11111 11222223 247999999764 3444555555543 67888887542
Q ss_pred HHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCC------hhhHHHHHHhCC-CeeeEEeeec
Q 024773 139 ASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA------SNEIEEGLSNRG-FEVVRLNTYT 211 (262)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~------~~~L~~~L~~~G-~~v~~i~vY~ 211 (262)
.. . ++..........+..+++.+.+.....+++.++.+... ..-+.+.+++.| ..+.......
T Consensus 91 ~~----~------~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~g~~~~~~~~~~~~~~~~~~~~ 160 (273)
T cd06305 91 DN----P------KVNNTTQDDYSLARLSLDQLVKDLGGKGNVGYVNVAGFPPLDRRYDVWQAVLKAYPGIKEVAELGDV 160 (273)
T ss_pred CC----C------ccceeeechHHHHHHHHHHHHHHhCCCCCEEEEEccCCchHHHHHHHHHHHHHHCCCcEEecccccc
Confidence 21 2 33221112223345555666653223478888876521 124455677666 4432211111
Q ss_pred cccCCCC-hHHHHHHc---CCC--CEEEEeCHHHHHHHHHHhcccCCC-CCeEEEEC
Q 024773 212 TEPVHHV-DQTVLKQA---LSI--PVVAVASPSAVRSWVNLISDTEQW-SNSVACIA 261 (262)
Q Consensus 212 ~~~~~~~-~~~~~~~l---~~~--d~ivFtS~s~~~~~~~~~~~~~~~-~~~i~~IG 261 (262)
....... ...+.+.+ ..+ ++|+..+...+...+..+++.+.. ++.+++++
T Consensus 161 ~~~~~~~~~~~~~~~l~~~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~~di~iig~d 217 (273)
T cd06305 161 SNNTAQDAAAQVEAVLKKYPKGGIDAIWAAWDEFAKGAKQALDEAGRTDEIKIYGVD 217 (273)
T ss_pred cccchhHHHHHHHHHHHHCCCcccCeEEEcChhhhHHHHHHHHHcCCCCCceEEEec
Confidence 1111111 11222222 246 888888888888888888776533 56666554
No 40
>cd01542 PBP1_TreR_like Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor specific for trehalose (TreR) which is a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of TreR 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 wh
Probab=96.16 E-value=0.09 Score=44.97 Aligned_cols=174 Identities=16% Similarity=0.109 Sum_probs=94.0
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~ 140 (262)
..+.+.++++|+++...+.- .+.+.....++. ...+|++|+++..........+.+. +++++.+|....
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~-----~~~~~~~~~i~~l~~~~~dgii~~~~~~~~~~~~~~~~~---~ipvv~~~~~~~- 89 (259)
T cd01542 19 KGILAALYENGYQMLLMNTN-----FSIEKEIEALELLARQKVDGIILLATTITDEHREAIKKL---NVPVVVVGQDYP- 89 (259)
T ss_pred HHHHHHHHHCCCEEEEEeCC-----CCHHHHHHHHHHHHhcCCCEEEEeCCCCCHHHHHHHhcC---CCCEEEEeccCC-
Confidence 34556777889887654321 121211122221 2579999998754333344444433 578998885321
Q ss_pred HHHHhhhhcCCCCceeecCC-CCCHHHHHHHhhhCCCCccEEEEEccCCC--------hhhHHHHHHhCCCeeeEEeeec
Q 024773 141 IFEEVIQSSKCSLDVAFSPS-KATGKILASELPKNGKKKCTVLYPASAKA--------SNEIEEGLSNRGFEVVRLNTYT 211 (262)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~-~~t~e~L~~~l~~~~~~g~~vL~~~g~~~--------~~~L~~~L~~~G~~v~~i~vY~ 211 (262)
. +.. +... ...+..+++.+.+. ..+++.++.+... ...+.+.+++.|. ....++.
T Consensus 90 ----~-------~~~-v~~d~~~~~~~~~~~l~~~--g~~~i~~v~~~~~~~~~~~~r~~gf~~~~~~~~~--~~~~~~~ 153 (259)
T cd01542 90 ----G-------ISS-VVYDDYGAGYELGEYLAQQ--GHKNIAYLGVSESDIAVGILRKQGYLDALKEHGI--CPPNIVE 153 (259)
T ss_pred ----C-------CCE-EEECcHHHHHHHHHHHHHc--CCCcEEEEcCCcccchhHHHHHHHHHHHHHHcCC--ChHHeee
Confidence 1 211 2222 23455666667663 3478888865421 2345667777776 1222232
Q ss_pred cccCCCChHH-HHHHcC-C-CCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 212 TEPVHHVDQT-VLKQAL-S-IPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 212 ~~~~~~~~~~-~~~~l~-~-~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
.........+ +.+.+. . +++|+.++...+..+++.+.+.+ ..++.++++|
T Consensus 154 ~~~~~~~~~~~~~~~l~~~~~~~i~~~~d~~a~g~~~~l~~~g~~vp~di~v~g~d 209 (259)
T cd01542 154 TDFSYESAYEAAQELLEPQPPDAIVCATDTIALGAMKYLQELGRRIPEDISVAGFG 209 (259)
T ss_pred ccCchhhHHHHHHHHhcCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCCceEEEecC
Confidence 2221111112 223232 2 79999999888888888887664 2356676665
No 41
>cd06279 PBP1_LacI_like_3 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=96.16 E-value=0.17 Score=44.31 Aligned_cols=175 Identities=11% Similarity=0.082 Sum_probs=98.2
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
..+.+.++++|+++..++... +.+.++ .+ .....|++|+++...-...++.+... +++++++|....
T Consensus 24 ~gi~~~a~~~g~~~~~~~~~~-----~~~~~~-~~-~~~~~dgiii~~~~~~~~~~~~~~~~---~ipvV~~~~~~~--- 90 (283)
T cd06279 24 AGVAEVLDAAGVNLLLLPASS-----EDSDSA-LV-VSALVDGFIVYGVPRDDPLVAALLRR---GLPVVVVDQPLP--- 90 (283)
T ss_pred HHHHHHHHHCCCEEEEecCcc-----HHHHHH-HH-HhcCCCEEEEeCCCCChHHHHHHHHc---CCCEEEEecCCC---
Confidence 345677788999988776532 112222 22 23679999998753323334444333 678988885321
Q ss_pred HHhhhhcCCCCceeecCC-CCCHHHHHHHhhhCCCCccEEEEEccCC------------------------ChhhHHHHH
Q 024773 143 EEVIQSSKCSLDVAFSPS-KATGKILASELPKNGKKKCTVLYPASAK------------------------ASNEIEEGL 197 (262)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~-~~t~e~L~~~l~~~~~~g~~vL~~~g~~------------------------~~~~L~~~L 197 (262)
. ++.. +... ...+...++.|.+.. .+++.++.+.. ...-+.+.+
T Consensus 91 --~------~~~~-v~~d~~~~g~~~~~~L~~~g--~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~R~~gf~~~~ 159 (283)
T cd06279 91 --P------GVPS-VGIDDRAAAREAARHLLDLG--HRRIGILGLRLGRDRNTGRVTDERLASATFSVARERLEGYLEAL 159 (283)
T ss_pred --C------CCCE-EeeCcHHHHHHHHHHHHHcC--CCcEEEecCcccccccccccccccccccccccHHHHHHHHHHHH
Confidence 2 3322 2222 234555566666643 47888887642 123455678
Q ss_pred HhCCCeeeEEeeeccccCC-CChHH-HHHHc---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 198 SNRGFEVVRLNTYTTEPVH-HVDQT-VLKQA---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 198 ~~~G~~v~~i~vY~~~~~~-~~~~~-~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
++.|.......+|...... ....+ +.+.+ ..+++|+.++-..+...++.+.+.+ ..++.+++++
T Consensus 160 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~gv~~al~~~g~~ip~di~vig~d 231 (283)
T cd06279 160 EEAGIDISDVPIWEIPENDRASGEEAARELLDASPRPTAILCMSDVLALGALQVARELGLRVPEDLSVVGFD 231 (283)
T ss_pred HHcCCCCChheEEecCCCchHHHHHHHHHHHcCCCCCcEEEECCcHHHHHHHHHHHHcCCCCCCceEEeeeC
Confidence 8888665444444321111 11111 22223 2578888888888888888777654 3467787775
No 42
>cd01545 PBP1_SalR Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor SalR, a member of the LacI-GalR family of bacterial transcription regulators. The SalR binds to glucose based compound Salicin which is chemically related to aspirin. The ligand-binding of SalR is structurally homologous to the periplasmic sugar-binding domain of ABC-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 bind
Probab=96.15 E-value=0.17 Score=43.52 Aligned_cols=180 Identities=11% Similarity=0.080 Sum_probs=94.4
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHH-HHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEA-GSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~a-V~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
.+.+.++++|+++.......-.. .....+.+.+ ....+|+||+++.+. ....++.+.+ .+++++.+|.....
T Consensus 20 gi~~~~~~~g~~~~~~~~~~~~~-~~~~~~~~~l-~~~~vdgiii~~~~~~~~~~~~~~~~---~~ipvv~i~~~~~~-- 92 (270)
T cd01545 20 GALDACRDTGYQLVIEPCDSGSP-DLAERVRALL-QRSRVDGVILTPPLSDNPELLDLLDE---AGVPYVRIAPGTPD-- 92 (270)
T ss_pred HHHHHHHhCCCeEEEEeCCCCch-HHHHHHHHHH-HHCCCCEEEEeCCCCCccHHHHHHHh---cCCCEEEEecCCCC--
Confidence 34566778898887654322110 0111222223 225799999987643 2333444433 36789988854211
Q ss_pred HHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCCh-------hhHHHHHHhCCCeeeEEeeecccc
Q 024773 143 EEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTEP 214 (262)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~i~vY~~~~ 214 (262)
. .+.. +.... ..+...++.+.+. ..+++.++.+.... .-+.+.+++.|..+....++....
T Consensus 93 --~------~~~~-V~~d~~~~g~~a~~~l~~~--g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~ 161 (270)
T cd01545 93 --P------DSPC-VRIDDRAAAREMTRHLIDL--GHRRIAFIAGPPDHRASAERLEGYRDALAEAGLPLDPELVAQGDF 161 (270)
T ss_pred --C------CCCe-EEeccHHHHHHHHHHHHHC--CCceEEEEeCCCCchhHHHHHHHHHHHHHHcCCCCChhhEEeCCC
Confidence 2 2221 12222 2345555666554 35788888776542 224556667776553222222111
Q ss_pred CCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 215 VHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 215 ~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
..... +.+.+.+ ..+++|+.++...+..+++.+.+.+ ..++.+++++
T Consensus 162 ~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~~~~~~~~~~g~~~p~~i~vig~d 215 (270)
T cd01545 162 TFESGLEAAEALLALPDRPTAIFASNDDMAAGVLAVAHRRGLRVPDDLSVVGFD 215 (270)
T ss_pred ChhhHHHHHHHHHhCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCCceEEEEEC
Confidence 11111 2222223 2589999999888888888887764 2355666553
No 43
>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=96.12 E-value=0.13 Score=44.49 Aligned_cols=178 Identities=10% Similarity=-0.012 Sum_probs=94.7
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCH--HHHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSP--EAGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~--~aV~~f~~~l~~~~~~~~~i~aVG~~Ta 139 (262)
.+.+.++++|+++.....-. ..+...-.+.+.. ....|+||+... ..+....+.+.+. +++++.+|....
T Consensus 20 gi~~~~~~~g~~~~~~~~~~---~~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~~~~~---~iPvV~~~~~~~ 93 (275)
T cd06320 20 GYENEAKKLGVSVDIQAAPS---EGDQQGQLSIAENMINKGYKGLLFSPISDVNLVPAVERAKKK---GIPVVNVNDKLI 93 (275)
T ss_pred HHHHHHHHhCCeEEEEccCC---CCCHHHHHHHHHHHHHhCCCEEEECCCChHHhHHHHHHHHHC---CCeEEEECCCCC
Confidence 45567778898877543211 0111111112211 246899988653 2334444555443 678999886421
Q ss_pred HHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhC-CCeeeEEeee
Q 024773 140 SIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNR-GFEVVRLNTY 210 (262)
Q Consensus 140 ~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~-G~~v~~i~vY 210 (262)
. . ... .+.... ..++.+++.+.+.....++++++.|... .+-+.+.++++ |+++.....+
T Consensus 94 ~----~------~~~-~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~ 162 (275)
T cd06320 94 P----N------ATA-FVGTDNKANGVRGAEWIIDKLAEGGKVAIIEGKAGAFAAEQRTEGFTEAIKKASGIEVVASQPA 162 (275)
T ss_pred C----c------cce-EEecCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHHHHhhCCCcEEEEecCC
Confidence 1 1 121 122332 2355556666654323468988877432 24567788888 8766432211
Q ss_pred ccccCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCC-CCCeEEEE
Q 024773 211 TTEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQ-WSNSVACI 260 (262)
Q Consensus 211 ~~~~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~-~~~~i~~I 260 (262)
. ...... ..+.+.+ .++++|++.+-..+..+++.+.+.+. .++.++++
T Consensus 163 ~--~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~~di~vig~ 215 (275)
T cd06320 163 D--WDREKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVKNAGKQGKVLVVGT 215 (275)
T ss_pred C--ccHHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHHhcCCCCCeEEEec
Confidence 1 111111 1222223 36899999998988888888876543 24555554
No 44
>cd06285 PBP1_LacI_like_7 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=96.11 E-value=0.12 Score=44.52 Aligned_cols=176 Identities=12% Similarity=0.051 Sum_probs=94.9
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~ 140 (262)
..+.+.++++|+.+...+.. .+.+...+.++ ....+|+||+.+...-...+..+... +++++++|....
T Consensus 19 ~gi~~~~~~~~~~~~~~~~~-----~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~~~~~~~~~---~iPvv~~~~~~~- 89 (265)
T cd06285 19 EGIEEAAAERGYSTFVANTG-----DNPDAQRRAIEMLLDRRVDGLILGDARSDDHFLDELTRR---GVPFVLVLRHAG- 89 (265)
T ss_pred HHHHHHHHHCCCEEEEEeCC-----CCHHHHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHHc---CCCEEEEccCCC-
Confidence 34566778889886543221 12111112221 23579999987644322233334332 678999986431
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeecc
Q 024773 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTT 212 (262)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~ 212 (262)
.. .. +.... ..+...++.|.+.. .+++.++.|... ..-+.+.+++.|..+....++..
T Consensus 90 ---~~--------~~-V~~d~~~ag~~a~~~L~~~g--~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~ 155 (265)
T cd06285 90 ---TS--------PA-VTGDDVLGGRLATRHLLDLG--HRRIAVLAGPDYASTARDRLAGFRAALAEAGIEVPPERIVYS 155 (265)
T ss_pred ---CC--------CE-EEeCcHHHHHHHHHHHHHCC--CccEEEEeCCcccccHHHHHHHHHHHHHHcCCCCChhhEEeC
Confidence 11 11 12222 34455556666543 478888887654 23445567777776543222222
Q ss_pred ccCCCCh-HHHHHHcC---CCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 213 EPVHHVD-QTVLKQAL---SIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 213 ~~~~~~~-~~~~~~l~---~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
....... ..+.+.+. ..++|+.++...+..+++.+.+++ ..++.+++++
T Consensus 156 ~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~~p~di~iig~d 211 (265)
T cd06285 156 GFDIEGGEAAAEKLLRSDSPPTAIFAVNDFAAIGVMGAARDRGLRVPDDVALVGYN 211 (265)
T ss_pred CCCHHHHHHHHHHHHcCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCcceEEEeec
Confidence 2111111 12222232 579999999999988888888765 2456666654
No 45
>cd06281 PBP1_LacI_like_5 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=96.11 E-value=0.18 Score=43.50 Aligned_cols=176 Identities=11% Similarity=0.058 Sum_probs=95.9
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHH-HHHHHHHHHcCCCCcEEEEeChhHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAG-SVFLEAWKEAGTPNVRIGVVGAGTAS 140 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV-~~f~~~l~~~~~~~~~i~aVG~~Ta~ 140 (262)
.+.+.++++|+++...... .+.+.....+.. -..+|++|+++.+.- ..+.+.+.+. +++++.++....
T Consensus 20 ~i~~~a~~~g~~~~~~~~~-----~~~~~~~~~i~~l~~~~vdgii~~~~~~~~~~~~~~~~~~---~ipvV~i~~~~~- 90 (269)
T cd06281 20 GAEDRLRAAGYSLLIANSL-----NDPERELEILRSFEQRRMDGIIIAPGDERDPELVDALASL---DLPIVLLDRDMG- 90 (269)
T ss_pred HHHHHHHHcCCEEEEEeCC-----CChHHHHHHHHHHHHcCCCEEEEecCCCCcHHHHHHHHhC---CCCEEEEecccC-
Confidence 4556778889988755321 122211122221 257999999875321 2334444443 678999986431
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeecc
Q 024773 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTT 212 (262)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~ 212 (262)
. ++.. +.... ..+...++.|.+.. .+++++++|... ..-+.+.++++|..+.....|..
T Consensus 91 ----~------~~~~-V~~d~~~~g~~a~~~l~~~G--~~~i~~l~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~ 157 (269)
T cd06281 91 ----G------GADA-VLFDHAAGMRQAVEYLISLG--HRRIALVGGGSNTRPGRERLEGYKAAFAAAGLPPDPALVRLS 157 (269)
T ss_pred ----C------CCCE-EEECcHHHHHHHHHHHHHCC--CcEEEEecCccccccHHHHHHHHHHHHHHcCCCCCHHHeecC
Confidence 2 2222 22222 23355566666542 468998887532 24456778888876533223322
Q ss_pred ccCCCChHHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 213 EPVHHVDQTVLKQA---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 213 ~~~~~~~~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
...+...+.+.+.+ ..+|+|+.+|...+...++.+.+.+ ..++.+++.+
T Consensus 158 ~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~ip~dv~iig~d 212 (269)
T cd06281 158 TPAASGFDATRALLALPDRPTAIIAGGTQVLVGVLRALREAGLRIPRDLSVISIG 212 (269)
T ss_pred cHHHHHHHHHHHHHcCCCCCcEEEEcCcHHHHHHHHHHHHcCCCCCcceeEEEec
Confidence 11111111222223 2589999888888888888887665 2466777765
No 46
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=96.11 E-value=0.081 Score=45.86 Aligned_cols=184 Identities=13% Similarity=0.068 Sum_probs=96.6
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~Ta~ 140 (262)
..+.+.++++|+++.......... ...+.++..+ ...+|+||+.+.+ .+...++.+.+. +++++.++..-..
T Consensus 19 ~~~~~~a~~~g~~~~~~~~~~~~~-~~~~~i~~l~--~~~vdgiIi~~~~~~~~~~~i~~~~~~---~iPvV~~~~~~~~ 92 (273)
T cd06309 19 KSIKDAAEKRGFDLKFADAQQKQE-NQISAIRSFI--AQGVDVIILAPVVETGWDPVLKEAKAA---GIPVILVDRGVDV 92 (273)
T ss_pred HHHHHHHHhcCCEEEEeCCCCCHH-HHHHHHHHHH--HcCCCEEEEcCCccccchHHHHHHHHC---CCCEEEEecCcCC
Confidence 456677788999998765432110 0011122222 2579999997754 224455555443 6788888852110
Q ss_pred HHHHhhhhcCCCCceeecCCCC-CHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCC-CeeeEEeeec
Q 024773 141 IFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRG-FEVVRLNTYT 211 (262)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G-~~v~~i~vY~ 211 (262)
.... ..-..+....+ .+..+++.+.+.....++++++.|... ..-+.+.|++++ ..+ ..++.
T Consensus 93 -~~~~------~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~~~~~~--~~~~~ 163 (273)
T cd06309 93 -KDDS------LYVTFIGSDFVEEGRRAADWLAKATGGKGNIVELQGTVGSSVAIDRKKGFAEVIKKYPNMKI--VASQT 163 (273)
T ss_pred -ccCc------ceeeEecCChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCchHHHHHHHHHHHHHHCCCCEE--eeccC
Confidence 0001 11111233332 334455566554323478999987643 344566777653 332 22222
Q ss_pred cccCCCCh-HHHHHHc---C-CCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 212 TEPVHHVD-QTVLKQA---L-SIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 212 ~~~~~~~~-~~~~~~l---~-~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
........ +.+.+.+ . .+++|+.++...+...+..+.+.+ ..++.+++++
T Consensus 164 ~~~~~~~~~~~~~~~l~~~~~~~~aI~~~~d~~a~g~~~a~~~~g~~ip~di~iig~d 221 (273)
T cd06309 164 GDFTRAKGKEVMEALLKAHGDDIDAVYAHNDEMALGAIQAIKAAGKKPGKDIKIVSID 221 (273)
T ss_pred CcccHHHHHHHHHHHHHhCCCCccEEEECCcHHHHHHHHHHHHcCCCCCCCeEEEecC
Confidence 22111111 1122223 2 589998888888888888877665 2467777765
No 47
>cd06292 PBP1_LacI_like_10 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=96.06 E-value=0.18 Score=43.49 Aligned_cols=182 Identities=11% Similarity=-0.001 Sum_probs=96.3
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH-----HHHHHHHHHHHcCCCCcEEEEeChh
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE-----AGSVFLEAWKEAGTPNVRIGVVGAG 137 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~-----aV~~f~~~l~~~~~~~~~i~aVG~~ 137 (262)
..+.+.++++|+++...+...-. ....+..+.+. -..+|++|+++.. +....+..+.+ .+++++++|..
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~~~~--~~~~~~i~~l~-~~~vdgiIi~~~~~~~~~~~~~~i~~~~~---~~ipvV~i~~~ 92 (273)
T cd06292 19 EAIEAALAQYGYTVLLCNTYRGG--VSEADYVEDLL-ARGVRGVVFISSLHADTHADHSHYERLAE---RGLPVVLVNGR 92 (273)
T ss_pred HHHHHHHHHCCCEEEEEeCCCCh--HHHHHHHHHHH-HcCCCEEEEeCCCCCcccchhHHHHHHHh---CCCCEEEEcCC
Confidence 34566777889888644322110 01112222221 2579999997632 22233343433 36789999864
Q ss_pred HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeee
Q 024773 138 TASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTY 210 (262)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY 210 (262)
... .. .+.....-....+..+++.|.+.. .++++++.|... ..-+.+.++++|..+....++
T Consensus 93 ~~~---~~------~~~~V~~d~~~~~~~~~~~l~~~g--~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~i~ 161 (273)
T cd06292 93 APP---PL------KVPHVSTDDALAMRLAVRHLVALG--HRRIGFASGPGRTVPRRRKIAGFRAALEEAGLEPPEALVA 161 (273)
T ss_pred CCC---CC------CCCEEEECcHHHHHHHHHHHHHCC--CceEEEEeCCcccccHHHHHHHHHHHHHHcCCCCChhheE
Confidence 321 12 232211112234455556666542 478888877532 234556777777654332232
Q ss_pred ccccCCCChHHHH-HHcC-CCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 211 TTEPVHHVDQTVL-KQAL-SIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 211 ~~~~~~~~~~~~~-~~l~-~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
..........+.. +.+. .+++|+..+...+..+++.+.+.+ ..++.+++++
T Consensus 162 ~~~~~~~~~~~~~~~~l~~~~~ai~~~~d~~a~g~~~~l~~~g~~ip~di~ii~~d 217 (273)
T cd06292 162 RGMFSVEGGQAAAVELLGSGPTAIVAASDLMALGAIRAARRRGLRVPEDVSVVGYD 217 (273)
T ss_pred eCCCCHHHHHHHHHHHhcCCCCEEEEcCcHHHHHHHHHHHHcCCCCCcceEEEeeC
Confidence 2222111112222 2232 489999999888888888887765 2467777765
No 48
>cd06290 PBP1_LacI_like_9 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=95.97 E-value=0.21 Score=42.84 Aligned_cols=176 Identities=10% Similarity=0.018 Sum_probs=95.5
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (262)
.+.+.++++|+.+...+.. .+.+.....+. .-..+|++|+.+...-......+. .+++++.+|....
T Consensus 20 gi~~~~~~~gy~~~~~~~~-----~~~~~~~~~i~~l~~~~~dgiii~~~~~~~~~~~~~~----~~iPvV~i~~~~~-- 88 (265)
T cd06290 20 GMERGLNGSGYSPIIATGH-----WNQSRELEALELLKSRRVDALILLGGDLPEEEILALA----EEIPVLAVGRRVP-- 88 (265)
T ss_pred HHHHHHHHCCCEEEEEeCC-----CCHHHHHHHHHHHHHCCCCEEEEeCCCCChHHHHHHh----cCCCEEEECCCcC--
Confidence 3456777889888765432 12221122222 125699999886432222222221 2678999996421
Q ss_pred HHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccc
Q 024773 142 FEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTE 213 (262)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~ 213 (262)
.. ++.. +.... ..+..+++.|.+.. .+++.++.|... ..-+.+.+.+.|..+....++...
T Consensus 89 --~~------~~~~-V~~d~~~a~~~~~~~l~~~g--~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~ 157 (265)
T cd06290 89 --GP------GAAS-IAVDNFQGGYLATQHLIDLG--HRRIAHITGPRGHIDARDRLAGYRKALEEAGLEVQPDLIVQGD 157 (265)
T ss_pred --CC------CCCE-EEECcHHHHHHHHHHHHHCC--CCeEEEEeCccccchhhHHHHHHHHHHHHcCCCCCHHHEEecC
Confidence 12 3321 22222 33455556666543 478888877643 233455666777655432222211
Q ss_pred cCCCCh-HHHHHHcC---CCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 214 PVHHVD-QTVLKQAL---SIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 214 ~~~~~~-~~~~~~l~---~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
...... ..+.+.+. .+++|+.++...+..+++.+.+.+ .+++.+++++
T Consensus 158 ~~~~~~~~~~~~~l~~~~~~~aii~~~~~~a~~~~~~l~~~g~~ip~di~vi~~d 212 (265)
T cd06290 158 FEEESGLEAVEELLQRGPDFTAIFAANDQTAYGARLALYRRGLRVPEDVSLIGFD 212 (265)
T ss_pred CCHHHHHHHHHHHHcCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCcceEEeeec
Confidence 111111 12333332 589999999999988888888765 2467787765
No 49
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=95.95 E-value=0.23 Score=41.92 Aligned_cols=180 Identities=11% Similarity=0.078 Sum_probs=93.7
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHH-HHHHHHHcCCCCcEEEEeChhHHHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSV-FLEAWKEAGTPNVRIGVVGAGTASI 141 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~-f~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (262)
..+.+.++++|+++...+.-... -...+.++..+ . .++|++|+.+...-.. .+..+.+ .+++++.++.....
T Consensus 19 ~g~~~~~~~~g~~l~~~~~~~~~-~~~~~~~~~~~-~-~~~d~ii~~~~~~~~~~~~~~l~~---~~ip~v~~~~~~~~- 91 (264)
T cd01537 19 KGIEEAAKAAGYQVLLANSQNDA-EKQLSALENLI-A-RGVDGIIIAPSDLTAPTIVKLARK---AGIPVVLVDRDIPD- 91 (264)
T ss_pred HHHHHHHHHcCCeEEEEeCCCCH-HHHHHHHHHHH-H-cCCCEEEEecCCCcchhHHHHhhh---cCCCEEEeccCCCC-
Confidence 34556677788876655432110 00011122222 2 4799999877543322 2343333 36788888765442
Q ss_pred HHHhhhhcCCCCceeecCC-CCCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccc
Q 024773 142 FEEVIQSSKCSLDVAFSPS-KATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTE 213 (262)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~-~~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~ 213 (262)
.. .+.. +... ...+..+++.+.+.. .++++++.+... ...+.+.+++.| .+.....+...
T Consensus 92 --~~------~~~~-v~~d~~~~~~~~~~~l~~~g--~~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~ 159 (264)
T cd01537 92 --GD------RVPS-VGSDNEQAGYLAGEHLAEKG--HRRIALLAGPLGSSTARERVAGFKDALKEAG-PIEIVLVQEGD 159 (264)
T ss_pred --Cc------ccce-EecCcHHHHHHHHHHHHHhc--CCcEEEEECCCCCCcHHHHHHHHHHHHHHcC-CcChhhhccCC
Confidence 11 2221 2222 234555666666543 478888877543 455666777776 22222222212
Q ss_pred cCCCCh-HHHHHHcC---CCCEEEEeCHHHHHHHHHHhcccCC---CCCeEEEEC
Q 024773 214 PVHHVD-QTVLKQAL---SIPVVAVASPSAVRSWVNLISDTEQ---WSNSVACIA 261 (262)
Q Consensus 214 ~~~~~~-~~~~~~l~---~~d~ivFtS~s~~~~~~~~~~~~~~---~~~~i~~IG 261 (262)
...... ..+.+.+. ++|+++.++...+..+++.+.+.+. .++.+++.+
T Consensus 160 ~~~~~~~~~~~~~l~~~~~~~~i~~~~~~~a~~~~~~~~~~g~~i~~~i~i~~~d 214 (264)
T cd01537 160 WDAEKGYQAAEELLTAHPDPTAIFAANDDMALGALRALREAGLRVPDDISVIGFD 214 (264)
T ss_pred CCHHHHHHHHHHHHhcCCCCCEEEEcCcHHHHHHHHHHHHhCCCCCCCeEEEeec
Confidence 111111 12222232 3899999998888878888876542 356666653
No 50
>TIGR01481 ccpA catabolite control protein A. Catabolite control protein A is a LacI family global transcriptional regulator found in Gram-positive bacteria. CcpA is involved in repressing carbohydrate utilization genes [ex: alpha-amylase (amyE), acetyl-coenzyme A synthase (acsA)] and in activating genes involved in transporting excess carbon from the cell [ex: acetate kinase (ackA), alpha-acetolactate synthase (alsS)]. Additionally, disruption of CcpA in Bacillus megaterium, Staphylococcus xylosus, Lactobacillus casei and Lactocacillus pentosus also decreases growth rate, which suggests CcpA is involved in the regulation of other metabolic pathways.
Probab=95.92 E-value=0.39 Score=42.88 Aligned_cols=176 Identities=14% Similarity=0.058 Sum_probs=94.9
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 65 l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
+.+.++++|+.+.....- .+.+.....+. .-..+|+||+.+...-......+.+. +++++.+|...
T Consensus 81 i~~~~~~~g~~~~i~~~~-----~~~~~~~~~~~~l~~~~vdGiIi~~~~~~~~~~~~l~~~---~iPvV~~~~~~---- 148 (329)
T TIGR01481 81 IEDIATMYKYNIILSNSD-----EDPEKEVQVLNTLLSKQVDGIIFMGGTITEKLREEFSRS---PVPVVLAGTVD---- 148 (329)
T ss_pred HHHHHHHcCCEEEEEeCC-----CCHHHHHHHHHHHHhCCCCEEEEeCCCCChHHHHHHHhc---CCCEEEEecCC----
Confidence 345566789887654211 12111112221 12579999987643223333334333 57888887532
Q ss_pred HHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC--------hhhHHHHHHhCCCeeeEEeeeccc
Q 024773 143 EEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA--------SNEIEEGLSNRGFEVVRLNTYTTE 213 (262)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~--------~~~L~~~L~~~G~~v~~i~vY~~~ 213 (262)
... ++.. +.... ..+..+++.|.+. ..+++.++.|... ..-+.+.|+++|..+....++...
T Consensus 149 ~~~------~~~~-V~~D~~~~~~~a~~~L~~~--G~~~I~~i~g~~~~~~~~~~R~~Gf~~~l~~~g~~~~~~~~~~~~ 219 (329)
T TIGR01481 149 KEN------ELPS-VNIDYKQATKEAVGELIAK--GHKSIAFVGGPLSDSINGEDRLEGYKEALNKAGIQFGEDLVCEGK 219 (329)
T ss_pred CCC------CCCE-EEECcHHHHHHHHHHHHHC--CCCeEEEEecCcccccchHHHHHHHHHHHHHcCCCCCcceEEecC
Confidence 122 3322 22333 2345556666654 2478888876432 133556788888876554333322
Q ss_pred cCCCChHH-HHHHcC-CCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 214 PVHHVDQT-VLKQAL-SIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 214 ~~~~~~~~-~~~~l~-~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
.......+ +.+.+. ..++|+..+-..+..+++.+.+.+ ..++.|++++
T Consensus 220 ~~~~~~~~~~~~ll~~~p~ai~~~~d~~A~g~~~al~~~g~~vP~dvsvvgfd 272 (329)
T TIGR01481 220 YSYDAGYKAFAELKGSLPTAVFVASDEMAAGILNAAMDAGIKVPEDLEVITSN 272 (329)
T ss_pred CChHHHHHHHHHHhCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCCceEEEeeC
Confidence 22111122 222233 579999999988888888887765 3467777764
No 51
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=95.91 E-value=0.49 Score=42.10 Aligned_cols=178 Identities=10% Similarity=0.051 Sum_probs=97.0
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (262)
.+.+.++++|+++...+. . .+.+...+.+.. -..+|+||+++...-......+... .+++++.+|...
T Consensus 77 gi~~~~~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdGiI~~~~~~~~~~~~~l~~~--~~iPvV~i~~~~--- 146 (327)
T PRK10423 77 GVERSCFERGYSLVLCNT---E--GDEQRMNRNLETLMQKRVDGLLLLCTETHQPSREIMQRY--PSVPTVMMDWAP--- 146 (327)
T ss_pred HHHHHHHHcCCEEEEEeC---C--CCHHHHHHHHHHHHHcCCCEEEEeCCCcchhhHHHHHhc--CCCCEEEECCcc---
Confidence 345667788988765332 1 122211122221 2569999998754322222223221 367899998521
Q ss_pred HHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccc
Q 024773 142 FEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTE 213 (262)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~ 213 (262)
... +... +.... ..+..+++.|.+.. .++++++.|... ..-+.+.|+++|..+....++...
T Consensus 147 -~~~------~~~~-v~~d~~~~~~~a~~~L~~~G--~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~~~~~~~~~ 216 (327)
T PRK10423 147 -FDG------DSDL-IQDNSLLGGDLATQYLIDKG--YTRIACITGPLDKTPARLRLEGYRAAMKRAGLNIPDGYEVTGD 216 (327)
T ss_pred -CCC------CCCE-EEEChHHHHHHHHHHHHHcC--CCeEEEEeCCccccchHHHHHHHHHHHHHcCCCCCcceEEeCC
Confidence 111 2222 22332 23566666676643 478999877532 344567888888765443232221
Q ss_pred cCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 214 PVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 214 ~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
...... ..+.+.+ ..+++|+.++-..+..+++.+.+.+ ..++.+++++
T Consensus 217 ~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~~~~l~~~g~~vP~dvsvigfd 271 (327)
T PRK10423 217 FEFNGGFDAMQQLLALPLRPQAVFTGNDAMAVGVYQALYQAGLSVPQDIAVIGYD 271 (327)
T ss_pred CChHHHHHHHHHHhcCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCCceEEEEeC
Confidence 111111 1222323 2579999999999888888888765 3477777765
No 52
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which 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=95.91 E-value=0.59 Score=39.96 Aligned_cols=176 Identities=11% Similarity=0.103 Sum_probs=93.2
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~Ta 139 (262)
.+.+.++++|+++...... .+.+.....++. -..+|++++.+.. ... .++.+... +++++.++....
T Consensus 20 g~~~~a~~~g~~~~~~~~~-----~~~~~~~~~i~~~~~~~vdgiii~~~~~~~~~-~~~~~~~~---~ipvV~~~~~~~ 90 (268)
T cd06289 20 GLEEVLEEAGYTVFLANSG-----EDVERQEQLLSTMLEHGVAGIILCPAAGTSPD-LLKRLAES---GIPVVLVAREVA 90 (268)
T ss_pred HHHHHHHHcCCeEEEecCC-----CChHHHHHHHHHHHHcCCCEEEEeCCCCccHH-HHHHHHhc---CCCEEEEeccCC
Confidence 3445677789876543211 122211122222 2578999997642 233 33434333 678888874321
Q ss_pred HHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeec
Q 024773 140 SIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYT 211 (262)
Q Consensus 140 ~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~ 211 (262)
. . ++.. +.... ..++..++.+.+. ..++++++.+... .+-+.+.+++.|..+....++.
T Consensus 91 ~----~------~~~~-v~~d~~~~~~~~~~~l~~~--g~~~i~~l~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~ 157 (268)
T cd06289 91 G----A------PFDY-VGPDNAAGARLATEHLISL--GHRRIAFIGGLEDSSTRRERLAGYRAALAEAGLPFDSELVVE 157 (268)
T ss_pred C----C------CCCE-EeecchHHHHHHHHHHHHC--CCCCEEEecCCccccchHHHHHHHHHHHHHcCCCCCchhEEe
Confidence 1 2 2221 22222 2345555666554 2467888876533 2445567777775544433332
Q ss_pred cccCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCC---CCCeEEEEC
Q 024773 212 TEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQ---WSNSVACIA 261 (262)
Q Consensus 212 ~~~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~---~~~~i~~IG 261 (262)
........ ..+.+.+ ..+++|+.++...+...++.+++.+. .++.+++++
T Consensus 158 ~~~~~~~~~~~~~~~l~~~~~~~~i~~~~~~~a~~~~~al~~~g~~~p~di~iig~d 214 (268)
T cd06289 158 GPPSRQGGAEAVAQLLDLPPRPTAIVCFNDLVAFGAMSGLRRAGLTPGRDIAVVGFD 214 (268)
T ss_pred cCcchhhHHHHHHHHHcCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCcceEEEeec
Confidence 22221111 1222223 26899999999988888888877652 356776654
No 53
>cd06288 PBP1_sucrose_transcription_regulator Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of DNA-binding regulatory proteins specific to sucrose 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=95.90 E-value=0.16 Score=43.57 Aligned_cols=178 Identities=10% Similarity=-0.050 Sum_probs=95.6
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFE 143 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~ 143 (262)
.+.+.++++|+++...+...-. ....+..+.+ ....+|+||+++...-. ....... .+++++.+|..+..
T Consensus 21 ~i~~~~~~~g~~~~~~~~~~~~--~~~~~~~~~l-~~~~~dgiii~~~~~~~-~~~~~~~---~~ipvv~~~~~~~~--- 90 (269)
T cd06288 21 GAQDAAREHGYLLLVVNTGGDD--ELEAEAVEAL-LDHRVDGIIYATMYHRE-VTLPPEL---LSVPTVLLNCYDAD--- 90 (269)
T ss_pred HHHHHHHHCCCEEEEEeCCCCH--HHHHHHHHHH-HHcCCCEEEEecCCCCh-hHHHHHh---cCCCEEEEecccCC---
Confidence 3456677889887655432110 0001111122 12578999998753211 1111211 36788888865321
Q ss_pred HhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccccC
Q 024773 144 EVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEPV 215 (262)
Q Consensus 144 ~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~~~ 215 (262)
. .+.. +.+.. ..+..+++.+.+. ..++++++.+... ..-+.+.++++|..+....++.....
T Consensus 91 -~------~~~~-v~~d~~~~~~~a~~~l~~~--g~~~i~~l~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~ 160 (269)
T cd06288 91 -G------ALPS-VVPDEEQGGYDATRHLLAA--GHRRIAFINGEPWMLAAKDRLKGYRQALAEAGIPFDPDLVVHGDWS 160 (269)
T ss_pred -C------CCCe-EEEccHHHHHHHHHHHHHc--CCceEEEEeCCccchhHHHHHHHHHHHHHHcCCCCCHHHeEeCCCC
Confidence 2 2322 22332 3456666667664 3478999877654 23345567777765543333322222
Q ss_pred CCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 216 HHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 216 ~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
.... ..+.+.+ ..+|+|+.+|...+..+++.+.+.+ ..++.+++.+
T Consensus 161 ~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~~vp~di~v~g~d 213 (269)
T cd06288 161 ADDGYEAAAALLDLDDRPTAIFCGNDRMAMGAYQALLERGLRIPQDVSVVGFD 213 (269)
T ss_pred hHHHHHHHHHHHhCCCCCCEEEEeCcHHHHHHHHHHHHcCCCCcccceEEeeC
Confidence 1111 1222223 2589999999999988888887665 2466777664
No 54
>cd06310 PBP1_ABC_sugar_binding_like_2 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=95.87 E-value=0.21 Score=43.08 Aligned_cols=181 Identities=15% Similarity=0.107 Sum_probs=95.9
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHH--HHHHHHHHHHcCCCCcEEEEeChhH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEA--GSVFLEAWKEAGTPNVRIGVVGAGT 138 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~a--V~~f~~~l~~~~~~~~~i~aVG~~T 138 (262)
..+.+.++++|+.+........ .+.+...+.+.. ...+|++|+.+... ....+..+.. .+++++.++...
T Consensus 19 ~g~~~~~~~~g~~~~~~~~~~~---~~~~~~~~~i~~l~~~~vdgvii~~~~~~~~~~~l~~~~~---~~ipvV~~~~~~ 92 (273)
T cd06310 19 AGAEAAAKELGVKVTFQGPASE---TDVAGQVNLLENAIARGPDAILLAPTDAKALVPPLKEAKD---AGIPVVLIDSGL 92 (273)
T ss_pred HHHHHHHHHcCCEEEEecCccC---CCHHHHHHHHHHHHHhCCCEEEEcCCChhhhHHHHHHHHH---CCCCEEEecCCC
Confidence 3455667788988876542111 122211122211 24799999976432 2333343333 367888887532
Q ss_pred HHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhC-CCeeeEEee
Q 024773 139 ASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNR-GFEVVRLNT 209 (262)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~-G~~v~~i~v 209 (262)
.. .. .+.. +.... ..+..+++.+.+.....++++++.|... ..-+.+.+++. |..+.. .
T Consensus 93 ~~---~~------~~~~-v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~a~~~~~~~~~~~--~ 160 (273)
T cd06310 93 NS---DI------AVSF-VATDNVAAGKLAAEALAELLGKKGKVAVISFVPGSSTTDQREEGFLEGLKEYPGIEIVA--T 160 (273)
T ss_pred CC---Cc------ceEE-EeeChHHHHHHHHHHHHHHcCCCceEEEEeCCCCCccHHHHHHHHHHHHHhCCCcEEEe--c
Confidence 11 12 2222 22333 2345566666665323478998877543 24455678777 766543 2
Q ss_pred eccccCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCC-CCCeEEEEC
Q 024773 210 YTTEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQ-WSNSVACIA 261 (262)
Q Consensus 210 Y~~~~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~-~~~~i~~IG 261 (262)
+......... ..+.+.+ ..+++|++.|...+..+++.+++.+. .++.|++++
T Consensus 161 ~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~g~~~~l~~~g~~~di~vig~d 217 (273)
T cd06310 161 QYSDSDYAKALDITEDLLTANPDLKGIFGANEGSAVGAARAVRQAGKAGKVKVVGFD 217 (273)
T ss_pred ccCCcCHHHHHHHHHHHHHhCCCceEEEecCchhHHHHHHHHHhcCCCCCeEEEEeC
Confidence 2211111111 1222223 25899999999989888888876653 356666554
No 55
>cd06275 PBP1_PurR Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. Ligand-binding domain of purine repressor, PurR, which functions as the master regulatory protein of de novo purine nucleotide biosynthesis in Escherichia coli. This dimeric PurR belongs to the LacI-GalR family of transcription regulators and is activated to bind to DNA operator sites by initially binding either of high affinity corepressors, hypoxanthine or guanine. PurR is composed of two functional domains: aan 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 purine transcription repressor undergoes a
Probab=95.78 E-value=0.41 Score=41.10 Aligned_cols=178 Identities=10% Similarity=0.034 Sum_probs=94.1
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (262)
.+.+.+++.|+++...+. . .+.+...+.+.. ....|+||+++...-......+.. ..+++++.+|....
T Consensus 20 gi~~~~~~~g~~~~~~~~---~--~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~l~~--~~~ipvV~i~~~~~-- 90 (269)
T cd06275 20 GVEQYCYRQGYNLILCNT---E--GDPERQRSYLRMLAQKRVDGLLVMCSEYDQPLLAMLER--YRHIPMVVMDWGPE-- 90 (269)
T ss_pred HHHHHHHHcCCEEEEEeC---C--CChHHHHHHHHHHHHcCCCEEEEecCCCChHHHHHHHh--cCCCCEEEEecccC--
Confidence 344566778988764321 1 122221222221 257899999875322222222222 13678999986422
Q ss_pred HHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccc
Q 024773 142 FEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTE 213 (262)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~ 213 (262)
.. ++.. +.... ..++.+++.+.+.. .++++++.|... ..-+.+.+++.|..+.....+...
T Consensus 91 --~~------~~~~-V~~d~~~~~~~~~~~l~~~G--~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~ 159 (269)
T cd06275 91 --DD------FADK-IQDNSEEGGYLATRHLIELG--HRRIGCITGPLEKAPAQQRLAGFRRAMAEAGLPVNPGWIVEGD 159 (269)
T ss_pred --CC------CCCe-EeeCcHHHHHHHHHHHHHCC--CceEEEEeCCCCCccHHHHHHHHHHHHHHcCCCCCHHHhccCC
Confidence 12 2221 12222 23455556666542 478998877543 233566777777665432222221
Q ss_pred cCCCCh-HHHHHHcC---CCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 214 PVHHVD-QTVLKQAL---SIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 214 ~~~~~~-~~~~~~l~---~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
...... ..+.+.+. .+++|+.++...+..++..+.+.+ ..++.+++++
T Consensus 160 ~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~vp~di~vvg~d 214 (269)
T cd06275 160 FECEGGYEAMQRLLAQPKRPTAVFCGNDLMAMGALCAAQEAGLRVPQDLSIIGYD 214 (269)
T ss_pred CChHHHHHHHHHHHcCCCCCcEEEECChHHHHHHHHHHHHcCCCCCcceEEEEeC
Confidence 111111 12223232 589999999999888888887664 2466777765
No 56
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=95.63 E-value=0.21 Score=44.96 Aligned_cols=179 Identities=10% Similarity=0.024 Sum_probs=96.8
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (262)
.+.+.++++|+++...+.. .+.+.....+. .....|+||+.....-....+.+... .+++++.++-...
T Consensus 80 gi~~~~~~~g~~~~~~~~~-----~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~~l~~~--~~iPvV~~d~~~~-- 150 (341)
T PRK10703 80 AVEKNCYQKGYTLILCNAW-----NNLEKQRAYLSMLAQKRVDGLLVMCSEYPEPLLAMLEEY--RHIPMVVMDWGEA-- 150 (341)
T ss_pred HHHHHHHHCCCEEEEEeCC-----CCHHHHHHHHHHHHHcCCCEEEEecCCCCHHHHHHHHhc--CCCCEEEEecccC--
Confidence 3455666789887655321 12211112221 12568999987643223333444431 2678888874221
Q ss_pred HHHhhhhcCCCCceeecCCCC-CHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccc
Q 024773 142 FEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTE 213 (262)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~ 213 (262)
.. ++...+.+..+ .+...++.|.+.. .++++++.|... ..-+.+.|+++|..+....++...
T Consensus 151 --~~------~~~~~v~~d~~~~g~~a~~~L~~~G--~~~i~~i~~~~~~~~~~~R~~Gf~~~l~~~gi~~~~~~~~~~~ 220 (341)
T PRK10703 151 --KA------DFTDAIIDNAFEGGYLAGRYLIERG--HRDIGVIPGPLERNTGAGRLAGFMKAMEEANIKVPEEWIVQGD 220 (341)
T ss_pred --Cc------CCCCeEEECcHHHHHHHHHHHHHCC--CCcEEEEeCCccccchHHHHHHHHHHHHHcCCCCChHHeEeCC
Confidence 11 21111223322 3456666666543 468988877543 234556788888766543333222
Q ss_pred cCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 214 PVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 214 ~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
...... +.+.+.+ ..+|+|++++...+...+..+.+.+ ..++.+++++
T Consensus 221 ~~~~~~~~~~~~~l~~~~~~~ai~~~nd~~a~g~~~al~~~g~~ip~dv~vvgfD 275 (341)
T PRK10703 221 FEPESGYEAMQQILSQKHRPTAVFCGGDIMAMGAICAADEMGLRVPQDISVIGYD 275 (341)
T ss_pred CCHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHHHcCCCCCCceEEEEEC
Confidence 111111 1222223 2589999999999888888887765 3467777764
No 57
>cd06316 PBP1_ABC_sugar_binding_like_7 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=95.62 E-value=0.24 Score=43.49 Aligned_cols=185 Identities=10% Similarity=0.058 Sum_probs=92.5
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 65 l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
+.+.++++|+++..+..-...+....+.+...+ ....|+||+.+.. ..+..++.+.+. +++++.++.... ..
T Consensus 21 i~~~a~~~g~~~~~~~~~~~~~~~~~~~l~~~~--~~~~dgiii~~~~~~~~~~~i~~~~~~---~iPvV~~~~~~~-~~ 94 (294)
T cd06316 21 AKDEFAKLGIEVVATTDAQFDPAKQVADIETTI--SQKPDIIISIPVDPVSTAAAYKKVAEA---GIKLVFMDNVPS-GL 94 (294)
T ss_pred HHHHHHHcCCEEEEecCCCCCHHHHHHHHHHHH--HhCCCEEEEcCCCchhhhHHHHHHHHc---CCcEEEecCCCc-cc
Confidence 456677889888743111111100011122222 2568999885532 234444555443 678888875321 11
Q ss_pred HH-hhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccc
Q 024773 143 EE-VIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTE 213 (262)
Q Consensus 143 ~~-~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~ 213 (262)
.. . ++...+.... ..+..+++.|.+.....+++.++.++.. ..-+.+.|++++..+..+......
T Consensus 95 ~~~~------~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~~~~~ 168 (294)
T cd06316 95 EHGK------DYAGIVTDDNYGNGQIAADALAKALPGKGKVGLIYHGADYFVTNQRDQGFKETIKKNYPDITIVAEKGID 168 (294)
T ss_pred ccCc------ceEEEEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCcccHHHHHHHHHHHHHHhCCCcEEEeecCCc
Confidence 11 1 1111122222 2344455555554323578988877543 233445666554322222111111
Q ss_pred cCCCChHHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCCCCCeEEEEC
Q 024773 214 PVHHVDQTVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQWSNSVACIA 261 (262)
Q Consensus 214 ~~~~~~~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~~~~~i~~IG 261 (262)
........+.+.+ ..+++|+.++-..+...++.+.+.+..++.++++|
T Consensus 169 ~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~di~vvg~d 219 (294)
T cd06316 169 GPSKAEDIANAMLTQNPDLKGIYAVWDVPAEGVIAALRAAGRDDIKVTTVD 219 (294)
T ss_pred chhHHHHHHHHHHHhCCCeeEEEeCCCchhHHHHHHHHHcCCCCceEEEeC
Confidence 0111111222223 35788998888899999999887765567777765
No 58
>cd06284 PBP1_LacI_like_6 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group includes the ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors and 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.
Probab=95.61 E-value=0.43 Score=40.77 Aligned_cols=178 Identities=10% Similarity=-0.010 Sum_probs=94.5
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~ 140 (262)
..+.+.++++|+.+..+... .+.+.....++ .-...|++|+++...-......+ . .+++++.++....
T Consensus 19 ~~i~~~~~~~g~~~~~~~~~-----~~~~~~~~~~~~~~~~~vdgiii~~~~~~~~~~~~~-~---~~ipvv~~~~~~~- 88 (267)
T cd06284 19 KGIEDEAREAGYGVLLGDTR-----SDPEREQEYLDLLRRKQADGIILLDGSLPPTALTAL-A---KLPPIVQACEYIP- 88 (267)
T ss_pred HHHHHHHHHcCCeEEEecCC-----CChHHHHHHHHHHHHcCCCEEEEecCCCCHHHHHHH-h---cCCCEEEEecccC-
Confidence 45666777889888654321 12111112222 12579999998753222222222 1 2668888764321
Q ss_pred HHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccc
Q 024773 141 IFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTE 213 (262)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~ 213 (262)
.. ++.....-....+..+++.+.+.. .++++++.+... ..-+.+.++++|+++.....+...
T Consensus 89 ---~~------~~~~v~~d~~~~g~~~~~~l~~~g--~~~i~~l~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~ 157 (267)
T cd06284 89 ---GL------AVPSVSIDNVAAARLAVDHLISLG--HRRIALITGPRDNPLARDRLEGYRQALAEAGLPADEELIQEGD 157 (267)
T ss_pred ---CC------CcceEEecccHHHHHHHHHHHHcC--CceEEEEcCCccchhHHHHHHHHHHHHHHcCCCCCcceEEeCC
Confidence 12 222111112234556666666542 468888877533 234556788888665443333322
Q ss_pred cCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 214 PVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 214 ~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
...... ..+.+.+ ..+|+|+.+|...+..++..+.+.+ ..++.+++++
T Consensus 158 ~~~~~~~~~~~~~l~~~~~~~ai~~~~~~~a~g~~~al~~~g~~~p~~v~v~g~d 212 (267)
T cd06284 158 FSLESGYAAARRLLALPDRPTAIFCFSDEMAIGAISALKELGLRVPEDISVVGFD 212 (267)
T ss_pred CChHHHHHHHHHHHhCCCCCcEEEEcCcHHHHHHHHHHHHcCCCCccceeEEEeC
Confidence 221111 1122223 2589999999888888888887654 2466777764
No 59
>cd06293 PBP1_LacI_like_11 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=95.60 E-value=0.32 Score=41.92 Aligned_cols=178 Identities=8% Similarity=0.033 Sum_probs=95.4
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH-HHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE-AGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~-aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
.+.+.++++|+++....... .+ .....+.+.+ .-..+|+||+++.. .-..+.+ +.. .+.+++.+|....
T Consensus 20 gi~~~~~~~gy~v~~~~~~~-~~-~~~~~~i~~~-~~~~~dgiii~~~~~~~~~~~~-~~~---~~~pvV~i~~~~~--- 89 (269)
T cd06293 20 AVEEEADARGLSLVLCATRN-RP-ERELTYLRWL-DTNHVDGLIFVTNRPDDGALAK-LIN---SYGNIVLVDEDVP--- 89 (269)
T ss_pred HHHHHHHHCCCEEEEEeCCC-CH-HHHHHHHHHH-HHCCCCEEEEeCCCCCHHHHHH-HHh---cCCCEEEECCCCC---
Confidence 34567778898886553321 10 0011111222 23579999998531 1122222 222 2578999996431
Q ss_pred HHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeecccc
Q 024773 143 EEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEP 214 (262)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~~ 214 (262)
.. .+.. +.+.. ..+...++.|.+. ..++++++.|... ..-+.+.+++.|..+....++....
T Consensus 90 -~~------~~~~-V~~d~~~~~~~~~~~L~~~--G~~~i~~i~~~~~~~~~~~R~~Gf~~a~~~~~~~~~~~~~~~~~~ 159 (269)
T cd06293 90 -GA------KVPK-VFCDNEQGGRLATRHLARA--GHRRIAFVGGPDALISARERYAGYREALAEAHIPEVPEYVCFGDY 159 (269)
T ss_pred -CC------CCCE-EEECCHHHHHHHHHHHHHC--CCceEEEEecCcccccHHHHHHHHHHHHHHcCCCCChheEEecCC
Confidence 11 2221 23333 3345556666654 3478998876533 2446677788877654333332221
Q ss_pred CCCCh-HHHHHHcC---CCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 215 VHHVD-QTVLKQAL---SIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 215 ~~~~~-~~~~~~l~---~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
..... +.+.+.+. .+++|++.+...+...+..+.+.+ .+++.|++++
T Consensus 160 ~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~vp~di~i~g~d 213 (269)
T cd06293 160 TREFGRAAAAQLLARGDPPTAIFAASDEIAIGLLEVLRERGLSIPGDMSLVGFD 213 (269)
T ss_pred CHHHHHHHHHHHHcCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCccceEEEeec
Confidence 11111 12222232 589999999998888888887665 3467788775
No 60
>cd06313 PBP1_ABC_sugar_binding_like_5 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=95.60 E-value=0.21 Score=43.47 Aligned_cols=180 Identities=9% Similarity=0.010 Sum_probs=95.2
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCH--HHHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSP--EAGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~--~aV~~f~~~l~~~~~~~~~i~aVG~~Ta 139 (262)
.+.+.++++|+++....... +.+...+.+.. ....|.||+.+. ......+..+.+. +++++.++....
T Consensus 20 gi~~~~~~~G~~~~~~~~~~-----d~~~~~~~i~~~~~~~vdgiii~~~~~~~~~~~i~~~~~~---~iPvV~~~~~~~ 91 (272)
T cd06313 20 AADEAGKLLGVDVTWYGGAL-----DAVKQVAAIENMASQGWDFIAVDPLGIGTLTEAVQKAIAR---GIPVIDMGTLIA 91 (272)
T ss_pred HHHHHHHHcCCEEEEecCCC-----CHHHHHHHHHHHHHcCCCEEEEcCCChHHhHHHHHHHHHC---CCcEEEeCCCCC
Confidence 45566777898888653221 22211222221 256899999754 2233334444433 678999986432
Q ss_pred HHHHHhhhhcCCCCceeecCCCC-CHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCC-CeeeEEeee
Q 024773 140 SIFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRG-FEVVRLNTY 210 (262)
Q Consensus 140 ~~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G-~~v~~i~vY 210 (262)
.. .. +....+....+ .++.+++.+.+.....++++++.|... .+-+.+.+++.| ..+.. .+
T Consensus 92 ~~--~~------~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~~~~~~~~~~~~--~~ 161 (272)
T cd06313 92 PL--QI------NVHSFLAPDNYFMGASVAQALCNAMGGKGKIAMLQGALGHTGAQGRAQGFNDVIKKYPDIEVVD--EQ 161 (272)
T ss_pred CC--CC------ceEEEECCCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCcchhHHHHHHHHHHHhCCCCEEEe--cc
Confidence 10 11 21111233332 345556666654323468999987632 444566777765 33322 22
Q ss_pred ccccCCCChH-HHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCCCCCeEEEEC
Q 024773 211 TTEPVHHVDQ-TVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQWSNSVACIA 261 (262)
Q Consensus 211 ~~~~~~~~~~-~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~~~~~i~~IG 261 (262)
.......... .+.+.+ ..+++|+.++-..+...++.+++.+..++.|++++
T Consensus 162 ~~~~~~~~~~~~~~~~l~~~~~~~ai~~~nd~~a~g~~~al~~~g~~di~vvgfd 216 (272)
T cd06313 162 PANWDVSKAARIWETWLTKYPQLDGAFCHNDSMALAAYQIMKAAGRTKIVIGGVD 216 (272)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCCCEEEECCCcHHHHHHHHHHHcCCCceEEEeec
Confidence 2222111111 122222 25899999999998888888877644455665553
No 61
>cd01574 PBP1_LacI Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of LacI 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 in turn changes the DNA b
Probab=95.59 E-value=0.32 Score=41.60 Aligned_cols=178 Identities=11% Similarity=0.002 Sum_probs=94.2
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
..+.+.++++|+.+.....-.. ......++...+ .-...|++++.+...-......... .+++++++|....
T Consensus 19 ~gi~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l-~~~~vdgiii~~~~~~~~~~~~~~~---~~ipvv~~~~~~~--- 90 (264)
T cd01574 19 AAIESAAREAGYAVTLSMLAEA-DEEALRAAVRRL-LAQRVDGVIVNAPLDDADAALAAAP---ADVPVVFVDGSPS--- 90 (264)
T ss_pred HHHHHHHHHCCCeEEEEeCCCC-chHHHHHHHHHH-HhcCCCEEEEeCCCCChHHHHHHHh---cCCCEEEEeccCC---
Confidence 3456677778888765422110 001111111122 1256999998775432211222222 3678999996532
Q ss_pred HHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCCh-------hhHHHHHHhCCCeeeEEeeecccc
Q 024773 143 EEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTEP 214 (262)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~i~vY~~~~ 214 (262)
. ++.. +.... ..+..+++.+.+. ..++++++.|.... .-+.+.+++.|..+... +....
T Consensus 91 --~------~~~~-v~~d~~~~g~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~--~~~~~ 157 (264)
T cd01574 91 --P------RVST-VSVDQEGGARLATEHLLEL--GHRTIAHVAGPEEWLSARARLAGWRAALEAAGIAPPPV--LEGDW 157 (264)
T ss_pred --C------CCCE-EEeCcHHHHHHHHHHHHHC--CCCEEEEEecCCccchHHHHHHHHHHHHHHCCCCccee--eecCC
Confidence 2 2222 22222 3445566666654 34789999876541 33566777777765432 21111
Q ss_pred CCCChHH-HHHHcC--CCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 215 VHHVDQT-VLKQAL--SIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 215 ~~~~~~~-~~~~l~--~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
......+ +.+.+. .+++|+.++...+...++.+.+.+ ..++.|++++
T Consensus 158 ~~~~~~~~~~~~l~~~~~~ai~~~~d~~a~g~~~~~~~~g~~ip~~i~ii~~d 210 (264)
T cd01574 158 SAESGYRAGRELLREGDPTAVFAANDQMALGVLRALHELGLRVPDDVSVVGFD 210 (264)
T ss_pred CHHHHHHHHHHHHhCCCCcEEEEcCcHHHHHHHHHHHHcCCCCccceEEeccc
Confidence 1111112 222222 489999999888888888887654 2466777664
No 62
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=95.57 E-value=0.61 Score=41.85 Aligned_cols=166 Identities=13% Similarity=0.118 Sum_probs=89.4
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHH-HHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024773 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEA-GSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (262)
Q Consensus 65 l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~a-V~~f~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (262)
+.+.++++|+.+...+. . .+.+.....+.. -..+|+||+.+... .....+.+.+. +++++.++...
T Consensus 86 i~~~a~~~g~~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~~---~iPvV~~~~~~--- 154 (342)
T PRK10014 86 LTEALEAQGRMVFLLQG---G--KDGEQLAQRFSTLLNQGVDGVVIAGAAGSSDDLREMAEEK---GIPVVFASRAS--- 154 (342)
T ss_pred HHHHHHHcCCEEEEEeC---C--CCHHHHHHHHHHHHhCCCCEEEEeCCCCCcHHHHHHHhhc---CCCEEEEecCC---
Confidence 44567778987754321 1 122211222222 25799999987542 23344444433 67888887532
Q ss_pred HHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCCh-------hhHHHHHHhCCCeeeEEeeeccc
Q 024773 142 FEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLNTYTTE 213 (262)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~i~vY~~~ 213 (262)
... ++.. +.... ..+..+++.|.+.. .++++++.|.... .-+.+.|++.|..+....++...
T Consensus 155 -~~~------~~~~-V~~D~~~~~~~a~~~L~~~G--~~~I~~i~g~~~~~~~~~R~~Gf~~al~~~g~~~~~~~~~~~~ 224 (342)
T PRK10014 155 -YLD------DVDT-VRPDNMQAAQLLTEHLIRNG--HQRIAWLGGQSSSLTRAERVGGYCATLLKFGLPFHSEWVLECT 224 (342)
T ss_pred -CCC------CCCE-EEeCCHHHHHHHHHHHHHCC--CCEEEEEcCCcccccHHHHHHHHHHHHHHcCCCCCcceEecCC
Confidence 112 3332 22232 33455566666643 4789999875431 23567788888766543333221
Q ss_pred cCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccC
Q 024773 214 PVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTE 251 (262)
Q Consensus 214 ~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~ 251 (262)
...... ..+.+.+ ..+++|++.+-..+-..+..+.+..
T Consensus 225 ~~~~~~~~~~~~~l~~~~~~~ai~~~nd~~A~g~~~~l~~~g 266 (342)
T PRK10014 225 SSQKQAAEAITALLRHNPTISAVVCYNETIAMGAWFGLLRAG 266 (342)
T ss_pred CChHHHHHHHHHHHcCCCCCCEEEECCcHHHHHHHHHHHHcC
Confidence 111111 1122223 2589999999888888877776543
No 63
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is 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 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
Probab=95.56 E-value=0.48 Score=40.43 Aligned_cols=175 Identities=11% Similarity=0.027 Sum_probs=93.9
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHH-HHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEA-GSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~a-V~~f~~~l~~~~~~~~~i~aVG~~Ta~ 140 (262)
.+.+.++++|+++...+.- .+.+...+.+.. -..+|+||+.+.+. ...+++.+.+. +++++.++....
T Consensus 20 ~i~~~~~~~g~~~~~~~~~-----~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~~~~~~~---~ipvV~~~~~~~- 90 (266)
T cd06282 20 GIQEEARAAGYSLLLATTD-----YDAEREADAVETLLRQRVDGLILTVADAATSPALDLLDAE---RVPYVLAYNDPQ- 90 (266)
T ss_pred HHHHHHHHCCCEEEEeeCC-----CCHHHHHHHHHHHHhcCCCEEEEecCCCCchHHHHHHhhC---CCCEEEEeccCC-
Confidence 3456777889988875431 121111122211 25799999986542 12244444443 677888774321
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC--------hhhHHHHHHhCCCeeeEEeeec
Q 024773 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA--------SNEIEEGLSNRGFEVVRLNTYT 211 (262)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~--------~~~L~~~L~~~G~~v~~i~vY~ 211 (262)
. ++.. +.... ..+..+++.|.+. ..++++++.|... ..-+.+.|++.|..+.....+.
T Consensus 91 ----~------~~~~-v~~d~~~~g~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~ 157 (266)
T cd06282 91 ----P------GRPS-VSVDNRAAARDVAQALAAL--GHRRIAMLAGRLAASDRARQRYAGYRAAMRAAGLAPLPPVEIP 157 (266)
T ss_pred ----C------CCCE-EeeCcHHHHHHHHHHHHHc--CcccEEEeccccccCchHHHHHHHHHHHHHHcCCCCCccccCC
Confidence 2 3321 22332 3345556666654 3478888865421 2334567777877654322121
Q ss_pred cccCCCChHHHHHHcC---CCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 212 TEPVHHVDQTVLKQAL---SIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 212 ~~~~~~~~~~~~~~l~---~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
.. .....+.+.+.+. ..|+|++++...+..+++.+.+.+ ..++.+++.+
T Consensus 158 ~~-~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~~p~di~v~g~d 212 (266)
T cd06282 158 FN-TAALPSALLALLTAHPAPTAIFCSNDLLALAVIRALRRLGLRVPDDLSVVGFD 212 (266)
T ss_pred Cc-HHHHHHHHHHHhcCCCCCCEEEECCcHHHHHHHHHHHHcCCCCCCceEEEeec
Confidence 11 1111122223232 579999999988888888887765 2355666653
No 64
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=95.54 E-value=0.78 Score=40.86 Aligned_cols=175 Identities=11% Similarity=0.071 Sum_probs=95.2
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHHH-HHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPEA-GSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~a-V~~f~~~l~~~~~~~~~i~aVG~~Ta~ 140 (262)
.+.+.++++|+++...... .+.+...+.+. .-..+|+||+.+... ...++..+.+. +++++++|...
T Consensus 82 gi~~~~~~~g~~~~~~~~~-----~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~~---~iPvV~v~~~~-- 151 (328)
T PRK11303 82 YLERQARQRGYQLLIACSD-----DQPDNEMRCAEHLLQRQVDALIVSTSLPPEHPFYQRLQND---GLPIIALDRAL-- 151 (328)
T ss_pred HHHHHHHHcCCEEEEEeCC-----CCHHHHHHHHHHHHHcCCCEEEEcCCCCCChHHHHHHHhc---CCCEEEECCCC--
Confidence 3445667789888654321 12111112221 125799999975421 12333434333 67899998642
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeecc
Q 024773 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTT 212 (262)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~ 212 (262)
... ++.. +.... ..+..+++.|.+.. .++++++.|... ..-+.+.|+++|..+.. +|..
T Consensus 152 --~~~------~~~~-V~~d~~~~~~~a~~~L~~~G--~r~I~~i~~~~~~~~~~~R~~Gf~~al~~~g~~~~~--~~~~ 218 (328)
T PRK11303 152 --DRE------HFTS-VVSDDQDDAEMLAESLLKFP--AESILLLGALPELSVSFEREQGFRQALKDDPREVHY--LYAN 218 (328)
T ss_pred --CCC------CCCE-EEeCCHHHHHHHHHHHHHCC--CCeEEEEeCccccccHHHHHHHHHHHHHHcCCCceE--EEeC
Confidence 122 3432 22333 34455566676643 578999987532 24466788888875432 2322
Q ss_pred ccCCCChHH-HHHHcC---CCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 213 EPVHHVDQT-VLKQAL---SIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 213 ~~~~~~~~~-~~~~l~---~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
........+ +.+.+. .+++|+.++-..+...++.+.+.+ ..++.|++++
T Consensus 219 ~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~~~al~~~g~~vP~disv~gfd 274 (328)
T PRK11303 219 SFEREAGAQLFEKWLETHPMPDALFTTSYTLLQGVLDVLLERPGELPSDLAIATFG 274 (328)
T ss_pred CCChHHHHHHHHHHHcCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCCceEEEEeC
Confidence 111111112 222232 589999999888888888776654 3467777665
No 65
>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=95.54 E-value=0.33 Score=41.95 Aligned_cols=179 Identities=11% Similarity=0.049 Sum_probs=95.3
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHH-----HHHHHHHHHHcCCCCcEEEEeChhH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEA-----GSVFLEAWKEAGTPNVRIGVVGAGT 138 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~a-----V~~f~~~l~~~~~~~~~i~aVG~~T 138 (262)
.+.+.++++|+++.....- ..+....+.++..+ . ..+|++|+++... ...+++.+... +++++.+|...
T Consensus 20 gi~~~~~~~g~~~~~~~~~-~~~~~~~~~i~~l~-~-~~vdgii~~~~~~~~~~~~~~~~~~~~~~---~ipvV~~~~~~ 93 (273)
T cd01541 20 GIESVLSEKGYSLLLASTN-NDPERERKCLENML-S-QGIDGLIIEPTKSALPNPNIDLYLKLEKL---GIPYVFINASY 93 (273)
T ss_pred HHHHHHHHcCCEEEEEeCC-CCHHHHHHHHHHHH-H-cCCCEEEEeccccccccccHHHHHHHHHC---CCCEEEEecCC
Confidence 4566777889888754321 11100012233333 2 5799999976532 22333444333 67899998542
Q ss_pred HHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC------hhhHHHHHHhCCCeeeEEeeec
Q 024773 139 ASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA------SNEIEEGLSNRGFEVVRLNTYT 211 (262)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~------~~~L~~~L~~~G~~v~~i~vY~ 211 (262)
. .. ++.. +.... ..+..+++.+.+.. .++++++.+... ..-+.+.+++.|..+....++.
T Consensus 94 ~----~~------~~~~-V~~D~~~~g~~~~~~l~~~G--~~~i~~l~~~~~~~~~~r~~g~~~~l~~~~~~~~~~~~~~ 160 (273)
T cd01541 94 E----EL------NFPS-LVLDDEKGGYKATEYLIELG--HRKIAGIFKADDLQGVKRMKGFIKAYREHGIPFNPSNVIT 160 (273)
T ss_pred C----CC------CCCE-EEECcHHHHHHHHHHHHHcC--CcCEEEecCCCcccHHHHHHHHHHHHHHcCCCCChHHEEe
Confidence 1 12 2221 22223 34455666666543 367877765432 2335667777776543332322
Q ss_pred cccCC--CCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 212 TEPVH--HVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 212 ~~~~~--~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
..... ... +.+.+.+ ..+|+|+++|...+..++..+.+.+ ..++.|++++
T Consensus 161 ~~~~~~~~~~~~~~~~~l~~~~~~~av~~~~d~~a~g~~~al~~~g~~~p~dv~vvg~d 219 (273)
T cd01541 161 YTTEEKEEKLFEKIKEILKRPERPTAIVCYNDEIALRVIDLLKELGLKIPEDISVVGFD 219 (273)
T ss_pred ccccchhhHHHHHHHHHHcCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCCcEEEEEcC
Confidence 11111 111 1122223 2589999999999998888887754 2466777764
No 66
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=95.45 E-value=0.68 Score=36.77 Aligned_cols=113 Identities=20% Similarity=0.223 Sum_probs=74.4
Q ss_pred CCCeEEEeCCCCCh-----HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH-----HHHHHHH
Q 024773 49 SNPKVVVTRERGKN-----GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP-----EAGSVFL 118 (262)
Q Consensus 49 ~g~~VLitR~~~~~-----~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~-----~aV~~f~ 118 (262)
.+++|++.....+. .-+...|+..|++|+++-.-. | .+++.+...+ .+.|+|..++. ..++.+.
T Consensus 2 ~~~~vl~~~~~gD~H~lG~~iv~~~lr~~G~eVi~LG~~v--p---~e~i~~~a~~-~~~d~V~lS~~~~~~~~~~~~~~ 75 (137)
T PRK02261 2 KKKTVVLGVIGADCHAVGNKILDRALTEAGFEVINLGVMT--S---QEEFIDAAIE-TDADAILVSSLYGHGEIDCRGLR 75 (137)
T ss_pred CCCEEEEEeCCCChhHHHHHHHHHHHHHCCCEEEECCCCC--C---HHHHHHHHHH-cCCCEEEEcCccccCHHHHHHHH
Confidence 46778877665433 345668889999999875422 1 2334444423 46777777653 3455666
Q ss_pred HHHHHcCCCCcEEEEeChh---------HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhC
Q 024773 119 EAWKEAGTPNVRIGVVGAG---------TASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKN 174 (262)
Q Consensus 119 ~~l~~~~~~~~~i~aVG~~---------Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~ 174 (262)
+.+.+.+.+++++++-|.- ..+.|+++ |+...|.|. .+.+.++..|.+.
T Consensus 76 ~~L~~~~~~~~~i~vGG~~~~~~~~~~~~~~~l~~~------G~~~vf~~~-~~~~~i~~~l~~~ 133 (137)
T PRK02261 76 EKCIEAGLGDILLYVGGNLVVGKHDFEEVEKKFKEM------GFDRVFPPG-TDPEEAIDDLKKD 133 (137)
T ss_pred HHHHhcCCCCCeEEEECCCCCCccChHHHHHHHHHc------CCCEEECcC-CCHHHHHHHHHHH
Confidence 6677666667888888864 22589999 998766654 4778888777654
No 67
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=95.44 E-value=1.2 Score=37.61 Aligned_cols=179 Identities=11% Similarity=0.049 Sum_probs=92.1
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFE 143 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~ 143 (262)
.+.+.++++|+++...+.-.. +....+.++..+ -.++|+|++.....-...+..+.+. ++++++++.....
T Consensus 20 g~~~~~~~~g~~~~~~~~~~~-~~~~~~~~~~~~--~~~~d~iii~~~~~~~~~~~~~~~~---~ipvv~~~~~~~~--- 90 (264)
T cd06267 20 GIEEAAREAGYSVLLCNSDED-PEKEREALELLL--SRRVDGIILAPSRLDDELLEELAAL---GIPVVLVDRPLDG--- 90 (264)
T ss_pred HHHHHHHHcCCEEEEEcCCCC-HHHHHHHHHHHH--HcCcCEEEEecCCcchHHHHHHHHc---CCCEEEecccccC---
Confidence 345556677877765432100 000011222222 2479999987764322213334333 6788888764321
Q ss_pred HhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccccC
Q 024773 144 EVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEPV 215 (262)
Q Consensus 144 ~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~~~ 215 (262)
. .+.. +.... .....+++.+.+. ..++++++.+... ...+.+.+++.|..+....++.....
T Consensus 91 -~------~~~~-v~~d~~~~g~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~~ 160 (264)
T cd06267 91 -L------GVDS-VGIDNRAGAYLAVEHLIEL--GHRRIAFIGGPPDLSTARERLEGYREALEEAGIPLDEELIVEGDFS 160 (264)
T ss_pred -C------CCCE-EeeccHHHHHHHHHHHHHC--CCceEEEecCCCccchHHHHHHHHHHHHHHcCCCCCcceEEecccc
Confidence 2 2322 22222 2344455666554 2478998877644 24556677777754433333222222
Q ss_pred CCC-hHHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCC---CCCeEEEEC
Q 024773 216 HHV-DQTVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQ---WSNSVACIA 261 (262)
Q Consensus 216 ~~~-~~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~---~~~~i~~IG 261 (262)
... ...+.+.+ +++|+|+..+...+..++..+.+.+. .++.+++++
T Consensus 161 ~~~~~~~~~~~l~~~~~~~~i~~~~~~~a~~~~~al~~~g~~~~~~i~i~~~d 213 (264)
T cd06267 161 EESGYEAARELLASGERPTAIFAANDLMAIGALRALRELGLRVPEDVSVVGFD 213 (264)
T ss_pred hhhHHHHHHHHHhcCCCCcEEEEcCcHHHHHHHHHHHHhCCCCCCceEEEeeC
Confidence 111 12222333 24899998888877777777766542 355666653
No 68
>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=95.44 E-value=0.074 Score=47.13 Aligned_cols=169 Identities=9% Similarity=0.078 Sum_probs=99.0
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHH-HHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAG-SVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV-~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
.+.+.++++|+.+..+..-... +.++..+.+. -...|++|++|...= ..+.. +.+. +.+++.+|......
T Consensus 22 gIe~~a~~~Gy~l~l~~t~~~~---~~e~~i~~l~-~~~vDGiI~~s~~~~~~~l~~-~~~~---~iPvV~~~~~~~~~- 92 (279)
T PF00532_consen 22 GIEQEAREHGYQLLLCNTGDDE---EKEEYIELLL-QRRVDGIILASSENDDEELRR-LIKS---GIPVVLIDRYIDNP- 92 (279)
T ss_dssp HHHHHHHHTTCEEEEEEETTTH---HHHHHHHHHH-HTTSSEEEEESSSCTCHHHHH-HHHT---TSEEEEESS-SCTT-
T ss_pred HHHHHHHHcCCEEEEecCCCch---HHHHHHHHHH-hcCCCEEEEecccCChHHHHH-HHHc---CCCEEEEEeccCCc-
Confidence 4556778899988765332111 1111112221 257999999977544 33333 3232 68999999753221
Q ss_pred HHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccE-EEEEccCCC-------hhhHHHHHHhCCCeeeEEeeecccc
Q 024773 143 EEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCT-VLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEP 214 (262)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~-vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~~ 214 (262)
. ++.....-....+..+.+.|.+.. .++ ++++.|... ..-+.+.|+++|..+.+..++....
T Consensus 93 --~------~~~~V~~D~~~a~~~a~~~Li~~G--h~~~I~~i~~~~~~~~~~~R~~Gy~~Al~~~Gl~~~~~~i~~~~~ 162 (279)
T PF00532_consen 93 --E------GVPSVYIDNYEAGYEATEYLIKKG--HRRPIAFIGGPEDSSTSRERLQGYRDALKEAGLPIDEEWIFEGDF 162 (279)
T ss_dssp --C------TSCEEEEEHHHHHHHHHHHHHHTT--CCSTEEEEEESTTTHHHHHHHHHHHHHHHHTTSCEEEEEEEESSS
T ss_pred --c------cCCEEEEcchHHHHHHHHHHHhcc--cCCeEEEEecCcchHHHHHHHHHHHHHHHHcCCCCCcccccccCC
Confidence 2 454333222233455666776654 477 999999764 2346678899999887777766433
Q ss_pred CCCChHHH-HHHc---CCCCEEEEeCHHHHHHHHHHhcccC
Q 024773 215 VHHVDQTV-LKQA---LSIPVVAVASPSAVRSWVNLISDTE 251 (262)
Q Consensus 215 ~~~~~~~~-~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~ 251 (262)
......+. .+.+ ..+|+|+.++-..+...+..+.+.+
T Consensus 163 ~~~~g~~~~~~ll~~~p~idai~~~nd~~A~ga~~~l~~~g 203 (279)
T PF00532_consen 163 DYESGYEAARELLESHPDIDAIFCANDMMAIGAIRALRERG 203 (279)
T ss_dssp SHHHHHHHHHHHHHTSTT-SEEEESSHHHHHHHHHHHHHTT
T ss_pred CHHHHHHHHHHHHhhCCCCEEEEEeCHHHHHHHHHHHHHcC
Confidence 22211222 2223 2577999999999998888887654
No 69
>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=95.27 E-value=0.36 Score=41.24 Aligned_cols=176 Identities=14% Similarity=0.100 Sum_probs=93.7
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCc-hHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDT-DRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~-~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
.+.+.++++|+.+..+..-.. .+. +.++..+ -...|+||+.+...-....+.+.+ .+++++.+|..+..
T Consensus 20 ~i~~~~~~~g~~~~~~~~~~~---~~~~~~i~~~~--~~~vdgiii~~~~~~~~~~~~~~~---~~ipvV~~~~~~~~-- 89 (266)
T cd06278 20 ALSRALQARGYQPLLINTDDD---EDLDAALRQLL--QYRVDGVIVTSGTLSSELAEECRR---NGIPVVLINRYVDG-- 89 (266)
T ss_pred HHHHHHHHCCCeEEEEcCCCC---HHHHHHHHHHH--HcCCCEEEEecCCCCHHHHHHHhh---cCCCEEEECCccCC--
Confidence 456677889998875543211 011 1222222 257999999765322222333333 36789999864321
Q ss_pred HHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeecccc
Q 024773 143 EEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEP 214 (262)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~~ 214 (262)
. .+.. +.... ..+..+++.+.+. ..++++++.++.. ..-+.+.+++.|..+.. ..+....
T Consensus 90 --~------~~~~-v~~d~~~~g~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~-~~~~~~~ 157 (266)
T cd06278 90 --P------GVDA-VCSDNYEAGRLAAELLLAK--GCRRIAFIGGPADTSTSRERERGFRDALAAAGVPVVV-EEAGDYS 157 (266)
T ss_pred --C------CCCE-EEEChHHHHHHHHHHHHHC--CCceEEEEcCCCcccchHHHHHHHHHHHHHcCCChhh-hccCCCC
Confidence 1 2221 22222 3345555666654 3478999987654 23456677777765321 1111100
Q ss_pred CCCChHHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccC----CCCCeEEEEC
Q 024773 215 VHHVDQTVLKQA---LSIPVVAVASPSAVRSWVNLISDTE----QWSNSVACIA 261 (262)
Q Consensus 215 ~~~~~~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~----~~~~~i~~IG 261 (262)
.+.....+.+.+ ..+++|+.++...+...++.+++.. ..++.+++++
T Consensus 158 ~~~~~~~~~~~l~~~~~~~~i~~~~~~~a~~~~~~l~~~~~~~~p~di~i~~~d 211 (266)
T cd06278 158 YEGGYEAARRLLASRPRPDAIFCANDLLAIGVMDAARQEGGLRVPEDVSVIGFD 211 (266)
T ss_pred HHHHHHHHHHHHhcCCCCCEEEEcCcHHHHHHHHHHHHhcCCCCccceEEEEeC
Confidence 011111222323 2589999999888888888876532 2456777664
No 70
>PF13407 Peripla_BP_4: Periplasmic binding protein domain; PDB: 3BRS_B 3GBP_A 3GA5_A 1GCG_A 1GCA_A 3H75_A 3D02_A 3L49_B 3EJW_B 3T95_A ....
Probab=95.23 E-value=0.23 Score=42.50 Aligned_cols=180 Identities=12% Similarity=0.104 Sum_probs=100.5
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCch----HHHHHHhcCCCccEEEEeCHHH--HHHHHHHHHHcCCCCcEEEEeCh
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTD----RLSSVLNADTIFDWIIITSPEA--GSVFLEAWKEAGTPNVRIGVVGA 136 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~----~l~~~l~~l~~~d~IiFTS~~a--V~~f~~~l~~~~~~~~~i~aVG~ 136 (262)
.-+.+.++++|+++..+ .... .+.+ .++..+ ..++|+||++.... ...+++.+.+. +++++.+..
T Consensus 18 ~g~~~~a~~~g~~~~~~--~~~~--~d~~~q~~~i~~~i--~~~~d~Iiv~~~~~~~~~~~l~~~~~~---gIpvv~~d~ 88 (257)
T PF13407_consen 18 KGAKAAAKELGYEVEIV--FDAQ--NDPEEQIEQIEQAI--SQGVDGIIVSPVDPDSLAPFLEKAKAA---GIPVVTVDS 88 (257)
T ss_dssp HHHHHHHHHHTCEEEEE--EEST--TTHHHHHHHHHHHH--HTTESEEEEESSSTTTTHHHHHHHHHT---TSEEEEESS
T ss_pred HHHHHHHHHcCCEEEEe--CCCC--CCHHHHHHHHHHHH--HhcCCEEEecCCCHHHHHHHHHHHhhc---CceEEEEec
Confidence 34556777889998876 1111 1222 233333 25699999875443 55666666665 678999887
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCCh-------hhHHHHHHhCCCeeeEEe
Q 024773 137 GTASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRLN 208 (262)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~i~ 208 (262)
. ... .. .....+.+.. ..+..+.+.+.+....+.+++++.|..+. +-+.+.|++.+ .++.+.
T Consensus 89 ~--~~~-~~------~~~~~v~~d~~~~G~~~a~~l~~~~~~~~~v~~~~~~~~~~~~~~r~~g~~~~l~~~~-~~~~~~ 158 (257)
T PF13407_consen 89 D--EAP-DS------PRAAYVGTDNYEAGKLAAEYLAEKLGAKGKVLILSGSPGNPNTQERLEGFRDALKEYP-GVEIVD 158 (257)
T ss_dssp T--HHT-TS------TSSEEEEE-HHHHHHHHHHHHHHHHTTTEEEEEEESSTTSHHHHHHHHHHHHHHHHCT-TEEEEE
T ss_pred c--ccc-cc------cceeeeeccHHHHHHHHHHHHHHHhccCceEEeccCCCCchHHHHHHHHHHHHHhhcc-eeeeee
Confidence 6 111 11 2222232322 23455556665544344789988777653 34555777744 555555
Q ss_pred eecc-ccCCCChHH-HHHHcC--CCCEEEEeCHHHHHHHHHHhcccCC-CCCeEEEEC
Q 024773 209 TYTT-EPVHHVDQT-VLKQAL--SIPVVAVASPSAVRSWVNLISDTEQ-WSNSVACIA 261 (262)
Q Consensus 209 vY~~-~~~~~~~~~-~~~~l~--~~d~ivFtS~s~~~~~~~~~~~~~~-~~~~i~~IG 261 (262)
.|.. ......... +.+.+. ++++|+.++...+...++.+.+.+. ..+.++++|
T Consensus 159 ~~~~~~~~~~~a~~~~~~~l~~~~~~~i~~~~~~~~~g~~~al~~~g~~~~~~v~g~d 216 (257)
T PF13407_consen 159 EYEYTDWDPEDARQAIENLLQANPVDAIIACNDGMALGAAQALQQAGRAGKVIVVGFD 216 (257)
T ss_dssp EEEECTTSHHHHHHHHHHHHHHTTEEEEEESSHHHHHHHHHHHHHTTCTTTSEEEEEE
T ss_pred eeeccCCCHHHHHHHHHHhhhcCCceEEEeCCChHHHHHHHHHHHcCCcccceeecCC
Confidence 4332 221111111 222222 4899999999999989999888653 344566654
No 71
>cd06318 PBP1_ABC_sugar_binding_like_9 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=95.18 E-value=0.51 Score=40.85 Aligned_cols=182 Identities=11% Similarity=0.054 Sum_probs=93.2
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGT 138 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~T 138 (262)
..+.+.++++|+++..... ..+.+...+.+. .....|+||+++.. ++...++.+.+. +++++++|...
T Consensus 19 ~~i~~~~~~~g~~v~~~~~-----~~~~~~~~~~i~~~~~~~~Dgiii~~~~~~~~~~~i~~~~~~---~iPvV~~~~~~ 90 (282)
T cd06318 19 EAAKAHAKALGYELISTDA-----QGDLTKQIADVEDLLTRGVNVLIINPVDPEGLVPAVAAAKAA---GVPVVVVDSSI 90 (282)
T ss_pred HHHHHHHHHcCCEEEEEcC-----CCCHHHHHHHHHHHHHcCCCEEEEecCCccchHHHHHHHHHC---CCCEEEecCCC
Confidence 3455677789998764322 112211112221 12579999997642 333344444443 67899998532
Q ss_pred HHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhC-CCCccEEEEEccCCC-------hhhHHHHHHhCCCeee---E
Q 024773 139 ASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKN-GKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVV---R 206 (262)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~-~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~---~ 206 (262)
.... . .+. .+.... ..+..+++.|.+. ..++++++++.|... ..-+.+.|+++|.... .
T Consensus 91 ~~~~--~------~~~-~v~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~ 161 (282)
T cd06318 91 NLEA--G------VVT-QVQSSNAKNGNLVGEWVVGELGDKPMKIILLSGDAGNLVGQARRDGFLLGVSEAQLRKYGKTN 161 (282)
T ss_pred CCCc--C------eEE-EEecCcHHHHHHHHHHHHHHhCCCCceEEEEECCCCCchHhHHHHhHHHHHhhCcccccccCC
Confidence 1000 1 111 122222 2355666666653 323458988876532 3445667777754210 1
Q ss_pred Eeee---ccccCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCC-CCCeEEEEC
Q 024773 207 LNTY---TTEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQ-WSNSVACIA 261 (262)
Q Consensus 207 i~vY---~~~~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~-~~~~i~~IG 261 (262)
+.++ ......... ..+.+.+ .++|+|+..+-..+..++..+.+.+. .++.|++++
T Consensus 162 ~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~~dv~vvg~d 224 (282)
T cd06318 162 FTIVAQGYGDWTREGGLKAMEDLLVAHPDINVVYSENDDMALGAMRVLAEAGKTDDVKVAAAD 224 (282)
T ss_pred eEEEecCCCCCCHHHHHHHHHHHHHhCCCcCEEEECCcchHHHHHHHHHHcCCCCCeEEEecC
Confidence 1111 111111111 1122222 25799999998888888888877653 466777654
No 72
>TIGR02853 spore_dpaA dipicolinic acid synthetase, A subunit. This predicted Rossman fold-containing protein is the A subunit of dipicolinic acid synthetase as found in most, though not all, endospore-forming low-GC Gram-positive bacteria; it is absent in Clostridium. The B subunit is represented by TIGR02852. This protein is also known as SpoVFA.
Probab=95.15 E-value=0.5 Score=42.27 Aligned_cols=175 Identities=15% Similarity=0.069 Sum_probs=103.7
Q ss_pred CCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeee-CCC--chHHHHHHhcCCCccEEEEe----CHHH---------
Q 024773 50 NPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQ-GPD--TDRLSSVLNADTIFDWIIIT----SPEA--------- 113 (262)
Q Consensus 50 g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~-~~~--~~~l~~~l~~l~~~d~IiFT----S~~a--------- 113 (262)
|+++.+..++...-.+.+.|.+.|+.|..+=+=+... ... ...+.+. .+.+.|+||+- +..+
T Consensus 1 ~~~~~v~ggd~r~~~~~~~l~~~g~~v~~~g~~~~~~~~~~~~~~~~~~~--~~~~~~~~i~p~~~~~~~~~i~~~~~~~ 78 (287)
T TIGR02853 1 GIHIAVIGGDARQLELIRKLEELDAKISLIGFDQLEDGFTGAVKCELLEL--DLTTLDVVILPVPGTSHDGKVATVFSNE 78 (287)
T ss_pred CcEEEEEcccHHHHHHHHHHHHCCCEEEEEeccccccccccceeecchhh--hhccCCEEEECCccccCCceEecccccC
Confidence 6789999998888999999999999987553211100 000 0111111 24677888763 3321
Q ss_pred ---H-HHHHHHHHHcCCCCcEEEEeCh--hH-HHHHHHhhhhcCCCCcee------ec---CCCCCHHHHHHHhhhC---
Q 024773 114 ---G-SVFLEAWKEAGTPNVRIGVVGA--GT-ASIFEEVIQSSKCSLDVA------FS---PSKATGKILASELPKN--- 174 (262)
Q Consensus 114 ---V-~~f~~~l~~~~~~~~~i~aVG~--~T-a~~L~~~~~~~~~G~~~~------~~---p~~~t~e~L~~~l~~~--- 174 (262)
+ +.+++.+. ...+++.|- .. .+.+++. |+.+. -+ -...++|+.+..+.+.
T Consensus 79 ~~~l~~~~l~~~~-----~~~~~~~G~~~~~l~~~a~~~------gi~v~~~~~~~~va~~n~~~~Ae~ai~~al~~~~~ 147 (287)
T TIGR02853 79 KVVLTPELLESTK-----GHCTIYVGISNPYLEQLAADA------GVKLIELFERDDVAIYNSIPTAEGAIMMAIEHTDF 147 (287)
T ss_pred CccccHHHHHhcC-----CCCEEEEecCCHHHHHHHHHC------CCeEEEEEeccceEEEccHhHHHHHHHHHHHhcCC
Confidence 1 12222221 233344442 22 3377778 99876 12 2335667666554433
Q ss_pred CCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCC-----------ChHHHHHHcCCCCEEEEeCHHHH
Q 024773 175 GKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHH-----------VDQTVLKQALSIPVVAVASPSAV 240 (262)
Q Consensus 175 ~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~-----------~~~~~~~~l~~~d~ivFtS~s~~ 240 (262)
...|++++++........+...|.+.|++| .+|.+..... ...++.+.+.+.|+|+.+.|..+
T Consensus 148 ~l~gk~v~IiG~G~iG~avA~~L~~~G~~V---~v~~R~~~~~~~~~~~g~~~~~~~~l~~~l~~aDiVint~P~~i 221 (287)
T TIGR02853 148 TIHGSNVMVLGFGRTGMTIARTFSALGARV---FVGARSSADLARITEMGLIPFPLNKLEEKVAEIDIVINTIPALV 221 (287)
T ss_pred CCCCCEEEEEcChHHHHHHHHHHHHCCCEE---EEEeCCHHHHHHHHHCCCeeecHHHHHHHhccCCEEEECCChHH
Confidence 236789999998888889999999999754 4555433210 11223344568999999998764
No 73
>cd06276 PBP1_FucR_like Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. Ligand-binding domain of a transcription repressor, FucR, which functions as a molecular sensor of L-fucose availability. FcuR acts as an inducer of fucRRIAK and as a corepressor of another locus that regulates production of fucosylated glycans. FcuR and its close homologs in this group are 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 repressor undergoes a conformational change upon ligand binding which in turn changes t
Probab=95.10 E-value=0.3 Score=42.11 Aligned_cols=170 Identities=8% Similarity=-0.008 Sum_probs=96.6
Q ss_pred HHHHHHHHhCC-CcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHH-HHHHHHHcCCCCcEEEEeChhHHH
Q 024773 63 GKLIKALAKHR-IDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSV-FLEAWKEAGTPNVRIGVVGAGTAS 140 (262)
Q Consensus 63 ~~l~~~L~~~G-~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~-f~~~l~~~~~~~~~i~aVG~~Ta~ 140 (262)
..+.+.++++| +++...+.-+ ...+.+...+ ...+|.+|+.|...-.. ....+.+ .+.+++.+|.....
T Consensus 18 ~~i~~~l~~~g~~~l~~~~~~~----~~~~~~~~~~--~~~vdGvIi~~~~~~~~~~~~~~~~---~~~PvV~i~~~~~~ 88 (247)
T cd06276 18 NSFVNTLGKNAQVDLYFHHYNE----DLFKNIISNT--KGKYSGYVVMPHFKNEIQYFLLKKI---PKEKLLILDHSIPE 88 (247)
T ss_pred HHHHHHHHhcCcEEEEEEcCch----HHHHHHHHHH--hcCCCEEEEecCCCCcHHHHHHhcc---CCCCEEEEcCcCCC
Confidence 44667777889 7766544332 1111222222 36799999987642222 2222221 25789999964211
Q ss_pred HHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCC------hhhHHHHHHhCCCeeeEEeeecccc
Q 024773 141 IFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA------SNEIEEGLSNRGFEVVRLNTYTTEP 214 (262)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~------~~~L~~~L~~~G~~v~~i~vY~~~~ 214 (262)
.. ++..........+..+++.+.+.....+++.++.+... ..-+.+.|++.|+.+... .+.
T Consensus 89 ---~~------~~~~V~~D~~~~~~~a~~~L~~~~~G~~~Ia~i~~~~~~~~~~R~~gf~~~l~~~g~~~~~~-~~~--- 155 (247)
T cd06276 89 ---GG------EYSSVAQDFEKAIYNALQEGLEKLKKYKKLILVFPNKTAIPKEIKRGFERFCKDYNIETEII-NDY--- 155 (247)
T ss_pred ---CC------CCCeEEEccHHHHHHHHHHHHHHhcCCCEEEEEecCccHhHHHHHHHHHHHHHHcCCCcccc-ccc---
Confidence 12 33222222334556666777661123589999977642 333556788888765431 100
Q ss_pred CCCChHHHHHHcCCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 215 VHHVDQTVLKQALSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 215 ~~~~~~~~~~~l~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
. . ..+...|+|+++|-..+..++..+.+.+ ..++.|++++
T Consensus 156 ---~-~---~~~~~~~ai~~~~d~~A~g~~~~l~~~g~~iP~disvigfd 198 (247)
T cd06276 156 ---E-N---REIEKGDLYIILSDTDLVFLIKKARESGLLLGKDIGIISYN 198 (247)
T ss_pred ---c-h---hhccCCcEEEEeCHHHHHHHHHHHHHcCCcCCceeEEEEec
Confidence 0 0 1123459999999999999988888765 4577787775
No 74
>cd06308 PBP1_sensor_kinase_like Periplasmic binding domain of two-component sensor kinase signaling systems. Periplasmic binding domain of two-component sensor kinase signaling systems, some of which are fused with a C-terminal histidine kinase A domain (HisK) and/or a signal receiver domain (REC). Members of this group share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily and are predicted to be involved in sensing of environmental stimuli; their substrate specificities, however, are not known in detail.
Probab=95.08 E-value=0.72 Score=39.76 Aligned_cols=180 Identities=9% Similarity=0.047 Sum_probs=94.3
Q ss_pred HHHHHHHhC-CCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024773 64 KLIKALAKH-RIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (262)
Q Consensus 64 ~l~~~L~~~-G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~Ta~ 140 (262)
.+.+.+++. |+++....... .+....+.++..+ ....|+||+.+.. .....+..+.+ .+++++.+|.....
T Consensus 20 ~i~~~~~~~~g~~~~~~~~~~-~~~~~~~~i~~~~--~~~vdgiii~~~~~~~~~~~~~~~~~---~~ipvV~~~~~~~~ 93 (270)
T cd06308 20 EIQREASNYPDVELIIADAAD-DNSKQVADIENFI--RQGVDLLIISPNEAAPLTPVVEEAYR---AGIPVILLDRKILS 93 (270)
T ss_pred HHHHHHHhcCCcEEEEEcCCC-CHHHHHHHHHHHH--HhCCCEEEEecCchhhchHHHHHHHH---CCCCEEEeCCCCCC
Confidence 344556665 78886543211 0000011222222 2468999987643 22333444433 36789999853211
Q ss_pred HHHHhhhhcCCCCceeecCCCC-CHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhC-CCeeeEEeeec
Q 024773 141 IFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNR-GFEVVRLNTYT 211 (262)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~-G~~v~~i~vY~ 211 (262)
. +....+....+ .+..+++.+.+.....++++++.|... ..-+.+.|+++ |..+.. .+.
T Consensus 94 ----~------~~~~~V~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~R~~g~~~~l~~~~~~~~~~--~~~ 161 (270)
T cd06308 94 ----D------KYTAYIGADNYEIGRQAGEYIANLLPGKGNILEIWGLEGSSPAIERHDGFKEALSKYPKIKIVA--QQD 161 (270)
T ss_pred ----c------cceEEeecCcHHHHHHHHHHHHHHcCCCceEEEEECCCCCchHHHHHHHHHHHHHHCCCCEEEE--ecC
Confidence 1 22122333332 344555666654223578999976543 23345577777 665432 222
Q ss_pred cccCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCC-CCCeEEEEC
Q 024773 212 TEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQ-WSNSVACIA 261 (262)
Q Consensus 212 ~~~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~-~~~~i~~IG 261 (262)
........ ..+.+.+ .++++|+..+-..+...++.+.+.+. .++.+++++
T Consensus 162 ~~~~~~~~~~~~~~~l~~~~~~~aI~~~~d~~a~g~~~al~~~g~~~dv~vvg~d 216 (270)
T cd06308 162 GDWLKEKAEEKMEELLQANPDIDLVYAHNDPMALGAYLAAKRAGREKEIKFIGID 216 (270)
T ss_pred CCccHHHHHHHHHHHHHhCCCCcEEEeCCcHHHHHHHHHHHHcCCCCCcEEEEec
Confidence 11111111 1222223 35899999999999899988887653 467777764
No 75
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=95.03 E-value=1.3 Score=37.85 Aligned_cols=179 Identities=14% Similarity=0.053 Sum_probs=91.7
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~Ta 139 (262)
.+.+.++++|+.+...+. . .+.+...+.+.. -..+|+||+.+.. .+...+..+... +++++.++..-.
T Consensus 20 ~i~~~~~~~g~~v~~~~~---~--~~~~~~~~~~~~~~~~~~dgii~~~~~~~~~~~~l~~l~~~---~ipvv~~~~~~~ 91 (268)
T cd06323 20 GAQKEAKELGYELTVLDA---Q--NDAAKQLNDIEDLITRGVDAIIINPTDSDAVVPAVKAANEA---GIPVFTIDREAN 91 (268)
T ss_pred HHHHHHHHcCceEEecCC---C--CCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHHC---CCcEEEEccCCC
Confidence 355677788988865433 1 122211222222 2469999997643 223344444433 678888875311
Q ss_pred HHHHHhhhhcCCCCceeecCCCC-CHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhC-CCeeeEEeee
Q 024773 140 SIFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNR-GFEVVRLNTY 210 (262)
Q Consensus 140 ~~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~-G~~v~~i~vY 210 (262)
. .. .+. .+....+ .+..+++.+.+.....++++++.|... ..-+.+.|+++ |..+.....+
T Consensus 92 ~---~~------~~~-~v~~d~~~~~~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~l~~~~~~~~~~~~~~ 161 (268)
T cd06323 92 G---GE------VVS-QIASDNVAGGKMAAEYLVKLLGGKGKVVELQGIPGASAARERGKGFHEVVDKYPGLKVVASQPA 161 (268)
T ss_pred C---Cc------eEE-EEccCcHHHHHHHHHHHHHHhCCCceEEEEeCCCCCccHHHHHHHHHHHHHhCCCcEEEecccC
Confidence 0 00 111 1223333 345566666664323478888876432 24445677763 6554321111
Q ss_pred ccccCCCChHHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCCCCCeEEEEC
Q 024773 211 TTEPVHHVDQTVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQWSNSVACIA 261 (262)
Q Consensus 211 ~~~~~~~~~~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~~~~~i~~IG 261 (262)
.... +.....+.+.+ ..+++++.++...+...++.+.+.+..++.|++++
T Consensus 162 ~~~~-~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~~di~iig~d 214 (268)
T cd06323 162 DFDR-AKGLNVMENILQAHPDIKGVFAQNDEMALGAIEALKAAGKDDVKVVGFD 214 (268)
T ss_pred CCCH-HHHHHHHHHHHHHCCCcCEEEEcCCchHHHHHHHHHHcCCCCcEEEEeC
Confidence 1111 11111222323 25899999998888888887776543355665543
No 76
>cd06302 PBP1_LsrB_Quorum_Sensing Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs. Periplasmic binding domain of autoinducer-2 (AI-2) receptor LsrB from Salmonella typhimurium and its close homologs from other bacteria. The members of this group are homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transporters of many sugar based solutes in bacteria and archaea and that are a member of the type I periplasmic binding protein superfamily. LsrB binds a chemically distinct form of the AI-2 signal that lacks boron, in contrast to the Vibrio harveyi AI-2 signaling molecule that has an unusual furanosyl borate diester. Hence, many bacteria coordinate their gene expression according to the local density of their population by producing species specific AI-2. This process of quorum sensing allows LsrB to function as a periplasmic AI-2 binding p
Probab=95.00 E-value=0.47 Score=41.95 Aligned_cols=182 Identities=10% Similarity=0.090 Sum_probs=94.6
Q ss_pred HHHHHHHHhCCCcEEEe-ceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChh
Q 024773 63 GKLIKALAKHRIDCLEL-PLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAG 137 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~-P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~ 137 (262)
..+.+.++++|+++..+ +... +.+.....++. ....|+||+++.. ++...++.+... +++++.++..
T Consensus 19 ~gi~~~a~~~g~~v~~~~~~~~-----d~~~~~~~i~~~~~~~~DgiIi~~~~~~~~~~~~~~~~~~---~iPvV~v~~~ 90 (298)
T cd06302 19 EGAKEAAKELGVDAIYVGPTTA-----DAAGQVQIIEDLIAQGVDAIAVVPNDPDALEPVLKKAREA---GIKVVTHDSD 90 (298)
T ss_pred HHHHHHHHHhCCeEEEECCCCC-----CHHHHHHHHHHHHhcCCCEEEEecCCHHHHHHHHHHHHHC---CCeEEEEcCC
Confidence 34556677889888753 3321 21211222222 2469999998643 334445545443 6788888753
Q ss_pred HHHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCe-eeEEe
Q 024773 138 TASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFE-VVRLN 208 (262)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~-v~~i~ 208 (262)
... ... ++.+ ..... .....+++.|.+.....++++++.|... ..-+.+.|+++|.. +..+.
T Consensus 91 ~~~--~~~------~~~~-v~~D~~~~g~~a~~~l~~~~~~~~~I~~l~g~~~~~~~~~R~~Gf~~~l~~~g~~~~~~~~ 161 (298)
T cd06302 91 VQP--DNR------DYDI-EQADNKAIGETLMDSLAEQMGGKGEYAIFVGSLTATNQNAWIDAAKAYQKEKYYPMLELVD 161 (298)
T ss_pred CCC--Ccc------eeEE-eccCHHHHHHHHHHHHHHHcCCCCEEEEEeCCCCCcchHHHHHHHHHHHhhcCCCCeEEeC
Confidence 211 001 1211 12222 2345555666665322368988877543 24556778888732 22222
Q ss_pred eeccccCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCC-CCCeEEEEC
Q 024773 209 TYTTEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQ-WSNSVACIA 261 (262)
Q Consensus 209 vY~~~~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~-~~~~i~~IG 261 (262)
++......... +.+.+.+ ..+++|+.++-..+...++.+.+.+. .++.|+.++
T Consensus 162 ~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~D~~A~g~~~al~~~g~~~dv~vvG~D 219 (298)
T cd06302 162 RQYGDDDADKSYQTAQELLKAYPDLKGIIGPTSVGIPGAARAVEEAGLKGKVAVTGLG 219 (298)
T ss_pred cccCCCCHHHHHHHHHHHHHhCCCceEEEECCCcchhHHHHHHHhcCCCCCEEEEEeC
Confidence 32221111111 1122223 25789988888888888888877653 355565553
No 77
>cd06314 PBP1_tmGBP Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs. Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs from other bacteria. They are a member of the type I periplasmic binding protein superfamily which consists of two domains connected by a three-stranded hinge. TmGBP is specific for glucose and its binding pocket is buried at the interface of the two domains. TmGBP also exhibits high thermostability and the highest structural similarity to E. coli glucose binding protein (ecGBP).
Probab=94.90 E-value=0.3 Score=42.24 Aligned_cols=178 Identities=9% Similarity=-0.006 Sum_probs=88.8
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~Ta 139 (262)
.+.+.++++|+++..+.. .. .+.+...+.+. .....|++|+.+.. +....+..+. . +++++.+|....
T Consensus 19 gi~~~~~~~g~~~~~~~~--~~--~~~~~~~~~i~~l~~~~vDgiIi~~~~~~~~~~~l~~~~---~-~ipvV~~~~~~~ 90 (271)
T cd06314 19 GVKAAGKELGVDVEFVVP--QQ--GTVNAQLRMLEDLIAEGVDGIAISPIDPKAVIPALNKAA---A-GIKLITTDSDAP 90 (271)
T ss_pred HHHHHHHHcCCeEEEeCC--CC--CCHHHHHHHHHHHHhcCCCEEEEecCChhHhHHHHHHHh---c-CCCEEEecCCCC
Confidence 455667788988775521 00 11111112221 23579999997642 2233333332 2 678898885321
Q ss_pred HHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeec
Q 024773 140 SIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYT 211 (262)
Q Consensus 140 ~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~ 211 (262)
. .. .+. .+.... ..+..+++.|.+....|.+++++.|... ..-+.+.+++.|..+... .+
T Consensus 91 ~---~~------~~~-~V~~D~~~~g~~a~~~l~~~~~~g~~~~~~~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~-~~- 158 (271)
T cd06314 91 D---SG------RYV-YIGTDNYAAGRTAGEIMKKALPGGGKVAIFVGSLGADNAKERIQGIKDAIKDSKIEIVDT-RG- 158 (271)
T ss_pred c---cc------eeE-EEccChHHHHHHHHHHHHHHcCCCCEEEEEecCCCCCCHHHHHHHHHHHHhcCCcEEEEE-ec-
Confidence 1 01 111 122222 2345555666553223556666666532 244677788888765442 11
Q ss_pred cccCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCC-CCCeEEEEC
Q 024773 212 TEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQ-WSNSVACIA 261 (262)
Q Consensus 212 ~~~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~-~~~~i~~IG 261 (262)
........ ..+.+.+ ..+++|++.+...+..++..+.+.+. .++.|++++
T Consensus 159 ~~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~~~~~al~~~g~~~di~vig~d 213 (271)
T cd06314 159 DEEDFAKAKSNAEDALNAHPDLKCMFGLYAYNGPAIAEAVKAAGKLGKVKIVGFD 213 (271)
T ss_pred CccCHHHHHHHHHHHHHhCCCccEEEecCCccHHHHHHHHHHcCCCCceEEEEeC
Confidence 11111111 1122222 25788888777777777777766543 356666654
No 78
>cd06321 PBP1_ABC_sugar_binding_like_11 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the 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 consist 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=94.66 E-value=1.2 Score=38.28 Aligned_cols=145 Identities=9% Similarity=0.043 Sum_probs=79.0
Q ss_pred CCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCC
Q 024773 101 TIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKK 177 (262)
Q Consensus 101 ~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~ 177 (262)
...|+||+.+.. +....++.+.+. +++++.+|.... +....+.... ..++.+++.+.+....
T Consensus 56 ~~~dgiIi~~~~~~~~~~~i~~~~~~---~ipvv~~~~~~~------------~~~~~V~~d~~~~g~~~~~~l~~~~~g 120 (271)
T cd06321 56 AKVDLILLNAVDSKGIAPAVKRAQAA---GIVVVAVDVAAE------------GADATVTTDNVQAGEISCQYLADRLGG 120 (271)
T ss_pred hCCCEEEEeCCChhHhHHHHHHHHHC---CCeEEEecCCCC------------CccceeeechHHHHHHHHHHHHHHhCC
Confidence 569999997643 233344444433 678999986321 1111122222 3445566666654223
Q ss_pred ccEEEEEccCCC------hhhHHHHHHhC-CCeeeEEeeeccccCCCC-hHHHHHHc---CCCCEEEEeCHHHHHHHHHH
Q 024773 178 KCTVLYPASAKA------SNEIEEGLSNR-GFEVVRLNTYTTEPVHHV-DQTVLKQA---LSIPVVAVASPSAVRSWVNL 246 (262)
Q Consensus 178 g~~vL~~~g~~~------~~~L~~~L~~~-G~~v~~i~vY~~~~~~~~-~~~~~~~l---~~~d~ivFtS~s~~~~~~~~ 246 (262)
.+++.++.|... ..-+.+.+++. |.+.... .+........ ...+.+.+ ..+++|+..+...+...++.
T Consensus 121 ~~~i~~i~g~~~~~~~~R~~g~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~a 199 (271)
T cd06321 121 KGNVAILNGPPVSAVLDRVAGCKAALAKYPGIKLLSD-DQNGKGSRDGGLRVMQGLLTRFPKLDGVFAINDPTAIGADLA 199 (271)
T ss_pred CceEEEEeCCCCchHHHHHHHHHHHHHhCCCcEEEee-ecCCCCChhhHHHHHHHHHHhCCCCCEEEECCchhHHHHHHH
Confidence 478999987643 23344456665 4432111 1111111111 11222222 36899999999898888888
Q ss_pred hcccCCCCCeEEEEC
Q 024773 247 ISDTEQWSNSVACIA 261 (262)
Q Consensus 247 ~~~~~~~~~~i~~IG 261 (262)
+.+.+..++.|++++
T Consensus 200 l~~~g~~di~v~g~d 214 (271)
T cd06321 200 AKQAGRNDIKITSVD 214 (271)
T ss_pred HHHcCCCCcEEEEec
Confidence 887765567777664
No 79
>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=94.60 E-value=0.62 Score=39.92 Aligned_cols=172 Identities=12% Similarity=0.080 Sum_probs=92.9
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (262)
.+.+.++++|+++...+.-. +.+...+.+. .-...|+||+++...- ...+.+ .++++++++....
T Consensus 20 gi~~~~~~~g~~~~~~~~~~-----~~~~~~~~i~~~~~~~~dgiii~~~~~~---~~~~~~---~gipvv~~~~~~~-- 86 (265)
T cd06291 20 AVEKELYKKGYKLILCNSDN-----DPEKEREYLEMLRQNQVDGIIAGTHNLG---IEEYEN---IDLPIVSFDRYLS-- 86 (265)
T ss_pred HHHHHHHHCCCeEEEecCCc-----cHHHHHHHHHHHHHcCCCEEEEecCCcC---HHHHhc---CCCCEEEEeCCCC--
Confidence 45567778898887543321 1111112221 1256999999876422 122222 3678999986421
Q ss_pred HHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC--------hhhHHHHHHhCCCeeeEEeeecc
Q 024773 142 FEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA--------SNEIEEGLSNRGFEVVRLNTYTT 212 (262)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~--------~~~L~~~L~~~G~~v~~i~vY~~ 212 (262)
. ++.. +.... ..+..+++.|.+. ..++++++.+... ..-+.+.|+++|..+..+. +..
T Consensus 87 ---~------~~~~-V~~d~~~~g~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~-~~~ 153 (265)
T cd06291 87 ---E------NIPI-VSSDNYEGGRLAAEELIER--GCKHIAHIGGPNNTVSPTNLRYEGFLDVLKENGLEVRIIE-IQE 153 (265)
T ss_pred ---C------CCCe-EeechHHHHHHHHHHHHHc--CCcEEEEEccCcccccchHHHHHHHHHHHHHcCCCCChhe-eec
Confidence 2 3322 22222 3345566666654 3478988877554 1345667888887654322 221
Q ss_pred ccCCC-ChHHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 213 EPVHH-VDQTVLKQA---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 213 ~~~~~-~~~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
..... ....+.+.+ ...++|+.++-..+..+++.+.+.+ ..++.+++++
T Consensus 154 ~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~vp~di~v~g~d 209 (265)
T cd06291 154 NFDDAEKKEEIKELLEEYPDIDGIFASNDLTAILVLKEAQQRGIRVPEDLQIIGYD 209 (265)
T ss_pred cccchHHHHHHHHHHhCCCCCCEEEECChHHHHHHHHHHHHcCCCCCcceEEeccC
Confidence 11111 112233333 2578888878878888888887765 2356666654
No 80
>cd06287 PBP1_LacI_like_8 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=94.55 E-value=0.76 Score=40.04 Aligned_cols=172 Identities=12% Similarity=0.093 Sum_probs=95.0
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
..+.+.++++|+.+...+..+ + . ..+ .....|.+|+.+...-...++.+.+ .+++++.+|.....
T Consensus 27 ~~i~~~~~~~gy~~~~~~~~~-----~-~---~~l-~~~~vdgiIi~~~~~~~~~~~~l~~---~~iPvV~i~~~~~~-- 91 (269)
T cd06287 27 AAAAESALERGLALCLVPPHE-----A-D---SPL-DALDIDGAILVEPMADDPQVARLRQ---RGIPVVSIGRPPGD-- 91 (269)
T ss_pred HHHHHHHHHCCCEEEEEeCCC-----c-h---hhh-hccCcCeEEEecCCCCCHHHHHHHH---cCCCEEEeCCCCCC--
Confidence 456677888999888765531 1 1 123 2357999998865432222333333 26789999864210
Q ss_pred HHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccccC
Q 024773 143 EEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEPV 215 (262)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~~~ 215 (262)
.. ++.....-.......+++.|.+.. .++++++.+... ..-+.+.+++.|.....+.+ .....
T Consensus 92 -~~------~~~~V~~d~~~~~~~a~~~L~~~G--~~~I~~i~~~~~~~~~~~R~~gf~~a~~~~g~~~~~~~~-~~~~~ 161 (269)
T cd06287 92 -RT------DVPYVDLQSAATARMLLEHLRAQG--ARQIALIVGSARRNSYLEAEAAYRAFAAEHGMPPVVLRV-DEAGG 161 (269)
T ss_pred -CC------CCCeEeeCcHHHHHHHHHHHHHcC--CCcEEEEeCCcccccHHHHHHHHHHHHHHcCCCcceeEe-cCCCC
Confidence 12 333222222234456666666542 468988876532 23355677778876542211 11111
Q ss_pred CCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEE
Q 024773 216 HHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVAC 259 (262)
Q Consensus 216 ~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~ 259 (262)
.... ..+.+.+ .+.++|+.++...+...+..+.+.+ .+++.|++
T Consensus 162 ~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~gvl~al~~~gl~vP~dvsvig 212 (269)
T cd06287 162 EEAGYAACAQLLAQHPDLDALCVPVDAFAVGAVRAATELGRAVPDQLRVVT 212 (269)
T ss_pred hHHHHHHHHHHHhCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCCceEEEe
Confidence 1111 1122223 2579999999999988988888765 34566654
No 81
>cd01536 PBP1_ABC_sugar_binding_like Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic sugar-binding domain of active transport systems that are members of the type I periplasmic binding protein (PBP1) superfamily. The members of this family function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea. The sugar binding domain is also homologous to the ligand-binding domain of eukaryotic receptors such as glutamate receptor (GluR) and DNA-binding transcriptional repressors such as LacI and GalR. Moreover, this periplasmic binding domain, also known as Venus flytrap domain, undergoes transition from an open to a closed conformational state upon the binding of ligands such as lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. This family also includes the periplasmic binding domain of autoinducer-2 (AI-2
Probab=94.46 E-value=0.79 Score=38.93 Aligned_cols=178 Identities=13% Similarity=0.089 Sum_probs=90.6
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHH--HHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAG--SVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 65 l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV--~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
+.+.++++|+++..++.-. .+......++..+ ..++|+||+.+.+.- ....+.+.+. +++++++|.....
T Consensus 21 ~~~~a~~~g~~~~~~~~~~-~~~~~~~~~~~l~--~~~vdgvi~~~~~~~~~~~~~~~l~~~---~ip~V~~~~~~~~-- 92 (267)
T cd01536 21 AEAAAKELGVELIVLDAQN-DVSKQIQQIEDLI--AQGVDGIIISPVDSAALTPALKKANAA---GIPVVTVDSDIDG-- 92 (267)
T ss_pred HHHHHHhcCceEEEECCCC-CHHHHHHHHHHHH--HcCCCEEEEeCCCchhHHHHHHHHHHC---CCcEEEecCCCCc--
Confidence 3455667888877655432 1100011122222 237999998765422 2244444433 6788888764321
Q ss_pred HHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCC-------ChhhHHHHHHhCC-CeeeEEeeeccc
Q 024773 143 EEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAK-------ASNEIEEGLSNRG-FEVVRLNTYTTE 213 (262)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~-------~~~~L~~~L~~~G-~~v~~i~vY~~~ 213 (262)
.. ++. .+.+.. ..+..+++.+.+.....+++.++.+.. ..+.+.+.+++.| ..+..+ +...
T Consensus 93 -~~------~~~-~v~~d~~~~~~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~--~~~~ 162 (267)
T cd01536 93 -GN------RLA-YVGTDNYEAGRLAGEYLAKLLGGKGKVAIIEGPPGSSNAQERVKGFRDALKEYPDIEIVAV--QDGN 162 (267)
T ss_pred -cc------eeE-EEecCHHHHHHHHHHHHHHHhCCCceEEEEEcccccchHHHHHHHHHHHHHhCCCcEEEEE--ecCC
Confidence 11 222 122322 234555566655422347888887653 2355667788774 544322 2111
Q ss_pred cCCCC-hHHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCC-CCCeEEEE
Q 024773 214 PVHHV-DQTVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQ-WSNSVACI 260 (262)
Q Consensus 214 ~~~~~-~~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~-~~~~i~~I 260 (262)
..... .+.+.+.+ +.+++|++++...+..+++.+.+.+. .++.+++.
T Consensus 163 ~~~~~~~~~~~~~~~~~~~~~~i~~~~d~~a~~~~~~l~~~g~~~~i~ivg~ 214 (267)
T cd01536 163 WDREKALQAMEDLLQANPDIDAIFAANDSMALGAVAALKAAGRKGDVKIVGV 214 (267)
T ss_pred CcHHHHHHHHHHHHHhCCCccEEEEecCCchHHHHHHHHhcCCCCCceEEec
Confidence 11111 11122222 24788888887777778887776543 34555543
No 82
>TIGR02417 fruct_sucro_rep D-fructose-responsive transcription factor. Members of this family belong the lacI helix-turn-helix family (pfam00356) of DNA-binding transcriptional regulators. All members are from the proteobacteria. Characterized members act as positive and negative transcriptional regulators of fructose and sucrose transport and metabolism. Sucrose is a disaccharide composed of fructose and glucose; D-fructose-1-phosphate rather than an intact sucrose moiety has been shown to act as the inducer.
Probab=94.46 E-value=0.71 Score=41.18 Aligned_cols=175 Identities=10% Similarity=0.065 Sum_probs=92.7
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHHH-HHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPEA-GSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~a-V~~f~~~l~~~~~~~~~i~aVG~~Ta~ 140 (262)
.+.+.++++|+.+....... +.+.....+. .-..+|+||+.+... ....+..+.+. +++++.+|....
T Consensus 81 ~i~~~~~~~gy~~~i~~~~~-----~~~~~~~~~~~l~~~~vdgiIi~~~~~~~~~~~~~l~~~---~iPvV~~~~~~~- 151 (327)
T TIGR02417 81 ELEQQCREAGYQLLIACSDD-----NPDQEKVVIENLLARQVDALIVASCMPPEDAYYQKLQNE---GLPVVALDRSLD- 151 (327)
T ss_pred HHHHHHHHCCCEEEEEeCCC-----CHHHHHHHHHHHHHcCCCEEEEeCCCCCChHHHHHHHhc---CCCEEEEccccC-
Confidence 45556677899887654321 1111111221 125799999876432 22333444333 678999986421
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeecc
Q 024773 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTT 212 (262)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~ 212 (262)
.. ++.. +.... ..+..+++.|.+.. .+++.++.|... ..-+.+.|+++|..+. + ++..
T Consensus 152 ---~~------~~~~-V~~dn~~~~~~~~~~L~~~G--~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~~~~~~-~-~~~~ 217 (327)
T TIGR02417 152 ---DE------HFCS-VISDDVDAAAELIERLLSQH--ADEFWYLGAQPELSVSRDRLAGFRQALKQATLEVE-W-VYGG 217 (327)
T ss_pred ---CC------CCCE-EEeCcHHHHHHHHHHHHHCC--CCeEEEEeCcccchhHHHHHHHHHHHHHHcCCChH-h-EEeC
Confidence 22 3332 22333 23455556666543 478999987543 2345667778876532 1 2221
Q ss_pred ccCCCCh-HHHHHHc---C-CCCEEEEeCHHHHHHHHHHhcccC--CCCCeEEEEC
Q 024773 213 EPVHHVD-QTVLKQA---L-SIPVVAVASPSAVRSWVNLISDTE--QWSNSVACIA 261 (262)
Q Consensus 213 ~~~~~~~-~~~~~~l---~-~~d~ivFtS~s~~~~~~~~~~~~~--~~~~~i~~IG 261 (262)
....... +.+.+.+ + .+++|++.+-..+..+++.+.+.+ ..++.|++++
T Consensus 218 ~~~~~~~~~~~~~ll~~~~~~~~Ai~~~~D~~A~g~~~al~~~g~vP~dvsvigfd 273 (327)
T TIGR02417 218 NYSRESGYQMFAKLCARLGRLPQALFTTSYTLLEGVLDYMLERPLLDSQLHLATFG 273 (327)
T ss_pred CCChHHHHHHHHHHHhcCCCCCcEEEEcCcHHHHHHHHHHHHcCCCCCcceEEEEC
Confidence 1111111 1222223 2 378999888777777777766544 3467777765
No 83
>cd06307 PBP1_uncharacterized_sugar_binding Periplasmic sugar-binding domain of uncharacterized transport systems. Periplasmic sugar-binding domain of uncharacterized transport systems that share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. The members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes.
Probab=94.45 E-value=1.8 Score=37.34 Aligned_cols=183 Identities=11% Similarity=0.007 Sum_probs=90.8
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC-CCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD-TIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l-~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~Ta~ 140 (262)
.+.+.++++|+....+....... .+.+...+.+..+ ...|+||+.+.+ ....+++.+.+. +++++.++.....
T Consensus 20 ~i~~~~~~~g~~~~~~~~~~~~~-~~~~~~~~~i~~~~~~vdgiii~~~~~~~~~~~i~~~~~~---~ipvV~~~~~~~~ 95 (275)
T cd06307 20 ALEAAAAAFPDARIRVRIHFVES-FDPAALAAALLRLGARSDGVALVAPDHPQVRAAVARLAAA---GVPVVTLVSDLPG 95 (275)
T ss_pred HHHHHHhhhhccCceEEEEEccC-CCHHHHHHHHHHHHhcCCEEEEeCCCcHHHHHHHHHHHHC---CCcEEEEeCCCCC
Confidence 34456667777665554332221 1222122222211 179999998864 333455555543 6688888753211
Q ss_pred HHHHhhhhcCCCCceeecCCCC-CHHHHHHHhhhC-CCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeec
Q 024773 141 IFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKN-GKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYT 211 (262)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~-~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~ 211 (262)
.. .+. .+....+ .+...++.|.+. ...+++++++.|... ..-+.+.+++.|..+....++.
T Consensus 96 ---~~------~~~-~V~~d~~~~g~~~~~~l~~~~g~~~~~i~~i~~~~~~~~~~~R~~gf~~a~~~~~~~~~~~~~~~ 165 (275)
T cd06307 96 ---SP------RAG-YVGIDNRAAGRTAAWLIGRFLGRRPGKVAVLAGSHRFRGHEEREMGFRSVLREEFPGLRVLETLE 165 (275)
T ss_pred ---Cc------eee-EEccChHHHHHHHHHHHHHHhCCCCCeEEEEecCCCCcchHHHHHHHHHHHHhhCCCcEEEeecc
Confidence 01 111 1222222 233344555554 222468998877542 2334556766665554333322
Q ss_pred cccCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCC-CCCeEEEEC
Q 024773 212 TEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQ-WSNSVACIA 261 (262)
Q Consensus 212 ~~~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~-~~~~i~~IG 261 (262)
........ +.+.+.+ ..+++|+.++... ..+++.+.+.+. .++.|++++
T Consensus 166 ~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~-~g~~~al~~~g~~~di~Ivg~d 219 (275)
T cd06307 166 GLDDPARAYEATRKLLARHPDLVGIYNAGGGN-RGVIRALREAGRAGKVVFVGHE 219 (275)
T ss_pred CCCChHHHHHHHHHHHHhCCCceEEEECCCCh-HHHHHHHHHcCCCCCcEEEEec
Confidence 22211111 1222222 2588888888765 678888877653 255666553
No 84
>cd06312 PBP1_ABC_sugar_binding_like_4 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=94.45 E-value=0.56 Score=40.54 Aligned_cols=180 Identities=14% Similarity=0.070 Sum_probs=92.4
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~Ta 139 (262)
.+.+.++++|+++.....-. .+.+.....+.. -..+|++|+++.. .+...++.+.+. +++++.++....
T Consensus 21 g~~~~~~~~g~~v~~~~~~~----~~~~~~~~~i~~l~~~~vdgiii~~~~~~~~~~~l~~~~~~---~ipvV~~~~~~~ 93 (271)
T cd06312 21 GAEDAAKDLGVDVEYRGPET----FDVADMARLIEAAIAAKPDGIVVTIPDPDALDPAIKRAVAA---GIPVISFNAGDP 93 (271)
T ss_pred HHHHHHHHhCCEEEEECCCC----CCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHHHHHHHC---CCeEEEeCCCCC
Confidence 44566667888887654321 022211122221 2479999998753 234444444443 678988874321
Q ss_pred HHHHHhhhhcCCCCceeecCC-CCCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeec
Q 024773 140 SIFEEVIQSSKCSLDVAFSPS-KATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYT 211 (262)
Q Consensus 140 ~~L~~~~~~~~~G~~~~~~p~-~~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~ 211 (262)
..=... ++.. +... ...+..+++.+.+. ...++++++.|+.. ..-+.+.++++|..+. .+.
T Consensus 94 ~~~~~~------~~~~-V~~d~~~~g~~~~~~l~~~-~g~~~i~~i~g~~~~~~~~~r~~g~~~~~~~~~~~~~---~~~ 162 (271)
T cd06312 94 KYKELG------ALAY-VGQDEYAAGEAAGERLAEL-KGGKNVLCVIHEPGNVTLEDRCAGFADGLGGAGITEE---VIE 162 (271)
T ss_pred cccccc------ceEE-eccChHHHHHHHHHHHHHh-cCCCeEEEEecCCCCccHHHHHHHHHHHHHhcCceee---Eee
Confidence 100001 1211 2222 23345556666652 23478888877432 2334556666665432 121
Q ss_pred cccCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCC-CCCeEEEEC
Q 024773 212 TEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQ-WSNSVACIA 261 (262)
Q Consensus 212 ~~~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~-~~~~i~~IG 261 (262)
........ ..+.+.+ .++|+|+.++...+...+..+.+.+. .++.+++++
T Consensus 163 ~~~~~~~~~~~~~~~l~~~~~~~aI~~~~d~~a~g~~~al~~~g~~~di~vvg~d 217 (271)
T cd06312 163 TGADPTEVASRIAAYLRANPDVDAVLTLGAPSAAPAAKALKQAGLKGKVKLGGFD 217 (271)
T ss_pred cCCCHHHHHHHHHHHHHhCCCccEEEEeCCccchHHHHHHHhcCCCCCeEEEEec
Confidence 11111111 1122222 36899999999988888887777653 456777665
No 85
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=94.44 E-value=0.75 Score=36.80 Aligned_cols=106 Identities=24% Similarity=0.395 Sum_probs=73.8
Q ss_pred CCCeEEEeCCC-----CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHH-----HHH
Q 024773 49 SNPKVVVTRER-----GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGS-----VFL 118 (262)
Q Consensus 49 ~g~~VLitR~~-----~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~-----~f~ 118 (262)
...||++.... ....-+.+.|++.|++|++.++.++. .+.+++++ -++.|.|...|-++-+ .+.
T Consensus 11 ~rprvlvak~GlDgHd~gakvia~~l~d~GfeVi~~g~~~tp----~e~v~aA~--~~dv~vIgvSsl~g~h~~l~~~lv 84 (143)
T COG2185 11 ARPRVLVAKLGLDGHDRGAKVIARALADAGFEVINLGLFQTP----EEAVRAAV--EEDVDVIGVSSLDGGHLTLVPGLV 84 (143)
T ss_pred CCceEEEeccCccccccchHHHHHHHHhCCceEEecCCcCCH----HHHHHHHH--hcCCCEEEEEeccchHHHHHHHHH
Confidence 45678877664 34567889999999999999987763 23334444 3678999998877653 445
Q ss_pred HHHHHcCCCCcEEEEeC---hhHHHHHHHhhhhcCCCCceeecCCCCCHHH
Q 024773 119 EAWKEAGTPNVRIGVVG---AGTASIFEEVIQSSKCSLDVAFSPSKATGKI 166 (262)
Q Consensus 119 ~~l~~~~~~~~~i~aVG---~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~ 166 (262)
+.+.+.+.+++.+++=| +...+.|+++ |+.-.+.|...-.+.
T Consensus 85 e~lre~G~~~i~v~~GGvip~~d~~~l~~~------G~~~if~pgt~~~~~ 129 (143)
T COG2185 85 EALREAGVEDILVVVGGVIPPGDYQELKEM------GVDRIFGPGTPIEEA 129 (143)
T ss_pred HHHHHhCCcceEEeecCccCchhHHHHHHh------CcceeeCCCCCHHHH
Confidence 56667777777766544 4455669999 999888886533333
No 86
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=94.42 E-value=1.3 Score=39.92 Aligned_cols=175 Identities=8% Similarity=-0.000 Sum_probs=91.4
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcE-EEEeChhHHHH
Q 024773 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVR-IGVVGAGTASI 141 (262)
Q Consensus 65 l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~-i~aVG~~Ta~~ 141 (262)
+.+.++++|+.+...... .+.+.....+.. -..+|+||+.+...-...+..+.+ +.+ +++++....
T Consensus 81 i~~~~~~~g~~~~~~~~~-----~~~~~~~~~i~~l~~~~vdgiIi~~~~~~~~~~~~~~~----~~p~vV~i~~~~~-- 149 (343)
T PRK10727 81 VEQVAYHTGNFLLIGNGY-----HNEQKERQAIEQLIRHRCAALVVHAKMIPDAELASLMK----QIPGMVLINRILP-- 149 (343)
T ss_pred HHHHHHHcCCEEEEEeCC-----CCHHHHHHHHHHHHhcCCCEEEEecCCCChHHHHHHHh----cCCCEEEEecCCC--
Confidence 445667789876543221 121111112211 257999999764211111222222 344 777875321
Q ss_pred HHHhhhhcCCCCceeecCCCC-CHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccc
Q 024773 142 FEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTE 213 (262)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~ 213 (262)
.. ++.. +....+ .+...++.|.+. ..+++.++.|... ..-+.+.|++.|..+....++...
T Consensus 150 --~~------~~~~-V~~Dn~~~~~~a~~~L~~~--G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~~~~~~~~~~~ 218 (343)
T PRK10727 150 --GF------ENRC-IALDDRYGAWLATRHLIQQ--GHTRIGYLCSNHSISDAEDRLQGYYDALAESGIPANDRLVTFGE 218 (343)
T ss_pred --CC------CCCE-EEECcHHHHHHHHHHHHHC--CCccEEEEeCCccccchHHHHHHHHHHHHHCCCCCChhhEEeCC
Confidence 12 3222 233333 334445566554 2478998877542 244667888888876543333222
Q ss_pred cCCCChHH-HHHHcC---CCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 214 PVHHVDQT-VLKQAL---SIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 214 ~~~~~~~~-~~~~l~---~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
.......+ +.+.+. .+++|+..+-..+-..++.+.+.+ ..++.|++++
T Consensus 219 ~~~~~~~~~~~~~l~~~~~~~ai~~~nD~~A~g~~~al~~~G~~vP~disVigfD 273 (343)
T PRK10727 219 PDESGGEQAMTELLGRGRNFTAVACYNDSMAAGAMGVLNDNGIDVPGEISLIGFD 273 (343)
T ss_pred CChhHHHHHHHHHHhCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCcceeEEeec
Confidence 21111112 222232 579999999888888888887765 3467777664
No 87
>cd01544 PBP1_GalR Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Ligand-binding domain of DNA transcription repressor GalR which is one of two regulatory proteins involved in galactose transport and metabolism. Transcription of the galactose regulon genes is regulated by Gal iso-repressor (GalS) and Gal repressor (GalR) in different ways, but both repressors recognize the same DNA binding site in the absence of D-galactose. GalR is a dimeric protein like GalS and is exclusively involved in the regulation of galactose permease, the low-affinity galactose transporter. GalS is involved in regulating expression of the high-affinity galactose transporter encoded by the mgl operon. GalS and GalR are members of the LacI-GalR family of transcription regulators and both contain the type I periplasmic binding protein-like fold. Hence, they are structurally homologous to the periplasmic sugar bindi
Probab=94.39 E-value=1.9 Score=37.19 Aligned_cols=170 Identities=12% Similarity=0.006 Sum_probs=93.6
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
..+.+.++++|+.+..... .. .. . . ....+|.+|+.+...- .....+... +++++.++....
T Consensus 24 ~gi~~~~~~~g~~~~~~~~------~~-~~-~--~-~~~~vdgii~~~~~~~-~~~~~~~~~---~~pvV~~~~~~~--- 85 (270)
T cd01544 24 LGIEKRAQELGIELTKFFR------DD-DL-L--E-ILEDVDGIIAIGKFSQ-EQLAKLAKL---NPNLVFVDSNPA--- 85 (270)
T ss_pred HHHHHHHHHcCCEEEEEec------cc-hh-H--H-hccCcCEEEEecCCCH-HHHHHHHhh---CCCEEEECCCCC---
Confidence 3456677888988876544 11 11 1 1 2467899998754321 222333332 578888886432
Q ss_pred HHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC------------hhhHHHHHHhCCCeeeEEee
Q 024773 143 EEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA------------SNEIEEGLSNRGFEVVRLNT 209 (262)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~------------~~~L~~~L~~~G~~v~~i~v 209 (262)
+. ++.. +.... ..+..+++.+.+. ..++++++.+... ..-+.+.+.++|. .....+
T Consensus 86 -~~------~~~~-v~~D~~~a~~~~~~~l~~~--g~~~i~~i~~~~~~~~~~~~~~~~R~~gf~~~~~~~~~-~~~~~~ 154 (270)
T cd01544 86 -PD------GFDS-VVPDFEQAVEKALDYLLEL--GHTRIGFIGGEEKTTDGHEYIEDPRETAFREYMKEKGL-YDPELI 154 (270)
T ss_pred -CC------CCCE-EEECHHHHHHHHHHHHHHc--CCCcEEEECCCcccccccchhhhHHHHHHHHHHHHcCC-CChheE
Confidence 12 2322 22222 3345556666653 3478999987542 3335567777773 222223
Q ss_pred eccccCCCChHH-HHHHc-----CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 210 YTTEPVHHVDQT-VLKQA-----LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 210 Y~~~~~~~~~~~-~~~~l-----~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
+..........+ +.+.+ +.+|+|++.+...+..++..+.+.+ ..++.|++.+
T Consensus 155 ~~~~~~~~~~~~~~~~~l~~~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~vp~di~v~g~d 215 (270)
T cd01544 155 YIGDFTVESGYQLMKEALKSLGDNLPTAFFIASDPMAIGALRALQEAGIKVPEDVSVISFN 215 (270)
T ss_pred eeCCCCHHHHHHHHHHHHhccCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCCceEEEEEC
Confidence 332221111111 22222 2479999999999999988887665 2467777764
No 88
>cd06277 PBP1_LacI_like_1 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=94.39 E-value=1.6 Score=37.43 Aligned_cols=176 Identities=10% Similarity=0.058 Sum_probs=93.5
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFE 143 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~ 143 (262)
.+.+.++++|+++...+.-. .. .....+...+ .-..+|+||+.+...-. .++.+.+. +++++.++..- .
T Consensus 23 ~i~~~~~~~g~~~~~~~~~~-~~-~~~~~~~~~l-~~~~vdgiii~~~~~~~-~~~~l~~~---~ipvV~~~~~~----~ 91 (268)
T cd06277 23 AIEEEAKKYGYNLILKFVSD-ED-EEEFELPSFL-EDGKVDGIILLGGISTE-YIKEIKEL---GIPFVLVDHYI----P 91 (268)
T ss_pred HHHHHHHHcCCEEEEEeCCC-Ch-HHHHHHHHHH-HHCCCCEEEEeCCCChH-HHHHHhhc---CCCEEEEccCC----C
Confidence 45566777898877654311 10 0011122222 12579999998854322 23434333 67888887531 1
Q ss_pred HhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccccC
Q 024773 144 EVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEPV 215 (262)
Q Consensus 144 ~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~~~ 215 (262)
.. ++.. +.... ..+...++.+.+. ..++++++.+... ..-+.+.+++.|..+....++...
T Consensus 92 ~~------~~~~-V~~d~~~~~~~a~~~l~~~--g~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~-- 160 (268)
T cd06277 92 NE------KADC-VLTDNYSGAYAATEYLIEK--GHRKIGFVGDPLYSPSFEERYEGYKKALLDHGIPFNEDYDITEK-- 160 (268)
T ss_pred CC------CCCE-EEecchHHHHHHHHHHHHC--CCCcEEEECCCCCCcchHHHHHHHHHHHHHcCCCCCcceEEEcc--
Confidence 22 3332 22222 2334444555543 2478998876653 223556777888766543332211
Q ss_pred CCChHH---HHHHc-CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 216 HHVDQT---VLKQA-LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 216 ~~~~~~---~~~~l-~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
...... +.+.. ..+++|+..+...+..++..+.+.+ .+++.+++++
T Consensus 161 ~~~~~~~~~~l~~~~~~~~ai~~~~d~~a~g~~~a~~~~g~~~p~di~vig~d 213 (268)
T cd06277 161 EEDEEDIGKFIDELKPLPTAFFCSNDGVAFLLIKVLKEMGIRVPEDVSVIGFD 213 (268)
T ss_pred hhHHHHHHHHHhcCCCCCCEEEECCcHHHHHHHHHHHHcCCCCCCcceEEeec
Confidence 111112 22222 2478998888888888888777665 2466777664
No 89
>PRK10401 DNA-binding transcriptional regulator GalS; Provisional
Probab=94.34 E-value=1.7 Score=39.15 Aligned_cols=176 Identities=9% Similarity=0.032 Sum_probs=92.7
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 65 l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
+.+.++++|+.+...... .+.+.....+.. -..+|++|+.+...-......+... ..+++.++....
T Consensus 81 i~~~~~~~gy~~~~~~~~-----~~~~~~~~~i~~l~~~~vdGiIi~~~~~~~~~~~~~~~~---~p~vV~i~~~~~--- 149 (346)
T PRK10401 81 VDLVAQQHQKYVLIGNSY-----HEAEKERHAIEVLIRQRCNALIVHSKALSDDELAQFMDQ---IPGMVLINRVVP--- 149 (346)
T ss_pred HHHHHHHCCCEEEEEcCC-----CChHHHHHHHHHHHhcCCCEEEEeCCCCChHHHHHHHhc---CCCEEEEecccC---
Confidence 445677789887644322 111111122221 2569999998632111112222221 113777875321
Q ss_pred HHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeecccc
Q 024773 143 EEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEP 214 (262)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~~ 214 (262)
.. ++.. +.... ..+...++.|.+. ..+++.++.|... ..-+.+.|+++|..+....++....
T Consensus 150 -~~------~~~~-V~~D~~~~~~~a~~~L~~~--G~~~I~~i~~~~~~~~~~~R~~Gf~~al~~~gi~~~~~~~~~~~~ 219 (346)
T PRK10401 150 -GY------AHRC-VCLDNVSGARMATRMLLNN--GHQRIGYLSSSHGIEDDAMRRAGWMSALKEQGIIPPESWIGTGTP 219 (346)
T ss_pred -CC------CCCE-EEECcHHHHHHHHHHHHHC--CCCeEEEEeCCCcCcchHHHHHHHHHHHHHcCCCCChhheecCCC
Confidence 12 3322 22222 2344555666554 2478988876542 2445678888887655433433222
Q ss_pred CCCCh-HHHHHHcC---CCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 215 VHHVD-QTVLKQAL---SIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 215 ~~~~~-~~~~~~l~---~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
..... +.+.+.+. .+++|+..+-..+..+++.+.+.+ ..++.|++++
T Consensus 220 ~~~~~~~~~~~~l~~~~~~~ai~~~nd~~A~g~~~al~~~G~~vP~disvigfD 273 (346)
T PRK10401 220 DMQGGEAAMVELLGRNLQLTAVFAYNDNMAAGALTALKDNGIAIPLHLSIIGFD 273 (346)
T ss_pred ChHHHHHHHHHHHcCCCCCcEEEECCcHHHHHHHHHHHHcCCCCCCceEEEEeC
Confidence 11111 12223332 579999999999989999988765 3467777664
No 90
>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=94.32 E-value=1 Score=38.79 Aligned_cols=181 Identities=12% Similarity=0.118 Sum_probs=89.3
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (262)
.+.+.++++|+++..+.... .+....+.+...+ ...+|++|+.+.. .....+..+.+. ++++++++....
T Consensus 20 ~i~~~~~~~g~~~~~~~~~~-~~~~~~~~i~~~~--~~~~dgiii~~~~~~~~~~~l~~~~~~---~ipvV~~~~~~~-- 91 (277)
T cd06319 20 GVKSKAKALGYDAVELSAEN-SAKKELENLRTAI--DKGVSGIIISPTNSSAAVTLLKLAAQA---KIPVVIADIGAE-- 91 (277)
T ss_pred HHHHHHHhcCCeEEEecCCC-CHHHHHHHHHHHH--hcCCCEEEEcCCchhhhHHHHHHHHHC---CCCEEEEecCCC--
Confidence 34456677898886543311 0000011122222 2579999887633 233444444443 678888874321
Q ss_pred HHHhhhhcCCCCceeecCCCC-CHHHHHHHhhhC----CCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEee
Q 024773 142 FEEVIQSSKCSLDVAFSPSKA-TGKILASELPKN----GKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNT 209 (262)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~----~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~v 209 (262)
.. .....+....+ .+..+++.+.+. ....+++.++.+... ..-+.+.++++|..+..+.
T Consensus 92 --~~------~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~- 162 (277)
T cd06319 92 --GG------DYVSYIKSDNYEGAYDLGKFLAAAMKAQGWADGKVGMVAIPQKRKNGQKRTKGFKEAMKEAGCDLAGIR- 162 (277)
T ss_pred --CC------ceEEEEeeccHHHHHHHHHHHHHHHHhhCCCCCcEEEEeccCCCccHHHHHHHHHHHHHhcCCceEeec-
Confidence 11 11111222222 233444444433 112468888876432 2445678888887654321
Q ss_pred eccccCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCC-CCCeEEEEC
Q 024773 210 YTTEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQ-WSNSVACIA 261 (262)
Q Consensus 210 Y~~~~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~-~~~~i~~IG 261 (262)
+......... ..+.+.+ ..+++|+..+...+...++.+.+.+. .++.+++++
T Consensus 163 ~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~~di~vvg~d 219 (277)
T cd06319 163 QQKDFSYQETFDYTNDLLTANPDIRAIWLQGSDRYQGALDAIATAGKTGKVLLICFD 219 (277)
T ss_pred cCCCCCHHHHHHHHHHHHHhCCCCCEEEECCCccchHHHHHHHHcCCCCCEEEEEcC
Confidence 1111111111 1122222 25788888887777778788776553 356666654
No 91
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=94.23 E-value=1.5 Score=38.55 Aligned_cols=179 Identities=8% Similarity=0.063 Sum_probs=95.0
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGT 138 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~T 138 (262)
..+.+.++++|+++...... .+.+.....+.. ...+|++++++.. .....+..+.. .+++++.++...
T Consensus 46 ~~i~~~~~~~G~~~~~~~~~-----~d~~~~~~~~~~l~~~~~dgiii~~~~~~~~~~~l~~~~~---~~ipvV~~~~~~ 117 (295)
T PRK10653 46 DGAQKEADKLGYNLVVLDSQ-----NNPAKELANVQDLTVRGTKILLINPTDSDAVGNAVKMANQ---ANIPVITLDRGA 117 (295)
T ss_pred HHHHHHHHHcCCeEEEecCC-----CCHHHHHHHHHHHHHcCCCEEEEcCCChHHHHHHHHHHHH---CCCCEEEEccCC
Confidence 34556678899888764321 122111222221 2468989887643 22233344443 267888888532
Q ss_pred HHHHHHhhhhcCCCCceeecCCCCC-HHHHHHHhhhCCCCccEEEEEccCC-------ChhhHHHHHHhCCCeeeEEeee
Q 024773 139 ASIFEEVIQSSKCSLDVAFSPSKAT-GKILASELPKNGKKKCTVLYPASAK-------ASNEIEEGLSNRGFEVVRLNTY 210 (262)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~~~t-~e~L~~~l~~~~~~g~~vL~~~g~~-------~~~~L~~~L~~~G~~v~~i~vY 210 (262)
.. .. .+. .+.+..+. ++.+++.+.+....+.+++++.|.. ...-+.+.+++.|.++.. .+
T Consensus 118 ~~---~~------~~~-~V~~D~~~~g~~~~~~l~~~~~~~~~i~~~~~~~~~~~~~~R~~gf~~al~~~g~~~~~--~~ 185 (295)
T PRK10653 118 TK---GE------VVS-HIASDNVAGGKMAGDFIAKKLGEGAKVIQLEGIAGTSAARERGEGFKQAVAAHKFNVLA--SQ 185 (295)
T ss_pred CC---Cc------eee-EEccChHHHHHHHHHHHHHHhCCCceEEEEEccCCCccHHHHHHHHHHHHhhCCCEEEE--ec
Confidence 10 01 122 23333333 4666777776432224677666542 235577888888865522 22
Q ss_pred ccccCCCChHH-HHHHc---CCCCEEEEeCHHHHHHHHHHhcccCCCCCeEEEEC
Q 024773 211 TTEPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSWVNLISDTEQWSNSVACIA 261 (262)
Q Consensus 211 ~~~~~~~~~~~-~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~~~~~i~~IG 261 (262)
..........+ +.+.+ ..++++++++-..+..++..+.+.+..++.|++++
T Consensus 186 ~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~l~al~~~G~~dv~vig~d 240 (295)
T PRK10653 186 PADFDRTKGLNVMQNLLTAHPDVQAVFAQNDEMALGALRALQTAGKSDVMVVGFD 240 (295)
T ss_pred CCCCCHHHHHHHHHHHHHhCCCcCEEEECCChhHHHHHHHHHHcCCCceEEEEeC
Confidence 21111000111 11222 25789999999999888888877654466666654
No 92
>cd06280 PBP1_LacI_like_4 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=94.16 E-value=0.87 Score=39.07 Aligned_cols=175 Identities=7% Similarity=0.035 Sum_probs=93.9
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchH---HHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDR---LSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~---l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta 139 (262)
..+.+.++++|+.+..... . .+.+. +...+ ....+|+||+++...-..... +.. .+.+++.+|....
T Consensus 19 ~~i~~~~~~~g~~~~~~~~---~--~~~~~~~~~i~~l-~~~~~dgiii~~~~~~~~~~~-~~~---~~iPvV~~~~~~~ 88 (263)
T cd06280 19 RAVEDAAYRAGLRVILCNT---D--EDPEKEAMYLELM-EEERVTGVIFAPTRATLRRLA-ELR---LSFPVVLIDRAGP 88 (263)
T ss_pred HHHHHHHHHCCCEEEEEeC---C--CCHHHHHHHHHHH-HhCCCCEEEEeCCCCCchHHH-HHh---cCCCEEEECCCCC
Confidence 3455677888988864321 1 12221 11222 235699999988653332222 222 2678999986532
Q ss_pred HHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCC------hhhHHHHHHhCCCeeeEEeeeccc
Q 024773 140 SIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA------SNEIEEGLSNRGFEVVRLNTYTTE 213 (262)
Q Consensus 140 ~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~------~~~L~~~L~~~G~~v~~i~vY~~~ 213 (262)
.. .+..........+..+++.|.+.. .+++.++.|... ..-+.+.+++.|.......+ ..
T Consensus 89 ----~~------~~~~v~~d~~~~g~~a~~~L~~~g--~~~i~~~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~--~~ 154 (263)
T cd06280 89 ----AG------RVDAVVLDNRAAARTLVEHLVAQG--YRRIGGLFGNASTTGAERRAGYEDAMRRHGLAPDARFV--AP 154 (263)
T ss_pred ----CC------CCCEEEECcHHHHHHHHHHHHHCC--CceEEEEeCCCCCCHHHHHHHHHHHHHHcCCCCChhhc--cc
Confidence 12 233222222234455556666542 368888877532 23455677777765432111 10
Q ss_pred cCCCChHHHHHHcC---CCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 214 PVHHVDQTVLKQAL---SIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 214 ~~~~~~~~~~~~l~---~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
......+.+.+.+. ..++|+.++...+...++.+.+.+ ..++.|++++
T Consensus 155 ~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~~p~di~iig~d 208 (263)
T cd06280 155 TAEAAEAALAAWLAAPERPEALVASNGLLLLGALRAVRAAGLRIPQDLALAGFD 208 (263)
T ss_pred CHHHHHHHHHHHhcCCCCCcEEEECCcHHHHHHHHHHHHcCCCCCCcEEEEEeC
Confidence 01111122333342 579999999998988888887765 3466666653
No 93
>PRK09526 lacI lac repressor; Reviewed
Probab=94.11 E-value=1.1 Score=40.20 Aligned_cols=176 Identities=9% Similarity=0.010 Sum_probs=92.9
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (262)
.+.+.++++|+++.....-. .+.+.....+. .-..+|+||+.++..-......... ..+++++.++..
T Consensus 84 gi~~~a~~~g~~~~i~~~~~----~~~~~~~~~l~~l~~~~vdGiii~~~~~~~~~~~~~~~--~~~iPvV~~d~~---- 153 (342)
T PRK09526 84 AIKSRADQLGYSVVISMVER----SGVEACQAAVNELLAQRVSGVIINVPLEDADAEKIVAD--CADVPCLFLDVS---- 153 (342)
T ss_pred HHHHHHHHCCCEEEEEeCCC----ChHHHHHHHHHHHHhcCCCEEEEecCCCcchHHHHHhh--cCCCCEEEEecc----
Confidence 34466678898887653211 11111112221 1257999998633221222111111 136788888742
Q ss_pred HHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccc
Q 024773 142 FEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTE 213 (262)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~ 213 (262)
... ++.. +.... ..+..+++.|.+. ..++++++.|... ..-+.+.|++.|..+.. ++...
T Consensus 154 -~~~------~~~~-V~~d~~~~~~~a~~~L~~~--G~~~I~~l~g~~~~~~~~~R~~Gf~~al~~~gi~~~~--~~~~~ 221 (342)
T PRK09526 154 -PQS------PVNS-VSFDPEDGTRLGVEHLVEL--GHQRIALLAGPESSVSARLRLAGWLEYLTDYQLQPIA--VREGD 221 (342)
T ss_pred -CCC------CCCE-EEECcHHHHHHHHHHHHHC--CCCeEEEEeCCCccccHHHHHHHHHHHHHHcCCCcce--EEeCC
Confidence 122 3322 23333 3345666777765 3478999987643 23456778888875422 22211
Q ss_pred cCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 214 PVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 214 ~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
...... ..+.+.+ ..+++|+.++-..+..+++.+.+.+ ..++.|+.++
T Consensus 222 ~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~~~al~~~g~~vP~disvig~d 276 (342)
T PRK09526 222 WSAMSGYQQTLQMLREGPVPSAILVANDQMALGVLRALHESGLRVPGQISVIGYD 276 (342)
T ss_pred CchHHHHHHHHHHhcCCCCCcEEEEcCcHHHHHHHHHHHHcCCCCCCceEEEeeC
Confidence 111111 1222323 2579999999998888888888765 2466666654
No 94
>PRK09492 treR trehalose repressor; Provisional
Probab=94.07 E-value=2.5 Score=37.40 Aligned_cols=171 Identities=10% Similarity=0.041 Sum_probs=92.7
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~ 140 (262)
..+.+.++++|+.+..... . .+.+.....+. .-..+|++|+.+..... .+.+... ..+++++|...
T Consensus 82 ~~i~~~~~~~gy~~~~~~~---~--~~~~~~~~~~~~l~~~~vdgiIi~~~~~~~--~~~l~~~---~~pvv~i~~~~-- 149 (315)
T PRK09492 82 RTMLPAFYEQGYDPIIMES---Q--FSPEKVNEHLGVLKRRNVDGVILFGFTGIT--EEMLAPW---QDKLVLLARDA-- 149 (315)
T ss_pred HHHHHHHHHcCCeEEEEec---C--CChHHHHHHHHHHHhcCCCEEEEeCCCccc--HHHHHhc---CCCEEEEeccC--
Confidence 3456677788988764432 1 12111112221 22569999987632211 1222222 34688887521
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCC--------ChhhHHHHHHhCCCeeeEEeeec
Q 024773 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAK--------ASNEIEEGLSNRGFEVVRLNTYT 211 (262)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~--------~~~~L~~~L~~~G~~v~~i~vY~ 211 (262)
. ++.. +.... ..+..+++.|.+.. .+++.++.+.. ...-+.+.|++.|..+.. +.
T Consensus 150 ----~------~~~~-V~~D~~~~~~~a~~~L~~~G--~~~I~~i~~~~~~~~~~~~R~~Gf~~al~~~g~~~~~---~~ 213 (315)
T PRK09492 150 ----K------GFSS-VCYDDEGAIKLLMQRLYDQG--HRHISYLGVDHSDVTTGKRRHQAYLAFCKQHKLTPVA---AL 213 (315)
T ss_pred ----C------CCcE-EEECcHHHHHHHHHHHHHcC--CCeEEEEcCCcccchhHHHHHHHHHHHHHHcCCCcee---ec
Confidence 2 3332 22232 34556667777642 47899887532 123456788888876532 11
Q ss_pred cccCCCChHH-HHHHc-CCCCEEEEeCHHHHHHHHHHhcccCCCCCeEEEEC
Q 024773 212 TEPVHHVDQT-VLKQA-LSIPVVAVASPSAVRSWVNLISDTEQWSNSVACIA 261 (262)
Q Consensus 212 ~~~~~~~~~~-~~~~l-~~~d~ivFtS~s~~~~~~~~~~~~~~~~~~i~~IG 261 (262)
.........+ +.+.+ .++++|+..+-..+-.+++.+.+.+..++.|+.++
T Consensus 214 ~~~~~~~~~~~~~~~l~~~~~ai~~~~D~~A~g~~~al~~~g~~disvig~d 265 (315)
T PRK09492 214 GGLSMQSGYELVAKVLTPETTALVCATDTLALGASKYLQEQGRDDIQVAGVG 265 (315)
T ss_pred CCCCchHHHHHHHHHhhcCCCEEEEcCcHHHHHHHHHHHHcCCCceEEEeeC
Confidence 1111111111 22222 37899999999988888888887665566666654
No 95
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=94.02 E-value=1.9 Score=35.86 Aligned_cols=148 Identities=14% Similarity=0.094 Sum_probs=84.4
Q ss_pred CCccEEEEeCHHHHHH-HHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCc
Q 024773 101 TIFDWIIITSPEAGSV-FLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKK 178 (262)
Q Consensus 101 ~~~d~IiFTS~~aV~~-f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g 178 (262)
..+|+++......... ....+... ++++++++....... .. ..-..+.+.. ...+.+++.+.+.. .
T Consensus 57 ~~~d~ii~~~~~~~~~~~~~~~~~~---~ip~v~~~~~~~~~~-~~------~~~~~~~~~~~~~~~~~~~~l~~~~--~ 124 (269)
T cd01391 57 QGVDGIIGPPSSSSALAVVELAAAA---GIPVVSLDATAPDLT-GY------PYVFRVGPDNEQAGEAAAEYLAEKG--W 124 (269)
T ss_pred cCCCEEEecCCCHHHHHHHHHHHHc---CCcEEEecCCCCccC-CC------ceEEEEcCCcHHHHHHHHHHHHHhC--C
Confidence 4689999876643332 44444443 678888876543211 11 1112233332 34566666666654 4
Q ss_pred cEEEEEccCCC------hhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcC---CCCEEEEeCHHHHHHHHHHhcc
Q 024773 179 CTVLYPASAKA------SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQAL---SIPVVAVASPSAVRSWVNLISD 249 (262)
Q Consensus 179 ~~vL~~~g~~~------~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~---~~d~ivFtS~s~~~~~~~~~~~ 249 (262)
+++.++.+... ...+.+.+++.|..+.....+..... ...+.+.+.+. +.++|++.+...+..+++.+.+
T Consensus 125 ~~i~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~~~~~~~~i~~~~~~~a~~~~~~~~~ 203 (269)
T cd01391 125 KRVALIYGDDGAYGRERLEGFKAALKKAGIEVVAIEYGDLDTE-KGFQALLQLLKAAPKPDAIFACNDEMAAGALKAARE 203 (269)
T ss_pred ceEEEEecCCcchhhHHHHHHHHHHHhcCcEEEeccccCCCcc-ccHHHHHHHHhcCCCCCEEEEcCchHHHHHHHHHHH
Confidence 78888877652 34556677777755543333332221 22233334342 5899999998888999888877
Q ss_pred cCC--CCCeEEEEC
Q 024773 250 TEQ--WSNSVACIA 261 (262)
Q Consensus 250 ~~~--~~~~i~~IG 261 (262)
.+. .++.+++++
T Consensus 204 ~g~~~~~~~ii~~~ 217 (269)
T cd01391 204 AGLTPGDISIIGFD 217 (269)
T ss_pred cCCCCCCCEEEecc
Confidence 653 466666553
No 96
>PRK08306 dipicolinate synthase subunit A; Reviewed
Probab=94.00 E-value=2.6 Score=37.77 Aligned_cols=176 Identities=14% Similarity=0.093 Sum_probs=102.2
Q ss_pred CCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeee--C-CCc-hHHHHHHhcCCCccEEEEeCHH--------HH--
Q 024773 49 SNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQ--G-PDT-DRLSSVLNADTIFDWIIITSPE--------AG-- 114 (262)
Q Consensus 49 ~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~--~-~~~-~~l~~~l~~l~~~d~IiFTS~~--------aV-- 114 (262)
.|+++.+..++...-.+++.|.+.|++|...-+-.-.. . ... +..++. +++.|+|++--|- +.
T Consensus 1 ~~~~~~v~ggd~r~~~~~~~l~~~G~~v~~~g~~~~~~~~~g~~~~~~~~~~---~~~ad~ii~~~p~~~~~~~i~~~~~ 77 (296)
T PRK08306 1 TGKHIAVIGGDARQLELIRKLVELGAKVSLVGFDQLDHGFTGATKSSSLEEA---LSDVDVIILPVPGTNDEGNVDTVFS 77 (296)
T ss_pred CCcEEEEEcCcHHHHHHHHHHHHCCCEEEEEeccccccccCCceeeccHHHH---hccCCEEEECCccccCCceeecccc
Confidence 37899999999888899999999999998622111000 0 000 011122 4678999977331 11
Q ss_pred -------HHHHHHHHHcCCCC-cEEEEeChhHHHHHHHhhhhcCCCCceeecC---------CCCCHHHHHHH-hhhC--
Q 024773 115 -------SVFLEAWKEAGTPN-VRIGVVGAGTASIFEEVIQSSKCSLDVAFSP---------SKATGKILASE-LPKN-- 174 (262)
Q Consensus 115 -------~~f~~~l~~~~~~~-~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p---------~~~t~e~L~~~-l~~~-- 174 (262)
+.+++.+.+. . .-+-++-+...+.+++. |+++.-.+ ...++++-+.. +...
T Consensus 78 ~~~~~~~~~~l~~l~~~---~~v~~G~~~~~~~~~~~~~------gi~~~~~~~~~~~~~~ns~~~aegav~~a~~~~~~ 148 (296)
T PRK08306 78 NEKLVLTEELLELTPEH---CTIFSGIANPYLKELAKET------NRKLVELFERDDVAILNSIPTAEGAIMMAIEHTPI 148 (296)
T ss_pred ccCCcchHHHHHhcCCC---CEEEEecCCHHHHHHHHHC------CCeEEEEeccchhhhhccHhHHHHHHHHHHHhCCC
Confidence 2233333221 1 11223346666777777 99874222 12455554433 3222
Q ss_pred CCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCC-----------ChHHHHHHcCCCCEEEEeCHHH
Q 024773 175 GKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHH-----------VDQTVLKQALSIPVVAVASPSA 239 (262)
Q Consensus 175 ~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~-----------~~~~~~~~l~~~d~ivFtS~s~ 239 (262)
...+++++++........+...|+..|++ +.+|.+.+... ...++.+.+.+.|+|+-|.|..
T Consensus 149 ~l~g~kvlViG~G~iG~~~a~~L~~~Ga~---V~v~~r~~~~~~~~~~~G~~~~~~~~l~~~l~~aDiVI~t~p~~ 221 (296)
T PRK08306 149 TIHGSNVLVLGFGRTGMTLARTLKALGAN---VTVGARKSAHLARITEMGLSPFHLSELAEEVGKIDIIFNTIPAL 221 (296)
T ss_pred CCCCCEEEEECCcHHHHHHHHHHHHCCCE---EEEEECCHHHHHHHHHcCCeeecHHHHHHHhCCCCEEEECCChh
Confidence 22578999998877777888999999974 45555443210 1122334456899999998854
No 97
>PRK14987 gluconate operon transcriptional regulator; Provisional
Probab=93.98 E-value=2.2 Score=38.10 Aligned_cols=176 Identities=10% Similarity=0.046 Sum_probs=92.2
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (262)
.+.+.++++|+++...+.. .+.+.....+. .-..+|+||+.+...-...++.+.+. +++++.++....
T Consensus 84 gi~~~~~~~g~~~~~~~~~-----~~~~~~~~~~~~~~~~~vdgiI~~~~~~~~~~~~~l~~~---~iPvV~~~~~~~-- 153 (331)
T PRK14987 84 GIESVTDAHGYQTMLAHYG-----YKPEMEQERLESMLSWNIDGLILTERTHTPRTLKMIEVA---GIPVVELMDSQS-- 153 (331)
T ss_pred HHHHHHHHCCCEEEEecCC-----CCHHHHHHHHHHHHhcCCCEEEEcCCCCCHHHHHHHHhC---CCCEEEEecCCC--
Confidence 3555666789887754431 11111111221 13579999997533222223333333 567887753211
Q ss_pred HHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC------hhhHHHHHHhCCCeeeEEeeecccc
Q 024773 142 FEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA------SNEIEEGLSNRGFEVVRLNTYTTEP 214 (262)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~------~~~L~~~L~~~G~~v~~i~vY~~~~ 214 (262)
. +....+.... ..+...++.|.+.. .+++.++.+... ..-+.+.|+++|.....+ +++...
T Consensus 154 ---~------~~~~~V~~Dn~~~~~~a~~~L~~~G--h~~I~~i~~~~~~~~~~R~~Gf~~al~~~g~~~~~~-~~~~~~ 221 (331)
T PRK14987 154 ---P------CLDIAVGFDNFEAARQMTTAIIARG--HRHIAYLGARLDERTIIKQKGYEQAMLDAGLVPYSV-MVEQSS 221 (331)
T ss_pred ---C------CCCceEEeCcHHHHHHHHHHHHHCC--CceEEEEcCCCcccHHHHHHHHHHHHHHcCCCccce-eecCCC
Confidence 1 1111123333 33455566676643 478998876532 244567788888643222 222111
Q ss_pred CCCChHHHHHH-c---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 215 VHHVDQTVLKQ-A---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 215 ~~~~~~~~~~~-l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
......+..+. + ..+++|+.++-..+-..+..+.+.+ ..++.|++++
T Consensus 222 ~~~~~~~~~~~~l~~~~~~~ai~~~nD~~A~g~~~al~~~g~~vP~disvigfD 275 (331)
T PRK14987 222 SYSSGIELIRQARREYPQLDGVFCTNDDLAVGAAFECQRLGLKVPDDMAIAGFH 275 (331)
T ss_pred ChhhHHHHHHHHHhcCCCCCEEEECCcHHHHHHHHHHHHcCCCCCCccEEEeeC
Confidence 11111122222 2 2579999999998888888887765 3567777764
No 98
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members 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. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=93.92 E-value=1.9 Score=37.05 Aligned_cols=144 Identities=16% Similarity=0.023 Sum_probs=78.7
Q ss_pred CCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCC
Q 024773 101 TIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKK 177 (262)
Q Consensus 101 ~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~ 177 (262)
...|+||+.+.. +....++.+.+. +++++.++..... . ++. .+.... ..+..+++.|.+....
T Consensus 59 ~~vdgiIi~~~~~~~~~~~l~~~~~~---~iPvv~~~~~~~~----~------~~~-~v~~d~~~~g~~~~~~l~~~~~g 124 (272)
T cd06300 59 QGVDAIIINPASPTALNPVIEEACEA---GIPVVSFDGTVTT----P------CAY-NVNEDQAEFGKQGAEWLVKELGG 124 (272)
T ss_pred cCCCEEEEeCCChhhhHHHHHHHHHC---CCeEEEEecCCCC----C------cee-EecCCHHHHHHHHHHHHHHHcCC
Confidence 489999997643 334344445443 6788888753211 1 221 122332 2345566666665334
Q ss_pred ccEEEEEccCCC-------hhhHHHHHHhCC-CeeeEEeeeccccCCCC-hHHHHHHc---CCCCEEEEeCHHHHHHHHH
Q 024773 178 KCTVLYPASAKA-------SNEIEEGLSNRG-FEVVRLNTYTTEPVHHV-DQTVLKQA---LSIPVVAVASPSAVRSWVN 245 (262)
Q Consensus 178 g~~vL~~~g~~~-------~~~L~~~L~~~G-~~v~~i~vY~~~~~~~~-~~~~~~~l---~~~d~ivFtS~s~~~~~~~ 245 (262)
.++++++.|... ..-+.+.+++.| .++.. ++........ .+.+.+.+ ..+++|+.++.. +...++
T Consensus 125 ~~~i~~i~~~~~~~~~~~R~~g~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~-A~g~~~ 201 (272)
T cd06300 125 KGNVLVVRGLAGHPVDEDRYAGAKEVLKEYPGIKIVG--EVYGDWDQAVAQKAVADFLASNPDVDGIWTQGGD-AVGAVQ 201 (272)
T ss_pred CceEEEEECCCCCcchHHHHHHHHHHHHHCCCcEEEe--ecCCCCCHHHHHHHHHHHHHhCCCcCEEEecCCC-cHHHHH
Confidence 578988876432 244667777776 65532 2221111111 11122222 257999999888 888888
Q ss_pred HhcccCCCCCeEEEEC
Q 024773 246 LISDTEQWSNSVACIA 261 (262)
Q Consensus 246 ~~~~~~~~~~~i~~IG 261 (262)
.+.+.+..-..++++|
T Consensus 202 al~~~g~~~p~v~g~d 217 (272)
T cd06300 202 AFEQAGRDIPPVTGED 217 (272)
T ss_pred HHHHcCCCCcEEEeeC
Confidence 8877654323445443
No 99
>cd06322 PBP1_ABC_sugar_binding_like_12 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the 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 consist 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=93.86 E-value=1.4 Score=37.79 Aligned_cols=181 Identities=11% Similarity=0.059 Sum_probs=93.2
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~Ta~ 140 (262)
..+.+.++++|+++...+... .+....+.++..+ -...|++|+++.. .....++.+.+. +++++.++...
T Consensus 19 ~~i~~~~~~~g~~~~i~~~~~-~~~~~~~~~~~~~--~~~vdgiii~~~~~~~~~~~~~~~~~~---~ipvV~~~~~~-- 90 (267)
T cd06322 19 NAMKEEAKKQKVNLIVSIANQ-DLNKQLSDVEDFI--TKKVDAIVLSPVDSKGIRAAIAKAKKA---GIPVITVDIAA-- 90 (267)
T ss_pred HHHHHHHHhcCCEEEEecCCC-CHHHHHHHHHHHH--HcCCCEEEEcCCChhhhHHHHHHHHHC---CCCEEEEcccC--
Confidence 445667778898886543211 0000011122222 2579999997643 234444555443 57788887421
Q ss_pred HHHHhhhhcCCCCceeecCCCCC-HHHHHHHhhhCCCCccEEEEEccCCC------hhhHHHHHHhC-CCeeeEEeeecc
Q 024773 141 IFEEVIQSSKCSLDVAFSPSKAT-GKILASELPKNGKKKCTVLYPASAKA------SNEIEEGLSNR-GFEVVRLNTYTT 212 (262)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~~t-~e~L~~~l~~~~~~g~~vL~~~g~~~------~~~L~~~L~~~-G~~v~~i~vY~~ 212 (262)
... +....+....+. +...++.+.+.....+++.++.+... .+-+.+.+++. |..+... +..
T Consensus 91 --~~~------~~~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~i~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~--~~~ 160 (267)
T cd06322 91 --EGV------AVVSHVATDNYAGGVLAGELAAKVLNGKGQVAIIDYPTVQSVVDRVRGFKEALADYPNIKIVAV--QPG 160 (267)
T ss_pred --CCC------ceEEEEecChHHHHHHHHHHHHHHhCCCceEEEEecCCCccHHHHHHHHHHHHHhCCCcEEEEe--cCC
Confidence 111 111123333322 33445556554223368888876422 24455677777 7655322 111
Q ss_pred ccCCCChHHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCCCCCeEEEEC
Q 024773 213 EPVHHVDQTVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQWSNSVACIA 261 (262)
Q Consensus 213 ~~~~~~~~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~~~~~i~~IG 261 (262)
...+.....+.+.+ .++++|+..+-..+...++.+.+.+..++.+++++
T Consensus 161 ~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~~~g~~di~vvg~d 212 (267)
T cd06322 161 ITRAEALTAAQNILQANPDLDGIFAFGDDAALGAVSAIKAAGRDNVKVIGFD 212 (267)
T ss_pred CChHHHHHHHHHHHHhCCCCCEEEEcCCcHHHHHHHHHHHCCCCCeEEEEec
Confidence 11111111122222 35899999998888888888877654566666654
No 100
>cd06354 PBP1_BmpA_PnrA_like Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. Periplasmic binding domain of basic membrane lipoprotein, PnrA, in Treponema pallidum and its homologs from other bacteria and Archaea. The PnrA lipoprotein, also known as Tp0319 or TmpC, represents a novel family of bacterial purine nucleoside receptor encoded within an ATP-binding cassette (ABC) transport system (pnrABCDE). It shows a striking structural similarity to another basic membrane lipoprotein Med which regulates the competence transcription factor gene, comK, in Bacillus subtilis. The members of PnrA-like subgroup are likely to have similar nucleoside-binding functions and a similar type I periplasmic sugar-binding protein-like fold.
Probab=93.69 E-value=2.6 Score=36.49 Aligned_cols=176 Identities=12% Similarity=0.040 Sum_probs=90.9
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFE 143 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~ 143 (262)
-+.+.++++|+++...+... + .+..+..+.+ .-...|.||+++...-....+.+... .+++++.+|....
T Consensus 23 gi~~~~~~~gy~~~i~~~~~--~-~~~~~~i~~l-~~~~vdgiI~~~~~~~~~~~~~~~~~--~~~PiV~i~~~~~---- 92 (265)
T cd06354 23 GLERAAKELGIEYKYVESKS--D-ADYEPNLEQL-ADAGYDLIVGVGFLLADALKEVAKQY--PDQKFAIIDAVVD---- 92 (265)
T ss_pred HHHHHHHHcCCeEEEEecCC--H-HHHHHHHHHH-HhCCCCEEEEcCcchHHHHHHHHHHC--CCCEEEEEecccC----
Confidence 45567788999988875431 1 1111222222 23679999998754333333333321 2578999986321
Q ss_pred H-hhhhcCCCCceeecCCCCC-HHHHHHHhhhCCCCccEEEEEccCCC-----h-hhHHHHHHhCC---CeeeEEeeecc
Q 024773 144 E-VIQSSKCSLDVAFSPSKAT-GKILASELPKNGKKKCTVLYPASAKA-----S-NEIEEGLSNRG---FEVVRLNTYTT 212 (262)
Q Consensus 144 ~-~~~~~~~G~~~~~~p~~~t-~e~L~~~l~~~~~~g~~vL~~~g~~~-----~-~~L~~~L~~~G---~~v~~i~vY~~ 212 (262)
. . ++.. +....+. ...+...+... ...+++.++.+... + .-+.+.+++.| ..+....++..
T Consensus 93 ~~~------~~~~-v~~d~~~a~~~a~~ll~~~-~G~~~I~~i~~~~~~~~~~r~~gf~~~~~~~g~~~~~~~~~~~~~~ 164 (265)
T cd06354 93 DPP------NVAS-IVFKEEEGSFLAGYLAALM-TKTGKVGFIGGMDIPLIRRFEAGFEAGVKYVNPGVPDIEVLVQYAG 164 (265)
T ss_pred CCC------cEEE-EEecchhHHHHHHHHHHhh-cCCCeEEEEecccChHHHHHHHHHHHHHHHHhccCCCceEEEEEcC
Confidence 1 2 3322 2222222 23333223221 13478999976532 2 34566677777 55544334332
Q ss_pred ccC-CCChHH-HHHHcC-CCCEEEEeCHHHHHHHHHHhcccCCCCCeEEEE
Q 024773 213 EPV-HHVDQT-VLKQAL-SIPVVAVASPSAVRSWVNLISDTEQWSNSVACI 260 (262)
Q Consensus 213 ~~~-~~~~~~-~~~~l~-~~d~ivFtS~s~~~~~~~~~~~~~~~~~~i~~I 260 (262)
... .....+ +.+.+. ..|+|+.++-..+-..+..+++.+ +.|+++
T Consensus 165 ~~~~~~~~~~~~~~ll~~~pdaI~~~nd~~A~gv~~al~~~g---isIvGf 212 (265)
T cd06354 165 SFNDPAKGKEIAQAMYDQGADVIFAAAGGTGNGVFQAAKEAG---VYAIGV 212 (265)
T ss_pred cccCHHHHHHHHHHHHHCCCcEEEECCCCCchHHHHHHHhcC---CeEEEe
Confidence 221 111112 222232 579988888888777777777653 444443
No 101
>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=93.68 E-value=2.3 Score=33.56 Aligned_cols=111 Identities=17% Similarity=0.191 Sum_probs=71.5
Q ss_pred CCeEEEeCCCC-----ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH-----HHHHHHH
Q 024773 50 NPKVVVTRERG-----KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE-----AGSVFLE 119 (262)
Q Consensus 50 g~~VLitR~~~-----~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~-----aV~~f~~ 119 (262)
+.||++..... +..-....|+..|++|+......... +-++.+. -.+.|+|+.+|-. .+..+.+
T Consensus 2 ~~~v~~a~~g~D~Hd~g~~iv~~~l~~~GfeVi~lg~~~s~e----~~v~aa~--e~~adii~iSsl~~~~~~~~~~~~~ 75 (132)
T TIGR00640 2 RPRILVAKMGQDGHDRGAKVIATAYADLGFDVDVGPLFQTPE----EIARQAV--EADVHVVGVSSLAGGHLTLVPALRK 75 (132)
T ss_pred CCEEEEEeeCCCccHHHHHHHHHHHHhCCcEEEECCCCCCHH----HHHHHHH--HcCCCEEEEcCchhhhHHHHHHHHH
Confidence 34566554432 23456778999999999988774321 2223333 3579999998866 3455666
Q ss_pred HHHHcCCCCcEEEEeC---hhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhh
Q 024773 120 AWKEAGTPNVRIGVVG---AGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPK 173 (262)
Q Consensus 120 ~l~~~~~~~~~i~aVG---~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~ 173 (262)
.+++.+.+++++++=| +...+.+++. |+.-.+.|. .+.+..++.+.+
T Consensus 76 ~L~~~g~~~i~vivGG~~~~~~~~~l~~~------Gvd~~~~~g-t~~~~i~~~l~~ 125 (132)
T TIGR00640 76 ELDKLGRPDILVVVGGVIPPQDFDELKEM------GVAEIFGPG-TPIPESAIFLLK 125 (132)
T ss_pred HHHhcCCCCCEEEEeCCCChHhHHHHHHC------CCCEEECCC-CCHHHHHHHHHH
Confidence 6766666566766643 3346778888 998766665 477777776654
No 102
>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=93.22 E-value=1.6 Score=37.46 Aligned_cols=180 Identities=15% Similarity=0.090 Sum_probs=91.1
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~Ta 139 (262)
.+.+.++++|+++...+.. .+.+...+.++. -...|+||+.... .....+..+.+. +++++.++....
T Consensus 21 g~~~~~~~~g~~~~~~~~~-----~~~~~~~~~~~~l~~~~vdgiii~~~~~~~~~~~l~~~~~~---~iPvV~~~~~~~ 92 (275)
T cd06317 21 AFQAAAEEDGVEVIVLDAN-----GDVARQAAQVEDLIAQKVDGIILWPTDGQAYIPGLRKAKQA---GIPVVITNSNIS 92 (275)
T ss_pred HHHHHHHhcCCEEEEEcCC-----cCHHHHHHHHHHHHHcCCCEEEEecCCccccHHHHHHHHHC---CCcEEEeCCCCC
Confidence 3445566789887765321 122211122221 2469999887643 223344444443 678888875321
Q ss_pred HHHHHhhhhcCCCCce---eecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEe
Q 024773 140 SIFEEVIQSSKCSLDV---AFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLN 208 (262)
Q Consensus 140 ~~L~~~~~~~~~G~~~---~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~ 208 (262)
.. +... .+.... ..+...++.+.+.....++++++.|... ..-+.+.++++|..+....
T Consensus 93 ----~~------~~~~v~~~v~~d~~~~g~~~~~~l~~~~~g~~~i~~l~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~ 162 (275)
T cd06317 93 ----EK------GFEFIKSFTGPDDISQGERSAEAMCKALGGKGQIVVIAGQPGNGTAIERQKGFEDELAEVCPGVEVLD 162 (275)
T ss_pred ----CC------ccchhhhhccccHHHHHHHHHHHHHHHcCCCceEEEEecCCCCchHHHHHHHHHHHHHhhCCCCEEEe
Confidence 11 1110 011121 2334455555554222368888876432 1335567777765554443
Q ss_pred eeccccCCCCh-HHHHHHc----CCCCEEEEeCHHHHHHHHHHhcccCC-CCCeEEEEC
Q 024773 209 TYTTEPVHHVD-QTVLKQA----LSIPVVAVASPSAVRSWVNLISDTEQ-WSNSVACIA 261 (262)
Q Consensus 209 vY~~~~~~~~~-~~~~~~l----~~~d~ivFtS~s~~~~~~~~~~~~~~-~~~~i~~IG 261 (262)
.+......... ..+.+.+ .++++|+..+-..+..+++.+.+.+. .++.|++++
T Consensus 163 ~~~~~~~~~~~~~~~~~~l~~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~~dv~v~g~d 221 (275)
T cd06317 163 TQPADWDREKAQVAMEALITKFGDDIDGVYAGDDNMARGALNAAKEAGLAGGIVIVGAN 221 (275)
T ss_pred ccCCCCCHHHHHHHHHHHHHhCCCCccEEEECCCcHHHHHHHHHHhcCCcCCcEEEEeC
Confidence 33321111111 1122222 24789988888888888888877653 467777654
No 103
>PF04392 ABC_sub_bind: ABC transporter substrate binding protein; InterPro: IPR007487 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energize diverse biological systems. ABC transporters are minimally constituted of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These regions can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. This family contains many hypothetical proteins and some ABC transporter substrate binding proteins.; PDB: 3LFT_A 3LKV_A.
Probab=92.78 E-value=2.8 Score=37.24 Aligned_cols=185 Identities=12% Similarity=0.086 Sum_probs=85.0
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeC-CCchHHHHHHhc--CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeCh---
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQG-PDTDRLSSVLNA--DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGA--- 136 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~-~~~~~l~~~l~~--l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~--- 136 (262)
+-+.+.|++.|+.. .--.|+.... .|.+.+...++. ..++|.|+-+...+.....+.... +++|+..|-
T Consensus 18 ~gf~~~L~~~g~~~-~~~~~~~~~a~~d~~~~~~~~~~l~~~~~DlIi~~gt~aa~~~~~~~~~----~iPVVf~~V~dp 92 (294)
T PF04392_consen 18 RGFKDGLKELGYDE-KNVEIEYKNAEGDPEKLRQIARKLKAQKPDLIIAIGTPAAQALAKHLKD----DIPVVFCGVSDP 92 (294)
T ss_dssp HHHHHHHHHTT--C-CCEEEEEEE-TT-HHHHHHHHHHHCCTS-SEEEEESHHHHHHHHHH-SS-----S-EEEECES-T
T ss_pred HHHHHHHHHcCCcc-ccEEEEEecCCCCHHHHHHHHHHHhcCCCCEEEEeCcHHHHHHHHhcCC----CcEEEEEeccCh
Confidence 45778899999887 2222333332 344445555542 368999998888888777664332 267776664
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEcc-CCC-----hhhHHHHHHhCCCeeeEEeee
Q 024773 137 GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPAS-AKA-----SNEIEEGLSNRGFEVVRLNTY 210 (262)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g-~~~-----~~~L~~~L~~~G~~v~~i~vY 210 (262)
..+...... ..+ |-.+.-+-+....+..++.+.+....-+++.++-. ... .+.+.+..++.|+++..+.+-
T Consensus 93 ~~~~l~~~~-~~~--~~nvTGv~~~~~~~~~l~l~~~l~P~~k~igvl~~~~~~~~~~~~~~~~~~a~~~g~~l~~~~v~ 169 (294)
T PF04392_consen 93 VGAGLVDSL-DRP--GKNVTGVSERPPIEKQLELIKKLFPDAKRIGVLYDPSEPNSVAQIEQLRKAAKKLGIELVEIPVP 169 (294)
T ss_dssp TTTTS-S-S-SS----SSEEEEEE---HHHHHHHHHHHSTT--EEEEEEETT-HHHHHHHHHHHHHHHHTT-EEEEEEES
T ss_pred hhhhccccc-cCC--CCCEEEEECCcCHHHHHHHHHHhCCCCCEEEEEecCCCccHHHHHHHHHHHHHHcCCEEEEEecC
Confidence 111111111 000 11111112334566666666665544467744333 222 446667778889887666553
Q ss_pred ccccCCCChHHHHHHc-CCCCEEEEeCHHHHHHHHHHhccc-CCCCCeEEE
Q 024773 211 TTEPVHHVDQTVLKQA-LSIPVVAVASPSAVRSWVNLISDT-EQWSNSVAC 259 (262)
Q Consensus 211 ~~~~~~~~~~~~~~~l-~~~d~ivFtS~s~~~~~~~~~~~~-~~~~~~i~~ 259 (262)
.. .......+.+ ++.|++++.....+..-...+-.. ...++++++
T Consensus 170 ~~----~~~~~~~~~l~~~~da~~~~~~~~~~~~~~~i~~~~~~~~iPv~~ 216 (294)
T PF04392_consen 170 SS----EDLEQALEALAEKVDALYLLPDNLVDSNFEAILQLANEAKIPVFG 216 (294)
T ss_dssp SG----GGHHHHHHHHCTT-SEEEE-S-HHHHHTHHHHHHHCCCTT--EEE
T ss_pred cH----hHHHHHHHHhhccCCEEEEECCcchHhHHHHHHHHHHhcCCCEEE
Confidence 32 1222333334 478988888776655433332221 123566654
No 104
>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=92.78 E-value=3.1 Score=36.84 Aligned_cols=182 Identities=9% Similarity=0.054 Sum_probs=89.3
Q ss_pred HHHHHHHh--CCCcEEEeceEEeeeCCCch----HHHHHHhcCCCccEEEEeC--HHHHHHHHHHHHHcCCCCcEEEEeC
Q 024773 64 KLIKALAK--HRIDCLELPLIQHAQGPDTD----RLSSVLNADTIFDWIIITS--PEAGSVFLEAWKEAGTPNVRIGVVG 135 (262)
Q Consensus 64 ~l~~~L~~--~G~~v~~~P~~~~~~~~~~~----~l~~~l~~l~~~d~IiFTS--~~aV~~f~~~l~~~~~~~~~i~aVG 135 (262)
.+.+.+++ .|+.+...+.- .+.+ .++..+ -...|.||+.. +.++...++.+... ++++++++
T Consensus 20 gi~~~a~~~~~g~~~~~~~~~-----~~~~~q~~~i~~l~--~~~vdgiii~~~~~~~~~~~~~~~~~~---giPvV~~~ 89 (303)
T cd01539 20 NLEDIQKENGGKVEFTFYDAK-----NNQSTQNEQIDTAL--AKGVDLLAVNLVDPTAAQTVINKAKQK---NIPVIFFN 89 (303)
T ss_pred HHHHHHHhhCCCeeEEEecCC-----CCHHHHHHHHHHHH--HcCCCEEEEecCchhhHHHHHHHHHHC---CCCEEEeC
Confidence 34555666 66666555431 1211 122222 25799988864 33445555545443 67899988
Q ss_pred hhHHHH-HHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCc---------c--EEEEEccCCC-------hhhHHH
Q 024773 136 AGTASI-FEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKK---------C--TVLYPASAKA-------SNEIEE 195 (262)
Q Consensus 136 ~~Ta~~-L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g---------~--~vL~~~g~~~-------~~~L~~ 195 (262)
...... ..+. +....+.... ..++.+++.|.+....+ + .++++.|... ..-+.+
T Consensus 90 ~~~~~~~~~~~------~~~~~V~~d~~~~g~~~a~~l~~~~~~~~~~~~~~~~g~~~i~~~~g~~~~~~~~~R~~gf~~ 163 (303)
T cd01539 90 REPEEEDIKSY------DKAYYVGTDAEQSGILQGKLIADYWNANKDALDKNGDGIIQYVMLKGEPGHPDAIARTKYSIE 163 (303)
T ss_pred CCCcccccccc------cccceeeecHHHHHHHHHHHHHHHhhccccccccCCCCceEEEEEEcCCCCchhhhhhhhHHH
Confidence 643210 1111 1111122222 23344445554431111 1 3566766543 223566
Q ss_pred HHHhCCCeeeEEeeeccccCCCCh-HHHHHHc---C-CCCEEEEeCHHHHHHHHHHhcccCC------CCCeEEEEC
Q 024773 196 GLSNRGFEVVRLNTYTTEPVHHVD-QTVLKQA---L-SIPVVAVASPSAVRSWVNLISDTEQ------WSNSVACIA 261 (262)
Q Consensus 196 ~L~~~G~~v~~i~vY~~~~~~~~~-~~~~~~l---~-~~d~ivFtS~s~~~~~~~~~~~~~~------~~~~i~~IG 261 (262)
.|+++|..+....+.......... ..+.+.+ . .+++|+..+...+-..++.+.+.+. .++.+++++
T Consensus 164 ~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~~~ai~~~~d~~a~g~~~al~~~g~~~p~~~~di~iig~d 240 (303)
T cd01539 164 TLNDAGIKTEELASDTANWDRAQAKDKMDALLLKYGDKIEAVIANNDAMALGAIEALQKYGYNKGDKSKNIPVVGVD 240 (303)
T ss_pred HHHhcCCCeEEEEeecCCCCHHHHHHHHHHHHHhcCCCccEEEECCchHHHHHHHHHHHcCCCcCCCCCceEEEccC
Confidence 888888766544332222211111 1122223 2 3799999888887777777766541 256666554
No 105
>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=92.70 E-value=2.3 Score=33.43 Aligned_cols=97 Identities=20% Similarity=0.246 Sum_probs=64.7
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH-----HHHHHHHHHHHcCCCCcEEEEeChh
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE-----AGSVFLEAWKEAGTPNVRIGVVGAG 137 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~-----aV~~f~~~l~~~~~~~~~i~aVG~~ 137 (262)
.-+...|+.+|++|+.+.+-.. .+++-+.. .-.+.|.|..+|-+ .++.+.+.+.+.+.+++++++=|.-
T Consensus 17 niv~~~L~~~GfeVidLG~~v~-----~e~~v~aa-~~~~adiVglS~L~t~~~~~~~~~~~~l~~~gl~~v~vivGG~~ 90 (128)
T cd02072 17 KILDHAFTEAGFNVVNLGVLSP-----QEEFIDAA-IETDADAILVSSLYGHGEIDCKGLREKCDEAGLKDILLYVGGNL 90 (128)
T ss_pred HHHHHHHHHCCCEEEECCCCCC-----HHHHHHHH-HHcCCCEEEEeccccCCHHHHHHHHHHHHHCCCCCCeEEEECCC
Confidence 4567789999999998876432 12222222 12478888776633 3566677777777767888876652
Q ss_pred ---------HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhh
Q 024773 138 ---------TASIFEEVIQSSKCSLDVAFSPSKATGKILASELP 172 (262)
Q Consensus 138 ---------Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~ 172 (262)
..+.|++. |+...|.|.. +.+.+++.|.
T Consensus 91 ~i~~~d~~~~~~~L~~~------Gv~~vf~pgt-~~~~i~~~l~ 127 (128)
T cd02072 91 VVGKQDFEDVEKRFKEM------GFDRVFAPGT-PPEEAIADLK 127 (128)
T ss_pred CCChhhhHHHHHHHHHc------CCCEEECcCC-CHHHHHHHHh
Confidence 23569999 9998776654 7777776653
No 106
>cd06324 PBP1_ABC_sugar_binding_like_13 Periplasmic sugar-binding domain of uncharacterized ABC-type transport systems. This group includes the 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=92.56 E-value=3.9 Score=36.16 Aligned_cols=186 Identities=11% Similarity=0.066 Sum_probs=91.2
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CC--CccEEEEeCHH-HHHHHHHHHHHcCCCCcEEEEeChhH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DT--IFDWIIITSPE-AGSVFLEAWKEAGTPNVRIGVVGAGT 138 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~--~~d~IiFTS~~-aV~~f~~~l~~~~~~~~~i~aVG~~T 138 (262)
.+.+.++++|+++..... . .+.+.....+.. -. ..|+||+++.. ....+.+.+.+. +++++.++...
T Consensus 21 gi~~~~~~~g~~v~~~~~---~--~~~~~~~~~i~~~~~~~~~vdgiIi~~~~~~~~~~~~~~~~~---giPvV~~~~~~ 92 (305)
T cd06324 21 FMQAAADDLGIELEVLYA---E--RDRFLMLQQARTILQRPDKPDALIFTNEKSVAPELLRLAEGA---GVKLFLVNSGL 92 (305)
T ss_pred HHHHHHHhcCCeEEEEeC---C--CCHHHHHHHHHHHHHhccCCCEEEEcCCccchHHHHHHHHhC---CCeEEEEecCC
Confidence 455667788988766432 1 122111112211 24 79999998654 234444444443 67899888643
Q ss_pred HH-HHHHhhhhc---CCCCceeecCCC-CCHHHHHHHhhhCCCC-----c-cEEEEEccCCC-------hhhHHHHHHhC
Q 024773 139 AS-IFEEVIQSS---KCSLDVAFSPSK-ATGKILASELPKNGKK-----K-CTVLYPASAKA-------SNEIEEGLSNR 200 (262)
Q Consensus 139 a~-~L~~~~~~~---~~G~~~~~~p~~-~t~e~L~~~l~~~~~~-----g-~~vL~~~g~~~-------~~~L~~~L~~~ 200 (262)
.. ..+.. ++. +.++...+.+.. ..++.+++.|.+.... | .+++++.|... ..-+.+.++++
T Consensus 93 ~~~~~~~~-~~~~~~~~~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~g~~~i~~i~~~~~~~~~~~R~~Gf~~~~~~~ 171 (305)
T cd06324 93 TEAQAREL-GPPREKFPDWLGQLLPNDEEAGYLMAEALISQARSVQAPGGRIDLLAISGDPTTPAAILREAGLRRALAEH 171 (305)
T ss_pred Ccchhhcc-cccccccCceeeeeccCcHHHHHHHHHHHHHHhhcccCCCCceeEEEEeCCCCChHHHHHHHHHHHHHHHC
Confidence 21 11111 000 001111122333 2345555666554211 1 24888876543 23345677777
Q ss_pred C-CeeeEEeeeccccCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEE
Q 024773 201 G-FEVVRLNTYTTEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACI 260 (262)
Q Consensus 201 G-~~v~~i~vY~~~~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~I 260 (262)
| ..+.. .+|. ....... ..+.+.+ .++|+|+..+...+...+..+.+.+ ..++.++++
T Consensus 172 g~~~~~~-~~~~-~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~~~al~~~g~~vp~di~vig~ 237 (305)
T cd06324 172 PDVRLRQ-VVYA-GWSEDEAYEQAENLLKRYPDVRLIWAANDQMAFGALRAAKEAGRKPGRDVLFGGV 237 (305)
T ss_pred CCceEee-eecC-CCCHHHHHHHHHHHHHHCCCccEEEECCchHHHHHHHHHHHcCCCcCCCEEEEec
Confidence 6 33322 2332 1111111 1222323 2589998888888888888877654 235566554
No 107
>cd01538 PBP1_ABC_xylose_binding Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily. Periplasmic xylose-binding component of the ABC-type transport systems that belong to a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein (PBP1) superfamily, which consists of two alpha/beta globular domains connected by a three-stranded hinge. This Venus flytrap-like domain undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, the periplasmic xylose-binding protein 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=92.46 E-value=3.7 Score=35.91 Aligned_cols=181 Identities=12% Similarity=0.059 Sum_probs=92.1
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH--HHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP--EAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~--~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (262)
.+.+.++++|+++....... .+....+.++..+ -..+|+||+++. ..+...++.+... ++++++++.....
T Consensus 20 gi~~~a~~~g~~~~~~~~~~-~~~~~~~~i~~~~--~~~vdgiii~~~~~~~~~~~l~~l~~~---~ipvV~~~~~~~~- 92 (288)
T cd01538 20 NFEAALKELGAEVIVQNANG-DPAKQISQIENMI--AKGVDVLVIAPVDGEALASAVEKAADA---GIPVIAYDRLILN- 92 (288)
T ss_pred HHHHHHHHcCCEEEEECCCC-CHHHHHHHHHHHH--HcCCCEEEEecCChhhHHHHHHHHHHC---CCCEEEECCCCCC-
Confidence 45567778999988765421 0100011222222 257999999864 3344455544443 6789988854311
Q ss_pred HHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhC----CCCccEEEEEccCCC-------hhhHHHHHHhCC----Ceee
Q 024773 142 FEEVIQSSKCSLDVAFSPSK-ATGKILASELPKN----GKKKCTVLYPASAKA-------SNEIEEGLSNRG----FEVV 205 (262)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~----~~~g~~vL~~~g~~~-------~~~L~~~L~~~G----~~v~ 205 (262)
. .....+.... ..+..+.+.|.+. ....++++++.|... ..-+.+.+++.| +.+.
T Consensus 93 ---~------~~~~~v~~d~~~~g~~~~~~l~~~~~~~~~g~~~i~~l~g~~~~~~~~~R~~gf~~~l~~~~~~~~~~~~ 163 (288)
T cd01538 93 ---S------NVDYYVSFDNEKVGELQGQALVDGLGAKGKPPGNIELIAGSPTDNNAKLFFNGAMSVLKPLIDSGKITIV 163 (288)
T ss_pred ---C------CcceEEEeChHHHHHHHHHHHHHHHhhcCCCCceEEEEECCCCCchHHHHHHHHHHHHHhccccCCeeEE
Confidence 1 1111111121 2344455555544 113478888877543 222355677766 3321
Q ss_pred EEeeeccccCCCCh-HHHHHHc---C-CCCEEEEeCHHHHHHHHHHhcccCCC-CCeEEEEC
Q 024773 206 RLNTYTTEPVHHVD-QTVLKQA---L-SIPVVAVASPSAVRSWVNLISDTEQW-SNSVACIA 261 (262)
Q Consensus 206 ~i~vY~~~~~~~~~-~~~~~~l---~-~~d~ivFtS~s~~~~~~~~~~~~~~~-~~~i~~IG 261 (262)
. ..|......... +.+.+.+ . .+++|+..+...+...+..+.+.+.. ++.+++++
T Consensus 164 ~-~~~~~~~~~~~~~~~~~~~l~~~~~~~~~I~~~~d~~a~g~~~al~~~g~~~dv~vvg~d 224 (288)
T cd01538 164 G-EVATPDWDPETAQKRMENALTANYNKVDGVLAANDGTAGGAIAALKAAGLAGKPPVTGQD 224 (288)
T ss_pred e-ccccCCCCHHHHHHHHHHHHHhCCCCccEEEeCCcHHHHHHHHHHHHcCCCCCceEEecC
Confidence 1 111111110001 1122222 2 57999999999999998888876522 45555543
No 108
>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=92.35 E-value=4.3 Score=32.14 Aligned_cols=110 Identities=19% Similarity=0.264 Sum_probs=69.1
Q ss_pred CeEEEeCCCC-----ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHH-----HHHHHHH
Q 024773 51 PKVVVTRERG-----KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEA-----GSVFLEA 120 (262)
Q Consensus 51 ~~VLitR~~~-----~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~a-----V~~f~~~ 120 (262)
++|++-.... +..-+...|+.+|++|+.+..-.. .+++-+... -.+.|.|..+|-++ ++.+.+.
T Consensus 2 ~~vvigtv~~D~HdiGk~iv~~~l~~~GfeVi~LG~~v~-----~e~~v~aa~-~~~adiVglS~l~~~~~~~~~~~~~~ 75 (134)
T TIGR01501 2 KTIVLGVIGSDCHAVGNKILDHAFTNAGFNVVNLGVLSP-----QEEFIKAAI-ETKADAILVSSLYGHGEIDCKGLRQK 75 (134)
T ss_pred CeEEEEEecCChhhHhHHHHHHHHHHCCCEEEECCCCCC-----HHHHHHHHH-HcCCCEEEEecccccCHHHHHHHHHH
Confidence 3555554432 234567789999999998876432 223333321 24688887776443 4556667
Q ss_pred HHHcCCCCcEEEEeCh-----hH----HHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhh
Q 024773 121 WKEAGTPNVRIGVVGA-----GT----ASIFEEVIQSSKCSLDVAFSPSKATGKILASELPK 173 (262)
Q Consensus 121 l~~~~~~~~~i~aVG~-----~T----a~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~ 173 (262)
+.+.+..+.++++=|. .- .+.|++. |+...|.|.. ..+.+++.+..
T Consensus 76 l~~~gl~~~~vivGG~~vi~~~d~~~~~~~l~~~------Gv~~vF~pgt-~~~~iv~~l~~ 130 (134)
T TIGR01501 76 CDEAGLEGILLYVGGNLVVGKQDFPDVEKRFKEM------GFDRVFAPGT-PPEVVIADLKK 130 (134)
T ss_pred HHHCCCCCCEEEecCCcCcChhhhHHHHHHHHHc------CCCEEECcCC-CHHHHHHHHHH
Confidence 7777776666555441 11 3468999 9988777654 67888877754
No 109
>PRK09701 D-allose transporter subunit; Provisional
Probab=92.30 E-value=3 Score=37.12 Aligned_cols=184 Identities=8% Similarity=0.002 Sum_probs=93.3
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCch----HHHHHHhcCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChh
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTD----RLSSVLNADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAG 137 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~----~l~~~l~~l~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~ 137 (262)
.+.+.++++|+++..+..-. ..+.+ .++..+ ...+|.||+.... .....+..+.+ .+++++++|..
T Consensus 45 gi~~~a~~~g~~v~~~~~~~---~~~~~~~~~~i~~l~--~~~vDgiIi~~~~~~~~~~~l~~~~~---~giPvV~~~~~ 116 (311)
T PRK09701 45 GIEDEAKTLGVSVDIFASPS---EGDFQSQLQLFEDLS--NKNYKGIAFAPLSSVNLVMPVARAWK---KGIYLVNLDEK 116 (311)
T ss_pred HHHHHHHHcCCeEEEecCCC---CCCHHHHHHHHHHHH--HcCCCEEEEeCCChHHHHHHHHHHHH---CCCcEEEeCCC
Confidence 34466778898887652111 11211 122222 2469999997643 22222333333 26789999864
Q ss_pred HHH-HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhC-CCCccEEEEEccCCC-------hhhHHHHHHhCC-CeeeE
Q 024773 138 TAS-IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKN-GKKKCTVLYPASAKA-------SNEIEEGLSNRG-FEVVR 206 (262)
Q Consensus 138 Ta~-~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~-~~~g~~vL~~~g~~~-------~~~L~~~L~~~G-~~v~~ 206 (262)
... .+... -.+....+.... ..++..++.|.+. ...+++++++.|... ..-+.+.|+++| +++..
T Consensus 117 ~~~~~~~~~----~~~~~~~V~~d~~~~g~~aa~~L~~~~g~~~~~i~~l~g~~~~~~~~~R~~Gf~~al~~~~~~~~~~ 192 (311)
T PRK09701 117 IDMDNLKKA----GGNVEAFVTTDNVAVGAKGASFIIDKLGAEGGEVAIIEGKAGNASGEARRNGATEAFKKASQIKLVA 192 (311)
T ss_pred CCccccccc----CCceEEEeccchHHHHHHHHHHHHHHhCCCCCEEEEEECCCCCccHHHHHHHHHHHHHhCCCcEEEE
Confidence 321 11000 000111122222 2345556666554 322478988877543 244566787776 54322
Q ss_pred EeeeccccCCCChHHH-HHHc---CCCCEEEEeCHHHHHHHHHHhcccCC-CCCeEEEEC
Q 024773 207 LNTYTTEPVHHVDQTV-LKQA---LSIPVVAVASPSAVRSWVNLISDTEQ-WSNSVACIA 261 (262)
Q Consensus 207 i~vY~~~~~~~~~~~~-~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~-~~~~i~~IG 261 (262)
.+..........+. .+.+ .++|+|++.+...+...++.+.+.+. .++.+++++
T Consensus 193 --~~~~~~~~~~~~~~~~~ll~~~~~~~~I~~~~d~~A~g~~~al~~~G~~~dv~vvg~d 250 (311)
T PRK09701 193 --SQPADWDRIKALDVATNVLQRNPNIKAIYCANDTMAMGVAQAVANAGKTGKVLVVGTD 250 (311)
T ss_pred --ecCCCCCHHHHHHHHHHHHHhCCCCCEEEECCcchHHHHHHHHHHcCCCCCEEEEEeC
Confidence 11111111111112 2222 26899999999999888888876553 456676664
No 110
>cd06306 PBP1_TorT-like TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. TorT-like proteins, a periplasmic binding protein family that activates induction of the Tor respiratory system upon trimethylamine N-oxide (TMAO) electron-acceptor binding in bacteria. The Tor respiratory system is consists of three proteins (TorC, TorA, and TorD) and is induced in the presence of TMAO. The TMAO control is tightly regulated by three proteins: TorS, TorT, and TorR. Thus, the disruption of any of these proteins can abolish the Tor respiratory induction. TorT shares homology with the sugar-binding domain of the type I periplasmic binding proteins. The members of TorT-like family bind TMAO or related compounds and are predicted to be involved in signal transduction and/or substrate transport.
Probab=91.79 E-value=2.7 Score=36.23 Aligned_cols=176 Identities=11% Similarity=0.072 Sum_probs=87.9
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~Ta 139 (262)
-+.+.++++|+++..+..-. ..+.+...+.+.. -...|.||+++.. ... ....+.+ .++++++++....
T Consensus 20 gi~~~a~~~g~~~~~~~~~~---~~~~~~~~~~i~~~~~~~vdgiI~~~~~~~~~~-~~~~~~~---~giPvV~~~~~~~ 92 (268)
T cd06306 20 GMVEEAKRLGVSLKLLEAGG---YPNLAKQIAQLEDCAAWGADAILLGAVSPDGLN-EILQQVA---ASIPVIALVNDIN 92 (268)
T ss_pred HHHHHHHHcCCEEEEecCCC---CCCHHHHHHHHHHHHHcCCCEEEEcCCChhhHH-HHHHHHH---CCCCEEEeccCCC
Confidence 34466778898877653211 1111111122221 2579999998643 222 2333433 3678888864321
Q ss_pred HHHHHhhhhcCCCCceeecCCCC-CHHHHHHHhhhCCC---CccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEe
Q 024773 140 SIFEEVIQSSKCSLDVAFSPSKA-TGKILASELPKNGK---KKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLN 208 (262)
Q Consensus 140 ~~L~~~~~~~~~G~~~~~~p~~~-t~e~L~~~l~~~~~---~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~ 208 (262)
.. +....+....+ .+..+++.+.+... ..++++++.|... .+-+.+.+++.|..+...
T Consensus 93 ----~~------~~~~~V~~d~~~~g~~~~~~l~~~g~~~~~~~~i~~l~g~~~~~~~~~R~~g~~~~~~~~~~~~~~~- 161 (268)
T cd06306 93 ----SP------DITAKVGVSWYEMGYQAGEYLAQRHPKGSKPAKVAWFPGPKGAGWVKAVEKGFRDALAGSAIEISAI- 161 (268)
T ss_pred ----Cc------ceeEEecCChHHHHHHHHHHHHHHhhcCCCCceEEEEeCCCCCchHHHHHHHHHHHHhhcCcEEeee-
Confidence 12 22212222222 33445555554431 1278999987543 233566787777765442
Q ss_pred eeccccCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCC-CCCeEEE
Q 024773 209 TYTTEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQ-WSNSVAC 259 (262)
Q Consensus 209 vY~~~~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~-~~~~i~~ 259 (262)
.+.. ...... ..+.+.+ .++++|+. +...+...+..+.+.+. +++.|++
T Consensus 162 ~~~~-~~~~~~~~~~~~~l~~~~~~~~i~~-~d~~a~~~~~~l~~~g~p~di~vig 215 (268)
T cd06306 162 KYGD-TGKEVQRKLVEEALEAHPDIDYIVG-SAVAAEAAVGILRQRGLTDQIKIVS 215 (268)
T ss_pred ccCC-ccHHHHHHHHHHHHHhCCCcCEEee-cchhhhHHHHHHHhcCCCCCeEEEe
Confidence 1211 111111 1122223 35788765 46777777777776543 3555554
No 111
>PRK11041 DNA-binding transcriptional regulator CytR; Provisional
Probab=91.69 E-value=7.6 Score=34.02 Aligned_cols=176 Identities=9% Similarity=-0.035 Sum_probs=88.6
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCch---HHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTD---RLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~---~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~ 140 (262)
.+.+.++++|+++...+. . .+.+ +....+ .-..+|+||+.+...-.-...... .+ ..+++.+|....
T Consensus 56 gi~~~~~~~g~~~~~~~~---~--~~~~~~~~~i~~l-~~~~vDgiIi~~~~~~~~~~~~~~-~~--~~pvv~~~~~~~- 125 (309)
T PRK11041 56 GIEVTAAEHGYLVLIGDC---A--HQNQQEKTFVNLI-ITKQIDGMLLLGSRLPFDASKEEQ-RN--LPPMVMANEFAP- 125 (309)
T ss_pred HHHHHHHHCCCEEEEEeC---C--CChHHHHHHHHHH-HHcCCCEEEEecCCCChHHHHHHH-hc--CCCEEEEccccC-
Confidence 455667778888765321 1 1111 111122 125799999986431111111111 11 235777775321
Q ss_pred HHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeecc
Q 024773 141 IFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTT 212 (262)
Q Consensus 141 ~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~ 212 (262)
.. ++.. +.... ..++..++.|.+.. .+++.++.|... ..-+.+.+++.|..+.....+..
T Consensus 126 ---~~------~~~~-V~~Dn~~~g~~a~~~l~~~G--~~~I~~l~~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~ 193 (309)
T PRK11041 126 ---EL------ELPT-VHIDNLTAAFEAVNYLHELG--HKRIACIAGPEEMPLCHYRLQGYVQALRRCGITVDPQYIARG 193 (309)
T ss_pred ---CC------CCCE-EEECcHHHHHHHHHHHHHcC--CceEEEEeCCccccchHHHHHHHHHHHHHcCCCCCHHHeEeC
Confidence 12 3322 22222 23455556666542 478888877543 23345667777766532222221
Q ss_pred ccCCCChHH-HHHHcC---CCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 213 EPVHHVDQT-VLKQAL---SIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 213 ~~~~~~~~~-~~~~l~---~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
........+ +.+.+. ..++|+.++...+..++..+.+.+ .+++.|++++
T Consensus 194 ~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~gv~~al~~~g~~ip~di~vvg~D 249 (309)
T PRK11041 194 DFTFEAGAKALKQLLDLPQPPTAVFCHSDVMALGALSQAKRMGLRVPQDLSIIGFD 249 (309)
T ss_pred CCCHHHHHHHHHHHHcCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCcceEEEEeC
Confidence 111111112 222232 489999999888888888887654 2466777764
No 112
>cd06303 PBP1_LuxPQ_Quorum_Sensing Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs. Periplasmic binding protein (LuxP) of autoinducer-2 (AI-2) receptor LuxPQ from Vibrio harveyi and its close homologs from other bacteria. The members of this group are highly homologous to a family of periplasmic pentose/hexose sugar-binding proteins that function as the primary receptors for chemotaxis and transport of many sugar based solutes in bacteria and archaea, and that are members of the type I periplasmic binding protein superfamily. The Vibrio harveyi AI-2 receptor consists of two polypeptides, LuxP and LuxQ: LuxP is a periplasmic binding protein that binds AI-2 by clamping it between two domains, LuxQ is an integral membrane protein belonging to the two-component sensor kinase family. Unlike AI-2 bound to the LsrB receptor in Salmonella typhimurium, the Vibrio harveyi AI-2 signaling molecule has an unusual furanosyl borate
Probab=91.68 E-value=4.5 Score=35.13 Aligned_cols=186 Identities=11% Similarity=0.053 Sum_probs=91.2
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCH-HHHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSP-EAGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~-~aV~~f~~~l~~~~~~~~~i~aVG~~Ta 139 (262)
..+.+.++++|+.+...+...-.. .+.+.....+.. -...|+||++.. .+....++.+.+. +.+++.++..+.
T Consensus 20 ~~i~~~~~~~g~~~~~~~~~~~~~-~~~~~~~~~i~~l~~~~vDgiIv~~~~~~~~~~~~~l~~~---~~p~V~i~~~~~ 95 (280)
T cd06303 20 ASFTARLEELNIPYELTQFSSRPG-IDHRLQSQQLNEALQSKPDYLIFTLDSLRHRKLIERVLAS---GKTKIILQNITT 95 (280)
T ss_pred HHHHHHHHHcCCcEEEEEeccCcc-cCHHHHHHHHHHHHHcCCCEEEEcCCchhhHHHHHHHHhC---CCCeEEEeCCCC
Confidence 355677888998887654332110 011111122211 257999999853 3233333434333 334444432211
Q ss_pred H--HH-HHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC------hhhHHHHHHhC-CCeeeEEe
Q 024773 140 S--IF-EEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA------SNEIEEGLSNR-GFEVVRLN 208 (262)
Q Consensus 140 ~--~L-~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~------~~~L~~~L~~~-G~~v~~i~ 208 (262)
. .. ... ++. .+.... ..+..+++.|.+.....+++.++.|... ..-+.+.++++ |..+. .
T Consensus 96 ~~~~~~~~~------~~~-~V~~d~~~~g~~~~~~L~~~~~g~~~i~~l~~~~~~~~~~R~~gf~~al~~~~~~~~~--~ 166 (280)
T cd06303 96 PVKAWLKHQ------PLL-YVGFDHAAGARLLADYFIKRYPNHARYAMLYFSPGYISTARGDTFIDCVHARNNWTLT--S 166 (280)
T ss_pred CccccccCC------Cce-EeCCCHHHHHHHHHHHHHHhcCCCcEEEEEECCCCcchhHHHHHHHHHHHhCCCceEE--E
Confidence 0 00 001 121 122222 3345566666653223478888877532 24456677776 55432 2
Q ss_pred eeccccCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCC-CCCeEEEEC
Q 024773 209 TYTTEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQ-WSNSVACIA 261 (262)
Q Consensus 209 vY~~~~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~-~~~~i~~IG 261 (262)
++......... ..+.+.+ .++++|+.++...+-..+..+++.+. .++.++.++
T Consensus 167 ~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~nd~~A~g~l~al~~~G~~~dv~vvg~d 224 (280)
T cd06303 167 EFYTDATRQKAYQATSDILSNNPDVDFIYACSTDIALGASDALKELGREDDILINGWG 224 (280)
T ss_pred eecCCCCHHHHHHHHHHHHHhCCCCcEEEECCcHHHHHHHHHHHHcCCCCCcEEEecC
Confidence 22221111111 1222223 25899999999988888888877653 356666554
No 113
>cd01543 PBP1_XylR Ligand-binding domain of DNA transcription repressor specific for xylose (XylR). Ligand-binding domain of DNA transcription repressor specific for xylose (XylR), a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of XylR 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 in turn changes the DNA binding affinity of the repressor.
Probab=91.14 E-value=7.3 Score=33.31 Aligned_cols=172 Identities=10% Similarity=0.032 Sum_probs=89.9
Q ss_pred HHHHHHHh-CCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 64 KLIKALAK-HRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 64 ~l~~~L~~-~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
.+.+.+++ .|+.+...... + .+....+ .-...|++|+++.+ ......+.+ .+.+++.+|....
T Consensus 19 gi~~~~~~~~g~~~~~~~~~------~-~~~~~~l-~~~~vdGiI~~~~~--~~~~~~l~~---~~~PvV~~~~~~~--- 82 (265)
T cd01543 19 GIARYAREHGPWSIYLEPRG------L-QEPLRWL-KDWQGDGIIARIDD--PEMAEALQK---LGIPVVDVSGSRE--- 82 (265)
T ss_pred HHHHHHHhcCCeEEEEeccc------c-hhhhhhc-cccccceEEEECCC--HHHHHHHhh---CCCCEEEEeCccC---
Confidence 44566677 67777654321 1 1111223 23579999987532 122233333 2678888886432
Q ss_pred HHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC------hhhHHHHHHhCCCeeeEEeeeccccC
Q 024773 143 EEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA------SNEIEEGLSNRGFEVVRLNTYTTEPV 215 (262)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~------~~~L~~~L~~~G~~v~~i~vY~~~~~ 215 (262)
.. ++.. +.... ..+...++.+.+. ..++++++.+... ..-+.+.+++.|..+..+..+.....
T Consensus 83 -~~------~~~~-v~~d~~~~g~~~~~~l~~~--g~~~i~~i~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~ 152 (265)
T cd01543 83 -KP------GIPR-VTTDNAAIGRMAAEHFLER--GFRHFAFYGLPGARWSDEREEAFRQLVAEAGYECSFFYRGLSTDA 152 (265)
T ss_pred -CC------CCCE-EeeCHHHHHHHHHHHHHHC--CCcEEEEEcCCCCHHHHHHHHHHHHHHHHcCCccccccCcccccc
Confidence 12 3322 22222 2344555556554 3478888876543 23455677888876521111111111
Q ss_pred CC--Ch-HHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 216 HH--VD-QTVLKQA---LSIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 216 ~~--~~-~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
.. .. +.+.+.+ ..+++|+++|...+..+++.+.+.+ ..++.+++++
T Consensus 153 ~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~vp~di~vigfd 207 (265)
T cd01543 153 QSWEEEQEELAQWLQSLPKPVGIFACTDARARQLLEACRRAGIAVPEEVAVLGVD 207 (265)
T ss_pred ccHHHHHHHHHHHHhcCCCCcEEEecChHHHHHHHHHHHHhCCCCCCceEEEeeC
Confidence 11 11 1222323 2579999999899888888887654 2466666654
No 114
>PRK10339 DNA-binding transcriptional repressor EbgR; Provisional
Probab=90.90 E-value=7.1 Score=34.75 Aligned_cols=168 Identities=10% Similarity=-0.047 Sum_probs=90.2
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFE 143 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~ 143 (262)
.+.+.++++|+++.... . .+.+ .....+|++|+++... ....+.+.+. +.+++.++....
T Consensus 88 ~i~~~~~~~g~~~~~~~--~----~~~~------~~~~~vDgiI~~~~~~-~~~~~~l~~~---~~pvV~~~~~~~---- 147 (327)
T PRK10339 88 GIETQCEKLGIELTNCY--E----HSGL------PDIKNVTGILIVGKPT-PALRAAASAL---TDNICFIDFHEP---- 147 (327)
T ss_pred HHHHHHHHCCCEEEEee--c----cccc------cccccCCEEEEeCCCC-HHHHHHHHhc---CCCEEEEeCCCC----
Confidence 34456777898876431 1 1111 1246799999987432 2233434333 457888875321
Q ss_pred HhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccccC
Q 024773 144 EVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEPV 215 (262)
Q Consensus 144 ~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~~~ 215 (262)
.. ++.. +.... ..+..+++.|.+. ..+++.++.+... ..-+.+.++..|. +....+|.....
T Consensus 148 ~~------~~~~-V~~D~~~~~~~a~~~l~~~--G~~~i~~i~~~~~~~~~~~R~~gf~~~~~~~g~-~~~~~~~~~~~~ 217 (327)
T PRK10339 148 GS------GYDA-VDIDLARISKEIIDFYINQ--GVNRIGFIGGEDEPGKADIREVAFAEYGRLKQV-VREEDIWRGGFS 217 (327)
T ss_pred CC------CCCE-EEECHHHHHHHHHHHHHHC--CCCeEEEeCCccccchhhHHHHHHHHHHHHcCC-CChhheeecCcC
Confidence 12 3332 22332 3345566666654 2468999977532 1223445666665 222123332211
Q ss_pred CCChHH-HHHHcC---CCCEEEEeCHHHHHHHHHHhcccC---CCCCeEEEEC
Q 024773 216 HHVDQT-VLKQAL---SIPVVAVASPSAVRSWVNLISDTE---QWSNSVACIA 261 (262)
Q Consensus 216 ~~~~~~-~~~~l~---~~d~ivFtS~s~~~~~~~~~~~~~---~~~~~i~~IG 261 (262)
.....+ +.+.+. ..++|++++-..+..++..+.+.+ ..++.|++++
T Consensus 218 ~~~~~~~~~~~l~~~~~~~ai~~~~D~~A~g~~~al~~~g~~vP~di~vigfD 270 (327)
T PRK10339 218 SSSGYELAKQMLAREDYPKALFVASDSIAIGVLRAIHERGLNIPQDISLISVN 270 (327)
T ss_pred hhHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHHHcCCCCCCceEEEeeC
Confidence 111112 222232 479999999899988988888765 3467777664
No 115
>PRK08339 short chain dehydrogenase; Provisional
Probab=90.80 E-value=5 Score=34.79 Aligned_cols=148 Identities=14% Similarity=0.201 Sum_probs=77.9
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEE----EeCHHHHHHHHHHH
Q 024773 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWII----ITSPEAGSVFLEAW 121 (262)
Q Consensus 47 ~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~Ii----FTS~~aV~~f~~~l 121 (262)
.+.||++|||....+ ...+++.|.+.|++|... .+.. ...+++.+.+......+..+ +++..+++.+++.+
T Consensus 5 ~l~~k~~lItGas~gIG~aia~~l~~~G~~V~~~--~r~~--~~~~~~~~~~~~~~~~~~~~~~~Dv~~~~~i~~~~~~~ 80 (263)
T PRK08339 5 DLSGKLAFTTASSKGIGFGVARVLARAGADVILL--SRNE--ENLKKAREKIKSESNVDVSYIVADLTKREDLERTVKEL 80 (263)
T ss_pred CCCCCEEEEeCCCCcHHHHHHHHHHHCCCEEEEE--eCCH--HHHHHHHHHHHhhcCCceEEEEecCCCHHHHHHHHHHH
Confidence 477999999987654 567999999999987643 1110 11122222222211222222 48899999988877
Q ss_pred HHcCCCCcEEEEeCh--------hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCC----
Q 024773 122 KEAGTPNVRIGVVGA--------GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA---- 189 (262)
Q Consensus 122 ~~~~~~~~~i~aVG~--------~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~---- 189 (262)
.+.+.-+.-|.+.|. .+.+.+++.+ .+.+.+.-.....++..+.+. .+.+++++.+..+
T Consensus 81 ~~~g~iD~lv~nag~~~~~~~~~~~~~~~~~~~-------~~n~~~~~~~~~~~l~~m~~~--~~g~Ii~isS~~~~~~~ 151 (263)
T PRK08339 81 KNIGEPDIFFFSTGGPKPGYFMEMSMEDWEGAV-------KLLLYPAVYLTRALVPAMERK--GFGRIIYSTSVAIKEPI 151 (263)
T ss_pred HhhCCCcEEEECCCCCCCCCcccCCHHHHHHHH-------HHHhHHHHHHHHHHHHHHHHc--CCCEEEEEcCccccCCC
Confidence 544322333444442 2233333331 111221112234444544432 2357877766432
Q ss_pred ----------------hhhHHHHHHhCCCeeeEE
Q 024773 190 ----------------SNEIEEGLSNRGFEVVRL 207 (262)
Q Consensus 190 ----------------~~~L~~~L~~~G~~v~~i 207 (262)
...|..+|...|++|..+
T Consensus 152 ~~~~~y~asKaal~~l~~~la~el~~~gIrVn~v 185 (263)
T PRK08339 152 PNIALSNVVRISMAGLVRTLAKELGPKGITVNGI 185 (263)
T ss_pred CcchhhHHHHHHHHHHHHHHHHHhcccCeEEEEE
Confidence 234566677778777654
No 116
>cd06304 PBP1_BmpA_like Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. Periplasmic binding component of a family of basic membrane lipoproteins from Borrelia and various putative lipoproteins from other bacteria. These outer membrane proteins include Med, a cell-surface localized protein regulating the competence transcription factor gene comK in Bacillus subtilis, and PnrA, a periplasmic purine nucleoside binding protein of an ATP-binding cassette (ABC) transport system in Treponema pallidum. All contain the type I periplasmic sugar-binding protein-like fold.
Probab=89.89 E-value=6.5 Score=33.75 Aligned_cols=171 Identities=15% Similarity=0.098 Sum_probs=85.5
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFE 143 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~ 143 (262)
.+.+.++++|+++...... .+ ....++.+.+ .....|.||+++.+.-..+.+.+.+. .+.+++.++..+..
T Consensus 22 gi~~~~~~~gy~~~~~~~~--~~-~~~~~~~~~l-~~~~vdgiii~~~~~~~~~~~~~~~~--~~ipvv~~~~~~~~--- 92 (260)
T cd06304 22 GLEKAEKELGVEVKYVESV--ED-ADYEPNLRQL-AAQGYDLIFGVGFGFMDAVEKVAKEY--PDVKFAIIDGVVDA--- 92 (260)
T ss_pred HHHHHHHhcCceEEEEecC--CH-HHHHHHHHHH-HHcCCCEEEECCcchhHHHHHHHHHC--CCCEEEEecCccCC---
Confidence 3445677789887764332 11 1111111222 12568999998866334444433322 25688888864321
Q ss_pred HhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCC------hhhHHHHHHhCCCeeeEEeeeccccC-C
Q 024773 144 EVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA------SNEIEEGLSNRGFEVVRLNTYTTEPV-H 216 (262)
Q Consensus 144 ~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~------~~~L~~~L~~~G~~v~~i~vY~~~~~-~ 216 (262)
+. .+.. +....+.+...+..+.......+++.++.+... ..-+.+.++++|.......++..... .
T Consensus 93 ~~------~~~~-v~~d~~~~~~~a~~l~~~~~g~~~I~~i~~~~~~~~~~R~~Gf~~~~~~~~~~~~~~~~~~~~~~~~ 165 (260)
T cd06304 93 PP------NVAS-YVFREYEGSYLAGVLAALMTKTGKVGFVGGMPIPEVNRFINGFAAGAKSVNPDITVLVIYTGSFFDP 165 (260)
T ss_pred CC------Ceee-eecchHHHHHHHHHHHHHhccCCceEEEeccccHHHHHHHHHHHHHHHHhCCCcEEEEEEecCccCc
Confidence 02 2222 222222222222233332113478888876432 23445677778766554434332221 1
Q ss_pred CChHH-HHHHcC-CCCEEEEeCHHHHHHHHHHhccc
Q 024773 217 HVDQT-VLKQAL-SIPVVAVASPSAVRSWVNLISDT 250 (262)
Q Consensus 217 ~~~~~-~~~~l~-~~d~ivFtS~s~~~~~~~~~~~~ 250 (262)
....+ +.+.+. ..|+|+.++-..+...+..+.+.
T Consensus 166 ~~~~~~~~~~l~~~~~ai~~~~d~~A~gv~~al~~~ 201 (260)
T cd06304 166 AKGKEAALALIDQGADVIFAAAGGTGPGVIQAAKEA 201 (260)
T ss_pred HHHHHHHHHHHhCCCCEEEEcCCCCchHHHHHHHHc
Confidence 11122 223232 57999888887877788877764
No 117
>COG4822 CbiK Cobalamin biosynthesis protein CbiK, Co2+ chelatase [Coenzyme metabolism]
Probab=89.66 E-value=7.6 Score=33.35 Aligned_cols=144 Identities=19% Similarity=0.279 Sum_probs=95.5
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC-CCccEE-----EEeCHHHHHHHHHHHHHcCC---CCcEEEEeC
Q 024773 65 LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD-TIFDWI-----IITSPEAGSVFLEAWKEAGT---PNVRIGVVG 135 (262)
Q Consensus 65 l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l-~~~d~I-----iFTS~~aV~~f~~~l~~~~~---~~~~i~aVG 135 (262)
-...|++.|++=+.+..+.+.|...++.+.+..+.. .+|+-| +..|.+--+-+++.+...-. .+-.++-+|
T Consensus 65 aL~klk~~gy~eviiQ~lhiIpG~EyEklvr~V~~~~~dF~~lkig~PlLy~k~DYe~~v~aik~~~ppl~k~e~~vlmg 144 (265)
T COG4822 65 ALNKLKDQGYEEVIIQPLHIIPGIEYEKLVREVNKYSNDFKRLKIGRPLLYYKNDYEICVEAIKDQIPPLNKDEILVLMG 144 (265)
T ss_pred HHHHHHHccchheeeeeeeecCchHHHHHHHHHHHHhhhhheeecCCceeechhhHHHHHHHHHHhcCCcCcCeEEEEEe
Confidence 446788899998888888888765555554444322 334444 45667877778877766432 244455566
Q ss_pred hhHHH-----------HHHHhhhhcCCCCceeecCC--C-CCHHHHHHHhhhCCCCc---cEEEEEccCCChhhHH----
Q 024773 136 AGTAS-----------IFEEVIQSSKCSLDVAFSPS--K-ATGKILASELPKNGKKK---CTVLYPASAKASNEIE---- 194 (262)
Q Consensus 136 ~~Ta~-----------~L~~~~~~~~~G~~~~~~p~--~-~t~e~L~~~l~~~~~~g---~~vL~~~g~~~~~~L~---- 194 (262)
..|.. .+.++ |+.+.++.. . +..+.+++.|.+...++ -++.+..|+.+..+++
T Consensus 145 HGt~h~s~~~YacLd~~~~~~------~f~~v~v~~ve~yP~~d~vi~~l~~~~~~~v~L~PlMlvAG~Ha~nDMasdde 218 (265)
T COG4822 145 HGTDHHSNAAYACLDHVLDEY------GFDNVFVAAVEGYPLVDTVIEYLRKNGIKEVHLIPLMLVAGDHAKNDMASDDE 218 (265)
T ss_pred cCCCccHHHHHHHHHHHHHhc------CCCceEEEEecCCCcHHHHHHHHHHcCCceEEEeeeEEeechhhhhhhcccch
Confidence 55532 35566 886655542 2 57889999998775433 4578889998876666
Q ss_pred ----HHHHhCCCeeeEEeeeccccCCC
Q 024773 195 ----EGLSNRGFEVVRLNTYTTEPVHH 217 (262)
Q Consensus 195 ----~~L~~~G~~v~~i~vY~~~~~~~ 217 (262)
+.|+++|+.| .+|....-+.
T Consensus 219 dswk~il~~~G~~v---~~~l~GLGE~ 242 (265)
T COG4822 219 DSWKNILEKNGFKV---EVYLHGLGEN 242 (265)
T ss_pred HHHHHHHHhCCcee---EEEeecCCCc
Confidence 7899999977 6677655544
No 118
>PRK15408 autoinducer 2-binding protein lsrB; Provisional
Probab=89.29 E-value=4.9 Score=36.57 Aligned_cols=171 Identities=12% Similarity=0.092 Sum_probs=81.8
Q ss_pred HHHHHHhCCCcEEE-eceEEeeeCCCch----HHHHHHhcCCCccEEEEeC--HHHHHHHHHHHHHcCCCCcEEEEeChh
Q 024773 65 LIKALAKHRIDCLE-LPLIQHAQGPDTD----RLSSVLNADTIFDWIIITS--PEAGSVFLEAWKEAGTPNVRIGVVGAG 137 (262)
Q Consensus 65 l~~~L~~~G~~v~~-~P~~~~~~~~~~~----~l~~~l~~l~~~d~IiFTS--~~aV~~f~~~l~~~~~~~~~i~aVG~~ 137 (262)
+.+..+++|+++.. .|. . .+.+ .++..+ -..+|+|+++. ++++...++.+.+. +++++++...
T Consensus 45 i~~aa~~~G~~v~~~~~~---~--~d~~~q~~~i~~li--~~~vdgIiv~~~d~~al~~~l~~a~~~---gIpVV~~d~~ 114 (336)
T PRK15408 45 AKEAGKELGVDVTYDGPT---E--PSVSGQVQLINNFV--NQGYNAIIVSAVSPDGLCPALKRAMQR---GVKVLTWDSD 114 (336)
T ss_pred HHHHHHHhCCEEEEECCC---C--CCHHHHHHHHHHHH--HcCCCEEEEecCCHHHHHHHHHHHHHC---CCeEEEeCCC
Confidence 45566778988864 221 1 1211 122222 25799999974 44555555555443 6788887754
Q ss_pred HHHHHHHhhhhcCCCCceeecCCC--CCHHHHHHHhhhCCC-CccEEEEEccCCCh-------hhHHHHHHhCCCeeeEE
Q 024773 138 TASIFEEVIQSSKCSLDVAFSPSK--ATGKILASELPKNGK-KKCTVLYPASAKAS-------NEIEEGLSNRGFEVVRL 207 (262)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~~~p~~--~t~e~L~~~l~~~~~-~g~~vL~~~g~~~~-------~~L~~~L~~~G~~v~~i 207 (262)
... .. ....+.... ..++.+.+.+.+... .+.+++++.|.... +.+.+.+++.+-.+.-+
T Consensus 115 ~~~---~~-------~~~~V~~~~~~~~G~~~~~~l~~~l~~g~gki~il~g~~~~~~~~~r~~g~~~~l~~~~p~~~vv 184 (336)
T PRK15408 115 TKP---EC-------RSYYINQGTPEQLGSMLVEMAAKQVGKDKAKVAFFYSSPTVTDQNQWVKEAKAKIAKEHPGWEIV 184 (336)
T ss_pred CCC---cc-------ceEEEecCCHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCCccHHHHHHHHHHHHHhhCCCCEEE
Confidence 211 11 111111111 123333344444332 45788888875431 33444554332223222
Q ss_pred eeeccccCCCChH----HHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCCCCCeEE
Q 024773 208 NTYTTEPVHHVDQ----TVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQWSNSVA 258 (262)
Q Consensus 208 ~vY~~~~~~~~~~----~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~~~~~i~ 258 (262)
.. .......+ .+.+.| +++|+|+.++...+...++.+++.+..++.++
T Consensus 185 ~~---~~~~~d~~~a~~~~~~lL~~~pdi~aI~~~~~~~~~Ga~~Al~~~g~~~v~Vv 239 (336)
T PRK15408 185 TT---QFGYNDATKSLQTAEGILKAYPDLDAIIAPDANALPAAAQAAENLKRDKVAIV 239 (336)
T ss_pred ee---cCCCCcHHHHHHHHHHHHHHCCCCcEEEECCCccHHHHHHHHHhCCCCCEEEE
Confidence 22 11111111 122223 47898888877666666666665433333333
No 119
>PRK11790 D-3-phosphoglycerate dehydrogenase; Provisional
Probab=89.04 E-value=10 Score=35.66 Aligned_cols=173 Identities=12% Similarity=0.039 Sum_probs=95.9
Q ss_pred CCCCCCeEEEeCCCCChHHHHHHHHhCCC-cEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHH-HHHHHHHH
Q 024773 46 ASNSNPKVVVTRERGKNGKLIKALAKHRI-DCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGS-VFLEAWKE 123 (262)
Q Consensus 46 ~~l~g~~VLitR~~~~~~~l~~~L~~~G~-~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~-~f~~~l~~ 123 (262)
.|...++|+++.+- .....+.|++.|+ ++...+. . .+.+++ ...+.++|++++.+..-+. .+++.+
T Consensus 6 ~~~~~~~ili~~~~--~~~~~~~l~~~~~~~v~~~~~----~-~~~~~~---~~~~~~~d~l~~~~~~~~~~~~l~~~-- 73 (409)
T PRK11790 6 LPKDKIKFLLLEGV--HQSAVEVLRAAGYTNIEYHKG----A-LDEEEL---IEAIKDAHFIGIRSRTQLTEEVLAAA-- 73 (409)
T ss_pred CCCCCeEEEEECCC--CHHHHHHHHhcCCceEEECCC----C-CCHHHH---HHHcCCCCEEEEeCCCCCCHHHHhhC--
Confidence 55556789998653 3556677888887 5554321 1 122322 3346789998776643232 222221
Q ss_pred cCCCCcEEE---EeChh--HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhh--------h-----------------
Q 024773 124 AGTPNVRIG---VVGAG--TASIFEEVIQSSKCSLDVAFSPSKATGKILASELP--------K----------------- 173 (262)
Q Consensus 124 ~~~~~~~i~---aVG~~--Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~--------~----------------- 173 (262)
++.+++ ++|-- ..+++++. |+.+.-.|. .+++.+++... .
T Consensus 74 ---~~Lk~I~~~~~G~d~id~~~~~~~------gI~V~n~pg-~~~~aVAE~~i~l~L~~~R~~~~~~~~~~~g~w~~~~ 143 (409)
T PRK11790 74 ---EKLVAIGCFCIGTNQVDLDAAAKR------GIPVFNAPF-SNTRSVAELVIGEIILLLRGIPEKNAKAHRGGWNKSA 143 (409)
T ss_pred ---CCCeEEEECceecccccHHHHHhC------CCEEEeCCC-CChHHHHHHHHHHHHHHHcChHHHHHHHHcCcccccc
Confidence 244544 34432 34677788 998866653 33433332211 0
Q ss_pred ---CCCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCC--ChHHHHHHcCCCCEEEEeCHHHH
Q 024773 174 ---NGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHH--VDQTVLKQALSIPVVAVASPSAV 240 (262)
Q Consensus 174 ---~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~--~~~~~~~~l~~~d~ivFtS~s~~ 240 (262)
....|+++.+++-......+.+.++..|++|..+..+....... ...++.+.+...|+|++.-|.+-
T Consensus 144 ~~~~~L~gktvGIiG~G~IG~~vA~~~~~fGm~V~~~d~~~~~~~~~~~~~~~l~ell~~sDiVslh~Plt~ 215 (409)
T PRK11790 144 AGSFEVRGKTLGIVGYGHIGTQLSVLAESLGMRVYFYDIEDKLPLGNARQVGSLEELLAQSDVVSLHVPETP 215 (409)
T ss_pred cCcccCCCCEEEEECCCHHHHHHHHHHHHCCCEEEEECCCcccccCCceecCCHHHHHhhCCEEEEcCCCCh
Confidence 01256778777766666678899999998764433322111110 01134444568999999988665
No 120
>TIGR02405 trehalos_R_Ecol trehalose operon repressor, proteobacterial. This family consists of repressors of the LacI family typically associated with trehalose utilization operons. Trehalose is imported as trehalose-6-phosphate and then hydrolyzed by alpha,alpha-phosphotrehalase to glucose and glucose-6-P. This family includes repressors mostly from Gammaproteobacteria and does not include the GntR family TreR of Bacillus subtilis
Probab=89.02 E-value=7.9 Score=34.23 Aligned_cols=172 Identities=11% Similarity=0.053 Sum_probs=92.6
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCc-hHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDT-DRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~-~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
.+.+.+.++|+.+...+...- ++. .+....+ .-..+|++|+.+..... .+.+... ..+++.+|...
T Consensus 80 ~i~~~~~~~gy~~~i~~~~~~---~~~~~~~~~~l-~~~~vdGvIi~~~~~~~--~~~l~~~---~~p~V~i~~~~---- 146 (311)
T TIGR02405 80 GMLPVFYTAGYDPIIMESQFS---PQLTNEHLSVL-QKRNVDGVILFGFTGCD--EEILESW---NHKAVVIARDT---- 146 (311)
T ss_pred HHHHHHHHCCCeEEEecCCCC---hHHHHHHHHHH-HhcCCCEEEEeCCCCCC--HHHHHhc---CCCEEEEecCC----
Confidence 456677788998776543211 111 1111222 22569999987632111 0122222 35788888521
Q ss_pred HHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCC-C-------hhhHHHHHHhCCCeeeEEeeeccc
Q 024773 143 EEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAK-A-------SNEIEEGLSNRGFEVVRLNTYTTE 213 (262)
Q Consensus 143 ~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~-~-------~~~L~~~L~~~G~~v~~i~vY~~~ 213 (262)
. ++.. +.... ..+..+++.|.+.. .+++.|+.+.. . ..-+.+.+++.|... ...+...
T Consensus 147 --~------~~~~-V~~D~~~~~~~a~~~L~~~G--hr~I~~i~~~~~~~~~~~~R~~gf~~a~~~~gi~~--~~~~~~~ 213 (311)
T TIGR02405 147 --G------GFSS-VCYDDYGAIELLMANLYQQG--HRHISFLGVDPSDKTTGLMRHNAYLAYCESANLEP--IYQTGQL 213 (311)
T ss_pred --C------CccE-EEeCcHHHHHHHHHHHHHcC--CCcEEEEccCcccchhHHHHHHHHHHHHHHcCCCc--eeeeCCC
Confidence 1 2322 23333 34456667776653 47899987532 1 234677888888753 1122111
Q ss_pred cCCCChHHHHHHc-CCCCEEEEeCHHHHHHHHHHhcccCCCCCeEEEEC
Q 024773 214 PVHHVDQTVLKQA-LSIPVVAVASPSAVRSWVNLISDTEQWSNSVACIA 261 (262)
Q Consensus 214 ~~~~~~~~~~~~l-~~~d~ivFtS~s~~~~~~~~~~~~~~~~~~i~~IG 261 (262)
..+.....+.+.+ .+.++|++.+-..+-.++..+.+.+..++.|++++
T Consensus 214 ~~~~~~~~~~~~l~~~~tAi~~~~D~~A~g~~~~l~~~g~~dvsvvgfd 262 (311)
T TIGR02405 214 SHESGYVLTDKVLKPETTALVCATDTLALGAAKYLQELDRSDVQVSSVG 262 (311)
T ss_pred CHHHHHHHHHHHHhcCCCEEEECCcHHHHHHHHHHHHcCCCCeEEEeeC
Confidence 1111011122222 35899999999999888888887666667777665
No 121
>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=88.66 E-value=6 Score=30.40 Aligned_cols=96 Identities=14% Similarity=0.151 Sum_probs=60.9
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH-----HHHHHHHHHHHcCCCCcEEEEeChhH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE-----AGSVFLEAWKEAGTPNVRIGVVGAGT 138 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~-----aV~~f~~~l~~~~~~~~~i~aVG~~T 138 (262)
-....|+..|++|+.+... .|. +++.+...+ .+.|+|++.+.. .++.+.+.+++.+.+++++++-|...
T Consensus 18 ~~~~~l~~~G~~vi~lG~~--vp~---e~~~~~a~~-~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~~~~i~i~~GG~~~ 91 (122)
T cd02071 18 VIARALRDAGFEVIYTGLR--QTP---EEIVEAAIQ-EDVDVIGLSSLSGGHMTLFPEVIELLRELGAGDILVVGGGIIP 91 (122)
T ss_pred HHHHHHHHCCCEEEECCCC--CCH---HHHHHHHHH-cCCCEEEEcccchhhHHHHHHHHHHHHhcCCCCCEEEEECCCC
Confidence 4556788999999988654 222 233334323 468888887643 34566666777666677888876444
Q ss_pred HH---HHHHhhhhcCCCCceeecCCCCCHHHHHHHhh
Q 024773 139 AS---IFEEVIQSSKCSLDVAFSPSKATGKILASELP 172 (262)
Q Consensus 139 a~---~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~ 172 (262)
.+ .+++. |++..+.| ..+.+..+..|.
T Consensus 92 ~~~~~~~~~~------G~d~~~~~-~~~~~~~~~~~~ 121 (122)
T cd02071 92 PEDYELLKEM------GVAEIFGP-GTSIEEIIDKIR 121 (122)
T ss_pred HHHHHHHHHC------CCCEEECC-CCCHHHHHHHHh
Confidence 43 46677 99875544 456777776653
No 122
>cd06311 PBP1_ABC_sugar_binding_like_3 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=88.61 E-value=15 Score=31.54 Aligned_cols=144 Identities=9% Similarity=0.039 Sum_probs=76.8
Q ss_pred CCccEEEEeCH--HHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCC-ceeecCCCC-CHHHHHHHhhhCCC
Q 024773 101 TIFDWIIITSP--EAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSL-DVAFSPSKA-TGKILASELPKNGK 176 (262)
Q Consensus 101 ~~~d~IiFTS~--~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~-~~~~~p~~~-t~e~L~~~l~~~~~ 176 (262)
...|.||+.+. .++...++.+.+. +++++.++.... .. +. ...+.+..+ .+...++.|.+...
T Consensus 59 ~~vDgiii~~~~~~~~~~~i~~~~~~---gIpvV~~d~~~~----~~------~~~~~~V~~d~~~~g~~aa~~l~~~~~ 125 (274)
T cd06311 59 RKIDALVILPFESAPLTQPVAKAKKA---GIFVVVVDRGLS----SP------GAQDLYVAGDNYGMGRVAGEYIATKLG 125 (274)
T ss_pred cCCCEEEEeCCCchhhHHHHHHHHHC---CCeEEEEcCCCC----CC------cccceEEcCCcHHHHHHHHHHHHHHhC
Confidence 46899999864 3444444444443 678888874211 01 11 111223322 23444555555422
Q ss_pred CccEEEEEccCCC------hhhHHHHHHhCCCeeeEEeeeccccCCCChHH-HHHHc---CCCCEEEEeCHHHHHHHHHH
Q 024773 177 KKCTVLYPASAKA------SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSWVNL 246 (262)
Q Consensus 177 ~g~~vL~~~g~~~------~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~-~~~~l---~~~d~ivFtS~s~~~~~~~~ 246 (262)
..++++++.|... ..-+.+.|++.|..+.. .+..........+ +.+.+ .++++|++.+...+...++.
T Consensus 126 g~~~i~~~~g~~~~~~~~R~~gf~~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~a 203 (274)
T cd06311 126 GNGNIVVLRGIPTPIDNERVDAFDAAIAKYPIKILD--RQYANWNRDDAFSVMQDLLTKFPKIDAVWAHDDDMAVGVLAA 203 (274)
T ss_pred CCCeEEEEECCCCcchhHHHHHHHHHHhhCCcEEEe--ccCCCCcHHHHHHHHHHHHHhCCCcCEEEECCCcHHHHHHHH
Confidence 3478988877532 23456677777754433 2211111111111 22223 35899999998888888888
Q ss_pred hcccCCC-CCeEEE
Q 024773 247 ISDTEQW-SNSVAC 259 (262)
Q Consensus 247 ~~~~~~~-~~~i~~ 259 (262)
+++.+.. ++.+++
T Consensus 204 l~~~g~~~~~~ivg 217 (274)
T cd06311 204 IKQAGRTDIKFVVG 217 (274)
T ss_pred HHHcCCCCCceEEE
Confidence 8776533 455554
No 123
>PRK15438 erythronate-4-phosphate dehydrogenase PdxB; Provisional
Probab=88.15 E-value=3.6 Score=38.35 Aligned_cols=163 Identities=8% Similarity=0.029 Sum_probs=91.6
Q ss_pred CeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcE
Q 024773 51 PKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVR 130 (262)
Q Consensus 51 ~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~ 130 (262)
++|++...- ....+.|++.| ++...|-. +. .. ..+.++|+++..|...|..-+ + . ..+++
T Consensus 1 mkIl~d~~~---~~~~~~~~~~~-ev~~~~~~---~~--~~------~~l~daD~liv~s~t~v~~~l--l-~--~~~Lk 60 (378)
T PRK15438 1 MKILVDENM---PYARELFSRLG-EVKAVPGR---PI--PV------AQLADADALMVRSVTKVNESL--L-A--GKPIK 60 (378)
T ss_pred CEEEEeCCc---chHHHHHhhcC-cEEEeCCC---CC--CH------HHhCCCcEEEEcCCCCCCHHH--h-c--CCCCe
Confidence 467777432 23345555554 77665531 11 11 125789999988765554322 2 1 13455
Q ss_pred EEE---eCh--hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhh----------CCCCccEEEEEccCCChhhHHH
Q 024773 131 IGV---VGA--GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPK----------NGKKKCTVLYPASAKASNEIEE 195 (262)
Q Consensus 131 i~a---VG~--~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~----------~~~~g~~vL~~~g~~~~~~L~~ 195 (262)
++. +|- -..+++++. |+.+.-.|. .++..+++.... ....|+++.+++-......+.+
T Consensus 61 ~I~~~~~G~D~iD~~~~~~~------gI~v~napg-~na~aVAE~~~~~lL~l~r~~g~~L~gktvGIIG~G~IG~~vA~ 133 (378)
T PRK15438 61 FVGTATAGTDHVDEAWLKQA------GIGFSAAPG-CNAIAVVEYVFSSLLMLAERDGFSLHDRTVGIVGVGNVGRRLQA 133 (378)
T ss_pred EEEECcccccccCHHHHHHC------CCEEEECCC-cCchHHHHHHHHHHHHHhccCCCCcCCCEEEEECcCHHHHHHHH
Confidence 442 332 123678888 998866553 444444443211 1236788888877776778999
Q ss_pred HHHhCCCeeeEEeeeccccCCC-ChHHHHHHcCCCCEEEEeCHHHH
Q 024773 196 GLSNRGFEVVRLNTYTTEPVHH-VDQTVLKQALSIPVVAVASPSAV 240 (262)
Q Consensus 196 ~L~~~G~~v~~i~vY~~~~~~~-~~~~~~~~l~~~d~ivFtS~s~~ 240 (262)
.|+..|++|.-+.-+....... ....+.+.+...|+|++..|.+-
T Consensus 134 ~l~a~G~~V~~~dp~~~~~~~~~~~~~L~ell~~sDiI~lh~PLt~ 179 (378)
T PRK15438 134 RLEALGIKTLLCDPPRADRGDEGDFRSLDELVQEADILTFHTPLFK 179 (378)
T ss_pred HHHHCCCEEEEECCcccccccccccCCHHHHHhhCCEEEEeCCCCC
Confidence 9999999774443222111111 11123344468999999999654
No 124
>cd01540 PBP1_arabinose_binding Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Periplasmic L-arabinose-binding protein (ABP), a member of a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. ABP is only involved in transport contrary to other related sugar-binding proteins such as the glucose/galactose-binding protein (GGBP) and the ribose-binding protein (RBP), both of which are involved in chemotaxis as well as transport. The periplasmic ABP consists of two alpha/beta globular domains connected by a three-stranded hinge, a Venus flytrap-like domain, which undergoes a transition from an open to a closed conformational state upon ligand binding. Moreover, ABP is homologous to the ligand-binding domain of eukaryotic receptors such as metabotropic glutamate receptor (mGluR) and DNA-binding transcriptional repressors such a
Probab=88.11 E-value=5.1 Score=34.71 Aligned_cols=184 Identities=10% Similarity=0.018 Sum_probs=84.4
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTAS 140 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~Ta~ 140 (262)
..+.+.++++|+++..+... .+....+.++..+ ....|.||+.+.. .....++.+.+. ++++++++.....
T Consensus 19 ~gi~~~~~~~g~~~~~~~~~--~~~~~~~~i~~~~--~~~~dgiii~~~~~~~~~~~~~~~~~~---~iPvV~~~~~~~~ 91 (289)
T cd01540 19 KFAKKAAKEKGFTVVKIDVP--DGEKVLSAIDNLG--AQGAKGFVICVPDVKLGPAIVAKAKAY---NMKVVAVDDRLVD 91 (289)
T ss_pred HHHHHHHHHcCCEEEEccCC--CHHHHHHHHHHHH--HcCCCEEEEccCchhhhHHHHHHHHhC---CCeEEEecCCCcc
Confidence 34567788899887754332 1100111222222 2568999998753 334444545443 6789888743211
Q ss_pred -HH-HHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCC-CCc---cEEEEEcc-CC-------ChhhHHHHHHhCCCeee
Q 024773 141 -IF-EEVIQSSKCSLDVAFSPSK-ATGKILASELPKNG-KKK---CTVLYPAS-AK-------ASNEIEEGLSNRGFEVV 205 (262)
Q Consensus 141 -~L-~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~-~~g---~~vL~~~g-~~-------~~~~L~~~L~~~G~~v~ 205 (262)
.- ... .+. .+.... ..+..+.+.+.+.. ..| ++++++.+ .. ..+-+.+.|++.|+...
T Consensus 92 ~~~~~~~------~~~-~V~~d~~~~g~~~~~~l~~~~~~~g~~~~~i~~i~~~~~~~~~~~~R~~G~~~~l~~~~~~~~ 164 (289)
T cd01540 92 ADGKPME------DVP-HVGMSATKIGEQVGEAIADEMKKRGWDPKEVGALRITYDELDTAKPRTDGALEALKAPGFPEA 164 (289)
T ss_pred cCCCccc------cce-EecCCHHHHHHHHHHHHHHHHHhhcCCCcceEEEEecCCCCcchhhHHHHHHHHHhcCCCCcc
Confidence 00 000 111 011111 12233334333321 122 47766642 11 23445667777777654
Q ss_pred EEeeec-ccc-CCCChHHHHHHc---CCCC--EEEEeCHHHHHHHHHHhcccCC--CCCeEEEE
Q 024773 206 RLNTYT-TEP-VHHVDQTVLKQA---LSIP--VVAVASPSAVRSWVNLISDTEQ--WSNSVACI 260 (262)
Q Consensus 206 ~i~vY~-~~~-~~~~~~~~~~~l---~~~d--~ivFtS~s~~~~~~~~~~~~~~--~~~~i~~I 260 (262)
.+..-. ... .+.....+.+.+ ..++ +|+.++-..+...+..+.+.+. .++.++++
T Consensus 165 ~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~i~~~~d~~a~g~~~al~~~g~~~~di~vig~ 228 (289)
T cd01540 165 NIFQAPQKTTDTEGAFDAAASTLTKNPNVKNWIIYGLNDETVLGAVRATEQSGIAAADVIGVGI 228 (289)
T ss_pred eEecccccCcchhhHHHHHHHHHHhCCCcCeeEEEeCCcHHHHHHHHHHHHcCCCCcceEEEec
Confidence 322111 111 111111222223 2456 6666676666677777666542 24555554
No 125
>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=87.97 E-value=6.3 Score=29.88 Aligned_cols=84 Identities=19% Similarity=0.247 Sum_probs=54.1
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH-----HHHHHHHHHHHHcCCCCcEEEEeChh
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP-----EAGSVFLEAWKEAGTPNVRIGVVGAG 137 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~-----~aV~~f~~~l~~~~~~~~~i~aVG~~ 137 (262)
.-+...|+..|++|+.+... .| .+++.+.+.+ .+.|.|.+++. ..+..+.+.+++.+.++++|++-|..
T Consensus 17 ~~~~~~l~~~G~~V~~lg~~--~~---~~~l~~~~~~-~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~~~~~~i~vGG~~ 90 (119)
T cd02067 17 NIVARALRDAGFEVIDLGVD--VP---PEEIVEAAKE-EDADAIGLSGLLTTHMTLMKEVIEELKEAGLDDIPVLVGGAI 90 (119)
T ss_pred HHHHHHHHHCCCEEEECCCC--CC---HHHHHHHHHH-cCCCEEEEeccccccHHHHHHHHHHHHHcCCCCCeEEEECCC
Confidence 45677888999999776521 11 2344445433 57899888875 33455566666654347888888876
Q ss_pred HHH---HHHHhhhhcCCCCceeec
Q 024773 138 TAS---IFEEVIQSSKCSLDVAFS 158 (262)
Q Consensus 138 Ta~---~L~~~~~~~~~G~~~~~~ 158 (262)
... .+++. |+...+.
T Consensus 91 ~~~~~~~~~~~------G~D~~~~ 108 (119)
T cd02067 91 VTRDFKFLKEI------GVDAYFG 108 (119)
T ss_pred CChhHHHHHHc------CCeEEEC
Confidence 655 67777 8865443
No 126
>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=87.66 E-value=2.2 Score=31.48 Aligned_cols=67 Identities=9% Similarity=0.006 Sum_probs=39.1
Q ss_pred EEEEEcc-CCChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHHHHHHHHHHhc
Q 024773 180 TVLYPAS-AKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPSAVRSWVNLIS 248 (262)
Q Consensus 180 ~vL~~~g-~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s~~~~~~~~~~ 248 (262)
++|+++| +.....+.+.+++.|+..... .+..........+...+.+.|+|++...-.-+.....++
T Consensus 1 ~vliVGG~~~~~~~~~~~~~~~G~~~~~h--g~~~~~~~~~~~l~~~i~~aD~VIv~t~~vsH~~~~~vk 68 (97)
T PF10087_consen 1 SVLIVGGREDRERRYKRILEKYGGKLIHH--GRDGGDEKKASRLPSKIKKADLVIVFTDYVSHNAMWKVK 68 (97)
T ss_pred CEEEEcCCcccHHHHHHHHHHcCCEEEEE--ecCCCCccchhHHHHhcCCCCEEEEEeCCcChHHHHHHH
Confidence 4788888 445667888889998865444 222222222222455566788888776544444444433
No 127
>TIGR02955 TMAO_TorT TMAO reductase system periplasmic protein TorT. Members of this family are the periplasmic protein TorT which, together with the the TorS/TorR histidine kinase/response regulator system, regulates expression of the torCAD operon for trimethylamine N-oxide reductase (TMAO reductase). It appears to bind an inducer for TMAO reductase, and shows homology to a periplasmic D-ribose binding protein.
Probab=87.27 E-value=11 Score=33.03 Aligned_cols=176 Identities=10% Similarity=0.037 Sum_probs=82.9
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCC-chHHHHHHhcCCCccEEEEeCH--HHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024773 65 LIKALAKHRIDCLELPLIQHAQGPD-TDRLSSVLNADTIFDWIIITSP--EAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (262)
Q Consensus 65 l~~~L~~~G~~v~~~P~~~~~~~~~-~~~l~~~l~~l~~~d~IiFTS~--~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (262)
+.+.++++|+++.....-....... .+.++..+ -..+|+||+.+. .++...+..+ . .+++++.++......
T Consensus 21 i~~~a~~~g~~v~~~~~~~~~~~~~~~~~i~~l~--~~~vDgiIi~~~~~~~~~~~l~~~-~---~~iPvV~~~~~~~~~ 94 (295)
T TIGR02955 21 MVEQAKHLGVELKVLEAGGYPNLDKQLAQIEQCK--SWGADAILLGTVSPEALNHDLAQL-T---KSIPVFALVNQIDSN 94 (295)
T ss_pred HHHHHHHhCCEEEEEcCCCCCCHHHHHHHHHHHH--HcCCCEEEEecCChhhhhHHHHHH-h---cCCCEEEEecCCCcc
Confidence 4456677898887654311000000 11122222 367999999864 3322222222 1 256888774322110
Q ss_pred HHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCC---ccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeee
Q 024773 142 FEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKK---KCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTY 210 (262)
Q Consensus 142 L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~---g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY 210 (262)
. .+. .+.... ..+..+++.|.+.... .++++++.|... ..-+.+.|++.|+.+.. ..+
T Consensus 95 ---~------~~~-~V~~D~~~~g~~~~~~L~~~~~~~~g~~~I~~i~g~~~~~~~~~R~~Gf~~al~~~g~~~~~-~~~ 163 (295)
T TIGR02955 95 ---Q------VKG-RVGVDWYQMGYQAGEYLAQRHPKGSGPTTLAWLPGPKNRGGTKPVTQGFRAALEGSDVEISA-ILW 163 (295)
T ss_pred ---c------eeE-EEeecHHHHHHHHHHHHHHhcccCCCCeeEEEEeCCCcCCchhHHHHHHHHHHhcCCcEEEE-Eec
Confidence 1 111 122222 2344455555542211 357999887653 33456678888876643 222
Q ss_pred ccccCCCChHH-HHHHc---CCCCEEEEeCHHHHHHHHHHhcccC-CCCCeEEE
Q 024773 211 TTEPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSWVNLISDTE-QWSNSVAC 259 (262)
Q Consensus 211 ~~~~~~~~~~~-~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~-~~~~~i~~ 259 (262)
. ........+ +.+.+ ..+|+| +.+-..+...++.+.+.+ ..++.+++
T Consensus 164 ~-~~~~~~~~~~~~~~L~~~~~~d~i-~~~d~~a~g~l~al~~~g~~~dv~vvg 215 (295)
T TIGR02955 164 A-DNDKELQRNLLQDLLKKHPDIDYL-VGSAVAAEAAISELRSLHMTQQIKLVS 215 (295)
T ss_pred C-CCcHHHHHHHHHHHHHhCCCcCEE-EeccHHHHHHHHHHHhhCccCCeEEEE
Confidence 1 111111111 22222 357876 566666666776665543 34555554
No 128
>PLN02928 oxidoreductase family protein
Probab=87.23 E-value=7.6 Score=35.70 Aligned_cols=168 Identities=11% Similarity=0.046 Sum_probs=87.3
Q ss_pred CCCCeEEEeCCCCCh--HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcC
Q 024773 48 NSNPKVVVTRERGKN--GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAG 125 (262)
Q Consensus 48 l~g~~VLitR~~~~~--~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~ 125 (262)
...++||++.+.... ..+.+.++..+. ..+. . .+.+++ ...+.++|.++.... .+.. +.+..
T Consensus 16 ~~~~~vl~~~~~~~~~~~~~~~~~~~~~~--~~~~-----~-~~~~e~---~~~~~~~d~~i~~~~-~~~~--~~l~~-- 79 (347)
T PLN02928 16 MRPTRVLFCGPEFPASYSYTREYLQKYPF--IQVD-----A-VAREDV---PDVIANYDICVPKMM-RLDA--DIIAR-- 79 (347)
T ss_pred CCCCEEEEECCCchhHHHHHHHHhhcCCe--eEec-----C-CCHHHH---HHHhcCCcEEEECCC-CCCH--HHHhc--
Confidence 345679999765432 224555654552 2211 1 122333 334578998765432 2211 11221
Q ss_pred CCCcEEEE-eChh----HHHHHHHhhhhcCCCCceeecCCC--CCHHHHHHHhhh-------------------------
Q 024773 126 TPNVRIGV-VGAG----TASIFEEVIQSSKCSLDVAFSPSK--ATGKILASELPK------------------------- 173 (262)
Q Consensus 126 ~~~~~i~a-VG~~----Ta~~L~~~~~~~~~G~~~~~~p~~--~t~e~L~~~l~~------------------------- 173 (262)
.+++++++ .|.. ..+++.+. |+.+.-.|.. .+++.+++....
T Consensus 80 ~~~Lk~I~~~~~G~d~id~~~~~~~------gi~v~n~~~~~~~~~~~vAE~av~l~L~~~R~~~~~~~~~~~~~w~~~~ 153 (347)
T PLN02928 80 ASQMKLIMQFGVGLEGVDVDAATKH------GIKVARIPSEGTGNAASCAEMAIYLMLGLLRKQNEMQISLKARRLGEPI 153 (347)
T ss_pred CCCceEEEECCcccCcCcHHHHHhC------CCEEEECCCCCCcChHHHHHHHHHHHHHHHhCHHHHHHHHHcCCccccc
Confidence 23455443 2222 23567777 9888666532 133333322110
Q ss_pred -CCCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCC--------------------ChHHHHHHcCCCCEE
Q 024773 174 -NGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHH--------------------VDQTVLKQALSIPVV 232 (262)
Q Consensus 174 -~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~--------------------~~~~~~~~l~~~d~i 232 (262)
....|+++.+++-......+.+.|+..|++| .+|.+..... ...++.+.+...|+|
T Consensus 154 ~~~l~gktvGIiG~G~IG~~vA~~l~afG~~V---~~~dr~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~ell~~aDiV 230 (347)
T PLN02928 154 GDTLFGKTVFILGYGAIGIELAKRLRPFGVKL---LATRRSWTSEPEDGLLIPNGDVDDLVDEKGGHEDIYEFAGEADIV 230 (347)
T ss_pred ccCCCCCEEEEECCCHHHHHHHHHHhhCCCEE---EEECCCCChhhhhhhccccccccccccccCcccCHHHHHhhCCEE
Confidence 1135688888887666678899999999865 4454321110 111233445689999
Q ss_pred EEeCHHHH
Q 024773 233 AVASPSAV 240 (262)
Q Consensus 233 vFtS~s~~ 240 (262)
+..-|.+-
T Consensus 231 vl~lPlt~ 238 (347)
T PLN02928 231 VLCCTLTK 238 (347)
T ss_pred EECCCCCh
Confidence 99988554
No 129
>PF03358 FMN_red: NADPH-dependent FMN reductase; InterPro: IPR005025 NADPH-dependent FMN reductase (1.5.1.29 from EC) reduces FMN and also reduces riboflavin and FAD, although more slowly. Members of this entry catalyse the reaction NAD(P)H + FMN = NAD(P)(+) + FMNH(2).; PDB: 3SVL_B 3GFS_F 3GFQ_A 1NNI_1 2GSW_B 3GFR_D 1T0I_B 3D7N_A 2R97_A 3B6K_A ....
Probab=87.08 E-value=2.7 Score=33.24 Aligned_cols=81 Identities=17% Similarity=0.218 Sum_probs=51.2
Q ss_pred EEEEEccCCC--------hhhHHHHHHhCCCeeeEEeeecccc------------CCCChHHHHHHcCCCCEEEEeCH--
Q 024773 180 TVLYPASAKA--------SNEIEEGLSNRGFEVVRLNTYTTEP------------VHHVDQTVLKQALSIPVVAVASP-- 237 (262)
Q Consensus 180 ~vL~~~g~~~--------~~~L~~~L~~~G~~v~~i~vY~~~~------------~~~~~~~~~~~l~~~d~ivFtS~-- 237 (262)
|||++.|... -+.+.+.|++.|++++.+.+.+... ......++.+.+...|.++|.||
T Consensus 2 kilii~gS~r~~~~t~~l~~~~~~~l~~~g~e~~~i~l~~~~~p~~~~~~~~~~~~~d~~~~~~~~l~~aD~iI~~sP~y 81 (152)
T PF03358_consen 2 KILIINGSPRKNSNTRKLAEAVAEQLEEAGAEVEVIDLADYPLPCCDGDFECPCYIPDDVQELYDKLKEADGIIFASPVY 81 (152)
T ss_dssp EEEEEESSSSTTSHHHHHHHHHHHHHHHTTEEEEEEECTTSHCHHHHHHHHHTGCTSHHHHHHHHHHHHSSEEEEEEEEB
T ss_pred EEEEEECcCCCCCHHHHHHHHHHHHHHHcCCEEEEEeccccchhhcccccccccCCcHHHHHHHhceecCCeEEEeecEE
Confidence 4555555442 3456667777788888877776410 11112334555568999999996
Q ss_pred -----HHHHHHHHHhc---ccCCCCCeEEEE
Q 024773 238 -----SAVRSWVNLIS---DTEQWSNSVACI 260 (262)
Q Consensus 238 -----s~~~~~~~~~~---~~~~~~~~i~~I 260 (262)
..+++|++.+. ...+.+.+++.|
T Consensus 82 ~~~~s~~lK~~lD~~~~~~~~~~~~K~~~~i 112 (152)
T PF03358_consen 82 NGSVSGQLKNFLDRLSCWFRRALRGKPVAII 112 (152)
T ss_dssp TTBE-HHHHHHHHTHHHTHTTTTTTSEEEEE
T ss_pred cCcCChhhhHHHHHhccccccccCCCEEEEE
Confidence 68899999986 322456666555
No 130
>PRK10569 NAD(P)H-dependent FMN reductase; Provisional
Probab=86.89 E-value=4 Score=34.15 Aligned_cols=70 Identities=21% Similarity=0.223 Sum_probs=43.7
Q ss_pred hhHHHHHHhCCCeeeEEeeeccccC-----C---CChHHHHHHcCCCCEEEEeCH-------HHHHHHHHHhcccCCCCC
Q 024773 191 NEIEEGLSNRGFEVVRLNTYTTEPV-----H---HVDQTVLKQALSIPVVAVASP-------SAVRSWVNLISDTEQWSN 255 (262)
Q Consensus 191 ~~L~~~L~~~G~~v~~i~vY~~~~~-----~---~~~~~~~~~l~~~d~ivFtS~-------s~~~~~~~~~~~~~~~~~ 255 (262)
+.+.+.|.+.|.+++.+.+|+-... . .....+.+.+...|.|+|.|| ...++|++.+....+.+.
T Consensus 21 ~~~~~~l~~~g~ev~~idL~~l~~~~~~~~~~~~~~~~~~~~~i~~AD~iIi~tP~Y~~s~pg~LKn~iD~l~~~~l~~K 100 (191)
T PRK10569 21 EYAREWLNGLGVEVYHWNLQNFAPEDLLYARFDSPALKTFTEQLAQADGLIVATPVYKASFSGALKTLLDLLPERALEHK 100 (191)
T ss_pred HHHHHHHHhCCCEEEEEEccCCChHHHHhccCCCHHHHHHHHHHHHCCEEEEECCccCCCCCHHHHHHHHhCChhhhCCC
Confidence 3455667778888888888752211 0 011234444568999999998 678888888754224455
Q ss_pred eEEEE
Q 024773 256 SVACI 260 (262)
Q Consensus 256 ~i~~I 260 (262)
+++.|
T Consensus 101 ~v~ii 105 (191)
T PRK10569 101 VVLPL 105 (191)
T ss_pred EEEEE
Confidence 55544
No 131
>PRK06756 flavodoxin; Provisional
Probab=86.87 E-value=4.2 Score=32.14 Aligned_cols=64 Identities=11% Similarity=0.159 Sum_probs=39.7
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH--------HHHHHHHHHHHcCCCCcEEEEe
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE--------AGSVFLEAWKEAGTPNVRIGVV 134 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~--------aV~~f~~~l~~~~~~~~~i~aV 134 (262)
+.+.+.|++.|..+..+.+.+.. .. ..+.++|.|+|-|+. .+..|++.+......+.+++++
T Consensus 20 ~~ia~~l~~~g~~v~~~~~~~~~---~~-------~~~~~~d~vi~gspt~~~g~~p~~~~~fl~~l~~~~l~~k~~~~f 89 (148)
T PRK06756 20 DHIAGVIRETENEIEVIDIMDSP---EA-------SILEQYDGIILGAYTWGDGDLPDDFLDFYDAMDSIDLTGKKAAVF 89 (148)
T ss_pred HHHHHHHhhcCCeEEEeehhccC---CH-------HHHhcCCeEEEEeCCCCCCCCcHHHHHHHHHHhcCCCCCCEEEEE
Confidence 34555666678777655443321 11 135689999999765 3666666665444567788888
Q ss_pred Ch
Q 024773 135 GA 136 (262)
Q Consensus 135 G~ 136 (262)
|-
T Consensus 90 gt 91 (148)
T PRK06756 90 GS 91 (148)
T ss_pred eC
Confidence 76
No 132
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=86.32 E-value=24 Score=31.47 Aligned_cols=137 Identities=13% Similarity=0.026 Sum_probs=77.1
Q ss_pred CCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecC-CCCCHHHHHHHhhhCCCCcc
Q 024773 101 TIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSP-SKATGKILASELPKNGKKKC 179 (262)
Q Consensus 101 ~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p-~~~t~e~L~~~l~~~~~~g~ 179 (262)
++.++|+-............+.+. +++++..+... ..+... .++- .+.+ .......+++.+.+.. ++
T Consensus 66 ~~V~~iig~~~s~~~~~~~~~~~~---~ip~v~~~~~~-~~~~~~-----~~~~-~~~~~~~~~~~~~~~~l~~~g--~~ 133 (341)
T cd06341 66 DKVVAVVGGSSGAGGSALPYLAGA---GIPVIGGAGTS-AWELTS-----PNSF-PFSGGTPASLTTWGDFAKDQG--GT 133 (341)
T ss_pred cCceEEEecccccchhHHHHHhhc---CCceecCCCCC-chhhcC-----CCeE-EecCCCcchhHHHHHHHHHcC--Cc
Confidence 468888876554444333444443 45555544322 122111 0111 1222 2345677777777653 45
Q ss_pred EEEEEccCC------ChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHc--CCCCEEEEeCHH-HHHHHHHHhccc
Q 024773 180 TVLYPASAK------ASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVASPS-AVRSWVNLISDT 250 (262)
Q Consensus 180 ~vL~~~g~~------~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l--~~~d~ivFtS~s-~~~~~~~~~~~~ 250 (262)
++.++..+. ....+.+.+++.|.++.....|.... . ........+ .+.|+|++.+.. .+..+++.+.+.
T Consensus 134 ~~~~i~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~-~-d~~~~~~~i~~~~pdaV~~~~~~~~a~~~~~~~~~~ 211 (341)
T cd06341 134 RAVALVTALSAAVSAAAALLARSLAAAGVSVAGIVVITATA-P-DPTPQAQQAAAAGADAIITVLDAAVCASVLKAVRAA 211 (341)
T ss_pred EEEEEEeCCcHHHHHHHHHHHHHHHHcCCccccccccCCCC-C-CHHHHHHHHHhcCCCEEEEecChHHHHHHHHHHHHc
Confidence 666554332 24557788999999887766766531 2 222223333 379999999877 788888888776
Q ss_pred C
Q 024773 251 E 251 (262)
Q Consensus 251 ~ 251 (262)
+
T Consensus 212 G 212 (341)
T cd06341 212 G 212 (341)
T ss_pred C
Confidence 4
No 133
>cd00316 Oxidoreductase_nitrogenase The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. This group contains both alpha and beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent nitrogenase (Mo-nitrogenase), a vanadium-dependent nitrogenase (V-nitrogenase), and an iron-only nitrogenase (Fe-nitrogenase) and, both subunits of Protochlorophyllide (Pchlide) reductase and chlorophyllide (chlide) reductase. The nitrogenase systems consist of component 1 (MoFe protein, VFe protein or, FeFe protein respectively) and, component 2 (Fe protein). The most widespread and best characterized nitrogenase is the Mo-nitrogenase. MoFe is an alpha2beta2 tetramer, the alternative nitrogenases are alpha2beta2delta2 hexamers whose alpha and beta subunits are similar to the alpha and beta subunits of MoFe. For MoFe, each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molec
Probab=86.21 E-value=27 Score=32.11 Aligned_cols=153 Identities=16% Similarity=0.087 Sum_probs=85.3
Q ss_pred CCCeEEEeCCCC----ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc
Q 024773 49 SNPKVVVTRERG----KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA 124 (262)
Q Consensus 49 ~g~~VLitR~~~----~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~ 124 (262)
..++|-+..... +..++.+.|++.|++|..++.... ..++ +.++.+.+..+..++..-..+.+.+++.
T Consensus 151 ~~~~vNlig~~~~~~~d~~el~~ll~~~G~~v~~~~~~~~----s~~~----i~~~~~A~~nlv~~~~~g~~~a~~l~~~ 222 (399)
T cd00316 151 EPGSVNLIGGYNLGGGDLRELKRLLEEMGIRVNALFDGGT----TVEE----LRELGNAKLNLVLCRESGLYLARYLEEK 222 (399)
T ss_pred CCCcEEEECCCCCchhhHHHHHHHHHHcCCcEEEEcCCCC----CHHH----HHhhccCcEEEEecHhHHHHHHHHHHHH
Confidence 344555544332 458899999999999998876521 2222 3456788888888885556666767654
Q ss_pred -CCCCcEEEEeChh-HHHHHHHhhhhcCCCCceeecCCCC--CHHHHHHHhhhC--CCCccEEEEEccCCChhhHHHHHH
Q 024773 125 -GTPNVRIGVVGAG-TASIFEEVIQSSKCSLDVAFSPSKA--TGKILASELPKN--GKKKCTVLYPASAKASNEIEEGLS 198 (262)
Q Consensus 125 -~~~~~~i~aVG~~-Ta~~L~~~~~~~~~G~~~~~~p~~~--t~e~L~~~l~~~--~~~g~~vL~~~g~~~~~~L~~~L~ 198 (262)
+.+-....-+|.. |.+-|++..+. .|.... .++.. --+.+.+.+... ...|+++++..+....-.+...|.
T Consensus 223 ~g~p~~~~~p~G~~~t~~~l~~i~~~--~g~~~~-~~~~i~~~~~~~~~~~~~~~~~l~g~~~~i~~~~~~~~~~~~~l~ 299 (399)
T cd00316 223 YGIPYILINPIGLEATDAFLRKLAEL--FGIEKE-VPEVIARERARLLDALADYHEYLGGKKVAIFGDGDLLLALARFLL 299 (399)
T ss_pred hCCCeEEeCCcCHHHHHHHHHHHHHH--hCCCcc-hHHHHHHHHHHHHHHHHHHHHHhcCCEEEEECCCcHHHHHHHHHH
Confidence 4332222245643 44454444111 143110 11000 001111222211 125788887766555556778899
Q ss_pred hCCCeeeEEeeecc
Q 024773 199 NRGFEVVRLNTYTT 212 (262)
Q Consensus 199 ~~G~~v~~i~vY~~ 212 (262)
+.|..+..+..+..
T Consensus 300 e~G~~v~~~~~~~~ 313 (399)
T cd00316 300 ELGMEVVAAGTTFG 313 (399)
T ss_pred HCCCEEEEEEeCCC
Confidence 99999877776543
No 134
>TIGR03567 FMN_reduc_SsuE FMN reductase, SsuE family. Members of this protein family use NAD(P)H to reduce FMN and regenerate FMNH2. Members include the homodimeric, NAD(P)H-dependent enzyme SsuE from Escherichia coli, which serves as a partner to an FMNH2-dependent alkanesulfonate monooxygenase. It is induced by sulfate starvation. The NADH-dependent enzyme MsuE from Pseudomonas aeruginosa is outside the scope of this model (see model TIGR03566).
Probab=86.03 E-value=5.1 Score=32.70 Aligned_cols=40 Identities=20% Similarity=0.267 Sum_probs=27.6
Q ss_pred HHHHHcCCCCEEEEeCH-------HHHHHHHHHhcccCCCCCeEEEE
Q 024773 221 TVLKQALSIPVVAVASP-------SAVRSWVNLISDTEQWSNSVACI 260 (262)
Q Consensus 221 ~~~~~l~~~d~ivFtS~-------s~~~~~~~~~~~~~~~~~~i~~I 260 (262)
++.+.+...|+++|.|| ...++|++.+....+.+.+++.+
T Consensus 58 ~l~~~i~~AD~iI~~sP~Y~~sip~~LK~~iD~~~~~~l~~K~v~~~ 104 (171)
T TIGR03567 58 AATAQVAQADGVVVATPVYKASYSGVLKALLDLLPQRALRGKVVLPI 104 (171)
T ss_pred HHHHHHHHCCEEEEECCcccCCCCHHHHHHHHhCChhhhCCCEEEEE
Confidence 45555668999999998 67888888875433445555443
No 135
>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=86.00 E-value=8.3 Score=28.44 Aligned_cols=74 Identities=14% Similarity=0.189 Sum_probs=43.3
Q ss_pred EEEEEccCCC-----hhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHHHHHHHHHHhcccCCCC
Q 024773 180 TVLYPASAKA-----SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPSAVRSWVNLISDTEQWS 254 (262)
Q Consensus 180 ~vL~~~g~~~-----~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s~~~~~~~~~~~~~~~~ 254 (262)
++|+.||.+. -+.+.+.++++|.++ ++..+.. .+..+...+.| +++++|.-...+-+.-+.....+
T Consensus 1 kIl~~Cg~G~sTS~~~~ki~~~~~~~~~~~-~v~~~~~-------~~~~~~~~~~D-iil~~Pqv~~~~~~i~~~~~~~~ 71 (96)
T cd05564 1 KILLVCSAGMSTSILVKKMKKAAEKRGIDA-EIEAVPE-------SELEEYIDDAD-VVLLGPQVRYMLDEVKKKAAEYG 71 (96)
T ss_pred CEEEEcCCCchHHHHHHHHHHHHHHCCCce-EEEEecH-------HHHHHhcCCCC-EEEEChhHHHHHHHHHHHhccCC
Confidence 4677787764 345677888888763 1222111 12222235778 77788877665544433222457
Q ss_pred CeEEEECC
Q 024773 255 NSVACIAG 262 (262)
Q Consensus 255 ~~i~~IGp 262 (262)
++++.|.|
T Consensus 72 ~pv~~I~~ 79 (96)
T cd05564 72 IPVAVIDM 79 (96)
T ss_pred CcEEEcCh
Confidence 89998875
No 136
>cd06325 PBP1_ABC_uncharacterized_transporter Type I periplasmic ligand-binding domain of uncharacterized ABC-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This group includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in the uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); its ligand specificity has not been determined experimentally.
Probab=85.97 E-value=20 Score=30.65 Aligned_cols=151 Identities=17% Similarity=0.049 Sum_probs=74.5
Q ss_pred CCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcC-CCCceeecCCCCCHHHHHHHhhhCCCCcc
Q 024773 101 TIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSK-CSLDVAFSPSKATGKILASELPKNGKKKC 179 (262)
Q Consensus 101 ~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~-~G~~~~~~p~~~t~e~L~~~l~~~~~~g~ 179 (262)
...|+||..+..+.... .+. ..+++++.+|.......... .... .+............+.+++.+.+.....+
T Consensus 59 ~~vd~iI~~~~~~~~~~--~~~---~~~iPvV~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~g~~ 132 (281)
T cd06325 59 DKPDLIVAIATPAAQAA--ANA---TKDIPIVFTAVTDPVGAGLV-KSLEKPGGNVTGVSDLVPVETQLELLKKLLPDAK 132 (281)
T ss_pred cCCCEEEEcCcHHHHHH--HHc---CCCCCEEEEecCCccccccc-cccccCCCceeCeecccchHHHHHHHHHHCCCCc
Confidence 57999998765443222 121 23678888873211110000 0000 01111111223345666666665422347
Q ss_pred EEEEEccCC------ChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHHHHHHHHHHhcccC-C
Q 024773 180 TVLYPASAK------ASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPSAVRSWVNLISDTE-Q 252 (262)
Q Consensus 180 ~vL~~~g~~------~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s~~~~~~~~~~~~~-~ 252 (262)
++.++.+.. ..+.+.+.+++.|.++.....+ ......+.+.+.+...|+|++.+-..+...++.+.+.. .
T Consensus 133 ~i~~l~~~~~~~~~~r~~g~~~~~~~~g~~~~~~~~~---~~~~~~~~~~~~~~~~dai~~~~d~~a~~~~~~~~~~~~~ 209 (281)
T cd06325 133 TVGVLYNPSEANSVVQVKELKKAAAKLGIEVVEATVS---SSNDVQQAAQSLAGKVDAIYVPTDNTVASAMEAVVKVANE 209 (281)
T ss_pred EEEEEeCCCCccHHHHHHHHHHHHHhCCCEEEEEecC---CHHHHHHHHHHhcccCCEEEEcCchhHHhHHHHHHHHHHH
Confidence 888775432 2356667788888776542211 00111112222234569999888877777777666543 2
Q ss_pred CCCeEEEE
Q 024773 253 WSNSVACI 260 (262)
Q Consensus 253 ~~~~i~~I 260 (262)
.+++++++
T Consensus 210 ~~ipvig~ 217 (281)
T cd06325 210 AKIPVIAS 217 (281)
T ss_pred cCCCEEEc
Confidence 35666654
No 137
>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=85.89 E-value=12 Score=27.68 Aligned_cols=74 Identities=14% Similarity=0.127 Sum_probs=43.1
Q ss_pred cEEEEEccCCC-----hhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHHHHHHHHHHhccc-CC
Q 024773 179 CTVLYPASAKA-----SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPSAVRSWVNLISDT-EQ 252 (262)
Q Consensus 179 ~~vL~~~g~~~-----~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s~~~~~~~~~~~~-~~ 252 (262)
+++|+.||.+. -..+.+.++++|++++ ++.... .++.+.....| +++.+|.-...+ +.+++. ..
T Consensus 4 ~~ILl~C~~G~sSS~l~~k~~~~~~~~gi~~~---v~a~~~-----~~~~~~~~~~D-vill~pqi~~~~-~~i~~~~~~ 73 (95)
T TIGR00853 4 TNILLLCAAGMSTSLLVNKMNKAAEEYGVPVK---IAAGSY-----GAAGEKLDDAD-VVLLAPQVAYML-PDLKKETDK 73 (95)
T ss_pred cEEEEECCCchhHHHHHHHHHHHHHHCCCcEE---EEEecH-----HHHHhhcCCCC-EEEECchHHHHH-HHHHHHhhh
Confidence 68999999875 3456777888888642 222211 12223345778 566666655544 333332 22
Q ss_pred CCCeEEEECC
Q 024773 253 WSNSVACIAG 262 (262)
Q Consensus 253 ~~~~i~~IGp 262 (262)
.+++++.|.|
T Consensus 74 ~~ipv~~I~~ 83 (95)
T TIGR00853 74 KGIPVEVING 83 (95)
T ss_pred cCCCEEEeCh
Confidence 3679988865
No 138
>TIGR02637 RhaS rhamnose ABC transporter, rhamnose-binding protein. This sugar-binding component of ABC transporter complexes is found in rhamnose catabolism operon contexts. Mutation of this gene in Rhizobium leguminosarum abolishes rhamnose transport and prevents growth on rhamnose as a carbon source.
Probab=84.68 E-value=19 Score=31.50 Aligned_cols=148 Identities=11% Similarity=0.092 Sum_probs=68.4
Q ss_pred CCccEEEEeCH--HHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecC-CCCC-HHHHHHHhhhCCC
Q 024773 101 TIFDWIIITSP--EAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSP-SKAT-GKILASELPKNGK 176 (262)
Q Consensus 101 ~~~d~IiFTS~--~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p-~~~t-~e~L~~~l~~~~~ 176 (262)
..+|.||+.+. ..+...++.+.+. +++++.++..... . +....+.. .... +...++.+.++..
T Consensus 55 ~~vdgiIi~~~~~~~~~~~l~~~~~~---giPvV~~~~~~~~----~------~~~~~v~~~Dn~~~g~~aa~~l~~~l~ 121 (302)
T TIGR02637 55 QKVDAIAISANDPDALVPALKKAMKR---GIKVVTWDSGVAP----E------GRNLFLNQASADLIGRTQVQLAAEQIG 121 (302)
T ss_pred cCCCEEEEeCCChHHHHHHHHHHHHC---CCEEEEeCCCCCC----C------ceeEEEecCCHHHHHHHHHHHHHHHcC
Confidence 57999999764 2333334444443 6788888742111 1 11111111 1111 1222233333332
Q ss_pred CccEEEEEccCCCh-------hhHHHHHHhCCCe-eeEEeeeccccCCCCh-HHHHHHc---CCCCEEEEeCHHHHHHHH
Q 024773 177 KKCTVLYPASAKAS-------NEIEEGLSNRGFE-VVRLNTYTTEPVHHVD-QTVLKQA---LSIPVVAVASPSAVRSWV 244 (262)
Q Consensus 177 ~g~~vL~~~g~~~~-------~~L~~~L~~~G~~-v~~i~vY~~~~~~~~~-~~~~~~l---~~~d~ivFtS~s~~~~~~ 244 (262)
.+++++++.|.... +-+.+.++++|.. +..+.+.......... +.+.+.+ .++++|+..+...+...+
T Consensus 122 ~~~~I~~i~g~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~~~~~~ai~~~~d~~a~ga~ 201 (302)
T TIGR02637 122 NGGEIAILSAASTATNQNAWIEIMKKELKDPKYPKVKLVATVYGDDDAQKSYQEAQGLLKSYPNLKGIIAPTTVGIKAAA 201 (302)
T ss_pred CCcEEEEEECCCCCccHHHHHHHHHHHHhhccCCCCEEEeeecCCchHHHHHHHHHHHHHhCCCccEEEeCCCchHHHHH
Confidence 33689999876432 2233344444332 2111111111111111 1122223 267888887777777777
Q ss_pred HHhcccCC-CCCeEEEEC
Q 024773 245 NLISDTEQ-WSNSVACIA 261 (262)
Q Consensus 245 ~~~~~~~~-~~~~i~~IG 261 (262)
+.+++.+. .++.+++++
T Consensus 202 ~al~~~g~~~~i~vvg~d 219 (302)
T TIGR02637 202 QAVSDAKLIGKVKLTGLG 219 (302)
T ss_pred HHHHhcCCCCCEEEEEcC
Confidence 77765442 355666654
No 139
>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=84.39 E-value=13 Score=32.85 Aligned_cols=178 Identities=8% Similarity=0.057 Sum_probs=90.4
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGT 138 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~T 138 (262)
+.+.+.+++.|+++...+.- .+.+...+.++. -...|+||+.+.. .....++.+.+. +++++.++...
T Consensus 18 ~~i~~~a~~~g~~v~~~~~~-----~~~~~q~~~i~~l~~~~vDgIIi~~~~~~~~~~~l~~~~~~---~iPvV~~d~~~ 89 (302)
T TIGR02634 18 DIFVAAAESLGAKVFVQSAN-----GNEAKQISQIENLIARGVDVLVIIPQNGQVLSNAVQEAKDE---GIKVVAYDRLI 89 (302)
T ss_pred HHHHHHHHhcCCEEEEEeCC-----CCHHHHHHHHHHHHHcCCCEEEEeCCChhHHHHHHHHHHHC---CCeEEEecCcC
Confidence 46777888899888654321 122211222222 2579999998753 344555555543 67899888643
Q ss_pred HHHHHHhhhhcCCCCceeecCC-CCCHHHHHHHhhhCCCCccEEEEEccCCCh-------hhHHHHHHhC----CCeeeE
Q 024773 139 ASIFEEVIQSSKCSLDVAFSPS-KATGKILASELPKNGKKKCTVLYPASAKAS-------NEIEEGLSNR----GFEVVR 206 (262)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~-~~t~e~L~~~l~~~~~~g~~vL~~~g~~~~-------~~L~~~L~~~----G~~v~~ 206 (262)
. .. .....+... ...+..+++.|.+... .++++++.|.... .-+.+.+++. ++.+..
T Consensus 90 ~----~~------~~~~~V~~d~~~~g~~~~~~L~~~g~-~~~i~~i~g~~~~~~~~~R~~g~~~~~~~~~~~~~~~~~~ 158 (302)
T TIGR02634 90 N----DA------DIDFYLSFDNEKVGEMQARAVLEAAP-KGNYFLMGGSPTDNNAKLLRGGQMKVLQPAIDSGDIKIVG 158 (302)
T ss_pred C----CC------CccEEEecCHHHHHHHHHHHHHhhCC-CCCEEEEeCCCCCcchHHHHHHHHHHHhhhccCCCeEEec
Confidence 1 11 221122222 2345556666665431 2367777765331 2223345432 232211
Q ss_pred EeeeccccCCCC-hHHHHHHc----CCCCEEEEeCHHHHHHHHHHhcccCC-CCCeEEEE
Q 024773 207 LNTYTTEPVHHV-DQTVLKQA----LSIPVVAVASPSAVRSWVNLISDTEQ-WSNSVACI 260 (262)
Q Consensus 207 i~vY~~~~~~~~-~~~~~~~l----~~~d~ivFtS~s~~~~~~~~~~~~~~-~~~~i~~I 260 (262)
..|........ .+.+.+.+ ..+++|+..+-..+...+..+.+.+. .++.|+++
T Consensus 159 -~~~~~~~~~~~~~~~~~~ll~~~~~~~~aI~~~~D~~A~g~~~al~~~g~~~di~Vvg~ 217 (302)
T TIGR02634 159 -DQWVDGWLPENALRIMENALTANDNKVDAVVASNDATAGGAIQALTAQGLAGKVPISGQ 217 (302)
T ss_pred -CcCCCCCCHHHHHHHHHHHHHhCCCCccEEEECCCchHHHHHHHHHHCCCCCCeEEEcC
Confidence 11111111000 11222223 25899999998888888888877653 34555543
No 140
>PRK07825 short chain dehydrogenase; Provisional
Probab=83.91 E-value=27 Score=30.07 Aligned_cols=81 Identities=17% Similarity=0.056 Sum_probs=48.1
Q ss_pred CCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEE--EeCHHHHHHHHHHHHHc
Q 024773 48 NSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWII--ITSPEAGSVFLEAWKEA 124 (262)
Q Consensus 48 l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~Ii--FTS~~aV~~f~~~l~~~ 124 (262)
+.|++||||..... ...+++.|.+.|+++...- .+.+.+......+....++. ++++.+++.+++.+.+.
T Consensus 3 ~~~~~ilVtGasggiG~~la~~l~~~G~~v~~~~-------r~~~~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~ 75 (273)
T PRK07825 3 LRGKVVAITGGARGIGLATARALAALGARVAIGD-------LDEALAKETAAELGLVVGGPLDVTDPASFAAFLDAVEAD 75 (273)
T ss_pred CCCCEEEEeCCCchHHHHHHHHHHHCCCEEEEEE-------CCHHHHHHHHHHhccceEEEccCCCHHHHHHHHHHHHHH
Confidence 56899999988654 4678888999999865321 12222332222233233332 47888998888877653
Q ss_pred -CCCCcEEEEeC
Q 024773 125 -GTPNVRIGVVG 135 (262)
Q Consensus 125 -~~~~~~i~aVG 135 (262)
+.-+.-|.+.|
T Consensus 76 ~~~id~li~~ag 87 (273)
T PRK07825 76 LGPIDVLVNNAG 87 (273)
T ss_pred cCCCCEEEECCC
Confidence 22234454555
No 141
>PRK15395 methyl-galactoside ABC transporter galactose-binding periplasmic protein MglB; Provisional
Probab=83.55 E-value=33 Score=30.78 Aligned_cols=152 Identities=12% Similarity=0.075 Sum_probs=75.6
Q ss_pred CCccEEEEe--CHHHHHHHHHHHHHcCCCCcEEEEeChhHHH-HHHHhhhhcCCCCceeecCCCCCH-HHHHHHhhhCC-
Q 024773 101 TIFDWIIIT--SPEAGSVFLEAWKEAGTPNVRIGVVGAGTAS-IFEEVIQSSKCSLDVAFSPSKATG-KILASELPKNG- 175 (262)
Q Consensus 101 ~~~d~IiFT--S~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~-~L~~~~~~~~~G~~~~~~p~~~t~-e~L~~~l~~~~- 175 (262)
...|.+|+. ........++.+... ++++++++..... .++.. .....+....+.+ ....+.+.++.
T Consensus 80 ~~vdgiIi~~~~~~~~~~~l~~l~~~---giPvV~vd~~~~~~~~~~~------~~~~~V~~D~~~ag~~a~~~l~~~~~ 150 (330)
T PRK15395 80 KGVKALAINLVDPAAAPTVIEKARGQ---DVPVVFFNKEPSRKALDSY------DKAYYVGTDSKESGIIQGDLIAKHWK 150 (330)
T ss_pred cCCCEEEEeccCHHHHHHHHHHHHHC---CCcEEEEcCCccccccccc------cceeEEccChHHHHHHHHHHHHHHHh
Confidence 579999986 434445444544443 6789999863211 11111 1111122333222 22222233221
Q ss_pred --------CCc-cEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccccCCCCh-HHHHHHcC-----CCCEEE
Q 024773 176 --------KKK-CTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEPVHHVD-QTVLKQAL-----SIPVVA 233 (262)
Q Consensus 176 --------~~g-~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~-~~~~~~l~-----~~d~iv 233 (262)
..| .+++++.|... ..-+.+.|+++|..+.....+......... +.+.+.+. ++++|+
T Consensus 151 ~~~~~~~~~~g~~~i~~i~g~~~~~~~~~R~~G~~~al~~~g~~~~~~~~~~~~~~~~~a~~~~~~~l~~~~~~~~~ai~ 230 (330)
T PRK15395 151 ANPAWDLNKDGKIQYVLLKGEPGHPDAEARTTYVIKELNDKGIKTEQLQLDTAMWDTAQAKDKMDAWLSGPNANKIEVVI 230 (330)
T ss_pred hccccccCCCCceEEEEEecCCCCchHHHHHHHHHHHHHhcCCCeeeeecccCCcCHHHHHHHHHHHHhhCcCCCeeEEE
Confidence 122 34566655432 233456777788766553322221111111 12222222 468888
Q ss_pred EeCHHHHHHHHHHhcccCCCCCeEEEEC
Q 024773 234 VASPSAVRSWVNLISDTEQWSNSVACIA 261 (262)
Q Consensus 234 FtS~s~~~~~~~~~~~~~~~~~~i~~IG 261 (262)
..|...+...++.+++.+..++++++++
T Consensus 231 ~~~d~~A~gvl~al~~~Gl~~vpVvg~D 258 (330)
T PRK15395 231 ANNDAMAMGAVEALKAHNKSSIPVFGVD 258 (330)
T ss_pred ECCchHHHHHHHHHHhcCCCCCeEEeeC
Confidence 8888888888888887654355666654
No 142
>PRK10537 voltage-gated potassium channel; Provisional
Probab=83.20 E-value=12 Score=35.15 Aligned_cols=113 Identities=16% Similarity=0.141 Sum_probs=75.1
Q ss_pred CCeEEEeCCCCChHHHHHHHHhCCCcEEEec-------------eEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHH
Q 024773 50 NPKVVVTRERGKNGKLIKALAKHRIDCLELP-------------LIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSV 116 (262)
Q Consensus 50 g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P-------------~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~ 116 (262)
+.+|+|+....-...+.+.|++.|.++..+- ++.-.+ .+.+.++++ .+++.++++.++.+-.++
T Consensus 240 k~HvII~G~g~lg~~v~~~L~~~g~~vvVId~d~~~~~~~~g~~vI~GD~-td~e~L~~A--gI~~A~aVI~~t~dD~~N 316 (393)
T PRK10537 240 KDHFIICGHSPLAINTYLGLRQRGQAVTVIVPLGLEHRLPDDADLIPGDS-SDSAVLKKA--GAARARAILALRDNDADN 316 (393)
T ss_pred CCeEEEECCChHHHHHHHHHHHCCCCEEEEECchhhhhccCCCcEEEeCC-CCHHHHHhc--CcccCCEEEEcCCChHHH
Confidence 5789999888878889999999988765432 111000 111212211 467899999998887766
Q ss_pred HHHHH--HHcCCCCcEEE--EeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhh
Q 024773 117 FLEAW--KEAGTPNVRIG--VVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELP 172 (262)
Q Consensus 117 f~~~l--~~~~~~~~~i~--aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~ 172 (262)
..-.+ ++.+ ++.+++ +-.+...+.+++. |.+..+.|..-.++.+++.+.
T Consensus 317 l~ivL~ar~l~-p~~kIIa~v~~~~~~~~L~~~------GaD~VIsp~~l~g~~la~~l~ 369 (393)
T PRK10537 317 AFVVLAAKEMS-SDVKTVAAVNDSKNLEKIKRV------HPDMIFSPQLLGSELLARTLN 369 (393)
T ss_pred HHHHHHHHHhC-CCCcEEEEECCHHHHHHHHhc------CCCEEECHHHHHHHHHHHHhc
Confidence 65433 2333 344555 4577888889999 999888887777777776654
No 143
>PRK00107 gidB 16S rRNA methyltransferase GidB; Reviewed
Probab=83.05 E-value=13 Score=30.99 Aligned_cols=53 Identities=17% Similarity=-0.062 Sum_probs=43.8
Q ss_pred CHHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccC
Q 024773 163 TGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPV 215 (262)
Q Consensus 163 t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~ 215 (262)
+.+.+++.+.....+|++++++.+......+.+..+..|..+++.++|+....
T Consensus 123 ~~~~~l~~~~~~LkpGG~lv~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~ 175 (187)
T PRK00107 123 SLSDLVELCLPLLKPGGRFLALKGRDPEEEIAELPKALGGKVEEVIELTLPGL 175 (187)
T ss_pred CHHHHHHHHHHhcCCCeEEEEEeCCChHHHHHHHHHhcCceEeeeEEEecCCC
Confidence 45667777766667889999999998888899999999999999999986543
No 144
>PF03358 FMN_red: NADPH-dependent FMN reductase; InterPro: IPR005025 NADPH-dependent FMN reductase (1.5.1.29 from EC) reduces FMN and also reduces riboflavin and FAD, although more slowly. Members of this entry catalyse the reaction NAD(P)H + FMN = NAD(P)(+) + FMNH(2).; PDB: 3SVL_B 3GFS_F 3GFQ_A 1NNI_1 2GSW_B 3GFR_D 1T0I_B 3D7N_A 2R97_A 3B6K_A ....
Probab=82.79 E-value=4.7 Score=31.78 Aligned_cols=71 Identities=15% Similarity=0.175 Sum_probs=46.6
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCC-----------CchHHHHHHhcCCCccEEEEeCH-------HHHHHHHHHHH--
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGP-----------DTDRLSSVLNADTIFDWIIITSP-------EAGSVFLEAWK-- 122 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~-----------~~~~l~~~l~~l~~~d~IiFTS~-------~aV~~f~~~l~-- 122 (262)
+.+.+.+++.|+++..+.+.+. +.+ ..+.+.+....+..+|.+||-|| ..+++|++.+.
T Consensus 21 ~~~~~~l~~~g~e~~~i~l~~~-~~p~~~~~~~~~~~~~d~~~~~~~~l~~aD~iI~~sP~y~~~~s~~lK~~lD~~~~~ 99 (152)
T PF03358_consen 21 EAVAEQLEEAGAEVEVIDLADY-PLPCCDGDFECPCYIPDDVQELYDKLKEADGIIFASPVYNGSVSGQLKNFLDRLSCW 99 (152)
T ss_dssp HHHHHHHHHTTEEEEEEECTTS-HCHHHHHHHHHTGCTSHHHHHHHHHHHHSSEEEEEEEEBTTBE-HHHHHHHHTHHHT
T ss_pred HHHHHHHHHcCCEEEEEecccc-chhhcccccccccCCcHHHHHHHhceecCCeEEEeecEEcCcCChhhhHHHHHhccc
Confidence 4456666677888887766654 111 12345555666788999999996 57788998886
Q ss_pred -HcCCCCcEEEEe
Q 024773 123 -EAGTPNVRIGVV 134 (262)
Q Consensus 123 -~~~~~~~~i~aV 134 (262)
.....+++++.+
T Consensus 100 ~~~~~~~K~~~~i 112 (152)
T PF03358_consen 100 FRRALRGKPVAII 112 (152)
T ss_dssp HTTTTTTSEEEEE
T ss_pred cccccCCCEEEEE
Confidence 333445555544
No 145
>PRK00257 erythronate-4-phosphate dehydrogenase; Validated
Probab=82.57 E-value=18 Score=33.83 Aligned_cols=160 Identities=13% Similarity=0.059 Sum_probs=89.2
Q ss_pred CeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcE
Q 024773 51 PKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVR 130 (262)
Q Consensus 51 ~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~ 130 (262)
++|++...- ....+.+++.| ++...|--. . .. ..+.++|+++..|..-+.. +.+.. .+.+
T Consensus 1 mkI~~d~~~---p~~~~~~~~~~-~v~~~~~~~---~--~~------~~l~daD~liv~~~t~v~~--~ll~~---~~Lk 60 (381)
T PRK00257 1 MKIVADENI---PLLDAFFAGFG-EIRRLPGRA---F--DR------AAVRDADVLLVRSVTRVDR--ALLEG---SRVR 60 (381)
T ss_pred CEEEEecCc---hhHHHHHhhCC-cEEEcCCcc---c--CH------HHhCCceEEEEeCCCCCCH--HHhcC---CCCe
Confidence 467777544 23345555554 555554211 1 01 1357899988877644432 11221 2455
Q ss_pred EEE---eChh--HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhh----hC------CCCccEEEEEccCCChhhHHH
Q 024773 131 IGV---VGAG--TASIFEEVIQSSKCSLDVAFSPSKATGKILASELP----KN------GKKKCTVLYPASAKASNEIEE 195 (262)
Q Consensus 131 i~a---VG~~--Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~----~~------~~~g~~vL~~~g~~~~~~L~~ 195 (262)
+++ +|-- -.+++++. |+.+.-.| ..++..+++... .. ...|+++.+++-......+.+
T Consensus 61 ~I~~~~~G~D~iD~~~~~~~------gI~v~nap-g~na~aVAE~v~~~lL~l~r~~g~~l~gktvGIIG~G~IG~~va~ 133 (381)
T PRK00257 61 FVGTCTIGTDHLDLDYFAEA------GITWSSAP-GCNARGVVDYVLGSLLTLAEREGVDLAERTYGVVGAGHVGGRLVR 133 (381)
T ss_pred EEEECCccccccCHHHHHHC------CCEEEECC-CcChHHHHHHHHHHHHHHhcccCCCcCcCEEEEECCCHHHHHHHH
Confidence 443 4421 24677888 99876655 345555554422 11 135788888876666667899
Q ss_pred HHHhCCCeeeEEeeeccccC--C--CChHHHHHHcCCCCEEEEeCHHHH
Q 024773 196 GLSNRGFEVVRLNTYTTEPV--H--HVDQTVLKQALSIPVVAVASPSAV 240 (262)
Q Consensus 196 ~L~~~G~~v~~i~vY~~~~~--~--~~~~~~~~~l~~~d~ivFtS~s~~ 240 (262)
.|+..|++| .+|..... . .....+.+.+...|+|++.-|.+-
T Consensus 134 ~l~a~G~~V---~~~Dp~~~~~~~~~~~~~l~ell~~aDiV~lh~Plt~ 179 (381)
T PRK00257 134 VLRGLGWKV---LVCDPPRQEAEGDGDFVSLERILEECDVISLHTPLTK 179 (381)
T ss_pred HHHHCCCEE---EEECCcccccccCccccCHHHHHhhCCEEEEeCcCCC
Confidence 999999876 44442111 0 011123333468999999999754
No 146
>PRK14192 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=82.53 E-value=17 Score=32.53 Aligned_cols=160 Identities=15% Similarity=0.106 Sum_probs=88.9
Q ss_pred eEEEeCCCCChHHH----HHHHHhCCCcEEEeceEEeeeCCCchHHHHHH---hcCCCccEEEEeCHHH--HHH--HHHH
Q 024773 52 KVVVTRERGKNGKL----IKALAKHRIDCLELPLIQHAQGPDTDRLSSVL---NADTIFDWIIITSPEA--GSV--FLEA 120 (262)
Q Consensus 52 ~VLitR~~~~~~~l----~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l---~~l~~~d~IiFTS~~a--V~~--f~~~ 120 (262)
-++....+..+..+ .+.+++.|++....++-+... .+++...+ +..+.++.++.|-|.- +.. +++.
T Consensus 37 ~~i~vg~~~~s~~Y~~~~~~~~~~~Gi~~~~~~l~~~~~---~~~l~~~i~~Ln~d~~v~Gi~VqlPlp~~i~~~~~ld~ 113 (283)
T PRK14192 37 ATILVGDDPASATYVRMKGNACRRVGMDSLKVELPQETT---TEQLLAKIEELNANPDVHGILLQHPVPAQIDERACFDA 113 (283)
T ss_pred EEEEeCCChhHHHHHHHHHHHHHHcCCeEEEEECCCCCC---HHHHHHHHHHHhCCCCCCEEEEeCCCccccCHHHHHhc
Confidence 34444444433333 446677899998887733221 22333343 3445799999999944 322 3333
Q ss_pred HHHc-CCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC--CCccEEEEEccCC-ChhhHHHH
Q 024773 121 WKEA-GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPASAK-ASNEIEEG 196 (262)
Q Consensus 121 l~~~-~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~g~~vL~~~g~~-~~~~L~~~ 196 (262)
+... ..+...-+-.|.-. . |- ..+.| -|..++++.|..+. ..|++++++.... ...-+...
T Consensus 114 I~~aKDVdg~n~~n~G~l~------~------~~-~~~~p--~T~~gii~~L~~~~i~l~Gk~vvViG~gg~vGkpia~~ 178 (283)
T PRK14192 114 ISLAKDVDGVTCLGFGRMA------M------GE-AAYGS--ATPAGIMRLLKAYNIELAGKHAVVVGRSAILGKPMAMM 178 (283)
T ss_pred cCHHHhcCCCCccccCccc------c------CC-CcccC--CcHHHHHHHHHHcCCCCCCCEEEEECCcHHHHHHHHHH
Confidence 3111 11222211233210 1 21 11333 35688888776553 4688888887765 67778888
Q ss_pred HHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCH
Q 024773 197 LSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASP 237 (262)
Q Consensus 197 L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~ 237 (262)
|.+.|++| .++.+.. ..+.+.+.+.|+|+-+.+
T Consensus 179 L~~~gatV---tv~~~~t-----~~L~~~~~~aDIvI~AtG 211 (283)
T PRK14192 179 LLNANATV---TICHSRT-----QNLPELVKQADIIVGAVG 211 (283)
T ss_pred HHhCCCEE---EEEeCCc-----hhHHHHhccCCEEEEccC
Confidence 88888854 3333311 234444578999988884
No 147
>PRK10936 TMAO reductase system periplasmic protein TorT; Provisional
Probab=82.37 E-value=24 Score=31.88 Aligned_cols=192 Identities=11% Similarity=0.033 Sum_probs=87.9
Q ss_pred CCeEEEeCCCCCh-------HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCH--HHHHHHH
Q 024773 50 NPKVVVTRERGKN-------GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSP--EAGSVFL 118 (262)
Q Consensus 50 g~~VLitR~~~~~-------~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~--~aV~~f~ 118 (262)
.++|.+.-+.... .-+.+.++++|+++.....-. ..+.+...+.+.. -.++|+||+.+. ..+....
T Consensus 46 t~~Igvv~p~~~~~f~~~~~~gi~~aa~~~G~~l~i~~~~~---~~~~~~q~~~i~~l~~~~vdgIIl~~~~~~~~~~~l 122 (343)
T PRK10936 46 AWKLCALYPHLKDSYWLSVNYGMVEEAKRLGVDLKVLEAGG---YYNLAKQQQQLEQCVAWGADAILLGAVTPDGLNPDL 122 (343)
T ss_pred CeEEEEEecCCCchHHHHHHHHHHHHHHHhCCEEEEEcCCC---CCCHHHHHHHHHHHHHhCCCEEEEeCCChHHhHHHH
Confidence 4555544444322 234455667888776543210 1111111122221 256999998763 2222222
Q ss_pred HHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCC---CCccEEEEEccCCC-----
Q 024773 119 EAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNG---KKKCTVLYPASAKA----- 189 (262)
Q Consensus 119 ~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~---~~g~~vL~~~g~~~----- 189 (262)
.+.+ .++++++++.... .. +....+.... ..+...++.+.+.. ...++++++.|...
T Consensus 123 -~~~~---~giPvV~~~~~~~----~~------~~~~~V~~D~~~~g~~aa~~L~~~~~~~~g~~~i~~i~g~~~~~~~~ 188 (343)
T PRK10936 123 -ELQA---ANIPVIALVNGID----SP------QVTTRVGVSWYQMGYQAGRYLAQWHPKGSKPLNVALLPGPEGAGGSK 188 (343)
T ss_pred -HHHH---CCCCEEEecCCCC----Cc------cceEEEecChHHHHHHHHHHHHHHHHhcCCCceEEEEECCCCCchHH
Confidence 2332 2578887753221 11 1111122222 22344444454432 12468988887643
Q ss_pred --hhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHc---CCCCEEEEeCHHHHHHHHHHhcccCC-CCCeEEEE
Q 024773 190 --SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA---LSIPVVAVASPSAVRSWVNLISDTEQ-WSNSVACI 260 (262)
Q Consensus 190 --~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l---~~~d~ivFtS~s~~~~~~~~~~~~~~-~~~~i~~I 260 (262)
..-+.+.+++.|+++.. .++.....+.....+.+.+ .++|+|+ .+...+...+..+.+.+. .++.|+++
T Consensus 189 ~R~~Gf~~~l~~~~i~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai~-~~d~~A~ga~~al~~~g~~~di~Vvg~ 263 (343)
T PRK10936 189 AVEQGFRAAIAGSDVRIVD-IAYGDNDKELQRNLLQELLERHPDIDYIA-GSAVAAEAAIGELRGRNLTDKIKLVSF 263 (343)
T ss_pred HHHHHHHHHHhcCCCEEEE-eecCCCcHHHHHHHHHHHHHhCCCccEEE-eCCHHHHHHHHHHHhcCCCCCeEEEEe
Confidence 22345567777776543 1221111111011122222 2578886 555666667777666542 34555543
No 148
>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=81.06 E-value=16 Score=27.30 Aligned_cols=71 Identities=11% Similarity=0.198 Sum_probs=41.2
Q ss_pred EEEEEccCCC-----hhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHHHHHHHHHHhccc-CCC
Q 024773 180 TVLYPASAKA-----SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPSAVRSWVNLISDT-EQW 253 (262)
Q Consensus 180 ~vL~~~g~~~-----~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s~~~~~~~~~~~~-~~~ 253 (262)
++|+.||.+. .+.+.+.++++|.+++-..+-. .++.+.+++.| +++.+|... +.++.+++. ...
T Consensus 2 ~Ill~C~~GaSSs~la~km~~~a~~~gi~~~i~a~~~--------~e~~~~~~~~D-vill~PQv~-~~~~~i~~~~~~~ 71 (99)
T cd05565 2 NVLVLCAGGGTSGLLANALNKGAKERGVPLEAAAGAY--------GSHYDMIPDYD-LVILAPQMA-SYYDELKKDTDRL 71 (99)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHCCCcEEEEEeeH--------HHHHHhccCCC-EEEEcChHH-HHHHHHHHHhhhc
Confidence 5788887765 4566778889998754222211 12333356788 566666554 444444432 234
Q ss_pred CCeEEEE
Q 024773 254 SNSVACI 260 (262)
Q Consensus 254 ~~~i~~I 260 (262)
+++++.|
T Consensus 72 ~ipv~~I 78 (99)
T cd05565 72 GIKLVTT 78 (99)
T ss_pred CCCEEEe
Confidence 6788877
No 149
>PRK14719 bifunctional RNAse/5-amino-6-(5-phosphoribosylamino)uracil reductase; Provisional
Probab=79.40 E-value=17 Score=33.63 Aligned_cols=85 Identities=16% Similarity=0.217 Sum_probs=53.3
Q ss_pred HHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCcee-e-cCCCCCHHHHHHHhhhCCCCccEEEEEc-----cCCCh
Q 024773 118 LEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVA-F-SPSKATGKILASELPKNGKKKCTVLYPA-----SAKAS 190 (262)
Q Consensus 118 ~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~-~-~p~~~t~e~L~~~l~~~~~~g~~vL~~~-----g~~~~ 190 (262)
++.+.+..-.+..|.+=|++-.++|++. |++-. + +...+.. ..++.|.+... ++|++.. |+...
T Consensus 14 ~~~l~~~~~~~~~ilveg~~d~~~l~~l------gi~g~~i~~s~~p~~-~cad~ii~~gi--~rVVi~~D~d~~G~~~~ 84 (360)
T PRK14719 14 IDDLKLLAEKGIPILVEGPNDILSLKNL------KINANFITVSNTPVF-QIADDLIAENI--SEVILLTDFDRAGRVYA 84 (360)
T ss_pred HHHHHHhhhCCCEEEEEcchHHHHHHHc------CCCCcEEEEeCCchH-HHHHHHHHcCC--CEEEEEECCCCCCCccc
Confidence 3334433334789999999999999999 99532 2 2222222 25555554332 5777766 33333
Q ss_pred hhHHHHHHhCCCeeeEEeeeccc
Q 024773 191 NEIEEGLSNRGFEVVRLNTYTTE 213 (262)
Q Consensus 191 ~~L~~~L~~~G~~v~~i~vY~~~ 213 (262)
..+.+.|+++|+.|+ .+.+..
T Consensus 85 ~~~~~~L~~aGi~V~--~~l~~e 105 (360)
T PRK14719 85 KNIMEEFQSRGIKVN--NLIRKE 105 (360)
T ss_pred hHHHHHHHHCCCEEE--eehHHH
Confidence 466899999999994 344533
No 150
>PRK10569 NAD(P)H-dependent FMN reductase; Provisional
Probab=79.32 E-value=8.7 Score=32.15 Aligned_cols=59 Identities=17% Similarity=0.130 Sum_probs=38.7
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeC------CCchHHHHHHhcCCCccEEEEeCH-------HHHHHHHHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQG------PDTDRLSSVLNADTIFDWIIITSP-------EAGSVFLEAWK 122 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~------~~~~~l~~~l~~l~~~d~IiFTS~-------~aV~~f~~~l~ 122 (262)
...+.+++.|.++..+.+++..+. ...+.+.+..+.+...|.|||-|| ...++|++.+.
T Consensus 22 ~~~~~l~~~g~ev~~idL~~l~~~~~~~~~~~~~~~~~~~~~i~~AD~iIi~tP~Y~~s~pg~LKn~iD~l~ 93 (191)
T PRK10569 22 YAREWLNGLGVEVYHWNLQNFAPEDLLYARFDSPALKTFTEQLAQADGLIVATPVYKASFSGALKTLLDLLP 93 (191)
T ss_pred HHHHHHHhCCCEEEEEEccCCChHHHHhccCCCHHHHHHHHHHHHCCEEEEECCccCCCCCHHHHHHHHhCC
Confidence 445566668999988777653220 012345555666788999999998 46677777653
No 151
>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=79.06 E-value=23 Score=25.96 Aligned_cols=63 Identities=11% Similarity=0.084 Sum_probs=38.1
Q ss_pred eEEEeCC-CCChHHHHHHHHhCCCcEEEeceEEeeeCCCc-hHHHHHHhcCCCccEEEEeCHHHHHHHHH
Q 024773 52 KVVVTRE-RGKNGKLIKALAKHRIDCLELPLIQHAQGPDT-DRLSSVLNADTIFDWIIITSPEAGSVFLE 119 (262)
Q Consensus 52 ~VLitR~-~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~-~~l~~~l~~l~~~d~IiFTS~~aV~~f~~ 119 (262)
+||+... +.....+.+.++++|++.... -+-.-.... ..+. ..+.+.|+||+....-=+....
T Consensus 1 ~vliVGG~~~~~~~~~~~~~~~G~~~~~h--g~~~~~~~~~~~l~---~~i~~aD~VIv~t~~vsH~~~~ 65 (97)
T PF10087_consen 1 SVLIVGGREDRERRYKRILEKYGGKLIHH--GRDGGDEKKASRLP---SKIKKADLVIVFTDYVSHNAMW 65 (97)
T ss_pred CEEEEcCCcccHHHHHHHHHHcCCEEEEE--ecCCCCccchhHHH---HhcCCCCEEEEEeCCcChHHHH
Confidence 4677766 345678999999999999988 111111111 1122 2467889988766554444443
No 152
>PF06506 PrpR_N: Propionate catabolism activator; InterPro: IPR010524 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 [, ]. This entry represents a domain found at the N terminus of several sigma54- dependent transcriptional activators including PrpR, which activates catabolism of propionate. In Salmonella enterica subsp. enterica serovar Typhimurium, PrpR acts as a sensor of 2-methylcitrate (2-MC), an intermediate of the 2-methylcitric acid cycle used by this bacterium to convert propionate to pyruvate []. ; GO: 0000156 two-component response regulator activity, 0003677 DNA binding, 0005524 ATP binding, 0000160 two-component signal transduction system (phosphorelay); PDB: 2Q5C_A 2PJU_A.
Probab=79.04 E-value=11 Score=30.92 Aligned_cols=75 Identities=15% Similarity=0.092 Sum_probs=44.8
Q ss_pred CcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHHhCCCeeeEE
Q 024773 128 NVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRL 207 (262)
Q Consensus 128 ~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i 207 (262)
+..++.-...|++.|++++ ++.+.- -..|..++++.+.+....++++.++.....-+.+...-+-.|.++...
T Consensus 34 g~dViIsRG~ta~~lr~~~-----~iPVV~--I~~s~~Dil~al~~a~~~~~~Iavv~~~~~~~~~~~~~~ll~~~i~~~ 106 (176)
T PF06506_consen 34 GADVIISRGGTAELLRKHV-----SIPVVE--IPISGFDILRALAKAKKYGPKIAVVGYPNIIPGLESIEELLGVDIKIY 106 (176)
T ss_dssp T-SEEEEEHHHHHHHHCC------SS-EEE--E---HHHHHHHHHHCCCCTSEEEEEEESS-SCCHHHHHHHHT-EEEEE
T ss_pred CCeEEEECCHHHHHHHHhC-----CCCEEE--ECCCHhHHHHHHHHHHhcCCcEEEEecccccHHHHHHHHHhCCceEEE
Confidence 4555544446999999995 665533 346888999998877666788888887765554444444446665444
Q ss_pred ee
Q 024773 208 NT 209 (262)
Q Consensus 208 ~v 209 (262)
.+
T Consensus 107 ~~ 108 (176)
T PF06506_consen 107 PY 108 (176)
T ss_dssp EE
T ss_pred EE
Confidence 43
No 153
>COG0300 DltE Short-chain dehydrogenases of various substrate specificities [General function prediction only]
Probab=78.40 E-value=13 Score=33.04 Aligned_cols=156 Identities=19% Similarity=0.243 Sum_probs=88.0
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEE----EeCHHHHHHHHHH
Q 024773 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWII----ITSPEAGSVFLEA 120 (262)
Q Consensus 46 ~~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~Ii----FTS~~aV~~f~~~ 120 (262)
.+..++++|||....+ ..++++.|.++|++++-+---+-+ .+++.+.+.+-...++-+ ++.++++..+.+.
T Consensus 2 ~~~~~~~~lITGASsGIG~~~A~~lA~~g~~liLvaR~~~k----L~~la~~l~~~~~v~v~vi~~DLs~~~~~~~l~~~ 77 (265)
T COG0300 2 GPMKGKTALITGASSGIGAELAKQLARRGYNLILVARREDK----LEALAKELEDKTGVEVEVIPADLSDPEALERLEDE 77 (265)
T ss_pred CCCCCcEEEEECCCchHHHHHHHHHHHCCCEEEEEeCcHHH----HHHHHHHHHHhhCceEEEEECcCCChhHHHHHHHH
Confidence 4577999999988776 578999999999998854211100 123333343222222222 5788999988888
Q ss_pred HHHcCCC-CcEEEEeChhHHH--------HHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCC--
Q 024773 121 WKEAGTP-NVRIGVVGAGTAS--------IFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA-- 189 (262)
Q Consensus 121 l~~~~~~-~~~i~aVG~~Ta~--------~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~-- 189 (262)
+...+.+ ++=|-+.|=.+-. ..++. +++.+..-..-...++..|.+ ..++.|+-+.+-.+
T Consensus 78 l~~~~~~IdvLVNNAG~g~~g~f~~~~~~~~~~m-------i~lN~~a~~~LT~~~lp~m~~--~~~G~IiNI~S~ag~~ 148 (265)
T COG0300 78 LKERGGPIDVLVNNAGFGTFGPFLELSLDEEEEM-------IQLNILALTRLTKAVLPGMVE--RGAGHIINIGSAAGLI 148 (265)
T ss_pred HHhcCCcccEEEECCCcCCccchhhCChHHHHHH-------HHHHHHHHHHHHHHHHHHHHh--cCCceEEEEechhhcC
Confidence 7776432 3444444433222 22222 111111101111222223332 23467777777543
Q ss_pred ------------------hhhHHHHHHhCCCeeeEEeeecccc
Q 024773 190 ------------------SNEIEEGLSNRGFEVVRLNTYTTEP 214 (262)
Q Consensus 190 ------------------~~~L~~~L~~~G~~v~~i~vY~~~~ 214 (262)
.+.|..+|+..|..|+.+..+-+..
T Consensus 149 p~p~~avY~ATKa~v~~fSeaL~~EL~~~gV~V~~v~PG~~~T 191 (265)
T COG0300 149 PTPYMAVYSATKAFVLSFSEALREELKGTGVKVTAVCPGPTRT 191 (265)
T ss_pred CCcchHHHHHHHHHHHHHHHHHHHHhcCCCeEEEEEecCcccc
Confidence 5678889999999998888876544
No 154
>PF06180 CbiK: Cobalt chelatase (CbiK); InterPro: IPR010388 This group, typified by Salmonella typhimurium CbiK, contains anaerobic cobalt chelatases that act in the anaerobic cobalamin biosynthesis pathway [, ]. Cobalamin (vitamin B12) can be complexed with metal via ATP-dependent reactions (aerobic pathway) (e.g., in Pseudomonas denitrificans) or via ATP-independent reactions (anaerobic pathway) (e.g., in S. typhimurium) [, ]. The corresponding cobalt chelatases are not homologous. This group belongs to the class of ATP-independent, single-subunit chelatases that also includes distantly related protoporphyrin IX (PPIX) ferrochelatase (HemH) (Class II chelatases) []. The structure of S. typhimurium CbiK shows that it has a remarkably similar topology to Bacillus subtilis ferrochelatase despite only weak sequence conservation []. Both enzymes contain a histidine residue identified as the metal ion ligand, but CbiK contains a second histidine in place of the glutamic acid residue identified as a general base in PPIX ferrochelatase []. Site-directed mutagenesis has confirmed a role for this histidine and a nearby glutamic acid in cobalt binding, modulating metal ion specificity as well as catalytic efficiency []. It should be noted that CysG and Met8p, which are multifunctional proteins associated with siroheme biosynthesis, include chelatase activity and can therefore be considered as the third class of chelatases []. As with the class II chelatases, they do not require ATP for activity. However, they are not structurally similar to HemH or CbiK, and it is likely that they have arisen by the acquisition of a chelatase function within a dehydrogenase catalytic framework [, ].; GO: 0016852 sirohydrochlorin cobaltochelatase activity; PDB: 1QGO_A 2XWP_A 2XVZ_A 2XVX_A 2XVY_A.
Probab=78.16 E-value=9 Score=33.86 Aligned_cols=142 Identities=22% Similarity=0.286 Sum_probs=79.5
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC-CCccEEEEe-----------CHHHHHHHHHHHHHcCC---C
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD-TIFDWIIIT-----------SPEAGSVFLEAWKEAGT---P 127 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l-~~~d~IiFT-----------S~~aV~~f~~~l~~~~~---~ 127 (262)
.+..+.|...|++=+.+.-+.+.|-..++.+....... ..|+-|.+. +..-++.+.+.+...-. .
T Consensus 61 ~eaL~~L~~~G~~~V~VQplhiipG~Ey~~l~~~v~~~~~~F~~i~~g~PLL~~~g~~~~~~D~~~va~aL~~~~~~~~~ 140 (262)
T PF06180_consen 61 EEALAKLADEGYTEVVVQPLHIIPGEEYEKLRATVEAYKHDFKKIVLGRPLLYTMGQENSPEDYEAVAEALAEEFPKKRK 140 (262)
T ss_dssp HHHHHHHHHCT--EEEEEE--SCSSHHHHHHHHHHHHHCCCSSEEEEE--SCSS-----SHHHHHHHHHHHHCCS-TT-T
T ss_pred HHHHHHHHHCCCCEEEEeecceeCcHhHHHHHHHHHHhhccCCeEEecccccccccccCChHHHHHHHHHHHHhccccCC
Confidence 45566777889998888888888765566666655432 356666654 46666777777765422 4
Q ss_pred CcEEEEeChhHH-------HHHHHhhhhcCCCCceeecC---CCCCHHHHHHHhhhCCCCc---cEEEEEccCCChhh--
Q 024773 128 NVRIGVVGAGTA-------SIFEEVIQSSKCSLDVAFSP---SKATGKILASELPKNGKKK---CTVLYPASAKASNE-- 192 (262)
Q Consensus 128 ~~~i~aVG~~Ta-------~~L~~~~~~~~~G~~~~~~p---~~~t~e~L~~~l~~~~~~g---~~vL~~~g~~~~~~-- 192 (262)
+-.++-+|..|. ..|+..++. .|....++. ..++.+.+++.|.+...+. .+++++.|++..++
T Consensus 141 ~~a~vlmGHGt~h~an~~Y~~l~~~l~~--~~~~~v~vgtvEG~P~~~~vi~~L~~~g~k~V~L~PlMlVAGdHa~nDma 218 (262)
T PF06180_consen 141 DEAVVLMGHGTPHPANAAYSALQAMLKK--HGYPNVFVGTVEGYPSLEDVIARLKKKGIKKVHLIPLMLVAGDHAKNDMA 218 (262)
T ss_dssp TEEEEEEE---SCHHHHHHHHHHHHHHC--CT-TTEEEEETTSSSBHHHHHHHHHHHT-SEEEEEEESSS--HHHHCCCC
T ss_pred CCEEEEEeCCCCCCccHHHHHHHHHHHh--CCCCeEEEEEeCCCCCHHHHHHHHHhcCCCeEEEEecccccchhhhhhhc
Confidence 667778887653 333333222 254433332 2468899998888654321 23445567665544
Q ss_pred ------HHHHHHhCCCeeeE
Q 024773 193 ------IEEGLSNRGFEVVR 206 (262)
Q Consensus 193 ------L~~~L~~~G~~v~~ 206 (262)
....|++.|+.|+.
T Consensus 219 Gde~dSWks~L~~~G~~v~~ 238 (262)
T PF06180_consen 219 GDEEDSWKSRLEAAGFEVTC 238 (262)
T ss_dssp SSSTTSHHHHHHHTT-EEEE
T ss_pred CCCcchHHHHHHHCCCEEEE
Confidence 48899999997743
No 155
>PRK09496 trkA potassium transporter peripheral membrane component; Reviewed
Probab=78.07 E-value=61 Score=30.36 Aligned_cols=198 Identities=11% Similarity=0.069 Sum_probs=94.7
Q ss_pred CeEEEeCCCCChHHHHHHHHhCCCcEEEece-------------EEeeeC--CCchHHHHHHhcCCCccEEEEeCHHHHH
Q 024773 51 PKVVVTRERGKNGKLIKALAKHRIDCLELPL-------------IQHAQG--PDTDRLSSVLNADTIFDWIIITSPEAGS 115 (262)
Q Consensus 51 ~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~-------------~~~~~~--~~~~~l~~~l~~l~~~d~IiFTS~~aV~ 115 (262)
|+|++.....-...+.+.|.+.|.++..+-. ++.... .+...+... .+.++|.+++++++-..
T Consensus 1 m~viIiG~G~ig~~~a~~L~~~g~~v~vid~~~~~~~~~~~~~~~~~~~gd~~~~~~l~~~--~~~~a~~vi~~~~~~~~ 78 (453)
T PRK09496 1 MKIIIVGAGQVGYTLAENLSGENNDVTVIDTDEERLRRLQDRLDVRTVVGNGSSPDVLREA--GAEDADLLIAVTDSDET 78 (453)
T ss_pred CEEEEECCCHHHHHHHHHHHhCCCcEEEEECCHHHHHHHHhhcCEEEEEeCCCCHHHHHHc--CCCcCCEEEEecCChHH
Confidence 3566666555556666777766666654311 111111 011111111 35789999998776444
Q ss_pred HHH-H-HHHHcCCCCcEEEEe--ChhH--HHHH---HHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCC------Ccc-
Q 024773 116 VFL-E-AWKEAGTPNVRIGVV--GAGT--ASIF---EEVIQSSKCSLDVAFSPSKATGKILASELPKNGK------KKC- 179 (262)
Q Consensus 116 ~f~-~-~l~~~~~~~~~i~aV--G~~T--a~~L---~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~------~g~- 179 (262)
+.. . .+.... ...++++. .+.. ...+ ++. |....+.|..-.+..++..+..... .+.
T Consensus 79 n~~~~~~~r~~~-~~~~ii~~~~~~~~~~~~~l~~~~~~------G~~~vi~p~~~~a~~l~~~l~~~~~~~~~~~~~~~ 151 (453)
T PRK09496 79 NMVACQIAKSLF-GAPTTIARVRNPEYAEYDKLFSKEAL------GIDLLISPELLVAREIARLIEYPGALDVEEFADGR 151 (453)
T ss_pred HHHHHHHHHHhc-CCCeEEEEECCccccchhhhhhhhcC------CccEEECHHHHHHHHHHHHhcCCCceEeeeecCCe
Confidence 432 2 222321 23444443 2322 2333 667 9987777877677777765542210 111
Q ss_pred -EEE--EEccC--CChhhHHHHH---HhCCCeeeEEeeeccccCCCChHHHHHHcC-CCCEEEEeCHHHHHHHHHHhccc
Q 024773 180 -TVL--YPASA--KASNEIEEGL---SNRGFEVVRLNTYTTEPVHHVDQTVLKQAL-SIPVVAVASPSAVRSWVNLISDT 250 (262)
Q Consensus 180 -~vL--~~~g~--~~~~~L~~~L---~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~-~~d~ivFtS~s~~~~~~~~~~~~ 250 (262)
.+. .+..+ .....+.+.- ...|+.+ +.+++.........+ ..+. +--.++...+..++.+.+.+...
T Consensus 152 ~~i~e~~V~~~s~~~g~~l~~l~~~~~~~~~~v--i~i~r~~~~~~p~~~--~~l~~gD~l~v~g~~~~l~~~~~~~~~~ 227 (453)
T PRK09496 152 VQLVEVKVYEGSPLVGKPLSDLREHFPDIDVRV--VAIFRGGRLIIPRGD--TVIEAGDEVYFIGAREHIRAVMSEFGRL 227 (453)
T ss_pred EEEEEEEeCCCCccCCcCHHHhhhhcCCCceEE--EEEEECCEEEcCCCC--cEecCCCEEEEEeCHHHHHHHHHHhCcc
Confidence 111 11111 1112233322 2355555 444443211111111 1133 44445567788888888888764
Q ss_pred CCCCCeEEEEC
Q 024773 251 EQWSNSVACIA 261 (262)
Q Consensus 251 ~~~~~~i~~IG 261 (262)
.....+++.+|
T Consensus 228 ~~~~~~iiIiG 238 (453)
T PRK09496 228 EKPVKRVMIVG 238 (453)
T ss_pred CCCCCEEEEEC
Confidence 44456677776
No 156
>cd01965 Nitrogenase_MoFe_beta_like Nitrogenase_MoFe_beta_like: Nitrogenase MoFe protein, beta subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. This group contains the beta subunits of component 1 of the three known genetically distinct types of nitrogenase systems: a molybdenum-dependent nitrogenase (Mo-nitrogenase), a vanadium-dependent nitrogenase (V-nitrogenase), and an iron-only nitrogenase (Fe-nitrogenase). These nitrogenase systems consist of component 1 (MoFe protein, VFe protein or, FeFe protein respectively) and, component 2 (Fe protein). The most widespread and best characterized of these systems is the Mo-nitrogenase. MoFe is an alpha2beta2 tetramer, the alternative nitrogenases are alpha2beta2delta2 hexamers having alpha and beta subunits similar to the alpha and beta subunits of MoFe. For MoFe, each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (Fe
Probab=77.82 E-value=63 Score=30.40 Aligned_cols=142 Identities=14% Similarity=0.101 Sum_probs=79.2
Q ss_pred ChHHHHHHHHhCCCcEEEeceEEe------------eeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHH-cCCC
Q 024773 61 KNGKLIKALAKHRIDCLELPLIQH------------AQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKE-AGTP 127 (262)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~P~~~~------------~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~-~~~~ 127 (262)
+..++.+.|++.|+++..+|.... .+..+ ..++ .+.++++...-+..++..-..+.+.+++ .+.+
T Consensus 170 d~~el~~lL~~~Gl~v~~~~~~s~~~d~~~~~~~~~~~~gg-~~~e-~i~~~~~A~lniv~~~~~~~~~a~~L~e~~GiP 247 (428)
T cd01965 170 DVREIKRILEAFGLEPIILPDLSDSLDGHLTDGYSPLTKGG-TTLE-EIRDAGNAKATIALGEYSGRKAAKALEEKFGVP 247 (428)
T ss_pred CHHHHHHHHHHcCCCEEEecCcccccCCCCCCCccccCCCC-CcHH-HHHHhccCcEEEEEChhhhHHHHHHHHHHHCCC
Confidence 368999999999999998876411 11111 1222 2346677888888888544555666654 4433
Q ss_pred CcEEE-EeCh-hHHHHHHHhhhhcCCCCceeecCCCCC--HHHHHHHhhhC--CCCccEEEEEccCCChhhHHHHHHhCC
Q 024773 128 NVRIG-VVGA-GTASIFEEVIQSSKCSLDVAFSPSKAT--GKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSNRG 201 (262)
Q Consensus 128 ~~~i~-aVG~-~Ta~~L~~~~~~~~~G~~~~~~p~~~t--~e~L~~~l~~~--~~~g~~vL~~~g~~~~~~L~~~L~~~G 201 (262)
-...- -+|. .|.+.|++..+. .|... |+... -+.+++.+.+. ...|+|+.+..+....-.|...|.+.|
T Consensus 248 ~~~~~~p~G~~~t~~~l~~l~~~--~g~~~---~~~~~~~r~~~~~~~~~~~~~l~gk~v~i~~~~~~~~~l~~~L~e~G 322 (428)
T cd01965 248 YILFPTPIGLKATDEFLRALSKL--SGKPI---PEELERERGRLLDAMLDSHFYLGGKRVAIAGDPDLLLGLSRFLLEMG 322 (428)
T ss_pred eeecCCCcChHHHHHHHHHHHHH--HCCCC---CHHHHHHHHHHHHHHHHHHHHhcCCEEEEEcChHHHHHHHHHHHHcC
Confidence 22211 3553 344444444110 15432 21100 11122222211 135789988876655666889999999
Q ss_pred CeeeEEee
Q 024773 202 FEVVRLNT 209 (262)
Q Consensus 202 ~~v~~i~v 209 (262)
..|..+.+
T Consensus 323 ~~v~~v~~ 330 (428)
T cd01965 323 AEPVAAVT 330 (428)
T ss_pred CcceEEEE
Confidence 99866655
No 157
>PRK09496 trkA potassium transporter peripheral membrane component; Reviewed
Probab=77.63 E-value=24 Score=33.05 Aligned_cols=117 Identities=19% Similarity=0.187 Sum_probs=69.4
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEece--------------EEeeeC--CCchHHHHHHhcCCCccEEEEeCH
Q 024773 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPL--------------IQHAQG--PDTDRLSSVLNADTIFDWIIITSP 111 (262)
Q Consensus 48 l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~--------------~~~~~~--~~~~~l~~~l~~l~~~d~IiFTS~ 111 (262)
...++|+|.....-...+.+.|.+.|.++..+-. +..... .+.+.+.+ ..+.++|+++.+++
T Consensus 229 ~~~~~iiIiG~G~~g~~l~~~L~~~~~~v~vid~~~~~~~~~~~~~~~~~~i~gd~~~~~~L~~--~~~~~a~~vi~~~~ 306 (453)
T PRK09496 229 KPVKRVMIVGGGNIGYYLAKLLEKEGYSVKLIERDPERAEELAEELPNTLVLHGDGTDQELLEE--EGIDEADAFIALTN 306 (453)
T ss_pred CCCCEEEEECCCHHHHHHHHHHHhCCCeEEEEECCHHHHHHHHHHCCCCeEEECCCCCHHHHHh--cCCccCCEEEECCC
Confidence 4578899998877778899999999988865511 111111 11111211 14578999999887
Q ss_pred HHHHHHHHHH--HHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhh
Q 024773 112 EAGSVFLEAW--KEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELP 172 (262)
Q Consensus 112 ~aV~~f~~~l--~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~ 172 (262)
+.-.+..-.+ ...+...+-+-+--+.-.+.++.. |....+.|+...+..+++.+.
T Consensus 307 ~~~~n~~~~~~~~~~~~~~ii~~~~~~~~~~~~~~~------g~~~vi~p~~~~~~~~~~~~~ 363 (453)
T PRK09496 307 DDEANILSSLLAKRLGAKKVIALVNRPAYVDLVEGL------GIDIAISPRQATASEILRHVR 363 (453)
T ss_pred CcHHHHHHHHHHHHhCCCeEEEEECCcchHHHHHhc------CCCEEECHHHHHHHHHHHHhh
Confidence 6544443322 333333222234455556778877 998777776655666655443
No 158
>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=77.33 E-value=42 Score=28.10 Aligned_cols=91 Identities=21% Similarity=0.270 Sum_probs=57.1
Q ss_pred CCeEEEeCCCCCh-----HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH-----HHHHHHHH
Q 024773 50 NPKVVVTRERGKN-----GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP-----EAGSVFLE 119 (262)
Q Consensus 50 g~~VLitR~~~~~-----~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~-----~aV~~f~~ 119 (262)
+.+|++.....+. .-....|+..|++|+++.. -.| .+++.+.+. -.++|.|.+++. ..++.+.+
T Consensus 82 ~~~vl~~~~~gd~H~lG~~~v~~~l~~~G~~vi~lG~--~~p---~~~l~~~~~-~~~~d~v~lS~~~~~~~~~~~~~i~ 155 (201)
T cd02070 82 KGKVVIGTVEGDIHDIGKNLVATMLEANGFEVIDLGR--DVP---PEEFVEAVK-EHKPDILGLSALMTTTMGGMKEVIE 155 (201)
T ss_pred CCeEEEEecCCccchHHHHHHHHHHHHCCCEEEECCC--CCC---HHHHHHHHH-HcCCCEEEEeccccccHHHHHHHHH
Confidence 5677777665433 3356688899999987751 111 244445543 357888877663 34455556
Q ss_pred HHHHcCC-CCcEEEEeChhHHHHHHHhh
Q 024773 120 AWKEAGT-PNVRIGVVGAGTASIFEEVI 146 (262)
Q Consensus 120 ~l~~~~~-~~~~i~aVG~~Ta~~L~~~~ 146 (262)
.+.+.+. ++++|++-|......+.+.+
T Consensus 156 ~lr~~~~~~~~~i~vGG~~~~~~~~~~~ 183 (201)
T cd02070 156 ALKEAGLRDKVKVMVGGAPVNQEFADEI 183 (201)
T ss_pred HHHHCCCCcCCeEEEECCcCCHHHHHHc
Confidence 6666543 47899999977766666663
No 159
>TIGR01285 nifN nitrogenase molybdenum-iron cofactor biosynthesis protein NifN. This protein forms a complex with NifE, and appears as a NifEN in some species. NifEN is a required for producing the molybdenum-iron cofactor of molybdenum-requiring nitrogenases. NifN is closely related to the nitrogenase molybdenum-iron protein beta chain NifK. This model describes most examples of NifN but excludes some cases, such as the putative NifN of Chlorobium tepidum, for which a separate model may be created.
Probab=77.16 E-value=66 Score=30.46 Aligned_cols=144 Identities=12% Similarity=0.103 Sum_probs=81.6
Q ss_pred CChHHHHHHHHhCCCcEEEeceEE-------------eeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-C
Q 024773 60 GKNGKLIKALAKHRIDCLELPLIQ-------------HAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-G 125 (262)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~P~~~-------------~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~-~ 125 (262)
.+..++.+.|++.|+++..+|=+. ..+..+ ..++ .+..+.+...-+..++.+ ....+.+++. +
T Consensus 181 ~d~~elk~lL~~~Gl~~~~l~d~s~~ld~~~~~~~~~~~~~gg-~t~e-ei~~~~~A~lniv~~~~~-~~~a~~Lee~~g 257 (432)
T TIGR01285 181 GDIEELRRMVEAFGLKPIILPDLSRSLDGHLADDDFSPITQGG-TTLE-QIRQIGQSCCTLAIGESM-RRAASLLADRCG 257 (432)
T ss_pred cCHHHHHHHHHHcCCceEEecccccccCCCCCCCccceeCCCC-CcHH-HHHhhccCcEEEEEChhH-HHHHHHHHHHHC
Confidence 456899999999999998776332 111111 1122 233556666666667765 5666767653 4
Q ss_pred CCCcEE-EEeCh-hHHHHHHHhhhhcCCCCceeecCCCC--CHHHHHHHhhhC--CCCccEEEEEccCCChhhHHHHHHh
Q 024773 126 TPNVRI-GVVGA-GTASIFEEVIQSSKCSLDVAFSPSKA--TGKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSN 199 (262)
Q Consensus 126 ~~~~~i-~aVG~-~Ta~~L~~~~~~~~~G~~~~~~p~~~--t~e~L~~~l~~~--~~~g~~vL~~~g~~~~~~L~~~L~~ 199 (262)
.+-... .-+|- .|.+.|++..+ +.|..+ |+.. .-+-+.+.+.+. ...|+|+.+..+....-.+...|.+
T Consensus 258 iP~~~~~~p~G~~~t~~~l~~l~~--~~g~~~---~~~~~~~r~~~~~~l~~~~~~l~Gkrvai~~~~~~~~~l~~~l~e 332 (432)
T TIGR01285 258 VPYIVFPSLMGLEAVDAFLHVLMK--ISGRAV---PERFERQRRQLQDAMLDTHFFLGGKKVAIAAEPDLLAAWATFFTS 332 (432)
T ss_pred CCeEecCCCcChHHHHHHHHHHHH--HHCCCc---cHHHHHHHHHHHHHHHHHHHhhCCCEEEEEcCHHHHHHHHHHHHH
Confidence 432222 13565 45555665521 115432 2111 111233333322 1357888877766555788999999
Q ss_pred CCCeeeEEeeec
Q 024773 200 RGFEVVRLNTYT 211 (262)
Q Consensus 200 ~G~~v~~i~vY~ 211 (262)
.|+.+..+.++.
T Consensus 333 lGm~v~~~~~~~ 344 (432)
T TIGR01285 333 MGAQIVAAVTTT 344 (432)
T ss_pred CCCEEEEEEeCC
Confidence 999998777763
No 160
>TIGR03566 FMN_reduc_MsuE FMN reductase, MsuE subfamily. Members of this protein family use NAD(P)H to reduce FMN and regenerate FMNH2. Members include the NADH-dependent enzyme MsuE from Pseudomonas aeruginosa, which serves as a partner to an FMNH2-dependent alkanesulfonate monooxygenase. The NADP-dependent enzyme from E. coli is outside the scope of this model.
Probab=77.13 E-value=13 Score=30.31 Aligned_cols=39 Identities=18% Similarity=0.279 Sum_probs=25.8
Q ss_pred HHHHHcCCCCEEEEeCH-------HHHHHHHHHhcccCCCCCeEEE
Q 024773 221 TVLKQALSIPVVAVASP-------SAVRSWVNLISDTEQWSNSVAC 259 (262)
Q Consensus 221 ~~~~~l~~~d~ivFtS~-------s~~~~~~~~~~~~~~~~~~i~~ 259 (262)
++.+.+...|+|+|.|| ...++|++.+....+.+.+++.
T Consensus 61 ~~~~~i~~AD~iIi~tP~Y~~s~~~~LKn~lD~~~~~~l~~K~~~~ 106 (174)
T TIGR03566 61 RILQAIESADLLVVGSPVYRGSYTGLFKHLFDLVDPNALIGKPVLL 106 (174)
T ss_pred HHHHHHHHCCEEEEECCcCcCcCcHHHHHHHHhcCHhHhCCCEEEE
Confidence 34555668999999998 5778888876532234444443
No 161
>PRK04017 hypothetical protein; Provisional
Probab=76.68 E-value=22 Score=28.07 Aligned_cols=82 Identities=16% Similarity=0.182 Sum_probs=50.5
Q ss_pred HHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecC-CCCCHHHHHHHhhhCCCCccEEEEEcc-C----C
Q 024773 115 SVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSP-SKATGKILASELPKNGKKKCTVLYPAS-A----K 188 (262)
Q Consensus 115 ~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p-~~~t~e~L~~~l~~~~~~g~~vL~~~g-~----~ 188 (262)
..+.+.|.+....+..|++=|+.-.++|++. |+..++.. .......+.+.+.. .++.|+++.- + .
T Consensus 10 ~e~i~~L~e~s~~g~vIVVEGk~D~~~L~~l------Gv~~~iI~t~g~~~~~~~e~ia~---~~r~VIILTD~D~~Gek 80 (132)
T PRK04017 10 EEIIEELKEFSEAGAPIIVEGKRDVESLRKL------GVEGEIIKVSRTPLAEIAELIAS---RGKEVIILTDFDRKGEE 80 (132)
T ss_pred HHHHHHHHHhcCCCCEEEEeCccHHHHHHHc------CCCccEEEECCeecchHHHHHHh---cCCeEEEEECCCcchHH
Confidence 4455556665555688999999999999999 99765443 22222333333422 3355555543 3 3
Q ss_pred ChhhHHHHHHhCCCeee
Q 024773 189 ASNEIEEGLSNRGFEVV 205 (262)
Q Consensus 189 ~~~~L~~~L~~~G~~v~ 205 (262)
-+..+.+.|+..|+.|+
T Consensus 81 Ir~~l~~~l~~~G~~vd 97 (132)
T PRK04017 81 LAKKLSEYLQGYGIKVD 97 (132)
T ss_pred HHHHHHHHHHhCCCCcc
Confidence 35556777888887664
No 162
>PRK02910 light-independent protochlorophyllide reductase subunit B; Provisional
Probab=76.09 E-value=80 Score=30.71 Aligned_cols=142 Identities=23% Similarity=0.134 Sum_probs=81.1
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CCCCcEEEEeCh-h
Q 024773 60 GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GTPNVRIGVVGA-G 137 (262)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~-~~~~~~i~aVG~-~ 137 (262)
.+-.++.+.|+..|++|..++... ...+ .+.++.+.+.-|..++..-..+.+.|++. +.+-+...=+|- .
T Consensus 175 ~D~~EikrlL~~~Gi~vn~v~p~g----~s~~----di~~l~~A~~nivl~~~~g~~~A~~Lee~fGiP~i~~~PiG~~~ 246 (519)
T PRK02910 175 DDLTELRRLLATLGIDVNVVAPLG----ASPA----DLKRLPAAWFNVVLYREIGESAARYLEREFGQPYVKTVPIGVGA 246 (519)
T ss_pred hHHHHHHHHHHHcCCeEEEEeCCC----CCHH----HHHhcccCcEEEEeCHHHHHHHHHHHHHHhCCcccccccccHHH
Confidence 445789999999999998764211 1222 24467788888888887666777777654 333333344663 4
Q ss_pred HHHHHHHhhhhcCCCCceeecCCCCCHHH------H--HHHhh-hCCCCccEEEEEccCCChhhHHHHHH-hCCCeeeEE
Q 024773 138 TASIFEEVIQSSKCSLDVAFSPSKATGKI------L--ASELP-KNGKKKCTVLYPASAKASNEIEEGLS-NRGFEVVRL 207 (262)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~------L--~~~l~-~~~~~g~~vL~~~g~~~~~~L~~~L~-~~G~~v~~i 207 (262)
|.+-|++..+. .|...... +.+-.+. + ...+. .....|+|+.+..+....-.+...|. +.|++|..+
T Consensus 247 T~~fL~~la~~--~g~~~~~~-e~~i~~~~~~~~~l~~~~~~~d~~~l~Gkrv~I~gd~~~a~~l~~~L~~ElGm~vv~~ 323 (519)
T PRK02910 247 TARFIREVAEL--LNLDGADL-EAFILDGLSAPSRLPWFSRSVDSTYLTGKRVFVFGDATHAVAAARILSDELGFEVVGA 323 (519)
T ss_pred HHHHHHHHHHH--hCCChhhh-HHHHHHHHhhhhhhhHHHHhhhhHhhcCCEEEEEcCcHHHHHHHHHHHHhcCCeEEEE
Confidence 55555554211 15432100 0000000 0 11111 11225789888877666667888887 799999777
Q ss_pred eeecc
Q 024773 208 NTYTT 212 (262)
Q Consensus 208 ~vY~~ 212 (262)
..|..
T Consensus 324 gt~~~ 328 (519)
T PRK02910 324 GTYLR 328 (519)
T ss_pred ecCCc
Confidence 66654
No 163
>PF13377 Peripla_BP_3: Periplasmic binding protein-like domain; PDB: 3K9C_B 3BIL_B 3JVD_B 1ZAY_A 1VPW_A 1DBQ_A 2PUA_A 1QQA_A 1PNR_A 1JHZ_A ....
Probab=75.69 E-value=14 Score=28.71 Aligned_cols=84 Identities=10% Similarity=0.103 Sum_probs=54.0
Q ss_pred ccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcC--CCCEEEEeCHHHHHHHHHHhc
Q 024773 178 KCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQAL--SIPVVAVASPSAVRSWVNLIS 248 (262)
Q Consensus 178 g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~--~~d~ivFtS~s~~~~~~~~~~ 248 (262)
.++++++.+... ..-+.+.+++.|..+....+................++ ..|+|+..+...+-.++..+.
T Consensus 9 ~r~i~~i~~~~~~~~~~~r~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~pdaii~~~~~~a~~~~~~l~ 88 (160)
T PF13377_consen 9 HRRIAFIGGPPNSSVSRERLEGFREALKEHGIEFEELIFFSDDDSEDAREAQLLWLRRLRPDAIICSNDRLALGVLRALR 88 (160)
T ss_dssp -SSEEEEESSTTSHHHHHHHHHHHHHHHHTTSEEEGEEEEESSSHHHHHHHHHHHHHTCSSSEEEESSHHHHHHHHHHHH
T ss_pred CCeEEEEecCCCChhHHHHHHHHHHHHHHCCCCCCeeEeecCCcchhHHHHHHHHHhcCCCcEEEEcCHHHHHHHHHHHH
Confidence 367888875543 33356688889988766555443322211111111122 669999999999999999998
Q ss_pred ccC---CCCCeEEEEC
Q 024773 249 DTE---QWSNSVACIA 261 (262)
Q Consensus 249 ~~~---~~~~~i~~IG 261 (262)
+.+ ..++.|++++
T Consensus 89 ~~g~~vP~di~vv~~~ 104 (160)
T PF13377_consen 89 ELGIRVPQDISVVSFD 104 (160)
T ss_dssp HTTSCTTTTSEEEEES
T ss_pred HcCCcccccccEEEec
Confidence 765 4688998886
No 164
>PRK13982 bifunctional SbtC-like/phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Provisional
Probab=75.46 E-value=6.7 Score=37.69 Aligned_cols=85 Identities=9% Similarity=0.078 Sum_probs=49.1
Q ss_pred CCCCCccchhccccccccC--CCCCCCeEEEeCCC-----------------CChHHHHHHHHhCCCcEEEec--e----
Q 024773 27 PLPFQFSRIQASSDATSAS--ASNSNPKVVVTRER-----------------GKNGKLIKALAKHRIDCLELP--L---- 81 (262)
Q Consensus 27 ~~~~~~~~~~~~~~~~~~~--~~l~g~~VLitR~~-----------------~~~~~l~~~L~~~G~~v~~~P--~---- 81 (262)
+++++-...+.+...++.. .+|.|++||||-+. ...-.+++.+..+|++|..+- +
T Consensus 231 rm~e~~~I~~~v~~~~~~~~~~~l~gkkvLITaGpT~E~IDpVR~ItN~SSGkmG~alA~aa~~~GA~VtlI~Gp~~~~~ 310 (475)
T PRK13982 231 RMAEPLEIAAAAEALLRPPQPKPLAGRRVLITAGPTHEPIDPVRYIANRSSGKQGFAIAAAAAAAGAEVTLISGPVDLAD 310 (475)
T ss_pred CCCCHHHHHHHHHHHHhhccccccCCCEEEEecCCccccCCcceeeCCCCchHHHHHHHHHHHHCCCcEEEEeCCcCCCC
Confidence 4555544444433222221 56999999999764 123578889999999998752 1
Q ss_pred ---EEeeeCCCchHHHHHHhcCCCccEEEEeCH
Q 024773 82 ---IQHAQGPDTDRLSSVLNADTIFDWIIITSP 111 (262)
Q Consensus 82 ---~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~ 111 (262)
+++.+.....++.+.+.+.-.+|++|++-+
T Consensus 311 p~~v~~i~V~ta~eM~~av~~~~~~Di~I~aAA 343 (475)
T PRK13982 311 PQGVKVIHVESARQMLAAVEAALPADIAIFAAA 343 (475)
T ss_pred CCCceEEEecCHHHHHHHHHhhCCCCEEEEecc
Confidence 122333334455555544334777776543
No 165
>cd06167 LabA_like LabA_like proteins. A well conserved group of bacterial proteins with no defined function. LabA, a member from Synechococcus elongatus PCC 7942, has been shown to play a role in cyanobacterial circadian timing. It is required for negative feedback regulation of the autokinase/autophosphatase KaiC, a central component of the circadian clock system. In particular, LabA seems necessary for KaiC-dependent repression of gene expression.
Probab=74.68 E-value=10 Score=29.75 Aligned_cols=82 Identities=21% Similarity=0.280 Sum_probs=47.6
Q ss_pred ChHHHHHHHHhCCCcEEEeceEE--eee-CCCchHHHHHHhc--CCCccEEEEeCHHH-HHHHHHHHHHcCCCCcEEEEe
Q 024773 61 KNGKLIKALAKHRIDCLELPLIQ--HAQ-GPDTDRLSSVLNA--DTIFDWIIITSPEA-GSVFLEAWKEAGTPNVRIGVV 134 (262)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~P~~~--~~~-~~~~~~l~~~l~~--l~~~d~IiFTS~~a-V~~f~~~l~~~~~~~~~i~aV 134 (262)
....+.+.|+..|+++...|... ... ..|..-....+.. ...+|.+++-|.-+ .-..++.+.+. ++++.++
T Consensus 53 ~~~~~~~~L~~~g~~~~~~~~~~~~~~~~~~D~~l~~d~~~~~~~~~~d~ivLvSgD~Df~~~i~~lr~~---G~~V~v~ 129 (149)
T cd06167 53 RQRGFLDALRRLGFEPIQKPLRTRGSGKKGVDVALAIDALELAYKRRIDTIVLVSGDSDFVPLVERLREL---GKRVIVV 129 (149)
T ss_pred hHHHHHHHHHHCCcEEEEEcceecCCcccCccHHHHHHHHHHhhhcCCCEEEEEECCccHHHHHHHHHHc---CCEEEEE
Confidence 46789999999999999999874 222 2232211111211 13578877777755 22223333333 5566666
Q ss_pred Ch--hHHHHHHHh
Q 024773 135 GA--GTASIFEEV 145 (262)
Q Consensus 135 G~--~Ta~~L~~~ 145 (262)
|. .+...|++.
T Consensus 130 ~~~~~~s~~L~~~ 142 (149)
T cd06167 130 GFEAKTSRELRKA 142 (149)
T ss_pred ccCccChHHHHHh
Confidence 55 566777665
No 166
>PRK05872 short chain dehydrogenase; Provisional
Probab=74.05 E-value=62 Score=28.46 Aligned_cols=83 Identities=18% Similarity=0.063 Sum_probs=49.7
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC-CccE----EEEeCHHHHHHHHH
Q 024773 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT-IFDW----IIITSPEAGSVFLE 119 (262)
Q Consensus 46 ~~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~-~~d~----IiFTS~~aV~~f~~ 119 (262)
.++.|++||||..... ...+++.|.+.|++|...- + +.+.++.....++ ..++ .=+|+..+++.+++
T Consensus 5 ~~l~gk~vlItGas~gIG~~ia~~l~~~G~~V~~~~--r-----~~~~l~~~~~~l~~~~~~~~~~~Dv~d~~~v~~~~~ 77 (296)
T PRK05872 5 TSLAGKVVVVTGAARGIGAELARRLHARGAKLALVD--L-----EEAELAALAAELGGDDRVLTVVADVTDLAAMQAAAE 77 (296)
T ss_pred CCCCCCEEEEECCCchHHHHHHHHHHHCCCEEEEEe--C-----CHHHHHHHHHHhcCCCcEEEEEecCCCHHHHHHHHH
Confidence 4578999999987654 4678999999999765431 1 2222333322232 2222 22578888888887
Q ss_pred HHHHc-CCCCcEEEEeC
Q 024773 120 AWKEA-GTPNVRIGVVG 135 (262)
Q Consensus 120 ~l~~~-~~~~~~i~aVG 135 (262)
.+.+. +.-+.-|.+.|
T Consensus 78 ~~~~~~g~id~vI~nAG 94 (296)
T PRK05872 78 EAVERFGGIDVVVANAG 94 (296)
T ss_pred HHHHHcCCCCEEEECCC
Confidence 76543 32244455555
No 167
>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure. Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.
Probab=74.04 E-value=34 Score=25.95 Aligned_cols=68 Identities=13% Similarity=0.207 Sum_probs=50.9
Q ss_pred hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH----HHHHHHHHHHHHcCCCCcEEEEeChh
Q 024773 62 NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP----EAGSVFLEAWKEAGTPNVRIGVVGAG 137 (262)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~----~aV~~f~~~l~~~~~~~~~i~aVG~~ 137 (262)
...+.+.|++.|++++.. .+.+.....+....++.+|+++-- .....+++.+...+ .++||+.+++.
T Consensus 6 ~~~l~~~L~~~~~~vv~~--------~~~dd~~~~i~~~~~i~avvi~~d~~~~~~~~~ll~~i~~~~-~~iPVFl~~~~ 76 (115)
T PF03709_consen 6 SRELAEALEQRGREVVDA--------DSTDDALAIIESFTDIAAVVISWDGEEEDEAQELLDKIRERN-FGIPVFLLAER 76 (115)
T ss_dssp HHHHHHHHHHTTTEEEEE--------SSHHHHHHHHHCTTTEEEEEEECHHHHHHHHHHHHHHHHHHS-TT-EEEEEESC
T ss_pred HHHHHHHHHHCCCEEEEe--------CChHHHHHHHHhCCCeeEEEEEcccccchhHHHHHHHHHHhC-CCCCEEEEecC
Confidence 467889999999888754 344556667777889999999988 66667777776654 47899999984
Q ss_pred H
Q 024773 138 T 138 (262)
Q Consensus 138 T 138 (262)
+
T Consensus 77 ~ 77 (115)
T PF03709_consen 77 D 77 (115)
T ss_dssp C
T ss_pred C
Confidence 4
No 168
>PRK12480 D-lactate dehydrogenase; Provisional
Probab=73.87 E-value=71 Score=29.09 Aligned_cols=171 Identities=9% Similarity=0.068 Sum_probs=90.6
Q ss_pred CeEEEeCCCCChHH-HHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHH-HHHHHHHHHcCCCC
Q 024773 51 PKVVVTRERGKNGK-LIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAG-SVFLEAWKEAGTPN 128 (262)
Q Consensus 51 ~~VLitR~~~~~~~-l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV-~~f~~~l~~~~~~~ 128 (262)
++|++...+..... ..+.++++|+++...+. +. + ++. +..+.++|++++.....+ +.+++.+.+. +
T Consensus 2 ~~i~~~~~~~~e~~~~~~~~~~~~~~~~~~~~----~~-~-~~~---~~~~~~~d~ii~~~~~~~~~~~l~~~~~~---~ 69 (330)
T PRK12480 2 TKIMFFGTRDYEKEMALNWGKKNNVEVTTSKE----LL-S-SAT---VDQLKDYDGVTTMQFGKLENDVYPKLESY---G 69 (330)
T ss_pred cEEEEEeCcHHHHHHHHHHHHhcCeEEEEcCC----CC-C-HHH---HHHhCCCCEEEEecCCCCCHHHHHhhhhc---C
Confidence 57777766554444 44566777766655332 22 1 222 334678998876532112 2233433322 3
Q ss_pred cEEEE---eChh--HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHh------------------hh----C-------
Q 024773 129 VRIGV---VGAG--TASIFEEVIQSSKCSLDVAFSPSKATGKILASEL------------------PK----N------- 174 (262)
Q Consensus 129 ~~i~a---VG~~--Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l------------------~~----~------- 174 (262)
+++++ +|-- -.+++++. |+.+.-.|. ++++.+++.. .+ +
T Consensus 70 Lk~I~~~~~G~d~id~~~~~~~------gI~v~n~~~-~~~~~vAE~~~~l~L~~~R~~~~~~~~~~~~~~~w~~~~~~~ 142 (330)
T PRK12480 70 IKQIAQRTAGFDMYDLDLAKKH------NIVISNVPS-YSPETIAEYSVSIALQLVRRFPDIERRVQAHDFTWQAEIMSK 142 (330)
T ss_pred ceEEEecccccchhhHHHHHHC------CCEEEeCCC-CChHHHHHHHHHHHHHHHHhHHHHHHHHHhCCcccccccCcc
Confidence 44332 3322 23456677 888766553 3433333211 00 0
Q ss_pred CCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCC--ChHHHHHHcCCCCEEEEeCHHHH
Q 024773 175 GKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHH--VDQTVLKQALSIPVVAVASPSAV 240 (262)
Q Consensus 175 ~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~--~~~~~~~~l~~~d~ivFtS~s~~ 240 (262)
...|+++.+++.......+...|...|++|.-+..+....... ....+.+.+...|+|++.-|.+.
T Consensus 143 ~l~g~~VgIIG~G~IG~~vA~~L~~~G~~V~~~d~~~~~~~~~~~~~~~l~ell~~aDiVil~lP~t~ 210 (330)
T PRK12480 143 PVKNMTVAIIGTGRIGAATAKIYAGFGATITAYDAYPNKDLDFLTYKDSVKEAIKDADIISLHVPANK 210 (330)
T ss_pred ccCCCEEEEECCCHHHHHHHHHHHhCCCEEEEEeCChhHhhhhhhccCCHHHHHhcCCEEEEeCCCcH
Confidence 1245677777766666788999999998764443332111110 00123334568999999999775
No 169
>PRK14191 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=73.24 E-value=48 Score=29.73 Aligned_cols=161 Identities=19% Similarity=0.156 Sum_probs=87.2
Q ss_pred eEEEeCCCCChHHHH----HHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc---CCCccEEEEeCHHH--H--HHHHHH
Q 024773 52 KVVVTRERGKNGKLI----KALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA---DTIFDWIIITSPEA--G--SVFLEA 120 (262)
Q Consensus 52 ~VLitR~~~~~~~l~----~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~---l~~~d~IiFTS~~a--V--~~f~~~ 120 (262)
-++....+..+..+. +..++.|+++..+-+-+. ...+++...+.+ ....|.|+.--|-- + +..++.
T Consensus 35 aiI~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~---~~~~el~~~I~~lN~D~~V~GIlvq~PlP~~i~~~~i~~~ 111 (285)
T PRK14191 35 AVILVGKDPASQTYVNMKIKACERVGMDSDLHTLQEN---TTEAELLSLIKDLNTDQNIDGILVQLPLPRHIDTKMVLEA 111 (285)
T ss_pred EEEEeCCCHHHHHHHHHHHHHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCCHHHHHhc
Confidence 344444444443333 345567887765533221 123445555544 46789999988732 1 112222
Q ss_pred HHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC--CCccEEEEEccC-CChhhHHHHH
Q 024773 121 WKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPASA-KASNEIEEGL 197 (262)
Q Consensus 121 l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~g~~vL~~~g~-~~~~~L~~~L 197 (262)
+. +...|=++.+.-...|- . |-. .+.| .|+.+.++.|..+. ..|++++++... ....-+...|
T Consensus 112 I~----p~KDVDGl~~~n~g~l~-~------g~~-~~~P--cTp~avi~lL~~~~i~l~Gk~vvVvGrs~~VG~Pla~lL 177 (285)
T PRK14191 112 ID----PNKDVDGFHPLNIGKLC-S------QLD-GFVP--ATPMGVMRLLKHYHIEIKGKDVVIIGASNIVGKPLAMLM 177 (285)
T ss_pred CC----ccccccccChhhHHHHh-c------CCC-CCCC--CcHHHHHHHHHHhCCCCCCCEEEEECCCchhHHHHHHHH
Confidence 21 12223333333333332 2 432 2444 48888888777553 368888877665 6667788889
Q ss_pred HhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCH
Q 024773 198 SNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASP 237 (262)
Q Consensus 198 ~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~ 237 (262)
.++|+.|+-+- .. . ..+.+.+...|+|+-..+
T Consensus 178 ~~~gAtVtv~h--s~-----t-~~l~~~~~~ADIvV~AvG 209 (285)
T PRK14191 178 LNAGASVSVCH--IL-----T-KDLSFYTQNADIVCVGVG 209 (285)
T ss_pred HHCCCEEEEEe--CC-----c-HHHHHHHHhCCEEEEecC
Confidence 89999886442 11 1 123334467888887654
No 170
>PF13458 Peripla_BP_6: Periplasmic binding protein; PDB: 4EVS_A 4EY3_A 4EYG_B 4EYK_A 3H5L_B 3TD9_A 3EAF_A 1Z18_A 1Z17_A 2LIV_A ....
Probab=73.21 E-value=65 Score=28.38 Aligned_cols=137 Identities=17% Similarity=0.127 Sum_probs=76.8
Q ss_pred CCccEEEEe-CHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCc
Q 024773 101 TIFDWIIIT-SPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKK 178 (262)
Q Consensus 101 ~~~d~IiFT-S~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g 178 (262)
.+.+.|+-. +..........+.+. +++++..+..+.. ... .....+.|.. .....+++.+.+.. ..
T Consensus 68 ~~v~~vvg~~~s~~~~~~~~~~~~~---~ip~i~~~~~~~~--~~~------~~~f~~~~~~~~~~~~~~~~~~~~~-g~ 135 (343)
T PF13458_consen 68 DGVDAVVGPLSSAQAEAVAPIAEEA---GIPYISPSASSPS--PDS------PNVFRLSPSDSQQAAALAEYLAKKL-GA 135 (343)
T ss_dssp STESEEEESSSHHHHHHHHHHHHHH---T-EEEESSGGGGT--TTH------TTEEESS--HHHHHHHHHHHHHHTT-TT
T ss_pred cCcEEEEecCCcHHHHHHHHHHHhc---CcEEEEeeccCCC--CCC------CcEEEEeccccHHHHHHHHHHHHHc-CC
Confidence 678888775 666667777777765 4566664433321 112 2222223322 34566666655432 24
Q ss_pred cEEEEEccCC-----ChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHc--CCCCEEEE-eCHHHHHHHHHHhccc
Q 024773 179 CTVLYPASAK-----ASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAV-ASPSAVRSWVNLISDT 250 (262)
Q Consensus 179 ~~vL~~~g~~-----~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l--~~~d~ivF-tS~s~~~~~~~~~~~~ 250 (262)
+++.++..+. ..+.+.+.+++.|.++.....|.... .....+.+.+ .+.|+|++ ..+...-.|++.+.+.
T Consensus 136 ~~v~iv~~~~~~g~~~~~~~~~~~~~~G~~vv~~~~~~~~~--~d~~~~~~~l~~~~~d~v~~~~~~~~~~~~~~~~~~~ 213 (343)
T PF13458_consen 136 KKVAIVYPDDPYGRSLAEAFRKALEAAGGKVVGEIRYPPGD--TDFSALVQQLKSAGPDVVVLAGDPADAAAFLRQLRQL 213 (343)
T ss_dssp SEEEEEEESSHHHHHHHHHHHHHHHHTTCEEEEEEEE-TTS--SHHHHHHHHHHHTTTSEEEEESTHHHHHHHHHHHHHT
T ss_pred cEEEEEecCchhhhHHHHHHHHHHhhcCceeccceeccccc--ccchHHHHHHhhcCCCEEEEeccchhHHHHHHHHHhh
Confidence 7887776654 25567889999999864444444222 2222333334 37887666 4666678888887664
Q ss_pred C
Q 024773 251 E 251 (262)
Q Consensus 251 ~ 251 (262)
.
T Consensus 214 ~ 214 (343)
T PF13458_consen 214 G 214 (343)
T ss_dssp T
T ss_pred c
Confidence 3
No 171
>TIGR03567 FMN_reduc_SsuE FMN reductase, SsuE family. Members of this protein family use NAD(P)H to reduce FMN and regenerate FMNH2. Members include the homodimeric, NAD(P)H-dependent enzyme SsuE from Escherichia coli, which serves as a partner to an FMNH2-dependent alkanesulfonate monooxygenase. It is induced by sulfate starvation. The NADH-dependent enzyme MsuE from Pseudomonas aeruginosa is outside the scope of this model (see model TIGR03566).
Probab=72.85 E-value=12 Score=30.52 Aligned_cols=69 Identities=10% Similarity=0.098 Sum_probs=41.0
Q ss_pred HHHHHHhCCCcEEEeceEEeee--C----CCchHHHHHHhcCCCccEEEEeCH-------HHHHHHHHHHHHcCCCCcEE
Q 024773 65 LIKALAKHRIDCLELPLIQHAQ--G----PDTDRLSSVLNADTIFDWIIITSP-------EAGSVFLEAWKEAGTPNVRI 131 (262)
Q Consensus 65 l~~~L~~~G~~v~~~P~~~~~~--~----~~~~~l~~~l~~l~~~d~IiFTS~-------~aV~~f~~~l~~~~~~~~~i 131 (262)
+.+.+++.|.++..+-+.+.-. . ...+.+....+++...|.|||.|| ...++|++.+....+.++++
T Consensus 22 ~~~~l~~~~~~~~~idl~~l~~~~~~~~~~~~~~~~~l~~~i~~AD~iI~~sP~Y~~sip~~LK~~iD~~~~~~l~~K~v 101 (171)
T TIGR03567 22 VREALQEQGVEVDHLSVRDLPAEDLLFARFDSPAIKAATAQVAQADGVVVATPVYKASYSGVLKALLDLLPQRALRGKVV 101 (171)
T ss_pred HHHHHHHCCCeEEEEEecCCChHHhhhcCCCCHHHHHHHHHHHHCCEEEEECCcccCCCCHHHHHHHHhCChhhhCCCEE
Confidence 4555666788776665544211 0 012345556666788999999998 46677777654333344444
Q ss_pred EE
Q 024773 132 GV 133 (262)
Q Consensus 132 ~a 133 (262)
..
T Consensus 102 ~~ 103 (171)
T TIGR03567 102 LP 103 (171)
T ss_pred EE
Confidence 43
No 172
>PRK06756 flavodoxin; Provisional
Probab=72.74 E-value=16 Score=28.78 Aligned_cols=12 Identities=8% Similarity=0.216 Sum_probs=5.5
Q ss_pred CCCHHHHHHHhh
Q 024773 161 KATGKILASELP 172 (262)
Q Consensus 161 ~~t~e~L~~~l~ 172 (262)
..+.+.+++.|.
T Consensus 12 tGnTe~vA~~ia 23 (148)
T PRK06756 12 SGNTEEMADHIA 23 (148)
T ss_pred CchHHHHHHHHH
Confidence 344444444443
No 173
>PLN02516 methylenetetrahydrofolate dehydrogenase (NADP+)
Probab=72.55 E-value=69 Score=28.91 Aligned_cols=163 Identities=16% Similarity=0.093 Sum_probs=87.7
Q ss_pred EEEeCCCCChHHHHH----HHHhCCCcEEEeceEEeeeCCCchHHHHHHh---cCCCccEEEEeCHHH--HH--HHHHHH
Q 024773 53 VVVTRERGKNGKLIK----ALAKHRIDCLELPLIQHAQGPDTDRLSSVLN---ADTIFDWIIITSPEA--GS--VFLEAW 121 (262)
Q Consensus 53 VLitR~~~~~~~l~~----~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~---~l~~~d~IiFTS~~a--V~--~f~~~l 121 (262)
++....+..+..+.+ ..++.|+++..+-+-+.. ..+++.+.+. +..+.|.|++--|-- ++ ..++.+
T Consensus 44 iI~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~~---s~~el~~~I~~lN~D~~V~GIlvq~PlP~~id~~~i~~~I 120 (299)
T PLN02516 44 VVIVGSRKDSQTYVNMKRKACAEVGIKSFDVDLPENI---SEAELISKVHELNANPDVHGILVQLPLPKHINEEKILNEI 120 (299)
T ss_pred EEEECCChhHHHHHHHHHHHHHHcCCEEEEEECCCCC---CHHHHHHHHHHHhCCCCCCeEEEecCCCCCcCHHHHHhcc
Confidence 444444444444443 456779887765442221 2234444443 446789999987732 21 122222
Q ss_pred HHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC--CCccEEEE-EccCCChhhHHHHHH
Q 024773 122 KEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLY-PASAKASNEIEEGLS 198 (262)
Q Consensus 122 ~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~g~~vL~-~~g~~~~~~L~~~L~ 198 (262)
. +.+.|=++.+.-...|-.- |....+.| .|+.+.++.|..+. ..|+++++ =||+....-|...|.
T Consensus 121 ~----p~KDVDGl~~~n~g~l~~~------~~~~~~~P--cTp~avi~lL~~~~i~l~Gk~vvVIGRS~iVGkPla~lL~ 188 (299)
T PLN02516 121 S----LEKDVDGFHPLNIGKLAMK------GREPLFLP--CTPKGCLELLSRSGIPIKGKKAVVVGRSNIVGLPVSLLLL 188 (299)
T ss_pred C----cccccCccCHhhHhhHhcC------CCCCCCCC--CCHHHHHHHHHHhCCCCCCCEEEEECCCccchHHHHHHHH
Confidence 1 1223334444433333211 21222444 47888888777553 45777554 466777778999999
Q ss_pred hCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHH
Q 024773 199 NRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPS 238 (262)
Q Consensus 199 ~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s 238 (262)
++|++|+-+--.+ .. +.+...+.|+|+-.-+.
T Consensus 189 ~~~ATVtvchs~T-----~n---l~~~~~~ADIvv~AvGk 220 (299)
T PLN02516 189 KADATVTVVHSRT-----PD---PESIVREADIVIAAAGQ 220 (299)
T ss_pred HCCCEEEEeCCCC-----CC---HHHHHhhCCEEEEcCCC
Confidence 9998886553321 11 22223578888877655
No 174
>PRK08410 2-hydroxyacid dehydrogenase; Provisional
Probab=72.00 E-value=60 Score=29.26 Aligned_cols=62 Identities=11% Similarity=0.077 Sum_probs=39.5
Q ss_pred CccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCC----ChHHHHHHcCCCCEEEEeCHHHHH
Q 024773 177 KKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHH----VDQTVLKQALSIPVVAVASPSAVR 241 (262)
Q Consensus 177 ~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~----~~~~~~~~l~~~d~ivFtS~s~~~ 241 (262)
.|+++.+++-......+.+.++.-|++|. .|....... ...++.+.+...|+|++.-|.+-+
T Consensus 144 ~gktvGIiG~G~IG~~vA~~~~~fgm~V~---~~d~~~~~~~~~~~~~~l~ell~~sDvv~lh~Plt~~ 209 (311)
T PRK08410 144 KGKKWGIIGLGTIGKRVAKIAQAFGAKVV---YYSTSGKNKNEEYERVSLEELLKTSDIISIHAPLNEK 209 (311)
T ss_pred CCCEEEEECCCHHHHHHHHHHhhcCCEEE---EECCCccccccCceeecHHHHhhcCCEEEEeCCCCch
Confidence 56777777766556678889998888664 454322111 011344445689999999886644
No 175
>PRK01175 phosphoribosylformylglycinamidine synthase I; Provisional
Probab=71.47 E-value=40 Score=29.76 Aligned_cols=91 Identities=15% Similarity=0.149 Sum_probs=55.8
Q ss_pred CCCeEEEeCCCCC--hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHH-H----------
Q 024773 49 SNPKVVVTRERGK--NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAG-S---------- 115 (262)
Q Consensus 49 ~g~~VLitR~~~~--~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV-~---------- 115 (262)
.++||.|.+.... ..+..+.|++.|+++..+++.... +.. ..+.+||.|+|.-..+. +
T Consensus 2 ~~~kvaVl~~pG~n~d~e~~~Al~~aG~~v~~v~~~~~~---~~~------~~l~~~DgLvipGGfs~gD~l~~g~~~~~ 72 (261)
T PRK01175 2 ESIRVAVLRMEGTNCEDETVKAFRRLGVEPEYVHINDLA---AER------KSVSDYDCLVIPGGFSAGDYIRAGAIFAA 72 (261)
T ss_pred CCCEEEEEeCCCCCCHHHHHHHHHHCCCcEEEEeecccc---ccc------cchhhCCEEEECCCCCcccccccchhhHH
Confidence 4577887776543 456789999999999887764321 100 13577999999876211 1
Q ss_pred HHH----HHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCce
Q 024773 116 VFL----EAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDV 155 (262)
Q Consensus 116 ~f~----~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~ 155 (262)
.+. +.+.+.-..+.+++.|... .+.|-+. |+-+
T Consensus 73 ~l~~~l~~~Ik~f~~~gkpVLGICnG-~QlLa~~------GlLp 109 (261)
T PRK01175 73 RLKAVLRKDIEEFIDEGYPIIGICNG-FQVLVEL------GLLP 109 (261)
T ss_pred HHHHHHHHHHHHHHHCCCeEEEECHH-HHHHHHC------CCCC
Confidence 111 2222222246789888864 5678778 8754
No 176
>PF00148 Oxidored_nitro: Nitrogenase component 1 type Oxidoreductase; InterPro: IPR000510 Enzymes belonging to this family include cofactor-requiring nitrogenases and protochlorophyllide reductase. The key enzymatic reactions in nitrogen fixation are catalysed by the nitrogenase complex, which has two components, the iron protein (component 2), and a component (component 1) which is either a molybdenum-iron, vanadium-iron or iron-iron protein. The enzyme (1.18.6.1 from EC) forms a hexamer of two alpha, two beta and two delta chains. Protochlorophyllide reductase (1.3.1.33 from EC) is involved in the light-dependent accumulation of chlorophyll, probably at the step of reduction of protochlorophyllide to chlorophyllide.; GO: 0016491 oxidoreductase activity, 0055114 oxidation-reduction process; PDB: 1QH1_C 1QH8_A 1H1L_C 1QGU_A 3AEK_C 3AET_C 3AER_C 3AEU_A 3AES_C 3AEQ_C ....
Probab=71.42 E-value=11 Score=35.02 Aligned_cols=153 Identities=14% Similarity=0.096 Sum_probs=85.5
Q ss_pred CCCCeEEEeCC--C--CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHH
Q 024773 48 NSNPKVVVTRE--R--GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKE 123 (262)
Q Consensus 48 l~g~~VLitR~--~--~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~ 123 (262)
...++|-+... . .+..++.+.|++.|+++..++.-. ...++ +.++.+.+.-+..++.+-..+.+.+++
T Consensus 142 ~~~~~VNiiG~~~~~~~d~~el~~lL~~~Gi~v~~~~~~~----~t~~e----~~~~~~A~lniv~~~~~~~~~a~~L~e 213 (398)
T PF00148_consen 142 KKPRSVNIIGGSPLGPGDLEELKRLLEELGIEVNAVFPGG----TTLEE----IRKAPEAALNIVLCPEGGPYAAEWLEE 213 (398)
T ss_dssp TSSSEEEEEEESTBTHHHHHHHHHHHHHTTEEEEEEEETT----BCHHH----HHHGGGSSEEEESSCCHHHHHHHHHHH
T ss_pred CCCCceEEecCcCCCcccHHHHHHHHHHCCCceEEEeCCC----CCHHH----HHhCCcCcEEEEeccchhhHHHHHHHH
Confidence 33456665432 2 255789999999999776553211 12232 345678889999999977767777766
Q ss_pred cCCCCcEEEE----eChh-HHHHHHHhhhhcCCCCceeecCCC--CCHHHHHHHhhhC--CCCccEEEEEccCCChhhHH
Q 024773 124 AGTPNVRIGV----VGAG-TASIFEEVIQSSKCSLDVAFSPSK--ATGKILASELPKN--GKKKCTVLYPASAKASNEIE 194 (262)
Q Consensus 124 ~~~~~~~i~a----VG~~-Ta~~L~~~~~~~~~G~~~~~~p~~--~t~e~L~~~l~~~--~~~g~~vL~~~g~~~~~~L~ 194 (262)
.. +++++. +|.. |.+-+++.... -|... .++. ..-+...+.+.+. ...|+++++..+....-.|.
T Consensus 214 ~~--giP~~~~~~p~G~~~t~~~l~~i~~~--lg~~~--~~~~i~~~~~~~~~~l~~~~~~l~g~~v~i~~~~~~~~~l~ 287 (398)
T PF00148_consen 214 RF--GIPYLYFPSPYGIEGTDAWLRAIAEA--LGKPI--AEAEIAEERERAEDALADYRERLGGKRVAIYGDPDRALGLA 287 (398)
T ss_dssp HH--T-EEEEEC-SBSHHHHHHHHHHHHHH--HTHHH--HHHHHHHHHHHHHHHHHHHHHHHTT-EEEEESSHHHHHHHH
T ss_pred Hh--CCCeeeccccccHHHHHHHHHHHHHH--hCCch--hhHHHHHHHHHHHHHHHhhHHhhcCceEEEEcCchhHHHHH
Confidence 41 233333 4543 34444443100 04111 0100 0001122222221 11468998888877778899
Q ss_pred HHHHhCCCeeeEEeeecccc
Q 024773 195 EGLSNRGFEVVRLNTYTTEP 214 (262)
Q Consensus 195 ~~L~~~G~~v~~i~vY~~~~ 214 (262)
..|.+.|+++..+.++....
T Consensus 288 ~~L~elG~~v~~v~~~~~~~ 307 (398)
T PF00148_consen 288 RFLEELGMEVVAVGCDDKSP 307 (398)
T ss_dssp HHHHHTT-EEEEEEESSGGH
T ss_pred HHHHHcCCeEEEEEEccCch
Confidence 99999999998888877643
No 177
>TIGR01753 flav_short flavodoxin, short chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the short chain type. Many of these are involved in sulfite reduction.
Probab=70.85 E-value=13 Score=28.57 Aligned_cols=62 Identities=10% Similarity=0.180 Sum_probs=36.3
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH---------HHHHHHHHHHHcCCCCcEEEE
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE---------AGSVFLEAWKEAGTPNVRIGV 133 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~---------aV~~f~~~l~~~~~~~~~i~a 133 (262)
+.+.+.+.+.|+++..+++-+.. .. .+..+|.|+|-||. .+..|++.+......+.++++
T Consensus 17 ~~i~~~~~~~g~~v~~~~~~~~~----~~-------~l~~~d~iilgspty~~g~~p~~~~~~f~~~l~~~~~~gk~~~v 85 (140)
T TIGR01753 17 NIIAEGLKEAGAEVDLLEVADAD----AE-------DLLSYDAVLLGCSTWGDEDLEQDDFEPFFEELEDIDLGGKKVAL 85 (140)
T ss_pred HHHHHHHHhcCCeEEEEEcccCC----HH-------HHhcCCEEEEEcCCCCCCCCCcchHHHHHHHhhhCCCCCCEEEE
Confidence 34555666678887655443221 11 23569999998876 224566666554445666666
Q ss_pred eC
Q 024773 134 VG 135 (262)
Q Consensus 134 VG 135 (262)
+|
T Consensus 86 fg 87 (140)
T TIGR01753 86 FG 87 (140)
T ss_pred Ee
Confidence 66
No 178
>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=70.07 E-value=29 Score=25.90 Aligned_cols=87 Identities=20% Similarity=0.079 Sum_probs=52.2
Q ss_pred hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeC--HHHHHHHHHHHHH--cCCCCcEEEEeChh
Q 024773 62 NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITS--PEAGSVFLEAWKE--AGTPNVRIGVVGAG 137 (262)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS--~~aV~~f~~~l~~--~~~~~~~i~aVG~~ 137 (262)
-..+...|++.|++|..+.... +.+++.+.+.+ .++|.|.|++ ........+.++. ...++.++++-|+.
T Consensus 17 l~~la~~l~~~G~~v~~~d~~~-----~~~~l~~~~~~-~~pd~V~iS~~~~~~~~~~~~l~~~~k~~~p~~~iv~GG~~ 90 (121)
T PF02310_consen 17 LLYLAAYLRKAGHEVDILDANV-----PPEELVEALRA-ERPDVVGISVSMTPNLPEAKRLARAIKERNPNIPIVVGGPH 90 (121)
T ss_dssp HHHHHHHHHHTTBEEEEEESSB------HHHHHHHHHH-TTCSEEEEEESSSTHHHHHHHHHHHHHTTCTTSEEEEEESS
T ss_pred HHHHHHHHHHCCCeEEEECCCC-----CHHHHHHHHhc-CCCcEEEEEccCcCcHHHHHHHHHHHHhcCCCCEEEEECCc
Confidence 4678899999999988663311 12455555544 4799999986 3333333333322 23357889998876
Q ss_pred H----HHHHHH-hhhhcCCCCceeecCC
Q 024773 138 T----ASIFEE-VIQSSKCSLDVAFSPS 160 (262)
Q Consensus 138 T----a~~L~~-~~~~~~~G~~~~~~p~ 160 (262)
. .+.|++ . |+...+..+
T Consensus 91 ~t~~~~~~l~~~~------~~D~vv~Ge 112 (121)
T PF02310_consen 91 ATADPEEILREYP------GIDYVVRGE 112 (121)
T ss_dssp SGHHHHHHHHHHH------TSEEEEEET
T ss_pred hhcChHHHhccCc------CcceecCCC
Confidence 2 233444 5 777655544
No 179
>PRK08415 enoyl-(acyl carrier protein) reductase; Provisional
Probab=70.05 E-value=74 Score=27.71 Aligned_cols=72 Identities=11% Similarity=0.045 Sum_probs=44.1
Q ss_pred CCCCeEEEeCCC---CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEE---EeCHHHHHHHHHHH
Q 024773 48 NSNPKVVVTRER---GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWII---ITSPEAGSVFLEAW 121 (262)
Q Consensus 48 l~g~~VLitR~~---~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~Ii---FTS~~aV~~f~~~l 121 (262)
+.||.+|||... .=...+++.|.+.|++|+.. .+... ..+.+++....++.- ..+ +|+..+++.+++.+
T Consensus 3 l~~k~~lItGas~~~GIG~aiA~~la~~G~~Vil~--~r~~~--~~~~~~~~~~~~~~~-~~~~~Dv~d~~~v~~~~~~i 77 (274)
T PRK08415 3 MKGKKGLIVGVANNKSIAYGIAKACFEQGAELAFT--YLNEA--LKKRVEPIAQELGSD-YVYELDVSKPEHFKSLAESL 77 (274)
T ss_pred cCCcEEEEECCCCCCCHHHHHHHHHHHCCCEEEEE--ecCHH--HHHHHHHHHHhcCCc-eEEEecCCCHHHHHHHHHHH
Confidence 568999999874 33678999999999987643 22111 112222222223221 222 68889999998887
Q ss_pred HHc
Q 024773 122 KEA 124 (262)
Q Consensus 122 ~~~ 124 (262)
.+.
T Consensus 78 ~~~ 80 (274)
T PRK08415 78 KKD 80 (274)
T ss_pred HHH
Confidence 553
No 180
>PRK12481 2-deoxy-D-gluconate 3-dehydrogenase; Provisional
Probab=69.85 E-value=69 Score=27.25 Aligned_cols=72 Identities=13% Similarity=0.065 Sum_probs=45.0
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC-CccE--EEEeCHHHHHHHHHHH
Q 024773 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT-IFDW--IIITSPEAGSVFLEAW 121 (262)
Q Consensus 46 ~~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~-~~d~--IiFTS~~aV~~f~~~l 121 (262)
..+.||++|||..... ...+++.|.+.|++|...- + . ..+...+.++..+ ++.+ +=+|+..+++.+++.+
T Consensus 4 ~~l~~k~~lItGas~gIG~aia~~l~~~G~~vv~~~--~-~---~~~~~~~~~~~~~~~~~~~~~Dl~~~~~~~~~~~~~ 77 (251)
T PRK12481 4 FDLNGKVAIITGCNTGLGQGMAIGLAKAGADIVGVG--V-A---EAPETQAQVEALGRKFHFITADLIQQKDIDSIVSQA 77 (251)
T ss_pred cccCCCEEEEeCCCchHHHHHHHHHHHCCCEEEEec--C-c---hHHHHHHHHHHcCCeEEEEEeCCCCHHHHHHHHHHH
Confidence 3577999999988765 4679999999999987531 1 1 1122223332222 2222 2257899999888876
Q ss_pred HH
Q 024773 122 KE 123 (262)
Q Consensus 122 ~~ 123 (262)
.+
T Consensus 78 ~~ 79 (251)
T PRK12481 78 VE 79 (251)
T ss_pred HH
Confidence 44
No 181
>COG0647 NagD Predicted sugar phosphatases of the HAD superfamily [Carbohydrate transport and metabolism]
Probab=69.01 E-value=34 Score=30.39 Aligned_cols=84 Identities=17% Similarity=0.191 Sum_probs=55.7
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC---CccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeCh
Q 024773 60 GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT---IFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGA 136 (262)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~---~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~ 136 (262)
.++.+..+.|+++|..++.+ +..+....+.+.+.|..+. --.--|+||..+...++.... +..+||.||+
T Consensus 27 pga~e~l~~L~~~g~~~ifl---TNn~~~s~~~~~~~L~~~~~~~~~~~~i~TS~~at~~~l~~~~----~~~kv~viG~ 99 (269)
T COG0647 27 PGAAEALKRLKAAGKPVIFL---TNNSTRSREVVAARLSSLGGVDVTPDDIVTSGDATADYLAKQK----PGKKVYVIGE 99 (269)
T ss_pred chHHHHHHHHHHcCCeEEEE---eCCCCCCHHHHHHHHHhhcCCCCCHHHeecHHHHHHHHHHhhC----CCCEEEEECC
Confidence 46788899999999877755 3444333333455554422 223368899999888776432 2479999998
Q ss_pred hHH-HHHHHhhhhcCCCCcee
Q 024773 137 GTA-SIFEEVIQSSKCSLDVA 156 (262)
Q Consensus 137 ~Ta-~~L~~~~~~~~~G~~~~ 156 (262)
.-- +.|+.. |+...
T Consensus 100 ~~l~~~l~~~------G~~~~ 114 (269)
T COG0647 100 EGLKEELEGA------GFELV 114 (269)
T ss_pred cchHHHHHhC------CcEEe
Confidence 766 777777 87653
No 182
>PRK06703 flavodoxin; Provisional
Probab=68.60 E-value=15 Score=29.05 Aligned_cols=62 Identities=16% Similarity=0.159 Sum_probs=36.3
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH--------HHHHHHHHHHHHcCCCCcEEEEeC
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP--------EAGSVFLEAWKEAGTPNVRIGVVG 135 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~--------~aV~~f~~~l~~~~~~~~~i~aVG 135 (262)
.+++.|...|.++....+-+. +. ..+.++|.|+|-|+ ..+..|+..+......+.+++++|
T Consensus 21 ~ia~~l~~~g~~v~~~~~~~~----~~-------~~l~~~d~viigspt~~~g~~p~~~~~f~~~l~~~~l~~k~~~vfg 89 (151)
T PRK06703 21 LIKVSLDAFDHEVVLQEMDGM----DA-------EELLAYDGIILGSYTWGDGDLPYEAEDFHEDLENIDLSGKKVAVFG 89 (151)
T ss_pred HHHHHHHhcCCceEEEehhhC----CH-------HHHhcCCcEEEEECCCCCCcCcHHHHHHHHHHhcCCCCCCEEEEEc
Confidence 444556667777665443221 11 12467899999664 246777776654444566777776
Q ss_pred h
Q 024773 136 A 136 (262)
Q Consensus 136 ~ 136 (262)
-
T Consensus 90 ~ 90 (151)
T PRK06703 90 S 90 (151)
T ss_pred c
Confidence 3
No 183
>cd06268 PBP1_ABC_transporter_LIVBP_like Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. Periplasmic binding domain of ATP-binding cassette transporter-like systems that belong to the type I periplasmic binding fold protein superfamily. They are mostly present in archaea and eubacteria, and are primarily involved in scavenging solutes from the environment. ABC-type transporters couple ATP hydrolysis with the uptake and efflux of a wide range of substrates across bacterial membranes, including amino acids, peptides, lipids and sterols, and various drugs. These systems are comprised of transmembrane domains, nucleotide binding domains, and in most bacterial uptake systems, periplasmic binding proteins (PBPs) which transfer the ligand to the extracellular gate of the transmembrane domains. These PBPs bind their substrates selectively and with high affinity. Members of this group include ABC
Probab=67.75 E-value=74 Score=26.81 Aligned_cols=143 Identities=18% Similarity=0.115 Sum_probs=76.3
Q ss_pred CccEEEEeCHH-HHHHHHHHHHHcCCCCcEEEEeChhHHHHHHH--hhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCC
Q 024773 102 IFDWIIITSPE-AGSVFLEAWKEAGTPNVRIGVVGAGTASIFEE--VIQSSKCSLDVAFSPSK-ATGKILASELPKNGKK 177 (262)
Q Consensus 102 ~~d~IiFTS~~-aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~--~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~ 177 (262)
+.|.|+..... .+......+.+. +++++..+... ..+.. . .....+.+.. .....+++.+.+.. .
T Consensus 66 ~v~~iig~~~~~~~~~~~~~~~~~---~ip~i~~~~~~-~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~-~ 134 (298)
T cd06268 66 GVDAVIGPLSSGVALAAAPVAEEA---GVPLISPGATS-PALTGKGN------PYVFRTAPSDAQQAAALADYLAEKG-K 134 (298)
T ss_pred CceEEEcCCcchhHHhhHHHHHhC---CCcEEccCCCC-cccccCCC------ceEEEcccCcHHHHHHHHHHHHHhc-C
Confidence 57888765433 344455555544 56676665432 22221 1 1111123322 34566666666543 2
Q ss_pred ccEEEEEccCCC-----hhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHc--CCCCEEEEeCH-HHHHHHHHHhcc
Q 024773 178 KCTVLYPASAKA-----SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVASP-SAVRSWVNLISD 249 (262)
Q Consensus 178 g~~vL~~~g~~~-----~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l--~~~d~ivFtS~-s~~~~~~~~~~~ 249 (262)
.+++.++.++.. .+.+.+.+++.|.++.....|.... .........+ .+.|+|++.+. ..+..++..+.+
T Consensus 135 ~~~i~~v~~~~~~~~~~~~~~~~~~~~~g~~i~~~~~~~~~~--~~~~~~~~~l~~~~~~~vi~~~~~~~~~~~~~~~~~ 212 (298)
T cd06268 135 VKKVAIIYDDYAYGRGLAAAFREALKKLGGEVVAEETYPPGA--TDFSPLIAKLKAAGPDAVFLAGYGGDAALFLKQARE 212 (298)
T ss_pred CCEEEEEEcCCchhHHHHHHHHHHHHHcCCEEEEEeccCCCC--ccHHHHHHHHHhcCCCEEEEccccchHHHHHHHHHH
Confidence 467877766542 4566678888998876665555322 1222222223 25677777765 666777777765
Q ss_pred cCCCCCeEE
Q 024773 250 TEQWSNSVA 258 (262)
Q Consensus 250 ~~~~~~~i~ 258 (262)
.+. +.+++
T Consensus 213 ~g~-~~~~~ 220 (298)
T cd06268 213 AGL-KVPIV 220 (298)
T ss_pred cCC-CCcEE
Confidence 432 44444
No 184
>cd06386 PBP1_NPR_C_like Ligand-binding domain of type C natriuretic peptide receptor. Ligand-binding domain of type C natriuretic peptide receptor (NPR-C). NPR-C is found in atrial, mesentery, placenta, lung, kidney, venous tissue, aortic smooth muscle, and aortic endothelial cells. The affinity of NPR-C for natriuretic peptides is ANPCNPBNP. The extracellular domain of NPR-C is about 30% identical to NPR-A and NPR-B. However, unlike the cyclase-linked receptors, it contains only 37 intracellular amino acids and no guanylyl cyclase activity. Major function of NPR-C is to clear natriuretic peptides from the circulation or extracellular surroundings through constitutive receptor-mediated internalization and degradation.
Probab=67.62 E-value=1e+02 Score=28.32 Aligned_cols=60 Identities=12% Similarity=0.115 Sum_probs=37.7
Q ss_pred hhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcC-CCCEEEEe-CHHHHHHHHHHhcccC
Q 024773 190 SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQAL-SIPVVAVA-SPSAVRSWVNLISDTE 251 (262)
Q Consensus 190 ~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~-~~d~ivFt-S~s~~~~~~~~~~~~~ 251 (262)
.+.|.+.+++.|.+|.....|... ......+++.++ .-++|++. ++..+..++..+.+.+
T Consensus 157 ~~~l~~~~~~~gi~v~~~~~~~~~--~~d~~~~l~~ik~~~rvii~~~~~~~~~~ll~~A~~~g 218 (387)
T cd06386 157 LEGVHHVFQEEGYHMSIYPFDETK--DLDLDEIIRAIQASERVVIMCAGADTIRSIMLAAHRRG 218 (387)
T ss_pred HHHHHHHHHhcCceEEEEecCCCC--cccHHHHHHHHHhcCcEEEEecCHHHHHHHHHHHHHcC
Confidence 567888899999887655444322 122334444442 22555555 8899999988876654
No 185
>cd01968 Nitrogenase_NifE_I Nitrogenase_NifE_I: a subgroup of the NifE subunit of the NifEN complex: NifE forms an alpha2beta2 tetramer with NifN. NifE and NifN are structurally homologous to nitrogenase MoFe protein alpha and beta subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The NifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this NifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco).
Probab=67.51 E-value=99 Score=28.86 Aligned_cols=142 Identities=15% Similarity=0.118 Sum_probs=74.9
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CCCCcEEEEeCh-h
Q 024773 60 GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GTPNVRIGVVGA-G 137 (262)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~-~~~~~~i~aVG~-~ 137 (262)
.+..++.+.|++.|+++...-. .....++ +.++.+...-+..++..-..+.+.|++. +.+-....=+|. .
T Consensus 171 ~d~~el~~lL~~~Gl~v~~~~~----~~~s~ee----i~~~~~A~lniv~~~~~~~~~a~~L~~~fGip~~~~~p~G~~~ 242 (410)
T cd01968 171 GELWGVKPLLEKLGIRVLASIT----GDSRVDE----IRRAHRAKLNVVQCSKSMIYLARKMEEKYGIPYIEVSFYGIRD 242 (410)
T ss_pred ccHHHHHHHHHHcCCeEEEEeC----CCCCHHH----HHhhhhCcEEEEEchhHHHHHHHHHHHHhCCCeEecCcCcHHH
Confidence 3457899999999999875311 1112232 3355666776766655445556666543 433221111443 4
Q ss_pred HHHHHHHhhhhcCCCCce--eecCCC--CCHHHHHHHhhhC--CCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeec
Q 024773 138 TASIFEEVIQSSKCSLDV--AFSPSK--ATGKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYT 211 (262)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~--~~~p~~--~t~e~L~~~l~~~--~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~ 211 (262)
|.+.|++..+. .|... +..++. ..-+.+.+.+... ...|+++.+..+....-.+.+.|.+.|++|..+.++.
T Consensus 243 t~~~l~~ia~~--~g~~~~~~~~~~~i~~e~~~~~~~l~~~~~~l~gkrv~i~~~~~~~~~la~~l~elGm~v~~~~~~~ 320 (410)
T cd01968 243 TSKSLRNIAEL--LGDEELIERTEELIAREEARLRPELAPYRARLEGKKAALYTGGVKSWSLVSALQDLGMEVVATGTQK 320 (410)
T ss_pred HHHHHHHHHHH--hCCchhHHHHHHHHHHHHHHHHHHHHHHHHHhCCCEEEEEcCCchHHHHHHHHHHCCCEEEEEeccc
Confidence 55555554211 14431 000000 0001122222221 1257888877766566778899999999987775443
No 186
>COG0075 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]
Probab=67.14 E-value=16 Score=34.08 Aligned_cols=61 Identities=11% Similarity=0.150 Sum_probs=48.2
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEe
Q 024773 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIIT 109 (262)
Q Consensus 48 l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFT 109 (262)
..|.+||+.....=...+.+.++.+|+++..+-.=--++ .+.+++++.|..-++++.|.+|
T Consensus 78 ~pgdkVLv~~nG~FG~R~~~ia~~~g~~v~~~~~~wg~~-v~p~~v~~~L~~~~~~~~V~~v 138 (383)
T COG0075 78 EPGDKVLVVVNGKFGERFAEIAERYGAEVVVLEVEWGEA-VDPEEVEEALDKDPDIKAVAVV 138 (383)
T ss_pred CCCCeEEEEeCChHHHHHHHHHHHhCCceEEEeCCCCCC-CCHHHHHHHHhcCCCccEEEEE
Confidence 458899999998888999999999999998764432222 3567888888766789999986
No 187
>cd06289 PBP1_MalI_like Ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. This group includes the ligand-binding domain of MalI, a transcription regulator of the maltose system of Escherichia coli and its close homologs from other bacteria. They are members of the LacI-GalR family of repressor proteins which 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=66.67 E-value=56 Score=27.49 Aligned_cols=89 Identities=8% Similarity=0.032 Sum_probs=50.7
Q ss_pred CCeEEEeCCCCC-------hHHHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHH
Q 024773 50 NPKVVVTRERGK-------NGKLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEA 120 (262)
Q Consensus 50 g~~VLitR~~~~-------~~~l~~~L~~~G~~v~~~P~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~ 120 (262)
.++|++..+... ..-+.+.++++|.+......+......+ .+.+...+..-..+|+|+.++...+..++..
T Consensus 117 ~~~i~~l~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~~~~a~~~~~a 196 (268)
T cd06289 117 HRRIAFIGGLEDSSTRRERLAGYRAALAEAGLPFDSELVVEGPPSRQGGAEAVAQLLDLPPRPTAIVCFNDLVAFGAMSG 196 (268)
T ss_pred CCCEEEecCCccccchHHHHHHHHHHHHHcCCCCCchhEEecCcchhhHHHHHHHHHcCCCCCCEEEEcCcHHHHHHHHH
Confidence 346776644321 1345567777775432211111111111 1334444533356899999998888888888
Q ss_pred HHHcCC---CCcEEEEeChhH
Q 024773 121 WKEAGT---PNVRIGVVGAGT 138 (262)
Q Consensus 121 l~~~~~---~~~~i~aVG~~T 138 (262)
+.+.+. +++.+++.+...
T Consensus 197 l~~~g~~~p~di~iig~d~~~ 217 (268)
T cd06289 197 LRRAGLTPGRDIAVVGFDDVA 217 (268)
T ss_pred HHHcCCCCCcceEEEeecCch
Confidence 888775 367888888754
No 188
>COG2984 ABC-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=66.38 E-value=1e+02 Score=28.04 Aligned_cols=170 Identities=13% Similarity=0.122 Sum_probs=86.1
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCC-Cch---HHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeCh--
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGP-DTD---RLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGA-- 136 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~-~~~---~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~-- 136 (262)
+-..+.|++.|+. -+.+...-.. +.. .+.+.+ ..+..|.|+-++.-+......... +++|++-|-
T Consensus 49 ~G~~~aLk~~G~~---n~~i~~~na~~~~~~a~~iarql-~~~~~dviv~i~tp~Aq~~~s~~~-----~iPVV~aavtd 119 (322)
T COG2984 49 EGVKEALKDAGYK---NVKIDYQNAQGDLGTAAQIARQL-VGDKPDVIVAIATPAAQALVSATK-----TIPVVFAAVTD 119 (322)
T ss_pred HHHHHHHHhcCcc---CeEEEeecCCCChHHHHHHHHHh-hcCCCcEEEecCCHHHHHHHHhcC-----CCCEEEEccCc
Confidence 4467889999996 3333333222 222 233333 346679999888888888776443 345554332
Q ss_pred -hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEE--EEEccCCC----hhhHHHHHHhCCCeeeEEee
Q 024773 137 -GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTV--LYPASAKA----SNEIEEGLSNRGFEVVRLNT 209 (262)
Q Consensus 137 -~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~v--L~~~g~~~----~~~L~~~L~~~G~~v~~i~v 209 (262)
..++...++ ..+ |-.+.-+......+.-++.+......-+++ +|=.|+.. -++|...+++.|.+|.+..+
T Consensus 120 ~v~a~Lv~~~-~~p--g~NvTGvsD~~~v~q~i~lik~~~Pnak~Igv~Y~p~E~ns~~l~eelk~~A~~~Gl~vve~~v 196 (322)
T COG2984 120 PVGAKLVKSL-EQP--GGNVTGVSDLLPVAQQIELIKALLPNAKSIGVLYNPGEANSVSLVEELKKEARKAGLEVVEAAV 196 (322)
T ss_pred hhhccCCccc-cCC--CCceeecCCcchHHHHHHHHHHhCCCCeeEEEEeCCCCcccHHHHHHHHHHHHHCCCEEEEEec
Confidence 222222211 000 222222222223444455555444333565 44344422 35566677889988866555
Q ss_pred eccccCCCChHHHHHHcCCCCEEEEeCHHHHHHHHHHh
Q 024773 210 YTTEPVHHVDQTVLKQALSIPVVAVASPSAVRSWVNLI 247 (262)
Q Consensus 210 Y~~~~~~~~~~~~~~~l~~~d~ivFtS~s~~~~~~~~~ 247 (262)
=.....+ ..+....++.|+|.+.-...+..-.+.+
T Consensus 197 ~~~ndi~---~a~~~l~g~~d~i~~p~dn~i~s~~~~l 231 (322)
T COG2984 197 TSVNDIP---RAVQALLGKVDVIYIPTDNLIVSAIESL 231 (322)
T ss_pred CcccccH---HHHHHhcCCCcEEEEecchHHHHHHHHH
Confidence 3332221 1222223689988887665555444443
No 189
>COG0569 TrkA K+ transport systems, NAD-binding component [Inorganic ion transport and metabolism]
Probab=66.31 E-value=83 Score=26.87 Aligned_cols=188 Identities=15% Similarity=0.157 Sum_probs=104.9
Q ss_pred CeEEEeCCCCChHHHHHHHHhCCCcEEEeceE---------------EeeeC-CCchHHHHHHhcCCCccEEEEeCHHHH
Q 024773 51 PKVVVTRERGKNGKLIKALAKHRIDCLELPLI---------------QHAQG-PDTDRLSSVLNADTIFDWIIITSPEAG 114 (262)
Q Consensus 51 ~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~---------------~~~~~-~~~~~l~~~l~~l~~~d~IiFTS~~aV 114 (262)
|+++|.....-...+++.|.+.|.+|.-+-.- -+.-- .+.+.|+++ .+.++|.++..+.+-.
T Consensus 1 m~iiIiG~G~vG~~va~~L~~~g~~Vv~Id~d~~~~~~~~~~~~~~~~v~gd~t~~~~L~~a--gi~~aD~vva~t~~d~ 78 (225)
T COG0569 1 MKIIIIGAGRVGRSVARELSEEGHNVVLIDRDEERVEEFLADELDTHVVIGDATDEDVLEEA--GIDDADAVVAATGNDE 78 (225)
T ss_pred CEEEEECCcHHHHHHHHHHHhCCCceEEEEcCHHHHHHHhhhhcceEEEEecCCCHHHHHhc--CCCcCCEEEEeeCCCH
Confidence 34555555555566777777777666543211 11111 111212211 4578999999988855
Q ss_pred HHHH-HHHH--HcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCC------C--ccEEEE
Q 024773 115 SVFL-EAWK--EAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGK------K--KCTVLY 183 (262)
Q Consensus 115 ~~f~-~~l~--~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~------~--g~~vL~ 183 (262)
.+++ -.+. ..+.+++-.=+-.+.-.+.+++. |+...+.|+...+..+.+.+..... . ...++.
T Consensus 79 ~N~i~~~la~~~~gv~~viar~~~~~~~~~~~~~------g~~~ii~Pe~~~~~~l~~~i~~p~~~~~~~~~~~~~~~~~ 152 (225)
T COG0569 79 VNSVLALLALKEFGVPRVIARARNPEHEKVLEKL------GADVIISPEKLAAKRLARLIVTPGALDVLELAGGDAEVIE 152 (225)
T ss_pred HHHHHHHHHHHhcCCCcEEEEecCHHHHHHHHHc------CCcEEECHHHHHHHHHHHHhcCCChheEEeecCCcceEEE
Confidence 4443 3332 23455555557788888999999 9888888987777777766543210 1 111111
Q ss_pred Ec---c-CCChhhHHHHHHhCCCeeeEEeeecccc--CCCChHHHHHHcC-CCCEEEEeCHHHHHHHHHHhcc
Q 024773 184 PA---S-AKASNEIEEGLSNRGFEVVRLNTYTTEP--VHHVDQTVLKQAL-SIPVVAVASPSAVRSWVNLISD 249 (262)
Q Consensus 184 ~~---g-~~~~~~L~~~L~~~G~~v~~i~vY~~~~--~~~~~~~~~~~l~-~~d~ivFtS~s~~~~~~~~~~~ 249 (262)
.. + ......|.+.=-.....+.-+.+|+... ........ ++ +--.+++.++..++.|.+.+..
T Consensus 153 ~~v~~~~~~~g~~L~el~~~~~~~~~vvai~r~~~~~~~p~g~~~---l~~gD~l~v~~~~~~i~~~~~~~~~ 222 (225)
T COG0569 153 EKVAEDSPLAGKTLRELDLRLPYDVNVIAIKRGGNELIIPRGDTT---LEAGDRLIVIGAPEALREVEELLGG 222 (225)
T ss_pred EEecCCCccCCcCHHHhcccCCCCcEEEEEecCCCceecCCCCCE---ecCCCEEEEEEcHHHHHHHHHHhcc
Confidence 11 1 2233344443211224566699999752 22211111 33 5566778889999999888754
No 190
>PRK14476 nitrogenase molybdenum-cofactor biosynthesis protein NifN; Provisional
Probab=65.95 E-value=96 Score=29.61 Aligned_cols=144 Identities=17% Similarity=0.111 Sum_probs=80.8
Q ss_pred CChHHHHHHHHhCCCcEEEeceEE------------eeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CC
Q 024773 60 GKNGKLIKALAKHRIDCLELPLIQ------------HAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GT 126 (262)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~P~~~------------~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~-~~ 126 (262)
.+-.++.+.|+..|+++..+|-+. -.+..+ ..++ .+..+.+...-|..++.+ ..+.+.+++. +.
T Consensus 182 ~D~~elk~lL~~~Gl~v~~lpd~s~~ld~~l~~~~~~~~~gg-~t~e-ei~~~~~A~lniv~~~~~-~~~a~~Lee~~Gi 258 (455)
T PRK14476 182 GDIEELREIIEAFGLEPIILPDLSGSLDGHLPDDWTPTTLGG-TTLE-EIRELGRSAATIAIGESM-RKAAEALEARTGV 258 (455)
T ss_pred ccHHHHHHHHHHcCCceEEecCccccccCCCCCcccccCCCC-CCHH-HHHhhccCcEEEEecHHH-HHHHHHHHHHhCC
Confidence 456899999999999998877442 111111 1122 233556677777777764 4666666653 43
Q ss_pred CCcEE-EEeCh-hHHHHHHHhhhhcCCCCceeecCCCC--CHHHHHHHhhhC--CCCccEEEEEccCCChhhHHHHHHhC
Q 024773 127 PNVRI-GVVGA-GTASIFEEVIQSSKCSLDVAFSPSKA--TGKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSNR 200 (262)
Q Consensus 127 ~~~~i-~aVG~-~Ta~~L~~~~~~~~~G~~~~~~p~~~--t~e~L~~~l~~~--~~~g~~vL~~~g~~~~~~L~~~L~~~ 200 (262)
+-... .-+|- .|.+.|++..+. .|..+ |+.. .-+.+.+.+.+. ...|+++.+..+....-.|...|.+.
T Consensus 259 P~~~~~~p~G~~~t~~~l~~l~~~--~g~~~---~~~i~~er~~~~~~~~d~~~~l~gkrvai~~~~~~~~~la~~L~el 333 (455)
T PRK14476 259 PYLVFPSLTGLEAVDRFIATLAQI--SGRPV---PAKYRRQRAQLQDAMLDGHFYFGGKRVAIAAEPDLLLALGSFLAEM 333 (455)
T ss_pred CeEecCCCcChHHHHHHHHHHHHH--HCCCC---cHHHHHHHHHHHHHHHHHHHHhcCCEEEEEeCHHHHHHHHHHHHHC
Confidence 32111 12564 456666555211 15322 2111 011233333321 12578887777665666788899999
Q ss_pred CCeeeEEeeec
Q 024773 201 GFEVVRLNTYT 211 (262)
Q Consensus 201 G~~v~~i~vY~ 211 (262)
|+.+..+.++.
T Consensus 334 G~~v~~~~~~~ 344 (455)
T PRK14476 334 GAEIVAAVTTT 344 (455)
T ss_pred CCEEEEEEeCC
Confidence 99997766654
No 191
>cd01974 Nitrogenase_MoFe_beta Nitrogenase_MoFe_beta: Nitrogenase MoFe protein, beta subunit. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Molybdenum (Mo-) nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. This group contains the beta subunit of the MoFe protein. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.
Probab=65.55 E-value=65 Score=30.43 Aligned_cols=140 Identities=12% Similarity=0.053 Sum_probs=72.4
Q ss_pred hHHHHHHHHhCCCcEEEeceE------------Eeee-CCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHH-cCCC
Q 024773 62 NGKLIKALAKHRIDCLELPLI------------QHAQ-GPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKE-AGTP 127 (262)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~P~~------------~~~~-~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~-~~~~ 127 (262)
..++.+.|++.|+++..+|=+ ...+ -...++ ++++.+...-+..++..-..+.+.+++ .+.+
T Consensus 176 ~~el~~lL~~~Gl~~~~~~d~s~~~d~~~~~~~~~~~gg~~~~~----i~~~~~A~~niv~~~~~~~~~a~~Le~~~giP 251 (435)
T cd01974 176 MREIKRLLELMGVDYTILPDTSDVLDTPADGEYRMYPGGTTLEE----LKDAGNAKATLALQEYATEKTAKFLEKKCKVP 251 (435)
T ss_pred HHHHHHHHHHcCCCEEEecccccccCCCCCCCccccCCCCCHHH----HHhhccCcEEEEECccccHHHHHHHHHHhCCC
Confidence 579999999999999865421 1111 111222 335566667666666544445555554 4332
Q ss_pred CcEE-EEeCh-hHHHHHHHhhhhcCCCCceeecCCCC--CHHHHHHHhhhC--CCCccEEEEEccCCChhhHHHHHHhCC
Q 024773 128 NVRI-GVVGA-GTASIFEEVIQSSKCSLDVAFSPSKA--TGKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSNRG 201 (262)
Q Consensus 128 ~~~i-~aVG~-~Ta~~L~~~~~~~~~G~~~~~~p~~~--t~e~L~~~l~~~--~~~g~~vL~~~g~~~~~~L~~~L~~~G 201 (262)
-... +-+|. .|.+.+++..+. .|..+ |+.. .-+.+.+.+.+. ...|+|+.+..+..-.-.+...|.+.|
T Consensus 252 ~~~~~~p~G~~~t~~~l~~l~~~--~g~~~---~~~i~~er~~~~~~~~~~~~~l~gkrv~i~g~~~~~~~la~~L~elG 326 (435)
T cd01974 252 VETLNMPIGVAATDEFLMALSEL--TGKPI---PEELEEERGRLVDAMTDSHQYLHGKKFALYGDPDFLIGLTSFLLELG 326 (435)
T ss_pred eeecCCCcChHHHHHHHHHHHHH--hCCCC---CHHHHHHHHHHHHHHHHHHHhcCCCEEEEEcChHHHHHHHHHHHHCC
Confidence 1111 12332 234444433110 15432 2110 111233333322 125788877765555556778899999
Q ss_pred CeeeEEeee
Q 024773 202 FEVVRLNTY 210 (262)
Q Consensus 202 ~~v~~i~vY 210 (262)
+.+..+.++
T Consensus 327 m~v~~~~~~ 335 (435)
T cd01974 327 MEPVHVLTG 335 (435)
T ss_pred CEEEEEEeC
Confidence 998665553
No 192
>cd04509 PBP1_ABC_transporter_GCPR_C_like Family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. This CD includes members of the family C of G-protein coupled receptors and their close homologs, the type I periplasmic-binding proteins of ATP-binding cassette transporter-like systems. The family C GPCR includes glutamate/glycine-gated ion channels such as the NMDA receptor, G-protein-coupled receptors, metabotropic glutamate, GABA-B, calcium sensing, phermone receptors, and atrial natriuretic peptide-guanylate cyclase receptors. The glutamate receptors that form cation-selective ion channels, iGluR, can be classified into three different subgroups according to their binding-affinity for the agonists NMDA (N-methyl-D-asparate), AMPA (alpha-amino-3-dihydro-5-methyl-3-oxo-4-isoxazolepropionic acid), and kainate. L-glutamate is a major neurotransmitter in the brain of vertebrates and acts th
Probab=65.49 E-value=83 Score=26.53 Aligned_cols=136 Identities=10% Similarity=0.068 Sum_probs=75.8
Q ss_pred CccEEEEeCHH-HHHHHHHHHHHcCCCCcEEEEeChhHHHHHHH---hhhhcCCCCceeecCCC-CCHHHHHHHhhhCCC
Q 024773 102 IFDWIIITSPE-AGSVFLEAWKEAGTPNVRIGVVGAGTASIFEE---VIQSSKCSLDVAFSPSK-ATGKILASELPKNGK 176 (262)
Q Consensus 102 ~~d~IiFTS~~-aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~---~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~ 176 (262)
..+.||-.... ........+... +++++..+.... .+.. . .....+.|.. ..++.+++.+....
T Consensus 67 ~v~~iig~~~~~~~~~~~~~~~~~---~iP~i~~~~~~~-~~~~~~~~------~~~~~~~~~~~~~~~~~~~~l~~~~- 135 (299)
T cd04509 67 GVDALVGPVSSGVALAVAPVAEAL---KIPLISPGATAP-GLTDKKGY------PYLFRTGPSDEQQAEALADYIKEYN- 135 (299)
T ss_pred CceEEEcCCCcHHHHHHHHHHhhC---CceEEeccCCCc-ccccccCC------CCEEEecCCcHHHHHHHHHHHHHcC-
Confidence 68887765433 333344433333 678888775432 2211 1 2222233433 34566667666543
Q ss_pred CccEEEEEccCCC-----hhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcC--CCCEEEEeCH-HHHHHHHHHhc
Q 024773 177 KKCTVLYPASAKA-----SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQAL--SIPVVAVASP-SAVRSWVNLIS 248 (262)
Q Consensus 177 ~g~~vL~~~g~~~-----~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~--~~d~ivFtS~-s~~~~~~~~~~ 248 (262)
.+++.++..+.. ...+.+.+++.|..+.....|.... .......+.+. ..|+|++.+. ..+..|++.+.
T Consensus 136 -~~~v~iv~~~~~~~~~~~~~~~~~~~~~g~~i~~~~~~~~~~--~~~~~~~~~l~~~~~~~v~~~~~~~~~~~~~~~~~ 212 (299)
T cd04509 136 -WKKVAILYDDDSYGRGLLEAFKAAFKKKGGTVVGEEYYPLGT--TDFTSLLQKLKAAKPDVIVLCGSGEDAATILKQAA 212 (299)
T ss_pred -CcEEEEEecCchHHHHHHHHHHHHHHHcCCEEEEEecCCCCC--ccHHHHHHHHHhcCCCEEEEcccchHHHHHHHHHH
Confidence 367777765442 4567778888887775544443221 22223333332 5788888777 88888888877
Q ss_pred ccC
Q 024773 249 DTE 251 (262)
Q Consensus 249 ~~~ 251 (262)
+.+
T Consensus 213 ~~g 215 (299)
T cd04509 213 EAG 215 (299)
T ss_pred HcC
Confidence 654
No 193
>PLN02891 IMP cyclohydrolase
Probab=65.44 E-value=1e+02 Score=30.12 Aligned_cols=130 Identities=15% Similarity=0.163 Sum_probs=78.3
Q ss_pred cEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCH-HHHH----HHhhhCCCCc
Q 024773 104 DWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATG-KILA----SELPKNGKKK 178 (262)
Q Consensus 104 d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~-e~L~----~~l~~~~~~g 178 (262)
-.|=.+-..++.-|...|.+. +..|++-|- |++.|++. |+.+.-+.+ +|. .+++ +.|... -.
T Consensus 25 ALISVsDKtgi~~fAk~L~~~---gveIiSTgG-Tak~L~e~------Gi~v~~Vsd-~TgfPEiL~GRVKTLHPk--Ih 91 (547)
T PLN02891 25 ALISLSDKTDLALLANGLQEL---GYTIVSTGG-TASALEAA------GVSVTKVEE-LTNFPEMLDGRVKTLHPA--VH 91 (547)
T ss_pred EEEEEecccCHHHHHHHHHHC---CCEEEEcch-HHHHHHHc------CCceeeHHh-ccCCchhhCCcccccCch--hh
Confidence 345567788999999988886 678999995 99999999 998754432 221 1111 111100 01
Q ss_pred cEEEEEccCCChhhHHHHHHhCCCeeeEEe---eec---cccC-CCChHHHHHHc------------C-CCCEEEEeCHH
Q 024773 179 CTVLYPASAKASNEIEEGLSNRGFEVVRLN---TYT---TEPV-HHVDQTVLKQA------------L-SIPVVAVASPS 238 (262)
Q Consensus 179 ~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~---vY~---~~~~-~~~~~~~~~~l------------~-~~d~ivFtS~s 238 (262)
.-+|.-|. ++.=.+.|+++|+....+. .|- +... ....+++++.+ + ..++.+.++|.
T Consensus 92 gGILa~r~---~~~h~~~l~~~~I~~IDlVvVNLYPF~~tv~~~~~~~ee~IEnIDIGGpsmlRAAAKN~~~V~Vv~dP~ 168 (547)
T PLN02891 92 GGILARRD---QEHHMEALNEHGIGTIDVVVVNLYPFYDTVTSGGISFEDGVENIDIGGPAMIRAAAKNHKDVLVVVDPA 168 (547)
T ss_pred hhhhcCCC---CHHHHHHHHHcCCCceeeEEEeccChHHHHhcCCCCHHHHHHhccCCcHHHHHHHHhCCCCeEEECCHH
Confidence 22232222 2333456888888654433 342 2221 12234444444 1 35899999999
Q ss_pred HHHHHHHHhcc
Q 024773 239 AVRSWVNLISD 249 (262)
Q Consensus 239 ~~~~~~~~~~~ 249 (262)
..+.+++.++.
T Consensus 169 DY~~vl~el~~ 179 (547)
T PLN02891 169 DYPALLEYLKG 179 (547)
T ss_pred HHHHHHHHHHc
Confidence 99999988864
No 194
>PRK05867 short chain dehydrogenase; Provisional
Probab=65.07 E-value=85 Score=26.54 Aligned_cols=85 Identities=7% Similarity=0.095 Sum_probs=48.6
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC-CccEEE--EeCHHHHHHHHHHHH
Q 024773 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT-IFDWII--ITSPEAGSVFLEAWK 122 (262)
Q Consensus 47 ~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~-~~d~Ii--FTS~~aV~~f~~~l~ 122 (262)
++.|+++|||..... ...+++.|.+.|++|...- + .....+.+...++..+ ....+. +++..+++.+++.+.
T Consensus 6 ~~~~k~vlVtGas~gIG~~ia~~l~~~G~~V~~~~--r--~~~~~~~~~~~l~~~~~~~~~~~~D~~~~~~~~~~~~~~~ 81 (253)
T PRK05867 6 DLHGKRALITGASTGIGKRVALAYVEAGAQVAIAA--R--HLDALEKLADEIGTSGGKVVPVCCDVSQHQQVTSMLDQVT 81 (253)
T ss_pred cCCCCEEEEECCCchHHHHHHHHHHHCCCEEEEEc--C--CHHHHHHHHHHHHhcCCeEEEEEccCCCHHHHHHHHHHHH
Confidence 467999999988654 5789999999999876431 1 1111122222232211 222222 578889988887765
Q ss_pred Hc-CCCCcEEEEeC
Q 024773 123 EA-GTPNVRIGVVG 135 (262)
Q Consensus 123 ~~-~~~~~~i~aVG 135 (262)
+. +.-+.-|.+.|
T Consensus 82 ~~~g~id~lv~~ag 95 (253)
T PRK05867 82 AELGGIDIAVCNAG 95 (253)
T ss_pred HHhCCCCEEEECCC
Confidence 43 22234444544
No 195
>cd00401 AdoHcyase S-adenosyl-L-homocysteine hydrolase (AdoHycase) catalyzes the hydrolysis of S-adenosyl-L-homocysteine (AdoHyc) to form adenosine (Ado) and homocysteine (Hcy). The equilibrium lies far on the side of AdoHyc synthesis, but in nature the removal of Ado and Hyc is sufficiently fast, so that the net reaction is in the direction of hydrolysis. Since AdoHyc is a potent inhibitor of S-adenosyl-L-methionine dependent methyltransferases, AdoHycase plays a critical role in the modulation of the activity of various methyltransferases. The enzyme forms homooligomers of 45-50kDa subunits, each binding one molecule of NAD+.
Probab=64.99 E-value=1.3e+02 Score=28.52 Aligned_cols=36 Identities=14% Similarity=0.045 Sum_probs=29.3
Q ss_pred cCCCCCCCeEEEeCCCC-ChHHHHHHHHhCCCcEEEe
Q 024773 44 ASASNSNPKVVVTRERG-KNGKLIKALAKHRIDCLEL 79 (262)
Q Consensus 44 ~~~~l~g~~VLitR~~~-~~~~l~~~L~~~G~~v~~~ 79 (262)
..+|+.|.||..+-.-. +...|.+.|...|++|...
T Consensus 30 ~~~p~~g~~i~~~~hl~~~ta~l~~~L~~~GA~v~~~ 66 (413)
T cd00401 30 ASKPLKGARIAGCLHMTVQTAVLIETLVALGAEVRWS 66 (413)
T ss_pred ccCCCCCCEEEEEEcchHHHHHHHHHHHHcCCEEEEE
Confidence 35899999999887654 4578999999999998754
No 196
>PRK14175 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=64.92 E-value=69 Score=28.73 Aligned_cols=146 Identities=15% Similarity=0.121 Sum_probs=81.1
Q ss_pred HHHHhCCCcEEEeceEEeeeCCCchHHHHHHh---cCCCccEEEEeCHHH--H--HHHHHHHHHc-CCCCcEEEEeChhH
Q 024773 67 KALAKHRIDCLELPLIQHAQGPDTDRLSSVLN---ADTIFDWIIITSPEA--G--SVFLEAWKEA-GTPNVRIGVVGAGT 138 (262)
Q Consensus 67 ~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~---~l~~~d~IiFTS~~a--V--~~f~~~l~~~-~~~~~~i~aVG~~T 138 (262)
+..++.|+++..+-+-+. ...+++...+. ...+.|.|++--|-- + +..++.+... ..|...-.-.|.
T Consensus 55 k~a~~~Gi~~~~~~l~~~---~~~~~l~~~I~~lN~d~~V~GIivq~Plp~~i~~~~i~~~I~p~KDVDGl~~~n~g~-- 129 (286)
T PRK14175 55 KAAEKIGMISEIVHLEET---ATEEEVLNELNRLNNDDSVSGILVQVPLPKQVSEQKILEAINPEKDVDGFHPINIGK-- 129 (286)
T ss_pred HHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCCHHHHHhccCcccCcccCCccchHh--
Confidence 345567887765544221 12334444444 446789999987732 2 1222222211 122332222222
Q ss_pred HHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC--CCccEEEEEccCC-ChhhHHHHHHhCCCeeeEEeeeccccC
Q 024773 139 ASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPASAK-ASNEIEEGLSNRGFEVVRLNTYTTEPV 215 (262)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~g~~vL~~~g~~-~~~~L~~~L~~~G~~v~~i~vY~~~~~ 215 (262)
|- . |-. .+.| -|+.+.++.|..+. ..|++++++.... ....+...|.+.|++|+-+.-+.
T Consensus 130 ---l~-~------~~~-~~~P--cTp~ai~~ll~~~~i~l~Gk~vvVIGrs~~VG~pla~lL~~~gatVtv~~s~t---- 192 (286)
T PRK14175 130 ---LY-I------DEQ-TFVP--CTPLGIMEILKHADIDLEGKNAVVIGRSHIVGQPVSKLLLQKNASVTILHSRS---- 192 (286)
T ss_pred ---Hh-c------CCC-CCCC--CcHHHHHHHHHHcCCCCCCCEEEEECCCchhHHHHHHHHHHCCCeEEEEeCCc----
Confidence 21 1 311 2344 48888888777653 4688988887754 67789999999998885443211
Q ss_pred CCChHHHHHHcCCCCEEEEeCHH
Q 024773 216 HHVDQTVLKQALSIPVVAVASPS 238 (262)
Q Consensus 216 ~~~~~~~~~~l~~~d~ivFtS~s 238 (262)
..+.+.+...|+|+-+-+.
T Consensus 193 ----~~l~~~~~~ADIVIsAvg~ 211 (286)
T PRK14175 193 ----KDMASYLKDADVIVSAVGK 211 (286)
T ss_pred ----hhHHHHHhhCCEEEECCCC
Confidence 1233445688988876655
No 197
>PF04127 DFP: DNA / pantothenate metabolism flavoprotein; InterPro: IPR007085 This entry represents the C-terminal domain found in DNA/pantothenate metabolism flavoproteins, which affects synthesis of DNA and pantothenate metabolism. These proteins contain ATP, phosphopantothenate, and cysteine binding sites. The structure of this domain has been determined in human phosphopantothenoylcysteine (PPC) synthetase [] and as the PPC synthase domain (CoaB) from the Escherichia coli coenzyme A bifunctional protein CoaBC []. This domain adopts a 3-layer alpha/beta/alpha fold with mixed beta-sheets, which topologically resembles a combination of Rossmann-like and ribokinase-like folds. The structure of these proteins predicts a ping pong mechanism with initial formation of an acyladenylate intermediate, followed by release of pyrophosphate and attack by cysteine to form the final products PPC and AMP. ; PDB: 1U7W_A 1U7U_A 1U80_C 1U7Z_A 1P9O_B 2GK4_A.
Probab=64.40 E-value=17 Score=30.31 Aligned_cols=18 Identities=11% Similarity=0.169 Sum_probs=14.0
Q ss_pred hHHHHHHHHhCCCcEEEe
Q 024773 62 NGKLIKALAKHRIDCLEL 79 (262)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~ 79 (262)
...+++.+..+|++|..+
T Consensus 32 G~~lA~~~~~~Ga~V~li 49 (185)
T PF04127_consen 32 GAALAEEAARRGAEVTLI 49 (185)
T ss_dssp HHHHHHHHHHTT-EEEEE
T ss_pred HHHHHHHHHHCCCEEEEE
Confidence 467899999999999754
No 198
>PRK10669 putative cation:proton antiport protein; Provisional
Probab=64.38 E-value=82 Score=30.73 Aligned_cols=114 Identities=11% Similarity=0.153 Sum_probs=70.4
Q ss_pred CeEEEeCCCCChHHHHHHHHhCCCcEEEeceEE------------eeeCCCchHHHHHHh--cCCCccEEEEeCHHHHHH
Q 024773 51 PKVVVTRERGKNGKLIKALAKHRIDCLELPLIQ------------HAQGPDTDRLSSVLN--ADTIFDWIIITSPEAGSV 116 (262)
Q Consensus 51 ~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~------------~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~aV~~ 116 (262)
.+|++.....-...+.+.|+++|.++..+-.=+ ...- |..+ .+.++ .++++|.++.+..+..++
T Consensus 418 ~hiiI~G~G~~G~~la~~L~~~g~~vvvId~d~~~~~~~~~~g~~~i~G-D~~~-~~~L~~a~i~~a~~viv~~~~~~~~ 495 (558)
T PRK10669 418 NHALLVGYGRVGSLLGEKLLAAGIPLVVIETSRTRVDELRERGIRAVLG-NAAN-EEIMQLAHLDCARWLLLTIPNGYEA 495 (558)
T ss_pred CCEEEECCChHHHHHHHHHHHCCCCEEEEECCHHHHHHHHHCCCeEEEc-CCCC-HHHHHhcCccccCEEEEEcCChHHH
Confidence 578888887778899999999998775442100 0000 1000 11222 456899888886664443
Q ss_pred --HHHHHHHcCCCCcEEEE--eChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhh
Q 024773 117 --FLEAWKEAGTPNVRIGV--VGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPK 173 (262)
Q Consensus 117 --f~~~l~~~~~~~~~i~a--VG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~ 173 (262)
....+.+.. ++.++++ --+...+.+++. |.+..+.|+...++.+.+.+..
T Consensus 496 ~~iv~~~~~~~-~~~~iiar~~~~~~~~~l~~~------Gad~vv~p~~~~a~~i~~~l~~ 549 (558)
T PRK10669 496 GEIVASAREKR-PDIEIIARAHYDDEVAYITER------GANQVVMGEREIARTMLELLET 549 (558)
T ss_pred HHHHHHHHHHC-CCCeEEEEECCHHHHHHHHHc------CCCEEEChHHHHHHHHHHHhcC
Confidence 333333332 3556664 355566778888 9998888888778888776643
No 199
>PRK08265 short chain dehydrogenase; Provisional
Probab=64.12 E-value=75 Score=27.15 Aligned_cols=81 Identities=15% Similarity=0.068 Sum_probs=45.5
Q ss_pred CCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC-CccEE--EEeCHHHHHHHHHHHHH
Q 024773 48 NSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT-IFDWI--IITSPEAGSVFLEAWKE 123 (262)
Q Consensus 48 l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~-~~d~I--iFTS~~aV~~f~~~l~~ 123 (262)
+.|++++||..... ...+++.|.+.|++|...- + +.+.+++....++ ....+ =+++..+++.+++.+.+
T Consensus 4 ~~~k~vlItGas~gIG~~ia~~l~~~G~~V~~~~--r-----~~~~~~~~~~~~~~~~~~~~~Dl~~~~~~~~~~~~~~~ 76 (261)
T PRK08265 4 LAGKVAIVTGGATLIGAAVARALVAAGARVAIVD--I-----DADNGAAVAASLGERARFIATDITDDAAIERAVATVVA 76 (261)
T ss_pred CCCCEEEEECCCChHHHHHHHHHHHCCCEEEEEe--C-----CHHHHHHHHHHhCCeeEEEEecCCCHHHHHHHHHHHHH
Confidence 56899999987654 5679999999999876431 1 1122222222222 11111 13678888887776644
Q ss_pred c-CCCCcEEEEeC
Q 024773 124 A-GTPNVRIGVVG 135 (262)
Q Consensus 124 ~-~~~~~~i~aVG 135 (262)
. +.-+.-|.+.|
T Consensus 77 ~~g~id~lv~~ag 89 (261)
T PRK08265 77 RFGRVDILVNLAC 89 (261)
T ss_pred HhCCCCEEEECCC
Confidence 3 22233344444
No 200
>PF04016 DUF364: Domain of unknown function (DUF364); InterPro: IPR007161 This is a entry represents of bacterial and archaeal proteins of unknown function.; PDB: 3L5O_B 3NPG_A.
Probab=64.11 E-value=13 Score=29.66 Aligned_cols=76 Identities=16% Similarity=0.119 Sum_probs=45.8
Q ss_pred CccEEEEEccCCChhhHHHHHHhCCCeeeEEeeecccc-----CCC--ChHHHHHHcCCCCEEEEeCHHHH----HHHHH
Q 024773 177 KKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEP-----VHH--VDQTVLKQALSIPVVAVASPSAV----RSWVN 245 (262)
Q Consensus 177 ~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~-----~~~--~~~~~~~~l~~~d~ivFtS~s~~----~~~~~ 245 (262)
+++++.++..-.. +.+.|++.+. ++.+++..+ ... ...+..+.++..|+++.|.++-+ +.+++
T Consensus 10 ~~~~V~~VG~f~P---~~~~l~~~~~---~v~v~d~~~~~~~~~~~~~~~~~~~~~l~~aD~viiTGsTlvN~Ti~~iL~ 83 (147)
T PF04016_consen 10 PGDKVGMVGYFQP---LVEKLKERGA---EVRVFDLNPDNIGEEPGDVPDEDAEEILPWADVVIITGSTLVNGTIDDILE 83 (147)
T ss_dssp TTSEEEEES--HC---CHHHHCCCCS---EEEEEESSGGG--SSCT-EEGGGHHHHGGG-SEEEEECHHCCTTTHHHHHH
T ss_pred CCCEEEEEcCcHH---HHHHHhcCCC---CEEEEECCCCCCCCCCCcCCHHHHHHHHccCCEEEEEeeeeecCCHHHHHH
Confidence 5688888775322 6677775554 567777666 221 12334445679999999999855 44555
Q ss_pred HhcccCCCCCeEEEECC
Q 024773 246 LISDTEQWSNSVACIAG 262 (262)
Q Consensus 246 ~~~~~~~~~~~i~~IGp 262 (262)
..+ ....++-+||
T Consensus 84 ~~~----~~~~vil~Gp 96 (147)
T PF04016_consen 84 LAR----NAREVILYGP 96 (147)
T ss_dssp HTT----TSSEEEEESC
T ss_pred hCc----cCCeEEEEec
Confidence 544 2466777776
No 201
>PRK05569 flavodoxin; Provisional
Probab=63.93 E-value=16 Score=28.33 Aligned_cols=37 Identities=22% Similarity=0.216 Sum_probs=25.9
Q ss_pred cCCCccEEEEeCHH---------HHHHHHHHHHHcCCCCcEEEEeC
Q 024773 99 ADTIFDWIIITSPE---------AGSVFLEAWKEAGTPNVRIGVVG 135 (262)
Q Consensus 99 ~l~~~d~IiFTS~~---------aV~~f~~~l~~~~~~~~~i~aVG 135 (262)
.+.++|.|+|-||. .+..|++.+......+.+++.+|
T Consensus 45 ~~~~~d~iilgsPty~~~~~~~~~~~~~~~~l~~~~~~~K~v~~f~ 90 (141)
T PRK05569 45 DVLEADAVAFGSPSMDNNNIEQEEMAPFLDQFKLTPNENKKCILFG 90 (141)
T ss_pred HHhhCCEEEEECCCcCCCcCChHHHHHHHHHhhccCcCCCEEEEEe
Confidence 34689999999984 25666666654444577888877
No 202
>cd01080 NAD_bind_m-THF_DH_Cyclohyd NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase. NADP binding domain of the Methylene-Tetrahydrofolate Dehydrogenase/cyclohydrolase (m-THF DH/cyclohydrolase) bifunctional enzyme. Tetrahydrofolate is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. In addition, most DHs also have an associated cyclohydrolase activity which catalyzes its hydrolysis to N10-formyltetrahydrofolate. m-THF DH is typically found as part of a multifunctional protein in eukaryotes. NADP-dependent m-THF DH in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional DH/cyclodrolase form. In bacteria, monofucntional DH, as well a
Probab=63.76 E-value=30 Score=28.37 Aligned_cols=69 Identities=16% Similarity=0.140 Sum_probs=45.8
Q ss_pred CHHHHHHHhhhCC--CCccEEEEEccCC-ChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHHH
Q 024773 163 TGKILASELPKNG--KKKCTVLYPASAK-ASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPSA 239 (262)
Q Consensus 163 t~e~L~~~l~~~~--~~g~~vL~~~g~~-~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s~ 239 (262)
++...++.+.+.. ..++++|++...+ ....+...|.+.|++| .+..+.. +++.+.+...|+|+-+.++.
T Consensus 27 ~~~a~v~l~~~~~~~l~gk~vlViG~G~~~G~~~a~~L~~~g~~V---~v~~r~~-----~~l~~~l~~aDiVIsat~~~ 98 (168)
T cd01080 27 TPAGILELLKRYGIDLAGKKVVVVGRSNIVGKPLAALLLNRNATV---TVCHSKT-----KNLKEHTKQADIVIVAVGKP 98 (168)
T ss_pred hHHHHHHHHHHcCCCCCCCEEEEECCcHHHHHHHHHHHhhCCCEE---EEEECCc-----hhHHHHHhhCCEEEEcCCCC
Confidence 5566666555442 3679999998876 3666899999998854 3333321 23445567899888777764
No 203
>PRK05786 fabG 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
Probab=63.48 E-value=81 Score=26.20 Aligned_cols=84 Identities=12% Similarity=0.088 Sum_probs=46.4
Q ss_pred CCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEE--EeCHHHHHHHHHHHHHc
Q 024773 48 NSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWII--ITSPEAGSVFLEAWKEA 124 (262)
Q Consensus 48 l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~Ii--FTS~~aV~~f~~~l~~~ 124 (262)
+.|++|+||..... ...+.+.|.+.|++|+.. .+.. ...+.+...+...+.+.++- ++....++.+++.....
T Consensus 3 ~~~~~vlItGa~g~iG~~~a~~l~~~G~~V~~~--~r~~--~~~~~~~~~~~~~~~~~~~~~Dl~~~~~~~~~~~~~~~~ 78 (238)
T PRK05786 3 LKGKKVAIIGVSEGLGYAVAYFALKEGAQVCIN--SRNE--NKLKRMKKTLSKYGNIHYVVGDVSSTESARNVIEKAAKV 78 (238)
T ss_pred cCCcEEEEECCCchHHHHHHHHHHHCCCEEEEE--eCCH--HHHHHHHHHHHhcCCeEEEECCCCCHHHHHHHHHHHHHH
Confidence 56899999988653 467888999999987643 1111 11112222222222233321 37788888887765442
Q ss_pred -CCCCcEEEEeC
Q 024773 125 -GTPNVRIGVVG 135 (262)
Q Consensus 125 -~~~~~~i~aVG 135 (262)
+.-+.-+.+.|
T Consensus 79 ~~~id~ii~~ag 90 (238)
T PRK05786 79 LNAIDGLVVTVG 90 (238)
T ss_pred hCCCCEEEEcCC
Confidence 21133444555
No 204
>PRK05569 flavodoxin; Provisional
Probab=63.38 E-value=39 Score=26.14 Aligned_cols=35 Identities=20% Similarity=0.241 Sum_probs=16.6
Q ss_pred CCCCEEEEeCHH---------HHHHHHHHhcccCCCCCeEEEEC
Q 024773 227 LSIPVVAVASPS---------AVRSWVNLISDTEQWSNSVACIA 261 (262)
Q Consensus 227 ~~~d~ivFtS~s---------~~~~~~~~~~~~~~~~~~i~~IG 261 (262)
...|.|+|-||. .+..|++.+......+.+++.+|
T Consensus 47 ~~~d~iilgsPty~~~~~~~~~~~~~~~~l~~~~~~~K~v~~f~ 90 (141)
T PRK05569 47 LEADAVAFGSPSMDNNNIEQEEMAPFLDQFKLTPNENKKCILFG 90 (141)
T ss_pred hhCCEEEEECCCcCCCcCChHHHHHHHHHhhccCcCCCEEEEEe
Confidence 355666666653 24445554433222344554443
No 205
>cd01537 PBP1_Repressors_Sugar_Binding_like Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems. Ligand-binding domain of the LacI-GalR family of transcription regulators and the sugar-binding domain of ABC-type transport systems, all of which contain the type I periplasmic binding protein-like fold. Their specific ligands include lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor; in general the sugar binding domain in this family binds a sugar, which in turn changes the DNA binding activity of the repressor domain. The core structure of the periplasmic binding proteins is classified into two types and they differ in number and order of beta strands in each domain: type I, which has six beta strands, and type II, which has five beta strands. These two distinct structural arrangem
Probab=63.17 E-value=39 Score=28.06 Aligned_cols=47 Identities=17% Similarity=0.119 Sum_probs=29.7
Q ss_pred HHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChhHH
Q 024773 93 LSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAGTA 139 (262)
Q Consensus 93 l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~Ta 139 (262)
+.+.+....+.|+++.++......+...+.+.+. .++.+++.+....
T Consensus 169 ~~~~l~~~~~~~~i~~~~~~~a~~~~~~~~~~g~~i~~~i~i~~~d~~~~ 218 (264)
T cd01537 169 AEELLTAHPDPTAIFAANDDMALGALRALREAGLRVPDDISVIGFDGTPE 218 (264)
T ss_pred HHHHHhcCCCCCEEEEcCcHHHHHHHHHHHHhCCCCCCCeEEEeecCccH
Confidence 3344433345888888886666667777777765 3667777765443
No 206
>cd01972 Nitrogenase_VnfE_like Nitrogenase_VnfE_like: VnfE subunit of the VnfEN complex_like. This group in addition to VnfE contains a subset of the alpha subunit of the nitrogenase MoFe protein and NifE-like proteins. The nitrogenase enzyme system catalyzes the ATP-dependent reduction of dinitrogen to ammonia. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of MoFe protein of the molybdenum(Mo)-nitrogenase. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to NifEN where it is further processed to FeMoco. VnfEN may similarly be a scaffolding protein for the iron-vanadium cofactor (FeVco) of the vanadium-dependent (V)-nitrogenase. NifE and NifN are essential for the Mo-nitrogenase, VnfE and VnfN are not essential for the V-nitrogenase. NifE and NifN can substitute when the vnfEN genes are inactivated.
Probab=63.13 E-value=1.1e+02 Score=28.72 Aligned_cols=138 Identities=12% Similarity=0.091 Sum_probs=78.7
Q ss_pred ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHH-cCCCCcEE-EEeCh-h
Q 024773 61 KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKE-AGTPNVRI-GVVGA-G 137 (262)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~-~~~~~~~i-~aVG~-~ 137 (262)
+-.++.+.|++.|++|..++... ...++ +..+.+...-+..++..-..+.+.+++ .+.+-..+ +-+|. .
T Consensus 180 d~~ei~~lL~~~Gi~v~~~~~~~----~~~~e----i~~~~~A~lniv~~~~~g~~~a~~Lee~~GiP~~~~~~P~G~~~ 251 (426)
T cd01972 180 DVDEFKRLLNELGLRVNAIIAGG----CSVEE----LERASEAAANVTLCLDLGYYLGAALEQRFGVPEIKAPQPYGIEA 251 (426)
T ss_pred cHHHHHHHHHHcCCeEEEEeCCC----CCHHH----HHhcccCCEEEEEChhHHHHHHHHHHHHhCCCeEecCCccCHHH
Confidence 34789999999999998653321 12222 346677888888887655666676754 44432222 22564 4
Q ss_pred HHHHHHHhhhhcCCCCceeecCCC--CCHHHHHHHhhhC--CCCccEEEEEccCCChhhHHHHHHhCC-CeeeEEee
Q 024773 138 TASIFEEVIQSSKCSLDVAFSPSK--ATGKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSNRG-FEVVRLNT 209 (262)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~~~p~~--~t~e~L~~~l~~~--~~~g~~vL~~~g~~~~~~L~~~L~~~G-~~v~~i~v 209 (262)
|.+.|++... +.|.... .++. ..-+.+.+.+... ...|+|+.+..+....-.+...|.+.| ..|..+.+
T Consensus 252 T~~~l~~ia~--~~g~~~~-~e~~i~~e~~~~~~~l~~~~~~l~Gk~~~i~~~~~~~~~~~~~l~elG~~~v~~~~~ 325 (426)
T cd01972 252 TDKWLREIAK--VLGMEAE-AEAVIEREHERVAPEIEELRKALKGKKAIVETGAAYGHLLIAVLRELGFGEVPVVLV 325 (426)
T ss_pred HHHHHHHHHH--HhCCcHH-HHHHHHHHHHHHHHHHHHHHHHhCCCEEEEEeCCccHHHHHHHHHHcCCceEEEEEe
Confidence 5555555411 1154211 1100 0001112222211 125788888888777778889999999 88766555
No 207
>TIGR03427 ABC_peri_uca ABC transporter periplasmic binding protein, urea carboxylase region. Members of this family are ABC transporter periplasmic binding proteins associated with the urea carboxylase/allophanate hydrolase pathway, an alternative to urease for urea degradation. The protein is restricted to bacteria with the pathway, with its gene close to the urea carboxylase and allophanate hydrolase genes. The substrate for this transporter therefore is likely to be urea or a compound from which urea is easily derived.
Probab=62.70 E-value=1.2e+02 Score=27.52 Aligned_cols=140 Identities=14% Similarity=0.075 Sum_probs=82.8
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFE 143 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~ 143 (262)
.+.+.|++.|.+|...+.- ...+.+. .+ ..+..|...+++..++-... ..+. +.++++++...
T Consensus 25 ~fe~~l~~~Gl~Ve~~~f~-----~~~~~l~-Al-~aG~iD~~~~g~~~~~~~~~----a~g~-~~~iv~v~~~~----- 87 (328)
T TIGR03427 25 IVDKWADKYGITIEVVQIN-----DYVESIN-QY-TAGKFDGCTMTNMDALTIPA----AGGV-DTTALIVGDFS----- 87 (328)
T ss_pred chhhhHHHcCCeEEEEECC-----ChHHHHH-HH-HcCCCCEEeecCHHHHHHHH----hCCC-CeEEEEEEccC-----
Confidence 4556777888887655331 1123333 33 24789988888776653221 1222 45677766421
Q ss_pred HhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHH
Q 024773 144 EVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVL 223 (262)
Q Consensus 144 ~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~ 223 (262)
. |-...+.+. ++.+.+ .+|++|-+.+|..+.-.|...|++.|.....+.+-...+ .+..
T Consensus 88 -~------g~~~ivv~~-------i~svaD--LKGKkIav~~gs~~~~ll~~aL~~aGL~~~DV~~v~~~~-----~d~~ 146 (328)
T TIGR03427 88 -N------GNDGIVLKG-------GKSLAD--LKGQKVNLVELSVSHYLLARALESVGLSEKDVKVVNTSD-----ADIV 146 (328)
T ss_pred -C------CceEEEECC-------CCCHHH--cCCCEEeccCCChHHHHHHHHHHHcCCCHHHeEEEeCCh-----HHHH
Confidence 2 333333332 122222 268999999998888888999999999866665544322 1222
Q ss_pred HHc--CCCCEEEEeCHHHHH
Q 024773 224 KQA--LSIPVVAVASPSAVR 241 (262)
Q Consensus 224 ~~l--~~~d~ivFtS~s~~~ 241 (262)
..+ +++|+++..-|....
T Consensus 147 aAl~~G~VDAa~~~eP~~s~ 166 (328)
T TIGR03427 147 AAFITKDVTAVVTWNPQLSE 166 (328)
T ss_pred HHHhcCCCcEEEEcCchHHH
Confidence 333 489999988887543
No 208
>PRK11303 DNA-binding transcriptional regulator FruR; Provisional
Probab=62.64 E-value=56 Score=28.80 Aligned_cols=86 Identities=13% Similarity=0.106 Sum_probs=47.3
Q ss_pred CCeEEEeCCCCC-------hHHHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHH
Q 024773 50 NPKVVVTRERGK-------NGKLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEA 120 (262)
Q Consensus 50 g~~VLitR~~~~-------~~~l~~~L~~~G~~v~~~P~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~ 120 (262)
.++|++..+... ..-+.+.++++|..+.. .+......+ .+.+...+..-..+|+|+.++-......++.
T Consensus 179 ~r~I~~i~~~~~~~~~~~R~~Gf~~al~~~g~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~A~g~~~a 256 (328)
T PRK11303 179 AESILLLGALPELSVSFEREQGFRQALKDDPREVHY--LYANSFEREAGAQLFEKWLETHPMPDALFTTSYTLLQGVLDV 256 (328)
T ss_pred CCeEEEEeCccccccHHHHHHHHHHHHHHcCCCceE--EEeCCCChHHHHHHHHHHHcCCCCCCEEEEcCcHHHHHHHHH
Confidence 356776643221 13456777888875422 111100001 1233444433345788888887766667777
Q ss_pred HHHcCC---CCcEEEEeChh
Q 024773 121 WKEAGT---PNVRIGVVGAG 137 (262)
Q Consensus 121 l~~~~~---~~~~i~aVG~~ 137 (262)
+.+.+. +++.|++.+..
T Consensus 257 l~~~g~~vP~disv~gfd~~ 276 (328)
T PRK11303 257 LLERPGELPSDLAIATFGDN 276 (328)
T ss_pred HHHcCCCCCCceEEEEeCCh
Confidence 777664 36777777754
No 209
>PRK06703 flavodoxin; Provisional
Probab=62.23 E-value=38 Score=26.67 Aligned_cols=14 Identities=7% Similarity=-0.012 Sum_probs=7.9
Q ss_pred CCCCHHHHHHHhhh
Q 024773 160 SKATGKILASELPK 173 (262)
Q Consensus 160 ~~~t~e~L~~~l~~ 173 (262)
...+.+.+++.|.+
T Consensus 11 ~tGnT~~iA~~ia~ 24 (151)
T PRK06703 11 MSGNTEDIADLIKV 24 (151)
T ss_pred CCchHHHHHHHHHH
Confidence 44566666665543
No 210
>PRK06849 hypothetical protein; Provisional
Probab=62.16 E-value=55 Score=30.18 Aligned_cols=90 Identities=16% Similarity=0.132 Sum_probs=52.5
Q ss_pred CCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEE--------------ee--eCCCc----hHHHHHHhcCCCccEEE
Q 024773 49 SNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQ--------------HA--QGPDT----DRLSSVLNADTIFDWII 107 (262)
Q Consensus 49 ~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~--------------~~--~~~~~----~~l~~~l~~l~~~d~Ii 107 (262)
.+++||||..... .-.+++.|.++|++|+.+-.-. .. |..+. +.+.+.++ -.++|.||
T Consensus 3 ~~~~VLI~G~~~~~~l~iar~l~~~G~~Vi~~d~~~~~~~~~s~~~d~~~~~p~p~~d~~~~~~~L~~i~~-~~~id~vI 81 (389)
T PRK06849 3 TKKTVLITGARAPAALELARLFHNAGHTVILADSLKYPLSRFSRAVDGFYTIPSPRWDPDAYIQALLSIVQ-RENIDLLI 81 (389)
T ss_pred CCCEEEEeCCCcHHHHHHHHHHHHCCCEEEEEeCCchHHHHHHHhhhheEEeCCCCCCHHHHHHHHHHHHH-HcCCCEEE
Confidence 4689999987753 4679999999999997652221 12 11121 22333332 25689999
Q ss_pred EeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHH
Q 024773 108 ITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASI 141 (262)
Q Consensus 108 FTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~ 141 (262)
-|+-.. .+.....+.-.+...+.+-++.+.+.
T Consensus 82 P~~e~~--~~~a~~~~~l~~~~~v~~~~~~~~~~ 113 (389)
T PRK06849 82 PTCEEV--FYLSHAKEELSAYCEVLHFDFELLLL 113 (389)
T ss_pred ECChHH--HhHHhhhhhhcCCcEEEcCCHHHHHH
Confidence 998753 33332222211355666666665544
No 211
>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=62.04 E-value=46 Score=28.37 Aligned_cols=87 Identities=16% Similarity=0.143 Sum_probs=49.0
Q ss_pred CeEEEeCCCCC-------hHHHHHHHHhC-CCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHH
Q 024773 51 PKVVVTRERGK-------NGKLIKALAKH-RIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWK 122 (262)
Q Consensus 51 ~~VLitR~~~~-------~~~l~~~L~~~-G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~ 122 (262)
++|++..+... ..-+.+.++++ |.++.........+......+.+.+..-.+.|+|++.+-..+..+.+.+.
T Consensus 123 ~~i~~l~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~al~ 202 (275)
T cd06320 123 GKVAIIEGKAGAFAAEQRTEGFTEAIKKASGIEVVASQPADWDREKAYDVATTILQRNPDLKAIYCNNDTMALGVVEAVK 202 (275)
T ss_pred ceEEEEeCCCCCccHHHHHHHHHHHHhhCCCcEEEEecCCCccHHHHHHHHHHHHHhCCCccEEEECCchhHHHHHHHHH
Confidence 47776643211 13466777787 77665321111111001123444554445688888888887777888887
Q ss_pred HcCCC-CcEEEEeChh
Q 024773 123 EAGTP-NVRIGVVGAG 137 (262)
Q Consensus 123 ~~~~~-~~~i~aVG~~ 137 (262)
+.+.. ++.|++.+..
T Consensus 203 ~~g~~~di~vig~d~~ 218 (275)
T cd06320 203 NAGKQGKVLVVGTDGI 218 (275)
T ss_pred hcCCCCCeEEEecCCC
Confidence 77653 5666666654
No 212
>COG4635 HemG Flavodoxin [Energy production and conversion / Coenzyme metabolism]
Probab=61.77 E-value=21 Score=29.26 Aligned_cols=64 Identities=17% Similarity=0.024 Sum_probs=42.3
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHH--------cCCCCcEEEEe
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKE--------AGTPNVRIGVV 134 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~--------~~~~~~~i~aV 134 (262)
+.++..|++.|++|...|+-+... + ++++||.||+-++-=-.+|-+.+.+ ......-++||
T Consensus 19 ~~iA~~L~e~g~qvdi~dl~~~~~----------~-~l~~ydavVIgAsI~~~h~~~~~~~Fv~k~~e~L~~kP~A~f~v 87 (175)
T COG4635 19 EYIASHLRESGIQVDIQDLHAVEE----------P-ALEDYDAVVIGASIRYGHFHEAVQSFVKKHAEALSTKPSAFFSV 87 (175)
T ss_pred HHHHHHhhhcCCeeeeeehhhhhc----------c-ChhhCceEEEecchhhhhhHHHHHHHHHHHHHHHhcCCceEEEe
Confidence 567788889999998776654432 1 4688999999988655555444332 11234567888
Q ss_pred Chh
Q 024773 135 GAG 137 (262)
Q Consensus 135 G~~ 137 (262)
+..
T Consensus 88 nl~ 90 (175)
T COG4635 88 NLT 90 (175)
T ss_pred ehh
Confidence 864
No 213
>PRK07308 flavodoxin; Validated
Probab=61.68 E-value=26 Score=27.48 Aligned_cols=74 Identities=19% Similarity=0.130 Sum_probs=41.3
Q ss_pred eEEEeCCCCChHHH----HHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH--------HHHHHHH
Q 024773 52 KVVVTRERGKNGKL----IKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE--------AGSVFLE 119 (262)
Q Consensus 52 ~VLitR~~~~~~~l----~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~--------aV~~f~~ 119 (262)
+|++.......+.+ .+.|++.|..+...++-.. +. ..+.++|.|+|-|+. .+..|++
T Consensus 5 ~IvY~S~tGnTe~iA~~ia~~l~~~g~~~~~~~~~~~----~~-------~~l~~~d~vi~g~~t~g~G~~p~~~~~fl~ 73 (146)
T PRK07308 5 KIVYASMTGNTEEIADIVADKLRELGHDVDVDECTTV----DA-------SDFEDADIAIVATYTYGDGELPDEIVDFYE 73 (146)
T ss_pred EEEEECCCchHHHHHHHHHHHHHhCCCceEEEecccC----CH-------hHhccCCEEEEEeCccCCCCCCHHHHHHHH
Confidence 45554444444444 4556667776653322111 11 134678888887754 3566666
Q ss_pred HHHHcCCCCcEEEEeCh
Q 024773 120 AWKEAGTPNVRIGVVGA 136 (262)
Q Consensus 120 ~l~~~~~~~~~i~aVG~ 136 (262)
.+......+.+++++|-
T Consensus 74 ~l~~~~l~~k~~~vfG~ 90 (146)
T PRK07308 74 DLADLDLSGKIYGVVGS 90 (146)
T ss_pred HHhcCCCCCCEEEEEee
Confidence 66555555667777665
No 214
>PRK07791 short chain dehydrogenase; Provisional
Probab=61.63 E-value=1.1e+02 Score=26.69 Aligned_cols=75 Identities=15% Similarity=0.058 Sum_probs=43.1
Q ss_pred CCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEE-ee---eC-CCchHHHHHHhcCCCccEEE----EeCHHHHHHH
Q 024773 48 NSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQ-HA---QG-PDTDRLSSVLNADTIFDWII----ITSPEAGSVF 117 (262)
Q Consensus 48 l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~-~~---~~-~~~~~l~~~l~~l~~~d~Ii----FTS~~aV~~f 117 (262)
+.|+++|||..... ...+++.|.+.|++++..-.-. .. .. ...+.+...+... .....+ +|+..+++.+
T Consensus 4 l~~k~~lITGas~GIG~aia~~la~~G~~vii~~~~~~~~~~~~~~~~~~~~~~~l~~~-~~~~~~~~~Dv~~~~~v~~~ 82 (286)
T PRK07791 4 LDGRVVIVTGAGGGIGRAHALAFAAEGARVVVNDIGVGLDGSASGGSAAQAVVDEIVAA-GGEAVANGDDIADWDGAANL 82 (286)
T ss_pred cCCCEEEEECCCchHHHHHHHHHHHCCCEEEEeeCCccccccccchhHHHHHHHHHHhc-CCceEEEeCCCCCHHHHHHH
Confidence 67899999988764 4678889999999886542111 00 00 0111222222221 112222 5788889888
Q ss_pred HHHHHH
Q 024773 118 LEAWKE 123 (262)
Q Consensus 118 ~~~l~~ 123 (262)
++.+.+
T Consensus 83 ~~~~~~ 88 (286)
T PRK07791 83 VDAAVE 88 (286)
T ss_pred HHHHHH
Confidence 887654
No 215
>cd01391 Periplasmic_Binding_Protein_Type_1 Type 1 periplasmic binding fold superfamily. Type 1 periplasmic binding fold superfamily. This model and hierarchy represent the ligand binding domains of the LacI family of transcriptional regulators, periplasmic binding proteins of the ABC-type transport systems, the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases including the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domains of the ionotropic glutamate receptors (iGluRs). In LacI-like transcriptional regulator and the bacterial periplasmic binding proteins the ligands are monosaccharides including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars, with a few exceptions. Periplasmic sugar binding proteins are one of the components of ABC transporters and are involved in the active transport of water-soluble ligands. The LacI family of proteins con
Probab=61.50 E-value=52 Score=26.90 Aligned_cols=73 Identities=22% Similarity=0.161 Sum_probs=37.5
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC--CCcEEEEeCh
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT--PNVRIGVVGA 136 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~--~~~~i~aVG~ 136 (262)
.+.+.+++.|.++............+.+.+...++...+.++|++.+......++..+.+.+. ++..+++.+.
T Consensus 144 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~~~~a~~~~~~~~~~g~~~~~~~ii~~~~ 218 (269)
T cd01391 144 GFKAALKKAGIEVVAIEYGDLDTEKGFQALLQLLKAAPKPDAIFACNDEMAAGALKAAREAGLTPGDISIIGFDG 218 (269)
T ss_pred HHHHHHHhcCcEEEeccccCCCccccHHHHHHHHhcCCCCCEEEEcCchHHHHHHHHHHHcCCCCCCCEEEeccc
Confidence 344555666644433222221111122334444433235677777777667777777777665 3556665554
No 216
>PRK09739 hypothetical protein; Provisional
Probab=61.44 E-value=24 Score=29.40 Aligned_cols=58 Identities=14% Similarity=0.262 Sum_probs=38.6
Q ss_pred hhHHHHHHhCCCeeeEEeeeccccC------------------CCChHHHHHHcCCCCEEEEeCH-------HHHHHHHH
Q 024773 191 NEIEEGLSNRGFEVVRLNTYTTEPV------------------HHVDQTVLKQALSIPVVAVASP-------SAVRSWVN 245 (262)
Q Consensus 191 ~~L~~~L~~~G~~v~~i~vY~~~~~------------------~~~~~~~~~~l~~~d~ivFtS~-------s~~~~~~~ 245 (262)
+.+.+.+++.|.+++.+.+|+.... .....++.+.+...|.|||.+| ...+.|++
T Consensus 24 ~~~~~~~~~~g~~v~~~dL~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~AD~iV~~~P~y~~~~Pa~LK~~iD 103 (199)
T PRK09739 24 EAIHQRAQERGHQVEELDLYRSGFDPVLTPEDEPDWKNPDKRYSPEVHQLYSELLEHDALVFVFPLWWYSFPAMLKGYID 103 (199)
T ss_pred HHHHHHHHHCCCEEEEEEhhhhCCCCCCCHHHhhhhcccCCCCCHHHHHHHHHHHhCCEEEEECchhhhcchHHHHHHHH
Confidence 4556677778888888888874211 0111234455668999999997 67788888
Q ss_pred Hhc
Q 024773 246 LIS 248 (262)
Q Consensus 246 ~~~ 248 (262)
.+-
T Consensus 104 ~v~ 106 (199)
T PRK09739 104 RVW 106 (199)
T ss_pred HHc
Confidence 763
No 217
>PRK07533 enoyl-(acyl carrier protein) reductase; Provisional
Probab=61.25 E-value=1e+02 Score=26.27 Aligned_cols=86 Identities=6% Similarity=-0.016 Sum_probs=49.2
Q ss_pred CCCCCCeEEEeCCC---CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccE--EEEeCHHHHHHHHHH
Q 024773 46 ASNSNPKVVVTRER---GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDW--IIITSPEAGSVFLEA 120 (262)
Q Consensus 46 ~~l~g~~VLitR~~---~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~--IiFTS~~aV~~f~~~ 120 (262)
..+.||++|||... .=...+++.|.+.|++|... .+... ..+.+++...+++...+ .=+|+..+++.+++.
T Consensus 6 ~~~~~k~~lItGas~g~GIG~a~a~~la~~G~~v~l~--~r~~~--~~~~~~~~~~~~~~~~~~~~D~~~~~~v~~~~~~ 81 (258)
T PRK07533 6 LPLAGKRGLVVGIANEQSIAWGCARAFRALGAELAVT--YLNDK--ARPYVEPLAEELDAPIFLPLDVREPGQLEAVFAR 81 (258)
T ss_pred cccCCCEEEEECCCCCCcHHHHHHHHHHHcCCEEEEE--eCChh--hHHHHHHHHHhhccceEEecCcCCHHHHHHHHHH
Confidence 34679999999875 33578999999999987653 22211 11112222222222111 113889999999888
Q ss_pred HHHc-CCCCcEEEEeC
Q 024773 121 WKEA-GTPNVRIGVVG 135 (262)
Q Consensus 121 l~~~-~~~~~~i~aVG 135 (262)
+.+. +.-+.-|.+.|
T Consensus 82 ~~~~~g~ld~lv~nAg 97 (258)
T PRK07533 82 IAEEWGRLDFLLHSIA 97 (258)
T ss_pred HHHHcCCCCEEEEcCc
Confidence 7653 32234444444
No 218
>PF00389 2-Hacid_dh: D-isomer specific 2-hydroxyacid dehydrogenase, catalytic domain; InterPro: IPR006139 A number of NAD-dependent 2-hydroxyacid dehydrogenases which seem to be specific for the D-isomer of their substrate have been shown to be functionally and structurally related. The catalytic domain contains a number of conserved charged residues which may play a role in the catalytic mechanism. The NAD-binding domain is described in IPR006140 from INTERPRO ; GO: 0016616 oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor, 0051287 NAD binding, 0008152 metabolic process, 0055114 oxidation-reduction process; PDB: 2DLD_A 2G76_B 3DC2_B 1YGY_B 3DDN_A 3KB6_B 3K5P_A 3EVT_A 1WWK_B 1GDH_A ....
Probab=61.19 E-value=28 Score=26.81 Aligned_cols=95 Identities=19% Similarity=0.163 Sum_probs=56.1
Q ss_pred EEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHH-HHHHHHHHHcCCCCcEE
Q 024773 53 VVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAG-SVFLEAWKEAGTPNVRI 131 (262)
Q Consensus 53 VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV-~~f~~~l~~~~~~~~~i 131 (262)
||++.+- .+...+.|++ |+++...+ ..+.+++.+. +.++|+++..+...+ +.+++.+. ++|+
T Consensus 1 ili~~~~--~~~~~~~l~~-~~~v~~~~------~~~~~~~~~~---l~~~d~ii~~~~~~~~~~~l~~~~-----~Lk~ 63 (133)
T PF00389_consen 1 ILITDPL--PDEEIERLEE-GFEVEFCD------SPSEEELAER---LKDADAIIVGSGTPLTAEVLEAAP-----NLKL 63 (133)
T ss_dssp EEESSS---SHHHHHHHHH-TSEEEEES------SSSHHHHHHH---HTTESEEEESTTSTBSHHHHHHHT-----T-SE
T ss_pred eEEeccC--CHHHHHHHHC-CceEEEeC------CCCHHHHHHH---hCCCeEEEEcCCCCcCHHHHhccc-----eeEE
Confidence 6778653 5667788888 77777665 2233334333 478999998877622 44445442 3343
Q ss_pred EE---eCh--hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHh
Q 024773 132 GV---VGA--GTASIFEEVIQSSKCSLDVAFSPSKATGKILASEL 171 (262)
Q Consensus 132 ~a---VG~--~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l 171 (262)
++ +|- ---+++++. |+.+.-.|. ++.+.+++..
T Consensus 64 I~~~~~G~d~id~~~a~~~------gI~V~n~~g-~~~~aVAE~a 101 (133)
T PF00389_consen 64 ISTAGAGVDNIDLEAAKER------GIPVTNVPG-YNAEAVAEHA 101 (133)
T ss_dssp EEESSSSCTTB-HHHHHHT------TSEEEE-TT-TTHHHHHHHH
T ss_pred EEEcccccCcccHHHHhhC------eEEEEEeCC-cCCcchhccc
Confidence 32 221 236788888 998866664 6677776654
No 219
>PRK07453 protochlorophyllide oxidoreductase; Validated
Probab=61.05 E-value=1e+02 Score=27.39 Aligned_cols=70 Identities=13% Similarity=0.155 Sum_probs=42.5
Q ss_pred CCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC----CCccE--EEEeCHHHHHHHHHH
Q 024773 48 NSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD----TIFDW--IIITSPEAGSVFLEA 120 (262)
Q Consensus 48 l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l----~~~d~--IiFTS~~aV~~f~~~ 120 (262)
..|++|+||..... ...+++.|.+.|++|+..- + +.+........+ ....+ +=+++..+++.+++.
T Consensus 4 ~~~k~vlVTGas~gIG~~~a~~L~~~G~~V~~~~--r-----~~~~~~~~~~~l~~~~~~~~~~~~Dl~~~~~v~~~~~~ 76 (322)
T PRK07453 4 DAKGTVIITGASSGVGLYAAKALAKRGWHVIMAC--R-----NLKKAEAAAQELGIPPDSYTIIHIDLGDLDSVRRFVDD 76 (322)
T ss_pred CCCCEEEEEcCCChHHHHHHHHHHHCCCEEEEEE--C-----CHHHHHHHHHHhhccCCceEEEEecCCCHHHHHHHHHH
Confidence 45899999987654 4678899999998875431 1 112222222222 12222 235889999998887
Q ss_pred HHHc
Q 024773 121 WKEA 124 (262)
Q Consensus 121 l~~~ 124 (262)
+.+.
T Consensus 77 ~~~~ 80 (322)
T PRK07453 77 FRAL 80 (322)
T ss_pred HHHh
Confidence 6543
No 220
>cd01080 NAD_bind_m-THF_DH_Cyclohyd NADP binding domain of methylene-tetrahydrofolate dehydrogenase/cyclohydrolase. NADP binding domain of the Methylene-Tetrahydrofolate Dehydrogenase/cyclohydrolase (m-THF DH/cyclohydrolase) bifunctional enzyme. Tetrahydrofolate is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. In addition, most DHs also have an associated cyclohydrolase activity which catalyzes its hydrolysis to N10-formyltetrahydrofolate. m-THF DH is typically found as part of a multifunctional protein in eukaryotes. NADP-dependent m-THF DH in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional DH/cyclodrolase form. In bacteria, monofucntional DH, as well a
Probab=60.98 E-value=30 Score=28.30 Aligned_cols=58 Identities=17% Similarity=0.127 Sum_probs=39.5
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHH
Q 024773 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEA 113 (262)
Q Consensus 46 ~~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~a 113 (262)
..+.|++|+|.....- ...+++.|.+.|+++...- ...+++.+. +.++|.||.+++..
T Consensus 40 ~~l~gk~vlViG~G~~~G~~~a~~L~~~g~~V~v~~-------r~~~~l~~~---l~~aDiVIsat~~~ 98 (168)
T cd01080 40 IDLAGKKVVVVGRSNIVGKPLAALLLNRNATVTVCH-------SKTKNLKEH---TKQADIVIVAVGKP 98 (168)
T ss_pred CCCCCCEEEEECCcHHHHHHHHHHHhhCCCEEEEEE-------CCchhHHHH---HhhCCEEEEcCCCC
Confidence 4688999999988764 5569999999998654222 112333333 46788888777664
No 221
>PRK05579 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate synthase; Validated
Probab=60.90 E-value=42 Score=31.53 Aligned_cols=34 Identities=21% Similarity=0.242 Sum_probs=28.2
Q ss_pred CCCCCCeEEEeCC----------------CC-ChHHHHHHHHhCCCcEEEe
Q 024773 46 ASNSNPKVVVTRE----------------RG-KNGKLIKALAKHRIDCLEL 79 (262)
Q Consensus 46 ~~l~g~~VLitR~----------------~~-~~~~l~~~L~~~G~~v~~~ 79 (262)
.++.|++||||.+ .. -...+++.|..+|++|..+
T Consensus 184 ~~l~gk~vlITgG~T~E~ID~VR~isN~SSG~~G~aiA~~l~~~Ga~V~~v 234 (399)
T PRK05579 184 KDLAGKRVLITAGPTREPIDPVRYITNRSSGKMGYALARAAARRGADVTLV 234 (399)
T ss_pred cccCCCEEEEeCCCccccccceeeeccCCcchHHHHHHHHHHHCCCEEEEe
Confidence 5689999999988 33 2678999999999999754
No 222
>PRK09426 methylmalonyl-CoA mutase; Reviewed
Probab=60.78 E-value=73 Score=32.42 Aligned_cols=98 Identities=17% Similarity=0.178 Sum_probs=61.8
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH-----HHHHHHHHHHHcCCCCcEEEEeC--
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE-----AGSVFLEAWKEAGTPNVRIGVVG-- 135 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~-----aV~~f~~~l~~~~~~~~~i~aVG-- 135 (262)
.-....|+..|++|+.-..+ . +.+++.+.. .-.+.|.|+++|.. .+..+.+.+++.+.++++|++=|
T Consensus 600 ~fv~~~l~~~GfeV~~~~~~--~---s~e~~v~aa-~~~~a~ivvlcs~d~~~~e~~~~l~~~Lk~~G~~~v~vl~GG~~ 673 (714)
T PRK09426 600 KVIATAFADLGFDVDIGPLF--Q---TPEEAARQA-VENDVHVVGVSSLAAGHKTLVPALIEALKKLGREDIMVVVGGVI 673 (714)
T ss_pred HHHHHHHHhCCeeEecCCCC--C---CHHHHHHHH-HHcCCCEEEEeccchhhHHHHHHHHHHHHhcCCCCcEEEEeCCC
Confidence 34566888899999543322 1 122222332 23578999998866 45566777777776667777554
Q ss_pred -hhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhh
Q 024773 136 -AGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPK 173 (262)
Q Consensus 136 -~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~ 173 (262)
+...+.+++. |+...+.+. -+...+++.+.+
T Consensus 674 ~~~~~~~l~~a------GvD~~i~~g-~d~~~~L~~l~~ 705 (714)
T PRK09426 674 PPQDYDFLYEA------GVAAIFGPG-TVIADAAIDLLE 705 (714)
T ss_pred ChhhHHHHHhC------CCCEEECCC-CCHHHHHHHHHH
Confidence 4445688888 998755554 466666666554
No 223
>cd06309 PBP1_YtfQ_like Periplasmic binding domain of ABC-type YtfQ-like transport systems. Periplasmic binding domain of ABC-type YtfQ-like transport systems. The YtfQ protein from Escherichia coli is up-regulated under glucose-limited conditions and shares homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their ligand specificity is not determined experimentally.
Probab=60.71 E-value=1e+02 Score=26.10 Aligned_cols=53 Identities=17% Similarity=0.229 Sum_probs=34.8
Q ss_pred HHHHHhcCC-CccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChhHHH--HHHHh
Q 024773 93 LSSVLNADT-IFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAGTAS--IFEEV 145 (262)
Q Consensus 93 l~~~l~~l~-~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~Ta~--~L~~~ 145 (262)
+...+..-. ..|+|+.++-.........+.+.+. +++.|++.+..... .+..-
T Consensus 175 ~~~~l~~~~~~~~aI~~~~d~~a~g~~~a~~~~g~~ip~di~iig~d~~~~~~~~~~~~ 233 (273)
T cd06309 175 MEALLKAHGDDIDAVYAHNDEMALGAIQAIKAAGKKPGKDIKIVSIDGTKDAFQAMADG 233 (273)
T ss_pred HHHHHHhCCCCccEEEECCcHHHHHHHHHHHHcCCCCCCCeEEEecCCCHHHHHHHHcC
Confidence 334443333 6889888888877777787877765 36788888765432 45544
No 224
>COG0623 FabI Enoyl-[acyl-carrier-protein]
Probab=60.60 E-value=1.2e+02 Score=26.64 Aligned_cols=157 Identities=13% Similarity=0.102 Sum_probs=91.1
Q ss_pred CCCCCeEEEeCCCCChH---HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEE---EeCHHHHHHHHHH
Q 024773 47 SNSNPKVVVTRERGKNG---KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWII---ITSPEAGSVFLEA 120 (262)
Q Consensus 47 ~l~g~~VLitR~~~~~~---~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~Ii---FTS~~aV~~f~~~ 120 (262)
-|.|||+||+.-..... -+++.|.++|++... +|..+.. ..++++..+.++. ++++ .|+-..++..++.
T Consensus 3 ~L~GK~~lI~Gvan~rSIAwGIAk~l~~~GAeL~f--Ty~~e~l--~krv~~la~~~~s-~~v~~cDV~~d~~i~~~f~~ 77 (259)
T COG0623 3 LLEGKRILIMGVANNRSIAWGIAKALAEQGAELAF--TYQGERL--EKRVEELAEELGS-DLVLPCDVTNDESIDALFAT 77 (259)
T ss_pred ccCCceEEEEEecccccHHHHHHHHHHHcCCEEEE--EeccHHH--HHHHHHHHhhccC-CeEEecCCCCHHHHHHHHHH
Confidence 47899999997655433 478999999998763 2332221 1233333333332 3333 5788899999999
Q ss_pred HHHcCC-CCcEEEEeChhHHHHHHHhhh-hcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEE---ccCC-------
Q 024773 121 WKEAGT-PNVRIGVVGAGTASIFEEVIQ-SSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYP---ASAK------- 188 (262)
Q Consensus 121 l~~~~~-~~~~i~aVG~~Ta~~L~~~~~-~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~---~g~~------- 188 (262)
+++.+- -+.-+-|||=.-+++|..-|. -+..||.....-..|+--.+++.....-..|..++-+ .++.
T Consensus 78 i~~~~g~lD~lVHsIaFa~k~el~G~~~dtsre~f~~a~~IS~YS~~~lak~a~~lM~~ggSiltLtYlgs~r~vPnYNv 157 (259)
T COG0623 78 IKKKWGKLDGLVHSIAFAPKEELKGDYLDTSREGFLIAMDISAYSFTALAKAARPLMNNGGSILTLTYLGSERVVPNYNV 157 (259)
T ss_pred HHHhhCcccEEEEEeccCChHHhCCcccccCHHHHHhHhhhhHhhHHHHHHHHHHhcCCCCcEEEEEeccceeecCCCch
Confidence 887632 255677888877777754310 0011232222223456666666655554455665544 4422
Q ss_pred ----------ChhhHHHHHHhCCCeeeEEe
Q 024773 189 ----------ASNEIEEGLSNRGFEVVRLN 208 (262)
Q Consensus 189 ----------~~~~L~~~L~~~G~~v~~i~ 208 (262)
.-..|...|-++|++|+.+-
T Consensus 158 MGvAKAaLEasvRyLA~dlG~~gIRVNaIS 187 (259)
T COG0623 158 MGVAKAALEASVRYLAADLGKEGIRVNAIS 187 (259)
T ss_pred hHHHHHHHHHHHHHHHHHhCccCeEEeeec
Confidence 23466777777787776553
No 225
>PRK14188 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=60.59 E-value=1e+02 Score=27.73 Aligned_cols=162 Identities=13% Similarity=0.064 Sum_probs=85.8
Q ss_pred EEEeCCCCChHHHH----HHHHhCCCcEEEeceEEeeeCCCchHHHHHHh---cCCCccEEEEeCHHH--HH--HHHHHH
Q 024773 53 VVVTRERGKNGKLI----KALAKHRIDCLELPLIQHAQGPDTDRLSSVLN---ADTIFDWIIITSPEA--GS--VFLEAW 121 (262)
Q Consensus 53 VLitR~~~~~~~l~----~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~---~l~~~d~IiFTS~~a--V~--~f~~~l 121 (262)
++....+..+..+. +..++.|+++..+-+-+. ...+++.+.+. +..+.|.|++--|-- ++ ..++.+
T Consensus 37 ~i~vg~~~~s~~Yv~~k~k~a~~~Gi~~~~~~l~~~---~~~~el~~~i~~lN~d~~V~GIlvq~Plp~~~~~~~i~~~I 113 (296)
T PRK14188 37 VVLVGEDPASQVYVRSKGKQTKEAGMASFEHKLPAD---TSQAELLALIARLNADPAIHGILVQLPLPKHLDSEAVIQAI 113 (296)
T ss_pred EEEeCCChhHHHHHHHHHHHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHhCCCCCcEEEEeCCCCCCCCHHHHHhcc
Confidence 44444444443343 455667988765433221 12234444544 346789999987732 21 122222
Q ss_pred HHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC--CCccEEEEEc-cCCChhhHHHHHH
Q 024773 122 KEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPA-SAKASNEIEEGLS 198 (262)
Q Consensus 122 ~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~g~~vL~~~-g~~~~~~L~~~L~ 198 (262)
.. ...|=++.+.-...|- . |-. .+.| .|+.+.++.|..+. ..|++++++. +..-..-+...|.
T Consensus 114 ~p----~KDVDGl~~~n~g~l~-~------~~~-~~~P--cTp~ai~~ll~~~~i~~~Gk~V~viGrs~~mG~PmA~~L~ 179 (296)
T PRK14188 114 DP----EKDVDGLHVVNAGRLA-T------GET-ALVP--CTPLGCMMLLRRVHGDLSGLNAVVIGRSNLVGKPMAQLLL 179 (296)
T ss_pred Cc----ccccccCChhhHHHHh-C------CCC-CCcC--CCHHHHHHHHHHhCCCCCCCEEEEEcCCcchHHHHHHHHH
Confidence 11 1222222222222221 2 422 2444 47888888777653 4789998888 7777778999999
Q ss_pred hCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHHH
Q 024773 199 NRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPSA 239 (262)
Q Consensus 199 ~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s~ 239 (262)
+.|+.|+ +|.+... ...+ .....|+|+..-+..
T Consensus 180 ~~g~tVt---v~~~rT~--~l~e---~~~~ADIVIsavg~~ 212 (296)
T PRK14188 180 AANATVT---IAHSRTR--DLPA---VCRRADILVAAVGRP 212 (296)
T ss_pred hCCCEEE---EECCCCC--CHHH---HHhcCCEEEEecCCh
Confidence 9998664 4432111 1222 234678666655543
No 226
>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=60.31 E-value=26 Score=26.17 Aligned_cols=68 Identities=12% Similarity=0.047 Sum_probs=34.9
Q ss_pred ChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHc--CCCCEEEEeC--HHHHHHHHHHhcccC--CCCCeEEEECC
Q 024773 189 ASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVAS--PSAVRSWVNLISDTE--QWSNSVACIAG 262 (262)
Q Consensus 189 ~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l--~~~d~ivFtS--~s~~~~~~~~~~~~~--~~~~~i~~IGp 262 (262)
+-..+...|++.|++|.-+..... .+++.+.+ .+.|+|.|++ ..+.+...+.++..+ .++.+++.=|+
T Consensus 16 Gl~~la~~l~~~G~~v~~~d~~~~------~~~l~~~~~~~~pd~V~iS~~~~~~~~~~~~l~~~~k~~~p~~~iv~GG~ 89 (121)
T PF02310_consen 16 GLLYLAAYLRKAGHEVDILDANVP------PEELVEALRAERPDVVGISVSMTPNLPEAKRLARAIKERNPNIPIVVGGP 89 (121)
T ss_dssp HHHHHHHHHHHTTBEEEEEESSB-------HHHHHHHHHHTTCSEEEEEESSSTHHHHHHHHHHHHHTTCTTSEEEEEES
T ss_pred HHHHHHHHHHHCCCeEEEECCCCC------HHHHHHHHhcCCCcEEEEEccCcCcHHHHHHHHHHHHhcCCCCEEEEECC
Confidence 345677778888886654433221 12333333 3778888865 334444444333221 34566665553
No 227
>TIGR00521 coaBC_dfp phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase, prokaryotic. This model represents a bifunctional enzyme that catalyzes the second and third steps (cysteine ligation, EC 6.3.2.5, and decarboxylation, EC 4.1.1.36) in the biosynthesis of coenzyme A (CoA) from pantothenate in bacteria. In early descriptions of this flavoprotein, a ts mutation in one region of the protein appeared to cause a defect in DNA metaobolism rather than an increased need for the pantothenate precursor beta-alanine. This protein was then called dfp, for DNA/pantothenate metabolism flavoprotein. The authors responsible for detecting phosphopantothenate--cysteine ligase activity suggest renaming this bifunctional protein coaBC for its role in CoA biosynthesis. This enzyme contains the FMN cofactor, but no FAD or pyruvoyl group. The amino-terminal region contains the phosphopantothenoylcysteine decarboxylase activity.
Probab=60.26 E-value=40 Score=31.59 Aligned_cols=34 Identities=18% Similarity=0.106 Sum_probs=27.6
Q ss_pred CCCCCCeEEEeCCCC-----------------ChHHHHHHHHhCCCcEEEe
Q 024773 46 ASNSNPKVVVTRERG-----------------KNGKLIKALAKHRIDCLEL 79 (262)
Q Consensus 46 ~~l~g~~VLitR~~~-----------------~~~~l~~~L~~~G~~v~~~ 79 (262)
.++.|++||||.... ....+++.|..+|++|..+
T Consensus 181 ~~~~~~~vlit~g~t~E~iD~VR~itN~SSG~~g~~~a~~~~~~Ga~V~~~ 231 (390)
T TIGR00521 181 EDLEGKRVLITAGPTREPIDPVRFISNLSSGKMGLALAEAAYKRGADVTLI 231 (390)
T ss_pred cccCCceEEEecCCccCCCCceeeecCCCcchHHHHHHHHHHHCCCEEEEe
Confidence 468899999998732 4578999999999998754
No 228
>PRK06895 putative anthranilate synthase component II; Provisional
Probab=59.82 E-value=94 Score=25.58 Aligned_cols=88 Identities=14% Similarity=0.134 Sum_probs=51.9
Q ss_pred CeEEEeCCCC-ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEe-CHH---HHHHHHHHHHHcC
Q 024773 51 PKVVVTRERG-KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIIT-SPE---AGSVFLEAWKEAG 125 (262)
Q Consensus 51 ~~VLitR~~~-~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFT-S~~---aV~~f~~~l~~~~ 125 (262)
||||+....+ -...+.+.|++.|+++..++..+.. . ..+..+|.||++ ++. ....+.+.+.. -
T Consensus 2 ~~iliid~~dsf~~~i~~~l~~~g~~~~v~~~~~~~----~-------~~l~~~d~iIi~gGp~~~~~~~~~~~~i~~-~ 69 (190)
T PRK06895 2 TKLLIINNHDSFTFNLVDLIRKLGVPMQVVNVEDLD----L-------DEVENFSHILISPGPDVPRAYPQLFAMLER-Y 69 (190)
T ss_pred cEEEEEeCCCchHHHHHHHHHHcCCcEEEEECCccC----h-------hHhccCCEEEECCCCCChHHhhHHHHHHHH-h
Confidence 6788887654 3456999999999988877654321 1 124578999988 444 22222333332 1
Q ss_pred CCCcEEEEeChhHHHHHHHhhhhcCCCCcee
Q 024773 126 TPNVRIGVVGAGTASIFEEVIQSSKCSLDVA 156 (262)
Q Consensus 126 ~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~ 156 (262)
..+++++.|.=. .+.|-..+ |-++.
T Consensus 70 ~~~~PiLGIClG-~Qlla~~~-----Gg~V~ 94 (190)
T PRK06895 70 HQHKSILGVCLG-HQTLCEFF-----GGELY 94 (190)
T ss_pred cCCCCEEEEcHH-HHHHHHHh-----CCeEe
Confidence 236677755543 44555554 76653
No 229
>TIGR00288 conserved hypothetical protein TIGR00288. This family of orthologs is restricted to but universal among the completed archaeal genomes so far. Eubacterial proteins showing at least local homology include slr1870 from Synechocystis PCC6803 and two proteins from Aquifex aeolicusr, none of which is characterized.
Probab=59.75 E-value=95 Score=25.33 Aligned_cols=75 Identities=17% Similarity=0.165 Sum_probs=0.0
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC--CCccE-EEEeCHHHHHHHHHHHHHcCCCCcEEEEeC--hh
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD--TIFDW-IIITSPEAGSVFLEAWKEAGTPNVRIGVVG--AG 137 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l--~~~d~-IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG--~~ 137 (262)
..+.+.|...|++++ ...-..|..-.-.++.-+ +.+|. +++||=.-...+...+.+. +++|+++| +.
T Consensus 69 ~~l~~~l~~~Gf~pv-----~~kG~~Dv~laIDame~~~~~~iD~~vLvSgD~DF~~Lv~~lre~---G~~V~v~g~~~~ 140 (160)
T TIGR00288 69 DKLIEAVVNQGFEPI-----IVAGDVDVRMAVEAMELIYNPNIDAVALVTRDADFLPVINKAKEN---GKETIVIGAEPG 140 (160)
T ss_pred HHHHHHHHHCCceEE-----EecCcccHHHHHHHHHHhccCCCCEEEEEeccHhHHHHHHHHHHC---CCEEEEEeCCCC
Q ss_pred HHHHHHHh
Q 024773 138 TASIFEEV 145 (262)
Q Consensus 138 Ta~~L~~~ 145 (262)
|+..|++.
T Consensus 141 ts~~L~~a 148 (160)
T TIGR00288 141 FSTALQNS 148 (160)
T ss_pred ChHHHHHh
No 230
>PRK06128 oxidoreductase; Provisional
Probab=59.66 E-value=1.2e+02 Score=26.55 Aligned_cols=87 Identities=11% Similarity=0.098 Sum_probs=48.1
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC-CccEE--EEeCHHHHHHHHHHHH
Q 024773 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT-IFDWI--IITSPEAGSVFLEAWK 122 (262)
Q Consensus 47 ~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~-~~d~I--iFTS~~aV~~f~~~l~ 122 (262)
.+.||+||||..... ...+++.|.+.|++|... +......+.+++...+...+ +..++ =+++...++.+++.+.
T Consensus 52 ~l~~k~vlITGas~gIG~~~a~~l~~~G~~V~i~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dl~~~~~v~~~~~~~~ 129 (300)
T PRK06128 52 RLQGRKALITGADSGIGRATAIAFAREGADIALN--YLPEEEQDAAEVVQLIQAEGRKAVALPGDLKDEAFCRQLVERAV 129 (300)
T ss_pred ccCCCEEEEecCCCcHHHHHHHHHHHcCCEEEEE--eCCcchHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHHH
Confidence 477899999987654 467999999999988632 11110011122333332222 12221 1478888888887654
Q ss_pred Hc-CCCCcEEEEeC
Q 024773 123 EA-GTPNVRIGVVG 135 (262)
Q Consensus 123 ~~-~~~~~~i~aVG 135 (262)
+. +.-+.-|.+.|
T Consensus 130 ~~~g~iD~lV~nAg 143 (300)
T PRK06128 130 KELGGLDILVNIAG 143 (300)
T ss_pred HHhCCCCEEEECCc
Confidence 42 22234444444
No 231
>PF02606 LpxK: Tetraacyldisaccharide-1-P 4'-kinase; InterPro: IPR003758 Tetraacyldisaccharide 4'-kinase phosphorylates the 4'-position of a tetraacyldisaccharide 1-phosphate precursor (DS-1-P) of lipid A, but the enzyme has not yet been purified because of instability []. This enzyme is involved in the synthesis of lipid A portion of the bacterial lipopolysaccharide layer (LPS).; GO: 0005524 ATP binding, 0009029 tetraacyldisaccharide 4'-kinase activity, 0009245 lipid A biosynthetic process
Probab=59.52 E-value=26 Score=31.94 Aligned_cols=73 Identities=11% Similarity=0.073 Sum_probs=49.6
Q ss_pred CCCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHH
Q 024773 45 SASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVF 117 (262)
Q Consensus 45 ~~~l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f 117 (262)
..++.|++|+...+-...+.+.+.|++.|+++...-.+.-...-...+++.........++|+.|-.-+|+.-
T Consensus 222 ~~~l~~~~v~a~sGIg~P~~F~~~L~~~G~~~~~~~~f~DHh~yt~~dl~~l~~~a~~~~~iltTeKDaVKl~ 294 (326)
T PF02606_consen 222 IEPLKGKPVLAFSGIGNPERFFDTLESLGIEVVGTLAFPDHHRYTEQDLEKLEAEAKAAGIILTTEKDAVKLP 294 (326)
T ss_pred hhhccCCeeEEEEEcCChHHHHHHHHHcCCeEEEeeECCCCCCCCHHHHHHHHHhhcccceEEecHHHHhhCh
Confidence 3458999999999988899999999999999884322222211122344444433333348999999999864
No 232
>PRK08605 D-lactate dehydrogenase; Validated
Probab=59.49 E-value=1e+02 Score=28.04 Aligned_cols=130 Identities=14% Similarity=0.125 Sum_probs=68.5
Q ss_pred hcCCCccEEEEeCHHHHH-HHHHHHHHcCCCCcEEE---EeChh--HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHh
Q 024773 98 NADTIFDWIIITSPEAGS-VFLEAWKEAGTPNVRIG---VVGAG--TASIFEEVIQSSKCSLDVAFSPSKATGKILASEL 171 (262)
Q Consensus 98 ~~l~~~d~IiFTS~~aV~-~f~~~l~~~~~~~~~i~---aVG~~--Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l 171 (262)
..+.++|++++.+...+. .+++.+.+. +++++ ..|-- ..+++++. |+.+.-.|. ++++.+++..
T Consensus 41 ~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~lk~I~~~~~G~d~id~~~~~~~------gi~v~n~~~-~~~~~vAE~~ 110 (332)
T PRK08605 41 EEVEGFDGLSLSQQIPLSEAIYKLLNEL---GIKQIAQRSAGFDTYDLELATKY------NLIISNVPS-YSPESIAEFT 110 (332)
T ss_pred HHhcCCCEEEEecCCCCCHHHHHhhhhc---CceEEEEcccccchhhHHHHHHC------CCEEEeCCC-CChHHHHHHH
Confidence 345789998876543332 334444332 23333 23321 23566777 888766553 3333333221
Q ss_pred ------------------hh----C-------CCCccEEEEEccCCChhhHHHHH-HhCCCeeeEEeeeccccCCCC---
Q 024773 172 ------------------PK----N-------GKKKCTVLYPASAKASNEIEEGL-SNRGFEVVRLNTYTTEPVHHV--- 218 (262)
Q Consensus 172 ------------------~~----~-------~~~g~~vL~~~g~~~~~~L~~~L-~~~G~~v~~i~vY~~~~~~~~--- 218 (262)
.+ + ...|+++.+++...-...+...| +..|++| ..|........
T Consensus 111 ~~~~l~~~R~~~~~~~~~~~~~~~~~~~~~~~~l~g~~VgIIG~G~IG~~vA~~L~~~~g~~V---~~~d~~~~~~~~~~ 187 (332)
T PRK08605 111 VTQAINLVRHFNQIQTKVREHDFRWEPPILSRSIKDLKVAVIGTGRIGLAVAKIFAKGYGSDV---VAYDPFPNAKAATY 187 (332)
T ss_pred HHHHHHHhcChHHHHHHHHhCCcccccccccceeCCCEEEEECCCHHHHHHHHHHHhcCCCEE---EEECCCccHhHHhh
Confidence 00 0 12467777777666566788888 5566654 45654332110
Q ss_pred ---hHHHHHHcCCCCEEEEeCHHHH
Q 024773 219 ---DQTVLKQALSIPVVAVASPSAV 240 (262)
Q Consensus 219 ---~~~~~~~l~~~d~ivFtS~s~~ 240 (262)
...+.+.+...|+|++.-|.+.
T Consensus 188 ~~~~~~l~ell~~aDvIvl~lP~t~ 212 (332)
T PRK08605 188 VDYKDTIEEAVEGADIVTLHMPATK 212 (332)
T ss_pred ccccCCHHHHHHhCCEEEEeCCCCc
Confidence 0123333468899999877653
No 233
>PRK00170 azoreductase; Reviewed
Probab=59.36 E-value=23 Score=29.20 Aligned_cols=26 Identities=23% Similarity=0.632 Sum_probs=19.8
Q ss_pred HHHcCCCCEEEEeCH-------HHHHHHHHHhc
Q 024773 223 LKQALSIPVVAVASP-------SAVRSWVNLIS 248 (262)
Q Consensus 223 ~~~l~~~d~ivFtS~-------s~~~~~~~~~~ 248 (262)
.+.+...|.|||.|| ...+.|++.+-
T Consensus 81 ~~~i~~AD~iV~~sP~y~~~~pa~LK~~iDrv~ 113 (201)
T PRK00170 81 LEEFLAADKIVIAAPMYNFSIPTQLKAYIDLIA 113 (201)
T ss_pred HHHHHHCCEEEEeecccccCCcHHHHHHHHhhe
Confidence 344568999999998 67788888863
No 234
>TIGR01327 PGDH D-3-phosphoglycerate dehydrogenase. This model represents a long form of D-3-phosphoglycerate dehydrogenase, the serA gene of one pathway of serine biosynthesis. Shorter forms, scoring between trusted and noise cutoff, include SerA from E. coli.
Probab=59.30 E-value=1.2e+02 Score=29.60 Aligned_cols=162 Identities=14% Similarity=0.103 Sum_probs=87.3
Q ss_pred eEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHH-HHHHHHHHcCCCCcE
Q 024773 52 KVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGS-VFLEAWKEAGTPNVR 130 (262)
Q Consensus 52 ~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~-~f~~~l~~~~~~~~~ 130 (262)
+|+++.+- .+...+.|++.++++...+ ..+.+++ .+.+.++|+++..+...+. .+++. .++.+
T Consensus 1 ~vli~~~~--~~~~~~~l~~~~~~~~~~~------~~~~~~~---~~~~~~~d~li~~~~~~~~~~~l~~-----~~~Lk 64 (525)
T TIGR01327 1 KVLIADPI--SPDGIDILEDVGVEVDVQT------GLSREEL---LEIIPDYDALIVRSATKVTEEVIAA-----APKLK 64 (525)
T ss_pred CEEEeCCC--CHHHHHHHHhcCcEEEeCC------CCCHHHH---HHHhcCCCEEEEcCCCCcCHHHHhh-----CCCce
Confidence 36777653 2445567777776665321 1122333 3346789998876643332 22221 13555
Q ss_pred EEE---eChh--HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhh--------------------C--------CCC
Q 024773 131 IGV---VGAG--TASIFEEVIQSSKCSLDVAFSPSKATGKILASELPK--------------------N--------GKK 177 (262)
Q Consensus 131 i~a---VG~~--Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~--------------------~--------~~~ 177 (262)
+++ +|-- -.+++.+. |+.+.-.|. +++..+++.... + ...
T Consensus 65 ~I~~~~~G~d~id~~~~~~~------gI~V~n~pg-~~~~~vAE~~~~l~L~~~R~~~~~~~~~~~g~W~~~~~~g~~l~ 137 (525)
T TIGR01327 65 VIGRAGVGVDNIDIEAATAR------GILVVNAPT-GNTISAAEHALAMLLAAARNIPQADASLKEGEWDRKAFMGTELY 137 (525)
T ss_pred EEEECCcccchhcHHHHHHC------CCEEEeCCC-cChHHHHHHHHHHHHHHhcCHHHHHHHHHcCCccccccCccccC
Confidence 443 3322 34667778 998766653 344333322110 1 124
Q ss_pred ccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCCC--------hHHHHHHcCCCCEEEEeCHHH
Q 024773 178 KCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHV--------DQTVLKQALSIPVVAVASPSA 239 (262)
Q Consensus 178 g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~--------~~~~~~~l~~~d~ivFtS~s~ 239 (262)
|+++.+++-......+...|+..|++| .+|........ ...+.+.+...|+|++.-|.+
T Consensus 138 gktvgIiG~G~IG~~vA~~l~~fG~~V---~~~d~~~~~~~~~~~g~~~~~~l~ell~~aDvV~l~lPlt 204 (525)
T TIGR01327 138 GKTLGVIGLGRIGSIVAKRAKAFGMKV---LAYDPYISPERAEQLGVELVDDLDELLARADFITVHTPLT 204 (525)
T ss_pred CCEEEEECCCHHHHHHHHHHHhCCCEE---EEECCCCChhHHHhcCCEEcCCHHHHHhhCCEEEEccCCC
Confidence 577877766555667899999999865 44543211100 012333346889999988855
No 235
>cd06282 PBP1_GntR_like_2 Ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors highly similar to that of the repressor specific for gluconate (GntR) which is 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 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
Probab=59.19 E-value=27 Score=29.43 Aligned_cols=71 Identities=11% Similarity=0.062 Sum_probs=41.4
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024773 65 LIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (262)
Q Consensus 65 l~~~L~~~G~~v~~~P~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~ 137 (262)
+.+.++++|.++.. .+......+ .+.+.+.+......|+|++++......+++.+.+.+. +++.+++.+..
T Consensus 139 f~~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~~p~di~v~g~d~~ 214 (266)
T cd06282 139 YRAAMRAAGLAPLP--PVEIPFNTAALPSALLALLTAHPAPTAIFCSNDLLALAVIRALRRLGLRVPDDLSVVGFDGI 214 (266)
T ss_pred HHHHHHHcCCCCCc--cccCCCcHHHHHHHHHHHhcCCCCCCEEEECCcHHHHHHHHHHHHcCCCCCCceEEEeecch
Confidence 45667777765432 111111111 1233334433346799999988877788888888775 35667777654
No 236
>PLN02616 tetrahydrofolate dehydrogenase/cyclohydrolase, putative
Probab=59.09 E-value=83 Score=29.25 Aligned_cols=69 Identities=12% Similarity=-0.061 Sum_probs=44.1
Q ss_pred CCHHHHHHHhhhCC--CCccEE-EEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHH
Q 024773 162 ATGKILASELPKNG--KKKCTV-LYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPS 238 (262)
Q Consensus 162 ~t~e~L~~~l~~~~--~~g~~v-L~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s 238 (262)
-|+.+.++.|..+. ..|+++ ++=||+....-|...|.++|+.|+-+-- .. .. +.+...+.|+||-.-+.
T Consensus 213 CTp~avielL~~y~i~l~GK~vvVIGRS~iVGkPLa~LL~~~~ATVTicHs--~T---~n---l~~~~r~ADIVIsAvGk 284 (364)
T PLN02616 213 CTPKGCIELLHRYNVEIKGKRAVVIGRSNIVGMPAALLLQREDATVSIVHS--RT---KN---PEEITREADIIISAVGQ 284 (364)
T ss_pred CCHHHHHHHHHHhCCCCCCCEEEEECCCccccHHHHHHHHHCCCeEEEeCC--CC---CC---HHHHHhhCCEEEEcCCC
Confidence 47888888887653 357775 4456666777899999999988854422 11 11 22223578888765543
No 237
>PF05991 NYN_YacP: YacP-like NYN domain; InterPro: IPR010298 This family consists of several hypothetical bacterial proteins as well as some uncharacterised sequences from Arabidopsis thaliana. The function of this family is unknown.
Probab=58.93 E-value=24 Score=28.80 Aligned_cols=50 Identities=22% Similarity=0.270 Sum_probs=39.1
Q ss_pred CCceeecCCCCCHHHHHHHhhhCCCC-ccEEEEEccCCChhhHHHHHHhCCCee
Q 024773 152 SLDVAFSPSKATGKILASELPKNGKK-KCTVLYPASAKASNEIEEGLSNRGFEV 204 (262)
Q Consensus 152 G~~~~~~p~~~t~e~L~~~l~~~~~~-g~~vL~~~g~~~~~~L~~~L~~~G~~v 204 (262)
|+.+.+.++..+++.+++.+...... +..+.+.+++. .+.......|+.+
T Consensus 67 gi~Vvft~~~~tAD~~Ie~~v~~~~~~~~~v~VVTSD~---~iq~~~~~~GA~~ 117 (166)
T PF05991_consen 67 GIEVVFTKEGETADDYIERLVRELKNRPRQVTVVTSDR---EIQRAARGRGAKR 117 (166)
T ss_pred ceEEEECCCCCCHHHHHHHHHHHhccCCCeEEEEeCCH---HHHHHHhhCCCEE
Confidence 99999998889999999887765443 68999999986 4556666777654
No 238
>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=58.63 E-value=99 Score=25.15 Aligned_cols=121 Identities=10% Similarity=0.106 Sum_probs=68.9
Q ss_pred EEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC-CCccEEEEEccCCC-hhhHHHHHHhCCCeeeEE
Q 024773 130 RIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG-KKKCTVLYPASAKA-SNEIEEGLSNRGFEVVRL 207 (262)
Q Consensus 130 ~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~-~~g~~vL~~~g~~~-~~~L~~~L~~~G~~v~~i 207 (262)
-+++=|.....+++-. |... |+..+.-+|+..+.... ..+.++.++.|... .+.+.+.|++..-.+.-+
T Consensus 8 lv~~DG~~i~~~~~~~------g~~~---~~rv~g~dl~~~l~~~~~~~~~~ifllG~~~~~~~~~~~~l~~~yP~l~iv 78 (172)
T PF03808_consen 8 LVLPDGMPIVWAARLL------GRPL---PERVTGSDLFPDLLRRAEQRGKRIFLLGGSEEVLEKAAANLRRRYPGLRIV 78 (172)
T ss_pred EEecCCHHHHHHHHHc------CCCC---CcccCHHHHHHHHHHHHHHcCCeEEEEeCCHHHHHHHHHHHHHHCCCeEEE
Confidence 4566677777777777 7653 45667777777766543 34578777777653 456677787763333223
Q ss_pred eeeccccCCCChHHHHHHcC--CCCEEEE--eCHHHHHHHHHHhcccCCCCCeEEEEC
Q 024773 208 NTYTTEPVHHVDQTVLKQAL--SIPVVAV--ASPSAVRSWVNLISDTEQWSNSVACIA 261 (262)
Q Consensus 208 ~vY~~~~~~~~~~~~~~~l~--~~d~ivF--tS~s~~~~~~~~~~~~~~~~~~i~~IG 261 (262)
-.|.---.+...+++.+.+. +.|+|+. -+|.. +.|+...... +....++|+|
T Consensus 79 g~~~g~f~~~~~~~i~~~I~~~~pdiv~vglG~PkQ-E~~~~~~~~~-l~~~v~i~vG 134 (172)
T PF03808_consen 79 GYHHGYFDEEEEEAIINRINASGPDIVFVGLGAPKQ-ERWIARHRQR-LPAGVIIGVG 134 (172)
T ss_pred EecCCCCChhhHHHHHHHHHHcCCCEEEEECCCCHH-HHHHHHHHHH-CCCCEEEEEC
Confidence 33332222223344555552 5555544 45555 4555555443 3444778877
No 239
>cd06315 PBP1_ABC_sugar_binding_like_6 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=58.52 E-value=1.2e+02 Score=26.07 Aligned_cols=175 Identities=13% Similarity=-0.003 Sum_probs=84.0
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh--cCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN--ADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~--~l~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~aVG~~Ta 139 (262)
.+.+.++++|+.+...... .+.+...+.+. ....+|+||+++.. .....++.+.+. +++++.+|....
T Consensus 21 gi~~~a~~~gy~~~~~~~~-----~~~~~~~~~i~~l~~~~vdgiil~~~~~~~~~~~~~~~~~~---~iPvV~~d~~~~ 92 (280)
T cd06315 21 GVREAAKAIGWNLRILDGR-----GSEAGQAAALNQAIALKPDGIVLGGVDAAELQAELELAQKA---GIPVVGWHAGPE 92 (280)
T ss_pred HHHHHHHHcCcEEEEECCC-----CCHHHHHHHHHHHHHcCCCEEEEcCCCHHHHHHHHHHHHHC---CCCEEEecCCCC
Confidence 3446677889887654321 12221112222 23679999998753 223334444432 678888885321
Q ss_pred HHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCCh------hhHHHHHHhC-CCeeeEEeeec
Q 024773 140 SIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKAS------NEIEEGLSNR-GFEVVRLNTYT 211 (262)
Q Consensus 140 ~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~~------~~L~~~L~~~-G~~v~~i~vY~ 211 (262)
..-... + ..+. .+.... ..+..+++.|.+.....++++++.+.... .-+...++.. +..+....-+.
T Consensus 93 ~~~~~~---~-~~~~-~v~~D~~~~~~~~~~~L~~~~~G~~~i~~i~~~~~~~~~~r~~~~~~~~~a~~~~~~~~~~~~~ 167 (280)
T cd06315 93 PGPIEE---P-GIFY-NVTTDPLAVAEVAALYAIANSGGKAGVVIFTDSRFSIAKAKANAMKEIIEACKGCTVLSIEDVP 167 (280)
T ss_pred CCcccC---C-ceeE-EecCCHHHHHHHHHHHHHHHcCCCceEEEEeCCCCccHHHHHHHHHHHHHhCCCCEEEEecccC
Confidence 000000 0 0011 122222 23456666666652134788888765331 2233344332 33331111111
Q ss_pred cccCCC-ChHHHHHHc----CCCCEEEEeCHHHHHHHHHHhcccC
Q 024773 212 TEPVHH-VDQTVLKQA----LSIPVVAVASPSAVRSWVNLISDTE 251 (262)
Q Consensus 212 ~~~~~~-~~~~~~~~l----~~~d~ivFtS~s~~~~~~~~~~~~~ 251 (262)
...... ......+.+ ..+|+|++.+-..+...+..+.+.+
T Consensus 168 ~~~~~~~~~~~~~~~l~~~~~~~~ai~~~~D~~A~g~~~~l~~~g 212 (280)
T cd06315 168 ISRTATRMPALTARLLQRYGDKWTHSLAINDLYFDYMAPPLASAG 212 (280)
T ss_pred cchhhhhhHHHHHHHHHhcCcccceecccchhhhHHhHHHHHHhc
Confidence 110000 011122222 2479999999998888888887765
No 240
>PRK06079 enoyl-(acyl carrier protein) reductase; Provisional
Probab=58.50 E-value=52 Score=28.06 Aligned_cols=70 Identities=17% Similarity=0.048 Sum_probs=44.5
Q ss_pred CCCCCCeEEEeCCC---CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC--CccEEE--EeCHHHHHHHH
Q 024773 46 ASNSNPKVVVTRER---GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT--IFDWII--ITSPEAGSVFL 118 (262)
Q Consensus 46 ~~l~g~~VLitR~~---~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~--~~d~Ii--FTS~~aV~~f~ 118 (262)
..+.||+++||... .=...+++.|.+.|++|+.. .+.. ...+.+.++. ....+- +|+..+++.++
T Consensus 3 ~~l~~k~~lItGas~~~gIG~a~a~~la~~G~~Vi~~--~r~~------~~~~~~~~~~~~~~~~~~~Dl~~~~~v~~~~ 74 (252)
T PRK06079 3 GILSGKKIVVMGVANKRSIAWGCAQAIKDQGATVIYT--YQND------RMKKSLQKLVDEEDLLVECDVASDESIERAF 74 (252)
T ss_pred cccCCCEEEEeCCCCCCchHHHHHHHHHHCCCEEEEe--cCch------HHHHHHHhhccCceeEEeCCCCCHHHHHHHH
Confidence 45789999999986 34678999999999998743 2211 1112222221 111211 58899999888
Q ss_pred HHHHH
Q 024773 119 EAWKE 123 (262)
Q Consensus 119 ~~l~~ 123 (262)
+.+.+
T Consensus 75 ~~~~~ 79 (252)
T PRK06079 75 ATIKE 79 (252)
T ss_pred HHHHH
Confidence 87654
No 241
>cd03129 GAT1_Peptidase_E_like Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins. Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins. This group contains proteins similar to the aspartyl dipeptidases Salmonella typhimurium peptidase E and Xenopus laevis peptidase E and, extracellular cyanophycinases from Pseudomonas anguilliseptica BI (CphE) and Synechocystis sp. PCC 6803 CphB. In bacteria peptidase E is believed to play a role in degrading peptides generated by intracellular protein breakdown or imported into the cell as nutrient sources. Peptidase E uniquely hydrolyses only Asp-X dipeptides (where X is any amino acid), and one tripeptide Asp-Gly-Gly. Cyanophycinases are intracellular exopeptidases which hydrolyze the polymer cyanophycin (multi L-arginyl-poly-L-aspartic acid) to the dipeptide beta-Asp-Arg. Peptidase E and cyanophycinases are thought to have a Ser-His-Glu catalytic triad which differs from
Probab=58.26 E-value=75 Score=26.60 Aligned_cols=63 Identities=24% Similarity=0.263 Sum_probs=43.2
Q ss_pred CccEEEEEccCC-----ChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHHHHHHH
Q 024773 177 KKCTVLYPASAK-----ASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPSAVRSW 243 (262)
Q Consensus 177 ~g~~vL~~~g~~-----~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s~~~~~ 243 (262)
.+.+++|+.... ..+...+.+++.|+++..+.+.+. ...++..+.+...|+|+|+-..+.+..
T Consensus 28 ~~~~i~~iptA~~~~~~~~~~~~~~~~~lG~~~~~~~~~~~----~~~~~~~~~l~~ad~I~~~GG~~~~~~ 95 (210)
T cd03129 28 AGARVLFIPTASGDRDEYGEEYRAAFERLGVEVVHLLLIDT----ANDPDVVARLLEADGIFVGGGNQLRLL 95 (210)
T ss_pred CCCeEEEEeCCCCChHHHHHHHHHHHHHcCCceEEEeccCC----CCCHHHHHHHhhCCEEEEcCCcHHHHH
Confidence 456777765443 245677788999999888877665 122345566779999999988775543
No 242
>PRK07097 gluconate 5-dehydrogenase; Provisional
Probab=58.24 E-value=1.2e+02 Score=25.90 Aligned_cols=85 Identities=12% Similarity=0.030 Sum_probs=48.4
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC-CccEEE--EeCHHHHHHHHHHHH
Q 024773 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT-IFDWII--ITSPEAGSVFLEAWK 122 (262)
Q Consensus 47 ~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~-~~d~Ii--FTS~~aV~~f~~~l~ 122 (262)
++.+++++||..... ...+++.|.++|++++..- ......+++...++..+ +..++. +|+..+++.+++.+.
T Consensus 7 ~~~~k~~lItGa~~~iG~~ia~~l~~~G~~vv~~~----~~~~~~~~~~~~~~~~~~~~~~~~~Dl~~~~~~~~~~~~~~ 82 (265)
T PRK07097 7 SLKGKIALITGASYGIGFAIAKAYAKAGATIVFND----INQELVDKGLAAYRELGIEAHGYVCDVTDEDGVQAMVSQIE 82 (265)
T ss_pred CCCCCEEEEeCCCchHHHHHHHHHHHCCCeEEEEe----CCHHHHHHHHHHHHhcCCceEEEEcCCCCHHHHHHHHHHHH
Confidence 467899999988654 4578899999999877541 11111122222232211 122211 478889988888765
Q ss_pred Hc-CCCCcEEEEeC
Q 024773 123 EA-GTPNVRIGVVG 135 (262)
Q Consensus 123 ~~-~~~~~~i~aVG 135 (262)
+. +.-+.-|.+.|
T Consensus 83 ~~~~~id~li~~ag 96 (265)
T PRK07097 83 KEVGVIDILVNNAG 96 (265)
T ss_pred HhCCCCCEEEECCC
Confidence 43 22244454554
No 243
>cd00615 Orn_deC_like Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine decarboxylase (LDC). ODC is a dodecamer composed of six homodimers and catalyzes the decarboxylation of tryptophan. ADC catalyzes the decarboxylation of arginine and LDC catalyzes the decarboxylation of lysine. Members of this family are widely found in all three forms of life.
Probab=58.06 E-value=35 Score=30.15 Aligned_cols=63 Identities=16% Similarity=0.167 Sum_probs=42.5
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEee-----eCCCchHHHHHHhcCCCccEEEEeCHH
Q 024773 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHA-----QGPDTDRLSSVLNADTIFDWIIITSPE 112 (262)
Q Consensus 48 l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~-----~~~~~~~l~~~l~~l~~~d~IiFTS~~ 112 (262)
-.|.+|+++|+.. ......+...|++++.++.-... ...+.+.+++.+.+-.+...+++|+++
T Consensus 97 ~~gd~Vlv~~~~h--~s~~~~~~~~g~~~~~v~~~~~~~~~~~~~i~~~~l~~~l~~~~~~k~v~l~~p~ 164 (294)
T cd00615 97 GPGDKILIDRNCH--KSVINGLVLSGAVPVYLKPERNPYYGIAGGIPPETFKKALIEHPDAKAAVITNPT 164 (294)
T ss_pred CCCCEEEEeCCch--HHHHHHHHHCCCEEEEecCccCcccCcCCCCCHHHHHHHHHhCCCceEEEEECCC
Confidence 3578999998864 33456677789999888764221 123456677777544568899999874
No 244
>PRK05568 flavodoxin; Provisional
Probab=58.02 E-value=57 Score=25.15 Aligned_cols=13 Identities=8% Similarity=0.187 Sum_probs=6.2
Q ss_pred CCCCHHHHHHHhh
Q 024773 160 SKATGKILASELP 172 (262)
Q Consensus 160 ~~~t~e~L~~~l~ 172 (262)
...+.+.+++.+.
T Consensus 11 ~~GnT~~~a~~i~ 23 (142)
T PRK05568 11 GTGNTEAMANLIA 23 (142)
T ss_pred CCchHHHHHHHHH
Confidence 3445555555444
No 245
>cd01740 GATase1_FGAR_AT Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase. Type 1 glutamine amidotransferase (GATase1)-like domain found in Formylglycinamide ribonucleotide amidotransferase (FGAR-AT). FGAR-AT catalyzes the ATP-dependent conversion of formylglycinamide ribonucleotide (FGAR) and glutamine to formylglycinamidine ribonucleotide (FGAM), ADP, Pi, and glutamate in the fourth step of the purine biosynthetic pathway. FGAR-AT is a glutamine amidotransferase. Glutamine amidotransferase activity catalyses the transfer of ammonia from the amide side chain of glutamine to an acceptor substrate. FGAR-AT belongs to the triad family of amidotransferases having a conserved Cys-His-Glu catalytic triad in the glutaminase active site
Probab=57.90 E-value=69 Score=27.58 Aligned_cols=82 Identities=11% Similarity=0.013 Sum_probs=48.9
Q ss_pred EEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHH------------HH-HHHH
Q 024773 54 VVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAG------------SV-FLEA 120 (262)
Q Consensus 54 LitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV------------~~-f~~~ 120 (262)
|..-......++...|++.|+++..++.-+.. .. ...+.+||.||+.-.... +. +.+.
T Consensus 4 l~~pG~n~~~~~~~al~~aG~~v~~v~~~~~~--~~-------~~~l~~~d~liipGG~~~~d~l~~~~~~~~~~~~~~~ 74 (238)
T cd01740 4 LRFPGSNCDRDMAYAFELAGFEAEDVWHNDLL--AG-------RKDLDDYDGVVLPGGFSYGDYLRAGAIAAASPLLMEE 74 (238)
T ss_pred EEcCCcCCHHHHHHHHHHcCCCEEEEeccCCc--cc-------cCCHhhCCEEEECCCCCcccccccccccccChhHHHH
Confidence 33333344567899999999999977764421 11 013467999999876321 00 2233
Q ss_pred HHHcCCCCcEEEEeChhHHHHHHHh
Q 024773 121 WKEAGTPNVRIGVVGAGTASIFEEV 145 (262)
Q Consensus 121 l~~~~~~~~~i~aVG~~Ta~~L~~~ 145 (262)
+.+....+.++++|+.. .+.|-+.
T Consensus 75 l~~~~~~g~pvlGIC~G-~QlL~~~ 98 (238)
T cd01740 75 VKEFAERGGLVLGICNG-FQILVEL 98 (238)
T ss_pred HHHHHhCCCeEEEECcH-HHHHHHc
Confidence 33322247789888854 5777776
No 246
>cd01976 Nitrogenase_MoFe_alpha Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Mo-nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.
Probab=57.60 E-value=1.7e+02 Score=27.55 Aligned_cols=138 Identities=12% Similarity=0.081 Sum_probs=77.3
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CCCCcEEEEeCh-h
Q 024773 60 GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GTPNVRIGVVGA-G 137 (262)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~-~~~~~~i~aVG~-~ 137 (262)
.+..++.+.|++.|+++.... ......++ +..+.+..+-+..++.+...+.+.+++. +.+-...--+|. .
T Consensus 185 ~d~~el~~lL~~~Gi~v~~~~----~~~~t~ee----i~~~~~A~lniv~~~~~~~~~a~~Le~~fGiP~~~~~p~Gi~~ 256 (421)
T cd01976 185 GDAWASRILLEEMGLRVVAQW----SGDGTLNE----MENAHKAKLNLIHCYRSMNYIARMMEEKYGIPWMEYNFFGPTK 256 (421)
T ss_pred ccHHHHHHHHHHcCCeEEEEe----CCCCCHHH----HHhcccCCEEEEECcHHHHHHHHHHHHHhCCcEEecccCCHHH
Confidence 345789999999999998322 11112232 3456777888888777766666666653 333111112454 3
Q ss_pred HHHHHHHhhhhcCCCCceeecCCC------CCHHHHHHHhhhC--CCCccEEEEEccCCChhhHHHHHHhCCCeeeEEee
Q 024773 138 TASIFEEVIQSSKCSLDVAFSPSK------ATGKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNT 209 (262)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~~~p~~------~t~e~L~~~l~~~--~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~v 209 (262)
|.+.|++... +.|... |+. ..-+.+.+.+... ...|+|+.+..|......+...|++.|++|...-.
T Consensus 257 t~~~l~~ia~--~~g~~~---~~~~e~~i~~e~~~~~~~l~~~~~~L~Gkrv~i~~g~~~~~~~~~~l~elGmevv~~g~ 331 (421)
T cd01976 257 IAESLRKIAA--YFDDEI---TAKTEEVIAEYKPAMEAVIAKYRPRLEGKTVMLYVGGLRPRHYIGAYEDLGMEVVGTGY 331 (421)
T ss_pred HHHHHHHHHH--HhCchH---HHHHHHHHHHHHHHHHHHHHHHHHHcCCCEEEEECCCCcHHHHHHHHHHCCCEEEEEEe
Confidence 4555554411 014321 110 0011222333321 23689999887766666778899999999876544
Q ss_pred e
Q 024773 210 Y 210 (262)
Q Consensus 210 Y 210 (262)
+
T Consensus 332 ~ 332 (421)
T cd01976 332 E 332 (421)
T ss_pred e
Confidence 3
No 247
>PRK06484 short chain dehydrogenase; Validated
Probab=56.89 E-value=1.8e+02 Score=27.66 Aligned_cols=83 Identities=16% Similarity=0.061 Sum_probs=48.8
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC-CccE--EEEeCHHHHHHHHHHH
Q 024773 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT-IFDW--IIITSPEAGSVFLEAW 121 (262)
Q Consensus 46 ~~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~-~~d~--IiFTS~~aV~~f~~~l 121 (262)
..+.|+++|||..... ...+++.|.+.|++|+..- + +.+.++.....++ ...+ +=+++..+++.+++.+
T Consensus 265 ~~~~~k~~lItGas~gIG~~~a~~l~~~G~~V~~~~--r-----~~~~~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~~ 337 (520)
T PRK06484 265 LAESPRVVAITGGARGIGRAVADRFAAAGDRLLIID--R-----DAEGAKKLAEALGDEHLSVQADITDEAAVESAFAQI 337 (520)
T ss_pred cccCCCEEEEECCCcHHHHHHHHHHHHCCCEEEEEe--C-----CHHHHHHHHHHhCCceeEEEccCCCHHHHHHHHHHH
Confidence 3568999999988764 4678999999999877541 1 1122222222222 2211 1257888998888776
Q ss_pred HHc-CCCCcEEEEeC
Q 024773 122 KEA-GTPNVRIGVVG 135 (262)
Q Consensus 122 ~~~-~~~~~~i~aVG 135 (262)
.+. +.-+.-|.+.|
T Consensus 338 ~~~~g~id~li~nAg 352 (520)
T PRK06484 338 QARWGRLDVLVNNAG 352 (520)
T ss_pred HHHcCCCCEEEECCC
Confidence 543 32234444444
No 248
>cd06313 PBP1_ABC_sugar_binding_like_5 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=56.60 E-value=84 Score=26.91 Aligned_cols=47 Identities=17% Similarity=0.151 Sum_probs=30.7
Q ss_pred HHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024773 93 LSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (262)
Q Consensus 93 l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta 139 (262)
+...+..-.+.|+|+.++-......++.+.+.+..++.|+..+....
T Consensus 174 ~~~~l~~~~~~~ai~~~nd~~a~g~~~al~~~g~~di~vvgfd~~~~ 220 (272)
T cd06313 174 WETWLTKYPQLDGAFCHNDSMALAAYQIMKAAGRTKIVIGGVDGDPP 220 (272)
T ss_pred HHHHHHhCCCCCEEEECCCcHHHHHHHHHHHcCCCceEEEeecCCHH
Confidence 44444333457888888777777777777776665677777776543
No 249
>PRK09271 flavodoxin; Provisional
Probab=56.58 E-value=57 Score=26.09 Aligned_cols=67 Identities=7% Similarity=0.009 Sum_probs=36.0
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH--------HHHHHHHHHHHcCCCCcEEEEe
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE--------AGSVFLEAWKEAGTPNVRIGVV 134 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~--------aV~~f~~~l~~~~~~~~~i~aV 134 (262)
+.+++.|+..|.++... .+... +.. .....+.++|.|+|-|+. .+..|++.+......+.+++++
T Consensus 19 ~~ia~~l~~~g~~v~~~---~~~~~-~~~---~~~~~~~~~d~vilgt~T~~~G~~p~~~~~f~~~l~~~~~~~k~~avf 91 (160)
T PRK09271 19 REIEERCEEAGHEVDWV---ETDVQ-TLA---EYPLDPEDYDLYLLGTWTDNAGRTPPEMKRFIAELAETIGKPPNVAVF 91 (160)
T ss_pred HHHHHHHHhCCCeeEEE---ecccc-ccc---ccccCcccCCEEEEECcccCCCcCCHHHHHHHHHHHHHhccCCeEEEE
Confidence 44556667778766422 22111 110 111134679999998852 4777877776532234455555
Q ss_pred Ch
Q 024773 135 GA 136 (262)
Q Consensus 135 G~ 136 (262)
|-
T Consensus 92 gs 93 (160)
T PRK09271 92 GT 93 (160)
T ss_pred ec
Confidence 53
No 250
>TIGR01729 taurine_ABC_bnd taurine ABC transporter, periplasmic binding protein. This model identifies a cluster of ABC transporter periplasmic substrate binding proteins, apparently specific for taurine. Transport systems for taurine (NH2-CH2-CH2-SO3H), sulfonates, and sulfate esters import sulfur when sulfate levels are low. The most closely related proteins outside this family are putative aliphatic sulfonate binding proteins (TIGR01728).
Probab=56.32 E-value=46 Score=29.29 Aligned_cols=65 Identities=14% Similarity=0.107 Sum_probs=43.4
Q ss_pred cCCCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHH
Q 024773 44 ASASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEA 113 (262)
Q Consensus 44 ~~~~l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~a 113 (262)
....|.||+|.++........+...|+..|.+...+.+.. .. ..+....+ .-++.|+++...+..
T Consensus 94 s~~DLkGK~Igv~~~s~~~~~l~~~L~~~Gl~~~dv~~v~---~~-~~~~~~al-~~G~vDa~~~~~p~~ 158 (300)
T TIGR01729 94 KPEDLKGKNVAVPFVSTTHYSLLAALKHWKTDPREVNILN---LK-PPQIVAAW-QRGDIDAAYVWPPAL 158 (300)
T ss_pred ChhHcCCCEEEeCCCCcHHHHHHHHHHHcCCChhheEEEe---cC-cHHHHHHH-HcCCcCEEEEecHHH
Confidence 3457999999998776656667788999998765443332 22 12233344 347899998887754
No 251
>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=56.31 E-value=19 Score=28.00 Aligned_cols=51 Identities=16% Similarity=0.204 Sum_probs=35.0
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc-CCCccEEEEeCHHHH
Q 024773 60 GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA-DTIFDWIIITSPEAG 114 (262)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~-l~~~d~IiFTS~~aV 114 (262)
.....+.+.|++.|+++....+.. .+.+.+.+.+.+ ...+|.|+.|-..++
T Consensus 18 ~~~~~l~~~l~~~G~~~~~~~~v~----Dd~~~I~~~l~~~~~~~dliittGG~g~ 69 (135)
T smart00852 18 SNGPALAELLTELGIEVTRYVIVP----DDKEAIKEALREALERADLVITTGGTGP 69 (135)
T ss_pred CcHHHHHHHHHHCCCeEEEEEEeC----CCHHHHHHHHHHHHhCCCEEEEcCCCCC
Confidence 345678899999999988765542 344555566543 356898888877664
No 252
>cd01575 PBP1_GntR Ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. This group represents the ligand-binding domain of DNA transcription repressor GntR specific for gluconate, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of GntR 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,
Probab=56.31 E-value=78 Score=26.57 Aligned_cols=75 Identities=13% Similarity=0.062 Sum_probs=42.2
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChhH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAGT 138 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~T 138 (262)
-+.+.++++|..+............+ .+.+...++.....++|+..+-.....+++.+.+.+. +++.+++.+...
T Consensus 137 gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~~~p~di~vig~d~~~ 216 (268)
T cd01575 137 GFRAALRAAGLDPPLVVTTPEPSSFALGRELLAELLARWPDLDAVFCSNDDLALGALFECQRRGISVPEDIAIAGFGDLE 216 (268)
T ss_pred HHHHHHHHcCCCCCceeEeccCCCHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHHHhCCCCCcceEEEecCCch
Confidence 35567777776432221111111000 1234444433346888888887777777777777764 367777777653
No 253
>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=56.22 E-value=1.6e+02 Score=27.83 Aligned_cols=142 Identities=9% Similarity=0.031 Sum_probs=76.5
Q ss_pred ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHHHH--HHHHHHHHHcCC--------CC
Q 024773 61 KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPEAG--SVFLEAWKEAGT--------PN 128 (262)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~aV--~~f~~~l~~~~~--------~~ 128 (262)
....+.+.|++.|++++..|... .+.++..+..+. -.+.|.||+.-.+-. +.+...++..+. ++
T Consensus 24 ~~~~~~~~l~~~~~~vv~~~~~~----~~~~~~~~~~~~~~~~~~d~ii~~~~tf~~~~~~~~~~~~~~~Pvll~a~~~~ 99 (452)
T cd00578 24 YAREVADLLNELPVEVVDKPEVT----GTPDEARKAAEEFNEANCDGLIVWMHTFGPAKMWIAGLSELRKPVLLLATQFN 99 (452)
T ss_pred HHHHHHHHHhcCCceEEecCccc----CCHHHHHHHHHHHhhcCCcEEEEcccccccHHHHHHHHHhcCCCEEEEeCCCC
Confidence 45678888888899999988664 222333333221 236888887333221 222332332211 11
Q ss_pred ---------cEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhC--------CCCccEEEEEccCCC--
Q 024773 129 ---------VRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKN--------GKKKCTVLYPASAKA-- 189 (262)
Q Consensus 129 ---------~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~--------~~~g~~vL~~~g~~~-- 189 (262)
..-+|==..++..|++. |+...++-.....+...+.|.++ ..++.|+..+.+.-.
T Consensus 100 ~~~~~~~~~~~s~~g~~~~~~~l~r~------gi~~~~v~g~~~d~~~~~~i~~~~raa~~~~~lr~~rig~iG~~~~~~ 173 (452)
T cd00578 100 REIPDFMNLNQSACGLREFGNILARL------GIPFKVVYGHWKDEDVLRKIESWARAAAAVATLRGLRVGRFGDRMRGM 173 (452)
T ss_pred CCCCchhhhhcchhhhHHHHHHHHHc------CCceeEEECCCCCHHHHHHHHHHHHHHHHHHHhhcCceEEECCCcCCc
Confidence 12222223477788888 99876542221113333333322 125788988876522
Q ss_pred ---hhhHHHHHHhCCCeeeEEeeecc
Q 024773 190 ---SNEIEEGLSNRGFEVVRLNTYTT 212 (262)
Q Consensus 190 ---~~~L~~~L~~~G~~v~~i~vY~~ 212 (262)
..+..+.+.+-|++|+.+.+.+-
T Consensus 174 ~~~~~d~~~~~~~fG~~v~~i~~~el 199 (452)
T cd00578 174 AVTEGDKVLAQIKFGVSVEYLEVGEL 199 (452)
T ss_pred EEecCCHHHHHHhhCeEEEEEcHHHH
Confidence 11233456677999998888753
No 254
>PF02670 DXP_reductoisom: 1-deoxy-D-xylulose 5-phosphate reductoisomerase; InterPro: IPR013512 1-deoxy-D-xylulose 5-phosphate reductoisomerase synthesises 2-C-methyl-D-erythritol 4-phosphate from 1-deoxy-D-xylulose 5-phosphate in a single step by intramolecular rearrangement and reduction and is responsible for terpenoid biosynthesis in some organisms []. In Arabidopsis thaliana 1-deoxy-D-xylulose 5-phosphate reductoisomerase is the first committed enzyme of the non-mevalonate pathway for isoprenoid biosynthesis. The enzyme requires Mn2+, Co2+ or Mg2+ for activity, with the first being most effective. This domain is found at the N terminus of bacterial and plant 1-deoxy-D-xylulose 5-phosphate reductoisomerases.; GO: 0070402 NADPH binding, 0055114 oxidation-reduction process; PDB: 1R0K_D 1R0L_C 3A14_A 3A06_A 3AUA_A 3AU9_B 3AU8_B 3IIE_A 2Y1D_B 4AIC_A ....
Probab=56.12 E-value=9.6 Score=29.96 Aligned_cols=98 Identities=14% Similarity=0.182 Sum_probs=62.2
Q ss_pred EeChhHHHHHHHhhhhcCCC--CceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeee
Q 024773 133 VVGAGTASIFEEVIQSSKCS--LDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTY 210 (262)
Q Consensus 133 aVG~~Ta~~L~~~~~~~~~G--~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY 210 (262)
+||..|-+.++++ . |++.-.....+.+.|.+.+.++. .+.+++..+...+.|.+.+...+..+ .+|
T Consensus 9 SIG~qtLdVi~~~------~d~f~v~~Lsa~~n~~~L~~q~~~f~---p~~v~i~~~~~~~~l~~~~~~~~~~~---~v~ 76 (129)
T PF02670_consen 9 SIGTQTLDVIRKH------PDKFEVVALSAGSNIEKLAEQAREFK---PKYVVIADEEAYEELKKALPSKGPGI---EVL 76 (129)
T ss_dssp HHHHHHHHHHHHC------TTTEEEEEEEESSTHHHHHHHHHHHT----SEEEESSHHHHHHHHHHHHHTTSSS---EEE
T ss_pred HHHHHHHHHHHhC------CCceEEEEEEcCCCHHHHHHHHHHhC---CCEEEEcCHHHHHHHHHHhhhcCCCC---EEE
Confidence 5889999999999 7 77665556778999998888874 46777888777888888886555433 233
Q ss_pred ccccCCCChHHHHHHc--CCCCEEEEeCH--HHHHHHHHHhc
Q 024773 211 TTEPVHHVDQTVLKQA--LSIPVVAVASP--SAVRSWVNLIS 248 (262)
Q Consensus 211 ~~~~~~~~~~~~~~~l--~~~d~ivFtS~--s~~~~~~~~~~ 248 (262)
.- .+.+.+.. .+.|+++.... ...+..+..++
T Consensus 77 ~G------~~~l~~~~~~~~~D~vv~Ai~G~aGL~pt~~Ai~ 112 (129)
T PF02670_consen 77 SG------PEGLEELAEEPEVDIVVNAIVGFAGLKPTLAAIK 112 (129)
T ss_dssp ES------HHHHHHHHTHTT-SEEEE--SSGGGHHHHHHHHH
T ss_pred eC------hHHHHHHhcCCCCCEEEEeCcccchHHHHHHHHH
Confidence 21 12333333 48898887643 33344444443
No 255
>cd06310 PBP1_ABC_sugar_binding_like_2 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=56.09 E-value=1.1e+02 Score=25.77 Aligned_cols=86 Identities=16% Similarity=0.120 Sum_probs=48.9
Q ss_pred CeEEEeCCCCC-------hHHHHHHHHhC-CCcEEEeceEEeeeC-CC-chHHHHHHhcCCCccEEEEeCHHHHHHHHHH
Q 024773 51 PKVVVTRERGK-------NGKLIKALAKH-RIDCLELPLIQHAQG-PD-TDRLSSVLNADTIFDWIIITSPEAGSVFLEA 120 (262)
Q Consensus 51 ~~VLitR~~~~-------~~~l~~~L~~~-G~~v~~~P~~~~~~~-~~-~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~ 120 (262)
++|++..+... ..-+.+.++++ |..+.. .+..... .+ .+.+...+..-..+|+|++.|-.....+.+.
T Consensus 124 ~~i~~i~~~~~~~~~~~r~~gf~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~g~~~~ 201 (273)
T cd06310 124 GKVAVISFVPGSSTTDQREEGFLEGLKEYPGIEIVA--TQYSDSDYAKALDITEDLLTANPDLKGIFGANEGSAVGAARA 201 (273)
T ss_pred ceEEEEeCCCCCccHHHHHHHHHHHHHhCCCcEEEe--cccCCcCHHHHHHHHHHHHHhCCCceEEEecCchhHHHHHHH
Confidence 46776654321 13355677777 665543 1111100 01 1223334433346899999888878878888
Q ss_pred HHHcCCC-CcEEEEeChhH
Q 024773 121 WKEAGTP-NVRIGVVGAGT 138 (262)
Q Consensus 121 l~~~~~~-~~~i~aVG~~T 138 (262)
+.+.+.. ++.|++.+...
T Consensus 202 l~~~g~~~di~vig~d~~~ 220 (273)
T cd06310 202 VRQAGKAGKVKVVGFDASP 220 (273)
T ss_pred HHhcCCCCCeEEEEeCCCh
Confidence 8877763 67777777653
No 256
>PRK14189 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=55.97 E-value=1.4e+02 Score=26.78 Aligned_cols=161 Identities=14% Similarity=0.128 Sum_probs=87.4
Q ss_pred eEEEeCCCCChHHH----HHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc---CCCccEEEEeCHH--HHH--HHHHH
Q 024773 52 KVVVTRERGKNGKL----IKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA---DTIFDWIIITSPE--AGS--VFLEA 120 (262)
Q Consensus 52 ~VLitR~~~~~~~l----~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~---l~~~d~IiFTS~~--aV~--~f~~~ 120 (262)
-++....+..+..+ .+..++.|+++..+-+-+.. ..+++.+.+.. ..+.|.|+.--|- .++ .+++.
T Consensus 36 aii~vg~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~~---~~~~l~~~I~~lN~d~~V~GIlvq~Plp~~i~~~~i~~~ 112 (285)
T PRK14189 36 AVILVGDNPASQVYVRNKVKACEDNGFHSLKDRYPADL---SEAELLARIDELNRDPKIHGILVQLPLPKHIDSHKVIEA 112 (285)
T ss_pred EEEEeCCCchHHHHHHHHHHHHHHcCCEEEEEECCCCC---CHHHHHHHHHHHcCCCCCCeEEEeCCCCCCCCHHHHHhh
Confidence 34444444444333 34556779888765442221 23445555543 4678899988773 222 22332
Q ss_pred HHHc-CCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC--CCccEEEEEc-cCCChhhHHHH
Q 024773 121 WKEA-GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPA-SAKASNEIEEG 196 (262)
Q Consensus 121 l~~~-~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~g~~vL~~~-g~~~~~~L~~~ 196 (262)
+... ..|...-.-.| .|- . |-. .+.| -|+.+.++.|..+. ..|++++++. |......|...
T Consensus 113 I~p~KDVDGl~~~n~g-----~l~-~------~~~-~~~P--cTp~aii~lL~~~~i~l~Gk~vvViGrs~iVGkPla~l 177 (285)
T PRK14189 113 IAPEKDVDGFHVANAG-----ALM-T------GQP-LFRP--CTPYGVMKMLESIGIPLRGAHAVVIGRSNIVGKPMAML 177 (285)
T ss_pred cCcccCcccCChhhhh-----Hhh-C------CCC-CCcC--CCHHHHHHHHHHcCCCCCCCEEEEECCCCccHHHHHHH
Confidence 2211 12333333233 221 1 322 2444 47888888877653 4677876665 44447789999
Q ss_pred HHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHH
Q 024773 197 LSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPS 238 (262)
Q Consensus 197 L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s 238 (262)
|.+.|++|+-+. .+. . .+.+.+...|+|+-..+.
T Consensus 178 L~~~~atVt~~h--s~t---~---~l~~~~~~ADIVV~avG~ 211 (285)
T PRK14189 178 LLQAGATVTICH--SKT---R---DLAAHTRQADIVVAAVGK 211 (285)
T ss_pred HHHCCCEEEEec--CCC---C---CHHHHhhhCCEEEEcCCC
Confidence 999999886532 111 1 233345688999888774
No 257
>cd01543 PBP1_XylR Ligand-binding domain of DNA transcription repressor specific for xylose (XylR). Ligand-binding domain of DNA transcription repressor specific for xylose (XylR), a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of XylR 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 in turn changes the DNA binding affinity of the repressor.
Probab=55.78 E-value=1.2e+02 Score=25.59 Aligned_cols=88 Identities=15% Similarity=0.083 Sum_probs=50.5
Q ss_pred CCeEEEeCCCCCh------HHHHHHHHhCCCcEEEeceEEeeeCCC----chHHHHHHhcCCCccEEEEeCHHHHHHHHH
Q 024773 50 NPKVVVTRERGKN------GKLIKALAKHRIDCLELPLIQHAQGPD----TDRLSSVLNADTIFDWIIITSPEAGSVFLE 119 (262)
Q Consensus 50 g~~VLitR~~~~~------~~l~~~L~~~G~~v~~~P~~~~~~~~~----~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~ 119 (262)
.++|++..+.... .-+.+.++++|..+...+........+ .+.+.+.++.....|+|++++-.....+..
T Consensus 109 ~~~i~~i~~~~~~~~~~R~~gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~ 188 (265)
T cd01543 109 FRHFAFYGLPGARWSDEREEAFRQLVAEAGYECSFFYRGLSTDAQSWEEEQEELAQWLQSLPKPVGIFACTDARARQLLE 188 (265)
T ss_pred CcEEEEEcCCCCHHHHHHHHHHHHHHHHcCCccccccCccccccccHHHHHHHHHHHHhcCCCCcEEEecChHHHHHHHH
Confidence 4567766544321 235566777887653222211111111 123444453334688888888888888888
Q ss_pred HHHHcCC---CCcEEEEeChh
Q 024773 120 AWKEAGT---PNVRIGVVGAG 137 (262)
Q Consensus 120 ~l~~~~~---~~~~i~aVG~~ 137 (262)
.+.+.+. +++.+++.+..
T Consensus 189 ~l~~~g~~vp~di~vigfd~~ 209 (265)
T cd01543 189 ACRRAGIAVPEEVAVLGVDND 209 (265)
T ss_pred HHHHhCCCCCCceEEEeeCCc
Confidence 8877765 36777777754
No 258
>PRK09186 flagellin modification protein A; Provisional
Probab=55.51 E-value=1.2e+02 Score=25.36 Aligned_cols=72 Identities=18% Similarity=0.131 Sum_probs=41.8
Q ss_pred CCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc-CC--CccEE--EEeCHHHHHHHHHHH
Q 024773 48 NSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA-DT--IFDWI--IITSPEAGSVFLEAW 121 (262)
Q Consensus 48 l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~-l~--~~d~I--iFTS~~aV~~f~~~l 121 (262)
+.|++||||..... ...+++.|.+.|++++.. .+ ..+..+++...+.. .+ ..+++ =++++.++..+++.+
T Consensus 2 ~~~k~vlItGas~giG~~~a~~l~~~g~~v~~~--~r--~~~~~~~~~~~l~~~~~~~~~~~~~~Dl~d~~~~~~~~~~~ 77 (256)
T PRK09186 2 LKGKTILITGAGGLIGSALVKAILEAGGIVIAA--DI--DKEALNELLESLGKEFKSKKLSLVELDITDQESLEEFLSKS 77 (256)
T ss_pred CCCCEEEEECCCchHHHHHHHHHHHCCCEEEEE--ec--ChHHHHHHHHHHHhhcCCCceeEEEecCCCHHHHHHHHHHH
Confidence 45899999987654 567899999999987554 11 11111222222211 11 12222 246788888888776
Q ss_pred HH
Q 024773 122 KE 123 (262)
Q Consensus 122 ~~ 123 (262)
.+
T Consensus 78 ~~ 79 (256)
T PRK09186 78 AE 79 (256)
T ss_pred HH
Confidence 54
No 259
>PLN02306 hydroxypyruvate reductase
Probab=55.36 E-value=1.8e+02 Score=27.17 Aligned_cols=177 Identities=11% Similarity=0.062 Sum_probs=88.0
Q ss_pred CCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHH-HHHHHHHHHcCCC
Q 024773 49 SNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAG-SVFLEAWKEAGTP 127 (262)
Q Consensus 49 ~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV-~~f~~~l~~~~~~ 127 (262)
-..+|+++.+-.. ....+.|++.|+++.... ......+.+++.+.+ .+++|+++..+...+ +.+++.+...
T Consensus 14 ~~~~v~~~~~~~~-~~~~~~L~~~~~~v~~~~--~~~~~~~~~~~~~~~--~~~~d~vi~~~~~~i~~~~l~~~~~l--- 85 (386)
T PLN02306 14 GKYRVVSTKPMPG-TRWINLLVDQDCRVEICT--EKKTILSVEDIIALI--GDKCDGVIGQLTEDWGETLFSALSKA--- 85 (386)
T ss_pred CCceEEEeCCCCc-HHHHHHHHhcCceEEecC--CcCCCCCHHHHHHHh--hcCCcEEEEcCCCCcCHHHHHhCCcC---
Confidence 3457888876432 224567777777775222 001111223333222 146888876543223 3333333221
Q ss_pred CcEEE-EeChh----HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHH------------------hhh-----C-----
Q 024773 128 NVRIG-VVGAG----TASIFEEVIQSSKCSLDVAFSPSKATGKILASE------------------LPK-----N----- 174 (262)
Q Consensus 128 ~~~i~-aVG~~----Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~------------------l~~-----~----- 174 (262)
+.+++ +.|-. ..+++++. |+.+.-.|. ..++.+++. +.+ +
T Consensus 86 ~lk~I~~~~~G~D~iD~~aa~~~------gI~V~n~pg-~~~~~VAE~al~liLal~R~i~~~~~~~~~g~w~~~~~~~~ 158 (386)
T PLN02306 86 GGKAFSNMAVGYNNVDVEAANKY------GIAVGNTPG-VLTETTAELAASLSLAAARRIVEADEFMRAGLYEGWLPHLF 158 (386)
T ss_pred CceEEEECCcccccccHHHHHHC------CCEEEECCC-cCHHHHHHHHHHHHHHHHhChHHHHHHHHcCCCcccccccc
Confidence 22433 33332 35777888 998866653 344443321 100 0
Q ss_pred ---CCCccEEEEEccCCChhhHHHHHH-hCCCeeeEEeeeccccCC--------------------CChHHHHHHcCCCC
Q 024773 175 ---GKKKCTVLYPASAKASNEIEEGLS-NRGFEVVRLNTYTTEPVH--------------------HVDQTVLKQALSIP 230 (262)
Q Consensus 175 ---~~~g~~vL~~~g~~~~~~L~~~L~-~~G~~v~~i~vY~~~~~~--------------------~~~~~~~~~l~~~d 230 (262)
...|+++.+++-......+...|. .-|++|..+.-|...... ....++.+.+...|
T Consensus 159 ~g~~L~gktvGIiG~G~IG~~vA~~l~~~fGm~V~~~d~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~L~ell~~sD 238 (386)
T PLN02306 159 VGNLLKGQTVGVIGAGRIGSAYARMMVEGFKMNLIYYDLYQSTRLEKFVTAYGQFLKANGEQPVTWKRASSMEEVLREAD 238 (386)
T ss_pred CCcCCCCCEEEEECCCHHHHHHHHHHHhcCCCEEEEECCCCchhhhhhhhhhcccccccccccccccccCCHHHHHhhCC
Confidence 124577777766655666777774 778866443333211000 00112344456889
Q ss_pred EEEEeCHHHH
Q 024773 231 VVAVASPSAV 240 (262)
Q Consensus 231 ~ivFtS~s~~ 240 (262)
+|++.-|.+-
T Consensus 239 iV~lh~Plt~ 248 (386)
T PLN02306 239 VISLHPVLDK 248 (386)
T ss_pred EEEEeCCCCh
Confidence 9999866543
No 260
>PRK07765 para-aminobenzoate synthase component II; Provisional
Probab=55.27 E-value=1.3e+02 Score=25.47 Aligned_cols=93 Identities=11% Similarity=0.118 Sum_probs=53.5
Q ss_pred CeEEEeCCCC-ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEe----CHHHHHHHHHHHHHcC
Q 024773 51 PKVVVTRERG-KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIIT----SPEAGSVFLEAWKEAG 125 (262)
Q Consensus 51 ~~VLitR~~~-~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFT----S~~aV~~f~~~l~~~~ 125 (262)
+||++..... ....+.+.|++.|+.+..+|..... ...... .+..+|.||++ ++.....-...+.+.-
T Consensus 1 ~~ilv~d~~~~~~~~~~~~l~~~G~~~~~~~~~~~~----~~~~~~---~~~~~dgliisGGp~~~~~~~~~~~~i~~~~ 73 (214)
T PRK07765 1 MRILVVDNYDSFVFNLVQYLGQLGVEAEVWRNDDPR----LADEAA---VAAQFDGVLLSPGPGTPERAGASIDMVRACA 73 (214)
T ss_pred CeEEEEECCCcHHHHHHHHHHHcCCcEEEEECCCcC----HHHHHH---hhcCCCEEEECCCCCChhhcchHHHHHHHHH
Confidence 4667665543 3456888999999999988775321 111111 13579999998 6554332222232221
Q ss_pred CCCcEEEEeChhHHHHHHHhhhhcCCCCcee
Q 024773 126 TPNVRIGVVGAGTASIFEEVIQSSKCSLDVA 156 (262)
Q Consensus 126 ~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~ 156 (262)
..+++|+.|.-. .+.|-..+ |-++.
T Consensus 74 ~~~~PiLGIC~G-~Qlla~a~-----GG~v~ 98 (214)
T PRK07765 74 AAGTPLLGVCLG-HQAIGVAF-----GATVD 98 (214)
T ss_pred hCCCCEEEEccC-HHHHHHHh-----CCEEe
Confidence 136788766654 45555554 77664
No 261
>PRK12742 oxidoreductase; Provisional
Probab=54.95 E-value=78 Score=26.27 Aligned_cols=32 Identities=9% Similarity=0.118 Sum_probs=25.4
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEE
Q 024773 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLE 78 (262)
Q Consensus 47 ~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~ 78 (262)
++.|++||||..... ...+++.|.+.|+++..
T Consensus 3 ~~~~k~vlItGasggIG~~~a~~l~~~G~~v~~ 35 (237)
T PRK12742 3 AFTGKKVLVLGGSRGIGAAIVRRFVTDGANVRF 35 (237)
T ss_pred CCCCCEEEEECCCChHHHHHHHHHHHCCCEEEE
Confidence 467899999987544 46789999999998763
No 262
>PRK01355 azoreductase; Reviewed
Probab=54.91 E-value=33 Score=28.61 Aligned_cols=55 Identities=18% Similarity=0.307 Sum_probs=32.7
Q ss_pred HHHHHHh--CCCeeeEEeeeccccC--------------CCChHHHHHHcCCCCEEEEeCH-------HHHHHHHHHh
Q 024773 193 IEEGLSN--RGFEVVRLNTYTTEPV--------------HHVDQTVLKQALSIPVVAVASP-------SAVRSWVNLI 247 (262)
Q Consensus 193 L~~~L~~--~G~~v~~i~vY~~~~~--------------~~~~~~~~~~l~~~d~ivFtS~-------s~~~~~~~~~ 247 (262)
+.+.+++ .|.+|+.+.+|+...+ .....++.+.+...|.|||.|| ...+.|++.+
T Consensus 26 ~~~~~~~~~~~~~v~~~dL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~AD~iV~~sP~y~~~ipa~LK~~iDrv 103 (199)
T PRK01355 26 FVEEYKKVNPNDEIIILDLNETKVGSVTLTSENFKTFFKEEVSDKYINQLKSVDKVVISCPMTNFNVPATLKNYLDHI 103 (199)
T ss_pred HHHHHHHhCCCCeEEEEeCCCCCCCcccCCHHHHHhhcCchhHHHHHHHHHhCCEEEEEcCccccCChHHHHHHHHHH
Confidence 4444554 3466777777764331 0111224444568999999998 5667777775
No 263
>PLN02897 tetrahydrofolate dehydrogenase/cyclohydrolase, putative
Probab=54.66 E-value=1.1e+02 Score=28.35 Aligned_cols=68 Identities=15% Similarity=0.029 Sum_probs=44.0
Q ss_pred CCHHHHHHHhhhCC--CCccEEE-EEccCCChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCH
Q 024773 162 ATGKILASELPKNG--KKKCTVL-YPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASP 237 (262)
Q Consensus 162 ~t~e~L~~~l~~~~--~~g~~vL-~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~ 237 (262)
-|..+.++.|..+. ..|++++ +=||+....-|..-|.++|+.|+-+.-.+ . . +.+...+.|+||-.-+
T Consensus 196 CTp~avi~LL~~~~i~l~GK~vvVIGRS~iVGkPla~LL~~~~ATVTicHs~T--~---n---l~~~~~~ADIvIsAvG 266 (345)
T PLN02897 196 CTPKGCVELLIRSGVEIAGKNAVVIGRSNIVGLPMSLLLQRHDATVSTVHAFT--K---D---PEQITRKADIVIAAAG 266 (345)
T ss_pred CCHHHHHHHHHHhCCCCCCCEEEEECCCccccHHHHHHHHHCCCEEEEEcCCC--C---C---HHHHHhhCCEEEEccC
Confidence 48889998887653 3577754 45667777789999999999885443222 1 1 1222357787776544
No 264
>PRK06395 phosphoribosylamine--glycine ligase; Provisional
Probab=54.44 E-value=1.8e+02 Score=27.62 Aligned_cols=85 Identities=9% Similarity=0.108 Sum_probs=48.6
Q ss_pred CCeEEEeCCCCChHHHHHHHHhCCCcEEEece-----E-Ee----eeC--CCchHHHHHHhcCCCccEEEEeCHHHH-HH
Q 024773 50 NPKVVVTRERGKNGKLIKALAKHRIDCLELPL-----I-QH----AQG--PDTDRLSSVLNADTIFDWIIITSPEAG-SV 116 (262)
Q Consensus 50 g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~-----~-~~----~~~--~~~~~l~~~l~~l~~~d~IiFTS~~aV-~~ 116 (262)
-++||+..+......+...|++.|.++...|. . .. ... .+.+.+....+ -.++|+||.++-... ..
T Consensus 2 ~~kVLvlG~G~re~al~~~l~~~g~~v~~~~~~~Npg~~~~a~~~~~~~~~d~e~l~~~~~-~~~id~Vi~~~d~~l~~~ 80 (435)
T PRK06395 2 TMKVMLVGSGGREDAIARAIKRSGAILFSVIGHENPSIKKLSKKYLFYDEKDYDLIEDFAL-KNNVDIVFVGPDPVLATP 80 (435)
T ss_pred ceEEEEECCcHHHHHHHHHHHhCCCeEEEEECCCChhhhhcccceeecCCCCHHHHHHHHH-HhCCCEEEECCChHHHHH
Confidence 37899998887778888899999987776654 1 11 111 23344444442 356888887754322 12
Q ss_pred HHHHHHHcCCCCcEEEEeChhH
Q 024773 117 FLEAWKEAGTPNVRIGVVGAGT 138 (262)
Q Consensus 117 f~~~l~~~~~~~~~i~aVG~~T 138 (262)
....+.+. +++++...+.+
T Consensus 81 ~~~~l~~~---Gi~v~gps~~~ 99 (435)
T PRK06395 81 LVNNLLKR---GIKVASPTMEA 99 (435)
T ss_pred HHHHHHHC---CCcEECCCHHH
Confidence 22233333 44555555555
No 265
>PF02882 THF_DHG_CYH_C: Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain; InterPro: IPR020631 Enzymes that participate in the transfer of one-carbon units require the coenzyme tetrahydrofolate (THF). Various reactions generate one-carbon derivatives of THF, which can be interconverted between different oxidation states by methylene-THF dehydrogenase (1.5.1.5 from EC), methenyl-THF cyclohydrolase (3.5.4.9 from EC) and formyl-THF synthetase (6.3.4.3 from EC) [, ]. The dehydrogenase and cyclohydrolase activities are expressed by a variety of multifunctional enzymes, including the tri-functional eukaryotic C1-tetrahydrofolate synthase []; a bifunctional eukaryotic mitochondrial protein; and the bifunctional Escherichia coli folD protein [, ]. Methylene-tetrahydrofolate dehydrogenase and methenyltetrahydrofolate cyclo-hydrolase share an overlapping active site [], and as such are usually located together in proteins, acting in tandem on the carbon-nitrogen bonds of substrates other than peptide bonds. This entry represents the NAD(P)-binding domain found in these enzymes.; GO: 0003824 catalytic activity, 0004488 methylenetetrahydrofolate dehydrogenase (NADP+) activity, 0009396 folic acid-containing compound biosynthetic process, 0055114 oxidation-reduction process; PDB: 1B0A_A 2C2X_B 2C2Y_A 3NGL_C 3NGX_A 4A26_B 1EDZ_A 1EE9_A 3P2O_B 1DIA_A ....
Probab=54.42 E-value=47 Score=27.02 Aligned_cols=69 Identities=17% Similarity=0.085 Sum_probs=44.3
Q ss_pred CCHHHHHHHhhhCC--CCccEEEEEc-cCCChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHH
Q 024773 162 ATGKILASELPKNG--KKKCTVLYPA-SAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPS 238 (262)
Q Consensus 162 ~t~e~L~~~l~~~~--~~g~~vL~~~-g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s 238 (262)
.|+.++++.|..+. ..|++++++. |.....-|...|.++|+.|+-+..|.. .+.+.+...|+|+-..+.
T Consensus 18 cTp~aii~lL~~~~~~l~Gk~v~VvGrs~~VG~Pla~lL~~~~atVt~~h~~T~--------~l~~~~~~ADIVVsa~G~ 89 (160)
T PF02882_consen 18 CTPLAIIELLEYYGIDLEGKKVVVVGRSNIVGKPLAMLLLNKGATVTICHSKTK--------NLQEITRRADIVVSAVGK 89 (160)
T ss_dssp HHHHHHHHHHHHTT-STTT-EEEEE-TTTTTHHHHHHHHHHTT-EEEEE-TTSS--------SHHHHHTTSSEEEE-SSS
T ss_pred CCHHHHHHHHHhcCCCCCCCEEEEECCcCCCChHHHHHHHhCCCeEEeccCCCC--------cccceeeeccEEeeeecc
Confidence 37888888777653 4677866554 455677899999999999977665541 122334688988877654
No 266
>PF04016 DUF364: Domain of unknown function (DUF364); InterPro: IPR007161 This is a entry represents of bacterial and archaeal proteins of unknown function.; PDB: 3L5O_B 3NPG_A.
Probab=54.12 E-value=9.7 Score=30.48 Aligned_cols=115 Identities=10% Similarity=0.061 Sum_probs=64.2
Q ss_pred CCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeee-----CC---CchHHHHHHhcCCCccEEEEeCHHHHHHHH
Q 024773 47 SNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQ-----GP---DTDRLSSVLNADTIFDWIIITSPEAGSVFL 118 (262)
Q Consensus 47 ~l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~-----~~---~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~ 118 (262)
...|++|.+...- .++.+.|++.+.++..+ +..| .. ........ +...|.+++|..+-+..=+
T Consensus 8 ~~~~~~V~~VG~f---~P~~~~l~~~~~~v~v~---d~~~~~~~~~~~~~~~~~~~~~---l~~aD~viiTGsTlvN~Ti 78 (147)
T PF04016_consen 8 IGPGDKVGMVGYF---QPLVEKLKERGAEVRVF---DLNPDNIGEEPGDVPDEDAEEI---LPWADVVIITGSTLVNGTI 78 (147)
T ss_dssp TTTTSEEEEES-----HCCHHHHCCCCSEEEEE---ESSGGG--SSCT-EEGGGHHHH---GGG-SEEEEECHHCCTTTH
T ss_pred hcCCCEEEEEcCc---HHHHHHHhcCCCCEEEE---ECCCCCCCCCCCcCCHHHHHHH---HccCCEEEEEeeeeecCCH
Confidence 4568899988642 23677887777776654 3333 11 11122222 5789999999998876555
Q ss_pred HHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhh
Q 024773 119 EAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPK 173 (262)
Q Consensus 119 ~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~ 173 (262)
+.+-........++.+||+|.-.-+-.+ ..|++..---..-+.+.+++.+.+
T Consensus 79 ~~iL~~~~~~~~vil~GpS~~~~P~~l~---~~Gv~~v~g~~v~d~~~~~~~i~~ 130 (147)
T PF04016_consen 79 DDILELARNAREVILYGPSAPLHPEALF---DYGVTYVGGSRVVDPEKVLRAISE 130 (147)
T ss_dssp HHHHHHTTTSSEEEEESCCGGS-GGGGC---CTT-SEEEEEEES-HHHHHHHHCT
T ss_pred HHHHHhCccCCeEEEEecCchhhHHHHH---hCCCCEEEEEEEeCHHHHHHHHHc
Confidence 5544443346789999997653332221 116654322223467777777654
No 267
>PLN02409 serine--glyoxylate aminotransaminase
Probab=54.11 E-value=1.1e+02 Score=28.37 Aligned_cols=64 Identities=11% Similarity=-0.052 Sum_probs=35.7
Q ss_pred hCCCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcC-----CCCEEEEeCHH
Q 024773 173 KNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQAL-----SIPVVAVASPS 238 (262)
Q Consensus 173 ~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~-----~~d~ivFtS~s 238 (262)
....+|.+||+.....-.....+.++..|+++..+..-.... ...+++.+.+. +..+|++++++
T Consensus 79 ~~~~~Gd~Vlv~~~~~~~~~~~~~~~~~g~~v~~v~~~~~~~--~~~~~l~~~l~~~~~~~~k~v~~~~~~ 147 (401)
T PLN02409 79 NTLSPGDKVVSFRIGQFSLLWIDQMQRLNFDVDVVESPWGQG--ADLDILKSKLRQDTNHKIKAVCVVHNE 147 (401)
T ss_pred hcCCCCCEEEEeCCCchhHHHHHHHHHcCCceEEEECCCCCC--CCHHHHHHHHhhCcCCCccEEEEEeec
Confidence 333467788888744433444566677788877776422111 22344444442 46777777653
No 268
>KOG2882 consensus p-Nitrophenyl phosphatase [Inorganic ion transport and metabolism]
Probab=54.10 E-value=51 Score=29.76 Aligned_cols=89 Identities=16% Similarity=0.134 Sum_probs=45.0
Q ss_pred eeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCC-CC
Q 024773 85 AQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSK-AT 163 (262)
Q Consensus 85 ~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~-~t 163 (262)
.+.+...+....|..++ .-++|.+=|+.+...+++ +..++. |+...-..+- .+
T Consensus 38 ~~ipGs~e~l~~L~~~g--K~i~fvTNNStksr~~y~------------------kK~~~l------G~~~v~e~~i~ss 91 (306)
T KOG2882|consen 38 KPIPGSPEALNLLKSLG--KQIIFVTNNSTKSREQYM------------------KKFAKL------GFNSVKEENIFSS 91 (306)
T ss_pred CCCCChHHHHHHHHHcC--CcEEEEeCCCcchHHHHH------------------HHHHHh------CccccCcccccCh
Confidence 34444333334444444 667777777766655543 334445 5542111121 23
Q ss_pred HHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHHhCCCe
Q 024773 164 GKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFE 203 (262)
Q Consensus 164 ~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~ 203 (262)
+-.++..+......+++|.++.++.-+ +.|++.|+.
T Consensus 92 a~~~a~ylk~~~~~~k~Vyvig~~gi~----~eL~~aG~~ 127 (306)
T KOG2882|consen 92 AYAIADYLKKRKPFGKKVYVIGEEGIR----EELDEAGFE 127 (306)
T ss_pred HHHHHHHHHHhCcCCCeEEEecchhhh----HHHHHcCce
Confidence 445555554443345677777666543 456666643
No 269
>PRK13556 azoreductase; Provisional
Probab=54.05 E-value=42 Score=28.11 Aligned_cols=26 Identities=19% Similarity=0.397 Sum_probs=19.4
Q ss_pred HHcCCCCEEEEeCH-------HHHHHHHHHhcc
Q 024773 224 KQALSIPVVAVASP-------SAVRSWVNLISD 249 (262)
Q Consensus 224 ~~l~~~d~ivFtS~-------s~~~~~~~~~~~ 249 (262)
+.+...|.|||.+| ...+.|++.+-.
T Consensus 85 ~~l~~AD~iVi~~P~yn~~~Pa~LK~~iD~v~~ 117 (208)
T PRK13556 85 NQFLEADKVVFAFPLWNFTIPAVLHTYIDYLNR 117 (208)
T ss_pred HHHHHCCEEEEeccccccCCcHHHHHHHHHHhc
Confidence 33458899999997 567888877653
No 270
>PF11798 IMS_HHH: IMS family HHH motif; InterPro: IPR024728 This helix-hairpin-helix motif is found in proteins belonging to the type-Y family of DNA polymerases []. This type of polymerases are thought to be involved in UV protection and mutation [, ]. ; PDB: 3PZP_B 2OH2_B 2W7O_B 3IN5_B 1T94_A 2W7P_B 2W8K_A 2AGQ_A 1RYR_A 3RAX_A ....
Probab=54.01 E-value=6.4 Score=22.93 Aligned_cols=16 Identities=19% Similarity=0.281 Sum_probs=13.3
Q ss_pred EEEEeChhHHHHHHHh
Q 024773 130 RIGVVGAGTASIFEEV 145 (262)
Q Consensus 130 ~i~aVG~~Ta~~L~~~ 145 (262)
++.-||++|++.|++.
T Consensus 15 ~~~GIG~kt~~kL~~~ 30 (32)
T PF11798_consen 15 KFWGIGKKTAKKLNKL 30 (32)
T ss_dssp GSTTS-HHHHHHHHCT
T ss_pred hhCCccHHHHHHHHHc
Confidence 5778999999999988
No 271
>PRK05784 phosphoribosylamine--glycine ligase; Provisional
Probab=53.82 E-value=1.7e+02 Score=28.18 Aligned_cols=85 Identities=15% Similarity=0.111 Sum_probs=49.6
Q ss_pred CeEEEeCCCCChHHHHHHHHhC--CCcEEEece------EEe--------ee--CCCchHHHHHHhcCCCccEEEEeCHH
Q 024773 51 PKVVVTRERGKNGKLIKALAKH--RIDCLELPL------IQH--------AQ--GPDTDRLSSVLNADTIFDWIIITSPE 112 (262)
Q Consensus 51 ~~VLitR~~~~~~~l~~~L~~~--G~~v~~~P~------~~~--------~~--~~~~~~l~~~l~~l~~~d~IiFTS~~ 112 (262)
++||++.+......+...|++. |.+++.+|- ..+ .. ..|.+.+....+. ...|+|+...-.
T Consensus 1 mkVLviG~Ggrehal~~~l~~s~~g~~v~~~~g~~Npg~~~~~~~~~~~~~~~~~~d~~~l~~~a~~-~~id~Vi~g~E~ 79 (486)
T PRK05784 1 MKVLLVGDGAREHALAEALEKSTKGYKVYALSSYLNPGINSVVKATGGEYFIGNINSPEEVKKVAKE-VNPDLVVIGPEE 79 (486)
T ss_pred CEEEEECCchhHHHHHHHHHhCCCCCEEEEEECCCChhheeecccccCceEecCCCCHHHHHHHHHH-hCCCEEEECCch
Confidence 5899998887778899889887 888887764 111 11 1233444444433 468888876544
Q ss_pred HH-HHHHHHHHHcCCCCcEEEEeChhHH
Q 024773 113 AG-SVFLEAWKEAGTPNVRIGVVGAGTA 139 (262)
Q Consensus 113 aV-~~f~~~l~~~~~~~~~i~aVG~~Ta 139 (262)
.. ..+...+... +++++..++.++
T Consensus 80 ~l~~glad~l~~~---Gi~v~Gps~~aa 104 (486)
T PRK05784 80 PLFAGVADVLREE---GFPVFGASSKCA 104 (486)
T ss_pred HHHHHHHHHHHhC---CCCEECCcHHHH
Confidence 33 2344445544 334444443333
No 272
>cd01966 Nitrogenase_NifN_1 Nitrogenase_nifN1: A subgroup of the NifN subunit of the NifEN complex: NifN forms an alpha2beta2 tetramer with NifE. NifN and nifE are structurally homologous to nitrogenase MoFe protein beta and alpha subunits respectively. NifEN participates in the synthesis of the iron-molybdenum cofactor (FeMoco) of the MoFe protein. NifB-co (an iron and sulfur containing precursor of the FeMoco) from NifB is transferred to the NifEN complex where it is further processed to FeMoco. The nifEN bound precursor of FeMoco has been identified as a molybdenum-free, iron- and sulfur- containing analog of FeMoco. It has been suggested that this nifEN bound precursor also acts as a cofactor precursor in nitrogenase systems which require a cofactor other than FeMoco: i.e. iron-vanadium cofactor (FeVco) or iron only cofactor (FeFeco).
Probab=53.76 E-value=1.8e+02 Score=27.36 Aligned_cols=142 Identities=13% Similarity=0.102 Sum_probs=79.1
Q ss_pred ChHHHHHHHHhCCCcEEEeceEE----------eee--CCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CCC
Q 024773 61 KNGKLIKALAKHRIDCLELPLIQ----------HAQ--GPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GTP 127 (262)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~P~~~----------~~~--~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~-~~~ 127 (262)
+-.++.+.|++.|+++..+|=+. ..+ ..+ ..++ .+.++.+...-+..++.+ ..+.+.+++. +.+
T Consensus 172 D~~eik~lL~~~Gl~v~~l~d~s~~~d~~~~~~~~~~~~gg-t~le-ei~~~~~A~lniv~~~~~-~~~a~~Lee~~GiP 248 (417)
T cd01966 172 DVEELKDIIEAFGLEPIILPDLSGSLDGHLADDWSPTTTGG-TTLE-DIRQMGRSAATLAIGESM-RKAAEALEERTGVP 248 (417)
T ss_pred HHHHHHHHHHHcCCceEEecCcccccCCCCCCCccccCCCC-CcHH-HHHhhccCeEEEEECHHH-HHHHHHHHHHHCCC
Confidence 45789999999999998876432 111 111 1122 233566677777777765 5666666653 333
Q ss_pred CcEE-EEeCh-hHHHHHHHhhhhcCCCCceeecCCCCC--HHHHHHHhhhC--CCCccEEEEEccCCChhhHHHHHHhCC
Q 024773 128 NVRI-GVVGA-GTASIFEEVIQSSKCSLDVAFSPSKAT--GKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSNRG 201 (262)
Q Consensus 128 ~~~i-~aVG~-~Ta~~L~~~~~~~~~G~~~~~~p~~~t--~e~L~~~l~~~--~~~g~~vL~~~g~~~~~~L~~~L~~~G 201 (262)
-... .-+|- .|.+-|++..+. .|... |+... -+.+.+.+.+. ...|+|+.+..+..-.--+...|.+.|
T Consensus 249 ~~~~~~p~G~~~T~~~L~~la~~--~g~~~---~~~i~~er~~~~~~~~d~~~~l~gkrvai~~~~~~~~~l~~~L~ElG 323 (417)
T cd01966 249 YYVFPSLTGLEAVDALIATLAKL--SGRPV---PEKIRRQRAQLQDAMLDGHFYLGGKRVAIALEPDLLAALSSFLAEMG 323 (417)
T ss_pred eeecCCCcchHHHHHHHHHHHHH--HCCCc---CHHHHHHHHHHHHHHHHHHHHhCCcEEEEEeCHHHHHHHHHHHHHCC
Confidence 2111 12554 566666665211 15432 32211 12233333321 125788877766555667888999999
Q ss_pred CeeeEEeee
Q 024773 202 FEVVRLNTY 210 (262)
Q Consensus 202 ~~v~~i~vY 210 (262)
+.+..+.+.
T Consensus 324 ~~~~~~~~~ 332 (417)
T cd01966 324 AEIVAAVAT 332 (417)
T ss_pred CEEEEEEEC
Confidence 998765553
No 273
>PRK05568 flavodoxin; Provisional
Probab=53.71 E-value=31 Score=26.71 Aligned_cols=36 Identities=17% Similarity=0.205 Sum_probs=24.4
Q ss_pred CCCccEEEEeCHH---------HHHHHHHHHHHcCCCCcEEEEeCh
Q 024773 100 DTIFDWIIITSPE---------AGSVFLEAWKEAGTPNVRIGVVGA 136 (262)
Q Consensus 100 l~~~d~IiFTS~~---------aV~~f~~~l~~~~~~~~~i~aVG~ 136 (262)
+.++|.|+|-||. .+..|++.+... ..+.+++++|.
T Consensus 46 ~~~~d~iilgsp~y~~~~~~~~~~~~f~~~~~~~-~~~k~~~~f~t 90 (142)
T PRK05568 46 VKGADVVALGSPAMGDEVLEEGEMEPFVESISSL-VKGKKLVLFGS 90 (142)
T ss_pred HHhCCEEEEECCccCcccccchhHHHHHHHhhhh-hCCCEEEEEEc
Confidence 4689999999984 366676665432 24667777774
No 274
>cd06288 PBP1_sucrose_transcription_regulator Ligand-binding domain of DNA-binding regulatory proteins specific to sucrose that are members of the LacI-GalR family of bacterial transcription repressors. This group includes the ligand-binding domain of DNA-binding regulatory proteins specific to sucrose 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=53.58 E-value=1.1e+02 Score=25.74 Aligned_cols=45 Identities=16% Similarity=0.070 Sum_probs=29.5
Q ss_pred HHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024773 93 LSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (262)
Q Consensus 93 l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~ 137 (262)
+...+......|+|+.+|-.....++..+.+.+. .++.+++.+..
T Consensus 168 ~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~~vp~di~v~g~d~~ 215 (269)
T cd06288 168 AAALLDLDDRPTAIFCGNDRMAMGAYQALLERGLRIPQDVSVVGFDNQ 215 (269)
T ss_pred HHHHHhCCCCCCEEEEeCcHHHHHHHHHHHHcCCCCcccceEEeeCCc
Confidence 3444434346788888887777777777777765 35667766643
No 275
>cd06350 PBP1_GPCR_family_C_like Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). Ligand-binding domain of membrane-bound glutamate receptors that mediate excitatory transmission on the cellular surface through initial binding of glutamate and are categorized into ionotropic glutamate receptors (iGluRs) and metabotropic glutamate receptors (mGluRs). The metabotropic glutamate receptors (mGluR) are key receptors in the modulation of excitatory synaptic transmission in the central nervous system. The mGluRs are coupled to G proteins and are thus distinct from the iGluRs which internally contain ligand-gated ion channels. The mGluR structure is divided into three regions: the extracellular region, the seven-spanning transmembrane region and the cytoplasmic region. The extr
Probab=53.48 E-value=1.6e+02 Score=26.02 Aligned_cols=89 Identities=12% Similarity=0.061 Sum_probs=51.5
Q ss_pred CCHHHHHHHhhhCCCCccEEEEEccCC-----ChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcC--CCCEEEE
Q 024773 162 ATGKILASELPKNGKKKCTVLYPASAK-----ASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQAL--SIPVVAV 234 (262)
Q Consensus 162 ~t~e~L~~~l~~~~~~g~~vL~~~g~~-----~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~--~~d~ivF 234 (262)
.....+++.+... ..+++.++..+. ..+.+.+.+++.|+.|.....|.............+.+. +.|+|++
T Consensus 146 ~~~~a~~~~~~~~--~~~~v~~l~~~~~~g~~~~~~~~~~~~~~gi~v~~~~~~~~~~~~~d~~~~l~~l~~~~~~vvv~ 223 (348)
T cd06350 146 SQALAIVALLKHF--GWTWVGLVYSDDDYGRSGLSDLEEELEKNGICIAFVEAIPPSSTEEDIKRILKKLKSSTARVIVV 223 (348)
T ss_pred HHHHHHHHHHHHC--CCeEEEEEEecchhHHHHHHHHHHHHHHCCCcEEEEEEccCCCcHHHHHHHHHHHHhCCCcEEEE
Confidence 3456666665543 235666665433 356788889999988766555543321111222333332 5566665
Q ss_pred -eCHHHHHHHHHHhcccCC
Q 024773 235 -ASPSAVRSWVNLISDTEQ 252 (262)
Q Consensus 235 -tS~s~~~~~~~~~~~~~~ 252 (262)
.++..+..++..+.+.+.
T Consensus 224 ~~~~~~~~~~~~~a~~~g~ 242 (348)
T cd06350 224 FGDEDDALRLFCEAYKLGM 242 (348)
T ss_pred EeCcHHHHHHHHHHHHhCC
Confidence 467778888888776543
No 276
>PRK13243 glyoxylate reductase; Reviewed
Probab=53.46 E-value=1.8e+02 Score=26.49 Aligned_cols=166 Identities=17% Similarity=0.135 Sum_probs=88.1
Q ss_pred CeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHH-HHHHHHHHcCCCCc
Q 024773 51 PKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGS-VFLEAWKEAGTPNV 129 (262)
Q Consensus 51 ~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~-~f~~~l~~~~~~~~ 129 (262)
++|+++.+.. ....+.|++. +++...+ .....+.+++ ...+.++|+++..+...+. .+++.+ ++.
T Consensus 3 ~kil~~~~~~--~~~~~~l~~~-~~~~~~~---~~~~~~~~~~---~~~~~~~d~~i~~~~~~~~~~~l~~~-----p~L 68 (333)
T PRK13243 3 PKVFITREIP--ENGIEMLEEH-FEVEVWE---DEREIPREVL---LEKVRDVDALVTMLSERIDCEVFEAA-----PRL 68 (333)
T ss_pred ceEEEECCCC--HHHHHHHhcC-ceEEEec---CCCCCCHHHH---HHHhCCCcEEEEeCCCCCCHHHHhhC-----CCC
Confidence 5788887532 4445666654 3443221 1111122222 3346789988775432222 122221 244
Q ss_pred EEE---EeChh--HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhh--------h-----------------------
Q 024773 130 RIG---VVGAG--TASIFEEVIQSSKCSLDVAFSPSKATGKILASELP--------K----------------------- 173 (262)
Q Consensus 130 ~i~---aVG~~--Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~--------~----------------------- 173 (262)
+++ .+|-- ..+++.+. |+.+.-.|. ++++.+++... .
T Consensus 69 k~I~~~~~G~d~id~~~~~~~------gI~v~n~~g-~~~~~vAE~~~~l~L~~~R~~~~~~~~~~~g~W~~~~~~~~~~ 141 (333)
T PRK13243 69 RIVANYAVGYDNIDVEEATRR------GIYVTNTPG-VLTEATADFAWALLLATARRLVEADHFVRSGEWKRRGVAWHPL 141 (333)
T ss_pred eEEEecCccccccCHHHHHHc------CCEEEECCC-CChHHHHHHHHHHHHHHHhCHHHHHHHHHcCCCCccccccccc
Confidence 443 33322 34667777 888766553 34444332210 0
Q ss_pred ----CCCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCCCh-------HHHHHHcCCCCEEEEeCHHHH
Q 024773 174 ----NGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVD-------QTVLKQALSIPVVAVASPSAV 240 (262)
Q Consensus 174 ----~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~-------~~~~~~l~~~d~ivFtS~s~~ 240 (262)
....|+++.+++-......+.+.|+..|++| .+|.+....... .++.+.+...|+|++.-|.+-
T Consensus 142 ~~~g~~L~gktvgIiG~G~IG~~vA~~l~~~G~~V---~~~d~~~~~~~~~~~~~~~~~l~ell~~aDiV~l~lP~t~ 216 (333)
T PRK13243 142 MFLGYDVYGKTIGIIGFGRIGQAVARRAKGFGMRI---LYYSRTRKPEAEKELGAEYRPLEELLRESDFVSLHVPLTK 216 (333)
T ss_pred cccccCCCCCEEEEECcCHHHHHHHHHHHHCCCEE---EEECCCCChhhHHHcCCEecCHHHHHhhCCEEEEeCCCCh
Confidence 0124678888777666678999999999865 566643322110 123333468899999988655
No 277
>PRK14176 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=53.41 E-value=1.7e+02 Score=26.27 Aligned_cols=161 Identities=14% Similarity=0.123 Sum_probs=85.9
Q ss_pred CeEEEeCCCCChHHHH----HHHHhCCCcEEEeceEEeeeCCCchHHHHHHh---cCCCccEEEEeCHHH--HH--HHHH
Q 024773 51 PKVVVTRERGKNGKLI----KALAKHRIDCLELPLIQHAQGPDTDRLSSVLN---ADTIFDWIIITSPEA--GS--VFLE 119 (262)
Q Consensus 51 ~~VLitR~~~~~~~l~----~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~---~l~~~d~IiFTS~~a--V~--~f~~ 119 (262)
.-++....+..+..+. +..++.|+++..+-+-+.. ..+++...++ +..+.|.|+.--|-- ++ ..++
T Consensus 41 Laii~vg~d~aS~~Yv~~k~k~~~~~Gi~~~~~~l~~~~---~~~el~~~I~~LN~D~~V~GIlvqlPLP~~i~~~~i~~ 117 (287)
T PRK14176 41 LATILVGDDPASKMYVRLKHKACERVGIRAEDQFLPADT---TQEELLELIDSLNKRKDVHGILLQLPLPKHLDPQEAME 117 (287)
T ss_pred EEEEEECCCcchHHHHHHHHHHHHHcCCEEEEEECCCCC---CHHHHHHHHHHHhCCCCCCeEEEcCCCCCCCCHHHHHh
Confidence 3455555555444444 4455679887765442221 2234444443 446789999987732 21 1222
Q ss_pred HHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC--CCccEEEEEc-cCCChhhHHHH
Q 024773 120 AWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPA-SAKASNEIEEG 196 (262)
Q Consensus 120 ~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~g~~vL~~~-g~~~~~~L~~~ 196 (262)
.+.. .+.|=++.+.-...|- . |-. .+.| -|+.+.++.|..+. ..|++++++. |+....-|...
T Consensus 118 ~I~p----~KDVDGl~~~N~g~l~-~------g~~-~~~P--cTp~av~~ll~~~~i~l~Gk~vvViGrs~iVGkPla~l 183 (287)
T PRK14176 118 AIDP----AKDADGFHPYNMGKLM-I------GDE-GLVP--CTPHGVIRALEEYGVDIEGKNAVIVGHSNVVGKPMAAM 183 (287)
T ss_pred ccCc----cccccccChhhhhhHh-c------CCC-CCCC--CcHHHHHHHHHHcCCCCCCCEEEEECCCcccHHHHHHH
Confidence 2211 1222223332222221 1 322 2444 48889998877653 3678876665 44467789999
Q ss_pred HHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeC
Q 024773 197 LSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVAS 236 (262)
Q Consensus 197 L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS 236 (262)
|.++|+.|+-+..... .+.+...+.|+++-..
T Consensus 184 L~~~~atVtv~hs~T~--------~l~~~~~~ADIvv~Av 215 (287)
T PRK14176 184 LLNRNATVSVCHVFTD--------DLKKYTLDADILVVAT 215 (287)
T ss_pred HHHCCCEEEEEeccCC--------CHHHHHhhCCEEEEcc
Confidence 9999998855543221 1223345778777533
No 278
>cd06326 PBP1_STKc_like Type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins. The type I periplasmic binding domain of uncharacterized extracellular ligand-binding proteins, some of which contain a conserved catalytic serine/threonine protein kinase (STKc) domain in the N-terminal region. Members of this group are sequence-similar to the branched-chain amino acid ABC transporter leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=52.94 E-value=1.6e+02 Score=25.84 Aligned_cols=146 Identities=14% Similarity=0.089 Sum_probs=76.1
Q ss_pred CCccEEEEeC-HHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCC-CCCHHHHHHHhhhCCCCc
Q 024773 101 TIFDWIIITS-PEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPS-KATGKILASELPKNGKKK 178 (262)
Q Consensus 101 ~~~d~IiFTS-~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~-~~t~e~L~~~l~~~~~~g 178 (262)
+..|+||... ..........+.+. +++++..+..+ ..+... .. ..-..+.+. ......+++.+.+.. .
T Consensus 67 ~~v~avig~~~s~~~~~~~~~~~~~---~iP~i~~~~~~-~~~~~~---~~-~~~~~~~~~~~~~~~~~~~~l~~~g--~ 136 (336)
T cd06326 67 DKVFALFGYVGTPTTAAALPLLEEA---GVPLVGPFTGA-SSLRDP---PD-RNVFNVRASYADEIAAIVRHLVTLG--L 136 (336)
T ss_pred cCcEEEEeCCCchhHHHHHHHHHHc---CCeEEEecCCc-HHhcCC---CC-CceEEeCCChHHHHHHHHHHHHHhC--C
Confidence 3688888643 22233344444443 56777665322 223211 00 111112232 233455666666543 4
Q ss_pred cEEEEEccCC-----ChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHc-CCCCEEEEeCH-HHHHHHHHHhcccC
Q 024773 179 CTVLYPASAK-----ASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA-LSIPVVAVASP-SAVRSWVNLISDTE 251 (262)
Q Consensus 179 ~~vL~~~g~~-----~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l-~~~d~ivFtS~-s~~~~~~~~~~~~~ 251 (262)
+++.++..+. ..+.+.+.+++.|..+.....|.... ......+.+.. ...|+|++++. ..+-.+++.+++.+
T Consensus 137 ~~v~~l~~~~~~~~~~~~~~~~~~~~~G~~~~~~~~~~~~~-~d~~~~~~~l~~~~~dav~~~~~~~~a~~~i~~~~~~G 215 (336)
T cd06326 137 KRIAVFYQDDAFGKDGLAGVEKALAARGLKPVATASYERNT-ADVAAAVAQLAAARPQAVIMVGAYKAAAAFIRALRKAG 215 (336)
T ss_pred ceEEEEEecCcchHHHHHHHHHHHHHcCCCeEEEEeecCCc-ccHHHHHHHHHhcCCCEEEEEcCcHHHHHHHHHHHhcC
Confidence 6777775443 24567788899998876655555321 11112222222 26899999874 56778888887654
Q ss_pred CCCCeEE
Q 024773 252 QWSNSVA 258 (262)
Q Consensus 252 ~~~~~i~ 258 (262)
. +.+++
T Consensus 216 ~-~~~~~ 221 (336)
T cd06326 216 G-GAQFY 221 (336)
T ss_pred C-CCcEE
Confidence 2 34443
No 279
>cd01743 GATase1_Anthranilate_Synthase Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase. Type 1 glutamine amidotransferase (GATase1) domain found in Anthranilate synthase (ASase). This group contains proteins similar to para-aminobenzoate (PABA) synthase and ASase. These enzymes catalyze similar reactions and produce similar products, PABA and ortho-aminobenzoate (anthranilate). Each enzyme is composed of non-identical subunits: a glutamine amidotransferase subunit (component II) and a subunit that produces an aminobenzoate products (component I). ASase catalyses the synthesis of anthranilate from chorismate and glutamine and is a tetrameric protein comprising two copies each of components I and II. Component II of ASase belongs to the family of triad GTases which hydrolyze glutamine and transfer nascent ammonia between the active sites. In some bacteria, such as Escherichia coli, component II can be much larger than in other organisms, due to the prese
Probab=52.86 E-value=89 Score=25.44 Aligned_cols=88 Identities=18% Similarity=0.077 Sum_probs=51.0
Q ss_pred EEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEe----CHHHHHHHHHHHHHcCCCCc
Q 024773 54 VVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIIT----SPEAGSVFLEAWKEAGTPNV 129 (262)
Q Consensus 54 LitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFT----S~~aV~~f~~~l~~~~~~~~ 129 (262)
++-..+.-...+.+.|++.|+++..+|..... +. +..+..+|.||++ |+.....+....... ..++
T Consensus 3 ~~~~~~~~~~~~~~~l~~~G~~~~~~~~~~~~-----~~----~~~~~~~dgvil~gG~~~~~~~~~~~~i~~~~-~~~~ 72 (184)
T cd01743 3 LIDNYDSFTYNLVQYLRELGAEVVVVRNDEIT-----LE----ELELLNPDAIVISPGPGHPEDAGISLEIIRAL-AGKV 72 (184)
T ss_pred EEeCCCccHHHHHHHHHHcCCceEEEeCCCCC-----HH----HHhhcCCCEEEECCCCCCcccchhHHHHHHHH-hcCC
Confidence 34466667788999999999999887773321 11 1134679998875 433222222222111 2357
Q ss_pred EEEEeChhHHHHHHHhhhhcCCCCceee
Q 024773 130 RIGVVGAGTASIFEEVIQSSKCSLDVAF 157 (262)
Q Consensus 130 ~i~aVG~~Ta~~L~~~~~~~~~G~~~~~ 157 (262)
+++.|+-.-.-..... |-++..
T Consensus 73 PvlGIC~G~Qlla~~~------Gg~v~~ 94 (184)
T cd01743 73 PILGVCLGHQAIAEAF------GGKVVR 94 (184)
T ss_pred CEEEECHhHHHHHHHh------CCEEEe
Confidence 8887776544444444 766543
No 280
>PRK06139 short chain dehydrogenase; Provisional
Probab=52.67 E-value=1.2e+02 Score=27.40 Aligned_cols=85 Identities=13% Similarity=0.090 Sum_probs=48.8
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEE----EEeCHHHHHHHHHH
Q 024773 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWI----IITSPEAGSVFLEA 120 (262)
Q Consensus 46 ~~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~I----iFTS~~aV~~f~~~ 120 (262)
..+.+++||||..... ...+++.|.+.|++|+.. -+.. ...+++...+...+ .++. =+|+..+++.+++.
T Consensus 3 ~~l~~k~vlITGAs~GIG~aia~~la~~G~~Vvl~--~R~~--~~l~~~~~~~~~~g-~~~~~~~~Dv~d~~~v~~~~~~ 77 (330)
T PRK06139 3 GPLHGAVVVITGASSGIGQATAEAFARRGARLVLA--ARDE--EALQAVAEECRALG-AEVLVVPTDVTDADQVKALATQ 77 (330)
T ss_pred cCCCCCEEEEcCCCCHHHHHHHHHHHHCCCEEEEE--ECCH--HHHHHHHHHHHhcC-CcEEEEEeeCCCHHHHHHHHHH
Confidence 4577899999988654 467899999999987632 1111 11122222232222 2222 25788999998887
Q ss_pred HHHc-CCCCcEEEEeC
Q 024773 121 WKEA-GTPNVRIGVVG 135 (262)
Q Consensus 121 l~~~-~~~~~~i~aVG 135 (262)
+.+. +.-+.-|.+.|
T Consensus 78 ~~~~~g~iD~lVnnAG 93 (330)
T PRK06139 78 AASFGGRIDVWVNNVG 93 (330)
T ss_pred HHHhcCCCCEEEECCC
Confidence 7654 22233344444
No 281
>PRK06463 fabG 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
Probab=52.56 E-value=90 Score=26.42 Aligned_cols=82 Identities=11% Similarity=0.054 Sum_probs=46.2
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEE--EEeCHHHHHHHHHHHH
Q 024773 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWI--IITSPEAGSVFLEAWK 122 (262)
Q Consensus 46 ~~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~I--iFTS~~aV~~f~~~l~ 122 (262)
..+.|++++||..... ...+++.|.+.|++|... .+ . . +...+.+... ...++ =+++..+++.+++.+.
T Consensus 3 ~~l~~k~~lItGas~gIG~~~a~~l~~~G~~v~~~--~~-~---~-~~~~~~l~~~-~~~~~~~Dl~~~~~~~~~~~~~~ 74 (255)
T PRK06463 3 MRFKGKVALITGGTRGIGRAIAEAFLREGAKVAVL--YN-S---A-ENEAKELREK-GVFTIKCDVGNRDQVKKSKEVVE 74 (255)
T ss_pred CCcCCCEEEEeCCCChHHHHHHHHHHHCCCEEEEE--eC-C---c-HHHHHHHHhC-CCeEEEecCCCHHHHHHHHHHHH
Confidence 4567899999987654 467899999999987632 11 0 1 1111222221 22222 2467888888777665
Q ss_pred Hc-CCCCcEEEEeC
Q 024773 123 EA-GTPNVRIGVVG 135 (262)
Q Consensus 123 ~~-~~~~~~i~aVG 135 (262)
+. +.-+.-|.+.|
T Consensus 75 ~~~~~id~li~~ag 88 (255)
T PRK06463 75 KEFGRVDVLVNNAG 88 (255)
T ss_pred HHcCCCCEEEECCC
Confidence 43 21234444444
No 282
>cd06371 PBP1_sensory_GC_DEF_like Ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. This group includes the ligand-binding domain of membrane guanylyl cyclases (GC-D, GC-E, and GC-F) that are specifically expressed in sensory tissues. They share a similar topology with an N-terminal extracellular ligand-binding domain, a single transmembrane domain, and a C-terminal cytosolic region that contains kinase-like and catalytic domains. GC-D is specifically expressed in a subpopulation of olfactory sensory neurons. GC-E and GC-F are colocalized within the same photoreceptor cells of the retina and have important roles in phototransduction. Unlike the other family members, GC-E and GC-F have no known extracellular ligands. Instead, they are activated under low calcium conditions by guanylyl cyclase activating proteins called GCAPs. GC-D expressing neurons have been implicated in pheromone detection and GC-D is phyloge
Probab=52.54 E-value=1.9e+02 Score=26.51 Aligned_cols=137 Identities=13% Similarity=0.087 Sum_probs=68.3
Q ss_pred CccEEE-EeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccE
Q 024773 102 IFDWII-ITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCT 180 (262)
Q Consensus 102 ~~d~Ii-FTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~ 180 (262)
+.++|| -.|..++......+... ++++++-|.. ...+-+. .++..-+.........++..+ ++... ++
T Consensus 66 ~V~aviGp~~S~~~~a~a~va~~~---~iP~Is~~a~-~~~lt~~-----~~y~~f~r~~~~~~~~~~~~~-~~~~w-~~ 134 (382)
T cd06371 66 YASAFVGPVNPGYCEAAALLAKEW---DKALFSWGCV-NYELDDV-----RSYPTFARTLPSPSRVLFTVL-RYFRW-AH 134 (382)
T ss_pred CceEEECCCCchHHHHHHHHHHhc---CceEEecccC-chhhcCc-----ccCCCceecCCCcHHHHHHHH-HHCCC-eE
Confidence 344443 23334455555555444 5667666643 3333321 032221111112244555444 33322 56
Q ss_pred EEEEccCCC-----hhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcC--C-CCEEEEeCH------HHHHHHHHH
Q 024773 181 VLYPASAKA-----SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQAL--S-IPVVAVASP------SAVRSWVNL 246 (262)
Q Consensus 181 vL~~~g~~~-----~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~--~-~d~ivFtS~------s~~~~~~~~ 246 (262)
+.++..+.. .+.+.+.|++.|+.|....-|.... ......++.++ + .++|++... ..+..++..
T Consensus 135 vaii~~~~~~~~~~~~~l~~~l~~~gi~v~~~~~~~~~~--~d~~~~L~~lk~~~~~~viv~~~~~~~~~~~~~~~i~~q 212 (382)
T cd06371 135 VAIVSSPQDIWVETAQKLASALRAHGLPVGLVTSMGPDE--KGAREALKKVRSADRVRVVIMCMHSVLIGGEEQRLLLET 212 (382)
T ss_pred EEEEEecccchHHHHHHHHHHHHHCCCcEEEEEEecCCH--HHHHHHHHHHhcCCCcEEEEEEeeccccCcHHHHHHHHH
Confidence 666644332 5778889999998776554444221 12223344443 3 578777543 455677777
Q ss_pred hcccC
Q 024773 247 ISDTE 251 (262)
Q Consensus 247 ~~~~~ 251 (262)
+.+.+
T Consensus 213 a~~~G 217 (382)
T cd06371 213 ALEMG 217 (382)
T ss_pred HHHcC
Confidence 76654
No 283
>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=52.00 E-value=1.4e+02 Score=24.88 Aligned_cols=79 Identities=14% Similarity=0.220 Sum_probs=46.6
Q ss_pred ccEEEEEccCC-----ChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHc--CCCCEEEEeCH-----HHHHHHHH
Q 024773 178 KCTVLYPASAK-----ASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVASP-----SAVRSWVN 245 (262)
Q Consensus 178 g~~vL~~~g~~-----~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l--~~~d~ivFtS~-----s~~~~~~~ 245 (262)
+.++++.+-.+ +..-+...|+..|++|..+- ...+ .+++.+.+ .+.|+|.+++. ..++.+++
T Consensus 82 ~~~vl~~~~~gd~H~lG~~~v~~~l~~~G~~vi~lG--~~~p----~~~l~~~~~~~~~d~v~lS~~~~~~~~~~~~~i~ 155 (201)
T cd02070 82 KGKVVIGTVEGDIHDIGKNLVATMLEANGFEVIDLG--RDVP----PEEFVEAVKEHKPDILGLSALMTTTMGGMKEVIE 155 (201)
T ss_pred CCeEEEEecCCccchHHHHHHHHHHHHCCCEEEECC--CCCC----HHHHHHHHHHcCCCEEEEeccccccHHHHHHHHH
Confidence 46777766543 46677788999999883222 2222 23444433 37888877763 33445555
Q ss_pred HhcccC-CCCCeEEEECC
Q 024773 246 LISDTE-QWSNSVACIAG 262 (262)
Q Consensus 246 ~~~~~~-~~~~~i~~IGp 262 (262)
.+++.. ..+++|++=|+
T Consensus 156 ~lr~~~~~~~~~i~vGG~ 173 (201)
T cd02070 156 ALKEAGLRDKVKVMVGGA 173 (201)
T ss_pred HHHHCCCCcCCeEEEECC
Confidence 665543 23677777664
No 284
>cd06273 PBP1_GntR_like_1 This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), a member of the LacI-GalR family of bacterial transcription regulators. This group includes the ligand-binding domain of putative DNA transcription repressors which are highly similar to that of the repressor specific for gluconate (GntR), 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 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
Probab=51.94 E-value=55 Score=27.62 Aligned_cols=73 Identities=15% Similarity=0.040 Sum_probs=41.9
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeCh
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGA 136 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~ 136 (262)
-+.+.++++|..+.....+......+ .+.+.+.++.....|+|+.++......++..+.+.+. +++.+++.+.
T Consensus 138 gf~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~~~~a~~~~~~l~~~g~~~p~~i~vig~d~ 215 (268)
T cd06273 138 GVRAALAEAGLELPELWQVEAPYSIADGRAALRQLLEQPPRPTAVICGNDVLALGALYEARRLGLSVPEDLSIVGFDD 215 (268)
T ss_pred HHHHHHHHcCCCCCHHHeeeCCCcHHHHHHHHHHHHcCCCCCCEEEEcChHHHHHHHHHHHHcCCCCCCceEEEecCC
Confidence 35567777776543222222111111 1223344433356899999888877778888877765 3566777664
No 285
>cd06323 PBP1_ribose_binding Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Periplasmic sugar-binding domain of the thermophilic Thermoanaerobacter tengcongensis ribose binding protein (ttRBP) and its mesophilic homologs. Members of this group are belonging to the type I periplasmic binding protein superfamily, whose members are involved in chemotaxis, ATP-binding cassette transport, and intercellular communication in central nervous system. The thermophilic and mesophilic ribose-binding proteins are structurally very similar, but differ substantially in thermal stability.
Probab=51.82 E-value=75 Score=26.69 Aligned_cols=38 Identities=18% Similarity=0.153 Sum_probs=24.1
Q ss_pred CCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhH
Q 024773 101 TIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGT 138 (262)
Q Consensus 101 ~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~T 138 (262)
.++++++.++-......+..+.+.+.+++.|++.+...
T Consensus 180 ~~~~ai~~~~d~~a~~~~~~l~~~g~~di~iig~d~~~ 217 (268)
T cd06323 180 PDIKGVFAQNDEMALGAIEALKAAGKDDVKVVGFDGTP 217 (268)
T ss_pred CCcCEEEEcCCchHHHHHHHHHHcCCCCcEEEEeCCCH
Confidence 45677777776666666666666665556666666543
No 286
>TIGR02690 resist_ArsH arsenical resistance protein ArsH. Members of this protein family occur in arsenate resistance operons that include at least two different types of arsenate reductase. ArsH is not required for arsenate resistance in some systems. This family belongs to the larger family of NADPH-dependent FMN reductases (Pfam model pfam03358). The function of ArsH is not known.
Probab=51.79 E-value=1.4e+02 Score=25.56 Aligned_cols=83 Identities=11% Similarity=0.039 Sum_probs=47.6
Q ss_pred ccEEEEEccCCC--------hhhHHHHHHhCCCeeeEEe-----eeccccCCCCh--HHHHHHcCCCCEEEEeCH-----
Q 024773 178 KCTVLYPASAKA--------SNEIEEGLSNRGFEVVRLN-----TYTTEPVHHVD--QTVLKQALSIPVVAVASP----- 237 (262)
Q Consensus 178 g~~vL~~~g~~~--------~~~L~~~L~~~G~~v~~i~-----vY~~~~~~~~~--~~~~~~l~~~d~ivFtS~----- 237 (262)
-.+|+.+.|... -+.+.+.+.+.|++++.+. .|.-... ..+ ..+.+.+...|+++|.||
T Consensus 26 ~~kI~~I~GSlR~~S~n~~la~~~~~~~~~~g~~v~~idl~~lPl~~~d~~-~~p~v~~l~~~v~~ADgvii~TPEYn~s 104 (219)
T TIGR02690 26 IPRILLLYGSLRERSYSRLLAEEAARLLGCEGRETRIFDPPGLPLPDAAHA-DHPKVRELRQLSEWSEGQVWCSPERHGA 104 (219)
T ss_pred CCEEEEEECCCCCcchHHHHHHHHHHHHhhcCCEEEEeCcccCCCCCcCcc-cCHHHHHHHHHHHhCCEEEEeCCccccC
Confidence 367888888653 3344556666688776654 3431111 111 123344468999999998
Q ss_pred --HHHHHHHHHhccc-----CCCCCeEEEEC
Q 024773 238 --SAVRSWVNLISDT-----EQWSNSVACIA 261 (262)
Q Consensus 238 --s~~~~~~~~~~~~-----~~~~~~i~~IG 261 (262)
...+++++.+... ...+++++.+|
T Consensus 105 ipg~LKNaiDwls~~~~~~~~~~~Kpvaivg 135 (219)
T TIGR02690 105 ITGSQKDQIDWIPLSVGPVRPTQGKTLAVMQ 135 (219)
T ss_pred cCHHHHHHHHhcccCcccccccCCCcEEEEE
Confidence 4666677766542 12345555554
No 287
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=51.72 E-value=95 Score=22.85 Aligned_cols=78 Identities=17% Similarity=0.152 Sum_probs=40.1
Q ss_pred ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC--CccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhH
Q 024773 61 KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT--IFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGT 138 (262)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~--~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~T 138 (262)
++.+..+.|+++|..+..+ ...+....+++.+.+..++ --.-=|+||..+...++..- ....+++++|+..
T Consensus 18 ga~e~l~~L~~~g~~~~~l---TNns~~s~~~~~~~L~~~Gi~~~~~~i~ts~~~~~~~l~~~----~~~~~v~vlG~~~ 90 (101)
T PF13344_consen 18 GAVEALDALRERGKPVVFL---TNNSSRSREEYAKKLKKLGIPVDEDEIITSGMAAAEYLKEH----KGGKKVYVLGSDG 90 (101)
T ss_dssp THHHHHHHHHHTTSEEEEE---ES-SSS-HHHHHHHHHHTTTT--GGGEEEHHHHHHHHHHHH----TTSSEEEEES-HH
T ss_pred CHHHHHHHHHHcCCCEEEE---eCCCCCCHHHHHHHHHhcCcCCCcCEEEChHHHHHHHHHhc----CCCCEEEEEcCHH
Confidence 4566666677766444432 2222222233444443332 11124688888887776642 2367899888653
Q ss_pred -HHHHHHh
Q 024773 139 -ASIFEEV 145 (262)
Q Consensus 139 -a~~L~~~ 145 (262)
.+.++++
T Consensus 91 l~~~l~~~ 98 (101)
T PF13344_consen 91 LREELREA 98 (101)
T ss_dssp HHHHHHHT
T ss_pred HHHHHHHc
Confidence 4556666
No 288
>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=51.33 E-value=95 Score=22.74 Aligned_cols=77 Identities=14% Similarity=0.204 Sum_probs=40.0
Q ss_pred CCCeEEEeCCCCCh-----HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHH
Q 024773 49 SNPKVVVTRERGKN-----GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKE 123 (262)
Q Consensus 49 ~g~~VLitR~~~~~-----~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~ 123 (262)
..++||+.....-+ ..+.+.++++|+++. +.... ..++.. ...++|. |+++|.-... ++.+++
T Consensus 2 ~~~~ILl~C~~G~sSS~l~~k~~~~~~~~gi~~~------v~a~~-~~~~~~---~~~~~Dv-ill~pqi~~~-~~~i~~ 69 (95)
T TIGR00853 2 NETNILLLCAAGMSTSLLVNKMNKAAEEYGVPVK------IAAGS-YGAAGE---KLDDADV-VLLAPQVAYM-LPDLKK 69 (95)
T ss_pred CccEEEEECCCchhHHHHHHHHHHHHHHCCCcEE------EEEec-HHHHHh---hcCCCCE-EEECchHHHH-HHHHHH
Confidence 34688877765422 455666777888743 33221 222222 2467884 4555544433 333443
Q ss_pred cC-CCCcEEEEeChh
Q 024773 124 AG-TPNVRIGVVGAG 137 (262)
Q Consensus 124 ~~-~~~~~i~aVG~~ 137 (262)
.. ..++++..|.+.
T Consensus 70 ~~~~~~ipv~~I~~~ 84 (95)
T TIGR00853 70 ETDKKGIPVEVINGA 84 (95)
T ss_pred HhhhcCCCEEEeChh
Confidence 22 125677777764
No 289
>cd06341 PBP1_ABC_ligand_binding_like_7 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=51.30 E-value=69 Score=28.41 Aligned_cols=64 Identities=22% Similarity=0.217 Sum_probs=39.8
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH-HHHHHHHHHHHcCCCC
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE-AGSVFLEAWKEAGTPN 128 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~-aV~~f~~~l~~~~~~~ 128 (262)
..+.+.++++|.++.....+... ..+....-..+.. .+.|+|++++.. ....|++.+.+.+.+.
T Consensus 151 ~~~~~~~~~~G~~v~~~~~~~~~-~~d~~~~~~~i~~-~~pdaV~~~~~~~~a~~~~~~~~~~G~~~ 215 (341)
T cd06341 151 ALLARSLAAAGVSVAGIVVITAT-APDPTPQAQQAAA-AGADAIITVLDAAVCASVLKAVRAAGLTP 215 (341)
T ss_pred HHHHHHHHHcCCccccccccCCC-CCCHHHHHHHHHh-cCCCEEEEecChHHHHHHHHHHHHcCCCC
Confidence 44677888889887665444332 2233222222322 468999888766 6677778888877653
No 290
>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=51.21 E-value=95 Score=22.69 Aligned_cols=63 Identities=22% Similarity=0.258 Sum_probs=35.2
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHH-cCCCCcEEEEeChh
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKE-AGTPNVRIGVVGAG 137 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~-~~~~~~~i~aVG~~ 137 (262)
..+.+.++++|.++ ++.... ..++.. ...++| +|+++|.-...+-+ +++ ....++++..|++.
T Consensus 17 ~ki~~~~~~~~~~~------~v~~~~-~~~~~~---~~~~~D-iil~~Pqv~~~~~~-i~~~~~~~~~pv~~I~~~ 80 (96)
T cd05564 17 KKMKKAAEKRGIDA------EIEAVP-ESELEE---YIDDAD-VVLLGPQVRYMLDE-VKKKAAEYGIPVAVIDMM 80 (96)
T ss_pred HHHHHHHHHCCCce------EEEEec-HHHHHH---hcCCCC-EEEEChhHHHHHHH-HHHHhccCCCcEEEcChH
Confidence 45666777888763 333221 222221 246788 66777765554443 433 33347788888874
No 291
>PRK00676 hemA glutamyl-tRNA reductase; Validated
Probab=50.78 E-value=35 Score=31.32 Aligned_cols=58 Identities=19% Similarity=0.267 Sum_probs=37.9
Q ss_pred CccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCCChHHH----HHHcCCCCEEEEeC
Q 024773 177 KKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTV----LKQALSIPVVAVAS 236 (262)
Q Consensus 177 ~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~----~~~l~~~d~ivFtS 236 (262)
.++++|+++..+-.......|.++|. ..+.+..+........+. ...+...|+|++.|
T Consensus 173 ~~k~vLvIGaGem~~l~a~~L~~~g~--~~i~v~nRt~~~~~~~~~~~~~~~~~~~~DvVIs~t 234 (338)
T PRK00676 173 KKASLLFIGYSEINRKVAYYLQRQGY--SRITFCSRQQLTLPYRTVVREELSFQDPYDVIFFGS 234 (338)
T ss_pred cCCEEEEEcccHHHHHHHHHHHHcCC--CEEEEEcCCccccchhhhhhhhhhcccCCCEEEEcC
Confidence 57899999998888888999999886 345554444322222222 12235899998853
No 292
>COG2185 Sbm Methylmalonyl-CoA mutase, C-terminal domain/subunit (cobalamin-binding) [Lipid metabolism]
Probab=50.61 E-value=93 Score=24.91 Aligned_cols=61 Identities=15% Similarity=0.074 Sum_probs=43.1
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCC-----hhhHHHHHHhCCCeeeE
Q 024773 137 GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA-----SNEIEEGLSNRGFEVVR 206 (262)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~-----~~~L~~~L~~~G~~v~~ 206 (262)
-.+.+|++. ||+++..+-..+.++.+....+.. -.++.+++-.+ -+.+.+.|+++|..-..
T Consensus 31 via~~l~d~------GfeVi~~g~~~tp~e~v~aA~~~d---v~vIgvSsl~g~h~~l~~~lve~lre~G~~~i~ 96 (143)
T COG2185 31 VIARALADA------GFEVINLGLFQTPEEAVRAAVEED---VDVIGVSSLDGGHLTLVPGLVEALREAGVEDIL 96 (143)
T ss_pred HHHHHHHhC------CceEEecCCcCCHHHHHHHHHhcC---CCEEEEEeccchHHHHHHHHHHHHHHhCCcceE
Confidence 467888888 999988887788888887664432 34555665443 45677889998876533
No 293
>TIGR03566 FMN_reduc_MsuE FMN reductase, MsuE subfamily. Members of this protein family use NAD(P)H to reduce FMN and regenerate FMNH2. Members include the NADH-dependent enzyme MsuE from Pseudomonas aeruginosa, which serves as a partner to an FMNH2-dependent alkanesulfonate monooxygenase. The NADP-dependent enzyme from E. coli is outside the scope of this model.
Probab=50.57 E-value=45 Score=27.02 Aligned_cols=62 Identities=13% Similarity=0.059 Sum_probs=35.7
Q ss_pred hCCCcEEEeceEEeeeC---C-----CchHHHHHHhcCCCccEEEEeCH-------HHHHHHHHHHHHcCCCCcEEE
Q 024773 71 KHRIDCLELPLIQHAQG---P-----DTDRLSSVLNADTIFDWIIITSP-------EAGSVFLEAWKEAGTPNVRIG 132 (262)
Q Consensus 71 ~~G~~v~~~P~~~~~~~---~-----~~~~l~~~l~~l~~~d~IiFTS~-------~aV~~f~~~l~~~~~~~~~i~ 132 (262)
+.|.++..+-+.+..+. . ..+.+....+++...|.|||.|| ...++|++.+....+.+.+++
T Consensus 29 ~~g~ev~~idL~~~~~~~~~~~~~~~~~~~~~~~~~~i~~AD~iIi~tP~Y~~s~~~~LKn~lD~~~~~~l~~K~~~ 105 (174)
T TIGR03566 29 RLGISPRTIDLADLAPSLGGALWRSQLPPDAERILQAIESADLLVVGSPVYRGSYTGLFKHLFDLVDPNALIGKPVL 105 (174)
T ss_pred hcCCeEEEEEhhhcChhhccccccCCCCHHHHHHHHHHHHCCEEEEECCcCcCcCcHHHHHHHHhcCHhHhCCCEEE
Confidence 45778776655443211 0 12345555666788999999998 455666665532223344443
No 294
>PRK08594 enoyl-(acyl carrier protein) reductase; Provisional
Probab=50.41 E-value=1.6e+02 Score=25.14 Aligned_cols=85 Identities=13% Similarity=0.020 Sum_probs=50.4
Q ss_pred CCCCCeEEEeCCC---CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEE----EEeCHHHHHHHHH
Q 024773 47 SNSNPKVVVTRER---GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWI----IITSPEAGSVFLE 119 (262)
Q Consensus 47 ~l~g~~VLitR~~---~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~I----iFTS~~aV~~f~~ 119 (262)
.+.||+++||... .=...+++.|.+.|++|+.. .+... +.+.+++....+...... =+|+..+++.+++
T Consensus 4 ~~~~k~~lItGa~~s~GIG~aia~~la~~G~~v~~~--~r~~~--~~~~~~~~~~~~~~~~~~~~~~Dv~d~~~v~~~~~ 79 (257)
T PRK08594 4 SLEGKTYVVMGVANKRSIAWGIARSLHNAGAKLVFT--YAGER--LEKEVRELADTLEGQESLLLPCDVTSDEEITACFE 79 (257)
T ss_pred ccCCCEEEEECCCCCCCHHHHHHHHHHHCCCEEEEe--cCccc--chHHHHHHHHHcCCCceEEEecCCCCHHHHHHHHH
Confidence 4679999999974 44678999999999998754 22111 112233333222211221 1689999999988
Q ss_pred HHHHc-CCCCcEEEEeC
Q 024773 120 AWKEA-GTPNVRIGVVG 135 (262)
Q Consensus 120 ~l~~~-~~~~~~i~aVG 135 (262)
.+.+. +.-+.-|.+.|
T Consensus 80 ~~~~~~g~ld~lv~nag 96 (257)
T PRK08594 80 TIKEEVGVIHGVAHCIA 96 (257)
T ss_pred HHHHhCCCccEEEECcc
Confidence 77653 32233344444
No 295
>cd06300 PBP1_ABC_sugar_binding_like_1 Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members of the pentose/hexose sugar-binding protein family of the type I periplasmic binding protein superfamily. Periplasmic sugar-binding component of uncharacterized ABC-type transport systems that are members 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. Members of this group are predicted to be involved in the transport of sugar-containing molecules across cellular and organellar membranes; however their substrate specificity is not known in detail.
Probab=50.20 E-value=1.3e+02 Score=25.42 Aligned_cols=73 Identities=11% Similarity=0.049 Sum_probs=39.8
Q ss_pred HHHHHHHhCC-CcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024773 64 KLIKALAKHR-IDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (262)
Q Consensus 64 ~l~~~L~~~G-~~v~~~P~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta 139 (262)
-+.+.++++| .++.. ........+ .+.+.+.++.-.+.++|+..+-. .......+.+.+.....+++.|....
T Consensus 146 g~~~a~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~-A~g~~~al~~~g~~~p~v~g~d~~~~ 221 (272)
T cd06300 146 GAKEVLKEYPGIKIVG--EVYGDWDQAVAQKAVADFLASNPDVDGIWTQGGD-AVGAVQAFEQAGRDIPPVTGEDENGF 221 (272)
T ss_pred HHHHHHHHCCCcEEEe--ecCCCCCHHHHHHHHHHHHHhCCCcCEEEecCCC-cHHHHHHHHHcCCCCcEEEeeCCcHH
Confidence 3566777776 55432 111111000 12233344333457888888777 66777778777764446666665533
No 296
>TIGR01459 HAD-SF-IIA-hyp4 HAD-superfamily class IIA hydrolase, TIGR01459. This hypothetical equivalog is a member of the Class IIA subfamily of the haloacid dehalogenase superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this equivalog are all gram negative and primarily alpha proteobacteria. Only one sequence hase been annotated as other than "hypothetical." That one, from Brucella, is annotated as related to NagD, but only by sequence similarity and should be treated with some skepticism. (See comments for Class IIA subfamily)
Probab=50.18 E-value=1.4e+02 Score=25.44 Aligned_cols=78 Identities=13% Similarity=0.010 Sum_probs=44.4
Q ss_pred CCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC--C-ccEEEEeCHHHHHHHHH-HHHHcCCCCcEEE
Q 024773 57 RERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT--I-FDWIIITSPEAGSVFLE-AWKEAGTPNVRIG 132 (262)
Q Consensus 57 R~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~--~-~d~IiFTS~~aV~~f~~-~l~~~~~~~~~i~ 132 (262)
++-.+..++.+.|+++|..+..+.= .+ .....+.+.+.+++ . +--.|+||.......+. .+.+.+.+..+++
T Consensus 24 ~~~pga~e~L~~L~~~G~~~~ivTN---~~-~~~~~~~~~L~~~gl~~~~~~~Ii~s~~~~~~~l~~~~~~~~~~~~~~~ 99 (242)
T TIGR01459 24 HTYPGAVQNLNKIIAQGKPVYFVSN---SP-RNIFSLHKTLKSLGINADLPEMIISSGEIAVQMILESKKRFDIRNGIIY 99 (242)
T ss_pred ccCccHHHHHHHHHHCCCEEEEEeC---CC-CChHHHHHHHHHCCCCccccceEEccHHHHHHHHHhhhhhccCCCceEE
Confidence 3445678899999999988775533 11 12222223344332 2 22377778765544443 3344444556799
Q ss_pred EeChhH
Q 024773 133 VVGAGT 138 (262)
Q Consensus 133 aVG~~T 138 (262)
.+|...
T Consensus 100 ~vGd~~ 105 (242)
T TIGR01459 100 LLGHLE 105 (242)
T ss_pred EeCCcc
Confidence 999854
No 297
>PRK09590 celB cellobiose phosphotransferase system IIB component; Reviewed
Probab=50.17 E-value=66 Score=24.15 Aligned_cols=73 Identities=14% Similarity=0.156 Sum_probs=39.2
Q ss_pred cEEEEEccCCC-----hhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHc--CCCCEEEEeCHHHHHHHHHHhccc-
Q 024773 179 CTVLYPASAKA-----SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVASPSAVRSWVNLISDT- 250 (262)
Q Consensus 179 ~~vL~~~g~~~-----~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l--~~~d~ivFtS~s~~~~~~~~~~~~- 250 (262)
+++|++||.+. ...+.+.++++|.+++ +..... .++.+.. ...| ++++.|. +++..+.+++.
T Consensus 2 kkILlvCg~G~STSlla~k~k~~~~e~gi~~~---i~a~~~-----~e~~~~~~~~~~D-vIll~PQ-i~~~~~~i~~~~ 71 (104)
T PRK09590 2 KKALIICAAGMSSSMMAKKTTEYLKEQGKDIE---VDAITA-----TEGEKAIAAAEYD-LYLVSPQ-TKMYFKQFEEAG 71 (104)
T ss_pred cEEEEECCCchHHHHHHHHHHHHHHHCCCceE---EEEecH-----HHHHHhhccCCCC-EEEEChH-HHHHHHHHHHHh
Confidence 47888888875 3445677888887542 222111 1122222 2578 4455554 44444444432
Q ss_pred CCCCCeEEEEC
Q 024773 251 EQWSNSVACIA 261 (262)
Q Consensus 251 ~~~~~~i~~IG 261 (262)
...++++..|-
T Consensus 72 ~~~~ipv~~I~ 82 (104)
T PRK09590 72 AKVGKPVVQIP 82 (104)
T ss_pred hhcCCCEEEeC
Confidence 23478888774
No 298
>COG2014 Uncharacterized conserved protein [Function unknown]
Probab=50.09 E-value=1e+02 Score=26.51 Aligned_cols=112 Identities=12% Similarity=0.139 Sum_probs=61.0
Q ss_pred EEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeee
Q 024773 131 IGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTY 210 (262)
Q Consensus 131 i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY 210 (262)
--++|-+|..++.++ +++- ++.++-++++.++... +-+++-++.- -......|++ ++.||
T Consensus 80 e~tlGvAaiNAvsq~------~~dl----~~~~~~Dil~li~~~d-~IkmI~~fg~---m~p~v~~l~e------k~~v~ 139 (250)
T COG2014 80 ERTLGVAAINAVSQY------YIDL----EEANWFDILDLIQRDD-KIKMIAEFGN---MPPVVRTLKE------KFEVY 139 (250)
T ss_pred HHhhhHHHHHHHHHH------hhhH----HhcchHHHHHHHcCCC-ceeEEEecCC---CChHHHHhhh------heEEE
Confidence 347899999999999 7753 1456667766654321 1234444433 3344555653 35666
Q ss_pred ccccCCCC------hHHHH-HHcCCCCEEEEeCHHHHHHHHHHhcccCCCCCeEEEECC
Q 024773 211 TTEPVHHV------DQTVL-KQALSIPVVAVASPSAVRSWVNLISDTEQWSNSVACIAG 262 (262)
Q Consensus 211 ~~~~~~~~------~~~~~-~~l~~~d~ivFtS~s~~~~~~~~~~~~~~~~~~i~~IGp 262 (262)
+-...... ++.+. +.+...|+|+.+-+.-+.+-++.+-...-...-++-+||
T Consensus 140 ~~er~~~~pkr~t~~d~~e~~iLP~~Dvii~SaStlvN~T~d~~Ld~ak~ak~vvl~GP 198 (250)
T COG2014 140 VFERNPKLPKRGTLSDTLEYQILPEVDVIIASASTLVNGTLDMILDRAKKAKLVVLTGP 198 (250)
T ss_pred EeccCccCcccccccchhhhhhcccccEEEEechhhhcCcHHHHHhhhccCcEEEEeCC
Confidence 64332221 11222 224688988777776666655554322112345666665
No 299
>PF02525 Flavodoxin_2: Flavodoxin-like fold; InterPro: IPR003680 This family consists of a domain with a flavodoxin-like fold. The family includes bacterial and eukaryotic NAD(P)H dehydrogenase (quinone) 1.6.99.2 from EC. These enzymes catalyse the NAD(P)H-dependent two-electron reductions of quinones and protect cells against damage by free radicals and reactive oxygen species []. This enzyme uses a FAD cofactor. The equation for this reaction is NAD(P)H + acceptor = NAD(P)(+) + reduced acceptor. This enzyme is also involved in the bioactivation of prodrugs used in chemotherapy []. The family also includes acyl carrier protein phosphodiesterase 3.1.4.14 from EC. This enzyme converts holo-ACP to apo-ACP by hydrolytic cleavage of the phosphopantetheine residue from ACP []. This family is related to FMN_red IPR005025 from INTERPRO and Flavodoxin_1 IPR008254 from INTERPRO.; GO: 0009055 electron carrier activity, 0016491 oxidoreductase activity, 0050662 coenzyme binding; PDB: 1T5B_B 1DXQ_B 2B3D_A 2Z9D_B 2Z9C_A 2Z98_A 2D5I_A 2Z9B_A 1TIK_A 1V4B_A ....
Probab=50.09 E-value=7.7 Score=32.22 Aligned_cols=57 Identities=21% Similarity=0.335 Sum_probs=38.9
Q ss_pred hhHHHHHHhCC-CeeeEEeeeccccCCCCh-----------------HHH-HHHcCCCCEEEEeC-------HHHHHHHH
Q 024773 191 NEIEEGLSNRG-FEVVRLNTYTTEPVHHVD-----------------QTV-LKQALSIPVVAVAS-------PSAVRSWV 244 (262)
Q Consensus 191 ~~L~~~L~~~G-~~v~~i~vY~~~~~~~~~-----------------~~~-~~~l~~~d~ivFtS-------~s~~~~~~ 244 (262)
+.+.+.|++.| .+|+.+.+|+.-.+.... ... .+.+...|.|||.. |+..+.|+
T Consensus 22 ~~~~~~~~~~~~~~v~~~dL~~~~~p~l~~~~~~~~~~~~~~~~~d~~~~~~~~l~~AD~iV~~~Pl~~~~~Pa~lK~~i 101 (199)
T PF02525_consen 22 DAFLEGLQEAGPHEVEIRDLYEEFLPVLDSECFAAFRTYEQGPAIDVQSEQIEELLWADHIVFAFPLYWFSMPAQLKGWI 101 (199)
T ss_dssp HHHHHHHHHHTTSEEEEEETTTTT--SSSHHHHHHHHHHHHTHHHHHHHHHHHHHHHSSEEEEEEEEBTTBC-HHHHHHH
T ss_pred HHHHHHHHHcCCCEEEEEECcccccccchHHHHHhhhhhhhhhhhhHHHHHHHHHHHcCcceEeccceecccChhHHHHH
Confidence 56778889999 899999999971111110 011 24456889999876 68999999
Q ss_pred HHh
Q 024773 245 NLI 247 (262)
Q Consensus 245 ~~~ 247 (262)
+.+
T Consensus 102 D~v 104 (199)
T PF02525_consen 102 DRV 104 (199)
T ss_dssp HHH
T ss_pred HHh
Confidence 987
No 300
>TIGR01282 nifD nitrogenase molybdenum-iron protein alpha chain. Nitrogenase consists of alpha (NifD) and beta (NifK) subunits of the molybdenum-iron protein and an ATP-binding iron-sulfur protein (NifH). This model describes a large clade of NifD proteins, but excludes a lineage that contains putative NifD and NifD homologs from species with vanadium-dependent nitrogenases.
Probab=50.05 E-value=2.4e+02 Score=27.02 Aligned_cols=135 Identities=11% Similarity=0.059 Sum_probs=76.7
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CCCCcEEEEeChh-
Q 024773 60 GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GTPNVRIGVVGAG- 137 (262)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~-~~~~~~i~aVG~~- 137 (262)
.+..++.+.|++.|+++..... .....+ .+..+.+..+-+..++.+.....+.|++. +.+-..+--+|..
T Consensus 220 gd~~eik~lL~~~Gi~v~~~~s----g~~t~~----~i~~~~~A~lniv~~~~~~~~~A~~Le~~fGiP~~~~~~~Gi~~ 291 (466)
T TIGR01282 220 GDAWESRILLEEIGLRVVAQWS----GDGTLN----EMENAPKAKLNLIHCYRSMNYISRHMEEKYGIPWMEYNFFGPTK 291 (466)
T ss_pred ccHHHHHHHHHHcCCeEEEEEC----CCCCHH----HHHhcccCCEEEEEChHHHHHHHHHHHHHhCCceEeCCCCCHHH
Confidence 3457899999999999873221 111222 23456777888888777776677777654 4331111125543
Q ss_pred HHHHHHHhhhhcCCCCceeecCCC-----CCHHHHHHHhhh-C--CCCccEEEEEccCCChhhHHHHHHhCCCeeeEE
Q 024773 138 TASIFEEVIQSSKCSLDVAFSPSK-----ATGKILASELPK-N--GKKKCTVLYPASAKASNEIEEGLSNRGFEVVRL 207 (262)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~~~p~~-----~t~e~L~~~l~~-~--~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i 207 (262)
|.+.|++.... .|.. .|+. ..-++.+..+.+ . ...|+|+.+..|......+...|++.|+++...
T Consensus 292 T~~~Lr~ia~~--~g~~---i~~~~e~~I~~e~~~~~~~ld~~~~~L~GKrv~i~~g~~~~~~~~~~l~ELGmevv~~ 364 (466)
T TIGR01282 292 IAESLRKIAEF--FDDE---IKEKAEEVIAKYQPAVDAVIAKYRPRLEGKTVMLYVGGLRPRHVIGAFEDLGMEVIGT 364 (466)
T ss_pred HHHHHHHHHHH--HCch---hHHHHHHHHHHHHHHHHHHHHHHHHhcCCCEEEEECCCCcHHHHHHHHHHCCCEEEEE
Confidence 55666655211 1421 1211 011122222222 1 236889888877766677888999999998533
No 301
>cd06269 PBP1_glutamate_receptors_like Family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors. This CD represents the ligand-binding domain of the family C G-protein couples receptors (GPCRs), membrane bound guanylyl cyclases such as the family of natriuretic peptide receptors (NPRs), and the N-terminal leucine/isoleucine/valine- binding protein (LIVBP)-like domain of the ionotropic glutamate receptors, all of which are structurally similar and related to the periplasmic-binding fold type I family. The family C GPCRs consist of metabotropic glutamate receptor (mGluR) receptors, a calcium-sensing receptor (CaSR), gamma-aminobutyric receptors (GABAb), the promiscuous L-alpha-amino acid receptor GPR6A, families of taste and pheromone receptors, and orphan receptors. Truncated splicing va
Probab=50.02 E-value=1.6e+02 Score=24.84 Aligned_cols=113 Identities=15% Similarity=0.103 Sum_probs=61.5
Q ss_pred CcEEEEeChhHHHHHH---HhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEEEEccCCC-----hhhHHHHHH
Q 024773 128 NVRIGVVGAGTASIFE---EVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVLYPASAKA-----SNEIEEGLS 198 (262)
Q Consensus 128 ~~~i~aVG~~Ta~~L~---~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~-----~~~L~~~L~ 198 (262)
+++++..+.... .+. .+ .......|.. ...+.+++.+..+. -+++.++..+.. .+.+.+.++
T Consensus 95 ~iP~is~~~~~~-~~~~~~~~------~~~~~~~p~~~~~~~a~~~~l~~~~--w~~v~~v~~~~~~~~~~~~~~~~~~~ 165 (298)
T cd06269 95 HIPQISYSATSP-LLSDKEQF------PSFLRTVPSDSSQAQAIVDLLKHFG--WTWVGLVYSDDDYGRRLLELLEEELE 165 (298)
T ss_pred CCcEEecccCch-hhcChhhC------CCeEecCCCcHHHHHHHHHHHHHCC--CeEEEEEEecchhhHHHHHHHHHHHH
Confidence 567777665333 332 12 2222334432 34566666665442 356666655443 455666777
Q ss_pred hCCCeeeEEeeeccccCCCChHHHHHHcC--CCCEEEEeCH-HHHHHHHHHhcccC
Q 024773 199 NRGFEVVRLNTYTTEPVHHVDQTVLKQAL--SIPVVAVASP-SAVRSWVNLISDTE 251 (262)
Q Consensus 199 ~~G~~v~~i~vY~~~~~~~~~~~~~~~l~--~~d~ivFtS~-s~~~~~~~~~~~~~ 251 (262)
+.|..+.....|.... .......+.+. ..++|+..+. ..+..|++.+.+.+
T Consensus 166 ~~~~~v~~~~~~~~~~--~~~~~~l~~l~~~~~~viv~~~~~~~~~~~l~~a~~~g 219 (298)
T cd06269 166 KNGICVAFVESIPDGS--EDIRRLLKELKSSTARVIVVFSSEEDALRLLEEAVELG 219 (298)
T ss_pred HCCeeEEEEEEcCCCH--HHHHHHHHHHHhcCCcEEEEEechHHHHHHHHHHHHcC
Confidence 7777776666655432 11122333332 4467766665 88888888876653
No 302
>KOG2774 consensus NAD dependent epimerase [General function prediction only]
Probab=49.90 E-value=1.2e+02 Score=26.67 Aligned_cols=207 Identities=16% Similarity=0.191 Sum_probs=112.3
Q ss_pred CccchhccccccccCCCCCCCeEEEeCCCCC-hHHHHHHHHh-CCCcEEEeceEEeeeCC---------------CchHH
Q 024773 31 QFSRIQASSDATSASASNSNPKVVVTRERGK-NGKLIKALAK-HRIDCLELPLIQHAQGP---------------DTDRL 93 (262)
Q Consensus 31 ~~~~~~~~~~~~~~~~~l~g~~VLitR~~~~-~~~l~~~L~~-~G~~v~~~P~~~~~~~~---------------~~~~l 93 (262)
+...||.++ ..-...|||||.+..+ ...+++.|+. +|-+.+.+.=+ ..++ |...+
T Consensus 31 ~~A~FH~~s------~~~~~PrvLITG~LGQLG~~~A~LLR~~yGs~~VILSDI--~KPp~~V~~~GPyIy~DILD~K~L 102 (366)
T KOG2774|consen 31 PLARFHTIS------QTQKAPRVLITGSLGQLGRGLASLLRYMYGSECVILSDI--VKPPANVTDVGPYIYLDILDQKSL 102 (366)
T ss_pred ccccccccc------ccCCCCeEEEecchHHHhHHHHHHHHHHhCCccEehhhc--cCCchhhcccCCchhhhhhccccH
Confidence 455677766 4556789999998765 3567888874 47666544322 2111 11122
Q ss_pred HHHHhcCCCccEEEEeCH------------------HHHHHHHHHHHHcCC--------------------------CCc
Q 024773 94 SSVLNADTIFDWIIITSP------------------EAGSVFLEAWKEAGT--------------------------PNV 129 (262)
Q Consensus 94 ~~~l~~l~~~d~IiFTS~------------------~aV~~f~~~l~~~~~--------------------------~~~ 129 (262)
++.. --..+||++-.|+ .+|++.++...++.. ..-
T Consensus 103 ~eIV-Vn~RIdWL~HfSALLSAvGE~NVpLA~~VNI~GvHNil~vAa~~kL~iFVPSTIGAFGPtSPRNPTPdltIQRPR 181 (366)
T KOG2774|consen 103 EEIV-VNKRIDWLVHFSALLSAVGETNVPLALQVNIRGVHNILQVAAKHKLKVFVPSTIGAFGPTSPRNPTPDLTIQRPR 181 (366)
T ss_pred HHhh-cccccceeeeHHHHHHHhcccCCceeeeecchhhhHHHHHHHHcCeeEeecccccccCCCCCCCCCCCeeeecCc
Confidence 2222 1257899998775 467777777666531 134
Q ss_pred EEEEeChhHHHHHHHhhhhcCC---------CCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCChhh--------
Q 024773 130 RIGVVGAGTASIFEEVIQSSKC---------SLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNE-------- 192 (262)
Q Consensus 130 ~i~aVG~~Ta~~L~~~~~~~~~---------G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~-------- 192 (262)
.||-|.+.-|+.+-++++..|. |+-..-.|...|.+--+..+.+..++|+.-.|+|.+...+.
T Consensus 182 TIYGVSKVHAEL~GEy~~hrFg~dfr~~rfPg~is~~~pgggttdya~A~f~~Al~~gk~tCylrpdtrlpmmy~~dc~~ 261 (366)
T KOG2774|consen 182 TIYGVSKVHAELLGEYFNHRFGVDFRSMRFPGIISATKPGGGTTDYAIAIFYDALQKGKHTCYLRPDTRLPMMYDTDCMA 261 (366)
T ss_pred eeechhHHHHHHHHHHHHhhcCccceecccCcccccCCCCCCcchhHHHHHHHHHHcCCcccccCCCccCceeehHHHHH
Confidence 6888999999999888755541 11111122222322222233333346777888888765322
Q ss_pred -HHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcC------CCCEEEEeCHHHHHHHHHHh
Q 024773 193 -IEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQAL------SIPVVAVASPSAVRSWVNLI 247 (262)
Q Consensus 193 -L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~------~~d~ivFtS~s~~~~~~~~~ 247 (262)
+.+.|.+-+ +-..-.+|....-.-.++++.+++. .+|+=+.+-.+.++.|-..+
T Consensus 262 ~~~~~~~a~~-~~lkrr~ynvt~~sftpee~~~~~~~~~p~~~i~y~~~srq~iad~wp~~~ 322 (366)
T KOG2774|consen 262 SVIQLLAADS-QSLKRRTYNVTGFSFTPEEIADAIRRVMPGFEIDYDICTRQSIADSWPMSL 322 (366)
T ss_pred HHHHHHhCCH-HHhhhheeeeceeccCHHHHHHHHHhhCCCceeecccchhhhhhhhccccc
Confidence 223332221 2223346665555556666655552 34555555555555554333
No 303
>TIGR03590 PseG pseudaminic acid biosynthesis-associated protein PseG. This protein is found in association with enzymes involved in the biosynthesis of pseudaminic acid, a component of polysaccharide in certain Pseudomonas strains as well as a modification of flagellin in Campylobacter and Hellicobacter. The role of this protein is unclear, although it may participate in N-acetylation in conjunction with, or in the absence of PseH (TIGR03585) as it often scores above the trusted cutoff to pfam00583 representing a family of acetyltransferases.
Probab=49.82 E-value=81 Score=27.73 Aligned_cols=78 Identities=17% Similarity=0.232 Sum_probs=41.8
Q ss_pred HHHHHhhhCCCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcC--CCCEEEEeCHHHHHHH
Q 024773 166 ILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQAL--SIPVVAVASPSAVRSW 243 (262)
Q Consensus 166 ~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~--~~d~ivFtS~s~~~~~ 243 (262)
.|++++.+ .|..+.|++-+.. ..+.+.+++.|+.|..+.--. .. .....++.+.+. +.|++|..+...-..+
T Consensus 22 ~LA~~l~~---~g~~v~f~~~~~~-~~~~~~i~~~g~~v~~~~~~~-~~-~~d~~~~~~~l~~~~~d~vV~D~y~~~~~~ 95 (279)
T TIGR03590 22 TLARALHA---QGAEVAFACKPLP-GDLIDLLLSAGFPVYELPDES-SR-YDDALELINLLEEEKFDILIVDHYGLDADW 95 (279)
T ss_pred HHHHHHHH---CCCEEEEEeCCCC-HHHHHHHHHcCCeEEEecCCC-ch-hhhHHHHHHHHHhcCCCEEEEcCCCCCHHH
Confidence 34444432 3567766666543 356677888887664442111 01 111223444443 6788888887655556
Q ss_pred HHHhcc
Q 024773 244 VNLISD 249 (262)
Q Consensus 244 ~~~~~~ 249 (262)
.+.++.
T Consensus 96 ~~~~k~ 101 (279)
T TIGR03590 96 EKLIKE 101 (279)
T ss_pred HHHHHH
Confidence 666553
No 304
>PRK13581 D-3-phosphoglycerate dehydrogenase; Provisional
Probab=49.75 E-value=1.8e+02 Score=28.26 Aligned_cols=163 Identities=16% Similarity=0.124 Sum_probs=85.9
Q ss_pred CeEEEeCCCCChHHHHHHHHhC-CCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHH-HHHHHHHHcCCCC
Q 024773 51 PKVVVTRERGKNGKLIKALAKH-RIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGS-VFLEAWKEAGTPN 128 (262)
Q Consensus 51 ~~VLitR~~~~~~~l~~~L~~~-G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~-~f~~~l~~~~~~~ 128 (262)
++|+++.+- .+...+.|++. |+++...+ ..+.+++ ...+.++|+++..+...+. .+++. .++
T Consensus 1 m~ili~~~~--~~~~~~~l~~~~~~~v~~~~------~~~~~~~---~~~~~~~d~~i~~~~~~~~~~~l~~-----~~~ 64 (526)
T PRK13581 1 MKVLVSDPI--SPAGLEILKDAPGVEVDVKT------GLDKEEL---LEIIGDYDALIVRSATKVTAEVLEA-----AKN 64 (526)
T ss_pred CeEEEeCCC--CHHHHHHHhccCCeEEEeCC------CCCHHHH---HHHhcCCCEEEEcCCCCCCHHHHhh-----CCC
Confidence 368888653 24455677765 55554321 1122333 3346789998775532222 22221 134
Q ss_pred cEEEE---eChh--HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHH----hh----h------------C--------C
Q 024773 129 VRIGV---VGAG--TASIFEEVIQSSKCSLDVAFSPSKATGKILASE----LP----K------------N--------G 175 (262)
Q Consensus 129 ~~i~a---VG~~--Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~----l~----~------------~--------~ 175 (262)
.++++ +|-- -.+++.+. |+.+.-.|. .++..+++. +. . + .
T Consensus 65 Lk~I~~~~~G~d~id~~~~~~~------gI~V~n~p~-~~~~~vAE~~l~l~L~~~R~~~~~~~~~~~g~W~~~~~~g~~ 137 (526)
T PRK13581 65 LKVIGRAGVGVDNVDVPAATRR------GIIVVNAPT-GNTISAAEHTIALMLALARNIPQAHASLKAGKWERKKFMGVE 137 (526)
T ss_pred CeEEEECCcccccccHHHHHHC------CCEEEeCCC-CChHHHHHHHHHHHHHHHcCHHHHHHHHHcCCCCccCccccc
Confidence 55443 3322 23566777 988766553 233333321 10 0 1 1
Q ss_pred CCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCCC-------hHHHHHHcCCCCEEEEeCHHH
Q 024773 176 KKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHV-------DQTVLKQALSIPVVAVASPSA 239 (262)
Q Consensus 176 ~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~-------~~~~~~~l~~~d~ivFtS~s~ 239 (262)
..|+++.+++-..-...+...|+..|++| .+|........ ..++.+.+...|+|+..-|.+
T Consensus 138 l~gktvgIiG~G~IG~~vA~~l~~fG~~V---~~~d~~~~~~~~~~~g~~~~~l~ell~~aDiV~l~lP~t 205 (526)
T PRK13581 138 LYGKTLGIIGLGRIGSEVAKRAKAFGMKV---IAYDPYISPERAAQLGVELVSLDELLARADFITLHTPLT 205 (526)
T ss_pred cCCCEEEEECCCHHHHHHHHHHHhCCCEE---EEECCCCChhHHHhcCCEEEcHHHHHhhCCEEEEccCCC
Confidence 24677877766655667889999999865 44543211100 002333346889999988865
No 305
>cd01977 Nitrogenase_VFe_alpha Nitrogenase_VFe_alpha -like: Nitrogenase VFe protein, alpha subunit like. This group contains proteins similar to the alpha subunits of, the VFe protein of the vanadium-dependent (V-) nitrogenase and the FeFe protein of the iron only (Fe-) nitrogenase Nitrogenase catalyzes the ATP-dependent reduction of dinitrogen (N2) to ammonia. In addition to V- and Fe- nitrogenases there is a molybdenum (Mo)-dependent nitrogenase which is the most widespread and best characterized of these systems. These systems consist of component 1 (VFe protein, FeFe protein or, MoFe protein respectively) and, component 2 (Fe protein). MoFe is an alpha2beta2 tetramer, V-and Fe- nitrogenases are alpha2beta2delta2 hexamers. The alpha and beta subunits of VFe and FeFe are similar to the alpha and beta subunits of MoFe. For MoFe each alphabeta pair contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha sub
Probab=49.36 E-value=2.3e+02 Score=26.55 Aligned_cols=138 Identities=12% Similarity=0.072 Sum_probs=74.8
Q ss_pred ChHHHHHHHHhCCCcEEE-eceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CCCCcEEEEeChhH
Q 024773 61 KNGKLIKALAKHRIDCLE-LPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GTPNVRIGVVGAGT 138 (262)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~-~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~-~~~~~~i~aVG~~T 138 (262)
+.+++.+.|++.|+++.. ++ .-...++ +.++++...-+..++.....+.+.|++. +.+-..+-.+|...
T Consensus 176 d~~ei~~lL~~~Gl~v~~~~~-----~~~t~~e----i~~~~~A~lnlv~~~~~~~~~A~~L~er~GiP~~~~~~~G~~~ 246 (415)
T cd01977 176 DTEVLQKYFERMGIQVLSTFT-----GNGTYDD----LRWMHRAKLNVVNCARSAGYIANELKKRYGIPRLDVDGFGFEY 246 (415)
T ss_pred cHHHHHHHHHHcCCeEEEEEC-----CCCCHHH----HHhcccCCEEEEEchhHHHHHHHHHHHHhCCCeEEeccCCHHH
Confidence 346799999999999972 21 1112222 3466777887766665555666666653 54433332467654
Q ss_pred H-HHHHHhhhhcCCCCceee---cCCC-CCHHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHH-hCCCeeeEEeee
Q 024773 139 A-SIFEEVIQSSKCSLDVAF---SPSK-ATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLS-NRGFEVVRLNTY 210 (262)
Q Consensus 139 a-~~L~~~~~~~~~G~~~~~---~p~~-~t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~-~~G~~v~~i~vY 210 (262)
. +-|++... +.|.+.+. .|+. .....-++..... ..|+|+.+..+....-.+...|. +.|++|..+..+
T Consensus 247 t~~~l~~la~--~~g~~~~~e~~i~~~~~~~r~~l~~~~~~-l~Gk~vai~~~~~~~~~la~~l~~elG~~v~~i~~~ 321 (415)
T cd01977 247 CAESLRKIGA--FFGIEDRAEAVIAEEMAKWKPELDWYKER-LKGKKVCIWTGGPKLWHWTKVIEDELGMQVVAMSSK 321 (415)
T ss_pred HHHHHHHHHH--HhCcchhHHHHHHHHHHHHHHHHHHHHHH-cCCCEEEEECCCchHHHHHHHHHHhcCCEEEEEEEE
Confidence 4 44544411 11543211 1110 0011111111111 35789888776666667888885 899999766443
No 306
>TIGR01861 ANFD nitrogenase iron-iron protein, alpha chain. This model represents the all-iron variant of the nitrogenase component I alpha chain. Molybdenum-iron and vanadium iron forms are also found. The complete complex contains two alpha chains, two beta chains and two delta chains. The component I associates with component II also known as the iron protein which serves to provide electrons for component I.
Probab=49.15 E-value=2.6e+02 Score=27.22 Aligned_cols=137 Identities=12% Similarity=0.096 Sum_probs=75.6
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CCCCcEEEEeCh-h
Q 024773 60 GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GTPNVRIGVVGA-G 137 (262)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~-~~~~~~i~aVG~-~ 137 (262)
.+..++.+.|++.|++|...+. .-...++ +..++....-+.-++.+.....+.|++. +.+-..+--+|- .
T Consensus 215 gD~~eik~lLe~~Gl~v~~~~~----gg~t~~e----i~~~~~A~lniv~~~~~~~~~A~~Leer~GiP~~~~~~~Gi~~ 286 (513)
T TIGR01861 215 GDQEVMVDYFQRMGIQVLSTFT----GNGSYDD----LRGMHRAHLNVLECARSAEYICNELRKRYGIPRLDIDGFGFEP 286 (513)
T ss_pred cCHHHHHHHHHHCCCeEEEEeC----CCCCHHH----HHhhccCCEEEEECHHHHHHHHHHHHHHhCCCeEecCcCCHHH
Confidence 3457899999999999985432 1111232 3456677776666666667777777653 443222222464 4
Q ss_pred HHHHHHHhhhhcCCCCcee---ecCCCC-CHHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHH-hCCCeeeEE
Q 024773 138 TASIFEEVIQSSKCSLDVA---FSPSKA-TGKILASELPKNGKKKCTVLYPASAKASNEIEEGLS-NRGFEVVRL 207 (262)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~---~~p~~~-t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~-~~G~~v~~i 207 (262)
|.+.|++.... .|+... +.|++. -..+-++..... ..|+|+.+..|....-.+...|. +.|+++.-+
T Consensus 287 Td~~Lr~la~~--~g~~~~~e~~I~~e~~~~r~~Ld~~~~~-L~GKrvai~~gg~~~~~~~~~l~~ElGmevv~~ 358 (513)
T TIGR01861 287 LAASLRKVAMF--FGIEDEAQAIIDEETARWKPELDWYKER-LKGKKVCLWPGGSKLWHWAHVIEEEMGLKVVSV 358 (513)
T ss_pred HHHHHHHHHHH--hCCChhHhHhhHHHHHHHHHHHHHHHHh-cCCCEEEEECCchHHHHHHHHHHHhCCCEEEEE
Confidence 55666655211 154321 112110 011111212122 36899988887666677888888 699988433
No 307
>cd06308 PBP1_sensor_kinase_like Periplasmic binding domain of two-component sensor kinase signaling systems. Periplasmic binding domain of two-component sensor kinase signaling systems, some of which are fused with a C-terminal histidine kinase A domain (HisK) and/or a signal receiver domain (REC). Members of this group share homology with a family of pentose/hexose sugar-binding proteins of the type I periplasmic binding protein superfamily and are predicted to be involved in sensing of environmental stimuli; their substrate specificities, however, are not known in detail.
Probab=48.98 E-value=51 Score=28.03 Aligned_cols=88 Identities=13% Similarity=0.089 Sum_probs=50.2
Q ss_pred CCeEEEeCCCCC-------hHHHHHHHHhC-CCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHH
Q 024773 50 NPKVVVTRERGK-------NGKLIKALAKH-RIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAW 121 (262)
Q Consensus 50 g~~VLitR~~~~-------~~~l~~~L~~~-G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l 121 (262)
.++|++..+... ..-+.+.++++ |.++................+...+....+.|+|+.++-..+..++..+
T Consensus 122 ~~~i~~l~~~~~~~~~~~R~~g~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~aI~~~~d~~a~g~~~al 201 (270)
T cd06308 122 KGNILEIWGLEGSSPAIERHDGFKEALSKYPKIKIVAQQDGDWLKEKAEEKMEELLQANPDIDLVYAHNDPMALGAYLAA 201 (270)
T ss_pred CceEEEEECCCCCchHHHHHHHHHHHHHHCCCCEEEEecCCCccHHHHHHHHHHHHHhCCCCcEEEeCCcHHHHHHHHHH
Confidence 457776643221 12345567777 6654432111101000123345555444568999998888888888888
Q ss_pred HHcCC-CCcEEEEeChh
Q 024773 122 KEAGT-PNVRIGVVGAG 137 (262)
Q Consensus 122 ~~~~~-~~~~i~aVG~~ 137 (262)
.+.+. +++.+++.+..
T Consensus 202 ~~~g~~~dv~vvg~d~~ 218 (270)
T cd06308 202 KRAGREKEIKFIGIDGL 218 (270)
T ss_pred HHcCCCCCcEEEEecCC
Confidence 88776 46778887653
No 308
>KOG2862 consensus Alanine-glyoxylate aminotransferase AGT1 [General function prediction only]
Probab=48.89 E-value=88 Score=28.66 Aligned_cols=144 Identities=13% Similarity=0.153 Sum_probs=81.6
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH-HHHHHHHHHHHcCC
Q 024773 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE-AGSVFLEAWKEAGT 126 (262)
Q Consensus 48 l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~-aV~~f~~~l~~~~~ 126 (262)
..+++.+.+.|..-.+...+++......-.+--++.+... -.+.++...+....+..++=+|.. +.++++-.+-+.+
T Consensus 15 ~p~~~L~gPGPsnl~~~V~~A~~~~~lgh~sPe~~qIm~~-v~egikyVFkT~n~~tf~isgsGh~g~E~al~N~lePg- 92 (385)
T KOG2862|consen 15 VPVRTLLGPGPSNLSGRVQEAMSRPSLGHMSPEFVQIMDE-VLEGIKYVFKTANAQTFVISGSGHSGWEAALVNLLEPG- 92 (385)
T ss_pred CCcceeecCCCcCCCHHHHHhhcCCccccCCHHHHHHHHH-HHHHHHHHhccCCCceEEEecCCcchHHHHHHhhcCCC-
Confidence 3466788888888777777766432111111111111000 012233334445667777777765 4455554443322
Q ss_pred CCcEEEEeC---hhHHHHHHHhhhhcCCCCceeecCCC----CCHHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHHh
Q 024773 127 PNVRIGVVG---AGTASIFEEVIQSSKCSLDVAFSPSK----ATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSN 199 (262)
Q Consensus 127 ~~~~i~aVG---~~Ta~~L~~~~~~~~~G~~~~~~p~~----~t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~ 199 (262)
|+.-++.+| ...++.++.+ |.+++.++.+ .+-|.+.+.|.++.. +-+.+..|+.+...+.+.+..
T Consensus 93 d~vLv~~~G~wg~ra~D~~~r~------ga~V~~v~~~~G~~~~le~i~~~lsqh~p--~~vfv~hgdsSTgV~q~~~~~ 164 (385)
T KOG2862|consen 93 DNVLVVSTGTWGQRAADCARRY------GAEVDVVEADIGQAVPLEEITEKLSQHKP--KAVFVTHGDSSTGVLQDLLAI 164 (385)
T ss_pred CeEEEEEechHHHHHHHHHHhh------CceeeEEecCcccCccHHHHHHHHHhcCC--ceEEEEecCccccccchHHHH
Confidence 455555554 6778889999 9999988754 466777777776532 456666777666555554443
Q ss_pred CC
Q 024773 200 RG 201 (262)
Q Consensus 200 ~G 201 (262)
.|
T Consensus 165 ~g 166 (385)
T KOG2862|consen 165 SG 166 (385)
T ss_pred HH
Confidence 33
No 309
>COG0715 TauA ABC-type nitrate/sulfonate/bicarbonate transport systems, periplasmic components [Inorganic ion transport and metabolism]
Probab=48.83 E-value=55 Score=29.10 Aligned_cols=64 Identities=23% Similarity=0.136 Sum_probs=44.7
Q ss_pred CCCCCCCeEEEeCCCC-ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHH
Q 024773 45 SASNSNPKVVVTRERG-KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEA 113 (262)
Q Consensus 45 ~~~l~g~~VLitR~~~-~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~a 113 (262)
..++.||+|-++++.. ..--+...|++.|.+...+.+..+-+ .++...+ .-+..|+.+..=+..
T Consensus 131 ~adlkGk~vg~~~~~~~~~~~l~~~L~~~Gl~~~dv~~v~~~~----~~~~~al-~~g~vda~~~~ep~~ 195 (335)
T COG0715 131 VADLKGKKVGVPFGGSTSDFLLRYALAKAGLDPDDVELVNLPP----ADAVAAL-AAGQVDAFVVWEPWN 195 (335)
T ss_pred ccCCCCceEEEeCCCchHHHHHHHHHHHcCCCcccceEEeeCc----HHHHHHH-hcCCcceEEecCCch
Confidence 4778999999999986 77789999999999999888333322 2333444 346778744444433
No 310
>PRK14183 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=48.69 E-value=1.7e+02 Score=26.13 Aligned_cols=161 Identities=16% Similarity=0.101 Sum_probs=85.5
Q ss_pred eEEEeCCCCChHHHH----HHHHhCCCcEEEeceEEeeeCCCchHHHHHHh---cCCCccEEEEeCHHH--HH--HHHHH
Q 024773 52 KVVVTRERGKNGKLI----KALAKHRIDCLELPLIQHAQGPDTDRLSSVLN---ADTIFDWIIITSPEA--GS--VFLEA 120 (262)
Q Consensus 52 ~VLitR~~~~~~~l~----~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~---~l~~~d~IiFTS~~a--V~--~f~~~ 120 (262)
-++....+..+..+. +..++.|+++..+-+-+. .+.+++.+.+. ...+.|.|+.--|-- ++ ..++.
T Consensus 35 aii~vgdd~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~---~~~~~l~~~I~~lN~D~~V~GIlvq~PlP~~i~~~~i~~~ 111 (281)
T PRK14183 35 AVILVGDDPASHTYVKMKAKACDRVGIYSITHEMPST---ISQKEILETIAMMNNNPNIDGILVQLPLPKHIDTTKILEA 111 (281)
T ss_pred EEEEeCCCHHHHHHHHHHHHHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHhCCCccCeEEEeCCCCCCCCHHHHHhc
Confidence 344444444444443 345567888765533221 12234444444 446789999988832 21 22222
Q ss_pred HHHc-CCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC--CCccEEEEEc-cCCChhhHHHH
Q 024773 121 WKEA-GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPA-SAKASNEIEEG 196 (262)
Q Consensus 121 l~~~-~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~g~~vL~~~-g~~~~~~L~~~ 196 (262)
+... ..|...-+-.| .|- . |-. .+.| -|+.+.++.|..+. ..|++++++. |+....-|...
T Consensus 112 I~p~KDVDGl~~~n~g-----~l~-~------g~~-~~~P--cTp~avi~lL~~~~i~l~Gk~vvViGrS~~VG~Pla~l 176 (281)
T PRK14183 112 IDPKKDVDGFHPYNVG-----RLV-T------GLD-GFVP--CTPLGVMELLEEYEIDVKGKDVCVVGASNIVGKPMAAL 176 (281)
T ss_pred cCchhcccccChhhhh-----HHh-c------CCC-CCCC--CcHHHHHHHHHHcCCCCCCCEEEEECCCCcchHHHHHH
Confidence 2111 12333333333 221 2 422 2444 47889998887653 4678876664 44667788999
Q ss_pred HHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHH
Q 024773 197 LSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPS 238 (262)
Q Consensus 197 L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s 238 (262)
|.++|+.|+ .++.... .+.+.....|+|+-..+.
T Consensus 177 L~~~~AtVt--i~hs~T~------~l~~~~~~ADIvV~AvGk 210 (281)
T PRK14183 177 LLNANATVD--ICHIFTK------DLKAHTKKADIVIVGVGK 210 (281)
T ss_pred HHHCCCEEE--EeCCCCc------CHHHHHhhCCEEEEecCc
Confidence 999999886 3332211 122334578888766543
No 311
>TIGR02690 resist_ArsH arsenical resistance protein ArsH. Members of this protein family occur in arsenate resistance operons that include at least two different types of arsenate reductase. ArsH is not required for arsenate resistance in some systems. This family belongs to the larger family of NADPH-dependent FMN reductases (Pfam model pfam03358). The function of ArsH is not known.
Probab=48.48 E-value=1.3e+02 Score=25.86 Aligned_cols=68 Identities=10% Similarity=0.029 Sum_probs=35.3
Q ss_pred HHHHhCCCcEEEeceEEeeeCCC-----chHHHHHHhcCCCccEEEEeCH-------HHHHHHHHHHHHc-----CCCCc
Q 024773 67 KALAKHRIDCLELPLIQHAQGPD-----TDRLSSVLNADTIFDWIIITSP-------EAGSVFLEAWKEA-----GTPNV 129 (262)
Q Consensus 67 ~~L~~~G~~v~~~P~~~~~~~~~-----~~~l~~~l~~l~~~d~IiFTS~-------~aV~~f~~~l~~~-----~~~~~ 129 (262)
+.+...|+++..+.+ .-.|..+ ........+.+...|++||.|| -+.+++++.+... .+.++
T Consensus 51 ~~~~~~g~~v~~idl-~~lPl~~~d~~~~p~v~~l~~~v~~ADgvii~TPEYn~sipg~LKNaiDwls~~~~~~~~~~~K 129 (219)
T TIGR02690 51 RLLGCEGRETRIFDP-PGLPLPDAAHADHPKVRELRQLSEWSEGQVWCSPERHGAITGSQKDQIDWIPLSVGPVRPTQGK 129 (219)
T ss_pred HHHhhcCCEEEEeCc-ccCCCCCcCcccCHHHHHHHHHHHhCCEEEEeCCccccCcCHHHHHHHHhcccCcccccccCCC
Confidence 344446888866652 2122211 1222333334577899999998 3445555544321 23456
Q ss_pred EEEEeC
Q 024773 130 RIGVVG 135 (262)
Q Consensus 130 ~i~aVG 135 (262)
++..+|
T Consensus 130 pvaivg 135 (219)
T TIGR02690 130 TLAVMQ 135 (219)
T ss_pred cEEEEE
Confidence 666555
No 312
>COG0655 WrbA Multimeric flavodoxin WrbA [General function prediction only]
Probab=48.41 E-value=32 Score=28.86 Aligned_cols=27 Identities=11% Similarity=0.375 Sum_probs=21.0
Q ss_pred HHHHHHcCCCCEEEEeCH-------HHHHHHHHH
Q 024773 220 QTVLKQALSIPVVAVASP-------SAVRSWVNL 246 (262)
Q Consensus 220 ~~~~~~l~~~d~ivFtS~-------s~~~~~~~~ 246 (262)
+++.+.+...|+|||-|| +..+.|++.
T Consensus 67 ~~i~~~l~~aD~iI~gsPvy~g~vsa~~K~fiDR 100 (207)
T COG0655 67 NEIYEKLLEADGIIFGSPVYFGNVSAQMKAFIDR 100 (207)
T ss_pred HHHHHHHHHCCEEEEeCCeecCCchHHHHHHHhh
Confidence 455565678999999997 567788877
No 313
>PRK08250 glutamine amidotransferase; Provisional
Probab=48.10 E-value=1.8e+02 Score=24.99 Aligned_cols=52 Identities=15% Similarity=0.128 Sum_probs=34.2
Q ss_pred CeEEEeCCC--CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH
Q 024773 51 PKVVVTRER--GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP 111 (262)
Q Consensus 51 ~~VLitR~~--~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~ 111 (262)
+||++.+.. +....+...+++.|+++....+++-.+.+. ...+||.||+|-+
T Consensus 1 m~i~vi~h~~~e~~g~~~~~~~~~g~~~~~~~~~~g~~~p~---------~~~~~d~vii~GG 54 (235)
T PRK08250 1 MRVHFIIHESFEAPGAYLKWAENRGYDISYSRVYAGEALPE---------NADGFDLLIVMGG 54 (235)
T ss_pred CeEEEEecCCCCCchHHHHHHHHCCCeEEEEEccCCCCCCC---------CccccCEEEECCC
Confidence 456666554 456788899999998887755543322211 3467999999744
No 314
>PRK14738 gmk guanylate kinase; Provisional
Probab=48.10 E-value=1.6e+02 Score=24.50 Aligned_cols=135 Identities=11% Similarity=0.031 Sum_probs=71.3
Q ss_pred CCCCCCeEEEeCCCC-ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHH--HH
Q 024773 46 ASNSNPKVVVTRERG-KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEA--WK 122 (262)
Q Consensus 46 ~~l~g~~VLitR~~~-~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~--l~ 122 (262)
.|..++.|+++.|+. +...+.+.|.+.|..+.....+++++.... ..++-| ..|.|....+..... +.
T Consensus 9 ~~~~~~~ivi~GpsG~GK~tl~~~L~~~~~~~~~~~~~ttr~~r~~--------e~~g~~-y~fv~~~~f~~~~~~~~~l 79 (206)
T PRK14738 9 KPAKPLLVVISGPSGVGKDAVLARMRERKLPFHFVVTATTRPKRPG--------EIDGVD-YHFVTPEEFREMISQNELL 79 (206)
T ss_pred CCCCCeEEEEECcCCCCHHHHHHHHHhcCCcccccccccCCCCCCC--------CCCCCe-eeeCCHHHHHHHHHcCCcE
Confidence 677888899998876 456788999888765544445555543211 122233 447777764433321 00
Q ss_pred HcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHHhCC
Q 024773 123 EAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRG 201 (262)
Q Consensus 123 ~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G 201 (262)
+...-.-..|.+....-+...+. |..+.+. .+.+++. .+.+.. +.-.+++.. ....+.+.+.|..+|
T Consensus 80 e~~~~~g~~YGt~~~~i~~~~~~------g~~vi~~---~~~~g~~-~l~~~~-pd~~~if~~-pps~e~l~~Rl~~R~ 146 (206)
T PRK14738 80 EWAEVYGNYYGVPKAPVRQALAS------GRDVIVK---VDVQGAA-SIKRLV-PEAVFIFLA-PPSMDELTRRLELRR 146 (206)
T ss_pred EEEEEcCceecCCHHHHHHHHHc------CCcEEEE---cCHHHHH-HHHHhC-CCeEEEEEe-CCCHHHHHHHHHHcC
Confidence 00001334666666555555566 7655442 2344442 333332 223344443 224456778887775
No 315
>PRK06490 glutamine amidotransferase; Provisional
Probab=47.56 E-value=1.4e+02 Score=25.83 Aligned_cols=94 Identities=12% Similarity=-0.015 Sum_probs=51.9
Q ss_pred CCCeEEEeCCCC--ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH-HH-------HHHH
Q 024773 49 SNPKVVVTRERG--KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE-AG-------SVFL 118 (262)
Q Consensus 49 ~g~~VLitR~~~--~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~-aV-------~~f~ 118 (262)
..++|++.+... ....+.+.|++.|.++..+..+.-.+.++ .+.+||.+|+|-.. .+ ....
T Consensus 6 ~~~~vlvi~h~~~~~~g~l~~~l~~~g~~~~v~~~~~~~~~p~---------~l~~~dgvii~Ggp~~~~d~~~wi~~~~ 76 (239)
T PRK06490 6 DKRPVLIVLHQERSTPGRVGQLLQERGYPLDIRRPRLGDPLPD---------TLEDHAGAVIFGGPMSANDPDDFIRREI 76 (239)
T ss_pred CCceEEEEecCCCCCChHHHHHHHHCCCceEEEeccCCCCCCC---------cccccCEEEEECCCCCCCCCchHHHHHH
Confidence 357888886543 45779999999999887654332222221 35679998888332 11 1112
Q ss_pred HHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceee
Q 024773 119 EAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAF 157 (262)
Q Consensus 119 ~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~ 157 (262)
+.+.+.-..+++++.|.=. .+.|-..+ |-++.-
T Consensus 77 ~~i~~~~~~~~PvLGIC~G-~Qlla~al-----GG~V~~ 109 (239)
T PRK06490 77 DWISVPLKENKPFLGICLG-AQMLARHL-----GARVAP 109 (239)
T ss_pred HHHHHHHHCCCCEEEECHh-HHHHHHHc-----CCEeec
Confidence 2222111125677766543 44444444 766543
No 316
>PRK12360 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Provisional
Probab=47.45 E-value=2.1e+02 Score=25.59 Aligned_cols=28 Identities=11% Similarity=0.207 Sum_probs=23.8
Q ss_pred CCeEEEeCCCCChHHHHHHHHhCCCcEE
Q 024773 50 NPKVVVTRERGKNGKLIKALAKHRIDCL 77 (262)
Q Consensus 50 g~~VLitR~~~~~~~l~~~L~~~G~~v~ 77 (262)
|++|....+--.+....+.|+++|..++
T Consensus 31 ~~~vy~lG~iVHN~~Vv~~L~~~Gv~~v 58 (281)
T PRK12360 31 GKKIYTLGPLIHNNQVVSDLEEKGVKTI 58 (281)
T ss_pred CCCeEEecCCcCCHHHHHHHHHCcCEEE
Confidence 6778777777788999999999999876
No 317
>cd01079 NAD_bind_m-THF_DH NAD binding domain of methylene-tetrahydrofolate dehydrogenase. The NAD-binding domain of methylene-tetrahydrofolate dehydrogenase (m-THF DH). M-THF is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. M-THF DH is a component of an unusual monofunctional enzyme; in eukaryotes, m-THF DH is typically found as part of a multifunctional protein. NADP-dependent m-THF DHs in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional DH/cyclodrolase form. In bacteria, monofunctional DH, as well as bifunctional DH/cyclodrolase are found. In addition, yeast (S. cerevisiae) also express an monofunctional DH. This family contains only the monofunctional
Probab=47.36 E-value=1.2e+02 Score=25.70 Aligned_cols=46 Identities=17% Similarity=0.071 Sum_probs=31.5
Q ss_pred CCHHHHHHHhhhC-----------CCCccEE-EEEccCCChhhHHHHHHhCCCeeeEE
Q 024773 162 ATGKILASELPKN-----------GKKKCTV-LYPASAKASNEIEEGLSNRGFEVVRL 207 (262)
Q Consensus 162 ~t~e~L~~~l~~~-----------~~~g~~v-L~~~g~~~~~~L~~~L~~~G~~v~~i 207 (262)
-|+.+.++.|..+ ...|+++ ++=||+....-|...|.++|+.|+-+
T Consensus 35 CTp~avi~lL~~~~i~~~~~~~~~~l~GK~vvVIGrS~iVGkPla~lL~~~~AtVti~ 92 (197)
T cd01079 35 CTPLAIVKILEFLGIYNKILPYGNRLYGKTITIINRSEVVGRPLAALLANDGARVYSV 92 (197)
T ss_pred CCHHHHHHHHHHhCCcccccccCCCCCCCEEEEECCCccchHHHHHHHHHCCCEEEEE
Confidence 3666666655533 2356675 44566677788999999999999755
No 318
>cd02068 radical_SAM_B12_BD B12 binding domain_like associated with radical SAM domain. This domain shows similarity with B12 (adenosylcobamide) binding domains found in several enzymes, such as glutamate mutase, methionine synthase and methylmalonyl-CoA mutase, but it lacks the signature motif Asp-X-His-X-X-Gly, which contains the histidine that acts as a cobalt ligand. The function of this domain remains unclear.
Probab=47.33 E-value=1.2e+02 Score=22.90 Aligned_cols=76 Identities=20% Similarity=0.088 Sum_probs=45.0
Q ss_pred hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHH----HHHHHHHHHHcCCCCcEEEEeChh
Q 024773 62 NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEA----GSVFLEAWKEAGTPNVRIGVVGAG 137 (262)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~a----V~~f~~~l~~~~~~~~~i~aVG~~ 137 (262)
...++..|+++|+++...... ..++..+.+....++|.|.||+-.. +..+.+.+++.+ ++.+|++-|+.
T Consensus 5 l~~~aa~l~~~g~~v~~~~~~------~~~~~~~~~~~~~~pdiv~~S~~~~~~~~~~~~~~~ik~~~-p~~~iv~GG~~ 77 (127)
T cd02068 5 LAYLAAVLEDAGFIVAEHDVL------SADDIVEDIKELLKPDVVGISLMTSAIYEALELAKIAKEVL-PNVIVVVGGPH 77 (127)
T ss_pred HHHHHHHHHHCCCeeeecCCC------CHHHHHHHHHHhcCCCEEEEeeccccHHHHHHHHHHHHHHC-CCCEEEECCcc
Confidence 456788899999777765432 1222222332226899999987543 333444455443 46888888877
Q ss_pred HHHHHHH
Q 024773 138 TASIFEE 144 (262)
Q Consensus 138 Ta~~L~~ 144 (262)
....-+.
T Consensus 78 ~t~~p~~ 84 (127)
T cd02068 78 ATFFPEE 84 (127)
T ss_pred hhhCHHH
Confidence 6644443
No 319
>PRK11480 tauA taurine transporter substrate binding subunit; Provisional
Probab=47.25 E-value=71 Score=28.55 Aligned_cols=66 Identities=12% Similarity=0.033 Sum_probs=44.4
Q ss_pred ccCCCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHH
Q 024773 43 SASASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEA 113 (262)
Q Consensus 43 ~~~~~l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~a 113 (262)
.+...|.||+|.++........+...|++.|.+...+- ..... ..++...+ .-++.|+++...+..
T Consensus 115 ~s~~DLkGK~Iav~~~s~~~~~l~~~L~~~Gl~~~dv~---~v~~~-~~~~~~Al-~~G~VDAa~~~~p~~ 180 (320)
T PRK11480 115 SKPEDLIGKRIAVPFISTTHYSLLAALKHWGIKPGQVE---IVNLQ-PPAIIAAW-QRGDIDGAYVWAPAV 180 (320)
T ss_pred CChHHcCCCEEecCCCCchHHHHHHHHHHcCCCHhheE---EEECC-cHHHHHHH-HcCCcCEEEEcchHH
Confidence 34567899999998766555567889999999876543 33332 22333445 347899988877754
No 320
>cd06353 PBP1_BmpA_Med_like Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Periplasmic binding domain of the basic membrane lipoprotein Med in Bacillus and its close homologs from other bacteria and Archaea. Med, a cell-surface localized protein, which regulates the competence transcription factor gene comK in Bacillus subtilis, lacks the DNA binding domain when compared with structures of transcription regulators from the LacI family. Nevertheless, Med has significant overall sequence homology to various periplasmic substrate-binding proteins. Moreover, the structure of Med shows a striking similarity to PnrA, a periplasmic nucleoside binding protein of an ATP-binding cassette transport system. Members of this group contain the type I periplasmic sugar-binding protein-like fold.
Probab=47.20 E-value=1.9e+02 Score=25.01 Aligned_cols=134 Identities=14% Similarity=0.067 Sum_probs=69.0
Q ss_pred CCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccE
Q 024773 101 TIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCT 180 (262)
Q Consensus 101 ~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~ 180 (262)
..+|.|+.++..-...+.+...+. ++.+++.++..... - .+.. +......+.=|+-.+.....+..+
T Consensus 56 ~g~dlIi~~g~~~~~~~~~vA~~~--p~~~F~~~d~~~~~----~------Nv~~-~~~~~~e~~ylaG~~Aa~~t~t~k 122 (258)
T cd06353 56 QGYDLIFGTSFGFMDAALKVAKEY--PDVKFEHCSGYKTA----P------NVGS-YFARIYEGRYLAGVVAGKMTKTNK 122 (258)
T ss_pred cCCCEEEECchhhhHHHHHHHHHC--CCCEEEECCCCCCC----C------Ceee-EechhhHHHHHHHHHHHHhhcCCc
Confidence 469999998888888877776665 47777777542111 1 2221 222222222333333322234578
Q ss_pred EEEEccCCChh------hHHHHHHhCCCeeeEEeeeccccCCCCh-HHHHHH-c-CCCCEEEEeCHHHHHHHHHHhcc
Q 024773 181 VLYPASAKASN------EIEEGLSNRGFEVVRLNTYTTEPVHHVD-QTVLKQ-A-LSIPVVAVASPSAVRSWVNLISD 249 (262)
Q Consensus 181 vL~~~g~~~~~------~L~~~L~~~G~~v~~i~vY~~~~~~~~~-~~~~~~-l-~~~d~ivFtS~s~~~~~~~~~~~ 249 (262)
|-++.|..... -+.+.++..+-+++-+..|......... .++.+. + ++.| |+|... +-...++.+++
T Consensus 123 VG~I~g~~~~~~~~~~~gF~~G~~~~~p~~~v~~~~~g~~~D~~~a~~~a~~l~~~G~D-vI~~~~-~~~g~~~aa~~ 198 (258)
T cd06353 123 VGYVAAFPIPEVVRGINAFALGARSVNPDATVKVIWTGSWFDPAKEKEAALALIDQGAD-VIYQHT-DSPGVIQAAEE 198 (258)
T ss_pred EEEEcCcccHHHHHHHHHHHHHHHHHCCCcEEEEEEecCCCCcHHHHHHHHHHHHCCCc-EEEecC-CChHHHHHHHH
Confidence 99998875422 2333444343444445555543332221 222222 2 4788 666665 33445555544
No 321
>PRK00048 dihydrodipicolinate reductase; Provisional
Probab=47.20 E-value=74 Score=27.72 Aligned_cols=24 Identities=13% Similarity=0.173 Sum_probs=15.8
Q ss_pred cCCCCEEE-EeCHHHHHHHHHHhcc
Q 024773 226 ALSIPVVA-VASPSAVRSWVNLISD 249 (262)
Q Consensus 226 l~~~d~iv-FtS~s~~~~~~~~~~~ 249 (262)
+..+|+|+ ||+|+.....+..+-+
T Consensus 58 l~~~DvVid~t~p~~~~~~~~~al~ 82 (257)
T PRK00048 58 LADADVLIDFTTPEATLENLEFALE 82 (257)
T ss_pred ccCCCEEEECCCHHHHHHHHHHHHH
Confidence 34688888 8887776555555433
No 322
>PRK10310 PTS system galactitol-specific transporter subunit IIB; Provisional
Probab=47.16 E-value=93 Score=22.68 Aligned_cols=26 Identities=15% Similarity=0.240 Sum_probs=20.4
Q ss_pred cEEEEEccCCC------hhhHHHHHHhCCCee
Q 024773 179 CTVLYPASAKA------SNEIEEGLSNRGFEV 204 (262)
Q Consensus 179 ~~vL~~~g~~~------~~~L~~~L~~~G~~v 204 (262)
.++|+.||.+- ...+.+.|+++|.++
T Consensus 3 ~kILvvCgsG~~TS~m~~~ki~~~l~~~gi~~ 34 (94)
T PRK10310 3 RKIIVACGGAVATSTMAAEEIKELCQSHNIPV 34 (94)
T ss_pred CeEEEECCCchhHHHHHHHHHHHHHHHCCCeE
Confidence 37999999886 566778888898864
No 323
>TIGR03590 PseG pseudaminic acid biosynthesis-associated protein PseG. This protein is found in association with enzymes involved in the biosynthesis of pseudaminic acid, a component of polysaccharide in certain Pseudomonas strains as well as a modification of flagellin in Campylobacter and Hellicobacter. The role of this protein is unclear, although it may participate in N-acetylation in conjunction with, or in the absence of PseH (TIGR03585) as it often scores above the trusted cutoff to pfam00583 representing a family of acetyltransferases.
Probab=47.10 E-value=92 Score=27.38 Aligned_cols=71 Identities=23% Similarity=0.253 Sum_probs=43.5
Q ss_pred CCeE-EEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc
Q 024773 50 NPKV-VVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA 124 (262)
Q Consensus 50 g~~V-LitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~ 124 (262)
|..| .+++.. ...+.+.+++.|+.+..+|-..- ...|.+++.+.+++. +.|+||.++-+.-..+...++..
T Consensus 31 g~~v~f~~~~~--~~~~~~~i~~~g~~v~~~~~~~~-~~~d~~~~~~~l~~~-~~d~vV~D~y~~~~~~~~~~k~~ 102 (279)
T TIGR03590 31 GAEVAFACKPL--PGDLIDLLLSAGFPVYELPDESS-RYDDALELINLLEEE-KFDILIVDHYGLDADWEKLIKEF 102 (279)
T ss_pred CCEEEEEeCCC--CHHHHHHHHHcCCeEEEecCCCc-hhhhHHHHHHHHHhc-CCCEEEEcCCCCCHHHHHHHHHh
Confidence 5554 455543 34567888999998887653321 112333455555443 68999999986655666666543
No 324
>cd01741 GATase1_1 Subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain. This group contains a subgroup of proteins having the Type 1 glutamine amidotransferase (GATase1) domain. GATase activity catalyses the transfer of ammonia from the amide side chain of glutamine to an acceptor substrate. Glutamine amidotransferases (GATase) includes the triad family of amidotransferases which have a conserved Cys-His-Glu catalytic triad in the glutaminase active site. In this subgroup this triad is conserved. GATase activity can be found in a range of biosynthetic enzymes, including: glutamine amidotransferase, formylglycinamide ribonucleotide, GMP synthetase , anthranilate synthase component II, glutamine-dependent carbamoyl phosphate synthase, cytidine triphosphate synthetase, gamma-glutamyl hydrolase, imidazole glycerol phosphate synthase and, cobyric acid synthase. Glutamine amidotransferase (GATase) domains can occur either as single polypeptides, as in glutamine
Probab=47.07 E-value=1.4e+02 Score=24.21 Aligned_cols=90 Identities=12% Similarity=0.110 Sum_probs=45.7
Q ss_pred EEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHH-H--------HHHHHHHHHc
Q 024773 54 VVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEA-G--------SVFLEAWKEA 124 (262)
Q Consensus 54 LitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~a-V--------~~f~~~l~~~ 124 (262)
+.++.......+.+.|+..|.....+.+++...... ...+..+|.||+|-... + +.+.+.+...
T Consensus 5 l~~~~~~~~~~~~~~l~~~g~~~~~~~~~~~~~~~~-------~~~~~~~dgvil~Gg~~~~~~~~~~~~~~~~~~i~~~ 77 (188)
T cd01741 5 LQHDTPEGPGLFEDLLREAGAETIEIDVVDVYAGEL-------LPDLDDYDGLVILGGPMSVDEDDYPWLKKLKELIRQA 77 (188)
T ss_pred EECCCCCCcchHHHHHHhcCCCCceEEEEecCCCCC-------CCCcccCCEEEECCCCccCCccCChHHHHHHHHHHHH
Confidence 334444446788999999985222222233221110 12467899999997643 2 1122222221
Q ss_pred CCCCcEEEEeChhHHHHHHHhhhhcCCCCcee
Q 024773 125 GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVA 156 (262)
Q Consensus 125 ~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~ 156 (262)
-..+.+++.|.-.- +.|-..+ |-++.
T Consensus 78 ~~~~~pilgiC~G~-q~l~~~l-----GG~v~ 103 (188)
T cd01741 78 LAAGKPVLGICLGH-QLLARAL-----GGKVG 103 (188)
T ss_pred HHCCCCEEEECccH-HHHHHHh-----CCEEe
Confidence 11356777666543 4444443 66553
No 325
>PRK09739 hypothetical protein; Provisional
Probab=47.02 E-value=53 Score=27.25 Aligned_cols=50 Identities=10% Similarity=0.030 Sum_probs=31.9
Q ss_pred HHHHHHHHhCCCcEEEeceEEeee--CC--------------CchHHHHHHhcCCCccEEEEeCHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQ--GP--------------DTDRLSSVLNADTIFDWIIITSPE 112 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~--~~--------------~~~~l~~~l~~l~~~d~IiFTS~~ 112 (262)
+.+.+.+++.|.++..+-+++... .. ..+++.+..+.+...|.|||.+|.
T Consensus 24 ~~~~~~~~~~g~~v~~~dL~~~~~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~AD~iV~~~P~ 89 (199)
T PRK09739 24 EAIHQRAQERGHQVEELDLYRSGFDPVLTPEDEPDWKNPDKRYSPEVHQLYSELLEHDALVFVFPL 89 (199)
T ss_pred HHHHHHHHHCCCEEEEEEhhhhCCCCCCCHHHhhhhcccCCCCCHHHHHHHHHHHhCCEEEEECch
Confidence 445666777888888887776421 00 023345555567788999998873
No 326
>PRK02910 light-independent protochlorophyllide reductase subunit B; Provisional
Probab=46.93 E-value=1.3e+02 Score=29.26 Aligned_cols=49 Identities=12% Similarity=0.135 Sum_probs=36.8
Q ss_pred CCCccchhccccccccCCCCCCCeEEEeCCCCChHHHHHHHH-hCCCcEEEece
Q 024773 29 PFQFSRIQASSDATSASASNSNPKVVVTRERGKNGKLIKALA-KHRIDCLELPL 81 (262)
Q Consensus 29 ~~~~~~~~~~~~~~~~~~~l~g~~VLitR~~~~~~~l~~~L~-~~G~~v~~~P~ 81 (262)
+.+..|++.+.|+ ..+.||+|.|.......-.+.+.|. +.|++|...-+
T Consensus 276 ~~~l~~~~~~~d~----~~l~Gkrv~I~gd~~~a~~l~~~L~~ElGm~vv~~gt 325 (519)
T PRK02910 276 PSRLPWFSRSVDS----TYLTGKRVFVFGDATHAVAAARILSDELGFEVVGAGT 325 (519)
T ss_pred hhhhhHHHHhhhh----HhhcCCEEEEEcCcHHHHHHHHHHHHhcCCeEEEEec
Confidence 4456798884432 5688999999977666778888898 79999986544
No 327
>PRK13143 hisH imidazole glycerol phosphate synthase subunit HisH; Provisional
Probab=46.88 E-value=1.3e+02 Score=24.99 Aligned_cols=78 Identities=17% Similarity=0.116 Sum_probs=44.4
Q ss_pred CeEEEeCCC-CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH---HHHHH----HHHHHH
Q 024773 51 PKVVVTRER-GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP---EAGSV----FLEAWK 122 (262)
Q Consensus 51 ~~VLitR~~-~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~---~aV~~----f~~~l~ 122 (262)
++|+|.--. .....+.+.|+++|+++..++ +.. .+.+||.|+++-+ ..... +.+.+.
T Consensus 1 ~~~~v~~~~~~~~~~~~~~l~~~G~~~~~~~--------~~~-------~~~~~d~iii~G~~~~~~~~~~~~~~~~~i~ 65 (200)
T PRK13143 1 MMIVIIDYGVGNLRSVSKALERAGAEVVITS--------DPE-------EILDADGIVLPGVGAFGAAMENLSPLRDVIL 65 (200)
T ss_pred CeEEEEECCCccHHHHHHHHHHCCCeEEEEC--------CHH-------HHccCCEEEECCCCCHHHHHHHHHHHHHHHH
Confidence 356665443 345789999999999877653 111 2368999999773 11111 111122
Q ss_pred HcCCCCcEEEEeChhHHHHHHH
Q 024773 123 EAGTPNVRIGVVGAGTASIFEE 144 (262)
Q Consensus 123 ~~~~~~~~i~aVG~~Ta~~L~~ 144 (262)
..-..+.++++|.-. .+.|-+
T Consensus 66 ~~~~~~~PilgIC~G-~q~l~~ 86 (200)
T PRK13143 66 EAARSGKPFLGICLG-MQLLFE 86 (200)
T ss_pred HHHHcCCCEEEECHH-HHHHhh
Confidence 111236788877753 445544
No 328
>PRK03094 hypothetical protein; Provisional
Probab=46.81 E-value=37 Score=24.41 Aligned_cols=21 Identities=29% Similarity=0.732 Sum_probs=16.7
Q ss_pred CChhhHHHHHHhCCCeeeEEe
Q 024773 188 KASNEIEEGLSNRGFEVVRLN 208 (262)
Q Consensus 188 ~~~~~L~~~L~~~G~~v~~i~ 208 (262)
.+..++.+.|+++|.+|..+.
T Consensus 8 ~~Ls~i~~~L~~~GYeVv~l~ 28 (80)
T PRK03094 8 QSLTDVQQALKQKGYEVVQLR 28 (80)
T ss_pred cCcHHHHHHHHHCCCEEEecC
Confidence 456689999999999886554
No 329
>PRK03619 phosphoribosylformylglycinamidine synthase I; Provisional
Probab=46.80 E-value=1.3e+02 Score=25.57 Aligned_cols=79 Identities=19% Similarity=0.077 Sum_probs=47.6
Q ss_pred eEEEeCCCCCh--HHHHHHHH-hCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHH------------HH
Q 024773 52 KVVVTRERGKN--GKLIKALA-KHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAG------------SV 116 (262)
Q Consensus 52 ~VLitR~~~~~--~~l~~~L~-~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV------------~~ 116 (262)
+|.|.+-...+ .++.+.|+ ..|+++..++.-+ ..+.++|+|++.-.... ..
T Consensus 2 ~v~Vl~~~G~n~~~d~~~a~~~~~G~~~~~v~~~~--------------~~l~~~D~lvipGG~~~~d~l~~~~~~~~~~ 67 (219)
T PRK03619 2 KVAVIVFPGSNCDRDMARALRDLLGAEPEYVWHKE--------------TDLDGVDAVVLPGGFSYGDYLRCGAIAAFSP 67 (219)
T ss_pred EEEEEecCCcChHHHHHHHHHhcCCCeEEEEecCc--------------CCCCCCCEEEECCCCchhhhhccchhhhchH
Confidence 56666555444 45788998 8899887664311 13567899888865221 12
Q ss_pred HHHHHHHcCCCCcEEEEeChhHHHHHHHh
Q 024773 117 FLEAWKEAGTPNVRIGVVGAGTASIFEEV 145 (262)
Q Consensus 117 f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~ 145 (262)
+.+.+.+....+.++++|+... +.|-+.
T Consensus 68 ~~~~l~~~~~~g~~ilgIC~G~-qlLa~~ 95 (219)
T PRK03619 68 IMKAVKEFAEKGKPVLGICNGF-QILTEA 95 (219)
T ss_pred HHHHHHHHHHCCCEEEEECHHH-HHHHHc
Confidence 2222322222477899999854 677776
No 330
>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=46.57 E-value=2.6e+02 Score=26.50 Aligned_cols=139 Identities=13% Similarity=0.063 Sum_probs=74.7
Q ss_pred ChHHHHHHHHhCCCcEEE-eceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CCCCcEEEEeCh-h
Q 024773 61 KNGKLIKALAKHRIDCLE-LPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GTPNVRIGVVGA-G 137 (262)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~-~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~-~~~~~~i~aVG~-~ 137 (262)
+..++.+.|++.|+++.. +|-- ...++ +..+.+...-+..++.....+.+.|++. +.+-+...-+|. .
T Consensus 211 d~~el~~lL~~~Gl~v~~~~~~~-----~s~ee----i~~~~~A~lniv~~~~~~~~~a~~L~e~~GiP~~~~~~~G~~~ 281 (456)
T TIGR01283 211 EFWHVKPLLEKLGIRVLATITGD-----SRYAE----VQTAHRAKLNMVQCSKSMINLARKMEEKYGIPYFEGSFYGIED 281 (456)
T ss_pred cHHHHHHHHHHcCCeEEEEeCCC-----CcHHH----HHhcccCcEEEEECHhHHHHHHHHHHHHcCCCEEecCCCcHHH
Confidence 456899999999999985 2111 12232 3356677777776766666677777543 443222112553 3
Q ss_pred HHHHHHHhhhhcCCCCce--eecCCC--CCHHHHHHHhhhC--CCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeee
Q 024773 138 TASIFEEVIQSSKCSLDV--AFSPSK--ATGKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTY 210 (262)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~--~~~p~~--~t~e~L~~~l~~~--~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY 210 (262)
|.+.|++..+. .|..- ...++. ..-+.+.+.|..+ ...|+++.+..|....-.+...|.+.|++|..+.++
T Consensus 282 T~~~L~~Ia~~--lg~~~~~~~~~~~i~~e~~~~~~~l~~~~~~L~Gkrv~i~~g~~~~~~l~~~l~elGmevv~~~t~ 358 (456)
T TIGR01283 282 TSKALRDIADL--FGDEELLKRTEELIAREEAKIRPALEPYRERLKGKKAAIYTGGVKSWSLVSALQDLGMEVVATGTQ 358 (456)
T ss_pred HHHHHHHHHHH--hCChHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCEEEEEcCCchHHHHHHHHHHCCCEEEEEeee
Confidence 66666665210 03210 000000 0001122222222 125788877666545556888999999998665443
No 331
>PRK05565 fabG 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
Probab=46.54 E-value=1e+02 Score=25.58 Aligned_cols=33 Identities=18% Similarity=0.152 Sum_probs=25.1
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEe
Q 024773 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLEL 79 (262)
Q Consensus 47 ~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~ 79 (262)
.+.+++|||+..... ...+++.|.+.|+++...
T Consensus 2 ~~~~~~ilI~Gasg~iG~~la~~l~~~g~~v~~~ 35 (247)
T PRK05565 2 KLMGKVAIVTGASGGIGRAIAELLAKEGAKVVIA 35 (247)
T ss_pred CCCCCEEEEeCCCcHHHHHHHHHHHHCCCEEEEE
Confidence 367889999987543 467888888899887643
No 332
>TIGR01753 flav_short flavodoxin, short chain. Flavodoxins are small redox-active proteins with a flavin mononucleotide (FMN) prosthetic group. They can act in nitrogen fixation by nitrogenase, in sulfite reduction, and light-dependent NADP+ reduction in during photosynthesis, among other roles. This model describes the short chain type. Many of these are involved in sulfite reduction.
Probab=46.15 E-value=85 Score=23.84 Aligned_cols=14 Identities=7% Similarity=0.117 Sum_probs=8.6
Q ss_pred CCCCHHHHHHHhhh
Q 024773 160 SKATGKILASELPK 173 (262)
Q Consensus 160 ~~~t~e~L~~~l~~ 173 (262)
...+.+.+++.+.+
T Consensus 8 ~tGnT~~~A~~i~~ 21 (140)
T TIGR01753 8 MTGNTEEMANIIAE 21 (140)
T ss_pred CCcHHHHHHHHHHH
Confidence 34566777766654
No 333
>cd06385 PBP1_NPR_A Ligand-binding domain of type A natriuretic peptide receptor. Ligand-binding domain of type A natriuretic peptide receptor (NPR-A). NPR-A is one of three known single membrane-spanning natriuretic peptide receptors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. NPR-A is highly expressed in kidney, adrenal, terminal ileum, adipose, aortic, and lung tissues. The rank order of NPR-A activation by natriuretic peptides is ANPBNPCNP. Single allele-inactivating mutations in the promoter of human NPR-A are associated with hypertension and heart failure.
Probab=46.14 E-value=2.4e+02 Score=25.86 Aligned_cols=60 Identities=18% Similarity=0.078 Sum_probs=35.5
Q ss_pred hhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcC-CCCEEEE-eCHHHHHHHHHHhcccC
Q 024773 190 SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQAL-SIPVVAV-ASPSAVRSWVNLISDTE 251 (262)
Q Consensus 190 ~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~-~~d~ivF-tS~s~~~~~~~~~~~~~ 251 (262)
.+.+.+.|++.|++|.....+.. . .......++.++ ..++|++ .++..+..++..+.+.+
T Consensus 165 ~~~l~~~~~~~gi~v~~~~~~~~-~-~~d~~~~l~~ik~~~~iii~~~~~~~~~~i~~~a~~~g 226 (405)
T cd06385 165 MEGLYMELKKNNITVVDLVFEED-D-LINYTTLLQDIKQKGRVIYVCCSPDIFRRLMLQFWREG 226 (405)
T ss_pred HHHHHHHHHhCCeEEEEeeccCC-c-hhhHHHHHHHHhhcceEEEEeCCHHHHHHHHHHHHHcC
Confidence 46788899999988865543311 1 112222333332 3355554 88888888887766544
No 334
>cd01967 Nitrogenase_MoFe_alpha_like Nitrogenase_MoFe_alpha_like: Nitrogenase MoFe protein, alpha subunit_like. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. Three genetically distinct types of nitrogenase systems are known to exist: a molybdenum-dependent nitrogenase (Mo-nitrogenase), a vanadium dependent nitrogenase (V-nitrogenase), and an iron-only nitrogenase (Fe-nitrogenase). These nitrogenase systems consist of component 1 (MoFe protein, VFe protein or, FeFe protein respectively) and, component 2 (Fe protein). This group contains the alpha subunit of component 1 of all three different forms. The most widespread and best characterized of these systems is the Mo-nitrogenase. MoFe is an alpha2beta2 tetramer, the alternative nitrogenases are alpha2beta2delta2 hexamers having alpha and beta subunits similar to the alpha and beta subunits of MoFe. The role of the delta subunit is unknown. For MoFe, each alphabeta pair of subunits contains one
Probab=46.06 E-value=2.5e+02 Score=26.00 Aligned_cols=139 Identities=14% Similarity=0.101 Sum_probs=70.7
Q ss_pred ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CCCCcEEEEeCh-hH
Q 024773 61 KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GTPNVRIGVVGA-GT 138 (262)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~-~~~~~~i~aVG~-~T 138 (262)
+..++.+.|++.|+++..+.. .-.+.++ +..+.+...-+..++..-..+.+.|++. +.+-....-+|. .|
T Consensus 174 d~~el~~lL~~~Gi~~~~~~~----~~~~~~~----i~~~~~A~~niv~~~~~~~~~a~~L~~r~GiP~~~~~p~G~~~t 245 (406)
T cd01967 174 DAWVIKPLLEELGIRVNATFT----GDGTVDE----LRRAHRAKLNLVHCSRSMNYLAREMEERYGIPYMEVNFYGFEDT 245 (406)
T ss_pred hHHHHHHHHHHcCCEEEEEeC----CCCCHHH----HhhCccCCEEEEEChHHHHHHHHHHHHhhCCCEEEecCCcHHHH
Confidence 458899999999999984321 0112232 3456777777766654444445555543 332211112343 34
Q ss_pred HHHHHHhhhhcCCCCceeecCCC--CCHHHHHHHhhhC--CCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeee
Q 024773 139 ASIFEEVIQSSKCSLDVAFSPSK--ATGKILASELPKN--GKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTY 210 (262)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~~--~t~e~L~~~l~~~--~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY 210 (262)
.+.++...+. -|.... .++. ..-+.+.+.+... ...|+++.+..+......+...|.+.|++|..+.++
T Consensus 246 ~~~l~~l~~~--lg~~~~-~~~~i~~~~~~~~~~l~~~~~~l~gkrv~I~~~~~~~~~~~~~l~elG~~v~~~~~~ 318 (406)
T cd01967 246 SESLRKIAKF--FGDEEK-AEEVIAEEEARIKPELEKYRERLKGKKVIIYTGGARSWHVIAALRELGMEVVAAGYE 318 (406)
T ss_pred HHHHHHHHHH--hCCHHH-HHHHHHHHHHHHHHHHHHHHHhccCCEEEEEccCcchHHHHHHHHHcCCEEEEEEEe
Confidence 4445444100 143110 0000 0011122222211 125788887766665566678899999998665554
No 335
>PLN03139 formate dehydrogenase; Provisional
Probab=46.02 E-value=1.6e+02 Score=27.53 Aligned_cols=157 Identities=12% Similarity=0.019 Sum_probs=82.0
Q ss_pred hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH--HHHHHHHHHHHcCCCCcEEEE---eCh
Q 024773 62 NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE--AGSVFLEAWKEAGTPNVRIGV---VGA 136 (262)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~--aV~~f~~~l~~~~~~~~~i~a---VG~ 136 (262)
.-.+.+.|++.|++++..+- ... +.+++ .+.+.++|.+|.+... -+.. +.+.. .++.++++ +|-
T Consensus 64 ~~~~~~~l~~~g~~~v~~~~---~~~-~~~~~---~~~l~dadili~~~~~~~~~~~--e~l~~--ap~LK~I~~~g~G~ 132 (386)
T PLN03139 64 ALGIRDWLESQGHQYIVTDD---KEG-PDCEL---EKHIPDLHVLITTPFHPAYVTA--ERIKK--AKNLELLLTAGIGS 132 (386)
T ss_pred CccHHHHHHhcCCeEEEeCC---CCC-CHHHH---HHHhCCCeEEEEcCccCCCCCH--HHHhh--CCCccEEEECCccc
Confidence 34577888999988876541 111 12233 2345788887754311 1111 11222 12444332 332
Q ss_pred h--HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHh--------hh------------C----------CCCccEEEEE
Q 024773 137 G--TASIFEEVIQSSKCSLDVAFSPSKATGKILASEL--------PK------------N----------GKKKCTVLYP 184 (262)
Q Consensus 137 ~--Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l--------~~------------~----------~~~g~~vL~~ 184 (262)
- ..+++.+. |+.+.-.|. .+++.+++.. .. + ...|+++.++
T Consensus 133 D~iDl~aa~~~------gI~V~n~~g-~na~sVAE~al~liL~l~R~~~~~~~~~~~g~W~~~~~~~~~~~L~gktVGIV 205 (386)
T PLN03139 133 DHIDLPAAAAA------GLTVAEVTG-SNVVSVAEDELMRILILLRNFLPGYHQVVSGEWNVAGIAYRAYDLEGKTVGTV 205 (386)
T ss_pred cccCHHHHHHC------CeEEEECCC-cCcHHHHHHHHHHHHHHHcCcHHHHHHHHhCCCccccccCCCcCCCCCEEEEE
Confidence 2 23556677 888765542 3444443321 00 0 1256777777
Q ss_pred ccCCChhhHHHHHHhCCCeeeEEeeeccccCCCC---------hHHHHHHcCCCCEEEEeCHHH
Q 024773 185 ASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHV---------DQTVLKQALSIPVVAVASPSA 239 (262)
Q Consensus 185 ~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~---------~~~~~~~l~~~d~ivFtS~s~ 239 (262)
+-......+.+.|...|++| .+|........ ..++.+.+...|+|+...|.+
T Consensus 206 G~G~IG~~vA~~L~afG~~V---~~~d~~~~~~~~~~~~g~~~~~~l~ell~~sDvV~l~lPlt 266 (386)
T PLN03139 206 GAGRIGRLLLQRLKPFNCNL---LYHDRLKMDPELEKETGAKFEEDLDAMLPKCDVVVINTPLT 266 (386)
T ss_pred eecHHHHHHHHHHHHCCCEE---EEECCCCcchhhHhhcCceecCCHHHHHhhCCEEEEeCCCC
Confidence 65555567888899888876 44554321100 012333446889999988843
No 336
>PRK07792 fabG 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
Probab=45.92 E-value=1.8e+02 Score=25.67 Aligned_cols=89 Identities=12% Similarity=0.066 Sum_probs=49.8
Q ss_pred cCCCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC-CccEEE--EeCHHHHHHHHH
Q 024773 44 ASASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT-IFDWII--ITSPEAGSVFLE 119 (262)
Q Consensus 44 ~~~~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~-~~d~Ii--FTS~~aV~~f~~ 119 (262)
+...+.|+++|||..... ...+++.|.+.|++|+..-.- .....+++...+...+ ...++- +++..+++.+++
T Consensus 6 ~~~~l~~k~~lVTGas~gIG~~ia~~L~~~Ga~Vv~~~~~---~~~~~~~~~~~i~~~g~~~~~~~~Dv~d~~~~~~~~~ 82 (306)
T PRK07792 6 NTTDLSGKVAVVTGAAAGLGRAEALGLARLGATVVVNDVA---SALDASDVLDEIRAAGAKAVAVAGDISQRATADELVA 82 (306)
T ss_pred CCcCCCCCEEEEECCCChHHHHHHHHHHHCCCEEEEecCC---chhHHHHHHHHHHhcCCeEEEEeCCCCCHHHHHHHHH
Confidence 346688999999987654 467899999999987643211 1111122222332221 122221 467888888887
Q ss_pred HHHHcCCCCcEEEEeC
Q 024773 120 AWKEAGTPNVRIGVVG 135 (262)
Q Consensus 120 ~l~~~~~~~~~i~aVG 135 (262)
.+.+.+.-+.-|.+.|
T Consensus 83 ~~~~~g~iD~li~nAG 98 (306)
T PRK07792 83 TAVGLGGLDIVVNNAG 98 (306)
T ss_pred HHHHhCCCCEEEECCC
Confidence 6655332233344444
No 337
>PF13377 Peripla_BP_3: Periplasmic binding protein-like domain; PDB: 3K9C_B 3BIL_B 3JVD_B 1ZAY_A 1VPW_A 1DBQ_A 2PUA_A 1QQA_A 1PNR_A 1JHZ_A ....
Probab=45.82 E-value=94 Score=23.93 Aligned_cols=73 Identities=21% Similarity=0.180 Sum_probs=47.8
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCCch-HHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPDTD-RLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~~~-~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~ 137 (262)
-+.+.++++|..+............... .....+++. ..|+|+..+......+...+.+.+. +++.|++.|..
T Consensus 30 gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~-~pdaii~~~~~~a~~~~~~l~~~g~~vP~di~vv~~~~~ 106 (160)
T PF13377_consen 30 GFREALKEHGIEFEELIFFSDDDSEDAREAQLLWLRRL-RPDAIICSNDRLALGVLRALRELGIRVPQDISVVSFDDS 106 (160)
T ss_dssp HHHHHHHHTTSEEEGEEEEESSSHHHHHHHHHHHHHTC-SSSEEEESSHHHHHHHHHHHHHTTSCTTTTSEEEEESSS
T ss_pred HHHHHHHHCCCCCCeeEeecCCcchhHHHHHHHHHhcC-CCcEEEEcCHHHHHHHHHHHHHcCCcccccccEEEecCc
Confidence 3667888899886543333222111111 111223333 6799999999999999999999886 48999999963
No 338
>PRK10792 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=45.78 E-value=2.2e+02 Score=25.46 Aligned_cols=159 Identities=16% Similarity=0.131 Sum_probs=84.7
Q ss_pred eEEEeCCCCChHHHH----HHHHhCCCcEEEeceEEeeeCCCchHHHHHHh---cCCCccEEEEeCHH--HH--HHHHHH
Q 024773 52 KVVVTRERGKNGKLI----KALAKHRIDCLELPLIQHAQGPDTDRLSSVLN---ADTIFDWIIITSPE--AG--SVFLEA 120 (262)
Q Consensus 52 ~VLitR~~~~~~~l~----~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~---~l~~~d~IiFTS~~--aV--~~f~~~ 120 (262)
-++....+..+..+. +..++.|+++..+-+-+. ...+++...+. ...+.|.|+.--|- .+ +..++.
T Consensus 37 aii~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~---~s~~el~~~I~~lN~d~~V~GIlvqlPLP~~~~~~~i~~~ 113 (285)
T PRK10792 37 AVVLVGSDPASQVYVASKRKACEEVGFVSRSYDLPET---TSEAELLALIDELNADPTIDGILVQLPLPAHIDNVKVLER 113 (285)
T ss_pred EEEEeCCCHHHHHHHHHHHHHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCCHHHHHhc
Confidence 344444444443333 455667988765544221 12234444444 34678999998772 22 122222
Q ss_pred HHHc-CCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC--CCccEEEEEc-cCCChhhHHHH
Q 024773 121 WKEA-GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPA-SAKASNEIEEG 196 (262)
Q Consensus 121 l~~~-~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~g~~vL~~~-g~~~~~~L~~~ 196 (262)
+... ..|...-+-.| .|. . |-. .+.| -|+.+.++.|..+. ..|++++++. |+....-|...
T Consensus 114 I~p~KDVDGl~~~n~g-----~l~-~------~~~-~~~P--cTp~av~~ll~~~~i~l~Gk~vvViGrs~iVG~Pla~l 178 (285)
T PRK10792 114 IHPDKDVDGFHPYNVG-----RLA-Q------RIP-LLRP--CTPRGIMTLLERYGIDTYGLNAVVVGASNIVGRPMSLE 178 (285)
T ss_pred cCcccccCccChhhHh-----HHh-C------CCC-CCCC--CCHHHHHHHHHHcCCCCCCCEEEEECCCcccHHHHHHH
Confidence 2111 11233333333 221 2 322 2444 48889998887653 3577876664 44467789999
Q ss_pred HHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeC
Q 024773 197 LSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVAS 236 (262)
Q Consensus 197 L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS 236 (262)
|.+.|++|+-+. .... .+.+.....|+|+-+-
T Consensus 179 L~~~~atVtv~h--s~T~------~l~~~~~~ADIvi~av 210 (285)
T PRK10792 179 LLLAGCTVTVCH--RFTK------NLRHHVRNADLLVVAV 210 (285)
T ss_pred HHHCCCeEEEEE--CCCC------CHHHHHhhCCEEEEcC
Confidence 999998885442 2211 1333345889888777
No 339
>cd03129 GAT1_Peptidase_E_like Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins. Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E_like proteins. This group contains proteins similar to the aspartyl dipeptidases Salmonella typhimurium peptidase E and Xenopus laevis peptidase E and, extracellular cyanophycinases from Pseudomonas anguilliseptica BI (CphE) and Synechocystis sp. PCC 6803 CphB. In bacteria peptidase E is believed to play a role in degrading peptides generated by intracellular protein breakdown or imported into the cell as nutrient sources. Peptidase E uniquely hydrolyses only Asp-X dipeptides (where X is any amino acid), and one tripeptide Asp-Gly-Gly. Cyanophycinases are intracellular exopeptidases which hydrolyze the polymer cyanophycin (multi L-arginyl-poly-L-aspartic acid) to the dipeptide beta-Asp-Arg. Peptidase E and cyanophycinases are thought to have a Ser-His-Glu catalytic triad which differs from
Probab=45.72 E-value=86 Score=26.23 Aligned_cols=67 Identities=12% Similarity=0.145 Sum_probs=44.5
Q ss_pred CCeEEEe-CCC----CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHH
Q 024773 50 NPKVVVT-RER----GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKE 123 (262)
Q Consensus 50 g~~VLit-R~~----~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~ 123 (262)
+.+|++. ... ...+.+.+.+++.|+++..++.+.. .+.+++. ..+...|+|+|+-.+..+.. +.+.+
T Consensus 29 ~~~i~~iptA~~~~~~~~~~~~~~~~~lG~~~~~~~~~~~---~~~~~~~---~~l~~ad~I~~~GG~~~~~~-~~l~~ 100 (210)
T cd03129 29 GARVLFIPTASGDRDEYGEEYRAAFERLGVEVVHLLLIDT---ANDPDVV---ARLLEADGIFVGGGNQLRLL-SVLRE 100 (210)
T ss_pred CCeEEEEeCCCCChHHHHHHHHHHHHHcCCceEEEeccCC---CCCHHHH---HHHhhCCEEEEcCCcHHHHH-HHHHh
Confidence 5566655 333 2356788899999999999887765 2223333 34578999999998886654 33443
No 340
>cd06294 PBP1_ycjW_transcription_regulator_like Ligand-binding domain of uncharacterized transcription regulator ycjW which is a member of the LacI-GalR family repressors. This group includes the ligand-binding domain of uncharacterized transcription regulator ycjW which 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 repressor undergoes a conformational change upon ligand binding which in turn changes the DNA binding affinity of the repressor.
Probab=45.70 E-value=85 Score=26.41 Aligned_cols=45 Identities=18% Similarity=0.109 Sum_probs=29.8
Q ss_pred HHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024773 93 LSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (262)
Q Consensus 93 l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~ 137 (262)
+...+....+.|+|+.++......++..+.+.+. +++.+++.+..
T Consensus 174 ~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~iP~dv~vig~d~~ 221 (270)
T cd06294 174 LKKLLEQHPRPTAIVATDDLLALGVLKVLNELGLKVPEDLSIIGFNNS 221 (270)
T ss_pred HHHHHhCCCCCCEEEECChHHHHHHHHHHHHcCCCCCcceEEEeeCCh
Confidence 3344433345888888887777777777777765 36677777764
No 341
>PF02882 THF_DHG_CYH_C: Tetrahydrofolate dehydrogenase/cyclohydrolase, NAD(P)-binding domain; InterPro: IPR020631 Enzymes that participate in the transfer of one-carbon units require the coenzyme tetrahydrofolate (THF). Various reactions generate one-carbon derivatives of THF, which can be interconverted between different oxidation states by methylene-THF dehydrogenase (1.5.1.5 from EC), methenyl-THF cyclohydrolase (3.5.4.9 from EC) and formyl-THF synthetase (6.3.4.3 from EC) [, ]. The dehydrogenase and cyclohydrolase activities are expressed by a variety of multifunctional enzymes, including the tri-functional eukaryotic C1-tetrahydrofolate synthase []; a bifunctional eukaryotic mitochondrial protein; and the bifunctional Escherichia coli folD protein [, ]. Methylene-tetrahydrofolate dehydrogenase and methenyltetrahydrofolate cyclo-hydrolase share an overlapping active site [], and as such are usually located together in proteins, acting in tandem on the carbon-nitrogen bonds of substrates other than peptide bonds. This entry represents the NAD(P)-binding domain found in these enzymes.; GO: 0003824 catalytic activity, 0004488 methylenetetrahydrofolate dehydrogenase (NADP+) activity, 0009396 folic acid-containing compound biosynthetic process, 0055114 oxidation-reduction process; PDB: 1B0A_A 2C2X_B 2C2Y_A 3NGL_C 3NGX_A 4A26_B 1EDZ_A 1EE9_A 3P2O_B 1DIA_A ....
Probab=45.67 E-value=57 Score=26.56 Aligned_cols=57 Identities=16% Similarity=0.053 Sum_probs=36.9
Q ss_pred CCCCCCeEEEe-CCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHH
Q 024773 46 ASNSNPKVVVT-RERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPE 112 (262)
Q Consensus 46 ~~l~g~~VLit-R~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~ 112 (262)
.++.||+|++. |+..-...+...|.+.|+.|..+.-.. .++++.+ ...|.||-....
T Consensus 32 ~~l~Gk~v~VvGrs~~VG~Pla~lL~~~~atVt~~h~~T-------~~l~~~~---~~ADIVVsa~G~ 89 (160)
T PF02882_consen 32 IDLEGKKVVVVGRSNIVGKPLAMLLLNKGATVTICHSKT-------KNLQEIT---RRADIVVSAVGK 89 (160)
T ss_dssp -STTT-EEEEE-TTTTTHHHHHHHHHHTT-EEEEE-TTS-------SSHHHHH---TTSSEEEE-SSS
T ss_pred CCCCCCEEEEECCcCCCChHHHHHHHhCCCeEEeccCCC-------Cccccee---eeccEEeeeecc
Confidence 57899998877 555577899999999999998654332 2233333 678888866644
No 342
>KOG0519 consensus Sensory transduction histidine kinase [Signal transduction mechanisms]
Probab=45.61 E-value=1.9e+02 Score=29.72 Aligned_cols=130 Identities=15% Similarity=0.060 Sum_probs=79.7
Q ss_pred CCCCCccchhccccccccCCCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccE
Q 024773 27 PLPFQFSRIQASSDATSASASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDW 105 (262)
Q Consensus 27 ~~~~~~~~~~~~~~~~~~~~~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~ 105 (262)
..+....|-+. .+.....+.|.+||+.....- ...-...|+++|+++...+ ...+. ...++.-..||+
T Consensus 646 ~~~~~~~e~~~---~~~~~~~l~g~~iLlvddn~vn~~Va~~~l~~~g~~~~~~~-------sg~e~-l~~~~~~~~y~~ 714 (786)
T KOG0519|consen 646 SKLSGNPEKLA---EPRDSKLLTGPKILLVDDNPVNRKVATGMLKKLGAEVTEVN-------SGQEA-LDKLKPPHSYDV 714 (786)
T ss_pred cccCCCccccc---CccccccccCCceEEEecccchHHHHHHHHHHhCCeeEeec-------CcHHH-HHhcCCCCcccE
Confidence 34444555544 222347899999999977654 4456668999999998776 12222 233433456777
Q ss_pred EEEeCHHHHHHHHHH---HHHcCCCCcEEEE----eChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhC
Q 024773 106 IIITSPEAGSVFLEA---WKEAGTPNVRIGV----VGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKN 174 (262)
Q Consensus 106 IiFTS~~aV~~f~~~---l~~~~~~~~~i~a----VG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~ 174 (262)
|+-==..-+-=-.+. +.+.-....+|+| +.+.|.+.+.+. |++- +..+..+-+.|+..+.+.
T Consensus 715 ifmD~qMP~mDG~e~~~~irk~~~~~~pIvAlTa~~~~~~~~~c~~~------Gmd~-yl~KP~~~~~l~~~l~~~ 783 (786)
T KOG0519|consen 715 IFMDLQMPEMDGYEATREIRKKERWHLPIVALTADADPSTEEECLEV------GMDG-YLSKPFTLEKLVKILREF 783 (786)
T ss_pred EEEEcCCcccchHHHHHHHHHhhcCCCCEEEEecCCcHHHHHHHHHh------CCce-EEcccccHHHHHHHHHHH
Confidence 765433221100111 1111112567777 678899999999 9986 667788899998887654
No 343
>PLN02253 xanthoxin dehydrogenase
Probab=45.55 E-value=1.4e+02 Score=25.70 Aligned_cols=73 Identities=11% Similarity=0.067 Sum_probs=41.7
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEE--EEeCHHHHHHHHHHHHH
Q 024773 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWI--IITSPEAGSVFLEAWKE 123 (262)
Q Consensus 47 ~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~I--iFTS~~aV~~f~~~l~~ 123 (262)
.+.|+++|||..... ...+++.|.++|++|+.+-. .. ...+++...+..-..+.++ =+++..+++.+++.+.+
T Consensus 15 ~l~~k~~lItGas~gIG~~la~~l~~~G~~v~~~~~--~~--~~~~~~~~~~~~~~~~~~~~~Dl~d~~~~~~~~~~~~~ 90 (280)
T PLN02253 15 RLLGKVALVTGGATGIGESIVRLFHKHGAKVCIVDL--QD--DLGQNVCDSLGGEPNVCFFHCDVTVEDDVSRAVDFTVD 90 (280)
T ss_pred ccCCCEEEEECCCchHHHHHHHHHHHcCCEEEEEeC--CH--HHHHHHHHHhcCCCceEEEEeecCCHHHHHHHHHHHHH
Confidence 466899999988654 46788999999998865411 10 0111121222110112222 25778888887776544
No 344
>PRK12748 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
Probab=45.48 E-value=1.1e+02 Score=25.89 Aligned_cols=33 Identities=21% Similarity=0.189 Sum_probs=26.4
Q ss_pred CCCCCeEEEeCCC---CChHHHHHHHHhCCCcEEEe
Q 024773 47 SNSNPKVVVTRER---GKNGKLIKALAKHRIDCLEL 79 (262)
Q Consensus 47 ~l~g~~VLitR~~---~~~~~l~~~L~~~G~~v~~~ 79 (262)
++.|++||||... .-...+++.|.++|++++..
T Consensus 2 ~l~~k~vlItGas~~~giG~~la~~l~~~G~~vi~~ 37 (256)
T PRK12748 2 PLMKKIALVTGASRLNGIGAAVCRRLAAKGIDIFFT 37 (256)
T ss_pred CCCCcEEEEeCCCCCCCHHHHHHHHHHHcCCcEEEE
Confidence 4678999999875 24578999999999987754
No 345
>PRK05452 anaerobic nitric oxide reductase flavorubredoxin; Provisional
Probab=45.21 E-value=75 Score=30.56 Aligned_cols=68 Identities=12% Similarity=0.207 Sum_probs=40.8
Q ss_pred hhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHH-------HHHHHHHHhcccCCCCCeEEEEC
Q 024773 191 NEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPS-------AVRSWVNLISDTEQWSNSVACIA 261 (262)
Q Consensus 191 ~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s-------~~~~~~~~~~~~~~~~~~i~~IG 261 (262)
+.+.+.+++.|..+ ++.+|+.... ...++...+...|+|+|-||. .+..|++.+....+.+.+++++|
T Consensus 270 ~~ia~gl~~~g~gv-~v~~~~v~~~--~~~~i~~~~~~ad~vilGspT~~~~~~p~~~~fl~~l~~~~l~gK~~~vFG 344 (479)
T PRK05452 270 DAIAQGIAEVDPRV-AVKIFNVARS--DKNEILTNVFRSKGVLVGSSTMNNVMMPKIAGLLEEITGLRFRNKRASAFG 344 (479)
T ss_pred HHHHHHHHhhCCCc-eEEEEECCCC--CHHHHHhHHhhCCEEEEECCccCCcchHHHHHHHHHhhccCcCCCEEEEEE
Confidence 34445566554333 4556654322 234454444578999999976 35556666655446788888887
No 346
>PF09084 NMT1: NMT1/THI5 like; InterPro: IPR015168 This entry is found in the NMT1 and THI5 proteins. These proteins are proposed to be required for the biosynthesis of the pyrimidine moiety of thiamine [, , ]. They are regulated by thiamine []. ; PDB: 2X26_A 3E4R_A 3KSJ_A 3KSX_A 3UIF_A 4DDD_A 1US4_A 1US5_A 3IX1_B 2X7P_A ....
Probab=44.90 E-value=21 Score=29.55 Aligned_cols=62 Identities=21% Similarity=0.160 Sum_probs=39.4
Q ss_pred cccCCCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEE
Q 024773 42 TSASASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIII 108 (262)
Q Consensus 42 ~~~~~~l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiF 108 (262)
+.....|.||+|.+++.......+...|+++|++...+.. .... ...+...+ .-++.|+++.
T Consensus 85 i~~~~DLkGK~i~v~~~s~~~~~~~~~l~~~g~~~~~v~~---v~~~-~~~~~~al-~~g~vDa~~~ 146 (216)
T PF09084_consen 85 IKSPADLKGKKIGVSRGSSSEYFLRALLKKNGIDPDDVKI---VNLG-PPELAQAL-LSGQVDAAIL 146 (216)
T ss_dssp -SSGGGGTTSEEEESTTSHHHHHHHHHHHHTTT-GGGSEE---EES--HHHHHHHH-HTTSSSEEEE
T ss_pred CCCHHHhCCCEEEEecCcchhHHHHHHHHHhcccccccee---eeee-hhhhhhhh-hcCCCCEEEE
Confidence 4445678999999999555566788899999996654433 3322 22333344 3467888873
No 347
>PF02579 Nitro_FeMo-Co: Dinitrogenase iron-molybdenum cofactor; InterPro: IPR003731 This entry represents several Nif (B, X and Y) proteins, which are involved in the biosynthesis of the iron-molybdenum cofactor (FeMo-co) found in the dinitrogenase enzyme of the nitrogenase complex in nitrogen-fixing bacteria. The nitrogenase complex catalyses the reduction of atmospheric dinitrogen to ammonia, and is composed of an iron metalloprotein (dinitrogenase reductase; homodimer of NifH; IPR000392 from INTERPRO) and a Fe-Mo metalloprotein (dinitrogenase; heterotetramer of NifD and NifK; IPR000318 from INTERPRO). The pathway for the synthesis of the Fe-Mo cofactor involves several proteins, including NifB, NifE, NifH, NifN, NifQ, NifV and NifX. NifB appears to be an iron-sulphur source for FeMo-co biosynthesis, while NifX may be associated with the mature FeMo-co, in particular with the addition of homocitrate during the last step of biosynthesis []. The NifX protein shows sequence similarity with the C terminus of NifB [], as well as to the conserved protein MTH1175 from the archaeon Methanobacterium thermoautotrophicum, which displays a ribonuclease H-like motif of three layers, alpha/beta/alpha, with a single mixed beta-sheet [].; PDB: 2QTD_A 2KLA_A 1EO1_A 1P90_A 1RDU_A 2YX6_D 1O13_A 1T3V_A 2RE2_B 2WFB_A.
Probab=44.81 E-value=43 Score=23.74 Aligned_cols=45 Identities=16% Similarity=0.158 Sum_probs=30.3
Q ss_pred HHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhh
Q 024773 121 WKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELP 172 (262)
Q Consensus 121 l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~ 172 (262)
+...+.+-+-+..+|+.....|++. |+++... ...+.+..++.+.
T Consensus 49 l~~~~v~~li~~~iG~~~~~~L~~~------gI~v~~~-~~~~i~~~l~~~~ 93 (94)
T PF02579_consen 49 LAEEGVDVLICGGIGEGAFRALKEA------GIKVYQG-AGGDIEEALEAYL 93 (94)
T ss_dssp HHHTTESEEEESCSCHHHHHHHHHT------TSEEEES-TSSBHHHHHHHHH
T ss_pred HHHcCCCEEEEeCCCHHHHHHHHHC------CCEEEEc-CCCCHHHHHHHHh
Confidence 3344333333345899999999999 9998554 5677777776653
No 348
>PRK14187 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=44.81 E-value=1.7e+02 Score=26.39 Aligned_cols=163 Identities=9% Similarity=0.026 Sum_probs=84.8
Q ss_pred eEEEeCCCCChHHHH----HHHHhCCCcEEEeceEEeeeCCCchHHHHHHh---cCCCccEEEEeCHHH--HH--HHHHH
Q 024773 52 KVVVTRERGKNGKLI----KALAKHRIDCLELPLIQHAQGPDTDRLSSVLN---ADTIFDWIIITSPEA--GS--VFLEA 120 (262)
Q Consensus 52 ~VLitR~~~~~~~l~----~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~---~l~~~d~IiFTS~~a--V~--~f~~~ 120 (262)
-++....+..+..+. +..++.|+++..+-+-+. ...+++...+. +....|.|++--|-- ++ ..++.
T Consensus 36 aiI~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~---~~e~~l~~~I~~lN~d~~V~GIlvqlPLP~~i~~~~i~~~ 112 (294)
T PRK14187 36 IVILVGDDPASQLYVRNKQRKAEMLGLRSETILLPST---ISESSLIEKINELNNDDSVHGILVQLPVPNHIDKNLIINT 112 (294)
T ss_pred EEEEeCCChhHHHHHHHHHHHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCCHHHHHhc
Confidence 344444444444443 445567988776544221 12234444443 446788999987732 21 12222
Q ss_pred HHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCc-eeecCCCCCHHHHHHHhhhCC--CCccEEE-EEccCCChhhHHHH
Q 024773 121 WKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLD-VAFSPSKATGKILASELPKNG--KKKCTVL-YPASAKASNEIEEG 196 (262)
Q Consensus 121 l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~-~~~~p~~~t~e~L~~~l~~~~--~~g~~vL-~~~g~~~~~~L~~~ 196 (262)
+.. .+.+=++.+.-...|- . |-. ..+.| .|+.+.++.|..+. ..|++++ +=||+....-|...
T Consensus 113 I~p----~KDVDGl~~~n~g~l~-~------g~~~~~~~P--cTp~avi~lL~~~~i~l~Gk~vvViGrS~iVGkPla~l 179 (294)
T PRK14187 113 IDP----EKDVDGFHNENVGRLF-T------GQKKNCLIP--CTPKGCLYLIKTITRNLSGSDAVVIGRSNIVGKPMACL 179 (294)
T ss_pred cCc----ccCcccCChhhHHHHh-C------CCCCCCccC--cCHHHHHHHHHHhCCCCCCCEEEEECCCccchHHHHHH
Confidence 211 2223333333332221 1 321 22444 48888887777553 4567754 44566667789999
Q ss_pred HHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHH
Q 024773 197 LSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPS 238 (262)
Q Consensus 197 L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s 238 (262)
|.++|++|+-+.-++ . . +.+...+.|+|+-.-+.
T Consensus 180 L~~~~aTVt~chs~T--~---~---l~~~~~~ADIvVsAvGk 213 (294)
T PRK14187 180 LLGENCTVTTVHSAT--R---D---LADYCSKADILVAAVGI 213 (294)
T ss_pred HhhCCCEEEEeCCCC--C---C---HHHHHhhCCEEEEccCC
Confidence 999998886433222 1 1 22223577877765443
No 349
>PF00266 Aminotran_5: Aminotransferase class-V; InterPro: IPR000192 Aminotransferases share certain mechanistic features with other pyridoxal- phosphate dependent enzymes, such as the covalent binding of the pyridoxal- phosphate group to a lysine residue. On the basis of sequence similarity, these various enzymes can be grouped [] into subfamilies. This entry represents the class V aminotransferases and the related, though functionally distinct, cysteine desulfurases.; GO: 0008152 metabolic process; PDB: 3FFR_A 1N2T_B 1ELQ_A 1N31_A 1ELU_B 1QZ9_A 1VJO_A 3ISL_B 1BJO_B 1BJN_B ....
Probab=44.77 E-value=1e+02 Score=27.97 Aligned_cols=73 Identities=16% Similarity=0.151 Sum_probs=46.8
Q ss_pred CCccEEEEEccCCChhh--HHHHHHhCCCeeeEEeeeccccCCCChHHHHHHc-CCCCEEEEeCHHH-------HHHHHH
Q 024773 176 KKKCTVLYPASAKASNE--IEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA-LSIPVVAVASPSA-------VRSWVN 245 (262)
Q Consensus 176 ~~g~~vL~~~g~~~~~~--L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l-~~~d~ivFtS~s~-------~~~~~~ 245 (262)
.+|.++|+...+..... +...-+..|++|..+.+....... .+++.+.+ ++.+.|+|+-.++ ++.+.+
T Consensus 86 ~~g~~vl~~~~~~~s~~~~~~~~~~~~g~~v~~i~~~~~~~~~--~~~~~~~l~~~~~lv~~~~~~~~tG~~~pi~~I~~ 163 (371)
T PF00266_consen 86 KPGDEVLVTSNEHPSNRYPWEEIAKRKGAEVRVIPADPGGSLD--LEDLEEALNPDTRLVSISHVENSTGVRNPIEEIAK 163 (371)
T ss_dssp TTTCEEEEEESSHHHHHHHHHHHHHHTTEEEEEEEEGTTSSCS--HHHHHHHHHTTESEEEEESBETTTTBBSSHHHHHH
T ss_pred ccccccccccccccccccccccccccchhhhccccccccchhh--hhhhhhhhccccceEEeecccccccEEeeeceehh
Confidence 45788888888876544 445555789999888876543333 34454545 4888888876554 555555
Q ss_pred Hhccc
Q 024773 246 LISDT 250 (262)
Q Consensus 246 ~~~~~ 250 (262)
.++++
T Consensus 164 ~~~~~ 168 (371)
T PF00266_consen 164 LAHEY 168 (371)
T ss_dssp HHHHT
T ss_pred hhhcc
Confidence 55543
No 350
>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=44.75 E-value=1.1e+02 Score=23.24 Aligned_cols=80 Identities=15% Similarity=0.133 Sum_probs=54.8
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCC
Q 024773 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTP 127 (262)
Q Consensus 48 l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~ 127 (262)
..|..|+...+....+++.+...+.+.+++.+........+...++...+++.+.-+..++...+....-.+.+.+.|.+
T Consensus 25 ~~G~~vi~lG~~vp~e~~~~~a~~~~~d~V~iS~~~~~~~~~~~~~~~~L~~~~~~~i~i~~GG~~~~~~~~~~~~~G~d 104 (122)
T cd02071 25 DAGFEVIYTGLRQTPEEIVEAAIQEDVDVIGLSSLSGGHMTLFPEVIELLRELGAGDILVVGGGIIPPEDYELLKEMGVA 104 (122)
T ss_pred HCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEcccchhhHHHHHHHHHHHHhcCCCCCEEEEECCCCHHHHHHHHHCCCC
Confidence 46889999998888889999999999999988877654433334444445444333677777765555545556666654
No 351
>PRK00676 hemA glutamyl-tRNA reductase; Validated
Probab=44.71 E-value=51 Score=30.30 Aligned_cols=62 Identities=11% Similarity=0.072 Sum_probs=39.3
Q ss_pred CCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHH-HHHHhcCCCccEEEEe
Q 024773 47 SNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRL-SSVLNADTIFDWIIIT 109 (262)
Q Consensus 47 ~l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l-~~~l~~l~~~d~IiFT 109 (262)
.+.|++||+....+-+....+.|.++|+.-+.+---+... ...+.+ ...+.-...+|+||+.
T Consensus 171 ~l~~k~vLvIGaGem~~l~a~~L~~~g~~~i~v~nRt~~~-~~~~~~~~~~~~~~~~~DvVIs~ 233 (338)
T PRK00676 171 KSKKASLLFIGYSEINRKVAYYLQRQGYSRITFCSRQQLT-LPYRTVVREELSFQDPYDVIFFG 233 (338)
T ss_pred CccCCEEEEEcccHHHHHHHHHHHHcCCCEEEEEcCCccc-cchhhhhhhhhhcccCCCEEEEc
Confidence 4779999999998888899999999997533322111111 112222 1222234689999984
No 352
>cd06272 PBP1_hexuronate_repressor_like Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, all of which are a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor for the hexuronate utilization operon from Bacillus species and its close homologs from other bacteria, 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 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
Probab=44.65 E-value=74 Score=26.78 Aligned_cols=48 Identities=17% Similarity=0.106 Sum_probs=32.7
Q ss_pred HHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChhHHHHH
Q 024773 95 SVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAGTASIF 142 (262)
Q Consensus 95 ~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~Ta~~L 142 (262)
..+.+-...|+|+.++-......+..+.+.+. +++.+++.+......+
T Consensus 165 ~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~~vp~dv~vvg~d~~~~~~~ 215 (261)
T cd06272 165 KLLKESDLPTAIICGSYDIALGVLSALNKQGISIPEDIEIISYDNIPQMAI 215 (261)
T ss_pred HHHcCCCCCCEEEECCcHHHHHHHHHHHHhCCCCCCceEEEeeCChhHHhh
Confidence 34433345788888887766677777777775 4788888887655444
No 353
>PRK06125 short chain dehydrogenase; Provisional
Probab=44.52 E-value=1.6e+02 Score=24.83 Aligned_cols=33 Identities=12% Similarity=0.085 Sum_probs=25.5
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEe
Q 024773 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLEL 79 (262)
Q Consensus 47 ~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~ 79 (262)
.+.|++++||..... ...+++.|.++|++|...
T Consensus 4 ~~~~k~vlItG~~~giG~~ia~~l~~~G~~V~~~ 37 (259)
T PRK06125 4 HLAGKRVLITGASKGIGAAAAEAFAAEGCHLHLV 37 (259)
T ss_pred CCCCCEEEEeCCCchHHHHHHHHHHHcCCEEEEE
Confidence 467899999987543 467888899999976643
No 354
>PRK10653 D-ribose transporter subunit RbsB; Provisional
Probab=44.47 E-value=1.3e+02 Score=26.15 Aligned_cols=35 Identities=17% Similarity=0.106 Sum_probs=18.4
Q ss_pred CccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeCh
Q 024773 102 IFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGA 136 (262)
Q Consensus 102 ~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~ 136 (262)
+.++|+.++-.....+.+.+.+.+..++.|++.+.
T Consensus 207 ~~~ai~~~~d~~A~g~l~al~~~G~~dv~vig~d~ 241 (295)
T PRK10653 207 DVQAVFAQNDEMALGALRALQTAGKSDVMVVGFDG 241 (295)
T ss_pred CcCEEEECCChhHHHHHHHHHHcCCCceEEEEeCC
Confidence 35555555555555555555555544455555543
No 355
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=44.46 E-value=82 Score=29.29 Aligned_cols=76 Identities=13% Similarity=0.275 Sum_probs=43.7
Q ss_pred EEEEccCCChhhHHH----HHH--hCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHHH-------HHHHHHHh
Q 024773 181 VLYPASAKASNEIEE----GLS--NRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPSA-------VRSWVNLI 247 (262)
Q Consensus 181 vL~~~g~~~~~~L~~----~L~--~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s~-------~~~~~~~~ 247 (262)
|+|-..-+..+.+.+ .++ ..|++ +.+|.... ....++.+.+...|+++|-||.- +..|++.+
T Consensus 252 IvY~S~~GnTe~mA~~ia~g~~~~~~g~~---v~~~~~~~--~~~~~i~~~~~~~d~ii~GspT~~~~~~~~~~~~l~~l 326 (394)
T PRK11921 252 ILYDTMWNSTRRMAEAIAEGIKKANKDVT---VKLYNSAK--SDKNDIITEVFKSKAILVGSSTINRGILSSTAAILEEI 326 (394)
T ss_pred EEEECCchHHHHHHHHHHHHHhhcCCCCe---EEEEECCC--CCHHHHHHHHHhCCEEEEECCCcCccccHHHHHHHHHh
Confidence 444444444555555 444 34443 44554322 22344554455799999999983 45566665
Q ss_pred cccCCCCCeEEEEC
Q 024773 248 SDTEQWSNSVACIA 261 (262)
Q Consensus 248 ~~~~~~~~~i~~IG 261 (262)
....+.+.+++++|
T Consensus 327 ~~~~~~~K~~a~FG 340 (394)
T PRK11921 327 KGLGFKNKKAAAFG 340 (394)
T ss_pred hccCcCCCEEEEEe
Confidence 55446678888887
No 356
>TIGR00537 hemK_rel_arch HemK-related putative methylase. The gene hemK from E. coli was found to contribute to heme biosynthesis and originally suggested to be protoporphyrinogen oxidase (Medline 95189105). Functional analysis of the nearest homolog in Saccharomyces cerevisiae, YNL063w, finds it is not protoporphyrinogen oxidase and sequence analysis suggests that HemK homologs have S-adenosyl-methionine-dependent methyltransferase activity (Medline 99237242). Homologs are found, usually in a single copy, in nearly all completed genomes, but varying somewhat in apparent domain architecture. This model represents an archaeal and eukaryotic protein family that lacks an N-terminal domain found in HemK and its eubacterial homologs. It is found in a single copy in the first six completed archaeal and eukaryotic genomes.
Probab=44.46 E-value=58 Score=26.35 Aligned_cols=49 Identities=20% Similarity=0.168 Sum_probs=34.9
Q ss_pred HHHHHHhhhCCCCccEEEEEccC-CChhhHHHHHHhCCCeeeEEeeeccc
Q 024773 165 KILASELPKNGKKKCTVLYPASA-KASNEIEEGLSNRGFEVVRLNTYTTE 213 (262)
Q Consensus 165 e~L~~~l~~~~~~g~~vL~~~g~-~~~~~L~~~L~~~G~~v~~i~vY~~~ 213 (262)
+.+++.+.....+|+++++.... .+.+++.+.|++.|+.++.+.-|..-
T Consensus 120 ~~~l~~~~~~Lk~gG~~~~~~~~~~~~~~~~~~l~~~gf~~~~~~~~~~~ 169 (179)
T TIGR00537 120 DRFLDELPEILKEGGRVQLIQSSLNGEPDTFDKLDERGFRYEIVAERGLF 169 (179)
T ss_pred HHHHHhHHHhhCCCCEEEEEEeccCChHHHHHHHHhCCCeEEEEEEeecC
Confidence 45555555556677777665444 44778899999999999888887753
No 357
>cd00615 Orn_deC_like Ornithine decarboxylase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD corresponds to ornithine decarboxylase (ODC), arginine decarboxylase (ADC) and lysine decarboxylase (LDC). ODC is a dodecamer composed of six homodimers and catalyzes the decarboxylation of tryptophan. ADC catalyzes the decarboxylation of arginine and LDC catalyzes the decarboxylation of lysine. Members of this family are widely found in all three forms of life.
Probab=44.42 E-value=2.2e+02 Score=24.96 Aligned_cols=31 Identities=19% Similarity=0.171 Sum_probs=15.6
Q ss_pred CCccEEEEEccCCChhhHHHHHHhCCCeeeEEe
Q 024773 176 KKKCTVLYPASAKASNEIEEGLSNRGFEVVRLN 208 (262)
Q Consensus 176 ~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~ 208 (262)
.+|.+|++.+.... .....+...|+++..+.
T Consensus 97 ~~gd~Vlv~~~~h~--s~~~~~~~~g~~~~~v~ 127 (294)
T cd00615 97 GPGDKILIDRNCHK--SVINGLVLSGAVPVYLK 127 (294)
T ss_pred CCCCEEEEeCCchH--HHHHHHHHCCCEEEEec
Confidence 34566666655432 23444555565554443
No 358
>PRK12359 flavodoxin FldB; Provisional
Probab=44.34 E-value=1.3e+02 Score=24.66 Aligned_cols=87 Identities=8% Similarity=0.050 Sum_probs=39.4
Q ss_pred ecCCCCCHHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHH-----cCCCCE
Q 024773 157 FSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQ-----ALSIPV 231 (262)
Q Consensus 157 ~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~-----l~~~d~ 231 (262)
+.....+.+.+++.|.+......--++.-.+.. ++.|.+...-+.-.++|.....+......... +.+..+
T Consensus 7 Y~S~TGNTe~vAe~I~~~lg~~~v~v~~i~~~~----~~~l~~yD~iIlG~pTw~~Gel~~d~~~~~~~l~~~dl~gK~v 82 (172)
T PRK12359 7 YGSSTCYTEMAAEKIRDIIGEELVDLHNLKDDP----PKLMEQYDVLILGIPTWDFGEIQEDWEAVWDQLDDLNLEGKIV 82 (172)
T ss_pred EECCCCHHHHHHHHHHHHhCCCeEEEEEcccCC----hhHHccCCEEEEEecccCCCcCcHHHHHHHHHHhhCCCCCCEE
Confidence 445567788888887765421111222222222 23454444444344444332222222222111 235567
Q ss_pred EEEeCHHHH---HHHHHHh
Q 024773 232 VAVASPSAV---RSWVNLI 247 (262)
Q Consensus 232 ivFtS~s~~---~~~~~~~ 247 (262)
.+|.+.... ++|...+
T Consensus 83 AlFG~Gd~~~y~~~f~~a~ 101 (172)
T PRK12359 83 ALYGMGDQLGYGEWFLDAL 101 (172)
T ss_pred EEEeCCCCccchHHHHHHH
Confidence 788776643 5555433
No 359
>PRK06550 fabG 3-ketoacyl-(acyl-carrier-protein) reductase; Provisional
Probab=44.32 E-value=1.4e+02 Score=24.65 Aligned_cols=32 Identities=9% Similarity=0.044 Sum_probs=25.2
Q ss_pred CCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEe
Q 024773 48 NSNPKVVVTRERGK-NGKLIKALAKHRIDCLEL 79 (262)
Q Consensus 48 l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~ 79 (262)
+.|++++||..... ...+.+.|.+.|++++..
T Consensus 3 l~~k~~lVtGas~~iG~~ia~~l~~~G~~v~~~ 35 (235)
T PRK06550 3 FMTKTVLITGAASGIGLAQARAFLAQGAQVYGV 35 (235)
T ss_pred CCCCEEEEcCCCchHHHHHHHHHHHCCCEEEEE
Confidence 66899999987553 467889999999987653
No 360
>PF02502 LacAB_rpiB: Ribose/Galactose Isomerase; InterPro: IPR003500 This entry represents the sugar isomerase enzymes ribose 5-phosphate isomerase B (rpiB), galactose isomerase subunit A (LacA) and galactose isomerase subunit B (LacB). Galactose-6-phosphate isomerase (5.3.1.26 from EC) is a heteromultimeric protein consisting of subunits LacA and LacB, and catalyses the conversion of D-galactose 6-phosphate to D-tagatose and 6-phosphate in the tagatose 6-phosphate pathway of lactose catabolism []. Galactose-6-phosphate isomerase is induced by galactose or lactose. This entry represents the LacB subunit. Ribose 5-phosphate isomerase (5.3.1.6 from EC) forms a homodimer and catalyses the interconversion of D-ribose 5-phosphate and D-ribulose 5-phosphate in the non-oxidative branch of the pentose phosphate pathway. This reaction permits the synthesis of ribose from other sugars, as well as the recycling of sugars from nucleotide breakdown. Two unrelated enzymes can catalyse this reaction: RpiA (found in most organisms) and RpiB (found in some bacteria and eukaryotes). RpiB is also involved in metabolism of the rare sugar, allose, in addition to ribose sugars. The structures of RpiA and RpiB are distinct, RpiB having a Rossmann-type alpha/beta/alpha sandwich topology [].; GO: 0005975 carbohydrate metabolic process; PDB: 3HEE_A 3HE8_A 3PH3_B 3PH4_B 3ONO_A 4EM8_B 3S5P_B 1O1X_A 2BES_D 2VVP_D ....
Probab=44.12 E-value=1.3e+02 Score=23.87 Aligned_cols=101 Identities=15% Similarity=0.143 Sum_probs=56.1
Q ss_pred hHHHHHHHHhCCCcEEEeceEEeeeCCCchH----HHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcE-EEEeCh
Q 024773 62 NGKLIKALAKHRIDCLELPLIQHAQGPDTDR----LSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVR-IGVVGA 136 (262)
Q Consensus 62 ~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~----l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~-i~aVG~ 136 (262)
.+.+.+.|++.|++|..+-.....+ .++.+ +...+ .-+++|.-|+-..+++-..+.. ...++++ ..|--+
T Consensus 14 K~~i~~~L~~~g~eV~D~G~~~~~~-~dy~~~a~~va~~V-~~~~~d~GIliCgtGiG~~iaA---NK~~GIrAa~~~d~ 88 (140)
T PF02502_consen 14 KEAIKEYLEEKGYEVIDFGTYSEDS-VDYPDFAEKVAEAV-ASGEADRGILICGTGIGMSIAA---NKVPGIRAALCSDP 88 (140)
T ss_dssp HHHHHHHHHHTTEEEEEESESSTST---HHHHHHHHHHHH-HTTSSSEEEEEESSSHHHHHHH---HTSTT--EEE-SSH
T ss_pred HHHHHHHHHHCCCEEEEeCCCCCCC-CCHHHHHHHHHHHH-HcccCCeEEEEcCCChhhhhHh---hcCCCEEEEeeCCH
Confidence 3578889999999999999888663 34332 22223 2345665555555555444332 1223444 346677
Q ss_pred hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhh
Q 024773 137 GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELP 172 (262)
Q Consensus 137 ~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~ 172 (262)
.+++..+++- .-++..++...+.+.++..|.
T Consensus 89 ~~A~~ar~hN-----daNVL~lG~~~~~~~~a~~i~ 119 (140)
T PF02502_consen 89 YSAKMAREHN-----DANVLCLGARVIGEELAKEIV 119 (140)
T ss_dssp HHHHHHHHTT-------SEEEEETTTSHHHHHHHHH
T ss_pred HHHHHHHHhc-----CCcEEEechhhccHHHHHHHH
Confidence 7777777772 333334556666666665554
No 361
>PRK06182 short chain dehydrogenase; Validated
Probab=44.06 E-value=2e+02 Score=24.51 Aligned_cols=78 Identities=12% Similarity=0.104 Sum_probs=45.2
Q ss_pred CCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEE--EEeCHHHHHHHHHHHHHc-
Q 024773 49 SNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWI--IITSPEAGSVFLEAWKEA- 124 (262)
Q Consensus 49 ~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~I--iFTS~~aV~~f~~~l~~~- 124 (262)
.+++|+||..... ...+++.|.+.|++|...- .+.+.++... . ...+++ =+++...++.+++.+.+.
T Consensus 2 ~~k~vlItGasggiG~~la~~l~~~G~~V~~~~-------r~~~~l~~~~-~-~~~~~~~~Dv~~~~~~~~~~~~~~~~~ 72 (273)
T PRK06182 2 QKKVALVTGASSGIGKATARRLAAQGYTVYGAA-------RRVDKMEDLA-S-LGVHPLSLDVTDEASIKAAVDTIIAEE 72 (273)
T ss_pred CCCEEEEECCCChHHHHHHHHHHHCCCEEEEEe-------CCHHHHHHHH-h-CCCeEEEeeCCCHHHHHHHHHHHHHhc
Confidence 4789999987653 5678999999998876321 1222232221 1 122222 347888888887766543
Q ss_pred CCCCcEEEEeC
Q 024773 125 GTPNVRIGVVG 135 (262)
Q Consensus 125 ~~~~~~i~aVG 135 (262)
+.-+.-|.+.|
T Consensus 73 ~~id~li~~ag 83 (273)
T PRK06182 73 GRIDVLVNNAG 83 (273)
T ss_pred CCCCEEEECCC
Confidence 22234444444
No 362
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=44.05 E-value=2.3e+02 Score=25.13 Aligned_cols=138 Identities=17% Similarity=0.111 Sum_probs=72.7
Q ss_pred CccEEEEe-CHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHH-HhhhhcCCCCce--eecCC-CCCHHHHHHHhhhCCC
Q 024773 102 IFDWIIIT-SPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFE-EVIQSSKCSLDV--AFSPS-KATGKILASELPKNGK 176 (262)
Q Consensus 102 ~~d~IiFT-S~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~-~~~~~~~~G~~~--~~~p~-~~t~e~L~~~l~~~~~ 176 (262)
+.++|+=. |..........+.+. ++++++.|..+ ..+. +. +..- -..|. ......+++.+....
T Consensus 66 ~v~~viG~~~s~~~~a~~~~~~~~---~ip~i~~~~~~-~~l~~~~------~~~~~~r~~p~~~~~~~a~~~~~~~~~- 134 (350)
T cd06366 66 PVVAIIGPQCSSVAEFVAEVANEW---NVPVLSFAATS-PSLSSRL------QYPYFFRTTPSDSSQNPAIAALLKKFG- 134 (350)
T ss_pred CceEEECCCcHHHHHHHHHHhhcC---CeeEEeccCCC-ccccccc------cCCceEEcccchHhHHHHHHHHHHHCC-
Confidence 56666643 333434444444333 56666666533 3331 11 2211 12232 234566666665432
Q ss_pred CccEEEEEccC-----CChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcC--CCCEEEE-eCHHHHHHHHHHhc
Q 024773 177 KKCTVLYPASA-----KASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQAL--SIPVVAV-ASPSAVRSWVNLIS 248 (262)
Q Consensus 177 ~g~~vL~~~g~-----~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~--~~d~ivF-tS~s~~~~~~~~~~ 248 (262)
-+++.++..+ ...+.+.+.+++.|++|.....|............+..+. +.|+|++ .++..+..|++.+.
T Consensus 135 -~~~v~ii~~~~~~g~~~~~~~~~~~~~~g~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~dvvi~~~~~~~~~~~~~~a~ 213 (350)
T cd06366 135 -WRRVATIYEDDDYGSGGLPDLVDALQEAGIEISYRAAFPPSANDDDITDALKKLKEKDSRVIVVHFSPDLARRVFCEAY 213 (350)
T ss_pred -CcEEEEEEEcCcccchhHHHHHHHHHHcCCEEEEEeccCCCCChhHHHHHHHHHhcCCCeEEEEECChHHHHHHHHHHH
Confidence 2566666433 2356788899999998876666664321122222333342 6777775 55566777888776
Q ss_pred ccC
Q 024773 249 DTE 251 (262)
Q Consensus 249 ~~~ 251 (262)
+.+
T Consensus 214 ~~g 216 (350)
T cd06366 214 KLG 216 (350)
T ss_pred HcC
Confidence 654
No 363
>COG2072 TrkA Predicted flavoprotein involved in K+ transport [Inorganic ion transport and metabolism]
Probab=44.04 E-value=45 Score=31.66 Aligned_cols=51 Identities=8% Similarity=-0.040 Sum_probs=38.7
Q ss_pred hhhhCCCCCCCccchhccccccccCCCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEe
Q 024773 21 RLRLNRPLPFQFSRIQASSDATSASASNSNPKVVVTRERGKNGKLIKALAKHRIDCLEL 79 (262)
Q Consensus 21 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~ 79 (262)
..+.+.+.-+.-+|-+- ..+.||+|+|......+..++..|.+.|.+|...
T Consensus 154 ~~~f~g~~~HS~~~~~~--------~~~~GKrV~VIG~GaSA~di~~~l~~~ga~vt~~ 204 (443)
T COG2072 154 LDEFKGRILHSADWPNP--------EDLRGKRVLVIGAGASAVDIAPELAEVGASVTLS 204 (443)
T ss_pred ccCCCceEEchhcCCCc--------cccCCCeEEEECCCccHHHHHHHHHhcCCeeEEE
Confidence 33434444445566666 7899999999999988999999999999777643
No 364
>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=43.94 E-value=1.3e+02 Score=25.34 Aligned_cols=38 Identities=16% Similarity=0.069 Sum_probs=26.9
Q ss_pred CCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChhH
Q 024773 101 TIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAGT 138 (262)
Q Consensus 101 ~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~T 138 (262)
...|+|+..+-..+..+...+.+.+. +++.|++.+...
T Consensus 177 ~~~~ai~~~~d~~A~g~~~al~~~g~~ip~dv~v~g~d~~~ 217 (264)
T cd06274 177 RLPRALFTTSYTLLEGVLRFLRERPGLAPSDLRIATFDDHP 217 (264)
T ss_pred CCCcEEEEcChHHHHHHHHHHHHcCCCCCcceEEEEeCCHH
Confidence 35788888887766677777777765 367777777643
No 365
>PRK06015 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=43.90 E-value=1.6e+02 Score=24.89 Aligned_cols=32 Identities=25% Similarity=0.249 Sum_probs=24.2
Q ss_pred CeEEEeCCCCC--hHHHHHHHHhCCCcEEEeceE
Q 024773 51 PKVVVTRERGK--NGKLIKALAKHRIDCLELPLI 82 (262)
Q Consensus 51 ~~VLitR~~~~--~~~l~~~L~~~G~~v~~~P~~ 82 (262)
+-|.|.|.... ..++.+.|.+.|+.++++++-
T Consensus 5 ~vv~Vir~~~~~~a~~ia~al~~gGi~~iEit~~ 38 (201)
T PRK06015 5 PVIPVLLIDDVEHAVPLARALAAGGLPAIEITLR 38 (201)
T ss_pred CEEEEEEcCCHHHHHHHHHHHHHCCCCEEEEeCC
Confidence 34567777653 347889999999999998874
No 366
>COG2358 Imp TRAP-type uncharacterized transport system, periplasmic component [General function prediction only]
Probab=43.63 E-value=1.3e+02 Score=27.42 Aligned_cols=118 Identities=13% Similarity=0.082 Sum_probs=75.3
Q ss_pred hhhhCCCCCCC-ccchhccccccccCCCCCCCeEEEeCCCCCh-HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh
Q 024773 21 RLRLNRPLPFQ-FSRIQASSDATSASASNSNPKVVVTRERGKN-GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN 98 (262)
Q Consensus 21 ~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~g~~VLitR~~~~~-~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~ 98 (262)
.||---.++.. +.|+.+-.+-...-.+|.||||-+--+..+. -.....|+.+|++..++.+- .. ..+.+ ....+
T Consensus 107 ~lr~v~~lype~~~vv~r~d~~Ikti~DL~GKrV~iG~~gSgt~~~a~~il~a~Gi~~~~~~~~-~~-~~~a~-~~~~l- 182 (321)
T COG2358 107 NLRAVAALYPEPFHVVTRKDAGIKTIADLKGKRVAIGPPGSGTEATARQILEALGITYDDYELD-LG-LGDAE-SADAL- 182 (321)
T ss_pred chhhheecccceEEEEEecCCCcceehhcCCCEEeecCCCCccHHHHHHHHHHcCCCCcchhhh-hh-cCchh-hHHHh-
Confidence 34444444433 6777775555556677999999999776544 46777889999999988874 11 12211 12233
Q ss_pred cCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHh
Q 024773 99 ADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEV 145 (262)
Q Consensus 99 ~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~ 145 (262)
..+..|+.+++++.-.-+..+..... +++++-|-.--.+.|.+.
T Consensus 183 ~~g~iDA~~~~~G~p~~ai~el~~~~---~i~lv~i~~e~i~kl~~~ 226 (321)
T COG2358 183 KNGTIDAAFYVAGVPNPAISELATTC---DIVLVPISGEEIDKLEEK 226 (321)
T ss_pred hCCcccEEEEecCCCCccHHHHHhhC---CeEEEeCCHHHHHHHHhc
Confidence 45789999999987766664432222 677776655555555554
No 367
>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=43.60 E-value=1.1e+02 Score=25.92 Aligned_cols=76 Identities=17% Similarity=0.088 Sum_probs=42.1
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChhH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAGT 138 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~T 138 (262)
-+.+.++++|..+.....+......+ ...+...++.-.+.++|++++......++..+.+.+. .++.+++.+...
T Consensus 146 gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~~~~a~g~~~~l~~~g~~ip~~i~ii~~d~~~ 225 (275)
T cd06295 146 GYREALAEAGLPLDPRLVAPGDFTEESGRAAMRALLERGPDFDAVFAASDLMALGALRALREAGRRVPEDVAVVGFDDIP 225 (275)
T ss_pred HHHHHHHHcCCCCChhhEEeccCCHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHHHhCCCCccceEEEeeCCch
Confidence 35666777775443222221111101 1224444433346888888887766667777777665 367788888654
Q ss_pred H
Q 024773 139 A 139 (262)
Q Consensus 139 a 139 (262)
.
T Consensus 226 ~ 226 (275)
T cd06295 226 L 226 (275)
T ss_pred H
Confidence 3
No 368
>PRK07370 enoyl-(acyl carrier protein) reductase; Validated
Probab=43.50 E-value=2.1e+02 Score=24.42 Aligned_cols=86 Identities=9% Similarity=-0.028 Sum_probs=47.3
Q ss_pred CCCCeEEEeCCC---CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc-CCCccE--EEEeCHHHHHHHHHHH
Q 024773 48 NSNPKVVVTRER---GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA-DTIFDW--IIITSPEAGSVFLEAW 121 (262)
Q Consensus 48 l~g~~VLitR~~---~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~-l~~~d~--IiFTS~~aV~~f~~~l 121 (262)
+.||+++||... .=...+++.|.+.|++|... ++-......++..+.+.. .....+ +=+++..+++.+++.+
T Consensus 4 l~~k~~lItGas~~~GIG~aia~~la~~G~~v~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dl~d~~~v~~~~~~~ 81 (258)
T PRK07370 4 LTGKKALVTGIANNRSIAWGIAQQLHAAGAELGIT--YLPDEKGRFEKKVRELTEPLNPSLFLPCDVQDDAQIEETFETI 81 (258)
T ss_pred cCCcEEEEeCCCCCCchHHHHHHHHHHCCCEEEEE--ecCcccchHHHHHHHHHhccCcceEeecCcCCHHHHHHHHHHH
Confidence 568999999863 44678999999999998543 111100011111112211 111111 1258889999988877
Q ss_pred HHc-CCCCcEEEEeC
Q 024773 122 KEA-GTPNVRIGVVG 135 (262)
Q Consensus 122 ~~~-~~~~~~i~aVG 135 (262)
.+. +.-+.-|.+.|
T Consensus 82 ~~~~g~iD~lv~nag 96 (258)
T PRK07370 82 KQKWGKLDILVHCLA 96 (258)
T ss_pred HHHcCCCCEEEEccc
Confidence 553 32234444444
No 369
>PRK10444 UMP phosphatase; Provisional
Probab=43.31 E-value=1.7e+02 Score=25.26 Aligned_cols=82 Identities=13% Similarity=0.190 Sum_probs=47.8
Q ss_pred CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCC--ccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChh
Q 024773 60 GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTI--FDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAG 137 (262)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~--~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~ 137 (262)
....+..+.|++.|..+..+ +..+.....++.+.+..++- -+--|+||..++..++.. . ...+++.+|+.
T Consensus 20 p~a~~~l~~L~~~g~~~~~~---Tn~~~~~~~~~~~~l~~~G~~~~~~~i~ts~~~~~~~L~~---~--~~~~v~~~g~~ 91 (248)
T PRK10444 20 PGAAEFLHRILDKGLPLVLL---TNYPSQTGQDLANRFATAGVDVPDSVFYTSAMATADFLRR---Q--EGKKAYVIGEG 91 (248)
T ss_pred ccHHHHHHHHHHCCCeEEEE---eCCCCCCHHHHHHHHHHcCCCCCHhhEecHHHHHHHHHHh---C--CCCEEEEEcCH
Confidence 34566777788888666543 22222222344444444321 123447998888777653 2 23568988864
Q ss_pred -HHHHHHHhhhhcCCCCce
Q 024773 138 -TASIFEEVIQSSKCSLDV 155 (262)
Q Consensus 138 -Ta~~L~~~~~~~~~G~~~ 155 (262)
..+.|++. |+.+
T Consensus 92 ~l~~~l~~~------g~~~ 104 (248)
T PRK10444 92 ALIHELYKA------GFTI 104 (248)
T ss_pred HHHHHHHHC------cCEe
Confidence 66778877 8763
No 370
>TIGR02667 moaB_proteo molybdenum cofactor biosynthesis protein B, proteobacterial. This model represents the MoaB protein molybdopterin biosynthesis regions in Proteobacteria. This crystallized but incompletely characterized protein is thought to be involved in, though not required for, early steps in molybdopterin biosynthesis. It may bind a molybdopterin precursor. A distinctive conserved motif PCN near the C-terminus helps distinguish this clade from other homologs, including sets of proteins designated MogA.
Probab=43.23 E-value=1e+02 Score=24.94 Aligned_cols=50 Identities=16% Similarity=0.133 Sum_probs=33.5
Q ss_pred ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc---CCCccEEEEeCHHHH
Q 024773 61 KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA---DTIFDWIIITSPEAG 114 (262)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~---l~~~d~IiFTS~~aV 114 (262)
....+...|++.|+++... .+.+ .|.+.+.+.+++ ..++|.|+.|-..++
T Consensus 23 n~~~l~~~L~~~G~~v~~~---~iv~-Dd~~~i~~~l~~~~~~~~~DlVIttGGtg~ 75 (163)
T TIGR02667 23 SGQYLVERLTEAGHRLADR---AIVK-DDIYQIRAQVSAWIADPDVQVILITGGTGF 75 (163)
T ss_pred cHHHHHHHHHHCCCeEEEE---EEcC-CCHHHHHHHHHHHHhcCCCCEEEECCCcCC
Confidence 3457888899999887654 3333 244556666654 257999998877665
No 371
>PRK09271 flavodoxin; Provisional
Probab=43.22 E-value=65 Score=25.79 Aligned_cols=12 Identities=17% Similarity=0.277 Sum_probs=5.7
Q ss_pred CCCHHHHHHHhh
Q 024773 161 KATGKILASELP 172 (262)
Q Consensus 161 ~~t~e~L~~~l~ 172 (262)
..+.+.+++.|.
T Consensus 11 tGnTe~~A~~ia 22 (160)
T PRK09271 11 SGNTREVAREIE 22 (160)
T ss_pred CchHHHHHHHHH
Confidence 344555554443
No 372
>cd03145 GAT1_cyanophycinase Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase. Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase. This group contains proteins similar to the extracellular cyanophycinases from Pseudomonas anguilliseptica BI (CphE) and Synechocystis sp. PCC 6803 CphB. Cyanophycinases are intracellular exopeptidases which hydrolyze the polymer cyanophycin (multi L-arginyl-poly-L-aspartic acid) to the dipeptide beta-Asp-Arg. Cyanophycinase is believed to be a serine-type exopeptidase having a Ser-His-Glu catalytic triad which differs from the Cys-His-Glu catalytic triad typical of GATase1 domains by having a Ser in place of the reactive Cys at the nucleophile elbow.
Probab=43.18 E-value=61 Score=27.52 Aligned_cols=65 Identities=11% Similarity=0.097 Sum_probs=39.8
Q ss_pred CCeEEEeCCC-----CChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHH
Q 024773 50 NPKVVVTRER-----GKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVF 117 (262)
Q Consensus 50 g~~VLitR~~-----~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f 117 (262)
+.+|++.... ...+.+.+.+++.|++....+........+.+++.+ .+.+.|+|+|+-.+..+..
T Consensus 29 ~~~i~~iptA~~~~~~~~~~~~~~~~~lG~~~v~~~~~~~~~~a~~~~~~~---~l~~ad~I~~~GG~~~~~~ 98 (217)
T cd03145 29 GARIVVIPAASEEPAEVGEEYRDVFERLGAREVEVLVIDSREAANDPEVVA---RLRDADGIFFTGGDQLRIT 98 (217)
T ss_pred CCcEEEEeCCCcChhHHHHHHHHHHHHcCCceeEEeccCChHHcCCHHHHH---HHHhCCEEEEeCCcHHHHH
Confidence 4566655443 335668888899998755544433222222333333 3578999999999986543
No 373
>cd06451 AGAT_like Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT), serine-glyoxylate aminotransferase (SGAT), and 3-hydroxykynurenine transaminase (HKT). AGAT is a homodimeric protein, which catalyses the transamination of glyoxylate to glycine, and SGAT converts serine and glyoxylate to hydroxypyruvate and glycine. HKT catalyzes the PLP-dependent transamination of 3-hydroxykynurenine, a potentially toxic metabolite of the kynurenine pathway.
Probab=43.12 E-value=2.4e+02 Score=25.10 Aligned_cols=71 Identities=11% Similarity=0.035 Sum_probs=34.9
Q ss_pred HHHHHHhhhCCCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHc-C-CCCEEEEeCH
Q 024773 165 KILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA-L-SIPVVAVASP 237 (262)
Q Consensus 165 e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l-~-~~d~ivFtS~ 237 (262)
+++.-.+.....+|+++++.....-...+...++..|+++..+.+.... ....+.+.+.+ + +.+.|+++++
T Consensus 61 ~al~~~~~~~~~~g~~vl~~~~~~~~~~~~~~~~~~g~~~~~v~~~~~~--~~~~~~l~~~i~~~~~~~v~i~~~ 133 (356)
T cd06451 61 GAMEAALSNLLEPGDKVLVGVNGVFGDRWADMAERYGADVDVVEKPWGE--AVSPEEIAEALEQHDIKAVTLTHN 133 (356)
T ss_pred HHHHHHHHHhCCCCCEEEEecCCchhHHHHHHHHHhCCCeEEeecCCCC--CCCHHHHHHHHhccCCCEEEEecc
Confidence 3433333333345677777653322222445566677777776653221 12233444444 2 5566666665
No 374
>PRK07060 short chain dehydrogenase; Provisional
Probab=43.03 E-value=1.5e+02 Score=24.54 Aligned_cols=33 Identities=21% Similarity=0.113 Sum_probs=25.5
Q ss_pred CCCCCCeEEEeCCCC-ChHHHHHHHHhCCCcEEE
Q 024773 46 ASNSNPKVVVTRERG-KNGKLIKALAKHRIDCLE 78 (262)
Q Consensus 46 ~~l~g~~VLitR~~~-~~~~l~~~L~~~G~~v~~ 78 (262)
.++.|++++||.... -...+.+.|.+.|++|..
T Consensus 5 ~~~~~~~~lItGa~g~iG~~~a~~l~~~g~~V~~ 38 (245)
T PRK07060 5 FDFSGKSVLVTGASSGIGRACAVALAQRGARVVA 38 (245)
T ss_pred cccCCCEEEEeCCcchHHHHHHHHHHHCCCEEEE
Confidence 457789999998754 356788899999987653
No 375
>cd05212 NAD_bind_m-THF_DH_Cyclohyd_like NAD(P) binding domain of methylene-tetrahydrofolate dehydrogenase and methylene-tetrahydrofolate dehydrogenase/cyclohydrolase. NAD(P) binding domains of methylene-tetrahydrofolate dehydrogenase (m-THF DH) and m-THF DH/cyclohydrolase bifunctional enzymes (m-THF DH/cyclohydrolase). M-THF is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. In addition, most DHs also have an associated cyclohydrolase activity which catalyzes its hydrolysis to N10-formyltetrahydrofolate. m-THF DH is typically found as part of a multifunctional protein in eukaryotes. NADP-dependent m-THF DH in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional
Probab=42.99 E-value=88 Score=24.77 Aligned_cols=70 Identities=23% Similarity=0.181 Sum_probs=46.6
Q ss_pred CCHHHHHHHhhhCC--CCccEEEEE-ccCCChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHH
Q 024773 162 ATGKILASELPKNG--KKKCTVLYP-ASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPS 238 (262)
Q Consensus 162 ~t~e~L~~~l~~~~--~~g~~vL~~-~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s 238 (262)
.+.+++++.+..+. ..|++++++ |+......|...|.+.|+.|.-+.-+. . ++.+.....|+|+-..+.
T Consensus 10 ~t~~a~~~ll~~~~~~~~gk~v~VvGrs~~vG~pla~lL~~~gatV~~~~~~t-----~---~l~~~v~~ADIVvsAtg~ 81 (140)
T cd05212 10 PVAKAVKELLNKEGVRLDGKKVLVVGRSGIVGAPLQCLLQRDGATVYSCDWKT-----I---QLQSKVHDADVVVVGSPK 81 (140)
T ss_pred cHHHHHHHHHHHcCCCCCCCEEEEECCCchHHHHHHHHHHHCCCEEEEeCCCC-----c---CHHHHHhhCCEEEEecCC
Confidence 36778887776553 367776555 555668889999999998885554321 1 122334688988888777
Q ss_pred H
Q 024773 239 A 239 (262)
Q Consensus 239 ~ 239 (262)
.
T Consensus 82 ~ 82 (140)
T cd05212 82 P 82 (140)
T ss_pred C
Confidence 6
No 376
>PF12261 T_hemolysin: Thermostable hemolysin; InterPro: IPR022050 This family of proteins is found in bacteria. Proteins in this family are typically between 200 and 228 amino acids in length. T_hemolysin is a pore-forming toxin of bacteria, able to lyse erythrocytes from a number of mammalian species.
Probab=42.99 E-value=35 Score=28.39 Aligned_cols=37 Identities=14% Similarity=0.302 Sum_probs=27.8
Q ss_pred CCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHH
Q 024773 100 DTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIF 142 (262)
Q Consensus 100 l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L 142 (262)
..+++|++||....+++.+..+ ++....+|++..+.|
T Consensus 114 ~~g~~w~vfTaT~~lr~~~~rl------gl~~~~La~Ad~~rl 150 (179)
T PF12261_consen 114 QQGFEWVVFTATRQLRNLFRRL------GLPPTVLADADPSRL 150 (179)
T ss_pred HCCCCEEEEeCCHHHHHHHHHc------CCCceeccccCHhHc
Confidence 3689999999999999998865 334556666666555
No 377
>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=42.89 E-value=1.5e+02 Score=24.78 Aligned_cols=83 Identities=12% Similarity=0.059 Sum_probs=46.5
Q ss_pred CeEEEeCCCCC-------hHHHHHHHHhCCCcEEEeceEEeeeCCCc----hHHHHHHhcCCCccEEEEeCHHHHHHHHH
Q 024773 51 PKVVVTRERGK-------NGKLIKALAKHRIDCLELPLIQHAQGPDT----DRLSSVLNADTIFDWIIITSPEAGSVFLE 119 (262)
Q Consensus 51 ~~VLitR~~~~-------~~~l~~~L~~~G~~v~~~P~~~~~~~~~~----~~l~~~l~~l~~~d~IiFTS~~aV~~f~~ 119 (262)
++|++...... ..-+.+.+++.|..+... . ....+. +.+...+..-.+.++|+.++........+
T Consensus 116 ~~i~~i~~~~~~~~~~~R~~gf~~~~~~~~~~~~~~---~-~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~~~~a~~~~~ 191 (266)
T cd06278 116 RRIAFIGGPADTSTSRERERGFRDALAAAGVPVVVE---E-AGDYSYEGGYEAARRLLASRPRPDAIFCANDLLAIGVMD 191 (266)
T ss_pred ceEEEEcCCCcccchHHHHHHHHHHHHHcCCChhhh---c-cCCCCHHHHHHHHHHHHhcCCCCCEEEEcCcHHHHHHHH
Confidence 47777654322 133566677777663211 1 111111 23444454334688888888777777777
Q ss_pred HHHHc-CC---CCcEEEEeChh
Q 024773 120 AWKEA-GT---PNVRIGVVGAG 137 (262)
Q Consensus 120 ~l~~~-~~---~~~~i~aVG~~ 137 (262)
.+.+. +. +++.+++.+..
T Consensus 192 ~l~~~~~~~~p~di~i~~~d~~ 213 (266)
T cd06278 192 AARQEGGLRVPEDVSVIGFDDI 213 (266)
T ss_pred HHHHhcCCCCccceEEEEeCCh
Confidence 77664 33 36777887754
No 378
>PF04273 DUF442: Putative phosphatase (DUF442); InterPro: IPR005939 Although this domain is uncharacterised it seems likely that it performs a phosphatase function.; GO: 0016787 hydrolase activity; PDB: 2F46_A 3GXH_B 3GXG_B.
Probab=42.80 E-value=59 Score=24.66 Aligned_cols=69 Identities=14% Similarity=0.117 Sum_probs=33.3
Q ss_pred CeEEEeCCCCCh------HHHHHHHHhCCCcEEEeceEEeeeCC-CchHHHHHHhcCCCccEEEEeCHHHHHHHHH
Q 024773 51 PKVVVTRERGKN------GKLIKALAKHRIDCLELPLIQHAQGP-DTDRLSSVLNADTIFDWIIITSPEAGSVFLE 119 (262)
Q Consensus 51 ~~VLitR~~~~~------~~l~~~L~~~G~~v~~~P~~~~~~~~-~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~ 119 (262)
++|+-.||+... ..+.+..+++|...+++|+-.-.+.. +...+.+.+..+...=++.+-|.+=+..++.
T Consensus 29 ktVInlRpd~E~~~qp~~~~~~~~a~~~Gl~y~~iPv~~~~~~~~~v~~f~~~l~~~~~Pvl~hC~sG~Ra~~l~~ 104 (110)
T PF04273_consen 29 KTVINLRPDGEEPGQPSSAEEAAAAEALGLQYVHIPVDGGAITEEDVEAFADALESLPKPVLAHCRSGTRASALWA 104 (110)
T ss_dssp -EEEE-S-TTSTTT-T-HHCHHHHHHHCT-EEEE----TTT--HHHHHHHHHHHHTTTTSEEEE-SCSHHHHHHHH
T ss_pred cEEEECCCCCCCCCCCCHHHHHHHHHHcCCeEEEeecCCCCCCHHHHHHHHHHHHhCCCCEEEECCCChhHHHHHH
Confidence 578888987432 34667888999999999987643321 1234444455555444444445544444443
No 379
>COG2604 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=42.76 E-value=1.5e+02 Score=29.28 Aligned_cols=133 Identities=11% Similarity=-0.005 Sum_probs=74.9
Q ss_pred cEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHH-HHhhhCCCCccEEE
Q 024773 104 DWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILA-SELPKNGKKKCTVL 182 (262)
Q Consensus 104 d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~-~~l~~~~~~g~~vL 182 (262)
.+||..++=+.+--+..+++. .+...|+|.|. |...|.++ |+.||++-.- +...++ +.+.... ++.+.
T Consensus 226 ~aiIVSaGPSL~Kql~lLK~y-~~k~~IFcads-al~~L~k~------GIkPDyVc~l-d~~di~~e~~~n~~--~k~ip 294 (594)
T COG2604 226 PAIIVSAGPSLEKQLPLLKKY-QDKATIFCADS-ALPILAKH------GIKPDYVCSL-DPDDIAYEFFQNDF--NKDIP 294 (594)
T ss_pred ceEEEcCCcChhhccHHHHhc-ccceEEEECCC-cchHHHhc------CCCCCeEEEe-cchHHHHHHHhccc--CCCcc
Confidence 455555555655555555543 35778888885 79999999 9999987432 122233 3333322 35666
Q ss_pred EEccCCChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHc-CCCCEEEEeCHHHHHHHHHHhcccCCCCCeEEEEC
Q 024773 183 YPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA-LSIPVVAVASPSAVRSWVNLISDTEQWSNSVACIA 261 (262)
Q Consensus 183 ~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l-~~~d~ivFtS~s~~~~~~~~~~~~~~~~~~i~~IG 261 (262)
+.......+.+.+.++ |-. ..+.+... +.+.+ ..-...+.+-+|-++.-.+...- +...+|+-||
T Consensus 295 ~~~~~~~h~~vv~~~k--g~k---~~~~~~~~-------~~~~~~l~d~gyi~~G~SVah~~~~LA~~--lg~k~IIfIG 360 (594)
T COG2604 295 LILASITHPRVVEYLK--GNK---IFFFRDGG-------FSARFNLNDFGYIDTGGSVAHMCYELAVY--LGFKNIIFIG 360 (594)
T ss_pred eeeeccccHHHHHhhc--cCc---EEEEecch-------HHHHhccCCcceeeccccHHHHHHHHHHH--hCCCcEEEEe
Confidence 6666666777778886 221 22222222 11222 23444666777666666665542 2345666666
No 380
>TIGR01289 LPOR light-dependent protochlorophyllide reductase. This model represents the light-dependent, NADPH-dependent form of protochlorophyllide reductase. It belongs to the short chain alcohol dehydrogenase family, in contrast to the nitrogenase-related light-independent form.
Probab=42.66 E-value=2.4e+02 Score=24.96 Aligned_cols=72 Identities=15% Similarity=0.212 Sum_probs=41.5
Q ss_pred CCCeEEEeCCCCC-hHHHHHHHHhCC-CcEEEeceEEeeeCCCchHHHHHHhcC-CCccEE--EEeCHHHHHHHHHHHHH
Q 024773 49 SNPKVVVTRERGK-NGKLIKALAKHR-IDCLELPLIQHAQGPDTDRLSSVLNAD-TIFDWI--IITSPEAGSVFLEAWKE 123 (262)
Q Consensus 49 ~g~~VLitR~~~~-~~~l~~~L~~~G-~~v~~~P~~~~~~~~~~~~l~~~l~~l-~~~d~I--iFTS~~aV~~f~~~l~~ 123 (262)
.+++++||....+ ...+++.|.+.| ++|+.. .+... ..+++...+... ..+.++ =+++..+++.+++.+.+
T Consensus 2 ~~k~vlITGas~GIG~aia~~L~~~G~~~V~l~--~r~~~--~~~~~~~~l~~~~~~~~~~~~Dl~~~~~v~~~~~~~~~ 77 (314)
T TIGR01289 2 QKPTVIITGASSGLGLYAAKALAATGEWHVIMA--CRDFL--KAEQAAKSLGMPKDSYTIMHLDLGSLDSVRQFVQQFRE 77 (314)
T ss_pred CCCEEEEECCCChHHHHHHHHHHHcCCCEEEEE--eCCHH--HHHHHHHHhcCCCCeEEEEEcCCCCHHHHHHHHHHHHH
Confidence 4789999988654 467888999999 776543 11110 111222222111 112222 25788999999887754
Q ss_pred c
Q 024773 124 A 124 (262)
Q Consensus 124 ~ 124 (262)
.
T Consensus 78 ~ 78 (314)
T TIGR01289 78 S 78 (314)
T ss_pred h
Confidence 3
No 381
>CHL00073 chlN photochlorophyllide reductase subunit N
Probab=42.62 E-value=90 Score=29.95 Aligned_cols=97 Identities=11% Similarity=0.083 Sum_probs=56.8
Q ss_pred CCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCc-hHHHHHHhc----CCCccEEEEeCHHHHHHHHHHH
Q 024773 47 SNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDT-DRLSSVLNA----DTIFDWIIITSPEAGSVFLEAW 121 (262)
Q Consensus 47 ~l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~-~~l~~~l~~----l~~~d~IiFTS~~aV~~f~~~l 121 (262)
.+.|||+.++......-.+.+.|.+.|++++.+-. ... ..+. +...+.+.. .+..+.++...++ ...+.+.+
T Consensus 311 ~L~GKrvai~Gdp~~~i~LarfL~elGmevV~vgt-~~~-~~~~~~~d~~~l~~~~~~~~~~~~vive~~D-~~el~~~i 387 (457)
T CHL00073 311 LVRGKSVFFMGDNLLEISLARFLIRCGMIVYEIGI-PYM-DKRYQAAELALLEDTCRKMNVPMPRIVEKPD-NYNQIQRI 387 (457)
T ss_pred HHCCCEEEEECCCcHHHHHHHHHHHCCCEEEEEEe-CCC-ChhhhHHHHHHHHHHhhhcCCCCcEEEeCCC-HHHHHHHH
Confidence 47899999988777788999999999999998821 111 1111 111122322 2223456666655 44445555
Q ss_pred HHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCce
Q 024773 122 KEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDV 155 (262)
Q Consensus 122 ~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~ 155 (262)
.+.. ..++.-|-..+.-|... |+.+
T Consensus 388 ~~~~---pDLlIgG~~~~~Pl~~~------G~p~ 412 (457)
T CHL00073 388 RELQ---PDLAITGMAHANPLEAR------GINT 412 (457)
T ss_pred hhCC---CCEEEccccccCchhhc------CCcc
Confidence 5543 23444444566666666 7665
No 382
>PRK04870 histidinol-phosphate aminotransferase; Provisional
Probab=42.54 E-value=2.5e+02 Score=25.14 Aligned_cols=12 Identities=25% Similarity=0.304 Sum_probs=4.9
Q ss_pred HHhCCCeeeEEe
Q 024773 197 LSNRGFEVVRLN 208 (262)
Q Consensus 197 L~~~G~~v~~i~ 208 (262)
.+..|+++..+.
T Consensus 122 ~~~~g~~~~~i~ 133 (356)
T PRK04870 122 AKLAGLEFVGVP 133 (356)
T ss_pred HHHcCCEEEEec
Confidence 334444444433
No 383
>PLN02409 serine--glyoxylate aminotransaminase
Probab=42.51 E-value=71 Score=29.60 Aligned_cols=62 Identities=21% Similarity=0.125 Sum_probs=42.9
Q ss_pred CCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC--CCccEEEEeCH
Q 024773 49 SNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD--TIFDWIIITSP 111 (262)
Q Consensus 49 ~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l--~~~d~IiFTS~ 111 (262)
.|.+|+++.+..-...+...++.+|+++..+|.-.-. ..+.+.+++.+... .+...|++++.
T Consensus 83 ~Gd~Vlv~~~~~~~~~~~~~~~~~g~~v~~v~~~~~~-~~~~~~l~~~l~~~~~~~~k~v~~~~~ 146 (401)
T PLN02409 83 PGDKVVSFRIGQFSLLWIDQMQRLNFDVDVVESPWGQ-GADLDILKSKLRQDTNHKIKAVCVVHN 146 (401)
T ss_pred CCCEEEEeCCCchhHHHHHHHHHcCCceEEEECCCCC-CCCHHHHHHHHhhCcCCCccEEEEEee
Confidence 5789999997665566778888899999988853211 12456676666431 26788988765
No 384
>cd06290 PBP1_LacI_like_9 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=42.22 E-value=1e+02 Score=25.88 Aligned_cols=45 Identities=13% Similarity=0.027 Sum_probs=27.8
Q ss_pred HHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024773 93 LSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (262)
Q Consensus 93 l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~ 137 (262)
+.+.+..-...|+|+.++...+..+++.+.+.+. +++.|++.+..
T Consensus 167 ~~~~l~~~~~~~aii~~~~~~a~~~~~~l~~~g~~ip~di~vi~~d~~ 214 (265)
T cd06290 167 VEELLQRGPDFTAIFAANDQTAYGARLALYRRGLRVPEDVSLIGFDDL 214 (265)
T ss_pred HHHHHcCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCcceEEeeecCc
Confidence 4444433335678887777766666777776664 35667777654
No 385
>cd08187 BDH Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process. The butanol dehydrogenase (BDH) is involved in the final step of the butanol formation pathway in anaerobic micro-organism. Butanol dehydrogenase catalyzes the conversion of butyraldehyde to butanol with the cofactor NAD(P)H being oxidized in the process. Activity in the reverse direction was 50-fold lower than that in the forward direction. The NADH-BDH had higher activity with longer chained aldehydes and was inhibited by metabolites containing an adenine moiety. This protein family belongs to the so-called iron-containing alcohol dehydrogenase superfamily. Since members of this superfamily use different divalent ions, preferentially iron or zinc, it has been suggested to be renamed to family III metal-dependent polyol dehydrogenases.
Probab=42.11 E-value=66 Score=29.76 Aligned_cols=72 Identities=19% Similarity=0.153 Sum_probs=41.5
Q ss_pred CHHHHHHHhhhCCCCccEEEEEccCCC------hhhHHHHHHhCCCeeeEEeeeccccCCCChHH---HHHHc--CCCCE
Q 024773 163 TGKILASELPKNGKKKCTVLYPASAKA------SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQT---VLKQA--LSIPV 231 (262)
Q Consensus 163 t~e~L~~~l~~~~~~g~~vL~~~g~~~------~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~---~~~~l--~~~d~ 231 (262)
..+.+.+.+.++ ++|+|++++... .+.+.+.|++.|+.+ .+|.....+...+. ..+.+ .++|+
T Consensus 16 ~~~~l~~~~~~~---~~r~livt~~~~~~~~~~~~~v~~~L~~~g~~~---~~~~~v~~~p~~~~v~~~~~~~~~~~~D~ 89 (382)
T cd08187 16 TESELGKELKKY---GKKVLLVYGGGSIKKNGLYDRVIASLKEAGIEV---VELGGVEPNPRLETVREGIELCKEEKVDF 89 (382)
T ss_pred HHHHHHHHHHHh---CCEEEEEeCCcHHHhcCcHHHHHHHHHHcCCeE---EEECCccCCCCHHHHHHHHHHHHHcCCCE
Confidence 345555555543 478999987532 367888999888754 45654444433222 22222 37888
Q ss_pred EE-EeCHHHH
Q 024773 232 VA-VASPSAV 240 (262)
Q Consensus 232 iv-FtS~s~~ 240 (262)
|+ +-..|..
T Consensus 90 IIaiGGGS~i 99 (382)
T cd08187 90 ILAVGGGSVI 99 (382)
T ss_pred EEEeCChHHH
Confidence 88 4444443
No 386
>PF08373 RAP: RAP domain; InterPro: IPR013584 The ~60-residue RAP (an acronym for RNA-binding domain abundant in Apicomplexans) domain is found in various proteins in eukaryotes. It is particularly abundant in apicomplexans and might mediate a range of cellular functions through its potential interactions with RNA []. The RAP domain consists of multiple blocks of charged and aromatics residues and is predicted to be composed of alpha helical and beta strand structures. Two predicted loop regions that are dominated by glycine and tryptophan residues are found before and after the central beta sheet []. Some proteins known to contain a RAP domain are listed below: Human hypothetical protein MGC5297, Mammalian FAST kinase domain-containing proteins (FASTKDs), Chlamydomonas reinhardtii chloroplastic trans-splicing factor Raa3.
Probab=42.07 E-value=17 Score=23.70 Aligned_cols=26 Identities=8% Similarity=0.164 Sum_probs=20.9
Q ss_pred HHHHHhCCCcEEEeceEEeeeCCCch
Q 024773 66 IKALAKHRIDCLELPLIQHAQGPDTD 91 (262)
Q Consensus 66 ~~~L~~~G~~v~~~P~~~~~~~~~~~ 91 (262)
.+.|+..|+.|+.+|.++.....+.+
T Consensus 24 ~r~L~~~G~~Vi~Ip~~eW~~l~~~~ 49 (58)
T PF08373_consen 24 HRHLKALGYKVISIPYYEWNKLKSRE 49 (58)
T ss_pred HHHHHHCCCEEEEecHHHHHhcCCHH
Confidence 45788999999999999988764433
No 387
>PRK07454 short chain dehydrogenase; Provisional
Probab=42.00 E-value=2e+02 Score=23.87 Aligned_cols=83 Identities=20% Similarity=0.215 Sum_probs=46.9
Q ss_pred CCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC-CCccEEE--EeCHHHHHHHHHHHHHc-
Q 024773 50 NPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD-TIFDWII--ITSPEAGSVFLEAWKEA- 124 (262)
Q Consensus 50 g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l-~~~d~Ii--FTS~~aV~~f~~~l~~~- 124 (262)
+++++||..... ...+++.|.++|++|..+- +.. ...+.+...++.. ...+++. +|+...+..+++.+.+.
T Consensus 6 ~k~vlItG~sg~iG~~la~~l~~~G~~V~~~~--r~~--~~~~~~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~~ 81 (241)
T PRK07454 6 MPRALITGASSGIGKATALAFAKAGWDLALVA--RSQ--DALEALAAELRSTGVKAAAYSIDLSNPEAIAPGIAELLEQF 81 (241)
T ss_pred CCEEEEeCCCchHHHHHHHHHHHCCCEEEEEe--CCH--HHHHHHHHHHHhCCCcEEEEEccCCCHHHHHHHHHHHHHHc
Confidence 678999987543 4678899999998766431 111 1112222223222 2233333 37888888877765543
Q ss_pred CCCCcEEEEeCh
Q 024773 125 GTPNVRIGVVGA 136 (262)
Q Consensus 125 ~~~~~~i~aVG~ 136 (262)
+..+.-|.+.|.
T Consensus 82 ~~id~lv~~ag~ 93 (241)
T PRK07454 82 GCPDVLINNAGM 93 (241)
T ss_pred CCCCEEEECCCc
Confidence 323555666664
No 388
>cd03146 GAT1_Peptidase_E Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. Type 1 glutamine amidotransferase (GATase1)-like domain found in peptidase E. This group contains proteins similar to the aspartyl dipeptidases Salmonella typhimurium peptidase E and Xenopus laevis peptidase E. In bacteria peptidase E is believed to play a role in degrading peptides generated by intracellular protein breakdown or imported into the cell as nutrient sources. Peptidase E uniquely hydrolyses only Asp-X dipeptides (where X is any amino acid), and one tripeptide Asp-Gly-Gly. Peptidase E is believed to be a serine peptidase having a Ser-His-Glu catalytic triad which differs from the Cys-His-Glu catalytic triad typical of GATase1 domains by having a Ser in place of the reactive Cys at the nucleophile elbow. Xenopus PepE is developmentally regulated in response to thyroid hormone and, it is thought to play a role in apoptosis during tail reabsorption.
Probab=41.98 E-value=1.8e+02 Score=24.43 Aligned_cols=81 Identities=16% Similarity=0.178 Sum_probs=49.2
Q ss_pred CCHHHHHHHhhhCCCCccEEEEEccCCC-----hhhHHHHHHhC-CCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEe
Q 024773 162 ATGKILASELPKNGKKKCTVLYPASAKA-----SNEIEEGLSNR-GFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVA 235 (262)
Q Consensus 162 ~t~e~L~~~l~~~~~~g~~vL~~~g~~~-----~~~L~~~L~~~-G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFt 235 (262)
+..+.|.+.+.+....+.+++|+..... -....+.+++. |+++..+.+.. . ++..+.+...|+|+++
T Consensus 15 ~~~~~l~~~l~~~~~~~~~i~~IptAs~~~~~~~~~~~~a~~~l~G~~~~~~~~~~----~---~~~~~~l~~ad~I~l~ 87 (212)
T cd03146 15 HALPAIDDLLLSLTKARPKVLFVPTASGDRDEYTARFYAAFESLRGVEVSHLHLFD----T---EDPLDALLEADVIYVG 87 (212)
T ss_pred cchHHHHHHHHHhccCCCeEEEECCCCCCHHHHHHHHHHHHhhccCcEEEEEeccC----c---ccHHHHHhcCCEEEEC
Confidence 3445555555544334577777766543 22356678888 98887776655 1 1223445689999998
Q ss_pred CHHHHHHHHHHhccc
Q 024773 236 SPSAVRSWVNLISDT 250 (262)
Q Consensus 236 S~s~~~~~~~~~~~~ 250 (262)
-. ....+++.+++.
T Consensus 88 GG-~~~~~~~~l~~~ 101 (212)
T cd03146 88 GG-NTFNLLAQWREH 101 (212)
T ss_pred Cc-hHHHHHHHHHHc
Confidence 86 445555555554
No 389
>PRK08945 putative oxoacyl-(acyl carrier protein) reductase; Provisional
Probab=41.93 E-value=2.1e+02 Score=23.96 Aligned_cols=75 Identities=13% Similarity=0.100 Sum_probs=42.8
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEE------eCHHHHHHHH
Q 024773 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIII------TSPEAGSVFL 118 (262)
Q Consensus 46 ~~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiF------TS~~aV~~f~ 118 (262)
..+.+++|+||..... ...+.+.|.+.|++|+.+.- .+ ...+.+...+.+...-...++ ++...++.+.
T Consensus 8 ~~~~~k~vlItG~~g~iG~~la~~l~~~G~~Vi~~~r---~~-~~~~~~~~~l~~~~~~~~~~~~~d~~~~~~~~~~~~~ 83 (247)
T PRK08945 8 DLLKDRIILVTGAGDGIGREAALTYARHGATVILLGR---TE-EKLEAVYDEIEAAGGPQPAIIPLDLLTATPQNYQQLA 83 (247)
T ss_pred cccCCCEEEEeCCCchHHHHHHHHHHHCCCcEEEEeC---CH-HHHHHHHHHHHhcCCCCceEEEecccCCCHHHHHHHH
Confidence 4578999999987654 46788888889987764311 11 111222233322221112222 3677888887
Q ss_pred HHHHHc
Q 024773 119 EAWKEA 124 (262)
Q Consensus 119 ~~l~~~ 124 (262)
+.+.+.
T Consensus 84 ~~~~~~ 89 (247)
T PRK08945 84 DTIEEQ 89 (247)
T ss_pred HHHHHH
Confidence 776553
No 390
>cd06375 PBP1_mGluR_groupII Ligand binding domain of the group II metabotropic glutamate receptor. Ligand binding domain of the group II metabotropic glutamate receptor, a family that contains mGlu2R and mGlu3R, all of which inhibit adenylyl cyclase. The metabotropic glutamate receptor is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into intracellular responses. The mGluRs are classified into three groups which comprise eight subtypes
Probab=41.83 E-value=2.1e+02 Score=27.09 Aligned_cols=88 Identities=14% Similarity=0.053 Sum_probs=49.8
Q ss_pred CCHHHHHHHhhhCCCCccEEEEEccC-----CChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHc---CCCCE-E
Q 024773 162 ATGKILASELPKNGKKKCTVLYPASA-----KASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA---LSIPV-V 232 (262)
Q Consensus 162 ~t~e~L~~~l~~~~~~g~~vL~~~g~-----~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l---~~~d~-i 232 (262)
.-+..+++.+.... . ++|.++..+ ...+.+.+.+++.|+.|.....|.............+.+ .+.++ |
T Consensus 160 ~qa~ai~~ll~~~~-W-~~Vaii~~~~~yG~~~~~~~~~~~~~~gi~i~~~~~i~~~~~~~d~~~~l~~l~~~~~a~vVv 237 (458)
T cd06375 160 YQAKAMAEILRFFN-W-TYVSTVASEGDYGETGIEAFEQEARLRNICIATSEKVGRSADRKSYDSVIRKLLQKPNARVVV 237 (458)
T ss_pred HHHHHHHHHHHHCC-C-eEEEEEEeCchHHHHHHHHHHHHHHHCCeeEEEEEEecCCCCHHHHHHHHHHHhccCCCEEEE
Confidence 44566777664432 2 566666432 345677778888887765444443322221112223333 26775 6
Q ss_pred EEeCHHHHHHHHHHhcccC
Q 024773 233 AVASPSAVRSWVNLISDTE 251 (262)
Q Consensus 233 vFtS~s~~~~~~~~~~~~~ 251 (262)
+|.+...+..++..+.+.+
T Consensus 238 l~~~~~~~~~ll~~a~~~g 256 (458)
T cd06375 238 LFTRSEDARELLAAAKRLN 256 (458)
T ss_pred EecChHHHHHHHHHHHHcC
Confidence 6677888888888776543
No 391
>TIGR03427 ABC_peri_uca ABC transporter periplasmic binding protein, urea carboxylase region. Members of this family are ABC transporter periplasmic binding proteins associated with the urea carboxylase/allophanate hydrolase pathway, an alternative to urease for urea degradation. The protein is restricted to bacteria with the pathway, with its gene close to the urea carboxylase and allophanate hydrolase genes. The substrate for this transporter therefore is likely to be urea or a compound from which urea is easily derived.
Probab=41.78 E-value=42 Score=30.54 Aligned_cols=66 Identities=11% Similarity=0.106 Sum_probs=47.2
Q ss_pred CCCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHH
Q 024773 45 SASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGS 115 (262)
Q Consensus 45 ~~~l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~ 115 (262)
...|+||+|.+.+.....--+.+.|++.|.+...+-+..+.+ .+....+ .-++.|+.+...|....
T Consensus 101 vaDLKGKkIav~~gs~~~~ll~~aL~~aGL~~~DV~~v~~~~----~d~~aAl-~~G~VDAa~~~eP~~s~ 166 (328)
T TIGR03427 101 LADLKGQKVNLVELSVSHYLLARALESVGLSEKDVKVVNTSD----ADIVAAF-ITKDVTAVVTWNPQLSE 166 (328)
T ss_pred HHHcCCCEEeccCCChHHHHHHHHHHHcCCCHHHeEEEeCCh----HHHHHHH-hcCCCcEEEEcCchHHH
Confidence 467999999999887777788899999999865444444332 2334455 44789999887777543
No 392
>PF11731 Cdd1: Pathogenicity locus; InterPro: IPR021725 Cdd1 is expressed as part of the pathogenicity locus operon in several different orders of bacteria []. Many members of the family are annotated as being putative mitomycin resistance proteins but this could not be confirmed.
Probab=41.74 E-value=22 Score=26.35 Aligned_cols=38 Identities=16% Similarity=0.079 Sum_probs=25.0
Q ss_pred EEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhh
Q 024773 130 RIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPK 173 (262)
Q Consensus 130 ~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~ 173 (262)
.|=-||++|++-|... |+...-.-...+.+.|-+.+.+
T Consensus 16 ~iP~IG~a~a~DL~~L------Gi~s~~~L~g~dP~~Ly~~lc~ 53 (93)
T PF11731_consen 16 DIPNIGKATAEDLRLL------GIRSPADLKGRDPEELYERLCA 53 (93)
T ss_pred cCCCccHHHHHHHHHc------CCCCHHHHhCCCHHHHHHHHHH
Confidence 4557999999999999 9975322233455555555443
No 393
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=41.70 E-value=52 Score=30.63 Aligned_cols=38 Identities=21% Similarity=0.192 Sum_probs=27.5
Q ss_pred cCCCccEEEEeCHHH-------HHHHHHHHHHcCCCCcEEEEeCh
Q 024773 99 ADTIFDWIIITSPEA-------GSVFLEAWKEAGTPNVRIGVVGA 136 (262)
Q Consensus 99 ~l~~~d~IiFTS~~a-------V~~f~~~l~~~~~~~~~i~aVG~ 136 (262)
.+.++|.|+|-||.- +..|++.+......+.++++.|.
T Consensus 297 ~~~~~d~ii~GspT~~~~~~~~~~~~l~~l~~~~~~~K~~a~FGs 341 (394)
T PRK11921 297 EVFKSKAILVGSSTINRGILSSTAAILEEIKGLGFKNKKAAAFGS 341 (394)
T ss_pred HHHhCCEEEEECCCcCccccHHHHHHHHHhhccCcCCCEEEEEec
Confidence 345799999999882 45566666555556788888885
No 394
>KOG2836 consensus Protein tyrosine phosphatase IVA1 [Signal transduction mechanisms]
Probab=41.65 E-value=54 Score=26.18 Aligned_cols=83 Identities=24% Similarity=0.279 Sum_probs=53.5
Q ss_pred hhCCCCCCCccchhccccccccCCCCCCCeEEEeCCCCC--hHHHHHHHHhCCCcEEE---eceEEeeeCCCchHHHHHH
Q 024773 23 RLNRPLPFQFSRIQASSDATSASASNSNPKVVVTRERGK--NGKLIKALAKHRIDCLE---LPLIQHAQGPDTDRLSSVL 97 (262)
Q Consensus 23 ~~~~~~~~~~~~~~~~~~~~~~~~~l~g~~VLitR~~~~--~~~l~~~L~~~G~~v~~---~P~~~~~~~~~~~~l~~~l 97 (262)
|.|||-|..++| .++|.|||-.... -..+.+.|+++|.+.+. -|.|.+.+++.. .+ ..+
T Consensus 3 ~mnrPAPveIsy--------------~~MrFLIThnPtnaTln~fieELkKygvttvVRVCe~TYdt~~lek~-GI-~Vl 66 (173)
T KOG2836|consen 3 RMNRPAPVEISY--------------KNMRFLITHNPTNATLNKFIEELKKYGVTTVVRVCEPTYDTTPLEKE-GI-TVL 66 (173)
T ss_pred cccCCCCeeeec--------------cceEEEEecCCCchhHHHHHHHHHhcCCeEEEEecccccCCchhhhc-Cc-eEe
Confidence 567888866655 4789999955433 35788999999988753 355555443210 00 001
Q ss_pred hcCCCccEEEEeCHHHHHHHHHHHHH
Q 024773 98 NADTIFDWIIITSPEAGSVFLEAWKE 123 (262)
Q Consensus 98 ~~l~~~d~IiFTS~~aV~~f~~~l~~ 123 (262)
...||-=.++.+.-|+.|++.+..
T Consensus 67 --dw~f~dg~ppp~qvv~~w~~l~~~ 90 (173)
T KOG2836|consen 67 --DWPFDDGAPPPNQVVDDWLSLVKT 90 (173)
T ss_pred --ecccccCCCCchHHHHHHHHHHHH
Confidence 124555678889999999987654
No 395
>PRK14166 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=41.64 E-value=2.3e+02 Score=25.39 Aligned_cols=161 Identities=18% Similarity=0.161 Sum_probs=84.1
Q ss_pred eEEEeCCCCChHHHH----HHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc---CCCccEEEEeCHHH--HH--HHHHH
Q 024773 52 KVVVTRERGKNGKLI----KALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA---DTIFDWIIITSPEA--GS--VFLEA 120 (262)
Q Consensus 52 ~VLitR~~~~~~~l~----~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~---l~~~d~IiFTS~~a--V~--~f~~~ 120 (262)
-++....+..+..+. +..++.|+++..+-+-+. ...+++...+.+ ..+.|.|+..-|-- ++ ..++.
T Consensus 34 aii~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~---~t~~~l~~~I~~lN~D~~V~GIivq~PLP~~i~~~~i~~~ 110 (282)
T PRK14166 34 AVILVGDNPASQTYVKSKAKACEECGIKSLVYHLNEN---TTQNELLALINTLNHDDSVHGILVQLPLPDHICKDLILES 110 (282)
T ss_pred EEEEeCCCHHHHHHHHHHHHHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCCHHHHHhc
Confidence 344444444443333 345567888765544221 123344455443 46789999987732 21 12222
Q ss_pred HHHc-CCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC--CCccEEEEE-ccCCChhhHHHH
Q 024773 121 WKEA-GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYP-ASAKASNEIEEG 196 (262)
Q Consensus 121 l~~~-~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~g~~vL~~-~g~~~~~~L~~~ 196 (262)
+... ..|...-+-.| .|- . |....+.| .|+.+.++.|..+. ..|++++++ ||.....-|...
T Consensus 111 I~p~KDVDGl~~~N~g-----~l~-~------g~~~~~~P--cTp~avi~lL~~y~i~l~Gk~vvVvGrS~iVGkPla~l 176 (282)
T PRK14166 111 IISSKDVDGFHPINVG-----YLN-L------GLESGFLP--CTPLGVMKLLKAYEIDLEGKDAVIIGASNIVGRPMATM 176 (282)
T ss_pred cCcccCcccCChhhhH-----HHh-c------CCCCCCcC--CCHHHHHHHHHHhCCCCCCCEEEEECCCCcchHHHHHH
Confidence 2211 12333322233 221 2 42222444 47889988777653 367776554 566667789999
Q ss_pred HHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCH
Q 024773 197 LSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASP 237 (262)
Q Consensus 197 L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~ 237 (262)
|.++|+.|+-+--++ . . +.+.....|+++-.-+
T Consensus 177 L~~~~atVt~chs~T--~---n---l~~~~~~ADIvIsAvG 209 (282)
T PRK14166 177 LLNAGATVSVCHIKT--K---D---LSLYTRQADLIIVAAG 209 (282)
T ss_pred HHHCCCEEEEeCCCC--C---C---HHHHHhhCCEEEEcCC
Confidence 998998886433222 1 1 2222347787775544
No 396
>cd06267 PBP1_LacI_sugar_binding_like Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. Ligand binding domain of the LacI tanscriptional regulator family belonging to the type I periplasmic-binding fold protein superfamily. In most cases, ligands are monosaccharide including lactose, ribose, fructose, xylose, arabinose, galactose/glucose, and other sugars. The LacI family of proteins consists of transcriptional regulators related to the lac repressor. In this case, the domain sugar binding changes the DNA binding activity of the repressor domain.
Probab=41.63 E-value=2e+02 Score=23.67 Aligned_cols=88 Identities=13% Similarity=0.023 Sum_probs=46.4
Q ss_pred CCeEEEeCCCCC-------hHHHHHHHHhCCCcEEEeceEEeeeC-CC-chHHHHHHhcCCCccEEEEeCHHHHHHHHHH
Q 024773 50 NPKVVVTRERGK-------NGKLIKALAKHRIDCLELPLIQHAQG-PD-TDRLSSVLNADTIFDWIIITSPEAGSVFLEA 120 (262)
Q Consensus 50 g~~VLitR~~~~-------~~~l~~~L~~~G~~v~~~P~~~~~~~-~~-~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~ 120 (262)
.++|++..+... ...+.+.++++|..+........... .+ ...+...+......|+|+.++......+...
T Consensus 116 ~~~i~~i~~~~~~~~~~~r~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~~~~a~~~~~a 195 (264)
T cd06267 116 HRRIAFIGGPPDLSTARERLEGYREALEEAGIPLDEELIVEGDFSEESGYEAARELLASGERPTAIFAANDLMAIGALRA 195 (264)
T ss_pred CceEEEecCCCccchHHHHHHHHHHHHHHcCCCCCcceEEecccchhhHHHHHHHHHhcCCCCcEEEEcCcHHHHHHHHH
Confidence 457776644322 13355667777753322111111111 11 1233444544445888888877666677777
Q ss_pred HHHcCC---CCcEEEEeChh
Q 024773 121 WKEAGT---PNVRIGVVGAG 137 (262)
Q Consensus 121 l~~~~~---~~~~i~aVG~~ 137 (262)
+.+.+. +++.+++.+..
T Consensus 196 l~~~g~~~~~~i~i~~~d~~ 215 (264)
T cd06267 196 LRELGLRVPEDVSVVGFDDI 215 (264)
T ss_pred HHHhCCCCCCceEEEeeCCC
Confidence 777765 35667776643
No 397
>cd06314 PBP1_tmGBP Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs. Periplasmic sugar-binding domain of Thermotoga maritima glucose-binding protein (tmGBP) and its close homologs from other bacteria. They are a member of the type I periplasmic binding protein superfamily which consists of two domains connected by a three-stranded hinge. TmGBP is specific for glucose and its binding pocket is buried at the interface of the two domains. TmGBP also exhibits high thermostability and the highest structural similarity to E. coli glucose binding protein (ecGBP).
Probab=41.57 E-value=1e+02 Score=26.20 Aligned_cols=72 Identities=18% Similarity=0.188 Sum_probs=37.4
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC-CCcEEEEeChhH
Q 024773 65 LIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT-PNVRIGVVGAGT 138 (262)
Q Consensus 65 l~~~L~~~G~~v~~~P~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~-~~~~i~aVG~~T 138 (262)
+.+.++++|..+... .......+ ...+...+..-..+|+|+..+-.....+.+.+.+.+. +++.|++.+...
T Consensus 142 f~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~~~~~~~i~~~~d~~a~~~~~al~~~g~~~di~vig~d~~~ 216 (271)
T cd06314 142 IKDAIKDSKIEIVDT--RGDEEDFAKAKSNAEDALNAHPDLKCMFGLYAYNGPAIAEAVKAAGKLGKVKIVGFDEDP 216 (271)
T ss_pred HHHHHhcCCcEEEEE--ecCccCHHHHHHHHHHHHHhCCCccEEEecCCccHHHHHHHHHHcCCCCceEEEEeCCCH
Confidence 566677777654431 11110000 1233444433345677776655555556666666665 366777777654
No 398
>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=41.41 E-value=1.1e+02 Score=25.51 Aligned_cols=76 Identities=16% Similarity=0.067 Sum_probs=42.9
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChhH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAGT 138 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~T 138 (262)
-+.+.++++|........+......+ .+.+.+.+......|+|+..+-.....+++.+.+.+. +++.+++.+...
T Consensus 141 gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~vp~~i~iig~d~~~ 220 (268)
T cd06271 141 GYRRALAEAGLPLDPALIVSGDMTEEGGYAAAAELLALPDRPTAIVCSSELMALGVLAALAEAGLRPGRDVSVVGFDDSP 220 (268)
T ss_pred HHHHHHHHhCCCCCCceEEeCCCChHHHHHHHHHHHhCCCCCCEEEEcCcHHHHHHHHHHHHhCCCCCcceeEEEecCch
Confidence 35566777776542211222111101 1234444433345889998888777777777877765 367788877653
Q ss_pred H
Q 024773 139 A 139 (262)
Q Consensus 139 a 139 (262)
.
T Consensus 221 ~ 221 (268)
T cd06271 221 P 221 (268)
T ss_pred H
Confidence 3
No 399
>cd06312 PBP1_ABC_sugar_binding_like_4 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=41.39 E-value=1e+02 Score=26.14 Aligned_cols=46 Identities=20% Similarity=0.279 Sum_probs=30.8
Q ss_pred HHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC-CCcEEEEeChhH
Q 024773 93 LSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT-PNVRIGVVGAGT 138 (262)
Q Consensus 93 l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~-~~~~i~aVG~~T 138 (262)
+.+.+....+.|+|+.++-.........+.+.+. +++.+++.+...
T Consensus 174 ~~~~l~~~~~~~aI~~~~d~~a~g~~~al~~~g~~~di~vvg~d~~~ 220 (271)
T cd06312 174 IAAYLRANPDVDAVLTLGAPSAAPAAKALKQAGLKGKVKLGGFDLSP 220 (271)
T ss_pred HHHHHHhCCCccEEEEeCCccchHHHHHHHhcCCCCCeEEEEecCCH
Confidence 4444433346788888887777777777777765 467777777543
No 400
>cd06316 PBP1_ABC_sugar_binding_like_7 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=41.30 E-value=1.9e+02 Score=24.93 Aligned_cols=47 Identities=15% Similarity=0.205 Sum_probs=33.8
Q ss_pred HHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCCcEEEEeChhH
Q 024773 92 RLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPNVRIGVVGAGT 138 (262)
Q Consensus 92 ~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~T 138 (262)
.+...+..-.+.|+|+.++-......++.+.+++.+++.|++.|..+
T Consensus 176 ~~~~~l~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~di~vvg~d~~~ 222 (294)
T cd06316 176 IANAMLTQNPDLKGIYAVWDVPAEGVIAALRAAGRDDIKVTTVDLGL 222 (294)
T ss_pred HHHHHHHhCCCeeEEEeCCCchhHHHHHHHHHcCCCCceEEEeCCCc
Confidence 34444543356788888877777788888888887678888887654
No 401
>PRK06484 short chain dehydrogenase; Validated
Probab=41.07 E-value=2.6e+02 Score=26.60 Aligned_cols=69 Identities=10% Similarity=0.033 Sum_probs=42.0
Q ss_pred CCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC-CccEE--EEeCHHHHHHHHHHHHH
Q 024773 48 NSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT-IFDWI--IITSPEAGSVFLEAWKE 123 (262)
Q Consensus 48 l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~-~~d~I--iFTS~~aV~~f~~~l~~ 123 (262)
..|+++|||....+ ...+++.|.++|++|+.+- + +.+.+......++ ...++ =++++.+++.+++.+.+
T Consensus 3 ~~~k~~lITGas~gIG~aia~~l~~~G~~V~~~~--r-----~~~~~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~~~~ 75 (520)
T PRK06484 3 AQSRVVLVTGAAGGIGRAACQRFARAGDQVVVAD--R-----NVERARERADSLGPDHHALAMDVSDEAQIREGFEQLHR 75 (520)
T ss_pred CCCeEEEEECCCcHHHHHHHHHHHHCCCEEEEEe--C-----CHHHHHHHHHHhCCceeEEEeccCCHHHHHHHHHHHHH
Confidence 35899999987654 4679999999999876431 1 1122222222222 12112 13788888888877654
No 402
>PLN02672 methionine S-methyltransferase
Probab=41.06 E-value=4.1e+02 Score=28.59 Aligned_cols=77 Identities=12% Similarity=0.134 Sum_probs=44.5
Q ss_pred hhCCCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcC--CCCEEEEeCHH-----------
Q 024773 172 PKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQAL--SIPVVAVASPS----------- 238 (262)
Q Consensus 172 ~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~--~~d~ivFtS~s----------- 238 (262)
.....+|..|+++...- .......+..|+++..+++.....-....+.+.+.+. ....|++.+|.
T Consensus 772 ~aLl~pGD~VLVp~PtY--~~Y~~~a~~~Ga~vv~Vpl~~e~gf~lD~d~Le~al~~~~~~~I~L~nPnhNPTG~v~S~e 849 (1082)
T PLN02672 772 LCCVQEGGTLCFPAGSN--GTYVSAAKFLKANFRRIPTKSSDGFKLTAKTLASTLETVKKPWVYISGPTINPTGLLYSNS 849 (1082)
T ss_pred HHHcCCCCEEEEeCCCh--HHHHHHHHHcCCEEEEEecccccCCCCCHHHHHHHhccCCCCEEEEECcCCCCcCccCCHH
Confidence 34445678888887643 3455667778888888777422112222234444343 23567777775
Q ss_pred HHHHHHHHhccc
Q 024773 239 AVRSWVNLISDT 250 (262)
Q Consensus 239 ~~~~~~~~~~~~ 250 (262)
..+.+++.++++
T Consensus 850 eLe~Llela~k~ 861 (1082)
T PLN02672 850 EIEEILSVCAKY 861 (1082)
T ss_pred HHHHHHHHHHHc
Confidence 666666666543
No 403
>COG0075 Serine-pyruvate aminotransferase/archaeal aspartate aminotransferase [Amino acid transport and metabolism]
Probab=40.96 E-value=2.3e+02 Score=26.50 Aligned_cols=62 Identities=24% Similarity=0.103 Sum_probs=41.4
Q ss_pred hhhCCCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCC-ChHHHHHHcC---CCCEEEEe
Q 024773 171 LPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHH-VDQTVLKQAL---SIPVVAVA 235 (262)
Q Consensus 171 l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~-~~~~~~~~l~---~~d~ivFt 235 (262)
+.....+|.++|++....=.+-+.+.++..|.+|..+.+ .+-+. .++++.+.++ .++.|.++
T Consensus 73 v~sl~~pgdkVLv~~nG~FG~R~~~ia~~~g~~v~~~~~---~wg~~v~p~~v~~~L~~~~~~~~V~~v 138 (383)
T COG0075 73 VASLVEPGDKVLVVVNGKFGERFAEIAERYGAEVVVLEV---EWGEAVDPEEVEEALDKDPDIKAVAVV 138 (383)
T ss_pred HHhccCCCCeEEEEeCChHHHHHHHHHHHhCCceEEEeC---CCCCCCCHHHHHHHHhcCCCccEEEEE
Confidence 334445789999998887778899999999998766554 22222 2344555553 57777775
No 404
>TIGR01140 L_thr_O3P_dcar L-threonine-O-3-phosphate decarboxylase. This family contains pyridoxal phosphate-binding class II aminotransferases (see PFAM:PF00222) closely related to, yet distinct from, histidinol-phosphate aminotransferase (HisC). It is found in cobalamin biosynthesis operons in Salmonella typhimurium and Bacillus halodurans (each of which also has HisC) and has been shown to have L-threonine-O-3-phosphate decarboxylase activity in Salmonella. Although the gene symbol cobD was assigned in Salmonella, cobD in other contexts refers to a different cobalamin biosynthesis enzyme, modeled by pfam03186 and called cbiB in Salmonella.
Probab=40.74 E-value=1.7e+02 Score=26.10 Aligned_cols=86 Identities=17% Similarity=0.157 Sum_probs=43.9
Q ss_pred ChhHHHHHHHhhhhcCCCCce-eecCCCCCHHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccc
Q 024773 135 GAGTASIFEEVIQSSKCSLDV-AFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTE 213 (262)
Q Consensus 135 G~~Ta~~L~~~~~~~~~G~~~-~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~ 213 (262)
|+.-.+.+.+++ |+++ .+.....+.+++.. +.....+| ++++... .-..+...++..|+++..+.
T Consensus 49 ~~~lr~~la~~~-----~~~~~~i~~t~G~~~~i~~-~~~~l~~g-~vl~~~p--~y~~~~~~~~~~g~~~~~~~----- 114 (330)
T TIGR01140 49 YDELRAAAAAYY-----GLPAASVLPVNGAQEAIYL-LPRLLAPG-RVLVLAP--TYSEYARAWRAAGHEVVELP----- 114 (330)
T ss_pred HHHHHHHHHHHh-----CCChhhEEECCCHHHHHHH-HHHHhCCC-eEEEeCC--CcHHHHHHHHHcCCEEEEeC-----
Confidence 466666666664 5532 22223334444433 33222234 6666543 23356666777777665544
Q ss_pred cCCCChHHHHHHcCCCCEEEEeCHH
Q 024773 214 PVHHVDQTVLKQALSIPVVAVASPS 238 (262)
Q Consensus 214 ~~~~~~~~~~~~l~~~d~ivFtS~s 238 (262)
..+++.+.+.+...|++++|.
T Consensus 115 ----d~~~l~~~~~~~~~v~i~~p~ 135 (330)
T TIGR01140 115 ----DLDRLPAALEELDVLVLCNPN 135 (330)
T ss_pred ----CHHHHHhhcccCCEEEEeCCC
Confidence 223444444455677777764
No 405
>PRK10727 DNA-binding transcriptional regulator GalR; Provisional
Probab=40.62 E-value=1.3e+02 Score=26.84 Aligned_cols=75 Identities=9% Similarity=0.058 Sum_probs=40.3
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChhH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAGT 138 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~T 138 (262)
-+.+.++++|..+...-........+ .+.+.+.+..-..+|+|+..+-...-..++.+.+.|. +++.|++.+...
T Consensus 197 Gf~~al~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~nD~~A~g~~~al~~~G~~vP~disVigfD~~~ 276 (343)
T PRK10727 197 GYYDALAESGIPANDRLVTFGEPDESGGEQAMTELLGRGRNFTAVACYNDSMAAGAMGVLNDNGIDVPGEISLIGFDDVL 276 (343)
T ss_pred HHHHHHHHCCCCCChhhEEeCCCChhHHHHHHHHHHhCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCcceeEEeecCcH
Confidence 35667777776543211111111100 1223344433345788888776666666777777765 367777777643
No 406
>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=40.59 E-value=82 Score=26.65 Aligned_cols=45 Identities=18% Similarity=0.231 Sum_probs=29.6
Q ss_pred HHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCC--CcEEEEeChh
Q 024773 93 LSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTP--NVRIGVVGAG 137 (262)
Q Consensus 93 l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~--~~~i~aVG~~ 137 (262)
+.+.+......++|+..+-......++.+.+.+.. ++.|++.+..
T Consensus 174 ~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~~~~di~ivg~d~~ 220 (272)
T cd06301 174 MENWLSSGGKIDAVVANNDEMALGAIMALKAAGKSDKDVPVAGIDGT 220 (272)
T ss_pred HHHHHHhCCCCCEEEECCCchHHHHHHHHHHcCCCCCCcEEEeeCCC
Confidence 44444444567888888777777777777777653 5677777543
No 407
>cd06360 PBP1_alkylbenzenes_like Type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene. This group includes the type I periplasmic binding component of active transport systems that are predicted be involved in anaerobic biodegradation of alkylbenzenes such as toluene and ethylbenzene; their substrate specificity is not well characterized, however.
Probab=40.38 E-value=2.5e+02 Score=24.53 Aligned_cols=85 Identities=14% Similarity=0.040 Sum_probs=50.0
Q ss_pred CHHHHHHHhhhCCCCccEEEEEccCCC-----hhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHc--CCCCEEEE-
Q 024773 163 TGKILASELPKNGKKKCTVLYPASAKA-----SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAV- 234 (262)
Q Consensus 163 t~e~L~~~l~~~~~~g~~vL~~~g~~~-----~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l--~~~d~ivF- 234 (262)
....+++.+.+.. .+++.++..+.. ...+.+.|++.|.++.....|.... ... ......+ .+.|+|++
T Consensus 121 ~~~~~~~~l~~~~--~~~v~~l~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~-~d~-~~~v~~~~~~~pd~v~~~ 196 (336)
T cd06360 121 WAAPMGKYAADDG--YKKVVTVAWDYAFGYEVVEGFKEAFTEAGGKIVKELWVPFGT-SDF-ASYLAQIPDDVPDAVFVF 196 (336)
T ss_pred HHHHHHHHHHHcC--CCeEEEEeccchhhHHHHHHHHHHHHHcCCEEEEEEecCCCC-cch-HHHHHHHHhcCCCEEEEe
Confidence 3455666666543 467777755432 3567788999999887655554332 222 2222333 26777775
Q ss_pred eCHHHHHHHHHHhcccC
Q 024773 235 ASPSAVRSWVNLISDTE 251 (262)
Q Consensus 235 tS~s~~~~~~~~~~~~~ 251 (262)
+++..+..|+..+.+.+
T Consensus 197 ~~~~~~~~~~~~~~~~g 213 (336)
T cd06360 197 FAGGDAIKFVKQYDAAG 213 (336)
T ss_pred cccccHHHHHHHHHHcC
Confidence 44556666777776543
No 408
>cd06390 PBP1_iGluR_AMPA_GluR1 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR1 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=40.04 E-value=3e+02 Score=25.22 Aligned_cols=167 Identities=11% Similarity=0.069 Sum_probs=81.9
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCc-hHHHHHHhcCCCccEEEE--eCHHHHHHHHHHHHHcCCCCcEEEEeChhHH
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDT-DRLSSVLNADTIFDWIII--TSPEAGSVFLEAWKEAGTPNVRIGVVGAGTA 139 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~-~~l~~~l~~l~~~d~IiF--TS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta 139 (262)
..+.-+....+-+....|..+..+..|. +..++....++.--..|| +|+.+++.....+... +++.+...-
T Consensus 15 ~af~~av~~~N~~~~l~~~~~~~~~~dsf~~~~~~C~~~~~gV~AI~Gp~s~~~a~~v~sic~~~---~vP~i~~~~--- 88 (364)
T cd06390 15 AAFRFALSQLTEPPKLLPQIDIVNISDSFEMTYTFCSQFSKGVYAIFGFYDRKTVNMLTSFCGAL---HVCFITPSF--- 88 (364)
T ss_pred HHHHHHHHHhccCcccccceEEeccccHHHHHHHHHHHhhcCceEEEccCChhHHHHHHHhhcCC---CCCceecCC---
Confidence 3444455555544444565665555442 333344444443333333 4555555555544433 344443221
Q ss_pred HHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEc-cCCC---hhhHHHHHHhCCCeeeEEeeeccccC
Q 024773 140 SIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPA-SAKA---SNEIEEGLSNRGFEVVRLNTYTTEPV 215 (262)
Q Consensus 140 ~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~-g~~~---~~~L~~~L~~~G~~v~~i~vY~~~~~ 215 (262)
...... .+.+...|. -+.++++.+..+. . +++.++- .+.+ .+.|.+.+.+.|+.|....++...
T Consensus 89 ~~~~~~------~~~i~~~P~--~~~Ai~diI~~~~-W-~~v~iIYd~d~g~~~lq~l~~~~~~~~~~I~~~~~~~~~-- 156 (364)
T cd06390 89 PVDTSN------QFVLQLRPE--LQDALISVIEHYK-W-QKFVYIYDADRGLSVLQKVLDTAAEKNWQVTAVNILTTT-- 156 (364)
T ss_pred CCCCCC------ceEEEeChh--HHHHHHHHHHHcC-C-cEEEEEEeCCccHHHHHHHHHhhhccCceeeEEEeecCC--
Confidence 112233 555556665 4566666555433 3 4444333 3333 445666677788877766665421
Q ss_pred CCChHHHHHHcC--CCC-EEEEeCHHHHHHHHHHh
Q 024773 216 HHVDQTVLKQAL--SIP-VVAVASPSAVRSWVNLI 247 (262)
Q Consensus 216 ~~~~~~~~~~l~--~~d-~ivFtS~s~~~~~~~~~ 247 (262)
......+++.++ +.. +|+..|+..+..++...
T Consensus 157 ~~d~~~~L~~ik~~~~rvIVl~~~~~~~~~~L~~a 191 (364)
T cd06390 157 EEGYRKLFQDLDKKKERLIVVDCESERLNAILNQI 191 (364)
T ss_pred hHHHHHHHHhccccCCeEEEEECCHHHHHHHHHHH
Confidence 111222333343 444 45556677777776665
No 409
>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=39.93 E-value=1e+02 Score=25.95 Aligned_cols=74 Identities=14% Similarity=-0.024 Sum_probs=42.7
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~ 137 (262)
-+.+.++++|..+....++......+ ...+.+.+......++|++.+...+..+...+.+.+. +++.|++.+..
T Consensus 138 gf~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~~~~~~l~~~g~~~p~~i~v~~~d~~ 216 (270)
T cd06296 138 GYRAALAEAGIPVDPALVREGDFSTESGFRAAAELLALPERPTAIFAGNDLMALGVYEAARERGLRIPEDLSVVGFDDL 216 (270)
T ss_pred HHHHHHHHcCCCCChHHheeCCCCHHHHHHHHHHHHhCCCCCcEEEEcCcHHHHHHHHHHHHhCCCCCCceEEEEECCh
Confidence 35556667776543222222211111 1223444433456788888888887778888887775 36777777754
No 410
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=39.89 E-value=43 Score=23.40 Aligned_cols=71 Identities=20% Similarity=0.121 Sum_probs=33.3
Q ss_pred EEEEeChhHHHHHHHhhhhcCCCCceeecCCC--C-CHHHHHHHhhhCCCCccEEEEEccCCC----hhhHHHHHHhCCC
Q 024773 130 RIGVVGAGTASIFEEVIQSSKCSLDVAFSPSK--A-TGKILASELPKNGKKKCTVLYPASAKA----SNEIEEGLSNRGF 202 (262)
Q Consensus 130 ~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~--~-t~e~L~~~l~~~~~~g~~vL~~~g~~~----~~~L~~~L~~~G~ 202 (262)
-+++=|+..+-.+.+. |+...+.... . +.+.+........ ..+-++.+-.+.. ...+.+.|...|+
T Consensus 3 viIvEG~~D~~~l~~~------g~~~~v~~~g~~~~~~~~~~~~~~~~~-~~~Vii~~D~D~~G~~~a~~i~~~l~~~gi 75 (81)
T PF13662_consen 3 VIIVEGEFDAIALEQA------GYKNVVAVLGGNLSPLDQILREKLEKK-VKEVIIAFDNDKAGEKAAQKIAKKLLPLGI 75 (81)
T ss_dssp EEEESSHHHHHHHHHT------T-TTEEEESSSS---HHHHHHHHHH----SEEEEEEESSHHHHHHHHHHHHHHG----
T ss_pred EEEECCHHHHHHHHHh------CCCeEEEECCCCCChHHHhChHhhhcc-CceEEEEeCcCHHHHHHHHHHHHHHHhhcc
Confidence 4678899999999999 9876554322 2 3344443222221 1133555555443 5556666666777
Q ss_pred eeeEE
Q 024773 203 EVVRL 207 (262)
Q Consensus 203 ~v~~i 207 (262)
+|..+
T Consensus 76 ~v~~v 80 (81)
T PF13662_consen 76 RVTRV 80 (81)
T ss_dssp -----
T ss_pred ccccC
Confidence 76544
No 411
>PRK14171 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=39.83 E-value=1.9e+02 Score=25.98 Aligned_cols=162 Identities=19% Similarity=0.121 Sum_probs=86.5
Q ss_pred eEEEeCCCCChHHH----HHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc---CCCccEEEEeCHHH--HH--HHHHH
Q 024773 52 KVVVTRERGKNGKL----IKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA---DTIFDWIIITSPEA--GS--VFLEA 120 (262)
Q Consensus 52 ~VLitR~~~~~~~l----~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~---l~~~d~IiFTS~~a--V~--~f~~~ 120 (262)
-++....+..+..+ .+..++.|+++..+-+-+. ...+++.+.+.+ ..+.|.|+.--|-- ++ ..++.
T Consensus 36 aiI~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~---~~~~~l~~~I~~LN~D~~V~GIlvqlPLP~~id~~~i~~~ 112 (288)
T PRK14171 36 AIVLVGDNPASIIYVKNKIKNAHKIGIDTLLVNLSTT---IHTNDLISKINELNLDNEISGIIVQLPLPSSIDKNKILSA 112 (288)
T ss_pred EEEEeCCCccHHHHHHHHHHHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHcCCCCCCEEEEeCCCCCCCCHHHHHhc
Confidence 34455544444444 3455677987765543221 123445555443 46789999987732 21 22222
Q ss_pred HHHc-CCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC--CCccEEEE-EccCCChhhHHHH
Q 024773 121 WKEA-GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLY-PASAKASNEIEEG 196 (262)
Q Consensus 121 l~~~-~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~g~~vL~-~~g~~~~~~L~~~ 196 (262)
+... ..|...-.-.|. |- . |-...+.| -|+.+.++.|..+. ..|+++++ =||+....-|...
T Consensus 113 I~p~KDVDGl~~~N~g~-----l~-~------g~~~~~~P--cTp~av~~lL~~y~i~l~GK~vvViGrS~iVGkPla~l 178 (288)
T PRK14171 113 VSPSKDIDGFHPLNVGY-----LH-S------GISQGFIP--CTALGCLAVIKKYEPNLTGKNVVIIGRSNIVGKPLSAL 178 (288)
T ss_pred cCcccccccCCccchhh-----hh-c------CCCCCCcC--CCHHHHHHHHHHhCCCCCCCEEEEECCCCcchHHHHHH
Confidence 2211 123333333332 11 2 43222444 47888888777653 35777554 4566667789999
Q ss_pred HHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHH
Q 024773 197 LSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPS 238 (262)
Q Consensus 197 L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s 238 (262)
|.++|+.|+-+- .... . +.+.....|+++-.-+.
T Consensus 179 L~~~~ATVtich--s~T~---~---L~~~~~~ADIvV~AvGk 212 (288)
T PRK14171 179 LLKENCSVTICH--SKTH---N---LSSITSKADIVVAAIGS 212 (288)
T ss_pred HHHCCCEEEEeC--CCCC---C---HHHHHhhCCEEEEccCC
Confidence 999999885332 2111 1 22233578888876553
No 412
>cd03145 GAT1_cyanophycinase Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase. Type 1 glutamine amidotransferase (GATase1)-like domain found in cyanophycinase. This group contains proteins similar to the extracellular cyanophycinases from Pseudomonas anguilliseptica BI (CphE) and Synechocystis sp. PCC 6803 CphB. Cyanophycinases are intracellular exopeptidases which hydrolyze the polymer cyanophycin (multi L-arginyl-poly-L-aspartic acid) to the dipeptide beta-Asp-Arg. Cyanophycinase is believed to be a serine-type exopeptidase having a Ser-His-Glu catalytic triad which differs from the Cys-His-Glu catalytic triad typical of GATase1 domains by having a Ser in place of the reactive Cys at the nucleophile elbow.
Probab=39.77 E-value=1.4e+02 Score=25.28 Aligned_cols=84 Identities=11% Similarity=0.123 Sum_probs=49.1
Q ss_pred CHHHHHHHhhhCC-CCccEEEEEccC-----CChhhHHHHHHhCCCe-eeEEeeeccccCCCChHHHHHHcCCCCEEEEe
Q 024773 163 TGKILASELPKNG-KKKCTVLYPASA-----KASNEIEEGLSNRGFE-VVRLNTYTTEPVHHVDQTVLKQALSIPVVAVA 235 (262)
Q Consensus 163 t~e~L~~~l~~~~-~~g~~vL~~~g~-----~~~~~L~~~L~~~G~~-v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFt 235 (262)
....+.+.+.+.. ..+.+++++... ...+.+.+.+++.|+. +..+.+.++... ..+++.+.+...|+|.|+
T Consensus 13 ~~~~i~~~~~~~ag~~~~~i~~iptA~~~~~~~~~~~~~~~~~lG~~~v~~~~~~~~~~a--~~~~~~~~l~~ad~I~~~ 90 (217)
T cd03145 13 DNRAILQRFVARAGGAGARIVVIPAASEEPAEVGEEYRDVFERLGAREVEVLVIDSREAA--NDPEVVARLRDADGIFFT 90 (217)
T ss_pred CHHHHHHHHHHHcCCCCCcEEEEeCCCcChhHHHHHHHHHHHHcCCceeEEeccCChHHc--CCHHHHHHHHhCCEEEEe
Confidence 4445555555443 235677666543 2355677788888884 555555543322 223455556799999999
Q ss_pred CHHHHHHHHHHhcc
Q 024773 236 SPSAVRSWVNLISD 249 (262)
Q Consensus 236 S~s~~~~~~~~~~~ 249 (262)
-..+.+. ++.+.+
T Consensus 91 GG~~~~~-~~~l~~ 103 (217)
T cd03145 91 GGDQLRI-TSALGG 103 (217)
T ss_pred CCcHHHH-HHHHcC
Confidence 8887543 343333
No 413
>TIGR01457 HAD-SF-IIA-hyp2 HAD-superfamily subfamily IIA hydrolase, TIGR01457. This hypothetical equivalog is a member of the Class IIA subfamily of the haloacid dehalogenase superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this equivalog are all gram positive (low-GC) bacteria. Sequences found in this model are annotated variously as related to NagD or 4-nitrophenyl phosphatase, and this hypothetical equivalog, of all of those within the Class IIA subfamily, is most closely related to the E. coli NagD enzyme and the PGP_euk equivalog (TIGR01452). However, there is presently no evidence that this hypothetical equivalog has the same function of either those.
Probab=39.74 E-value=1.9e+02 Score=24.94 Aligned_cols=81 Identities=12% Similarity=0.168 Sum_probs=47.9
Q ss_pred ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccE---EEEeCHHHHHHHHHHHHHcCCCCcEEEEeChh
Q 024773 61 KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDW---IIITSPEAGSVFLEAWKEAGTPNVRIGVVGAG 137 (262)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~---IiFTS~~aV~~f~~~l~~~~~~~~~i~aVG~~ 137 (262)
+..+..+.|++.|..+..+. .......+.+.+.++.++ ++. =|+||..++..++... + ...+++.+|..
T Consensus 21 ~a~~~l~~l~~~g~~~~~~T---nn~~r~~~~~~~~l~~~g-~~~~~~~iit~~~~~~~~l~~~---~-~~~~v~~lg~~ 92 (249)
T TIGR01457 21 EAETFVHELQKRDIPYLFVT---NNSTRTPESVAEMLASFD-IPATLETVFTASMATADYMNDL---K-LEKTVYVIGEE 92 (249)
T ss_pred CHHHHHHHHHHCCCeEEEEe---CCCCCCHHHHHHHHHHcC-CCCChhhEeeHHHHHHHHHHhc---C-CCCEEEEEcCh
Confidence 35677888888887766542 111111233444454442 333 3789988887776532 1 24578888864
Q ss_pred -HHHHHHHhhhhcCCCCce
Q 024773 138 -TASIFEEVIQSSKCSLDV 155 (262)
Q Consensus 138 -Ta~~L~~~~~~~~~G~~~ 155 (262)
-.+.++++ |+..
T Consensus 93 ~l~~~l~~~------g~~~ 105 (249)
T TIGR01457 93 GLKEAIKEA------GYVE 105 (249)
T ss_pred hHHHHHHHc------CCEe
Confidence 55677777 8753
No 414
>PRK05866 short chain dehydrogenase; Provisional
Probab=39.71 E-value=80 Score=27.79 Aligned_cols=36 Identities=6% Similarity=0.139 Sum_probs=27.6
Q ss_pred ccCCCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEE
Q 024773 43 SASASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLE 78 (262)
Q Consensus 43 ~~~~~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~ 78 (262)
+....+.|++|+||..... ...+++.|.++|++|..
T Consensus 33 ~~~~~~~~k~vlItGasggIG~~la~~La~~G~~Vi~ 69 (293)
T PRK05866 33 RQPVDLTGKRILLTGASSGIGEAAAEQFARRGATVVA 69 (293)
T ss_pred CCCcCCCCCEEEEeCCCcHHHHHHHHHHHHCCCEEEE
Confidence 3345678899999987654 46788999999988764
No 415
>PRK08213 gluconate 5-dehydrogenase; Provisional
Probab=39.65 E-value=53 Score=27.93 Aligned_cols=79 Identities=14% Similarity=0.068 Sum_probs=45.6
Q ss_pred cchhccccccccCCCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC-CccE--EEE
Q 024773 33 SRIQASSDATSASASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT-IFDW--III 108 (262)
Q Consensus 33 ~~~~~~~~~~~~~~~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~-~~d~--IiF 108 (262)
+|.|. ..+.|+++|||..... ...+++.|.++|++|+.+. +.. ...+.+...+...+ ..++ .=+
T Consensus 3 ~~~~~--------~~~~~k~ilItGa~g~IG~~la~~l~~~G~~V~~~~--r~~--~~~~~~~~~i~~~~~~~~~~~~Dl 70 (259)
T PRK08213 3 TVLEL--------FDLSGKTALVTGGSRGLGLQIAEALGEAGARVVLSA--RKA--EELEEAAAHLEALGIDALWIAADV 70 (259)
T ss_pred cchhh--------hCcCCCEEEEECCCchHHHHHHHHHHHcCCEEEEEe--CCH--HHHHHHHHHHHhcCCeEEEEEccC
Confidence 56676 5578999999987554 4678899999999765431 110 11112222222111 1222 124
Q ss_pred eCHHHHHHHHHHHHH
Q 024773 109 TSPEAGSVFLEAWKE 123 (262)
Q Consensus 109 TS~~aV~~f~~~l~~ 123 (262)
++..+++.+++.+.+
T Consensus 71 ~d~~~i~~~~~~~~~ 85 (259)
T PRK08213 71 ADEADIERLAEETLE 85 (259)
T ss_pred CCHHHHHHHHHHHHH
Confidence 778888877776654
No 416
>cd06284 PBP1_LacI_like_6 Ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group includes the ligand-binding domain of an uncharacterized transcription regulator from Actinobacillus succinogenes and its close homologs from other bacteria. This group belongs to the the LacI-GalR family repressors and 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.
Probab=39.59 E-value=1.7e+02 Score=24.44 Aligned_cols=73 Identities=16% Similarity=0.022 Sum_probs=39.1
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024773 65 LIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (262)
Q Consensus 65 l~~~L~~~G~~v~~~P~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~ 137 (262)
+.+.++++|.++.....+......+ ...+...+..-...|+|+.+|......+...+.+.+. +++.+++++..
T Consensus 137 f~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~~~~a~g~~~al~~~g~~~p~~v~v~g~d~~ 214 (267)
T cd06284 137 YRQALAEAGLPADEELIQEGDFSLESGYAAARRLLALPDRPTAIFCFSDEMAIGAISALKELGLRVPEDISVVGFDDI 214 (267)
T ss_pred HHHHHHHcCCCCCcceEEeCCCChHHHHHHHHHHHhCCCCCcEEEEcCcHHHHHHHHHHHHcCCCCccceeEEEeCCH
Confidence 4456677775543222221111111 1223344433345788888887776677777777664 35667777654
No 417
>PRK14179 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=39.52 E-value=2.8e+02 Score=24.81 Aligned_cols=162 Identities=9% Similarity=0.054 Sum_probs=86.5
Q ss_pred eEEEeCCCCChHHHH----HHHHhCCCcEEEeceEEeeeCCCchHHHHHHh---cCCCccEEEEeCHH--HH--HHHHHH
Q 024773 52 KVVVTRERGKNGKLI----KALAKHRIDCLELPLIQHAQGPDTDRLSSVLN---ADTIFDWIIITSPE--AG--SVFLEA 120 (262)
Q Consensus 52 ~VLitR~~~~~~~l~----~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~---~l~~~d~IiFTS~~--aV--~~f~~~ 120 (262)
-++....+..+..+. +..++.|+++..+-+-+. ...+++.+.+. ...+.|.|+.--|- .+ +..++.
T Consensus 36 aii~vg~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~---~~~~~l~~~I~~lN~d~~V~GIivqlPlp~~i~~~~i~~~ 112 (284)
T PRK14179 36 VVILVGDNPASQVYVRNKERSALAAGFKSEVVRLPET---ISQEELLDLIERYNQDPTWHGILVQLPLPKHINEEKILLA 112 (284)
T ss_pred EEEEeCCChhHHHHHHHHHHHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHhCCCCCCEEEEcCCCCCCCCHHHHHhc
Confidence 344554444444444 456677988876544322 12334444444 44678999988662 22 112222
Q ss_pred HHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC--CCccEEEEEcc-CCChhhHHHHH
Q 024773 121 WKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPAS-AKASNEIEEGL 197 (262)
Q Consensus 121 l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~g~~vL~~~g-~~~~~~L~~~L 197 (262)
+.. .+.|=++.+.-...|- . |-. .+.| -|+.+.++.|..+. ..|+++.++.- ..-..-|...|
T Consensus 113 I~p----~KDVDGl~~~N~g~l~-~------~~~-~~~P--cTp~avi~lL~~~~i~l~Gk~v~vIG~S~ivG~Pla~lL 178 (284)
T PRK14179 113 IDP----KKDVDGFHPMNTGHLW-S------GRP-VMIP--CTPAGIMEMFREYNVELEGKHAVVIGRSNIVGKPMAQLL 178 (284)
T ss_pred cCc----cccccccCHhhHHHHh-C------CCC-CCcC--CCHHHHHHHHHHhCCCCCCCEEEEECCCCcCcHHHHHHH
Confidence 211 2222233332222221 1 321 2344 48888888877653 46888887766 66667788999
Q ss_pred HhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHH
Q 024773 198 SNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPS 238 (262)
Q Consensus 198 ~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s 238 (262)
.++|++|+-+ .... .. +.+.....|+|+..-+.
T Consensus 179 ~~~gatVtv~---~s~t--~~---l~~~~~~ADIVI~avg~ 211 (284)
T PRK14179 179 LDKNATVTLT---HSRT--RN---LAEVARKADILVVAIGR 211 (284)
T ss_pred HHCCCEEEEE---CCCC--CC---HHHHHhhCCEEEEecCc
Confidence 9999988544 2111 12 22223577877766544
No 418
>PRK06196 oxidoreductase; Provisional
Probab=39.48 E-value=2.7e+02 Score=24.55 Aligned_cols=71 Identities=15% Similarity=0.118 Sum_probs=44.4
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEE--EEeCHHHHHHHHHHHHH
Q 024773 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWI--IITSPEAGSVFLEAWKE 123 (262)
Q Consensus 47 ~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~I--iFTS~~aV~~f~~~l~~ 123 (262)
.+.|++|+||..... ...+++.|.++|++|+..- + +.+...+....+....++ =+++..+++.+++.+.+
T Consensus 23 ~l~~k~vlITGasggIG~~~a~~L~~~G~~Vv~~~--R-----~~~~~~~~~~~l~~v~~~~~Dl~d~~~v~~~~~~~~~ 95 (315)
T PRK06196 23 DLSGKTAIVTGGYSGLGLETTRALAQAGAHVIVPA--R-----RPDVAREALAGIDGVEVVMLDLADLESVRAFAERFLD 95 (315)
T ss_pred CCCCCEEEEeCCCchHHHHHHHHHHHCCCEEEEEe--C-----CHHHHHHHHHHhhhCeEEEccCCCHHHHHHHHHHHHh
Confidence 467899999988654 4678899999999876431 1 112222222222222322 25789999998887765
Q ss_pred c
Q 024773 124 A 124 (262)
Q Consensus 124 ~ 124 (262)
.
T Consensus 96 ~ 96 (315)
T PRK06196 96 S 96 (315)
T ss_pred c
Confidence 3
No 419
>PRK07206 hypothetical protein; Provisional
Probab=39.45 E-value=3.1e+02 Score=25.29 Aligned_cols=66 Identities=20% Similarity=0.101 Sum_probs=40.4
Q ss_pred CCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEE-----------------eeeCCCchHHHHHHhcCCCccEEEEeCHH
Q 024773 50 NPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQ-----------------HAQGPDTDRLSSVLNADTIFDWIIITSPE 112 (262)
Q Consensus 50 g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~-----------------~~~~~~~~~l~~~l~~l~~~d~IiFTS~~ 112 (262)
.|++++..+......+.+.++++|++++.+-.-. .....+.+.+.+.++. ...|+|+-++=.
T Consensus 2 ~k~~liv~~~~~~~~~~~a~~~~G~~~v~v~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~l~~~~~~-~~~d~vi~~~e~ 80 (416)
T PRK07206 2 MKKVVIVDPFSSGKFLAPAFKKRGIEPIAVTSSCLLDPYYYASFDTSDFIEVIINGDIDDLVEFLRK-LGPEAIIAGAES 80 (416)
T ss_pred CCeEEEEcCCchHHHHHHHHHHcCCeEEEEEcCCCCchhhhcccCcccchhhhcCCCHHHHHHHHHH-cCCCEEEECCCc
Confidence 3678888887777789999999999887542110 0111122334444433 468888877655
Q ss_pred HHHH
Q 024773 113 AGSV 116 (262)
Q Consensus 113 aV~~ 116 (262)
.+..
T Consensus 81 ~~~~ 84 (416)
T PRK07206 81 GVEL 84 (416)
T ss_pred cHHH
Confidence 5543
No 420
>cd06384 PBP1_NPR_B Ligand-binding domain of type B natriuretic peptide receptor. Ligand-binding domain of type B natriuretic peptide receptor (NPR-B). NPR-B is one of three known single membrane-spanning natriuretic peptide receptors that have been identified. Natriuretic peptides are family of structurally related but genetically distinct hormones/paracrine factors that regulate blood volume, blood pressure, ventricular hypertrophy, pulmonary hypertension, fat metabolism, and long bone growth. In mammals there are three natriuretic peptides: ANP, BNP, and CNP. Like NPR-A (or GC-A), NPR-B (or GC-B) is a transmembrane guanylyl cyclase, an enzyme that catalyzes the synthesis of cGMP. NPR-B is the predominant natriuretic peptide receptor in the brain. The rank of order activation of NPR-B by natriuretic peptides is CNPANPBNP. Homozygous inactivating mutations in human NPR-B cause a form of short-limbed dwarfism known as acromesomelic dysplasia type Maroteaux.
Probab=39.39 E-value=3e+02 Score=25.15 Aligned_cols=60 Identities=7% Similarity=-0.066 Sum_probs=35.8
Q ss_pred hhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHc-CCCCEEEE-eCHHHHHHHHHHhcccC
Q 024773 190 SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA-LSIPVVAV-ASPSAVRSWVNLISDTE 251 (262)
Q Consensus 190 ~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l-~~~d~ivF-tS~s~~~~~~~~~~~~~ 251 (262)
.+.+.+.|++.|++|.....|... .......++.+ .+.++|++ .....+..++..+.+.+
T Consensus 165 ~~~~~~~~~~~gi~v~~~~~~~~~--~~d~~~~l~~ik~~~~vIi~~~~~~~~~~i~~qa~~~g 226 (399)
T cd06384 165 SEGVFLALQEENANVSAHPYHIEK--NSDIIEIIQFIKQNGRIVYICGPLETFLEIMLQAQREG 226 (399)
T ss_pred hHHHHHHHHhcCceEEEEEEeccc--hhhHHHHHHHHhhcccEEEEeCCchHHHHHHHHHHHcC
Confidence 345888899999876543222211 12222333334 37788885 66677888888776654
No 421
>COG2247 LytB Putative cell wall-binding domain [Cell envelope biogenesis, outer membrane]
Probab=39.37 E-value=1.4e+02 Score=27.31 Aligned_cols=53 Identities=23% Similarity=0.200 Sum_probs=36.1
Q ss_pred ceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCC-hhhHHHHHHhCCCeeeEEe
Q 024773 154 DVAFSPSKATGKILASELPKNGKKKCTVLYPASAKA-SNEIEEGLSNRGFEVVRLN 208 (262)
Q Consensus 154 ~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~-~~~L~~~L~~~G~~v~~i~ 208 (262)
++...|=+--.|.+..++.+... ..||+++|..+ .++..+.|+..|+.|.++-
T Consensus 54 ~Vlttpwg~ynes~~~eI~~lnp--d~VLIIGGp~AVs~~yE~~Lks~GitV~Rig 107 (337)
T COG2247 54 PVLTTPWGIYNESVLDEIIELNP--DLVLIIGGPIAVSPNYENALKSLGITVKRIG 107 (337)
T ss_pred eeEecCcccccHHHHHHHHhhCC--ceEEEECCCCcCChhHHHHHHhCCcEEEEec
Confidence 33344523334555666766653 68999999875 7788899999998886653
No 422
>PRK08263 short chain dehydrogenase; Provisional
Probab=39.34 E-value=2.5e+02 Score=24.07 Aligned_cols=81 Identities=14% Similarity=0.041 Sum_probs=44.2
Q ss_pred CCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC-Ccc--EEEEeCHHHHHHHHHHHHHc
Q 024773 49 SNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT-IFD--WIIITSPEAGSVFLEAWKEA 124 (262)
Q Consensus 49 ~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~-~~d--~IiFTS~~aV~~f~~~l~~~ 124 (262)
.+++||||..... ...+++.|.+.|++|...- + +.+.+.......+ ... -.=+++..+++.+++.+.+.
T Consensus 2 ~~k~vlItGasg~iG~~~a~~l~~~g~~V~~~~----r---~~~~~~~~~~~~~~~~~~~~~D~~~~~~~~~~~~~~~~~ 74 (275)
T PRK08263 2 MEKVWFITGASRGFGRAWTEAALERGDRVVATA----R---DTATLADLAEKYGDRLLPLALDVTDRAAVFAAVETAVEH 74 (275)
T ss_pred CCCEEEEeCCCChHHHHHHHHHHHCCCEEEEEE----C---CHHHHHHHHHhccCCeeEEEccCCCHHHHHHHHHHHHHH
Confidence 4678999987653 4678888888998765321 1 1122222221121 111 12257788888877765442
Q ss_pred -CCCCcEEEEeCh
Q 024773 125 -GTPNVRIGVVGA 136 (262)
Q Consensus 125 -~~~~~~i~aVG~ 136 (262)
+.-+.-|.+.|.
T Consensus 75 ~~~~d~vi~~ag~ 87 (275)
T PRK08263 75 FGRLDIVVNNAGY 87 (275)
T ss_pred cCCCCEEEECCCC
Confidence 222445555553
No 423
>cd06281 PBP1_LacI_like_5 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=39.29 E-value=78 Score=26.85 Aligned_cols=73 Identities=18% Similarity=0.132 Sum_probs=41.2
Q ss_pred HHHHHHHhCCCcEEEeceEEeee-CC-CchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQ-GP-DTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~-~~-~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~ 137 (262)
-+.+.++++|.++... .+.... .. ..+.+.+.+..-...|+|+.+|-......+..+.+.+. +++.+++.|..
T Consensus 137 Gf~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~ip~dv~iig~d~~ 214 (269)
T cd06281 137 GYKAAFAAAGLPPDPA-LVRLSTPAASGFDATRALLALPDRPTAIIAGGTQVLVGVLRALREAGLRIPRDLSVISIGDS 214 (269)
T ss_pred HHHHHHHHcCCCCCHH-HeecCcHHHHHHHHHHHHHcCCCCCcEEEEcCcHHHHHHHHHHHHcCCCCCcceeEEEecCc
Confidence 3556777788654211 111111 01 11234444433345788888877777677777777765 36677777743
No 424
>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=39.28 E-value=1.3e+02 Score=25.36 Aligned_cols=73 Identities=16% Similarity=0.180 Sum_probs=42.9
Q ss_pred HHHHHHhCCCcEEEeceEEeeeCCC----chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024773 65 LIKALAKHRIDCLELPLIQHAQGPD----TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (262)
Q Consensus 65 l~~~L~~~G~~v~~~P~~~~~~~~~----~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~ 137 (262)
+.+.++++|..+............. .+.+.+.+..-...|+|+++|-.....+++.+.+.+. +++.|++.+..
T Consensus 142 ~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~av~~~~d~~a~g~~~al~~~g~~~p~dv~vvg~d~~ 221 (273)
T cd01541 142 FIKAYREHGIPFNPSNVITYTTEEKEEKLFEKIKEILKRPERPTAIVCYNDEIALRVIDLLKELGLKIPEDISVVGFDDS 221 (273)
T ss_pred HHHHHHHcCCCCChHHEEeccccchhhHHHHHHHHHHcCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCCcEEEEEcCCc
Confidence 5667777776543222221111111 1233444433356899999988888888888887765 36778877654
No 425
>PRK10355 xylF D-xylose transporter subunit XylF; Provisional
Probab=39.02 E-value=2.9e+02 Score=24.73 Aligned_cols=183 Identities=10% Similarity=0.053 Sum_probs=89.2
Q ss_pred CCCeEEEeCCCCChH-------HHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhc--CCCccEEEEeCHH--HHHHH
Q 024773 49 SNPKVVVTRERGKNG-------KLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNA--DTIFDWIIITSPE--AGSVF 117 (262)
Q Consensus 49 ~g~~VLitR~~~~~~-------~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~--l~~~d~IiFTS~~--aV~~f 117 (262)
.+.+|.+.-+...+. -+.+.++++|+.+....... +.+...+.++. -..+|+||++... .....
T Consensus 24 ~~~~Ig~i~~~~~~~f~~~~~~gi~~~a~~~g~~l~i~~~~~-----~~~~~~~~i~~l~~~~vDGiIi~~~~~~~~~~~ 98 (330)
T PRK10355 24 KEVKIGMAIDDLRLERWQKDRDIFVKKAESLGAKVFVQSANG-----NEETQMSQIENMINRGVDVLVIIPYNGQVLSNV 98 (330)
T ss_pred CCceEEEEecCCCchHHHHHHHHHHHHHHHcCCEEEEECCCC-----CHHHHHHHHHHHHHcCCCEEEEeCCChhhHHHH
Confidence 456666555543332 34455667899888654321 11212222222 2579999998743 33344
Q ss_pred HHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhhCCCCccEEE-EEccCCC------
Q 024773 118 LEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPKNGKKKCTVL-YPASAKA------ 189 (262)
Q Consensus 118 ~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~~~~~g~~vL-~~~g~~~------ 189 (262)
.+.+.+. +++++.++.... .. ++...+.... ..+..+++.|.+.. +++++ +..|...
T Consensus 99 l~~~~~~---~iPvV~id~~~~----~~------~~~~~V~~D~~~~g~~a~~~L~~~g--~~~i~~i~~g~~~~~~~~~ 163 (330)
T PRK10355 99 IKEAKQE---GIKVLAYDRMIN----NA------DIDFYISFDNEKVGELQAKALVDKV--PQGNYFLMGGSPVDNNAKL 163 (330)
T ss_pred HHHHHHC---CCeEEEECCCCC----CC------CccEEEecCHHHHHHHHHHHHHHhc--CCCCEEEEeCCCCCccHHH
Confidence 4444443 578999986321 11 2221123332 34566667776643 34544 3444321
Q ss_pred -hhhHHHHHHhC---C-CeeeEEeeeccccCCCCh-HHHHHHc----CCCCEEEEeCHHHHHHHHHHhcccCC
Q 024773 190 -SNEIEEGLSNR---G-FEVVRLNTYTTEPVHHVD-QTVLKQA----LSIPVVAVASPSAVRSWVNLISDTEQ 252 (262)
Q Consensus 190 -~~~L~~~L~~~---G-~~v~~i~vY~~~~~~~~~-~~~~~~l----~~~d~ivFtS~s~~~~~~~~~~~~~~ 252 (262)
..-+.+.++++ | ..+... .+......... ..+.+.+ ..+++|+..+-..+-..++.+.+.+.
T Consensus 164 R~~gf~~~l~~~~~~~~i~~~~~-~~~~~~~~~~~~~~~~~lL~~~~~~~~aI~~~nD~~A~g~l~al~~~g~ 235 (330)
T PRK10355 164 FRAGQMKVLKPYIDSGKIKVVGD-QWVDGWLPENALKIMENALTANNNKIDAVVASNDATAGGAIQALSAQGL 235 (330)
T ss_pred HHHHHHHHHhhhccCCCeEEecc-cCCCCCCHHHHHHHHHHHHHhCCCCccEEEECCCchHHHHHHHHHHCCC
Confidence 22233445442 3 222111 01100000001 1222223 24799999999988888888876553
No 426
>PRK08248 O-acetylhomoserine aminocarboxypropyltransferase; Validated
Probab=38.96 E-value=3.3e+02 Score=25.66 Aligned_cols=113 Identities=9% Similarity=0.063 Sum_probs=0.0
Q ss_pred ChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccC--CChhhHHHHHHhCCCeeeEEeeecc
Q 024773 135 GAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASA--KASNEIEEGLSNRGFEVVRLNTYTT 212 (262)
Q Consensus 135 G~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~--~~~~~L~~~L~~~G~~v~~i~vY~~ 212 (262)
|.-|.+.|++.+..-..+-...+.+. ...++...+.....+|.+|++.... .....+.+.++..|+++..+.+
T Consensus 62 ~~p~~~~Le~~lA~leg~~~al~~~s--G~~Ai~~al~~ll~~GD~Vlv~~~~y~~t~~~~~~~~~~~Gv~v~~vd~--- 136 (431)
T PRK08248 62 MNPTTDVFEKRIAALEGGIGALAVSS--GQAAITYSILNIASAGDEIVSSSSLYGGTYNLFAHTLPKLGITVKFVDP--- 136 (431)
T ss_pred CCchHHHHHHHHHHHhCCCcEEEECC--HHHHHHHHHHHHhCCCCEEEEccCchhhHHHHHHHHHHhCCEEEEEECC---
Q ss_pred ccCCCChHHHHHHcC-CCCEEEEeCHH-------HHHHHHHHhcccCCCCCeEEE
Q 024773 213 EPVHHVDQTVLKQAL-SIPVVAVASPS-------AVRSWVNLISDTEQWSNSVAC 259 (262)
Q Consensus 213 ~~~~~~~~~~~~~l~-~~d~ivFtS~s-------~~~~~~~~~~~~~~~~~~i~~ 259 (262)
...+++.+.+. +..+|++.++. .++.+.+.++++ +..+++
T Consensus 137 ----~d~e~l~~ai~~~tklV~l~sp~NPtG~v~di~~I~~la~~~---gi~vIv 184 (431)
T PRK08248 137 ----SDPENFEAAITDKTKALFAETIGNPKGDVLDIEAVAAIAHEH---GIPLIV 184 (431)
T ss_pred ----CCHHHHHHhcCCCCeEEEEECCCCCCCcccCHHHHHHHHHHc---CCEEEE
No 427
>COG0436 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]
Probab=38.94 E-value=2.7e+02 Score=25.96 Aligned_cols=89 Identities=13% Similarity=0.087 Sum_probs=55.6
Q ss_pred CCCCHHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccc-cCCCChHHHHHHcC-CCCEEEEeCH
Q 024773 160 SKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTE-PVHHVDQTVLKQAL-SIPVVAVASP 237 (262)
Q Consensus 160 ~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~-~~~~~~~~~~~~l~-~~d~ivFtS~ 237 (262)
.....++|...+.....+|..||++...=. ......+-.|+.+..+.++... .=....+++.+.+. +..+|++.||
T Consensus 95 t~Ga~~al~~~~~a~~~pGDeVlip~P~Y~--~y~~~~~~~gg~~v~v~l~~~~~~f~~d~~~l~~~i~~ktk~i~ln~P 172 (393)
T COG0436 95 TAGAKEALFLAFLALLNPGDEVLIPDPGYP--SYEAAVKLAGGKPVPVPLDEEENGFKPDLEDLEAAITPKTKAIILNSP 172 (393)
T ss_pred eCCHHHHHHHHHHHhcCCCCEEEEeCCCCc--CHHHHHHhcCCEEEEEeCCcCccCCcCCHHHHHhhcCccceEEEEeCC
Confidence 346677777676666667788888887543 4556677788888777776533 11122334444443 5667777655
Q ss_pred ----------HHHHHHHHHhccc
Q 024773 238 ----------SAVRSWVNLISDT 250 (262)
Q Consensus 238 ----------s~~~~~~~~~~~~ 250 (262)
...+.+++.+.++
T Consensus 173 ~NPTGav~~~~~l~~i~~~a~~~ 195 (393)
T COG0436 173 NNPTGAVYSKEELKAIVELAREH 195 (393)
T ss_pred CCCcCcCCCHHHHHHHHHHHHHc
Confidence 4566777776654
No 428
>TIGR01737 FGAM_synth_I phosphoribosylformylglycinamidine synthase I. In some species, phosphoribosylformylglycinamidine synthase is composed of a single polypeptide chain. This model describes the PurQ protein of Bacillus subtilis (where PurL, PurQ, and PurS are required for phosphoribosylformylglycinamidine synthase activity) and functionally equivalent proteins from other bacteria and archaea.
Probab=38.91 E-value=1.6e+02 Score=25.14 Aligned_cols=80 Identities=20% Similarity=0.149 Sum_probs=48.7
Q ss_pred CeEEEeCCCCC--hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHH------------HH
Q 024773 51 PKVVVTRERGK--NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAG------------SV 116 (262)
Q Consensus 51 ~~VLitR~~~~--~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV------------~~ 116 (262)
+||+|.+.... ..++.+.|++.|+++..++.- +. .+.++|.||+.-.... ..
T Consensus 1 ~~v~Vl~~~G~n~~~~~~~al~~~G~~~~~i~~~------~~--------~l~~~d~lilpGG~~~~d~~~~~~~~~~~~ 66 (227)
T TIGR01737 1 MKVAVIRFPGTNCDRDTVYALRLLGVDAEIVWYE------DG--------SLPDYDGVVLPGGFSYGDYLRAGAIAAASP 66 (227)
T ss_pred CeEEEEeCCCcCcHHHHHHHHHHCCCeEEEEecC------CC--------CCCCCCEEEECCCCcccccccccchhcchH
Confidence 46777766543 346889999999998877431 11 1467899999875321 11
Q ss_pred HHHHHHHcCCCCcEEEEeChhHHHHHHHh
Q 024773 117 FLEAWKEAGTPNVRIGVVGAGTASIFEEV 145 (262)
Q Consensus 117 f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~ 145 (262)
+.+.+.+....+.++++|.-.. +.|-+.
T Consensus 67 ~~~~l~~~~~~g~pvlgIC~G~-QlLa~~ 94 (227)
T TIGR01737 67 IMQEVREFAEKGVPVLGICNGF-QILVEA 94 (227)
T ss_pred HHHHHHHHHHcCCEEEEECHHH-HHHHHc
Confidence 2222332222467899888754 566665
No 429
>cd08551 Fe-ADH iron-containing alcohol dehydrogenases (Fe-ADH)-like. Large metal-containing alcohol dehydrogenases (ADH), known as iron-containing alcohol dehydrogenases. They contain a dehydroquinate synthase-like protein structural fold and mostly contain iron. They are distinct from other alcohol dehydrogenases which contains different protein domains. There are several distinct families of alcohol dehydrogenases: Zinc-containing long-chain alcohol dehydrogenases; insect-type, or short-chain alcohol dehydrogenases; iron-containing alcohol dehydrogenases, and others. The iron-containing family has a Rossmann fold-like topology that resembles the fold of the zinc-dependent alcohol dehydrogenases, but lacks sequence homology, and differs in strand arrangement. ADH catalyzes the reversible oxidation of alcohol to acetaldehyde with the simultaneous reduction of NAD(P)+ to NAD(P)H.
Probab=38.88 E-value=78 Score=29.03 Aligned_cols=69 Identities=13% Similarity=0.094 Sum_probs=39.8
Q ss_pred HHHHHHHhhhCCCCccEEEEEccCCCh-----hhHHHHHHhCCCeeeEEeeeccccCCCChH---HHHHHc--CCCCEEE
Q 024773 164 GKILASELPKNGKKKCTVLYPASAKAS-----NEIEEGLSNRGFEVVRLNTYTTEPVHHVDQ---TVLKQA--LSIPVVA 233 (262)
Q Consensus 164 ~e~L~~~l~~~~~~g~~vL~~~g~~~~-----~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~---~~~~~l--~~~d~iv 233 (262)
.+.+.+.+.+.. .++++++++.... +.+.+.|++.|+.+ .+|.....+...+ +..+.+ .++|.|+
T Consensus 11 l~~l~~~l~~~~--~~~~lvv~~~~~~~~~~~~~v~~~L~~~~~~~---~~~~~~~~~p~~~~v~~~~~~~~~~~~d~Ii 85 (370)
T cd08551 11 IEKLGEEIKNLG--GRKALIVTDPGLVKTGVLDKVIDSLKEAGIEV---VIFDGVEPNPTLSNVDAAVAAYREEGCDGVI 85 (370)
T ss_pred HHHHHHHHHHcC--CCeEEEEeCcchhhCccHHHHHHHHHHcCCeE---EEECCCCCCCCHHHHHHHHHHHHhcCCCEEE
Confidence 455555555432 3688888887543 37888898888755 4555433333322 233333 2788888
Q ss_pred EeCH
Q 024773 234 VASP 237 (262)
Q Consensus 234 FtS~ 237 (262)
=--+
T Consensus 86 aiGG 89 (370)
T cd08551 86 AVGG 89 (370)
T ss_pred EeCC
Confidence 4433
No 430
>PRK09082 methionine aminotransferase; Validated
Probab=38.87 E-value=3.1e+02 Score=25.03 Aligned_cols=71 Identities=13% Similarity=0.117 Sum_probs=33.1
Q ss_pred CCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcC-CCCEEEEeCH----------HHHHHHH
Q 024773 176 KKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQAL-SIPVVAVASP----------SAVRSWV 244 (262)
Q Consensus 176 ~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~-~~d~ivFtS~----------s~~~~~~ 244 (262)
.+|.+|+++...-. .....++..|.++..+.+-... -....+++.+.+. +..++++++| ...+.++
T Consensus 113 ~~gd~Vli~~p~y~--~~~~~~~~~g~~~~~~~~~~~~-~~~d~~~l~~~~~~~~~~v~l~~p~NPtG~~~~~~~~~~i~ 189 (386)
T PRK09082 113 RPGDEVIVFDPSYD--SYAPAIELAGGRAVRVALQPPD-FRVDWQRFAAAISPRTRLIILNTPHNPSGTVWSAADMRALW 189 (386)
T ss_pred CCCCEEEEeCCCch--hhHHHHHHcCCEEEEEecCccc-ccCCHHHHHHhcCccceEEEEeCCCCCCCcCCCHHHHHHHH
Confidence 34566666554322 3444555566666555553211 1112233333332 4556666433 4455556
Q ss_pred HHhcc
Q 024773 245 NLISD 249 (262)
Q Consensus 245 ~~~~~ 249 (262)
+.+++
T Consensus 190 ~~a~~ 194 (386)
T PRK09082 190 QLIAG 194 (386)
T ss_pred HHHHH
Confidence 55554
No 431
>cd01121 Sms Sms (bacterial radA) DNA repair protein. This protein is not related to archael radA any more than is to other RecA-like NTPases. Sms has a role in recombination and recombinational repair and is responsible for the stabilization or processing of branched DNA molecules.
Probab=38.78 E-value=2.3e+02 Score=26.29 Aligned_cols=59 Identities=17% Similarity=0.208 Sum_probs=37.3
Q ss_pred CccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHc--CCCCEEEEeCHHH
Q 024773 177 KKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVASPSA 239 (262)
Q Consensus 177 ~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l--~~~d~ivFtS~s~ 239 (262)
.+++++|+.++...+.+.......|+..+.+.++.. ...+.+.+.+ .+++.|++=|-++
T Consensus 109 ~g~~VlYvs~EEs~~qi~~Ra~rlg~~~~~l~l~~e----~~le~I~~~i~~~~~~lVVIDSIq~ 169 (372)
T cd01121 109 RGGKVLYVSGEESPEQIKLRADRLGISTENLYLLAE----TNLEDILASIEELKPDLVIIDSIQT 169 (372)
T ss_pred cCCeEEEEECCcCHHHHHHHHHHcCCCcccEEEEcc----CcHHHHHHHHHhcCCcEEEEcchHH
Confidence 357899999988887777777777777776666542 2223343333 2667777655433
No 432
>PRK05993 short chain dehydrogenase; Provisional
Probab=38.68 E-value=2.6e+02 Score=24.07 Aligned_cols=66 Identities=12% Similarity=0.134 Sum_probs=39.8
Q ss_pred CCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEE--EEeCHHHHHHHHHHHHH
Q 024773 49 SNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWI--IITSPEAGSVFLEAWKE 123 (262)
Q Consensus 49 ~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~I--iFTS~~aV~~f~~~l~~ 123 (262)
.+++|+||..... ...+++.|.+.|++|+..- + +.+.+.. +... ..+++ =+++..+++.+++.+.+
T Consensus 3 ~~k~vlItGasggiG~~la~~l~~~G~~Vi~~~----r---~~~~~~~-l~~~-~~~~~~~Dl~d~~~~~~~~~~~~~ 71 (277)
T PRK05993 3 MKRSILITGCSSGIGAYCARALQSDGWRVFATC----R---KEEDVAA-LEAE-GLEAFQLDYAEPESIAALVAQVLE 71 (277)
T ss_pred CCCEEEEeCCCcHHHHHHHHHHHHCCCEEEEEE----C---CHHHHHH-HHHC-CceEEEccCCCHHHHHHHHHHHHH
Confidence 3678999988654 4678899999999876531 1 1122222 2121 22222 35778888888776643
No 433
>PF03709 OKR_DC_1_N: Orn/Lys/Arg decarboxylase, N-terminal domain; InterPro: IPR005308 This domain has a flavodoxin-like fold, and is termed the "wing" domain because of its position in the overall 3D structure. Ornithine decarboxylase from Lactobacillus 30a (L30a OrnDC, P43099 from SWISSPROT) is representative of the large, pyridoxal-5'-phosphate-dependent decarboxylases that act on lysine, arginine or ornithine. The crystal structure of the L30a OrnDC has been solved to 3.0 A resolution. Six dimers related by C6 symmetry compose the enzymatically active dodecamer (approximately 106 Da). Each monomer of L30a OrnDC can be described in terms of five sequential folding domains. The amino-terminal domain, residues 1 to 107, consists of a five-stranded beta-sheet termed the "wing" domain. Two wing domains of each dimer project inward towards the centre of the dodecamer and contribute to dodecamer stabilisation [].; GO: 0016831 carboxy-lyase activity; PDB: 3Q16_C 3N75_A 1C4K_A 1ORD_A 2VYC_D.
Probab=38.65 E-value=92 Score=23.53 Aligned_cols=65 Identities=22% Similarity=0.333 Sum_probs=42.3
Q ss_pred hhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCH----HHHHHHHHHhcccCCCCCeEEEEC
Q 024773 190 SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASP----SAVRSWVNLISDTEQWSNSVACIA 261 (262)
Q Consensus 190 ~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~----s~~~~~~~~~~~~~~~~~~i~~IG 261 (262)
...|.+.|++.|.+|....-++- ...+.+....+++|+++-- .....+++.+... ..++||+.++
T Consensus 6 ~~~l~~~L~~~~~~vv~~~~~dd------~~~~i~~~~~i~avvi~~d~~~~~~~~~ll~~i~~~-~~~iPVFl~~ 74 (115)
T PF03709_consen 6 SRELAEALEQRGREVVDADSTDD------ALAIIESFTDIAAVVISWDGEEEDEAQELLDKIRER-NFGIPVFLLA 74 (115)
T ss_dssp HHHHHHHHHHTTTEEEEESSHHH------HHHHHHCTTTEEEEEEECHHHHHHHHHHHHHHHHHH-STT-EEEEEE
T ss_pred HHHHHHHHHHCCCEEEEeCChHH------HHHHHHhCCCeeEEEEEcccccchhHHHHHHHHHHh-CCCCCEEEEe
Confidence 35688889888887744433321 0112222348899999988 7777788887765 4688888775
No 434
>COG0431 Predicted flavoprotein [General function prediction only]
Probab=38.54 E-value=1.3e+02 Score=24.68 Aligned_cols=39 Identities=13% Similarity=0.204 Sum_probs=24.6
Q ss_pred HHHHcCCCCEEEEeCHH-------HHHHHHHHhcccCCCCCeEEEE
Q 024773 222 VLKQALSIPVVAVASPS-------AVRSWVNLISDTEQWSNSVACI 260 (262)
Q Consensus 222 ~~~~l~~~d~ivFtS~s-------~~~~~~~~~~~~~~~~~~i~~I 260 (262)
+.+.+...|+++|.||. .+++.++.+....+.+.+++.+
T Consensus 61 ~~~~i~~aD~li~~tPeYn~s~pg~lKnaiD~l~~~~~~~Kpv~~~ 106 (184)
T COG0431 61 LREAIAAADGLIIATPEYNGSYPGALKNAIDWLSREALGGKPVLLL 106 (184)
T ss_pred HHHHHHhCCEEEEECCccCCCCCHHHHHHHHhCCHhHhCCCcEEEE
Confidence 44545689999999975 5666666665433445554443
No 435
>PRK12744 short chain dehydrogenase; Provisional
Probab=38.48 E-value=2.4e+02 Score=23.74 Aligned_cols=77 Identities=14% Similarity=0.136 Sum_probs=43.3
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCC-CchHHHHHHhcCC-CccEE--EEeCHHHHHHHHHH
Q 024773 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGP-DTDRLSSVLNADT-IFDWI--IITSPEAGSVFLEA 120 (262)
Q Consensus 46 ~~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~-~~~~l~~~l~~l~-~~d~I--iFTS~~aV~~f~~~ 120 (262)
..+.|+++|||..... ...+++.|.+.|++++.+ ..+..... ..+.+.+.+...+ .+..+ =+++..+++.+++.
T Consensus 4 ~~l~~k~vlItGa~~gIG~~~a~~l~~~G~~vv~i-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~D~~~~~~~~~~~~~ 82 (257)
T PRK12744 4 HSLKGKVVLIAGGAKNLGGLIARDLAAQGAKAVAI-HYNSAASKADAEETVAAVKAAGAKAVAFQADLTTAAAVEKLFDD 82 (257)
T ss_pred CCCCCcEEEEECCCchHHHHHHHHHHHCCCcEEEE-ecCCccchHHHHHHHHHHHHhCCcEEEEecCcCCHHHHHHHHHH
Confidence 3467899999987654 467999999999986543 11111111 1112222222211 22222 13788888888876
Q ss_pred HHH
Q 024773 121 WKE 123 (262)
Q Consensus 121 l~~ 123 (262)
+.+
T Consensus 83 ~~~ 85 (257)
T PRK12744 83 AKA 85 (257)
T ss_pred HHH
Confidence 654
No 436
>COG0426 FpaA Uncharacterized flavoproteins [Energy production and conversion]
Probab=38.46 E-value=1e+02 Score=28.88 Aligned_cols=94 Identities=15% Similarity=0.180 Sum_probs=57.6
Q ss_pred CHHHHHHHhhhCC--CCccEEEEEccC--C----ChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEE
Q 024773 163 TGKILASELPKNG--KKKCTVLYPASA--K----ASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAV 234 (262)
Q Consensus 163 t~e~L~~~l~~~~--~~g~~vL~~~g~--~----~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivF 234 (262)
+...+++...++. ++.++|.++-.. + -...+.+.|.+.|..|.-+.+-.. ...++.+.+.+.+++++
T Consensus 229 ~~~~i~~~Y~~W~~~~~~~~V~l~Y~smyg~T~~ma~aiaegl~~~gv~v~~~~~~~~-----~~~eI~~~i~~a~~~vv 303 (388)
T COG0426 229 NPKEIVEAYRDWAEGQPKGKVDLIYDSMYGNTEKMAQAIAEGLMKEGVDVEVINLEDA-----DPSEIVEEILDAKGLVV 303 (388)
T ss_pred CHHHHHHHHHHHHccCCcceEEEEEecccCCHHHHHHHHHHHhhhcCCceEEEEcccC-----CHHHHHHHHhhcceEEE
Confidence 4556666555442 122345444432 2 245677788899987755444333 33566666779999999
Q ss_pred eCHH-------HHHHHHHHhcccCCCCCeEEEEC
Q 024773 235 ASPS-------AVRSWVNLISDTEQWSNSVACIA 261 (262)
Q Consensus 235 tS~s-------~~~~~~~~~~~~~~~~~~i~~IG 261 (262)
-||. .+..++..+......+..+.+.|
T Consensus 304 GsPT~~~~~~p~i~~~l~~v~~~~~~~k~~~vfg 337 (388)
T COG0426 304 GSPTINGGAHPPIQTALGYVLALAPKNKLAGVFG 337 (388)
T ss_pred ecCcccCCCCchHHHHHHHHHhccCcCceEEEEe
Confidence 9996 46666666655445566677666
No 437
>PF03698 UPF0180: Uncharacterised protein family (UPF0180); InterPro: IPR005370 The members of this family are small uncharacterised proteins.
Probab=38.43 E-value=55 Score=23.51 Aligned_cols=37 Identities=22% Similarity=0.459 Sum_probs=24.8
Q ss_pred CCChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeC
Q 024773 187 AKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVAS 236 (262)
Q Consensus 187 ~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS 236 (262)
+.+..++.+.|++.|++|..+.-+. .++++|++|.|-
T Consensus 7 E~~Ls~v~~~L~~~GyeVv~l~~~~-------------~~~~~daiVvtG 43 (80)
T PF03698_consen 7 EEGLSNVKEALREKGYEVVDLENEQ-------------DLQNVDAIVVTG 43 (80)
T ss_pred cCCchHHHHHHHHCCCEEEecCCcc-------------ccCCcCEEEEEC
Confidence 3455689999999999886655222 124667777664
No 438
>PRK14178 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=38.27 E-value=2.9e+02 Score=24.65 Aligned_cols=162 Identities=13% Similarity=0.104 Sum_probs=87.5
Q ss_pred eEEEeCCCCChHHH----HHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh---cCCCccEEEEeCHH--HHH--HHHHH
Q 024773 52 KVVVTRERGKNGKL----IKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN---ADTIFDWIIITSPE--AGS--VFLEA 120 (262)
Q Consensus 52 ~VLitR~~~~~~~l----~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~---~l~~~d~IiFTS~~--aV~--~f~~~ 120 (262)
-++....+..+..+ .+..++.|+++..+-+-+. ...+++.+.+. ...+.|.|+.--|- .++ ..++.
T Consensus 30 aii~vg~d~as~~Yv~~k~k~~~~~Gi~~~~~~l~~~---~~~~el~~~I~~lN~D~~V~GIlvqlPLp~~i~~~~v~~~ 106 (279)
T PRK14178 30 ATVIVGDDPASQMYVRMKHRACERVGIGSVGIELPGD---ATTRTVLERIRRLNEDPDINGILVQLPLPKGVDTERVIAA 106 (279)
T ss_pred EEEEeCCChhHHHHHHHHHHHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHhCCCCCCeEEEcCCCCCCCCHHHHHhc
Confidence 34445444444333 3455567988765544221 12234444444 44678999998772 221 22222
Q ss_pred HHHc-CCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC--CCccEEEEEccC-CChhhHHHH
Q 024773 121 WKEA-GTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPASA-KASNEIEEG 196 (262)
Q Consensus 121 l~~~-~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~g~~vL~~~g~-~~~~~L~~~ 196 (262)
+... ..|...-.-.|. |- . |-. .+.| -|+.+.++.|..+. ..|++++++.-. .....|...
T Consensus 107 I~p~KDVDGl~~~n~g~-----l~-~------~~~-~~~P--cTp~av~~ll~~~~i~l~Gk~V~ViGrs~~vGrpla~l 171 (279)
T PRK14178 107 ILPEKDVDGFHPLNLGR-----LV-S------GLP-GFAP--CTPNGIMTLLHEYKISIAGKRAVVVGRSIDVGRPMAAL 171 (279)
T ss_pred cCcccCcccCChhhHHH-----Hh-C------CCC-CCCC--CCHHHHHHHHHHcCCCCCCCEEEEECCCccccHHHHHH
Confidence 2111 123333232332 21 1 322 2444 48889988877653 467887766554 556678888
Q ss_pred HHhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHHH
Q 024773 197 LSNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPSA 239 (262)
Q Consensus 197 L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s~ 239 (262)
|...|+.|+.+.-++ ..+.+.+...|+++-+-+..
T Consensus 172 L~~~~atVtv~hs~t--------~~L~~~~~~ADIvI~Avgk~ 206 (279)
T PRK14178 172 LLNADATVTICHSKT--------ENLKAELRQADILVSAAGKA 206 (279)
T ss_pred HHhCCCeeEEEecCh--------hHHHHHHhhCCEEEECCCcc
Confidence 888998875544221 12334456889888877644
No 439
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=38.20 E-value=3.7e+02 Score=26.42 Aligned_cols=19 Identities=16% Similarity=0.130 Sum_probs=11.5
Q ss_pred CCCEEEEeCHHHHHHHHHH
Q 024773 228 SIPVVAVASPSAVRSWVNL 246 (262)
Q Consensus 228 ~~d~ivFtS~s~~~~~~~~ 246 (262)
....+..+|..++..-++.
T Consensus 173 g~~g~~~~s~e~i~~a~~~ 191 (538)
T PRK15424 173 GMTGIFIYSAATVRQAFED 191 (538)
T ss_pred CCceEEecCHHHHHHHHHH
Confidence 4556666777766655544
No 440
>cd01976 Nitrogenase_MoFe_alpha Nitrogenase_MoFe_alpha_II: Nitrogenase MoFe protein, beta subunit. A group of proteins similar to the alpha subunit of the MoFe protein of the molybdenum (Mo-) nitrogenase. The nitrogenase enzyme catalyzes the ATP-dependent reduction of dinitrogen to ammonia. The Mo-nitrogenase is the most widespread and best characterized of these systems. Mo-nitrogenase consists of the MoFe protein (component 1) and the Fe protein (component 2). MoFe is an alpha2beta2 tetramer. Each alphabeta pair of MoFe contains one P-cluster (at the alphabeta interface) and, one molecule of iron molybdenum cofactor (FeMoco) contained within the alpha subunit. The Fe protein contains a single [4Fe-4S] cluster. Electrons are transferred from the [4Fe-4S] cluster of the Fe protein to the P-cluster of the MoFe and in turn to FeMoCo, the site of substrate reduction.
Probab=38.07 E-value=2.9e+02 Score=25.97 Aligned_cols=97 Identities=8% Similarity=-0.005 Sum_probs=56.6
Q ss_pred CCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcC
Q 024773 46 ASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAG 125 (262)
Q Consensus 46 ~~l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~ 125 (262)
..+.||+|++.-+......+...+++.|.+|...-+ ... +.....+.+..+. .+.++.-.++ ...+.+.+.+.
T Consensus 296 ~~L~Gkrv~i~~g~~~~~~~~~~l~elGmevv~~g~---~~~-~~~~~~~~~~~~~-~~~~i~~~~d-~~e~~~~i~~~- 368 (421)
T cd01976 296 PRLEGKTVMLYVGGLRPRHYIGAYEDLGMEVVGTGY---EFA-HRDDYERTEVIPK-EGTLLYDDVT-HYELEEFVKRL- 368 (421)
T ss_pred HHcCCCEEEEECCCCcHHHHHHHHHHCCCEEEEEEe---ecC-CHHHHhhHHhhcC-CceEEEcCCC-HHHHHHHHHHh-
Confidence 458899999987665677788899999999996333 211 1222233333333 2455544332 22333444443
Q ss_pred CCCcEEEEeChhHHHHHHHhhhhcCCCCceee
Q 024773 126 TPNVRIGVVGAGTASIFEEVIQSSKCSLDVAF 157 (262)
Q Consensus 126 ~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~ 157 (262)
+..++.-|..-+...++. |+..+.
T Consensus 369 --~pDliig~~~~~~~a~k~------giP~~~ 392 (421)
T cd01976 369 --KPDLIGSGIKEKYVFQKM------GIPFRQ 392 (421)
T ss_pred --CCCEEEecCcchhhhhhc------CCCeEe
Confidence 334665666666666677 887653
No 441
>PF03853 YjeF_N: YjeF-related protein N-terminus; InterPro: IPR004443 The YjeF N-terminal domains occur either as single proteins or fusions with other domains and are commonly associated with enzymes. In bacteria and archaea, YjeF N-terminal domains are often fused to a YjeF C-terminal domain with high structural homology to the members of a ribokinase-like superfamily (see PDOC00806 from PROSITEDOC)and/or belong to operons that encode enzymes of diverse functions: pyridoxal phosphate biosynthetic protein PdxJ; phosphopanteine-protein transferase; ATP/GTP hydrolase; and pyruvate-formate lyase 1-activating enzyme. In plants, the YjeF N-terminal domain is fused to a C-terminal putative pyridoxamine 5'-phosphate oxidase. In eukaryotes, proteins that consist of (Sm)-FDF-YjeF N-terminal domains may be involved in RNA processing [, ]. The YjeF N-terminal domains represent a novel version of the Rossmann fold, one of the most common protein folds in nature observed in numerous enzyme families, that has acquired a set of catalytic residues and structural features that distinguish them from the conventional dehydrogenases. The YjeF N-terminal domain is comprised of a three-layer alpha-beta-alpha sandwich with a central beta-sheet surrounded by helices. The conservation of the acidic residues in the predicted active site of the YjeF N-terminal domains is reminiscent of the presence of such residues in the active sites of diverse hydrolases [, ].; PDB: 3K5W_A 2O8N_A 2DG2_F 3RNO_A 1JZT_B 3D3K_A 3D3J_A 3RSG_A 3RT9_A 3RRF_A ....
Probab=37.95 E-value=88 Score=25.38 Aligned_cols=36 Identities=22% Similarity=0.158 Sum_probs=23.3
Q ss_pred CCccEEEEEccCCC----hhhHHHHHHhCCCeeeEEeeec
Q 024773 176 KKKCTVLYPASAKA----SNEIEEGLSNRGFEVVRLNTYT 211 (262)
Q Consensus 176 ~~g~~vL~~~g~~~----~~~L~~~L~~~G~~v~~i~vY~ 211 (262)
.+.+++++++|.+. .-.+...|.++|+.|.-+.++.
T Consensus 23 ~~~~~v~il~G~GnNGgDgl~~AR~L~~~G~~V~v~~~~~ 62 (169)
T PF03853_consen 23 PKGPRVLILCGPGNNGGDGLVAARHLANRGYNVTVYLVGP 62 (169)
T ss_dssp CTT-EEEEEE-SSHHHHHHHHHHHHHHHTTCEEEEEEEES
T ss_pred cCCCeEEEEECCCCChHHHHHHHHHHHHCCCeEEEEEEec
Confidence 45689999999864 2245668889999876544443
No 442
>PRK13394 3-hydroxybutyrate dehydrogenase; Provisional
Probab=37.93 E-value=1.6e+02 Score=24.68 Aligned_cols=32 Identities=16% Similarity=0.091 Sum_probs=25.3
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEE
Q 024773 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLE 78 (262)
Q Consensus 47 ~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~ 78 (262)
.+.|+++|||..... ...+++.|.++|++|..
T Consensus 4 ~~~~~~vlItGasg~iG~~la~~l~~~G~~v~~ 36 (262)
T PRK13394 4 NLNGKTAVVTGAASGIGKEIALELARAGAAVAI 36 (262)
T ss_pred cCCCCEEEEECCCChHHHHHHHHHHHCCCeEEE
Confidence 356899999988654 46789999999998753
No 443
>PRK08063 enoyl-(acyl carrier protein) reductase; Provisional
Probab=37.85 E-value=1.8e+02 Score=24.31 Aligned_cols=31 Identities=19% Similarity=0.077 Sum_probs=24.6
Q ss_pred CCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEE
Q 024773 48 NSNPKVVVTRERGK-NGKLIKALAKHRIDCLE 78 (262)
Q Consensus 48 l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~ 78 (262)
+.|++++||..... ...+++.|.++|+++..
T Consensus 2 ~~~~~vlItGa~g~iG~~~a~~l~~~g~~v~~ 33 (250)
T PRK08063 2 FSGKVALVTGSSRGIGKAIALRLAEEGYDIAV 33 (250)
T ss_pred CCCCEEEEeCCCchHHHHHHHHHHHCCCEEEE
Confidence 45789999988654 46789999999998763
No 444
>cd06333 PBP1_ABC-type_HAAT_like Type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. This subgroup includes the type I periplasmic binding component of ABC (ATPase Binding Cassette)-type transport systems that are predicted to be involved in uptake of amino acids. Members of this subgroup are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters (HAAT), such as leucine-isoleucine-valine-binding protein (LIVBP); their ligand specificity has not been determined experimentally, however.
Probab=37.67 E-value=2.7e+02 Score=24.13 Aligned_cols=157 Identities=15% Similarity=0.091 Sum_probs=0.0
Q ss_pred HHHHHHhcCCCccEEEEeCHHH-HHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCC-CCHHHHHH
Q 024773 92 RLSSVLNADTIFDWIIITSPEA-GSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSK-ATGKILAS 169 (262)
Q Consensus 92 ~l~~~l~~l~~~d~IiFTS~~a-V~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~ 169 (262)
...+.+-.-.+.+.||..+... .......+.+. +++++.++......-... .+-..+.+.. ..++.+++
T Consensus 56 ~~~~~li~~~~v~~vig~~~s~~~~~~~~~~~~~---~vP~v~~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~ 126 (312)
T cd06333 56 TNARKLIEEDKVDAIIGPSTTPATMAVAPVAEEA---KTPMISLAPAAAIVEPKR------KWVFKTPQNDRLMAEAILA 126 (312)
T ss_pred HHHHHHHhhCCeEEEECCCCCHHHHHHHHHHHhc---CCCEEEccCCccccCCCC------CcEEEcCCCcHHHHHHHHH
Q ss_pred HhhhCCCCccEEEEEccCCC-----hhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcC-CCCEEEEeC-HHHHHH
Q 024773 170 ELPKNGKKKCTVLYPASAKA-----SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQAL-SIPVVAVAS-PSAVRS 242 (262)
Q Consensus 170 ~l~~~~~~g~~vL~~~g~~~-----~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~-~~d~ivFtS-~s~~~~ 242 (262)
.+.+.. .+++.++.++.. .+.+.+.+++.|..+.....|.. ........+.+... +.|+|++.+ ...+-.
T Consensus 127 ~l~~~g--~~~vail~~~~~~~~~~~~~~~~~~~~~G~~v~~~~~~~~-~~~d~~~~~~~l~~~~pdaIi~~~~~~~~~~ 203 (312)
T cd06333 127 DMKKRG--VKTVAFIGFSDAYGESGLKELKALAPKYGIEVVADERYGR-TDTSVTAQLLKIRAARPDAVLIWGSGTPAAL 203 (312)
T ss_pred HHHHcC--CCEEEEEecCcHHHHHHHHHHHHHHHHcCCEEEEEEeeCC-CCcCHHHHHHHHHhCCCCEEEEecCCcHHHH
Q ss_pred HHHHhcccCCCCCeEEEEC
Q 024773 243 WVNLISDTEQWSNSVACIA 261 (262)
Q Consensus 243 ~~~~~~~~~~~~~~i~~IG 261 (262)
+++.+.+. ..+.+++..+
T Consensus 204 ~~~~l~~~-g~~~p~~~~~ 221 (312)
T cd06333 204 PAKNLRER-GYKGPIYQTH 221 (312)
T ss_pred HHHHHHHc-CCCCCEEeec
No 445
>PRK07856 short chain dehydrogenase; Provisional
Probab=37.65 E-value=1.8e+02 Score=24.50 Aligned_cols=33 Identities=12% Similarity=0.072 Sum_probs=26.0
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEe
Q 024773 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLEL 79 (262)
Q Consensus 47 ~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~ 79 (262)
.+.|+++|||..... ...+++.|.+.|++|+.+
T Consensus 3 ~~~~k~~lItGas~gIG~~la~~l~~~g~~v~~~ 36 (252)
T PRK07856 3 DLTGRVVLVTGGTRGIGAGIARAFLAAGATVVVC 36 (252)
T ss_pred CCCCCEEEEeCCCchHHHHHHHHHHHCCCEEEEE
Confidence 467999999988654 467899999999987543
No 446
>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=37.59 E-value=66 Score=25.32 Aligned_cols=50 Identities=14% Similarity=0.199 Sum_probs=34.3
Q ss_pred ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC-CCccEEEEeCHHHH
Q 024773 61 KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD-TIFDWIIITSPEAG 114 (262)
Q Consensus 61 ~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l-~~~d~IiFTS~~aV 114 (262)
....+.+.|++.|+++....... .+.+.+.+.+.+. ..+|.||.|-..++
T Consensus 28 n~~~l~~~l~~~G~~v~~~~~v~----Dd~~~i~~~l~~~~~~~DliIttGG~g~ 78 (144)
T TIGR00177 28 NGPLLAALLEEAGFNVSRLGIVP----DDPEEIREILRKAVDEADVVLTTGGTGV 78 (144)
T ss_pred cHHHHHHHHHHCCCeEEEEeecC----CCHHHHHHHHHHHHhCCCEEEECCCCCC
Confidence 45678889999998887653322 2345556665543 57999999987776
No 447
>PRK01045 ispH 4-hydroxy-3-methylbut-2-enyl diphosphate reductase; Reviewed
Probab=37.59 E-value=3.1e+02 Score=24.74 Aligned_cols=162 Identities=12% Similarity=0.070 Sum_probs=0.0
Q ss_pred CCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCC--
Q 024773 50 NPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTP-- 127 (262)
Q Consensus 50 g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~-- 127 (262)
+.+|....+--.+....+.|+++|..++. +.+ ++.+-+.+||.+=-.-....+.+.+.+..
T Consensus 30 ~~~iytlG~iIHN~~vv~~L~~~GV~~v~----------~~~-------~v~~~~~ViirAHGv~~~~~~~~~~~g~~vi 92 (298)
T PRK01045 30 GAPIYVRHEIVHNRYVVERLEKKGAIFVE----------ELD-------EVPDGAIVIFSAHGVSPAVREEAKERGLTVI 92 (298)
T ss_pred CCCeEEEecCccCHHHHHHHHHCCCEEec----------Ccc-------cCCCCCEEEEeCCCCCHHHHHHHHHCCCeEE
Q ss_pred --CcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHH---------------HHhhhC--CCCccEEEEEccCC
Q 024773 128 --NVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILA---------------SELPKN--GKKKCTVLYPASAK 188 (262)
Q Consensus 128 --~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~---------------~~l~~~--~~~g~~vL~~~g~~ 188 (262)
.++++.--...++.+.+. |+++.+..+....|-.. +.+... ....+-.++----.
T Consensus 93 DaTCP~V~k~~~~v~~~~~~------Gy~vvi~G~~~HpEv~gi~g~~~~~~~vv~~~~e~~~l~~~~~~~v~vvsQTT~ 166 (298)
T PRK01045 93 DATCPLVTKVHKEVARMSRE------GYEIILIGHKGHPEVEGTMGQAPGGVYLVESPEDVAKLEVKDPDKLALVTQTTL 166 (298)
T ss_pred eCCCccchHHHHHHHHHHhC------CCEEEEEeCCCCCeeeeeccCcCCCEEEEcCHHHHhhcccCCCCcEEEEEcCCC
Q ss_pred ChhhHHHHHHhCCCeeeEEee--eccccCCCCh--HHHHHHcCCCCEEEE
Q 024773 189 ASNEIEEGLSNRGFEVVRLNT--YTTEPVHHVD--QTVLKQALSIPVVAV 234 (262)
Q Consensus 189 ~~~~L~~~L~~~G~~v~~i~v--Y~~~~~~~~~--~~~~~~l~~~d~ivF 234 (262)
..+.+.+.....--...++.+ +.|.+..... +++.+..+..|++++
T Consensus 167 ~~~~~~~i~~~l~~~~~~~~v~~~nTIC~aT~~RQ~a~~~La~~vD~miV 216 (298)
T PRK01045 167 SVDDTAEIIAALKERFPEIQGPPKDDICYATQNRQEAVKELAPQADLVIV 216 (298)
T ss_pred cHHHHHHHHHHHHHhCcCcccCCCCCcchhhHHHHHHHHHHHhhCCEEEE
No 448
>TIGR01182 eda Entner-Doudoroff aldolase. 2-deydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) is an enzyme of the Entner-Doudoroff pathway. This aldolase has another function, 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) shown experimentally in Escherichia coli and Pseudomonas putida
Probab=37.58 E-value=1.5e+02 Score=25.08 Aligned_cols=32 Identities=31% Similarity=0.264 Sum_probs=24.5
Q ss_pred CCeEEEeCCCC--ChHHHHHHHHhCCCcEEEece
Q 024773 50 NPKVVVTRERG--KNGKLIKALAKHRIDCLELPL 81 (262)
Q Consensus 50 g~~VLitR~~~--~~~~l~~~L~~~G~~v~~~P~ 81 (262)
.+-|.|.|... ...++.+.|-+.|++++++++
T Consensus 8 ~~liaVlr~~~~e~a~~~~~al~~~Gi~~iEit~ 41 (204)
T TIGR01182 8 AKIVPVIRIDDVDDALPLAKALIEGGLRVLEVTL 41 (204)
T ss_pred CCEEEEEecCCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 34466777765 345788899999999999988
No 449
>PRK12829 short chain dehydrogenase; Provisional
Probab=37.55 E-value=1.6e+02 Score=24.80 Aligned_cols=34 Identities=15% Similarity=0.084 Sum_probs=26.4
Q ss_pred CCCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEe
Q 024773 46 ASNSNPKVVVTRERGK-NGKLIKALAKHRIDCLEL 79 (262)
Q Consensus 46 ~~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~ 79 (262)
..+.++++|||..... ...+++.|.++|++|..+
T Consensus 7 ~~~~~~~vlItGa~g~iG~~~a~~L~~~g~~V~~~ 41 (264)
T PRK12829 7 KPLDGLRVLVTGGASGIGRAIAEAFAEAGARVHVC 41 (264)
T ss_pred hccCCCEEEEeCCCCcHHHHHHHHHHHCCCEEEEE
Confidence 4477899999988654 467888999999986543
No 450
>TIGR01755 flav_wrbA NAD(P)H:quinone oxidoreductase, type IV. This model represents a protein, WrbA, related to and slightly larger than flavodoxin. It was just shown, in E. coli and Archaeoglobus fulgidus (and previously for some eukaryotic homologs) to act as fourth type of NAD(P)H:quinone oxidoreductase. In E. coli, this protein was earlier reported to be produced during stationary phase, bind to the trp repressor, and make trp operon repression more efficient. WrbA does not interact with the trp operator by itself. Members are found in species in which homologs of the E. coli trp operon repressor TrpR are not detected.
Probab=37.55 E-value=1.3e+02 Score=25.02 Aligned_cols=36 Identities=6% Similarity=0.123 Sum_probs=22.5
Q ss_pred cCCCCEEEEeCHH-------HHHHHHHHhcccC----CCCCeEEEEC
Q 024773 226 ALSIPVVAVASPS-------AVRSWVNLISDTE----QWSNSVACIA 261 (262)
Q Consensus 226 l~~~d~ivFtS~s-------~~~~~~~~~~~~~----~~~~~i~~IG 261 (262)
+...|.|+|-||. .++.|++.+.... +.+.+++.+|
T Consensus 66 l~~aD~ii~GSPty~g~~~~~lk~fld~~~~~~~~~~l~gK~~~~f~ 112 (197)
T TIGR01755 66 LADYDAIIFGTPTRFGNMASQMRNFLDQTGGLWASGALVGKVGSVFT 112 (197)
T ss_pred HHHCCEEEEEecccccCccHHHHHHHHhccccccccccCCCEEEEEE
Confidence 4578999999976 3566666664321 2345655554
No 451
>PRK10014 DNA-binding transcriptional repressor MalI; Provisional
Probab=37.53 E-value=1.3e+02 Score=26.64 Aligned_cols=25 Identities=8% Similarity=-0.049 Sum_probs=14.8
Q ss_pred CCccEEEEeCHHHHHHHHHHHHHcC
Q 024773 101 TIFDWIIITSPEAGSVFLEAWKEAG 125 (262)
Q Consensus 101 ~~~d~IiFTS~~aV~~f~~~l~~~~ 125 (262)
...++|+..+-...-..++.+.+.+
T Consensus 242 ~~~~ai~~~nd~~A~g~~~~l~~~g 266 (342)
T PRK10014 242 PTISAVVCYNETIAMGAWFGLLRAG 266 (342)
T ss_pred CCCCEEEECCcHHHHHHHHHHHHcC
Confidence 3466777666655555555555554
No 452
>PRK07114 keto-hydroxyglutarate-aldolase/keto-deoxy-phosphogluconate aldolase; Provisional
Probab=37.36 E-value=2.6e+02 Score=24.06 Aligned_cols=141 Identities=12% Similarity=0.102 Sum_probs=69.7
Q ss_pred CeEEEeCCCC--ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC-CCc-cEE----EEeCHHHHHHHHH---
Q 024773 51 PKVVVTRERG--KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD-TIF-DWI----IITSPEAGSVFLE--- 119 (262)
Q Consensus 51 ~~VLitR~~~--~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l-~~~-d~I----iFTS~~aV~~f~~--- 119 (262)
+-|-|.|... ...++.+.|.+.|+.++++++-.-.. .+.++...... .+| +.+ ..+++..++...+
T Consensus 16 ~vi~Vvr~~~~~~a~~~~~al~~gGi~~iEiT~~tp~a---~~~i~~l~~~~~~~~p~~~vGaGTVl~~e~a~~a~~aGA 92 (222)
T PRK07114 16 GMVPVFYHADVEVAKKVIKACYDGGARVFEFTNRGDFA---HEVFAELVKYAAKELPGMILGVGSIVDAATAALYIQLGA 92 (222)
T ss_pred CEEEEEEcCCHHHHHHHHHHHHHCCCCEEEEeCCCCcH---HHHHHHHHHHHHhhCCCeEEeeEeCcCHHHHHHHHHcCC
Confidence 3445666654 45678889999999999987733211 12222111111 122 222 3455555555433
Q ss_pred --------------HHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEc
Q 024773 120 --------------AWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPA 185 (262)
Q Consensus 120 --------------~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~ 185 (262)
.+.+. --.+.-|-.|-..+.+..+++..-+ .+.|.....-..++.|..-. + .--+++.
T Consensus 93 ~FiVsP~~~~~v~~~~~~~----~i~~iPG~~TpsEi~~A~~~Ga~~v--KlFPA~~~G~~~ikal~~p~-p-~i~~~pt 164 (222)
T PRK07114 93 NFIVTPLFNPDIAKVCNRR----KVPYSPGCGSLSEIGYAEELGCEIV--KLFPGSVYGPGFVKAIKGPM-P-WTKIMPT 164 (222)
T ss_pred CEEECCCCCHHHHHHHHHc----CCCEeCCCCCHHHHHHHHHCCCCEE--EECcccccCHHHHHHHhccC-C-CCeEEeC
Confidence 22221 1234445555554444433332222 24554433344455554332 2 2335577
Q ss_pred cCCCh--hhHHHHHHhCCCe
Q 024773 186 SAKAS--NEIEEGLSNRGFE 203 (262)
Q Consensus 186 g~~~~--~~L~~~L~~~G~~ 203 (262)
|.... +++.+.|+ .|+.
T Consensus 165 GGV~~~~~n~~~yl~-aGa~ 183 (222)
T PRK07114 165 GGVEPTEENLKKWFG-AGVT 183 (222)
T ss_pred CCCCcchhcHHHHHh-CCCE
Confidence 77665 78888886 5653
No 453
>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=37.32 E-value=1e+02 Score=24.37 Aligned_cols=56 Identities=9% Similarity=0.111 Sum_probs=37.3
Q ss_pred HHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCC-----ChhhHHHHHHhCCCe
Q 024773 139 ASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAK-----ASNEIEEGLSNRGFE 203 (262)
Q Consensus 139 a~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~-----~~~~L~~~L~~~G~~ 203 (262)
+..|+.. |+++...+..-+.+.+++...+.. -.++-+.+-. .-..+.+.|+++|..
T Consensus 22 ~~~l~~~------GfeVi~LG~~v~~e~~v~aa~~~~---adiVglS~l~~~~~~~~~~~~~~l~~~gl~ 82 (134)
T TIGR01501 22 DHAFTNA------GFNVVNLGVLSPQEEFIKAAIETK---ADAILVSSLYGHGEIDCKGLRQKCDEAGLE 82 (134)
T ss_pred HHHHHHC------CCEEEECCCCCCHHHHHHHHHHcC---CCEEEEecccccCHHHHHHHHHHHHHCCCC
Confidence 5567777 898888887788888888877653 2343333322 244567788888764
No 454
>PF01276 OKR_DC_1: Orn/Lys/Arg decarboxylase, major domain; InterPro: IPR000310 Pyridoxal-dependent decarboxylases are bacterial proteins acting on ornithine, lysine, arginine and related substrates []. One of the regions of sequence similarity contains a conserved lysine residue, which is the site of attachment of the pyridoxal-phosphate group.; GO: 0003824 catalytic activity; PDB: 1C4K_A 1ORD_A 2X3L_B 3Q16_C 3N75_A 2VYC_D.
Probab=37.31 E-value=51 Score=31.24 Aligned_cols=73 Identities=18% Similarity=0.167 Sum_probs=46.8
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEee-----eCCCc-----hHHHHHHhcCCC---ccEEEEeCHH--
Q 024773 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHA-----QGPDT-----DRLSSVLNADTI---FDWIIITSPE-- 112 (262)
Q Consensus 48 l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~-----~~~~~-----~~l~~~l~~l~~---~d~IiFTS~~-- 112 (262)
-.|.+||+.|...+ .....|.-.|+.+++++..+.. +. +. +.+++.+++... +..+++|||+
T Consensus 104 ~~gd~VLv~RN~Hk--Sv~~alil~ga~Pvyi~p~~~~~gi~~~i-~~~~~~~~~i~~~l~~~p~~k~~~~vvlt~PTY~ 180 (417)
T PF01276_consen 104 RPGDKVLVDRNCHK--SVYNALILSGAIPVYIPPEDNEYGIIGGI-SPDEFNEEDIEEALKEHPDAKAPRLVVLTSPTYY 180 (417)
T ss_dssp TTTCEEEEETT--H--HHHHHHHHHTEEEEEEEEEE-TTS-BEEB--GGGGSHHHHHHHHHHCTTCHCESEEEEESS-TT
T ss_pred CCCCEEEEcCCcHH--HHHHHHHHcCCeEEEecCCccccCCccCC-ChhhhhHHHHHHHHHhCccccCceEEEEeCCCCC
Confidence 35889999998753 4455888889999998876432 22 22 567777765444 5669999997
Q ss_pred ----HHHHHHHHHHH
Q 024773 113 ----AGSVFLEAWKE 123 (262)
Q Consensus 113 ----aV~~f~~~l~~ 123 (262)
-++.+.+.+.+
T Consensus 181 Gv~~di~~I~~~~h~ 195 (417)
T PF01276_consen 181 GVCYDIKEIAEICHK 195 (417)
T ss_dssp SEEE-HHHHHHHHCC
T ss_pred eEEECHHHHHHHhcc
Confidence 45566665544
No 455
>cd06451 AGAT_like Alanine-glyoxylate aminotransferase (AGAT) family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). The major groups in this CD correspond to alanine-glyoxylate aminotransferase (AGAT), serine-glyoxylate aminotransferase (SGAT), and 3-hydroxykynurenine transaminase (HKT). AGAT is a homodimeric protein, which catalyses the transamination of glyoxylate to glycine, and SGAT converts serine and glyoxylate to hydroxypyruvate and glycine. HKT catalyzes the PLP-dependent transamination of 3-hydroxykynurenine, a potentially toxic metabolite of the kynurenine pathway.
Probab=37.26 E-value=99 Score=27.69 Aligned_cols=62 Identities=10% Similarity=0.039 Sum_probs=40.6
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH
Q 024773 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP 111 (262)
Q Consensus 48 l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~ 111 (262)
-.|.+|+++.+..-...+...++..|+++..+|+-.. ...+.+.+++.+.+ .+.+.|+++++
T Consensus 72 ~~g~~vl~~~~~~~~~~~~~~~~~~g~~~~~v~~~~~-~~~~~~~l~~~i~~-~~~~~v~i~~~ 133 (356)
T cd06451 72 EPGDKVLVGVNGVFGDRWADMAERYGADVDVVEKPWG-EAVSPEEIAEALEQ-HDIKAVTLTHN 133 (356)
T ss_pred CCCCEEEEecCCchhHHHHHHHHHhCCCeEEeecCCC-CCCCHHHHHHHHhc-cCCCEEEEecc
Confidence 3588999987644333466777889999999886321 12245566666632 35678888776
No 456
>COG1497 Predicted transcriptional regulator [Transcription]
Probab=37.16 E-value=57 Score=28.56 Aligned_cols=63 Identities=13% Similarity=0.152 Sum_probs=48.0
Q ss_pred EEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEccCCChhhHHHHHHhCCCee
Q 024773 130 RIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPASAKASNEIEEGLSNRGFEV 204 (262)
Q Consensus 130 ~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v 204 (262)
.|+++|...--++++. |+++++.= .+.++.+++- ..|..+|++....-...+.+.|.+.|...
T Consensus 190 ~iaAmG~~a~va~rkl------giePdi~F--g~~~a~ieAa----~rGl~vlvv~t~~ml~~~~~~l~~~~~eY 252 (260)
T COG1497 190 IIAAMGTEALVALRKL------GIEPDIEF--GTLEAAIEAA----VRGLSVLVVITRRMLRYLLRKLEEEGLEY 252 (260)
T ss_pred hhhhhhHHHHHHHHHc------CCCCCeee--cccHHHHHHH----hcCCcEEEEEeHHHHHHHHHHHHhcCCcc
Confidence 6889999999999999 99997642 2344444432 35788888888888778888898888754
No 457
>cd01979 Pchlide_reductase_N Pchlide_reductase_N: N protein of the NB protein complex of Protochlorophyllide (Pchlide)_reductase. Pchlide reductase catalyzes the reductive formation of chlorophyllide (chlide) from protochlorophyllide (pchlide) during biosynthesis of chlorophylls and bacteriochlorophylls. This group contains both the light-independent Pchlide reductase (DPOR) and light-dependent Pchlide reductase (LPOR). Angiosperms contain only LPOR, cyanobacteria, algae and gymnosperms contain both DPOR and LPOR, primitive anoxygenic photosynthetic bacteria contain only DPOR. NB is structurally similar to the FeMo protein of nitrogenase, forming an N2B2 heterotetramer. N and B are homologous to the FeMo alpha and beta subunits respectively. Also in common with nitrogenase in vitro DPOR activity requires ATP hydrolysis and dithoionite or ferredoxin as electron donor. The NB protein complex may serve as a catalytic site for Pchlide reduction similar to MoFe for nitrogen reduction.
Probab=37.07 E-value=1.2e+02 Score=28.20 Aligned_cols=95 Identities=15% Similarity=0.073 Sum_probs=54.5
Q ss_pred CCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcC
Q 024773 46 ASNSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAG 125 (262)
Q Consensus 46 ~~l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~ 125 (262)
..+.||+|.+.-.....-.+.+.|.+.|++|...-. +..+.+.....+..+. .+..+....+ ..-+.+.+.+..
T Consensus 272 ~~l~Gkrv~i~g~~~~~~~la~~L~elGm~vv~~~t----~~~~~~~~~~~~~~l~-~~~~v~~~~d-~~~l~~~i~~~~ 345 (396)
T cd01979 272 DLLRGKSIFFMGDNLLEIPLARFLTRCGMIVVEVGT----PYLDKRFQAAELELLP-PMVRIVEKPD-NYRQLDRIRELR 345 (396)
T ss_pred HhhcCCEEEEECCchHHHHHHHHHHHCCCEEEeeCC----CcCChHHHHHHHHhcC-CCCeEEECCC-HHHHHHHHHhcC
Confidence 457899999886666677899999999999987522 1112121222333333 3444443332 223334444432
Q ss_pred CCCcEEEEeChhHHHHHHHhhhhcCCCCce
Q 024773 126 TPNVRIGVVGAGTASIFEEVIQSSKCSLDV 155 (262)
Q Consensus 126 ~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~ 155 (262)
..++.-|...+.-|.+. |+.+
T Consensus 346 ---pDlli~~~~~a~pl~r~------G~P~ 366 (396)
T cd01979 346 ---PDLVVTGLGLANPLEAR------GITT 366 (396)
T ss_pred ---CCEEEecccccCcHHhC------CCcc
Confidence 23444466666678888 8865
No 458
>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=37.01 E-value=1.7e+02 Score=22.77 Aligned_cols=94 Identities=11% Similarity=-0.018 Sum_probs=59.6
Q ss_pred CCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCCC
Q 024773 49 SNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTPN 128 (262)
Q Consensus 49 ~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~~ 128 (262)
.|-.|+-.......+++.+...+.+++++-+..+.....+....+.+.|++.+.-+..++.=.+....-+..+.+.|.+
T Consensus 29 ~GfeVi~lg~~~s~e~~v~aa~e~~adii~iSsl~~~~~~~~~~~~~~L~~~g~~~i~vivGG~~~~~~~~~l~~~Gvd- 107 (132)
T TIGR00640 29 LGFDVDVGPLFQTPEEIARQAVEADVHVVGVSSLAGGHLTLVPALRKELDKLGRPDILVVVGGVIPPQDFDELKEMGVA- 107 (132)
T ss_pred CCcEEEECCCCCCHHHHHHHHHHcCCCEEEEcCchhhhHHHHHHHHHHHHhcCCCCCEEEEeCCCChHhHHHHHHCCCC-
Confidence 5778888888777888999999999999988777654433334444455443333666666544444444556666654
Q ss_pred cEEEEeChhHHHHHHH
Q 024773 129 VRIGVVGAGTASIFEE 144 (262)
Q Consensus 129 ~~i~aVG~~Ta~~L~~ 144 (262)
.++-.|....+.++.
T Consensus 108 -~~~~~gt~~~~i~~~ 122 (132)
T TIGR00640 108 -EIFGPGTPIPESAIF 122 (132)
T ss_pred -EEECCCCCHHHHHHH
Confidence 456566554444443
No 459
>PRK08594 enoyl-(acyl carrier protein) reductase; Provisional
Probab=36.99 E-value=1.8e+02 Score=24.80 Aligned_cols=15 Identities=27% Similarity=0.353 Sum_probs=7.6
Q ss_pred hhhHHHHHHhCCCee
Q 024773 190 SNEIEEGLSNRGFEV 204 (262)
Q Consensus 190 ~~~L~~~L~~~G~~v 204 (262)
...+...|.+.|++|
T Consensus 22 G~aia~~la~~G~~v 36 (257)
T PRK08594 22 AWGIARSLHNAGAKL 36 (257)
T ss_pred HHHHHHHHHHCCCEE
Confidence 444555555555544
No 460
>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=36.87 E-value=76 Score=28.89 Aligned_cols=80 Identities=16% Similarity=0.074 Sum_probs=41.8
Q ss_pred CHHHHHHHhhhCCCCccEEEEEccCCC----hhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHc--CCCCEEEEeC
Q 024773 163 TGKILASELPKNGKKKCTVLYPASAKA----SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVAS 236 (262)
Q Consensus 163 t~e~L~~~l~~~~~~g~~vL~~~g~~~----~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l--~~~d~ivFtS 236 (262)
..+.+.+.+.+. ++|+|++.+... .+.+.+.|++.|+.+. +..+...+......+..+.. .++|.||=--
T Consensus 10 ~~~~l~~~~~~~---~~r~livt~~~~~~~~~~~v~~~L~~~~i~~~-~~~~~~~p~~~~v~~~~~~~~~~~~D~IIavG 85 (351)
T cd08170 10 ALDELGEYLARL---GKRALIIADEFVLDLVGAKIEESLAAAGIDAR-FEVFGGECTRAEIERLAEIARDNGADVVIGIG 85 (351)
T ss_pred HHHHHHHHHHHh---CCeEEEEECHHHHHHHHHHHHHHHHhCCCeEE-EEEeCCcCCHHHHHHHHHHHhhcCCCEEEEec
Confidence 334454555443 478888887644 3456677888888764 33343333222222233322 2677776554
Q ss_pred HHHHHHHHHH
Q 024773 237 PSAVRSWVNL 246 (262)
Q Consensus 237 ~s~~~~~~~~ 246 (262)
+-++--..+.
T Consensus 86 GGS~iD~aK~ 95 (351)
T cd08170 86 GGKTLDTAKA 95 (351)
T ss_pred CchhhHHHHH
Confidence 4444434333
No 461
>cd05212 NAD_bind_m-THF_DH_Cyclohyd_like NAD(P) binding domain of methylene-tetrahydrofolate dehydrogenase and methylene-tetrahydrofolate dehydrogenase/cyclohydrolase. NAD(P) binding domains of methylene-tetrahydrofolate dehydrogenase (m-THF DH) and m-THF DH/cyclohydrolase bifunctional enzymes (m-THF DH/cyclohydrolase). M-THF is a versatile carrier of activated one-carbon units. The major one-carbon folate donors are N-5 methyltetrahydrofolate, N5,N10-m-THF, and N10-formayltetrahydrofolate. The oxidation of metabolic intermediate m-THF to m-THF requires the enzyme m-THF DH. In addition, most DHs also have an associated cyclohydrolase activity which catalyzes its hydrolysis to N10-formyltetrahydrofolate. m-THF DH is typically found as part of a multifunctional protein in eukaryotes. NADP-dependent m-THF DH in mammals, birds and yeast are components of a trifunctional enzyme with DH, cyclohydrolase, and synthetase activities. Certain eukaryotic cells also contain homodimeric bifunctional
Probab=36.86 E-value=65 Score=25.54 Aligned_cols=78 Identities=18% Similarity=0.156 Sum_probs=50.6
Q ss_pred CCCCCCeEEEe-CCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc
Q 024773 46 ASNSNPKVVVT-RERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA 124 (262)
Q Consensus 46 ~~l~g~~VLit-R~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~ 124 (262)
.++.|++|++. |+......++..|.+.|++|..+.-. ..++++. ....|.|+-..... ..+-..+-+
T Consensus 24 ~~~~gk~v~VvGrs~~vG~pla~lL~~~gatV~~~~~~-------t~~l~~~---v~~ADIVvsAtg~~-~~i~~~~ik- 91 (140)
T cd05212 24 VRLDGKKVLVVGRSGIVGAPLQCLLQRDGATVYSCDWK-------TIQLQSK---VHDADVVVVGSPKP-EKVPTEWIK- 91 (140)
T ss_pred CCCCCCEEEEECCCchHHHHHHHHHHHCCCEEEEeCCC-------CcCHHHH---HhhCCEEEEecCCC-CccCHHHcC-
Confidence 57889998877 55567789999999999998876421 1123333 36788888877766 332222211
Q ss_pred CCCCcEEEEeChh
Q 024773 125 GTPNVRIGVVGAG 137 (262)
Q Consensus 125 ~~~~~~i~aVG~~ 137 (262)
++..+.-+|..
T Consensus 92 --pGa~Vidvg~~ 102 (140)
T cd05212 92 --PGATVINCSPT 102 (140)
T ss_pred --CCCEEEEcCCC
Confidence 35566666654
No 462
>COG0436 Aspartate/tyrosine/aromatic aminotransferase [Amino acid transport and metabolism]
Probab=36.78 E-value=54 Score=30.60 Aligned_cols=72 Identities=18% Similarity=0.194 Sum_probs=47.3
Q ss_pred CCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEe--eeCCCchHHHHHHhcCCCccEEEEeCHH----------HHHH
Q 024773 49 SNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQH--AQGPDTDRLSSVLNADTIFDWIIITSPE----------AGSV 116 (262)
Q Consensus 49 ~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~--~~~~~~~~l~~~l~~l~~~d~IiFTS~~----------aV~~ 116 (262)
.|..|+++.|.= ..+....+-.|++++.+|+..- ....+.+.+++.+. .+..+|+++||| ..+.
T Consensus 112 pGDeVlip~P~Y--~~y~~~~~~~gg~~v~v~l~~~~~~f~~d~~~l~~~i~--~ktk~i~ln~P~NPTGav~~~~~l~~ 187 (393)
T COG0436 112 PGDEVLIPDPGY--PSYEAAVKLAGGKPVPVPLDEEENGFKPDLEDLEAAIT--PKTKAIILNSPNNPTGAVYSKEELKA 187 (393)
T ss_pred CCCEEEEeCCCC--cCHHHHHHhcCCEEEEEeCCcCccCCcCCHHHHHhhcC--ccceEEEEeCCCCCcCcCCCHHHHHH
Confidence 466788887753 4456667778999999998542 23345566666653 268899998875 3455
Q ss_pred HHHHHHHc
Q 024773 117 FLEAWKEA 124 (262)
Q Consensus 117 f~~~l~~~ 124 (262)
+.+.+.++
T Consensus 188 i~~~a~~~ 195 (393)
T COG0436 188 IVELAREH 195 (393)
T ss_pred HHHHHHHc
Confidence 55555544
No 463
>PRK14186 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=36.76 E-value=3e+02 Score=24.86 Aligned_cols=148 Identities=12% Similarity=0.034 Sum_probs=79.5
Q ss_pred HHHHHhCCCcEEEeceEEeeeCCCchHHHHHHh---cCCCccEEEEeCHH--HH--HHHHHHHHHc-CCCCcEEEEeChh
Q 024773 66 IKALAKHRIDCLELPLIQHAQGPDTDRLSSVLN---ADTIFDWIIITSPE--AG--SVFLEAWKEA-GTPNVRIGVVGAG 137 (262)
Q Consensus 66 ~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~---~l~~~d~IiFTS~~--aV--~~f~~~l~~~-~~~~~~i~aVG~~ 137 (262)
.+..++.|+++..+-+-+.. ..+++...+. +..+.|.|++--|- .+ +.+++.+... ..|...-.-.|
T Consensus 54 ~k~a~~~Gi~~~~~~l~~~~---~~~el~~~I~~lN~D~~V~GIivq~PLP~~i~~~~i~~~I~p~KDVDGl~~~n~g-- 128 (297)
T PRK14186 54 EKACARVGIASFGKHLPADT---SQAEVEALIAQLNQDERVDGILLQLPLPKHLDEVPLLHAIDPDKDADGLHPLNLG-- 128 (297)
T ss_pred HHHHHHcCCEEEEEECCCCC---CHHHHHHHHHHHhCCCCCCEEEEeCCCCCCCCHHHHHhccCcccCcccCChhhHH--
Confidence 34455679888765442221 2234444443 44678999998873 22 2222222211 11232222222
Q ss_pred HHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC--CCccEEEEE-ccCCChhhHHHHHHhCCCeeeEEeeecccc
Q 024773 138 TASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYP-ASAKASNEIEEGLSNRGFEVVRLNTYTTEP 214 (262)
Q Consensus 138 Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~g~~vL~~-~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~ 214 (262)
.|- . |-. .+.| .|+.+.++.|..+. ..|++++++ ||+....-|...|.++|+.|+-+--. .
T Consensus 129 ---~l~-~------~~~-~~~P--cTp~aii~lL~~~~i~l~Gk~vvVIGrS~iVGkPla~lL~~~~atVtv~hs~--T- 192 (297)
T PRK14186 129 ---RLV-K------GEP-GLRS--CTPAGVMRLLRSQQIDIAGKKAVVVGRSILVGKPLALMLLAANATVTIAHSR--T- 192 (297)
T ss_pred ---HHh-C------CCC-CCCC--CCHHHHHHHHHHhCCCCCCCEEEEECCCccchHHHHHHHHHCCCEEEEeCCC--C-
Confidence 221 1 322 2444 48899998887653 357775544 56666778999999999988544221 1
Q ss_pred CCCChHHHHHHcCCCCEEEEeCHHH
Q 024773 215 VHHVDQTVLKQALSIPVVAVASPSA 239 (262)
Q Consensus 215 ~~~~~~~~~~~l~~~d~ivFtS~s~ 239 (262)
.. +.+...+.|+|+-.-+..
T Consensus 193 --~~---l~~~~~~ADIvIsAvGkp 212 (297)
T PRK14186 193 --QD---LASITREADILVAAAGRP 212 (297)
T ss_pred --CC---HHHHHhhCCEEEEccCCc
Confidence 11 222335788888665543
No 464
>TIGR01286 nifK nitrogenase molybdenum-iron protein beta chain. This model represents the majority of known sequences of the nitrogenase molybdenum-iron protein beta subunit. A distinct clade in a phylogenetic tree contains molybdenum-iron, vanadium-iron, and iron-iron forms of nitrogenase beta subunit and is excluded from this model. Nitrogenase, also called dinitrogenase, is responsible for nitrogen fixation. Note: the trusted cutoff score has recently been lowered to include an additional family in which the beta subunit is shorter by about 50 amino acids at the N-terminus. In species with the shorter form of the beta subunit, the alpha subunit has a novel insert of similar length.
Probab=36.69 E-value=3.4e+02 Score=26.47 Aligned_cols=138 Identities=12% Similarity=0.066 Sum_probs=72.7
Q ss_pred CChHHHHHHHHhCCCcEEEeceEE------------eeeC-CCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC
Q 024773 60 GKNGKLIKALAKHRIDCLELPLIQ------------HAQG-PDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT 126 (262)
Q Consensus 60 ~~~~~l~~~L~~~G~~v~~~P~~~------------~~~~-~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~ 126 (262)
.+-.++.+.|+..|+++..+|=+. +-+. ...+++ .+......-+..++..-....+.+++..
T Consensus 234 gd~~eikrlL~~~Gi~~~~l~d~s~~~d~p~~g~~~~~~ggttleei----~~a~~A~~~ivl~~~~~~~~a~~l~~~~- 308 (515)
T TIGR01286 234 GNFREIKRILSLMGVGYTLLSDPEEVLDTPADGEFRMYAGGTTLEEM----KDAPNAEATVLLQPYTLRKTKEYIEKTW- 308 (515)
T ss_pred hhHHHHHHHHHHcCCCeEEccCccccccCCCCCCccccCCCCCHHHH----HHhhhCcEEEEEchhhhHHHHHHHHHHh-
Confidence 345899999999999999876221 1111 122332 3445556666666654444445454431
Q ss_pred CCcEEEE----eCh-hHHHHHHHhhhhcCCCCceeecCCCCCH--HHHHHHhhhC--CCCccEEEEEccCCChhhHHHHH
Q 024773 127 PNVRIGV----VGA-GTASIFEEVIQSSKCSLDVAFSPSKATG--KILASELPKN--GKKKCTVLYPASAKASNEIEEGL 197 (262)
Q Consensus 127 ~~~~i~a----VG~-~Ta~~L~~~~~~~~~G~~~~~~p~~~t~--e~L~~~l~~~--~~~g~~vL~~~g~~~~~~L~~~L 197 (262)
+.+.+. +|- .|.+-|++.... .|..+ |+.... ..+++.|... ...|+|+.+..+..-.-.+...|
T Consensus 309 -g~p~~~~~~PiGi~~Td~fL~~la~~--~g~~i---p~~i~~eR~rl~dam~d~~~~l~GKrvaI~gdpd~~~~l~~fL 382 (515)
T TIGR01286 309 -KQETPKLNIPLGVKGTDEFLMKVSEI--SGQPI---PAELTKERGRLVDAMTDSHAWLHGKRFAIYGDPDFVMGLVRFV 382 (515)
T ss_pred -CCCcccCCCCccHHHHHHHHHHHHHH--HCCCC---CHHHHHHHHHHHHHHHHHHHHhcCceEEEECCHHHHHHHHHHH
Confidence 122222 443 455555555211 15422 221111 1244444322 13578887776655555677788
Q ss_pred HhCCCeeeEEe
Q 024773 198 SNRGFEVVRLN 208 (262)
Q Consensus 198 ~~~G~~v~~i~ 208 (262)
.+.|+.+..+.
T Consensus 383 ~ElGmepv~v~ 393 (515)
T TIGR01286 383 LELGCEPVHIL 393 (515)
T ss_pred HHCCCEEEEEE
Confidence 89999874444
No 465
>PF00633 HHH: Helix-hairpin-helix motif; InterPro: IPR000445 The HhH motif is an around 20 amino acids domain present in prokaryotic and eukaryotic non-sequence-specific DNA binding proteins [, , ]. The HhH motif is similar to, but distinct from, the HtH motif. Both of these motifs have two helices connected by a short turn. In the HtH motif the second helix binds to DNA with the helix in the major groove. This allows the contact between specific base and residues throughout the protein. In the HhH motif the second helix does not protrude from the surface of the protein and therefore cannot lie in the major groove of the DNA. Crystallographic studies suggest that the interaction of the HhH domain with DNA is mediated by amino acids located in the strongly conserved loop (L-P-G-V) and at the N-terminal end of the second helix []. This interaction could involve the formation of hydrogen bonds between protein backbone nitrogens and DNA phosphate groups []. The structural difference between the HtH and HhH domains is reflected at the functional level: whereas the HtH domain, found primarily in gene regulatory proteins, binds DNA in a sequence specific manner, the HhH domain is rather found in proteins involved in enzymatic activities and binds DNA with no sequence specificity []. The HhH domain of DisA, a bacterial checkpoint control protein, is a DNA-binding domain [].; GO: 0003677 DNA binding; PDB: 3C1Z_A 3C23_A 3C1Y_A 3C21_A 1Z00_A 2A1J_B 1KEA_A 1VRL_A 1RRQ_A 3G0Q_A ....
Probab=36.62 E-value=27 Score=19.98 Aligned_cols=11 Identities=27% Similarity=0.374 Sum_probs=8.2
Q ss_pred eChhHHHHHHH
Q 024773 134 VGAGTASIFEE 144 (262)
Q Consensus 134 VG~~Ta~~L~~ 144 (262)
||++||+++.+
T Consensus 19 IG~~tA~~I~~ 29 (30)
T PF00633_consen 19 IGPKTANAILS 29 (30)
T ss_dssp -SHHHHHHHHH
T ss_pred cCHHHHHHHHh
Confidence 78999988765
No 466
>cd06280 PBP1_LacI_like_4 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=36.62 E-value=92 Score=26.27 Aligned_cols=46 Identities=15% Similarity=0.071 Sum_probs=28.4
Q ss_pred HHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChhH
Q 024773 93 LSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAGT 138 (262)
Q Consensus 93 l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~T 138 (262)
+.+.+..-...++|+.++-..+..+++.+.+.+. +++.|++.+...
T Consensus 163 ~~~~l~~~~~~~ai~~~~d~~a~g~~~~l~~~g~~~p~di~iig~d~~~ 211 (263)
T cd06280 163 LAAWLAAPERPEALVASNGLLLLGALRAVRAAGLRIPQDLALAGFDNDP 211 (263)
T ss_pred HHHHhcCCCCCcEEEECCcHHHHHHHHHHHHcCCCCCCcEEEEEeCChh
Confidence 3444422235677777777767667777777664 366677766644
No 467
>PRK09072 short chain dehydrogenase; Provisional
Probab=36.50 E-value=2.5e+02 Score=23.79 Aligned_cols=84 Identities=24% Similarity=0.267 Sum_probs=45.7
Q ss_pred CCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEE--EEeCHHHHHHHHHHHHHc
Q 024773 48 NSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWI--IITSPEAGSVFLEAWKEA 124 (262)
Q Consensus 48 l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~I--iFTS~~aV~~f~~~l~~~ 124 (262)
+.|++||||..... ...+++.|.++|++|..+-- .....+.+...+..-....++ =++....++.+++.+.+.
T Consensus 3 ~~~~~vlItG~s~~iG~~ia~~l~~~G~~V~~~~r----~~~~~~~~~~~~~~~~~~~~~~~D~~d~~~~~~~~~~~~~~ 78 (263)
T PRK09072 3 LKDKRVLLTGASGGIGQALAEALAAAGARLLLVGR----NAEKLEALAARLPYPGRHRWVVADLTSEAGREAVLARAREM 78 (263)
T ss_pred CCCCEEEEECCCchHHHHHHHHHHHCCCEEEEEEC----CHHHHHHHHHHHhcCCceEEEEccCCCHHHHHHHHHHHHhc
Confidence 46889999987543 46789999999998764421 100111122222111122222 246778888887776553
Q ss_pred CCCCcEEEEeC
Q 024773 125 GTPNVRIGVVG 135 (262)
Q Consensus 125 ~~~~~~i~aVG 135 (262)
+.-+.-|.+.|
T Consensus 79 ~~id~lv~~ag 89 (263)
T PRK09072 79 GGINVLINNAG 89 (263)
T ss_pred CCCCEEEECCC
Confidence 32244444444
No 468
>PLN02522 ATP citrate (pro-S)-lyase
Probab=36.49 E-value=4.5e+02 Score=26.30 Aligned_cols=172 Identities=15% Similarity=0.077 Sum_probs=92.8
Q ss_pred CCCcEEEeceEEeeeCCCchHHHHHHhcCCCccE-EEEeCHH-HHHHHHHHHHHcCCCCcEEEEeC--hhH----HHHHH
Q 024773 72 HRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDW-IIITSPE-AGSVFLEAWKEAGTPNVRIGVVG--AGT----ASIFE 143 (262)
Q Consensus 72 ~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~-IiFTS~~-aV~~f~~~l~~~~~~~~~i~aVG--~~T----a~~L~ 143 (262)
.|-++..+|+|.++. ++.++-.+.|. |+|.++. +.+..++.+...+....-|++=| +.- .+.++
T Consensus 56 ~g~~~~~iPVf~tv~--------eA~~~~~~~~~~vifvp~~~a~da~lEa~~a~GIk~~VIiteGfpe~d~~~l~~~Ar 127 (608)
T PLN02522 56 FGQEEIAIPVHGSIE--------AACKAHPTADVFINFASFRSAAASSMEALKQPTIRVVAIIAEGVPESDTKQLIAYAR 127 (608)
T ss_pred cCCEeeCccccchHH--------HHHHhCCCCcEEEEeCChHHhHHHHHHHHhhCCCCEEEEECCCCChhhHHHHHHHHH
Confidence 588888899998763 23323334454 6777764 45677777766554433333322 222 33344
Q ss_pred HhhhhcCCCCceeecCCCC---CHHH---------HHHHhh-hCCCCccEEEEEccCCChhhHHHHHHhCCCeeeEEeee
Q 024773 144 EVIQSSKCSLDVAFSPSKA---TGKI---------LASELP-KNGKKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTY 210 (262)
Q Consensus 144 ~~~~~~~~G~~~~~~p~~~---t~e~---------L~~~l~-~~~~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY 210 (262)
++ |+.. +-|.-. +... +-..+. ....+|.-=++-+|..-..++.+.+..+|.-+..++-.
T Consensus 128 ~~------g~rl-IGPNc~Gii~p~~~kig~~~~~~~~~~~~~~~~pG~VgiVSqSGtL~~ei~~~~~~~GlG~S~~Vsi 200 (608)
T PLN02522 128 AN------NKVV-IGPATVGGIQAGAFKIGDTAGTLDNIIQCKLYRPGSVGFVSKSGGMSNEMYNVIARVTDGIYEGIAI 200 (608)
T ss_pred Hc------CCEE-ECCCCCeeEccCcccccccccccccccCcCCCCCCcEEEEeccHHHHHHHHHHHHHcCCCeEEEEEe
Confidence 44 7764 444321 0000 000011 11123333344444433566788899999888777766
Q ss_pred ccccCC-CChHHHHHHc---CCCCEEEEe---CHHHHHHHHHHhcccCCCCCeEEE
Q 024773 211 TTEPVH-HVDQTVLKQA---LSIPVVAVA---SPSAVRSWVNLISDTEQWSNSVAC 259 (262)
Q Consensus 211 ~~~~~~-~~~~~~~~~l---~~~d~ivFt---S~s~~~~~~~~~~~~~~~~~~i~~ 259 (262)
=+.+.. ....++++.+ ++..+|++. +...-+.|++.+++.. .+++|++
T Consensus 201 Gnd~~~g~~~~D~L~~~~~Dp~Tk~IvlygEiGg~~e~~f~ea~~~a~-~~KPVVa 255 (608)
T PLN02522 201 GGDVFPGSTLSDHVLRFNNIPQIKMIVVLGELGGRDEYSLVEALKQGK-VSKPVVA 255 (608)
T ss_pred CCCCCCCCCHHHHHHHHhcCCCCCEEEEEEecCchhHHHHHHHHHHhc-CCCCEEE
Confidence 665431 2334455544 266777777 6777788888877642 3445444
No 469
>PRK10423 transcriptional repressor RbsR; Provisional
Probab=36.43 E-value=1.8e+02 Score=25.45 Aligned_cols=45 Identities=9% Similarity=-0.001 Sum_probs=28.0
Q ss_pred HHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024773 93 LSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (262)
Q Consensus 93 l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~ 137 (262)
+.+.+......++|+.++-.....+++.+.+.+. +++.+++.+..
T Consensus 226 ~~~~l~~~~~~~ai~~~~d~~A~g~~~~l~~~g~~vP~dvsvigfd~~ 273 (327)
T PRK10423 226 MQQLLALPLRPQAVFTGNDAMAVGVYQALYQAGLSVPQDIAVIGYDDI 273 (327)
T ss_pred HHHHhcCCCCCCEEEEcCcHHHHHHHHHHHHcCCCCCCceEEEEeCCh
Confidence 3334433335677777776666667777776664 36677777764
No 470
>COG1879 RbsB ABC-type sugar transport system, periplasmic component [Carbohydrate transport and metabolism]
Probab=36.39 E-value=3e+02 Score=24.21 Aligned_cols=139 Identities=13% Similarity=0.059 Sum_probs=71.2
Q ss_pred CCCccEEEE--eCHHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCH-HHHHHHhhhCCC
Q 024773 100 DTIFDWIII--TSPEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATG-KILASELPKNGK 176 (262)
Q Consensus 100 l~~~d~IiF--TS~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~-e~L~~~l~~~~~ 176 (262)
...+|.|++ .++.++...++...+. +++++++....... . .....+....+.. ....+.+.+...
T Consensus 89 a~~~daIiv~~~d~~~~~~~v~~a~~a---GIpVv~~d~~~~~~---~------~~~~~vg~dn~~~G~~~a~~l~~~~~ 156 (322)
T COG1879 89 AQGVDAIIINPVDPDALTPAVKKAKAA---GIPVVTVDSDIPGP---G------DRVAYVGSDNYKAGRLAAEYLAKALG 156 (322)
T ss_pred HcCCCEEEEcCCChhhhHHHHHHHHHC---CCcEEEEecCCCCC---C------ceeEEEecCcHHHHHHHHHHHHHHhC
Confidence 367999999 5666666666666554 56777766543322 2 2222222233322 223444444332
Q ss_pred CccEEEEEccCCC-------hhhHHHHHHhCCCeeeEEeeeccccCCCChHH-HHHHc---CCCCEEEEeCHHHHHHHHH
Q 024773 177 KKCTVLYPASAKA-------SNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQT-VLKQA---LSIPVVAVASPSAVRSWVN 245 (262)
Q Consensus 177 ~g~~vL~~~g~~~-------~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~-~~~~l---~~~d~ivFtS~s~~~~~~~ 245 (262)
.+.+++++.|..+ ..-+.+.|.+.+-.+..+..+........... ..+.+ +++++|+-.....+-.-..
T Consensus 157 ~~g~v~~~~g~~~~~~~~~R~~G~~~~l~~~~~~~~v~~~~~~~~~~~~a~~~~~~~L~~~pdi~~i~~~~d~~a~ga~~ 236 (322)
T COG1879 157 GKGKVVVLVGSPGNSSAEERVKGFRDALKEHPPDIEVVDVQTGDWDRDKALEVMEDLLAANPDIDGIYAANDGMALGAIQ 236 (322)
T ss_pred CCCeEEEEecCCCCchHHHHHhhHHHHHHhCCCcEEEeeccCCcccHHHHHHHHHHHHHhCCCceEEEECCchhHHHHHH
Confidence 2356777777654 33456677766533333443443333222211 22223 3677777777776655555
Q ss_pred Hhccc
Q 024773 246 LISDT 250 (262)
Q Consensus 246 ~~~~~ 250 (262)
.++..
T Consensus 237 A~~~~ 241 (322)
T COG1879 237 ALKAA 241 (322)
T ss_pred HHHHc
Confidence 55543
No 471
>cd06352 PBP1_NPR_GC_like Ligand-binding domain of membrane guanylyl-cyclase receptors. Ligand-binding domain of membrane guanylyl-cyclase receptors. Membrane guanylyl cyclases (GC) have a single membrane-spanning region and are activated by endogenous and exogenous peptides. This family can be divided into three major subfamilies: the natriuretic peptide receptors (NPRs), sensory organ-specific membrane GCs, and the enterotoxin/guanylin receptors. The binding of peptide ligands to the receptor results in the activation of the cytosolic catalytic domain. Three types of NPRs have been cloned from mammalian tissues: NPR-A/GC-A, NPR-B/ GC-B, and NPR-C. In addition, two of the GCs, GC-D and GC-G, appear to be pseudogenes in humans. Atrial natriuretic peptide (ANP) and brain natriuretic peptide (BNP) are produced in the heart, and both bind to the NPR-A. NPR-C, also termed the clearance receptor, binds each of the natriuretic peptides and can alter circulating levels of these peptides. The l
Probab=36.33 E-value=3.2e+02 Score=24.59 Aligned_cols=88 Identities=13% Similarity=0.060 Sum_probs=49.8
Q ss_pred CCHHHHHHHhhhCCCCccEEEEEccCC------ChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHcC-CCCEEEE
Q 024773 162 ATGKILASELPKNGKKKCTVLYPASAK------ASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQAL-SIPVVAV 234 (262)
Q Consensus 162 ~t~e~L~~~l~~~~~~g~~vL~~~g~~------~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~-~~d~ivF 234 (262)
.....+++.+.... -+++.++..+. ....+.+.+++.|+.|.....|............++.+. .-++|++
T Consensus 123 ~~~~a~~~~l~~~~--~~~v~ii~~~~~~~g~~~~~~~~~~~~~~G~~v~~~~~~~~~~~~~d~~~~l~~i~~~~~vii~ 200 (389)
T cd06352 123 KLGEAVLALLRWFN--WHVAVVVYSDDSENCFFTLEALEAALREFNLTVSHVVFMEDNSGAEDLLEILQDIKRRSRIIIM 200 (389)
T ss_pred HHHHHHHHHHHHcC--ceEEEEEEecCCccHHHHHHHHHHHHHhcCCeEEEEEEecCCccchhHHHHHHHhhhcceEEEE
Confidence 34556666665432 25565554322 245677888889998877666654320112222333343 2256555
Q ss_pred e-CHHHHHHHHHHhcccC
Q 024773 235 A-SPSAVRSWVNLISDTE 251 (262)
Q Consensus 235 t-S~s~~~~~~~~~~~~~ 251 (262)
. ++..+..|++.+.+.+
T Consensus 201 ~~~~~~~~~~l~q~~~~g 218 (389)
T cd06352 201 CGSSEDVRELLLAAHDLG 218 (389)
T ss_pred ECCHHHHHHHHHHHHHcC
Confidence 4 5688888888877654
No 472
>PRK07904 short chain dehydrogenase; Provisional
Probab=36.31 E-value=2.7e+02 Score=23.65 Aligned_cols=85 Identities=12% Similarity=0.117 Sum_probs=44.4
Q ss_pred CCCeEEEeCCCCC-hHHHHHHHHhCC-CcEEEeceEEeeeCCCchHHHHHHhcCCC--ccEE--EEeCHHHHHHHHHHHH
Q 024773 49 SNPKVVVTRERGK-NGKLIKALAKHR-IDCLELPLIQHAQGPDTDRLSSVLNADTI--FDWI--IITSPEAGSVFLEAWK 122 (262)
Q Consensus 49 ~g~~VLitR~~~~-~~~l~~~L~~~G-~~v~~~P~~~~~~~~~~~~l~~~l~~l~~--~d~I--iFTS~~aV~~f~~~l~ 122 (262)
++++||||....+ ...+++.|.+.| ++|.-. -+... ...+++.+.+...+. ...+ =+++..++..+++.+.
T Consensus 7 ~~~~vlItGas~giG~~la~~l~~~gg~~V~~~--~r~~~-~~~~~~~~~l~~~~~~~v~~~~~D~~~~~~~~~~~~~~~ 83 (253)
T PRK07904 7 NPQTILLLGGTSEIGLAICERYLKNAPARVVLA--ALPDD-PRRDAAVAQMKAAGASSVEVIDFDALDTDSHPKVIDAAF 83 (253)
T ss_pred CCcEEEEEcCCcHHHHHHHHHHHhcCCCeEEEE--eCCcc-hhHHHHHHHHHhcCCCceEEEEecCCChHHHHHHHHHHH
Confidence 4789999988764 457888888775 777643 11111 111222222322221 2221 1367788877777655
Q ss_pred HcCCCCcEEEEeCh
Q 024773 123 EAGTPNVRIGVVGA 136 (262)
Q Consensus 123 ~~~~~~~~i~aVG~ 136 (262)
+.+.-+.-|.+.|-
T Consensus 84 ~~g~id~li~~ag~ 97 (253)
T PRK07904 84 AGGDVDVAIVAFGL 97 (253)
T ss_pred hcCCCCEEEEeeec
Confidence 43322444445543
No 473
>cd06311 PBP1_ABC_sugar_binding_like_3 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=36.31 E-value=1e+02 Score=26.10 Aligned_cols=50 Identities=18% Similarity=0.152 Sum_probs=30.0
Q ss_pred HHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCC-CcEEEEeChhHHHHHH
Q 024773 93 LSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTP-NVRIGVVGAGTASIFE 143 (262)
Q Consensus 93 l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~-~~~i~aVG~~Ta~~L~ 143 (262)
+...+....+.++|+..+-.......+.+++.+.. ++.+++. ..+.+.++
T Consensus 176 ~~~~l~~~~~~~ai~~~~d~~a~g~~~al~~~g~~~~~~ivg~-d~~~~~~~ 226 (274)
T cd06311 176 MQDLLTKFPKIDAVWAHDDDMAVGVLAAIKQAGRTDIKFVVGG-AGSKDMIK 226 (274)
T ss_pred HHHHHHhCCCcCEEEECCCcHHHHHHHHHHHcCCCCCceEEEe-CCCHHHHH
Confidence 33444444567888888877777777777777654 3444442 33444443
No 474
>PRK09701 D-allose transporter subunit; Provisional
Probab=36.29 E-value=2e+02 Score=25.29 Aligned_cols=43 Identities=16% Similarity=0.055 Sum_probs=28.0
Q ss_pred HHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC-CCcEEEEeChh
Q 024773 95 SVLNADTIFDWIIITSPEAGSVFLEAWKEAGT-PNVRIGVVGAG 137 (262)
Q Consensus 95 ~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~-~~~~i~aVG~~ 137 (262)
..+.+-.+.|+|++.+-.......+.+.+.+. +++.+++++..
T Consensus 209 ~ll~~~~~~~~I~~~~d~~A~g~~~al~~~G~~~dv~vvg~d~~ 252 (311)
T PRK09701 209 NVLQRNPNIKAIYCANDTMAMGVAQAVANAGKTGKVLVVGTDGI 252 (311)
T ss_pred HHHHhCCCCCEEEECCcchHHHHHHHHHHcCCCCCEEEEEeCCC
Confidence 33433345788888877777777777776665 35667777664
No 475
>PRK10703 DNA-binding transcriptional repressor PurR; Provisional
Probab=36.16 E-value=1.3e+02 Score=26.73 Aligned_cols=75 Identities=13% Similarity=0.092 Sum_probs=44.2
Q ss_pred HHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChhH
Q 024773 64 KLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAGT 138 (262)
Q Consensus 64 ~l~~~L~~~G~~v~~~P~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~T 138 (262)
-+.+.|+++|.++............+ .+.+...+..-...|+|++++-..+..+++.+.+.+. +++.+++.+...
T Consensus 199 Gf~~~l~~~gi~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~ai~~~nd~~a~g~~~al~~~g~~ip~dv~vvgfD~~~ 278 (341)
T PRK10703 199 GFMKAMEEANIKVPEEWIVQGDFEPESGYEAMQQILSQKHRPTAVFCGGDIMAMGAICAADEMGLRVPQDISVIGYDNVR 278 (341)
T ss_pred HHHHHHHHcCCCCChHHeEeCCCCHHHHHHHHHHHHhCCCCCCEEEECCcHHHHHHHHHHHHcCCCCCCceEEEEECCCc
Confidence 35567778887654322221111101 1233344433346889999888887788888888775 367788877643
No 476
>PRK13146 hisH imidazole glycerol phosphate synthase subunit HisH; Provisional
Probab=36.15 E-value=2.2e+02 Score=23.94 Aligned_cols=81 Identities=16% Similarity=0.147 Sum_probs=45.6
Q ss_pred CeEEEeCCCC-ChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcC----
Q 024773 51 PKVVVTRERG-KNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAG---- 125 (262)
Q Consensus 51 ~~VLitR~~~-~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~---- 125 (262)
++|.|..... .-..+.+.|++.|+++ ++..+. +.+ ++.++|.||++-..+.......+...+
T Consensus 2 ~~~~iid~g~gn~~s~~~al~~~g~~~---~v~~~~---~~~-------~l~~~d~lIlpG~~~~~~~~~~l~~~~~~~~ 68 (209)
T PRK13146 2 MTVAIIDYGSGNLRSAAKALERAGAGA---DVVVTA---DPD-------AVAAADRVVLPGVGAFADCMRGLRAVGLGEA 68 (209)
T ss_pred CeEEEEECCCChHHHHHHHHHHcCCCc---cEEEEC---CHH-------HhcCCCEEEECCCCcHHHHHHHHHHCCcHHH
Confidence 4666665443 4578999999999965 222222 221 357899999988543332222222111
Q ss_pred ------CCCcEEEEeChhHHHHHHHh
Q 024773 126 ------TPNVRIGVVGAGTASIFEEV 145 (262)
Q Consensus 126 ------~~~~~i~aVG~~Ta~~L~~~ 145 (262)
..+.+++.|.-. .+.|-+.
T Consensus 69 ~~~~~~~~~~PvlGiC~G-~q~l~~~ 93 (209)
T PRK13146 69 VIEAVLAAGRPFLGICVG-MQLLFER 93 (209)
T ss_pred HHHHHHhCCCcEEEECHH-HHHHhhc
Confidence 136788877654 4444444
No 477
>PRK06171 sorbitol-6-phosphate 2-dehydrogenase; Provisional
Probab=36.13 E-value=1.9e+02 Score=24.48 Aligned_cols=33 Identities=12% Similarity=0.158 Sum_probs=26.2
Q ss_pred CCCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEe
Q 024773 47 SNSNPKVVVTRERGK-NGKLIKALAKHRIDCLEL 79 (262)
Q Consensus 47 ~l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~ 79 (262)
.+.++++|||..... ...+++.|.+.|++|...
T Consensus 6 ~l~~k~vlItG~s~gIG~~la~~l~~~G~~v~~~ 39 (266)
T PRK06171 6 NLQGKIIIVTGGSSGIGLAIVKELLANGANVVNA 39 (266)
T ss_pred cCCCCEEEEeCCCChHHHHHHHHHHHCCCEEEEE
Confidence 367899999987654 467899999999988754
No 478
>cd00609 AAT_like Aspartate aminotransferase family. This family belongs to pyridoxal phosphate (PLP)-dependent aspartate aminotransferase superfamily (fold I). Pyridoxal phosphate combines with an alpha-amino acid to form a compound called a Schiff base or aldimine intermediate, which depending on the reaction, is the substrate in four kinds of reactions (1) transamination (movement of amino groups), (2) racemization (redistribution of enantiomers), (3) decarboxylation (removing COOH groups), and (4) various side-chain reactions depending on the enzyme involved. Pyridoxal phosphate (PLP) dependent enzymes were previously classified into alpha, beta and gamma classes, based on the chemical characteristics (carbon atom involved) of the reaction they catalyzed. The availability of several structures allowed a comprehensive analysis of the evolutionary classification of PLP dependent enzymes, and it was found that the functional classification did not always agree with the evolutionary hi
Probab=36.03 E-value=2.9e+02 Score=24.00 Aligned_cols=61 Identities=15% Similarity=0.062 Sum_probs=36.8
Q ss_pred CCccEEEEEccCCChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHc-CCCCEEEEeCHH
Q 024773 176 KKKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA-LSIPVVAVASPS 238 (262)
Q Consensus 176 ~~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l-~~~d~ivFtS~s 238 (262)
.+|.+++++..... .....++..|.++..+...+........+.+.... .++.+|+++++.
T Consensus 81 ~~g~~vl~~~~~~~--~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~v~i~~~~ 142 (350)
T cd00609 81 NPGDEVLVPDPTYP--GYEAAARLAGAEVVPVPLDEEGGFLLDLELLEAAKTPKTKLLYLNNPN 142 (350)
T ss_pred CCCCEEEEcCCCch--hHHHHHHHCCCEEEEEecccccCCccCHHHHHhhcCccceEEEEECCC
Confidence 34678888776544 46677888888887777755443332212222222 367788887754
No 479
>TIGR01278 DPOR_BchB light-independent protochlorophyllide reductase, B subunit. This enzyme describes the B subunit of the dark form protochlorophyllide reductase, a nitrogenase-like enzyme. This subunit shows homology to the nitrogenase molybdenum-iron protein. It catalyzes a step in bacteriochlorophyll biosynthesis.
Probab=36.00 E-value=4.1e+02 Score=25.70 Aligned_cols=183 Identities=16% Similarity=0.100 Sum_probs=0.0
Q ss_pred eCCCCChHHHHHHHHhCCCcEEEe-ceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHc-CCCCcEEEE
Q 024773 56 TRERGKNGKLIKALAKHRIDCLEL-PLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEA-GTPNVRIGV 133 (262)
Q Consensus 56 tR~~~~~~~l~~~L~~~G~~v~~~-P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~-~~~~~~i~a 133 (262)
.....+..++.+.|+..|+++..+ |.-... +.+.++...+.-|..++..-....+.|++. +.+-+...=
T Consensus 171 ~~~~~D~~elkrlL~~lGi~vn~v~p~g~s~---------~dl~~l~~A~~NIv~~~~~g~~~A~~Le~~fGiP~i~~~P 241 (511)
T TIGR01278 171 FHHRHDLIELRRLLKTLGIEVNVVAPWGASI---------ADLARLPAAWLNICPYREIGLMAAEYLKEKFGQPYITTTP 241 (511)
T ss_pred CCCHHHHHHHHHHHHHCCCeEEEEeCCCCCH---------HHHHhcccCcEEEEechHHHHHHHHHHHHHhCCCcccccc
Q ss_pred eC-hhHHHHHHHhhhhcCCCCceeec---CCCCCHHHHHH--------------HhhhCCCCccEEEEEccCCChhhHHH
Q 024773 134 VG-AGTASIFEEVIQSSKCSLDVAFS---PSKATGKILAS--------------ELPKNGKKKCTVLYPASAKASNEIEE 195 (262)
Q Consensus 134 VG-~~Ta~~L~~~~~~~~~G~~~~~~---p~~~t~e~L~~--------------~l~~~~~~g~~vL~~~g~~~~~~L~~ 195 (262)
+| ..|.+-|++. + .+. ..+...+.+++ .+......|+|+.+..+..-.-.+..
T Consensus 242 iG~~~T~~fL~~l------~---~~~~~~g~~~~~e~~i~~e~~~~~~~~~~~r~~d~~~l~Gkrv~I~gd~~~a~~l~~ 312 (511)
T TIGR01278 242 IGVNATRRFIREI------A---ALLNQAGADPYYESFILDGLSAVSQAAWFARSIDSQSLTGKRAFVFGDATHAVGMTK 312 (511)
T ss_pred cCHHHHHHHHHHH------H---HHHhhcCCCCcHHHHHHhhhhhhhhHHHHHhhhhhHHhcCCeEEEEcCcHHHHHHHH
Q ss_pred HHH-hCCCeeeEEeeecc----------------ccCCCChHHHHHHcCCCCEEEEeCHHHHHHHHHHhcccCCCCCeEE
Q 024773 196 GLS-NRGFEVVRLNTYTT----------------EPVHHVDQTVLKQALSIPVVAVASPSAVRSWVNLISDTEQWSNSVA 258 (262)
Q Consensus 196 ~L~-~~G~~v~~i~vY~~----------------~~~~~~~~~~~~~l~~~d~ivFtS~s~~~~~~~~~~~~~~~~~~i~ 258 (262)
.|. +.|+.|.....|.. ........++.+.+.....=++...+--+++.+.+ +++.+
T Consensus 313 ~L~~ElG~~vv~~gt~~~~~~~~~~~~~~~~~~~~~i~dD~~ei~~~i~~~~pdliiG~~~er~~a~~l------gip~~ 386 (511)
T TIGR01278 313 ILARELGIHIVGAGTYCKYDADWVREQVAGYVDEVLITDDFQEVADAIAALEPELVLGTQMERHSAKRL------DIPCG 386 (511)
T ss_pred HHHHhCCCEEEecCCchhhhHHHHHHHHHhcCCCeEEeCCHHHHHHHHHhcCCCEEEEChHHHHHHHHc------CCCEE
Q ss_pred EECC
Q 024773 259 CIAG 262 (262)
Q Consensus 259 ~IGp 262 (262)
.||.
T Consensus 387 ~i~~ 390 (511)
T TIGR01278 387 VISA 390 (511)
T ss_pred EecC
No 480
>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=35.78 E-value=1e+02 Score=23.05 Aligned_cols=79 Identities=11% Similarity=0.069 Sum_probs=52.7
Q ss_pred CCCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCC
Q 024773 48 NSNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGT 126 (262)
Q Consensus 48 l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~ 126 (262)
..|.+|+...+....+++.+.+.+...+++-+.........+..++.+.+++....+..|+-.........+.+...+.
T Consensus 25 ~~G~~V~~lg~~~~~~~l~~~~~~~~pdvV~iS~~~~~~~~~~~~~i~~l~~~~~~~~~i~vGG~~~~~~~~~~~~~G~ 103 (119)
T cd02067 25 DAGFEVIDLGVDVPPEEIVEAAKEEDADAIGLSGLLTTHMTLMKEVIEELKEAGLDDIPVLVGGAIVTRDFKFLKEIGV 103 (119)
T ss_pred HCCCEEEECCCCCCHHHHHHHHHHcCCCEEEEeccccccHHHHHHHHHHHHHcCCCCCeEEEECCCCChhHHHHHHcCC
Confidence 4688998888777788999999999999998887755544333444455555432256666666665554455555554
No 481
>PRK07550 hypothetical protein; Provisional
Probab=35.69 E-value=3.4e+02 Score=24.65 Aligned_cols=32 Identities=19% Similarity=0.013 Sum_probs=16.2
Q ss_pred CccEEEEEccCCChhhHHHHHHhCCCeeeEEeee
Q 024773 177 KKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTY 210 (262)
Q Consensus 177 ~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY 210 (262)
+|.+|+++...- ......++..|.++..+.+.
T Consensus 113 ~gd~Vlv~~p~y--~~~~~~~~~~g~~~~~v~~~ 144 (386)
T PRK07550 113 AGDEVILPLPWY--FNHKMWLDMLGIRPVYLPCD 144 (386)
T ss_pred CCCEEEEcCCCC--cchHHHHHhcCCEEEEEecC
Confidence 455666555422 22334455566666555543
No 482
>cd01574 PBP1_LacI Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. Ligand-binding domain of DNA transcription repressor LacI specific for lactose, a member of the LacI-GalR family of bacterial transcription regulators. The ligand-binding domain of LacI 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 in turn changes the DNA b
Probab=35.66 E-value=2e+02 Score=24.06 Aligned_cols=85 Identities=11% Similarity=-0.006 Sum_probs=45.1
Q ss_pred CCeEEEeCCCCC-------hHHHHHHHHhCCCcEEEeceEEeeeCCC--chHHHHHHhcCCCccEEEEeCHHHHHHHHHH
Q 024773 50 NPKVVVTRERGK-------NGKLIKALAKHRIDCLELPLIQHAQGPD--TDRLSSVLNADTIFDWIIITSPEAGSVFLEA 120 (262)
Q Consensus 50 g~~VLitR~~~~-------~~~l~~~L~~~G~~v~~~P~~~~~~~~~--~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~ 120 (262)
.++|++...... ..-+.+.+++.|..+... +......+ .+.+...+.. ...|+|+.++......+.+.
T Consensus 116 ~~~i~~i~~~~~~~~~~~r~~gf~~~l~~~~~~~~~~--~~~~~~~~~~~~~~~~~l~~-~~~~ai~~~~d~~a~g~~~~ 192 (264)
T cd01574 116 HRTIAHVAGPEEWLSARARLAGWRAALEAAGIAPPPV--LEGDWSAESGYRAGRELLRE-GDPTAVFAANDQMALGVLRA 192 (264)
T ss_pred CCEEEEEecCCccchHHHHHHHHHHHHHHCCCCccee--eecCCCHHHHHHHHHHHHhC-CCCcEEEEcCcHHHHHHHHH
Confidence 356776644322 123566677777665321 11111001 1223333422 33788888887666667777
Q ss_pred HHHcCC---CCcEEEEeChh
Q 024773 121 WKEAGT---PNVRIGVVGAG 137 (262)
Q Consensus 121 l~~~~~---~~~~i~aVG~~ 137 (262)
+.+.+. .++.|++.+..
T Consensus 193 ~~~~g~~ip~~i~ii~~d~~ 212 (264)
T cd01574 193 LHELGLRVPDDVSVVGFDDI 212 (264)
T ss_pred HHHcCCCCccceEEecccCc
Confidence 777764 36677777753
No 483
>TIGR02026 BchE magnesium-protoporphyrin IX monomethyl ester anaerobic oxidative cyclase. This model respresents the cobalamin-dependent oxidative cyclase responsible for forming the distinctive E-ring of the chlorin ring system under anaerobic conditions. This step is essential in the biosynthesis of both bacteriochlorophyll and chlorophyll under anaerobic conditions (a separate enzyme, AcsF, acts under aerobic conditions). This model identifies two clades of sequences, one from photosynthetic, non-cyanobacterial bacteria and another including Synechocystis and several non-photosynthetic bacteria. The function of the Synechocystis gene is supported by gene clustering with other photosynthetic genes, so the purpose of the gene in the non-photosynthetic bacteria is uncertain. Note that homologs of this gene are not found in plants which rely solely on the aerobic cyclase.
Probab=35.64 E-value=2.9e+02 Score=26.55 Aligned_cols=111 Identities=19% Similarity=0.084 Sum_probs=0.0
Q ss_pred CCCChHHHHHHHHhCC-CcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeC----HHHHHHHHHHHHHcCCCCcEEE
Q 024773 58 ERGKNGKLIKALAKHR-IDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITS----PEAGSVFLEAWKEAGTPNVRIG 132 (262)
Q Consensus 58 ~~~~~~~l~~~L~~~G-~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS----~~aV~~f~~~l~~~~~~~~~i~ 132 (262)
+...-..++..|++.| .+|..+-...-.. +.+.+.+.+ ....+|.|.||+ ...+..+.+.+++.. ++.+|+
T Consensus 21 pPlgl~~lAa~L~~~G~~~V~iiD~~~~~~--~~~~~~~~l-~~~~pdvVgis~~t~~~~~a~~~~~~~k~~~-P~~~iV 96 (497)
T TIGR02026 21 PPLWVAYIGGALLDAGYHDVTFLDAMTGPL--TDEKLVERL-RAHCPDLVLITAITPAIYIACETLKFARERL-PNAIIV 96 (497)
T ss_pred CCHHHHHHHHHHHhcCCcceEEecccccCC--CHHHHHHHH-HhcCcCEEEEecCcccHHHHHHHHHHHHHHC-CCCEEE
Q ss_pred EeChhHHHHHHHhhhhcCCCCceeecCCC-CCHHHHHHHhhh
Q 024773 133 VVGAGTASIFEEVIQSSKCSLDVAFSPSK-ATGKILASELPK 173 (262)
Q Consensus 133 aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~-~t~e~L~~~l~~ 173 (262)
+=|+.....-++. .....+++..+..+. .+...|++.+.+
T Consensus 97 ~GG~h~t~~~~~~-l~~~p~vD~Vv~GEGE~~~~~Ll~~l~~ 137 (497)
T TIGR02026 97 LGGIHPTFMFHQV-LTEAPWIDFIVRGEGEETVVKLIAALEN 137 (497)
T ss_pred EcCCCcCcCHHHH-HhcCCCccEEEeCCcHHHHHHHHHHHHc
No 484
>PRK09526 lacI lac repressor; Reviewed
Probab=35.36 E-value=94 Score=27.51 Aligned_cols=37 Identities=14% Similarity=0.135 Sum_probs=24.1
Q ss_pred CCccEEEEeCHHHHHHHHHHHHHcCC---CCcEEEEeChh
Q 024773 101 TIFDWIIITSPEAGSVFLEAWKEAGT---PNVRIGVVGAG 137 (262)
Q Consensus 101 ~~~d~IiFTS~~aV~~f~~~l~~~~~---~~~~i~aVG~~ 137 (262)
..+++|+.++-.....+++.+.+.+. +++.|+..+..
T Consensus 239 ~~~~ai~~~~d~~A~g~~~al~~~g~~vP~disvig~d~~ 278 (342)
T PRK09526 239 PVPSAILVANDQMALGVLRALHESGLRVPGQISVIGYDDT 278 (342)
T ss_pred CCCcEEEEcCcHHHHHHHHHHHHcCCCCCCceEEEeeCCC
Confidence 35677777777666667777776664 35666666653
No 485
>PRK08105 flavodoxin; Provisional
Probab=35.33 E-value=1.8e+02 Score=22.98 Aligned_cols=64 Identities=16% Similarity=0.131 Sum_probs=33.9
Q ss_pred HHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCC-CccEEEEeCHH-------HHHHHHHHHHHc--CCCCcEEE
Q 024773 63 GKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADT-IFDWIIITSPE-------AGSVFLEAWKEA--GTPNVRIG 132 (262)
Q Consensus 63 ~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~-~~d~IiFTS~~-------aV~~f~~~l~~~--~~~~~~i~ 132 (262)
+.+.+.|.+.|+++..+++..... + ... .--+|++||.. .+..|+..+.+. ...+++++
T Consensus 20 ~~l~~~l~~~g~~~~~~~~~~~~~----------~-~~~~~~~vi~~~sT~G~Ge~p~~~~~f~~~l~~~~~~l~~~~~a 88 (149)
T PRK08105 20 EEAEAILTAQGHEVTLFEDPELSD----------W-QPYQDELVLVVTSTTGQGDLPDSIVPLFQALKDTAGYQPNLRYG 88 (149)
T ss_pred HHHHHHHHhCCCceEEechhhCCc----------h-hcccCCeEEEEECCCCCCCCChhHHHHHHHHHhcCcccCCCEEE
Confidence 455567777899887776533211 1 112 22466666654 245566666654 33445544
Q ss_pred --EeChh
Q 024773 133 --VVGAG 137 (262)
Q Consensus 133 --aVG~~ 137 (262)
..|.+
T Consensus 89 vfGlGds 95 (149)
T PRK08105 89 VIALGDS 95 (149)
T ss_pred EEeeecC
Confidence 44544
No 486
>PRK00087 4-hydroxy-3-methylbut-2-enyl diphosphate reductase/S1 RNA-binding domain protein; Reviewed
Probab=35.29 E-value=3.5e+02 Score=27.10 Aligned_cols=170 Identities=16% Similarity=0.130 Sum_probs=84.0
Q ss_pred CCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCHHHHHHHHHHHHHcCCC--
Q 024773 50 NPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSPEAGSVFLEAWKEAGTP-- 127 (262)
Q Consensus 50 g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~~aV~~f~~~l~~~~~~-- 127 (262)
+.+|.+..+--.+....+.|+++|..++.- . .++.+-+.+||++=-.-....+.+.+.+..
T Consensus 30 ~~~i~~lg~ivHN~~vv~~l~~~Gv~~v~~----------~-------~~~~~~~~vii~aHG~~~~~~~~~~~~~~~vi 92 (647)
T PRK00087 30 KGKIYTLGPLIHNNQVVEKLKKKGIKPIED----------I-------DELNEGDTIIIRSHGVPPEVLEELKDKGLKVI 92 (647)
T ss_pred CCCEEEeCCCcCCHHHHHHHHHCCCEEeCC----------H-------hhCCCCCEEEEeCCCCCHHHHHHHHHCCCeEE
Confidence 567777777777888999999999887721 1 112223344444433333344444444431
Q ss_pred --CcEEEEeChhHHHHHHHhhhhcCCCCceeecCCC-------------------CCHHHHHHHhhhCCCCccEEEEEc-
Q 024773 128 --NVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSK-------------------ATGKILASELPKNGKKKCTVLYPA- 185 (262)
Q Consensus 128 --~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~-------------------~t~e~L~~~l~~~~~~g~~vL~~~- 185 (262)
.++++.--...++.+.+. |..+.+..+. .+.+.+ +.+. ..+++.++.
T Consensus 93 DaTCP~V~k~~~~~~~~~~~------g~~ivi~G~~~HpEv~g~~g~~~~~~~vv~~~~~~-~~~~----~~~~~~~~~Q 161 (647)
T PRK00087 93 DATCPFVKNIQKLAKKYYEE------GYQIVIVGDKNHPEVIGINGWCNNSAIIVEDGEEA-EKLP----FDKKICVVSQ 161 (647)
T ss_pred ECCCcCchHHHHHHHHHHhC------CCEEEEEeCCCCCeeeeeccccCCCEEEECCHHHH-hhCC----CCCCEEEEEc
Confidence 333333333333333333 4444333211 122222 1221 123444333
Q ss_pred cCCChh---hHHHHHHhCCCeeeEEeeeccccCCCCh--HHHHHHcCCCCEEEEeC---HHHHHHHHHHhccc
Q 024773 186 SAKASN---EIEEGLSNRGFEVVRLNTYTTEPVHHVD--QTVLKQALSIPVVAVAS---PSAVRSWVNLISDT 250 (262)
Q Consensus 186 g~~~~~---~L~~~L~~~G~~v~~i~vY~~~~~~~~~--~~~~~~l~~~d~ivFtS---~s~~~~~~~~~~~~ 250 (262)
-....+ .+.+.|+++ ..++.++.|.+..... +++.+.....|++++-- ++.-.++++.+.+.
T Consensus 162 TT~~~~~~~~~~~~l~~~---~~~~~~~~tiC~at~~Rq~a~~~la~~~d~~~vvGg~~SsNt~~L~~i~~~~ 231 (647)
T PRK00087 162 TTEKQENFEKVLKELKKK---GKEVKVFNTICNATEVRQEAAEKLAKKVDVMIVVGGKNSSNTTKLYEICKSN 231 (647)
T ss_pred CCCcHHHHHHHHHHHHHh---CCCcccCCCcchhhhhHHHHHHHHHhhCCEEEEECCCCCccHHHHHHHHHHH
Confidence 222222 355566654 3455667777766543 22444345889888752 44556677776543
No 487
>PF13344 Hydrolase_6: Haloacid dehalogenase-like hydrolase; PDB: 2HO4_B 1YV9_A 1WVI_B 3EPR_A 2P27_A 2OYC_A 2CFT_A 2P69_A 2CFS_A 2CFR_A ....
Probab=35.27 E-value=71 Score=23.55 Aligned_cols=40 Identities=15% Similarity=0.181 Sum_probs=28.8
Q ss_pred CCHHHHHHHhhhCCCCccEEEEEccCCC--hhhHHHHHHhCCCee
Q 024773 162 ATGKILASELPKNGKKKCTVLYPASAKA--SNEIEEGLSNRGFEV 204 (262)
Q Consensus 162 ~t~e~L~~~l~~~~~~g~~vL~~~g~~~--~~~L~~~L~~~G~~v 204 (262)
+.+.+.++.|.+. |+++.+++-+.. +..+.+.|++.|+.+
T Consensus 17 pga~e~l~~L~~~---g~~~~~lTNns~~s~~~~~~~L~~~Gi~~ 58 (101)
T PF13344_consen 17 PGAVEALDALRER---GKPVVFLTNNSSRSREEYAKKLKKLGIPV 58 (101)
T ss_dssp TTHHHHHHHHHHT---TSEEEEEES-SSS-HHHHHHHHHHTTTT-
T ss_pred cCHHHHHHHHHHc---CCCEEEEeCCCCCCHHHHHHHHHhcCcCC
Confidence 4566667777663 578998887754 569999999999876
No 488
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=35.26 E-value=3.2e+02 Score=24.84 Aligned_cols=138 Identities=16% Similarity=0.124 Sum_probs=74.2
Q ss_pred CCccEEEEeC-HHHHHHHHHHHHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCce-ee--cCC-CCCHHHHHHHhhhCC
Q 024773 101 TIFDWIIITS-PEAGSVFLEAWKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDV-AF--SPS-KATGKILASELPKNG 175 (262)
Q Consensus 101 ~~~d~IiFTS-~~aV~~f~~~l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~-~~--~p~-~~t~e~L~~~l~~~~ 175 (262)
...+.|+=.. +.........+.+. ++..+..+..+.. +... |... .+ .|. ...+..+++.+.+..
T Consensus 77 ~~V~~vvG~~~S~~~~a~~~v~~~~---~i~~i~p~st~~~-~~~~------~~~~~vfr~~~~~~~q~~~~~~~l~~~~ 146 (366)
T COG0683 77 DGVDAVVGPTTSGVALAASPVAEEA---GVPLISPSATAPQ-LTGR------GLKPNVFRTGPTDNQQAAAAADYLVKKG 146 (366)
T ss_pred cCceEEEEeccCcccccchhhHhhc---CceEEeecCCCCc-cccc------ccccceEEecCChHHHHHHHHHHHHHhc
Confidence 4566666433 22333333333332 4445555433333 5555 5542 12 232 244566777777655
Q ss_pred CCccEEEEEccCC-----ChhhHHHHHHhCCCeeeEEeeeccccCCCChHHHHHHc--CCCCEEEEeC-HHHHHHHHHHh
Q 024773 176 KKKCTVLYPASAK-----ASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQTVLKQA--LSIPVVAVAS-PSAVRSWVNLI 247 (262)
Q Consensus 176 ~~g~~vL~~~g~~-----~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~~~~~~l--~~~d~ivFtS-~s~~~~~~~~~ 247 (262)
.+ +++.++..+. -.+.+.+.|++.|.++..-..|...... ...+...+ .+.|+|++++ ....-.|++.+
T Consensus 147 ~~-k~v~ii~~~~~yg~~~~~~~~~~l~~~G~~~~~~~~~~~~~~~--~~~~v~~i~~~~~d~v~~~~~~~~~~~~~r~~ 223 (366)
T COG0683 147 GK-KRVAIIGDDYAYGEGLADAFKAALKALGGEVVVEEVYAPGDTD--FSALVAKIKAAGPDAVLVGGYGPDAALFLRQA 223 (366)
T ss_pred CC-cEEEEEeCCCCcchhHHHHHHHHHHhCCCeEEEEEeeCCCCCC--hHHHHHHHHhcCCCEEEECCCCccchHHHHHH
Confidence 33 5777776654 3778899999999974444666655544 22333333 2788666654 34455566666
Q ss_pred cccC
Q 024773 248 SDTE 251 (262)
Q Consensus 248 ~~~~ 251 (262)
.+.+
T Consensus 224 ~~~G 227 (366)
T COG0683 224 REQG 227 (366)
T ss_pred HHcC
Confidence 5543
No 489
>cd06533 Glyco_transf_WecG_TagA The glycosyltransferase WecG/TagA superfamily contains Escherichia coli WecG, Bacillus subtilis TagA and related proteins. E. coli WecG is believed to be a UDP-N-acetyl-D-mannosaminuronic acid transferase, and is involved in enterobacterial common antigen (eca) synthesis. B. subtilis TagA plays a key role in the Wall Teichoic Acid (WTA) biosynthetic pathway, catalyzing the transfer of N-acetylmannosamine to the C4 hydroxyl of a membrane-anchored N-acetylglucosaminyl diphospholipid to make ManNAc-beta-(1,4)-GlcNAc-pp-undecaprenyl. This is the first committed step in this pathway. Also included in this group is Xanthomonas campestris pv. campestris GumM, a glycosyltransferase participating in the biosynthesis of the exopolysaccharide xanthan.
Probab=35.03 E-value=2.4e+02 Score=22.79 Aligned_cols=120 Identities=14% Similarity=0.145 Sum_probs=63.4
Q ss_pred EEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC-CCccEEEEEccCCC-hhhHHHHHHhCCCeeeEE
Q 024773 130 RIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG-KKKCTVLYPASAKA-SNEIEEGLSNRGFEVVRL 207 (262)
Q Consensus 130 ~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~-~~g~~vL~~~g~~~-~~~L~~~L~~~G~~v~~i 207 (262)
-+++=|.....+++.. |.. .++..+.-+|+..+.+.. .++.++.++.+... .+.+.+.|++.--.+ .+
T Consensus 6 ~~~~DG~~l~~~~~~~------~~~---~~~r~~g~dl~~~ll~~~~~~~~~v~llG~~~~~~~~~~~~l~~~yp~l-~i 75 (171)
T cd06533 6 LVLPDGIGVVWAARLL------GGP---LPERVTGSDLMPALLELAAQKGLRVFLLGAKPEVLEKAAERLRARYPGL-KI 75 (171)
T ss_pred EEecCcHHHHHHHHHc------CCC---CCcccCcHHHHHHHHHHHHHcCCeEEEECCCHHHHHHHHHHHHHHCCCc-EE
Confidence 3556666667777766 664 344556666666655442 34678888877643 344444676552222 23
Q ss_pred eeeccccCCC-ChHHHHHHc--CCCCEEEE--eCHHHHHHHHHHhcccCCCCCeEEEEC
Q 024773 208 NTYTTEPVHH-VDQTVLKQA--LSIPVVAV--ASPSAVRSWVNLISDTEQWSNSVACIA 261 (262)
Q Consensus 208 ~vY~~~~~~~-~~~~~~~~l--~~~d~ivF--tS~s~~~~~~~~~~~~~~~~~~i~~IG 261 (262)
.-|..-+-.. ..+++.+.+ .+.|+|++ -+|.. |.|+....+. .....++|+|
T Consensus 76 ~g~~~g~~~~~~~~~i~~~I~~~~pdiv~vglG~PkQ-E~~~~~~~~~-l~~~v~~~vG 132 (171)
T cd06533 76 VGYHHGYFGPEEEEEIIERINASGADILFVGLGAPKQ-ELWIARHKDR-LPVPVAIGVG 132 (171)
T ss_pred EEecCCCCChhhHHHHHHHHHHcCCCEEEEECCCCHH-HHHHHHHHHH-CCCCEEEEec
Confidence 3333222222 122234444 25555544 46665 5566665543 3556677777
No 490
>TIGR01141 hisC histidinol-phosphate aminotransferase. Histidinol-phosphate aminotransferase is a pyridoxal-phosphate dependent enzyme.
Probab=34.78 E-value=3.3e+02 Score=24.17 Aligned_cols=32 Identities=25% Similarity=0.202 Sum_probs=15.9
Q ss_pred CccEEEEEccCCChhhHHHHHHhCCCeeeEEeee
Q 024773 177 KKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTY 210 (262)
Q Consensus 177 ~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY 210 (262)
+|.+|+++...- ......++..|+++..+.+.
T Consensus 94 ~gd~v~~~~p~y--~~~~~~~~~~g~~~~~~~~~ 125 (346)
T TIGR01141 94 PGDAVLVPPPTY--SMYEISAKIHGAEVVKVPLD 125 (346)
T ss_pred CCCEEEEcCCCH--HHHHHHHHHcCCeEEEeccC
Confidence 455666655422 23333445566666555553
No 491
>COG5426 Uncharacterized membrane protein [Function unknown]
Probab=34.77 E-value=33 Score=29.07 Aligned_cols=47 Identities=17% Similarity=0.280 Sum_probs=34.2
Q ss_pred CCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeC
Q 024773 59 RGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITS 110 (262)
Q Consensus 59 ~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS 110 (262)
..+++.|.+.|+.-++++.++|.-+.+.. +.+.+..+..||+||+..
T Consensus 31 ~~GAd~Ll~~Lr~g~~dv~yMpAH~~q~~-----FPqtme~L~~YDaivlSD 77 (254)
T COG5426 31 HEGADPLLKALRGGEYDVTYMPAHDAQEK-----FPQTMEGLDAYDAIVLSD 77 (254)
T ss_pred ccCchHHHHHHhCCCcceEEechHHHHHh-----cchhhhhhcccceEEEee
Confidence 35788999999999999999998665421 112334568899998864
No 492
>PRK13479 2-aminoethylphosphonate--pyruvate transaminase; Provisional
Probab=34.61 E-value=2e+02 Score=25.84 Aligned_cols=62 Identities=16% Similarity=0.212 Sum_probs=39.4
Q ss_pred CCCeEEEeCCCCChHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcCCCccEEEEeCH
Q 024773 49 SNPKVVVTRERGKNGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNADTIFDWIIITSP 111 (262)
Q Consensus 49 ~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l~~~d~IiFTS~ 111 (262)
.|.+|+++.+..-...+....+.+|+++..+|+-.. ...+.+.+++.+..-.+.+.+.++++
T Consensus 79 ~~~~vlv~~~~~~~~~~~~~~~~~g~~~~~i~~~~~-~~~d~~~l~~~l~~~~~~~~v~~~~~ 140 (368)
T PRK13479 79 RDGKVLVPDNGAYGARIAQIAEYLGIAHVVLDTGED-EPPDAAEVEAALAADPRITHVALVHC 140 (368)
T ss_pred CCCeEEEEeCCchHHHHHHHHHHcCCcEEEEECCCC-CCCCHHHHHHHHHhCCCCcEEEEEcc
Confidence 466788876654444456777889999999886421 11345666666643345667777776
No 493
>PRK06719 precorrin-2 dehydrogenase; Validated
Probab=34.55 E-value=51 Score=26.51 Aligned_cols=34 Identities=12% Similarity=-0.072 Sum_probs=28.9
Q ss_pred CCCCCCeEEEeCCCCChHHHHHHHHhCCCcEEEe
Q 024773 46 ASNSNPKVVVTRERGKNGKLIKALAKHRIDCLEL 79 (262)
Q Consensus 46 ~~l~g~~VLitR~~~~~~~l~~~L~~~G~~v~~~ 79 (262)
..+.|++|+|.....-+....+.|.+.|++|..+
T Consensus 9 l~l~~~~vlVvGGG~va~rka~~Ll~~ga~V~VI 42 (157)
T PRK06719 9 FNLHNKVVVIIGGGKIAYRKASGLKDTGAFVTVV 42 (157)
T ss_pred EEcCCCEEEEECCCHHHHHHHHHHHhCCCEEEEE
Confidence 4578999999988877788888998999998865
No 494
>PRK12827 short chain dehydrogenase; Provisional
Probab=34.49 E-value=2.7e+02 Score=23.04 Aligned_cols=89 Identities=17% Similarity=0.162 Sum_probs=47.6
Q ss_pred CCCCeEEEeCCCCC-hHHHHHHHHhCCCcEEEeceEEeeeCCCchHHHHHHhcC-CCccEE--EEeCHHHHHHHHHHHHH
Q 024773 48 NSNPKVVVTRERGK-NGKLIKALAKHRIDCLELPLIQHAQGPDTDRLSSVLNAD-TIFDWI--IITSPEAGSVFLEAWKE 123 (262)
Q Consensus 48 l~g~~VLitR~~~~-~~~l~~~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~~l-~~~d~I--iFTS~~aV~~f~~~l~~ 123 (262)
+.+++||||..... ...+++.|.++|+++..+-..........+++...+... ..+.++ =++...+++..++.+.+
T Consensus 4 ~~~~~ilItGasg~iG~~la~~l~~~g~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dl~~~~~~~~~~~~~~~ 83 (249)
T PRK12827 4 LDSRRVLITGGSGGLGRAIAVRLAADGADVIVLDIHPMRGRAEADAVAAGIEAAGGKALGLAFDVRDFAATRAALDAGVE 83 (249)
T ss_pred cCCCEEEEECCCChHHHHHHHHHHHCCCeEEEEcCcccccHHHHHHHHHHHHhcCCcEEEEEccCCCHHHHHHHHHHHHH
Confidence 56889999987654 467899999999987654322111111111222222221 122222 23667788777765544
Q ss_pred c-CCCCcEEEEeCh
Q 024773 124 A-GTPNVRIGVVGA 136 (262)
Q Consensus 124 ~-~~~~~~i~aVG~ 136 (262)
. +.-+.-|.+.|.
T Consensus 84 ~~~~~d~vi~~ag~ 97 (249)
T PRK12827 84 EFGRLDILVNNAGI 97 (249)
T ss_pred HhCCCCEEEECCCC
Confidence 3 222445555554
No 495
>PF02401 LYTB: LytB protein; InterPro: IPR003451 Terpenes are among the largest groups of natural products and include compounds such as vitamins, cholesterol and carotenoids. The biosynthesis of all terpenoids begins with one or both of the two C5 precursors of the pathway: isopentenyl diphosphate (IPP) and dimethylallyl diphosphate (DMAPP). In animals, fungi, and certain bacteria, the synthesis of IPP and DMAPP occurs via the well-known mevalonate pathway, however, a second, nonmevalonate terpenoid pathway has been identified in many eubacteria, algae and the chloroplasts of higher plants []. LytB(IspH) catalyses the conversion of 1-hydroy-2-methyl-2-(E)-butenyl 4-diphosphate into IPP and DMAPP in this second pathway The enzyme appears to be responsible for a branch-step in the nonmevalonate pathway, in that IPP and DMAPP are produced in parallel from a single precursor although the exact mechanism of this is not currently fully understood []. Escherichia coli LytB protein had been found to regulate the activity of RelA (guanosine 3',5'-bispyrophosphate synthetase I), which in turn controls the level of a regulatory metabolite. It is involved in penicillin tolerance and the stringent response [].; GO: 0019288 isopentenyl diphosphate biosynthetic process, mevalonate-independent pathway, 0055114 oxidation-reduction process; PDB: 3DNF_B 3SZL_B 3KE8_B 3KEF_B 3SZU_A 3KEL_A 3F7T_B 3KE9_B 3KEM_B 3T0G_A ....
Probab=34.49 E-value=1.9e+02 Score=25.82 Aligned_cols=74 Identities=19% Similarity=0.170 Sum_probs=45.1
Q ss_pred HHHHHHHHHHHcCCC-CcEEEEeCh-----hHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCCCCccEEEEEcc
Q 024773 113 AGSVFLEAWKEAGTP-NVRIGVVGA-----GTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNGKKKCTVLYPAS 186 (262)
Q Consensus 113 aV~~f~~~l~~~~~~-~~~i~aVG~-----~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~~~g~~vL~~~g 186 (262)
+|+..++...+.-.. +-++|+.|+ ...+.|++. |+.+.-.. +.+ +....+++|+
T Consensus 12 GV~rAi~~a~~~~~~~~~~vy~lG~iIHN~~vv~~L~~~------Gv~~v~~~---------~~~-----~~g~~ViirA 71 (281)
T PF02401_consen 12 GVKRAIEIAEEALEEYPGPVYTLGPIIHNPQVVERLEKR------GVKVVDDI---------DEV-----PEGDTVIIRA 71 (281)
T ss_dssp HHHHHHHHHHHHCCCHSS-EEECS-SSS-HHHHHHHHHC------TEEEESSG---------CGS------TTEEEEE-T
T ss_pred cHHHHHHHHHHHHHhcCCCEEEecCcccCHHHHHHHHHC------CCEEecCc---------ccc-----CCCCEEEEeC
Confidence 455555555543221 249999996 577899999 99752211 112 1356788999
Q ss_pred CCChhhHHHHHHhCCCeeeE
Q 024773 187 AKASNEIEEGLSNRGFEVVR 206 (262)
Q Consensus 187 ~~~~~~L~~~L~~~G~~v~~ 206 (262)
-+..+...+.|+++|..|..
T Consensus 72 HGv~~~~~~~l~~~g~~viD 91 (281)
T PF02401_consen 72 HGVPPEVYEELKERGLEVID 91 (281)
T ss_dssp T---HHHHHHHHHTTEEEEE
T ss_pred CCCCHHHHHHHHHcCCEEEE
Confidence 99999999999999977644
No 496
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=34.35 E-value=4e+02 Score=26.04 Aligned_cols=19 Identities=21% Similarity=0.118 Sum_probs=12.3
Q ss_pred CCCEEEEeCHHHHHHHHHH
Q 024773 228 SIPVVAVASPSAVRSWVNL 246 (262)
Q Consensus 228 ~~d~ivFtS~s~~~~~~~~ 246 (262)
+...|..+|..+++.-++.
T Consensus 163 gl~~ili~s~esi~~a~~~ 181 (526)
T TIGR02329 163 GLHGVFLYSADSVRQAFDD 181 (526)
T ss_pred CCceEEEecHHHHHHHHHH
Confidence 5677778887666554443
No 497
>TIGR01754 flav_RNR ribonucleotide reductase-associated flavodoxin, putative. This model represents a family of proteins found immediately downstream of ribonucleotide reductase genes in Xyella fastidiosa and some Gram-positive bacteria. It appears to be a highly divergent flavodoxin of the short chain type, more like the flavodoxins of the sulfate-reducing genus Desulfovibrio than like the NifF flavodoxins associated with nitrogen fixation.
Probab=34.29 E-value=1.1e+02 Score=23.64 Aligned_cols=33 Identities=9% Similarity=0.183 Sum_probs=20.9
Q ss_pred CCCccEEEEeCHH--------HHHHHHHHHHHcCCCCcEEEEeC
Q 024773 100 DTIFDWIIITSPE--------AGSVFLEAWKEAGTPNVRIGVVG 135 (262)
Q Consensus 100 l~~~d~IiFTS~~--------aV~~f~~~l~~~~~~~~~i~aVG 135 (262)
+.+||.|+|-|+. .+..|++.+.. .+.+++++|
T Consensus 48 ~~~~d~iilgs~t~~~g~~p~~~~~fl~~l~~---~~k~~avfg 88 (140)
T TIGR01754 48 PENYDLVFLGTWTWERGRTPDEMKDFIAELGY---KPSNVAIFG 88 (140)
T ss_pred hhhCCEEEEEcCeeCCCcCCHHHHHHHHHhcc---cCCEEEEEE
Confidence 4578999998873 45666655433 345666555
No 498
>cd08178 AAD_C C-terminal alcohol dehydrogenase domain of the acetaldehyde dehydrogenase-alcohol dehydrogenase bifunctional two-domain protein (AAD). Alcohol dehydrogenase domain located on the C-terminal of a bifunctional two-domain protein. The N-terminal of the protein contains an acetaldehyde-CoA dehydrogenase domain. This protein is involved in pyruvate metabolism. Pyruvate is converted to acetyl-CoA and formate by pyruvate formate-lysase (PFL). Under anaerobic condition, acetyl-CoA is reduced to acetaldehyde and ethanol by this two-domain protein. Acetyl-CoA is first converted into an enzyme-bound thiohemiacetal by the N-terminal acetaldehyde dehydrogenase domain. The enzyme-bound thiohemiacetal is subsequently reduced by the C-terminal NAD+-dependent alcohol dehydrogenase domain. In E. coli, this protein is called AdhE and was shown pyruvate formate-lysase (PFL) deactivase activity, which is involved in the inactivation of PFL, a key enzyme in anaerobic metabolism. In Escherichi
Probab=34.27 E-value=56 Score=30.48 Aligned_cols=54 Identities=11% Similarity=0.105 Sum_probs=32.7
Q ss_pred ccEEEEEccCC-----ChhhHHHHHHhCCCeeeEEeeeccccCCCChH---HHHHHc--CCCCEEEE
Q 024773 178 KCTVLYPASAK-----ASNEIEEGLSNRGFEVVRLNTYTTEPVHHVDQ---TVLKQA--LSIPVVAV 234 (262)
Q Consensus 178 g~~vL~~~g~~-----~~~~L~~~L~~~G~~v~~i~vY~~~~~~~~~~---~~~~~l--~~~d~ivF 234 (262)
.+|+|++++.. ..+.+.+.|++.|+.+ .+|.-...+...+ +..+.+ .++|+|+=
T Consensus 21 ~~k~liVtd~~~~~~g~~~~v~~~L~~~gi~~---~~f~~v~~~p~~~~v~~~~~~~~~~~~D~IIa 84 (398)
T cd08178 21 KKRAFIVTDRFMVKLGYVDKVIDVLKRRGVET---EVFSDVEPDPSLETVRKGLELMNSFKPDTIIA 84 (398)
T ss_pred CCeEEEEcChhHHhCccHHHHHHHHHHCCCeE---EEecCCCCCcCHHHHHHHHHHHHhcCCCEEEE
Confidence 37899888754 2345788899888765 3555444333322 333333 37898883
No 499
>PRK14194 bifunctional 5,10-methylene-tetrahydrofolate dehydrogenase/ 5,10-methylene-tetrahydrofolate cyclohydrolase; Provisional
Probab=34.21 E-value=3.5e+02 Score=24.41 Aligned_cols=163 Identities=13% Similarity=0.087 Sum_probs=85.5
Q ss_pred eEEEeCCCCChHHHHH----HHHhCCCcEEEeceEEeeeCCCchHHHHHHh---cCCCccEEEEeCHH--HHH--HHHHH
Q 024773 52 KVVVTRERGKNGKLIK----ALAKHRIDCLELPLIQHAQGPDTDRLSSVLN---ADTIFDWIIITSPE--AGS--VFLEA 120 (262)
Q Consensus 52 ~VLitR~~~~~~~l~~----~L~~~G~~v~~~P~~~~~~~~~~~~l~~~l~---~l~~~d~IiFTS~~--aV~--~f~~~ 120 (262)
-++....+..+..+.+ ..++.|+++..+-+-+. ...+++.+.+. +....|.|++--|- .++ ..++.
T Consensus 37 aiI~vg~d~as~~Yv~~k~k~a~~~Gi~~~~~~l~~~---~t~~~l~~~I~~lN~D~~V~GIlvqlPLP~~i~~~~i~~~ 113 (301)
T PRK14194 37 AVILVGNDPASQVYVRNKILRAEEAGIRSLEHRLPAD---TSQARLLALIAELNADPSVNGILLQLPLPAHIDEARVLQA 113 (301)
T ss_pred EEEEeCCChhHHHHHHHHHHHHHHcCCEEEEEECCCC---CCHHHHHHHHHHHcCCCCCCeEEEeCCCCCCCCHHHHHhc
Confidence 3444444444443433 45567887765543211 12334444443 44678999998773 222 22222
Q ss_pred HHHcCCCCcEEEEeChhHHHHHHHhhhhcCCCCceeecCCCCCHHHHHHHhhhCC--CCccEEEEEccC-CChhhHHHHH
Q 024773 121 WKEAGTPNVRIGVVGAGTASIFEEVIQSSKCSLDVAFSPSKATGKILASELPKNG--KKKCTVLYPASA-KASNEIEEGL 197 (262)
Q Consensus 121 l~~~~~~~~~i~aVG~~Ta~~L~~~~~~~~~G~~~~~~p~~~t~e~L~~~l~~~~--~~g~~vL~~~g~-~~~~~L~~~L 197 (262)
+.. .+.+=++.+.-...|- . |-. .+.| -|+.+.++.|..+. ..|+++.++.-. .-..-+...|
T Consensus 114 I~p----~KDVDGl~~~N~g~l~-~------~~~-~~~P--cTp~aii~lL~~~~i~l~Gk~V~vIG~s~ivG~PmA~~L 179 (301)
T PRK14194 114 INP----LKDVDGFHSENVGGLS-Q------GRD-VLTP--CTPSGCLRLLEDTCGDLTGKHAVVIGRSNIVGKPMAALL 179 (301)
T ss_pred cCc----hhccCccChhhhhHHh-c------CCC-CCCC--CcHHHHHHHHHHhCCCCCCCEEEEECCCCccHHHHHHHH
Confidence 211 1222222222222221 2 322 2444 47889998887653 468898887663 5666788999
Q ss_pred HhCCCeeeEEeeeccccCCCChHHHHHHcCCCCEEEEeCHHH
Q 024773 198 SNRGFEVVRLNTYTTEPVHHVDQTVLKQALSIPVVAVASPSA 239 (262)
Q Consensus 198 ~~~G~~v~~i~vY~~~~~~~~~~~~~~~l~~~d~ivFtS~s~ 239 (262)
.++|++|+- |.+... ...+. ....|+|+-.-+..
T Consensus 180 ~~~gatVtv---~~~~t~--~l~e~---~~~ADIVIsavg~~ 213 (301)
T PRK14194 180 LQAHCSVTV---VHSRST--DAKAL---CRQADIVVAAVGRP 213 (301)
T ss_pred HHCCCEEEE---ECCCCC--CHHHH---HhcCCEEEEecCCh
Confidence 999987643 332221 22222 34778777665554
No 500
>PRK06225 aspartate aminotransferase; Provisional
Probab=34.15 E-value=3.1e+02 Score=24.82 Aligned_cols=32 Identities=22% Similarity=0.223 Sum_probs=15.4
Q ss_pred CccEEEEEccCCChhhHHHHHHhCCCeeeEEeee
Q 024773 177 KKCTVLYPASAKASNEIEEGLSNRGFEVVRLNTY 210 (262)
Q Consensus 177 ~g~~vL~~~g~~~~~~L~~~L~~~G~~v~~i~vY 210 (262)
+|++|+++...-. .....++..|+++..+.++
T Consensus 106 ~gd~vl~~~p~y~--~~~~~~~~~g~~~~~v~~~ 137 (380)
T PRK06225 106 PGDNAVTPDPGYL--IIDNFASRFGAEVIEVPIY 137 (380)
T ss_pred CCCEEEEcCCCCc--chHHHHHHhCceEEeeccc
Confidence 4455655554322 2233445556665555543
Done!